Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015327.1 Kokia drynarioides strain JFW-HI SEQ_130373, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 289648
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 660 characters in sequence are not A, C, G, or T
Found at i:377 original size:3 final size:3
Alignment explanation
Indices: 369--398 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
359 CTACAATCTC
369 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
399 TCTTAATATA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8748 original size:14 final size:16
Alignment explanation
Indices: 8708--8748 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
8698 AAAATATCGT
*
8708 TAAACATATTAAACAA
1 TAAACAAATTAAACAA
8724 TAAACAAATTAAA-AA
1 TAAACAAATTAAACAA
*
8739 -AAATAAATTA
1 TAAACAAATTA
8749 TCTTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 12 0.52
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAACAAATTAAACAA
Found at i:16154 original size:33 final size:34
Alignment explanation
Indices: 16081--16159 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
16071 TTTATAATAC
* *
16081 ATAAAATATAATAATATTATAATGTAAATATTAA
1 ATAATATATAATAATATTATAATGTAAATATAAA
*
16115 ACAATATATAA-AATGATTA-AATGTTAAAT-TAAA
1 ATAATATATAATAAT-ATTATAATG-TAAATATAAA
16148 ATAATATA-AATA
1 ATAATATATAATA
16160 TTTATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
32 2 0.05
33 18 0.47
34 18 0.47
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (34 bp):
ATAATATATAATAATATTATAATGTAAATATAAA
Found at i:24256 original size:35 final size:35
Alignment explanation
Indices: 24207--24274 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
24197 GATTCAACCC
* *
24207 AAGAATTTGTATACAAATTGACTTGCAACTTGACA
1 AAGAATTTGAATACAAATTGACTTACAACTTGACA
*
24242 AAGAATTTGAATACAAATTGACTTACTACTTGA
1 AAGAATTTGAATACAAATTGACTTACAACTTGA
24275 AATTGATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (35 bp):
AAGAATTTGAATACAAATTGACTTACAACTTGACA
Found at i:25117 original size:146 final size:147
Alignment explanation
Indices: 24952--25243 Score: 367
Period size: 146 Copynumber: 2.0 Consensus size: 147
24942 AAAAATTTGA
* * ** * *
24952 TTTTTTTAAACAATTTCGAAATGAAAGTTTTGATTTTTACGA-AAATTAGTGATTTTCTTTAAAA
1 TTTTTTTAAACAATTTCGAAATAAAAGTTTAGACATTTA-AATAAAATAGTGATTTTCTTTAAAA
*
25016 AAGAAAAAGTTT-TTATTTTTAAAAATAAAAATATATTTTTT-AGT-TATTTTAAACAAAAAGTT
65 AAGAAAAAGTTTATT-TTTTTAAAAATAAAAATATATTTTTTAAGTCT-TTTTAAACAAAAACTT
*
25078 TAAATTTTTAAATAAAGTTT
128 TAAATTTTTAAACAAAGTTT
* * *
25098 TTTTTTTTAACTATTTCGAAATAAAAGTTTAGACATTTAAATAAAATAGTGATTTTCTTTTAAAA
1 TTTTTTTAAACAATTTCGAAATAAAAGTTTAGACATTTAAATAAAATAGTGATTTTCTTTAAAAA
* * * * *
25163 ATATAAAGTTTAGATTTTTTTAAAAATAAAAATCTGTTTTTTAAGTCTTTTTAAAGAAAAACTTT
66 AGAAAAAGTTT--ATTTTTTTAAAAATAAAAATATATTTTTTAAGTCTTTTTAAACAAAAACTTT
25228 AAATTTTTAAACAAAG
129 AAATTTTTAAACAAAG
25244 GTAAAGTTTA
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
145 1 0.01
146 63 0.51
148 24 0.19
149 35 0.28
150 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.45
Consensus pattern (147 bp):
TTTTTTTAAACAATTTCGAAATAAAAGTTTAGACATTTAAATAAAATAGTGATTTTCTTTAAAAA
AGAAAAAGTTTATTTTTTTAAAAATAAAAATATATTTTTTAAGTCTTTTTAAACAAAAACTTTAA
ATTTTTAAACAAAGTTT
Found at i:25332 original size:178 final size:171
Alignment explanation
Indices: 25097--25414 Score: 429
Period size: 178 Copynumber: 1.8 Consensus size: 171
25087 AAATAAAGTT
* *
25097 TTTTTTTTTAACTATTTCGAAATAAAAGTTTAGACATTTAAATAAAATAGTGATTTTCTTTTAAA
1 TTTTTTTTTAACTATTTCAAAATAAAAGTTTAGACATTTAAATAAAATAGAGATTTTC-TTT--A
* *** *
25162 AATATAAAGTTTAGATTTTTTTAAAAATAAAAATCTGTTTTTTAAGTCTTTTTAAAGAAAAACTT
63 AA-A-AAA-TTTAGACTTTAAAAAAAATAAAAATCTGTTTTTT-AGTCATTTTAAAGAAAAACTT
*
25227 TAAATTTTTAAACAAAGGTAAAGTTTAATTTTTTAAACAAAAATTTGA
124 TAAAATTTTAAACAAAGGTAAAGTTTAATTTTTTAAACAAAAATTTGA
* ** * *
25275 TTTTTTTTTAACTATTTCAAAATAAAAGTTTGGATTTTTAAGTAAAGTAGAGATTTTCTTTAAAA
1 TTTTTTTTTAACTATTTCAAAATAAAAGTTTAGACATTTAAATAAAATAGAGATTTTCTTTAAAA
* *
25340 AAATTTAGACTTTAAAAAAAATAAAAATCTGTTTTTTAGTGATTTTAAAGAAAAAGTTTAAAATT
66 AAATTTAGACTTTAAAAAAAATAAAAATCTGTTTTTTAGTCATTTTAAAGAAAAACTTTAAAATT
*
25405 TTAAATAAAG
131 TTAAACAAAG
25415 TTTTGCTTTT
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
171 33 0.27
172 30 0.24
173 3 0.02
174 1 0.01
175 3 0.02
177 3 0.02
178 51 0.41
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (171 bp):
TTTTTTTTTAACTATTTCAAAATAAAAGTTTAGACATTTAAATAAAATAGAGATTTTCTTTAAAA
AAATTTAGACTTTAAAAAAAATAAAAATCTGTTTTTTAGTCATTTTAAAGAAAAACTTTAAAATT
TTAAACAAAGGTAAAGTTTAATTTTTTAAACAAAAATTTGA
Found at i:31777 original size:4 final size:4
Alignment explanation
Indices: 31768--31823 Score: 58
Period size: 4 Copynumber: 14.0 Consensus size: 4
31758 ATGTGAATAT
* * * * * *
31768 ATAC ATAC ATGC ATGC ATAC ATAC ATAC ATAT GTAC ATAT GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
31816 ATAC ATAC
1 ATAC ATAC
31824 GTATGTATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:31806 original size:20 final size:20
Alignment explanation
Indices: 31764--31823 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
31754 ATTGATGTGA
* *
31764 ATATATACATACATGCATGC
1 ATATATACATACATACATAC
* **
31784 ATACATACATACATATGTAC
1 ATATATACATACATACATAC
*
31804 ATATGTACATACATACATAC
1 ATATATACATACATACATAC
31824 GTATGTATTT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
ATATATACATACATACATAC
Found at i:31828 original size:20 final size:20
Alignment explanation
Indices: 31764--31830 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
31754 ATTGATGTGA
* * *
31764 ATATATACATACATGCATGC
1 ATATGTACATACATACATAC
** **
31784 ATACATACATACATATGTAC
1 ATATGTACATACATACATAC
31804 ATATGTACATACATACATAC
1 ATATGTACATACATACATAC
*
31824 GTATGTA
1 ATATGTA
31831 TTTGGAAAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (20 bp):
ATATGTACATACATACATAC
Found at i:41575 original size:3 final size:3
Alignment explanation
Indices: 41561--41610 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
41551 AGCAATCACC
* * *
41561 GAA GAA GGA GAA GAA GAA GAA GAA GAA GAC GAA GAA -AGC GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA
41606 GAA GA
1 GAA GA
41611 CAACTGAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:52237 original size:28 final size:28
Alignment explanation
Indices: 52199--52303 Score: 104
Period size: 28 Copynumber: 3.8 Consensus size: 28
52189 AAATTATTGG
* *
52199 AAAGGGATATCCACAAGGATATCAATGA
1 AAAGGAATATCCATAAGGATATCAATGA
* * *
52227 AAAGGAATATCCGTAAGGATATTATTGA
1 AAAGGAATATCCATAAGGATATCAATGA
* * **
52255 AAA-GAGATATCCAAAAAGATATCAACAA
1 AAAGGA-ATATCCATAAGGATATCAATGA
*
52283 AAAGGAATATCCGTAAGGATA
1 AAAGGAATATCCATAAGGATA
52304 CTTTAAAAAG
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
27 2 0.03
28 56 0.93
29 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (28 bp):
AAAGGAATATCCATAAGGATATCAATGA
Found at i:52277 original size:56 final size:56
Alignment explanation
Indices: 52191--52303 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
52181 TTAGATAAAA
* * * * **
52191 ATTATTGGAAAGGGATATCCACAAGGATATCAATGAAAAGGAATATCCGTAAGGAT
1 ATTATTGAAAAGAGATATCCAAAAAGATATCAACAAAAAGGAATATCCGTAAGGAT
52247 ATTATTGAAAAGAGATATCCAAAAAGATATCAACAAAAAGGAATATCCGTAAGGAT
1 ATTATTGAAAAGAGATATCCAAAAAGATATCAACAAAAAGGAATATCCGTAAGGAT
52303 A
1 A
52304 CTTTAAAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (56 bp):
ATTATTGAAAAGAGATATCCAAAAAGATATCAACAAAAAGGAATATCCGTAAGGAT
Found at i:64931 original size:26 final size:27
Alignment explanation
Indices: 64887--64937 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
64877 TAAAATGTCT
64887 AAAATATTTAAAAAAAATTAAATATGG
1 AAAATATTTAAAAAAAATTAAATATGG
* *
64914 AAAA-ATTTTAAAATAATTAAATAT
1 AAAATATTTAAAAAAAATTAAATAT
64938 TAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (27 bp):
AAAATATTTAAAAAAAATTAAATATGG
Found at i:65123 original size:11 final size:11
Alignment explanation
Indices: 65107--65151 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
65097 AACTCAACTC
65107 ATTTTAAATTT
1 ATTTTAAATTT
*
65118 ATTTTAAGATTG
1 ATTTTAA-ATTT
*
65130 AATTT-AATTT
1 ATTTTAAATTT
65140 ATTTTAAATTT
1 ATTTTAAATTT
65151 A
1 A
65152 AATTTATTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 7 0.25
11 14 0.50
12 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:65155 original size:17 final size:18
Alignment explanation
Indices: 65130--65175 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
65120 TTTAAGATTG
*
65130 AATTT-AATTTATT-TTA
1 AATTTAAATTTATTCTAA
65146 AATTTAAATTTATTCTAA
1 AATTTAAATTTATTCTAA
*
65164 AATTTATATTTA
1 AATTTAAATTTA
65176 AATTTAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 13 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTAAATTTATTCTAA
Found at i:65155 original size:22 final size:22
Alignment explanation
Indices: 65113--65157 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
65103 ACTCATTTTA
*
65113 AATTTATTTTAAGATTGAATTT
1 AATTTATTTTAAGATTAAATTT
65135 AATTTATTTTAA-ATTTAAATTT
1 AATTTATTTTAAGA-TTAAATTT
65157 A
1 A
65158 TTCTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
AATTTATTTTAAGATTAAATTT
Found at i:65911 original size:3 final size:3
Alignment explanation
Indices: 65903--65964 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
65893 ATAACTTCAT
* * * * *
65903 TAA TAA TAA TAA TAT TAA TAA CAAA TAA TAT TAG TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* *
65949 TAA TAA CAG TAA TAA T
1 TAA TAA TAA TAA TAA T
65965 GAATTTATTA
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:65921 original size:12 final size:12
Alignment explanation
Indices: 65906--65983 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 12
65896 ACTTCATTAA
65906 TAATAATAATAT
1 TAATAATAATAT
65918 TAATAACAAATAATAT
1 TAAT----AATAATAT
*
65934 TAGTAATAATAT
1 TAATAATAATAT
* *
65946 TAATAATAACAG
1 TAATAATAATAT
65958 TAATAATGAATTTAT
1 TAATAAT-AA--TAT
*
65973 TAATGATAATA
1 TAATAATAATA
65984 AATAATGTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
12 30 0.58
13 2 0.04
14 2 0.04
15 7 0.13
16 11 0.21
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:67045 original size:30 final size:30
Alignment explanation
Indices: 67011--67134 Score: 144
