Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 1 of 208
Found at i:13 original size:7 final size:7
Alignment explanation
Indices: 2--187 Score: 180
Period size: 7 Copynumber: 25.9 Consensus size: 7
1 G
*
2 AAACCCC
1 AAACCCT
*
9 AAACCCCA
1 AAA-CCCT
*
17 AAACCCCC
1 AAA-CCCT
*
25 AAACCCC
1 AAACCCT
32 AAACCC-
1 AAACCCT
* *
38 GAACCCC
1 AAACCCT
45 A-ACC-T
1 AAACCCT
50 AAAACCCT
1 AAA-CCCT
58 AAACCCT
1 AAACCCT
65 AAACCCT
1 AAACCCT
72 AAACCCT
1 AAACCCT
79 AAACCCT
1 AAACCCT
86 AAACCCT
1 AAACCCT
93 AAACCCT
1 AAACCCT
100 AAACCCT
1 AAACCCT
107 AAACCCT
1 AAACCCT
114 AAACCCT
1 AAACCCT
121 AAACCCT
1 AAACCCT
128 AAACCCT
1 AAACCCT
135 AAAACCCT
1 -AAACCCT
* *
143 AACCCCC
1 AAACCCT
*
150 AAACCGAT
1 AAACC-CT
158 AAACCCCT
1 AAA-CCCT
**
166 AAAACAAT
1 -AAACCCT
174 AAACCCCT
1 AAA-CCCT
182 AAACCC
1 AAACCC
188 AAGCCAGGAT
Statistics
Matches: 154, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
5 1 0.01
6 9 0.06
7 104 0.68
8 35 0.23
9 5 0.03
ACGTcount: A:0.44, C:0.45, G:0.01, T:0.10
Consensus pattern (7 bp):
AAACCCT
Found at i:26 original size:9 final size:8
Alignment explanation
Indices: 5--37 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
1 GAAA
5 CCCCAAAC
1 CCCCAAAC
*
13 CCCAAAAC
1 CCCCAAAC
21 CCCCAAA-
1 CCCCAAAC
28 CCCCAAAC
1 CCCCAAAC
36 CC
1 CC
38 GAACCCCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.39, C:0.61, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCCAAAC
Found at i:240 original size:32 final size:32
Alignment explanation
Indices: 194--274 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
184 ACCCAAGCCA
*
194 GGATATGCAAGGAATAGAATAAATCC-AAACCG
1 GGATATGCATGGAATAGAATAAA-CCTAAACCG
*
226 GGATATGCATGGAATGGAATAAACCTAAACCG
1 GGATATGCATGGAATAGAATAAACCTAAACCG
* * *
258 AGATATCCGTGGAATAG
1 GGATATGCATGGAATAG
275 GATATCCCGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 2 0.05
32 40 0.95
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.19
Consensus pattern (32 bp):
GGATATGCATGGAATAGAATAAACCTAAACCG
Found at i:10146 original size:16 final size:16
Alignment explanation
Indices: 10105--10139 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10095 TTCAATTACT
10105 ATCAATATTAACAAGC
1 ATCAATATTAACAAGC
10121 ATCAATATTAACAAGC
1 ATCAATATTAACAAGC
10137 ATC
1 ATC
10140 CCAATTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.26
Consensus pattern (16 bp):
ATCAATATTAACAAGC
Found at i:13390 original size:29 final size:29
Alignment explanation
Indices: 13357--13416 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
13347 AAATTCAAGT
13357 GAAAAGCATGTATCAAAAACTAAAAAACA
1 GAAAAGCATGTATCAAAAACTAAAAAACA
13386 GAAAAGCATGTATCAAAAACTAAAAAACA
1 GAAAAGCATGTATCAAAAACTAAAAAACA
13415 GA
1 GA
13417 GATGTTCCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.62, C:0.13, G:0.12, T:0.13
Consensus pattern (29 bp):
GAAAAGCATGTATCAAAAACTAAAAAACA
Found at i:23848 original size:21 final size:21
Alignment explanation
Indices: 23824--23874 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
23814 TACAAAAAAT
23824 CTGAACCGGACACTAAAACAA
1 CTGAACCGGACACTAAAACAA
23845 CTGAACCGGACACTAAAACAA
1 CTGAACCGGACACTAAAACAA
23866 CTGAACCGG
1 CTGAACCGG
23875 GACGGAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.29, G:0.18, T:0.10
Consensus pattern (21 bp):
CTGAACCGGACACTAAAACAA
Found at i:24898 original size:47 final size:47
Alignment explanation
Indices: 24829--24927 Score: 148
Period size: 47 Copynumber: 2.1 Consensus size: 47
24819 TTCAATACAG
* *
24829 TTACATTCAATATCTTTACCTGATTCAAAC-CACCTAATCAAGCTTTA
1 TTACATACAATATCTCTACCTGATTC-AACTCACCTAATCAAGCTTTA
*
24876 TTACATACAATATCTCTACCTGATTCAGCTCACCTAATCAAGCTTTA
1 TTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAGCTTTA
24923 -TACAT
1 TTACAT
24928 TAGGTCTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
46 7 0.15
47 41 0.85
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.35
Consensus pattern (47 bp):
TTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAGCTTTA
Found at i:26801 original size:23 final size:23
Alignment explanation
Indices: 26775--27064 Score: 173
Period size: 23 Copynumber: 12.7 Consensus size: 23
26765 TTGTACACCA
*
26775 CAATTTGCAGCACTTAAACACTT
1 CAATTTACAGCACTTAAACACTT
* * * *
26798 CAATTTACATCATTTGAGCACCTT
1 CAATTTACAGCACTTAAACA-CTT
*
26822 -AATTTACAGCAATTAAACACTT
1 CAATTTACAGCACTTAAACACTT
* *
26844 CAATTTACAGCATTTAAACACCT
1 CAATTTACAGCACTTAAACACTT
* * * *
26867 CAACTTACAACACTTTAACA-TCC
1 CAATTTACAGCACTTAAACACT-T
* * * * *
26890 CAATTAACAACATTTATACACCT
1 CAATTTACAGCACTTAAACACTT
26913 CAA-TTACAGCGA--TAAACA-TCT
1 CAATTTACAGC-ACTTAAACACT-T
* * *
26934 CAATTTCCAACAAC-TAAACAATT
1 CAATTTACAGC-ACTTAAACACTT
* *
26957 CAATTTGCAGTACTTAAAACACTT
1 CAATTTACAGCACTT-AAACACTT
* *
26981 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCACTTAAACACTT
* *
27004 CAATTTGCAGCACGTT-AACACTC
1 CAATTTACAGCAC-TTAAACACTT
* * **
27027 CAATTCACAGCATTTAAATTCTT
1 CAATTTACAGCACTTAAACACTT
* *
27050 CAATTTGCAACACTT
1 CAATTTACAGCACTT
27065 GAATAGGGCT
Statistics
Matches: 201, Mismatches: 53, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
21 9 0.04
22 18 0.09
23 150 0.75
24 24 0.12
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (23 bp):
CAATTTACAGCACTTAAACACTT
Found at i:26811 original size:46 final size:46
Alignment explanation
Indices: 26769--27044 Score: 231
Period size: 46 Copynumber: 6.0 Consensus size: 46
26759 ACTCATTTGT
* * * *
26769 ACACCACAATTTGCAGCACTTAAACACTTCAATTTACATCATTTGA
1 ACACCTCAATTTACAGCACTTAAACACTTCAATTTACAACATTTAA
* * * *
26815 GCACCTTAATTTACAGCAATTAAACACTTCAATTTACAGCATTTAA
1 ACACCTCAATTTACAGCACTTAAACACTTCAATTTACAACATTTAA
* * * * * *
26861 ACACCTCAACTTACAACACTTTAACA-TCCCAATTAACAACATTTAT
1 ACACCTCAATTTACAGCACTTAAACACT-TCAATTTACAACATTTAA
* **
26907 ACACCTCAA-TTACAGCGA--TAAACA-TCTCAATTTCCAACAACTAA
1 ACACCTCAATTTACAGC-ACTTAAACACT-TCAATTTACAACATTTAA
** * *
26951 ACAATTCAATTTGCAGTACTTAAAACACTTCAATTTACAACATTTAA
1 ACACCTCAATTTACAGCACTT-AAACACTTCAATTTACAACATTTAA
* * * * *
26998 ACACTTCAATTTGCAGCACGTT-AACACTCCAATTCACAGCATTTAA
1 ACACCTCAATTTACAGCAC-TTAAACACTTCAATTTACAACATTTAA
27044 A
1 A
27045 TTCTTCAATT
Statistics
Matches: 185, Mismatches: 37, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
44 27 0.15
45 12 0.06
46 106 0.57
47 37 0.20
48 3 0.02
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.29
Consensus pattern (46 bp):
ACACCTCAATTTACAGCACTTAAACACTTCAATTTACAACATTTAA
Found at i:27578 original size:15 final size:15
Alignment explanation
Indices: 27558--27586 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27548 TTTAAGACAA
27558 CATGAATACTTACAG
1 CATGAATACTTACAG
27573 CATGAATACTTACA
1 CATGAATACTTACA
27587 TTTTAATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (15 bp):
CATGAATACTTACAG
Found at i:37537 original size:4 final size:4
Alignment explanation
Indices: 37528--37553 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37518 ATTTCATAAG
37528 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
37554 ATTTTGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:39589 original size:20 final size:20
Alignment explanation
Indices: 39556--39596 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39546 TTGAAATTTG
* *
39556 TTTTAAATTTTTAAATAAAT
1 TTTTAAATTATTAAAAAAAT
*
39576 TTTTATATTATTAAAAAAAT
1 TTTTAAATTATTAAAAAAAT
39596 T
1 T
39597 CAATATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAATTATTAAAAAAAT
Found at i:41805 original size:30 final size:28
Alignment explanation
Indices: 41771--41830 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
41761 CATTTAGATA
41771 ATTTTTAAAATTTAAAAAAATATAAAAATT
1 ATTTTTAAAA-TT-AAAAAATATAAAAATT
* *
41801 ATTTTTAAAATTAAAAATTATTAAAATT
1 ATTTTTAAAATTAAAAAATATAAAAATT
41829 AT
1 AT
41831 AAAATGTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 16 0.57
29 2 0.07
30 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTTTTAAAATTAAAAAATATAAAAATT
Found at i:43669 original size:17 final size:17
Alignment explanation
Indices: 43647--43680 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43637 TATTCTTATC
*
43647 ATTAATATTTATTTTTA
1 ATTAATATTTATATTTA
*
43664 ATTAATTTTTATATTTA
1 ATTAATATTTATATTTA
43681 TCCTAGCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTAATATTTATATTTA
Found at i:46742 original size:25 final size:25
Alignment explanation
Indices: 46708--46760 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 25
46698 TTTTCACTAG
46708 TTGTGAAGGGCTCCAAATTAA-GCCT
1 TTGTGAAGGGCTCCAAA-TAATGCCT
46733 TTGTGAAGGGCTCCAAATAATGCCT
1 TTGTGAAGGGCTCCAAATAATGCCT
46758 TTG
1 TTG
46761 AAAATAGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (25 bp):
TTGTGAAGGGCTCCAAATAATGCCT
Found at i:55066 original size:2 final size:2
