Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007900.1 Hibiscus syriacus cultivar Beakdansim tig00110290_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 270466
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:6751 original size:17 final size:17
Alignment explanation
Indices: 6729--6767 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
6719 AACGATCAAC
6729 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6746 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6763 GGTCA
1 GGTCA
6768 GTCGGGTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:24479 original size:20 final size:21
Alignment explanation
Indices: 24446--24486 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24436 TATTATATAT
24446 ATATTTATGAATAT-ATAAAA
1 ATATTTATGAATATAATAAAA
**
24466 ATATTTATTCATATAATAAAA
1 ATATTTATGAATATAATAAAA
24487 TAAAAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATTTATGAATATAATAAAA
Found at i:24538 original size:18 final size:19
Alignment explanation
Indices: 24515--24552 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24505 AATATATTTA
24515 AAAACA-ATAAAATAAATG
1 AAAACATATAAAATAAATG
24533 AAAACATATAAAATAAATG
1 AAAACATATAAAATAAATG
24552 A
1 A
24553 CTAAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAACATATAAAATAAATG
Found at i:25922 original size:20 final size:19
Alignment explanation
Indices: 25899--25943 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
25889 TATTTTTTAT
* *
25899 TATTTATTTATTTTTAATAA
1 TATTTATATATATTTAAT-A
*
25919 TATTTATATGTATTTAATA
1 TATTTATATATATTTAATA
25938 TATTTA
1 TATTTA
25944 ATAATAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATATATATTTAATA
Found at i:25933 original size:26 final size:30
Alignment explanation
Indices: 25894--25949 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
25884 AATTATATTT
*
25894 TTTATTATTTATTT-AT-T-TTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
25921 TTTA-TATGTATTTAATATATTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
25950 ATAGTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
27 6 0.24
28 1 0.04
29 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTATTATGTATTTAATATATTTAATAATA
Found at i:25950 original size:3 final size:3
Alignment explanation
Indices: 25942--26036 Score: 163
Period size: 3 Copynumber: 31.7 Consensus size: 3
25932 TTAATATATT
*
25942 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
25990 TAA TAA TAA TAA TAA TGA TAA TAG TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
26037 TGGATAAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:26605 original size:114 final size:113
Alignment explanation
Indices: 26353--26702 Score: 596
Period size: 114 Copynumber: 3.1 Consensus size: 113
26343 GAATTATGCC
* * *
26353 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
26417 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAATTCAGGT
26464 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
26529 TATGAACTTTTTCTGGAAAAAAATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTTTCTGG-AAAAAATGATCCATCAAGTGATGAATTCAGGT
26578 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
26643 TATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAATTCAGGT
26691 AAAAGGTTGAAC
1 AAAAGGTTGAAC
26703 TCTACCTGGC
Statistics
Matches: 227, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
111 4 0.02
112 64 0.28
113 50 0.22
114 109 0.48
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATGAATTCAGGT
Found at i:26826 original size:166 final size:166
Alignment explanation
Indices: 26552--26868 Score: 625
Period size: 166 Copynumber: 1.9 Consensus size: 166
26542 TGGAAAAAAA
*
26552 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
26617 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATG
26682 AATTCAGGTAAAAGGTTGAACTCTACCTGGCAATGT
131 AATTCAGGTAAAAGGTTGAACTCTACCTGGCAATGT
26718 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
26783 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATG
26848 AATTCAGGTAAAAGGTTGAAC
131 AATTCAGGTAAAAGGTTGAAC
26869 AAATTCTTCT
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 150 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (166 bp):
TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATG
AATTCAGGTAAAAGGTTGAACTCTACCTGGCAATGT
Found at i:27109 original size:225 final size:226
Alignment explanation
Indices: 26718--27154 Score: 831
Period size: 225 Copynumber: 1.9 Consensus size: 226
26708 CTGGCAATGT
*
26718 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
*
26783 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAATGATCCATCAAGTGATG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAATGATCCATCAAGTGATG
26848 AATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCTTCCTTCTTCAGATGAGT
131 AATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
26912 TCTTCTCATTATGAACTTTCTCTGGAAAAAA
196 TCTTCTCATTATGAACTTTCTCTGGAAAAAA
*
26943 TGATCCATCAAGTGATGAATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
*
27008 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAATGATCCATCAAGTGATG
27073 AATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
131 AATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
27138 TCTTCTCATTATGAACT
196 TCTTCTCATTATGAACT
27155 CGAACTGGAA
Statistics
Matches: 207, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
225 164 0.79
226 43 0.21
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
TGATCCATCAAATGATGAATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAATGATCCATCAAGTGATG
AATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
TCTTCTCATTATGAACTTTCTCTGGAAAAAA
Found at i:27173 original size:113 final size:113
Alignment explanation
Indices: 26718--27154 Score: 831
Period size: 113 Copynumber: 3.9 Consensus size: 113
26708 CTGGCAATGT
*
26718 TGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
*
26783 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAAA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAA
26831 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCT
1 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
26895 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAA
*
26943 TGATCCATCAAGTGATGAATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
*
27008 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAA
27056 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
27121 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
27155 CGAACTGGAA
Statistics
Matches: 318, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
112 110 0.35
113 208 0.65
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
TGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAAA
Found at i:28117 original size:83 final size:83
Alignment explanation
Indices: 27905--28270 Score: 614
Period size: 83 Copynumber: 4.4 Consensus size: 83
27895 CCTACTGAAT
**
27905 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTTTAAACTT-A
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAA-TTCA
*
27969 ATGATT-GTTTTGTCAAAT
65 ATGATTGGTTTTGTCAAAC
*
27987 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
28052 TGATTGGTTTTGTCAAAC
66 TGATTGGTTTTGTCAAAC
*
28070 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCCAAATTCA
28134 ATGATTGGTTTTGTCAAAC
65 ATGATTGGTTTTGTCAAAC
*
28153 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCCAAATTCA
*
28217 ATGATTGGTTCTGTCAAAC
65 ATGATTGGTTTTGTCAAAC
28236 CAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
28271 ACTTGATTCT
Statistics
Matches: 274, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
81 2 0.01
82 64 0.23
83 206 0.75
84 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
TGATTGGTTTTGTCAAAC
Found at i:29525 original size:19 final size:18
Alignment explanation
Indices: 29497--29535 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
29487 TCTCTTTTTT
29497 TTTTCAATTTTTTTTTCTA
1 TTTTCAA-TTTTTTTTCTA
*
29516 TTTTCTATTTTTTTTCTA
1 TTTTCAATTTTTTTTCTA
29534 TT
1 TT
29536 CTCTTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCAATTTTTTTTCTA
Found at i:40202 original size:18 final size:17
Alignment explanation
Indices: 40158--40204 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
40148 AAAATACTTG
*
40158 TAAATAAAACATATAAA
1 TAAATAAAAAATATAAA
*
40175 T-ATTATAAAAATAATAAA
1 TAAATA-AAAAAT-ATAAA
40193 TAAATAAAAAAT
1 TAAATAAAAAAT
40205 TTGAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 3 0.12
17 6 0.25
18 12 0.50
19 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAATAAAAAATATAAA
Found at i:40926 original size:20 final size:21
Alignment explanation
Indices: 40893--40933 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
40883 TATTATATAT
40893 ATATTTATGAATAT-ATAAAA
1 ATATTTATGAATATAATAAAA
**
40913 ATATTTATTCATATAATAAAA
1 ATATTTATGAATATAATAAAA
40934 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATTTATGAATATAATAAAA
Found at i:40995 original size:18 final size:17
Alignment explanation
Indices: 40968--41003 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
40958 AATATATTTA
40968 AAAACAATAAATAAATG
1 AAAACAATAAATAAATG
40985 AAAACATATAAATAAATG
1 AAAACA-ATAAATAAATG
41003 A
1 A