Period size: 30 Copynumber: 4.2 Consensus size: 30
67001 AAACTATCCA
67011 AAAATCATATTTTGACCCCTAAACTTTTCC
1 AAAATCATATTTTGACCCCTAAACTTTTCC
** *
67041 AAAATTTTATTTTGA-CCCTCAAACTATTCC
1 AAAATCATATTTTGACCCCT-AAACTTTTCC
* *
67071 AAAATCATATTTTGACCCTTAAACTTCTCC
1 AAAATCATATTTTGACCCCTAAACTTTTCC
* * * *
67101 AAAATTAAATTTTGACCCCCAAAC-GTTCC
1 AAAATCATATTTTGACCCCTAAACTTTTCC
67130 AAAAT
1 AAAAT
67135 TCCATTTTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
29 12 0.15
30 63 0.81
31 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATCATATTTTGACCCCTAAACTTTTCC
Found at i:67094 original size:60 final size:60
Alignment explanation
Indices: 67001--67134 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 60
66991 AAAGGTCCTT
* ** *
67001 AAACTA-TCCAAAAATCATATTTTGACCCCTAAACTTTTCCAAAATTTTATTTTGACCCTC
1 AAACTATTCC-AAAATCATATTTTGACCCCTAAACTTCTCCAAAATTAAATTTTGACCCCC
*
67061 AAACTATTCCAAAATCATATTTTGACCCTTAAACTTCTCCAAAATTAAATTTTGACCCCC
1 AAACTATTCCAAAATCATATTTTGACCCCTAAACTTCTCCAAAATTAAATTTTGACCCCC
*
67121 AAAC-GTTCCAAAAT
1 AAACTATTCCAAAAT
67135 TCCATTTTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
59 9 0.13
60 55 0.82
61 3 0.04
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (60 bp):
AAACTATTCCAAAATCATATTTTGACCCCTAAACTTCTCCAAAATTAAATTTTGACCCCC
Found at i:67162 original size:29 final size:28
Alignment explanation
Indices: 67130--67235 Score: 101
Period size: 30 Copynumber: 3.6 Consensus size: 28
67120 CAAACGTTCC
67130 AAAATT-CCATTTTTAACCTAATTTTTCAA
1 AAAATTACCA-TTTTAACCTAATTTTTC-A
* *
67159 AAAATTACCATTTTACCCTCTAA-CTTTCA
1 AAAATTACCATTTTA-AC-CTAATTTTTCA
*
67188 AAAATT-CAATTTTTAACCTCAATTTTTTCA
1 AAAATTACCA-TTTTAACCT-AA-TTTTTCA
67218 AAAATTACCATTTTAACC
1 AAAATTACCATTTTAACC
67236 CCCAAACTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
27 2 0.03
28 5 0.08
29 23 0.37
30 27 0.43
31 6 0.10
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATTACCATTTTAACCTAATTTTTCA
Found at i:67172 original size:59 final size:59
Alignment explanation
Indices: 67101--67359 Score: 274
Period size: 58 Copynumber: 4.3 Consensus size: 59
67091 AAACTTCTCC
* *
67101 AAAATTA-AATTTTGACCCCCAAACGTTCC-AAAATTCCATTTTTAACCT-AATTTTTCAA
1 AAAATTACCATTTT-ACCCCCAAAC-TTCCAAAAATTCCATTTTTAACCTCAATTTTTCCA
* * * * *
67159 AAAATTACCATTTTACCCTCTAACTTTCAAAAATTCAATTTTTAACCTCAATTTTTTCA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCA
* ** *
67218 AAAATTACCATTTTAACCCCCAAACTTCCCAAAAATTCCATTTTTTACCTTGA-TTTTCCC
1 AAAATTACCATTTT-ACCCCCAAACTT-CCAAAAATTCCATTTTTAACCTCAATTTTTCCA
** * * * *
67278 AAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCTTTTTTTGATCCTGATTTTTTTCCA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATTCC-ATTTTT-AACCTCA-ATTTTTCCA
67340 AAAATTACCATTTTACCCCC
1 AAAATTACCATTTTACCCCC
67360 GGATGTCTAA
Statistics
Matches: 165, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
57 3 0.02
58 44 0.27
59 42 0.25
60 32 0.19
61 20 0.12
62 24 0.15
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTAACCTCAATTTTTCCA
Found at i:67305 original size:29 final size:29
Alignment explanation
Indices: 67079--67312 Score: 106
Period size: 29 Copynumber: 7.9 Consensus size: 29
67069 CCAAAATCAT
* *
67079 ATTTTGACCCTTAAACTTCTCCAAAATTA-A
1 ATTTT-ACCCTTAAACTTC-CAAAAATTACC
**
67109 ATTTTGACCCCCAAACGTTCC-AAAATT-CC
1 ATTTT-ACCCTTAAAC-TTCCAAAAATTACC
* ** *
67138 ATTTTTAACC-TAATTTTTCAAAAAATTACC
1 A-TTTTACCCTTAA-ACTTCCAAAAATTACC
* *
67168 ATTTTACCCTCT-AACTTTCAAAAATT-CA
1 ATTTTACCCT-TAAACTTCCAAAAATTACC
* * ** *
67196 ATTTTTAACCTCAATTTTTTCAAAAATTACC
1 A-TTTTACCCTTAA-ACTTCCAAAAATTACC
**
67227 ATTTTAACCCCCAAACTTCCCAAAAATT-CC
1 ATTTT-ACCCTTAAACTT-CCAAAAATTACC
* ** *
67257 ATTTTTTA-CCTTGATTTTCCCAAAATTACC
1 A--TTTTACCCTTAAACTTCCAAAAATTACC
67287 ATTTTACCCTTAAACTTCCAAAAATT
1 ATTTTACCCTTAAACTTCCAAAAATT
67313 CCTTTTTTTG
Statistics
Matches: 152, Mismatches: 34, Indels: 37
0.68 0.15 0.17
Matches are distributed among these distances:
28 12 0.08
29 64 0.42
30 51 0.34
31 21 0.14
32 4 0.03
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTACCCTTAAACTTCCAAAAATTACC
Found at i:67320 original size:119 final size:120
Alignment explanation
Indices: 67101--67359 Score: 316
Period size: 119 Copynumber: 2.2 Consensus size: 120
67091 AAACTTCTCC
*
67101 AAAATTA-AATTTTGACCCCCAAACGTTCCAAAATTCCATTTTTAACCTAATTTTTCAAAAAATT
1 AAAATTACCATTTT-ACCCCCAAACGTTCCAAAATTCCATTTTTAACCTAATTTTTCAAAAAATT
*
67165 ACCATTTTACCCTCTAACTTTCAAAAATTCA-ATTTTT-AACCTCAATTTTTT-CA
65 ACCATTTTACCCTCTAACTTCCAAAAATTCATATTTTTGAACCTCAATTTTTTCCA
* * **
67218 AAAATTACCATTTTAACCCCCAAAC-TTCCCAAAAATTCCATTTTTTACCTTGA-TTTTCCCAAA
1 AAAATTACCATTTT-ACCCCCAAACGTT-CC-AAAATTCCATTTTTAACC-TAATTTTTCAAAAA
* * * * *
67281 ATTACCATTTTACCCT-TAAACTTCCAAAAATTCCTTTTTTTGATCCTGATTTTTTTCCA
62 ATTACCATTTTACCCTCT-AACTTCCAAAAATTCATATTTTTGAACCTCAATTTTTTCCA
67340 AAAATTACCATTTTACCCCC
1 AAAATTACCATTTTACCCCC
67360 GGATGTCTAA
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
117 9 0.07
118 18 0.15
119 55 0.45
120 7 0.06
121 17 0.14
122 16 0.13
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (120 bp):
AAAATTACCATTTTACCCCCAAACGTTCCAAAATTCCATTTTTAACCTAATTTTTCAAAAAATTA
CCATTTTACCCTCTAACTTCCAAAAATTCATATTTTTGAACCTCAATTTTTTCCA
Found at i:67372 original size:119 final size:118
Alignment explanation
Indices: 67101--67411 Score: 312
Period size: 119 Copynumber: 2.6 Consensus size: 118
67091 AAACTTCTCC
* * * **
67101 AAAATTA-AATTTTGACCCCCAAACGTTCC-AAAATTCCATTTTTAACC-TAATTTTTCAAAAAA
1 AAAATTACCATTTTAACCCCCAAAC-TTCCAAAAATTCCATTTTTAACCTTGA-TTTTCCCAAAA
*
67163 TTACCATTTTACCCTCTAACTTTCAAAAATTCAATTTTTAACCTCAATTTTTTCA
64 TTACCATTTTACCCTCTAACTTCCAAAAATTCAATTTTTAACCTCAATTTTTTCA
*
67218 AAAATTACCATTTTAACCCCCAAACTTCCCAAAAATTCCATTTTTTACCTTGATTTTCCCAAAAT
1 AAAATTACCATTTTAACCCCCAAACTT-CCAAAAATTCCATTTTTAACCTTGATTTTCCCAAAAT
** * * *
67283 TACCATTTTACCCT-TAAACTTCCAAAAATTCCTTTTTTTGATCCTGATTTTTTTCCA
65 TACCATTTTACCCTCT-AACTTCCAAAAATT-CAATTTTT-AACCTCAATTTTTT-CA
** * *** * *
67340 AAAATTACCATTTT-ACCCCCGGA-TGT-CTAAAATTTTGTTTTTAACCTCGAACTTTCCCAAAA
1 AAAATTACCATTTTAACCCCCAAACT-TCCAAAAATTCCATTTTTAACCTTG-ATTTTCCCAAAA
67402 TTACCATTTT
64 TTACCATTTT
67412 GCTTCTCGAG
Statistics
Matches: 163, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
117 9 0.06
118 18 0.11
119 71 0.44
120 30 0.18
121 19 0.12
122 16 0.10
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (118 bp):
AAAATTACCATTTTAACCCCCAAACTTCCAAAAATTCCATTTTTAACCTTGATTTTCCCAAAATT
ACCATTTTACCCTCTAACTTCCAAAAATTCAATTTTTAACCTCAATTTTTTCA
Found at i:70669 original size:30 final size:30
Alignment explanation
Indices: 70635--70708 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
70625 CAGGAACTGT
*
70635 TAATGGTAATGAAGAATGGACAA-AATCTGA
1 TAATGGTGATGAAGAATGGA-AAGAATCTGA
* * * *
70665 TAATGGTGATGGAGAATGTAAAGAATTTGG
1 TAATGGTGATGAAGAATGGAAAGAATCTGA
70695 TAATGGTGATGAAG
1 TAATGGTGATGAAG
70709 GAGGAATAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.41, C:0.03, G:0.30, T:0.27
Consensus pattern (30 bp):
TAATGGTGATGAAGAATGGAAAGAATCTGA
Found at i:74462 original size:16 final size:18
Alignment explanation
Indices: 74441--74474 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74431 AATTGAAAGG
74441 TAAATT-AA-GAGGAATT
1 TAAATTAAAGGAGGAATT
74457 TAAATTAAAGGAGGAATT
1 TAAATTAAAGGAGGAATT
74475 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TAAATTAAAGGAGGAATT
Found at i:78387 original size:18 final size:18
Alignment explanation
Indices: 78364--78399 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
78354 AAATGTATAA
78364 AACATATTAAAATAAACT
1 AACATATTAAAATAAACT
78382 AACATATTAAAATAAACT
1 AACATATTAAAATAAACT
78400 TTGGTTGAGT
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:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (18 bp):
AACATATTAAAATAAACT
Found at i:78782 original size:22 final size:23
Alignment explanation
Indices: 78751--78793 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
78741 AATTTTAAAA
*
78751 TATTTAT-AAAAATTCTAAAATT
1 TATTTATAAAAAATTATAAAATT
*
78773 TATTTTTAAAAAATTATAAAA
1 TATTTATAAAAAATTATAAAA
78794 AGTTAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTTATAAAAAATTATAAAATT
Found at i:78830 original size:23 final size:22
Alignment explanation
Indices: 78782--78832 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
78772 TTATTTTTAA
*
78782 AAAATTATAAAAAGTTAAAAAG
1 AAAATTATAAAAAATTAAAAAG
* *
78804 -AAATTCTAAAAAATATATAAAG
1 AAAATTATAAAAAAT-TAAAAAG
78826 AAAATTA
1 AAAATTA
78833 AAATTTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.52
22 6 0.26
23 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (22 bp):
AAAATTATAAAAAATTAAAAAG
Found at i:78834 original size:21 final size:21
Alignment explanation
Indices: 78782--78835 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
78772 TTATTTTTAA
78782 AAAATTATAAAAAGTTAAAAAG
1 AAAATTA-AAAAAGTTAAAAAG
* *
78804 AAATTCTAAAAAA-TATATAAAG
1 AAAAT-TAAAAAAGT-TAAAAAG
78826 AAAATTAAAA
1 AAAATTAAAA
78836 TTTTTCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.22
22 19 0.70
23 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (21 bp):
AAAATTAAAAAAGTTAAAAAG
Found at i:81073 original size:18 final size:18
Alignment explanation
Indices: 81050--81084 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
81040 TTTTTTTTTT
81050 TTTTTAAATTTAAATTTA
1 TTTTTAAATTTAAATTTA
* *
81068 TTTTTAATTTTTAATTT
1 TTTTTAAATTTAAATTT
81085 TAAAAGCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAAATTTAAATTTA
Found at i:81644 original size:31 final size:31
Alignment explanation
Indices: 81581--81652 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
81571 AAAAAAATTT
* * ** * *
81581 AAATCTTGATATGAGAATAATTGTTTAGTTC
1 AAATCTTAATATAAGAATAATTACTAACTTC
81612 AAATCTTAATATAAGAATAATTACTAACTTC
1 AAATCTTAATATAAGAATAATTACTAACTTC
81643 AAGA-CTTAAT
1 AA-ATCTTAAT
81653 GTAGACACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (31 bp):
AAATCTTAATATAAGAATAATTACTAACTTC
Found at i:85502 original size:112 final size:111
Alignment explanation
Indices: 85289--85517 Score: 377
Period size: 112 Copynumber: 2.1 Consensus size: 111
85279 CTTTTGTAAA
* * * *
85289 TTACTTGCTTGTGATGCTCCCATCATTTTCTGAATGTGAATAACTCAGTTTTTACAAGCTTCTTT
