Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397411.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_425.0, 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: 22619
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.29
Warning! 4705 characters in sequence are not A, C, G, or T
Found at i:3663 original size:20 final size:21
Alignment explanation
Indices: 3634--3674 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
3624 CTTCAGAGAC
*
3634 TTGTAGAAAAAG-CCATTTAT
1 TTGTAAAAAAAGTCCATTTAT
3654 TTGTAAAAAAAGTCCATTTAT
1 TTGTAAAAAAAGTCCATTTAT
3675 ATTATCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
TTGTAAAAAAAGTCCATTTAT
Found at i:3733 original size:170 final size:169
Alignment explanation
Indices: 3492--5448 Score: 1560
Period size: 170 Copynumber: 11.5 Consensus size: 169
3482 CATTTATTTG
* * * *
3492 AAAGTCTATTTATAGTCTCCCATTCCTTCAAAAGCCCTATTACTCGCTTTAAATGCTTTTATAAT
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAAT
* * *
3557 CTCATAATTGATTTTCAA-TAGAATGTTTTATATTTTTTGTTAAAACGGACTATAATTGAATGCC
66 CTCATAATTGATTTT-AAGTTGAATTTTTTATATTTTTTGTTAAAACAGACTATAATTGAATGCC
* * * * * *
3621 TTCCTTCAGAGACTTGTAGAAAAAGCCATTTATTTGTAAAA
130 TTCC-TCAGAAACGTGAAGAAAAAGCCATTCATTTGCAAGA
* * * * *
3662 AAAGTCCATTTATATTATCCCATTTCTTCAAAAGCCTTATTAGTAGCTTTCAATGGTTTTATAAT
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAAT
* * *
3727 CTCATAATTGATTTTAAGTTAAATTTTTTATAGTTTCTGTTAAAACAGACTATAATTGAATG-CT
66 CTCATAATTGATTTTAAGTTGAATTTTTTATATTTTTTGTTAAAACAGACTATAATTGAATGCCT
* * * * *
3791 TGCCTTAGGAAACATGTAGAAAAA-CTCATTTATTTGAAAGA
131 T-CCTCA-GAAACGTGAAGAAAAAGC-CATTCATTTGCAAGA
* * * * *
3832 AAAGTCCATTTGTAGTCTCTCATTCTTTCAAAAGCCTTATTAGCCT--CTTTAAAAGGTTTTAAA
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTA--CTAGCTTTAAATGGTTTTATA
* ** * *
3895 ATCTCATAATTAATTTTAAGTTGAATTTTTTATA-TTTTCATTAAAACAGATTGTAATTG-ATAG
64 ATCTCATAATTGATTTTAAGTTGAATTTTTTATATTTTTTGTTAAAACAGACTATAATTGAAT-G
* * * * * *
3958 CCTGCCTCAAGAAACGTGTAGAAAAACCCTTTTATTTGGAAGA
128 CCTTCCTC-AGAAACGTGAAGAAAAAGCCATTCATTTGCAAGA
* ** * * *
4001 AAATTCCATTTATAGTCTTTCATTCCTTCAAAAGCCTTATTACTCA-TTTTAAATAGTTTTGTAA
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-AGCTTTAAATGGTTTTATAA
* * * * * *
4065 TCTCATAATTGATTTTAAGTTGAAATTTTGTACATTTTTAGTTCAAACAGACAATAAGTGAATG-
65 TCTCATAATTGATTTTAAGTTG-AATTTTTTATATTTTTTGTTAAAACAGACTATAATTGAATGC
* *
4129 -TTGACCTCAGGAAACGTGAAAAAAAAATG-AATTCATTTGCAAGA
129 CTT--CCTCA-GAAACGTG-AAGAAAAA-GCCATTCATTTGCAAGA
* * * * * * *
4173 AAAGTCTATTTATAGAT-ACCTATTCTTTCAAAAGCCATATTATTCGCTTTAAATGGTTTTATAA
1 AAAGTCCATTTATAG-TCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAA
* * * * *
4237 TCTCAAAATCGATTTTAAGTTTAATTTTTCTTACATTTTTTGTTAAAACAGATTATAATTGAATG
65 TCTCATAATTGATTTTAAGTTGAA-TTTT-TTATATTTTTTGTTAAAACAGACTATAATTGAATG
* * * * ** * *
4302 TCTACCTCATAAAACATGAAGGGAAAGGCATTCATTGGCAAGA
128 CCTTCCTCA-GAAACGTGAAGAAAAAGCCATTCATTTGCAAGA
** * * *
4345 AAAGTCTTTTTATAGTCTCTCATTCCTTCAAAAGTCTTATTACTCGCTTTAAATGGTTTTATAAT
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAAT
* * * * *
4410 CTCAAAATTGATTTTAAGTTCAATTTGTTTTTACTTTTTTAGTTAAAATAGATTATAATTGAATG
66 CTCATAATTGATTTTAAGTTGAATTT-TTTATA-TTTTTT-GTTAAAACAGACTATAATTGAATG
* * * * * * * *
4475 TCTACATTAAGAAACGGGAAG-AAAAGGCATTCATTAGTAAGA
128 CCTTC-CTCAGAAACGTGAAGAAAAAGCCATTCATTTGCAAGA
* * * * *
4517 AAAGTCCATTTATAGTCACCAATCCCATT-AAAAACCTTCTTACTCA-CTTTAAA-GGTTTTATA
1 AAAGTCCATTTATAGTCTCCCATTCC-TTCAAAAGCCTTATTACT-AGCTTTAAATGGTTTTATA
* * * * *
4579 ATCTCAAAATTGATTTTAAGTTCAATTTTGTTTACATTTTTTATTGAAACAGA-TAATAATTGAA
64 ATCTCATAATTGATTTTAAGTTGAA-TTT-TTTATATTTTTTGTTAAAACAGACT-ATAATTGAA
** * * * * * *
4643 T-TTTTACACTAACAAACATAAAGAAAAAGACATTCATTGGCAAGA
126 TGCCTT-C-CTCAGAAACGTGAAGAAAAAGCCATTCATTTGCAAGA
* * *
4688 AAAGTCTATTTATAGTCTCCCATTCCTTAAAAAGCCTTATTACTCA-CTTTAGATGGTTTTATAA
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-AGCTTTAAATGGTTTTATAA
* * * ** * * *
4752 TCTCAAAATTGATTTTAAGTTCAATTTTTTTACATTTTAGGTTAAAACAGATTATAATTGAACGT
65 TCTCATAATTGATTTTAAGTTGAA-TTTTTTATATTTTTTGTTAAAACAGACTATAATTGAATGC
* * ** *
4817 ATAT-CTCATGAAACGTGAAGAGAAAGGTATTCATTGGCAAGA
129 CT-TCCTCA-GAAACGTGAAGAAAAAGCCATTCATTTGCAAGA
* * * * * *
4859 AAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTATCACTCGCTTTAAATGATTTTACAAT
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAAT
* * *
4924 CTCATAATTGATTTTAAGTTCAATTAGTTTTACT-TTTTTAGTTAAAACAGATTATAATTGAATG
66 CTCATAATTGATTTTAAGTTGAATT--TTTTA-TATTTTTTGTTAAAACAGACTATAATTGAATG
* * * * * *
4988 TCC-ACGTAAGAAACGTTAAGAAAAATG-CATTCA-TAGATAAGA
128 -CCTTCCTCAGAAACGTGAAGAAAAA-GCCATTCATTTG-CAAGA
* *********** *
5030 AAAGTCCATTTATAGTCACCCATTCCTTCAAAAGNNNNNNNNNNCGCTTTAAATGGTTTTCTAAT
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAAT
* ** * *
5095 CTCATAATTGATTTTAAGTTGAATTTTTTGTATTTTTCATTAAAAAAGACTATTATTGAATGCCT
66 CTCATAATTGATTTTAAGTTGAATTTTTTATATTTTTTGTTAAAACAGACTATAATTGAATGCCT
* * * * ** *
5160 GCCTTA-AGAACTGTGTCA-AAAAACCCATTTGTTTGGAAGA
131 TCCTCAGA-AAC-GTG-AAGAAAAAGCCATTCATTTGCAAGA
* * * *
5200 AAAGTTCATTTATAATCACCCATTCTTTCAAAAGCCTTATTACTTA-CTTTAAATGGTTTTATAA
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTAC-TAGCTTTAAATGGTTTTATAA
* * * * ** *
5264 TCTCGTAACTGATTTTAAGTTGAATTTTTTACATTTCTCATTAATACAGACTATAATTGAATGCC
65 TCTCATAATTGATTTTAAGTTGAATTTTTTATATTTTTTGTTAAAACAGACTATAATTGAATGCC
* * * * *
5329 TGCCTCGAGAAACCT-ATAGAAAAACCCATTTATTTGGAAGA
130 TTCCTC-AGAAACGTGA-AGAAAAAGCCATTCATTTGCAAGA
* * * * * * *
5370 GAAGTCTATTTATATTCTCTCATTTCTTCAAAAGCCTTATTACTCA-CTTGAAATAGTTTTATAA
1 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-AGCTTTAAATGGTTTTATAA
5434 TCTCATAATTGATTT
65 TCTCATAATTGATTT
5449 NNNNNNNNNN
Statistics
Matches: 1461, Mismatches: 261, Indels: 130
0.79 0.14 0.07
Matches are distributed among these distances:
167 2 0.00
168 6 0.00
169 173 0.12
170 485 0.33
171 378 0.26
172 334 0.23
173 80 0.05
174 2 0.00
175 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (169 bp):
AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTAAATGGTTTTATAAT
CTCATAATTGATTTTAAGTTGAATTTTTTATATTTTTTGTTAAAACAGACTATAATTGAATGCCT
TCCTCAGAAACGTGAAGAAAAAGCCATTCATTTGCAAGA
Found at i:5039 original size:21 final size:21
Alignment explanation
Indices: 5004--5044 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4994 TAAGAAACGT
*
5004 TAAGAAAAATGCATTCATAGA
1 TAAGAAAAATCCATTCATAGA
* *
5025 TAAGAAAAGTCCATTTATAG
1 TAAGAAAAATCCATTCATAG
5045 TCACCCATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (21 bp):
TAAGAAAAATCCATTCATAGA
Found at i:7444 original size:170 final size:170
Alignment explanation
Indices: 7095--7628 Score: 433
Period size: 170 Copynumber: 3.1 Consensus size: 170
7085 NNNNNNNNNN
*
7095 GGTGACTATAAATAGACTTTTCTTTCAAACAAATAGGTTTTTCTACACGTTTCCTAAGGTAAACA
1 GGTGACTATAAATAGACTTTTCTTTCAAACAAATAGATTTTTCTACACGTTTCCTAAGGTAAACA
* * *
7160 TTCAATTATAATCTATTTTAATGAAAAATGTAAAAAATTTAACTTAAAATCAATTATAAGATTAA
66 TTCAATTATAATCTATTTTAATAAAAAATATAAAAAATTCAACTTAAAATCAATTATAAGATTAA
*
7225 AAAATCATTTAAAGTGACGAATAAAGCTTTTGAAGGAATA
131 AAAATCATTTAAAGCGACGAATAAAGCTTTTGAAGGAATA
* * * * * *
7265 AGAGACTATAAATAGACTTTTCTTTCAAATAAAT-GAATTTTTTTACACGTTT-CTCGAGGTAGA
1 GGTGACTATAAATAGACTTTTCTTTCAAACAAATAG-ATTTTTCTACACGTTTCCT-AAGGTAAA
* * * *
7328 TATTCAATTATACTCTTTTTTAATAAAAAATATAAAACATTCAACTTAAAATCAATTATAAGATT
64 CATTCAATTATAATCTATTTTAATAAAAAATATAAAAAATTCAACTTAAAATCAATTATAAGATT
* ********** * *
7393 ATAANNNNNNNNNNAGCGA-GTAATAAGGCTTTTCG-AGGAATG
129 AAAAAATCATTTAAAGCGACG-AATAAAGCTTTT-GAAGGAATA
** * * * *
7435 GGTGACTATAAATAGA-TTTT-TTTTTATCGATGAAT-GCCTTTTTCTTCACGTTT-CTCAAAGT
1 GGTGACTATAAATAGACTTTTCTTTCAAAC-A--AATAG-ATTTTTCTACACGTTTCCT-AAGGT
** * * * * *
7496 AGGCATTCAACTATAATCTATTTTAACCAAAAAAGTA-AAAATAATTGAACTTCAAATCAATTAG
61 AAACATTCAATTATAATCTATTTTAA-TAAAAAA-TATAAAA-AATTCAACTTAAAATCAATTAT
* * * * *
7560 GAGATTATAAAA-CTTTTTAAAGC-AAGTAATAAGGCTTTTGAAGGAATA
123 AAGATTAAAAAATC-ATTTAAAGCGACG-AATAAAGCTTTTGAAGGAATA
* *
7608 TGAGACTATAAATAGACTTTT
1 GGTGACTATAAATAGACTTTT
7629 TTTATTAAGT
Statistics
Matches: 287, Mismatches: 63, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
168 4 0.01
169 9 0.03
170 147 0.51
171 45 0.16
172 12 0.04
173 66 0.23
174 4 0.01
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.35
Consensus pattern (170 bp):
GGTGACTATAAATAGACTTTTCTTTCAAACAAATAGATTTTTCTACACGTTTCCTAAGGTAAACA
TTCAATTATAATCTATTTTAATAAAAAATATAAAAAATTCAACTTAAAATCAATTATAAGATTAA
AAAATCATTTAAAGCGACGAATAAAGCTTTTGAAGGAATA
Found at i:7697 original size:173 final size:174
Alignment explanation
Indices: 7411--7731 Score: 409
Period size: 173 Copynumber: 1.9 Consensus size: 174
7401 NNNNNNAGCG
* * *
7411 AGTAATAAGGCTTTTCGAGGAATGGGTGACTATAAATAGATTTTTTTTTATCGATGAATGCCTTT
1 AGTAATAAGGCTTTTCGAGGAATAGGAGACTATAAATAGATTTTTTTTTATAGATGAATGCCTTT
* * * *
7476 TTCTTCACGTTTCTCAAAGTAGGCATTCAACTATAATCTATTTTAACCAAAAAAGTAAAAA-TAA
66 TTCTTCACGTTTCCCAAAGTAGACATTCAACTATAATCTATCTTAACCAAAAAAGTAAAAACAAA
* *
7540 TTGAACTTCAAATCAATTAGGAGATTATAAAACTTTTTAAAGCA
131 TTGAACATAAAATCAATTAGGAGATTATAAAACTTTTTAAAGCA
* *
7584 AGTAATAAGGCTTTT-GAAGGAATATGAGACTATAAATAGACTTTTTTTATTA-AG-TGAATGCT
1 AGTAATAAGGCTTTTCG-AGGAATAGGAGACTATAAATAGA-TTTTTTT-TTATAGATGAATGCC
* * * * * **
7646 TTTTTCTTCATGTTTCCCAAGGTAGACATTCAATTATAGTTTGA-CTTAACCAAAATTGTAAAAA
63 TTTTTCTTCACGTTTCCCAAAGTAGACATTCAACTATAATCT-ATCTTAACCAAAAAAGTAAAAA
7710 CAAATTGAACATAAAATCAATT
127 CAAATTGAACATAAAATCAATT
7732 TTGAGATAAT
Statistics
Matches: 125, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
172 1 0.01
173 94 0.75
174 27 0.22
175 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (174 bp):
AGTAATAAGGCTTTTCGAGGAATAGGAGACTATAAATAGATTTTTTTTTATAGATGAATGCCTTT
TTCTTCACGTTTCCCAAAGTAGACATTCAACTATAATCTATCTTAACCAAAAAAGTAAAAACAAA
TTGAACATAAAATCAATTAGGAGATTATAAAACTTTTTAAAGCA
Found at i:9135 original size:171 final size:172
Alignment explanation
Indices: 8604--9182 Score: 594
Period size: 173 Copynumber: 3.4 Consensus size: 172
8594 NNNNNNNNNN
* ** **
8604 TGAGTGACTATAAATAGACTTTTCTTACCAATGAATG-CATTTTTCTTCATGTTTTGTGAATTAG
1 TGAGTGACTATAAATAGACTTTTCTTACCAATGAATGTC-TTTCTCTTCATGTTTCATGAGGTAG
* *
8668 ATATTCAATTATAATCTATTTTAACAAAAAATGTAAAAAACATTGAA-TTTAAAATCAATTTTGA
65 ATATTCAATTATAATCTATTTTAATAAAAAATGTAAAAAAAATTGAACTTT-AAATCAATTTTGA
* * * *
8732 GATTATAAAACTATTTAAAGTGAATAATTAGGCTTTTAAAGGAA
129 GATTATAAAACCATTTAAAATGAGTAATAAGGCTTTTAAAGGAA
* * * * * *
8776 TGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTC-TCGGTTT-TTGATGTA
1 TGAGTGACTATAAATAGACTTTTCTTACCAATGAATGTCTTTCTCTTCAT--GTTTCATGAGGTA
* * * ** * **
8839 -AAATTTTAATTATAATCTGTTTTAATTAAAAAAAATAAAAAAAATTAAACTGAAAATCAATTTT
64 GATA-TTCAATTATAATCTATTTTAA-TAAAAAATGTAAAAAAAATTGAACTTTAAATCAATTTT
* * **********
8903 GAGATTATAAAATCATTTAAAATGAGTTATAAGNNNNNNNNNNGAA
127 GAGATTATAAAACCATTTAAAATGAGTAATAAGGCTTTTAAAGGAA
* *
8949 TGAGTGACTATAAATAGACTTTTGTTACCAATGAATGTCTTTCTCTTCATGTTTCAAGAGGTAGA
1 TGAGTGACTATAAATAGACTTTTCTTACCAATGAATGTCTTTCTCTTCATGTTTCATGAGGTAGA
* *
9014 TATTCAATTATAAACTATTTCAA-AAAAAATGTAAAAAAAATTGAACTTTAAATCAATTTTGAGA
66 TATTCAATTATAATCTATTTTAATAAAAAATGTAAAAAAAATTGAACTTTAAATCAATTTTGAGA
* * * *
9078 TTTTAAACCCATTTAAAATGTGTAATAAGGCTTTTGAAGGAA
131 TTATAAAACCATTTAAAATGAGTAATAAGGCTTTTAAAGGAA
* * * * ** *
9120 TGGGTGACCATAAATAGACTTTTCTTGCTAATGAATACCTTTCTCTTCACGTTTCATGAGGTA
1 TGAGTGACTATAAATAGACTTTTCTTACCAATGAATGTCTTTCTCTTCATGTTTCATGAGGTA
9183 NNNNNNNNNN
Statistics
Matches: 324, Mismatches: 74, Indels: 19
0.78 0.18 0.05
Matches are distributed among these distances:
171 120 0.37
172 71 0.22
173 129 0.40
174 4 0.01
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.37
Consensus pattern (172 bp):
TGAGTGACTATAAATAGACTTTTCTTACCAATGAATGTCTTTCTCTTCATGTTTCATGAGGTAGA
TATTCAATTATAATCTATTTTAATAAAAAATGTAAAAAAAATTGAACTTTAAATCAATTTTGAGA
TTATAAAACCATTTAAAATGAGTAATAAGGCTTTTAAAGGAA
Found at i:10784 original size:169 final size:169
Alignment explanation
Indices: 10298--11576 Score: 633
Period size: 169 Copynumber: 7.5 Consensus size: 169
10288 NNNNNNNNNA
* * * * * * * **
