Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 65
Found at i:2283305 original size:22 final size:22
Alignment explanation
Indices: 2283280--2283322 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2283270 AATTTATTTG
2283280 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2283302 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2283323 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2283382 original size:31 final size:31
Alignment explanation
Indices: 2283347--2283405 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2283337 AGTTGTATGG
* * *
2283347 ATTATTTAAATTTTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
2283378 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
2283406 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:2288253 original size:26 final size:24
Alignment explanation
Indices: 2288208--2288265 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 24
2288198 ATCGTTGGTA
2288208 GTTTTTTTTTGTATCTTGTT-TCT
1 GTTTTTTTTTGTATCTTGTTCTCT
*
2288231 GTTTTTTTTTGTTGCTCTGTGTTCTCT
1 GTTTTTTTTTG-T-ATCT-TGTTCTCT
2288258 GTTTTTTT
1 GTTTTTTT
2288266 GTTTTGCAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 11 0.37
24 1 0.03
25 3 0.10
26 4 0.13
27 11 0.37
ACGTcount: A:0.02, C:0.10, G:0.16, T:0.72
Consensus pattern (24 bp):
GTTTTTTTTTGTATCTTGTTCTCT
Found at i:2288255 original size:25 final size:22
Alignment explanation
Indices: 2288208--2288268 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 22
2288198 ATCGTTGGTA
2288208 GTTTTTTTTTGTATCTTGTTTCT
1 GTTTTTTTTTGT-TCTTGTTTCT
2288231 GTTTTTTTTTGTTGCTCTGTGTTCT
1 GTTTTTTTTTGTT-CT-TGT-TTCT
* *
2288256 CTGTTTTTTTGTT
1 GTTTTTTTTTGTT
2288269 TTGCAGGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 14 0.42
24 3 0.09
25 15 0.45
ACGTcount: A:0.02, C:0.10, G:0.16, T:0.72
Consensus pattern (22 bp):
GTTTTTTTTTGTTCTTGTTTCT
Found at i:2288483 original size:31 final size:31
Alignment explanation
Indices: 2288418--2288483 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
2288408 GGAGGCTTCA
2288418 GCGGCGGACGTGTGTTCTTCTGGAACCAACG
1 GCGGCGGACGTGTGTTCTTCTGGAACCAACG
*
2288449 GCGGCGGACGTGTG-TCTTTCTGGAACCAATG
1 GCGGCGGACGTGTGTTC-TTCTGGAACCAACG
2288480 GCGG
1 GCGG
2288484 TGGCTAGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.15, C:0.24, G:0.38, T:0.23
Consensus pattern (31 bp):
GCGGCGGACGTGTGTTCTTCTGGAACCAACG
Found at i:2288749 original size:12 final size:12
Alignment explanation
Indices: 2288724--2288778 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
2288714 TAATAAAAAT
* *
2288724 ATAATAATAGTA
1 ATAATTATAATA
2288736 ATAATTATAATA
1 ATAATTATAATA
2288748 ATAA-T-T-ATA
1 ATAATTATAATA
*
2288757 ACAATTATAATA
1 ATAATTATAATA
2288769 ATAATTATAA
1 ATAATTATAA
2288779 CAATTATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.17
10 2 0.06
11 2 0.06
12 26 0.72
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:2288768 original size:30 final size:29
Alignment explanation
Indices: 2288703--2288800 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 29
2288693 ATATGTAACA
* * *
2288703 ATAATATTTATTAATAAAAATATAATAA-T
1 ATAATAATTA-TAATAAAATTATAACAATT
2288732 AGTAATAATTATAATAATAATTATAACAATT
1 A-TAATAATTATAATAA-AATTATAACAATT
* * *
2288763 ATAATAATAATTATAACAATTATAACAATA
1 ATAATAATTATAATAA-AATTATAACAATT
*
2288793 AAAATAAT
1 ATAATAAT
2288801 AAAACGGGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.12
30 49 0.84
31 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (29 bp):
ATAATAATTATAATAAAATTATAACAATT
Found at i:2288799 original size:21 final size:21
Alignment explanation
Indices: 2288724--2288793 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
2288714 TAATAAAAAT
*
2288724 ATAATAA-TAGTAATAATTATA
1 ATAATAATTA-TAACAATTATA
2288745 ATAATAATTATAACAATTATA
1 ATAATAATTATAACAATTATA
2288766 ATAATAATTATAACAATTATA
1 ATAATAATTATAACAATTATA
*
2288787 ACAATAA
1 ATAATAA
2288794 AAATAATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 44 0.96
22 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (21 bp):
ATAATAATTATAACAATTATA
Found at i:2289673 original size:112 final size:113
Alignment explanation
Indices: 2289149--2289684 Score: 771
Period size: 112 Copynumber: 4.8 Consensus size: 113
2289139 ATAGAGACAT
* * * *
2289149 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* **
2289213 ATTATGAACT-TTCTCTGGAAATATTGATCCATCAAGTGATGAATTTGA
66 ATTATGAACTCTACT-TGGAAATATTGATCCATCAAGTGATGAATTCAA
*
2289261 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTATTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * * *
2289326 ATTATGAATTCTACCTAGAAATGTTGATCCATCAAGTTATGGATTTGAA
66 ATTATGAACTCTACTTGGAAATATTGATCCATCAAGTGAT-GAATTCAA
* * *
2289375 -CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
**
2289439 ATTATGAACTCT--TATGGAAATGCTGATCCATCGAA-TGATGAATTCAA
66 ATTATGAACTCTACT-TGGAAATATTGATCCATC-AAGTGATGAATTCAA
*
2289486 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
2289551 ATTATGAACTCTACTTGGAAATATTGATCCATCAA-TGATGAATTCAA
66 ATTATGAACTCTACTTGGAAATATTGATCCATCAAGTGATGAATTCAA
* *
2289598 GCAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
2289663 ATTATGAACTCTACCTGGAAAT
66 ATTATGAACTCTACTTGGAAAT
2289685 GTTTTAAGAA
Statistics
Matches: 381, Mismatches: 35, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
111 6 0.02
112 229 0.60
113 138 0.36
114 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTACTTGGAAATATTGATCCATCAAGTGATGAATTCAA
Found at i:2289684 original size:225 final size:227
Alignment explanation
Indices: 2289149--2289685 Score: 811
Period size: 225 Copynumber: 2.4 Consensus size: 227
2289139 ATAGAGACAT
* * * * *
2289149 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTC
1 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** **
2289213 ATTATGAACT-TTCTCTGGAAATATTGATCCATCAAGTGATGAATTTGAGCAAAAAGTTGAACAA
66 ATTATGAACTCTAC-CTGGAAATGCTGATCCATCAAGTGATGAATTCAAGCAAAAAGTTGAACAA
* *
2289277 GTTCTTCTCATTATGAACTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATTATGAATTCTACCT
130 GTTCTTCTCATTATGAACTTCTTCTTCCTCATTCAGATGAGTTCTTCTCATTATGAACTCTACCT
* * * *
2289342 AGAAATGTTGATCCATCAAGTTATGGATTTGAA
195 AGAAATATTGATCCATCAAGTGATGGAATTCAA
2289375 -CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
2289439 ATTATGAACTCTTA--TGGAAATGCTGATCCATCGAA-TGATGAATTCAAGCAAAAAGTTGAACA
66 ATTATGAACTC-TACCTGGAAATGCTGATCCATC-AAGTGATGAATTCAAGCAAAAAGTTGAACA
* *
2289501 AGTTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAGTTCTTCTCATTATGAACTCTACT
129 AGTTCTTCTCATTATGAACTTCTTCTTCCTCATTCAGATGAGTTCTTCTCATTATGAACTCTACC
*
2289566 TGGAAATATTGATCCATCAA-TGAT-GAATTCAA
194 TAGAAATATTGATCCATCAAGTGATGGAATTCAA
*
2289598 GCAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
2289663 ATTATGAACTCTACCTGGAAATG
66 ATTATGAACTCTACCTGGAAATG
2289686 TTTTAAGAAA
Statistics
Matches: 284, Mismatches: 20, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
223 8 0.03
224 77 0.27
225 167 0.59
226 31 0.11
228 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (227 bp):
GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTACCTGGAAATGCTGATCCATCAAGTGATGAATTCAAGCAAAAAGTTGAACAAG
TTCTTCTCATTATGAACTTCTTCTTCCTCATTCAGATGAGTTCTTCTCATTATGAACTCTACCTA
GAAATATTGATCCATCAAGTGATGGAATTCAA
Found at i:2289840 original size:34 final size:34
Alignment explanation
Indices: 2289797--2289896 Score: 98
Period size: 34 Copynumber: 2.9 Consensus size: 34
2289787 CCTTTTTCTT
*
2289797 TTTCCCTTTTTTTTCTCATTTTTCCTTTTTTATC-
1 TTTCTCTTTTTTTTCTC-TTTTTCCTTTTTTATCA
* *
2289831 TTTCTCTTTTTTTT-TCTTTTTTTCTTTTTTCTCA
1 TTTCTCTTTTTTTTCTC-TTTTTCCTTTTTTATCA
* * *
2289865 TTTTTCTTCTTTCTTCT-TTTTTCTTTTTTTAT
1 TTTCTCTT-TTTTTTCTCTTTTTCCTTTTTTAT
2289897 TTCTTTGCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
33 16 0.30
34 32 0.59
35 5 0.09
36 1 0.02
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (34 bp):
TTTCTCTTTTTTTTCTCTTTTTCCTTTTTTATCA
Found at i:2289912 original size:27 final size:26
Alignment explanation
Indices: 2289882--2289935 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
2289872 TCTTTCTTCT
2289882 TTTTTCTTTTTTTATTTCTTTGCTGGA
1 TTTTTC-TTTTTTATTTCTTTGCTGGA
*
2289909 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTATTTCTTTGCTGGA
2289935 T
1 T
2289936 GAGTATAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.06, C:0.13, G:0.11, T:0.70
Consensus pattern (26 bp):
TTTTTCTTTTTTATTTCTTTGCTGGA
Found at i:2289924 original size:7 final size:7
Alignment explanation
Indices: 2289840--2289893 Score: 54
Period size: 7 Copynumber: 6.9 Consensus size: 7
2289830 CTTTCTCTTT
2289840 TTTTTTC
1 TTTTTTC
2289847 TTTTTTTC
1 -TTTTTTC
2289855 TTTTTTC
1 TTTTTTC
2289862 TCATTTTTC
1 T--TTTTTC
2289871 TTCTTTCTTC
1 -T-TTT-TTC
2289881 TTTTTTC
1 TTTTTTC
2289888 TTTTTT
1 TTTTTT
2289894 TATTTCTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
7 17 0.41
8 10 0.24
9 10 0.24
10 4 0.10
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:2292868 original size:7 final size:7
Alignment explanation
Indices: 2292834--2292875 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2292824 ATAAGAGTAT
2292834 AAATGCA
1 AAATGCA
* *
2292841 CAATGAA
1 AAATGCA
2292848 AAATGCA
1 AAATGCA
2292855 AAGATGCA
1 AA-ATGCA
2292863 AAATGC-
1 AAATGCA
2292869 AAATGCA
1 AAATGCA
2292876 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:2294381 original size:19 final size:19
Alignment explanation
Indices: 2294349--2294398 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
2294339 TTAATACTTG
2294349 AATAA-AATAAATAAAAAT
1 AATAATAATAAATAAAAAT
*
2294367 AATAATAATATATAAAAAT
1 AATAATAATAAATAAAAAT
2294386 AATAAGTAATAAA
1 AATAA-TAATAAA
2294399 AAATTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 5 0.18
19 17 0.61
20 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAATAAATAAAAAT
Found at i:2294386 original size:16 final size:16
Alignment explanation
Indices: 2294354--2294400 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
2294344 ACTTGAATAA
*
2294354 AATAA-ATAAAAATAAT
1 AATAATATATAAA-AAT
2294370 AATAATATATAAAAAT
1 AATAATATATAAAAAT
2294386 AATAAGTA-ATAAAAA
1 AATAA-TATATAAAAA
2294401 ATTTGAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 20 0.71
