Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 106 of 133
Found at i:20669995 original size:46 final size:47
Alignment explanation
Indices: 20669944--20670042 Score: 148
Period size: 46 Copynumber: 2.1 Consensus size: 47
20669934 TTTTTTATTT
* *
20669944 TTATTATATTATATTATATTATATTATATTATATTATTA-TAGTATA
1 TTATTATAGTATAGTATATTATATTATATTATATTATTATTAGTATA
* *
20669990 TTATTATAGTATAGTATATTATATTGTATTATATTATTATTATTATA
1 TTATTATAGTATAGTATATTATATTATATTATATTATTATTAGTATA
20670037 -TATTAT
1 TTATTAT
20670043 TTTTTTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 42 0.88
47 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (47 bp):
TTATTATAGTATAGTATATTATATTATATTATATTATTATTAGTATA
Found at i:20670050 original size:21 final size:20
Alignment explanation
Indices: 20669929--20670064 Score: 69
Period size: 18 Copynumber: 7.3 Consensus size: 20
20669919 ACTATTACTG
*
20669929 TTATTTT-TT-TTATTTTTA
1 TTATTTTATTATTATTATTA
*
20669947 TTATATTA-TATTA-TATTA
1 TTATTTTATTATTATTATTA
*
20669965 -TATTATATTA-TATTATTA
1 TTATTTTATTATTATTATTA
* * *
20669983 -TAGTATATTATTA-TAGTA
1 TTATTTTATTATTATTATTA
* * *
20670001 -TAGTATATTA-TATT-GTA
1 TTATTTTATTATTATTATTA
*
20670018 TTATATTATTATTATTATATA
1 TTATTTTATTATTATTAT-TA
* * *
20670039 TTATTTTTTTATTTTTATTT
1 TTATTTTATTATTATTATTA
20670059 TTATTT
1 TTATTT
20670065 CCTTTCCTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
17 12 0.13
18 49 0.52
19 9 0.10
20 7 0.07
21 17 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATTTTATTATTATTATTA
Found at i:20670906 original size:20 final size:19
Alignment explanation
Indices: 20670881--20670998 Score: 70
Period size: 20 Copynumber: 6.4 Consensus size: 19
20670871 CCCAATCGTA
*
20670881 ATTTTTCTTTTTTGCAATTT
1 ATTTTTATTTTTTG-AATTT
*
20670901 ATTTTTATTTTTTGATTTT
1 ATTTTTATTTTTTGAATTT
* *
20670920 A-TTTTATATTTTG-AGTT
1 ATTTTTATTTTTTGAATTT
* *
20670937 -TTTTTA-TTTTAG-TTTT
1 ATTTTTATTTTTTGAATTT
* *
20670953 AGTTTTTTATTTATTTTATTTT
1 A--TTTTTATTT-TTTGAATTT
*
20670975 ATTTTTATTATTT--ATTT
1 ATTTTTATTTTTTGAATTT
20670992 ATTTTTA
1 ATTTTTA
20670999 CCGAGCAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
16 6 0.08
17 17 0.22
18 11 0.14
19 14 0.18
20 23 0.29
21 2 0.03
22 5 0.06
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.75
Consensus pattern (19 bp):
ATTTTTATTTTTTGAATTT
Found at i:20670939 original size:28 final size:26
Alignment explanation
Indices: 20670900--20670983 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 26
20670890 TTTTGCAATT
* *
20670900 TATTTTTATTTTTTGATTTTATTTTA
1 TATTTTGATTTTTTTATTTTATTTTA
20670926 TATTTTGAGTTTTTTTATTTTAGTTTTA
1 TATTTTGA-TTTTTTTATTTTA-TTTTA
*
20670954 GT-TTTTTATTTATTTTATTTTATTTT-
1 -TATTTTGATTT-TTTTATTTTATTTTA
20670980 TATT
1 TATT
20670984 ATTTATTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
25 1 0.02
26 9 0.18
27 19 0.38
28 20 0.40
29 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (26 bp):
TATTTTGATTTTTTTATTTTATTTTA
Found at i:20670944 original size:22 final size:19
Alignment explanation
Indices: 20670916--20670964 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 19
20670906 TATTTTTTGA
20670916 TTTTATTTTATATTTTGAGTTT
1 TTTTATTTTA-ATTTT-AG-TT
*
20670938 TTTTATTTTAGTTTTAGTT
1 TTTTATTTTAATTTTAGTT
20670957 TTTTATTT
1 TTTTATTT
20670965 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 10 0.38
20 2 0.08
21 4 0.15
22 10 0.38
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTATTTTAATTTTAGTT
Found at i:20670969 original size:23 final size:22
Alignment explanation
Indices: 20670898--20670996 Score: 87
Period size: 22 Copynumber: 4.4 Consensus size: 22
20670888 TTTTTTGCAA
20670898 TTTATTTTTA-TTTTTTGATTTTAT
1 TTTA-TTTTAGTTTTTT-A-TTTAT
* **
20670922 TTTATATTTTGAGTTTT-TTTAT
1 TTTAT-TTTAGTTTTTTATTTAT
20670944 TTTAGTTTTAGTTTTTTATTTAT
1 TTTA-TTTTAGTTTTTTATTTAT
*
20670967 TTTATTTTATTTTTATTATTTA-
1 TTTATTTTAGTTTT-TTATTTAT
20670989 TTTATTTT
1 TTTATTTT
20670997 TACCGAGCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
22 34 0.54
23 18 0.29
24 7 0.11
25 4 0.06
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTATTTTAGTTTTTTATTTAT
Found at i:20670988 original size:27 final size:25
Alignment explanation
Indices: 20670898--20670996 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 25
20670888 TTTTTTGCAA
*
20670898 TTTATTTTTATTTTTTGATTTTATT
1 TTTATTTTTATTTTTTTATTTTATT
* *
20670923 TTATATTTTGAGTTTTTTTATTTTAGT
1 TT-TATTTTTA-TTTTTTTATTTTATT
20670950 TTTAGTTTTTTATTTATTTTATTTTATT
1 TTTA--TTTTTATTT-TTTTATTTTATT
20670978 TTTATTATTTATTTATTTT
1 TTTATT-TTTATTT-TTTT
20670997 TACCGAGCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
25 2 0.03
26 11 0.17
27 30 0.48
28 20 0.32
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (25 bp):
TTTATTTTTATTTTTTTATTTTATT
Found at i:20670998 original size:6 final size:6
Alignment explanation
Indices: 20670898--20670991 Score: 61
Period size: 7 Copynumber: 15.2 Consensus size: 6
20670888 TTTTTTGCAA
* * *
20670898 TTTATT TTTATT TTT-TGAT TTTATT TTATATT TTGAGTT TTTTTAT TTTAGT
1 TTTATT TTTATT TTTAT--T TTTATT TT-TATT TTTA-TT TTTAT-T TTTATT
*
20670950 TTTAGTT TTT-TA TTTA-T TTTA-T TTTATT TTTATT ATTTATT T
1 TTTA-TT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT T
20670992 ATTTTTACCG
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
5 14 0.20
6 27 0.39
7 28 0.40
8 1 0.01
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:20671407 original size:37 final size:37
Alignment explanation
Indices: 20671322--20671407 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
20671312 ATAAAATCTC
* *
20671322 ACCAAACTATTAAGAGATCTGCATTAAAGTAAATCCT
1 ACCAAACTATTGAGAGATCTGCATTAAAGTAAATCAT
*
20671359 ACCAAACTATTGAGAGATCTGTATTAAAGTAAATCAT
1 ACCAAACTATTGAGAGATCTGCATTAAAGTAAATCAT
20671396 ACCAAACTATTG
1 ACCAAACTATTG
20671408 GAGGACTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (37 bp):
ACCAAACTATTGAGAGATCTGCATTAAAGTAAATCAT
Found at i:20675053 original size:21 final size:20
Alignment explanation
Indices: 20675029--20675067 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
20675019 GAAAAATGAT
*
20675029 GAAAAGAAAAAGCAAAAAAGG
1 GAAAAAAAAAAG-AAAAAAGG
20675050 GAAAAAAAAAAGAAAAAA
1 GAAAAAAAAAAGAAAAAA
20675068 TGAAGGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (20 bp):
GAAAAAAAAAAGAAAAAAGG
Found at i:20676380 original size:61 final size:61
Alignment explanation
Indices: 20676267--20676429 Score: 148
Period size: 61 Copynumber: 2.7 Consensus size: 61
20676257 TCAACGTCGA
* * * * * * **
20676267 TCACTCATTTTCGATCTCGATTGGGTCCAGATCATCTTTTTGA-CTTACGATTCAATCTCAG
1 TCACTCATTTTCAATCTCAACTAGATCCAGATCATCTTTCT-ACCTTGTGATTCAATCTCAG
* ** * **
20676328 TCACTCATTTTCAATCTCAACTAGGTTTAGATCATCTTTCTACCTTGTGATTCGATCTTGG
1 TCACTCATTTTCAATCTCAACTAGATCCAGATCATCTTTCTACCTTGTGATTCAATCTCAG
* ** *
20676389 TCATTCATTTTTTATCTCAACTCGATCCAGATCATCTTTCT
1 TCACTCATTTTCAATCTCAACTAGATCCAGATCATCTTTCT
20676430 TACTTATAGT
Statistics
Matches: 82, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
60 1 0.01
61 81 0.99
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (61 bp):
TCACTCATTTTCAATCTCAACTAGATCCAGATCATCTTTCTACCTTGTGATTCAATCTCAG
Found at i:20676650 original size:17 final size:17
Alignment explanation
Indices: 20676628--20676660 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20676618 AGATTTTGTA
*
20676628 AATCTTTCATTCTTGCG
1 AATCTTTCATTATTGCG
20676645 AATCTTTCATTATTGC
1 AATCTTTCATTATTGC
20676661 AAATTTGAAA
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:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (17 bp):
AATCTTTCATTATTGCG
Found at i:20676746 original size:17 final size:17
Alignment explanation
Indices: 20676724--20676768 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
20676714 AAACTTGAAA
**
20676724 TCTTACGAATCTTTTGT
1 TCTTACGAATCTTTCAT
*
20676741 TCTTACAAATCTTTCAT
1 TCTTACGAATCTTTCAT
*
20676758 TCTTGCGAATC
1 TCTTACGAATC
20676769 AAAAGATCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (17 bp):
TCTTACGAATCTTTCAT
Found at i:20676883 original size:23 final size:23
Alignment explanation
Indices: 20676853--20676912 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
20676843 AAACCTTATA
