Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403065.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_73.0, 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: 29502
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.23
Warning! 10113 characters in sequence are not A, C, G, or T
Found at i:5261 original size:171 final size:169
Alignment explanation
Indices: 4665--5670 Score: 784
Period size: 171 Copynumber: 5.9 Consensus size: 169
4655 NNNNNNNNNN
* * * * * * *
4665 AAAGTCTATTTATAGTCACCCATACCTTCAAAAACTTTATTGCTCGCTTTAAATGCTTTTATGAT
1 AAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACACGCTTTAAATGGTTTTAT-AT
* * * * * * * * * *
4730 GTCATAATTAATTTGAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGATTATAAATGAATGTC
65 ATCATAATTGATTTTAAGTTGAATATTTTTACATTTTTGGTTAAAAAAGACTACAATTGAATGTC
** * * * *
4795 TACCTTGAGAAACATGAAGAAAAGGTACTCATCGGCAAGA
130 TACCTCAAGAAACATGAAGAAAAAGTAATCATTGACAAGA
* * * *
4835 AAAGTCCATTTATAGTCGCCCATTCCTTCAAAAGGCTTATTACACACTTTAAATGGTTTTATAAT
1 AAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACACGCTTTAAATGGTTTTAT-AT
* * * * *
4900 CTCAAAATTGATTTAAAGTTGAATCTTTTTACATTTTTGGTT-AAAAAGGCTACAATTGAATGTC
65 ATCATAATTGATTTTAAGTTGAATATTTTTACATTTTTGGTTAAAAAAGACTACAATTGAATGTC
* *** * * ** * * * *
4964 TATCTTGGGGAACGTGAAGCTAAAGCCAACCATTGATATGA
130 TACCTCAAGAAACATGAAGAAAAAG-TAATCATTGACAAGA
** * * * * * ********** * *
5005 AAAGAACATTTGTAATCACTCAAGCCTTCGAAAGCCTTNNNNNNNNNNTTAAATGGTTTTGTAAA
1 AAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATATA
* * * * *
5070 CTAATAATTGTTTTTTAAGTTGAGTATTTTTACATTTTTGGTGAAAAAAGACTAGAATTGAATGT
66 -TCATAATTG-ATTTTAAGTTGAATATTTTTACATTTTTGGTTAAAAAAGACTACAATTGAATGT
* *
5135 CTACCTCAAGAAACATGAAGAAAAATGTATTTATTGACAAGA
129 CTACCTCAAGAAACATGAAGAAAAA-GTAATCATTGACAAGA
* * * *
5177 AAAGTCTATTTAAAGTCACCCATGCCTTCAAAAGCTTTATTGCACGCTTTAAATGGTTTTATGAT
1 AAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACACGCTTTAAATGGTTTTAT-AT
* * * * * *
5242 ATCATAATTGATTTTAAGTTGAATCTTTTTACATTTTTAGTTAAAACAGATTATAATTGAATGCC
65 ATCATAATTGATTTTAAGTTGAATATTTTTACATTTTTGGTTAAAAAAGACTACAATTGAATGTC
* * *
5307 TACCCCAAGAAACATG-A-AAAAAGTTATTCATCGACAAGA
130 TACCTCAAGAAACATGAAGAAAAAG-TAATCATTGACAAGA
* * * * *
5346 AAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATAGCTTTATAAT
1 AAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACACGCTTTAAATGGTTTTAT-AT
* * * * * * *
5411 CTCAAAATT-TTTATTAAGTTGAATCTTTTTAGATTTTTGGTTAAAAAATG-CCACAATTGCATG
65 ATCATAATTGATT-TTAAGTTGAATATTTTTACATTTTTGGTTAAAAAA-GACTACAATTGAATG
* * * * * * * * **
5474 TCTGCCTTAGGGAACATGAAGCAAAAGCCAACCATTGGCCCGA
128 TCTACCTCAAGAAACATGAAGAAAAAG-TAATCATTGACAAGA
* * * * * *
5517 AAAGTCCATTTATAGTCACTCAAGCCTTCGAAAGCCTTAATACTA-GGTTTAAATGGTTTTATAA
1 AAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTAC-ACGCTTTAAATGGTTTTATAT
* * * * *
5581 ACTAATAATTGTTTTTAAGTTGAGTATTTTTACATTTTTTGTTAAAACAA-ACTAGAATTGAATG
65 A-TCATAATTGATTTTAAGTTGAATATTTTTACATTTTTGGTTAAAA-AAGACTACAATTGAATG
5645 TCTACCTCAAGAAACATGAAGAAAAA
128 TCTACCTCAAGAAACATGAAGAAAAA
5671 AGCATTCAAA
Statistics
Matches: 642, Mismatches: 178, Indels: 31
0.75 0.21 0.04
Matches are distributed among these distances:
168 3 0.00
169 169 0.26
170 150 0.23
171 218 0.34
172 99 0.15
173 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (169 bp):
AAAGTCCATTTATAGTCACCCATGCCTTCAAAAGCCTTATTACACGCTTTAAATGGTTTTATATA
TCATAATTGATTTTAAGTTGAATATTTTTACATTTTTGGTTAAAAAAGACTACAATTGAATGTCT
ACCTCAAGAAACATGAAGAAAAAGTAATCATTGACAAGA
Found at i:7546 original size:171 final size:168
Alignment explanation
Indices: 7197--8146 Score: 871
Period size: 171 Copynumber: 5.6 Consensus size: 168
7187 ATGTTCAAAT
* * * * * *
7197 TCAACTTAAAATAAATTTTGAGATTATAAAGCTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTA
* *
7262 TGGGTGACTATAAATGGACTTTTCTT-CTCGATGAAT-AACTTTT-TTCATGTTTCTTGAGGTAG
66 T-GGTGACTATAAATGGACTTTTCTTGC-CAATGAATGCA-TTTTCTTCATGTTTCTTGAGGTAG
* * * *
7324 GCATTCAATTATAAT-TTGTTTAAACTAAAAATGTAAAAAGA-
128 ACATTCAATTATAGTCTT-TTT-AACCAAAAATGTAAAAATAC
* ** * * *
7365 TCCAACTTAAAATCAATTATGACATCGTAAAACCATTTAAAGCGAGCAATAAAGCTTTTGGAGGT
1 T-CAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGT
* *
7430 ATAGGTGACTATAAATGGACTTTTCTTGTCAATAAATGCATTTCTCTTCATGTTTCTTGAGGTAG
65 AT-GGTGACTATAAATGGACTTTTCTTGCCAATGAATGCATTT-TCTTCATGTTTCTTGAGGTAG
* *
7495 ACATTCAATTCTAGTCTTTTTCCACCAAAAATGTAAAAATAC
128 ACATTCAATTATAGTCTTTTT-AACCAAAAATGTAAAAATAC
* * * * * * *
7537 TCAACTTAAAAACAATTATTAGTTTACAAAACCATTTAAACCAAGTAATAAGGC-TTTCATAGGC
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA-AGG-
* * * * ** * **
7601 T-TGAGTGATTACAAATGGACTTTTCGTACCAATGGTTGGC-TTTTGCTTCACG-TTCTCCAAGG
64 TATG-GTGACTATAAATGGACTTTTCTTGCCAATGAAT-GCATTTT-CTTCATGTTTCT-TGAGG
* * * * * * *