41004 CTAAATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAACAATAAATAAATG
Found at i:42370 original size:20 final size:19
Alignment explanation
Indices: 42347--42391 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
42337 TATTTTTTAT
* *
42347 TATTTATTTATTTTTAATAA
1 TATTTATATATATTTAAT-A
*
42367 TATTTATATGTATTTAATA
1 TATTTATATATATTTAATA
42386 TATTTA
1 TATTTA
42392 ATAATAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATATATATTTAATA
Found at i:42381 original size:26 final size:30
Alignment explanation
Indices: 42342--42397 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
42332 AATTATATTT
*
42342 TTTATTATTTATTT-AT-T-TTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
42369 TTTA-TATGTATTTAATATATTTAATAATA
1 TTTATTATGTATTTAATATATTTAATAATA
42398 ATAGTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
27 6 0.24
28 1 0.04
29 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTATTATGTATTTAATATATTTAATAATA
Found at i:42398 original size:3 final size:3
Alignment explanation
Indices: 42390--42469 Score: 133
Period size: 3 Copynumber: 26.7 Consensus size: 3
42380 TTAATATATT
* *
42390 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
42438 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
42470 TGGATAAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:43159 original size:24 final size:24
Alignment explanation
Indices: 43132--43189 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
43122 CCAAATTTTT
*
43132 GAATGATTTAGGGGTGCATTATTG
1 GAATGATTTAGGGGCGCATTATTG
* *
43156 GAATGATTTAGGGGCGCATTTTTT
1 GAATGATTTAGGGGCGCATTATTG
*
43180 GAATAATTTA
1 GAATGATTTA
43190 TTTTAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.40
Consensus pattern (24 bp):
GAATGATTTAGGGGCGCATTATTG
Found at i:49761 original size:15 final size:17
Alignment explanation
Indices: 49731--49763 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49721 AAGATCTTAA
49731 AAAATGATTCTCTCTCC
1 AAAATGATTCTCTCTCC
49748 AAAAT-ATTTCTCTCTC
1 AAAATGA-TTCTCTCTC
49764 ATAATTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAATGATTCTCTCTCC
Found at i:49946 original size:42 final size:40
Alignment explanation
Indices: 49900--50029 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 40
49890 TTGAATTTTC
* *
49900 TGTTTCTTGAATTTTTTATGATCACGGAAATGATATCTCTTT
1 TGTTTCTTGAATTTGTTATGCTCAC-GAAATGA-ATCTCTTT
** * ** *
49942 TGTTTCTCAAATTTGTTATGCTCGCGAAACT-AAAAT-TTC
1 TGTTTCTTGAATTTGTTATGCTCACGAAA-TGAATCTCTTT
*
49981 TGTTTTTTGAATTTGTTATGCTCACAGAAATGAACTCTCTTT
1 TGTTTCTTGAATTTGTTATGCTCAC-GAAATGAA-TCTCTTT
50023 TGTTTCT
1 TGTTTCT
50030 CAAATCTATT
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
39 24 0.36
40 8 0.12
41 6 0.09
42 29 0.43
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.48
Consensus pattern (40 bp):
TGTTTCTTGAATTTGTTATGCTCACGAAATGAATCTCTTT
Found at i:50052 original size:81 final size:80
Alignment explanation
Indices: 49864--50053 Score: 220
Period size: 81 Copynumber: 2.3 Consensus size: 80
49854 TTGAAATTTC
* * * * * *
49864 TTCTCAAATCCTTTACGCTCATAAAATTGAATTTTCTGTTTCTTGAATTTTTTATGATCACGGAA
1 TTCTCAAAT-CTTTACGCTCATGAAACTAAAATTTCTGTTTCTTGAATTTGTTATGATCACAGAA
49929 ATGATATCTCTTTTGT
65 ATGATATCTCTTTTGT
* * ** * *
49945 TTCTCAAATTTGTTATGCTCGCGAAACTAAAATTTCTGTTTTTTGAATTTGTTATGCTCACAGAA
1 TTCTCAAATCT-TTACGCTCATGAAACTAAAATTTCTGTTTCTTGAATTTGTTATGATCACAGAA
50010 ATGA-ACTCTCTTTTGT
65 ATGATA-TCTCTTTTGT
*
50026 TTCTCAAATCTATTAGGCTCATGAAACT
1 TTCTCAAATCT-TTACGCTCATGAAACT
50054 TAATTATTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 2 0.02
81 88 0.98
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (80 bp):
TTCTCAAATCTTTACGCTCATGAAACTAAAATTTCTGTTTCTTGAATTTGTTATGATCACAGAAA
TGATATCTCTTTTGT
Found at i:56785 original size:89 final size:88
Alignment explanation
Indices: 56634--56802 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 88
56624 TGAAAAGATG
* *
56634 GACGTTGGTGAAGAGAACAATATATCTCAAAATCATTGTGATCTAACCGTGATAGAAGAGAATCT
1 GACGTTAGTGAAGAGAACAATATATCTCAAAATCATTGTGATCTAACCATGATAG-AGAGAATCT
*
56699 CAACGGTAGAAAGGTGGAAATATA
65 CAACGGTAAAAAGGTGGAAATATA
* * * *
56723 GACGTTAGTGAGGATAACAATATATCTCAATATCATTGTGATCTAATCATAGTATAG-GAGAATC
1 GACGTTAGTGAAGAGAACAATATATCTCAAAATCATTGTGATCTAACCAT-G-ATAGAGAGAATC
*
56787 TCGACGGTAAAAAGGT
64 TCAACGGTAAAAAGGT
56803 AAAATGGTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 65 0.93
90 1 0.01
91 4 0.06
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (88 bp):
GACGTTAGTGAAGAGAACAATATATCTCAAAATCATTGTGATCTAACCATGATAGAGAGAATCTC
AACGGTAAAAAGGTGGAAATATA
Found at i:63377 original size:15 final size:14
Alignment explanation
Indices: 63314--63383 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 14
63304 ATTTATTATC
* *
63314 AATTATTTAAACACA
1 AATTATTTAAATA-T
*
63329 AATTATTTACCAT-T
1 AATTATTTA-AATAT
*
63343 AATTATCTAAAATAT
1 AATTAT-TTAAATAT
63358 CAATTATTTAAATACT
1 -AATTATTTAAATA-T
63374 AATTATTTAA
1 AATTATTTAA
63384 GACAATGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.18
15 28 0.64
16 8 0.18
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATTTAAATAT
Found at i:63585 original size:30 final size:30
Alignment explanation
Indices: 63550--63664 Score: 153
Period size: 30 Copynumber: 3.8 Consensus size: 30
63540 AATACGCCTC
* *
63550 CAGTTAAGCATGCCTTTAATAAGACGTCTT
1 CAGTTAAGCATGTCTTTAATAAGACGTATT
*
63580 TAGTTAAGCATGTCTTTAATAAGACGTATT
1 CAGTTAAGCATGTCTTTAATAAGACGTATT
63610 CAGTTAAGCATGTCTTTAATAAGAC--ACTT
1 CAGTTAAGCATGTCTTTAATAAGACGTA-TT
**
63639 CCAACTAAGCATGTCTTTAATAAGAC
1 -CAGTTAAGCATGTCTTTAATAAGAC
63665 ACTTCCAACT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
28 1 0.01
29 2 0.03
30 74 0.96
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (30 bp):
CAGTTAAGCATGTCTTTAATAAGACGTATT
Found at i:63616 original size:60 final size:60
Alignment explanation
Indices: 63550--63664 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
63540 AATACGCCTC
* * **
63550 CAGTTAAGCATGCCTTTAATAAGACGTCTT-TAGTTAAGCATGTCTTTAATAAGACGTATT
1 CAGTTAAGCATGCCTTTAATAAGAC-ACTTCCAACTAAGCATGTCTTTAATAAGACGTATT
*
63610 CAGTTAAGCATGTCTTTAATAAGACACTTCCAACTAAGCATGTCTTTAATAAGAC
1 CAGTTAAGCATGCCTTTAATAAGACACTTCCAACTAAGCATGTCTTTAATAAGAC
63665 ACTTCCAACT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 3 0.06
60 46 0.94
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (60 bp):
CAGTTAAGCATGCCTTTAATAAGACACTTCCAACTAAGCATGTCTTTAATAAGACGTATT
Found at i:63632 original size:15 final size:15
Alignment explanation
Indices: 63554--63662 Score: 66
Period size: 15 Copynumber: 7.3 Consensus size: 15
63544 CGCCTCCAGT
*
63554 TAAGCATGCCTTTAA
1 TAAGCATGTCTTTAA
* *
63569 TAAG-ACGTCTTTAGT
1 TAAGCATGTCTTTA-A
63584 TAAGCATGTCTTTAA
1 TAAGCATGTCTTTAA
* * * *
63599 TAAG-ACGTATTCAGT
1 TAAGCATGTCTTTA-A
63614 TAAGCATGTCTTTAA
1 TAAGCATGTCTTTAA
*
63629 TAAGACA---CTTCCAA
1 TAAG-CATGTCTT-TAA
63643 CTAAGCATGTCTTTAA
1 -TAAGCATGTCTTTAA
63659 TAAG
1 TAAG
63663 ACACTTCCAA
Statistics
Matches: 69, Mismatches: 15, Indels: 20
0.66 0.14 0.19
Matches are distributed among these distances:
13 3 0.04
14 17 0.25
15 28 0.41
16 18 0.26
17 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (15 bp):
TAAGCATGTCTTTAA
Found at i:63665 original size:30 final size:30
Alignment explanation
Indices: 63584--63679 Score: 142
Period size: 30 Copynumber: 3.2 Consensus size: 30
63574 CGTCTTTAGT
**
63584 TAAGCATGTCTTTAATAAGACGTA-TT-CAGT
1 TAAGCATGTCTTTAATAAGAC--ACTTCCAAC
63614 TAAGCATGTCTTTAATAAGACACTTCCAAC
1 TAAGCATGTCTTTAATAAGACACTTCCAAC
63644 TAAGCATGTCTTTAATAAGACACTTCCAAC
1 TAAGCATGTCTTTAATAAGACACTTCCAAC
63674 TAAGCA
1 TAAGCA
63680 CATATTTACC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
28 1 0.02
29 2 0.03
30 59 0.95
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (30 bp):
TAAGCATGTCTTTAATAAGACACTTCCAAC
Found at i:65948 original size:23 final size:23
Alignment explanation
Indices: 65916--65961 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
65906 TATACACACT
*
65916 AATTTTAACACTTAATGGATTGA
1 AATTTCAACACTTAATGGATTGA
* *
65939 AATTTCAACACTTCATTGATTGA
1 AATTTCAACACTTAATGGATTGA
65962 TATAGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (23 bp):
AATTTCAACACTTAATGGATTGA
Found at i:67644 original size:25 final size:24
Alignment explanation
Indices: 67573--67645 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 24
67563 ACAACTAAAT
* *
67573 AATTTAACTAAAAATAAAAT-TTA
1 AATTTAACTAAAAATGAAATATAA
*
67596 AATTTAACTAAAAAAG-AATAATAA
1 AATTTAACTAAAAATGAAAT-ATAA
*
67620 AATTTAAACTAATAATGAAATATAA
1 AATTT-AACTAAAAATGAAATATAA
67645 A
1 A
67646 TATTATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 3 0.07
23 14 0.34
24 7 0.17
25 14 0.34
26 3 0.07
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (24 bp):
AATTTAACTAAAAATGAAATATAA
Found at i:68014 original size:13 final size:13
Alignment explanation
Indices: 67996--68020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67986 TAAATAATCG
67996 GAACCAAAAGTTT
1 GAACCAAAAGTTT
68009 GAACCAAAAGTT
1 GAACCAAAAGTT
68021 AAGAGTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (13 bp):
GAACCAAAAGTTT
Found at i:69056 original size:20 final size:20
Alignment explanation
