Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_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: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 37
Found at i:658444 original size:67 final size:67
Alignment explanation
Indices: 658274--658446 Score: 219
Period size: 67 Copynumber: 2.6 Consensus size: 67
658264 GTTTCTCTTG
* * * * * *
658274 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ATAAAATCTTTAAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
658337 TA
66 TA
* *
658339 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
658404 TA
66 TA
*
658406 AAACAAAATTTTGTTTCCCTTGAGATC-GTTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCCTTGAGA-CAGTTTCTCATGAAACA
658447 TATATCTTTG
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
65 33 0.34
66 2 0.02
67 37 0.39
68 23 0.24
69 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.38
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:659306 original size:106 final size:105
Alignment explanation
Indices: 659121--659591 Score: 476
Period size: 106 Copynumber: 4.5 Consensus size: 105
659111 GCCACTCGAG
* * * *
659121 AACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCATCAAACAATTTCCCAGTTTCAGA
1 AACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTT-CCAATTTCA-A
* * *
659186 A-CCAATTTTAACTTCACAGCGAAGGATATTGGATTCAAGAC
64 AGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGAC
** * *
659227 AACACAAATTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAACTTTCCAATTTCAAA
1 AACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAA-TTTCCAATTTCAAA
*
659292 GCCAATTTCAACTTCAC-GCAAATGATATTGGACTCAAG--
65 GCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGAC
* * * ** * **
659330 AGCACAAGCTCAACTTCACAGCGAAGGGGCGATTGATTGTCAACAAACAACTTCCCAATTTCAGG
1 AACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAA-TTTCCAATTTCAAA
* * * *
659395 GCCAATTTTAACTTCCCAGCGAAGGATATTGGACCCAAGAC
65 GCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGAC
* * * * *
659436 AACACAAGATCAACTTCACGACGAAGGGGA-GGCTGATTATCGAC-AA-AATTT-C-A-TTCAGA
1 AACACAAGCTCAACTTCACAACGAA-GGGACGGCTGATTGTCAACAAACAATTTCCAATTTCAAA
* * * * *
659495 GTCAATTTCAACTTTACAACAAAGGATATTAGACTCGAGAC
65 GCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGAC
* ** * *
659536 AGCACAAGCTCAACTTCACAGTGAAGGGGCGGCTGACTGTCAACAAACAATTTCCA
1 AACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCA
659592 GAGCCAATTT
Statistics
Matches: 302, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
99 3 0.01
100 68 0.23
101 3 0.01
102 6 0.02
103 73 0.24
104 20 0.07
105 22 0.07
106 101 0.33
107 6 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (105 bp):
AACACAAGCTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAATTTCCAATTTCAAAG
CCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGAC
Found at i:659405 original size:209 final size:204
Alignment explanation
Indices: 659114--659590 Score: 573
Period size: 209 Copynumber: 2.3 Consensus size: 204
659104 ATATCGTGCC
* * * * * * * *
659114 ACTCGAGAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCATCAAACAATTTCCCAG
1 ACTCAAGAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
**
659179 TTTCAGAACCAATTTTAACTTCACAGCGAAGGATATTGGATTCAAGACAACACAA-ATTCAACTT
66 TTTCAGAACCAATTTTAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGA-TCAACTT
* *
659243 CACAACGAA-GGGACGACTGGTTGTCAACAAACAACTTTCCAATTTCAAAGCCAATTTCAACTTC
130 CACAACGAAGGGGA-GACTGATTATCAAC-AA-AA-TTT-C-A-TTCAAAGCCAATTTCAACTTC
* * *
659307 AC-GCAAATGATATTGG
188 ACAACAAAGGATATTAG
** *
659323 ACTCAAGAGCACAAGCTCAACTTCACAGCGAAGGGGCGATTGATTGTCAACAAACAACTTCCCAA
1 ACTCAAGAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
** *
659388 TTTCAGGGCCAATTTTAACTTCCCAGCGAAGGATATTGGACCCAAGACAACACAAGATCAACTTC
66 TTTCAGAACCAATTTTAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGATCAACTTC
* * * * * *
659453 ACGACGAAGGGGAGGCTGATTATCGACAAAATTTCATTCAGAGTCAATTTCAACTTTACAACAAA
131 ACAACGAAGGGGAGACTGATTATCAACAAAATTTCATTCAAAGCCAATTTCAACTTCACAACAAA
659518 GGATATTAG
196 GGATATTAG
* * *
659527 ACTCGAGACAGCACAAGCTCAACTTCACAGTGAAGGGGCGGCTGACTGTCAACAAACAATTTCC
1 ACTC-A-AGAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGATTGTCAACAAACAATTTCC
659591 AGAGCCAATT
Statistics
Matches: 230, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
203 20 0.09
204 16 0.07
205 2 0.01
206 54 0.23
207 2 0.01
208 2 0.01
209 129 0.56
210 5 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (204 bp):
ACTCAAGAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
TTTCAGAACCAATTTTAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGATCAACTTC
ACAACGAAGGGGAGACTGATTATCAACAAAATTTCATTCAAAGCCAATTTCAACTTCACAACAAA
GGATATTAG
Found at i:659542 original size:100 final size:99
Alignment explanation
Indices: 659182--659628 Score: 298
Period size: 100 Copynumber: 4.4 Consensus size: 99
659172 TTCCCAGTTT
* * * * *
659182 CAGAACCAATTTTAACTTCACAGCGAAGGATATTGGATTCAAGACAACACAA-ATTCAACTTCAC
1 CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCAAGACAACACAAGA-TCAACTTCAC
* * ** *
659246 AACGAA-GGGACGACTGGTTGTCAACAAACAACTTTCC
65 AGCGAAGGGGA-GGCTGACTATCAACAAACAA-TTT-C
* * * * *
659283 AATTTCAAAGCCAATTTCAACTTCAC-GCAAATGATATTGGACTCAAG--AGCACAAGCTCAACT
1 -----CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCAAGACAACACAAGATCAACT
* ** * * *
659345 TCACAGCGAAGGGGCGATTGATTGTCAACAAACAACTTCCCAATTT
61 TCACAGCGAAGGGGAGGCTGACTATCAACAAACAA--T-----TTC
* * * * * *
659391 CAGGGCCAATTTTAACTTCCCAGCGAAGGATATTGGACCCAAGACAACACAAGATCAACTTCAC-
1 CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCAAGACAACACAAGATCAACTTCACA
* *
659455 GACGAAGGGGAGGCTGATTATCGAC-AA-AATTTC
66 G-CGAAGGGGAGGCTGACTATCAACAAACAATTTC
* * * * * *
659488 ATTCAGAGTCAATTTCAACTTTACAACAAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTC
1 ---CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCAAGACAACACAAGATCAACTTC
* * *
659553 ACAGTGAAGGGGCGGCTGACTGTCAACAAACAATTTC
63 ACAGCGAAGGGGAGGCTGACTATCAACAAACAATTTC
* *
659590 CAGAGCCAATTTCAACTTCACGACAGAGGATATTGGACT
1 CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACT
659629 TGGAACAATA
Statistics
Matches: 272, Mismatches: 51, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
97 2 0.01
99 34 0.12
100 70 0.26
101 3 0.01
102 7 0.03
103 56 0.21
104 24 0.09
105 21 0.08
106 53 0.19
109 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (99 bp):
CAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCAAGACAACACAAGATCAACTTCACA
GCGAAGGGGAGGCTGACTATCAACAAACAATTTC
Found at i:660964 original size:21 final size:20
Alignment explanation
Indices: 660939--661005 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
660929 TATATATATA
660939 TATTTAATTATATTTTTTATT
1 TATTTAATTATATTTTTT-TT
*
660960 TATTT-ACTATATTCCTTTTTT
1 TATTTAATTATATT--TTTTTT
*
660981 TATTTATATTATATTATTTTT
1 TATTTA-ATTATATTTTTTTT
661002 TATT
1 TATT
661006 ATATATATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.18
21 21 0.54
22 4 0.10
23 7 0.18
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTTAATTATATTTTTTTT
Found at i:661010 original size:2 final size:2
Alignment explanation
Indices: 661005--661066 Score: 65
Period size: 2 Copynumber: 31.5 Consensus size: 2
660995 TATTTTTTAT
*
661005 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
* * *
661046 TA TA TG TA TG TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
661067 TAATTTTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:661018 original size:21 final size:21
Alignment explanation
Indices: 660949--661038 Score: 65
Period size: 23 Copynumber: 4.0 Consensus size: 21
660939 TATTTAATTA
*
660949 TATTTTTTATTTATTTACTATAT
1 TATTTTTTA-TTATATA-TATAT
*
660972 TCCTTTTTTTATT-TATATTATAT
1 T--ATTTTTTATTATATA-TATAT
*
660995 TATTTTTTATTATATATATCT
1 TATTTTTTATTATATATATAT
**
661016 TATATCATTATATATATATATAT
1 TAT-TTTTTAT-TATATATATAT
661039 ATATATATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
21 16 0.30
22 9 0.17
23 20 0.37
24 2 0.04
25 7 0.13
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTTATTATATATATAT
Found at i:661110 original size:17 final size:17
Alignment explanation
Indices: 661090--661149 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
661080 TTTACTATGT
661090 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
* *
661107 ATATTATATTTTATACGTTTTT
1 ATA-TATATTTT-T---TCTTA
661129 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
661146 ATAT
1 ATAT
661150 TCTATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 1 0.03
20 1 0.03
21 8 0.24
22 6 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATATATTTTTTCTTA
Found at i:661175 original size:39 final size:38
Alignment explanation
Indices: 661089--661173 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 38
661079 ATTTACTATG
661089 TATATATATTTTTTCTTAATATTATATTTTATACGTTTT
1 TATATATATTTTTTCTTAATATTATATTTTATA-GTTTT
*
