Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 74 of 84
Found at i:16009665 original size:18 final size:18
Alignment explanation
Indices: 16009621--16009665 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
16009611 TGCTGATAGG
*
16009621 ATGGGGCTGCGGCTGGGG
1 ATGGGGCTGCGGCTGGGA
* *
16009639 CTGGGGCTGGGGCTGGGA
1 ATGGGGCTGCGGCTGGGA
*
16009657 ATGGAGCTG
1 ATGGGGCTG
16009666 AAAACACGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.58, T:0.18
Consensus pattern (18 bp):
ATGGGGCTGCGGCTGGGA
Found at i:16010395 original size:9 final size:9
Alignment explanation
Indices: 16010381--16010429 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
16010371 GTTTGTAATC
16010381 ATAAAAATA
1 ATAAAAATA
16010390 ATAAAAATA
1 ATAAAAATA
*
16010399 AT-AAGAT-
1 ATAAAAATA
*
16010406 ATGAAAATA
1 ATAAAAATA
*
16010415 ATAATAATA
1 ATAAAAATA
16010424 A-AAAAA
1 ATAAAAA
16010430 AACAACATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
7 2 0.06
8 12 0.36
9 19 0.58
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (9 bp):
ATAAAAATA
Found at i:16011295 original size:6 final size:6
Alignment explanation
Indices: 16011286--16011323 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
16011276 AGGTGTTGGT
16011286 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GG
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GG
16011324 GCAACTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GGTGGA
Found at i:16020609 original size:14 final size:13
Alignment explanation
Indices: 16020580--16020616 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
16020570 GTCCCTTACC
16020580 TTTATTTTA-T-T
1 TTTATTTTATTAT
16020591 TTTATTTTTATTAT
1 TTTA-TTTTATTAT
16020605 TTTATTTTATTA
1 TTTATTTTATTA
16020617 AAAATTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 5 0.22
13 9 0.39
14 5 0.22
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:16021602 original size:16 final size:16
Alignment explanation
Indices: 16021573--16021628 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
16021563 ATGAAATAAA
* *
16021573 AATAAAATATAAATAG
1 AATAAAAAACAAATAG
16021589 AATAAAAAACAAATCA-
1 AATAAAAAACAAAT-AG
*
16021605 AACAAAAAACAAAT-G
1 AATAAAAAACAAATAG
16021620 AAGTAAAAA
1 AA-TAAAAA
16021629 CGAAAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 2 0.06
16 30 0.91
17 1 0.03
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.14
Consensus pattern (16 bp):
AATAAAAAACAAATAG
Found at i:16022694 original size:18 final size:18
Alignment explanation
Indices: 16022636--16022694 Score: 50
Period size: 20 Copynumber: 3.3 Consensus size: 18
16022626 AACCCAATCC
*
16022636 AATAT-TATATAAAAATT
1 AATATATATTTAAAAATT
* **
16022653 -ATATATATTTTAATTTAT
1 AATATATATTTAAAAAT-T
16022671 ATATATATATTTAAAAATT
1 A-ATATATATTTAAAAATT
16022690 AATAT
1 AATAT
16022695 TTTATGTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 5 0.16
19 2 0.06
20 13 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATATATTTAAAAATT
Found at i:16022706 original size:21 final size:21
Alignment explanation
Indices: 16022680--16022720 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16022670 TATATATATA
*
16022680 TTTAAAAATTAATATTTTATG
1 TTTAAAAAATAATATTTTATG
16022701 TTTAAAAAATAATATTTTAT
1 TTTAAAAAATAATATTTTAT
16022721 TAATTTCGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTAAAAAATAATATTTTATG
Found at i:16025489 original size:15 final size:16
Alignment explanation
Indices: 16025469--16025509 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16025459 GGCCAAACTG
16025469 TTTATTATTTTAT-TA
1 TTTATTATTTTATGTA
16025484 TTTATT-TATTTATGTA
1 TTTATTAT-TTTATGTA
16025500 TTT-TTATTTT
1 TTTATTATTTT
16025510 TTTTTGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.04
15 16 0.70
16 6 0.26
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTATTATTTTATGTA
Found at i:16025507 original size:18 final size:18
Alignment explanation
Indices: 16025479--16025522 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
16025469 TTTATTATTT
16025479 TATTATTTATTTATTTATG
1 TATT-TTTATTTATTTATG
* *
16025498 TATTTTTATTTTTTTTTG
1 TATTTTTATTTATTTATG
*
16025516 GATTTTT
1 TATTTTT
16025523 TTATTTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (18 bp):
TATTTTTATTTATTTATG
Found at i:16025529 original size:18 final size:19
Alignment explanation
Indices: 16025484--16025529 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
16025474 TATTTTATTA
*
16025484 TTTATTTATTTATGTATTTT
1 TTTATTT-TTTATGGATTTT
16025504 TATT-TTTTTT-TGGATTTT
1 T-TTATTTTTTATGGATTTT
16025522 TTTATTTT
1 TTTATTTT
16025530 GATGACTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.09
18 12 0.52
19 3 0.13
20 4 0.17
21 2 0.09
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTATTTTTTATGGATTTT
Found at i:16037898 original size:131 final size:128
Alignment explanation
Indices: 16037644--16037937 Score: 312
Period size: 131 Copynumber: 2.3 Consensus size: 128
16037634 TTTTTTTTTG
* *
16037644 AAGTTGTTGAGCCTCTGA-TTAGGGAAGCCTTTA--TCTTTTAAAGTTGTTGAGCCTCTGCTTAG
1 AAGTTGTTGAGCCTCT-ATTTAGAG-AGCCTTTATTTCTTTTAAAGTGGTTGAGCCTCTGCTTAG
* * * *
16037706 AAGAGCCTTATTTATTTTTCAAAAATTGTTGAGCATCTGATTAAAGAAGCCTTGTTTATTTTTCA
64 AAGAACCTTATTTATCTTTCAAAAATTGTTGAACATCTGATTAAAGAAGCCTTATTTATTTTTCA
* *
16037771 AAGTTGTTGAGCCTCTATTTAGAGTAGCCTTTATTTACTTTTTCAAAGTGGTTTAGCCTCTGTTT
1 AAGTTGTTGAGCCTCTATTTAGAG-AGCCTTTATTT-C-TTTT-AAAGTGGTTGAGCCTCTGCTT
* * * *
16037836 A-AAGGAACCTTATTTATCTTTC-AAAGTTGTTGAACCTTTGCTTAAATG-AGCCTTATTTATTT
62 AGAA-GAACCTTATTTATCTTTCAAAAATTGTTGAACATCTGATTAAA-GAAGCCTTATTTATTT
16037898 TTCA
125 TTCA
** * **
16037902 AAGTCATTGAGCATCGGTTTAGAAGAGCCTTTATTT
1 AAGTTGTTGAGCCTCTATTTAG-AGAGCCTTTATTT
16037938 TTCAAAGTTC
Statistics
Matches: 140, Mismatches: 18, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
126 1 0.01
127 29 0.21
129 1 0.01
130 1 0.01
131 70 0.50
132 38 0.27
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (128 bp):
AAGTTGTTGAGCCTCTATTTAGAGAGCCTTTATTTCTTTTAAAGTGGTTGAGCCTCTGCTTAGAA
GAACCTTATTTATCTTTCAAAAATTGTTGAACATCTGATTAAAGAAGCCTTATTTATTTTTCA
Found at i:16037977 original size:171 final size:172
Alignment explanation
Indices: 16037589--16038051 Score: 509
Period size: 171 Copynumber: 2.7 Consensus size: 172
16037579 AAGAGCCTTA
* * * *
16037589 TTTTATTTTTCAAAGTTATTGAGCCTATAATTAGAGGAGCATTGTT-TTT--TTTTT-GAAGTTG
1 TTTTATTTTTCAAAGTTATTGAGCCTCTATTTAGAGAAGC-TT-TTATTTACTTTTTCAAAGTTG
* * * * *
16037650 TTGAGCCTCTGATT-AGGGAAGCC--TTTATCTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGC
64 TTAAGCCTCTGTTTAAAGGAA-CCTATTTATCTTTCAAAGTTGTTGAACCTCTGCTTAGAAGAGC
** *
16037712 CTTATTTATTTTTCAAAAATTGTTGAGCATCTGATTAAAGAAGCC
128 CTTATTTATTTTTCAAAAATCATTGAGCATCGGATTAAAGAAGCC
* * * *
16037757 TTGTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGTAGCCTTTATTTACTTTTTCAAAGTGG
1 -T-TTTATTTTTCAAAGTTATTGAGCCTCTATTTAGAGAAGCTTTTATTTACTTTTTCAAAGTTG
* *
16037822 TTTAGCCTCTGTTTAAAGGAACCTTATTTATCTTTCAAAGTTGTTGAACCTTTGCTTA-AATGAG
64 TTAAGCCTCTGTTTAAAGGAACC-TATTTATCTTTCAAAGTTGTTGAACCTCTGCTTAGAA-GAG
* *
16037886 CCTTATTTATTTTTC-AAAGTCATTGAGCATCGGTTTAGAAG-AGCC
127 CCTTATTTATTTTTCAAAAATCATTGAGCATCGGATTA-AAGAAGCC
* *
16037931 -TTTATTTTTCAAAGTTCTTGAGCCTCTATTTAGAGAAGCTTTTATTTACTTTTCCAAAGTTGTT
1 TTTTATTTTTCAAAGTTATTGAGCCTCTATTTAGAGAAGCTTTTATTTACTTTTTCAAAGTTGTT
* * * * *
16037995 AAGCCTCTGTTTAGAGGAGTCGTATTTATTTTTCCAAAGTTG-TGAACCTCTACTTAG
66 AAGCCTCTGTTTAAAGGA-ACCTATTTATCTTT-CAAAGTTGTTGAACCTCTGCTTAG
16038052 GGGAGTTTTA
Statistics
Matches: 250, Mismatches: 30, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
168 2 0.01
169 5 0.02
170 35 0.14
171 102 0.41
172 28 0.11
173 5 0.02
174 23 0.09
175 50 0.20
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (172 bp):
TTTTATTTTTCAAAGTTATTGAGCCTCTATTTAGAGAAGCTTTTATTTACTTTTTCAAAGTTGTT
AAGCCTCTGTTTAAAGGAACCTATTTATCTTTCAAAGTTGTTGAACCTCTGCTTAGAAGAGCCTT
ATTTATTTTTCAAAAATCATTGAGCATCGGATTAAAGAAGCC
Found at i:16038036 original size:44 final size:43
Alignment explanation
Indices: 16037581--16038045 Score: 390
Period size: 43 Copynumber: 10.8 Consensus size: 43
16037571 GATTATCGAA
* * **
16037581 GAGCCTTATTTTATTTTTCAAAGTTATTGAGCCTATAATTAGAG
1 GAGCCTTA-TTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * * ** *
16037625 GAGCATTGTTTTTTTTTTGAAGTTGTTGAGCCTCTGATTAG-G
1 GAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* *
16037667 GAAGCC---TTTATCTTTT-AAAGTTGTTGAGCCTCTGCTTAGAA
1 G-AGCCTTATTTAT-TTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * * *
16037708 GAGCCTTATTTATTTTTCAAAAATTGTTGAGCATCTGATTAAAG
1 GAGCCTTATTTATTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAG
* * *
16037752 AAGCCTTGTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
1 GAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * * *
16037795 TAGCCTTTATTTACTTTTTCAAAGTGGTTTAGCCTCTGTTTAAAG
1 GAGCC-TTATTTA-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * * * * * *
16037840 GAACCTTATTTATCTTTCAAAGTTGTTGAACCTTTGCTTAAAT
1 GAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
** * * *
16037883 GAGCCTTATTTATTTTTCAAAGTCATTGAGCATCGGTTTAGAA
1 GAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* *
16037926 GAGCC---TTTATTTTTCAAAGTTCTTGAGCCTCTATTTAGAG
1 GAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * * *
16037966 AAGCTTTTATTTACTTTTCCAAAGTTGTTAAGCCTCTGTTTAGAG
1 GAGC-CTTATTTA-TTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