Indices: 69011--69048 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
69001 TTTGGTTCAC
69011 GGAATATAAGATTACCAGCA
1 GGAATATAAGATTACCAGCA
*
69031 GGAATATAGGATTACCAG
1 GGAATATAAGATTACCAG
69049 AGAGAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATATAAGATTACCAGCA
Found at i:69236 original size:11 final size:11
Alignment explanation
Indices: 69220--69245 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69210 TAACAAGTTG
69220 AATTCTACTAT
1 AATTCTACTAT
69231 AATTCTACTAT
1 AATTCTACTAT
69242 AATT
1 AATT
69246 AATTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCTACTAT
Found at i:71177 original size:22 final size:22
Alignment explanation
Indices: 71152--71193 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
71142 ATTAGTAAAA
*
71152 AGTAAACATTTATAATGTTAAT
1 AGTAAACAATTATAATGTTAAT
*
71174 AGTAAATAATTATAATGTTA
1 AGTAAACAATTATAATGTTA
71194 TGGTACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
AGTAAACAATTATAATGTTAAT
Found at i:75775 original size:20 final size:20
Alignment explanation
Indices: 75750--75791 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
75740 TATTTAAAGT
75750 ATACATTTTGCTAGAAAAAC
1 ATACATTTTGCTAGAAAAAC
75770 ATACATTTTGCTAGAAAAAC
1 ATACATTTTGCTAGAAAAAC
75790 AT
1 AT
75792 TAACCTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (20 bp):
ATACATTTTGCTAGAAAAAC
Found at i:79963 original size:31 final size:31
Alignment explanation
Indices: 79928--80019 Score: 121
Period size: 31 Copynumber: 3.0 Consensus size: 31
79918 TAAAAAATAG
79928 ATGTCTAACGTTTTCTCCGTTACACTTTTAA
1 ATGTCTAACGTTTTCTCCGTTACACTTTTAA
* *
79959 ATGTCTAACGTTTTCTCCATTACACTTTTAG
1 ATGTCTAACGTTTTCTCCGTTACACTTTTAA
* * * * *
79990 ATGCCTAATGTTTTATCTGTTACATTTTTA
1 ATGTCTAACGTTTTCTCCGTTACACTTTTA
80020 TGTGCCTACT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.48
Consensus pattern (31 bp):
ATGTCTAACGTTTTCTCCGTTACACTTTTAA
Found at i:82820 original size:2 final size:2
Alignment explanation
Indices: 82813--82838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82803 CATAAACAAT
82813 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
82839 ATCTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:84111 original size:11 final size:11
Alignment explanation
Indices: 84075--84111 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
84065 TAGAATATGC
84075 ATATATTATAA
1 ATATATTATAA
84086 ATA-ATTA-AA
1 ATATATTATAA
*
84095 AAATATTATAA
1 ATATATTATAA
84106 ATATAT
1 ATATAT
84112 ATTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 4 0.18
10 8 0.36
11 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATATTATAA
Found at i:87106 original size:28 final size:28
Alignment explanation
Indices: 87066--87121 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
87056 TAATTTAATT
*
87066 AAAACCCTATAAATTACATCATAAACTC
1 AAAAACCTATAAATTACATCATAAACTC
* *
87094 AAAAACCTATAAATTATATCCTAAACTC
1 AAAAACCTATAAATTACATCATAAACTC
87122 TATAAACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (28 bp):
AAAAACCTATAAATTACATCATAAACTC
Found at i:90371 original size:42 final size:41
Alignment explanation
Indices: 90308--90392 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 41
90298 AATCACCATA
90308 GACTACTTAAAAAATTAAAACTTTCTTTGTAACTCTCTTTT
1 GACTACTTAAAAAATTAAAACTTTCTTTGTAACTCTCTTTT
90349 GACTACTTAAAAAAATTAAAACTTTCTTTGTAACTCTCTTTT
1 GACTACTT-AAAAAATTAAAACTTTCTTTGTAACTCTCTTTT
90391 GA
1 GA
90393 TTACGGTAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 8 0.19
42 35 0.81
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (41 bp):
GACTACTTAAAAAATTAAAACTTTCTTTGTAACTCTCTTTT
Found at i:92645 original size:6 final size:6
Alignment explanation
Indices: 92634--93831 Score: 2312
Period size: 6 Copynumber: 201.7 Consensus size: 6
92624 CTATCTCTCT
92634 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
92682 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
92730 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
92778 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
92824 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
92872 ATATAC --ATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
92916 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
92964 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93012 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93060 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93108 ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93154 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93202 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93250 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93298 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93346 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93394 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93442 ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93488 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93536 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93584 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93632 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93678 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93726 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93774 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
93822 ATATAC ATAT
1 ATATAC ATAT
93832 GGGTAGGATC
Statistics
Matches: 1180, Mismatches: 0, Indels: 24
0.98 0.00 0.02
Matches are distributed among these distances:
4 24 0.02
6 1156 0.98
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:95563 original size:25 final size:25
Alignment explanation
Indices: 95529--95579 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
95519 CACGCCAAGG
*
95529 ATGGAAGTCAAGGGAACACTCTCTT
1 ATGGAAGTCAAGGGAACACACTCTT
*
95554 ATGGAAGTCAAGGGAGCACACTCTT
1 ATGGAAGTCAAGGGAACACACTCTT
95579 A
1 A
95580 CTCTTTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
ATGGAAGTCAAGGGAACACACTCTT
Found at i:101198 original size:24 final size:24
Alignment explanation
Indices: 101153--101199 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
101143 AGCAGATTTG
* *
101153 TTAAATAAATGAAGAAATATAAAT
1 TTAAATAAATAAAGAAACATAAAT
* *
101177 TTAATTAAATAAATAAACATAAA
1 TTAAATAAATAAAGAAACATAAA
101200 CAAACAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
TTAAATAAATAAAGAAACATAAAT
Found at i:101259 original size:22 final size:22
Alignment explanation
Indices: 101154--101263 Score: 76
Period size: 22 Copynumber: 4.7 Consensus size: 22
101144 GCAGATTTGT
* * *
101154 TAAATAAATGAAGAAATATAAA
1 TAAATAAATAAATAAACATAAA
*
101176 TTTAATTAAATAAATAAACATAAA
1 --TAAATAAATAAATAAACATAAA
* * * *
101200 CAAACAAATTATTAAACATAAA
1 TAAATAAATAAATAAACATAAA
* *
101222 TGAACATATTATTAAATGAACATAAA
1 T-AA-ATA--AATAAATAAACATAAA
101248 TAAATAAATAAATAAA
1 TAAATAAATAAATAAA
101264 TGTTTTACTT
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
22 25 0.38
23 2 0.03
24 23 0.35
25 2 0.03
26 13 0.20
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (22 bp):
TAAATAAATAAATAAACATAAA
Found at i:106704 original size:25 final size:24
Alignment explanation
Indices: 106676--106722 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
106666 TTTTAAAATA
106676 AAATATTAGGGGAATTTTTTTATTC
1 AAATATTA-GGGAATTTTTTTATTC
* *
106701 AAATATTATGTAATTTTTTTAT
1 AAATATTAGGGAATTTTTTTAT
106723 AGAATGAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (24 bp):
AAATATTAGGGAATTTTTTTATTC
Found at i:107754 original size:20 final size:20
Alignment explanation
Indices: 107729--107779 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
107719 CGGATGAGCA
107729 CAAAACCGGTAAAGAACCGG
1 CAAAACCGGTAAAGAACCGG
* *
107749 CAAAACCGG-GATGAACCGG
1 CAAAACCGGTAAAGAACCGG
107768 CTGAAAACCGGT
1 C--AAAACCGGT
107780 GTAAACCGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.35
20 9 0.35
21 8 0.31
ACGTcount: A:0.39, C:0.25, G:0.27, T:0.08
Consensus pattern (20 bp):
CAAAACCGGTAAAGAACCGG
Found at i:108416 original size:50 final size:51
Alignment explanation
Indices: 108369--108465 Score: 117
Period size: 52 Copynumber: 1.9 Consensus size: 51
108359 GTGATATTTT
* * *
108369 TATACCTTTTAATA-T-TGTAAACTTAAAAAAAAGTGTTATATATATATTAA
1 TATACCTTTGAATATTATGTAAAATTAAAAAAAA-TATTATATATATATTAA
** *
108419 TATTGCTTTGAATATTATGTAAAATTAAAAAAAATATTATTTATATA
1 TATACCTTTGAATATTATGTAAAATTAAAAAAAATATTATATATATA
108466 AAATCCGGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
50 11 0.28
51 12 0.31
52 16 0.41
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (51 bp):
TATACCTTTGAATATTATGTAAAATTAAAAAAAATATTATATATATATTAA
Found at i:117529 original size:2 final size:2
Alignment explanation
Indices: 117522--117553 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
117512 CACCATCTTC
117522 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117554 CAATAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117543 original size:13 final size:13
Alignment explanation
Indices: 117525--117550 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117515 CATCTTCATA
117525 TATATATATATAT
1 TATATATATATAT
117538 TATATATATATAT
1 TATATATATATAT
