Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 83 of 109
Found at i:16761939 original size:26 final size:26
Alignment explanation
Indices: 16761908--16761958 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16761898 TGATCTTACA
*
16761908 AAAATTCATTATACATATTACAAGAC
1 AAAATTCATTATACATACTACAAGAC
16761934 AAAATTCATTATACATACTACAAGA
1 AAAATTCATTATACATACTACAAGA
16761959 TAACACGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATTCATTATACATACTACAAGAC
Found at i:16765470 original size:27 final size:26
Alignment explanation
Indices: 16765438--16765501 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
16765428 AATGAGTATT
16765438 AAATTTATTTAT-TTATTTAATATGT-
1 AAATTTATTTATATTA-TTAATATGTC
*
16765463 AAGTATTTTTTTATATTATTAATATGTC
1 AA--ATTTATTTATATTATTAATATGTC
16765491 AAATTTATTTA
1 AAATTTATTTA
16765502 GTTGTAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 2 0.06
26 8 0.24
27 18 0.55
28 5 0.15
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (26 bp):
AAATTTATTTATATTATTAATATGTC
Found at i:16766073 original size:81 final size:81
Alignment explanation
Indices: 16765979--16766140 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
16765969 AAATAGTTTA
16765979 ACACATTTAATAAAAACCTTTCGATGATAGTTCTTTTAATTATTTAAAATTTAATATTATTATTT
1 ACACATTTAATAAAAACCTTTCGATGATAGTTCTTTTAATTATTTAAAATTTAATATTATTATTT
16766044 ACTCTAAATTTAAAAT
66 ACTCTAAATTTAAAAT
16766060 ACACATTTAATAAAAACCTTTCGATGATAGTTCTTTTAATTATTTAAAATTTAATATTATTATTT
1 ACACATTTAATAAAAACCTTTCGATGATAGTTCTTTTAATTATTTAAAATTTAATATTATTATTT
16766125 ACTCTAAATTTAAAAT
66 ACTCTAAATTTAAAAT
16766141 TATTTAAATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.46
Consensus pattern (81 bp):
ACACATTTAATAAAAACCTTTCGATGATAGTTCTTTTAATTATTTAAAATTTAATATTATTATTT
ACTCTAAATTTAAAAT
Found at i:16768656 original size:11 final size:10
Alignment explanation
Indices: 16768629--16768701 Score: 53
Period size: 11 Copynumber: 7.0 Consensus size: 10
16768619 GGGGAATTAT
*
16768629 TATAAAAAAA
1 TATAAAATAA
16768639 T-TAAAAATATA
1 TAT-AAAATA-A
16768650 TATAAAA-AA
1 TATAAAATAA
*
16768659 GATAATAATAA
1 TATAA-AATAA
16768670 -ATAATAATAA
1 TATAA-AATAA
16768680 TAATAAAATAA
1 T-ATAAAATAA
16768691 TAGTAAAATAA
1 TA-TAAAATAA
16768702 ATCCTAAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
9 6 0.11
10 20 0.38
11 22 0.42
12 5 0.09
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
TATAAAATAA
Found at i:16768668 original size:3 final size:3
Alignment explanation
Indices: 16768660--16768701 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
16768650 TATAAAAAAG
*
16768660 ATA ATA ATAA ATA ATA ATA ATA ATA A-A ATA ATA GTA A-A ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16768702 ATCCTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:16768681 original size:16 final size:16
Alignment explanation
Indices: 16768660--16768703 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
16768650 TATAAAAAAG
16768660 ATAATAATAAATAATA
1 ATAATAATAAATAATA
16768676 ATAATAATAAAATAATA
1 ATAATAAT-AAATAATA
*
16768693 GTAA-AATAAAT
1 ATAATAATAAAT
16768704 CCTAAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 11 0.42
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAATAATAAATAATA
Found at i:16768711 original size:12 final size:13
Alignment explanation
Indices: 16768694--16768956 Score: 141
Period size: 16 Copynumber: 18.3 Consensus size: 13
16768684 AAAATAATAG
*
16768694 TAAAAT-AAATCC
1 TAAAATCAAACCC
16768706 TAAAATCAAACCC
1 TAAAATCAAACCC
* * *
16768719 TAAACCCTCCGAACAC
1 TAAA--AT-CAAACCC
16768735 TAAAATCAAACCC
1 TAAAATCAAACCC
* *
16768748 CAAATCTCCAAACCC
1 TAAA-AT-CAAACCC
16768763 TAAAATCAAACCC
1 TAAAATCAAACCC
* *
16768776 CAAACCCTCCAAACCC
1 TAAA--AT-CAAACCC
16768792 TAAAATCTCCAAACCC
1 TAAAA--T-CAAACCC
16768808 TAAAATCAAACCC
1 TAAAATCAAACCC
*
16768821 TAAACCCTCCAAACCC
1 TAAA--AT-CAAACCC
16768837 TAAAATCAAACCC
1 TAAAATCAAACCC
*
16768850 CAAAACCTCCAAACCC
1 TAAAA--T-CAAACCC
16768866 TAAAATCAAACCC
1 TAAAATCAAACCC
* *
16768879 CAAAACCTCCAAATCC
1 TAAAA--T-CAAACCC
*
16768895 TAAAATGAAACCC
1 TAAAATCAAACCC
*
16768908 CAAAATCTCCAAACCC
1 TAAAA--T-CAAACCC
* *
16768924 TAAAATCAATCTC
1 TAAAATCAAACCC
16768937 TAAAACATCAAAACCC
1 T-AAA-ATC-AAACCC
16768953 TAAA
1 TAAA
16768957 TCATTTAAAC
Statistics
Matches: 194, Mismatches: 31, Indels: 49
0.71 0.11 0.18
Matches are distributed among these distances:
12 6 0.03
13 75 0.39
14 11 0.06
15 22 0.11
16 80 0.41
ACGTcount: A:0.48, C:0.37, G:0.01, T:0.15
Consensus pattern (13 bp):
TAAAATCAAACCC
Found at i:16768766 original size:28 final size:29
Alignment explanation
Indices: 16768704--16768798 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
16768694 TAAAATAAAT
* *
16768704 CCTAAAATCAAACCCTAAACCCTCCGAAC
1 CCTAAAATCAAACCCCAAACCCTCCAAAC
* *
16768733 ACTAAAATCAAACCCCAAA-TCTCCAAAC
1 CCTAAAATCAAACCCCAAACCCTCCAAAC
16768761 CCTAAAATCAAACCCCAAACCCTCCAAAC
1 CCTAAAATCAAACCCCAAACCCTCCAAAC
16768790 CCTAAAATC
1 CCTAAAATC
16768799 TCCAAACCCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.42
29 34 0.58
ACGTcount: A:0.45, C:0.40, G:0.01, T:0.14
Consensus pattern (29 bp):
CCTAAAATCAAACCCCAAACCCTCCAAAC
Found at i:16768810 original size:45 final size:45
Alignment explanation
Indices: 16768741--16768930 Score: 205
Period size: 45 Copynumber: 4.3 Consensus size: 45
16768731 ACACTAAAAT
*
16768741 CAAACCC-CAAATCTCCAAACCCTAAAATCAAACCCCAAACCCTC
1 CAAACCCTAAAATCTCCAAACCCTAAAATCAAACCCCAAACCCTC
*
16768785 CAAACCCTAAAATCTCCAAACCCTAAAATCAAACCCTAAACCCTC
1 CAAACCCTAAAATCTCCAAACCCTAAAATCAAACCCCAAACCCTC
* * *
16768830 CAAACCCTAAAA--T-CAAACCCCAAAACCTCCAAACCCTAAA--AT-
1 CAAACCCTAAAATCTCCAAACCCTAAAA--T-CAAACCCCAAACCCTC
* * * * **
16768872 CAAACCCCAAAACCTCCAAATCCTAAAATGAAACCCCAAAATCTC
1 CAAACCCTAAAATCTCCAAACCCTAAAATCAAACCCCAAACCCTC
16768917 CAAACCCTAAAATC
1 CAAACCCTAAAATC
16768931 AATCTCTAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
42 31 0.25
43 3 0.02
44 10 0.08
45 80 0.65
ACGTcount: A:0.46, C:0.40, G:0.01, T:0.13
Consensus pattern (45 bp):
CAAACCCTAAAATCTCCAAACCCTAAAATCAAACCCCAAACCCTC
Found at i:16768817 original size:29 final size:29
Alignment explanation
Indices: 16768785--16768956 Score: 236
Period size: 29 Copynumber: 5.9 Consensus size: 29
16768775 CCAAACCCTC
* *
16768785 CAAACCCTAAAATCTCCAAACCCTAAAAT
1 CAAACCCCAAAACCTCCAAACCCTAAAAT
* *
16768814 CAAACCCTAAACCCTCCAAACCCTAAAAT
1 CAAACCCCAAAACCTCCAAACCCTAAAAT
16768843 CAAACCCCAAAACCTCCAAACCCTAAAAT
1 CAAACCCCAAAACCTCCAAACCCTAAAAT
*
16768872 CAAACCCCAAAACCTCCAAATCCTAAAAT
1 CAAACCCCAAAACCTCCAAACCCTAAAAT
* *
16768901 GAAACCCCAAAATCTCCAAACCCTAAAAT
1 CAAACCCCAAAACCTCCAAACCCTAAAAT
* * * * *
16768930 CAATCTCTAAAACATCAAAACCCTAAA
1 CAAACCCCAAAACCTCCAAACCCTAAA
16768957 TCATTTAAAC
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 128 1.00
ACGTcount: A:0.48, C:0.37, G:0.01, T:0.15
Consensus pattern (29 bp):
CAAACCCCAAAACCTCCAAACCCTAAAAT
Found at i:16768851 original size:74 final size:73
Alignment explanation
Indices: 16768712--16768872 Score: 250
Period size: 74 Copynumber: 2.2 Consensus size: 73
16768702 ATCCTAAAAT
** * *
16768712 CAAACCCTAAACCCTCCGAACACTAAAATCAAACCCCAAATCTCCAAACCCTAAAATCAAACCCC
1 CAAACCCTAAAATCTCCAAACACTAAAATCAAACCCCAAACCTCCAAACCCTAAAATCAAACCCC
*
16768777 AAACCCTC
66 AAAACCTC
* *
16768785 CAAACCCTAAAATCTCCAAACCCTAAAATCAAACCCTAAACCCTCCAAACCCTAAAATCAAACCC
1 CAAACCCTAAAATCTCCAAACACTAAAATCAAACCCCAAA-CCTCCAAACCCTAAAATCAAACCC
16768850 CAAAACCTC
65 CAAAACCTC
16768859 CAAACCCTAAAATC
1 CAAACCCTAAAATC
16768873 AAACCCCAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 35 0.44
74 45 0.56
ACGTcount: A:0.45, C:0.41, G:0.01, T:0.13
Consensus pattern (73 bp):
CAAACCCTAAAATCTCCAAACACTAAAATCAAACCCCAAACCTCCAAACCCTAAAATCAAACCCC
AAAACCTC
Found at i:16768899 original size:16 final size:16
Alignment explanation
Indices: 16768712--16768928 Score: 166
Period size: 16 Copynumber: 14.8 Consensus size: 16
16768702 ATCCTAAAAT
*
16768712 CAAACCCTAAACCCTC
1 CAAACCCTAAAACCTC
* *
16768728 CGAACACTAAAA--T-
1 CAAACCCTAAAACCTC
* *
16768741 CAAACCC-CAAATCTC
1 CAAACCCTAAAACCTC
16768756 CAAACCCTAAAA--T-
1 CAAACCCTAAAACCTC
* *
16768769 CAAACCCCAAACCCTC
1 CAAACCCTAAAACCTC
*
16768785 CAAACCCTAAAATCTC
1 CAAACCCTAAAACCTC
16768801 CAAACCCTAAAA--T-
1 CAAACCCTAAAACCTC
*
16768814 CAAACCCTAAACCCTC
1 CAAACCCTAAAACCTC
16768830 CAAACCCTAAAA--T-
1 CAAACCCTAAAACCTC
*
16768843 CAAACCCCAAAACCTC
1 CAAACCCTAAAACCTC
16768859 CAAACCCTAAAA--T-
1 CAAACCCTAAAACCTC
*
16768872 CAAACCCCAAAACCTC
1 CAAACCCTAAAACCTC
*
16768888 CAAATCCTAAAA--T-
1 CAAACCCTAAAACCTC
* * *
16768901 GAAACCCCAAAATCTC
1 CAAACCCTAAAACCTC
16768917 CAAACCCTAAAA
1 CAAACCCTAAAA
16768929 TCAATCTCTA
Statistics
Matches: 158, Mismatches: 24, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
12 3 0.02
13 57 0.36
14 7 0.04
15 12 0.08
16 79 0.50
ACGTcount: A:0.47, C:0.40, G:0.01, T:0.13
Consensus pattern (16 bp):
CAAACCCTAAAACCTC
Found at i:16770809 original size:2 final size:2
Alignment explanation
Indices: 16770804--16770835 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16770794 TATATTTATC
16770804 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16770836 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16774327 original size:16 final size:17
Alignment explanation
Indices: 16774306--16774338 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16774296 CTTAATCGAG
16774306 TTTTTA-TATTTAAATT
1 TTTTTATTATTTAAATT
*
16774322 TTTTTATTATTTTAATT
