Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018401018.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_418.0, 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: 21043
ACGTcount: A:0.19, C:0.07, G:0.08, T:0.20
Warning! 9844 characters in sequence are not A, C, G, or T
Found at i:4423 original size:172 final size:169
Alignment explanation
Indices: 3872--5166 Score: 1074
Period size: 172 Copynumber: 7.6 Consensus size: 169
3862 NNNNNAAGTA
* *
3872 TTTTGAAGGAATGGGTGACTATTAATGGACTTTTCTTACCAATGAATG-CTTTTTCCTTCATGTT
1 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTT-CTTC-TGTT
* * * *
3936 TCTTGACGTTAACATTCAATTATAATCTTTTTTAACTAAAAATGTATAAAGAATTCAAATTTCAA
64 TCTTGAGGTTGACATTCAATTATAATCTGTTTTAA-TAAAAATGTA-AAAGAATTCAAATTTAAA
* *
4001 TCAATTTTGAGATTATAAAACCATTGAAAGTGAGT-ATGAAGGC
127 ACAATTTTGAGATTATAAAACCATTTAAAGTGAGTAAT-AAGGC
** ** ** *
4044 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGTGAACAAATATCTTTTTCTTTGTGTTT
1 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TTCTGTTT
* * * * * * * * *
4109 CTTGAGATTGACATTCAATTATAGTCTATTTTAGTCAAAAATGTAAAATACTTC-GACTAAAAAT
65 CTTGAGGTTGACATTCAATTATAATCTGTTTTAAT-AAAAATGTAAAAGAATTCAAATTTAAAA-
* * ** *
4173 TAATTATG-GCATTATAAAACCATTTAAAGCCAATAATGAA-GC
128 CAATTTTGAG-ATTATAAAACCATTTAAAGTGAGTAAT-AAGGC
*** * * *
4215 TTTTGAAGGAATGGGTGACTATAAACAAATTTTTCTTGCCAATGTATGACTTTTTCTTCTCGTTT
1 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCT-GTTT
* * *
4280 CTTGAGGCTGCCATTCAATTATAATCTGTTTTATTAAAAAATGTACAAAGAATTCAAATTTAAAA
65 CTTGAGGTTGACATTCAATTATAATCTGTTTTAAT-AAAAATGTA-AAAGAATTCAAATTTAAAA
* * * *
4345 AAATTTTGAGATTATAAAATCATTTAAAGTGAGTAAAAATGC
128 CAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGC
* * ** *
4387 TTTTGAAGGAATGGGTGACTAGAAATAGACTTTTCTTGCCAACAAATGCCTTTTTCATTATGTTT
1 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TTCTGTTT
* * * * * * *
4452 CTCGAGGTAGACA-TCAATTCTAGTCTGCTTTAACTAAAAATGTAAAA-ACGTTC-AACTTAAAA
65 CTTGAGGTTGACATTCAATTATAATCTGTTTTAA-TAAAAATGTAAAAGA-ATTCAAATTTAAAA
* * * * * * **
4514 TCAGTTATG-GCACTCTAAAACTATGTAAAGCAAGTAATAAGGC
128 -CAATTTTGAG-ATTATAAAACCATTTAAAGTGAGTAATAAGGC
* * * *** *
4557 TTTTCGAAGGAATGGGTGACTATTAATAGACTTTTCTTGCAAATGAATGCCTTGACCTTCACGTT
1 TTTT-GAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTC-TGTT
* * ** * * * * * *
4622 T-TTGGAGGTTAACATTAAATTATAAAATTTTTTAACGAACAATTTACAAAAAATTCAAATTTCA
64 TCTT-GAGGTTGACATTCAATTATAATCTGTTTTAA-TAAAAATGTA-AAAGAATTCAAATTTAA
* * * ** *
4686 ATCAATTTTGAGATTAGAAAACCAGTTAAAGTGTTTAATAAGTC
126 AACAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGC
* * * * * * *
4730 TTTTGAATGAATGGGTGACCATTAGTGGACTTTTCTTGTCAATGAATGCCTTTTCCTTCATGCTT
1 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTC-TGTTT
* * * * * *
4795 CTTGACGTTGACATTCAATTATAATCTTTTTTAACCAAAAACGTACAAAGAATTCAAATTTCAAT
65 CTTGAGGTTGACATTCAATTATAATCTGTTTTAA-TAAAAATGTA-AAAGAATTCAAATTTAAAA
* *
4860 CAATTTTGAGATTACAAAACCATTTAAAGTGAGTATTAAGGC
128 CAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGC
* * ** * *
4902 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTACTAAAAAATGTCTTATTC-TCTACGTT
1 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCT--GTT
* * * * * *
4966 TCTCGAGATTGACATTCAATTATAGTCTGTTTTAACAAAAAATATAAAA-AACTTCAACA--AAA
64 TCTTGAGGTTGACATTCAATTATAATCTGTTTTAA-TAAAAATGTAAAAGAA-TTCAA-ATTTAA
* * *
5028 AATCAATTATG-GCATTATAAAATCATTTAAA-TCGAGTAATGAGGC
126 AA-CAATTTTGAG-ATTATAAAACCATTTAAAGT-GAGTAATAAGGC
* * * * * *
5073 TTTTGAAGGAATAGGTGAGTATAAACGGATTTTTCTTGCAAATGTATGCCTTTTTCTTCATGTTT
1 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTC-TGTTT
5138 CTTGAGGTTGACATTCAATTATAATCTGT
65 CTTGAGGTTGACATTCAATTATAATCTGT
5167 NNNNNNNNNN
Statistics
Matches: 891, Mismatches: 198, Indels: 69
0.77 0.17 0.06
Matches are distributed among these distances:
169 10 0.01
170 56 0.06
171 324 0.36
172 435 0.49
173 58 0.07
174 8 0.01
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (169 bp):
TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTCTGTTTC
TTGAGGTTGACATTCAATTATAATCTGTTTTAATAAAAATGTAAAAGAATTCAAATTTAAAACAA
TTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGC
Found at i:4568 original size:343 final size:340
Alignment explanation
Indices: 3872--5160 Score: 1023
Period size: 343 Copynumber: 3.8 Consensus size: 340
3862 NNNNNAAGTA
* *
3872 TTTTGAAGGAATGGGTGACTATTAATGGACTTTTCTTACCAATGAATGCTTTTTCCTTCAT-GTT
1 TTTTGAAGGAATGGGTGACTATTAATAGACTTTTCTTGCCAATGAATGCTTTTT-CTTC-TCGTT
* *
3936 TCTTGACGTTAACATTCAATTATAATCTTTTTTAACTAAAAATGTATAAAGAATTCAAATTTCAA
64 TCTTGAGGTTAACATTCAATTATAATCTTTTTTAA-TAAAAATGTACAAAGAATTCAAATTTCAA
* * * *
4001 TCAATTTTGAGATTATAAAACCATTGAAAGTGAGTATGAAGGCTTTTGAAGGAATGGGTGACTAT
128 TCAATTTTGAGATTATAAAACCATTTAAAGTGAGTA-AAAAGCTTTTGAAGGAATGGGTGACTAG
* ** * * * * *
4066 AAATGGACTTTTCTTGTGAACAAATATCTTTTTCTTTGTGTTTCTTGAGATTGACATTCAATTAT
192 AAATAGACTTTTCTTGCCAACAAATACCTTTTTCATTATGTTTCTCGAGATAGACATTCAATTAT
* * * * *
4131 AGTCTATTTTAGTCAAAAATGTAAAATACTTCGACTAAAAATTAATTATGGCATTATAAAACCAT
257 AGTCTATTTAACTCAAAAATGTAAAATACTTCAACTAAAAATCAATTATGGCACTATAAAACCAT
*
4196 TTAAAGCCAATAATGAAGC
322 GTAAAGCCAATAATGAAGC
* * * * *
4215 TTTTGAAGGAATGGGTGACTATAAACAAATTTTTCTTGCCAATGTATGACTTTTTCTTCTCGTTT
1 TTTTGAAGGAATGGGTGACTATTAATAGACTTTTCTTGCCAATGAATG-CTTTTTCTTCTCGTTT
* ** * * * *
4280 CTTGAGGCTGCCATTCAATTATAATCTGTTTTATTAAAAAATGTACAAAGAATTCAAATTTAAAA
65 CTTGAGGTTAACATTCAATTATAATCTTTTTTAAT-AAAAATGTACAAAGAATTCAAATTTCAAT
* *
4345 AAATTTTGAGATTATAAAATCATTTAAAGTGAGTAAAAATGCTTTTGAAGGAATGGGTGACTAGA
129 CAATTTTGAGATTATAAAACCATTTAAAGTGAGTAAAAA-GCTTTTGAAGGAATGGGTGACTAGA
* * *
4410 AATAGACTTTTCTTGCCAACAAATGCCTTTTTCATTATGTTTCTCGAGGTAGACA-TCAATTCTA
193 AATAGACTTTTCTTGCCAACAAATACCTTTTTCATTATGTTTCTCGAGATAGACATTCAATTATA
* * * * *
4474 GTCTGCTTTAACT-AAAAATGTAAAA-ACGTTCAACTTAAAATCAGTTATGGCACTCTAAAACTA
258 GTCT-ATTTAACTCAAAAATGTAAAATAC-TTCAACTAAAAATCAATTATGGCACTATAAAACCA
4537 TGTAAAG-CAAGTAAT-AAGGC
321 TGTAAAGCCAA-TAATGAA-GC
* *** *
4557 TTTTCGAAGGAATGGGTGACTATTAATAGACTTTTCTTGCAAATGAATGCCTTGACCTTCACGTT
1 TTTT-GAAGGAATGGGTGACTATTAATAGACTTTTCTTGCCAATGAATG-CTTTTTCTTCTCGTT
* ** * * * *
4622 T-TTGGAGGTTAACATTAAATTATAAAATTTTTTAACGAACAATTTACAAAAAATTCAAATTTCA
64 TCTT-GAGGTTAACATTCAATTATAATCTTTTTTAA-TAAAAATGTACAAAGAATTCAAATTTCA
* * ** * * *
4686 ATCAATTTTGAGATTAGAAAACCAGTTAAAGTGTTTAATAAGTCTTTTGAATGAATGGGTGACCA
127 ATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAAAAAG-CTTTTGAAGGAATGGGTGACTA
** * * * ** * * * * *
4751 TTAGTGGACTTTTCTTGTCAATGAATGCC-TTTTCCTTCATGCTTCTTGACG-TTGACATTCAAT
191 GAAATAGACTTTTCTTGCCAACAAATACCTTTTTCATT-ATGTTTCTCGA-GATAGACATTCAAT
* * * * * * *** * * *
4814 TATAATCTTTTTTAAC-CAAAAACGTACAAAGAATTCAAATTTCAATCAATTTTGAG-ATTACAA
254 TATAGTC-TATTTAACTCAAAAATGTA-AAATACTTCAACTAAAAATCAATTATG-GCACTATAA
* ** * *
4877 AACCATTTAAAGTGAGT-ATTAAGGC
316 AACCATGTAAAGCCAATAATGAA-GC
* * * * ** *
4902 TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTACTAAAAAATGTCTTATTC-TCTACGTT
1 TTTTGAAGGAATGGGTGACTATTAATAGACTTTTCTTGCCAATGAATG-CTTTTTCTTCT-CGTT
* * * * * * * ***
4966 TCTCGAGATTGACATTCAATTATAGTCTGTTTTAACAAAAAATATA-AAA-AACTTCAACA-AAA
64 TCTTGAGGTTAACATTCAATTATAATCTTTTTTAA-TAAAAATGTACAAAGAA-TTCAA-ATTTC
* * * * *
5028 AATCAATTATG-GCATTATAAAATCATTTAAA-TCGAGTAATGAGGCTTTTGAAGGAATAGGTGA
126 AATCAATTTTGAG-ATTATAAAACCATTTAAAGT-GAGTAA-AAAGCTTTTGAAGGAATGGGTGA
* * ** * * *** * * * *
5091 GTATAAACGGATTTTTCTTGCAAATGTATGCCTTTTTC-TTCATGTTTCTTGAGGTTGACATTCA
188 CTAGAAATAGACTTTTCTTGCCAACAAATACCTTTTTCATT-ATGTTTCTCGAGATAGACATTCA
5155 ATTATA
252 ATTATA
5161 ATCTGTNNNN
Statistics
Matches: 764, Mismatches: 151, Indels: 62
0.78 0.15 0.06
Matches are distributed among these distances:
341 7 0.01
342 87 0.11
343 502 0.66
344 120 0.16
345 45 0.06
346 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (340 bp):
TTTTGAAGGAATGGGTGACTATTAATAGACTTTTCTTGCCAATGAATGCTTTTTCTTCTCGTTTC
TTGAGGTTAACATTCAATTATAATCTTTTTTAATAAAAATGTACAAAGAATTCAAATTTCAATCA
ATTTTGAGATTATAAAACCATTTAAAGTGAGTAAAAAGCTTTTGAAGGAATGGGTGACTAGAAAT