661128 TATATATATTTTTTCTTAATATTCTATTTT-T-GTTATT
1 TATATATATTTTTTCTTAATATTATATTTTATAGTT-TT
*
661165 TATTTATAT
1 TATATATAT
661174 ATATTATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 3 0.07
37 10 0.23
38 1 0.02
39 29 0.67
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (38 bp):
TATATATATTTTTTCTTAATATTATATTTTATAGTTTT
Found at i:661199 original size:16 final size:17
Alignment explanation
Indices: 661163--661213 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
661153 ATTTTTGTTA
*
661163 TTTATTTATA-TA-TAT
1 TTTATTTTTACTATTAT
*
661178 TATATTTTTACT-TTAT
1 TTTATTTTTACTATTAT
*
661194 TTTATTTTTTCTATTAT
1 TTTATTTTTACTATTAT
661211 TTT
1 TTT
661214 TTTCTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.28
16 14 0.48
17 7 0.24
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTTACTATTAT
Found at i:661202 original size:17 final size:18
Alignment explanation
Indices: 661177--661213 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
661167 TTTATATATA
661177 TTATATTTTTACT-TTATT
1 TTATATTTTT-CTATTATT
661195 TTAT-TTTTTCTATTATT
1 TTATATTTTTCTATTATT
661212 TT
1 TT
661214 TTTCTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 12 0.67
18 4 0.22
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATATTTTTCTATTATT
Found at i:661479 original size:26 final size:27
Alignment explanation
Indices: 661432--661485 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
661422 TTATTTTTAT
661432 TATTTTTTACGTGTTTTGTTATT-TTC
1 TATTTTTTACGTGTTTTGTTATTATTC
* *
661458 TATTTTTT-CTTGTTTTATTTATTATTC
1 TATTTTTTACGTGTTTT-GTTATTATTC
661485 T
1 T
661486 CACATTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 13 0.54
27 4 0.17
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.72
Consensus pattern (27 bp):
TATTTTTTACGTGTTTTGTTATTATTC
Found at i:664051 original size:75 final size:75
Alignment explanation
Indices: 663928--664080 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
663918 GGAGGTTGAA
663928 CAAGGAGATTCTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGTTCTGAAGCTCC
1 CAAGGAGATTCTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGTTCTGAAGCTCC
663993 AAGAACTCGT
66 AAGAACTCGT
664003 CAAGGAGATTCTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGTTCTGAAGCTCC
1 CAAGGAGATTCTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGTTCTGAAGCTCC
664068 AAGAACTCGT
66 AAGAACTCGT
664078 CAA
1 CAA
664081 TCAGATCGTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (75 bp):
CAAGGAGATTCTTCTGAAGCAGAACCAGCACATGATGAACAAGAACCAGAGAGTTCTGAAGCTCC
AAGAACTCGT
Found at i:665800 original size:20 final size:21
Alignment explanation
Indices: 665763--665804 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
665753 GTCATGCAAT
665763 TAATAATAGTTGCATAATGCA
1 TAATAATAGTTGCATAATGCA
*
665784 TAATAATGGTT-CATAATGCA
1 TAATAATAGTTGCATAATGCA
665804 T
1 T
665805 TGTAAGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (21 bp):
TAATAATAGTTGCATAATGCA
Found at i:678132 original size:5 final size:5
Alignment explanation
Indices: 678122--678146 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
678112 AAGCATAATT
678122 GAATC GAATC GAATC GAATC GAATC
1 GAATC GAATC GAATC GAATC GAATC
678147 AGCTCTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
GAATC
Found at i:683172 original size:18 final size:17
Alignment explanation
Indices: 683146--683193 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
683136 AAATGTTTAC
683146 GAAGAAATTGAAATATGT
1 GAAG-AATTGAAATATGT
683164 GAAGTAATTTG-AATATGT
1 GAAG-AA-TTGAAATATGT
683182 -AAGAATTGAAAT
1 GAAGAATTGAAAT
683194 CTAATTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.11
16 5 0.19
17 3 0.11
18 13 0.48
19 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (17 bp):
GAAGAATTGAAATATGT
Found at i:683846 original size:37 final size:38
Alignment explanation
Indices: 683776--683848 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
683766 AACCCAAACC
683776 CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
*
683814 CGACCCTAATATCACACTT-AAAAAACCCGACCCGA
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGA
683849 ACAAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 16 0.47
38 18 0.53
ACGTcount: A:0.40, C:0.37, G:0.10, T:0.14
Consensus pattern (38 bp):
CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
Found at i:684099 original size:32 final size:33
Alignment explanation
Indices: 684033--684107 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
684023 CCGACCAAAA
684033 CCGACCCGAATATCACACTTAAAAAAACCTGAC
1 CCGACCCGAATATCACACTTAAAAAAACCTGAC
684066 CCGACCCGAATATCACACTT-AAAAAA-CTCGAC
1 CCGACCCGAATATCACACTTAAAAAAACCT-GAC
684098 CCGACCCGAA
1 CCGACCCGAA
684108 CAAAATAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
31 2 0.05
32 19 0.46
33 20 0.49
ACGTcount: A:0.40, C:0.36, G:0.11, T:0.13
Consensus pattern (33 bp):
CCGACCCGAATATCACACTTAAAAAAACCTGAC
Found at i:684240 original size:253 final size:248
Alignment explanation
Indices: 683769--684317 Score: 799
Period size: 253 Copynumber: 2.2 Consensus size: 248
683759 CACCCTAAAC
*
683769 CCAAACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCTAATATCACACTTA
1 CCAAA-CCGACCCGAATATCACACTTAAAAAAACCCGA--C--C-CGACCCGAATATCACACTTA
683834 AAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCAAATATATGAATTAGAAATCC
60 AAAAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCAAATATATGAATTAGAAAT--
*
683899 GACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGA
123 --CCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAATGACTTAATCCGA
* * *
683964 CCCGACCCGAATTATATATATTTTCGGGTC-GATCTGGTTTTTTCAACCTAAACTCGAACCCGA
186 CCCGACCCGAATTATATATATTTTCGGGTCTG-TCCGATTTTTTCAACCTAAACCCGAACCCGA
*
684027 CCAAAACCGACCCGAATATCACACTTAAAAAAACCTGACCCGACCCGAATATCACACTTAAAAAA
1 CC-AAACCGACCCGAATATCACACTTAAAAAAACCCGACCCGACCCGAATATCACACTT-AAAAA
*
684092 CTCGACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAAT-C
64 ----ACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCAAATATATGAATTAGAAATCC
*
684156 CGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAATGACTTAATCTGACCCG
125 CGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAATGACTTAATCCGACCCG
*
684221 ACCCGAATTATATATATTTTCGGGTCTGTCCGATTTTTTCACCCTAAACCCGAACCCGA
190 ACCCGAATTATATATATTTTCGGGTCTGTCCGATTTTTTCAACCTAAACCCGAACCCGA
*
684280 -C---CCGACCCGAATAT--CACTTAAAAAAACCCGATCCGACC
1 CCAAACCGACCCGAATATCACACTTAAAAAAACCCGACCCGACC
684318 AAAATAAAGT
Statistics
Matches: 273, Mismatches: 11, Indels: 26
0.88 0.04 0.08
Matches are distributed among these distances:
246 22 0.08
248 13 0.05
252 1 0.00
253 135 0.49
254 7 0.03
256 1 0.00
258 91 0.33
259 3 0.01
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (248 bp):
CCAAACCGACCCGAATATCACACTTAAAAAAACCCGACCCGACCCGAATATCACACTTAAAAAAC
CCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCAAATATATGAATTAGAAATCCCGACCC
GACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGA
ATTATATATATTTTCGGGTCTGTCCGATTTTTTCAACCTAAACCCGAACCCGA
Found at i:684940 original size:29 final size:29
Alignment explanation
Indices: 684897--684952 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
684887 CCATTGAAAC
*
684897 TTATTTATATGAATTAATATTTGTTTTAGA
1 TTATTTATATGAATTAACATTT-TTTTAGA
*
684927 TTATTT-TTTGAATTAACATTTTTTTA
1 TTATTTATATGAATTAACATTTTTTTA
684953 TGTTACATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (29 bp):
TTATTTATATGAATTAACATTTTTTTAGA
Found at i:697085 original size:29 final size:28
Alignment explanation
Indices: 697023--697087 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
697013 TTGAGTCCAT
* * *
697023 CAACTATTGAAGTTATAAAATGGTTCTC
1 CAACTATTAAAGTTACAAAATGGTTCAC
*
697051 CGACTATTAAAAGTTACAAAATGG-TCAAC
1 CAACTATT-AAAGTTACAAAATGGTTC-AC
697080 CAACTATT
1 CAACTATT
697088 CATATGTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (28 bp):
CAACTATTAAAGTTACAAAATGGTTCAC
Found at i:699699 original size:44 final size:44
Alignment explanation
Indices: 699640--699731 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
699630 ACATTAAAAG
* * **
699640 AAAAATATTATATTAATAATTAATATATACCGAATGTTAATTTA
1 AAAAACATCATATTAATAATTAATATATAAAGAATGTTAATTTA
* *
699684 AAAAACATCATATTAATAATTAATATATAAATAATTTTAATTTA
1 AAAAACATCATATTAATAATTAATATATAAAGAATGTTAATTTA
699728 AAAA
1 AAAA
699732 TTATTTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (44 bp):
AAAAACATCATATTAATAATTAATATATAAAGAATGTTAATTTA
Found at i:702469 original size:2 final size:2
Alignment explanation
Indices: 702462--702486 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
702452 TTTTGTTTTA
702462 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 A
702487 ATAGTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:712487 original size:6 final size:6
Alignment explanation
Indices: 712476--712508 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
712466 CGTACTCCTC
712476 CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCC
1 CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCC
712509 TATCTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCCTT
Found at i:714048 original size:20 final size:20
Alignment explanation
Indices: 714012--714051 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
714002 ATTTATAAAA
*
714012 AAATAATTTTAATATATTTT
1 AAATAATTTCAATATATTTT
714032 AAATAATTTCAGA-ATATTTT
1 AAATAATTTCA-ATATATTTT
714052 GGGTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
AAATAATTTCAATATATTTT
Found at i:715749 original size:2 final size:2
Alignment explanation
Indices: 715742--715797 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
715732 TAATCTCCTT
715742 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
715784 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
715798 AACTTATGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:715885 original size:3 final size:3
Alignment explanation
Indices: 715879--715930 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
715869 TCAATTTTTT
** * *
715879 TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
715927 TTA T
1 TTA T
715931 ATTTATTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:715898 original size:12 final size:12
Alignment explanation
Indices: 715881--715949 Score: 57
Period size: 12 Copynumber: 5.3 Consensus size: 12
715871 AATTTTTTTT
715881 ATTATTATTAAA
1 ATTATTATTAAA
*
715893 ATTATTATTATTAGT
1 ATTATTATTA--A-A
*
715908 ATTATTATTATA
1 ATTATTATTAAA
*
715920 ATTATTATTATA
1 ATTATTATTAAA
*
715932 TTTATTTATTAAA
1 ATTA-TTATTAAA
715945 TATTA
1 -ATTA
715950 CAAAGCCCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
12 25 0.54
13 7 0.15
14 4 0.09
15 10 0.22
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:717273 original size:3 final size:3
Alignment explanation
Indices: 717265--717315 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
717255 TATTTATTTA
*
717265 ATT ATT ATT ATT -TT -TT ATT GTT -TT AATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
717307 ATT ATT ATT
1 ATT ATT ATT
717316 TATAAATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
2 8 0.19
3 33 0.77
4 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:717300 original size:17 final size:17
Alignment explanation
Indices: 717265--717318 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
717255 TATTTATTTA
*
717265 ATTATTATTATT-TTTT
1 ATTATTATTATTATTAT
*
717281 ATTGTT-TTAATTATTAT
1 ATTATTATT-ATTATTAT
717298 ATTATTATTATTATTAT
1 ATTATTATTATTATTAT
717315 -TTAT
1 ATTAT
717319 AAATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 2 0.06
16 12 0.38
17 16 0.50
18 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTATTATTATTATTAT
Found at i:717328 original size:2 final size:2
Alignment explanation
Indices: 717316--717357 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
717306 TATTATTATT
* *
717316 TA TA AA TA TA TA TA TA TA TA TA AA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
717357 T
1 T
717358 TTTATTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:717642 original size:16 final size:17
Alignment explanation
Indices: 717612--717648 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
717602 ATATTTTATT
717612 TATATTTTATATATAAA
1 TATATTTTATATATAAA
*
717629 TATATTTT-TATATAAT
1 TATATTTTATATATAAA
717645 TATA
1 TATA
717649 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:717647 original size:26 final size:26
Alignment explanation
Indices: 717598--717648 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
717588 TTCTAAATAA
* *
717598 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATATTATTTATATATTATAT
717624 ATAAATATATT-TTTATATAATTATA
1 ATAAATATATTATTTATAT-ATTATA
717649 ACTTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAAATATATTATTTATATATTATAT
Found at i:722751 original size:88 final size:88
Alignment explanation
Indices: 722600--722760 Score: 304
Period size: 88 Copynumber: 1.8 Consensus size: 88
722590 AATACTCATG
*
722600 TTATATTATTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAATCACCCTGGCTTT
1 TTATATTATTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAATCACCCCGGCTTT
722665 ATGGATAATAGTCAGCTAACCCA
66 ATGGATAATAGTCAGCTAACCCA
*
722688 TTATATTATTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAATCGCCCCGGCTTT
1 TTATATTATTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAATCACCCCGGCTTT
722753 ATGGATAA
66 ATGGATAA
722761 GTTTCAATTA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (88 bp):
TTATATTATTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAATCACCCCGGCTTT
ATGGATAATAGTCAGCTAACCCA
Found at i:725040 original size:113 final size:113
Alignment explanation
Indices: 724799--725109 Score: 462
Period size: 113 Copynumber: 2.7 Consensus size: 113
724789 AATGTGCTCC
* * * * *
724799 TAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGATTTGGCATGAACTCCAAAATCAATC
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATC
* * * *
724864 ATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAAGGAGGCTCAA
66 ATTGGA-TTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACCCAA
*
724913 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCCAAAAACCAAT
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC-AAAACCAAT
724978 CATTGG-TTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACCCAA
65 CATTGGATTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACCCAA
* * *
725026 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCCAGAACCAATC
1 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATC
*
725091 ATTGGAATTGAAATATGAA
66 ATTGG-ATTGAAAGATGAA
725110 CTGCATGATC
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
112 14 0.08
113 90 0.50
114 61 0.34
115 14 0.08
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (113 bp):
TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATC
ATTGGATTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACCCAA
Found at i:727434 original size:22 final size:22
Alignment explanation
Indices: 727409--727491 Score: 130
Period size: 22 Copynumber: 3.8 Consensus size: 22
727399 ATCTACATTC
*
727409 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGAAAGATTCTCTT
727431 TTCAAAGATGAAAGATTCTCTT
1 TTCAAAGATGAAAGATTCTCTT
* * *
727453 TTTAAATATGATAGATTCTCTT
1 TTCAAAGATGAAAGATTCTCTT
727475 TTCAAAGATGAAAGATT
1 TTCAAAGATGAAAGATT
727492 TATGGGATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGAAAGATTCTCTT
Found at i:728289 original size:76 final size:76
Alignment explanation
Indices: 728163--729028 Score: 1540
Period size: 76 Copynumber: 11.4 Consensus size: 76
728153 CTATTTCCCA
* *
728163 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACATCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
728228 AGCCTTCGGGT
66 AGCCTTCGGGT
728239 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
728303 AGCCTTCGGGT
66 AGCCTTCGGGT
*
728314 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG-TTTTTGATGTTTTAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-CA
* *
728378 AAACCTTAGGGT
65 AAGCCTTCGGGT
*
728390 CATCTGTAAGTCTTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
728455 AAACCTTAGGGT
65 AAGCCTTCGGGT
728467 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
728532 AGCCTTCGGGT
66 AGCCTTCGGGT
**
728543 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAATTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
728608 AGCCTTAGGGT
66 AGCCTTCGGGT
728619 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
728684 AGCCTTCGGGT
66 AGCCTTCGGGT
*
728695 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
728760 AGCCTTCGGGT
66 AGCCTTCGGGT
728771 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
728836 AGCCTTC-GGT
66 AGCCTTCGGGT
728846 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
728911 AGCCTTCGGGT
66 AGCCTTCGGGT
*
728922 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
728987 AAACCTTCGGGT
65 AAGCCTTCGGGT
* *
728999 CATCTGTAAGCCCTTCAGTGCCTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
729029 TCAACATTTC
Statistics
Matches: 762, Mismatches: 22, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
74 13 0.02
75 135 0.18
76 486 0.64
77 128 0.17
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:729156 original size:3 final size:3
Alignment explanation
Indices: 729150--729214 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
729140 TCAATTTTTT
** * *
729150 TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
729198 TTA TATA TTA TTTA TTA
1 TTA T-TA TTA -TTA TTA
729215 AATATTACAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:730526 original size:16 final size:15
Alignment explanation
Indices: 730505--730590 Score: 61
Period size: 15 Copynumber: 5.7 Consensus size: 15
730495 TTTAATACTA
*
730505 TATTTTTATTTCCTTT
1 TATTTTTATTT-ATTT
730521 TATTTTTATTTATTT
1 TATTTTTATTTATTT
* *
730536 TATTATTA-TTATTA
1 TATTTTTATTTATTT
