Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_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: 2708727
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:2305435 original size:46 final size:45
Alignment explanation
Indices: 2305375--2305591 Score: 305
Period size: 46 Copynumber: 4.8 Consensus size: 45
2305365 TGCATAATGT
*
2305375 CGTATAAAAGGGCATGAAATGATGCCATAAATGAAATGTATAATAG
1 CGTA-AAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
* *
2305421 CATAAAAAGGGGCATGAAAGGATGCCATAAATAAAATGTATAATAG
1 CGTAAAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
2305467 CGTAAAAAGGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
1 CGTAAAAA-GGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
* * *
2305513 CTTAAAAAATGGCATGAGAGGATGCCATAAATGAAA--TATAATAG
1 CGT-AAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
*
2305557 CGTATAAAA-GGCATGAAAGGATGTCATAAATGAAA
1 CGTA-AAAAGGGCATGAAAGGATGCCATAAATGAAA
2305592 CGCATAGAGG
Statistics
Matches: 157, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
43 25 0.16
44 14 0.09
45 4 0.03
46 109 0.69
47 5 0.03
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (45 bp):
CGTAAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
Found at i:2310099 original size:163 final size:164
Alignment explanation
Indices: 2309823--2310410 Score: 848
Period size: 163 Copynumber: 3.6 Consensus size: 164
2309813 AGGTGAGTGC
*
2309823 CTAAGTGTGCAATTCACAGAATTCATCATATA-TTGATGAATAACCGTTTCGGCACTAAGTGTGC
1 CTAAGTGTGCAATTCACGGAATTCATCATA-AGTTGATGAATAACCGTTTCGGCACTAAGTGTGC
* * *
2309887 AAATTCACGGATTTCATCATATGTTGATGAATAACC-TTTTCAGCACTAAGTGTGCAAATTCACA
65 AAATTCACGGAATTCATCATATATTGATGAATAACCGTTTT-GGCACTAAGTGTGCAAATTCACA
2309951 GAATTCATCATATGTTGATGAATAACCGTTTC-GCA
129 GAATTCATCATATGTTGATGAATAACCGTTTCAGCA
* * ** **
2309986 CTAAGAGTGCAATTCATGGAATTCATCATAAGTTGATGAATAATTGTTTCGGCTTTAAGTGTGCA
1 CTAAGTGTGCAATTCACGGAATTCATCATAAGTTGATGAATAACCGTTTCGGCACTAAGTGTGCA
*
2310051 AATTCACGGAGTTCATCATATATTGATGAATAACCGTTTTGGCACTAAGTGTGCAAATTCACAGA
66 AATTCACGGAATTCATCATATATTGATGAATAACCGTTTTGGCACTAAGTGTGCAAATTCACAGA
* *
2310116 ATTCATCATATTTTGATGAATAACCGTTTCGGCA
131 ATTCATCATATGTTGATGAATAACCGTTTCAGCA
* *
2310150 CTAAGTGTGCAATTCACGGAATTCATCATATGTTGTTGAATAACCGTTTCGGCACTAAGTGTGCA
1 CTAAGTGTGCAATTCACGGAATTCATCATAAGTTGATGAATAACCGTTTCGGCACTAAGTGTGCA
* **
2310215 AATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGC-AATTCATGGA
66 AATTCACGGAATTCATCATATATTGATGAATAACCGTTTTGGCACTAAGTGTGCAAATTCACAGA
*
2310279 ATTTATCATATGTT-ATTGAATAACCGTTTCAGCA
131 ATTCATCATATGTTGA-TGAATAACCGTTTCAGCA
* * * * * *
2310313 CTAAGTGTGCAATCCACGAAATTCATCATGAGTTTATGAATAACCG-TACAGGCACTAACTGTGC
1 CTAAGTGTGCAATTCACGGAATTCATCATAAGTTGATGAATAACCGTTTC-GGCACTAAGTGTGC
*
2310377 AAATCCACGGAATTCATCAT-TAGTTGATGAATAA
65 AAATTCACGGAATTCATCATATA-TTGATGAATAA
2310411 TTGTACAGGC
Statistics
Matches: 383, Mismatches: 36, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
162 5 0.01
163 262 0.68
164 116 0.30
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (164 bp):
CTAAGTGTGCAATTCACGGAATTCATCATAAGTTGATGAATAACCGTTTCGGCACTAAGTGTGCA
AATTCACGGAATTCATCATATATTGATGAATAACCGTTTTGGCACTAAGTGTGCAAATTCACAGA
ATTCATCATATGTTGATGAATAACCGTTTCAGCA
Found at i:2310194 original size:109 final size:110
Alignment explanation
Indices: 2309823--2310410 Score: 809
Period size: 109 Copynumber: 5.4 Consensus size: 110
2309813 AGGTGAGTGC
* *
2309823 CTAAGTGTGC-AATTCACAGAATTCATCATATATTGATGAATAACCGTTTCGGCACTAAGTGTGC
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGC
* * *
2309887 AAATTCACGGATTTCATCATATGTTGATGAATAACCTTTTCAGCA
66 AAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* *
2309932 CTAAGTGTGCAAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTC-GCACTAAGAGTGC
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGC
* * ** *
2309996 -AATTCATGGAATTCATCATAAGTTGATGAATAATTGTTTCGGCT
66 AAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* * * *
2310040 TTAAGTGTGCAAATTCACGGAGTTCATCATATATTGATGAATAACCGTTTTGGCACTAAGTGTGC
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGC
* *
2310105 AAATTCACAGAATTCATCATATTTTGATGAATAACCGTTTCGGCA
66 AAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
*
2310150 CTAAGTGTGC-AATTCACGGAATTCATCATATGTTGTTGAATAACCGTTTCGGCACTAAGTGTGC
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGC
*
2310214 AAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGCA
66 AAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* * *
2310259 CTAAGTGTGC-AATTCATGGAATTTATCATATGTT-ATTGAATAACCGTTTCAGCACTAAGTGTG
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGA-TGAATAACCGTTTCGGCACTAAGTGTG
* * * *
2310322 C-AATCCACGAAATTCATCATGA-GTTTATGAATAACCG-TACAGGCA
65 CAAATTCACGGAATTCATCAT-ATGTTGATGAATAACCGTTTC-GGCA
* *
2310367 CTAACTGTGCAAATCCACGGAATTCATCAT-TAGTTGATGAATAA
1 CTAAGTGTGCAAATTCACGGAATTCATCATAT-GTTGATGAATAA
2310411 TTGTACAGGC
Statistics
Matches: 426, Mismatches: 44, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.00
108 127 0.30
109 212 0.50
110 86 0.20
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (110 bp):
CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGC
AAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
Found at i:2310422 original size:55 final size:55
Alignment explanation
Indices: 2309823--2310410 Score: 809
Period size: 55 Copynumber: 10.8 Consensus size: 55
2309813 AGGTGAGTGC
* *
2309823 CTAAGTGTGC-AATTCACAGAATTCATCATATATTGATGAATAACCGTTTCGGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* * *
2309877 CTAAGTGTGCAAATTCACGGATTTCATCATATGTTGATGAATAACCTTTTCAGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
*
2309932 CTAAGTGTGCAAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTC-GCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* * * ** *
2309986 CTAAGAGTGC-AATTCATGGAATTCATCATAAGTTGATGAATAATTGTTTCGGCT
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* * * *
2310040 TTAAGTGTGCAAATTCACGGAGTTCATCATATATTGATGAATAACCGTTTTGGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* *
2310095 CTAAGTGTGCAAATTCACAGAATTCATCATATTTTGATGAATAACCGTTTCGGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
*
2310150 CTAAGTGTGC-AATTCACGGAATTCATCATATGTTGTTGAATAACCGTTTCGGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
*
2310204 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
* * *
2310259 CTAAGTGTGC-AATTCATGGAATTTATCATATGTT-ATTGAATAACCGTTTCAGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGA-TGAATAACCGTTTCGGCA
* * * *
2310313 CTAAGTGTGC-AATCCACGAAATTCATCATGA-GTTTATGAATAACCG-TACAGGCA
1 CTAAGTGTGCAAATTCACGGAATTCATCAT-ATGTTGATGAATAACCGTTTC-GGCA
* *
2310367 CTAACTGTGCAAATCCACGGAATTCATCAT-TAGTTGATGAATAA
1 CTAAGTGTGCAAATTCACGGAATTCATCATAT-GTTGATGAATAA
2310411 TTGTACAGGC
Statistics
Matches: 475, Mismatches: 48, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
53 38 0.08
54 171 0.36
55 266 0.56
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (55 bp):
CTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCA
Found at i:2310446 original size:109 final size:109
Alignment explanation
Indices: 2309823--2310486 Score: 603
Period size: 109 Copynumber: 6.1 Consensus size: 109
2309813 AGGTGAGTGC
* * *
2309823 CTAAGTGTGC-AATTCACAGAATTCATCATATATTGATGAATAACCGTTTC-GGCACTAAGTGTG
1 CTAACTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCAGGCACTAAGTGTG
* * * * *
2309886 CAAATTCACGGATTTCATCATATGTTGATGAATAACCTTTTCA-GCA
66 CAAATCCAC-GAATTCATCATA-GTTTATGAATAACC-GTACAGGCA
* * *
2309932 CTAAGTGTGCAAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTC--GCACTAAGAGTG
1 CTAACTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCAGGCACTAAGTGTG
* * * ** * *
2309995 C-AATTCATGGAATTCATCATAAGTTGATGAATAATTGTTTC-GGCT
66 CAAATCCA-CGAATTCATCAT-AGTTTATGAATAACCG-TACAGGCA
* * * * *
2310040 TTAAGTGTGCAAATTCACGGAGTTCATCATATATTGATGAATAACCGTTT-TGGCACTAAGTGTG
1 CTAACTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCAGGCACTAAGTGTG
* * *
2310104 CAAATTCACAGAATTCATCATATTTTGATGAATAACCGTTTC-GGCA
66 CAAATCCAC-GAATTCATCATAGTTT-ATGAATAACCG-TACAGGCA
* *
2310150 CTAAGTGTGC-AATTCACGGAATTCATCATATGTTGTTGAATAACCGTTTC-GGCACTAAGTGTG
1 CTAACTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCAGGCACTAAGTGTG
* * ***
2310213 CAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGCA
66 CAAATCCAC-GAATTCATCATA-GTTTATGAATAACCGTACAGGCA
* * *
2310259 CTAAGTGTGC-AATTCATGGAATTTATCATATGTT-ATTGAATAACCGTTTCA-GCACTAAGTGT
1 CTAACTGTGCAAATTCACGGAATTCATCATATGTTGA-TGAATAACCGTTTCAGGCACTAAGTGT
2310321 GC-AATCCACGAAATTCATCATGAGTTTATGAATAACCGTACAGGCA
65 GCAAATCCACG-AATTCATCAT-AGTTTATGAATAACCGTACAGGCA
* ** * * *
2310367 CTAACTGTGCAAATCCACGGAATTCATCAT-TAGTTGATGAATAATTG-TACAGGCACGATGTGT
1 CTAACTGTGCAAATTCACGGAATTCATCATAT-GTTGATGAATAACCGTTTCAGGCACTAAGTGT
* * * *
2310430 GC-AACCCACGTAATTCATAATGAGTTAATGAACT-ACCGTATAGGCA
65 GCAAATCCACG-AATTCATCAT-AGTTTATGAA-TAACCGTACAGGCA
2310476 CT-ACGTGTGCA
1 CTAAC-TGTGCA
2310487 TCGTAATAAA
Statistics
Matches: 483, Mismatches: 49, Indels: 46
0.84 0.08 0.08
Matches are distributed among these distances:
107 1 0.00
108 131 0.27
109 266 0.55
110 85 0.18
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (109 bp):
CTAACTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCAGGCACTAAGTGTG
CAAATCCACGAATTCATCATAGTTTATGAATAACCGTACAGGCA
Found at i:2310475 original size:54 final size:54
Alignment explanation
Indices: 2309823--2310486 Score: 360
Period size: 55 Copynumber: 12.2 Consensus size: 54
2309813 AGGTGAGTGC
* * * *
2309823 CTAAGTGTGCAATTCAC-AGAATTCATCAT-ATATTGATGAATAACCGTTTC-GGCA
1 CTAAGTGTGCAATCCACGA-AATTCATCATGA-GTTAATGAATAACCG-TACAGGCA
* * * * * *
2309877 CTAAGTGTGCAAATTCACGGATTTCATCAT-ATGTTGATGAATAACCTTTTCA-GCA
1 CTAAGTGTGC-AATCCACGAAATTCATCATGA-GTTAATGAATAACC-GTACAGGCA
* * *
2309932 CTAAGTGTGCAAATTCAC-AGAATTCATCAT-ATGTTGATGAATAACCGTTTC--GCA
1 CTAAGTGTGC-AATCCACGA-AATTCATCATGA-GTTAATGAATAACCG-TACAGGCA
* * * * * * ** * *
2309986 CTAAGAGTGCAATTCATGGAATTCATCATAAGTTGATGAATAATTGTTTC-GGCT
1 CTAAGTGTGCAATCCACGAAATTCATCATGAGTTAATGAATAACCG-TACAGGCA
* * * * * * ***
2310040 TTAAGTGTGCAAATTCACGGAGTTCATCAT-ATATTGATGAATAACCGTTTTGGCA
1 CTAAGTGTGC-AATCCACGAAATTCATCATGA-GTTAATGAATAACCGTACAGGCA
* * * *
2310095 CTAAGTGTGCAAATTCAC-AGAATTCATCAT-ATTTTGATGAATAACCGTTTC-GGCA
1 CTAAGTGTGC-AATCCACGA-AATTCATCATGA-GTTAATGAATAACCG-TACAGGCA
* * ** *
2310150 CTAAGTGTGCAATTCACGGAATTCATCAT-ATGTTGTTGAATAACCGTTTC-GGCA
1 CTAAGTGTGCAATCCACGAAATTCATCATGA-GTTAATGAATAACCG-TACAGGCA
* * * ***
2310204 CTAAGTGTGCAAATTCACGGAATTCATCAT-ATGTTGATGAATAACCGTTTTGGCA