17 8 0.29
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
AATAATATATAAAAAT
Found at i:2294842 original size:21 final size:21
Alignment explanation
Indices: 2294816--2294890 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
2294806 GTTTCCAGAT
* *
2294816 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
2294837 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
2294858 TCGCAATGCGAACTTGGTCTA
1 TCGCAATGCGAACTTGGACTA
*
2294879 TCACAATGCGAA
1 TCGCAATGCGAA
2294891 TATGTAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:2294903 original size:20 final size:20
Alignment explanation
Indices: 2294878--2294949 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
2294868 AACTTGGTCT
2294878 ATCACAATGCGAATATGTAA
1 ATCACAATGCGAATATGTAA
*
2294898 ATCACAATGCGAATATGTTA
1 ATCACAATGCGAATATGTAA
**
2294918 ATCGTAATGCGAATATGTAA
1 ATCACAATGCGAATATGTAA
*
2294938 ATCGCAATGCGA
1 ATCACAATGCGA
2294950 TAGTCCAAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCACAATGCGAATATGTAA
Found at i:2294969 original size:21 final size:21
Alignment explanation
Indices: 2294939--2295197 Score: 171
Period size: 21 Copynumber: 12.5 Consensus size: 21
2294929 AATATGTAAA
*
2294939 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
2294960 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
2294980 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
2295001 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
2295022 TCGCATTACGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* * *
2295042 ATCGCATTACGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
* *
2295063 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
2295083 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
* * *
2295104 TCACATTGCGAT-TTACATA-T
1 TCGCATTGCGATAGTCCA-AGT
*
2295124 TCACATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
2295145 TCGCATTGCAATATTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
2295166 TCGCATTGTGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
2295187 TCGCGTTGCGA
1 TCGCATTGCGA
2295198 ATCTGGAAAC
Statistics
Matches: 195, Mismatches: 28, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.01
20 67 0.34
21 124 0.64
22 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:2295005 original size:62 final size:62
Alignment explanation
Indices: 2294939--2295153 Score: 303
Period size: 62 Copynumber: 3.5 Consensus size: 62
2294929 AATATGTAAA
*
2294939 TCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
* *
2295001 TCGCATTGCGATAGTCCAAGTTCGCATTACGATAGTCGACTATCGCATTACGATTTACATAT
1 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
* * * *
2295063 TCGCATTGCGATAGT-CGACTATCGCATTGCGAT--T-TACATATTCACATTGCGATTTACATAT
1 TCGCATTGCGATAGTCCAAGT-TCGCATTGCGATAGTCGAC-TA-TCGCATTGCGATTTACATAT
*
2295124 TCACATTGCGATAGTCCAAGTTCGCATTGC
1 TCGCATTGCGATAGTCCAAGTTCGCATTGC
2295154 AATATTCCAA
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
59 2 0.01
60 3 0.02
61 44 0.32
62 88 0.64
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (62 bp):
TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
Found at i:2295006 original size:20 final size:20
Alignment explanation
Indices: 2294981--2295135 Score: 131
Period size: 20 Copynumber: 7.6 Consensus size: 20
2294971 TAGTCGACTA
2294981 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
2295001 TCGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGAT-TTACATA-T
* *
2295022 TCGCATTACGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
*
2295043 TCGCATTACGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
2295063 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
2295084 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
2295104 TCACATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
2295124 TCACATTGCGAT
1 TCGCATTGCGAT
2295136 AGTCCAAGTT
Statistics
Matches: 115, Mismatches: 8, Indels: 24
0.78 0.05 0.16
Matches are distributed among these distances:
19 4 0.03
20 61 0.53
21 47 0.41
22 2 0.02
23 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:2295026 original size:41 final size:41
Alignment explanation
Indices: 2294959--2295197 Score: 174
Period size: 41 Copynumber: 5.8 Consensus size: 41
2294949 ATAGTCCAAG
* *
2294959 TTCGCATTGCGATAGT-CGACTATCGCATTGCGAT-TTACATA
1 TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGATATT-CATA
* *
2295000 TTCGCATTGCGATAGTCCAAGTTCGCATTACGATAGTCGACTA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATATTC-A-TA
* * * *
2295043 -TCGCATTACGAT-TTACATA-TTCGCATTGCGATAGTCGACTA
1 TTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATATTC-A-TA
* * *
2295084 -TCGCATTGCGAT-TTACATA-TTCACATTGCGAT-TTACATA
1 TTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATATT-CATA
* *
2295123 TTCACATTGCGATAGTCCAAGTTCGCATTGCAATATTCCA-A
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATATT-CATA
* *
2295164 GTTCGCATTGTGATAGTCCAAGTTCGCGTTGCGA
1 -TTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
2295198 ATCTGGAAAC
Statistics
Matches: 166, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.01
40 14 0.08
41 98 0.59
42 50 0.30
43 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (41 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATATTCATA
Found at i:2296781 original size:27 final size:27
Alignment explanation
Indices: 2296718--2296778 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
2296708 TCGTTGGTAG
2296718 TTTTTTTT-TTGTATCTTGTTTCTGTT
1 TTTTTTTTGTTGTATCTTGTTTCTGTT
*
2296744 TTTTTTTTGTTG-CTCTCTGTTCTCTGTT
1 TTTTTTTTGTTGTATCT-TGTT-TCTGTT
2296772 TTTTTTT
1 TTTTTTT
2296779 GTTTTGCAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 11 0.35
27 7 0.23
28 13 0.42
ACGTcount: A:0.02, C:0.11, G:0.11, T:0.75
Consensus pattern (27 bp):
TTTTTTTTGTTGTATCTTGTTTCTGTT
Found at i:2297230 original size:21 final size:21
Alignment explanation
Indices: 2297206--2297248 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2297196 TAATAAAAAT
* *
2297206 ATAATAATTGTAATAATTATA
1 ATAATAATTATAACAATTATA
2297227 ATAATAATTATAACAATTATA
1 ATAATAATTATAACAATTATA
2297248 A
1 A
2297249 CGATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAATAATTATAACAATTATA
Found at i:2297254 original size:21 final size:21
Alignment explanation
Indices: 2297208--2297254 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2297198 ATAAAAATAT
* * *
2297208 AATAATTGTAATAATTATAAT
1 AATAATTATAACAATTATAAC
2297229 AATAATTATAACAATTATAAC
1 AATAATTATAACAATTATAAC
*
2297250 GATAA
1 AATAA
2297255 AAATAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (21 bp):
AATAATTATAACAATTATAAC
Found at i:2299798 original size:20 final size:20
Alignment explanation
Indices: 2299748--2299823 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
2299738 AATAAGTTAG
*
2299748 TAGTATTGATACCCA-AGGGT
1 TAGTATCGATACCCAGA-GGT
* *
2299768 TAATATAGATACCCAGAGGT
1 TAGTATCGATACCCAGAGGT
** *
2299788 TAGTATCGATACTGAGGGGCT
1 TAGTATCGATACCCAGAGG-T
*
2299809 TAGTATCGTTACCCA
1 TAGTATCGATACCCA
2299824 TGAATAGTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 30 0.68
21 14 0.32
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (20 bp):
TAGTATCGATACCCAGAGGT
Found at i:2307517 original size:31 final size:31
Alignment explanation
Indices: 2307455--2307517 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
2307445 CATGAGTTGG
**
2307455 ACAAGCCACATTAGCACCTTCGTCCACGTGT
1 ACAAGCCACATTAGCACCTTCACCCACGTGT
* *
2307486 ACAAGCCAC-TTCAGCATCTTCACCCATGTGT
1 ACAAGCCACATT-AGCACCTTCACCCACGTGT
2307517 A
1 A
2307518 TGTTCTTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (31 bp):
ACAAGCCACATTAGCACCTTCACCCACGTGT
Found at i:2308233 original size:271 final size:273
Alignment explanation
Indices: 2307748--2308292 Score: 806
Period size: 271 Copynumber: 2.0 Consensus size: 273
2307738 GAGTTACTGT
* *
2307748 GGGAGTGAATAAAGCCATTGGAAGGCAGTTTTACCGCATTAAATTCTACTCAGAAGCTATTAGTA
1 GGGAGTGAATAAAGCCATTGGAAGGCAGTTTTACCGCATTAAATGCTACTCAGAAGCTATTACTA
* * * * *
2307813 TTGATATTATATCAATAGTATCGATACTACCTACAATAAATAAAAAAATTTGATCGTTGGAAAAC
66 TCGATACTATATCAATAGTATCGATACTACCAACAATAAATAAAAAAATTTGACCATTGGAAAAC
*
2307878 AACGGTATTGATACTATCTCAAGAAGTATCGATACAACTATATAGAGTAGTATCGATACCAGACA
131 AACGGTATCGATACTATCTCAAGAAGTATCGATACAACTATATAGAGTAGTATCGATACCAGACA
* * * *
2307943 ACGGTATCAGTACCATTTTGAGATTCTTAAAAATTTCAAAGTCAAAACCAAAGGAGTACTATCGG
196 ACGGTAACAGTACCATTTTGAGATTCTGAAAAATTTCAAAGTCAAAACCAAAAGAGTACTATCGA
2308008 TACTACATTCATA
261 TACTACATTCATA
* * ** * *
2308021 GGGAGTGAATAGAGCCGTTGGGGGGCAGTTTTCCCGCATTAAATGCTGCTCAGAAGCTATTACTA
1 GGGAGTGAATAAAGCCATTGGAAGGCAGTTTTACCGCATTAAATGCTACTCAGAAGCTATTACTA
* * *
2308086 TCGGTACTATATCTATATTATCGATACTACCAACAATAAA-AAAAAAA-TTGACCATTGGAAAAC
66 TCGATACTATATCAATAGTATCGATACTACCAACAATAAATAAAAAAATTTGACCATTGGAAAAC
* *
2308149 AACGGTATCGATACTGTCTCAAGAAGTATCGATACTACTATATAGAGTAGTATCGATACCAGACA
131 AACGGTATCGATACTATCTCAAGAAGTATCGATACAACTATATAGAGTAGTATCGATACCAGACA
* * * * *
2308214 ACGGTAACGGTACCATTTTGAGATTCTGGAAAATTTCAGAGTCAAAACTAAAAGAGTAGTATCGA
196 ACGGTAACAGTACCATTTTGAGATTCTGAAAAATTTCAAAGTCAAAACCAAAAGAGTACTATCGA
* *
2308279 TATTGCATTCATA
261 TACTACATTCATA
2308292 G
1 G
2308293 TATTGACACT
Statistics
Matches: 242, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
271 144 0.60
272 7 0.03
273 91 0.38
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (273 bp):
GGGAGTGAATAAAGCCATTGGAAGGCAGTTTTACCGCATTAAATGCTACTCAGAAGCTATTACTA
TCGATACTATATCAATAGTATCGATACTACCAACAATAAATAAAAAAATTTGACCATTGGAAAAC
AACGGTATCGATACTATCTCAAGAAGTATCGATACAACTATATAGAGTAGTATCGATACCAGACA
ACGGTAACAGTACCATTTTGAGATTCTGAAAAATTTCAAAGTCAAAACCAAAAGAGTACTATCGA
TACTACATTCATA
Found at i:2320737 original size:20 final size:18
Alignment explanation
Indices: 2320711--2320750 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2320701 AATATACCTC
*
2320711 ATAATATATATTTATAAA
1 ATAAGATATATTTATAAA
2320729 ATAAGATATATTTATAAA
1 ATAAGATATATTTATAAA
2320747 ATAA
1 ATAA
2320751 ATAAGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATAAGATATATTTATAAA
Found at i:2320777 original size:18 final size:17
Alignment explanation
Indices: 2320714--2320777 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