* * *
16038011 GAGTCGTATTTATTTTTCCAAAGTTG-TGAACCTCT
1 GAGCCTTATTTATTTTT-CAAAGTTGTTGAGCCTCT
16038046 ACTTAGGGGA
Statistics
Matches: 335, Mismatches: 70, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
40 61 0.18
41 5 0.01
42 6 0.02
43 131 0.39
44 73 0.22
45 59 0.18
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (43 bp):
GAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
Found at i:16038068 original size:44 final size:43
Alignment explanation
Indices: 16037931--16038069 Score: 145
Period size: 44 Copynumber: 3.2 Consensus size: 43
16037921 TAGAAGAGCC
* * *
16037931 TTTATTTTT-CAAAGTTCTTGAGCCTCTATTTAGAGAAGCTTTTA
1 TTTATTTTTCCAAAGTT-GTGAACCTCTATTTAGAGGAG-TTTTA
* * * **
16037975 TTTACTTTTCCAAAGTTGTTAAGCCTCTGTTTAGAGGAGTCGTA
1 TTTATTTTTCCAAAGTTGTGAA-CCTCTATTTAGAGGAGTTTTA
* *
16038019 TTTATTTTTCCAAAGTTGTGAACCTCTACTTAGGGGAGTTTTA
1 TTTATTTTTCCAAAGTTGTGAACCTCTATTTAGAGGAGTTTTA
16038062 TGTTATTT
1 T-TTATTT
16038070 AGCCAATTTG
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 17 0.22
44 39 0.51
45 21 0.27
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (43 bp):
TTTATTTTTCCAAAGTTGTGAACCTCTATTTAGAGGAGTTTTA
Found at i:16038964 original size:27 final size:27
Alignment explanation
Indices: 16038925--16038976 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
16038915 TTTTGATATT
16038925 TTTTATTTATTTTAT-TTAGTATTTTAC
1 TTTTATTTATTTT-TCTTAGTATTTTAC
16038952 TTTTATGTT-TTTTTCTTAGTATTTT
1 TTTTAT-TTATTTTTCTTAGTATTTT
16038977 TGCATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.04
27 20 0.87
28 2 0.09
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (27 bp):
TTTTATTTATTTTTCTTAGTATTTTAC
Found at i:16041154 original size:28 final size:28
Alignment explanation
Indices: 16041097--16041175 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
16041087 TCTGAAGATC
*
16041097 CAAAAATCTTTAAATTTGGGATCAAATTT
1 CAAAAAT-TTTAAATTTGGGACCAAATTT
*
16041126 CAAAAATTTCTAAATTT-GGACCACATTT
1 CAAAAATTT-TAAATTTGGGACCAAATTT
* * *
16041154 CAAGAATTCGTAATTTTGGGAC
1 CAAAAATT-TTAAATTTGGGAC
16041176 AAAACTTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (28 bp):
CAAAAATTTTAAATTTGGGACCAAATTT
Found at i:16045150 original size:20 final size:20
Alignment explanation
Indices: 16045125--16045163 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16045115 TATTATAGGG
**
16045125 TTTTGAAATTTAAAAATAAT
1 TTTTGAAAAATAAAAATAAT
16045145 TTTTGAAAAATAAAAATAA
1 TTTTGAAAAATAAAAATAA
16045164 AACTTTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTTGAAAAATAAAAATAAT
Found at i:16046824 original size:46 final size:47
Alignment explanation
Indices: 16046771--16046865 Score: 165
Period size: 46 Copynumber: 2.0 Consensus size: 47
16046761 CCAACTTGTG
*
16046771 AATTTTGGTGGTTGGGATAATTGTTTCTAA-TTTTTTTTGTTACATA
1 AATTTTGGTGGTTGAGATAATTGTTTCTAATTTTTTTTTGTTACATA
16046817 AATTTTGGTGGTTGAGATAATTGTTTCTAATTTTTTTTTTGTTACATA
1 AATTTTGGTGGTTGAGATAATTGTTTCTAA-TTTTTTTTTGTTACATA
16046865 A
1 A
16046866 GCATACGCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 29 0.63
48 17 0.37
ACGTcount: A:0.23, C:0.04, G:0.18, T:0.55
Consensus pattern (47 bp):
AATTTTGGTGGTTGAGATAATTGTTTCTAATTTTTTTTTGTTACATA
Found at i:16047648 original size:13 final size:13
Alignment explanation
Indices: 16047632--16047698 Score: 59
Period size: 13 Copynumber: 5.0 Consensus size: 13
16047622 AGTTGATATC
16047632 TTAAATTAA-AATA
1 TTAAA-TAATAATA
16047645 TTAAATAATAATA
1 TTAAATAATAATA
16047658 TTATTAAT-ATAATA
1 TTA--AATAATAATA
*
16047672 TATAAAT-ATAAAA
1 T-TAAATAATAATA
16047685 TTAAATAAATAATA
1 TTAAAT-AATAATA
16047699 AAATATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 8 0.17
13 21 0.46
14 12 0.26
15 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAATAATAATA
Found at i:16047696 original size:27 final size:27
Alignment explanation
Indices: 16047632--16047698 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
16047622 AGTTGATATC
* *
16047632 TTAAATTAA-AATATTAAATAATAATA
1 TTAAATAAATAATATTAAATAATAAAA
*
16047658 TT-ATTAATATAATATATAAAT-ATAAAA
1 TTAAATAA-ATAATAT-TAAATAATAAAA
16047685 TTAAATAAATAATA
1 TTAAATAAATAATA
16047699 AAATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
25 3 0.09
26 3 0.09
27 18 0.55
28 9 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TTAAATAAATAATATTAAATAATAAAA
Found at i:16059100 original size:15 final size:15
Alignment explanation
Indices: 16059080--16059112 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
16059070 AACGTTTTAG
16059080 ATTTTTCCAAAAAAA
1 ATTTTTCCAAAAAAA
*
16059095 ATTTTTCCATAAAAA
1 ATTTTTCCAAAAAAA
16059110 ATT
1 ATT
16059113 GATAAAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTTTCCAAAAAAA
Found at i:16061117 original size:20 final size:18
Alignment explanation
Indices: 16061071--16061117 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
16061061 TAATGCTCCA
16061071 TTGG-TTTTTTTTTTTTT
1 TTGGCTTTTTTTTTTTTT
*
16061088 TTTGCATTTTTTTTTTTACTT
1 TTGGC-TTTTTTTTTTT--TT
16061109 TTGGCTTTT
1 TTGGCTTTT
16061118 AAGAACGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
19 11 0.46
20 4 0.17
21 6 0.25
ACGTcount: A:0.04, C:0.06, G:0.11, T:0.79
Consensus pattern (18 bp):
TTGGCTTTTTTTTTTTTT
Found at i:16061927 original size:18 final size:17
Alignment explanation
Indices: 16061901--16061944 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
16061891 TCCATCTCTT
* *
16061901 TTTTTTTTTTTCATTTC
1 TTTTCTTTTTTCATATC
16061918 TTTTCATTTTTTCATATC
1 TTTTC-TTTTTTCATATC
16061936 TTTTCTTTT
1 TTTTCTTTT
16061945 ATTTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTCTTTTTTCATATC
Found at i:16061963 original size:18 final size:17
Alignment explanation
Indices: 16061899--16061964 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 17
16061889 AATCCATCTC
16061899 TTTTTTTT-TTTTTCAT
1 TTTTTTTTATTTTTCAT
* *
16061915 TTCTTTTCATTTTTTCATAT
1 TTTTTTTTA-TTTTTC--AT
16061935 CTTTTCTTTTATTTTTCAT
1 -TTTT-TTTTATTTTTCAT
16061954 TTTTTCTTTAT
1 TTTTT-TTTAT
16061965 ATATTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
16 6 0.15
17 1 0.03
18 15 0.38
19 2 0.05
20 2 0.05
21 9 0.23
22 4 0.10
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTTATTTTTCAT
Found at i:16063178 original size:20 final size:19
Alignment explanation
Indices: 16063145--16063183 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
16063135 AAAAAAAAAA
16063145 TATTTTATTATTATTATTAT
1 TATTTTATTATTA-TATTAT
16063165 TATTTTA-TATTTATATTAT
1 TATTTTATTA-TTATATTAT
16063184 ATTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTATTATTATATTAT
Found at i:16063244 original size:26 final size:26
Alignment explanation
Indices: 16063215--16063271 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
16063205 TATCATAATT
*
16063215 TAATAAAAATACTATATAT-TTATAAA
1 TAATAAAAATA-TATATATATTAAAAA
* * *
16063241 TAATTAAGATATATTTATATTAAAAA
1 TAATAAAAATATATATATATTAAAAA
16063267 TAATA
1 TAATA
16063272 TCCATACAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
TAATAAAAATATATATATATTAAAAA
Found at i:16064759 original size:17 final size:17
Alignment explanation
Indices: 16064737--16064769 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16064727 TAGTTTTAAG
*
16064737 GTTTGGGTTGGTTTGGA
1 GTTTGGGTTGATTTGGA
16064754 GTTTGGGTTGATTTGG
1 GTTTGGGTTGATTTGG
16064770 GGTCTAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.45, T:0.48
Consensus pattern (17 bp):
GTTTGGGTTGATTTGGA
Found at i:16064794 original size:13 final size:13
Alignment explanation
Indices: 16064775--16064805 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16064765 TTTGGGGTCT
16064775 AGGTTAGGGTTTA
1 AGGTTAGGGTTTA
*
16064788 GGGTTAGGGTTTA
1 AGGTTAGGGTTTA
16064801 AGGTT
1 AGGTT
16064806 TAATTTAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (13 bp):
AGGTTAGGGTTTA
Found at i:16064812 original size:25 final size:25
Alignment explanation
Indices: 16064784--16064856 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
16064774 TAGGTTAGGG
16064784 TTTAGGGTTAGGGTTTAAGGTTTAA
1 TTTAGGGTTAGGGTTTAAGGTTTAA
** * *
16064809 TTTAGGGTTTCGATTTAAGGTTTTAG
1 TTTAGGGTTAGGGTTTAAGG-TTTAA
* *
16064835 CTTAGGATTTAGGGTTTAAGGT
1 TTTAGG-GTTAGGGTTTAAGGT
16064857 CTGGGGTTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 17 0.46
26 10 0.27
27 10 0.27
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (25 bp):
TTTAGGGTTAGGGTTTAAGGTTTAA
Found at i:16064897 original size:16 final size:18
Alignment explanation
Indices: 16064876--16064917 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
16064866 GAAATTTAGG
16064876 GTTTCATGAG-ATTT-GA
1 GTTTCATGAGAATTTGGA
*
16064892 GTTTCATG-GAATTTGGG
1 GTTTCATGAGAATTTGGA
16064909 GTTTCATGA
1 GTTTCATGA
16064918 AAATGGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 12 0.55
17 9 0.41
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (18 bp):
GTTTCATGAGAATTTGGA
Found at i:16064914 original size:17 final size:16
Alignment explanation
Indices: 16064868--16064916 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
16064858 TGGGGTTTGA
16064868 AATTTAGGGTTTCAT-G
1 AATTT-GGGTTTCATGG
*
16064884 AGATTTGAGTTTCATGG
1 A-ATTTGGGTTTCATGG
16064901 AATTTGGGGTTTCATG
1 AATTT-GGGTTTCATG
16064917 AAAATGGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.22, C:0.06, G:0.29, T:0.43
Consensus pattern (16 bp):
AATTTGGGTTTCATGG