1 CTAAGTGTGC-AATCCACGAAATTCATCATGA-GTTAATGAATAACCGTACAGGCA
* * * * * *
2310259 CTAAGTGTGCAATTCATGGAATTTATCAT-ATGTTATTGAATAACCGTTTCA-GCA
1 CTAAGTGTGCAATCCACGAAATTCATCATGA-GTTAATGAATAACCG-TACAGGCA
*
2310313 CTAAGTGTGCAATCCACGAAATTCATCATGAGTTTATGAATAACCGTACAGGCA
1 CTAAGTGTGCAATCCACGAAATTCATCATGAGTTAATGAATAACCGTACAGGCA
* * * * **
2310367 CTAACTGTGCAAATCCACGGAATTCATCATTAGTTGATGAATAATTGTACAGGCA
1 CTAAGTGTGC-AATCCACGAAATTCATCATGAGTTAATGAATAACCGTACAGGCA
* * * * * *
2310422 CGATGTGTGCAACCCACGTAATTCATAATGAGTTAATGAACT-ACCGTATAGGCA
1 CTAAGTGTGCAATCCACGAAATTCATCATGAGTTAATGAA-TAACCGTACAGGCA
*
2310476 CTACGTGTGCA
1 CTAAGTGTGCA
2310487 TCGTAATAAA
Statistics
Matches: 524, Mismatches: 64, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
53 36 0.07
54 216 0.41
55 270 0.52
56 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (54 bp):
CTAAGTGTGCAATCCACGAAATTCATCATGAGTTAATGAATAACCGTACAGGCA
Found at i:2310486 original size:163 final size:164
Alignment explanation
Indices: 2309823--2310486 Score: 580
Period size: 163 Copynumber: 4.1 Consensus size: 164
2309813 AGGTGAGTGC
* * * * *
2309823 CTAAGTGTGCAATTCAC-AGAATTCATCATATATTGATGAATAACCGTTTCGGCACTAAGTGTGC
1 CTAAGTGTGCAATCCACGA-AATTCATCATATGTTGTTGAATAACCGTTACGGCACTAACTGTGC
* * * * * ** *
2309887 AAATTCACGGATTTCATCATATGTTGATGAATAACCTTTTCA-GCACTAAGTGTGCAAATTCACA
65 AAATCCACGGAATTCATCATATGTTGATGAATAACC-GTACAGGCACGAAGTGTGC-AACCCACG
* * *
2309951 GAATTCATCATATGTTGATGAATAACCGTTTC--GCA
128 GAATTCATAATATGTTAATGAATAACCGTATCAGGCA
* * * * * * ** * ** *
2309986 CTAAGAGTGCAATTCATGGAATTCATCATAAGTTGATGAATAATTGTTTCGGCTTTAAGTGTGCA
1 CTAAGTGTGCAATCCACGAAATTCATCATATGTTGTTGAATAACCGTTACGGCACTAACTGTGCA
* * * *** * ** *
2310051 AATTCACGGAGTTCATCATATATTGATGAATAACCGTTTTGGCACTAAGTGTGCAAATTCACAGA
66 AATCCACGGAATTCATCATATGTTGATGAATAACCGTACAGGCACGAAGTGTGC-AACCCACGGA
* * * *
2310116 ATTCATCATATTTTGATGAATAACCGTTTC-GGCA
130 ATTCATAATATGTTAATGAATAACCGTATCAGGCA
* * * *
2310150 CTAAGTGTGCAATTCACGGAATTCATCATATGTTGTTGAATAACCGTTTCGGCACTAAGTGTGCA
1 CTAAGTGTGCAATCCACGAAATTCATCATATGTTGTTGAATAACCGTTACGGCACTAACTGTGCA
* *** * ** *
2310215 AATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAGTGTGCAATTCATGGAA
66 AATCCACGGAATTCATCATATGTTGATGAATAACCGTACAGGCACGAAGTGTGCAACCCACGGAA
* * * *
2310280 TTTATCATATGTTATTGAATAACCGTTTCA-GCA
131 TTCATAATATGTTAATGAATAACCGTATCAGGCA
2310313 CTAAGTGTGCAATCCACGAAATTCATCATGA-GTT-TATGAATAACCG-TACAGGCACTAACTGT
1 CTAAGTGTGCAATCCACGAAATTCATCAT-ATGTTGT-TGAATAACCGTTAC-GGCACTAACTGT
** *
2310375 GCAAATCCACGGAATTCATCAT-TAGTTGATGAATAATTGTACAGGCACGATGTGTGCAACCCAC
63 GCAAATCCACGGAATTCATCATAT-GTTGATGAATAACCGTACAGGCACGAAGTGTGCAACCCAC
*
2310439 GTAATTCATAATGA-GTTAATGAACT-ACCGTAT-AGGCA
127 GGAATTCATAAT-ATGTTAATGAA-TAACCGTATCAGGCA
*
2310476 CTACGTGTGCA
1 CTAAGTGTGCA
2310487 TCGTAATAAA
Statistics
Matches: 438, Mismatches: 52, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
162 7 0.02
163 316 0.72
164 115 0.26
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (164 bp):
CTAAGTGTGCAATCCACGAAATTCATCATATGTTGTTGAATAACCGTTACGGCACTAACTGTGCA
AATCCACGGAATTCATCATATGTTGATGAATAACCGTACAGGCACGAAGTGTGCAACCCACGGAA
TTCATAATATGTTAATGAATAACCGTATCAGGCA
Found at i:2310789 original size:68 final size:68
Alignment explanation
Indices: 2310680--2311019 Score: 450
Period size: 68 Copynumber: 5.0 Consensus size: 68
2310670 AAAGGTTAAT
* *
2310680 GGCCTAGCTGTGTATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAACTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAACTGCCTT
2310745 TGA
66 TGA
* * *
2310748 GGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTACCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAACTGCCTT
2310813 TGA
66 TGA
* * ** *
2310816 GGCCTAACTGTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGAGTCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAACTGCCTT
*
2310881 TTA
66 TGA
* *
2310884 GGCCTAACTGTGCATTTGACATAAAGGTGTCAATTATGCCAG-TAGATGAAAGGCTAACTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAACTGCCTT
2310948 TGA
66 TGA
** * * * * * * * *
2310951 GGCCTAGTTGTGCATTTGAGAAAAAGGTGACAATCAT-TTCAATTAGATGAAAGGTTAAATGCCT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCT-AGTTAGATGAAAGGCTAACTGCCT
2311015 TTGA
65 TTGA
2311019 G
1 G
2311020 TAAAAAGACT
Statistics
Matches: 241, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
67 53 0.22
68 188 0.78
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAACTGCCTT
TGA
Found at i:2311088 original size:45 final size:45
Alignment explanation
Indices: 2311039--2311276 Score: 293
Period size: 46 Copynumber: 5.2 Consensus size: 45
2311029 TAGATGTATA
* *
2311039 GAAATGCATAAT-GTCATATAAAA-GGCATAAAAGGATGCCGTAAAT
1 GAAATGCATAATAG-CATA-AAAAGGGCATGAAAGGATGCCATAAAT
* * *
2311084 GAAATGTATAATAGCGTAAAAAGGGGCATGAAACGATGCCATAAAT
1 GAAATGCATAATAGCATAAAAA-GGGCATGAAAGGATGCCATAAAT
* * *
2311130 GAAATGTATAATAGCGTAAAAAGGGGCATGAAACGATGCCATAAAT
1 GAAATGCATAATAGCATAAAAA-GGGCATGAAAGGATGCCATAAAT
* * *
2311176 GAAATGTATAATAGCTTAAAAAAGGGCATGAGAGGATGCCATAAAT
1 GAAATGCATAATAGCAT-AAAAAGGGCATGAAAGGATGCCATAAAT
*
2311222 GAAATGCATAATAGCATATAAAA-GGCATGAAAGGATGTCATAAAT
1 GAAATGCATAATAGCATA-AAAAGGGCATGAAAGGATGCCATAAAT
2311267 GAAATGCATA
1 GAAATGCATA
2311277 GAGGTGCATT
Statistics
Matches: 176, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
44 4 0.02
45 45 0.26
46 122 0.69
47 5 0.03
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (45 bp):
GAAATGCATAATAGCATAAAAAGGGCATGAAAGGATGCCATAAAT
Found at i:2311123 original size:46 final size:46
Alignment explanation
Indices: 2311062--2311272 Score: 309
Period size: 46 Copynumber: 4.6 Consensus size: 46
2311052 TCATATAAAA
* *
2311062 GGCATAAAAGGATGCCGTAAATGAAATGTATAATAGCGTAAAAAGG
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
*
2311108 GGCATGAAACGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
* * *
2311154 GGCATGAAACGATGCCATAAATGAAATGTATAATAGCTTAAAAAAG
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
* * *
2311200 GGCATGAGAGGATGCCATAAATGAAATGCATAATAGCATATAAAA--
1 GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTA-AAAAGG
*
2311245 GGCATGAAAGGATGTCATAAATGAAATG
1 GGCATGAAAGGATGCCATAAATGAAATG
2311273 CATAGAGGTG
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
45 26 0.17
46 123 0.80
47 4 0.03
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (46 bp):
GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGG
Found at i:2316294 original size:11 final size:11
Alignment explanation
Indices: 2316277--2316308 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2316267 TCACACCCCA
2316277 AAAATTTATTT
1 AAAATTTATTT
*
2316288 GAAATTTATTT
1 AAAATTTATTT
2316299 AAAATTTATT
1 AAAATTTATT
2316309 ATTGTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
AAAATTTATTT
Found at i:2316712 original size:22 final size:22
Alignment explanation
Indices: 2316687--2316734 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
2316677 TTTTTCATCG
2316687 ATTCAAGCCACCATGCTCGTCA
1 ATTCAAGCCACCATGCTCGTCA
*
2316709 ATTCAAGCCACCATGCTCGTCG
1 ATTCAAGCCACCATGCTCGTCA
2316731 ATTC
1 ATTC
2316735 GCCTCACCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (22 bp):
ATTCAAGCCACCATGCTCGTCA
Found at i:2317103 original size:22 final size:22
Alignment explanation
Indices: 2317078--2317122 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2317068 CCTGACCCGC
*
2317078 TAACTGGTCTGACAGTTGACTT
1 TAACTGGTCAGACAGTTGACTT
**
2317100 TAACTGGTCAGACCTTTGACTT
1 TAACTGGTCAGACAGTTGACTT
2317122 T
1 T
2317123 GACTTTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (22 bp):
TAACTGGTCAGACAGTTGACTT
Found at i:2317972 original size:32 final size:32
Alignment explanation
Indices: 2317929--2318002 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
2317919 ACCTAAGGCG
*
2317929 ACCCTTGGGTAGGCTCTCAAGCCCCAAGGTAC
1 ACCCTTAGGTAGGCTCTCAAGCCCCAAGGTAC
*
2317961 ACCCTTAGGTAGGCTCTCAGGCCCCAAGGTAC
1 ACCCTTAGGTAGGCTCTCAAGCCCCAAGGTAC
*
2317993 TCCCTTAGGT
1 ACCCTTAGGT
2318003 TATGTAGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.20, C:0.34, G:0.24, T:0.22
Consensus pattern (32 bp):
ACCCTTAGGTAGGCTCTCAAGCCCCAAGGTAC
Found at i:2323328 original size:80 final size:80
Alignment explanation
Indices: 2323226--2323387 Score: 270
Period size: 80 Copynumber: 2.0 Consensus size: 80
2323216 TGTGTGCCAA
* * *
2323226 GAAAATCACTGTTACACAGGACATCGAAAGGTAGAAATCATCAAAAAGGCATGATCTTCTGGGGC
1 GAAAATCACTGTTACACAGGACATCAAAAGGGAGAAATCATAAAAAAGGCATGATCTTCTGGGGC
*
2323291 TAACATTGTACGATG
66 TAACATTATACGATG
*
2323306 GAAAATCACTGTTACGCAGGACATCAAAAGGGAGAAATCATAAAAAAGGCATGATCTTCTGGGGC
1 GAAAATCACTGTTACACAGGACATCAAAAGGGAGAAATCATAAAAAAGGCATGATCTTCTGGGGC
*
2323371 TAACTTTATACGATG
66 TAACATTATACGATG
2323386 GA
1 GA
2323388 TAAAAGCAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (80 bp):
GAAAATCACTGTTACACAGGACATCAAAAGGGAGAAATCATAAAAAAGGCATGATCTTCTGGGGC
TAACATTATACGATG
Found at i:2324229 original size:26 final size:26
Alignment explanation
Indices: 2324190--2324242 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
2324180 TGTTATTTAC
2324190 TTTTCAGTACTTTAATCTTTT-GCCTT
1 TTTTCAGTACTTT-ATCTTTTAGCCTT
*
2324216 TTTTCAGTTA-TTTATTTTTTAGCCTT
1 TTTTCAG-TACTTTATCTTTTAGCCTT
2324242 T
1 T
2324243 AATTTATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
26 16 0.67
27 2 0.08
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (26 bp):
TTTTCAGTACTTTATCTTTTAGCCTT
Found at i:2324951 original size:2 final size:2
Alignment explanation
Indices: 2324944--2325056 Score: 226
Period size: 2 Copynumber: 56.5 Consensus size: 2
2324934 ATCAACTTAC
2324944 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
2324986 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
2325028 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2325057 TATTTTAGTA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 111 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2325333 original size:4 final size:4
Alignment explanation
Indices: 2325324--2325349 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2325314 TTGGTAAATA
2325324 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
2325350 ATTGCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:2326607 original size:19 final size:20
Alignment explanation
Indices: 2326580--2326620 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
2326570 TCAGTATCAG
*
2326580 TACTGACCTCTGAGTA-CGA
1 TACTAACCTCTGAGTATCGA
*
2326599 TACTAACCTCTGGGTATCGA
1 TACTAACCTCTGAGTATCGA
2326619 TA
1 TA
2326621 ACAACTAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (20 bp):
TACTAACCTCTGAGTATCGA
Found at i:2327169 original size:138 final size:138
