Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 1 of 322
Found at i:23965 original size:24 final size:24
Alignment explanation
Indices: 23937--23983 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
23927 TTAATAAATT
* *
23937 AAATATTCTCTTACGTTTTATCAC
1 AAATATTATCGTACGTTTTATCAC
*
23961 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTACGTTTTATCA
23984 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (24 bp):
AAATATTATCGTACGTTTTATCAC
Found at i:24134 original size:23 final size:22
Alignment explanation
Indices: 24105--24151 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
24095 TGGATTAATA
24105 AAAGCAAAAGACATGTCTATATT
1 AAAGCAAAAGACATGT-TATATT
*
24128 AAAGCAAAAGACATGTTATTTT
1 AAAGCAAAAGACATGTTATATT
24150 AA
1 AA
24152 TTAATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.28
Consensus pattern (22 bp):
AAAGCAAAAGACATGTTATATT
Found at i:24191 original size:39 final size:39
Alignment explanation
Indices: 24147--24378 Score: 419
Period size: 39 Copynumber: 5.9 Consensus size: 39
24137 GACATGTTAT
*
24147 TTTAATTAATATAATTTGGATTAATTTATGTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
24186 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
24225 TTTAATTAATATAATTTGGATTAATTTGTTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
24264 TTTAATTAGTATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
24303 TTTAATTAGTATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
24342 TTTAATTAATATAAATTGGATTAATTTATTTAAATAT
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATAT
24379 ATAAGAATTT
Statistics
Matches: 187, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 187 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:24208 original size:15 final size:14
Alignment explanation
Indices: 24151--24366 Score: 58
Period size: 14 Copynumber: 16.4 Consensus size: 14
24141 TGTTATTTTA
24151 ATTAATATAATTTGG
1 ATTAATATAATTT-G
*
24166 ATTAAT-T--TATG
1 ATTAATATAATTTG
* * *
24177 -TAAATATTATTTA
1 ATTAATATAATTTG
24190 ATTAATATAATTTGG
1 ATTAATATAATTT-G
*
24205 ATTAAT-TTATTT-
1 ATTAATATAATTTG
* *
24217 A--AATATTATTTA
1 ATTAATATAATTTG
24229 ATTAATATAATTTG
1 ATTAATATAATTTG
*
24243 ---GAT-TAATTTG
1 ATTAATATAATTTG
* * *
24253 TTTAAATATTATTTA
1 ATT-AATATAATTTG
*
24268 ATTAGTATAATTTGG
1 ATTAATATAATTT-G
*
24283 ATTAAT-TTATTT-
1 ATTAATATAATTTG
* *
24295 A--AATATTATTTA
1 ATTAATATAATTTG
*
24307 ATTAGTATAATTTGG
1 ATTAATATAATTT-G
*
24322 ATTAAT-TTATTT-
1 ATTAATATAATTTG
* *
24334 A--AATATTATTTA
1 ATTAATATAATTTG
*
24346 ATTAATATAAATTGG
1 ATTAATAT-AATTTG
24361 ATTAAT
1 ATTAAT
24367 TTATTTAAAT
Statistics
Matches: 148, Mismatches: 28, Indels: 50
0.65 0.12 0.22
Matches are distributed among these distances:
10 20 0.14
11 22 0.15
12 8 0.05
13 2 0.01
14 58 0.39
15 38 0.26
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
ATTAATATAATTTG
Found at i:24212 original size:24 final size:24
Alignment explanation
Indices: 24185--24240 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
24175 TGTAAATATT
*
24185 ATTTAATT-AATATAATTTGGATTA
1 ATTTAATTAAATATAATTT-AATTA
* *
24209 ATTTATTTAAATATTATTTAATTA
1 ATTTAATTAAATATAATTTAATTA
*
24233 ATATAATT
1 ATTTAATT
24241 TGGATTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTAATTAAATATAATTTAATTA
Found at i:24496 original size:9 final size:9
Alignment explanation
Indices: 24479--24624 Score: 202
Period size: 9 Copynumber: 16.2 Consensus size: 9
24469 TATATATTTG
*
24479 AACTTACAT
1 AACTCACAT
24488 AACTCACAT
1 AACTCACAT
*
24497 AACTTACAT
1 AACTCACAT
* *
24506 AACTTATAT
1 AACTCACAT
*
24515 AATTCACAT
1 AACTCACAT
*
24524 AACTTACAT
1 AACTCACAT
24533 AACTCACAT
1 AACTCACAT
24542 AACTCACAT
1 AACTCACAT
*
24551 AACTTACAT
1 AACTCACAT
24560 AACTCACAT
1 AACTCACAT
*
24569 AACTTACAT
1 AACTCACAT
24578 AACTCACAT
1 AACTCACAT
24587 AACTCACAT
1 AACTCACAT
*
24596 AATTCACAT
1 AACTCACAT
24605 AACTCACAT
1 AACTCACAT
*
24614 AACTTACAT
1 AACTCACAT
24623 AA
1 AA
24625 TACATAAGTA
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 121 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (9 bp):
AACTCACAT
Found at i:29735 original size:13 final size:14
Alignment explanation
Indices: 29719--29747 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29709 TTATAAATAT
29719 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
29732 TTATAATGGTTTAA
1 TTATAATGGTTTAA
29746 TT
1 TT
29748 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:30194 original size:21 final size:21
Alignment explanation
Indices: 30166--30227 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
30156 AAGCAACAGA
30166 GAGAGAGGCAGCGGCAGCAGC
1 GAGAGAGGCAGCGGCAGCAGC
*
30187 GA-AGGAGGCAGCAGCAGCAGC
1 GAGA-GAGGCAGCGGCAGCAGC
* *
30208 GAGAGAAGCAGAGGCAGCAG
1 GAGAGAGGCAGCGGCAGCAG
30228 TGATGGTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.45, T:0.00
Consensus pattern (21 bp):
GAGAGAGGCAGCGGCAGCAGC
Found at i:30516 original size:31 final size:31
Alignment explanation
Indices: 30479--30548 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
30469 TTATTGTATT
* * *
30479 TTTCATGTTACATTTGCTGTTTTTGGTTGGA
1 TTTCATGCTACATTTGATGTTTTTGATTGGA
* *
30510 TTTCATGCTATATTTGATGTTTTTTATTGGA
1 TTTCATGCTACATTTGATGTTTTTGATTGGA
*
30541 TTTAATGC
1 TTTCATGC
30549 AGAAAGGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.09, G:0.19, T:0.56
Consensus pattern (31 bp):
TTTCATGCTACATTTGATGTTTTTGATTGGA
Found at i:39850 original size:16 final size:16
Alignment explanation
Indices: 39826--39873 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
39816 ATCTAAAGTA
39826 TGCAATGTGATGGGTC
1 TGCAATGTGATGGGTC
*
39842 TGGAATGTGGTGATGGGTC
1 TGCAA--T-GTGATGGGTC
39861 TGCAATGTGATGG
1 TGCAATGTGATGG
39874 ATTGGGCACG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 11 0.41
17 1 0.04
18 1 0.04
19 14 0.52
ACGTcount: A:0.19, C:0.08, G:0.42, T:0.31
Consensus pattern (16 bp):
TGCAATGTGATGGGTC
Found at i:39856 original size:19 final size:19
Alignment explanation
Indices: 39832--39869 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39822 AGTATGCAAT
*
39832 GTGATGGGTCTGGAATGTG
1 GTGATGGGTCTGCAATGTG
39851 GTGATGGGTCTGCAATGTG
1 GTGATGGGTCTGCAATGTG
39870 ATGGATTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.08, G:0.45, T:0.32
Consensus pattern (19 bp):
GTGATGGGTCTGCAATGTG
Found at i:40165 original size:36 final size:36
Alignment explanation
Indices: 40118--40189 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
40108 TTTAGCCAGC
40118 AACAGAGTTGTGACTTGTCAATTAAGATACCTCTAA
1 AACAGAGTTGTGACTTGTCAATTAAGATACCTCTAA
40154 AACAGAGTTGTGACTTGTCAATTAAGATACCTCTAA
1 AACAGAGTTGTGACTTGTCAATTAAGATACCTCTAA
40190 CTCTTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (36 bp):
AACAGAGTTGTGACTTGTCAATTAAGATACCTCTAA
Found at i:49630 original size:27 final size:27
Alignment explanation
Indices: 49592--49645 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
49582 TAGAATAGTG
49592 TATGAGAGCGATTTGGAAGAGATGGAA
1 TATGAGAGCGATTTGGAAGAGATGGAA
49619 TATGAGAGCGATTTGGAAGAGATGGAA
1 TATGAGAGCGATTTGGAAGAGATGGAA
49646 CAAATACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.22
Consensus pattern (27 bp):
TATGAGAGCGATTTGGAAGAGATGGAA
Found at i:50878 original size:19 final size:19
Alignment explanation
Indices: 50854--50896 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
50844 ATTGTAGAAG
50854 TTCTTTATAAAAATTGATT
1 TTCTTTATAAAAATTGATT
50873 TTCTTTATAAAAATTGATT
1 TTCTTTATAAAAATTGATT
50892 TTCTT
1 TTCTT
50897 GTTATACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (19 bp):
TTCTTTATAAAAATTGATT
Found at i:65800 original size:39 final size:40
Alignment explanation
Indices: 65757--65840 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
65747 GCGTTTTAAT
*
65757 AAAAACGCCACT-AAAAACGAGCATTAGCGGCACTTCTAC
1 AAAAACGCCACTAAAAAACGAGCATTAGCAGCACTTCTAC
* *
65796 AAAAACGCCACTAAAAAACGAGCATTAGCAGCGCTTTTAC
1 AAAAACGCCACTAAAAAACGAGCATTAGCAGCACTTCTAC
65836 AAAAA
1 AAAAA
65841 TGCCGCTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.29
40 29 0.71
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.15
Consensus pattern (40 bp):
AAAAACGCCACTAAAAAACGAGCATTAGCAGCACTTCTAC
Found at i:65897 original size:41 final size:41
Alignment explanation
Indices: 65819--65921 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
65809 AAAAACGAGC
* * *
65819 ATTAGCAGCGCTTTTA-CAAAAATGCCGCTATAAGTTGACA
1 ATTAGCGGCGCTTTTAGAAAAAACGCCGCTATAAGTTGACA
* * *
65859 ATTAGCGGCGCTTTTAGAAAAAACGCCTCTATAGGTTGACC
1 ATTAGCGGCGCTTTTAGAAAAAACGCCGCTATAAGTTGACA
*
65900 ATCAGCGGCGCTTTATAGAAAA
1 ATTAGCGGCGCTTT-TAGAAAA
65922 CGTCGCAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 15 0.28
41 32 0.59
42 7 0.13
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTAGAAAAAACGCCGCTATAAGTTGACA
Found at i:66032 original size:38 final size:39
Alignment explanation
Indices: 65970--66067 Score: 96
Period size: 41 Copynumber: 2.5 Consensus size: 39
65960 TGAGATTTTG
* * * *
65970 TGACTT-TAGCGGCGCTTCTT-AAAAA-CGCCGCTAATGC
1 TGACTTATAGCGGCG-TTTTTAAAAAAGCGCCGCAAAAGA
66007 TGACTTATAGCGGCGTTTTTCAAAAAAGCGCCGCAAAAGA
1 TGACTTATAGCGGCGTTTTT-AAAAAAGCGCCGCAAAAGA
66047 TCGA-TCTATAGCGGCGTTTTT
1 T-GACT-TATAGCGGCGTTTTT
66068 TGAAAATCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
37 10 0.20
38 8 0.16
39 5 0.10
40 11 0.22
41 17 0.33
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (39 bp):
TGACTTATAGCGGCGTTTTTAAAAAAGCGCCGCAAAAGA
Found at i:68042 original size:12 final size:13
Alignment explanation
Indices: 68015--68045 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
68005 ATCACCTTTC
68015 CCCCTAAAATTTT
1 CCCCTAAAATTTT
68028 CCCCTAAAA-TTT
1 CCCCTAAAATTTT
68040 CCCCTA
1 CCCCTA
68046 GCCCTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (13 bp):
CCCCTAAAATTTT
Found at i:82923 original size:71 final size:71
Alignment explanation
Indices: 82800--82976 Score: 207
Period size: 71 Copynumber: 2.5 Consensus size: 71
82790 ATGTTGTCAA
**
82800 AAAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAATTT
1 AAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACACCGAGGTATTTTTAATTT
* *
82864 TTTTTTT
65 ATGTTTT
** * * *
82871 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTTAATTTA
82936 TGTTTT
66 TGTTTT
** * *
82942 --AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
82977 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 31 0.34
71 59 0.64
72 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTTAATTTA
TGTTTT
Found at i:83193 original size:72 final size:72
Alignment explanation
Indices: 82980--83289 Score: 415
Period size: 72 Copynumber: 4.2 Consensus size: 72
82970 TAAGCCTTTT
* * ** *
82980 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
83044 GTAATTTC
65 GTAATTTC
* * * * *
83052 AATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGATATGC
1 AATTTCTGTT-TT----CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
83117 TGAGGTAATTTC
61 TGAGGTAATTTC
* *
83129 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
83194 TATTTTC
66 TAATTTC
* *
83201 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
83266 TATTTTC
66 TAATTTC
83273 AATTTCTGTTTTCAAAA
1 AATTTCTGTTTTCAAAA
83290 AAAAAAATCA
Statistics
Matches: 217, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
71 2 0.01
72 150 0.69
76 6 0.03
77 59 0.27
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTC
Found at i:83722 original size:72 final size:73
Alignment explanation
Indices: 83605--83930 Score: 523
Period size: 73 Copynumber: 4.5 Consensus size: 73
83595 TTTGAAAGAA
* *
83605 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTG-TT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCCGCTT
83669 TTCAAAAT
66 TTCAAAAT
*
83677 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCCGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCCGCTT
83742 TTCAAAAT
66 TTCAAAAT
*
83750 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCCGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCCGCTT
83815 TTCAAAAT
66 TTCAAAAT
* * *
83823 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCCGCTT
* *
83887 GTCAAAAAAA
66 TTC--AAAAT
83897 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
83931 GTTCACATGT
Statistics
Matches: 241, Mismatches: 9, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
72 63 0.26
73 144 0.60
74 34 0.14
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (73 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCCGCTT
TTCAAAAT
Found at i:85061 original size:9 final size:9
Alignment explanation
Indices: 85030--85077 Score: 69
Period size: 9 Copynumber: 5.1 Consensus size: 9
85020 TACATATATT
*
85030 AAAACATAA
1 AAAAAATAA
85039 AAGAAAATACA
1 AA-AAAATA-A
85050 AAAAAATAA
1 AAAAAATAA
85059 AAAAAATAA
1 AAAAAATAA
85068 AAAAAATAA
1 AAAAAATAA
85077 A
1 A
85078 TTTTTACCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 22 0.61
10 11 0.31
11 3 0.08
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:88641 original size:45 final size:45
Alignment explanation
Indices: 88592--88735 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
88582 TGCAGTGAAG
*
88592 CAGATTGAAGATTTACAGATCTTACCCCCCTAAGCAGTAGGGAAA
1 CAGATCGAAGATTTACAGATCTTACCCCCCTAAGCAGTAGGGAAA
* * * * *
88637 CAGATCGAAG-GTAACA-AGCTTTAACCCTCCTAAGCAGTAGGGTAA
1 CAGATCGAAGATTTACAGATC-TT-ACCCCCCTAAGCAGTAGGGAAA
* * * * *
88682 CA-AGCCAA-ATTTGCAGATCTTATCACCCTAAGCAGTAGGGAAA
1 CAGATCGAAGATTTACAGATCTTACCCCCCTAAGCAGTAGGGAAA
*
88725 CAGATCAAAGA
1 CAGATCGAAGA
88736 AGATGGGCCT
Statistics
Matches: 75, Mismatches: 18, Indels: 12
0.71 0.17 0.11
Matches are distributed among these distances:
43 22 0.29
44 19 0.25
45 34 0.45
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (45 bp):
CAGATCGAAGATTTACAGATCTTACCCCCCTAAGCAGTAGGGAAA
Found at i:88787 original size:88 final size:88
Alignment explanation
Indices: 88606--88798 Score: 212
Period size: 88 Copynumber: 2.2 Consensus size: 88
88596 TTGAAGATTT
* * * *
88606 ACAGATCTTACCCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAACAAGCTTTAACCCTCCTAAG
1 ACAGATCTTACCACCCTAAGCAGTAGGGAAACAGATCGAAAGTAACAAGCCTTAACCCCCCTAAG
* * *
88671 CAGTAGGGTAACAAGCCAAATTT
66 CAGTAGGGTAACAAGCAAAAATC
* * * *
88694 GCAGATCTTATCACCCTAAGCAGTAGGGAAACAGATC-AAAG-AAGATGGGCCTT-ACCCCCCTA
1 ACAGATCTTACCACCCTAAGCAGTAGGGAAACAGATCGAAAGTAACA--AGCCTTAACCCCCCTA
* *
88756 AGCAGTAGGGTAATAGGCTAAAAATC
64 AGCAGTAGGGTAACAAGC-AAAAATC
*
88782 ACAGATCTTACCTCCCT
1 ACAGATCTTACCACCCT
88799 GAAGTTGCAG
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
86 3 0.03
87 27 0.31
88 56 0.65
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (88 bp):
ACAGATCTTACCACCCTAAGCAGTAGGGAAACAGATCGAAAGTAACAAGCCTTAACCCCCCTAAG
CAGTAGGGTAACAAGCAAAAATC
Found at i:88974 original size:87 final size:89
Alignment explanation
Indices: 88871--89078 Score: 296
Period size: 88 Copynumber: 2.4 Consensus size: 89
88861 TTCAAACCAC
* *
88871 CAAGCTTTAACCCCCTAAGCAGTAGGGTAACAGA-CTAAATTTAC-AGATCTTAACCCCCTAAGC
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGAGCTAAATTTACAAGATCTTAAACCCCTAAGC
* *
88934 AGTAGGGAAACAGATCAAAGGCGA
66 AGTAGGGAAACAGAGCAAAGACGA
* * * *
88958 TAAGCCTTAAACCCCTAAGCAGTAGGGTAACA-AGCTGATTTTACAAGATCTTAAACCCCTAAGC
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGAGCTAAATTTACAAGATCTTAAACCCCTAAGC
* * *
89022 GGTAGGGAAACAGAGCAATGATGA
66 AGTAGGGAAACAGAGCAAAGACGA
89046 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAG
89079 GTTGAAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.01
87 37 0.35
88 67 0.64
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (89 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGAGCTAAATTTACAAGATCTTAAACCCCTAAGC
AGTAGGGAAACAGAGCAAAGACGA
Found at i:88982 original size:44 final size:44
Alignment explanation
Indices: 88871--89078 Score: 163
Period size: 44 Copynumber: 4.8 Consensus size: 44
88861 TTCAAACCAC
* * * * *
88871 CAAGCTTTAACCCCCTAAGCAGTAGGGTAACAGA-CTAAA-TTTA
1 CAAGCCTTAAACCCCTAAGCAGTAGGGAAACAGAGC-AAAGATGA
* * * **
88914 C-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGA
1 CAAG-CCTTAAACCCCTAAGCAGTAGGGAAACAGAGCAAAGATGA
* * ** ** *
88958 TAAGCCTTAAACCCCTAAGCAGTAGGGTAACA-AGCTGATTTTA
1 CAAGCCTTAAACCCCTAAGCAGTAGGGAAACAGAGCAAAGATGA
* * *
89001 CAAGATCTTAAACCCCTAAGCGGTAGGGAAACAGAGCAATGATGA
1 CAAG-CCTTAAACCCCTAAGCAGTAGGGAAACAGAGCAAAGATGA
* *
89046 CAAGCCTTAACCCCCTAAGCAGTAGGGTAACAG
1 CAAGCCTTAAACCCCTAAGCAGTAGGGAAACAG
89079 GTTGAAAATC
Statistics
Matches: 128, Mismatches: 31, Indels: 11
0.75 0.18 0.06
Matches are distributed among these distances:
42 2 0.02
43 38 0.30
44 77 0.60
45 11 0.09
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (44 bp):
CAAGCCTTAAACCCCTAAGCAGTAGGGAAACAGAGCAAAGATGA
Found at i:90475 original size:19 final size:20
Alignment explanation
Indices: 90430--90470 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
90420 ACTGTTAATT
90430 CAATTTCATCCTTTTTTTTA
1 CAATTTCATCCTTTTTTTTA
90450 CAATTTCATCCTTTTTTTTA
1 CAATTTCATCCTTTTTTTTA
90470 C
1 C
90471 TTTTCCTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (20 bp):
CAATTTCATCCTTTTTTTTA
Found at i:91314 original size:24 final size:25
Alignment explanation
Indices: 91256--91314 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
91246 TCCTTTTTAC
* * *
91256 TTATTCTTCTTATTCTTATTTACTT
1 TTATTCATCTTATTATTATTTACTA
91281 TTA-TCATCTTATTATT-TTTACCTA
1 TTATTCATCTTATTATTATTTA-CTA
91305 TTATTC-TCTT
1 TTATTCATCTT
91315 TTTCAATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTCATCTTATTATTATTTACTA
Found at i:93236 original size:24 final size:26
Alignment explanation
Indices: 93180--93236 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
93170 TAATGTAAAC
93180 ATTAAA-AAAATTAAGATAGAAATAT
1 ATTAAATAAAATTAAGATAGAAATAT
* * *
93205 AATAAATAAAATTTATATA-AAAT-T
1 ATTAAATAAAATTAAGATAGAAATAT
93229 ATTAAATA
1 ATTAAATA
93237 TTAAATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 8 0.30
25 9 0.33
26 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
ATTAAATAAAATTAAGATAGAAATAT
Found at i:93240 original size:7 final size:7
Alignment explanation
Indices: 93228--93256 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
93218 TATATAAAAT
93228 TATTAAA
1 TATTAAA
93235 TATTAAA
1 TATTAAA
93242 TATTAAA
1 TATTAAA
93249 TATTAAA
1 TATTAAA
93256 T
1 T
93257 TAAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATTAAA
Found at i:93356 original size:18 final size:18
Alignment explanation
Indices: 93330--93365 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
93320 CGAGTAAAAC
*
93330 TAATTGAGTTATTCGAGT
1 TAATCGAGTTATTCGAGT
*
93348 TAATCGAGTTGTTCGAGT
1 TAATCGAGTTATTCGAGT
93366 CAACTTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (18 bp):
TAATCGAGTTATTCGAGT
Found at i:93962 original size:17 final size:17
Alignment explanation
Indices: 93942--94002 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
93932 ATTTATATCT
93942 ATTATTTATATTATTAA
1 ATTATTTATATTATTAA
* *
93959 ATTAAATTTAACATT-TTAT
1 ATT--ATTT-ATATTATTAA
*
93978 ATTATTTATATTATTGA
1 ATTATTTATATTATTAA
*
93995 ATTGTTTA
1 ATTATTTA
94003 GTCATATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.47
19 10 0.29
20 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTATTTATATTATTAA
Found at i:96571 original size:3 final size:3
Alignment explanation
Indices: 96563--96594 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
96553 TTCTTTTCTT
96563 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96595 TATAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:104016 original size:40 final size:40
Alignment explanation
Indices: 103917--104307 Score: 579
Period size: 40 Copynumber: 9.8 Consensus size: 40
103907 TGGATGATAA
* ** * * **
103917 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
103957 CCGGGC-AAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
103996 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
104036 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
104076 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
104116 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
104156 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
104196 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
104236 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
104276 CTGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
104308 AGCTATATCC
Statistics
Matches: 320, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 31 0.10
40 287 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:104319 original size:80 final size:80
Alignment explanation
Indices: 103917--104300 Score: 637
Period size: 80 Copynumber: 4.8 Consensus size: 80
103907 TGGATGATAA
* * ** * * **
103917 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAGTTCCGGGC-AAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
103981 TGTGAGTTACTAAAT
66 TGTGAGTTACTAAAT
103996 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
104061 TGTGAGTTACTAAAT
66 TGTGAGTTACTAAAT
104076 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
104141 TGTGAGTTACTAAAT
66 TGTGAGTTACTAAAT
104156 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
104221 TGTGAGTTACTAAAT
66 TGTGAGTTACTAAAT
* * * *
104236 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTCTAA-CTGGGCTATGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT-AAATCCGGGCTAAGTCCCGAAGGCATTT
104300 G
65 G
104301 AGCGAGTAGC
Statistics
Matches: 291, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
79 38 0.13
80 251 0.86
81 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGTGAGTTACTAAAT
Found at i:106147 original size:12 final size:13
Alignment explanation
Indices: 106120--106144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106110 CAAATGAAAT
106120 TTTTCAAAAAAAA
1 TTTTCAAAAAAAA
106133 TTTTCAAAAAAA
1 TTTTCAAAAAAA
106145 TTTGACTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAAAAA
Found at i:106584 original size:3 final size:3
Alignment explanation
Indices: 106560--106634 Score: 80
Period size: 3 Copynumber: 25.3 Consensus size: 3
106550 AATATTCTTG
* * * * * *
106560 TTA TTT TTA -TA TTA TTA GTA TTA TTA CTA CTA CTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
106607 TTA TTA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
106635 CATATATATA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:106668 original size:24 final size:25
Alignment explanation
Indices: 106636--106685 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
106626 TATTATTATC
*
106636 ATATATATATATATGTTTTA-GTAT
1 ATATATATATATATATTTTACGTAT
*
106660 ATATGTATATATATATTTTACGTAT
1 ATATATATATATATATTTTACGTAT
106685 A
1 A
106686 GGCCTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (25 bp):
ATATATATATATATATTTTACGTAT
Found at i:106983 original size:20 final size:21
Alignment explanation
Indices: 106960--107031 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
106950 GTTACATACG
* *
106960 TATATGTTATGTGTATT-TTA
1 TATATATTATGTATATTATTA
106980 TATATATTATGTATATTATTA
1 TATATATTATGTATATTATTA
* * ** *
107001 TCTTTATTATACATATTACGTA
1 TATATATTATGTATATTA-TTA
107023 TATATATTA
1 TATATATTA
107032 AATATAGTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 15 0.37
21 17 0.41
22 9 0.22
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (21 bp):
TATATATTATGTATATTATTA
Found at i:107058 original size:21 final size:21
Alignment explanation
Indices: 107020--107119 Score: 61
Period size: 21 Copynumber: 4.8 Consensus size: 21
107010 TACATATTAC
*
107020 GTATATAT-ATTAA-ATATA-
1 GTATATATCTTTAATATATAT
*