Found at i:16067252 original size:124 final size:127
Alignment explanation
Indices: 16067111--16067385 Score: 300
Period size: 124 Copynumber: 2.2 Consensus size: 127
16067101 TTTGATAAAA
* * *
16067111 AAAAATACCTTAAATAATCTTCCCT-TAAATTTTTATGACGTTATTACTCAAGGTGTTTTT--TG
1 AAAAATACCTTAAATAATCTTCCCTATAAAATTTTATGACGTGATTACTCAAGGCGTTTTTCAT-
* *
16067173 CTAAAAACA-CTTTTAATAAT-CCAAAAAAA-A-TTTTAATGGGATTATTGAAGATGTTTTTGGT
65 C-AAAAACATCTTGT-ATAATCCCAAAAAAAGATTTTTAATGGGATTATTAAAGATGTTTTT--T
16067234 T-
126 TC
* *
16067235 AAAAATACCTTCAATAATC--CCTTGATAAAATTTTATGACGTGATTACTCAAGGCGTTTTTCAT
1 AAAAATACCTTAAATAATCTTCCCT-ATAAAATTTTATGACGTGATTACTCAAGGCGTTTTTCAT
*
16067298 CAAAAACATCTTGTATAATCCCAAAAAAAGATTTTTTTTAATGGGATTATTAAAGGTGTTTTTTT
65 CAAAAACATCTTGTATAATCCCAAAAAAAGA---TTTTTAATGGGATTATTAAAGATGTTTTTTT
16067363 CC
127 -C
* *
16067365 AAAAATGCCTTGAATAATCTT
1 AAAAATACCTTAAATAATCTT
16067386 AAAAAAAATT
Statistics
Matches: 126, Mismatches: 10, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
122 3 0.02
124 62 0.49
125 14 0.11
126 2 0.02
128 2 0.02
130 43 0.34
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (127 bp):
AAAAATACCTTAAATAATCTTCCCTATAAAATTTTATGACGTGATTACTCAAGGCGTTTTTCATC
AAAAACATCTTGTATAATCCCAAAAAAAGATTTTTAATGGGATTATTAAAGATGTTTTTTTC
Found at i:16067420 original size:61 final size:63
Alignment explanation
Indices: 16067333--16067486 Score: 195
Period size: 61 Copynumber: 2.5 Consensus size: 63
16067323 AAAAGATTTT
* *** *
16067333 TTTTAATGGGATTATTAAAGGTGTTTTTTTCCAAAAATGCCTTGAATAATCTT-AAA-AAAAA
1 TTTTAATGGGGTTATTAAAGGTGTTTTTGGACAAAAATACCTTGAATAATCTTGAAACAAAAA
* * *
16067394 TTTTAATGGGGTTATTGAAGGTGTTTTTGGACAAAAATACCTTGAATAATTTTGAAACAAAAT
1 TTTTAATGGGGTTATTAAAGGTGTTTTTGGACAAAAATACCTTGAATAATCTTGAAACAAAAA
* **
16067457 TTTTAATGAGGTTATTAAAGGCATTTTTGG
1 TTTTAATGGGGTTATTAAAGGTGTTTTTGG
16067487 TTAAAAACGC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
61 46 0.58
62 3 0.04
63 30 0.38
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (63 bp):
TTTTAATGGGGTTATTAAAGGTGTTTTTGGACAAAAATACCTTGAATAATCTTGAAACAAAAA
Found at i:16067484 original size:63 final size:60
Alignment explanation
Indices: 16067332--16067610 Score: 184
Period size: 63 Copynumber: 4.4 Consensus size: 60
16067322 AAAAAGATTT
*** *
16067332 TTTTTAATGGGATTATTAAAGGTGTTTTTTTCCAAAAATGCCTTGAATAATCTTAAAAAAA
1 TTTTTAATGGG-TTATTAAAGGTGTTTTTGGACAAAAATACCTTGAATAATCTTAAAAAAA
* * *
16067393 ATTTTAATGGGGTTATTGAAGGTGTTTTTGGACAAAAATACCTTGAATAATTTTGAAACAAAA
1 TTTTTAAT-GGGTTATTAAAGGTGTTTTTGGACAAAAATACCTTGAATAATCTT-AAA-AAAA
** ** ** * * * *
16067456 TTTTTAATGAGGTTATTAAAGGCATTTTTGGTTAAAAACGCCTTTAATATTTCTCT-CATAAA
1 TTTTTAATG-GGTTATTAAAGGTGTTTTTGGACAAAAATACCTTGAATA-ATCT-TAAAAAAA
* * * * *
16067518 TTTTTAGAAGGTGATTACTTAAA-GTATTTTTGGACAAAAACATCTTGAATAATCCTGAAAAATA
1 TTTTTA-ATGG-G-TTA-TTAAAGGTGTTTTTGGACAAAAATACCTTGAATAAT-CT-TAAAA-A
16067582 AA
59 AA
* * *
16067584 TTTTTAATGCAGTTATTGAAGGCGTTT
1 TTTTTAATG-GGTTATTAAAGGTGTTT
16067611 CTAACAAAAA
Statistics
Matches: 166, Mismatches: 37, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
61 43 0.26
62 17 0.10
63 51 0.31
64 36 0.22
65 10 0.06
66 9 0.05
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (60 bp):
TTTTTAATGGGTTATTAAAGGTGTTTTTGGACAAAAATACCTTGAATAATCTTAAAAAAA
Found at i:16067676 original size:129 final size:127
Alignment explanation
Indices: 16067411--16067678 Score: 290
Period size: 129 Copynumber: 2.1 Consensus size: 127
16067401 GGGGTTATTG
* * ** *
16067411 AAGGTGTTTTTGGACAAAAATACCTTGAATAATTTTGAAACAAAATTTTTAATGAGGTTATTAAA
1 AAGGTATTTTTGGACAAAAACACCTTGAATAATCCTGAAAAAAAATTTTTAATGAGGTTATTAAA
***** * * *
16067476 GGCATTTTTGGTTAAAAACGCCTTTAATATTTCTCTCATAAATTTTTAGAAGGTGATTACTT
66 GGCATTTTAACAAAAAAACACCTTCAATATTTCTCTCATAAATTTTTAGAAGATGATTACTT
* * *
16067538 AAAGTATTTTTGGACAAAAACATCTTGAATAATCCTGAAAAATAAATTTTTAATGCA-GTTATTG
1 AAGGTATTTTTGGACAAAAACACCTTGAATAATCCTGAAAAA-AAATTTTTAATG-AGGTTATTA
* * * *
16067602 AAGGCGTTTCTAACAAAAAAATACCTTCAATAATTTC-CTTATAAATTTTTATTAA-ATGATTAC
64 AAGGCATTT-TAACAAAAAAACACCTTCAAT-ATTTCTCTCATAAATTTTTA-GAAGATGATTAC
16067665 TT
126 TT
16067667 AAGGTATTTTTG
1 AAGGTATTTTTG
16067679 ATAAAAAAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
127 35 0.30
128 26 0.23
129 47 0.41
130 7 0.06
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.40
Consensus pattern (127 bp):
AAGGTATTTTTGGACAAAAACACCTTGAATAATCCTGAAAAAAAATTTTTAATGAGGTTATTAAA
GGCATTTTAACAAAAAAACACCTTCAATATTTCTCTCATAAATTTTTAGAAGATGATTACTT
Found at i:16067966 original size:126 final size:126
Alignment explanation
Indices: 16067735--16067980 Score: 309
Period size: 126 Copynumber: 2.0 Consensus size: 126
16067725 TTGAATGCTC
* * * *
16067735 TTTTAGTTAGAAGTGCCTTCAATTATCCATTAAAAATTTTATTTTGGGATTATTCAAGGCCTTTT
1 TTTTAGTTAGAAATGCCTTCAATAACCCATTAAAAATTTTATTTTGAGATTATTCAAGGCCTTTT
* * *
16067800 TGGCGAAAATCGCCTTGAGTAATCACATCATAAAAATTTATAAGGGGATTATTGAGAGCAT
66 TAGCAAAAATCACCTTGAGTAATCACATCATAAAAATTTATAAGGGGATTATTGAGAGCAT
* * *
16067861 TTTTTGTTAGAAATGCTTTCAATAACCCCATT-AAAATTTT-TTTTAGAGATTATTCAAGGCTTT
1 TTTTAGTTAGAAATGCCTTCAATAA-CCCATTAAAAATTTTATTTT-GAGATTATTCAAGGCCTT
* * * * *
16067924 TTTAGCTAAAAAT-ATCTTGAGTAATCACGTCATAAAATTTTATGAGGTGATTATTGA
64 TTTAGC-AAAAATCACCTTGAGTAATCACATCATAAAAATTTATAAGGGGATTATTGA
16067981 AGTCTTTTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
125 4 0.04
126 88 0.86
127 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (126 bp):
TTTTAGTTAGAAATGCCTTCAATAACCCATTAAAAATTTTATTTTGAGATTATTCAAGGCCTTTT
TAGCAAAAATCACCTTGAGTAATCACATCATAAAAATTTATAAGGGGATTATTGAGAGCAT
Found at i:16068001 original size:126 final size:127
Alignment explanation
Indices: 16067761--16068011 Score: 296
Period size: 126 Copynumber: 2.0 Consensus size: 127
16067751 CTTCAATTAT
* * * *
16067761 CCATTAAAAATTTTATTTTGGGATTATTCAAGGCCTTTTTGGCGAAAATCGCCTTGAGTAATCAC
1 CCATTAAAAATTTTATTTTGAGATTATTCAAGGCCTTTTTAGCAAAAATCACCTTGAGTAATCAC
** * *
16067826 ATCATAAAAATTTATAAGGGGATTATTGAGAGCATTTTTTGTTAGAAATGCTTTCAATAACC
66 ATCATAAAAATTTATAAGGGGATTATTGAGAGCATTTTTTGCCAAAAATGCATTCAATAACC
* *
16067888 CCATT-AAAATTTT-TTTTAGAGATTATTCAAGGCTTTTTTAGCTAAAAAT-ATCTTGAGTAATC
1 CCATTAAAAATTTTATTTT-GAGATTATTCAAGGCCTTTTTAGC-AAAAATCACCTTGAGTAATC
* * * * *
16067950 ACGTCATAAAATTTTATGAGGTGATTATTGA-AGTC-TTTTTTGGCCAAAAATGCATTGAATAA
64 ACATCATAAAAATTTATAAGGGGATTATTGAGAG-CATTTTTT-GCCAAAAATGCATTCAATAA
16068012 TCCATTATAA
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
125 12 0.11
126 83 0.79
127 10 0.10
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (127 bp):
CCATTAAAAATTTTATTTTGAGATTATTCAAGGCCTTTTTAGCAAAAATCACCTTGAGTAATCAC
ATCATAAAAATTTATAAGGGGATTATTGAGAGCATTTTTTGCCAAAAATGCATTCAATAACC
Found at i:16071735 original size:27 final size:27
Alignment explanation
Indices: 16071695--16071752 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
16071685 TGTCTACATG
*
16071695 AATGACTTACGTATAC-CCATATTTGAT
1 AATGACTTACGTAT-CTCCATACTTGAT
*
16071722 AATGACTTATGTATCTCCATACTTGAT
1 AATGACTTACGTATCTCCATACTTGAT
16071749 AATG
1 AATG
16071753 TAAAACATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (27 bp):
AATGACTTACGTATCTCCATACTTGAT
Found at i:16076346 original size:2 final size:2
Alignment explanation
Indices: 16076339--16076368 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16076329 AGAAGAAAGA
*
16076339 AT AT AT AT AC 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
16076369 GTATGTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16076777 original size:3 final size:3
Alignment explanation
Indices: 16076769--16076820 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
16076759 GTACTCGTTG
16076769 TTA TTA TTA 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 TTA TTA TTA
16076817 TTA T
1 TTA T
16076821 ACAAAATTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16078676 original size:2 final size:2
Alignment explanation
Indices: 16078669--16078694 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16078659 TGATGAACAC
16078669 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
16078695 TTCAGGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16082830 original size:15 final size:15
Alignment explanation
Indices: 16082810--16082845 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
16082800 TTATTGTGAT
16082810 TGATATACCCGAATC
1 TGATATACCCGAATC
16082825 TGATATACCCGAATC
1 TGATATACCCGAATC
16082840 TGATAT
1 TGATAT
16082846 GATGCCTGAT
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:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (15 bp):
TGATATACCCGAATC
Found at i:16083813 original size:34 final size:35
Alignment explanation
Indices: 16083769--16083839 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
16083759 ATATATAAAC
*
16083769 CAAATATTTTCTG-GCACAAACCTACAACTGGCTT
1 CAAATATTTTCTGTGCACAAACCTACAACTGACTT
* * *
16083803 CAAATGTTTTCTGTTCATAAACCTACAACTGACTT
1 CAAATATTTTCTGTGCACAAACCTACAACTGACTT
16083838 CA
1 CA
16083840 CATACATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 12 0.38
35 20 0.62
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.32
Consensus pattern (35 bp):
CAAATATTTTCTGTGCACAAACCTACAACTGACTT
Found at i:16084147 original size:127 final size:127
Alignment explanation
Indices: 16083874--16084131 Score: 303
Period size: 127 Copynumber: 2.0 Consensus size: 127
16083864 TTGAAGGTAT
* * * * *