117551 ATACAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:117543 original size:15 final size:15
Alignment explanation
Indices: 117523--117552 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
117513 ACCATCTTCA
117523 TATATATATATATAT
1 TATATATATATATAT
117538 TATATATATATATAT
1 TATATATATATATAT
117553 ACAATAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:119065 original size:30 final size:32
Alignment explanation
Indices: 119024--119167 Score: 95
Period size: 32 Copynumber: 4.6 Consensus size: 32
119014 ATTATAATGA
* *
119024 TTGTAAAATTTCTAT-AAA-CTAATGA-TCATT
1 TTGTAACATTTCGATAAAATCTAATGACT-ATT
*
119054 TTGTAACATTTCGATAAAATTTAATGACTATT
1 TTGTAACATTTCGATAAAATCTAATGACTATT
** * *
119086 TTGTAACA-AACTGATAAAATTTAATGAC-CTT
1 TTGTAACATTTC-GATAAAATCTAATGACTATT
* * * * * *
119117 TTCTAAAAATTCAAT-AAATTTAATGACTATC
1 TTGTAACATTTCGATAAAATCTAATGACTATT
119148 TTGTAACAATTT-GATAAAAT
1 TTGTAAC-ATTTCGATAAAAT
119168 TGGTGAGCAA
Statistics
Matches: 89, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
30 25 0.28
31 22 0.25
32 41 0.46
33 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (32 bp):
TTGTAACATTTCGATAAAATCTAATGACTATT
Found at i:119087 original size:32 final size:32
Alignment explanation
Indices: 119043--119168 Score: 118
Period size: 32 Copynumber: 4.0 Consensus size: 32
119033 TTCTATAAAC
119043 TAATGA-TCATTTTGTAACATTTCGATAAAATT
1 TAATGACT-ATTTTGTAACATTTCGATAAAATT
**
119075 TAATGACTATTTTGTAACA-AACTGATAAAATT
1 TAATGACTATTTTGTAACATTTC-GATAAAATT
* * * * *
119107 TAATGAC-CTTTTCTAAAAATTCAAT-AAATT
1 TAATGACTATTTTGTAACATTTCGATAAAATT
*
119137 TAATGACTATCTTGTAACAATTT-GATAAAATT
1 TAATGACTATTTTGTAAC-ATTTCGATAAAATT
119169 GGTGAGCAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
30 12 0.16
31 19 0.26
32 42 0.57
33 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (32 bp):
TAATGACTATTTTGTAACATTTCGATAAAATT
Found at i:119841 original size:22 final size:21
Alignment explanation
Indices: 119815--119855 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
119805 TTATAATTAT
119815 TTATATGTATA-TATGATTTTTA
1 TTATAT-TATACTAT-ATTTTTA
119837 TTATATTATACTATATTTT
1 TTATATTATACTATATTTT
119856 CCTTACGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATATTATACTATATTTTTA
Found at i:123596 original size:16 final size:15
Alignment explanation
Indices: 123581--123638 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
123571 TCAAAATAAT
123581 TTTTATTATATTTAA
1 TTTTATTATATTTAA
* * * *
123596 TATATATAATTTTTTA
1 T-TTTATTATATTTAA
123612 TTTTATTATAATTTAA
1 TTTTATTAT-ATTTAA
*
123628 CTTTATTATAT
1 TTTTATTATAT
123639 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
15 9 0.28
16 23 0.72
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTATTATATTTAA
Found at i:123619 original size:31 final size:35
Alignment explanation
Indices: 123581--123650 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
123571 TCAAAATAAT
123581 TTTTATTAT-ATTTAA-TATA-TATA-ATTTTTTA
1 TTTTATTATAATTTAACTATATTATATATTTTTTA
*
123612 TTTTATTATAATTTAACTTTATTATATATTTTTTA
1 TTTTATTATAATTTAACTATATTATATATTTTTTA
123647 TTTT
1 TTTT
123651 TAAATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 9 0.26
32 6 0.18
33 3 0.09
34 4 0.12
35 12 0.35
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (35 bp):
TTTTATTATAATTTAACTATATTATATATTTTTTA
Found at i:123623 original size:18 final size:18
Alignment explanation
Indices: 123600--123650 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
123590 ATTTAATATA
123600 TATAATTTTTTATTTTAT
1 TATAATTTTTTATTTTAT
* *
123618 TATAA--TTTAACTTTAT
1 TATAATTTTTTATTTTAT
123634 TATATATTTTTTATTTT
1 TATA-ATTTTTTATTTT
123651 TAAATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
18 5 0.19
19 7 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TATAATTTTTTATTTTAT
Found at i:131403 original size:19 final size:19
Alignment explanation
Indices: 131365--131408 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
131355 GTTCAAAAAA
*
131365 TTAATAATTATTTAAAATT
1 TTAATAATTATATAAAATT
*
131384 TTAATAATTATATAATATT
1 TTAATAATTATATAAAATT
131403 TTAATA
1 TTAATA
131409 TAATTCAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATAATTATATAAAATT
Found at i:132424 original size:182 final size:183
Alignment explanation
Indices: 132097--132463 Score: 623
Period size: 182 Copynumber: 2.0 Consensus size: 183
132087 ATGCATAAAA
132097 TTATATTGGGATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAATCGT
1 TTATATTGGGATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAATCGT
*
132162 TTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAATCATATACGTTTAAGCATCAACATC
66 TTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAACCATATACGTTTAAGCATCAACATC
132227 TCATTAGTATCTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTTAT
131 TCATTAGTATCTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTTAT
* * *
132280 TTATATTGGGAGATTCATCTACCAAAATCATGTTTCGATACATG-TCTTACTTCTTACCTCAATC
1 TTATATT-GG-GATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAATC
*
132344 GTTTTGTTTCAAACTAAGATTTGTAAGAG-A-AAAATCTAAACCATATACGTTTAAGCATCAACA
64 GTTTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAACCATATACGTTTAAGCATCAACA
* * *
132407 TTTCATTAGTATCTTTTATTAAGGGTTATCTACCGGATTAATAGCTTCTCTTTAT
129 TCTCATTAGTATCTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTTAT
132462 TT
1 TT
132464 TTGTACCCTT
Statistics
Matches: 174, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
182 86 0.49
183 8 0.05
184 49 0.28
185 31 0.18
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (183 bp):
TTATATTGGGATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAATCGT
TTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAACCATATACGTTTAAGCATCAACATC
TCATTAGTATCTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTTAT
Found at i:134033 original size:23 final size:23
Alignment explanation
Indices: 134003--134065 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
133993 ACTTTACAAC
134003 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
134026 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
134049 TACCTATTACATCATAT
1 TACCTATTACATTATAT
134066 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:134495 original size:475 final size:480
Alignment explanation
Indices: 133605--136499 Score: 5069
Period size: 473 Copynumber: 6.1 Consensus size: 480
133595 TTATAATATG
* *
133605 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTTTAAAGTTATGTAA-TTATG
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT-A-CTCTTTTTAAAGTTATGTAATTTATG
*
133669 TTTCAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTG
64 TTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
* *
133732 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAACAAT
129 CACAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
133797 ATTAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATAT
194 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
*
133860 ATCGTAACGT-AAAAATAAATAATTAGACGCCTATAATTACTAAATTAATATCTT-AAACTCACT
259 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
133923 CAAAATATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
324 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
133988 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
389 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
134053 TATTACATCATATTTTTACCTATTATA
454 TATTACATCATATTTTTACCTATTATA
134080 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
134145 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA-TTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
134208 CAAAAAAATATTTGA-TGTTTTGATA-TTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
134271 TAACCAAAGATAATAAT-AATATGTAATATATATATGTTTATTGTTTTTAATTTAATAATAATAT
196 TAACCAAAGATAATAATAAATATGT-A-ATATATATGTTTATTGTTTTTAATTTAATAATAATAT
134335 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
259 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
134400 CAAAA-ATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAATATGGACACTTTTATAAAAAGGA
324 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
134464 TATATAC-TTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
389 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
134528 TATTACATCATA-TTTTACCTA-TATA
454 TATTACATCATATTTTTACCTATTATA
* * *
134553 TTGAAAGTGTTCATATTTTTTATAAAAAGGACCGATACTCTTTTTAAAGTTATGTAA-TTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
134617 TCAATTTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
134681 CAAAAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAA
131 C---AAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAA
134746 TATTAACCAAAGATAATAATAAATATGTAATATATATATGTTTATTGTTTTTAATTTAATAATAA
193 TATTAACCAAAGATAATAATAAATATGT-A-ATATATATGTTTATTGTTTTTAATTTAATAATAA
*
134811 TATATCGTAAACGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTT-AAACT
256 TATATCGT-AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
134875 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
320 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
134940 A-GATAGATACTTTACAACTACCTATTACATTAT-TAAACGATACCTATTAC---ATATAAGCGC
385 AGGATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGC
