Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 92 of 131
Found at i:16518726 original size:16 final size:17
Alignment explanation
Indices: 16518696--16518732 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
16518686 TATTTTACAT
16518696 TTTTATTTTATTTAT-A
1 TTTTATTTTATTTATAA
16518712 TTTTATTTT-TATTATAA
1 TTTTATTTTAT-TTATAA
16518729 TTTT
1 TTTT
16518733 TTTAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 13 0.68
17 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATTTATAA
Found at i:16518783 original size:15 final size:15
Alignment explanation
Indices: 16518755--16518795 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
16518745 ATTTTTCTTT
16518755 TATTT-TTATCTTATG
1 TATTTATTAT-TTATG
*
16518770 TATTTATTATTTATT
1 TATTTATTATTTATG
16518785 TATTTATTATT
1 TATTTATTATT
16518796 ACTATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TATTTATTATTTATG
Found at i:16518871 original size:12 final size:12
Alignment explanation
Indices: 16518854--16518906 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
16518844 TTTTCTGTTA
*
16518854 ATATTTATATAT
1 ATATTTATCTAT
16518866 ATATTTATCTGAT
1 ATATTTATCT-AT
*
16518879 -TATATAT-TAT
1 ATATTTATCTAT
16518889 A-ATTTATCTAT
1 ATATTTATCTAT
16518900 -TATTTAT
1 ATATTTAT
16518907 TTTTAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
10 7 0.21
11 10 0.29
12 15 0.44
13 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (12 bp):
ATATTTATCTAT
Found at i:16518926 original size:12 final size:12
Alignment explanation
Indices: 16518888--16518934 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
16518878 TTATATATTA
* *
16518888 TAATTTATCTAT
1 TAATTTATTTGT
16518900 T-ATTTATTT-T
1 TAATTTATTTGT
16518910 TAATTTATTTGT
1 TAATTTATTTGT
*
16518922 TAATTTTTTTGT
1 TAATTTATTTGT
16518934 T
1 T
16518935 TATCTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 2 0.06
11 15 0.48
12 14 0.45
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (12 bp):
TAATTTATTTGT
Found at i:16518931 original size:22 final size:22
Alignment explanation
Indices: 16518868--16518947 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
16518858 TTATATATAT
* *
16518868 ATTTATCTGATTATATA-TTATA
1 ATTTATCT-ATTATTTATTTTTA
16518890 ATTTATCTATTATTTATTTTTA
1 ATTTATCTATTATTTATTTTTA
* * *
16518912 ATTTATTTGTTAATT-TTTTT-
1 ATTTATCTATTATTTATTTTTA
*
16518932 GTTTATCTAATTATTT
1 ATTTATCT-ATTATTT
16518948 TCGTTAATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.13
21 17 0.36
22 24 0.51
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTATCTATTATTTATTTTTA
Found at i:16519841 original size:3 final size:3
Alignment explanation
Indices: 16519833--16519871 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16519823 ATTTATATAT
16519833 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16519872 GATTAGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16519907 original size:5 final size:5
Alignment explanation
Indices: 16519893--16520008 Score: 55
Period size: 5 Copynumber: 22.8 Consensus size: 5
16519883 TTTAACATTC
*
16519893 TTTTA TTTTTA TTTTTA TCTTTA TTTTA TTTT- TTAT- TTTTA TTTTA
1 TTTTA -TTTTA -TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* ** * *
16519939 CTTTT- CTTTA TTTTTA TTTTA CTTTT- CCTTA TTTTTA TTTCA CTTTCA
1 -TTTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA -TTTTA
*
16519987 TTTTG TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
16520009 CTTTAAACAA
Statistics
Matches: 87, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
3 3 0.03
4 11 0.13
5 37 0.43
6 36 0.41
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:16519950 original size:21 final size:21
Alignment explanation
Indices: 16519907--16519984 Score: 108
Period size: 21 Copynumber: 3.9 Consensus size: 21
16519897 ATTTTTATTT
*
16519907 TTATCTTTATTTTA-TTTT--
1 TTATTTTTATTTTACTTTTCC
*
16519925 TTATTTTTATTTTACTTTTCT
1 TTATTTTTATTTTACTTTTCC
16519946 TTATTTTTATTTTACTTTTCC
1 TTATTTTTATTTTACTTTTCC
*
16519967 TTATTTTTATTTCACTTT
1 TTATTTTTATTTTACTTT
16519985 CATTTTGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.24
19 4 0.07
21 37 0.69
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATTTTTATTTTACTTTTCC
Found at i:16519978 original size:6 final size:6
Alignment explanation
Indices: 16519893--16519958 Score: 71
Period size: 6 Copynumber: 10.5 Consensus size: 6
16519883 TTTAACATTC
* *
16519893 TTTTAT TTTTAT TTTTAT CTTTA- TTTTATT TTTTAT TTTTAT TTTACTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTT--TAT
16519943 TCTTTAT TTTTAT TTT
1 T-TTTAT TTTTAT TTT
16519959 ACTTTTCCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
5 4 0.08
6 34 0.67
7 8 0.16
8 3 0.06
9 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:16519995 original size:21 final size:20
Alignment explanation
Indices: 16519912--16520012 Score: 91
Period size: 21 Copynumber: 4.9 Consensus size: 20
16519902 TATTTTTATC
*
16519912 TTTATTTTA-TTTT-TTATT
1 TTTATTTTACTTTTCTTTTT
16519930 TTTATTTTACTTTTCTTTATT
1 TTTATTTTACTTTTCTTT-TT
*
16519951 TTTATTTTACTTTTCCTTATT
1 TTTATTTTACTTTT-CTTTTT
* *
16519972 TTTATTTCACTTTCATTTTGTTT
1 TTTATTTTACTTT--TCTT-TTT
16519995 TATTATTTTA-TTTTCTTT
1 T-TTATTTTACTTTTCTTT
16520013 AAACAAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
18 9 0.13
19 4 0.06
20 3 0.04
21 33 0.49
22 5 0.07
23 7 0.10
24 7 0.10
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (20 bp):
TTTATTTTACTTTTCTTTTT
Found at i:16520066 original size:57 final size:56
Alignment explanation
Indices: 16520005--16520523 Score: 202
Period size: 57 Copynumber: 9.1 Consensus size: 56
16519995 TATTATTTTA
* * *
16520005 TTTTCTTTAAACA-AAA-TAAAAAATATATATTTTTGGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAAAATAAATTAAAAAA-A-AGA-TTTTGAGGAAAAGTTGAAAGTATCAAT
* *
16520062 TTTTC-TTAAAAATAAATTTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCGAT
1 TTTTCTTTAAAAATAAA--TTAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAAT
*** * ** * * *
16520119 TTTTC-TCGGAATTAAAGTTTTCAAGAAATATTTT---------TTG--GGTATCAAT
1 TTTTCTTTAAAAATAAA--TTAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAAT
*
16520165 TTTTC-TTAAAAATAAATTTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAAAATAAA--TTAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAAT
** * ** * *
16520222 TTTTC-TCGAAATTAAAGTTTTGAAGAAATATTTTTG-GGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAAAATAAA--TTAAAAAAAAGA-TTTTGAGG-AAAAGTTGAAAGTATCAAT
* * * *
16520280 TTTTC-TTAAAAATAAATTTTCAAAAAAGGTTTATTTTTTAGGAAAAGTTGAAAGTACCAA-
1 TTTTCTTTAAAAATAAA--TTAAAAAAAAG---A-TTTTGAGGAAAAGTTGAAAGTATCAAT
* * * ** * *
16520340 TTTTCCTCAAAATTAAAGTTTCCAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAAAATAAA--TTAAAAAAAAGA-TTTTGAG-GAAAAGTTGAAAGTATCAAT
* * * * *
16520399 TTTTC-TTAAAAATAAGTTTTCAAAAAAAGGTTTTTTTTTAGAAAAAGTTGAAAGTATCAA-
1 TTTTCTTTAAAAATAA--ATT-AAAAAAAAG---ATTTTGAGGAAAAGTTGAAAGTATCAAT
* * * *
16520459 TTTTCCTTAAAAATAAATTTTTAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAAAATAAA--TTAAAAAAAAG--ATTTTGAGGAAAAGTTGAAAGTATCAAT
16520519 TTTTC
1 TTTTC
16520524 CCTGTATAAA
Statistics
Matches: 360, Mismatches: 67, Indels: 67
0.73 0.14 0.14
Matches are distributed among these distances:
46 32 0.09
48 3 0.01
55 3 0.01
56 6 0.02
57 91 0.25
58 79 0.22
59 38 0.11
60 29 0.08
61 76 0.21
62 3 0.01
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (56 bp):
TTTTCTTTAAAAATAAATTAAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:16520180 original size:103 final size:104
Alignment explanation
Indices: 16520052--16520462 Score: 410
Period size: 119 Copynumber: 3.7 Consensus size: 104
16520042 GAAAAGTTGA
*
16520052 AAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCG
1 AAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCA
*
16520117 ATTTTTCTCGGAATTAAAGTTTTCAAGAAATATTTTTTG
66 ATTTTTCTCGAAATTAAAGTTTTCAAGAAATATTTTTTG
*
16520156 -GGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCA
1 AAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCA
*
16520220 ATTTTTCTCGAAATTAAAGTTTTGAAGAAATATTTTTGGGAAAAAGTTG
66 ATTTTTCTCGAAATTAAAGTTTTCAAGAAATA-TTTT---------TTG
* *
16520269 AAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTATTTTTTAGGAAAAGTTGAAAG
1 -AAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAG---A-TTTTGAGGAAAAGTTGAAAG
* * * * *
16520334 TACCAATTTTCCTCAAAATTAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTG
61 TATCAATTTTTCTCGAAATTAAAGTTTTCAAGAAATA-TTTT---------TTG
* * * *
16520388 AAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAAAAAAGGTTTTTTTTTAGAAAAAGTTGAAAG
1 -AAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA-G---ATTTTGAGGAAAAGTTGAAAG
16520453 TATCAATTTT
61 TATCAATTTT
16520463 CCTTAAAAAT
Statistics
Matches: 271, Mismatches: 19, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
103 92 0.34
104 4 0.01
113 3 0.01
115 36 0.13
118 1 0.00
119 131 0.48
120 4 0.01
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (104 bp):
AAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCA
ATTTTTCTCGAAATTAAAGTTTTCAAGAAATATTTTTTG
Found at i:16520280 original size:58 final size:58
Alignment explanation
Indices: 16520157--16520523 Score: 390
Period size: 58 Copynumber: 6.2 Consensus size: 58
16520147 TATTTTTTGG
16520157 GTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAAG-A-TTTTGAGGAAAAGTTGAAA
1 GTATCAATTTTTCTTAAAAATAAAGTTTTC-AAAAAAGTATTTTTG-GGAAAAGTTGAAA
** * * *
16520214 GTATCAATTTTTCTCGAAATTAAAGTTTTGAAGAAA-TATTTTTGGGAAAAAGTTGAAA
1 GTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGTATTTTTGGG-AAAAGTTGAAA
*
16520272 GTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAGGTTTATTTTTTAGGAAAAGTTGAAA
1 GTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAA-G--TA-TTTTTGGGAAAAGTTGAAA
* * * * * *
16520333 GTACCAATTTTCCTCAAAATTAAAGTTTCCAAAAAA-TATTTTTGGAAAAAAGTTGAAA
1 GTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGTATTTTTGG-GAAAAGTTGAAA
* * *
16520391 GTATCAATTTTTCTTAAAAAT-AAGTTTTCAAAAAAAGGTTTTTTTTTAGAAAAAGTTGAAA
1 GTATCAATTTTTCTTAAAAATAAAGTTTTC-AAAAAA-G--TATTTTTGGGAAAAGTTGAAA
* * *
16520452 GTATCAATTTTCCTTAAAAATAAA-TTTTTAAAAAAGGTTTTTTTGAGGAAAAGTTGAAA
1 GTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAA-GTATTTTTG-GGAAAAGTTGAAA
16520511 GTATCAATTTTTC
1 GTATCAATTTTTC
16520524 CCTGTATAAA
Statistics
Matches: 262, Mismatches: 30, Indels: 34
0.80 0.09 0.10
Matches are distributed among these distances:
57 51 0.19
58 84 0.32