Alignment explanation
Indices: 2326916--2327177 Score: 391
Period size: 138 Copynumber: 1.9 Consensus size: 138
2326906 CCAAAACCCC
* * * * ** *
2326916 TTATTTTAAATGTCTGATGAACAATATCAGTATTGTTCTTCTAGTACTGATACCCAAACCCATAA
1 TTATATTAAAAGTCTGATGAACAATATCAATATTCTTCTTCTAGTACCAATACCCAAACCCAAAA
* * *
2326981 ATGCCCTGTTTTGGGTATGAAATTGACCCTCTAACTCACCCAAAAGTCCTACTGAGGTTAGCTCG
66 ATACCCTGTTTTGGGTATAAAAATGACCCTCTAACTCACCCAAAAGTCCTACTGAGGTTAGCTCG
2327046 AAATCCCT
131 AAATCCCT
*
2327054 TTATATTAAAAGTCTGATGAACAATATCAATATTCCTT-TTCTAGTACCAATACCCAAGCCCAAA
1 TTATATTAAAAGTCTGATGAACAATATCAATATT-CTTCTTCTAGTACCAATACCCAAACCCAAA
**
2327118 AATACCCTGTTTTGGGTATAAAAATGACCCTCTAACTCACCCAGGAGTCCTACTGAGGTT
65 AATACCCTGTTTTGGGTATAAAAATGACCCTCTAACTCACCCAAAAGTCCTACTGAGGTT
2327178 CCAAAACATT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
138 108 0.98
139 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (138 bp):
TTATATTAAAAGTCTGATGAACAATATCAATATTCTTCTTCTAGTACCAATACCCAAACCCAAAA
ATACCCTGTTTTGGGTATAAAAATGACCCTCTAACTCACCCAAAAGTCCTACTGAGGTTAGCTCG
AAATCCCT
Found at i:2328248 original size:30 final size:30
Alignment explanation
Indices: 2328177--2328256 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 30
2328167 AATTTAAAAT
* *
2328177 AATTTATTAAT-TATAATTATAAAATTAATA
1 AATTTATT-ATCTATAATTATTATATTAATA
*
2328207 AATTTA--A-CTATAATTATTATATTTATA
1 AATTTATTATCTATAATTATTATATTAATA
2328234 AATTTATTATCTAT-ATTAATTAT
1 AATTTATTATCTATAATT-ATTAT
2328257 GATCATTAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
27 23 0.55
29 4 0.10
30 15 0.36
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTTATTATCTATAATTATTATATTAATA
Found at i:2328312 original size:42 final size:39
Alignment explanation
Indices: 2328210--2328313 Score: 93
Period size: 42 Copynumber: 2.6 Consensus size: 39
2328200 ATTAATAAAT
* * *
2328210 TTAACTATAATTATTATATTTATAAATTTATTATCTATA
1 TTAATTATAGTTATTATATTAATAAATTTATTATCTATA
* * * *
2328249 TTAATTAT-GATCATTAGATTAATAAAATTTATATTTTTTATA
1 TTAATTATAG-TTATTATATTAAT-AAA-TT-TATTATCTATA
*
2328291 TTAGTTATAGTTATTATATTAAT
1 TTAATTATAGTTATTATATTAAT
2328314 TTTTTTAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
39 17 0.34
40 3 0.06
41 2 0.04
42 27 0.54
43 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (39 bp):
TTAATTATAGTTATTATATTAATAAATTTATTATCTATA
Found at i:2328325 original size:27 final size:27
Alignment explanation
Indices: 2328289--2328348 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
2328279 ATATTTTTTA
* * * *
2328289 TATTAGTTATAGTTATTATATTAATTT
1 TATTAATTATAATCATTAAATTAATTT
*
2328316 TTTTAATTATAATCATTAAATTAATTT
1 TATTAATTATAATCATTAAATTAATTT
2328343 TATTAA
1 TATTAA
2328349 ATGATTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (27 bp):
TATTAATTATAATCATTAAATTAATTT
Found at i:2328936 original size:20 final size:20
Alignment explanation
Indices: 2328875--2328941 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 20
2328865 ATTCCTTTAT
* *
2328875 TTAAATTATTTTT-CTTAAA
1 TTAATTTATTTTTGATTAAA
*
2328894 -TAATTCATTTATTGATT--A
1 TTAATTTATTT-TTGATTAAA
2328912 TTAATTTATTTTTGATTAAA
1 TTAATTTATTTTTGATTAAA
2328932 TTAATTTATT
1 TTAATTTATT
2328942 AGATTAACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 15 0.38
19 11 0.28
20 13 0.33
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTAATTTATTTTTGATTAAA
Found at i:2329087 original size:25 final size:25
Alignment explanation
Indices: 2329059--2329127 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
2329049 ATAGTGGGAA
*
2329059 TTAAAATATATATTTTTTATTTTTC
1 TTAAAATATATATTTTTTAATTTTC
*
2329084 TT-AAATAATATTTTTATTTAATTTTC
1 TTAAAAT-ATATATTT-TTTAATTTTC
* *
2329110 -AAAAACATATATTTTTTA
1 TTAAAATATATATTTTTTA
2329128 CTAATAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
24 8 0.22
25 16 0.44
26 12 0.33
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAAAATATATATTTTTTAATTTTC
Found at i:2330478 original size:44 final size:44
Alignment explanation
Indices: 2330420--2330524 Score: 167
Period size: 44 Copynumber: 2.3 Consensus size: 44
2330410 ATAAATTGTT
*
2330420 ATATGTGTTAAGACC-AATAAAAATGTTTGGTTATGTATTTTGTTTG
1 ATATGTG--AAGACCAAAT-AAAATGTTTAGTTATGTATTTTGTTTG
2330466 ATATGTGAAGACCAAATAAAATGTTTAGTTATGTATTTTGTTTG
1 ATATGTGAAGACCAAATAAAATGTTTAGTTATGTATTTTGTTTG
2330510 ATATGTGAAGACCAA
1 ATATGTGAAGACCAA
2330525 GTTCCATGTT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
44 47 0.82
45 3 0.05
46 7 0.12
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (44 bp):
ATATGTGAAGACCAAATAAAATGTTTAGTTATGTATTTTGTTTG
Found at i:2331297 original size:21 final size:21
Alignment explanation
Indices: 2331245--2331298 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
2331235 CATGTTGCAG
* *
2331245 CAGGGTGAAAAGATGATGCAA
1 CAGGGTGAAAAGAAGATACAA
* * *
2331266 CAAGGTCAAAAGAAGTTACAA
1 CAGGGTGAAAAGAAGATACAA
*
2331287 TAGGGTGAAAAG
1 CAGGGTGAAAAG
2331299 TTGTTGTAAC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.09, G:0.30, T:0.15
Consensus pattern (21 bp):
CAGGGTGAAAAGAAGATACAA
Found at i:2333225 original size:30 final size:30
Alignment explanation
Indices: 2333189--2333246 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2333179 AGTGAAACGA
**
2333189 CGGTTCAAACTGGTTTTGTCGGTTTTCAAC
1 CGGTTCAAACTGGTTTTCCCGGTTTTCAAC
**
2333219 CGGTTCACCCTGGTTTTCCCGGTTTTCA
1 CGGTTCAAACTGGTTTTCCCGGTTTTCA
2333247 GCCAGTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (30 bp):
CGGTTCAAACTGGTTTTCCCGGTTTTCAAC
Found at i:2334333 original size:15 final size:16
Alignment explanation
Indices: 2334295--2334325 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2334285 TATTTATGTC
2334295 ATTTATTTACTTATTT
1 ATTTATTTACTTATTT
2334311 ATTTATTT-CTTATTT
1 ATTTATTTACTTATTT
2334326 TTTCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTATTTACTTATTT
Found at i:2334466 original size:41 final size:42
Alignment explanation
Indices: 2334421--2334500 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
2334411 AAGGTCTTAC
* * *
2334421 AGATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGACTAAT
1 AGATGACCCAAAGGACTTAATCATCATGCTCGAAAGACTAAT
* * *
2334462 AGATGACCCAAATGATTTAATCATCATGCTCGGAAGACT
1 AGATGACCCAAAGGACTTAATCATCATGCTCGAAAGACT
2334501 TATTGATTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 14 0.44
42 18 0.56
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (42 bp):
AGATGACCCAAAGGACTTAATCATCATGCTCGAAAGACTAAT
Found at i:2334810 original size:258 final size:258
Alignment explanation
Indices: 2334371--2334836 Score: 665
Period size: 258 Copynumber: 1.8 Consensus size: 258
2334361 TCAAAATATT
* *
2334371 TTTCTCAATTTTTGAATATCATATGAAAACATCATGCCCGAAGGTCTTACAGATGGCCCGAAGGA
1 TTTCTCAATTTTTAAATATCATATGAAAACATCATGCCCGAAGATCTTACAGATGGCCCGAAGGA
*
2334436 CTTATCATCTTGCTCGAAAGACTAATAGATGACCCAAATGATTTAATCATCATGCTCGGAAGACT
66 CTTATCATCTTGCTCGAAAGACTAACAGATGACCCAAATGATTTAATCATCATGCTCGGAAGACT
* * * * **
2334501 TATTGATTACCAGAGGACTTGCTCGTTTTTGAAATATATAATTGGATAAGAAACTTTGGAAATCA
131 TATTGATGACCAGAGGACTTACTCGTTTTTGAAATAGATAACTCAATAAGAAACTTTGGAAATCA
2334566 CTTTCTTACTTTTAAATAATTTTAATTTTTGGAAAAGATTAAATGAAAAACTCTAGAAATCGC
196 CTTTCTTACTTTTAAATAATTTTAATTTTTGGAAAAGATTAAATGAAAAACTCTAGAAATCGC
* *
2334629 TTTCTCATTTTTTAAAATATCATATGAAAACATC-TGCCC-AGAGATCTTATAGATGGCCCTG-A
1 TTTCTCAATTTTT-AAATATCATATGAAAACATCATGCCCGA-AGATCTTACAGATGGCCC-GAA
* *
2334691 GGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAA-GATTTAATCATCATGCT-TGAA
63 GGACTTATCATCTTGCTCGAAAGACTAACAGATGACCC-AAATGATTTAATCATCATGCTCGGAA
* * * *
2334754 -ACTTATTGATGGCCCAGATGACTTACTCATTTTTTGAAATAGATTACTCAATAAGAAACTTTGG
127 GACTTATTGAT-GACCAGAGGACTTACTC-GTTTTTGAAATAGATAACTCAATAAGAAACTTTGG
* *
2334818 AAATCGCTTTCTTATTTTT
190 AAATCACTTTCTTACTTTT
2334837 TTTCTTCAAA
Statistics
Matches: 183, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
256 10 0.05
257 17 0.09
258 133 0.73
259 23 0.13
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (258 bp):
TTTCTCAATTTTTAAATATCATATGAAAACATCATGCCCGAAGATCTTACAGATGGCCCGAAGGA
CTTATCATCTTGCTCGAAAGACTAACAGATGACCCAAATGATTTAATCATCATGCTCGGAAGACT
TATTGATGACCAGAGGACTTACTCGTTTTTGAAATAGATAACTCAATAAGAAACTTTGGAAATCA
CTTTCTTACTTTTAAATAATTTTAATTTTTGGAAAAGATTAAATGAAAAACTCTAGAAATCGC
Found at i:2334928 original size:41 final size:42
Alignment explanation
Indices: 2334893--2334973 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
2334883 AGATGGCTTG
*
2334893 AAGGACTT-ATCATCT-TACTCGAAAGACTGACAGATGACCCA
1 AAGGACTTAATCAT-TATACTCGAAAGACTGACAGATGGCCCA
* * *
2334934 AAGGATTTAATCATTATACTCGAAAGACTTACTGATGGCC
1 AAGGACTTAATCATTATACTCGAAAGACTGACAGATGGCC
2334974 AGAAGAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.24
42 26 0.76
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (42 bp):
AAGGACTTAATCATTATACTCGAAAGACTGACAGATGGCCCA
Found at i:2343235 original size:138 final size:138
Alignment explanation
Indices: 2342981--2343239 Score: 348
Period size: 138 Copynumber: 1.9 Consensus size: 138
2342971 GAATGTAGTA
* *
2342981 TCTAATATTAACCCTATTTAATTATAATCAATTATTTAATCGAATAGTCGAAATGGACCCTCGGG
1 TCTAATATTAACCATATTTAATTATAATCAATTATTGAATCGAATAGTCGAAATGGACCCTCGGG
* *
2343046 CATTAAGGCAAGAGACAAATTGAATATTCCTTAAATTAAAAGACTAAAGTGAAAATTAGCCTAAA
66 CATTAAGGCAAGAGACAAATCGAATATTCCTTAAATTAAAAGAATAAAGTGAAAATTAGCCTAAA
2343111 ATGGAGGC
131 ATGGAGGC
* * * *
2343119 TCTAATATTAACCATATTTGATTTTAATCAGTTATTGAATCGAACT-GTTGAAATGGACCCTCGG
1 TCTAATATTAACCATATTTAATTATAATCAATTATTGAATCGAA-TAGTCGAAATGGACCCTCGG
* *
2343183 GCATTAAGG--AGAGGGCTAAATCGAATATTACC-TAAATT-AAAGAAATAGAGTGAAAAT
65 GCATTAAGGCAAGA-GAC-AAATCGAATATT-CCTTAAATTAAAAG-AATAAAGTGAAAAT
2343240 GTAATACCCT
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
136 3 0.03
137 6 0.06
138 94 0.89
139 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (138 bp):
TCTAATATTAACCATATTTAATTATAATCAATTATTGAATCGAATAGTCGAAATGGACCCTCGGG
CATTAAGGCAAGAGACAAATCGAATATTCCTTAAATTAAAAGAATAAAGTGAAAATTAGCCTAAA
ATGGAGGC
Found at i:2344099 original size:202 final size:201
Alignment explanation
Indices: 2343755--2344157 Score: 781
Period size: 202 Copynumber: 2.0 Consensus size: 201
2343745 CCTTGGATGC
2343755 GATTAAAAACATGTATGAAAAAGTAGTGATTTTGGTTTTAAGTGTTCTTTGGAGATTTTAGATGT
1 GATTAAAAACATGTATGAAAAAGTAGTGATTTTGGTTTTAAGTGTTCTTTGGAGATTTTAGATGT
2343820 TATAGGAAGATTAATGAAGGAATGTTAGTTGGGTTTAGTGATGATGAGTTTAATGGTATTGTTGG
66 TATAGGAAGATTAATGAAGGAATGTTAGTTGGGTTTAGTGATGATGAGTTTAATGGTATTGTTGG
2343885 AGGTAAAAGTAAGAGAATTAAATG-AATTTGGGTAATAATCAAAATGAAAAAATTGGGTAAGGTT
131 AGGTAAAAGTAAGAGAATTAAATGAAATTTGGGTAATAATCAAAATGAAAAAATTGGGTAAGGTT
2343949 ATCAGT
