Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold79
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: 4189514
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 5041 characters in sequence are not A, C, G, or T
File 2 of 26
Found at i:162836 original size:197 final size:198
Alignment explanation
Indices: 162492--162888 Score: 699
Period size: 197 Copynumber: 2.0 Consensus size: 198
162482 AAAGCCCACA
*
162492 CAAGTTGGTGGCGCCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTG
1 CAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTG
*
162557 GCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCT
66 GCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCT
*
162622 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
131 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
162687 GAG
196 GAG
** *
162690 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTG
1 CAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTG
* *
162755 GCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
66 GCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCT
162818 CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAA
131 -AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAA
162883 AGAG
195 AGAG
162887 CA
1 CA
162889 GGACACCTCT
Statistics
Matches: 190, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
196 1 0.01
197 125 0.66
198 64 0.34
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (198 bp):
CAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTG
GCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCT
AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
GAG
Found at i:163826 original size:55 final size:55
Alignment explanation
Indices: 162690--163837 Score: 1518
Period size: 55 Copynumber: 20.7 Consensus size: 55
162680 CCCCAAAGAG
162690 CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
*
162745 CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
1 CAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* *
162800 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACA
* *
162855 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACA
162910 CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC-
1 CAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
*
162964 CAAGTTGGTGGCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACA
1 CAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACA
* * *
163020 CAAGTTGGTGGCGC-CTTCTAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * *
163075 CAAGTTGGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* *
163130 CAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
163185 CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC-
1 CAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* *
163239 CAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCGCACA
1 CAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACA
* * *
163295 CAAGTTGGTGGCGC-CTTCTAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * *
163350 CAAGTTGGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* *
163405 CAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACA-CTTTTAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * * *
163459 CAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTA-TTTTTAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C-----ACCTTTCAAAGCCCACA
* * *
163520 CAAGTTGGTGGCGC-CTTCTAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * *
163575 CAAGTTGGTGGCACCTTTCAGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* *
163630 CAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * * *
163685 CAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTA-TTTTTAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C-----ACCTTTCAAAGCCCACA
* *
163746 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
* * * * *
163801 CGAGTTGGTGGCACTTTTTACTCCTCAATGAGAAGGA
1 CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
163838 TTCACTTTAT
Statistics
Matches: 987, Mismatches: 70, Indels: 72
0.87 0.06 0.06
Matches are distributed among these distances:
54 91 0.09
55 750 0.76
56 47 0.05
57 1 0.00
59 2 0.00
60 3 0.00
61 92 0.09
62 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (55 bp):
CAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
Found at i:164488 original size:21 final size:21
Alignment explanation
Indices: 164464--164520 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
164454 AAAAAAATTA
164464 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
164485 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
164506 AATGTATCGATACAT
1 AATGTATCGATACAT
164521 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:164600 original size:19 final size:19
Alignment explanation
Indices: 164576--164643 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
164566 AATTCAACAA
164576 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
164595 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
164610 --TGTATCGATATATAAGT
1 TTTGTATCGATACATAAGT
*
164627 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
164644 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:164619 original size:32 final size:32
Alignment explanation
Indices: 164578--164640 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
164568 TTCAACAATT
*
164578 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
164610 TGTATCGATATATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
164641 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:171084 original size:13 final size:13
Alignment explanation
Indices: 171066--171091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171056 GATAAAGTGT
171066 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
171079 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
171092 AAAAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:171125 original size:21 final size:21
Alignment explanation
Indices: 171101--171157 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
171091 AAAAAAATTA
171101 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
171122 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
171143 AATGTATCGATACAT
1 AATGTATCGATACAT
171158 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:171237 original size:19 final size:19
Alignment explanation
Indices: 171213--171280 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
171203 AATTCAACAA
171213 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
171232 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
171247 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
171264 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
171281 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:171252 original size:13 final size:13
Alignment explanation
Indices: 171234--171258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171224 ACATAAGTTT
171234 TGTATCGATACAA
1 TGTATCGATACAA
171247 TGTATCGATACA
1 TGTATCGATACA
171259 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:171256 original size:32 final size:32
Alignment explanation
Indices: 171215--171277 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
171205 TTCAACAATT
*
171215 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
171247 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
171278 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:171338 original size:13 final size:13
Alignment explanation
Indices: 171320--171345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171310 CATTTTTCTG
171320 TGTATCGATACAT
1 TGTATCGATACAT
171333 TGTATCGATACAT
1 TGTATCGATACAT
171346 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171342 original size:33 final size:33
Alignment explanation
Indices: 171300--171366 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
171290 GCCAAGGAAA
***
171300 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
171333 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
171366 T
1 T
171367 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:173882 original size:28 final size:27
Alignment explanation
Indices: 173815--173887 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
173805 CTTCACAATC
* *
173815 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
173842 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
173870 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
173888 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:173932 original size:51 final size:51
Alignment explanation
Indices: 173870--174040 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
173860 TTATTTCTGA
* * *
173870 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
173921 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
173974 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
174026 GAGGATACTCCAACC
1 GGGGATACTCCAACC
174041 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:174059 original size:28 final size:28
Alignment explanation
Indices: 174023--174104 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
174013 ATTTTTCACA
*
174023 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
174051 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
174079 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
174105 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:177339 original size:42 final size:42
Alignment explanation
Indices: 177279--179039 Score: 1427
Period size: 42 Copynumber: 40.6 Consensus size: 42
177269 CTTTTTTGTT
* *
