Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 57 of 205
Found at i:17176848 original size:2 final size:2
Alignment explanation
Indices: 17176841--17176884 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
17176831 ATTTTTATTT
* **
17176841 CA CA CA CA CA CA CA CA CA CA CG TG CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17176883 CA
1 CA
17176885 AACCTTGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.48, G:0.05, T:0.02
Consensus pattern (2 bp):
CA
Found at i:17177287 original size:16 final size:16
Alignment explanation
Indices: 17177268--17177298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17177258 TTAGGGACTT
*
17177268 CAATACCCTTTTTACA
1 CAATAACCTTTTTACA
17177284 CAATAACCTTTTTAC
1 CAATAACCTTTTTAC
17177299 CGCACTAAAC
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:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (16 bp):
CAATAACCTTTTTACA
Found at i:17186957 original size:23 final size:21
Alignment explanation
Indices: 17186930--17186985 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
17186920 TTTATATCAG
17186930 TTTTAATATTTTTAATAATTTT
1 TTTTAATATTTTT-ATAATTTT
* * *
17186952 TATTTAAAAATTTTATGATTTT
1 T-TTTAATATTTTTATAATTTT
*
17186974 TTATAATATTTT
1 TTTTAATATTTT
17186986 AAGCATTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTAATATTTTTATAATTTT
Found at i:17187024 original size:20 final size:21
Alignment explanation
Indices: 17187001--17187050 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
17186991 TTCTTATATG
17187001 TTTTTATAAAATTT-CAAATT
1 TTTTTATAAAATTTACAAATT
* * *
17187021 TTTTTATTAATTTTATAAATT
1 TTTTTATAAAATTTACAAATT
*
17187042 TTGTTATAA
1 TTTTTATAA
17187051 TTTATTAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTATAAAATTTACAAATT
Found at i:17216932 original size:37 final size:37
Alignment explanation
Indices: 17216858--17216938 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
17216848 ATGGAGAAAT
* * *
17216858 ATGAAA-CATTTGGAAATTATTAAGGTTTTATTAAAA
1 ATGAAATCATTTGGAAATGAATAAGGTTTTATCAAAA
* * *
17216894 ATGAAATCATTTGGAAATGAATATGGTTTTCTCCAAA
1 ATGAAATCATTTGGAAATGAATAAGGTTTTATCAAAA
17216931 ATGGAAAT
1 AT-GAAAT
17216939 GAAAATGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
36 6 0.16
37 26 0.70
38 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGAAATCATTTGGAAATGAATAAGGTTTTATCAAAA
Found at i:17216953 original size:7 final size:7
Alignment explanation
Indices: 17216929--17216967 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
17216919 GTTTTCTCCA
17216929 AAATG-G
1 AAATGAG
17216935 AAATGA-
1 AAATGAG
17216941 AAATGAG
1 AAATGAG
17216948 AAATGAG
1 AAATGAG
17216955 AAATGAG
1 AAATGAG
17216962 AAATGA
1 AAATGA
17216968 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (7 bp):
AAATGAG
Found at i:17224130 original size:22 final size:23
Alignment explanation
Indices: 17224076--17224131 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
17224066 TACACCACAC
*
17224076 CAGTAGGCACCGAAGTACTTATA
1 CAGTAGGCACCGAAATACTTATA
* *
17224099 CAGTAAGCACCGAAAT-GTTGA-A
1 CAGTAGGCACCGAAATACTT-ATA
17224121 CAGTAGGCACC
1 CAGTAGGCACC
17224132 ATAGTGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (23 bp):
CAGTAGGCACCGAAATACTTATA
Found at i:17224146 original size:22 final size:22
Alignment explanation
Indices: 17224121--17224165 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17224111 AAATGTTGAA
*
17224121 CAGTAGGCACCATAGTGCAAAT
1 CAGTAGGCACCATAGTGAAAAT
17224143 CAGTAGGCACCATAGTGAAAAT
1 CAGTAGGCACCATAGTGAAAAT
17224165 C
1 C
17224166 CTGTACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (22 bp):
CAGTAGGCACCATAGTGAAAAT
Found at i:17250189 original size:7 final size:7
Alignment explanation
Indices: 17250177--17250203 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17250167 CTATAGATAC
17250177 GATTGAT
1 GATTGAT
17250184 GATTGAT
1 GATTGAT
17250191 GATTGAT
1 GATTGAT
17250198 GATTGA
1 GATTGA
17250204 ATTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (7 bp):
GATTGAT
Found at i:17251433 original size:20 final size:19
Alignment explanation
Indices: 17251410--17251479 Score: 90
Period size: 20 Copynumber: 3.7 Consensus size: 19
17251400 AAATTACAAA
17251410 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
17251429 CAAAAATTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
17251449 TAAAATTCAAAA-AA-TAT
1 AAAAATTCAAAATAATTTT
17251466 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
17251480 TTATTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.18
18 7 0.16
19 11 0.24
20 19 0.42
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:17251454 original size:39 final size:38
Alignment explanation
Indices: 17251411--17251494 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
17251401 AATTACAAAA
*
17251411 AAAATTCAAAATAATTTTCAAAAATT-CAAAA-TAATTTTT
1 AAAATTCAAAA-AA-TAT-AAAAATTCCAAAATTAATTTTT
*
17251450 AAAATTCAAAAAATATAAAAATTCCAAAATTTATTTTTT
1 AAAATTCAAAAAATATAAAAATTCCAAAA-TTAATTTTT
17251489 AAAATT
1 AAAATT
17251495 ATAAGAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
36 7 0.17
37 7 0.17
38 2 0.05
39 24 0.60
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (38 bp):
AAAATTCAAAAAATATAAAAATTCCAAAATTAATTTTT
Found at i:17259958 original size:5 final size:6
Alignment explanation
Indices: 17259925--17259980 Score: 52
Period size: 5 Copynumber: 10.3 Consensus size: 6
17259915 ACATACAGAG
* *
17259925 AGAGAA AGAGAG AG-GAG AGA-AA AGAGAA AG-GAA AGAGAA A-AG-A
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA
17259968 AGAG-A AGAGAA AG
1 AGAGAA AGAGAA AG
17259981 GGGTTTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
4 2 0.05
5 23 0.53
6 18 0.42
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:17262578 original size:25 final size:25
Alignment explanation
Indices: 17262544--17262607 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
17262534 TTTAAAAGAA
17262544 CAAGGTAAATTCAATAACAGACTTG
1 CAAGGTAAATTCAATAACAGACTTG
*
17262569 CAAGGTAAATTCAATAAGAGACTTG
1 CAAGGTAAATTCAATAACAGACTTG
17262594 CAAGGTAAATTCAA
1 CAAGGTAAATTCAA
17262608 CAAAAGACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.23
Consensus pattern (25 bp):
CAAGGTAAATTCAATAACAGACTTG
Found at i:17262615 original size:25 final size:25
Alignment explanation
Indices: 17262544--17262615 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
17262534 TTTAAAAGAA
*
17262544 CAAGGTAAATTCAATAACAGACTTG
1 CAAGGTAAATTCAATAAAAGACTTG
*
17262569 CAAGGTAAATTCAATAAGAGACTTG
1 CAAGGTAAATTCAATAAAAGACTTG
*
17262594 CAAGGTAAATTCAACAAAAGAC
1 CAAGGTAAATTCAATAAAAGAC
17262616 GCTTTACCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (25 bp):
CAAGGTAAATTCAATAAAAGACTTG
Found at i:17268253 original size:31 final size:31
Alignment explanation
Indices: 17268211--17268271 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17268201 ATTCAACATC
* *
17268211 GGTACATAGTACCTGATATAATATAAACACT
1 GGTACAAAGTACCTGATATAACATAAACACT
* *
17268242 GGTACAAAGTACTTGCTATAACATAAACAC
1 GGTACAAAGTACCTGATATAACATAAACAC
17268272 CGATACATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (31 bp):
GGTACAAAGTACCTGATATAACATAAACACT
Found at i:17291099 original size:3 final size:3
Alignment explanation
Indices: 17291091--17291127 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
17291081 GTAATAGATT
*
17291091 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
17291128 TTGATAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:17292035 original size:12 final size:12
Alignment explanation
Indices: 17292018--17292047 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
17292008 CAGAATTGTA
17292018 TCAAGGTGGCCT
1 TCAAGGTGGCCT
17292030 TCAAGGTGGCCT
1 TCAAGGTGGCCT
17292042 TCAAGG
1 TCAAGG
17292048 CTCTGCAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.23
Consensus pattern (12 bp):
TCAAGGTGGCCT
Found at i:17298663 original size:25 final size:24
Alignment explanation
Indices: 17298628--17298722 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
17298618 AAGGCTTTTT
* * *
17298628 CAGAGATTTCGCCACAATAACTTTA
1 CAGAGAGTTCACCACAA-AGCTTTA
** * *
17298653 CAGAGAGTTCGTCATAAGGGCTTTA
1 CAGAGAGTTCACCACAA-AGCTTTA
*
17298678 CAGAGAGTTCACCATAAAGGCTTTA
1 CAGAGAGTTCACCACAAA-GCTTTA
17298703 CAGAGAGTTCACCACAAAGC
1 CAGAGAGTTCACCACAAAGC
17298723 CTTGGTTTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 2 0.03
25 57 0.97
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (24 bp):
CAGAGAGTTCACCACAAAGCTTTA
Found at i:17304848 original size:23 final size:22
Alignment explanation
Indices: 17304805--17304862 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
17304795 AAAAGGTATC
* *
17304805 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
17304826 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
17304849 TGCATATCATATCT
1 TACAAATCATATCT
17304863 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:17304897 original size:24 final size:19
Alignment explanation
Indices: 17304841--17304913 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
17304831 AATCATATCT
17304841 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17304860 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
17304879 TCTAAGATTACATGTCATA
1 TCTAAGATTGCATATCATA
17304898 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
17304914 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17305538 original size:45 final size:44
Alignment explanation
Indices: 17305425--17305666 Score: 169
Period size: 45 Copynumber: 5.5 Consensus size: 44
17305415 TTCTAATCCA
* ** * *
17305425 CTCCACTACAACTTTAGGGAGATGGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
* * * *
17305469 CCCCGCTGCAA-TTTCAAGGG-GATAAGACTTGATTTCTTGAGTTTG
1 CTCCACTGCAACTTT--AGGGAGATAAGACTTG-TTTATTGAGTCTG
* *
17305514 CTCCACTGCAACTTTAGGGAGATAAGACTCGCTTTTTTGAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTG-TTTATTGAGTCTG
* ** *
17305559 CTCCACTGCAACTTCAGGGAGATAAGACCCG-ATA-TGA-TCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
* * * * **
17305600 CT-CTCTGCAACTTCAGAGAGATAAGA-TATGTGATT-TT-AATCCA
1 CTCCACTGCAACTTTAGGGAGATAAGACT-TGT--TTATTGAGTCTG
17305643 CTCCACTGCAACTTTAGGGAGATA
1 CTCCACTGCAACTTTAGGGAGATA
17305667 GGATTATTGG
Statistics
Matches: 157, Mismatches: 29, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
40 23 0.15
41 6 0.04
42 4 0.03
43 10 0.06
44 38 0.24
45 73 0.46
46 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
Found at i:17305656 original size:44 final size:43
Alignment explanation
Indices: 17305604--17305714 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 43
17305594 GATCTGCTCT
17305604 CTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGATAT-TGATTTTAATCCACTCCA
* * * * ***
17305648 CTGCAACTTTAGGGAGATAGGATTATTGGTTTTAATCTGTTCCA
1 CTGCAACTTCAGAGAGATAAGA-TATTGATTTTAATCCACTCCA
17305692 CTGCAACTTCAGAGAGATAAGAT
1 CTGCAACTTCAGAGAGATAAGAT
17305715 TCGCCATCTT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
43 1 0.02
44 52 0.93
45 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
CTGCAACTTCAGAGAGATAAGATATTGATTTTAATCCACTCCA
Found at i:17305883 original size:44 final size:44