196 ATCAGT
2343955 GATTAAAAACATGTATGAAAAAGTAGTGTGATTTTGGTTTTAAGTGTTCTTTGGAGATTTTAGAT
1 GATTAAAAACATGTATGAAAAAGTA--GTGATTTTGGTTTTAAGTGTTCTTTGGAGATTTTAGAT
2344020 GTTATAGGAAGATTAATGAAGGAATGTTAGTTGGGTTTAGTGATGATGAGTTTAATGGTATTGTT
64 GTTATAGGAAGATTAATGAAGGAATGTTAGTTGGGTTTAGTGATGATGAGTTTAATGGTATTGTT
2344085 GGAGGTAAAAGTAAGAGAATTAAATGAAATTTGGGTAATAATCAAAATGAAAAAATTGGGTAAGG
129 GGAGGTAAAAGTAAGAGAATTAAATGAAATTTGGGTAATAATCAAAATGAAAAAATTGGGTAAGG
2344150 TTATCAGT
194 TTATCAGT
2344158 ACTGGAAGAA
Statistics
Matches: 200, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
200 25 0.12
202 129 0.64
203 46 0.23
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.35
Consensus pattern (201 bp):
GATTAAAAACATGTATGAAAAAGTAGTGATTTTGGTTTTAAGTGTTCTTTGGAGATTTTAGATGT
TATAGGAAGATTAATGAAGGAATGTTAGTTGGGTTTAGTGATGATGAGTTTAATGGTATTGTTGG
AGGTAAAAGTAAGAGAATTAAATGAAATTTGGGTAATAATCAAAATGAAAAAATTGGGTAAGGTT
ATCAGT
Found at i:2365762 original size:203 final size:203
Alignment explanation
Indices: 2365334--2365959 Score: 871
Period size: 203 Copynumber: 3.1 Consensus size: 203
2365324 ATCCTTGTGA
* * ** *
2365334 TGCATGTATCA-TCATCCATCTCTTCAAAAAGATTTGACCTCAAATATAAAACTTCAAAGGGAGA
1 TGCATGTATCATTCCTCC-TTTCTTCAAAAAGATTCAACCTCAAATATAAAACATCAAAGGGAGA
2365398 AACATTAGGATCTTTAAAGAATTCATTCATATTATACTTACCGAATAGATATGCTTTGAATCTTT
65 AACATTAGGATCTTTAAAGAATTCATTCATATTATACTTACCGAATAGATATGCTTTGAATCTTT
* * * * * * * *
2365463 GAGACTTTTTCTTTTAATAGGTTCGAGTAGAGATATAAGTCCAAAGAAGAATGTGTTATCATCAT
130 GAGACTTTTTCTTCTAATAGGTTCAAGTAGAAACATTAGTCCAAAGAAGCATGTATTATCATTAT
*
2365528 GGACT-TTG
195 GGACTCTAG
* * * *
2365536 ATGCATGTACCATTCCTCCTTTCTTCAAAAAGATTCAACCTAAAATCTAAAACACCAAAGGGAGA
1 -TGCATGTATCATTCCTCCTTTCTTCAAAAAGATTCAACCTCAAATATAAAACATCAAAGGGAGA
* * *
2365601 AACATTAGGATCTTTAAAAAATTCATTCATATTATACTTACTGAATAGATATGCTTTGAACCTTT
65 AACATTAGGATCTTTAAAGAATTCATTCATATTATACTTACCGAATAGATATGCTTTGAATCTTT
* *
2365666 GATACTTTGTTCTTCTAATAGGTTCAAGTAGAAACATTAGTCCAAATAAGCATGTATTATCATTA
130 GAGACTTT-TTCTTCTAATAGGTTCAAGTAGAAACATTAGTCCAAAGAAGCATGTATTATCATTA
2365731 TGGACTCTAG
194 TGGACTCTAG
* * *
2365741 TGCATGTATCATTCC-CCTTTCTTCAAAAAGATTCAACATCAAATTTGAAACATCAAAGGGAGAA
1 TGCATGTATCATTCCTCCTTTCTTCAAAAAGATTCAACCTCAAATATAAAACATCAAAGGGAGAA
* * * *
2365805 ACATTAGGATCTTTAAAGAATTCATTCATATTATACTTACCAAATATATATGTTTTGAATCTATG
66 ACATTAGGATCTTTAAAGAATTCATTCATATTATACTTACCGAATAGATATGCTTTGAATCTTTG
* * *
2365870 AGATTTTTCTTCTTCTAATAGGTTCAAATAGAAACATTAGTCCAAAGAAGCATGCATTATCATTA
131 AGA-CTTT-TTCTTCTAATAGGTTCAAGTAGAAACATTAGTCCAAAGAAGCATGTATTATCATTA
* *
2365935 TAGACTCTGG
194 TGGACTCTAG
2365945 TGCATGTATCATTCC
1 TGCATGTATCATTCC
2365960 ACCTCTCCAG
Statistics
Matches: 375, Mismatches: 44, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
203 222 0.59
204 151 0.40
205 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (203 bp):
TGCATGTATCATTCCTCCTTTCTTCAAAAAGATTCAACCTCAAATATAAAACATCAAAGGGAGAA
ACATTAGGATCTTTAAAGAATTCATTCATATTATACTTACCGAATAGATATGCTTTGAATCTTTG
AGACTTTTTCTTCTAATAGGTTCAAGTAGAAACATTAGTCCAAAGAAGCATGTATTATCATTATG
GACTCTAG
Found at i:2371874 original size:11 final size:11
Alignment explanation
Indices: 2371860--2371962 Score: 54
Period size: 11 Copynumber: 9.5 Consensus size: 11
2371850 TAACAAATTG
*
2371860 ATTAATATGTT
1 ATTAATATATT
*
2371871 ATTAAGAAATATT
1 ATT-A-ATATATT
2371884 -TTAATATATT
1 ATTAATATATT
* *
2371894 ATTAACATGTT
1 ATTAATATATT
* *
2371905 GTTAAGA-ATGGT
1 ATTAATATAT--T
2371917 -TTAATATATT
1 ATTAATATATT
*
2371927 ATTAACAT-TT
1 ATTAATATATT
2371937 -TTAATATATT
1 ATTAATATATT
* *
2371947 GTTAATATGTT
1 ATTAATATATT
2371958 ATTAA
1 ATTAA
2371963 GGAATGGTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
9 6 0.09
10 12 0.17
11 41 0.59
12 6 0.09
13 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.50
Consensus pattern (11 bp):
ATTAATATATT
Found at i:2371925 original size:33 final size:34
Alignment explanation
Indices: 2371860--2371934 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
2371850 TAACAAATTG
* *
2371860 ATTAATATGTTATTAAGAAATATTTTAATATATT
1 ATTAACATGTTATTAAGAAATAGTTTAATATATT
* *
2371894 ATTAACATGTTGTTAAG-AATGGTTTAATATATT
1 ATTAACATGTTATTAAGAAATAGTTTAATATATT
2371927 ATTAACAT
1 ATTAACAT
2371935 TTTTAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 22 0.59
34 15 0.41
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (34 bp):
ATTAACATGTTATTAAGAAATAGTTTAATATATT
Found at i:2371944 original size:53 final size:54
Alignment explanation
Indices: 2371882--2371985 Score: 156
Period size: 53 Copynumber: 1.9 Consensus size: 54
2371872 TTAAGAAATA
*
2371882 TTTTAATATATTATTAACATGTTGTTAA-GAATGGTTTAATATATTATTAACAT
1 TTTTAATATATTATTAACATGTTATTAAGGAATGGTTTAATATATTATTAACAT
* * * *
2371935 TTTTAATATATTGTTAATATGTTATTAAGGAATGGTTTAATTTGTTATTAA
1 TTTTAATATATTATTAACATGTTATTAAGGAATGGTTTAATATATTATTAA
2371986 TACTTTAAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 25 0.56
54 20 0.44
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.51
Consensus pattern (54 bp):
TTTTAATATATTATTAACATGTTATTAAGGAATGGTTTAATATATTATTAACAT
Found at i:2371993 original size:53 final size:52
Alignment explanation
Indices: 2371878--2371993 Score: 151
Period size: 53 Copynumber: 2.2 Consensus size: 52
2371868 GTTATTAAGA
*
2371878 AATATTTTAATATATTATTAACATGTTGTTAAGAATGGTTTAATATATTATT
1 AATATTTTAATATATTATTAACATGTTATTAAGAATGGTTTAATATATTATT
* * * * *
2371930 AACATTTTTAATATATTGTTAATATGTTATTAAGGAATGGTTTAATTTGTTATT
1 AATA-TTTTAATATATTATTAACATGTTATTAA-GAATGGTTTAATATATTATT
*
2371984 AATACTTTAA
1 AATATTTTAA
2371994 GGCTTTAGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.06
53 30 0.56
54 21 0.39
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (52 bp):
AATATTTTAATATATTATTAACATGTTATTAAGAATGGTTTAATATATTATT
Found at i:2377979 original size:35 final size:32
Alignment explanation
Indices: 2377904--2378015 Score: 174
Period size: 32 Copynumber: 3.6 Consensus size: 32
2377894 TGCATGGTAT
*
2377904 ATGTGAAGAAGACGCCGAGACATCCCCCTCTC
1 ATGTGAAGAAGACGCCGAGACATCCCCCTCCC
2377936 ATGTGAAGAAGACGCCGAGACATCCCCCTCCC
1 ATGTGAAGAAGACGCCGAGACATCCCCCTCCC
* * *
2377968 ATGTGAAGAAGACGCCGAGAAAT-CCAC-CCA
1 ATGTGAAGAAGACGCCGAGACATCCCCCTCCC
2377998 ATGTGAAGAAGACGCCGA
1 ATGTGAAGAAGACGCCGA
2378016 AAATCCTATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 20 0.26
31 3 0.04
32 53 0.70
ACGTcount: A:0.33, C:0.30, G:0.24, T:0.12
Consensus pattern (32 bp):
ATGTGAAGAAGACGCCGAGACATCCCCCTCCC
Found at i:2379679 original size:28 final size:28
Alignment explanation
Indices: 2379639--2379722 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 28
2379629 ATATTTTATT
*
2379639 CATGGTATATATGTATAATTTATTAAAA
1 CATGGTATGTATGTATAATTTATTAAAA
* *
2379667 CATGATATGTATGTGTATATAATTTATTAATA
1 CATGGTATGTA--TG--TATAATTTATTAAAA
*
2379699 CATGGTATGAATGTATAATTTATT
1 CATGGTATGTATGTATAATTTATT
2379723 TATTCATACA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
28 20 0.43
30 4 0.09
32 23 0.49
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (28 bp):
CATGGTATGTATGTATAATTTATTAAAA
Found at i:2379724 original size:32 final size:32
Alignment explanation
Indices: 2379652--2379749 Score: 101
Period size: 32 Copynumber: 3.1 Consensus size: 32
2379642 GGTATATATG
* * *
2379652 TATAATTTATTAAAACATGATATGTATGTGTA
1 TATAATTTATTAATACATGATATGAATGTATA
*
2379684 TATAATTTATTAATACATGGTATGAATGTATA
1 TATAATTTATTAATACATGATATGAATGTATA
* * * *
2379716 -ATTTATTTATTCATACATG-CATGTATGTATA
1 TA-TAATTTATTAATACATGATATGAATGTATA
2379747 TAT
1 TAT
2379750 GTACGATATT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
31 12 0.21
32 44 0.79
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (32 bp):
TATAATTTATTAATACATGATATGAATGTATA
Found at i:2379923 original size:22 final size:22
Alignment explanation
Indices: 2379898--2379944 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
2379888 GTAATGTATG
2379898 TATA-ATATATACATGCATACAT
1 TATACATATATACATG-ATACAT
2379920 TATACATATATACATGATACAT
1 TATACATATATACATGATACAT
2379942 TAT
1 TAT
2379945 CTACATGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (22 bp):
TATACATATATACATGATACAT
Found at i:2381676 original size:15 final size:17
Alignment explanation
Indices: 2381656--2381688 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2381646 TAACTAAATC
2381656 ATAAAAAA-A-ATTAAG
1 ATAAAAAATAGATTAAG
2381671 ATAAAAAATAGATTAAG
1 ATAAAAAATAGATTAAG
2381688 A
1 A
2381689 CAAGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (17 bp):
ATAAAAAATAGATTAAG
Found at i:2381772 original size:7 final size:7
Alignment explanation
Indices: 2381760--2381789 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2381750 AAATGGAAAT
2381760 AAATAAA
1 AAATAAA
2381767 AAATAAA
1 AAATAAA
2381774 AAAT-AA
1 AAATAAA
2381780 AAATAAA
1 AAATAAA
2381787 AAA
1 AAA
2381790 GGAAAACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:2381783 original size:13 final size:14
Alignment explanation
Indices: 2381760--2381789 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2381750 AAATGGAAAT
2381760 AAATAAAAAATAAA
1 AAATAAAAAATAAA
2381774 AAAT-AAAAATAAA
1 AAATAAAAAATAAA
2381787 AAA
1 AAA
2381790 GGAAAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAATAAAAAATAAA
Found at i:2383459 original size:56 final size:55
Alignment explanation
Indices: 2383391--2383497 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
2383381 AGAAACCGTC
* *
2383391 CGAGTGAGACGAAAGTTTTCAAGGGAAAATATCTCAAGCGAGATGAAATTTTGTTT
1 CGAGTGAGACGAAAATTTTCAAGGG-AAATATCTCAAGCAAGATGAAATTTTGTTT
*
2383447 CGAGTGAGACGAAAATTTTCAAGGGAAATATCTCAAGCAAGATGAATTTTT
1 CGAGTGAGACGAAAATTTTCAAGGGAAATATCTCAAGCAAGATGAAATTTT
2383498 TTATAGAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 24 0.50
56 24 0.50
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (55 bp):
CGAGTGAGACGAAAATTTTCAAGGGAAATATCTCAAGCAAGATGAAATTTTGTTT
Found at i:2383565 original size:35 final size:35
Alignment explanation
Indices: 2383449--2383638 Score: 113
Period size: 35 Copynumber: 5.5 Consensus size: 35
2383439 TTTTGTTTCG
* *
2383449 AGTGAGACGAAA-ATTTTCAAGGG-AAATATCTCA
1 AGTGAGATGAAATTTTTTCAAGGGAAAATATCTCA
** * ***
2383482 AGCAAGATG-AATTTTTTTATA--GAAACCGTCTCCA
1 AGTGAGATGAAATTTTTTCA-AGGGAAAATATCT-CA
*
2383516 A-TGAGAAGAAAATTTTTTCAAGGGAAAATATCTCA
1 AGTGAGATG-AAATTTTTTCAAGGGAAAATATCTCA
* * * * * **
2383551 AGTGAGATGCAATTTTGTTTCGAGTGAAACTGTCTTG
1 AGTGAGATG-AAATTT-TTTCAAGGGAAAATATCTCA
* * *
2383588 AGTGAGATGAAATATTTTCAAGGGAAAACATATCA
1 AGTGAGATGAAATTTTTTCAAGGGAAAATATCTCA
*
2383623 AGGGAGATGAAATTTT
1 AGTGAGATGAAATTTT
2383639 ATTTCATACG
Statistics