177279 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGTAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * * *
177321 AACCCTCAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
* * *
177368 TTCCCTTAGTCTGCCTGTCAGCTTCATCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
177410 TTCCTTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * *
177452 AACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
*
177499 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
*
177541 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * * *
177583 AACCCTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
* *
177630 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCATGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
177672 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * *
177714 AACCCTCAGTCTGCCTGTCCGCTTTGACCCTGGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
*
177761 TTCCCTTAGTCTGCCTGTCAGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
177803 TTCCCTTAGTCTACCTGTCAGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * *
177845 AACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
177887 TTTCTTTCCTTAGTCTGCCTGTC-GCTTCGTCCCTAGAGACTTTCC
1 -TTC---CCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* *
177932 TT-CCTTTGTCTACCTGTCGGCTGCTATCGTCCACTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTC-G--GCT-TCGTCC-CTGGAGACTTTTC
** * * *
177978 AAACCCTCAATCTGCCTGTCGGCTT-GACCCTGGAGACTTTTCTTTGCC
1 -TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT--C
* * * * *
178026 TTCCCTTA-TCTGTCTATC-GTTTCAT-CCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * * **
178065 GTCCCTTA-TCTACCTGTCGGCTTCCGTCCCTGGAAACTTGTAAA
1 TTCCCTTAGTCTGCCTGTCGGCTT-CGTCCCTGGAGACTT-T-TC
** * * *
178109 AACCCTCAGTCTGCCTGTCGGCTTTTGACCCTGGAGACTTTTCTGTTCC
1 TTCCCTTAGTCTGCCTGTCGGC-TTCGTCCCTGGAGAC---T-T-TT-C
* * * *
178158 TTCCCTTAGTCCTGTCTGTCCGATTCTTCATCCCTGGAGACTTTCC
1 TTCCCTTAGT-CTGCCTGT-CG--GCTTCGTCCCTGGAGACTTTTC
* *
178204 TTCCCTTAGTCTACC-GTCGGCTTCAAT-CCTGGA-ACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTC-GTCCCTGGAGACTTTTC
** * * **
178244 AACCCTCAGTCTG-CTGTCGGCTT-GACCCTGTTGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * * *
178284 TTTCCTTCCCTAGTCTGCCTGTCTGTTTCGTCCGTGGAGAC-TTTC
1 -TT-C--CCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * *
178329 CTCCCTTAGTCCTACC-GTC-GCTTTGTCCCT-G-GACTTTTC
1 TTCCCTTAGT-CTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * *
178368 AACCC-CAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC--T-TTT-C
*
178413 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * *
178455 TTCCCTTAGTCTACCTGTCGGCTTCGTCCTTGGATACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * * *
178497 AACCCTCAGTCTGCTTGTCGGCTTTGACCTTGGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
* * *
178544 TTCCCTTAGTCTGTCTGTCGGCTTCATCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
*
178586 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * *
178628 AACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC---T-TTT-C
* *
178675 TTCCCTTAGTCTGCCTGTCGGCTTCGTCTCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
*
178717 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * * * *
178759 AACACTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGAC--T--TTT-C
* * *
178806 TTCCCTTTGTCTACCTGTCGGCTTCATCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** *
178848 AACCCTTAGTCTGCCTGTCGGCTTCGTCCCTAGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
*
178890 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
** * *
178932 AACCCTTAGTATGCCTGTCGGCTACGTCCCTGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
* * *
178974 ATCCCTTAGTCTGCCTGTCGGCTTTGAT-CCTGGAGACTTTTA
1 TTCCCTTAGTCTGCCTGTCGGCTTCG-TCCCTGGAGACTTTTC
* * * *
179016 TTTCCTCATTCTGCCTGTCAGCTT
1 TTCCCTTAGTCTGCCTGTCGGCTT
179040 TGACCTTAGA
Statistics
Matches: 1368, Mismatches: 259, Indels: 184
0.76 0.14 0.10
Matches are distributed among these distances:
37 4 0.00
38 9 0.01
39 38 0.03
40 56 0.04
41 26 0.02
42 711 0.52
43 28 0.02
44 33 0.02
45 88 0.06
46 106 0.08
47 221 0.16
48 15 0.01
49 11 0.01
50 7 0.01
51 2 0.00
52 12 0.01
53 1 0.00
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (42 bp):
TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTC
Found at i:177523 original size:131 final size:131
Alignment explanation
Indices: 177279--179062 Score: 2517
Period size: 131 Copynumber: 13.7 Consensus size: 131
177269 CTTTTTTGTT
* *
177279 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGTAGACTTTTCAACCCTCAGTTTGCCTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* * *
177344 TTGACCCTAGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCAGCTTCATCCCTGGAGACTTTC
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
177409 C
131 C
*
177410 TTCCTTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
177475 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
177540 C
131 C
*
177541 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCAGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* *
177606 TTGACCCTAGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCATGGAGACTTTC
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
177671 C
131 C
* *
177672 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTAGAGACTTTTCAACCCTCAGTCTGCCTGTCCGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* *
177737 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCAGCTTCGTCCCTGGAGACTTTT
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
177802 C
131 C
*
177803 TTCCCTTAGTCTACCTGTCAGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* *
177868 TTGACCCTGGAGACTTTTCTTT-CTTTCCTTAGTCTGCCTGTC-GCTTCGTCCCTAGAGACTTTC
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
177931 C
131 C
* *
177932 TT-CCTTTGTCTACCTGTCGGCTGCTATCGTCCACTGGAGACTTTTCAAACCCTCAATCTGCCTG
1 TTCCCTTAGTCTACCTGTC-G--GCT-TCGTCC-CTGGAGACTTTTC-AACCCTCAGTCTGCCTG
* * * *
177996 TCGGC-TTGACCCTGGAGACTTTTCTTTGCCTTCCCTTA-TCTGTCTATC-GTTTCAT-CCTGGA
60 TCGGCTTTGACCCTGGAGACTTTTCTTT-CCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGA
178057 GACTTTCC
124 GACTTTCC
* * **
178065 GTCCCTTA-TCTACCTGTCGGCTTCCGTCCCTGGAAACTTGTAAAAACCCTCAGTCTGCCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTT-CGTCCCTGGAGACTT-T-TCAACCCTCAGTCTGCCTGTCG
* * *
178129 GCTTTTGACCCTGGAGACTTTTCTGTTCCTTCCCTTAGTCCTGTCTGTCCGATTCTTCATCCCTG
63 GC-TTTGACCCTGGAGACTTTTCT-TTCCTTCCCTTAGT-CTGCCTGT-CG--GCTTCGTCCCTG
178194 GAGACTTTCC
122 GAGACTTTCC
*
178204 TTCCCTTAGTCTACC-GTCGGCTTCAAT-CCTGGA-ACTTTTCAACCCTCAGTCTG-CTGTCGGC
1 TTCCCTTAGTCTACCTGTCGGCTTC-GTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGC
** * * *
178265 -TTGACCCTGTTGACTTTTCTTTCCTTCCC-TAGTCTGCCTGTCTGTTTCGTCCGTGGAGACTTT
65 TTTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTT
178328 CC
130 CC
*
178330 -TCCCTTAGTCCTACC-GTC-GCTTTGTCCCT-G-GACTTTTCAACCC-CAGTCTGCCTGTCGGC
1 TTCCCTTAGT-CTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGC
*
178389 TTTGACCCTAGAGAC-TTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTT
65 TTTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTT
178453 CC
130 CC
* * *
178455 TTCCCTTAGTCTACCTGTCGGCTTCGTCCTTGGATACTTTTCAACCCTCAGTCTGCTTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* * *
178520 TTGACCTTGGAGACTTTTCTTTCCTTCCCTTAGTCTGTCTGTCGGCTTCATCCCTGGAGACTTTC
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
178585 C
131 C
178586 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
*
178651 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCTCTGGAGACTTTC
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
178716 C
131 C
*
178717 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACACTCAGTCTGCCTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* * * * *
178782 TTGACCCTGGAGACTTTACTTTCCTTCCCTTTGTCTACCTGTCGGCTTCATCCCTGGAGACTTTT
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
178847 C
131 C
** * * ** * *
178848 AACCCTTAGTCTGCCTGTCGGCTTCGTCCCTAGAGACTTTTCTTCCCTTAGTCTACCTGTCGGCT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
* * ** * * *
178913 TCGTCCCTGGAGAC---T-TTT-CAACCCTTAGTATGCCTGTCGGCTACGTCCCTGGAGACTTTT
66 TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
178973 C
131 C
* * * ** * *
178974 ATCCCTTAGTCTGCCTGTCGGCTTTGAT-CCTGGAGACTTTT-ATTTCCTCATTCTGCCTGTCAG
1 TTCCCTTAGTCTACCTGTCGGCTTCG-TCCCTGGAGACTTTTCA-ACCCTCAGTCTGCCTGTCGG
* * *
179037 CTTTGACCTTAGAGGCTTTTCTTTCC
64 CTTTGACCCTGGAGACTTTTCTTTCC
179063 CTAAGTTTGC
Statistics
Matches: 1494, Mismatches: 115, Indels: 88
0.88 0.07 0.05
Matches are distributed among these distances:
123 7 0.00
124 36 0.02
125 65 0.04
126 136 0.09
127 13 0.01
128 17 0.01
129 52 0.03
130 84 0.06
131 839 0.56
132 55 0.04
133 62 0.04
134 53 0.04
135 22 0.01
136 1 0.00
137 4 0.00
138 12 0.01
139 30 0.02
140 6 0.00
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (131 bp):
TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCT
TTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTC
C
Found at i:178365 original size:84 final size:87
Alignment explanation
Indices: 177279--179013 Score: 961
Period size: 89 Copynumber: 20.0 Consensus size: 87
177269 CTTTTTTGTT
** * *
177279 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGTAGAC---T-TTT-CAACCCTCAGTTTGCCTGT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTG--GACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
* * *
177339 CGGCTTTGACCCTAGAGACTTTTCTTTCC
64 CGGCTTCGTCCCTGGAGA-----CTTTCC
* * * ** * *
177368 TTCCCTTAGTCTGCCTGTCAGCTTCATCCCTGGA---GACTTTCCTTCCTTTAGTCTACCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