AGACTTTTCTTGCCAACAAATACCTTTTTCATTATGTTTCTCGAGATAGACATTCAATTATAGTC
TATTTAACTCAAAAATGTAAAATACTTCAACTAAAAATCAATTATGGCACTATAAAACCATGTAA
AGCCAATAATGAAGC
Found at i:6380 original size:172 final size:172
Alignment explanation
Indices: 6074--7406 Score: 1550
Period size: 172 Copynumber: 7.8 Consensus size: 172
6064 NNNNNNNNNN
* * *
6074 TCACTTTAAATGATTTTATAATCTCAAAATTGATTGAAATTTGAATTCTTTGTATATTTTTGGTT
1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTT
* * * * * *
6139 ATAAAAGATTATAATTGAATGCCAACGTCAAGAAACATGAAGGAAAAA-GCAGTCATTGGTAAAA
66 AAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAA-GAAAAAGGCATTCATTGGCAAGA
* *
6203 AAAGTCCATTTTTAGTCACCCATTCCTTCAAAAGCCTTTTTAC
130 AAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
* *
6246 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTATACATTTTTAGTT
1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTT
** * * *
6311 AAAAAAGATTATAATTGTCTGTCAACATCAAGAAACATGAAGGAAAAGGCATTCATTCGCAAGAA
66 AAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAA
* *
6376 AAGTCCATTAATAGTCACCCATTCCTTCAAAAGCCTTATGAC
131 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
* * * * * *
6418 ACACTTTAAACGGTTTTATAATCTCAAAAATGGA-TTAAAGTTGAGTTCTTTGTACATTTTTTGT
1 TCACTTTAAATGGTTTTATAATCTC-AAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGT
** * * * * * * *
6482 TAAAGTAGATTAAAATTGAATGTCAACCTTAAGAAACACGATGAAAATGGCCTACATTGGCAAGA
65 TAAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGA
* ** * * *
6547 AAAATCTGTTTATAGTCACCTATTCCTTCAAAAGCCTCACTAC
130 AAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
* ** * * * * *
6590 TCGCTTTAAATGGTTTTATAATGGCATAGTTGATTT-TAGTTGAAGTT-TTT-TACATTTTTAGT
1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAA-TTCTTTGTACATTTTTGGT
* * * * ** ** * ** *
6652 TAAAACAGACTATAATTGATTGTCAATCTTGAGAAACACAAAGAAAAAGGTATTTGTTGGCCAGA
65 TAAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGA
* * *
6717 AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGGCTTAATAC
130 AAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
* * * *
6760 TCACTTTAAATGGTTTTGTAATCTGAAAATTGATTGAAATTTGAATTCTTTGTACATTTCTGGTT
1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTT
* * *
6825 ATAAAAGATTATAATTGAATATCAACATCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAA
66 AAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAA
* * *
6890 AAGTCCATTAATAGTCACCGATTCCTTTAAAAGCCTTATTAC
131 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
** * *
6932 TCACAATAAATGGTTTTATAATCTTAAAATTGA-TTAAATTTGAATTCTTTGTACATTTTTTGTT
1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTT
* * * * *
6996 AAAACAGATTAAAATTGAATATCAACCTCAAGAAACATAAAGAAAAAGGCATACATTGGCAAGAA
66 AAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAA
* ** * *
7061 AAATCTGTTTATAGTCACCCATTCCATCAAAAGCCTCATTAC
131 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
* ** *
7103 TCGCTTTAAATAATTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGTTT
1 TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTT
* * *
7168 AAAACAGATTATAATTGAATGTCAACTTCAAGAAACATGAAGAAAAAGG--TTCATTGGTAAGAA
66 AAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAA
* * * * *
7231 AAGTCCATTTACAGTTACCCATTCCTCCAAAAGTCTTATTGC
131 AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
* * * * *
7273 TCACTTTAAATAGCTTTGTAATCTCAAAATAT-ATTGAAATTTGAATTATTTGTACATTTTTGGT
1 TCACTTTAAATGGTTTTATAATCTCAAAAT-TGATTTAAATTTGAATTCTTTGTACATTTTTGGT
* * * * ** **
7337 TGAAAAAGATTTTAACTCAATGTCAACCTCAAGAAATGTGAAGGTAAAGGCATTCATTGGCAAGA
65 TAAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGA
7402 AAAGT
130 AAAGT
7407 NNNNNNNNNN
Statistics
Matches: 971, Mismatches: 179, Indels: 22
0.83 0.15 0.02
Matches are distributed among these distances:
170 264 0.27
171 177 0.18
172 523 0.54
173 7 0.01
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (172 bp):
TCACTTTAAATGGTTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTT
AAAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAA
AAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTAC
Found at i:6811 original size:342 final size:340
Alignment explanation
Indices: 6074--7406 Score: 1473
Period size: 342 Copynumber: 3.9 Consensus size: 340
6064 NNNNNNNNNN
*
6074 TCACTTTAAATGATTTTATAATCTCAAAATTGATTGAAATTTGAATTCTTTGTATATTTTTGGTT
1 TCACTTTAAATGATTTTATAATCTCAAAATTGATTGAAATTTGAATTCTTTGTACATTTTTGGTT
* * * *
6139 ATAAAAGATTATAATTGAATGCCAACGTCAAGAAACATGAAGGAAAAAGCAGTCATTGGTAA-AA
66 ATAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAA-GAAAAGGCA-TCATTGGCAAGAA
* *
6203 AAAGTCCATTTTTAGTCACCCATTCCTTCAAAAGCCTTTTTACTCACTTTAAATGGTTTTATAAT
129 AAA-TCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAAT
*
6268 CTCAAAATTGATTTAAATTTGAATTCTTTATACATTTTTAGTTAAAAAAGATTATAATTG-TCTG
193 CTCAAAATTGATTT-AATTTGAATTCTTTATACATTTTTAGTTAAAACAGATTATAATTGAT-TG
* * * *
6332 TCAACATCAAGAAACATGAAGGAAAAGGCATTCATTCGCAAGAAAAGTCCATTAATAGTCACCCA
256 TCAAC-TCAAGAAACATAAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCA
6397 TTCCTTCAAAAGCCTT-ATGAC
320 TTCCTTCAAAAGCCTTAAT-AC
* * * * * * *
6418 ACACTTTAAACGGTTTTATAATCTCAAAAATGGATT-AAAGTTGAGTTCTTTGTACATTTTTTGT
1 TCACTTTAAATGATTTTATAATCTC-AAAATTGATTGAAATTTGAATTCTTTGTACATTTTTGGT
* * * * * *
6482 TA-AAGTAGATTAAAATTGAATGTCAACCTTAAGAAACACGATGAAAATGGCCTACATTGGCAAG
65 TATAA-AAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAA-GGCAT-CATTGGCAAG
** * * * *
6546 AAAAATCTGTTTATAGTCACCTATTCCTTCAAAAGCCTCACTACTCGCTTTAAATGGTTTTATAA
127 AAAAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
** * * * * *
6611 TGGCATAGTTGATTTTAGTTGAAGTT-TTT-TACATTTTTAGTTAAAACAGACTATAATTGATTG
192 TCTCAAAATTGATTTAATTTGAA-TTCTTTATACATTTTTAGTTAAAACAGATTATAATTGATTG
** * * ** * *
6674 TCAATCTTGAGAAACACAAAGAAAAAGGTATTTGTTGGCCAGAAAAGTCCATTTATAGTCTCCCA
256 TCAA-CTCAAGAAACATAAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCA
*
6739 TTCCTTCAAAAGGCTTAATAC
320 TTCCTTCAAAAGCCTTAATAC
* * * *
6760 TCACTTTAAATGGTTTTGTAATCTGAAAATTGATTGAAATTTGAATTCTTTGTACATTTCTGGTT
1 TCACTTTAAATGATTTTATAATCTCAAAATTGATTGAAATTTGAATTCTTTGTACATTTTTGGTT
* *
6825 ATAAAAGATTATAATTGAATATCAACATCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAA
66 ATAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAG-AAAAGGCA-TCATTGGCAAGAA
* * * * **
6890 AAGTCCATTAATAGTCACCGATTCCTTTAAAAGCCTTATTACTCACAATAAATGGTTTTATAATC
129 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATC
* * * * * * *
6955 TTAAAATTGATTAAATTTGAATTCTTTGTACATTTTTTGTTAAAACAGATTAAAATTGAATATCA
194 TCAAAATTGATTTAATTTGAATTCTTTATACATTTTTAGTTAAAACAGATTATAATTGATTGTCA
* * **
7020 ACCTCAAGAAACATAAAGAAAAAGGCATACATTGGCAAGAAAAATCTGTTTATAGTCACCCATTC
259 A-CTCAAGAAACATAAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTC
* * *
7085 CATCAAAAGCCTCATTAC
323 CTTCAAAAGCCTTAATAC
* * * *
7103 TCGCTTTAAATAATTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGTTT
1 TCACTTTAAATGATTTTATAATCTCAAAATTGATTGAAATTTGAATTCTTTGTACATTTTTGGTT
* * *
7168 A-AAACAGATTATAATTGAATGTCAACTTCAAGAAACATGAAGAAAAAGG-TTCATTGGTAAGAA
66 ATAAA-AGATTATAATTGAATGTCAACCTCAAGAAACATGAAG-AAAAGGCATCATTGGCAAGAA
* * * * * * * * *
7231 AAGTCCATTTACAGTTACCCATTCCTCCAAAAGTCTTATTGCTCACTTTAAATAGCTTTGTAATC
129 AAATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATC
* * * * * * * *
7296 TCAAAATAT-ATTGAAATTTGAATTATTTGTACATTTTTGGTTGAAAA-AGATTTTAACTCAATG
194 TCAAAAT-TGATT-TAATTTGAATTCTTTATACATTTTTAGTT-AAAACAGATTATAATTGATTG
** * **
7359 TCAACCTCAAGAAATGTGAAGGTAAAGGCATTCATTGGCAAGAAAAGT
256 TCAA-CTCAAGAAACATAAAGAAAAAGGCATTCATTGGCAAGAAAAGT
7407 NNNNNNNNNN
Statistics
Matches: 825, Mismatches: 145, Indels: 40
0.82 0.14 0.04
Matches are distributed among these distances:
341 84 0.10
342 344 0.42
343 230 0.28
344 153 0.19
345 14 0.02
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (340 bp):
TCACTTTAAATGATTTTATAATCTCAAAATTGATTGAAATTTGAATTCTTTGTACATTTTTGGTT
ATAAAAGATTATAATTGAATGTCAACCTCAAGAAACATGAAGAAAAGGCATCATTGGCAAGAAAA
ATCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTC
AAAATTGATTTAATTTGAATTCTTTATACATTTTTAGTTAAAACAGATTATAATTGATTGTCAAC
TCAAGAAACATAAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTT
CAAAAGCCTTAATAC
Found at i:7278 original size:513 final size:512
Alignment explanation
Indices: 6077--7406 Score: 1778
Period size: 513 Copynumber: 2.6 Consensus size: 512
6067 NNNNNNNTCA
* *
6077 CTTTAAATGATTTTATAATCTCAAAATTGATTGAAATTTGAATTCTTTGTATATTTTTGGTTATA
1 CTTTAAATGATTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTT-GTTA-A
* * *
6142 AA-AGATTATAATTGAATGCCAACGTCAAGAAACATGAAGGAAAAAGCAG-TCATTGGTAAAAAA
64 AACAGATTATAATTGAATGTCAACTTCAAGAAACATGAA-GAAAAAG--GTTCATTGGTAAGAAA
* * * *
6205 AGTCCATTTTTAGTCACCCATTCCTTCAAAAGCCTTTTTACTCACTTTAAATGGTTTTATAATCT
126 AGTCCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTGTAATCT
* * * **
6270 CAAAATTGATTTAAATTTGAATTCTTTATACATTTTTAGTTAAAAAAGATTATAATTGTCTGTCA
191 CAAAATTGATTGAAATTTGAATTCTTTGTACATTTTTGGTT-AAAAAGATTATAATTGAATGTCA
*
6335 ACATCAAGAAACATGAAGGAAAAGGCATTCATTCGCAAGAAAAGTCCATTAATAGTCACCCATTC
255 ACATCAAGAAACATGAAGGAAAAGGCATTCATTGGCAAGAAAAGTCCATTAATAGTCACCCATTC
** *
6400 CTTCAAAAGCCTTATGACACACTTTAAACGGTTTTATAATCTCAAAAATGGATTAAAGTTGAGTT
320 CTTCAAAAGCCTTATGACACACAATAAACGGTTTTATAATCTCAAAAATGGATTAAAGTTGAATT
** * * * * *
6465 CTTTGTACATTTTTTGTTAAAGTAGATTAAAATTGAATGTCAACCTTAAGAAACACGATGAAAAT
385 CTTTGTACATTTTTTGTTAAAACAGATTAAAATTGAATATCAACCTCAAGAAACACAAAGAAAAA
* * *
6530 GGCCTACATTGGCAAGAAAAATCTGTTTATAGTCACCTATTCCTTCAAAAGCCTCACTACTCG
450 GGCATACATTGGCAAGAAAAATCTGTTTATAGTCACCCATTCCATCAAAAGCCTCACTACTCG
* ** * * * *
6593 CTTTAAATGGTTTTATAATGGCATAGTTGATTT-TAGTTGAAGTT-TTT-TACATTTTTAGTTAA
1 CTTTAAATGATTTTATAATCTCAAAATTGATTTAAATTTGAA-TTCTTTGTACATTTTT-GTTAA
* * * ** ** **
6655 AACAGACTATAATTGATTGTCAATCTT-GAGAAACACAAAGAAAAAGGTATTTGTTGGCCAGAAA
64 AACAGATTATAATTGAATGTCAA-CTTCAAGAAACATGAAGAAAAAGG--TTCATTGGTAAGAAA
* *
6719 AGTCCATTTATAGTCT-CCCATTCCTTCAAAAGGCTTAATACTCACTTTAAATGGTTTTGTAATC
126 AGTCCATTTATAGT-TACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTGTAATC
* * *
6783 TGAAAATTGATTGAAATTTGAATTCTTTGTACATTTCTGGTTATAAAAGATTATAATTGAATATC
190 TCAAAATTGATTGAAATTTGAATTCTTTGTACATTTTTGGTTA-AAAAGATTATAATTGAATGTC
* *
6848 AACATCAAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTAATAGTCACCGATT
254 AACATCAAGAAACATGAAGGAAAAGGCATTCATTGGCAAGAAAAGTCCATTAATAGTCACCCATT
* * * * * * *
6913 CCTTTAAAAGCCTTATTACTCACAATAAATGGTTTTATAATCT-TAAAATTGATTAAATTTGAAT
319 CCTTCAAAAGCCTTATGACACACAATAAACGGTTTTATAATCTCAAAAATGGATTAAAGTTGAAT
*
6977 TCTTTGTACATTTTTTGTTAAAACAGATTAAAATTGAATATCAACCTCAAGAAACATAAAGAAAA
384 TCTTTGTACATTTTTTGTTAAAACAGATTAAAATTGAATATCAACCTCAAGAAACACAAAGAAAA
*
7042 AGGCATACATTGGCAAGAAAAATCTGTTTATAGTCACCCATTCCATCAAAAGCCTCATTACTCG
449 AGGCATACATTGGCAAGAAAAATCTGTTTATAGTCACCCATTCCATCAAAAGCCTCACTACTCG
*
7106 CTTTAAATAATTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGTTTAAA
1 CTTTAAATGATTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTG-TTAAA
7171 ACAGATTATAATTGAATGTCAACTTCAAGAAACATGAAGAAAAAGGTTCATTGGTAAGAAAAGTC
65 ACAGATTATAATTGAATGTCAACTTCAAGAAACATGAAGAAAAAGGTTCATTGGTAAGAAAAGTC
* * * * * *
7236 CATTTACAGTTACCCATTCCTCCAAAAGTCTTATTGCTCACTTTAAATAGCTTTGTAATCTCAAA
130 CATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTGTAATCTCAAA
* * * * *
7301 ATAT-ATTGAAATTTGAATTATTTGTACATTTTTGGTTGAAAAAGATTTTAACTCAATGTCAACC
195 AT-TGATTGAAATTTGAATTCTTTGTACATTTTTGGTT-AAAAAGATTATAATTGAATGTCAACA
** *
7365 TCAAGAAATGTGAAGGTAAAGGCATTCATTGGCAAGAAAAGT
258 TCAAGAAACATGAAGGAAAAGGCATTCATTGGCAAGAAAAGT
7407 NNNNNNNNNN
Statistics
Matches: 701, Mismatches: 97, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
511 1 0.00
512 1 0.00
513 335 0.48
514 273 0.39
515 62 0.09
516 29 0.04
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (512 bp):
CTTTAAATGATTTTATAATCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGTTAAAA
CAGATTATAATTGAATGTCAACTTCAAGAAACATGAAGAAAAAGGTTCATTGGTAAGAAAAGTCC
ATTTATAGTTACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTGTAATCTCAAAA
TTGATTGAAATTTGAATTCTTTGTACATTTTTGGTTAAAAAGATTATAATTGAATGTCAACATCA
AGAAACATGAAGGAAAAGGCATTCATTGGCAAGAAAAGTCCATTAATAGTCACCCATTCCTTCAA
AAGCCTTATGACACACAATAAACGGTTTTATAATCTCAAAAATGGATTAAAGTTGAATTCTTTGT
ACATTTTTTGTTAAAACAGATTAAAATTGAATATCAACCTCAAGAAACACAAAGAAAAAGGCATA
CATTGGCAAGAAAAATCTGTTTATAGTCACCCATTCCATCAAAAGCCTCACTACTCG
Found at i:15573 original size:170 final size:169
Alignment explanation
Indices: 15262--16372 Score: 1063
Period size: 170 Copynumber: 6.5 Consensus size: 169
15252 NNNNNNNNNN
* ** * *
15262 AAAACCATTTAAAGTGTGTAATAAGTATTTTGAAGGAATGGGTGACTATTAATGTACTTTTCTTG
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * * *
15327 CCAATGAATGTCTTTTCCTTCATATTTCTT-GACGTTGACATTCAATTATAATCTTTTTTAACTA
66 CCAATGAA--CCTTTTTCTTCATGTTT-TTGGAGGTTGACATTCAATTATAATCTGTTTT-A-TA
* *
15391 -AGAATGTACAAAGAATTCAAATTTCAATCAATTTTGAGATTAT
126 GAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTAT
********** * *
15434 NNNNNNNNNNAAAGTGAGT-ATGAAGGCTTTTGAAGGAATGGGTGACTATAAATGGAATTTTCAT
1 AAAACCATTTAAAGTGAGTAAT-AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT
* *
15498 ACCAATGAACCTTTTTCTTCATGTTTTTGGAGGTTGACATTTAATTATAATCTGTTTTATAGAAA
65 GCCAATGAACCTTTTTCTTCATGTTTTTGGAGGTTGACATTCAATTATAATCTGTTTTATAGAAA
15563 GATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTAT
130 -ATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTAT
*
15604 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTTACTATAAATGGACTTTTCTTG
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * ** * * * *
15669 CAAATGAATACCTTTTTCATT-ACGTTTATCAAGGTAGACA-TCAATTCTAGTCT-TTTAAACTA
66 CCAATG-A-ACCTTTTTC-TTCATGTTTTTGGAGGTTGACATTCAATTATAATCTGTTT-TA-TA
* * * *
15731 -AAAATATA-AAA-AAGTTCAACTTAAAATCAATTATG-GCATTAT
126 GAAAATGTACAAAGAA-TTCAAATTTAAATCAATTTTGAG-ATTAT
* ** * *
15773 AAAACCATGTAAAGCAAGTAATAAGGCTTTTTGAAGGAATGGGTGACTATTAATAGACTTTTCTT
1 AAAACCATTTAAAGTGAGTAATAAGGC-TTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT
* ** * * *
15838 GCTAATGAAAGCCTTTACCTTCACGTTTCTGGAGGTTGTCATT-AATTATAATC-GTTTT-TGAA
65 GCCAATG-AA-CCTTTTTCTTCATGTTTTTGGAGGTTGACATTCAATTATAATCTGTTTTAT--A
** *
15900 GAACAATGTACAAAGAATTCAAATTGCAATCAATTTTGAGATTAC
126 GAA-AATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTAT
* * *
15945 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGGAGGAATGGGTGACTATATATGGACTTTTCTTA
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * * * * *
16010 TCAATGAACCTTTTTTTTCATATTTCTGGAGGTTCAAATT-AAGTTATAATCTGTTTTAAAGAAA
66 CCAATGAACCTTTTTCTTCATGTTTTTGGAGGTTGACATTCAA-TTATAATCTGTTTTATAG-AA
* * *
16074 AATGTACAAAGAATTCAAATTTAAATCTATTTTGAGACTGT
129 AATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTAT
* * ** * * *
16115 AAAACTA-TTAAAGTGTGTAATAAGTATATTGAAGGAATGGGTGACTATTAATGAACTTTTCTTG
1 AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
* * * *
16179 CCAATAAATGCCTTTTCCTTCATGTTTCTT-GATGTTGACATTCAATTAGAATCT-TTTATGACT
66 CCAATGAA--CCTTTTTCTTCATGTTT-TTGGAGGTTGACATTCAATTATAATCTGTTT-T-A-T
* * *
16242 A-AAAATGTTCAAAGAATTCAAATTTCAATCAATTTTGAGATTAC
125 AGAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTAT
* **
16286 AAAACCATTTAAAGTGAGT-ATAAAGGTTTTTGAAGGAATGGGTGACTATAAATGGAAGTTTCTT
1 AAAACCATTTAAAGTGAGTAAT-AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT
*
16350 ACCAATGAACCTTTTTCTTCATG
65 GCCAATGAACCTTTTTCTTCATG
16373 NNNNNNNNNN
Statistics
Matches: 761, Mismatches: 141, Indels: 76
0.78 0.14 0.08
Matches are distributed among these distances:
167 1 0.00
168 5 0.01
169 139 0.18
170 283 0.37
171 146 0.19
172 181 0.24
173 6 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (169 bp):
AAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG
CCAATGAACCTTTTTCTTCATGTTTTTGGAGGTTGACATTCAATTATAATCTGTTTTATAGAAAA
TGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTAT
Found at i:15961 original size:341 final size:337
Alignment explanation
Indices: 15456--16370 Score: 1036
Period size: 341 Copynumber: 2.7 Consensus size: 337
15446 AGTGAGTATG
* * * * *
