Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 54 of 144
Found at i:16704049 original size:36 final size:36
Alignment explanation
Indices: 16703980--16704049 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
16703970 TAATATTATA
* **
16703980 AAATAAATAATAAACAAATAAAAAAATTGAAAAAGT
1 AAATAAAGAATAAACAAATAAAAAAATCAAAAAAGT
16704016 AAATAAAGAA-AAACAAATTAAAAAAATCAAAAAA
1 AAATAAAGAATAAACAAA-TAAAAAAATCAAAAAA
16704050 AGGATAGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 7 0.23
36 23 0.77
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (36 bp):
AAATAAAGAATAAACAAATAAAAAAATCAAAAAAGT
Found at i:16705000 original size:18 final size:19
Alignment explanation
Indices: 16704960--16705001 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
16704950 ATTACATCTT
* * *
16704960 AAAAAATATCGGTTATTAT
1 AAAAAATATCAGTTATGAG
16704979 AAAAAATATCAG-TATGAG
1 AAAAAATATCAGTTATGAG
16704997 AAAAA
1 AAAAA
16705002 TAATTTCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (19 bp):
AAAAAATATCAGTTATGAG
Found at i:16708108 original size:24 final size:24
Alignment explanation
Indices: 16708081--16708127 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16708071 ATTGAAATGG
16708081 ATTG-ATTTAGTATGTGAT-GAATTT
1 ATTGAATTTA-TAT-TGATAGAATTT
16708105 ATTGAATTTATATTGATAGAATT
1 ATTGAATTTATATTGATAGAATT
16708128 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (24 bp):
ATTGAATTTATATTGATAGAATTT
Found at i:16708149 original size:21 final size:21
Alignment explanation
Indices: 16708098--16708151 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
16708088 TAGTATGTGA
* *
16708098 TGAATTTATTGA-ATTTATAT
1 TGAATATATTGATATATATAT
*
16708118 TG-ATAGAATTGATATATATAT
1 TGAATA-TATTGATATATATAT
16708139 TGAATATATTGAT
1 TGAATATATTGAT
16708152 TATTTGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 15 0.56
22 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (21 bp):
TGAATATATTGATATATATAT
Found at i:16716880 original size:38 final size:38
Alignment explanation
Indices: 16716805--16716899 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 38
16716795 ACGAAGAATA
*
16716805 TTGAAGCACAAAATTTTCTTTAAAAAAAAAACTAAATTT
1 TTGAAGCACAAAATTTTCTTT-AAAAAAAAACGAAATTT
* *
16716844 TTGAAGCACAAAAATTTTGTTT-TAAAAAAACGAAATTT
1 TTGAAGCAC-AAAATTTTCTTTAAAAAAAAACGAAATTT
*
16716882 TTGAAACACGAAAATTTT
1 TTGAAGCAC-AAAATTTT
16716900 ATAAACAAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 30 0.60
39 9 0.18
40 11 0.22
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.34
Consensus pattern (38 bp):
TTGAAGCACAAAATTTTCTTTAAAAAAAAACGAAATTT
Found at i:16716979 original size:37 final size:36
Alignment explanation
Indices: 16716879--16716982 Score: 95
Period size: 37 Copynumber: 2.9 Consensus size: 36
16716869 AAAAACGAAA
* * *
16716879 TTTTTGAAACAC-GAAAATTTTATAAACAAG-GATTTT
1 TTTTTGAAACACAAAAAATTTTA-AAACACGAGA-ATT
* * ** *
16716915 TTTTTAAAACACAACAGTTTTTGAAACACGAGAATT
1 TTTTTGAAACACAAAAAATTTTAAAACACGAGAATT
16716951 TTTTTCGAAACACAAAAAATTTTAAAACACGA
1 TTTTT-GAAACACAAAAAATTTTAAAACACGA
16716983 ACATTTGTGA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
36 24 0.46
37 28 0.54
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (36 bp):
TTTTTGAAACACAAAAAATTTTAAAACACGAGAATT
Found at i:16717039 original size:19 final size:18
Alignment explanation
Indices: 16716879--16717380 Score: 157
Period size: 18 Copynumber: 27.5 Consensus size: 18
16716869 AAAAACGAAA
16716879 TTTTTGAAACACGAAAAT
1 TTTTTGAAACACGAAAAT
* * ***
16716897 TTTAT-AAACAAGGATTTT
1 TTTTTGAAAC-ACGAAAAT
* * *
16716915 TTTTTAAAACAC-AACAG
1 TTTTTGAAACACGAAAAT
*
16716932 TTTTTGAAACACGAGAATT
1 TTTTTGAAACACGA-AAAT
*
16716951 TTTTTCGAAACAC-AAAAA
1 TTTTT-GAAACACGAAAAT
* * *
16716969 ATTTTAAAACACGAACA-
1 TTTTTGAAACACGAAAAT
* * **
16716986 TTTGTGAAACATGGGAAT
1 TTTTTGAAACACGAAAAT
*
16717004 TTTTTGAAAACATGAAAAT
1 TTTTTG-AAACACGAAAAT
*
16717023 TTTTTGAAACACGGAAACT
1 TTTTTGAAACAC-GAAAAT
* **
16717042 TTTTAGAAAAACACGAATTTTT
1 TTTTTG--AAACACGAA--AAT
* *
16717064 TTCTTATTAAATCACCG-GAA-
1 TT-TT-TGAAA-CA-CGAAAAT
*
16717084 TTTTTGAAAACAC-AAAAA
1 TTTTTG-AAACACGAAAAT
*
16717102 TCTTTGAAACATCG-AAA-
1 TTTTTGAAACA-CGAAAAT
**
16717119 TTTTTGAAAACACGAGGAT
1 TTTTTG-AAACACGAAAAT
*
16717138 TTTTTGAAACACGAAATT
1 TTTTTGAAACACGAAAAT
* *
16717156 TTTTTGAAAATACGAAGATTTTT
1 TTTTTG-AAACACGAA-A---AT
*
16717179 TTTTTGAAAACACGTAAA-
1 TTTTTG-AAACACGAAAAT
* *
16717197 TTTTTAAAACACGAGAA-
1 TTTTTGAAACACGAAAAT
*
16717214 TTTTTGAAACACCG-GAAT
1 TTTTTGAAACA-CGAAAAT
* * *
16717232 TTTTTAAAACATGAGAA-
1 TTTTTGAAACACGAAAAT
*
16717249 TTTTTGAAACACGAAAAA
1 TTTTTGAAACACGAAAAT
*
16717267 TTTTT--AAGAC-AAAA-
1 TTTTTGAAACACGAAAAT
*
16717281 -TTTTAAAACACGAGAAAAAT
1 TTTTTGAAACAC--G-AAAAT
* *
16717301 TTTTTGAAACCATGACAA-
1 TTTTTGAAA-CACGAAAAT
16717319 TTTTTGAAACACCG-AAA-
1 TTTTTGAAACA-CGAAAAT
* ** *
16717336 TCTTCAAAACACGAAGA-
1 TTTTTGAAACACGAAAAT
*
16717353 TTTTTGAATACACGAAGAT
1 TTTTTGAA-ACACGAAAAT
16717372 TTTTTGAAA
1 TTTTTGAAA
16717381 GACGGGAAAA
Statistics
Matches: 361, Mismatches: 76, Indels: 94
0.68 0.14 0.18
Matches are distributed among these distances:
13 4 0.01
15 8 0.02
16 6 0.02
17 103 0.29
18 111 0.31
19 71 0.20
20 14 0.04
21 13 0.04
22 9 0.02
23 20 0.06
24 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAACACGAAAAT
Found at i:16717184 original size:23 final size:23
Alignment explanation
Indices: 16717154--16717201 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
16717144 AAACACGAAA
*
16717154 TTTTTTTGAAAATACG-AAGATTT
1 TTTTTTTGAAAACACGTAA-ATTT
16717177 TTTTTTTGAAAACACGTAAATTT
1 TTTTTTTGAAAACACGTAAATTT
16717200 TT
1 TT
16717202 AAAACACGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (23 bp):
TTTTTTTGAAAACACGTAAATTT
Found at i:16717217 original size:40 final size:40
Alignment explanation
Indices: 16717104--16717218 Score: 111
Period size: 37 Copynumber: 3.0 Consensus size: 40
16717094 CACAAAAATC
*
16717104 TTTGAAACATCGAAA-TTTTTGAAAACACGAGGA----TTT
1 TTTGAAACA-CGAAATTTTTTGAAAACACGAAGATTTTTTT
*
16717140 TTTGAAACACGAAATTTTTTTGAAAATACGAAGATTTTTTT
1 TTTGAAACACGAAA-TTTTTTGAAAACACGAAGATTTTTTT
*
16717181 TTTGAAAACACGTAAA-TTTTT-AAAACACG-AGAATTTTT
1 TTTG-AAACACG-AAATTTTTTGAAAACACGAAGATTTTTT
16717219 GAAACACCGG
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
35 5 0.07
36 9 0.13
37 16 0.24
39 8 0.12
40 7 0.10
41 12 0.18
42 7 0.10
43 3 0.04
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (40 bp):
TTTGAAACACGAAATTTTTTGAAAACACGAAGATTTTTTT
Found at i:16717268 original size:18 final size:17
Alignment explanation
Indices: 16716876--16717380 Score: 155
Period size: 17 Copynumber: 27.7 Consensus size: 17
16716866 TAAAAAAACG
16716876 AAATTTTTGAAACACGA
1 AAATTTTTGAAACACGA
*
16716893 AAATTTTAT-AAACAAGGA
1 AAATTTT-TGAAAC-ACGA
*** *
16716911 TTTTTTTTTAAAACAC-A
1 -AAATTTTTGAAACACGA
*
16716928 ACAGTTTTTGAAACACGA
1 A-AATTTTTGAAACACGA
* *
16716946 GAATTTTTTTCGAAACACAA
1 -AA-ATTTTT-GAAACACGA
* *
16716966 AAAATTTTAAAACACGA
1 AAATTTTTGAAACACGA
* * * *
16716983 ACATTTGTGAAACATGGG
1 AAATTTTTGAAACA-CGA
* *
16717001 AATTTTTTGAAAACATGA
1 AAATTTTTG-AAACACGA
16717019 AAATTTTTTGAAACACGGA
1 AAA-TTTTTGAAACAC-GA
*
16717038 AACTTTTTAGAAAAACACGA
1 AAATTTTT-G--AAACACGA
** *
16717058 ATTTTTTTCTTATTAAATCACCG-
1 A---AATT-TT-TGAAA-CA-CGA
* *
16717081 GAATTTTTGAAAACACAA
1 AAATTTTTG-AAACACGA
*
16717099 AAATCTTTGAAACATCG-
1 AAATTTTTGAAACA-CGA
16717116 AAATTTTTGAAAACACGA
1 AAATTTTTG-AAACACGA
* *
16717134 GGATTTTTTGAAACACGA
1 -AAATTTTTGAAACACGA
* *
16717152 AATTTTTTTGAAAATACGA
1 AA-ATTTTTG-AAACACGA
* *
16717171 AGATTTTTTTTTTGAAAACACGT
1 A-A----ATTTTTG-AAACACGA
*
16717194 AAATTTTTAAAACACGA
1 AAATTTTTGAAACACGA
* *
16717211 GAATTTTTGAAACACCGG
1 AAATTTTTGAAACA-CGA
* * *
16717229 AATTTTTTAAAACATGA
1 AAATTTTTGAAACACGA
*
16717246 GAATTTTTGAAACACGAA
1 AAATTTTTGAAACACG-A
*
16717264 AAATTTTT--AAGAC-A
1 AAATTTTTGAAACACGA
*
16717278 AAA-TTTTAAAACACGAGAA
1 AAATTTTTGAAACAC--G-A
*
16717297 AAATTTTTTGAAACCATGA
1 AAA-TTTTTGAAA-CACGA
*
16717316 CAATTTTTGAAACACCG-
1 AAATTTTTGAAACA-CGA
* **
16717333 AAATCTTCAAAACACGA
1 AAATTTTTGAAACACGA
*
16717350 AGATTTTTGAATACACGA
1 AAATTTTTGAA-ACACGA
*
16717368 AGATTTTTTGAAA
1 A-AATTTTTGAAA
16717381 GACGGGAAAA
Statistics
Matches: 359, Mismatches: 79, Indels: 99
0.67 0.15 0.18
Matches are distributed among these distances:
13 4 0.01
14 4 0.01
15 4 0.01
16 6 0.02
17 108 0.30
18 107 0.30
19 67 0.19
20 15 0.04
21 13 0.04
22 6 0.02
23 20 0.06
24 4 0.01
25 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (17 bp):
AAATTTTTGAAACACGA
Found at i:16717271 original size:35 final size:33
Alignment explanation
Indices: 16717082--16717375 Score: 157
Period size: 35 Copynumber: 8.2 Consensus size: 33
16717072 AAATCACCGG
* *
16717082 AATTTTTGAAAACACAAAAATCTTTGAAACATCG-A
1 AATTTTT-AAAACAC-GAAATTTTTGAAACA-CGAA
*
16717117 AATTTTTGAAAACACGAGGATTTTTTGAAACACGAA
1 AATTTTT-AAAACACGA--AATTTTTGAAACACGAA
* * *
16717153 ATTTTTTTGAAAATACGAAGATTTTTTTTTTGAAAACACGTA
1 A-ATTTTT-AAAACACGAA-A-----TTTTTG-AAACACGAA
*
16717195 AATTTTTAAAACACGAGAATTTTTGAAACACCGGA
1 AATTTTTAAAACACGA-AATTTTTGAAACA-CGAA
* *
16717230 ATTTTTTAAAACATGAGAATTTTTGAAACACGAAA
1 AATTTTTAAAACACGA-AATTTTTGAAACACG-AA
* *
16717265 AATTTTTAAGACA--AAA-TTTTAAAACACGAGAAA
1 AATTTTTAAAACACGAAATTTTTGAAACAC--G-AA
* *
16717298 AATTTTTTGAAACCATGACAATTTTTGAAACACCG-A
1 AA-TTTTT-AAAACACGA-AATTTTTGAAACA-CGAA
* *
16717334 AATCTTCAAAACACGAAGATTTTTGAATACACGAA
1 AATTTTTAAAACACGAA-ATTTTTGAA-ACACGAA
*
16717369 GATTTTT
1 AATTTTT
16717376 TGAAAGACGG
Statistics
Matches: 207, Mismatches: 26, Indels: 52
0.73 0.09 0.18
Matches are distributed among these distances:
31 10 0.05
32 2 0.01
33 8 0.04
34 31 0.15
35 82 0.40
36 16 0.08
37 15 0.07
38 3 0.01
39 9 0.04
40 10 0.05
41 12 0.06
42 9 0.04
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (33 bp):
AATTTTTAAAACACGAAATTTTTGAAACACGAA
Found at i:16717737 original size:14 final size:14
Alignment explanation
Indices: 16717716--16717751 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16717706 TAAATAAATT
16717716 AAAT-TAAATACAA
1 AAATATAAATACAA
16717729 AAATATAAATACAA
1 AAATATAAATACAA
*
16717743 GAATATAAA
1 AAATATAAA
16717752 AATGCATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (14 bp):
AAATATAAATACAA
Found at i:16717912 original size:21 final size:21
Alignment explanation
Indices: 16717887--16717937 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