59 24 0.09
60 8 0.03
61 69 0.26
62 26 0.10
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (58 bp):
GTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGTATTTTTGGGAAAAGTTGAAA
Found at i:16520370 original size:119 final size:119
Alignment explanation
Indices: 16520157--16520523 Score: 514
Period size: 119 Copynumber: 3.1 Consensus size: 119
16520147 TATTTTTTGG
* *
16520157 GTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAG---A-TTTTGAGGAAAAGTTGAAAGTAT
1 GTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTATTTTTTAGGAAAAGTTGAAAGTAT
* * * *
16520218 CAATTTTTCTCGAAATTAAAGTTTTGAAGAAATATTTTTGGGAAAAAGTTGAAA
66 CAATTTTCCTCAAAATTAAAGTTTTCAAAAAATATTTTTGGGAAAAAGTTGAAA
*
16520272 GTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTATTTTTTAGGAAAAGTTGAAAGTAC
1 GTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTATTTTTTAGGAAAAGTTGAAAGTAT
* *
16520337 CAATTTTCCTCAAAATTAAAGTTTCCAAAAAATATTTTTGGAAAAAAGTTGAAA
66 CAATTTTCCTCAAAATTAAAGTTTTCAAAAAATATTTTTGGGAAAAAGTTGAAA
* *
16520391 GTATCAATTTTTCTTAAAAATAAGTTTTCAAAAAAAGGTTT-TTTTTTAGAAAAAGTTGAAAGTA
1 GTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAAGGTTTATTTTTTAGGAAAAGTTGAAAGTA
* * * *
16520455 TCAATTTTCCTTAAAAATAAA-TTTTTAAAAAAGGTTTTTTTGAGG-AAAAGTTGAAA
65 TCAATTTTCCTCAAAATTAAAGTTTTCAAAAAA--TATTTTTG-GGAAAAAGTTGAAA
16520511 GTATCAATTTTTC
1 GTATCAATTTTTC
16520524 CCTGTATAAA
Statistics
Matches: 226, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
115 36 0.16
118 10 0.04
119 137 0.61
120 42 0.19
121 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (119 bp):
GTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTATTTTTTAGGAAAAGTTGAAAGTAT
CAATTTTCCTCAAAATTAAAGTTTTCAAAAAATATTTTTGGGAAAAAGTTGAAA
Found at i:16523031 original size:82 final size:82
Alignment explanation
Indices: 16522938--16523134 Score: 263
Period size: 82 Copynumber: 2.4 Consensus size: 82
16522928 TAAAGTATGA
* *
16522938 ATTT-CATTTTCTTGATGATGATATCCAAGATATTTCCAAAATCAATTGGTGATGATATCCGAGT
1 ATTTGCATTTTCTTGATGGTGATATCCAAGATATTTCCAAAATCAATCGGTGATGATATCCGAGT
*
16523002 TTAAAGTTTAAATTTGT
66 TTAAAGTTTAAATTTGC
* * * * * * *
16523019 ATTTGCATTTTCTTGGTGGTAAAATCCAAGACATTTTCAAAATCACTCGGTGGTGATATCCGAGT
1 ATTTGCATTTTCTTGATGGTGATATCCAAGATATTTCCAAAATCAATCGGTGATGATATCCGAGT
16523084 TTAAAGTTTAAATTTGC
66 TTAAAGTTTAAATTTGC
* * *
16523101 ATTTGTATTCTCTCGATGGTGATATCCAAG-TATT
1 ATTTGCATTTTCTTGATGGTGATATCCAAGATATT
16523135 AAAGCTTGAA
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
81 7 0.07
82 91 0.93
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (82 bp):
ATTTGCATTTTCTTGATGGTGATATCCAAGATATTTCCAAAATCAATCGGTGATGATATCCGAGT
TTAAAGTTTAAATTTGC
Found at i:16523448 original size:49 final size:48
Alignment explanation
Indices: 16523331--16523654 Score: 287
Period size: 42 Copynumber: 7.1 Consensus size: 48
16523321 AAATAAAGGT
* * * *
16523331 CATTTGCA-TCTTTTCGGTGGTAATATCTAAGTGTTAAAGTTTGAATTG
1 CATTTGCATTC-TCTCGGTGGTGATATCCAAGTATTAAAGTTTGAATTG
* *
16523379 CA--T-C--T-TCTCGGTGGTGATATCTAAGT-TTAAAGTTTTGAATTTA
1 CATTTGCATTCTCTCGGTGGTGATATCCAAGTATTAAAG-TTTGAA-TTG
* * *
16523422 CATTTGCATTCTCTCAGTGGTAATATCTAAGTATTAAAGTTTGAATTG
1 CATTTGCATTCTCTCGGTGGTGATATCCAAGTATTAAAGTTTGAATTG
*
16523470 CA--T-C-TT-T-TTGGTGGTGATATCCAAGT-TTAAAGTTTGAATTTG
1 CATTTGCATTCTCTCGGTGGTGATATCCAAGTATTAAAGTTTGAA-TTG
*
16523512 CATTTGCATTCTCTCGGTGGTGATATCCGAGTATTAAAGTTTGAATTG
1 CATTTGCATTCTCTCGGTGGTGATATCCAAGTATTAAAGTTTGAATTG
** *
16523560 CA--T-C--T-TCTCGCAGGTGATATCCGAGT-TTAAAGTTTGAATTTG
1 CATTTGCATTCTCTCGGTGGTGATATCCAAGTATTAAAGTTTGAA-TTG
* * * *
16523602 CATTTGCATTCTCTTGATGGTGATATCTAAGTATTAAAGTTTGAATTA
1 CATTTGCATTCTCTCGGTGGTGATATCCAAGTATTAAAGTTTGAATTG
16523650 CATTT
1 CATTT
16523655 TTTCGATGGT
Statistics
Matches: 231, Mismatches: 20, Indels: 50
0.77 0.07 0.17
Matches are distributed among these distances:
41 30 0.13
42 69 0.30
43 6 0.03
44 5 0.02
45 6 0.03
46 6 0.03
47 2 0.01
48 52 0.23
49 49 0.21
50 6 0.03
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (48 bp):
CATTTGCATTCTCTCGGTGGTGATATCCAAGTATTAAAGTTTGAATTG
Found at i:16523538 original size:48 final size:49
Alignment explanation
Indices: 16523479--16523648 Score: 214
Period size: 48 Copynumber: 3.7 Consensus size: 49
16523469 GCATCTTTTT
16523479 GGTGGTGATATCCAAGT-TTAAAGTTTGAATTTGCATTTGCATTCTCTC
1 GGTGGTGATATCCAAGTATTAAAGTTTGAATTTGCATTTGCATTCTCTC
*
16523527 GGTGGTGATATCCGAGTATTAAAGTTTGAA-TTGCA--T-C--T-TCTC
1 GGTGGTGATATCCAAGTATTAAAGTTTGAATTTGCATTTGCATTCTCTC
** * *
16523569 GCAGGTGATATCCGAGT-TTAAAGTTTGAATTTGCATTTGCATTCTCTT
1 GGTGGTGATATCCAAGTATTAAAGTTTGAATTTGCATTTGCATTCTCTC
* *
16523617 GATGGTGATATCTAAGTATTAAAGTTTGAATT
1 GGTGGTGATATCCAAGTATTAAAGTTTGAATT
16523649 ACATTTTTTC
Statistics
Matches: 105, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
41 12 0.11
42 24 0.23
43 1 0.01
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 37 0.35
49 26 0.25
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (49 bp):
GGTGGTGATATCCAAGTATTAAAGTTTGAATTTGCATTTGCATTCTCTC
Found at i:16523552 original size:90 final size:90
Alignment explanation
Indices: 16523331--16523669 Score: 473
Period size: 90 Copynumber: 3.8 Consensus size: 90
16523321 AAATAAAGGT
* *
16523331 CATTTGCA-TCTTTTCGGTGGTAATATCTAAGTGTTAAAGTTTGAATTGCATCTTCTCGGTGGTG
1 CATTTGCATTC-TCTCGGTGGTAATATCTAAGTATTAAAGTTTGAATTGCATCTTCTCGGTGGTG
* *
16523395 ATATCTAAGTTTAAAGTTTTGAATTTA
65 ATATCCAAGTTTAAAG-TTTGAATTTG
* * *
16523422 CATTTGCATTCTCTCAGTGGTAATATCTAAGTATTAAAGTTTGAATTGCATCTTTTTGGTGGTGA
1 CATTTGCATTCTCTCGGTGGTAATATCTAAGTATTAAAGTTTGAATTGCATCTTCTCGGTGGTGA
16523487 TATCCAAGTTTAAAGTTTGAATTTG
66 TATCCAAGTTTAAAGTTTGAATTTG
* ** **
16523512 CATTTGCATTCTCTCGGTGGTGATATCCGAGTATTAAAGTTTGAATTGCATCTTCTCGCAGGTGA
1 CATTTGCATTCTCTCGGTGGTAATATCTAAGTATTAAAGTTTGAATTGCATCTTCTCGGTGGTGA
*
16523577 TATCCGAGTTTAAAGTTTGAATTTG
66 TATCCAAGTTTAAAGTTTGAATTTG
* * * * * * *
16523602 CATTTGCATTCTCTTGATGGTGATATCTAAGTATTAAAGTTTGAATTACATTTTTTCGATGGTGA
1 CATTTGCATTCTCTCGGTGGTAATATCTAAGTATTAAAGTTTGAATTGCATCTTCTCGGTGGTGA
16523667 TAT
66 TAT
16523670 TCGAGTTTCC
Statistics
Matches: 222, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
90 149 0.67
91 71 0.32
92 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (90 bp):
CATTTGCATTCTCTCGGTGGTAATATCTAAGTATTAAAGTTTGAATTGCATCTTCTCGGTGGTGA
TATCCAAGTTTAAAGTTTGAATTTG
Found at i:16524041 original size:48 final size:48
Alignment explanation
Indices: 16523987--16524395 Score: 391
Period size: 48 Copynumber: 8.7 Consensus size: 48
16523977 AGTAGTTTAA
*
16523987 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGTTTTTTCAAGATGAAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAAT
* *
16524035 TTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTTCCAAGAT-AAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAAT
*
16524082 AATTTTAAAATTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATG-AT
1 --TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAAT
* * * *
16524131 ATTTTAAAGTTGTTAAAG-CTTTGCTTAGAGAAGCTTTTTCAAGATGAGAA
1 -TTTTAAAGTTGTT-GAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGA-AT
* * *
16524181 TTTTAAAGTTGTTGAGTCTCTCCTTAGAGGAGC-TTTTCAAGATAAAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAAT
* * ** *
16524228 TTTTAAAGTTGTTGAACCTCTACTTAGATAAGCCTTTTTCAAGATGAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAGATGAAT
** * **
16524277 TTTT-AAGTTGTCAAGCTTCTGCTTAGAGGAGCCATTT----AT--AT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAAT
* * * *
16524318 TTTAAAAAGTCGTTGAGCCTTTGCTTAGAGGAGCCTCTTT-AA-AT---T
1 TTT-TAAAGTTGTTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAGATGAAT
* *
16524363 TTTTAAAGTTGTTGAGCCTTTGCTTATAGGAGC
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC
16524396 CCTCTTAAAT
Statistics
Matches: 302, Mismatches: 45, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
41 4 0.01
43 25 0.08
44 30 0.10
45 4 0.01
46 2 0.01
47 35 0.12
48 114 0.38
49 87 0.29
50 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAAT
Found at i:16524159 original size:97 final size:96
Alignment explanation
Indices: 16523984--16524308 Score: 415
Period size: 97 Copynumber: 3.4 Consensus size: 96
16523974 TTCAGTAGTT
* *
16523984 TAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGTTTTTTCAAGATGAATTTTTAAAGTTGTTG
1 TAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTA
* * * *
16524049 AGCCTCTGTTTAGAGGAGCTTTTCCAAGATAA
66 AG-CTCTGCTTAGAGAAGCTTTTTCAAGATGA
*
16524081 TAATTTTAAAATTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATG-ATATTTTAAAGTTGTT
1 TAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAAT-TTTTAAAGTTGTT
*
16524145 AAAGCTTTGCTTAGAGAAGCTTTTTCAAGATGA
65 -AAGCTCTGCTTAGAGAAGCTTTTTCAAGATGA
* * * *
16524178 GAATTTTAAAGTTGTTGAGTCTCTCCTTAGAGGAGC-TTTTCAAGATAAATTTTTAAAGTTGTTG
1 TAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAATTTTTAAAGTTGTT-
* * *
16524242 AACCTCTACTTAGATAAGCCTTTTTCAAGATGA
65 AAGCTCTGCTTAGAGAAG-CTTTTTCAAGATGA
** *
16524275 -AATTTT-AAGTTGTCAAGCTTCTGCTTAGAGGAGC
1 TAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC
16524309 CATTTATATT
Statistics
Matches: 201, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
95 23 0.11
96 45 0.22
97 131 0.65
98 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (96 bp):
TAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAATTTTTAAAGTTGTTA
AGCTCTGCTTAGAGAAGCTTTTTCAAGATGA
Found at i:16524345 original size:43 final size:43
Alignment explanation
Indices: 16524296--16524450 Score: 193
Period size: 44 Copynumber: 3.5 Consensus size: 43
16524286 GTCAAGCTTC
* * *
16524296 TGCTTAGAGGAGCCATTTATATTTTAAAAAGTCGTTGAGCCTT
1 TGCTTAGAGGAGCCCTTTAAATTTTTAAAAGTCGTTGAGCCTT
* *
16524339 TGCTTAGAGGAGCCTCTTTAAATTTTTTAAAGTTGTTGAGCCTT
1 TGCTTAGAGGAGCC-CTTTAAATTTTTAAAAGTCGTTGAGCCTT
* * *
16524383 TGCTTATAGGAGCCCTCTTAAATTTTTAAAAGTCGTTAAACCTT
1 TGCTTAGAGGAGCCCT-TTAAATTTTTAAAAGTCGTTGAGCCTT
* *
16524427 TGCTGAGAAGAGCCCTTTTAAATT
1 TGCTTAGAGGAGCCC-TTTAAATT
16524451 CGAAAAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
43 16 0.17
44 79 0.82
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (43 bp):
TGCTTAGAGGAGCCCTTTAAATTTTTAAAAGTCGTTGAGCCTT
Found at i:16525755 original size:14 final size:14
Alignment explanation
Indices: 16525730--16525763 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16525720 AAAAATATAC
*
16525730 AATAATTGATAAAA
1 AATAATTAATAAAA
*
16525744 ATTAATTAATAAAA