107038 GTAT-TATTCGTTTATTATATAT
1 GTATATA-TC-TTTAATATATAT
107060 GTATATATCTTTAATATATAT
1 GTATATATCTTTAATATATAT
*
107081 AAGTATATATTTATGTAATAT-TA-
1 --GTATATATCT-T-TAATATATAT
*
107104 GTAT-TATTTTTAATAT
1 GTATATATCTTTAATAT
107120 TAATATGTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
17 2 0.03
18 11 0.16
19 1 0.01
20 8 0.12
21 20 0.29
22 6 0.09
23 11 0.16
24 3 0.04
25 6 0.09
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
GTATATATCTTTAATATATAT
Found at i:107119 original size:18 final size:19
Alignment explanation
Indices: 107013--107135 Score: 63
Period size: 19 Copynumber: 6.1 Consensus size: 19
107003 TTTATTATAC
* *
107013 ATATTACGTATATATATTAA
1 ATATTA-GTATATATTTTTA
107033 ATA-TAGTAT-TATTCGTTTA
1 ATATTAGTATATATT--TTTA
*
107052 TTATATATGTATATATCTTTAATA
1 ATAT-TA-GTATATAT-TTT--TA
*
107076 TATATAAGTATATATTTATGTA
1 -ATATTAGTATATATTT-T-TA
107098 ATATTAGTAT-TATTTTTA
1 ATATTAGTATATATTTTTA
* * *
107116 ATATTAATATGTTTTTTTA
1 ATATTAGTATATATTTTTA
107135 A
1 A
107136 CATTGTAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 25
0.71 0.08 0.22
Matches are distributed among these distances:
17 3 0.04
18 15 0.18
19 16 0.20
20 8 0.10
21 11 0.13
22 10 0.12
23 12 0.15
24 4 0.05
25 3 0.04
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (19 bp):
ATATTAGTATATATTTTTA
Found at i:107183 original size:24 final size:22
Alignment explanation
Indices: 107153--107209 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
107143 ATTATATGTG
*
107153 TATATATTATGTAAATGTTTTAA
1 TATATATTATGTAAACGTTTT-A
* *
107176 TATTATATTATATATACGTTTTA
1 TA-TATATTATGTAAACGTTTTA
107199 TATATATTATG
1 TATATATTATG
107210 AACATGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 5 0.17
24 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (22 bp):
TATATATTATGTAAACGTTTTA
Found at i:112211 original size:41 final size:41
Alignment explanation
Indices: 112166--112941 Score: 1453
Period size: 41 Copynumber: 18.9 Consensus size: 41
112156 CAATAGCGGT
* ** * * *
112166 GCTTTTGGTAAAATGCCGCTAAAAATAAGAGCATTAGCGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112207 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112248 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112289 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112330 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112371 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112412 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112453 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112494 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112535 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112576 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112617 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112658 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112699 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112740 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112781 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112822 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
** * * *
112863 GCTTTTGGTAAAACGCCGCTAAAAATAAGAGCATTAGCGGC
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
112904 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGG
1 GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGG
112942 CAAAAAAATT
Statistics
Matches: 719, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 719 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (41 bp):
GCTTTTGGTAAAACGCCGCTAAAAATCGGAGTATTTGGGGC
Found at i:113033 original size:40 final size:41
Alignment explanation
Indices: 112961--113081 Score: 120
Period size: 41 Copynumber: 3.0 Consensus size: 41
112951 TGTAAAACAT
*** * * *
112961 AGAGCAATAGCGGCG-TTTTACCAAAAATGCCGCT-TAAAGC
1 AGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAAGA
* * *
113001 AGCGCAATAGCGGTGCTTTTGGTAAAACGCCGCTAAAAATA
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAGA
* *
113042 AGAGCATTAGCGGCGCTTTTGGTAAAACGTCGCTAAAAAG
1 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAG
113082 TTTAGGGTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
40 23 0.35
41 42 0.65
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAGA
Found at i:113196 original size:7 final size:7
Alignment explanation
Indices: 113186--113212 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
113176 TATGATTTAA
113186 GGGTTAG
1 GGGTTAG
113193 GGGTTAG
1 GGGTTAG
113200 GGGTTAG
1 GGGTTAG
113207 GGGTTA
1 GGGTTA
113213 ATACTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:113460 original size:21 final size:21
Alignment explanation
Indices: 113434--113477 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
113424 TTATGGTTAG
* *
113434 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGATTAA
113455 GGGATATACTTTAGGGATTAA
1 GGGATATACTTTAGGGATTAA
113476 GG
1 GG
113478 TTATAGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
GGGATATACTTTAGGGATTAA
Found at i:113820 original size:27 final size:27
Alignment explanation
Indices: 113789--113846 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
113779 AATTTCCCCG
* *
113789 ATTTCCCCCAACTTCTTCTCCCTC-AA
1 ATTTTCCCCAACTTCTTCTCCCCCAAA
113815 ATTTTCCCCAACTTCTTCTCCCCCAAA
1 ATTTTCCCCAACTTCTTCTCCCCCAAA
113842 ATTTT
1 ATTTT
113847 TACCCTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (27 bp):
ATTTTCCCCAACTTCTTCTCCCCCAAA
Found at i:113840 original size:15 final size:15
Alignment explanation
Indices: 113792--113840 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
113782 TTCCCCGATT
113792 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
* *
113807 TCCCTCAA-AT-TT-
1 TCCCCCAACTTCTTC
113819 T-CCCCAACTTCTTC
1 TCCCCCAACTTCTTC
113833 TCCCCCAA
1 TCCCCCAA
113841 AATTTTTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 5 0.19
12 2 0.08
13 4 0.15
14 2 0.08
15 13 0.50
ACGTcount: A:0.18, C:0.49, G:0.00, T:0.33
Consensus pattern (15 bp):
TCCCCCAACTTCTTC
Found at i:117061 original size:183 final size:183
Alignment explanation
Indices: 116753--117304 Score: 1023
Period size: 183 Copynumber: 3.0 Consensus size: 183
116743 GATATAGTTC
* * * *
116753 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
*
116818 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTTGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
*
116883 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
116936 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
*
117001 ACTATTTGTTCAACTGAAGCTGCCATTTAATCTTCGGATTAATATTTGGTACTGATATAGATAAA
66 ACTATTTGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
* *
117066 GTTTTTATATTTTCTTGAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
117119 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
117184 ACTATTTGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTTGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
117249 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
117302 CAT
1 CAT
117305 CTGTTCTAGG
Statistics
Matches: 357, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 357 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (183 bp):
CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGATTCCTGCTCCTCCTGCA
ACTATTTGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
Found at i:117525 original size:15 final size:15
Alignment explanation
Indices: 117505--117533 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
117495 GGAGTAGACC
117505 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
117520 AGGTACGTTTTATT
1 AGGTACGTTTTATT
117534 TCAAAATTCT
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:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:118083 original size:72 final size:72
Alignment explanation
Indices: 118000--118235 Score: 447
Period size: 72 Copynumber: 3.3 Consensus size: 72
117990 AAAATTAAAC
118000 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
1 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
118065 TAATATT
66 TAATATT
118072 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
1 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
118137 TAATATT
66 TAATATT
118144 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
1 TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
**
118209 TTTTA-T
66 TAATATT
118215 TACGATTCTTTTTTTATATTA
1 TACGATTCTTTTTTTATATTA
118236 ATATGTACTT
Statistics
Matches: 162, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 22 0.14
72 140 0.86
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (72 bp):
TACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTT
TAATATT
Found at i:118381 original size:15 final size:15
Alignment explanation
Indices: 118363--118392 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
118353 ATAATTTTTA
118363 TAAATATTATTTAAT
1 TAAATATTATTTAAT
118378 TAAATATTATTTAAT
1 TAAATATTATTTAAT
118393 CCTGCTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATATTATTTAAT
Found at i:118537 original size:9 final size:9
Alignment explanation
Indices: 118497--118686 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
118487 TATTTGATAT
*
118497 CATAATTTA
1 CATAACTTA
*
118506 TATAACTTA
1 CATAACTTA
* *
118515 CAAAACGTA
1 CATAACTTA
118524 CATAACTTA
1 CATAACTTA
*
118533 TATAACTTA
1 CATAACTTA
* *
118542 GATAA-ATA
1 CATAACTTA
*
118550 TATAACTTA
1 CATAACTTA
118559 CATAACTTA
1 CATAACTTA
118568 CATAATACTTA
1 CAT-A-ACTTA
* *
118579 AATATATTTTATA
1 CATA-A--CT-TA
*
118592 TCATAATTTA
1 -CATAACTTA
118602 CATAACTTA
1 CATAACTTA
118611 CATAACTTA
1 CATAACTTA
*
118620 TATAACTTA
1 CATAACTTA
* *
118629 GATAA-ATA
1 CATAACTTA
* *
118637 TATAATTTA
1 CATAACTTA
*
118646 CATAA-ATA
1 CATAACTTA
* * *
118654 TATATCATA
1 CATAACTTA
118663 TCATAACTTA
1 -CATAACTTA
118673 CATAACTTA
1 CATAACTTA
118682 CATAA
1 CATAA
118687 TACTTAAGTA
Statistics
Matches: 142, Mismatches: 29, Indels: 20
0.74 0.15 0.10
Matches are distributed among these distances:
8 17 0.12
9 97 0.68
10 12 0.08
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:118553 original size:17 final size:17
Alignment explanation
Indices: 118531--118686 Score: 93
Period size: 17 Copynumber: 8.9 Consensus size: 17
118521 GTACATAACT
*
118531 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
118548 TATATAACTTACATAACT
1 TATATAACTTACATAA-A
* *
118566 TACATAA--TACTTAAA
1 TATATAACTTACATAAA
** *
118581 TATAT-TTTATATCATAATT
1 TATATAACT-TA-CATAA-A
* *
118600 TACATAACTTACATAACT
1 TATATAACTTACATAA-A
*
118618 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
118635 TATATAATTTACATAAA
1 TATATAACTTACATAAA
* * *
118652 TATATATCATATCATAACT
1 TATATAACTTA-CATAA-A
*
118671 TACATAACTTACATAA
1 TATATAACTTACATAA
118687 TACTTAAGTA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 40 0.38
18 40 0.38
19 14 0.13
20 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (17 bp):
TATATAACTTACATAAA
Found at i:118668 original size:96 final size:96
Alignment explanation
Indices: 118470--118677 Score: 231
Period size: 96 Copynumber: 2.1 Consensus size: 96
118460 ATAAAAAACT
* *
118470 TACATAATACATAAATATATTTGATATCATAATTTATATAACTTACAAAACGTACATAACTTATA
1 TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
* * * *
118535 TAACTTAGATAAATATATAACTTACATAACT
66 TAACATAGATAAATACATAACATACATAACA
* * * * *
118566 TACATAATACTTAAATATATTTTATATCATAATTTACATAACTTACATAACTTATATAACTTAGA
1 TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
* * * *
118631 TAA-ATATATAATTTACATAA-ATATATATCA
66 TAACATAGATAA-ATACATAACATACATAACA
118661 TATCATAACTTACATAA
1 TA-CATAA--TACATAA
118678 CTTACATAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
95 14 0.15
96 72 0.78
98 6 0.07
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (96 bp):
TACATAATACATAAATATATTTGATATCATAATTTACATAACTTACAAAACGTACATAACTTAGA