16717877 ATTGAACCTT
16717887 TTTTTTC-TCTTTCTC-TTTC
1 TTTTTTCTTCTTTCTCTTTTC
*
16717906 TCTTTTTCTTCTTTTTCTTTTC
1 T-TTTTTCTTCTTTCTCTTTTC
16717928 TTTTTT-TTCT
1 TTTTTTCTTCT
16717938 GCTGGGCCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 10 0.36
21 12 0.43
22 5 0.18
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTCTTTCTCTTTTC
Found at i:16717917 original size:23 final size:20
Alignment explanation
Indices: 16717884--16717937 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 20
16717874 CAAATTGAAC
16717884 CTTTTTTTTCTCTTTCTCTTTCT
1 CTTTTTTTTCT-TTT-TCTTT-T
*
16717907 CTTTTTCTTCTTTTTCTTTT
1 CTTTTTTTTCTTTTTCTTTT
16717927 CTTTTTTTTCT
1 CTTTTTTTTCT
16717938 GCTGGGCCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.38
21 5 0.17
22 3 0.10
23 10 0.34
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTTTTCTTTTTCTTTT
Found at i:16717926 original size:14 final size:14
Alignment explanation
Indices: 16717888--16717937 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
16717878 TTGAACCTTT
16717888 TTTTTCTCTTTC-TC
1 TTTTTCT-TTTCTTC
*
16717902 TTTCTCTTTTTCTTC
1 TTTTTC-TTTTCTTC
*
16717917 TTTTTCTTTTCTTT
1 TTTTTCTTTTCTTC
16717931 TTTTTCT
1 TTTTTCT
16717938 GCTGGGCCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTTCTTC
Found at i:16718190 original size:23 final size:23
Alignment explanation
Indices: 16718164--16718221 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
16718154 GGCCGCTGTT
* *
16718164 GGGTCGGGTTGGGTCACCGGATC
1 GGGTCGGGTCGGGGCACCGGATC
16718187 GGGTCGGGTCGGGGCACCGGATC
1 GGGTCGGGTCGGGGCACCGGATC
*
16718210 GGGTCAGGTCGG
1 GGGTCGGGTCGG
16718222 CCTGATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.09, C:0.22, G:0.52, T:0.17
Consensus pattern (23 bp):
GGGTCGGGTCGGGGCACCGGATC
Found at i:16718252 original size:7 final size:7
Alignment explanation
Indices: 16718243--16718295 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
16718233 AAAAAAAAAT
*
16718243 TTCTTTT
1 TTCTTTC
16718250 TTCTTTC
1 TTCTTTC
*
16718257 TTCTTCC
1 TTCTTTC
*
16718264 TTCTTCC
1 TTCTTTC
16718271 TTC-TTC
1 TTCTTTC
*
16718277 TTTTTTC
1 TTCTTTC
*
16718284 TTCTTTT
1 TTCTTTC
16718291 TTCTT
1 TTCTT
16718296 CTCCTTCGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 4 0.10
7 35 0.90
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTCTTTC
Found at i:16719850 original size:243 final size:237
Alignment explanation
Indices: 16719334--16720285 Score: 1190
Period size: 243 Copynumber: 4.0 Consensus size: 237
16719324 GAGTTGATTT
* * * * * **
16719334 TTTTTAAAAAACAAAAATTGAAAA-ATACCTTG-GTGTGACCTAAGGCTCAACTCACCTCTCGCA
1 TTTTTGAAAAACAGAAATTTAAAAGATACCTCGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
* * * *
16719397 ATATGAGTTGAATTTTG--AGAAACAGAAATTTAAAAAAAATACCTTAGCGTGTGACCCGGGGCT
66 ATATGAGTTGATTTTTGAAAAAAACAGAAA-TT--AAAAAATACCTCAGCGTGTGACCCGAGGCT
*
16719460 CAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAACATAAATTTTTTAAAAAATACC
128 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAAAACAGAAA-TTTTTAAAAAATACC
* * * *
16719525 TCAGCGTGTGACATGGGGCTCAACACACCTCTCGCAATATTAGTTGA
191 TCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
16719572 TTTTTGAAAAACAGAAATTTAAAAGATAACTCGTATGTGACTCGAGGCTCAACTCACCTCTCGCA
1 TTTTTGAAAAACAGAAATTTAAAAGATACCTCGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
*
16719637 ATATGAGTTGATTTTTTGAAAAAAAACAGAAATTTTTAAAAAATACCTCAGCGTGTGACCTGAGG
66 ATATGAGTTGA-TTTTTG-AAAAAAACAGAAA---TTAAAAAATACCTCAGCGTGTGACCCGAGG
** * *
16719702 CTCAACTCGTCTCTCGCACTATGAGTTGATTTTTTGAAACAAAAACAGAAATTTTTAAAAAATAC
126 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAAAAACAGAAATTTTTAAAAAATAC
16719767 CTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
190 CTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
16719815 TTTTTGAAAAACAGAAATTTAAAAGATACCTCGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTTTGAAAAACAGAAATTTAAAAGATACCTCGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
* **
16719880 ATATGAGTTGA--TTT-AAAAAAATAGAAATT-AAAAATACCTCAGC--GTGACCCGATACTCAA
66 ATATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAATACCTCAGCGTGTGACCCGAGGCTCAA
* * * * * *
16719939 CTCACATCTCGCATTATGAGTTGATTTTTG----AAAAACA-AAAATTTAAAAGAAATACTTCGG
131 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAAACAGAAATTTTTAAA-AAATACCTCAG
* * *
16719999 CATGTGTCC-GAGGCTCAACTCACCTCTCGTAATATGAGTTGA
195 CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
16720041 TTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCT
1 -TTTTTGAAAAACAGAAATTTAAAAG--ATACCTC-GTATGTGACCCGAGGCTCAACTCACCTCT
* *
16720106 CGCAATATGAGTTGATTTTTTTGAAAAAAACAGAAATTGAAAAATACCTCAG-GATGTGCCCCGA
62 CGCAATATGAGTTGA--TTTTTGAAAAAAACAGAAATTAAAAAATACCTCAGCG-TGTGACCCGA
* * *
16720170 GGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAAAAAAAAGAAA---TTGAAAAATA
124 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAAACAGAAATTTTTAAAAAATA
* *
16720232 CCTC-GACGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
189 CCTCAG-CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
16720281 TTTTT
1 TTTTT
16720286 TTTTGCAAAA
Statistics
Matches: 629, Mismatches: 56, Indels: 57
0.85 0.08 0.08
Matches are distributed among these distances:
226 41 0.07
227 47 0.07
229 7 0.01
230 44 0.07
231 6 0.01
232 33 0.05
234 17 0.03
235 16 0.03
236 13 0.02
238 74 0.12
239 25 0.04
240 76 0.12
241 5 0.01
242 6 0.01
243 135 0.21
244 81 0.13
246 3 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (237 bp):
TTTTTGAAAAACAGAAATTTAAAAGATACCTCGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAAAAACAGAAATTAAAAAATACCTCAGCGTGTGACCCGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAAAACAGAAATTTTTAAAAAATACCTCAGC
GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
Found at i:16720105 original size:80 final size:79
Alignment explanation
Indices: 16719293--16720285 Score: 987
Period size: 80 Copynumber: 12.5 Consensus size: 79
16719283 CTCGACGTGC
* * ** * * *
16719293 GACCCGAAGCTCAATTCACCTCTCG-AGCCATGAGTTGATTTTTTTTAAAAAACA-AAAATT-GA
1 GACCCGAGGCTCAACTCACCTCTCGCA-ATATGAGTTGA--TTTTTGAAAAAACAGAAATTTAAA
* *
16719355 AAAATACCT-TG-GTGT
63 AAAATACCTCAGCATGT
** * *
16719370 GACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AGAAACAGAAATTTAAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTT-AAAAA
* *
16719434 AATACCTTAGCGTGT
65 AATACCTCAGCATGT
* *
16719449 GACCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAACATAAATTTTT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG---AAAAAACAGAAA--TTT
* *
16719514 TAAAAAATACCTCAGCGTGT
60 AAAAAAATACCTCAGCATGT
** * * * *
16719534 GACATGGGGCTCAACACACCTCTCGCAATATTAGTTGATTTTTG-AAAAACAGAAATTT-AAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTTAAAAAA
* *
16719597 ATAACTC-GTATGT
66 ATACCTCAGCATGT
* *
16719610 GACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAACAGAAATTTTTA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG--AAAAAACAGAAA-TTTAA
*
16719675 AAAAATACCTCAGCGTGT
62 AAAAATACCTCAGCATGT
* ** * *
16719693 GACCTGAGGCTCAACTCGTCTCTCGCACTATGAGTTGATTTTTTGAAACAAAAACAGAAATTTTT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG--A-AAAAACAGAAA-TTTA
*
16719758 AAAAAATACCTCAGCGTGT
61 AAAAAATACCTCAGCATGT
* *
16719777 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTT-AAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTTAAAAAA
*
16719840 ATACCTC-GTATGT
66 ATACCTCAGCATGT
* *
16719853 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTAAAAAAATAGAAA-TT--AAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTTAAAAAA
16719913 ATACCTCAGC--GT
66 ATACCTCAGCATGT
** * * *
16719925 GACCCGATACTCAACTCACATCTCGCATTATGAGTTGATTTTTG-AAAAACAAAAATTTAAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTTAAAA-A
* *
16719989 AATACTTCGGCATGT
65 AATACCTCAGCATGT
* * *
16720004 G-TCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTG-AAAAATAGAAATTTAAAAG
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAACAGAAATTTAAAA-
* *
16720067 AAATACCTCGGTATGT
64 AAATACCTCAGCATGT
*
16720083 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAACAGAAA-TT-GA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAAAACAGAAATTTAAA
*
16720146 AAAATACCTCAGGATGT
63 AAAATACCTCAGCATGT
* * * *
16720163 GCCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAAAAAAAAGAAA-TT-GA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG---AAAAAACAGAAATTTAAA
* *
16720226 AAAATACCTC-GACGTGC
63 AAAATACCTCAG-CATGT
16720243 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
16720286 TTTTGCAAAA
Statistics
Matches: 790, Mismatches: 87, Indels: 75
0.83 0.09 0.08
Matches are distributed among these distances:
72 36 0.05
73 19 0.02
74 17 0.02
75 19 0.02
76 80 0.10
77 77 0.10
78 44 0.06
79 92 0.12
80 179 0.23
81 12 0.02
82 12 0.02
83 63 0.08
84 85 0.11
85 52 0.07
86 3 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (79 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTTAAAAAA
ATACCTCAGCATGT
Found at i:16721194 original size:10 final size:10
Alignment explanation
Indices: 16721181--16721273 Score: 52
Period size: 10 Copynumber: 9.4 Consensus size: 10
16721171 GATTTTTTTC
16721181 TTTTTTGTTT
1 TTTTTTGTTT
16721191 TTTTGTT-TTT
1 TTTT-TTGTTT
16721201 GTTTTCTTGTTT
1 -TTTT-TTGTTT
* *
16721213 CTTTCTGTTT
1 TTTTTTGTTT
* *
16721223 CTTTCTG--T
1 TTTTTTGTTT
16721231 TTTTTTG--T
1 TTTTTTGTTT
16721239 TTTTTTGTTT
1 TTTTTTGTTT
*
16721249 TTTTTCTATTT
1 TTTTT-TGTTT
* *
16721260 TTTTCTATTT
1 TTTTTTGTTT
16721270 TTTT
1 TTTT
16721274 AGGCATAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
8 14 0.20
10 34 0.49
11 19 0.27
12 3 0.04
ACGTcount: A:0.02, C:0.08, G:0.09, T:0.82
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:16721238 original size:36 final size:37
Alignment explanation
Indices: 16721196--16721273 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
16721186 TGTTTTTTTG
* *
16721196 TTTTTGTTTTCTTG-TTTCTTTCTGTTTCTTTCTGTT
1 TTTTTGTTTTCTTGTTTTCTTTCTATTTCTTTCTATT
* * *
16721232 TTTTTGTTTTTTTGTTTTTTTTCTATTTTTTTCTATT
1 TTTTTGTTTTCTTGTTTTCTTTCTATTTCTTTCTATT
16721269 TTTTT
1 TTTTT
16721274 AGGCATAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 13 0.36
37 23 0.64
ACGTcount: A:0.03, C:0.09, G:0.08, T:0.81
Consensus pattern (37 bp):
TTTTTGTTTTCTTGTTTTCTTTCTATTTCTTTCTATT
Found at i:16727402 original size:37 final size:38
Alignment explanation
Indices: 16727360--16727452 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