1 AATAATTAATAAAA
16525758 AATAAT
1 AATAAT
16525764 AATTTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AATAATTAATAAAA
Found at i:16527643 original size:5 final size:6
Alignment explanation
Indices: 16527620--16527679 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
16527610 TAATAACTAT
* * *
16527620 TAAAATA TAAAAA TAAAAA TAAAAA TAATATA TAAAAAA CAAAACA AAAAAA
1 TAAAA-A TAAAAA TAAAAA TAAAAA TAA-AAA T-AAAAA TAAAA-A TAAAAA
16527672 TAAAAA TA
1 TAAAAA TA
16527680 TCAAACCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
6 28 0.62
7 15 0.33
8 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:16527663 original size:25 final size:24
Alignment explanation
Indices: 16527624--16527673 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
16527614 AACTATTAAA
*
16527624 ATATAAAAATAAAAATAAAAATAAT
1 ATATAAAAATAAAAACAAAAA-AAT
16527649 ATATAAAAA-ACAAAACAAAAAAAT
1 ATATAAAAATA-AAAACAAAAAAAT
16527673 A
1 A
16527674 AAAATATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (24 bp):
ATATAAAAATAAAAACAAAAAAAT
Found at i:16527670 original size:27 final size:25
Alignment explanation
Indices: 16527624--16527674 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
16527614 AACTATTAAA
* *
16527624 ATATAAAAATAAAAATAAAAATAAT
1 ATATAAAAACAAAAAAAAAAATAAT
16527649 ATATAAAAAACAAAACAAAAAAATAA
1 ATAT-AAAAACAAAA-AAAAAAATAA
16527675 AAATATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 9 0.41
27 9 0.41
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (25 bp):
ATATAAAAACAAAAAAAAAAATAAT
Found at i:16531799 original size:102 final size:103
Alignment explanation
Indices: 16531683--16531870 Score: 272
Period size: 103 Copynumber: 1.8 Consensus size: 103
16531673 ATTTTATTTG
* * *
16531683 TGAAAACAATTTATTTTCAAAAATATC-TCCAATATGTTGGTAAGATTTT-TTTGTAAAAATTAT
1 TGAAAACAATTTATTTTCAAAAATATCTTCCAATATGTTGATAAAATTTTCTGT-TAAAAATTAT
* * *
16531746 CTTCTAATATGTTGGTAGGATTAAAATTTTATTTGTTTA
65 CCTCCAATATATTGGTAGGATTAAAATTTTATTTGTTTA
* * *
16531785 TGAAAATAATTTATTTTTAAAAATATCTTCCAATATGTTGATAAAATTTTCTGTTAAAGATTATC
1 TGAAAACAATTTATTTTCAAAAATATCTTCCAATATGTTGATAAAATTTTCTGTTAAAAATTATC
16531850 CTCCAATATATTGGTAGGATT
66 CTCCAATATATTGGTAGGATT
16531871 TTTAAAAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
102 25 0.33
103 48 0.64
104 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (103 bp):
TGAAAACAATTTATTTTCAAAAATATCTTCCAATATGTTGATAAAATTTTCTGTTAAAAATTATC
CTCCAATATATTGGTAGGATTAAAATTTTATTTGTTTA
Found at i:16532100 original size:26 final size:29
Alignment explanation
Indices: 16532070--16532127 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
16532060 TAATATCATA
16532070 TATCATGCAA-TAAA-AT-ATCATACAAT
1 TATCATGCAATTAAATATAATCATACAAT
*
16532096 TATCATGCAATTAAATATAATCATGCAAT
1 TATCATGCAATTAAATATAATCATACAAT
16532125 TAT
1 TAT
16532128 ATAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 10 0.36
27 4 0.14
28 2 0.07
29 12 0.43
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (29 bp):
TATCATGCAATTAAATATAATCATACAAT
Found at i:16533326 original size:18 final size:17
Alignment explanation
Indices: 16533305--16533347 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
16533295 GAATAAAATC
* *
16533305 AAATAAAATTAGATAAAA
1 AAATAAAATCAAAT-AAA
*
16533323 AAATACAATCAAATAAA
1 AAATAAAATCAAATAAA
16533340 AAATAAAA
1 AAATAAAA
16533348 ATTTTCTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAAATCAAATAAA
Found at i:16534950 original size:16 final size:16
Alignment explanation
Indices: 16534930--16534975 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 16
16534920 ATTTTCAGTC
16534930 ATTTTCGAAATAATTT
1 ATTTTCGAAATAATTT
* * *
16534946 TTTTTTGAAGTAA--T
1 ATTTTCGAAATAATTT
16534960 ATTTTCGAAATAATTT
1 ATTTTCGAAATAATTT
16534976 GTATATCTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
14 11 0.50
16 11 0.50
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (16 bp):
ATTTTCGAAATAATTT
Found at i:16535551 original size:17 final size:18
Alignment explanation
Indices: 16535529--16535563 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
16535519 GTGCCAACAC
16535529 AAAATG-AATAATTAAAA
1 AAAATGAAATAATTAAAA
16535546 AAAATGAAAATAATTAAA
1 AAAATG-AAATAATTAAA
16535564 CGGGCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAATGAAATAATTAAAA
Found at i:16538898 original size:22 final size:23
Alignment explanation
Indices: 16538869--16538920 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
16538859 TTAAATTTAA
16538869 AAATATTATTCTAA-TTC-AAAT
1 AAATATTATTCTAATTTCAAAAT
*
16538890 AAATCATTATTTTAATTTCAAAAT
1 AAAT-ATTATTCTAATTTCAAAAT
16538914 AAA-ATTA
1 AAATATTA
16538921 AAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.15
22 13 0.48
23 3 0.11
24 7 0.26
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATTATTCTAATTTCAAAAT
Found at i:16539010 original size:2 final size:2
Alignment explanation
Indices: 16539003--16539029 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16538993 TTAAGAAAAG
16539003 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16539030 TTTAAGTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16540924 original size:2 final size:2
Alignment explanation
Indices: 16540917--16540946 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16540907 TAATACTGTA
16540917 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
16540947 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16544734 original size:2 final size:2
Alignment explanation
Indices: 16544723--16544762 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
16544713 ACACACATTC
*
16544723 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16544763 TAGAAAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16547197 original size:13 final size:12
Alignment explanation
Indices: 16547155--16547218 Score: 57
Period size: 13 Copynumber: 5.6 Consensus size: 12
16547145 TATTTAACGG
16547155 TTAAAATA-TTA
1 TTAAAATATTTA
* *
16547166 TTAATATTTTTA
1 TTAAAATATTTA
16547178 TTAAAAATATTTA
1 TT-AAAATATTTA
16547191 TCTAAAATA--TA
1 T-TAAAATATTTA
16547202 TT-AAA-ATTTA
1 TTAAAATATTTA
16547212 TTAAAAT
1 TTAAAAT
16547219 TTTCTTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 3 0.07
10 5 0.12
11 12 0.29
12 5 0.12
13 15 0.36
14 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
TTAAAATATTTA
Found at i:16547219 original size:10 final size:10
Alignment explanation
Indices: 16547186--16547220 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
16547176 TATTAAAAAT
16547186 ATTTATCTAAA
1 ATTTAT-TAAA
*
16547197 ATATATTAAA
1 ATTTATTAAA
16547207 ATTTATTAAA
1 ATTTATTAAA
16547217 ATTT
1 ATTT
16547221 TCTTACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:16547286 original size:13 final size:14
Alignment explanation
Indices: 16547263--16547300 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
16547253 GTCAATATAT
*
16547263 CAATTTAAATTTTA
1 CAATTTTAATTTTA
16547277 -AATTTTAATTTTA
1 CAATTTTAATTTTA
16547290 TCAATTTTAAT
1 -CAATTTTAAT
16547301 AAATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
CAATTTTAATTTTA
Found at i:16547548 original size:104 final size:105
Alignment explanation
Indices: 16547440--16547678 Score: 263
Period size: 104 Copynumber: 2.3 Consensus size: 105
16547430 CTCGTATATT
* *
16547440 AATTATAAAAATAACATTTTTCTTATAATTATTTCCTATAATATCT-T-ATATCGTAATTATAAA
1 AATTATAAAAATAACATTTTT-TTATAATTATTTACTATAATAT-TATCATATCATAATTATAAA
* *
16547503 AATATCT-TTATCTTAAATTGATTATTATACCCTCATATCAA
64 AATATCTATTATCTTAAATTAATTATTACACCCTCATATCAA
* * *
16547544 AATTA-CAAAATATC-TATTTTTTATAATTATTTACTATAATATTATCATATCATAATTATGAAA
1 AATTATAAAAATAACAT-TTTTTTATAATTATTTACTATAATATTATCATATCATAATTATAAAA
* * ** * * *
16547607 ATATGTATTCTCTTAAATTAATTATTACGTCTTTATATCAT
65 ATATCTATTATCTTAAATTAATTATTACACCCTCATATCAA
*
16547648 AATTATAAAAATATACAATTTTTTAATAATT
1 AATTATAAAAATA-AC-ATTTTTTTATAATT
16547679 CTCTCGTATC
Statistics
Matches: 110, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
101 1 0.01
102 23 0.21
103 31 0.28
104 36 0.33
105 6 0.05
106 1 0.01
107 11 0.10
108 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (105 bp):
AATTATAAAAATAACATTTTTTTATAATTATTTACTATAATATTATCATATCATAATTATAAAAA
TATCTATTATCTTAAATTAATTATTACACCCTCATATCAA
Found at i:16547915 original size:18 final size:19
Alignment explanation
Indices: 16547877--16547916 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16547867 TTTCAAAATT
* *
16547877 ATTGTAATACTTATATTAA
1 ATTGTAATACTAATATAAA
16547896 ATTGTAATAC-AATATAAA
1 ATTGTAATACTAATATAAA
16547914 ATT
1 ATT
16547917 AATTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTGTAATACTAATATAAA
Found at i:16548169 original size:129 final size:129
Alignment explanation
Indices: 16547889--16548130 Score: 324
Period size: 129 Copynumber: 1.9 Consensus size: 129
16547879 TGTAATACTT
* * * * *
16547889 ATATTAAATTGTAA-TACAATATAAAATTAATTATATATTAAATTATTAAAATATCATCACAATT
1 ATATAAAATT-TAAGTATAATATAAAATTAACTACATATTAAATTATTAAAATACCATCACAATT
* * * * * *
16547953 GGTTTATAAAAATTTGACATATGACATTTTATTTGAAAATTATTATAATACACCTATTAAATTAC
65 GCTTCATAAAAATTTGACATATAAAATTTTATTTGAAAATTACTATAATACACATATTAAATTAC
* * * *
16548018 ATATAAAATTTTAGTATAATATAAAATTAACTACATATTAAATTATTAAAATACCCTTACTATTG
1 ATATAAAATTTAAGTATAATATAAAATTAACTACATATTAAATTATTAAAATACCATCACAATTG
*
16548083 CTTCATAAAAATTTGACATATAAAATTTTATTTGAAATTTACTATAAT
66 CTTCATAAAAATTTGACATATAAAATTTTATTTGAAAATTACTATAAT
16548131 GCCAATATTA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 2 0.02
129 95 0.98
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.41
Consensus pattern (129 bp):
ATATAAAATTTAAGTATAATATAAAATTAACTACATATTAAATTATTAAAATACCATCACAATTG
CTTCATAAAAATTTGACATATAAAATTTTATTTGAAAATTACTATAATACACATATTAAATTAC
Found at i:16553123 original size:22 final size:23
Alignment explanation
Indices: 16553097--16553140 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16553087 AATATACTTT
16553097 CAATTTTA-CTTTTAGTTTTTCA
1 CAATTTTATCTTTTAGTTTTTCA
*
16553119 CAATTTTATTTTTTAGTTTTTC
1 CAATTTTATCTTTTAGTTTTTC
16553141 TACATGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (23 bp):
CAATTTTATCTTTTAGTTTTTCA
Found at i:16557402 original size:3 final size:3
Alignment explanation
Indices: 16557394--16557429 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16557384 TCATTCTCCT
16557394 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16557430 ATTTTTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16561690 original size:8 final size:7