Alignment explanation
Indices: 17305824--17305932 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
17305814 CTGCTCTCTG
** * *
17305824 CAACTTCAGATAGATAAGATCT-GTGATTTTAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGAT-TAGTGACTTTAATCTACTCCACTA
* * * * *
17305868 CGACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTAGTGACTTTAATCTACTCCACTA
*
17305912 TAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
17305933 CGCCATCTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTAGTGACTTTAATCTACTCCACTA
Found at i:17306228 original size:50 final size:50
Alignment explanation
Indices: 17306125--17306228 Score: 138
Period size: 50 Copynumber: 2.1 Consensus size: 50
17306115 TCCAAGCGTT
* *
17306125 AACGCCAGGGAGATAAGATTCTGCGTCGTGGCTTCAATCTGCTCCGTTAC
1 AACGCCAGGGACATAAGATTCTGCGTCGTGGCTTCAATCTGCTCCATTAC
* ** *
17306175 AACGCCAGGGACATAAGATTC-GCCGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGCCAGGGACATAAGATTCTG-CGTCGTGGCTTCAATCTGCTCCATTAC
17306225 AACG
1 AACG
17306229 TCAAGGCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.02
50 46 0.98
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (50 bp):
AACGCCAGGGACATAAGATTCTGCGTCGTGGCTTCAATCTGCTCCATTAC
Found at i:17306241 original size:50 final size:51
Alignment explanation
Indices: 17306125--17306242 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 51
17306115 TCCAAGCGTT
* *
17306125 AACGCCAGGGA-GATAAGATTCTGCGTCGTGGCTTCAATCTGCTCCGTTAC
1 AACGCCAAGGACGATAAGATTCTGCGTCGTGGCTTCAATCTGCTCCATTAC
* * ** *
17306175 AACGCCAGGGAC-ATAAGATTC-GCCGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGCCAAGGACGATAAGATTCTG-CGTCGTGGCTTCAATCTGCTCCATTAC
*
17306225 AACGTCAAGG-CGATAAGA
1 AACGCCAAGGACGATAAGA
17306243 CTGATGTCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
49 2 0.03
50 56 0.97
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (51 bp):
AACGCCAAGGACGATAAGATTCTGCGTCGTGGCTTCAATCTGCTCCATTAC
Found at i:17306367 original size:44 final size:43
Alignment explanation
Indices: 17306296--17306417 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 43
17306286 ATCTGCTATT
* * * *
17306296 TTCAACCTACTCTACTGTTGCTTAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTG-TCAGGGAGATAGGACTT-ACAATC
17306340 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-TCAGGGAGATAGGACTTACAATC
17306384 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGTC-AGGGAGATAGG
17306418 GTTGGGGTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 2 0.03
44 67 0.94
45 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGTCAGGGAGATAGGACTTACAATC
Found at i:17306543 original size:88 final size:88
Alignment explanation
Indices: 17306428--17306994 Score: 893
Period size: 88 Copynumber: 6.4 Consensus size: 88
17306418 GTTGGGGTCA
* * *
17306428 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
17306493 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * **
17306516 TCGATCTACTTCGCTGTTGGTGCAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
17306581 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
17306604 TCGATCTGCTTCGCT-TGCGGTGCAGGAAGGAAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
1 TCGATCTGCTTCGCTGT-CGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAA
** *
17306668 CTGAAGGAGGCAAGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * *
17306692 TCGATCTACTTCGCTGTCGGTACAGGAATGCAAGATCTGCAATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
*
17306757 CCAGGGAGGCAAGGCTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
17306780 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAATATCTGCTATTTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
*
17306845 CCAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
17306868 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
*
17306933 CCAGGGAGGCAAGGCTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
17306956 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
17306995 TTATCTTCAC
Statistics
Matches: 437, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
87 1 0.00
88 435 1.00
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:17306591 original size:44 final size:44
Alignment explanation
Indices: 17306450--17306593 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 44
17306440 GCTGTCGGTA
* *
17306450 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
* * * * ** * * * ****
17306494 CAGGGAGGCAAG--GCTGGTGTCTTCGATCTACTTCGCTGTTGGTG
1 CAGGAAGGCAAGATG-TGCTATTTTTAACCTGCTCCGCTG-TAACC
17306538 CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
1 CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
*
17306582 CAGGGAGGCAAG
1 CAGGAAGGCAAG
17306594 GCTGGTGTCT
Statistics
Matches: 67, Mismatches: 29, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 16 0.24
44 34 0.51
45 16 0.24
46 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (44 bp):
CAGGAAGGCAAGATGTGCTATTTTTAACCTGCTCCGCTGTAACC
Found at i:17306943 original size:44 final size:44
Alignment explanation
Indices: 17306721--17306945 Score: 105
Period size: 44 Copynumber: 5.1 Consensus size: 44
17306711 GTACAGGAAT
*
17306721 GCAAGATCTGCAATTTTTAACCTGCTCCACTACAACCCAGGGAG
1 GCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAGGGAG
* * * ** * * * * **** *
17306765 GCAAG-GCTGGTGTTTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
1 GCAAGATCTGCTATTTTTAACCTGCTCCACT-ACAACCCAGGGAG
* * *
17306809 GTAATATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGGAG
1 GCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAGGGAG
* * * ** * * * ****** *
17306853 GCAAG-GCTAG-TGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAG
1 GCAAGATCT-GCTATTTTTAACCTGCTCCACT-ACAACCCAGGGAG
17306897 GCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAGGGAG
1 GCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAGGGAG
17306941 GCAAG
1 GCAAG
17306946 GCTGGTGTTT
Statistics
Matches: 112, Mismatches: 63, Indels: 12
0.60 0.34 0.06
Matches are distributed among these distances:
43 31 0.28
44 49 0.44
45 32 0.29
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (44 bp):
GCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAGGGAG
Found at i:17309217 original size:26 final size:25
Alignment explanation
Indices: 17309183--17309249 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
17309173 AAGAAAATCC
**
17309183 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAGAAT-ATTAGCTCA
*
17309209 AAAAGAATGAAAAAATATTAGCTCA
1 AAAAGAATGAAAGAATATTAGCTCA
17309234 AAAATGAATGTAAAGA
1 AAAA-GAATG-AAAGA
17309250 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.31
26 20 0.57
27 4 0.11
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.22
Consensus pattern (25 bp):
AAAAGAATGAAAGAATATTAGCTCA
Found at i:17310343 original size:47 final size:46
Alignment explanation
Indices: 17310237--17310401 Score: 152
Period size: 47 Copynumber: 3.5 Consensus size: 46
17310227 CAACCTTGTT
* * ** *
17310237 TTGGACAGCAATTATTCATCAAATTGGACAGCAATAATATGTTCTAAA
1 TTGGACAGC-ATTATACATCAAATTGGACAGCTA-AATATACTCAAAA
* * *
17310285 -TGGACAACATTATACATCGAATTAGACAGCTTAAATATACTCAAAA
1 TTGGACAGCATTATACATCAAATTGGACAGC-TAAATATACTCAAAA
* * * * *
17310331 TTGGACAGCATTATACATTAAAATGGACAACATCAATATACTTAAAA
1 TTGGACAGCATTATACATCAAATTGGACAGC-TAAATATACTCAAAA
* *
17310378 TTTGACAGCATTATACATTAAATT
1 TTGGACAGCATTATACATCAAATT
17310402 TATAACAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
46 29 0.30
47 67 0.70
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (46 bp):
TTGGACAGCATTATACATCAAATTGGACAGCTAAATATACTCAAAA
Found at i:17310357 original size:22 final size:23
Alignment explanation
Indices: 17310327--17310399 Score: 87
Period size: 22 Copynumber: 3.1 Consensus size: 23
17310317 AAATATACTC
17310327 AAAATTGGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
*
17310350 AAAA-TGGACAACATCAATATAC-TT
1 AAAATTGGACAGCAT---TATACATT
*
17310374 AAAATTTGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
17310397 AAA
1 AAA
17310400 TTTATAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
22 14 0.33
23 9 0.21
24 6 0.14
25 13 0.31
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (23 bp):
AAAATTGGACAGCATTATACATT
Found at i:17310384 original size:25 final size:24
Alignment explanation
Indices: 17310318--17310384 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
17310308 AGACAGCTTA
* *
17310318 AATATACTCAAAATTGGACAGCAT
1 AATATACTTAAAATTGGACAACAT
17310342 --TATACATTAAAA-TGGACAACAT
1 AATATAC-TTAAAATTGGACAACAT
*
17310364 CAATATACTTAAAATTTGACA
1 -AATATACTTAAAATTGGACA
17310385 GCATTATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 14 0.40
23 5 0.14
24 6 0.17
25 10 0.29
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (24 bp):
AATATACTTAAAATTGGACAACAT
Found at i:17311369 original size:28 final size:27
Alignment explanation
Indices: 17311337--17311435 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
17311327 TTAATAAGTA
*
17311337 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
* *
17311365 CGCACACTTAGTGCTT-TACCCTTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
17311393 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
17311421 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17311436 AATCTCATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 55 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:17318335 original size:3 final size:3
Alignment explanation
Indices: 17318327--17318356 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
17318317 GCGCATGAAT
17318327 ATA ATA ATA ATA ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
17318357 GATACAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17318347 original size:13 final size:13
Alignment explanation
Indices: 17318324--17318355 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
17318314 CATGCGCATG
17318324 AATATAATAATAAT
1 AATA-AATAATAAT
17318338 AATAAATAATAAT
1 AATAAATAATAAT
17318351 AATAA
1 AATAA
17318356 TGATACAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:17318852 original size:19 final size:19
Alignment explanation
Indices: 17318828--17318881 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
17318818 AATCATATAT
17318828 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
17318847 TCTAAGATTACATATTATA
1 TCTAAGATTGCATATCATA
*
17318866 TCCAAGATTGCATATC
1 TCTAAGATTGCATATC
17318882 CTTGAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17319007 original size:19 final size:19
Alignment explanation
Indices: 17318983--17319020 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17318973 AATTTTCGAC
*
17318983 TTTATT-TTGTTATTTTGAG
1 TTTATTATT-TTATTATGAG
17319002 TTTATTATTTTATTATGAG
1 TTTATTATTTTATTATGAG
17319021 CTCGGACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (19 bp):
TTTATTATTTTATTATGAG
Found at i:17320192 original size:19 final size:19
Alignment explanation
Indices: 17320168--17320208 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17320158 AAAATTATGA
17320168 TGTTTTC-CTATTGTTTTCT
1 TGTTTTCTC-ATTGTTTTCT
*
17320187 TGTTTTCTCATTGTTTTGT
1 TGTTTTCTCATTGTTTTCT
17320206 TGT
1 TGT