16727350 ACGAAGAATA
*
16727360 TTGAAGCAC-AAAATTTTCTTTAAAAAAAACTAAATTT
1 TTGAAGCACAAAAATTTTCTTTAAAAAAAACGAAATTT
* *
16727397 TTGAAGTACAAAAATTTTGTTTAAAAAAAACGAAATTT
1 TTGAAGCACAAAAATTTTCTTTAAAAAAAACGAAATTT
*
16727435 TTG-AGACACGAAAATTTT
1 TTGAAG-CACAAAAATTTT
16727453 ATAAACACGG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 10 0.20
38 39 0.80
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (38 bp):
TTGAAGCACAAAAATTTTCTTTAAAAAAAACGAAATTT
Found at i:16727524 original size:20 final size:20
Alignment explanation
Indices: 16727483--16727524 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16727473 AACACGACAG
* * *
16727483 TTTTTGAAACACGAGAATTT
1 TTTTTGAAACACAAAAAATT
16727503 TTTTTGAAACACAAAAAATT
1 TTTTTGAAACACAAAAAATT
16727523 TT
1 TT
16727525 AAGACACGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTTGAAACACAAAAAATT
Found at i:16727590 original size:19 final size:18
Alignment explanation
Indices: 16727432--16727905 Score: 127
Period size: 17 Copynumber: 26.3 Consensus size: 18
16727422 AAAAACGAAA
*
16727432 TTTTTGAGACACGAAAAT
1 TTTTTGAAACACGAAAAT
* * *
16727450 TTTAT-AAACACG-GATT
1 TTTTTGAAACACGAAAAT
* * *
16727466 TTTTTAAAACACG-ACAG
1 TTTTTGAAACACGAAAAT
*
16727483 TTTTTGAAACACGAGAATTT
1 TTTTTGAAACACGA-AA-AT
*
16727503 TTTTTGAAACAC-AAAAA
1 TTTTTGAAACACGAAAAT
* *
16727520 ATTTT-AAGACACGAACA-
1 TTTTTGAA-ACACGAAAAT
* * *
16727537 TTTGTGAAACA-TAGGAAT
1 TTTTTGAAACACGA-AAAT
*
16727555 TTTTTGAAAACATGAAAAT
1 TTTTTG-AAACACGAAAAT
*
16727574 TTTTTGAAACACGGAAACT
1 TTTTTGAAACAC-GAAAAT
* **
16727593 TTTTAGAAAAACACGAATTTTTT
1 TTTTTG--AAACACGAA---AAT
* *
16727616 TCTTTTTAAATCACCG-GAA-
1 T-TTTTGAAA-CA-CGAAAAT
*
16727635 TTTTTGAAAACAC-AAAAA
1 TTTTTG-AAACACGAAAAT
*
16727653 TCTTTGAAACATCG-AAA-
1 TTTTTGAAACA-CGAAAAT
**
16727670 TTTTTGAAAACACGAGGAT
1 TTTTTG-AAACACGAAAAT
16727689 TTTTTGAAACACGAAAA-
1 TTTTTGAAACACGAAAAT
* ** *
16727706 TTTTTAAAACACG-GGAG
1 TTTTTGAAACACGAAAAT
* *
16727723 TTTCTGAAACACCG-GAA-
1 TTTTTGAAACA-CGAAAAT
* **
16727740 TTTTTGAAAACATGAGGA-
1 TTTTTG-AAACACGAAAAT
*
16727758 TTTTTGAAACACGAAAAA
1 TTTTTGAAACACGAAAAT
16727776 TTTTT-AAGACA--AAAA-
1 TTTTTGAA-ACACGAAAAT
* *
16727791 ATTTTAAAACACGAGAAATT
1 TTTTTGAAACACGA-AAA-T
* *
16727811 TTTTTGAAACCATGACAA-
1 TTTTTGAAA-CACGAAAAT
16727829 TTTTTGAAACACCG-AAA-
1 TTTTTGAAACA-CGAAAAT
* *
16727846 -TCTTGAAAACACGAAGA-
1 TTTTTG-AAACACGAAAAT
*
16727863 TTTTTGAATACACGAAGAT
1 TTTTTGAA-ACACGAAAAT
* *
16727882 TTTTTGAAAGACGGGAAAT
1 TTTTTGAAACAC-GAAAAT
16727901 TTTTT
1 TTTTT
16727906 TTTTAACACG
Statistics
Matches: 340, Mismatches: 68, Indels: 95
0.68 0.14 0.19
Matches are distributed among these distances:
15 7 0.02
16 22 0.06
17 106 0.31
18 105 0.31
19 53 0.16
20 25 0.07
21 10 0.03
22 3 0.01
23 4 0.01
24 5 0.01
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (18 bp):
TTTTTGAAACACGAAAAT
Found at i:16727672 original size:35 final size:36
Alignment explanation
Indices: 16727633--16727890 Score: 123
Period size: 35 Copynumber: 7.3 Consensus size: 36
16727623 AAATCACCGG
16727633 AATTTTTGAAAACAC-AAAAATCTTTGAAACATCG-A
1 AATTTTTGAAAACACGAAAAATCTTTGAAACA-CGAA
** * *
16727668 AATTTTTGAAAACACGAGGATTTTTTGAAACACGAA
1 AATTTTTGAAAACACGAAAAATCTTTGAAACACGAA
** * *
16727704 AATTTTT-AAAACACG-GGAGT-TTCTGAAACACCG-G
1 AATTTTTGAAAACACGAAAAATCTT-TGAAACA-CGAA
* ** *
16727738 AATTTTTGAAAACATG-AGGATTTTTGAAACACGAAA
1 AATTTTTGAAAACACGAAAAATCTTTGAAACACG-AA
* *
16727774 AATTTTT-AAGACA--AAAAAT-TTTAAAACACGAGA
1 AATTTTTGAAAACACGAAAAATCTTTGAAACACGA-A
* * * *
16727807 AATTTTTTTGAAACCATG-ACAATTTTTGAAACACCG-A
1 AA--TTTTTGAAAACACGAAAAATCTTTGAAACA-CGAA
* * *
16727844 AA-TCTTGAAAACACG-AAGATTTTTGAATACACGAA
1 AATTTTTGAAAACACGAAAAATCTTTGAA-ACACGAA
*
16727879 GATTTTTTGAAA
1 -AATTTTTGAAA
16727891 GACGGGAAAT
Statistics
Matches: 176, Mismatches: 26, Indels: 40
0.73 0.11 0.17
Matches are distributed among these distances:
32 1 0.01
33 15 0.09
34 45 0.26
35 57 0.32
36 34 0.19
37 14 0.08
38 8 0.05
39 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (36 bp):
AATTTTTGAAAACACGAAAAATCTTTGAAACACGAA
Found at i:16727779 original size:17 final size:17
Alignment explanation
Indices: 16727759--16727878 Score: 59
Period size: 18 Copynumber: 6.8 Consensus size: 17
16727749 ACATGAGGAT
16727759 TTTTGAAACACGAAAAA
1 TTTTGAAACACGAAAAA
*
16727776 TTTTTAAGACA--AAAAA
1 TTTTGAA-ACACGAAAAA
* *
16727792 TTTTAAAACACGAGAAATTT
1 TTTTGAAACACGA-AAA--A
* * *
16727812 TTTTGAAACCATGACAAT
1 TTTTGAAA-CACGAAAAA
16727830 TTTTGAAACACCG--AAA
1 TTTTGAAACA-CGAAAAA
* * *
16727846 TCTTGAAAACACGAAGAT
1 TTTTG-AAACACGAAAAA
16727864 TTTTGAATACACGAA
1 TTTTGAA-ACACGAA
16727879 GATTTTTTGA
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
15 3 0.04
16 19 0.24
17 16 0.20
18 28 0.35
20 9 0.11
21 4 0.05
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (17 bp):
TTTTGAAACACGAAAAA
Found at i:16727814 original size:70 final size:71
Alignment explanation
Indices: 16727633--16727845 Score: 206
Period size: 70 Copynumber: 3.0 Consensus size: 71
16727623 AAATCACCGG
* * *
16727633 AATTTTTGAAAACACAAAAATCTT-TGAAACATC-GAAATTTTTGAAAACACGAGGATTTTTTGA
1 AATTTTT-AAAACACAAAAAT-TTCTAAAACACCGGAAATTTTTGAAAACATGAGGA-TTTTTGA
16727696 AACACG-AA
63 AACACGAAA
*** * *
16727704 AATTTTTAAAACACGGGAGTTTCTGAAACACCGG-AATTTTTGAAAACATGAGGATTTTTGAAAC
1 AATTTTTAAAACACAAAAATTTCTAAAACACCGGAAATTTTTGAAAACATGAGGATTTTTGAAAC
16727768 ACGAAA
66 ACGAAA
* * **
16727774 AATTTTTAAGACA-AAAAATTT-TAAAACA-CGAGAAATTTTTTTGAAACCATGACAATTTTTGA
1 AATTTTTAAAACACAAAAATTTCTAAAACACCG-GAAA--TTTTTGAAAACATGAGGATTTTTGA
16727836 AACACCGAAA
63 AACA-CGAAA
16727846 TCTTGAAAAC
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
67 2 0.02
68 7 0.06
69 21 0.18
70 50 0.42
71 34 0.29
72 5 0.04
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (71 bp):
AATTTTTAAAACACAAAAATTTCTAAAACACCGGAAATTTTTGAAAACATGAGGATTTTTGAAAC
ACGAAA
Found at i:16728248 original size:14 final size:14
Alignment explanation
Indices: 16728227--16728262 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16728217 TAAATAAATT
16728227 AAAT-TAAATACAA
1 AAATATAAATACAA
16728240 AAATATAAATACAA
1 AAATATAAATACAA
*
16728254 GAATATAAA
1 AAATATAAA
16728263 AATGCATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (14 bp):
AAATATAAATACAA
Found at i:16728435 original size:20 final size:19
Alignment explanation
Indices: 16728407--16728458 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
16728397 TTTTTTCCTT
*
16728407 TTTTTTTTTTCTCTTTCTC
1 TTTTCTTTTTCTCTTTCTC
*
16728426 TTTCTCTTTTTCTTCTTTTTC
1 TTT-TCTTTTTC-TCTTTCTC
*
16728447 TTTTTTTTTTCT
1 TTTTCTTTTTCT
16728459 GCTGGGCCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.50
21 10 0.36
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTTCTCTTTCTC
Found at i:16728767 original size:7 final size:7
Alignment explanation
Indices: 16728758--16728827 Score: 60
Period size: 7 Copynumber: 10.6 Consensus size: 7
16728748 AAAAAAAAAT
*
16728758 TTCTTTT
1 TTCTTTC
16728765 TTCTTTC
1 TTCTTTC
*
16728772 TTCTTCC
1 TTCTTTC
*
16728779 TTCTTCC
1 TTCTTTC
16728786 TTC-TTC
1 TTCTTTC
16728792 TTC-TT-
1 TTCTTTC
16728797 TT-TTTC
1 TTCTTTC
16728803 TTCTTTTC
1 TTC-TTTC
16728811 TTC-TTC
1 TTCTTTC
*
16728817 TTTTTTC
1 TTCTTTC
16728824 TTCT
1 TTCT
16728828 CCTTCGACAG
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
5 4 0.08
6 14 0.26
7 28 0.53
8 7 0.13
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTTTC
Found at i:16728775 original size:3 final size:3
Alignment explanation
Indices: 16728769--16728832 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
16728759 TCTTTTTTCT
*
16728769 TTC TTC TTCC TTC TTCC TTC TTC TTC TT- TTT TTC TTC TT- TTC TTC
1 TTC TTC TT-C TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
16728814 TTC TT- TT- TTC TTC TCC TTC
1 TTC TTC TTC TTC TTC TTC TTC
16728833 GACAGCAGCC
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
2 8 0.15
3 39 0.74
4 6 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:16728784 original size:10 final size:9
Alignment explanation
Indices: 16728769--16728832 Score: 64
Period size: 8 Copynumber: 7.3 Consensus size: 9
16728759 TCTTTTTTCT
16728769 TTCTTCTTCC
1 TTCTTCTT-C
16728779 TTCTTCCTTC
1 TTCTT-CTTC
16728789 TTCTTCTT-
1 TTCTTCTTC
*
16728797 TTTTTCTTC
1 TTCTTCTTC
16728806 TT-TTCTTC
1 TTCTTCTTC
16728814 TTCTT-TT-
1 TTCTTCTTC
*
16728821 TTCTTCTCC
1 TTCTTCTTC
16728830 TTC
1 TTC
16728833 GACAGCAGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
7 5 0.11
8 18 0.38
9 10 0.21
10 11 0.23
11 3 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (9 bp):
TTCTTCTTC
Found at i:16728814 original size:22 final size:21
Alignment explanation
Indices: 16728758--16728827 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
16728748 AAAAAAAAAT
16728758 TTCTTTTTTCTTTCTTCTTCCTTC
1 TTCTTTTTTC-TTCTT-TT-CTTC
* * *
16728782 TTCCTTCTTCTTCTTTTTTTC
1 TTCTTTTTTCTTCTTTTCTTC
16728803 TTCTTTTCTTCTTCTTTT-TTC
1 TTCTTTT-TTCTTCTTTTCTTC
16728824 TTCT
1 TTCT
16728828 CCTTCGACAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 15 0.38
22 12 0.30
23 5 0.12
24 8 0.20
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTCTTTTTTCTTCTTTTCTTC
Found at i:16728817 original size:35 final size:35
Alignment explanation
Indices: 16728761--16728827 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 35
16728751 AAAAAATTTC
16728761 TTTTTTCTTTCTTCTTCCTTCTTCCTTCTTCTTCT
1 TTTTTTCTTTCTTCTTCCTTCTTCCTTCTTCTTCT
* *
16728796 TTTTTTC-TTCTT-TT-CTTCTTCTTTTTTCTTCT
1 TTTTTTCTTTCTTCTTCCTTCTTCCTTCTTCTTCT
16728828 CCTTCGACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 16 0.53
33 2 0.07
34 5 0.17
35 7 0.23
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (35 bp):
TTTTTTCTTTCTTCTTCCTTCTTCCTTCTTCTTCT
Found at i:16730034 original size:17 final size:17
Alignment explanation
Indices: 16730012--16730049 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
16730002 TTCCCATAAA
16730012 TATGGCAATATGATTCT
1 TATGGCAATATGATTCT
16730029 TATGGCAATATGATTCT
1 TATGGCAATATGATTCT
16730046 TATG
1 TATG
16730050 ATAAAAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (17 bp):
TATGGCAATATGATTCT
Found at i:16732082 original size:24 final size:24
Alignment explanation
Indices: 16732022--16732075 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
16732012 AAAATAAATC
*
16732022 AACGAGGAAAGAGTACCAACACCT
1 AACGAGGAAGGAGTACCAACACCT
* *
