Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397377.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_567.0, 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: 33966
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.29
Warning! 5072 characters in sequence are not A, C, G, or T
Found at i:1949 original size:171 final size:172
Alignment explanation
Indices: 1634--2013 Score: 415
Period size: 171 Copynumber: 2.2 Consensus size: 172
1624 CCATTTCTTC
* * *
1634 AAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCACAATTTGATTTTAAGTTGAATTTTT
1 AAAAGCCTTATTAATCACTTTAAATGGTTTAATAATCTCACAATTTGATTTTAAGTTGAATTGTT
* * * ** * * *
1699 TTATATTTTTCATTAAAAAAGATTATAATTGAATGTTTACCTTGAGAAACATGAAGAGAAATATA
66 TTACATTTTTCATTAAAAAAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACA
**
1764 GTTATTAACAAGAAAAGTTTATTTATAGTCGTCGATTCCTTT
131 GTTATTAACAAGAAAAGTCCATTTATAGTCGTCGATTCCTTT
* * * *
1806 AAAAGTCTTATTAATCGCTTTAAATGGTTTAATAATCTCATAA-TTGATTTTAGGTTGAATTGTT
1 AAAAGCCTTATTAATCACTTTAAATGGTTTAATAATCTCACAATTTGATTTTAAGTTGAATTGTT
* ** * *
1870 TTACATTTTTTC-TTTAAGTAGACTATAATTGAATGTCTGCCTCAAGAAACGTGAAGAAAAAGAC
66 TTACA-TTTTTCATTAAAAAAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGAC
** * ** * *
1934 A-TTCATTTGCAAGAAAAGTCCATTTATAGCCACCCAATTCCTTC
130 AGTT-ATTAACAAGAAAAGTCCATTTATAGTC-GTCGATTCCTTT
* ** *
1978 AAAAGCATTATTTCTCACTTTAAATGGTTTTATAAT
1 AAAAGCCTTATTAATCACTTTAAATGGTTTAATAAT
2014 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 35, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
170 2 0.01
171 86 0.51
172 82 0.48
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (172 bp):
AAAAGCCTTATTAATCACTTTAAATGGTTTAATAATCTCACAATTTGATTTTAAGTTGAATTGTT
TTACATTTTTCATTAAAAAAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACA
GTTATTAACAAGAAAAGTCCATTTATAGTCGTCGATTCCTTT
Found at i:4272 original size:171 final size:167
Alignment explanation
Indices: 4059--4523 Score: 460
Period size: 171 Copynumber: 2.7 Consensus size: 167
4049 NNNNAAAATC
* ** **
4059 ATTTAAAGCAAGTAATAATGCTTTTGAAGGCAT-AGATGACTATAAATAGACTTTTCTAGTCAAT
1 ATTTAAAGTAAGTAATAACACTTTTGAAGAAATAAG-TGACTATAAATAGACTTTTCTA-TCAAT
* * * *
4123 GAATCACTTTTTCTACAAGTTTTTCAAGGCAAACATTCAATCATAATATGTTTTAACCAAAAATG
64 GAAT-ACTTTTT-T-CATGTTTTTCAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAATA
*
4188 TAAAAAAATTCAACCT-AAAATCAATTCA-AAGATTATAAAACT
126 TAAAAAAACTCAA-CTAAAAATCAATT-ATAAGATTATAAAACT
** *
4230 ATTTAAAGTGAA-TAATAACACTTTTGAA-AGAATGGGTGACTATAAATAGACTTTTTTTATCAA
1 ATTTAAAGT-AAGTAATAACACTTTTGAAGA-AATAAGTGACTATAAATAGAC-TTTTCTATCAA
* * * * *
4293 TGAGTATCTTTTTATTCATGTTTTCCAAGGCAGACATTTAATTATAATCTAG-TTTAATCAAAAA
63 TGAATA-C-TTTT-TTCATGTTTTTCAAGGCAAACATTCAATTATAATCT-GTTTTAACCAAAAA
*
4357 TATAAAAAAACTCAATTAAAAATCAATTATAAGATTATAAAACT
124 TATAAAAAAACTCAACTAAAAATCAATTATAAGATTATAAAACT
* ** * * * *
4401 ATTTAAGGTAAGTAATAAGGCTTTTGACGAAATAAGTGACTATAAATGGACTTTACTTATAAATG
1 ATTTAAAGTAAGTAATAACACTTTTGAAGAAATAAGTGACTATAAATAGACTTTTC-TATCAATG
* * *
4466 AATGGCTTTTTT-ATGTTTCTT-GAGGCAAACATTCAATTATAATCTATTTTAACCAAAA
65 AAT-ACTTTTTTCATGTTT-TTCAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAA
4524 NNNNNNNNNN
Statistics
Matches: 242, Mismatches: 36, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
168 37 0.15
169 3 0.01
170 12 0.05
171 173 0.71
172 16 0.07
173 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (167 bp):
ATTTAAAGTAAGTAATAACACTTTTGAAGAAATAAGTGACTATAAATAGACTTTTCTATCAATGA
ATACTTTTTTCATGTTTTTCAAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAATATAAAA
AAACTCAACTAAAAATCAATTATAAGATTATAAAACT
Found at i:6541 original size:171 final size:163
Alignment explanation
Indices: 6268--6675 Score: 379
Period size: 171 Copynumber: 2.4 Consensus size: 163
6258 ATTCAAAAAC
* * * * *
6268 AGTAATAAAACTTTCGAAGGCATGAGTG-ACTATAAATTAACTTTTCACTCCAATGGATAGCTTT
1 AGTAATAAAACTTTCAAAGGCATGAG-GAACTATAAATGAGCTTTTCTCTCCAATGGAT-GGTTT
* * * * * * * *
6332 T-ACTTCACGTTTCTCGAGATAGATATTTAATTATAATATATTTTAATCAAAAATGTAAAAAAAT
64 TCGCTTCACATTTCTCGACATAGACATTCAATAATAATATATTTTAATAAAAAATATAAAAAAAT
* **
6396 TCAACNNNNNNNNNNTTATGAGATTATAAAACCATTTAAAGCG
129 TAAAC--------TTTTATGAGATTATAAAACCATTTAAAGCG
* * *
6439 AGTAATAATACTTTCAAAGGTATGAGGAACTATAAATGAGCGTTTCTCTCCAATGGATGGTTTTC
1 AGTAATAAAACTTTCAAAGGCATGAGGAACTATAAATGAGCTTTTCTCTCCAATGGATGGTTTTC
*
6504 GCTTCACATTTTTCGACATAGACATTCAATAATAATATATTTTAATAAAAAATATAAAAAAATTA
66 GCTTCACATTTCTCGACATAGACATTCAATAATAATATATTTTAATAAAAAATATAAAAAAATTA
** *
6569 AACTTNNNNNNNNNNATGAGATTATAAAACTATTTAAAGCG
131 AACTT--------TTATGAGATTATAAAACCATTTAAAGCG
* ** * * *
6610 AGAAATAAGGCTTTCAAAGGCATGAGTAACTCTAAATGAGCTTTTCTCTCCAATGGATGGCTTTC
1 AGTAATAAAACTTTCAAAGGCATGAGGAACTATAAATGAGCTTTTCTCTCCAATGGATGGTTTTC
6675 G
66 G
6676 AAGGCATGGG
Statistics
Matches: 196, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
170 6 0.03
171 190 0.97
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.32
Consensus pattern (163 bp):
AGTAATAAAACTTTCAAAGGCATGAGGAACTATAAATGAGCTTTTCTCTCCAATGGATGGTTTTC
GCTTCACATTTCTCGACATAGACATTCAATAATAATATATTTTAATAAAAAATATAAAAAAATTA
AACTTTTATGAGATTATAAAACCATTTAAAGCG
Found at i:7552 original size:170 final size:161
Alignment explanation
Indices: 7277--7679 Score: 370
Period size: 170 Copynumber: 2.4 Consensus size: 161
7267 TTATGAGATT
*
7277 ATAAAACTATTTAAAGCGAGTAGTAAGCCTTTCGAAGATATGGCTGACTATAAATGGACTTTTCT
1 ATAAAACTATTTAAAGCGAGTAATAAGCCTTTCGAAGATATGGCTGACTATAAATGGACTTTTCT
* * * *
7342 TACCAATGATTGGCTTTTTCTTCACGTTTCTCACGGTAAACATTTAATTATAATC-TGTTTAAAC
66 TACCAATGAATGGCTTTTTCTTCACGTTTCCCAAGGTAAACAATTAATTATAATCAT-TTTAAAC
*
7406 CAAAAATGTAAAA-AATTCAACTTAAAATCAA
130 CAAAAATGTAAAACAATTCAACCTAAAATCAA
* * * *
7437 NNNNNNNNNNATAAAACTATTTAAAGTGAGTAATAAGGCTTTCGAGGGCT-TAGG-TGACTATAA
1 ----------ATAAAACTATTTAAAGCGAGTAATAAGCCTTTCGA-AGATAT-GGCTGACTATAA
*
7500 ATGGACTTGTT-TTACCAATGAATGGCTTTTTCTT-AGTGTTTCCCAAGGTAAACAATTAATTAT
54 ATGGACTT-TTCTTACCAATGAATGGCTTTTTCTTCA-CGTTTCCCAAGGTAAACAATTAATTAT
* * *
7563 AATCATTTTAAGCCAAAAATGTAAAACAATTTAACCTAAAATGAATTATGA
117 AATCATTTTAAACCAAAAATGTAAAACAATTCAACCT--AA--AATCA--A
* ** *
7614 GATTATGAAACTATTTAAAGAGAGTAATAAG-CTTTCGAAGGCATGGGTGACTATAAATGGACTT
1 -A-TA--AAACTATTTAAAGCGAGTAATAAGCCTTTCGAAGATATGGCTGACTATAAATGGACTT
7678 TT
62 TT
7680 TTTGCTTCAC
Statistics
Matches: 197, Mismatches: 19, Indels: 35
0.78 0.08 0.14
Matches are distributed among these distances:
168 1 0.01
169 8 0.04
170 143 0.73
171 38 0.19
173 2 0.01
175 4 0.02
177 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.33
Consensus pattern (161 bp):
ATAAAACTATTTAAAGCGAGTAATAAGCCTTTCGAAGATATGGCTGACTATAAATGGACTTTTCT
TACCAATGAATGGCTTTTTCTTCACGTTTCCCAAGGTAAACAATTAATTATAATCATTTTAAACC
AAAAATGTAAAACAATTCAACCTAAAATCAA
Found at i:12381 original size:13 final size:12
Alignment explanation
Indices: 12362--12406 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
12352 GTTAGTTTTC
12362 CTAAAATACCTT
1 CTAAAATACCTT
12374 CATAAAATA-C--
1 C-TAAAATACCTT
12384 CTAAAATACCTT
1 CTAAAATACCTT
12396 CCTAAAATACC
1 -CTAAAATACC
12407 CTTAAATTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
12 2 0.07
13 17 0.61
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (12 bp):
CTAAAATACCTT
Found at i:12386 original size:22 final size:22
Alignment explanation
Indices: 12361--12406 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
12351 AGTTAGTTTT
12361 CCTAAAATACCTTCATAAAATA
1 CCTAAAATACCTTCATAAAATA
*
12383 CCTAAAATACCTTCCTAAAATA
1 CCTAAAATACCTTCATAAAATA
12405 CC
1 CC
12407 CTTAAATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
