Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 23 of 333
Found at i:6771871 original size:16 final size:16
Alignment explanation
Indices: 6771850--6771907 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
6771840 GCTCGGTTTT
6771850 GAAGAAAAAGAAGAAG
1 GAAGAAAAAGAAGAAG
*
6771866 GAAGAAGAAGAAGAAG
1 GAAGAAAAAGAAGAAG
* *
6771882 AAAGAAAGAG-AGAA-
1 GAAGAAAAAGAAGAAG
*
6771896 GAAGAAAGAGAA
1 GAAGAAAAAGAA
6771908 AAAAAAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 9 0.25
15 5 0.14
16 22 0.61
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAGAAGAAG
Found at i:6771872 original size:10 final size:9
Alignment explanation
Indices: 6771850--6771901 Score: 59
Period size: 10 Copynumber: 5.3 Consensus size: 9
6771840 GCTCGGTTTT
*
6771850 GAAGAAAAA
1 GAAGAAGAA
6771859 GAAGAAGGAA
1 GAAGAA-GAA
6771869 GAAGAAGAA
1 GAAGAAGAA
6771878 GAAGAAAGAAA
1 GAAG-AAG-AA
6771889 GAGAGAAGAA
1 GA-AGAAGAA
6771899 GAA
1 GAA
6771902 AGAGAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
9 14 0.37
10 15 0.39
11 7 0.18
12 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
GAAGAAGAA
Found at i:6771907 original size:27 final size:27
Alignment explanation
Indices: 6771850--6771917 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
6771840 GCTCGGTTTT
* *
6771850 GAAGAAAAAGAAGA-AG-GAAGAAGAA
1 GAAGAAAAAAAAAAGAGAGAAGAAGAA
* *
6771875 GAAGAAGAAAGAAAGAGAGAAGAAGAA
1 GAAGAAAAAAAAAAGAGAGAAGAAGAA
6771902 -AGAGAAAAAAAAAAGA
1 GA-AGAAAAAAAAAAGA
6771918 AAAAAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 10 0.29
26 3 0.09
27 21 0.62
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (27 bp):
GAAGAAAAAAAAAAGAGAGAAGAAGAA
Found at i:6772209 original size:10 final size:10
Alignment explanation
Indices: 6772194--6772263 Score: 66
Period size: 9 Copynumber: 7.7 Consensus size: 10
6772184 CCAGCAGAAA
6772194 AAAAAGGAAG
1 AAAAAGGAAG
6772204 AAAAA-GAAG
1 AAAAAGGAAG
*
6772213 AAAAAAGAA-
1 AAAAAGGAAG
6772222 AAAAA-G-A-
1 AAAAAGGAAG
6772229 AAAAAGGAA-
1 AAAAAGGAAG
6772238 AAAAA--AAG
1 AAAAAGGAAG
6772246 AAAAAAGGAAG
1 -AAAAAGGAAG
6772257 AAAAAGG
1 AAAAAGG
6772264 GGGTTCAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
7 8 0.15
8 2 0.04
9 25 0.47
10 15 0.28
11 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAAGGAAG
Found at i:6772224 original size:8 final size:8
Alignment explanation
Indices: 6772201--6772262 Score: 63
Period size: 8 Copynumber: 7.4 Consensus size: 8
6772191 AAAAAAAAGG
6772201 AAGAAAAA
1 AAGAAAAA
6772209 GAAG-AAAA
1 -AAGAAAAA
6772217 AAGAAAAA
1 AAGAAAAA
6772225 AAGAAAAA
1 AAGAAAAA
*
6772233 AGGAAAAAAA
1 A--AGAAAAA
6772243 AAGAAAAA
1 AAGAAAAA
*
6772251 AGGAAGAAA
1 AAGAA-AAA
6772260 AAG
1 AAG
6772263 GGGGTTCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 3 0.07
8 27 0.60
9 8 0.18
10 7 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:6772225 original size:18 final size:19
Alignment explanation
Indices: 6772189--6772262 Score: 88
Period size: 18 Copynumber: 4.1 Consensus size: 19
6772179 GCAGCCCAGC
6772189 AGAAAAAAAAGGAAGAAAA
1 AGAAAAAAAAGGAAGAAAA
6772208 AGAAGAAAAAA-GAA-AAAA
1 AGAA-AAAAAAGGAAGAAAA
6772226 AG--AAAAAAGGAA-AAAA
1 AGAAAAAAAAGGAAGAAAA
6772242 A-AAGAAAAAAGGAAGAAAA
1 AGAA-AAAAAAGGAAGAAAA
6772261 AG
1 AG
6772263 GGGGTTCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.12
16 8 0.17
18 16 0.33
19 12 0.25
20 6 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAGGAAGAAAA
Found at i:6772840 original size:17 final size:17
Alignment explanation
Indices: 6772800--6773233 Score: 153
Period size: 17 Copynumber: 25.1 Consensus size: 17
6772790 GAAATTTTCG
*
6772800 AATTTTCGCGTTTTCAAA
1 AATTTTCGTG-TTTCAAA
* *
6772818 AGTTTTCGTGTTTGAAA
1 AATTTTCGTGTTTCAAA
*
6772835 AATTTTCGCGTTT-AAA
1 AATTTTCGTGTTTCAAA
*
6772851 AATTTCTCGTATTTCAAA
1 AATTT-TCGTGTTTCAAA
* * * *
6772869 AATTGTCGTTTTTTACA
1 AATTTTCGTGTTTCAAA
*
6772886 AATTTTCGTGCTTTCAAT
1 AATTTTCGTG-TTTCAAA
** *
6772904 AATCCTCGTGCTTTTAAA
1 AATTTTCGTG-TTTCAAA
* *
6772922 AATTCTCATGTTTCAAA
1 AATTTTCGTGTTTCAAA
*
6772939 AATCTTCGTGTTTTC--A
1 AATTTTCGTG-TTTCAAA
* *
6772955 AATTCTAGTGTTTCAAA
1 AATTTTCGTGTTTCAAA
*
6772972 AATTTTCTTGTTTTCAAAAAA
1 AATTTTCGTG-TTTC---AAA
* *
6772993 AAATTTCGTGTTTTAAAAAAA
1 AATTTTCGTG-TTT---CAAA
*
6773014 AATATTTCCGTGTTT-TAA
1 AAT-TTT-CGTGTTTCAAA
*
6773032 AATTTTCGTGTTT-TAA
1 AATTTTCGTGTTTCAAA
* *
6773048 AATTCTCGTATTT--AA
1 AATTTTCGTGTTTCAAA
*
6773063 AATTTT--T-TTTAAGAA
1 AATTTTCGTGTTTCA-AA
*
6773078 AAATTT--TGTTTCAAAA
1 AATTTTCGTGTTTC-AAA
* * * *
6773094 AAATGTCTTGTTT-TAA
1 AATTTTCGTGTTTCAAA
**
6773110 AATTCCCGTGTTTCAAAA
1 AATTTTCGTGTTTC-AAA
* * *
6773128 AAATGTCGTGTTTTAAGA
1 AATTTTCGTGTTTCAA-A
*
6773146 AA-TTTCGTTTTTTTTCAAA
1 AATTTTCG---TGTTTCAAA
*
6773165 AATTTTCGTGTTTC-TA
1 AATTTTCGTGTTTCAAA
* *
6773181 AATATTCGTGTTT-ACA
1 AATTTTCGTGTTTCAAA
*
6773197 AATTCTCGTGTTTTCAAA
1 AATTTTCGTG-TTTCAAA
* * *
6773215 AATTCTCGTATTTTAAA
1 AATTTTCGTGTTTCAAA
6773232 AA
1 AA
6773234 AAAACTTTCG
Statistics
Matches: 319, Mismatches: 65, Indels: 65
0.71 0.14 0.14
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 19 0.06
16 80 0.25
17 87 0.27
18 85 0.27
19 3 0.01
20 11 0.03
21 20 0.06
22 6 0.02
23 4 0.01
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (17 bp):
AATTTTCGTGTTTCAAA
Found at i:6772846 original size:35 final size:34
Alignment explanation
Indices: 6772800--6772990 Score: 163
Period size: 35 Copynumber: 5.6 Consensus size: 34
6772790 GAAATTTTCG
* *
6772800 AATTTTCGCGTTTTCAAAAGTTTTCGTGTTTGAAA
1 AATTTTCGTGTTTTCAAAA-TTTTCGTGTTTCAAA
* * *
6772835 AATTTTCGCG-TTTAAAAATTTCTCGTATTTCAAA
1 AATTTTCGTGTTTTCAAAATTT-TCGTGTTTCAAA
* * *
6772869 AATTGTCGT-TTTTTACAAATTTTCGTGCTTTCAAT
1 AATTTTCGTGTTTTCA-AAATTTTCGTG-TTTCAAA
** * * *
6772904 AATCCTCGTGCTTTTAAAAATTCTCATGTTTCAAA
1 AATTTTCGTG-TTTTCAAAATTTTCGTGTTTCAAA
* * *
6772939 AATCTTCGTGTTTTC-AAATTCTAGTGTTTCAAA
1 AATTTTCGTGTTTTCAAAATTTTCGTGTTTCAAA
*
6772972 AATTTTCTTGTTTTCAAAA
1 AATTTTCGTGTTTTCAAAA
6772991 AAAAATTTCG
Statistics
Matches: 129, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
33 32 0.25
34 39 0.30
35 44 0.34
36 9 0.07
37 5 0.04
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (34 bp):
AATTTTCGTGTTTTCAAAATTTTCGTGTTTCAAA
Found at i:6772997 original size:22 final size:21
Alignment explanation
Indices: 6772969--6773033 Score: 87
Period size: 23 Copynumber: 3.0 Consensus size: 21
6772959 CTAGTGTTTC
*
6772969 AAAAATTTTCTTGTTTTCAAAA
1 AAAAATTTTCGTGTTTT-AAAA
6772991 AAAAA-TTTCGTGTTTTAAAA
1 AAAAATTTTCGTGTTTTAAAA
6773011 AAAAATATTTCCGTGTTTTAAAA
1 AAAAAT-TTT-CGTGTTTTAAAA
6773034 TTTTCGTGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 9 0.23
21 10 0.26
22 8 0.21
23 12 0.31
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (21 bp):
AAAAATTTTCGTGTTTTAAAA
Found at i:6772999 original size:21 final size:20
Alignment explanation
Indices: 6772969--6773033 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 20
6772959 CTAGTGTTTC
* *
6772969 AAAAATTTTCTTGTTTTCAAA
1 AAAAAATTTCGTGTTTT-AAA
6772990 AAAAAATTTCGTGTTTTAAAA
1 AAAAAATTTCGTGTTTT-AAA
6773011 AAAAATATTTCCGTGTTTTAAA
1 AAAAA-ATTT-CGTGTTTTAAA
6773033 A
1 A
6773034 TTTTCGTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 23 0.59
22 8 0.21
23 8 0.21
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAAATTTCGTGTTTTAAA
Found at i:6773010 original size:18 final size:17
Alignment explanation
Indices: 6772821--6773234 Score: 93
Period size: 18 Copynumber: 24.0 Consensus size: 17
6772811 TTTCAAAAGT
* *
6772821 TTTCGTGTTTGAAAAAT
1 TTTCGTGTTTTAAAAAA
*
6772838 TTTCGCG-TTT-AAAAA
1 TTTCGTGTTTTAAAAAA
*
6772853 TTTC-TCGTATTTCAAAAA
1 TTTCGT-GT-TTTAAAAAA
* * *
6772871 TTGTCGTTTTTTACAAAT
1 TT-TCGTGTTTTAAAAAA
* * *
6772889 TTTCGTGCTTTCAATAA
1 TTTCGTGTTTTAAAAAA
*
6772906 TCCTCGTGCTTTT-AAAAA
1 T-TTCGTG-TTTTAAAAAA
* *
6772924 TTCTCATG-TTTCAAAAA
1 TT-TCGTGTTTTAAAAAA
*
6772941 TCTTCGTGTTTT--CAAA
1 T-TTCGTGTTTTAAAAAA
* * *
6772957 TTCTAGTGTTTCAAAAAT
1 TT-TCGTGTTTTAAAAAA
*
6772975 TTTCTTGTTTTCAAAAAAAAA
1 TTTCGTGTTTT----AAAAAA
6772996 TTTCGTGTTTTAAAAAAAAATA
1 TTTCGTGTTTT----AAAAA-A
*
6773018 TTTCCGTGTTTT-AAAAT
1 TTT-CGTGTTTTAAAAAA
6773035 TTTCGTGTTTT--AAAA
1 TTTCGTGTTTTAAAAAA
*
6773050 TTCTCGT-ATTT--AAAA
1 TT-TCGTGTTTTAAAAAA
6773065 TTT--T-TTTTAAGAAAAA
1 TTTCGTGTTTT-A-AAAAA
*
6773081 TTT--TGTTTCAAAAAAA
1 TTTCGTGTTT-TAAAAAA
* *
6773097 TGTCTTGTTTT--AAAA
1 TTTCGTGTTTTAAAAAA
* *
6773112 TTCCCGTGTTTCAAAAAAA
1 TT-TCGTGTTT-TAAAAAA
* *
6773131 TGTCGTGTTTTAAGAAA
1 TTTCGTGTTTTAAAAAA
* *
6773148 TTTCGTTTTTTTTCAAAAAT
1 TTTCG--TGTTTT-AAAAAA
*
6773168 TTTCGTGTTTCT-AAATA
1 TTTCGTGTTT-TAAAAAA
*
6773185 -TTCGTG-TTT-ACAAA
1 TTTCGTGTTTTAAAAAA
*
6773199 TTCTCGTGTTTTCAAAAA
1 TT-TCGTGTTTTAAAAAA
*
6773217 TTCTCGTATTTTAAAAAA
1 TT-TCGTGTTTTAAAAAA
6773235 AAACTTTCGT
Statistics
Matches: 297, Mismatches: 58, Indels: 83
0.68 0.13 0.19
Matches are distributed among these distances:
12 4 0.01
14 5 0.02
15 32 0.11
16 60 0.20
17 57 0.19
18 77 0.26
19 17 0.06
20 10 0.03
21 23 0.08
22 4 0.01
23 8 0.03
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (17 bp):
TTTCGTGTTTTAAAAAA
Found at i:6773013 original size:23 final size:23
Alignment explanation
Indices: 6772969--6773033 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
6772959 CTAGTGTTTC
* * *
6772969 AAAAATTTTCTTGTTTT-CAAAA
1 AAAAATTTCCGTGTTTTAAAAAA
6772991 AAAAATTT-CGTGTTTTAAAAAA
1 AAAAATTTCCGTGTTTTAAAAAA
*
6773013 AAATATTTCCGTGTTTTAAAA
1 AAAAATTTCCGTGTTTTAAAA
6773034 TTTTCGTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.18
22 19 0.50
23 12 0.32
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (23 bp):
AAAAATTTCCGTGTTTTAAAAAA
Found at i:6773041 original size:16 final size:16
Alignment explanation
Indices: 6773012--6773068 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
6773002 GTTTTAAAAA
6773012 AAAATATTTCCGTGTTTT
1 AAAAT-TTT-CGTGTTTT
6773030 AAAATTTTCGTGTTTT
1 AAAATTTTCGTGTTTT
* *
6773046 AAAATTCTCGT-ATTT
1 AAAATTTTCGTGTTTT
6773061 AAAATTTT
1 AAAATTTT
6773069 TTTTAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.28
16 18 0.50
17 3 0.08
18 5 0.14
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (16 bp):
AAAATTTTCGTGTTTT
Found at i:6773082 original size:16 final size:16
Alignment explanation
Indices: 6773061--6773111 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
6773051 TCTCGTATTT
*
6773061 AAAATTTT-TTTTAAGA
1 AAAATTTTGTTTCAA-A
6773077 AAAATTTTGTTTCAAA
1 AAAATTTTGTTTCAAA
*
6773093 AAAATGTCTTGTTTTAAA
1 AAAAT-T-TTGTTTCAAA
6773111 A
1 A
6773112 TTCCCGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.47
17 6 0.20
18 10 0.33
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (16 bp):
AAAATTTTGTTTCAAA
Found at i:6773199 original size:16 final size:15
Alignment explanation
Indices: 6773164--6773219 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
6773154 TTTTTTTCAA
*
6773164 AAATTTTCGTGTTTC
1 AAATATTCGTGTTTC