1 TTTTTATTATTTAAATT
16774339 AATAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTATTTAAATT
Found at i:16778810 original size:22 final size:21
Alignment explanation
Indices: 16778780--16778828 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
16778770 TTATATTAAA
16778780 TAAATTTACTTAATAAATATT
1 TAAATTTACTTAATAAATATT
*
16778801 TAAACTTTACTTATTAAATATT
1 TAAA-TTTACTTAATAAATATT
16778823 TAAATT
1 TAAATT
16778829 ATTGATAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATTTACTTAATAAATATT
Found at i:16778974 original size:2 final size:2
Alignment explanation
Indices: 16778967--16778997 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16778957 AAGTTATAAC
16778967 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16778998 CACTAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16780436 original size:44 final size:44
Alignment explanation
Indices: 16780373--16780516 Score: 163
Period size: 44 Copynumber: 3.3 Consensus size: 44
16780363 ATTGTAGATA
16780373 AGCAATTTATTTTTTTCAAAGTCT-TGGTTGCCTCTGTTTATGGG
1 AGCAATTTATTTTTTTCAAAGT-TGTGGTTGCCTCTGTTTATGGG
* *
16780417 AGCAATTTTTTTTTTTCAAAGTTGTGGTTGCCTCTGTTTA-GAGA
1 AGCAATTTATTTTTTTCAAAGTTGTGGTTGCCTCTGTTTATG-GG
* * * *
16780461 AGAAATTTA-TTTTTCCAAAAGTTGTGG-TGTCTCTGTCTA-GAGG
1 AGCAATTTATTTTTTTC-AAAGTTGTGGTTGCCTCTGTTTATG-GG
16780504 AGCAATTTATTTT
1 AGCAATTTATTTT
16780517 CAAAATTGTG
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
43 29 0.33
44 58 0.67
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (44 bp):
AGCAATTTATTTTTTTCAAAGTTGTGGTTGCCTCTGTTTATGGG
Found at i:16780496 original size:43 final size:41
Alignment explanation
Indices: 16780429--16780534 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 41
16780419 CAATTTTTTT
*
16780429 TTTTC-AAAGTTGTGGTTGCCTCTGTTTAGAGAAGAAATTTA
1 TTTTCAAAAGTTGTGG-TGCCTCTGTCTAGAGAAGAAATTTA
* * *
16780470 TTTTTCCAAAAGTTGTGGTGTCTCTGTCTAGAGGAGCAATTTA
1 -TTTT-CAAAAGTTGTGGTGCCTCTGTCTAGAGAAGAAATTTA
16780513 TTTTCAAAA-TTGTGGTGCCTCT
1 TTTTCAAAAGTTGTGGTGCCTCT
16780535 ACTTAGAGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 12 0.21
41 5 0.09
42 8 0.14
43 22 0.39
44 10 0.18
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.42
Consensus pattern (41 bp):
TTTTCAAAAGTTGTGGTGCCTCTGTCTAGAGAAGAAATTTA
Found at i:16780542 original size:40 final size:39
Alignment explanation
Indices: 16780429--16780553 Score: 119
Period size: 43 Copynumber: 3.1 Consensus size: 39
16780419 CAATTTTTTT
* * * *
16780429 TTTTCAAAGTTGTGGTTGCCTCTGTTTAGAGAAGAAATTTA
1 TTTTCAAAATTGTGG-TGCCTCT-CTTAGAGGAGCAATTTA
* *
16780470 TTTTTCCAAAAGTTGTGGTGTCTCTGTCTAGAGGAGCAATTTA
1 -TTTT-CAAAA-TTGTGGTGCCTCTCT-TAGAGGAGCAATTTA
16780513 TTTTCAAAATTGTGGTGCCTCTACTTAGAGGAGC--TTTA
1 TTTTCAAAATTGTGGTGCCTCT-CTTAGAGGAGCAATTTA
16780551 TTT
1 TTT
16780554 ATCTTTCCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
38 7 0.10
40 21 0.29
41 6 0.08
42 9 0.12
43 23 0.32
44 6 0.08
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.42
Consensus pattern (39 bp):
TTTTCAAAATTGTGGTGCCTCTCTTAGAGGAGCAATTTA
Found at i:16780628 original size:43 final size:44
Alignment explanation
Indices: 16780530--16780637 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 44
16780520 AATTGTGGTG
* *
16780530 CCTCTACTTAGAGGAGCTTTATTTATCTTTCCAAAGTCGTTGAG
1 CCTCTACTTAGAGGAGCTTTGTTTATCTTTCCAAAGTCGTTGAA
* ** *
16780574 CCTCTACTTAGAGAAGCTTTGTTTAT-TTTTTAAATTCGTTGAA
1 CCTCTACTTAGAGGAGCTTTGTTTATCTTTCCAAAGTCGTTGAA
*
16780617 CTTCTGA-TTAGAGGAGCTTTG
1 CCTCT-ACTTAGAGGAGCTTTG
16780638 ATCAAGTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 30 0.55
44 25 0.45
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (44 bp):
CCTCTACTTAGAGGAGCTTTGTTTATCTTTCCAAAGTCGTTGAA
Found at i:16780873 original size:3 final size:3
Alignment explanation
Indices: 16780831--16780945 Score: 80
Period size: 3 Copynumber: 38.3 Consensus size: 3
16780821 CCCACATTTT
* * **
16780831 TTA TT- TTA TT- TTA TTT TTA TTTA TTA -TA ATA TTA GCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
16780874 TTA TTT TTCA TTTA TTTA TTA TTA TTA TTA TTA TCA TTA TTTA TT- TTA
1 TTA TTA TT-A -TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
16780922 TTA TTA TTA TTTA TT- TTA TT- TTA T
1 TTA TTA TTA -TTA TTA TTA TTA TTA T
16780946 CTTTTTTTTC
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
2 12 0.13
3 62 0.69
4 14 0.16
5 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16780894 original size:30 final size:26
Alignment explanation
Indices: 16780835--16780935 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 26
16780825 CATTTTTTAT
* * *
16780835 TTTATT-TTATTTTTATTTATTATAA
1 TTTATTATTATTATTATTTATCATTA
** *
16780860 TATTAGCATTATTATTATTTTTCATTTA
1 T-TTATTATTATTATTATTTATCA-TTA
16780888 TTTATTATTATTATTA-TTATCATTA
1 TTTATTATTATTATTATTTATCATTA
16780913 TTTATTTTATTATTATTATTTAT
1 TTTA--TTATTATTATTATTTAT
16780936 TTTATTTTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
25 8 0.13
26 8 0.13
27 38 0.62
28 7 0.11
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTATTATTATTATTATTTATCATTA
Found at i:16781231 original size:9 final size:9
Alignment explanation
Indices: 16781217--16781242 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16781207 TTAGAAGCAA
16781217 TTTAGAAAT
1 TTTAGAAAT
16781226 TTTAGAAAT
1 TTTAGAAAT
16781235 TTTAGAAA
1 TTTAGAAA
16781243 AATTTTTCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (9 bp):
TTTAGAAAT
Found at i:16781976 original size:17 final size:17
Alignment explanation
Indices: 16781938--16781976 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16781928 TTATTTTCAA
16781938 AAAAAAAATAAAAAAAT
1 AAAAAAAATAAAAAAAT
* * *
16781955 TAAAAACATAAAAATAT
1 AAAAAAAATAAAAAAAT
16781972 AAAAA
1 AAAAA
16781977 TTTGGAATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAT
Found at i:16785593 original size:37 final size:33
Alignment explanation
Indices: 16785522--16785587 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
16785512 AATAAATTTT
16785522 ATTTATTTATTAATTTTATTATATAATAATAAA
1 ATTTATTTATTAATTTTATTATATAATAATAAA
16785555 ATTTATTTATTAA-TTTATTATATAATAA-AAA
1 ATTTATTTATTAATTTTATTATATAATAATAAA
16785586 AT
1 AT
16785588 CAAAATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 5 0.15
32 15 0.45
33 13 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
ATTTATTTATTAATTTTATTATATAATAATAAA
Found at i:16785896 original size:20 final size:20
Alignment explanation
Indices: 16785852--16785890 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16785842 AGTCTAATAA
*
16785852 TATTTTTTTCAAAATTTTAAT
1 TATTTTTTT-AAAATTCTAAT
16785873 TATTTTTTTAAAATTCTA
1 TATTTTTTTAAAATTCTA
16785891 TCTATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTTTAAAATTCTAAT
Found at i:16791398 original size:139 final size:139
Alignment explanation
Indices: 16791148--16791431 Score: 455
Period size: 139 Copynumber: 2.0 Consensus size: 139
16791138 TTCTTCATGC
*
16791148 CCTTATATTAATCTTATTACAAGAAGGAAACAAGATTTTATCTAAAGATCAATTTGATAAATGTA
1 CCTTATATTAATCTTATTACAAGAAGGAAACAAGATTTTATCTAAAGATCAATTTGATAAATATA
*
16791213 TTTATGTAGAATTACTAGATAAAGAACTTCATCCAAAACTATATGAATTAGTTGTGAAAACCATA
66 TTTATGTAGAATTACTAGATAAAGAACTTCATCCAAAACTATATGAATTAGTTGTGAAAAACATA
*
16791278 ATACATGGT
131 ATACATGGG
* * *
16791287 CCTTATATTAATCATT-TTACAAGAAGTAAACAATATTTTATCTGAAGATCAATTTGATAAATAT
1 CCTTATATTAATC-TTATTACAAGAAGGAAACAAGATTTTATCTAAAGATCAATTTGATAAATAT
* *
16791351 ATTTACT-TAGAATTACTAGATAAAGAATTTCATCCAGAACTATATGAATTAGTTGTGAAAAACA
65 ATTTA-TGTAGAATTACTAGATAAAGAACTTCATCCAAAACTATATGAATTAGTTGTGAAAAACA
*
16791415 TGATACATGGG
129 TAATACATGGG
16791426 CCTTAT
1 CCTTAT
16791432 GAAAAATACG
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
139 131 0.98
140 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (139 bp):
CCTTATATTAATCTTATTACAAGAAGGAAACAAGATTTTATCTAAAGATCAATTTGATAAATATA
TTTATGTAGAATTACTAGATAAAGAACTTCATCCAAAACTATATGAATTAGTTGTGAAAAACATA
ATACATGGG
Found at i:16795674 original size:9 final size:9
Alignment explanation
Indices: 16795660--16795689 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
16795650 AACAATTCTA
16795660 AATATATAC
1 AATATATAC
*
16795669 AATATATGC
1 AATATATAC
16795678 AATATATAC
1 AATATATAC
16795687 AAT
1 AAT
16795690 TCTAATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (9 bp):
AATATATAC
Found at i:16798285 original size:20 final size:20
Alignment explanation
Indices: 16798260--16798320 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
16798250 CACATCCAAA
*
16798260 AGTTCAAAGCTTCGCATTTG
1 AGTTCAAAGCTTCACATTTG
* *
16798280 AGTTCAAAGCTTCTCATTTA
1 AGTTCAAAGCTTCACATTTG
*
16798300 AGTTCAAAGGTTCACATTTG
1 AGTTCAAAGCTTCACATTTG
16798320 A
1 A
16798321 TAAATTTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (20 bp):
AGTTCAAAGCTTCACATTTG
Found at i:16801363 original size:9 final size:9
Alignment explanation
Indices: 16801349--16801378 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
16801339 AACAATTCTA
16801349 AATATATAC
1 AATATATAC
*
16801358 AATATATGC
1 AATATATAC
16801367 AATATATAC
1 AATATATAC
16801376 AAT
1 AAT
16801379 TCTAATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (9 bp):
AATATATAC
Found at i:16803977 original size:20 final size:20
Alignment explanation
Indices: 16803952--16804012 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
16803942 CACATCCAAA
*
16803952 AGTTCAAAGCTTCGCATTTG
1 AGTTCAAAGCTTCACATTTG
* *
16803972 AGTTCAAAGCTTCTCATTTA
1 AGTTCAAAGCTTCACATTTG