Alignment explanation
Indices: 55059--55089 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
55049 TTTGTTTTAT
55059 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
55090 TGGCTCTTGT
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:57195 original size:12 final size:12
Alignment explanation
Indices: 57178--57202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57168 TTAATTACTA
57178 TTGTTGTTGTCG
1 TTGTTGTTGTCG
57190 TTGTTGTTGTCG
1 TTGTTGTTGTCG
57202 T
1 T
57203 ACAGCAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.32, T:0.60
Consensus pattern (12 bp):
TTGTTGTTGTCG
Found at i:64287 original size:95 final size:97
Alignment explanation
Indices: 64120--64316 Score: 292
Period size: 95 Copynumber: 2.0 Consensus size: 97
64110 GAAATTGAAT
* *
64120 ATATAATTATAATTATTTAAATGCTCGCTCCTAGCTCTTATTACCATTGTAAAAGTTTTGCTTGT
1 ATATAATTATAATTATTTAAA--CTCGCTCCTAGATCTTATTACCATTGTAAAAGTTTTACTTGT
*
64185 GTTATAAAGTTATATATATAATT-TTTTTTCCAAA
64 GTTATAAACTTATATATA-AATTATTTTTTCCAAA
* *
64219 ATATAATTATAATTATTTAAA-T-GCTCCTAGATTTTATTACTATTGTAAAAGTTTTACTTGTGT
1 ATATAATTATAATTATTTAAACTCGCTCCTAGATCTTATTACCATTGTAAAAGTTTTACTTGTGT
*
64282 TATAAACTTATATATAATTTATTTTTTCCAAA
66 TATAAACTTATATATAAATTATTTTTTCCAAA
64314 ATA
1 ATA
64317 AGTTTTTTAA
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
94 3 0.03
95 66 0.73
96 1 0.01
99 21 0.23
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.48
Consensus pattern (97 bp):
ATATAATTATAATTATTTAAACTCGCTCCTAGATCTTATTACCATTGTAAAAGTTTTACTTGTGT
TATAAACTTATATATAAATTATTTTTTCCAAA
Found at i:68585 original size:34 final size:34
Alignment explanation
Indices: 68542--68612 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
68532 TATTCGAATG
* *
68542 CATAAGACATTTCAACCCAGAAATGCCTGAATCC
1 CATAAGACATCTCAACCCAGAAATGCCTAAATCC
68576 CATAAGACATCTCAACCCAGAAATGCCTAAATCC
1 CATAAGACATCTCAACCCAGAAATGCCTAAATCC
68610 CAT
1 CAT
68613 CCAAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.20
Consensus pattern (34 bp):
CATAAGACATCTCAACCCAGAAATGCCTAAATCC
Found at i:70598 original size:21 final size:21
Alignment explanation
Indices: 70572--70626 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
70562 AATAGCGGTG
*
70572 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
70593 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
**
70614 GCAATGAGATTAG
1 GCGGTGAGATTAG
70627 AAACAGCGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:74185 original size:6 final size:6
Alignment explanation
Indices: 74174--74206 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
74164 TTTGCAACCC
*
74174 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAG
74207 AAGAAGGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:74212 original size:18 final size:18
Alignment explanation
Indices: 74174--74214 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
74164 TTTGCAACCC
*
74174 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGAG
74192 AAGGGGAAGGGG-AAGAAG
1 AAGGGGAAGGGGAAAG-AG
74210 AAGGG
1 AAGGG
74215 TAGCCAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGAG
Found at i:81487 original size:14 final size:14
Alignment explanation
Indices: 81444--81488 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
81434 AATAGTAAAA
*
81444 TAATATTTAGAATA
1 TAATATTTAGAATT
81458 TAATATTTAGAGATT
1 TAATATTTAGA-ATT
*
81473 TAATATTTATAATT
1 TAATATTTAGAATT
81487 TA
1 TA
81489 GGATTAGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (14 bp):
TAATATTTAGAATT
Found at i:89094 original size:6 final size:6
Alignment explanation
Indices: 89083--89114 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
89073 AAGGTCCGGA
89083 TGCGGG TGCGGG TGCGGG TGCGGG TGCGGG TG
1 TGCGGG TGCGGG TGCGGG TGCGGG TGCGGG TG
89115 TGGGCGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.66, T:0.19
Consensus pattern (6 bp):
TGCGGG
Found at i:101797 original size:36 final size:36
Alignment explanation
Indices: 101656--101801 Score: 220
Period size: 36 Copynumber: 4.1 Consensus size: 36
101646 TGGGCTGGGG
*
101656 CTGGGACTGGGGCTGCGAATTCGAGGCTGACTTAGA
1 CTGGGGCTGGGGCTGCGAATTCGAGGCTGACTTAGA
* * *
101692 TTCGGGCTGGGGCTGCGAATTCGATGCTGACTTAGA
1 CTGGGGCTGGGGCTGCGAATTCGAGGCTGACTTAGA
* *
101728 CTTGGGCTGGGGCTGCGAATTCGAGGCTGACTTGGA
1 CTGGGGCTGGGGCTGCGAATTCGAGGCTGACTTAGA
* *
101764 CTGGGGCTGGGGCTGCGAATTCGAGGCTTACTTGGA
1 CTGGGGCTGGGGCTGCGAATTCGAGGCTGACTTAGA
101800 CT
1 CT
101802 AGAAGAAGGG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.16, C:0.20, G:0.39, T:0.25
Consensus pattern (36 bp):
CTGGGGCTGGGGCTGCGAATTCGAGGCTGACTTAGA
Found at i:103975 original size:4 final size:4
Alignment explanation
Indices: 103966--103992 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
103956 AACCATCAAA
103966 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
103993 AATATAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:107404 original size:24 final size:22
Alignment explanation
Indices: 107361--107408 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
107351 ATATACCTTT
107361 AAATAAAATAATTCAAAAATCAA
1 AAATAAAATAATTCAAAAAT-AA
*
107384 AAATCAAATGAATT-AATAAATAA
1 AAATAAAAT-AATTCAA-AAATAA
107407 AA
1 AA
107409 TATTTTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATAAAATAATTCAAAAATAA
Found at i:107661 original size:9 final size:9
Alignment explanation
Indices: 107647--107676 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
107637 CGCGACTCAC
107647 TCTTCTTCA
1 TCTTCTTCA
107656 TCTTCTTCA
1 TCTTCTTCA
107665 TCTTCTTCA
1 TCTTCTTCA
107674 TCT
1 TCT
107677 GCCCACATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (9 bp):
TCTTCTTCA
Found at i:109220 original size:18 final size:18
Alignment explanation
Indices: 109196--109238 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
109186 GGATGAACCA
109196 GAAGAAGATGATGAAGGG
1 GAAGAAGATGATGAAGGG
* * *
109214 GATGAAGATGGTGAATGG
1 GAAGAAGATGATGAAGGG
109232 GAAGAAG
1 GAAGAAG
109239 CAGATGCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (18 bp):
GAAGAAGATGATGAAGGG
Found at i:112400 original size:4 final size:4
Alignment explanation
Indices: 112391--112496 Score: 77
Period size: 4 Copynumber: 26.5 Consensus size: 4
112381 TTTCTTAATA
* * * * * * *
112391 ACAT ACAT ACAT ACAT GCAT GCAT GCAT GCAT ACAT ACAC ACAC ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* ** * ** * *
112439 ACAC ACGC ACAC ACGC ACAC GCAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
112487 ACAT ACAT AC
1 ACAT ACAT AC
112497 CCACTGTCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 92 1.00
ACGTcount: A:0.43, C:0.33, G:0.07, T:0.17
Consensus pattern (4 bp):
ACAT
Found at i:115518 original size:25 final size:26
Alignment explanation
Indices: 115468--115521 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
115458 TATACAGATC
*
115468 AAAGACAGTGAACCCAATTATGAAAA
1 AAAGACACTGAACCCAATTATGAAAA
*
115494 AAAGACACTGAGCCC-ATTATGAAAA
1 AAAGACACTGAACCCAATTATGAAAA
115519 AAA
1 AAA
115522 TGGTAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.15
Consensus pattern (26 bp):
AAAGACACTGAACCCAATTATGAAAA
Found at i:129545 original size:22 final size:21
Alignment explanation
Indices: 129520--129560 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
129510 AAGGAAAGAA
*
129520 TTAGAAGTAAGAATGCAAAAAT
1 TTAGAA-TAAAAATGCAAAAAT
129542 TTAGAATAAAAATGCAAAA
1 TTAGAATAAAAATGCAAAA
129561 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.22
Consensus pattern (21 bp):
TTAGAATAAAAATGCAAAAAT
Found at i:135988 original size:31 final size:31
Alignment explanation
Indices: 135953--136013 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
135943 TAGCCCAATG
*
135953 ACTTAAAT-AAAATCTTTCAAATAGTTTAGTA
1 ACTTAAATGAAAA-CTTTCAAATAATTTAGTA
*
135984 ACTTAAATGAAAACTTTCAAGTAATTTAGT
1 ACTTAAATGAAAACTTTCAAATAATTTAGT
136014 GAATATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCAAATAATTTAGTA
Found at i:142970 original size:2 final size:2
Alignment explanation
Indices: 142963--142990 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
142953 TCTACAACTT
142963 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
142991 ATCAATAAAA
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:143729 original size:129 final size:126
Alignment explanation
Indices: 143346--143749 Score: 546
Period size: 129 Copynumber: 3.2 Consensus size: 126
143336 GCTAGCATGG
* * * * *
143346 ATATAATTCATGTTGTGGACAACTAGGAATCTTAAAAGATGTAGCTTTAGATCAATTTGTGGTGT
1 ATATAATTCATGGTGTGAACAACTAAGAACCTT-AAAGATGTAGCTTTAGATCAATTTGGGGTGT
*
143411 AATATAACATTCAATCAAGATGAGCTAGCATGAAAAAGTGTTGATATAAACATAT--AT-AC
65 AATATAACATTCAATCAAGATGAGCTAGCATGAAAAAGTGTTGATATAGACATATAAATAAC
* * * *
143470 ATATAATTCATGGCGTGAACAA-TAGGAACCTTAAAGATGGAGCTTTAGATCTATTTGGGGTGTA