20676853 AATCTTTGAATTTCCAAATTGTG
1 AATCTTTGAATTTCCAAATTGTG
20676876 AATCTTTGAATTTCCAAATTGTG
1 AATCTTTGAATTTCCAAATTGTG
*
20676899 AATCTTTGGATTTC
1 AATCTTTGAATTTC
20676913 AAGCCAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (23 bp):
AATCTTTGAATTTCCAAATTGTG
Found at i:20677224 original size:55 final size:55
Alignment explanation
Indices: 20677165--20677539 Score: 310
Period size: 55 Copynumber: 6.9 Consensus size: 55
20677155 CAAACTTGTA
* * * *
20677165 GTTCAATCCCAATCTTTTGATCTC-GACTTAATCCAAATCATCTTTCAGACTTACG
1 GTTCAATCCCGATCTTTCGATCTCAG-CTTGATCCAAATCATTTTTCAGACTTACG
* * *
20677220 GTTCAATCTCGATCTTTCGATCT-AGACTCGA-CCTAAATCATTTTTCAGACTTGCG
1 GTTCAATCCCGATCTTTCGATCTCAG-CTTGATCC-AAATCATTTTTCAGACTTACG
* * ** * * * * * ***
20677275 ATTTAATCTTGGTCTTTCGATCTCAGCTTCATCCAAATTATTTTTTAAACTTGTA
1 GTTCAATCCCGATCTTTCGATCTCAGCTTGATCCAAATCATTTTTCAGACTTACG
* * * * * * *
20677330 GTTCACTCCCGATCATTCAATCTTACCTCGATCCAAATCATTTTTCAGACTTATG
1 GTTCAATCCCGATCTTTCGATCTCAGCTTGATCCAAATCATTTTTCAGACTTACG
* * *
20677385 GTTCAATCTCGATCGTTCGATCTCAGCTTGATCCAAATCATTTTTCAAACTTACG
1 GTTCAATCCCGATCTTTCGATCTCAGCTTGATCCAAATCATTTTTCAGACTTACG
* * * * * * *
20677440 GTTCAATCCCAATCTTTC-AACTCGGCTTG-GCTAGATCATTTTTCAGACTTGCG
1 GTTCAATCCCGATCTTTCGATCTCAGCTTGATCCAAATCATTTTTCAGACTTACG
* * * * * *
20677493 ATTCAATCCTGATCTTTTGATCTCAGCTTCATCTAGATCATTTTTCA
1 GTTCAATCCCGATCTTTCGATCTCAGCTTGATCCAAATCATTTTTCA
20677540 TATTTGTAAT
Statistics
Matches: 252, Mismatches: 62, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
53 33 0.13
54 19 0.08
55 196 0.78
56 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (55 bp):
GTTCAATCCCGATCTTTCGATCTCAGCTTGATCCAAATCATTTTTCAGACTTACG
Found at i:20677309 original size:110 final size:109
Alignment explanation
Indices: 20677176--20677539 Score: 367
Period size: 110 Copynumber: 3.3 Consensus size: 109
20677166 TTCAATCCCA
* * * * *
20677176 ATCTTTTGATCTC-GACTTAATCCAAATCATCTTTCAGACTTACGGTTCAATCTCGATCTTTCGA
1 ATCTTTCGATCTCAG-CTTCATCCAAATCATTTTTCAAACTTACGGTTCAATCCCGATCTTTC-A
*
20677240 TCTAGACTCGACCTAAATCATTTTTCAGACTTGCGATTTAATCTTG
64 TCTAGACTCGACCTAAATCATTTTTCAGACTTGCGATTCAATCTTG
* * * *** * *
20677286 GTCTTTCGATCTCAGCTTCATCCAAATTATTTTTTAAACTTGTAGTTCACTCCCGATCATTCAAT
1 ATCTTTCGATCTCAGCTTCATCCAAATCATTTTTCAAACTTACGGTTCAATCCCGATCTTTC-AT
* ** * *
20677351 CTTA-CCTCGATCC-AAATCATTTTTCAGACTTATGGTTCAATCTCG
65 C-TAGACTCGA-CCTAAATCATTTTTCAGACTTGCGATTCAATCTTG
* * * *
20677396 ATCGTTCGATCTCAGCTTGATCCAAATCATTTTTCAAACTTACGGTTCAATCCCAATCTTTCAAC
1 ATCTTTCGATCTCAGCTTCATCCAAATCATTTTTCAAACTTACGGTTCAATCCCGATCTTTCATC
* * * * * *
20677461 TCGGCTTG-GCTAGATCATTTTTCAGACTTGCGATTCAATCCTG
66 TAGACTCGACCTAAATCATTTTTCAGACTTGCGATTCAATCTTG
* * *
20677504 ATCTTTTGATCTCAGCTTCATCTAGATCATTTTTCA
1 ATCTTTCGATCTCAGCTTCATCCAAATCATTTTTCA
20677540 TATTTGTAAT
Statistics
Matches: 202, Mismatches: 47, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
107 1 0.00
108 58 0.29
109 5 0.02
110 133 0.66
111 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (109 bp):
ATCTTTCGATCTCAGCTTCATCCAAATCATTTTTCAAACTTACGGTTCAATCCCGATCTTTCATC
TAGACTCGACCTAAATCATTTTTCAGACTTGCGATTCAATCTTG
Found at i:20677871 original size:5 final size:5
Alignment explanation
Indices: 20677857--20677962 Score: 90
Period size: 5 Copynumber: 21.2 Consensus size: 5
20677847 TAGTATTCTT
* * *
20677857 TATTA TATTA AATTA TATTA TATTA TA-T- TATTA TAGTA TAGTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * *
20677905 TATTT TATTA TATTA TTATTA TAGTC TATTA TTATTA TAGTC TATTA TTTTA
1 TATTA TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA TATTA TATTA
*
20677957 TTTTA T
1 TATTA T
20677963 TTTTTTTATT
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 68 0.83
6 10 0.12
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:20677887 original size:28 final size:28
Alignment explanation
Indices: 20677856--20677915 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
20677846 TTAGTATTCT
* *
20677856 TTATTATATTAAATTATATTATATTATA
1 TTATTATAGTAAAGTATATTATATTATA
* *
20677884 TTATTATAGTATAGTATATTATATTTTA
1 TTATTATAGTAAAGTATATTATATTATA
20677912 TTAT
1 TTAT
20677916 ATTATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
TTATTATAGTAAAGTATATTATATTATA
Found at i:20678784 original size:19 final size:19
Alignment explanation
Indices: 20678756--20678858 Score: 90
Period size: 19 Copynumber: 5.5 Consensus size: 19
20678746 TAATCGCAAG
*
20678756 TTTTTCTTTTTTGATTTTA
1 TTTTTATTTTTTGATTTTA
20678775 TTTTTATTTTTTGATTTTA
1 TTTTTATTTTTTGATTTTA
* *
20678794 TTTTTATTTATT--TTATA
1 TTTTTATTTTTTGATTTTA
*
20678811 TTTTGAGTTTTTT-A-TTTA
1 TTTTTA-TTTTTTGATTTTA
*
20678829 -TTTTATTTTACTGAATTTTA
1 TTTTTATTTT-TTG-ATTTTA
20678849 TTATTTATTT
1 TT-TTTATTT
20678859 ATTTTTACTA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.06
17 14 0.21
18 8 0.12
19 30 0.44
20 4 0.06
21 1 0.01
22 7 0.10
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTTGATTTTA
Found at i:20678792 original size:25 final size:23
Alignment explanation
Indices: 20678764--20678834 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
20678754 AGTTTTTCTT
*
20678764 TTTTGATTTTATTTTTATTTTTTGA
1 TTTTGATTTT-TTTTTATTTTAT-A
*
20678789 TTTT-ATTTTTATTTATTTTATA
1 TTTTGATTTTTTTTTATTTTATA
20678811 TTTTGAGTTTTTTATTTATTTTAT
1 TTTTGA-TTTTTT-TTTATTTTAT
20678835 TTTACTGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.12
23 11 0.28
24 10 0.25
25 14 0.35
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (23 bp):
TTTTGATTTTTTTTTATTTTATA
Found at i:20678847 original size:25 final size:26
Alignment explanation
Indices: 20678822--20678886 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 26
20678812 TTTGAGTTTT
20678822 TTATTTATTTTATTTTACTGAATTTTA
1 TTATTTATTTTATTTTACTGAA-TTTA
20678849 TTATTTA-TTTATTTTTACTAAGCAATTTA
1 TTATTTATTTTA-TTTTACT--G-AATTTA
20678878 TTATTTATT
1 TTATTTATT
20678887 AAATATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
26 4 0.12
27 14 0.42
29 12 0.36
30 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (26 bp):
TTATTTATTTTATTTTACTGAATTTA
Found at i:20680093 original size:12 final size:13
Alignment explanation
Indices: 20680062--20680094 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
20680052 TAATTTACCA
20680062 AAAATTTAATCTTG
1 AAAA-TTAATCTTG
20680076 AAAATTAATCTT-
1 AAAATTAATCTTG
20680088 AAAATTA
1 AAAATTA
20680095 CTCTAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 8 0.42
14 4 0.21
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (13 bp):
AAAATTAATCTTG
Found at i:20680658 original size:22 final size:23
Alignment explanation
Indices: 20680615--20680660 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
20680605 AATAAATAAT
*
20680615 AAATTACTTAAATAAAATTAAAA
1 AAATTACTAAAATAAAATTAAAA
*
20680638 AAATTAGTAAAATAAAA-TAAAA
1 AAATTACTAAAATAAAATTAAAA
20680660 A
1 A
20680661 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATTACTAAAATAAAATTAAAA
Found at i:20680662 original size:6 final size:6
Alignment explanation
Indices: 20680646--20680741 Score: 56
Period size: 6 Copynumber: 15.7 Consensus size: 6
20680636 AAAAATTAGT
* * * * *
20680646 AAAAT- AAAATA AAAATA AAAATAA AAAACTT AAAATA TATAATG ATAA-C
1 AAAATA AAAATA AAAATA AAAAT-A AAAA-TA AAAATA -AAAATA AAAATA
*
20680695 AAAAT- AAAATCAA AAAATA AAAATA AAAATA AATAA-A AAAAGA AAAA
1 AAAATA AAAAT--A AAAATA AAAATA AAAATA AA-AATA AAAATA AAAA
20680742 CCTTTGATCG
Statistics
Matches: 75, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
5 15 0.20
6 39 0.52
7 15 0.20
8 6 0.08
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:20680728 original size:24 final size:25
Alignment explanation
Indices: 20680695--20680741 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20680685 TAATGATAAC
* *
20680695 AAAATAAAATCAAAAAATAAAAATA
1 AAAATAAAATAAAAAAAGAAAAATA
20680720 AAAAT-AAATAAAAAAAGAAAAA
1 AAAATAAAATAAAAAAAGAAAAA
20680742 CCTTTGATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (25 bp):
AAAATAAAATAAAAAAAGAAAAATA
Found at i:20683691 original size:22 final size:22
Alignment explanation
Indices: 20683661--20683707 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
20683651 TATGATTAGG
*
20683661 TATTTGTTAATTTGTATTGATT
1 TATTGGTTAATTTGTATTGATT