CCTAAAATACCTTCATAAAATA
Found at i:15583 original size:20 final size:19
Alignment explanation
Indices: 15549--15594 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
15539 GAAAATTGGG
15549 AAGAAA-TAGAGAGAAAAGGA
1 AAGAAATTAGAGA-AAAA-GA
15569 ATAGAAATTAGAGAAAAAGA
1 A-AGAAATTAGAGAAAAAGA
15589 AAGAAA
1 AAGAAA
15595 AAGAAAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 9 0.38
22 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (19 bp):
AAGAAATTAGAGAAAAAGA
Found at i:18157 original size:171 final size:168
Alignment explanation
Indices: 17015--18889 Score: 898
Period size: 171 Copynumber: 11.0 Consensus size: 168
17005 TGTTTTTTTT
* * * *
17015 TTCACATTTCCTAAGGTAAACATTGAATTATAATATATTTTAACCAAAAAAGTAAAAAAATTCAA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAA--TAAAAATTAAAAAAATTCAA
* ********** * * * **
17080 CCTAAAATCAATTATGAGANNNNNNNNNNATTTAAAGTGAGTAATAAGACTTTTGAAGGAATG-G
64 CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAG
* * * * *
17144 ATGACTATAAATGGGCTTTTCTTTATCAATGAAT-GCATTTTTC
129 -TGACTATAAATAGACTTTTC--TCTCAATGGATGGC-TTTTGC
* ** ** * * * * * *
17187 TTTATGTTTCTTAAGGCAAATATTCAATTATAGTTTGTTTTAATCAAAATTGTAAAAAAATTCAA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAAT-AAAAAT-TAAAAAAATTCAA
********** * * * * * *** *
17252 CTTNNNNNNNNNNATGAGATTATAAAACCATTTAAAGTGAGTAAAAAGGTTTTTGAAGGAACGGG
64 CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAG
* *
17317 TGACTATGAATAGACTTTTCT-TGCCAAT-GAGTGCCTATTT-C
129 TGACTATAAATAGACTTTTCTCT--CAATGGA-TGGCT-TTTGC
** * * * *
17358 TTCATGTTTTCCAAGGTAAACATTCAATTCTAGTCTATTTTAATCAAAAATGTAAAAAAATTCAA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAAT-AAAAAT-TAAAAAAATTCAA
********** * * * * ** *
17423 CTTAAAATCAANNNNNNNNNNATAAAACCATTTAAACCGAGTAATAAGACTTTTGAAGGAATGGG
64 CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAG
* * * *
17488 TGATTATAAATAGACTTCTCT-TGCCAATGGCA--ACTTTTTCC
129 TGACTATAAATAGACTTTTCTCT--CAATGG-ATGGC-TTTTGC
** * ** * * * **
17529 TTCACGGTTCTCAAGGTTGACATTCAATTATAATTTGTTTTAACCAAAAATGTAAAAAAA-AAAA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAA-TAAAAAT-TAAAAAAATTCAA
********** * ** * *
17593 CTTAAAATCNNNNNNNNNNTTATAAAACTATTTAAAGCAAGTAATAATACTTTCGAAGACATG-G
64 CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAG
* * * *
17657 ATGACTATAAATGGACTTTTCTAGTCAATGAATAGCTTTCT-C
129 -TGACTATAAATAGACTTTTCT-CTCAATGGATGGCTTT-TGC
* * * * * * *
17699 TACA-AGTTTCCCAAGGCAAACATTCAATCATAATCTGTTTTAACCAAAAATGTAAACAAATTCA
1 TTCACA-TTTCCCAAGGTAAACATTCAATTATAATATATTTTAA-TAAAAAT-TAAAAAAATTCA
* * * ***********
17763 ACCTAAAATCAATTCA-GAGATTATAAAACCATTTAAAGTGAGTAATAAGGCNNNNNNNNNNATG
63 ACTTAAAATCAATT-ATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTG
* * **
17827 AGTGACTATAAATGGACTTTTCT-TACCAAT-GAGTGTCTTTTTA
127 AGTGACTATAAATAGACTTTTCTCT--CAATGGA-TGGCTTTTGC
** * * * * * * *
17870 TTTGCGTTTCCCATGGTAGACATTCAATCATAATCTATTTTAACCAAAAATGTAAAAAAACTCAA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAA-TAAAAAT-TAAAAAAATTCAA
* ********** * *
17935 CTAAAAATCAATTATGAGATTATAANNNNNNNNNNAGAGAGTAATAAGGCTTTTGAAGGCTTGAG
64 CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAG
*
18000 TGACTATAAATAGACTTTTCGTGTCAATGGATGGCTTTTGC
129 TGACTATAAATAGACTTTTC-TCTCAATGGATGGCTTTTGC
* * * * * *
18041 TTTACGTTTCCCAAGGCAAATATTCAATTATAATATATTTTAATCAAAATTACAGAAAACTTCAA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAATAAAAATTA-A-AAAAATTCAA
* * * *
18106 CTTAAAATCAATTACGAGATTATAAAACTATTTAAAACGAGTAAAAAGGCTTTC-AAGGGCTTGT
64 CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAA-GGCTTGA
* ***
18170 GTGACTATAAATAGACTTTTCTTCTCAATGAATGGCTTTNNN
128 GTGACTATAAATAGACTTTTC-TCTCAATGGATGGCTTTTGC
******* * * * * *
18212 NNNNNNNTTCTCAAGGCAAACATTCAATTATAATATGTTTAAAGTAAAAATATAACAAAATTCAA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAA-TAAAAAT-TAAAAAAATTCAA
* * * * * *
18277 CCTAAAATCAACTATGATATCATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATAAG
64 CTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAG
* * ** * *
18342 TGACGATAAATGGACTTTTGGCATCAATGAATGACTTTTGC
129 TGACTATAAATAGACTTTTCTC-TCAATGGATGGCTTTTGC
** * * *
18383 TTCATGTTTCCTAAGGTAAACATTCAATTATAATATATTTTAATAAAAATGTAAAACAATTTAAC
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAATAAAAAT-TAAAAAAATTCAAC
* * * **
18448 TTAAAATCAATTATGAGATTATAAATCCAATTT-AAGCGAGTAAGAATACTTTCGAAGG-TATGA
65 TTAAAATCAATTATGAGATTATAAA-ACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCT-TGA
* * *
18511 GTAACTATAAATA-AGCTTTTCTCTCCAATGGATAGCTTTCGC
128 GTGACTATAAATAGA-CTTTTCTCT-CAATGGATGGCTTTTGC
** * * *
18553 TTCACATTTCTAAAGATAGACATTCAATTATAATATATTTTAA-ACAAATATGAAAAAAAATTCA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAATA-AAA-AT-TAAAAAAATTCA
* * * * * ** *
18617 ACCTAAAATCAATTATGAGATTATCAAACTATTTAAAGCGAGTACTAAGACTTTTGAAGGAATGG
63 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGA
* * ** *
18682 GTGATTATAAATAGACTTTTCT-TGCCAGTGGCA-ACCTTTTCC
128 GTGACTATAAATAGACTTTTCTCT--CAATGG-ATGGCTTTTGC
* ** * * *
18724 TTCACATTTTCCAATATAGATATTCAATTATAATATATTTTAATAAAAAAATATAAAAAAATTTA
1 TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAAT--AAAAAT-TAAAAAAATTCA
* * * * *
18789 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAATGCTTTCGAAAGCTTGG
63 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGA
* *
18854 GTAACTAT-AATTGAGCTTTTCTCTCTAATGGATGGC
128 GTGACTATAAATAGA-CTTTTCTCTC-AATGGATGGC
18890 CTTCGAAGGC
Statistics
Matches: 1307, Mismatches: 339, Indels: 114
0.74 0.19 0.06
Matches are distributed among these distances:
169 9 0.01
170 286 0.22
171 796 0.61
172 206 0.16
173 9 0.01
174 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.33
Consensus pattern (168 bp):
TTCACATTTCCCAAGGTAAACATTCAATTATAATATATTTTAATAAAAATTAAAAAAATTCAACT
TAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTGAGTG
ACTATAAATAGACTTTTCTCTCAATGGATGGCTTTTGC
Found at i:18582 original size:341 final size:333
Alignment explanation
Indices: 17973--18886 Score: 881
Period size: 341 Copynumber: 2.7 Consensus size: 333
17963 NNNNNNNAGA
* ** * *
17973 GAGTAATAAGGCTTTTGAAGGCTTGAGTGACTATAAATAGACTTTTCGTGTCAATGGATGGCTTT
1 GAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAATAGACTTTT-GCATCAATGAATGACTTT
* * * *
18038 TGCTTTACGTTTCCCAAGGCAAATATTCAATTATAATATATTTTAATCAAAATTACAGAAAACTT
65 TGCTTCATGTTT-CCAAGGTAAATATTCAATTATAATATATTTTAATAAAAATTA-A-AAAA-TT
* * * * *
18103 CAACTTAAAATCAATTACGAGATTATAAAACTATTTAAAACGAGTAAAAAGGCTTTC-AAGGGCT
126 TAACTTAAAATCAATTATGAGATTAT-AAACCATTTAAAGCGAGTAAAAATGCTTTCGAA-GG-T
* * * * ********** * *
18167 TGTGTGACTATAAATAGACTTTTCT-TCTCAATGAATGGCTTTNNNNNNNNNNTTCTCAAGGCAA
188 TGAGTAACTATAAATAG-CTTTTCTCTC-CAATGGATAGCTTTCGCTTCACATTTCTAAAGACAA
* * *
18231 ACATTCAATTATAATATGTTTAAAGTAAAAATAT-AACAAAATTCAACCTAAAATCAACTATGAT
251 ACATTCAATTATAATATATTTAAA--AAAAATATAAAAAAAATTCAACCTAAAATCAACTATGAG
18295 ATCATAAAACTATTTAAAGC
314 ATCATAAAACTATTTAAAGC
* * * *
18315 GAGTAATAAGGCTTTCGAAGGCATAAGTGACGATAAATGGACTTTTGGCATCAATGAATGACTTT
1 GAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAATAGACTTTT-GCATCAATGAATGACTTT
*
18380 TGCTTCATGTTTCCTAAGGTAAACATTCAATTATAATATATTTTAATAAAAATGTAAAACAATTT
65 TGCTTCATGTTTCC-AAGGTAAATATTCAATTATAATATATTTTAATAAAAAT-TAAAA-AATTT
* *
18445 AACTTAAAATCAATTATGAGATTATAAATCCAATTT-AAGCGAGTAAGAATACTTTCGAAGGTAT
127 AACTTAAAATCAATTATGAGATTATAAA-CC-ATTTAAAGCGAGTAAAAATGCTTTCGAAGGT-T
* *
18509 GAGTAACTATAAATAAGCTTTTCTCTCCAATGGATAGCTTTCGCTTCACATTTCTAAAGATAGAC
189 GAGTAACTATAAAT-AGCTTTTCTCTCCAATGGATAGCTTTCGCTTCACATTTCTAAAGACAAAC
* * * *
18574 ATTCAATTATAATATATTTTAAACAAATATGAAAAAAAATTCAACCTAAAATCAATTATGAGATT