TAACATAGATAAATACATAACATACATAACA
Found at i:118669 original size:44 final size:45
Alignment explanation
Indices: 118507--118677 Score: 122
Period size: 44 Copynumber: 3.9 Consensus size: 45
118497 CATAATTTAT
* * * * *
118507 ATAACTTACAAAACGTACATAACTTATATAACTTAGATAAATAT-
1 ATAATTTACATAACATACATAACATATATAACTTACATAAATATC
* * * * **
118551 ATAACTTACATAACTTACAT-A-ATACT-TAAATATA-TTTTATATC
1 ATAATTTACATAACATACATAACATA-TATAACT-TACATAAATATC
* * *
118594 ATAATTTACATAACTTACATAACTTATATAACTTAGATAAATAT-
1 ATAATTTACATAACATACATAACATATATAACTTACATAAATATC
* *
118638 ATAATTTACATAA-ATATATATCATATCATAACTTACATAA
1 ATAATTTACATAACATACATAACATAT-ATAACTTACATAA
118678 CTTACATAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 11 0.11
43 32 0.32
44 47 0.47
45 11 0.11
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (45 bp):
ATAATTTACATAACATACATAACATATATAACTTACATAAATATC
Found at i:124650 original size:31 final size:31
Alignment explanation
Indices: 124604--124670 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
124594 TGGTTGTATT
* *
124604 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
124635 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
124666 TTTTA
1 TTTTA
124671 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:124771 original size:43 final size:42
Alignment explanation
Indices: 124722--124950 Score: 307
Period size: 43 Copynumber: 5.3 Consensus size: 42
124712 TCTGCCAAAA
*
124722 TTAGCGGCG-TTTGTAAAAAAAGCGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCGCTTT-TACAAAAA-CGCCGCTAAAAGCCTTGACCT
* *
124765 TTAGCGGCGCTTTTACCACAAGCGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCGCTTTTA-CAAAAACGCCGCTAAAAGCCTTGACCT
* * *
124808 TTAGCGGCGCTTTTCTCACAAACGCCACTAAAAGCCTTGACCT
1 TTAGCGGCGCTTTT-ACAAAAACGCCGCTAAAAGCCTTGACCT
*
124851 TTAGCGGCGCTTTTACCATAAACGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCGCTTTTA-CAAAAACGCCGCTAAAAGCCTTGACCT
* *
124894 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
1 TTAGCGGCGCTTTT-ACAAAAACGCCGCTAAAAGCCTTGACCT
*
124937 TTAGCGGCGTTTTT
1 TTAGCGGCGCTTTT
124951 TTCCCAATAA
Statistics
Matches: 169, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
43 163 0.96
44 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (42 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAGCCTTGACCT
Found at i:124867 original size:86 final size:86
Alignment explanation
Indices: 124744--124950 Score: 369
Period size: 86 Copynumber: 2.4 Consensus size: 86
124734 GTAAAAAAAG
*
124744 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAGCGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
*
124809 TAGCGGCGCTTTTCTCACAAA
66 TAGCGGCGCTTTTCCCACAAA
* *
124830 CGCCACTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCATAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
124895 TAGCGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTCCCACAAA
*
124916 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
124951 TTCCCAATAA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 115 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTCCCACAAA
Found at i:134219 original size:13 final size:12
Alignment explanation
Indices: 134183--134225 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 12
134173 GAAGCCTTAT
134183 AAAAGAGAGAAAA
1 AAAAGA-AGAAAA
134196 AAAA-AAGAAAA
1 AAAAGAAGAAAA
134207 AAAAGAAGTAAAA
1 AAAAGAAG-AAAA
134220 ACAAAG
1 A-AAAG
134226 TTTAGTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.37
12 4 0.15
13 9 0.33
14 4 0.15
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAAGAAGAAAA
Found at i:135455 original size:91 final size:91
Alignment explanation
Indices: 135299--135466 Score: 264
Period size: 91 Copynumber: 1.8 Consensus size: 91
135289 AAATTAGCTA
* *
135299 TTAAGCATATGAGTTAATATGTCATGTCATTAGTCCATTACTGAGTCAACACAAAAATGATTAAA
1 TTAAGCATATGAGTTAATATGTCATGTCATTAATCCATTACTGAGTCAACACAAAAATGACTAAA
135364 ATGTTACAAATATGTCATGTCATTAG
66 ATGTTACAAATATGTCATGTCATTAG
* * * * *
135390 TTAAGCATATGAGTTAATGTGTCATGTTATTAATCTATTACTGAGTCAACACACAAGTGACTAAA
1 TTAAGCATATGAGTTAATATGTCATGTCATTAATCCATTACTGAGTCAACACAAAAATGACTAAA
*
135455 ATGTTACGAATA
66 ATGTTACAAATA
135467 GAAAATGTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 69 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (91 bp):
TTAAGCATATGAGTTAATATGTCATGTCATTAATCCATTACTGAGTCAACACAAAAATGACTAAA
ATGTTACAAATATGTCATGTCATTAG
Found at i:136922 original size:17 final size:17
Alignment explanation
Indices: 136895--136929 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
136885 AAAAAAGTGA
136895 ATATGCCATAT-CAAAT
1 ATATGCCATATACAAAT
136911 ATATGTCCATATACAAAT
1 ATATG-CCATATACAAAT
136929 A
1 A
136930 CTCATGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
ATATGCCATATACAAAT
Found at i:141732 original size:3 final size:3
Alignment explanation
Indices: 141724--142011 Score: 140
Period size: 3 Copynumber: 93.7 Consensus size: 3
141714 TAATTTAATC
* * * * *
141724 TAT TAT TAT TACT CAT TAT T-T CAC TAT TAT TGT CTAA TA- TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * *
141769 CAT TAT CAC TAT TAAT GTAT TAT TAT TAT TAT TA- TAT TAT TAT TA-
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
141814 TAT TAT TAT TAT TAT TAT TAT CAT TATT TAC TAT TAT TAT TAGT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT
* * * * * *
141861 CTAT TAC TAT TCGT GTAT TGT TATT TCT TAT TTT TCA- TAT TAT TGT
1 -TAT TAT TAT T-AT -TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT
* * *
141907 TGT TAT TAG TAT ATAT TGT TAT TAT TAT T-T CCTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT
* * * * * * * *
141954 TAT TAC TAA TAT CAC TAT TAT CAT T-T TTT TAT TAC TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
142001 TGT TAT TAT TA
1 TAT TAT TAT TA
142012 CTTACTATCT
Statistics
Matches: 211, Mismatches: 53, Indels: 42
0.69 0.17 0.14
Matches are distributed among these distances:
2 11 0.05
3 175 0.83
4 22 0.10
5 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:148191 original size:46 final size:46
Alignment explanation
Indices: 148133--148225 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
148123 TTTCAAAACT
*
148133 AAAATTCTAGAAACTTCTGCTACTATACTAAGTAAGTGATTAAGTG
1 AAAACTCTAGAAACTTCTGCTACTATACTAAGTAAGTGATTAAGTG
148179 AAAACTCTAGAAACTTCTGCTACTATACTAAGTAAGTGATTAAGTG
1 AAAACTCTAGAAACTTCTGCTACTATACTAAGTAAGTGATTAAGTG
148225 A
1 A
148226 TTTTACTGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (46 bp):
AAAACTCTAGAAACTTCTGCTACTATACTAAGTAAGTGATTAAGTG
Found at i:150250 original size:59 final size:59
Alignment explanation
Indices: 150150--150272 Score: 221
Period size: 59 Copynumber: 2.1 Consensus size: 59
150140 TTGACGACTG
*
150150 TATT-GCTGTTTTGCAAGTGGATGTATGGACCATTCTACCAATCAAACATCACAAGAAT
1 TATTAGCTGTTTTGCAAGTGGATGTATAGACCATTCTACCAATCAAACATCACAAGAAT
*
150208 TATTAGCTGTTTTGCAAGTGGATGTATAGACCATTCTGCCAATCAAACATCACAAGAAT
1 TATTAGCTGTTTTGCAAGTGGATGTATAGACCATTCTACCAATCAAACATCACAAGAAT
150267 TATTAG
1 TATTAG
150273 TAGAGGCCTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 4 0.06
59 58 0.94
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (59 bp):
TATTAGCTGTTTTGCAAGTGGATGTATAGACCATTCTACCAATCAAACATCACAAGAAT
Found at i:154349 original size:43 final size:43
Alignment explanation
Indices: 154302--154387 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
154292 TGTTTTTCGG
*
154302 GTTTTCGGGGTTTAGTTTTTATCTCCATCTTTTGTACTTTTCA
1 GTTTTCGGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCA
154345 GTTTTCGGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCA
1 GTTTTCGGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCA
154388 TTCTTTTGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.12, C:0.17, G:0.16, T:0.55
Consensus pattern (43 bp):
GTTTTCGGGGTTTAGTTTTTATCTCCATCTTTTGTACTCTTCA
Found at i:167540 original size:13 final size:13
Alignment explanation
Indices: 167522--167546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167512 ATTTACAAGA
167522 TTACATAATCAAT
1 TTACATAATCAAT
167535 TTACATAATCAA
1 TTACATAATCAA
167547 ATATAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:169239 original size:35 final size:35
Alignment explanation
Indices: 169188--169261 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
169178 AGACAGATAT
* * *
169188 AGATTTGGGCCTAAGCCCATTAC-AGATACAAATGC
1 AGATTCGGGCCGAAGCCCATT-CTAGATACAAATAC
*
169223 AGATTCGGGCCGAAGCCCATTCTAGATACAGATAC
1 AGATTCGGGCCGAAGCCCATTCTAGATACAAATAC
169258 AGAT
1 AGAT
169262 AGGCAGATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (35 bp):
AGATTCGGGCCGAAGCCCATTCTAGATACAAATAC
Found at i:174888 original size:3 final size:3
Alignment explanation
Indices: 174840--174970 Score: 62
Period size: 3 Copynumber: 44.3 Consensus size: 3
174830 AATAGGACGG
* * * * * * *
174840 ATA ATA AAA ATC ATA GTA ATC ATA ATA CAAA AT- ATA ATG GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
174885 ATA ATA TATA A-A A-A ATA A-A A-A ATA ATG ATA TTA ATA CATA A-A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
174927 TATAA ATA GA-A AT- ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA A
1 -AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
174971 AATTTTTAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
2 14 0.15
3 70 0.73
4 11 0.11
5 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:175128 original size:15 final size:15
Alignment explanation
Indices: 175108--175153 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
175098 ATATAAATAG
175108 AAATAGAAATATAAT
1 AAATAGAAATATAAT
175123 AAATAGAAATATAAT
1 AAATAGAAATATAAT
175138 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
175154 ATAGATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:175156 original size:44 final size:44
Alignment explanation
Indices: 175102--175188 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
175092 ATTAGTATAT
*
175102 AAATAGAAATAGA-AATATAATAAA-TAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAA-ATAA-AAATTAGATAA-AAAATAATAGTAG
*
175146 AAATATAAATAGATAAATAAAAATTAGATAAAAAATAATAGTA
1 AAATAGAAATAGATAAATAAAAATTAGATAAAAAATAATAGTA
175189 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 3 0.08
44 31 0.82
45 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAATTAGATAAAAAATAATAGTAG
Found at i:175173 original size:15 final size:14
Alignment explanation
Indices: 175100--175216 Score: 64
Period size: 15 Copynumber: 8.1 Consensus size: 14
175090 ATATTAGTAT
*
175100 ATAAATAGAAATAG
1 ATAAATAAAAATAG
175114 A-AATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
175129 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
175143 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
175158 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
175173 ATAAA-AAATAATAG
1 ATAAATAAA-AATAG
*
175187 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
175202 ATAAATATAAATAG
1 ATAAATAAAAATAG
175216 A
1 A
175217 AACATACTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
12 6 0.07
13 5 0.06
14 26 0.32
15 34 0.41
16 5 0.06
17 4 0.05
18 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:176389 original size:44 final size:44
Alignment explanation
Indices: 176316--177478 Score: 356
Period size: 44 Copynumber: 26.7 Consensus size: 44
176306 TAGTGGCTTA
* * *
176316 AATCTGCTTCCA-TACTACTTCGGGAAGATAAGATTCACCATCTTC
1 AATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTCACTATCTTC
* *
176361 GATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCA--ATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTC
* * * ** * ** *
176405 -AGCTTGCTCCACTGCTGC-TCGAGGAGATAAGGCT-AGTGGCTTA
1 AATC-TGCTCCACTACTGCTTAG-GGAGATAAGATTCACTATCTTC
* *** * * **
176448 AATCTGCTTCC-CTACTACCCCGGGAACATAAGATTCGCCGTCTTC
1 AATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTCACTATCTTC
* *
176493 GATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCA--ATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTC
* * * * ** * ** *
176537 -AGCTTGCACCACTGCTGC-TCGAGGAGATAAGGCT-AGTGGCTTA
1 AATC-TGCTCCACTACTGCTTAG-GGAGATAAGATTCACTATCTTC
* * * * * * *
176580 AATCTGCTTCC-CCACTACCTCGGGAAAATAAGATTCACCATCTTT
1 AATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTCACTATCTTC
*
176625 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA--ATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTC
** * * * ** * ** *
176669 AGCCTGCTCCACTGCTACTCAGGGAGATAAGGCT-AGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * * **
176712 AATCTTCTTCCCACTAC--C-TCGGGAAGACAAGATTCACCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGGG-AGATAAGATTCACTATCTTC
* * ** *
176756 GATCTGCTCCACTACTGCTTAGGGATATAAGA-TCTGTAATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACT-ATCTTC
** * * * *
176800 AGCCTGCTCCACTGCTGCTCAGGGAGATAAGA-TCTACAATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-ACTATCTTC
* ** * * * ** *
176844 AGTCTATTCCACTACTACTTAGGGAGAT-AGAAT-AGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * ** *
176886 AATCTACTCCACTACTGCTTAGGGAGACAAGATT-TGTCATCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACT-ATCTTC
* * * *
176930 GATCTGTTCCACTACTACTTAGGGAGACAAGATCTGCA--ATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTC
** * * * ** ** *
176974 AGCCTACTCCACTACTGCTTAGGAAGATAGGA-T-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * ** *
177016 AATCTGCTCCACTACTGCTTAAGGAGACAAGATTTTCCATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * * *
177060 GATCTACTCTACTACTGCTTAGGGAGACAAGATCTGCA--ATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTC
** * * ** ** *
177104 AGCCTACTCCACTACTGCTTAGGGAGATAGGA-T-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * * **
177146 AATCAGCTCCACTACTGCTTAGGGAGACAGGATTTGCTATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * * * *
177190 GATCTGCTCCACTACTGCTTAGGGAAACAAGA-TCTGCGATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-ACTATCTTC
** * * * ** ** *
177234 AGCCTACTCCACTACTACTTAGGGAGATAGGA-T-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * **
177276 AATCTGCTCCACTATTGCTTAGGGAGATAGGATTTGCTATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * *
177320 GATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCA-T-TCTTT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTC
* * * ** ** *
177364 AACCTACTCCACTACTGCTTAGGGAGATAGGA-T-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
* * * *
177406 AATCTACTCCACCACTGCTTAGGGAGACAGGATCTGC-C-ATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTC
* *
177450 AATCTACTCCACTACTACTTAGGGAGATA
1 AATCTGCTCCACTACTGCTTAGGGAGATA
177479 GGATCTGTGA
Statistics
Matches: 816, Mismatches: 237, Indels: 131
0.69 0.20 0.11
Matches are distributed among these distances:
41 4 0.00
42 162 0.20
43 67 0.08
44 507 0.62
45 71 0.09
46 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCACTATCTTC
Found at i:176532 original size:132 final size:132
Alignment explanation
Indices: 176291--176830 Score: 852
Period size: 132 Copynumber: 4.1 Consensus size: 132
176281 CACTGCAACT
* *
176291 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCATACTACTTCGGGAAGATAAGATTCACCA
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCA
* *
176356 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCAGCTTGCTCCACTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGCT
176421 GC
131 GC
* * *
176423 TC-GAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCCCGGGAACATAAGATTCGCC
1 TCAG-GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACC
* * * *
176487 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCAGCTTGCACCACTGC
65 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGC
176552 TGC
130 TGC
* *
176555 TC-GAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCCACTACCTCGGGAAAATAAGATTCACC
1 TCAG-GGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACC
*
176619 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGC
65 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGC
*
176684 TAC
130 TGC
* * *
176687 TCAGGGAGATAAGGCTAGTGGCTTAAATCTTCTTCCC-ACTACCTCGGGAAGACAAGATTCACCG
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCA
* * *
176751 TCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATCTGTAATCTTTAGCCTGCTCCACTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGCT
176816 GC
131 GC
176818 TCAGGGAGATAAG
1 TCAGGGAGATAAG
176831 ATCTACAATC
Statistics
Matches: 380, Mismatches: 26, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
131 100 0.26
132 279 0.73
133 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (132 bp):
TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCA
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGCT
GC
Found at i:176918 original size:86 final size:85
Alignment explanation
Indices: 176806--177479 Score: 441
Period size: 86 Copynumber: 7.8 Consensus size: 85
176796 CTTTAGCCTG
* * * * * * *
176806 CTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTTAGTCTATTCCACTACTACTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGC-ATCTTTAATCTACTCCACTACTGCTTAGGGAGA
*
176871 TAGAATAGTGGCTTAAATCTA
65 TAGAATAGTGGCTTCAATCTA
* * ** *
176892 CTCCACTACTGCTTAGGGAGACAAGATTTGTCATCTTTGATCTGTTCCACTACTACTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAAGATCTG-CATCTTTAATCTACTCCACTACTGCTTAGGGAGA
* * * **
176957 CA-AGAT-CTGCAATCTTCAGCCTA
65 TAGA-ATAGTG---GCTTCAATCTA
* * * * * * * *
176980 CTCCACTACTGCTTAGGAAGATAGGATGGTG--GCTTAAATCTGCTCCACTACTGCTTAAGGAGA
1 CTCCACTACTGCTTAGGGAGACAAGAT-CTGCATCTTTAATCTACTCCACTACTGCTTAGGGAGA
* ** ** *
177043 CA-AGATTTTCCATCTTCGATCTA
65 TAGA-ATAGT--GGCTTCAATCTA
* * **
177066 CTCTACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGC-ATCTTTAATCTACTCCACTACTGCTTAGGGAGA
* * *
177131 TAGGATGGTGGCTTAAATC-A
65 TAGAATAGTGGCTTCAATCTA
* * ** *
177151 GCTCCACTACTGCTTAGGGAGACAGGATTTGCTATCTTCGATCTGCTCCACTACTGCTTAGGGA-
1 -CTCCACTACTGCTTAGGGAGACAAGATCTGC-ATCTTTAATCTACTCCACTACTGCTTAGGGAG
* * * **
177215 A-ACAAGATCTGCGATCTTCAGCCTA
64 ATAGAATA-GTG-G--CTTCAATCTA
* * * * * * * *
177240 CTCCACTACTACTTAGGGAGATAGGATGGTG--GCTTAAATCTGCTCCACTATTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAAGAT-CTGCATCTTTAATCTACTCCACTACTGCTTAGGGAGA
* * ** * *
177303 TAGGATTTGCTATCTTCGATCTG
65 TA-GAATAG-TGGCTTCAATCTA
*
177326 CTCCACTACTGCTTAGGGAGACAAGATCTGCATTCTTTAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGCA-TCTTTAATCTACTCCACTACTGCTTAGGGAGA
* * *
177391 TAGGATGGTGGCTTAAATCTA
65 TAGAATAGTGGCTTCAATCTA
* * * *
177412 CTCCACCACTGCTTAGGGAGACAGGATCTGCCATCTTCAATCTACTCCACTACTACTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAAGATCTG-CATCTTTAATCTACTCCACTACTGCTTAGGGAGA
177477 TAG
65 TAG
177480 GATCTGTGAA
Statistics
Matches: 456, Mismatches: 104, Indels: 56
0.74 0.17 0.09
Matches are distributed among these distances:
84 2 0.00
85 11 0.02
86 307 0.67
87 8 0.02
88 121 0.27
89 7 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (85 bp):
CTCCACTACTGCTTAGGGAGACAAGATCTGCATCTTTAATCTACTCCACTACTGCTTAGGGAGAT
AGAATAGTGGCTTCAATCTA
Found at i:176928 original size:130 final size:130
Alignment explanation
Indices: 176757--177485 Score: 973
Period size: 130 Copynumber: 5.6 Consensus size: 130
176747 ACCGTCTTCG
* * * * * * * * *
176757 ATCTGCTCCACTACTGCTTAGGGATATAAGATCTGTAATCTT-TAGCCTGCTCCACTGCTGCTCA
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTCATCTTCGA-TCTGCTCCACTACTGCTTA
* * * * * * * *
176821 GGGAGATAAGATCTACAATCTTTAGTCTATTCCACTACTACTTAGGGAGATAGAATAGTGGCTTA
65 GGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTA
176886 A
130 A
* * *
176887 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTCATCTTTGATCTGTTCCACTACTACTTAG
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTCATCTTCGATCTGCTCCACTACTGCTTAG
*
176952 GGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGAAGATAGGATGGTGGCTTAA
66 GGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAA
* * * *
177017 ATCTGCTCCACTACTGCTTAAGGAGACAAGATTT-TCCATCTTCGATCTACTCTACTACTGCTTA
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGT-CATCTTCGATCTGCTCCACTACTGCTTA
177081 GGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTA
65 GGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTA
177146 A
130 A
*
177147 ATC-AGCTCCACTACTGCTTAGGGAGACAGGATTTG-CTATCTTCGATCTGCTCCACTACTGCTT
1 ATCTA-CTCCACTACTGCTTAGGGAGACAAGATTTGTC-ATCTTCGATCTGCTCCACTACTGCTT
* * *
177210 AGGGAAACAAGATCTGCGATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTT
64 AGGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
177275 AA
129 AA
* * * *
177277 ATCTGCTCCACTATTGCTTAGGGAGATAGGATTTG-CTATCTTCGATCTGCTCCACTACTGCTTA
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTC-ATCTTCGATCTGCTCCACTACTGCTTA
* * *
177341 GGGAGACAAGATCTGCATTCTTTAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTA
65 GGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTA
177406 A
130 A
* * * * * * *
177407 ATCTACTCCACCACTGCTTAGGGAGACAGGATCTGCCATCTTCAATCTACTCCACTACTACTTAG
1 ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTCATCTTCGATCTGCTCCACTACTGCTTAG
* *
177472 GGAGATAGGATCTG
66 GGAGACAAGATCTG
177486 TGAATTTATC
Statistics
Matches: 537, Mismatches: 55, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
129 2 0.00
130 533 0.99
131 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (130 bp):
ATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTCATCTTCGATCTGCTCCACTACTGCTTAG
GGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAA
Found at i:176964 original size:174 final size:175
Alignment explanation
Indices: 176628--177002 Score: 461
Period size: 174 Copynumber: 2.1 Consensus size: 175
176618 CATCTTTGAT
* * *
176628 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGCTACTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTCAGGG
** * * *
176693 AGATAAGGCTAGTGGCTTAAATCTTCTTCCCACTACCTCGGGAAGACAAGATTCACCGTCTTCGA
66 AGATAAGAATAGTGGCTTAAATCTACTTCCCACTACCTAGGGAAGACAAGATTCACCATCTTCGA
* * * * *
176758 TCTGCTCCACTACTGCTTAGGGATATAAGATCTGTAATCTTTAGC
131 TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGC
* * * * * *
176803 CTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAATCTTTAGTCTATTCCACTACTACTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTCAGGG
***
176868 AGAT-AGAATAGTGGCTTAAATCTAC-T-CCACTACTGCTTAGGG-AGACAAGATTTGTCATCTT
66 AGATAAGAATAGTGGCTTAAATCTACTTCCCACTAC--C-TAGGGAAGACAAGATTCACCATCTT
* *
176929 TGATCTGTTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGC
128 CGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGC
* *
176977 CTACTCCACTACTGCTTAGGAAGATA
1 CTGCTCCACTACTGCTTAGGGAGATA
177003 GGATGGTGGC
Statistics
Matches: 169, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
172 7 0.04
173 1 0.01
174 97 0.57
175 64 0.38
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (175 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTCAGGG
AGATAAGAATAGTGGCTTAAATCTACTTCCCACTACCTAGGGAAGACAAGATTCACCATCTTCGA
TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGC
Found at i:177482 original size:44 final size:43
Alignment explanation
Indices: 176751--177485 Score: 520
Period size: 44 Copynumber: 17.0 Consensus size: 43
176741 AGATTCACCG
* * * * *
176751 TCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTG-CA
* ** * * * * *
176795 TCTTTAGCCTGCTCCACTGCTGCTCAGGGAGATAAGATCTACAA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTGC-A
* * * * * *
176839 TCTTTAGTCTATTCCACTACTACTTAGGGAGATAGAATAGTG--
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGAT-CTGCA
* * * * *
176881 GCTTAAATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTCA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTG-CA