*
177430 GCTTCGTCCCTGGAGACTTTTC
66 GCTTCGTCCCTGGAGACTTTCC
** * * * *
177452 AACCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCT-G-GACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
177517 CGGCTTCGTCCCTGGAGACTTTCC
64 CGGCTTCGTCCCTGGAGACTTTCC
** * ** * *
177541 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGA---GACTTTTCAACCCTCAGTCTGCCTGTCA
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
* * *
177603 GCTTTGACCCTAGAGACTTTTCTTTCC
66 GCTTCGTCCCTGGAGA-----CTTTCC
* * ** *
177630 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCATGGA---GACTTTCCTTCCCTTAGTCTACCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
* *
177692 GCTTCGTCCCTAGAGACTTTTC
66 GCTTCGTCCCTGGAGACTTTCC
** * * * * *
177714 AACCCTCAGTCTGCCTGTCCGCTTTGACCCTGGAGACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCT-G-GACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
* *
177779 CAGCTTCGTCCCTGGAGACTTTTC
64 CGGCTTCGTCCCTGGAGACTTTCC
* ** * ** *
177803 TTCCCTTAGTCTACCTGTCAGCTTCGTCCCTGGA---GACTTTTCAACCCTCAGTCTGCCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
* *
177865 GCTTTGACCCTGGAGACTTTTCTTTC
66 GCTTCGTCCCTGGAGAC-TTTC---C
* * * ** * *
177891 TTTCCTTAGTCTGCCTGTC-GCTTCGTCCCTAGA---GACTTTCCTT-CCTTTGTCTACCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTC-
*
177951 GCTGCTATCGTCCACTGGAGACTTTTCA
65 G--GCT-TCGTCC-CTGGAGAC-TTTCC
** * * * * * *
177979 AACCCTCAATCTGCCTGTCGGCTT-GACCCTGGAGACTTTTCTTTGCCTTCCCTTA-TCTGTCTA
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCT-G-GACTTTTCTTT-CCTTCCCTTAGTCTGCCTG
* *
178042 TC-GTTTCAT-CCTGGAGACTTTCC
63 TCGGCTTCGTCCCTGGAGACTTTCC
* *** * ***** *
178065 GTCCCTTA-TCTACCTGTCGGCTTCCGTCCCTGGAAACTT-GTAAAAACCCTCAGTCTGCCTGTC
1 TTCCCTTAGTCTACCTGTCGGCTT-CGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTC
* *
178128 GGCTTTTGACCCTGGAGACTTTTCTGTTCC
65 GGC-TTCGTCCCTGGAGA-----CT-TTCC
** * * ** *
178158 TTCCCTTAGTCCTGTCTGTCCGATTCTTCATCCCTGGA---GACTTTCCTTCCCTTAGTCTACC-
1 TTCCCTTAGT-CTACCTGT-CG--GCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCT
* *
178219 GTCGGCTTCAAT-CCTGGA-ACTTTTC
62 GTCGGCTTC-GTCCCTGGAGACTTTCC
** * * *
178244 AACCCTCAGTCT-GCTGTCGGCTT-GACCCTGTTGACTTTTCTTTCCTTCCC-TAGTCTGCCTGT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTG--GACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
* * *
178306 CTGTTTCGTCCGTGGAGACTTTCC
64 CGGCTTCGTCCCTGGAGACTTTCC
* **
178330 -TCCCTTAGTCCTACC-GTC-GCTTTGTCCCTGGACTTTTC--AAC--CCC--AGTCTGCCTGTC
1 TTCCCTTAGT-CTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTC
* * *
178386 GGCTTTGACCCTAGAGACTTTCTTTCC
65 GGCTTCGTCCCTGGAGA----CTTTCC
* ** *
178413 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGA---GACTTTCCTTCCCTTAGTCTACCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
* * *
178475 GCTTCGTCCTTGGATACTTTTC
66 GCTTCGTCCCTGGAGACTTTCC
** * * * * * * *
178497 AACCCTCAGTCTGCTTGTCGGCTTTGACCTTGGAGACTTTTCTTTCCTTCCCTTAGTCTGTCTGT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCT-G-GACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
*
178562 CGGCTTCATCCCTGGAGACTTTCC
64 CGGCTTCGTCCCTGGAGACTTTCC
** * ** *
178586 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGA---GACTTTTCAACCCTCAGTCTGCCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
* *
178648 GCTTTGACCCTGGAGACTTTTCTTTCC
66 GCTTCGTCCCTGGAGA-----CTTTCC
* * ** *
178675 TTCCCTTAGTCTGCCTGTCGGCTTCGTCTCTGGA---GACTTTCCTTCCCTTAGTCTACCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
*
178737 GCTTCGTCCCTGGAGACTTTTC
66 GCTTCGTCCCTGGAGACTTTCC
** * * * * * * * *
178759 AACACTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTACTTTCCTTCCCTTTGTCTACCTGT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCT-G-GACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
* *
178824 CGGCTTCATCCCTGGAGACTTTTC
64 CGGCTTCGTCCCTGGAGACTTTCC
** * *
178848 AACCCTTAGTCTGCCTGTCGGCTTCGTCCCTAGAGAC---T-TTT-CTTCCCTTAGTCTACCTGT
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCT-G-GACTTTTCTTTCCTTCCCTTAGTCTGCCTGT
*
178908 CGGCTTCGTCCCTGGAGACTTTTC
64 CGGCTTCGTCCCTGGAGACTTTCC
** * * * ** * *
178932 AACCCTTAGTATGCCTGTCGGCTACGTCCCTGGA---GACTTTTCATCCCTTAGTCTGCCTGTCG
1 TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
*
178994 GCTTTGAT-CCTGGAGACTTT
66 GCTTCG-TCCCTGGAGACTTT
179014 TATTTCCTCA
Statistics
Matches: 1292, Mismatches: 257, Indels: 199
0.74 0.15 0.11
Matches are distributed among these distances:
79 23 0.02
80 8 0.01
81 3 0.00
82 6 0.00
83 21 0.02
84 369 0.29
85 79 0.06
86 63 0.05
87 53 0.04
88 67 0.05
89 499 0.39
90 8 0.01
91 13 0.01
92 3 0.00
93 23 0.02
94 18 0.01
95 22 0.02
96 2 0.00
97 9 0.01
98 3 0.00
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.37
Consensus pattern (87 bp):
TTCCCTTAGTCTACCTGTCGGCTTCGTCCCTGGACTTTTCTTTCCTTCCCTTAGTCTGCCTGTCG
GCTTCGTCCCTGGAGACTTTCC
Found at i:179056 original size:42 final size:42
Alignment explanation
Indices: 178983--179062 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
178973 CATCCCTTAG
* *
178983 TCTGCCTGTCGGCTTTGATCCTGGAGACTTTTATTTCCTCAT
1 TCTGCCTGTCAGCTTTGATCCTAGAGACTTTTATTTCCTCAT
* *
179025 TCTGCCTGTCAGCTTTGA-CCTTAGAGGCTTTTCTTTCC
1 TCTGCCTGTCAGCTTTGATCC-TAGAGACTTTTATTTCC
179063 CTAAGTTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (42 bp):
TCTGCCTGTCAGCTTTGATCCTAGAGACTTTTATTTCCTCAT
Found at i:179690 original size:14 final size:15
Alignment explanation
Indices: 179656--179690 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
179646 TTTCACATAT
179656 TTTTCATTTCATGCA
1 TTTTCATTTCATGCA
179671 TTTTCATTTCATGC-
1 TTTTCATTTCATGCA
179685 TTTTCA
1 TTTTCA
179691 CGTAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTCATTTCATGCA
Found at i:179812 original size:5 final size:5
Alignment explanation
Indices: 179715--179811 Score: 122
Period size: 5 Copynumber: 19.4 Consensus size: 5
179705 CATGCATAAT
* * * * *
179715 TTTCA TTGCA TTTCA TTTCA TTTCA TTGCA TTGCA TTTCA TTGCA TTGCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
* * *
179765 TTTCA TTACA TTGCA TTTCA TTTCA TTTCA TTTCA TTTCA TTGCA TT
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TT
179812 GGTTTCACGC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 82 1.00
ACGTcount: A:0.21, C:0.20, G:0.07, T:0.53
Consensus pattern (5 bp):
TTTCA
Found at i:179911 original size:16 final size:16
Alignment explanation
Indices: 179884--179923 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
179874 CAACAATAAA
179884 AAAAATATTAAAAAAAT
1 AAAAA-ATTAAAAAAAT
* *
179901 TAAAAATTAAAGAAAT
1 AAAAAATTAAAAAAAT
179917 AAAAAAT
1 AAAAAAT
179924 ATTCAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAAATTAAAAAAAT
Found at i:181092 original size:16 final size:16
Alignment explanation
Indices: 181062--181092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
181052 TTTTTCCATA
*
181062 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
181078 AAAATAATAAAAAAA
1 AAAATAATAAAAAAA
181093 ATTCTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:182479 original size:79 final size:79
Alignment explanation
Indices: 182314--182515 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 79
182304 GATAATAACA
* * ** * *
182314 GGGTTGGAGTTTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGAT
1 GGGTTGGAG-TATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGAT
*
182378 TAGAAAAAAAAATCG
65 TAGAAAAAAAAACCG
*
182393 GGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATT
1 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA-T
* ** * **
182457 TTGGGAATAAGGCCG
65 TAGAAAAAAAAACCG
* * *
182472 GGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
182516 GATGAAATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
78 8 0.08
79 95 0.92
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (79 bp):
GGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
AGAAAAAAAAACCG
Found at i:182526 original size:28 final size:28
Alignment explanation
Indices: 182470--182546 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
182460 GGAATAAGGC
*** *
182470 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
182498 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
182526 CGAGGTTGGAGCATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
182547 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:182629 original size:52 final size:52
Alignment explanation
Indices: 182565--182701 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 52
182555 ATTGGTATTT
* *
182565 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* ** *
182617 TTTTGAAAATAAAACTAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGAAAATAAAA-TCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
**
182669 TTTT-AGCGATAAAATCGGAGTTGGAGTATCCCC
1 TTTTGA-AAATAAAATCGGAGTTGGAGTATCCCC
182702 TCAGAAATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
51 7 0.10
52 61 0.85
53 4 0.06
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
TTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:182720 original size:28 final size:27
Alignment explanation
Indices: 182688--182756 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
182678 TAAAATCGGA
182688 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-CATG-AATAACGGG
* *
182716 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACGGG
182743 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
182757 GATTGTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACGGG
Found at i:182726 original size:214 final size:213
Alignment explanation