1 ATATAATTCATGGTGTGAACAACTAAGAACCTTAAAGATGTAGCTTTAGATCAATTTGGGGTGTA
* * * *
143534 ATATAACATTCAATCAAGATAAGCTAGCATGAAAAAGTGTCGATATAGACACACATACATAAAC
66 ATATAACATTCAATCAAGATGAGCTAGCATGAAAAAGTGTTGATATAG--ACATATAAAT-AAC
* * ***
143598 ATATAATTCAAGGTTTGAACAACTAAGAGTGTTAAAGATGTAGCTTTAGATCAATTTGGGGTGTA
1 ATATAATTCATGGTGTGAACAACTAAGAACCTTAAAGATGTAGCTTTAGATCAATTTGGGGTGTA
*
143663 ATATAACATTCAATCAAGATGAGCTAGCATGAAAAAGTGTTGATATAGACATATAAAAATAC
66 ATATAACATTCAATCAAGATGAGCTAGCATGAAAAAGTGTTGATATAGACATATAAATA-AC
*
143725 ACATAATTCATGGTGTGAACAACTA
1 ATATAATTCATGGTGTGAACAACTA
143750 GGAATCTGAA
Statistics
Matches: 244, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
122 74 0.30
123 9 0.04
124 24 0.10
126 3 0.01
127 31 0.13
128 21 0.09
129 82 0.34
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (126 bp):
ATATAATTCATGGTGTGAACAACTAAGAACCTTAAAGATGTAGCTTTAGATCAATTTGGGGTGTA
ATATAACATTCAATCAAGATGAGCTAGCATGAAAAAGTGTTGATATAGACATATAAATAAC
Found at i:146501 original size:12 final size:12
Alignment explanation
Indices: 146484--146512 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
146474 TAGATAGTGA
146484 CACATGACATGC
1 CACATGACATGC
146496 CACATGACATGC
1 CACATGACATGC
146508 CACAT
1 CACAT
146513 ATACCTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (12 bp):
CACATGACATGC
Found at i:149937 original size:4 final size:4
Alignment explanation
Indices: 149930--149962 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
149920 AGGTAGAAGA
149930 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
149963 AGGAGTAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:154916 original size:26 final size:26
Alignment explanation
Indices: 154873--154925 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
154863 ATAGATAAAA
**
154873 TTTATATTTATATTTTTATCTTTATC
1 TTTATATTTATATTTTTAAATTTATC
*
154899 TTTATTTTTAT-TTATTTAAATTTATC
1 TTTATATTTATATT-TTTAAATTTATC
154925 T
1 T
154926 CTCAATCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTATATTTATATTTTTAAATTTATC
Found at i:162415 original size:2 final size:2
Alignment explanation
Indices: 162408--162496 Score: 78
Period size: 2 Copynumber: 44.0 Consensus size: 2
162398 AATGATTCAA
* *
162408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT ACT -T ACT -T TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT
*
162450 AT -T ACT AA AT AGT AT ACT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
162491 AT AT AT
1 AT AT AT
162497 CTCCAATGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
1 4 0.05
2 61 0.84
3 8 0.11
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:164823 original size:13 final size:13
Alignment explanation
Indices: 164805--164835 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
164795 TTATAAAAAT
164805 TTATGATCAATAA
1 TTATGATCAATAA
164818 TTATGATCAATAA
1 TTATGATCAATAA
*
164831 GTATG
1 TTATG
164836 GACATAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (13 bp):
TTATGATCAATAA
Found at i:165028 original size:14 final size:15
Alignment explanation
Indices: 164983--165030 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
164973 ACTAGAAAAT
*
164983 TTATAAAACTTTAT-
1 TTATAAAGCTTTATA
*
164997 TTATAAAGGTTATATA
1 TTATAAAGCTT-TATA
165013 TTAT-AAGCTTTATA
1 TTATAAAGCTTTATA
165027 TTAT
1 TTAT
165031 TCTTGATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 17 0.59
15 8 0.28
16 4 0.14
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (15 bp):
TTATAAAGCTTTATA
Found at i:168442 original size:36 final size:36
Alignment explanation
Indices: 168390--168460 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
168380 AGCTTCTGTG
168390 TCATCTTATACAAGACCATCCTCTCCCATTACTCGA
1 TCATCTTATACAAGACCATCCTCTCCCATTACTCGA
* *
168426 TCATCTTATACCAGACCATCCTCTCCTATTACTCG
1 TCATCTTATACAAGACCATCCTCTCCCATTACTCG
168461 CTCGCCATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.37, G:0.06, T:0.32
Consensus pattern (36 bp):
TCATCTTATACAAGACCATCCTCTCCCATTACTCGA
Found at i:179050 original size:21 final size:21
Alignment explanation
Indices: 179024--179068 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
179014 ATATTTGGTA
179024 TGTAGGCAATGCTGTTCAATT
1 TGTAGGCAATGCTGTTCAATT
179045 TGTAGGCAATGCTGTTCAATT
1 TGTAGGCAATGCTGTTCAATT
179066 TGT
1 TGT
179069 TGTCAGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (21 bp):
TGTAGGCAATGCTGTTCAATT
Found at i:180240 original size:13 final size:13
Alignment explanation
Indices: 180218--180289 Score: 99
Period size: 13 Copynumber: 5.5 Consensus size: 13
180208 CAAATGTCTC
*
180218 AAAAGCACTTTTG
1 AAAAGCACTTCTG
* *
180231 AAAAGTACTTCTC
1 AAAAGCACTTCTG
180244 AAAAGCACTTCTG
1 AAAAGCACTTCTG
*
180257 AAAAGCACTTCTC
1 AAAAGCACTTCTG
*
180270 AAAAGCACTTCTC
1 AAAAGCACTTCTG
180283 AAAAGCA
1 AAAAGCA
180290 ATGAAGAACT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 53 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (13 bp):
AAAAGCACTTCTG
Found at i:180243 original size:26 final size:26
Alignment explanation
Indices: 180214--180289 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
180204 CACTCAAATG
* *
180214 TCTCAAAAGCACTTTTGAAAAGTACT
1 TCTCAAAAGCACTTCTGAAAAGCACT
180240 TCTCAAAAGCACTTCTGAAAAGCACT
1 TCTCAAAAGCACTTCTGAAAAGCACT
*
180266 TCTCAAAAGCACTTCTCAAAAGCA
1 TCTCAAAAGCACTTCTGAAAAGCA
180290 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (26 bp):
TCTCAAAAGCACTTCTGAAAAGCACT
Found at i:200709 original size:20 final size:19
Alignment explanation
Indices: 200668--200713 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
200658 GTATTATATT
*
200668 AAATATTTATCTAATGTTC
1 AAATATTTATCCAATGTTC
*
200687 AAATATTTATCCCAATTTTC
1 AAATATTTAT-CCAATGTTC
200707 AAA-ATTT
1 AAATATTT
200714 TGTATGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (19 bp):
AAATATTTATCCAATGTTC
Found at i:201763 original size:19 final size:19
Alignment explanation
Indices: 201732--201771 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
201722 ATATGTCATA
*
201732 TTAATAAATAATTTAAAAT
1 TTAATAAATAATTCAAAAT
201751 TTAA-AAATAAATTCAAAAT
1 TTAATAAAT-AATTCAAAAT
201770 TT
1 TT
201772 TTAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAATAAATAATTCAAAAT
Found at i:211147 original size:19 final size:21
Alignment explanation
Indices: 211109--211149 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
211099 TTAATAGTTC
211109 AATAATTTGAATAAATTTTTTA
1 AATAATTTGAAT-AATTTTTTA
211131 AATAATTT-AAT-ATTTTTTA
1 AATAATTTGAATAATTTTTTA
211150 TAATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AATAATTTGAATAATTTTTTA
Found at i:215233 original size:17 final size:17
Alignment explanation
Indices: 215213--215257 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
215203 GCCTTATCAG
215213 TAATATTAATTTATAAA
1 TAATATTAATTTATAAA
*
215230 TAATATT-A-TCATAAA
1 TAATATTAATTTATAAA
215245 TAAT-TTAAGTTTA
1 TAATATTAA-TTTA
215258 ATCAACTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 1 0.04
17 9 0.39
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TAATATTAATTTATAAA
Found at i:215877 original size:34 final size:34
Alignment explanation
Indices: 215813--215877 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
215803 TGTATAAAAA
* *
215813 AAATTAAAATTTCATATATATATTTTTTTACACT
1 AAATTAAAATTTCATATATATATATATTTACACT
215847 AAATTAAAAATTT-ATATATATATATATTTAC
1 AAATT-AAAATTTCATATATATATATATTTAC
215878 TTTTTCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (34 bp):
AAATTAAAATTTCATATATATATATATTTACACT
Found at i:223118 original size:117 final size:117
Alignment explanation
Indices: 222912--223145 Score: 468
Period size: 117 Copynumber: 2.0 Consensus size: 117
222902 GGAAGCTATT
222912 CTCTACCTGCTTTCTCCCTTTAATATTTTTTAATTTGATTTTTAGTTTTTTTGGGCGAATTACAA
1 CTCTACCTGCTTTCTCCCTTTAATATTTTTTAATTTGATTTTTAGTTTTTTTGGGCGAATTACAA
222977 TAATAGGACAAAACCCGAACAACAAACACGACTTGAACTCGGACCACAGCTG
66 TAATAGGACAAAACCCGAACAACAAACACGACTTGAACTCGGACCACAGCTG
223029 CTCTACCTGCTTTCTCCCTTTAATATTTTTTAATTTGATTTTTAGTTTTTTTGGGCGAATTACAA
1 CTCTACCTGCTTTCTCCCTTTAATATTTTTTAATTTGATTTTTAGTTTTTTTGGGCGAATTACAA
223094 TAATAGGACAAAACCCGAACAACAAACACGACTTGAACTCGGACCACAGCTG
66 TAATAGGACAAAACCCGAACAACAAACACGACTTGAACTCGGACCACAGCTG
223146 AGGCGGTGAA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (117 bp):
CTCTACCTGCTTTCTCCCTTTAATATTTTTTAATTTGATTTTTAGTTTTTTTGGGCGAATTACAA
TAATAGGACAAAACCCGAACAACAAACACGACTTGAACTCGGACCACAGCTG
Found at i:225028 original size:47 final size:47
Alignment explanation
Indices: 224975--225068 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
224965 GTACATGTTG
224975 GGAAAAAACAGAGGGCGCAGAACATGCATATCAAAATAAACTAACCT
1 GGAAAAAACAGAGGGCGCAGAACATGCATATCAAAATAAACTAACCT
225022 GGAAAAAACAGAGGGCGCAGAACATGCATATCAAAATAAACTAACCT