16083874 TTTTTTATCAAAATC-GCCTTCAATAATCCCACCTAAAAATTTATTGTGTGGATTATTAAAGGTA
1 TTTTTTATCAAAA-CAGCCTTCAATAATCACTCATGAAATTTTATTGTGTGGATTATTAAAGGTA
* *
16083938 TTTTAGGCCAAAAATGCATTCAAGAATCCGTTCCAACTTTTTTTGTATGGATTATTAAAGCCA
65 TTTTAGACCAAAAATGCATTCAAGAATCCGTTCCAACTTTTTCTGTATGGATTATTAAAGCCA
* * *
16084001 TTTTTTATCAAAACAGCCTTTAATAATCACTCATGAAATTTTATTGAT-TGGATTATTGAAGGTG
1 TTTTTTATCAAAACAGCCTTCAATAATCACTCATGAAATTTTATTG-TGTGGATTATTAAAGGTA
* * * *
16084065 TTTTCGACCAAAAACT-CTTTCAAGAATCTGTTCCATA-TTTTTCCT-T-TGGATTATTAAAGGC
65 TTTTAGACCAAAAA-TGCATTCAAGAATCCGTTCCA-ACTTTTT-CTGTATGGATTATTAAAGCC
16084126 A
127 A
16084127 TTTTT
1 TTTTT
16084132 CTGTTGAAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
126 21 0.19
127 87 0.78
128 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (127 bp):
TTTTTTATCAAAACAGCCTTCAATAATCACTCATGAAATTTTATTGTGTGGATTATTAAAGGTAT
TTTAGACCAAAAATGCATTCAAGAATCCGTTCCAACTTTTTCTGTATGGATTATTAAAGCCA
Found at i:16084832 original size:12 final size:11
Alignment explanation
Indices: 16084804--16084850 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
16084794 GGAAGATATC
16084804 AAAAATAAAAA-
1 AAAAA-AAAAAG
* *
16084815 AGAAAAAAATG
1 AAAAAAAAAAG
16084826 AAAAAAAAAAG
1 AAAAAAAAAAG
16084837 ATAAAAAAAAAG
1 A-AAAAAAAAAG
16084849 AA
1 AA
16084851 TGAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 4 0.13
11 15 0.50
12 11 0.37
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:16084833 original size:13 final size:13
Alignment explanation
Indices: 16084812--16084859 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
16084802 TCAAAAATAA
16084812 AAAAGAAAAAAATG
1 AAAA-AAAAAAATG
16084826 AAAAAAAAAAGAT-
1 AAAAAAAAAA-ATG
16084839 AAAAAAAAAGAATG
1 AAAAAAAAA-AATG
16084853 AAAAAAA
1 AAAAAAA
16084860 TGTAAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 17 0.55
14 14 0.45
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAATG
Found at i:16084835 original size:20 final size:22
Alignment explanation
Indices: 16084805--16084844 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16084795 GAAGATATCA
16084805 AAAATAAAAAAGA-AAAAAATG
1 AAAATAAAAAAGATAAAAAATG
16084826 AAAA-AAAAAAGATAAAAAA
1 AAAATAAAAAAGATAAAAAA
16084845 AAAGAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (22 bp):
AAAATAAAAAAGATAAAAAATG
Found at i:16084835 original size:22 final size:22
Alignment explanation
Indices: 16084804--16084845 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16084794 GGAAGATATC
*
16084804 AAAAATAAAAAAGAAAAAAATG
1 AAAAAAAAAAAAGAAAAAAATG
* *
16084826 AAAAAAAAAAGATAAAAAAA
1 AAAAAAAAAAAAGAAAAAAA
16084846 AAGAATGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAAAGAAAAAAATG
Found at i:16085943 original size:21 final size:21
Alignment explanation
Indices: 16085917--16085961 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
16085907 GTGAATCCTC
*
16085917 AATATTTGAGTTTCAAATGAG
1 AATATTTGAGTTTCAAATAAG
*
16085938 AATATTTGAGTTTTAAATAAG
1 AATATTTGAGTTTCAAATAAG
16085959 AAT
1 AAT
16085962 CTTTAAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (21 bp):
AATATTTGAGTTTCAAATAAG
Found at i:16086592 original size:43 final size:43
Alignment explanation
Indices: 16086538--16086960 Score: 413
Period size: 43 Copynumber: 9.7 Consensus size: 43
16086528 ATCAAGGAGC
*
16086538 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCATTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
* * *
16086581 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAAGAGCCTTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
* * * * *
16086624 TTTATTTTTTAAAAGTTATTGAGCTTCTGTTTAAAGAAGCATTA
1 TTTA-TTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
* * * * * *
16086668 TTTATTTTTCAAAGTTATTGAACCTTTGATTATAGGAGCTTTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
** * *
16086711 TTTATTTTCTCAAAGTTGTTGAGCATCTGTTTAGAGGAGCTTTA
1 TTTATTTT-TCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
* * * *
16086755 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAAAGCAGTC-GTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAG-CATTA
* * * * *
16086798 TTTATTTTTCAAAATCATTGAGCCTCTATTTAGAGGATCTTTG
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
* * * * * * *
16086841 TTTATTTTTCCAAAGTTATTGAACCTTTGATTAGATGAACCTTA
1 TTTATTTTT-CAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
* *
16086885 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGATGAGCCA-TA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAG-CATTA
16086928 TTTATTTTTTCAAAAGT--TGTGAGCCTCTGTTTA
1 TTTA-TTTTTC-AAAGTCAT-TGAGCCTCTGTTTA
16086961 AGGGAGTTTT
Statistics
Matches: 314, Mismatches: 57, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.00
43 182 0.58
44 126 0.40
45 5 0.02
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (43 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTA
Found at i:16086688 original size:87 final size:87
Alignment explanation
Indices: 16086538--16086956 Score: 445
Period size: 87 Copynumber: 4.8 Consensus size: 87
16086528 ATCAAGGAGC
* *
16086538 TTTA-TTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTCATTGA
1 TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTTATTGA
16086602 GCCTCTGATTAGAAGAGCCTTA
66 GCCTCTGATTAGAAGAGCCTTA
* * * * *
16086624 TTTATTTTTTAAAAGTTATTGAGCTTCTGTTTAAAGAAGCATTATTTATTTTTCAAAGTTATTGA
1 TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTTATTGA
* * * * *
16086689 ACCTTTGATTATAGGAGCTTTA
66 GCCTCTGATTAGAAGAGCCTTA
* ** * * **
16086711 TTTATTTTCTCAAAGTTGTTGAGCATCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
1 TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTTATTGA
* * *
16086776 GCCTCTGTTTA-AAGCAGTCGTA
66 GCCTCTGATTAGAAG-AGCCTTA
* * * * *
16086798 TTTA-TTTTTCAAAATCATTGAGCCTCTATTTAGAGGATCTTTGTTTATTTTTCCAAAGTTATTG
1 TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTT-CAAAGTTATTG
* * * *
16086862 AACCTTTGATTAGATGAACCTTA
65 AGCCTCTGATTAGAAGAGCCTTA
* * *
16086885 TTTA-TTTTTCAAAGTCATTGAGCCTCTATTTAGATGAGCCA-TATTTATTTTTTCAAAAGTT-G
1 TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAG-CATTATTTA-TTTTTC-AAAGTTAT
16086947 TGAGCCTCTG
63 TGAGCCTCTG
16086957 TTTAAGGGAG
Statistics
Matches: 273, Mismatches: 53, Indels: 13
0.81 0.16 0.04
Matches are distributed among these distances:
86 46 0.17
87 213 0.78
88 14 0.05
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (87 bp):
TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTTATTGA
GCCTCTGATTAGAAGAGCCTTA
Found at i:16086763 original size:130 final size:128
Alignment explanation
Indices: 16086538--16086941 Score: 461
Period size: 130 Copynumber: 3.1 Consensus size: 128
16086528 ATCAAGGAGC
* * * *
16086538 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCATTATTTATTTTTCAAAGTCATTGAG
1 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTTATTGAG
* * *
16086603 CCTCTGATTAGAAGAGCCTTATTTATTTTTTAAAAGTTATTGAGCTTCTGTTTAAAGAAG-CATT
66 CCTCTGATTAGAAGAGCCTTATTTA-TTTTTCAAAGTCATTGAGCCTCTGTTTAAAG-AGCCA-T
16086667 A
128 A
* * * * *
16086668 TTTATTTTTCAAAGTTATTGAACCTTTGATTATAGGAGCTTTATTTATTTTCTCAAAGTTGTTGA
1 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTT-TCAAAGTTATTGA
* * * * * * *
16086733 GCATCTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAAAGCAGTCGTA
65 GCCTCTGATTAGAAGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAAAG-AGCCATA
* * *
16086798 TTTATTTTTCAAAATCATTGAGCCTCT-ATTTAGAGGATCTTTGTTTATTTTTCCAAAGTTATTG
1 TTTATTTTTCAAAGTCATTGAGCCTCTGA-TTAGAGGAGCTTTATTTATTTTT-CAAAGTTATTG
* * * * * *
16086862 AACCTTTGATTAGATGAACCTTATTTATTTTTCAAAGTCATTGAGCCTCTATTTAGATGAGCCAT
64 AGCCTCTGATTAGAAGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTA-AAGAGCCAT
16086927 A
128 A
16086928 TTTATTTTTTCAAA
1 TTTA-TTTTTCAAA
16086942 AGTTGTGAGC
Statistics
Matches: 229, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
129 2 0.01
130 182 0.79
131 45 0.20
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (128 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTTATTGAG
CCTCTGATTAGAAGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAAAGAGCCATA
Found at i:16088188 original size:4 final size:4
Alignment explanation
Indices: 16088181--16088230 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
16088171 TTTTTGGTAT
*
16088181 TTTA TTTA TTTA TTTA TTTA GTTATA TTTA -TAA TTT- TTTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA -TT-TA TTTA TTTA TTTA TTTA TTTA TTTA
16088228 TTT
1 TTT
16088231 TGTATGATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 8 0.21
4 25 0.64
5 4 0.10
6 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:16088192 original size:8 final size:8
Alignment explanation
Indices: 16088181--16088230 Score: 52
Period size: 7 Copynumber: 6.4 Consensus size: 8
16088171 TTTTTGGTAT
16088181 TTTATTTA
1 TTTATTTA
16088189 TTTATTTA
1 TTTATTTA
16088197 TTTAGTTATA
1 TTTA-TT-TA
*
16088207 TTTA-TAA
1 TTTATTTA
16088214 TTT-TTTA
1 TTTATTTA
16088221 TTTA-TTA
1 TTTATTTA
16088228 TTT
1 TTT
16088231 TGTATGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 15 0.42
8 13 0.36
9 2 0.06
10 6 0.17
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTATTTA
Found at i:16094389 original size:13 final size:13
Alignment explanation
Indices: 16094371--16094398 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16094361 GATATGATGT
16094371 TCTTGGCATGTGG
1 TCTTGGCATGTGG
16094384 TCTTGGCATGTGG
1 TCTTGGCATGTGG