135000 TACCTATTACATCATATTTTTACCTATTATA
450 TACCTATTACATCATATTTTTACCTATTATA
* *
135031 TTGAAAGTGTTCATACTTTTTATAAAAAGGACCGATACTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
135096 TCAATTTTTTTTAATAGTG-TT--TGTTTTCCACCTACAATATTAATTTAATAA-TTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
135157 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
135222 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATAT
*
135287 ATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACT
259 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
135352 CAAAA-ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC-TTTATAAAAAGGA
324 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
135415 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACT
389 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
135480 TATTAAATCATATTTTTACCTATTATA
454 TATTACATCATATTTTTACCTATTATA
* *
135507 TTGAAAGTGTCCATAC-TTTTATAAAAATGATCGATATTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
*
135571 TCAACTTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
135635 -AAAAAAATTATTTGATTG-TTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
131 CAAAAAAA-TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
135698 TTAACCAAAGATAAT-ATAAATATGTAATATATATGTTTATTGTTTTTAA-TT--TAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
135759 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC-CAACT
260 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTC-ACT
*
135823 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGTACACTTTTATAAAAAGGA
324 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
135888 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTGCC
389 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
135953 TATTACATCATATTTTTACCTATTATA
454 TATTACATCATATTTTTACCTATTATA
135980 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
*
136045 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
136110 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
136175 TAATCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATAT
*
136240 ATCGTAACGCAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
259 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
136305 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
324 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
136370 TAGATACTTTACAACTACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACC
389 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
136435 TATTACATCATATTTTTACCTATTATA
454 TATTACATCATATTTTTACCTATTATA
136462 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACT
136500 TACGAAGTAT
Statistics
Matches: 2326, Mismatches: 44, Indels: 94
0.94 0.02 0.04
Matches are distributed among these distances:
470 1 0.00
471 120 0.05
472 269 0.12
473 363 0.16
474 110 0.05
475 316 0.14
476 315 0.14
477 186 0.08
478 141 0.06
479 117 0.05
480 129 0.06
481 23 0.01
482 235 0.10
483 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (480 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
GATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
TTACATCATATTTTTACCTATTATA
Found at i:134506 original size:23 final size:23
Alignment explanation
Indices: 134478--134540 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
134468 TACTTACAAC
134478 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
134501 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
134524 TACCTATTACATCATAT
1 TACCTATTACATTATAT
134541 TTTACCTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:135005 original size:20 final size:21
Alignment explanation
Indices: 134957--135011 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
134947 TACTTTACAA
134957 CTACCTATTACATTATTAAACG
1 CTACCTATTACA-TATTAAACG
* *
134979 ATACCTATTACATA-TAAGCG
1 CTACCTATTACATATTAAACG
134999 CTACCTATTACAT
1 CTACCTATTACAT
135012 CATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 17 0.57
21 2 0.07
22 11 0.37
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (21 bp):
CTACCTATTACATATTAAACG
Found at i:135492 original size:23 final size:23
Alignment explanation
Indices: 135429--135484 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
135419 TACTTTACAA
135429 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
135452 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
135475 CTACTTATTA
1 CTACCTATTA
135485 AATCATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:135933 original size:23 final size:23
Alignment explanation
Indices: 135903--135965 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
135893 ACTTTACAAC
135903 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
135926 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
135949 TGCCTATTACATCATAT
1 TACCTATTACATTATAT
135966 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:136419 original size:23 final size:23
Alignment explanation
Indices: 136389--136447 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
136379 TACAACTACC
136389 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
136412 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
136435 TATTACATCATAT
1 TATTACATTATAT
136448 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:136552 original size:17 final size:18
Alignment explanation
Indices: 136530--136572 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
136520 ATATATCCGG
136530 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
136547 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
136567 TATCAT
1 TATCAT
136573 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:136741 original size:20 final size:19
Alignment explanation
Indices: 136714--136773 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
136704 TCCGGTAACG
136714 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
136733 TTGTTACCGGTTTTATCATA
1 TT-TTACCGGTTTTATCATT
*
136753 TTTTACCTGG-TATATCATT
1 TTTTACC-GGTTTTATCATT
136772 TT
1 TT
136774 AATATTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:137274 original size:23 final size:23
Alignment explanation
Indices: 137244--137306 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
137234 ACTTTACAAC
137244 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
137267 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
137290 TACCTATTACATTATAT
1 TACCTATTACATTATAT
137307 TTTACCTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:138210 original size:475 final size:477
Alignment explanation
Indices: 137052--138313 Score: 2308
Period size: 475 Copynumber: 2.6 Consensus size: 477
137042 GGTAACGTTT
*
137052 TAAATATGT-ATATATATGTTTATTGTTTTTAATTTAATAATATATATATCGTAACGTAAAAAAT
1 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATATATATATCATAACGTAAAAAAT
*
137116 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
66 AAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
* *
137181 TTAATGTTTTCCACAATGAAAAAGGTATGTACACTTTTATAAAAAGGATAGATACTTTACAACTA
131 TTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTA
*
137246 CCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATTATATTTTA
196 CCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACA-TAT-TTTTA
137311 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTA
259 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTA
*
137376 ATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTT
324 ATTTATATTTCAATTTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTT
137441 CATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTT
389 CATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTT
137506 AACAATATTAACCAATGATAATAA
454 AACAATATTAACCAATGATAATAA
*
137530 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATA-ATATATCATAAAGTAAAAAAT
1 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATATATATATCATAACGTAAAAAAT
137594 AAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
66 AAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
137659 TTAATGTTTTCCACAATG-AAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTA
131 TTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTA
137723 CCTATTACATTATATAAACGATACATA-TACATTATATAAGCGCTACCTATTACATATTTTTACC
196 CCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATATTTTTACC
*
137787 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAAT
261 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAAT
137852 TTATATTTCAATTTTTTTTAATAGTG-TTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
326 TTATATTTCAATTTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTC
137916 ATTTACAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTA
390 ATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTA
137980 ACAATATTAACCAATGATAATAA
455 ACAATATTAACCAATGATAATAA
138003 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCATAACGTAAAAAA
1 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-ATATATATCATAACGTAAAAAA
*
138068 TAAATTATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
65 TAAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
138133 ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTAT-AAAAGGATAGATACTTTACAACT
130 ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACT
138197 ACCTATTACATTATATAAACGATACATATTACA-T-TATAAGCGCTACCTATTACATCATTTTTT
195 ACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACAT-A--TTTT
*
138260 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACATTTT
257 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTT
138314 GAAGCAATTG
Statistics
Matches: 763, Mismatches: 12, Indels: 19
0.96 0.02 0.02
Matches are distributed among these distances:
473 127 0.17
474 157 0.21
475 158 0.21
476 52 0.07
477 126 0.17
478 110 0.14
479 33 0.04
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (477 bp):
TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATATATATATCATAACGTAAAAAAT
AAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
TTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTA
CCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATATTTTTACC
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAAT
TTATATTTCAATTTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCA
TTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAA
CAATATTAACCAATGATAATAA
Found at i:138247 original size:21 final size:22
Alignment explanation
Indices: 138195--138251 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
138185 TACTTTACAA
138195 CTACCTATTACATTATATAAACG
1 CTACCTATTACA-TATATAAACG
* * *
138218 ATACATATTACAT-TATAAGCG
1 CTACCTATTACATATATAAACG
138239 CTACCTATTACAT
1 CTACCTATTACAT
138252 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 18 0.62
22 1 0.03
23 10 0.34
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (22 bp):
CTACCTATTACATATATAAACG
Found at i:138935 original size:17 final size:18
Alignment explanation
Indices: 138913--138955 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
138903 ATATATCCGG
138913 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
138930 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
138950 TATCAT
1 TATCAT
138956 ATTTTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:139852 original size:227 final size:229
Alignment explanation
Indices: 139191--140132 Score: 1668
Period size: 227 Copynumber: 4.1 Consensus size: 229
139181 ACTTTTATAC
*
139191 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
* *
139256 TTTTTAATAGTGTTTCATGTTTTTCACTTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
139321 TTA-TTGATTAATTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
* *
139384 GATAATAATAAATATGTTTTCCACAGTAAAATGA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
139418 GTATGAACACTTTTATAAAAATGATATATA--TTTTTT-AAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
139480 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
139545 TTATTTGATTATTTGATATTTTAT-AAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
139609 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
139643 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
139708 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
139773 TTATTTGATTATTTGATATTTTAT-AAA-ATTATTTAGAATTTAAATTTAACAATATTAACAAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
**
139836 GATAATAATAAATATGTTTTCCTTAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
139870 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
139935 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
140000 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
131 TTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAA
*
140065 AGATAATAATAAATATATTTT-CACAGTGAAATAA
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
* * *
140099 GTATGTACACTTTTATAAAAAGGATAGATACTTT
1 GTATGAACACTTTTATAAAAATGATATATACTTT
140133 ACAATATAAC
Statistics
Matches: 689, Mismatches: 18, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
224 92 0.13
225 120 0.17
226 5 0.01
227 242 0.35
228 131 0.19
229 45 0.07
230 54 0.08
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (229 bp):
GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:140263 original size:17 final size:17
Alignment explanation
Indices: 140241--140276 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
140231 GGATAGATAC
140241 TTACCGATAACCAAAGT
1 TTACCGATAACCAAAGT
* *
140258 TTACCGGTTACCAAAGT
1 TTACCGATAACCAAAGT
140275 TT
1 TT
140277 TAATAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (17 bp):
TTACCGATAACCAAAGT
Found at i:159314 original size:20 final size:18
Alignment explanation
Indices: 159289--159339 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 18
159279 AAATCAGAGT
159289 TTTAAATATATATAGTTAA-A
1 TTTAAATA-ATAT--TTAATA
159309 TTTAAACTAATATTTAATA
1 TTTAAA-TAATATTTAATA
159328 TTTAAATTAATA
1 TTTAAA-TAATA
159340 ATTAGACTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 10 0.36
21 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAAATAATATTTAATA
Found at i:159332 original size:19 final size:18
Alignment explanation
Indices: 159304--159339 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
159294 ATATATATAG
159304 TTAAATTTAAACTAATAT
1 TTAAATTTAAACTAATAT
*
159322 TTAATATTTAAATTAATA
1 TTAA-ATTTAAACTAATA
159340 ATTAGACTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTTAAACTAATAT
Found at i:161504 original size:2 final size:2
Alignment explanation
Indices: 161497--161529 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
161487 TATTAATACA
161497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
161530 AAGGCTATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:162149 original size:22 final size:22
Alignment explanation
Indices: 162106--162149 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
162096 TTTCTAATAA
*
162106 TTTTGTCTTTATAACATATTTT
1 TTTTGTCTTTATAACACATTTT
* *
162128 TTTTGTCTTTATGACACGTTTT
1 TTTTGTCTTTATAACACATTTT
162150 CTCCTGCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTTGTCTTTATAACACATTTT
Found at i:164874 original size:20 final size:19
Alignment explanation
Indices: 164837--164885 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
164827 TTAAAATATC
*
164837 AAAATATT-CAAAAAAAAT
1 AAAATATTAAAAAAAAAAT
164855 AAAATATTAAAAATAAAAAT
1 AAAATATTAAAAA-AAAAAT
* *
164875 TAATTATTAAA
1 AAAATATTAAA
164886 CTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATATTAAAAAAAAAAT
Found at i:170932 original size:2 final size:2
Alignment explanation
Indices: 170925--170966 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
170915 AACTATTTTA
170925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
170967 GAAACTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172888 original size:54 final size:56
Alignment explanation
Indices: 172787--172895 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 56
172777 ACTGATTCGT
* *
172787 TATAAATCGATAACATTAGTGATCAATTTGTTACTTTTAAAACTTAGTGTAGTAAGC
1 TATAAATCGATAACATTAGT-ATCAATTTATTACTTTTAAAACTTAGTGAAGTAAGC
*
172844 TATAAATCGATAACATTAGT-T-AATTTATTGCTTTTAAAACTTAGTGAAGTAA
1 TATAAATCGATAACATTAGTATCAATTTATTACTTTTAAAACTTAGTGAAGTAA
172896 TCGAACACTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
54 28 0.57
55 1 0.02
57 20 0.41
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (56 bp):
TATAAATCGATAACATTAGTATCAATTTATTACTTTTAAAACTTAGTGAAGTAAGC
Found at i:176065 original size:21 final size:22
Alignment explanation
Indices: 176041--176089 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
176031 TTAAGCGTCC
176041 ATTATGTT-ATGTATTTATT-TT
1 ATTATGTTCAT-TATTTATTATT
*
176062 ATTATTTTCATTATTTATTACTT
1 ATTATGTTCATTATTTATTA-TT
176085 ATTAT
1 ATTAT
176090 ACAATTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 15 0.62
22 2 0.08
23 7 0.29
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTATGTTCATTATTTATTATT
Found at i:176473 original size:49 final size:49
Alignment explanation
Indices: 176402--176499 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
176392 AGGTGAGGTG
176402 GGTGCAGAAAGGAGAGTTCCAATATTATTATATGCAGGAAAAAAATCCA
1 GGTGCAGAAAGGAGAGTTCCAATATTATTATATGCAGGAAAAAAATCCA
176451 GGTGCAGAAAGGAGAGTTCCAATATTATTATATGCAGGAAAAAAATCCA
1 GGTGCAGAAAGGAGAGTTCCAATATTATTATATGCAGGAAAAAAATCCA
176500 AAGAAACGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (49 bp):
GGTGCAGAAAGGAGAGTTCCAATATTATTATATGCAGGAAAAAAATCCA
Found at i:178883 original size:15 final size:15
Alignment explanation
Indices: 178839--178885 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
178829 TAACCTCATC
178839 AACATAAAGATTATA
1 AACATAAAGATTATA
**
178854 AACATTTA-A-TATA
1 AACATAAAGATTATA
178867 AACATAAAGATTATA
1 AACATAAAGATTATA
178882 AACA
1 AACA
178886 ATCAATTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 14 0.54
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.28
Consensus pattern (15 bp):
AACATAAAGATTATA
Found at i:179359 original size:123 final size:121
Alignment explanation
Indices: 179158--179424 Score: 335
Period size: 123 Copynumber: 2.2 Consensus size: 121
179148 TTTTAATATT
* *
179158 TTTAATACTTAAACTTACAATTTTTTAAAATTATACATAATGTTTAGTTTTTGTTTCATTTTAGT
1 TTTAATACTTAAACTTACAATTTTTTAAAATTATACATAACGTTTAGTTTTTGTATCATTTTAGT
* *
179223 ACCTCTCCATTAAAAATTTAATGCGTTTAGTACCTAAATTA-TAGTTTTAGTCTGA
66 ACCTCTCCATTAAAAATTTAACGCGTTTAGTACCTAAAATATTAGTTTTAGTCTGA
** * * *
179278 TTTAATACTTAAACTTTTAATTTTTTTTAAATTTATACCTAACGTTTAATTTTTTGTATCATTTT