2320704 ATACCTCATA
2320714 ATATATATTTATAAAAT
1 ATATATATTTATAAAAT
*
2320731 AAGATATATTTATAAAAT
1 -ATATATATTTATAAAAT
* * *
2320749 AAATAAGATTTTTACAAAT
1 ATAT-ATATTTATA-AAAT
2320768 ATATATATTT
1 ATATATATTT
2320778 CCAGCATCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 3 0.08
18 28 0.74
19 7 0.18
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATATATTTATAAAAT
Found at i:2321066 original size:12 final size:15
Alignment explanation
Indices: 2321026--2321069 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
2321016 AAGGTAAGAT
2321026 AAGCAATATCATCAA
1 AAGCAATATCATCAA
2321041 AAGCAATATCATCAA
1 AAGCAATATCATCAA
2321056 AAGCAATATCATCA
1 AAGCAATATCATCA
2321070 TTACAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.20
Consensus pattern (15 bp):
AAGCAATATCATCAA
Found at i:2321680 original size:2 final size:2
Alignment explanation
Indices: 2321675--2321727 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
2321665 ACACACACAC
2321675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2321717 TA TA TA TA TA T
1 TA TA TA TA TA T
2321728 TAATTACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2323863 original size:43 final size:43
Alignment explanation
Indices: 2323815--2323900 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
2323805 TGTAATTGGG
*
2323815 ATTATATCATGTATGTTAACCCC-TTCTCGTTTTCCTCACATCT
1 ATTATATCACGTATGTTAACCCCTTTCTC-TTTTCCTCACATCT
2323858 ATTATATCACGTATGTTAACCCCTTTCTCTTTTCCTCACATCT
1 ATTATATCACGTATGTTAACCCCTTTCTCTTTTCCTCACATCT
2323901 CTTAGTCTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 36 0.88
44 5 0.12
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (43 bp):
ATTATATCACGTATGTTAACCCCTTTCTCTTTTCCTCACATCT
Found at i:2327797 original size:20 final size:19
Alignment explanation
Indices: 2327762--2327799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2327752 TATGACTTGT
*
2327762 ATGAATATATGTATATATA
1 ATGAATATATGCATATATA
2327781 ATGAATAATATGCATATAT
1 ATGAAT-ATATGCATATAT
2327800 TATATATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (19 bp):
ATGAATATATGCATATATA
Found at i:2331942 original size:13 final size:14
Alignment explanation
Indices: 2331913--2331943 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2331903 AACCATGCAA
2331913 GTGATATGAACTAT
1 GTGATATGAACTAT
2331927 GTGATATGAA-TAT
1 GTGATATGAACTAT
2331940 GTGA
1 GTGA
2331944 AATATGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (14 bp):
GTGATATGAACTAT
Found at i:2338043 original size:24 final size:25
Alignment explanation
Indices: 2338007--2338060 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
2337997 GGGGAAAATA
*
2338007 TTTT-TTTTGATTTATTCATTTT-TC
1 TTTTCTTTTGATTTATT-ATTTTAAC
*
2338031 TTTTCTTTT-ATTTCTTATTTTAAC
1 TTTTCTTTTGATTTATTATTTTAAC
2338055 TTTTCT
1 TTTTCT
2338061 CTCTCCACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 17 0.65
25 4 0.15
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTCTTTTGATTTATTATTTTAAC
Found at i:2344154 original size:2 final size:2
Alignment explanation
Indices: 2344149--2344178 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2344139 AAAATATTTG
2344149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2344179 TATGTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2346601 original size:2 final size:2
Alignment explanation
Indices: 2346596--2346661 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
2346586 AAAATATTTG
2346596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2346638 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2346662 TATGTTTGAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2347933 original size:549 final size:550
Alignment explanation
Indices: 2346752--2348904 Score: 3135
Period size: 549 Copynumber: 3.9 Consensus size: 550
2346742 TCGTCGTTTG
* * * * ** *
2346752 ATTCATGT-TGTCTCAGATAATCTTTGTCCACTTGTCGTTGTGAAGTTGCCCATTGTACGGATTC
1 ATTCATGTGT-TCTCAGAGAATCTTTGTCCACTCGTCATTGTGAAGTTGCTCAACGTACAGATTC
* **
2346816 ACGGTCGGAGACATTCGCCGTCACTGGAAAATCTCAATAAATATTTGAC-ATGTTCTTTAAATTT
65 ACGGTCGGAGATATTCGCCGTCACTGGAAAATCTCAATAAAGGTTTGACAAT-TTCTTTAAATTT
* * * ** *
2346880 -TCTATATTTATTTTAATTTCTTCTCTTAGCTCTATATTTTTTTTGTTGATTTGTAGACCTATTG
129 GT-TCTATTTATTTTAATTTCTTCTGTTAGCTCTTTATTTTTTTTGCCGATTTGTATA-CT-TT-
* * * *
2346944 TTTTACAGATTTTTAAGTTGTGTTACAATTTTTTTTTATAGATTATAGTATTTTCATGTTATTGG
190 TTTTACAGATTTTTAGGTTGTGTTACAA--TTTTTTTATAGATTATAGTCTTATCATATTATTGG
* * * * *
2347009 AGTTTTGCTAGGTTAACCTTGCTGAAATTTGGGAATAGGTAGTGATTTTATCGTTTTCCGGTATT
253 AGTTTTTCTAGGTTAACCCTGCTGAAATTTGGGAATAGGTAGTGATTTTGTCGCTTTCTGGTATT
*
2347074 GGGTGGAAAGTGAATTTGGAGGGGGTTGGGTTGATTGGTTATCGATTGCTATTA-GGTTAAGGGT
318 GGGTGTAAAGTGAATTTGGAGGGGGTTGGGTTGATTGGTTATCGATTGCTATTAGGGTTAAGGGT
* * * *
2347138 ATTTGGATCTGAATGTATTTTTGAAGGTTGGGGTGCATATTGAGTTTGAGTTTTAAGTAGATATA
383 A-TTGGATCTGAATATATTTTTGGAGGTTGGGTTGCATATTGAGTTTGAGTTTTAACTAGATATA
* *
2347203 TTTTTGGTTTTATTTTGATTCGGCCTTGATTAATGTATTTTTAAACCCCAAACAAAAATAATGTT
447 TTTTTGGTTTTATTTTGATTCGGGCTTGATTAATGGATTTTTAAACCCCAAACAAAAATAATGTT
* * *
2347268 TAAAATAGACA-TTTTAGTTCTCTTATGGGTGTAAATTA
512 TAAAATAGACATTTTTAGTTATCTTATGGGCGTAAATAA
* * * * *
2347306 ATTCATGTGTTCTTATAGAATCTTTGTCTACTCGTCATTGTGAAGTTGCTCCACGTACAAATTCA
1 ATTCATGTGTTCTCAGAGAATCTTTGTCCACTCGTCATTGTGAAGTTGCTCAACGTACAGATTCA
* * *
2347371 CAGTTGGAGATATTCGCCGTCACTAGAAAATCTCAATAAAGGTTTGACAATTTCTTTAAATTTGT
66 CGGTCGGAGATATTCGCCGTCACTGGAAAATCTCAATAAAGGTTTGACAATTTCTTTAAATTTGT
*
2347436 TCTATTTATTTTAATTTCTTCTGTTAGCTCTTTATTTTTTTTACCGATTTGTATACTTTTTTATA
131 TCTATTTATTTTAATTTCTTCTGTTAGCTCTTTATTTTTTTTGCCGATTTGTATACTTTTTT-TA
* *
2347501 CATA-TTTTAGGTAGTGTTACAATTTTTTTATAGATTATAGTCTTATCATATTATTGGAGTTTTT
195 CAGATTTTTAGGTTGTGTTACAATTTTTTTATAGATTATAGTCTTATCATATTATTGGAGTTTTT
* *
2347565 CTAGGTTAACCCTACTGAAATTTGGGAATAGGTAGTGATTTTGTCGCTTTCTGGTATTTGGTGTA
260 CTAGGTTAACCCTGCTGAAATTTGGGAATAGGTAGTGATTTTGTCGCTTTCTGGTATTGGGTGTA
* *
2347630 AAGTGAATTTGGA-GGGGTTGGGTTGATTGGTTACCGATTTCTATTA-GGTTAAGGGTATTTGGA
325 AAGTGAATTTGGAGGGGGTTGGGTTGATTGGTTATCGATTGCTATTAGGGTTAAGGGTA-TTGGA
*
2347693 TCTGAATATATTTTTGGAGGTTGGGTTGCATATTGAGTTTGAGTTTTAAGTAGATATATTTTTGG
389 TCTGAATATATTTTTGGAGGTTGGGTTGCATATTGAGTTTGAGTTTTAACTAGATATATTTTTGG
2347758 TTTTATTTTGATTCGGGCTTGATTAATGGATTTTTAAACCCCAAACAAAAATAATGTTTAAAATA
454 TTTTATTTTGATTCGGGCTTGATTAATGGATTTTTAAACCCCAAACAAAAATAATGTTTAAAATA
2347823 GACATTTTTAGTTATCTTATGGGCGTAAATAA
519 GACATTTTTAGTTATCTTATGGGCGTAAATAA
* * *
2347855 ATTCATGTGTTCTCATAGAATCTTTGTCTACTCGTCATTGTGAAGTTGCTCAACGTACATATTCA
1 ATTCATGTGTTCTCAGAGAATCTTTGTCCACTCGTCATTGTGAAGTTGCTCAACGTACAGATTCA
* * *
2347920 CGGTTGGAGATATTCGTCGTCACTGGAAAATCTCAATAAATGTTTGACAATTTCTTTAAATTTGT
66 CGGTCGGAGATATTCGCCGTCACTGGAAAATCTCAATAAAGGTTTGACAATTTCTTTAAATTTGT
* *
2347985 TCTATTTATTTTAATTTCTTCAGTTAGCTCTTTA-TTTTTTTGTCGATTTGTATACTTTTTTATA
131 TCTATTTATTTTAATTTCTTCTGTTAGCTCTTTATTTTTTTTGCCGATTTGTATACTTTTTT-TA
* *
2348049 CATA-TTTTAGGTTGTGTTACAATTGTTTTTATAGATTATAGTTTTATCATATTATTGGAGTTTT
195 CAGATTTTTAGGTTGTGTTACAATT-TTTTTATAGATTATAGTCTTATCATATTATTGGAGTTTT
*
2348113 TCTAGGTTAACCCTGCTGAAATTTGGGAATAGGTAGTGATTTTG-CAGCTTTCTGATATTGGGTG
259 TCTAGGTTAACCCTGCTGAAATTTGGGAATAGGTAGTGATTTTGTC-GCTTTCTGGTATTGGGTG
* * *
2348177 TAAAGTGAATTTGGA-GGGGTTGGGTTGATTGGTTATCAAGTGCTATTAGGGTTAAGGGTATTGA
323 TAAAGTGAATTTGGAGGGGGTTGGGTTGATTGGTTATCGATTGCTATTAGGGTTAAGGGTATTGG
* *
2348241 ATCTTAATATATTTTTGGAGGTTGGGTTGCATATTGTGTTTGAGTTTTAACTAGATATATTTTTG
388 ATCTGAATATATTTTTGGAGGTTGGGTTGCATATTGAGTTTGAGTTTTAACTAGATATATTTTTG
* *
2348306 TTTTTATTTTGATTCGGGCTTGATTAATGGATTTTTAAATCCCAAACAAAAATAATGTTTAAAAT
453 GTTTTATTTTGATTCGGGCTTGATTAATGGATTTTTAAACCCCAAACAAAAATAATGTTTAAAAT
* * *
2348371 AGACATTTTTAGTTATATTTTGGGCATAAATAA
518 AGACATTTTTAGTTATCTTATGGGCGTAAATAA
* * * * * *
2348404 ATTCATGTGATCTCAGAGAATCTTTGTCCACTCGTCGTTGTGAAGTTGCTCATCATACGGATTTA
1 ATTCATGTGTTCTCAGAGAATCTTTGTCCACTCGTCATTGTGAAGTTGCTCAACGTACAGATTCA
* * * *
2348469 TGGTCGGAGATATTCGTCGTTACTGGAAAATCTCAATAAAGGTTTGACATTTTCTTTAAATTTGT
66 CGGTCGGAGATATTCGCCGTCACTGGAAAATCTCAATAAAGGTTTGACAATTTCTTTAAATTTGT
* *
2348534 TCTATTTATTTTAATTTCTTCTATTAGCTC-----TTTTTTTGCCGATTTGTAAACATTTTTTTA
131 TCTATTTATTTTAATTTCTTCTGTTAGCTCTTTATTTTTTTTGCCGATTTGTATAC-TTTTTTTA
* * *
2348594 CAGATTTTTAGGCTGTGTTACAATTTTTTTATATATTATAGTCTTATCATATTTTTGGAG-TTTT
195 CAGATTTTTAGGTTGTGTTACAATTTTTTTATAGATTATAGTCTTATCATATTATTGGAGTTTTT
* * *
2348658 CTAGGTTAATCCC-GCTGAAATTTGGGAATAGGTAGTGATTTT-TCCGCTTTCTAGTATTGAGTT
260 CTAGGTTAA-CCCTGCTGAAATTTGGGAATAGGTAGTGATTTTGT-CGCTTTCTGGTATTGGGTG
2348721 TAAAGTGAATTTGGAGGGGGTTGGGTTGATTGGTTATCGATTGCTATTAGGGTTAAGGGTATTGG
323 TAAAGTGAATTTGGAGGGGGTTGGGTTGATTGGTTATCGATTGCTATTAGGGTTAAGGGTATTGG
* * *
2348786 ATCTGAATATATTTTTGGAGGTTAGGTTGTATATTGCGTTTGAGTTTTAACTAGATATATTTTT-
388 ATCTGAATATATTTTTGGAGGTTGGGTTGCATATTGAGTTTGAGTTTTAACTAGATATATTTTTG
* * *
2348850 GTTTTATTTTGATTCGGGCTTGATTAATGGAGTTTT-ACCCCCAAACAAATATAAT
453 GTTTTATTTTGATTCGGGCTTGATTAATGGATTTTTAAACCCCAAACAAAAATAAT
2348905 AGACATTTTT
Statistics
Matches: 1469, Mismatches: 116, Indels: 39
0.90 0.07 0.02
Matches are distributed among these distances:
543 16 0.01
544 105 0.07
545 166 0.11
546 25 0.02
548 229 0.16
549 732 0.50
550 11 0.01
551 19 0.01
552 7 0.00
553 2 0.00
554 153 0.10
555 4 0.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (550 bp):
ATTCATGTGTTCTCAGAGAATCTTTGTCCACTCGTCATTGTGAAGTTGCTCAACGTACAGATTCA
CGGTCGGAGATATTCGCCGTCACTGGAAAATCTCAATAAAGGTTTGACAATTTCTTTAAATTTGT
TCTATTTATTTTAATTTCTTCTGTTAGCTCTTTATTTTTTTTGCCGATTTGTATACTTTTTTTAC
AGATTTTTAGGTTGTGTTACAATTTTTTTATAGATTATAGTCTTATCATATTATTGGAGTTTTTC
TAGGTTAACCCTGCTGAAATTTGGGAATAGGTAGTGATTTTGTCGCTTTCTGGTATTGGGTGTAA
AGTGAATTTGGAGGGGGTTGGGTTGATTGGTTATCGATTGCTATTAGGGTTAAGGGTATTGGATC
TGAATATATTTTTGGAGGTTGGGTTGCATATTGAGTTTGAGTTTTAACTAGATATATTTTTGGTT
TTATTTTGATTCGGGCTTGATTAATGGATTTTTAAACCCCAAACAAAAATAATGTTTAAAATAGA
CATTTTTAGTTATCTTATGGGCGTAAATAA
Found at i:2349890 original size:21 final size:22
Alignment explanation
Indices: 2349848--2349888 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2349838 AAAAATCATC
2349848 TTAATTTAAAAAATAGTAAAAT
1 TTAATTTAAAAAATAGTAAAAT
*