Matches: 111, Mismatches: 36, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
32 3 0.03
33 20 0.18
34 5 0.05
35 38 0.34
36 22 0.20
37 23 0.21
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (35 bp):
AGTGAGATGAAATTTTTTCAAGGGAAAATATCTCA
Found at i:2383652 original size:72 final size:69
Alignment explanation
Indices: 2383446--2383701 Score: 222
Period size: 72 Copynumber: 3.7 Consensus size: 69
2383436 AAATTTTGTT
* *
2383446 TCGAGTGAGACGAAA-ATTTTCAAGGG-AAATATCTCAAGCAAGATGAATTTTTTT-ATAGAAAC
1 TCGAGTGAGAAGAAATATTTTCAAGGGAAAATATCTCAAGCGAGATGAATTTTTTTCATAGAAAC
2383508 CGTC
66 CGTC
* * * *
2383512 TCCAATGAGAAGAAAATTTTTTCAAGGGAAAATATCTCAAGTGAGATGCAATTTTGTTTCGAGT-
1 TCGAGTGAGAAG-AAATATTTTCAAGGGAAAATATCTCAAGCGAGATG-AATTTT-TTTC-A-TA
*
2383576 GAAACTGTC
61 GAAACCGTC
* * * * *
2383585 TTGAGTGAGATGAAATATTTTCAAGGGAAAACATATCAAGGGAGATGAAATTTTATTTCATACGA
1 TCGAGTGAGAAGAAATATTTTCAAGGGAAAATATCTCAAGCGAGATG-AATTTT-TTTCATA-GA
*
2383650 AACCGTA
63 AACCGTC
* *
2383657 TC-AGCTGAGACA-AAA-A-TTTCAAGGGAAAACCATCTCAAGTGAGAT
1 TCGAG-TGAGA-AGAAATATTTTCAAGGGAAAA-TATCTCAAGCGAGAT
2383702 AAAAGTTTTG
Statistics
Matches: 154, Mismatches: 23, Indels: 21
0.78 0.12 0.11
Matches are distributed among these distances:
66 9 0.06
67 3 0.02
68 10 0.06
69 17 0.11
70 20 0.13
71 20 0.13
72 57 0.37
73 17 0.11
74 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (69 bp):
TCGAGTGAGAAGAAATATTTTCAAGGGAAAATATCTCAAGCGAGATGAATTTTTTTCATAGAAAC
CGTC
Found at i:2383737 original size:71 final size:69
Alignment explanation
Indices: 2383451--2383788 Score: 211
Period size: 72 Copynumber: 4.8 Consensus size: 69
2383441 TTGTTTCGAG
* * ** *
2383451 TGAGACGAAAATTTTCAAGGG-AAATATCTCAAGCAAGATG-AATTTT-TTT-ATA-GAAACCGT
1 TGAGAC-AAAAATTTCAAGGGAAAACATCTCAAGTGAGATGAAATTTTATTTCA-AGGAAACTGT
*
2383511 CTCCAA
64 CTCAAA
* * * *
2383517 TGAGA-AGAAAATTTTTTCAAGGGAAAATATCTCAAGTGAGATGCAATTTTGTTTCGAGTGAAAC
1 TGAGACA-AAAA---TTTCAAGGGAAAACATCTCAAGTGAGATGAAATTTTATTTCAAG-GAAAC
** *
2383581 TGTCTTGAG
61 TGTCTCAAA
* * * * * *
2383590 TGAGATGAAATATTTTCAAGGGAAAACATATCAAGGGAGATGAAATTTTATTTCATACGAAACCG
1 TGAGA-CAAA-AATTTCAAGGGAAAACATCTCAAGTGAGATGAAATTTTATTTCA-AGGAAACTG
* **
2383655 TATCAGC
63 TCTCAAA
* * * *
2383662 TGAGACAAAAATTTCAAGGGAAAACCATCTCAAGTGAGATAAAAGTTTTGTTTCAAGGAGATTGT
1 TGAGACAAAAATTTCAAGGGAAAA-CATCTCAAGTGAGATGAAA-TTTTATTTCAAGGAAACTGT
2383727 CTCAAA
64 CTCAAA
** * * *
2383733 TGAGACGAAATGTTTTATGAGAAAACCTATCTCAAGTGAGATGAAATTTTTATTTC
1 TGAGAC-AAAAATTTCAAGGGAAAA-C-ATCTCAAGTGAGATGAAA-TTTTATTTC
2383789 TAGGGAAAAG
Statistics
Matches: 211, Mismatches: 43, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
64 1 0.00
65 3 0.01
66 5 0.02
68 9 0.04
69 17 0.08
70 20 0.09
71 38 0.18
72 73 0.35
73 41 0.19
74 2 0.01
75 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (69 bp):
TGAGACAAAAATTTCAAGGGAAAACATCTCAAGTGAGATGAAATTTTATTTCAAGGAAACTGTCT
CAAA
Found at i:2388666 original size:22 final size:22
Alignment explanation
Indices: 2388638--2388693 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
2388628 TAAAATGTGT
2388638 GACAAATAATAAGAAACGTTAA
1 GACAAATAATAAGAAACGTTAA
* *
2388660 GACAAATAATAAGAAATGTTAT
1 GACAAATAATAAGAAACGTTAA
*
2388682 GAGAAATAATAA
1 GACAAATAATAA
2388694 AGGTATGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.21
Consensus pattern (22 bp):
GACAAATAATAAGAAACGTTAA
Found at i:2389016 original size:20 final size:20
Alignment explanation
Indices: 2388991--2389043 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
2388981 CCACCGCCAT
2388991 ATGCAACTATATGAGCCTAA
1 ATGCAACTATATGAGCCTAA
2389011 ATGCAACTATATGAGCCTAA
1 ATGCAACTATATGAGCCTAA
2389031 ATGCAACTATATG
1 ATGCAACTATATG
2389044 CAATGAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (20 bp):
ATGCAACTATATGAGCCTAA
Found at i:2393483 original size:22 final size:23
Alignment explanation
Indices: 2393458--2393503 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2393448 GGTGAAAAGA
2393458 TGTGACAAACAA-TAAAGAATGT
1 TGTGACAAACAAGTAAAGAATGT
* *
2393480 TGTGGCAAATAAGTAAAGAATGT
1 TGTGACAAACAAGTAAAGAATGT
2393503 T
1 T
2393504 ATAGTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.26
Consensus pattern (23 bp):
TGTGACAAACAAGTAAAGAATGT
Found at i:2395979 original size:39 final size:38
Alignment explanation
Indices: 2395849--2395988 Score: 131
Period size: 39 Copynumber: 3.6 Consensus size: 38
2395839 TAAGGGCATG
* * *
2395849 CTGTAAGGACTTAGCATGTGCACAAAGTTAAGGAGCCT
1 CTGTAAGGACTTACCCTGTGCACAAAGTAAAGGAGCCT
* * *
2395887 CAGTAAAGG-CTTACCCTGTGCATAAAG-CAAGTGAGCCT
1 CTGT-AAGGACTTACCCTGTGCACAAAGTAAAG-GAGCCT
* * * *
2395925 TTGGTGAGGAATTACCCTGTGCACGAAGTAAAGGAGCCT
1 CT-GTAAGGACTTACCCTGTGCACAAAGTAAAGGAGCCT
*
2395964 ACTGTAAGGACTTACCCTATGCACA
1 -CTGTAAGGACTTACCCTGTGCACA
2395989 CAAAAAAAGC
Statistics
Matches: 79, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
37 3 0.04
38 27 0.34
39 45 0.57
40 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (38 bp):
CTGTAAGGACTTACCCTGTGCACAAAGTAAAGGAGCCT
Found at i:2396989 original size:25 final size:26
Alignment explanation
Indices: 2396961--2397010 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2396951 ACTCGAGAGA
*
2396961 ATTTCAGTCA-TTTAAAGCTCAAGGT
1 ATTTCAGTCATTTTAAAGATCAAGGT
**
2396986 ATTTTGGTCATTTTAAAGATCAAGG
1 ATTTCAGTCATTTTAAAGATCAAGG
2397011 GGGTAACTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (26 bp):
ATTTCAGTCATTTTAAAGATCAAGGT
Found at i:2402370 original size:20 final size:20
Alignment explanation
Indices: 2402325--2402374 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
2402315 CAATGAACAA
2402325 TATCGATACTGATTGGAGTAG
1 TATCGATACTGATTGGAG-AG
2402346 TATCGATACTGATGTGGAG-G
1 TATCGATACTGAT-TGGAGAG
2402366 TATCGATAC
1 TATCGATAC
2402375 CAAGAGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.36
21 13 0.46
22 5 0.18
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (20 bp):
TATCGATACTGATTGGAGAG
Found at i:2402959 original size:53 final size:53
Alignment explanation
Indices: 2402867--2402967 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 53
2402857 CAAACTATTT
* * *
2402867 TATATGATAATTAAAATAATACTATATGGAACACTATGAGTATATTATGGGAA
1 TATATGATAATTAAAATAATACTATATGAAACACCATGAGTAAATTATGGGAA
* * **
2402920 TATATGATAAGTTAAGA-AATGCTATATGAAATGCCATGAGTAAATTAT
1 TATATGATAA-TTAAAATAATACTATATGAAACACCATGAGTAAATTAT
2402968 TATATGTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 35 0.88
54 5 0.12
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.34
Consensus pattern (53 bp):
TATATGATAATTAAAATAATACTATATGAAACACCATGAGTAAATTATGGGAA
Found at i:2403318 original size:23 final size:23
Alignment explanation
Indices: 2403248--2403324 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
2403238 GAGTCGTGGG
*
2403248 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTC-GGACAAA
* *
2403272 -ACTATGTGGTCCTTCGAGAC-AA
1 TTCTACGTGGTCCTTCG-GACAAA
*
2403294 TTCTACGTGGTCATTCGGACAAA
1 TTCTACGTGGTCCTTCGGACAAA
2403317 TTTCTACG
1 -TTCTACG
2403325 CGGTACTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 6 0.14
23 30 0.70
24 7 0.16
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGACAAA
Found at i:2404991 original size:15 final size:15
Alignment explanation
Indices: 2404971--2405014 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2404961 TAGTATTTCA
* *
2404971 TTTCACATAGAATAT
1 TTTCACATAGAACAG
* *
2404986 TTTCACGTAGAACGG
1 TTTCACATAGAACAG
2405001 TTTCACATAGAACA
1 TTTCACATAGAACA
2405015 TATTTTTATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (15 bp):
TTTCACATAGAACAG
Found at i:2407756 original size:22 final size:22
Alignment explanation
Indices: 2407731--2407772 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2407721 TATATAAATG
*
2407731 AACGATAAACAAATACTAAAAC
1 AACGATAAACAAACACTAAAAC
*
2407753 AACGATAAACGAACACTAAA
1 AACGATAAACAAACACTAAA
2407773 TGAACACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.19, G:0.07, T:0.12
Consensus pattern (22 bp):
AACGATAAACAAACACTAAAAC
Found at i:2407903 original size:23 final size:23
Alignment explanation
Indices: 2407851--2407922 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
2407841 GAACATGTTC
* *
2407851 ATGAACACATTCGATAACGTATAA
1 ATGAACACATTCGAGAA-GAATAA
* *
2407875 ACGAACACATTCGCGAAGAATAA
1 ATGAACACATTCGAGAAGAATAA
** * *
2407898 ATGAACATGTTCGTGAACAATAA
1 ATGAACACATTCGAGAAGAATAA
2407921 AT
1 AT
2407923 AAACGAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 25 0.64
24 14 0.36
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (23 bp):
ATGAACACATTCGAGAAGAATAA
Found at i:2413047 original size:2 final size:2
Alignment explanation
Indices: 2413040--2413064 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2413030 AATTACAATG
2413040 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2413065 GGAAGTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2413160 original size:2 final size:2
Alignment explanation
Indices: 2413153--2413198 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2413143 TTAATTCGAA
2413153 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
2413195 AT AT
1 AT AT
2413199 TAAACACAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2416183 original size:182 final size:184
Alignment explanation
Indices: 2415874--2416240 Score: 704
Period size: 182 Copynumber: 2.0 Consensus size: 184
2415864 ATAGATAGGG
2415874 TCGGTTTCGGGTCGATTTGCGAATTTTCAATAAAAAGGAAGAAAATTTTCTAAAATTAATATTTT
1 TCGGTTTCGGGTCGATTTGCGAATTTTCAATAAAAAGGAAGAAAATTTTCTAAAATTAATATTTT
2415939 GGTTTTAAAAATATTTTAGAAAGGTTTAAAGTGATTTTAGATGATTAATTTTAATTATGAAAGTT
66 GGTTTTAAAAATATTTTAGAAAGGTTTAAAGTGATTTTAGATGATTAATTTTAATTATGAAAGTT
2416004 TAATTAATGATTTGGTGACTGAATGAAGGAATTGGAAATTATTTTGGTGATCGT
131 TAATTAATGATTTGGTGACTGAATGAAGGAATTGGAAATTATTTTGGTGATCGT
2416058 TCGGTTTCGGGTCGATTTGCGAATTTTCAAT-AAAAGGAAGAAAATTTTCT-AAATTAATA-TTT
1 TCGGTTTCGGGTCGATTTGCGAATTTTCAATAAAAAGGAAGAAAATTTTCTAAAATTAATATTTT
2416120 GGTTTTAAAAAATATTTTAGAAAGGTTTAAAGTGATTTTAGATGATTAATTTTAATTATGAAAGT
66 GGTTTT-AAAAATATTTTAGAAAGGTTTAAAGTGATTTTAGATGATTAATTTTAATTATGAAAGT
2416185 TTAATTAATGATTTGGTGACTGAATGAAGGAATTGGAAATTATTTTGGTGATCGT
130 TTAATTAATGATTTGGTGACTGAATGAAGGAATTGGAAATTATTTTGGTGATCGT
2416240 T
1 T
2416241 TTGTAAATTT
Statistics
Matches: 182, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
181 9 0.05
182 123 0.68
183 19 0.10
184 31 0.17
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (184 bp):
TCGGTTTCGGGTCGATTTGCGAATTTTCAATAAAAAGGAAGAAAATTTTCTAAAATTAATATTTT
GGTTTTAAAAATATTTTAGAAAGGTTTAAAGTGATTTTAGATGATTAATTTTAATTATGAAAGTT
TAATTAATGATTTGGTGACTGAATGAAGGAATTGGAAATTATTTTGGTGATCGT