1 TTACTTGCTTGTGATGCTCCCATCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTTT
* *
85354 GAATGTCAATTTGTTCTCTATTTCTATTTCAATTCTTATTCTATGG
66 GAATGGCAATTTGTTCTCTATTTCTATTTCAATTCTTACTCTATGG
85400 TTACTTGCTTGTTGATGCTCCCATCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTT
1 TTACTTGCTTG-TGATGCTCCCATCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTT
* *
85465 TGAATGGCAGTTTGTTCTCTATTTCTATTTCATTTCTTACTCTATGG
65 TGAATGGCAATTTGTTCTCTATTTCTATTTCAATTCTTACTCTATGG
85512 TTACTT
1 TTACTT
85518 CAACAATTGG
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
111 11 0.10
112 98 0.90
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.47
Consensus pattern (111 bp):
TTACTTGCTTGTGATGCTCCCATCATCTCCTGAATGTGAATAACTCAATTCTTACAAGCTTCTTT
GAATGGCAATTTGTTCTCTATTTCTATTTCAATTCTTACTCTATGG
Found at i:86323 original size:69 final size:69
Alignment explanation
Indices: 86246--86385 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
86236 GAGGATGCTA
86246 AGTTACAATTCAAAATACTTGGAAGAAGAAGGATCCCTTGGTGTCTCATGTGTGGGGTATATATA
1 AGTTACAATTCAAAATACTTGGAAGAAGAAGGATCCCTTGGTGTCTCATGTGTGGGGTATATATA
*
86311 TGGG
66 CGGG
86315 AGTTACAATTCAAAATACTTGGAAGAAGAAGGATCCCTTGGTGTCTCATGTGTGGGGTATATATA
1 AGTTACAATTCAAAATACTTGGAAGAAGAAGGATCCCTTGGTGTCTCATGTGTGGGGTATATATA
86380 CGGG
66 CGGG
86384 AG
1 AG
86386 GCCCCCTTTA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (69 bp):
AGTTACAATTCAAAATACTTGGAAGAAGAAGGATCCCTTGGTGTCTCATGTGTGGGGTATATATA
CGGG
Found at i:86876 original size:29 final size:28
Alignment explanation
Indices: 86815--86876 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
86805 ATAACTTGTT
* * * *
86815 TATCCAATCGATATATCAATTGATTTTC
1 TATCCAATCAATATAGCAATCGATTTCC
*
86843 AATCCAAATCAATATAGCAATCGATTTCC
1 TATCC-AATCAATATAGCAATCGATTTCC
86872 TATCC
1 TATCC
86877 TATTCAATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (28 bp):
TATCCAATCAATATAGCAATCGATTTCC
Found at i:96092 original size:19 final size:21
Alignment explanation
Indices: 96068--96111 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
96058 TTTCTATTTC
96068 TTTTAATTCT-ATT-TTTTAT
1 TTTTAATTCTGATTCTTTTAT
*
96087 TTTTAATTCTGTTTCTTTTAT
1 TTTTAATTCTGATTCTTTTAT
96108 TTTT
1 TTTT
96112 CCTTAGATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 2 0.09
21 10 0.45
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTAATTCTGATTCTTTTAT
Found at i:98880 original size:8 final size:8
Alignment explanation
Indices: 98856--98907 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
98846 ATTGTTTTTA
98856 TTTTTATT
1 TTTTTATT
*
98864 TTTAT-TT
1 TTTTTATT
98871 TTTTTATT
1 TTTTTATT
*
98879 TTCTCTATT
1 TT-TTTATT
98888 TTATTTATT
1 TT-TTTATT
*
98897 TATTTATT
1 TTTTTATT
98905 TTT
1 TTT
98908 GTTCAGGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
7 6 0.17
8 16 0.46
9 13 0.37
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTATT
Found at i:98907 original size:18 final size:17
Alignment explanation
Indices: 98850--98907 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
98840 AACCCAATTG
*
98850 TTTTTATTTTTATTTTTA
1 TTTTTATTTAT-TTTTTA
98868 TTTTT-TTTATTTTCTCTA
1 TTTTTATTTATTTT-T-TA
98886 -TTTTATTTATTTATTTA
1 TTTTTATTTATTT-TTTA
98903 TTTTT
1 TTTTT
98908 GTTCAGGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 3 0.09
17 11 0.32
18 19 0.56
19 1 0.03
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTATTTTTTA
Found at i:100445 original size:19 final size:19
Alignment explanation
Indices: 100423--100467 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
100413 TTATATTAGG
100423 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
100442 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
100461 ATTTAAT
1 ATTTAAT
100468 TTATGTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:101285 original size:15 final size:16
Alignment explanation
Indices: 101265--101294 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101255 CCTTCTTATT
101265 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
101280 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
101295 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:101287 original size:22 final size:22
Alignment explanation
Indices: 101261--101320 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
101251 TCGACCTTCT
101261 TATTTTCTATTT-CTTTTAATTC
1 TATTTTCT-TTTACTTTTAATTC
*
101283 TATTTTCTTTTATTTTTAATTC
1 TATTTTCTTTTACTTTTAATTC
* *
101305 T-GTTTCTTTTATTTTT
1 TATTTTCTTTTACTTTT
101321 CCTTATATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (22 bp):
TATTTTCTTTTACTTTTAATTC
Found at i:101310 original size:21 final size:22
Alignment explanation
Indices: 101274--101320 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101264 TTTCTATTTC
*
101274 TTTTAATTCTATTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
101296 TTTTAATTCT-GTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
101317 TTTT
1 TTTT
101321 CCTTATATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTAGTTTCTTTTAT
Found at i:108527 original size:19 final size:21
Alignment explanation
Indices: 108488--108531 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
108478 CGATCTAAGG
108488 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACAGAATT
*
108509 AAAAAT-AAA-AAATAGAATT
1 AAAAATAAAAGAAACAGAATT
108528 AAAA
1 AAAA
108532 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 3 0.14
21 6 0.27
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:109374 original size:19 final size:19
Alignment explanation
Indices: 109350--109392 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
109340 AAATATAAAT
109350 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
109369 TAAATAATATCTTAAATAC
1 TAAATAAAATCTTAAATAA
109388 TAAAT
1 TAAAT
109393 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:111315 original size:50 final size:49
Alignment explanation
Indices: 111250--111401 Score: 146
Period size: 50 Copynumber: 3.1 Consensus size: 49
111240 TTAGAAGCAC
111250 GGAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGATAAT
1 GGAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGA-AAT
* * * * * ** *
111300 GGAGGGAAAGGTTTAAGTCGCAATAGC-AAACCTTGTACCTTAGAAG-CAT
1 GGAGGGAAAGATTTAAGCCGCAATGGCGAATCC-AGTACCACA-AAGAAAT
* * * *
111349 GAAGGGAAAGATTTAAGCCGCAATGGTGAATCTAGTACCACAAACACAAT
1 GGAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGA-AAT
111399 GGA
1 GGA
111402 AAGAAAAGTT
Statistics
Matches: 76, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
48 2 0.03
49 34 0.45
50 37 0.49
51 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (49 bp):
GGAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGAAAT
Found at i:111374 original size:99 final size:98
Alignment explanation
Indices: 111203--111568 Score: 396
Period size: 99 Copynumber: 3.7 Consensus size: 98
111193 GAAGACATGA
* * * * *
111203 AGGGAAAAGTTTAAGCCACAACTGCAAACATTGTACCTTAGAAGCACGGAGGGAAAGATTTAAGC
1 AGGGAAAAGTTTAAGTCGCAA-TGCAAACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAGC
*
111268 CGCAATGGCGAATCCAGTACCACAAAGATAATGG
65 CGCAATGGTGAATCCAGTACCACAAAGATAATGG
*
111302 AGGGAAAGGTTTAAGTCGCAATAGCAAACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAGC
1 AGGGAAAAGTTTAAGTCGCAAT-GCAAACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAGC
* * *
111367 CGCAATGGTGAATCTAGTACCACAAACACAATGG
65 CGCAATGGTGAATCCAGTACCACAAAGATAATGG
** * * * * *
111401 AAAGAAAAGTTTAAGTTGTAATG-ATGAACCTTGTACCTTAGAAGCGTTAAGGGAAATATTTAAG
1 AGGGAAAAGTTTAAGTCGCAATGCA--AACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAG
** * ** *
111465 CCGCAACAGTAAATCCAGTACCACGGAGAT-AT-A
64 CCGCAATGGTGAATCCAGTACCACAAAGATAATGG
* * * * *
111498 AAGGAAAATGTTTAAGTCGCAATGACGAACCTTATACCTCAGAAGCATGAAGGGAAAGGTTTAAG
1 AGGGAAAA-GTTTAAGTCGCAATG-CAAACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAG
*
111563 TCGCAA
64 CCGCAA
111569 CAGCGGACCT
Statistics
Matches: 223, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
97 8 0.04
98 54 0.24
99 161 0.72
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (98 bp):
AGGGAAAAGTTTAAGTCGCAATGCAAACCTTGTACCTTAGAAGCATGAAGGGAAAGATTTAAGCC
GCAATGGTGAATCCAGTACCACAAAGATAATGG
Found at i:111560 original size:49 final size:49
Alignment explanation
Indices: 111193--111717 Score: 202
Period size: 49 Copynumber: 10.7 Consensus size: 49
111183 TCATCACCAT
* * * * * * *
111193 GAAGACATGAAGGGAAAAGTTTAAGCCACAACTG-CAAACATTGTACCTTA
1 GAAG-CATGAAGGGAAAGGTTTAAGTCGCAAC-GACGAACCTAGTACCTCA
* * * * * * *
111243 GAAGCACGGAGGGAAAGATTTAAGCCGCAATGGCGAATCC-AGTACCACA
1 GAAGCATGAAGGGAAAGGTTTAAGTCGCAACGACGAA-CCTAGTACCTCA
* * * * * *
111292 -AAGATAATGGAGGGAAAGGTTTAAGTCGCAA-TAGCAAACCTTGTACCTTA
1 GAAG--CATGAAGGGAAAGGTTTAAGTCGCAACGA-CGAACCTAGTACCTCA
* * * ** * *
111342 GAAGCATGAAGGGAAAGATTTAAGCCGCAATGGTGAATCTAGTACCACA
1 GAAGCATGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCA
* * * * * * * * *
111391 -AACACAATGGAA-AGAAAAGTTTAAGTTGTAATGATGAACCTTGTACCTTA
1 GAA-GC-AT-GAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCA
* * ** * *
111441 GAAGCGTTAAGGGAAATATTTAAGCCGCAAC-A-GTAAATCC-AGTACCAC-
1 GAAGCATGAAGGGAAAGGTTTAAGTCGCAACGACG--AA-CCTAGTACCTCA
* * * * * *
111489 GGAGATATAAAGGAAAATGTTTAAGTCGCAATGACGAACCTTA-TACCTCA
1 GAAG-CATGAAGGGAAAGGTTTAAGTCGCAACGACGAACC-TAGTACCTCA
*
111539 GAAGCATGAAGGGAAAGGTTTAAGTCGCAAC-AGCGGACCTAGTACCTCA
1 GAAGCATGAAGGGAAAGGTTTAAGTCGCAACGA-CGAACCTAGTACCTCA
* * * *
111588 GAAGCATGAAGGG-AAGATTAAAG-CTGCAACGGCGAATCTAGTACCTC-
1 GAAGCATGAAGGGAAAGGTTTAAGTC-GCAACGACGAACCTAGTACCTCA
* * * * *
111635 GAAG-ATACAAAGGAAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCA
1 GAAGCAT--GAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCA
* ** *
111685 G-AGACATGAAAGGAAAAATTTAAGCCGCAACGA
1 GAAG-CATGAAGGGAAAGGTTTAAGTCGCAACGA
111718 AAAATTTAGT
Statistics
Matches: 349, Mismatches: 93, Indels: 67
0.69 0.18 0.13
Matches are distributed among these distances:
46 2 0.01
47 6 0.02
48 47 0.13
49 208 0.60
50 75 0.21
51 11 0.03
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (49 bp):
GAAGCATGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCA
Found at i:119924 original size:21 final size:21
Alignment explanation
Indices: 119856--119924 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
