Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401189.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_434.0, 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: 34983
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.24
Warning! 12417 characters in sequence are not A, C, G, or T
Found at i:3764 original size:171 final size:172
Alignment explanation
Indices: 3453--3787 Score: 410
Period size: 171 Copynumber: 2.0 Consensus size: 172
3443 NNNNNNNNNN
* *
3453 TATTACTCACTTTAAATGGTTTTATAATTTCAAAAGTGATTTTAACTTCAAATTATTTTTTATTT
1 TATTACTCACTTTAAATGGTATTATAATCTCAAAAGTGATTTTAACTTCAAATTATTTTTTATTT
* * * * * *
3518 TTTATTAAAATAGAGTATAATTGAATATCTAGCTTGAGAAATATGAAGAAAATGGTATTTATTGG
66 TTTATTAAAACAGAGTATAATTGAATATCTACCTTGAGAAACATCAAGAAAAAGGTATTCATTGG
* *
3583 CAATAAAAGTCCATTTATAGCTACTCATTCCTTTAGAAGCCG
131 CAAGAAAAGTCCATTTATAGCTACCCATTCCTTTAGAAGCCG
* * * * *
3625 TATTACTCACTTTCAATGGTATTATAATCTCATAATTGATTTTAGGC-T-GAA-T-TTTTTTATG
1 TATTACTCACTTTAAATGGTATTATAATCTCAAAAGTGATTTTA-ACTTCAAATTATTTTTTAT-
* * * *
3686 TTTTTAGTTAGAACAGA-TAATAATTGAATGTTTACCTTGGGAAACATCAAGAAAAAGGTATTCA
64 TTTTTA-TTAAAACAGAGT-ATAATTGAATATCTACCTTGAGAAACATCAAGAAAAAGGTATTCA
* *
3750 TTGGCAAGAAAAGTCCTTTTATAGTTACCCATTCCTTT
127 TTGGCAAGAAAAGTCCATTTATAGCTACCCATTCCTTT
3788 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
169 8 0.06
170 8 0.06
171 81 0.59
172 40 0.29
173 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (172 bp):
TATTACTCACTTTAAATGGTATTATAATCTCAAAAGTGATTTTAACTTCAAATTATTTTTTATTT
TTTATTAAAACAGAGTATAATTGAATATCTACCTTGAGAAACATCAAGAAAAAGGTATTCATTGG
CAAGAAAAGTCCATTTATAGCTACCCATTCCTTTAGAAGCCG
Found at i:5943 original size:171 final size:171
Alignment explanation
Indices: 5543--6153 Score: 463
Period size: 171 Copynumber: 3.6 Consensus size: 171
5533 AGGTATTCGT
* * * *
5543 TTTAAAAGCCGTATTACTCACTTTCAAGGGTTTTCTAATCTCATAATTGATTTTAGGTTGAATTT
1 TTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTT
* * * ********** *
5608 TTTTACGTTTTCGGTTAGAGCAGATAATAATTGAATGTNNNNNNNNNNAAATGTGAAGAAAAAGG
66 TTTTACGTTTTTGGTTAGAACAAATAATAATTGAATGTTTGCCTTGTGAAACGTGAAGAAAAAGG
* *
5673 TATTCGTTGACAAGAAAAGTCCTTTTATAGTTACCCATCCC
131 TATTCATTGACAAGAAAAGTCCTTTTAGAGTTACCCATCCC
* * * **********
5714 TTTGAAAGCTTTATTACTCACTTTGAATGGTTTTATAATCTCNNNNNNNNNNTTAGGTTGAATTT
1 TTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTT
*
5779 TTTTACGTTTTTGAG-TAGAACAAATAATATTTGAATGTTTGCCTTGTGAAACGTGAAGAAAAAG
66 TTTTACGTTTTTG-GTTAGAACAAATAATAATTGAATGTTTGCCTTGTGAAACGTGAAGAAAAAG
* * *
5843 GTATTTATTGGCAAGAAAAGTCCTTTTAGAGTTACCCATTCC
130 GTATTCATTGACAAGAAAAGTCCTTTTAGAGTTACCCATCCC
* * *
5885 TTTAAAAGCCTTATTATTCAATTTAAATGGTTTTGTAATGC-CATAATTGATTTTAGGTTGAATT
1 TTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAAT-CTCATAATTGATTTTAGGTTGAATT
* * *********** * * ** * *
5949 GTTTTTACATTTTTTGTTANNNNNNNNNNGAATTGAATGTCTACCTTAAGAAACATGGAGAAAAA
65 -TTTTTACGTTTTTGGTTAGAACAAATAATAATTGAATGTTTGCCTTGTGAAACGTGAAGAAAAA
* * * * * *
6014 AGCATTCATTGATAAGAAAAGT-CTATTTATAGTCACCCATACC
129 GGTATTCATTGACAAGAAAAGTCCT-TTTAGAGTTACCCATCCC
* * * ** * * *
6057 TTTCAAAAGCCTTATTATTCGCTTTAAATTGTTTCGTAATGTCATAATTGATTTCAAGTTGAATT
1 TTT-AAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATT
* * * *
6122 TTTTTACATTTTTTGTTAAAACAGATAATAAT
65 TTTTTACGTTTTTGGTTAGAACAAATAATAAT
6154 NNNNNNNNNN
Statistics
Matches: 335, Mismatches: 98, Indels: 13
0.75 0.22 0.03
Matches are distributed among these distances:
171 182 0.54
172 100 0.30
173 53 0.16
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.39
Consensus pattern (171 bp):
TTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTT
TTTTACGTTTTTGGTTAGAACAAATAATAATTGAATGTTTGCCTTGTGAAACGTGAAGAAAAAGG
TATTCATTGACAAGAAAAGTCCTTTTAGAGTTACCCATCCC
Found at i:12638 original size:18 final size:17
Alignment explanation
Indices: 12611--12645 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12601 CACTTTAATT
*
12611 AGTTTTTTAATTTCAAA
1 AGTTTTTTAAGTTCAAA
12628 AGTTATTTTAAGTTCAAA
1 AGTT-TTTTAAGTTCAAA
12646 TTGTTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (17 bp):
AGTTTTTTAAGTTCAAA
Found at i:13901 original size:172 final size:163
Alignment explanation
Indices: 13614--14091 Score: 404
Period size: 170 Copynumber: 2.8 Consensus size: 163
13604 NNNNNNNNNN
* * * *
13614 TAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATCATTGCCCTTTTT
1 TAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGATTTTTCTTGCCAATGAAT-ACCTTTTT
* * * * * * * * *
13679 -TTCATATTTCTCAAGCTAGACAATCAATTATAATCTATTTTAATAAAAAATGTAAAAAAACTTG
65 CTTCATGTTTCCCAAGGTAGATATTCAATCATAATCTGTTTTAACAAAAAATGT-AAAAAACTTC
* * *
13743 AACTTAAAAT-AACTTTTGAAATTATAAAACCATTNNNNNNNNN
129 AACCTAAAATCAA-TTATGAAATTATAAAACCATT--------G
* * *
13786 NAATAAGGCTTTTAAAGGAATGGGTTACTATAAATGGATTTTTCCTGCCAATGAATACCTTTTTC
1 TAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGATTTTTCTTGCCAATGAATACCTTTTTC
* * * **
13851 TTCATGTTTCCCAAGGTAGATATTCAACCATAATCTGTTTTAACAAAAAATATCAAAATGTTCAA
66 TTCATGTTTCCCAAGGTAGATATTCAATCATAATCTGTTTTAACAAAAAATGTAAAAAACTTCAA
* * **
13916 CCTAAAATCAATTATGAGATTATAAAATCANNNNNNNNNNG
131 CCTAAAATCAATTATGAAATTATAAAACCA--------TTG
* ** *
13957 TAGTAAGGCTTTCGAA-GAATGGGTGACTATAAATGGATTTTTCTTGCCAATGAATACCCTTTTC
1 TAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGATTTTTCTTGCCAATGAATACCTTTTTC
* * * * * * * *
14021 TTTAAGTTTCCCAAGGAAGATATTCAATCATAATCTGTTCTAACCAAAAATGTCAAAAAGTTGAA
66 TTCATGTTTCCCAAGGTAGATATTCAATCATAATCTGTTTTAACAAAAAATGTAAAAAACTTCAA
14086 CCTAAA
131 CCTAAA
14092 NNNNNNNNNN
Statistics
Matches: 252, Mismatches: 44, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