*
16803992 AGTTCAAAGGTTCACATTTG
1 AGTTCAAAGCTTCACATTTG
16804012 A
1 A
16804013 TAAATTTGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (20 bp):
AGTTCAAAGCTTCACATTTG
Found at i:16804196 original size:22 final size:22
Alignment explanation
Indices: 16804141--16804198 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
16804131 TTTCACTTCT
*
16804141 AAGTTCAAAGGTTCTCACTTAA
1 AAGTTCAAAGATTCTCACTTAA
* * *
16804163 AAATTTAGAGATTCTCA-TCTAA
1 AAGTTCAAAGATTCTCACT-TAA
16804185 AAGTTCAAAGATTC
1 AAGTTCAAAGATTC
16804199 ACATTCAACA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (22 bp):
AAGTTCAAAGATTCTCACTTAA
Found at i:16805427 original size:18 final size:18
Alignment explanation
Indices: 16805381--16805430 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
16805371 TGAGTCATCA
* *
16805381 TTTTCTTTCATTTCCATT
1 TTTTCTTTCTTTTTCATT
*
16805399 TTTTTTTTCTTTTTCATT
1 TTTTCTTTCTTTTTCATT
*
16805417 TTTTCTCTCTTTTT
1 TTTTCTTTCTTTTT
16805431 TTTTTCATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTTTCTTTTTCATT
Found at i:16805449 original size:18 final size:19
Alignment explanation
Indices: 16805381--16805453 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 19
16805371 TGAGTCATCA
* *
16805381 TTTTCTTTCATTTCCATTT
1 TTTTCTTTCTTTTTCATTT
16805400 TTTT-TTTCTTTTTCATTTT
1 TTTTCTTTCTTTTTCA-TTT
*
16805419 TTCTCTCTTTTTTTTTTCATTT
1 TT-T-TC-TTTCTTTTTCATTT
16805441 TTTTCTTTTCTTT
1 TTTTC-TTTCTTT
16805454 CCTTCATTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
18 9 0.20
19 9 0.20
20 10 0.22
21 2 0.04
22 5 0.11
23 10 0.22
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTTCTTTTTCATTT
Found at i:16811556 original size:19 final size:21
Alignment explanation
Indices: 16811532--16811575 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16811522 TTGATAGATG
16811532 AAAATAAGC-G-ATTAAAGGA
1 AAAATAAGCTGAATTAAAGGA
* *
16811551 AAAATATGCTGAATTAGAGGA
1 AAAATAAGCTGAATTAAAGGA
16811572 AAAA
1 AAAA
16811576 AGTACCCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.57, C:0.05, G:0.20, T:0.18
Consensus pattern (21 bp):
AAAATAAGCTGAATTAAAGGA
Found at i:16820360 original size:41 final size:41
Alignment explanation
Indices: 16820277--16820461 Score: 144
Period size: 42 Copynumber: 4.5 Consensus size: 41
16820267 AATGAGAAAA
** * * *
16820277 TTATTTTTCAAAAGTCGTGGTGCCTT-TGTTTATAGGAGCAAT
1 TTATTTTTC-AAAGTTATGGTG-CTTCTATTTAGAGGAACAAT
16820319 TTATTTTTCAAAGTTATGGTGCTTCTATTTAGAGGAACAAT
1 TTATTTTTCAAAGTTATGGTGCTTCTATTTAGAGGAACAAT
* * * * * *
16820360 TTATTTTTTAAAAATTTTAGTGCATCTATTTAGA-TAAGCAAT
1 TTA-TTTTTCAAAGTTATGGTGCTTCTATTTAGAGGAA-CAAT
* * * * *
16820402 TTA-TTTTCAAAGTTGTAGTGCCTCTGTTTAGAGGAGCAAT
1 TTATTTTTCAAAGTTATGGTGCTTCTATTTAGAGGAACAAT
*
16820442 TT-GTTTTCAAAAGTTATGGT
1 TTATTTTTC-AAAGTTATGGT
16820462 CCATCTGTTT
Statistics
Matches: 117, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
40 38 0.32
41 38 0.32
42 41 0.35
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (41 bp):
TTATTTTTCAAAGTTATGGTGCTTCTATTTAGAGGAACAAT
Found at i:16820432 original size:40 final size:41
Alignment explanation
Indices: 16820277--16820485 Score: 165
Period size: 41 Copynumber: 5.1 Consensus size: 41
16820267 AATGAGAAAA
** * * *
16820277 TTATTTTTCAAAAGTCGTGGTGCCTTTGTTTATAGGAGCAAT
1 TTATTTTTC-AAAGTTATGGTGCCTCTGTTTAGAGAAGCAAT
* *
16820319 TTATTTTTCAAAGTTATGGTGCTTCTATTTAGAGGAA-CAAT
1 TTATTTTTCAAAGTTATGGTGCCTCTGTTTAGA-GAAGCAAT
* * * * * * *
16820360 TTATTTTTTAAAAATTTTAGTGCATCTATTTAGATAAGCAAT
1 TTA-TTTTTCAAAGTTATGGTGCCTCTGTTTAGAGAAGCAAT
* * *
16820402 TTA-TTTTCAAAGTTGTAGTGCCTCTGTTTAGAGGAGCAAT
1 TTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGAAGCAAT
* * *
16820442 TT-GTTTTCAAAAGTTATGGT-CCATCTGTTTAAAAAAGCAAT
1 TTATTTTTC-AAAGTTATGGTGCC-TCTGTTTAGAGAAGCAAT
16820483 TTA
1 TTA
16820486 CTTCCAAAAA
Statistics
Matches: 135, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
40 39 0.29
41 53 0.39
42 43 0.32
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.43
Consensus pattern (41 bp):
TTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGAAGCAAT
Found at i:16820481 original size:41 final size:40
Alignment explanation
Indices: 16820313--16820485 Score: 116
Period size: 40 Copynumber: 4.2 Consensus size: 40
16820303 TGTTTATAGG
* * * **
16820313 AGCAATTTATTTTTCAAAGTTATGGTGCTTCTATTTAGAGGA
1 AGCAATTTA-TTTTCAAAGTTATAGTGCCTCTGTTTA-AAAA
* * * * * * *
16820355 A-CAATTTATTTTTTAAAAATTTTAGTGCATCTATTTAGATA
1 AGCAATTTA--TTTTCAAAGTTATAGTGCCTCTGTTTAAAAA
* * **
16820396 AGCAATTTATTTTCAAAGTTGTAGTGCCTCTGTTTAGAGG
1 AGCAATTTATTTTCAAAGTTATAGTGCCTCTGTTTAAAAA
* *
16820436 AGCAATTTGTTTTCAAAAGTTATGGT-CCATCTGTTTAAAAA
1 AGCAATTTATTTTC-AAAGTTATAGTGCC-TCTGTTTAAAAA
16820477 AGCAATTTA
1 AGCAATTTA
16820486 CTTCCAAAAA
Statistics
Matches: 105, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
40 39 0.37
41 35 0.33
42 31 0.30
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (40 bp):
AGCAATTTATTTTCAAAGTTATAGTGCCTCTGTTTAAAAA
Found at i:16820813 original size:18 final size:18
Alignment explanation
Indices: 16820786--16820906 Score: 68
Period size: 19 Copynumber: 6.6 Consensus size: 18
16820776 AGATGGGCTA
16820786 TTTTTTTATT-TTTTTAT
1 TTTTTTTATTATTTTTAT
16820803 TTTTGTTTATTATTTTTAT
1 TTTT-TTTATTATTTTTAT
** *
16820822 TATTTACTATTATTTATTAG
1 T-TTTTTTATTATTT-TTAT
* * *
16820842 TTATATTATTATTTATAT
1 TTTTTTTATTATTTTTAT
** * *
16820860 TACTATTATTATTATTAT
1 TTTTTTTATTATTTTTAT
* *
16820878 TATTATTTATT-TTATCT-T
1 T-TTTTTTATTATT-TTTAT
16820896 TTTTTTTATTA
1 TTTTTTTATTA
16820907 AATTAGGTGA
Statistics
Matches: 79, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
17 12 0.15
18 27 0.34
19 33 0.42
20 7 0.09
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTTTATTATTTTTAT
Found at i:16820815 original size:3 final size:3
Alignment explanation
Indices: 16820809--16820884 Score: 75
Period size: 3 Copynumber: 24.7 Consensus size: 3
16820799 TTATTTTTGT
* *
16820809 TTA TTA TTT TTA TTA TTTA CTA TTA TTTA TTA GTTA -TA TTA TTA TT-
1 TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
*
16820855 TATA TTA CTA TTA TTA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
16820885 TATTTTATCT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 3 0.05
3 48 0.79
4 10 0.16
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16820823 original size:9 final size:9
Alignment explanation
Indices: 16820784--16820888 Score: 81
Period size: 9 Copynumber: 11.4 Consensus size: 9
16820774 CAAGATGGGC
16820784 TATT-TTTT
1 TATTATTTT
16820792 TATT-TTTT
1 TATTATTTT
*
16820800 TATTTTTGTT
1 TATTATT-TT
16820810 TATTATTTT
1 TATTATTTT
*
16820819 TATTATTTAC
1 TATTATTT-T
16820829 TATTATTTAT
1 TATTATTT-T
*
16820839 TAGTTA-TAT
1 TA-TTATTTT
*
16820848 TATTATTTA
1 TATTATTTT
* *
16820857 TATTACTAT
1 TATTATTTT
*
16820866 TATTATTAT
1 TATTATTTT
16820875 TATTATTATT
1 TATTATT-TT
16820885 TATT
1 TATT
16820889 TTATCTTTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
8 15 0.19
9 37 0.46
10 25 0.31
11 3 0.04
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
TATTATTTT
Found at i:16820892 original size:12 final size:12
Alignment explanation
Indices: 16820784--16820906 Score: 60
Period size: 12 Copynumber: 9.8 Consensus size: 12
16820774 CAAGATGGGC
*
16820784 TATTTTTTTATT
1 TATTTTATTATT
16820796 T-TTTTATT-TT
1 TATTTTATTATT
*
16820806 T-GTTTATTATT
1 TATTTTATTATT
16820817 T-TTATTATTTACTAT
1 TATT-TTA-TTA-T-T
*
16820832 TA-TTTATTAGT
1 TATTTTATTATT
*
16820843 TATATTATTATT
1 TATTTTATTATT
16820855 TATATTACTATTATTAT
1 TAT-TT--TATTA-T-T
16820872 TATTATTATTATT
1 TATT-TTATTATT
16820885 TATTTTATCT-TT
1 TATTTTAT-TATT
*
16820897 TTTTTTATTA
1 TATTTTATTA
16820907 AATTAGGTGA
Statistics
Matches: 88, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
10 9 0.10
11 14 0.16
12 27 0.31
13 13 0.15
14 5 0.06
15 13 0.15
16 2 0.02
17 5 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (12 bp):
TATTTTATTATT
Found at i:16821402 original size:16 final size:15
Alignment explanation
Indices: 16821358--16821402 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
16821348 TCTACTAGAG
*
16821358 AGAGGGAAAAAAAAA
1 AGAGGGAAAAAAGAA
16821373 AGAGGGAAACAAAGAA
1 AGAGGGAAA-AAAGAA
16821389 AGAGGGAAGAAAAG
1 AGAGGGAA-AAAAG
16821403 CATCTGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (15 bp):
AGAGGGAAAAAAGAA
Found at i:16821745 original size:11 final size:11
Alignment explanation
Indices: 16821725--16821776 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
16821715 GTATTCTTTA
16821725 ATTTTTTT-TT
1 ATTTTTTTATT
*
16821735 -TTTTTTATTTT
1 ATTTTTT-TATT
*
16821746 ATTTTATTATT
1 ATTTTTTTATT
*
16821757 ATTTTTTTATG
1 ATTTTTTTATT
16821768 ATTTTTTTA
1 ATTTTTTTA
16821777 AATAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 6 0.17
10 1 0.03
11 23 0.66
12 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (11 bp):
ATTTTTTTATT
Found at i:16821867 original size:73 final size:71
Alignment explanation
Indices: 16821776--16821914 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 71
16821766 TGATTTTTTT
* *
16821776 AAATAAAAATTTATAAAAGCATTTTTAGAAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAA
1 AAATAAAAATTTACAAAAGCA-TTTTAGAAAAAAATTGAAAGTATCAATTTCTCTTAAAAATAAA
16821841 GTTTCTA
65 GTTTCTA
* * * * * *
16821848 AAATAAAAAATTTCCAAAAGCATTTTAGGAGAGAGTTGAAAGTATCAATTTCTCTTGAAAATAAA
1 AAAT-AAAAATTTACAAAAGCATTTTAGAAAAAAATTGAAAGTATCAATTTCTCTTAAAAATAAA
16821913 GT
65 GT