16732046 AACGAGGAAGGAGTACCAACGCTT
1 AACGAGGAAGGAGTACCAACACCT
16732070 AACGAG
1 AACGAG
16732076 CGAGGAGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.26, T:0.09
Consensus pattern (24 bp):
AACGAGGAAGGAGTACCAACACCT
Found at i:16734233 original size:11 final size:11
Alignment explanation
Indices: 16734219--16734300 Score: 73
Period size: 11 Copynumber: 7.5 Consensus size: 11
16734209 AATTTTTTAA
16734219 TTTTAAAATAT
1 TTTTAAAATAT
16734230 TTTTAAAATAGT
1 TTTTAAAATA-T
**
16734242 TTTTTTAAT-T
1 TTTTAAAATAT
*
16734252 TTTT--TA-AT
1 TTTTAAAATAT
16734260 TTTTAAAATAT
1 TTTTAAAATAT
16734271 TTTTAAAATACTT
1 TTTTAAAATA--T
*
16734284 TTTTAAAATTT
1 TTTTAAAATAT
16734295 TTTTAA
1 TTTTAA
16734301 TTTTTAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
8 6 0.10
10 6 0.10
11 29 0.49
12 8 0.14
13 10 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16734286 original size:30 final size:30
Alignment explanation
Indices: 16734228--16734286 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
16734218 ATTTTAAAAT
** *
16734228 ATTTTTAAAATAGTTTTTTTAATTTTTTTA
1 ATTTTTAAAATAGTTTTTAAAATCTTTTTA
16734258 ATTTTTAAAATA-TTTTTAAAATACTTTTT
1 ATTTTTAAAATAGTTTTTAAAAT-CTTTTT
16734287 TAAAATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (30 bp):
ATTTTTAAAATAGTTTTTAAAATCTTTTTA
Found at i:16734300 original size:42 final size:41
Alignment explanation
Indices: 16734202--16734317 Score: 182
Period size: 41 Copynumber: 2.8 Consensus size: 41
16734192 ATATATTTAT
*
16734202 TTTTTTAAA-TTTTTTAA-TTTTAAAATATTTTTAAAATAG
1 TTTTTTAAATTTTTTTAATTTTTAAAATATTTTTAAAATAC
*
16734241 TTTTTTTAATTTTTTTAATTTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTTAATTTTTAAAATATTTTTAAAATAC
16734282 TTTTTTAAAATTTTTTTAATTTTTAAAATAATTTTT
1 TTTTTT-AAATTTTTTTAATTTTTAAAAT-ATTTTT
16734318 TGGTATTTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
39 8 0.11
40 8 0.11
41 27 0.39
42 21 0.30
43 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (41 bp):
TTTTTTAAATTTTTTTAATTTTTAAAATATTTTTAAAATAC
Found at i:16734337 original size:23 final size:20
Alignment explanation
Indices: 16734248--16734337 Score: 72
Period size: 20 Copynumber: 4.2 Consensus size: 20
16734238 TAGTTTTTTT
16734248 AATTTTTTTAATTTTTAAAA
1 AATTTTTTTAATTTTTAAAA
* ** **
16734268 TATTTTTAAAATACTTTTTTAA
1 AATTTTTTTAAT--TTTTAAAA
16734290 AATTTTTTTAATTTTTAAAA
1 AATTTTTTTAATTTTTAAAA
*
16734310 TAATTTTTTGGTATTTATTTAAAA
1 -AATTTTTT--TAATT-TTTAAAA
16734334 AATT
1 AATT
16734338 GGCCGGGCCG
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
20 15 0.28
21 8 0.15
22 15 0.28
23 8 0.15
24 7 0.13
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (20 bp):
AATTTTTTTAATTTTTAAAA
Found at i:16735402 original size:6 final size:6
Alignment explanation
Indices: 16735393--16735419 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16735383 TTTCTCTTTT
16735393 ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATA
16735420 ATAATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:16738667 original size:9 final size:9
Alignment explanation
Indices: 16738646--16738730 Score: 73
Period size: 9 Copynumber: 9.0 Consensus size: 9
16738636 TATAAAGATA
16738646 TATATATTTT
1 TATA-ATTTT
*
16738656 TATAAATTT
1 TATAATTTT
**
16738665 TATGTTTTT
1 TATAATTTT
16738674 TATTTAATTTAT
1 TA--TAATTT-T
16738686 TATAATTTT
1 TATAATTTT
*
16738695 TATAAATTT
1 TATAATTTT
*
16738704 TA-ATTTTTT
1 TATA-ATTTT
16738713 TATAATTTT
1 TATAATTTT
16738722 TATAATTTT
1 TATAATTTT
16738731 AAAATGTATT
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
8 1 0.02
9 41 0.68
10 11 0.18
11 4 0.07
12 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (9 bp):
TATAATTTT
Found at i:16738694 original size:39 final size:36
Alignment explanation
Indices: 16738646--16738730 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 36
16738636 TATAAAGATA
16738646 TATATATTTTTATAAATTTT-ATGTTTTTTATTTAATTTAT
1 TATA-ATTTTTATAAATTTTAAT-TTTTTTA--TAATTT-T
16738686 TATAATTTTTATAAATTTTAATTTTTTTATAATTTT
1 TATAATTTTTATAAATTTTAATTTTTTTATAATTTT
16738722 TATAATTTT
1 TATAATTTT
16738731 AAAATGTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
36 10 0.23
37 6 0.14
39 22 0.50
40 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (36 bp):
TATAATTTTTATAAATTTTAATTTTTTTATAATTTT
Found at i:16738709 original size:16 final size:17
Alignment explanation
Indices: 16738688--16738721 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16738678 TAATTTATTA
16738688 TAATTTTTATA-AATTT
1 TAATTTTTATATAATTT
*
16738704 TAATTTTTTTATAATTT
1 TAATTTTTATATAATTT
16738721 T
1 T
16738722 TATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTATATAATTT
Found at i:16738723 original size:27 final size:25
Alignment explanation
Indices: 16738676--16738732 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 25
16738666 ATGTTTTTTA
16738676 TTTAATTTATTATAATTTTTATAAAT
1 TTTAATTTATTATAATTTTTAT-AAT
*
16738702 TTTAATTTTTTTATAATTTTTATAAT
1 TTTAA-TTTATTATAATTTTTATAAT
16738728 TTTAA
1 TTTAA
16738733 AATGTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTAATTTATTATAATTTTTATAAT
Found at i:16739384 original size:29 final size:30
Alignment explanation
Indices: 16739320--16739400 Score: 101
Period size: 31 Copynumber: 2.7 Consensus size: 30
16739310 AATCTTAAAA
* *
16739320 TTATACATGAATTATGGTTTAATGTGCAATT
1 TTATACATGAATTTTGATTT-ATGTGCAATT
* *
16739351 GTATACATGAATTTTGATTT-TGTGTAATT
1 TTATACATGAATTTTGATTTATGTGCAATT
16739380 TTATACATGAAATTTTGATTT
1 TTATACATG-AATTTTGATTT
16739401 GATCCAATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 16 0.36
30 11 0.25
31 17 0.39
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (30 bp):
TTATACATGAATTTTGATTTATGTGCAATT
Found at i:16745306 original size:21 final size:21
Alignment explanation
Indices: 16745282--16745328 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
16745272 GACAAGACAA
*
16745282 AAAAATATAACTCCATTAGGT
1 AAAAATATAACTCCATAAGGT
* *
16745303 AAAAATATAATTGCATAAGGT
1 AAAAATATAACTCCATAAGGT
16745324 AAAAA
1 AAAAA
16745329 ATGTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (21 bp):
AAAAATATAACTCCATAAGGT
Found at i:16746165 original size:21 final size:22
Alignment explanation
Indices: 16746140--16746182 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16746130 ATCACTCCCG
16746140 AATAATTTGT-TTCTTATTTTT
1 AATAATTTGTATTCTTATTTTT
* *
16746161 AATAATTTTTATTTTTATTTTT
1 AATAATTTGTATTCTTATTTTT
16746183 TTTTCTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
AATAATTTGTATTCTTATTTTT
Found at i:16746677 original size:14 final size:14
Alignment explanation
Indices: 16746658--16746691 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16746648 ATTGCTATTG
16746658 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
16746672 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
16746686 TTTGCT
1 GTTGCT
16746692 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:16746809 original size:40 final size:41
Alignment explanation
Indices: 16746759--16747047 Score: 166
Period size: 42 Copynumber: 6.9 Consensus size: 41
16746749 GTTTTTGTAT
* * *
16746759 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-T
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAA
* *
16746799 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTG-AA
* * ***
16746842 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAA
** * * ***
16746884 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAA
** * * * * * * ***
16746926 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGACATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGC-GTTTGAA
* * * ***
16746968 ACAAACGCCGCTAAAGAACATGTTCTTTACCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAA
** * * *
16747010 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
16747048 TTTTCTAAGC
Statistics
Matches: 206, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
40 32 0.16
41 6 0.03
42 134 0.65
43 34 0.17
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (41 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAA
Found at i:16746911 original size:42 final size:42
Alignment explanation
Indices: 16746847--16747091 Score: 350
Period size: 42 Copynumber: 5.8 Consensus size: 42
16746837 AGAAAAAAAA
**
16746847 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
*
16746889 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * * *
16746931 CGCCGCTAAAGAACATGGTCTTTAGTGACATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
* *
16746973 CGCCGCTAAAGAACATGTTCTTTACCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
16747015 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
16747057 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
16747092 GTTTGTAAAC
Statistics
Matches: 182, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.01
42 175 0.96
43 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:16747005 original size:126 final size:126
Alignment explanation
Indices: 16746844--16747080 Score: 413
Period size: 126 Copynumber: 1.9 Consensus size: 126
16746834 ATTAGAAAAA
* *
16746844 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTTAAGCGCCGCTAAAGAACATGTT
1 AAACGCCGCTAAAGAACATGATCTTTACCGGCGTTTTCCTC-TAAGCGCCGCTAAAGAACATGAT
16746908 CTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGACATTTTTTTAC
65 CTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGACATTTTTTTAC
* **
16746970 AAACGCCGCTAAAGAACATGTTCTTTACCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAACGCCGCTAAAGAACATGATCTTTACCGGCGTTTTCCTCTAAGCGCCGCTAAAGAACATGATC
16747035 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
66 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
16747081 ACGGCGTTTT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 104 0.99
127 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (126 bp):
AAACGCCGCTAAAGAACATGATCTTTACCGGCGTTTTCCTCTAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGACATTTTTTTAC
Found at i:16748778 original size:27 final size:28
Alignment explanation
Indices: 16748748--16748801 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
16748738 TTAATATTTA
*
16748748 TCTTTTAA-ATAAATTAA-CGAATATAGT
1 TCTTTTAAGAAAAATTAACCG-ATATAGT
16748775 TCTTTTAAGAAAAATTAACCGATATAG
1 TCTTTTAAGAAAAATTAACCGATATAG
16748802 ATAAAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 14 0.58
29 2 0.08
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (28 bp):
TCTTTTAAGAAAAATTAACCGATATAGT