1 TTTAATACTTAAACTTACAA--TTTTTTAAAATTATACATAACGTTT-AGTTTTTGTATCATTTT
* * *
179343 ATTACCTC-CCTATTAAAAATTTAACGCGTTTAGTACCTAAAATATTAGTTTTGGTC-CA
63 AGTACCTCTCC-ATTAAAAATTTAACGCGTTTAGTACCTAAAATATTAGTTTTAGTCTGA
*
179401 TTTCAATACATAAATCTT-CAATTT
1 TTT-AATACTTAAA-CTTACAATTT
179425 AAGTATGATA
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
120 18 0.14
122 27 0.21
123 57 0.45
124 21 0.17
125 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (121 bp):
TTTAATACTTAAACTTACAATTTTTTAAAATTATACATAACGTTTAGTTTTTGTATCATTTTAGT
ACCTCTCCATTAAAAATTTAACGCGTTTAGTACCTAAAATATTAGTTTTAGTCTGA
Found at i:182375 original size:25 final size:26
Alignment explanation
Indices: 182331--182380 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
182321 GTTGTTTATA
*
182331 GGATTGGGGTTTAGTTCTTTATAGAT
1 GGATTGGGGTGTAGTTCTTTATAGAT
182357 GGATTGGGG-GTAGTTCTTTATAGA
1 GGATTGGGGTGTAGTTCTTTATAGA
182381 AAGATTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.42
Consensus pattern (26 bp):
GGATTGGGGTGTAGTTCTTTATAGAT
Found at i:182386 original size:25 final size:26
Alignment explanation
Indices: 182332--182388 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
182322 TTGTTTATAG
* **
182332 GATTGGGGTTTAGTTCTTTATAGATG
1 GATTGGGGTGTAGTTCTTTATAGAAA
182358 GATTGGGG-GTAGTTCTTTATAGAAA
1 GATTGGGGTGTAGTTCTTTATAGAAA
182383 GATTGG
1 GATTGG
182389 TTTTTTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.40
Consensus pattern (26 bp):
GATTGGGGTGTAGTTCTTTATAGAAA
Found at i:182487 original size:107 final size:107
Alignment explanation
Indices: 182300--182615 Score: 444
Period size: 107 Copynumber: 3.0 Consensus size: 107
182290 TATTAGTGCT
* * *
182300 ATAAGTAGGATGCAATGTAACGTTGTTTATAGGATTGGGGTTTAGTTCTTTATAGAT-GGATTGG
1 ATAAGTAGGATGCAATGTAACTTTG-TTATAGGATTGGGG-TTAGTTCTTTTTAGATGGGATTCG
* **
182364 GGGTAGTTCTTTATAGAAAGATTGGTTTTTTTTAGTTATATGCA
64 AGGTAGTTCTTTATAGAAAGATTGGAGTTTTTTAGTTATATGCA
* *
182408 ATAAGTAGGATGCAATGTAATTTTGTTATAGGATTGGGGTTAGTTCTTTTTAGATGGGATTCTAG
1 ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGGTTAGTTCTTTTTAGATGGGATTCGAG
* *
182473 GTAGTTCTTTATAGAAAGATTGGAGTTTTTTAGTTGTGTGCA
66 GTAGTTCTTTATAGAAAGATTGGAGTTTTTTAGTTATATGCA
182515 ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGGTTAGTTCTTTTTAGAT-GGATT-G-G
1 ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGGTTAGTTCTTTTTAGATGGGATTCGAG
* * **
182577 GGAGTTCTTTTTAGATGGATT-GAGGTTTTTTAGTTATAT
66 GTAGTTCTTTATAGAAAGATTGGA-GTTTTTTAGTTATAT
182616 TCAGTGTAAC
Statistics
Matches: 188, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
103 2 0.01
104 31 0.16
106 20 0.11
107 112 0.60
108 23 0.12
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.43
Consensus pattern (107 bp):
ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGGTTAGTTCTTTTTAGATGGGATTCGAG
GTAGTTCTTTATAGAAAGATTGGAGTTTTTTAGTTATATGCA
Found at i:182573 original size:25 final size:25
Alignment explanation
Indices: 182545--182603 Score: 95
Period size: 23 Copynumber: 2.4 Consensus size: 25
182535 CTTTGTTATA
182545 GGATTGGGGTTAGTTCTTTTTAGAT
1 GGATTGGGGTTAGTTCTTTTTAGAT
182570 GGATTGGGG--AGTTCTTTTTAGAT
1 GGATTGGGGTTAGTTCTTTTTAGAT
*
182593 GGATTGAGGTT
1 GGATTGGGGTT
182604 TTTTAGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 22 0.71
25 9 0.29
ACGTcount: A:0.17, C:0.03, G:0.36, T:0.44
Consensus pattern (25 bp):
GGATTGGGGTTAGTTCTTTTTAGAT
Found at i:182608 original size:19 final size:21
Alignment explanation
Indices: 182559--182609 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
182549 TGGGGTTAGT
*
182559 TCTTTTTAGATGGATTGGGGAGT
1 TCTTTTTAGATGGATT--GGAGG
182582 TCTTTTTAGATGGATT-GAGG
1 TCTTTTTAGATGGATTGGAGG
182602 T-TTTTTAG
1 TCTTTTTAG
182610 TTATATTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 7 0.26
20 4 0.15
23 16 0.59
ACGTcount: A:0.18, C:0.04, G:0.29, T:0.49
Consensus pattern (21 bp):
TCTTTTTAGATGGATTGGAGG
Found at i:182739 original size:26 final size:26
Alignment explanation
Indices: 182710--182763 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
182700 CAATGTAACT
*
182710 TTCTTTATAGATGGATTGGGGTTTAG
1 TTCTTTATAGAAGGATTGGGGTTTAG
182736 TTCTTTATAGAAGGATTGGGGTTTAG
1 TTCTTTATAGAAGGATTGGGGTTTAG
182762 TT
1 TT
182764 TTCAGGCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (26 bp):
TTCTTTATAGAAGGATTGGGGTTTAG
Found at i:183569 original size:28 final size:28
Alignment explanation
Indices: 183536--183595 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
183526 GAGCAGGATT
183536 AATGAAGGCCCTTTGAGCTTTCAGGAGC
1 AATGAAGGCCCTTTGAGCTTTCAGGAGC
*
183564 AATGAAGGCCCTTTGATCTTTCAGGAGC
1 AATGAAGGCCCTTTGAGCTTTCAGGAGC
183592 AATG
1 AATG
183596 CATAAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (28 bp):
AATGAAGGCCCTTTGAGCTTTCAGGAGC
Found at i:191332 original size:24 final size:24
Alignment explanation
Indices: 191290--191340 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
191280 TATTTTTTTT
* *
191290 TATCATTTTTACTATTAAAATAAAC
1 TATCATTTTTACAAATAAAAT-AAC
191315 TATCATTTTTA-AAATAAAATAAC
1 TATCATTTTTACAAATAAAATAAC
191338 TAT
1 TAT
191341 GTTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.25
24 7 0.29
25 11 0.46
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (24 bp):
TATCATTTTTACAAATAAAATAAC
Found at i:192135 original size:20 final size:20
Alignment explanation
Indices: 192110--192148 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
192100 TAATTTTTTC
* *
192110 AAAATAATAATTAAATAATT
1 AAAATAAAAACTAAATAATT
192130 AAAATAAAAACTAAATAAT
1 AAAATAAAAACTAAATAAT
192149 GCGTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATAAAAACTAAATAATT
Found at i:198640 original size:9 final size:9
Alignment explanation
Indices: 198628--198664 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
198618 ACCAATTCAA
198628 CAAGAACAG
1 CAAGAACAG
198637 CAAGAACAG
1 CAAGAACAG
198646 CAAGAACAG
1 CAAGAACAG
198655 CAAGAACAG
1 CAAGAACAG
198664 C
1 C
198665 CCCCGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.54, C:0.24, G:0.22, T:0.00
Consensus pattern (9 bp):
CAAGAACAG
Found at i:198751 original size:6 final size:6
Alignment explanation
Indices: 198739--198799 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
198729 GGAAGAGGAG
* *
198739 GTAGAA GTTGAA GAAGAA GTAGAA GTAGAA GTAGAA GTAGAA G-AGGAA
1 GTAGAA GTAGAA GTAGAA GTAGAA GTAGAA GTAGAA GTAGAA GTA-GAA
* *
198787 GTTGAA GTTGAA G
1 GTAGAA GTAGAA G
198800 AAGACGAGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 1 0.02
6 47 0.98
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (6 bp):
GTAGAA
Found at i:198751 original size:18 final size:18
Alignment explanation
Indices: 198724--198800 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
198714 GCATCTACAG
* *
198724 GAAGTGGAAGAGGAGGTA
1 GAAGTTGAAGAGGAAGTA
*
198742 GAAGTTGAAGAAGAAGTA
1 GAAGTTGAAGAGGAAGTA
198760 GAAG-T----A-GAAGTA
1 GAAGTTGAAGAGGAAGTA
* *
198772 GAAGTAGAAGAGGAAGTT
1 GAAGTTGAAGAGGAAGTA
198790 GAAGTTGAAGA
1 GAAGTTGAAGA
198801 AGACGAGGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
12 10 0.21
13 1 0.02
17 2 0.04
18 34 0.72
ACGTcount: A:0.45, C:0.00, G:0.39, T:0.16
Consensus pattern (18 bp):
GAAGTTGAAGAGGAAGTA
Found at i:200461 original size:31 final size:31
Alignment explanation
Indices: 200411--200546 Score: 105
Period size: 32 Copynumber: 4.4 Consensus size: 31
200401 AATTTTATCA
* * *
200411 AATTGTTACAAGATAGTCATTAAATTTATTG
1 AATTTTTACAAAATGGTCATTAAATTTATTG
* *
200442 AATTTTTAGAAAATGGTCATTAAATTT-TATC
1 AATTTTTACAAAATGGTCATTAAATTTAT-TG
* * *
200473 AGTTTGTTACAAAATAGTCATTAAATTTTATCG
1 AATTT-TTACAAAATGGTCATTAAA-TTTATTG
* * * * *
200506 AAATGTTACAAAATGATCATT-AGTTTATAG
1 AATTTTTACAAAATGGTCATTAAATTTATTG
*
200536 AAATTTTACAA
1 AATTTTTACAA
200547 TCATTATAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
30 17 0.20
31 29 0.35
32 31 0.37
33 5 0.06
34 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (31 bp):
AATTTTTACAAAATGGTCATTAAATTTATTG
Found at i:200487 original size:32 final size:32
Alignment explanation
Indices: 200401--200527 Score: 143
Period size: 32 Copynumber: 4.0 Consensus size: 32
200391 TTTGCTCACC
*
200401 AATTTTATCAAATTGTTACAAGATAGTCATTA
1 AATTTTATCAAATTGTTACAAAATAGTCATTA
** * * *
200433 AA-TTTATTGAATTTTTAGAAAATGGTCATTA
1 AATTTTATCAAATTGTTACAAAATAGTCATTA
**
200464 AATTTTATCAGTTTGTTACAAAATAGTCATTA
1 AATTTTATCAAATTGTTACAAAATAGTCATTA
200496 AATTTTATCGAAA-TGTTACAAAAT-GATCATTA
1 AATTTTATC-AAATTGTTACAAAATAG-TCATTA
200528 GTTTATAGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
31 26 0.34
32 50 0.65
33 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (32 bp):
AATTTTATCAAATTGTTACAAAATAGTCATTA
Found at i:200500 original size:63 final size:64
Alignment explanation
Indices: 200401--200527 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 64
200391 TTTGCTCACC
* * * * * *
200401 AATTTTATCAAATTGTTACAAGATAGTCATTAAA-TTTATTGAATTTTTAGAAAATGGTCATTA
1 AATTTTATCAAATTGTTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
**
200464 AATTTTATCAGTTTGTTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
1 AATTTTATCAAATTGTTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
200528 GTTTATAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 31 0.56