6773179 TAAATATTCGTGTTTAC
1 -AAATATTCGTGTTT-C
6773196 AAAT-TCTCGTGTTTTC
1 AAATAT-TCGTG-TTTC
*
6773212 AAAAATTC
1 AAATATTC
6773220 TCGTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 1 0.03
16 28 0.82
17 5 0.15
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (15 bp):
AAATATTCGTGTTTC
Found at i:6773244 original size:21 final size:19
Alignment explanation
Indices: 6773212--6773258 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 19
6773202 TCGTGTTTTC
6773212 AAAAATTCTCGTATTTTAAAA
1 AAAAATTCTCG--TTTTAAAA
6773233 AAAAACTT-TCGTTTTAAAA
1 AAAAA-TTCTCGTTTTAAAA
6773252 AAGAAAT
1 AA-AAAT
6773259 ACTGCGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 11 0.46
20 3 0.12
21 8 0.33
22 2 0.08
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (19 bp):
AAAAATTCTCGTTTTAAAA
Found at i:6785249 original size:132 final size:131
Alignment explanation
Indices: 6785058--6785493 Score: 744
Period size: 128 Copynumber: 3.4 Consensus size: 131
6785048 TCTCGATCTT
* *
6785058 ACCAGTATGGGAAGACAAGATCTG-AT-TTGGATCCACTTCCTATCAATATAGGAAGATAGGACC
1 ACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTACCAATATAGGAAGATAGGACC
6785121 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCG
66 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT-CGATCTACTTCG
6785186 CC
130 CC
6785188 ACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTACCAATATAGGAAGATAGGACC
1 ACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTACCAATATAGGAAGATAGGACC
*
6785253 TGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT-TCGATCTACTTCG-
66 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTCGATCTACTTCGC
6785316 C
131 C
*
6785317 ACCAATAT-GGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACC
1 ACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTACCAATATAGGAAGATAGGACC
6785381 TGC-ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT-TGCTTTCTCGATCTACTTCGC
66 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTCGATCTACTTCGC
6785444 C
131 C
* * *
6785445 ACCAATATGGGAA-ACAAGATCTGCATCTTCGATCCACTTCATGCCAATA
1 ACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTACCAATA
6785494 CATGAGACAA
Statistics
Matches: 292, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
126 6 0.02
127 52 0.18
128 98 0.34
129 13 0.04
130 35 0.12
131 3 0.01
132 85 0.29
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (131 bp):
ACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTACCAATATAGGAAGATAGGACC
TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTCGATCTACTTCGC
C
Found at i:6785322 original size:42 final size:42
Alignment explanation
Indices: 6785128--6785513 Score: 282
Period size: 43 Copynumber: 9.0 Consensus size: 42
6785118 ACCTGCTATC
*
6785128 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* *** *
6785170 TCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
1 T-T-CGATCTACTTC-ACACCAATACATGAAGACAAGATCTGC-TT
* * * * * * * *
6785216 TTGGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGTTAT
1 TTCGATCTACTTCAC-ACCAATACATGAAGACAAGATCTGCT-T
*
6785259 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 -TTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* *
6785302 TTCGATCTACTTCGCACCAAT--ATGGAAGACAAGATCTGCATC
1 TTCGATCTACTTCACACCAATACAT-GAAGACAAGATCTGC-TT
* * * * * * * * *
6785344 TTGGATCCACTTC-CTATCAATATAGGAAGATAGGACCTGCATC
1 TTCGATCTACTTCAC-ACCAATACATGAAGACAAGATCTGC-TT
*
6785387 TTCGATCTACTTCACGCCAATACATGAAGACAAGAT-TGCTT
1 TTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* *** *
6785428 TCTCGATCTACTTCGCCACCAATATGGGAA-ACAAGATCTGCATC
1 T-TCGATCTACTTC-ACACCAATACATGAAGACAAGATCTGC-TT
* **
6785472 TTCGATCCACTTCATGCCAATACATG-AGACAAGATCTGCTT
1 TTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
6785513 T
1 T
6785514 AATGACTTCA
Statistics
Matches: 268, Mismatches: 57, Indels: 39
0.74 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 21 0.08
42 79 0.29
43 86 0.32
44 54 0.20
45 24 0.09
46 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
TTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
Found at i:6785512 original size:85 final size:87
Alignment explanation
Indices: 6785087--6785513 Score: 424
Period size: 85 Copynumber: 5.0 Consensus size: 87
6785077 ATCTGATTTG
* * * * * *
6785087 GATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACA
1 GATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACGCCAATACA
*
6785152 TGAAGACAAGATCTGCTTTCTGC
65 TGAAGACAAGATCTGCTTTCTTC
* * * * *
6785175 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTC-CTACCAATAT
1 GATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCAC-GCCAATAC
* * * *
6785239 AGGAAGATAGGACCTG-TTATCTTC
64 ATGAAGACAAGATCTGCTT-TCTTC
* * * * * * *
6785263 GATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TTTTCGATCTACTTCGCACCAAT--AT
1 GATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACAT
* *
6785325 GGAAGACAAGATCTGC-ATCTTG
66 -GAAGACAAGATCTGCTTTCTTC
* * * * * *
6785347 GATCCACTTCCTATCAATATAGGAAGATAGGACCTGCATCTTCGATCTACTTCACGCCAATACAT
1 GATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACAT
6785412 GAAGACAAGAT-TGCTTTC-TC
66 GAAGACAAGATCTGCTTTCTTC
* * *
6785432 GATCTACTTCGCCACCAATATGGGAA-ACAAGATCTGCATCTTCGATCCACTTCATGCCAATACA
1 GATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACA
6785496 TG-AGACAAGATCTGCTTT
65 TGAAGACAAGATCTGCTTT
6785514 AATGACTTCA
Statistics
Matches: 273, Mismatches: 54, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
84 41 0.15
85 85 0.31
86 43 0.16
87 28 0.10
88 55 0.20
89 21 0.08
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (87 bp):
GATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTC
Found at i:6796700 original size:107 final size:107
Alignment explanation
Indices: 6796410--6796818 Score: 594
Period size: 107 Copynumber: 3.9 Consensus size: 107
6796400 AAGTTAATAA
* * * * * *
6796410 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGA-CCAGCACATTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* * * * * **
6796474 TTCCGAACAC-AAATATTGCCTCACTTCGAAAGTTT-AAAAG
66 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
* * *
6796514 GATATTTGGCTATTTGGTCAAACAAGAAGTCGAAACCCA-CACGTTAGGGTACG-TTTCTTCGAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTC-TCGAT
6796577 TTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
65 TTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
6796620 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
6796685 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAA
66 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
* *
6796727 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGTACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
6796792 TTCCAAACGCGAAATATTGCCTTATTT
66 TTCCAAACGCGAAATATTACCTTATTT
6796819 AGAAAAACCT
Statistics
Matches: 276, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
103 3 0.01
104 55 0.20
105 23 0.08
106 42 0.15
107 149 0.54
108 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
Found at i:6808655 original size:31 final size:32
Alignment explanation
Indices: 6808617--6808676 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
6808607 GACCCTATAT
6808617 TATTATA-TTCATAGAATTTAAATTCAAGATA
1 TATTATATTTCATAGAATTTAAATTCAAGATA
6808648 TATTATATTTCATAGAATTTAAATTCAAG
1 TATTATATTTCATAGAATTTAAATTCAAG
6808677 TATCTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (32 bp):
TATTATATTTCATAGAATTTAAATTCAAGATA
Found at i:6812364 original size:127 final size:127
Alignment explanation
Indices: 6812185--6812413 Score: 386
Period size: 127 Copynumber: 1.8 Consensus size: 127
6812175 AGCTATTGTA
* * **
6812185 AGGTCACGTGTGTAGTTCTAAGTGTAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
*
6812250 ACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAGTATCAGATGGTT
*
6812312 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
* *
6812377 ACTTAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCG
6812414 GCTACAAGTG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 94 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (127 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAGTATCAGATGGTT
Found at i:6813863 original size:22 final size:23
Alignment explanation
Indices: 6813838--6813883 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6813828 CAACCGAACC
6813838 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
6813860 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
6813883 A
1 A
6813884 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:6813889 original size:23 final size:23
Alignment explanation
Indices: 6813845--6813889 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6813835 ACCAATTCAA
*
6813845 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
6813868 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
6813890 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:6819991 original size:24 final size:24
Alignment explanation
Indices: 6819962--6820008 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
6819952 GTCGACCGTC
6819962 GACCGTCGGCCGCCGTCCGTCGCT
1 GACCGTCGGCCGCCGTCCGTCGCT
6819986 GACCGTCGGCCGCCGTCCGTCGC
1 GACCGTCGGCCGCCGTCCGTCGC
6820009 CGACGCCGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.47, G:0.34, T:0.15
Consensus pattern (24 bp):
GACCGTCGGCCGCCGTCCGTCGCT
Found at i:6822666 original size:23 final size:25
Alignment explanation
Indices: 6822624--6822683 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
6822614 ATAATAATAC
6822624 TAATATAATAAATGTAATAGTGAT-AA
1 TAATATAATAAATG-AATAGT-ATGAA
6822650 TAATATAAT-AATG-ATAGTATGAA
1 TAATATAATAAATGAATAGTATGAA
6822673 TAATAT-ATAAA
1 TAATATAATAAA
6822684 AAAAATAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 4 0.12
23 15 0.47
25 4 0.12
26 9 0.28
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (25 bp):
TAATATAATAAATGAATAGTATGAA
Found at i:6822675 original size:26 final size:27
Alignment explanation
Indices: 6822619--6822682 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
6822609 TAGCAATAAT
*
6822619 AATACTAATATAATAAATGTAATAGTG
1 AATAATAATATAATAAATGTAATAGTG
*
6822646 -ATAATAATATAAT-AATGATAGTA-TG
1 AATAATAATATAATAAATG-TAATAGTG
6822671 AATAAT-ATATAA
1 AATAATAATATAA
6822683 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (27 bp):
AATAATAATATAATAAATGTAATAGTG
Found at i:6822811 original size:3 final size:3
Alignment explanation
Indices: 6822803--6822854 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
6822793 ATACACTAAC
* * ** *
6822803 ATA ATA ATA ATT ATA ATA ATA CTA GCA ATA ATA ATA ATTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
6822849 ATA ATA
1 ATA ATA
6822855 TATACACAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6822850 original size:16 final size:16
Alignment explanation
Indices: 6822815--6822854 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
6822805 AATAATAATT
6822815 ATAATAAT-ACTAGCA
1 ATAATAATAACTAGCA
* *
6822830 ATAATAATAATTAGTA