119846 TTATTTAACT
*
119856 AAATTATATAGTGTTTATTAC
1 AAATTATATAGTATTTATTAC
*
119877 AAGTTATTTATAGTAATTTAGTT--
1 AAATTA--TATAGT-ATTTA-TTAC
*
119900 AAATTATATACTATTTATTAC
1 AAATTATATAGTATTTATTAC
119921 AAAT
1 AAAT
119925 GATTTACACT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 14 0.37
23 11 0.29
24 4 0.11
25 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (21 bp):
AAATTATATAGTATTTATTAC
Found at i:123864 original size:32 final size:31
Alignment explanation
Indices: 123818--123883 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
123808 AATAATGGTG
123818 AAATTTCACTTTAACCTCTTCAAAAAATGATAA
1 AAATTTCACTTTAACCT-TT-AAAAAATGATAA
* * *
123851 AAATTTGA-TTTAACCTTTTAAAAATTATAA
1 AAATTTCACTTTAACCTTTAAAAAATGATAA
123881 AAA
1 AAA
123884 ATATAGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 13 0.43
31 2 0.07
32 8 0.27
33 7 0.23
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (31 bp):
AAATTTCACTTTAACCTTTAAAAAATGATAA
Found at i:127805 original size:23 final size:22
Alignment explanation
Indices: 127762--127806 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
127752 AACTATATCG
*
127762 TTTTTTTGAGTTAGGTATTAAA
1 TTTTTTTGAGTTAAGTATTAAA
127784 TTTTTTTGA-TCTAAGTACTTAAA
1 TTTTTTTGAGT-TAAGTA-TTAAA
127807 CTATAATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.70
23 5 0.25
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (22 bp):
TTTTTTTGAGTTAAGTATTAAA
Found at i:127962 original size:16 final size:16
Alignment explanation
Indices: 127922--127971 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
127912 ATATTTTCTC
* *
127922 TTAAAAATCATAAAAAC
1 TTAAAAAT-ATTAAAAT
*
127939 TTATAAATATTAAAAT
1 TTAAAAATATTAAAAT
127955 TTAAAAATATTAAAAT
1 TTAAAAATATTAAAAT
127971 T
1 T
127972 GATAAAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAATATTAAAAT
Found at i:128119 original size:10 final size:10
Alignment explanation
Indices: 128104--128152 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
128094 ATTTATAATT
128104 TTATAAAAAA
1 TTATAAAAAA
128114 TTAT-AAAAA
1 TTATAAAAAA
128123 -TATAAAAAGA
1 TTATAAAAA-A
* *
128133 TTCTAATAAA
1 TTATAAAAAA
128143 TTATAAAAAA
1 TTATAAAAAA
128153 AAAGGTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.09
9 9 0.28
10 14 0.44
11 6 0.19
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:128569 original size:16 final size:18
Alignment explanation
Indices: 128550--128587 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
128540 ACTCTTTTGC
*
128550 TTTATAAT-TTC-TATTT
1 TTTATAATGTTCGTAATT
128566 TTTATAATGTTCGTAATT
1 TTTATAATGTTCGTAATT
128584 TTTA
1 TTTA
128588 AAATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTATAATGTTCGTAATT
Found at i:137325 original size:31 final size:31
Alignment explanation
Indices: 137266--137353 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
137256 TAAAATGATA
* * * *
137266 TTTTAGATTCCTTGAAAGTTGGA-GAAAAATT
1 TTTTAGATCCCTTAAAAGTT-GATAAAAAACT
137297 TTTTAGATCCCTTAAAAGTTGATAAAAAAAACT
1 TTTTAGATCCCTTAAAAGTTGAT--AAAAAACT
*
137330 TTTT-GAGCCCTTAAAAGTTGATAA
1 TTTTAGATCCCTTAAAAGTTGATAA
137354 TTTTTTTTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 4 0.08
31 18 0.37
32 17 0.35
33 10 0.20
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTTAGATCCCTTAAAAGTTGATAAAAAACT
Found at i:137341 original size:32 final size:33
Alignment explanation
Indices: 137290--137353 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
137280 AAAGTTGGAG
* *
137290 AAAAATTTTTTAGATCCCTTAAAAGTTGATAAA
1 AAAAACTTTTTAGAGCCCTTAAAAGTTGATAAA
137323 AAAAACTTTTT-GAGCCCTTAAAAGTTGATAA
1 AAAAACTTTTTAGAGCCCTTAAAAGTTGATAA
137354 TTTTTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (33 bp):
AAAAACTTTTTAGAGCCCTTAAAAGTTGATAAA
Found at i:139742 original size:19 final size:19
Alignment explanation
Indices: 139718--139761 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
139708 TTCCAAACAT
139718 ATCTTTTATCTTGTCCATC
1 ATCTTTTATCTTGTCCATC
139737 ATCTTTTATCTTGTCCATC
1 ATCTTTTATCTTGTCCATC
139756 ATCTTT
1 ATCTTT
139762 CTAACGATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.25, G:0.05, T:0.55
Consensus pattern (19 bp):
ATCTTTTATCTTGTCCATC
Found at i:142091 original size:29 final size:29
Alignment explanation
Indices: 142059--142149 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
142049 AAATAGAAAT
* *
142059 TTTTGAAAAGTTTAGAGTAAAAAATGTAA
1 TTTTGAAAAGTTCAGGGTAAAAAATGTAA
* * *
142088 TTTTGGATA-TTCGAGGGTAAAATA-GTAA
1 TTTTGAAAAGTTC-AGGGTAAAAAATGTAA
*
142116 TTTTGGAGAAGTTCAGGGTAAAAAATGTAA
1 TTTT-GAAAAGTTCAGGGTAAAAAATGTAA
142146 TTTT
1 TTTT
142150 TAGACATCCG
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
28 10 0.20
29 28 0.57
30 11 0.22
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (29 bp):
TTTTGAAAAGTTCAGGGTAAAAAATGTAA
Found at i:142118 original size:28 final size:29
Alignment explanation
Indices: 142048--142149 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
142038 ACTTGGGAGC
* * * * *
142048 AAAATAGAAATTTTTGAAAAGTTTAGAGT
1 AAAATAGTAATTTTGGAGAAGTTCAGGGT
* *
142077 AAAAAATGTAATTTTGGA-TA-TTCGAGGGT
1 AAAATA-GTAATTTTGGAGAAGTTC-AGGGT
142106 AAAATAGTAATTTTGGAGAAGTTCAGGGT
1 AAAATAGTAATTTTGGAGAAGTTCAGGGT
*
142135 AAAAAATGTAATTTT
1 AAAATA-GTAATTTT
142150 TAGACATCCG
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
28 13 0.22
29 26 0.44
30 20 0.34
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (29 bp):
AAAATAGTAATTTTGGAGAAGTTCAGGGT
Found at i:142118 original size:58 final size:58
Alignment explanation
Indices: 142048--142207 Score: 171
Period size: 58 Copynumber: 2.8 Consensus size: 58
142038 ACTTGGGAGC
* * * * *
142048 AAAATAGAAATTTTTGAAAAGTTTAGAGTAAAAAATGTAATTTTGGATATTCGAGGGT
1 AAAATAGTAATTTTTGAGAAGTTTAGAGTAAAAAATGTAATTTTAGACATCCGAGGGT
* * * * *
142106 AAAATAGTAATTTTGGAGAAGTTCAGGGTAAAAAATGTAATTTTTAGACATCCGTGGTT
1 AAAATAGTAATTTTTGAGAAGTTTAGAGTAAAAAATGTAA-TTTTAGACATCCGAGGGT
* **
142165 AAAATGGTAATTTTTG-GAAGTTTA-AGGGCAAAAATGTAATTTT
1 AAAATAGTAATTTTTGAGAAGTTTAGA-GTAAAAAATGTAATTTT
142208 TGGAAGTTTA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
57 4 0.05
58 53 0.63
59 27 0.32
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (58 bp):
AAAATAGTAATTTTTGAGAAGTTTAGAGTAAAAAATGTAATTTTAGACATCCGAGGGT
Found at i:142197 original size:29 final size:29
Alignment explanation
Indices: 142165--142506 Score: 207
Period size: 29 Copynumber: 11.7 Consensus size: 29
142155 ATCCGTGGTT
142165 AAAATGGTAATTTTTGGAAGTTTAAGGG-C
1 AAAAT-GTAATTTTTGGAAGTTTAAGGGTC
**
142194 AAAAATGTAATTTTTGGAAGTTTAAGGGAA
1 -AAAATGTAATTTTTGGAAGTTTAAGGGTC
* * * *
142224 AAAATGTAATTTCTGGATGATT-CGTGGTC
1 AAAATGTAATTTTTGGAAGTTTAAG-GGTC
* * *
142253 AAAAATGCAATTTTTAGAAG-TTAGGGGGT-
1 -AAAATGTAATTTTTGGAAGTTTA-AGGGTC
* ** * *
142282 AAAATGGTAATTATAAGAAGTTTTAGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTAAGGGTC
* * *
142312 AAAATGTGATTTTTGAAAGTTT-AGGGGC
1 AAAATGTAATTTTTGGAAGTTTAAGGGTC
* **
142340 AAAATGGTAA-TTTTGGAAATTCGAGGG-C
1 AAAAT-GTAATTTTTGGAAGTTTAAGGGTC
* * *
142368 AAAAATGTGATTTTTGGAAGTTGAAGGGTA
1 -AAAATGTAATTTTTGGAAGTTTAAGGGTC
** *
142398 AAAATGTAATTTTTGAGAAG-TTCGGGGTT
1 AAAATGTAATTTTTG-GAAGTTTAAGGGTC
* * * *
142427 AAAATGTAGTTTTTGGAAGTTTGAGTGTA
1 AAAATGTAATTTTTGGAAGTTTAAGGGTC
* * * *
142456 AAAAAGTGATTTTTGGAAGTTTGAGAGT-
1 AAAATGTAATTTTTGGAAGTTTAAGGGTC
*
142484 AAACATGTATTTTTTGAGAAGTT
1 AAA-ATGTAATTTTTG-GAAGTT
142507 CGAGGTTAAA
Statistics
Matches: 245, Mismatches: 50, Indels: 34
0.74 0.15 0.10
Matches are distributed among these distances:
28 35 0.14
29 169 0.69
30 40 0.16
31 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTAAGGGTC
Found at i:142233 original size:58 final size:59
Alignment explanation
Indices: 142165--142506 Score: 268
Period size: 58 Copynumber: 5.9 Consensus size: 59
142155 ATCCGTGGTT
*
142165 AAAATGGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAA
1 AAAATGGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAA
* * * * * * * * **
142224 AAAAT-GTAATTTCTGGATGATTCGTGGTCAAAAATGCAATTTTTAGAAG-TTAGGGGGT
1 AAAATGGTAATTTTTGGAAG-TTTGAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAA
* ** * * * * **
142282 AAAATGGTAATTATAAGAAGTTTTAGGGTAAAAATGTGATTTTTGAAAGTTT-AGGGGC
1 AAAATGGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAA
* * * * *
142340 AAAATGGTAA-TTTTGGAAATTCGAGGGCAAAAATGTGATTTTTGGAAGTTGAAGGGTA
1 AAAATGGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAA
* ** * * *
142398 AAAAT-GTAATTTTTGAGAAGTTCG-GGGTTAAAATGTAGTTTTTGGAAGTTTGAGTGTAA
1 AAAATGGTAATTTTTG-GAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTAAG-GGAA
* * * * *
142457 AAAA--GTGATTTTTGGAAGTTTGAGAGTAAACATGTATTTTTTGAGAAGTT
1 AAAATGGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTG-GAAGTT
142507 CGAGGTTAAA
Statistics
Matches: 221, Mismatches: 53, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
57 43 0.19
58 120 0.54
59 58 0.26
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAA
Found at i:142233 original size:117 final size:116
Alignment explanation
Indices: 142106--142388 Score: 299
Period size: 117 Copynumber: 2.4 Consensus size: 116
142096 ATTCGAGGGT
* * * *
142106 AAAATAGTAATTTTGGAGAAGTTCAGGGTAAAAAATGTAATTTTTAGACA-TCCGTGGTTAAAAT
1 AAAATAGTAATTTTGGAGAA-TTCAGGGTCAAAAATGTAATTTTTAGA-AGTCAGGGGGTAAAAT
* ** *
142170 GGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAA
64 GGTAATTATAAGAAGTTTAAGGGCAAAAATGTAATTTTTGAAAGTTT-AGGGAA
* *
142224 AAAAT-GTAATTTCTGGATG-ATTC-GTGGTCAAAAATGCAATTTTTAGAAGTTAGGGGGTAAAA
1 AAAATAGTAATTT-TGGA-GAATTCAG-GGTCAAAAATGTAATTTTTAGAAGTCAGGGGGTAAAA
* * * **
142286 TGGTAATTATAAGAAGTTTTAGGGTAAAAATGTGATTTTTGAAAGTTTAGGGGC
63 TGGTAATTATAAGAAGTTTAAGGGCAAAAATGTAATTTTTGAAAGTTTAGGGAA
* * *
142340 AAAATGGTAATTTTGGA-AATTCGAGGG-CAAAAATGTGATTTTTGGAAGT
1 AAAATAGTAATTTTGGAGAATTC-AGGGTCAAAAATGTAATTTTTAGAAGT
142389 TGAAGGGTAA
Statistics
Matches: 139, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
115 23 0.17
116 17 0.12
117 88 0.63
118 10 0.07
119 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (116 bp):
AAAATAGTAATTTTGGAGAATTCAGGGTCAAAAATGTAATTTTTAGAAGTCAGGGGGTAAAATGG
TAATTATAAGAAGTTTAAGGGCAAAAATGTAATTTTTGAAAGTTTAGGGAA
Found at i:142459 original size:87 final size:87