2349870 TTAA-TTAAAATATA-TAAAA
1 TTAATTTAAAAAATAGTAAAA
2349889 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAATTTAAAAAATAGTAAAAT
Found at i:2350237 original size:2 final size:2
Alignment explanation
Indices: 2350230--2350271 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2350220 TTCATATGTG
2350230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2350272 CATACAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2350483 original size:2 final size:2
Alignment explanation
Indices: 2350476--2350518 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2350466 TTTAGGGTGA
2350476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2350518 A
1 A
2350519 ATTGAATACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2359156 original size:81 final size:81
Alignment explanation
Indices: 2359022--2359822 Score: 1145
Period size: 81 Copynumber: 9.9 Consensus size: 81
2359012 ACCCAAAGAC
* ** * * * * *
2359022 ATTTAACCTTTCATATAACAAGCATGAATGGCACTTTTCTGCCAAATGTACAACTAGGCATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359087 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * * *
2359103 ATTTAACCTTTCATCTAACTGGTATGAGTGACACATTTTTGTCATATACACAACTAGGTATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359168 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * * *
2359184 ATTTAACCTTTCATATAACTGGAATGATTGACACTTTTCTATCAAATGCGCAGCTAGGCATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359249 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* *
2359265 ATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGCATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359330 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * *
2359346 ATTTAACCTTTCATCTAACTTGCATGATTAACATC-TTTCTGTCAAATGCAAAACTATGCATTTA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACA-CATTTCTGTCAAATGCACAACTAGGCATTTA
2359410 ATCTTTTACTCAAAGGT
65 ATCTTTTACTCAAAGGT
* * * * * *
2359427 ATTTAACCTTTCGTCTAACTAGTATGATTGACACATTTCTGTCAAATACATAACTAGACATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359492 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
** * *
2359508 ATTTATTCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAGGAATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359573 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* *
2359589 GTTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAGCTAGGCATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359654 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * *
2359670 ATTTAACGTATCATCTAACTGACATGATTGACACGTTTCTGTCAAAAGCACAACTAGGCATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
* *
2359735 TTTTTTACTCAAAAGT
66 TCTTTTACTCAAAGGT
* * * *
2359751 ATTTAACCTTTCATCTAACTGGCATGATTGAAACCTTTCTGTAAAATGCACAACTAGGTATTTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
2359816 TCTTTTA
66 TCTTTTA
2359823 TTTTAAAACA
Statistics
Matches: 641, Mismatches: 77, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
80 1 0.00
81 639 1.00
82 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGCACAACTAGGCATTTAA
TCTTTTACTCAAAGGT
Found at i:2360371 original size:20 final size:19
Alignment explanation
Indices: 2360346--2360389 Score: 79
Period size: 20 Copynumber: 2.3 Consensus size: 19
2360336 ATCAATACCC
2360346 CATCAGTATCGATACTATT
1 CATCAGTATCGATACTATT
2360365 GCATCAGTATCGATACTATT
1 -CATCAGTATCGATACTATT
2360385 CATCA
1 CATCA
2360390 TATTTATGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (19 bp):
CATCAGTATCGATACTATT
Found at i:2368449 original size:20 final size:21
Alignment explanation
Indices: 2368414--2368452 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2368404 TAAACTACGA
*
2368414 GAATATAAATGTACTTTAAGC
1 GAATATAAATGAACTTTAAGC
2368435 GAATA-AAATGAACTTTAA
1 GAATATAAATGAACTTTAA
2368453 ATTGTGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.31
Consensus pattern (21 bp):
GAATATAAATGAACTTTAAGC
Found at i:2368574 original size:22 final size:23
Alignment explanation
Indices: 2368542--2368607 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
2368532 AGTAGAGGGT
* * *
2368542 TCTACGCGGTCATTCGGGATA-A
1 TCTACGTGGTCCTTCGGGACATA
* *
2368564 TCTATGTGGTCCTTCGGGACATT
1 TCTACGTGGTCCTTCGGGACATA
2368587 TCTACGTGGTCCTTCGGGACA
1 TCTACGTGGTCCTTCGGGACA
2368608 AATTCCATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 17 0.46
23 20 0.54
ACGTcount: A:0.17, C:0.24, G:0.27, T:0.32
Consensus pattern (23 bp):
TCTACGTGGTCCTTCGGGACATA
Found at i:2374928 original size:21 final size:21
Alignment explanation
Indices: 2374902--2374941 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2374892 AAGAGTAAGG
2374902 TATCGATACTATTATTAAGAA
1 TATCGATACTATTATTAAGAA
2374923 TATCGATACTATTATTAAG
1 TATCGATACTATTATTAAG
2374942 TATAGAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (21 bp):
TATCGATACTATTATTAAGAA
Found at i:2375616 original size:23 final size:23
Alignment explanation
Indices: 2375584--2375649 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
2375574 TCGAGGGTTG
* *
2375584 TACGTGGTCCTTCGGGACATTTC
1 TACGTAGTCCTTCGGGACAATTC
* *
2375607 TACGTTGTCCTTTGGGACAAATTC
1 TACGTAGTCCTTCGGGAC-AATTC
**
2375631 TACACAGTCCTTCGGGACA
1 TACGTAGTCCTTCGGGACA
2375650 CATTTTAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 17 0.49
24 18 0.51
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.32
Consensus pattern (23 bp):
TACGTAGTCCTTCGGGACAATTC
Found at i:2378594 original size:14 final size:14
Alignment explanation
Indices: 2378575--2378613 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
2378565 GGTCCTAAAT
2378575 TAAATTTAATTGAA
1 TAAATTTAATTGAA
2378589 TAAATTTAATTGAA
1 TAAATTTAATTGAA
2378603 TAAATTTAATT
1 TAAATTTAATT
2378614 AACCAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (14 bp):
TAAATTTAATTGAA
Found at i:2381405 original size:20 final size:20
Alignment explanation
Indices: 2381380--2381433 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
2381370 AAAAGATTGA
2381380 GTGCATCGATGCATGATCTT
1 GTGCATCGATGCATGATCTT
2381400 GTGCATCGATGCATGATCTT
1 GTGCATCGATGCATGATCTT
2381420 GTGCATCGATGCAT
1 GTGCATCGATGCAT
2381434 CAAATGCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATGATCTT
Found at i:2384214 original size:21 final size:21
Alignment explanation
Indices: 2384152--2384274 Score: 129
Period size: 21 Copynumber: 5.7 Consensus size: 21
2384142 GCATGGCCTT
2384152 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAA-G
* * * *
2384174 CGTGCATTGGTGCACCTTCATG
1 -GTGCATCGATGCACATTCAAG
*
2384196 GTGTATCGATGCACATTCAAG
1 GTGCATCGATGCACATTCAAG
* * *
2384217 GATGCATCGATGAACCTTCATG
1 G-TGCATCGATGCACATTCAAG
*
2384239 GTGTATCGATGCACATTCAAG
1 GTGCATCGATGCACATTCAAG
2384260 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
2384275 TGTTAGGTGT
Statistics
Matches: 80, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
21 34 0.43
22 30 0.38
23 16 0.20
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (21 bp):
GTGCATCGATGCACATTCAAG
Found at i:2384237 original size:43 final size:43
Alignment explanation
Indices: 2384156--2384293 Score: 199
Period size: 43 Copynumber: 3.2 Consensus size: 43
2384146 GGCCTTGTGC
* * *
2384156 ATCGATGCACATTCAAGGCGTGCATTGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGATGCACCTTCATGGTGT
*
2384200 ATCGATGCACATTCAAGGATGCATCGATGAACCTTCATGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACCTTCATGGTGT
*
2384243 ATCGATGCACATTCAAGGATGCATCGATGCA-CTGTTA-GGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACCT-TCATGGTGT
2384285 ATCGATGCA
1 ATCGATGCA
2384294 TGAAGCACAA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
42 16 0.18
43 53 0.61
44 18 0.21
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (43 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACCTTCATGGTGT
Found at i:2384290 original size:20 final size:21
Alignment explanation
Indices: 2384156--2384293 Score: 118
Period size: 21 Copynumber: 6.4 Consensus size: 21
2384146 GGCCTTGTGC
*
2384156 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTCAA-G-GTGT
* * * *
2384179 ATTGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
2384200 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
* * *
2384222 ATCGATGAACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
2384243 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
2384265 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
2384285 ATCGATGCA
1 ATCGATGCA
2384294 TGAAGCACAA
Statistics
Matches: 92, Mismatches: 20, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
20 11 0.12
21 38 0.41
22 31 0.34
23 12 0.13
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:2390179 original size:91 final size:90
Alignment explanation
Indices: 2390077--2390250 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 90
2390067 GGTGCACTAA
* **
2390077 GAGTGCATCGATGCATAAAATGCATTCGATATTTTGAAAAA-GCCTGAGTGCATCGATGCAT-GA
1 GAGTGCATCGATGCATAAAATGCATTCGAT-GTTTGAAAAATAACTG-GTGCATCGATGCATGGA
*
2390140 TCTTGTGCATCGATGCATCAAATGCACT
64 T-TGGTGCATCGATGCATCAAATGCACT
*
2390168 GAGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATTAATTGGTGCATCGATGCATGGAT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAAA-TAACTGGTGCATCGATGCATGGAT
*
2390233 TGGTGCATCGGTGCATCA
65 TGGTGCATCGATGCATCA
2390251 CTCTTAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
90 9 0.12
91 60 0.81
92 5 0.07
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (90 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAACTGGTGCATCGATGCATGGATT
GGTGCATCGATGCATCAAATGCACT
Found at i:2390236 original size:20 final size:20
Alignment explanation
Indices: 2390211--2390248 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2390201 TGAAAAATTA
2390211 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
2390231 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
2390249 CACTCTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:2393546 original size:2 final size:2
Alignment explanation
Indices: 2393539--2393579 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2393529 TAATTATGTA
2393539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2393580 AGGTCTACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2397572 original size:19 final size:20