Found at i:16749220 original size:15 final size:15
Alignment explanation
Indices: 16749200--16749240 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
16749190 ACCTCGTACA
16749200 TAAAATTTGTAATTC
1 TAAAATTTGTAATTC
16749215 TAAAATTTGTAATTC
1 TAAAATTTGTAATTC
*
16749230 TAATATTTGTA
1 TAAAATTTGTA
16749241 TATTTTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (15 bp):
TAAAATTTGTAATTC
Found at i:16749566 original size:17 final size:17
Alignment explanation
Indices: 16749544--16749585 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
16749534 TATATTATAA
16749544 AAATATATATTATTTTT
1 AAATATATATTATTTTT
16749561 AAATATATATTATTTTT
1 AAATATATATTATTTTT
16749578 AAAT-TATA
1 AAATATATA
16749586 ATATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATATATATTATTTTT
Found at i:16750835 original size:23 final size:23
Alignment explanation
Indices: 16750805--16750867 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
16750795 AGGTTGAACC
16750805 TTTC-AAAATGGTCAAATTACTT
1 TTTCTAAAATGGTCAAATTACTT
16750827 TTTCTAAAATGGTCAAATTACTT
1 TTTCTAAAATGGTCAAATTACTT
*
16750850 TTTCTAAAATGCTCAAAT
1 TTTCTAAAATGGTCAAAT
16750868 AAGAGCTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 4 0.10
23 35 0.90
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (23 bp):
TTTCTAAAATGGTCAAATTACTT
Found at i:16752844 original size:29 final size:29
Alignment explanation
Indices: 16752773--16752859 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 29
16752763 GAATTTATAT
**
16752773 TTTTAAAATTAAAAAGTTGAGAAACTAAA
1 TTTTAAAATTAAAAAGTAAAGAAACTAAA
* *
16752802 TTTCTAAAAATAAAAA-TAAAGAGACTAAA
1 TTT-TAAAATTAAAAAGTAAAGAAACTAAA
*
16752831 TTTTAAATATTAAAAGAGTATAAGTAACT
1 TTTTAAA-ATTAAAA-AGTA-AAGAAACT
16752860 GCTTCTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
28 4 0.09
29 22 0.48
30 12 0.26
31 2 0.04
32 6 0.13
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (29 bp):
TTTTAAAATTAAAAAGTAAAGAAACTAAA
Found at i:16753268 original size:3 final size:3
Alignment explanation
Indices: 16753262--16753314 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
16753252 TACATTCATC
16753262 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16753310 ATT AT
1 ATT AT
16753315 GATCACTATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16760086 original size:59 final size:61
Alignment explanation
Indices: 16760021--16760137 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
16760011 ATCACTTTAA
* * *
16760021 TATTAAATTAATATAATAATTA-T-CAAGATAAATATTAGATTAAATTGAATATTAAATCT
1 TATTAAATTAATAGAATAATTACTACAAGATAAACATTAAATTAAATTGAATATTAAATCT
* * *
16760080 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATAATTA-CTACAAGATAAACATTAAATTAAATTGAATATTAA
16760138 GATAATCATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (61 bp):
TATTAAATTAATAGAATAATTACTACAAGATAAACATTAAATTAAATTGAATATTAAATCT
Found at i:16760169 original size:25 final size:25
Alignment explanation
Indices: 16760122--16760169 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16760112 AAACATTAAA
*
16760122 TTTAATTTAATATTAAGATAATCAT
1 TTTAATTTAATATTAAGAAAATCAT
*
16760147 TTTAATATTAA-ATTAATAAAATC
1 TTTAAT-TTAATATTAAGAAAATC
16760170 CTAATTAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAT
Found at i:16764339 original size:19 final size:20
Alignment explanation
Indices: 16764295--16764345 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
16764285 TTACAATTTT
16764295 ATTTTAATAATAAATTCTAAC
1 ATTTTAATAAT-AATTCTAAC
*
16764316 A--TTAATAATAATTTTAA-
1 ATTTTAATAATAATTCTAAC
16764333 ATTTTAAGTAATA
1 ATTTTAA-TAATA
16764346 TTCATAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.04
18 7 0.27
19 12 0.46
20 5 0.19
21 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTTAATAATAATTCTAAC
Found at i:16767744 original size:15 final size:15
Alignment explanation
Indices: 16767724--16767753 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16767714 ATAAGCAGAA
*
16767724 TTTCAGACAAATATT
1 TTTCAGAAAAATATT
16767739 TTTCAGAAAAATATT
1 TTTCAGAAAAATATT
16767754 AACCATCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (15 bp):
TTTCAGAAAAATATT
Found at i:16774786 original size:29 final size:29
Alignment explanation
Indices: 16774744--16774800 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
16774734 GTGGCTGGTA
16774744 AACACAAAAAAAAAAAAAAAAAAACCACC
1 AACACAAAAAAAAAAAAAAAAAAACCACC
* * *
16774773 AACACACAAAAAAAAAAAACAAGACCAC
1 AACACAAAAAAAAAAAAAAAAAAACCAC
16774801 ACTATTAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.75, C:0.23, G:0.02, T:0.00
Consensus pattern (29 bp):
AACACAAAAAAAAAAAAAAAAAAACCACC
Found at i:16775499 original size:7 final size:6
Alignment explanation
Indices: 16775483--16775516 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
16775473 TCAGTGACTC
*
16775483 TAAAAA TAAAAA TTAAAA TAGAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA TAA
16775517 TTTTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:16775544 original size:35 final size:36
Alignment explanation
Indices: 16775491--16775565 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
16775481 TCTAAAAATA
* * *
16775491 AAAATTAAAATAGAAAATAAA-AATAATTTTTTTAT
1 AAAATTAAAAGACAAAATAAATAATAATTTTTTAAT
* *
16775526 AAAATTAAAAGACCAAATAAATTATTAATTTTTTAAT
1 AAAATTAAAAGACAAAATAAA-TAATAATTTTTTAAT
16775563 AAA
1 AAA
16775566 TTTACTAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 18 0.55
37 15 0.45
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (36 bp):
AAAATTAAAAGACAAAATAAATAATAATTTTTTAAT
Found at i:16776034 original size:3 final size:3
Alignment explanation
Indices: 16776026--16776050 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16776016 AAGTTGTTTT
16776026 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
16776051 AGACTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16778124 original size:16 final size:16
Alignment explanation
Indices: 16778102--16778135 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
16778092 AAAATAAAAA
16778102 ATAATATA-AAT-TTT
1 ATAATATATAATCTTT
16778116 ATAATATATAATCTTT
1 ATAATATATAATCTTT
16778132 ATAA
1 ATAA
16778136 AAAAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATATATAATCTTT
Found at i:16782839 original size:20 final size:21
Alignment explanation
Indices: 16782802--16782840 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16782792 AATTCAATAC
16782802 ATTCAATCAATATTTTAATCG
1 ATTCAATCAATATTTTAATCG
16782823 ATTCAATCAAT-TTTTAAT
1 ATTCAATCAATATTTTAAT
16782841 TTAACTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTCAATCAATATTTTAATCG
Found at i:16783364 original size:6 final size:6
Alignment explanation
Indices: 16783355--16783381 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16783345 TCTTCCATTT
16783355 CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCC
16783382 CATCCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTTC
Found at i:16786598 original size:34 final size:35
Alignment explanation
Indices: 16786532--16786598 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16786522 CAAACACCAG
*
16786532 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
16786567 AAAATCTTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
16786599 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:16792592 original size:10 final size:11
Alignment explanation
Indices: 16792572--16792596 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16792562 ATGAAACCCA
16792572 TTTCTTTTTTT
1 TTTCTTTTTTT
16792583 TTTCTTTTTTT
1 TTTCTTTTTTT
16792594 TTT
1 TTT
16792597 GTGGGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:16793282 original size:58 final size:59
Alignment explanation
Indices: 16793150--16793286 Score: 154
Period size: 58 Copynumber: 2.3 Consensus size: 59
16793140 TTTGAACCAA
* * *
16793150 AAAGCCAAGTTTAAGTACCTAATTGGACCAAAATAAACTTTAGGTATCAAATTGAATATT
1 AAAGCCAAGTTCAAGTACCTAATTGGACC-AAATAAACTTTAGGTATCAAATTAAACATT
* * * *
16793210 AAAGTCAAGCTCAAGTACCTAATTGGA-C-AATAAAGCTTTAGGTGA-CAATTTAAACCTT
1 AAAGCCAAGTTCAAGTACCTAATTGGACCAAATAAA-CTTTAGGT-ATCAAATTAAACATT
*
16793268 AAAGCCGAGTTCAAGTACC
1 AAAGCCAAGTTCAAGTACC
16793287 AAGATGTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
57 6 0.09
58 33 0.51
59 2 0.03
60 24 0.37
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (59 bp):
AAAGCCAAGTTCAAGTACCTAATTGGACCAAATAAACTTTAGGTATCAAATTAAACATT
Found at i:16800518 original size:10 final size:11
Alignment explanation
Indices: 16800498--16800522 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16800488 ATGAAACCCA
16800498 TTTCTTTTTTT
1 TTTCTTTTTTT
16800509 TTTCTTTTTTT
1 TTTCTTTTTTT
16800520 TTT
1 TTT
16800523 GTGGGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:16801208 original size:58 final size:59
Alignment explanation
Indices: 16801076--16801212 Score: 154
Period size: 58 Copynumber: 2.3 Consensus size: 59
16801066 TTTGAACCAA
* * *
16801076 AAAGCCAAGTTTAAGTACCTAATTGGACCAAAATAAACTTTAGGTATCAAATTGAATATT
1 AAAGCCAAGTTCAAGTACCTAATTGGACC-AAATAAACTTTAGGTATCAAATTAAACATT
* * * *
16801136 AAAGTCAAGCTCAAGTACCTAATTGGA-C-AATAAAGCTTTAGGTGA-CAATTTAAACCTT
1 AAAGCCAAGTTCAAGTACCTAATTGGACCAAATAAA-CTTTAGGT-ATCAAATTAAACATT
*
16801194 AAAGCCGAGTTCAAGTACC
1 AAAGCCAAGTTCAAGTACC
16801213 AAGATGTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
57 6 0.09
58 33 0.51
59 2 0.03
60 24 0.37
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (59 bp):
AAAGCCAAGTTCAAGTACCTAATTGGACCAAATAAACTTTAGGTATCAAATTAAACATT
Found at i:16803456 original size:40 final size:40
Alignment explanation
Indices: 16803373--16803955 Score: 929
Period size: 40 Copynumber: 14.6 Consensus size: 40
16803363 TTGAATGCTG
* * * * * *
16803373 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16803413 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16803453 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16803493 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16803533 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16803573 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16803613 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16803653 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16803693 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16803733 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16803773 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16803813 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16803853 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16803893 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16803932 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16803956 TGAACGAGGA