730550 T-TTTTTATTGT-TTT
1 TATTTTTATT-TATTT
* *
730564 AATTATTATTTTATTAT
1 TATTTTTA-TTTATT-T
*
730581 TATTATTATT
1 TATTTTTATT
730591 ATAAAAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
13 5 0.09
14 9 0.16
15 17 0.30
16 17 0.30
17 8 0.14
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:730543 original size:3 final size:3
Alignment explanation
Indices: 730520--730592 Score: 75
Period size: 3 Copynumber: 25.3 Consensus size: 3
730510 TTATTTCCTT
* *
730520 TTA TTT TTA TTTA TT- TTA TTA TTA TTA TTA TT- TT- TTA TTG TT-
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
730562 TTAA TTA TTA TT- TTA TTA TTA TTA TTA TTA T
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T
730593 AAAAATAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
2 10 0.16
3 46 0.75
4 5 0.08
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:730922 original size:16 final size:17
Alignment explanation
Indices: 730892--730928 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
730882 ATATTTTATT
730892 TATATTTTATATATAAA
1 TATATTTTATATATAAA
*
730909 TATATTTT-TATATAAT
1 TATATTTTATATATAAA
730925 TATA
1 TATA
730929 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:730927 original size:26 final size:26
Alignment explanation
Indices: 730878--730928 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
730868 TTCTAAATAA
* *
730878 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATATTATTTATATATTATAT
730904 ATAAATATATT-TTTATATAATTATA
1 ATAAATATATTATTTATAT-ATTATA
730929 ACTTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAAATATATTATTTATATATTATAT
Found at i:734835 original size:42 final size:41
Alignment explanation
Indices: 734679--734865 Score: 171
Period size: 42 Copynumber: 4.5 Consensus size: 41
734669 GCCTGATACT
* * * *
734679 ATGGAGACTGACCAAAGTGTCGCAAAG-AGTGTGGCTAAGCTG
1 ATGGGGACTGACCAAAGTGTCACAAAGAACT-T-GCTAAGCCG
** * *
734721 ATGGGGACTGACCAAAGTGTCGGAAAGAACGATGCTAAGCTG
1 ATGGGGACTGACCAAAGTGTCACAAAGAAC-TTGCTAAGCCG
* * *
734763 TTGGGAACTGACCAAAAG-GTCACAAGGAACTTGACTAAGCCG
1 ATGGGGACTGACC-AAAGTGTCACAAAGAACTTG-CTAAGCCG
* *
734805 ATGGGGACTGACCAAAGTGTCACAAAGAACTTGCCTGAGCCT
1 ATGGGGACTGACCAAAGTGTCACAAAGAACTTG-CTAAGCCG
* *
734847 AAGGAGACTGACCAAAGTG
1 ATGGGGACTGACCAAAGTG
734866 ATATCTACTG
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
41 6 0.05
42 109 0.90
43 6 0.05
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (41 bp):
ATGGGGACTGACCAAAGTGTCACAAAGAACTTGCTAAGCCG
Found at i:734857 original size:84 final size:85
Alignment explanation
Indices: 734655--734862 Score: 210
Period size: 84 Copynumber: 2.5 Consensus size: 85
734645 TGAGACACAA
* ** * * * *
734655 GTCACAAAGAGCTTGCCTGATACTATGGAGACTGACC-AAAGTGTCGCAAAGAGTGTGGCTAAGC
1 GTCACAAAGAACTTGCCTGAGCCTAAGGAGACTGACCAAAAGTGTCACAAAGACTGTGACTAAGC
*
734719 TGATGGGGACTGACCAAAGT
66 CGATGGGGACTGACCAAAGT
** * * * ** *
734739 GTCGGAAAGAACGATG-CTAAGCTGTTGGGA-ACTGACCAAAAG-GTCACAAGGAACT-TGACTA
1 GTCACAAAGAAC-TTGCCTGAGC-CTAAGGAGACTGACCAAAAGTGTCACAAAG-ACTGTGACTA
734800 AGCCGATGGGGACTGACCAAAGT
63 AGCCGATGGGGACTGACCAAAGT
734823 GTCACAAAGAACTTGCCTGAGCCTAAGGAGACTGACCAAA
1 GTCACAAAGAACTTGCCTGAGCCTAAGGAGACTGACCAAA
734863 GTGATATCTA
Statistics
Matches: 96, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
83 6 0.06
84 78 0.81
85 12 0.12
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (85 bp):
GTCACAAAGAACTTGCCTGAGCCTAAGGAGACTGACCAAAAGTGTCACAAAGACTGTGACTAAGC
CGATGGGGACTGACCAAAGT
Found at i:741899 original size:77 final size:72
Alignment explanation
Indices: 741755--741900 Score: 166
Period size: 77 Copynumber: 2.0 Consensus size: 72
741745 TATTATTTTT
* * * * **
741755 TTAATATTTTTGATAAAAAAATTATTTAAAATATTTTTTTATCTGAAATGTTATTATTGAATGTT
1 TTAATATATTTGATAAAAAAATTATTAAAAATATTTTTTTATCTAAAATGTTAATATTGAACATT
741820 TTATTTG
66 TTATTTG
** *
741827 TTAATATATTTGATAAAATCATTACTTAAAATATTATTTTTTTTTACATAAAATGTTAATATTGA
1 TTAATATATTTGATAAAAAAATTA-TTAAAA-A-TATTTTTTTAT-C-TAAAATGTTAATATTGA
741892 ACATTTTAT
61 ACATTTTAT
741901 CAAAAATATT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
72 21 0.35
73 5 0.08
74 1 0.02
75 10 0.17
76 1 0.02
77 22 0.37
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.52
Consensus pattern (72 bp):
TTAATATATTTGATAAAAAAATTATTAAAAATATTTTTTTATCTAAAATGTTAATATTGAACATT
TTATTTG
Found at i:744649 original size:6 final size:6
Alignment explanation
Indices: 744636--744670 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
744626 AACACCGCCA
* *
744636 CCTCCG CCTTCG CCCCCG CCTCCG CCTCCG CCTCC
1 CCTCCG CCTCCG CCTCCG CCTCCG CCTCCG CCTCC
744671 AGCAGCTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.69, G:0.14, T:0.17
Consensus pattern (6 bp):
CCTCCG
Found at i:745040 original size:6 final size:6
Alignment explanation
Indices: 745029--745073 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
745019 TTCCACCATT
* **
745029 CCGCCA CCGCCA CCGCCA CCTCCA CCGCCA ATGCCA CCGCCA CCG
1 CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCG
745074 TCCTCCGTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.18, C:0.62, G:0.16, T:0.04
Consensus pattern (6 bp):
CCGCCA
Found at i:746733 original size:17 final size:18
Alignment explanation
Indices: 746697--746737 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
746687 ATATTATGTA
*
746697 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
746715 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
746732 TTTACT
1 TTTACT
746738 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:752028 original size:51 final size:51
Alignment explanation
Indices: 751922--752035 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
751912 CCCTACGTGG
* * ** *
751922 CATATAGCGCAGATCAGAGGGCGCGCTATACTCACGTGTAAGCCATGTCAG
1 CATATAGCGCGGATCAGAGGGCGCGCTATACCCACGTGTAAGCCAAATCAA
* *
751973 CATATAGCGCGG-TACAGGGGGCGCGCTATACCCCACGTG-ACGCCAAATCAA
1 CATATAGCGCGGAT-CAGAGGGCGCGCTATA-CCCACGTGTAAGCCAAATCAA
*
752024 CATATAACGCGG
1 CATATAGCGCGG
752036 GGCAAAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 1 0.02
51 45 0.85
52 7 0.13
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (51 bp):
CATATAGCGCGGATCAGAGGGCGCGCTATACCCACGTGTAAGCCAAATCAA
Found at i:759892 original size:23 final size:22
Alignment explanation
Indices: 759830--759906 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 22
759820 ATATGCAATC
*
759830 ATTTTTTTAAATTTTTATATAATTTA
1 ATTTTTTTATATTTTTAT-TAA---A
759856 GATTTTTTTATATTTTTATTAAA
1 -ATTTTTTTATATTTTTATTAAA
*
759879 TATTTATTTT-TATTTTTCTTAAA
1 -ATTT-TTTTATATTTTTATTAAA
759902 ATTTT
1 ATTTT
759907 ATAAGTTTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.02
22 4 0.09
23 17 0.37
24 4 0.09
26 3 0.07
27 17 0.37
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (22 bp):
ATTTTTTTATATTTTTATTAAA
Found at i:766725 original size:22 final size:21
Alignment explanation
Indices: 766700--766764 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
766690 TTTTAATAAT
766700 TTTATCTTTATGACACGTTTTC
1 TTTATCTTT-TGACACGTTTTC
* *
766722 TTTA-CTTTTGTGACATGATATTC
1 TTTATC-TTT-TGACACG-TTTTC
* *
766745 TCTGTCTTTTGACACGTTTT
1 TTTATCTTTTGACACGTTTT
766765 TATTCGGTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
21 4 0.12
22 19 0.58
23 9 0.27
24 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (21 bp):
TTTATCTTTTGACACGTTTTC
Found at i:767914 original size:14 final size:13
Alignment explanation
Indices: 767895--767924 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
767885 GAACTATTGT
767895 TTATAATTATACAA
1 TTATAATTATA-AA
767909 TTATAATTATAAA
1 TTATAATTATAAA
767922 TTA
1 TTA
767925 ATTGTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTATAATTATAAA
Found at i:779963 original size:8 final size:8
Alignment explanation
Indices: 779950--779990 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
779940 CTCATTTTCA
779950 GAGAATTT
1 GAGAATTT
779958 GAGAATTT
1 GAGAATTT
*
779966 -AGAGTTT
1 GAGAATTT
*
779973 GGGAATTT
1 GAGAATTT
779981 GAGAATTT
1 GAGAATTT
779989 GA
1 GA
779991 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:780289 original size:128 final size:128
Alignment explanation
Indices: 780061--780945 Score: 1635
Period size: 128 Copynumber: 6.9 Consensus size: 128
780051 TAATCGGAGT
* *
780061 ACTATTCACATGAATGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
780126 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
780189 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
780254 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
780317 ACTATTCACATGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATGATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
780382 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * *
780445 ACTATTCACATGAAGGCTCGTTCCCGGGGGGGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
* *
780510 CATTGCCCTATTATGTCCCTCATGTCCCTCGGGGACACTAGATATATAAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * *
780573 ACTATTCACATGAAGGCGCATTCCCGGGGGTGCGCATTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
780638 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
780701 ACTATTCACATGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
780766 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
780829 ACTATTCACATGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
780894 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
780946 AATCAGGTAA
Statistics
Matches: 733, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 733 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:781385 original size:34 final size:34
Alignment explanation
Indices: 781347--781446 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 34
781337 AAATTTAATG
*
781347 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
781381 TTAAA-TTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* *
781414 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAATTTATATTTTAAA
781447 AACATTTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:782054 original size:21 final size:21
Alignment explanation
Indices: 781966--782059 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
781956 TATGGTATAA
*
781966 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
* *
781987 AA-CCTGGCGGGCTAGGCATAT
1 AACCCT-GCGGGCTAGGAATGT
782008 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
782029 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
782050 AACCCTGCGG
1 AACCCTGCGG
782060 AGATGGCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 61 0.91
22 3 0.04
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:782089 original size:21 final size:21
Alignment explanation
Indices: 782063--782110 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
782053 CCTGCGGAGA
*
782063 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
782084 TGGCATATTAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
782105 GGGCAT
1 TGGCAT
782111 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.38, T:0.27
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:783855 original size:19 final size:18
Alignment explanation
Indices: 783831--783918 Score: 62
Period size: 19 Copynumber: 5.0 Consensus size: 18
783821 TTAATAATTC
*
783831 TAAATAAATAATAATT-A
1 TAAATAAATAATATTTAA
*
783848 T--ATAAATATTATTTTAA
1 TAAATAAATAATA-TTTAA
*
783865 TAAAAAAATAATATTTACA
1 TAAATAAATAATATTTA-A
783884 TAAATAAATTAATA--TAA
1 TAAATAAA-TAATATTTAA
*
783901 AAAAT-AATAACTATTTAA
1 TAAATAAATAA-TATTTAA
783919 AAAAATACTA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 12 0.21
16 6 0.11
17 8 0.14
18 9 0.16
19 16 0.29
20 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATAAATAATATTTAA
Found at i:783876 original size:34 final size:31
Alignment explanation
Indices: 783831--783924 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 31
783821 TTAATAATTC
* *
783831 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA--A-ATTAA
* *
783865 TAAAAAAATAATATTTACATAAATAAATTAA
1 TAAAAAAATAATAATTATATAAATAAATTAA
* * *
783896 TATAAAAAATAATAACTATTTAAAAAAAT
1 TA-AAAAAATAATAATTATATAAATAAAT
783925 ACTAACATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
31 6 0.12
32 22 0.44
34 22 0.44
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATAAATTAA
Found at i:788943 original size:21 final size:24
Alignment explanation
Indices: 788894--788950 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
788884 AACATTTTTG
788894 TTTTAAAT-TA-TTATTAATTATA
1 TTTTAAATATATTTATTAATTATA
788916 TTTTAAATATATTTATTAA-TA-A
1 TTTTAAATATATTTATTAATTATA
*
788938 TTTAAAATATATT
1 TTTTAAATATATT
788951 ATAACTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 21 0.66
23 4 0.12
24 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTAAATATATTTATTAATTATA
Found at i:788952 original size:21 final size:23
Alignment explanation
Indices: 788898--788969 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
788888 TTTTTGTTTT
*
788898 AAAT-TATTATTAATTATATTTT
1 AAATATATTATTAATTATATTTA
788920 AAATATATTTATTAA-TA-ATTTA
1 AAATATA-TTATTAATTATATTTA
* *
788942 AAATATATTA-TAACTATAATTGA
1 AAATATATTATTAATTAT-ATTTA
788965 AAATA
1 AAATA
788970 CAACTAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 3 0.07
21 5 0.12
22 15 0.35
23 13 0.30
24 7 0.16
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (23 bp):
AAATATATTATTAATTATATTTA
Found at i:789630 original size:20 final size:20
Alignment explanation
Indices: 789605--789642 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
789595 TCTTCTAACA
789605 ATTTCTAAC-TTCCCTAACTG
1 ATTTCTAACATT-CCTAACTG
789625 ATTTCTAACATTCCTAAC
1 ATTTCTAACATTCCTAAC
789643 AACCTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTCTAACATTCCTAACTG
Found at i:794214 original size:20 final size:20
Alignment explanation
Indices: 794189--794226 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
794179 TCTTCTAACA
794189 ATTTCTAAC-TTCCCTAACTG
1 ATTTCTAACATT-CCTAACTG
794209 ATTTCTAACATTCCTAAC
1 ATTTCTAACATTCCTAAC
794227 AACCTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTCTAACATTCCTAACTG
Found at i:794217 original size:30 final size:30
Alignment explanation
Indices: 794170--794226 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
794160 AGGTAAACTG
*
794170 CCTAACTAATCTTCTAACAATTTCTAACTTC
1 CCTAACTAATCTTCTAAC-ATTCCTAACTTC
*
794201 CCTAACTGAT-TTCTAACATTCCTAAC
1 CCTAACTAATCTTCTAACATTCCTAAC
794227 AACCTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 7 0.29
31 9 0.38
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.37
Consensus pattern (30 bp):
CCTAACTAATCTTCTAACATTCCTAACTTC
Found at i:794675 original size:32 final size:32
Alignment explanation
Indices: 794634--794714 Score: 162
Period size: 32 Copynumber: 2.5 Consensus size: 32
794624 TTATTAAATA
794634 AATCAGAAAGTTAAATTAACATAGCAAGGCAT
1 AATCAGAAAGTTAAATTAACATAGCAAGGCAT
794666 AATCAGAAAGTTAAATTAACATAGCAAGGCAT
1 AATCAGAAAGTTAAATTAACATAGCAAGGCAT
794698 AATCAGAAAGTTAAATT
1 AATCAGAAAGTTAAATT
794715 TTTATATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (32 bp):
AATCAGAAAGTTAAATTAACATAGCAAGGCAT
Found at i:800323 original size:2 final size:2
Alignment explanation
Indices: 800316--800358 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
800306 CTTATGATTT
* *
800316 TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
800358 T
1 T
800359 TCCTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:806745 original size:34 final size:34
Alignment explanation
Indices: 806707--806775 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
806697 TCAAATTAAA
*
806707 TTGATAATTTTGATTTTAAT-TTTTAATGTTAACT
1 TTGATAATGTTGATTTTAATATTTT-ATGTTAACT
** *
806741 TTGATCGTGTTGATTTTCATATTTTATGTTAACT
1 TTGATAATGTTGATTTTAATATTTTATGTTAACT
806775 T
1 T
806776 AAATTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.58
Consensus pattern (34 bp):
TTGATAATGTTGATTTTAATATTTTATGTTAACT
Found at i:810687 original size:21 final size:22
Alignment explanation
Indices: 810643--810687 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
810633 TATTTTCTAA
* * *
810643 TTTAAATATTTTAACAATTTTT
1 TTTAAATATTTAAACAACTATT
810665 TTTAAA-ATTTAAACAACTATT
1 TTTAAATATTTAAACAACTATT
810686 TT
1 TT
810688 AGTACAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAAATATTTAAACAACTATT
Found at i:810687 original size:22 final size:22
Alignment explanation
Indices: 810643--810687 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
810633 TATTTTCTAA
* *
810643 TTTAAATATTTTAACAATTTTT
1 TTTAAATATTTAAACAATATTT
810665 TTTAAA-ATTTAAACAACTATTT
1 TTTAAATATTTAAACAA-TATTT
810687 T
1 T
810688 AGTACAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAAATATTTAAACAATATTT
Found at i:823767 original size:21 final size:22
Alignment explanation
Indices: 823715--823768 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
823705 AACAAGTTGG
823715 AAAATATTTATATATATATTTTT
1 AAAA-ATTTATATATATATTTTT
*
823738 ATAAGATTTATATAT-T-TTCTTT
1 A-AAAATTTATATATATATT-TTT
823760 AAAAATTTA
1 AAAAATTTA
823769 AATTCATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.33
22 5 0.19
23 11 0.41
24 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
AAAAATTTATATATATATTTTT
Found at i:826810 original size:15 final size:15
Alignment explanation
Indices: 826788--826858 Score: 65
Period size: 15 Copynumber: 4.8 Consensus size: 15
826778 GGTTTTTCGG
*
826788 AAAATGAATTACTGG
1 AAAATGAATTACTGA
** *
826803 AATTTGAATTATTGA
1 AAAATGAATTACTGA
826818 AAAATGAATTACT-A
1 AAAATGAATTACTGA
* *
826832 AAATTTGAATT-CTGG
1 AAA-ATGAATTACTGA
826847 AAAATGAATTAC
1 AAAATGAATTAC
826859 ATTTCTGGAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
14 12 0.28
15 31 0.72
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (15 bp):
AAAATGAATTACTGA
Found at i:826819 original size:29 final size:29
Alignment explanation
Indices: 826786--826858 Score: 101