Alignment explanation
Indices: 16561669--16561706 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
16561659 TTTTCAAATG
16561669 AAAACAA
1 AAAACAA
16561676 AAAA-AA
1 AAAACAA
*
16561682 AAACCAA
1 AAAACAA
16561689 AAAACAA
1 AAAACAA
16561696 AAAACAA
1 AAAACAA
16561703 AAAA
1 AAAA
16561707 GACATTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:16562486 original size:2 final size:2
Alignment explanation
Indices: 16562479--16562512 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
16562469 AAGTTTAACA
*
16562479 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16562513 TAAGCCGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16563636 original size:206 final size:206
Alignment explanation
Indices: 16563276--16563678 Score: 725
Period size: 206 Copynumber: 2.0 Consensus size: 206
16563266 CCAACGGATT
16563276 TTTTCTTCCTTTTTTCTTTCTTTATTCTCAATTTTCCATTTTTCCCTCAAGCATTCAAATCAGAG
1 TTTTCTTCCTTTTTTCTTTCTTTATTCTCAATTTTCCATTTTTCCCTCAAGCATTCAAATCAGAG
*
16563341 AATTGCCATAATTCCTAGAAAACAGCTGTCCTACATCAAAATCTTTAGTTATTTAAAGTATAAAG
66 AATTGCCATAAATCCTAGAAAACAGCTGTCCTACATCAAAATCTTTAGTTATTTAAAGTATAAAG
16563406 TAACAAAGTAAAATAAACGCTTCATTTGTTTGCAACTTTTGCTATTTGCTTTTGCTTTCATAAGC
131 TAACAAAGTAAAATAAACGCTTCATTTGTTTGCAACTTTTGCTATTTGCTTTTGCTTTCATAAGC
16563471 AACTTAGCTTC
196 AACTTAGCTTC
*
16563482 TTTTCTTCCTTTTTTTTTTCTTTATTCTCAATTTTCCATTTTTCCCTCAAGCATTCAAATCAGAG
1 TTTTCTTCCTTTTTTCTTTCTTTATTCTCAATTTTCCATTTTTCCCTCAAGCATTCAAATCAGAG
* * * * *
16563547 CATTGCCATAAATCCTGGAACACAGCTGTCCTACATCGAAATCTTTAGTTATTTAAAGTCTAAAG
66 AATTGCCATAAATCCTAGAAAACAGCTGTCCTACATCAAAATCTTTAGTTATTTAAAGTATAAAG
* *
16563612 TAACAAAGTAAAATTAATGCTTCATTTGTTTGCAACTTTTGCTATTTGCTTTTGCTTTCATAAGC
131 TAACAAAGTAAAATAAACGCTTCATTTGTTTGCAACTTTTGCTATTTGCTTTTGCTTTCATAAGC
16563677 AA
196 AA
16563679 GAAAGCAAAA
Statistics
Matches: 188, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
206 188 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (206 bp):
TTTTCTTCCTTTTTTCTTTCTTTATTCTCAATTTTCCATTTTTCCCTCAAGCATTCAAATCAGAG
AATTGCCATAAATCCTAGAAAACAGCTGTCCTACATCAAAATCTTTAGTTATTTAAAGTATAAAG
TAACAAAGTAAAATAAACGCTTCATTTGTTTGCAACTTTTGCTATTTGCTTTTGCTTTCATAAGC
AACTTAGCTTC
Found at i:16563919 original size:16 final size:15
Alignment explanation
Indices: 16563898--16563931 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
16563888 TCTACCAAAT
16563898 AAACAAAAAAAATACA
1 AAACAAAAAAAA-ACA
*
16563914 AAACAAAATAAAACA
1 AAACAAAAAAAAACA
16563929 AAA
1 AAA
16563932 GTATCAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (15 bp):
AAACAAAAAAAAACA
Found at i:16569134 original size:81 final size:81
Alignment explanation
Indices: 16568999--16569160 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
16568989 TCCACCTCAA
* *
16568999 GCTACTGCATTTTCTTAGGTGGTAATTTTGTGACTTAGAAGAGTAAAAAACAAAATGTGGTGGCA
1 GCTACTGCACTTTCCTAGGTGGTAATTTTGTGACTTAGAAGAGTAAAAAACAAAATGTGGTGGCA
16569064 AGATCAAGTGCTAAAG
66 AGATCAAGTGCTAAAG
* *
16569080 GCTACTGTACTTTCCTAGGTGGTAATTTTGTGACTTAGAGGAGTAAAAAACAAAATGTGGTGGCA
1 GCTACTGCACTTTCCTAGGTGGTAATTTTGTGACTTAGAAGAGTAAAAAACAAAATGTGGTGGCA
16569145 AGATCAAGTGCTAAAG
66 AGATCAAGTGCTAAAG
16569161 CAGAGTTCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (81 bp):
GCTACTGCACTTTCCTAGGTGGTAATTTTGTGACTTAGAAGAGTAAAAAACAAAATGTGGTGGCA
AGATCAAGTGCTAAAG
Found at i:16569572 original size:22 final size:22
Alignment explanation
Indices: 16569559--16569601 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16569549 TATATATTTA
16569559 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
* *
16569581 TATTTGTATCCCTAAAATTAA
1 TATTTGTATCTCTAGAATTAA
16569602 AGACAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (22 bp):
TATTTGTATCTCTAGAATTAAG
Found at i:16569772 original size:22 final size:24
Alignment explanation
Indices: 16569744--16569791 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
16569734 AATATACATT
16569744 CAGTTTTA-CTCTTA-ATTTTCCA
1 CAGTTTTATCTCTTAGATTTTCCA
* *
16569766 CAGTTTTATTTCTTAGTTTTTCCA
1 CAGTTTTATCTCTTAGATTTTCCA
16569790 CA
1 CA
16569792 TAACCTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.52
Consensus pattern (24 bp):
CAGTTTTATCTCTTAGATTTTCCA
Found at i:16572208 original size:51 final size:51
Alignment explanation
Indices: 16572094--16572235 Score: 166
Period size: 51 Copynumber: 2.9 Consensus size: 51
16572084 AACCCTAGTT
* * ** *
16572094 GAGAGATTTTTGGGATTTAATTCTAGAATCAATTGGCATT----TGATATG
1 GAGAGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAATGATAAG
* *
16572141 GAGAGATTGTTGGGATTTAATTCCATAATCAATTCACATTAAAATGATAAG
1 GAGAGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAATGATAAG
* * *
16572192 GAGAGATTTTTGGGATTTGATTTCAAAATCAATTCTCATTAAAA
1 GAGAGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAA
16572236 CGGAAATCAA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 35 0.44
51 45 0.56
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (51 bp):
GAGAGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAATGATAAG
Found at i:16575774 original size:24 final size:24
Alignment explanation
Indices: 16575747--16575796 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
16575737 AATATATATT
16575747 CAGTTTTACTT-TTAGTTTTTCACA
1 CAGTTTTACTTCTTAGTTTTTC-CA
*
16575771 CAGTTTTATTTCTTAGTTTTTCCA
1 CAGTTTTACTTCTTAGTTTTTCCA
16575795 CA
1 CA
16575797 ATCTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (24 bp):
CAGTTTTACTTCTTAGTTTTTCCA
Found at i:16579878 original size:17 final size:17
Alignment explanation
Indices: 16579856--16579894 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
16579846 TCCCTTCTAA
16579856 ACTATTATCAAATATTT
1 ACTATTATCAAATATTT
16579873 ACTATTATCAAATATTT
1 ACTATTATCAAATATTT
16579890 ACTAT
1 ACTAT
16579895 AGTATCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (17 bp):
ACTATTATCAAATATTT
Found at i:16582837 original size:20 final size:20
Alignment explanation
Indices: 16582808--16582847 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16582798 ATTCAACTAT
*
16582808 AAACCGAAACTAACTAACAA
1 AAACCAAAACTAACTAACAA
*
16582828 AAACCAAAACTACCTAACAA
1 AAACCAAAACTAACTAACAA
16582848 TTAAACTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.03, T:0.10
Consensus pattern (20 bp):
AAACCAAAACTAACTAACAA
Found at i:16583655 original size:15 final size:16
Alignment explanation
Indices: 16583627--16583661 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
16583617 GCTTGAATCT
*
16583627 TAAAGTGCATGAAAAG
1 TAAAGTGCAAGAAAAG
16583643 TAAA-TGCAAGAAAAG
1 TAAAGTGCAAGAAAAG
16583658 TAAA
1 TAAA
16583662 CTTTTTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (16 bp):
TAAAGTGCAAGAAAAG
Found at i:16603124 original size:31 final size:31
Alignment explanation
Indices: 16603089--16603150 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
16603079 GTTGTATATA
16603089 CATAGTTTTCCATTTATAGGTTGATCTTTAG
1 CATAGTTTTCCATTTATAGGTTGATCTTTAG
16603120 CATAGTTTTCCATTTATAGGTTGATCTTTAG
1 CATAGTTTTCCATTTATAGGTTGATCTTTAG
16603151 GTATAGTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (31 bp):
CATAGTTTTCCATTTATAGGTTGATCTTTAG
Found at i:16607296 original size:12 final size:11
Alignment explanation
Indices: 16607273--16607307 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
16607263 AAAGAATGGG
*
16607273 AAATTTAAAAA
1 AAATTAAAAAA
16607284 AAATTACAAAAA
1 AAATTA-AAAAA
16607296 AAATTAAAAAA
1 AAATTAAAAAA
16607307 A
1 A
16607308 GAGAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATTAAAAAA
Found at i:16607386 original size:16 final size:16
Alignment explanation
Indices: 16607347--16607397 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
16607337 TGCAAAGGAA
16607347 AAAAGAAAAAAACAAA-
1 AAAAGAAAAAAA-AAAG
* **
16607363 AATA-AAAAAGCAAAG
1 AAAAGAAAAAAAAAAG
16607378 AAAAGAAAAAAAAAAG
1 AAAAGAAAAAAAAAAG
16607394 AAAA
1 AAAA
16607398 TGGGCAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 3 0.11
15 8 0.30
16 16 0.59
ACGTcount: A:0.84, C:0.04, G:0.10, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:16614776 original size:22 final size:22
Alignment explanation
Indices: 16614746--16614799 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
16614736 TAAAATATTA
16614746 AAATATAAATATAAAATCAAAT
1 AAATATAAATATAAAATCAAAT
* * * *
16614768 AAATTTAAATTTAAATTTAAAT
1 AAATATAAATATAAAATCAAAT
16614790 AAATAATAAA
1 AAAT-ATAAA
16614800 AAATAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATAAATATAAAATCAAAT
Found at i:16615784 original size:43 final size:43
Alignment explanation
Indices: 16615723--16615852 Score: 260
Period size: 43 Copynumber: 3.0 Consensus size: 43
16615713 ATAGAGGAAT
16615723 TTTTCATGTAAGAGTTGAAAACCATATTCTCCATGATGGTACC
1 TTTTCATGTAAGAGTTGAAAACCATATTCTCCATGATGGTACC
16615766 TTTTCATGTAAGAGTTGAAAACCATATTCTCCATGATGGTACC
1 TTTTCATGTAAGAGTTGAAAACCATATTCTCCATGATGGTACC
16615809 TTTTCATGTAAGAGTTGAAAACCATATTCTCCATGATGGTACC
1 TTTTCATGTAAGAGTTGAAAACCATATTCTCCATGATGGTACC
16615852 T
1 T
16615853 AATTCATTGG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (43 bp):
TTTTCATGTAAGAGTTGAAAACCATATTCTCCATGATGGTACC
Found at i:16616664 original size:13 final size:13
Alignment explanation
Indices: 16616646--16616670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16616636 AGTCCAGCCC
16616646 ATCAAGAATCCAA
1 ATCAAGAATCCAA
16616659 ATCAAGAATCCA
1 ATCAAGAATCCA
16616671 TGGAGACCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
ATCAAGAATCCAA
Found at i:16617358 original size:13 final size:13
Alignment explanation
Indices: 16617328--16617352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16617318 TTATATATTG
16617328 GCTAGGGTGACAA
1 GCTAGGGTGACAA
16617341 GCTAGGGTGACA
1 GCTAGGGTGACA
16617353 GACTAGCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (13 bp):
GCTAGGGTGACAA
Found at i:16622640 original size:3 final size:3
Alignment explanation
Indices: 16622632--16622710 Score: 117
Period size: 3 Copynumber: 27.0 Consensus size: 3
16622622 AACCAAAAAT
16622632 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
* * *
16622680 ATA ATA AT- ATA AAA AT- ATT ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16622711 GTAAAAAATC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
2 4 0.06
3 65 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16627093 original size:16 final size:15
Alignment explanation
Indices: 16627039--16627106 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 15