1 GGAAAAAACAGAGGGCGCAGAACATGCATATCAAAATAAACTAACCT
225069 CAAAAGAGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.13
Consensus pattern (47 bp):
GGAAAAAACAGAGGGCGCAGAACATGCATATCAAAATAAACTAACCT
Found at i:231707 original size:24 final size:24
Alignment explanation
Indices: 231660--231708 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
231650 CGGTGTTTCT
*
231660 CATTAATTGCTCTTCGGAGATACC
1 CATTAATTGCTCTTCAGAGATACC
* * *
231684 CATTAATTGCTTTTTAGAGCTACC
1 CATTAATTGCTCTTCAGAGATACC
231708 C
1 C
231709 GTTATAGGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (24 bp):
CATTAATTGCTCTTCAGAGATACC
Found at i:236010 original size:13 final size:13
Alignment explanation
Indices: 235978--236019 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
235968 TCTCTTGATG
* *
235978 AATGAAAACAAAA
1 AATGAAAATAATA
*
235991 AACGAAAATAATA
1 AATGAAAATAATA
236004 AATG-AAATAATA
1 AATGAAAATAATA
236016 AATG
1 AATG
236020 CTGGAGATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.17
Consensus pattern (13 bp):
AATGAAAATAATA
Found at i:259475 original size:19 final size:20
Alignment explanation
Indices: 259446--259498 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
259436 AAAATATAAT
*
259446 TTTTAGAATTTTTAGAAAT-A
1 TTTT-GAATTTTTAAAAATCA
259466 TTTTGAATTTTTAAAAATCA
1 TTTTGAATTTTTAAAAATCA
259486 TTTTGAATCTTTT
1 TTTTGAAT-TTTT
259499 TTGTAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 13 0.43
21 4 0.13
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATCA
Found at i:260106 original size:24 final size:24
Alignment explanation
Indices: 260079--260124 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
260069 TTATAAAAGT
*
260079 AAGAGATCAATTTGTTAAATTTCA
1 AAGAGAACAATTTGTTAAATTTCA
*
260103 AAGATAACAATTTGTTAAATTT
1 AAGAGAACAATTTGTTAAATTT
260125 GAATATGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (24 bp):
AAGAGAACAATTTGTTAAATTTCA
Found at i:266342 original size:26 final size:25
Alignment explanation
Indices: 266300--266348 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
266290 TTTTAAAAAG
*
266300 TAATTTTTATAGCATGAGATTTTTA
1 TAATTTTTATAGCATGAAATTTTTA
*
266325 TAATTTTTATAGTTATGAAATTTT
1 TAATTTTTATAG-CATGAAATTTT
266349 GAAAGGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (25 bp):
TAATTTTTATAGCATGAAATTTTTA
Found at i:266624 original size:12 final size:12
Alignment explanation
Indices: 266607--266632 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
266597 AAATAGAATT
266607 AAATTATTGAAG
1 AAATTATTGAAG
266619 AAATTATTGAAG
1 AAATTATTGAAG
266631 AA
1 AA
266633 TGATACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (12 bp):
AAATTATTGAAG
Found at i:272885 original size:5 final size:5
Alignment explanation
Indices: 272877--272915 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
272867 TTAAGTTAAA
* *
272877 TATAT TATAT TATAT TATAT CATAT TATAC TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
272916 GAGTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:272903 original size:20 final size:20
Alignment explanation
Indices: 272878--272915 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
272868 TAAGTTAAAT
*
272878 ATATTATATTATATTATATC
1 ATATTATACTATATTATATC
272898 ATATTATACTATATTATA
1 ATATTATACTATATTATA
272916 GAGTAAATAT
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:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTATACTATATTATATC
Found at i:280760 original size:30 final size:28
Alignment explanation
Indices: 280712--280781 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 28
280702 TTTTTATAAA
*
280712 AATTTA-AACATTTCAAATATGTTTTATT
1 AATTTATAAGATTTCAAATATGTTTTA-T
* *
280740 AATTTTATAAGATTTTAAATATTTTTTAT
1 AA-TTTATAAGATTTCAAATATGTTTTAT
*
280769 AATTTATCAGATT
1 AATTTATAAGATT
280782 ATTTAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.33
29 7 0.19
30 17 0.47
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (28 bp):
AATTTATAAGATTTCAAATATGTTTTAT
Found at i:280787 original size:30 final size:31
Alignment explanation
Indices: 280721--280794 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 31
280711 AAATTTAAAC
*
280721 ATTTCAAATATGTTTTATTAATTTTATAAGAT
1 ATTT-AAATATTTTTTATTAATTTTATAAGAT
*
280753 -TTTAAATATTTTTTA-TAA-TTTATCAGATT
1 ATTTAAATATTTTTTATTAATTTTATAAGA-T
*
280782 ATTTAAAAATTTT
1 ATTTAAATATTTT
280795 ATAAGTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 8 0.22
29 4 0.11
30 22 0.59
31 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (31 bp):
ATTTAAATATTTTTTATTAATTTTATAAGAT
Found at i:282480 original size:17 final size:17
Alignment explanation
Indices: 282458--282493 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
282448 AAATGTATGC
282458 ATTTAA-AAATAATTATA
1 ATTTAATAAA-AATTATA
282475 ATTTAATAAAAATTATA
1 ATTTAATAAAAATTATA
282492 AT
1 AT
282494 AATTACGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAATAAAAATTATA
Found at i:293970 original size:49 final size:49
Alignment explanation
Indices: 293898--293997 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
293888 TTGTCATTTT
*
293898 GCTGTCTTGGTTTTCATAGCTATCGATTGGTGTGATCATCAACCTAAGA
1 GCTGTCTTGGTTTTCATAGCTATCAATTGGTGTGATCATCAACCTAAGA
* *
293947 GCTGTCTTGGTTTTTATAGCTATCAATTGGTGTGATCATTAACCTAAGA
1 GCTGTCTTGGTTTTCATAGCTATCAATTGGTGTGATCATCAACCTAAGA
293996 GC
1 GC
293998 ATTCATTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (49 bp):
GCTGTCTTGGTTTTCATAGCTATCAATTGGTGTGATCATCAACCTAAGA
Found at i:304821 original size:22 final size:21
Alignment explanation
Indices: 304781--304821 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
304771 CTGAAAAAAA
* *
304781 AGGGTTATGAACCGCAAAATT
1 AGGGTTATGAACAGAAAAATT
304802 AGGGATTATGAACAGAAAAA
1 AGGG-TTATGAACAGAAAAA
304822 GACCCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (21 bp):
AGGGTTATGAACAGAAAAATT
Found at i:308211 original size:3 final size:3
Alignment explanation
Indices: 308203--308238 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
308193 ATGAAAACTT
*
308203 TGA TGA TGA TGA TGA TGA TGA AGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
308239 GAGATATGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:308431 original size:15 final size:15
Alignment explanation
Indices: 308411--308439 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
308401 AGCTTTTTGC
308411 TTTATTTTTTATTTT
1 TTTATTTTTTATTTT
308426 TTTATTTTTTATTT
1 TTTATTTTTTATTT
308440 GCATGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTATTTTTTATTTT
Found at i:310948 original size:2 final size:2
Alignment explanation
Indices: 310941--310973 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
310931 TTCCAAAAGC
310941 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
310974 GCAAATGCCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:319628 original size:13 final size:13
Alignment explanation
Indices: 319610--319635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
319600 ATTAGAGAGG
319610 AATATGTATATAT
1 AATATGTATATAT
319623 AATATGTATATAT
1 AATATGTATATAT
319636 CATTTGTCCA
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:0.08, T:0.46
Consensus pattern (13 bp):
AATATGTATATAT
Found at i:320207 original size:27 final size:25
Alignment explanation
Indices: 320159--320210 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
320149 ATAAATAATT
*
320159 TAAAAATTATAAATATTCAAAAAAA
1 TAAAAATTATAAACATTCAAAAAAA
*
320184 TAAAAAGTTCATAAACATTTAAAAAAA
1 TAAAAA-TT-ATAAACATTCAAAAAAA
320211 AATCATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 15 0.65
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (25 bp):
TAAAAATTATAAACATTCAAAAAAA
Found at i:320727 original size:25 final size:24
Alignment explanation
Indices: 320693--320739 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
320683 ACATTATAAG
* *
320693 TCATTTAATTATGGATTATTTTTTA
1 TCATTCAATTATGAATT-TTTTTTA
320718 TCATTCAATTATGAATTTTTTT
1 TCATTCAATTATGAATTTTTTT
320740 AAAATTGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (24 bp):
TCATTCAATTATGAATTTTTTTTA
Found at i:335271 original size:15 final size:15
Alignment explanation
Indices: 335251--335285 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
335241 AAATTTTTTC
*
335251 TTTTTCTTTTTCTTT
1 TTTTTCTTTCTCTTT
335266 TTTTTCTTTCTCTTT
1 TTTTTCTTTCTCTTT
335281 TTTTT
1 TTTTT
335286 ATGCTTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTCTCTTT
Found at i:336215 original size:8 final size:7
Alignment explanation
Indices: 336185--336248 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
336175 TTAATATCCA
*
336185 AATAAGT
1 AATAAAT
336192 AATAAAT
1 AATAAAT
336199 AAT-AA-
1 AATAAAT
336204 AATAAAGT
1 AATAAA-T
336212 AATAAAT
1 AATAAAT
*
336219 AAAGTAAAG