Period size: 30 Copynumber: 2.5 Consensus size: 29
826776 TTGGTTTTTC
**
826786 GGAAAATGAATTACTGGAATTTGAATTATT
1 GGAAAATGAATTACTAAAATTTGAATTA-T
* *
826816 GAAAAATGAATTACTAAAATTTGAATTCT
1 GGAAAATGAATTACTAAAATTTGAATTAT
826845 GGAAAATGAATTAC
1 GGAAAATGAATTAC
826859 ATTTCTGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 14 0.37
30 24 0.63
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.33
Consensus pattern (29 bp):
GGAAAATGAATTACTAAAATTTGAATTAT
Found at i:827063 original size:49 final size:50
Alignment explanation
Indices: 826966--827064 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
826956 TACAAATATT
*
826966 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
827016 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
827065 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:827223 original size:24 final size:26
Alignment explanation
Indices: 827195--827260 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 26
827185 ATATCTTTAC
*
827195 TAAAA-TATTAT-TTCAATATATAAA
1 TAAAATTATTATATTAAATATATAAA
827219 TAAAATTATTCATTATTAAATATATAAA
1 TAAAATTATT-A-TATTAAATATATAAA
*
827247 AAAAATTATTATAT
1 TAAAATTATTATAT
827261 ATTATTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 5 0.14
25 4 0.11
26 4 0.11
27 2 0.06
28 21 0.58
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATTATTATATTAAATATATAAA
Found at i:827228 original size:22 final size:20
Alignment explanation
Indices: 827201--827240 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
827191 TTACTAAAAT
827201 ATTATTTCAATATATAAATAAA
1 ATTA-TTCAATAT-TAAATAAA
*
827223 ATTATTCATTATTAAATA
1 ATTATTCAATATTAAATA
827241 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTATTCAATATTAAATAAA
Found at i:827242 original size:28 final size:28
Alignment explanation
Indices: 827209--827264 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
827199 ATATTATTTC
*
827209 AATATATAAATAAAATTATTCAT-TATTA
1 AATATATAAAAAAAATTATT-ATATATTA
827237 AATATATAAAAAAAATTATTATATATTA
1 AATATATAAAAAAAATTATTATATATTA
827265 TTAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
AATATATAAAAAAAATTATTATATATTA
Found at i:827275 original size:24 final size:23
Alignment explanation
Indices: 827230--827289 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
827220 AAAATTATTC
*
827230 ATTATTAAATA-TA-TAAAAAAA
1 ATTATTATATATTATTAAAAAAA
827251 ATTATTATATATTATTAAAATAAA
1 ATTATTATATATTATTAAAA-AAA
* * *
827275 AATATAATATCTTAT
1 ATTATTATATATTAT
827290 ATTATTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 2 0.06
23 5 0.16
24 15 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATTATATATTATTAAAAAAA
Found at i:827326 original size:15 final size:16
Alignment explanation
Indices: 827288--827346 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 16
827278 ATAATATCTT
827288 ATATTATTATAATATA
1 ATATTATTATAATATA
*
827304 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
827321 ATATTA--AAAATATA
1 ATATTATTATAATATA
827335 ATATTATTATAA
1 ATATTATTATAA
827347 ATATTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 11 0.32
15 4 0.12
16 5 0.15
17 8 0.24
18 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:827335 original size:14 final size:14
Alignment explanation
Indices: 827316--827361 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
827306 TGATTATTTT
827316 ATATAATATTAAAA
1 ATATAATATTAAAA
**
827330 ATATAATATT-ATT
1 ATATAATATTAAAA
827343 ATA-AATATTAATAA
1 ATATAATATTAA-AA
827357 ATATA
1 ATATA
827362 TTTTAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 13 0.52
15 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATAATATTAAAA
Found at i:827357 original size:29 final size:31
Alignment explanation
Indices: 827298--827362 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 31
827288 ATATTATTAT
* * *
827298 AATATAATTGATTATTTTATATAATATTAAA
1 AATATAATTGATTATTATAAATAATAATAAA
*
827329 AATATAA-T-ATTATTATAAATATTAATAAA
1 AATATAATTGATTATTATAAATAATAATAAA
*
827358 TATAT
1 AATAT
827363 TTTAAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 21 0.72
30 1 0.03
31 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (31 bp):
AATATAATTGATTATTATAAATAATAATAAA
Found at i:827363 original size:21 final size:23
Alignment explanation
Indices: 827329--827372 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
827319 TAATATTAAA
827329 AATATAATATTATTATAAATATT
1 AATATAATATTATTATAAATATT
*
827352 AATA-AATA-TATTTTAAATATT
1 AATATAATATTATTATAAATATT
827373 TTAATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 4 0.20
23 4 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATAATATTATTATAAATATT
Found at i:827638 original size:41 final size:41
Alignment explanation
Indices: 827561--827678 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 41
827551 ATGAATTACG
* *
827561 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGGAAAACAAATTACGTGAAACAAACAC-GGAAAACATT
*
827603 TTCCGAAAAACAAATTACGTGAAACAAACACGGAAAACATT
1 TTCCGGAAAACAAATTACGTGAAACAAACACGGAAAACATT
** *
827644 TTCCGGAAAACAAATTATATGAAACAAATACGGAA
1 TTCCGGAAAACAAATTACGTGAAACAAACACGGAA
827679 TTTCGAGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 40 0.58
42 29 0.42
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (41 bp):
TTCCGGAAAACAAATTACGTGAAACAAACACGGAAAACATT
Found at i:830028 original size:183 final size:184
Alignment explanation
Indices: 829709--830095 Score: 647
Period size: 183 Copynumber: 2.1 Consensus size: 184
829699 TTTTCTAATT
* * * *
829709 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAAT
*
829773 TATAAAATAAAAATTTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* * *
829838 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AGCCCATATGTTA
131 AGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGG-TTGAGCCCATATGTTA
829892 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAAATAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAAATAATTTAAATAATATATAA
*
829956 TTATAAAATAAAAAATTTATATAA-TTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
830020 TAGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
130 TAGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
830075 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
830096 AAAATTTAAT
Statistics
Matches: 192, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
182 2 0.01
183 123 0.64
184 67 0.35
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAAT
TATAAAATAAAAAATTTAGATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
AGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
Found at i:831553 original size:324 final size:324
Alignment explanation
Indices: 830964--831612 Score: 1253
Period size: 324 Copynumber: 2.0 Consensus size: 324
830954 CAATAATCAT
830964 AAGTAAATCACTTAGAACAACAAAAACCCAGCAACACAAACCAATGCACCTGAGCAGAAATGGGA
1 AAGTAAATCACTTAGAACAACAAAAACCCAGCAACACAAACCAATGCACCTGAGCAGAAATGGGA
831029 ATTTTAAAGGAGGAAAAACAAGGGATGGAAGGAGAAGAAGAGTGGGAGAACTTAAAGCCATAAAA
66 ATTTTAAAGGAGGAAAAACAAGGGATGGAAGGAGAAGAAGAGTGGGAGAACTTAAAGCCATAAAA
* *
831094 GTGTGAGTGTGATGATTTGGATAGAATTGGGAGGCATTTAGGAAGAGGGGAGTGGATCTTGGAAG
131 GTGTGAGTGTGATGATTTGGATAGAATTCGGAGGCATTTAGGAAGAGGAGAGTGGATCTTGGAAG
831159 TGTGAGAAGCCACAGTGTGGGTTGGGAGACCGAGAGAAGAAGCCATTAAAGGTTGAGGCAGAAAA
196 TGTGAGAAGCCACAGTGTGGGTTGGGAGACCGAGAGAAGAAGCCATTAAAGGTTGAGGCAGAAAA
831224 AGGAAGGTTAAGTGGTAATAGGAAAGAGTGGTTTGGAAAAGGAAGATAAGAAGATTGTAGGTGG
261 AGGAAGGTTAAGTGGTAATAGGAAAGAGTGGTTTGGAAAAGGAAGATAAGAAGATTGTAGGTGG
*
831288 AAGTAAATCACTTAGAACAACAAAAACCCAGCAACACAAAGCAATGCACCTGAGCAGAAATGGGA
1 AAGTAAATCACTTAGAACAACAAAAACCCAGCAACACAAACCAATGCACCTGAGCAGAAATGGGA
*
831353 GTTTTAAAGGAGGAAAAACAAGGGATGGAAGGAGAAGAAGAGTGGGAGAACTTAAAGCCATAAAA
66 ATTTTAAAGGAGGAAAAACAAGGGATGGAAGGAGAAGAAGAGTGGGAGAACTTAAAGCCATAAAA
*
831418 GTGTGAGTGTGATGATTTGTATAGAATTCGGAGGCATTTAGGAAGAGGAGAGTGGATCTTGGAAG
131 GTGTGAGTGTGATGATTTGGATAGAATTCGGAGGCATTTAGGAAGAGGAGAGTGGATCTTGGAAG
831483 TGTGAGAAGCCACAGTGTGGGTTGGGAGACCGAGAGAAGAAGCCATTAAAGGTTGAGGCAGAAAA
196 TGTGAGAAGCCACAGTGTGGGTTGGGAGACCGAGAGAAGAAGCCATTAAAGGTTGAGGCAGAAAA
831548 AGGAAGGTTAAGTGGTAATAGGAAAGAGTGGTTTGGAAAAGGAAGATAAGAAGATTGTAGGTGG
261 AGGAAGGTTAAGTGGTAATAGGAAAGAGTGGTTTGGAAAAGGAAGATAAGAAGATTGTAGGTGG
831612 A
1 A
831613 TGCCATTGGC
Statistics
Matches: 320, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
324 320 1.00
ACGTcount: A:0.40, C:0.09, G:0.33, T:0.18
Consensus pattern (324 bp):
AAGTAAATCACTTAGAACAACAAAAACCCAGCAACACAAACCAATGCACCTGAGCAGAAATGGGA
ATTTTAAAGGAGGAAAAACAAGGGATGGAAGGAGAAGAAGAGTGGGAGAACTTAAAGCCATAAAA
GTGTGAGTGTGATGATTTGGATAGAATTCGGAGGCATTTAGGAAGAGGAGAGTGGATCTTGGAAG
TGTGAGAAGCCACAGTGTGGGTTGGGAGACCGAGAGAAGAAGCCATTAAAGGTTGAGGCAGAAAA
AGGAAGGTTAAGTGGTAATAGGAAAGAGTGGTTTGGAAAAGGAAGATAAGAAGATTGTAGGTGG
Found at i:831884 original size:45 final size:45
Alignment explanation
Indices: 831832--831931 Score: 191
Period size: 45 Copynumber: 2.2 Consensus size: 45