Statistics
Matches: 519, Mismatches: 21, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
39 35 0.07
40 476 0.92
41 8 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16812262 original size:215 final size:214
Alignment explanation
Indices: 16811696--16812463 Score: 738
Period size: 222 Copynumber: 3.5 Consensus size: 214
16811686 AACCACATGG
* * * ** * * *
16811696 AAAACACAAAAATCATCGATTAAGCTACCTGGAACAACAAAATTTGATCA-TAATAAGAATAGCT
1 AAAACAGAAATATCATCAATTAAGCTACCCCGAACAACAATATTTGAT-AGTAATAAGCATGGCT
* * * * *
16811760 CAAATAGAGTAATATCTAGATATAGGCATAA-AAAAGAGAACCCATAGATCATTATATCATAGTC
65 CAAATAGAGTTATATCCAGATATAGGCA-AAGAAAAAAGAAACCAAAGATCATTATATCATA-T-
* *
16811824 AACCATAAAAAAGTCCTAAAAGAAAGAGCATATCGGAAGCTTCA-ATGCAATAACA-AGGTTAAT
127 AACCAAAAAAAAGTCCCAAAAGAAAGAGCATATCGGAAGCTT-AGATGCAATAACAGAGGTTAAT
*
16811887 ACCAAAACCATTGCATGGCAAAACCGTACGG
191 ------ACCATTGCATGGCAAAACCGTAC-C
* * * * * * *
16811918 AAAATAAAAAGATCATCAATTAAGCTTCCCCAAACAACAATATTTTATAGTAATAAGCAAGGCTC
1 AAAACAGAAATATCATCAATTAAGCTACCCCGAACAACAATATTTGATAGTAATAAGCATGGCTC
** * *
16811983 AAATAGAGTTATATCCAGCA-ATCCGCAAAGAAAAACGAATCCAAAGATCATTATATCATATAAC
66 AAATAGAGTTATATCCAG-ATATAGGCAAAGAAAAAAGAAACCAAAGATCATTATATCATATAAC
* *
16812047 CAAAAAAACAGTCCCAAAAGAAAGAGCATATCAGCAGCTTAGATGCAATAACAGA-GTTAATACC
130 CAAAAAAA-AGTCCCAAAAGAAAGAGCATATCGGAAGCTTAGATGCAATAACAGAGGTTAATACC
*
16812111 ATGGCATGGCAAAACCGTACC
194 ATTGCATGGCAAAACCGTACC
* ** * **
16812132 AAAACAGAAATATCATCTATTAAGCTACCCCGAACAACTGTATTTGATCGTGGTAAGCATGGCTC
1 AAAACAGAAATATCATCAATTAAGCTACCCCGAACAACAATATTTGATAGTAATAAGCATGGCTC
*
16812197 AAATAGAGTTATATCCAGATATATGCAAAGAAAAAATGAAACCAAAGATCATTATATCATATAAC
66 AAATAGAGTTATATCCAGATATAGGCAAAGAAAAAA-GAAACCAAAGATCATTATATCATATAAC
* * * *
16812262 CATAAAAAAGAATTCCCAAAAGAAAGAGCATATCGGAAACTTCGATACAATAACAGCCACAGGGC
130 C--AAAAAA-AAGTCCCAAAAGAAAGAGCATATCGGAAGCTTAGATGCAATAACAG----A-GG-
* * * *
16812327 TAATACCAAAACCATTGTATGGAAAAATCGTACC
186 T--T---AATACCATTGCATGGCAAAACCGTACC
* * * * * * *
16812361 GAAAACAGAAATATCACCCATTACGCTATCCTGAACAACAGTATTCGATAGTAATAAGCATGGCT
1 -AAAACAGAAATATCATCAATTAAGCTACCCCGAACAACAATATTTGATAGTAATAAGCATGGCT
16812426 CAAATAGAGTTATATATCCAGATATAGGCAAAGAAAAA
65 CAAATAGAG-T-TATATCCAGATATAGGCAAAGAAAAA
16812464 CTGATCATGT
Statistics
Matches: 454, Mismatches: 66, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
213 1 0.00
214 83 0.18
215 50 0.11
217 45 0.10
218 1 0.00
220 11 0.02
221 50 0.11
222 98 0.22
223 2 0.00
224 1 0.00
226 1 0.00
229 22 0.05
230 63 0.14
231 1 0.00
232 25 0.06
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (214 bp):
AAAACAGAAATATCATCAATTAAGCTACCCCGAACAACAATATTTGATAGTAATAAGCATGGCTC
AAATAGAGTTATATCCAGATATAGGCAAAGAAAAAAGAAACCAAAGATCATTATATCATATAACC
AAAAAAAAGTCCCAAAAGAAAGAGCATATCGGAAGCTTAGATGCAATAACAGAGGTTAATACCAT
TGCATGGCAAAACCGTACC
Found at i:16827542 original size:15 final size:15
Alignment explanation
Indices: 16827522--16827552 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16827512 CAACTATCAT
16827522 AGGTTATAAAATGAC
1 AGGTTATAAAATGAC
16827537 AGGTTATAAAATGAC
1 AGGTTATAAAATGAC
16827552 A
1 A
16827553 TGTCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (15 bp):
AGGTTATAAAATGAC
Found at i:16845060 original size:23 final size:22
Alignment explanation
Indices: 16845029--16845077 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
16845019 AATGACAAAT
*
16845029 TTTGTAAATGTTA-ATGGCTAAA
1 TTTGTAAATGTTATAGGGCT-AA
*
16845051 TTTGTAAAATTTTATAGGGCTAA
1 TTTGT-AAATGTTATAGGGCTAA
16845074 TTTG
1 TTTG
16845078 GGGTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 13 0.57
24 5 0.22
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (22 bp):
TTTGTAAATGTTATAGGGCTAA
Found at i:16845934 original size:112 final size:113
Alignment explanation
Indices: 16845787--16846020 Score: 282
Period size: 113 Copynumber: 2.1 Consensus size: 113
16845777 GATTCACAAA
*
16845787 AAGCGCCGCAAAAAAATAAGGCCAACGACGTCG-TTT-ATTGAGTTTTTGGGCCATTAGCGGCGT
1 AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTTCATTG-GTTTTTGGGCCATTAGCGGCGT
*
16845850 TTT-TACAAAAGCGCC-CTAATGCTCCTG-TCTTTAGCGGCG-TTTTCTGAG
65 TTTCT-CAAAAGCGCCGCTAATGAT-CTGTTCTTTAGCGGCGTTTTTCTG-G
* * * * *
16845898 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTGTTTTTTGGGCCTTTAGCGGCGT
1 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCCGTTTTCATTGGTTTTTGGGCCATTAGCGGCGT
* * * *
16845963 TTTCTTAAAAGCGCCGCTAATGATTTGTTTTTTAGCGGCGTTTTTCTGT
65 TTTCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
16846012 AAGCGCCGC
1 AAGCGCCGC
16846021 TAATAGTAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
111 15 0.14
112 15 0.14
113 37 0.35
114 31 0.30
115 7 0.07
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (113 bp):
AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTTCATTGGTTTTTGGGCCATTAGCGGCGTT
TTCTCAAAAGCGCCGCTAATGATCTGTTCTTTAGCGGCGTTTTTCTGG
Found at i:16846404 original size:18 final size:21
Alignment explanation
Indices: 16846358--16846406 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
16846348 TAGTTCGACT
16846358 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
16846379 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
16846397 AAATTAATAT
1 AAATTAATAT
16846407 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:16846690 original size:15 final size:16
Alignment explanation
Indices: 16846672--16846702 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16846662 GCTTTAAGAC
16846672 TTAGGGTT-TAGGGGT
1 TTAGGGTTATAGGGGT
16846687 TTAGGGTTATAGGGGT
1 TTAGGGTTATAGGGGT
16846703 CGTGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (16 bp):
TTAGGGTTATAGGGGT
Found at i:16847069 original size:14 final size:14
Alignment explanation
Indices: 16846994--16847071 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 14
16846984 TCGGATGTAA
*
16846994 GGGTTTGTGGTTTG
1 GGGTTTGGGGTTTG
16847008 GGGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
* * *
16847022 GGATTTGGGTTTTT
1 GGGTTTGGGGTTTG
* * * *
16847036 GAGTTTAGAGTTTA
1 GGGTTTGGGGTTTG
**
16847050 ATGTTTGGGGTTTG
1 GGGTTTGGGGTTTG
16847064 GGGTTTGG
1 GGGTTTGG
16847072 AAATTTAAGG
Statistics
Matches: 47, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (14 bp):
GGGTTTGGGGTTTG
Found at i:16847894 original size:230 final size:230
Alignment explanation
Indices: 16847490--16847998 Score: 761
Period size: 230 Copynumber: 2.2 Consensus size: 230
16847480 AAGAAAACGG
*
16847490 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
* * * ** *
16847555 CGGGAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
*
16847620 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
* * **
16847685 AACGTCGCAAACTCGAAATGGTGTTACGAAAAATGA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
*
16847721 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTTCTTTGTTA
1 CGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTTCTTTGTTA
*
16847786 CAGAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
65 CAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTT
* * *
16847850 AAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTATATATA
130 AAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATA
*
16847915 AACGCCGCAAAATCGAAATGGTGTTACGGAAAACAA
195 AACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
* *** *
16847951 CGCCGTTTACTTAGTTGGTTTTAGTGGCGCTTTT-ATTAAACGCCGCAA
1 CGCCGTTTTCTTA-TTACATTTAGTGGCG-TTTTAATAAAACGCCGCAA
16847999 ATTTGCATTA
Statistics
Matches: 252, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
230 159 0.63
231 89 0.35
232 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (230 bp):
CGCCGTTTTCTTATTACATTTAGTGGCGTTTTAATAAAACGCCGCAACTATGTTTTCTTTGTTAC
AGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAATATATTTTA
AAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTATATATAA
ACGCCGCAAAATCGAAATGGTGTTACGAAAAACAA
Found at i:16848350 original size:19 final size:19
Alignment explanation
Indices: 16848328--16848371 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16848318 CAGACATCTC
*
16848328 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
16848347 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
16848366 CCCCAA
1 CCCCAA
16848372 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:16849910 original size:20 final size:20
Alignment explanation
Indices: 16849885--16849946 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
16849875 TACAATTTCT
16849885 TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGA
*
16849905 TAACTTATATAATATT-ACA
1 TAACTTATATAATATTAAGA
* *
16849924 TAACTTATATCATGTTAAGA
1 TAACTTATATAATATTAAGA
16849944 TAA
1 TAA
16849947 AAAATCGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (20 bp):
TAACTTATATAATATTAAGA
Found at i:16850029 original size:19 final size:18
Alignment explanation
Indices: 16850005--16850095 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 18
16849995 TTTAACTTAC
16850005 AACTTACACAATACATAAT
1 AACTTACA-AATACATAAT
*
16850024 AACTTACAACTTACATAAT
1 AACTTACAA-ATACATAAT
* * * *
16850043 -ACATA-ATA-AC-TTAC
1 AACTTACAAATACATAAT
16850057 AACTTACACAATACATAAT
1 AACTTACA-AATACATAAT
*
16850076 AACTTACAACTTACATAAT
1 AACTTACAA-ATACATAAT
16850095 A
1 A
16850096 CATAATAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
14 2 0.04
15 6 0.11
16 1 0.02
17 2 0.04
18 8 0.15
19 35 0.65
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
AACTTACAAATACATAAT
Found at i:16850029 original size:26 final size:26
Alignment explanation
Indices: 16849985--16850124 Score: 246
Period size: 26 Copynumber: 5.4 Consensus size: 26
16849975 CATTTGACTG
*
16849985 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
16850010 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
16850036 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
16850062 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
16850088 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
16850114 ACATAATACAT
1 ACATAATACAT
16850125 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 10 0.09
26 99 0.91
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (26 bp):
ACATAATACATAATAACTTACAACTT