7663 CAGAGATTCAATTGTAGCCTTTTTTAACTAAAAATGTAAAAAGAT
125 TAGACATTCAATTATAGTC-TTTTTAACCAAAAATGTAAAAATAC
* * ** *
7708 TCAACTTAAAATAAATTTTGAGATTATAAAACTGTTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTA
* * * * **
7773 TGCGTGACTATAAATGGACTTTTCTTGCCGATGAGTACCTTTTCTTCATGTTTCTCAAGGTAGAC
66 TG-GTGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTCTTCATGTTTCTTGAGGTAGAC
* **
7838 ATTCAATTATAATCTGTTTTAATGAAAAATGTGAAAAGAT-C
130 ATTCAATTATAGTCT-TTTTAACCAAAAATGT-AAAA-ATAC
* * * * * * *
7879 -CAACTTCAAATCAATTATAACATCATAAAAGCATTTAAAGCAAGCAATAAGGCTTTTGAAGGTA
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTA
* *
7943 TGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTTTTGAGGTAGA
66 T-GGTGACTATAAATGGACTTTTCTTGCCAATGAATG-CATTTTCTTCATGTTTCTTGAGGTAGA
*
8008 CATTCAATTCTAGTCTATTTTAACCAAAAATGTAAAAATAC
129 CATTCAATTATAGTCT-TTTTAACCAAAAATGTAAAAATAC
* * * * * * *
8049 TCAACTTAAAAACAATTATTAGTTTATATAACCATTTAAA-CTTAGTATTAAGGCTTTCGAAGGC
1 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAATAAGGCTTTTGAAGG-
* * **
8113 TTTAGTGACTATAAATGGACTTTTCAGGCCAATG
64 TATGGTGACTATAAATGGACTTTTCTTGCCAATG
8147 GTTAGCTTTT
Statistics
Matches: 628, Mismatches: 127, Indels: 51
0.78 0.16 0.06
Matches are distributed among these distances:
168 1 0.00
169 89 0.14
170 141 0.22
171 379 0.60
172 18 0.03
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (168 bp):
TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTA
TGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTCTTCATGTTTCTTGAGGTAGACA
TTCAATTATAGTCTTTTTAACCAAAAATGTAAAAATAC
Found at i:8015 original size:341 final size:339
Alignment explanation
Indices: 7224--8137 Score: 907
Period size: 341 Copynumber: 2.7 Consensus size: 339
7214 TTGAGATTAT
** *
7224 AAAGCTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTC
1 AAAGC-ATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTC
* * * * *
7289 TCGATGAATAAC-TTTT-TTCATGTTTCTTGAGGTAGGCATTCAATTATA-ATTTGTTTAAACTA
65 -CAATGAATGACTTTTTCTTCATGTTTTTTGAGGTAGACATTCAATTATAGCTTT-TTT-AACTA
* * * * ** *
7351 AAAATGTAAAAAGATCCAACTTAAAATCAATTATGACATCGTAAAACCATTTAAAGCGAGCAATA
127 AAAATGTAAAAAGATTCAACTTAAAATAAATTTTGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * * *
7416 AAGCTTTTGGAGGTATAGGTGACTATAAATGGACTTTTCTTGTCAATAAATGCATTTCTCTTCAT
192 AGGCTTTTGAAGGAAT-GGTGACTATAAATGGACTTTTCTTGCCAATAAATACATTTCTCTTCAT
** * * *
7481 GTTTCTTGAGGTAGACATTCAATTCTAGTCTTTTTCCACCAAAAATGTAAAAATACTCAACTTAA
256 GTTTCTCAAGGTAGACATTCAATTATAATCTTTTTCAACCAAAAATGTAAAAATACTCAACTTAA
* ** *
7546 AAACAATTATTAGTTTACA
321 AAACAATTATAACATCACA
* * * * * *
7565 AAACCATTTAAACCAAGTAATAAGGC-TTTCATAGGCT-TGAGTGATTACAAATGGACTTTTCGT
1 AAAGCATTTAAAGCAAGTAATAAGGCTTTTGA-AGG-TATGGGTGACTATAAATGGACTTTTC-T
* ** * * * * *** * * *
7628 ACCAATGGTTGGCTTTTGCTTCACGTTCTCCAAGGCAGAGATTCAATTGTAGCCTTTTTTAACTA
63 TCCAATGAATGACTTTTTCTTCATGTTTTTTGAGGTAGACATTCAATTATAG-CTTTTTTAACTA
**
7693 AAAATGTAAAAAGATTCAACTTAAAATAAATTTTGAGATTATAAAACTGTTTAAAGCGAGTAATA
127 AAAATGTAAAAAGATTCAACTTAAAATAAATTTTGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * *
7758 AGGCTTTTGAAGGAATGCGTGACTATAAATGGACTTTTCTTGCCGATGAGTACCTTT-TCTTCAT
192 AGGCTTTTGAAGGAATG-GTGACTATAAATGGACTTTTCTTGCCAATAAATACATTTCTCTTCAT
**
7822 GTTTCTCAAGGTAGACATTCAATTATAATCTGTTTT-AATGAAAAATGTGAAAAGAT-C-CAACT
256 GTTTCTCAAGGTAGACATTCAATTATAATCT-TTTTCAACCAAAAATGT-AAAA-ATACTCAACT
* * *
7884 TCAAATCAATTATAACATCATA
318 TAAAAACAATTATAACATCACA
*
7906 AAAGCATTTAAAGCAAGCAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTGC
1 AAAGCATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTT-C
* * * *
7971 CAATGAATGCCTTTTTCTTCATGTTTTTTGAGGTAGACATTCAATTCTAGTCTATTTTAACCAAA
65 CAATGAATGACTTTTTCTTCATGTTTTTTGAGGTAGACATTCAATTATAG-CTTTTTTAACTAAA
* * * * * *
8036 AATGTAAAAATACTCAACTTAAAA-ACAATTATT-AGTTTATATAACCATTTAAA-CTTAGTATT
129 AATGTAAAAAGATTCAACTTAAAATA-AATT-TTGAGATTATAAAACCATTTAAAGC-GAGTAAT
* ** *
8098 AAGGCTTTCGAAGGCTTTAGTGACTATAAATGGACTTTTC
191 AAGGCTTTTGAAGG-AATGGTGACTATAAATGGACTTTTC
8138 AGGCCAATGG
Statistics
Matches: 461, Mismatches: 94, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
339 4 0.01
340 52 0.11
341 252 0.55
342 145 0.31
343 5 0.01
344 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (339 bp):
AAAGCATTTAAAGCAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTCC
AATGAATGACTTTTTCTTCATGTTTTTTGAGGTAGACATTCAATTATAGCTTTTTTAACTAAAAA
TGTAAAAAGATTCAACTTAAAATAAATTTTGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
TTTTGAAGGAATGGTGACTATAAATGGACTTTTCTTGCCAATAAATACATTTCTCTTCATGTTTC
TCAAGGTAGACATTCAATTATAATCTTTTTCAACCAAAAATGTAAAAATACTCAACTTAAAAACA
ATTATAACATCACA
Found at i:8158 original size:512 final size:511
Alignment explanation
Indices: 7195--8197 Score: 1530