17320209 CATTTTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.05, C:0.12, G:0.15, T:0.68
Consensus pattern (19 bp):
TGTTTTCTCATTGTTTTCT
Found at i:17322905 original size:14 final size:14
Alignment explanation
Indices: 17322882--17322918 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
17322872 GCTCAACCCG
17322882 TATTAATTTTTT-TA
1 TATT-ATTTTTTATA
17322896 TATTATTTTTTATA
1 TATTATTTTTTATA
17322910 TATT-TTTTT
1 TATTATTTTT
17322919 AAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTATTTTTTATA
Found at i:17322913 original size:11 final size:12
Alignment explanation
Indices: 17322889--17322917 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17322879 CCGTATTAAT
17322889 TTTTTTATATTA
1 TTTTTTATATTA
17322901 TTTTTTATA-TA
1 TTTTTTATATTA
17322912 TTTTTT
1 TTTTTT
17322918 TAAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:17322918 original size:12 final size:12
Alignment explanation
Indices: 17322887--17322919 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17322877 ACCCGTATTA
17322887 ATTTTTTTATAT
1 ATTTTTTTATAT
17322899 -TATTTTTTATAT
1 AT-TTTTTTATAT
17322911 ATTTTTTTA
1 ATTTTTTTA
17322920 AAAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATAT
Found at i:17323916 original size:58 final size:58
Alignment explanation
Indices: 17323844--17323953 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
17323834 CTTTTTATCT
* * *
17323844 AATTTGGTATCTAAATTTGACAATTTTTCTTAAGTTAGTA-CTTAATCTTTTTGGGTTC
1 AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATC-TAATCTTTTTGGGTTC
** * *
17323902 AATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTATCTAATCTTTTT
1 AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATCTAATCTTTTT
17323954 TCTTTTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 43 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.50
Consensus pattern (58 bp):
AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATCTAATCTTTTTGGGTTC
Found at i:17333170 original size:18 final size:18
Alignment explanation
Indices: 17333148--17333188 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
17333138 ATCCACTGCC
17333148 CCTTCTTCATCAATTGCA
1 CCTTCTTCATCAATTGCA
* *
17333166 TCTTCTTCCTCAATTGCA
1 CCTTCTTCATCAATTGCA
17333184 CCTTC
1 CCTTC
17333189 ATTGTTATAT
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:0.17, C:0.37, G:0.05, T:0.41
Consensus pattern (18 bp):
CCTTCTTCATCAATTGCA
Found at i:17335459 original size:26 final size:26
Alignment explanation
Indices: 17335412--17335468 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
17335402 TTTCACTCTT
*
17335412 AAAAACCTAAACCTTAATTCCTAACAA
1 AAAAACCTAAACCCTAATTCCTAA-AA
17335439 AAAAACTCT-AACCCTAA-TCCTAAAA
1 AAAAAC-CTAAACCCTAATTCCTAAAA
17335464 AAAAA
1 AAAAA
17335469 GCTGGGCGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 7 0.25
26 6 0.21
27 13 0.46
28 2 0.07
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (26 bp):
AAAAACCTAAACCCTAATTCCTAAAA
Found at i:17336749 original size:18 final size:20
Alignment explanation
Indices: 17336723--17336762 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
17336713 GTTGAACCAG
17336723 AATT-TTTTTTATTTTT-TA
1 AATTATTTTTTATTTTTATA
17336741 AATTATTTTTTATTTTTATA
1 AATTATTTTTTATTTTTATA
17336761 AA
1 AA
17336763 ATTTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
AATTATTTTTTATTTTTATA
Found at i:17336751 original size:19 final size:19
Alignment explanation
Indices: 17336723--17336767 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
17336713 GTTGAACCAG
17336723 AATTTTTTTTATTTTT-TA
1 AATTTTTTTTATTTTTATA
17336741 AATTATTTTTTATTTTTATAA
1 AATT-TTTTTTATTTTTAT-A
17336762 AATTTT
1 AATTTT
17336768 AATTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.17
19 12 0.50
20 3 0.12
21 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTTTTATTTTTATA
Found at i:17336764 original size:21 final size:18
Alignment explanation
Indices: 17336723--17336781 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
17336713 GTTGAACCAG
17336723 AATTTTTTTTATTTTTTA
1 AATTTTTTTTATTTTTTA
17336741 AATTATTTTTTATTTTTATAA
1 AATT-TTTTTTATTTTT-T-A
**
17336762 AATTTTAATTATTTATTTA
1 AATTTTTTTTATTT-TTTA
17336781 A
1 A
17336782 TTGGATTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 4 0.11
19 14 0.40
20 10 0.29
21 7 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTTTTTTTATTTTTTA
Found at i:17336766 original size:18 final size:18
Alignment explanation
Indices: 17336727--17336781 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 18
17336717 AACCAGAATT
17336727 TTTTTTATTTTTTAAATTA
1 TTTTTTATTTTTTAAA-TA
17336746 TTTTTTATTTTTATAAA-A
1 TTTTTTATTTTT-TAAATA
17336764 TTTTAATTATTTATTTAA
1 TTTT--TTATTT-TTTAA
17336782 TTGGATTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 13 0.41
21 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATTTTTTAAATA
Found at i:17347196 original size:5 final size:5
Alignment explanation
Indices: 17347188--17347213 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17347178 GAGATGGAAT
17347188 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
17347214 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:17347213 original size:26 final size:26
Alignment explanation
Indices: 17347162--17347213 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
17347152 TGAAGTTTTC
* * *
17347162 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
17347188 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
17347214 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:17347518 original size:30 final size:31
Alignment explanation
Indices: 17347479--17347538 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17347469 AGAGGTGAGA
*
17347479 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
17347510 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
17347539 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:17347766 original size:9 final size:9
Alignment explanation
Indices: 17347752--17347788 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17347742 TATAGTTTGA
17347752 TATTCGAAT
1 TATTCGAAT
17347761 TATTCGAAT
1 TATTCGAAT
*
17347770 TATTCGAGT
1 TATTCGAAT
17347779 TATTCGAAT
1 TATTCGAAT
17347788 T
1 T
17347789 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:17347859 original size:9 final size:9
Alignment explanation
Indices: 17347832--17347874 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
17347822 AAACAAAAGT
*
17347832 TCGAGTTAAT
1 TCGA-TTAAC
*
17347842 TCGAATAAC
1 TCGATTAAC
17347851 TCGATTAAC
1 TCGATTAAC
*
17347860 TCGAATAAC
1 TCGATTAAC
17347869 TCGATT
1 TCGATT
17347875 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:17347863 original size:18 final size:18
Alignment explanation
Indices: 17347832--17347874 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
17347822 AAACAAAAGT
*
17347832 TCGAGTTAATTCGAATAAC
1 TCGA-TTAACTCGAATAAC
17347851 TCGATTAACTCGAATAAC
1 TCGATTAACTCGAATAAC
17347869 TCGATT
1 TCGATT
17347875 CGTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (18 bp):
TCGATTAACTCGAATAAC
Found at i:17349820 original size:38 final size:37
Alignment explanation
Indices: 17349766--17349851 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
17349756 ACCCTTATTG
17349766 AAGGGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAA
1 AAGGGTTGGGAAAGACC-AGTCTAAGG-CAACCTTTAAA
* *
17349804 AAGGGTTGGGATAGACCAGTCTAAGGTAACCTTTAAA
1 AAGGGTTGGGAAAGACCAGTCTAAGGCAACCTTTAAA
* *
17349841 AAAGATTGGGA
1 AAGGGTTGGGA
17349852 CAGAATTGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 23 0.53
38 20 0.47
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (37 bp):
AAGGGTTGGGAAAGACCAGTCTAAGGCAACCTTTAAA
Found at i:17352806 original size:37 final size:36
Alignment explanation
Indices: 17352714--17353592 Score: 716
Period size: 37 Copynumber: 23.9 Consensus size: 36
17352704 TACAAGAATC
* * *
17352714 TCTAAGGCAACC-TTAAATAGGTTGGTATAGATCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA-CCTG
* * * **
17352750 TCTAAGGCAACATTTAAAAAAGTTGGGATATACCAA
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
* *
17352786 TCTAAGGCAACCTTTAAAAAAGTTGGGATAGACTTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGAC-CTG
*
17352823 TCTAAGGCAACCTTTAAAATTATTGAAGGGTTGGGAAAGACCTAG
1 TCTAAGGCAACCTTT--AA--A---AA-GGTTGGGATAGACCT-G
*
17352868 TC-AAGGCCAACCTTTAAAAAGGGTTGGGATTGACCTAG
1 TCTAAGG-CAACCTTTAAAAA-GGTTGGGATAGACCT-G
* *
17352906 TC-AAGGCCAACCTTTGAAAAAGGTTGTGATAGACCTA
1 TCTAAGG-CAACCTTT-AAAAAGGTTGGGATAGACCTG
*
17352943 TCTAAGGCAACC-TTAACAAGGTTGGGATAGA-CTAG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT-G
** * *
17352978 TCTAAGATAACCTTTTAAAAAAGTTGGGATAGACCTTA
1 TCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACC-TG
* * *
17353016 TCTAAGGCAACATTTAAAAAAAGTTGGGATAGACATTG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGAC-CTG
* *
17353054 TCTAAGGCAACCTTTAAAAAAGATTGGGATAGA-ATCG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCT-G
* * *
17353091 TCTAAGGCAACC-TTAAATAGGTTGGTATAAACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC-TG
*
17353127 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCAG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCTG
* * *
17353164 TCTAAGGCAACCTTTTAAAAATGTTGGGATAGAGCAG
1 TCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACCTG
* * * *
17353201 TCTAAGGTAACATTTTAAAAATGTTAGGATAGACCTTG
1 TCTAAGGCAAC-CTTTAAAAAGGTTGGGATAGACC-TG
*
17353239 TCTAAGGCAA-CTTTAAAAAAAGGTTGGGATAGACTTG
1 TCTAAGGCAACCTTT--AAAAAGGTTGGGATAGACCTG
* * * *
17353276 TGTAAGGAAACCTTCAAAAAAGGTTGGGATAGACTTG
1 TCTAAGGCAACCTT-TAAAAAGGTTGGGATAGACCTG
* *
17353313 TCTAAAGCAACC-TTAAAAAGGTTGGGATAGA-TTAG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT-G
*
17353348 TCTAAGGTAACC-TTAAAAAGGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC-TG
* * *
17353384 TCTAAGGTAACTTTTAGAAAAGGTTGGGATTGACCTG
1 TCTAAGGCAACCTTTA-AAAAGGTTGGGATAGACCTG
* * *
17353421 TCTAAGACAACC-TTAAAAATGTTGGGATAGACCCG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
* * *
17353456 TTTAAAGCAACC-TTAAAAAGGTTGGGATA-AGCCTTT
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA-CC-TG
* * * ** *
17353492 TCCAAGGCAA-CTTCAAAAAAGTTGAAATAAACTCT-
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGAC-CTG
* *
17353527 TCTAAGGCAACC-TTAAAAAGGTTAAGG-TAAACCTG
1 TCTAAGGCAACCTTTAAAAAGGTT-GGGATAGACCTG
* * *
17353562 TCTAAGGAAAAC-TTAAAAAGGTTGGAATAGA
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA
17353593 TCTTTGTCTC
Statistics
Matches: 695, Mismatches: 101, Indels: 95
0.78 0.11 0.11
Matches are distributed among these distances:
34 8 0.01
35 177 0.25
36 103 0.15
37 192 0.28
38 174 0.25
39 8 0.01
41 2 0.00
43 2 0.00
44 7 0.01
45 22 0.03
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (36 bp):
TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
Found at i:17352817 original size:73 final size:71
Alignment explanation
Indices: 17352714--17353592 Score: 745
Period size: 73 Copynumber: 11.9 Consensus size: 71
17352704 TACAAGAATC
* * *
17352714 TCTAAGGCAACCTTAAATAGGTTGGTATAGATCTTGTCTAAGGCAACATTTAAAAAAGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