16821915 GTTAAAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 43 0.74
73 15 0.26
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (71 bp):
AAATAAAAATTTACAAAAGCATTTTAGAAAAAAATTGAAAGTATCAATTTCTCTTAAAAATAAAG
TTTCTA
Found at i:16821942 original size:132 final size:130
Alignment explanation
Indices: 16821798--16822091 Score: 402
Period size: 132 Copynumber: 2.3 Consensus size: 130
16821788 ATAAAAGCAT
*
16821798 TTTTAGAAAAAAATTGAAAGTATCAATTTTTCTT-AAAAATAAAGTTTCTAAAATAAAAAATTTC
1 TTTTA-AAAAAAATTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTCTAAAAT-AAAAATTTC
* *
16821862 CAAAAGCATTTTAGGAGAGAGTTGAAAGTATCAATTTCTCTTGAA-A-ATAAAG-TGTTAAAAAT
64 CAAAAGCATTTT-GGAGAAAGTTGAAAGTATCAATTTCTCTTGAAGATAAAAAGAT-TTAAAAA-
16821924 TATATAC
126 -ATAT-C
* **
16821931 TTTTAAAAAAAATTGAAAGTATCAATTTTT-TTAAAAAATAAAATTTTTAAAATAAAAATTTTTA
1 TTTTAAAAAAAATTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTCTAAAATAAAAATTTCCA
* *
16821995 AAAGCATTTTGGAGAAAGTTGAAAGTATCAATTTTTCTTGAAGATAAAAAGATTTAAAAAATATT
66 AAAGCATTTTGGAGAAAGTTGAAAGTATCAATTTCTCTTGAAGATAAAAAGATTTAAAAAATATC
*
16822060 TTTTAAAAAAAATTG-AAGTATCATTTTTTCTT
1 TTTTAAAAAAAATTGAAAGTATCAATTTTTCTT
16822092 TGAAATTAAA
Statistics
Matches: 147, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
128 13 0.09
129 17 0.12
130 34 0.23
131 22 0.15
132 55 0.37
133 6 0.04
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (130 bp):
TTTTAAAAAAAATTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTCTAAAATAAAAATTTCCA
AAAGCATTTTGGAGAAAGTTGAAAGTATCAATTTCTCTTGAAGATAAAAAGATTTAAAAAATATC
Found at i:16821984 original size:14 final size:15
Alignment explanation
Indices: 16821958--16821997 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
16821948 AGTATCAATT
*
16821958 TTTTTAAAAAATAAAA
1 TTTTTAAAATA-AAAA
16821974 TTTTTAAAATAAAAA
1 TTTTTAAAATAAAAA
16821989 TTTTTAAAA
1 TTTTTAAAA
16821998 GCATTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTTTAAAATAAAAA
Found at i:16822161 original size:29 final size:27
Alignment explanation
Indices: 16822119--16822211 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 27
16822109 GAAAAGCATT
16822119 TTAAGAAAAGTTGAAAGTACTAATTTTTC
1 TTAA-AAAAGTTGAAAGTA-TAATTTTTC
* *
16822148 TTAAAAAAGTTTGACAAGAAAAATATTTT-
1 TTAAAAAAG-TTGA-AAGTATAAT-TTTTC
* *
16822177 TGAGAAAAAGTTAAAAGTATCAATTTTTC
1 TTA-AAAAAGTTGAAAGTAT-AATTTTTC
16822206 TTAAAA
1 TTAAAA
16822212 TAAAACTTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
28 16 0.31
29 21 0.41
30 14 0.27
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (27 bp):
TTAAAAAAGTTGAAAGTATAATTTTTC
Found at i:16833671 original size:17 final size:16
Alignment explanation
Indices: 16833639--16833685 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
16833629 GATAAAAAAA
*
16833639 AATTCAAATCATTTTG
1 AATTCAAATTATTTTG
16833655 AATTCAAATTAATTTTG
1 AATTCAAATT-ATTTTG
16833672 AATT-AAATTATTTT
1 AATTCAAATTATTTT
16833686 TTATTTTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.17
16 14 0.48
17 10 0.34
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (16 bp):
AATTCAAATTATTTTG
Found at i:16840616 original size:14 final size:14
Alignment explanation
Indices: 16840597--16840626 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16840587 CATAAAGAAG
*
16840597 AAAAAATTATCATT
1 AAAAAATCATCATT
16840611 AAAAAATCATCATT
1 AAAAAATCATCATT
16840625 AA
1 AA
16840627 GGACAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAAATCATCATT
Found at i:16842196 original size:15 final size:15
Alignment explanation
Indices: 16842173--16842205 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16842163 AGTTCCTGTT
16842173 TAATATTAATAATAA
1 TAATATTAATAATAA
*
16842188 TAATTTTAATAATAA
1 TAATATTAATAATAA
16842203 TAA
1 TAA
16842206 CAATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATATTAATAATAA
Found at i:16842992 original size:2 final size:2
Alignment explanation
Indices: 16842985--16843012 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16842975 ATTTTTGGCT
16842985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16843013 AAGAAAGCCC
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16843309 original size:18 final size:17
Alignment explanation
Indices: 16843270--16843311 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
16843260 AGGTAAAAAA
*
16843270 AATTTTTTTAATTTTTT
1 AATTTTTTTAATTTATT
16843287 AATTTTTTTATATATTATT
1 AATTTTTTTA-AT-TTATT
16843306 -ATTTTT
1 AATTTTT
16843312 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 8 0.36
19 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
AATTTTTTTAATTTATT
Found at i:16843320 original size:8 final size:8
Alignment explanation
Indices: 16843271--16843321 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
16843261 GGTAAAAAAA
16843271 ATTTTTTT
1 ATTTTTTT
*
16843279 AATTTTTTA
1 -ATTTTTTT
16843288 ATTTTTTT
1 ATTTTTTT
* *
16843296 A-TATATT
1 ATTTTTTT
16843303 ATTATTTTT
1 ATT-TTTTT
16843312 ATTTTTTT
1 ATTTTTTT
16843320 AT
1 AT
16843322 GTGTTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 5 0.15
8 16 0.47
9 13 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTTTTTT
Found at i:16843422 original size:20 final size:20
Alignment explanation
Indices: 16843399--16843436 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16843389 ATAAAATGAG
16843399 AATTAAAA-AATTAAAAAATT
1 AATTAAAATAA-TAAAAAATT
16843419 AATTAAAATAATAAAAAA
1 AATTAAAATAATAAAAAA
16843437 ACTAAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AATTAAAATAATAAAAAATT
Found at i:16843435 original size:9 final size:9
Alignment explanation
Indices: 16843404--16843476 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
16843394 ATGAGAATTA
16843404 AAAAATTAA-
1 AAAAA-TAAT
*
16843413 AAAATTAAT
1 AAAAATAAT
*
16843422 TAAAATAAT
1 AAAAATAAT
16843431 AAAAA-AACT
1 AAAAATAA-T
**
16843440 AAAAATGCT
1 AAAAATAAT
16843449 AAAAATAAT
1 AAAAATAAT
* *
16843458 AATAACAAT
1 AAAAATAAT
*
16843467 AATAATAAT
1 AAAAATAAT
16843476 A
1 A
16843477 GTAACCTAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
8 5 0.10
9 45 0.90
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (9 bp):
AAAAATAAT
Found at i:16843833 original size:10 final size:10
Alignment explanation
Indices: 16843818--16843877 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
16843808 TATTTTCTTT
16843818 TAAATAATAA
1 TAAATAATAA
16843828 TAAAT-ATAA
1 TAAATAATAA
16843837 TAAA-AATAA
1 TAAATAATAA
*
16843846 -AGAT-AT--
1 TAAATAATAA
16843852 TAAATAATAA
1 TAAATAATAA
16843862 TAAATAATAAA
1 TAAATAAT-AA
16843873 TAAAT
1 TAAAT
16843878 CCTAAAACCT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
7 3 0.07
8 6 0.15
9 12 0.29
10 13 0.32
11 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
TAAATAATAA
Found at i:16843844 original size:15 final size:15
Alignment explanation
Indices: 16843820--16843877 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
16843810 TTTTCTTTTA
*
16843820 AATAATAATAAATAT
1 AATAAAAATAAATAT
*
16843835 AATAAAAATAAAGAT
1 AATAAAAATAAATAT
*
16843850 ATTAAATAAT-AATA-
1 AATAAA-AATAAATAT
16843864 AATAATAAATAAAT
1 AATAA-AAATAAAT
16843878 CCTAAAACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.20
15 25 0.71
16 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AATAAAAATAAATAT
Found at i:16843901 original size:28 final size:28
Alignment explanation
Indices: 16843870--16843941 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
16843860 AATAAATAAT
16843870 AAAT-AAATCCTAAAACCTCAAAACCCTA
1 AAATCAAATCCTAAAACC-CAAAACCCTA
* **
16843898 AAATCGAAATTCT-AAACCCCTAACCCTA
1 AAATC-AAATCCTAAAACCCAAAACCCTA
16843926 AAATCCAAATCCTAAA
1 AAAT-CAAATCCTAAA
16843942 TTTCAAAACC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 22 0.61
29 8 0.22
30 6 0.17
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.19
Consensus pattern (28 bp):
AAATCAAATCCTAAAACCCAAAACCCTA
Found at i:16844087 original size:15 final size:15
Alignment explanation
Indices: 16844067--16844108 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
16844057 CTAAACCCTT
16844067 CAAACCCTAAAAATC
1 CAAACCCTAAAAATC
**
16844082 CAAACCCTAAACCTC
1 CAAACCCTAAAAATC
16844097 CAAACCCTAAAA
1 CAAACCCTAAAA
16844109 TTAAGTCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (15 bp):
CAAACCCTAAAAATC
Found at i:16844101 original size:30 final size:31
Alignment explanation
Indices: 16844039--16844303 Score: 139
Period size: 30 Copynumber: 8.9 Consensus size: 31
16844029 ATAAATCTCT
* *
16844039 AAACCCT-AAAAT-TAAACTCTAAACCCTTC
1 AAACCCTAAAAATCTAAACCCTAAACCCTCC
*
16844068 AAACCCTAAAAATCCAAACCCTAAA-CCTCC
1 AAACCCTAAAAATCTAAACCCTAAACCCTCC
* * *
16844098 AAACCCT-AAAAT-TAAGTCCC-AAA-TCTCT
1 AAACCCTAAAAATCTAA-ACCCTAAACCCTCC
* * *
16844126 AAACTCTAAAAA-CGAAACCCTAAACCCTCT
1 AAACCCTAAAAATCTAAACCCTAAACCCTCC
* * *
16844156 AAA-CCTTAAAATCAAAATCCTAAACCCTCC
1 AAACCCTAAAAATCTAAACCCTAAACCCTCC
* *
16844186 AAACCCT-AAAAT-TAAGTCCC-AAA-TCTCC
1 AAACCCTAAAAATCTAA-ACCCTAAACCCTCC
* * *
16844214 AAA-CCTCAAAAT-GAAACCCTAAACCTTCC
1 AAACCCTAAAAATCTAAACCCTAAACCCTCC
* * * * * * *
16844243 GAGCCTTAAAAA-CGAAACCTTAAACCTTTC
1 AAACCCTAAAAATCTAAACCCTAAACCCTCC
*
16844273 AAACCTTAAAAAATGCTAAAACCTCTAAACC
1 AAACCCT-AAAAAT-CT-AAACC-CTAAACC
16844304 TCAAAATTGA
Statistics
Matches: 182, Mismatches: 34, Indels: 34
0.73 0.14 0.14
Matches are distributed among these distances:
27 6 0.03
28 34 0.19
29 39 0.21
30 74 0.41
31 17 0.09
33 1 0.01
34 5 0.03
35 6 0.03
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (31 bp):