Period size: 512 Copynumber: 2.0 Consensus size: 511
7185 AAATGTTCAA
* *
7195 ATTCAACTTAAAATAAATTTTGAGATTATAAAGCTATTTAAAGTGAGTAATAAGGCTTTTGAAGG
1 ATTCAACTTAAAATAAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGG
* ** *
7260 AATGGGTGACTATAAATGGACTTTTCTTCTCGATGAATAACTTTTTTCATGTTTCTTGAGGTAGG
66 AATGCGTGACTATAAATGGACTTTTCTTCTCGATGAATAACTTTTTTCATGTTTCTCAAGGTAGA
* *
7325 CATTCAATTATAATTTGTTTAAACTAAAAATGTAAAAAGATCCAACTTAAAATCAATTATGACAT
131 CATTCAATTATAATCTGTTTAAACTAAAAATGTAAAAAGATCCAACTTAAAATCAATTATAACAT
* * *
7390 CGTAAAACCATTTAAAGCGAGCAATAAAGCTTTTGGAGGTATAGGTGACTATAAATGGACTTTTC
196 CATAAAACCATTTAAAGCAAGCAATAAAGCTTTTGAAGGTATAGGTGACTATAAATGGACTTTTC
* *
7455 TTGTCAATAAATGCATTTCTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTTTTTCCAC
261 TTGCCAATAAATGCATTTCTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTTTTTCAAC
7520 CAAAAATGTAAAAATACTCAACTTAAAAACAATTATTAGTTTACAAAACCATTTAAACCAAGTAA
326 CAAAAATGTAAAAATACTCAACTTAAAAACAATTATTAGTTTACAAAACCATTTAAACCAAGTAA
* *
7585 TAAGGCTTTCATAGGCTTGAGTGATTACAAATGGACTTTTCGTACCAATGGTTGGCTTTTGCTTC
391 TAAGGCTTTCATAGGCTTGAGTGACTACAAATGGACTTTTCGTACCAATGGTTAGCTTTTGCTTC
* * * *
7650 ACGTTCTCCAAGGCAGAGATTCAATTGTAGCCTTTTTTAACTAAAAATGTAAAAAG
456 ACGTTCCCCAAGGCAAACATTCAATTGTAGACTTTTTTAACTAAAAATGTAAAAAG
*
7706 ATTCAACTTAAAATAAATTTTGAGATTATAAAACTGTTTAAAGCGAGTAATAAGGCTTTTGAAGG
1 ATTCAACTTAAAATAAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGG
* *
7771 AATGCGTGACTATAAATGGACTTTTCTTGC-CGATGAGTACCTTTTCTTCATGTTTCTCAAGGTA
66 AATGCGTGACTATAAATGGACTTTTCTT-CTCGATGAATAACTTTT-TTCATGTTTCTCAAGGTA
* * *
7835 GACATTCAATTATAATCTGTTTTAA-TGAAAAATGTGAAAAGATCCAACTTCAAATCAATTATAA
129 GACATTCAATTATAATCTGTTTAAACT-AAAAATGTAAAAAGATCCAACTTAAAATCAATTATAA
* * *
7899 CATCATAAAAGCATTTAAAGCAAGCAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTT
193 CATCATAAAACCATTTAAAGCAAGCAATAAAGCTTTTGAAGGTATAGGTGACTATAAATGGACTT
* * * *
7964 TTCTTGCCAATGAATGCCTTTTTCTTCATGTTTTTTGAGGTAGACATTCAATTCTAGTCTATTTT
258 TTCTTGCCAATAAATGCATTTCTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCT-TTTT
* * **
8029 -AACCAAAAATGTAAAAATACTCAACTTAAAAACAATTATTAGTTTATATAACCATTTAAACTTA
322 CAACCAAAAATGTAAAAATACTCAACTTAAAAACAATTATTAGTTTACAAAACCATTTAAACCAA
* * * *
8093 GTATTAAGGCTTTCGA-AGGCTTTAGTGACTATAAATGGACTTTTCAG-GCCAATGGTTAGCTTT
387 GTAATAAGGCTTTC-ATAGGCTTGAGTGACTACAAATGGACTTTTC-GTACCAATGGTTAGCTTT
** *
8156 TGCTTTGCTTTCCCCAAGGCAAACATTCAATTGTAGACTTTT
450 TGCTTCACGTTCCCCAAGGCAAACATTCAATTGTAGACTTTT
8198 CTTGCCGATG
Statistics
Matches: 443, Mismatches: 43, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
511 103 0.23
512 334 0.75
513 6 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (511 bp):
ATTCAACTTAAAATAAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGG
AATGCGTGACTATAAATGGACTTTTCTTCTCGATGAATAACTTTTTTCATGTTTCTCAAGGTAGA
CATTCAATTATAATCTGTTTAAACTAAAAATGTAAAAAGATCCAACTTAAAATCAATTATAACAT
CATAAAACCATTTAAAGCAAGCAATAAAGCTTTTGAAGGTATAGGTGACTATAAATGGACTTTTC
TTGCCAATAAATGCATTTCTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTTTTTCAAC
CAAAAATGTAAAAATACTCAACTTAAAAACAATTATTAGTTTACAAAACCATTTAAACCAAGTAA
TAAGGCTTTCATAGGCTTGAGTGACTACAAATGGACTTTTCGTACCAATGGTTAGCTTTTGCTTC
ACGTTCCCCAAGGCAAACATTCAATTGTAGACTTTTTTAACTAAAAATGTAAAAAG
Found at i:10384 original size:170 final size:171
Alignment explanation
Indices: 9997--10443 Score: 476
Period size: 171 Copynumber: 2.6 Consensus size: 171
9987 NNNNNNTCTT
* * * * * *
9997 AAGGTAGACATTCAATTCTAGTCTGTTTTAACCAAAAATGTAAAAATACTAAAGTTAAAAACAAT
1 AAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAGATTCAACTTAAAATCAAT
* * * * ** *
10062 TATT-AGTTTATAAAACCGTTTAAACCAGGTAATAAGGCTTTCGAAGGCTTGAGTGACTGCAAAT
66 T-TTGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGAATGAGTGACTACAAAT
*
10126 GGACTTTTCGTGCCAATGGTTAGCTTTTACTTCATGTTTTCC
130 GGACTTTTCGTGCCAATGGTTACCTTTTACTTCATGTTTTCC
* * * *
10168 AAGGCAGACATTCAATTGTAGCCTTTTTTAACCAAAAATGTAAAAAGATTCAACTTAAAATCAAT
1 AAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAGATTCAACTTAAAATCAAT
* * *
10233 TTTGAGATTATAAAACCATTTAAAGTAAGTAATAAGGC-TTCTGAAGGAATGGGTGACTATAAAT
66 TTTGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTC-GAAGGAATGAGTGACTACAAAT
* *
10297 GGCCTTTT-GT-CTCTAATGAG-TACCTTTT-CTTCATGGTTTT-T
130 GGACTTTTCGTGC-C-AATG-GTTACCTTTTACTTCAT-GTTTTCC
* * * * * *
10338 GAGGTAGACAATCAATTATAATCTGTTTTAACAAAAAATGTAAAAAGGTCCAACTTAAAATCAAT
1 AAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAGATTCAACTTAAAATCAAT
* * * * * *
10403 TATGACATCATAAAACCATTTAAAGCGAGCAATAAGACTTT
66 TTTGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTT
10444 TGAATGCTTT
Statistics
Matches: 230, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
169 1 0.00
170 100 0.43
171 128 0.56
172 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (171 bp):
AAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAGATTCAACTTAAAATCAAT
TTTGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGAATGAGTGACTACAAATG
GACTTTTCGTGCCAATGGTTACCTTTTACTTCATGTTTTCC
Found at i:10558 original size:132 final size:131
Alignment explanation
Indices: 10321--10558 Score: 293
Period size: 132 Copynumber: 1.8 Consensus size: 131
10311 AATGAGTACC
*
10321 TTTTCTTCATGGTTTTTGAGGTAGACAATCAATTATAATCTGTTTTAACAAAAAATGTAAAAAGG
1 TTTTCTTCATGGTTTTTAAGGTAGACAATCAATTATAATCTGTTTTAACAAAAAATGTAAAAA-G
*
10386 TCCAACTTAAAATCAATTATGACATCATAAAACCATTTAAAGCGAGCAATAAGACTTTTGAATGC
65 TCCAACTTAAAATCAATCATGACATCATAAAACCATTTAAAGCGAGCAATAAGACTTTTGAATGC
10451 TT
130 TT
* * * * * *
10453 TTTTCTTCAT-GTTTCTTAAGGTGGACATTCAATTCTAGTCTGTTTTAACTAAAGATGTAAAAA-
1 TTTTCTTCATGGTTT-TTAAGGTAGACAATCAATTATAATCTGTTTTAACAAAAAATGTAAAAAG
* * ** *
10516 TACTGAACTTAAAAAT-AATCATTAGGTTATAAAACCATTTAAA
65 T-C-CAACTT-AAAATCAATCATGACATCATAAAACCATTTAAA
10559 CTAAGTAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
130 1 0.01
131 5 0.06
132 78 0.88
133 5 0.06
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (131 bp):
TTTTCTTCATGGTTTTTAAGGTAGACAATCAATTATAATCTGTTTTAACAAAAAATGTAAAAAGT
CCAACTTAAAATCAATCATGACATCATAAAACCATTTAAAGCGAGCAATAAGACTTTTGAATGCT
T
Found at i:14938 original size:170 final size:170
Alignment explanation
Indices: 14666--14988 Score: 407
Period size: 170 Copynumber: 1.9 Consensus size: 170
14656 TTGGCTTTTG
* * * * * *
14666 CTTCATGTTCCCCAAGGCAGACATTCAATTTTAGCCTTTTTTAACTAAAAATGTAAAAAGATTCA
1 CTTCATGTTCCCCAAGGCAGACATTCAATTATAACCTGTTTGAACCAAAAATGTAAAAAGATCCA
* * * * * **
14731 ACTCAAAATCAATTTTGAGATTATAAAAGTATTTAAAGTGAGTTATAAGGCTTTTGAAGGAATAG
66 ACTCAAAATCAATTATGACATCATAAAACTATTTAAAGCGAGCGATAAGGCTTTTGAAGGAATAG
14796 GTGACTATAAATGGACTTTTCTTACCGATGAGTACCTGTT
131 GTGACTATAAATGGACTTTTCTTACCGATGAGTACCTGTT
* * * * * *
14836 CTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTGAACCAATAATGTGAAAAGATCCA
1 CTTCATGTTCCCCAAGGCAGACATTCAATTATAACCTGTTTGAACCAAAAATGTAAAAAGATCCA
* **
14901 ACTTC-AAATCAGTTATGACATCATAAAACCT-TTTAAAGCGAGCGATAAGGCTTTTGAAGGTTT
66 AC-TCAAAATCAATTATGACATCATAAAA-CTATTTAAAGCGAGCGATAAGGCTTTTGAAGGAAT
*
14964 GGGTGACTATAAATGGACTTTTCTT
129 AGGTGACTATAAATGGACTTTTCTT
14989 GCCAATGAAT
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
170 125 0.98
171 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (170 bp):
CTTCATGTTCCCCAAGGCAGACATTCAATTATAACCTGTTTGAACCAAAAATGTAAAAAGATCCA
ACTCAAAATCAATTATGACATCATAAAACTATTTAAAGCGAGCGATAAGGCTTTTGAAGGAATAG
GTGACTATAAATGGACTTTTCTTACCGATGAGTACCTGTT
Found at i:16051 original size:132 final size:132
Alignment explanation
Indices: 15847--16110 Score: 309
Period size: 132 Copynumber: 2.0 Consensus size: 132
15837 GATGAGTACC
* * *
15847 TTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTGAAGAGA
1 TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACTAAAAATGTGAAGAAA
* * * * *
15912 TCCAACTTAAAATCAATTATGACATCATAAAACCATTTAAAGC-GAGCAATAAGGCTTTTGAATG
66 TCCAACTTAAAAACAATCATGACATCATAAAACCATTTAAA-CTAAGCAATAAGGCTTTCGAAGG
15976 CTT
130 CTT
* * * * *
15979 TTTTCTTCATGTTTCTTAAGGTAGACATTCAATTCTAGTCTATTTTAACTAAAGATGT-AA-AAA
1 TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACTAAAAATGTGAAGAAA
* * ** * *
16042 TACTGAACTTAAAAACAATCATTAGGTTATAAAACCATTTAAACTAAGTAATAAGGCTTTCGAAG
66 T-C-CAACTTAAAAACAATCATGACATCATAAAACCATTTAAACTAAGCAATAAGGCTTTCGAAG
16107 GCTT
129 GCTT
16111 GAGTGACTAC
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 3 0.03
131 4 0.04
132 103 0.94
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (132 bp):
TTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAACTAAAAATGTGAAGAAA
TCCAACTTAAAAACAATCATGACATCATAAAACCATTTAAACTAAGCAATAAGGCTTTCGAAGGC
TT
Found at i:18703 original size:510 final size:510
Alignment explanation
Indices: 17816--18990 Score: 1622
Period size: 510 Copynumber: 2.3 Consensus size: 510
17806 TGAATGCTTT
* * * * * * *
17816 TTTCTTCATGTTTCTTAAGGTAGCCATTCAATTCCAGTTTGTCTTAACTAAAGATGTAAAAATAC
1 TTTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTGTTTTAACAAAAAATGTAAAAATAC
* * *
17881 -CAAACTTAAAAACAATCATTAGGTTATAAAACCATTTAAACTAAGTAATAAGGCTTTCGAAGGC
66 TC-AACTTAAAAACAATTATTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTTCGAAGGC
* ** *
17945 TTGAGTGACTACAAATAGACTTTTCGTGCCAATGGTTGGCTTTTCCTACACGTTCCCCAAGGTAG
130 TTGAGTGACTACAAATAGACTTTTCGTACCAATGGTTGGCTTTTCCTACACGTTCCCCAAGACAA
* * * * *
18010 ACATTCAATTGTATCCTTTTTTAACCAAAAATCTAGAAAGATTCAACTTAAATTAAATTTTGAGA
195 ACATTAAATTGTAGCCTTTTTTAACCAAAAATCTAAAAAGATTCAACTTAAAATAAATTTTCAGA
* * * *
18075 TTATAAAGCTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTT
260 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGAAATGGGTGACTATAAATGGACTTTT