10298 GTTTTTCTATAGGTTTCTTGATGCATGG-ATTCAATTATAGTCTATTTTAATGACAAATGTAAAA
1 GTTTTTCTACACGTTTCCTGAAGCA-GGCATTCAATTATAGTCTGTTTTAATAAAAAAAATAAAA
* * * *** ** *
10362 AA-TCAACTTAAAATCAATTATAAGATTATAAAACTATTTAAAACAAGTAATATGGCTTCTGAAG
65 AATTTAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAGTGAGTAATAACGCTTTTGAAG
* * * * * *
10426 GAATGGGTGACTATAAATGGACTTTTCTTACC-TATGAATGT
129 AAATGAGAGACTATAAATGGACTTTTCTT-CCAAATAAATGG
* * * * ** * * *
10467 CTTTTTCTTCACTTTTCTTGATA-TTGACATTCAATTATAATCTGTTTTAACT-AAAAAAGTAAA
1 GTTTTTCTACACGTTTCCTGA-AGCAGGCATTCAATTATAGTCTGTTTTAA-TAAAAAAAATAAA
* * * * * * *
10530 ACTAATTGAACTTCAAATCAATTATGAGATT-TATAAACCTTTTAAAGCGAGTAATGAGGCCTTT
64 A--AATTTAACTTAAAATCAATTATGAGATTATA-AAACCATTT-AAGTGAGTAATAACGCTTTT
********** *
10594 NNNNNNNNNNGAGACTATAAATGGACTTTTCTTCCAAATAAATAG
125 GAAGAAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
*
10639 GTTTTTCTACACG-TTCCTGAAGCAGGCATGCAATTATAGTCTGTTTTAATAAAAAAAATAAAAA
1 GTTTTTCTACACGTTTCCTGAAGCAGGCATTCAATTATAGTCTGTTTTAATAAAAAAAATAAAAA
* * * *
10703 ATTTAACTCAAAATCAATTATGAGATTATAAAACCATTCATAGTGAGTAATAAGGCTTTTGAAGG
66 ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTA-AGTGAGTAATAACGCTTTTGAAGA
* * *
10768 AATGAGAGAATATAAATGGGCTTTTCTTCTAAATAAATGG
130 AATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * * * * * ********
10808 GTTTTT-TATAGGTTTCTTGAGGCAGGCATTCAATTATAGTTTGTTTTAATGAGAAANNNNNNNN
1 GTTTTTCTACACGTTTCCTGAAGCAGGCATTCAATTATAGTCTGTTTTAATAAAAAAAATAAAAA
** * * * * * * *
10872 NNTCAACTTAAAATCAATTATGAGAGTATAAATCCTTTTAAAGCGACTAATGACGCTTTTGAAGA
66 ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAGTGAGTAATAACGCTTTTGAAGA
* *
10937 AATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGG
130 AATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * * * * *
10977 GTTTTTCTACATGTTTCCT-AAGGTAGACATTCAATTATAGTGTGTTTTATTAAAAAATATACAA
1 GTTTTTCTACACGTTTCCTGAA-GCAGGCATTCAATTATAGTCTGTTTTAATAAAAAAAATAAAA
* *************
11041 AATTTAACTTAAAATCAATTATGAGATTATAAAACTATTTAAGGTGAGTAATNNNNNNNNNNNNN
65 AATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAA-GTGAGTAATAACGCTTTTGAAG
***********
11106 NNNNNNNNNNTTATAAATGGACTTTTCTTCCAAATAAATGG
129 AAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * * * * * * * **
11147 GTTTTTCTATAGGCTTCTTGAGGCAGGGATTCAATTATAGTCTATTTTAATGAGAAATGTAAAAA
1 GTTTTTCTACACGTTTCCTGAAGCAGGCATTCAATTATAGTCTGTTTTAATAAAAAAAATAAAAA
* * ** * * * *
11212 ATTTAACTTAAAATGAATTATGAAATTATAAAACCATTTAAAACGAGCAACAAGGCTTTCGAAGA
66 ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAGTGAGTAATAACGCTTTTGAAGA
* * * * * * *
11277 AATGAGTGACTATAAATGAATTTTTCTTGTC-TATGAATGC
130 AATGAGAGACTATAAATGGACTTTTCTT-CCAAATAAATGG
* ** * * * * * * * *
11317 CTTTTTCTTTACGTTTCTTCACGTAGACATTTAATTATAATCTATTTTAACCTAAAAAATAA-AA
1 GTTTTTCTACACGTTTCCTGAAGCAGGCATTCAATTATAGTCTGTTTTAA--TAAAAAA-AATAA
* * ** * ** **********
11381 ATAATTGAACTT-AAATCAACGATGAGATTACAAAACCATTTAAAGCAAGTAATANNNNNNNNNN
63 AAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTT-AAGTGAGTAATAACGCTTTTGA
* * * *
11445 AGGAATGAGTGACTATAAATAGACTTTTCTTTCAAATAAATGG
127 AGAAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * * * *
11488 GTTTTTCTACACGTTT-CTCG-AGACAAGTATTCAACTATAGTATGTTTTAATGAAAAATATAAA
1 GTTTTTCTACACGTTTCCT-GAAG-CAGGCATTCAATTATAGTCTGTTTTAATAAAAAAAATAAA
*
11551 AAATTAAACTTAAAATCAATTATGAG
64 AAATTTAACTTAAAATCAATTATGAG
11577 NNNNNNNNNN
Statistics
Matches: 808, Mismatches: 274, Indels: 55
0.71 0.24 0.05
Matches are distributed among these distances:
168 7 0.01
169 280 0.35
170 277 0.34
171 146 0.18
172 98 0.12
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (169 bp):
GTTTTTCTACACGTTTCCTGAAGCAGGCATTCAATTATAGTCTGTTTTAATAAAAAAAATAAAAA
ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAGTGAGTAATAACGCTTTTGAAGAA
ATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
Found at i:11293 original size:170 final size:170
Alignment explanation
Indices: 10298--11576 Score: 784
Period size: 170 Copynumber: 7.5 Consensus size: 170
10288 NNNNNNNNNA
* * *
10298 GTTTTTCTATAGGTTTCTTGATGCATGG-ATTCAATTATAGTCTATTTTAATGACAAATGTAAAA
1 GTTTTTCTATAGGTTTCTTGAGGCA-GGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
* * * * * *
10362 AA-TCAACTTAAAATCAATTATAAGATTATAAAACTATTTAAAACAAGTAATATGGC-TTCTGAA
65 AATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-GAA
* * * * * *
10425 GGAATGGGTGACTATAAATGGACTTTTCTTACC-TATGAATGT
129 GAAATGAGAGACTATAAATGGACTTTTCTT-CCAAATAAATGG
* ** **** * * *
10467 CTTTTTCT-TCACTTTTCTTGATATTGACATTCAATTATAATCTGTTTTAACT-AAAAAAGTAAA
1 GTTTTTCTAT-AGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAA-TGAAAAATGTAAA
* * * *
10530 ACTAATTGAACTTCAAATCAATTATGAGATT-TATAAACCTTTTAAAGCGAGTAATGAGGCCTTT
64 A--AATTTAACTTAAAATCAATTATGAGATTATA-AAACCATTTAAAGCGAGTAATAAGG-CTTT
********** *
10594 -NNNNNNNNNNGAGACTATAAATGGACTTTTCTTCCAAATAAATAG
125 CGAAGAAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * * * * **
10639 GTTTTTCTACACG-TTCCTGAAGCAGGCATGCAATTATAGTCTGTTTTAATAAAAAAAATAAAAA
1 GTTTTTCTATAGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
* * * * * *
10703 ATTTAACTCAAAATCAATTATGAGATTATAAAACCATTCATAGTGAGTAATAAGGCTTTTGAAGG
66 ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGA
* * *
10768 AATGAGAGAATATAAATGGGCTTTTCTTCTAAATAAATGG
131 AATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * ********
10808 GTTTTT-TATAGGTTTCTTGAGGCAGGCATTCAATTATAGTTTGTTTTAATGAGAAANNNNNNNN
1 GTTTTTCTATAGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
** * * * * * * * *
10872 NNTCAACTTAAAATCAATTATGAGAGTATAAATCCTTTTAAAGCGACTAATGACGCTTTTGAAGA
66 ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGA
* *
10937 AATGAGAGACTATAAATGAACTTTTCTTTCAAATAAATGG
131 AATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * * * * * * * * *
10977 GTTTTTCTACATGTTTCCTAAGGTAGACATTCAATTATAGTGTGTTTTATTAAAAAATATACAAA
1 GTTTTTCTATAGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
* * * **************
11042 ATTTAACTTAAAATCAATTATGAGATTATAAAACTATTTAAGGTGAGTAATNNNNNNNNNNNNNN
66 ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGA
**********
11107 NNNNNNNNNTTATAAATGGACTTTTCTTCCAAATAAATGG
131 AATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * *
11147 GTTTTTCTATAGGCTTCTTGAGGCAGGGATTCAATTATAGTCTATTTTAATGAGAAATGTAAAAA
1 GTTTTTCTATAGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
* * * * *
11212 ATTTAACTTAAAATGAATTATGAAATTATAAAACCATTTAAAACGAGCAACAAGGCTTTCGAAGA
66 ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGA
* * * * * * *
11277 AATGAGTGACTATAAATGAATTTTTCTTGTC-TATGAATGC
131 AATGAGAGACTATAAATGGACTTTTCTT-CCAAATAAATGG
* * * * * * * * * * * *
11317 CTTTTTCTTTACGTTTCTTCACGTAGACATTTAATTATAATCTATTTTAACCTAAAAAAT-AAAA
1 GTTTTTCTATAGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAA--TGAAAAATGTAAA
* ** * * **********
11381 ATAATTGAACTT-AAATCAACGATGAGATTACAAAACCATTTAAAGCAAGTAATANNNNNNNNNN
64 A-AATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGA
* * * *
11445 AGGAATGAGTGACTATAAATAGACTTTTCTTTCAAATAAATGG
128 AGAAATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
* * * * * * * * *
11488 GTTTTTCTACACGTTTCTCGAGACAAGTATTCAACTATAGTATGTTTTAATGAAAAATATAAAAA
1 GTTTTTCTATAGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
*
11553 ATTAAACTTAAAATCAATTATGAG
66 ATTTAACTTAAAATCAATTATGAG
11577 NNNNNNNNNN
Statistics
Matches: 814, Mismatches: 273, Indels: 45
0.72 0.24 0.04
Matches are distributed among these distances:
168 10 0.01
169 274 0.34
170 285 0.35
171 150 0.18
172 92 0.11
173 1 0.00
174 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (170 bp):
GTTTTTCTATAGGTTTCTTGAGGCAGGCATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAA
ATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGA
AATGAGAGACTATAAATGGACTTTTCTTCCAAATAAATGG
Found at i:11315 original size:21 final size:21
Alignment explanation
Indices: 11286--11325 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11276 AAATGAGTGA
11286 CTATAAATGAATTTTTCTTGT
1 CTATAAATGAATTTTTCTTGT
* **
11307 CTATGAATGCCTTTTTCTT
1 CTATAAATGAATTTTTCTT
11326 TACGTTTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.53
Consensus pattern (21 bp):
CTATAAATGAATTTTTCTTGT
Found at i:12160 original size:170 final size:169
Alignment explanation
Indices: 11898--12483 Score: 663
Period size: 170 Copynumber: 3.5 Consensus size: 169
11888 ATTCATAGGC
* * * * *
11898 AAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGCCTTAGTACTCGCTTTAAATAGTTTTC
1 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
********** * * *
11963 TAATCTCATAANNNNNNNNNNGTTGAATTTTTTACATTTCTCATTAAAATATATTATAATTGAAT
66 TAATCTCATAATTGATTGTAAGTTGAATTTTTTACATTTTTCATTAAAACATACTATAATTGAAT
* * **
12028 GCCTGCCTTAAGAAACCAATAGAAAAATCCATTTATTTCG
131 GCTTGTCTCGAGAAACCAATAGAAAAATCCATTTATTT-G
* * * *
12068 AAGAAAAGTCCATTTATAATCTCCCATTCCTTCAAAAGCCTTGTTACTCACCTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
* * *
12133 TAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTCAATAAAACAAACTATAATTGAAT
66 TAATCTCATAATTGATTGTAAGTTGAATTTTTTACATTTTTCATTAAAACATACTATAATTGAAT
* *
12198 GCTTGTCTCGGGAAA-CATATAGAAAAATCTATTTATTTG
131 GCTTGTCTCGAGAAACCA-ATAGAAAAATCCATTTATTTG
* * * ** * * * **
12237 AAAGAAAAGTCTATTGATAGTCTCTCATTTTTTCAAAAGCCTCATTAGTCGCTTTAAAAGAATTT
1 -AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
* * * *
12302 ATAATCTCATAATTGATTGTAGGTTGACTTTTTTACATTTTTTATGAAAACATACTATAATTGAA
65 ATAATCTCATAATTGATTGTAAGTTGAATTTTTTACATTTTTCATTAAAACATACTATAATTGAA
* *
12367 TGCTTGTCTCGAGAAACCTATAG-AAAACCCATTTATTTGG
130 TGCTTGTCTCGAGAAACCAATAGAAAAATCCATTTATTT-G
* * * *
12407 AAGAAAAGTTCATTTATATTCTCTCATTCCGTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
12472 TAATCTCATAAT
66 TAATCTCATAAT
12484 NNNNNNNNNN
Statistics
Matches: 345, Mismatches: 67, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
169 81 0.23
170 263 0.76
171 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.38
Consensus pattern (169 bp):
AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTA
TAATCTCATAATTGATTGTAAGTTGAATTTTTTACATTTTTCATTAAAACATACTATAATTGAAT
GCTTGTCTCGAGAAACCAATAGAAAAATCCATTTATTTG
Found at i:13030 original size:12 final size:12
Alignment explanation
Indices: 13009--13040 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12999 CTGCCTCAAG
*
13009 AAACCTATAGAA
1 AAACCCATAGAA
13021 AAACCCATAGAA
1 AAACCCATAGAA
13033 AAACCCAT
1 AAACCCAT
13041 TTCTTTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.25, G:0.06, T:0.12
Consensus pattern (12 bp):
AAACCCATAGAA
Found at i:13574 original size:170 final size:170
Alignment explanation
Indices: 12754--13666 Score: 739
Period size: 170 Copynumber: 5.3 Consensus size: 170
12744 NCTTTAAATG
* * *
12754 GTTTTGTAATCTCATAATTGATTTTAAGTTCAATTATTTTTAC--TTTTTAGGTTAAAACAGATT
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAA-T-TTTTTACATTTTTTA--TTAAAATAGATT
* * * * * * ** * ** * *
12817 ATAATTGAATGTCTACATGAAGAAACATAAAGAAAAAGGCATTAATAAGCAAGAAAAATCCATTT
62 ATAATTGAATGCCTGCCTCAAGAAACCTATAGAAAAACCCATTTATTTGAAAGAAAAGTCCATTT
* * * * * * * *
12882 ACAGTCACCCGTTCTTTCGAAAGGCTTGTTGCTCGCTTT-AAATTA
127 ATAGTCATCCATTCCTTCAAAAGCCTTATTACTCGCTTTGAAA--A
* * * * * * *
12927 G-TTTATAATTTCATAATTGATTTTAAGTTGAAGTTTTTACATTTCTCATTAAAACAAACTATAA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTATTAAAATAGATTATAA
* *
12991 TTGAATGCCTGCCTCAAGAAACCTATAGAAAAACCCATAGAAAAACCCATTTCTTTGGAAGAAAA
66 TTGAATGCCTGCCTCAAGAAACC--T----------ATAGAAAAACCCATTTATTTGAAAGAAAA
* * * * * ** * **
13056 GCCCATTTATATTCTTTCTTTATTTCAAAAGACTTATTACTCGCTTTGAATG
119 GTCCATTTATAGTCATCCATTCCTTCAAAAGCCTTATTACTCGCTTTGAAAA
* * * * * *
13108 GTTTTACAATCTCATCATTGATTTTAAGTTAAATGTTTTATATTTTTTATTAAAACT-GAGTATA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTATTAAAA-TAGATTATA
* * *
13172 ATTGCATGCCTGTCTCAAGAAACGTATAGAAAAACCCATTTATTTAGAAA-AAAAGTCCATTTAT
65 ATTGAATGCCTGCCTCAAGAAACCTATAGAAAAACCCATTTATTT-GAAAGAAAAGTCCATTTAT
** * *
13236 AGTCATCCATTTTTTTAAAAGCGC-TATTACTCGCTTTAAAAA
129 AGTCATCCATTCCTTCAAAAGC-CTTATTACTCGCTTTGAAAA
* * *