253 ATTCAATTATAATATATTTAAAAAAAATAT-AAAAAAAATTCAACCTAAAATCAACTATGAGATC
*
18639 ATCAAACTATTTAAAGC
317 ATAAAACTATTTAAAGC
* * * * * * * *
18656 GAGTACTAAGACTTTTGAAGGAATGGGTGATTATAAATAGACTTTT-CTTGCCAGTGGCAA--CC
1 GAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAATAGACTTTTGCAT--CAAT-G-AATGAC
* ** *
18718 TTTTCCTTCACAT-TTTCCAATATAGATATTCAATTATAATATATTTTAATAAAAAAATATAAAA
62 TTTTGCTT--CATGTTTCCAAGGTAAATATTCAATTATAATATATTTTAAT--AAAAAT-T-AAA
* *
18782 AAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAATGCTTTCGAA
121 AAATTTAACTTAAAATCAATTATGAGATTAT-AAACCATTTAAAGCGAGTAAAAATGCTTTCG-A
* * * *
18847 AGCTTGGGTAACTATAATTGAGCTTTTCTCTCTAATGGAT
184 AGGTTGAGTAACTATAAAT-AGCTTTTCTCTCCAATGGAT
18887 GGCCTTCGAA
Statistics
Matches: 475, Mismatches: 74, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
339 9 0.02
340 4 0.01
341 232 0.49
342 123 0.26
343 96 0.20
344 11 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (333 bp):
GAGTAATAAGGCTTTTGAAGGCATGAGTGACTATAAATAGACTTTTGCATCAATGAATGACTTTT
GCTTCATGTTTCCAAGGTAAATATTCAATTATAATATATTTTAATAAAAATTAAAAAATTTAACT
TAAAATCAATTATGAGATTATAAACCATTTAAAGCGAGTAAAAATGCTTTCGAAGGTTGAGTAAC
TATAAATAGCTTTTCTCTCCAATGGATAGCTTTCGCTTCACATTTCTAAAGACAAACATTCAATT
ATAATATATTTAAAAAAAATATAAAAAAAATTCAACCTAAAATCAACTATGAGATCATAAAACTA
TTTAAAGC
Found at i:19375 original size:197 final size:197
Alignment explanation
Indices: 19009--19391 Score: 516
Period size: 197 Copynumber: 1.9 Consensus size: 197
18999 AAAAAAATTC
* * * *
19009 AACTTAAAATCAATTATGAGATTATAAAACTATTCAAAGTGAGTAATAAGCCTTTTGAAGGAATG
1 AACTTAAAATCAATTATAAGATTATAAAACCATTCAAAGTGAGTAATAAGCCTATTGAAGGAATA
* * * * * * *
19074 TGTGACTATGAATGGACTTTTCTTGCCAATGAATGCCTTTTCCTTCATGTTTCCCAAGGTGGATA
66 TGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTCCTTCACGTTTCACAAGCTAGACA
* * * * *
19139 TTCAATTATAGTATGTTTTAACCAAAATTGTAAAAAAATTCAACTTAAAATCAATTTTTTTTAAA
131 TTCAATTATAATATGTTTCAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTTTTTTTAAA
19204 GT
196 GT
* ** *
19206 AACTTAAAATCAATTATAAGCTTATAAAACCATTTGAAGTGAGTAATAAGGCTATTGAAGGAATA
1 AACTTAAAATCAATTATAAGATTATAAAACCATTCAAAGTGAGTAATAAGCCTATTGAAGGAATA
* * *
19271 TGTGACTATAAATAGATTTTTCTTGCTAATG-ATAGCCTTTTCCTTCACGTTTCACGAGCTAGAC
66 TGTGACTATAAATAGACTTTTCTTGCCAATGAAT-GCCTTTTCCTTCACGTTTCACAAGCTAGAC
* * *
19335 ATTCAGTTATAATCTGTTTCAACAAAAAATATATAAAAATTCAACTTAAAATCAATT
130 ATTCAATTATAATATGTTTCAACAAAAAATATAAAAAAATTCAACTTAAAATCAATT
19392 ATGAGATTAT
Statistics
Matches: 159, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
196 2 0.01
197 157 0.99
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (197 bp):
AACTTAAAATCAATTATAAGATTATAAAACCATTCAAAGTGAGTAATAAGCCTATTGAAGGAATA
TGTGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTCCTTCACGTTTCACAAGCTAGACA
TTCAATTATAATATGTTTCAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTTTTTTTAAA
GT
Found at i:20213 original size:342 final size:340
Alignment explanation
Indices: 19206--22275 Score: 1558
Period size: 341 Copynumber: 9.0 Consensus size: 340
19196 TTTTTAAAGT
* * * * * *
19206 AACTTAAAATCAATTATAAGCTTATAAAACCATTTGAAGTGAGTAATAAGGCTATTGAAGGAAT-
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT-TTGAAAGATTG
* * *
19270 ATGTGACTATAAATAGATTTTTCTTGCTAAT-GATAGCCTTTTCCTTCACG-TTT-CACGAGCTA
65 A-GTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTCCAAGA-C-A
* * * * *
19332 GACATTCAGTTATAATCTGTTTCAACAAAAAATATATAAAAATTCAACTTAAAATCAATTATGAG
127 GACATTCAATTATAATATATTTTAAC-AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAG
* ** * * *
19397 ATTATAAAGCCATTTAAAGCAAG-CCTTA----TACAAAGGCATGGGTGACTATAAATAAACTTT
191 ATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAACTTT
* * * * * * * * *
19457 TCTAGTCAATGAATAGCTTTTTCTGTAAGTTTCTCGACGCAGACATTTAATCATATTCTGTTTTG
256 TC-AGTCAATGAATAGCTTTTTCTTTACGTTTCTCAAGGAAGACATTCAATTATAATCTGTTTTA
* *
19522 ACCAAAAATGTAAAAAAATTT
320 ACAAAAAATGTAAAAAAATTC
* * * *
19543 AACCTAAAATCAATTATGAGATCATAAAA-CATTTAAAGAGAGTAATAAGGCTTTTG-AAGGTAT
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTGAAAGAT-T
** * * * * * * ** * *** * *
19606 GAGTGACTACGATTAGAGTTTTCTTACTAGTGAAT-GATTTTTCCTTTACGTTTTTTGAGATAAA
64 GAGTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTCCAAGACAGA
* * *
19670 CACTT-AATTATAACT-TATTTTAACCAAAAATGTTAAAAAACTCAACTTAAAATCAATTATGAG
129 CA-TTCAATTATAA-TATATTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAG
* ** ** ** * *
19733 ATAATAAAACCATTTAAAGTGAGTAATAAGGC-TTCTGAAGTAATGGGCAACTATAAATAGACTC
191 ATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTC-GAAGGCATGGGTGACTATAAATAAACTT
* * ** ** * * *
19797 TTCTTGTCAATGAATAGCTTTTTTTTTAAATTTC-CTATCGCAGACATTCAATGATAAACTGTTT
255 TTC-AGTCAATGAATAGCTTTTTCTTTACGTTTCTC-AAGGAAGACATTCAATTATAATCTGTTT
* * *
19861 GAACAAAAAATATAAAAATATTC
318 TAACAAAAAATGTAAAAAAATTC
* * *
19884 AACTTAAAATCAATTATGAGATTATAAAACCATTT-AAGCAAGTAATAAGGCTTTCAAAAGCTTG
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT-GAAAGATTG
* * ** *
19948 AGTGACTATAAATGGACTTTTCGTGCCAATGGATAG-CTTTTGGTTCATGTTTTCCAAGACAGAC
65 AGTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTCCAAGACAGAC
* * * *
20012 ATTCAATTATAATATATTTTAATCAAAATTACAAAACAAAATCAACTTAAAATCATTTATGAGAT
130 ATTCAATTATAATATATTTTAA-CAAAAATATAAAA-AAATTCAACTTAAAATCAATTATGAGAT
* * *
20077 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCCAAGGCATGGGTGACTTTAAATAAACTTTTT
193 TATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAAC-TTTT
* * * * * * *
20142 CAGTCAGTGAGTAGCTTTTTCTTTACGTTTCTTAAGGAAAACATTTAATTATAATCTGTTTAAAT
257 CAGTCAATGAATAGCTTTTTCTTTACGTTTCTCAAGGAAGACATTCAATTATAATCTGTTTTAAC
20207 AAAAAATGTAAAAAAATTC
322 AAAAAATGTAAAAAAATTC
* * * *
20226 AACCTAAAATCAATTATGAGATTATCAAACCACTTAAAGCGAGTAATAAGGTTTTTGAAAG-TCT
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG-CTTTGAAAGAT-T
* * * * * * *
20290 GAGTGACTATAAA-AGGACTTTTGTTGTCAATGAAT-GGCTTTTACTTCATG-TTTCTCGAGACA
64 GAGTGACTATAAATA-GACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTC-CAAGACA
* * * * **********
20352 GACAATGAATTATAATATGTTTTAATCAAAAATATAAAAAAATTAAACTTAAAATNNNNNNNNNN
127 GACATTCAATTATAATATATTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAG
* ** * * * *
20417 ATTATAAAACTATTTAAAAAAAGTAATAATGCTTTCGAAGGTATGAGTAACTATAAATAAACTTT
191 ATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAACTTT
* * * * *
20482 TCACTCTAAT-AGAT-GACTTTTGCTTCAC-TTT-TCCAGAGATAGACATTCAATTATAATCTAT
256 TCAGTC-AATGA-ATAG-CTTTTTCTTTACGTTTCTCAAG-GA-AGACATTCAATTATAATCTGT
* *
20543 TTTAATAAAAAATGTAAAAGAATTC
316 TTTAACAAAAAATGTAAAAAAATTC
* * * * * * ** *
20568 AACTTAAAGTTAACTATGAGATTACAAAATCATTTAAAGTGAGTAATAAGGCTTTTGACGGAAT-
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTGAAAGATTG
* * * ** **
20632 AGGTGACTAGAAATAGACTTTTCTTGCCAAT-GATAGCCTTCTCCTTCAAGTTTTTTAAGGTAGA
65 A-GTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTCCAAGACAGA
* * **********
20696 CATTCAATTATAATTTATTTTAACAAAAATATAAAGAAATTCAACTTAAAATCAANNNNNNNNNN
129 CATTCAATTATAATATATTTTAACAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
** ** ** *
20761 ATAAAATTATTTAAAGCAAGTAATAAGGCTTTTTAAGGCATGGACGACTATAAATAGACTTTTCT
194 ATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAACTTTTC-
* * * * *
20826 AGTCAATGAAT-GACTTTTTCTTCACGTTTCTCAAGGTCA-ACATTGAATAATAATCTATTTTAA
258 AGTCAATGAATAG-CTTTTTCTTTACGTTTCTCAAGG-AAGACATTCAATTATAATCTGTTTTAA
*
20889 CCAAAAA--TAAAAAATTATTC
321 CAAAAAATGTAAAAAA--ATTC
* * * * * *
20909 AACTTAAAATCAATTTTGAGATTATAAAGCCAGTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTA
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT-GAAAGATTG