15456 AAGGC-TTTTGAAGGAATGGGTGACTATAAATGGAATTTTCATACCAATG-AA-CCTTTTTCTTC
1 AAGGCTTTTTGAAGGAATGGGTGACTATTAAT-GACTTTTCTTGCCAATGAAAGCCTTTTCCTTC
*
15518 ATGTTTTTGGAGGTTGACATTTAATTATAATCTGTTTT-ATAGAAAGATGTACAAAGAATTCAAA
65 ATGTTTCTGGAGGTTGACA-TTAATTATAATCT-TTTTGA-AGAAA-ATGTACAAAGAATTCAAA
* *
15582 TTTAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGT
126 TTTCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGT
* * * * *
15647 TACTATAAATGGACTTTTCTTGCAAATGAATACCTTTTTCATT-ACGTTTATCAAGGTAGACATC
191 GACTATAAATGGACTTTTCTTAC-AATG-A-ACCTTTTTCATTCACATTTATCAAGGTACAAATC
* * * * *
15711 AA-TTCTAGTC-TTTTAAACTAAAAATATA-AAA-AAGTTCAACTTAAAATCAATTATG-GCATT
253 AAGTTATAATCGTTTTAAA-GAAAAATATACAAAGAA-TTCAAATTAAAATCAATTATGAG-ACT
15771 ATAAAACCATGTAAAGCAAGTAAT
315 ATAAAACCAT-TAAAGCAAGTAAT
* *
15795 AAGGCTTTTTGAAGGAATGGGTGACTATTAATAGACTTTTCTTGCTAATGAAAGCCTTTACCTTC
1 AAGGCTTTTTGAAGGAATGGGTGACTATTAAT-GACTTTTCTTGCCAATGAAAGCCTTTTCCTTC
* *
15860 ACGTTTCTGGAGGTTGTCATTAATTATAATCGTTTTTGAAGAACAATGTACAAAGAATTCAAATT
65 ATGTTTCTGGAGGTTGACATTAATTATAATC-TTTTTGAAGAA-AATGTACAAAGAATTCAAATT
* *
15925 GCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAAGGCTTTTGGAGGAATGGGTGA
128 TCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGA
* * * * ** * *
15990 CTATATATGGACTTTTCTTATCAATGAACCTTTTT-TTTCATATTTCTGGAGGTTCAAATTAAGT
193 CTATAAATGGACTTTTCTTA-CAATGAACCTTTTTCATTCACATTTATCAAGGTACAAATCAAGT
* * * * *
16054 TATAATCTGTTTTAAAGAAAAATGTACAAAGAATTCAAATTTAAATCTATTTTGAGACTGTAAAA
257 TATAATC-GTTTTAAAGAAAAATATACAAAGAATTCAAATTAAAATCAATTATGAGACTATAAAA
* ***
16119 CTATTAAAGTGTGTAAT
321 CCATTAAAGCAAGTAAT
*
16136 AA-G-TATATTGAAGGAATGGGTGACTATTAATGAACTTTTCTTGCCAAT-AAATGCCTTTTCCT
1 AAGGCT-TTTTGAAGGAATGGGTGACTATTAATG-ACTTTTCTTGCCAATGAAA-GCCTTTTCCT
* * * *
16198 TCATGTTTCTTGATGTTGACATTCAATTAGAATCTTTTATGACTA-AAAATGTTCAAAGAATTCA
63 TCATGTTTCTGGAGGTTGACATT-AATTATAATCTTTT-TGA--AGAAAATGTACAAAGAATTCA
*
16262 AATTTCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGT-ATAAAGGTTTTTGAAGGAATG
124 AATTTCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAAT-AAGGCTTTTGAAGGAATG
**
16326 GGTGACTATAAATGGAAGTTTCTTACCAATGAACCTTTTTC-TTCA
188 GGTGACTATAAATGGACTTTTCTTA-CAATGAACCTTTTTCATTCA
16371 TGNNNNNNNN
Statistics
Matches: 495, Mismatches: 58, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
338 2 0.00
339 32 0.06
340 119 0.24
341 270 0.55
342 68 0.14
343 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (337 bp):
AAGGCTTTTTGAAGGAATGGGTGACTATTAATGACTTTTCTTGCCAATGAAAGCCTTTTCCTTCA
TGTTTCTGGAGGTTGACATTAATTATAATCTTTTTGAAGAAAATGTACAAAGAATTCAAATTTCA
ATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTA
TAAATGGACTTTTCTTACAATGAACCTTTTTCATTCACATTTATCAAGGTACAAATCAAGTTATA
ATCGTTTTAAAGAAAAATATACAAAGAATTCAAATTAAAATCAATTATGAGACTATAAAACCATT
AAAGCAAGTAAT
Found at i:16236 original size:511 final size:513
Alignment explanation
Indices: 15289--16358 Score: 1282
Period size: 511 Copynumber: 2.1 Consensus size: 513
15279 GTAATAAGTA
* * * *
15289 TTTTGAAGGAATGGGTGACTATTAATGTACTTTTCTTGCCAATGAATGTCTTTTCCTTCATATTT
1 TTTTGAAGGAATGGGTGACTATTAATGTACTTTTCTTGCCAATGAAAGCCTTTACCTTCACATTT
* * * * *
15354 CTTGACGTTGACATTCAATTATAATCTTTTTTAACTAAGAATGTACAAAGAATTCAAATTTCAAT
66 CTGGACGTTGACATTCAATTATAATCTTTTTGAACGAACAATGTACAAAGAATTCAAATTGCAAT
***********
15419 CAATTTTGAGATTATNNNNNNNNNNAAAGTGAGTATGAAGGCTTTTGAAGGAATGGGTGACTATA
131 CAATTTTGAGATTACAAAACCATTTAAAGTGAGTATGAAGGCTTTTGAAGGAATGGGTGACTATA
* * * *
15484 AATGGAATTTTCATACCAATGAACCTTTTTCTTCATGTTTTTGGAGGTTGACATTTAATTATAAT
196 AATGGAATTTTCATACCAATGAACCTTTTTCTTCATATTTCTGGAGGTTCACAATTAATTATAAT
* * *
15549 CTGTTTTATAGAAAGATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTT
261 CTGTTTTAAAGAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGACTATAAAACCATTT
* * * * *
15614 AAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTTACTATAAATGGACTTTTCTTGCAAATGAATA
326 AAAGTGAGTAATAAGGATATTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCAAATAAATA
** *
15679 CCTTTTTCATTACGTTTATCAAGGTAGACATCAATTCTAGTCTTTTA-AACTAAAAAT-AT-AAA
391 CCTTTTTCATTACGTTTATCAAGGTAGACATCAATTAGAATCTTTTATAACTAAAAATGATCAAA
* *
15741 AAAGTTCAACTTAAAATCAATTATG-GCATTATAAAACCATGTAAAGCAAGTA-ATAAGGCT
456 AAA-TTCAAATTAAAATCAATTATGAG-ATTACAAAACCATGTAAAGCAAGTATA-AAGG-T
* *
15801 TTTTGAAGGAATGGGTGACTATTAATAG-ACTTTTCTTGCTAATGAAAGCCTTTACCTTCACGTT
1 TTTTGAAGGAATGGGTGACTATTAAT-GTACTTTTCTTGCCAATGAAAGCCTTTACCTTCACATT
* *
15865 TCTGGAGGTTGTCATT-AATTATAATCGTTTTTGAA-GAACAATGTACAAAGAATTCAAATTGCA
65 TCTGGACGTTGACATTCAATTATAATC-TTTTTGAACGAACAATGTACAAAGAATTCAAATTGCA
*
15928 ATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAAT-AAGGCTTTTGGAGGAATGGGTGACT
129 ATCAATTTTGAGATTACAAAACCATTTAAAGTGAGT-ATGAAGGCTTTTGAAGGAATGGGTGACT
* * * * *
15992 ATATATGGACTTTTCTTATCAATGAACCTTTTTTTTCATATTTCTGGAGGTTCA-AATTAAGTTA
193 ATAAATGGAATTTTCATACCAATGAACCTTTTTCTTCATATTTCTGGAGGTTCACAATTAA-TTA
* * *
16056 TAATCTGTTTTAAAGAAAAATGTACAAAGAATTCAAATTTAAATCTATTTTGAGACTGTAAAACT
257 TAATCTGTTTTAAAGAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGACTATAAAACC
* * * *
16121 A-TTAAAGTGTGTAATAAGTATATTGAAGGAATGGGTGACTATTAATGAACTTTTCTTGCCAATA
322 ATTTAAAGTGAGTAATAAGGATATTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCAAATA
* * * * ** * * *
16185 AATGCC-TTTTCCTTCATGTTTCTTGATGTTGACATTCAATTAGAATCTTTTATGACTAAAAATG
387 AATACCTTTTTCATT-ACGTTTATCAAGGTAGACA-TCAATTAGAATCTTTTATAACTAAAAATG
* * ** * * **
16249 TTCAAAGAATTCAAATTTCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTATAAAGGT
450 ATCAAAAAATTCAAATTAAAATCAATTATGAGATTACAAAACCATGTAAAGCAAGTATAAAGGT
* * ** *
16313 TTTTGAAGGAATGGGTGACTATAAATGGAAGTTTCTTACCAATGAA
1 TTTTGAAGGAATGGGTGACTATTAATGTACTTTTCTTGCCAATGAA
16359 CCTTTTTCTT
Statistics
Matches: 470, Mismatches: 76, Indels: 24
0.82 0.13 0.04
Matches are distributed among these distances:
509 7 0.01
510 77 0.16
511 208 0.44
512 127 0.27
513 44 0.09
514 7 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (513 bp):
TTTTGAAGGAATGGGTGACTATTAATGTACTTTTCTTGCCAATGAAAGCCTTTACCTTCACATTT
CTGGACGTTGACATTCAATTATAATCTTTTTGAACGAACAATGTACAAAGAATTCAAATTGCAAT
CAATTTTGAGATTACAAAACCATTTAAAGTGAGTATGAAGGCTTTTGAAGGAATGGGTGACTATA
AATGGAATTTTCATACCAATGAACCTTTTTCTTCATATTTCTGGAGGTTCACAATTAATTATAAT
CTGTTTTAAAGAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGACTATAAAACCATTT
AAAGTGAGTAATAAGGATATTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCAAATAAATA
CCTTTTTCATTACGTTTATCAAGGTAGACATCAATTAGAATCTTTTATAACTAAAAATGATCAAA
AAATTCAAATTAAAATCAATTATGAGATTACAAAACCATGTAAAGCAAGTATAAAGGT
Found at i:17627 original size:170 final size:171
Alignment explanation
Indices: 17270--17627 Score: 377
Period size: 172 Copynumber: 2.1 Consensus size: 171
17260 NNNNNNNNNN
* * *
17270 TAAATCAATTTTGAGACTATAAAACCATTTAAAGTGTGTAATAAGTATTTTGAAAGAATGGGTGA
1 TAAATCAATTTTGAGACTACAAAACCATTTAAAGTGAGTAATAAGGATTTTGAAAGAATGGGTGA
* * * *
17335 CTATTAATGGACTTTTCTTGACGATGAATGCCTTTTCCTTCATGTTTCTTGATGTTGACATTCAA
66 CTATAAATGGAATTTTCTTGACGATGAA-GCCTTTTCCTTCATGTTTCTGGAGGTTGACATTCAA
* * **********
17400 TTATATTCTTTTTTAACTAAAAATGTACAANNNNNNNNNNTT
130 TTATATTCTTTTATAACGAAAAATGTACAAAGAATTCAAATT
* * * * *
17442 TCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGT-ATGAAGGCTTTTTAAGGAATGGGTG
1 TAAATCAATTTTGAGACTACAAAACCATTTAAAGTGAGTAAT-AAGGATTTTGAAAGAATGGGTG
* *
17506 ACTATAAATGGAATTTTCTT-ACCTATGAA-CCTTTT-TTTCAATGTTTCTGGAGGTTGACATTC
65 ACTATAAATGGAATTTTCTTGA-CGATGAAGCCTTTTCCTTC-ATGTTTCTGGAGGTTGACATTC
*
17568 AATTATAATTAGTTTTAT-A-GAAAAATGTACAAAGAATTCAAATT
128 AATTAT-ATT-CTTTTATAACGAAAAATGTACAAAGAATTCAAATT
17612 TAAATCAATTTTGAGA
1 TAAATCAATTTTGAGA
17628 NNNNNNNNNN
Statistics
Matches: 153, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
169 3 0.02
170 61 0.40
171 7 0.05
172 82 0.54
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.38
Consensus pattern (171 bp):
TAAATCAATTTTGAGACTACAAAACCATTTAAAGTGAGTAATAAGGATTTTGAAAGAATGGGTGA
CTATAAATGGAATTTTCTTGACGATGAAGCCTTTTCCTTCATGTTTCTGGAGGTTGACATTCAAT
TATATTCTTTTATAACGAAAAATGTACAAAGAATTCAAATT
Done.