* *
20683683 TATTGGTTAATTTTTATTGGTT
1 TATTGGTTAATTTGTATTGATT
20683705 TAT
1 TAT
20683708 ATTTGCTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (22 bp):
TATTGGTTAATTTGTATTGATT
Found at i:20690421 original size:30 final size:30
Alignment explanation
Indices: 20690348--20690436 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
20690338 ATATTTTATG
20690348 TTAAGAGTTTATTTAAATATAAATTAAAAAT
1 TTAAG-GTTTATTTAAATATAAATTAAAAAT
* * * *
20690379 TAAAGGTATATTTAAATAT-AATTTAAATT
1 TTAAGGTTTATTTAAATATAAATTAAAAAT
* * *
20690408 TTAAGTGTTTATTTGAGTGTAAATTAAAA
1 TTAAG-GTTTATTTAAATATAAATTAAAA
20690437 GTTAAATATT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
29 12 0.26
30 23 0.50
31 11 0.24
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (30 bp):
TTAAGGTTTATTTAAATATAAATTAAAAAT
Found at i:20692348 original size:6 final size:6
Alignment explanation
Indices: 20692334--20692378 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
20692324 TGGCTTTCCT
* *
20692334 TTTTC- TTTTAA TTTTCA GTTTTGA TTTTCA TTTTCA TTTTCA TTT
1 TTTTCA TTTTCA TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTT
20692379 CCTCTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 4 0.12
6 25 0.74
7 5 0.15
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:20692534 original size:12 final size:13
Alignment explanation
Indices: 20692507--20692531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20692497 TTCGAATTAA
20692507 AAAAAAAGTTTTT
1 AAAAAAAGTTTTT
20692520 AAAAAAAGTTTT
1 AAAAAAAGTTTT
20692532 AAATTATTTT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AAAAAAAGTTTTT
Found at i:20693293 original size:15 final size:15
Alignment explanation
Indices: 20693269--20693298 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20693259 AACTGGTGTT
*
20693269 TAAATCAAATAAAAA
1 TAAATAAAATAAAAA
20693284 TAAATAAAATAAAAA
1 TAAATAAAATAAAAA
20693299 AGAAATGGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAATAAAATAAAAA
Found at i:20693591 original size:3 final size:3
Alignment explanation
Indices: 20693564--20693612 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
20693554 TAACGAAGGA
* * * *
20693564 AAT AAC AAT AAT AAC AAC AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20693612 A
1 A
20693613 TTATTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:20693617 original size:3 final size:3
Alignment explanation
Indices: 20693611--20693635 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20693601 ATAATAATAA
20693611 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
20693636 TCCCCTAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20694218 original size:3 final size:3
Alignment explanation
Indices: 20694204--20694242 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
20694194 CACCAAAGCC
20694204 ATT ATCT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
20694243 GTTTTAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:20695215 original size:2 final size:2
Alignment explanation
Indices: 20695208--20695244 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
20695198 GCAGACTACC
20695208 TA TA TA TA TA 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 TA TA TA TA TA T
20695245 GTAAGCAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20696749 original size:16 final size:16
Alignment explanation
Indices: 20696728--20696758 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20696718 TCTCATACAT
*
20696728 ACATACATATATATAG
1 ACATACATACATATAG
20696744 ACATACATACATATA
1 ACATACATACATATA
20696759 TATATATAAG
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:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (16 bp):
ACATACATACATATAG
Found at i:20696749 original size:20 final size:20
Alignment explanation
Indices: 20696724--20696762 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20696714 TTAATCTCAT
20696724 ACATACATACATATATATAG
1 ACATACATACATATATATAG
20696744 ACATACATACATATATATA
1 ACATACATACATATATATA
20696763 TATAAGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (20 bp):
ACATACATACATATATATAG
Found at i:20696753 original size:24 final size:24
Alignment explanation
Indices: 20696721--20696766 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
20696711 TACTTAATCT
20696721 CATACATACATACATATATATAGA
1 CATACATACATACATATATATAGA
*
20696745 CATACATACATATATATATATA
1 CATACATACATACATATATATA
20696767 AGTGAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (24 bp):
CATACATACATACATATATATAGA
Found at i:20698346 original size:17 final size:18
Alignment explanation
Indices: 20698305--20698345 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
20698295 GTTTTCTTAC
20698305 ATTTTTACTAATTTTTTA
1 ATTTTTACTAATTTTTTA
20698323 ATTTTTACT-ATTATTTTA
1 ATTTTTACTAATT-TTTTA
20698341 ATTTT
1 ATTTT
20698346 AAAAAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTACTAATTTTTTA
Found at i:20698506 original size:3 final size:3
Alignment explanation
Indices: 20698498--20698546 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
20698488 TAGTAAAGAA
20698498 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20698546 T
1 T
20698547 TAACCGATAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20699401 original size:9 final size:9
Alignment explanation
Indices: 20699379--20699431 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
20699369 TTTAATTTTA
20699379 TATTTTAGTT
1 TATTTTA-TT
20699389 TATTTTATT
1 TATTTTATT
*
20699398 TATTTTACT
1 TATTTTATT
*
20699407 GATTTTA-T
1 TATTTTATT
*
20699415 T-TTTTGTT
1 TATTTTATT
20699423 TATTTTATT
1 TATTTTATT
20699432 GAATATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
7 4 0.11
8 3 0.08
9 22 0.61
10 7 0.19
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (9 bp):
TATTTTATT
Found at i:20703372 original size:19 final size:20
Alignment explanation
Indices: 20703348--20703395 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
20703338 ATAATTTAGG
*
20703348 ATTCGATTTTGA-AAACATT
1 ATTCGATTTTGACAAAAATT
20703367 ATTCGATGGTTTGACAAAAATT
1 ATTCGAT--TTTGACAAAAATT
20703389 ATT-GATT
1 ATTCGATT
20703396 CATTAAGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 8 0.32
21 8 0.32
22 9 0.36
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTCGATTTTGACAAAAATT
Found at i:20704105 original size:17 final size:18
Alignment explanation
Indices: 20704083--20704116 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20704073 AAGGAACAAG
20704083 AAAAAGA-AAAAAAAAAA
1 AAAAAGAGAAAAAAAAAA
20704100 AAAAAGAGAAAAAAAAA
1 AAAAAGAGAAAAAAAAA
20704117 GAATGCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAAAAAAAAA
Found at i:20705611 original size:3 final size:3
Alignment explanation
Indices: 20705594--20705693 Score: 134
Period size: 3 Copynumber: 34.3 Consensus size: 3
20705584 AGTAAAGATA
*
20705594 TAT TAT TAC TA- TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
20705640 TAT TAT TAT TAT CAT TAT TAT CAT TAT TAT TAT TAT TGT T-T TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20705687 TAT TAT T
1 TAT TAT T
20705694 TAACTGATAG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
2 6 0.07
3 80 0.93
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:20706551 original size:19 final size:20
Alignment explanation
Indices: 20706526--20706578 Score: 72
Period size: 19 Copynumber: 2.5 Consensus size: 20
20706516 CATTTTTGTT
20706526 TTTTTTTATTTTATTTT-TAA
1 TTTTTTTA-TTTATTTTATAA
20706546 TTTTTTTATTTATTTTACTAA
1 TTTTTTTATTTATTTTA-TAA
20706567 TTTTTATTATTT
1 TTTTT-TTATTT
20706579 GTTTATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 8 0.27
22 6 0.20
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTATTTATTTTATAA
Found at i:20706583 original size:21 final size:21
Alignment explanation
Indices: 20706526--20706583 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
20706516 CATTTTTGTT
*
20706526 TTTTTTTATTTTA-TTT-TTAA
1 TTTTTTTA-TTTAGTTTACTAA
*
20706546 TTTTTTTATTTATTTTACTAA
1 TTTTTTTATTTAGTTTACTAA
20706567 TTTTTATTATTT-GTTTA
1 TTTTT-TTATTTAGTTTA
20706584 TTTTCACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 4 0.12
20 11 0.33
21 12 0.36
22 6 0.18
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTTATTTAGTTTACTAA
Found at i:20707598 original size:17 final size:17
Alignment explanation
Indices: 20707553--20707598 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
20707543 TACTAATAAT
20707553 AAAATTTAAAATAAAAA
1 AAAATTTAAAATAAAAA
*
20707570 AATATTTAAAAATAAAAA
1 AAAATTT-AAAATAAAAA
*
20707588 AAAATCTAAAA
1 AAAATTTAAAA
20707599 CAAACCAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATTTAAAATAAAAA
Found at i:20707832 original size:2 final size:2
Alignment explanation
Indices: 20707827--20707877 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
20707817 TTTTTCTTCC
*
20707827 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20707869 CT CT CT CT C
1 CT CT CT CT C
20707878 ACACACACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:20708530 original size:10 final size:10
Alignment explanation
Indices: 20708514--20708581 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
20708504 AAAAGGTATC
20708514 AAAAAAAAA-
1 AAAAAAAAAG
*
20708523 AAAGAAAAAG
1 AAAAAAAAAG
* * *
20708533 AAGAGAAGAG
1 AAAAAAAAAG
* *
20708543 AAGAAAAATG
1 AAAAAAAAAG
*
20708553 AAAAAAAATG
1 AAAAAAAAAG
20708563 AAAAAAAAA-
1 AAAAAAAAAG
20708572 AAAAGAAAAA
1 AAAA-AAAAA
20708582 TAATGAAGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
9 12 0.26
10 35 0.74
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:20708945 original size:50 final size:50
Alignment explanation
Indices: 20708807--20709070 Score: 203
Period size: 50 Copynumber: 5.2 Consensus size: 50
20708797 TTGAAAATTT
* * * *
20708807 AAAAGGCTTCTTTAAGCAATGGCTT-AACAACTTTAAAAATTCTTTATCTTGAA
1 AAAAGGCTTCTCTAAGCAAAGG-TTCAACAACTTTAAAAA-T-TTCATCTT-AG
* * * *
20708860 AAAAAGC-TCATCTAGGCAGAA-ATTCAACAAGTTTAAAAATTTCATCTTAG
1 AAAAGGCTTC-TCTAAGCA-AAGGTTCAACAACTTTAAAAATTTCATCTTAG
* * *
20708910 AAAAGGCTTCTTTAAGCAAATGTTCAACAACTTTAAAAATTTCATCTCAG
1 AAAAGGCTTCTCTAAGCAAAGGTTCAACAACTTTAAAAATTTCATCTTAG
* * ** * * * *
20708960 AAAAGTCTCCTCTAAATAAAGGCTCAACCACTTTAAAATTTTCATCTTAA
1 AAAAGGCTTCTCTAAGCAAAGGTTCAACAACTTTAAAAATTTCATCTTAG
* * * * * *
20709010 AAAAGGC-TCATCTATGTAGAGGCTCAACAATTTTAAAAATTTTATCTTAG
1 AAAAGGCTTC-TCTAAGCAAAGGTTCAACAACTTTAAAAATTTCATCTTAG
*
20709060 AAAAAGCTTCT
1 AAAAGGCTTCT
20709071 TGAGAAGCTA
Statistics
Matches: 168, Mismatches: 36, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
49 3 0.02
50 123 0.73
51 11 0.07
52 5 0.03
53 25 0.15
54 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (50 bp):
AAAAGGCTTCTCTAAGCAAAGGTTCAACAACTTTAAAAATTTCATCTTAG
Found at i:20709962 original size:19 final size:18
Alignment explanation
Indices: 20709940--20709977 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
20709930 TTTTTTTAAC
20709940 TTTTTTCTATTTTTTCTTT
1 TTTTTTCTATTTTTT-TTT
*
20709959 TTTTTTCTCTTTTTTTTT
1 TTTTTTCTATTTTTTTTT
20709977 T
1 T
20709978 CAAGTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTCTATTTTTTTTT
Found at i:20720166 original size:17 final size:17
Alignment explanation
Indices: 20720140--20720173 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20720130 TGCATGTGAA
*
20720140 AATTTCTTTTTGTCTTT
1 AATTTCTTTTTGACTTT
*
20720157 AATTTGTTTTTGACTTT
1 AATTTCTTTTTGACTTT
20720174 TGATTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.68
Consensus pattern (17 bp):
AATTTCTTTTTGACTTT
Found at i:20721287 original size:18 final size:16
Alignment explanation
Indices: 20721266--20721306 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
20721256 TTTTTTTTAC
20721266 ATTTTTACAAATTTTTTT
1 ATTTTTAC-AA-TTTTTT
*
20721284 ATTTTTACTATTTTTT
1 ATTTTTACAATTTTTT
20721300 ATTTTTA
1 ATTTTTA
20721307 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.59
17 1 0.05
18 8 0.36
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTACAATTTTTT
Found at i:20721563 original size:18 final size:19
Alignment explanation
Indices: 20721522--20721564 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
20721512 CCAATAATAA
*
20721522 AATTTAAAATAATAAAAAT
1 AATTTAAAATAAAAAAAAT
20721541 AATTTAAAATAAAAAAAAT
1 AATTTAAAATAAAAAAAAT
20721560 -ATTTA
1 AATTTA
20721565 CTTGAATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTTAAAATAAAAAAAAT
Found at i:20722436 original size:16 final size:16
Alignment explanation
Indices: 20722417--20722468 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
20722407 AAAAGGTGCC
20722417 AAAAAAGAAAGAAAGA
1 AAAAAAGAAAGAAAGA
20722433 AAAAAA-AAAGAAGAGA
1 AAAAAAGAAAGAA-AGA
*
20722449 AAAAATG-AA-AAAGA
1 AAAAAAGAAAGAAAGA
20722463 AAAAAA
1 AAAAAA
20722469 AATGAATGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 8 0.25
15 8 0.25
16 16 0.50
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAGAAAGA
Found at i:20722437 original size:15 final size:15
Alignment explanation
Indices: 20722417--20722467 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
20722407 AAAAGGTGCC
20722417 AAAAAAGAAAGAAAG
1 AAAAAAGAAAGAAAG
*
20722432 AAAAAAAAAAGAAGAG
1 AAAAAAGAAAGAA-AG
20722448 AAAAAATG-AA-AAAG
1 AAAAAA-GAAAGAAAG
20722462 AAAAAA
1 AAAAAA
20722468 AAATGAATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 8 0.25
15 14 0.44
16 10 0.31
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAAAAGAAAGAAAG
Found at i:20722441 original size:19 final size:18
Alignment explanation
Indices: 20722417--20722470 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
20722407 AAAAGGTGCC
20722417 AAAAAAGAAAGAAAGAAAA
1 AAAAAAGAAAGAAA-AAAA
*
20722436 AAAAAAGAAGAGAAAAAAT
1 AAAAAAGAA-AGAAAAAAA
*
20722455 GAAAAAGAAA-AAAAAA
1 AAAAAAGAAAGAAAAAA
20722471 TGAATGGGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 6 0.19
18 1 0.03
19 20 0.62
20 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAGAAAAAAA
Found at i:20722469 original size:16 final size:16
Alignment explanation
Indices: 20722428--20722474 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
20722418 AAAAAGAAAG
20722428 AAAGAAAAAAAA--AA
1 AAAGAAAAAAAATGAA
* *
20722442 GAAGAGAAAAAATGAA
1 AAAGAAAAAAAATGAA
20722458 AAAGAAAAAAAAATGAA
1 AAAG-AAAAAAAATGAA
20722475 TGGGTGTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 10 0.38
16 5 0.19
17 11 0.42
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAGAAAAAAAATGAA
Found at i:20723343 original size:5 final size:5
Alignment explanation
Indices: 20723333--20723369 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
20723323 GTATAATAAA
20723333 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
20723370 GTTCTCTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:20725329 original size:23 final size:22
Alignment explanation
Indices: 20725290--20725334 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20725280 TCTATCTTTA
*
20725290 AATTATTTTTATTTAAAATTAAT
1 AATTATTTTTATAT-AAATTAAT
20725313 AATTAATTTTTA-ATAAATTAAT
1 AATT-ATTTTTATATAAATTAAT
20725335 TAAATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTATTTTTATATAAATTAAT
Found at i:20725340 original size:24 final size:25
Alignment explanation
Indices: 20725287--20725361 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 25
20725277 CATTCTATCT
*
20725287 TTAAATTATTTTTATTTAAAATTAA
1 TTAAATTATTTTTATATAAAATTAA
20725312 -T-AATTAATTTTTA-AT-AAATTAA
1 TTAAATT-ATTTTTATATAAAATTAA
**
20725334 TTAAA-T-TTGATATATAAAATTAAA
1 TTAAATTATTTTTATATAAAATT-AA
20725358 TTAA
1 TTAA
20725362 TTGATCACAC
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
21 4 0.10
22 9 0.22
23 12 0.29
24 16 0.39
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
TTAAATTATTTTTATATAAAATTAA
Found at i:20725363 original size:23 final size:22
Alignment explanation
Indices: 20725287--20725363 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
20725277 CATTCTATCT
*
20725287 TTAAATT-ATTTTTATTTAAAA
1 TTAAATTAATTTTTATATAAAA
20725308 TTAATAATTAATTTTTA-AT-AAA
1 TT-A-AATTAATTTTTATATAAAA
*
20725330 TT-AATTAAATTTGATATATAAAA
1 TTAAATT-AATTT-TTATATAAAA
20725353 TTAAATTAATT
1 TTAAATTAATT
20725364 GATCACACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
19 4 0.09
20 5 0.11
21 4 0.09
22 8 0.17
23 14 0.30
24 11 0.24
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAAATTAATTTTTATATAAAA
Found at i:20728151 original size:18 final size:20
Alignment explanation
Indices: 20728125--20728174 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