* **
17352779 ATACCAA
65 AGACCTG
*
17352786 TCTAAGGCAACCTTTAAAAAAGTTGGGATAGACTTTGTCTAAGGCAACCTTTAAAATTATTGAAG
1 TCTAAGGCAACC-TTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTTT-AAA--A---AA-
*
17352851 GGTTGGGAAAGACCTAG
57 -GTTGGGATAGACCT-G
* * *
17352868 TC-AAGGCCAACCTTTAAAAAGGGTTGGGATTGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTT
1 TCTAAGG-CAACC-TTAAAAA-GGTTGGGATAGA-CTTGTCTAAGG-CAACCTTT-AAAAAAGTT
* *
17352931 GTGATAGACCTA
60 GGGATAGACCTG
* * **
17352943 TCTAAGGCAACCTTAACAAGGTTGGGATAGACTAGTCTAAGATAACCTTTTAAAAAAGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC-TTTAAAAAAGTTGGGAT
*
17353008 AGACCTTA
65 AGACC-TG
* *
17353016 TCTAAGGCAACATTTAAAAAAAGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAAGATTGG
1 TCTAAGGCAAC-CTT-AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTTTAAAAAAG-TTGG
*
17353081 GATAGA-ATCG
62 GATAGACCT-G
* * *
17353091 TCTAAGGCAACCTTAAATAGGTTGGTATAAACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA-GTTGGGA
*
17353156 TAGACCAG
64 TAGACCTG
* * * * * *
17353164 TCTAAGGCAACCTTTTAAAAATGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAATGTTAG
1 TCTAAGGCAACC--TTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAAC-CTTTAAAAAAGTTGG
17353228 GATAGACCTTG
62 GATAGACC-TG
* * * *
17353239 TCTAAGGCAACTTTAAAAAAAGGTTGGGATAGACTTGTGTAAGGAAACCTTCAAAAAAGGTTGGG
1 TCTAAGGCAACCTT--AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA-GTTGGG
*
17353304 ATAGACTTG
63 ATAGACCTG
* * *
17353313 TCTAAAGCAACCTTAAAAAGGTTGGGATAGA-TTAGTCTAAGGTAACC-TTAAAAAGGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTT-GTCTAAGGCAACCTTTAAAAAAGTTGGGAT
17353376 AGACCTTG
65 AGACC-TG
* * * * * *
17353384 TCTAAGGTAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAACC-TTAAAAATGTTGGGA
1 TCTAAGGCAAC-CTTA-AAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGA
*
17353448 TAGACCCG
64 TAGACCTG
* * * * * * **
17353456 TTTAAAGCAACCTTAAAAAGGTTGGGATAAGCCTTTTCCAAGGCAA-CTTCAAAAAAGTTGAAAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGAT-AGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
*
17353520 AAACTCT-
65 AGAC-CTG
* * * * * * *
17353527 TCTAAGGCAACCTTAAAAAGGTTAAGG-TAAACCTGTCTAAGGAAAAC-TTAAAAAGGTTGGAAT
1 TCTAAGGCAACCTTAAAAAGGTT-GGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
17353590 AGA
65 AGA
17353593 TCTTTGTCTC
Statistics
Matches: 659, Mismatches: 103, Indels: 92
0.77 0.12 0.11
Matches are distributed among these distances:
70 52 0.08
71 71 0.11
72 83 0.13
73 171 0.26
74 62 0.09
75 117 0.18
76 39 0.06
78 1 0.00
79 2 0.00
81 16 0.02
82 19 0.03
83 25 0.04
84 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (71 bp):
TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGATA
GACCTG
Found at i:17352903 original size:38 final size:37
Alignment explanation
Indices: 17352851--17353592 Score: 631
Period size: 35 Copynumber: 20.3 Consensus size: 37
17352841 ATTATTGAAG
*
17352851 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGG-CAACCTTTAAAAA
*
17352888 GGGTTGGGATTGACCTAGTC-AAGGCCAACCTTTGAAAAA
1 -GGTTGGGATAGACCTAGTCTAAGG-CAACCTTT-AAAAA
* *
17352927 GGTTGTGATAGACCTA-TCTAAGGCAACC-TTAACAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
**
17352962 GGTTGGGATAGA-CTAGTCTAAGATAACCTTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACC-TTTAAAAA
* *
17352999 AGTTGGGATAGACCTTA-TCTAAGGCAACATTTAAAAAA
1 GGTTGGGATAGACC-TAGTCTAAGGCAACCTTT-AAAAA
* * *
17353037 AGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT-AAAAA
* * * *
17353075 GATTGGGATAGA-ATCGTCTAAGGCAACC-TTAAATA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
17353110 GGTTGGTATAAACCTTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT-AAAAA
17353148 GGTTGGGATAGACC-AGTCTAAGGCAACCTTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACC-TTTAAAAA
* * * *
17353185 TGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAAC-CTTTAAAAA
* * *
17353222 TGTTAGGATAGACCTTGTCTAAGGCAA-CTTTAAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT--AAAAA
* * * *
17353260 GGTTGGGATAGA-CTTGTGTAAGGAAACCTTCAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTT-TAAAAA
* *
17353297 GGTTGGGATAGA-CTTGTCTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* *
17353332 GGTTGGGATAGA-TTAGTCTAAGGTAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
17353367 GGTTGGGATAGACCTTGTCTAAGGTAACTTTTAGAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTA-AAAA
* *
17353405 GGTTGGGATTGACCT-GTCTAAGACAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * * *
17353440 TGTTGGGATAGACC-CGTTTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
** * *
17353475 GGTTGGGATA-AGCCTTTTCCAAGGCAA-CTTCAAAAA
1 GGTTGGGATAGA-CCTAGTCTAAGGCAACCTTTAAAAA
* ** *
17353511 AGTTGAAATAAACTCT--TCTAAGGCAACC-TTAAAAA
1 GGTTGGGATAGAC-CTAGTCTAAGGCAACCTTTAAAAA
* * * *
17353546 GGTTAAGG-TAAACCT-GTCTAAGGAAAAC-TTAAAAA
1 GGTT-GGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
*
17353581 GGTTGGAATAGA
1 GGTTGGGATAGA
17353593 TCTTTGTCTC
Statistics
Matches: 588, Mismatches: 84, Indels: 67
0.80 0.11 0.09
Matches are distributed among these distances:
34 7 0.01
35 178 0.30
36 60 0.10
37 165 0.28
38 171 0.29
39 7 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
Found at i:17353920 original size:75 final size:75
Alignment explanation
Indices: 17353782--17353932 Score: 203
Period size: 75 Copynumber: 2.0 Consensus size: 75
17353772 TAGTAATTTA
* * * * *
17353782 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCGAACATGTTGTCGACCTATTTCACATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
*
17353847 ATCCAAAAAT
66 ATCAAAAAAT
* * * * *
17353857 TATACAAAATCCTAATAGAAGCAGTTAACACGTTGCAAACATGATGCCAACTTGTTTCCCATGAA
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
17353922 ATCAAAAAAT
66 ATCAAAAAAT
17353932 T
1 T
17353933 TTGGGACAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
ATCAAAAAAT
Found at i:17354908 original size:10 final size:10
Alignment explanation
Indices: 17354893--17354918 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17354883 ATTGATGTCA
17354893 AAATAAATAT
1 AAATAAATAT
17354903 AAATAAATAT
1 AAATAAATAT
17354913 AAATAA
1 AAATAA
17354919 TACTCATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAAATAT
Found at i:17357504 original size:18 final size:19
Alignment explanation
Indices: 17357481--17357521 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
17357471 ACTTAATCAT
17357481 AGAAAGAATAAGTACCAG-
1 AGAAAGAATAAGTACCAGC
17357499 AGAAAGAATAAGTACCAGC
1 AGAAAGAATAAGTACCAGC
17357518 AGAA
1 AGAA
17357522 GGTAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.56, C:0.12, G:0.22, T:0.10
Consensus pattern (19 bp):
AGAAAGAATAAGTACCAGC
Found at i:17358103 original size:8 final size:8
Alignment explanation
Indices: 17358090--17358157 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
17358080 TTCCAGATTT
17358090 TATAAATA
1 TATAAATA
17358098 TATAAATA
1 TATAAATA
*
17358106 TAT--ATG
1 TATAAATA
*
17358112 TAAAAATA
1 TATAAATA
17358120 TATAAATA
1 TATAAATA
*
17358128 TATAAAAGCA
1 TAT-AAA-TA
* *
17358138 TATAATTT
1 TATAAATA
17358146 TATAAATA
1 TATAAATA
17358154 TATA
1 TATA
17358158 TTATAAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
6 4 0.09
8 33 0.72
9 5 0.11
10 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (8 bp):
TATAAATA
Found at i:17358133 original size:18 final size:18
Alignment explanation
Indices: 17358093--17358158 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
17358083 CAGATTTTAT
17358093 AAATATATAAATATATATGTAA
1 AAATATAT-AA-ATATA--TAA
17358115 AAATATATAAATATATAA
1 AAATATATAAATATATAA
** * *
17358133 AAGCATATAATTTTATAA
1 AAATATATAAATATATAA
*
17358151 ATATATAT
1 AAATATAT
17358159 TATAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 22 0.59
20 5 0.14
21 2 0.05
22 8 0.22
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATATATAAATATATAA
Found at i:17358194 original size:22 final size:22
Alignment explanation
Indices: 17358163--17358210 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
17358153 ATATATTATA
*
17358163 AAAAATTATATATATAAGTTTAC
1 AAAAATTATAT-TATAAATTTAC
*
17358186 AAAAA-TATATTATAAATTTAG
1 AAAAATTATATTATAAATTTAC
17358207 AAAA
1 AAAA
17358211 TATGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 5 0.22
23 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAAATTATATTATAAATTTAC
Found at i:17358205 original size:21 final size:23
Alignment explanation
Indices: 17358145--17358210 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
17358135 GCATATAATT
* *
17358145 TTATAAATATATATTATA-AAAAA
1 TTATATATATAAATT-TACAAAAA
*
17358168 TTATATATATAAGTTTACAAAAA
1 TTATATATATAAATTTACAAAAA
*
17358191 -TATAT-TATAAATTTAGAAAA
1 TTATATATATAAATTTACAAAA
17358211 TATGTATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.35
22 7 0.19
23 17 0.46
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (23 bp):
TTATATATATAAATTTACAAAAA
Found at i:17363354 original size:86 final size:87
Alignment explanation
Indices: 17363201--17363359 Score: 214
Period size: 86 Copynumber: 1.8 Consensus size: 87
17363191 TTTTTTGGCT
* * * * * * *
17363201 AACCTTTATACAAAGAGTTGGCTAAAGTGTATGTTGGCAAGTCTATCCCAATACTTAAGAAAGTG
1 AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAATG
17363266 TTGCCTTAAGTATGCATATCCC
66 TTGCCTTAAGTATGCATATCCC
*
17363288 AACCCTTATACAAAAAGTTGACCAAAG-GTATGTCGGCAAGTTTATCCCAACACTT-AGAAAAAT
1 AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAG-AAAAT
*
17363351 GTTGTCTTA
65 GTTGCCTTA
17363360 GGACTAGACA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 2 0.03
86 37 0.60
87 23 0.37
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (87 bp):
AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAATG
TTGCCTTAAGTATGCATATCCC
Found at i:17363607 original size:140 final size:140
Alignment explanation
Indices: 17363355--17363770 Score: 617
Period size: 140 Copynumber: 3.0 Consensus size: 140
17363345 AAAAATGTTG
*
17363355 TCTTAGGACTAGACAAAGCCAACTCTTATTTAA-CTGTTGCCTTAGGCATGCATACCCCAACCCT
1 TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGC-GTTGCCTTAGGCATGCATATCCCAACCCT
* * *
17363419 TATACAAAGTGTTGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCACCC
65 TATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
17363484 CAAAAGTGTCA
130 CAAAAGTGTCA
* * *
17363495 TCTTAGGACTACACAAAAGCC-ACTCTTATTTAAGCGTTGCCTAAGGCATACATATCCCAACCCT
1 TCTTAGGACTAGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCT
* * *
17363559 TATACAAAGAGTTGGTCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
65 TATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
*
17363624 CAAAAGTGTCG
130 CAAAAGTGTCA
* * *
17363635 TCTTAGGACTAGACAAAGCCAACTTTTATTTAAGTGTTGCCTTAGGCATGCATATCTCAACCCTT
1 TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
* * **
17363700 ATACAAAGAGTTGACCAAAGCGCATGTTGATTAGTCTATCCCAACACTTAGG-AA--GTCGCCCC
66 ATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCC
17363762 AAAAGTGTC
131 AAAAGTGTC
17363771 GTATTAAGAC
Statistics
Matches: 249, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
137 17 0.07
139 8 0.03
140 217 0.87