Indices: 182474--182871 Score: 620
Period size: 214 Copynumber: 1.9 Consensus size: 213
182464 TAAGGCCGGG
* *
182474 GTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGCA
1 GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGCA
* *
182539 TCCTCGATTGTGAA-AAATTGGTATTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
65 TCCCCGATTGTGAAGAAATTGGTATTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTA
* *
182603 AAGGAAAATTGGCGTTTTGAAAATAAAACTAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAG
130 AA-GAAAATTAGCGTTTTGAAAATAAAA-TAGGAGTTGGAATATCCCCGATTGTGGAAAAATTAG
182667 TGTTTTAGCGATAAAATCGGA
193 TGTTTTAGCGATAAAATCGGA
* * *
182688 GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTAT
1 GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGCAT
* * *
182753 CCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCTCGATTAT
66 CCCCGATTGTGAAGAAATTGGTATTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAA
* * *
182818 AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGA
131 AGAAAATTAGCGTTTTGAAAATAAAATAGGAGTTGGAATATCCCCGATTGTGGA
182872 GAATTGATAA
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
212 4 0.02
213 71 0.43
214 92 0.55
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (213 bp):
GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGCAT
CCCCGATTGTGAAGAAATTGGTATTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAA
AGAAAATTAGCGTTTTGAAAATAAAATAGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGT
TTTAGCGATAAAATCGGA
Found at i:185263 original size:13 final size:13
Alignment explanation
Indices: 185245--185270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185235 ACAAAGATCC
185245 ATGTATCGATACA
1 ATGTATCGATACA
185258 ATGTATCGATACA
1 ATGTATCGATACA
185271 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:185266 original size:33 final size:33
Alignment explanation
Indices: 185224--185290 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
185214 AAAATTTCCA
***
185224 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
185257 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
185290 A
1 A
185291 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:185334 original size:19 final size:18
Alignment explanation
Indices: 185310--185377 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
185300 CAGTAGCTAA
185310 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
185329 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
185344 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
185361 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
185378 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:185350 original size:13 final size:13
Alignment explanation
Indices: 185332--185356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185322 ACAATACTTA
185332 TGTATCGATACAT
1 TGTATCGATACAT
185345 TGTATCGATACA
1 TGTATCGATACA
185357 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:185354 original size:32 final size:32
Alignment explanation
Indices: 185313--185375 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
185303 TAGCTAATTA
*
185313 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
185345 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
185376 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:185616 original size:27 final size:22
Alignment explanation
Indices: 185564--185617 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 22
185554 AAAAACCATT
185564 TTAAAATAATTAATATCGAAAA
1 TTAAAATAATTAATATCGAAAA
185586 -TAAACATGAATTAATATGCTGAAAA
1 TTAAA-AT-AATTAATAT-C-GAAAA
185611 GTTAAAA
1 -TTAAAA
185618 ATTAAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 4 0.15
22 2 0.08
23 9 0.35
24 1 0.04
25 5 0.19
26 1 0.04
27 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.30
Consensus pattern (22 bp):
TTAAAATAATTAATATCGAAAA
Found at i:186965 original size:8 final size:8
Alignment explanation
Indices: 186952--186979 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
186942 AGCCCGGACA
186952 TATGAAGC
1 TATGAAGC
186960 TATGAAGC
1 TATGAAGC
186968 TATGAAGC
1 TATGAAGC
186976 TATG
1 TATG
186980 TGTCCCCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (8 bp):
TATGAAGC
Found at i:188463 original size:27 final size:22
Alignment explanation
Indices: 188411--188464 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 22
188401 AAATAAAATT
188411 TTAAAATAATTAATATCGAAAA
1 TTAAAATAATTAATATCGAAAA
188433 -TAAACATGAATTAATATGCTGAAAA
1 TTAAA-AT-AATTAATAT-C-GAAAA
188458 GTTAAAA
1 -TTAAAA
188465 ATTAAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 4 0.15
22 2 0.08
23 9 0.35
24 1 0.04
25 5 0.19
26 1 0.04
27 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.30
Consensus pattern (22 bp):
TTAAAATAATTAATATCGAAAA
Found at i:190009 original size:13 final size:13
Alignment explanation
Indices: 189991--190017 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
189981 ATAGTACTTT
189991 ATGTATCGATACA
1 ATGTATCGATACA
190004 ATGTATCGATACA
1 ATGTATCGATACA
190017 A
1 A
190018 GGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:190184 original size:18 final size:20
Alignment explanation
Indices: 190143--190184 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
190133 CTATAGACCC
190143 TAATTCATATCAAACAAGCA
1 TAATTCATATCAAACAAGCA
*
190163 TAATTCAT-TCACACAA-CA
1 TAATTCATATCAAACAAGCA
190181 TAAT
1 TAAT
190185 AAACATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (20 bp):
TAATTCATATCAAACAAGCA
Found at i:196206 original size:20 final size:20
Alignment explanation
Indices: 196181--196248 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
196171 GTTACAAGCA
196181 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
196201 ATGTATTGAT---A--CA--
1 ATGTATCGATACAATTCATC
196214 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
196234 AGGTATCGATACAAT
1 ATGTATCGATACAAT
196249 GTATCGATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
13 9 0.24
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 23 0.61
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:196219 original size:13 final size:13
Alignment explanation
Indices: 196201--196264 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
196191 ACAATTCATC
*
196201 ATGTATTGATACA
1 ATGTATCGATACA
196214 ATGTATCGATACA
1 ATGTATCGATACA
196227 A--T-TC-AT-C-
1 ATGTATCGATACA
*
196234 AGGTATCGATACA
1 ATGTATCGATACA
196247 ATGTATCGATACA
1 ATGTATCGATACA
*
196260 TTGTA
1 ATGTA
196265 CCATGTATCG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.07
10 4 0.10
11 3 0.07
12 1 0.02
13 29 0.69
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:196273 original size:33 final size:33
Alignment explanation
Indices: 196179--196280 Score: 152
Period size: 33 Copynumber: 3.1 Consensus size: 33
196169 CCGTTACAAG
*
196179 CAATGTATCGATACAATTCATCATGTATTGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
*
196212 CAATGTATCGATACAATTCATCAGGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
* *
196245 CAATGTATCGATAC-ATTGTACCATGTATCGATA
1 CAATGTATCGATACAATT-CATCATGTATCGATA
196278 CAA
1 CAA
196281 ACAGTGGTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 3 0.05
33 60 0.95
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCGATA
Found at i:200839 original size:20 final size:19
Alignment explanation
Indices: 200793--200868 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
200783 TTTTAACTAG
*
200793 ATGTATCGATACATTATTC
1 ATGTATCGATACATTATAC
*
200812 AATATATCGATACATTCATAC
1 -ATGTATCGATACATT-ATAC
* * *
200833 ATGTATCGATATATTGAAAA
1 ATGTATCGATACATT-ATAC
200853 ATGTATCGATACATTA
1 ATGTATCGATACATTA
200869 GGGTAAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.02
20 43 0.91
21 3 0.06
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
ATGTATCGATACATTATAC
Found at i:201837 original size:32 final size:31
Alignment explanation
Indices: 201775--201867 Score: 95
Period size: 32 Copynumber: 3.1 Consensus size: 31
201765 TTTTTTTTAA
* * * *
201775 AAAAGA-TGCCACTAACTTGTGTGGGTTTTG
1 AAAAGAGTACCACCAACTTGTGTAGGCTTTG
201805 AAAAGAGTTACCACCAACTTGTGTAGGCTTTG
1 AAAAGAG-TACCACCAACTTGTGTAGGCTTTG
* *
201837 -AAAGAGTGCCACCAAC-T-TATAGGCTTTG
1 AAAAGAGTACCACCAACTTGTGTAGGCTTTG
201865 AAA
1 AAA
201868 GGGTATGCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 10 0.19
29 3 0.06
30 15 0.28
31 6 0.11
32 20 0.37
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAAGAGTACCACCAACTTGTGTAGGCTTTG
Found at i:201865 original size:28 final size:28
Alignment explanation
Indices: 201821--202121 Score: 404
Period size: 28 Copynumber: 10.6 Consensus size: 28
201811 GTTACCACCA
* **
201821 ACTTGTGTAGGCTTTGAAAGAGTGCCACCA
1 ACTTGTG--GGCTTTGAAAGGGTGCCACTG
* *
201851 ACTTATAGGCTTTGAAAGGGTATGCCACTG
1 ACTTGTGGGCTTTGAAAGGG--TGCCACTG
201881 ACTTGTGGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTG
201909 ACTTGTGGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTG
*
201937 ACTTGTGGTCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTG
*
201965 ACTTGTGGGCTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTG
201993 ACTTGTGGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTG
* *
202021 ACTTGTGGGCTTTGAAAGGATGCCACTA
1 ACTTGTGGGCTTTGAAAGGGTGCCACTG
***
202049 ACTTGTGGGCTTTGAAAAAAATGCCACTG
1 ACTTGTGGGCTTTG-AAAGGGTGCCACTG
* * *
202078 ACTTGTGAGCTTTGAAAGGATGCCAGTG
1 ACTTGTGGGCTTTGAAAGGGTGCCACTG
* *
202106 ACCTATGGGCTTTGAA
1 ACTTGTGGGCTTTGAA
202122 GAGATTAACG
Statistics
Matches: 245, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
28 192 0.78
29 24 0.10
30 29 0.12
