Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014801.1 Kokia drynarioides strain JFW-HI SEQ_129843, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 399286
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 406 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:857 original size:37 final size:38
Alignment explanation
Indices: 786--921 Score: 148
Period size: 38 Copynumber: 3.6 Consensus size: 38
776 AATTGCATAG
* ***
786 GTGTTCGCATAACAATGTTCATGGACAGATTATCA-AA
1 GTGTTCGCATAACAAGGTTCGCAGACAGATTATCACAA
* * *
823 GGGTTCGCATAACAAGGTTCGCAGTCAGAATATCACAA
1 GTGTTCGCATAACAAGGTTCGCAGACAGATTATCACAA
* * * *
861 GTGTTTGCATAACAATGCTCGCTGACAGATTATCACAA
1 GTGTTCGCATAACAAGGTTCGCAGACAGATTATCACAA
* *
899 GTGTTTGCATAACAAGGATCGCA
1 GTGTTCGCATAACAAGGTTCGCA
922 AAGCGTTCAC
Statistics
Matches: 81, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
37 28 0.35
38 53 0.65
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (38 bp):
GTGTTCGCATAACAAGGTTCGCAGACAGATTATCACAA
Found at i:7163 original size:2 final size:2
Alignment explanation
Indices: 7156--7180 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7146 GTCATTAAAA
7156 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
7181 ATAAAACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14008 original size:67 final size:67
Alignment explanation
Indices: 13932--14071 Score: 262
Period size: 67 Copynumber: 2.1 Consensus size: 67
13922 GAATTTTTCA
13932 AATAATTATTTCTCAAATTCAAGTTGAATTTTAAAACTTGAATAATTTAAATAATTCTAATAACT
1 AATAATTATTTCTCAAATTCAAGTTGAATTTTAAAACTTGAATAATTTAAATAATTCTAATAACT
13997 CG
66 CG
* *
13999 ATTAATTATTTTTCAAATTCAAGTTGAATTTTAAAACTTGAATAATTTAAATAATTCTAATAACT
1 AATAATTATTTCTCAAATTCAAGTTGAATTTTAAAACTTGAATAATTTAAATAATTCTAATAACT
14064 CG
66 CG
14066 AATAAT
1 AATAAT
14072 AAATTAATGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (67 bp):
AATAATTATTTCTCAAATTCAAGTTGAATTTTAAAACTTGAATAATTTAAATAATTCTAATAACT
CG
Found at i:17001 original size:5 final size:5
Alignment explanation
Indices: 16993--17017 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16983 TTTTGGGCTT
16993 GTTTG GTTTG GTTTG GTTTG GTTTG
1 GTTTG GTTTG GTTTG GTTTG GTTTG
17018 ATGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (5 bp):
GTTTG
Found at i:21804 original size:77 final size:77
Alignment explanation
Indices: 21677--21832 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 77
21667 AGGTGGGGGG
21677 TTAACTCTAACTCCGCACATCTCTTATGAAGATAATACATACATTCATTGCAGCCATAGCTTGGA
1 TTAACTCTAACTCCGCACATCTCTTATGAAGATAATACATACATTCATTGCAGCCATAGCTTGGA
21742 GCATATATAAGT
66 GCATATATAAGT
*
21754 TTAACTCTAACTCCGCACATCTCTTATGAAGATAATACTTACATTCATTGCAGCCATAGCTTGGA
1 TTAACTCTAACTCCGCACATCTCTTATGAAGATAATACATACATTCATTGCAGCCATAGCTTGGA
21819 GCATATATAAGT
66 GCATATATAAGT
21831 TT
1 TT
21833 CCCACACCCA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (77 bp):
TTAACTCTAACTCCGCACATCTCTTATGAAGATAATACATACATTCATTGCAGCCATAGCTTGGA
GCATATATAAGT
Found at i:22889 original size:18 final size:20
Alignment explanation
Indices: 22868--22907 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
22858 ATTTAAAAGT
22868 TATAAAA-TTCA-AAAAATA
1 TATAAAAGTTCATAAAAATA
*
22886 TATAAAAGTTCATAAAACTA
1 TATAAAAGTTCATAAAAATA
22906 TA
1 TA
22908 ATAGAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (20 bp):
TATAAAAGTTCATAAAAATA
Found at i:26136 original size:2 final size:2
Alignment explanation
Indices: 26129--26154 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26119 TTTTTCAAAC
26129 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26155 TTGAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28151 original size:18 final size:19
Alignment explanation
Indices: 28080--28140 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
28070 ATAATCTTCA
28080 AAAAAT-TAAAATATT-TAT
1 AAAAATCTAAAA-ATTATAT
28098 ACAAAA--TAAAAATTATAT
1 A-AAAATCTAAAAATTATAT
*
28116 AAAACTCTAAAAATTATAT
1 AAAAATCTAAAAATTATAT
28135 AAAAAT
1 AAAAAT
28141 GTTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 6 0.16
18 10 0.27
19 21 0.57
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATCTAAAAATTATAT
Found at i:29324 original size:56 final size:56
Alignment explanation
Indices: 29207--29325 Score: 159
Period size: 56 Copynumber: 2.1 Consensus size: 56
29197 GGCTTCAGGG
* * *
29207 GACACACGGGTTGGGAACACGAACATGTGTCAAACCGTGTGTGCATACTGTTTTGT
1 GACACACGGGTGGGGAACACGAACATGTGTCAAACCGTGTGTGAATACTGTCTTGT
* ** *
29263 GACACACGGGTGGGGCACACGGGCATGTGTCAAACCGTGTGTGAATATTGTCTTG-
1 GACACACGGGTGGGGAACACGAACATGTGTCAAACCGTGTGTGAATACTGTCTTGT
29318 GAACACAC
1 G-ACACAC
29326 AGTCTAGACA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 1 0.02
56 54 0.98
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (56 bp):
GACACACGGGTGGGGAACACGAACATGTGTCAAACCGTGTGTGAATACTGTCTTGT
Found at i:29338 original size:56 final size:56
Alignment explanation
Indices: 29230--29347 Score: 132
Period size: 56 Copynumber: 2.1 Consensus size: 56
29220 GGAACACGAA
* * * * * *
29230 CATGTGTCAAACCGTGTGTGCATACTGTTTTGTGACACACGGGTGGGGCACACGGG
1 CATGTGTCAAACCGTGTGTGAATACTGTCTTGTGACACACGAGTGAGACACACAGG
* *
29286 CATGTGTCAAACCGTGTGTGAATATTGTCTTG-GAACACAC-AGTCTAGACACACAGG
1 CATGTGTCAAACCGTGTGTGAATACTGTCTTGTG-ACACACGAGT-GAGACACACAGG
29342 CATGTG
1 CATGTG
29348 CTAGACTGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
55 3 0.06
56 49 0.94
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (56 bp):
CATGTGTCAAACCGTGTGTGAATACTGTCTTGTGACACACGAGTGAGACACACAGG
Found at i:29702 original size:40 final size:40
Alignment explanation
Indices: 29648--29758 Score: 168
Period size: 40 Copynumber: 2.8 Consensus size: 40
29638 TAGTATAATT
* * *
29648 ACTGAATTGACAGTGACACTGTAAACACTGCAATATTATA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATTATA
*
29688 ACTGAACTGGCAGTGACACTGTAAACACTACAAGATTATA
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATTATA
* *
29728 ACTGAACTGGCAGGGATACTGTAAACACTGC
1 ACTGAACTGGCAGTGACACTGTAAACACTGC
29759 GATGTGTCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (40 bp):
ACTGAACTGGCAGTGACACTGTAAACACTGCAAGATTATA
Found at i:44402 original size:17 final size:17
Alignment explanation
Indices: 44370--44403 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44360 ATATTTTTCA
* *
44370 TTTAAATTCATTAAAAT
1 TTTAAATTAATAAAAAT
44387 TTTAAATTAATAAAAAT
1 TTTAAATTAATAAAAAT
44404 AAAATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTAAATTAATAAAAAT
Found at i:47136 original size:27 final size:26
Alignment explanation
Indices: 47106--47177 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
47096 ATTATATAAT
47106 TTATATTTTAATTATTAATAAATTAT-A
1 TTATATTTT--TTATTAATAAATTATCA
* *
47133 -T-TATTTTTTATAAATAATTTATCA
1 TTATATTTTTTATTAATAAATTATCA
*
47157 TGATATTTTTTATTAATAAAT
1 TTATATTTTTTATTAATAAAT
47178 ACAATGGAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 13 0.35
24 1 0.03
25 6 0.16
26 17 0.46
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (26 bp):
TTATATTTTTTATTAATAAATTATCA
Found at i:47143 original size:23 final size:23
Alignment explanation
Indices: 47094--47177 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
47084 TTAAAAAATA
* **
47094 TTATTATATAATTTATATT-TTAA
1 TTATTA-ATAAATTATATTATTTT
47117 TTATTAATAAATTATATTATTTT
1 TTATTAATAAATTATATTATTTT
* *
47140 TTATAAATAATTTATCATGATATTTT
1 TTATTAATAAATTAT-AT--TATTTT
47166 TTATTAATAAAT
1 TTATTAATAAAT
47178 ACAATGGAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
22 11 0.22
23 21 0.42
24 2 0.04
26 16 0.32
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (23 bp):
TTATTAATAAATTATATTATTTT
Found at i:58918 original size:3 final size:3
Alignment explanation
Indices: 58910--58936 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58900 TCTATCTTTT
58910 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
58937 AACACTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:66373 original size:4 final size:4
Alignment explanation
Indices: 66366--66390 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
66356 TGTGTGTGTG
66366 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
66391 ACACACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:67999 original size:14 final size:15
Alignment explanation
Indices: 67980--68008 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67970 TTAAAACAAT
67980 TTTTAA-TATTTTTA
1 TTTTAAGTATTTTTA
67994 TTTTAAGTATTTTTA
1 TTTTAAGTATTTTTA
68009 AATTTTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTAAGTATTTTTA
Found at i:68995 original size:30 final size:29
Alignment explanation
Indices: 68943--68999 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
68933 GTAGTCATTT
**
68943 AATTATTTTTTTATTATCTAATTATTATAA
1 AATTATTTTTCAATTATCTAATT-TTATAA
* *
68973 AATTATTTTTCAATTTTTTAATTTTAT
1 AATTATTTTTCAATTATCTAATTTTAT
69000 TTTTTGTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (29 bp):
AATTATTTTTCAATTATCTAATTTTATAA
Found at i:71843 original size:2 final size:2
Alignment explanation
Indices: 71836--71867 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
71826 AATTAGTGAA
71836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71868 TTGCTTTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75827 original size:6 final size:6
Alignment explanation
Indices: 75816--75840 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
75806 ATAAAAAGGA
75816 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
75841 ATATAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:85602 original size:48 final size:47
Alignment explanation
Indices: 85521--85626 Score: 178
Period size: 48 Copynumber: 2.3 Consensus size: 47
85511 CTACATTAGA
*
85521 AAATATTT-AAAAATTTAATTTTTTAGGAAACAATTTTCTCTTTTTG
1 AAATTTTTAAAAAATTTAATTTTTTAGGAAACAATTTTCTCTTTTTG
*
85567 AAATTTTTAAAAAATTTAATTTTTTTAGGAAACAATTTTTTCTTTTTG
1 AAATTTTTAAAAAATTTAA-TTTTTTAGGAAACAATTTTCTCTTTTTG
85615 AAATTTTTAAAA
1 AAATTTTTAAAA
85627 TTAAACTTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
46 7 0.12
47 10 0.18
48 39 0.70
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.51
Consensus pattern (47 bp):
AAATTTTTAAAAAATTTAATTTTTTAGGAAACAATTTTCTCTTTTTG
Found at i:86199 original size:10 final size:10
Alignment explanation
Indices: 86184--86227 Score: 63
Period size: 10 Copynumber: 4.3 Consensus size: 10
86174 TTTGAAATAT
86184 AGAAAGAAGA
1 AGAAAGAAGA
86194 AGAAAGAAGA
1 AGAAAGAAGA
86204 AGAAAGAAGCA
1 AGAAAGAAG-A
86215 A-AGAAGAAGA
1 AGA-AAGAAGA
86225 AGA
1 AGA
86228 CTTATGGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (10 bp):
AGAAAGAAGA
Found at i:102271 original size:31 final size:31
Alignment explanation
Indices: 102221--102301 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
102211 GTTTCTGGTG
* *
102221 TGTTTTTTTTTA-CTG-TTTTG-TGTTTTG-T
1 TGTTATTTTTTATCTGTTTTTGTTG-TTTGAA
102249 TGTTATTTTTTATGCTGTTTTTGTTGTTTGAA
1 TGTTATTTTTTAT-CTGTTTTTGTTGTTTGAA
*
102281 TGTTATTTTTTATATGTTTTT
1 TGTTATTTTTTATCTGTTTTT
102302 ACTATTGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 11 0.24
30 3 0.07
31 16 0.36
32 15 0.33