141 7 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (140 bp):
TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
ATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCC
AAAAGTGTCA
Found at i:17364238 original size:22 final size:22
Alignment explanation
Indices: 17364213--17364255 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17364203 ATAAGCTCCT
*
17364213 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
*
17364235 TTACATTTAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
17364256 GAATTAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:17364515 original size:51 final size:51
Alignment explanation
Indices: 17364450--17364552 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
17364440 CTTGGTATGA
*
17364450 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTTTATATGTTGTAG
1 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
* *
17364501 ATTTTATGACTTTATCTTTTATATGATAGTTTTATATTCTATATGTTGTAG
1 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
17364552 A
1 A
17364553 AATAGTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (51 bp):
ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
Found at i:17364630 original size:18 final size:18
Alignment explanation
Indices: 17364607--17364645 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17364597 TTAATTCTGT
*
17364607 ATAAT-AGCATTATTTAAA
1 ATAATAAGCA-TAATTAAA
17364625 ATAATAAGCATAATTAAA
1 ATAATAAGCATAATTAAA
17364643 ATA
1 ATA
17364646 TATCAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATAAGCATAATTAAA
Found at i:17370455 original size:26 final size:26
Alignment explanation
Indices: 17370407--17370475 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
17370397 CCTGTTATAT
*
17370407 GGCTTTTCGTGAGCTTTTCGATTAAA
1 GGCTTTTCGTGAGCTTCTCGATTAAA
* *
17370433 GGCTTTTTGTGAGCTTC-CTGATTAAT
1 GGCTTTTCGTGAGCTTCTC-GATTAAA
*
17370459 GGCTCTTCG-GAGCTTCT
1 GGCTTTTCGTGAGCTTCT
17370476 TGAAATGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 8 0.22
26 28 0.78
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (26 bp):
GGCTTTTCGTGAGCTTCTCGATTAAA
Found at i:17372690 original size:61 final size:60
Alignment explanation
Indices: 17372619--17372782 Score: 181
Period size: 61 Copynumber: 2.7 Consensus size: 60
17372609 TTTTTAATTG
** *
17372619 GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAATGTTTAGGGCTAAATAT-ATT
1 GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAAT-TGATT
* * * *
17372679 GAATTTTTTAGAATCAGAACTAAAATGACAAGTTTTGTAAACATTAAGGGCTAAATTGGTT
1 GAA-TTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAATTGATT
* * * *
17372740 GAATTTTTAGATTTAG-ACCAAATTGATAGAA-TGTGTAAACATT
1 GAATTTTTAGAATTAGAACTAAATTGACA-AATTTTGTAAACATT
17372783 GGAGGCTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 20 0.23
60 16 0.18
61 51 0.59
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (60 bp):
GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAATTGATT
Found at i:17380022 original size:21 final size:20
Alignment explanation
Indices: 17379990--17380030 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
17379980 ATTAATGCTC
*
17379990 TAAAATTTTAAAAAAAAAAT
1 TAAAATTATAAAAAAAAAAT
*
17380010 TAAATATTATAAAAAATAAAT
1 TAAA-ATTATAAAAAAAAAAT
17380031 GTCTTAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATTATAAAAAAAAAAT
Found at i:17382936 original size:20 final size:20
Alignment explanation
Indices: 17382909--17383020 Score: 93
Period size: 20 Copynumber: 5.5 Consensus size: 20
17382899 AAAATGTATA
17382909 TGATTGCACTTCAGTGCCCC
1 TGATTGCACTTCAGTGCCCC
* *
17382929 TAATTGCACATTC-GTGCCCT
1 TGATTGCAC-TTCAGTGCCCC
* *
17382949 TGATTGTAC-TCTGGTGCCCC
1 TGATTGCACTTC-AGTGCCCC
* * *
17382969 TGATTGCACTCCGGTGCCCT
1 TGATTGCACTTCAGTGCCCC
* *
17382989 TGATTGCACTTTAGTTCCCTC
1 TGATTGCACTTCAGTGCCC-C
*
17383010 TAATTGCACTT
1 TGATTGCACTT
17383021 TTGTGCCCTT
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.03
20 57 0.78
21 14 0.19
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (20 bp):
TGATTGCACTTCAGTGCCCC
Found at i:17382966 original size:40 final size:39
Alignment explanation
Indices: 17382909--17383041 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
17382899 AAAATGTATA
17382909 TGATTGCACT-TCAGTGCCCCTAATTGCACATTCGTGCCCT
1 TGATTGCACTCT-AGTGCCCCTAATTGCAC-TTCGTGCCCT
* * * *
17382949 TGATTGTACTCTGGTGCCCCTGATTGCACTCCGGTGCCCT
1 TGATTGCACTCTAGTGCCCCTAATTGCACTTC-GTGCCCT
* * *
17382989 TGATTGCACTTTAGTTCCCTCTAATTGCACTTTTGTGCCCT
1 TGATTGCACTCTAGTGCCC-CTAATTGCAC-TTCGTGCCCT
*
17383030 TTATTTGCACTC
1 TGA-TTGCACTC
17383042 CCGTGCCTCT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.03
40 46 0.61
41 19 0.25
42 8 0.11
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (39 bp):
TGATTGCACTCTAGTGCCCCTAATTGCACTTCGTGCCCT
Found at i:17383017 original size:21 final size:21
Alignment explanation
Indices: 17382911--17383040 Score: 88
Period size: 20 Copynumber: 6.4 Consensus size: 21
17382901 AATGTATATG
*
17382911 ATTGCACTTCAGTGCCC-CTA
1 ATTGCACTTTAGTGCCCTCTA
* * *
17382931 ATTGCACATTCGTGCCCT-TG
1 ATTGCACTTTAGTGCCCTCTA
* * * *
17382951 ATTGTACTCTGGTGCCC-CTG
1 ATTGCACTTTAGTGCCCTCTA
*** *
17382971 ATTGCACTCCGGTGCCCT-TG
1 ATTGCACTTTAGTGCCCTCTA
*
17382991 ATTGCACTTTAGTTCCCTCTA
1 ATTGCACTTTAGTGCCCTCTA
* *
17383012 ATTGCACTTTTGTGCCCTTTA
1 ATTGCACTTTAGTGCCCTCTA
*
17383033 TTTGCACT
1 ATTGCACT
17383041 CCCGTGCCTC
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
20 61 0.70
21 26 0.30
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (21 bp):
ATTGCACTTTAGTGCCCTCTA
Found at i:17386745 original size:4 final size:4
Alignment explanation
Indices: 17386736--17386771 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
17386726 GACAACTCAT
*
17386736 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAT TAAC
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC
17386772 ATGTGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAC
Found at i:17387826 original size:51 final size:51
Alignment explanation
Indices: 17387767--17387887 Score: 174
Period size: 51 Copynumber: 2.4 Consensus size: 51
17387757 ATACCCTTAA
* *
17387767 TAATTTATAAAAGTAAT-TATTTAAATGGTAATTTCACA-TTTTCTAATAT
1 TAATTTTTATAAGTAATATATTTAAATGGTAATTTCACATTTTTCTAATAT
*
17387816 TAATTTTTATAAGTAATAATATTTAAATGGTAATTTCACATTTTTTTAATAT
1 TAATTTTTATAAGTAAT-ATATTTAAATGGTAATTTCACATTTTTCTAATAT
17387868 TAATTTTTTGATAAGTAATA
1 TAA-TTTTT-ATAAGTAATA
17387888 ATAATACTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
49 15 0.23
51 21 0.33
52 13 0.20
53 6 0.09
54 9 0.14
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (51 bp):
TAATTTTTATAAGTAATATATTTAAATGGTAATTTCACATTTTTCTAATAT
Found at i:17388740 original size:18 final size:19
Alignment explanation
Indices: 17388701--17388740 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17388691 GCTTAATTAA
*
17388701 TTTTTAATATTTTTTAATT
1 TTTTTAATATTGTTTAATT
17388720 TTTTATAATATTGTTT-ATT
1 TTTT-TAATATTGTTTAATT
17388739 TT
1 TT
17388741 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTAATATTGTTTAATT
Found at i:17395034 original size:30 final size:31
Alignment explanation
Indices: 17394966--17395034 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
17394956 AATTAAAAAG
17394966 ATAAAAATTAAATCCTCTTACTTTTCTGATT
1 ATAAAAATTAAATCCTCTTACTTTTCTGATT
17394997 ATAAAAATTAAATCCTCTTACTTTTCTGATT
1 ATAAAAATTAAATCCTCTTACTTTTCTGATT
17395028 -TAAAAAT
1 ATAAAAAT
17395035 ATCATTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (31 bp):
ATAAAAATTAAATCCTCTTACTTTTCTGATT
Found at i:17397936 original size:49 final size:49
Alignment explanation
Indices: 17397864--17397962 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
17397854 ATATCCTTGT
17397864 ACCCTTGTCCAAAAATGTGCTGGACACGGGTGGTTCAAGAAAAACGAAA
1 ACCCTTGTCCAAAAATGTGCTGGACACGGGTGGTTCAAGAAAAACGAAA
17397913 ACCCTTGTCCAAAAATGTGCTGGACACGGGTGGTTCAAGAAAAACGAAA
1 ACCCTTGTCCAAAAATGTGCTGGACACGGGTGGTTCAAGAAAAACGAAA
17397962 A
1 A
17397963 GTCGGAACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.18
Consensus pattern (49 bp):
ACCCTTGTCCAAAAATGTGCTGGACACGGGTGGTTCAAGAAAAACGAAA
Found at i:17405092 original size:5 final size:5
Alignment explanation
Indices: 17405082--17405144 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
17405072 AAGCAAAACG
* *
17405082 AAAGA AAAGAA AAAGA AAACA AAAG- GAAGA AATA-A CAAAGA AAAGA
1 AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA AA-AGA -AAAGA AAAGA
*
17405128 AAAGA ATA-A AAAGA AAA
1 AAAGA AAAGA AAAGA AAA
17405145 CAAGAACGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
4 6 0.13
5 31 0.67
6 9 0.20
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:17405113 original size:25 final size:24
Alignment explanation
Indices: 17405083--17405144 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
17405073 AGCAAAACGA
17405083 AAGAAAAGAAAAAGAAAACAAAAGG
1 AAGAAAAGAAAAAGAAAACAAAA-G
* *
17405108 AAGAAATA-ACAAAGAAAAGAAAAG
1 AAGAAA-AGAAAAAGAAAACAAAAG
*
17405132 AATAAAAAGAAAA
1 AA-GAAAAGAAAA
17405145 CAAGAACGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 4 0.13
25 25 0.83
26 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (24 bp):
AAGAAAAGAAAAAGAAAACAAAAG
Found at i:17405694 original size:133 final size:134
Alignment explanation
Indices: 17405547--17405923 Score: 462
Period size: 133 Copynumber: 2.8 Consensus size: 134
17405537 GCTTTTTCTT
*
17405547 AGAAACGCCGGTAAAGATAACGAATTTGAGGAAAAAATTTGAGCAAAACAGTACCGTTTTGTTGT
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTGT
17405612 TTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATT-GAAT-TAGCAGCGTT
65 TTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCAGCGTT
17405675 -TTCAGG
130 ATT--GG
* **
17405681 -GAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTG-GACAAAACGCTACCATTTTACTG
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAG-CAAAACG-TACCGTTTTGTTG
* * * * * * * **
17405744 CTTCATTTTATTTCTTTAATGGCGCATTGTAAAAGACG-CTGCAAATATTGGGATATAGTGGCGT
64 TTTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCAGCGT
17405808 TATTGG
129 TATTGG
* *
17405814 AGAAACGCCGGTAAAGATATCTAATTTGAGGAAAAATTTTGAGCAAAACGGTACCGTTTTGTTGT
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTGT
* * * *
17405879 TTCCTTTT-TATGCTTTAGTGGCGAAATGTTAAAAAACGCCGGAAA
65 TTCATTTTAT-TTCTTTAGTGGCGCATTG-TAAAAAACGCCGGAAA
17405924 CGGTTCAGAT
Statistics
Matches: 205, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
132 10 0.05
133 96 0.47
134 83 0.40
135 12 0.06
136 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (134 bp):
AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAACGTACCGTTTTGTTGTT
TCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCAGCGTTA
TTGG
Found at i:17409791 original size:522 final size:510
Alignment explanation
Indices: 17408819--17409849 Score: 1681
Period size: 522 Copynumber: 2.0 Consensus size: 510
17408809 CATCTTAAGC
*
17408819 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTTAT
1 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTGAT
** * * * *
17408884 TTCTTATTGGTTTAGGGTTTTCGGTGTGTTATCTGTGTTTATGGTTTTCGGTGTGTTCGACCGTT
66 TTCTTATTGGTTTAGGGTACTAGGTATATTATCTGTGTTTAGGGTTTTCGGTGTGTTCGACCGTT
