Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 57 of 126
Found at i:16678408 original size:10 final size:9
Alignment explanation
Indices: 16678393--16678419 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16678383 CTGTGTGGAC
16678393 TTTTTTTAA
1 TTTTTTTAA
16678402 TTTTTTTAA
1 TTTTTTTAA
16678411 TTTTTTTAA
1 TTTTTTTAA
16678420 AGTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:16679851 original size:23 final size:23
Alignment explanation
Indices: 16679813--16680176 Score: 220
Period size: 23 Copynumber: 15.5 Consensus size: 23
16679803 ATCTACTCTG
* *
16679813 TTTGGACAGC-TCTTATACATCAA
1 TTTGGACAGCAT-ATATACAACAA
* * *
16679836 TTTGGACAGCATTTATATACCAA
1 TTTGGACAGCATATATACAACAA
* * * *
16679859 ATTAGACAGCAT-TTTCACACCAAAA
1 TTTGGACAGCATATAT-ACA--ACAA
*
16679884 TTTGGACAGCATAAATACAACAA
1 TTTGGACAGCATATATACAACAA
16679907 TTTCGG-CAGCATATATACAACAA
1 TTT-GGACAGCATATATACAACAA
* * * *
16679930 TTT-GAGCAACATTTTTACACCAAA
1 TTTGGA-CAGCATATATACAAC-AA
* * *
16679954 ATTGGACAGCATAAATTCAACAA
1 TTTGGACAGCATATATACAACAA
*
16679977 TTTGGGCAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * *
16680000 TTT-GAGCAGCATTTTTACACCAAA
1 TTTGGA-CAGCATATATACAAC-AA
* * *
16680024 ATTGGATAGCATATACACAACAAA
1 TTTGGACAGCATATATACAAC-AA
*
16680048 TTTGGGCAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * *
16680071 TTT-GAGCAGCATTTTTACACCAAA
1 TTTGGA-CAGCATATATACAAC-AA
*
16680095 ATTGGACAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * * *
16680118 ATTGGGCAGCATTTA-AGCATCAAA
1 TTTGGACAGCATATATA-CAAC-AA
* *
16680142 ATTGGACAGCATATATAAAACAA
1 TTTGGACAGCATATATACAACAA
* *
16680165 ATTGGGCAGCAT
1 TTTGGACAGCAT
16680177 TTAAGCATCA
Statistics
Matches: 263, Mismatches: 59, Indels: 38
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.00
22 5 0.02
23 151 0.57
24 83 0.32
25 22 0.08
26 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (23 bp):
TTTGGACAGCATATATACAACAA
Found at i:16679965 original size:47 final size:47
Alignment explanation
Indices: 16679913--16680178 Score: 250
Period size: 47 Copynumber: 5.7 Consensus size: 47
16679903 ACAATTTCGG
* * *
16679913 CAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGA
1 CAGCATATATACAACAAATTGGGCAGCATTTTTACACCAAAATTGGA
* * * * * * *
16679960 CAGCATAAATTCAACAATTTGGGCAGCATATATACA--ACAATTTGA
1 CAGCATATATACAACAAATTGGGCAGCATTTTTACACCAAAATTGGA
* * * ** * ** * * *
16680005 GCAGCATTTTTACACCAAAATTGGATAGCATATACACAACAAATTTGGG
1 -CAGCATATATACAAC-AAATTGGGCAGCATTTTTACACCAAAATTGGA
* *
16680054 CAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGA
1 CAGCATATATACAACAAATTGGGCAGCATTTTTACACCAAAATTGGA
* *
16680101 CAGCATATATACAACAAATTGGGCAGCA-TTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGGGCAGCATTTTTA-CACCAAAATTGGA
*
16680148 CAGCATATATAAAACAAATTGGGCAGCATTT
1 CAGCATATATACAACAAATTGGGCAGCATTT
16680179 AAGCATCACC
Statistics
Matches: 174, Mismatches: 39, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
45 7 0.04
46 14 0.08
47 134 0.77
48 14 0.08
49 5 0.03
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.26
Consensus pattern (47 bp):
CAGCATATATACAACAAATTGGGCAGCATTTTTACACCAAAATTGGA
Found at i:16679985 original size:70 final size:70
Alignment explanation
Indices: 16679827--16680129 Score: 439
Period size: 70 Copynumber: 4.3 Consensus size: 70
16679817 GACAGCTCTT
* * * * *
16679827 ATACATCAATTTGGACAGCATTTATATACCA-AATTAGA-CAGCATTTTCACACCAAAATTTGGA
1 ATACAACAATTTGGGCAGCA--TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGA
16679890 CAGCATAA
63 CAGCATAA
* *
16679898 ATACAACAATTTCGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGGACAG
1 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
16679963 CATAA
66 CATAA
* *
16679968 ATTCAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGATAG
1 ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
*
16680033 CATAT
66 CATAA
*
16680038 ACACAACAAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACA
1 ATACAAC-AATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACA
*
16680103 GCATAT
65 GCATAA
*
16680109 ATACAACAAATTGGGCAGCAT
1 ATACAACAATTTGGGCAGCAT
16680130 TTAAGCATCA
Statistics
Matches: 212, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
69 8 0.04
70 102 0.48
71 102 0.48
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (70 bp):
ATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAATTGGACAG
CATAA
Found at i:16680068 original size:141 final size:139
Alignment explanation
Indices: 16679827--16680129 Score: 437
Period size: 141 Copynumber: 2.2 Consensus size: 139
16679817 GACAGCTCTT
* * *
16679827 ATACATCAATTTGGACAGCATTTATATACCAAATTAGACAGCATTTTCACACCAAAATTTGGACA
1 ATACAACAATTTGGGCAGCA--TATATACAAAATTAGACAGCATTTTCACACCAAAATTTGGACA
*
16679892 GCATAAATACAACAATTTCGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATT
64 GCATAAACACAACAATTTCGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATT
16679957 GGACAGCATAA
129 GGACAGCATAA
* * * *
16679968 ATTCAACAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGATA
1 ATACAACAATTTGGGCAGCATATATACAA-AATTAGA-CAGCATTTTCACACCAAAATTTGGACA
* * *
16680032 GCATATACACAACAAATTTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAAT
64 GCATAAACACAAC-AATTTCGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAAT
*
16680097 TGGACAGCATAT
128 TGGACAGCATAA
*
16680109 ATACAACAAATTGGGCAGCAT
1 ATACAACAATTTGGGCAGCAT
16680130 TTAAGCATCA
Statistics
Matches: 145, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
139 8 0.06
140 23 0.16
141 114 0.79
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (139 bp):
ATACAACAATTTGGGCAGCATATATACAAAATTAGACAGCATTTTCACACCAAAATTTGGACAGC
ATAAACACAACAATTTCGGCAGCATATATACAACAATTTGAGCAACATTTTTACACCAAAATTGG
ACAGCATAA
Found at i:16684411 original size:21 final size:21
Alignment explanation
Indices: 16684385--16684436 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
16684375 AAATGTAAGA
*
16684385 ATTAAATTAAAAACAAAAAAT
1 ATTAAAATAAAAACAAAAAAT
*
16684406 ATTAAAATAAAAA-TAAAAAT
1 ATTAAAATAAAAACAAAAAAT
16684426 A--AAAATAAAAA
1 ATTAAAATAAAAA
16684437 AATTAATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.34
20 7 0.24
21 12 0.41
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
ATTAAAATAAAAACAAAAAAT
Found at i:16684436 original size:6 final size:6
Alignment explanation
Indices: 16684409--16684436 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16684399 AAAAAATATT
16684409 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
16684437 AATTAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:16688876 original size:14 final size:15
Alignment explanation
Indices: 16688846--16688878 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16688836 TTAACTCCTC
16688846 TTTAATCTTTCAAAT
1 TTTAATCTTTCAAAT
*
16688861 TTTAATC-TTCATAT
1 TTTAATCTTTCAAAT
16688875 TTTA
1 TTTA
16688879 CAAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATCTTTCAAAT
Found at i:16697410 original size:17 final size:16
Alignment explanation
Indices: 16697384--16697417 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16697374 TTAAAATTAA
*
16697384 AAAATAAAAATAGAGT
1 AAAATAAAAAAAGAGT
16697400 AAAATAGAAAAAAGAGT
1 AAAATA-AAAAAAGAGT
16697417 A
1 A
16697418 TGAACTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAGAGT
Found at i:16698666 original size:17 final size:18
Alignment explanation
Indices: 16698624--16698667 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
16698614 AAAAGATGTG
*
16698624 TTTTTTTACTGTTTTGTT
1 TTTTTTTTCTGTTTTGTT
* *
16698642 GTTATTTTCT-TTTTGTT
1 TTTTTTTTCTGTTTTGTT
16698659 TTTTTTTTC
1 TTTTTTTTC
16698668 ACTATTTTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.05, C:0.07, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTTTTTTCTGTTTTGTT
Found at i:16698917 original size:13 final size:13
Alignment explanation
Indices: 16698895--16698932 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
16698885 ATGTATTGTA
*
16698895 TATATTAAAAATT
1 TATATAAAAAATT
16698908 TATATAAAAAA-T
1 TATATAAAAAATT
*
16698920 AATATAAAAAATT
1 TATATAAAAAATT
16698933 AATACTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATATAAAAAATT
Found at i:16698935 original size:13 final size:13
Alignment explanation
Indices: 16698896--16698936 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
16698886 TGTATTGTAT
* *
16698896 ATATTAAAAATTT
1 ATATAAAAAATTA
16698909 ATATAAAAAA-TA
1 ATATAAAAAATTA
16698921 ATATAAAAAATTA
1 ATATAAAAAATTA
16698934 ATA
1 ATA
16698937 CTAGAAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:16710596 original size:21 final size:22
Alignment explanation
Indices: 16710572--16710614 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
16710562 TATTTTTAAA
16710572 ATATAATTATATATAA-CACTT
1 ATATAATTATATATAAGCACTT
* *
16710593 ATATACTTATATTTAAGCACTT
1 ATATAATTATATATAAGCACTT
16710615 TACTGAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATAATTATATATAAGCACTT
Found at i:16712695 original size:21 final size:21
Alignment explanation
Indices: 16712605--16712699 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
16712595 TAGGATTATT
* *
16712605 ATTAAAAATAATTTAATCATA
1 ATTAAATATAATTTAATAATA
* *
16712626 TTTTAATATAA-TT-AT--T-
1 ATTAAATATAATTTAATAATA
*
16712642 ATTAAATATAATTTAATAAAA
1 ATTAAATATAATTTAATAATA
*
16712663 ATAAAAATATATAATTTAATAATA