16094397 TC
1 TC
16094399 AAAGGACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.18, G:0.36, T:0.39
Consensus pattern (13 bp):
TCTTGGCATGTGG
Found at i:16096539 original size:23 final size:21
Alignment explanation
Indices: 16096512--16096556 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
16096502 GCTAACATCT
16096512 ATTTCAATGTTTGCTTTCTCTTA
1 ATTTCAATGTTTG-TTTCT-TTA
* *
16096535 ATTTCTATTTTTGTTTCTTTA
1 ATTTCAATGTTTGTTTCTTTA
16096556 A
1 A
16096557 AAAGTTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 11 0.55
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (21 bp):
ATTTCAATGTTTGTTTCTTTA
Found at i:16103011 original size:2 final size:2
Alignment explanation
Indices: 16103004--16103028 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16102994 GATCAGTCTT
16103004 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 T
16103029 GAAGGATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16108433 original size:15 final size:16
Alignment explanation
Indices: 16108413--16108446 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16108403 CATAATTAAA
16108413 AATAAT-TATAAAAAT
1 AATAATATATAAAAAT
*
16108428 AATAATATATAAAATT
1 AATAATATATAAAAAT
16108444 AAT
1 AAT
16108447 GAAAAATAAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATATATAAAAAT
Found at i:16108554 original size:29 final size:27
Alignment explanation
Indices: 16108501--16108555 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
16108491 TCAAAATAAA
* * *
16108501 TAATAAAAAAATGTATATATGTAAAAT
1 TAATAAAAAAATCTACATATATAAAAT
16108528 TAATAAAAAAATCTACATTCATATAAAA
1 TAATAAAAAAATCTACA-T-ATATAAAA
16108556 AATATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.65
28 1 0.04
29 7 0.30
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (27 bp):
TAATAAAAAAATCTACATATATAAAAT
Found at i:16108635 original size:30 final size:33
Alignment explanation
Indices: 16108574--16108653 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 33
16108564 AATGATTTTA
*
16108574 ATTTCCTTTTTAATAATTTTCATATAAATATAAAT
1 ATTTCCTTTTTATTAATTTT-ATAT-AATATAAAT
*
16108609 ATTTCCTTTTTATTAA-TTT-TAT-ATATAGAT
1 ATTTCCTTTTTATTAATTTTATATAATATAAAT
*
16108639 ATTTCGTTTTTATTA
1 ATTTCCTTTTTATTA
16108654 CATAAAGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 21 0.50
32 3 0.07
34 3 0.07
35 15 0.36
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (33 bp):
ATTTCCTTTTTATTAATTTTATATAATATAAAT
Found at i:16110507 original size:121 final size:121
Alignment explanation
Indices: 16110293--16110535 Score: 441
Period size: 121 Copynumber: 2.0 Consensus size: 121
16110283 CCCCATGGAG
*
16110293 TCTAGCGATGTAATGTGAGTCTCTACTTCTTCCAACTTCTCCCCCATGTCGCCTATGGTCACCTC
1 TCTAGCGATGTAATGTGAGTCTCTACTTCCTCCAACTTCTCCCCCATGTCGCCTATGGTCACCTC
*
16110358 CACCTTGGTCAGCCTACCGTCCATGGTAGACCAGATATCTCTAGAACCAGCTTTCT
66 CACCTTGGCCAGCCTACCGTCCATGGTAGACCAGATATCTCTAGAACCAGCTTTCT
* *
16110414 TCTAGCGATGTAATGTGAGTCTTTACTTCCTCCAGCTTCTCCCCCATGTCGCCTATGGTCACCTC
1 TCTAGCGATGTAATGTGAGTCTCTACTTCCTCCAACTTCTCCCCCATGTCGCCTATGGTCACCTC
*
16110479 TACCTTGGCCAGCCTACCGTCCATGGTAGACCAGATATCTCTAGAACCAGCTTTCT
66 CACCTTGGCCAGCCTACCGTCCATGGTAGACCAGATATCTCTAGAACCAGCTTTCT
16110535 T
1 T
16110536 GCCTCTTCCT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (121 bp):
TCTAGCGATGTAATGTGAGTCTCTACTTCCTCCAACTTCTCCCCCATGTCGCCTATGGTCACCTC
CACCTTGGCCAGCCTACCGTCCATGGTAGACCAGATATCTCTAGAACCAGCTTTCT
Found at i:16114456 original size:29 final size:29
Alignment explanation
Indices: 16114414--16114473 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
16114404 GTAATGTAAC
* * *
16114414 AAATAATTTAAAA-TAATAATAATATATTT
1 AAATAAATTAAAATTAACAA-AAAATATTT
*
16114443 AAATAAATTGAAATTAACAAAAAATATTT
1 AAATAAATTAAAATTAACAAAAAATATTT
16114472 AA
1 AA
16114474 TTATATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (29 bp):
AAATAAATTAAAATTAACAAAAAATATTT
Found at i:16114513 original size:17 final size:17
Alignment explanation
Indices: 16114483--16114517 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16114473 ATTATATATT
16114483 TTTTGTATTATTAATTA
1 TTTTGTATTATTAATTA
16114500 TTTT-TATTATTTAATTA
1 TTTTGTATTA-TTAATTA
16114517 T
1 T
16114518 AAAATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTGTATTATTAATTA
Found at i:16114554 original size:25 final size:26
Alignment explanation
Indices: 16114495--16114554 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
16114485 TTGTATTATT
* *
16114495 AATTATTTTTATTATTTAATTATAAA
1 AATTATTTATATTATTAAATTATAAA
*
16114521 ATTTATTTATA-TATTAAATTA-ACAA
1 AATTATTTATATTATTAAATTATA-AA
16114546 AATTATTTA
1 AATTATTTA
16114555 AAATTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 19 0.66
26 9 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTATTTATATTATTAAATTATAAA
Found at i:16115411 original size:13 final size:13
Alignment explanation
Indices: 16115393--16115434 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
16115383 ACCAAGTTTG
16115393 TTTTTATTTTATT
1 TTTTTATTTTATT
*
16115406 TTTTTATTTTTAAT
1 TTTTTA-TTTTATT
*
16115420 TTTTTACTTTATT
1 TTTTTATTTTATT
16115433 TT
1 TT
16115435 ACAGTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:16125021 original size:27 final size:27
Alignment explanation
Indices: 16124979--16125033 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
16124969 GGTTGAGAAT
* *
16124979 ACTACTTCTGCGACCCTACTACCAAGC
1 ACTACATCTGCAACCCTACTACCAAGC
*
16125006 ACTACATCTGCAACCCTACTACGAAGC
1 ACTACATCTGCAACCCTACTACCAAGC
16125033 A
1 A
16125034 GTATCTTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.38, G:0.11, T:0.20
Consensus pattern (27 bp):
ACTACATCTGCAACCCTACTACCAAGC
Found at i:16125898 original size:2 final size:2
Alignment explanation
Indices: 16125893--16125919 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16125883 TCTGTGGAAC
16125893 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16125920 CATACATACG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16126910 original size:20 final size:22
Alignment explanation
Indices: 16126873--16126918 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
16126863 ATTGATAGTT
16126873 CTTTTCTCTCTCTTTCTTTTTA
1 CTTTTCTCTCTCTTTCTTTTTA
*
16126895 CTTTTC-CTCT-TTTCTTTTTT
1 CTTTTCTCTCTCTTTCTTTTTA
16126915 CTTT
1 CTTT
16126919 AAACACGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 4 0.17
22 6 0.26
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (22 bp):
CTTTTCTCTCTCTTTCTTTTTA
Found at i:16127392 original size:4 final size:4
Alignment explanation
Indices: 16127379--16127409 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
16127369 AAAAATTATG
16127379 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
16127410 TTCAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:16134238 original size:19 final size:19
Alignment explanation
Indices: 16134214--16134251 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16134204 ATGGATTGGT
*
16134214 TTAGAGATGTAAATCATGA
1 TTAGAGATATAAATCATGA
16134233 TTAGAGATATAAATCATGA
1 TTAGAGATATAAATCATGA
16134252 CTTAAGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (19 bp):
TTAGAGATATAAATCATGA
Found at i:16135636 original size:16 final size:16
Alignment explanation
Indices: 16135615--16135645 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16135605 TGCATCTAAT
*
16135615 AATGAAATGAATTATA
1 AATGAAATAAATTATA
16135631 AATGAAATAAATTAT
1 AATGAAATAAATTAT
16135646 TATATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (16 bp):
AATGAAATAAATTATA
Found at i:16138803 original size:27 final size:27
Alignment explanation
Indices: 16138751--16138805 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
16138741 TGTCGCTTGT
* *
16138751 ACTACATCTGCGACCCTACTAGCAAGC
1 ACTACATCTGCAACCCTACTACCAAGC
*
16138778 ACTACATCTGCAACCCTACTTCCAAGC
1 ACTACATCTGCAACCCTACTACCAAGC
16138805 A
1 A
16138806 GTATATTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.38, G:0.11, T:0.20
Consensus pattern (27 bp):
ACTACATCTGCAACCCTACTACCAAGC
Found at i:16141217 original size:24 final size:21
Alignment explanation
Indices: 16141166--16141221 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
16141156 TCATTACTGA
*
16141166 TTTTAATCTCACTTTTATTAT
1 TTTTAATCTCACTTTTACTAT
**
16141187 TAGTAATCTCACTTCTACTACTAT
1 TTTTAATCTCACTT-T--TACTAT
16141211 TTTTAATCTCA
1 TTTTAATCTCA
16141222 TTACTCATCC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 12 0.44
22 1 0.04
24 14 0.52
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTAATCTCACTTTTACTAT
Found at i:16142712 original size:27 final size:27
Alignment explanation
Indices: 16142682--16142736 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
16142672 AAATAGTAGG
*
16142682 AGATATTAATAAGATACTAATTGTCAA
1 AGATATTAACAAGATACTAATTGTCAA
*
16142709 AGATATTAACAAGATACTATTTGTCAA
1 AGATATTAACAAGATACTAATTGTCAA
16142736 A
1 A
16142737 TCCATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (27 bp):
AGATATTAACAAGATACTAATTGTCAA
Found at i:16153251 original size:13 final size:14
Alignment explanation
Indices: 16153226--16153253 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16153216 GAAAACTAGG
16153226 ATTTCCAAAAAAAA
1 ATTTCCAAAAAAAA
16153240 ATTTCCAAAAAAAA
1 ATTTCCAAAAAAAA
16153254 CTTGCAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
ATTTCCAAAAAAAA
Found at i:16153987 original size:44 final size:43
Alignment explanation