********** * * * *
20974 AGTGACTATAAATANNNNNNNNNNGCCAATGGAT-GGCTTTTGCTTCACGTTTCCTCAGGTA-A-
65 AGTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTC-CAAG-ACAG
* * ** *******
21036 ACCTTCAATGATAATATATTTTAATCAAAAACGTAAAAAAATTCAACTTAAAATCAATNNNNNNN
128 ACATTCAATTATAATATATTTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGA
*** * ** * * * ** *
21101 NNNTAAAGCCATTTAAAGTGAGTAATAAGGTTTTCGAAAGCTTGGGTGACTATAAATGGACTTCT
192 TTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAACTTTT
* * * * * * * * * *
21166 CTGAACTATG-ATTGACTTTTTCTCATA--TTTGTAAAGGTAGACATTTAATTACAATCTGTTTT
257 CAG-TCAATGAATAG-CTTTTTCT-TTACGTTTCTCAAGGAAGACATTCAATTATAATCTGTTTT
**
21228 AACCGAAAATGTAAAAAAAATTC
319 AACAAAAAATGT-AAAAAAATTC
********** *
21251 AACTTAAAATCAATTATGAGATTATAAAACCATNNNNNNNNNNTAATAAGGCTTTTGAAAGAATG
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTGAAAGATTG
* * * * * * * **
21316 AGTGACTATAAATGGACTTTTTTTACCAATGAAT-GGCTTTTTCTTCACGTTTCCCAAGGTAGAC
65 AGTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTCCAAGACAGAC
* * * * *** * *
21380 ATCCAATTATAATCTGTTATATTGAAAAGATAAACAAATTCAACTTAAAATCAATTATGATG-TT
130 ATTCAATTATAATATATTTTAACAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA-GATT
* ** * * ** * ** *
21444 ATAAAATCATTTAAAGTGAGTAATAAGGTTTTTGAAGATATGAGCAACTATAAATAGACTTTTC-
194 ATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAACTTTTCA
* ********* * * * *
21508 TTGCNNNNNNNNNNCTTTTTCTTTAGGTTTCTCAAGGCAGACATTCAATCATAATCTATTTTAA-
259 GT-C-AATGAATAGCTTTTTCTTTACGTTTCTCAAGGAAGACATTCAATTATAATCTGTTTTAAC
* *
21572 TAAAAATATAAAAAAATTC
322 AAAAAATGTAAAAAAATTC
* ********** * * * **
21591 AATTTAAAATCAATTANNNNNNNNNNAAATCATTTAAAGAGAGTAATAAGGCTTTTGAAGGCGTG
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTGAAAGATTG
* * * * * * * * * *
21656 AGTGACTATAATTGGACTTTTCTTACCTATGAAT-GGCTTTTTC-TCATG-TTTCCTGAGGCAGA
65 AGTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTCC-AAGACAGA
* * * * ********** *
21718 CATTAAATTATAATCTGTTTTAGCCAAAAATATAAAAAAAATT-AACTTNNNNNNNNNNATAAGA
129 CATTCAATTATAATATATTTTA-ACAAAAATAT-AAAAAAATTCAACTTAAAATCAATTATGAGA
* ** * ** * ** *
21782 TTATAAAATCATTTAAAGTGAGTAATAA-GCTTTTTGAAGAAATGGAT-AGCCGTAAATATACTT
192 TTATAAAACCATTTAAAGCAAGTAATAAGGC-TTTCGAAGGCATGGGTGA-CTATAAATAAAC--
* * * * * * * ** * *
21845 TTTTTA-TCCATGAATGGTTTTTTCTTCATGTTTTTTGA-GACAAACATTCAATTACAATCT-TC
253 TTTTCAGTCAATGAATAGCTTTTTCTTTACGTTTCTCAAGGA-AGACATTCAATTATAATCTGT-
* * *
21907 TTTAATC-AAAACTATAAACAAATTC
316 TTTAA-CAAAAAATGTAAAAAAATTC
* ********** * * * * **
21932 ATCTTAAAATCAATTATGAGATTNNNNNNNNNNTTAAAGTGGGTAATAAAGCTTTTGAAGGAACG
1 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTGAAAGATTG
* * * *
21997 AGTGACTATAAATAGACTTTTCTTACCAGT-GATAGCCTTTTCCTTCACATTTCTCAAAGTA-A-
65 AGTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTT-TCCAAG-ACAG
* * * *
22059 ACATTCAATTGTAAT-T-TGTTTAACCAAAAATACAAAGAAATTTAACTTAAAATCAATTATGAG
128 ACATTCAATTATAATATAT-TTTAA-CAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAG
* * * * * ** **
22122 ATTATAAAACCTTTTCAAGCGAGTAGTAACGCTTTCGAAGGCATGATTGACTATAAATGGACTTT
191 ATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAACTTT
* * * * * * * * *
22187 TCTTGCCAATGATTGGCTTTTTCTTCACGTTTCTCATGG-TGAACATTCAATTATAATCTGTCTA
256 TC-AGTCAATGAATAGCTTTTTCTTTACGTTTCTCAAGGAAG-ACATTCAATTATAATCTGTTTT
** *
22251 AATTAAAAATATAAAAAAATTC
319 AACAAAAAATGTAAAAAAATTC
22273 AAC
1 AAC
22276 CTNNNNNNNN
Statistics
Matches: 2079, Mismatches: 554, Indels: 196
0.73 0.20 0.07
Matches are distributed among these distances:
335 2 0.00
336 129 0.06
337 38 0.02
338 6 0.00
339 44 0.02
340 219 0.11
341 815 0.39
342 691 0.33
343 124 0.06
344 11 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.34
Consensus pattern (340 bp):
AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTGAAAGATTGA
GTGACTATAAATAGACTTTTCTTGCCAATGGATAGCCTTTTCCTTCACGTTTTCCAAGACAGACA
TTCAATTATAATATATTTTAACAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
AAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATAAACTTTTCAGT
CAATGAATAGCTTTTTCTTTACGTTTCTCAAGGAAGACATTCAATTATAATCTGTTTTAACAAAA
AATGTAAAAAAATTC
Found at i:20385 original size:513 final size:505
Alignment explanation
Indices: 19206--20987 Score: 1297
Period size: 513 Copynumber: 3.5 Consensus size: 505
19196 TTTTTAAAGT
* * * * * * * *
19206 AACTTAAAATCAATTATAAGCTTATAAAACCATTTGAAGTGAGTAATAAGGCTATTGAAGGAATA
1 AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGCGAGTAATAAGGTTTTTGAA-G--TC
* * * * * * *
19271 T-GTGACTATAAATAGATTTTTCTTG-CTAATG-ATAGCCTTTTCCTTCACGTTTCACGA-GCTA
63 TGGCGACTATAAATAGACTTTTCTTGTC-AATGAAT-GGCTTTTTCTTCAAGTTTCTCAACGC-A
* * * * *
19332 GACATTCAGTTATAATCTGTTTCAACAAAAAATATATAAAA-ATTCAACTTAAAATCAATTATGA
125 GACATTGAATAATAATATGTTTTAAC-AAAAATATA-AAAATATTCAACTTAAAATCAATTATGA
* * * * *
19396 GATTATAAAGCCATTT-A--AAG---CAAGCCTTATACAAAGGCATGGGTGACTATAAATAAACT
188 GATTATAAAACCATTTAAGCAAGTAATAAGGCTT-T-CAAA-GCTTGAGTGACTATAAATAAACT
* * ** * * *
19455 TTTCTAGT-CAAT-GAAT-AGCTTTTTCTGT-AAGTTTCTC-GACG-CAGACATTTAATCATATT
250 TTTC-ACTCCAATAG-ATGA-CTTTTGCT-TCACTTTTC-CAGA-GACAGACATTCAATTATAAT
* * * ** ** * * * *
19514 CTGTTTTGACCAAAAATGTAAAAAAATTTAACCTAAAATCAATTATGAGATCATAAAACATTTAA
309 ATATTTTAATAAAAAATACAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACATTTAA
* * * * * * *
19579 AGAGAGTAATAAGGCTTTTGAAGGTATGAGTGACTACGATTAGAGTTTTCTTACT-AGTGA-ATG
374 AGAGAGTAATAAGGCTTTTGAAGGAATGGGTGACTACAAATAGACTTTT-TCAGTCAGTGATA-G
* * * *
19642 ATTTTTCCTTTACGTTTTTTGA-GATAAACACTTAATTATAA-CTTATTTTAACCAAAAATGTTA
437 CTTTTT-CTTTACGTTTTTTAAGGA-AAACATTTAATTATAATC-TATTTTAA-CAAAAATGTAA
*
19705 AAAAACTC
498 AAAAATTC
* * * *
19713 AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGTGAGTAATAAGGCTTCTGAAGTAATG
1 AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGCGAGTAATAAGGTTTTTGAAGT-CT-
* * * * * * *
19778 GGCAACTATAAATAGACTCTTCTTGTCAATGAATAGCTTTTTTTTTAAATTTC-CTATCGCAGAC
64 GGCGACTATAAATAGACTTTTCTTGTCAATGAATGGCTTTTTCTTCAAGTTTCTC-AACGCAGAC
* * *
19842 ATTCAATGATAA-ACTGTTTGAACAAAAAATATAAAAATATTCAACTTAAAATCAATTATGAGAT
128 ATTGAATAATAATA-TGTTTTAAC-AAAAATATAAAAATATTCAACTTAAAATCAATTATGAGAT
**
19906 TATAAAACCATTTAAGCAAGTAATAAGGCTTTCAAAAGCTTGAGTGACTATAAATGGACTTTTC-
191 TATAAAACCATTTAAGCAAGTAATAAGGCTTTC-AAAGCTTGAGTGACTATAAATAAACTTTTCA
* * * *
19970 GTGCCAATGGAT-AGCTTTTGGTTCATGTTTTCCA-AGACAGACATTCAATTATAATATATTTTA
255 CT-CCAATAGATGA-CTTTTGCTTCA-CTTTTCCAGAGACAGACATTCAATTATAATATATTTTA
* * * *
20033 ATCAAAATTACAAAACAAAATCAACTTAAAATCATTTATGAGATTATAAAACCATTTAAAGCGAG
317 ATAAAAAATACAAAA-AAAATCAACTTAAAATCAATTATGAGATTATAAAA-CATTTAAAGAGAG
** * ** *
20098 TAATAAGGCTTTCCAAGGCATGGGTGACTTTAAATAAACTTTTTCAGTCAGTGAGTAGCTTTTTC
380 TAATAAGGCTTTTGAAGGAATGGGTGACTACAAATAGACTTTTTCAGTCAGTGA-TAGCTTTTTC
* * * *
20163 TTTACGTTTCTTAAGGAAAACATTTAATTATAATCTGTTTAAATAAAAAATGTAAAAAAATTC
444 TTTACGTTTTTTAAGGAAAACATTTAATTATAATCTATTTTAA-CAAAAATGTAAAAAAATTC
* * * *
20226 AACCTAAAATCAATTATGAGATTATCAAACCACTTAAAGCGAGTAATAAGGTTTTTGAAAGTCTG
1 AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGCGAGTAATAAGGTTTTTG-AAGTCTG
* * * * *
20291 AGTGACTATAAA-AGGACTTTTGTTGTCAATGAATGGCTTTTACTTCATGTTTCTCGA-GACAGA
65 -GCGACTATAAATA-GACTTTTCTTGTCAATGAATGGCTTTTTCTTCAAGTTTCTCAACG-CAGA
* * * * **********
20354 CAATGAATTATAATATGTTTTAATCAAAAATATAAAAAAATTAAACTTAAAATNNNNNNNNNNAT
127 CATTGAATAATAATATGTTTTAA-CAAAAATATAAAAATATTCAACTTAAAATCAATTATGAGAT
* ** * * * *
20419 TATAAAACTATTTAAAAAAAGTAATAATGCTTTCGAAGGTATGAGTAACTATAAATAAACTTTTC
191 TATAAAACCATTT-AAGCAAGTAATAAGGCTTTCAAAGCT-TGAGTGACTATAAATAAACTTTTC
* * *