1 AT--TAA-ATATAATTTAATAATA
*
16712687 ATTTAATATAATT
1 ATTAAATATAATT
16712700 ATTTTTATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
16 9 0.16
17 3 0.05
18 2 0.04
19 2 0.04
20 2 0.04
21 18 0.32
22 1 0.02
23 2 0.04
24 17 0.30
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAATATAATTTAATAATA
Found at i:16720189 original size:28 final size:28
Alignment explanation
Indices: 16720158--16720223 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
16720148 GAATTTAATC
*
16720158 AATTTTATTTTA-ATTTTGATATTTTTTT
1 AATTTTATTTTACATTTTAAT-TTTTTTT
*
16720186 AATTTAATTTTTACATTTTAATTTTTTTT
1 AATTTTA-TTTTACATTTTAATTTTTTTT
16720215 AATTCTTAT
1 AATT-TTAT
16720224 AGTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 17 0.53
30 9 0.28
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (28 bp):
AATTTTATTTTACATTTTAATTTTTTTT
Found at i:16720203 original size:22 final size:22
Alignment explanation
Indices: 16720160--16720204 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16720150 ATTTAATCAA
* *
16720160 TTTTATTTTAATTTTGATATTT
1 TTTTAATTTAATTTTGACATTT
*
16720182 TTTTAATTTAATTTTTACATTT
1 TTTTAATTTAATTTTGACATTT
16720204 T
1 T
16720205 AATTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTAATTTAATTTTGACATTT
Found at i:16722873 original size:62 final size:62
Alignment explanation
Indices: 16722759--16722905 Score: 190
Period size: 62 Copynumber: 2.4 Consensus size: 62
16722749 ATAACACACC
* * * *
16722759 ACGTTGTGGCTAAGCCACTAAATTTTGCAGTCAAGCTACATATTGTAGACAAGCCACTCATA
1 ACGTTGTGGCTAAGCCACTCAATATTACAGTCAAGCTACACATTGTAGACAAGCCACTCATA
* * * *
16722821 GCGTTGTGGCTAAGCCACTCAATATTACAGTCAGGCTGCACGTTGT-GAACAAGCCACTCATA
1 ACGTTGTGGCTAAGCCACTCAATATTACAGTCAAGCTACACATTGTAG-ACAAGCCACTCATA
16722883 ACGTTGTGGGC-AAGCCACTCAAT
1 ACGTTGT-GGCTAAGCCACTCAAT
16722906 TTTTGCAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 1 0.01
62 70 0.95
63 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (62 bp):
ACGTTGTGGCTAAGCCACTCAATATTACAGTCAAGCTACACATTGTAGACAAGCCACTCATA
Found at i:16722890 original size:23 final size:23
Alignment explanation
Indices: 16722860--16722903 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16722850 GTCAGGCTGC
16722860 ACGTTGTGAACAAGCCACTCATA
1 ACGTTGTGAACAAGCCACTCATA
**
16722883 ACGTTGTGGGCAAGCCACTCA
1 ACGTTGTGAACAAGCCACTCA
16722904 ATTTTTGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (23 bp):
ACGTTGTGAACAAGCCACTCATA
Found at i:16723083 original size:42 final size:41
Alignment explanation
Indices: 16722995--16723150 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 41
16722985 TTTCAACAGG
* * * * * *
16722995 CATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTCGG
1 CATGCTTAACATGCAAATCAAATCTCAGTTTATCATA-TCGA
*
16723037 CATGCTTAACATGCAAATTAAATCTCAGTTTATCATCATCGA
1 CATGCTTAACATGCAAATCAAATCTCAGTTTATCAT-ATCGA
* * *
16723079 CATGCTTAATATGTAAATCAAATATCAGTTTATCATAATCGA
1 CATGCTTAACATGCAAATCAAATCTCAGTTTATCAT-ATCGA
*
16723121 CATGCTTAATATGCAAATCAAATCTCAGTT
1 CATGCTTAACATGCAAATCAAATCTCAGTT
16723151 AATAAATCAG
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 98 0.99
43 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (41 bp):
CATGCTTAACATGCAAATCAAATCTCAGTTTATCATATCGA
Found at i:16725125 original size:95 final size:94
Alignment explanation
Indices: 16725010--16725182 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 94
16725000 TGGTTTTTAG
* *
16725010 GTTTAAGGTTTTAGAGAAAAAATTAAA-TAAATAAGGGTTTAGGGTTTA-TTAATTAAATTAATT
1 GTTTAAGGTTTTAAAGAAAAAA-TAAATTAAATAAGGGTTTAGGG-TTACTTAAGTAAATTAATT
* *
16725073 ATAAATTTTTCAAAATTGTATTAGGTTTCGT
64 AAAAATTTTTAAAAATTGTATTAGGTTTCGT
* * *
16725104 GTTTATGGCTTTTAAAGAAAAAATAAATTAAATTAGGGTTTAGGGTTACTTAAGTATATTAATTA
1 GTTTAAGG-TTTTAAAGAAAAAATAAATTAAATAAGGGTTTAGGGTTACTTAAGTAAATTAATTA
16725169 AAAATTTTTAAAAA
65 AAAATTTTTAAAAA
16725183 AATCAGATTG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 14 0.20
95 55 0.80
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (94 bp):
GTTTAAGGTTTTAAAGAAAAAATAAATTAAATAAGGGTTTAGGGTTACTTAAGTAAATTAATTAA
AAATTTTTAAAAATTGTATTAGGTTTCGT
Found at i:16725363 original size:126 final size:126
Alignment explanation
Indices: 16725214--16725630 Score: 762
Period size: 126 Copynumber: 3.3 Consensus size: 126
16725204 TAATTTTAAA
* * * *
16725214 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGATGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * * *
16725279 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGTTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAG
16725340 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
16725405 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAG
66 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAG
16725466 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
16725531 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAG
66 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAG
16725592 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT
16725631 ATTTGGCCTG
Statistics
Matches: 283, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 283 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTATTGAAAG
Found at i:16728599 original size:23 final size:23
Alignment explanation
Indices: 16728554--16728601 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
16728544 AATAAAATAC
*
16728554 CCTAACCCGAAATACTAACTAAA
1 CCTAACCCGAAATACCAACTAAA
* * *
16728577 CCTAACCCGAATTACCCATTAAA
1 CCTAACCCGAAATACCAACTAAA
16728600 CC
1 CC
16728602 CTAGCCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (23 bp):
CCTAACCCGAAATACCAACTAAA
Found at i:16729711 original size:3 final size:3
Alignment explanation
Indices: 16729703--16729727 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16729693 ATTTTAATCC
16729703 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
16729728 TCTCCTTTAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:16731314 original size:21 final size:21
Alignment explanation
Indices: 16731290--16731337 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
16731280 GCGGGGGCTG
*
16731290 TGGTTGCTCCGG-CGGGGATTC
1 TGGTTGCTCCGGTAGGGGA-TC
* *
16731311 TGGTTCCTCTGGTAGGGGATC
1 TGGTTGCTCCGGTAGGGGATC
16731332 TGGTTG
1 TGGTTG
16731338 TCTGTGTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.06, C:0.19, G:0.42, T:0.33
Consensus pattern (21 bp):
TGGTTGCTCCGGTAGGGGATC
Found at i:16731544 original size:18 final size:18
Alignment explanation
Indices: 16731518--16731560 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16731508 GATTAGAAAA
* * *
16731518 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
16731536 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
16731554 AGGATAC
1 AGGATAC
16731561 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:16732185 original size:7 final size:7
Alignment explanation
Indices: 16732173--16732232 Score: 120
Period size: 7 Copynumber: 8.6 Consensus size: 7
16732163 TATTAGTTAT
16732173 ATACATA
1 ATACATA
16732180 ATACATA
1 ATACATA
16732187 ATACATA
1 ATACATA
16732194 ATACATA
1 ATACATA
16732201 ATACATA
1 ATACATA
16732208 ATACATA
1 ATACATA
16732215 ATACATA
1 ATACATA
16732222 ATACATA
1 ATACATA
16732229 ATAC
1 ATAC
16732233 TAAATACTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:16732238 original size:7 final size:7
Alignment explanation
Indices: 16732228--16732295 Score: 136
Period size: 7 Copynumber: 9.7 Consensus size: 7
16732218 CATAATACAT
16732228 AATACTA
1 AATACTA
16732235 AATACTA
1 AATACTA
16732242 AATACTA
1 AATACTA
16732249 AATACTA
1 AATACTA
16732256 AATACTA
1 AATACTA
16732263 AATACTA
1 AATACTA
16732270 AATACTA
1 AATACTA
16732277 AATACTA
1 AATACTA
16732284 AATACTA
1 AATACTA
16732291 AATAC
1 AATAC
16732296 CAATCGATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:16732238 original size:21 final size:21
Alignment explanation
Indices: 16732173--16732281 Score: 122
Period size: 21 Copynumber: 5.2 Consensus size: 21
16732163 TATTAGTTAT
16732173 ATACATAATACATAATAC-ATA
1 ATACATAATACATAATACTA-A
16732194 ATACATAATACATAATAC-ATA
1 ATACATAATACATAATACTA-A
16732215 ATACATAATACATAATACTAA
1 ATACATAATACATAATACTAA
16732236 ATAC-TAAATAC-TAAATACTAA
1 ATACAT-AATACAT-AATACTAA
16732257 ATAC-TAAATAC-TAAATACTAA
1 ATACAT-AATACAT-AATACTAA
16732278 ATAC
1 ATAC
16732282 TAAATACTAA
Statistics
Matches: 85, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.02
21 82 0.96
22 1 0.01
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATACATAATACATAATACTAA
Found at i:16733438 original size:11 final size:11
Alignment explanation
Indices: 16733422--16733473 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
16733412 TTAAAGCTTT
16733422 TTTGAGAGGAA
1 TTTGAGAGGAA
16733433 TTTGAGAGGAA
1 TTTGAGAGGAA
16733444 TTTGAGA-GAA
1 TTTGAGAGGAA
16733454 TATTG-GAGAGAA
1 T-TTGAGAG-GAA
*
16733466 ATTGAGAG
1 TTTGAGAG
16733474 AAAGGATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 6 0.17
11 24 0.67
12 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:16733866 original size:33 final size:33
Alignment explanation
Indices: 16733829--16733924 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
16733819 TTTAATCTAC
16733829 TAAATAATTAACTAAATTACATAGTATTTATTA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
* ** *
16733862 TAAATTATT---TTTATTA-A-A--ATGTA-TA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