17408949 TTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTTGTGAATGGTTTA
131 TTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTTGTGAATGGTTTA
17409014 ATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATTGC
196 ATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATTGC
17409079 TCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTTGT
261 TCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTTGT
* * *
17409144 TGAACTCATTTGGTACTGTTTTTAAAGTATGGAACTTTGATGTCTAGTGTAGGGTTTAATTTATT
326 TGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTGATGTCTACTGTAAGGTTTAATTTATT
17409209 AGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAAGTAATGAAATGGATT
391 AGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAAGTAATGAAATGGATT
* *
17409274 TTTAAGTTGAATTTTATTAAGCAATGTTGTTTTTTAGTATGATTTTTAAGTTCGG
456 TTTAAGTTGAATTTTATTAAGCAATGTTATTTTTTAGTATGATTTCTAAGTTCGG
* *
17409329 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTTAATTTTGATTTTGCT
1 TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTGAT
*
17409394 TTCTTATTGG-TT-GGTGATACTAGGATTAAAAAAAAATATTCTCTGTGTTTAGGGTTTTCGGTG
66 TTCTTATTGGTTTAGG-G-TACTAGG--T--------ATATTATCTGTGTTTAGGGTTTTCGGTG
*
17409457 TGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTT
119 TGTTCGACCGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTT
* *
17409522 GTGAATGGTTTAATTTGTTAGGAACTGATTTTAAGTTTTGTTTTTTTTTCTCCAGTTTTTGGTCA
184 GTGAATGGTTTAATTTGTTAGGAACTGATTTTAACTTATG--TTTTTTTCTCCAGTTTTTGGTCA
* *
17409587 ATCCATTTCATTGCT-TTCATTTTAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTG
247 ATCCATTTCATTGCTCGT-ATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTG
* *
17409651 TTACTGTTTATTTGTTGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTTATGTCTACTTT
311 TTACTGTTTATTTGTTGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTGATGTCTACTGT
* *
17409716 AAGGTTTAATTTATTAGTTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAG
376 AAGGTTTAATTTATTAGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAA
*
17409781 GTAATGAAATGGATTTTTAAGTTGAATTTTATTAAGCCATGTTATTTTTTAGTATGATTTCTAAG
441 GTAATGAAATGGATTTTTAAGTTGAATTTTATTAAGCAATGTTATTTTTTAGTATGATTTCTAAG
17409846 TTCG
506 TTCG
17409850 ATATATATAC
Statistics
Matches: 481, Mismatches: 25, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
508 2 0.00
509 3 0.01
510 76 0.16
512 1 0.00
520 126 0.26
521 1 0.00
522 272 0.57
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (510 bp):
TTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTAAATTTTGATTTTGAT
TTCTTATTGGTTTAGGGTACTAGGTATATTATCTGTGTTTAGGGTTTTCGGTGTGTTCGACCGTT
TTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTTGTGAATGGTTTA
ATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATTGC
TCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTTGT
TGAACTCATTTGGTACTGATTTTAAAGTATGGAACTTTGATGTCTACTGTAAGGTTTAATTTATT
AGGTTATAAAACTGTTCTGTTAAATGTGGTGCAGCCGATTACATTTCCAAGTAATGAAATGGATT
TTTAAGTTGAATTTTATTAAGCAATGTTATTTTTTAGTATGATTTCTAAGTTCGG
Found at i:17410283 original size:39 final size:39
Alignment explanation
Indices: 17410240--17410320 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
17410230 CCAAAAACGC
*
17410240 AATATATTTCGGTTTGCAATACTATATCGTAAATATTAA
1 AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
*
17410279 AATATATTTCAGTTTGCAATACTATATCGTAAATATTTA
1 AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
17410318 AAT
1 AAT
17410321 TTATATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (39 bp):
AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
Found at i:17410580 original size:17 final size:17
Alignment explanation
Indices: 17410560--17410609 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
17410550 TTAATATCTA
17410560 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
17410577 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
17410591 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
17410607 TAT
1 TAT
17410610 TTGTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
16 2 0.07
17 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:17410596 original size:13 final size:13
Alignment explanation
Indices: 17410578--17410605 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17410568 TTCTAAATTT
17410578 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
17410591 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
17410604 AT
1 AT
17410606 TTATTTGTAT
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:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:17410636 original size:15 final size:15
Alignment explanation
Indices: 17410601--17410639 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
17410591 ATAAGTTTTC
*
17410601 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
17410616 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
17410632 TAAATTTA
1 TAAATTTA
17410640 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:17410652 original size:62 final size:61
Alignment explanation
Indices: 17410571--17410720 Score: 210
Period size: 62 Copynumber: 2.4 Consensus size: 61
17410561 ATAAGTTTTC
* *
17410571 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTTGTATTAAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
** * * *
17410632 TAAATTTACTTCGTTTTCTAAATAGGTGTTCTAAATTTGTTAGTAATAAAATTTATTAGTAT
1 TAAATTTA-TAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
* *
17410694 TAATTTTATAAGTTTTCTACATAAGTT
1 TAAATTTATAAGTTTTCTAAATAAGTT
17410721 ACATAATACA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
61 22 0.29
62 53 0.71
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
Found at i:17410748 original size:34 final size:34
Alignment explanation
Indices: 17410710--17410774 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
17410700 TATAAGTTTT
* * *
17410710 CTACATAAGTTACATAATACACCACTTATATAAC
1 CTACAAAACTTACATAATACACAACTTATATAAC
* *
17410744 CTACAAAACTTATATAATACATAACTTATAT
1 CTACAAAACTTACATAATACACAACTTATAT
17410775 TTAAGCTTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (34 bp):
CTACAAAACTTACATAATACACAACTTATATAAC
Found at i:17410754 original size:18 final size:16
Alignment explanation
Indices: 17410723--17410774 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
17410713 CATAAGTTAC
**
17410723 ATAATACACCACTTAT
1 ATAATACAAAACTTAT
17410739 ATAACCTACAAAACTTAT
1 ATAA--TACAAAACTTAT
*
17410757 ATAATACATAACTTAT
1 ATAATACAAAACTTAT
17410773 AT
1 AT
17410775 TTAAGCTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATACAAAACTTAT
Found at i:17410789 original size:21 final size:21
Alignment explanation
Indices: 17410761--17410817 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
17410751 ACTTATATAA
*
17410761 TACATAACTTATAT-TTAAGCT
1 TACATAACTTATATAATAA-CT
* *
17410782 TGCATAACTTACATAATAACT
1 TACATAACTTATATAATAACT
17410803 TACATAACTTATATA
1 TACATAACTTATATA
17410818 TAATAACATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.39
Consensus pattern (21 bp):
TACATAACTTATATAATAACT
Found at i:17410802 original size:12 final size:12
Alignment explanation
Indices: 17410785--17410842 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
17410775 TTAAGCTTGC
17410785 ATAACTTACATA
1 ATAACTTACATA
17410797 ATAACTTAC---
1 ATAACTTACATA
*
17410806 ATAACTTATAT-
1 ATAACTTACATA
*
17410817 ATAA-TAACATA
1 ATAACTTACATA
*
17410828 ATAAATTACATA
1 ATAACTTACATA
17410840 ATA
1 ATA
17410843 CTTTATGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.21
10 4 0.11
11 8 0.21
12 18 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:17410895 original size:12 final size:12
Alignment explanation
Indices: 17410880--17410904 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17410870 ATAAGCTTGC
17410880 ATAACTTACATA
1 ATAACTTACATA
17410892 ATAACTTACATA
1 ATAACTTACATA
17410904 A
1 A
17410905 CTTACATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:17410952 original size:95 final size:92
Alignment explanation
Indices: 17410753--17410926 Score: 294
Period size: 95 Copynumber: 1.9 Consensus size: 92
17410743 CCTACAAAAC
* *
17410753 TTATATAATACATAACTTATATTTAAGCTTGCATAACTTACATAATAACTTACATAACTTATATA
1 TTATATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTACATA
17410818 TAATAACATAATAAATTACATAATACT
66 TAATAACATAATAAATTACATAATACT
*
17410845 TTATGTTATAATACATAACTTGTATATAAGCTTGCATAACTTACATAATAACTTACATAACTTAC
1 TTA---TATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTAC
17410910 ATATAATAACATAATAA
63 ATATAATAACATAATAA
17410927 TTGGGTTCGT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
92 3 0.04
95 73 0.96
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.37
Consensus pattern (92 bp):
TTATATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTACATA
TAATAACATAATAAATTACATAATACT
Found at i:17411069 original size:9 final size:9
Alignment explanation
Indices: 17411038--17411666 Score: 398
Period size: 9 Copynumber: 72.2 Consensus size: 9
17411028 CATATATAGA
17411038 AACTTACAT
1 AACTTACAT
*
17411047 AAATTA-ATT
1 AACTTACA-T
17411056 AACTTACAT
1 AACTTACAT
17411065 AACTTACAT
1 AACTTACAT
17411074 AACTTACAT
1 AACTTACAT
*
17411083 AAATTACAT
1 AACTTACAT
* *
17411092 AAATTAAAT
1 AACTTACAT
17411101 AACTTACAT
1 AACTTACAT
17411110 AACTTACAT
1 AACTTACAT
17411119 AACTTACAT
1 AACTTACAT
17411128 AACTTACAT
1 AACTTACAT
* *
17411137 AAATTAAAT
1 AACTTACAT
17411146 AACTTACAT
1 AACTTACAT
17411155 AACTTACAT
1 AACTTACAT
17411164 GAA-TTGA-AT
1 -AACTT-ACAT
17411173 AACTTACAT
1 AACTTACAT
*
17411182 AAAC-TAAAT
1 -AACTTACAT
17411191 AACTTACAT
1 AACTTACAT
17411200 AACTTACAT
1 AACTTACAT
* *
17411209 AAATTAAAT
1 AACTTACAT
17411218 AACTTACAT
1 AACTTACAT
* *
17411227 AAATT-GAT
1 AACTTACAT
17411235 AAGTCAGTGTA-AT
1 AA--C--T-TACAT
*
17411248 AA-ATA-A-
1 AACTTACAT
*
17411254 AACTTGCAT
1 AACTTACAT
17411263 AA--TACAT
1 AACTTACAT
*
17411270 AA--TACAC
1 AACTTACAT
17411277 AACTTA-ATT
1 AACTTACA-T
* * *
17411286 AATATTATAC
1 AA-CTTACAT
17411296 AACTTACAT
1 AACTTACAT
* *
17411305 AAATTAAAT
1 AACTTACAT
17411314 AACTTACAT
1 AACTTACAT
17411323 AACTTACAT
1 AACTTACAT
* *
17411332 AAATTAAAT
1 AACTTACAT
17411341 AACTTACAT
1 AACTTACAT
* *
17411350 AAATTAAAT
1 AACTTACAT
*
17411359 AACTTAAAT
1 AACTTACAT
*
17411368 AACTTACGT
1 AACTTACAT
* *
17411377 CAGTGTA-AT
1 AACT-TACAT
*
17411386 AA-ATA-A-
1 AACTTACAT
*
17411392 AACTTGCAT
1 AACTTACAT
17411401 AA--TACAT
1 AACTTACAT
*
17411408 AA--TACAC
1 AACTTACAT
17411415 AACTTA-ATT
1 AACTTACA-T
* * *
17411424 AATATTATAC
1 AA-CTTACAT
17411434 AACTTACAT
1 AACTTACAT
* *
17411443 AAATTAAAT
1 AACTTACAT
17411452 AACTTACAT
1 AACTTACAT
17411461 AACTTACAT
1 AACTTACAT
* *
17411470 AAATTAAAT
1 AACTTACAT
17411479 AACTTACAT
1 AACTTACAT
17411488 AACTTACAT
1 AACTTACAT
17411497 AACTTACAT
1 AACTTACAT
* *
17411506 AAATTAAAT
1 AACTTACAT
17411515 AACTTACAT
1 AACTTACAT
*
17411524 AACCTACAT
1 AACTTACAT
17411533 AACTTACAT
1 AACTTACAT
*
17411542 TA--TACAT
1 AACTTACAT
*
17411549 AACCTT-CTT
1 AA-CTTACAT
17411558 AACTTACAT
1 AACTTACAT
* *
17411567 TA--TACAC
1 AACTTACAT
*
17411574 AACTGACAT
1 AACTTACAT
17411583 AA-TTA-AT
1 AACTTACAT
* *
17411590 -ATTATACAC
1 AACT-TACAT