13278 GTTTTATAATCTCATAATTGATTTCAAGTTCAATTATTTTTAC-TTTTTTAGTTAAAACAGATTA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAA-T-TTTTTACATTTTTTA-TTAAAATAGATTA
* * * * ** * * ** *
13342 TAATTAAATGTCTACATCAAGAAAAGTGA-AGAAAAAGCCATTCATAGGTAAGAAAAGTCCATTT
63 TAATTGAATGCCTGCCTCAAGAAACCT-ATAGAAAAACCCATTTATTTGAAAGAAAAGTCCATTT
* * * * *
13406 ATAGTCACCCATTCCTTCAAAAGCCTTAGTACTTGTTTTGAATA
127 ATAGTCATCCATTCCTTCAAAAGCCTTATTACTCGCTTTGAAAA
* * ***
13450 GTTTTATAACCTCATAATTAATTTTAAGTTGAATTTTTTACATTTCGCATTAAAATAGATTATAA
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTATTAAAATAGATTATAA
* * * *
13515 TCGAATGCCTGCCTTAAGAAACCTATAGAAAAACCTATTTATTTGAAAGAAAAGTCCATTTATAA
66 TTGAATGCCTGCCTCAAGAAACCTATAGAAAAACCCATTTATTTGAAAGAAAAGTCCATTTATAG
* *
13580 TCTTCCATTCCTTCAAAAGCCTTATTACTCGCCTT-AAAA
131 TCATCCATTCCTTCAAAAGCCTTATTACTCGCTTTGAAAA
*
13619 GGTTTTAAAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTT
1 -GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTT
13667 NNNNNNNNNN
Statistics
Matches: 583, Mismatches: 128, Indels: 61
0.76 0.17 0.08
Matches are distributed among these distances:
169 4 0.01
170 271 0.46
171 21 0.04
172 156 0.27
173 2 0.00
180 1 0.00
181 1 0.00
182 125 0.21
183 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (170 bp):
GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTACATTTTTTATTAAAATAGATTATAA
TTGAATGCCTGCCTCAAGAAACCTATAGAAAAACCCATTTATTTGAAAGAAAAGTCCATTTATAG
TCATCCATTCCTTCAAAAGCCTTATTACTCGCTTTGAAAA
Found at i:14592 original size:21 final size:21
Alignment explanation
Indices: 14568--14607 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14558 GAATGGGTGA
14568 CTATAAATGAATTTTTCTTGT
1 CTATAAATGAATTTTTCTTGT
* **
14589 CTATGAATGCCTTTTTCTT
1 CTATAAATGAATTTTTCTT
14608 TGCGTTTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.53
Consensus pattern (21 bp):
CTATAAATGAATTTTTCTTGT
Found at i:15775 original size:172 final size:171
Alignment explanation
Indices: 14980--15819 Score: 462
Period size: 170 Copynumber: 4.9 Consensus size: 171
14970 NNNNNNNNNN
* * * * *
14980 TAAAACCATTTAAAACGAGTAATAAGGCTTTTGACGGAATGAGA-GAATATAAATAGACTTTTC-
1 TAAAACCTTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GATGACTATAAATGGACTTTTCT
* * * * * *
15043 TTCCAAATAAATG-GGTTTTCTAT-AGCTTT-TTCGAGGCAGGCATTCAATTACAGTCTGTTTTA
65 TTCTAAATAAATGCGTTTTTCTATAAG-TTTCTT-GAGACAGGCATTCAATTATAATCTATTTTA
* *
15105 ATAAAAAA-TATAAAAAA-GTAAACTCAAAATCAATTATGAGATTA
128 ATAAAAAAGTA-AAAAAATG-GAACTTAAAATCAATTATGAGATTA
* * * ****************
15149 TAAATCCTTTTAAAGCGACTAATGAGGCTTNNNNNNNNNNNNNNNNCTATAAATGGACTTTTC-T
1 TAAAACCTTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGATGACTATAAATGGACTTTTCTT
* * * * * * * ** *
15213 TCCAAATAAATGGGTTTTTCTACACGTTTCCTAAGGA-AGGCATTCAATTATAGTCCGTTTTATT
66 TCTAAATAAATGCGTTTTTCTATAAGTTTCTTGA-GACAGGCATTCAATTATAATCTATTTTAAT
* ** ********** *
15277 GAAAAA-TATAAAAAATTCAACTNNNNNNNNNNTATGAGATTT
130 AAAAAAGTA-AAAAAATGGAACTTAAAATCAATTATGAGATTA
* * * * *
15319 TAAAACCATTTAAGGCGAGTAATAAGGCTTTTGAAGGAATGGAAGATTATAAATGGACTTTTGTT
1 TAAAACCTTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGATGACTATAAATGGACTTTTCTT
* * * * * *
15384 TC-AAATAAATGGGTTTTTCTATAGGTTTCCTAAGACAAGCATTCGATTATAATCTATTTTAATG
66 TCTAAATAAATGCGTTTTTCTATAAGTTTCTTGAGACAGGCATTCAATTATAATCTATTTTAAT-
* * ********** *
15448 AGAAATGT-AAAAANNNNNNNNNNAAATTAATTATGAGATTA
130 AAAAAAGTAAAAAAATGGAACTTAAAATCAATTATGAGATTA
* *
15489 TAAAA--TTATTCAAAACGAGTACTAAGGCTTTTGAAGGAATAGG-TGACTATAAATGGACTTTT
1 TAAAACCTT-TT-AAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGATGACTATAAATGGACTTTT
* ** * ** * * *
15551 CTTACCT--ATGGATGCCTTTTTCT-TCACTTTTCTTGATG-TAGACATTCAATTATAATCTGTT
63 CTT-TCTAAATAAATGCGTTTTTCTAT-AAGTTTCTTGA-GACAGGCATTCAATTATAATCTATT
*
15612 TTAACTAAAAAAGTAAAAATAATGGAACTTGAAATCAATTATGAGATTA
125 TTAA-TAAAAAAGTAAAAA-AATGGAACTTAAAATCAATTATGAGATTA
* * * *
15661 TAAAACCTTTTAAAGCGAGTAATAACGTTTTTAAAAGAATGGATGACTATAAATGGACTTTT-TT
1 TAAAACCTTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGATGACTATAAATGGACTTTTCTT
* * * *
15725 TCTAAATAAATGTGTTTTTCTATAAGTTTCTTGAGACAGGCATGCAATTATACTCAATTTTAATA
66 TCTAAATAAATGCGTTTTTCTATAAGTTTCTTGAGACAGGCATTCAATTATAATCTATTTTAATA
**
15790 AAAAA-TATAAAAAATTTAACTTAAAATCAA
131 AAAAAGTA-AAAAAATGGAACTTAAAATCAA
15820 NNNNNNNNNN
Statistics
Matches: 491, Mismatches: 152, Indels: 55
0.70 0.22 0.08
Matches are distributed among these distances:
168 1 0.00
169 58 0.12
170 285 0.58
171 34 0.07
172 108 0.22
173 3 0.01
174 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.34
Consensus pattern (171 bp):
TAAAACCTTTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGATGACTATAAATGGACTTTTCTT
TCTAAATAAATGCGTTTTTCTATAAGTTTCTTGAGACAGGCATTCAATTATAATCTATTTTAATA
AAAAAGTAAAAAAATGGAACTTAAAATCAATTATGAGATTA
Found at i:15921 original size:12 final size:12
Alignment explanation
Indices: 15904--15935 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15894 TTCCAAAGAA
15904 ATGGGTTTTTCT
1 ATGGGTTTTTCT
15916 ATGGGTTTTTCT
1 ATGGGTTTTTCT
*
15928 ATAGGTTT
1 ATGGGTTT
15936 CTTGAGNNNN
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.25, T:0.56
Consensus pattern (12 bp):
ATGGGTTTTTCT
Found at i:17251 original size:172 final size:166
Alignment explanation
Indices: 16952--17469 Score: 459
Period size: 170 Copynumber: 3.0 Consensus size: 166
16942 NNNNNNNNNN
* * * * **
16952 GCGAGTACTAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTACC-TATGAATGCC
1 GCGAGTAATAAGGCTTTT-AAAGAATGAGTGACTATAAATGGACTTTTCTT-CCAAAT-AAAGGG
* * * * * * * * *
17016 TTTTTCTTCAC-TTTCTTAATGTAGACATTTAATTATAATATGTTTTAACTAAAAAAAGTAAAAA
63 TTTTTCTACACGTTTCTT-AGGCAGGCATTCAATTATAGTCTGTTTT-ACTGAAAAATGT-AAAA
* * * *
17080 TAATTGAACTTGAAATCAATTATGAGATTATAAAATCTTTTAAT
125 -AATTCAACTT-AAATCAATTATGAGATTATAAAACCATTTAAA
*
17124 GCGAGTAATAATGCTTTTAAAGTAAT-AGGTGACTATAAATGGACTTTTCTTCCAAATAAAGGAG
1 GCGAGTAATAAGGCTTTTAAAG-AATGA-GTGACTATAAATGGACTTTTCTTCCAAATAAAGG-G
* *
17188 TTTTTCTACACGTTTCTTGAGGCAGGTATTCAATTATAGTCTGTTTTATTGAAAAATGTAAAAAA
63 TTTTTCTACACGTTTCTT-AGGCAGGCATTCAATTATAGTCTGTTTTACTGAAAAATGTAAAAAA