Indices: 16153766--16154046 Score: 184
Period size: 44 Copynumber: 6.4 Consensus size: 43
16153756 ACATAAAAAT
*
16153766 TCTTCTAAGCAAAGGCT-TACAACTTTTAAAAAATATATAG-GGC
1 TCTTCTAAACAAAGGCTCTACAACTTTTAAAAAATA-A-AGAGGC
* * * *
16153809 TCTTTTAAACAGAGACTCTACAACTTTTGAAAAATAAATGAGGC
1 TCTTCTAAACAAAGGCTCTACAACTTTTAAAAAATAAA-GAGGC
* * *
16153853 TCCTCTAAACAAAGGCTTTACAAC-TTTAAAAAATTAACTA-AGGG
1 TCTTCTAAACAAAGGCTCTACAACTTTTAAAAAA-TAA--AGAGGC
* * * *
16153897 T-TATTTAAACGAA-GTTCTATAACTTTTAAAAATTATATAA-A-GC
1 TCT-TCTAAACAAAGGCTCTACAACTTTTAAAAA--ATA-AAGAGGC
* *
16153940 TCTTCTAAATAAAGGCTCTACAACTTTTAAAAAATAAACGAGAC
1 TCTTCTAAACAAAGGCTCTACAACTTTTAAAAAATAAA-GAGGC
* ** * * *
16153984 TCTTCTAAACAGAA-GCTCAATGACTTTTGAAAAATAAATAAAGC
1 TCTTCTAAACA-AAGGCTCTACAACTTTTAAAAAATAAA-GAGGC
* *
16154028 TCCTCTAAACAGAGGCTCT
1 TCTTCTAAACAAAGGCTCT
16154047 TTTTAACAAT
Statistics
Matches: 183, Mismatches: 37, Indels: 35
0.72 0.15 0.14
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 41 0.22
44 129 0.70
45 4 0.02
46 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (43 bp):
TCTTCTAAACAAAGGCTCTACAACTTTTAAAAAATAAAGAGGC
Found at i:16154035 original size:88 final size:88
Alignment explanation
Indices: 16153769--16154046 Score: 293
Period size: 87 Copynumber: 3.2 Consensus size: 88
16153759 TAAAAATTCT
* *
16153769 TCTAAGCAAAGGCT-TACAACTTTTAAAAAATATATA-G-GGCTCTTTTAAACAG-AGACTCTAC
1 TCTAAACAAAGGCTCTACAACTTTTAAAAAATA-A-ACGAGGCTCTTTTAAACAGAAG-CTCTAT
* *
16153830 AACTTTTGAAAAATAAATGAGGCTCC
63 AACTTTTGAAAAATAAATAAAGCTCC
* * * * *
16153856 TCTAAACAAAGGCTTTACAAC-TTTAAAAAATTAACTAAGGGT-TATTTAAAC-GAAGTTCTATA
1 TCTAAACAAAGGCTCTACAACTTTTAAAAAATAAAC-GAGGCTCT-TTTAAACAGAAGCTCTATA
* *
16153918 ACTTTT-AAAAATTATATAAAGCTCT
64 ACTTTTGAAAAA-TAAATAAAGCTCC
* * * * *
16153943 TCTAAATAAAGGCTCTACAACTTTTAAAAAATAAACGAGACTCTTCTAAACAGAAGCTCAATGAC
1 TCTAAACAAAGGCTCTACAACTTTTAAAAAATAAACGAGGCTCTTTTAAACAGAAGCTCTATAAC
16154008 TTTTGAAAAATAAATAAAGCTCC
66 TTTTGAAAAATAAATAAAGCTCC
*
16154031 TCTAAACAGAGGCTCT
1 TCTAAACAAAGGCTCT
16154047 TTTTAACAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
85 1 0.01
86 6 0.04
87 73 0.47
88 71 0.46
89 5 0.03
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (88 bp):
TCTAAACAAAGGCTCTACAACTTTTAAAAAATAAACGAGGCTCTTTTAAACAGAAGCTCTATAAC
TTTTGAAAAATAAATAAAGCTCC
Found at i:16154037 original size:131 final size:131
Alignment explanation
Indices: 16153786--16154037 Score: 274
Period size: 131 Copynumber: 1.9 Consensus size: 131
16153776 AAAGGCTTAC
** * * * *
16153786 AACTTTTAAAAAATATATAGGGCTCTTTTAAACAGAGACTCTACAACTTTTGAAAAATAAATGAG
1 AACTTTTAAAAAATATATAAAGCTCTTCTAAACAAAGACTCTACAACTTTTAAAAAATAAACGAG
* ** * * * * *
16153851 GCTCCTCTAAACAAAGGCTTTACAACTTTAAAAAATTAACTAAGGGTTATTTAAACGAAGTTCTA
66 ACTCCTCTAAACAAAGGCTCAACAACTTTAAAAAATTAAATAAAGCTCATCTAAACGAAGTTCTA
16153916 T
131 T
* * *
16153917 AACTTTTAAAAATTATATAAAGCTCTTCTAAATAAAGGCTCTACAACTTTTAAAAAATAAACGAG
1 AACTTTTAAAAAATATATAAAGCTCTTCTAAACAAAGACTCTACAACTTTTAAAAAATAAACGAG
* ** * *
16153982 ACTCTTCTAAACAGAA-GCTCAATGACTTTTGAAAAA-TAAATAAAGCTCCTCTAAAC
66 ACTCCTCTAAACA-AAGGCTCAACAAC-TTTAAAAAATTAAATAAAGCTCATCTAAAC
16154038 AGAGGCTCTT
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
131 87 0.90
132 10 0.10
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (131 bp):
AACTTTTAAAAAATATATAAAGCTCTTCTAAACAAAGACTCTACAACTTTTAAAAAATAAACGAG
ACTCCTCTAAACAAAGGCTCAACAACTTTAAAAAATTAAATAAAGCTCATCTAAACGAAGTTCTA
T
Found at i:16154574 original size:43 final size:45
Alignment explanation
Indices: 16154527--16154610 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 45
16154517 TCCGATAAAT
* *
16154527 TTTAGAGTTTCACAT-CTAAA-TTCAAAATTTCTCATTCAAAAAA
1 TTTAGAGGTTCACATCCAAAATTTCAAAATTTCTCATTCAAAAAA
* * * *
16154570 TTTAGGGGTTCATATCCAAAATTTTAAAGTTTCTCATTCAA
1 TTTAGAGGTTCACATCCAAAATTTCAAAATTTCTCATTCAA
16154611 CAACTTTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 12 0.36
44 4 0.12
45 17 0.52
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.39
Consensus pattern (45 bp):
TTTAGAGGTTCACATCCAAAATTTCAAAATTTCTCATTCAAAAAA
Found at i:16154727 original size:14 final size:14
Alignment explanation
Indices: 16154710--16154765 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
16154700 AACTCAAAGA
16154710 CAAAAATTTTCATT
1 CAAAAATTTTCATT
*
16154724 CAAAAATTCTCATT
1 CAAAAATTTTCATT
* *
16154738 -TAAAA-CTTC-TT
1 CAAAAATTTTCATT
16154749 -AAAAATTTTCATT
1 CAAAAATTTTCATT
16154762 CAAA
1 CAAA
16154766 GATTCTCATC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
11 6 0.18
12 5 0.15
13 6 0.18
14 16 0.48
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (14 bp):
CAAAAATTTTCATT
Found at i:16156030 original size:6 final size:7
Alignment explanation
Indices: 16156013--16156102 Score: 72
Period size: 7 Copynumber: 11.7 Consensus size: 7
16156003 ATATTACATT
16156013 TTTTTCA
1 TTTTTCA
16156020 TTTTTCA
1 TTTTTCA
*
16156027 TTTTTTCCT
1 -TTTTT-CA
*
16156036 TTTTTCT
1 TTTTTCA
16156043 TTTTCTCA
1 TTTT-TCA
16156051 TTTTTCA
1 TTTTTCA
16156058 TTCTTTCA
1 TT-TTTCA
*
16156066 TTTTTTA
1 TTTTTCA
*
16156073 TTTTTTTTCT
1 ---TTTTTCA
16156083 TTTTTCA
1 TTTTTCA
16156090 TTTTTCCA
1 TTTTT-CA
16156098 TTTTT
1 TTTTT
16156103 TTTATCCATT
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
7 33 0.48
8 30 0.43
9 1 0.01
10 5 0.07
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:16156031 original size:8 final size:8
Alignment explanation
Indices: 16156012--16156103 Score: 95
Period size: 8 Copynumber: 11.8 Consensus size: 8
16156002 CATATTACAT
16156012 TTTTTTCA
1 TTTTTTCA
16156020 -TTTTTCA
1 TTTTTTCA
*
16156027 TTTTTTCC
1 TTTTTTCA
16156035 TTTTTTC-
1 TTTTTTCA
16156042 TTTTTCTCA
1 TTTTT-TCA
16156051 -TTTTTCA
1 TTTTTTCA
*
16156058 TTCTTTCA
1 TTTTTTCA
16156066 TTTTTT-A
1 TTTTTTCA
16156073 TTTTTTTTC-
1 --TTTTTTCA
16156082 TTTTTTCA
1 TTTTTTCA
*
16156090 TTTTTCCA
1 TTTTTTCA
16156098 TTTTTT
1 TTTTTT
16156104 TTATCCATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
7 23 0.32
8 42 0.59
9 6 0.08
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:16156032 original size:15 final size:15
Alignment explanation
Indices: 16156012--16156102 Score: 94
Period size: 15 Copynumber: 5.9 Consensus size: 15
16156002 CATATTACAT
16156012 TTTTTTCATTTTTCA
1 TTTTTTCATTTTTCA
*
16156027 TTTTTTCCTTTTTTC-
1 TTTTTT-CATTTTTCA
16156042 TTTTTCTCATTTTTCA
1 TTTTT-TCATTTTTCA
* *
16156058 TTCTTTCATTTTTTA
1 TTTTTTCATTTTTCA
*
16156073 TTTTTTTTCTTTTTTCA
1 --TTTTTTCATTTTTCA
*
16156090 TTTTTCCATTTTT
1 TTTTTTCATTTTT
16156103 TTTATCCATT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
15 38 0.61
16 12 0.19
17 12 0.19
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:16156052 original size:31 final size:32
Alignment explanation
Indices: 16156006--16156103 Score: 119
Period size: 31 Copynumber: 3.1 Consensus size: 32
16155996 TTCTCTCATA
16156006 TTACATTTTTTTCATTTTTCATTTTTTCCTTTT
1 TTAC-TTTTTTTCATTTTTCATTTTTTCCTTTT
* * *
16156039 TT-CTTTTTCTCATTTTTCATTCTTTCATTTT
1 TTACTTTTTTTCATTTTTCATTTTTTCCTTTT
* *
16156070 TTATTTTTTTTCTTTTTTCA-TTTTTCCATTTT
1 TTACTTTTTTTCATTTTTCATTTTTTCC-TTTT
16156102 TT
1 TT
16156104 TTATCCATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
31 32 0.58
32 21 0.38
33 2 0.04
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (32 bp):
TTACTTTTTTTCATTTTTCATTTTTTCCTTTT
Found at i:16171905 original size:59 final size:59
Alignment explanation
Indices: 16171783--16171966 Score: 298
Period size: 59 Copynumber: 3.1 Consensus size: 59
16171773 AGGAAAGAAT
* * * *
16171783 AAATTTTTTTTGTAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTAG
1 AAATTTATTTT-TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGG
16171842 AAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGG
1 AAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGG
*
16171901 AAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTCTTTTTGA
1 AAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT-TTTTTGG
16171961 AAATTT
1 AAATTT
16171967 TTATTTTTCT
Statistics
Matches: 118, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
58 36 0.31
59 70 0.59
60 12 0.10
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (59 bp):
AAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGG
Found at i:16172007 original size:15 final size:15
Alignment explanation
Indices: 16171981--16172014 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16171971 TTTTCTGCAA
16171981 AAAATAAAAATAAAAT
1 AAAATAAAAAT-AAAT
16171997 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
16172011 AAAA
1 AAAA
16172015 ATAATACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAAATAAAT
Found at i:16172012 original size:4 final size:5
Alignment explanation
Indices: 16171981--16172014 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
16171971 TTTTCTGCAA
16171981 AAAAT AAAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16172015 ATAATACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:16174102 original size:24 final size:24
Alignment explanation
Indices: 16174050--16174117 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
16174040 GAAAGAAAAA
16174050 AAAATCATAAAATAAAAAAAATGAT
1 AAAAT-ATAAAATAAAAAAAATGAT
*
16174075 -AAATATGAAATAAACAAAAAT-AT
1 AAAATATAAAATAAA-AAAAATGAT
* *
16174098 AAAATA-AAAATGAATAAAAT
1 AAAATATAAAATAAAAAAAAT
16174118 CCCTGCAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.14