20484 ACTCTAATAGATGACTTTTGCTTCACTTTTCCAGAGATAGACATTCAATTATAATCTATTTTAAT
254 ACTCCAATAGATGACTTTTGCTTCACTTTTCCAGAGACAGACATTCAATTATAATATATTTTAAT
** * * * * * * *
20549 AAAAAATGTAAAAGAATTCAACTTAAAGTTAACTATGAGATTACAAAATCATTTAAAGTGAGTAA
319 AAAAAATACAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAA-CATTTAAAGAGAGTAA
* * * * * * * *
20614 TAAGGCTTTTGACGGAATAGGTGACTAGAAATAGAC-TTTTCTTGCCAATGATAGCCTTCTCCTT
383 TAAGGCTTTTGAAGGAATGGGTGACTACAAATAGACTTTTTC-AGTCAGTGATAG-CTTTTTCTT
* * * * * * * *
20678 CAAGTTTTTTAAGGTAGACATTCAATTATAATTTATTTTAACAAAAATATAAAGAAATTC
446 TACGTTTTTTAAGGAAAACATTTAATTATAATCTATTTTAACAAAAATGTAAAAAAATTC
********** ** * *
20738 AACTTAAAATCAANNNNNNNNNNATAAAATTATTTAAAGCAAGTAATAAGGCTTTTT-AAGGCAT
1 AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGCGAGTAATAAGG-TTTTTGAAGTC-T
* * * *
20802 GGACGACTATAAATAGACTTTTCTAGTCAATGAATGACTTTTTCTTCACGTTTCTCAAGGTCA-A
64 GG-CGACTATAAATAGACTTTTCTTGTCAATGAATGGCTTTTTCTTCAAGTTTCTCAACG-CAGA
* * *
20866 CATTGAATAATAATCTATTTTAACCAAAAATA-AAAAATTATTCAACTTAAAATCAATTTTGAGA
127 CATTGAATAATAATATGTTTTAA-CAAAAATATAAAAA-TATTCAACTTAAAATCAATTATGAGA
* * * * *
20930 TTATAAAGCCAGTTAAAGCGAGTAATAAGGCTTTCGAAGGCTTAAGTGACTATAAATA
190 TTATAAAACCA-TTTAAGCAAGTAATAAGGCTTTC-AAAGCTTGAGTGACTATAAATA
20988 NNNNNNNNNN
Statistics
Matches: 1007, Mismatches: 216, Indels: 99
0.76 0.16 0.07
Matches are distributed among these distances:
504 1 0.00
505 2 0.00
506 6 0.01
507 159 0.16
508 6 0.01
509 2 0.00
510 5 0.00
511 82 0.08
512 233 0.23
513 399 0.40
514 109 0.11
515 3 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (505 bp):
AACTTAAAATCAATTATGAGATAATAAAACCATTTAAAGCGAGTAATAAGGTTTTTGAAGTCTGG
CGACTATAAATAGACTTTTCTTGTCAATGAATGGCTTTTTCTTCAAGTTTCTCAACGCAGACATT
GAATAATAATATGTTTTAACAAAAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAA
AACCATTTAAGCAAGTAATAAGGCTTTCAAAGCTTGAGTGACTATAAATAAACTTTTCACTCCAA
TAGATGACTTTTGCTTCACTTTTCCAGAGACAGACATTCAATTATAATATATTTTAATAAAAAAT
ACAAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACATTTAAAGAGAGTAATAAGGCTT
TTGAAGGAATGGGTGACTACAAATAGACTTTTTCAGTCAGTGATAGCTTTTTCTTTACGTTTTTT
AAGGAAAACATTTAATTATAATCTATTTTAACAAAAATGTAAAAAAATTC
Found at i:21470 original size:170 final size:170
Alignment explanation
Indices: 19429--22452 Score: 1635
Period size: 171 Copynumber: 17.7 Consensus size: 170
19419 GCCTTATACA
* * * * *
19429 AAGGCATGGGTGACTATAAATAAACTTTTC-TAGTCAATGAATAGCTTTTTCTGT-AAGTTTCTC
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTA-CCAATGAATGGCTTTTTCT-TCACGTTTCTC
* * * * * * ** * * *
19492 GACGCAGACATTTAATCATATTCTGTTTTGACCAAAAATGTAAAAAAATTTAACCTAAAATCAAT
64 AAGGTAGACATTCAATTATAATCTGTTTT-AATAAAAATATAAAAAAATTCAACTTAAAATCAAT
* *
19557 TATGAGATCATAAAA-CATTTAAAGAGAGTAATAAGGCTTTTG
128 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* ** * * * * * * * **
19599 AAGGTATGAGTGACTACGATTAGAGTTTTCTTACTAGTGAAT-GATTTTTCCTTTACGTTTTTTG
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTT-CTTCACGTTTCTCA
* * * * * * *
19663 AGATAAACACTT-AATTATAA-CTTATTTTAACCAAAAATGTTAAAAAACTCAACTTAAAATCAA
65 AGGTAGACA-TTCAATTATAATC-TGTTTTAA-TAAAAATATAAAAAAATTCAACTTAAAATCAA
* * *
19726 TTATGAGATAATAAAACCATTTAAAGTGAGTAATAAGGCTTCTG
127 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
** * ** * ** * * * **
19770 AAGTAATGGGCAACTATAAATAGACTCTTCTTGTCAATGAATAGCTTTTTTTTTAAATTTC-CTA
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTC-A
** * * * * * *
19834 TCGCAGACATTCAATGATAAACTGTTTGAACAAAAAATATAAAAATATTCAACTTAAAATCAATT
65 AGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAATATAAAAAAATTCAACTTAAAATCAATT
* **
19899 ATGAGATTATAAAACCATTT-AAGCAAGTAATAAGGCTTTCA
129 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * * * ** *
19940 AAAGCTTGAGTGACTATAAATGGACTTTTCGTGCCAATGGATAGCTTTTGGTTCATGTTT-TCCA
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCT-CA
** * * * * * *
20004 AGACAGACATTCAATTATAATATATTTTAATCAAAATTACAAAACAAAATCAACTTAAAATCATT
65 AGGTAGACATTCAATTATAATCTGTTTTAAT-AAAAATATAAAA-AAATTCAACTTAAAATCAAT
**
20069 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCC
128 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * * * * * *
20112 AAGGCATGGGTGACTTTAAATAAACTTTT-TCAGTCAGTGAGTAGCTTTTTCTTTACGTTTCTTA
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTA-CCAATGAATGGCTTTTTCTTCACGTTTCTCA
* * * * * *
20176 AGGAAAACATTTAATTATAATCTGTTTAAATAAAAAATGTAAAAAAATTCAACCTAAAATCAATT
65 AGGTAGACATTCAATTATAATCTGTTTTAAT-AAAAATATAAAAAAATTCAACTTAAAATCAATT
* * *
20241 ATGAGATTATCAAACCACTTAAAGCGAGTAATAAGGTTTTTG
129 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * ** * *
20283 AAAGTC-TGAGTGACTATAAA-AGGACTTTTGTTGTCAATGAATGGCTTTTACTTCATGTTTCTC
1 -AAGGCATGAGTGACTATAAATA-GACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTC
* ** * * * * ****
20346 GAGACAGACAATGAATTATAATATGTTTTAATCAAAAATATAAAAAAATTAAACTTAAAATNNNN
64 AAGGTAGACATTCAATTATAATCTGTTTTAAT-AAAAATATAAAAAAATTCAACTTAAAATCAAT
****** * *** * *
20411 NNNNNNATTATAAAACTATTTAAAAAAAGTAATAATGCTTTCG
128 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * *
20454 AAGGTATGAGTAACTATAAATAAACTTTTC--ACTCTAAT-AGATGACTTTTGCTTCACTTTTC-
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTAC-C-AATGA-ATGGCTTTTTCTTCACGTTTCT
* * * * * *
20515 CAGAGATAGACATTCAATTATAATCTATTTTAATAAAAAATGTAAAAGAATTCAACTTAAAGTTA
63 CA-AGGTAGACATTCAATTATAATCTGTTTTAAT-AAAAATATAAAAAAATTCAACTTAAAATCA
* * * *
20580 ACTATGAGATTACAAAATCATTTAAAGTGAGTAATAAGGCTTTTG
126 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * * * * * *
20625 ACGGAAT-AGGTGACTAGAAATAGACTTTTCTTGCCAATG-ATAGCCTTCTCCTTCAAGTTTTTT
1 AAGGCATGA-GTGACTATAAATAGACTTTTCTTACCAATGAAT-GGCTTTTTCTTCACGTTTCTC
* * * * **
20688 AAGGTAGACATTCAATTATAATTTATTTTAACAAAAATATAAAGAAATTCAACTTAAAATCAANN
64 AAGGTAGACATTCAATTATAATCTGTTTTAATAAAAATATAAAAAAATTCAACTTAAAATCAATT
******** ** * *
20753 NNNNNNNNATAAAATTATTTAAAGCAAGTAATAAGGCTTTTT
129 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * *
20795 AAGGCATG-GACGACTATAAATAGACTTTTC-TAGTCAATGAATGACTTTTTCTTCACGTTTCTC
1 AAGGCATGAG-TGACTATAAATAGACTTTTCTTA-CCAATGAATGGCTTTTTCTTCACGTTTCTC
* * * * *
20858 AAGGTCA-ACATTGAATAATAATCTATTTTAACCAAAAATA-AAAAATTATTCAACTTAAAATCA
64 AAGGT-AGACATTCAATTATAATCTGTTTTAA-TAAAAATATAAAAA-AATTCAACTTAAAATCA
* * * *
20921 ATTTTGAGATTATAAAGCCAGTTAAAGCGAGTAATAAGGCTTTCG
126 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * *********** * *
20966 AAGGCTTAAGTGACTATAAATANNNNNNNNNNGCCAATGGATGGCTTTTGCTTCACGTTTCCTC-
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTT-CTCA
* * * * * ** *
21030 AGGTAAACCTTCAATGATAATATATTTTAATCAAAAACGTAAAAAAATTCAACTTAAAATCAATN
65 AGGTAGACATTCAATTATAATCTGTTTTAAT-AAAAATATAAAAAAATTCAACTTAAAATCAATT
********* * *
21095 NNNNNNNNNTAAAGCCATTTAAAGTGAGTAATAAGG-TTTTCG
129 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT-G
* * * * * * * * * * ** * *
21137 AAAGCTTGGGTGACTATAAATGGACTTCTCTGAACTATGATTGACTTTTTC-TCATATTTGTAAA
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTCAA
* * ** *
21201 GGTAGACATTTAATTACAATCTGTTTTAACCGAAAATGTAAAAAAAATTCAACTTAAAATCAATT
66 GGTAGACATTCAATTATAATCTGTTTTAA-TAAAAATAT-AAAAAAATTCAACTTAAAATCAATT
**********
21266 ATGAGATTATAAAACCATNNNNNNNNNNTAATAAGGCTTTTG
129 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * *
21308 AAAGAATGAGTGACTATAAATGGACTTTTTTTACCAATGAATGGCTTTTTCTTCACGTTTCCCAA
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTCAA
* * * * * *
21373 GGTAGACATCCAATTATAATCTGTTATATTGAAAAGATAAACAAATTCAACTTAAAATCAATTAT
66 GGTAGACATTCAATTATAATCTGTTTTAATAAAAATATAAAAAAATTCAACTTAAAATCAATTAT
* * *
21438 GATG-TTATAAAATCATTTAAAGTGAGTAATAAGGTTTTTG
131 GA-GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