ACGTcount: A:0.10, C:0.02, G:0.16, T:0.72
Consensus pattern (31 bp):
TGTTATTTTTTATCTGTTTTTGTTGTTTGAA
Found at i:106436 original size:31 final size:31
Alignment explanation
Indices: 106401--106461 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
106391 ATTAATATAA
106401 ATTCAAAAT-AGATAAAATAAATCACCTCTAC
1 ATTCAAAATAAG-TAAAATAAATCACCTCTAC
106432 ATTCAAAATAAGTAAAATAAATCACCTCTA
1 ATTCAAAATAAGTAAAATAAATCACCTCTA
106462 GACAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (31 bp):
ATTCAAAATAAGTAAAATAAATCACCTCTAC
Found at i:107453 original size:18 final size:18
Alignment explanation
Indices: 107430--107469 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
107420 TTTAACATGC
107430 TAAATTGA-ATAATAAAAT
1 TAAATTGAGAT-ATAAAAT
*
107448 TAAATTGAGATATCAAAT
1 TAAATTGAGATATAAAAT
107466 TAAA
1 TAAA
107470 ATAAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (18 bp):
TAAATTGAGATATAAAAT
Found at i:113026 original size:15 final size:16
Alignment explanation
Indices: 112998--113039 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
112988 TTTAGTTTTA
112998 ATTATTTCAAATTTGG
1 ATTATTTCAAATTTGG
*
113014 GTTATTT-AAATTTGG
1 ATTATTTCAAATTTGG
113029 ATTATTATCAA
1 ATTATT-TCAA
113040 GTATTCCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
16 7 0.32
17 2 0.09
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (16 bp):
ATTATTTCAAATTTGG
Found at i:126985 original size:17 final size:17
Alignment explanation
Indices: 126965--126997 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
126955 AATGTGCATT
*
126965 TTGCTTTAAAGATGCTG
1 TTGCTTCAAAGATGCTG
126982 TTGCTTCAAAGATGCT
1 TTGCTTCAAAGATGCT
126998 ATTGTTGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (17 bp):
TTGCTTCAAAGATGCTG
Found at i:134341 original size:96 final size:95
Alignment explanation
Indices: 134164--134348 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 95
134154 GAAAAGGATG
** * *
134164 TTCGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCACAAATTTTTAGAATCGA
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTAAAGGCACAAATTTTGAGAATCGA
134229 AGATAAGGAAACATTGCCTCGATTAAGGGTA
66 AGATAAGG-AACATTGCCTCGATTAAGGGTA
* * *
134260 TTCGATTATTTCGATTTGAAGAAAAATTGCATCTAGTAAGTAAAGGCGCAAATTTTCGA-AACTC
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTAAAGGCACAAATTTT-GAGAA-TC
*
134324 GAA-ATAAAAGG-ATATTGCCTCGATT
64 GAAGAT--AAGGAACATTGCCTCGATT
134349 TTAAAGTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
96 67 0.87
97 6 0.08
98 4 0.05
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (95 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTAAAGGCACAAATTTTGAGAATCGA
AGATAAGGAACATTGCCTCGATTAAGGGTA
Found at i:134764 original size:88 final size:87
Alignment explanation
Indices: 134641--135086 Score: 523
Period size: 88 Copynumber: 5.1 Consensus size: 87
134631 AGTTCAAGGT
* * * *
134641 TAAAAATGGATTTTTTAGAGGTTCGAGGGT-AAAAATGGAATTTTTGGAAGTTTCGGGATCAAAA
1 TAAAAATGGAATTTTTGGAAGTTTGAGGGTCAAAAATGGAATTTTTGGAAGTTTCGGGATCAAAA
* *
134705 ATGGAATCTTTGGAGGTTCGGG
66 ATGGAATTTTTGGAAGTTCGGG
* * * * *
134727 TTAAAATAGAATTTTTGGAAGTCTCGGGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGAT-AAA
1 TAAAAATGGAATTTTTGGAAGT-TTGAGGGTCAAAAATGGAATTTTTGGAAGTTTCGGGATCAAA
*
134791 AATGGAATTTTTGGAAGTTTGGGGG
65 AATGGAATTTTTGGAAG-TT-CGGG
* * *
134816 TAAAAATGGAA-TTTTGGAAAATTTG-GGGTCAAAAATGGAATTTTTGAAAGTTTTGGTG-TC-A
1 TAAAAATGGAATTTTTGG-AAGTTTGAGGGTCAAAAATGGAATTTTTGGAAGTTTCGG-GATCAA
*
134877 AAATGGAATTTTTTGAAGTTCGAGG
64 AAATGGAATTTTTGGAAGTTCG-GG
* *
134902 ATAAAAATGGAATTTTTGGAAGTTTTAGGGTCAAAAATGGAA-TTTTGGAAGTTTTGGGATCAAA
1 -TAAAAATGGAATTTTTGGAAGTTTGAGGGTCAAAAATGGAATTTTTGGAAGTTTCGGGATCAAA
*
134966 AATGGAATCTTTGGAAGTTCGGGGG
65 AATGGAATTTTTGGAAGTTC--GGG
**
134991 TAAAAATGGAATTTTTGGAAGTTTGAGGGT-AAAAATGGAATTTTTGGAAGTTTCGAGG-TTGAA
1 TAAAAATGGAATTTTTGGAAGTTTGAGGGTCAAAAATGGAATTTTTGGAAGTTTCG-GGATCAAA
*
135054 AATGGAATTTTTGGAAGCTTGAGGG
65 AATGGAATTTTTGGAAG-TT-CGGG
135079 TAAAAATG
1 TAAAAATG
135087 TAAGTTTCGG
Statistics
Matches: 312, Mismatches: 29, Indels: 36
0.83 0.08 0.10
Matches are distributed among these distances:
85 1 0.00
86 22 0.07
87 115 0.37
88 152 0.49
89 21 0.07
90 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.34
Consensus pattern (87 bp):
TAAAAATGGAATTTTTGGAAGTTTGAGGGTCAAAAATGGAATTTTTGGAAGTTTCGGGATCAAAA
ATGGAATTTTTGGAAGTTCGGG
Found at i:135084 original size:117 final size:115
Alignment explanation
Indices: 134641--135086 Score: 517
Period size: 117 Copynumber: 3.8 Consensus size: 115
134631 AGTTCAAGGT
* * *
134641 TAAAAATGGATTTTTTAGAGGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCG-GGATCAAAA
1 TAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTT-GAGG-TCAAAA
* * * *
134705 ATGGAATCTTTGG-AGGTTCGGGT-TAAAATAGAATTTTTGGAAGTCTCGGGGG
64 ATGGAAT-TTTGGAAGTTTGGGGTCAAAAATGGAATTTTTGGAAGT-TCGGGGG
* *
134757 TCAAAAATGGAATTTTTGGAAGTT-TAGGGATAAAAATGGAATTTTTGGAAGTTTGGGGGT-AAA
1 T-AAAAATGGAATTTTTGGAAGTTCGAGGG-TAAAAATGGAATTTTTGGAAGTTT-GAGGTCAAA
* * ** *
134820 AATGGAATTTTGGAAAATTTGGGGTCAAAAATGGAATTTTTGAAAGTTTTGGTG
63 AATGGAATTTTGG-AAGTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGG
* * * *
134874 TCAAAATGGAATTTTTTGAAGTTCGAGGATAAAAATGGAATTTTTGGAAGTTTTAGGGTCAAAAA
1 TAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGA-GGTCAAAAA
* *
134939 TGGAATTTTGGAAGTTTTGGGATCAAAAATGGAATCTTTGGAAGTTCGGGGG
65 TGGAATTTTGGAAG-TTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGG
* **
134991 TAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGTTGAAAA
1 TAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTT-GAGGTCAAAAA
*
135056 TGGAATTTTTGGAAGCTTGAGGGT-AAAAATG
65 TGGAA-TTTTGGAAGTTTG-GGGTCAAAAATG
135087 TAAGTTTCGG
Statistics
Matches: 281, Mismatches: 36, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
115 5 0.02
116 65 0.23
117 178 0.63
118 33 0.12
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.34
Consensus pattern (115 bp):
TAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGAGGTCAAAAAT
GGAATTTTGGAAGTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGG
Found at i:135107 original size:29 final size:29
Alignment explanation
Indices: 134641--135086 Score: 469
Period size: 29 Copynumber: 15.3 Consensus size: 29
134631 AGTTCAAGGT
* * * *
134641 TAAAAATGGATTTTTTAGAGGTTCGAGGG
1 TAAAAATGGAATTTTTGGAAGTTTGAGGG
*
134670 TAAAAATGGAATTTTTGGAAGTTTCG-GGA
1 TAAAAATGGAATTTTTGGAAGTTT-GAGGG
* * *
134699 TCAAAAATGGAATCTTTGG-AGGTT-CGGG
1 T-AAAAATGGAATTTTTGGAAGTTTGAGGG
* * * *
134727 TTAAAATAGAATTTTTGGAAGTCTCGGGGG
1 TAAAAATGGAATTTTTGGAAGT-TTGAGGG
134757 TCAAAAATGGAATTTTTGGAAGTTT-AGGG
1 T-AAAAATGGAATTTTTGGAAGTTTGAGGG
*
134786 ATAAAAATGGAATTTTTGGAAGTTTGGGGG
1 -TAAAAATGGAATTTTTGGAAGTTTGAGGG
*
134816 TAAAAATGGAA-TTTTGGAAAATTTG-GGG
1 TAAAAATGGAATTTTTGG-AAGTTTGAGGG
* *
134844 TCAAAAATGGAATTTTTGAAAGTTTTG-GTG
1 T-AAAAATGGAATTTTTGGAAG-TTTGAGGG
* * * *
134874 TCAAAATGGAATTTTTTGAAGTTCGAGGA
1 TAAAAATGGAATTTTTGGAAGTTTGAGGG
*
134903 TAAAAATGGAATTTTTGGAAGTTTTAGGG
1 TAAAAATGGAATTTTTGGAAGTTTGAGGG
*
134932 TCAAAAATGGAA-TTTTGGAAGTTTTG-GGA
1 T-AAAAATGGAATTTTTGGAAG-TTTGAGGG
* * *
134961 TCAAAAATGGAATCTTTGGAAGTTCGGGGG
1 T-AAAAATGGAATTTTTGGAAGTTTGAGGG
134991 TAAAAATGGAATTTTTGGAAGTTTGAGGG
1 TAAAAATGGAATTTTTGGAAGTTTGAGGG
*
135020 TAAAAATGGAATTTTTGGAAGTTTCGAGGT
1 TAAAAATGGAATTTTTGGAAGTTT-GAGGG
* *
135050 TGAAAATGGAATTTTTGGAAGCTTGAGGG
1 TAAAAATGGAATTTTTGGAAGTTTGAGGG
135079 TAAAAATG
1 TAAAAATG
135087 TAAGTTTCGG
Statistics
Matches: 351, Mismatches: 47, Indels: 38
0.81 0.11 0.09
Matches are distributed among these distances:
27 14 0.04
28 18 0.05
29 212 0.60
30 88 0.25
31 19 0.05
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAAAATGGAATTTTTGGAAGTTTGAGGG
Found at i:137804 original size:14 final size:15
Alignment explanation
Indices: 137760--137802 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
137750 ATAATAATAA
137760 CAACAA-AAATATTT
1 CAACAACAAATATTT
137774 CAACCAACAAA-ATTT
1 CAA-CAACAAATATTT
137789 CAACAACAAATATT
1 CAACAACAAATATT
137803 CACAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.38
15 13 0.50
16 3 0.12
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (15 bp):
CAACAACAAATATTT
Found at i:137807 original size:13 final size:14
Alignment explanation
Indices: 137760--137798 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
137750 ATAATAATAA
137760 CAACAA-AAATATTT
1 CAACAACAAA-ATTT
137774 CAACCAACAAAATTT
1 CAA-CAACAAAATTT
137789 CAACAACAAA
1 CAACAACAAA
137799 TATTCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 10 0.43
16 3 0.13
ACGTcount: A:0.59, C:0.23, G:0.00, T:0.18
Consensus pattern (14 bp):
CAACAACAAAATTT
Found at i:153189 original size:31 final size:32
Alignment explanation
Indices: 153154--153216 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
153144 TTTATATTGA
153154 GATTG-TTAAAAAAAAACTCAAAATATATAGG
1 GATTGTTTAAAAAAAAACTCAAAATATATAGG
*
153185 GATTGTTTAAAAAAACACTCAAAATATATAGG
1 GATTGTTTAAAAAAAAACTCAAAATATATAGG
153217 ATTCAGTGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 5 0.17
32 25 0.83
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (32 bp):
GATTGTTTAAAAAAAAACTCAAAATATATAGG
Found at i:156116 original size:115 final size:114
Alignment explanation
Indices: 155950--156162 Score: 345
Period size: 115 Copynumber: 1.9 Consensus size: 114
155940 ATTAAAGTCT
* * *
155950 ATACTTGCTATGAGGTATCGACACTTTAGGGAGGATATCGATACTCGAACAATTTTTCTTTAATT
1 ATACTTGCTATGAGGTATCGACACCTTAGGGAGAATATCGATACTCAAACAATTTTTCTTTAATT
*
156015 TCCATAACATAGAAACTTAAAACAATATCGATACAATAAAGAATATATCA
66 TCCAAAACATAGAAACTT-AAACAATATCGATACAATAAAGAATATATCA
* * *
156065 ATACTTGCTATGAGGTATTGACACCTTGGGGAGAATATCTATACTCAAACAATTTTTCTTTAATT
1 ATACTTGCTATGAGGTATCGACACCTTAGGGAGAATATCGATACTCAAACAATTTTTCTTTAATT
*
156130 TCCAAAACATAGAAACTTAAACACTATCGATAC
66 TCCAAAACATAGAAACTTAAACAATATCGATAC
156163 CAAGCAAGGT
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
114 14 0.16
115 76 0.84
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (114 bp):
ATACTTGCTATGAGGTATCGACACCTTAGGGAGAATATCGATACTCAAACAATTTTTCTTTAATT
TCCAAAACATAGAAACTTAAACAATATCGATACAATAAAGAATATATCA
Found at i:157788 original size:32 final size:31
Alignment explanation
Indices: 157684--157790 Score: 83
Period size: 32 Copynumber: 3.4 Consensus size: 31
157674 TGGGTTTGAA
* * *
157684 GATTTT-GG-TTTCGGTTTAAAAAATGTGGG
1 GATTTTGGGATTTAGGTTTAAAAAATTTAGG
* * * * *
157713 GTATTTTGGGTTTTAGATTTCAAAATTTTTGG
1 G-ATTTTGGGATTTAGGTTTAAAAAATTTAGG
* *
157745 GAATTTGGGGATTTAGGTTTTAAAAATTTAGG
1 G-ATTTTGGGATTTAGGTTTAAAAAATTTAGG
157777 GATTTTCGGGATTT
1 GATTTT-GGGATTT
157791 TTAGGGTTGT
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
29 1 0.02
30 5 0.08
31 6 0.10
32 48 0.80
ACGTcount: A:0.24, C:0.03, G:0.27, T:0.46
Consensus pattern (31 bp):
GATTTTGGGATTTAGGTTTAAAAAATTTAGG
Found at i:172248 original size:23 final size:23
Alignment explanation
Indices: 172222--172265 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
172212 AAGCACATGA
172222 AGTGCGAAACAATAAGAACACAC
1 AGTGCGAAACAATAAGAACACAC
* * *
172245 AGTGTGAAACAGTAAGCACAC