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAGGGTGCCACTG
Found at i:203395 original size:9 final size:9
Alignment explanation
Indices: 203371--203469 Score: 80
Period size: 9 Copynumber: 10.9 Consensus size: 9
203361 TCTGGACCTC
203371 TTTTTTGTT
1 TTTTTTGTT
203380 TGTTTTT-TT
1 T-TTTTTGTT
203389 TTATTTT-TT
1 TT-TTTTGTT
203398 TTTGTTT-TT
1 TTT-TTTGTT
* *
203407 TTTCTTGGT
1 TTTTTTGTT
203416 TTTTTTG-T
1 TTTTTTGTT
203424 TTTTTTGTTT
1 TTTTTTG-TT
*
203434 TTTTCTTGGT
1 TTTT-TTGTT
203444 TTTTTTGTT
1 TTTTTTGTT
**
203453 TTTTTTCAT
1 TTTTTTGTT
203462 TTTTTTGT
1 TTTTTTGT
203470 ACGAAAGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
8 12 0.16
9 44 0.59
10 15 0.20
11 3 0.04
ACGTcount: A:0.02, C:0.03, G:0.11, T:0.84
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:203401 original size:20 final size:20
Alignment explanation
Indices: 203371--203458 Score: 99
Period size: 20 Copynumber: 4.3 Consensus size: 20
203361 TCTGGACCTC
*
203371 TTTTTTGTTTGTTTTTTT-T
1 TTTTTTTTTTGTTTTTTTGT
203390 TATTTTTTTTTGTTTTTTT-T
1 T-TTTTTTTTTGTTTTTTTGT
*
203410 CTTGGTTTTTTTGTTTTTTTGT
1 -TT-TTTTTTTTGTTTTTTTGT
* *
203432 TTTTTTCTTGGTTTTTTTGT
1 TTTTTTTTTTGTTTTTTTGT
203452 TTTTTTT
1 TTTTTTT
203459 CATTTTTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.02
20 39 0.66
21 18 0.31
22 1 0.02
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTGTTTTTTTGT
Found at i:203427 original size:28 final size:28
Alignment explanation
Indices: 203371--203456 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
203361 TCTGGACCTC
* *
203371 TTTTTTGTTTGTTTT-TT--TTTATTT-
1 TTTTTTGTTTTTTTTCTTGGTTTTTTTG
203395 TTTTTTGTTTTTTTTCTTGGTTTTTTTG
1 TTTTTTGTTTTTTTTCTTGGTTTTTTTG
203423 TTTTTT-TGTTTTTTTCTTGGTTTTTTTG
1 TTTTTTGT-TTTTTTTCTTGGTTTTTTTG
203451 TTTTTT
1 TTTTTT
203457 TTCATTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
24 14 0.25
25 2 0.04
27 7 0.13
28 32 0.58
ACGTcount: A:0.01, C:0.02, G:0.12, T:0.85
Consensus pattern (28 bp):
TTTTTTGTTTTTTTTCTTGGTTTTTTTG
Found at i:203457 original size:28 final size:29
Alignment explanation
Indices: 203385--203457 Score: 121
Period size: 28 Copynumber: 2.5 Consensus size: 29
203375 TTGTTTGTTT
*
203385 TTTTTTATTTTTTTTTGTTTTTTTTCTTGG
1 TTTTTT-TGTTTTTTTGTTTTTTTTCTTGG
203415 TTTTTTTGTTTTTTTG-TTTTTTTCTTGG
1 TTTTTTTGTTTTTTTGTTTTTTTTCTTGG
203443 TTTTTTTGTTTTTTT
1 TTTTTTTGTTTTTTT
203458 TCATTTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 27 0.64
29 9 0.21
30 6 0.14
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (29 bp):
TTTTTTTGTTTTTTTGTTTTTTTTCTTGG
Found at i:203467 original size:1 final size:1
Alignment explanation
Indices: 203371--203458 Score: 59
Period size: 1 Copynumber: 88.0 Consensus size: 1
203361 TCTGGACCTC
* * * * * ** * *
203371 TTTTTTGTTTGTTTTTTTTTATTTTTTTTTGTTTTTTTTCTTGGTTTTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** *
203436 TTCTTGGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
203459 CATTTTTTTG
Statistics
Matches: 65, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.85
Consensus pattern (1 bp):
T
Found at i:203467 original size:20 final size:18
Alignment explanation
Indices: 203371--203458 Score: 86
Period size: 19 Copynumber: 4.5 Consensus size: 18
203361 TCTGGACCTC
*
203371 TTTTTTGTTTGTTTTTTTT
1 TTTTTTTTTTG-TTTTTTT
203390 TATTTTTTTTTGTTTTTTT
1 T-TTTTTTTTTGTTTTTTT
203409 TCTTGGTTTTTTTGTTTTTTT
1 T-TT--TTTTTTTGTTTTTTT
*
203430 GTTTTTTTCTTGGTTTTTTT
1 -TTTTTTT-TTTGTTTTTTT
*
203450 GTTTTTTTT
1 TTTTTTTTT
203459 CATTTTTTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.03
19 21 0.35
20 19 0.32
21 17 0.28
22 1 0.02
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTTTT
Found at i:215786 original size:9 final size:11
Alignment explanation
Indices: 215760--215788 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
215750 GAAGTTTTTA
215760 TGAAAAATATT
1 TGAAAAATATT
215771 TGAAAAAT-TT
1 TGAAAAATATT
215781 TGAAAAAT
1 TGAAAAAT
215789 TATCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (11 bp):
TGAAAAATATT
Found at i:217443 original size:20 final size:20
Alignment explanation
Indices: 217418--217472 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
217408 TTTTAACTAG
217418 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
217438 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
217458 ATGTATCGATACATT
1 ATGTATCGATACATT
217473 TAGGTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:217531 original size:39 final size:38
Alignment explanation
Indices: 217488--217650 Score: 187
Period size: 39 Copynumber: 4.4 Consensus size: 38
217478 AAAAAGACAG
217488 AATGTATCGATACATTCATACATGTATCGATACATTGAA
1 AATGTATCGATACATT-ATACATGTATCGATACATTGAA
217527 AATGTATCGATACATTCATACATGTATCGATACATTGAA
1 AATGTATCGATACATT-ATACATGTATCGATACATTGAA
** * ***
217566 AATGTATCGATACATT-T--GGGTA---A-AAAGACAA
1 AATGTATCGATACATTATACATGTATCGATACATTGAA
*
217597 AATGTATCGATACATTATACATGTATCGATATATTGAAA
1 AATGTATCGATACATTATACATGTATCGATACATTG-AA
217636 AATGTATCGATACAT
1 AATGTATCGATACAT
217651 CTAGGTAAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
31 20 0.19
32 2 0.02
34 3 0.03
35 3 0.03
37 2 0.02
38 2 0.02
39 72 0.69
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (38 bp):
AATGTATCGATACATTATACATGTATCGATACATTGAA
Found at i:217533 original size:19 final size:20
Alignment explanation
Indices: 217488--217581 Score: 138
Period size: 19 Copynumber: 4.8 Consensus size: 20
217478 AAAAAGACAG
217488 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCATA
* *
217508 CATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
217527 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCATA
* *
217547 CATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
217566 AATGTATCGATACATT
1 AATGTATCGATACATT
217582 TGGGTAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
19 33 0.50
20 33 0.50
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:217610 original size:109 final size:109
Alignment explanation
Indices: 217418--217650 Score: 364
Period size: 109 Copynumber: 2.1 Consensus size: 109
217408 TTTTAACTAG
* *
217418 ATGTATCGATACATTATTCAATGTATCGATACATTATTCAATGTATCGATACATTTAGGTAAAAA
1 ATGTATCGATACATTATACAATGTATCGATACATTA-TAAATGTATCGATACATTTAGGTAAAAA
*
217483 GACAGAATGTATCGATACATTCATACATGTATCGATACATTG-AAA
65 GACAAAATGTATCGATACATT-ATACATGTATCGATACATTGAAAA
*
217528 ATGTATCGATACATTCATAC-ATGTATCGATACATTGA-AAATGTATCGATACATTTGGGTAAAA
1 ATGTATCGATACATT-ATACAATGTATCGATACATT-ATAAATGTATCGATACATTTAGGTAAAA
*
217591 AGACAAAATGTATCGATACATTATACATGTATCGATATATTGAAAA
64 AGACAAAATGTATCGATACATTATACATGTATCGATACATTGAAAA
217637 ATGTATCGATACAT
1 ATGTATCGATACAT
217651 CTAGGTAAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 7
0.91 0.04 0.06
Matches are distributed among these distances:
108 19 0.17
109 62 0.54
110 30 0.26
111 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (109 bp):
ATGTATCGATACATTATACAATGTATCGATACATTATAAATGTATCGATACATTTAGGTAAAAAG
ACAAAATGTATCGATACATTATACATGTATCGATACATTGAAAA
Found at i:217622 original size:19 final size:20
Alignment explanation
Indices: 217595--217650 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
217585 GTAAAAAGAC
217595 AAAATGTATCGATACATT-A
1 AAAATGTATCGATACATTGA
* * *
217614 TACATGTATCGATATATTGA
1 AAAATGTATCGATACATTGA
217634 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
217651 CTAGGTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:217658 original size:70 final size:70
Alignment explanation
Indices: 217525--217661 Score: 231
Period size: 70 Copynumber: 2.0 Consensus size: 70
217515 CGATACATTG
* *
217525 AAAATGTATCGATACATTCATACATGTATCGATACATTGAAAATGTATCGATACATTTGGGTAAA
1 AAAATGTATCGATACATTCATACATGTATCGATACATTGAAAATGTATCGATACATCTAGGTAAA
217590 AAGAC
66 AAGAC
*
217595 AAAATGTATCGATACATT-ATACATGTATCGATATATTGAAAAATGTATCGATACATCTAGGTAA
1 AAAATGTATCGATACATTCATACATGTATCGATACATTG-AAAATGTATCGATACATCTAGGTAA
217659 AAA
65 AAA
217662 TGTGACTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 19 0.30
70 44 0.70
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (70 bp):
AAAATGTATCGATACATTCATACATGTATCGATACATTGAAAATGTATCGATACATCTAGGTAAA
AAGAC
Found at i:220631 original size:18 final size:19
Alignment explanation
Indices: 220605--220647 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
220595 CAATAATATA
*
220605 ATATAATATACTTTTTA-T
1 ATATAATATAATTTTTATT
*
220623 ATATTATATAATTTTTATT
1 ATATAATATAATTTTTATT
220642 ATATAA
1 ATATAA
220648 AGATTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATAATATAATTTTTATT
Found at i:221029 original size:38 final size:37
Alignment explanation
Indices: 220961--221050 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 37
220951 TCTGTTAAAA
*
220961 ATTATTTAATTATAATTTAAAAAAATTATATTTAA-TAT
1 ATTATTTTATTA-AATTTAAAAAAATTATA-TTAATTAT
*
220999 ATTACTTTTATTAAATTTAAAAATAA-TATATTAATTGT
1 ATTA-TTTTATTAAATTTAAAAA-AATTATATTAATTAT
221037 ATTATTTTA-TAAAT
1 ATTATTTTATTAAAT
221051 ATTATTTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
36 5 0.11
37 9 0.19
38 24 0.51
39 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (37 bp):
ATTATTTTATTAAATTTAAAAAAATTATATTAATTAT
Found at i:221561 original size:16 final size:17
Alignment explanation
Indices: 221540--221571 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
221530 AAAAGAAAGG
221540 AAGAGA-AGAAAAAAAT
1 AAGAGAGAGAAAAAAAT
221556 AAGAGAGAGAAAAAAA
1 AAGAGAGAGAAAAAAA
221572 GAAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (17 bp):
AAGAGAGAGAAAAAAAT
Found at i:221624 original size:14 final size:13
Alignment explanation