170 107 0.42
171 50 0.20
172 95 0.38
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.33
Consensus pattern (163 bp):
TAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGATTTTTCTTGCCAATGAATACCTTTTTC
TTCATGTTTCCCAAGGTAGATATTCAATCATAATCTGTTTTAACAAAAAATGTAAAAAACTTCAA
CCTAAAATCAATTATGAAATTATAAAACCATTG
Found at i:15573 original size:172 final size:170
Alignment explanation
Indices: 15235--15978 Score: 704
Period size: 172 Copynumber: 4.3 Consensus size: 170
15225 TTAGGTTTCT
* * * * * *
15235 CATTTAAACTGAGTAATAAGTCTTTTGAAGGAAT-GGTGACTATAAATGGACATTTCTTGCCAAT
1 CATTTAAAGTGAATAATAAGGCTTTT-AAAGAATGGGCGACTATAAATGGACTTTTCTTGCCAAT
* * * ** * * *
15299 GAATGCCTCTTTCCTT-ACTTTTCTTAAGATAGACATTCAATTATT-GTCTGTTTCAACAAAAAA
65 GAATG-CT-TTTTCTTCACGTTTCTCAAGGCAAACATTCAATTATTAGTCTGTTTTAAC-CAAAA
* *
15362 ATGTAAAAACAATTCAACTTAAAATCAATTATTG-CATTACAAAAC
127 ATGTAAAAA-AATTCAACCTAAAATCAATTA-TGAGATTACAAAAC
* * * *
15407 CATTTAAAGTGAATATTAAAGCTTTTGAAAGTATGGGCGACTATAAATAGACTTTTCTTGCCAAT
1 CATTTAAAGTGAATAATAAGGCTTTT-AAAGAATGGGCGACTATAAATGGACTTTTCTTGCCAAT
* * * * * *
15472 GAATGCTTTTCTCTCCATGTTTCTTAAGGTAGATATTCAATT-TTAGTCTGTTTTAACCAAAAAT
65 GAATGCTTTT-TCTTCACGTTTCTCAAGGCAAACATTCAATTATTAGTCTGTTTTAACCAAAAAT
** *
15536 GTAAAAACAATTCAATTTAAAATCACTTAT-AGCATTACAAAAC
129 GTAAAAA-AATTCAACCTAAAATCAATTATGAG-ATTACAAAAC
* * * *
15579 CATTTAAAGCGAGA-AATAAGGCTTTTGAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCTA
1 CATTTAAAGTGA-ATAATAAGGCTTTT-AAAGAATGGGCGACTATAAATGGACTTTTCTTGCC-A
** * * * *
15643 TAAAAAT-CTTTTTCTTCACATTTCTCGAGGCAAACATTCAATTA-TAATCTGTTCTAACC-AAA
63 -ATGAATGCTTTTTCTTCACGTTTCTCAAGGCAAACATTCAATTATTAGTCTGTTTTAACCAAAA
*
15705 ATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAAC
127 ATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTACAAAAC
* * * * * * * *
15749 CATTTAAAGAGAGTAGTAAGGCTTTTAAAGAAAT-GACTAACTCTAAAGGGACTTTTCTTGTCAA
1 CATTTAAAGTGAATAATAAGGCTTTTAAAG-AATGGGC-GACTATAAATGGACTTTTCTTGCCAA
* *
15813 TGAATACCTTTTTCTTCACGTTTCCCAAGGCAAACATTCAATTATTA-TCT-TTTCTAACCAAAA
64 TGAAT-GCTTTTTCTTCACGTTTCTCAAGGCAAACATTCAATTATTAGTCTGTTT-TAACCAAAA
* * *
15876 ACGTAAAAAAATTCAACCTAGAATCAATTATGAGATTATAAAAC
127 ATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTACAAAAC
* * * * *
15920 CAATGAAAGTGAGTACTAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTT
1 CATTTAAAGTGAATAATAAGGCTTTTAAA-GAATGGGCGACTATAAATGGACTTTTCTT
15979 NNNNNNNNNN
Statistics
Matches: 480, Mismatches: 71, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
168 4 0.01
169 7 0.01
170 114 0.24
171 111 0.23
172 168 0.35
173 72 0.15
174 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (170 bp):
CATTTAAAGTGAATAATAAGGCTTTTAAAGAATGGGCGACTATAAATGGACTTTTCTTGCCAATG
AATGCTTTTTCTTCACGTTTCTCAAGGCAAACATTCAATTATTAGTCTGTTTTAACCAAAAATGT
AAAAAAATTCAACCTAAAATCAATTATGAGATTACAAAAC
Found at i:17506 original size:170 final size:170
Alignment explanation
Indices: 17239--17564 Score: 501
Period size: 170 Copynumber: 1.9 Consensus size: 170
17229 AATGAGTAAC
* *
17239 TATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCAAATTTCCCAAGGTGAATATTCAAT
1 TATAAATAGACTTTTCTTGCCAATGAATACC-TTTTCTTCAAATTTCCCAAGGTGAATATTAAAT
* * * *
17304 GATAATCTGTTCTAACTAAAAATTTTAAAAAGTTCAACCTAAAATCAATTATGAGATTATAAAAT
65 GATAATCTGTTCTAACCAAAAATGTGAAAAAGTTCAACCTAAAATCAATTATGAGATTATAAAAC
* *
17369 CATTTAATGTGAGTAGTAAGGCTTTTGAAGGAATTGGTGAA
130 CATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATTGGTGAA
* **
17410 TATAAATAGACTTTTCTTGCCAATGAATATCC-TTTCTTCACATTTCCTGAGGTGAATATTAAAT
1 TATAAATAGACTTTTCTTGCCAATGAATA-CCTTTTCTTCAAATTTCCCAAGGTGAATATTAAAT
* * *
17474 GATAATCTGTTCTAACCAAAAATGTGAAAAAGTTTAACCTGAAATCAATTATGATATTATAAAAC
65 GATAATCTGTTCTAACCAAAAATGTGAAAAAGTTCAACCTAAAATCAATTATGAGATTATAAAAC
17539 CATTTAAAGTGAGTAATAAGGCTTTT
130 CATTTAAAGTGAGTAATAAGGCTTTT
17565 AAAGNNNNNN
Statistics
Matches: 140, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
170 110 0.79
171 28 0.20
172 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (170 bp):
TATAAATAGACTTTTCTTGCCAATGAATACCTTTTCTTCAAATTTCCCAAGGTGAATATTAAATG
ATAATCTGTTCTAACCAAAAATGTGAAAAAGTTCAACCTAAAATCAATTATGAGATTATAAAACC
ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATTGGTGAA
Found at i:18028 original size:172 final size:162
Alignment explanation
Indices: 17754--18088 Score: 291
Period size: 172 Copynumber: 2.0 Consensus size: 162
17744 AAGGCTTTTG
* **
17754 AAGGAATGGGTGACTATAAATGGACTTTTTCTGCCAATGAATTTCTTTTTCTACACGTTTCTCAA
1 AAGGAATGGGTGACTATAAATGGACTTTTTCTGCCAATAAATGCCTTTTTCTACACGTTTCTCAA
* * * * * * **
17819 GGTAAACATTATTTTATATTCTGTTTTAACCAAAAATGTACAACGAA-TTCAAATTTACGTCAAT
66 GGCAAACATTATATTATAATCTATTTTAACAAAAAATGTACAA-GAATTTCAAATTAAAATCAAT
* *
17883 TTTGAGATTATAAAACCATTTAAAGTGAGTAAT
130 TTTAAGATAATAAAACCATTTAAAGTGAGTAAT
* * *
17916 AANNNNNNNNNNGGAATTGGTGATTATAAATGGAC-TTTTCTTGCCAATAAATGCCTTTTTCTTC
1 AA----------GGAATGGGTGACTATAAATGGACTTTTTC-TGCCAATAAATGCCTTTTTCTAC
* * * * * * *
17980 ATGTTTCTCGA-GCAAGATATTCA-ATTATAATCTATTTTAATAAAAAATGTATAATAATTTGAA
55 ACGTTTCTCAAGGCAA-ACATT-ATATTATAATCTATTTTAACAAAAAATGTACAAGAATTTCAA
* *
18043 CTTAAAATCAATTTTAAGATAATAAAACCGTTTAAAGTGAGTAAT
118 ATTAAAATCAATTTTAAGATAATAAAACCATTTAAAGTGAGTAAT
18088 A
1 A
18089 GGGCTTTTGA
Statistics
Matches: 134, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
162 2 0.01
171 10 0.07
172 121 0.90
173 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.37
Consensus pattern (162 bp):
AAGGAATGGGTGACTATAAATGGACTTTTTCTGCCAATAAATGCCTTTTTCTACACGTTTCTCAA
GGCAAACATTATATTATAATCTATTTTAACAAAAAATGTACAAGAATTTCAAATTAAAATCAATT
TTAAGATAATAAAACCATTTAAAGTGAGTAAT