1 AGTGCGAAACAATAAGAACAC
172266 TAGTGTTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (23 bp):
AGTGCGAAACAATAAGAACACAC
Found at i:172362 original size:24 final size:26
Alignment explanation
Indices: 172324--172371 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
172314 TCTACATGGA
172324 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
172350 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
172372 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:173955 original size:79 final size:79
Alignment explanation
Indices: 173819--174162 Score: 440
Period size: 79 Copynumber: 4.4 Consensus size: 79
173809 AAAACTTTGA
* * * * *
173819 GGCAAATTGAAGTAATCCAATCTTTTACCCTAATTAGAGGGCAAACTGAGGACCATCCGATCTCT
1 GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCATCCGATCTCT
* *
173884 TACCCCTACAATGG
66 TACCCCGACCATGG
* * * * *
173898 AGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGTGTAGATTAAGGACCATCCGATCTCT
1 GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCATCCGATCTCT
173963 TACCCCGACCATGG
66 TACCCCGACCATGG
* * * * * *
173977 GGTAGATTGAAGTAATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAA-GATCATCAGATCTC
1 GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAAAGGGCAAATT-AAGGACCATCCGATCTC
**
174041 TTACCCTAACCAT-G
65 TTACCCCGACCATGG
* * *
174055 GGCAGATTGAAGTAATCCAATCTTTTTCCCTAACTAAGGGGCAAATTAAGGACCATTCGATCTCT
1 GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCATCCGATCTCT
174120 TACCCCGACCATGG
66 TACCCCGACCATGG
* *
174134 GGTAGATTGAAGCAATCCAATCTTTTACC
1 GGCAGATTGAAGTAATCCAATCTTTTACC
174163 TCGACCATGG
Statistics
Matches: 225, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
77 2 0.01
78 64 0.28
79 157 0.70
80 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (79 bp):
GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCATCCGATCTCT
TACCCCGACCATGG
Found at i:174116 original size:157 final size:158
Alignment explanation
Indices: 173824--174162 Score: 511
Period size: 157 Copynumber: 2.2 Consensus size: 158
173814 TTTGAGGCAA
* * *
173824 ATTGAAGTAATCCAATCTTTTACCCTAATTAGAGGGCAAACTGAGGACCATCCGATCTCTTACCC
1 ATTGAAGTAATCCAATCTTTTACCCTAACTAGAGGGCAAACTGAAGACCATCAGATCTCTTACCC
* * *
173889 CTACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGTGTAGATTAAGGACCAT
66 CTACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCAT
173954 CCGATCTCTTACCCCGACCATGGGGTAG
131 CCGATCTCTTACCCCGACCATGGGGTAG
* * * *
173982 ATTGAAGTAATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAAGATCATCAGATCTCTTA-CC
1 ATTGAAGTAATCCAATCTTTTACCCTAACTAGAGGGCAAACTGAAGACCATCAGATCTCTTACCC
* * * *
174046 CTAACCATGG-GCAGATTGAAGTAATCCAATCTTTTTCCCTAACTAAGGGGCAAATTAAGGACCA
66 CT-ACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCA
*
174110 TTCGATCTCTTACCCCGACCATGGGGTAG
130 TCCGATCTCTTACCCCGACCATGGGGTAG
*
174139 ATTGAAGCAATCCAATCTTTTACC
1 ATTGAAGTAATCCAATCTTTTACC
174163 TCGACCATGG
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
157 102 0.63
158 61 0.37
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (158 bp):
ATTGAAGTAATCCAATCTTTTACCCTAACTAGAGGGCAAACTGAAGACCATCAGATCTCTTACCC
CTACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCAT
CCGATCTCTTACCCCGACCATGGGGTAG
Found at i:174176 original size:157 final size:157
Alignment explanation
Indices: 173824--174205 Score: 477
Period size: 157 Copynumber: 2.4 Consensus size: 157
173814 TTTGAGGCAA
* * * * * * * *
173824 ATTGAAGTAATCCAATCTTTTACCCTAATTAGAGGGCAAACTGAGGACCATCCGATCTCTTACCC
1 ATTGAAGCAATCCAATCTTTTACCCGAACTAGAGGGCAGATTGAAG-TCATCAGATCTCTTA-CC
* * *
173889 CT-ACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGTGTAGATTAAGGACCA
64 CTAACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCA
173953 TCCGATCTCTTACCCCGACCATGGGGTAG
129 TCCGATCTCTTACCCCGACCATGGGGTAG
* * *
173982 ATTGAAGTAATCTAATCTTTTACCCTAACTAGAGGGCAGATTGAAGATCATCAGATCTCTTACCC
1 ATTGAAGCAATCCAATCTTTTACCCGAACTAGAGGGCAGATTGAAG-TCATCAGATCTCTTACCC
* * * *
174047 TAACCATGG-GCAGATTGAAGTAATCCAATCTTTTTCCCTAACTAAGGGGCAAATTAAGGACCAT
65 TAACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCAT
*
174111 TCGATCTCTTACCCCGACCATGGGGTAG
130 CCGATCTCTTACCCCGACCATGGGGTAG
* * *
174139 ATTGAAGCAATCCAATCTTTTACCTCG-ACCATG-GGGCAGATTGAAGTAATTCA-ATCTTTTAC
1 ATTGAAGCAATCCAATCTTTTACC-CGAACTA-GAGGGCAGATTGAAGTCA-TCAGATCTCTTAC
174201 CCTAA
63 CCTAA
174206 TTAGAGGGCA
Statistics
Matches: 199, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
156 15 0.08
157 121 0.61
158 63 0.32
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (157 bp):
ATTGAAGCAATCCAATCTTTTACCCGAACTAGAGGGCAGATTGAAGTCATCAGATCTCTTACCCT
AACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAATTAAGGACCATC
CGATCTCTTACCCCGACCATGGGGTAG
Found at i:174253 original size:79 final size:79
Alignment explanation
Indices: 174139--174360 Score: 313
Period size: 79 Copynumber: 2.8 Consensus size: 79
174129 CATGGGGTAG
* * * *
174139 ATTGAAG-CAATCCAATCTTTTACCTCGACCATGGGGCAGATTGAAGTAAT-TCAATCTTTTACC
1 ATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGTAATCT-AATCTTTTACC
*
174202 CTAATTAGAGGGCAA
65 CTAACTAGAGGGCAA
* * * *
174217 ATTGATGACCATCCGATCTCTTCCCCCGACCATGGGGTAGATTGAAGTAATCTAATCTTTTATCC
1 ATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGTAATCTAATCTTTTACCC
*
174282 TAACTAGAGGGCAG
66 TAACTAGAGGGCAA
**
174296 ATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAACAATCTAATCTTTTACCC
1 ATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGTAATCTAATCTTTTACCC
174361 CTAAAGCTAT
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 6 0.05
79 119 0.94
80 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (79 bp):
ATTGAAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGTAATCTAATCTTTTACCC
TAACTAGAGGGCAA
Found at i:174294 original size:118 final size:118
Alignment explanation
Indices: 173819--174302 Score: 423
Period size: 118 Copynumber: 4.1 Consensus size: 118
173809 AAAACTTTGA
* * *
173819 GGCAAATTGAAGTAATCCAATCTTTTACCCTAATTAGAGGGCAAACTGAGGACCATCCGATCTCT
1 GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAGGACCATCCGATCTCT
* * * * *
173884 TACCCCTACAATGGAGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAG
66 TACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAG
* * * * * ** * * * * **
173937 TGTAGATT-AAGGACCATCCGATCTCTTACCCCGACCATG-GGGTAGATTGAAGTA--ATCTAAT
1 GGCAGATTGAAGTA--ATCCAATCTTTTACCCTAACTA-GAGGGCAAATTG-AGGACCATCCGAT
* ** * * *
173998 CTTTTACCCTAACTA-GAGGGCAGATTGAAG--ATCATCAGATCTCTTACCCTAACCA-TG
62 CTCTTACCCCGACCATG-GGGCAGATTGAAGCAATC--CA-ATCTTTTACCCTAACCAGAG
* * *
174055 GGCAGATTGAAGTAATCCAATCTTTTTCCCTAACTA-AGGGGCAAATTAAGGACCATTCGATCTC
1 GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAGA-GGGCAAATTGAGGACCATCCGATCTC
* *
174119 TTACCCCGACCATGGGGTAGATTGAAGCAATCCAATCTTTTA-CCTCGACCATG-G
65 TTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCT-AACCA-GAG
* * *
174173 GGCAGATTGAAGTAATTCAATCTTTTACCCTAATTAGAGGGCAAATTGATGACCATCCGATCTCT
1 GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAGGACCATCCGATCTCT
* * * * * *
174238 TCCCCCGACCATGGGGTAGATTGAAGTAATCTAATCTTTTATCCTAACTAGAG
66 TACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAG
174291 GGCAGATTGAAG
1 GGCAGATTGAAG
174303 ACCATCCGAT
Statistics
Matches: 286, Mismatches: 58, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
116 9 0.03
117 40 0.14
118 183 0.64
119 47 0.16
120 7 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (118 bp):
GGCAGATTGAAGTAATCCAATCTTTTACCCTAACTAGAGGGCAAATTGAGGACCATCCGATCTCT
TACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGAG
Found at i:174994 original size:17 final size:17
Alignment explanation
Indices: 174974--175012 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
174964 TATTTATTTT
174974 ATAAATGAAAATAAT-AA
1 ATAAAT-AAAATAATAAA
174991 ATAAATAAAATAATAAA
1 ATAAATAAAATAATAAA
175008 ATAAA
1 ATAAA
175013 CCTTGTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAAATAAAATAATAAA
Found at i:176221 original size:59 final size:59
Alignment explanation
Indices: 176158--176367 Score: 181
Period size: 60 Copynumber: 3.5 Consensus size: 59
176148 TGTTTTTCGT
* * *
176158 CCCC-AAACTTTCCAAAAATTAAAAGTTAACCCCTAAATTTTCAAAAAATTTCAATTTGA
1 CCCCAAAACTTTCCAAAAATTCAAATTTGACCCC-AAATTTTCAAAAAATTTCAATTTGA
* * * *
176217 CCCCAAAATTTTCCAAAAATTCAAATTTGACCTCGAATTTTCAAAAAA-TTCAAATTTAA
1 CCCCAAAACTTTCCAAAAATTCAAATTTGACCCCAAATTTTCAAAAAATTTC-AATTTGA
*** * * * * **
176276 CCCTTGAACTTCCCAAAAATTCTAATTTGACCCCCAAATTTTCCAAATATTTTGATTTGA
1 CCCCAAAACTTTCCAAAAATTCAAATTTGA-CCCCAAATTTTCAAAAAATTTCAATTTGA
* * ** * *
176336 CCCCTAAAGTTTCTGAAAATTTAAATATGACC
1 CCCCAAAACTTTCCAAAAATTCAAATTTGACC
176368 TAGTTTTAAA
Statistics
Matches: 118, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
58 3 0.03
59 49 0.42
60 64 0.54
61 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (59 bp):
CCCCAAAACTTTCCAAAAATTCAAATTTGACCCCAAATTTTCAAAAAATTTCAATTTGA
Found at i:176322 original size:30 final size:30
Alignment explanation
Indices: 176158--176367 Score: 154
Period size: 30 Copynumber: 7.0 Consensus size: 30
176148 TGTTTTTCGT
* * * *
176158 CCCCAAACTTTCCAAAAATTAAAAGTTAAC
1 CCCCAAATTTTCCAAAAATTCAAATTTGAC
* *
176188 CCCTAAATTTTCAAAAAATTTC-AATTTGAC
1 CCCCAAATTTTCCAAAAA-TTCAAATTTGAC
*
176218 CCCAAAATTTTCCAAAAATTCAAATTTGA-
1 CCCCAAATTTTCCAAAAATTCAAATTTGAC
* * * *
176247 CCTCGAATTTTCAAAAAATTCAAATTTAAC
1 CCCCAAATTTTCCAAAAATTCAAATTTGAC
*** * * *
176277 CCTTGAACTTCCCAAAAATTCTAATTTGAC
1 CCCCAAATTTTCCAAAAATTCAAATTTGAC
* ***
176307 CCCCAAATTTTCCAAATATTTTGATTTGAC
1 CCCCAAATTTTCCAAAAATTCAAATTTGAC
* * ** * *
176337 CCCTAAAGTTTCTGAAAATTTAAATATGAC
1 CCCCAAATTTTCCAAAAATTCAAATTTGAC
176367 C
1 C
176368 TAGTTTTAAA
Statistics
Matches: 142, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
29 27 0.19
30 113 0.80
31 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (30 bp):
CCCCAAATTTTCCAAAAATTCAAATTTGAC
Found at i:177300 original size:291 final size:291
Alignment explanation
Indices: 176916--177490 Score: 1069
Period size: 291 Copynumber: 2.0 Consensus size: 291
176906 ATCCTTCCTT
176916 ATGCGTAACCGACTTCCGAGCCTGTTTTATGGTTTCAAGGACCAAAATTCTTTTAATGATTTTTT
1 ATGCGTAACCGACTTCCGAGCCTGTTTTATGGTTTCAAGGACCAAAATTCTTTTAATGATTTTTT
*
176981 AAAAATCTCGAGAGGTGACCCAATTACACCTGTTTTAGAAAAATATATTAATGGTGACTCCTGTC
66 AAAAATCTCGAGAGGTGACCCAATTACACCTGTTTTAAAAAAATATATTAATGGTGACTCCTGTC
177046 TAAATGTTTTTTTCGAAAAGAAAAATAGTCTCGAAAAATATTTTTAAAATCAAAATATGGGAGTC
131 TAAATGTTTTTTTCGAAAAGAAAAATAGTCTCGAAAAATATTTTTAAAATCAAAATATGGGAGTC
* * *
177111 GGCACCAATCCTTTTTGGTGTGATTGGATCACCACAAAACTTTTAAAATTCGTTTTGAAAAATGT
196 GCCACCAATCCTTTTTGGTGTGATTGAATCACCACAAAACATTTAAAATTCGTTTTGAAAAATGT
177176 TTTGGTATTCGAAATCCACAAAATGTTTAAA
261 TTTGGTATTCGAAATCCACAAAATGTTTAAA
*
177207 ATGCGTAACCGACTTTCGAGCCTGTTTTATGGTTTCAAGGACCAAAATTCTTTTAATGATTTTTT
1 ATGCGTAACCGACTTCCGAGCCTGTTTTATGGTTTCAAGGACCAAAATTCTTTTAATGATTTTTT
**
177272 TTAAATCTCGAGAGGTGACCCAATTACACCTGTTTTAAAAAAATATATTAATGGTGACTCCTGTC
66 AAAAATCTCGAGAGGTGACCCAATTACACCTGTTTTAAAAAAATATATTAATGGTGACTCCTGTC
*
177337 TACATGTTTTTTTCGAAAAGAAAAATAGTCTCGAAAAATATTTTTAAAATCAAAATATGGGAGTC