23 17 0.46
24 15 0.41
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (24 bp):
AAAATATAAAATAAAAAAAATGAT
Found at i:16174108 original size:23 final size:23
Alignment explanation
Indices: 16174051--16174106 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
16174041 AAAGAAAAAA
16174051 AAATCATAAAATAAAAAAAATGAT
1 AAAT-ATAAAATAAAAAAAATGAT
*
16174075 AAATATGAAATAAACAAAAAT-AT
1 AAATATAAAATAAA-AAAAATGAT
16174098 AAA-ATAAAA
1 AAATATAAAA
16174107 ATGAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATATAAAATAAAAAAAATGAT
Found at i:16174524 original size:1 final size:1
Alignment explanation
Indices: 16174518--16174584 Score: 89
Period size: 1 Copynumber: 67.0 Consensus size: 1
16174508 TAGAGGTAAC
* * * * *
16174518 TTTTTTTTTTGTTTTTTTTTTTTTTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16174583 TT
1 TT
16174585 ACCAAAGCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (1 bp):
T
Found at i:16174534 original size:8 final size:8
Alignment explanation
Indices: 16174521--16174581 Score: 108
Period size: 8 Copynumber: 7.9 Consensus size: 8
16174511 AGGTAACTTT
16174521 TTTTTTTG
1 TTTTTTTG
16174529 TTTTTTT-
1 TTTTTTTG
16174536 TTTTTTT-
1 TTTTTTTG
16174543 TTTTTTTG
1 TTTTTTTG
16174551 TTTTTTTG
1 TTTTTTTG
16174559 TTTTTTTG
1 TTTTTTTG
16174567 TTTTTTTG
1 TTTTTTTG
16174575 TTTTTTT
1 TTTTTTT
16174582 TTTACCAAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 14 0.27
8 38 0.73
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (8 bp):
TTTTTTTG
Found at i:16174536 original size:132 final size:133
Alignment explanation
Indices: 16174293--16174652 Score: 415
Period size: 132 Copynumber: 2.7 Consensus size: 133
16174283 TTGCTTCCTT
* * *
16174293 TTTTTTTTTTTTTAAATTTTGATCAAAGCTCCTCTAAGCAAAGGCTAAATGATTTTGAGAAACAT
1 TTTTTTTTTTTTTAAA---TGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACAT
*
16174358 AAACAAAGCTCCTCTAAATAGAGGCAACTTTTTTTTTGTCCATTTTTTTTGCTTTTTTACT-TTT
63 AAACAAAGCTCCTCTAAATAGAGGTAACTTTTTTTTTGTCCATTTTTTTT-CTTTTTTACTGTTT
16174422 TTTTG-C
127 TTTTGTC
16174428 TTTTTTTTTTTTTAAATGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAA
1 TTTTTTTTTTTTTAAATGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAA
** * **
16174493 CAAAGCTCCTCTAAATAGAGGTAACTTTTTTTTTTGT-TTTTTTTTTTTTTTTTTTTTGTTTTTT
66 CAAAGCTCCTCTAAATAGAGGTAAC-TTTTTTTTTGTCCATTTTTTTTCTTTTTTACTGTTTTTT
*
16174557 TGTTTTTT
130 TG----TC
*** * * * *
16174565 TGTTTTTTTGTTTTTTTTTTACCAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACAT-
1 T-TTTTTTT-TTTTTAAATGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATA
**
16174629 AA-ATTGCTCCTCTAAATAGAGGTA
64 AACAAAGCTCCTCTAAATAGAGGTA
16174653 CCACGACTTT
Statistics
Matches: 197, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
131 7 0.04
132 86 0.44
133 11 0.06
135 16 0.08
137 21 0.11
138 9 0.05
139 47 0.24
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.47
Consensus pattern (133 bp):
TTTTTTTTTTTTTAAATGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAA
CAAAGCTCCTCTAAATAGAGGTAACTTTTTTTTTGTCCATTTTTTTTCTTTTTTACTGTTTTTTT
GTC
Found at i:16174843 original size:42 final size:41
Alignment explanation
Indices: 16174591--16175040 Score: 632
Period size: 40 Copynumber: 11.0 Consensus size: 41
16174581 TTTTACCAAA
* * *
16174591 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
* * *
16174634 GCTCCTCTAAATAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
16174675 GCTCCTCTAAACAGAGGCA--ACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
16174715 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
16174755 GCTCCTCTAAACAGAGGTA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
* *
16174795 GCTCCTCTAAATAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
16174837 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
16174879 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
16174921 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
16174962 GCTCCTCTAAACAGAGGCAACA-AACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
16175002 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTG-AAAAGTAAAT
16175041 ACTCCTAGAC
Statistics
Matches: 382, Mismatches: 18, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.00
39 6 0.02
40 159 0.42
41 61 0.16
42 129 0.34
43 26 0.07
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:16176309 original size:17 final size:15
Alignment explanation
Indices: 16176287--16176341 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 15
16176277 TCTTTTTTTA
16176287 TTTTTTCATTTTCTCAT
1 TTTTTTC-TTTTCT-AT
16176304 TTTTTTCTCTTTCT-T
1 TTTTTTCT-TTTCTAT
16176319 TCTTTTTCTTTTTCTAT
1 T-TTTTTC-TTTTCTAT
16176336 TTTTTT
1 TTTTTT
16176342 TCATCATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.06
16 17 0.50
17 15 0.44
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCTTTTCTAT
Found at i:16176342 original size:17 final size:17
Alignment explanation
Indices: 16176287--16176343 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
16176277 TCTTTTTTTA
*
16176287 TTTTTTCATTTTCTCA-T
1 TTTTTTCTTTTTCT-ATT
*
16176304 TTTTTTCTCTTTCT-TT
1 TTTTTTCTTTTTCTATT
*
16176320 CTTTTTCTTTTTCTATT
1 TTTTTTCTTTTTCTATT
16176337 TTTTTTC
1 TTTTTTC
16176344 ATCATCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTCTTTTTCTATT
Found at i:16176342 original size:33 final size:32
Alignment explanation
Indices: 16176287--16176359 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
16176277 TCTTTTTTTA
* *
16176287 TTTTTTCATTTTCTCATTTTTTTC-TCTTTCTT
1 TTTTTTCTTTTTCTCATTTTTTTCATC-ATCTT
16176319 TCTTTTTCTTTTTCT-ATTTTTTTTCATCATCTT
1 T-TTTTTCTTTTTCTCA-TTTTTTTCATCATCTT
16176352 TTTTTTCT
1 TTTTTTCT
16176360 CATTCTTCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
32 9 0.25
33 25 0.69
34 2 0.06
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTTTCTTTTTCTCATTTTTTTCATCATCTT
Found at i:16180316 original size:59 final size:59
Alignment explanation
Indices: 16180190--16180357 Score: 293
Period size: 59 Copynumber: 2.8 Consensus size: 59
16180180 TTTTTGTAGG
*
16180190 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAAA
16180248 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAAA
* *
16180307 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTCTTTTTGAAAATTT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTT-TTTTTGGAAATTT
16180358 TTATTTTTCT
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
58 34 0.32
59 59 0.56
60 12 0.11
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAAA
Found at i:16182447 original size:17 final size:16
Alignment explanation
Indices: 16182425--16182485 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 16
16182415 CAAAAGAAAG
16182425 AAAAAAAATCATAAAAT
1 AAAAAAAAT-ATAAAAT
16182442 AAAAAAATGATAAATATGAAAT
1 AAAAAAA--AT--ATA--AAAT
16182464 AAACAAAAATATAAAAT
1 AAA-AAAAATATAAAAT
16182481 AAAAA
1 AAAAA
16182486 TGAATAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
16 2 0.05
17 14 0.38
19 5 0.14
20 3 0.08
21 2 0.05
22 7 0.19
23 4 0.11
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAAAAATATAAAAT
Found at i:16189702 original size:29 final size:29
Alignment explanation
Indices: 16189669--16189728 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
16189659 CTTCTTCTTT
*
16189669 TTTTTTTTTCAGATTTGCTCTCATTCTCTC
1 TTTTCTTTTC-GATTTGCTCTCATTCTCTC
** *
16189699 TTTTCTTTTCTTTTTTCTCTCATTCTCTC
1 TTTTCTTTTCGATTTGCTCTCATTCTCTC
16189728 T
1 T
16189729 AGACCAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (29 bp):
TTTTCTTTTCGATTTGCTCTCATTCTCTC
Found at i:16190805 original size:32 final size:33
Alignment explanation
Indices: 16190744--16190829 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 33
16190734 TATCTTTGAT
* *
16190744 TTCGGATC-TTTTGGATTTGGATTCATTTCAGG
1 TTCGGATCATTTTGGATTTAGATTCATTTCAGA
* *
16190776 TTTGGATCATTTTGGATTTAGATT-TTTTCAGA
1 TTCGGATCATTTTGGATTTAGATTCATTTCAGA
* *
16190808 TTCGAATAATTTTGGATTTAGA
1 TTCGGATCATTTTGGATTTAGA
16190830 CAATTTGGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
32 32 0.70
33 14 0.30
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.49
Consensus pattern (33 bp):
TTCGGATCATTTTGGATTTAGATTCATTTCAGA
Found at i:16191655 original size:15 final size:16
Alignment explanation
Indices: 16191626--16191658 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16191616 GATTTAGTTT
16191626 TTCTCTTTTTCTCTTA
1 TTCTCTTTTTCTCTTA
*
16191642 TTCT-TTTTTTTCTTA
1 TTCTCTTTTTCTCTTA
16191657 TT
1 TT
16191659 TAATTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTCTTTTTCTCTTA
Found at i:16192348 original size:28 final size:29
Alignment explanation
Indices: 16192301--16192355 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
16192291 ATTTTTTATT
* *
16192301 ATATTAATTATAATTCATT-ATAAAAATA
1 ATATTAATTATAACTAATTAATAAAAATA
*
16192329 ATATTAATTATTACTAATTAATAAAAA
1 ATATTAATTATAACTAATTAATAAAAA
16192356 ATTAATCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
ATATTAATTATAACTAATTAATAAAAATA
Found at i:16192982 original size:9 final size:8
Alignment explanation
Indices: 16192966--16193015 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
16192956 TTTACATTGC
16192966 ATAAAAAA
1 ATAAAAAA
*
16192974 GTAAAAAA
1 ATAAAAAA
16192982 AT-AAAAA
1 ATAAAAAA
16192989 ATAAATAAGA
1 ATAAA-AA-A
16192999 ATATAAAAA
1 ATA-AAAAA
16193008 ATAAAAAA
1 ATAAAAAA