********* *
17253 TTCAACTTAANNNNNNNNNNGAGATTATAAAACCATTTAAG
127 TTCAACTTAA-ATCAATTATGAGATTATAAAACCATTTAAA
** * * *
17294 GCGAGTAATAAGGCTTTTGAAAGAATGAAAGAATATAAATGGGCTTTTCTTCCAGATAAATGGGT
1 GCGAGTAATAAGGCTTTT-AAAGAATGAGTGACTATAAATGGACTTTTCTTCCAAATAAA-GGGT
* * * * * *
17359 TTTTCTATAGGTTTCTCTAGGCAGGCATTCAATTACAGTCTCTTTTAGTGAGAAATGT-AAAAAT
64 TTTTCTACACGTTTCT-TAGGCAGGCATTCAATTATAGTCTGTTTTACTGAAAAATGTAAAAAAT
*
17423 TCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAA
128 TCAACTT-AAATCAATTATGAGATTATAAAACCATTTAAA
17463 GCGAGTA
1 GCGAGTA
17470 NNNNNNNNNN
Statistics
Matches: 279, Mismatches: 56, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
169 41 0.15
170 127 0.46
171 21 0.08
172 63 0.23
173 27 0.10
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.35
Consensus pattern (166 bp):
GCGAGTAATAAGGCTTTTAAAGAATGAGTGACTATAAATGGACTTTTCTTCCAAATAAAGGGTTT
TTCTACACGTTTCTTAGGCAGGCATTCAATTATAGTCTGTTTTACTGAAAAATGTAAAAAATTCA
ACTTAAATCAATTATGAGATTATAAAACCATTTAAA
Found at i:18535 original size:172 final size:171
Alignment explanation
Indices: 18277--19524 Score: 553
Period size: 172 Copynumber: 7.3 Consensus size: 171
18267 NNNNNNNNNN
* * * * *
18277 AAAAAATTCAACTTAAAATCAATTATAAAATTTTAAAA-TCATTTAAAGCGAGTAGTAAGGCTTT
1 AAAAAATTAAACTTAAAATTAATTATAAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTT
** * * *
18341 TGAAGGAATAAGTGACTATAAATAGACTTTTCTTGCCTATGAATGCCTTTTTCTTCACGTTTCTT
65 TGAAGGAATTGGAGACTATAAAT-GACTTTTCTTGCCAATGAATGCATTTTTCTTCACGTTTCTT
* * * * * **
18406 GACGTAGAGATTCATTTATAATCTGTTTTGATTAAAAACAT-A
129 AACGTAGACATTCAATTATAATCAGTTTTAACCAAAAACATCA
* * * *
18448 AAAATAATTAGACTTAAAATTAATTATCAGATTATAAAACTATTTAAAGAGAGTAATAAGTCTTT
1 AAAA-AATTAAACTTAAAATTAATTATAAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTT
* * * * * * *
18513 TGAAGGAATTGGCGATTATAAATGGACTTTTCTTGTCAATAAATACATTTCTCTTCACGTTTCAT
65 TGAAGGAATTGGAGACTATAAAT-GACTTTTCTTGCCAATGAATGCATTTTTCTTCACGTTTCTT
* **
18578 AAGGTAGACATTCAATTATAATCAGTTTTAACCAAAAATGTCA
129 AACGTAGACATTCAATTATAATCAGTTTTAACCAAAAACATCA
* * * * * *
18621 AACAAGTTAAACTTAAAATTAGTTTTGAGATTATAAAACCT-TTTAAAGCGAGTAAAAAGGCTTT
1 AAAAAATTAAACTTAAAATTAATTATAAGATTATAAAA-CTATTTAAAGCGAGTAATAAGGCTTT
* * *
18685 TGACGGAA-TGAGAGACTATAAATGAACTTTTCTTGCCAATGAATG-TTTTTCTCTTCATGTTTC
65 TGAAGGAATTG-GAGACTATAAATG-ACTTTTCTTGCCAATGAATGCATTTT-TCTTCACGTTTC
* * * * * * * * * * * *
18748 TCAAGGAAAACAATGAATCATAGTCCGTTTTAACAAAAAATATAA
127 TTAACGTAGACATTCAATTATAATCAGTTTTAACCAAAAACATCA
* * * * * ********* **
18793 CAAAAAATTTAACATAAAATCAATTTTGAGA-TANNNNNNNNNNTTAAAGTAAGTAATAAGGCTT
1 -AAAAAATTAAACTTAAAATTAATTATAAGATTA-TAAAACTATTTAAAGCGAGTAATAAGGCTT
* * * ** * *
18857 TTCACA-GAA-TGAGAGACTATAAATGGATTTTTTTTATCAATGAATGCCTTTTTTTTCACGTTT
64 TTGA-AGGAATTG-GAGACTATAAAT-GACTTTTCTTGCCAATGAATGCATTTTTCTTCACGTTT
** * * * *
18920 CTCGATGTAAACATTTAATTATAAT-ATGTTTTAATCAAAAA-AT-A
126 CTTAACGTAGACATTCAATTATAATCA-GTTTTAACCAAAAACATCA
** * * * **********
18964 AAAACAATTGCACTTAAAATCAATTTTGAGATTATAAAACTATTTAANNNNNNNNNNAAGGCTTT
1 AAAA-AATTAAACTTAAAATTAATTATAAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTT
* * * * **
19029 TGAAGGAATGGGAGACTATAAATGGACTCTTCTT-CTAAATAAATG-AGTTTTTCCCCACGTTT-
65 TGAAGGAATTGGAGACTATAAAT-GACTTTTCTTGC-CAATGAATGCA-TTTTTCTTCACGTTTC
* * * * * ** ** **
19091 TCTAAGGCAGGCATTTAATTATAGTCTTTTTTAA--TGAAA-ATTT
127 T-TAACGTAGACATTCAATTATAATCAGTTTTAACCAAAAACATCA
* * * * * * * *
19134 TAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCACTCAAAGCGAGTAATAAGGCTTTT
1 AAAAAATTAAACTTAAAATTAATTATAAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTT
* * * * * * * * *
19199 GAAGGAATGGGAGAATATAAATAGACTTTTCTTTCAAATAAAT-TAGTTTTTCTACAGGTTTTTT
66 GAAGGAATTGGAGACTATAAAT-GACTTTTCTTGCCAATGAATGCA-TTTTTCTTCACGTTTCTT
* * * * ** * **
19263 GA-GGAAAGCATTCAATTATAGTCTA-TTTTAA-TGAGAA-ATGT
129 AACGTAGA-CATTCAATTATAATC-AGTTTTAACCAAAAACATCA
********** * * * * * *
19304 AANNNNNNNNNNTTAAAATCAATTATGAGATTATAAAATTATTTAAAGTGGGTAATAAAGCTTTT
1 AAAAAATTAAACTTAAAATTAATTATAAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTT
* * * * * * * * *
19369 GAAGGGATGGGTGACTATAAATGGACCTTTCTTGCCTATGAATGCCTTTTTATTCACCTTTCTTG
66 GAAGGAATTGGAGACTATAAAT-GACTTTTCTTGCCAATGAATGCATTTTTCTTCACGTTTCTTA
* * * *
19434 ACGTAGACAATCAATTATAATCTGTTTTAACTAAAAAAAT-A
130 ACGTAGACATTCAATTATAATCAGTTTTAACCAAAAACATCA
* * * * *
19475 AAAATAATTGAACATAAAATCAACTATAAAATTATAAAACTATTTAAAGC
1 AAAA-AATTAAACTTAAAATTAATTATAAGATTATAAAACTATTTAAAGC
19525 AAACTATTTC
Statistics
Matches: 806, Mismatches: 236, Indels: 69
0.73 0.21 0.06
Matches are distributed among these distances:
168 2 0.00
169 123 0.15
170 130 0.16
171 121 0.15
172 300 0.37
173 125 0.16
174 5 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.35
Consensus pattern (171 bp):
AAAAAATTAAACTTAAAATTAATTATAAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTT
GAAGGAATTGGAGACTATAAATGACTTTTCTTGCCAATGAATGCATTTTTCTTCACGTTTCTTAA
CGTAGACATTCAATTATAATCAGTTTTAACCAAAAACATCA
Found at i:18811 original size:14 final size:12
Alignment explanation
Indices: 18778--18812 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18768 TAGTCCGTTT
18778 TAACAAAAAATA
1 TAACAAAAAATA
*
18790 TAACAAAAAATT
1 TAACAAAAAATA
*
18802 TAACATAAAAT
1 TAACAAAAAAT
18813 CAATTTTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (12 bp):
TAACAAAAAATA
Found at i:20307 original size:171 final size:171
Alignment explanation
Indices: 19693--21306 Score: 781
Period size: 170 Copynumber: 9.5 Consensus size: 171
19683 CATGTTTCTC
* * * * * * *
19693 AAGGCAGACATTCAATTATAGTTTGCTTTAACTAAAAATGTTAAAAATATTGAACATAAAATCAA
1 AAGGCAGACTTTCAATTATAGTCTGTTTTAACGAAAAATG-TAAAAAAATTCAACTTAAAATCAA
* * * * * * * * * *
19758 TTTTGAGATAATAAAACTATTTAAAGTGAGTAATAAGTCTTTTTAAGGAATGAGAGACAATAAAT
65 TTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAAAT
* * * * *
19823 AGA-TTATTCTTGCC-AATGAAT-GTCTTTTTCTTCACATTT-CT
130 GGACTT-TTCTT-CCAAATAAATAG-GTTTTTCTACACGTTTCCT
* * * * * * * * *
19864 CAATGTAGACATTCAATTGTAATCTATTTTAGCCAAATAA-GTAAAAAAAATTGAACTTAAAATC