Alignment explanation
Indices: 2397548--2397592 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2397538 AAAATGGCCC
* *
2397548 AATTTC-ACATTCTAACATA
1 AATTTCAACACTCAAACATA
*
2397567 AATTTCAACACTCAAACATT
1 AATTTCAACACTCAAACATA
2397587 AATTTC
1 AATTTC
2397593 CAGCATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTCAACACTCAAACATA
Found at i:2404579 original size:24 final size:24
Alignment explanation
Indices: 2404535--2404619 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
2404525 AAATATTTTA
* *
2404535 TCTGATTTTTGA-CTTGAATTCTGT
1 TCTGATTTCTGATCTAG-ATTCTGT
2404559 TCTGATTTCTGATCTAGATTCTGT
1 TCTGATTTCTGATCTAGATTCTGT
* *
2404583 TCTGATATT-TGTTCTAAATTCTGT
1 TCTGAT-TTCTGATCTAGATTCTGT
*
2404607 TTTGATTTCTGAT
1 TCTGATTTCTGAT
2404620 ATCTCAGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.04
24 45 0.87
25 5 0.10
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (24 bp):
TCTGATTTCTGATCTAGATTCTGT
Found at i:2404616 original size:12 final size:12
Alignment explanation
Indices: 2404553--2404617 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
2404543 TTGACTTGAA
2404553 TTCTGTTCTGAT
1 TTCTGTTCTGAT
*
2404565 TTCTGATCTAGA-
1 TTCTGTTCT-GAT
2404577 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* *
2404589 ATT-TGTTCTAAA
1 -TTCTGTTCTGAT
*
2404601 TTCTGTTTTGAT
1 TTCTGTTCTGAT
2404613 TTCTG
1 TTCTG
2404618 ATATCTCAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 4 0.10
12 34 0.81
13 4 0.10
ACGTcount: A:0.15, C:0.14, G:0.15, T:0.55
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:2406710 original size:22 final size:23
Alignment explanation
Indices: 2406667--2406716 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
2406657 AATTAATTTC
*
2406667 TATTTGGGTGCTATTTGTGTAAA
1 TATTTGGGTGCTATTTGAGTAAA
*
2406690 -ATTTGGGTGTTAGTTT-AGTAAA
1 TATTTGGGTGCTA-TTTGAGTAAA
2406712 TATTT
1 TATTT
2406717 ACATAAGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (23 bp):
TATTTGGGTGCTATTTGAGTAAA
Found at i:2409332 original size:24 final size:24
Alignment explanation
Indices: 2409297--2409368 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
2409287 GATACTTGAC
*
2409297 CTAAATTCTGTTCTGATTTCTGAT
1 CTAAATTCTGTTATGATTTCTGAT
* * *
2409321 CTAGATTTTGTTATGATATT-TGTT
1 CTAAATTCTGTTATGAT-TTCTGAT
*
2409345 CTAAATTCTGTTTTGATTTCTGAT
1 CTAAATTCTGTTATGATTTCTGAT
2409369 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.05
24 34 0.89
25 2 0.05
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (24 bp):
CTAAATTCTGTTATGATTTCTGAT
Found at i:2409365 original size:12 final size:12
Alignment explanation
Indices: 2409302--2409366 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
2409292 TTGACCTAAA
2409302 TTCTGTTCTGAT
1 TTCTGTTCTGAT
*
2409314 TTCTGATCTAGAT
1 TTCTGTTCT-GAT
*
2409327 TT-TGTTATGAT
1 TTCTGTTCTGAT
* *
2409338 ATT-TGTTCTAAA
1 -TTCTGTTCTGAT
*
2409350 TTCTGTTTTGAT
1 TTCTGTTCTGAT
2409362 TTCTG
1 TTCTG
2409367 ATATCTCCGT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
11 5 0.12
12 31 0.76
13 5 0.12
ACGTcount: A:0.17, C:0.11, G:0.15, T:0.57
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:2411571 original size:15 final size:16
Alignment explanation
Indices: 2411551--2411588 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2411541 TCATCTTTTT
*
2411551 CTCTTCATTTTCA-TC
1 CTCTTCATTTCCACTC
2411566 CTCTTCATTTCCACTC
1 CTCTTCATTTCCACTC
2411582 C-CTTCAT
1 CTCTTCAT
2411589 GTTCTCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.13, C:0.39, G:0.00, T:0.47
Consensus pattern (16 bp):
CTCTTCATTTCCACTC
Found at i:2413065 original size:32 final size:33
Alignment explanation
Indices: 2413020--2413169 Score: 114
Period size: 32 Copynumber: 4.7 Consensus size: 33
2413010 CATAGTAGTA
* *
2413020 TCAGTATTACATTCAGATAATACATAGCAA-AG
1 TCAGTATTGCATTCAGATAATGCATAGCAAGAG
* * * *
2413052 TTAGTGTTGCATTCTA-ATAATGC--ACCAAATAG
1 TCAGTATTGCATTC-AGATAATGCATAGC-AAGAG
2413084 TCAGTATTGCATTCAGATAATGCATAG-AAGAG
1 TCAGTATTGCATTCAGATAATGCATAGCAAGAG
* * * * *
2413116 TCAATATTACATTCAGATAGTGCACATC-AGAG
1 TCAGTATTGCATTCAGATAATGCATAGCAAGAG
* * *
2413148 TTAGTGTTGCATTCAAATAATG
1 TCAGTATTGCATTCAGATAATG
2413170 TACAAGAGCG
Statistics
Matches: 91, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
30 2 0.02
31 3 0.03
32 84 0.92
33 1 0.01
34 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (33 bp):
TCAGTATTGCATTCAGATAATGCATAGCAAGAG
Found at i:2413183 original size:96 final size:96
Alignment explanation
Indices: 2413024--2413201 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
2413014 GTAGTATCAG
* * *
2413024 TATTACATTCAGATAATACATAGCAAAGTTAGTGTTGCATTCTAATAATGCACCAAATAGTCAGT
1 TATTACATTCAGATAATACACAGCAAAGTTAGTGTTGCATTCAAATAATGCACCAAAGAGTCAGT
* *
2413089 ATTGCATTCAGATAATGCATAGAAGAGTCAA
66 ATCGCATTCAGACAATGCATAGAAGAGTCAA
* * * * * *
2413120 TATTACATTCAGATAGTGCACATCAGAGTTAGTGTTGCATTCAAATAATGTA-CAAGAGCGTCAG
1 TATTACATTCAGATAATACACAGCAAAGTTAGTGTTGCATTCAAATAATGCACCAA-AGAGTCAG
*
2413184 TATCGCATTTAGACAATG
65 TATCGCATTCAGACAATG
2413202 AGTATCAGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
95 3 0.04
96 66 0.96
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (96 bp):
TATTACATTCAGATAATACACAGCAAAGTTAGTGTTGCATTCAAATAATGCACCAAAGAGTCAGT
ATCGCATTCAGACAATGCATAGAAGAGTCAA
Found at i:2418774 original size:32 final size:32
Alignment explanation
Indices: 2418738--2418892 Score: 116
Period size: 32 Copynumber: 4.8 Consensus size: 32
2418728 CATAGTAGTA
*
2418738 TCAGTGTTGCATTCAGATAATGCATAGCATAG
1 TCAGTGTTGCATTCAGATAATGCACAGCATAG
* * *
2418770 TCAGTGTTGCATTCAGATAAAGCACA-AATGAT
1 TCAGTGTTGCATTCAGATAATGCACAGCAT-AG
* * * * * **
2418802 TCAGTATTGTATTTAGATATTACTTAGCATAG
1 TCAGTGTTGCATTCAGATAATGCACAGCATAG
* * * * *
2418834 TCAATATTACATTCAGATAATGCACATCAAAG
1 TCAGTGTTGCATTCAGATAATGCACAGCATAG
* *
2418866 TTAGTGTTGCATTCTA-ATAATGTACAG
1 TCAGTGTTGCATTC-AGATAATGCACAG
2418893 GAGCGTCAGT
Statistics
Matches: 90, Mismatches: 30, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
31 2 0.02
32 85 0.94
33 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
TCAGTGTTGCATTCAGATAATGCACAGCATAG
Found at i:2424320 original size:19 final size:19
Alignment explanation
Indices: 2424296--2424333 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2424286 TTTGGAAATC
2424296 CATGTGGTGCTTCTTTTCT
1 CATGTGGTGCTTCTTTTCT
2424315 CATGTGGTGCTTCTTTTCT
1 CATGTGGTGCTTCTTTTCT
2424334 TTCTCTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.21, G:0.21, T:0.53
Consensus pattern (19 bp):
CATGTGGTGCTTCTTTTCT
Found at i:2426692 original size:20 final size:20
Alignment explanation
Indices: 2426663--2426700 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2426653 CAGAATGTCC
2426663 TATGGGTACCGATACCCCCT
1 TATGGGTACCGATACCCCCT
*
2426683 TATGGTTACCGATACCCC
1 TATGGGTACCGATACCCC
2426701 TAGTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.34, G:0.18, T:0.26
Consensus pattern (20 bp):
TATGGGTACCGATACCCCCT
Found at i:2432998 original size:13 final size:13
Alignment explanation
Indices: 2432975--2433013 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
2432965 AAAACTACAT
2432975 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAC
2432989 ATTGTTTTCAAAC
1 ATTGTTTTCAAAC
*
2433002 ATAGTTTTCAAA
1 ATTGTTTTCAAA
2433014 ATTTTCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:2435202 original size:20 final size:20
Alignment explanation
Indices: 2435177--2435214 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2435167 TAGAATGCCC
* *
2435177 TATGGGTGTTGATACCCCCA
1 TATGGGTATCGATACCCCCA
2435197 TATGGGTATCGATACCCC
1 TATGGGTATCGATACCCC
2435215 TAGTCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (20 bp):
TATGGGTATCGATACCCCCA
Found at i:2437814 original size:20 final size:18
Alignment explanation
Indices: 2437770--2437821 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
2437760 ATTTCAATTA
*
2437770 CAGTATCGATACCTTACT
1 CAGTATCGATACCTCACT
2437788 CTTAGTATCGATACCTCCACAT
1 C--AGTATCGATACCT-CAC-T
2437810 CAGTATCGATAC
1 CAGTATCGATAC
2437822 TACTTCAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
20 24 0.83
21 2 0.07
22 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (18 bp):
CAGTATCGATACCTCACT
Found at i:2437905 original size:20 final size:20
Alignment explanation
Indices: 2437880--2437922 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2437870 ACATTTTAAC
2437880 CTTATAGTATCGGTATTGTT
1 CTTATAGTATCGGTATTGTT
2437900 CTTATAGTATCGGTATTGTT
1 CTTATAGTATCGGTATTGTT
2437920 CTT
1 CTT
2437923 CCAGTATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.51
Consensus pattern (20 bp):
CTTATAGTATCGGTATTGTT
Found at i:2437928 original size:20 final size:20
Alignment explanation
Indices: 2437880--2437931 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2437870 ACATTTTAAC
*
2437880 CTTATAGTATCGGTATTGTT
1 CTTACAGTATCGGTATTGTT
*
2437900 CTTATAGTATCGGTATTGTT
1 CTTACAGTATCGGTATTGTT
*
2437920 CTTCCAGTATCG
1 CTTACAGTATCG
2437932 ATACCCTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (20 bp):
CTTACAGTATCGGTATTGTT
Found at i:2443900 original size:2 final size:2
Alignment explanation
Indices: 2443893--2443921 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2443883 AGCAAAAATA
2443893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2443922 GTTTAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2447439 original size:29 final size:27
Alignment explanation
Indices: 2447407--2447582 Score: 142
Period size: 29 Copynumber: 6.1 Consensus size: 27
2447397 ACCGGGTCAC
2447407 ATTTTGAGAATTAATTCAAAATGGGTGCT
1 ATTTTG-GAATTAATTCAAAAT-GGTGCT
* *
2447436 ATTTTAGGAATTAATTCAAAAAGGGTGTT
1 ATTTT-GGAATTAATTC-AAAATGGTGCT
*
2447465 ATTTTGGGAATTTATTCAAAA--GTGCT
1 ATTTT-GGAATTAATTCAAAATGGTGCT
* **
2447491 ATTTTGGGAATTTAATTTGAAAAAAGTGCT
1 ATTTT-GGAA-TTAA-TTCAAAATGGTGCT
2447521 ATTTTTGGAATTTAATTCGAAAAT-GTGCT
1 A-TTTTGGAA-TTAATTC-AAAATGGTGCT
* *
2447550 ATTTTGGTAATTATTTTAAAAATGGTGCT
1 ATTTTGG-AATTA-ATTCAAAATGGTGCT
2447579 ATTT
1 ATTT
2447583 CTGTAAAATG
Statistics
Matches: 125, Mismatches: 11, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