Alignment explanation
Indices: 142079--142530 Score: 354
Period size: 87 Copynumber: 5.2 Consensus size: 87
142069 TTTAGAGTAA
* * * *
142079 AAAATGTAA-TTTTGGATA-TTCGAGGG-TAAAATAGTAATTTTGGAGAAGTT-CAGGGTAAAAA
1 AAAATGTAATTTTTGGA-AGTTTGAGGGCAAAAAT-GTAATTTTTG-GAAGTTGAAGGGT-AAAA
* *
142140 ATGTAATTTTT-AGACA-TCCGTGGTT
62 ATGTAATTTTTGAGA-AGTTCGGGGTT
* * *
142165 AAAATGGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGAAAAAATG
1 AAAAT-GTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTGAAGGGTAAAAATG
* * * *
142230 TAATTTCTG-GATGATTCGTGGTCA
65 TAATTTTTGAGAAG-TTCGGGGT-T
* * * ** * ** **
142254 AAAATGCAATTTTTAGAAGTTAG-GGGGTAAAATGGTAATTATAAGAAGTTTTAGGGTAAAAATG
1 AAAATGTAATTTTTGGAAGTTTGAGGGCAAAAAT-GTAATTTTTGGAAGTTGAAGGGTAAAAATG
* * *
142318 TGATTTTTGA-AAGTTTAGGGG-C
65 TAATTTTTGAGAAG-TTCGGGGTT
* * *
142340 AAAATGGTAA-TTTTGGAAATTCGAGGGCAAAAATGTGATTTTTGGAAGTTGAAGGGTAAAAATG
1 AAAAT-GTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTGAAGGGTAAAAATG
142404 TAATTTTTGAGAAGTTCGGGGTT
65 TAATTTTTGAGAAGTTCGGGGTT
* * * * * * *
142427 AAAATGTAGTTTTTGGAAGTTTGAGTGTAAAAAAGTGATTTTTGGAAGTTTG-AGAGTAAACATG
1 AAAATGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAG-TTGAAGGGTAAAAATG
* *
142491 TATTTTTTGAGAAGTTCGAGGTT
65 TAATTTTTGAGAAGTTCGGGGTT
*
142514 AAAATGCAA-TTTTGGAA
1 AAAATGTAATTTTTGGAA
142531 CATTTTAGGG
Statistics
Matches: 294, Mismatches: 55, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
86 70 0.24
87 125 0.43
88 89 0.30
89 10 0.03
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.35
Consensus pattern (87 bp):
AAAATGTAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGGAAGTTGAAGGGTAAAAATGT
AATTTTTGAGAAGTTCGGGGTT
Found at i:142526 original size:29 final size:28
Alignment explanation
Indices: 142079--142530 Score: 202
Period size: 29 Copynumber: 15.6 Consensus size: 28
142069 TTTAGAGTAA
*
142079 AAAATGTAA-TTTTGGATA-TTCGAGGGT
1 AAAATGTAATTTTTGGA-AGTTCGAGGTT
* *
142106 AAAATAGTAATTTTGGAGAAGTTC-AGGGTAA
1 AAAAT-GTAATTTTTG-GAAGTTCGA-GGT-T
* * *
142137 AAAATGTAATTTTTAGACA-TCCGTGGTT
1 AAAATGTAATTTTTGGA-AGTTCGAGGTT
** **
142165 AAAATGGTAATTTTTGGAAGTTTAAGGGCA
1 AAAAT-GTAATTTTTGGAAGTTCGA-GGTT
** **
142195 AAAATGTAATTTTTGGAAGTTTAAGGGAA
1 AAAATGTAATTTTTGGAAGTTCGA-GGTT
* * * *
142224 AAAATGTAATTTCTGGATGATTCGTGGTCA
1 AAAATGTAATTTTTGGAAG-TTCGAGGT-T
* * * * *
142254 AAAATGCAATTTTTAGAAGTTAGGGGGT
1 AAAATGTAATTTTTGGAAGTTCGAGGTT
* ** ** *
142282 AAAATGGTAATTATAAGAAGTTTTAGGGTA
1 AAAAT-GTAATTTTTGGAAGTTCGA-GGTT
* * * **
142312 AAAATGTGATTTTTGAAAGTT-TAGGGGC
1 AAAATGTAATTTTTGGAAGTTCGA-GGTT
* **
142340 AAAATGGTAA-TTTTGGAAATTCGAGGGCA
1 AAAAT-GTAATTTTTGGAAGTTCGA-GGTT
* *
142369 AAAATGTGATTTTTGGAAGTT-GAAGGGTA
1 AAAATGTAATTTTTGGAAGTTCG-A-GGTT
*
142398 AAAATGTAATTTTTGAGAAGTTCGGGGTT
1 AAAATGTAATTTTTG-GAAGTTCGAGGTT
* * *
142427 AAAATGTAGTTTTTGGAAGTTTGAGTGTA
1 AAAATGTAATTTTTGGAAGTTCGAG-GTT
* * *
142456 AAAAAGTGATTTTTGGAAGTTTGAGAG-T
1 AAAATGTAATTTTTGGAAGTTCGAG-GTT
*
142484 AAACATGTATTTTTTGAGAAGTTCGAGGTT
1 AAA-ATGTAATTTTTG-GAAGTTCGAGGTT
*
142514 AAAATGCAA-TTTTGGAA
1 AAAATGTAATTTTTGGAA
142531 CATTTTAGGG
Statistics
Matches: 328, Mismatches: 72, Indels: 50
0.73 0.16 0.11
Matches are distributed among these distances:
27 8 0.02
28 54 0.16
29 193 0.59
30 67 0.20
31 6 0.02
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.35
Consensus pattern (28 bp):
AAAATGTAATTTTTGGAAGTTCGAGGTT
Found at i:142796 original size:18 final size:18
Alignment explanation
Indices: 142773--142810 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
142763 GACATATGGC
*
142773 AGCCTCTCAGGCTTCCAG
1 AGCCTCTCAAGCTTCCAG
*
142791 AGCCTCTCAAGCTTCTAG
1 AGCCTCTCAAGCTTCCAG
142809 AG
1 AG
142811 AGTTAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (18 bp):
AGCCTCTCAAGCTTCCAG
Found at i:156957 original size:20 final size:21
Alignment explanation
Indices: 156923--156961 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
156913 ATTTTTCCTT
*
156923 TTCAAAAACTTTTACTTCCCC
1 TTCAAAAACTCTTACTTCCCC
156944 TTCAAAAA-TCTTACTTCC
1 TTCAAAAACTCTTACTTCC
156962 ACCCAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (21 bp):
TTCAAAAACTCTTACTTCCCC
Found at i:160876 original size:14 final size:15
Alignment explanation
Indices: 160857--160885 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
160847 ATTAACCCAA
160857 TGATT-CAATATCTT
1 TGATTCCAATATCTT
160871 TGATTCCAATATCTT
1 TGATTCCAATATCTT
160886 CTTCCCGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (15 bp):
TGATTCCAATATCTT
Found at i:161048 original size:18 final size:17
Alignment explanation
Indices: 161016--161051 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
161006 GGGTTTAGGG
161016 ATTAAAAATTTTAATTA
1 ATTAAAAATTTTAATTA
*
161033 ATTAAAATTATTTAATTA
1 ATTAAAAAT-TTTAATTA
161051 A
1 A
161052 AGATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAAAATTTTAATTA
Found at i:163128 original size:135 final size:135
Alignment explanation
Indices: 162886--163157 Score: 535
Period size: 135 Copynumber: 2.0 Consensus size: 135
162876 AATTTTACCT
162886 TTTTAACTTAATGGTTTTGATTTTTAACTTCAGAAAGGGTAAACATTTATCAAAATGACGTAGTT
1 TTTTAACTTAATGGTTTTGATTTTTAACTTCAGAAAGGGTAAACATTTATCAAAATGACGTAGTT
*
162951 TTGTCTTTTCTTATTCGGATTTTCGAATAACTCGAATTGTGTAATTTGTATCCGAGTTAAACCGA
66 TTGCCTTTTCTTATTCGGATTTTCGAATAACTCGAATTGTGTAATTTGTATCCGAGTTAAACCGA
163016 AAAAC
131 AAAAC
163021 TTTTAACTTAATGGTTTTGATTTTTAACTTCAGAAAGGGTAAACATTTATCAAAATGACGTAGTT
1 TTTTAACTTAATGGTTTTGATTTTTAACTTCAGAAAGGGTAAACATTTATCAAAATGACGTAGTT
163086 TTGCCTTTTCTTATTCGGATTTTCGAATAACTCGAATTGTGTAATTTGTATCCGAGTTAAACCGA
66 TTGCCTTTTCTTATTCGGATTTTCGAATAACTCGAATTGTGTAATTTGTATCCGAGTTAAACCGA
163151 AAAAC
131 AAAAC
163156 TT
1 TT
163158 AATTTTTTAT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (135 bp):
TTTTAACTTAATGGTTTTGATTTTTAACTTCAGAAAGGGTAAACATTTATCAAAATGACGTAGTT
TTGCCTTTTCTTATTCGGATTTTCGAATAACTCGAATTGTGTAATTTGTATCCGAGTTAAACCGA
AAAAC
Found at i:183255 original size:33 final size:33
Alignment explanation
Indices: 183194--183256 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
183184 GTGAACTTGA
** *
183194 ACTGCTGATTTTTGCTAATTTGTTGCACATGCT
1 ACTGCTGATTTTTGCTAATTCCTAGCACATGCT
183227 ACTGCTCG-TTTTTGCTAATTCCTAGCACAT
1 ACTGCT-GATTTTTGCTAATTCCTAGCACAT
183257 AAGTTGCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (33 bp):
ACTGCTGATTTTTGCTAATTCCTAGCACATGCT
Found at i:188417 original size:24 final size:24
Alignment explanation
Indices: 188389--188435 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
188379 AAATTAAAAC
188389 AAAAA-AAAAAAGCTAAAATTGAATG
1 AAAAACAAAAAA-C-AAAATTGAATG
188414 AAAAACAAAAAACAAAATTGAA
1 AAAAACAAAAAACAAAATTGAA
188436 ACAAACAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 6 0.29
26 6 0.29
ACGTcount: A:0.72, C:0.06, G:0.09, T:0.13
Consensus pattern (24 bp):
AAAAACAAAAAACAAAATTGAATG
Found at i:189049 original size:31 final size:31
Alignment explanation
Indices: 189011--189128 Score: 106
Period size: 31 Copynumber: 3.9 Consensus size: 31
189001 TTAATATAAT
* *
189011 ATTTGGTACTTGAACTTGACACTTTTTTCTA
1 ATTTGGTACCTAAACTTGACACTTTTTTCTA
*
189042 ATTTGGTACCTAAACTT-----TTTTTGGTCCA
1 ATTTGGTACCTAAACTTGACACTTTTT--TCTA
*
189070 ATTTCGTA-CTCAAACTTGACAC-TTTTTCTTA
1 ATTTGGTACCT-AAACTTGACACTTTTTTC-TA
*
189101 ATTTGGTACCTAAACTTGATACTTTTTT
1 ATTTGGTACCTAAACTTGACACTTTTTT
189129 TTTAAAGTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
26 5 0.07
27 2 0.03
28 16 0.23
30 2 0.03
31 33 0.48
32 11 0.16
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTTCTA
Found at i:189150 original size:33 final size:31
Alignment explanation
Indices: 189081--189142 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
189071 TTTCGTACTC
*
189081 AAACTTGACACTTTTTCTTAATTTGGTACCT
1 AAACTTGACACTTTTTCTTAAGTTGGTACCT
* *
189112 AAACTTGATACTTTTTTTTTAAAGTTGGTAC
1 AAACTTGACAC-TTTTTCTT-AAGTTGGTAC
189143 TTCAACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.38
32 7 0.27
33 9 0.35
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (31 bp):
AAACTTGACACTTTTTCTTAAGTTGGTACCT
Found at i:189178 original size:92 final size:90
Alignment explanation
Indices: 189011--189205 Score: 219
Period size: 92 Copynumber: 2.1 Consensus size: 90
189001 TTAATATAAT
* * * **
189011 ATTTGGTACTTGAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTTTTTTGGTCCAATTTCG
1 ATTTGGTACCTAAACTTGACACTTTTTTCTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTCG
189076 TACTCAAACTTGACACTTTTTCTTA
66 TACTCAAACTTGACACTTTTTCTTA
* * * *
189101 ATTTGGTACCTAAACTTGATACTTTTTTTTTAAAGTTGGTACTTCAACTTTTTGGGGTCCAATTT
1 ATTTGGTACCTAAACTTGACAC-TTTTTTCT-AAGTTGGTACCTAAACTTTTTGGGGTCCAATTT
* * ** ****
189166 GGTGCTTGAACTTGGTTTTTTTTCTTA
64 CGTACTCAAACTTGACACTTTTTCTTA
189193 ATTTGGTACCTAA
1 ATTTGGTACCTAA
189206 TTTTTTTTTA
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 19 0.22
91 7 0.08
92 60 0.70
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (90 bp):
ATTTGGTACCTAAACTTGACACTTTTTTCTAAGTTGGTACCTAAACTTTTTGGGGTCCAATTTCG
TACTCAAACTTGACACTTTTTCTTA
Found at i:189413 original size:28 final size:29
Alignment explanation
Indices: 189353--189421 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
189343 TAATAAATTT
* *
189353 AGGTATCAAATTGAATCTAAAAAAAGTTT
1 AGGTACCAAATTGAATCTAAAAAAAGTTG
* *
189382 AGGTTCCAAATTGGAT-TAAAAAAAGTTG
1 AGGTACCAAATTGAATCTAAAAAAAGTTG
189410 AGGTACCAAATT
1 AGGTACCAAATT
189422 AGGAAAAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (29 bp):
AGGTACCAAATTGAATCTAAAAAAAGTTG
Found at i:194338 original size:19 final size:19
Alignment explanation
Indices: 194297--194363 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 19
194287 ATTAACTTAA
*
194297 AATTTTAATAATGAAATTTAAT
1 AATTTTAATAA--AAA-TAAAT
194319 AATTTTAATAAAAATAAAT
1 AATTTTAATAAAAATAAAT
**
194338 -ATTTTAATTTAAA-AAAT
1 AATTTTAATAAAAATAAAT
*
194355 TATTTTAAT
1 AATTTTAAT
194364 CAATCACAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.10
18 19 0.46
19 4 0.10
20 3 0.07
22 11 0.27
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
AATTTTAATAAAAATAAAT
Found at i:202259 original size:31 final size:31
Alignment explanation
Indices: 202194--202258 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