Indices: 221598--221639 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
221588 TATATTTTAA
221598 TTATTATAAAAAT
1 TTATTATAAAAAT
*
221611 TTATTATTATAAAT
1 TTATTA-TAAAAAT
*
221625 TTA-TATAAAATT
1 TTATTATAAAAAT
221637 TTA
1 TTA
221640 AATGTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 8 0.32
13 8 0.32
14 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATTATAAAAAT
Found at i:221715 original size:12 final size:12
Alignment explanation
Indices: 221698--221739 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
221688 TATCATAATC
221698 ATATTATTTTTT
1 ATATTATTTTTT
221710 ATATTATTTTTTT
1 ATATTA-TTTTTT
*
221723 AATATTA-TATTT
1 -ATATTATTTTTT
221735 ATATT
1 ATATT
221740 GTATCTCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.19
12 10 0.37
13 6 0.22
14 6 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:222359 original size:17 final size:18
Alignment explanation
Indices: 222333--222367 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
222323 ATAAGTATTT
*
222333 TAAAATATAA-TAAAAAA
1 TAAAAAATAATTAAAAAA
222350 TAAAAAATAATTAAAAAA
1 TAAAAAATAATTAAAAAA
222368 AAGTAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAAATAATTAAAAAA
Found at i:225536 original size:20 final size:21
Alignment explanation
Indices: 225508--225550 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
225498 CATTGATCAG
*
225508 CTATC-AAAATCTGTTAATAA
1 CTATCAAAAATCTGTTAACAA
* *
225528 CTATTAAAAATTTGTTAACAA
1 CTATCAAAAATCTGTTAACAA
225549 CT
1 CT
225551 TATAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (21 bp):
CTATCAAAAATCTGTTAACAA
Found at i:226016 original size:16 final size:16
Alignment explanation
Indices: 225995--226064 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
225985 AATAAAAAAA
225995 TTAAATCATTTTGAAT
1 TTAAATCATTTTGAAT
*
226011 TTAAATAATTTT-AGA-
1 TTAAATCATTTTGA-AT
* * * *
226026 TCAGATCAATTTAAAT
1 TTAAATCATTTTGAAT
*
226042 TTAAATTATTTTGAAT
1 TTAAATCATTTTGAAT
226058 TTAAATC
1 TTAAATC
226065 GTGAATTAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
15 10 0.25
16 30 0.75
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
TTAAATCATTTTGAAT
Found at i:226491 original size:3 final size:3
Alignment explanation
Indices: 226476--226523 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
226466 GTCAAAAAAG
*
226476 TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
226522 TA
1 TA
226524 CTTAATTTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:227352 original size:16 final size:16
Alignment explanation
Indices: 227333--227391 Score: 66
Period size: 16 Copynumber: 3.4 Consensus size: 16
227323 TATTTTAGGA
227333 TTAAATTAATTTAGAT
1 TTAAATTAATTTAGAT
227349 TTAAATTAATTTGAGTTAAT
1 TTAAATTAATTT-AG---AT
227369 TTAAATTTAATTTA-AT
1 TTAAA-TTAATTTAGAT
227385 TTAAATT
1 TTAAATT
227392 CATATCAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.05
16 19 0.50
17 2 0.05
20 8 0.21
21 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
TTAAATTAATTTAGAT
Found at i:227391 original size:6 final size:5
Alignment explanation
Indices: 227333--227388 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
227323 TATTTTAGGA
* * * *
227333 TTAAA TTAAT TTAGAT TTAAA TTAAT TTGAG TTAAT TTAAAT TTAAT TTAAT
1 TTAAT TTAAT TTA-AT TTAAT TTAAT TTAAT TTAAT TT-AAT TTAAT TTAAT
227385 TTAA
1 TTAA
227389 ATTCATATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 32 0.76
6 10 0.24
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (5 bp):
TTAAT
Found at i:227401 original size:16 final size:16
Alignment explanation
Indices: 227382--227423 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
227372 AATTTAATTT
227382 AATTTAAATTCATATC
1 AATTTAAATTCATATC
*
227398 AATTTATATTCATATC
1 AATTTAAATTCATATC
*
227414 AAATTAAATT
1 AATTTAAATT
227424 TAAGTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTAAATTCATATC
Found at i:227433 original size:11 final size:11
Alignment explanation
Indices: 227417--227452 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
227407 TCATATCAAA
227417 TTAAATTTAAG
1 TTAAATTTAAG
227428 TTAAA-TTATAG
1 TTAAATTTA-AG
227439 TTAAATTTAAG
1 TTAAATTTAAG
227450 TTA
1 TTA
227453 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (11 bp):
TTAAATTTAAG
Found at i:227793 original size:2 final size:2
Alignment explanation
Indices: 227788--227837 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
227778 GTGTGTGCGC
227788 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
227830 AT AT AT AT
1 AT AT AT AT
227838 TATGAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:230236 original size:11 final size:11
Alignment explanation
Indices: 230216--230247 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
230206 TATGATAAAA
*
230216 TAAAAAATAAT
1 TAAAATATAAT
230227 TAAAATATAAT
1 TAAAATATAAT
230238 TAAAATATAA
1 TAAAATATAA
230248 CAAGATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAATATAAT
Found at i:230295 original size:60 final size:59
Alignment explanation
Indices: 230231--230342 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 59
230221 AATAATTAAA
*
230231 ATATAAT-TAAAATATAACAAGATATGAATA-TTATATAAATATATAAATATTTTAAAATTT
1 ATATAATAT-AAAT-TAACAAGATATGAAAATTTATATAAATATA-AAATATTTTAAAATTT
** * *
230291 ATATAATATAAATTATTAATATATTAAAATTTATATAAATATAAAATATTTT
1 ATATAATATAAATTAACAAGATATGAAAATTTATATAAATATAAAATATTTT
230343 TACATAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 20 0.44
60 24 0.53
61 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (59 bp):
ATATAATATAAATTAACAAGATATGAAAATTTATATAAATATAAAATATTTTAAAATTT
Found at i:230301 original size:33 final size:33
Alignment explanation
Indices: 230258--230339 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
230248 CAAGATATGA
* *
230258 ATATTATATAAATATATAAATATTTTAAAATTT
1 ATATAATATAAATATATAAATATATTAAAATTT
*
230291 ATATAATATAAAT-TATTAATATATTAAAATTT
1 ATATAATATAAATATATAAATATATTAAAATTT
230323 ATATAAATATAAA-ATAT
1 ATAT-AATATAAATATAT
230340 TTTTACATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 21 0.48
33 23 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATAATATAAATATATAAATATATTAAAATTT
Found at i:230333 original size:20 final size:19
Alignment explanation
Indices: 230270--230337 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 19
230260 ATTATATAAA
*
230270 TATATAAATATTTTAAAATT
1 TATAT-AATATATTAAAATT
230290 TATAT-A-ATA-T-AAA-T
1 TATATAATATATTAAAATT
230304 TAT-TAATATATTAAAATT
1 TATATAATATATTAAAATT
230322 TATATAA-ATA-TAAAAT
1 TATATAATATATTAAAAT
230338 ATTTTTACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
13 1 0.02
14 5 0.12
15 6 0.15
16 2 0.05
17 11 0.27
18 8 0.20
19 3 0.07
20 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATAATATATTAAAATT
Found at i:230335 original size:17 final size:17
Alignment explanation
Indices: 230283--230337 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
230273 ATAAATATTT
230283 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
230299 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
230314 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
230332 TAAAAT
1 TAAAAT
230338 ATTTTTACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 6 0.18
16 2 0.06
17 9 0.27
18 7 0.21
19 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:230927 original size:78 final size:78
Alignment explanation
Indices: 230812--230977 Score: 305
Period size: 78 Copynumber: 2.1 Consensus size: 78
230802 GCAAGCGTGG
* *
230812 CCACGTATTTCATCTCTTTCTTTTAATTTTTTCTCTCAAACGCACACGTGGCCATTTCTTTTGCC
1 CCACGTATTTCATCTCTTTCTTTTAATTTTTTATCTCAAACGCACACGTGGCCATTTCATTTGCC
230877 ACCAGTTAACTGC
66 ACCAGTTAACTGC
*
230890 CCACGTATTTCATCTTTTTCTTTTAATTTTTTATCTCAAACGCACACGTGGCCATTTCATTTGCC
1 CCACGTATTTCATCTCTTTCTTTTAATTTTTTATCTCAAACGCACACGTGGCCATTTCATTTGCC
230955 ACCAGTTAACTGC
66 ACCAGTTAACTGC
230968 CCACGTATTT
1 CCACGTATTT
230978 AACAAGGAAC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 85 1.00
ACGTcount: A:0.20, C:0.28, G:0.10, T:0.41
Consensus pattern (78 bp):
CCACGTATTTCATCTCTTTCTTTTAATTTTTTATCTCAAACGCACACGTGGCCATTTCATTTGCC
ACCAGTTAACTGC
Found at i:231122 original size:15 final size:15
Alignment explanation
Indices: 231098--231200 Score: 92
Period size: 15 Copynumber: 7.1 Consensus size: 15
231088 AAAAGTTAAG
231098 AATTTGAATTTAAAA
1 AATTTGAATTTAAAA
*
231113 AATTTAAATTT--AA
1 AATTTGAATTTAAAA
*
231126 AA--T-AGTTTAAAA
1 AATTTGAATTTAAAA
* *
231138 ATTTTGAACTTAAAA
1 AATTTGAATTTAAAA
*
231153 GATCTTGAATTTAAAA
1 AAT-TTGAATTTAAAA
231169 AATTTGAATTT-AAA
1 AATTTGAATTTAAAA
*
231183 AATTTTAGATTTAAAA
1 AATTTGA-ATTTAAAA
231199 AA
1 AA
231201 ATTCAAACCT
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
10 4 0.06
11 1 0.01
12 3 0.04
13 4 0.06
14 10 0.14
15 30 0.43
16 18 0.26
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (15 bp):
AATTTGAATTTAAAA
Found at i:231166 original size:31 final size:30
Alignment explanation
Indices: 231093--231200 Score: 95
Period size: 31 Copynumber: 3.8 Consensus size: 30
231083 AAAGAAAAAG
* *
231093 TTAAGAATTTGA-ATTTAAAAAATTT-AAA
1 TTAAAAATTTGAGATTTAAAAAATTTGAAC
* *
231121 TTTAAAA--T-AG-TTTAAAAATTTTGAAC
1 TTAAAAATTTGAGATTTAAAAAATTTGAAC
*
231147 TTAAAAGATCTTGA-ATTTAAAAAATTTGAAT
1 TTAAAA-AT-TTGAGATTTAAAAAATTTGAAC
*
231178 TTAAAAATTTTAGATTTAAAAAA
1 TTAAAAATTTGAGATTTAAAAAA
231201 ATTCAAACCT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
25 12 0.19
26 8 0.13
27 1 0.02
28 5 0.08
29 3 0.05
30 13 0.21
31 21 0.33
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (30 bp):
TTAAAAATTTGAGATTTAAAAAATTTGAAC
Found at i:231425 original size:22 final size:22