20728115 TCATTTTTTA
* *
20728125 ATTTTTTAAAAAC-T-TATT
1 ATTTATTAAAAACATGTAAT
*
20728143 ATTTATTAACAACATGTAAT
1 ATTTATTAAAAACATGTAAT
20728163 ATTTTATTAAAA
1 A-TTTATTAAAA
20728175 TTAAGATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 4 0.16
21 9 0.36
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTATTAAAAACATGTAAT
Found at i:20728626 original size:18 final size:18
Alignment explanation
Indices: 20728605--20728645 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
20728595 ATTTTTATTT
** *
20728605 TATAAATTTTTAAATATA
1 TATAAATTAATAAAAATA
20728623 TATAAATTAATAAAAATA
1 TATAAATTAATAAAAATA
20728641 TATAA
1 TATAA
20728646 TTCAATTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAATTAATAAAAATA
Found at i:20733794 original size:22 final size:23
Alignment explanation
Indices: 20733752--20733795 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
20733742 CTAAAAACTT
20733752 ATTACAAAGTTAAAAAAAATTAC
1 ATTACAAAGTTAAAAAAAATTAC
*
20733775 ATTA-AAA-TTAATAAATAATTA
1 ATTACAAAGTTAA-AAAAAATTA
20733796 GAAAGATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
ATTACAAAGTTAAAAAAAATTAC
Found at i:20735611 original size:10 final size:10
Alignment explanation
Indices: 20735598--20735627 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
20735588 TTTATATTAT
20735598 TTTAAATATA
1 TTTAAATATA
20735608 TTTAAATATA
1 TTTAAATATA
*
20735618 TTTATATATA
1 TTTAAATATA
20735628 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTAAATATA
Found at i:20735667 original size:18 final size:18
Alignment explanation
Indices: 20735646--20735686 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
20735636 ATTTTTATTT
** *
20735646 TATAAATTTTTAAATATA
1 TATAAATTAATAAAAATA
20735664 TATAAATTAATAAAAATA
1 TATAAATTAATAAAAATA
20735682 TATAA
1 TATAA
20735687 TTCAATTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAATTAATAAAAATA
Found at i:20737263 original size:13 final size:13
Alignment explanation
Indices: 20737245--20737283 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
20737235 TCAGTTACTC
20737245 TCTCTCAAAGTTT
1 TCTCTCAAAGTTT
20737258 TCTCTCAAAGTTT
1 TCTCTCAAAGTTT
* *
20737271 TATCTTAAAGTTT
1 TCTCTCAAAGTTT
20737284 CATAGTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.49
Consensus pattern (13 bp):
TCTCTCAAAGTTT
Found at i:20748329 original size:14 final size:15
Alignment explanation
Indices: 20748310--20748340 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
20748300 GCATTTGAAA
20748310 AAGGAAAG-AAGGAG
1 AAGGAAAGAAAGGAG
20748324 AAGGAAAGAAAGGAG
1 AAGGAAAGAAAGGAG
20748339 AA
1 AA
20748341 CAGGGAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AAGGAAAGAAAGGAG
Found at i:20752846 original size:21 final size:21
Alignment explanation
Indices: 20752802--20752863 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
20752792 ATTGTACCAT
*
20752802 CTTTATCTTCATCAAACT-AA
1 CTTTATCTTCATCATACTGAA
*
20752822 CTTTATCTTCGTCATACTGAA
1 CTTTATCTTCATCATACTGAA
*
20752843 CTTTATTTTCATCATACTGAA
1 CTTTATCTTCATCATACTGAA
20752864 AATGGATCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.44
Consensus pattern (21 bp):
CTTTATCTTCATCATACTGAA
Found at i:20752977 original size:21 final size:21
Alignment explanation
Indices: 20752953--20752996 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
20752943 TGTCAAATTG
*
20752953 AACTTTAGCTTTATCATACTA
1 AACTTTAGCTTCATCATACTA
* *
20752974 AACTTTATCTTCGTCATACTA
1 AACTTTAGCTTCATCATACTA
20752995 AA
1 AA
20752997 ATAGATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (21 bp):
AACTTTAGCTTCATCATACTA
Found at i:20756805 original size:29 final size:29
Alignment explanation
Indices: 20756760--20756816 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
20756750 CTAAATTTAG
20756760 CTGCAGAGAACTCAAATCCATTCTATCTC
1 CTGCAGAGAACTCAAATCCATTCTATCTC
*
20756789 CTGCAGAGAACTTAAATCCATTCTATCT
1 CTGCAGAGAACTCAAATCCATTCTATCT
20756817 TTTGCCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.30
Consensus pattern (29 bp):
CTGCAGAGAACTCAAATCCATTCTATCTC
Found at i:20758243 original size:29 final size:29
Alignment explanation
Indices: 20758206--20758272 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
20758196 GTTTAAATAA
* *
20758206 TAAAAAAATTTTCA-ATTAATTATTTTATT
1 TAAATAAATTTTCATATT-ATTATTATATT
* *
20758235 TAAATAAATTTTTATATTTTTATTATATT
1 TAAATAAATTTTCATATTATTATTATATT
*
20758264 AAAATAAAT
1 TAAATAAAT
20758273 CATTAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (29 bp):
TAAATAAATTTTCATATTATTATTATATT
Found at i:20758283 original size:29 final size:29
Alignment explanation
Indices: 20758225--20758283 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
20758215 TTTCAATTAA
* * * *
20758225 TTATTTTATTTAAATAAATTTTTATATTT
1 TTATTATATTAAAATAAATATTAATATTT
20758254 TTATTATATTAAAATAAATCATTAAT-TTT
1 TTATTATATTAAAATAAAT-ATTAATATTT
20758283 T
1 T
20758284 AATTTAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
TTATTATATTAAAATAAATATTAATATTT
Found at i:20758329 original size:30 final size:29
Alignment explanation
Indices: 20758227--20758343 Score: 96
Period size: 30 Copynumber: 4.0 Consensus size: 29
20758217 TCAATTAATT
* *
20758227 ATTT-TATTTAAATAAATTTTTATATTTTT
1 ATTTATATTTAAATAAATTCTTA-ATTTTA
*
20758256 A-TTATATTAAAATAAA-TCATTAATTTTTA
1 ATTTATATTTAAATAAATTC-TTAA-TTTTA
* **
20758285 ATTTAAATGCAAATAAATTCTTAGATTTTA
1 ATTTATATTTAAATAAATTCTTA-ATTTTA
* * *
20758315 ATTTGTATTTAAATAAATTATTATTTTTA
1 ATTTATATTTAAATAAATTCTTAATTTTA
20758344 TTTGCATATA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
28 4 0.06
29 25 0.36
30 38 0.54
31 3 0.04
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (29 bp):
ATTTATATTTAAATAAATTCTTAATTTTA
Found at i:20758355 original size:28 final size:29
Alignment explanation
Indices: 20758265--20758367 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 29
20758255 TATTATATTA
* ** **
20758265 AAATAAATCATTAATTTTTAATTTAAATGC
1 AAATAAATTATTAA-TTTTAATTTGCATAT
* * *
20758295 AAATAAATTCTTAGATTTTAATTTGTATTT
1 AAATAAATTATTA-ATTTTAATTTGCATAT
*
20758325 AAATAAATTATT-ATTTTTATTTGCATAT
1 AAATAAATTATTAATTTTAATTTGCATAT
20758353 AAATAAAATT-TTAAT
1 AAAT-AAATTATTAAT
20758368 ACAAATTAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 19 0.32
29 7 0.12
30 33 0.55
31 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (29 bp):
AAATAAATTATTAATTTTAATTTGCATAT
Found at i:20766353 original size:21 final size:21
Alignment explanation
Indices: 20766329--20766386 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 21
20766319 AAAAATTTTT
*
20766329 ATTAAAAATGAATAAATCAAA
1 ATTAAAAATCAATAAATCAAA
20766350 ATT-AAAATCAA-AAATCAAA
1 ATTAAAAATCAATAAATCAAA
*
20766369 ATTGATAAATCAATAAAT
1 ATT-AAAAATCAATAAAT
20766387 TTTATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 11 0.34
20 7 0.22
21 10 0.31
22 4 0.12
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (21 bp):
ATTAAAAATCAATAAATCAAA
Found at i:20766863 original size:2 final size:2
Alignment explanation
Indices: 20766856--20766881 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20766846 CACCAATTCT
20766856 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
20766882 AGTAAGTATT
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:20768512 original size:2 final size:2
Alignment explanation
Indices: 20768505--20768530 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20768495 TTGTCTCAAT
20768505 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
20768531 AATCAAAAGT
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:20773711 original size:243 final size:241
Alignment explanation
Indices: 20773280--20773729 Score: 672
Period size: 243 Copynumber: 1.9 Consensus size: 241
20773270 GTATTCTCAG
* * *
20773280 GAAAAAAAGGGTCCTGCTTGGTGCCCCTGCCTAAGAAAATGTTCTATCTGATTGATGGTGACCAA
1 GAAAAAAAAGGACCTGCTTGGTGCCCCTGCCTAAGAAAATGTTCTATCTGATTCATGGTGACCAA
* * * *
20773345 AAAGAGTGCAGATTGAATCTTCTAGCCATTTCACCTTTGACTTGTATTCTTAAAAAAAAAAAAAA
66 AAAGAGTACAGATCGAATCATCTAGCCATTTCACCTTTGACTTATATTCTTAAAAAAAAAAAAAA
* * *
20773410 AGGGCCCTGCTTTGGTGCCCCACCGAGTAAAGAAATTCTGTTTCCTTAGTTCGAGGATTGGGTTC
131 AGGACCCTGCTTTGGTACCCCACCGAGTAAAGAAATTCAGTTTCCTTAGTTCGAGGATTGGGTTC