Found at i:18296 original size:170 final size:171
Alignment explanation
Indices: 18045--18430 Score: 434
Period size: 170 Copynumber: 2.3 Consensus size: 171
18035 AATTTGAACT
* * * * * ** *
18045 TAAAATCAATTTTAAGATAATAAAACCGTTTAAAGTGAGTAATAGGGCTTTTGAAAGAATGGATA
1 TAAAATCAATTTTGAGATTATGAAACCATTTAAAGTGAGCAATAAAGCATTTGAAAGAATGGATA
* ********** * *
18110 ACTATAAATAGACTTTTCTTGCCAANNNNNNNNNNTTTC-TTCAAGTTTCCCATGGCAGATATTC
66 ACTATAAATAGACTTTTCTTCCCAATGACTATGTTTTTCATT-AAGTTTCCCATGCCAGACATTC
*
18174 AATTATAATATGTTCT-AACCAAAACATCAAAAAGTTAAACC
130 AATTATAATATGTTCTAAACAAAAACATCAAAAAGTTAAACC
* * *
18215 TAAAATCAATTTTGAGATTATGAAACCATTTAAAGTGGGCAATAAAGCATTTGAAAGAATGGGTT
1 TAAAATCAATTTTGAGATTATGAAACCATTTAAAGTGAGCAATAAAGCATTTGAAAGAATGGATA
* *
18280 ACTATAAATGGACTTTTCTTCCCAATGACTATGTTTTTCATTAGGTTTCCCATGCCAGACATTCA
66 ACTATAAATAGACTTTTCTTCCCAATGACTATGTTTTTCATTAAGTTTCCCATGCCAGACATTCA
* * * *
18345 ATTATAATCTGTTTTAAACAAAAACATCGAAAAGTTCAACC
131 ATTATAATATGTTCTAAACAAAAACATCAAAAAGTTAAACC
* * * *
18386 AAAAATTAATTATGAGATTATGAAACCATTTAAAGTGAGTAATAA
1 TAAAATCAATTTTGAGATTATGAAACCATTTAAAGTGAGCAATAA
18431 GGCTTTTGNN
Statistics
Matches: 178, Mismatches: 36, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
170 114 0.64
171 64 0.36
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.32
Consensus pattern (171 bp):
TAAAATCAATTTTGAGATTATGAAACCATTTAAAGTGAGCAATAAAGCATTTGAAAGAATGGATA
ACTATAAATAGACTTTTCTTCCCAATGACTATGTTTTTCATTAAGTTTCCCATGCCAGACATTCA
ATTATAATATGTTCTAAACAAAAACATCAAAAAGTTAAACC
Found at i:24871 original size:170 final size:170
Alignment explanation
Indices: 24674--25195 Score: 738
Period size: 171 Copynumber: 3.1 Consensus size: 170
24664 NNNNNNNNNN
* * * * *
24674 AGGCTTTCGAAAGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGACTACATTTTTCTTCAA
1 AGGCTTTTGAAAGAATAGGTTACTATAAATGGACTTTTCTTGCCAATGACTACCTTTTTCTTTAA
* * *
24739 GTTTCCCATGGTAGACGTTCAATTATAATTTGTTCTAACCAAAACGTCAAAAAGTTCAACCTAAA
66 GTTTCCCATGGTAGACATTCAATTATAATCTGTTCTAACCAAAACGTCAAAAAGTTCAACCAAAA
*
24804 ATCAATTATGAGATTATGAAACCATTGAAAGTAAGTAATA
131 ATCAATTATGAGATTATGAAACCATTTAAAGTAAGTAATA
* * *
24844 AGGCTTTTGAAGGAATAGGTTACTATAAATGGACTTTTATTGCCAATGACTACCTTTTTCTTTAG
1 AGGCTTTTGAAAGAATAGGTTACTATAAATGGACTTTTCTTGCCAATGACTACCTTTTTCTTTAA
* * *
24909 GTTTCCCATGGTAGACAATCAATTATAATCTGTTCTAACCAAAAACGTCAAAAAGTTCAATCGAA
66 GTTTCCCATGGTAGACATTCAATTATAATCTGTTCTAACC-AAAACGTCAAAAAGTTCAACCAAA
**********
24974 AATCNNNNNNNNNNTTATGAAACCATTTAAAGTAAGTAATA
130 AATCAATTATGAGATTATGAAACCATTTAAAGTAAGTAATA
* * *
25015 AGACTTTTGAAAGATTAGGTTACTATAAATAGACTTTTCTTGCCAATGACTACCTTTTTCTTTAA
1 AGGCTTTTGAAAGAATAGGTTACTATAAATGGACTTTTCTTGCCAATGACTACCTTTTTCTTTAA
*
25080 GTTTCCCATGGCAGACATTCAATTATAATCTGTTCTAACCAAAATCGTCAAAAAGTTCAACCAAA
66 GTTTCCCATGGTAGACATTCAATTATAATCTGTTCTAACCAAAA-CGTCAAAAAGTTCAACCAAA
* **
25145 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
130 AATCAATTATGAGATTATGAAACCATTTAAAGTAAGTAATA
25186 AGGCTTTTGA
1 AGGCTTTTGA
25196 NNNNNNNNNN
Statistics
Matches: 302, Mismatches: 48, Indels: 3
0.86 0.14 0.01
Matches are distributed among these distances:
170 98 0.32
171 204 0.68
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (170 bp):
AGGCTTTTGAAAGAATAGGTTACTATAAATGGACTTTTCTTGCCAATGACTACCTTTTTCTTTAA
GTTTCCCATGGTAGACATTCAATTATAATCTGTTCTAACCAAAACGTCAAAAAGTTCAACCAAAA
ATCAATTATGAGATTATGAAACCATTTAAAGTAAGTAATA
Found at i:27058 original size:170 final size:161
Alignment explanation
Indices: 26882--27305 Score: 359
Period size: 171 Copynumber: 2.5 Consensus size: 161
26872 GGAATGGGTG
* * ** * * **
26882 ACTATAAATGGACTTTTCTTGCGAATGACTATGTTTTTCTTCAAGTTTCCCATGGTAGATGTTCA
1 ACTATAAATGGACTTTTCTTGCCAATAACTACCTTTTCCTTCAAGTTTCCCATGGCAGACATTCA
* * * *
26947 ATTATAATATGTTCTAA-CTAAAACATTAAAAAGTTCAACCTAAAATCAATTCTGAGATTATAAA
66 ATTATAATATGTTCTAACCAAAAACATCAAAAAGTTCAACCGAAAATCAATTATGAGATTATAAA
27011 ACCATTTAAAGTAAGTAATAAGGCTTTNNNNNNNNNNGGTT
131 ACCATTTAAAGTAAGTAATAAGGCTTT----------GGTT
* * *
27052 ACTATAAATGGACTTTTCTTGCCAATAACTACCTTTTCCTTTAAGTTTCCTATGGCGGACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATAACTACCTTTTCCTTCAAGTTTCCCATGGCAGACATTCA
* * * * * *
27117 ATTATATTTTGTTCTAACCAAAAACGTCAAAAAGTTCAATCGAAAATCAATTATTAGATTATGAA
66 ATTATAATATGTTCTAACCAAAAACATCAAAAAGTTCAACCGAAAATCAATTATGAGATTATAAA
27182 ACCATTTAAAGTAAGTAATATA-GCTTTTGAAAGAATGGGTT
131 ACCATTTAAAGTAAGTAATA-AGGC--TT-------T-GGTT
* * * ** * * *
27223 ACTATAAAT-GACCTTTTCATGCCAATGATTACCTTTTTATTTAGGTTTCCCATGACAGACATTC
1 ACTATAAATGGA-CTTTTCTTGCCAATAACTACCTTTTCCTTCAAGTTTCCCATGGCAGACATTC
*
27287 AATTATAATCTGTTCTAAC
65 AATTATAATATGTTCTAAC
27306 NNNNNNNNNN
Statistics
Matches: 209, Mismatches: 33, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
170 71 0.34
171 134 0.64
172 1 0.00
173 2 0.01
180 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.36
Consensus pattern (161 bp):
ACTATAAATGGACTTTTCTTGCCAATAACTACCTTTTCCTTCAAGTTTCCCATGGCAGACATTCA
ATTATAATATGTTCTAACCAAAAACATCAAAAAGTTCAACCGAAAATCAATTATGAGATTATAAA
ACCATTTAAAGTAAGTAATAAGGCTTTGGTT
Found at i:28272 original size:172 final size:171
Alignment explanation
Indices: 27731--30896 Score: 2786
Period size: 171 Copynumber: 18.5 Consensus size: 171
27721 NNNNNNNNNN
* * * * *
27731 GGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGACTACGTTTTTCTT-AAA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * * * * *
27795 GTTTCCCATGGTAAACGTTTAATTATAATCT-TTTCTAACC-AAAACGAT-AAAAAGTTCAAC-C
66 -TTTCTCAAGGTAGACATTCAATTATAATCTGTTT-TAACCAAAAATG-TCAAAAAATTCAACTT
*
27856 AAAATTCAATTATGAGATTATGAAACCATTTAAAGTGAGTAATAA
128 AAAA-TCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * *
27901 GGCTTTCGAATGAATGGGTCACTATAAATGGACTTTTCTAGCCAATGAATGCATTTTTCTTCACA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * ** * *
27966 TTTC-CTAAGGT-GAATATTCAATGATAATATGTTGTAATAAAAAATGTCAAAAAGTTCAACCTA
66 TTTCTC-AAGGTAG-ACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAAAATTCAACTTA
* * *
28029 AAATCAATTATGCGATTATAAAACCATTAAAAGTGAGTATTAA
129 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * *
28072 GGCTTGTAAAGGAATGGGTAAATATAAAT-GATCTTTTCTTGCCAATAAATACCTTTTTCTTCAT
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGA-CTTTTCTTGCCAATGAATGCCTTTTTCTTCAT
* * * * *
28136 ATTTCTTAAGCTAGACATTCAATTAGAATCTGTTTTAACCAATAATGTGCAAAGAATTC-ACATT
65 ATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT-CAAAAAATTCAAC-TT
* * *
28200 TAAATCAAATT-TGAGATTATAAAACCATTTAAAGCGAGTAATAG
128 AAAATC-AATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * *
28244 GGCTTTTGAAGGAATGGTTGACTATAAATAGACTTATCTTGCCAATGACTACGTTTTTCTTCA-A
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * * * * *
28308 GTTTCCCATGGCAGACGTTTAATTATAATCTGTTTTAATCAAAACA--TCAAAAAGTTCAA-TCG
66 -TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAA-ATGTCAAAAAATTCAACT-T
* *
28370 AACATCAATTAT--G------AAACTATTTAAAGTGAGTAATAA
128 AAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * * **
28406 GGCTTTTGAAGGAATGGATTACTATAAATGGGCTTTTCTCGCCAATGACTACCTTTTTCTTCAGG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * ** * *
28471 TTTCCCATGGTAGACATTCAATTATAATCTG-TTCCACCTAAAAAAAGTCAAAAAATTCAA-TCA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACC--AAAAATGTCAAAAAATTCAACT-T
* * * *
28534 AAAATCACTTATGAGATTATGAAACTATTTAAAGCGAGTAATAA
128 AAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * *
28578 GGCTTGTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCATTTTTCTTCATG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * ** * * * *
28643 TTTCAT-GAGGTTGACATTCAATTATAATCTGTTTTAAATAAAAATGTGCAAAGAATTGAAATTT
66 TTTC-TCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT-CAAAAAATTCAACTTA
*
28707 AAATCAAGTT-TGAGATTATAAAACCATTTAAACTGAGTAATAA
129 AAATCAA-TTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * *
28750 GGCTCTTGAAGGAATGGGTGACTATAAATGGGCATTTCTTGCCAATGACTGCCTTTTTCTTTACA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * ** * *
28815 TTTCTTAAAGTAGATATTCAATTATTGTCTGTTTTAACAAAAAATGTAAAAAAATTCAACTTAAA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAAAATTCAACTTAAA
* *
28880 ATCAATTATG-GCATTACAAAACCATTTAAAGTGAGTAATTA
131 ATCAATTATGAG-ATTATAAAACCATTTAAAGTGAGTAATAA
* * * * *
28921 GGCTTTTGAAGGTATGGGTGACTATAAATAGACTTTTCTTTCCAATGAATGCTTTTTTCTTCATG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * *
28986 TTTCTTAAGGTCGACATTCAATTCTAGTCTGTTTTAACCAAAAATGTAAAACAAATTCAACTTAA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAA-AAATTCAACTTAA
* * * * * *
29051 AATCAGTTATG-GCATTACAAAACCAGTCAAAGCGAG-AATAN
130 AATCAATTATGAG-ATTATAAAACCATTTAAAGTGAGTAATAA
********* * * ** * *
29092 NNNNNNNNNAGGTATGGATGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTAACA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
** * * * *
29157 TTTCTCAAGAAAAACATTCAATTATAATTTGTTCTAACAAAAAATGT-AAAACAATTCAA-TCTA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAA-AATTCAACT-TA
* * * *
29220 AAATTAATAATGAGGTTATAAAACCATCTAAAGTGAGTAATAA
129 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * * **
29263 GGCTTTTAAAGGAATGGATAACTATAAAAGGACTTTTCTTGCCAATGAAT-AC-ATTTCTTCACG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * * * * * * *
29326 TTTCCCAAGGTAAAAATTCAATTATTATCTATTCTAACCGAAAACGTAAAAAAATTCAACCTAAA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAAAATTCAACTTAAA
* * *
29391 ATCAATTATGAGATTTTAAAACAATTGAAAGTGAGTAATAA
131 ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * *
29432 GGCTTTTAAAGGAATGGGTGACTATAAATGAACTTTTCTTGTCAATAAATGCCTTTTTCTTTATA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * ** *
29497 TTTCTCGAGCTAAACATTCAATTATAATCTATTTTAATAAAAAATGT-AAAACAATTTGAACTTA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAA-AA-TTCAACTTA
* * *
29561 AAAACAATTTTGAAATTATAAAACCATTTAAAGTGAGTAATAA
129 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * *
29604 GGCTTTTAAAGGAATAGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTGTACATG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
** * * * * * * * *
29669 TTTCTTGAGGTTGACATTTAATTATAATATGTTTTAACCAATAATATACAAAGAATTCAAATTTA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT-CAAAAAATTCAACTTAA
* *
29734 AATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAA
130 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
** * * ** * * * *
29776 GGCTTTAAAAGGAATGAGTGACTATAAGTGGACTTTTCTTATCAATGAATTCCTTTTTGTACATG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
** * * * ** * * *
29841 TTTCTTGAGGTAGACAGT-ATATTATAACCTGGTTTAACCAAAAACATACAAAGAATTCAAATTC
66 TTTCTCAAGGTAGACATTCA-ATTATAATCTGTTTTAACCAAAAATGT-CAAAAAATTCAACTTA
* * *
29905 AAATCAATTTTGAGATTATAAAACCATTTAAACTGAGTGATAA
129 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * * * **
29948 GGCTCTTGAAGGAATGGGTAACTATAAATGGGCATTTCCTGCCAATGAATGTCTTTTTCTTTACG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * * *
30013 CTTCTCAAGGTAGAGA-TCTAATTATAGTCTGTTCTAACAAAAAATGT-AGAAAAATTCAACCTA
66 TTTCTCAAGGTAGACATTC-AATTATAATCTGTTTTAACCAAAAATGTCA-AAAAATTCAACTTA
* * ** *
30076 AAATGAATTATG-GCATTACAAAACCATTTGGAGCGAGTAATAA
129 AAATCAATTATGAG-ATTATAAAACCATTTAAAGTGAGTAATAA
* * * * * * * *
30119 GACTTTTAAAGGAATAGGTGACTATAAATGAACTTTTCTTGTCAATAAATGCCTGTTTCTTCACG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCA-T