Found at i:2425352 original size:21 final size:21
Alignment explanation
Indices: 2425326--2425396 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
2425316 AACATAAAGA
2425326 GAGTATCAGTACACCTATTAG
1 GAGTATCAGTACACCTATTAG
**
2425347 GAGTATTGGTACACCTATTAG
1 GAGTATCAGTACACCTATTAG
* **
2425368 GATTATTGGTACACCTATTAG
1 GAGTATCAGTACACCTATTAG
2425389 GAGTATCA
1 GAGTATCA
2425397 AAACTATTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (21 bp):
GAGTATCAGTACACCTATTAG
Found at i:2427634 original size:14 final size:14
Alignment explanation
Indices: 2427617--2427644 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2427607 ACTTAGAATG
2427617 AAAAATGAAGAAAA
1 AAAAATGAAGAAAA
2427631 AAAAATGAAGAAAA
1 AAAAATGAAGAAAA
2427645 TGAAAGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAATGAAGAAAA
Found at i:2435093 original size:18 final size:17
Alignment explanation
Indices: 2435065--2435098 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2435055 CTATTTTTAT
*
2435065 TAAAATAAAATTTAAAA
1 TAAAATAAAATCTAAAA
2435082 TAAAATTAAAATCTAAA
1 TAAAA-TAAAATCTAAA
2435099 TTCAACATAA
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAAAATCTAAAA
Found at i:2435100 original size:12 final size:11
Alignment explanation
Indices: 2435063--2435093 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
2435053 AGCTATTTTT
2435063 ATTAAAATAAA
1 ATTAAAATAAA
2435074 ATTTAAAATAAA
1 A-TTAAAATAAA
2435086 ATTAAAAT
1 ATTAAAAT
2435094 CTAAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTAAAATAAA
Found at i:2435827 original size:13 final size:13
Alignment explanation
Indices: 2435809--2435854 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
2435799 AAAATTAATG
*
2435809 AAAATAAATGAAT
1 AAAATAATTGAAT
*
2435822 AAAATAATTAAAT
1 AAAATAATTGAAT
2435835 -AAAT-ATTGAAT
1 AAAATAATTGAAT
2435846 AAAAATAAT
1 -AAAATAAT
2435855 AATGAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
13 15 0.56
14 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (13 bp):
AAAATAATTGAAT
Found at i:2437654 original size:27 final size:27
Alignment explanation
Indices: 2437566--2437637 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
2437556 CAATATTAGC
*
2437566 TAAAAATATTTT-TTATATTAACT-TA-T
1 TAAAAATATTTTATT-T-TTAACTGAATT
*
2437592 TAAATATATTTTATTTTTAACTGAATT
1 TAAAAATATTTTATTTTTAACTGAATT
2437619 TAAAAATATTTTATTTTTA
1 TAAAAATATTTTATTTTTA
2437638 TTTTTATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 6 0.15
26 13 0.32
27 21 0.52
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (27 bp):
TAAAAATATTTTATTTTTAACTGAATT
Found at i:2440067 original size:15 final size:16
Alignment explanation
Indices: 2440031--2440072 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2440021 TTAATACCTA
*
2440031 AAATATATTCAAATTT
1 AAATATAATCAAATTT
2440047 AGAATATAAT-AAATTT
1 A-AATATAATCAAATTT
*
2440063 AAATAAAATC
1 AAATATAATC
2440073 TCAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.32
16 8 0.36
17 7 0.32
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATATAATCAAATTT
Found at i:2440087 original size:3 final size:3
Alignment explanation
Indices: 2440079--2440133 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
2440069 AATCTCAATT
2440079 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2440127 TTA TTA T
1 TTA TTA T
2440134 ATCTCAACTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2440670 original size:43 final size:43
Alignment explanation
Indices: 2440621--2440777 Score: 226
Period size: 43 Copynumber: 3.7 Consensus size: 43
2440611 AAAAACGCCA
** *
2440621 CAATAGGTAATGATATATAGCGGCGTTTGTCCAACAAACGACG
1 CAATAGGTGTTGATATTTAGCGGCGTTTGTCCAACAAACGACG
* * *
2440664 CAATAGGTGTTGATATTTAGCGACATTTGTCCAACAAACGCCG
1 CAATAGGTGTTGATATTTAGCGGCGTTTGTCCAACAAACGACG
* *
2440707 CAATAGGTGTTGATATTTAGCGACGTTTGTCCAACAAAC-ACCA
1 CAATAGGTGTTGATATTTAGCGGCGTTTGTCCAACAAACGA-CG
2440750 CAATAGGTGTTGATATTTAGCGGCGTTT
1 CAATAGGTGTTGATATTTAGCGGCGTTT
2440778 TTAGAACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
CAATAGGTGTTGATATTTAGCGGCGTTTGTCCAACAAACGACG
Found at i:2440786 original size:86 final size:86
Alignment explanation
Indices: 2440608--2440819 Score: 248
Period size: 86 Copynumber: 2.5 Consensus size: 86
2440598 GCGTTTGGCA
* * * *
2440608 ACAAAAAACGCCACAATAGGTAATGATATATAGCGGCGTTTGTCCAACAAACGACGCAATAGGTG
1 ACAACAAACGCCGCAATAGGTAATGATATATAGCGACGTTTGTCCAACAAACGACACAATAGGTG
2440673 TTGATATTTAGCGACATTTGT
66 TTGATATTTAGCGACATTTGT
* ** *
2440694 CCAACAAACGCCGCAATAGGTGTTGATATTTAGCGACGTTTGTCCAACAAAC-ACCACAATAGGT
1 ACAACAAACGCCGCAATAGGTAATGATATATAGCGACGTTTGTCCAACAAACGA-CACAATAGGT
* * *
2440758 GTTGATATTTAGCGGCGTTTTT
65 GTTGATATTTAGCGACATTTGT
* * * * * *
2440780 AGAACAAACGCCGTAAAAGGTCA-GATCTATAGCGGCGTTT
1 ACAACAAACGCCGCAATAGGTAATGATATATAGCGACGTTT
2440820 TTGAAATAAA
Statistics
Matches: 105, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
85 15 0.14
86 90 0.86
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (86 bp):
ACAACAAACGCCGCAATAGGTAATGATATATAGCGACGTTTGTCCAACAAACGACACAATAGGTG
TTGATATTTAGCGACATTTGT
Found at i:2440820 original size:42 final size:42
Alignment explanation
Indices: 2440767--2440924 Score: 201
Period size: 42 Copynumber: 3.7 Consensus size: 42
2440757 TGTTGATATT
* *
2440767 TAGCGGCGTTTTTAGA-ACAAACGCCGTAAAAGGTCAGATCTA
1 TAGCGGCGTTTTT-GATACAAACGCCGCAAAAGGTCATATCTA
* * * *
2440809 TAGCGGCGTTTTTGAAATAAACACCGCAAATGGTCATATCTA
1 TAGCGGCGTTTTTGATACAAACGCCGCAAAAGGTCATATCTA
*
2440851 TAGCGGCGTTTTTGATACAAACGCCGCAAAAGCTCATATCTA
1 TAGCGGCGTTTTTGATACAAACGCCGCAAAAGGTCATATCTA
* * *
2440893 TAGCAGTGTTTTTTGATACAAAAGCCGCAAAA
1 TAGCGGCG-TTTTTGATACAAACGCCGCAAAA
2440925 AAGCTCATTA
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.02
42 77 0.76
43 22 0.22
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
TAGCGGCGTTTTTGATACAAACGCCGCAAAAGGTCATATCTA
Found at i:2443027 original size:52 final size:52
Alignment explanation
Indices: 2442965--2443063 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
2442955 AAATTGGACA
2442965 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
2443017 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTA
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTA
2443064 GAAGAATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:2447628 original size:52 final size:52
Alignment explanation
Indices: 2447566--2447668 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
2447556 AAATTGGACA
2447566 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
2447618 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
2447669 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:2459117 original size:18 final size:19
Alignment explanation
Indices: 2459077--2459128 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2459067 TAAATGTCTA
2459077 GGGGTATCGATACCTCCAG
1 GGGGTATCGATACCTCCAG
2459096 GGGGTATCGATACCTCCAG
1 GGGGTATCGATACCTCCAG
*
2459115 GGGGTATCGGTACC
1 GGGGTATCGATACC
2459129 CATAGGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (19 bp):
GGGGTATCGATACCTCCAG
Found at i:2461830 original size:23 final size:23
Alignment explanation
Indices: 2461801--2461900 Score: 182
Period size: 23 Copynumber: 4.3 Consensus size: 23
2461791 AACCCTAAGG
*
2461801 GGGTATCGATACCCATTCAAAGA
1 GGGTATCGGTACCCATTCAAAGA
2461824 GGGTATCGGTACCCATTCAAAGA
1 GGGTATCGGTACCCATTCAAAGA
2461847 GGGTATCGGTACCCATTCAAAGA
1 GGGTATCGGTACCCATTCAAAGA
*
2461870 GGGTATCGGTACCCATTCAAAGG
1 GGGTATCGGTACCCATTCAAAGA
2461893 GGGTATCG
1 GGGTATCG
2461901 ATACTTAGCA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 75 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (23 bp):
GGGTATCGGTACCCATTCAAAGA
Found at i:2467707 original size:73 final size:72
Alignment explanation
Indices: 2467620--2467754 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 72
2467610 GTTAAATGGC
* * * *
2467620 TAGGGGTATTGGTA-CCTCCATGGGGTATCGGTACCCAT-AGGGCATTCTGTTTTTCTCGGAGCC
1 TAGGGGTATCGGTACCCTACAT-GGGTATCGGTACCC-TCAGGGCAATCTG-TTTTCTCGAAGCC
2467683 AAATCTTACA
63 AAATCTTACA
*
2467693 TAGGGGTATCGGTACCCTACATGGGTATCGGTACCCTCTGGGCAATCTGTTTTCTCGAAGCC
1 TAGGGGTATCGGTACCCTACATGGGTATCGGTACCCTCAGGGCAATCTGTTTTCTCGAAGCC
2467755 CTTCCTATTC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
72 13 0.24
73 36 0.65
74 6 0.11
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (72 bp):
TAGGGGTATCGGTACCCTACATGGGTATCGGTACCCTCAGGGCAATCTGTTTTCTCGAAGCCAAA
TCTTACA
Found at i:2472594 original size:37 final size:37
Alignment explanation
Indices: 2472489--2472630 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
2472479 TTCTCAAGTC
*
2472489 AATCAAGTCTTCAC-AAAAGAGTAGTGAAGCAATGCA
1 AATCAAGCCTTCACAAAAAGAGTAGTGAAGCAATGCA
*
2472525 AATCAAGCCTTCA-TAAAAGAGTAGTGAAGCAATGCA
1 AATCAAGCCTTCACAAAAAGAGTAGTGAAGCAATGCA
*
2472561 AATCAAGCCTTCACAAAAATAGTAGTGAAGCAATGCA
1 AATCAAGCCTTCACAAAAAGAGTAGTGAAGCAATGCA
2472598 AATTC-AGCCTTCACAAAAAGAGTAGTGAAGCAA
1 AA-TCAAGCCTTCACAAAAAGAGTAGTGAAGCAA
2472631 GATCAGATTA
Statistics
Matches: 99, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
36 47 0.47
37 50 0.51
38 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (37 bp):
AATCAAGCCTTCACAAAAAGAGTAGTGAAGCAATGCA
Found at i:2472597 original size:73 final size:73
Alignment explanation
Indices: 2472489--2472630 Score: 225
Period size: 73 Copynumber: 1.9 Consensus size: 73
2472479 TTCTCAAGTC
* *
2472489 AATCAAGTCTTCACAAAAGAGTAGTGAAGCAATGCAAA-TCAAGCCTTCA-TAAAAGAGTAGTGA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAATTC-AGCCTTCACAAAAAGAGTAGTGA
2472552 AGCAATGCA
65 AGCAATGCA
*
2472561 AATCAAGCCTTCACAAAAATAGTAGTGAAGCAATGCAAATTCAGCCTTCACAAAAAGAGTAGTGA
1 AATCAAGCCTTCAC-AAAAGAGTAGTGAAGCAATGCAAATTCAGCCTTCACAAAAAGAGTAGTGA
2472626 AGCAA
65 AGCAA
2472631 GATCAGATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
72 13 0.20
73 31 0.48
74 20 0.31
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (73 bp):
AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAATTCAGCCTTCACAAAAAGAGTAGTGAA
GCAATGCA
Found at i:2483819 original size:15 final size:15
Alignment explanation
Indices: 2483799--2483829 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2483789 GCTTCTATTG
2483799 CTTCAAAAGTTTAGA
1 CTTCAAAAGTTTAGA
2483814 CTTCAAAAGTTTAGA
1 CTTCAAAAGTTTAGA
2483829 C
1 C
2483830 CAGCGTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (15 bp):
CTTCAAAAGTTTAGA
Found at i:2487145 original size:20 final size:20
Alignment explanation
Indices: 2487096--2487145 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2487086 AAGCTCCTCA
2487096 GTATCAATACTAGCCTCTGG
1 GTATCAATACTAGCCTCTGG
* * * *