20773475 TTTGCTAGGAGTTTAACCTTTGCTTTGTATTCTCAGAAGAAGTAAA
196 TTTGCTAGGAGTTTAACCTTTGCTTTGTATTCTCAGAAGAAGTAAA
20773521 GAAAAAAAAGGACCTGCTTGGTG-CCCTGCCTAAGAAAATGTTCTATCTGATTCATGGTTGACCA
1 GAAAAAAAAGGACCTGCTTGGTGCCCCTGCCTAAGAAAATGTTCTATCTGATTCATGG-TGACCA
* ** *
20773585 CCAGAAAGAGTACAGGTCGAATCATCTAGCTGTTTCACCTTTG-CTTTATATTCTT-AAAAAAAG
65 --A-AAAGAGTACAGATCGAATCATCTAGCCATTTCACCTTTGAC-TTATATTCTTAAAAAAAAA
* * * *
20773648 AAAAAATGACCCTGCTTTGGTACCTCACTGAGTAAAGAAATTCAGTTTCCTTAGTTTGAGGATTG
126 AAAAAAGGACCCTGCTTTGGTACCCCACCGAGTAAAGAAATTCAGTTTCCTTAGTTCGAGGATTG
20773713 GGTTCTTTGCTAGGAGT
191 GGTTCTTTGCTAGGAGT
20773730 CCTTTTGTAA
Statistics
Matches: 186, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
240 33 0.18
241 27 0.15
243 84 0.45
244 42 0.23
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (241 bp):
GAAAAAAAAGGACCTGCTTGGTGCCCCTGCCTAAGAAAATGTTCTATCTGATTCATGGTGACCAA
AAAGAGTACAGATCGAATCATCTAGCCATTTCACCTTTGACTTATATTCTTAAAAAAAAAAAAAA
AGGACCCTGCTTTGGTACCCCACCGAGTAAAGAAATTCAGTTTCCTTAGTTCGAGGATTGGGTTC
TTTGCTAGGAGTTTAACCTTTGCTTTGTATTCTCAGAAGAAGTAAA
Found at i:20777811 original size:2 final size:2
Alignment explanation
Indices: 20777804--20777833 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20777794 GTTCATCTAG
20777804 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
20777834 CCATATCTGG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20781096 original size:32 final size:31
Alignment explanation
Indices: 20781058--20781133 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 31
20781048 TAAATAATTT
* *
20781058 TTTAAATATCATATTAATTAATAAATTTATAA
1 TTTAAATATCATATTAATTAA-AAAATTAAAA
20781090 TTTAAATAT--TA-T-ATTAAAAAATTAAAA
1 TTTAAATATCATATTAATTAAAAAATTAAAA
*
20781117 TTAAAATATCATATTAA
1 TTTAAATATCATATTAA
20781134 ATATTTTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 16 0.43
28 5 0.14
29 3 0.08
30 3 0.08
31 1 0.03
32 9 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTAAATATCATATTAATTAAAAAATTAAAA
Found at i:20782385 original size:6 final size:6
Alignment explanation
Indices: 20782374--20782415 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
20782364 TAATCAGACC
20782374 CTCCAA CTCCAA CTCCAA CTCCAA CTCCAA CTCCAA CTCCAA
1 CTCCAA CTCCAA CTCCAA CTCCAA CTCCAA CTCCAA CTCCAA
20782416 GCCTTTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (6 bp):
CTCCAA
Found at i:20791935 original size:29 final size:30
Alignment explanation
Indices: 20791892--20791948 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
20791882 AATTAATAAG
20791892 TATTAATTGTTAATATAAAATATTATTTAA
1 TATTAATTGTTAATATAAAATATTATTTAA
*
20791922 TATT-ATTTTTAATATAAAATATTATTT
1 TATTAATTGTTAATATAAAATATTATTT
20791949 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TATTAATTGTTAATATAAAATATTATTTAA
Found at i:20791995 original size:33 final size:31
Alignment explanation
Indices: 20791957--20792027 Score: 108
Period size: 33 Copynumber: 2.3 Consensus size: 31
20791947 TTTTAAAATT
20791957 TAAATATAAAATTAAATAAATATAAAATATATA
1 TAAATATAAAATTAAATAAATA-AAAATA-ATA
*
20791990 TAAATATAAAATTAAATAAATAATAATAATA
1 TAAATATAAAATTAAATAAATAAAAATAATA
20792021 -AAATATA
1 TAAATATA
20792028 TACCTCGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 7 0.19
31 3 0.08
32 5 0.14
33 22 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (31 bp):
TAAATATAAAATTAAATAAATAAAAATAATA
Found at i:20792524 original size:16 final size:16
Alignment explanation
Indices: 20792505--20792559 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 16
20792495 AAAATTTCTA
20792505 AAAAATTTTAAAAAAT
1 AAAAATTTTAAAAAAT
20792521 AAAAATTTTAAAAATAT
1 AAAAATTTTAAAAA-AT
* *
20792538 GAATATTTTAAAAAATT
1 AAAAATTTTAAAAAA-T
20792555 AAAAA
1 AAAAA
20792560 ATTGTGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 15 0.45
17 18 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAAATTTTAAAAAAT
Found at i:20792525 original size:17 final size:17
Alignment explanation
Indices: 20792503--20792562 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
20792493 AGAAAATTTC
20792503 TAAAAAATTTTAAAAAA
1 TAAAAAATTTTAAAAAA
20792520 T-AAAAATTTT-AAAAA
1 TAAAAAATTTTAAAAAA
* *
20792535 TATGAATATTTTAAAAAA
1 TA-AAAAATTTTAAAAAA
20792553 TTAAAAAATT
1 -TAAAAAATT
20792563 GTGATATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 6 0.17
16 9 0.26
17 8 0.23
18 10 0.29
19 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAAATTTTAAAAAA
Found at i:20792549 original size:26 final size:25
Alignment explanation
Indices: 20792520--20792591 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
20792510 TTTTAAAAAA
* *
20792520 TAAAAATTTTAAAAATATGAATATTT
1 TAAAAAATTAAAAAATATGAATA-TT
*
20792546 TAAAAAATTAAAAAAT-TGTGATATT
1 TAAAAAATTAAAAAATATG-AATATT
*
20792571 TAAAAAAATAAAAAATATGAA
1 TAAAAAATTAAAAAATATGAA
20792592 AACTAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 20 0.51
26 19 0.49
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (25 bp):
TAAAAAATTAAAAAATATGAATATT
Found at i:20792881 original size:18 final size:20
Alignment explanation
Indices: 20792837--20792884 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
20792827 TTACAATTTT
20792837 AATTTTTTATATATTTTATG
1 AATTTTTTATATATTTTATG
*
20792857 AATTTTTTATAT-TTTTTTG
1 AATTTTTTATATATTTTATG
*
20792876 GATTTTTTA
1 AATTTTTTA
20792885 ATAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
AATTTTTTATATATTTTATG
Found at i:20793289 original size:32 final size:32
Alignment explanation
Indices: 20793243--20793306 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
20793233 CAATTGATAA
*
20793243 CATAGCACTTATTGAA-TATTTTTTTCTAAGTG
1 CATAACACTTATTGAACT-TTTTTTTCTAAGTG
*
20793275 CATAACACTTATTGAACTTTTTTTTTTAAGTG
1 CATAACACTTATTGAACTTTTTTTTCTAAGTG
20793307 TTTATATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (32 bp):
CATAACACTTATTGAACTTTTTTTTCTAAGTG
Found at i:20804105 original size:13 final size:12
Alignment explanation
Indices: 20804087--20804127 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
20804077 GGGTCACCTT
20804087 TTCTTTTGTTTTC
1 TTCTTTT-TTTTC
20804100 TTCTTTTTTTT-
1 TTCTTTTTTTTC
*
20804111 TTTTTTTTTTTC
1 TTCTTTTTTTTC
20804123 -TCTTT
1 TTCTTT
20804128 CTGCCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 14 0.56
12 4 0.16
13 7 0.28
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:20804126 original size:22 final size:23
Alignment explanation
Indices: 20804085--20804127 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20804075 AAGGGTCACC
20804085 TTTTCTTTTGTTTTCTTCTTTTT
1 TTTTCTTTTGTTTTCTTCTTTTT
* *
20804108 TTTTTTTTTTTTTTC-TCTTT
1 TTTTCTTTTGTTTTCTTCTTT
20804128 CTGCCATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (23 bp):
TTTTCTTTTGTTTTCTTCTTTTT
Found at i:20804595 original size:38 final size:38
Alignment explanation
Indices: 20804544--20804620 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
20804534 AGAAAGGGGA
20804544 AAAAAATTAACACAACCTTTTAGGCTTTTCACTACATT
1 AAAAAATTAACACAACCTTTTAGGCTTTTCACTACATT
20804582 AAAAAATTAACACAACCTTTTAGGCTTTTCACTACATT
1 AAAAAATTAACACAACCTTTTAGGCTTTTCACTACATT
20804620 A
1 A
20804621 CATTTAGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (38 bp):
AAAAAATTAACACAACCTTTTAGGCTTTTCACTACATT
Found at i:20805814 original size:17 final size:17
Alignment explanation
Indices: 20805792--20805836 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
20805782 ATATATATTA
20805792 TTATCATTTAATATTTT
1 TTATCATTTAATATTTT
*
20805809 TTATCATTT-ATCTTTT
1 TTATCATTTAATATTTT
* *
20805825 TAATAATTTAAT
1 TTATCATTTAAT
20805837 GAAAAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATCATTTAATATTTT
Found at i:20806352 original size:13 final size:12
Alignment explanation
Indices: 20806336--20806378 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
20806326 TTTATTTCAC
20806336 TATTTTGTTTATT
1 TATTTTGTTTA-T
20806349 TATTCTTGTTTAT
1 TATT-TTGTTTAT
*
20806362 TATTTTATTT-T
1 TATTTTGTTTAT
20806373 TATTTT
1 TATTTT
20806379 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 7 0.25
12 5 0.18
13 9 0.32
14 7 0.25
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (12 bp):
TATTTTGTTTAT
Found at i:20806370 original size:18 final size:17