131 TAAATGTTTTTTTCGAAAAGAAAAATAGTCTCGAAAAATATTTTTAAAATCAAAATATGGGAGTC
177402 GCCACCAATCCTTTTTGGTGTGATTGAATCACCACAAAACATTTAAAATTCGTTTTGAAAAATGT
196 GCCACCAATCCTTTTTGGTGTGATTGAATCACCACAAAACATTTAAAATTCGTTTTGAAAAATGT
*
177467 TTTGGTATTCGAAATCCAGAAAAT
261 TTTGGTATTCGAAATCCACAAAAT
177491 AGGTTCGGGA
Statistics
Matches: 275, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
291 275 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (291 bp):
ATGCGTAACCGACTTCCGAGCCTGTTTTATGGTTTCAAGGACCAAAATTCTTTTAATGATTTTTT
AAAAATCTCGAGAGGTGACCCAATTACACCTGTTTTAAAAAAATATATTAATGGTGACTCCTGTC
TAAATGTTTTTTTCGAAAAGAAAAATAGTCTCGAAAAATATTTTTAAAATCAAAATATGGGAGTC
GCCACCAATCCTTTTTGGTGTGATTGAATCACCACAAAACATTTAAAATTCGTTTTGAAAAATGT
TTTGGTATTCGAAATCCACAAAATGTTTAAA
Found at i:178823 original size:22 final size:21
Alignment explanation
Indices: 178783--178822 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
178773 AAATAAAAAA
178783 AAATCCTTTTTTTCTTTTTAT
1 AAATCCTTTTTTTCTTTTTAT
*
178804 AAATCCTTTTTTTTTTTTT
1 AAATCCTTTTTTTCTTTTT
178823 TTTTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (21 bp):
AAATCCTTTTTTTCTTTTTAT
Found at i:180220 original size:78 final size:77
Alignment explanation
Indices: 180128--180782 Score: 624
Period size: 78 Copynumber: 8.4 Consensus size: 77
180118 TTGTATAGTT
* * * * *
180128 GTGATCTGCCCCAAGCTCGGGATAAAAGATCGGATGGCGATAATTTGCTCTAAGCTTGGGGTAAG
1 GTGATCTGCCCCAAGCTCGGG-TAAAAGATCGGATGGCGACAATCTGCCCTAGGCTCGGGGTAAG
180193 AGATTGGCTGATG
65 AGATTGGCTGATG
* * * * *
180206 GTGATCTACCCCAAGCTTGAGGTAAAAGATCAGATGGCTG-CAATCTGCCCTAGGCTCAGGGAAA
1 GTGATCTGCCCCAAGCTCG-GGTAAAAGATCGGATGGC-GACAATCTGCCCTAGGCTCGGGGTAA
180270 GAGATTGGCTGATG
64 GAGATTGGCTGATG
* * * * * *
180284 ATGATCTGCCCCAAGCTCGTGGTAAAAGATCAGATTGCTACAATCTG-TCTCAGGCTCGAGGTAA
1 GTGATCTGCCCCAAGCTCG-GGTAAAAGATCGGATGGCGACAATCTGCCCT-AGGCTCGGGGTAA
*
180348 GAGATTAGCTGATG
64 GAGATTGGCTGATG
* * * *
180362 GCGATCTGCCTC-AGACTCGGGGTAAAAGATCAGATGGCTG-CAATCTGCCTTAGGCTCGGGGTA
1 GTGATCTGCCCCAAG-CTC-GGGTAAAAGATCGGATGGC-GACAATCTGCCCTAGGCTCGGGGTA
180425 AGAGATTGGCTGATG
63 AGAGATTGGCTGATG
* ** * * * * *
180440 GTGATCCGTTCCAAGCTCAGGGTAAAAGATTGGATGGCTATAATTTG-GCTCAGGCTCGGGGTAA
1 GTGATCTGCCCCAAGCTC-GGGTAAAAGATCGGATGGCGACAATCTGCCCT-AGGCTCGGGGTAA
* *
180504 GAGATTGACTAATG
64 GAGATTGGCTGATG
* * * * * *
180518 GTGATCTACCCCAAGCTTAGGGTAAAAGATCGGATGGCTG-CAATCTGCCCCAGGCTTGAGGCAA
1 GTGATCTGCCCCAAGC-TCGGGTAAAAGATCGGATGGC-GACAATCTGCCCTAGGCTCGGGGTAA
180582 GAGATTGGCTGATG
64 GAGATTGGCTGATG
* * * * * * *
180596 GTAATCTGTCCCAGGCTCGGGGTAAAAGATCGGATGGCTATAATCTGCCCCAGGCTCAGGGTAAG
1 GTGATCTGCCCCAAGCTC-GGGTAAAAGATCGGATGGCGACAATCTGCCCTAGGCTCGGGGTAAG
*
180661 AGATTGGTTGATG
65 AGATTGGCTGATG
* * ** * ** *
180674 GTGATCTACCTCTGGCTCGAGGTAAAAGATCGGATGGCTACAATCAACCCCT-GGCTCGAGGTAA
1 GTGATCTGCCCCAAGCTCG-GGTAAAAGATCGGATGGCGACAATC-TGCCCTAGGCTCGGGGTAA
180738 GAGATTGGCTGACT-
64 GAGATTGGCTGA-TG
180752 GTGATCTGCCCCAAGCTCGGGGTAAAAGATC
1 GTGATCTGCCCCAAGCTC-GGGTAAAAGATC
180783 AAAATCTTCA
Statistics
Matches: 468, Mismatches: 89, Indels: 40
0.78 0.15 0.07
Matches are distributed among these distances:
77 7 0.01
78 447 0.96
79 14 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (77 bp):
GTGATCTGCCCCAAGCTCGGGTAAAAGATCGGATGGCGACAATCTGCCCTAGGCTCGGGGTAAGA
GATTGGCTGATG
Found at i:180222 original size:39 final size:39
Alignment explanation
Indices: 180179--180680 Score: 143
Period size: 39 Copynumber: 12.9 Consensus size: 39
180169 AATTTGCTCT
*
180179 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTACCCC
1 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCC
* * * *
180218 AAGCTTGAGGTAAAAGA-T--CAGATGGCTGCAATCTGCCCT
1 AAGCTTGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCCC
* ** * *
180257 AGGCTCAGGGAAAGAGATTGGCTGATGATGATCTGCCCC
1 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCC
* * * * * * * *
180296 AAGCTCGTGGTAAAAGA-T--CAGATTGCTACAATCTGTCTC
1 AAGCTTGGGGTAAGAGATTGGCTGA-TGGT--GATCTGCCCC
* * * * * *
180335 AGGCTCGAGGTAAGAGATTAGCTGATGGCGATCTGCCTC
1 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCC
* * * **
180374 -AGACTCGGGGTAAAAGA-T--CAGATGGCTGCAATCTGCCTT
1 AAG-CTTGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCCC
* * * **
180413 AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCCGTTCC
1 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCC
** * * * * * * * *
180452 AAGCTCAGGGTAAAAGATTGGATGGCT-ATAATTTGGCTC
1 AAGCTTGGGGTAAGAGATTGGCT-GATGGTGATCTGCCCC
* * * * *
180491 AGGCTCGGGGTAAGAGATTGACTAATGGTGATCTACCCC
1 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCC
* * *
180530 AAGCTTAGGGTAAAAGA-T--CGGATGGCTGCAATCTGCCCC
1 AAGCTTGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCCC
* * * * *
180569 AGGCTTGAGGCAAGAGATTGGCTGATGGTAATCTGTCCC
1 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCC
* * * * * * * *
180608 AGGCTCGGGGTAAAAGATCGGATGGCT-ATAATCTGCCCC
1 AAGCTTGGGGTAAGAGATTGGCT-GATGGTGATCTGCCCC
* ** *
180647 AGGCTCAGGGTAAGAGATTGGTTGATGGTGATCT
1 AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCT
180681 ACCTCTGGCT
Statistics
Matches: 331, Mismatches: 102, Indels: 60
0.67 0.21 0.12
Matches are distributed among these distances:
36 20 0.06
37 8 0.02
38 8 0.02
39 259 0.78
40 9 0.03
41 7 0.02
42 20 0.06
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (39 bp):
AAGCTTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCC
Found at i:180386 original size:156 final size:154
Alignment explanation
Indices: 180128--180782 Score: 746
Period size: 156 Copynumber: 4.2 Consensus size: 154
180118 TTGTATAGTT
* * * * *
180128 GTGATCTGCCCCAAGCTCGGGATAAAAGATCGGATGGCGATAATTTGCTCTAAGCTTGGGGTAAG
1 GTGATCTGCCCCAAGCTCGGG-TAAAAGATCGGATGGCTATAATCTGCTC-AGGCTCGAGGTAAG
*
180193 AGATTGGCTGATGGTGATCTACCCCAAGCTTGAGGTAAAAGATCAGATGGCTGCAATCTGCCCTA
64 AGATTGGCTGATGGTGATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGCTGCAATCTGCCCTA
*
180258 GGCTC-AGGGAAAGAGATTGGCTGATG
129 GGCTCGA-GGTAAGAGATTGGCTGATG
* * * *
180284 ATGATCTGCCCCAAGCTCGTGGTAAAAGATCAGATTGCTACAATCTGTCTCAGGCTCGAGGTAAG
1 GTGATCTGCCCCAAGCTCG-GGTAAAAGATCGGATGGCTATAATCTG-CTCAGGCTCGAGGTAAG
* * * * * *
180349 AGATTAGCTGATGGCGATCTGCCTC-AGACTCGGGGTAAAAGATCAGATGGCTGCAATCTGCCTT
64 AGATTGGCTGATGGTGATCTACCCCAAG-CTCGAGGTAAAAGATCAGATGGCTGCAATCTGCCCT
*
180413 AGGCTCGGGGTAAGAGATTGGCTGATG
128 AGGCTCGAGGTAAGAGATTGGCTGATG
* ** * * *
180440 GTGATCCGTTCCAAGCTCAGGGTAAAAGATTGGATGGCTATAATTTGGCTCAGGCTCGGGGTAAG
1 GTGATCTGCCCCAAGCTC-GGGTAAAAGATCGGATGGCTATAATCT-GCTCAGGCTCGAGGTAAG
* * * * *
180505 AGATTGACTAATGGTGATCTACCCCAAGCT-TAGGGTAAAAGATCGGATGGCTGCAATCTGCCCC
64 AGATTGGCTGATGGTGATCTACCCCAAGCTCGA-GGTAAAAGATCAGATGGCTGCAATCTGCCCT
* *
180569 AGGCTTGAGGCAAGAGATTGGCTGATG
128 AGGCTCGAGGTAAGAGATTGGCTGATG
* * * *
180596 GTAATCTGTCCCAGGCTCGGGGTAAAAGATCGGATGGCTATAATCTGCCCCAGGCTC-AGGGTAA
1 GTGATCTGCCCCAAGCTC-GGGTAAAAGATCGGATGGCTATAATCTG-CTCAGGCTCGA-GGTAA
* * ** * * **
180660 GAGATTGGTTGATGGTGATCTACCTCTGGCTCGAGGTAAAAGATCGGATGGCTACAATCAACCCC
63 GAGATTGGCTGATGGTGATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGCTGCAATC-TGCCC
180725 T-GGCTCGAGGTAAGAGATTGGCTGACT-
127 TAGGCTCGAGGTAAGAGATTGGCTGA-TG
180752 GTGATCTGCCCCAAGCTCGGGGTAAAAGATC
1 GTGATCTGCCCCAAGCTC-GGGTAAAAGATC
180783 AAAATCTTCA
Statistics
Matches: 419, Mismatches: 67, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
155 3 0.01
156 402 0.96
157 14 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (154 bp):
GTGATCTGCCCCAAGCTCGGGTAAAAGATCGGATGGCTATAATCTGCTCAGGCTCGAGGTAAGAG
ATTGGCTGATGGTGATCTACCCCAAGCTCGAGGTAAAAGATCAGATGGCTGCAATCTGCCCTAGG
CTCGAGGTAAGAGATTGGCTGATG
Found at i:180698 original size:39 final size:38
Alignment explanation
Indices: 180638--180781 Score: 89
Period size: 39 Copynumber: 3.7 Consensus size: 38
180628 GATGGCTATA
* *
180638 ATCTGCCCCAGGCTC-AGGGTAAGAGATTGGTTGATGGTG
1 ATCTACCCCTGGCTCGA-GGTAAGAGATTGG-TGATGGTG
* * * *
180677 ATCTACCTCTGGCTCGAGGTAAAAGA-TCG-GATGGCTACA
1 ATCTACCCCTGGCTCGAGGTAAGAGATTGGTGATGG-T--G
*
180716 ATCAACCCCTGGCTCGAGGTAAGAGATTGGCTGACT-GTG
1 ATCTACCCCTGGCTCGAGGTAAGAGATTGG-TGA-TGGTG
* ** * *
180755 ATCTGCCCCAAGCTCGGGGTAAAAGAT
1 ATCTACCCCTGGCTCGAGGTAAGAGAT
180782 CAAAATCTTC
Statistics
Matches: 80, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
36 5 0.06
37 1 0.01
38 2 0.03
39 64 0.80
40 3 0.04
41 1 0.01
42 3 0.04
43 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (38 bp):
ATCTACCCCTGGCTCGAGGTAAGAGATTGGTGATGGTG
Found at i:181195 original size:49 final size:48
Alignment explanation
Indices: 181137--181472 Score: 160
Period size: 49 Copynumber: 6.9 Consensus size: 48
181127 TTACCGTTAT
* *
181137 GGCCTCAACCTTTCCCTTTAAATCTTCATGGTACTAG-ATTCG-CAGTTGC
1 GGCCTCAACCTTTCCCATCAAAT-TTCATGGTAC-AGAATTCGTCA-TTGC
* * *
181186 GGCCTCAACCTTTCTCATCACATTTCATGGTACCGAATTCGTCATTGC
1 GGCCTCAACCTTTCCCATCAAATTTCATGGTACAGAATTCGTCATTGC
* * * * ** *
181234 GGCCTCAATCTTTCCCATCACATCTTC-TGGGGTACCGGATTCACCGTTGC
1 GGCCTCAACCTTTCCCATCAAAT-TTCAT--GGTACAGAATTCGTCATTGC
* ** * * ** *
181284 AGCCTCAATCC-TTCCGTTCAAATCTTCGTGGTACCGGGTTCGTTATTGC
1 GGCCTCAA-CCTTTCCCATCAAAT-TTCATGGTACAGAATTCGTCATTGC
* * * * * * ** *** * *
181333 GACCTCAACCTTTTCCGTCACATCTTCTAAGGTACCGGGTTTACCTTTGT
1 GGCCTCAACCTTTCCCATCAAAT-TTC-ATGGTACAGAATTCGTCATTGC
* * * *
181383 GGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAG-GTTTGCCATTGC
1 GGCCTCAACCTTTCCCATCAAAT-TTCATGGTA-CAGAATTCGTCATTGC
* * * *
181432 AGCCTTAACCTTTCCCATCACATTTCATGGTACCGAATTCG
1 GGCCTCAACCTTTCCCATCAAATTTCATGGTACAGAATTCG
181473 CCGTTCTGAC
Statistics
Matches: 225, Mismatches: 51, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
47 3 0.01
48 55 0.24
49 90 0.40
50 75 0.33
51 2 0.01
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (48 bp):
GGCCTCAACCTTTCCCATCAAATTTCATGGTACAGAATTCGTCATTGC
Found at i:181290 original size:50 final size:50
Alignment explanation
Indices: 181060--181655 Score: 356
Period size: 50 Copynumber: 12.1 Consensus size: 50
181050 CCATCTTGTT
* * *
181060 TTCTAAGGTACC-GAGTTCGTCGTTGCGGCCTCAATCTTTCCCTTCAACATC
1 TTCTAAGGTACCGGA-TTCGCCGTTGCGGCCTCAACCTTTCCCATC-ACATC
* * * ** ** * * *
181111 TTTTAAGGTATCGGGTTTACCGTTATGGCCTCAACCTTTCCCTTTAAATC
1 TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* ** * *
181161 TTC-ATGGTACTAGATTCGCAGTTGCGGCCTCAACCTTTCTCATCACAT-
1 TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* * * * *
181209 TTC-ATGGTACCGAATTCGTCATTGCGGCCTCAATCTTTCCCATCACATC
1 TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
** * * ** *
181258 TTCTGGGGTACCGGATTCACCGTTGCAGCCTCAATCC-TTCCGTTCAAATC
1 TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAA-CCTTTCCCATCACATC
* *** * * *
181308 TTCGT--GGTACCGGGTTCGTTATTGCGACCTCAACCTTTTCCGTCACATC
1 TTC-TAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* ** * * * *
181357 TTCTAAGGTACCGGGTTTACCTTTGTGGCCTCAACCTTTCCCTTCAAATC
1 TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* * * * *
181407 TTC-ATGGTACCAGG-TTTGCCATTGCAGCCTTAACCTTTCCCATCACAT-
1 TTCTAAGGTACC-GGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* * * * *