** ** * * *
176925 TCTTTGATCTGTTCCACTACTACTTAGGGAGACAAGATCTGCAA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTGC-A
** * *
176969 TCTTCAGCCTACTCCACTACTGCTTAGGAAGATAGGATGGTG--
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGAT-CTGCA
* * * * * * * *
177011 GCTTAAATCTGCTCCACTACTGCTTAAGGAGACAAGATTTTCCA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGA-TCTGCA
* * * *
177055 TCTTCGATCTACTCTACTACTGCTTAGGGAGACAAGATCTGCAA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTGC-A
** *
177099 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTG--
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGAT-CTGCA
* * * *
177141 GCTTAAATC-AGCTCCACTACTGCTTAGGGAGACAGGATTTGCTA
1 TCTTCAATCTA-CTCCACTACTGCTTAGGGAGATAGGATCTGC-A
* * * * *
177185 TCTTCGATCTGCTCCACTACTGCTTAGGGAAACAAGATCTGCGA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTGC-A
** * *
177229 TCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTG--
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGAT-CTGCA
* * * * *
177271 GCTTAAATCTGCTCCACTATTGCTTAGGGAGATAGGATTTGCTA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTGC-A
* * * *
177315 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTGCA
* * *
177358 TTCTTTAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTG--
1 -TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGAT-CTGCA
* * * *
177401 GCTTAAATCTACTCCACCACTGCTTAGGGAGACAGGATCTGCCA
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTG-CA
*
177445 TCTTCAATCTACTCCACTACTACTTAGGGAGATAGGATCTG
1 TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTG
177486 TGAATTTATC
Statistics
Matches: 537, Mismatches: 128, Indels: 52
0.75 0.18 0.07
Matches are distributed among these distances:
41 9 0.02
42 154 0.29
43 6 0.01
44 359 0.67
45 9 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
TCTTCAATCTACTCCACTACTGCTTAGGGAGATAGGATCTGCA
Found at i:183334 original size:3 final size:3
Alignment explanation
Indices: 183320--183459 Score: 70
Period size: 3 Copynumber: 48.3 Consensus size: 3
183310 AATAGGACGG
* * * *
183320 ATA ATA AAA ATA ATA GTA ATA ATA ATA A-A A-A AT- ATA ATG GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
183365 ATA ATA TATA A-A A-A ATA A-A A-A ATA ATG ATA GTA ATA CATA A-A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
183407 TATAA ATA GA-A AT- ATA ATA CATA GA-A AT- ATA ATA ATA GTA ATA
1 -AT-A ATA -ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA
183450 ATA ATA ATA A
1 ATA ATA ATA A
183460 AAGTTTTAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 30
0.70 0.10 0.20
Matches are distributed among these distances:
2 21 0.20
3 72 0.67
4 13 0.12
5 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:183356 original size:24 final size:24
Alignment explanation
Indices: 183320--183461 Score: 90
Period size: 29 Copynumber: 5.4 Consensus size: 24
183310 AATAGGACGG
183320 ATAATAAAAATAATAGTAATAATA
1 ATAATAAAAATAATAGTAATAATA
*
183344 ATAA-AAAATATAATGGTAATAATA
1 ATAATAAAA-ATAATAGTAATAATA
* *
183368 ATATATAAAAAATAAAAAATAATGATAGTA
1 ATA-AT-AAAAAT-AATAGTAAT-A-A-TA
* *
183398 ATACATAAATATAAATAGAAAT-ATA
1 ATA-ATAAAAAT-AATAGTAATAATA
183423 ATACATAGAAATATAATAATAGTAATAATA
1 ATA-AT---AA-A-AATAATAGTAATAATA
183453 ATAATAAAA
1 ATAATAAAA
183462 GTTTTAAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
23 4 0.04
24 22 0.24
25 10 0.11
26 5 0.05
27 10 0.11
28 3 0.03
29 24 0.26
30 15 0.16
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (24 bp):
ATAATAAAAATAATAGTAATAATA
Found at i:183366 original size:27 final size:27
Alignment explanation
Indices: 183336--183461 Score: 112
Period size: 27 Copynumber: 4.5 Consensus size: 27
183326 AAAATAATAG
*
183336 TAATAATAATAAAAAATATAATGGTAA
1 TAATAATAATAAAAAATATAATAGTAA
* *
183363 TAATAATATATAAAAAATA-AAAAATAA
1 TAATAATA-ATAAAAAATATAATAGTAA
* * * *
183390 TGATAGTAATACATAAATATAAATAGAAA
1 TAATAATAATA-AAAAATAT-AATAGTAA
*
183419 T-ATAATACATAGAAATATAATAATAGTAA
1 TAATAATA-ATA-AAAAAT-ATAATAGTAA
183448 TAATAATAATAAAA
1 TAATAATAATAAAA
183462 GTTTTAAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
26 3 0.04
27 25 0.32
28 18 0.23
29 24 0.31
30 8 0.10
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (27 bp):
TAATAATAATAAAAAATATAATAGTAA
Found at i:183414 original size:33 final size:34
Alignment explanation
Indices: 183328--183440 Score: 92
Period size: 33 Copynumber: 3.3 Consensus size: 34
183318 GGATAATAAA
* *
183328 AATAATAGTA-ATAATAATAAAAAAT-ATAATGGT
1 AATAATAATATATAA-AATAAAAAATAATAATAGT
*
183361 AATAATAATATATAAAAAATAAAAAATAATGATAGT
1 AATAATAATATAT--AAAATAAAAAATAATAATAGT
* *
183397 AATACATAA-ATAT-AAATAGAAATATAATACATAGA
1 AATA-ATAATATATAAAATA-AAAAATAATA-ATAGT
183432 AAT-ATAATA
1 AATAATAATA
183441 ATAGTAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
33 18 0.27
34 11 0.17
35 17 0.26
36 16 0.24
37 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (34 bp):
AATAATAATATATAAAATAAAAAATAATAATAGT
Found at i:183646 original size:43 final size:43
Alignment explanation
Indices: 183590--183688 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
183580 ATATTAGTAT
* * **
183590 ATAAAT-ATAAATAGAAATATAATAATAGTAGAAATATAAATAG
1 ATAAATAAT-AATAGAAATAGAATAACAAAAGAAATATAAATAG
* * *
183633 ATAAATAATAATAGTATTAGAATAACAAAATAAATATAAATAG
1 ATAAATAATAATAGAAATAGAATAACAAAAGAAATATAAATAG
183676 A-AACATAATAATA
1 ATAA-ATAATAATA
183689 ATAGCAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.04
43 43 0.91
44 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (43 bp):
ATAAATAATAATAGAAATAGAATAACAAAAGAAATATAAATAG
Found at i:183657 original size:29 final size:29
Alignment explanation
Indices: 183573--183656 Score: 107
Period size: 29 Copynumber: 2.8 Consensus size: 29
183563 AAATAATAAT
*
183573 GAAAATAATATTAGTATATAAATATAAATA
1 GAAAATAATAATAGTAT-TAAATATAAATA
*
183603 GAAATATAATAATAGTA-GAAATATAAATA
1 GAAA-ATAATAATAGTATTAAATATAAATA
183632 GATAAATAATAATAGTATTAGAATA
1 GA-AAATAATAATAGTATTA-AATA
183657 ACAAAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
29 25 0.53
30 7 0.15
31 15 0.32
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (29 bp):
GAAAATAATAATAGTATTAAATATAAATA
Found at i:189689 original size:88 final size:87
Alignment explanation
Indices: 189570--189744 Score: 314
Period size: 88 Copynumber: 2.0 Consensus size: 87
189560 TCTTGTCTAG
*
189570 GAGATCCATCTTTCTTTGGAATACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCG
1 GAGATCCATCTTTCTTTGAAATACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCG
189635 CCAACTCCCAAGTATTGTTCTT
66 CCAACTCCCAAGTATTGTTCTT
*
189657 GAGATCCATCTTTCTTTGCAAATACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGT
1 GAGATCCATCTTTCTTTG-AAATACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGC
*
189722 GCCAATTCCCAAGTATTGTTCTT
65 GCCAACTCCCAAGTATTGTTCTT
189745 CCGGAGAGAC
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
87 18 0.21
88 66 0.79
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (87 bp):
GAGATCCATCTTTCTTTGAAATACCCACTTGCATCCGATTGCCCTTTTACCTTTCGGTAATTGCG
CCAACTCCCAAGTATTGTTCTT
Found at i:190058 original size:21 final size:21
Alignment explanation
Indices: 190032--190072 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
190022 ATCTGCTCAA
* *
190032 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
190053 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
190073 TTGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:192038 original size:21 final size:21
Alignment explanation
Indices: 192012--192052 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
192002 ACCTGCTCGA
*
192012 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
192033 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
192053 TTGCTTGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:194689 original size:350 final size:350
Alignment explanation
Indices: 194048--194747 Score: 1373
Period size: 350 Copynumber: 2.0 Consensus size: 350
194038 TTTTCATCAA
*
194048 TGGCAATGTCTAGACCCTGTTGAAAAAGGGCATCTAGAACCTCACTTTGCCACATACCAAAATGG
1 TGGCAATGTCTAGACCCTGTTGAAAAAGGGCATCTAGAACCTCACTTTGCCACAAACCAAAATGG
194113 CCCGTGCCATCAAAGATCTCCACGGCCAATCTTGCATTTGCAATTGTTGGTCTTGTCCACATGGA
66 CCCGTGCCATCAAAGATCTCCACGGCCAATCTTGCATTTGCAATTGTTGGTCTTGTCCACATGGA
194178 CGATGTTGAAGCTCCTAAACCGTCTGTTGTCTCCATAATCTTTCAATATACCTAAGGAAATCTTT
131 CGATGTTGAAGCTCCTAAACCGTCTGTTGTCTCCATAATCTTTCAATATACCTAAGGAAATCTTT
194243 TCTGATGTGGAAGATCAGTTTAAACTGCAACCACAGAGCATACTACGATTAACCTTCGGCTCTTG
196 TCTGATGTGGAAGATCAGTTTAAACTGCAACCACAGAGCATACTACGATTAACCTTCGGCTCTTG
194308 ATACCACTTGTTGTTCCAATAGGGTTGGAAGCGTGTAAATTATTGTACTAAACAATCACACAAAG
261 ATACCACTTGTTGTTCCAATAGGGTTGGAAGCGTGTAAATTATTGTACTAAACAATCACACAAAG
194373 TTCAATTCCCAGGAAAGAGAGGTAG
326 TTCAATTCCCAGGAAAGAGAGGTAG
194398 TGGCAATGTCTAGACCCTGTTGAAAAAGGGCATCTAGAACCTCACTTTGCCACAAACCAAAATGG
1 TGGCAATGTCTAGACCCTGTTGAAAAAGGGCATCTAGAACCTCACTTTGCCACAAACCAAAATGG
* *
194463 CTCGTGCCATCAAAGATCTTCACGGCCAATCTTGCATTTGCAATTGTTGGTCTTGTCCACATGGA
66 CCCGTGCCATCAAAGATCTCCACGGCCAATCTTGCATTTGCAATTGTTGGTCTTGTCCACATGGA
194528 CGATGTTGAAGCTCCTAAACCGTCTGTTGTCTCCATAATCTTTCAATATACCTAAGGAAATCTTT
131 CGATGTTGAAGCTCCTAAACCGTCTGTTGTCTCCATAATCTTTCAATATACCTAAGGAAATCTTT
194593 TCTGATGTGGAAGATCAGTTTAAACTGCAACCACAGAGCATACTACGATTAACCTTCGGCTCTTG
196 TCTGATGTGGAAGATCAGTTTAAACTGCAACCACAGAGCATACTACGATTAACCTTCGGCTCTTG
194658 ATACCACTTGTTGTTCCAATAGGGTTGGAAGCGTGTAAATTATTGTACTAAACAATCACACAAAG
261 ATACCACTTGTTGTTCCAATAGGGTTGGAAGCGTGTAAATTATTGTACTAAACAATCACACAAAG
194723 TTCAATTCCCAGGAAAGAGAGGTAG
326 TTCAATTCCCAGGAAAGAGAGGTAG
194748 ATCACATGGA
Statistics
Matches: 347, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
350 347 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (350 bp):
TGGCAATGTCTAGACCCTGTTGAAAAAGGGCATCTAGAACCTCACTTTGCCACAAACCAAAATGG
CCCGTGCCATCAAAGATCTCCACGGCCAATCTTGCATTTGCAATTGTTGGTCTTGTCCACATGGA
CGATGTTGAAGCTCCTAAACCGTCTGTTGTCTCCATAATCTTTCAATATACCTAAGGAAATCTTT
TCTGATGTGGAAGATCAGTTTAAACTGCAACCACAGAGCATACTACGATTAACCTTCGGCTCTTG
ATACCACTTGTTGTTCCAATAGGGTTGGAAGCGTGTAAATTATTGTACTAAACAATCACACAAAG
TTCAATTCCCAGGAAAGAGAGGTAG
Found at i:200318 original size:66 final size:67
Alignment explanation
Indices: 200190--200323 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 67
200180 GCAAAAAGGT
200190 AGAGAAGCAAACTCTTCAATGGCTTTTTTTTTTTTTTTTTGCAAAACAAGTTGCGGACAAGTAGA
1 AGAGAAGCAAACTCTTCAATGGCTTTTTTTTTTTTTTTTTGCAAAACAAGTTGCGGACAAGTAGA
200255 AA
66 AA
200257 AGAGAAGCAAACTCTTCAATGGC-TTTTTTTTTTTTTTTTGCAAAACAAGTTGCGGACAAGTAGA
1 AGAGAAGCAAACTCTTCAATGGCTTTTTTTTTTTTTTTTTGCAAAACAAGTTGCGGACAAGTAGA
200321 AA
66 AA
200323 A
1 A
200324 CTTCATTGCT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 44 0.66
67 23 0.34
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (67 bp):
AGAGAAGCAAACTCTTCAATGGCTTTTTTTTTTTTTTTTTGCAAAACAAGTTGCGGACAAGTAGA
AA
Found at i:207944 original size:27 final size:26
Alignment explanation
Indices: 207913--208179 Score: 237
Period size: 27 Copynumber: 9.7 Consensus size: 26
207903 ATCTTACAGG
* *
207913 ATGGGGGTATAATAGTCATTTTACCCT
1 ATGGGGGTAT-TTGGTCATTTTACCCT
207940 ATGGGGGTATTTCGGTCATTTTACCCT
1 ATGGGGGTATTT-GGTCATTTTACCCT
207967 ATGGGGGTATTTCGGTCATTTTACCCT
1 ATGGGGGTATTT-GGTCATTTTACCCT
**
207994 ATGGGGGTATTTCGAACATTTTACCCT
1 ATGGGGGTATTT-GGTCATTTTACCCT
*
208021 ACGGGGGTATTTCCGGTAAAATCATTTTACCCT
1 ATGGGGGTATTT--GG-----TCATTTTACCCT
* *
208054 ACGAGGGTATTTCGGTCATTTTACCCT
1 ATGGGGGTATTT-GGTCATTTTACCCT
* ** * * *
208081 ACGAAGGTATTTCGTTTATTTTACCTT
1 ATGGGGGTATTT-GGTCATTTTACCCT
*
208108 ATGAGGGTATTTCGGTCATTTTACCCT
1 ATGGGGGTATTT-GGTCATTTTACCCT
**
208135 ATGGGGGTATTAAAGTCATTTTACCCT
1 ATGGGGGTATT-TGGTCATTTTACCCT
*
208162 ATGGGGATATTTCGGTCA
1 ATGGGGGTATTT-GGTCA
208180 CTATTTCAGC