* * * * * * * *
30184 A-TTCTCGAGGTAGACATTTAATTATATTCTATTTTTAA-AAAAAATGTAAAAAAAATTGAGCTT
65 ATTTCTCAAGGTAGACATTCAATTATAATCT-GTTTTAACCAAAAATGT-CAAAAAATTCAACTT
* * * *
30247 AAAATCAATTTTGAGATTATAAAACTATTTAAAGGGAGTAATAG
128 AAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
** * * * * **
30291 GGCTTTTGAAGGAATAAGTGACTATAAATAGATTTTTCTTGTCAATGAATGCCTTTTTCTTTAGG
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * * * * * *
30356 TTTCCCATGGTAGACATTCGATTATAATCTATTCTAACTAAAAAGGTCAAAAAATTTAACCTAAA
66 TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAAAATTCAACTTAAA
* * *
30421 ATCAATTATGAGGTTACAAAACTATTTAAAGTGAGTAATAA
131 ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
** * * * * * *
30462 GGCTTTTGAAAAAATAGGTGACTATAAATAGAGTTTTCTTGTCAATAAATACCTTTTTCTTCATA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
** * * ** *
30527 TTTCTTGAGCG-AAACATTCAATTATAATCTATTTTAATAAAAAATGT-AAAAAATTTAAACTTA
66 TTTCTCAAG-GTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAAAA-TTCAACTTA
* * *
30590 AAATCAATTTTGAAATTATAAAACCATTTAAAGTGAGTAATAT
129 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * *
30633 GGCTTTTAAAGGGATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACA
1 GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
* * * * * *
30698 TTTCCCAAGGT-GAATATTCAATGATAATCTGTTCTAACCAAAAATGTCAAAAAGTTCAACCTAA
66 TTTCTCAAGGTAG-ACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAAAATTCAACTTAA
*
30762 AATCAATTATGAGATTATAAAACCATTGAAAGTGAGTAATAA
130 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
* * * *
30804 GGCTTTT-ACAGGAATGGATAACTATAAATGGACTTTTCTTGCCACTGAATGTC-TTTTCTTCAT
1 GGCTTTTGA-AGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCAT
* * *
30867 ATTTCTCGAGCTAGACATTCAATTAGAATC
65 ATTTCTCAAGGTAGACATTCAATTATAATC
30897 NNNNNNNNNN
Statistics
Matches: 2430, Mismatches: 493, Indels: 146
0.79 0.16 0.05
Matches are distributed among these distances:
161 4 0.00
162 105 0.04
163 4 0.00
164 24 0.01
166 1 0.00
168 1 0.00
169 142 0.06
170 184 0.08
171 972 0.40
172 972 0.40
173 18 0.01
174 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (171 bp):
GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATA
TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTCAAAAAATTCAACTTAAA
ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAA
Found at i:29019 original size:343 final size:341
Alignment explanation
Indices: 27731--30896 Score: 2849
Period size: 343 Copynumber: 9.3 Consensus size: 341
27721 NNNNNNNNNN
* * * * * *
27731 GGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGACTACGTTTTTCTT-AAA
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
** * * * * * * * * *
27795 GTTTCCCATGGTAAACGTTTAATTATAATCT-TTTCTAAC-CAAAACG-ATAAAAAGTTCAAC-C
66 -TTTCTTAAGCTAGACATTCAATTATAATCTGTTT-TAACAAAAAATGTA-AAAAAATTCAACTT
* * * *
27856 AAAATTCAATTATGAGATTATGAAACCATTTAAAGTGAGTAATAAGGCTTTCGAATGAATGGGTC
128 AAAA-TCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTG
* * * * *
27921 ACTATAAATGGACTTTTCTAGCCAATGAATGCATTTTTCTTCACATTTCCTAAGGT-GAATATTC
192 ACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAG-ACATTC
* * * ** *
27985 AATGATAATATGTTGTAATAAAAAATGTCAAAAAGTTCAACCTAAAATCAATTATGCGATTATAA
256 AATTATAATCTGTTCTAACCAAAAATGTCAAAAA-TTCAACCTAAAATCAATTATGAGATTATAA
* *
28050 AACCATTAAAAGTGAGTATTAA
320 AACCATTTAAAGTGAGTAATAA
* * * *
28072 GGCTTGTAAAGGAATGGGTAAATATAAAT-GATCTTTTCTTGCCAATAAATACCTTTTTCTTCAT
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGA-CTTTTCTTGCCAATAAATACCTTTTTCTTCAC
* * * * *
28136 ATTTCTTAAGCTAGACATTCAATTAGAATCTGTTTTAACCAATAATGTGCAAAGAATTC-ACATT
65 ATTTCTTAAGCTAGACATTCAATTATAATCTGTTTTAACAAAAAATGT-AAAAAAATTCAAC-TT
* * * *
28200 TAAATCAAATT-TGAGATTATAAAACCATTTAAAGCGAGTAATAGGGCTTTTGAAGGAATGGTTG
128 AAAATC-AATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTG
* * * * * * * * * *
28264 ACTATAAATAGACTTATCTTGCCAATGACTACGTTTTTCTTCAAGTTTCCCATGGCAGACGTTTA
192 ACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTCA
* * * * *
28329 ATTATAATCTGTTTTAATCAAAACA--TCAAAAAGTTCAATCGAACATCAATTAT--G------A
257 ATTATAATCTGTTCTAACCAAAA-ATGTCAAAAA-TTCAACCTAAAATCAATTATGAGATTATAA
*
28384 AACTATTTAAAGTGAGTAATAA
320 AACCATTTAAAGTGAGTAATAA
* * * * * * * **
28406 GGCTTTTGAAGGAATGGATTACTATAAATGGGCTTTTCTCGCCAATGACTACCTTTTTCTTCAGG
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
** * * ** * * * *
28471 TTTCCCATGGTAGACATTCAATTATAATCTGTTCCACCTAAAAAAAGTCAAAAAATTCAA-TCAA
66 TTTCTTAAGCTAGACATTCAATTATAATCTGTTTTAAC-AAAAAATGTAAAAAAATTCAACT-TA
* * * * *
28535 AAATCACTTATGAGATTATGAAACTATTTAAAGCGAGTAATAAGGCTTGTGAAGGAATGGGTGAC
129 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * *** *
28600 TATAAATGGACTTTTCTTGCCAATGAATGCATTTTTCTTCATGTTTCATGAGGTTGACATTCAAT
194 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTCAAT
* ** * ** *
28665 TATAATCTGTTTTAAATAAAAATGTGCAAAGAATTGAAATTTAAATCAAGTT-TGAGATTATAAA
259 TATAATCTGTTCTAACCAAAAATGT-CAAA-AATTCAACCTAAAATCAA-TTATGAGATTATAAA
*
28729 ACCATTTAAACTGAGTAATAA
321 ACCATTTAAAGTGAGTAATAA
* * * * * * * *
28750 GGCTCTTGAAGGAATGGGTGACTATAAATGGGCATTTCTTGCCAATGACTGCCTTTTTCTTTACA
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
* **
28815 TTTCTTAAAG-TAGATATTCAATTATTGTCTGTTTTAACAAAAAATGTAAAAAAATTCAACTTAA
66 TTTCTT-AAGCTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACTTAA
* * *
28879 AATCAATTATG-GCATTACAAAACCATTTAAAGTGAGTAATTAGGCTTTTGAAGGTATGGGTGAC
130 AATCAATTATGAG-ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * * * ** *
28943 TATAAATAGACTTTTCTTTCCAATGAATGCTTTTTTCTTCATGTTTCTTAAGGTCGACATTCAAT
194 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTCAAT
* * * * * * *
29008 TCTAGTCTGTTTTAACCAAAAATGTAAAACAAATTCAACTTAAAATCAGTTATG-GCATTACAAA
259 TATAATCTGTTCTAACCAAAAATGT-CAA-AAATTCAACCTAAAATCAATTATGAG-ATTATAAA
* * * *
29072 ACCAGTCAAAGCGAG-AATAN
321 ACCATTTAAAGTGAGTAATAA
********* * * * * *
29092 NNNNNNNNNAGGTATGGATGACTATAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTAACA
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
* ** * * * *
29157 TTTCTCAAGAAAAACATTCAATTATAATTTGTTCTAACAAAAAATGTAAAACAATTCAA-TCTAA
66 TTTCTTAAGCTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACT-TAA
* * * * * * *
29221 AATTAATAATGAGGTTATAAAACCATCTAAAGTGAGTAATAAGGCTTTTAAAGGAATGGATAACT
130 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACT
* * * * *
29286 ATAAAAGGACTTTTCTTGCCAATGAAT-AC-ATTTCTTCACGTTTCCCAAGGTAAAAATTCAATT
195 ATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTCAATT
* * * * * * *
29349 ATTATCTATTCTAACCGAAAACGTAAAAAAATTCAACCTAAAATCAATTATGAGATTTTAAAACA
260 ATAATCTGTTCTAACCAAAAATGT-CAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACC
*
29414 ATTGAAAGTGAGTAATAA
324 ATTTAAAGTGAGTAATAA
* * * * *
29432 GGCTTTTAAAGGAATGGGTGACTATAAATGAACTTTTCTTGTCAATAAATGCCTTTTTCTTTATA
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
** * * * * *
29497 TTTCTCGAGCTAAACATTCAATTATAATCTATTTTAATAAAAAATGTAAAACAATTTGAACTTAA
66 TTTCTTAAGCTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAA-AAATTCAACTTAA
* * * * *
29562 AAACAATTTTGAAATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATAGGTGACT
130 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACT
* * * * *** * *
29627 ATAAATGGACTTTTCTTGCCAATGAATACCTTTTTGTACATGTTTCTTGAGGTTGACATTTAATT
195 ATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTCAATT
* * * * ** * *
29692 ATAATATGTTTTAACCAATAATATACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAAC
260 ATAATCTGTTCTAACCAAAAATGT-CAAA-AATTCAACCTAAAATCAATTATGAGATTATAAAAC
*
29757 TATTTAAAGTGAGTAATAA
323 CATTTAAAGTGAGTAATAA
* * * ** * * * * **
29776 GGCTTTAAAAGGAATGAGTGACTATAAGTGGACTTTTCTTATCAATGAATTCCTTTTTGTACATG
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
* * * * * * ** * * *
29841 TTTCTTGAGGTAGACAGT-ATATTATAACCTGGTTTAACCAAAAACATACAAAGAATTCAAATTC
66 TTTCTTAAGCTAGACATTCA-ATTATAATCTGTTTTAACAAAAAATGTA-AAAAAATTCAACTTA
* * * * *
29905 AAATCAATTTTGAGATTATAAAACCATTTAAACTGAGTGATAAGGCTCTTGAAGGAATGGGTAAC
129 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * * * * * * *
29970 TATAAATGGGCATTTCCTGCCAATGAATGTCTTTTTCTTTACGCTTCTCAAGGTAGAGA-TCTAA
194 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTC-AA
* * * * *
30034 TTATAGTCTGTTCTAACAAAAAATGTAGAAAAATTCAACCTAAAATGAATTATG-GCATTACAAA
258 TTATAATCTGTTCTAACCAAAAATGT-CAAAAATTCAACCTAAAATCAATTATGAG-ATTATAAA
** *
30098 ACCATTTGGAGCGAGTAATAA
321 ACCATTTAAAGTGAGTAATAA
* * * * * *
30119 GACTTTTAAAGGAATAGGTGACTATAAATGAACTTTTCTTGTCAATAAATGCCTGTTTCTTCACG
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCAC-
** * * * * * *
30184 A-TTCTCGAGGTAGACATTTAATTATATTCTATTTTTAA-AAAAAATGTAAAAAAAATTGAGCTT
65 ATTTCTTAAGCTAGACATTCAATTATAATCT-GTTTTAACAAAAAATGT-AAAAAAATTCAACTT
* * * * **
30247 AAAATCAATTTTGAGATTATAAAACTATTTAAAGGGAGTAATAGGGCTTTTGAAGGAATAAGTGA
128 AAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGA
* * * * * * *
30312 CTATAAATAGATTTTTCTTGTCAATGAATGCCTTTTTCTTTAGGTTTCCCATGGTAGACATTCGA
193 CTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTCAA
* * * * * *
30377 TTATAATCTATTCTAACTAAAAAGGTCAAAAAATTTAACCTAAAATCAATTATGAGGTTACAAAA
258 TTATAATCTGTTCTAACCAAAAATGTC-AAAAATTCAACCTAAAATCAATTATGAGATTATAAAA
*
30442 CTATTTAAAGTGAGTAATAA
322 CCATTTAAAGTGAGTAATAA
* * * * * *
30462 GGCTTTTGAAA-AAATAGGTGACTATAAATAGAGTTTTCTTGTCAATAAATACCTTTTTCTTCAT
1 GGCTTTT-AAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCAC
* * * * * * *
30526 ATTTCTTGAGCGAAACATTCAATTATAATCTATTTTAATAAAAAATGTAAAAAATTTAAACTTAA
65 ATTTCTTAAGCTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACTTAA
* * * * * *
30591 AATCAATTTTGAAATTATAAAACCATTTAAAGTGAGTAATATGGCTTTTAAAGGGATGAGTGACT
130 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACT
* *
30656 ATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACATTTCCCAAGGT-GAATATTCAAT
195 ATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAG-ACATTCAAT
*
30720 GATAATCTGTTCTAACCAAAAATGTCAAAAAGTTCAACCTAAAATCAATTATGAGATTATAAAAC
259 TATAATCTGTTCTAACCAAAAATGTCAAAAA-TTCAACCTAAAATCAATTATGAGATTATAAAAC
*
30785 CATTGAAAGTGAGTAATAA
323 CATTTAAAGTGAGTAATAA
* * * * * ** *
30804 GGCTTTTACAGGAATGGATAACTATAAATGGACTTTTCTTGCCACTGAATGTC-TTTTCTTCATA
1 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
** *
30868 TTTCTCGAGCTAGACATTCAATTAGAATC
66 TTTCTTAAGCTAGACATTCAATTATAATC
30897 NNNNNNNNNN
Statistics
Matches: 2282, Mismatches: 481, Indels: 124
0.79 0.17 0.04
Matches are distributed among these distances:
333 5 0.00
334 236 0.10
335 9 0.00
336 15 0.01
337 4 0.00
338 1 0.00
339 39 0.02
340 147 0.06
341 213 0.09
342 460 0.20
343 750 0.33
344 398 0.17
345 5 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (341 bp):
GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCACA
TTTCTTAAGCTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAAAAATTCAACTTAAA
ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTA
TAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCCAAGGTAGACATTCAATTA
TAATCTGTTCTAACCAAAAATGTCAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCAT
TTAAAGTGAGTAATAA
Found at i:29574 original size:18 final size:19
Alignment explanation
Indices: 29543--29589 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
29533 ATAAAAAATG
*
29543 TAAAACAA-TTTGAACTTA