1 -AA-TAAAT
336228 AA-AAAT
1 AATAAAT
336234 AATAAAT
1 AATAAAT
336241 AA-AAAT
1 AATAAAT
336247 AA
1 AA
336249 AATTTGGGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
5 3 0.06
6 15 0.31
7 16 0.33
8 10 0.21
9 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:336216 original size:13 final size:12
Alignment explanation
Indices: 336192--336251 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
336182 CCAAATAAGT
336192 AATAAATAATAA
1 AATAAATAATAA
336204 AATAAAGTAAT-A
1 AATAAA-TAATAA
*
336216 AATAAAGTAA-AG
1 AATAAA-TAATAA
336228 AA-AAATAAT-A
1 AATAAATAATAA
336238 AATAAA-AATAA
1 AATAAATAATAA
336249 AAT
1 AAT
336252 TTGGGTTGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 8 0.20
11 10 0.24
12 19 0.46
13 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:343359 original size:2 final size:2
Alignment explanation
Indices: 343352--343390 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
343342 TAAACAATGT
343352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
343391 GAATGTATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:344630 original size:24 final size:25
Alignment explanation
Indices: 344603--344654 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
344593 CGTTCCCATG
*
344603 TAAATATTAAAATATAAATTAG-TA
1 TAAATATTAAAATAAAAATTAGATA
*
344627 TAAATATTAATATAAAAATTAGATA
1 TAAATATTAAAATAAAAATTAGATA
344652 TAA
1 TAA
344655 TGATAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
TAAATATTAAAATAAAAATTAGATA
Found at i:344758 original size:16 final size:16
Alignment explanation
Indices: 344737--344769 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
344727 TTAAATTTTA
344737 TAATTTTTTAGAAATT
1 TAATTTTTTAGAAATT
344753 TAATTTTTTAGAAATT
1 TAATTTTTTAGAAATT
344769 T
1 T
344770 GAGTTGTCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TAATTTTTTAGAAATT
Found at i:348319 original size:12 final size:12
Alignment explanation
Indices: 348302--348327 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
348292 TCCACCTTGA
348302 AATAAACTGTGC
1 AATAAACTGTGC
348314 AATAAACTGTGC
1 AATAAACTGTGC
348326 AA
1 AA
348328 AATGCCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (12 bp):
AATAAACTGTGC
Found at i:350231 original size:21 final size:21
Alignment explanation
Indices: 350207--350259 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
350197 ATTAAAAATT
350207 TTAAAATTTTCGAGGCACTAA
1 TTAAAATTTTCGAGGCACTAA
*
350228 TTAAAATTTTCGAGGCGCTAA
1 TTAAAATTTTCGAGGCACTAA
350249 TTAAAATTTTC
1 TTAAAATTTTC
350260 AAATATTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (21 bp):
TTAAAATTTTCGAGGCACTAA
Found at i:350359 original size:21 final size:21
Alignment explanation
Indices: 350322--350365 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
350312 AAAAACTTTT
* *
350322 AAAATTTGAAGAGTTTATTAA
1 AAAATTTCAAGAGTTTATGAA
350343 AAAATTTCAA-AGCTTTATGAA
1 AAAATTTCAAGAG-TTTATGAA
350364 AA
1 AA
350366 CTTAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (21 bp):
AAAATTTCAAGAGTTTATGAA
Found at i:363879 original size:2 final size:2
Alignment explanation
Indices: 363872--363917 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
363862 AGTATGGGTC
* * *
363872 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AG AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
363914 AT AT
1 AT AT
363918 TTTAGAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:372695 original size:20 final size:19
Alignment explanation
Indices: 372670--372715 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
372660 CGAAAAATGA
372670 TTTTTGGAAAATGGAATAGT
1 TTTTTGGAAAATGGAATA-T
* **
372690 TTTTTGAAAAATGTTATAT
1 TTTTTGGAAAATGGAATAT
372709 TTTTTGG
1 TTTTTGG
372716 TGTTTGATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (19 bp):
TTTTTGGAAAATGGAATAT
Found at i:377868 original size:218 final size:218
Alignment explanation
Indices: 377490--377930 Score: 873
Period size: 218 Copynumber: 2.0 Consensus size: 218
377480 ATGCTAGTTT
377490 TTAACAGTAGGAAATGATAAAATTTTTAATAGAAATGATAAATTTGCTCTTTGTTCTAACATAAA
1 TTAACAGTAGGAAATGATAAAATTTTTAATAGAAATGATAAATTTGCTCTTTGTTCTAACATAAA
377555 GAGAGCCAATTGCAATCAAATTCTTAGTGCAATGATCTCCATGGTATTTTTACCTTTGAAGTACT
66 GAGAGCCAATTGCAATCAAATTCTTAGTGCAATGATCTCCATGGTATTTTTACCTTTGAAGTACT
377620 TGATGTTAATGAGCTTAATCCTTTTGCAGTCCATAAAGATTAATCCTTTTGAGGTTTGTGATTAT
131 TGATGTTAATGAGCTTAATCCTTTTGCAGTCCATAAAGATTAATCCTTTTGAGGTTTGTGATTAT
377685 TAACAATATCATCTCTAAAATTC
196 TAACAATATCATCTCTAAAATTC
377708 TTAACAGTAGGAAATGATAAAATTTTTAATAGAAATGATAAATTTGCTCTTTGTTCTAACATAAA
1 TTAACAGTAGGAAATGATAAAATTTTTAATAGAAATGATAAATTTGCTCTTTGTTCTAACATAAA
377773 GAGAGCCAATTGCAATCAAATTCTTAGTGCAATGATCTCCATGGTATTTTTACCTTTGAAGTACT
66 GAGAGCCAATTGCAATCAAATTCTTAGTGCAATGATCTCCATGGTATTTTTACCTTTGAAGTACT
377838 TGATGTTAATGAGCTTAATCCTTTTGCAGTCCATAAAGATTAATCCTTTTGAGGTTTGTGATTAT
131 TGATGTTAATGAGCTTAATCCTTTTGCAGTCCATAAAGATTAATCCTTTTGAGGTTTGTGATTAT
377903 TAACAATATCATCTCTAAAATTC
196 TAACAATATCATCTCTAAAATTC
*
377926 CTAAC
1 TTAAC
377931 CTGTATTCAC
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
218 222 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (218 bp):
TTAACAGTAGGAAATGATAAAATTTTTAATAGAAATGATAAATTTGCTCTTTGTTCTAACATAAA
GAGAGCCAATTGCAATCAAATTCTTAGTGCAATGATCTCCATGGTATTTTTACCTTTGAAGTACT
TGATGTTAATGAGCTTAATCCTTTTGCAGTCCATAAAGATTAATCCTTTTGAGGTTTGTGATTAT
TAACAATATCATCTCTAAAATTC
Found at i:383896 original size:37 final size:34
Alignment explanation
Indices: 383855--383923 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 34
383845 TTATTTAAAT
383855 TTAATTAA-TATTAATTAATTATAAAGATTATTAATTA
1 TTAATTAATTATT-ATTAA--ATAAA-ATTATTAATTA
*
383892 TTAATTAATTATTTTTAAATAAAATTATTAAT
1 TTAATTAATTATTATTAAATAAAATTATTAAT
383924 ATTTATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 9 0.30
35 5 0.17
37 12 0.40
38 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (34 bp):
TTAATTAATTATTATTAAATAAAATTATTAATTA
Found at i:383917 original size:27 final size:26
Alignment explanation
Indices: 383887--383937 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
383877 AAAGATTATT
*
383887 AATTATTAATTAATTATTTTTAAATAA
1 AATTATTAA-TAATTATTTATAAATAA
*
383914 AATTATTAATATTTATTTATAAAT
1 AATTATTAATAATTATTTATAAAT
383938 CTTCGACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTATTAATAATTATTTATAAATAA
Found at i:384036 original size:57 final size:57
Alignment explanation
Indices: 383972--384087 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
383962 AATGATGATA
383972 TCGTACTATTATTTATGTGTATGAAACTTATACACTAACGACCCATCAAATATTTTT
1 TCGTACTATTATTTATGTGTATGAAACTTATACACTAACGACCCATCAAATATTTTT
384029 TCGTACTATTATTTATGTGTATGAAACTTATACACTAACGACCCATCAAATATTTTT
1 TCGTACTATTATTTATGTGTATGAAACTTATACACTAACGACCCATCAAATATTTTT
384086 TC
1 TC
384088 ATATGATTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.41
Consensus pattern (57 bp):
TCGTACTATTATTTATGTGTATGAAACTTATACACTAACGACCCATCAAATATTTTT
Found at i:400572 original size:9 final size:9
Alignment explanation
Indices: 400555--400591 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
400545 TGAGTTTTCG
400555 AATTCGAAT
1 AATTCGAAT
*
400564 AACTCGAAT
1 AATTCGAAT
400573 AATTCGAAT
1 AATTCGAAT
400582 AATTCGAAT
1 AATTCGAAT
400591 A
1 A
400592 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:402197 original size:2 final size:2
Alignment explanation
Indices: 402192--402225 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
402182 TAAAACACAC
*
402192 AT AT AT AT AA 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
402226 TTGTGTGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:410680 original size:16 final size:16
Alignment explanation
Indices: 410659--410708 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
410649 TGAAAAGGAT
410659 ATTGAAAAAATAGAAA
1 ATTGAAAAAATAGAAA
* *
410675 ATTGAAAGAATAGGGAA
1 ATTGAAAAAATA-GAAA
410692 A-T-AAAAAGATAGAAA
1 ATTGAAAAA-ATAGAAA
410707 AT
1 AT
410709 ATAAATTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 8 0.30
16 15 0.56
17 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (16 bp):
ATTGAAAAAATAGAAA
Found at i:412588 original size:30 final size:31
Alignment explanation
Indices: 412554--412620 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
412544 CTTAACACCC
* * * *
412554 AGTGATTTAAAT-AAATTTTTTGAATAGTTT
1 AGTGACTTAAATGAAAATTTTTAAAAAGTTT
412584 AGTGACTTAAATGAAAATTTTTAAAAAGTTT
1 AGTGACTTAAATGAAAATTTTTAAAAAGTTT
412615 AGTGAC
1 AGTGAC
412621 CATTTTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (31 bp):
AGTGACTTAAATGAAAATTTTTAAAAAGTTT
Found at i:414352 original size:2 final size:2
Alignment explanation
Indices: 414341--414371 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
414331 GATACATCAA