** ** * ********** * *
21478 AAGATATGAGCAACTATAAATAGACTTTTCTTGCNNNNNNNNNNCTTTTTCTTTAGGTTTCTCAA
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTCAA
* * * * *
21543 GGCAGACATTCAATCATAATCTATTTTAATAAAAATATAAAAAAATTCAATTTAAAATCAATTAN
66 GGTAGACATTCAATTATAATCTGTTTTAATAAAAATATAAAAAAATTCAACTTAAAATCAATTAT
********* * *
21608 NNNNNNNNNAAATCATTTAAAGAGAGTAATAAGGCTTTTG
131 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * *
21648 AAGGCGTGAGTGACTATAATTGGACTTTTCTTACCTATGAATGGCTTTTTC-TCATGTTTC-CTG
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTC-A
* * ** *********
21711 AGGCAGACATTAAATTATAATCTGTTTTAGCCAAAAATATAAAAAAAATT-AACTTNNNNNNNNN
65 AGGTAGACATTCAATTATAATCTGTTTTA-ATAAAAATAT-AAAAAAATTCAACTTAAAATCAAT
* * * *
21775 NATAAGATTATAAAATCATTTAAAGTGAGTAATAA-GCTTTTTG
128 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTTG
** ** * * * * *
21818 AAGAAATG-GAT-AGCCGTAAATATACTTTTTTTATCC-ATGAATGGTTTTTTCTTCATGTTTTT
1 AAGGCATGAG-TGA-CTATAAATAGACTTTTCTTA-CCAATGAATGGCTTTTTCTTCACGTTTCT
** ** * * * * *
21880 TGAGACAAACATTCAATTACAATCT-TCTTTAATCAAAACTATAAACAAATTCATCTTAAAATCA
63 CAAGGTAGACATTCAATTATAATCTGT-TTTAAT-AAAAATATAAAAAAATTCAACTTAAAATCA
********** * * *
21944 ATTATGAGATTNNNNNNNNNNTTAAAGTGGGTAATAAAGCTTTTG
126 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * *
21989 AAGGAACGAGTGACTATAAATAGACTTTTCTTACCAGTG-ATAGCCTTTTCCTTCACATTTCTCA
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAAT-GGCTTTTTCTTCACGTTTCTCA
* * * * * * * *
22053 AAGTAAACATTCAATTGTAATTTG-TTTAACCAAAAATACAAAGAAATTTAACTTAAAATCAATT
65 AGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAATATAAAAAAATTCAACTTAAAATCAATT
* * * * *
22117 ATGAGATTATAAAACCTTTTCAAGCGAGTAGTAACGCTTTCG
129 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * *
22159 AAGGCATGATTGACTATAAATGGACTTTTCTTGCCAATGATTGGCTTTTTCTTCACGTTTCTCAT
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTCAA
* * * **********
22224 GGT-GAACATTCAATTATAATCTGTCTAAATTAAAAATATAAAAAAATTCAACCTNNNNNNNNNN
66 GGTAG-ACATTCAATTATAATCTGTTTTAA-TAAAAATATAAAAAAATTCAACTTAAAATCAATT
* * *
22288 ATGAGACTATAAAACCATTTAAAACGAGTAATAAGGCTTTCG
129 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * * * * * * ** * *
22330 AGGGCTTGGGTGACTGTAAATGGAATTTTTTTTTCAATGAATGACTATTTT-TTCATGTTT-TCC
1 AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCT-TTTTCTTCACGTTTCT-C
* * * * * *
22393 AAGGCAAACATGCAATTATAATCTGTTTAAACTAAAAATGTAAAAAAATTCAACCTAAAA
64 AAGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAATATAAAAAAATTCAACTTAAAA
22453 NNNNNNNNNN
Statistics
Matches: 2114, Mismatches: 661, Indels: 157
0.72 0.23 0.05
Matches are distributed among these distances:
168 1 0.00
169 49 0.02
170 797 0.38
171 1102 0.52
172 163 0.08
173 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.34
Consensus pattern (170 bp):
AAGGCATGAGTGACTATAAATAGACTTTTCTTACCAATGAATGGCTTTTTCTTCACGTTTCTCAA
GGTAGACATTCAATTATAATCTGTTTTAATAAAAATATAAAAAAATTCAACTTAAAATCAATTAT
GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
Found at i:24996 original size:168 final size:170
Alignment explanation
Indices: 24687--25018 Score: 420
Period size: 168 Copynumber: 2.0 Consensus size: 170
24677 NNNNNNNNNN
* * *
24687 GAGATTATAAAACCATTTAAAATGAGTAATAATGCTTTCGAAGGCATGAGTGATAATAAATCAAC
1 GAGATTATAAAACCATTTAAAACGAGTAATAATACTTTCAAAGGCATGAGTGATAATAAATCAAC
* * * *** *
24752 TTTTTTCTCCAATGGATGGCTCCTGTTTCACGTTTCCCGAGGTAGGTATTTAATTACAATATATT
66 TTTTCTCTCCAATGGATGGCTCCTGTTTCACGTTTCCAGAGATAAACATTCAATTACAATATATT
* *
24817 TTAATCAAAAATAT-AAAAAATTTAACTTAAAATCAATAT
131 TTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATAT
** *
24856 GAGATTATAAAACCATTTAAGGCGAGTAATAATACTTT-AAAGGCATGAGTGACT-ATAAATGAA
1 GAGATTATAAAACCATTTAAAACGAGTAATAATACTTTCAAAGGCATGAGTGA-TAATAAATCAA
* * * * * *
24919 CTTTTCTCTCCAATGGATGGCT-TTCGTTTCATGTTTCTAGAGATAAACATTCAATTATAATCTG
65 CTTTTCTCTCCAATGGATGGCTCCT-GTTTCACGTTTCCAGAGATAAACATTCAATTACAATATA
*
24983 TTTTAACCAAAAATTTAAAAAAATTCAACTTAAAAT
129 TTTTAACCAAAAATATAAAAAAATTCAACTTAAAAT
25019 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
167 1 0.01
168 84 0.61
169 53 0.38
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
GAGATTATAAAACCATTTAAAACGAGTAATAATACTTTCAAAGGCATGAGTGATAATAAATCAAC
TTTTCTCTCCAATGGATGGCTCCTGTTTCACGTTTCCAGAGATAAACATTCAATTACAATATATT
TTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATAT
Found at i:25488 original size:171 final size:170
Alignment explanation
Indices: 25119--25509 Score: 448
Period size: 170 Copynumber: 2.3 Consensus size: 170
25109 NNNNNNNNNN
* * **
25119 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAGAACCATTTAAAGTGAGTGATAAAGTTTT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGTTAG
** * * *
25184 TAAAGGAATAGGTAACGATAAATGGACTTTCTTGTTAGTGAATGTCTTTTTCTTCATGTTTTTCA
66 TAAAGGAATAGGTAACGATAAATGGACTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTTCCA
* * * * *
25249 AGGCAGATATTTAATTATAATGTGTTTTAACTAAAAATAT
131 AGGCAGACATTCAATTACAATGTGTTCTAACTAAAAAAAT
* * * * *
25289 AAAAAAATTGAACTTAAAGTCAATTATGATATTATAAAACCATTTAAAGTGAGTAATGAGGTTAG
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGTTAG
** *
25354 TAAAGGAAT-GAGTGGCTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATG-TTTC
66 TAAAGGAATAG-GTAACGATAAATGGAC-TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTTC
* * * *
25417 CGGAGGTAGACATTCAATTACAATTTGTTCTGA-TAAAAAAAGTT
129 C-AAGGCAGACATTCAATTACAATGTGTTCTAACTAAAAAAA--T
* **
25461 AAAAAAATT-AACTTAAAATTAATTATGAGATTATAAAATAATTTAAAGT
1 AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT
25510 AAGNNNNNNN
Statistics
Matches: 185, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
169 1 0.01
170 89 0.48
171 85 0.46
172 10 0.05
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.36
Consensus pattern (170 bp):
AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAAGTTAG
TAAAGGAATAGGTAACGATAAATGGACTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTTCCA
AGGCAGACATTCAATTACAATGTGTTCTAACTAAAAAAAT
Found at i:25990 original size:170 final size:171
Alignment explanation
Indices: 25708--26513 Score: 468
Period size: 170 Copynumber: 4.7 Consensus size: 171
25698 TGCGTGACTA
* * * ** *
25708 TAAATGAACTTTTCTAGTCAATGAATAGCTTTTTCTTCATGTTTTTCAAGGTAGACATTCAATCA
1 TAAATGAACTTTCCTAGTCAATGAATAGCTTTTTCTTCATATTTCTCAAGACAAACATTCAATCA
* * * *
25773 AAATCTATTTTAGCAAAAAATGGAAACAAATTCAACGTAAAATCAATTATG-GTATTATAAAACC
66 AAATCTATTTTAACAAAAAATAGAAAAAAATTCAACCTAAAATCAATTATGAG-ATTATAAAACC
25837 ATTTAAAGCGAGTAATAAAGCTTTCAAAGCCATGGGTAACTG
130 ATTTAAAGCGAGTAATAAAGCTTTCAAAGCCATGGGTAACTG
* * * * *
25879 TAAATGTACTTTCCTAGTCAATGAATGGCTTTTT-TTTATATTTCTCAAGACAAACATTTAATTA
1 TAAATGAACTTTCCTAGTCAATGAATAGCTTTTTCTTCATATTTCTCAAGACAAACATTCAATCA
* * * * *
25943 TAATCTATTTTAATAAAAAATATAAAAAAATTCTACCTAAAATCAATTATGAGATTATAAAACTA
66 AAATCTATTTTAACAAAAAATAGAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCA
*********** ** ** * *
26008 TTTAAAGNNNNNNNNNNGGCTTTTGAAGGGATGGGTTACTA
131 TTTAAAGCGAGTAATAAAGCTTTCAAAGCCATGGGTAACTG
* * ** * ** * * *
26049 TAAATGGACTTTTCTTTTCAATGAAT-GCCTTATT-TTCACGTTTATCAAGGCAAACATTCAATT
1 TAAATGAACTTTCCTAGTCAATGAATAG-CTTTTTCTTCATATTTCTCAAGACAAACATTCAATC
* * ********** *
26112 ATAATCTATTTTAACCAAAAAT-GTAAAAAAATTNNNNNNNNNNTCAATTGTGAGATTATAAAAC
65 AAAATCTATTTTAACAAAAAATAG-AAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAAC
* * * ** *
26176 CATTTAAAGTGAGTAATAAGGCTTTCGAAAG-TATGGGTGGCTA
129 CATTTAAAGCGAGTAATAAAGCTTTC-AAAGCCATGGGTAACTG
* ** * ** *
26219 TAAATGGACTTTTTTAGTCAATGAATGGCTTTTTCTTCA-AGTTTC-CTAAGGTAGACATTCAAT
1 TAAATGAACTTTCCTAGTCAATGAATAGCTTTTTCTTCATA-TTTCTC-AAGACAAACATTCAAT