Alignment explanation
Indices: 20806321--20806384 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
20806311 ACTTGTAACT
* * *
20806321 TTATTTTTATTTCACTA
1 TTATTTTTATTTTATTC
20806338 TT-TTGTTTA-TTTATTC
1 TTATT-TTTATTTTATTC
* *
20806354 TTGTTTATTATTTTATTT
1 TTATTT-TTATTTTATTC
20806372 TTATTTTTATTTT
1 TTATTTTTATTTT
20806385 TTAAAAAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 9 0.24
17 18 0.47
18 11 0.29
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (17 bp):
TTATTTTTATTTTATTC
Found at i:20807532 original size:21 final size:20
Alignment explanation
Indices: 20807501--20807554 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
20807491 TCCATTCGGC
*
20807501 AATAATAAAATTCTATTGGT
1 AATAATAAAATTCTATTGAT
*
20807521 AATAATTAAAATTATATTGAT
1 AATAA-TAAAATTCTATTGAT
*
20807542 AATAGTAAAATTC
1 AATAATAAAATTC
20807555 CTTCGGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (20 bp):
AATAATAAAATTCTATTGAT
Found at i:20807668 original size:20 final size:20
Alignment explanation
Indices: 20807616--20807669 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
20807606 TTTCGTCGAT
* *
20807616 AAATCCATCAGTAATAATAA
1 AAATCCATCGGTAATAAAAA
* * *
20807636 AATTCTATTGGTAATAAAAA
1 AAATCCATCGGTAATAAAAA
20807656 AAATCCATCGGTAA
1 AAATCCATCGGTAA
20807670 ATCAATCGGT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (20 bp):
AAATCCATCGGTAATAAAAA
Found at i:20808161 original size:55 final size:55
Alignment explanation
Indices: 20808095--20808204 Score: 166
Period size: 55 Copynumber: 2.0 Consensus size: 55
20808085 TTGTCTAGAC
** *
20808095 CCCATCAACTATATCATCTGCTCCATGCATGACTTAAGCTTAGCTATCAGCTTAG
1 CCCATCAACTATATCATCTGCTCCATAAATGACTTAAGATTAGCTATCAGCTTAG
** *
20808150 CCCATCAACTATATCATCTGCTCTGTAAATGACTTAAGATTAGCTTTCAGCTTAG
1 CCCATCAACTATATCATCTGCTCCATAAATGACTTAAGATTAGCTATCAGCTTAG
20808205 TCTTTCACTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (55 bp):
CCCATCAACTATATCATCTGCTCCATAAATGACTTAAGATTAGCTATCAGCTTAG
Found at i:20810525 original size:3 final size:3
Alignment explanation
Indices: 20810510--20810552 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
20810500 TTCATGTGTT
* * *
20810510 TCA TCA CCA TCA TCA TTA TTA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
20810553 TTTCTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:20814210 original size:16 final size:16
Alignment explanation
Indices: 20814186--20814224 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20814176 TCATATAAAG
*
20814186 TGTTAAACCTTTGTAT
1 TGTTGAACCTTTGTAT
*
20814202 TGTTGAACCTTTTTAT
1 TGTTGAACCTTTGTAT
20814218 TGATTGA
1 TG-TTGA
20814225 CCATATAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (16 bp):
TGTTGAACCTTTGTAT
Found at i:20815282 original size:334 final size:335
Alignment explanation
Indices: 20814659--20815282 Score: 972
Period size: 334 Copynumber: 1.9 Consensus size: 335
20814649 CAATTTAGTT
*
20814659 TATTTATATTAAGTTTGCTCAATACAATCAAACCACAATATTTCAATAATTAGTAATAATAAATT
1 TATTTATATTAAGTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATAATAAATT
* *
20814724 TCACTAAATTATTAAATATATAAACTATTTCAAAACAAATATAAATCTTAATAATATATAGCTTA
66 TCACTAAATTATCAAATATATAAACTATTTCAAAACAAATATAAATCATAATAATATATAGC-TA
* *
20814789 CTTCAAAATGATCATTGGCTATTAGTAATATATAAATTATAACCTCAAATAAAGATAAATAATGT
130 CTTCAAAATGATCATTAGCTATTAGTAATATATAAATTATAACCTCAAACAAAGATAAATAATGT
* * *
20814854 TTATTTCTATAATTAGTATTAAAATCTAGAAAATCTTAAATATAAAACATCCATACAAATATATA
195 TAATTTCTATAATTAGTATTAAAATCTAGAAAATATTAAATATAAAACATACATACAAATATATA
* **
20814919 TAAATATTAATACATATCAAATTCAAATTAACCAACTCTAAATCTTACACATCTAAAAGTTAATA
260 TAAATATTAATACACATCAAACCCAAATTAACCAACTCTAAATCTTACACATCTAAAAGTTAATA
20814984 AATATATAATA
325 AATATATAATA
* *
20814995 TATTTATATTAGGTTTGATCAGTAC-ATCAAACCACAATATTTCAATAATTAGTAATATATAAAT
1 TATTTATATTAAGTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATA-ATAAAT
*
20815059 TTCACTAAACTT-TCAAATATATAAACTATTTTAAAACAAATATAAATCATAATAATATATAAAG
65 TTCACTAAA-TTATCAAATATATAAACTATTTCAAAACAAATATAAATCATAATAATATAT--AG
* * * * *
20815123 C-ACTTCAAAATGA-GA-TAGCTATTAGTAATATATAAATTATGACTTCAAACCAATATAAATAA
127 CTACTTCAAAATGATCATTAGCTATTAGTAATATATAAATTATAACCTCAAACAAAGATAAATAA
*
20815185 T-TGTAATTTCTATAATTATTATTAAAATCTAGAAAATATTAAATATAAAACATACATACAAATA
192 TGT-TAATTTCTATAATTAGTATTAAAATCTAGAAAATATTAAATATAAAACATACATACAAATA
20815249 TATATAAATATTAATACACATCAAACCCAAATTA
256 TATATAAATATTAATACACATCAAACCCAAATTA
20815283 GCCTAAATCT
Statistics
Matches: 263, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
333 1 0.00
334 130 0.49
335 33 0.13
336 94 0.36
337 2 0.01
338 3 0.01
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (335 bp):
TATTTATATTAAGTTTGATCAATACAATCAAACCACAATATTTCAATAATTAGTAATAATAAATT
TCACTAAATTATCAAATATATAAACTATTTCAAAACAAATATAAATCATAATAATATATAGCTAC
TTCAAAATGATCATTAGCTATTAGTAATATATAAATTATAACCTCAAACAAAGATAAATAATGTT
AATTTCTATAATTAGTATTAAAATCTAGAAAATATTAAATATAAAACATACATACAAATATATAT
AAATATTAATACACATCAAACCCAAATTAACCAACTCTAAATCTTACACATCTAAAAGTTAATAA
ATATATAATA
Found at i:20815388 original size:17 final size:16
Alignment explanation
Indices: 20815356--20815386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20815346 ACTTTCACAA
20815356 TTAAAAAATAAAAAAC
1 TTAAAAAATAAAAAAC
*
20815372 TTAACAAATAAAAAA
1 TTAAAAAATAAAAAA
20815387 ACCCTTAAAA
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:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
TTAAAAAATAAAAAAC
Found at i:20815584 original size:33 final size:32
Alignment explanation
Indices: 20815492--20815588 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 32
20815482 TTTTTTTTAA
* * * *
20815492 CAAATATATAACCAAAATCTAAACAAATTTCAA
1 CAAACATAAAACCAAAATCCAAA-AAATTTCAT
*
20815525 CAATCATAAAACC--AA--C-AAAAATTTCAT
1 CAAACATAAAACCAAAATCCAAAAAATTTCAT
20815552 CAAACATAAAACCAAAATCCAAATAAATTTCAT
1 CAAACATAAAACCAAAATCCAAA-AAATTTCAT
20815585 CAAA
1 CAAA
20815589 TAATTAACTA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 20 0.38
28 2 0.04
29 2 0.04
31 3 0.06
32 2 0.04
33 23 0.44
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.22
Consensus pattern (32 bp):
CAAACATAAAACCAAAATCCAAAAAATTTCAT
Found at i:20815602 original size:60 final size:59
Alignment explanation
Indices: 20815492--20815605 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
20815482 TTTTTTTTAA
* * *
20815492 CAAATATATAACCAAAATCTAAACAAATTTCAACAATCATAAAACCAACAAAAATTTCAT
1 CAAACATAAAACCAAAATCCAAACAAATTTCAACAA-CATAAAACCAACAAAAATTTCAT
* * *
20815552 CAAACATAAAACCAAAATCCAAATAAATTTCATCAA-ATAATTAACTAACAAAAA
1 CAAACATAAAACCAAAATCCAAACAAATTTCAACAACATAA--AACCAACAAAAA
20815606 CTCAACACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 4 0.09
60 42 0.91
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (59 bp):
CAAACATAAAACCAAAATCCAAACAAATTTCAACAACATAAAACCAACAAAAATTTCAT
Found at i:20817730 original size:31 final size:31
Alignment explanation
Indices: 20817675--20817764 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 31
20817665 TAAATCAGGT
* * * *
20817675 TTGAATCTCATCATTGCTAGCTAAACTGAAC
1 TTGAATCTCATTAGTGCCAACTAAACTGAAC
* **
20817706 TTGAATCTCATTAGTGCCAACTAAATTGGGC
1 TTGAATCTCATTAGTGCCAACTAAACTGAAC
*
20817737 -TGAAATCTCATTAGTAG-CAACTATACTG
1 TTG-AATCTCATTAGT-GCCAACTAAACTG
20817765 GGCTTAAACC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
30 2 0.04
31 45 0.94
32 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (31 bp):
TTGAATCTCATTAGTGCCAACTAAACTGAAC
Found at i:20817767 original size:31 final size:31
Alignment explanation
Indices: 20817709--20817768 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
20817699 ACTGAACTTG
*
20817709 AATCTCATTAGTGCCAACTAAATTGGGCTGA
1 AATCTCATTAGTGCCAACTAAACTGGGCTGA
*
20817740 AATCTCATTAGTAG-CAACTATACTGGGCT
1 AATCTCATTAGT-GCCAACTAAACTGGGCT
20817769 TAAACCTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (31 bp):
AATCTCATTAGTGCCAACTAAACTGGGCTGA
Found at i:20817823 original size:30 final size:30
Alignment explanation
Indices: 20817789--20817897 Score: 98
Period size: 31 Copynumber: 3.6 Consensus size: 30
20817779 CGATGCCAGT
20817789 TAAATTGGACTTAAA-CTTATAG-GTATAAGC
1 TAAATTGGACTTAAATCTTATAGTG-AT-AGC
*
20817819 TAAATTGG-CTTAAATCTTATTAGTGCTAGC