1 TAAAACAATTTTGAAATTA
29561 -AAAACAATTTTGAAATTA
1 TAAAACAATTTTGAAATTA
*
29579 TAAAACCATTT
1 TAAAACAATTT
29590 AAAGTGAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 9 0.36
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (19 bp):
TAAAACAATTTTGAAATTA
Found at i:31492 original size:14 final size:14
Alignment explanation
Indices: 31473--31505 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
31463 GAATGTGAGT
31473 AATAATGTACAAGG
1 AATAATGTACAAGG
31487 AATAATGTACAAGG
1 AATAATGTACAAGG
31501 AATAA
1 AATAA
31506 GTGACTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.21
Consensus pattern (14 bp):
AATAATGTACAAGG
Found at i:33155 original size:172 final size:172
Alignment explanation
Indices: 32809--33315 Score: 425
Period size: 171 Copynumber: 3.0 Consensus size: 172
32799 TTTAATTATT
* *
32809 ATCTATTCTAACAAAAAACGTAAAAATA-TTCAACCCAAAATCAATTATGAGATTATAAAACCAT
1 ATCTATTCTAACAAAAAATGTAAAAA-AGTTCAACCTAAAATCAATTATGAGATTATAAAACCAT
* * *********** ** *
32873 TGAAAGTGAGTAAT-ANNNNNNNNNNNGGAATGGGTGACTATAAATGGACTTTTCTTGTCAATAA
65 TTAAAGTGAGCAATAAGGCTTTGGAAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGA
* * * * * *
32937 ATGCCTTTTTCTTTATATTT-CTCGAGCTAGACATTCAAATATA
130 ATACCTTTTTCTTCATGTTTCCT-AAGGTAGATATTCAAATATA
* * * * * * **********
32980 ATCTATTTTAATAAAAAATGTAAAACAATTTGAACTTAAAATCAATTTTGNNNNNNNNNNACCAT
1 ATCTATTCTAACAAAAAATGTAAAA-AAGTTCAACCTAAAATCAATTATGAGATTATAAAACCAT
* * * *
33045 TTAAAGTGAGTAATAAGGCTTT-TAAAGGAATGAGTGACTATAAATGGAGTTTTCTTACCAATGA
65 TTAAAGTGAGCAATAAGGCTTTGGAAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGA
* *
33109 ATACTTTTTTCTTCATGTTTCCTAAGGTAGATATT-TAATCATA
130 ATACCTTTTTCTTCATGTTTCCTAAGGTAGATATTCAAAT-ATA
* * * *
33152 ATCTGTTCTAACCAAAAATGTGAAAAGGTTCAACCTAAAATCAATTATGAGATTATAAAACCATT
1 ATCTATTCTAACAAAAAATGTAAAAAAGTTCAACCTAAAATCAATTATGAGATTATAAAACCATT
* * ** *
33217 TAAAGTGAGCAGTAAGGGTTTGGGAAA--AATGGGTGACGGTAAATGGATTTTTCTTACCAATGA
66 TAAAGTGAGCAATAAGGCTTT-GGAAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGA
33280 ATACCTTTTTCTTCATGTTTCCTAAGGTAGATATTC
130 ATACCTTTTTCTTCATGTTTCCTAAGGTAGATATTC
33316 NNNNNNNNNN
Statistics
Matches: 258, Mismatches: 70, Indels: 15
0.75 0.20 0.04
Matches are distributed among these distances:
171 135 0.52
172 117 0.45
173 6 0.02
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.33
Consensus pattern (172 bp):
ATCTATTCTAACAAAAAATGTAAAAAAGTTCAACCTAAAATCAATTATGAGATTATAAAACCATT
TAAAGTGAGCAATAAGGCTTTGGAAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAA
TACCTTTTTCTTCATGTTTCCTAAGGTAGATATTCAAATATA
Found at i:33725 original size:171 final size:170
Alignment explanation
Indices: 33482--34978 Score: 1399
Period size: 172 Copynumber: 8.7 Consensus size: 170
33472 TCCCTAAGGA
** * * *
33482 AGACATTCAATTATAGCCTTTTTTAACT-AAAAATGTAAAAAAATTCAAATTAAAATCAATTTTT
1 AGACATTCAATTATAATCTGTTTTAA-TAAAAAATGT-AAAAAATTCAACTTAAAATCAATTTTG
* *
33546 AGATTATAAAACCATTTAAAGTGAGTAGTAATGCTTTTGAAGGAATGGGTGACTATAAATGGACT
64 AGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACT
* *
33611 TTTCTTGTCAATAAATACCTTTTTCTTCATATTTCTTGAGCT
129 TTTCTTGCCAATGAATACCTTTTTCTTCATATTTCTTGAGCT
* * *
33653 AAACATTCAATTATAATCTATTTTAATAAAAAATGTAAAAAATTTGAACTTAAAATCAATTTTGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAA-TTCAACTTAAAATCAATTTTGA
* * *
33718 AATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGAGTGACTATAAATGGACTT
65 GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
* * *
33783 TTCTTTCCAATGAATGCCTTTTTCTTCATATTTCTCGAGCT
130 TTCTTGCCAATGAATACCTTTTTCTTCATATTTCTTGAGCT
* * ** * * * *
33824 AGACATTCAATTAGAATCTGTTTAAACCAAGAATGTGCAAAGAATTCAAATTTAAATCAATTTTG
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGT--AAAAAATTCAACTTAAAATCAATTTTG
* *
33889 AGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATCGACT
64 AGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACT
* * ** * *
33954 TTTCTTGCCAATGAATTCCTTTTTCTACACGTTTCTGGAGGT
129 TTTCTTGCCAATGAATACCTTTTTCTTCATATTTCTTGAGCT
* * * *
33996 AAATATT-ATATTAT-ATCCTGTTTTAACT-AAAAATGTACAAAGAATTCAAATTTAAATCAATT
1 AGACATTCA-ATTATAAT-CTGTTTTAA-TAAAAAATGTA-AAA-AATTCAACTTAAAATCAATT
* * * *
34058 TTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATTGGTGATTATAAATGG
61 TTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGG
* * * **
34123 ACTTTTCTTGCCAATAAATACTTTTTTCTTCATGTTTCTCAAGCT
126 ACTTTTCTTGCCAATGAATACCTTTTTCTTCATATTTCTTGAGCT
* * * * *
34168 AGATATACAATTATAATCTGTATTAATAAAAAATGTATAATAATTTAAACTTAAAATCAATTTTG
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGTA-AA-AAATTCAACTTAAAATCAATTTTG
* * * * * * * *
34233 AGATTATAAAATCGTTTAAAGCGAGTAATAGGGCTTTTGAAGGAATAGTTTACTATAAATAGACT
64 AGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACT
* * * * *
34298 TATCTTGCCAATGACTACGTTGTTCTTCA-AGTTTCCAATG-GC-
129 TTTCTTGCCAATGAATACCTTTTTCTTCATA-TTT-C-TTGAGCT
* * ** * * * * * **
34340 AGACGTTCAATTATAATCTGTTCTAA-CCAAAACGCCAAAAAGTTCAACCTAAAATAAATTACGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATG-TAAAAAATTCAACTTAAAATCAATTTTGA
* * ** * *
34404 GGA-TATGAAACCATTTAAAGTAAGTAATAAGGCTTTCAAAGGAACGGGTTACTATAAATGGACT
65 -GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACT
* * *
34468 TTTCTTGCCAATGACTACCTTTTTCTTTAGGT-TTTCCATG-G-T
129 TTTCTTGCCAATGAATACCTTTTTCTTCA--TATTT-CTTGAGCT
* * * * * * ** *
34510 AGACATTCAATTCTTATCTATTCTAACCAAAAACATG-AAAAAGTTCAACCGAAAATCAATTATG
1 AGACATTCAATTATAATCTGTTTTAA-TAAAAA-ATGTAAAAAATTCAACTTAAAATCAATTTTG
* * * * * *
34574 AGATTATGAAACCATTTAAAGTAAGTAATAAGGCTTTTGAACGAATGAGTTACTATAACTGGACT
64 AGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACT
* * * ** *