* * * * * * *
26282 CATAATATGTTTTAACTAAAAAT-GTAAAAAAAATTTAACCTAAAATCGATTATAAGATTATAAA
64 CAAAATCTATTTTAACAAAAAATAG--AAAAAAATTCAACCTAAAATCAATTATGAGATTATAAA
* *** * ** * * * *
26346 ATCATTTAAAATTAGTAATAAGGCTTT-AAAGAAATAGATGACTA
127 ACCATTTAAAGCGAGTAATAAAGCTTTCAAAGCCATGGGTAACTG
* * * * * * * *
26390 TAAATGAACTTTTCTTGCCAATAAAT-GACTTTTTCTTCCTGTTTC-CTGAGGCAAACATTCAAT
1 TAAATGAACTTTCCTAGTCAATGAATAG-CTTTTTCTTCATATTTCTC-AAGACAAACATTCAAT
* * * * ** *
26453 TATAATCTATTTTAACTACAAAT-GTAAAAAAGCTCAACTTAAAATCAATTATGAGATTATA
64 CAAAATCTATTTTAACAAAAAATAG-AAAAAAATTCAACCTAAAATCAATTATGAGATTATA
26514 NNNNNNNNNN
Statistics
Matches: 491, Mismatches: 132, Indels: 25
0.76 0.20 0.04
Matches are distributed among these distances:
169 1 0.00
170 286 0.58
171 155 0.32
172 49 0.10
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.35
Consensus pattern (171 bp):
TAAATGAACTTTCCTAGTCAATGAATAGCTTTTTCTTCATATTTCTCAAGACAAACATTCAATCA
AAATCTATTTTAACAAAAAATAGAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCA
TTTAAAGCGAGTAATAAAGCTTTCAAAGCCATGGGTAACTG
Found at i:26510 original size:342 final size:339
Alignment explanation
Indices: 25668--26847 Score: 865
Period size: 342 Copynumber: 3.5 Consensus size: 339
25658 NNNNNNNNNN
* * *
25668 TTAAAGTGAGTAATAAGGCTTTTTAAGGAATGCGTGACTATAAATGAACTTTTCTAGTCAATGAA
1 TTAAAATGAGTAATAAGGCTTTTAAAGGAATG-GTGACTATAAATGAACTTTTCTTGTCAATGAA
* * * * * * * *
25733 T-AGCTTTTTCTTCATGTTTTTCAAGGTAGACATTCAATCAAAATCTATTTTAGCAAAAAATGGA
65 TGA-CTTTTTCTTCCTGTTTATCAAGGCAAACATTCAATTATAATCTATTTTAACAAAAAATGTA
* *
25797 AACAAATTCAACGTAAAATCAATTATG-GTATTATAAAACCATTTAAAGCGAGTAATAAAGCTTT
129 AA-AAATTCAACGTAAAATCAATTATGAG-ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT
* ** * * **
25861 C-AAAGCCATGGGTAACTGTAAATGTACTTTCCTAGTCAATGAATGGCTTTTT-TTTATA-TTT-
192 CGAAAG-AATGGGTGGCTATAAATGGACTTTTTTAGTCAATGAATGGCTTTTTCTTTA-AGTTTC
** * * * *
25922 CTCAAGACAAACATTTAATTATAATCTATTTTAA-TAAAAAATATAAAAAAATTCT-ACCTAAAA
255 CT-AAGGTAGACATTCAATTATAATATGTTTTAACTAAAAAATA-AAAAAAATT-TAACCTAAAA
25985 TCAATTATGAGATTATAAAACTAT
317 TCAATTATGAGATTATAAAAC-AT
*********** * * * * *
26009 TTAAAGNNNNNNNNNNGGCTTTTGAAGGGATGGGTTACTATAAATGGACTTTTCTTTTCAATGAA
1 TTAAAATGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTATAAATGAACTTTTCTTGTCAATGAA
* * *
26074 TGCCTTATT-TTCAC-GTTTATCAAGGCAAACATTCAATTATAATCTATTTTAACCAAAAATGTA
65 TGACTTTTTCTTC-CTGTTTATCAAGGCAAACATTCAATTATAATCTATTTTAACAAAAAATGT-
********** *
26137 AAAAAATTNNNNNNNNNNTCAATTGTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTC
128 AAAAAATTCAACGTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTC
* *
26202 GAAAGTATGGGTGGCTATAAATGGACTTTTTTAGTCAATGAATGGCTTTTTCTTCAAGTTTCCTA
193 GAAAGAATGGGTGGCTATAAATGGACTTTTTTAGTCAATGAATGGCTTTTTCTTTAAGTTTCCTA
* * *
26267 AGGTAGACATTCAATCATAATATGTTTTAACTAAAAATGTAAAAAAAATTTAACCTAAAATCGAT
258 AGGTAGACATTCAATTATAATATGTTTTAACTAAAAA-ATAAAAAAAATTTAACCTAAAATCAAT
*
26332 TATAAGATTATAAAATCAT
322 TATGAGATTATAAAA-CAT
* * * * *
26351 TTAAAATTAGTAATAAGGC-TTTAAAGAAATAGATGACTATAAATGAACTTTTCTTGCCAATAAA
1 TTAAAATGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTATAAATGAACTTTTCTTGTCAATGAA
* * * *
26415 TGACTTTTTCTTCCTGTTT-CCTGAGGCAAACATTCAATTATAATCTATTTTAACTACAAATGTA
65 TGACTTTTTCTTCCTGTTTATC-AAGGCAAACATTCAATTATAATCTATTTTAACAAAAAATGTA
* * ********** *
26479 AAAAAGCTCAACTTAAAATCAATTATGAGATTATANNNNNNNNNNAAGTGAGTAATAAGGCTTTT
129 AAAAA-TTCAACGTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTC
* * * * * * * *
26544 GTAGGAATGTGTGAG-TATAAATAGATTCTTTTTA-TCAATGGATGG-ATTTTCTTTTATGTTTC
193 GAAAGAATGGGTG-GCTATAAATGGACT-TTTTTAGTCAATGAATGGCTTTTTC-TTTAAGTTTC
* * * ** * ** *
26606 CTAAGGTAGACATTCAATTATAATATGTTTTATCCAAAACACTAAAAAGTATTCAAATTAAAATT
255 CTAAGGTAGACATTCAATTATAATATGTTTTAACTAAAA-AATAAAAAAAATTTAACCTAAAATC
26671 AATTATGAGATTATAAAACCAT
319 AATTATGAGATTATAAAA-CAT
* * ** ** * *
26693 TTAAAATGAGCAACAAGGCTTTCGAAGGCTTGAGTGACTATAAATCG-CCTTTT-TATGCCAATG
1 TTAAAATGAGTAATAAGGCTTTTAAAGGAATG-GTGACTATAAAT-GAACTTTTCT-TGTCAATG
* * * * *
26756 GATGGA-TTTTGT-TTAAC-GTTT-TCCAAGGCAAACAATCAATTATAATATATTTTAATC-AAG
63 AAT-GACTTTT-TCTT-CCTGTTTAT-CAAGGCAAACATTCAATTATAATCTATTTTAA-CAAAA
* * *
26816 ATTGCAAAAACATTCAACTTAAAATCAATTAT
123 AATGTAAAAA-ATTCAACGTAAAATCAATTAT
26848 NNNNNNNNNN
Statistics
Matches: 655, Mismatches: 153, Indels: 60
0.75 0.18 0.07
Matches are distributed among these distances:
340 130 0.20
341 147 0.22
342 262 0.40
343 108 0.16
344 8 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.35
Consensus pattern (339 bp):
TTAAAATGAGTAATAAGGCTTTTAAAGGAATGGTGACTATAAATGAACTTTTCTTGTCAATGAAT
GACTTTTTCTTCCTGTTTATCAAGGCAAACATTCAATTATAATCTATTTTAACAAAAAATGTAAA
AAATTCAACGTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAA
AGAATGGGTGGCTATAAATGGACTTTTTTAGTCAATGAATGGCTTTTTCTTTAAGTTTCCTAAGG
TAGACATTCAATTATAATATGTTTTAACTAAAAAATAAAAAAAATTTAACCTAAAATCAATTATG
AGATTATAAAACAT
Found at i:30018 original size:171 final size:171
Alignment explanation
Indices: 29659--29985 Score: 416
Period size: 171 Copynumber: 1.9 Consensus size: 171
29649 NNNNNNNNNN
* *
29659 TTATAAAACTATTTAAAGCGAGAAGTAAGGCTTTCGAAGGCATGGCTGACTATAAATGCTCTTTT
1 TTATAAAACCATTTAAAGCGAGAAGTAAGGCTTTCGAAGGCATGGCTGACTATAAATGCACTTTT
* * * *
29724 CTATCTAATGATTGGCTTTTTCTTCACGTTTCTCATGGTGAATATTCAATCATAATCTGTCTAAA
66 CTATCTAATGAATGGCTTTTTCTTCACGTTTCTCAAGGAGAACATTCAATCATAATCTGTCTAAA
*
29789 CCAAAAATGTAAAACAATTCAACCTAAAATTAATTATGAGA
131 CCAAAAATATAAAACAATTCAACCTAAAATTAATTATGAGA
* * *
29830 TTATAAAACCATTTAAAGCGAGTAAG-AAGGCTTTCGAGGGCCTAGG-TGACTATAAATGGACTT
1 TTATAAAACCATTTAAAGCGAG-AAGTAAGGCTTTCGAAGGCAT-GGCTGACTATAAATGCACTT
* *
29893 TTCT-TGCTAATGAATGGCTTTTTCTTCATGTTT-TCCAAGGCAG-ACATTCAATTATAATCTGT
64 TTCTAT-CTAATGAATGGCTTTTTCTTCACGTTTCT-CAAGG-AGAACATTCAATCATAATCTGT
* *
29955 -TGTAACTAAAAATATAAAA-AAGTTCAACCTA
126 CT-AAACCAAAAATATAAAACAA-TTCAACCTA
29986 NNNNNNNNNN
Statistics
Matches: 135, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
170 5 0.04
171 124 0.92
172 6 0.04
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (171 bp):
TTATAAAACCATTTAAAGCGAGAAGTAAGGCTTTCGAAGGCATGGCTGACTATAAATGCACTTTT
CTATCTAATGAATGGCTTTTTCTTCACGTTTCTCAAGGAGAACATTCAATCATAATCTGTCTAAA
CCAAAAATATAAAACAATTCAACCTAAAATTAATTATGAGA
Found at i:30381 original size:171 final size:161
Alignment explanation
Indices: 30095--30424 Score: 371
Period size: 171 Copynumber: 2.0 Consensus size: 161
30085 GCAAACATTC
* *
30095 AACTTAAAATCAATTATGAGATTATAAAATCATTTAGAAAGAGTAATAATGCTTTCGAAGGCATA
1 AACTTAAAATCAATTATGAGATTATAAAATCATTTAGAAAGAGTAATAATACTTTCAAAGGCATA
* * * *
30160 AGTGACTATAAATGAACTATTCATTTCAATGGATGGCTTTTACTTCACGTTTTTCGAAAT-AGAC
66 AGTAACTATAAATGAACTATTCATTTCAATGGATGACTTTCACTTCACGTTTCTCGAAATGA-AC
30224 ATTCAATTATAATATATTTTAATAAAAAATAT
130 ATTCAATTATAATATATTTTAATAAAAAATAT
**
30256 ANNNNNNNNNNACTTAAAATCAATTATGAGATTATAAAA-CTATTTA-AACCTAGTAATAATACT
1 A----------ACTTAAAATCAATTATGAGATTATAAAATC-ATTTAGAA-AGAGTAATAATACT
* * * *
30319 TTCAAAGGCATGAGTAACTATAAATGAGCTTTTC-TCTTCAATGGATGACTTTCGCTTCACGTTT
54 TTCAAAGGCATAAGTAACTATAAATGAACTATTCAT-TTCAATGGATGACTTTCACTTCACGTTT
* * *
30383 CTCGAGATGAACATTTAATTATAATATATTTTAATCAAAAAT
118 CTCGAAATGAACATTCAATTATAATATATTTTAATAAAAAAT
30425 GTAAAAAAAT
Statistics
Matches: 140, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
161 1 0.01
170 4 0.03
171 134 0.96
172 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.35
Consensus pattern (161 bp):
AACTTAAAATCAATTATGAGATTATAAAATCATTTAGAAAGAGTAATAATACTTTCAAAGGCATA
AGTAACTATAAATGAACTATTCATTTCAATGGATGACTTTCACTTCACGTTTCTCGAAATGAACA