1 ATAATAATAACTAGCA
6822846 ATAATAATA
1 ATAATAATA
6822855 TATACACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
ATAATAATAACTAGCA
Found at i:6823008 original size:23 final size:23
Alignment explanation
Indices: 6822889--6823026 Score: 92
Period size: 23 Copynumber: 6.0 Consensus size: 23
6822879 AAATAAAAAT
* *
6822889 AAAATATATATATAATAGTATTTA
1 AAAATATATACATAATA-TATATA
* *
6822913 AGAATATATACATAAGATGATAT-
1 AAAATATATACATAATAT-ATATA
*
6822936 AAAATACATACATGGAATA-ATATA
1 AAAATATATACAT--AATATATATA
**
6822960 AGAAATATATA-ACTAATGGCAT-TA
1 A-AAATATATACA-TAAT-ATATATA
6822984 AAAATATATACATAATATATAT-
1 AAAATATATACATAATATATATA
*
6823006 AAAATACAT--ATAATATATATA
1 AAAATATATACATAATATATATA
6823027 CATATTAGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
20 11 0.12
22 10 0.11
23 33 0.36
24 23 0.25
25 14 0.15
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (23 bp):
AAAATATATACATAATATATATA
Found at i:6824988 original size:16 final size:15
Alignment explanation
Indices: 6824967--6824996 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
6824957 ATAATTTAAA
6824967 AAATAATAATAAAAAT
1 AAATAAT-ATAAAAAT
6824983 AAATAATATAAAAA
1 AAATAATATAAAAA
6824997 AGAAATAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAATATAAAAAT
Found at i:6824997 original size:16 final size:16
Alignment explanation
Indices: 6824967--6825009 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6824957 ATAATTTAAA
*
6824967 AAATAATAATAAAAAT
1 AAATAATAATAAAAAG
6824983 AAATAAT-ATAAAAAAG
1 AAATAATAAT-AAAAAG
*
6824999 AAATAAGAATA
1 AAATAATAATA
6825010 TCATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAATAATAATAAAAAG
Found at i:6829743 original size:10 final size:9
Alignment explanation
Indices: 6829728--6829860 Score: 53
Period size: 10 Copynumber: 14.7 Consensus size: 9
6829718 ATCTAAAATA
6829728 AAAAATTAT
1 AAAAATTAT
6829737 CAAAAA-TAT
1 -AAAAATTAT
*
6829746 AAAAATGATT
1 AAAAATTA-T
*
6829756 AAATATT-T
1 AAAAATTAT
*
6829764 AAAAA-GAT
1 AAAAATTAT
*
6829772 GAAAATTGAT
1 AAAAATT-AT
**
6829782 ATCAATTAT
1 AAAAATTAT
*
6829791 -AAATTTAT
1 AAAAATTAT
*
6829799 AAAAAATAT
1 AAAAATTAT
* *
6829808 AAAAGAATCT
1 AAAA-ATTAT
6829818 AATAAATTAT
1 AA-AAATTAT
*
6829828 AAAAA-AAT
1 AAAAATTAT
*
6829836 ATAAATTAAT
1 AAAAATT-AT
6829846 AAAACA-TAT
1 AAAA-ATTAT
6829855 AAAAAT
1 AAAAAT
6829861 AAAATTATAA
Statistics
Matches: 89, Mismatches: 22, Indels: 25
0.65 0.16 0.18
Matches are distributed among these distances:
8 27 0.30
9 25 0.28
10 34 0.38
11 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6829751 original size:8 final size:8
Alignment explanation
Indices: 6829722--6829904 Score: 50
Period size: 8 Copynumber: 21.5 Consensus size: 8
6829712 GATAAAATCT
6829722 AAAATA-A
1 AAAATATA
6829729 AAAATTATCA
1 AAAA-TAT-A
6829739 AAAATATA
1 AAAATATA
6829747 AAAATGATTA
1 AAAAT-A-TA
* *
6829757 AATATTTA
1 AAAATATA
*
6829765 AAAAGATGA
1 AAAATAT-A
*
6829774 AAATTGATA
1 AAAAT-ATA
* *
6829783 TCAATTATA
1 -AAAATATA
**
6829792 AATTTATAA
1 AAAATAT-A
6829801 AAAATATAA
1 AAAATAT-A
*
6829810 AAGAATCTA
1 AA-AATATA
6829819 ATAAATTATA
1 A-AAA-TATA
*
6829829 AAAAAATA
1 AAAATATA
*
6829837 TAAATTAATA
1 -AAAAT-ATA
6829847 AAACATAT-
1 AAA-ATATA
6829855 AAAA-ATA
1 AAAATATA
*
6829862 AAATTATA
1 AAAATATA
*
6829870 AAAA-AAA
1 AAAATATA
* *
6829877 AAAAAAAA
1 AAAATATA
* *
6829885 AAAAAAAA
1 AAAATATA
6829893 AAAATATA
1 AAAATATA
6829901 AAAA
1 AAAA
6829905 AAAAATAAAA
Statistics
Matches: 135, Mismatches: 23, Indels: 35
0.70 0.12 0.18
Matches are distributed among these distances:
6 2 0.01
7 14 0.10
8 52 0.39
9 37 0.27
10 30 0.22
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (8 bp):
AAAATATA
Found at i:6829849 original size:15 final size:14
Alignment explanation
Indices: 6829830--6829915 Score: 69
Period size: 14 Copynumber: 6.4 Consensus size: 14
6829820 TAAATTATAA
6829830 AAAAATATAAATTAAT
1 AAAAATATAAA--AAT
6829846 AAAACATATAAAAAT
1 AAAA-ATATAAAAAT
*
6829861 AAAATTATAAAAA-
1 AAAAATATAAAAAT
6829874 AAAAA-A-AAAAA-
1 AAAAATATAAAAAT
*
6829885 AAAAA-AAAAAAAT
1 AAAAATATAAAAAT
6829898 ATAAAA-A-AAAAAT
1 A-AAAATATAAAAAT
6829911 AAAAA
1 AAAAA
6829916 AAAAACGATA
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
11 11 0.17
12 10 0.16
13 12 0.19
14 13 0.20
15 7 0.11
16 4 0.06
17 7 0.11
ACGTcount: A:0.83, C:0.01, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATATAAAAAT
Found at i:6829871 original size:14 final size:13
Alignment explanation
Indices: 6829821--6829919 Score: 58
Period size: 10 Copynumber: 8.2 Consensus size: 13
6829811 AGAATCTAAT
6829821 AAATTATAAAAAA
1 AAATTATAAAAAA
* * *
6829834 ATATAAATTAATAAA
1 AAAT-TA-TAAAAAA
*
6829849 ACA-TATAAAAATA
1 AAATTATAAAAA-A
6829862 AAATTAT-AAAAA
1 AAATTATAAAAAA
6829874 AAA--A-AAAAAA
1 AAATTATAAAAAA
6829884 AAA--A-AAAAAA
1 AAATTATAAAAAA
6829894 AAA-TATAAAAAA
1 AAATTATAAAAAA
6829906 AAA--ATAAAAAA
1 AAATTATAAAAAA
6829917 AAA
1 AAA
6829920 ACGATAGTTG
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
10 19 0.26
11 12 0.17
12 18 0.25
13 11 0.15
14 4 0.06
15 8 0.11
ACGTcount: A:0.82, C:0.01, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATTATAAAAAA
Found at i:6829873 original size:1 final size:1
Alignment explanation
Indices: 6829869--6829920 Score: 77
Period size: 1 Copynumber: 52.0 Consensus size: 1
6829859 ATAAAATTAT
* * *
6829869 AAAAAAAAAAAAAAAAAAAAAAAAAAAATATAAAAAAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6829921 CGATAGTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.94, C:0.00, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:6829920 original size:13 final size:13
Alignment explanation
Indices: 6829855--6829920 Score: 82
Period size: 13 Copynumber: 5.2 Consensus size: 13
6829845 TAAAACATAT
**
6829855 AAAAATAAAATTA
1 AAAAATAAAAAAA
*
6829868 TAAAA-AAAAAAA
1 AAAAATAAAAAAA
6829880 AAAAA-AAAAAAA
1 AAAAATAAAAAAA
*
6829892 AAAAATATAAAAA
1 AAAAATAAAAAAA
6829905 AAAAATAAAAAAA
1 AAAAATAAAAAAA
6829918 AAA
1 AAA
6829921 CGATAGTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
12 21 0.46
13 25 0.54
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (13 bp):
AAAAATAAAAAAA
Found at i:6830375 original size:9 final size:9
Alignment explanation
Indices: 6830341--6830456 Score: 66
Period size: 8 Copynumber: 12.7 Consensus size: 9
6830331 ATTCTAACAC
6830341 ATTTT-TTA
1 ATTTTATTA
*
6830349 ATTTTAAATA
1 ATTTT-ATTA
6830359 AGTTTTATTA
1 A-TTTTATTA
6830369 ATTTTA-TA
1 ATTTTATTA
*
6830377 AATTT-TTA
1 ATTTTATTA
6830385 ATTTT-TT-
1 ATTTTATTA
*
6830392 ATTTTTTATA
1 ATTTTAT-TA
6830402 ATATTTA-TA
1 AT-TTTATTA
6830411 AGTTTTATATA
1 A-TTTTAT-TA
6830422 TATTTTA-TA
1 -ATTTTATTA
*
6830431 ATTTTAATA
1 ATTTTATTA
6830440 AGTTTATATTA
1 A-TTT-TATTA
6830451 ATTTTA
1 ATTTTA
6830457 ATATTTTTAA
Statistics
Matches: 87, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
7 5 0.06
8 26 0.30
9 20 0.23
10 16 0.18
11 19 0.22
12 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
ATTTTATTA
Found at i:6830421 original size:20 final size:20
Alignment explanation
Indices: 6830369--6830440 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
6830359 AGTTTTATTA
*
6830369 ATTTTATAAATTT-T-TAAT
1 ATTTTATAATTTTATATAAT
*
6830387 -TTTT-T-ATTTTTTATAAT
1 ATTTTATAATTTTATATAAT
6830404 A-TTTATAAGTTTTATAT-AT
1 ATTTTATAA-TTTTATATAAT
6830423 ATTTTATAATTTTA-ATAA
1 ATTTTATAATTTTATATAA
6830441 GTTTATATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
15 4 0.09
16 2 0.05
17 11 0.25
18 3 0.07
19 10 0.23
20 14 0.32
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (20 bp):
ATTTTATAATTTTATATAAT
Found at i:6830464 original size:9 final size:9
Alignment explanation
Indices: 6830369--6830520 Score: 56
Period size: 9 Copynumber: 17.0 Consensus size: 9
6830359 AGTTTTATTA
6830369 ATTTTATAA-
1 ATTTT-TAAT
6830378 ATTTTTAAT
1 ATTTTTAAT
6830387 -TTTTT-AT
1 ATTTTTAAT
*
6830394 TTTTTATAAT
1 ATTTT-TAAT
*
6830404 ATTTAT-A-
1 ATTTTTAAT
*
6830411 AGTTTTATAT
1 ATTTTTA-AT
6830421 ATATTTT-AT
1 AT-TTTTAAT
*
6830430 AATTTTAAT
1 ATTTTTAAT
* *
6830439 AAGTTTATATT
1 -A-TTTTTAAT
*
6830450 AATTTTAAT
1 ATTTTTAAT
6830459 ATTTTTAAT
1 ATTTTTAAT
6830468 A--TTTAAT
1 ATTTTTAAT
6830475 ATTATTTTAAT
1 A-T-TTTTAAT
*
6830486 ATTTTT-TT
1 ATTTTTAAT
*
6830494 ATTTCTT-CT
1 ATTT-TTAAT
6830503 AATTTTT-AT
1 -ATTTTTAAT
6830512 ATTTTTAAT
1 ATTTTTAAT
6830521 CGAAAAATAG
Statistics
Matches: 109, Mismatches: 16, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
7 13 0.12
8 28 0.26
9 39 0.36
10 13 0.12
11 16 0.15
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:6830465 original size:20 final size:21
Alignment explanation
Indices: 6830429--6830470 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6830419 ATATATTTTA
6830429 TAATTTTAATAAGTTT-ATAT
1 TAATTTTAATAAGTTTAATAT
**
6830449 TAATTTTAATATTTTTAATAT
1 TAATTTTAATAAGTTTAATAT
6830470 T
1 T
6830471 TAATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATTTTAATAAGTTTAATAT
Found at i:6830481 original size:27 final size:25
Alignment explanation
Indices: 6830364--6830491 Score: 105
Period size: 27 Copynumber: 4.7 Consensus size: 25
6830354 AAATAAGTTT
* *
6830364 TATTAATTTTATAAATTTTTAATTTTT
1 TATT-ATTTTA-ATATTTTTAATTTTA
* *
6830391 TATTTTTTATAATATTTATAAGTTTTA
1 TATTATTT-TAATATTTTTAA-TTTTA
*
6830418 TATATATTTT-ATAATTTTAATAAGTTTA
1 TAT-TATTTTAAT-ATTTT--TAATTTTA
6830446 TATTAATTTTAATATTTTTAATATTTAA
1 TATT-ATTTTAATATTTTTAAT-TTT-A
6830474 TATTATTTTAATATTTTT
1 TATTATTTTAATATTTTT
6830492 TTATTTCTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
26 16 0.19
27 36 0.43
28 26 0.31
29 5 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTATTTTAATATTTTTAATTTTA
Found at i:6830484 original size:18 final size:18
Alignment explanation
Indices: 6830443--6830489 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
6830433 TTTAATAAGT
*
6830443 TTATATTAAT-TTTAATA
1 TTATTTTAATATTTAATA
6830460 -T-TTTTAATATTTAATA
1 TTATTTTAATATTTAATA
6830476 TTATTTTAATATTT
1 TTATTTTAATATTT
6830490 TTTTATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 1 0.04
18 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTTTAATATTTAATA
Found at i:6830492 original size:28 final size:29
Alignment explanation
Indices: 6830349--6830491 Score: 105
Period size: 29 Copynumber: 5.2 Consensus size: 29
6830339 ACATTTTTTA
* *
6830349 ATTTTAAATAAGTTT-TATTAATTTTATAA
1 ATTTTTAATAAGTTTATATTAATTTTA-AT
*
6830378 ATTTTTAAT---TTTTTATT--TTTT-AT
1 ATTTTTAATAAGTTTATATTAATTTTAAT
*
6830401 AATATTT-ATAAGTTT-TATATATATTTT-AT
1 -ATTTTTAATAAGTTTATAT-TA-ATTTTAAT
*
6830430 AATTTTAATAAGTTTATATTAATTTTAAT
1 ATTTTTAATAAGTTTATATTAATTTTAAT
6830459 ATTTTTAAT-A-TTTAATATT-ATTTTAAT
1 ATTTTTAATAAGTTT-ATATTAATTTTAAT
6830486 ATTTTT
1 ATTTTT
6830492 TTATTTCTTC
Statistics
Matches: 95, Mismatches: 6, Indels: 28
0.74 0.05 0.22
Matches are distributed among these distances:
23 3 0.03
24 5 0.05
25 7 0.07
26 7 0.07
27 21 0.22
28 15 0.16
29 34 0.36