AAACCCTAAAAATCTAAACCCTAAACCCTCC
Found at i:16844124 original size:87 final size:87
Alignment explanation
Indices: 16844031--16844360 Score: 327
Period size: 87 Copynumber: 3.8 Consensus size: 87
16844021 TTCGAACAAT
* * *
16844031 AAATCTCTAAACC-CTAAAATTAAACTCTAAACCCTTC-AAACCCTAAAAATCCAAACCCTAAAC
1 AAATCTCTAAACCTC-AAAATGAAACCCTAAA-CCTTCAAAACCCTAAAAATCAAAACCCTAAAC
16844094 CTCCAAACCCTAAAATTAAGTCCC
64 CTCCAAACCCTAAAATTAAGTCCC
* * * * * *
16844118 AAATCTCTAAACTCTAAAAACGAAACCCTAAACCCTCTAAA-CCTTAAAATCAAAATCCTAAACC
1 AAATCTCTAAAC-CTCAAAATGAAACCCTAAACCTTCAAAACCCTAAAAATCAAAACCCTAAA-C
16844182 CTCCAAACCCTAAAATTAAGTCCC
64 CTCCAAACCCTAAAATTAAGTCCC
* ** * * * *
16844206 AAATCTCCAAACCTCAAAATGAAACCCTAAACCTTCCGAGCCTTAAAAA-CGAAACCTTAAACCT
1 AAATCTCTAAACCTCAAAATGAAACCCTAAACCTTCAAAACCCTAAAAATCAAAACCCTAAACC-
* * **
16844270 TTCAAACCTTAAAA--AA-TGCTA
65 TCCAAACCCTAAAATTAAGT-CCC
* * *
16844291 AAACCTCTAAACCTCAAAATTGAAACCCTAAACCTTCAAAACCCTAAAACT-AAAACCCCAAACC
1 AAATCTCTAAACCTCAAAA-TGAAACCCTAAACCTTCAAAACCCTAAAAATCAAAACCCTAAACC
16844355 T-CAAAC
65 TCCAAAC
16844361 TCGAAAACTG
Statistics
Matches: 200, Mismatches: 34, Indels: 21
0.78 0.13 0.08
Matches are distributed among these distances:
84 6 0.03
85 21 0.10
86 37 0.19
87 77 0.38
88 59 0.29
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.20
Consensus pattern (87 bp):
AAATCTCTAAACCTCAAAATGAAACCCTAAACCTTCAAAACCCTAAAAATCAAAACCCTAAACCT
CCAAACCCTAAAATTAAGTCCC
Found at i:16844195 original size:16 final size:16
Alignment explanation
Indices: 16844140--16844195 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
16844130 TCTAAAAACG
*
16844140 AAACCCTAAACCCTCT
1 AAACCCTAAACCCTCA
* *
16844156 AAACCTTAAA--ATCA
1 AAACCCTAAACCCTCA
* *
16844170 AAATCCTAAACCCTCC
1 AAACCCTAAACCCTCA
16844186 AAACCCTAAA
1 AAACCCTAAA
16844196 ATTAAGTCCC
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
14 10 0.33
16 20 0.67
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACCCTAAACCCTCA
Found at i:16844333 original size:30 final size:29
Alignment explanation
Indices: 16844046--16844359 Score: 96
Period size: 30 Copynumber: 10.8 Consensus size: 29
16844036 TCTAAACCCT
* * *
16844046 AAAATTAAACTCTAAACCCTTCAAACCCTA
1 AAAATTAAACCCTAAA-CCTTCAAAACCTC
* * *
16844076 AAAATCCAAACCCTAAACCTCCAAACCCT-
1 AAAAT-TAAACCCTAAACCTTCAAAACCTC
* * * *
16844105 AAAATTAAGTCCC-AAATC-TCTAAACTCTA
1 AAAATTAA-ACCCTAAACCTTCAAAAC-CTC
** * * *
16844134 AAAACGAAACCCTAAACCCTCTAAACCTT
1 AAAATTAAACCCTAAACCTTCAAAACCTC
* * * *
16844163 AAAATCAAAATCCTAAACCCTCCAAACC-C
1 AAAAT-TAAACCCTAAACCTTCAAAACCTC
* * *
16844192 TAAAATTAAGTCCC-AAATC-TCCAAACCTC
1 -AAAATTAA-ACCCTAAACCTTCAAAACCTC
* ** * *
16844221 AAAATGAAACCCTAAACCTTCCGAGCCTTA
1 AAAATTAAACCCTAAACCTTCAAAACC-TC
** *
16844251 AAAACGAAACCTTAAACCTTTC-AAACCT-
1 AAAATTAAACCCTAAACC-TTCAAAACCTC
* ** *
16844279 TAAA--AAATGCTAAAACC-TCTAAACCTC
1 AAAATTAAACCCT-AAACCTTCAAAACCTC
16844306 AAAATTGAAACCCTAAACCTTCAAAACC-C
1 AAAATT-AAACCCTAAACCTTCAAAACCTC
* *
16844335 TAAAACTAAAACCCCAAACC-TCAAA
1 -AAAA-TTAAACCCTAAACCTTCAAA
16844360 CTCGAAAACT
Statistics
Matches: 218, Mismatches: 43, Indels: 47
0.71 0.14 0.15
Matches are distributed among these distances:
25 2 0.01
26 10 0.05
27 15 0.07
28 33 0.15
29 49 0.22
30 96 0.44
31 13 0.06
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (29 bp):
AAAATTAAACCCTAAACCTTCAAAACCTC
Found at i:16844334 original size:16 final size:15
Alignment explanation
Indices: 16844313--16844359 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
16844303 CTCAAAATTG
16844313 AAACCCTAAACCTTCA
1 AAACCCTAAACC-TCA
*
16844329 AAACCCTAAAACT-A
1 AAACCCTAAACCTCA
*
16844343 AAACCCCAAACCTCA
1 AAACCCTAAACCTCA
16844358 AA
1 AA
16844360 CTCGAAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.44
15 4 0.15
16 11 0.41
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCTAAACCTCA
Found at i:16849101 original size:3 final size:3
Alignment explanation
Indices: 16849095--16849149 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
16849085 TTGTTTGCTT
16849095 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16849143 ATA ATA A
1 ATA ATA A
16849150 ATTTACATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16852372 original size:64 final size:63
Alignment explanation
Indices: 16852304--16852435 Score: 151
Period size: 64 Copynumber: 2.1 Consensus size: 63
16852294 ATCGTTAGTA
*
16852304 AATAAT-CTATACAAAAAAAATTTTGAATGGATTATTG-AAGTCATTTTTGACCAAAAACGCCTT
1 AATAATCCTAT-C-AAAAAAATTTTGAATGGATTATTGAAAGT-ATTTTTGACAAAAAACGCCTT
*
16852367 T
63 C
* * ** *
16852368 AATAATCCCTCTCTAAAATTTTTTGAATGGATTATTGAAAGTATTTTTGACAAAAAACGTCTTC
1 AATAAT-CCTATCAAAAAAATTTTGAATGGATTATTGAAAGTATTTTTGACAAAAAACGCCTTC
16852432 AATA
1 AATA
16852436 GTCCCATTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
64 50 0.86
65 5 0.09
66 3 0.05
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (63 bp):
AATAATCCTATCAAAAAAATTTTGAATGGATTATTGAAAGTATTTTTGACAAAAAACGCCTTC
Found at i:16853074 original size:2 final size:2
Alignment explanation
Indices: 16853067--16853103 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
16853057 TCCTACATAA
16853067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
16853104 GGTATAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16855983 original size:82 final size:83
Alignment explanation
Indices: 16855845--16855998 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 83
16855835 AAAAGTATAA
* * * * *
16855845 ATTTTCAATGATAAACATTTTGAAAATTTGTTTACTTACTAATTTATTTGTTGTTGATATTGGCA
1 ATTTTCAATGATAAACATTTTGAAAACTTGTTTACTTACTAATTCATTTGTGGTTGAAATTAGCA
*
16855910 TTGGTTCTACCAGATATC
66 TAGGTTCTACCAGATATC
*
16855928 ATTTTCAATGATATACATTTTG-AAACTTGTTTACATT-CTAATTCATTTGTGGTTGAAATTAGC
1 ATTTTCAATGATAAACATTTTGAAAACTTGTTTAC-TTACTAATTCATTTGTGGTTGAAATTAGC
16855991 ATAGGTTC
65 ATAGGTTC
16855999 CATCTTAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
82 40 0.63
83 23 0.37
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (83 bp):
ATTTTCAATGATAAACATTTTGAAAACTTGTTTACTTACTAATTCATTTGTGGTTGAAATTAGCA
TAGGTTCTACCAGATATC
Found at i:16856610 original size:13 final size:13
Alignment explanation
Indices: 16856592--16856628 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16856582 AGATTACGTA
16856592 AAAAATTATTTTT
1 AAAAATTATTTTT
*
16856605 AAAAATAATTTTT
1 AAAAATTATTTTT
*
16856618 GAAAATTATTT
1 AAAAATTATTT
16856629 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:16856721 original size:20 final size:20
Alignment explanation
Indices: 16856696--16856735 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16856686 TGTTGTTTGA
* *
16856696 TTTTTTGAAAAAATTTTAAT
1 TTTTTTCAAAAAATATTAAT
*
16856716 TTTTTTCAAATAATATTAAT
1 TTTTTTCAAAAAATATTAAT
16856736 ATAACTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTTTCAAAAAATATTAAT
Found at i:16856779 original size:10 final size:9
Alignment explanation
Indices: 16856741--16856811 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
16856731 TTAATATAAC
16856741 TATTAAAA-
1 TATTAAAAT
16856749 TATTAAAAAT
1 TATT-AAAAT
*
16856759 TATT--TAT
1 TATTAAAAT
16856766 TATTAAAAT
1 TATTAAAAT
*
16856775 ATATTGAAAT
1 -TATTAAAAT
*
16856785 TATT--TAT
1 TATTAAAAT
16856792 TATTAAAAT
1 TATTAAAAT
*
16856801 TATTAATAT
1 TATTAAAAT
16856810 TA
1 TA
16856812 AAAAATAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
7 12 0.24
8 4 0.08
9 22 0.44
10 12 0.24
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (9 bp):
TATTAAAAT
Found at i:16856791 original size:26 final size:26
Alignment explanation
Indices: 16856741--16856811 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
16856731 TTAATATAAC
*
16856741 TATTAAAATAT-TAAAAATTATTTAT
1 TATTAAAATATATTAAAATTATTTAT
*
16856766 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAATATATTAAAATTATTTAT
*
16856792 TATTAAAAT-TATTAATATTA
1 TATTAAAATATATTAAAATTA
16856812 AAAAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 20 0.49
26 21 0.51
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
TATTAAAATATATTAAAATTATTTAT
Found at i:16856815 original size:16 final size:16
Alignment explanation
Indices: 16856775--16856814 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
16856765 TTATTAAAAT
*
16856775 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
16856791 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
16856806 ATATTAAAA
1 ATATTAAAA
16856815 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:16856928 original size:23 final size:23
Alignment explanation
Indices: 16856902--16857067 Score: 110
Period size: 23 Copynumber: 7.0 Consensus size: 23
16856892 ATTATTCTTT
16856902 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
* *
16856925 ATATTATTTATTAATATAATATT
1 ATATTATTTATTAATATATTATA
*
16856948 ATAATATTTATTAA-ATTAATTAATA
1 ATATTATTTATTAATA-T-ATT-ATA
*
16856973 ATATTTATTATATT-ATTTATTA-A
1 ATA-TTATT-TATTAATATATTATA
* *
16856996 TATATGATTTTATTAATATAATAT-
1 -ATATTA-TTTATTAATATATTATA
* * * *
16857020 ATAAT-TTTATAAATATAATATT
1 ATATTATTTATTAATATATTATA
16857042 AT-TTATTTATATAATATTATTTATA
1 ATATTATTTAT-TAATA-TA-TTATA
16857067 A
1 A
16857068 GTAATATTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
21 16 0.14
22 8 0.07
23 49 0.44
24 16 0.14
25 12 0.11
26 6 0.05
27 4 0.04
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:16856944 original size:18 final size:18
Alignment explanation
Indices: 16856921--16857077 Score: 121
Period size: 18 Copynumber: 8.6 Consensus size: 18
16856911 ATTAATATAT