202184 AGTTTATATC
*
202194 TTTATAATTTTTAAAAAAATTAAATTAAATT
1 TTTATAATTTTTAAAAAAATTAAATGAAATT
*
202225 TTTATCAA-TTTTAAAAAAATTAAAGTGCAATT
1 TTTAT-AATTTTTAAAAAAATTAAA-TGAAATT
202257 TT
1 TT
202259 ACTTTTCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 21 0.70
32 9 0.30
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (31 bp):
TTTATAATTTTTAAAAAAATTAAATGAAATT
Found at i:204196 original size:27 final size:27
Alignment explanation
Indices: 204160--204213 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
204150 CAAATTATTG
204160 TTTTTCCAAAAACATTCCTAAATTAAA
1 TTTTTCCAAAAACATTCCTAAATTAAA
204187 TTTTTCCAAAAACATTCCTAAATTAAA
1 TTTTTCCAAAAACATTCCTAAATTAAA
204214 CCTTAACCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (27 bp):
TTTTTCCAAAAACATTCCTAAATTAAA
Found at i:205349 original size:21 final size:21
Alignment explanation
Indices: 205320--205363 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
205310 ACTTGCTATT
205320 GTCACTTTTGGTAGTGGCGGA
1 GTCACTTTTGGTAGTGGCGGA
* * *
205341 GTCATTTTTGTTAGTGTCGGA
1 GTCACTTTTGGTAGTGGCGGA
205362 GT
1 GT
205364 TGAAAGAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.34, T:0.41
Consensus pattern (21 bp):
GTCACTTTTGGTAGTGGCGGA
Found at i:215591 original size:23 final size:23
Alignment explanation
Indices: 215565--215618 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
215555 TAGCACATAT
* *
215565 CAGTAGGCACATGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
215588 CAGTAAGCACACGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
215611 CAGTAAGC
1 CAGTAAGC
215619 GCGCTAGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.20, G:0.28, T:0.11
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGCGAAA
Found at i:217926 original size:96 final size:96
Alignment explanation
Indices: 217748--217929 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
217738 AAGGATGTTC
* * * *
217748 GATTATCTCGATTTGAGGAAAAGTTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGA
1 GATTATCTCAATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGA
* *
217813 TAAGGAAACATTTCCTCGATTAAGGGTATTT
66 TAAAGAAACATTGCCTCGATTAAGGGTATTT
*
217844 GATTATTTCAATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTC-GAAACTCGAA
1 GATTATCTCAATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAG-AA-TCGAA
*
217908 -ATAAA-AGAATATTGCCTCGATT
64 GATAAAGA-AACATTGCCTCGATT
217930 TTAAAGTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 2 0.03
96 68 0.91
97 5 0.07
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (96 bp):
GATTATCTCAATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGA
TAAAGAAACATTGCCTCGATTAAGGGTATTT
Found at i:217952 original size:96 final size:96
Alignment explanation
Indices: 217758--217953 Score: 204
Period size: 96 Copynumber: 2.0 Consensus size: 96
217748 GATTATCTCG
* * * *
217758 ATTTGAGGAAAAGTTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGATAAGGAAACA
1 ATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGATAAAGAAACA
* * * ***
217823 TTTCCTCGATTAAGGGTATTTGATTATTTCA
66 TTGCCTCGATTAAGAGTATTTGATGAAAACA
217854 ATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTC-GAAACTCGAA-ATAAA-AGA
1 ATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAG-AA-TCGAAGATAAAGA-A
* *
217916 ATATTGCCTCGATTTTAA-AGT-TTTTATGAAAACA
63 ACATTGCCTCGA--TTAAGAGTATTTGATGAAAACA
217950 ATTT
1 ATTT
217954 TGAAAACAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
95 2 0.02
96 70 0.84
97 7 0.08
98 4 0.05
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (96 bp):
ATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGAAGATAAAGAAACA
TTGCCTCGATTAAGAGTATTTGATGAAAACA
Found at i:218321 original size:29 final size:29
Alignment explanation
Indices: 218279--218587 Score: 221
Period size: 29 Copynumber: 10.6 Consensus size: 29
218269 TTCAAGGTCG
*
218279 AAAATGGAGATTTTTAGAGGTTCGAGGGTA
1 AAAATGGA-ATTTTTGGAGGTTCGAGGGTA
* *
218309 AAAATGGAATTTTTGGAAGTTTCG-GGATA
1 AAAATGGAATTTTTGG-AGGTTCGAGGGTA
** * *
218338 AAAATGTCATTTTTGGAAGTTCGGGGGTA
1 AAAATGGAATTTTTGGAGGTTCGAGGGTA
* * * **
218367 AAAATGTAATTTTTGGAAGTTTGAGGGGC
1 AAAATGGAATTTTTGGAGGTTCGAGGGTA
* * * * *
218396 AAAATAGAATATTTGGAAGTTTTG-GGGTC
1 AAAATGGAATTTTTGG-AGGTTCGAGGGTA
* ** *
218425 AAAATGGAATTTTTGAAAATT-TAGGGGTA
1 AAAATGGAATTTTTGGAGGTTCGA-GGGTA
* *
218454 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
1 AAAATGGAATTTTTGG-AGGTTCGAGGGTA
* * **
218484 AAATTGGAA-TTTTGGAAGTTTTAGGGTA
1 AAAATGGAATTTTTGGAGGTTCGAGGGTA
* * *
218512 AAAATGAAATTTTTGGAGGTTTTGAGGTTA
1 AAAATGGAATTTTTGGAGG-TTCGAGGGTA
* * * *
218542 AAAATGGAATTTTTAGAAGTTTGGGGGTA
1 AAAATGGAATTTTTGGAGGTTCGAGGGTA
*
218571 AAATTGGAATTTTTGGA
1 AAAATGGAATTTTTGGA
218588 TAGTTTAGGG
Statistics
Matches: 221, Mismatches: 49, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
28 23 0.10
29 139 0.63
30 58 0.26
31 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAGGTTCGAGGGTA
Found at i:218370 original size:58 final size:58
Alignment explanation
Indices: 218279--218592 Score: 321
Period size: 58 Copynumber: 5.4 Consensus size: 58
218269 TTCAAGGTCG
* * * *
218279 AAAATGGAGATTTTTAGAGGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCGGGATA
1 AAAATGGA-ATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTAGGGGTA
** * * *
218338 AAAATGTCATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTGAGGGG-C
1 AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTT-AGGGGTA
* * * * * *
218396 AAAATAGAATATTTGGAAGTTTTG-GGGTCAAAATGGAATTTTTGAAAATTTAGGGGTA
1 AAAATGGAATTTTTGGAAG-TTCGAGGGTAAAAATGGAATTTTTGGAAGTTTAGGGGTA
* *
218454 AAAATGGAATTTTTGGAAGTTTCGAGGTTAAAATTGGAA-TTTTGGAAGTTTTA-GGGTA
1 AAAATGGAATTTTTGGAAG-TTCGAGGGTAAAAATGGAATTTTTGGAAG-TTTAGGGGTA
* * * * * *
218512 AAAATGAAATTTTTGGAGGTTTTGAGGTTAAAAATGGAATTTTTAGAAGTTTGGGGGTA
1 AAAATGGAATTTTTGGAAG-TTCGAGGGTAAAAATGGAATTTTTGGAAGTTTAGGGGTA
*
218571 AAATTGGAATTTTTGGATAGTT
1 AAAATGGAATTTTTGGA-AGTT
218593 TAGGGACCTC
Statistics
Matches: 211, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
57 5 0.02
58 148 0.70
59 57 0.27
60 1 0.00
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.36
Consensus pattern (58 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTAGGGGTA
Found at i:218411 original size:87 final size:88
Alignment explanation
Indices: 218279--218598 Score: 337
Period size: 87 Copynumber: 3.6 Consensus size: 88
218269 TTCAAGGTCG
* * * * *
218279 AAAATGGAGATTTTTAGAGGTTCGA-GGGTAAAAATGGAATTTTTGGAAGTTTCGGGATAAAAAT
1 AAAATGGA-ATTTTTGGAAGTTTGAGGGGTAAAATTGGAATTTTTGGAAGTTTAGGGATAAAAAT
** *
218343 GTCATTTTTGGAAGTTCGGGGGTA
65 GAAATTTTTGGAAGTTTGGGGGTA
* * * * * * *
218367 AAAATGTAATTTTTGGAAGTTTGAGGGGCAAAA-TAGAATATTTGGAAGTTTTGGGGTCAAAATG
1 AAAATGGAATTTTTGGAAGTTTGAGGGGTAAAATTGGAATTTTTGGAAGTTTAGGGATAAAAATG
* * * *
218431 GAATTTTTGAAAATTTAGGGGTA
66 AAATTTTTGGAAGTTTGGGGGTA
*
218454 AAAATGGAATTTTTGGAAGTTTCGA-GGTTAAAATTGGAA-TTTTGGAAGTTTTAGGG-TAAAAA
1 AAAATGGAATTTTTGGAAGTTT-GAGGGGTAAAATTGGAATTTTTGGAAG-TTTAGGGATAAAAA
* * *
218516 TGAAATTTTTGGAGGTTTTGAGGTTA
64 TGAAATTTTTGGAAG-TTTGGGGGTA
*
218542 AAAATGGAATTTTTAGAAGTTTG-GGGGTAAAATTGGAATTTTTGGATAGTTTAGGGA
1 AAAATGGAATTTTTGGAAGTTTGAGGGGTAAAATTGGAATTTTTGGA-AGTTTAGGGA
218599 CCTCCAGGGC
Statistics
Matches: 191, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
87 121 0.63
88 68 0.36
89 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (88 bp):
AAAATGGAATTTTTGGAAGTTTGAGGGGTAAAATTGGAATTTTTGGAAGTTTAGGGATAAAAATG
AAATTTTTGGAAGTTTGGGGGTA
Found at i:219037 original size:35 final size:35
Alignment explanation
Indices: 218991--219060 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
218981 TCGGATTCGG
*
218991 GTCGATCCATGGGCAGAGGGTTGAAACGGCGTCGT
1 GTCGATCCATGGGCAGAGGGCTGAAACGGCGTCGT
219026 GTCGATCCATGGGCAGAGGGCTGAAACGGCGTCGT
1 GTCGATCCATGGGCAGAGGGCTGAAACGGCGTCGT
219061 TTTGGGCACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.21, G:0.40, T:0.19
Consensus pattern (35 bp):
GTCGATCCATGGGCAGAGGGCTGAAACGGCGTCGT
Found at i:219819 original size:3 final size:3
Alignment explanation
Indices: 219813--219860 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
219803 AATGTGTTAT
219813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
219861 ATGTTATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:220591 original size:18 final size:18
Alignment explanation
Indices: 220568--220653 Score: 72
Period size: 17 Copynumber: 4.8 Consensus size: 18
220558 TTTTTTAATT
220568 AATTAAATTTTAAA-TTCA
1 AATTAAATTTTAAACTT-A
220586 AATT-AATTTTAAACTTA
1 AATTAAATTTTAAACTTA
*
220603 ATTTAAA-TTTAAACTTAA
1 AATTAAATTTTAAACTT-A
** *
220621 AAGAAAAGTTTAAACTTTA
1 AATTAAATTTTAAAC-TTA
*
220640 AACTAAA-TTTAAAC
1 AATTAAATTTTAAAC
220654 CCAAAATGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
17 22 0.39
18 20 0.35
19 13 0.23
20 2 0.04
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTAAATTTTAAACTTA
Found at i:221874 original size:5 final size:5
Alignment explanation
Indices: 221864--221891 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
221854 CCAACTTATG
221864 GGATT GGATT GGATT GGATT GGATT GGA
1 GGATT GGATT GGATT GGATT GGATT GGA
221892 AATTTGTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (5 bp):
GGATT
Found at i:233435 original size:11 final size:11
Alignment explanation
Indices: 233419--233444 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
233409 CCAGGCGATT
233419 AACACTATAAA
1 AACACTATAAA
233430 AACACTATAAA
1 AACACTATAAA
233441 AACA
1 AACA
233445 AGAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.15
Consensus pattern (11 bp):
AACACTATAAA
Found at i:233959 original size:26 final size:26
Alignment explanation
Indices: 233904--233952 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
233894 AAAACTCTTA
*
233904 TATTACAATACAAATATTATTATTAT
1 TATTACAATACAAATATTAGTATTAT
233930 TATTA-AAT-CAAATAATTAGTATT
1 TATTACAATACAAAT-ATTAGTATT
233953 TCTTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 11 0.52
26 5 0.24
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (26 bp):
TATTACAATACAAATATTAGTATTAT
Found at i:239419 original size:18 final size:18
Alignment explanation
Indices: 239378--239415 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
239368 TATATATATA