17411599 AACTTACAT
1 AACTTACAT
17411608 AA--TACAT
1 AACTTACAT
*
17411615 TACTTACAT
1 AACTTACAT
*
17411624 TACTTACAGT
1 AACTTACA-T
17411634 -ACTTACAT
1 AACTTACAT
17411642 AA--TACAT
1 AACTTACAT
17411649 AA--TACAT
1 AACTTACAT
17411656 AACTTACAT
1 AACTTACAT
17411665 AA
1 AA
17411667 TACATAAAAA
Statistics
Matches: 487, Mismatches: 86, Indels: 94
0.73 0.13 0.14
Matches are distributed among these distances:
6 5 0.01
7 66 0.14
8 23 0.05
9 362 0.74
10 23 0.05
11 2 0.00
12 1 0.00
13 5 0.01
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:17411553 original size:25 final size:25
Alignment explanation
Indices: 17411519--17411673 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
17411509 TTAAATAACT
17411519 TACATAACCTACATAACTTACATTA
1 TACATAACCTACATAACTTACATTA
* *
17411544 TACATAACCTTCTTAACTTACATTA
1 TACATAACCTACATAACTTACATTA
* *
17411569 TACACAA-CTGACATAA-TTAATATTA
1 TACATAACCT-ACATAACTT-ACATTA
* *
17411594 TACACAACTTACATAA--TACATTA
1 TACATAACCTACATAACTTACATTA
* * *
17411617 CTTACATTACTTACAGT-ACTTACATAA
1 --TACATAACCTACA-TAACTTACATTA
*
17411644 TACATAA--TACATAACTTACATAA
1 TACATAACCTACATAACTTACATTA
17411667 TACATAA
1 TACATAA
17411674 AAATATATCA
Statistics
Matches: 109, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.01
23 26 0.24
24 5 0.05
25 69 0.63
26 2 0.02
27 6 0.06
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.34
Consensus pattern (25 bp):
TACATAACCTACATAACTTACATTA
Found at i:17411649 original size:7 final size:7
Alignment explanation
Indices: 17411637--17411673 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
17411627 TTACAGTACT
17411637 TACATAA
1 TACATAA
17411644 TACATAA
1 TACATAA
17411651 TACATAA
1 TACATAA
17411658 CTTACATAA
1 --TACATAA
17411667 TACATAA
1 TACATAA
17411674 AAATATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:17417507 original size:21 final size:21
Alignment explanation
Indices: 17417481--17417531 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17417471 CTATAACTTA
* *
17417481 AAGCAGATGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
17417502 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
17417523 AAGCAGAGG
1 AAGCAGAGG
17417532 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:17417982 original size:41 final size:42
Alignment explanation
Indices: 17417928--17418088 Score: 227
Period size: 42 Copynumber: 3.9 Consensus size: 42
17417918 GTGCTCATAT
* *
17417928 AAAAAACACCGCTAAAGAACATGTTCTTTAGAGGCGCTTAA-
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
* *
17417969 AAAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCACTTAAG
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
* * *
17418011 GAAAAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAG
1 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
*
17418053 GAAAAACGCCGCTAAAGATA-ATGTTCTTTAGCGGCG
1 AAAAAACGCCGCTAAAGA-ACATGTTCTTTAGCGGCG
17418089 TTTTTAGTTG
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
41 38 0.35
42 69 0.64
43 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG
Found at i:17418107 original size:83 final size:81
Alignment explanation
Indices: 17417930--17418087 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 81
17417920 GCTCATATAA
*
17417930 AAAACACCGCTAAAGAACATGTTCTTTAGAGGCGCTTAAAAAAAACGCCGCTAAAGAACATGTTC
1 AAAA-ACCGCTAAAGAACATGATCTTTAGAGGCGCTTAAAAAAAACGCCGCTAAAGAACATGTTC
*
17417995 TTTAGTGGCACTTAAGG
65 TTTAGCGGCACTTAAGG
* *
17418012 AAAAATGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGGAAAAACGCCGCTAAAGATA-ATG
1 AAAAA--CCGCTAAAGAACATGATCTTTAGAGGCGCTTAA-AAAAAACGCCGCTAAAGA-ACATG
17418076 TTCTTTAGCGGC
62 TTCTTTAGCGGC
17418088 GTTTTTAGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
81 1 0.01
82 4 0.06
83 31 0.46
84 31 0.46
85 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (81 bp):
AAAAACCGCTAAAGAACATGATCTTTAGAGGCGCTTAAAAAAAACGCCGCTAAAGAACATGTTCT
TTAGCGGCACTTAAGG
Found at i:17423695 original size:42 final size:42
Alignment explanation
Indices: 17423649--17423850 Score: 309
Period size: 42 Copynumber: 4.8 Consensus size: 42
17423639 TAGAAAAAAA
*
17423649 CGCCGCTAAAGAAGATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
17423691 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTACTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
17423733 AGCCGCTAAAGAACATGGTCTTTAAC-G-GTATTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGT-TTTTTTCTAAG
* *
17423774 CACCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
17423816 CGCCGCTAAAGAACATAGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
17423851 ATACAAAAAC
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
40 2 0.01
41 33 0.23
42 106 0.74
43 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:17423713 original size:84 final size:83
Alignment explanation
Indices: 17423607--17423803 Score: 245
Period size: 84 Copynumber: 2.4 Consensus size: 83
17423597 CAAACAAAAA
* * * *
17423607 CACCGCTAAAGACCATGATCTTTAGCGGTGCTT-AGAAAAAAACGCCGCTAAAGAAGATGGTCTT
1 CACCGCTAAAGAACATGGTCTTTAGCGGCGCTTCAGAAAAAAA-GCCGCTAAAGAACATGGTCTT
*
17423671 TAGCGGCGT-TTTTTTCTAAG
65 TAAC-G-GTATTTTTTCTAAG
* * ** ** *
17423691 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTACTAAGAGCCGCTAAAGAACATGGTCTTT
1 CACCGCTAAAGAACATGGTCTTTAGCGGCGCTTCAGAAAAAAAGCCGCTAAAGAACATGGTCTTT
17423756 AACGGTATTTTTTCTAAG
66 AACGGTATTTTTTCTAAG
17423774 CACCGCTAAAGAACATGGTCTTTAGCGGCG
1 CACCGCTAAAGAACATGGTCTTTAGCGGCG
17423804 TTTCTTTCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
82 2 0.02
83 41 0.42
84 51 0.52
85 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (83 bp):
CACCGCTAAAGAACATGGTCTTTAGCGGCGCTTCAGAAAAAAAGCCGCTAAAGAACATGGTCTTT
AACGGTATTTTTTCTAAG
Found at i:17423801 original size:83 final size:84
Alignment explanation
Indices: 17423650--17423850 Score: 316
Period size: 83 Copynumber: 2.4 Consensus size: 84
17423640 AGAAAAAAAC
* * *
17423650 GCCGCTAAAGAAGATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
1 GCCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCTAAGCACCGCTAAAGAACATGGTCTTTA
17423715 GCGGCGTTTCTTACTAAGA
66 GCGGCGTTTCTTACTAAGA
17423734 GCCGCTAAAGAACATGGTCTTTAAC-G-GTATTTTTTCTAAGCACCGCTAAAGAACATGGTCTTT
1 GCCGCTAAAGAACATGGTCTTTAACGGCGT-TTTTTTCTAAGCACCGCTAAAGAACATGGTCTTT
* *
17423797 AGCGGCGTTTCTTTCTAAGC
65 AGCGGCGTTTCTTACTAAGA
* *
17423817 GCCGCTAAAGAACATAGTCTTTAGCGGCGTTTTT
1 GCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
17423851 ATACAAAAAC
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
82 2 0.02
83 75 0.70
84 28 0.26
85 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (84 bp):
GCCGCTAAAGAACATGGTCTTTAACGGCGTTTTTTTCTAAGCACCGCTAAAGAACATGGTCTTTA
GCGGCGTTTCTTACTAAGA
Found at i:17424178 original size:21 final size:21
Alignment explanation
Indices: 17424152--17424201 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17424142 TTATACTCTG
* *
17424152 CTCTGCTTCTCTCGTTG-CAGC
1 CTCTGCTTCCCTCGCTGTC-GC
17424173 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
17424194 CTCTGCTT
1 CTCTGCTT
17424202 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.42, G:0.18, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:17429716 original size:16 final size:16
Alignment explanation
Indices: 17429695--17430051 Score: 220
Period size: 16 Copynumber: 22.5 Consensus size: 16
17429685 TGATATATAT
* *
17429695 TTATGTATTAGGTAAA
1 TTATGTATTATGTAAG
17429711 TTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAG
17429729 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
17429745 TTATGTATAATATTAATTAAG
1 TTATGTAT--TA-T--GTAAG
*
17429766 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
*
17429782 TTATGTATTATGTAAT
1 TTATGTATTATGTAAG
17429798 TTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAAG
17429814 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
*
17429828 TTATGTATT-T-TATG
1 TTATGTATTATGTAAG
* *
17429842 -TATAATATTAAGTAAG
1 TTAT-GTATTATGTAAG
*
17429858 TTGTGTATTATGT-A-
1 TTATGTATTATGTAAG
*
17429872 TTATGTATGTTATGTATAA
1 TTATGTA--TTATGTA-AG
*
17429891 CT-TGTA--AT-TAAG
1 TTATGTATTATGTAAG
*
17429903 TTATGTATAATATTAATTAAG
1 TTATGTAT--TA-T--GTAAG
*
17429924 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
*
17429940 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
17429956 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
17429970 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
*
17429984 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
17430000 TTATGTATAATAT-TAA-
1 TTATGTAT--TATGTAAG
*
17430016 TTAAG--TTATGT-A-
1 TTATGTATTATGTAAG
*
17430028 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
17430044 TTATGTAT
1 TTATGTAT
17430052 AATATTAATT
Statistics
Matches: 277, Mismatches: 26, Indels: 76
0.73 0.07 0.20
Matches are distributed among these distances:
12 11 0.04
13 11 0.04
14 62 0.22
15 3 0.01
16 121 0.44
17 9 0.03
18 32 0.12
19 6 0.02
21 22 0.08
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:17429723 original size:9 final size:9
Alignment explanation
Indices: 17429706--17429813 Score: 95
Period size: 9 Copynumber: 12.3 Consensus size: 9
17429696 TATGTATTAG
*
17429706 GTAAATTAT
1 GTAAGTTAT
17429715 GTAAGTTAT
1 GTAAGTTAT
17429724 GTAAGTTAT
1 GTAAGTTAT
17429733 GT-A-TTAT
1 GTAAGTTAT
17429740 GTAAGTTAT
1 GTAAGTTAT
*
17429749 GTATAATATTAAT
1 G--TAA-GTT-AT
*
17429762 -TAAGTTGT
1 GTAAGTTAT
17429770 GT-A-TTAT
1 GTAAGTTAT
17429777 GTAAGTTAT
1 GTAAGTTAT
17429786 GT-A-TTAT
1 GTAAGTTAT
*
17429793 GTAATTTAT
1 GTAAGTTAT
17429802 GTAAGTTAT
1 GTAAGTTAT
17429811 GTA
1 GTA
17429814 TTATGTATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
7 17 0.21
8 7 0.09
9 48 0.59
10 3 0.04
11 3 0.04
12 2 0.02
13 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17429724 original size:25 final size:24
Alignment explanation
Indices: 17429695--17430089 Score: 180
Period size: 23 Copynumber: 17.1 Consensus size: 24
17429685 TGATATATAT
*
17429695 TTATGTATTAGGTAAATTATGTAAG
1 TTATGTATTATGT-AATTATGTAAG
17429720 TTATGTAAGTTATGT-ATTATGTAAG
1 TTATGT-A-TTATGTAATTATGTAAG
*
17429745 TTATGTA-TA-AT-ATTAAT-TAAG
1 TTATGTATTATGTAATT-ATGTAAG
*
17429766 TTGTGTATTATGTAAGTTATGT-A-
1 TTATGTATTATGTAA-TTATGTAAG
17429789 TTATGTAATTTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAA-TTATGTAAG
**
17429814 TTATGTATTATGT-ATTATGTATT
1 TTATGTATTATGTAATTATGTAAG
* *
17429837 TTATGTA-TA-AT-ATTAAGTAAG
1 TTATGTATTATGTAATTATGTAAG
* *
17429858 TTGTGTATTATGT-ATTATGTATG
1 TTATGTATTATGTAATTATGTAAG
*
17429881 TTATGTATAACTTGT-A--AT-TAAG
1 TTATGTATTA--TGTAATTATGTAAG
*
17429903 TTATGTA-TA-AT-ATTAAT-TAAG
1 TTATGTATTATGTAATT-ATGTAAG
* *
17429924 TTGTGTATTATGTAAGTTGTGT-A-
1 TTATGTATTATGTAA-TTATGTAAG
17429947 TTATGTAAGTTATGT-ATTATGT-A-
1 TTATGT-A-TTATGTAATTATGTAAG
17429970 TTATGTATTATGT-ATTATGT-A-
1 TTATGTATTATGTAATTATGTAAG
17429991 TTATGTATGTTATGTATAATATTAAT-TAAG
1 TTATGTA--TTATG--T-A-ATT-ATGTAAG
*
17430021 TTATGTATTATGT-ATTATGTATG
1 TTATGTATTATGTAATTATGTAAG
*
17430044 TTATGTA-TA-AT-ATTAAT-TAAG
1 TTATGTATTATGTAATT-ATGTAAG
* *
17430065 TTGTGTATTATGT-ATTATGCAAG
1 TTATGTATTATGTAATTATGTAAG
17430088 TT
1 TT
17430090 TTATTTATTA
Statistics