16733887 CTAAATAATTAACTAAATTACATAGTATTTATTA
1 -TAAATAATTAACTAAATTACATAGTATTTATTA
16733921 TAAA
1 TAAA
16733925 CATCTACTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 2 0.04
26 12 0.26
28 1 0.02
29 6 0.13
30 6 0.13
31 1 0.02
33 16 0.35
34 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (33 bp):
TAAATAATTAACTAAATTACATAGTATTTATTA
Found at i:16738302 original size:11 final size:11
Alignment explanation
Indices: 16738286--16738337 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
16738276 TTAAAGCTTT
16738286 TTTGAGAGGAA
1 TTTGAGAGGAA
16738297 TTTGAGAGGAA
1 TTTGAGAGGAA
16738308 TTTGAGA-GAA
1 TTTGAGAGGAA
16738318 TATTG-GAGAGAA
1 T-TTGAGAG-GAA
*
16738330 ATTGAGAG
1 TTTGAGAG
16738338 AAAGGATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 6 0.17
11 24 0.67
12 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (11 bp):
TTTGAGAGGAA
Found at i:16738730 original size:33 final size:33
Alignment explanation
Indices: 16738693--16738788 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
16738683 TTTAATCTAC
16738693 TAAATAATTAACTAAATTACATAGTATTTATTA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
* ** *
16738726 TAAATTATT---TTTATTA-A-A--ATGTA-TA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
16738751 CTAAATAATTAACTAAATTACATAGTATTTATTA
1 -TAAATAATTAACTAAATTACATAGTATTTATTA
16738785 TAAA
1 TAAA
16738789 CATCTACTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 2 0.04
26 12 0.26
28 1 0.02
29 6 0.13
30 6 0.13
31 1 0.02
33 16 0.35
34 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (33 bp):
TAAATAATTAACTAAATTACATAGTATTTATTA
Found at i:16750081 original size:37 final size:37
Alignment explanation
Indices: 16750014--16750097 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
16750004 TATATCGGTA
* *
16750014 TTTTATTTTTCAATTTAGAAATGTAGTTGTGAGGTCC
1 TTTTATTTTTCAATTTAGAAATGTAATTGTGAGCTCC
**
16750051 TTTTATTTTTCAATTTAGAGGCT-TAATTGTGAGCTCC
1 TTTTATTTTTCAATTTAGA-AATGTAATTGTGAGCTCC
*
16750088 CTTTATTTTT
1 TTTTATTTTT
16750098 TTTGTTCAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 40 0.98
38 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.52
Consensus pattern (37 bp):
TTTTATTTTTCAATTTAGAAATGTAATTGTGAGCTCC
Found at i:16750624 original size:18 final size:20
Alignment explanation
Indices: 16750603--16750646 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
16750593 TTTTTAAATA
16750603 AAATTAAGTTTT-ATT-TTT
1 AAATTAAGTTTTGATTATTT
*
16750621 AAATTAATTTTTGATTAATTT
1 AAATTAAGTTTTGATT-ATTT
16750642 AAATT
1 AAATT
16750647 CAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 3 0.14
21 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AAATTAAGTTTTGATTATTT
Found at i:16751554 original size:3 final size:3
Alignment explanation
Indices: 16751546--16751575 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16751536 TTGTAACCTT
16751546 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16751576 ACATATCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16752492 original size:3 final size:3
Alignment explanation
Indices: 16752484--16752515 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16752474 AATATGTTAA
16752484 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16752516 AAGCTTACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16753308 original size:5 final size:5
Alignment explanation
Indices: 16753294--16753353 Score: 113
Period size: 5 Copynumber: 12.2 Consensus size: 5
16753284 GAAATCTGAG
16753294 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
16753343 TATAT TATAT T
1 TATAT TATAT T
16753354 GAATATTTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.07
5 51 0.93
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:16753393 original size:15 final size:14
Alignment explanation
Indices: 16753373--16753402 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
16753363 TATTTATTTT
16753373 TATTACATATTAATA
1 TATTACATA-TAATA
16753388 TATTACATATAATA
1 TATTACATATAATA
16753402 T
1 T
16753403 TTATACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTACATATAATA
Found at i:16754117 original size:69 final size:69
Alignment explanation
Indices: 16754006--16754145 Score: 205
Period size: 69 Copynumber: 2.0 Consensus size: 69
16753996 GGACTTTTAA
*
16754006 TAATCACCTTTTGGTGTTCTACGAGCTGTAGGTAGGGGAAGATTC-AGTTAAGGTACCATTAAGG
1 TAATCACCTTTTGGTGTTCTACGAGCTGCAGGTAGGGGAAGATTCGA-TTAAGGTACCATTAAGG
*
16754070 TTCTT
65 TTATT
*
16754075 TAATCACCTTTTGGTGTTCCATA-G-GCTGCAGGTAGGGGAAGATTCGATTAATGTACCATTAAG
1 TAATCACCTTTTGGTGTT-C-TACGAGCTGCAGGTAGGGGAAGATTCGATTAAGGTACCATTAAG
16754138 GTTATT
64 GTTATT
16754144 TA
1 TA
16754146 CTTTTTGGGT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
69 60 0.92
70 3 0.05
71 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (69 bp):
TAATCACCTTTTGGTGTTCTACGAGCTGCAGGTAGGGGAAGATTCGATTAAGGTACCATTAAGGT
TATT
Found at i:16759381 original size:16 final size:17
Alignment explanation
Indices: 16759359--16759400 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
16759349 ATCTAGTAAA
16759359 ATATTTTTATAAATTTT
1 ATATTTTTATAAATTTT
*
16759376 -TATTTTT-TTAATTTT
1 ATATTTTTATAAATTTT
16759391 ATATATTTTA
1 ATAT-TTTTA
16759401 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTATAAATTTT
Found at i:16774847 original size:18 final size:18
Alignment explanation
Indices: 16774826--16774877 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16774816 TCGCCAAGTT
16774826 TGGTGAATCCCCTAAGAC
1 TGGTGAATCCCCTAAGAC
* *
16774844 TGGTGAACTCGCC-AAGTC
1 TGGTGAA-TCCCCTAAGAC
*
16774862 TGGCGAATCCCCTAAG
1 TGGTGAATCCCCTAAG
16774878 CTTGGCGAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.14
18 20 0.71
19 4 0.14
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (18 bp):
TGGTGAATCCCCTAAGAC
Found at i:16774888 original size:36 final size:36
Alignment explanation
Indices: 16774814--16774889 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
16774804 CATTTGGCAG
* * *
16774814 ACTCGCCAAGTTTGGTGAATCCCCTAAGACTGGTGA
1 ACTCGCCAAGTCTGGCGAATCCCCTAAGACTGGCGA
16774850 ACTCGCCAAGTCTGGCGAATCCCCTAAG-CTTGGCGA
1 ACTCGCCAAGTCTGGCGAATCCCCTAAGAC-TGGCGA
16774886 ACTC
1 ACTC
16774890 ATGATAAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (36 bp):
ACTCGCCAAGTCTGGCGAATCCCCTAAGACTGGCGA
Found at i:16775076 original size:24 final size:24
Alignment explanation
Indices: 16775030--16775082 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
16775020 ATAGAATTAG
**
16775030 TATTTACTAGCATAGTATATTTGA
1 TATTTACTAGCATAAAATATTTGA
* * *
16775054 TATTTATTAGCATAAAATCTTTGT
1 TATTTACTAGCATAAAATATTTGA
16775078 TATTT
1 TATTT
16775083 CTTTCTGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTTACTAGCATAAAATATTTGA
Found at i:16785073 original size:99 final size:95
Alignment explanation
Indices: 16784886--16785073 Score: 247
Period size: 95 Copynumber: 1.9 Consensus size: 95
16784876 CTGATAATCA
* *
16784886 TCAACAAAAATCCTATCTATATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCGGATC
1 TCAACAAAAATCCTATCTAAATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCAGATC
*
16784951 ATCATATCTGTATTAAGAAAATATTACATT
66 ATCATATCTGTATTAACAAAATATTACATT
*
16784981 TCAACATAAATCCTATCTAAATTGTATTTTGTTCA-ACCACA-ACACTGA-TGCCTTACTACTAT
1 TCAACAAAAATCCTATCTAAATTGTATTTTGTT-ATA--ACAGACACTGATTG-CTTA-T--TAT
*
16785043 TCAGATCATCATATTTGTATTAACAAAATAT
59 TCAGATCATCATATCTGTATTAACAAAATAT
16785074 AAGAAATGAC
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
95 34 0.42
96 12 0.15
97 4 0.05
99 31 0.38
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (95 bp):
TCAACAAAAATCCTATCTAAATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCAGATC
ATCATATCTGTATTAACAAAATATTACATT
Found at i:16787500 original size:103 final size:103
Alignment explanation
Indices: 16787341--16787543 Score: 370
Period size: 103 Copynumber: 2.0 Consensus size: 103
16787331 GGAAAATCTT
16787341 GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
1 GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
*
16787406 TTTCACTTCAATTTGATTATTCATAACCGAATTTTCTC
66 TTTCACTTCAATTTGATGATTCATAACCGAATTTTCTC
* *
16787444 GTAATCTTGAGTAAACCTGTGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
1 GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
*
16787509 TTTCACTTCAATTTGATGGTTCATAACCGAATTTT
66 TTTCACTTCAATTTGATGATTCATAACCGAATTTT
16787544 TAAGAATCAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (103 bp):
GTAATCTTGAGTAAACATATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAGAAGGTA
TTTCACTTCAATTTGATGATTCATAACCGAATTTTCTC
Found at i:16792264 original size:16 final size:16
Alignment explanation
Indices: 16792243--16792276 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16792233 ATGTTTTTCC
16792243 TCCCTCTCCTTGTTGA
1 TCCCTCTCCTTGTTGA
16792259 TCCCTCTCCTTGTTGA
1 TCCCTCTCCTTGTTGA
16792275 TC
1 TC
16792277 AAAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.38, G:0.12, T:0.44
Consensus pattern (16 bp):
TCCCTCTCCTTGTTGA
Found at i:16796477 original size:28 final size:29
Alignment explanation
Indices: 16796423--16796478 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
16796413 AATTAAATAA
*
16796423 TAAAATATAAATATAAAATATGTTTATAC
1 TAAAATATAAATATAAAATATGATTATAC
*
16796452 TAAATTATAAATA-AAAATTAT-ATTATA