239378 TAAATA-TAAAAAAACAT
1 TAAATATTAAAAAAACAT
239395 TAAATATTAAAAAAA-AT
1 TAAATATTAAAAAAACAT
239412 TAAA
1 TAAA
239416 ATATGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAATATTAAAAAAACAT
Found at i:239521 original size:21 final size:21
Alignment explanation
Indices: 239487--239548 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
239477 ATTTATTTTA
*
239487 TAAAA-TTAATAAAACACAT-T
1 TAAAATTTTATAAAA-ACATAT
*
239507 TAAAATTTTATAAAAATATAT
1 TAAAATTTTATAAAAACATAT
*
239528 TAAAATTCTATAAAAATCATA
1 TAAAATTTTATAAAAA-CATA
239549 AAAGTTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.23
21 24 0.69
22 3 0.09
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATTTTATAAAAACATAT
Found at i:239564 original size:22 final size:22
Alignment explanation
Indices: 239539--239583 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
239529 AAAATTCTAT
*
239539 AAAAATCATAA-AAGTTATTAAA
1 AAAAATCAAAAGAAG-TATTAAA
*
239561 AAAAATTAAAAGAAGTATTAAA
1 AAAAATCAAAAGAAGTATTAAA
239583 A
1 A
239584 TTGACATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAAATCAAAAGAAGTATTAAA
Found at i:240125 original size:19 final size:21
Alignment explanation
Indices: 240097--240137 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
240087 TTTAAATAAG
240097 TTTTATTAATTATAT-ATATT
1 TTTTATTAATTATATAATATT
*
240117 TTTTA-TAATTTTATAATATT
1 TTTTATTAATTATATAATATT
240137 T
1 T
240138 ATAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATTAATTATATAATATT
Found at i:240135 original size:49 final size:49
Alignment explanation
Indices: 240075--240187 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
240065 TCTATTATGT
* * *
240075 TTTTATAAATATTT-TAAATA-AGTTTTATTAA-TTATATATATTTTTTATAA
1 TTTTAT-AATATTTATAAATATAATTTTAATAAGTT-TATATA-ATTTTA-AA
*
240125 TTTTATAATATTTATAAATATAATTTTAATAAGTTTATATAATTTTAAT
1 TTTTATAATATTTATAAATATAATTTTAATAAGTTTATATAATTTTAAA
*
240174 TTTTAAAATATTTA
1 TTTTATAATATTTA
240188 ATATTTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
49 21 0.38
50 17 0.31
51 15 0.27
52 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (49 bp):
TTTTATAATATTTATAAATATAATTTTAATAAGTTTATATAATTTTAAA
Found at i:240148 original size:23 final size:23
Alignment explanation
Indices: 240120--240187 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
240110 ATATATTTTT
240120 TATAATTTTATAATATTTATAAA
1 TATAATTTTATAATATTTATAAA
*
240143 TATAATTTTAATAAGT-TTATATAAT
1 TATAATTTT-ATAA-TATT-TATAAA
* *
240168 TTTAATTTTTAAAATATTTA
1 TATAA-TTTTATAATATTTA
240188 ATATTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 9 0.24
24 9 0.24
25 15 0.41
26 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
TATAATTTTATAATATTTATAAA
Found at i:255492 original size:14 final size:14
Alignment explanation
Indices: 255473--255503 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
255463 AGAATAGATT
255473 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
255487 TTTAATTAATTAAA
1 TTTAATTAAATAAA
255501 TTT
1 TTT
255504 TTTAAACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:256157 original size:28 final size:29
Alignment explanation
Indices: 256126--256186 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
256116 AATAACATTT
256126 ATATTTAA-AAA-AATAAAAGTAAATAAAA
1 ATATTTAATAAATAATAAAAG-AAATAAAA
* *
256154 ATA-TTAATAAATAATAATAGAAATATAA
1 ATATTTAATAAATAATAAAAGAAATAAAA
256182 ATATT
1 ATATT
256187 CTTGTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 4 0.14
28 16 0.57
29 8 0.29
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
ATATTTAATAAATAATAAAAGAAATAAAA
Found at i:257123 original size:24 final size:24
Alignment explanation
Indices: 257095--257158 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
257085 TATACTAATA
*
257095 AGAATTTGACTCAAACAAATAAAC
1 AGAATTTAACTCAAACAAATAAAC
* * *
257119 AGAATTTAATTGAAACAAATAAAG
1 AGAATTTAACTCAAACAAATAAAC
* *
257143 AGAGTTTAACTGAAAC
1 AGAATTTAACTCAAAC
257159 CTATACATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.23
Consensus pattern (24 bp):
AGAATTTAACTCAAACAAATAAAC
Found at i:270964 original size:26 final size:24
Alignment explanation
Indices: 270925--270983 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
270915 TTCAATTACT
* * * *
270925 TTTAGTTTAGTTTAACTTAACTTAA
1 TTTATTTTAATTTAACATAA-TGAA
270950 TTTAATTTTAATTTAACATAATGAA
1 TTT-ATTTTAATTTAACATAATGAA
270975 TTTATTTTA
1 TTTATTTTA
270984 TTTTGAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.21
25 9 0.31
26 14 0.48
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (24 bp):
TTTATTTTAATTTAACATAATGAA
Found at i:275216 original size:30 final size:28
Alignment explanation
Indices: 275181--275277 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 28
275171 TAAAATGATG
275181 ATTTTTGGAAGGTTCGAGGTCAAAAATGGA
1 ATTTTTGGAA-GTT-GAGGTCAAAAATGGA
*
275211 ATTTTTGGACATTTGGAGGT--AAAATGGTA
1 ATTTTTGGA-AGTT-GAGGTCAAAAATGG-A
*
275240 ATTTTTGGAAAGTTG-GGATCAAAAATGAA
1 ATTTTTGG-AAGTTGAGG-TCAAAAATGGA
275269 ATTTTTGGA
1 ATTTTTGGA
275278 CATCTAGAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
27 2 0.04
28 10 0.18
29 21 0.37
30 23 0.40
31 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (28 bp):
ATTTTTGGAAGTTGAGGTCAAAAATGGA
Found at i:275232 original size:59 final size:59
Alignment explanation
Indices: 275151--275453 Score: 266
Period size: 58 Copynumber: 5.2 Consensus size: 59
275141 GTATAACGGT
* * * * * *
275151 AATTTTTAGACACTTGGGGGTAAAATGATGATTTTTGGAAGGTTCGAGGTCAAAAATGG
1 AATTTTTGGACATTTGGAGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGG
*
275210 AATTTTTGGACATTTGGAGGTAAAATGGTAATTTTTGGAAAGTT-G-GGATCAAAAATGA
1 AATTTTTGGACATTTGGAGGTAAAATGGTAATTTTTGGAAAGTTCGAGG-TCAAAAATGG
* * * * * *
275268 AATTTTTGGACATCTAGAGGTAAAATGGTAATTTTTGAAAATTTCAAGGGTTAAAAATGG
1 AATTTTTGGACATTTGGAGGTAAAATGGTAATTTTTGGAAAGTTCGA-GGTCAAAAATGG
* * * * * **
275328 AATTTTCGAACACTCGG-GGTTAAAATGGTAA-TTTTGGAAAGTT-TAGGGTTTTAAAA-GG
1 AATTTTTGGACATTTGGAGG-TAAAATGGTAATTTTTGGAAAGTTCGA-GG-TCAAAAATGG
* *
275386 AATTTTTGGA-AGTTTAGG-GGTAAAATGGTAATTCTTGGAAAGTTC-AGTGTC-AAAAGGG
1 AATTTTTGGACA-TTT-GGAGGTAAAATGGTAATTTTTGGAAAGTTCGAG-GTCAAAAATGG
275444 AATTTTTGGA
1 AATTTTTGGA
275454 AAGTTCAAGG
Statistics
Matches: 202, Mismatches: 30, Indels: 25
0.79 0.12 0.10
Matches are distributed among these distances:
57 7 0.03
58 90 0.45
59 73 0.36
60 30 0.15
61 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (59 bp):
AATTTTTGGACATTTGGAGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGG
Found at i:275242 original size:29 final size:29
Alignment explanation
Indices: 275148--275304 Score: 126
Period size: 29 Copynumber: 5.4 Consensus size: 29
275138 GGGGTATAAC
* * *
275148 GGTAATTTTTAGACACTTGGGGGTAAAAT
1 GGTAATTTTTGGACAGTTGGAGGTAAAAT
* * *
275177 GATGATTTTTGGA-AGGTTCGAGGTCAAAAAT
1 GGTAATTTTTGGACA-GTTGGAGGT--AAAAT
*
275208 GG-AATTTTTGGACATTTGGAGGTAAAAT
1 GGTAATTTTTGGACAGTTGGAGGTAAAAT
* *
275236 GGTAATTTTTGGAAAGTTGG-GATCAAAAAT
1 GGTAATTTTTGGACAGTTGGAGGT--AAAAT
* *
275266 -GAAATTTTTGGACA-TCTAGAGGTAAAAT
1 GGTAATTTTTGGACAGT-TGGAGGTAAAAT
275294 GGTAATTTTTG
1 GGTAATTTTTG
275305 AAAATTTCAA
Statistics
Matches: 100, Mismatches: 18, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
28 16 0.16
29 54 0.54
30 23 0.23
31 7 0.07
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (29 bp):
GGTAATTTTTGGACAGTTGGAGGTAAAAT
Found at i:275277 original size:58 final size:57
Alignment explanation
Indices: 275151--275540 Score: 265
Period size: 59 Copynumber: 6.6 Consensus size: 57
275141 GTATAACGGT
* * * * * *
275151 AATTTTTAGACACTTGGGGGTAAAATGATGATTTTTGGAAGGTTCGAGGTCAAAAATGG
1 AATTTTTGGACA-TTTGGGGTAAAATGGTAATTTTTGGAAAGTTAG-GGTCAAAAATGG
*
275210 AATTTTTGGACATTTGGAGGTAAAATGGTAATTTTTGGAAAGTT-GGGATCAAAAATGA
1 AATTTTTGGACATTTGG-GGTAAAATGGTAATTTTTGGAAAGTTAGGG-TCAAAAATGG
* * * * *
275268 AATTTTTGGACATCTAGAGGTAAAATGGTAATTTTTGAAAATTTCAAGGGTTAAAAATGG
1 AATTTTTGGACAT-TTGGGGTAAAATGGTAATTTTTGGAAAGTT--AGGGTCAAAAATGG
* * * * **
275328 AATTTTCGAACACTCGGGGTTAAAATGGTAA-TTTTGGAAAGTTTAGGGTTTTAAAA-GG
1 AATTTTTGGACATTTGGGG-TAAAATGGTAATTTTTGGAAAG-TTAGGG-TCAAAAATGG
* * *
275386 AATTTTTGGA-AGTTTAGGGGTAAAATGGTAATTCTTGGAAAGTTCAGTGTC-AAAAGGG
1 AATTTTTGGACA-TTT-GGGGTAAAATGGTAATTTTTGGAAAGTT-AGGGTCAAAAATGG
* ** * * * * *
275444 AATTTTTGGAAAGTTCAAGGGTCAAAAT-ATGATTTTTGAAAAGTTTAGGGGT-TAAAATGT
1 AATTTTTGGACA-TT-TGGGGT-AAAATGGTAATTTTTGGAAAG-TTA-GGGTCAAAAATGG
* *
275504 AATTTTTGGAAAGCTTGGGGTTAAAAT-GTAATTTTTG
1 AATTTTTGGACA-TTTGGGG-TAAAATGGTAATTTTTG
275541 AGAAGTTTGG
Statistics
Matches: 269, Mismatches: 41, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
57 7 0.03
58 92 0.34
59 106 0.39
60 61 0.23
61 3 0.01
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (57 bp):
AATTTTTGGACATTTGGGGTAAAATGGTAATTTTTGGAAAGTTAGGGTCAAAAATGG
Found at i:275395 original size:30 final size:30
Alignment explanation
Indices: 275203--275548 Score: 167
Period size: 29 Copynumber: 11.8 Consensus size: 30
275193 TTCGAGGTCA
* *
275203 AAAATGGAATTTTTGGACA-TTT-GGAG-GT
1 AAAATGGAATTTTTGGAAAGTTTAGG-GTTT
**
275231 AAAATGGTAATTTTTGGAAAG-TT-GGGATCA
1 AAAATGG-AATTTTTGGAAAGTTTAGGG-TTT
* * *
275261 AAAATGAAATTTTTGGACA-TCTAGAGG--T
1 AAAATGGAATTTTTGGAAAGTTTAG-GGTTT
* *
275289 AAAATGGTAATTTTT-GAAAATTTCAAGGGTTA
1 AAAATGG-AATTTTTGGAAAGTTT--AGGGTTT
* * * *
275321 AAAATGGAA-TTTTCGAACA--CTCGGGGTT
1 AAAATGGAATTTTTGGAA-AGTTTAGGGTTT
275349 AAAATGGTAA-TTTTGGAAAGTTTAGGGTTTT
1 AAAATGG-AATTTTTGGAAAGTTTAGGG-TTT
*
275380 AAAA-GGAATTTTTGG-AAGTTTAGGG-GT
1 AAAATGGAATTTTTGGAAAGTTTAGGGTTT
* * * *
275407 AAAATGGTAATTCTTGGAAAGTTCAGTG-TC
1 AAAATGG-AATTTTTGGAAAGTTTAGGGTTT
* * *
275437 AAAAGGGAATTTTTGGAAAGTTCAAGGG-TC
1 AAAATGGAATTTTTGGAAAGTT-TAGGGTTT
* * *
275467 AAAATATG-ATTTTTGAAAAGTTTAGGGGTT
1 AAAAT-GGAATTTTTGGAAAGTTTAGGGTTT
* * *
275497 AAAATGTAATTTTTGGAAAGCTT-GGGGTT
1 AAAATGGAATTTTTGGAAAGTTTAGGGTTT
*
275526 AAAATGTAATTTTT-GAGAAGTTT
1 AAAATGGAATTTTTGGA-AAGTTT
275549 GGAGGCCAAA
Statistics
Matches: 251, Mismatches: 39, Indels: 55
0.73 0.11 0.16
Matches are distributed among these distances:
27 5 0.02
28 33 0.13
29 108 0.43
30 81 0.32
31 16 0.06
32 8 0.03
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAAGTTTAGGGTTT
Found at i:275471 original size:118 final size:115