1 -AAGGCAGACTTTCAATTATAGTCTGTTTTAACGAAA-AATGT-AAAAAAATTCAACTTAAAATC
********** * * * * *
19928 AATNNNNNNNNNNCAAAACCATTTAAAGTGAGCAATAAGGCCTTTGAAGGAATAGGTGACTATAA
63 AATTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAA
* * *** * *
19993 ATGAACTTTTCTTCCAAATGAATTCATTTTTCTTCACGTTT-AT
128 ATGGACTTTTCTTCCAAATAAATAGGTTTTTCTACACGTTTCCT
* * * * * * *
20036 CGAGGTAGA-TACTCAACTATAGTCTATTTTAATC-AAAAAT-T----TAATTTAACTTAAAAT-
1 -AAGGCAGACT-TTCAATTATAGTCTGTTTTAA-CGAAAAATGTAAAAAAATTCAACTTAAAATC
* * * *
20093 AATTATGAGATTACAAAACCATATAATGTGAGTAATAAGGCTTTTGAAAGAACGGGAGACTATAA
63 AATTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAA
* *
20158 ATGGACTTTTTTTCCAAATAAAT-GGTTTTTCTACATGTTTCCT
128 ATGGACTTTTCTTCCAAATAAATAGGTTTTTCTACACGTTTCCT
* * * * * *
20201 AAGGCAGGCTTTCAATTATAGTCCGTTTTAACCAAAAATGTAAAAACAATTGAACATAAAATCCA
1 AAGGCAGACTTTCAATTATAGTCTGTTTTAACGAAAAATGTAAAAA-AATTCAACTTAAAATCAA
* * * * *
20266 TTTTGAGATAACAAAACCATTTAAAATGAGAAATAAGGCTTTTG-ATGAAATGAGAGACTATAAA
65 TTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAG-AATGGGAGACTATAAA
* * * *
20330 TGGACTATTCTTCCAAATAGATGGGTTTTTTTACACGTTTTCC-
129 TGGACTTTTCTTCCAAATAAATAGGTTTTTCTACACG-TTTCCT
* * * * *
20373 AAGGTA-AATATTTAATTATAGTCTGTTTTAACGAGAAAT-AAAAAAAATTCAACTTAAAATCAA
1 AAGGCAGACT-TTCAATTATAGTCTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAA
* * * * *
20436 TTATGAGATTACAAAACTATTTAAAGTAACTAAA-AGGGCTTTTGAACGAATGGGAGACTATAAA
65 TTATGAGATTACAAAACCATTTAAAGTGA-GAAATAAGGCTTTTGAAAGAATGGGAGACTATAAA
* * * *
20500 TGGACCTTTCTTCTAAATAAATAGGTTTTTCTATACGTTTTCT
129 TGGACTTTTCTTCCAAATAAATAGGTTTTTCTACACGTTTCCT
* * *
20543 AAGGCAGACATTCAATTATTA-TCTTTTTTAATGAAAAATGT-AAAAAATTCAACTTAAAATCAA
1 AAGGCAGACTTTCAATTA-TAGTCTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAA
* ****************** * *
20606 TTATGAGATTATAANNNNNNNNNNNNNNNNNNATAAGGCTTTTGAAGGAATGAGAGACTATAAAT
65 TTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAAAT
* * * * *
20671 GAACTTTTCTTCCAAATAAATAAGTTTTTTTACACCTTTCTT
130 GGACTTTTCTTCCAAATAAATAGGTTTTTCTACACGTTTCCT
* * * * *
20713 AAGGCAGGCATTCAATTATAGTCTGTTTTAATGTAAAAA-GT-AAAAAATTCTACTTAAAATTAA
1 AAGGCAGACTTTCAATTATAGTCTGTTTTAACG-AAAAATGTAAAAAAATTCAACTTAAAATCAA
* * ** * ********** * *
20776 TTATAAGATTATAAAACCATTTAAAACGAGTAATAAGGCTNNNNNNNNNNTAGGTGACTATAAAT
65 TTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAAAT
* * *
20841 GGACTTTTCTTGCC-AATGAAT-GTCTTTTTCTTCACG-TTCCTT
130 GGACTTTTCTT-CCAAATAAATAG-GTTTTTCTACACGTTTCC-T
* * * * * * * * * *
20883 GATGTAGACATTCAATTATAATATATTTTAACTAAAAAAGTAAAAATAATTAAACTTAAAATCAA
1 AAGGCAGACTTTCAATTATAGTCTGTTTTAACGAAAAATGTAAAAA-AATTCAACTTAAAATCAA
* * * * * * * * *
20948 TTATAAGATTATAAAACCTTTTAAAGCGAGTAATAACGCTTTTGAAGGAATGTGAGACTCTAAAT
65 TTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAAAT
* *** * * * * * *
21013 AGACTTTTCTTATTAGTGAAT-GCTTTTTCTTCATGTTT-AT
130 GGACTTTTCTTCCAAATAAATAGGTTTTTCTACACGTTTCCT
* * * * * * * * *
21053 CGAGGTAGACATTCAATTATAGTTTGTCTTAACTAAAAATGTAAAAAGAATTGAGCATAAAATCA
1 -AAGGCAGACTTTCAATTATAGTCTGTTTTAACGAAAAATGTAAAAA-AATTCAACTTAAAATCA
* * * * *********** * * *
21118 ATTTTGAGATAATAAAACTATNNNNNNNNNNTAATAAGGCTTTTGAAGGAATGGGTGACTATACA
64 ATTATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAAA
* ** * * * *
21183 TGGACTTTTCTTGCTCATAAAT-GCCTTTTTCTTCATGTTGTTC-
129 TGGACTTTTCTTCCAAATAAATAG-GTTTTTCTACACGTT-TCCT
* * * * * * *
21226 AATGTAGACATTCAATTATAG-CTTGTTTTAACTAATAATGTAAAACAAATTAAACATAAAATCA
1 AAGGCAGACTTTCAATTATAGTC-TGTTTTAACGAAAAATGTAAAA-AAATTCAACTTAAAATCA
*
21290 ATTATGAGATTATAAAA
64 ATTATGAGATTACAAAA
21307 NNNNNNNNNN
Statistics
Matches: 1107, Mismatches: 290, Indels: 90
0.74 0.20 0.06
Matches are distributed among these distances:
163 1 0.00
164 41 0.04
165 70 0.06
166 14 0.01
169 15 0.01
170 367 0.33
171 231 0.21
172 356 0.32
173 12 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.34
Consensus pattern (171 bp):
AAGGCAGACTTTCAATTATAGTCTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAAT
TATGAGATTACAAAACCATTTAAAGTGAGAAATAAGGCTTTTGAAAGAATGGGAGACTATAAATG
GACTTTTCTTCCAAATAAATAGGTTTTTCTACACGTTTCCT
Found at i:21020 original size:172 final size:170
Alignment explanation
Indices: 19627--21436 Score: 1078
Period size: 172 Copynumber: 10.6 Consensus size: 170
19617 NNNNNNNNNN
** * * *
19627 TTTGAAGGAATGAGAGACTATAAAAAGACTTTTCTTATCAATGAATG--ATTTTCTTTCATGTTT
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTC-TTCACGTTT
* * * * * * *
19690 CTCAAGGCAGACATTCAATTATAGTTTGCTTTAACTAAAAATGTTAAAAATATTGAACATAAAAT
64 CTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAG-TAAAAAAATTGAACTTAAAAT
* * * *
19755 CAATTTTGAGATAATAAAACTATTTAAAGTGAGTAATAAGTCT
128 CAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* * * *
19798 TTTTAAGGAATGAGAGACAATAAATAGA-TTATTCTTGCCAATGAATGTCTTTTTCTTCACATTT
1 TTTGAAGGAATGAGAGACTATAAATGGACTT-TTCTT-CCAATGAATGTCTTTTTCTTCACGTTT
* * * * * * * *
19862 CTCAATGTAGACATTCAATTGTAATCTATTTTAGCCAAATAAGTAAAAAAAATTGAACTTAAAAT
64 CTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAGT-AAAAAAATTGAACTTAAAAT
*********** * *
19927 CAATNNNNNNNNNNCAAAACCATTTAAAGTGAGCAATAAGGCC
128 CAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* *
19970 TTTGAAGGAAT-AGGTGACTATAAATGAACTTTTCTTCCAAATGAAT-TCATTTTTCTTCACGTT
1 TTTGAAGGAATGA-GAGACTATAAATGGACTTTTCTTCC-AATGAATGTC-TTTTTCTTCACGTT
* ** * * * * * ** *
20033 TATCGAGGTAGATACTCAACTATAGTCTATTTTAA-TCAAAAA-T---TTAATTTAACTTAAAAT
63 TCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAGTAAAAAAATTGAACTTAAAAT
* * *
20093 -AATTATGAGATTACAAAACCATATAATGTGAGTAATAAGGCT
128 CAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* * * * * * * *
20135 TTTGAAAGAACGGGAGACTATAAATGGACTTTTTTTCCAAATAAATG-GTTTTTCTACATGTTTC
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTCC-AATGAATGTCTTTTTCTTCACGTTTC
* * * * * * * *
20199 CTAAGGCAGGCTTTCAATTATAGTCCGTTTTAACCAAAAATGTAAAAACAATTGAACATAAAATC
65 TTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAGTAAAAA-AATTGAACTTAAAATC
* * * * * *
20264 CATTTTGAGATAACAAAACCATTTAAAATGAGAAATAAGGCT