1 TAAAATATAAATATAAAA-TATGATTATA
16796479 AAAATAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
TAAAATATAAATATAAAATATGATTATAC
Found at i:16797258 original size:3 final size:3
Alignment explanation
Indices: 16797252--16797281 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16797242 AGATGATGAA
*
16797252 TGG TGG TGA TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
16797282 GTTTTGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.63, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:16797522 original size:20 final size:19
Alignment explanation
Indices: 16797497--16797547 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
16797487 TTAATTATCC
16797497 ATTAAATAAATAACTAA-TTA
1 ATTAAATAAATAA--AACTTA
*
16797517 ATTAAACAAATAAAACTTTA
1 ATTAAATAAATAAAAC-TTA
16797537 ATTAAATAAAT
1 ATTAAATAAAT
16797548 TTTCCATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
20 25 0.93
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAATAAATAAAACTTA
Found at i:16801065 original size:22 final size:22
Alignment explanation
Indices: 16801040--16801084 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16801030 GGTCAATCTC
16801040 TCAACAAAAATTAT-AAAATAAT
1 TCAA-AAAAATTATCAAAATAAT
* *
16801062 TCAAAATAATTTTCAAAATAAT
1 TCAAAAAAATTATCAAAATAAT
16801084 T
1 T
16801085 TTAAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
TCAAAAAAATTATCAAAATAAT
Found at i:16801078 original size:12 final size:12
Alignment explanation
Indices: 16801061--16801086 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16801051 TATAAAATAA
16801061 TTCAAAATAATT
1 TTCAAAATAATT
16801073 TTCAAAATAATT
1 TTCAAAATAATT
16801085 TT
1 TT
16801087 AAATTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTCAAAATAATT
Found at i:16801107 original size:18 final size:19
Alignment explanation
Indices: 16801067--16801107 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
16801057 ATAATTCAAA
*
16801067 ATAATTTTCAAAATAATTT
1 ATAAATTTCAAAATAATTT
16801086 -TAAATTTCAAAAT-ATTT
1 ATAAATTTCAAAATAATTT
16801103 ATAAA
1 ATAAA
16801108 AATTCCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAATTTCAAAATAATTT
Found at i:16804865 original size:32 final size:31
Alignment explanation
Indices: 16804820--16804915 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
16804810 CTTAGATAAT
16804820 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16804851 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
16804883 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16804914 TT
1 TT
16804916 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:16805497 original size:27 final size:25
Alignment explanation
Indices: 16805461--16805537 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
16805451 TTCTTTAAAT
*
16805461 AAAAGC-AAAAAAAAGTAAAAAGTAAA
1 AAAAGCAAAAAAAAAGCAAAAA--AAA
** *
16805487 AAGCGCAAAAAAAAAACAAAAAAAA
1 AAAAGCAAAAAAAAAGCAAAAAAAA
**
16805512 AAAAGCAAAAAAAAAGCGCAAAAAA
1 AAAAGCAAAAAAAAAGCAAAAAAAA
16805537 A
1 A
16805538 GAGAGAGTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
25 24 0.59
26 4 0.10
27 13 0.32
ACGTcount: A:0.78, C:0.09, G:0.10, T:0.03
Consensus pattern (25 bp):
AAAAGCAAAAAAAAAGCAAAAAAAA
Found at i:16805527 original size:62 final size:60
Alignment explanation
Indices: 16805461--16805587 Score: 168
Period size: 62 Copynumber: 2.1 Consensus size: 60
16805451 TTCTTTAAAT
16805461 AAAAGC-AAAAAAAAGTAAAAAGTAAAAAGCGCAAAAAAAAAACAAAAAAAAAAAAGCA-AAAA
1 AAAAGCGAAAAAAAAG-AAAAAGTAAAAAGCGC-AAAAAAAAAC--AAAAAAAAAAGCACAAAA
* * * *
16805523 AAAAGCGCAAAAAAAGAGAGAGTAAAAAGCGCAAAAAAAAGCAAAAAAAAAAGCACAAAA
1 AAAAGCGAAAAAAAAGAAAAAGTAAAAAGCGCAAAAAAAAACAAAAAAAAAAGCACAAAA
16805583 AAAAG
1 AAAAG
16805588 TTGCCTACCT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
59 13 0.22
60 9 0.15
61 9 0.15
62 20 0.34
63 8 0.14
ACGTcount: A:0.75, C:0.09, G:0.13, T:0.02
Consensus pattern (60 bp):
AAAAGCGAAAAAAAAGAAAAAGTAAAAAGCGCAAAAAAAAACAAAAAAAAAAGCACAAAA
Found at i:16805534 original size:12 final size:12
Alignment explanation
Indices: 16805484--16805587 Score: 75
Period size: 12 Copynumber: 8.5 Consensus size: 12
16805474 AGTAAAAAGT
16805484 AAAAAGCGCAAAA
1 AAAAAGCGC-AAA
* **
16805497 AAAAAACAAAAA
1 AAAAAGCGCAAA
**
16805509 AAAAAAAGCAAAA
1 AAAAAGCGC-AAA
16805522 AAAAAGCGCAAA
1 AAAAAGCGCAAA
* **
16805534 AAAAGAGAG-AGT
1 AAAA-AGCGCAAA
16805546 AAAAAGCGCAAA
1 AAAAAGCGCAAA
**
16805558 AAAAAGCAAAAA
1 AAAAAGCGCAAA
*
16805570 AAAAAGCACAAA
1 AAAAAGCGCAAA
16805582 AAAAAG
1 AAAAAG
16805588 TTGCCTACCT
Statistics
Matches: 71, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
11 3 0.04
12 49 0.69
13 19 0.27
ACGTcount: A:0.75, C:0.11, G:0.13, T:0.01
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:16805587 original size:24 final size:24
Alignment explanation
Indices: 16805491--16805587 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
16805481 AGTAAAAAGC
*
16805491 GCAAAAAAAAAA-CAAAAAAAAAAAA
1 GCAAAAAAAAAAGC--ACAAAAAAAA
*
16805516 GC-AAAAAAAAAGCGCAAAAAAAGA
1 GCAAAAAAAAAAGCACAAAAAAA-A
* ** *
16805540 G-AGAGTAAAAAGCGCAAAAAAAA
1 GCAAAAAAAAAAGCACAAAAAAAA
16805563 GCAAAAAAAAAAGCACAAAAAAAA
1 GCAAAAAAAAAAGCACAAAAAAAA
16805587 G
1 G
16805588 TTGCCTACCT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
23 9 0.15
24 47 0.80
25 3 0.05
ACGTcount: A:0.75, C:0.10, G:0.13, T:0.01
Consensus pattern (24 bp):
GCAAAAAAAAAAGCACAAAAAAAA
Found at i:16808291 original size:19 final size:19
Alignment explanation
Indices: 16808267--16808330 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
16808257 AAATTATAAA
16808267 AAAAAACTATAAAAATCAT
1 AAAAAACTATAAAAATCAT
**
16808286 AAAAAACTATAAAAAGTTGT
1 AAAAAACTATAAAAA-TCAT
***
16808306 AAAATTTTATAAAAATCAT
1 AAAAAACTATAAAAATCAT
16808325 AAAAAA
1 AAAAAA
16808331 TCATAAAATG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAAAACTATAAAAATCAT
Found at i:16808547 original size:20 final size:19
Alignment explanation
Indices: 16808522--16808681 Score: 67
Period size: 20 Copynumber: 7.8 Consensus size: 19
16808512 TTAGTATGAT
*
16808522 AATTTTATAATTTTTTTATG
1 AATTTTATAATTTTTTTA-C
*
16808542 AATTTTAT-ATTTCTTTAC
1 AATTTTATAATTTTTTTAC
*
16808560 AATTTTTATAATTTTCTTAC
1 AA-TTTTATAATTTTTTTAC
* * *
16808580 GACTTTATAAAATTTTATATTTCTAT
1 -AATTT-TATAA--TT-T-TTT-TAC
16808606 ATATTTTATAATTTTTTTAAC
1 A-ATTTTATAATTTTTTT-AC
* **
16808627 GATTTTTATAA-AATTTTAC
1 -AATTTTATAATTTTTTTAC
*
16808646 AATTTTTATAAATTTTTATA-
1 AA-TTTTAT-AATTTTTTTAC
16808666 AATTTT-TATATTTTTT
1 AATTTTATA-ATTTTTT
16808682 ATATTTTTTA
Statistics
Matches: 105, Mismatches: 19, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
17 1 0.01
18 10 0.10
19 26 0.25
20 28 0.27
21 21 0.20
22 2 0.02
23 4 0.04
24 1 0.01
25 7 0.07
26 5 0.05
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
AATTTTATAATTTTTTTAC
Found at i:16808602 original size:48 final size:49
Alignment explanation
Indices: 16808542--16808671 Score: 151
Period size: 48 Copynumber: 2.7 Consensus size: 49
16808532 TTTTTTTATG
16808542 AATTTTATATTTCTTTACAATTTTTATAATTTTCTT-ACGA-CTTTATAA
1 AATTTTATATTTCTTTA-AATTTTTATAATTTTCTTAACGATCTTTATAA
* * * *
16808590 AATTTTATATTTCTATATA-TTTTATAATTTTTTTAACGATTTTTATAA
1 AATTTTATATTTCTTTAAATTTTTATAATTTTCTTAACGATCTTTATAA
*
16808638 AATTTTACAATTT-TTATAAATTTTTATAAATTTT
1 AATTTTA-TATTTCTT-TAAATTTTTAT-AATTTT
16808672 TATATTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
46 14 0.20
47 5 0.07
48 31 0.45
49 7 0.10
50 6 0.09
51 6 0.09
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (49 bp):
AATTTTATATTTCTTTAAATTTTTATAATTTTCTTAACGATCTTTATAA
Found at i:16808636 original size:67 final size:66
Alignment explanation
Indices: 16808522--16808690 Score: 171
Period size: 67 Copynumber: 2.5 Consensus size: 66
16808512 TTAGTATGAT
* * * ** *
16808522 AATTTTATAATTTTTTTATGAATTTTATATTTCTTTACAATTTTTATAATTTTCTTACGA-CTTT
1 AATTTTATAATTTCTATAT--ATTTTATATTTTTTTACAATTTTTATAAAATT-TTACAATCTTT
16808586 ATAA
63 ATAA
* *
16808590 AATTTTAT-ATTTCTATATATTTTATAATTTTTTTAACGATTTTTATAAAATTTTACAATTTTTA
1 AATTTTATAATTTCTATATATTTTAT-ATTTTTTT-ACAATTTTTATAAAATTTTACAATCTTTA
16808654 TAA
64 TAA
* * *
16808657 ATTTTTATAAATTTTTATATTTTTTATATTTTTT
1 AATTTTAT-AATTTCTATATATTTTATATTTTTT
16808691 ATTAAAATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
65 7 0.08
66 12 0.14
67 36 0.42
68 15 0.18
69 15 0.18
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (66 bp):
AATTTTATAATTTCTATATATTTTATATTTTTTTACAATTTTTATAAAATTTTACAATCTTTATA
A
Found at i:16808652 original size:19 final size:19
Alignment explanation
Indices: 16808628--16808715 Score: 88
Period size: 19 Copynumber: 4.5 Consensus size: 19
16808618 TTTTTTAACG
*
16808628 ATTTTTATAAAATTTTACA
1 ATTTTTATAAAATTTTATA
*
16808647 ATTTTTATAAATTTTTATAA
1 ATTTTTATAAAATTTTAT-A
**
16808667 ATTTTTAT-ATTTTTTATA
1 ATTTTTATAAAATTTTATA
* *
16808685 TTTTTTATTAAAATTTAATA
1 ATTTTTA-TAAAATTTTATA
16808705 ATTTTTTATAA
1 A-TTTTTATAA
16808716 CTTTTATTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
18 7 0.12
19 25 0.44
20 19 0.33
21 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTATAAAATTTTATA
Found at i:16808661 original size:29 final size:29
Alignment explanation
Indices: 16808608--16808720 Score: 120
Period size: 29 Copynumber: 3.8 Consensus size: 29
16808598 ATTTCTATAT
*
16808608 ATTTTATAATTTTTTTAACGATTTTTATAAA