Alignment explanation
Indices: 275167--275540 Score: 298
Period size: 118 Copynumber: 3.2 Consensus size: 115
275157 TAGACACTTG
* * * * * **
275167 GGGGTAAAATGATGATTTTTGGAAGGTTCGAGGTCAAAAATGGAATTTTTGGACATTTGGAGGTA
1 GGGGTAAAATGGTAATTTTTGGAAAGTTCAAGGTC-AAAATGGAATTTTTGGAAATTCAG-GGTA
** *
275232 AAATGGTAATTTTTGGAAAG-TT-GGGATCAAAAATGAAATTTTTGGACA-TCTA
64 AAATGGTAA-TTTTGGAAAGTTTAGGG-TTTAAAATGAAATTTTTGGA-AGTTTA
* * * * * * *
275284 GAGGTAAAATGGTAATTTTTGAAAATTTCAAGGGTTAAAAATGGAA-TTTTCGAACACTCGGGGT
1 GGGGTAAAATGGTAATTTTTGGAAAGTTCAA-GG-TCAAAATGGAATTTTTGGAA-ATTCAGGG-
*
275348 TAAAATGGTAATTTTGGAAAGTTTAGGGTTTTAAAA-GGAATTTTTGGAAGTTTA
62 TAAAATGGTAATTTTGGAAAGTTTAGGG-TTTAAAATGAAATTTTTGGAAGTTTA
* *
275402 GGGGTAAAATGGTAATTCTTGGAAAGTTC-AGTGTCAAAAGGGAATTTTTGGAAAGTTCAAGGGT
1 GGGGTAAAATGGTAATTTTTGGAAAGTTCAAG-GTCAAAATGGAATTTTTGGAAA-TTC-AGGGT
* * * * * *
275466 CAAAAT-ATGATTTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTTGGAAAGCTT-
63 -AAAATGGT-AATTTTGGAAAGTTTAGGGTTTAAAATGAAATTTTTGG-AAGTTTA
275520 GGGGTTAAAAT-GTAATTTTTG
1 GGGG-TAAAATGGTAATTTTTG
275541 AGAAGTTTGG
Statistics
Matches: 208, Mismatches: 33, Indels: 31
0.76 0.12 0.11
Matches are distributed among these distances:
116 11 0.05
117 62 0.30
118 115 0.55
119 20 0.10
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (115 bp):
GGGGTAAAATGGTAATTTTTGGAAAGTTCAAGGTCAAAATGGAATTTTTGGAAATTCAGGGTAAA
ATGGTAATTTTGGAAAGTTTAGGGTTTAAAATGAAATTTTTGGAAGTTTA
Found at i:275550 original size:29 final size:28
Alignment explanation
Indices: 275164--275550 Score: 144
Period size: 29 Copynumber: 13.1 Consensus size: 28
275154 TTTTAGACAC
* *
275164 TTGGGGGTAAAATGATGATTTTTGGAAGGT
1 TTGGGGTTAAAATG-TAATTTTTGGAA-GT
* * * *
275194 TCGAGGTCAAAAATGGAATTTTTGGACA-T
1 TTGGGGT-TAAAATGTAATTTTTGGA-AGT
275223 TTGGAGG-TAAAATGGTAATTTTTGGAAAG-
1 TTGG-GGTTAAAAT-GTAATTTTTGG-AAGT
* * *
275252 TTGGGATCAAAAATGAAATTTTTGGACA-T
1 TTGGGGT-TAAAATGTAATTTTTGGA-AGT
* * * *
275281 CTAGAGG-TAAAATGGTAATTTTTGAAAAT
1 -TTGGGGTTAAAAT-GTAATTTTTGGAAGT
* * * **
275310 TTCAAGGGTTAAAAATGGAA-TTTTCGAACAC
1 TT--GGGGTT-AAAATGTAATTTTTGGAA-GT
*
275341 TCGGGGTTAAAATGGTAA-TTTTGGAAAGT
1 TTGGGGTTAAAAT-GTAATTTTTGG-AAGT
* *
275370 TTAGGGTTTTAAAA-GGAATTTTTGGAAGT
1 TT-GGG-GTTAAAATGTAATTTTTGGAAGT
*
275399 TTAGGGG-TAAAATGGTAATTCTTGGAAAGT
1 TT-GGGGTTAAAAT-GTAATTTTTGG-AAGT
** * * * *
275429 TCAGTGTCAAAAGGGAATTTTTGGAAAGT
1 TTGGGGTTAAAATGTAATTTTTGG-AAGT
** * * * *
275458 TCAAGGGTCAAAATATGATTTTTGAAAAGT
1 T-TGGGGTTAAAATGTAATTTTTG-GAAGT
*
275488 TTAGGGGTTAAAATGTAATTTTTGGAAAGC
1 TT-GGGGTTAAAATGTAATTTTTGG-AAGT
275518 TTGGGGTTAAAATGTAATTTTTGAGAAGT
1 TTGGGGTTAAAATGTAATTTTTG-GAAGT
275547 TTGG
1 TTGG
275551 AGGCCAAAAT
Statistics
Matches: 265, Mismatches: 60, Indels: 65
0.68 0.15 0.17
Matches are distributed among these distances:
27 5 0.02
28 19 0.07
29 121 0.46
30 96 0.36
31 19 0.07
32 5 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (28 bp):
TTGGGGTTAAAATGTAATTTTTGGAAGT
Found at i:275560 original size:59 final size:59
Alignment explanation
Indices: 275444--275572 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 59
275434 GTCAAAAGGG
* ** *
275444 AATTTTTGGAAAGTTCAAGGGTCAAAATATGATTTTTGAAAAGTTTAGGGGTTAAAATGT
1 AATTTTTGGAAAGTT-AAGGGTCAAAATATAATTTTTGAAAAGTTTAGGGGCCAAAATAT
* * * *
275504 AATTTTTGGAAAGCTT-GGGGTTAAAATGTAATTTTTGAGAAGTTT-GGAGGCCAAAATAT
1 AATTTTTGGAAAG-TTAAGGGTCAAAATATAATTTTTGAAAAGTTTAGG-GGCCAAAATAT
*
275563 GATTTTTGGA
1 AATTTTTGGA
275573 CAATTCAGGA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 2 0.03
59 41 0.71
60 13 0.22
61 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (59 bp):
AATTTTTGGAAAGTTAAGGGTCAAAATATAATTTTTGAAAAGTTTAGGGGCCAAAATAT
Found at i:275568 original size:30 final size:29
Alignment explanation
Indices: 275462--275570 Score: 103
Period size: 30 Copynumber: 3.7 Consensus size: 29
275452 GAAAGTTCAA
* *
275462 GGGTCAAAATATGATTTTTGAAAAGTTTAG
1 GGGTCAAAATATAATTTTTGAGAAGTTT-G
* * *
275492 GGGTTAAAATGTAATTTTTG-GAAAGCTTG
1 GGGTCAAAATATAATTTTTGAG-AAGTTTG
* *
275521 GGGTTAAAATGTAATTTTTGAGAAGTTTG
1 GGGTCAAAATATAATTTTTGAGAAGTTTG
* *
275550 GAGGCCAAAATATGATTTTTG
1 G-GGTCAAAATATAATTTTTG
275571 GACAATTCAG
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
29 28 0.42
30 38 0.58
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.38
Consensus pattern (29 bp):
GGGTCAAAATATAATTTTTGAGAAGTTTG
Found at i:277341 original size:37 final size:36
Alignment explanation
Indices: 277300--277382 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 36
277290 GAATTGGGTT
* *
277300 ATTTGAAATTGAGCCCAATTGG-GTTATAATTTTGGAC
1 ATTTGAAATTGAGCCCAAGTGGACTTAT-A-TTTGGAC
* *
277337 ATTTGTAATTGGGCCCAAGTGGACTTATATTTGGAC
1 ATTTGAAATTGAGCCCAAGTGGACTTATATTTGGAC
*
277373 ATTTTAAATT
1 ATTTGAAATT
277383 TAATTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
36 15 0.38
37 20 0.51
38 4 0.10
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (36 bp):
ATTTGAAATTGAGCCCAAGTGGACTTATATTTGGAC
Found at i:277415 original size:34 final size:34
Alignment explanation
Indices: 277372--277461 Score: 119
Period size: 33 Copynumber: 2.6 Consensus size: 34
277362 TATATTTGGA
*
277372 CATTTTAAATTTAATTTAATTTTAAGTTTAAAAC
1 CATTTTAAATTTAATTTAATTTTAAATTTAAAAC
* *
277406 CATTTTAAATTTAA-CTAAATTTAAATTTAAAAC
1 CATTTTAAATTTAATTTAATTTTAAATTTAAAAC
* *
277439 AAATTTAAATTTAAATTTAATTT
1 CATTTTAAATTT-AATTTAATTT
277462 CAAAAATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
33 26 0.55
34 16 0.34
35 5 0.11
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.48
Consensus pattern (34 bp):
CATTTTAAATTTAATTTAATTTTAAATTTAAAAC
Found at i:277418 original size:6 final size:6
Alignment explanation
Indices: 277409--277505 Score: 62
Period size: 6 Copynumber: 17.0 Consensus size: 6
277399 TTAAAACCAT
* **
277409 TTTAAA TTT-AA -CTAAA TTTAAA TTTAAA -ACAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * * * *
277454 TTT-AA TTTCAAA AATAAA TTTAAA -ATCAA TTTAAA CTT-AA TATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
277500 TTTAAA
1 TTTAAA
277506 ATCAAAAGTT
Statistics
Matches: 66, Mismatches: 18, Indels: 14
0.67 0.18 0.14
Matches are distributed among these distances:
4 1 0.02
5 18 0.27
6 44 0.67
7 3 0.05
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:277460 original size:11 final size:11
Alignment explanation
Indices: 277423--277504 Score: 56
Period size: 11 Copynumber: 7.2 Consensus size: 11
277413 AATTTAACTA
277423 AATTTAAATTT
1 AATTTAAATTT
***
277434 AAAACAAATTT
1 AATTTAAATTT
277445 AAATTTAAATTT
1 -AATTTAAATTT
* *
277457 AATTTCAAAAATA
1 AATTT--AAATTT
* *
277470 AATTTAAAATC
1 AATTTAAATTT
*
277481 AATTTAAACTT
1 AATTTAAATTT
*
277492 AATATAAATTT
1 AATTTAAATTT
277503 AA
1 AA
277505 AATCAAAAGT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
11 38 0.69
12 8 0.15
13 9 0.16
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:277460 original size:17 final size:17
Alignment explanation
Indices: 277375--277505 Score: 77
Period size: 17 Copynumber: 7.7 Consensus size: 17
277365 ATTTGGACAT
277375 TTTAAATTT-AATTTAA
1 TTTAAATTTAAATTTAA
* *** *
277391 TTTTAAGTTTAAAACCAT
1 -TTTAAATTTAAATTTAA
* *
277409 TTTAAATTT-AACTAAA
1 TTTAAATTTAAATTTAA
***
277425 TTTAAATTTAAAACAAA
1 TTTAAATTTAAATTTAA
277442 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTTAA
**
277459 TTTCAAAAATAAATTTAA
1 TTT-AAATTTAAATTTAA
** * *
277477 AATCAATTTAAACTTAA
1 TTTAAATTTAAATTTAA
*
277494 TATAAATTTAAA
1 TTTAAATTTAAA
277506 ATCAAAAGTT
Statistics
Matches: 86, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
16 12 0.14
17 58 0.67
18 16 0.19
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:279675 original size:21 final size:20
Alignment explanation
Indices: 279649--279704 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
279639 CAATACTCAT
* *
279649 TAATAATAATAAATGTTTTGA
1 TAATAATAATAAAT-TATTAA
279670 TAATAATAATAATATTATTAA
1 TAATAATAATAA-ATTATTAA
279691 TAATAATTAATAAA
1 TAATAA-TAATAAA
279705 AAAAGGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
TAATAATAATAAATTATTAA
Found at i:280788 original size:30 final size:28
Alignment explanation
Indices: 280715--280883 Score: 207
Period size: 30 Copynumber: 5.8 Consensus size: 28
280705 GAGGTCCCTA
*
280715 AACTATCCAAAAATCCCATTTTTACCCCCG
1 AACT-TCCAAAAATCCCATTTTTA-CCTCG
280745 AACTTCCAAAAATCCCATTTTTGACCTCG
1 AACTTCCAAAAATCCCATTTTT-ACCTCG
* * *
280774 AAAGTTCAAAAAATCCCGTTTTTACCTCCG
1 -AACTTCCAAAAATCCCATTTTTACCT-CG
280804 AACTTCCAAAAATCCCATTTTTTA-CTCTG
1 AACTTCCAAAAATCCCA-TTTTTACCTC-G
280833 AAACTTCCAAAAATCCCA-TTTTACCCTCG
1 -AACTTCCAAAAATCCCATTTTTA-CCTCG
280862 AACTTCCAAAAATCCCATTTTT
1 AACTTCCAAAAATCCCATTTTT
280884 GACCCAAAAA
Statistics
Matches: 123, Mismatches: 7, Indels: 19
0.83 0.05 0.13
Matches are distributed among these distances:
28 23 0.19
29 48 0.39
30 52 0.42
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (28 bp):
AACTTCCAAAAATCCCATTTTTACCTCG
Found at i:280813 original size:59 final size:58
Alignment explanation
Indices: 280714--280904 Score: 235
Period size: 59 Copynumber: 3.2 Consensus size: 58
280704 GGAGGTCCCT
*
280714 AAACTATCCAAAAATCCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTC-G
1 AAACT-TCAAAAAATCCC-TTTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCTCTG
* *
280774 AAAGTTCAAAAAATCCCGTTTTTACCTCCGAACTTCCAAAAATCCCATTTTTTA-CTCTG
1 AAACTTCAAAAAATCCC-TTTTTACC-CCGAACTTCCAAAAATCCCATTTTTGACCTCTG
* * **
280833 AAACTTCCAAAAATCCCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACC-CAA
1 AAACTTCAAAAAATCCCTTTTTACCC-CGAACTTCCAAAAATCCCATTTTTGACCTCTG
*
280891 AAACTTCTAAAAAT
1 AAACTTCAAAAAAT
280905 TACCATCTTG
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
57 1 0.01
58 51 0.44
59 60 0.52
60 4 0.03
ACGTcount: A:0.36, C:0.30, G:0.05, T:0.30
Consensus pattern (58 bp):
AAACTTCAAAAAATCCCTTTTTACCCCGAACTTCCAAAAATCCCATTTTTGACCTCTG
Found at i:287825 original size:19 final size:17
Alignment explanation
Indices: 287788--287821 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
287778 CGAATTAAAT
*
287788 AAAAATAAATTTAATTA
1 AAAAATAAAATTAATTA
287805 AAAAATTAAAATTAATT
1 AAAAA-TAAAATTAATT
287822 TAAACTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATAAAATTAATTA
Done.