Alignment explanation
Indices: 231377--231428 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
231367 ATATTTAATA
*
231377 AAATAATAATTTATCAAAAAAT
1 AAATTATAATTTATCAAAAAAT
*
231399 AAATTATAATTTATCAAAAAGT
1 AAATTATAATTTATCAAAAAAT
231421 AAATTATA
1 AAATTATA
231429 GCATGAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATTATAATTTATCAAAAAAT
Found at i:232673 original size:16 final size:16
Alignment explanation
Indices: 232648--232682 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
232638 AACCAAATTC
*
232648 AAATAAGCTCGAATCT
1 AAATAAGCTCGAACCT
*
232664 AAATAGGCTCGAACCT
1 AAATAAGCTCGAACCT
232680 AAA
1 AAA
232683 AAAATCTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (16 bp):
AAATAAGCTCGAACCT
Found at i:234885 original size:33 final size:32
Alignment explanation
Indices: 234811--234893 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
234801 TCTATTTATA
* * *
234811 TATTATAATTATATTATATATTTTTAATATAT
1 TATTATATTTATATTATATAATTTTAATAAAT
*
234843 TAATA-ATTTATATTATATAAATTTTAATAAAT
1 TATTATATTTATATTATAT-AATTTTAATAAAT
*
234875 TTTTATATTTATATTATAT
1 TATTATATTTATATTATAT
234894 TTTAATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
31 12 0.28
32 18 0.42
33 13 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
TATTATATTTATATTATATAATTTTAATAAAT
Found at i:236018 original size:22 final size:21
Alignment explanation
Indices: 235966--236022 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
235956 TATATCTAAA
*
235966 TTATTATAT-ATTTATATAATT
1 TTATTATATAAATT-TATAATT
*
235987 TTTTTA-ATAAATTTATAATT
1 TTATTATATAAATTTATAATT
236007 TATATTATATAAATTT
1 T-TATTATATAAATTT
236023 TGACTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 10 0.33
21 12 0.40
22 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATATAAATTTATAATT
Found at i:236075 original size:12 final size:13
Alignment explanation
Indices: 236060--236093 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
236050 TTTTATCACA
*
236060 TTTTATATTAT-T
1 TTTTATATAATAT
236072 TTTTATATAATAT
1 TTTTATATAATAT
236085 TTTTATATA
1 TTTTATATA
236094 TAATTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATATAATAT
Found at i:236324 original size:14 final size:13
Alignment explanation
Indices: 236282--236326 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
236272 AATTCAAATT
236282 ATTAAATTTTAAA
1 ATTAAATTTTAAA
* *
236295 ATAAAAATTTAAA
1 ATTAAATTTTAAA
236308 ATTAAATCTTTAAA
1 ATTAAAT-TTTAAA
236322 ATTAA
1 ATTAA
236327 TTATTTAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTAAATTTTAAA
Found at i:236333 original size:14 final size:14
Alignment explanation
Indices: 236282--236333 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
236272 AATTCAAATT
236282 ATTAAAT-TTTAAA
1 ATTAAATATTTAAA
*
236295 A-TAAAAATTTAAA
1 ATTAAATATTTAAA
*
236308 ATTAAATCTTTAAA
1 ATTAAATATTTAAA
*
236322 ATTAATTATTTA
1 ATTAAATATTTA
236334 GATTGTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 4 0.12
13 8 0.25
14 20 0.62
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATATTTAAA
Found at i:236679 original size:14 final size:16
Alignment explanation
Indices: 236652--236692 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
236642 TAAATTAAAA
*
236652 TAAAAAATTATAAA-TT
1 TAAAATATT-TAAATTT
236668 T-AAATATTTAAATTT
1 TAAAATATTTAAATTT
236683 TAAAATATTT
1 TAAAATATTT
236693 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATATTTAAATTT
Found at i:241268 original size:2 final size:2
Alignment explanation
Indices: 241261--241298 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
241251 AATAATGTTT
241261 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
241299 AGTGTAGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:243363 original size:20 final size:20
Alignment explanation
Indices: 243330--243370 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
243320 ATTATTTTTA
** *
243330 ATTAAAATCTAATTATAAAT
1 ATTAAAATAAAATTAAAAAT
243350 ATTAAAATAAAATTAAAAAT
1 ATTAAAATAAAATTAAAAAT
243370 A
1 A
243371 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTAAAATAAAATTAAAAAT
Found at i:243760 original size:23 final size:22
Alignment explanation
Indices: 243729--243773 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
243719 ATATAAATAC
243729 AAATAATATTATATTATATATAAT
1 AAATAATATT-TATT-TATATAAT
243753 AAAT-ATATTTATTTATATAAT
1 AAATAATATTTATTTATATAAT
243774 TTTATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 5 0.24
24 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATAATATTTATTTATATAAT
Found at i:243769 original size:21 final size:21
Alignment explanation
Indices: 243729--243817 Score: 63
Period size: 21 Copynumber: 4.0 Consensus size: 21
243719 ATATAAATAC
243729 AAATAATATTATATTATATATAAT
1 AAAT-ATATT-TATT-TATATAAT
243753 AAATATATTTATTTATATAATT
1 AAATATATTTATTTATATAA-T
** * * *
243775 TTATATAAATTATTTACAT-TT
1 AAATAT-ATTTATTTATATAAT
*
243796 AAATATATTTTATTTATTTAAT
1 AAATATA-TTTATTTATATAAT
243818 TAATTAATTG
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
20 1 0.02
21 20 0.40
22 10 0.20
23 15 0.30
24 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATATATTTATTTATATAAT
Found at i:244153 original size:2 final size:2
Alignment explanation
Indices: 244146--244172 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
244136 AAAATTTTAA
244146 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 A
244173 ATCAATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:244829 original size:25 final size:23
Alignment explanation
Indices: 244793--244855 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
244783 TATTCGAATA
244793 AAATAA-ATAAATATATATATAAC
1 AAATAATA-AAATATATATATAAC
* **
244816 AAATAATTTAAAATATATTTATATT
1 AAATAA--TAAAATATATATATAAC
244841 AAATAATAAAATATA
1 AAATAATAAAATATA
244856 GGTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 15 0.44
25 18 0.53
26 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATAAAATATATATATAAC
Found at i:244914 original size:72 final size:70
Alignment explanation
Indices: 244834--244985 Score: 187
Period size: 72 Copynumber: 2.1 Consensus size: 70
244824 TAAAATATAT
** * * * * * *
244834 TTATATTAAATAATAAAATATAGGTAAAATTATATTTATGTTGATTGATAATAAAAAATTATTAA
1 TTATATTAAATAATAAAATATAAATAAAAATAT-TTTATATTAAATAATAATAAAAAATTA-AAA
244899 ATTAAAA
64 ATTAAAA
*
244906 TTATATTAAATAATAAAATATAAATAAAAATATTTTATATTAAATAATAATTAAAAATTAAAAAT
1 TTATATTAAATAATAAAATATAAATAAAAATATTTTATATTAAATAATAATAAAAAATTAAAAAT
* *
244971 TATAT
66 TAAAA
244976 TTATATTAAA
1 TTATATTAAA
244986 ATAAATTATT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
70 17 0.25
71 22 0.32
72 30 0.43
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (70 bp):
TTATATTAAATAATAAAATATAAATAAAAATATTTTATATTAAATAATAATAAAAAATTAAAAAT
TAAAA
Found at i:244959 original size:45 final size:45
Alignment explanation
Indices: 244883--244968 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
244873 GTTGATTGAT
*
244883 AATAAAAAATTATTAAATTAAAATTATATTAAATAA-TAAAATATA
1 AATAAAAAATTATTAAATTAAAAATATATTAAA-AATTAAAATATA
*
244928 AATAAAAATATT-TTATATTAAATAATA-ATTAAAAATTAAAA
1 AATAAAAA-ATTATTAAATTAAA-AATATATTAAAAATTAAAA
244969 ATTATATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
44 2 0.06
45 28 0.78
46 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (45 bp):
AATAAAAAATTATTAAATTAAAAATATATTAAAAATTAAAATATA
Found at i:244970 original size:64 final size:64
Alignment explanation
Indices: 244817--245019 Score: 157
Period size: 64 Copynumber: 3.1 Consensus size: 64
244807 ATATATAACA
* * ** *
244817 AATAATT-TAAAA-TATATTTATATTAAATAATAAAATATAGGTAAAATTATATTTATGTTGATT
1 AATAATTATAAAATTAAAATTATATTAAATAATAAAATATAAATAAAA--ATATTT-T-AT-ATT
244880 GATAAT
61 -A-AAT
* *
244886 AAAAAATTATTAAATTAAAATTATATTAAATAATAAAATATAAATAAAAATATTTTATATTAAAT
1 -AATAATTATAAAATTAAAATTATATTAAATAATAAAATATAAATAAAAATATTTTATATTAAAT
* * * *
244951 AATAATTA-AAAATTAAAAATTATATT-TATATTAAAATA-AATTATTAAATTATATTTA-ATTA
1 AATAATTATAAAATT-AAAATTATATTAAATAATAAAATATAA--ATAAAAATAT-TTTATATTA
245012 AAT
62 AAT
245015 AATAA
1 AATAA
245020 AATAATATAT
Statistics
Matches: 114, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
62 2 0.02
63 15 0.13
64 38 0.33
65 7 0.06
66 1 0.01
67 3 0.03
68 1 0.01
69 1 0.01
70 12 0.11
71 4 0.04
72 30 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (64 bp):
AATAATTATAAAATTAAAATTATATTAAATAATAAAATATAAATAAAAATATTTTATATTAAAT
Found at i:245002 original size:23 final size:23
Alignment explanation
Indices: 244976--245034 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
244966 AAAATTATAT
* *
244976 TTATATTAAAATAAATTATTAAA
1 TTATATTAAAATAAATAATAAAA
* *
244999 TTATATTTAATTAAATAATAAAA
1 TTATATTAAAATAAATAATAAAA
245022 TAATATATTAAAA
1 T--TATATTAAAA
245035 ACCAAAAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 20 0.71
25 8 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTATATTAAAATAAATAATAAAA
Found at i:245102 original size:14 final size:14
Alignment explanation
Indices: 245083--245115 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
245073 TTATTTATGT
*
245083 CAAAAATAATTTAA
1 CAAAAATAAATTAA
245097 CAAAAATAAATTAA
1 CAAAAATAAATTAA
245111 -AAAAA
1 CAAAAA
245116 GTGCCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (14 bp):
CAAAAATAAATTAA
Found at i:247411 original size:19 final size:20
Alignment explanation
Indices: 247373--247411 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
247363 TTTATAATTT
* *
247373 TTATTTTAATAGATTTAATA
1 TTATTTTAAGACATTTAATA
247393 TTATTTTAAGACA-TTAATA
1 TTATTTTAAGACATTTAATA