Matches: 299, Mismatches: 30, Indels: 84
0.72 0.07 0.20
Matches are distributed among these distances:
18 2 0.01
21 81 0.27
22 34 0.11
23 83 0.28
24 12 0.04
25 61 0.20
26 2 0.01
27 5 0.02
28 9 0.03
29 3 0.01
30 7 0.02
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (24 bp):
TTATGTATTATGTAATTATGTAAG
Found at i:17429779 original size:44 final size:44
Alignment explanation
Indices: 17429729--17430089 Score: 316
Period size: 44 Copynumber: 8.4 Consensus size: 44
17429719 GTTATGTAAG
17429729 TTATGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
* * *
17429773 TTATGTAAGTTATGT-A-TTATGTA-ATTTATGTAAGTTATGTATTATGTA
1 TTATGT-A-TTATGTAAGTTATGTATA-ATAT-TAA-TTAAG--TTGTGTA
** *
17429821 TTATGTATTATGTATTTTATGTATAATATTAAGTAAGTTGTGTA
1 TTATGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
* *
17429865 TTATGTATTATGTATGTTATGTATAACT-TGTAATTAAGTTATGTA
1 TTATGTATTATGTAAGTTATGTATAA-TAT-TAATTAAGTTGTGTA
* * *
17429910 -TA-ATATTAAT-TAAGTTGTGTAT--TA-T--GTAAGTTGTGTA
1 TTATGTATT-ATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
17429947 TTATGTAAGTTATGT-A-TTATGTAT--TATGT-ATT-A----TGTA
1 TTATGT-A-TTATGTAAGTTATGTATAATAT-TAATTAAGTTGTGTA
* *
17429984 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTATGTA
1 TTATGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
*
17430028 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
*
17430072 TTATGTATTATGCAAGTT
1 TTATGTATTATGTAAGTT
17430090 TTATTTATTA
Statistics
Matches: 262, Mismatches: 23, Indels: 64
0.75 0.07 0.18
Matches are distributed among these distances:
35 6 0.02
36 1 0.00
37 28 0.11
38 3 0.01
39 17 0.06
40 6 0.02
41 5 0.02
42 1 0.00
43 15 0.06
44 115 0.44
45 19 0.07
46 19 0.07
47 4 0.02
48 22 0.08
49 1 0.00
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.52
Consensus pattern (44 bp):
TTATGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
Found at i:17429842 original size:9 final size:7
Alignment explanation
Indices: 17429695--17430042 Score: 156
Period size: 7 Copynumber: 45.1 Consensus size: 7
17429685 TGATATATAT
17429695 TTATGTA
1 TTATGTA
*
17429702 TTAGGTAAA
1 TTATGT--A
17429711 TTATGTAA
1 TTATGT-A
17429719 GTTATGTAA
1 -TTATGT-A
17429728 GTTATGTA
1 -TTATGTA
17429736 TTATGTAA
1 TTATGT-A
17429744 GTTATGTA
1 -TTATGTA
*
17429752 -TA-ATA
1 TTATGTA
17429757 TTAAT-TAA
1 TT-ATGT-A
*
17429765 GTTGTGTA
1 -TTATGTA
17429773 TTATGTAA
1 TTATGT-A
17429781 GTTATGTA
1 -TTATGTA
17429789 TTATGTAA
1 TTATGT-A
17429797 TTTATGTAA
1 -TTATGT-A
17429806 GTTATGTA
1 -TTATGTA
17429814 TTATGTA
1 TTATGTA
17429821 TTATGTA
1 TTATGTA
17429828 TTATGTA
1 TTATGTA
17429835 TT-T-TA
1 TTATGTA
*
17429840 TGTATAATA
1 T-TAT-GTA
*
17429849 TTAAGTAA
1 TTATGT-A
*
17429857 GTTGTGTA
1 -TTATGTA
17429865 TTATGTA
1 TTATGTA
17429872 TTATGTA
1 TTATGTA
17429879 TGTTATGTA
1 --TTATGTA
*
17429888 TAACTTGTAA
1 TTA--TGT-A
*
17429898 TTAAGTTA
1 TTATG-TA
*
17429906 TGTATAATA
1 T-TAT-GTA
17429915 TTAAT-TAA
1 TT-ATGT-A
*
17429923 GTTGTGTA
1 -TTATGTA
17429931 TTATGTAA
1 TTATGT-A
*
17429939 GTTGTGTA
1 -TTATGTA
17429947 TTATGTAA
1 TTATGT-A
17429955 GTTATGTA
1 -TTATGTA
17429963 TTATGTA
1 TTATGTA
17429970 TTATGTA
1 TTATGTA
17429977 TTATGTA
1 TTATGTA
17429984 TTATGTA
1 TTATGTA
17429991 TTATGTA
1 TTATGTA
17429998 TGTTATGTA
1 --TTATGTA
*
17430007 -TA-ATA
1 TTATGTA
17430012 TTAAT-TAA
1 TT-ATGT-A
17430020 GTTATGTA
1 -TTATGTA
17430028 TTATGTA
1 TTATGTA
17430035 TTATGTA
1 TTATGTA
17430042 T
1 T
17430043 GTTATGTATA
Statistics
Matches: 275, Mismatches: 21, Indels: 90
0.71 0.05 0.23
Matches are distributed among these distances:
5 7 0.03
6 8 0.03
7 127 0.46
8 31 0.11
9 99 0.36
10 3 0.01
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (7 bp):
TTATGTA
Found at i:17429885 original size:92 final size:96
Alignment explanation
Indices: 17429706--17430006 Score: 280
Period size: 92 Copynumber: 3.2 Consensus size: 96
17429696 TATGTATTAG
*
17429706 GTAAATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTATAATATTAATTAAGTTGTG
1 GTAAATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTATAATATTAAGTAAGTTGTG
17429771 TATTATGTAAGTTATGTATTATGTAATTTAT
66 TATTATGTAAGTTATGTATTATGTAATTTAT
* **
17429802 GTAAGTTATGT-A-TTATGT-A-TTATGTATTATGTATTTTATGTATAATATTAAGTAAGTTGTG
1 GTAAATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTATAATATTAAGTAAGTTGTG
17429863 TATTATGT-A-TTATGTATGTTATGTATAACTTGTAAT
66 TATTATGTAAGTTATGTA--TTATG--TAA-TT-T-AT
* * * *
17429899 -TAAGTTATGTATAATATTAAT-TAAGTTGTGTATTATGTAAGTTGTGTAT--TA-T--GTAAGT
1 GTAAATTATG--TAA-GTT-ATGTAAGTTATGTATTATGTAAGTTATGTATAATATTAAGTAAGT
*
17429957 TATGTATTATGT-A-TTATGTATTATGT-A-TTAT
62 TGTGTATTATGTAAGTTATGTATTATGTAATTTAT
*
17429988 GT--ATTATGTATGTTATGTA
1 GTAAATTATGTAAGTTATGTA
17430007 TAATATTAAT
Statistics
Matches: 176, Mismatches: 12, Indels: 45
0.76 0.05 0.19
Matches are distributed among these distances:
84 2 0.01
85 4 0.02
86 2 0.01
88 5 0.03
89 2 0.01
90 9 0.05
91 2 0.01
92 52 0.30
93 2 0.01
94 10 0.06
95 3 0.02
96 25 0.14
97 2 0.01
98 26 0.15
99 1 0.01
100 1 0.01
101 5 0.03
102 3 0.02
103 20 0.11
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (96 bp):
GTAAATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTATAATATTAAGTAAGTTGTG
TATTATGTAAGTTATGTATTATGTAATTTAT
Found at i:17429906 original size:22 final size:21
Alignment explanation
Indices: 17429837--17430072 Score: 101
Period size: 21 Copynumber: 11.4 Consensus size: 21
17429827 ATTATGTATT
*
17429837 TTATGTATAATATTAAGTAAG
1 TTATGTATAATATTAATTAAG
* * *
17429858 TTGTGTATTATGTATT-ATGTATG
1 TTATGTA-TA-ATATTAAT-TAAG
17429881 TTATGTATAACT-TGTAATTAAG
1 TTATGTATAA-TAT-TAATTAAG
17429903 TTATGTATAATATTAATTAAG
1 TTATGTATAATATTAATTAAG
* *
17429924 TTGTGTAT--TA-T--GTAAG
1 TTATGTATAATATTAATTAAG
* *
17429940 TTGTGTAT--TATGTAAGTTATG
1 TTATGTATAATAT-TAA-TTAAG
*
17429961 TATTATGTAT--TATGT-ATTATG
1 --TTATGTATAATAT-TAATTAAG
* *
17429982 -TAT-TAT-GTATT-ATGTATG
1 TTATGTATAATATTAAT-TAAG
17430000 TTATGTATAATATTAATTAAG
1 TTATGTATAATATTAATTAAG
* *
17430021 TTATGTATTATGTATT-ATGTATG
1 TTATGTA-TA-ATATTAAT-TAAG
17430044 TTATGTATAATATTAATTAAG
1 TTATGTATAATATTAATTAAG
*
17430065 TTGTGTAT
1 TTATGTAT
17430073 TATGTATTAT
Statistics
Matches: 172, Mismatches: 19, Indels: 48
0.72 0.08 0.20
Matches are distributed among these distances:
16 14 0.08
17 6 0.03
18 12 0.07
19 5 0.03
20 3 0.02
21 59 0.34
22 32 0.19
23 41 0.24
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (21 bp):
TTATGTATAATATTAATTAAG
Found at i:17430649 original size:18 final size:18
Alignment explanation
Indices: 17430626--17430716 Score: 107
Period size: 18 Copynumber: 4.9 Consensus size: 18
17430616 AGCTAATTTT
17430626 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
17430644 TATTTAAGTAATGTAAGTTA
1 TATTTAAGTAATGTAA--TA
17430664 TAAACTTT-AGTAA-GTAATA
1 T--A-TTTAAGTAATGTAATA
17430683 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
*
17430701 TATTTTAGTAA-GTAAT
1 TATTTAAGTAATGTAAT
17430717 GTAAGTAATG
Statistics
Matches: 65, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
16 3 0.05
17 11 0.17
18 32 0.49
19 3 0.05
20 3 0.05
21 4 0.06
22 6 0.09
23 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (18 bp):
TATTTAAGTAATGTAATA
Found at i:17430715 original size:39 final size:40
Alignment explanation
Indices: 17430628--17430702 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
17430618 CTAATTTTTA
17430628 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTTATAAAC
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAG-TATAAAC
17430669 TTT-AGTAA-GTAATATATTTAAGTAATGTAA-TATA
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATA
17430703 TTTTAGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
37 4 0.12
39 22 0.65
40 5 0.15
41 3 0.09
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (40 bp):
TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATAAAC
Found at i:17437047 original size:42 final size:41
Alignment explanation
Indices: 17436951--17437193 Score: 369
Period size: 41 Copynumber: 5.9 Consensus size: 41
17436941 TAGAAAAAAA
* *
17436951 CGCCGCTAAAGAACATGGTCTTTAGCGGTGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
* *
17436992 CGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTGTTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TCTAAG
* *
17437034 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCTAAG
*
17437076 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
* * *
17437117 CGCCGCTAAAGAATATTATCTTTAGCGGTGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
*
17437158 CGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
17437194 TTCTAACTGA
Statistics
Matches: 185, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
41 114 0.62
42 66 0.36
43 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
Found at i:17437141 original size:125 final size:125
Alignment explanation
Indices: 17436951--17437199 Score: 401
Period size: 125 Copynumber: 2.0 Consensus size: 125
17436941 TAGAAAAAAA
* *
17436951 CGCCGCTAAAGAACATGGTCTTTAGCGGTGTTTTTTCTAAGCGCCGCTAAAGAACATGATTTTTA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
* * *
17437016 GCGGCGTTTTTGTTTAAGCGCCTCTAAAGAACATGGTCTTTAGCGGCG-TTTTTTTCTAAG
66 GCGGCGTTTTT-TCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTAAG
* *
17437076 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAATATTATCTTTA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
* *
17437141 GCGGTGTTTTTTCTAAGCGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTTTTCTAA
66 GCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTAA
17437200 CTGATGTTCT
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
124 32 0.28
125 82 0.72
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (125 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
GCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCTAAG
Found at i:17437565 original size:21 final size:21
Alignment explanation
Indices: 17437539--17437588 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
17437529 TTTTGCTCTG
*
17437539 CTCTGCTTCTCTCGCTG-CAGC
1 CTCTGCTTCCCTCGCTGTC-GC
17437560 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
17437581 CTCTGCTT
1 CTCTGCTT
17437589 TAAGTTGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.44, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:17443082 original size:25 final size:25
Alignment explanation
Indices: 17443054--17443220 Score: 160
Period size: 25 Copynumber: 6.7 Consensus size: 25
17443044 TAAGTATAGT
*
17443054 TAAGCTATGTAAGTTATGTATTATG
1 TAAGTTATGTAAGTTATGTATTATG
* **
17443079 TAAGTTATTTAAGTTATGTAACATG
1 TAAGTTATGTAAGTTATGTATTATG
* * *
17443104 TAAATTATGTAAGTTGTGTATAATG
1 TAAGTTATGTAAGTTATGTATTATG
* **
17443129 TTAGTTATCAAAGTTATGTATTATG
1 TAAGTTATGTAAGTTATGTATTATG
* *
17443154 TAAGTTATTTAAGTTATGTAAGT-TG
1 TAAGTTATGTAAGTTATGT-ATTATG
* *
17443179 TAAATTATGTAAGTTATGTAGGCTATG
1 TAAGTTATGTAAGTTATGTA--TTATG
17443206 T-A-TTATGTAAGTTAT
1 TAAGTTATGTAAGTTAT
17443221 TANNNNNNNN
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
24 1 0.01
25 108 0.93
26 4 0.03
27 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTAAGTTATGTATTATG
Done.