30 3 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTTTTAATAAGTTTATATTAATTTTAAT
Found at i:6830512 original size:82 final size:80
Alignment explanation
Indices: 6830341--6830489 Score: 205
Period size: 82 Copynumber: 1.8 Consensus size: 80
6830331 ATTCTAACAC
* *
6830341 ATTTTT-TAATTTTAAATAAGTTTTATTAATTTTATAAATTTTTAATTTTTTATTTTTTATAATA
1 ATTTTTATAATTTT-AATAAGTTTTATTAATTTTATAAATTTTTAATTTTATATTATTTATAATA
6830405 TTTATAAGTTTTATAT
65 TTTATAAGTTTTATAT
*
6830421 ATATTTTATAATTTTAATAAGTTTATATTAATTTTA-ATATTTTTAATATTTAATATTATTT-TA
1 AT-TTTTATAATTTTAATAAGTTT-TATTAATTTTATAAATTTTTAAT-TTT-ATATTATTTATA
6830484 ATATTT
62 ATATTT
6830490 TTTTATTTCT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
80 2 0.03
81 23 0.38
82 29 0.48
83 7 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (80 bp):
ATTTTTATAATTTTAATAAGTTTTATTAATTTTATAAATTTTTAATTTTATATTATTTATAATAT
TTATAAGTTTTATAT
Found at i:6830518 original size:82 final size:80
Alignment explanation
Indices: 6830343--6830520 Score: 193
Period size: 82 Copynumber: 2.2 Consensus size: 80
6830333 TCTAACACAT
* * *
6830343 TTTTTA-ATTTTAAATAAGTTTTATTAATTTTATAAATTTTTAATTTTTTATTTTTTATAATATT
1 TTTTTATATTTTTAATAAGTTTTATTAATTTTATAAATTTTTAATTTTATATTATTTATAATATT
6830407 TATAAGTTTTATATA
66 TATAAGTTTTATATA
* *
6830422 TATTTTATAATTTTAATAAGTTTATATTAATTTTA-ATATTTTTAATATTTAATATTATTT-TAA
1 T-TTTTATATTTTTAATAAGTTT-TATTAATTTTATAAATTTTTAAT-TTT-ATATTATTTATAA
* * * *
6830485 TATTTTTTTATTTCTTCTA-A
62 TA-TTTATAAGTT-TTATATA
6830505 TTTTTATATTTTTAAT
1 TTTTTATATTTTTAAT
6830521 CGAAAAATAG
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
79 1 0.01
80 5 0.06
81 23 0.28
82 33 0.40
83 16 0.20
84 4 0.05
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (80 bp):
TTTTTATATTTTTAATAAGTTTTATTAATTTTATAAATTTTTAATTTTATATTATTTATAATATT
TATAAGTTTTATATA
Found at i:6835166 original size:44 final size:44
Alignment explanation
Indices: 6835118--6835212 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
6835108 ATCCTCGATC
*
6835118 AGCTCCACTGTAACTTCAGGAGGCAAAATCTGACATCTTCAATT
1 AGCTCCACTGTAACTTCAGGAGACAAAATCTGACATCTTCAATT
6835162 AGCTCCACTGTAACTTCAGGAGACAAAATCTGACATCTTCAATT
1 AGCTCCACTGTAACTTCAGGAGACAAAATCTGACATCTTCAATT
6835206 AGCTCCA
1 AGCTCCA
6835213 ATCTTTATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (44 bp):
AGCTCCACTGTAACTTCAGGAGACAAAATCTGACATCTTCAATT
Found at i:6835370 original size:54 final size:54
Alignment explanation
Indices: 6835247--6835453 Score: 226
Period size: 56 Copynumber: 3.9 Consensus size: 54
6835237 GATCTTGAGT
** * *
6835247 TCAACTCGTCTCTCGCAATATGAATTGATTTTTGAAAAA-A-ACA--AAAAGG-
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
* * * *
6835296 TATAACTCAACTCTCACAATATGAGTTGCTTTTTGAAAAACAGAAATTAAAAGGC
1 T-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
* * * *
6835351 TCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAGGC
* *
6835407 TCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAAAACAGGAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
6835454 GGAAAGTAGA
Statistics
Matches: 130, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 32 0.25
51 1 0.01
52 2 0.02
54 44 0.34
55 1 0.01
56 49 0.38
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
Found at i:6835581 original size:88 final size:87
Alignment explanation
Indices: 6835403--6835613 Score: 273
Period size: 88 Copynumber: 2.4 Consensus size: 87
6835393 ATAAATTGAA
* * **
6835403 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAAAACAGGAATTGGAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACAGGAATTGGAAAACAGAAATT
* *
6835468 GAAAGTACCTCAGCGTGCCCCG
66 GAAAATACCTCAGCGTGACCCG
* *
6835490 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACA-TAATAAT-GAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTCAAAAACAGGAAT--TGGAAAACAGAA
** *
6835553 ATTGAAAATACCTTGGCGTGACCTG
63 ATTGAAAATACCTCAGCGTGACCCG
*
6835578 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
6835614 GAAAAAGTAC
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 37 0.34
88 70 0.65
89 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACAGGAATTGGAAAACAGAAATT
GAAAATACCTCAGCGTGACCCG
Found at i:6835706 original size:54 final size:55
Alignment explanation
Indices: 6835578--6835718 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 55
6835568 GCGTGACCTG
*
6835578 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTACAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTACAAAATTAAA
* * * *
6835633 AGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-TA-TAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAGTACAAAATTAAA
6835687 AGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA
6835719 AATTAAAACA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.47
55 31 0.40
56 10 0.13
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTACAAAATTAAA
Found at i:6835908 original size:121 final size:125
Alignment explanation
Indices: 6835637--6835932 Score: 431
Period size: 121 Copynumber: 2.4 Consensus size: 125
6835627 ATTAAAAGGT
* * * *
6835637 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCT
* *
6835702 CTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
65 CTCACAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAGCGTGCCCCGAGGC
* *
6835763 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTC
* * * *
6835828 TCACAATATGAG-T-CAATTTAAA-ACATAAACT-AAAATACCTCGGCGTGCCCCGAGGC
66 TCACAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAGCGTGCCCCGAGGC
*
6835884 TCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
6835933 ATACCTCAAC
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
120 16 0.10
121 55 0.35
122 7 0.04
123 7 0.04
124 1 0.01
125 44 0.28
126 26 0.17
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (125 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTC
TCACAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCTCAGCGTGCCCCGAGGC
Found at i:6835956 original size:71 final size:69
Alignment explanation
Indices: 6835812--6835986 Score: 201
Period size: 71 Copynumber: 2.5 Consensus size: 69
6835802 AAAAATTAAA
* * * * * * **
6835812 AGGCTTAACTCACCTCTCACAATATGAG-TCAATTTAAAACATAAACTAAAATACCTCGGCGTGC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAATACCTCAACGTGC
6835876 CCCG
66 CCCG
*
6835880 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACT-AAAATACCTCAACGT
* **
6835945 GTCTTG
64 GCCCCG
6835951 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
6835987 CCTTGGAAAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 25 0.27
69 5 0.05
70 11 0.12
71 50 0.55
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (69 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAATACCTCAACGTGC
CCCG
Found at i:6839416 original size:39 final size:38
Alignment explanation
Indices: 6839347--6839481 Score: 94
Period size: 39 Copynumber: 3.4 Consensus size: 38
6839337 ACCAATATGG
* * * *
6839347 CACCCAGTGCCTCATCGGATAGTTCAAAGTAATAGTTGA
1 CACCCAGTACCTCATCGGCTAG-CCGAAGTAATAGTTGA
** *
6839386 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTACCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * *
6839424 TACCCAGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTACCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
6839465 CACCCAGTATCTCATCG
1 CACCCAGTACCTCATCG
6839482 ACTCGAGGTC
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 17 0.22
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (38 bp):
CACCCAGTACCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:6840048 original size:5 final size:5
Alignment explanation
Indices: 6840030--6840065 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
6840020 TTTCTTTTAT
6840030 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
6840066 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:6854100 original size:32 final size:33
Alignment explanation
Indices: 6854064--6854126 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
6854054 TCCTGCCCTG
*
6854064 TTCTTTAT-TTTCTTTT-TCTTTTTTTTTATTTA
1 TTCTTT-TGTTTCTTTTATCTTTTATTTTATTTA
*
6854096 TTCTTTTGTTTCTTTTATGTTTTATTTTATT
1 TTCTTTTGTTTCTTTTATCTTTTATTTTATT
6854127 ATTTATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 1 0.04
32 14 0.52
33 12 0.44
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (33 bp):
TTCTTTTGTTTCTTTTATCTTTTATTTTATTTA
Found at i:6854146 original size:8 final size:8
Alignment explanation
Indices: 6854135--6854168 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
6854125 TTATTTATAT
6854135 TATAATAA
1 TATAATAA
6854143 TATAATAA
1 TATAATAA
*
6854151 TATATTAA
1 TATAATAA
*
6854159 CATAATAA
1 TATAATAA
6854167 TA
1 TA
6854169 ATTCTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAATAA
Found at i:6857869 original size:30 final size:30
Alignment explanation
Indices: 6857833--6857890 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
6857823 ATAACAAATT
6857833 TTAATTTTAATCC-TTAAAAATATAAAAAAA
1 TTAA-TTTAATCCTTTAAAAATATAAAAAAA
6857863 TTAATTTAATCCTTTAAAAATATAAAAA
1 TTAATTTAATCCTTTAAAAATATAAAAA
6857891 TGTAGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (30 bp):
TTAATTTAATCCTTTAAAAATATAAAAAAA
Found at i:6858629 original size:27 final size:27
Alignment explanation
Indices: 6858591--6858643 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
6858581 TAAAATAGGG
6858591 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
6858618 GTGGAGGGTACCCCACAGGCGGCACC
1 GTGGAGGGTACCCCACAGGCGGCACC
6858644 GGTCTCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.34, G:0.38, T:0.08
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:6858678 original size:21 final size:21
Alignment explanation
Indices: 6858654--6858700 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
6858644 GGTCTCTCCT
6858654 CTGCACCGACGGGACTCCGCA
1 CTGCACCGACGGGACTCCGCA
* *
6858675 CTGCCACGGACGGGACTCCTCA
1 CTG-CACCGACGGGACTCCGCA
6858697 CTGC
1 CTGC
6858701 CATTGCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.17, C:0.43, G:0.28, T:0.13
Consensus pattern (21 bp):
CTGCACCGACGGGACTCCGCA
Found at i:6858686 original size:22 final size:22
Alignment explanation
Indices: 6858661--6858702 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6858651 CCTCTGCACC
6858661 GACGGGACTCCGCACTGCCACG
1 GACGGGACTCCGCACTGCCACG
*
6858683 GACGGGACTCCTCACTGCCA
1 GACGGGACTCCGCACTGCCA
6858703 TTGCTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (22 bp):
GACGGGACTCCGCACTGCCACG
Found at i:6858794 original size:6 final size:6
Alignment explanation
Indices: 6858785--6858848 Score: 53
Period size: 6 Copynumber: 11.2 Consensus size: 6
6858775 AAGAAAGGGG
* * * *
6858785 GAAGGA GAA-GA GAAAGA GAA-GA GAA-GA GAAGAA GAAGAA GAAGAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* *
6858830 GAAGAA GAAGGA GGAGGA G
1 GAAGGA GAAGGA GAAGGA G
6858849 GCAGCATTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
5 15 0.28
6 38 0.72
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:6858810 original size:16 final size:16