181455 TTC-ATGGTACCGAATTCGCCGTT-CTGACCTCAATCTTTTCCATCACAT-
1 TTCTAAGGTACCGGATTCGCCGTTGC-GGCCTCAACCTTTCCCATCACATC
* * * * * * *
181503 TTTTAAGGTACCAGG-TTCGTCGTTGCGACATCAATCTTTCCCGTTACATC
1 TTCTAAGGTACC-GGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
** ** * * *
181553 TTCTAAGGTACAAGATTTACCGTTGTGGCCTTAACCTTTCCCGTCACATC
1 TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* * * * * * *
181603 TTCCAAGGTATCGGGTTCACCGTTGCGGCCTTAACCTTTCCCTTCAAATC
1 TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
181653 TTC
1 TTC
181656 ATGTTTTTCT
Statistics
Matches: 418, Mismatches: 111, Indels: 33
0.74 0.20 0.06
Matches are distributed among these distances:
47 2 0.00
48 81 0.19
49 136 0.33
50 163 0.39
51 35 0.08
52 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (50 bp):
TTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
Found at i:181339 original size:99 final size:99
Alignment explanation
Indices: 181060--181655 Score: 359
Period size: 99 Copynumber: 6.0 Consensus size: 99
181050 CCATCTTGTT
** * * * * *
181060 TTCTAAGGTACC-GAGTTCGTCGTTGCGGCCTCAATCTTTCCCTTCAACATCTTTTAAGGTATCG
1 TTCTAAGGTACCGGA-TTCACCGTTGCAGCCTCAACCTTTCCCTTCAA-ATC-TTCATGGTACCG
* * * *
181124 GGTTTACCGTTA-TG-G-CCTCAACCTTTCCCTTTAAATC
63 GG-TT--CGTCATTGCGACCTCAACCTTTCCCATCACATC
* ** * * * * * * **
181161 TTC-ATGGTACTAGATTCGCAGTTGCGGCCTCAACCTTTCTCATCACAT-TTCATGGTACCGAAT
1 TTCTAAGGTACCGGATTCACCGTTGCAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGT
* *
181224 TCGTCATTGCGGCCTCAATCTTTCCCATCACATC
66 TCGTCATTGCGACCTCAACCTTTCCCATCACATC
** * *
181258 TTCTGGGGTACCGGATTCACCGTTGCAGCCTCAATCC-TTCCGTTCAAATCTTCGTGGTACCGGG
1 TTCTAAGGTACCGGATTCACCGTTGCAGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTACCGGG
* * *
181322 TTCGTTATTGCGACCTCAACCTTTTCCGTCACATC
65 TTCGTCATTGCGACCTCAACCTTTCCCATCACATC
* * * ** *
181357 TTCTAAGGTACCGGGTTTACCTTTGTGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGGT
1 TTCTAAGGTACCGGATTCACCGTTGCAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGT
* * *
181422 TTGCCATTGC-AGCCTTAACCTTTCCCATCACAT-
66 TCGTCATTGCGA-CCTCAACCTTTCCCATCACATC
* * * * * * * * * * * *
181455 TTC-ATGGTACCGAATTCGCCGTT-CTGACCTCAATCTTTTCCATCACATTTTTAAGGTACCAGG
1 TTCTAAGGTACCGGATTCACCGTTGCAG-CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGG
* * * * *
181518 TTCGTCGTTGCGACATCAATCTTTCCCGTTACATC
65 TTCGTCATTGCGACCTCAACCTTTCCCATCACATC
** * ** * * * * *
181553 TTCTAAGGTACAAGATTTACCGTTGTGGCCTTAACCTTTCCCGTCACATCTTCCAAGGTATCGGG
1 TTCTAAGGTACCGGATTCACCGTTGCAGCCTCAACCTTTCCCTTCAAATCTT-CATGGTACCGGG
** * * * * *
181618 TTCACCGTTGCGGCCTTAACCTTTCCCTTCAAATC
65 TTCGTCATTGCGACCTCAACCTTTCCCATCACATC
181653 TTC
1 TTC
181656 ATGTTTTTCT
Statistics
Matches: 379, Mismatches: 101, Indels: 31
0.74 0.20 0.06
Matches are distributed among these distances:
94 4 0.01
95 2 0.01
96 4 0.01
97 97 0.26
98 41 0.11
99 155 0.41
100 71 0.19
101 5 0.01
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (99 bp):
TTCTAAGGTACCGGATTCACCGTTGCAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGT
TCGTCATTGCGACCTCAACCTTTCCCATCACATC
Found at i:181339 original size:147 final size:148
Alignment explanation
Indices: 181066--181605 Score: 368
Period size: 147 Copynumber: 3.7 Consensus size: 148
181056 TGTTTTCTAA
* * * * * * *
181066 GGTACCGAGTTCGTCGTTGCGGCCTCAATCTTTCCCTTCAACATCTTTTAAGGTATCGGGTTTAC
1 GGTACCGAATTCGTCATTGCGGCCTCAATCTTTCCCATCAACATCTTCTAAGGTACCGGATTCAC
** * * *
181131 CGTTATGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACTAGATTCGCAGTTGCGGCCTCAACC
66 CGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGATTCGCAGTTGCGACCTCAACC
181196 TTTCTCATCACATTTCAT
131 TTTCTCATCACATTTCAT
**
181214 GGTACCGAATTCGTCATTGCGGCCTCAATCTTTCCCATC-ACATCTTCTGGGGTACCGGATTCAC
1 GGTACCGAATTCGTCATTGCGGCCTCAATCTTTCCCATCAACATCTTCTAAGGTACCGGATTCAC
* * * * * *
181278 CGTTGCAGCCTCAATCC-TTCCGTTCAAATCTTCGTGGTACCGGGTTCGTTA-TTGCGACCTCAA
66 CGTTACAGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTACCAGATTCG-CAGTTGCGACCTCAA
* *
181341 CCTTT-TCCGTCACATCTTCTAA
129 CCTTTCT-CATCACAT-TTC-AT
** *** * * * * * **
181363 GGTACCGGGTTTACCTTTGTGGCCTCAACCTTTCCCTTCAA-ATCTTC-ATGGTACCAGG-TTTG
1 GGTACCGAATTCGTCATTGCGGCCTCAATCTTTCCCATCAACATCTTCTAAGGTACC-GGATTCA
* * * * * *
181425 CCATTGCAGCCTTAACCTTTCCCATCACAT-TTCATGGTACC-GAATTCGCCGTT-CTGACCTCA
65 CCGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAG-ATTCGCAGTTGC-GACCTCA
* * *
181487 ATCTTT-TCCATCACATTTTTAA
128 ACCTTTCT-CATCACA-TTTCAT
* * * * * * ** *
181509 GGTACC-AGGTTCGTCGTTGCGACATCAATCTTTCCCGT-TACATCTTCTAAGGTACAAGATTTA
1 GGTACCGA-ATTCGTCATTGCGGCCTCAATCTTTCCCATCAACATCTTCTAAGGTACCGGATTCA
*** * * *
181572 CCGTTGTGGCCTTAACCTTTCCCGTCACATCTTC
65 CCGTTACAGCCTCAACCTTTCCCTTCAAATCTTC
181606 CAAGGTATCG
Statistics
Matches: 309, Mismatches: 66, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
145 1 0.00
146 39 0.13
147 153 0.50
148 76 0.25
149 39 0.13
150 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (148 bp):
GGTACCGAATTCGTCATTGCGGCCTCAATCTTTCCCATCAACATCTTCTAAGGTACCGGATTCAC
CGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGATTCGCAGTTGCGACCTCAACC
TTTCTCATCACATTTCAT
Found at i:181410 original size:246 final size:243
Alignment explanation
Indices: 181060--181658 Score: 672
Period size: 246 Copynumber: 2.4 Consensus size: 243
181050 CCATCTTGTT
* * * *
181060 TTCTAAGGTACCGAGTTCGTCGTTGCGGCCTCAATCTTTCCCTTCAACATCTTTTAAGGTATCGG
1 TTCT-AGGTACCGAGTTCGT-TTTGC-GCCTCAACCTTTCCCGTC-ACATCTTCTAAGGTATCGG
* * * *
181125 GTTTACCGTTATGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACTAGATTCG-CAGTTGCGGC
62 GTTTACCGTTGTGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGATTCGCCA-TTGCAGC
* * *
181189 CTCAACCTTTCTCATCACATTTCATGGTACCGAATTCGTCATTGC-GGCCTCAATCTTTCCCATC
126 CTCAACCTTTCCCATCACATTTCATGGTACCGAATTCGCCATT-CTGACCTCAATCTTTCCCATC
** *
181253 ACATCTTCTGGGGTACC-GGATTCACCGTTGC-AGCCTCAATCCTT-CCGTTCAAATC
190 ACAT-TTCTAAGGTACCAGG-TTCACCGTTGCGA-CATCAATCCTTCCCGTT-AAATC
* * *
181308 TTCGT-GGTACCGGGTTCGTTATTGCGACCTCAACCTTTTCCGTCACATCTTCTAAGGTACCGGG
1 TTC-TAGGTACCGAGTTCGTT-TTGCG-CCTCAACCTTTCCCGTCACATCTTCTAAGGTATCGGG
* * *
181372 TTTACCTTTGTGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGGTTTGCCATTGCAGCCT
63 TTTACCGTTGTGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGATTCGCCATTGCAGCCT
* * *
181437 TAACCTTTCCCATCACATTTCATGGTACCGAATTCGCCGTTCTGACCTCAATCTTTTCCATCACA
128 CAACCTTTCCCATCACATTTCATGGTACCGAATTCGCCATTCTGACCTCAATCTTTCCCATCACA
* ** * *
181502 TTTTTAAGGTACCAGGTTCGTCGTTGCGACATCAATCTTTCCCGTTACATC
193 TTTCTAAGGTACCAGGTTCACCGTTGCGACATCAATCCTTCCCGTTAAATC
* * * * *
181553 TTCTAAGGTACAAGATTTACCGTTGTG-GCCTTAACCTTTCCCGTCACATCTTCCAAGGTATCGG
1 TTCT-AGGTAC-CGAGTT--CGTTTTGCGCCTCAACCTTTCCCGTCACATCTTCTAAGGTATCGG
* * *
181617 GTTCACCGTTGCGGCCTTAACCTTTCCCTTCAAATCTTCATG
62 GTTTACCGTTGTGGCCTCAACCTTTCCCTTCAAATCTTCATG
181659 TTTTTCTCAA
Statistics
Matches: 298, Mismatches: 40, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
244 1 0.00
245 35 0.12
246 215 0.72
247 37 0.12
248 5 0.02
249 5 0.02
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (243 bp):
TTCTAGGTACCGAGTTCGTTTTGCGCCTCAACCTTTCCCGTCACATCTTCTAAGGTATCGGGTTT
ACCGTTGTGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGATTCGCCATTGCAGCCTCAA
CCTTTCCCATCACATTTCATGGTACCGAATTCGCCATTCTGACCTCAATCTTTCCCATCACATTT
CTAAGGTACCAGGTTCACCGTTGCGACATCAATCCTTCCCGTTAAATC
Found at i:182634 original size:7 final size:7
Alignment explanation
Indices: 182623--182670 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
182613 TTCTTTCTAT
182623 TTTTTTC
1 TTTTTTC
*
182630 GTTTTTC
1 TTTTTTC
182637 TTTTTTC
1 TTTTTTC
182644 TTTTTTC
1 TTTTTTC
182651 TTTTTTTCTC
1 --TTTTT-TC
182661 TTTTTTC
1 TTTTTTC
182668 TTT
1 TTT
182671 ATTTTCTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 24 0.67
8 5 0.14
9 5 0.14
10 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:182636 original size:17 final size:16
Alignment explanation
Indices: 182611--182679 Score: 79
Period size: 17 Copynumber: 4.2 Consensus size: 16
182601 TCTTTTTCCC
182611 CTTTCTTTCTATTTTTTT
1 CTTT-TTTCT-TTTTTTT
*
182629 CGTTTTTC--TTTTTT
1 CTTTTTTCTTTTTTTT
182643 CTTTTTTCTTTTTTTCT
1 CTTTTTTCTTTTTTT-T
*
182660 CTTTTTTCTTTATTTT
1 CTTTTTTCTTTTTTTT
182676 CTTT
1 CTTT
182680 CTTATTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
14 13 0.29
16 10 0.22
17 19 0.42
18 3 0.07
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (16 bp):
CTTTTTTCTTTTTTTT
Found at i:182636 original size:21 final size:21
Alignment explanation
Indices: 182612--182656 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
182602 CTTTTTCCCC
182612 TTTCTTTCTAT-TTTTTTCGTT
1 TTTCTTT-TATCTTTTTTCGTT
* *
182633 TTTCTTTTTTCTTTTTTCTTT
1 TTTCTTTTATCTTTTTTCGTT
182654 TTT
1 TTT
182657 TCTCTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTCTTTTATCTTTTTTCGTT
Found at i:182643 original size:24 final size:24
Alignment explanation
Indices: 182611--182676 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
182601 TCTTTTTCCC
182611 CTTTCTTTCTATTTTTTTCGTTTT-T
1 CTTT-TTTCT-TTTTTTTCGTTTTCT
*
182636 CTTTTTTCTTTTTTCTT-TTTTTCT
1 CTTTTTTCTTTTTT-TTCGTTTTCT
*
182660 CTTTTTTCTTTATTTTC
1 CTTTTTTCTTTTTTTTC
182677 TTTCTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 11 0.31
24 21 0.58
25 4 0.11
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.79
Consensus pattern (24 bp):
CTTTTTTCTTTTTTTTCGTTTTCT
Found at i:182657 original size:31 final size:34
Alignment explanation
Indices: 182611--182682 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 34
182601 TCTTTTTCCC
*
182611 CTTTCTTTCTATTTTTTTCGTTTTTC-TT-TTTT
1 CTTTCTTTCTATTTTTCTCGTTTTTCTTTATTTT
* *
182643 CTTT-TTTCTTTTTTTCTCTTTTTTCTTTATTTT
1 CTTTCTTTCTATTTTTCTCGTTTTTCTTTATTTT
182676 CTTTCTT
1 CTTTCTT
182683 ATTTATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 18 0.53
32 6 0.18
33 8 0.24
34 2 0.06
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (34 bp):
CTTTCTTTCTATTTTTCTCGTTTTTCTTTATTTT
Found at i:182682 original size:20 final size:20
Alignment explanation
Indices: 182640--182695 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
182630 GTTTTTCTTT
182640 TTTCTTTTTTCTTT-TTTTC
1 TTTCTTTTTTCTTTATTTTC
182659 --TCTTTTTTCTTTATTTTC
1 TTTCTTTTTTCTTTATTTTC
* *
182677 TTTCTTATTTATTTATTTT
1 TTTCTTTTTTCTTTATTTT
182696 TCTTCATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 12 0.38
18 5 0.16
20 15 0.47
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCTTTTTTCTTTATTTTC
Found at i:183649 original size:10 final size:10
Alignment explanation
Indices: 183621--183659 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
183611 TTGACCCCTA
* *
183621 TTTTTATTTG
1 TTTTTTTTTC
183631 TTTTGTTTTTC
1 TTTT-TTTTTC
183642 TTTTTTTTTC
1 TTTTTTTTTC
183652 TTTTTTTT
1 TTTTTTTT
183660 AACACGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:186633 original size:34 final size:32
Alignment explanation
Indices: 186595--186657 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
186585 ATTATCATGG
*
186595 TATTTCACAAAAAAAATGCGAAGGATCATCATAA
1 TATTTCA-AAAAAAAA-GCAAAGGATCATCATAA