1 ATTTTATAATTTTTATAA--ATTTTTATAAA
*
16808639 ATTTTACAATTTTTATAAATTTTTATAAA
1 ATTTTATAATTTTTATAAATTTTTATAAA
* * *
16808668 TTTTTATATTTTTTAT-ATTTTTTATTAAA
1 ATTTTATAATTTTTATAAATTTTTA-TAAA
* *
16808697 ATTTAATAATTTTTTATAACTTTT
1 ATTTTATAA-TTTTTATAAATTTT
16808721 ATTGATTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 7 0.10
29 34 0.49
30 7 0.10
31 21 0.30
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTTTATAATTTTTATAAATTTTTATAAA
Found at i:16808681 original size:10 final size:10
Alignment explanation
Indices: 16808583--16808720 Score: 92
Period size: 10 Copynumber: 14.2 Consensus size: 10
16808573 TTCTTACGAC
*
16808583 TTTATAAAAT
1 TTTATAAATT
16808593 TTTAT--ATT
1 TTTATAAATT
* *
16808601 TCTATATA-T
1 TTTATAAATT
16808610 TTTAT-AATT
1 TTTATAAATT
*
16808619 TTTTTAACGATT
1 TTTATAA--ATT
*
16808631 TTTATAAAAT
1 TTTATAAATT
*
16808641 TTTA-CAATT
1 TTTATAAATT
16808650 TTTATAAATT
1 TTTATAAATT
16808660 TTTATAAATT
1 TTTATAAATT
*
16808670 TTTAT-ATTT
1 TTTATAAATT
*
16808679 TTTAT-ATTT
1 TTTATAAATT
*
16808688 TTTATTAAAAT
1 TTTA-TAAATT
* *
16808699 TTAATAATTT
1 TTTATAAATT
*
16808709 TTTATAACTT
1 TTTATAAATT
16808719 TT
1 TT
16808721 ATTGATTTTT
Statistics
Matches: 101, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
8 7 0.07
9 33 0.33
10 47 0.47
11 5 0.05
12 9 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTATAAATT
Found at i:16808737 original size:9 final size:10
Alignment explanation
Indices: 16808595--16808692 Score: 71
Period size: 9 Copynumber: 10.1 Consensus size: 10
16808585 TATAAAATTT
*
16808595 TATATTTCTA
1 TATATTTTTA
16808605 TATA-TTTTA
1 TATATTTTTA
*
16808614 TA-ATTTTTT
1 TATATTTTTA
*
16808623 TAACGATTTTTA
1 T-A-TATTTTTA
* *
16808635 TAAAATTTTA
1 TATATTTTTA
*
16808645 CA-ATTTTTA
1 TATATTTTTA
*
16808654 TAAATTTTTA
1 TATATTTTTA
*
16808664 TAAATTTTTA
1 TATATTTTTA
16808674 TAT-TTTTTA
1 TATATTTTTA
16808683 TAT-TTTTTA
1 TATATTTTTA
16808692 T
1 T
16808693 TAAAATTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
8 1 0.01
9 34 0.46
10 31 0.42
11 1 0.01
12 7 0.09
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (10 bp):
TATATTTTTA
Found at i:16809179 original size:32 final size:31
Alignment explanation
Indices: 16809134--16809229 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
16809124 CTTAGATAAT
16809134 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16809165 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
16809197 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16809228 TT
1 TT
16809230 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:16814086 original size:12 final size:10
Alignment explanation
Indices: 16814052--16814115 Score: 60
Period size: 11 Copynumber: 6.3 Consensus size: 10
16814042 TATTTTAGTC
*
16814052 TTTTTATAGT
1 TTTTTATAAT
*
16814062 CTTTTTAT-GT
1 -TTTTTATAAT
16814072 TTTTCTATAAT
1 TTTT-TATAAT
16814083 TTTTTATAA-
1 TTTTTATAAT
16814092 TTTTTATAAAT
1 TTTTTAT-AAT
*
16814103 TTTTTATGAT
1 TTTTTATAAT
16814113 TTT
1 TTT
16814116 AATTTTCATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
9 11 0.23
10 17 0.36
11 19 0.40
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:16814099 original size:19 final size:19
Alignment explanation
Indices: 16814052--16814115 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
16814042 TATTTTAGTC
* *
16814052 TTTTTATAGTCTTTTTATGT
1 TTTTTATAAT-TTTTTATGA
*
16814072 TTTTCTATAATTTTTTATAA
1 TTTT-TATAATTTTTTATGA
16814092 TTTTTATAAATTTTTTATGA
1 TTTTTAT-AATTTTTTATGA
16814112 TTTT
1 TTTT
16814116 AATTTTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 30 0.79
21 5 0.13
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTTTTTATGA
Found at i:16817188 original size:25 final size:25
Alignment explanation
Indices: 16817160--16817275 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
16817150 AAGCTTTTGC
16817160 GAGCCAAATATCGGGAAGCTCAAGA
1 GAGCCAAATATCGGGAAGCTCAAGA
* *
16817185 GAGCC-ATTAATCGGGAAGCTCATGA
1 GAGCCAAAT-ATCGGGAAGCTCAAGA
* * **
16817210 GAGCTAAATAACGGGAAGCTCGTGA
1 GAGCCAAATATCGGGAAGCTCAAGA
* * * *
16817235 GAGCCAAGTATTGAGAAGCTCGAGA
1 GAGCCAAATATCGGGAAGCTCAAGA
*
16817260 GAGCCAAATATTGGGA
1 GAGCCAAATATCGGGA
16817276 CATTCATAAG
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
24 2 0.03
25 71 0.95
26 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.16
Consensus pattern (25 bp):
GAGCCAAATATCGGGAAGCTCAAGA
Found at i:16817221 original size:75 final size:75
Alignment explanation
Indices: 16817110--16817265 Score: 188
Period size: 75 Copynumber: 2.1 Consensus size: 75
16817100 AAGCTCTTTC
* ** ** * *
16817110 GAGCCATGTAATGGGAAGCTCATGTGAACTGTATAACGGAAAGCTTTTGCGAGCCAAATATCGGG
1 GAGCCATGTAATGGGAAGCTCATGAGAACTAAATAACGGAAAGCTCGTGAGAGCCAAATATCGAG
16817175 AAGCTCAAGA
66 AAGCTCAAGA
* * * *
16817185 GAGCCAT-TAATCGGGAAGCTCATGAGAGCTAAATAACGGGAAGCTCGTGAGAGCCAAGTATTGA
1 GAGCCATGTAAT-GGGAAGCTCATGAGAACTAAATAACGGAAAGCTCGTGAGAGCCAAATATCGA
*
16817249 GAAGCTCGAGA
65 GAAGCTCAAGA
16817260 GAGCCA
1 GAGCCA
16817266 AATATTGGGA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 4 0.06
75 64 0.94
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (75 bp):
GAGCCATGTAATGGGAAGCTCATGAGAACTAAATAACGGAAAGCTCGTGAGAGCCAAATATCGAG
AAGCTCAAGA
Found at i:16817461 original size:21 final size:22
Alignment explanation
Indices: 16817429--16817482 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
16817419 CATGGAATTG
*
16817429 TATACAAATTAAACACA-AT-AA
1 TATACAATTTAAA-ACATATAAA
*
16817450 TATTCAATTTAAAACATATAAA
1 TATACAATTTAAAACATATAAA
16817472 TATACAATTTA
1 TATACAATTTA
16817483 GTTACACGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 13 0.46
22 12 0.43
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (22 bp):
TATACAATTTAAAACATATAAA
Found at i:16817465 original size:22 final size:22
Alignment explanation
Indices: 16817429--16817482 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
16817419 CATGGAATTG
*
16817429 TATACAAATT-AAACACAAT-AA
1 TATACAATTTAAAACA-AATAAA
* *
16817450 TATTCAATTTAAAACATATAAA
1 TATACAATTTAAAACAAATAAA
16817472 TATACAATTTA
1 TATACAATTTA
16817483 GTTACACGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (22 bp):
TATACAATTTAAAACAAATAAA
Found at i:16819851 original size:21 final size:20
Alignment explanation
Indices: 16819827--16819867 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16819817 AATAAGATTT
*
16819827 AATATTAAATTTAATCTAATA
1 AATATTAAATTAAAT-TAATA
*
16819848 AATATTATATTAAATTAATA
1 AATATTAAATTAAATTAATA
16819868 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTAAATTAAATTAATA
Found at i:16822404 original size:25 final size:25
Alignment explanation
Indices: 16822376--16822423 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16822366 ATCTTAATAG
*
16822376 TATTTTATTAAT-TTAATATTAAAAT
1 TATTATATTAATATTAA-ATTAAAAT
*
16822401 TATTATCTTAATATTAAATTAAA
1 TATTATATTAATATTAAATTAAA
16822424 TTTAATGTTT
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:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAAAT
Found at i:16822405 original size:20 final size:19
Alignment explanation
Indices: 16822380--16822429 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
16822370 TAATAGTATT
16822380 TTATTAATTTAATATTAAAA
1 TTATTAATTTAATATT-AAA
16822400 TTATT-ATCTTAATATTAAA
1 TTATTAAT-TTAATATTAAA
16822419 TTA--AATTTAAT
1 TTATTAATTTAAT
16822430 GTTTATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.18
18 2 0.07
19 8 0.29
20 13 0.46
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:16823773 original size:34 final size:34
Alignment explanation
Indices: 16823733--16823851 Score: 130
Period size: 34 Copynumber: 3.5 Consensus size: 34
16823723 ATTATTTACT
* **
16823733 GTATTGATATGATATTGGCATATTAATTGCTATC
1 GTATTGATCTGATATAAGCATATTAATTGCTATC
* * *
16823767 GTATTGATCTGTTATAAACATATTAATTGCTACC
1 GTATTGATCTGATATAAGCATATTAATTGCTATC
** * * *
16823801 AAATTGATCTGCTATAAGCATACTAATTGTTATC
1 GTATTGATCTGATATAAGCATATTAATTGCTATC
*
16823835 GTATTGATCTGTTATAA
1 GTATTGATCTGATATAA
16823852 ACATGACATA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (34 bp):
GTATTGATCTGATATAAGCATATTAATTGCTATC
Found at i:16838973 original size:18 final size:18
Alignment explanation
Indices: 16838952--16838987 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16838942 TAAAAACCTT
16838952 AATATTTTTAAAATATTG
1 AATATTTTTAAAATATTG
16838970 AATATTTTTAAAATATTG
1 AATATTTTTAAAATATTG
16838988 TGTGGGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
AATATTTTTAAAATATTG
Found at i:16846240 original size:133 final size:133
Alignment explanation
Indices: 16845966--16846227 Score: 355
Period size: 133 Copynumber: 2.0 Consensus size: 133
16845956 CGCACACAGT
* * *
16845966 CATGTGTCTTATTGATTTTAAGTGCAGGATTTTTCACACGGCATCAACCTGTGACATGGCCTGGC
1 CATGTGACTTATTGATTTTAAGTACAGGATTTTTCACACGGCATCAACCTGTGACACGGCCTGGC
* * * *
16846031 AACACGGGCGTGTGGAGTAGCCACACAACCAGGTTTGAGGCTACACGTGCTGATCGCTTTCACAC
66 AACACGAGCGTGTGGAGTAGCCACACAACCAGATTTGAGGCTACACGAGCTGACCGCTTTCACAC
16846096 GAC
131 GAC
* * * * *
16846099 CATGTGACTTATTGATTTTAGGTATAGGATTTTTCACACGGTATCAACCTGTTACACGGCTTGGC
1 CATGTGACTTATTGATTTTAAGTACAGGATTTTTCACACGGCATCAACCTGTGACACGGCCTGGC
* ** * *
16846164 AACATGAGCGTGTGCG-GTAGCCACATGACCATATTTGAGGCTACACGAGCTGGCCGCTTTCACA
66 AACACGAGCGTGTG-GAGTAGCCACACAACCAGATTTGAGGCTACACGAGCTGACCGCTTTCACA