Alignment explanation
Indices: 6858789--6858839 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
6858779 AAGGGGGAAG
6858789 GAGAAGAGAA-AGAGAA
1 GAGAAGAGAAGA-AGAA
6858805 GAGAAGAGAAGAAGAA
1 GAGAAGAGAAGAAGAA
6858821 GAAGAAGAAGAAGAAGAA
1 G-AGAAG-AGAAGAAGAA
6858839 G
1 G
6858840 GAGGAGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.47
17 6 0.19
18 11 0.34
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (16 bp):
GAGAAGAGAAGAAGAA
Found at i:6858819 original size:3 final size:3
Alignment explanation
Indices: 6858801--6858839 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6858791 GAAGAGAAAG
6858801 AGA AG- AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
6858840 GAGGAGGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6858880 original size:6 final size:6
Alignment explanation
Indices: 6858869--6858941 Score: 67
Period size: 6 Copynumber: 12.0 Consensus size: 6
6858859 TGAGGGAAGA
* * * *
6858869 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG AGAAGGAG AAGAAG AAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AA-AAG AAAAAG AAAAAG
* *
6858919 AGAAAG AGAAAG AAAAA- AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG
6858942 GTAATATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 5 0.09
6 45 0.80
7 3 0.05
8 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6859515 original size:142 final size:140
Alignment explanation
Indices: 6859360--6860196 Score: 1168
Period size: 141 Copynumber: 5.9 Consensus size: 140
6859350 TATATTTTAA
* * *
6859360 AAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAATATA
1 AAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGA-GATTTTTACTAAATTAATATAAAAAAA
* *
6859425 CTAAAATAATATATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGTA
65 CTAAAAT-A-ATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATA
**
6859489 TATTTTGGAAAAT
128 TATTTTAAAAAAT
* *
6859502 AAAATCCGAAAATAAAATAAAAACAAACGGCTAAAATCAGAAATTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAAT--AAA-AAA-GGCCAAAATCAGAGATTTTTACTAAATTAATATAAAA
*
6859567 AAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
62 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
*
6859632 ATATATTTT--TAAA-
125 ATATATTTTAAAAAAT
* *
6859645 AAAATCTGAAAATAAAATAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAAAAAC
1 AAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAAC
* * *
6859709 AAAAATAATACATGGAACATTATGTACTAAAATAATATAAAAAAACAAAATACGAAAATAATATA
66 TAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAATATA
*
6859774 TCTTAAAAAAT
130 TTTTAAAAAAT
* * * * *
6859785 AAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATTAATATAAAAAAA
1 AAAATCCGAAAAT-AAAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAA
* * *
6859850 CAAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAATAAA
65 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATA
6859915 TTTTAAAAAAT
130 TTTTAAAAAAT
* *
6859926 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCGAAAAT-AAAATAAAAAAGGCCAAAATCAGAG-ATTTTTACTAAATTAATATAAAAAA
*
6859991 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAATAG
64 ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAA
6860056 TATATTTTAAAAAAT
126 TATATTTTAAAAAAT
* *
6860071 AAAATCCGAAAACAAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAAA
1 AAAATCCGAAAATAAAAT-AA-AAAA-GGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAA
6860135 AACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAATAAAAT-CTGAAAATAA
63 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATAC-GAAAATAA
6860197 AAAATAAAAA
Statistics
Matches: 632, Mismatches: 42, Indels: 43
0.88 0.06 0.06
Matches are distributed among these distances:
136 25 0.04
137 28 0.04
138 18 0.03
139 33 0.05
140 15 0.02
141 126 0.20
142 103 0.16
143 47 0.07
144 42 0.07
145 120 0.19
146 62 0.10
147 13 0.02
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.26
Consensus pattern (140 bp):
AAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAAC
TAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATAT
TTTAAAAAAT
Found at i:6859576 original size:145 final size:142
Alignment explanation
Indices: 6859360--6860196 Score: 1153
Period size: 145 Copynumber: 5.9 Consensus size: 142
6859350 TATATTTTAA
* *
6859360 AAAATCCGAAAATAAAAT--AAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAATAAAAAAAAGGCCAAAATCAGA-GATTTTTACTAAATTAATATAAAAA
* * *
6859423 TACTAAAATAATATATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAG
65 AACTAAAAT-A-ATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAA
**
6859487 TATATTTTGGAAAAT
128 TATATTTTAAAAAAT
* *
6859502 AAAATCCGAAAATAAAATAAAAACAAACGGCTAAAATCAGAAATTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAATAAAAA-AAA-GGCCAAAATCAGAGATTTTTACTAAATTAATATAAAA
*
6859567 AAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
64 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
*
6859632 ATATATTTT--TAAA-
127 ATATATTTTAAAAAAT
* *
6859645 AAAATCTGAAAATAAAAT--AAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAAAA
1 AAAATCCGAAAATAAAATAAAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
* * *
6859707 ACAAAAATAATACATGGAACATTATGTACTAAAATAATATAAAAAAACAAAATACGAAAATAATA
66 ACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAATA
*
6859772 TATCTTAAAAAAT
130 TATTTTAAAAAAT
* * * * * *
6859785 AAAATCCAAAAATAAAA-ATAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAATAAAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
* * *
6859849 ACAAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAATAA
66 ACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATAT
6859914 ATTTTAAAAAAT
131 ATTTTAAAAAAT
* * *
6859926 AAAATCCGAAAATAAAA-ATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATAAAAAAAAGGCCAAAATCAGAG-ATTTTTACTAAATTAATATAAAAA
6859990 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAATA
65 AACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATA
*
6860055 GTATATTTTAAAAAAT
127 ATATATTTTAAAAAAT
* * *
6860071 AAAATCCGAAAACAAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAAA
1 AAAATCCGAAAATAAAATAAA-AAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAA
6860135 AACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAATAAAAT-CTGAAAATAA
65 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATAC-GAAAATAA
6860197 AAAATAAAAA
Statistics
Matches: 630, Mismatches: 44, Indels: 43
0.88 0.06 0.06
Matches are distributed among these distances:
136 25 0.04
137 28 0.04
138 18 0.03
139 33 0.05
140 19 0.03
141 121 0.19
142 103 0.16
143 47 0.07
144 37 0.06
145 122 0.19
146 60 0.10
147 17 0.03
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.26
Consensus pattern (142 bp):
AAAATCCGAAAATAAAATAAAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
ACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATAT
ATTTTAAAAAAT
Found at i:6859907 original size:14 final size:14
Alignment explanation
Indices: 6859884--6859930 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
6859874 GTACTAAAAT
6859884 AATATAAAAAATAA
1 AATATAAAAAATAA
6859898 AATATGAAAATAATAA
1 AATAT-AAAA-AATAA
* *
6859914 ATTTTAAAAAATAA
1 AATATAAAAAATAA
6859928 AAT
1 AAT
6859931 CCGAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 12 0.43
15 8 0.29
16 8 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AATATAAAAAATAA
Found at i:6859924 original size:30 final size:29
Alignment explanation
Indices: 6859888--6859944 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
6859878 TAAAATAATA
*
6859888 TAAAAAATAAAATATGAAAATAATAAATTT
1 TAAAAAATAAAATACGAAAATAA-AAATTT
*
6859918 TAAAAAATAAAATCCGAAAATAAAAAT
1 TAAAAAATAAAATACGAAAATAAAAAT
6859945 AAAAAAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (29 bp):
TAAAAAATAAAATACGAAAATAAAAATTT
Found at i:6860283 original size:105 final size:109
Alignment explanation
Indices: 6860063--6860292 Score: 301
Period size: 111 Copynumber: 2.1 Consensus size: 109
6860053 TAGTATATTT
6860063 TAAAAAATAAAATCCGAAAACAAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAA
1 TAAAAAATAAAATCCGAAAACAAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAA
*
6860128 TATAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATA
66 TATAAAAAAATAAAAT-AT--ATGAAACATTATGTACTAAAATAATA
* * * * * *
6860175 T-AAAAATAAAATCTGAAAA-TAAA-AAATAAAAAGGGCCAAAATCAGAGTTTTTGTTCTAAATT
1 TAAAAAATAAAATCCGAAAACAAAATAAAT-AAAACGGCCAAAATCACAGATTTT-TACTAAATT
*
6860237 AATATAAAAAAAT-ACAT-T-TGAAACATTATGTACTAAAATAATA
64 AATATAAAAAAATAAAATATATGAAACATTATGTACTAAAATAATA
6860280 TAAAAAATAAAAT
1 TAAAAAATAAAAT
6860293 ACAAAAATAG
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
105 26 0.24
106 11 0.10
108 1 0.01
109 4 0.04
110 27 0.25
111 37 0.35
112 1 0.01
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (109 bp):
TAAAAAATAAAATCCGAAAACAAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAA
TATAAAAAAATAAAATATATGAAACATTATGTACTAAAATAATA
Found at i:6860300 original size:13 final size:12
Alignment explanation
Indices: 6860271--6860345 Score: 51
Period size: 12 Copynumber: 5.7 Consensus size: 12
6860261 ATTATGTACT
*
6860271 AAAATAATATAA
1 AAAATAAAATAA
6860283 AAAATAAAATACA
1 AAAATAAAATA-A
*
6860296 AAAATAGTATATTTTAA
1 AAAATA--A-A--ATAA
**
6860313 AAAATAAAATCTG
1 AAAATAAAAT-AA
6860326 AAAATAAAATAA
1 AAAATAAAATAA
6860338 AAAATAAA
1 AAAATAAA
6860346 CGGCCAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
12 19 0.39
13 17 0.35
14 1 0.02
15 2 0.04
16 1 0.02
17 7 0.14
18 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:6860301 original size:25 final size:25
Alignment explanation
Indices: 6860271--6860345 Score: 71
Period size: 30 Copynumber: 2.8 Consensus size: 25
6860261 ATTATGTACT
6860271 AAAATAATATAAAAAATAAAATAC-A
1 AAAATAATATAAAAAATAAAAT-CTA
*
6860296 AAAATAGTATATTTTAAAAAATAAAATCTG
1 AAAATA--ATA---TAAAAAATAAAATCTA
*
6860326 AAAATAAAATAAAAAATAAA
1 AAAATAATATAAAAAATAAA
6860346 CGGCCAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
25 17 0.40
27 3 0.07
28 2 0.05
29 1 0.02
30 19 0.45
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATCTA
Found at i:6860410 original size:146 final size:147
Alignment explanation
Indices: 6860176--6860786 Score: 858
Period size: 146 Copynumber: 4.2 Consensus size: 147
6860166 AAAATAATAT
* *
6860176 AAAAATAAAATCTGAAAAT-AAA-AAATAA-AAAGGGCCAAAATCAGAGTTTTTGT-TCTAAATT
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTT-TAT-TAAATT
*
6860237 AATAT-----A--AAAA-AATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAAT
64 AATATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAAATAAAAT
*
6860293 ACAAAAATAGTATATTTTA
129 ACGAAAATAGTATATTTTA
*
6860312 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAATTTTTTATTAAATTAA
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAA
*
6860377 TATAAAAAACTAAAATAATATATTTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATAC
66 TATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATAC
6860442 GAAAATAGTATATTTTA
131 GAAAATAGTATATTTTA
** *
6860459 AAAAAT-AAATCCAAAAATAAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAA
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAA
* *
6860523 TATAAAAAACTAAAATAATAAAATTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATAC
66 TATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATAC
*
6860588 GAAAATAGTATATTTTC
131 GAAAATAGTATATTTTA
**
6860605 AAAAATAAAATCCAAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTCTGTTTTTTAT
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGA--------GTTTTTTAT
6860670 TAAATTAATATAAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATAT--AAAA
58 TAAATTAATAT-AAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAA
*
6860733 ATAAAATACGAAAATAATATATTTTA
122 ATAAAATACGAAAATAGTATATTTTA
*
6860759 AAAATTTAAAATCTGAAAATAAAATAAA
1 AAAA-ATAAAATCTGAAAATAAAATAAA
6860787 TACCAAAATA
Statistics
Matches: 430, Mismatches: 21, Indels: 29
0.90 0.04 0.06
Matches are distributed among these distances:
136 19 0.04
137 3 0.01
138 17 0.04
139 22 0.05
143 1 0.00
145 4 0.01
146 171 0.40
147 76 0.18
154 32 0.07
155 40 0.09
156 45 0.10
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (147 bp):
AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAA
TATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATAC
GAAAATAGTATATTTTA
Found at i:6860584 original size:540 final size:542
Alignment explanation
Indices: 6859645--6860749 Score: 1517
Period size: 540 Copynumber: 2.0 Consensus size: 542
6859635 TATTTTTAAA
6859645 AAAATCTGAAAAT--AAAATAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
1 AAAATCTGAAAATAAAAAATAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
* *
6859708 CAAAAATAATACATGGAACATTATGTACTAAAATAATATAAAAAAACAAAATACGAAAATAATAT
66 CAAAAAT-AT--ATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAATAT
* * * **
6859773 ATCTTAAAAAATAAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATT
128 ATCTTAAAAAATAAAATCCAAAAAAAAAAAAAAAAACGGCCAAAATCAGAATTTTTTTCTAAATT
*
6859838 AATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATAT
193 AATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATAC
* * *
6859903 GAAAATAATAAATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTT
258 GAAAATAATAAATTTTAAAAAATAAAATCCAAAAATAAAAAAAAAAAAAGCCAAAATCAGAGTTT
* * *
6859968 TTTTTCTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
323 TTTATCTAAATTAATATAAAAAAACTAAAATAATAAAATTGAAACATTATGTACTAAAATAATAT
* * *
6860033 AAAAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAAT-AAATA-AA
388 AAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACAAAATAAAAAATAA
6860096 ACGGCCAAAATC-A-CAGATTTTTACTAAATTAATAT-AAAAAACTAAAATAATACA-TGAAACA
453 ACGGCCAAAATCAATCAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTGAAACA
6860157 TTATGTACTAAAATAATATAAAAAT
518 TTATGTACTAAAATAATATAAAAAT
* * * *
6860182 AAAATCTGAAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTTGTTCTAAATTAATATAAAAA
1 AAAATCTGAAAATAAAAAATAAAAAAGGCCAAAATCACAGATTTT-TACTAAATTAATATAAAAA
* * * *
6860247 A-ATACAT-T-TGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACAAAAATAGTATAT
65 ACAAAAATATATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAATATAT
* *
6860308 TTTAAAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAATTTTTTAT-TAA
130 CTTAAAAAATAAAATC-CAAAA-AAAA-AAAAAA-AAACGGCCAAAATCAGAATTTTTT-TCTAA
* * *
6860372 ATTAATAT-AAAAAACTAAAATAATATATTTGGAACATTATGTACTAAAATAATATAAAAAAATA
190 ATTAATATAAAAAAACAAAAATAATACA--TGAAACATTATGTACTAAAATAATAT-AAAAAATA
* *
6860436 AAATACGAAAATAGTATATTTTAAAAAAT-AAATCCAAAAATAAAATAAAAAATAAACAGCCAAA
252 AAATACGAAAATAATAAATTTTAAAAAATAAAATCCAAAAAT-AAA-AAAAAA-AAA-AGCCAAA
*
6860500 ATCAGAGTTTTTTAT-TAAATTAATAT-AAAAAACTAAAATAATAAAATTGGAACATTATGTACT
313 ATCAGAGTTTTTTATCTAAATTAATATAAAAAAACTAAAATAATAAAATTGAAACATTATGTACT
* *
6860563 AAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTCAAAAATAAAATCCAAAAATAAAA
378 AAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACAAAA
* * *
6860628 TAAAAAATAAACGGCCAAAATCAGAGTTTTTCTGTTTTTTATTAAATTAATATAAAAAAACTAAA
443 TAAAAAATAAACGGCCAAAATCA-A-----TCAGATTTTTACTAAATTAATATAAAAAAACTAAA
*
6860693 ATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAT
502 ATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAAT
6860735 AAAATAC-GAAAATAA
1 AAAAT-CTGAAAATAA
6860750 TATATTTTAA
Statistics
Matches: 500, Mismatches: 39, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
533 39 0.08
534 29 0.06
535 3 0.01
536 22 0.04
537 46 0.09
538 37 0.07
539 68 0.14
540 120 0.24
541 18 0.04
542 34 0.07
544 1 0.00
550 19 0.04
551 19 0.04
553 44 0.09
554 1 0.00
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (542 bp):
AAAATCTGAAAATAAAAAATAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
CAAAAATATATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAATATATC
TTAAAAAATAAAATCCAAAAAAAAAAAAAAAAACGGCCAAAATCAGAATTTTTTTCTAAATTAAT
ATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAA
AATAATAAATTTTAAAAAATAAAATCCAAAAATAAAAAAAAAAAAAGCCAAAATCAGAGTTTTTT
ATCTAAATTAATATAAAAAAACTAAAATAATAAAATTGAAACATTATGTACTAAAATAATATAAA
AAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACAAAATAAAAAATAAACG
GCCAAAATCAATCAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTGAAACATTA
TGTACTAAAATAATATAAAAAT
Found at i:6860622 original size:13 final size:12
Alignment explanation
Indices: 6860603--6860638 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
6860593 TAGTATATTT
6860603 TCAAAAATAAAA
1 TCAAAAATAAAA
6860615 TCCAAAAATAAAA
1 T-CAAAAATAAAA
*
6860628 TAAAAAATAAA
1 TCAAAAATAAA
6860639 CGGCCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (12 bp):
TCAAAAATAAAA
Found at i:6867017 original size:25 final size:22
Alignment explanation
Indices: 6866973--6867014 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6866963 TAAATTACAT
6866973 TTTCTTTTTTTTCTTCTTCTCC
1 TTTCTTTTTTTTCTTCTTCTCC
6866995 TTTC-TTTTTTTCTATCTTCT
1 TTTCTTTTTTTTCT-TCTTCT
6867015 TCTGTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTCTTTTTTTTCTTCTTCTCC
Found at i:6867132 original size:27 final size:27
Alignment explanation
Indices: 6867102--6867160 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
6867092 GAGAATGGCA
6867102 CCACCGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
6867129 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
6867156 TCACC
1 CCACC
6867161 CCTATTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.41, G:0.31, T:0.20
Consensus pattern (27 bp):
CCACCGGTGCCGCCTGTGGGGTACCCT
Found at i:6868365 original size:14 final size:14
Alignment explanation
Indices: 6868346--6868372 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6868336 GTTCTTTATT
6868346 TTATTTTTATTTTA
1 TTATTTTTATTTTA
6868360 TTATTTTTATTTT
1 TTATTTTTATTTT
6868373 CACAAATTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:6872880 original size:12 final size:12
Alignment explanation
Indices: 6872864--6872896 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6872854 TTCGAATTGA
6872864 TTTTCTTTCTTTC
1 TTTTCTTT-TTTC
6872877 -TTTCTTTTTTC
1 TTTTCTTTTTTC
6872888 TTTTCTTTT
1 TTTTCTTTT
6872897 CCTACTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:6873633 original size:15 final size:18
Alignment explanation
Indices: 6873615--6873652 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
6873605 GTTATGTGTA
6873615 TATGTTTTT-TA-A-TAT
1 TATGTTTTTATATACTAT
6873630 TATGTTTTTATATACTAT
1 TATGTTTTTATATACTAT
6873648 TATGT
1 TATGT
6873653 ATATATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 1 0.05
18 8 0.40
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (18 bp):
TATGTTTTTATATACTAT
Found at i:6873671 original size:40 final size:40
Alignment explanation
Indices: 6873595--6873671 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
6873585 TATATATTGC
* * **
6873595 TTTTATATATGTTATGTGTATATGTTTTTTAATATTATGT
1 TTTTATATATATTATGTATATATGTTTAATAATATTATGT
*
6873635 TTTTATATACTATTATGTATATAT-TTTAATATTATTA
1 TTTTATATA-TATTATGTATATATGTTTAATAATATTA
6873672 GACTATTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 19 0.61
41 12 0.39
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (40 bp):
TTTTATATATATTATGTATATATGTTTAATAATATTATGT
Found at i:6873805 original size:9 final size:8
Alignment explanation
Indices: 6873791--6873856 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 8
6873781 ATCATTTCTA
6873791 ATATATATT
1 ATATAT-TT
6873800 ATATATTT
1 ATATATTT
6873808 -TATATGTT
1 ATATAT-TT
*
6873816 ATAT-GTT
1 ATATATTT
6873823 ATATATATT
1 ATATAT-TT
*
6873832 GTATATTT
1 ATATATTT
*
6873840 AAATATATT
1 ATATAT-TT
6873849 ATATATTT
1 ATATATTT
6873857 TTAATGTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
7 11 0.24
8 12 0.26
9 23 0.50
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (8 bp):
ATATATTT
Found at i:6873847 original size:17 final size:17
Alignment explanation
Indices: 6873793--6873856 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 17
6873783 CATTTCTAAT
*
6873793 ATATATTATATATTT-T
1 ATATATTATATATTTAA
* * *
6873809 ATATGTTATAT-GTTAT
1 ATATATTATATATTTAA
*
6873825 ATATATTGTATATTTAA
1 ATATATTATATATTTAA
6873842 ATATATTATATATTT
1 ATATATTATATATTT
6873857 TTAATGTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 2 0.05
16 20 0.51
17 17 0.44
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
ATATATTATATATTTAA
Found at i:6873872 original size:40 final size:42
Alignment explanation
Indices: 6873800--6873879 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
6873790 AATATATATT
* *
6873800 ATATATTTTATATGTTATATGTTATATATATTGTATATTTAA
1 ATATATTATATATGTTATATGTTATATATATTGTACATTTAA
*
6873842 ATATATTATATAT-TTTTAATGTTAT-T-TATTGTACATTT
1 ATATATTATATATGTTAT-ATGTTATATATATTGTACATTT
6873880 CTTTACTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 11 0.32
41 4 0.12
42 19 0.56
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (42 bp):
ATATATTATATATGTTATATGTTATATATATTGTACATTTAA
Found at i:6873991 original size:15 final size:15
Alignment explanation
Indices: 6873944--6874004 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
6873934 TCTTGAATAC
6873944 TATGTCATATATATA-
1 TATGT-ATATATATAT
* *
6873959 TATTTA-ATACTGTAT
1 TATGTATATA-TATAT
6873974 TATGTATATATATAT
1 TATGTATATATATAT
6873989 TAT-TATTATATATAT
1 TATGTA-TATATATAT
6874004 T
1 T
6874005 TTATCCTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 3 0.08
14 6 0.16
15 26 0.68
16 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (15 bp):
TATGTATATATATAT
Found at i:6874096 original size:21 final size:24
Alignment explanation
Indices: 6874072--6874122 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
6874062 ATTTTTAACA
*
6874072 TTATTATATTT-A-CTATTA-TAT
1 TTATTATATTTAATATATTATTAT
*
6874093 TTATTATTTTTAATATATTATTAT
1 TTATTATATTTAATATATTATTAT
6874117 TTATTA
1 TTATTA
6874123 CTTTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 5 0.20