** * * ** * *
18140 CTTGTTAATGAATAACTTTTTTCATATTTCTTGAGGTAGGCATTCAGTTATAATCTGTTTTAACT
325 CTTGCCAATGAATAACTTTTTTCATATTTATTGAGATACACATTCAATTATAATCTGTTTTAACC
* *
18205 AAAAATGTAAAAAGATTCAATTTAAAATCAATTATGACATCATAAAACCATTTAAAGCGAGCAAT
390 AAAAATGTAAAAAGATCCAACTTAAAATCAATTATGACATCATAAAACCATTTAAAGCGAGCAA-
18270 AAA-GCTTTTGAAGGTATGGGTGACCATAAATAGACTTTTCTCACCAATAAATG-TAA
454 AAAGGCTTTTGAAGGTATGGGTGACCATAAATAGACTTTTCTCACCAATAAATGCT-A
* *
18326 TTTCTTCATGTTTCTTGAGGTAGACATTCAAATCTAGCCTGTTTTAACAAAAAATGTAAAAATAC
1 TTTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTGTTTTAACAAAAAATGTAAAAATAC
* * *
18391 TCAACTTAAAAATAATTATTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTACAAAGGCT
66 TCAACTTAAAAACAATTATTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTTCGAAGGCT
* * ** * *
18456 TGAGTGATTACAAATGGACTTTTCGTACCAATGGTTGGCTTTTGTTTCATGTTCCCCAAGACAAA
131 TGAGTGACTACAAATAGACTTTTCGTACCAATGGTTGGCTTTTCCTACACGTTCCCCAAGACAAA
* * *
18521 GATTAAATTGTAGCCTTTTTTAACCAAAAATGTAAAAAGATTCAACTTAAAATCAATTTTCAGAT
196 CATTAAATTGTAGCCTTTTTTAACCAAAAATCTAAAAAGATTCAACTTAAAATAAATTTTCAGAT
* *
18586 TATAAAACCATTTAAAGTGAGTAA-AAGGCTTTCGAAGAAATTGGTGACTATAAATGGACTTTTT
261 TATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGAAATGGGTGACTATAAATGGACTTTTC
* * * *
18650 TTGCCGATGAGTATCTTTTCTTCATGTTTATTGAGATACACATTCAATTATAATCTGTTTTAACC
326 TTGCCAATGAATAACTTTT-TTCATATTTATTGAGATACACATTCAATTATAATCTGTTTTAACC
* * * *
18715 CAAAATGTGAAAAGATCCAACTTCAAATCAATTATGACATCATAAAATCATTTAAAGCGAGCAAA
390 AAAAATGTAAAAAGATCCAACTTAAAATCAATTATGACATCATAAAACCATTTAAAGCGAGCAAA
* * ** * *
18780 AAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTT
455 AAGGCTTTTGAAGGTATGGGTGACCATAAATAGACTTTTCTCACCAATAAATG-CTA
* * *
18837 TTTCTTCATATTTCTTGAGGTAGACATTCAATTTTAGTCTGTTTTAACCAAAAATGTAAAAATAC
1 TTTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTGTTTTAACAAAAAATGTAAAAATAC
* * *
18902 TGAACTTAAAAACAATTATTAGTTTATAAAACAATTTAAACCTAA-TATTAAGGCTTTCGAAGGC
66 TCAACTTAAAAACAATTATTAGTTTATAAAACCATTTAAACC-AAGTAATAAGGCTTTCGAAGGC
* *
18966 TTGAGTGACTATAAATTGACTTTTC
130 TTGAGTGACTACAAATAGACTTTTC
18991 AGAAAAATGG
Statistics
Matches: 582, Mismatches: 77, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
509 53 0.09
510 388 0.67
511 138 0.24
512 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (510 bp):
TTTCTTCATGTTTCTTGAGGTAGACATTCAATTCTAGTCTGTTTTAACAAAAAATGTAAAAATAC
TCAACTTAAAAACAATTATTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTTCGAAGGCT
TGAGTGACTACAAATAGACTTTTCGTACCAATGGTTGGCTTTTCCTACACGTTCCCCAAGACAAA
CATTAAATTGTAGCCTTTTTTAACCAAAAATCTAAAAAGATTCAACTTAAAATAAATTTTCAGAT
TATAAAACCATTTAAAGTGAGTAATAAGGCTTTCGAAGAAATGGGTGACTATAAATGGACTTTTC
TTGCCAATGAATAACTTTTTTCATATTTATTGAGATACACATTCAATTATAATCTGTTTTAACCA
AAAATGTAAAAAGATCCAACTTAAAATCAATTATGACATCATAAAACCATTTAAAGCGAGCAAAA
AGGCTTTTGAAGGTATGGGTGACCATAAATAGACTTTTCTCACCAATAAATGCTA
Found at i:18884 original size:340 final size:335
Alignment explanation
Indices: 17806--18990 Score: 997
Period size: 340 Copynumber: 3.5 Consensus size: 335
17796 ATAAGGCTTT
* * * ** * * * *
17806 TGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGCCATTCAATTCCAGTTTGTCTTAACTAAAGAT
1 TGAATGCCTTTTT-TTCATATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * * *
17871 GTAAAAATA-CCAAACTTAAAAACAATCATTAGGTTATAAAACCATTTAAACTAAGTAATAAGGC
65 GTAAAAAGATTC-AACTTAAAAACAAT-TTTAGATTATAAAACCATTTAAACTGAGTAATAAGGC
* * * * *
17935 TTTCGAAGGCTTGAGTGACTACAAATAGACTTTTCGTGCCAATG-GTTGGCTTTTCCTACACGTT
128 TTTCGAAGGATTGAGTGACTATAAATAGACTTTTCTTGCCAATGAGTT--CTTTT-CTTCATGTT
* *** * * * *
17999 CCCCAAGGTAGACATTCAATTGT-ATCCTTTTTTAACCAAAAATCTAGAAAGATTCAACTTAAAT
190 TCTTGAGGTAGACATTCAATTATAAT-CTGTTTTAACCAAAAATGTA-AAAGATCCAACTTAAA-
* * * * *
18063 TAAATTTTGAGATTATAAAGCTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTAT
252 T-AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTAT
**
18128 AAATGGACTTTTCTTGTTAA
316 AAATGGACTTTTCTTGCCAA
** * * * * *
18148 TGAATAAC-TTTTTTCATATTTCTTGAGGTAGGCATTCAGTTATAATCTGTTTTAACTAAAAATG
1 TGAATGCCTTTTTTTCATATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* * * * * * *
18212 TAAAAAGATTCAATTTAAAATCAATTATGACATCATAAAACCATTTAAAGC-GAGCAATAAAGCT
66 TAAAAAGATTCAACTTAAAAACAATT-TTAGATTATAAAACCATTTAAA-CTGAGTAATAAGGCT
* * * ** * * **
18276 TTTGAAGG-TATGGGTGACCATAAATAGACTTTTCTCACCAATAAATGTAATTTCTTCATGTTTC
129 TTCGAAGGAT-TGAGTGACTATAAATAGACTTTTCTTGCCAATGAGT-TCTTTTCTTCATGTTTC
* * ** *
18340 TTGAGGTAGACATTCAAATCTAGCCTGTTTTAACAAAAAATGTAAAA-ATACTCAACTTAAAAAT
192 TTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAGAT-C-CAACTT--AAAT
* * * * *** * * *
18404 AATTATTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTACAAAGGCT-TGAGTGATTACA
253 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG-TATGGGTGACTATA