831822 ATGTTTATAC
*
831832 AATTTTCTTATTATTAAGAGTGATTATAAGATATTATATATTTAA
1 AATTTTCTTATTATTAAAAGTGATTATAAGATATTATATATTTAA
831877 AATTTTCTTATTATTAAAAGTGATTATAAGATATTATATATTTAA
1 AATTTTCTTATTATTAAAAGTGATTATAAGATATTATATATTTAA
831922 AATTTTCTTA
1 AATTTTCTTA
831932 ATTTCTTGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (45 bp):
AATTTTCTTATTATTAAAAGTGATTATAAGATATTATATATTTAA
Found at i:832392 original size:31 final size:31
Alignment explanation
Indices: 832324--832426 Score: 109
Period size: 31 Copynumber: 3.3 Consensus size: 31
832314 TTTTTTATAT
* * *
832324 AATTAGGTACATAAACTTG-GTTTCTTGGTTCA
1 AATT-GGTACCTAAACTTGACTTT-TTGATTCA
*
832356 AATTGGTACCTAAATTTGACTTTTTGATTCA
1 AATTGGTACCTAAACTTGACTTTTTGATTCA
* * *
832387 TATTGGTACCTAAACTTGACTTTTTGGTCCA
1 AATTGGTACCTAAACTTGACTTTTTGATTCA
*
832418 AATGGGTAC
1 AATTGGTAC
832427 TTATGATTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
31 53 0.88
32 7 0.12
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (31 bp):
AATTGGTACCTAAACTTGACTTTTTGATTCA
Found at i:832520 original size:31 final size:31
Alignment explanation
Indices: 832464--832581 Score: 125
Period size: 31 Copynumber: 3.8 Consensus size: 31
832454 TGAGCCAAGG
*
832464 TCAAGTACCAAATTGGATATAAAAAAGATAAGT
1 TCAAGTACCAAATT--AAATAAAAAAGATAAGT
*
832497 TCAATTACCAAATTAAATAAAAAA-A-AAGT
1 TCAAGTACCAAATTAAATAAAAAAGATAAGT
* * *
832526 TCAATTACCAAGTTGAATAAAAAAGACT-AGT
1 TCAAGTACCAAATTAAATAAAAAAGA-TAAGT
*
832557 TCAAGTACCAAATTGAATGAAAAAA
1 TCAAGTACCAAATTAAAT-AAAAAA
832582 ATTTAGGTAC
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
29 26 0.35
30 2 0.03
31 28 0.37
32 6 0.08
33 13 0.17
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (31 bp):
TCAAGTACCAAATTAAATAAAAAAGATAAGT
Found at i:832599 original size:27 final size:27
Alignment explanation
Indices: 832561--832628 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
832551 ACTAGTTCAA
832561 GTACCAAATTGAATGAAAAAAATTTAG
1 GTACCAAATTGAATGAAAAAAATTTAG
832588 GTACCAAATTGAATGAAAAAAATTTAG
1 GTACCAAATTGAATGAAAAAAATTTAG
832615 GTACCAAATTGAAT
1 GTACCAAATTGAAT
832629 CATGAAGCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (27 bp):
GTACCAAATTGAATGAAAAAAATTTAG
Found at i:832608 original size:60 final size:61
Alignment explanation
Indices: 832464--832609 Score: 165
Period size: 60 Copynumber: 2.4 Consensus size: 61
832454 TGAGCCAAGG
* *
832464 TCAAGTACCAAATTGGATATAAAAAAGATAAGTTCAATTACCAAATTAAATAAAAAAAAAGT
1 TCAAGTACCAAATTGAATA-AAAAAAGATAAGTTCAAGTACCAAATTAAATAAAAAAAAAGT
* * * *
832526 TCAATTACCAAGTTGAAT-AAAAAAGACT-AGTTCAAGTACCAAATTGAAT-GAAAAAAA-T
1 TCAAGTACCAAATTGAATAAAAAAAGA-TAAGTTCAAGTACCAAATTAAATAAAAAAAAAGT
* *
832584 TTAGGTACCAAATTGAATGAAAAAAA
1 TCAAGTACCAAATTGAAT-AAAAAAA
832610 TTTAGGTACC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
58 15 0.21
59 7 0.10
60 33 0.46
61 1 0.01
62 15 0.21
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (61 bp):
TCAAGTACCAAATTGAATAAAAAAAGATAAGTTCAAGTACCAAATTAAATAAAAAAAAAGT
Found at i:836789 original size:25 final size:25
Alignment explanation
Indices: 836755--836810 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
836745 CATGAAGAAA
836755 AGATGTTTTAACATATAACTGCTCT
1 AGATGTTTTAACATATAACTGCTCT
*
836780 AGATGTTTTAACATATAGCTGCTCT
1 AGATGTTTTAACATATAACTGCTCT
836805 AGATGT
1 AGATGT
836811 AAGTTCAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (25 bp):
AGATGTTTTAACATATAACTGCTCT
Found at i:837645 original size:23 final size:23
Alignment explanation
Indices: 837569--837637 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
837559 CACCACAGCT
837569 CGTATAAA-TGCACTGAAGTGCCA
1 CGTA-AAATTGCACTGAAGTGCCA
* * *
837592 CGTAGAATTGCACCGAAGTGCCG
1 CGTAAAATTGCACTGAAGTGCCA
837615 CGTAAAATTGCACTGAAGTGCCA
1 CGTAAAATTGCACTGAAGTGCCA
837638 TATAAAATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAAAATTGCACTGAAGTGCCA
Found at i:839249 original size:24 final size:23
Alignment explanation
Indices: 839190--839253 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 23
839180 TCTATTTCCC
*
839190 CTTTAA-AGTGCATCGATACATT
1 CTTTAACAGTGCATCGATGCATT
839212 C--T-ACAGTGCATCGATGCATT
1 CTTTAACAGTGCATCGATGCATT
839232 CTTTAACATGTGCATCGATGCA
1 CTTTAACA-GTGCATCGATGCA
839254 CTACCCATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 17 0.47
22 2 0.06
23 3 0.08
24 13 0.36
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (23 bp):
CTTTAACAGTGCATCGATGCATT
Found at i:842541 original size:23 final size:23
Alignment explanation
Indices: 842523--842583 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
842513 CTCGTATAAA
842523 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
842546 TGCACTGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
842569 TGCACCGAAATGCCA
1 TGCACCGAAGTGCCA
842584 TATAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:844173 original size:24 final size:20
Alignment explanation
Indices: 844120--844177 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
844110 TCCCCTTTGA
*
844120 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
844140 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
844163 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
844178 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:861155 original size:16 final size:16
Alignment explanation
Indices: 861131--861183 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
861121 GGATTTATAA
*
861131 TTATAAATTTAAGAAT
1 TTATTAATTTAAGAAT
*
861147 TTATTAATTCAAG-AT
1 TTATTAATTTAAGAAT
*
861162 TTATGAATTTAA-AATT
1 TTATTAATTTAAGAA-T
861178 TTATTA
1 TTATTA
861184 TAAAATGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (16 bp):
TTATTAATTTAAGAAT
Found at i:861178 original size:15 final size:15
Alignment explanation
Indices: 861131--861178 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
861121 GGATTTATAA
861131 TTATAAATTTAAGAAT
1 TTATAAATTTAA-AAT
* * *
861147 TTATTAATTCAAGAT
1 TTATAAATTTAAAAT
*
861162 TTATGAATTTAAAAT
1 TTATAAATTTAAAAT
861177 TT
1 TT
861179 TATTATAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (15 bp):
TTATAAATTTAAAAT
Found at i:861708 original size:2 final size:2
Alignment explanation
Indices: 861701--861729 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
861691 ATTTATGTAG
861701 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 T
861730 GATGAGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:862227 original size:117 final size:117
Alignment explanation
Indices: 862087--862319 Score: 432
Period size: 117 Copynumber: 2.0 Consensus size: 117
862077 AAATAATTCT
862087 ACATTATATAAGTTAATTTTGCCTCATAAATATATATAGTTTGACATAAAATTAATTATAAACAC
1 ACATTATATAAGTTAATTTTGCCTCATAAATATATATAGTTTGACATAAAATTAATTATAAACAC
862152 TCATAAATCATATTATT-ATTATTTTACTTAAATTCTCAATCTAAACTAAGGA
66 TCATAAATCATATTATTAATT-TTTTACTTAAATTCTCAATCTAAACTAAGGA
* *
862204 ACATTATTTAAGTTAATTTTGCCTCATAAGTATATATAGTTTGACATAAAATTAATTATAAACAC
1 ACATTATATAAGTTAATTTTGCCTCATAAATATATATAGTTTGACATAAAATTAATTATAAACAC
862269 TCATAAATCATATTATTAATTTTTTACTTAAATTCTCAATCTAAACTAAGG
66 TCATAAATCATATTATTAATTTTTTACTTAAATTCTCAATCTAAACTAAGG
862320 GCTTTTTCGT
Statistics
Matches: 113, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
117 110 0.97
118 3 0.03
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.41
Consensus pattern (117 bp):
ACATTATATAAGTTAATTTTGCCTCATAAATATATATAGTTTGACATAAAATTAATTATAAACAC
TCATAAATCATATTATTAATTTTTTACTTAAATTCTCAATCTAAACTAAGGA
Found at i:863041 original size:28 final size:27
Alignment explanation
Indices: 862984--863041 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
862974 AGAGACTGTT
* *
862984 TTGTCCTGATGTTTTTTTTTTGAATGAA
1 TTGTCCTGATGTTTTGTTATTGAA-GAA
863012 TTGTCCTGATGTTTTAAGTTATTGAA-AA
1 TTGTCCTGATGTTTT--GTTATTGAAGAA
863040 TT
1 TT
863042 AGGCTACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 19 0.73
30 7 0.27
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.53
Consensus pattern (27 bp):
TTGTCCTGATGTTTTGTTATTGAAGAA
Found at i:864440 original size:18 final size:19
Alignment explanation
Indices: 864399--864447 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
864389 TTTTTAATAA
864399 AAAAATTATAAATAATATT
1 AAAAATTATAAATAATATT
*
864418 TAAAATATATAAA-AAT-TT
1 AAAAAT-TATAAATAATATT
*
864436 AAAAATTTTAAA
1 AAAAATTATAAA
864448 GTAGCAACCG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 7 0.27
19 8 0.31
20 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTATAAATAATATT
Found at i:866003 original size:2 final size:2
Alignment explanation
Indices: 865996--866023 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
865986 TAAACTCAAT
865996 TA 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 TA
866024 AATACTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:875607 original size:3 final size:3
Alignment explanation
Indices: 875601--875625 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