* *
186629 TATTTCATAGAAAAAGCAAAGGATCATCA
1 TATTTCAAAAAAAAAGCAAAGGATCATCA
186658 CAATGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
33 6 0.23
34 7 0.27
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (32 bp):
TATTTCAAAAAAAAAGCAAAGGATCATCATAA
Found at i:187824 original size:10 final size:11
Alignment explanation
Indices: 187808--187846 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
187798 TAATTATTTT
187808 TTATTTTAAAA
1 TTATTTTAAAA
187819 -TATTTTAAAA
1 TTATTTTAAAA
*
187829 TTAATTTAAAA
1 TTATTTTAAAA
187840 TTATTTT
1 TTATTTT
187847 TTAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:188644 original size:19 final size:18
Alignment explanation
Indices: 188618--188684 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 18
188608 ATGATAATTT
188618 AATAATTTTATATTTTAA
1 AATAATTTTATATTTTAA
188636 AATTAATTTTAAAATAGTTTT--
1 AA-TAATTTT---ATA-TTTTAA
*
188657 AATAATTTTATATTTAAAA
1 AATAATTTTATATTT-TAA
188676 AATAATTTT
1 AATAATTTT
188685 TAAATTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
16 3 0.08
17 3 0.08
18 2 0.05
19 16 0.40
20 7 0.17
21 2 0.05
22 3 0.08
23 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (18 bp):
AATAATTTTATATTTTAA
Found at i:188658 original size:39 final size:39
Alignment explanation
Indices: 188615--188689 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
188605 ATGATGATAA
* *
188615 TTTAATAATTTTATATTTTAAAATTAATTTTAAAATAGT
1 TTTAATAATTTTATATTTAAAAAATAATTTTAAAATAGT
*
188654 TTTAATAATTTTATATTTAAAAAATAATTTTTAAAT
1 TTTAATAATTTTATATTTAAAAAATAATTTTAAAAT
188690 TATTTACTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (39 bp):
TTTAATAATTTTATATTTAAAAAATAATTTTAAAATAGT
Found at i:195115 original size:26 final size:26
Alignment explanation
Indices: 194979--195107 Score: 152
Period size: 26 Copynumber: 5.0 Consensus size: 26
194969 GCAGGCTTCA
194979 TGCCGATGATTATATATCAAGCTTTG
1 TGCCGATGATTATATATCAAGCTTTG
*
195005 TGTCGATGATTATATATCAAGCTTTG
1 TGCCGATGATTATATATCAAGCTTTG
* * * *
195031 TGCCTATGATTATATATTAGGCTTTA
1 TGCCGATGATTATATATCAAGCTTTG
* *
195057 TGCCCG-TGATTATTTATCAAACTTTG
1 TG-CCGATGATTATATATCAAGCTTTG
* * *
195083 AGCCGGTGATTATTTATCAAGCTTT
1 TGCCGATGATTATATATCAAGCTTT
195108 AAGCCGGTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 3 0.03
26 82 0.94
27 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (26 bp):
TGCCGATGATTATATATCAAGCTTTG
Found at i:198354 original size:18 final size:18
Alignment explanation
Indices: 198331--198365 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
198321 AATTGCATAT
198331 ATAATTCCTTCCCTCTTG
1 ATAATTCCTTCCCTCTTG
* *
198349 ATAATTTCTTCCTTCTT
1 ATAATTCCTTCCCTCTT
198366 CTTTCCTCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.29, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTCCTTCCCTCTTG
Found at i:199647 original size:21 final size:21
Alignment explanation
Indices: 199623--199669 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
199613 TAGCATAATT
*
199623 CAAATATAAAGTTTAGGAATC
1 CAAATATAAAGTTTAGAAATC
* *
199644 CAAACATAAAGTTTATAAATC
1 CAAATATAAAGTTTAGAAATC
199665 CAAAT
1 CAAAT
199670 TACATAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (21 bp):
CAAATATAAAGTTTAGAAATC
Found at i:201277 original size:22 final size:22
Alignment explanation
Indices: 201252--201297 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
201242 TTCGAGCAGT
201252 AGTGGGTCTGGCTTTAAAGTTA
1 AGTGGGTCTGGCTTTAAAGTTA
201274 AGTGGGTCTGGCTTTAAAGTTA
1 AGTGGGTCTGGCTTTAAAGTTA
201296 AG
1 AG
201298 GCTGGGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.35
Consensus pattern (22 bp):
AGTGGGTCTGGCTTTAAAGTTA
Found at i:208022 original size:18 final size:18
Alignment explanation
Indices: 207977--208034 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
207967 TGTGAAGCCC
* *
207977 ATGTATTTATGCAAACCT
1 ATGTATTTATGCGAACTT
*
207995 ATAT-TGTTATGCGAACTT
1 ATGTAT-TTATGCGAACTT
*
208013 ATGTATTTATGTGAACTT
1 ATGTATTTATGCGAACTT
208031 ATGT
1 ATGT
208035 TATTGTGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (18 bp):
ATGTATTTATGCGAACTT
Found at i:221224 original size:30 final size:31
Alignment explanation
Indices: 221180--221239 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
221170 GGAGGTTGGA
221180 TGAGAGAGGAGTAAAAGTTTAAGGGGAAAAG
1 TGAGAGAGGAGTAAAAGTTTAAGGGGAAAAG
**
221211 TGAGAGA-GAGTAAAAGTTTTGGGGGAAAA
1 TGAGAGAGGAGTAAAAGTTTAAGGGGAAAA
221240 TAAAGAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.18
Consensus pattern (31 bp):
TGAGAGAGGAGTAAAAGTTTAAGGGGAAAAG
Found at i:221441 original size:9 final size:9
Alignment explanation
Indices: 221427--221469 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
221417 TATAGTTTGA
*
221427 TATTCGATT
1 TATTCGAGT
*
221436 TATTCGAAT
1 TATTCGAGT
221445 TATTCGAGT
1 TATTCGAGT
221454 TATTCGAGT
1 TATTCGAGT
221463 TATTCGA
1 TATTCGA
221470 ATTTGAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (9 bp):
TATTCGAGT
Found at i:227214 original size:15 final size:16
Alignment explanation
Indices: 227175--227207 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
227165 AACTAAAAAA
227175 TGAAAAAATAATATTT
1 TGAAAAAATAATATTT
227191 TGAAAAAATAATATTT
1 TGAAAAAATAATATTT
227207 T
1 T
227208 TATAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TGAAAAAATAATATTT
Found at i:236055 original size:14 final size:11
Alignment explanation
Indices: 236019--236046 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
236009 TGATATACAA
236019 ATTAAAGAATT
1 ATTAAAGAATT
236030 ATTAAAGAATT
1 ATTAAAGAATT
236041 ATTAAA
1 ATTAAA
236047 AAAGAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (11 bp):
ATTAAAGAATT
Found at i:242742 original size:43 final size:42
Alignment explanation
Indices: 242634--242744 Score: 100
Period size: 43 Copynumber: 2.6 Consensus size: 42
242624 AGAAGGATAA
*
242634 AACAAAGAAAGAAGCTACGTGGAAAAAACCACATTCAAGAAAC
1 AACAAAAAAAGAAGCTACGT-GAAAAAACCACATTCAAGAAAC
* * ** * **
242677 AACAAAAGAAGAAGATTTGTGAAAGCAAA-CACTTTCAAG-TTC
1 AACAAAAAAAGAAGCTACGTGAAA--AAACCACATTCAAGAAAC
242719 AGACAAAAAAAGAAGCTACGTGAAAA
1 A-ACAAAAAAAGAAGCTACGTGAAAA
242745 CTATCCACTA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
41 1 0.02
42 6 0.11
43 43 0.81
44 3 0.06
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.14
Consensus pattern (42 bp):
AACAAAAAAAGAAGCTACGTGAAAAAACCACATTCAAGAAAC
Found at i:244667 original size:65 final size:65
Alignment explanation
Indices: 244558--244681 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 65
244548 ACGCTTTATT
* * *
244558 TTTGGTTTAATCTCATCTTTGGTCCCTTTAAAATGTTTTTTGCTTTATTTTAATTGCTTACCAGC
1 TTTGGTTTAATCTCATCTTTGGTCCCTTTAAAATGCTTTCTGCTTTAATTTAATTGCTTACCAGC
* *
244623 TTTGGTTTAA-CTACATCTTTGGTCCCTTTAAATTGCTTTCTGCTTTAATTTGATTGCTT
1 TTTGGTTTAATCT-CATCTTTGGTCCCTTTAAAATGCTTTCTGCTTTAATTTAATTGCTT
244682 TCTAGCGTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
64 2 0.04
65 51 0.96
ACGTcount: A:0.18, C:0.17, G:0.13, T:0.52
Consensus pattern (65 bp):
TTTGGTTTAATCTCATCTTTGGTCCCTTTAAAATGCTTTCTGCTTTAATTTAATTGCTTACCAGC
Found at i:246369 original size:18 final size:18
Alignment explanation
Indices: 246348--246384 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
246338 TGAGTTTTCG
*
246348 AATTCAAATAACTCGAAT
1 AATTCAAATAAATCGAAT
*
246366 AATTCGAATAAATCGAAT
1 AATTCAAATAAATCGAAT
246384 A
1 A
246385 CCAAACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:255089 original size:26 final size:24
Alignment explanation
Indices: 255038--255090 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
255028 TAACAATTAA
**
255038 TTATTTTTTAAAAATTTAATTTTT
1 TTATTTTTTAAAAATTTAATAATT
*
255062 TTATTTTTTATAATATTATAATAATT
1 TTATTTTTTA-AAAATT-TAATAATT
255088 TTA
1 TTA
255091 ATAATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 10 0.42
25 5 0.21
26 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATTTTTTAAAAATTTAATAATT
Found at i:257679 original size:9 final size:10
Alignment explanation
Indices: 257662--257692 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
257652 ATTATATAGT
257662 TTAAAAAATA
1 TTAAAAAATA
257672 TT-AAAAATA
1 TTAAAAAATA
257681 TTAAAAAATA
1 TTAAAAAATA
257691 TT
1 TT
257693 TTTTTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:270414 original size:6 final size:6
Alignment explanation
Indices: 270403--270427 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
270393 AAATGATTAT
270403 TCAAGA TCAAGA TCAAGA TCAAGA T
1 TCAAGA TCAAGA TCAAGA TCAAGA T
270428 ACGCCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TCAAGA
Found at i:271023 original size:115 final size:115
Alignment explanation
Indices: 270818--271062 Score: 400
Period size: 115 Copynumber: 2.1 Consensus size: 115
270808 CATCTCGATA
* * * *
270818 CACAGCTTGTGTTAGCAGGCCCATTTCACAGCTCGTGTAAGCATTACATGACATATGGGTGTTGG
1 CACAGCTCGTGTGAGCAAGCCCATTTCACAGCTCGTGTAAGCATTACATGACATATGGGTGCTGG
*
270883 TCTTAGATGTCCTACCGATGACTAAGATCCGACATTTGTTACGGATTCTC
66 TCTTAGATGTCCTACCAATGACTAAGATCCGACATTTGTTACGGATTCTC
* *
270933 CACAGCTCGTGTGAGCAAGCCCATTTCATAGCTCGTGTGAGCATTACATGACATATGGGTGCTGG
1 CACAGCTCGTGTGAGCAAGCCCATTTCACAGCTCGTGTAAGCATTACATGACATATGGGTGCTGG
* *
270998 TCTTAGATGTCCTACCAATGGCTAAGATCCGGCATTTGTTACGGATTCTC
66 TCTTAGATGTCCTACCAATGACTAAGATCCGACATTTGTTACGGATTCTC
*
271048 CACAGCTCCTGTGAG
1 CACAGCTCGTGTGAG
271063 TAGTATCGTG
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 120 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.30
Consensus pattern (115 bp):
CACAGCTCGTGTGAGCAAGCCCATTTCACAGCTCGTGTAAGCATTACATGACATATGGGTGCTGG
TCTTAGATGTCCTACCAATGACTAAGATCCGACATTTGTTACGGATTCTC
Found at i:283575 original size:16 final size:17
Alignment explanation
Indices: 283554--283589 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
283544 ATCATCACAT
*
283554 TTTTA-TTGTCACTGCA
1 TTTTATTTGTCAATGCA
283570 TTTTATTTGTCAATGCA
1 TTTTATTTGTCAATGCA
283587 TTT
1 TTT
283590 GCATTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.56
Consensus pattern (17 bp):
TTTTATTTGTCAATGCA
Found at i:290464 original size:158 final size:157
Alignment explanation
Indices: 290169--290633 Score: 571
Period size: 158 Copynumber: 3.0 Consensus size: 157
290159 CGAGATTTAT
* ** * *
290169 ATGACATATGGGTGCTAGTCTTAGATATCCTACCGATGGCTGAGATCCATCATTTGTTACGGATT
1 ATGACATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGATCCGGCATTTGTTGCGAATT
* * * *
290234 ATCCATAGCAT-GTGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAA
66 CTCCACAGC-TCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAG
* *
290298 ACCTATTTCATAGCTCGTGTAAGCATTAC
130 GCCCATTTCATAGCTCGTGTAAGCA-TAC
* * *
290327 ATGTCATATGGGTGCTAGTCTTAGATGTCGTACCGATGGTTGAGATCCGGCATTTGTTGCGAATT
1 ATGACATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGATCCGGCATTTGTTGCGAATT
*
290392 CTCCACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGTAGG
66 CTCCACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAGG
290457 CCCATTTC--A---C----AA-C-T-C
131 CCCATTTCATAGCTCGTGTAAGCATAC
* * * *
290472 GTGACATATGGGTACTGGTCTTAGATGTCCTACCGATGGCTGAGATCTGGCATTTGTTGC-AGAT