26 14 0.11
27 3 0.02
28 24 0.19
29 56 0.45
30 24 0.19
31 4 0.03
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.43
Consensus pattern (27 bp):
ATTTTGGAATTAATTCAAAATGGTGCT
Found at i:2448632 original size:14 final size:14
Alignment explanation
Indices: 2448596--2448634 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
2448586 ATGTTTGATG
*
2448596 AAATGATTTTACTA
1 AAATGATTTTATTA
2448610 AAAT-ATTTTATTA
1 AAATGATTTTATTA
*
2448623 AAATGTTTTTAT
1 AAATGATTTTAT
2448635 ACATTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (14 bp):
AAATGATTTTATTA
Found at i:2454651 original size:29 final size:29
Alignment explanation
Indices: 2454619--2454768 Score: 162
Period size: 29 Copynumber: 5.1 Consensus size: 29
2454609 ACCGGGTGAC
**
2454619 ATTTTGGGAATTAATTTGAAATGGGTGCT
1 ATTTTGGGAATTAATTTGAAAAAGGTGCT
*
2454648 ATTTTGGGAATTAA-TTCAAAAAGGTGCT
1 ATTTTGGGAATTAATTTGAAAAAGGTGCT
* * *
2454676 ATTTTTGAGAATTTATTTAGAAAAAAGTGCT
1 A-TTTTGGGAATTAATTT-GAAAAAGGTGCT
*
2454707 ATTTTGGGAATTTAATTCG-AAAAGGTGCT
1 ATTTTGGGAA-TTAATTTGAAAAAGGTGCT
* *
2454736 ATTTTGGTAATT-ATTTTAAAAATGGTGCT
1 ATTTTGGGAATTAATTTGAAAAA-GGTGCT
2454765 ATTT
1 ATTT
2454769 CTGTAAAATG
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.03
28 18 0.18
29 53 0.52
30 11 0.11
31 16 0.16
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (29 bp):
ATTTTGGGAATTAATTTGAAAAAGGTGCT
Found at i:2455520 original size:15 final size:15
Alignment explanation
Indices: 2455500--2455532 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2455490 TGATACGTGA
2455500 TTCCTGA-ATATTGAT
1 TTCCTGATATA-TGAT
2455515 TTCCTGATATATGAT
1 TTCCTGATATATGAT
2455530 TTC
1 TTC
2455533 TGTATTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (15 bp):
TTCCTGATATATGAT
Found at i:2456939 original size:24 final size:25
Alignment explanation
Indices: 2456891--2456966 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 25
2456881 GGTAACTTGT
* *
2456891 TGGGCTC-CGGGTTTGC-TTGTAAC
1 TGGGCTCTTGGGTCTGCTTTGTAAC
2456914 TGGGCT-TTGGGTCTGCTTTGTAAC
1 TGGGCTCTTGGGTCTGCTTTGTAAC
* *
2456938 TGGG-TCTTGGGTGTGCTTTGTAAT
1 TGGGCTCTTGGGTCTGCTTTGTAAC
2456962 TGGGC
1 TGGGC
2456967 CTGTAATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 14 0.31
24 31 0.69
ACGTcount: A:0.08, C:0.16, G:0.37, T:0.39
Consensus pattern (25 bp):
TGGGCTCTTGGGTCTGCTTTGTAAC
Found at i:2457003 original size:3 final size:3
Alignment explanation
Indices: 2456995--2457029 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
2456985 TTTAATTATT
2456995 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T
2457030 TAGGACAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2457017 original size:16 final size:16
Alignment explanation
Indices: 2456996--2457028 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2456986 TTAATTATTT
2456996 AATAATAATAATAATA
1 AATAATAATAATAATA
2457012 AATAATAATAATAATA
1 AATAATAATAATAATA
2457028 A
1 A
2457029 TTAGGACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:2457692 original size:51 final size:51
Alignment explanation
Indices: 2457578--2457707 Score: 131
Period size: 51 Copynumber: 2.5 Consensus size: 51
2457568 AAACTCAAAT
*
2457578 AGGAACCCAAACAAAATACA-AGAAACAATATATGAATGCTACCTTCCGAAA
1 AGGAACCCAAACAAAATACAGA-AAACAATATAGGAATGCTACCTTCCGAAA
* ** * * * *
2457629 AGAAACATAAACAAAATACAGAAAACAATATGGGGATGTTATCC-TCCGAAG
1 AGGAACCCAAACAAAATACAGAAAACAATATAGGAATGCTA-CCTTCCGAAA
2457680 AGGAACCCAAACAGAAA-ACAAGAAAACA
1 AGGAACCCAAACA-AAATAC-AGAAAACA
2457708 CCATATGCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
51 50 0.78
52 14 0.22
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.13
Consensus pattern (51 bp):
AGGAACCCAAACAAAATACAGAAAACAATATAGGAATGCTACCTTCCGAAA
Found at i:2458638 original size:6 final size:6
Alignment explanation
Indices: 2458627--2458651 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2458617 AAAATGGGAG
2458627 GGAAAA GGAAAA GGAAAA GGAAAA G
1 GGAAAA GGAAAA GGAAAA GGAAAA G
2458652 AGAATGGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
GGAAAA
Found at i:2459667 original size:2 final size:2
Alignment explanation
Indices: 2459660--2459696 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2459650 ACTACAGTAT
2459660 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2459697 CTATTTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2460917 original size:2 final size:2
Alignment explanation
Indices: 2460912--2461021 Score: 151
Period size: 2 Copynumber: 58.0 Consensus size: 2
2460902 TAATATATTT
2460912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2460953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2460993 T- TA AA TT TA TA TA TA T- TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2461022 CCCGGCCTGA
Statistics
Matches: 96, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
1 6 0.06
2 90 0.94
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2463132 original size:50 final size:49
Alignment explanation
Indices: 2463061--2463232 Score: 160
Period size: 50 Copynumber: 3.6 Consensus size: 49
2463051 CTTCATTTTA
* * *
2463061 TCGTCTATTTTACTCACTAAAC-TTAAAACGTTTTCAATTATGTTTTGCTC
1 TCGTCTATTTTATTAATTAAACTTTAAAA-GTTTTCAATTATGTTTT-CTC
** *
2463111 TCGTCTATTTTATTAATTAAACTTTAAAAAATTT-AATTA----CTCTC
1 TCGTCTATTTTATTAATTAAACTTTAAAAGTTTTCAATTATGTTTTCTC
* * * *
2463155 TCTTTTATTTT-GTACATTAAACTTTAAAAGTTTTCAATTATGTTTTACTT
1 TCGTCTATTTTATTA-ATTAAACTTTAAAAGTTTTCAATTATGTTTT-CTC
*
2463205 TCGTCTATTTTATTCATTAAACTTTAAA
1 TCGTCTATTTTATTAATTAAACTTTAAA
2463233 GAAATTTAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.02
44 29 0.30
45 6 0.06
49 6 0.06
50 46 0.48
51 7 0.07
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.50
Consensus pattern (49 bp):
TCGTCTATTTTATTAATTAAACTTTAAAAGTTTTCAATTATGTTTTCTC
Found at i:2463188 original size:94 final size:95
Alignment explanation
Indices: 2463064--2463287 Score: 337
Period size: 94 Copynumber: 2.4 Consensus size: 95
2463054 CATTTTATCG
* * *
2463064 TCTATTTTACTCACTAAAC-TTAAAACGTTTTCAATTATGTTTTGCTCTCGTCTATTTTATTAAT
1 TCTATTTTACACATTAAACTTTAAAA-GTTTTCAATTATGTTTTACTCTCGTCTATTTTATTAAT
2463128 TAAACTTTAAA-AAATTTAATTACTC-TCTCT
65 TAAACTTTAAAGAAATTTAATTAC-CATCTCT
* ** * *
2463158 TTTATTTTGTACATTAAACTTTAAAAGTTTTCAATTATGTTTTACTTTCGTCTATTTTATTCATT
1 TCTATTTTACACATTAAACTTTAAAAGTTTTCAATTATGTTTTACTCTCGTCTATTTTATTAATT
2463223 AAACTTTAAAGAAATTTAATTACCATCTCT
66 AAACTTTAAAGAAATTTAATTACCATCTCT
2463253 TCTATTTTACACATTAAACTTTAAAAGTTTTCAAT
1 TCTATTTTACACATTAAACTTTAAAAGTTTTCAAT
2463288 CTCCTCAATT
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
94 61 0.53
95 55 0.47
ACGTcount: A:0.32, C:0.15, G:0.04, T:0.49
Consensus pattern (95 bp):
TCTATTTTACACATTAAACTTTAAAAGTTTTCAATTATGTTTTACTCTCGTCTATTTTATTAATT
AAACTTTAAAGAAATTTAATTACCATCTCT
Found at i:2463259 original size:45 final size:44
Alignment explanation
Indices: 2463109--2463278 Score: 146
Period size: 45 Copynumber: 3.7 Consensus size: 44
2463099 TATGTTTTGC
2463109 TCTCGTCTATTTTATTA-ATTAAACTTTAAAAAATTTAATTACTC-
1 TCTCGTCTATTTTA-TACATTAAACTTTAAAAAATTTAATTAC-CA
* * * ** **
2463153 TCTCTTTTATTTTGTACATTAAACTTTAAAAGTTTTCAATTATGTTTTA
1 TCTCGTCTATTTTATACATTAAACTTTAAAAAATTT-AATTA----CCA
* *
2463202 CTTTCGTCTATTTTATTCATTAAACTTTAAAGAAATTTAATTACCA
1 -TCTCGTCTATTTTATACATTAAACTTTAAA-AAATTTAATTACCA
* *
2463248 TCTCTTCTATTTTACACATTAAACTTTAAAA
1 TCTCGTCTATTTTATACATTAAACTTTAAAA
2463279 GTTTTCAATC
Statistics
Matches: 97, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.02
44 29 0.30
45 31 0.32
46 1 0.01
50 30 0.31
51 4 0.04
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.49
Consensus pattern (44 bp):
TCTCGTCTATTTTATACATTAAACTTTAAAAAATTTAATTACCA
Found at i:2468777 original size:14 final size:15
Alignment explanation
Indices: 2468755--2468783 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2468745 GCTTTATAGC
2468755 AAGAGCTTGATAATA
1 AAGAGCTTGATAATA
2468770 AAGA-CTTGATAATA
1 AAGAGCTTGATAATA
2468784 GAAATGTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (15 bp):
AAGAGCTTGATAATA
Found at i:2471226 original size:3 final size:3
Alignment explanation
Indices: 2471218--2471266 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
2471208 TTACTATATA
* * * *
2471218 AAT AAT AAT ATT AAT AAT AAGT GAT GAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
2471264 AAT
1 AAT
2471267 GATGATGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:2472389 original size:72 final size:70
Alignment explanation
Indices: 2472281--2472860 Score: 460
Period size: 72 Copynumber: 8.1 Consensus size: 70
2472271 AGACGAATTT
* * * * * * * *
2472281 TTTCAAGAGAAAACATCTTAA-CGAGATGGAAGTTTGTTTCAAGGGAAATTGTCTTGAGTGAGAC
1 TTTCAAG-GAAAATATCTAAAGGGAGATGAAATTTTGTTTCAAGAGAAACTGTCTCGAGTGAGAC
2472345 AAAAAA
65 AAAAAA
* * * * * * * *
2472351 TTTGCAAGGAAAAAATATCTTAAGTGAGAAGCAA-TTTGTTTCAAGTGAAATTGTTTCAAGT---
1 TTT-CAAGG--AAAATATCTAAAGGGAGATGAAATTTTGTTTCAAGAGAAACTGTCTCGAGTGAG
2472412 ACGAAAAAA
63 AC-AAAAAA
* * * * *
2472421 TTTCAATGG-ATATATCTAAAGGGAGATGCAATTTT-TTTAAAGAGAAACTGTCTCGAATGATAC
1 TTTCAA-GGAAAATATCTAAAGGGAGATGAAATTTTGTTTCAAGAGAAACTGTCTCGAGTGAGAC
**
2472484 AAAAGT
65 AAAAAA
* * * *
2472490 TTTCAAAGGAAAATATCTCAAA-GGATATGAAATTCTTGTTTCAAGAGAAACTATCTAGAGTAAG
1 TTTC-AAGGAAAATATCT-AAAGGGAGATGAAATT-TTGTTTCAAGAGAAACTGTCTCGAGTGAG
*
2472554 ATGAAAAAA
63 A-CAAAAAA
* * *
2472563 TTTCAAGCGAAAATATCTCAAGGGAGATGAAACTTTGTTTCAAGGGAAACTGTCTCGAGTGAGAC
1 TTTCAAG-GAAAATATCTAAAGGGAGATGAAATTTTGTTTCAAGAGAAACTGTCTCGAGTGAGAC
2472628 AAAAAAA
65 -AAAAAA
* *
2472635 TTTCAAGGGAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAAGAAACTGTCTCAAGAGTGA
1 TTTCAA-GGAAAATATCTAAAGGGAGATGAAA-TTTTGTTTCAAGAGAAACTGTCTC--GAGTGA
* *
2472700 TA-GAAAAA
62 GACAAAAAA
* * * * * * *
2472708 TTTCAAAGAAAAATATCTCAAGTGAGGTGAAATTTTTGTTTCAAGAGAAACTATCCCAAGTGAGA
1 TTTC-AAGGAAAATATCTAAAGGGAGATGAAA-TTTTGTTTCAAGAGAAACTGTCTCGAGTGAGA
2472773 CAAAAGAA
64 CAAAA-AA
* * *
2472781 TTTTCAAAGGAAAATATCTCAAA-GGAGATGAAATTTTTGTTTCAAGAAAAATTGTCTTGAGTGA
1 -TTTC-AAGGAAAATATCT-AAAGGGAGATGAAA-TTTTGTTTCAAGAGAAACTGTCTCGAGTGA
* *
2472845 GACGAAAAT
62 GACAAAAAA
2472854 TTTCAAG
1 TTTCAAG
2472861 TGAGGAAATA
Statistics