16846228 TGGCCGTGTG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
133 110 0.99
134 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (133 bp):
CATGTGACTTATTGATTTTAAGTACAGGATTTTTCACACGGCATCAACCTGTGACACGGCCTGGC
AACACGAGCGTGTGGAGTAGCCACACAACCAGATTTGAGGCTACACGAGCTGACCGCTTTCACAC
GAC
Found at i:16852007 original size:25 final size:25
Alignment explanation
Indices: 16851956--16852007 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
16851946 TTTTGTTCTC
* * *
16851956 TTTATTATTTATTTTATAACAAGTA
1 TTTAATATTTATTTAATAACAAATA
16851981 TTTAATATTTAATTTAATAA-AAATA
1 TTTAATATTT-ATTTAATAACAAATA
16852006 TT
1 TT
16852008 AATTAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTAATATTTATTTAATAACAAATA
Found at i:16853244 original size:305 final size:304
Alignment explanation
Indices: 16852872--16853587 Score: 688
Period size: 307 Copynumber: 2.4 Consensus size: 304
16852862 GTATTTATTG
* * * ** * **
16852872 GATTTATAAACATATTCTTTACCACTACACC---AATAATTCTTGAGTAAGTTTTTTTATTATCA
1 GATTTATAAACAAATTTTTTACCACTACACCAATAATAATTCTTGAATAA--ACTTTTA-AAAAA
* *
16852934 AAATTAACTTTTAGTATAAAATATTTTCTCTCATCAAATTTGTGTATCTATA-CCAT-TAATAGA
63 AAATTAACTTTTA--ATAAAAT-TTTTCTCTCACCAAATTTGTGTATCTATATCCATCT-ATAAA
* * * * **
16852997 AT-TTCTGATTGAATTATTATCACAGGTTAACT-GGATACCAACTTAGTTAGGAAATGACTAATA
124 ATCCT-TAATTGAATTAGTATCACAGGTTAACTAGG-CACCAACCCAGTTAGGAAATGACTAATA
* * * *
16853060 -TACT-CA-CTACTATTATTATTTTGATGACTTTTTCTTTTCTTTTCATACTATTATATAGTTTT
187 TTACTAAAGCTACTACTATTATTTTGATGAC-ATTT-TTGTCTTTTCATACTATTATATAGTTTT
* * *** *
16853122 TAAATAAAAGAACTAAAGTTAACTTATCTAGGGATTGAACCCCTTTTTAAT-AAT
250 TAAATAAAAGAACTAAAATTAACATATCTAAAAATTGAACCCCTGTTTAATGAAT
16853176 AGATTTATAAACAAATTTTTTACCACTACACCAATAATAATTCTTGAATAAACTTTTAAAAAAAA
1 -GATTTATAAACAAATTTTTTACCACTACACCAATAATAATTCTTGAATAAACTTTTAAAAAAAA
**
16853241 ATTAAC-----ATAAAATTTCTTCTCTCACCAAATTTGTGTATCTATATTTATCTATAAAATCCT
65 ATTAACTTTTAATAAAATTT-TTCTCTCACCAAATTTGTGTATCTATATCCATCTATAAAATCCT
* * * * *
16853301 TAATTGAGTTGGTATCACGGGTTAACTAGGCACCATCCCGGTTAGGAAATGACTAATACCTTTTT
129 TAATTGAATTAGTATCACAGGTTAACTAGGCACCAACCCAGTTAGGAAATGACTAATA-----TT
* *
16853366 ATTAAATGGCTGCTACTATTATTTTGATGACATTTTTGTCTTTTCATACTATTATATAGTTTTTA
189 ACTAAA--GCTACTACTATTATTTTGATGACATTTTTGTCTTTTCATACTATTATATAGTTTTTA
* *
16853431 AATAAAAGAACTAAAATTAACATATCTAAAAATTGAACTCGTGTTTAATGAAT
252 AATAAAAGAACTAAAATTAACATATCTAAAAATTGAACCCCTGTTTAATGAAT
16853484 --TTTATAAACAAA-TTTTTACCACTACACCAATAATAATTCTT-AAGTAAAC--TTAAAAAAAA
1 GATTTATAAACAAATTTTTTACCACTACACCAATAATAATTCTTGAA-TAAACTTTTAAAAAAAA
* * *
16853543 A-T-ACTTTTAACATAAAATGTTTTGTCTCACCTAATTTGTATATCT
65 ATTAACTTTT-A-ATAAAAT-TTTTCTCTCACCAAATTTGTGTATCT
16853588 GTACTTACTA
Statistics
Matches: 343, Mismatches: 40, Indels: 54
0.78 0.09 0.12
Matches are distributed among these distances:
297 2 0.01
298 33 0.10
299 53 0.15
300 6 0.02
301 1 0.00
302 11 0.03
303 2 0.01
304 34 0.10
305 54 0.16
306 6 0.02
307 98 0.29
308 23 0.07
309 20 0.06
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (304 bp):
GATTTATAAACAAATTTTTTACCACTACACCAATAATAATTCTTGAATAAACTTTTAAAAAAAAA
TTAACTTTTAATAAAATTTTTCTCTCACCAAATTTGTGTATCTATATCCATCTATAAAATCCTTA
ATTGAATTAGTATCACAGGTTAACTAGGCACCAACCCAGTTAGGAAATGACTAATATTACTAAAG
CTACTACTATTATTTTGATGACATTTTTGTCTTTTCATACTATTATATAGTTTTTAAATAAAAGA
ACTAAAATTAACATATCTAAAAATTGAACCCCTGTTTAATGAAT
Found at i:16855177 original size:20 final size:20
Alignment explanation
Indices: 16855141--16855179 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16855131 CCACCAACAA
*
16855141 AATTAAAAAAATTTTAATTT
1 AATTAAAAAAATATTAATTT
16855161 AATTAAAATAAA-ATTAATT
1 AATTAAAA-AAATATTAATT
16855180 ACAATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTAAAAAAATATTAATTT
Found at i:16855788 original size:18 final size:19
Alignment explanation
Indices: 16855753--16855792 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
16855743 TCACGTCAAC
*
16855753 AAATGAATTTAAACTTAAA
1 AAATGAATTAAAACTTAAA
*
16855772 AAAT-AATTAAAATTTAAA
1 AAATGAATTAAAACTTAAA
16855790 AAA
1 AAA
16855793 AAACATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATGAATTAAAACTTAAA
Found at i:16855858 original size:10 final size:9
Alignment explanation
Indices: 16855823--16855859 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
16855813 GAGTTTACCC
16855823 ACAATTAAA
1 ACAATTAAA
16855832 ACAATTAAA
1 ACAATTAAA
*
16855841 AAAATTAAA
1 ACAATTAAA
16855850 ACAACTTAAA
1 ACAA-TTAAA
16855860 CACTAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (9 bp):
ACAATTAAA
Found at i:16857440 original size:81 final size:81
Alignment explanation
Indices: 16857257--16857458 Score: 359
Period size: 82 Copynumber: 2.5 Consensus size: 81
16857247 TTGAGATGGT
* *
16857257 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGTTTGGTTAATACTTACTGCTATAG
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACACTTACTGCTATAG
16857322 GATCATTTTGTTAGCA
66 GATCATTTTGTTAGCA
16857338 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACATCTTACTGCTATA
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACA-CTTACTGCTATA
*
16857403 GGATCATTTTGTTAGTA
65 GGATCATTTTGTTAGCA
*
16857420 TAACATATTTTGTTTGTTTTTTAAAATGATTTGTTGAAA
1 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAA
16857459 GATGTATACC
Statistics
Matches: 116, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 50 0.43
82 66 0.57
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (81 bp):
TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACACTTACTGCTATAG
GATCATTTTGTTAGCA
Found at i:16860030 original size:23 final size:23
Alignment explanation
Indices: 16859986--16860030 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16859976 ATGGATGAAA
* *
16859986 GTTAAAATATTTATATTAAACAT
1 GTTAAAATATTCATATAAAACAT
16860009 GTTAAAA-ATTCATATAATAACA
1 GTTAAAATATTCATATAA-AACA
16860031 ATTGCCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (23 bp):
GTTAAAATATTCATATAAAACAT
Found at i:16861867 original size:38 final size:38
Alignment explanation
Indices: 16861825--16861904 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
16861815 TATTATGTAT
*
16861825 ATATCAAGGATGTGGAATGGAGTGGAGGAGGAGGAAAA
1 ATATCAAGGATGTGAAATGGAGTGGAGGAGGAGGAAAA
16861863 ATATCAAGGATGTGAAATGGAGTGGAGGAGGAGGAAAA
1 ATATCAAGGATGTGAAATGGAGTGGAGGAGGAGGAAAA
16861901 ATAT
1 ATAT
16861905 ATCTGAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.41, C:0.03, G:0.39, T:0.17
Consensus pattern (38 bp):
ATATCAAGGATGTGAAATGGAGTGGAGGAGGAGGAAAA
Found at i:16865760 original size:19 final size:19
Alignment explanation
Indices: 16865736--16865772 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16865726 AGCCGTCCTA
*
16865736 TCCTTTCTTTTTTCTACTC
1 TCCTTTCTCTTTTCTACTC
16865755 TCCTTTCTCTTTTCTACT
1 TCCTTTCTCTTTTCTACT
16865773 TTGATGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.62
Consensus pattern (19 bp):
TCCTTTCTCTTTTCTACTC
Found at i:16868257 original size:16 final size:17
Alignment explanation
Indices: 16868236--16868270 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16868226 AATTAATTTA
*
16868236 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
16868252 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
16868269 AA
1 AA
16868271 CCTAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:16877405 original size:42 final size:43
Alignment explanation
Indices: 16877346--16877451 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 43
16877336 AATGTGATAT
* *
16877346 CGTGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATATGATTA
* * *
16877388 CGTGTAAGACCCTGTCTGGGACAGTGGCATTGTTATTTGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATATGATTA
*
16877431 CATGTAAGACCATGTCTGGGA
1 CGTGTAAGACCATGTCTGGGA
16877452 TGTTGGCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGTTATATGATTA
Found at i:16877440 original size:43 final size:42
Alignment explanation
Indices: 16877348--16877451 Score: 145
Period size: 43 Copynumber: 2.5 Consensus size: 42
16877338 TGTGATATCG
* * *
16877348 TGTAAGACCATGTCTGGGACATTGGCGTCGTATATGATTACG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
* * *
16877390 TGTAAGACCCTGTCTGGGACAGTGGCATTGTTATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGATTACA
16877433 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATGTCTGGGA
16877452 TGTTGGCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 26 0.48
43 28 0.52
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTACA
Found at i:16877459 original size:43 final size:43
Alignment explanation
Indices: 16877348--16877463 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
16877338 TGTGATATCG
* * *
16877348 TGTAAGACCATGTCTGGGACA-TTGGCGTCG-TATATGATTACG
1 TGTAAGACCATGTCTGGGA-AGTTGGCATTGTTATATGATTACA
* *
16877390 TGTAAGACCCTGTCTGGGACAG-TGGCATTGTTATTTGATTACA
1 TGTAAGACCATGTCTGGGA-AGTTGGCATTGTTATATGATTACA
*
16877433 TGTAAGACCATGTCTGGGATGTTGGCATTGT
1 TGTAAGACCATGTCTGGGAAGTTGGCATTGT
16877464 ACGAGCCTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 27 0.42
43 37 0.58
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGAAGTTGGCATTGTTATATGATTACA
Found at i:16878652 original size:21 final size:20
Alignment explanation
Indices: 16878628--16878666 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16878618 TTTGGAAATG
*
16878628 AATGGTTAAGTTGTAAAATTA