2487116 GTAACGATACTATCTTCTGG
1 GTATCAATACTAGCCTCTGG
*
2487136 GTATCCATAC
1 GTATCAATAC
2487146 CATTGACATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCAATACTAGCCTCTGG
Found at i:2490687 original size:3 final size:3
Alignment explanation
Indices: 2490679--2490751 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
2490669 CTAGGAACTC
*
2490679 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2490727 A-A ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
2490752 TCTACTACAT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2496861 original size:20 final size:20
Alignment explanation
Indices: 2496836--2496996 Score: 77
Period size: 20 Copynumber: 8.0 Consensus size: 20
2496826 TATGAAAAAT
2496836 AAATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
* *
2496856 AAATTCCGTGTTACGAATTTG
1 AAATT-CGCGTTGCGAATTTG
* * *
2496877 -ACTTCTGTGTTGCG-ATTTAC
1 AAATTC-GCGTTGCGAATTT-G
2496897 AAATTCGCGTTGCG-ATTT-
1 AAATTCGCGTTGCGAATTTG
**
2496915 ACATATTCGCGTTTTG-ATTT-
1 A-A-ATTCGCGTTGCGAATTTG
*
2496935 ACATATTCGCGTTGCGATTTTG
1 A-A-ATTCGCGTTGCGAATTTG
* *
2496957 -AA-TCATGTGTTGCGAAATTG
1 AAATTC--GCGTTGCGAATTTG
* *
2496977 GAGTTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
2496997 TTGGTCATTT
Statistics
Matches: 111, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
18 3 0.03
19 7 0.06
20 78 0.70
21 21 0.19
22 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTTG
Found at i:2499672 original size:18 final size:18
Alignment explanation
Indices: 2499651--2499690 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2499641 TATTTTAGGA
2499651 ATAAATTTTAAATT-ATGT
1 ATAAA-TTTAAATTAATGT
*
2499669 ATAAATTTAATTTAATGT
1 ATAAATTTAAATTAATGT
2499687 ATAA
1 ATAA
2499691 TATGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATAAATTTAAATTAATGT
Found at i:2501948 original size:14 final size:13
Alignment explanation
Indices: 2501918--2501962 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
2501908 TAATAACATA
2501918 ATATAATATAAT-
1 ATATAATATAATG
2501930 A-ATAATA-ACATG
1 ATATAATATA-ATG
2501942 ATTATAATATAATG
1 A-TATAATATAATG
2501956 ATATAAT
1 ATATAAT
2501963 TATATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
10 1 0.04
11 8 0.29
12 2 0.07
13 6 0.21
14 10 0.36
15 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (13 bp):
ATATAATATAATG
Found at i:2502727 original size:2 final size:2
Alignment explanation
Indices: 2502722--2502765 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2502712 GATTACACAC
*
2502722 AT AT AT AT AT AC 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
2502764 AT
1 AT
2502766 GTATGTCAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2510510 original size:16 final size:15
Alignment explanation
Indices: 2510491--2510526 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
2510481 ACGTCTTTTT
2510491 AAAAATAATTTTAAG
1 AAAAATAATTTTAAG
*
2510506 AAAAATCATTTTAAG
1 AAAAATAATTTTAAG
2510521 ACAAAA
1 A-AAAA
2510527 GTTGGTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAAATAATTTTAAG
Found at i:2512709 original size:19 final size:19
Alignment explanation
Indices: 2512687--2512727 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2512677 TTAATTAATA
2512687 TTAATAATAATAATATATT
1 TTAATAATAATAATATATT
* * *
2512706 TTAATATTTATAATATTTT
1 TTAATAATAATAATATATT
2512725 TTA
1 TTA
2512728 GGTTCGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATAATAATAATATATT
Found at i:2528399 original size:15 final size:15
Alignment explanation
Indices: 2528381--2528439 Score: 66
Period size: 15 Copynumber: 3.7 Consensus size: 15
2528371 GTGGTGGTGG
2528381 TGGAGATGATGATGA
1 TGGAGATGATGATGA
2528396 TGGAGATGGA-GATGGAGA
1 TGGAGAT-GATGAT---GA
*
2528414 TGGAGATGATGAGGA
1 TGGAGATGATGATGA
2528429 TGGAGATGATG
1 TGGAGATGATG
2528440 GTAGTGATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 23 0.61
16 2 0.05
17 2 0.05
18 11 0.29
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.22
Consensus pattern (15 bp):
TGGAGATGATGATGA
Found at i:2528403 original size:6 final size:6
Alignment explanation
Indices: 2528394--2528436 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
2528384 AGATGATGAT
2528394 GATGGA GATGGA GATGGA GATGGA GATGATGA GGATGGA GATG
1 GATGGA GATGGA GATGGA GATGGA GATG--GA -GATGGA GATG
2528437 ATGGTAGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 26 0.76
7 2 0.06
8 2 0.06
9 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.49, T:0.19
Consensus pattern (6 bp):
GATGGA
Found at i:2528421 original size:27 final size:27
Alignment explanation
Indices: 2528381--2528436 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
2528371 GTGGTGGTGG
2528381 TGGAGATGATGATGATG-GAGATGGAGA
1 TGGAGATGATGATGATGAG-GATGGAGA
2528408 TGGAGATGGA-GATGATGAGGATGGAGA
1 TGGAGAT-GATGATGATGAGGATGGAGA
2528435 TG
1 TG
2528437 ATGGTAGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.21
Consensus pattern (27 bp):
TGGAGATGATGATGATGAGGATGGAGA
Found at i:2530355 original size:12 final size:12
Alignment explanation
Indices: 2530338--2530362 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2530328 CATAGTACAT
2530338 GGAATTATAAGG
1 GGAATTATAAGG
2530350 GGAATTATAAGG
1 GGAATTATAAGG
2530362 G
1 G
2530363 ATGAAGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (12 bp):
GGAATTATAAGG
Found at i:2539007 original size:24 final size:24
Alignment explanation
Indices: 2538980--2539055 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
2538970 ATATTTGTTC
2538980 AAGTTTGGTGATCTTATTATTCTA
1 AAGTTTGGTGATCTTATTATTCTA
* * *** *
2539004 AAGTTCTGCATTAGAAT-TTGTTC--
1 AAGTT-TG-GTGATCTTATTATTCTA
2539027 AAGTTTGGTGATCTTATTATTCTA
1 AAGTTTGGTGATCTTATTATTCTA
2539051 AAGTT
1 AAGTT
2539056 CTGCATTAGA
Statistics
Matches: 35, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
21 3 0.09
22 7 0.20
23 5 0.14
24 10 0.29
25 7 0.20
26 3 0.09
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.47
Consensus pattern (24 bp):
AAGTTTGGTGATCTTATTATTCTA
Found at i:2539041 original size:47 final size:47
Alignment explanation
Indices: 2538972--2539069 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
2538962 TCTTATCGAT
2538972 ATTTGTTCAAGTTTGGTGATCTTATTATTCTAAAGTTCTGCATTAGA
1 ATTTGTTCAAGTTTGGTGATCTTATTATTCTAAAGTTCTGCATTAGA
2539019 ATTTGTTCAAGTTTGGTGATCTTATTATTCTAAAGTTCTGCATTAGA
1 ATTTGTTCAAGTTTGGTGATCTTATTATTCTAAAGTTCTGCATTAGA
2539066 ATTT
1 ATTT
2539070 TACTTCGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (47 bp):
ATTTGTTCAAGTTTGGTGATCTTATTATTCTAAAGTTCTGCATTAGA
Found at i:2540403 original size:14 final size:14
Alignment explanation
Indices: 2540384--2540411 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2540374 AAGTGAAATA
2540384 ATAGTTATATAATT
1 ATAGTTATATAATT
2540398 ATAGTTATATAATT
1 ATAGTTATATAATT
2540412 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:2542153 original size:39 final size:39
Alignment explanation
Indices: 2542073--2542381 Score: 337
Period size: 39 Copynumber: 7.8 Consensus size: 39
2542063 AAATATATAT
* * * * *
2542073 ATATATATAGTGTATAATTTTTGAAAACATTTTGAATAT
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
2542112 ATATATAT-A-ATATAGTTTTTGAAAACATTTTGAAAAC
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
* *
2542149 ATATATATAATATATAGTTTTTGAAAACATATCGAAAAC
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
*
2542188 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
*
2542227 ATATATATAATATATAGTTTTTGAAAATATTTTGAAAAC
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
*
2542266 ATAAATATATATATATATATATAATATAGTTTTTGAAAACATTTTG-AAA-
1 ------ATATATATA-ATATAT-A-GT--TTTT-GAAAACATTTTGAAAAC
* *
2542315 ATATATATAATATGTGGTTTTTGAAAACATTTTG-AAA-
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
*
2542352 ATATATAT--TATATAGTTTTTGAAAATATTT
1 ATATATATAATATATAGTTTTTGAAAACATTT
2542382 ATATGTATAT
Statistics
Matches: 236, Mismatches: 20, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
35 19 0.08
37 55 0.23
38 5 0.02
39 107 0.45
40 1 0.00
42 5 0.02
43 9 0.04
45 9 0.04
46 6 0.03
47 1 0.00
48 1 0.00
50 7 0.03
51 11 0.05
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.43
Consensus pattern (39 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
Found at i:2542191 original size:28 final size:28
Alignment explanation
Indices: 2542139--2542192 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2542129 TTTGAAAACA
* * *
2542139 TTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATAGAAAACATATAGT
*
2542167 TTTTGAAAACATATCGAAAACATATA
1 TTTTGAAAACATATAGAAAACATATA
2542193 TATAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (28 bp):
TTTTGAAAACATATAGAAAACATATAGT
Found at i:2542319 original size:35 final size:35
Alignment explanation
Indices: 2542280--2542381 Score: 159
Period size: 37 Copynumber: 2.9 Consensus size: 35
2542270 ATATATATAT
2542280 ATATATATAATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATAATATAGTTTTTGAAAACATTTTGAAA
*
2542315 ATATATATAATATGTGGTTTTTGAAAACATTTTGAAA
1 ATATATATAATA--TAGTTTTTGAAAACATTTTGAAA
* *
2542352 ATATATATTATATAGTTTTTGAAAATATTT
1 ATATATATAATATAGTTTTTGAAAACATTT
2542382 ATATGTATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.46
37 33 0.54
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (35 bp):
ATATATATAATATAGTTTTTGAAAACATTTTGAAA
Found at i:2542402 original size:12 final size:12
Alignment explanation
Indices: 2542376--2542440 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
2542366 GTTTTTGAAA
2542376 ATATT-TATATGT
1 ATATTATATAT-T
2542388 ATATTATATATT
1 ATATTATATATT
*
2542400 ATAATATAGTATT
1 ATATTATA-TATT
2542413 ATA-T-TATA-T
1 ATATTATATATT
*
2542422 ATATTATTTATT
1 ATATTATATATT
2542434 ATATTAT
1 ATATTAT
2542441 TATGGTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
9 4 0.09
10 3 0.07
11 5 0.11
12 22 0.48
13 12 0.26
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
ATATTATATATT
Found at i:2542415 original size:18 final size:18
Alignment explanation
Indices: 2542394--2542436 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
2542384 ATGTATATTA
2542394 TATATTATAATATAGTAT
1 TATATTATAATATAGTAT
*
2542412 TATATTAT-ATATATTAT
1 TATATTATAATATAGTAT
2542429 T-TATTATA
1 TATATTATA
2542437 TTATTATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATATTATAATATAGTAT
Found at i:2542470 original size:21 final size:22
Alignment explanation
Indices: 2542446--2542486 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2542436 ATTATTATGG
2542446 TTTATTATTTATT-ATTTTCCT
1 TTTATTATTTATTCATTTTCCT
*
2542467 TTTATTTTTTATTCATTTTC
1 TTTATTATTTATTCATTTTC