Matches: 416, Mismatches: 66, Indels: 55
0.77 0.12 0.10
Matches are distributed among these distances:
67 35 0.08
68 3 0.01
69 15 0.04
70 36 0.09
71 18 0.04
72 129 0.31
73 113 0.27
74 58 0.14
75 9 0.02
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.28
Consensus pattern (70 bp):
TTTCAAGGAAAATATCTAAAGGGAGATGAAATTTTGTTTCAAGAGAAACTGTCTCGAGTGAGACA
AAAAA
Found at i:2472575 original size:73 final size:72
Alignment explanation
Indices: 2472415--2472903 Score: 415
Period size: 73 Copynumber: 6.7 Consensus size: 72
2472405 TTCAAGTACG
* * * * * *
2472415 AAAAAATTTCAATGG-ATATATCT-AAAGGGAGATGCAA-TTTT-TTTAAAGAGAAACTGTCTCG
1 AAAAAATTTCAAAGGAAAATATCTCAAA-GGAGATGAAATTTTTGTTTCAAGAGAAACTATCTAG
* * *
2472476 AATGATAC
65 AGTGAGAT
** * *
2472484 AAAAGTTTTCAAAGGAAAATATCTCAAAGGATATGAAATTCTTGTTTCAAGAGAAACTATCTAGA
1 AAAAAATTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTATCTAGA
*
2472549 GTAAGAT
66 GTGAGAT
* * * * *
2472556 GAAAAAATTTC-AAGCGAAAATATCTCAAGGGAGATGAAA-CTTTGTTTCAAGGGAAACTGTCTC
1 -AAAAAATTTCAAAG-GAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTATCTA
*
2472619 GAGTGAGACA
64 GAGTGAGA-T
* * * *
2472629 AAAAAATTTCAAGGGAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAAGAAACTGTCTCAA
1 AAAAAATTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTATCT--A
2472694 GAGT--GAT
64 GAGTGAGAT
* * *
2472701 AGAAAAATTTCAAAGAAAAATATCTC-AAGTGAGGTGAAATTTTTGTTTCAAGAGAAACTATCCC
1 A-AAAAATTTCAAAGGAAAATATCTCAAAG-GAGATGAAATTTTTGTTTCAAGAGAAACTAT-CT
*
2472765 A-AGTGAGAC
63 AGAGTGAGAT
* * * *
2472774 AAAAGAATTTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAAAAATTGTCTT
1 AAAA-AA-TTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTATCTA
*
2472839 GAGTGAGAC
64 GAGTGAGAT
* * * *
2472848 GAAAATTTTCAAGTGAGGAAATACTATCTC-AAGTGAGATAAAACTTTTGTTTCAAG
1 AAAAAATTTCAA---AGGAAA-A-TATCTCAAAG-GAGATGAAATTTTTGTTTCAAG
2472904 GGGAAAATTG
Statistics
Matches: 344, Mismatches: 50, Indels: 44
0.79 0.11 0.10
Matches are distributed among these distances:
69 12 0.03
70 15 0.04
71 9 0.03
72 97 0.28
73 111 0.32
74 57 0.17
75 13 0.04
76 4 0.01
77 26 0.08
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (72 bp):
AAAAAATTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTATCTAGA
GTGAGAT
Found at i:2472591 original size:35 final size:35
Alignment explanation
Indices: 2472552--2472666 Score: 122
Period size: 35 Copynumber: 3.2 Consensus size: 35
2472542 ATCTAGAGTA
*
2472552 AGATGAAAAAATTTCAAGCGAAAATATCTCAAGGG
1 AGATGAAAAAATTTCAAGGGAAAATATCTCAAGGG
*** * * * *
2472587 AGATGAAACTTTGTTTCAAGGGAAACTGTCTCGAGTG
1 AGATGAAA--AAATTTCAAGGGAAAATATCTCAAGGG
**
2472624 AGACAAAAAAATTTCAAGGGAAAATATCTCAAGGG
1 AGATGAAAAAATTTCAAGGGAAAATATCTCAAGGG
2472659 AGATGAAA
1 AGATGAAA
2472667 TTTTTGTTTC
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
35 34 0.58
37 25 0.42
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (35 bp):
AGATGAAAAAATTTCAAGGGAAAATATCTCAAGGG
Found at i:2472665 original size:145 final size:142
Alignment explanation
Indices: 2472281--2472905 Score: 529
Period size: 145 Copynumber: 4.3 Consensus size: 142
2472271 AGACGAATTT
* * * * * * *
2472281 TTTCAAGAGAAAACATCTTAA-CGAGATGGAAGTTTGTTTCAAGGGAAATTGTCTTGAGTGAGAC
1 TTTCAAG-GAAAATATCTCAAGGGAGATGAAACTTTGTTTCAAGGGAAACTGTCTCGAGTGAGAC
* * * * * *
2472345 AAAAAATTTGC-AAGGAAAAAATATCT-TAAGTGAGAAGCAA--TTTGTTTCAAGTGAAATTGTT
65 AAAAAATTT-CAAAGG--AAAATATCTCAAAG-GAGATGAAATTTTTGTTTCAAGAGAAACTGTC
2472406 TCA-AGT-ACGAAAAAA
126 TCAGAGTGACGAAAAAA
* * * * * * * *
2472421 TTTCAATGG-ATATATCTAAAGGGAGATGCAA-TTTTTTTAAAGAGAAACTGTCTCGAATGATAC
1 TTTCAA-GGAAAATATCTCAAGGGAGATGAAACTTTGTTTCAAGGGAAACTGTCTCGAGTGAGAC
** * * *
2472484 AAAAGTTTTCAAAGGAAAATATCTCAAAGGATATGAAATTCTTGTTTCAAGAGAAACTATCT-AG
65 AAAAAATTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCTCAG
*
2472548 AGTAAGATGAAAAAA
130 AGT--GACGAAAAAA
2472563 TTTCAAGCGAAAATATCTCAAGGGAGATGAAACTTTGTTTCAAGGGAAACTGTCTCGAGTGAGAC
1 TTTCAAG-GAAAATATCTCAAGGGAGATGAAACTTTGTTTCAAGGGAAACTGTCTCGAGTGAGAC
* * *
2472628 AAAAAAATTTCAAGGGAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAAGAAACTGTCTCA
65 -AAAAAATTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCTC-
*
2472693 AGAGTGA-TAGAAAAA
128 AGAGTGACGA-AAAAA
* * * * * * * *
2472708 TTTCAAAGAAAAATATCTCAAGTGAGGTGAAATTTTTGTTTCAAGAGAAACTATCCCAAGTGAGA
1 TTTC-AAGGAAAATATCTCAAGGGAGATGAAA-CTTTGTTTCAAGGGAAACTGTCTCGAGTGAGA
* *
2472773 CAAAAGAATTTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAAAAATTGTCT
64 CAAAA-AA-TTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCT
* *
2472838 -TGAGTGA-GACGAAAAT
127 CAGAGTGACGA--AAAAA
* *
2472854 TTTCAAGTGAGGAAATACTATCTCAAGTGAGATAAAACTTTTGTTTCAAGGG
1 TTTC-A---AGGAAA-A-TATCTCAAGGGAGATGAAAC-TTTGTTTCAAGGG
2472906 GAAAATTGTC
Statistics
Matches: 395, Mismatches: 62, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
137 15 0.04
138 5 0.01
139 64 0.16
140 15 0.04
141 2 0.01
142 15 0.04
143 19 0.05
144 28 0.07
145 97 0.25
146 44 0.11
147 56 0.14
149 5 0.01
150 1 0.00
151 29 0.07
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.28
Consensus pattern (142 bp):
TTTCAAGGAAAATATCTCAAGGGAGATGAAACTTTGTTTCAAGGGAAACTGTCTCGAGTGAGACA
AAAAATTTCAAAGGAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCTCAGA
GTGACGAAAAAA
Found at i:2472692 original size:38 final size:38
Alignment explanation
Indices: 2472643--2472825 Score: 128
Period size: 38 Copynumber: 4.9 Consensus size: 38
2472633 AATTTCAAGG
2472643 GAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAA
1 GAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAA
* * * * **
2472681 GAAACTGTCTCAAGAGTGATAGAAA----AATTTC-AAA
1 GAAAATATCTCAAGGGAGAT-GAAATTTTTGTTTCAAAA
* * *
2472715 GAAAAATATCTCAAGTGAGGTGAAATTTTTGTTTCAAGA
1 G-AAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAA
* * * * **** *
2472754 GAAACTATCCCAAGTGAGA-CAAAAGAAT-TTTCAAAG
1 GAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAA
*
2472790 GAAAATATCTCAAAGGAGATGAAATTTTTGTTTCAA
1 GAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAA
2472826 GAAAAATTGT
Statistics
Matches: 103, Mismatches: 33, Indels: 18
0.67 0.21 0.12
Matches are distributed among these distances:
34 8 0.08
35 18 0.17
36 21 0.20
37 8 0.08
38 41 0.40
39 7 0.07
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (38 bp):
GAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAAA
Found at i:2473018 original size:64 final size:59
Alignment explanation
Indices: 2472944--2473082 Score: 143
Period size: 64 Copynumber: 2.3 Consensus size: 59
2472934 GAAGTGAAAC
* * *
2472944 GATCTCAAGAAAGACAAGATTTTTTCTACAAAAATTAAAAGATGTCCTCAATAGAGGAAAAAGT
1 GATCTTAAGAAAGACAAGATTCTTT-GA-AAAAATT-AAAGATGTCCTCAATAGAGG-AAAA-T
* ** * *
2473008 GATCTTAAGAAATATGAGATTCTTTGAAAATATTAAAGATGTCCTCGATAGAGGAAAAT
1 GATCTTAAGAAAGACAAGATTCTTTGAAAAAATTAAAGATGTCCTCAATAGAGGAAAAT
* *
2473067 GGTCTTGAGAAAGACA
1 GATCTTAAGAAAGACA
2473083 TTTTTTTGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
59 12 0.19
60 4 0.06
61 19 0.31
62 6 0.10
63 1 0.02
64 20 0.32
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.27
Consensus pattern (59 bp):
GATCTTAAGAAAGACAAGATTCTTTGAAAAAATTAAAGATGTCCTCAATAGAGGAAAAT
Found at i:2475115 original size:3 final size:3
Alignment explanation
Indices: 2475107--2475175 Score: 102
Period size: 3 Copynumber: 22.7 Consensus size: 3
2475097 TTTTTGTTTT
** *
2475107 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
2475153 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
2475176 TAATAAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2476681 original size:19 final size:22
Alignment explanation
Indices: 2476628--2476681 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 22
2476618 ATGAACTATA
2476628 TATG-TTTAAT-TTTATTTTAT
1 TATGTTTTAATATTTATTTTAT
*
2476648 TATGTTTTAGTTATTTA-TTTAT
1 TATGTTTTA-ATATTTATTTTAT
2476670 T-T-TTTTAATATT
1 TATGTTTTAATATT
2476682 GAAGAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 4 0.14
20 9 0.31
21 5 0.17
22 7 0.24
23 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (22 bp):
TATGTTTTAATATTTATTTTAT
Found at i:2476738 original size:113 final size:114
Alignment explanation
Indices: 2476649--2476859 Score: 275
Period size: 113 Copynumber: 1.9 Consensus size: 114
2476639 TTATTTTATT
** *
2476649 ATGTTTTAGTTATTTATTTATTTTTTTAATAT-TGAAGAAA-AGTTGTCTTAAAACAACTAGAAG
1 ATGTTTTAGTTATTTATTTA-TTTTTTAATATCAAAAGAAAGAGCTGTCTTAAAACAACTAGAAG
* *
2476712 CCCTTTTCTAATATTTTTAAATAACTAAATAT-CTTACTATATTAAAATA
65 CCCTTTTCTAATATTTCTAAATAACTAAATATGTTTACTATATTAAAATA
* ** * * *
2476761 ATTTTTTTTTTATTTATTTATTTTTTAATATCAAAAGAAAGAGCTGTCTTAAAGCACCTAGAAGT
1 ATGTTTTAGTTATTTATTTATTTTTTAATATCAAAAGAAAGAGCTGTCTTAAAACAACTAGAAGC
* *
2476826 CCTTTTCTGATATTTCTAAATAAATAAATATGTT
66 CCTTTTCTAATATTTCTAAATAACTAAATATGTT
2476860 AAGAAATATA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
111 11 0.13
112 23 0.28
113 48 0.58
114 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.46
Consensus pattern (114 bp):
ATGTTTTAGTTATTTATTTATTTTTTAATATCAAAAGAAAGAGCTGTCTTAAAACAACTAGAAGC
CCTTTTCTAATATTTCTAAATAACTAAATATGTTTACTATATTAAAATA
Found at i:2477415 original size:28 final size:27
Alignment explanation
Indices: 2477384--2477437 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
2477374 TAATTCTTTC
*
2477384 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
* *
2477412 TTTTCATAGTATTTATATATATTATT
1 TTTTCAAAATATTTATATATATTATT
2477438 TTATTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:2477458 original size:24 final size:24
Alignment explanation
Indices: 2477401--2477482 Score: 59
Period size: 24 Copynumber: 3.6 Consensus size: 24
2477391 AATTTTTATA
* *
2477401 TATACTTATTATTTTCATAGTATT
1 TATATTTATTATTTTCATAATATT
*
2477425 TATATATATTATTTT-ATTAATATT
1 TATATTTATTATTTTCA-TAATATT
* *
2477449 T-CA-TT-TTATTTTCA-AGTATT
1 TATATTTATTATTTTCATAATATT
2477469 T-TATTTCATTATTT
1 TATATTT-ATTATTT
2477483 ATTTTTCTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
20 7 0.15
21 9 0.20
22 2 0.04
23 8 0.17
24 20 0.43
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTTATTATTTTCATAATATT
Found at i:2482605 original size:30 final size:31
Alignment explanation