* *
18468 AATGGACTTTTCGTACCAA
317 AATGGACTTTTCTTGCCAA
** * * * ** ** * * * * * *
18487 TGGTTGGCTTTTGTTTCATGTTCCCCAAGACAAAGATTAAATTGTAGCCTTTTTTAACCAAAAAT
1 TGAATGCCTTTT-TTTCATATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* *
18552 GTAAAAAGATTCAACTTAAAATCAATTTTCAGATTATAAAACCATTTAAAGTGAGTAA-AAGGCT
65 GTAAAAAGATTCAACTTAAAAACAATTTT-AGATTATAAAACCATTTAAACTGAGTAATAAGGCT
* * * * *
18616 TTCGAAGAAATTG-GTGACTATAAATGGACTTTTTTTGCCGATGAGTATCTTTTCTTCATGTTTA
129 TTCGAAG-GATTGAGTGACTATAAATAGACTTTTCTTGCCAATGAGT-TCTTTTCTTCATGTTTC
* * *
18680 TTGAGATACACATTCAATTATAATCTGTTTTAACCCAAAATGTGAAAAGATCCAACTTCAAATCA
192 TTGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT-AAAAGATCCAACTT-AAAT-A
* * * * *
18745 ATTATGACATCATAAAATCATTTAAAGCGAGCAAAAAGGCTTTTGAAGGTATGGGTGACTATAAA
254 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAA
18810 TGGACTTTTCTTGCCAA
319 TGGACTTTTCTTGCCAA
* *
18827 TGAATGCCTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTTTAGTCTGTTTTAACCAAAAAT
1 TGAATGCCTTTTT-TTCATATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * * * * *
18892 GTAAAAATACTGAACTTAAAAACAATTATTAGTTTATAAAACAATTTAAACCT-AATATTAAGGC
65 GTAAAAAGATTCAACTTAAAAACAATT-TTAGATTATAAAACCATTTAAA-CTGAGTAATAAGGC
* *
18956 TTTCGAAGGCTTGAGTGACTATAAATTGACTTTTC
128 TTTCGAAGGATTGAGTGACTATAAATAGACTTTTC
18991 AGAAAAATGG
Statistics
Matches: 650, Mismatches: 166, Indels: 55
0.75 0.19 0.06
Matches are distributed among these distances:
337 2 0.00
338 3 0.00
339 121 0.19
340 379 0.58
341 136 0.21
342 9 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (335 bp):
TGAATGCCTTTTTTTCATATTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
TAAAAAGATTCAACTTAAAAACAATTTTAGATTATAAAACCATTTAAACTGAGTAATAAGGCTTT
CGAAGGATTGAGTGACTATAAATAGACTTTTCTTGCCAATGAGTTCTTTTCTTCATGTTTCTTGA
GGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAGATCCAACTTAAATAATTATGA
GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTT
TTCTTGCCAA
Found at i:19009 original size:171 final size:168
Alignment explanation
Indices: 17814--18990 Score: 876
Period size: 171 Copynumber: 6.9 Consensus size: 168
17804 TTTGAATGCT
* * ** * * * *
17814 TTTTTCTTCATGTTTCTTAAGGTAGCCATTCAATTCCAGTTTGTCTTAACTAAAGATGTAAAAAT
1 TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAT
* *
17879 AC-CAAACTTAAAAACAATCATTAGGTTATAAAACCATTTAAACTAAGTAATAAGGCTTTCGAAG
66 ACTC-AACTTAAAAACAATTATTAGATTATAAAACCATTTAAACT-AGTAATAAGGCTTTCGAAG
* *
17943 GCTTGAGTGACTACAAATAGACTTTTCGTGCCAATGGTTGGC
129 GCTTGAGTGACTATAAATGGACTTTTC-TGCCAATGGTT-GC
* * * * *** * * * *
17985 TTTTCCTACACGTTCCCCAAGGTAGACATTCAATTGTA-TCCTTTTTTAACCAAAAATCTAGAAA
1 TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGT-CTGTTTTAACCAAAAATGTAAAAA
* * * * * * *
18049 GATTCAACTTAAATTA-AATT-TTGAGATTATAAAGCTATTTAAAGTGAGTAATAAGGCTTTTGA
65 TACTCAACTTAAA-AACAATTATT-AGATTATAAAACCATTTAAACT-AGTAATAAGGCTTTCGA
** * ** * **
18112 AGGAATGGGTGACTATAAATGGACTTTTCTTGTTAATGAATAAC
127 AGGCTTGAGTGACTATAAATGGACTTTTC-TGCCAATG-GTTGC
* * * * * *
18156 -TTTT-TTCATATTTCTTGAGGTAGGCATTCAGTTATAATCTGTTTTAACTAAAAATGTAAAAAG
1 TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAT
* * * * * * * * * *
18219 ATTCAATTTAAAATCAATTATGACATCATAAAACCATTTAAAGCGAGCAATAAAGCTTTTGAAGG
66 ACTCAACTTAAAAACAATTATTAGATTATAAAACCATTTAAA-CTAGTAATAAGGCTTTCGAAGG
* * * * ***
18284 -TATGGGTGACCATAAATAGACTTTTCTCACCAATAAATG-
130 CT-TGAGTGACTATAAATGGACTTTTCT-GCCAATGGTTGC
* * * * *
18323 TAATTTCTTCATGTTTCTTGAGGTAGACATTCAAATCTAGCCTGTTTTAACAAAAAATGTAAAAA
1 T-TTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA
* * * * *
18388 TACTCAACTTAAAAATAATTATTAGTTTATAAAACCATTTAAACCAAGTAATAAGGCTTACAAAG
65 TACTCAACTTAAAAACAATTATTAGATTATAAAACCATTTAAA-CTAGTAATAAGGCTTTCGAAG
* * *
18453 GCTTGAGTGATTACAAATGGACTTTTCGTACCAATGGTTGGC
129 GCTTGAGTGACTATAAATGGACTTTTC-TGCCAATGGTT-GC
* *** ** * * * * * *
18495 TTTTGT-TTCATGTTCCCCAAGACAAAGATTAAATTGTAGCCTTTTTTAACCAAAAATGTAAAAA
1 TTTT-TCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA
* * * *
18559 GATTCAACTTAAAATCAATT-TTCAGATTATAAAACCATTTAAAGTGAGTAA-AAGGCTTTCGAA
65 TACTCAACTTAAAAACAATTATT-AGATTATAAAACCATTTAAACT-AGTAATAAGGCTTTCGAA
** * *
18622 GAAATTG-GTGACTATAAATGGACTTTTTTTGCCGATGAGTAT-C
128 G-GCTTGAGTGACTATAAATGGAC-TTTTCTGCCAATG-GT-TGC
* * * * *
18665 -TTTTCTTCATGTTTATTGAGATACACATTCAATTATAATCTGTTTTAACCCAAAATGTGAAAAG
1 TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAA-
* * * * * * * * * *
18729 AT-C-CAACTTCAAATCAATTATGACATCATAAAATCATTTAAAGCGAGCAAAAAGGCTTTTGAA
64 ATACTCAACTTAAAAACAATTATTAGATTATAAAACCATTTAAA-CTAGTAATAAGGCTTTCGAA
* **
18792 GG-TATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCC
128 GGCT-TGAGTGACTATAAATGGACTTTTC-TGCCAATGGTTG-C
* *
18835 TTTTTCTTCATATTTCTTGAGGTAGACATTCAATTTTAGTCTGTTTTAACCAAAAATGTAAAAAT