16627029 TTTAGGATTT
16627039 GTAACTTTCTATTTTTA
1 GTAA-TTTCT-TTTTTA
*
16627056 GTAATATTTTTATTTGTA
1 GTAAT-TTCTT-TTT-TA
16627074 GTAATTGTCTTTTTTA
1 GTAATT-TCTTTTTTA
*
16627090 GTAATTTTCCTTTTTA
1 GTAA-TTTCTTTTTTA
16627106 G
1 G
16627107 GTCCTTGCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
16 17 0.40
17 16 0.37
18 10 0.23
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.60
Consensus pattern (15 bp):
GTAATTTCTTTTTTA
Found at i:16630491 original size:22 final size:21
Alignment explanation
Indices: 16630450--16630491 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16630440 AAACTTTTTA
*
16630450 CTTTTTTTTTTTAACCTCAAC
1 CTTTTTTTTTTTAACATCAAC
*
16630471 CTTTTTTTTTTTGCACATCAA
1 CTTTTTTTTTTT-AACATCAA
16630492 ACTCCTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.19, C:0.21, G:0.02, T:0.57
Consensus pattern (21 bp):
CTTTTTTTTTTTAACATCAAC
Found at i:16636205 original size:12 final size:12
Alignment explanation
Indices: 16636188--16636213 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16636178 ATTGTCTACC
16636188 TTATATATATAT
1 TTATATATATAT
16636200 TTATATATATAT
1 TTATATATATAT
16636212 TT
1 TT
16636214 TCAGATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATATATATAT
Found at i:16648430 original size:130 final size:130
Alignment explanation
Indices: 16648204--16648466 Score: 508
Period size: 130 Copynumber: 2.0 Consensus size: 130
16648194 GACTAAAATC
16648204 TTAATCCTTGGTTCACCAATTTGTTTTAGAGGTTTTTTACCTCTATCCATTGGGCTTGCTTAAAA
1 TTAATCCTTGGTTCACCAATTTGTTTTAGAGGTTTTTTACCTCTATCCATTGGGCTTGCTTAAAA
16648269 AATCAGCAAGAGAATTGTTAGATCCTTTAATAAATTCAATAGAAAAATTATATTGGCATAAAAAA
66 AATCAGCAAGAGAATTGTTAGATCCTTTAATAAATTCAATAGAAAAATTATATTGGCATAAAAAA
16648334 TTAATCCTTGGTTCACCAATTTGTTTTAGAGGTTTTTTACCTCTATCCATTGGGCTTGCTTAAAA
1 TTAATCCTTGGTTCACCAATTTGTTTTAGAGGTTTTTTACCTCTATCCATTGGGCTTGCTTAAAA
* *
16648399 AATCAGTAAGAGAATTGTTAGATCCTTTAATAAATTTAATAGAAAAATTATATTGGCATAAAAAA
66 AATCAGCAAGAGAATTGTTAGATCCTTTAATAAATTCAATAGAAAAATTATATTGGCATAAAAAA
16648464 TTA
1 TTA
16648467 TACCATCTAA
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (130 bp):
TTAATCCTTGGTTCACCAATTTGTTTTAGAGGTTTTTTACCTCTATCCATTGGGCTTGCTTAAAA
AATCAGCAAGAGAATTGTTAGATCCTTTAATAAATTCAATAGAAAAATTATATTGGCATAAAAAA
Found at i:16659364 original size:19 final size:22
Alignment explanation
Indices: 16659340--16659385 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
16659330 CAAATAATGT
16659340 AAAAAAA-GAAAAA-AAGGCAA
1 AAAAAAAGGAAAAAGAAGGCAA
16659360 AAAAAAAGGAAAAAGGAAGGCAA
1 AAAAAAAGGAAAAA-GAAGGCAA
16659383 AAA
1 AAA
16659386 GCCTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
23 10 0.43
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAAAGGAAAAAGAAGGCAA
Found at i:16659365 original size:12 final size:12
Alignment explanation
Indices: 16659348--16659385 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16659338 GTAAAAAAAG
16659348 AAAAAAAGGCAA
1 AAAAAAAGGCAA
16659360 AAAAAAAGG-AA
1 AAAAAAAGGCAA
**
16659371 AAAGGAAGGCAA
1 AAAAAAAGGCAA
16659383 AAA
1 AAA
16659386 GCCTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAAGGCAA
Found at i:16665833 original size:17 final size:17
Alignment explanation
Indices: 16665811--16665844 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16665801 GAAATTGTTT
16665811 AAACTTTCTATTTTTAG
1 AAACTTTCTATTTTTAG
*
16665828 AAACTTTGTATTTTTAG
1 AAACTTTCTATTTTTAG
16665845 CATGTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (17 bp):
AAACTTTCTATTTTTAG
Found at i:16672825 original size:3 final size:3
Alignment explanation
Indices: 16672817--16672855 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16672807 GAACACCTAT
16672817 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
16672856 ACGTCTGCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:16673350 original size:9 final size:9
Alignment explanation
Indices: 16673336--16673365 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
16673326 TAGGGGCATG
16673336 GAAAAAGAA
1 GAAAAAGAA
16673345 GAAAAAGAA
1 GAAAAAGAA
16673354 GAAAAAGAA
1 GAAAAAGAA
16673363 GAA
1 GAA
16673366 GCGCAGGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
GAAAAAGAA
Found at i:16674460 original size:22 final size:22
Alignment explanation
Indices: 16674432--16674477 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
16674422 CGATTTAAAG
* *
16674432 AAGCATTGTGTAGAGAACATAC
1 AAGCATTATATAGAGAACATAC
16674454 AAGCATTATATAGAGAACATAC
1 AAGCATTATATAGAGAACATAC
16674476 AA
1 AA
16674478 TGTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (22 bp):
AAGCATTATATAGAGAACATAC
Found at i:16679411 original size:28 final size:28
Alignment explanation
Indices: 16679380--16679436 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
16679370 TGGCAGTCTC
16679380 TCATACCTTATCACCAAATTTTGATTCT
1 TCATACCTTATCACCAAATTTTGATTCT
16679408 TCATACCTTATCACCAAATTTTGATTCT
1 TCATACCTTATCACCAAATTTTGATTCT
16679436 T
1 T
16679437 TGTTCGCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.44
Consensus pattern (28 bp):
TCATACCTTATCACCAAATTTTGATTCT
Found at i:16684420 original size:21 final size:21
Alignment explanation
Indices: 16684387--16684426 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16684377 GTAAATGGAC
*
16684387 AGATAATTGTGTTCACATTAT
1 AGATAATTATGTTCACATTAT
*
16684408 AGATTATTATGTTCACATT
1 AGATAATTATGTTCACATT
16684427 CAAATCTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (21 bp):
AGATAATTATGTTCACATTAT
Found at i:16688365 original size:144 final size:144
Alignment explanation
Indices: 16688191--16688471 Score: 370
Period size: 144 Copynumber: 2.0 Consensus size: 144
16688181 ATTTGTGCAC
* * * *
16688191 TTGAAATCACAGCAATACCTCAAGAAGTGTGAAATTATCAAAATACCCTTAT-AGGG-ATTTTTT
1 TTGAAATCACAACAATACCTCAAGAAGTGTGAAATTACCAAAATA-CCTTATAAGGGTA-TTATC
* * *
16688254 TTAATTTGGCCTTCCTGAGCTTGGATTTTCA-AGAAACATTTCAGATCTCAATTTCATAATATTT
64 ATAATTTGACCTTCCTGAGCTTGGATTTTCACA-AAACATTTCAAATCTCAATTTCATAATATTT
16688318 CATGATTTTTGACGCAT
128 CATGATTTTTGACGCAT
* * *
16688335 TTGAAATCACAACAATACCTCAAGAGGTGTGAAATTACCAAAATATCTTTTAAGGGTATTATCAT
1 TTGAAATCACAACAATACCTCAAGAAGTGTGAAATTACCAAAATACCTTATAAGGGTATTATCAT
* * * * *
16688400 AATTTGATCTTCTTGAGCTTGGATTTTCACAAAACTTTTCAAATCTCAATTTTATAATGTTTCAT
66 AATTTGACCTTCCTGAGCTTGGATTTTCACAAAACATTTCAAATCTCAATTTCATAATATTTCAT
*
16688465 GTTTTTT
131 GATTTTT
16688472 TGTGCTTTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
143 4 0.03
144 112 0.95
145 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (144 bp):
TTGAAATCACAACAATACCTCAAGAAGTGTGAAATTACCAAAATACCTTATAAGGGTATTATCAT
AATTTGACCTTCCTGAGCTTGGATTTTCACAAAACATTTCAAATCTCAATTTCATAATATTTCAT
GATTTTTGACGCAT
Found at i:16690926 original size:26 final size:26
Alignment explanation
Indices: 16690897--16690948 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
16690887 ATAATTGCTA
*
16690897 AATTTAATTAATTTTATTTTATATTT
1 AATTTAATTAATTTTATTTTAAATTT
**
16690923 AATTTAATTCCTTTTATTTTAAATTT
1 AATTTAATTAATTTTATTTTAAATTT
16690949 TCAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
AATTTAATTAATTTTATTTTAAATTT
Found at i:16693180 original size:4 final size:4
Alignment explanation
Indices: 16693171--16693201 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
16693161 TTCATTTGCG
*
16693171 CATT CATT CATT CATT CATT CATC CATT CAT
1 CATT CATT CATT CATT CATT CATT CATT CAT
16693202 CTATTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (4 bp):
CATT
Found at i:16696072 original size:14 final size:15
Alignment explanation
Indices: 16696044--16696086 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
16696034 GAAAGAATGT
16696044 AAAATAAAAGAAAAG
1 AAAATAAAAGAAAAG
*
16696059 AAAA-AAAAGGAAAG
1 AAAATAAAAGAAAAG
16696073 AAAGAATAAAAGAA
1 -AA-AATAAAAGAA
16696087 GGAAAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.39
15 6 0.26
16 2 0.09
17 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAATAAAAGAAAAG
Found at i:16697116 original size:31 final size:31
Alignment explanation
Indices: 16697049--16697116 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
16697039 GCTGGTATGC
*
16697049 AAGCCTAGATTATCTAGCACCAATGAAGTTTT
1 AAGCTTAGATTATCTAGCACCAATGAAG-TTT
* *
16697081 AAGCTTAGATTATCTAGTATCAATGATA-TTT
1 AAGCTTAGATTATCTAGCACCAATGA-AGTTT
16697112 AAGCT
1 AAGCT
16697117 CAGTATAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.25
32 23 0.72
33 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (31 bp):
AAGCTTAGATTATCTAGCACCAATGAAGTTT
Found at i:16697311 original size:22 final size:22
Alignment explanation
Indices: 16697267--16697318 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
16697257 AGATTAACTA
* **
16697267 GCACATAAGCTCAGTTTAATTG
1 GCACATAAGCCCAAATTAATTG
*
16697289 GCACATAAGCCCAAATTAGTTG
1 GCACATAAGCCCAAATTAATTG
*
16697311 GCATATAA
1 GCACATAA
16697319 ACCTGGATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (22 bp):
GCACATAAGCCCAAATTAATTG
Found at i:16697545 original size:33 final size:32
Alignment explanation
Indices: 16697500--16697614 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 32
16697490 ACACAAAAAG
*
16697500 TTAAGCCTAGTTTTACATGGTACTAATGAAATT
1 TTAAGCCCAG-TTTACATGGTACTAATGAAATT
** ***
16697533 TTAAGCCCAGTTTAGTTAACACCTAATGAAATT
1 TTAAGCCCAGTTTACATGGTA-CTAATGAAATT
* *
16697566 TTAAGCCCAGTTTATCA-GGTACCAAAGAAAGATT
1 TTAAGCCCAGTTTA-CATGGTACTAATG-AA-ATT
*
16697600 TTAAGCTCAGTTTAC
1 TTAAGCCCAGTTTAC
16697615 CTAACACTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
32 10 0.16
33 38 0.59
34 16 0.25
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (32 bp):
TTAAGCCCAGTTTACATGGTACTAATGAAATT
Found at i:16697611 original size:67 final size:68
Alignment explanation
Indices: 16697530--16697951 Score: 225
Period size: 67 Copynumber: 6.3 Consensus size: 68
16697520 TACTAATGAA
* * * * *
16697530 ATTTTAAGCCCAGTTTAGTTAACACCTAATGAAA-TTTTAAGCCCAGTTTA-TCAGGTACCAAAG
1 ATTTTAAGCCCAGTTTACTTAACACCTAATAAAAGTTTAAAGCCCAATTTACT-AGGCACCAAAG
16697593 AAAG
65 AAAG
* * * *
16697597 ATTTTAAGCTCAGTTTACCTAACA-CTAATAAAAGTTTAAAGCCTAATTTACTTGGCACCAAAGA
1 ATTTTAAGCCCAGTTTACTTAACACCTAATAAAAGTTTAAAGCCCAATTTACTAGGCACCAAAGA
16697661 AAG
66 AAG
* * * * * * * * **
16697664 ATGTTAAGCCCAGTTTACTTAGCACCCAAAGAAAAATTTTAAGTCTAGCTTAGCT-GGCACCCAA
1 ATTTTAAGCCCAGTTTACTTAACA-CCTAATAAAAGTTTAAAGCCCAATTTA-CTAGGCA-CCAA
*
16697728 TG-AA-
63 AGAAAG
* * **
16697732 ATTTTAAGCCCAGTTTA-TCT-AGACC-AA-AGAAAGATTTTAAGCCCGGTTTACCT-GGCACCA