Indices: 2482569--2482646 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
2482559 ATTATACTTG
2482569 AAAAAAAAAGAAAAAAAAAA-AGAAAAAAAA
1 AAAAAAAAAGAAAAAAAAAAGAGAAAAAAAA
* *
2482599 AAAAAAAAAGAAAAAAAAAAGAGGAAAAAAG
1 AAAAAAAAAGAAAAAAAAAAGAGAAAAAAAA
* * *
2482630 GAAAAAAAGGAGAAAAA
1 AAAAAAAAAGAAAAAAA
2482647 GGAGAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAGAAAAAAAAAAGAGAAAAAAAA
Found at i:2482637 original size:1 final size:1
Alignment explanation
Indices: 2482569--2482618 Score: 73
Period size: 1 Copynumber: 50.0 Consensus size: 1
2482559 ATTATACTTG
* * *
2482569 AAAAAAAAAGAAAAAAAAAAAGAAAAAAAAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2482619 GAGGAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:2482639 original size:9 final size:9
Alignment explanation
Indices: 2482583--2482649 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
2482573 AAAAAGAAAA
*
2482583 AAAAAAAGA
1 AAAAAAAGG
**
2482592 AAAAAAAAA
1 AAAAAAAGG
*
2482601 AAAAAAAGAAA
1 AAAAAAAG--G
2482612 AAAAAAAGAG
1 AAAAAAAG-G
*
2482622 GAAAAAAGG
1 AAAAAAAGG
2482631 AAAAAAAGG
1 AAAAAAAGG
*
2482640 AGAAAAAGG
1 AAAAAAAGG
2482649 A
1 A
2482650 GAAAGAATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 33 0.66
10 8 0.16
11 9 0.18
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:2482644 original size:11 final size:11
Alignment explanation
Indices: 2482570--2482646 Score: 83
Period size: 10 Copynumber: 7.5 Consensus size: 11
2482560 TTATACTTGA
2482570 AAAAAAAAGA-
1 AAAAAAAAGAG
*
2482580 AAAAAAAAAAG
1 AAAAAAAAGAG
2482591 AAAAAAAA-A-
1 AAAAAAAAGAG
*
2482600 AAAAAAAAGAA
1 AAAAAAAAGAG
2482611 AAAAAAAAGAG
1 AAAAAAAAGAG
*
2482622 -GAAAAAAG-G
1 AAAAAAAAGAG
*
2482631 AAAAAAAGGAG
1 AAAAAAAAGAG
2482642 AAAAA
1 AAAAA
2482647 GGAGAAAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
9 9 0.16
10 24 0.42
11 24 0.42
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:2482650 original size:9 final size:9
Alignment explanation
Indices: 2482615--2482653 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
2482605 AAAGAAAAAA
2482615 AAAAGAGGA-
1 AAAA-AGGAG
*
2482624 AAAAAGGAA
1 AAAAAGGAG
2482633 AAAAAGGAG
1 AAAAAGGAG
2482642 AAAAAGGAG
1 AAAAAGGAG
2482651 AAA
1 AAA
2482654 GAATTGAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AAAAAGGAG
Found at i:2483146 original size:32 final size:32
Alignment explanation
Indices: 2483105--2483166 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2483095 GTCAGACACA
*
2483105 AGAAATATCTCTACGAGATAAGCATAACAACG
1 AGAAATATCTCTACAAGATAAGCATAACAACG
* *
2483137 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAATATCTCTACAAGATAAGCATAACAA
2483167 TCATTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (32 bp):
AGAAATATCTCTACAAGATAAGCATAACAACG
Found at i:2486991 original size:54 final size:54
Alignment explanation
Indices: 2486909--2487066 Score: 182
Period size: 54 Copynumber: 3.0 Consensus size: 54
2486899 TGATTGAGAA
2486909 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
* * *
2486963 ATCTGAGCAGAAGCCATAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC--A-
1 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
* * * * * * *
2487014 A-CTAAGCAGAAACCACATG-AGATGATGCATATGTTGTCAAATGTTTTACGAAC
1 ATCTGAGCAGAAGCCACA-GAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
2487067 CAGTTATTCT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
50 38 0.43
51 2 0.02
52 2 0.02
54 47 0.53
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (54 bp):
ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
Found at i:2487458 original size:22 final size:22
Alignment explanation
Indices: 2487429--2487483 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2487419 ATCTACACTC
2487429 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
* *
2487451 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
2487473 TTCAAAGATGA
1 TTCAAAGATGA
2487484 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:2488287 original size:76 final size:76
Alignment explanation
Indices: 2488161--2488722 Score: 980
Period size: 76 Copynumber: 7.4 Consensus size: 76
2488151 CTATTTCCCA
* *
2488161 CATCTATAAGTCCTACAGGGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2488226 AGCCTTAGGGT
66 AGCCTTAGGGT
2488237 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2488302 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2488313 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGTGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2488378 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2488389 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2488454 AGCATTAGGGT
66 AGCCTTAGGGT
2488465 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2488530 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2488541 CATCTGTAAGTCTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGTGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2488606 AGACTTAGGGT
66 AGCCTTAGGGT
* * * * * * *
2488617 CATCTGTACGTCCTAAAGTGCATGACGTTTCCAAAAAGACATCGAGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2488682 AGACTTAGGGT
66 AGCCTTAGGGT
2488693 CATCTGTAAGTCCTACAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
2488723 TCAACATTTC
Statistics
Matches: 463, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 463 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2488896 original size:2 final size:2
Alignment explanation
Indices: 2488885--2488937 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
2488875 ATTATTATTA
2488885 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2488926 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2488938 TATTTAATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2490635 original size:2 final size:2
Alignment explanation
Indices: 2490628--2490665 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2490618 TATGTTAAGA
2490628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2490666 TTTCTTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2494596 original size:11 final size:11
Alignment explanation
Indices: 2494580--2494618 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
2494570 ATAATAAAAA
2494580 TAAAAATAAAT
1 TAAAAATAAAT
2494591 TAAAAATAAAT
1 TAAAAATAAAT
*
2494602 TAAAATTAAAAT
1 TAAAAAT-AAAT
2494614 TAAAA
1 TAAAA
2494619 TTTAACCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAAATAAAT
Found at i:2494596 original size:17 final size:18
Alignment explanation
Indices: 2494574--2494618 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
2494564 ATGATAATAA
2494574 TAAAAATAAAAAT-AAAT
1 TAAAAATAAAAATAAAAT
*
2494591 TAAAAAT-AAATTAAAAT
1 TAAAAATAAAAATAAAAT
*
2494608 TAAAATTAAAA
1 TAAAAATAAAA
2494619 TTTAACCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 17 0.71
18 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATAAAAATAAAAT
Found at i:2494619 original size:6 final size:6
Alignment explanation
Indices: 2494574--2494620 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
2494564 ATGATAATAA
* * *
2494574 TAAAAA TAAAAA T-AAAT TAAAAA T-AAAT TAAAAT TAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
2494620 T
1 T
2494621 TAACCCTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 8 0.22
6 28 0.78
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
TAAAAT
Found at i:2496638 original size:103 final size:102
Alignment explanation
Indices: 2496390--2496658 Score: 353
Period size: 103 Copynumber: 2.6 Consensus size: 102
2496380 AATTAATCTC
*
2496390 AGTATCAATAC-TCACCCTCCTCAGTATCGATACTCGCC-TGAGTAACGATATCAAAATTGCATT
1 AGTATCAATACTTCA-CC-CCT-GGTATCGATACTC-CCATGAGTAACGATATCAAAATTGCATT
* * * *
2496453 CGATGTTTTGAAAAATACTCTAGTATTGATATCCTATGGAA
62 TGATGTTTTGAAAAATACTCTAGTATCGATACCCTATGCAA
* * * *
2496494 AGTATCGATACTTCACCCTTGGTATCAATACTCCCATGAGTACCGATATCAAAATTGCATTTGAT
1 AGTATCAATACTTCACCCCTGGTATCGATACTCCCATGAGTAACGATATCAAAATTGCATTTGAT
*
2496559 GTTTTGAAAATTACTCTAGTATCGATACCCCTATGCAA
66 GTTTTGAAAAATACTCTAGTATCGATA-CCCTATGCAA
* * * *
2496597 AGTATCAATACTTCACCCCTGGTATCGATACTCCCACGAGTATCGATGTTAAAATTGCATTT
1 AGTATCAATACTTCACCCCTGGTATCGATACTCCCATGAGTAACGATATCAAAATTGCATTT
2496659 TGGAATCCGA
Statistics
Matches: 145, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
101 2 0.01
102 63 0.43
103 65 0.45
104 12 0.08
105 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (102 bp):
AGTATCAATACTTCACCCCTGGTATCGATACTCCCATGAGTAACGATATCAAAATTGCATTTGAT
GTTTTGAAAAATACTCTAGTATCGATACCCTATGCAA
Found at i:2497561 original size:17 final size:18
Alignment explanation
Indices: 2497539--2497576 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
2497529 TCGTGACCTC
2497539 ATCTCACAATAAAG-GGG
1 ATCTCACAATAAAGCGGG
2497556 ATCTCACAATAAAGCGGG
1 ATCTCACAATAAAGCGGG
2497574 ATC
1 ATC
2497577 AGCCTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (18 bp):
ATCTCACAATAAAGCGGG
Found at i:2498432 original size:18 final size:18
Alignment explanation
Indices: 2498411--2498454 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
2498401 ATTATGACTT
2498411 TAATTTTGAAAAATTTGC
1 TAATTTTGAAAAATTTGC
2498429 TAATTTTGAAAAATTTGC
1 TAATTTTGAAAAATTTGC
*
2498447 GAATTTTG
1 TAATTTTG
2498455 GATTAACTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (18 bp):
TAATTTTGAAAAATTTGC
Found at i:2499175 original size:21 final size:22
Alignment explanation
Indices: 2499151--2499191 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2499141 ACATATGATG
2499151 TAAAATAA-AATATTTACAACA
1 TAAAATAACAATATTTACAACA
*
2499172 TAAAATAACATTATTTACAA
1 TAAAATAACAATATTTACAA
2499192 TATATACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAACAATATTTACAACA
Found at i:2500829 original size:3 final size:3
Alignment explanation
Indices: 2500808--2500870 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
2500798 CACAAAAATG
* * *
2500808 TAA T-A TAA T-A TAT TAA TAA TAA TAA TTA -AA TAA -ACG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
*
2500850 TAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
2500871 AAAAAGACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
2 6 0.13
3 40 0.85
4 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Done.