247412 AGTATACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
TTATTTTAAGACATTTAATA
Found at i:247476 original size:30 final size:31
Alignment explanation
Indices: 247423--247491 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
247413 GTATACTTTT
* *
247423 TATTATTAAAATATTTTATATTTATATTA-TA
1 TATTATTAAAATATATAATATTTA-ATTATTA
247454 TATTATTAAAA-ATATAATATTTAATTATTA
1 TATTATTAAAATATATAATATTTAATTATTA
*
247484 CATTATTA
1 TATTATTA
247492 TTTTTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 4 0.12
30 19 0.56
31 11 0.32
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTATTAAAATATATAATATTTAATTATTA
Found at i:247507 original size:30 final size:29
Alignment explanation
Indices: 247469--247526 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
247459 TTAAAAATAT
* *
247469 AATATTTAATTATTACATTATTATTTTTA
1 AATATTTAACTATAACATTATTATTTTTA
* *
247498 AATATTTTAACTATAATATTATTCTTTTT
1 AATA-TTTAACTATAACATTATTATTTTT
247527 TGAAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (29 bp):
AATATTTAACTATAACATTATTATTTTTA
Found at i:248329 original size:18 final size:17
Alignment explanation
Indices: 248298--248331 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
248288 TATTCATATC
*
248298 ATATTTATATTATTTTT
1 ATATTTATAATATTTTT
248315 ATATTGTATAATATTTT
1 ATATT-TATAATATTTT
248332 AATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
ATATTTATAATATTTTT
Found at i:255104 original size:2 final size:2
Alignment explanation
Indices: 255073--255125 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
255063 ATCATATAAT
* *
255073 TA TA T- TA TA TT TA T- TA T- TA TT TA T- 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
255111 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
255126 GAAGACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:255225 original size:10 final size:9
Alignment explanation
Indices: 255205--255276 Score: 63
Period size: 10 Copynumber: 7.3 Consensus size: 9
255195 TATAATAAAT
255205 AAAATATTA
1 AAAATATTA
255214 AAAATAATTA
1 AAAAT-ATTA
*
255224 AAATATAATA
1 AAA-ATATTA
255234 TAAAATATTA
1 -AAAATATTA
*
255244 TAAACACATTA
1 -AAA-ATATTA
*
255255 TAAATATATA
1 AAAATAT-TA
255265 AAAATATTA
1 AAAATATTA
255274 AAA
1 AAA
255277 TTTATACGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
9 13 0.25
10 29 0.56
11 10 0.19
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATATTA
Found at i:255239 original size:30 final size:32
Alignment explanation
Indices: 255189--255276 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 32
255179 TTTATATATA
* *
255189 TATATATATAATAAATAAAATATTAAAAATA-AT
1 TATAAATATAAT--ATAAAATATTAAAAACACAT
*
255222 TA-AAATATAATATAAAATATTATAAACACAT
1 TATAAATATAATATAAAATATTAAAAACACAT
255253 TATAAATAT-ATA-AAAATATTAAAA
1 TATAAATATAATATAAAATATTAAAA
255277 TTTATACGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
30 26 0.53
31 7 0.14
32 14 0.29
33 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (32 bp):
TATAAATATAATATAAAATATTAAAAACACAT
Found at i:262173 original size:14 final size:15
Alignment explanation
Indices: 262156--262188 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
262146 TATGAACTAT
262156 TTTTA-TTTTTTATC
1 TTTTACTTTTTTATC
*
262170 TTTTACTTTTTTCTC
1 TTTTACTTTTTTATC
262185 TTTT
1 TTTT
262189 TTCTTCTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTACTTTTTTATC
Found at i:263328 original size:11 final size:11
Alignment explanation
Indices: 263299--263350 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
263289 ATGATTATTC
263299 AAATTTAAAGTT
1 AAATTTAAA-TT
263311 AAA-TTAAATT
1 AAATTTAAATT
263321 AAATTTAAATT
1 AAATTTAAATT
*
263332 ---TTTAAA-A
1 AAATTTAAATT
263339 AAATTTAAATT
1 AAATTTAAATT
263350 A
1 A
263351 TTGTTTGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
8 6 0.18
10 11 0.33
11 13 0.39
12 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
AAATTTAAATT
Found at i:264332 original size:16 final size:17
Alignment explanation
Indices: 264311--264354 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
264301 TATAGTTGTC
264311 TATTTG-TTGATTAAAT
1 TATTTGATTGATTAAAT
*
264327 TATTTGATTTATTAAAT
1 TATTTGATTGATTAAAT
* *
264344 TTTTTGCTTGA
1 TATTTGATTGA
264355 ACTTGTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (17 bp):
TATTTGATTGATTAAAT
Found at i:265718 original size:2 final size:2
Alignment explanation
Indices: 265711--265745 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
265701 TAAATAGCTT
* *
265711 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
265746 TCTAATCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:265732 original size:12 final size:12
Alignment explanation
Indices: 265711--265745 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
265701 TAAATAGCTT
*
265711 TATATATATATA
1 TATATGTATATA
265723 TATATGTATATA
1 TATATGTATATA
265735 TATATGTATAT
1 TATATGTATAT
265746 TCTAATCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (12 bp):
TATATGTATATA
Found at i:266943 original size:3 final size:3
Alignment explanation
Indices: 266913--266961 Score: 64
Period size: 3 Copynumber: 15.7 Consensus size: 3
266903 CCAAGATAGC
266913 TAA TAA T-A TATA TATA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
266960 TA
1 TA
266962 TAAATATCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.72
4 10 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:266967 original size:9 final size:10
Alignment explanation
Indices: 266915--266967 Score: 69
Period size: 9 Copynumber: 5.6 Consensus size: 10
266905 AAGATAGCTA
266915 ATAAT-ATAT
1 ATAATAATAT
266924 ATATATAATAT
1 ATA-ATAATAT
266935 ATAATAATA-
1 ATAATAATAT
266944 ATAATAATA-
1 ATAATAATAT
266953 ATAATAATAT
1 ATAATAATAT
266963 A-AATA
1 ATAATA
266968 TCCTTAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
9 25 0.61
10 9 0.22
11 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATAATAT
Found at i:267015 original size:21 final size:20
Alignment explanation
Indices: 266975--267020 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
266965 ATATCCTTAA
266975 TTTA-TATTTTTGTTAATAT
1 TTTATTATTTTTGTTAATAT
266994 TTTATTATCTTTT-TTAATTAT
1 TTTATTAT-TTTTGTTAA-TAT
267015 TTTATT
1 TTTATT
267021 GAATTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 13 0.54
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTATTATTTTTGTTAATAT
Found at i:267334 original size:2 final size:2
Alignment explanation
Indices: 267294--267324 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
267284 AATAAAATAC
267294 AT AT -T 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
267325 GCAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:268584 original size:29 final size:28
Alignment explanation
Indices: 268560--268628 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
268550 TAAAATATAA
268560 TCTAGAATTTTAAAAAAAATCAAATCAAAT
1 TCTA-AATTTT-AAAAAAATCAAATCAAAT
* *
268590 TTTAAATTTTAAAAAAATCAAATCAAAA
1 TCTAAATTTTAAAAAAATCAAATCAAAT
268618 TC--AATTTTAAA
1 TCTAAATTTTAAA
268629 TTTAAAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 9 0.25
28 18 0.50
29 6 0.17
30 3 0.08
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (28 bp):
TCTAAATTTTAAAAAAATCAAATCAAAT
Found at i:270983 original size:12 final size:13
Alignment explanation
Indices: 270932--270983 Score: 63
Period size: 12 Copynumber: 3.9 Consensus size: 13
270922 CCAAGATAGC
270932 TAATATATATATATA
1 TAATATATA-ATA-A
270947 TATATATATAATAA
1 TA-ATATATAATAA
270961 TAATA-ATAATAA
1 TAATATATAATAA
270973 TAATATA-AATA
1 TAATATATAATA
270984 TCCTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 16 0.46
13 4 0.11
14 3 0.09
15 5 0.14
16 7 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:271321 original size:2 final size:2
Alignment explanation
Indices: 271310--271344 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
271300 AATAAAATAC
*
271310 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
271345 TTCTATTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:272594 original size:29 final size:28
Alignment explanation
Indices: 272570--272638 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
272560 TAAAATATAA
272570 TCTAGAATTTTAAAAAAAATCAAATCAAAT
1 TCTA-AATTTT-AAAAAAATCAAATCAAAT
* *
272600 TTTAAATTTTAAAAAAATCAAATCAAAA
1 TCTAAATTTTAAAAAAATCAAATCAAAT
272628 TC--AATTTTAAA
1 TCTAAATTTTAAA
272639 TTTAAAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 9 0.25
28 18 0.50
29 6 0.17
30 3 0.08
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (28 bp):
TCTAAATTTTAAAAAAATCAAATCAAAT
Found at i:284109 original size:51 final size:51
Alignment explanation
Indices: 284050--284157 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
284040 CAGATGTATT
* *
284050 GATACATTCTGTTTTTTTATCCAGATGTAACAATACATTTTTCAATGCATC
1 GATACATTCTATTTTTTTACCCAGATGTAACAATACATTTTTCAATGCATC
*** *
284101 GATACATTCTATTTTTTTACCCAGATGTATTGATACATTTTTCAATGTATC
1 GATACATTCTATTTTTTTACCCAGATGTAACAATACATTTTTCAATGCATC
284152 GATACA
1 GATACA
284158 CGTATGAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.44
Consensus pattern (51 bp):
GATACATTCTATTTTTTTACCCAGATGTAACAATACATTTTTCAATGCATC
Found at i:284150 original size:20 final size:20
Alignment explanation
Indices: 284125--284199 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
284115 TTTTACCCAG
*
284125 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
** * *
284145 ATGTATCGATACACGTATGA
1 ATGTATCGATACATTTTTCA
*
284165 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
284185 ATGTATCGATACATT
1 ATGTATCGATACATT
284200 CTGTCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Done.