16856921 TATAATATTATTTATTAA
1 TATAATATTATTTATTAA
* *
16856939 TATAATATTATAATATTTA
1 TATAATATTAT-TTATTAA
* *
16856958 T-TAA-ATTAATTAATAA
1 TATAATATTATTTATTAA
16856974 TATTTATTATATTATTTATTAA
1 TA--TA--ATATTATTTATTAA
16856996 TAT-ATGA-T-TTTATTAA
1 TATAAT-ATTATTTATTAA
*
16857012 TATAATATATAATTTTATAAA
1 TATAATAT-T-A-TTTATTAA
*
16857033 TATAATATTATTTATTTA
1 TATAATATTATTTATTAA
16857051 TATAATATTATTTA-TAA
1 TATAATATTATTTATTAA
*
16857068 -GTAATATTAT
1 TATAATATTAT
16857078 GCTCAAAAGT
Statistics
Matches: 112, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
16 26 0.23
17 11 0.10
18 36 0.32
19 9 0.08
20 2 0.02
21 16 0.14
22 12 0.11
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
TATAATATTATTTATTAA
Found at i:16857074 original size:16 final size:14
Alignment explanation
Indices: 16856902--16857077 Score: 68
Period size: 13 Copynumber: 13.5 Consensus size: 14
16856892 ATTATTCTTT
16856902 ATATTATTTAT-TA
1 ATATTATTTATATA
16856915 ATA-TA--T-TATA
1 ATATTATTTATATA
16856925 ATATTATTTAT-TA
1 ATATTATTTATATA
*
16856938 ATA-TA---ATATT
1 ATATTATTTATATA
*
16856948 ATAATATTTAT-TA
1 ATATTATTTATATA
*
16856961 A-ATTAATTA-ATA
1 ATATTATTTATATA
*
16856973 ATATT-TATTATATT
1 ATATTAT-TTATATA
*
16856987 AT-TTATTAATATATG
1 ATATTATT--TATATA
* *
16857002 ATTTTATTAATATA
1 ATATTATTTATATA
16857016 ATATATAATTT-TATA
1 ATAT-T-ATTTATATA
* *
16857031 A-A-TA-TAATATT
1 ATATTATTTATATA
16857042 AT-TTATTTATATA
1 ATATTATTTATATA
16857055 ATATTATTTATAAGTA
1 ATATTATTTAT-A-TA
16857071 ATATTAT
1 ATATTAT
16857078 GCTCAAAAGT
Statistics
Matches: 121, Mismatches: 15, Indels: 51
0.65 0.08 0.27
Matches are distributed among these distances:
9 3 0.02
10 11 0.09
11 9 0.07
12 16 0.13
13 27 0.22
14 24 0.20
15 14 0.12
16 17 0.14
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (14 bp):
ATATTATTTATATA
Found at i:16857947 original size:15 final size:17
Alignment explanation
Indices: 16857918--16857950 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16857908 AAAATAATTT
16857918 TATCATTTATGATTTGA
1 TATCATTTATGATTTGA
16857935 TATCATTT-T-ATTTGA
1 TATCATTTATGATTTGA
16857950 T
1 T
16857951 TAATAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATCATTTATGATTTGA
Found at i:16859097 original size:19 final size:20
Alignment explanation
Indices: 16859059--16859098 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16859049 AATCTAAAAT
*
16859059 AAAATTATATTATTAAATAA
1 AAAATTATATTACTAAATAA
*
16859079 AAAATTAT-TTACTATATAA
1 AAAATTATATTACTAAATAA
16859098 A
1 A
16859099 TATATTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTATATTACTAAATAA
Found at i:16859983 original size:10 final size:10
Alignment explanation
Indices: 16859967--16860001 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
16859957 ATATAATATT
16859967 TAAATTTTAA
1 TAAATTTTAA
*
16859977 AAAATTTTAA
1 TAAATTTTAA
16859987 TAAATTTTAA
1 TAAATTTTAA
16859997 TAAAT
1 TAAAT
16860002 ATCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAATTTTAA
Found at i:16860034 original size:17 final size:16
Alignment explanation
Indices: 16859993--16860040 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
16859983 TTAATAAATT
*
16859993 TTAATAAATATCTAAA
1 TTAATAAATATATAAA
*
16860009 TTAA-AAATATATCAA
1 TTAATAAATATATAAA
*
16860024 TTAATATAATATTTAAA
1 TTAATA-AATATATAAA
16860041 AAATTATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 13 0.50
16 5 0.19
17 8 0.31
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAATAAATATATAAA
Found at i:16862504 original size:37 final size:37
Alignment explanation
Indices: 16862463--16862536 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
16862453 ATAAAACGTT
*
16862463 AAATATTTTTACTAAATATTATTACATATAAAATTTA
1 AAATATATTTACTAAATATTATTACATATAAAATTTA
* *
16862500 AAATATATTTACTTAATATTATTACCTATAAAATTTA
1 AAATATATTTACTAAATATTATTACATATAAAATTTA
16862537 TTTTGAGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (37 bp):
AAATATATTTACTAAATATTATTACATATAAAATTTA
Found at i:16867057 original size:18 final size:18
Alignment explanation
Indices: 16867021--16867057 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16867011 CCCCAATATC
* *
16867021 ATACAATATCATTCGACA
1 ATACAATATCAGTCAACA
16867039 ATACAATATCAGTCAACA
1 ATACAATATCAGTCAACA
16867057 A
1 A
16867058 GGTTCGACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (18 bp):
ATACAATATCAGTCAACA
Found at i:16868643 original size:333 final size:332
Alignment explanation
Indices: 16867713--16868648 Score: 1347
Period size: 333 Copynumber: 2.8 Consensus size: 332
16867703 GGCGACTTAT
* * * *
16867713 AATAAAATACGCCTTTAATAATCCAAAAATTTTTTTTTGAAAAATTATTGAAGGCGTTGTTATTT
1 AATAAAATACGCCTTTAATAATCCAAAAAATTTTATTAGAAAAATTATTGAAGGCGTTGTTATCT
* * * *
16867778 GAAATCACCTTCAATAATTATATACAAACTATGAT-AGAAATTATTAAAGGCATCTATCTTAAAA
66 GAAATCACCTTCAGTAATTATATACAAACTGTGATAAG-AATTATTAAAAGCATCTATCTTAAAT
*
16867842 ATACGCCTTCAATAATAGTGTTACAATTTATGTGACGGTATATAGAAGGTATTTTACATTAGAAG
130 ATACGCCTTCAATAATAGTGTTACAATTTATGTGACGGTATATAGAAGGTATTTTACAGTAGAAG
* ** *
16867907 ACACCTTTAATAATTTTTAAAATATTTAGTGGGAAAATTTTGAAGACGTCTGTTATTAACAAATG
195 ATACCTTTAATAATTTTTAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAATG
* * *
16867972 CCTTCAGTAATTGAAGGTGCCTTTTTTAATAAACACCTTCCATTATCATCGTGGTATATCAAAGG
260 CCTTCAGTAATTGAAGGTGACTTTTTTAATAAACACATTCCATTACCATCGTGGTATATCAAAGG
*
16868037 CATATTAT
325 CATATTAC
* * * *
16868045 AATAAAAGACGCCTTTAATAATTCAAAAAAATTTTATTAAAAAAATTATTGAAGGCGTTATTATC
1 AATAAAATACGCCTTTAATAA-TCCAAAAAATTTTATTAGAAAAATTATTGAAGGCGTTGTTATC
* * * *
16868110 T-AAAACTATCTTAAGTAATTATATACAAACTGTGATAAAAATTATTAAAAGCATCTATCTTAAA
65 TGAAATC-ACCTTCAGTAATTATATACAAACTGTGATAAGAATTATTAAAAGCATCTATCTTAAA
* * *
16868174 TATACGCCTTAAATAATAGTGTTACAATTTATGTGACGGTTTATAGAAGGCATTTTACAGTAGAA
129 TATACGCCTTCAATAATAGTGTTACAATTTATGTGACGGTATATAGAAGGTATTTTACAGTAGAA
* * *
16868239 AATACCTTTAATAATTTTTAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTAACAAAC
194 GATACCTTTAATAATTTTTAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAAT
* * *
16868304 GCCTTCAGTAATTGAAGGT-ATTTTTTCTAATAAACGCATTCCATTACCATCGTGGTATATCGAA
259 GCCTTCAGTAATTGAAGGTGACTTTTT-TAATAAACACATTCCATTACCATCGTGGTATATCAAA
* *
16868368 GGCGTTTTAC
323 GGCATATTAC
* *
16868378 AATAAAATATGCTTTTAATAATCCGAAAAAATTTTATTAGAAAAATTATTGAAGGCGTTGTTATC
1 AATAAAATACGCCTTTAATAATCC-AAAAAATTTTATTAGAAAAATTATTGAAGGCGTTGTTATC
*
16868443 TGAAATCACCTTCAGTAATTATGTACAAACTGTGATAAGAATTATTAAAAGCATCTATCTTAAAT
65 TGAAATCACCTTCAGTAATTATATACAAACTGTGATAAGAATTATTAAAAGCATCTATCTTAAAT
* * * * *
16868508 ATACGCCTTCAATAACAATGTTACAATTTGTGTGACAGTATATAAAAGGTATTTTACAGTAGAAG
130 ATACGCCTTCAATAATAGTGTTACAATTTATGTGACGGTATATAGAAGGTATTTTACAGTAGAAG
* * * * * *
16868573 ATGCCTTTAATAATTCTTAAAATATTTAGTGAAAAAATTTTGAAGGCATTTGTTACTAAAAAATG
195 ATACCTTTAATAATTTTTAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAATG
*
16868638 CCTTCAATAAT
260 CCTTCAGTAAT
16868649 GGATTCCTAA
Statistics
Matches: 533, Mismatches: 65, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
332 31 0.06
333 497 0.93
334 5 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (332 bp):
AATAAAATACGCCTTTAATAATCCAAAAAATTTTATTAGAAAAATTATTGAAGGCGTTGTTATCT
GAAATCACCTTCAGTAATTATATACAAACTGTGATAAGAATTATTAAAAGCATCTATCTTAAATA
TACGCCTTCAATAATAGTGTTACAATTTATGTGACGGTATATAGAAGGTATTTTACAGTAGAAGA
TACCTTTAATAATTTTTAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTGTTATTAACAAATGC
CTTCAGTAATTGAAGGTGACTTTTTTAATAAACACATTCCATTACCATCGTGGTATATCAAAGGC
ATATTAC
Found at i:16878605 original size:18 final size:21
Alignment explanation
Indices: 16878552--16878602 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
16878542 GATATGTTTA
**
16878552 AATA-TTTATATTTTTAAAAT
1 AATATTTTATATTTAAAAAAT
16878572 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
16878593 AATATTTTAT
1 AATATTTTAT
16878603 TAATTTCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:16880994 original size:16 final size:16
Alignment explanation
Indices: 16880973--16881004 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16880963 GCCTGCTAAT
16880973 TAGAGATATTTCATGA
1 TAGAGATATTTCATGA
16880989 TAGAGATATTTCATGA
1 TAGAGATATTTCATGA
16881005 AAGGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
TAGAGATATTTCATGA
Found at i:16882114 original size:24 final size:24
Alignment explanation
Indices: 16882066--16882125 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
16882056 ATATTTCTAT
*
16882066 TTTATAA-AAATATATTAATATATA
1 TTTATAACAAA-ATATTAATAAATA
16882090 TTTATAACAAAAT-TTACATAAATA
1 TTTATAACAAAATATTA-ATAAATA
* *
16882114 TGTATGACAAAA
1 TTTATAACAAAA
16882126 ATAAAAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (24 bp):
TTTATAACAAAATATTAATAAATA
Found at i:16882619 original size:22 final size:22
Alignment explanation
Indices: 16882577--16882622 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16882567 AATATTAAAA
16882577 ATATTTATACTATTAAATATTT
1 ATATTTATACTATTAAATATTT
16882599 ATATTT-TA-TATTGAAAGTATTT
1 ATATTTATACTATT-AAA-TATTT
16882621 AT
1 AT
16882623 TATTAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 5 0.23
22 13 0.59
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
ATATTTATACTATTAAATATTT
Found at i:16883103 original size:14 final size:15
Alignment explanation
Indices: 16883084--16883112 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16883074 ATATCGTTAA
16883084 ATATAA-ATAAAAAT
1 ATATAATATAAAAAT
16883098 ATATAATATAAAAAT
1 ATATAATATAAAAAT