1 ATTTTAAGCCCAGTTTACT-TAACACCTAATA-AAAG-TTTAAAGCCCAATTTA-CTAGGCACCA
*
16697792 ATGAAAG
62 AAGAAAG
* * * ** * * * *
16697799 --TTT-AGGCCAATTTACCTGGCACCTAA-AGAAAGATTTTATGTCCAATTTACCT-GGCACAAA
1 ATTTTAAGCCCAGTTTACTTAACACCTAATA-AAAG-TTTAAAGCCCAATTTA-CTAGGCACCAA
16697859 AGAAAG
63 AGAAAG
* * * *
16697865 ATGTTAAACCCAGTTTACTTGACACC-AATGAAAGTTTAAA-CCCAATTTACCT-GGCACCTAAA
1 ATTTTAAGCCCAGTTTACTTAACACCTAATAAAAGTTTAAAGCCCAATTTA-CTAGGCACC-AAA
16697927 GAAAG
64 GAAAG
* * *
16697932 ATTTTATGTCCAATTTACTT
1 ATTTTAAGCCCAGTTTACTT
16697952 GGCATAAAAG
Statistics
Matches: 279, Mismatches: 57, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
64 11 0.04
65 17 0.06
66 82 0.29
67 96 0.34
68 26 0.09
69 40 0.14
70 7 0.03
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (68 bp):
ATTTTAAGCCCAGTTTACTTAACACCTAATAAAAGTTTAAAGCCCAATTTACTAGGCACCAAAGA
AAG
Found at i:16697673 original size:34 final size:34
Alignment explanation
Indices: 16697563--16698183 Score: 371
Period size: 34 Copynumber: 18.5 Consensus size: 34
16697553 ACCTAATGAA
* * * *
16697563 ATTTTAAGCCCAGTTTATCAGGTACCAAAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
* * ** *
16697597 ATTTTAAGCTCAGTTTACCTAACACTAATA-AAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAA-AGAAAG
* * *
16697631 -TTTAAAGCCTAATTTACTTGGCACCAAAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
* * * * *
16697664 ATGTTAAGCCCAGTTTACTTAGCACCCAAAGAAAA
1 ATTTTAAGCCCAATTTACCTGGCA-CCAAAGAAAG
* * ** * *
16697699 ATTTTAAGTCTAGCTTAGCTGGCACCCAATG-AA-
1 ATTTTAAGCCCAATTTACCTGGCA-CCAAAGAAAG
* * *
16697732 ATTTTAAGCCCAGTTTATCTAG-ACCAAAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
** *
16697765 ATTTTAAGCCCGGTTTACCTGGCACCAATGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
*
16697799 --TTT-AGGCCAATTTACCTGGCACCTAAAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACC-AAAGAAAG
* * *
16697831 ATTTTATGTCCAATTTACCTGGCACAAAAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
* * * * * *
16697865 ATGTTAAACCCAGTTTACTTGACACCAATGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
*
16697899 --TTTAAACCCAATTTACCTGGCACCTAAAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACC-AAAGAAAG
* * * **
16697932 ATTTTATGTCCAATTTACTTGGCATAAAAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
* * * * *
16697966 ATGTTAAACCCAGTTTACCTAGCACCTAATG-AA-
1 ATTTTAAGCCCAATTTACCTGGCACC-AAAGAAAG
* ** * * *
16697999 ATTTTAAGCTCAATTTATTTAGCACAAAAAAAAAG
1 ATTTTAAGCCCAATTTACCTGGCAC-CAAAGAAAG
* ** ** **
16698034 ATGTTAAGCGTAATTTACCTGGCATTAGTGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
* *
16698068 --TTTAAGCCCAATTTACCTAGCACCTTATAG-AA-
1 ATTTTAAGCCCAATTTACCTGGCACC--AAAGAAAG
* * * **
16698100 ATTTTAAGCCCAATCTACTTGACACCAGTGAAAG
1 ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
* *
16698134 --TTTAAACCCAATTTACCTGGCACTC-GAGAAAG
1 ATTTTAAGCCCAATTTACCTGGCAC-CAAAGAAAG
16698166 ATTTTAAGCCCAATTTAC
1 ATTTTAAGCCCAATTTAC
16698184 ATAACACGTG
Statistics
Matches: 444, Mismatches: 116, Indels: 54
0.72 0.19 0.09
Matches are distributed among these distances:
31 22 0.05
32 79 0.18
33 92 0.21
34 162 0.36
35 89 0.20
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (34 bp):
ATTTTAAGCCCAATTTACCTGGCACCAAAGAAAG
Found at i:16697769 original size:66 final size:65
Alignment explanation
Indices: 16697524--16698177 Score: 279
Period size: 66 Copynumber: 9.8 Consensus size: 65
16697514 ACATGGTACT
* * * * * * * *
16697524 AATGAAATTTTAAGCCCAGTTTAGTTAACACCTAATG-AA-ATTTTAAGCCCAGTTTATCAGGTA
1 AATGAAAGTTTAAGCCCAGTTTA-CTAGCACC-AAAGAAAGATTTTAAGCCCAGCTTACCTGGCA
16697587 CC
64 CC
* * * * * * ** *
16697589 AAAGAAAGATTTTAAGCTCAGTTTACCTAACACTAATA-AAAG-TTTAAAGCCTAATTTACTTGG
1 AATGAAAG--TTTAAGCCCAGTTTA-CTAGCACCAA-AGAAAGATTTTAAGCCCAGCTTACCTGG
16697652 CACC
62 CACC
* * * * *
16697656 AAAGAAAGATGTTAAGCCCAGTTTACTTAGCACCCAAAGAAAAATTTTAAGTCTAGCTTAGCTGG
1 AATGAAAG-T-TTAAGCCCAGTTTAC-TAGCA-CCAAAGAAAGATTTTAAGCCCAGCTTACCTGG
16697721 CACCC
62 CA-CC
* * *
16697726 AATGAAATTTTAAGCCCAGTTTATCTAG-ACCAAAGAAAGATTTTAAGCCCGGTTTACCTGGCAC
1 AATGAAAGTTTAAGCCCAGTTTA-CTAGCACCAAAGAAAGATTTTAAGCCCAGCTTACCTGGCAC
16697790 C
65 C
* * * * * **
16697791 AATGAAAGTTT-AGGCCAATTTACCTGGCACCTAAAGAAAGATTTTATGTCCAATTTACCTGGCA
1 AATGAAAGTTTAAGCCCAGTTTA-CTAGCACC-AAAGAAAGATTTTAAGCCCAGCTTACCTGGCA
*
16697855 CA
64 CC
* * * * * **
16697857 AAAGAAAGATGTTAAACCCAGTTTACTTGACACCAATGAAAG--TTTAAACCCAATTTACCTGGC
1 AATGAAAG-T-TTAAGCCCAGTTTACTAG-CACCAAAGAAAGATTTTAAGCCCAGCTTACCTGGC
16697920 ACC
63 ACC
* * * * * ** * * * *
16697923 TAAAGAAAGATTTTATGTCCAATTTACTTGGCATAAAAGAAAGATGTTAAACCCAGTTTACCTAG
1 -AATGAAAG--TTTAAGCCCAGTTTAC-TAGCACCAAAGAAAGATTTTAAGCCCAGCTTACCTGG
16697988 CACC
62 CACC
* * * * * * * ** **
16697992 TAATGAAATTTTAAGCTCAATTTATTTAGCACAAAAAAAAAGATGTTAAGCGTAATTTACCTGGC
1 -AATGAAAGTTTAAGCCCAGTTTA-CTAGCAC-CAAAGAAAGATTTTAAGCCCAGCTTACCTGGC
**
16698057 ATT
63 ACC
* * * * * *
16698060 AGTGAAAGTTTAAGCCCAATTTACCTAGCACCTTATAG-AA-ATTTTAAGCCCA-ATCTACTTGA
1 AATGAAAGTTTAAGCCCAGTTTA-CTAGCACC--AAAGAAAGATTTTAAGCCCAGCT-TACCTGG
16698122 CACC
62 CACC
* * * * *
16698126 AGTGAAAGTTTAAACCCAATTTACCTGGCACTC-GAGAAAGATTTTAAGCCCA
1 AATGAAAGTTTAAGCCCAGTTTA-CTAGCAC-CAAAGAAAGATTTTAAGCCCA
16698178 ATTTACATAA
Statistics
Matches: 458, Mismatches: 100, Indels: 61
0.74 0.16 0.10
Matches are distributed among these distances:
64 14 0.03
65 24 0.05
66 145 0.32
67 141 0.31
68 67 0.15
69 59 0.13
70 8 0.02
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (65 bp):
AATGAAAGTTTAAGCCCAGTTTACTAGCACCAAAGAAAGATTTTAAGCCCAGCTTACCTGGCACC
Found at i:16697937 original size:101 final size:101
Alignment explanation
Indices: 16697757--16698015 Score: 387
Period size: 101 Copynumber: 2.6 Consensus size: 101
16697747 TATCTAGACC
* * * * *
16697757 AAAGAAAGATTTTAAGCCCGGTTTACCTGGCACCAATGAAAGTTT-AGGCCAATTTACCTGGCAC
1 AAAGAAAGATGTTAAACCCAGTTTACCTGACACCAATGAAAGTTTAAGCCCAATTTACCTGGCAC
16697821 CTAAAGAAAGATTTTATGTCCAATTTACCTGGCACA
66 CTAAAGAAAGATTTTATGTCCAATTTACCTGGCACA
* *
16697857 AAAGAAAGATGTTAAACCCAGTTTACTTGACACCAATGAAAGTTTAAACCCAATTTACCTGGCAC
1 AAAGAAAGATGTTAAACCCAGTTTACCTGACACCAATGAAAGTTTAAGCCCAATTTACCTGGCAC
* *
16697922 CTAAAGAAAGATTTTATGTCCAATTTACTTGGCATA
66 CTAAAGAAAGATTTTATGTCCAATTTACCTGGCACA
* *
16697958 AAAGAAAGATGTTAAACCCAGTTTACCT-AGCACCTAATGAAATTTTAAGCTCAATTTA
1 AAAGAAAGATGTTAAACCCAGTTTACCTGA-CACC-AATGAAAGTTTAAGCCCAATTTA
16698016 TTTAGCACAA
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
100 41 0.29
101 82 0.57
102 20 0.14
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (101 bp):
AAAGAAAGATGTTAAACCCAGTTTACCTGACACCAATGAAAGTTTAAGCCCAATTTACCTGGCAC
CTAAAGAAAGATTTTATGTCCAATTTACCTGGCACA
Found at i:16698201 original size:34 final size:33
Alignment explanation
Indices: 16698062--16698250 Score: 114
Period size: 34 Copynumber: 5.6 Consensus size: 33
16698052 CTGGCATTAG
* * *
16698062 TGAAAGTTTAAGCCCAATTTACCTAGCACCTTA
1 TGAAATTTTAAGCCCAATTTACCTAACACCTGA
* * * *
16698095 TAGAAATTTTAAGCCCAATCTACTTGACACCAG-
1 T-GAAATTTTAAGCCCAATTTACCTAACACCTGA
* * **
16698128 TGAAAGTTTAAACCCAATTTACCTGGCA-CTCGA
1 TGAAATTTTAAGCCCAATTTACCTAACACCT-GA
* *
16698161 -GAAAGATTTTAAGCCCAATTTACATAACACGTGA
1 TG-AA-ATTTTAAGCCCAATTTACCTAACACCTGA
* * * * **
16698195 TGAAGATTTTAAAGCCTAGTTTAGCTAGCACCCAA
1 TGAA-ATTTT-AAGCCCAATTTACCTAACACCTGA
* *
16698230 TGAAATTTTAAGTCCAGTTTA
1 TGAAATTTTAAGCCCAATTTA
16698251 GCTCTCATCT
Statistics
Matches: 119, Mismatches: 29, Indels: 16
0.73 0.18 0.10
Matches are distributed among these distances:
31 1 0.01
32 24 0.20
33 14 0.12
34 58 0.49
35 22 0.18
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (33 bp):
TGAAATTTTAAGCCCAATTTACCTAACACCTGA
Found at i:16701582 original size:15 final size:15
Alignment explanation
Indices: 16701562--16701597 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
16701552 AACTTATAAA
16701562 AAGGGAGATTTCTTC
1 AAGGGAGATTTCTTC
16701577 AAGGGAGATTTCTTC
1 AAGGGAGATTTCTTC
16701592 AAGGGA
1 AAGGGA
16701598 AGTTTGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (15 bp):
AAGGGAGATTTCTTC
Found at i:16710308 original size:16 final size:18
Alignment explanation
Indices: 16710287--16710319 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
16710277 AAATCAAACC
16710287 AAAAAT-TAAT-AGTAAA
1 AAAAATGTAATCAGTAAA
16710303 AAAAATGTAATCAGTAA
1 AAAAATGTAATCAGTAA
16710320 TTAAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (18 bp):
AAAAATGTAATCAGTAAA
Found at i:16720930 original size:16 final size:17
Alignment explanation
Indices: 16720909--16720941 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16720899 GCTATTTTTT
16720909 ATATTTA-AAAATATAA
1 ATATTTACAAAATATAA
*
16720925 ATATTTACTAAATATAA
1 ATATTTACAAAATATAA
16720942 TACCTGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATTTACAAAATATAA
Found at i:16727765 original size:19 final size:19
Alignment explanation
Indices: 16727741--16727784 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
16727731 CACACATATC
16727741 AATTATGGAAACCAAATTT
1 AATTATGGAAACCAAATTT
16727760 AATTATGGAAACCAAATTT
1 AATTATGGAAACCAAATTT
16727779 AATTAT
1 AATTAT
16727785 TTGGACAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (19 bp):
AATTATGGAAACCAAATTT
Found at i:16728202 original size:160 final size:159
Alignment explanation
Indices: 16727845--16728202 Score: 400
Period size: 160 Copynumber: 2.2 Consensus size: 159
16727835 ATCCAAAAGT
* * * *
16727845 TTAATTTGTATTTTTGCCTTTAAAAGGCAAAAATAGTCCCAAATAGATGTAAACAACAACTTATT
1 TTAATTTGCATTTTTACCTTTTAAAGGCAAAAA-AGTCCCAAATAGACGTAAACAACAACTTATT
* * *
16727910 CACACTTATCAACCATAGAAACCAAGTTTAATCATTCGGATAAGTTGAATATCATGTATTGAAGC
65 CACACATATCAACCATAGAAACAAAGTTCAATCATTCGGATAAGTTGAATATCATGTATTGAAGC
*
16727975 TATCCAAACTATTAAAATAGAACAATAACA
130 TATCAAAACTATTAAAATAGAACAATAACA
** * * * * * * *
16728005 ACAATTTTGTCA-TTTTACCTATTAACGACACAAAAAGTCCTAAATAGACGT-AACAATAATTTT
1 TTAA-TTTG-CATTTTTACCTTTTAAAGGCA-AAAAAGTCCCAAATAGACGTAAACAACAACTTA
* * * * *
16728068 TTCATACATATCAACTATGGAAACAAAGTTCAAT-ACTTTGGATAAGTTTAATATCATGTATTGC
63 TTCACACATATCAACCATAGAAACAAAGTTCAATCA-TTCGGATAAGTTGAATATCATGTATTG-
*
16728132 AA-CTATCAAAACTATTAAAATAGAATAATAACTA
126 AAGCTATCAAAACTATTAAAATAGAACAATAAC-A
*
16728166 TTAATTTGCATTTTTACCTTTTAATGGCATAAAAAGT
1 TTAATTTGCATTTTTACCTTTTAAAGGCA-AAAAAGT
16728203 TAATTTATTT
Statistics
Matches: 162, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
159 3 0.02
160 118 0.73