414341 AT AT -T 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
414372 GCATTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:416985 original size:20 final size:20
Alignment explanation
Indices: 416956--416994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
416946 ATACCCTTCA
*
416956 AAATTTTTAAAAATTAAATT
1 AAATTCTTAAAAATTAAATT
*
416976 AAATTCTTAAAACTTAAAT
1 AAATTCTTAAAAATTAAAT
416995 AGCAAGATCT
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:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTCTTAAAAATTAAATT
Found at i:420048 original size:15 final size:17
Alignment explanation
Indices: 420018--420050 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
420008 TCATGACATA
420018 ATATCATTGAGGAATGC
1 ATATCATTGAGGAATGC
420035 ATATCA-TG-GGAATGC
1 ATATCATTGAGGAATGC
420050 A
1 A
420051 GCAGGGACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (17 bp):
ATATCATTGAGGAATGC
Found at i:421785 original size:24 final size:24
Alignment explanation
Indices: 421753--421801 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
421743 GCATTGCTGA
421753 TTGCCTGATTGTACTATGTAAATG
1 TTGCCTGATTGTACTATGTAAATG
421777 TTGCCTGATTGTACTATGTAAATG
1 TTGCCTGATTGTACTATGTAAATG
421801 T
1 T
421802 AGTTATCGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (24 bp):
TTGCCTGATTGTACTATGTAAATG
Found at i:429900 original size:25 final size:25
Alignment explanation
Indices: 429870--429921 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
429860 TTATTTACAC
429870 TTAGGAATTGATTCTGCTTCTCTTA
1 TTAGGAATTGATTCTGCTTCTCTTA
429895 TTAGGAATTGATTCTGCTTCTCTTA
1 TTAGGAATTGATTCTGCTTCTCTTA
429920 TT
1 TT
429922 CTACTTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (25 bp):
TTAGGAATTGATTCTGCTTCTCTTA
Found at i:440542 original size:69 final size:70
Alignment explanation
Indices: 440396--440572 Score: 223
Period size: 69 Copynumber: 2.5 Consensus size: 70
440386 ATCAGTAAAA
*
440396 CTAGCTAAATCTTACATTAATTTACAAAACATTAATCGACAAAACCCCGAAAAAAAGTAGTAAAT
1 CTAGCTAAATATTACATTAA-TTACAAAACATTAATCGACAAAACCCC-AAAAAAAGTAGTAAAT
440461 CGAGCTC
64 CGAGCTC
* * * * *
440468 GTAGCTAAATATTCCATTAATTACAGAACATTAGTCGATC-AAACCCC-AGAAAAGTAGTAAATC
1 CTAGCTAAATATTACATTAATTACAAAACATTAATCGA-CAAAACCCCAAAAAAAGTAGTAAATC
440531 GAGCTC
65 GAGCTC
* * *
440537 CTAGCTAAATTTTACATTAATTTCCCAAACATTAAT
1 CTAGCTAAATATTACATTAA-TTACAAAACATTAAT
440573 TGATAAACCC
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
69 38 0.42
70 11 0.12
71 23 0.26
72 18 0.20
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (70 bp):
CTAGCTAAATATTACATTAATTACAAAACATTAATCGACAAAACCCCAAAAAAAGTAGTAAATCG
AGCTC
Found at i:447519 original size:19 final size:19
Alignment explanation
Indices: 447477--447519 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
447467 AGTAATCTAA
447477 AATATATAGCATAAATTAT
1 AATATATAGCATAAATTAT
* *
447496 TATATATA-TATAAATATAT
1 AATATATAGCATAAAT-TAT
447515 AATAT
1 AATAT
447520 CATGGGCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATATAGCATAAATTAT
Found at i:449453 original size:31 final size:31
Alignment explanation
Indices: 449417--449475 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
449407 ATTTGGTCAT
*
449417 TGAACTATTCGAAAGTTTTCATTTAAGTTGC
1 TGAACTATTCAAAAGTTTTCATTTAAGTTGC
*
449448 TGAACTATTCAAAAGTTTTTATTTAAGT
1 TGAACTATTCAAAAGTTTTCATTTAAGT
449476 CATTGGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTTGC
Found at i:450132 original size:25 final size:25
Alignment explanation
Indices: 450104--450153 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
450094 CGTCAACCTG
450104 GGCATAATGATCTGAAACAATTCAA
1 GGCATAATGATCTGAAACAATTCAA
450129 GGCATAATGATCTGAAACAATTCAA
1 GGCATAATGATCTGAAACAATTCAA
450154 ACCCTAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (25 bp):
GGCATAATGATCTGAAACAATTCAA
Found at i:454531 original size:30 final size:30
Alignment explanation
Indices: 454466--454541 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
454456 AAAAAAATTA
* *
454466 GAAAATTTTAGTAAGTTTGTAAAACTTTTT
1 GAAAATTTCATTAAGTTTGTAAAACTTTTT
* *
454496 GAAAATTTGATTAAGTTTCTTAAAA-TTTTCT
1 GAAAATTTCATTAAGTTT-GTAAAACTTTT-T
454527 -AAAATTCTCATTAAG
1 GAAAATT-TCATTAAG
454542 CCTCTCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 26 0.67
31 13 0.33
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (30 bp):
GAAAATTTCATTAAGTTTGTAAAACTTTTT
Found at i:459656 original size:30 final size:32
Alignment explanation
Indices: 459622--459723 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 32
459612 AAAAAAAATA
*
459622 GAAAATTTTAA-TAAG-TTCGTAAAATTTTTT
1 GAAAATTTTAATTAAGTTTCGTAAAATTTTCT
*
459652 GAAAATTTTAATTAAGTTTCTTAAAATTTTCT
1 GAAAATTTTAATTAAGTTTCGTAAAATTTTCT
* * ** *
459684 -AAAATTCTCATTAAGCCTC-TCAAAAGTTT-T
1 GAAAATTTTAATTAAGTTTCGT-AAAATTTTCT
459714 GAAAATTTTA
1 GAAAATTTTA
459724 TTGAACTCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
30 13 0.22
31 33 0.56
32 13 0.22
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (32 bp):
GAAAATTTTAATTAAGTTTCGTAAAATTTTCT
Found at i:459800 original size:63 final size:60
Alignment explanation
Indices: 459674--459800 Score: 134
Period size: 63 Copynumber: 2.1 Consensus size: 60
459664 TAAGTTTCTT
* * * *
459674 AAAATTTTCTAAAATTCTCATTAAGCCTCTCAAAAGTTTTGAAAATTTTATTGAACTCTC
1 AAAATTTTCTAAAATTCTCATTAAGCCCCTCAAAAGTTTTAAAAATTTTATTGAACCCCC
*
459734 AAAATTTTCTAAAAGAATTCTTATT-AGACCCCTCAAAA-TTTATAAAAATTTTAATT-AACCCC
1 AAAATTTTCT--AA-AATTCTCATTAAG-CCCCTCAAAAGTTT-TAAAAATTTT-ATTGAACCCC
459796 C
60 C
459797 AAAA
1 AAAA
459801 CTAACTATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
60 10 0.18
62 7 0.12
63 36 0.64
64 3 0.05
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (60 bp):
AAAATTTTCTAAAATTCTCATTAAGCCCCTCAAAAGTTTTAAAAATTTTATTGAACCCCC
Found at i:460397 original size:2 final size:2
Alignment explanation
Indices: 460390--460420 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
460380 GGGAGGAAGC
460390 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 A
460421 AAGATCAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:467754 original size:20 final size:19
Alignment explanation
Indices: 467701--467761 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
467691 CCAAATTATA
*
467701 TATTAAATATATTTATTTAT
1 TATTAAATATATATATTT-T
* *
467721 T-TTTAATCAAATATACTTTT
1 TATTAAAT-ATATATA-TTTT
467741 TATTAAATATATATATTTT
1 TATTAAATATATATATTTT
467760 TA
1 TA
467762 AACTTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 11 0.33
20 14 0.42
21 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTAAATATATATATTTT
Found at i:467793 original size:40 final size:38
Alignment explanation
Indices: 467691--467801 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 38
467681 TCGGCCCGGC
*
467691 CCAAATTATATATTAAATATAT-TTATTTATTTTTAAT
1 CCAAATTATATATTAAATATATATTATTTACTTTTAAT
* *
467728 -CAAATATACTTTTTATTAAATATATATATTTTTAAACTTTTAATT
1 CCAAAT-TA---TATATTAAATATATAT-TATTT--ACTTTTAA-T
467773 CCAAATTATATATTAAATATATATTATTT
1 CCAAATTATATATTAAATATATATTATTT
467802 TGGGTCGGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
36 5 0.08
37 2 0.03
40 13 0.22
41 5 0.08
42 19 0.32
44 7 0.12
45 3 0.05
46 5 0.08
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.52
Consensus pattern (38 bp):
CCAAATTATATATTAAATATATATTATTTACTTTTAAT
Found at i:470204 original size:26 final size:26
Alignment explanation
Indices: 470168--470221 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
470158 CAGATGATAG
**
470168 TAAGTGCTTTGGGTGTTGGGAACCAT
1 TAAGTGCTTTGGGTGCCGGGAACCAT
470194 TAAGTGCTTTGGGTGCCGGGAACCAT
1 TAAGTGCTTTGGGTGCCGGGAACCAT
470220 TA
1 TA
470222 GCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.33, T:0.31
Consensus pattern (26 bp):
TAAGTGCTTTGGGTGCCGGGAACCAT
Found at i:475220 original size:28 final size:28
Alignment explanation
Indices: 475168--475226 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
475158 TTTTGGTCCT
*
475168 TCTATTATTTTCAATTTTGAAAA-TTAA
1 TCTATTATTTTCAATTTGGAAAATTTAA
*
475195 TCTATGTATTTT-AATTTGGTATAATTTAA
1 TCTAT-TATTTTCAATTTGG-AAAATTTAA
475224 TCT
1 TCT
475227 TCGTAATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 11 0.41
28 9 0.33
29 7 0.26
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (28 bp):
TCTATTATTTTCAATTTGGAAAATTTAA
Found at i:476041 original size:11 final size:11
Alignment explanation
Indices: 476025--476062 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
476015 ATTTTTTTAA
476025 TTTTAAAATAT
1 TTTTAAAATAT
476036 TTTTAAAATAT
1 TTTTAAAATAT
476047 TTTTAAAATACT
1 TTTTAAAATA-T
476059 TTTT
1 TTTT
476063 TTGTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:476076 original size:26 final size:27
Alignment explanation