129 AATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* * * **
20306 TTTGATGAAATGAGAGACTATAAATGGACTATTCTTCCAAAT-AGATGGGTTTTT-TTACACGTT
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTCC-AATGA-ATGTCTTTTTCTT-CACGTT
* * * * * * *
20369 T-TCCAAGGTAAATATTTAATTATAGTCTGTTTTAAC-GAGAAA-TAAAAAAAATTCAACTTAAA
63 TCT-TAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAGT-AAAAAAATTGAACTTAAA
* * * *
20431 ATCAATTATGAGATTACAAAACTATTTAAAGTAACTAA-AAGGGCT
126 ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA-GGCT
* * * * * *
20476 TTTGAACGAATGGGAGACTATAAATGGACCTTTCTTCTAAATAAATAG-GTTTTTCTAT-ACGTT
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTC-CAATGAAT-GTCTTTTTCT-TCACGTT
* * * *
20539 T-TCTAAGGCAGACATTCAATTATTA-TCTTTTTTAA-TGAAAAATGT-AAAAAATTCAACTTAA
63 TCT-TAAGGTAGACATTCAATTA-TAGTCTGTTTTAACT-AAAAAAGTAAAAAAATTGAACTTAA
******************
20600 AATCAATTATGAGATTATAANNNNNNNNNNNNNNNNNNATAAGGCT
125 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* * * *
20646 TTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTCCAAATAAATAAGT-TTTTT-TACACCTT
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTCC-AATGAAT--GTCTTTTTCTTCACGTT
* * * **
20709 TCTTAAGGCAGGCATTCAATTATAGTCTGTTTTAA-TGTAAAAAGT-AAAAAATTCTACTTAAAA
63 TCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAAAGTAAAAAAATTGAACTTAAAA
* * **
20772 TTAATTATAAGATTATAAAACCATTTAAAACGAGTAATAAGGCT
127 TCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
********** * *
20816 NNNNNNNNNNT-AGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTC
1 TTTGAAGGAATGA-GAGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCACGTTT
* * * * * *
20880 CTTGATGTAGACATTCAATTATAATATATTTTAACTAAAAAAGTAAAAATAATTAAACTTAAAAT
64 CTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAGTAAAAA-AATTGAACTTAAAAT
* * * *
20945 CAATTATAAGATTATAAAACCTTTTAAAGCGAGTAATAACGCT
128 CAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* * * ** * * *
20988 TTTGAAGGAATGTGAGACTCTAAATAGACTTTTCTTATTAGTGAATG-CTTTTTCTTCATGTTTA
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCACGTTTC
** * * * * *
21052 TCGAGGTAGACATTCAATTATAGTTTGTCTTAACTAAAAATGTAAAAAGAATTGAGCATAAAATC
65 TTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAGTAAAAA-AATTGAACTTAAAATC
* * * **********
21117 AATTTTGAGATAATAAAACTATNNNNNNNNNNTAATAAGGCT
129 AATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* * * * * *
21159 TTTGAAGGAATGGGTGACTATACATGGACTTTTCTTGCTC-ATAAATGCCTTTTTCTTCATGTTG
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTT-C-CAATGAATGTCTTTTTCTTCACGTT-
* * * * * *
21223 T-TCAATGTAGACATTCAATTATAG-CTTGTTTTAACTAATAATGTAAAACAAATTAAACATAAA
63 TCTTAAGGTAGACATTCAATTATAGTC-TGTTTTAACTAAAAAAGTAAAA-AAATTGAACTTAAA
*********** *
21286 ATCAATTATGAGATTATAAAANNNNNNNNNNCGAGTAATAGGGCT
126 ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
* * * * *
21331 TTTGAATGAATGAGAGGCTCTAAATGGACTTTTCTTACCAATGAATGTTTTTTTCTTCACATTTC
1 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTT-CCAATGAATGTCTTTTTCTTCACGTTTC
* *
21396 TTAATGTAGACATTCAATTATAATCTGTTTTAA-TCAAAAAA
65 TTAAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAAA
21437 NNNNNNNNNN
Statistics
Matches: 1256, Mismatches: 327, Indels: 111
0.74 0.19 0.07
Matches are distributed among these distances:
164 35 0.03
165 70 0.06
166 15 0.01
168 2 0.00
169 10 0.01
170 366 0.29
171 289 0.23
172 459 0.37
173 10 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTCCAATGAATGTCTTTTTCTTCACGTTTCT
TAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAAGTAAAAAAATTGAACTTAAAATCAA
TTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
Found at i:21866 original size:172 final size:169
Alignment explanation
Indices: 21507--22196 Score: 509
Period size: 172 Copynumber: 4.0 Consensus size: 169
21497 NNNNNNNNNN
* * * * *
21507 TTTAAAGTGATTAACAAGGCTTTTGAAAGAATGGGTGACTATAAAT-AGACTTTTCTTGCCAATA
1 TTTAAAGCGAGTAATAAGGCTTTT-AAAG-ATAGGTGACTATAAATGA-ACTTTTCTTGCCAATG
* * * * * *
21571 AATGCTTTTCTCTTCACATTTTATGAGGTAGACAG-TCAATTAGAATCTATTTTTACCAAAAAAG
63 AATGCTTTTCTCTTCACGTTTCATGAGGTAGAC-GTTCAATTATAATCTATTTTAACTAAAAATG
* *
21635 TAAAAATAATTGAACTTAAAATAAATTATGAGATTATAAATCCA
127 TAAAAA-AATTGAACTTAAAATCAATTTTGAGATTATAAATCCA
* * *
21679 TTTAATGCAAGTAATAAGGCTTTTAAAAGAGTAGGTGACTATAAATGAACTTTTCTTGTCAATGA
1 TTTAAAGCGAGTAATAAGGCTTTT-AAAGA-TAGGTGACTATAAATGAACTTTTCTTGCCAATGA
* * *
21744 ATGCCTTTCTCTTCACGTTTCATGAGATAGACGTTCAATTATAATCTATTTTAAATAAAAATGTA
64 ATGCTTTTCTCTTCACGTTTCATGAGGTAGACGTTCAATTATAATCTATTTTAACTAAAAATGTA
*********
21809 ATAAAAATTGAACTTAAAATCAATTTTGAGATTNNNNNNNNN
129 A-AAAAATTGAACTTAAAATCAATTTTGAGATTATAAATCCA
* * * *
21851 NTTAAAGCGAGTAATAAGGCTTTTGAAGA-A-ATGAGC-ATAAATGGACTTTTCTTGCCAATGAA
1 TTTAAAGCGAGTAATAAGGCTTTTAAAGATAGGTGA-CTATAAATGAACTTTTCTTGCCAATGAA
* * * ** * * * * *
21913 TGTTTTTTTCTTCATGTTTGTTAAGGCAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAA
65 TGCTTTTCTCTTCACGTTTCATGAGGTAGACGTTCAATTATAATCTATTTTAACTAAAAATGTAA
* *
21978 AAAAATTTGAACATAAAATCAATTTTGAGATAATAAAAT-CA
130 AAAAA-TTGAACTTAAAATCAATTTTGAGATTAT-AAATCCA
********** * * * * * *
22019 TTTAAAGNNNNNNNNNNGGCTTTTCAAGGAATGGGAGACTATAAATGGATTTTTCTTGCTAATGA
1 TTTAAAGCGAGTAATAAGGCTTTT-AAAG-ATAGGTGACTATAAATGAACTTTTCTTGCCAATGA
* * * * * * * * *
22084 ATACCTTTT-TCTTCATGTTTCTTAATGTATACATTCAATTATAA--TATGTTT-AGTAAAAAAA
64 AT-GCTTTTCTCTTCACGTTTCATGAGGTAGACGTTCAATTATAATCTAT-TTTAACT-AAAAAT
* * *
22145 GTAAAACAAATTAAACTTAAAATAAATTTTGAGATTATAAAACCA
126 GTAAAA-AAATTGAACTTAAAATCAATTTTGAGATTATAAATCCA
22190 TTTAAAG
1 TTTAAAG
22197 TGAACAATAA
Statistics
Matches: 409, Mismatches: 92, Indels: 35
0.76 0.17 0.07
Matches are distributed among these distances:
167 5 0.01
168 116 0.28
169 4 0.01
170 8 0.02
171 54 0.13
172 214 0.52
173 8 0.02
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.36
Consensus pattern (169 bp):
TTTAAAGCGAGTAATAAGGCTTTTAAAGATAGGTGACTATAAATGAACTTTTCTTGCCAATGAAT
GCTTTTCTCTTCACGTTTCATGAGGTAGACGTTCAATTATAATCTATTTTAACTAAAAATGTAAA
AAAATTGAACTTAAAATCAATTTTGAGATTATAAATCCA
Done.