161 36 0.22
162 5 0.03
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (159 bp):
TTAATTTGCATTTTTACCTTTTAAAGGCAAAAAAGTCCCAAATAGACGTAAACAACAACTTATTC
ACACATATCAACCATAGAAACAAAGTTCAATCATTCGGATAAGTTGAATATCATGTATTGAAGCT
ATCAAAACTATTAAAATAGAACAATAACA
Found at i:16729803 original size:63 final size:62
Alignment explanation
Indices: 16729736--16729870 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 62
16729726 TAATTGACTC
* * *
16729736 AAATTTTTAATAGATTATTTGTTAAAGGCATTTTTTG-C-ATAATACGCCTTCAATAATCC-CAT
1 AAATTTTTAAGAGATGATTT-TTAAAGGCA-TTTTTGACTA-AAAACGCCTTCAATAATCCTCA-
16729798 T
62 T
* * *
16729799 AAATTTTAAAGAGATGATTTTTAAAGGTATTTTTGACTAAAAATGCCTTCAATAATCCTCAT
1 AAATTTTTAAGAGATGATTTTTAAAGGCATTTTTGACTAAAAACGCCTTCAATAATCCTCAT
16729861 AATATTTTTA
1 AA-ATTTTTA
16729871 GGTAGGATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
61 6 0.10
62 29 0.48
63 26 0.43
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (62 bp):
AAATTTTTAAGAGATGATTTTTAAAGGCATTTTTGACTAAAAACGCCTTCAATAATCCTCAT
Found at i:16730055 original size:64 final size:61
Alignment explanation
Indices: 16729941--16730059 Score: 141
Period size: 64 Copynumber: 1.9 Consensus size: 61
16729931 AATGGACTAG
* **
16729941 ATTATTGAAGGCATTTTGTAAAAAAATACCTTAAATAAATATTTTTTAAAATTTTTTTAAT
1 ATTATTAAAGGCATTTTGTAAAAAAATACCTTAAATAAATATTTAGTAAAATTTTTTTAAT
* * *
16730002 ATTATTAAAGGCATCTTTTAGTAAAAAAATGCCTTTAAT-AATCTTATAGTAAAATTTT
1 ATTATTAAAGGCA--TTTT-GTAAAAAAATACCTTAAATAAATATT-TAGTAAAATTTT
16730060 AAATAGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
61 12 0.25
63 9 0.19
64 27 0.56
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.44
Consensus pattern (61 bp):
ATTATTAAAGGCATTTTGTAAAAAAATACCTTAAATAAATATTTAGTAAAATTTTTTTAAT
Found at i:16730586 original size:439 final size:437
Alignment explanation
Indices: 16729838--16730712 Score: 1109
Period size: 439 Copynumber: 2.0 Consensus size: 437
16729828 TTTTTGACTA
* * * ** * *
16729838 AAAATGCCTTCAATAATCCTCATAATATTTTTAGGTAGGATTATTTCAGGCGTTTTTGGCATAAA
1 AAAATGCCTTCAATAATACTCATAATATGTTTAGGAAGGATTATTGAAGACGTTTTTCGCATAAA
* *
16729903 GCACCTCTAATAAATAAGGTATTGAAAAAATGGACTAGATTATTGAAGGCATTTTGTAAAAAAAT
66 ACACCTCTAATAAACAAGGTATTGAAAAAATGGA-TAGATTATTGAAGGCATTTTGTAAAAAAAT
* *
16729968 ACCTTAAATAAATATTTTTTAAAATTTTTTTAATATTATTAAAGGCATCTTTTAGTAAAAAAATG
130 ACCTTAAATAAATATTTTTTAAAATTTTTTTAAGATTATTAAAAGCATCTTTTAGTAAAAAAA-G
* * * * * *
16730033 CCTTTAATAATCTTATAGTAAAATTTTAAATAGATTATTGAAGATATTTTTTACTACAAATACCT
194 CATTCAACAATCTCATAGTAAAATTTTAAAGAGATTATTGAAGACATTTTTTACTACAAATACCT
* * * ** *
16730098 TTACTAATTCCTTCAAGTTTTTTTAGAGAATTTATTGAAGGTATTTTTTGCATAATACACCTTCA
259 TCACTAATTCCCTCAAATTTTTGAAGAGAATTTATTAAAGGTATTTTTTGCATAATACACCTTCA
* * *
16730163 ATAATCCCCTT-CATTTTTATTAGGAGAATATCAATGAAGGTCG-TTTTCTACCAAAAATACCTT
324 ATAAT-CCCTTCCATTTTTATTAGAAGAATATCAATGAA-GACGATTTTATACCAAAAATACCTT
*
16730226 CAATAATCCACTCTAATTTTTTAAAAGAATTTATT-AGAGGCATTTTTTTAT
387 CAATAATCCACTCCAATTTTTTAAAAGAATTTATTGA-AGGCATTTTTTTAT
* * * *
16730277 AAAATGCCTTTAATAATACTCGTAATGTGTTTGGGAAGGATTATTGAAGACGTTTTTCGCATAAA
1 AAAATGCCTTCAATAATACTCATAATATGTTTAGGAAGGATTATTGAAGACGTTTTTCGCATAAA
** * *
16730342 ATGCCTCTAATAAACAAGGTATTGAAAAAATAGG-TCGATTATTGAAGGCATTTTCTTAAAAAAA
66 ACACCTCTAATAAACAAGGTATTGAAAAAAT-GGATAGATTATTGAAGGCATTTT-GTAAAAAAA
* * * ** *
16730406 TGCCTTTAATAAAT-TCTTTTTAAAATTTTTTTAGGATTATTAAAAGTGTCTTTTAGTGAAAAAC
129 TACCTTAAATAAATAT-TTTTTAAAATTTTTTTAAGATTATTAAAAGCATCTTTTAGT-AAAAAA
* * * *
16730470 A-CATTCAACAATCTCATAGTAAAATTTTAAGGAGATTATTGAAGGCATTTTTTACTATAAATGC
192 AGCATTCAACAATCTCATAGTAAAATTTTAAAGAGATTATTGAAGACATTTTTTACTACAAATAC
**
16730534 CTTCACTAATTCCCTCAAAATTTTTGAAG-GAATTTATTAAAGACGT-TTTTTTGCATAATACGT
257 CTTCACTAATTCCCTC-AAATTTTTGAAGAGAATTTATTAAAG--GTATTTTTTGCATAATACAC
* * *
16730597 CTTCAATAATCCCTTCCATTTTTATTAGAAGAATATCAGTGAAGACGATTTTATACTAAAAATGC
319 CTTCAATAATCCCTTCCATTTTTATTAGAAGAATATCAATGAAGACGATTTTATACCAAAAATAC
* * *
16730662 CTTCAATAATTCACTCCAATTTTTTAGAGGAATTTATTGAAGGCATTTTTT
384 CTTCAATAATCCACTCCAATTTTTTAAAAGAATTTATTGAAGGCATTTTTT
16730713 CCATAATACA
Statistics
Matches: 373, Mismatches: 53, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
438 107 0.29
439 255 0.68
440 11 0.03
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (437 bp):
AAAATGCCTTCAATAATACTCATAATATGTTTAGGAAGGATTATTGAAGACGTTTTTCGCATAAA
ACACCTCTAATAAACAAGGTATTGAAAAAATGGATAGATTATTGAAGGCATTTTGTAAAAAAATA
CCTTAAATAAATATTTTTTAAAATTTTTTTAAGATTATTAAAAGCATCTTTTAGTAAAAAAAGCA
TTCAACAATCTCATAGTAAAATTTTAAAGAGATTATTGAAGACATTTTTTACTACAAATACCTTC
ACTAATTCCCTCAAATTTTTGAAGAGAATTTATTAAAGGTATTTTTTGCATAATACACCTTCAAT
AATCCCTTCCATTTTTATTAGAAGAATATCAATGAAGACGATTTTATACCAAAAATACCTTCAAT
AATCCACTCCAATTTTTTAAAAGAATTTATTGAAGGCATTTTTTTAT
Found at i:16730746 original size:128 final size:128
Alignment explanation
Indices: 16730516--16730746 Score: 295
Period size: 128 Copynumber: 1.8 Consensus size: 128
16730506 TATTGAAGGC
* * * * *
16730516 ATTTTTTACTATAAATGCCTTCACTAATTCCCTCAAAATTTTTGAAGGAATTTATTAAAGACGTT
1 ATTTTATACTAAAAATGCCTTCAATAATTCACTCAAAATTTTTGAAGGAATTTATTAAAGACGAT
* ** **
16730581 TTTTTGCATAATACGTCTTCAATAATCCCTTCCATTTTTATTAGAAGAATATCAGTGAAGACG
66 TTTTTCCATAATACACCTTCAATAATCCCTTAAATTTTTATTAGAAGAATATCAGTGAAGACG
* * * *
16730644 ATTTTATACTAAAAATGCCTTCAATAATTCACTC-CAATTTTTTAGAGGAATTTATTGAAGGC-A
1 ATTTTATACTAAAAATGCCTTCAATAATTCACTCAAAATTTTTGA-AGGAATTTATTAAAGACGA
*
16730707 TTTTTTCCATAATACACCTTCAATAATCTCTTTAAATTTT
65 TTTTTTCCATAATACACCTTCAATAATC-CCTTAAATTTT
16730747 AATGAGGAGA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
127 33 0.38
128 53 0.62
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.41
Consensus pattern (128 bp):
ATTTTATACTAAAAATGCCTTCAATAATTCACTCAAAATTTTTGAAGGAATTTATTAAAGACGAT
TTTTTCCATAATACACCTTCAATAATCCCTTAAATTTTTATTAGAAGAATATCAGTGAAGACG
Found at i:16731462 original size:12 final size:12
Alignment explanation
Indices: 16731420--16731519 Score: 78
Period size: 12 Copynumber: 7.8 Consensus size: 12
16731410 AATATTGTGT
16731420 TTTGCTGAATGG
1 TTTGCTGAATGG
*
16731432 TATTGTATGATATTGG
1 T-TTG-CTGA-A-TGG
16731448 TTTGCTGAATGG
1 TTTGCTGAATGG
16731460 TTTG-TCGAATAGTG
1 TTTGCT-GAAT-G-G
*
16731474 TTT-TTGAATGG
1 TTTGCTGAATGG
*
16731485 TTTCCTGAATGG
1 TTTGCTGAATGG
*
16731497 TGTTTCTGAATGG
1 T-TTGCTGAATGG
16731510 TTTGCTGAAT
1 TTTGCTGAAT
16731520 TGTGTTTCTG
Statistics
Matches: 73, Mismatches: 5, Indels: 20
0.74 0.05 0.20
Matches are distributed among these distances:
11 5 0.07
12 29 0.40
13 20 0.27
14 11 0.15
15 4 0.05
16 4 0.05
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.46
Consensus pattern (12 bp):
TTTGCTGAATGG
Found at i:16731487 original size:25 final size:25
Alignment explanation
Indices: 16731447--16731531 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
16731437 TATGATATTG
16731447 GTTTGCTGAATGGTTTG-TCGAATAGT
1 GTTT-CTGAATGGTTTGCT-GAATAGT
* * *
16731473 GTTTTTGAATGGTTTCCTGAATGGT
1 GTTTCTGAATGGTTTGCTGAATAGT
*
16731498 GTTTCTGAATGGTTTGCTGAATTGT
1 GTTTCTGAATGGTTTGCTGAATAGT
16731523 GTTTCTGAA
1 GTTTCTGAA
16731532 CACATTGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 47 0.90
26 5 0.10
ACGTcount: A:0.18, C:0.08, G:0.28, T:0.46
Consensus pattern (25 bp):
GTTTCTGAATGGTTTGCTGAATAGT
Found at i:16733948 original size:20 final size:20
Alignment explanation
Indices: 16733923--16733973 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
16733913 ATTATATATC
16733923 TTTTATTTCTTCA-TAAGTAA
1 TTTTATTTCTT-ATTAAGTAA
*
16733943 TTTTATTTATGTATTAAGTAA
1 TTTTATTTCT-TATTAAGTAA
16733964 TTTT-TTTCTT
1 TTTTATTTCTT
16733974 TTCAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 12 0.44
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (20 bp):
TTTTATTTCTTATTAAGTAA
Found at i:16735537 original size:63 final size:62
Alignment explanation
Indices: 16735389--16735572 Score: 151
Period size: 63 Copynumber: 3.0 Consensus size: 62
16735379 AAAGGAATTC
* * * *
16735389 TTGCATAAAACACCTTCAATAATCTCTTACTTTTTTTATGAGGAGATTATTCAAGGCATTGT
1 TTGCCTAAAACACCTTCAATAATCCCTTACTATTTTTATAAGGAGATTATTCAAGGCATTGT
* * ** *** * ** *
16735451 CTGCCAAAAATGCCTTTTGTAATCCCTTATCTATTTTTATAATGAGATTATAT-AAGGTGTTTT
1 TTGCCTAAAACACCTTCAATAATCCCTTA-CTATTTTTATAAGGAGATTAT-TCAAGGCATTGT
* *
16735514 TTGCCTAAAACACCTTCAATAATCACTT-CAATTTTT-TACA-GAGGATTATTCAAGGCATT
1 TTGCCTAAAACACCTTCAATAATCCCTTACTATTTTTATA-AGGA-GATTATTCAAGGCATT
16735573 TTAGTTGATA
Statistics
Matches: 91, Mismatches: 26, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
60 5 0.05
61 20 0.22
62 20 0.22
63 45 0.49
64 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (62 bp):
TTGCCTAAAACACCTTCAATAATCCCTTACTATTTTTATAAGGAGATTATTCAAGGCATTGT
Found at i:16735596 original size:60 final size:60
Alignment explanation
Indices: 16735522--16735643 Score: 210
Period size: 60 Copynumber: 2.0 Consensus size: 60
16735512 TTTTGCCTAA
*
16735522 AACACCTTCAATAATCACTTCAATTTTTTACAGAGGATTATTCAAGGCATTTTAGTTGAT
1 AACACCTTCAATAATCACATCAATTTTTTACAGAGGATTATTCAAGGCATTTTAGTTGAT
*
16735582 AACACCTT-ATATAATCTCATCAATTTTTTACAGAGGATTATTCAAGGCATTTTAGTTGAT
1 AACACCTTCA-ATAATCACATCAATTTTTTACAGAGGATTATTCAAGGCATTTTAGTTGAT
16735642 AA
1 AA
16735644 ACGTCGCTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 1 0.02
60 58 0.98
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (60 bp):
AACACCTTCAATAATCACATCAATTTTTTACAGAGGATTATTCAAGGCATTTTAGTTGAT
Found at i:16736486 original size:31 final size:31
Alignment explanation
Indices: 16736451--16736510 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
16736441 AATAACTTAC
*
16736451 TCATTAATGAGGTATTATTATCTGATTCACA
1 TCATTAATGAGGTATTATCATCTGATTCACA
* *
16736482 TCATTAATGAGTTTTTATCATCTGATTCA
1 TCATTAATGAGGTATTATCATCTGATTCA
16736511 TTAACAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (31 bp):
TCATTAATGAGGTATTATCATCTGATTCACA
Found at i:16736590 original size:15 final size:15
Alignment explanation
Indices: 16736567--16736689 Score: 79
Period size: 15 Copynumber: 7.7 Consensus size: 15
16736557 CTTTTTGTTA
16736567 ATGTAATTTAATTTC
1 ATGTAATTTAATTTC
*
16736582 ATGTTATTTAATTTC
1 ATGTAATTTAATTTC
*
16736597 ATGCTTTAATTTACATTTG
1 ATG---TAATTTA-ATTTC
*
16736616 ATGTAATTTATTTTCC
1 ATGTAATTTAATTT-C
* *
16736632 ATGCACTTTAAATTT-
1 ATGTAATTT-AATTTC
*
16736647 ATGCAATTTAATTTTTC
1 ATGTAATTTAA--TTTC
*
16736664 AT-TCAATTTAATTTT
1 ATGT-AATTTAATTTC
*
16736679 ATGCAATTTAA
1 ATGTAATTTAA
16736690 ATTTAAGGTT
Statistics