875591 CACCACCACC
875601 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
875626 GTTCAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:877060 original size:46 final size:47
Alignment explanation
Indices: 876978--877066 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 47
876968 ATTATTCATC
* * * *
876978 GGCTTTGAGTTTTTGAAGCAAATTAATGTTATC-TTTTATCAGGCAT
1 GGCTTTAAGTTTTTGAAACAAATTAATGATACCTTTTTATCAGGCAT
* *
877024 GGCTTTAAGTTTTTGAAACAACTTATTGATACCTTTTTATCAG
1 GGCTTTAAGTTTTTGAAACAAATTAATGATACCTTTTTATCAG
877067 TCAACTAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 27 0.75
47 9 0.25
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (47 bp):
GGCTTTAAGTTTTTGAAACAAATTAATGATACCTTTTTATCAGGCAT
Found at i:891274 original size:23 final size:23
Alignment explanation
Indices: 891248--891294 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
891238 GTTATAAGAA
891248 TGATTCTTTTAATTTTATTTTTT
1 TGATTCTTTTAATTTTATTTTTT
891271 TGATTCTTTTAATTTTATTTTTT
1 TGATTCTTTTAATTTTATTTTTT
891294 T
1 T
891295 CATTTAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (23 bp):
TGATTCTTTTAATTTTATTTTTT
Found at i:892658 original size:40 final size:40
Alignment explanation
Indices: 892609--892690 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
892599 ACCGTAGTAC
*
892609 TACAAATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACAAATAAGGTCATGCCCACCATATACACCGAAGTATAT
* * *
892649 TACACATAAGGTCGTGCCCACTATATACACCGAAGTATAT
1 TACAAATAAGGTCATGCCCACCATATACACCGAAGTATAT
892689 TA
1 TA
892691 TAAACCTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (40 bp):
TACAAATAAGGTCATGCCCACCATATACACCGAAGTATAT
Found at i:902395 original size:135 final size:135
Alignment explanation
Indices: 902137--902397 Score: 353
Period size: 135 Copynumber: 1.9 Consensus size: 135
902127 CAACATGACG
* * * * *
902137 ATTTGCAGTATTCTCCATTGAATCTTTTCGGGTTTAATGGGGAAACCAGTACTCCAATTAAAACA
1 ATTTGCAGTATTATCCATTGAATCCTTTCCGGATTAATGGGGAAACCAGTAATCCAATTAAAACA
* * **
902202 AACTTGGGGAATAAAATTCAAGAACCCGTTTCACTGCCATTTCCAAGCAATGTTACCATTGAATA
66 AACTTGGGAAATAAAATTCAAGAACCCGTTTCACTGCCATTGCCAAGCAATGGCACCATTGAATA
902267 CAATA
131 CAATA
* *
902272 ATTTGCAGTATTATCCATTGAATCCTTTCCGGATTAATGGGGAAACGAGTAAT-CAAGTTGAAAC
1 ATTTGCAGTATTATCCATTGAATCCTTTCCGGATTAATGGGGAAACCAGTAATCCAA-TTAAAAC
* * * * * *
902336 AAACTTGGGAAATGAAATTCAGGGACCCGTTTCATTGCCATTGCCTAGTAATGGCACCATTG
65 AAACTTGGGAAATAAAATTCAAGAACCCGTTTCACTGCCATTGCCAAGCAATGGCACCATTG
902398 GTGTTGAGAA
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
134 3 0.03
135 105 0.97
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (135 bp):
ATTTGCAGTATTATCCATTGAATCCTTTCCGGATTAATGGGGAAACCAGTAATCCAATTAAAACA
AACTTGGGAAATAAAATTCAAGAACCCGTTTCACTGCCATTGCCAAGCAATGGCACCATTGAATA
CAATA
Found at i:913066 original size:2 final size:2
Alignment explanation
Indices: 913059--913117 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
913049 AGATAAAGGG
913059 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
913101 GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA G
913118 GAGGTGGTGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:915726 original size:24 final size:24
Alignment explanation
Indices: 915694--915783 Score: 162
Period size: 24 Copynumber: 3.8 Consensus size: 24
915684 CATATCATAG
915694 AGCGTAAAGAGGCCTCCACCTGGA
1 AGCGTAAAGAGGCCTCCACCTGGA
915718 AGCGTAAAGAGGCCTCCACCTGGA
1 AGCGTAAAGAGGCCTCCACCTGGA
*
915742 AGCGTTAAGAGGCCTCCACCTGGA
1 AGCGTAAAGAGGCCTCCACCTGGA
*
915766 AGCGTTAAGAGGCCTCCA
1 AGCGTAAAGAGGCCTCCA
915784 TATAACAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (24 bp):
AGCGTAAAGAGGCCTCCACCTGGA
Found at i:916031 original size:15 final size:15
Alignment explanation
Indices: 916011--916047 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
916001 TGAGACATTA
*
916011 TCCGCCCCGCATCCG
1 TCCGCCCCACATCCG
916026 TCCGCCCCACATCCG
1 TCCGCCCCACATCCG
*
916041 CCCGCCC
1 TCCGCCC
916048 AGCTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.65, G:0.16, T:0.11
Consensus pattern (15 bp):
TCCGCCCCACATCCG
Found at i:922879 original size:14 final size:14
Alignment explanation
Indices: 922857--922901 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
922847 TACTTCAAAG
922857 AAGAAGATTCCAAT
1 AAGAAGATTCCAAT
* *
922871 AAGACGATTCGAA-
1 AAGAAGATTCCAAT
922884 AAGAAGATTCCAACT
1 AAGAAGATTCCAA-T
922899 AAG
1 AAG
922902 TAATTAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 11 0.44
14 11 0.44
15 3 0.12
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (14 bp):
AAGAAGATTCCAAT
Found at i:931010 original size:12 final size:12
Alignment explanation
Indices: 930993--931030 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
930983 GTTGACGATG
930993 TTGACGATGATA
1 TTGACGATGATA
931005 TTGACGATGATGA
1 TTGACGATGAT-A
*
931018 -TGACGATTATA
1 TTGACGATGATA
931029 TT
1 TT
931031 AAATACATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 1 0.04
12 21 0.91
13 1 0.04
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (12 bp):
TTGACGATGATA
Found at i:933487 original size:20 final size:22
Alignment explanation
Indices: 933462--933501 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
933452 AGTCGTATAT
933462 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
933482 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
933502 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:933556 original size:21 final size:21
Alignment explanation
Indices: 933530--933571 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
933520 CCACGATAGG
*
933530 GGGTATCGGTACCCCTTCATA
1 GGGTATCAGTACCCCTTCATA
*
933551 GGGTATCAGTACTCCTTCATA
1 GGGTATCAGTACCCCTTCATA
933572 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (21 bp):
GGGTATCAGTACCCCTTCATA
Found at i:933776 original size:29 final size:29
Alignment explanation
Indices: 933744--933808 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
933734 GAAACCTTTT
* * *
933744 AAAACTTTGAATAAATTC-AATTAATTCCA
1 AAAACTTT-AATAAATCCAAATCAAGTCCA
*
933773 AAAACATTTTATAAATCCAAATCAAGTCCA
1 AAAAC-TTTAATAAATCCAAATCAAGTCCA
933803 AAAACT
1 AAAACT
933809 ATTTTGCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAACTTTAATAAATCCAAATCAAGTCCA
Found at i:933952 original size:19 final size:19
Alignment explanation
Indices: 933925--933967 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
933915 ATGTTTAATG
933925 AAAAA-GATAC-AATTGTT
1 AAAAAGGATACTAATTGTT
933942 ACAAAAGGATACTAATTGTT
1 A-AAAAGGATACTAATTGTT
933962 AAAAAG
1 AAAAAG
933968 ATAACCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 10 0.43
20 8 0.35
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (19 bp):
AAAAAGGATACTAATTGTT
Found at i:937061 original size:21 final size:21
Alignment explanation
Indices: 937035--937076 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
937025 CCACGATAGG
937035 GGGTATCGGTACACATTCATA
1 GGGTATCGGTACACATTCATA
* *
937056 GGGTATCGGTACTCCTTCATA
1 GGGTATCGGTACACATTCATA
937077 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (21 bp):
GGGTATCGGTACACATTCATA
Found at i:937281 original size:29 final size:29
Alignment explanation
Indices: 937260--937317 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
937250 AAACTTTGAA
937260 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
937289 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
937318 TTCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:937307 original size:30 final size:30
Alignment explanation
Indices: 937260--937318 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
937250 AAACTTTGAA
937260 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
937289 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
937319 TCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:937794 original size:22 final size:23
Alignment explanation
Indices: 937766--937813 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
937756 TTTATGATAT
*
937766 TTATTTAATATAATAATTAA-TA
1 TTATTTAATATAAAAATTAATTA
*
937788 TTATTTATTATAAAAATTAATTA
1 TTATTTAATATAAAAATTAATTA
937811 TTA
1 TTA
937814 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATTTAATATAAAAATTAATTA
Found at i:944380 original size:19 final size:20
Alignment explanation
Indices: 944339--944433 Score: 54
Period size: 19 Copynumber: 4.8 Consensus size: 20
944329 TTTTCTGAAA
*
944339 AATTAATAATAAATTTATAT
1 AATTAATAATAAATTAATAT
* *
944359 AATT-ATAATTAATTAATGT
1 AATTAATAATAAATTAATAT
*
944378 AATATACA-AATAAAATTATTAT
1 AAT-TA-ATAAT-AAATTAATAT
* * * *
944400 CAATAAAT-TTATATAAATAT
1 -AATTAATAATAAATTAATAT
944420 AATTAA-AATAAATT
1 AATTAATAATAAATT
944434 TAGACAAAAA
Statistics
Matches: 53, Mismatches: 15, Indels: 15
0.64 0.18 0.18
Matches are distributed among these distances:
19 24 0.45
20 12 0.23
21 5 0.09
22 9 0.17
23 3 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (20 bp):
AATTAATAATAAATTAATAT
Done.