Found at i:16850121 original size:19 final size:19
Alignment explanation
Indices: 16850016--16850095 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
16850006 ACTTACACAA
16850016 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
16850035 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* *
16850054 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
16850068 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
16850087 TACATAATA
1 TACATAATA
16850096 CATAATAACT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 3 0.06
17 4 0.08
18 4 0.08
19 29 0.60
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:16859236 original size:30 final size:31
Alignment explanation
Indices: 16859158--16859237 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 31
16859148 ATTTCAAAAG
*
16859158 TATACAT-GAACTTGGATTTAATGTGCAATA
1 TATACATAGAACTTTGATTTAATGTGCAATA
* * *
16859188 TA-ATATACGAATTTTGATTT-A-GTGCAATTC
1 TATACATA-GAACTTTGATTTAATGTGCAA-TA
16859218 TATACATAGAACTTTGATTT
1 TATACATAGAACTTTGATTT
16859238 TGATTCAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 9 0.22
30 17 0.43
31 14 0.35
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (31 bp):
TATACATAGAACTTTGATTTAATGTGCAATA
Found at i:16865166 original size:17 final size:18
Alignment explanation
Indices: 16865131--16865173 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
16865121 TTTGAGTTAA
*
16865131 ATTTTAAATTTTTTGTATC
1 ATTTTAAA-TTTTTATATC
16865150 ATTTTAAA-TTTTATATC
1 ATTTTAAATTTTTATATC
*
16865167 CTTTTAA
1 ATTTTAA
16865174 GTTCTGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTAAATTTTTATATC
Found at i:16868211 original size:5 final size:6
Alignment explanation
Indices: 16868180--16868217 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
16868170 AATCAGAAAT
*
16868180 AAATAA ACAA-AA ATATAA AAATAA AAATAA AAATAA AA
1 AAATAA A-AATAA AAATAA AAATAA AAATAA AAATAA AA
16868218 GCAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 1 0.04
6 25 0.89
7 2 0.07
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:16882853 original size:13 final size:13
Alignment explanation
Indices: 16882819--16882853 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16882809 TTTTTAAAAG
16882819 TCAAAAGCACTTT
1 TCAAAAGCACTTT
* *
16882832 TCCACAGCACTTT
1 TCAAAAGCACTTT
16882845 TCAAAAGCA
1 TCAAAAGCA
16882854 TTGCTAAACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTT
Found at i:16883512 original size:164 final size:166
Alignment explanation
Indices: 16883240--16883558 Score: 439
Period size: 164 Copynumber: 1.9 Consensus size: 166
16883230 ATTTTGGTTT
*
16883240 AGAATTTCTCAGTCAGACACATTAGTAAATCAAGAAACATAAGTCAATATTCTTCAAAAGCCTAA
1 AGAATTTCTCAGCCAGACACATTAGTAAATCAAGAAACATAAGTCAATATTCTTCAAAAGCCTAA
* * * ** ** * *
16883305 TATTCAGCATTTTCAACAACTACATATGCATGTTATGACTCCCCACAAGCAACTGATTTGTACTC
66 TACTCAGCAATTTCAACAACTAAATATGCATGTTAAAACTCCCCACAAGCAACAAACTTGTACAC
16883370 TAATGCAATTAAGAG-A-GTTAACAGATTCCAGTTG
131 TAATGCAATTAAGAGAATGTTAACAGATTCCAGTTG
* * * * *
16883404 AGAATTTCTCAGCCGGATACATTGGTAAATCCAGAAACATAAGTCAATCTTCTTCAAAAGCCTAA
1 AGAATTTCTCAGCCAGACACATTAGTAAATCAAGAAACATAAGTCAATATTCTTCAAAAGCCTAA
*
16883469 TACTC-GCAATTTCAACAACTAAATAAT-TATGTTAAAAACTCCCCACAAGCAACAAACTTGTAC
66 TACTCAGCAATTTCAACAACTAAAT-ATGCATGTT-AAAACTCCCCACAAGCAACAAACTTGTAC
*
16883532 ACTAATGCAATTATGAGAATGTTAACA
129 ACTAATGCAATTAAGAGAATGTTAACA
16883559 TAGCCAGCAA
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
163 22 0.16
164 104 0.78
165 1 0.01
166 7 0.05
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (166 bp):
AGAATTTCTCAGCCAGACACATTAGTAAATCAAGAAACATAAGTCAATATTCTTCAAAAGCCTAA
TACTCAGCAATTTCAACAACTAAATATGCATGTTAAAACTCCCCACAAGCAACAAACTTGTACAC
TAATGCAATTAAGAGAATGTTAACAGATTCCAGTTG
Found at i:16885822 original size:31 final size:29
Alignment explanation
Indices: 16885786--16885863 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 29
16885776 TTGTTTTCCA
*
16885786 CAAGGCTTCTCAAGCCAATTCAATTGCATCT
1 CAAGGCTTCTCAAGCCAACTCAATTGCA--T
*
16885817 CAAGGCTACTCAAGCCAACTCAATTGCAT
1 CAAGGCTTCTCAAGCCAACTCAATTGCAT
*
16885846 CAAGGCTTATCCAAGCCA
1 CAAGGCTTCT-CAAGCCA
16885864 TTAAGGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 9 0.21
30 7 0.17
31 26 0.62
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (29 bp):
CAAGGCTTCTCAAGCCAACTCAATTGCAT
Found at i:16886335 original size:17 final size:17
Alignment explanation
Indices: 16886313--16886346 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16886303 CCTTCCATAC
*
16886313 CTAAGAGGTGAAAACGG
1 CTAAGAGGCGAAAACGG
16886330 CTAAGAGGCGAAAACGG
1 CTAAGAGGCGAAAACGG
16886347 ATTCAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.35, T:0.09
Consensus pattern (17 bp):
CTAAGAGGCGAAAACGG
Found at i:16891710 original size:11 final size:11
Alignment explanation
Indices: 16891682--16891710 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
16891672 CTAATATATA
16891682 AATATTTTTAT
1 AATATTTTTAT
16891693 AAT-TTTTTAT
1 AATATTTTTAT
16891703 AATATTTT
1 AATATTTT
16891711 GACAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATATTTTTAT
Found at i:16903313 original size:22 final size:23
Alignment explanation
Indices: 16903272--16903317 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
16903262 AAATATATCA
*
16903272 AATTATTTTTATATTGGTAAATAT
1 AATTATTTATATATTGGT-AATAT
16903296 AATTATTTATATA-T-GTAATAT
1 AATTATTTATATATTGGTAATAT
16903317 A
1 A
16903318 CAAACATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 2 0.10
23 1 0.05
24 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
AATTATTTATATATTGGTAATAT
Found at i:16905012 original size:125 final size:126
Alignment explanation
Indices: 16904787--16905164 Score: 517
Period size: 125 Copynumber: 2.9 Consensus size: 126
16904777 ACTCGGTATT
* * * * *
16904787 CACACATACACTGGAGTCC-AATTCCAAGTAAGATAGTGGAGCATTACTACTATCTATTAACATT
1 CACACATACACTTGAGTCCTAGTTCCAAGTAACATAGTAGAGCA-T--TACTATCTATCAACATT
*
16904851 ACAAGTTCTATATAAACTACAACAAGAATTCCACACAAGGTTCAATTGTTTACATACTCATATC
63 ACAAGTTCTATATAAACTACAACAAGAGTTCCACACAAGGTTCAATTGTTTACATACTCATATC
* *
16904915 CACACATACACTTGAGTCCTAGTT-CAAGTAACATAGTAGAGCATTAGTATCTATCAACATTACC
1 CACACATACACTTGAGTCCTAGTTCCAAGTAACATAGTAGAGCATTACTATCTATCAACATTACA
* * *
16904979 AGTTCTGTATAAACTACAACAAGAGTTCAACACAAGGTTCAATTGTTTACATACTCGTATC
66 AGTTCTATATAAACTACAACAAGAGTTCCACACAAGGTTCAATTGTTTACATACTCATATC
* *
16905040 CACACATACACTTGAGTCCTCAGTCCTGGTCCAAGTAACATAGTAGAACATTACTATCGATCAAC
1 CACACATACACTTGAGTCCT-AG---T--TCCAAGTAACATAGTAGAGCATTACTATCTATCAAC
* * *
16905105 ATTACAAGTTCTACATAAACTACAACAAGCGTTCCACACAAGGTTCAATTGTGTACATAC
60 ATTACAAGTTCTATATAAACTACAACAAGAGTTCCACACAAGGTTCAATTGTTTACATAC
16905165 ACCTATCCTG
Statistics
Matches: 222, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
125 94 0.42
126 2 0.01
127 1 0.00
128 35 0.16
129 4 0.02
131 1 0.00
132 85 0.38
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (126 bp):
CACACATACACTTGAGTCCTAGTTCCAAGTAACATAGTAGAGCATTACTATCTATCAACATTACA
AGTTCTATATAAACTACAACAAGAGTTCCACACAAGGTTCAATTGTTTACATACTCATATC
Found at i:16909715 original size:8 final size:9
Alignment explanation
Indices: 16909687--16909725 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
16909677 TTAATTAAAT
16909687 AAATTATTAA
1 AAATTA-TAA
16909697 AAATTTATAA
1 AAA-TTATAA
16909707 AAATT-TAA
1 AAATTATAA
16909715 AAATTATAA
1 AAATTATAA
16909724 AA
1 AA
16909726 CCTGATTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
9 7 0.26
10 9 0.33
11 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:16914160 original size:21 final size:19
Alignment explanation
Indices: 16914104--16914164 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
16914094 TAATTATTTA
16914104 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
16914123 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
16914142 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
16914163 TT
1 TT
16914165 TTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:16914386 original size:16 final size:16
Alignment explanation
Indices: 16914365--16914398 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16914355 AAAAAGGGAT
16914365 AATATTTGAGATATCA
1 AATATTTGAGATATCA
*
16914381 AATATTTGAGTTATCA
1 AATATTTGAGATATCA
16914397 AA
1 AA
16914399 AAGAAGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
AATATTTGAGATATCA
Found at i:16920331 original size:29 final size:28
Alignment explanation
Indices: 16920274--16920332 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
16920264 AAGGTCCAGG
* *
16920274 GTTTAGGGCTTGGGGTCTAAGGTTTAAA
1 GTTTAGGGCTTGGGGTCTAACGTTCAAA
*
16920302 GTTTAGGGGTCTGGGGTCTAACGTTCAAA
1 GTTTAGGGCT-TGGGGTCTAACGTTCAAA
16920331 GT
1 GT
16920333 CCAAGGTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.20, C:0.10, G:0.36, T:0.34
Consensus pattern (28 bp):
GTTTAGGGCTTGGGGTCTAACGTTCAAA
Found at i:16922629 original size:5 final size:5
Alignment explanation
Indices: 16922619--16922644 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16922609 GGATGAGCAC
16922619 AATTG AATTG AATTG AATTG AATTG A
1 AATTG AATTG AATTG AATTG AATTG A
16922645 GTCAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
AATTG
Found at i:16925237 original size:12 final size:11
Alignment explanation
Indices: 16925216--16925254 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
16925206 GTCCGCAACC
16925216 AGCAGAGCCCG
1 AGCAGAGCCCG
*
16925227 AGCAGGAGCCCC
1 AGCA-GAGCCCG
16925239 AGCCAGAGCCCG
1 AG-CAGAGCCCG
16925251 AGCA
1 AGCA
16925255 TATTATCGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 6 0.25
12 16 0.67
13 2 0.08
ACGTcount: A:0.28, C:0.38, G:0.33, T:0.00
Consensus pattern (11 bp):
AGCAGAGCCCG
Found at i:16926257 original size:18 final size:18
Alignment explanation
Indices: 16926234--16926270 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16926224 ATCCCAATGA
*
16926234 TCGCCACCACCTTCTTCT
1 TCGCCAACACCTTCTTCT
16926252 TCGCCAACACCTTCTTCT
1 TCGCCAACACCTTCTTCT
16926270 T
1 T
16926271 TACCACCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.46, G:0.05, T:0.35
Consensus pattern (18 bp):
TCGCCAACACCTTCTTCT
Found at i:16927139 original size:3 final size:3
Alignment explanation
Indices: 16927131--16927198 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
16927121 TCTTAATACT
16927131 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
16927179 AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AA