16883113 GAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAATATAAAAAT
Found at i:16887584 original size:29 final size:29
Alignment explanation
Indices: 16887551--16887618 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
16887541 GTTCTTTTTG
16887551 AATACTGAACCTACCAAATCTTATATATA
1 AATACTGAACCTACCAAATCTTATATATA
16887580 AATACTGAACCTACCAAATCTTATATATA
1 AATACTGAACCTACCAAATCTTATATATA
16887609 AATACTGAAC
1 AATACTGAAC
16887619 GTCACGTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (29 bp):
AATACTGAACCTACCAAATCTTATATATA
Found at i:16888030 original size:21 final size:19
Alignment explanation
Indices: 16887997--16888035 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
16887987 TTTAATTTTA
16887997 ATTTAAATAAAATAAATAC
1 ATTTAAATAAAATAAATAC
16888016 ATTTAATATTAAAATAAATA
1 ATTTAA-A-TAAAATAAATA
16888036 ATGCTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTAAATAAAATAAATAC
Found at i:16888785 original size:34 final size:34
Alignment explanation
Indices: 16888747--16888816 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
16888737 ATGGATATTC
*
16888747 AAGAATCCTTAAAACTTATCGAATATCCATTTTT
1 AAGAAACCTTAAAACTTATCGAATATCCATTTTT
* *
16888781 AAGAAACCTTAAAGCTTATCGAATATTCATTTTT
1 AAGAAACCTTAAAACTTATCGAATATCCATTTTT
16888815 AA
1 AA
16888817 AAAATTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (34 bp):
AAGAAACCTTAAAACTTATCGAATATCCATTTTT
Found at i:16894407 original size:62 final size:61
Alignment explanation
Indices: 16894282--16894517 Score: 203
Period size: 62 Copynumber: 3.8 Consensus size: 61
16894272 AATGGGGTTA
* * * * *
16894282 TTAAATGTATTTTTAGCCAAAAACCCCTTGAATAATCATC-TTCAATTTTTATAAGAGGATTAT
1 TTAAA-GTGTTTTTAGCAAAAAACGCATTGAATAATC-TCATTCAATTTTTATGAGA-GATTAT
* * *
16894345 TT-AAGATGTTTTTAGCCAAAAACGCATTGAATAATCTCATTTAATTTTTTATTGCGAG-TTAT
1 TTAAAG-TGTTTTTAGCAAAAAACGCATTGAATAATCTCATTCAA-TTTTTA-TGAGAGATTAT
* * * * * * * *
16894407 TCAAAGCGTTTCTAGCAAAAAATGCCTTTAATAATTTCCTTCAATTTTTATGAGAAGATTAT
1 TTAAAGTGTTTTTAGCAAAAAACGCATTGAATAATCTCATTCAATTTTTATGAG-AGATTAT
*
16894469 TTAAAGTGTTTTT-GACAAAAAATGCATTGAATAATCTCA-TCAAATTTTT
1 TTAAAGTGTTTTTAG-CAAAAAACGCATTGAATAATCTCATTC-AATTTTT
16894518 TAGAAGGGAT
Statistics
Matches: 140, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
60 3 0.02
61 14 0.10
62 108 0.77
63 12 0.09
64 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (61 bp):
TTAAAGTGTTTTTAGCAAAAAACGCATTGAATAATCTCATTCAATTTTTATGAGAGATTAT
Found at i:16901357 original size:11 final size:11
Alignment explanation
Indices: 16901341--16901372 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16901331 ATTCGTAAAT
16901341 AAATTCATTTA
1 AAATTCATTTA
16901352 AAATTCATTTA
1 AAATTCATTTA
*
16901363 AAACTCATTT
1 AAATTCATTT
16901373 CTTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (11 bp):
AAATTCATTTA
Found at i:16901422 original size:6 final size:6
Alignment explanation
Indices: 16901411--16901463 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
16901401 GTTTGCTTAT
* * * * * *
16901411 AATAAC AATAAC AACAAC AACAAC AACAAC AATAAT AATAAT AATAAT
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
16901459 AATAA
1 AATAA
16901464 TAATTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:16901447 original size:3 final size:3
Alignment explanation
Indices: 16901441--16901467 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16901431 CAACAACAAC
16901441 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
16901468 TTTACATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16904177 original size:25 final size:24
Alignment explanation
Indices: 16904149--16904206 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 24
16904139 ATTAAACTAC
16904149 TCAAGTGTTTTTGTTAATA-GATTAT
1 TCAAGTGTTTTTG-TAA-AGGATTAT
16904174 TCAA-T-TTTTTGTAAAGGATTAT
1 TCAAGTGTTTTTGTAAAGGATTAT
16904196 TCAAGATGTTT
1 TCAAG-TGTTT
16904207 CTAACCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 1 0.03
22 13 0.45
23 6 0.21
24 2 0.07
25 7 0.24
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (24 bp):
TCAAGTGTTTTTGTAAAGGATTAT
Found at i:16904259 original size:63 final size:66
Alignment explanation
Indices: 16904176--16904312 Score: 181
Period size: 64 Copynumber: 2.1 Consensus size: 66
16904166 TAGATTATTC
* * *
16904176 AATTTTTTGTAAAGGATTATTCAAGATG-TTTCTAACCAAAAACGCTTTTAATAAT-CCTTTGTA
1 AATTTTTTGTAAAGGATTATTCAAAATGTTTTCTAACCAAAAACGCTTTCAATAATCCCTTTCTA
16904239 A
66 A
* * * * *
16904240 AATTTTTTGT-ATGGATTATTGAAAATGTTTTTTTATCAAAAACGCTTTCAATAATCCCTTTCTA
1 AATTTTTTGTAAAGGATTATTCAAAATGTTTTCTAACCAAAAACGCTTTCAATAATCCCTTTCTA
16904304 A
66 A
16904305 AATTTTTT
1 AATTTTTT
16904313 AAATGGGTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
63 14 0.22
64 33 0.52
65 16 0.25
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (66 bp):
AATTTTTTGTAAAGGATTATTCAAAATGTTTTCTAACCAAAAACGCTTTCAATAATCCCTTTCTA
A
Found at i:16904336 original size:64 final size:63
Alignment explanation
Indices: 16904210--16904359 Score: 169
Period size: 64 Copynumber: 2.3 Consensus size: 63
16904200 GATGTTTCTA
* ** * *
16904210 ACCAAAAACGCTTTTAATAAT-CCTTTGTAAAATTTTTTGTATGGATTATTGAAAATGTTTTTTT
1 ACCAAAAACGC-TTTAATAATCCCTTTCTAAAATTTTTTAAATGGATTATT-AAAAGGATTTTTT
* *
16904274 ATCAAAAACGCTTTCAATAATCCCTTTCTAAAATTTTTTAAATGGGTTATT-AAAGGCATTTTTT
1 ACCAAAAACGCTTT-AATAATCCCTTTCTAAAATTTTTTAAATGGATTATTAAAAGG-ATTTTTT
*
16904338 ACCAAAAATGACTTTAATAATC
1 ACCAAAAACG-CTTTAATAATC
16904360 TCATTCAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 7 0.10
64 37 0.51
65 29 0.40
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (63 bp):
ACCAAAAACGCTTTAATAATCCCTTTCTAAAATTTTTTAAATGGATTATTAAAAGGATTTTTT
Found at i:16904336 original size:65 final size:62
Alignment explanation
Indices: 16904179--16904359 Score: 161
Period size: 64 Copynumber: 2.8 Consensus size: 62
16904169 ATTATTCAAT
* * * * *
16904179 TTTTTGTAAA-GGATTATTCAAGATGTTTCTAACCAAAAACGCTTTTAATAAT-CCTTTGTAAAA
1 TTTTT-TAAATGGATTATT-AAAAGGTTTTTTACCAAAAACGC-TTTAATAATCCCTTTCTAAAA
** * *
16904242 TTTTTTGTATGGATTATTGAAAATGTTTTTTTATCAAAAACGCTTTCAATAATCCCTTTCTAAAA
1 TTTTTTAAATGGATTATT-AAAA-GGTTTTTTACCAAAAACGCTTT-AATAATCCCTTTCTAAAA
* *
16904307 TTTTTTAAATGGGTTATT-AAAGGCATTTTTTACCAAAAATGACTTTAATAATC
1 TTTTTTAAATGGATTATTAAAAGG--TTTTTTACCAAAAACG-CTTTAATAATC
16904360 TCATTCAATT
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 3 0.03
63 22 0.23
64 41 0.43
65 29 0.31
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (62 bp):
TTTTTTAAATGGATTATTAAAAGGTTTTTTACCAAAAACGCTTTAATAATCCCTTTCTAAAA
Found at i:16904908 original size:11 final size:11
Alignment explanation
Indices: 16904892--16904917 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16904882 CAAAATATTT
16904892 GTATAAGTATG
1 GTATAAGTATG
16904903 GTATAAGTATG
1 GTATAAGTATG
16904914 GTAT
1 GTAT
16904918 TCTAATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (11 bp):
GTATAAGTATG
Found at i:16908604 original size:82 final size:83
Alignment explanation
Indices: 16908451--16908604 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 83
16908441 AAAAGTATAA
* * * ** *
16908451 ATTTTCAATGATAAACATTTTGAAAATTTGTTTACTTACTAATTTATTTGTTGTTGATGCTGGCA
1 ATTTTCAATGATAAACATTTTGAAAACTTGTTTACTTACTAATTCATTTGTGGTTGAAACTAGCA
*
16908516 TTGGTTCTACCAGTTATC
66 TAGGTTCTACCAGTTATC
* *
16908534 ATTTTCAATGATATACATTTTG-AAACTTGTTTACATT-CTAATTCATTTGTGGTTGAAATTAGC
1 ATTTTCAATGATAAACATTTTGAAAACTTGTTTAC-TTACTAATTCATTTGTGGTTGAAACTAGC
16908597 ATAGGTTC
65 ATAGGTTC
16908605 CATCTTAGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
82 38 0.62
83 23 0.38
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (83 bp):
ATTTTCAATGATAAACATTTTGAAAACTTGTTTACTTACTAATTCATTTGTGGTTGAAACTAGCA
TAGGTTCTACCAGTTATC
Found at i:16909219 original size:13 final size:13
Alignment explanation
Indices: 16909201--16909237 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16909191 AGATTACGTA
16909201 AAAAATTATTTTT
1 AAAAATTATTTTT
*
16909214 AAAAATAATTTTT
1 AAAAATTATTTTT
*
16909227 GAAAATTATTT
1 AAAAATTATTT
16909238 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:16909327 original size:19 final size:20
Alignment explanation
Indices: 16909303--16909341 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
16909293 TGTTGTTTGA
*
16909303 TTTTTTGAAAAAAT-TTAAT
1 TTTTTTCAAAAAATATTAAT
*
16909322 TTTTTTCAAATAATATTAAT
1 TTTTTTCAAAAAATATTAAT
16909342 ATAACTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTTTCAAAAAATATTAAT
Found at i:16909376 original size:16 final size:15
Alignment explanation
Indices: 16909355--16909419 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
16909345 ACTATTAAAA
16909355 TATTAAAATTATTTAT
1 TATTAAAATTA-TTAT
16909371 TATT-AAA--A-TA-
1 TATTAAAATTATTAT
16909381 TATTAAAATTATTTAT
1 TATTAAAATTA-TTAT
*
16909397 TATTAAAATTATTAA
1 TATTAAAATTATTAT
16909412 TATTAAAA
1 TATTAAAA
16909420 AATAATTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
13 2 0.05
15 16 0.38
16 15 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTAAAATTATTAT
Found at i:16909383 original size:26 final size:26
Alignment explanation
Indices: 16909347--16909416 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
16909337 TTAATATAAC
16909347 TATT-AAA-ATATTAAAATTATTTAT
1 TATTAAAATATATTAAAATTATTTAT
16909371 TATTAAAATATATTAAAATTATTTAT
1 TATTAAAATATATTAAAATTATTTAT
*
16909397 TATTAAAAT-TATTAATATTA
1 TATTAAAATATATTAAAATTA
16909417 AAAAATAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
24 4 0.09