2542487 TTTCTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATTATTTATTCATTTTCCT
Found at i:2544871 original size:186 final size:185
Alignment explanation
Indices: 2544556--2544946 Score: 608
Period size: 186 Copynumber: 2.1 Consensus size: 185
2544546 ATTAAATTTT
* * * *
2544556 AAATATTAAATATATTATATATAACATATGTGTTTAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
*
2544621 TTTAAGATTCAATAACTTTTAAATCTAAATCAATATTAATTAATAAAAAAATTATATAAAATTTT
66 TTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATAAAAAAATTATATAAAATTTT
* *
2544686 TATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTGAATTAAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATT-AAA
*
2544742 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTTAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* * *
2544807 TTTAAGATCCAATAATTTTTAAA-CTTAAATCAATATTAGTTAATTAAAAAATT-TATATAAATT
66 TTTAAGATCCAATAACTTTTAAATC-TAAATCAATATTAATTAATAAAAAAATTATATA-AAATT
*
2544870 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTTAATTAAA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTAAA
* *
2544927 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
2544947 AAGTCGAAAT
Statistics
Matches: 189, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
184 8 0.04
185 18 0.10
186 163 0.86
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATAAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTAAA
Found at i:2551408 original size:123 final size:122
Alignment explanation
Indices: 2551190--2551449 Score: 367
Period size: 123 Copynumber: 2.1 Consensus size: 122
2551180 TTGTTAGAGT
* * *
2551190 CAATTTCAACTTTACAACGAATGATATTAACTCGAATCGATACAATTTACAAGATTGGATTTCAA
1 CAATTTCAACTTCACAACGAAAGATATTAACTCGAAGCGATACAATTTACAAGATTGGATTTCAA
*
2551255 CTTCACAACAAAGGACATCCAATTCAAAGCTCAACTTCACAATGAAAGAGCCATCCA
66 CTTCACAACAAAGGACATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCATCCA
* * * *
2551312 CAATTTCAACTTCACAGCTAAAGATATTGAACTCGAAGCGATGCAATTTACAATATTGGATTTCA
1 CAATTTCAACTTCACAACGAAAGATATT-AACTCGAAGCGATACAATTTACAAGATTGGATTTCA
** * * *
2551377 ACTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCATAGCGAATGAGCCATCCA
65 ACTTCACAACAAAGGACATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCATCCA
** *
2551435 TGATTTCAACATCAC
1 CAATTTCAACTTCAC
2551450 GAAGAAGGAT
Statistics
Matches: 121, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
122 24 0.20
123 97 0.80
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (122 bp):
CAATTTCAACTTCACAACGAAAGATATTAACTCGAAGCGATACAATTTACAAGATTGGATTTCAA
CTTCACAACAAAGGACATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCATCCA
Found at i:2552087 original size:31 final size:32
Alignment explanation
Indices: 2552050--2552125 Score: 104
Period size: 31 Copynumber: 2.4 Consensus size: 32
2552040 GTTCTATTTA
* *
2552050 ATATATAATATAT-ATA-ATTTTTTGAATATAT
1 ATATATAATATATAATATA-GTTTTGAAAATAT
2552081 ATATAT-ATATATAATATAGTTTTGAAAATAT
1 ATATATAATATATAATATAGTTTTGAAAATAT
2552112 ATATATAATATATA
1 ATATATAATATATA
2552126 GTTTTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 6 0.15
31 26 0.65
32 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (32 bp):
ATATATAATATATAATATAGTTTTGAAAATAT
Found at i:2552118 original size:27 final size:27
Alignment explanation
Indices: 2552069--2552248 Score: 99
Period size: 26 Copynumber: 6.7 Consensus size: 27
2552059 ATATATAATT
2552069 TTTTGAATATATATATATATATATAATATAG
1 TTTTGAA-A-ATATATATATA-AT-ATATAG
2552100 TTTTGAAAATATATATATAATATATAG
1 TTTTGAAAATATATATATAATATATAG
* * * * *
2552127 TTTTTAAAACAT-TTTGAAAACATATA-
1 TTTTGAAAATATATAT-ATAATATATAG
* * * * *
2552153 -TAT-AATATATAGTTTTTGAA-A-ACA-
1 TTTTGAAAATATA-TATAT-AATATATAG
* *
2552177 TTTTGAAAACATATATAAAATATATAG
1 TTTTGAAAATATATATATAATATATAG
2552204 TTTTTGAAAATATATATAT--TATATAG
1 -TTTTGAAAATATATATATAATATATAG
*
2552230 TTTTGGAAAATATTTATAT
1 TTTT-GAAAATATATATAT
2552249 GTATATTATA
Statistics
Matches: 117, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
24 9 0.08
25 12 0.10
26 35 0.30
27 24 0.21
28 18 0.15
29 11 0.09
30 1 0.01
31 7 0.06
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (27 bp):
TTTTGAAAATATATATATAATATATAG
Found at i:2552186 original size:39 final size:39
Alignment explanation
Indices: 2552100--2552213 Score: 203
Period size: 39 Copynumber: 2.9 Consensus size: 39
2552090 TATAATATAG
*
2552100 TTTTGAAAATATATATATAATATATAGTTTTT-AAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
2552138 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
*
2552177 TTTTGAAAACATATATAAAATATATAGTTTTTGAAAA
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAA
2552214 TATATATATT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 31 0.42
39 42 0.58
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (39 bp):
TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
Found at i:2552302 original size:15 final size:16
Alignment explanation
Indices: 2552282--2552312 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2552272 TTATTTATTA
2552282 TTTATTT-TTTTCTTT
1 TTTATTTATTTTCTTT
2552297 TTTATTTATTTTCTTT
1 TTTATTTATTTTCTTT
2552313 CTTTTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTATTTATTTTCTTT
Found at i:2552303 original size:19 final size:20
Alignment explanation
Indices: 2552279--2552318 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
2552269 TTATTATTTA
2552279 TTATTTATTTT-TTTCTTTT
1 TTATTTATTTTCTTTCTTTT
2552298 TTATTTATTTTCTTTCTTTT
1 TTATTTATTTTCTTTCTTTT
2552318 T
1 T
2552319 GTGTTATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (20 bp):
TTATTTATTTTCTTTCTTTT
Found at i:2552325 original size:20 final size:19
Alignment explanation
Indices: 2552283--2552327 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2552273 TATTTATTAT
*
2552283 TTATTTTTTTCTTTTTTAT
1 TTATTTTTTTCTTTTTTAG
2552302 TTATTTTCTTTCTTTTTGT-G
1 TTATTTT-TTTCTTTTT-TAG
2552322 TTATTT
1 TTATTT
2552328 GGTCCAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (19 bp):
TTATTTTTTTCTTTTTTAG
Found at i:2552599 original size:85 final size:86
Alignment explanation
Indices: 2552451--2552622 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 86
2552441 CCAGTGAACT
2552451 AGGGTTTCTAATTTAAGTAAAAGTGCTGCATGTTCCCAACCGTAGAATCAAGCATTGATCAAATA
1 AGGGTTTCTAATTTAAGTAAAAGTGCTGCATGTTCCCAACCGTAGAATCAAGCATTGATCAAATA
2552516 GTTAGGGTTTGTTTAACCCTC
66 GTTAGGGTTTGTTTAACCCTC
2552537 AGGG-TTCTAATTTAAGTAAAAGTGCTGCATGTTCCCAACCGTAGAATCAAGCATTGATCAAATA
1 AGGGTTTCTAATTTAAGTAAAAGTGCTGCATGTTCCCAACCGTAGAATCAAGCATTGATCAAATA
2552601 GTTAGGGTTTGTTTAACCCTC
66 GTTAGGGTTTGTTTAACCCTC
2552622 A
1 A
2552623 AACATCATCA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 82 0.95
86 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (86 bp):
AGGGTTTCTAATTTAAGTAAAAGTGCTGCATGTTCCCAACCGTAGAATCAAGCATTGATCAAATA
GTTAGGGTTTGTTTAACCCTC
Found at i:2557448 original size:18 final size:18
Alignment explanation
Indices: 2557427--2557461 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2557417 CATTCACCAC
2557427 CACCTTCACGTTCATCAT
1 CACCTTCACGTTCATCAT
* *
2557445 CACCTTTACTTTCATCA
1 CACCTTCACGTTCATCA
2557462 CCCTTTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.37, G:0.03, T:0.37
Consensus pattern (18 bp):
CACCTTCACGTTCATCAT
Found at i:2560010 original size:21 final size:21
Alignment explanation
Indices: 2559985--2560041 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2559975 TCGAGGGTTC
*
2559985 TATATGGTCCTTCGGGACATA
1 TATATGGTCCTTCGGAACATA
** *
2560006 TATATAATCCTTTGGAACATA
1 TATATGGTCCTTCGGAACATA
* *
2560027 TATGTGGTACTTCGG
1 TATATGGTCCTTCGG
2560042 TACACTTATT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (21 bp):
TATATGGTCCTTCGGAACATA
Found at i:2561355 original size:10 final size:11
Alignment explanation
Indices: 2561340--2561410 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 11
2561330 TATGATACAT
2561340 GTATATATA-A
1 GTATATATATA
2561350 GTATATATATA
1 GTATATATATA
2561361 -TATATATATGA
1 GTATATATAT-A
* *
2561372 GTCTAAAGTATA
1 GTATATA-TATA
2561384 -TA-ATATATAA
1 GTATATATAT-A
2561394 GTATATATATAA
1 GTATATATAT-A
2561406 GTATA
1 GTATA
2561411 AAGTATATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
9 3 0.06
10 21 0.42
11 5 0.10
12 18 0.36
13 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (11 bp):
GTATATATATA
Found at i:2561358 original size:12 final size:12
Alignment explanation
Indices: 2561341--2561410 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 12
2561331 ATGATACATG
2561341 TATATATAAGTA
1 TATATATAAGTA
2561353 TATATAT-A-TA
1 TATATATAAGTA
* *
2561363 TATATATGAGTC
1 TATATATAAGTA
*
2561375 TAAAGTAT-A-TA
1 TATA-TATAAGTA
2561386 -ATATATAAGTA
1 TATATATAAGTA
2561397 TATATATAAGTA
1 TATATATAAGTA
2561409 TA
1 TA
2561411 AAGTATATGC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
9 3 0.06
10 12 0.25
11 5 0.10
12 25 0.52
13 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (12 bp):
TATATATAAGTA
Found at i:2561385 original size:19 final size:18
Alignment explanation
Indices: 2561361--2561418 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
2561351 TATATATATA
*
2561361 TATATATATGAGTCTAAAG
1 TATATATAT-AGTATAAAG
2561380 TATATA-ATA-TAT-AAG
1 TATATATATAGTATAAAG
2561395 TATATATATAAGTATAAAG
1 TATATATAT-AGTATAAAG
2561414 TATAT
1 TATAT
2561419 GCATAACTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 9 0.26
16 4 0.12
17 2 0.06
18 5 0.15
19 14 0.41
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (18 bp):
TATATATATAGTATAAAG
Found at i:2561399 original size:34 final size:34
Alignment explanation
Indices: 2561352--2561418 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
2561342 ATATATAAGT
* *
2561352 ATATATATATATATATATGAGTCTAAAGTATATA
1 ATATATATATATATATATAAGTATAAAGTATATA
2561386 ATATATA-AGTATATATATAAGTATAAAGTATAT
1 ATATATATA-TATATATATAAGTATAAAGTATAT
2561419 GCATAACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.40
Consensus pattern (34 bp):
ATATATATATATATATATAAGTATAAAGTATATA
Found at i:2561424 original size:19 final size:19
Alignment explanation
Indices: 2561342--2561424 Score: 51
Period size: 19 Copynumber: 4.1 Consensus size: 19
2561332 TGATACATGT
*
2561342 ATATATAAGTATATATATA
1 ATATATAAGTATATACATA
* *
2561361 TATATATATGAGTCTAAAGTATATA
1 -ATATATA--AG--TATA-TACATA
*
2561386 ATATATAAGTATATATATA
1 ATATATAAGTATATACATA
*
2561405 AGTATA-AAGTATATGCATA
1 A-TATATAAGTATATACATA
2561424 A
1 A
2561425 CTATGTGTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
19 19 0.36
20 14 0.26
22 4 0.08
24 10 0.19
25 6 0.11
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (19 bp):
ATATATAAGTATATACATA
Done.