16927199 TAATAATACT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:16927350 original size:10 final size:11
Alignment explanation
Indices: 16927325--16927363 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
16927315 AAAAAATACA
16927325 TTCTTTTTCTC
1 TTCTTTTTCTC
16927336 TTCTTTTTCTC
1 TTCTTTTTCTC
16927347 -TCTTTTTCTC
1 TTCTTTTTCTC
16927357 TTCTTTT
1 TTCTTTT
16927364 CCGTAGCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTCTTTTTCTC
Found at i:16927495 original size:27 final size:27
Alignment explanation
Indices: 16927465--16927522 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
16927455 CCAATCAGTA
16927465 TGGCACCATTGGTGCCGCCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATGGCTT
*
16927492 TGGCACCATTGGTGCTGCCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATGGCTT
16927519 TGGC
1 TGGC
16927523 CTGACCAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCTT
Found at i:16927615 original size:26 final size:28
Alignment explanation
Indices: 16927586--16927650 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
16927576 TTTTTTGGGT
16927586 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
16927612 ATATTTTGGTAAATAAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAAGTTATA
16927641 ATATTTTGGT
1 ATATTTTGGT
16927651 TATTTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 14 0.39
28 7 0.19
29 15 0.42
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:16929004 original size:31 final size:31
Alignment explanation
Indices: 16928940--16929004 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
16928930 AATCAACCAA
* *
16928940 TGACTTAAATAAAAACTTTTGAGTAGTTCAG
1 TGACTTAAATAAAAACTTTTGAATAATTCAG
* * *
16928971 TGACTTAAATGAAAATTTTTGAATAATTTAG
1 TGACTTAAATAAAAACTTTTGAATAATTCAG
16929002 TGA
1 TGA
16929005 TCATTTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAG
Found at i:16931439 original size:25 final size:25
Alignment explanation
Indices: 16931373--16931594 Score: 164
Period size: 25 Copynumber: 8.9 Consensus size: 25
16931363 CATAACTATT
* * *
16931373 ATGAGCGTCCCTATATTTGGCTCTT
1 ATGAGCTTCCCGATATTTGGCTCTC
* **
16931398 ACGAGCTTCTTGATATTTGGCTCTC
1 ATGAGCTTCCCGATATTTGGCTCTC
* * * *
16931423 ACGAGTTTCCCGTTATTTAGCTCTC
1 ATGAGCTTCCCGATATTTGGCTCTC
* * *
16931448 ATGAGCTTCCCGAT-TAATGACTCTT
1 ATGAGCTTCCCGATAT-TTGGCTCTC
* * * *
16931473 TTGAGCTTCTCGTTATATGGCTCTC
1 ATGAGCTTCCCGATATTTGGCTCTC
* * *
16931498 ACGAGCTTCCCGATATATGACTCTC
1 ATGAGCTTCCCGATATTTGGCTCTC
* *
16931523 ATGAGCTTCCCAATATTTGGCTCGC
1 ATGAGCTTCCCGATATTTGGCTCTC
* *
16931548 ATGAGTTTCCTG-T-TTATGGCTCGT-
1 ATGAGCTTCCCGATATT-TGGCTC-TC
*
16931572 ATGAGCTTCCCGATAATTGGCTC
1 ATGAGCTTCCCGATATTTGGCTC
16931595 GCAAGCTTCC
Statistics
Matches: 151, Mismatches: 40, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
23 2 0.01
24 18 0.12
25 129 0.85
26 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
ATGAGCTTCCCGATATTTGGCTCTC
Found at i:16932272 original size:168 final size:168
Alignment explanation
Indices: 16931994--16932330 Score: 665
Period size: 168 Copynumber: 2.0 Consensus size: 168
16931984 AACTCAAGTG
16931994 TAACATGTTGAGAAAATAAGTTTATCAATGTTGAATTTATATGAAATATGTTCAAGTACACTAAT
1 TAACATGTTGAGAAAATAAGTTTATCAATGTTGAATTTATATGAAATATGTTCAAGTACACTAAT
16932059 AAGTGTTGTTGTTTGATGCTTAGGCAAGTGCCAAGCTATTGGTTGAATGGTAATGTGTTTATTTA
66 AAGTGTTGTTGTTTGATGCTTAGGCAAGTGCCAAGCTATTGGTTGAATGGTAATGTGTTTATTTA
16932124 TATGATGCATTGAAAGGGTAAGTACTCAAGTGAAAATA
131 TATGATGCATTGAAAGGGTAAGTACTCAAGTGAAAATA
*
16932162 TAACATGTTGAGAAAATAAGTTTTTCAATGTTGAATTTATATGAAATATGTTCAAGTACACTAAT
1 TAACATGTTGAGAAAATAAGTTTATCAATGTTGAATTTATATGAAATATGTTCAAGTACACTAAT
16932227 AAGTGTTGTTGTTTGATGCTTAGGCAAGTGCCAAGCTATTGGTTGAATGGTAATGTGTTTATTTA
66 AAGTGTTGTTGTTTGATGCTTAGGCAAGTGCCAAGCTATTGGTTGAATGGTAATGTGTTTATTTA
16932292 TATGATGCATTGAAAGGGTAAGTACTCAAGTGAAAATA
131 TATGATGCATTGAAAGGGTAAGTACTCAAGTGAAAATA
16932330 T
1 T
16932331 GCTAGTGCTC
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (168 bp):
TAACATGTTGAGAAAATAAGTTTATCAATGTTGAATTTATATGAAATATGTTCAAGTACACTAAT
AAGTGTTGTTGTTTGATGCTTAGGCAAGTGCCAAGCTATTGGTTGAATGGTAATGTGTTTATTTA
TATGATGCATTGAAAGGGTAAGTACTCAAGTGAAAATA
Found at i:16938043 original size:55 final size:55
Alignment explanation
Indices: 16937958--16938074 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 55
16937948 ACATAAACCC
* *
16937958 TGCTCGCTTGACACGTAGGCTCTAACGAGCTCCCCAAGAGC-CTGCCCGTTGTGAG
1 TGCTCGCTTGACACGTAGGCTCTAACGAGCTCCCCAAGAGCTC-ACCCGTTATGAG
* *** *
16938013 TGCTTGCTTGACACGTAGGCTCTGGTGAGCTCCCTAAGAGCTCACCCGTTATGAG
1 TGCTCGCTTGACACGTAGGCTCTAACGAGCTCCCCAAGAGCTCACCCGTTATGAG
16938068 TGCTCGC
1 TGCTCGC
16938075 CACTTTCATG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 52 0.98
56 1 0.02
ACGTcount: A:0.17, C:0.31, G:0.27, T:0.25
Consensus pattern (55 bp):
TGCTCGCTTGACACGTAGGCTCTAACGAGCTCCCCAAGAGCTCACCCGTTATGAG
Found at i:16938424 original size:18 final size:17
Alignment explanation
Indices: 16938375--16938435 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
16938365 TCCATTTTTT
*
16938375 TTATAATTTTTGAAAATT
1 TTATAATTTTT-AAAATA
* *
16938393 TTAAAATGTTTAAAATCA
1 TTATAATTTTTAAAAT-A
16938411 TTATAATTTTTAAAA-A
1 TTATAATTTTTAAAATA
*
16938427 GTATAATTT
1 TTATAATTT
16938436 GTTTATTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 9 0.25
17 5 0.14
18 22 0.61
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
TTATAATTTTTAAAATA
Found at i:16938457 original size:17 final size:17
Alignment explanation
Indices: 16938431--16938485 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
16938421 TAAAAAGTAT
*
16938431 AATTTGTTTATTTTTAA
1 AATTTTTTTATTTTTAA
16938448 AATTTTTTTATCATTTT-A
1 AATTTTTTTAT--TTTTAA
*
16938466 AATATTTTTTGTTTTTAA
1 AAT-TTTTTTATTTTTAA
16938484 AA
1 AA
16938486 AATTCTAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 14 0.44
18 7 0.22
19 11 0.34
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (17 bp):
AATTTTTTTATTTTTAA
Found at i:16945309 original size:32 final size:34
Alignment explanation
Indices: 16945248--16945310 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
16945238 TCTTGTAAGC
* *
16945248 CACATGGTCTAGGCTATTTGGGCCATGTGGGTCA
1 CACATGGTCTAGGCCATTTAGGCCATGTGGGTCA
*
16945282 CACA-GGT-TAGGCCATTTAGGCCGTGTGGG
1 CACATGGTCTAGGCCATTTAGGCCATGTGGG
16945311 CCATAGGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 19 0.73
33 3 0.12
34 4 0.15
ACGTcount: A:0.17, C:0.21, G:0.35, T:0.27
Consensus pattern (34 bp):
CACATGGTCTAGGCCATTTAGGCCATGTGGGTCA
Found at i:16948740 original size:64 final size:64
Alignment explanation
Indices: 16948671--16948796 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 64
16948661 CCGTATGGTC
* * *
16948671 CTTATTTTGTAATCAGTGGGTTACACGGCCTGGACACACGCCCGTGTCCTTGGCCTGTGTGATT
1 CTTATTTTGTAATCAGTGAGTTACACGGCCTAGACACACACCCGTGTCCTTGGCCTGTGTGATT
16948735 CTTATTTTGTAATCAGTGAGTTACACGGCCTAGACACACACCCGTGTCCTTGGCCTGTGTGA
1 CTTATTTTGTAATCAGTGAGTTACACGGCCTAGACACACACCCGTGTCCTTGGCCTGTGTGA
16948797 CCCCTGCACT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (64 bp):
CTTATTTTGTAATCAGTGAGTTACACGGCCTAGACACACACCCGTGTCCTTGGCCTGTGTGATT
Found at i:16950915 original size:43 final size:43
Alignment explanation
Indices: 16950821--16950984 Score: 183
Period size: 43 Copynumber: 3.9 Consensus size: 43
16950811 TAGGGTTACC
*
16950821 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
* *
16950863 GAGACTT-CGTATAAGACCATGTCTGGGACATTGGCATCGATAT
1 GAGA-TTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
* * * ** *
16950906 GTGATTTCGTGTAAGACCGTGGCTGGG-CTATTGGCATCGATAC
1 GAGATTACGTGTAAGACCATATCTGGGAC-ATTGGCATCGATAT
* *
16950949 GAGATTACATGTAAGACCATATCTGGGA-TTTGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGACATTGGCAT
16950985 TGTTACGGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 34 0.33
43 68 0.67
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (43 bp):
GAGATTACGTGTAAGACCATATCTGGGACATTGGCATCGATAT
Found at i:16958562 original size:95 final size:95
Alignment explanation
Indices: 16958418--16958694 Score: 303
Period size: 95 Copynumber: 2.9 Consensus size: 95
16958408 AACAGCGGAG
* * *
16958418 CGTACTAAAAACCTAAG-GGACATGGTCCTTAAAATAATAAATTTTATTCACTAATTTATTTCTT
1 CGTACTAGAAACCT-AGCGGACATAG-CCTTAAAATGATAAATTTTATTCACTAATTTATTTCTT
16958482 GTAATAAGAGTTTGGATTTAA-A-TAATGGCGAAA
64 GTAATAAGAGTTTGGATTTAACAGTAATGG-G--A
* ** * *
16958515 CGTATTAGAAACCTA-CGGACATATTCTTAACATGATAAATTTTATTCACGAATTTATTTCTTGT
1 CGTACTAGAAACCTAGCGGACATAGCCTTAAAATGATAAATTTTATTCACTAATTTATTTCTTGT
*
16958579 AATAA-AGGTTTGGATTTAAGCAGTAATGGGG
66 AATAAGA-GTTTGGATTTAA-CAGTAATGGGA
* * * *
16958610 CGTACTGGAAACCTAGTGGACATAGCCACTAAAATGGTAAATTTTATTCACTAATTTATTTCTTG
1 CGTACTAGAAACCTAGCGGACATAGCC-TTAAAATGATAAATTTTATTCACTAATTTATTTCTTG
* * *
16958675 TAATGAGGGTTTAGATTTAA
65 TAATAAGAGTTTGGATTTAA
16958695 GGCATATTTT
Statistics
Matches: 151, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
94 1 0.01
95 66 0.44
96 15 0.10
97 63 0.42
98 6 0.04
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (95 bp):
CGTACTAGAAACCTAGCGGACATAGCCTTAAAATGATAAATTTTATTCACTAATTTATTTCTTGT
AATAAGAGTTTGGATTTAACAGTAATGGGA
Found at i:16958678 original size:97 final size:94
Alignment explanation
Indices: 16958393--16958695 Score: 299
Period size: 97 Copynumber: 3.1 Consensus size: 94
16958383 AAATTCAACT
** * * * * * *
16958393 GGTTTGGATTTAAG-TAACAGCGGAGCGTACTAAAAACCTAAGGGACATGGTCCTTAAAATAATA
1 GGTTTGGATTTAAGATAATGGC-GAACGTACTAGAAACCT-ACGGACATAG-CCCTAAAATGATA
16958457 AATTTTATTCACTAATTTATTTCTTGTAATAA
63 AATTTTATTCACTAATTTATTTCTTGTAATAA
* ** * *
16958489 GAGTTTGGATTTAA-ATAATGGCGAAACGTATTAGAAACCTACGGACATATTCTTAACATGATAA
1 G-GTTTGGATTTAAGATAATGGCG-AACGTACTAGAAACCTACGGACATAGCCCTAAAATGATAA
*
16958553 ATTTTATTCACGAATTTATTTCTTGTAATAAA
64 ATTTTATTCACTAATTTATTTCTTGTAAT-AA
* * * *
16958585 GGTTTGGATTTAAGCAGTAATGG-G-GCGTACTGGAAACCTAGTGGACATAGCCACTAAAATGGT
1 GGTTTGGATTTAAG-A-TAATGGCGAACGTACTAGAAACCTA-CGGACATAGCC-CTAAAATGAT
*
16958648 AAATTTTATTCACTAATTTATTTCTTGTAATGAG
62 AAATTTTATTCACTAATTTATTTCTTGTAAT-AA
*
16958682 GGTTTAGATTTAAG
1 GGTTTGGATTTAAG
16958696 GCATATTTTA
Statistics
Matches: 173, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
95 64 0.37
96 20 0.12
97 83 0.48
98 6 0.03
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (94 bp):
GGTTTGGATTTAAGATAATGGCGAACGTACTAGAAACCTACGGACATAGCCCTAAAATGATAAAT
TTTATTCACTAATTTATTTCTTGTAATAA
Done.