25 13 0.30
26 26 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TATTAAAATATATTAAAATTATTTAT
Found at i:16909407 original size:9 final size:9
Alignment explanation
Indices: 16909347--16909416 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
16909337 TTAATATAAC
16909347 TATTAAAA-
1 TATTAAAAT
16909355 TATTAAAAT
1 TATTAAAAT
*
16909364 TATT--TAT
1 TATTAAAAT
16909371 TATTAAAAT
1 TATTAAAAT
16909380 ATATTAAAAT
1 -TATTAAAAT
*
16909390 TATT--TAT
1 TATTAAAAT
16909397 TATTAAAAT
1 TATTAAAAT
*
16909406 TATTAATAT
1 TATTAAAAT
16909415 TA
1 TA
16909417 AAAAATAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
7 12 0.24
8 8 0.16
9 22 0.43
10 9 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TATTAAAAT
Found at i:16909420 original size:16 final size:17
Alignment explanation
Indices: 16909380--16909476 Score: 76
Period size: 19 Copynumber: 5.6 Consensus size: 17
16909370 TTATTAAAAT
16909380 ATATT-AAAATTATTTA
1 ATATTAAAAATTATTTA
*
16909396 TTATT-AAAATTA-TTA
1 ATATTAAAAATTATTTA
* *
16909411 ATATTAAAAAATAATT-
1 ATATTAAAAATTATTTA
*
16909427 ATATTTAATAATAATATTTA
1 ATA-TTAA-AA-ATTATTTA
16909447 ATATTAAAATATTATGTTA
1 ATATTAAAA-ATTAT-TTA
*
16909466 ATATAAAAAAT
1 ATATTAAAAAT
16909477 ACTTAAAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.10
16 20 0.29
17 6 0.09
18 11 0.16
19 21 0.31
20 3 0.04
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (17 bp):
ATATTAAAAATTATTTA
Found at i:16909428 original size:20 final size:19
Alignment explanation
Indices: 16909406--16909477 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
16909396 TTATTAAAAT
16909406 TATTAATATTAAAAAAT-A
1 TATTAATATTAAAAAATAA
* *
16909424 -ATT-ATATTTAATAATAA
1 TATTAATATTAAAAAATAA
* *
16909441 TATTTAATATTAAAATATTA
1 TA-TTAATATTAAAAAATAA
*
16909461 TGTTAATA-TAAAAAATA
1 TATTAATATTAAAAAATA
16909478 CTTAAAATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
16 10 0.24
17 4 0.10
18 8 0.20
19 8 0.20
20 11 0.27
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (19 bp):
TATTAATATTAAAAAATAA
Found at i:16909436 original size:13 final size:13
Alignment explanation
Indices: 16909420--16909449 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16909410 AATATTAAAA
*
16909420 AATAATTATATTT
1 AATAATAATATTT
16909433 AATAATAATATTT
1 AATAATAATATTT
16909446 AATA
1 AATA
16909450 TTAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATAATAATATTT
Found at i:16909525 original size:15 final size:15
Alignment explanation
Indices: 16909522--16909622 Score: 82
Period size: 15 Copynumber: 6.7 Consensus size: 15
16909512 TTTATTAATA
16909522 TATTAATATATTATT
1 TATTAATATATTATT
*
16909537 TATTAATATACTA-T
1 TATTAATATATTATT
16909551 TA-TAATAT-TTATT
1 TATTAATATATTATT
* *
16909564 AAATTAATTAATAATATT
1 -TATTAA-T-ATATTATT
* *
16909582 GATTACTATATTATT
1 TATTAATATATTATT
* *
16909597 TATTAAAATATAATTT
1 TATTAATATATTA-TT
16909613 TATTAATATA
1 TATTAATATA
16909623 ATATATAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
12 2 0.03
13 7 0.10
14 4 0.06
15 31 0.46
16 13 0.19
17 6 0.09
18 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:16909531 original size:23 final size:23
Alignment explanation
Indices: 16909505--16909594 Score: 96
Period size: 23 Copynumber: 4.0 Consensus size: 23
16909495 TTTTATTCTT
16909505 TATATTATTTATTAATATATTAA
1 TATATTATTTATTAATATATTAA
* *
16909528 TATATTATTTATTAATATACTAT
1 TATATTATTTATTAATATATTAA
*
16909551 TATAATATTTATTAA-ATTAATTAA
1 TATATTATTTATTAATA-T-ATTAA
* *
16909575 TA-A-TATTGATTACTATATTA
1 TATATTATTTATTAATATATTA
16909595 TTTATTAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
21 4 0.07
22 10 0.18
23 38 0.67
24 5 0.09
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (23 bp):
TATATTATTTATTAATATATTAA
Found at i:16909645 original size:14 final size:14
Alignment explanation
Indices: 16909506--16909684 Score: 79
Period size: 15 Copynumber: 12.5 Consensus size: 14
16909496 TTTATTCTTT
*
16909506 ATATTATTTAT-TA
1 ATATTATTAATATA
16909519 ATA-TATTAATATA
1 ATATTATTAATATA
*
16909532 TTATTTATTAATATA
1 ATA-TTATTAATATA
*
16909547 CTATTA-TAATAT-
1 ATATTATTAATATA
*
16909559 TTATTAAATTAATTAATA
1 ATATT--ATTAA-T-ATA
*
16909577 ATATTGATTACTATA
1 ATATT-ATTAATATA
*
16909592 TTATTTATTAAAATATA
1 ATA-TTATT--AATATA
*
16909609 ATTTTATTAATATA
1 ATATTATTAATATA
16909623 ATA-TA-TAAT-T-
1 ATATTATTAATATA
* *
16909633 TTATTAATATAATATT
1 ATATT-AT-TAATATA
*
16909649 AT-TTATTTATATA
1 ATATTATTAATATA
*
16909662 ATATTATTTATAAGTA
1 ATATTATTAAT-A-TA
16909678 ATATTAT
1 ATATTAT
16909685 GATCATTGGT
Statistics
Matches: 129, Mismatches: 16, Indels: 39
0.70 0.09 0.21
Matches are distributed among these distances:
10 2 0.02
11 2 0.02
12 15 0.12
13 22 0.17
14 26 0.20
15 27 0.21
16 19 0.15
17 12 0.09
18 4 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (14 bp):
ATATTATTAATATA
Found at i:16909663 original size:23 final size:23
Alignment explanation
Indices: 16909510--16909665 Score: 67
Period size: 23 Copynumber: 6.8 Consensus size: 23
16909500 TTCTTTATAT
*
16909510 TATTTATTAATAT-AT-TAATATA
1 TATTTATTTATATAATATAATA-A
* * *
16909532 TTATTTATTAATATACTATTATAA
1 -TATTTATTTATATAATATAATAA
*
16909556 TATTTA-TTAAATTAAT-TAATAA
1 TATTTATTTATA-TAATATAATAA
* * * *
16909578 TATTGATTACTATATTATTTATTAA
1 TATTTATT--TATATAATATAATAA
* *
16909603 AATATAATTT-TATTAATATAAT-A
1 TAT-TTATTTATA-TAATATAATAA
* *
16909626 TA-TAATTT-TATTAATATAATAT
1 TATTTATTTATA-TAATATAATAA
16909648 TATTTATTTATATAATAT
1 TATTTATTTATATAATAT
16909666 TATTTATAAG
Statistics
Matches: 103, Mismatches: 18, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
21 18 0.17
22 15 0.15
23 38 0.37
24 14 0.14
25 14 0.14
26 4 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
TATTTATTTATATAATATAATAA
Found at i:16909681 original size:16 final size:14
Alignment explanation
Indices: 16909506--16909684 Score: 63
Period size: 12 Copynumber: 13.5 Consensus size: 14
16909496 TTTATTCTTT
16909506 ATATTATTTAT-TA
1 ATATTATTTATATA
16909519 ATA-TA-TTA-AT-
1 ATATTATTTATATA
16909529 ATATTATTTAT-TA
1 ATATTATTTATATA
*
16909542 ATA-TA-CTAT-T-
1 ATATTATTTATATA
*
16909552 ATAATATTTAT-TA
1 ATATTATTTATATA
*
16909565 A-ATTAATTA-ATA
1 ATATTATTTATATA
*
16909577 ATATTGA-TTA-CT-
1 ATATT-ATTTATATA
*
16909589 ATATTATTTATTAAA
1 ATATTATTTA-TATA
*
16909604 ATATAATTT-TATTA
1 ATATTATTTATA-TA
*
16909618 ATA-TA-ATATATA
1 ATATTATTTATATA
*
16909630 ATTTTATTAATATAATA
1 ATATTATT--TAT-ATA
*
16909647 TTATTTATTTATATA
1 ATA-TTATTTATATA
16909662 ATATTATTTATAAGTA
1 ATATTATTTAT-A-TA
16909678 ATATTAT
1 ATATTAT
16909685 GATCATTGGT
Statistics
Matches: 125, Mismatches: 16, Indels: 47
0.66 0.09 0.25
Matches are distributed among these distances:
10 6 0.05
11 13 0.10
12 34 0.27
13 21 0.17
14 13 0.10
15 14 0.11
16 15 0.12
17 4 0.03
18 5 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (14 bp):
ATATTATTTATATA
Found at i:16909681 original size:21 final size:19
Alignment explanation
Indices: 16909589--16909673 Score: 88
Period size: 18 Copynumber: 4.6 Consensus size: 19
16909579 ATTGATTACT
*
16909589 ATATTATTTATTAAAATATA
1 ATATTATTTA-TATAATATA
* *
16909609 ATTTTATTAATATAATAT-
1 ATATTATTTATATAATATA
*
16909627 ATAAT-TTTAT-TAATATA
1 ATATTATTTATATAATATA
*
16909644 ATATTATTTAT-TTATATA
1 ATATTATTTATATAATATA
16909662 ATATTATTTATA
1 ATATTATTTATA
16909674 AGTAATATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
16 6 0.11
17 8 0.15
18 25 0.46
19 7 0.13
20 8 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTATTTATATAATATA
Found at i:16912403 original size:13 final size:13
Alignment explanation
Indices: 16912385--16912421 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
16912375 AGATTACGTA
16912385 AAAAATTATTTTT
1 AAAAATTATTTTT
16912398 AAAAATTATTTTT
1 AAAAATTATTTTT
*
16912411 GAAAATTATTT
1 AAAAATTATTT
16912422 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:16912511 original size:19 final size:20
Alignment explanation
Indices: 16912487--16912527 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
16912477 TTGTTGTTTG
16912487 ATTTTTTTAAAAAAAT-TTA
1 ATTTTTTTAAAAAAATATTA
* *
16912506 ATTTTTTTCAAATAATATTA
1 ATTTTTTTAAAAAAATATTA
16912526 AT
1 AT
16912528 ATAACTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTTTTAAAAAAATATTA
Found at i:16912567 original size:16 final size:16
Alignment explanation
Indices: 16912539--16912617 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 16
16912529 TAACTATTAA
16912539 AATATTAAAAATTATTT
1 AATATT-AAAATTATTT
*
16912556 ATTATTAAAATTA-TT
1 AATATTAAAATTATTT
* *
16912571 AATATTAAAAATAATT
1 AATATTAAAATTATTT
*
16912587 ATATTTTAATAATAATATTT
1 A-ATATTAA-AAT--TATTT
16912607 AATATTAAAAT
1 AATATTAAAAT
16912618 ATTATGTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
15 13 0.26
16 10 0.20
17 11 0.22
18 5 0.10
19 6 0.12
20 5 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTAAAATTATTT
Found at i:16912580 original size:32 final size:35
Alignment explanation
Indices: 16912539--16912622 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 35
16912529 TAACTATTAA
16912539 AATATTAAAAATTATT-TATTATTAA-AAT-TA-TT
1 AATATTAAAAATTATTATATT-TTAATAATATATTT
*
16912571 AATATTAAAAATAATTATATTTTAATAATAATATTT
1 AATATTAAAAATTATTATATTTTAATAAT-ATATTT
16912607 AATATTAAAATATTAT
1 AATATTAAAA-ATTAT
16912623 GTTAATATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 19 0.43
33 7 0.16
35 2 0.05
36 12 0.27
37 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (35 bp):
AATATTAAAAATTATTATATTTTAATAATATATTT
Done.