1 AATGCTTAAGTT-TAAAATTA
*
16878649 AATGCTTGAGTTTAAAAT
1 AATGCTTAAGTTTAAAAT
16878667 GTGTCATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (20 bp):
AATGCTTAAGTTTAAAATTA
Found at i:16878936 original size:14 final size:14
Alignment explanation
Indices: 16878917--16878944 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16878907 TGGCTTGACT
16878917 TAGTAAAATGTGAA
1 TAGTAAAATGTGAA
16878931 TAGTAAAATGTGAA
1 TAGTAAAATGTGAA
16878945 GAAGAGCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
TAGTAAAATGTGAA
Found at i:16891185 original size:24 final size:24
Alignment explanation
Indices: 16891153--16891206 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
16891143 TGGCATAAAT
16891153 GAACAACAACAAAAATTTTCATTG
1 GAACAACAACAAAAATTTTCATTG
16891177 GAACAACAACAAAAATTTTCATTG
1 GAACAACAACAAAAATTTTCATTG
*
16891201 GCACAA
1 GAACAA
16891207 AGGATTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (24 bp):
GAACAACAACAAAAATTTTCATTG
Found at i:16908628 original size:28 final size:28
Alignment explanation
Indices: 16908588--16908644 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
16908578 TTGCTCGGAA
16908588 GGATCAACTCGAGATCGACGATAGGGAG
1 GGATCAACTCGAGATCGACGATAGGGAG
16908616 GGATCAACTCGAGATCGACGATAGGGAG
1 GGATCAACTCGAGATCGACGATAGGGAG
16908644 G
1 G
16908645 TTGAATCGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.37, T:0.14
Consensus pattern (28 bp):
GGATCAACTCGAGATCGACGATAGGGAG
Found at i:16910243 original size:50 final size:51
Alignment explanation
Indices: 16910179--16910279 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 51
16910169 ATAGCAGTTA
16910179 TAATTGATTTAG-ACATATCTAAATGCCTTTGAGAGCAGGTTTCATTTTAC
1 TAATTGATTTAGAACATATCTAAATGCCTTTGAGAGCAGGTTTCATTTTAC
* *
16910229 TAATTGATTTAGACACATATCTAAATGTCTTTGAGAGCAGGTTTCTTTTTA
1 TAATTGATTTAGA-ACATATCTAAATGCCTTTGAGAGCAGGTTTCATTTTA
16910280 ATATATAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 12 0.26
52 35 0.74
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.42
Consensus pattern (51 bp):
TAATTGATTTAGAACATATCTAAATGCCTTTGAGAGCAGGTTTCATTTTAC
Found at i:16913569 original size:29 final size:29
Alignment explanation
Indices: 16913532--16913592 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
16913522 AGGGTTAGTG
* * *
16913532 TTAGTGTTTTTGAAAAAATAAATTAGGGT
1 TTAGGGTTTTTAAAAAAATAAATCAGGGT
16913561 TTAGGGTTTTTAAAAAAATAAATCAGGGT
1 TTAGGGTTTTTAAAAAAATAAATCAGGGT
16913590 TTA
1 TTA
16913593 ATTTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (29 bp):
TTAGGGTTTTTAAAAAAATAAATCAGGGT
Found at i:16913599 original size:29 final size:29
Alignment explanation
Indices: 16913537--16913602 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
16913527 TAGTGTTAGT
* * *
16913537 GTTTTTGAAAAAATAAATTAGGGTTTAGG
1 GTTTTTAAAAAAATAAATCAGGGTTTAAG
*
16913566 GTTTTTAAAAAAATAAATCAGGGTTTAAT
1 GTTTTTAAAAAAATAAATCAGGGTTTAAG
*
16913595 TTTTTTAA
1 GTTTTTAA
16913603 TTGGTAAGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.42
Consensus pattern (29 bp):
GTTTTTAAAAAAATAAATCAGGGTTTAAG
Found at i:16914988 original size:59 final size:59
Alignment explanation
Indices: 16914896--16915071 Score: 210
Period size: 59 Copynumber: 3.0 Consensus size: 59
16914886 AAATCGAAAT
* * * * ** ** *
16914896 AACTCCTAATTTATTAAATGAAACAATAAAAAAATAATTTGTA-TTATCTCATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAAAAT-ATTCAAAAC
*
16914955 AACTTCTATTTTATTAAATGAAATAATATAAAAATAGTTTGTACAAAAATATTCAAAAC
1 AACTTCTATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAAAATATTCAAAAC
* * * *
16915014 AACTTCTGTTTTATTAAATGAAACAATATAAAAACAGTTTGTACAAATATATTAAAAA
1 AACTTCTATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAAAATATTCAAAA
16915072 AATCAATGCA
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
59 99 0.98
60 2 0.02
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (59 bp):
AACTTCTATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAAAATATTCAAAAC
Found at i:16915104 original size:16 final size:16
Alignment explanation
Indices: 16915083--16915118 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
16915073 ATCAATGCAT
16915083 GTGCTGGTCGGGATCA
1 GTGCTGGTCGGGATCA
16915099 GTGCTGGTCGGGATCA
1 GTGCTGGTCGGGATCA
16915115 GTGC
1 GTGC
16915119 CACATGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.19, G:0.44, T:0.25
Consensus pattern (16 bp):
GTGCTGGTCGGGATCA
Found at i:16916015 original size:47 final size:47
Alignment explanation
Indices: 16915947--16916200 Score: 418
Period size: 47 Copynumber: 5.4 Consensus size: 47
16915937 ATACATATAT
* * * * *
16915947 AATTGGACTGCATTTACATATATATTTGGACTGCATTTGTACATCAAA
1 AATT-GACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
*
16915995 ATTTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
1 AATTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
16916042 AATTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
1 AATTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
16916089 AATTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
1 AATTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
* *
16916136 AATTGACAGCATATACATATATAATTGGACTGCATTTGTACATCAAA
1 AATTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
*
16916183 ATTTGACAGCATATACAT
1 AATTGACAGCATATACAT
16916201 TCATTTACTC
Statistics
Matches: 196, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
47 193 0.98
48 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (47 bp):
AATTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAA
Found at i:16916478 original size:14 final size:15
Alignment explanation
Indices: 16916454--16916488 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
16916444 TATATACATT
16916454 ACCATATAAATACTA
1 ACCATATAAATACTA
16916469 ACCATA-AAATACTA
1 ACCATATAAATACTA
16916483 ATCCAT
1 A-CCAT
16916489 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:16917228 original size:43 final size:43
Alignment explanation
Indices: 16917140--16917263 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
16917130 CGCTAGTACA
* *** * *
16917140 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA-AGTCG
16917183 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAAACACAAGTCG
1 ATGCCGAC-GTCCCAGAC-GTGGTCTTACACAAAAACACAAGTCG
*
16917226 ATGCCGACGTCCTAGACGTGGTCTTACACAAAAACACA
1 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA
16917264 TTTCGGAGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 4 0.06
43 63 0.90
44 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACAAGTCG
Found at i:16927935 original size:12 final size:12
Alignment explanation
Indices: 16927918--16927942 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16927908 ATTTCATTCC
16927918 ACATATATATAT
1 ACATATATATAT
16927930 ACATATATATAT
1 ACATATATATAT
16927942 A
1 A
16927943 AACAGATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:16928357 original size:93 final size:94
Alignment explanation
Indices: 16928287--16928723 Score: 734
Period size: 93 Copynumber: 4.7 Consensus size: 94
16928277 ATTTACAAAA
* *
16928287 TTGGACTGCATTTATACATAAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA
1 TTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA
16928352 TCAAAAATTGACAGCATATACATATATAT
66 TCAAAAATTGACAGCATATACATATATAT
* ** * *
16928381 TTGGACTGCATTTGTACATCAAAAATTGAGAGCATATACATATATAATTGGACTATAGTTATACG
1 TTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA
* * *
16928446 TAAAAAATTGATAGCATATACATATATAA
66 TCAAAAATTGACAGCATATACATATATAT
* * *
16928475 TTGGACTGC-CTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGCATTTATACA
1 TTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA
16928539 TCAAAAATTGACAGCATATACATATATAT
66 TCAAAAATTGACAGCATATACATATATAT
16928568 TTGGACTGCATTTGTACATC-AAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA
1 TTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA
16928632 TCAAAAATTGACAGCATATACATATATAT
66 TCAAAAATTGACAGCATATACATATATAT
*
16928661 TTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATA
1 TTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
16928724 AAACGTAATT
Statistics
Matches: 316, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
93 174 0.55
94 142 0.45
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (94 bp):
TTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACA
TCAAAAATTGACAGCATATACATATATAT
Found at i:16928392 original size:140 final size:140
Alignment explanation
Indices: 16928260--16928723 Score: 673
Period size: 140 Copynumber: 3.3 Consensus size: 140
16928250 ATTTTCACAC
* *
16928260 CAAAATTTGGACAGCATAT-TTACAAAATTGGACTGCATTTATACATAAAAAATTGACAGCATAT
1 CAAAAATT-GACAGCATATAATACAAAATTGGACTGCATTTATACATAAAAAATTGACAGCATAT
16928324 ACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATATATTTGGACTG
65 ACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATATATTTGGACTG
16928389 CATTTGTACAT
130 CATTTGTACAT
* * * ** * * *
16928400 CAAAAATTGAGAGCATATACATATATAATTGGACTATAGTTATACGTAAAAAATTGATAGCATAT
1 CAAAAATTGACAGCATATA-ATACAAAATTGGACTGCATTTATACATAAAAAATTGACAGCATAT
* * *
16928465 ACATATATAATTGGACTGC-CTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTG
65 ACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATATATTTGGACTG
*
16928529 CATTTATACAT
130 CATTTGTACAT
* * * * *