Statistics
Matches: 208, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.00
27 180 0.87
28 2 0.01
32 3 0.01
33 22 0.11
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (26 bp):
ATGGGGGTATTTGGTCATTTTACCCT
Found at i:207973 original size:54 final size:54
Alignment explanation
Indices: 207913--208179 Score: 263
Period size: 54 Copynumber: 4.8 Consensus size: 54
207903 ATCTTACAGG
207913 ATGGGGGTATAATAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT
1 ATGGGGGTATAATAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT
* * **
207967 ATGGGGGTAT-TTCGGTCATTTTACCCTATGGGGGTATTTCGAACATTTTACCCT
1 ATGGGGGTATAAT-AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT
* * * *
208021 ACGGGGGTATTTCCGGTAA-AATCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCCT
1 ATGGGGGTA-------TAATAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT
* ** * * * * *
208081 ACGAAGGTAT-TTCGTTTATTTTACCTTATGAGGGTATTTCGGTCATTTTACCCT
1 ATGGGGGTATAATAG-TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT
*
208135 ATGGGGGTATTAA-AGTCATTTTACCCTATGGGGATATTTCGGTCA
1 ATGGGGGTA-TAATAGTCATTTTACCCTATGGGGGTATTTCGGTCA
208180 CTATTTCAGC
Statistics
Matches: 171, Mismatches: 29, Indels: 26
0.76 0.13 0.12
Matches are distributed among these distances:
53 2 0.01
54 124 0.73
55 2 0.01
60 42 0.25
61 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (54 bp):
ATGGGGGTATAATAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT
Found at i:208128 original size:114 final size:114
Alignment explanation
Indices: 207928--208145 Score: 328
Period size: 114 Copynumber: 1.9 Consensus size: 114
207918 GGTATAATAG
* * * **
207928 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCCTACGAAGGTATTTCGGTCATTTTACCC
*
207993 TATGGGGGTATTTCGAACATTTTACCCTACGGGGGTATTTCCGGTAAAA
66 TATGAGGGTATTTCGAACATTTTACCCTACGGGGGTATTTCCGGTAAAA
* * *
208042 TCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCCTACGAAGGTATTTCGTTTATTTTACCT
1 TCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCCTACGAAGGTATTTCGGTCATTTTACCC
** *
208107 TATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
66 TATGAGGGTATTTCGAACATTTTACCCTACGGGGGTATT
208146 AAAGTCATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 92 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (114 bp):
TCATTTTACCCTACGAGGGTATTTCGGTCATTTTACCCTACGAAGGTATTTCGGTCATTTTACCC
TATGAGGGTATTTCGAACATTTTACCCTACGGGGGTATTTCCGGTAAAA
Found at i:211454 original size:27 final size:27
Alignment explanation
Indices: 211424--211665 Score: 143
Period size: 27 Copynumber: 9.0 Consensus size: 27
211414 TAGGGCAAAT
* *
211424 CAGTCATTTTATCTTACAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
**
211451 CAGTCATTTTACCCTATGGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
* * *
211478 CAGTCATTTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTACAGGGGTATTA
** * * *
211505 TGGTCATTTCACCCTA-TGGGTGTATTT
1 CAGTCATTTTACCCTACAGGG-GTATTA
** * * * *
211532 TGGTCATTTCACCCTA-TGAGGATATTT
1 CAGTCATTTTACCCTACAG-GGGTATTA
*
211559 CAGTCATTTTACCCTA-TGGGTGTACTT-
1 CAGTCATTTTACCCTACAGGG-GTA-TTA
* * *
211586 CGGTCATTTTACCCTA-TGAGGGTATTT
1 CAGTCATTTTACCCTACAG-GGGTATTA
** * **
211613 TGGTCATTTTATCCTATGGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
* *
211640 CAGTCATTTTACCCTATAGGGATATT
1 CAGTCATTTTACCCTACAGGGGTATT
211666 TCGATCACTA
Statistics
Matches: 181, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.03
27 168 0.93
28 7 0.04
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAGGGGTATTA
Found at i:211487 original size:54 final size:54
Alignment explanation
Indices: 211424--211655 Score: 245
Period size: 54 Copynumber: 4.3 Consensus size: 54
211414 TAGGGCAAAT
* * *
211424 CAGTCATTTTATCTTACAG-GGGTATTACAGTCATTTTACCCTATGGGGGTATTA
1 CAGTCATTTTACCCTA-AGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTA
** * * *
211478 CAGTCATTTTACCCTATA-AGGGTATTTTGGTCATTTCACCCTATGGGTGTATTT
1 CAGTCATTTTACCCTA-AGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTA
** * * * *
211532 TGGTCATTTCACCCTATGAGGATATTTCAGTCATTTTACCCTATGGGTGTACTT-
1 CAGTCATTTTACCCTAAGAGGGTATTTCAGTCATTTTACCCTATGGGGGTA-TTA
* * ** *
211586 CGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTATCCTATGGGGGTATTA
1 CAGTCATTTTACCCTAAGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTA
211640 CAGTCATTTTACCCTA
1 CAGTCATTTTACCCTA
211656 TAGGGATATT
Statistics
Matches: 149, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.01
54 145 0.97
55 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (54 bp):
CAGTCATTTTACCCTAAGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTA
Found at i:211563 original size:81 final size:80
Alignment explanation
Indices: 211453--211668 Score: 308
Period size: 81 Copynumber: 2.7 Consensus size: 80
211443 GGGTATTACA
*
211453 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATAAGGGTATTTTGGTCATTTCACC
1 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTAT-AGGGTATTTCGGTCATTTCACC
211518 CTATG-GGTGTATTTTG
65 CTATGAGG-GTATTTTG
* * * * * * *
211534 GTCATTTCACCCTATGAGGATATTTCAGTCATTTTACCCTATGGGTGTACTTCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATAGG-GTATTTCGGTCATTTCACC
211599 CTATGAGGGTATTTTG
65 CTATGAGGGTATTTTG
*
211615 GTCATTTTATCCTATGGGGGTATTACAGTCATTTTACCCTATAGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATAGGG-TATTTCG
211669 ATCACTATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.03
81 112 0.96
82 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATAGGGTATTTCGGTCATTTCACCC
TATGAGGGTATTTTG
Found at i:211656 original size:54 final size:54
Alignment explanation
Indices: 211453--211666 Score: 279
Period size: 54 Copynumber: 4.0 Consensus size: 54
211443 GGGTATTACA
*
211453 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATGAGGGTATTTTG
* * *** * * **
211507 GTCATTTCACCCTATGGGTGTATTTTGGTCATTTCACCCTATGAGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATGAGGGTATTTTG
* *
211561 GTCATTTTACCCTATGGGTGTACTT-CGGTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTA-TTACAGTCATTTTACCCTATGAGGGTATTTTG
*
211615 GTCATTTTATCCTATGGGGGTATTACAGTCATTTTACCCTAT-AGGGATATTT
1 GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATGAGGG-TATTT
211667 CGATCACTAT
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
53 6 0.04
54 130 0.94
55 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTACAGTCATTTTACCCTATGAGGGTATTTTG
Found at i:215025 original size:27 final size:27
Alignment explanation
Indices: 214985--215314 Score: 382
Period size: 27 Copynumber: 12.3 Consensus size: 27
214975 TTATCTTACA
* **
214985 GGGTATTACAGTCATTTTACCCTATAA
1 GGGTATTTCAGTCATTTTACCCTATGG
* *
215012 GGGTATTTCGGTCATTTCACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
* ** **
215039 GTGTATTTTGGTCATTTTACCCTATAA
1 GGGTATTTCAGTCATTTTACCCTATGG
* * *
215066 GGGTATTTCGGTCATTTTATCCTATGA
1 GGGTATTTCAGTCATTTTACCCTATGG
* *
215093 AGGTAGTTT-GGTCATTTTACCCTAT-G
1 GGGTA-TTTCAGTCATTTTACCCTATGG
*
215119 GGGTATTTCAGTCATTTTA-CCTAATGA
1 GGGTATTTCAGTCATTTTACCCT-ATGG
* *
215146 GGATATTACAGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
215173 GGGTATTTC-GATCATTTTACCCTAT-G
1 GGGTATTTCAG-TCATTTTACCCTATGG
* **
215199 GGGTATTACAGTCATTTTACTGTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
215226 GGGTATTTCAGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
**
215253 GGGTATTTTGGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
*
215280 GGGTATTACAGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
215307 GGGTATTT
1 GGGTATTT
215315 TGATCACTAT
Statistics
Matches: 258, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
25 6 0.02
26 37 0.14
27 209 0.81
28 6 0.02
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCTATGG
Found at i:215170 original size:80 final size:80
Alignment explanation
Indices: 214966--215313 Score: 407
Period size: 80 Copynumber: 4.3 Consensus size: 80
214956 GTAGGGCAAA
* *
214966 TCAGTCATTTTATCTTA-CAGGGTATTACAGTCATTTTACCCTAT-AAGGGTATTTCGGTCATTT
1 TCAGTCATTTTACCTTATGAGGGTATTACAGTCATTTTACCCTATGAA-GGTATTTCGGTCATTT
*
215029 CACCCTATGGGTGTATT
65 TACCCTATGGG-GTATT
** * * * * *
215046 TTGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATCCTATGAAGGTAGTTT-GGTCATTT
1 TCAGTCATTTTACCTTATGAGGGTATTACAGTCATTTTACCCTATGAAGGTA-TTTCGGTCATTT
215110 TACCCTATGGGGTATT
65 TACCCTATGGGGTATT
* * ** *
215126 TCAGTCATTTTACCTAATGAGGATATTACAGTCATTTTACCCTATGGGGGTATTTCGATCATTTT
1 TCAGTCATTTTACCTTATGAGGGTATTACAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTT
215191 ACCCTATGGGGTATT
66 ACCCTATGGGGTATT
* * * ** *
215206 ACAGTCATTTTA-CTGTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTTGGTCATTT
1 TCAGTCATTTTACCT-TATGAGGGTATTACAGTCATTTTACCCTATGAAGGTATTTCGGTCATTT
215270 TACCCTATGGGGGTATT
65 TACCCTAT-GGGGTATT
* * *
215287 ACAGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCTTATGAGGGTATT
215314 TTGATCACTA
Statistics
Matches: 232, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
79 5 0.02
80 144 0.62
81 77 0.33
82 6 0.03
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (80 bp):
TCAGTCATTTTACCTTATGAGGGTATTACAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTT
ACCCTATGGGGTATT
Found at i:215306 original size:107 final size:106
Alignment explanation
Indices: 214966--215313 Score: 405
Period size: 107 Copynumber: 3.2 Consensus size: 106
214956 GTAGGGCAAA
* * ** * * *
214966 TCAGTCATTTTATCTTACAGGGTATTACAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTCA
1 TCAGTCATTTTACCCTATGGGGTATTACAGTCATTTTACCCTAT-GGGGTATTTCAGTCATTTTA
* **
215031 CCCTATGGGTGTATTTTGGTCATTTTACCCTATAAGGGTATT
65 CCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATT
* * * **
215073 TCGGTCATTTTATCCTATGAAGGTAGTT-TGGTCATTTTACCCTATGGGGTATTTCAGTCATTTT
1 TCAGTCATTTTACCCTATG-GGGTA-TTACAGTCATTTTACCCTATGGGGTATTTCAGTCATTTT
* * ***
215137 A-CCTAATGAGGATATTACAGTCATTTTACCCTATGGGGGTATT
64 ACCCT-ATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATT
**
215180 TC-GATCATTTTACCCTATGGGGTATTACAGTCATTTTACTGTATGGGGGTATTTCAGTCATTTT
1 TCAG-TCATTTTACCCTATGGGGTATTACAGTCATTTTACCCTAT-GGGGTATTTCAGTCATTTT
215244 ACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATT
64 ACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATT
*
215287 ACAGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTAT-GGGGTATT
215314 TTGATCACTA
Statistics
Matches: 202, Mismatches: 30, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
105 2 0.01
106 21 0.10
107 146 0.72
108 31 0.15
109 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (106 bp):
TCAGTCATTTTACCCTATGGGGTATTACAGTCATTTTACCCTATGGGGTATTTCAGTCATTTTAC
CCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATT
Found at i:223373 original size:47 final size:47
Alignment explanation
Indices: 223304--223399 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
223294 AGTTAAATAT
*
223304 TTATCATACAATTCAAATAATAATAACAAGATCCGTCTTGGGTTTCA
1 TTATCATACAATTCAAATAATAATAACAAGATCCGTCTTAGGTTTCA
*
223351 TTATCATACAATTCAGATAATAATAACAAGATCCGTCTTAGGTTTCA
1 TTATCATACAATTCAAATAATAATAACAAGATCCGTCTTAGGTTTCA
223398 TT
1 TT
223400 CCCCTTAGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (47 bp):
TTATCATACAATTCAAATAATAATAACAAGATCCGTCTTAGGTTTCA
Found at i:230917 original size:71 final size:70
Alignment explanation
Indices: 230780--230921 Score: 194
Period size: 71 Copynumber: 2.0 Consensus size: 70
230770 AGCGTATATG
*
230780 CTGTATTGTGTAATACAATAGTCCGCCGTATAGACAGGTTACAGTTAAACTGCCAGAACAGATAA
1 CTGTATTGTGTAATACAATAGTCCGCCATATAGACAGGTTACAGTTAAACTGCCAGAACAGATAA
230845 TAGTA
66 TAGTA
* ** * ** * *
230850 CTGTATTGTGTAATGCGGTAGTCTGCCATATAGATGGGGTTGCAGTTAAACTGCCAGACCAGATA
1 CTGTATTGTGTAATACAATAGTCCGCCATATAGA-CAGGTTACAGTTAAACTGCCAGAACAGATA
230915 ATAGTA
65 ATAGTA
230921 C
1 C