1 ATGACATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGATCCGGCATTTGTTGCGA-AT
* * * * *
290536 TCTCCACAGCTCATGTGAGTAGCATCGTGTAGTTTAACATCTCGACTCACAGCTCGTGTGAGCAG
65 TCTCCACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAG
*
290601 GCCCATTTCATAGCTCGTGTGAGCAATAC
130 GCCCATTTCATAGCTCGTGTAAGC-ATAC
290630 ATGA
1 ATGA
290634 TATGCACACT
Statistics
Matches: 262, Mismatches: 30, Indels: 30
0.81 0.09 0.09
Matches are distributed among these distances:
144 1 0.00
145 124 0.47
146 1 0.00
147 1 0.00
148 1 0.00
149 2 0.01
150 1 0.00
153 1 0.00
154 1 0.00
155 1 0.00
156 1 0.00
157 2 0.01
158 125 0.48
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (157 bp):
ATGACATATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAGATCCGGCATTTGTTGCGAATT
CTCCACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAGG
CCCATTTCATAGCTCGTGTAAGCATAC
Found at i:290594 original size:145 final size:145
Alignment explanation
Indices: 290331--290619 Score: 445
Period size: 145 Copynumber: 2.0 Consensus size: 145
290321 CATTACATGT
* * *
290331 CATATGGGTGCTAGTCTTAGATGTCGTACCGATGGTTGAGATCCGGCATTTGTTGCGAATTCTCC
1 CATATGGGTACTAGTCTTAGATGTCCTACCGATGGCTGAGATCCGGCATTTGTTGCGAATTCTCC
*
290396 ACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGTAGGCCCA
66 ACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAGGCCCA
290461 TTTCACAACTCGTGA
131 TTTCACAACTCGTGA
* *
290476 CATATGGGTACTGGTCTTAGATGTCCTACCGATGGCTGAGATCTGGCATTTGTTGC-AGATTCTC
1 CATATGGGTACTAGTCTTAGATGTCCTACCGATGGCTGAGATCCGGCATTTGTTGCGA-ATTCTC
* * * * *
290540 CACAGCTCATGTGAGTAGCATCGTGTAGTTTAACATCTCGACTCACAGCTCGTGTGAGCAGGCCC
65 CACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAGGCCC
* *
290605 ATTTCATAGCTCGTG
130 ATTTCACAACTCGTG
290620 TGAGCAATAC
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
144 1 0.01
145 129 0.99
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (145 bp):
CATATGGGTACTAGTCTTAGATGTCCTACCGATGGCTGAGATCCGGCATTTGTTGCGAATTCTCC
ACAGCTCATGTGAGCAGCATCGTGTAGCTTAACATCTCAACCCACAACTCGTGTGAGCAGGCCCA
TTTCACAACTCGTGA
Found at i:296896 original size:19 final size:21
Alignment explanation
Indices: 296860--296898 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
296850 TAAGAACTTA
*
296860 TGAATATTTTTATTTATTTTT
1 TGAATATTTTTATATATTTTT
296881 TGAAT-TTTTTA-ATATTTT
1 TGAATATTTTTATATATTTT
296899 GTTAGGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (21 bp):
TGAATATTTTTATATATTTTT
Found at i:301661 original size:42 final size:42
Alignment explanation
Indices: 301614--301699 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
301604 AATCTGTTTG
301614 GTTAAGTTTTGCTATTAGGTTTGTACTATGTGCAAAGTTGTA
1 GTTAAGTTTTGCTATTAGGTTTGTACTATGTGCAAAGTTGTA
301656 GTTAAGTTTTGCTATTAGGTTTGTACTATGTGCAAAGTTGTA
1 GTTAAGTTTTGCTATTAGGTTTGTACTATGTGCAAAGTTGTA
301698 GT
1 GT
301700 GTAACAACCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.45
Consensus pattern (42 bp):
GTTAAGTTTTGCTATTAGGTTTGTACTATGTGCAAAGTTGTA
Found at i:308594 original size:24 final size:24
Alignment explanation
Indices: 308566--308616 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
308556 ATAAATAATC
* *
308566 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTAGTTG
*
308590 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAATTAAACTCTATTTAGTTG
308614 TTT
1 TTT
308617 GAGTCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTAGTTG
Found at i:326150 original size:13 final size:13
Alignment explanation
Indices: 326132--326166 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
326122 TAAAATATGT
*
326132 TCTTCTTCTCTTC
1 TCTTCTTCTATTC
326145 TCTTCTTCTATTC
1 TCTTCTTCTATTC
*
326158 TTTTCTTCT
1 TCTTCTTCT
326167 TAAACCCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (13 bp):
TCTTCTTCTATTC
Found at i:326163 original size:52 final size:51
Alignment explanation
Indices: 326080--326184 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 51
326070 CTTAGTTACT
*
326080 TTCTTCTTCCTTCTTCTCTTCTTTTCGTTTCTTCTTAAACCCTAAAATATG
1 TTCTTCTTCCTTCTTCTCTTCTATTCGTTTCTTCTTAAACCCTAAAATATG
* * *
326131 TTCTTCTTCTCTTC-TCTTCTTCTATTCTTTTCTTCTTAAACCCTACATTATG
1 TTCTTCTTC-CTTCTTC-TCTTCTATTCGTTTCTTCTTAAACCCTAAAATATG
326183 TT
1 TT
326185 GATATGGGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
51 11 0.23
52 37 0.77
ACGTcount: A:0.14, C:0.28, G:0.03, T:0.55
Consensus pattern (51 bp):
TTCTTCTTCCTTCTTCTCTTCTATTCGTTTCTTCTTAAACCCTAAAATATG
Found at i:327725 original size:27 final size:27
Alignment explanation
Indices: 327672--327726 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
327662 AGTAGCAGAA
* *
327672 CAAACATTATATGCAATCTCTCAGTTT
1 CAAACATTATATGCAATCACCCAGTTT
*
327699 CAAACATTATATGCAATCACCCGGTTT
1 CAAACATTATATGCAATCACCCAGTTT
327726 C
1 C
327727 TCTCATAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (27 bp):
CAAACATTATATGCAATCACCCAGTTT
Found at i:329735 original size:27 final size:26
Alignment explanation
Indices: 329704--329755 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
329694 TTCCTTTTTT
*
329704 ATCCACTATCACTTATTCCTCATCTTC
1 ATCCACTACCACTT-TTCCTCATCTTC
*
329731 ATCCACTACCACTTTTTCTCATCTT
1 ATCCACTACCACTTTTCCTCATCTT
329756 TTTTCTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (26 bp):
ATCCACTACCACTTTTCCTCATCTTC
Found at i:331474 original size:18 final size:18
Alignment explanation
Indices: 331448--331554 Score: 52
Period size: 18 Copynumber: 6.2 Consensus size: 18
331438 AAGAGTTAAT
*
331448 TTTAATTTTTTTATATTA
1 TTTAATTTTTTAATATTA
331466 TTT-ATTTTTT--TA--A
1 TTTAATTTTTTAATATTA
*
331479 TTTTATTTTTATAAT-TTA
1 TTTAATTTTT-TAATATTA
* *
331497 ATT-A-TTTTTAATAATA
1 TTTAATTTTTTAATATTA
331513 TTTAATTATTTT-ATAATTTA
1 TTTAATT-TTTTAAT-A-TTA
* * *
331533 ATTAATTTTTTTATATTT
1 TTTAATTTTTTAATATTA
331551 TTTA
1 TTTA
331555 TGTGAATAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
13 4 0.06
14 6 0.09
15 7 0.10
16 8 0.12
17 10 0.14
18 14 0.20
19 10 0.14
20 10 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAATTTTTTAATATTA
Found at i:331483 original size:14 final size:14
Alignment explanation
Indices: 331443--331508 Score: 69
Period size: 14 Copynumber: 4.4 Consensus size: 14
331433 ATGGTAAGAG
331443 TTAATTTTAATTTTT
1 TTAATTTT-ATTTTT
331458 TTATATTATTTATTTTT
1 TTA-A-T-TTTATTTTT
331475 TTAATTTTATTTTT
1 TTAATTTTATTTTT
* *
331489 ATAATTTAATTATTT
1 TTAATTTTATT-TTT
331504 TTAAT
1 TTAAT
331509 AATATTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
14 18 0.41
15 11 0.25
16 2 0.05
17 10 0.23
18 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTAATTTTATTTTT
Found at i:331514 original size:29 final size:28
Alignment explanation
Indices: 331450--331515 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
331440 GAGTTAATTT
*
331450 TAATTTTTTTATATTATTTATTTTTTTAA
1 TAATATTTTTATA-TATTTATTTTTTTAA
**
331479 TTTTATTTTTATA-ATTTAATTATTTTTAA
1 TAATATTTTTATATATTT-ATT-TTTTTAA
331508 TAATATTT
1 TAATATTT
331516 AATTATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 4 0.13
28 3 0.10
29 23 0.77
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
TAATATTTTTATATATTTATTTTTTTAA
Found at i:331517 original size:20 final size:18
Alignment explanation
Indices: 331481--331542 Score: 76
Period size: 17 Copynumber: 3.4 Consensus size: 18
331471 TTTTTTAATT
331481 TTATTTTT-ATAATTTAA
1 TTATTTTTAATAATTTAA
331498 TTATTTTTAATAATATTTAA
1 TTATTTTTAAT-A-ATTTAA
331518 TTA-TTTT-ATAATTTAA
1 TTATTTTTAATAATTTAA
331534 TTAATTTTT
1 TT-ATTTTT
331543 TTATATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.20
17 10 0.25
18 8 0.20
19 5 0.12
20 9 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTTTAATAATTTAA
Found at i:331544 original size:20 final size:20
Alignment explanation
Indices: 331484--331547 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 20
331474 TTTAATTTTA
331484 TTTTTATAATTTAATT-A-T
1 TTTTTATAATTTAATTAATT
* *
331502 TTTTAATAA--TATTTAATT
1 TTTTTATAATTTAATTAATT
*
331520 ATTTTATAATTTAATTAATT
1 TTTTTATAATTTAATTAATT
331540 TTTTTATA
1 TTTTTATA
331548 TTTTTTATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.11
17 1 0.03
18 16 0.44
20 15 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTATAATTTAATTAATT
Found at i:332311 original size:13 final size:12
Alignment explanation
Indices: 332295--332324 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
332285 TAGATTTAAA
332295 TTAAAATTTTAT
1 TTAAAATTTTAT
332307 GTTAAAATTTTAT
1 -TTAAAATTTTAT
332320 TTAAA
1 TTAAA
332325 TAGGTGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTAAAATTTTAT
Found at i:333600 original size:30 final size:30
Alignment explanation
Indices: 333564--333628 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
333554 AACTTAACAC
333564 ACAAATGCCTCTAAAATAATAACAAAATTA
1 ACAAATGCCTCTAAAATAATAACAAAATTA
*
333594 ACAAATGCCTTTAAAATAATAACAAAATTA
1 ACAAATGCCTCTAAAATAATAACAAAATTA
333624 A-AAAT
1 ACAAAT
333629 AAAATAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
ACAAATGCCTCTAAAATAATAACAAAATTA
Found at i:334771 original size:20 final size:21
Alignment explanation
Indices: 334720--334765 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
334710 ATAAATATCA
*
334720 AAACCCTAATTTTAAAAACTT
1 AAACCCTAATTTTAAAAACCT
*
334741 AAACCCTAATTTTAAAACCCT
1 AAACCCTAATTTTAAAAACCT
334762 AAAC
1 AAAC
334766 GTAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (21 bp):
AAACCCTAATTTTAAAAACCT
Found at i:336504 original size:26 final size:26
Alignment explanation
Indices: 336474--336530 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
336464 GGACCCTAGC
336474 GTGCTCTCCATTTATTAGCACGTATT
1 GTGCTCTCCATTTATTAGCACGTATT
*
336500 GTGCTCTCCGTTTATTAGCACGTATT
1 GTGCTCTCCATTTATTAGCACGTATT
336526 GTGCT
1 GTGCT
336531 ATCTGTTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (26 bp):
GTGCTCTCCATTTATTAGCACGTATT
Found at i:336538 original size:26 final size:26
Alignment explanation
Indices: 336474--336539 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
336464 GGACCCTAGC
* *
336474 GTGCTCTCCATTTATTAGCACGTATT
1 GTGCTATCCGTTTATTAGCACGTATT
*
336500 GTGCTCTCCGTTTATTAGCACGTATT
1 GTGCTATCCGTTTATTAGCACGTATT
*
336526 GTGCTATCTGTTTA
1 GTGCTATCCGTTTA
336540 GCACATTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (26 bp):
GTGCTATCCGTTTATTAGCACGTATT
Found at i:339055 original size:18 final size:19
Alignment explanation
Indices: 339024--339064 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
339014 CACAACTAGG
* *
339024 GTTGATAACGAAGA-AAAA
1 GTTGAGAACAAAGAGAAAA
339042 GTTGAGAACAAAGAGAAAA
1 GTTGAGAACAAAGAGAAAA
339061 -TTGA
1 GTTGA
339065 AATCGATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.17
Consensus pattern (19 bp):
GTTGAGAACAAAGAGAAAA
Found at i:340105 original size:17 final size:16
Alignment explanation
Indices: 340073--340118 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
340063 AATATTAATT
*
340073 ATTAAATCAA-TT-TA
1 ATTAAATAAATTTCTA
340087 ATTAAATTAAATTTCTA
1 ATTAAA-TAAATTTCTA
340104 ATTAAATAAATTTCT
1 ATTAAATAAATTTCT
340119 CAACCTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 11 0.39
17 8 0.29