16928540 CAAAAATTGACAGCATATACATATATATTTGGACTGCATTTGTACAT-CAAAATTGACAGCATAT
1 CAAAAATTGACAGCATATA-ATACAAAATTGGACTGCATTTATACATAAAAAATTGACAGCATAT
16928604 ACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATATATTTGGACTG
65 ACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATATATTTGGACTG
16928669 CATTTGTACAT
130 CATTTGTACAT
* * *
16928680 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATA
1 CAAAAATTGACAGCATATA-ATACAAAATTGGACTGCATTTATA
16928724 AAACGTAATT
Statistics
Matches: 291, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
139 43 0.15
140 192 0.66
141 56 0.19
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (140 bp):
CAAAAATTGACAGCATATAATACAAAATTGGACTGCATTTATACATAAAAAATTGACAGCATATA
CATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATATATTTGGACTGC
ATTTGTACAT
Found at i:16928734 original size:47 final size:47
Alignment explanation
Indices: 16928285--16928723 Score: 711
Period size: 47 Copynumber: 9.4 Consensus size: 47
16928275 ATATTTACAA
*
16928285 AATTGGACTGCATTTATACATAAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
16928332 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* * *
16928379 ATTTGGACTGCATTTGTACATCAAAAATTGAGAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
** * * * *
16928426 AATTGGACTATAGTTATACGTAAAAAATTGATAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* *
16928473 AATTGGACTGC-CTTATACATCAAAAATTAACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
16928519 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* *
16928566 ATTTGGACTGCATTTGTACATC-AAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
16928612 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* * *
16928659 ATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
16928706 AATTGGACTGCATTTATA
1 AATTGGACTGCATTTATA
16928724 AAACGTAATT
Statistics
Matches: 360, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 85 0.24
47 275 0.76
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (47 bp):
AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
Found at i:16928979 original size:14 final size:15
Alignment explanation
Indices: 16928955--16928989 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
16928945 TATATACATT
16928955 ACCATATAAATACTA
1 ACCATATAAATACTA
16928970 ACCATA-AAATACTA
1 ACCATATAAATACTA
16928984 ATCCAT
1 A-CCAT
16928990 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:16929842 original size:43 final size:42
Alignment explanation
Indices: 16929642--16929852 Score: 205
Period size: 43 Copynumber: 4.9 Consensus size: 42
16929632 AGCTAGTGCA
*** *
16929642 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATACCG
1 ATGCC-ACGTCCCAGACGTGGTCTTACACAAAAACACATACCG
*
16929685 ATGCCACTGTCCCAGACAG-GGTCTTACACAAAAACACA-AGTCG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACACAAAAACACATA-CCG
* *** *
16929728 ATGCCGACGTCCTAGACGTGGTCTTACATGTAATCACATACCG
1 ATGCC-ACGTCCCAGACGTGGTCTTACACAAAAACACATACCG
*
16929771 ATGCCACTGTCCCAGACAG-GGTCTTACACAAAAACACA-AGTCG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACACAAAAACACATA-CCG
*
16929814 ATGCCGACGTCCTAGACGTGGTCTTACACAAAAACACAT
1 ATGCC-ACGTCCCAGACGTGGTCTTACACAAAAACACAT
16929853 TTCGGAGTCC
Statistics
Matches: 138, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
42 8 0.06
43 123 0.89
44 7 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACACAAAAACACATACCG
Found at i:16929852 original size:86 final size:86
Alignment explanation
Indices: 16929642--16929841 Score: 382
Period size: 86 Copynumber: 2.3 Consensus size: 86
16929632 AGCTAGTGCA
* *
16929642 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATACCGATGCCACTGTCCCAGACAGGGT
1 ATGCCGACGTCCTAGACGTGGTCTTACATGTAATCACATACCGATGCCACTGTCCCAGACAGGGT
16929707 CTTACACAAAAACACAAGTCG
66 CTTACACAAAAACACAAGTCG
16929728 ATGCCGACGTCCTAGACGTGGTCTTACATGTAATCACATACCGATGCCACTGTCCCAGACAGGGT
1 ATGCCGACGTCCTAGACGTGGTCTTACATGTAATCACATACCGATGCCACTGTCCCAGACAGGGT
16929793 CTTACACAAAAACACAAGTCG
66 CTTACACAAAAACACAAGTCG
16929814 ATGCCGACGTCCTAGACGTGGTCTTACA
1 ATGCCGACGTCCTAGACGTGGTCTTACA
16929842 CAAAAACACA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 112 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (86 bp):
ATGCCGACGTCCTAGACGTGGTCTTACATGTAATCACATACCGATGCCACTGTCCCAGACAGGGT
CTTACACAAAAACACAAGTCG
Found at i:16932177 original size:49 final size:49
Alignment explanation
Indices: 16932101--16932200 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
16932091 GGCAATCTCC
* *
16932101 GATTTTGATTTTATTTGGTTACGTCGCCCGACACATCTCCCGATACAAT
1 GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
* *
16932150 GATTTTGATTTTATTTAGTTGCTTCGCCCAACACATCTCCCGATACAAT
1 GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
16932199 GA
1 GA
16932201 CAACAACACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (49 bp):
GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
Found at i:16932773 original size:10 final size:10
Alignment explanation
Indices: 16932758--16932797 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
16932748 TACCGACTGA
16932758 TATAAAAAAT
1 TATAAAAAAT
16932768 TATAAAAAAT
1 TATAAAAAAT
*
16932778 TATTAATTAAAT
1 TA-TAA-AAAAT
16932790 TATAAAAA
1 TATAAAAA
16932798 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 14 0.54
11 6 0.23
12 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:16932795 original size:32 final size:33
Alignment explanation
Indices: 16932758--16932836 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 33
16932748 TACCGACTGA
* *
16932758 TATAAAAAATTATAA-AAAATTATTAATTAA-AT
1 TATAAAAAATTA-AATAAAAATATTAAATAATAT
*
16932790 TAT-AAAAATGAAATAAAAATATTAAATAATAT
1 TATAAAAAATTAAATAAAAATATTAAATAATAT
16932822 T-TAAAAAATTGAAAT
1 TATAAAAAATT-AAAT
16932837 TAACTCTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 2 0.05
31 21 0.54
32 12 0.31
33 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (33 bp):
TATAAAAAATTAAATAAAAATATTAAATAATAT
Found at i:16938912 original size:3 final size:3
Alignment explanation
Indices: 16938904--16939044 Score: 282
Period size: 3 Copynumber: 47.0 Consensus size: 3
16938894 ACAAATTTCA
16938904 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16938952 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16939000 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16939045 ACTCTTTTAA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 138 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16943554 original size:8 final size:8
Alignment explanation
Indices: 16943541--16943598 Score: 68
Period size: 8 Copynumber: 7.4 Consensus size: 8
16943531 ATGAGTTCAA
16943541 AAAAAATC
1 AAAAAATC
16943549 AAAAAAATC
1 -AAAAAATC
16943558 -AAAAA--
1 AAAAAATC
16943563 AAAAAATC
1 AAAAAATC
16943571 AAAAAATC
1 AAAAAATC
*
16943579 AAAAAATTA
1 AAAAAA-TC
16943588 AAAAAATC
1 AAAAAATC
16943596 AAA
1 AAA
16943599 GTCAAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
6 5 0.12
7 5 0.12
8 18 0.42
9 15 0.35
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:16943554 original size:9 final size:9
Alignment explanation
Indices: 16943540--16943598 Score: 60
Period size: 9 Copynumber: 7.3 Consensus size: 9
16943530 CATGAGTTCA
16943540 AAAAAAATC
1 AAAAAAATC
16943549 AAAAAAATC
1 AAAAAAATC
16943558 ---AAAA--
1 AAAAAAATC
16943562 AAAAAAATC
1 AAAAAAATC
16943571 -AAAAAATC
1 AAAAAAATC
*
16943579 -AAAAAATT
1 AAAAAAATC
16943587 AAAAAAATC
1 AAAAAAATC
16943596 AAA
1 AAA
16943599 GTCAAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 4 0.10
7 4 0.10
8 15 0.36
9 19 0.45
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATC
Found at i:16943564 original size:12 final size:13
Alignment explanation
Indices: 16943549--16943613 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 13
16943539 AAAAAAAATC
16943549 AAAAAAATCAAAA
1 AAAAAAATCAAAA
16943562 AAAAAAATCAAAAA
1 AAAAAAATC-AAAA
*
16943576 ATCAAAAAATTAAAA
1 A--AAAAAATCAAAA
*
16943591 AAATCAAAGTCAAAA
1 AAA--AAAATCAAAA
16943606 TAAAAAAA
1 -AAAAAAA
16943614 GAAAAAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 11 0.26
14 8 0.19
15 13 0.31
16 10 0.24
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAAAATCAAAA
Found at i:16943590 original size:22 final size:22
Alignment explanation
Indices: 16943539--16943584 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
16943529 TCATGAGTTC
16943539 AAAAAAAATCAAAAAAATCAAA
1 AAAAAAAATCAAAAAAATCAAA
16943561 AAAAAAAATC-AAAAAATCAAA
1 AAAAAAAATCAAAAAAATCAAA
16943582 AAA
1 AAA
16943585 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (22 bp):
AAAAAAAATCAAAAAAATCAAA
Found at i:16944496 original size:8 final size:8
Alignment explanation
Indices: 16944460--16944489 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
16944450 TTGAGTCAAA
16944460 AAAAAGATG
1 AAAAA-ATG
16944469 AAAAAATG
1 AAAAAATG
16944477 AAAAAATG
1 AAAAAATG
16944485 AAAAA
1 AAAAA
16944490 GTAAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:16944496 original size:16 final size:17
Alignment explanation
Indices: 16944459--16944496 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
16944449 TTTGAGTCAA
16944459 AAAAAAGATGAAAAAAT
1 AAAAAAGATGAAAAAAT
* *
16944476 GAAAAA-ATGAAAAAGT
1 AAAAAAGATGAAAAAAT
16944492 AAAAA
1 AAAAA
16944497 TGGAGAGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAAAAGATGAAAAAAT
Done.