Indices: 476044--476110 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
476034 ATTTTTAAAA
* * * *
476044 TATTTTTAAAATACTTTTTTTGTTTTT
1 TATTTTAAAAATAATTTTTTGGTGTTT
476071 TATTTTAAAAATAATTTTTTGGTGTTT
1 TATTTTAAAAATAATTTTTTGGTGTTT
**
476098 TATTAAAAAAATA
1 TATTTTAAAAATA
476111 GGCCGGGCCG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (27 bp):
TATTTTAAAAATAATTTTTTGGTGTTT
Found at i:476342 original size:9 final size:9
Alignment explanation
Indices: 476328--476352 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
476318 TTACAAATAA
476328 ATAAATATT
1 ATAAATATT
476337 ATAAATATT
1 ATAAATATT
476346 ATAAATA
1 ATAAATA
476353 AATATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAAATATT
Found at i:476342 original size:13 final size:11
Alignment explanation
Indices: 476328--476373 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 11
476318 TTACAAATAA
476328 ATAAATA-T-T
1 ATAAATATTAT
476337 ATAAATATTAT
1 ATAAATATTAT
476348 AAATAAATATTAT
1 --ATAAATATTAT
476361 ATAAATATT-T
1 ATAAATATTAT
476371 ATA
1 ATA
476374 TTTATGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 7 0.21
10 5 0.15
11 10 0.30
13 11 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAAATATTAT
Found at i:483204 original size:18 final size:17
Alignment explanation
Indices: 483180--483220 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
483170 GCTACTAGAC
483180 TGAGCTTGCAGCTTTGG
1 TGAGCTTGCAGCTTTGG
483197 TGGAGCTTGCAGCTTTGG
1 T-GAGCTTGCAGCTTTGG
483215 TGAGCT
1 TGAGCT
483221 CACAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.12, C:0.17, G:0.37, T:0.34
Consensus pattern (17 bp):
TGAGCTTGCAGCTTTGG
Found at i:484092 original size:129 final size:128
Alignment explanation
Indices: 483789--484147 Score: 306
Period size: 129 Copynumber: 2.8 Consensus size: 128
483779 CATTTCAAAA
* * * * * * *
483789 TTGATCATTTTAGACTAATATTGAATGGTGTTGGGTTA-TTTTTTTAGTCAAATCGGGTTTTGAA
1 TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTACTTTTTTTAGTCAAATCGAGTATTAAA
* * * * * *
483853 ATTTTTGAATCATTTTGGTTCGGGTTAGTTTCAAGTTCAAATCATTTTAGGTTCAAGTCATTGGT
66 ATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTT--AA-CATTTCAGGTTCAAATCATTGGT
483918 C
128 C
* * ** * * *
483919 TCGGATAATTCCGGGCTCATATTGAACGATGTTGGATAAC--TTTTTAGTCAAATCGAG-ATTAA
1 T-TGATCATTTTGGGCTCATATTGAATGGTGTTGGATTACTTTTTTTAGTCAAATCGAGTATTAA
*
483981 AATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTT-A-GTTTCAGGTTCAAATCAATTTCGG
65 AATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTTAACATTTCAGGTTCAAATC-A-TT-GG
484044 AT-
127 -TC
*
484046 TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTATCTTTTTTT-GTCAAATC-AGGTTTTA
1 TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTA-CTTTTTTTAGTCAAATCGA-GTATTA
* * * * *
484109 AATTTTCCAGATCATTTTGATTCCA-GTTAGTTTCAAGTT
64 AAATTTCTAAATCATTTTGGTT-CAGGTTAGGTTCAAGTT
484148 TAAATCAATT
Statistics
Matches: 183, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
124 13 0.07
125 1 0.01
126 33 0.18
127 5 0.03
128 10 0.05
129 76 0.42
130 19 0.10
131 26 0.14
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (128 bp):
TTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTACTTTTTTTAGTCAAATCGAGTATTAAA
ATTTCTAAATCATTTTGGTTCAGGTTAGGTTCAAGTTAACATTTCAGGTTCAAATCATTGGTC
Found at i:484275 original size:122 final size:123
Alignment explanation
Indices: 484029--484289 Score: 305
Period size: 122 Copynumber: 2.1 Consensus size: 123
484019 AGTTTCAGGT
* * *** * *
484029 TCAAA-TCAATTTCGGATTTGATCATTTTGGGCTCATATTGAATGGTGTTGGATTATCTTTTTTT
1 TCAAATTCGATTTCAGATTTGATCATTTCAAGCTCATATAGAATGGTGTTGGATTA-CTTTTTTA
* * * *
484093 GTCAAATCAGGTTTTAAATTTTCCAGATCATTTTGATTCCAGTTAGTTTCAAGTTTAAA
65 ATCAAATCAGGTTTTAAATTTTCCAGATCATTTTGATTCCAGTTAATTCCAAGTTCAAA
* * *
484152 TCAATTTTGATTTCAGATTTGATCATTTCAAGTTCATATAGAATGGTGTTGGATTA-TTTTTTAA
1 TCAAATTCGATTTCAGATTTGATCATTTCAAGCTCATATAGAATGGTGTTGGATTACTTTTTTAA
* * **
484216 TCAAATCGGGTTTTAAGATTTT-CAGATCATTTTCG-TTCGAGTTAATTCCCGGTTCAAA
66 TCAAATCAGGTTTTAA-ATTTTCCAGATCATTTT-GATTCCAGTTAATTCCAAGTTCAAA
484274 TCAAATTCGATTTCAG
1 TCAAATTCGATTTCAG
484290 TTCATTTTGA
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
122 63 0.55
123 10 0.09
124 42 0.37
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (123 bp):
TCAAATTCGATTTCAGATTTGATCATTTCAAGCTCATATAGAATGGTGTTGGATTACTTTTTTAA
TCAAATCAGGTTTTAAATTTTCCAGATCATTTTGATTCCAGTTAATTCCAAGTTCAAA
Found at i:491901 original size:117 final size:119
Alignment explanation
Indices: 491701--492102 Score: 362
Period size: 117 Copynumber: 3.4 Consensus size: 119
491691 GTTTCGGATA
* *
491701 ATTTCAGGCTCATATTGAACGGTGTTGGATAATTTTTTTAATCAAATCGAG-TTTAAAATTTCCA
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTA-TTTTTTAATCAAATCGAGTTTTAAAATTTCCG
* * * *
491765 AATCATTTTGGTTCAGGTTAGTTTCAGGCTCAAATC-A-G-TTTCGGATTTGATC
65 GATCATTTTGATTCAGGTTAGTTTCAAGCTCAAATCAATGATTCCGGATTTGATC
* * ** *
491817 ATTTTAGGCTCATATTGGACAATGTTGGATTATCATTTTTAGTCAAATC-AGTTTTAAAATTTCC
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTAT--TTTTTAATCAAATCGAGTTTTAAAATTTCC
* * *
491881 GGATCATTTTGATTCGGGTTAGTTTCAAGTTTAAATCAATTTCGATTCCGGATTTGATC
64 GGATCATTTTGATTCAGGTTAGTTTCAAGCTCAAATCAA--T-GATTCCGGATTTGATC
* * * **
491940 ATTTCAGGTTCATATAGAACGGTGTTGGATTATTTTTTAATCAAATCGGGTTTTAAAATTTTTGG
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTATTTTTTAATCAAATCGAGTTTTAAAATTTCCGG
** * * * *
492005 ATCATATCCG-TTC-GAGTTAATTCCCAGTTCAAATCAA--ATT-C-GATTTCAGATC
66 ATCAT-TTTGATTCAG-GTTAGTTTCAAGCTCAAATCAATGATTCCGGATTT--GATC
* *
492057 ATATC-GAGCTCATATT-AACAGTGTTGGATTATTTTTGTAATCAAAT
1 ATTTCAG-GCTCATATTGAACGGTGTTGGATTATTTTT-TAATCAAAT
492103 GAAACCATTT
Statistics
Matches: 236, Mismatches: 34, Indels: 31
0.78 0.11 0.10
Matches are distributed among these distances:
115 6 0.03
116 50 0.21
117 82 0.35
118 1 0.00
121 14 0.06
122 41 0.17
123 42 0.18
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (119 bp):
ATTTCAGGCTCATATTGAACGGTGTTGGATTATTTTTTAATCAAATCGAGTTTTAAAATTTCCGG
ATCATTTTGATTCAGGTTAGTTTCAAGCTCAAATCAATGATTCCGGATTTGATC
Found at i:492084 original size:239 final size:242
Alignment explanation
Indices: 491561--492102 Score: 525
Period size: 239 Copynumber: 2.2 Consensus size: 242
491551 ATCATTTCAA
** * ** * *
491561 ATTTGATCATTTTAGACTCATATTGAATGGTGTTGGATTATTTTTTTAGTCAAATCGGGTTTTAA
1 ATTTGATCATTCGAGGCTCATATTGAACAGTGTTGGATTATATTTTTAGTCAAATCGAGTTTTAA
** * *
491626 AATTTTTGGATCATTTTGGTTCGGTTTAGTTTCAAGTTCAAACCATTTTAGGTTCAAGTCATTCG
66 AATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTCAAACCA---TAGGTTC-AG-CATTCG
*
491691 GTTTCGGATAATTTCAGGCTCATATTGAACGGTGTTGGATAATTTTTTTAATCAAATCGAGTTTA
126 GTTTC-GATAATTTCAGGCTCATATAGAACGGTGTTGGATAATTTTTTTAATCAAATCGAGTTTA
* ** * * **
491756 AAATTTCCAAATCATTTTGGTTCAGGTTAGTTTCAGGCTCAAATCAGTTTCGG
190 AAATTTCCAAATCATATCCGTTCAGGTTAATTCCAGGCTCAAATCAAATTCGG
** * *
491809 ATTTGATCATTTTAGGCTCATATTGGACAATGTTGGATTATCATTTTTAGTCAAATC-AGTTTTA
1 ATTTGATCATTCGAGGCTCATATTGAACAGTGTTGGATTAT-ATTTTTAGTCAAATCGAGTTTTA
* * *
491873 AAATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTTAAATCA-A-TTTC-G-ATTCCGGAT
65 AAATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTCAAACCATAGGTTCAGCATT-CGG-T
* * * *
491934 TT-GATCATTTCAGGTTCATATAGAACGGTGTTGGATTA-TTTTTTAATCAAATCGGGTTTTAAA
128 TTCGATAATTTCAGGCTCATATAGAACGGTGTTGGATAATTTTTTTAATCAAATCGAG-TTTAAA
**** *
491997 ATTTTTGGATCATATCCGTTC-GAGTTAATTCCCA-GTTCAAATCAAATTC-G
192 ATTTCCAAATCATATCCGTTCAG-GTTAATT-CCAGGCTCAAATCAAATTCGG
*
492047 ATTTCAGATCATATCGA-GCTCATATT-AACAGTGTTGGATTAT-TTTTGTAATCAAAT
1 ATTT--GATCAT-TCGAGGCTCATATTGAACAGTGTTGGATTATATTTT-TAGTCAAAT
492103 GAAACCATTT
Statistics
Matches: 248, Mismatches: 36, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
237 4 0.02
238 31 0.12
239 87 0.35
240 20 0.08
241 6 0.02
243 3 0.01
244 1 0.00
248 82 0.33
249 14 0.06
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (242 bp):
ATTTGATCATTCGAGGCTCATATTGAACAGTGTTGGATTATATTTTTAGTCAAATCGAGTTTTAA
AATTTCCGGATCATTTTGATTCGGGTTAGTTTCAAGTTCAAACCATAGGTTCAGCATTCGGTTTC
GATAATTTCAGGCTCATATAGAACGGTGTTGGATAATTTTTTTAATCAAATCGAGTTTAAAATTT
CCAAATCATATCCGTTCAGGTTAATTCCAGGCTCAAATCAAATTCGG
Found at i:497643 original size:36 final size:38
Alignment explanation
Indices: 497592--497685 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 38
497582 CTCACTATTA
* * * *
497592 TGGTGTGTAGGGTGGAT-GGGCTACCATAGTCC-TTTG
1 TGGTGTGCAGAGTGGATCGGGCTACCATAGCCCAATTG
*
497628 TGGTGTGCAGAGTGGATCGGTCTACCATAGCCCAATTG
1 TGGTGTGCAGAGTGGATCGGGCTACCATAGCCCAATTG
* *
497666 TGGTGTGTAGGGTGG-TCGGG
1 TGGTGTGCAGAGTGGATCGGG
497686 GTGGTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 15 0.31
37 17 0.35
38 16 0.33
ACGTcount: A:0.15, C:0.15, G:0.40, T:0.30
Consensus pattern (38 bp):