1 TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAT
* * * * *
18900 ACTGAACTTAAAAACAATTATTAGTTTATAAAACAATTTAAACCTAATATTAAGGCTTTCGAAGG
66 ACTCAACTTAAAAACAATTATTAGATTATAAAACCATTTAAA-CTAGTAATAAGGCTTTCGAAGG
*
18965 CTTGAGTGACTATAAATTGACTTTTC
130 CTTGAGTGACTATAAATGGACTTTTC
18991 AGAAAAATGG
Statistics
Matches: 774, Mismatches: 192, Indels: 80
0.74 0.18 0.08
Matches are distributed among these distances:
168 5 0.01
169 206 0.27
170 214 0.28
171 342 0.44
172 7 0.01
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (168 bp):
TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAT
ACTCAACTTAAAAACAATTATTAGATTATAAAACCATTTAAACTAGTAATAAGGCTTTCGAAGGC
TTGAGTGACTATAAATGGACTTTTCTGCCAATGGTTGC
Found at i:26630 original size:170 final size:170
Alignment explanation
Indices: 26357--27838 Score: 1222
Period size: 170 Copynumber: 8.7 Consensus size: 170
26347 NNNNNNNNNG
** * * * * * *
26357 AATTGAATGTCTACCTCAAGAAATATGTAGAACAAGGCATTCCTTGGCAAGAAAAGTCTATTTAT
1 AATTGAATGTCTACCTTGAGAAACATGAAGAA-AAGGTACTCATTGGCAAGAAAAGTCCATTTAT
* * * * * *
26422 AGTCATCCATACCTTCAAAAGCCTTATTGCTAACTTTAAATGGTTTGATGATGTCATAATTGATT
65 AGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATT
*
26487 TTAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGATTAT
130 TTAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGACTAT
* * * *
26528 AATTGAATATCTACCTTGAGAAACATGAAGACAAGGTACTCGTTGGTAAGAAAAGTCCATTTATA
1 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAGGTACTCATTGGCAAGAAAAGTCCATTTATA
* * * *
26593 GTCACCCATAACTTCAAAAGCCTTATTGCTCACTTTAAATGGTTTTATGATGTCATAATTGATTT
66 GTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTT
* * * *
26658 TAAATTGGATCTTTTTATATTTTTGGTTAAAACAGAATAT
131 TAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGACTAT
* * *
26698 AATTGAATGTCTATCTTGAGAAACATGAAGAAAAGGTACTCATCGGCAA-AGAAAGGCCATTTAT
1 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAGGTACTCATTGGCAAGA-AAAGTCCATTTAT
* *
26762 AGAT-ACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTGAT
65 AG-TCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGAT
* * * *
26826 TTTAAGTT-GACCCTTTTTACATTTTTGGTTAAAA-AGGCTAC
129 TTTAAGTTGGA-TCTTTTCACATTTTTGGTTAAAACAGACTAT
* * * ** *
26867 AATTGAATGTCTGCCTTGGGGAAA-GTGAAGCAAAAGCCAAC-CATTGGCATGAAAAGTCCATTT
1 AATTGAATGTCTACCTT-GAGAAACATGAAG-AAAAG-GTACTCATTGGCAAGAAAAGTCCATTT
* * * *** * *
26930 GTAGTCACTCA-AGCCTTCAAAAGCGTTATTACTTTGTTTAAATGGTTTTATAAACTAATAATT-
63 ATAGTCACCCATA-CCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTG
* *
26993 ATTTTTAAGTT-GAGTATTTTCACATTTTTGGTTAAAACAGACTAG
127 A-TTTTAAGTTGGA-TCTTTTCACATTTTTGGTTAAAACAGACTAT
* ** * * * * *
27038 AATTTAATGTCTACCTCAAGAAACATGAAGAAAAAG-ACATTCATTGACATGACAAGTCTATTTA
1 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAGGTAC--TCATTGGCAAGAAAAGTCCATTTA
* * * * * * * * *
27102 TAGTCACCCATGCCCTCAAATGTCC-TATTGCTCACTTTAAATAGTTTTTTGATGTCATATTTGA
64 TAGTCACCCATACCTTCAAAAG-CCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGA
* *
27166 TTTTAAGTTGGATCTTTTCACATTTTTAGTTAAAACAGATTAT
128 TTTTAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGACTAT
* * * ** * *
27209 AATTGCATGTCTACCTTTA-ACAACATGAAGAAAAGGTATTCATCAGTAAGAAAAGTCCATTTAN
1 AATTGAATGTCTACCTTGAGA-AACATGAAGAAAAGGTACTCATTGGCAAGAAAAGTCCATTTAT
********* * * * * *
27273 NNNNNNNNNTTCCTTCAAAAGCCTTATTACTTACTTTAAATGGTTTAATAAACTCAAAATTGATT
65 AGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATT
* * * * *
27338 TTGAGTTGAATCTTTTTACATTTTTGGTTAAAA-AAAGCTAC
130 TTAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGA-CTAT
* * * * ** * *
27379 AATTGAATGTCTTCCTTGGGGAAA-GTGAAGCGAAAGCCAAC-CATTGGCATGAAAAGTTCATTT
1 AATTGAATGTCTACCTT-GAGAAACATGAAG-AAAAG-GTACTCATTGGCAAGAAAAGTCCATTT
* * * *** * * * * *
27442 GTAGGT-ACTCA-AGCCTTCGAAAGCCTTATTACTTGGTTTAAATGATTTTATAAACTAAAAAAT
63 ATA-GTCACCCATA-CCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATT
* * * * * * *
27505 -ATTTTTAAGTTGGGTATTTTTACATTTTTTGTTAAAATAAACTAG
126 GA-TTTTAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGACTAT
* * ** ** * * *
27550 AATTGAATGCCGACCTCAAGAAACATGAAGAAAA-AAACATTCATTGACAGGAAAACTCCATTTA
1 AATTGAATGTCTACCTTGAGAAACATGAAGAAAAGGTAC--TCATTGGCAAGAAAAGTCCATTTA
* * * ** * *
27614 TAGCCACCCATACCTTTAAAAGCCTTATTGCTTGCTTTAAATGGTTTTATGATGTCATAATTGAT
64 TAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGAT
* * * *
27679 TTTAAGTTGGATTTTTTCACATTTTTAGTTAAAATAGATTAT
129 TTTAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGACTAT
* * * * ** * *
27721 AATTGCATGTCGA-CTTCGAGAAAAATGAAGAAAAGGTATTCATCAGCAAGAAAAGTCTATTTAA
1 AATTGAATGTCTACCTT-GAGAAACATGAAGAAAAGGTACTCATTGGCAAGAAAAGTCCATTTAT
* * *
27785 AGTCATCAATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCT
65 AGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCT
27839 NNNNNNNNNN
Statistics
Matches: 1036, Mismatches: 235, Indels: 81
0.77 0.17 0.06
Matches are distributed among these distances:
168 5 0.00
169 33 0.03
170 562 0.54
171 423 0.41
172 13 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (170 bp):
AATTGAATGTCTACCTTGAGAAACATGAAGAAAAGGTACTCATTGGCAAGAAAAGTCCATTTATA
GTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTT
TAAGTTGGATCTTTTCACATTTTTGGTTAAAACAGACTAT
Found at i:27594 original size:512 final size:510
Alignment explanation
Indices: 26485--27835 Score: 1773
Period size: 512 Copynumber: 2.6 Consensus size: 510
26475 TCATAATTGA
* * * * ** * **
26485 TTTTAAGTTG-GATCTTTTCACATTTTTGGTTAAAACAGATTATAATTGAATATCTACCTTGAGA
1 TTTTAAGTTGAG-TATTTTCACATTTTTGGTTAAAACAAACTAGAATTGAATGCCGACCTCAAGA
*** * ** * *
26549 AACATGAAGACAAGGTAC--TCGTTGGTAAGAAAAGTCCATTTATAGTCACCCATAACTTCAAAA
65 AACATGAAGA-AAAAAACATTCATTGACAGGAAAAGTCCATTTATAGTCACCCATACCTTCAAAA
* * *
26612 GCCTTATTGCTCACTTTAAATGGTTTTATGATGTCATAATTGATTTTAAATTGGATCTTTTTATA
129 GCCTTATTGCTCACTTTAAATGGTTTTATGATGTCATAATTGATTTTAAGTTGGATCTTTTCACA
* * * *
26677 TTTTTGGTTAAAACAGAATATAATTGAATGTCTATCTTGAGAAACATGAAGAAAAGGTACTCATC
194 TTTTTAGTTAAAACAGATTATAATTGCATGTCTA-CTTGAGAAACATGAAGAAAAGGTATTCATC
* *
26742 GGCAA-AGAAAGGCCATTTATAGATACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGT
258 AGCAAGA-AAAGTCCATTTATAGATACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGT
* * * *
26806 TTTATAATCTCAAAATTGATTTTAAGTTGACCCTTTTTACATTTTTGGTTAAAAAGGCTACAATT
322 TTAATAAACTCAAAATTGATTTTAAGTTGAACCTTTTTACATTTTTGGTTAAAAAAGCTACAATT
26871 GAATGTCTGCCTTGGGGAAAGTGAAGCAAAAGCCAACCATTGGCATGAAAAGTCCATTTGTAGTC
387 GAATGTCTGCCTTGGGGAAAGTGAAGCAAAAGCCAACCATTGGCATGAAAAGTCCATTTGTAGTC
* * * * *
26936 ACTCAAGCCTTCAAAAGCGTTATTACTTTGTTTAAATGGTTTTATAAACTAATAATTAT
452 ACTCAAGCCTTCAAAAGCCTTATTACTTGGTTTAAATGATTTTATAAACTAAAAAATAT
* * * *
26995 TTTTAAGTTGAGTATTTTCACATTTTTGGTTAAAACAGACTAGAATTTAATGTCTACCTCAAGAA
1 TTTTAAGTTGAGTATTTTCACATTTTTGGTTAAAACAAACTAGAATTGAATGCCGACCTCAAGAA
* * * * * * *
27060 ACATGAAGAAAAAGACATTCATTGACATGACAAGTCTATTTATAGTCACCCATGCCCTCAAATGT
66 ACATGAAGAAAAAAACATTCATTGACAGGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAG-
* * *
27125 CC-TATTGCTCACTTTAAATAGTTTTTTGATGTCATATTTGATTTTAAGTTGGATCTTTTCACAT
130 CCTTATTGCTCACTTTAAATGGTTTTATGATGTCATAATTGATTTTAAGTTGGATCTTTTCACAT
*
27189 TTTTAGTTAAAACAGATTATAATTGCATGTCTACCTTTA-ACAACATGAAGAAAAGGTATTCATC
195 TTTTAGTTAAAACAGATTATAATTGCATGTCTA-CTTGAGA-AACATGAAGAAAAGGTATTCATC
* ********** *
27253 AGTAAGAAAAGTCCATTTANNNNNNNNNNTTCCTTCAAAAGCCTTATTACTTACTTTAAATGGTT
258 AGCAAGAAAAGTCCATTTATAGATACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTT
* *
27318 TAATAAACTCAAAATTGATTTTGAGTTGAATCTTTTTACATTTTTGGTTAAAAAAAGCTACAATT
323 TAATAAACTCAAAATTGATTTTAAGTTGAACCTTTTTACATTTTTGGTT-AAAAAAGCTACAATT
* * *
27383 GAATGTCTTCCTTGGGGAAAGTGAAGCGAAAGCCAACCATTGGCATGAAAAGTTCATTTGTAGGT
387 GAATGTCTGCCTTGGGGAAAGTGAAGCAAAAGCCAACCATTGGCATGAAAAGTCCATTTGTA-GT
*
27448 -ACTCAAGCCTTCGAAAGCCTTATTACTTGGTTTAAATGATTTTATAAACTAAAAAATAT
451 CACTCAAGCCTTCAAAAGCCTTATTACTTGGTTTAAATGATTTTATAAACTAAAAAATAT
* * * *
27507 TTTTAAGTTGGGTATTTTTACATTTTTTGTTAAAATAAACTAGAATTGAATGCCGACCTCAAGAA
1 TTTTAAGTTGAGTATTTTCACATTTTTGGTTAAAACAAACTAGAATTGAATGCCGACCTCAAGAA
* * *
27572 ACATGAAGAAAAAAACATTCATTGACAGGAAAACTCCATTTATAGCCACCCATACCTTTAAAAGC
66 ACATGAAGAAAAAAACATTCATTGACAGGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGC
** *
27637 CTTATTGCTTGCTTTAAATGGTTTTATGATGTCATAATTGATTTTAAGTTGGATTTTTTCACATT
131 CTTATTGCTCACTTTAAATGGTTTTATGATGTCATAATTGATTTTAAGTTGGATCTTTTCACATT
* * *
27702 TTTAGTTAAAATAGATTATAATTGCATGTCGACTTCGAGAAAAATGAAGAAAAGGTATTCATCAG
196 TTTAGTTAAAACAGATTATAATTGCATGTCTACTT-GAGAAACATGAAGAAAAGGTATTCATCAG
* * * *
27767 CAAGAAAAGTCTATTTAAAG-TCATCAATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTT
260 CAAGAAAAGTCCATTTATAGAT-ACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTT
*
27831 TATAA
324 AATAA
27836 TCTNNNNNNN
Statistics
Matches: 727, Mismatches: 102, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
509 4 0.01
510 66 0.09
511 247 0.34
512 407 0.56
513 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (510 bp):
TTTTAAGTTGAGTATTTTCACATTTTTGGTTAAAACAAACTAGAATTGAATGCCGACCTCAAGAA
ACATGAAGAAAAAAACATTCATTGACAGGAAAAGTCCATTTATAGTCACCCATACCTTCAAAAGC
CTTATTGCTCACTTTAAATGGTTTTATGATGTCATAATTGATTTTAAGTTGGATCTTTTCACATT
TTTAGTTAAAACAGATTATAATTGCATGTCTACTTGAGAAACATGAAGAAAAGGTATTCATCAGC
AAGAAAAGTCCATTTATAGATACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTAA
TAAACTCAAAATTGATTTTAAGTTGAACCTTTTTACATTTTTGGTTAAAAAAGCTACAATTGAAT
GTCTGCCTTGGGGAAAGTGAAGCAAAAGCCAACCATTGGCATGAAAAGTCCATTTGTAGTCACTC
AAGCCTTCAAAAGCCTTATTACTTGGTTTAAATGATTTTATAAACTAAAAAATAT
Done.