230922 GCAACAAAGC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
70 29 0.47
71 33 0.53
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (70 bp):
CTGTATTGTGTAATACAATAGTCCGCCATATAGACAGGTTACAGTTAAACTGCCAGAACAGATAA
TAGTA
Found at i:232460 original size:25 final size:27
Alignment explanation
Indices: 232429--232489 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
232419 AGTTAGTAAA
*
232429 AAAAATATATAC-ACA-ATATAGTATT
1 AAAAATATACACAACATATATAGTATT
* * *
232454 AAGAATATACACAACATGTATGGTATT
1 AAAAATATACACAACATATATAGTATT
232481 AAAAATATA
1 AAAAATATA
232490 GTATTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 10 0.34
26 3 0.10
27 16 0.55
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAAATATACACAACATATATAGTATT
Found at i:232574 original size:27 final size:26
Alignment explanation
Indices: 232531--232589 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
232521 TATTGATTAA
* *
232531 AAAATGCTAATACTAATA-ATAGTAGT
1 AAAATACTAATAATAATAGATA-TAGT
232557 AAAATACTAATAAATAATAGATATAGT
1 AAAATACTAAT-AATAATAGATATAGT
*
232584 ATAATA
1 AAAATA
232590 ATGAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.36
27 15 0.54
28 3 0.11
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATACTAATAATAATAGATATAGT
Found at i:232787 original size:3 final size:3
Alignment explanation
Indices: 232781--232816 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
232771 CACACTACTA
232781 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
232817 AATATAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:233600 original size:28 final size:27
Alignment explanation
Indices: 233540--233598 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
233530 AAGGCCAAAA
*
233540 TTTTTTAAAAATAATCACTTTCTCATC
1 TTTTTTAAAAAAAATCACTTTCTCATC
*
233567 TGTTTTAAAAAAAATCACCTTTCT--TC
1 TTTTTTAAAAAAAATCA-CTTTCTCATC
233593 TTTTTT
1 TTTTTT
233599 TTTCTCTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.25
27 15 0.54
28 6 0.21
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.51
Consensus pattern (27 bp):
TTTTTTAAAAAAAATCACTTTCTCATC
Found at i:233729 original size:10 final size:10
Alignment explanation
Indices: 233714--233738 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
233704 ATTTTTTATC
233714 TATATCTATA
1 TATATCTATA
233724 TATATCTATA
1 TATATCTATA
233734 TATAT
1 TATAT
233739 ATGCTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATCTATA
Found at i:234562 original size:21 final size:21
Alignment explanation
Indices: 234538--234585 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
234528 TGTAAAAAAG
* *
234538 GGCACATGACCGTGTGCCTGC
1 GGCACATGACCGTGTGACTGA
*
234559 GGCACATGCCCGTGTGACTGA
1 GGCACATGACCGTGTGACTGA
234580 GGCACA
1 GGCACA
234586 CACCTATGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (21 bp):
GGCACATGACCGTGTGACTGA
Found at i:239195 original size:27 final size:27
Alignment explanation
Indices: 239156--239376 Score: 181
Period size: 27 Copynumber: 8.2 Consensus size: 27
239146 ATTATAGTTT
* * * **
239156 TACCCTCGATTTATAAAGTTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
239183 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
239210 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
239237 TACCCTTAGTTTACAACATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * ** *
239264 TACCCCTAGTTTGCAAAATTATCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
239291 TACCCCTAGTTTGTAAAATTGCCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* ** * * *
239318 TACCCCTAATTTTTGAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
** *
239345 TACCCTTGACTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
239372 TACCC
1 TACCC
239377 CTAATTTACA
Statistics
Matches: 162, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:239265 original size:81 final size:81
Alignment explanation
Indices: 239180--239379 Score: 258
Period size: 81 Copynumber: 2.5 Consensus size: 81
239170 AAAGTTACTG
* * *
239180 AAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTT
1 AAATACCCTTGGTTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTA
239244 AGTTTACAACATTACCA
66 AGTTTACAA-ATTACCA
* * * *
239261 AAATACCCCTAGTTTGCAAAATTATCAAAATACCCCTAGTTTGTAAAATTGCCAAAATACCCCTA
1 AAATACCCTTGGTTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTA
* ** *
239326 ATTTTTGAAATTACTA
66 AGTTTACAAATTACCA
** *
239342 AAATACCCTTGACTTGTAAAATTACCAAAATACCCCTA
1 AAATACCCTTGGTTTGCAAAATTACCAAAATACCCCTA
239380 ATTTACAGAA
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 91 0.90
82 10 0.10
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (81 bp):
AAATACCCTTGGTTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTA
AGTTTACAAATTACCA
Found at i:239391 original size:27 final size:27
Alignment explanation
Indices: 239180--239394 Score: 209
Period size: 27 Copynumber: 8.0 Consensus size: 27
239170 AAAGTTACTG
* *
239180 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCCTAGTTTACAAAATTACCA
* **
239207 AAATACCCCTGGTTTGTAAAATTACCA
1 AAATACCCCTAGTTTACAAAATTACCA
* *
239234 AAATACCCTTAGTTTACAACATTACCA
1 AAATACCCCTAGTTTACAAAATTACCA
* *
239261 AAATACCCCTAGTTTGCAAAATTATCA
1 AAATACCCCTAGTTTACAAAATTACCA
** *
239288 AAATACCCCTAGTTTGTAAAATTGCCA
1 AAATACCCCTAGTTTACAAAATTACCA
* *** *
239315 AAATACCCCTAATTTTTGAAATTACTA
1 AAATACCCCTAGTTTACAAAATTACCA
* *
239342 AAATACCCTTGACTTGT--AAAATTACCA
1 AAATACCCCT-AGTT-TACAAAATTACCA
* *
239369 AAATACCCCTAATTTACAGAATTACC
1 AAATACCCCTAGTTTACAAAATTACC
239395 GTTTTACTCT
Statistics
Matches: 157, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.01
26 3 0.02
27 149 0.95
28 3 0.02
29 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATACCCCTAGTTTACAAAATTACCA
Found at i:239410 original size:27 final size:27
Alignment explanation
Indices: 239380--239571 Score: 222
Period size: 27 Copynumber: 7.1 Consensus size: 27
239370 AATACCCCTA
* * *
239380 ATTTACAGAATTACCGTTTTACTCTTG
1 ATTTACAGAATTACCATTTTACCCTCG
**
239407 ATTTACAGAATTATTATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* * *
239434 ATTTATAGATTTACTATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* **
239461 ATTTATAGAATTACCATTTTACCCTTT
1 ATTTACAGAATTACCATTTTACCCTCG
** * *
239488 ATTTACAGAATTACTGTTTTACCTTTG
1 ATTTACAGAATTACCATTTTACCCTCG
* *
239515 AGTTACAGAATTATCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
*
239542 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
239569 ATT
1 ATT
239572 GTGAAATTAC
Statistics
Matches: 139, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (27 bp):
ATTTACAGAATTACCATTTTACCCTCG
Found at i:239457 original size:81 final size:81
Alignment explanation
Indices: 239380--239571 Score: 260
Period size: 81 Copynumber: 2.4 Consensus size: 81
239370 AATACCCCTA
* * * * *
239380 ATTTACAGAATTACCGTTTTACTCTTGATTTACAGAATTATTATTTTACCCTCGATTTATAGATT
1 ATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGAGTTACAGAAT
239445 TA-CTATTTTACCCTCG
66 TATC-ATTTTACCCTCG
* * * * * *
239461 ATTTATAGAATTACCATTTTACCCTTTATTTACAGAATTACTGTTTTACCTTTGAGTTACAGAAT
1 ATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGAGTTACAGAAT
239526 TATCATTTTACCCTCG
66 TATCATTTTACCCTCG
*
239542 ATTTACAGAATTACCGTTTTACCCTCGATT
1 ATTTACAGAATTACCGTTTTACCCTTGATT
239572 GTGAAATTAC
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 94 0.99
82 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (81 bp):
ATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGAGTTACAGAAT
TATCATTTTACCCTCG
Found at i:239606 original size:27 final size:27
Alignment explanation
Indices: 239576--239714 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
239566 TCGATTGTGA
* *
239576 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
239603 AATTATCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
239630 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
239657 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
239684 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
239711 AATT
1 AATT
239715 TCCATTTTGC
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:239979 original size:27 final size:26
Alignment explanation
Indices: 239941--240023 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
239931 TGGATGAAGC
*
239941 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
239968 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
239994 GTATATGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
240021 GTT
1 GTT
240024 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:240099 original size:20 final size:20
Alignment explanation
Indices: 240074--240114 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
240064 TGTGTGCTAT
240074 TATTGTGGGA-TTCGTATCGA
1 TATTGT-GGACTTCGTATCGA
*
240094 TATTGTGGACTTCGTGTCGA
1 TATTGTGGACTTCGTATCGA
240114 T
1 T
240115 TATAGACCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.17, C:0.12, G:0.29, T:0.41
Consensus pattern (20 bp):
TATTGTGGACTTCGTATCGA
Found at i:250592 original size:34 final size:33
Alignment explanation
Indices: 250487--250592 Score: 103
Period size: 34 Copynumber: 3.2 Consensus size: 33
250477 ATAATAATGC
* * *
250487 TAGAGATATTTTGA-TATTTTATAATTATTTAAT
1 TAGATATATTTT-ATTATTTTATTATTATTTTAT
* *
250520 TAGATA-A--ATATTATTTTATTAATATTTTAAT
1 TAGATATATTTTATTATTTTATTATTATTTT-AT
*
250551 AAGATATATTTTATTATTTTATTATTATTTTAT
1 TAGATATATTTTATTATTTTATTATTATTTTAT
250584 TAGTATATA
1 TAG-ATATA
250593 AAGAAAGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
29 1 0.02
30 15 0.26
31 7 0.12
32 2 0.03
33 9 0.16
34 24 0.41
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (33 bp):
TAGATATATTTTATTATTTTATTATTATTTTAT
Found at i:257030 original size:10 final size:9
Alignment explanation
Indices: 257014--257055 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
257004 TATATTATAA
*
257014 TAAAAATAT
1 TAAAAAAAT
257023 T-AAAAAAT
1 TAAAAAAAT
*
257031 TAAAAAAAA
1 TAAAAAAAT
257040 TAGAAAAAAT
1 TA-AAAAAAT
257050 TAAAAA
1 TAAAAA
257056 TTGTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
10 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:257228 original size:20 final size:20
Alignment explanation
Indices: 257203--257257 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
257193 GACATGTAGC
*
257203 AAAAATTAAAAAATATATAT
1 AAAAATTAAAAAATATATAG
* * *
257223 AAAAATCAATAAAATTTATGG
1 AAAAATTAA-AAAATATATAG
*
257244 AAAAATTATAAAAT
1 AAAAATTAAAAAAT
257258 GCTTCTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATTAAAAAATATATAG
Found at i:257383 original size:20 final size:20
Alignment explanation
Indices: 257333--257385 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
257323 AATTTAATAT
* *
257333 TTTTTACGATTTTCATGAAA
1 TTTTTACGATTTTTATAAAA
*
257353 -TTTTACAATTTTTATAAAA
1 TTTTTACGATTTTTATAAAA
*
257372 TTTTTATGATTTTT
1 TTTTTACGATTTTT
257386 GTATTTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (20 bp):
TTTTTACGATTTTTATAAAA
Found at i:257718 original size:85 final size:86
Alignment explanation
Indices: 257543--257722 Score: 204
Period size: 85 Copynumber: 2.1 Consensus size: 86
257533 ATTAAGGGCG
257543 GTTCAAGTACCCAATTGAGTGCAAAAAAAGGCAGGGTCTTAATTGGTTTTTTGAAAAAATTTGAT
1 GTTCAAGTACCCAATTGAGTGCAAAAAAA-G-AGGGTCTTAATTGGTTTTTTGAAAAAATTTGAT
* * *
257608 GGCCTTTTTTATACATTTTGAAA
64 GGCCTTTTTGATAAATTGTGAAA
* * * * * * *
257631 GTTCAAGTGCCTAATTGAGTGCAAAAAAA-AGTG-CTTAATTGCTTTTTTTTAAGAAGTTTGA-G
1 GTTCAAGTACCCAATTGAGTGCAAAAAAAGAGGGTCTTAATTG-GTTTTTTGAAAAAATTTGATG
*
257693 GATCTTTTTGATAAATTGTGAAA
65 G-CCTTTTTGATAAATTGTGAAA
257716 GTTCAAG
1 GTTCAAG
257723 CACTGAAGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
84 10 0.13
85 42 0.53
88 27 0.34
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (86 bp):
GTTCAAGTACCCAATTGAGTGCAAAAAAAGAGGGTCTTAATTGGTTTTTTGAAAAAATTTGATGG
CCTTTTTGATAAATTGTGAAA
Done.