16193016 GAGATTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 7 0.19
8 15 0.42
9 6 0.17
10 6 0.17
11 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (8 bp):
ATAAAAAA
Found at i:16194329 original size:25 final size:25
Alignment explanation
Indices: 16194261--16194333 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 25
16194251 ATTAATTAAT
*
16194261 AAAA-GTTAATAATTAA-AAAATAA
1 AAAATGTTATTAATTAATAAAATAA
* **
16194284 AAAATGTATTTTACAAAAATAAAATAA
1 AAAATGT-TATTA-ATTAATAAAATAA
*
16194311 AAAGTGTTATTAATTAATAAAAT
1 AAAATGTTATTAATTAATAAAAT
16194334 TAATAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.11
24 2 0.05
25 12 0.32
26 7 0.18
27 13 0.34
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (25 bp):
AAAATGTTATTAATTAATAAAATAA
Found at i:16196435 original size:14 final size:13
Alignment explanation
Indices: 16196415--16196458 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
16196405 GTTTTTGTAC
16196415 TTATTTGTTTTTA
1 TTATTTGTTTTTA
16196428 TATATTTGTTTATTCA
1 T-TATTTGTTT-TT-A
*
16196444 TTATTTATTTTTA
1 TTATTTGTTTTTA
16196457 TT
1 TT
16196459 TAGGTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 11 0.41
15 10 0.37
16 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (13 bp):
TTATTTGTTTTTA
Found at i:16197229 original size:44 final size:44
Alignment explanation
Indices: 16197181--16197267 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
16197171 TAACCTTTTT
*
16197181 GTTTATTTTGTA-ACTTATGATTTTTTATGTGTACTAATTTATTA
1 GTTTATTTTGTAGA-TTATGATTTTTCATGTGTACTAATTTATTA
* *
16197225 GTTTATTTTGTAGATTTTGATTTTTCATGTGTCCTAATTTATT
1 GTTTATTTTGTAGATTATGATTTTTCATGTGTACTAATTTATT
16197268 TGATTGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.13, T:0.60
Consensus pattern (44 bp):
GTTTATTTTGTAGATTATGATTTTTCATGTGTACTAATTTATTA
Found at i:16201143 original size:7 final size:7
Alignment explanation
Indices: 16201131--16201188 Score: 64
Period size: 7 Copynumber: 8.1 Consensus size: 7
16201121 AATGACAAAG
16201131 AAGAAAA
1 AAGAAAA
16201138 AAG-AAA
1 AAGAAAA
16201144 AAGAAAGA
1 AAGAAA-A
16201152 AAGGAAAA
1 AA-GAAAA
*
16201160 AGGAAAA
1 AAGAAAA
*
16201167 AGGAAAA
1 AAGAAAA
*
16201174 AAAAAAA
1 AAGAAAA
16201181 AAGAAAA
1 AAGAAAA
16201188 A
1 A
16201189 CTTAAATTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
6 6 0.14
7 29 0.66
8 5 0.11
9 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:16201144 original size:30 final size:29
Alignment explanation
Indices: 16201110--16201188 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
16201100 GAGAGATGTG
*
16201110 GAAAAAAAAAG-AATGACAAAGAAGAAAAAA
1 GAAAAAAAAAGAAAGGA-AAA-AAGAAAAAA
* * *
16201140 GAAAAAGAAAGAAAGGAAAAAGGAAAAAG
1 GAAAAAAAAAGAAAGGAAAAAAGAAAAAA
*
16201169 GAAAAAAAAA-AAAAGAAAAA
1 GAAAAAAAAAGAAAGGAAAAA
16201189 CTTAAATTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 9 0.21
29 16 0.38
30 13 0.31
31 4 0.10
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (29 bp):
GAAAAAAAAAGAAAGGAAAAAAGAAAAAA
Found at i:16201158 original size:22 final size:21
Alignment explanation
Indices: 16201131--16201188 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
16201121 AATGACAAAG
16201131 AAGAAAAAAGAAAAA-GAAAGA
1 AAGAAAAAAGAAAAAGGAAA-A
*
16201152 AAGGAAAAAGGAAAAAGGAAAA
1 AA-GAAAAAAGAAAAAGGAAAA
*
16201174 AAAAAAAAAGAAAAA
1 AAGAAAAAAGAAAAA
16201189 CTTAAATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 13 0.41
22 15 0.47
23 4 0.12
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAGAAAAAGGAAAA
Found at i:16201188 original size:14 final size:14
Alignment explanation
Indices: 16201110--16201188 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
16201100 GAGAGATGTG
* *
16201110 GAAAAAAAAAGAAT
1 GAAAAAAAAAAAAA
*
16201124 GACAAAGAAGAAAAAA
1 GA-AAA-AAAAAAAAA
* *
16201140 GAAAAAGAAAGAAAG
1 GAAAAA-AAAAAAAA
** *
16201155 GAAAAAGGAAAAAG
1 GAAAAAAAAAAAAA
16201169 GAAAAAAAAAAAAA
1 GAAAAAAAAAAAAA
16201183 GAAAAA
1 GAAAAA
16201189 CTTAAATTGA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
14 25 0.50
15 17 0.34
16 8 0.16
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (14 bp):
GAAAAAAAAAAAAA
Found at i:16202506 original size:40 final size:40
Alignment explanation
Indices: 16202307--16202524 Score: 167
Period size: 40 Copynumber: 5.5 Consensus size: 40
16202297 TTAGTTTTAT
* *
16202307 TTTTCAAAAGTTTTAAAACCTCGATGAGGGAGCACTTTAAA
1 TTTTC-AAAGTTTTAAAACCTCGATGGGGGAGCATTTTAAA
* * * * * **
16202348 -TTTCAAAAATTTTGAAGCC-CTGGTGGGGGAGC-TCTTCTA
1 TTTTC-AAAGTTTTAAAACCTC-GATGGGGGAGCATTTTAAA
* * * * *
16202387 TTTTCCAAAGTTTT-GAAGCTCGACGGTGGAACATTTTAAA
1 TTTT-CAAAGTTTTAAAACCTCGATGGGGGAGCATTTTAAA
* ** * *
16202427 TTTCCAAAGTTCCAAAGCCTCGAT-GGGGAGTATTTTAAA
1 TTTTCAAAGTTTTAAAACCTCGATGGGGGAGCATTTTAAA
* *
16202466 TTTTTAAAGTTTTAAAACCTCGGTGGGGGAGCATTTTAAA
1 TTTTCAAAGTTTTAAAACCTCGATGGGGGAGCATTTTAAA
*
16202506 TTTTCAAAGTTTCAAAACC
1 TTTTCAAAGTTTTAAAACC
16202525 CCTGATGAGA
Statistics
Matches: 131, Mismatches: 39, Indels: 15
0.71 0.21 0.08
Matches are distributed among these distances:
39 50 0.38
40 80 0.61
41 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (40 bp):
TTTTCAAAGTTTTAAAACCTCGATGGGGGAGCATTTTAAA
Found at i:16209019 original size:2 final size:2
Alignment explanation
Indices: 16209012--16209037 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16209002 GCTCAAGTCT
16209012 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
16209038 AAGTTCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16209745 original size:13 final size:12
Alignment explanation
Indices: 16209727--16209757 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
16209717 ATTTATATAC
16209727 ATATATATACAT
1 ATATATATACAT
16209739 AATATATATACAT
1 -ATATATATACAT
16209752 ATATAT
1 ATATAT
16209758 TATGTATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATATACAT
Found at i:16209747 original size:4 final size:4
Alignment explanation
Indices: 16209720--16209787 Score: 59
Period size: 4 Copynumber: 17.5 Consensus size: 4
16209710 TTATCTCATT
* * * *
16209720 TATA TACA TATA TATA CATA -ATA TATA TACA TATA TAT- TATG TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * *
16209766 TGTA TTTA TATA TATG TATA TA
1 TATA TATA TATA TATA TATA TA
16209788 ATACGTAATG
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
3 6 0.12
4 45 0.88
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (4 bp):
TATA
Found at i:16209766 original size:23 final size:23
Alignment explanation
Indices: 16209720--16209791 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
16209710 TTATCTCATT
* *
16209720 TATATACATATATATACAT-AATA
1 TATATACATATATAT-TATGTATA
16209743 TATATACATATATATTATGTATA
1 TATATACATATATATTATGTATA
* *
16209766 TGTAT--TTATATA-TATGTATA
1 TATATACATATATATTATGTATA
16209786 TA-ATAC
1 TATATAC
16209792 GTAATGTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
21 6 0.15
22 2 0.05
23 22 0.54
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (23 bp):
TATATACATATATATTATGTATA
Found at i:16211958 original size:32 final size:32
Alignment explanation
Indices: 16211916--16211984 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
16211906 TCTATTCCAA
* *
16211916 GAAATGTAGTAAATACGACAATTAATGCGTAT
1 GAAATATAGTAAATACGACAATTAATGCATAT
16211948 GAAATATAGTAAATACGACAATTAATGCATAT
1 GAAATATAGTAAATACGACAATTAATGCATAT
16211980 GAAAT
1 GAAAT
16211985 CACATAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.28
Consensus pattern (32 bp):
GAAATATAGTAAATACGACAATTAATGCATAT
Found at i:16213211 original size:29 final size:29
Alignment explanation
Indices: 16213131--16213213 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
16213121 ATAGCTTTTA
*
16213131 TGCTCATGTCATTCCATATTTAAA-TTGCT
1 TGCTAATGTCATTCCATATTTAAATTTG-T
* * *
16213160 TGATATAT-TCAAT--ATATGT--ATTTGT
1 TGCTA-ATGTCATTCCATATTTAAATTTGT
16213185 TGCTAATGTCATTCCATATTTAAATTTGT
1 TGCTAATGTCATTCCATATTTAAATTTGT
16213214 ACAAATTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 2 0.05
25 10 0.25
26 3 0.08
27 10 0.25
29 13 0.32
30 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (29 bp):
TGCTAATGTCATTCCATATTTAAATTTGT
Found at i:16215872 original size:30 final size:30
Alignment explanation
Indices: 16215812--16215875 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
16215802 AAATACTATG
*
16215812 TTTTTGTTAAAATAAACACAGTAAACTGCA
1 TTTTTGTTAAAATAAACACAATAAACTGCA
*
16215842 TTTTTGTTAAAAATAATA-ACAATTAA-TGCA
1 TTTTTGTT-AAAATAA-ACACAATAAACTGCA
16215872 TTTT
1 TTTT
16215876 AAAGCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 16 0.53
31 13 0.43
32 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (30 bp):
TTTTTGTTAAAATAAACACAATAAACTGCA
Found at i:16220157 original size:15 final size:16
Alignment explanation
Indices: 16220131--16220171 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
16220121 ACTTGACCCT
* *
16220131 AACCTAAAAAAATTTA
1 AACCTAAAAAACTTCA
*
16220147 AATCTAAAAAACTTCA
1 AACCTAAAAAACTTCA
16220163 AACCTAAAA
1 AACCTAAAA
16220172 TGACTCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (16 bp):
AACCTAAAAAACTTCA
Found at i:16224489 original size:2 final size:2
Alignment explanation
Indices: 16224482--16224517 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16224472 TAACCAAAAG
16224482 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16224518 AGTAAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Done.