Matches: 85, Mismatches: 12, Indels: 22
0.71 0.10 0.18
Matches are distributed among these distances:
14 2 0.02
15 40 0.47
16 17 0.20
17 13 0.15
18 6 0.07
19 7 0.08
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (15 bp):
ATGTAATTTAATTTC
Found at i:16736674 original size:32 final size:32
Alignment explanation
Indices: 16736604--16736689 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
16736594 TTCATGCTTT
* *
16736604 AATTTACATTTGATGTAATTT-ATTTTCCATGC
1 AATTTAAATTT-ATGCAATTTAATTTTCCATGC
* * *
16736636 ACTTTAAATTTATGCAATTTAATTTTTCATTC
1 AATTTAAATTTATGCAATTTAATTTTCCATGC
*
16736668 AATTTAATTTTATGCAATTTAA
1 AATTTAAATTTATGCAATTTAA
16736690 ATTTAAGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
31 8 0.17
32 38 0.83
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (32 bp):
AATTTAAATTTATGCAATTTAATTTTCCATGC
Found at i:16738086 original size:35 final size:36
Alignment explanation
Indices: 16738040--16738112 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 36
16738030 GCAAGTGCAC
*
16738040 AGGCCATTCAAGTAATAATA-AAACTATAAAAGTCT
1 AGGCCATTCAAGTAATAATAGAAACTACAAAAGTCT
* * *
16738075 AGGCCGTTCAAGTTATAATAGAGACTACAAAAGTCT
1 AGGCCATTCAAGTAATAATAGAAACTACAAAAGTCT
16738111 AG
1 AG
16738113 ATGTCAATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 18 0.55
36 15 0.45
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (36 bp):
AGGCCATTCAAGTAATAATAGAAACTACAAAAGTCT
Found at i:16751544 original size:25 final size:25
Alignment explanation
Indices: 16751516--16751582 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
16751506 TTAAAATTAA
16751516 TTCCTTTTTTTTCTTTTCTTCCTTT
1 TTCCTTTTTTTTCTTTTCTTCCTTT
16751541 TTCCTTTTTTTTCTTTTCTTCCTTT
1 TTCCTTTTTTTTCTTTTCTTCCTTT
*
16751566 TTCCTTTTCTTTCTTTT
1 TTCCTTTTTTTTCTTTT
16751583 TAAAGAAATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (25 bp):
TTCCTTTTTTTTCTTTTCTTCCTTT
Found at i:16751547 original size:16 final size:16
Alignment explanation
Indices: 16751522--16751583 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 16
16751512 TTAATTCCTT
*
16751522 TTTTTTCTTTTCTTCC
1 TTTTTCCTTTTCTTCC
16751538 TTTTTCC---T-TT--
1 TTTTTCCTTTTCTTCC
16751548 TTTTT-CTTTTCTTCC
1 TTTTTCCTTTTCTTCC
*
16751563 TTTTTCCTTTTCTTTC
1 TTTTTCCTTTTCTTCC
16751579 TTTTT
1 TTTTT
16751584 AAAGAAATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
12 3 0.08
13 3 0.08
15 5 0.14
16 20 0.54
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCCTTTTCTTCC
Found at i:16752044 original size:19 final size:19
Alignment explanation
Indices: 16752004--16752118 Score: 110
Period size: 19 Copynumber: 5.9 Consensus size: 19
16751994 GATTAGCTTT
* *
16752004 AAGGTTGGTTT-GGTTTTGG
1 AAGG-TGGTTTAGGGTTTAG
16752023 AAGGTGGTTTAGGGTTTAG
1 AAGGTGGTTTAGGGTTTAG
*
16752042 AAGGTGGCTTAGGGTTT-G
1 AAGGTGGTTTAGGGTTTAG
16752060 AAAGGTGGTGGTTTAGGG-TTAG
1 -AA---GGTGGTTTAGGGTTTAG
* * *
16752082 GAGGTGGATTAGGGTTTGG
1 AAGGTGGTTTAGGGTTTAG
16752101 AAGGTGGTTTAGGGTTTA
1 AAGGTGGTTTAGGGTTTA
16752119 AGTTTTAGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
18 18 0.23
19 46 0.58
21 3 0.04
22 12 0.15
ACGTcount: A:0.18, C:0.01, G:0.44, T:0.37
Consensus pattern (19 bp):
AAGGTGGTTTAGGGTTTAG
Found at i:16752097 original size:40 final size:41
Alignment explanation
Indices: 16752025--16752108 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 41
16752015 GGTTTTGGAA
*
16752025 GGTGGTTTAGGGTTTAGAAGGTGGCTTAGGGTTTGAAAGGT
1 GGTGGTTTAGGGTTTAGAAGGTGGATTAGGGTTTGAAAGGT
* *
16752066 GGTGGTTTAGGG-TTAGGAGGTGGATTAGGGTTTGGAAGGT
1 GGTGGTTTAGGGTTTAGAAGGTGGATTAGGGTTTGAAAGGT
16752106 GGT
1 GGT
16752109 TTAGGGTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 28 0.70
41 12 0.30
ACGTcount: A:0.18, C:0.01, G:0.48, T:0.33
Consensus pattern (41 bp):
GGTGGTTTAGGGTTTAGAAGGTGGATTAGGGTTTGAAAGGT
Found at i:16752118 original size:7 final size:7
Alignment explanation
Indices: 16752106--16752153 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
16752096 TTTGGAAGGT
16752106 GGTTTAG
1 GGTTTAG
*
16752113 GGTTTAA
1 GGTTTAG
*
16752120 GTTTTAG
1 GGTTTAG
*
16752127 TGTTTAG
1 GGTTTAG
*
16752134 GGTCTAG
1 GGTTTAG
16752141 GGTTTAG
1 GGTTTAG
*
16752148 AGTTTA
1 GGTTTA
16752154 TGGAATTTAG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:16752146 original size:21 final size:21
Alignment explanation
Indices: 16752107--16752153 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16752097 TTGGAAGGTG
* * *
16752107 GTTTAGGGTTTAAGTTTTAGT
1 GTTTAGGGTCTAAGGTTTAGA
*
16752128 GTTTAGGGTCTAGGGTTTAGA
1 GTTTAGGGTCTAAGGTTTAGA
16752149 GTTTA
1 GTTTA
16752154 TGGAATTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTCTAAGGTTTAGA
Found at i:16754622 original size:21 final size:19
Alignment explanation
Indices: 16754577--16754624 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
16754567 CTTGAAAAGA
16754577 TTTTTTTTATTTTTTGTTT
1 TTTTTTTTATTTTTTGTTT
*
16754596 TATTTTTTATCTTTTT-TTCCT
1 TTTTTTTTAT-TTTTTGTT--T
16754617 TTTTTTTT
1 TTTTTTTT
16754625 TTAGCTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 5 0.21
21 8 0.33
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTTTTTTATTTTTTGTTT
Found at i:16754634 original size:30 final size:30
Alignment explanation
Indices: 16754577--16754634 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
16754567 CTTGAAAAGA
* **
16754577 TTTTTTTTATTTTTTGTTTTATTTTTTATC
1 TTTTTTTCATTTTTTGTTTTAGCTTTTATC
* *
16754607 TTTTTTTCCTTTTTTTTTTTAGCTTTTA
1 TTTTTTTCATTTTTTGTTTTAGCTTTTA
16754635 GAGATTTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.81
Consensus pattern (30 bp):
TTTTTTTCATTTTTTGTTTTAGCTTTTATC
Found at i:16754770 original size:49 final size:49
Alignment explanation
Indices: 16754705--16754893 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
16754695 AAAAAATTTG
* * * **
16754705 GGCTCTTATGAAAATAGGGAACAAATTTTAAAAATCTCTTTCTAAAAAA
1 GGCTCATATGAAAATAGGCAACAAACTTTAAAAATCTCTTTCTGGAAAA
* * * * * *
16754754 AGCTCCTATGAAAATAGACAACGAACTTTAAAAATCTCTTTTTGGAAAT
1 GGCTCATATGAAAATAGGCAACAAACTTTAAAAATCTCTTTCTGGAAAA
* * *
16754803 GGCTTATATGAAAATAGGCAACAAACTTTAAAAAATCTCTCTCTGGAAAG
1 GGCTCATATGAAAATAGGCAACAAACTTT-AAAAATCTCTTTCTGGAAAA
*
16754853 GGCTCATATGAAAATAGGCAACAAACTTTAAAAGTCTCTTT
1 GGCTCATATGAAAATAGGCAACAAACTTTAAAAATCTCTTT
16754894 TTGGTGTTAG
Statistics
Matches: 118, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 73 0.62
50 45 0.38
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (49 bp):
GGCTCATATGAAAATAGGCAACAAACTTTAAAAATCTCTTTCTGGAAAA
Found at i:16754881 original size:99 final size:98
Alignment explanation
Indices: 16754711--16754897 Score: 266
Period size: 99 Copynumber: 1.9 Consensus size: 98
16754701 TTTGGGCTCT
* * * *
16754711 TATGAAAATAGGGAACAAATTTTAAAAATCTCTTTCTAAAAAAAGCTCCTATGAAAATAGACAAC
1 TATGAAAATAGGCAACAAATTTAAAAAATCTCTCTCTAAAAAAAGCTCATATGAAAATAGACAAC
*
16754776 GAACTTTAAAAATCTCTTTTTGGAAATGGCTTA
66 AAACTTTAAAAATCTCTTTTTGGAAATGGCTTA
** ** *
16754809 TATGAAAATAGGCAACAAACTTTAAAAAATCTCTCTCTGGAAAGGGCTCATATGAAAATAGGCAA
1 TATGAAAATAGGCAACAAA-TTTAAAAAATCTCTCTCTAAAAAAAGCTCATATGAAAATAGACAA
*
16754874 CAAACTTTAAAAGTCTCTTTTTGG
65 CAAACTTTAAAAATCTCTTTTTGG
16754898 TGTTAGCTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
98 18 0.23
99 59 0.77
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (98 bp):
TATGAAAATAGGCAACAAATTTAAAAAATCTCTCTCTAAAAAAAGCTCATATGAAAATAGACAAC
AAACTTTAAAAATCTCTTTTTGGAAATGGCTTA
Found at i:16755096 original size:32 final size:31
Alignment explanation
Indices: 16755007--16755106 Score: 78
Period size: 32 Copynumber: 3.1 Consensus size: 31
16754997 TAAATTAGGT
* * * *
16755007 TTAAATCTTTATAGGTATCAAATAAAT-TGGGC
1 TTAAATCTTTATAGGTAGCTACT-AATCT-GAC
* * *
16755039 TTAATTCTTCATATGT-GCTAGCTAATCTAGAC
1 TTAAATCTTTATAGGTAGCTA-CTAATCT-GAC
16755071 TTAAATCTTTATAGGTAGCTACTAATCTGACC
1 TTAAATCTTTATAGGTAGCTACTAATCTGA-C
16755103 TTAA
1 TTAA
16755107 TTCTCCTTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
31 7 0.13
32 42 0.79
33 4 0.08
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (31 bp):
TTAAATCTTTATAGGTAGCTACTAATCTGAC
Found at i:16755755 original size:9 final size:10
Alignment explanation
Indices: 16755734--16755775 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
16755724 AGTGTTTCTA
16755734 TTTCTATTTT
1 TTTCTATTTT
16755744 TTTCTATTTT
1 TTTCTATTTT
*
16755754 TTTGTTATTTT
1 TTT-CTATTTT
16755765 TTAT-TATTTT
1 TT-TCTATTTT
16755775 T
1 T
16755776 ACAAATTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 20 0.69
11 8 0.28
12 1 0.03
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTCTATTTT
Found at i:16756500 original size:23 final size:23
Alignment explanation
Indices: 16756474--16756530 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
16756464 CAATTCAACA
*
16756474 ACTTTCTTTTTACAACAAACATG
1 ACTTCCTTTTTACAACAAACATG
16756497 ACTTCCTTTTTACAACAAACATG
1 ACTTCCTTTTTACAACAAACATG
16756520 ACTTCCTTTTT
1 ACTTCCTTTTT
16756531 TTATTTTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.42
Consensus pattern (23 bp):
ACTTCCTTTTTACAACAAACATG
Found at i:16757512 original size:23 final size:22
Alignment explanation
Indices: 16757472--16757519 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
16757462 TTTTCCCATA
16757472 TTCTTCTTCTTTTCCTTTTATTT
1 TTCTTCTTCTTTTCCTTTT-TTT
*
16757495 TTCTT-TTTTTTTCTCTTTTTTT
1 TTCTTCTTCTTTTC-CTTTTTTT
16757517 TTC
1 TTC
16757520 CTTATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
TTCTTCTTCTTTTCCTTTTTTT
Found at i:16757519 original size:12 final size:12
Alignment explanation
Indices: 16757481--16757519 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
16757471 ATTCTTCTTC
*
16757481 TTTTC-CTTTTA
1 TTTTCTCTTTTT
16757492 TTTT-TCTTTTT
1 TTTTCTCTTTTT
16757503 TTTTCTCTTTTT
1 TTTTCTCTTTTT
16757515 TTTTC
1 TTTTC
16757520 CTTATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 13 0.52
12 12 0.48
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:16757527 original size:12 final size:11
Alignment explanation
Indices: 16757481--16757527 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
16757471 ATTCTTCTTC
16757481 TTTTCCTTTTAT
1 TTTTCCTTTT-T
16757493 TTTT-CTTTTT
1 TTTTCCTTTTT
16757503 TTTTCTCTTTTT
1 TTTTC-CTTTTT
*
16757515 TTTTCCTTATT
1 TTTTCCTTTTT
16757526 TT
1 TT
16757528 CTGTTTCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 5 0.16
11 12 0.38
12 15 0.47
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTCCTTTTT
Done.