24 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATTATATTTAATATATTATTAT
Found at i:6874237 original size:23 final size:22
Alignment explanation
Indices: 6874186--6874237 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
6874176 TTATTGTTAT
6874186 TATTATT-ATTATATTTTTTTA
1 TATTATTCATTATATTTTTTTA
6874207 T-TTA-TCATTAT-TTTTTGTATA
1 TATTATTCATTATATTTTT-T-TA
6874228 TATTATTCAT
1 TATTATTCAT
6874238 ACTATCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 4 0.15
22 3 0.12
23 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTATTCATTATATTTTTTTA
Found at i:6874610 original size:17 final size:17
Alignment explanation
Indices: 6874583--6874623 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
6874573 TACGTTACTT
6874583 AATATTTTTTTATTGTAA
1 AATATTTTTTTATTGT-A
6874601 AATATTTTTTTATTGTA
1 AATATTTTTTTATTGTA
6874618 AATATT
1 AATATT
6874624 ATTATTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (17 bp):
AATATTTTTTTATTGTA
Found at i:6875889 original size:14 final size:15
Alignment explanation
Indices: 6875870--6875910 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
6875860 GTTCTTTATT
6875870 TTATTTTTATTTT-A
1 TTATTTTTATTTTCA
6875884 TTATTTTTATTTTCA
1 TTATTTTTATTTTCA
**
6875899 CAATTTTTATTT
1 TTATTTTTATTT
6875911 AAAATTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTTTATTTTCA
Found at i:6876297 original size:31 final size:31
Alignment explanation
Indices: 6876242--6876301 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
6876232 AAGTTTAAAT
* *
6876242 AATAAGATAAGAGAAAATTTTAAAAATAAACA
1 AATAAGATAAGAGAAAAATAT-AAAATAAACA
6876274 AATAA-ATAAGAGAAAAATATAAAATAAA
1 AATAAGATAAGAGAAAAATATAAAATAAA
6876302 ATAAAAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 13 0.50
32 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (31 bp):
AATAAGATAAGAGAAAAATATAAAATAAACA
Found at i:6876325 original size:18 final size:17
Alignment explanation
Indices: 6876296--6876340 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
6876286 AAAAATATAA
*
6876296 AATAA-AATAAAAGGGT
1 AATAATAATAAAAAGGT
6876312 AATAATAATAAAAAGGT
1 AATAATAATAAAAAGGT
6876329 AATAAATAATAA
1 AAT-AATAATAA
6876341 TAATGTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (17 bp):
AATAATAATAAAAAGGT
Found at i:6876348 original size:18 final size:18
Alignment explanation
Indices: 6876301--6876355 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
6876291 TATAAAATAA
*
6876301 AATAAAAGGGTAAT-AAT
1 AATAAAAAGGTAATAAAT
6876318 AATAAAAAGGTAATAAAT
1 AATAAAAAGGTAATAAAT
* *
6876336 AATAATAATGTAAGTAAAT
1 AATAAAAAGGTAA-TAAAT
6876355 A
1 A
6876356 CGAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 13 0.39
18 14 0.42
19 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (18 bp):
AATAAAAAGGTAATAAAT
Found at i:6876440 original size:14 final size:14
Alignment explanation
Indices: 6876423--6876699 Score: 68
Period size: 14 Copynumber: 19.9 Consensus size: 14
6876413 TGATTATGAT
*
6876423 AATAGTAATAATAC
1 AATAATAATAATAC
6876437 AATAATAATAATA-
1 AATAATAATAATAC
6876450 AAGTAGA-AAGTAAT--
1 AA-TA-ATAA-TAATAC
*
6876464 AATAATAATACAT-T
1 AATAATAATA-ATAC
*
6876478 AATAAGAATAATA-
1 AATAATAATAATAC
*
6876491 ATATATTAATAATAAC
1 A-ATAATAATAAT-AC
*
6876507 AATAATAGA-AA-AT
1 AATAATA-ATAATAC
6876520 AATAATAATAATA-
1 AATAATAATAATAC
** * *
6876533 ATATGTTAATAAGGAT
1 A-ATAATAATAA-TAC
*
6876549 AATAGTAATAAT--
1 AATAATAATAATAC
6876561 AATAATAATAATA-
1 AATAATAATAATAC
*
6876574 ATAGTAATAAAAATAGC
1 A-A-TAATAATAATA-C
* *
6876591 AATGATAATAGT--
1 AATAATAATAATAC
* *
6876603 AATATTGATAATA-
1 AATAATAATAATAC
* *
6876616 AATAATAATAGTAAAA
1 AATAATAATA--ATAC
* *
6876632 AATAACAATAATAAT
1 AATAATAATAAT-AC
*
6876647 AATAGAAAATAATA-
1 AATA-ATAATAATAC
* *
6876661 AATAA-AAAAAT-G
1 AATAATAATAATAC
*
6876673 AAGAATAATAATAC
1 AATAATAATAATAC
*
6876687 ATTAATAATAATA
1 AATAATAATAATA
6876700 AAATCAGGAA
Statistics
Matches: 199, Mismatches: 34, Indels: 60
0.68 0.12 0.20
Matches are distributed among these distances:
12 32 0.16
13 37 0.19
14 62 0.31
15 47 0.24
16 20 0.10
17 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (14 bp):
AATAATAATAATAC
Found at i:6876443 original size:3 final size:3
Alignment explanation
Indices: 6876421--6876834 Score: 235
Period size: 3 Copynumber: 137.7 Consensus size: 3
6876411 TATGATTATG
* * *
6876421 ATA ATA GTA ATA AT- ACA ATA ATA ATA ATA A-A GTA GA-A AGTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA
* * *
6876465 ATA ATA ATA CATTA ATA AGA ATA ATA AT- ATA TTA ATA ATA ACA ATA
1 ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** *
6876511 ATA GAAA ATA ATA ATA ATA ATA AT- ATG TTA ATA AGG ATA ATA GTA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * *
6876556 ATA ATA ATA ATA ATA ATA ATA GTA ATA AAA ATA GCA ATG ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6876604 ATA TTG ATA ATAA ATA ATA ATA GTA A-A A-A ATA ACA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
6876648 ATA GAAA ATA ATAA ATA A-A AAA ATGA AGA ATA ATA ATA CATTA ATA
1 ATA -ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA -A-TA ATA
** * ** *
6876694 ATA ATA A-A ATCA GGA ATA ATA ATA ATA AGA ACG ACA AT- ATAA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * *
6876739 ATA AT- ATA A-A A-A ATA ATA GTA ATA ATA ATA ATG ATG ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6876784 ATA ATA ATA GAAA ATA ATA GTA ATA GTGA A-A AAA ATA ATA ATA GTA
1 ATA ATA ATA -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
6876830 ATA AT
1 ATA AT
6876835 GAATTAATTA
Statistics
Matches: 312, Mismatches: 72, Indels: 54
0.71 0.16 0.12
Matches are distributed among these distances:
2 25 0.08
3 259 0.83
4 24 0.08
5 4 0.01
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6876697 original size:32 final size:33
Alignment explanation
Indices: 6876656--6876717 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
6876646 TAATAGAAAA
*
6876656 TAATAAATAAAAAAATGAAGAATAATAATACAT
1 TAATAAATAAAAAAATCAAGAATAATAATACAT
* *
6876689 TAAT-AATAATAAAATCAGGAATAATAATA
1 TAATAAATAAAAAAATCAAGAATAATAATA
6876718 ATAAGAACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (33 bp):
TAATAAATAAAAAAATCAAGAATAATAATACAT
Found at i:6881875 original size:24 final size:22
Alignment explanation
Indices: 6881845--6881899 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 22
6881835 TGTACTTGGT
6881845 TTTTTTTTTTTTGTAAATGGAC
1 TTTTTTTTTTTTGTAAATGGAC
*
6881867 TTGTGTTTTTATTTGTAAATGGAC
1 TT-T-TTTTTTTTTGTAAATGGAC
6881891 TTTTTTTTT
1 TTTTTTTTT
6881900 ACCGGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 7 0.24
23 2 0.07
24 20 0.69
ACGTcount: A:0.16, C:0.04, G:0.15, T:0.65
Consensus pattern (22 bp):
TTTTTTTTTTTTGTAAATGGAC
Found at i:6883297 original size:16 final size:16
Alignment explanation
Indices: 6883276--6883344 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
6883266 TTTGGTTCGC
6883276 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6883292 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6883308 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
6883325 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6883341 TGTA
1 TGTA
6883345 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6883322 original size:33 final size:32
Alignment explanation
Indices: 6883276--6883344 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
6883266 TTTGGTTCGC
6883276 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
6883308 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
6883341 TGTA
1 TGTA
6883345 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:6883409 original size:44 final size:45
Alignment explanation
Indices: 6883325--6883415 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6883315 GGATTAGAGG
* * *
6883325 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
6883370 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
6883414 TG
1 TG
6883416 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:6883597 original size:16 final size:16
Alignment explanation
Indices: 6883560--6883614 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
6883550 TTAATCATAT
*
6883560 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
6883576 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
6883591 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
6883609 -TAAAAT
1 TTAAAAT
6883615 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:6883607 original size:18 final size:18
Alignment explanation
Indices: 6883566--6883614 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
6883556 ATATTTAAAC
6883566 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
6883584 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
6883600 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
6883615 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:6883733 original size:67 final size:67
Alignment explanation
Indices: 6883662--6883874 Score: 163
Period size: 67 Copynumber: 3.1 Consensus size: 67
6883652 ATTGTTAATG
*
6883662 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATCTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATCTTAATCATATTTAAACATAAT
6883727 TA
66 TA
* * * * ***
6883729 TTATTAAATATATTTTAATTAAAATATATAATT-T-AAT-A-AAAT-TCTT-ATAATTAGCAGAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATCTTAATCA-TA-TTTAA
** * *
6883788 ATTTGTTATTG
59 A--CATAATTA
*
6883799 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATTTAAACATAA
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAAT-ATCTTAATCATATTTAAACATAA
6883863 TTA
65 TTA
6883866 TTA-TTAAAT
1 TTATTTAAAT
6883875 ATATTTTAAT
Statistics
Matches: 106, Mismatches: 24, Indels: 33
0.65 0.15 0.20
Matches are distributed among these distances:
65 5 0.05
66 15 0.14
67 30 0.28
68 8 0.08
69 8 0.08
70 24 0.23
71 10 0.09
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATCTTAATCATATTTAAACATAAT
TA
Found at i:6883743 original size:156 final size:156
Alignment explanation
Indices: 6883467--6883794 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
6883457 TAGAATACTC
* *
6883467 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
6883532 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
6883597 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
6883623 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
6883688 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
6883753 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
6883779 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
6883795 ATTGTTATTT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 167 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATCTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:6883757 original size:18 final size:17
Alignment explanation
Indices: 6883736--6883770 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6883726 TTATTATTAA
*