34639 TTTCTTGCAAATGACTACCTTTTTCTTTAGGTTTCCCATGA-C-
129 TTTCTTGCCAATGAATACCTTTTTCTTCATATTT--CTTGAGCT
* * * ** * ** * *
34681 AAACAATCAATTATAATCTGTTCTAACCAAAAATGTCAAAAAGTTCAACCAAAAATTAATTATGA
1 AGACATTCAATTATAATCTGTTTTAATAAAAAATGT-AAAAAATTCAACTTAAAATCAATTTTGA
* * * *
34746 GATTATGAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTT
65 GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
** * * *
34811 TTCTTGCCAATGAATGTCTTTTTCTTCATCTTTCGTGAGGT
130 TTCTTGCCAATGAATACCTTTTTCTTCATATTTCTTGAGCT
* * * * * *
34852 TGACATTCAATTATAATCTATTGTAA-ACAAAAATGCGCAAAGAATTCAGA-TTTAAATCAATTT
1 AGACATTCAATTATAATCTGTTTTAATA-AAAAAT--GTAAAAAATTCA-ACTTAAAATCAATTT
** * *
34915 TGAGATTATAAAAATATTTAAACTGAGTAATAAGGCTCTTGAAGGAATGGGTGACTATAAATGG
62 TGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGG
34979 GCATT
Statistics
Matches: 1106, Mismatches: 182, Indels: 75
0.81 0.13 0.06
Matches are distributed among these distances:
169 7 0.01
170 137 0.12
171 464 0.42
172 482 0.44
173 16 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (170 bp):
AGACATTCAATTATAATCTGTTTTAATAAAAAATGTAAAAAATTCAACTTAAAATCAATTTTGAG
ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTT
TCTTGCCAATGAATACCTTTTTCTTCATATTTCTTGAGCT
Found at i:33934 original size:172 final size:170
Alignment explanation
Indices: 33482--34978 Score: 1442
Period size: 171 Copynumber: 8.7 Consensus size: 170
33472 TCCCTAAGGA
** * * * * *
33482 AGACATTCAATTATAGCCTTTTTTAACTAAAAATGTAAAAAAATTCAAATTAAAATCAATTTTTA
1 AGACATTCAATTATAATCTGTTCTAACCAAAAATGT-CAAAAATTCAAATTAAAATCAATTTTGA
* * *
33547 GATTATAAAACCATTTAAAGTGAGTAGTAATGCTTTTGAAGGAATGGGTGACTATAAATGGACTT
65 GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTT
* * * *
33612 TTCTTGTCAATAAATACCTTTTTCTTCATATTTCTTGAGCT
130 TTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAGCT
* * * ** * * *
33653 AAACATTCAATTATAATCTATTTTAATAAAAAATGTAAAAAATTTGAACTTAAAATCAATTTTGA
1 AGACATTCAATTATAATCTGTTCTAACCAAAAATGTCAAAAA-TTCAAATTAAAATCAATTTTGA
* *
33718 AATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGAGTGACTATAAATGGACTT
65 GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTT
* * *
33783 TTCTTTCCAATGAATGCCTTTTTCTTCATATTTCTCGAGCT
130 TTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAGCT
* * *
33824 AGACATTCAATTAGAATCTGTT-TAAACCAAGAATGTGCAAAGAATTCAAATTTAAATCAATTTT
1 AGACATTCAATTATAATCTGTTCT-AACCAAAAATGT-CAAA-AATTCAAATTAAAATCAATTTT
*
33888 GAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-AGGTGACTATAAATCGA
63 GAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGA
* * * * *
33952 CTTTTCTTGCCAATGAATTCCTTTTTCTACACGTTTCTGGAGGT
127 CTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAGCT
* * * * *
33996 AAATATT-ATATTAT-ATCCTGTTTTAACTAAAAATGTACAAAGAATTCAAATTTAAATCAATTT
1 AGACATTCA-ATTATAAT-CTGTTCTAACCAAAAATGT-CAAA-AATTCAAATTAAAATCAATTT
* * *
34059 TGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATTG-GTGATTATAAATGG
62 TGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA-TGAGTGACTATAAATGG
* * *
34123 ACTTTTCTTGCCAATAAATACTTTTTTCTTCATGTTTCTCAAGCT
126 ACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAGCT
* * ** *
34168 AGATATACAATTATAATCTGTAT-TAATAAAAAATGT-ATAATAATTTAAACTTAAAATCAATTT
1 AGACATTCAATTATAATCTGT-TCTAACCAAAAATGTCA-AA-AATTCAAA-TTAAAATCAATTT
* * * * * *
34231 TGAGATTATAAAATCGTTTAAAGCGAGTAATAGGGCTTTTGAAGGAAT-AGTTTACTATAAATAG
62 TGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAG-TGACTATAAATGG
* * * * * *
34295 ACTTATCTTGCCAATGACTACGTTGTTCTTCAAGTTTC-CAATGGC-
126 ACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGA--GCT
* * * ** * **
34340 AGACGTTCAATTATAATCTGTTCTAACC-AAAACGCCAAAAAGTTCAACCTAAAATAAATTACGA
1 AGACATTCAATTATAATCTGTTCTAACCAAAAATGTCAAAAA-TTCAAATTAAAATCAATTTTGA
* * ** * * *
34404 GGA-TATGAAACCATTTAAAGTAAGTAATAAGGCTTTCAAAGGAACGGGTTACTATAAATGGACT
65 -GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACT
* * * * *
34468 TTTCTTGCCAATGACTACCTTTTTCTTTAGGTTT-TCCATGGT
129 TTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGA-GCT
* * * ** * *** *
34510 AGACATTCAATTCTTATCTATTCTAACCAAAAACATGAAAAAGTTCAACCGAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTCTAACCAAAAATGTCAAAAA-TTCAAATTAAAATCAATTTTGA
* * * * *
34575 GATTATGAAACCATTTAAAGTAAGTAATAAGGCTTTTGAACGAATGAGTTACTATAACTGGACTT
65 GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTT
* * * * *
34640 TTCTTGCAAATGACTACCTTTTTCTTTAGGTTTC-CCATGAC-
130 TTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGA-G-CT
* * *** * *
34681 AAACAATCAATTATAATCTGTTCTAACCAAAAATGTCAAAAAGTTCAACCAAAAATTAATTATGA
1 AGACATTCAATTATAATCTGTTCTAACCAAAAATGTCAAAAA-TTCAAATTAAAATCAATTTTGA
* * * * *
34746 GATTATGAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTT
65 GATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTT
** * *
34811 TTCTTGCCAATGAATGTCTTTTTCTTCATCTTTCGT-GAGGT
130 TTCTTGCCAATGAATACCTTTTTCTTCATGTTTC-TCGAGCT
* * * * * * *
34852 TGACATTCAATTATAATCTATTGTAAACAAAAATGCGCAAAGAATTCAGATTTAAATCAATTTTG
1 AGACATTCAATTATAATCTGTTCTAACCAAAAATG-TCAAA-AATTCAAATTAAAATCAATTTTG
** * * *
34917 AGATTATAAAAATATTTAAACTGAGTAATAAGGCTCTTGAAGGAATGGGTGACTATAAATGG
64 AGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGG
34979 GCATT
Statistics
Matches: 1115, Mismatches: 176, Indels: 69
0.82 0.13 0.05
Matches are distributed among these distances:
169 1 0.00
170 127 0.11
171 498 0.45
172 477 0.43
173 12 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (170 bp):
AGACATTCAATTATAATCTGTTCTAACCAAAAATGTCAAAAATTCAAATTAAAATCAATTTTGAG
ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTT
TCTTGCCAATGAATACCTTTTTCTTCATGTTTCTCGAGCT
Done.