1 TAAATTGGACTTAAATCTTA-TAGTGATAGC
* * ** **
20817849 TAAATTAGACTTAAATCTTATTGGTGCCAAT
1 TAAATTGGACTTAAATCTTA-TAGTGATAGC
20817880 TAAATTGGACTTAAATCT
1 TAAATTGGACTTAAATCT
20817898 CATTAGTGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
29 6 0.09
30 22 0.32
31 39 0.57
32 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (30 bp):
TAAATTGGACTTAAATCTTATAGTGATAGC
Found at i:20817865 original size:31 final size:30
Alignment explanation
Indices: 20817816--20817908 Score: 114
Period size: 31 Copynumber: 3.0 Consensus size: 30
20817806 TATAGGTATA
*
20817816 AGCTAAATTGGCTTAAATCTTATTAGTGCT
1 AGCTAAATTGACTTAAATCTTATTAGTGCT
* *
20817846 AGCTAAATTAGACTTAAATCTTATTGGTGCC
1 AGCTAAATT-GACTTAAATCTTATTAGTGCT
** *
20817877 AATTAAATTGGACTTAAATCTCATTAGTGCT
1 AGCTAAATT-GACTTAAATCTTATTAGTGCT
20817908 A
1 A
20817909 ACTAGGGGTG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 9 0.17
31 44 0.83
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (30 bp):
AGCTAAATTGACTTAAATCTTATTAGTGCT
Found at i:20822040 original size:26 final size:26
Alignment explanation
Indices: 20821978--20822041 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
20821968 TATTTGGGAC
20821978 AAATTTAGAT-AAAATTTCTCACTTAG
1 AAATTT-GATAAAAATTTCTCACTTAG
* *
20822004 AAATTTTATAAAAATTTAC-CA-TTTG
1 AAATTTGATAAAAATTT-CTCACTTAG
20822029 AAATTTCGATAAA
1 AAATTT-GATAAA
20822042 TTCCATCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 11 0.34
26 20 0.62
27 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (26 bp):
AAATTTGATAAAAATTTCTCACTTAG
Found at i:20823046 original size:6 final size:6
Alignment explanation
Indices: 20823019--20823075 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
20823009 TATTATCAAC
* * *
20823019 TAAAAA T-AAAA TAAATA -AAAAA TCAAAA TAAAAA TAAGAA TAAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA
*
20823066 AAAAAA TAAA
1 TAAAAA TAAA
20823076 GTCCATAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
5 9 0.22
6 27 0.68
7 4 0.10
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:20823053 original size:12 final size:11
Alignment explanation
Indices: 20823019--20823068 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
20823009 TATTATCAAC
20823019 TAAAAATAAAA
1 TAAAAATAAAA
20823030 TAAATAA-AAAA
1 TAAA-AATAAAA
*
20823041 TCAAAATAAAAA
1 TAAAAAT-AAAA
*
20823053 TAAGAATAAAA
1 TAAAAATAAAA
20823064 -AAAAA
1 TAAAAA
20823069 AAATAAAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
10 6 0.19
11 15 0.47
12 11 0.34
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:20823071 original size:25 final size:23
Alignment explanation
Indices: 20823020--20823075 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
20823010 ATTATCAACT
*
20823020 AAAAAT-AAAATAAATAAAAAAT
1 AAAAATAAAAATAAATAAAAAAA
*
20823042 CAAAATAAAAATAAGAATAAAAAAA
1 AAAAATAAAAAT-A-AATAAAAAAA
20823067 AAAAATAAA
1 AAAAATAAA
20823076 GTCCATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.18
23 5 0.18
24 1 0.04
25 17 0.61
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAATAAATAAAAAAA
Found at i:20823308 original size:9 final size:9
Alignment explanation
Indices: 20823283--20823335 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
20823273 TTGGCACTTC
20823283 TCTTTTTTT
1 TCTTTTTTT
*
20823292 TCACTTTTTT
1 TC-TTTTTTT
20823302 TCTTTTTTT
1 TCTTTTTTT
20823311 T-TGTCTTTTT
1 TCT-T-TTTTT
20823321 TCTTTTTTT
1 TCTTTTTTT
*
20823330 TGTTTT
1 TCTTTT
20823336 GGTTTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.03
9 20 0.54
10 15 0.41
11 1 0.03
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:20823310 original size:20 final size:19
Alignment explanation
Indices: 20823280--20823330 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
20823270 ACTTTGGCAC
20823280 TTCTCTTTTTTTTCACTTTTT
1 TTCT-TTTTTTTTCAC-TTTT
**
20823301 TTCTTTTTTTTTGTCTTTT
1 TTCTTTTTTTTTCACTTTT
20823320 TTCTTTTTTTT
1 TTCTTTTTTTT
20823331 GTTTTGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 15 0.54
20 9 0.32
21 4 0.14
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (19 bp):
TTCTTTTTTTTTCACTTTT
Found at i:20823567 original size:40 final size:41
Alignment explanation
Indices: 20823404--20823584 Score: 226
Period size: 41 Copynumber: 4.5 Consensus size: 41
20823394 GCTCACAACT
*
20823404 TTTGAAAAATAAATACGGCTCCTCTAAACAAAGGCATAATGAC
1 TTTGAAAAATAAA-A-GGCTCCTCTAAACAAAGGCACAATGAC
* *
20823447 TTTGAAAAATAAAAAGCTCCTCTAAACAAGGGCACAATG--
1 TTTGAAAAATAAAAGGCTCCTCTAAACAAAGGCACAATGAC
* * * *
20823486 -TTGAAAAATAAAAGACTCCTTTAAATAGAGGCACAATGAC
1 TTTGAAAAATAAAAGGCTCCTCTAAACAAAGGCACAATGAC
* *
20823526 TTTGAAAAAT-AAAGGCTTCTCTAAACAAAGGCACAACGAC
1 TTTGAAAAATAAAAGGCTCCTCTAAACAAAGGCACAATGAC
*
20823566 TTTGAAAAATAAAACGCTC
1 TTTGAAAAATAAAAGGCTC
20823585 ATTGACAATC
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 32 0.27
40 34 0.29
41 37 0.32
42 1 0.01
43 13 0.11
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (41 bp):
TTTGAAAAATAAAAGGCTCCTCTAAACAAAGGCACAATGAC
Found at i:20824172 original size:22 final size:22
Alignment explanation
Indices: 20824146--20824210 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
20824136 AAACTCAAAG
*
20824146 AAACTTAAAGATTATTATTTGA
1 AAACTTAAAGATTCTTATTTGA
20824168 AAACTTAAAGATTCTTATTTG-
1 AAACTTAAAGATTCTTATTTGA
* *
20824189 AAATTTAAAGATTCTCATTTGA
1 AAACTTAAAGATTCTTATTTGA
20824211 GGCTTCACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 19 0.49
22 20 0.51
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (22 bp):
AAACTTAAAGATTCTTATTTGA
Found at i:20824178 original size:32 final size:33
Alignment explanation
Indices: 20824116--20824178 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
20824106 AGTTCTTCTT
*
20824116 CTTAAAGATTCTCATTTGAAAAACTCAAAGAAA
1 CTTAAAGATTATCATTTGAAAAACTCAAAGAAA
* *
20824149 CTTAAAGATTATTATTTG-AAAACTTAAAGA
1 CTTAAAGATTATCATTTGAAAAACTCAAAGA
20824179 TTCTTATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (33 bp):
CTTAAAGATTATCATTTGAAAAACTCAAAGAAA
Found at i:20824198 original size:21 final size:21
Alignment explanation
Indices: 20824145--20824210 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
20824135 AAAACTCAAA
*
20824145 GAAACTTAAAGATTATTATTT
1 GAAACTTAAAGATTCTTATTT
20824166 GAAAACTTAAAGATTCTTATTT
1 G-AAACTTAAAGATTCTTATTT
* *
20824188 GAAATTTAAAGATTCTCATTT
1 GAAACTTAAAGATTCTTATTT
20824209 GA
1 GA
20824211 GGCTTCACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 21 0.51
22 20 0.49
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (21 bp):
GAAACTTAAAGATTCTTATTT
Found at i:20825427 original size:11 final size:11
Alignment explanation
Indices: 20825413--20825440 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
20825403 CTTTTTCCTT
20825413 TTTTTCTTTTG
1 TTTTTCTTTTG
20825424 TTTTTCTTTTG
1 TTTTTCTTTTG
20825435 TTTTTC
1 TTTTTC
20825441 ATTCATTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTG
Found at i:20829858 original size:164 final size:165
Alignment explanation
Indices: 20829569--20829867 Score: 424
Period size: 164 Copynumber: 1.8 Consensus size: 165
20829559 TTTGTTGAAT
* ** * * * *
20829569 GAAAATAATGACAATTTTTTTTATTGAAATTTCATTTAAATTCTTCCACCATTTGGAACAAATTT
1 GAAAATAATGACAAATACTTTTATTGAAATTCCATCTAAATTATTCCACAATTTGGAACAAATTT
* * * * *
20829634 AAAGAAAAATTTTCACTTAGAGATTTCTTAGGAATTTGCCATTTGAAATTTCAAAGAATCTCATC
66 AAAGAAAAATTTTCACCTAGAAATTTCTTAGAAATTTACCATTTAAAATTTCAAAGAATCTCATC
20829699 CTTGGATAATTATCAAATATTTTCAACCACATTTG
131 CTTGGATAATTATCAAATATTTTCAACCACATTTG
20829734 GAAAATAAT-ACAAATACTTTTATTGAAATTCCATCTAAATTATTCCACAATTTGTG-ACAAATT
1 GAAAATAATGACAAATACTTTTATTGAAATTCCATCTAAATTATTCCACAATTTG-GAACAAATT
* *
20829797 TAGAG-AAAATTTCTCACCTAGAAATTTCTTAGAAATTTACCATTTAAAATTTCTAAGAATCTCA
65 TAAAGAAAAATTT-TCACCTAGAAATTTCTTAGAAATTTACCATTTAAAATTTCAAAGAATCTCA
*
20829861 TCTTTGG
129 TCCTTGG
20829868 GTAACTTGTA
Statistics
Matches: 117, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
163 7 0.06
164 100 0.85
165 10 0.09
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (165 bp):
GAAAATAATGACAAATACTTTTATTGAAATTCCATCTAAATTATTCCACAATTTGGAACAAATTT
AAAGAAAAATTTTCACCTAGAAATTTCTTAGAAATTTACCATTTAAAATTTCAAAGAATCTCATC
CTTGGATAATTATCAAATATTTTCAACCACATTTG
Done.