6883736 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6883754 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6883771 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6883894 original size:18 final size:17
Alignment explanation
Indices: 6883873--6883907 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6883863 TTATTATTAA
*
6883873 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6883891 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6883908 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6883916 original size:137 final size:137
Alignment explanation
Indices: 6883653--6883927 Score: 498
Period size: 137 Copynumber: 2.0 Consensus size: 137
6883643 TAAATGATTA
* *
6883653 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATCTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATATCTTAATCATATTT
6883718 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAG
66 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAG
*
6883783 CAGAAAT
131 CAAAAAT
*
6883790 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAAT-TTAATCATATT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAAT-ATCTTAATCATATT
6883854 TAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTA
65 TAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTA
6883919 GCAAAAAT
130 GCAAAAAT
6883927 T
1 T
6883928 GTTTTGGTAA
Statistics
Matches: 133, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
137 131 0.98
138 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (137 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATATCTTAATCATATTT
AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAG
CAAAAAT
Found at i:6892403 original size:20 final size:20
Alignment explanation
Indices: 6892356--6892403 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6892346 GTCACATCAA
6892356 TATTCTTATCCTGAATTTCAG
1 TATT-TTATCCTGAATTTCAG
* *
6892377 AAGTTTATCCTGAATTTCAG
1 TATTTTATCCTGAATTTCAG
6892397 TATTTTA
1 TATTTTA
6892404 ATTTGGATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (20 bp):
TATTTTATCCTGAATTTCAG
Found at i:6899948 original size:15 final size:15
Alignment explanation
Indices: 6899928--6899958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6899918 CTGCTATGTT
*
6899928 TCATGATGAAGATGA
1 TCATGATAAAGATGA
6899943 TCATGATAAAGATGA
1 TCATGATAAAGATGA
6899958 T
1 T
6899959 GCTATTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (15 bp):
TCATGATAAAGATGA
Found at i:6901405 original size:12 final size:12
Alignment explanation
Indices: 6901388--6901421 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6901378 AATAGATAAC
6901388 AATAATAATAGT
1 AATAATAATAGT
*
6901400 AGTAATAATAGT
1 AATAATAATAGT
6901412 AATAATAATA
1 AATAATAATA
6901422 TTAAATAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:6906259 original size:45 final size:45
Alignment explanation
Indices: 6906195--6906323 Score: 181
Period size: 44 Copynumber: 2.9 Consensus size: 45
6906185 GGACAAACAC
6906195 ATGATGCCATAACATCTTTCAATTATGATCTTACTTATTTTTATT
1 ATGATGCCATAACATCTTTCAATTATGATCTTACTTATTTTTATT
* *
6906240 ATGATGCCATAACATCTTTCAATTAT-AGTCTTACTCA-TTTTCTT
1 ATGATGCCATAACATCTTTCAATTATGA-TCTTACTTATTTTTATT
* ** *
6906284 ATAATGCCATAACATCTTTCAGCTATGGTCTTACTTATTT
1 ATGATGCCATAACATCTTTCAATTATGATCTTACTTATTT
6906324 ATTGCGTATA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 38 0.51
45 36 0.49
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.46
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAATTATGATCTTACTTATTTTTATT
Found at i:6909690 original size:47 final size:47
Alignment explanation
Indices: 6909616--6909720 Score: 165
Period size: 47 Copynumber: 2.2 Consensus size: 47
6909606 TTCGGAGAAA
* * *
6909616 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAAACCATATCCGGGATATGGCATCAG
* *
6909663 TGTGATATGTGCTACTGTATAAAACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAAACCATATCCGGGATATGGCATCAG
6909710 TGTGATATGTG
1 TGTGATATGTG
6909721 ATCCGTGTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAAACCATATCCGGGATATGGCATCAG
Found at i:6918102 original size:23 final size:23
Alignment explanation
Indices: 6918076--6918122 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6918066 GAAAGAAATT
6918076 ATTTATCCTTTTGTCACTTCTCC
1 ATTTATCCTTTTGTCACTTCTCC
6918099 ATTTATCCTTTTGTCACTTCTCC
1 ATTTATCCTTTTGTCACTTCTCC
6918122 A
1 A
6918123 AGTCCAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.15, C:0.30, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTATCCTTTTGTCACTTCTCC
Found at i:6921869 original size:19 final size:19
Alignment explanation
Indices: 6921826--6921869 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6921816 GAAACTACAT
* **
6921826 AATTATTTAAAAAATTTTA
1 AATTTTTTAAAAAATTAAA
*
6921845 ATTTTTTTAAAAAATTAAA
1 AATTTTTTAAAAAATTAAA
6921864 AATTTT
1 AATTTT
6921870 AAAACAGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTTTTTAAAAAATTAAA
Found at i:6934113 original size:15 final size:15
Alignment explanation
Indices: 6934093--6934121 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6934083 TTTAACTATT
6934093 TATATTCCATATTTC
1 TATATTCCATATTTC
6934108 TATATTCCATATTT
1 TATATTCCATATTT
6934122 ATTGATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTCCATATTTC
Found at i:6935390 original size:17 final size:18
Alignment explanation
Indices: 6935368--6935410 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
6935358 CCATTAATAA
6935368 ATTTAATATGAA-TTTAT
1 ATTTAATATGAAGTTTAT
* *
6935385 ATTTAATTTTAAGTTTAT
1 ATTTAATATGAAGTTTAT
6935403 -TTTAATAT
1 ATTTAATAT
6935411 ATTTAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
ATTTAATATGAAGTTTAT
Found at i:6944854 original size:72 final size:72
Alignment explanation
Indices: 6944618--6944870 Score: 402
Period size: 73 Copynumber: 3.5 Consensus size: 72
6944608 ACATGTGAAC
* *
6944618 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
*
6944682 CAGCGTGT-T
63 CAACGTGTCT
*
6944691 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTC
1 -TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTC
6944756 AACGTGTCT
64 AACGTGTCT
6944765 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
6944830 TGTGTCT
66 CGTGTCT
6944837 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
6944871 TTCTTTCAAA
Statistics
Matches: 170, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
72 68 0.40
73 71 0.42
74 31 0.18
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:6944953 original size:88 final size:88
Alignment explanation
Indices: 6944804--6945048 Score: 298
Period size: 88 Copynumber: 2.8 Consensus size: 88
6944794 GTTGAATTTT
* ** * **
6944804 GAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6944869 GA-TTCTTTCAAAAACATAATAAC
66 GATTTCTTTCAAAAACAGAA-AAC
* *
6944892 GAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
6944957 GATTTTTTTGAAAAACAGAAATC
66 GATTTCTTTCAAAAACAGAAAAC
**
6944980 -AAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 GAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
6945043 AGTTGA
62 AGTTGA
6945049 AATTAAAACA
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
87 4 0.03
88 75 0.55
89 16 0.12
90 41 0.30
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (88 bp):
GAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTCTTTCAAAAACAGAAAAC
Found at i:6945652 original size:76 final size:75
Alignment explanation
Indices: 6945269--6945686 Score: 506
Period size: 76 Copynumber: 5.5 Consensus size: 75
6945259 AGTGTGTAAT
* **** *
6945269 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT---TTTTAAAACAGAAATTGAAATT
*
6945334 ACCTCAGCATGTGAAC
63 ACCTCAGC--GTG-TC
* *
6945350 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTT-AAAACAGAAATTGAAATTA
*
6945414 CCTCAACGTGTC
64 CCTCAGCGTGTC
* * * ** *
6945426 TTGAGGCTCAACTCA-TTCTCGCAATATAAGTT-A--AATTTTGAAAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACC
*
6945487 TCAGCGTATC
66 TCAGCGTGTC
**
6945497 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AACAGAAATTGAAATTAC
6945561 CTCAGCGTGTC
65 CTCAGCGTGTC
**
6945572 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AACAGAAATTGAAATTAC
6945637 CTCAGCGTGTC
65 CTCAGCGTGTC
*
6945648 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
6945687 GAAAAACAAA
Statistics
Matches: 304, Mismatches: 25, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
71 42 0.14
72 20 0.07
73 1 0.00
74 6 0.02
75 64 0.21
76 93 0.31
77 16 0.05
79 25 0.08
80 31 0.10
81 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (75 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGAAATTACC
TCAGCGTGTC
Found at i:6945676 original size:151 final size:149
Alignment explanation
Indices: 6945269--6945686 Score: 513
Period size: 151 Copynumber: 2.8 Consensus size: 149
6945259 AGTGTGTAAT
* * *** *
6945269 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAAAACAGAAATTGAAAAT
1 CTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTT---TTTAAAAACAGAAATTGAAATT
* *
6945334 ACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAA
62 ACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTGAAA
6945398 ACAGAAATTGAAAATACCTCAACGTGTC
122 ACAGAAATTGAAAATACCTCAACGTGTC
* * ** *
6945426 TTGAGGCTCAACTCATTCTCGCAATATAAGTT-A--AATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAATTACCT
* **
6945488 CAGCGTATCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT-AACAACAGAAAT
66 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA-AACAGAAAT
* *
6945552 TGAAATTACCTCAGCGTGTC
130 TGAAAATACCTCAACGTGTC
*
6945572 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA-TTTTTTTTAAAAACAGAAATTGAAATTAC
*
6945637 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
64 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
6945687 GAAAAACAAA
Statistics
Matches: 226, Mismatches: 28, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
145 2 0.01
146 49 0.22
147 18 0.08
148 33 0.15
150 25 0.11
151 69 0.31
153 1 0.00
155 1 0.00
156 15 0.07
157 13 0.06
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (149 bp):
CTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAATTACCT
CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATT
GAAAATACCTCAACGTGTC
Found at i:6945852 original size:72 final size:69
Alignment explanation
Indices: 6945704--6945872 Score: 230
Period size: 72 Copynumber: 2.4 Consensus size: 69
6945694 AAAAATTAAA
* * * * * *
6945704 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTAAATTAAAAACAAAAACTAAAAATACCTCAGCGTAC
6945769 CCCG
66 CCCG
* *
6945773 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAG-T-AAATTAAAA-ACAAAAACTAAAAATACCTCAGCG
6945838 TACCCCG
63 TACCCCG
*
6945845 AGGCTCAACTCACCTCTTGCAATATGAG
1 AGGCTCAACTCACCTCTCGCAATATGAG
6945873 CTGATTTTGA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
69 27 0.31
70 1 0.01
71 7 0.08
72 53 0.60
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTAAATTAAAAACAAAAACTAAAAATACCTCAGCGTAC
CCCG
Done.