TGGTGTGCAGAGTGGATCGGGCTACCATAGCCCAATTG
Found at i:497671 original size:38 final size:36
Alignment explanation
Indices: 497592--497672 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
497582 CTCACTATTA
* * * *
497592 TGGTGTGTAGGGTGGATGGGCTACCATAGTCCTTTG
1 TGGTGTGCAGAGTGGATGGGCTACCATAGCCCATTG
*
497628 TGGTGTGCAGAGTGGATCGGTCTACCATAGCCCAATTG
1 TGGTGTGCAGAGTGGAT-GGGCTACCATAGCCC-ATTG
497666 TGGTGTG
1 TGGTGTG
497673 TAGGGTGGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 15 0.39
37 13 0.34
38 10 0.26
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.31
Consensus pattern (36 bp):
TGGTGTGCAGAGTGGATGGGCTACCATAGCCCATTG
Found at i:503588 original size:116 final size:119
Alignment explanation
Indices: 503373--503773 Score: 360
Period size: 116 Copynumber: 3.4 Consensus size: 119
503363 GTTTCGGATA
* *
503373 ATTTCAGGCTCATATTGAACGGTGTTGGATAATTTTTTTAATCAAATCGAG-TTTAAAATTTCCA
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTA-TTTTTTAATCAAATCGAGTTTTAAAATTTCCG
* * * *
503437 AATCATTTTGGTTCAGGTTAGTTTCAGGCTCAAATC-A-G-TTTCGGATTTGATC
65 GATCATTTTGATTCAGGTTAGTTTCAAGCTCAAATCAATGATTCCGGATTTGATC
* * ** * *
503489 ATTTTAGGCTCATATTGGACAATGTTGGATTATCATTTTAGTCAAATC-AGTTTTAAAATTTCCG
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTAT-TTTTTAATCAAATCGAGTTTTAAAATTTCCG
* * *
503553 GATCATTTTGATTCGGGTTAGTTTCAAGTTTAAATCAATTTCGATTCCGGATTTGATC
65 GATCATTTTGATTCAGGTTAGTTTCAAGCTCAAATCAA--T-GATTCCGGATTTGATC
* * * **
503611 ATTTCAGGTTCATATAGAACGGTGTTGGATTATTTTTTAATCAAATCGGGTTTTAAAATTTTTGG
1 ATTTCAGGCTCATATTGAACGGTGTTGGATTATTTTTTAATCAAATCGAGTTTTAAAATTTCCGG
** * * * *
503676 ATCATATCCG-TTC-GAGTTAATTCCCAGTTCAAATCAA--ATT-C-GATTTCAGATC
66 ATCAT-TTTGATTCAG-GTTAGTTTCAAGCTCAAATCAATGATTCCGGATTT--GATC
* *
503728 ATATC-GAGCTCATATT-AACAGTGTTGGATTATTTTTGTAATCAAAT
1 ATTTCAG-GCTCATATTGAACGGTGTTGGATTATTTTT-TAATCAAAT
503774 GAAACCATTT
Statistics
Matches: 234, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
115 8 0.03
116 102 0.44
117 28 0.12
121 14 0.06
122 80 0.34
123 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (119 bp):
ATTTCAGGCTCATATTGAACGGTGTTGGATTATTTTTTAATCAAATCGAGTTTTAAAATTTCCGG
ATCATTTTGATTCAGGTTAGTTTCAAGCTCAAATCAATGATTCCGGATTTGATC
Found at i:506697 original size:720 final size:720
Alignment explanation
Indices: 505181--507294 Score: 3086
Period size: 720 Copynumber: 2.9 Consensus size: 720
505171 TGTAGCTAAG
* * * * ** * * * *
505181 TGCTCAAGGTGTCGCGACAAGGTGTCAACTCCATGTTTTGGCTGTGCCGAGGATTGTGGGTTTTA
1 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
* * *
505246 CCTTCACAAGGTATGTGCTGAGGCACCTTTGGAGCTTAATCACCCTTTTCATCCTCATCATCC-T
66 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCACCCTTTTCAT-CTCA--A-CCAT
* **
505310 CTTCTTCTTATGCAAAATGCACCTTA-TC--CTGGAGGGTACATTTGCAATTTTTGCAATAAATC
127 CCTCTTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATC
*
505372 TGGTCGCAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGT
192 TGGTCACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGT
*
505437 TTACATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGTTGAAGA-
257 TTACATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAA-AC
*
505501 ACTTGAAGATGATAGTAAGTGCTTCGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTC
321 ACTTGAAGATGATAGTAAGTGCTTTGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTC
* * *
505566 CTAACTGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCCTTCAAACTGAATCTTGTGTGC
386 CTGACTGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCTTTCAAACTGAATCTTGAGTGC
* * *
505631 CATCGCGAACATCCTCTTGTTCTACAATTTAATAGCCAACGGCTCTCTTGCAAGATATGCAG--A
451 CATCGCGAACATCCTCTTGTTCTACAATTTTATAGCGAACGGCTCTCTTGCAAGATATGCTGCCA
* * *
505694 -GAAATCAATGTAGAAGCTATAGGATTTGTTTATGGTTGTTCTCCTTGTACGTTTGTTGTTCACA
516 GGAAA-CAA-G--G-CG-AATAGGATTTGTTTATGGTTGTTCTCCTTGTAAGTTTGTTGTTCACA
* *
505758 TTGAATGTGCATCGCAATCACCATTGCAAGTTATTAAGAGTACAAATCATGAACATCCATTTACC
575 TTGAATGTGCATCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACC
*
505823 TTGTTTAACGGTCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCA
640 TTGTTTAACGGGCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCA
505888 AAGGGGTGTAACTGAT
705 AAGGGGTGTAACTGAT
*
505904 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCGGAGCACTGTGGGTTTTA
1 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
*
505969 TCTTCATAAGGTATGTGCCAAGGCACCTTTGGAGCTTAATCACCCTTTTCATCTCAACCATCCTC
66 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCACCCTTTTCATCTCAACCATCCTC
506034 TTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGGT
131 TTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGGT
*
506099 CACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGATTTGTTTAC
196 CACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGTTTAC
506164 ATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAAACACTTG
261 ATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAAACACTTG
* *
506229 AAGATGATAGTAAGTGCTTTGGGTGTTGGGAACCATTAGCAAAGTATACACACTTTTCTCCGGAC
326 AAGATGATAGTAAGTGCTTTGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTCCTGAC
* * *
506294 TGTGGATTTAATTTACATGACAAATGCGCCGAGCTTTCTTTCAAACTGAATCTTGAGTGCCATCG
391 TGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCTTTCAAACTGAATCTTGAGTGCCATCG
**
506359 CGAACATCCTCTTGTTCTACAATTTTATAGCGAACAACTCTCTTGCAAGATATGCTGCCAGGAAA
456 CGAACATCCTCTTGTTCTACAATTTTATAGCGAACGGCTCTCTTGCAAGATATGCTGCCAGGAAA
* * *
506424 CAAGGCGAATAGGATTTTTTTATGGTTGTTCTCCCTGTAAGTCTGTTGTTCACATTGAATGTGCA
521 CAAGGCGAATAGGATTTGTTTATGGTTGTTCTCCTTGTAAGTTTGTTGTTCACATTGAATGTGCA
506489 TCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACCTTGTTTAACGG
586 TCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACCTTGTTTAACGG
* *
506554 GCACCAACATCCCCTGTTTCTTATGTTGAATCAAGAGCAGCTGATGGATAATCAAAGGGGTGTAA
651 GCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCAAAGGGGTGTAA
506619 CTGAT
716 CTGAT
*
506624 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTTCTGTGCAGAGCACTGTGGGTTTTA
1 TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
506689 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCATCCC-TTTCATCTCAACCATCCT
66 TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCA-CCCTTTTCATCTCAACCATCCT
*
506753 CTTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTCTGCAATAAATCTGG
130 CTTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGG
* *
506818 TCACAAGTCTGTTTATCGCTGCTCTTCTTGTGAATTGAACTTTCATATTAAATGTGCTTTGTTTA
195 TCACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGTTTA
* *
506883 CATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGAGCATGTTGCCCTTCAACATCCATTGATT
260 CATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTC-A-A--GA-TGA--
** *
506948 CCCAC-TGAAAATAGTGATGAAAAACTAAAAGATGTTTCTAAGTGCTTTGGGTGCCGGGAACCAT
318 AACACTTG---A-A--GATG----A-T-----A-G----TAAGTGCTTTGGGTGTCGGGAACCAT
* * * * * * *
507012 TACCAAATTATACACACTTTTCTCCTTG-CCGTGGATTTAACTTACACGAGAAATGCACTGAGAT
362 TAGCAAAGTATACACACTTTTCTCC-TGACTGTGGATTTAATTTACATGAGAAATGCGCTGAGCT
* * * *
507076 TCCTTTCAAATTGAATCAT-ATGTGGCATCGC-AAGCATCCTCTTGTCCTACAA-TTTAGTAGCG
426 TCCTTTCAAACTGAATCTTGA-GTGCCATCGCGAA-CATCCTCTTGTTCTACAATTTTA-TAGCG
* * * *
507138 AACGGCTCTCTTGCAAGATATGCTGCCAGGTAACAAAGCGAAGAGGATTTGGTTATGGTTGTTCT
488 AACGGCTCTCTTGCAAGATATGCTGCCAGGAAACAAGGCGAATAGGATTTGTTTATGGTTGTTCT
507203 CCTTGTAAGTTTGTTGTTCACATTGAATGTGCATCACAATCACCATTACAAGTTATTAAGAGTAC
553 CCTTGTAAGTTTGTTGTTCACATTGAATGTGCATCACAATCACCATTACAAGTTATTAAGAGTAC
* *
507268 AAATCATGAACATTCATTCACCTTGTT
618 AAATCATGAACATCCATTTACCTTGTT
507295 GTTGAGACAA
Statistics
Matches: 1266, Mismatches: 84, Indels: 58
0.90 0.06 0.04
Matches are distributed among these distances:
719 2 0.00
720 508 0.40
721 7 0.01
722 7 0.01
723 437 0.35
724 2 0.00
725 7 0.01
726 6 0.00
727 3 0.00
729 1 0.00
730 1 0.00
732 4 0.00
736 1 0.00
737 1 0.00
742 1 0.00
743 1 0.00
746 7 0.01
747 269 0.21
748 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (720 bp):
TGCTCGAGGTGTGGGGAGAAGGTGTCTGCTCCATGTTTTTGCTGTGCAGAGCACTGTGGGTTTTA
TCTTCATAAGGTATGTGCCGAGGCACCTTTGGAGCTTAATCACCCTTTTCATCTCAACCATCCTC
TTCTTATGCAAAATGCACCTTATTCATCTGGAATGTACATTTGCAATTTTTGCAATAAATCTGGT
CACAAGTCTGTTTATCGCTGCTCTACTTGTGAATTGGACTTTCATATTAAATGTGCTTTGTTTAC
ATTTAATATTGCTGAGAATAATTTGAAAGAGCTTGACCATGTTGCCCTTCAAGATGAAACACTTG
AAGATGATAGTAAGTGCTTTGGGTGTCGGGAACCATTAGCAAAGTATACACACTTTTCTCCTGAC
TGTGGATTTAATTTACATGAGAAATGCGCTGAGCTTCCTTTCAAACTGAATCTTGAGTGCCATCG
CGAACATCCTCTTGTTCTACAATTTTATAGCGAACGGCTCTCTTGCAAGATATGCTGCCAGGAAA
CAAGGCGAATAGGATTTGTTTATGGTTGTTCTCCTTGTAAGTTTGTTGTTCACATTGAATGTGCA
TCACAATCACCATTACAAGTTATTAAGAGTACAAATCATGAACATCCATTTACCTTGTTTAACGG
GCACCAACATCCCCTGTTTCTTATGTTAAATCAAGAGCAGCTGATGGACAATCAAAGGGGTGTAA
CTGAT
Done.