TTCAATTATAATATATTTTAATAAAAAATAT
Found at i:30918 original size:171 final size:171
Alignment explanation
Indices: 30601--32024 Score: 697
Period size: 171 Copynumber: 8.3 Consensus size: 171
30591 TTTTTTTTAC
* * * * * ** * *
30601 GTTTCACAAGGCAAACATTGAATTATAATATATTTTAACCAAAAACATAAAAAAATTCTACCTAA
1 GTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATTCAACTTAA
*
30666 AATCAATTATGAGATTATAAAA-CCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGAC
66 AATCAATTATGAGATTATAAAATCC-TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGAC
* * * * *
30730 TATAAATGGACTTTTCTTGCTAATGAATA-CCTTTTTCTTTAT
130 TATAAATAGACTTTTCTTGCCAATG-ATAGCCTTTTCCTTCAA
* * * * * *
30772 GTTTC-CTAAGGTAGATATTCAATTGTAGTCTGTTTTAACCAAAATTGTAAAAAAATTAAACTTA
1 GTTTCTC-AAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATTCAACTTA
* * *******
30836 AAATCAATTATAAGATTATAAAATCCCTTAAAGCGAGTAATAAGGCTTTTGAAGGAATNNNNNNN
65 AAATCAATTATGAGATTATAAAATCCTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGAC
***
30901 NNNAAATAGACTTTTCTTGCCAATGATAGCCTTTTCCTTCAA
130 TATAAATAGACTTTTCTTGCCAATGATAGCCTTTTCCTTCAA
* * ** **
30943 GTTTTTCGAGGTAGACATTCGGTTATAATCTATTTTAACCAAAAATGTATGAAAATTCAACTTAA
1 GTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATTCAACTTAA
* * * * * *
31008 AATCAATTATGAGATTATAAAATCATTTATAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACT
66 AATCAATTATGAGATTATAAAATCCTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACT
* * *
31073 ATAAATAAACTTTT-TTAGTCAATGA-ATGGCTTTT-CTGT-AA
131 ATAAATAGACTTTTCTT-GCCAATGATA-GCCTTTTCCT-TCAA
* ** * * * * * *
31113 GTTTCCTACCA-CAAG-CATTTAATCATATTCTGTTTTGACCAAAAATGTAAAAAACA-TCAACC
1 GTTT-CT-CAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAA-ATTCAACT
* * * * * * *
31175 TAAAATCAATTATGAGATCATAAAAAT-ATTTAAAGTGTGTAATAAGGCTTTTAAAGGTATGGGT
63 TAAAATCAATTATGAGATTAT-AAAATCCTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGT
* ** * * * * * * *
31239 AACTACGATTGGACTTTTCTTACTAATGAATAG-CTTTTTCATCAC
127 GACTATAAATAGACTTTTCTTGCCAATG-ATAGCCTTTTCCTTCAA
* * * * * * * * *
31284 GTTT-TCCAAGGAAAACATTTAATTATAACCTATTTTAACTAAGAATTTTAAAAAACTCAACTTA
1 GTTTCT-CAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATTCAACTTA
********** * * * * *
31348 AAATCAATTATNNNNNNNNNNAATCATTTAAAGTGAGTAATAAGGCTATTGAAAGAATGGGTGAC
65 AAATCAATTATGAGATTATAAAATCCTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGAC
* * ** * * * *
31413 TATAAATGGACTCTTCTTATCAATTAATGGCTTTTTCCTT-AC
130 TATAAATAGACTTTTCTTGCCAA-TGATAGCCTTTTCCTTCAA
* * * * * * * ***
31455 GTTTC-CTAAGGTAGACATTTAATTATAATATGTTTGAACTAAAAATATAAAAATATTCAACNNN
1 GTTTCTC-AAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATTCAACTTA
******* * * ** * **
31519 NNNNNNNTTTTGAGATTATAAAA-CCATTT-AAGCAAGTAATAAGGCTTTCAAAAGTTTGAGTGA
65 AAATCAATTATGAGATTATAAAATCC-TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGA
* * * * ** * *
31582 CTATGAATGGACTTTTCATGCCAATAGAT-GGCTTTTGTTTTAC
129 CTATAAATAGACTTTTCTTGCCAAT-GATAGCCTTTTCCTTCAA
* * * * * *
31625 GTTTTTCAAGGCAGACATTCAATTATTATATATTTTAATC-AAAAT-TACAAAAAACTTTAACTT
1 GTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTA-AAAAAA-TTCAACTT
* * ********** * *
31688 AAAATCATTTATGAGATTATAAAA-CTATTTAAAGCGNNNNNNNNNNCTTTTGAAGGCATGGGTG
64 AAAATCAATTATGAGATTATAAAATC-CTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTG
* * * * ** * *
31752 ACTATAAAT-GAACTTTTCTAGTCAGTGA-ATTCCTTTTTTTTTTAC
128 ACTATAAATAG-ACTTTTCTTGCCAATGATA-GCC-TTTTCCTTCAA
* * * * * *
31797 GTTTCCTGAA-GTAGACATTCAATTATAATCTGTTTAAACTAAAAATGTAAAAATATTCAACCTA
1 GTTT-CTCAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATTCAA-CTT
** *
31861 AAAAT-AATTATGAGATTATAAAATCAC-TTAAAGTAAGTAATAAGGCTTTTGAAGGTATGAGTG
64 AAAATCAATTATGAGATTATAAAATC-CTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTG
* * ** * * * *
31924 ACTATAAATAGATTTTTGTTGTTATTGA-ATGGCTTTTACTTCAC
128 ACTATAAATAGACTTTTCTTGCCAATGATA-GCCTTTTCCTTCAA
** * * * * * * *
31968 GTTTCTCAAGAAAAATAATCAATTATAATATGTTTTAATCAAAAATATAAAAAAATT
1 GTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATT
32025 NNNNNNNNNN
Statistics
Matches: 923, Mismatches: 287, Indels: 86
0.71 0.22 0.07
Matches are distributed among these distances:
168 2 0.00
169 21 0.02
170 240 0.26
171 519 0.56
172 117 0.13
173 22 0.02
174 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.35
Consensus pattern (171 bp):
GTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAATTCAACTTAA
AATCAATTATGAGATTATAAAATCCTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACT
ATAAATAGACTTTTCTTGCCAATGATAGCCTTTTCCTTCAA
Found at i:32859 original size:169 final size:169
Alignment explanation
Indices: 32727--33059 Score: 410
Period size: 169 Copynumber: 2.0 Consensus size: 169
32717 NNTTTAAGGT
* * * * *
32727 GAGTAATAAGACTTTTGAAGGTATGGAT-ACTATAAATGGACTTTTCTTGTCAAT-AAT-GCTTT
1 GAGTAATAAGACTTTTGAAGGCATAG-TGACAATAAATGGACTTTTCCTGCCAATGAATGGC-TT
* * *
32789 TTTCTTCACGTTTCTTG-AGATAGACATTCAATTATAATCTGTTTT-AACTAAATATGTAAATAA
64 TTTC-TCACGTTTCCTGAAG-TAGACATTCAATTATAATCTATTTTCAAC-AAATATGTAAAAAA
32852 ATTCAACTTAAAAATAATTTGGAGATTATAAAACTATTTAAAGC
126 ATTCAACTTAAAAATAATTTGGAGATTATAAAACTATTTAAAGC
* * **
32896 GAGTGATAAGGCTTTTGAAGGCATAGTGACAATAAATGGACTTTTCCTGCCTTTGAATGGCTTTT
1 GAGTAATAAGACTTTTGAAGGCATAGTGACAATAAATGGACTTTTCCTGCCAATGAATGGCTTTT
* * * *
32961 TCTCCCTTTTCCTGAAGTAGATATTCAATTATAATCTATTTTCAGCAAATATGTAAAAAAATTCA
66 TCTCACGTTTCCTGAAGTAGACATTCAATTATAATCTATTTTCAACAAATATGTAAAAAAATTCA
33026 ACTT-AAAATCAATTAT-GAGATTATAAAACTATTT
131 ACTTAAAAAT-AATT-TGGAGATTATAAAACTATTT
33060 NNNNNNNNNN
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
168 6 0.04
169 119 0.84
170 14 0.10
171 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (169 bp):
GAGTAATAAGACTTTTGAAGGCATAGTGACAATAAATGGACTTTTCCTGCCAATGAATGGCTTTT
TCTCACGTTTCCTGAAGTAGACATTCAATTATAATCTATTTTCAACAAATATGTAAAAAAATTCA
ACTTAAAAATAATTTGGAGATTATAAAACTATTTAAAGC
Found at i:32968 original size:20 final size:21
Alignment explanation
Indices: 32930--32969 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32920 AGTGACAATA
*
32930 AATGGACTTTTCCTGCCTTTG
1 AATGGACTTTTCCTCCCTTTG
*
32951 AATGG-CTTTTTCTCCCTTT
1 AATGGACTTTTCCTCCCTTT
32970 TCCTGAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.12, C:0.25, G:0.15, T:0.47
Consensus pattern (21 bp):
AATGGACTTTTCCTCCCTTTG
Found at i:33685 original size:171 final size:161
Alignment explanation
Indices: 33390--33700 Score: 320
Period size: 171 Copynumber: 1.9 Consensus size: 161
33380 NNNNNNAATT
* * ** *
33390 AATTATGAGATTATAAAACCATTGAAAGCGAGTAATAAGGCTTTTGAAGGCTTGAGTGACTCTAA
1 AATTATGAGATTATAAAACCATTGAAAACGAGTAATAAGGCCTTTGAAGGAATGAGTGACTATAA
* *
33455 ATAAACTTTTCATGTCAATAGATGGCTTTTACTTCATGTTTTCTAAGACAACTATTCAATTATAA
66 ATAAACTTTTCATGTCAATAGATGCCTTTTACTTCATGTTTCCTAAGACAACTATTCAATTATAA
33520 TATATTTTAATCACANNNNNNNNNNAATTTAACTTAAAATC
131 TATATTTTAATCACA----------AATTTAACTTAAAATC
* * * *
33561 AATTATGAGTTTATAAAACTATTTAAAACGAGTAATAAGGCCTTTGAAGGAATGAGTGAGTATAA
1 AATTATGAGATTATAAAACCATTGAAAACGAGTAATAAGGCCTTTGAAGGAATGAGTGACTATAA
* * * * * **
33626 ATAGACTTTTCTTG-CTATTGAATGCCTTTTCCTTCATGTTTCCTAAGGTTAAC-ATTCAATTAT
66 ATAAACTTTTCATGTCAATAG-ATGCCTTTTACTTCATGTTTCCTAA-GACAACTATTCAATTAT
* *
33689 AATCTGTTTTAA
129 AATATATTTTAA
33701 CCAAAAATGT
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
170 4 0.03
171 110 0.93
172 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.37
Consensus pattern (161 bp):
AATTATGAGATTATAAAACCATTGAAAACGAGTAATAAGGCCTTTGAAGGAATGAGTGACTATAA
ATAAACTTTTCATGTCAATAGATGCCTTTTACTTCATGTTTCCTAAGACAACTATTCAATTATAA
TATATTTTAATCACAAATTTAACTTAAAATC
Done.