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAAATAAATTTCTA
Found at i:341850 original size:85 final size:85
Alignment explanation
Indices: 341706--341864 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 85
341696 ACACTTCACA
* * * * * *
341706 TACTTGTGTTCTTGCAAGTATGTCATAGGATCATCCGAAGTTGGATTTTGACCTTATCTCTGACA
1 TACTTGTATTCTTGCAAGTATGTCACAGGATCATCCGAAATTGGATTCTAACCTCATCTCTGACA
*
341771 TTGTCTTACTTATGGTGAAG
66 TAGTCTTACTTATGGTGAAG
* * * *
341791 TACTTGTATTTTTTCAAGTATGTCACATGATCATTCGAAATTGGATTCTAACCTCATCTCTGACA
1 TACTTGTATTCTTGCAAGTATGTCACAGGATCATCCGAAATTGGATTCTAACCTCATCTCTGACA
341856 TAGTCTTAC
66 TAGTCTTAC
341865 CTATTATGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (85 bp):
TACTTGTATTCTTGCAAGTATGTCACAGGATCATCCGAAATTGGATTCTAACCTCATCTCTGACA
TAGTCTTACTTATGGTGAAG
Found at i:345545 original size:20 final size:20
Alignment explanation
Indices: 345516--345619 Score: 136
Period size: 20 Copynumber: 5.2 Consensus size: 20
345506 TGTATGCATG
345516 CCCTGATATGCACTTCGGTGC
1 CCCTG-TATGCACTTCGGTGC
* * *
345537 CCCTGTATGAACTTTGGTAC
1 CCCTGTATGCACTTCGGTGC
* *
345557 CCCTGTTTGCACTTCGATGC
1 CCCTGTATGCACTTCGGTGC
*
345577 CCCTGTATGCACTTCAGTGC
1 CCCTGTATGCACTTCGGTGC
*
345597 CCTTGTATGCACTTCGGTGC
1 CCCTGTATGCACTTCGGTGC
345617 CCC
1 CCC
345620 CGTCTTAATT
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
20 64 0.93
21 5 0.07
ACGTcount: A:0.13, C:0.34, G:0.21, T:0.32
Consensus pattern (20 bp):
CCCTGTATGCACTTCGGTGC
Found at i:349928 original size:33 final size:33
Alignment explanation
Indices: 349891--350035 Score: 177
Period size: 33 Copynumber: 4.4 Consensus size: 33
349881 TGTTGACTGT
**
349891 TGGGGAGGGTGATGATGAAGTTATAGAAGTTGA
1 TGGGGAGGGTGATGATGAAGTGGTAGAAGTTGA
*
349924 TGGGGAGGGTGATGATGAAGGGGTAGAAGTTGA
1 TGGGGAGGGTGATGATGAAGTGGTAGAAGTTGA
*
349957 TGGGGAGGGTGATG-TAGGAGTGGTAGAAGTTGA
1 TGGGGAGGGTGATGAT-GAAGTGGTAGAAGTTGA
* * *
349990 TAGGGAGGGTGATGATAAAGGGGTAGAA-TCTGA
1 TGGGGAGGGTGATGATGAAGTGGTAGAAGT-TGA
* *
350023 TGGTGAAGGTGAT
1 TGGGGAGGGTGAT
350036 CTGGAAAGGG
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
32 2 0.02
33 94 0.97
34 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.47, T:0.24
Consensus pattern (33 bp):
TGGGGAGGGTGATGATGAAGTGGTAGAAGTTGA
Found at i:349984 original size:66 final size:66
Alignment explanation
Indices: 349891--350104 Score: 195
Period size: 66 Copynumber: 3.2 Consensus size: 66
349881 TGTTGACTGT
* **
349891 TGGGGAGGGTGATG-ATGAAGTTATAGAAGTTGATGGGGAGGGTGATGATGAAGGGGTAGAAGTT
1 TGGGGAGGGTGATGTA-GGAGTGGTAGAAGTTGATGGGGAGGGTGATGATGAAGGGGTAGAAGTT
349955 GA
65 GA
* *
349957 TGGGGAGGGTGATGTAGGAGTGGTAGAAGTTGATAGGGAGGGTGATGATAAAGGGGTAGAA-TCT
1 TGGGGAGGGTGATGTAGGAGTGGTAGAAGTTGATGGGGAGGGTGATGATGAAGGGGTAGAAGT-T
350021 GA
65 GA
* * * * * * * * * *
350023 TGGTGAAGGTGATCT-GGAAAG-GGTAGAAGCTGTTGAGAAAGGTGATG-TAGGAGGGGTTGAAG
1 TGGGGAGGGTGATGTAGG--AGTGGTAGAAGTTGATGGGGAGGGTGATGAT-GAAGGGGTAGAAG
*
350085 CTGA
63 TTGA
*
350089 TGTGGAGGGTGATGTA
1 TGGGGAGGGTGATGTA
350105 AGAGGGTCTA
Statistics
Matches: 119, Mismatches: 22, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
65 4 0.03
66 112 0.94
67 3 0.03
ACGTcount: A:0.28, C:0.02, G:0.46, T:0.24
Consensus pattern (66 bp):
TGGGGAGGGTGATGTAGGAGTGGTAGAAGTTGATGGGGAGGGTGATGATGAAGGGGTAGAAGTTG
A
Found at i:350017 original size:99 final size:98
Alignment explanation
Indices: 349893--350110 Score: 226
Period size: 99 Copynumber: 2.2 Consensus size: 98
349883 TTGACTGTTG
* ** * * *
349893 GGGAGGGTGATGATGAAGTTATAGAAGT-TGATGGGGAGGGTGATGAT-GAAGGGGTAGAAGTTG
1 GGGAGGGTGATGATAAAGGGATAGAA-TCTGATGGGGAAGGTGAT-ATGGAAAGGGTAGAAGCTG
* * * * *
349956 ATGGGGAGGGTGATGTAGGAGTGGTAGAAGTTGAT
64 ATGAGAAAGGTGATGTAGGAGGGGTAGAAGCTGAT
* * * *
349991 AGGGAGGGTGATGATAAAGGGGTAGAATCTGATGGTGAAGGTGATCTGGAAAGGGTAGAAGCTGT
1 -GGGAGGGTGATGATAAAGGGATAGAATCTGATGGGGAAGGTGATATGGAAAGGGTAGAAGCTGA
*
350056 TGAGAAAGGTGATGTAGGAGGGGTTGAAGCTGAT
65 TGAGAAAGGTGATGTAGGAGGGGTAGAAGCTGAT
350090 GTGGAGGGTGATG-TAAGAGGG
1 G-GGAGGGTGATGATAA-AGGG
350111 TCTACTGTTG
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
98 6 0.06
99 93 0.94
ACGTcount: A:0.28, C:0.02, G:0.47, T:0.23
Consensus pattern (98 bp):
GGGAGGGTGATGATAAAGGGATAGAATCTGATGGGGAAGGTGATATGGAAAGGGTAGAAGCTGAT
GAGAAAGGTGATGTAGGAGGGGTAGAAGCTGAT
Found at i:350085 original size:33 final size:33
Alignment explanation
Indices: 349942--350110 Score: 96
Period size: 33 Copynumber: 5.1 Consensus size: 33
349932 GTGATGATGA
* * * * *
349942 AGGGGTAGAAGTTGATGGGGAGGGTGATGTAGG
1 AGGGGTAGAAGCTGATGAGAAAGGTGATGTAAG
* * * *
349975 AGTGGTAGAAGTTGAT-AGGGAGGGTGATGATAA-
1 AGGGGTAGAAGCTGATGA-GAAAGGTGATG-TAAG
* * *
350008 AGGGGTAGAATCTGATG-GTGAAGGTGATCTGGAA-
1 AGGGGTAGAAGCTGATGAG-AAAGGTGA--TGTAAG
* *
350042 A-GGGTAGAAGCTGTTGAGAAAGGTGATGTAGG
1 AGGGGTAGAAGCTGATGAGAAAGGTGATGTAAG
* * * *
350074 AGGGGTTGAAGCTGATGTGGAGGGTGATGTAAG
1 AGGGGTAGAAGCTGATGAGAAAGGTGATGTAAG
350107 AGGG
1 AGGG
350111 TCTACTGTTG
Statistics
Matches: 108, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
31 3 0.03
32 2 0.02
33 95 0.88
34 6 0.06
35 2 0.02
ACGTcount: A:0.28, C:0.02, G:0.47, T:0.22
Consensus pattern (33 bp):
AGGGGTAGAAGCTGATGAGAAAGGTGATGTAAG
Found at i:350272 original size:51 final size:51
Alignment explanation
Indices: 350143--350274 Score: 192
Period size: 51 Copynumber: 2.6 Consensus size: 51
350133 ATACTGAAGT
* * *
350143 TGTTGCTGATGAATATGCTGCTGATTTTACAACATTAGATGGAGAGGATAA
1 TGTTGCTGATGAATATGCTGCTGATTTTGCAACATCAGATGGAGAGGACAA
* * * *
350194 TGTTACTGGTGAATATGATGCTAATTTTGCAACATCAGATGGAGAGGACAA
1 TGTTGCTGATGAATATGCTGCTGATTTTGCAACATCAGATGGAGAGGACAA
*
350245 TGTTGCTGATGAATATGCTGTTGATTTTGC
1 TGTTGCTGATGAATATGCTGCTGATTTTGC
350275 TGATGAAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.35
Consensus pattern (51 bp):
TGTTGCTGATGAATATGCTGCTGATTTTGCAACATCAGATGGAGAGGACAA
Found at i:351592 original size:53 final size:52
Alignment explanation
Indices: 351463--351592 Score: 165
Period size: 52 Copynumber: 2.5 Consensus size: 52
351453 GTGGGATTTG
* * * *
351463 TATACTCATGATGACA-TAGAGTCATCGGACCTCTTAATCCGTAAAGGATCCA
1 TATACTCACGATGACACT-TAGTCATCAGACCTCTTAATCCATAAAGGATCCA
* *
351515 AATACTCACGATGACACTTAGTCATCAGACCT-TTAAATCCATAAAGGATTTCA
1 TATACTCACGATGACACTTAGTCATCAGACCTCTT-AATCCATAAAGGA-TCCA
351568 TATACTCACGATGACACTTAGTCAT
1 TATACTCACGATGACACTTAGTCAT
351593 TTGACCCCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
51 2 0.03
52 38 0.56
53 28 0.41
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (52 bp):
TATACTCACGATGACACTTAGTCATCAGACCTCTTAATCCATAAAGGATCCA
Found at i:361426 original size:22 final size:22
Alignment explanation
Indices: 361400--361443 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
361390 TTTACACTTA
361400 AATTATCTACATATTAAATTTT
1 AATTATCTACATATTAAATTTT
* **
361422 AATTATTTTTATATTAAATTTT
1 AATTATCTACATATTAAATTTT
361444 TATAAACTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTATCTACATATTAAATTTT
Found at i:364436 original size:120 final size:120
Alignment explanation
Indices: 364223--364465 Score: 317
Period size: 120 Copynumber: 2.0 Consensus size: 120
364213 TCGTAGAGAT
* * * * *
364223 ATATAATTCAAGCTACGACTTAGTAGGCCTTGAGTCGGTGACATGTATCAAGCTACGATTTAGTA
1 ATATAATTCAAGCTACAACTTAGCAGGCCTTGAGCCGATGACATATATCAAGCTACGATTTAGTA
* * *
364288 GGTTTTGAGCCGGTGATATATTTCAAGCTATGGC-TTAGCAAACTTTGAGCCTATG
66 GGCTTTGAGCCGGTGATATATTTCAAGCTACGGCTTTA-CAAACTTTGAGCCGATG
* ** * * * *
364343 ATATATTTCAAGCTACAACTTAGCAGGTTTTGAGCCGATGATATATTTCAAGGTACGGTTTAGTA
1 ATATAATTCAAGCTACAACTTAGCAGGCCTTGAGCCGATGACATATATCAAGCTACGATTTAGTA
**
364408 GGCTTTGAGCCGGTGATATATTTCAAGCTACGGCTTTACAGGCTTTGAGCCGATG
66 GGCTTTGAGCCGGTGATATATTTCAAGCTACGGCTTTACAAACTTTGAGCCGATG
364463 ATA
1 ATA
364466 GGATTCGGGC
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
120 102 0.97
121 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (120 bp):
ATATAATTCAAGCTACAACTTAGCAGGCCTTGAGCCGATGACATATATCAAGCTACGATTTAGTA
GGCTTTGAGCCGGTGATATATTTCAAGCTACGGCTTTACAAACTTTGAGCCGATG
Found at i:364440 original size:40 final size:40
Alignment explanation
Indices: 364223--364465 Score: 245
Period size: 40 Copynumber: 6.1 Consensus size: 40
364213 TCGTAGAGAT
* * * * *
364223 ATATAATTCAAGCTACGACTTAGTAGGCCTTGAGTCGGTG
1 ATATATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGATG
* * * * * * *
364263 ACATGTATCAAGCTACGATTTAGTAGGTTTTGAGCCGGTG
1 ATATATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGATG
* * ** *
364303 ATATATTTCAAGCTATGGCTTAGCAAACTTTGAGCCTATG
1 ATATATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGATG
* *
364343 ATATATTTCAAGCTACAACTTAGCAGGTTTTGAGCCGATG
1 ATATATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGATG
* ** * *
364383 ATATATTTCAAGGTACGGTTTAGTAGGCTTTGAGCCGGTG
1 ATATATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGATG
*
364423 ATATATTTCAAGCTACGGCTTTA-CAGGCTTTGAGCCGATG
1 ATATATTTCAAGCTACGAC-TTAGCAGGCTTTGAGCCGATG
364463 ATA
1 ATA
364466 GGATTCGGGC
Statistics
Matches: 164, Mismatches: 38, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
40 161 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (40 bp):
ATATATTTCAAGCTACGACTTAGCAGGCTTTGAGCCGATG
Found at i:364487 original size:120 final size:120
Alignment explanation
Indices: 364270--364504 Score: 303
Period size: 120 Copynumber: 2.0 Consensus size: 120
364260 GTGACATGTA
* *
364270 TCAAGCTACGATTTAGTAGGTTTTGAGCCGGTGATATATTTCAAGCTATGGCTTAGCAAACTTTG
1 TCAAGCTACGATTTAGTAGGCTTTGAGCCGGTGATATATTTCAAGCTACGGCTTAGCAAACTTTG
* * * * *
364335 AGCCTATGATATATTTCAAGCTACAACTTAGCAGGTTTTGAGCCGATGATATATT
66 AGCCGATGATAGATTTCAAGCTACAACCTAGCAAGTTATGAGCCGATGATATATT
* * **
364390 TCAAGGTACGGTTTAGTAGGCTTTGAGCCGGTGATATATTTCAAGCTACGGCTTTA-CAGGCTTT
1 TCAAGCTACGATTTAGTAGGCTTTGAGCCGGTGATATATTTCAAGCTACGGC-TTAGCAAACTTT
** * *
364454 GAGCCGATGATAGGA-TTCGGGCTATAGCCTAGCAAGTTATGAGCCGATGAT
65 GAGCCGATGATA-GATTTCAAGCTACAACCTAGCAAGTTATGAGCCGATGAT
364505 GTTGTAAAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
120 94 0.96
121 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (120 bp):
TCAAGCTACGATTTAGTAGGCTTTGAGCCGGTGATATATTTCAAGCTACGGCTTAGCAAACTTTG
AGCCGATGATAGATTTCAAGCTACAACCTAGCAAGTTATGAGCCGATGATATATT
Found at i:365565 original size:15 final size:15
Alignment explanation
Indices: 365545--365576 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
365535 CAATTAAATG
365545 GAGACATAATTTTGC
1 GAGACATAATTTTGC
365560 GAGACATAATTTTGC
1 GAGACATAATTTTGC
365575 GA
1 GA
365577 ACCATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (15 bp):
GAGACATAATTTTGC
Found at i:371728 original size:7 final size:7
Alignment explanation
Indices: 371718--371774 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
371708 ACATATTACT
*
371718 TTTAGGG
1 TTTAAGG
*
371725 TTTAAGA
1 TTTAAGG
371732 TTTAAGG
1 TTTAAGG
371739 TTT-AGAG
1 TTTAAG-G
*
371746 TTTAGGG
1 TTTAAGG
* *
371753 TTTATGA
1 TTTAAGG
371760 TTTAAGG
1 TTTAAGG
371767 TTTAAGG
1 TTTAAGG
371774 T
1 T
371775 ACTGTGAACA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
6 2 0.05
7 37 0.93
8 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Done.