64 24 0.44
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (64 bp):
AATTTTATCAAATTGTTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
Found at i:202016 original size:2 final size:2
Alignment explanation
Indices: 202009--202039 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
201999 GTTTATTGTG
202009 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
202040 GAAGATGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:209716 original size:4 final size:4
Alignment explanation
Indices: 209707--209737 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
209697 AATGGCAGAT
209707 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
209738 TGTACTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:211838 original size:16 final size:18
Alignment explanation
Indices: 211817--211849 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
211807 TCTTTGAGGG
211817 TAAAT-ATTTTA-AAATA
1 TAAATAATTTTATAAATA
211833 TAAATAATTTTATAAAT
1 TAAATAATTTTATAAAT
211850 TTTGTATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATAATTTTATAAATA
Found at i:212175 original size:14 final size:14
Alignment explanation
Indices: 212158--212203 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
212148 TAAAATATTA
212158 TTTTTAATATTAAT
1 TTTTTAATATTAAT
212172 TTTTTAAAATATT-A-
1 TTTTT--AATATTAAT
212186 TTTTTAATATTAAT
1 TTTTTAATATTAAT
212200 TTTT
1 TTTT
212204 AAAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.21
13 1 0.04
14 14 0.50
15 1 0.04
16 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTAATATTAAT
Found at i:212179 original size:28 final size:28
Alignment explanation
Indices: 212146--212211 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
212136 CATCTCTTTA
212146 TTTAAAATATTATTTTTAATATTAATTT
1 TTTAAAATATTATTTTTAATATTAATTT
212174 TTTAAAATATTATTTTTAATATTAATTT
1 TTTAAAATATTATTTTTAATATTAATTT
*
212202 TTAAAAATAT
1 TTTAAAATAT
212212 AAAATAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTAAAATATTATTTTTAATATTAATTT
Found at i:212196 original size:12 final size:13
Alignment explanation
Indices: 212151--212205 Score: 69
Period size: 12 Copynumber: 4.2 Consensus size: 13
212141 CTTTATTTAA
212151 AATATT-ATTTTT
1 AATATTAATTTTT
212163 AATATTAATTTTTT
1 AATATTAA-TTTTT
212177 AAAATATT-ATTTTT
1 --AATATTAATTTTT
212191 AATATTAATTTTT
1 AATATTAATTTTT
212204 AA
1 AA
212206 AAATATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
12 12 0.32
13 9 0.24
14 10 0.26
15 1 0.03
16 6 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATATTAATTTTT
Found at i:212221 original size:27 final size:28
Alignment explanation
Indices: 212163--212228 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
212153 TATTATTTTT
* *** *
212163 AATATTAATTTTTTAAAATATTATTTTT
1 AATATTAATTTTTAAAAATATTAAAATA
212191 AATATTAATTTTTAAAAATA-TAAAATA
1 AATATTAATTTTTAAAAATATTAAAATA
212218 AATATTGAATT
1 AATATT-AATT
212229 CTAATTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
AATATTAATTTTTAAAAATATTAAAATA
Found at i:212441 original size:12 final size:12
Alignment explanation
Indices: 212403--212441 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
212393 ATTTTAAAAA
*
212403 ATAAATATTAGTT
1 ATAAA-ATTATTT
212416 ATAAAATT-TTT
1 ATAAAATTATTT
212427 ATAAAATTATTT
1 ATAAAATTATTT
212439 ATA
1 ATA
212442 TTTTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 10 0.42
12 9 0.38
13 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
ATAAAATTATTT
Found at i:215152 original size:27 final size:27
Alignment explanation
Indices: 215114--215178 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
215104 AAAACAGTGT
* *
215114 TGAATGATTCAGCACAGAAGTACATTC
1 TGAATGATTCAGCACAAAAATACATTC
215141 TGAATGATTCAGCACAAAAATACATTC
1 TGAATGATTCAGCACAAAAATACATTC
*
215168 TGAATTATTCA
1 TGAATGATTCA
215179 TAGCCATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (27 bp):
TGAATGATTCAGCACAAAAATACATTC
Found at i:220721 original size:13 final size:13
Alignment explanation
Indices: 220703--220729 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
220693 TTCCATCACC
220703 GCTCATAATATTT
1 GCTCATAATATTT
220716 GCTCATAATATTT
1 GCTCATAATATTT
220729 G
1 G
220730 TTTTAAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (13 bp):
GCTCATAATATTT
Found at i:223758 original size:2 final size:2
Alignment explanation
Indices: 223753--223784 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
223743 TAGATAATTG
223753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
223785 TGATATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:231218 original size:29 final size:29
Alignment explanation
Indices: 231176--231257 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
231166 GTGATGGCCA
231176 TAGGACGCCATGCAATCCAGGCGATCTTG
1 TAGGACGCCATGCAATCCAGGCGATCTTG
231205 TAGGACGCCATGCAATCCAGGCGATCTTG
1 TAGGACGCCATGCAATCCAGGCGATCTTG
231234 TAGGACGCCATGCAATCCAGGCGA
1 TAGGACGCCATGCAATCCAGGCGA
231258 CATACGGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (29 bp):
TAGGACGCCATGCAATCCAGGCGATCTTG
Found at i:231284 original size:21 final size:21
Alignment explanation
Indices: 231258--231304 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
231248 ATCCAGGCGA
*
231258 CATACGGGGTGACATACGAGC
1 CATACGGGGTAACATACGAGC
231279 CATACGGGGTAACATACGAGC
1 CATACGGGGTAACATACGAGC
231300 CATAC
1 CATAC
231305 AAGCCATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.28, T:0.15
Consensus pattern (21 bp):
CATACGGGGTAACATACGAGC
Found at i:231373 original size:28 final size:28
Alignment explanation
Indices: 231333--231389 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
231323 ATGAGCCAAT
*
231333 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGTCTTAGACGA
231361 GGAGAGGTCGCCATGCAGTCTTAGACGA
1 GGAGAGGTCGCCATGCAGTCTTAGACGA
231389 G
1 G
231390 TCATACGAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.35, T:0.19
Consensus pattern (28 bp):
GGAGAGGTCGCCATGCAGTCTTAGACGA
Found at i:231461 original size:29 final size:29
Alignment explanation
Indices: 231429--231510 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
231419 CAGCCTGGGT
231429 GACCTTGTAGGTCGCCATGTAGTCCCGGC
1 GACCTTGTAGGTCGCCATGTAGTCCCGGC
231458 GACCTTGTAGGTCGCCATGTAGTCCCGGC
1 GACCTTGTAGGTCGCCATGTAGTCCCGGC
**
231487 GACCAAGTAGGTCGCCATGTAGTC
1 GACCTTGTAGGTCGCCATGTAGTC
231511 TCATGTAGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.17, C:0.29, G:0.30, T:0.23
Consensus pattern (29 bp):
GACCTTGTAGGTCGCCATGTAGTCCCGGC
Found at i:231873 original size:25 final size:26
Alignment explanation
Indices: 231823--231873 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
231813 CTTGGTCGCC
* **
231823 GAGATTGCAGCCGAAGAAAGGGAGAA
1 GAGATTACAGCCGAAGAAAGAAAGAA
231849 GAGATTACAGCCG-AGAAAGAAAGAA
1 GAGATTACAGCCGAAGAAAGAAAGAA
231874 AGGGAGAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.47, C:0.12, G:0.33, T:0.08
Consensus pattern (26 bp):
GAGATTACAGCCGAAGAAAGAAAGAA
Found at i:232074 original size:41 final size:41
Alignment explanation
Indices: 232029--232117 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
232019 TATATGATTG
* *
232029 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
232070 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
232111 TTAGTTT
1 TTAGTTT
232118 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:232142 original size:49 final size:50
Alignment explanation
Indices: 232086--232190 Score: 146
Period size: 47 Copynumber: 2.2 Consensus size: 50
232076 TATGTTTGAT
* *
232086 AGTTATATAGTTAAAAAA-TAATTAATTAGTTTGT-TTTGTT-AATAGTT-
1 AGTTATATA-TAAAAAAATTAATTAATTAGTTTGTGTTAGTTAAATAGTTA
*
232133 AGTTATATATAAAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTA
1 AGTTATATATAAAAAAATTAATTAATTAGTTTGTGTTAGTTAAATAGTTA
232183 AGTTATAT
1 AGTTATAT
232191 TTGTTTGTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
46 7 0.14
47 24 0.47
48 5 0.10
49 7 0.14
50 8 0.16
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (50 bp):
AGTTATATATAAAAAAATTAATTAATTAGTTTGTGTTAGTTAAATAGTTA
Found at i:232267 original size:32 final size:33
Alignment explanation
Indices: 232231--232307 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
232221 TTAGTTAGTA
232231 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
232263 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
232297 ATTTTATTAGT
1 AGTTTATTAGT
232308 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:232385 original size:16 final size:16
Alignment explanation
Indices: 232353--232399 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
232343 TTTAAAAAGT
*
232353 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
232369 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
232385 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
232400 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:232394 original size:15 final size:14
Alignment explanation
Indices: 232374--232404 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
232364 GTTTATTAGT
232374 TTATTATATTATAAG
1 TTATTATATTA-AAG
232389 TTATTATATTAAAG
1 TTATTATATTAAAG
232403 TT
1 TT
232405 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Done.