Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398905.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2186.0, 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: 5645
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.28
Warning! 1244 characters in sequence are not A, C, G, or T
Found at i:942 original size:174 final size:169
Alignment explanation
Indices: 751--1212 Score: 455
Period size: 174 Copynumber: 2.7 Consensus size: 169
741 NNNNNNNNNN
* *
751 AGTAATATGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTTACCAACGAATATCTTTT
1 AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTTACCAATGAAT-TCTTTT
* * * * * * * *
816 TCTTTAAGTTACTCAAGCTAGACAATCAATTATAATATTTTTTAACTAATAATGTAAAAAACAAA
65 TCTTTATGTT-CTCAAGGTAGACATTCAATTATAATATGTATTAACCAAAAATCT--AAAACAAA
* ** * *
881 TTGAACCTAAAATCAATTTTGAGATTATAAAGCCATTTAAAGTG
127 -TCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAATG
* * * *
925 AGTAATAAAGCTTTTGAAGGAAT-AG-GAAACTATAAATGGACTTTTCTTTCCAATGAATGCTTT
1 AGTAATAAGGCTTTTGAAGGAATGAGTG--ACTATAAATGAACTTTTCTTACCAATGAATTC-TT
* * * * **
988 TTTCTTTATGATTCTCAAGGTAAACATTCAATTATAGTCTGTATTAACCAAAAATCTGAAAGTAA
63 TTTCTTTATG-TTCTCAAGGTAGACATTCAATTATAATATGTATTAACCAAAAATCTAAAACAAA
* * *
1053 TCAACTTAAAATCAATTAGGATATTATAAAACCGTTTAAAATG
127 TCAACCTAAAATCAATTAGGAGATTATAAAACCATTTAAAATG
* * * *
1096 AGTAATAAGGC-TTTGAAGGAATGAGTGACTTTAAAT-AGACTTTTTTTGCCAGTGAATGTCTTT
1 AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGA-ACTTTTCTTACCAATGAAT-TCTTT
* * * * *
1159 TTCTTCATGTTTCTCAAGGTAGACCTTCAATTATAGTCTGTTTTAACCAAAAAT
64 TTCTTTATG-TTCTCAAGGTAGACATTCAATTATAATATGTATTAACCAAAAAT
1213 TATAGTCTGT
Statistics
Matches: 240, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
170 87 0.36
171 48 0.20
172 7 0.03
173 3 0.01
174 93 0.39
175 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (169 bp):
AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTTACCAATGAATTCTTTTT
CTTTATGTTCTCAAGGTAGACATTCAATTATAATATGTATTAACCAAAAATCTAAAACAAATCAA
CCTAAAATCAATTAGGAGATTATAAAACCATTTAAAATG
Found at i:1175 original size:170 final size:172
Alignment explanation
Indices: 558--3202 Score: 1650
Period size: 171 Copynumber: 15.3 Consensus size: 172
548 NNNNNNNNNN
* * * * *
558 TTATAAAATCATTTAAAGTGAGTAATAAGGCTTTCGAAGGAATG-GATAATTATCAATGGACTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAG-TGACTATAAATGGACTTT
* * * * *
622 TTATGCCAGTGAATGTCTTTTTCTTCATGTTT-TTAGAGGTAAACCTTCAATTATAGTCTATTTT
65 TTTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCA-AGGTAAACATTCAATTATAGTCTGTTTT
* * * *
686 AATCAAAAATGCAAAAAAAAATTCAACATCAAGTCAATTATGAGA
129 AACCAAAAAT-CTAAAAAAAATTCAACATAAAATCAATTATGAGA
************ * *
731 TTATAAAANNNNNNNNNNNNAGTAATATGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT
* * * * * * * * * * * * *
796 CTTACCAACGAATATCTTTTTCTTTAAGTTACTCAAGCTAGACAATCAATTATAATATTTTTTAA
66 TTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAA
* * * * * *
861 CTAATAATGTAAAAAACAAATTGAACCTAAAATCAATTTTGAGA
131 CCAAAAATCT-AAAAA-AAATTCAACATAAAATCAATTATGAGA
* *
905 TTATAAAGCCATTTAAAGTGAGTAATAAAGCTTTTGAAGGAAT-AG-GAAACTATAAATGGACTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTG--ACTATAAATGGACTT
* * *
968 TTCTTT-CCAATGAATG-CTTTTTTCTTTATGATTCTCAAGGTAAACATTCAATTATAGTCTGTA
64 TT-TTTGCCAATGAATGTC-TTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTT
* ** * * *
1031 TTAACCAAAAATCTGAAAGTAA-TCAACTTAAAATCAATTAGGATA
127 TTAACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
* * * *
1076 TTATAAAACCGTTTAAAATGAGTAATAAGGC-TTTGAAGGAATGAGTGACTTTAAATAGACTTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT
* * *
1140 TTTGCCAGTGAATGTCTTTTTCTTCATGTTTCTCAAGGTAGACCTTCAATTATAGTCTGTTTTAA
66 TTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAA
****** * * * ** **
1205 CCAAAAAT-TATAGTCTGTTTTAACCAAAAAAGTGAAAAAAT-TCA
131 CCAAAAATCTA-AAAAAAATTCAA-CATAAAA-T-CAATTATGAGA
* * * * * * * *
1249 TCTA-AAAATCAATT--A-TGAGATTATCAA-ACTATTTAAATCGAGTAATAAG-G-CTTTTGAA
1 T-TATAAAACCATTTAAAGTGAG-TAAT-AAGGCT-TTTGAA--G-G-AATGAGTGAC-TATAAA
* *** * * * * * ***
1307 -GGA--ATGGGT-CACTATAAATGGAC-TTTTCTTTCCAATGAATGCCTTTTTCTTCATGTTTCT
57 TGGACTTTTTTTGC-CAATGAAT-GTCTTTTTC-TT-C-----ATG----TTTC-TCAAGGTAAA
** * * ** ** ** * *
1367 CGAGGTAGACATTCA-ATTATAGTCTATT--TTAACCAAAAATGTGAAAACATTCAACTTAAAAT
108 C-A--TTCA-ATT-ATAGTCT-GT-T-TTAACCAA--AAATCT-AAAAAAAATTCAACATAAAAT
*
1429 CAATTTTGAGA
162 CAATTATGAGA
* * * * * *
1440 TTATAAAGCCATTTAAAGCGAGTAATAATGCTCTTGAAGGAATAAGAGACTATAAATGGACTTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT
* * * *
1505 CTTACCAATGAATG-CTTTTTTCATT-ATGTTTCTCAAGGTAAACATTCAATTATAGTTTGTATT
66 TTTGCCAATGAATGTC-TTTTTC-TTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTT
* * *** * * **
1568 AACTAAAAATCT-GAAGGCATTCAGCTTAAAATCAATTATGTTA
129 AACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
* *
1611 TTATAAAACTATTTTAAA-TGAGTAATAAGGCTTTTGAAGGAATTG-GTGACTTTAAATGGACTT
1 TTATAAAACCA-TTTAAAGTGAGTAATAAGGCTTTTGAAGGAA-TGAGTGACTATAAATGGACTT
* * * *
1674 TTTTTGCCAGTGAATATCTTTTTCTTCATGTTTCTCAAGGTAGAGC-TTCAATTATAGTCTATTT
64 TTTTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTA-AACATTCAATTATAGTCTGTTT
* *
1738 TAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGA
128 TAACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
* *** *
1782 TTATAAAACCATTTAAAGCT-AATAATATTACTTTTTAAGGAATGAGTGACTATAAATGGACTTT
1 TTATAAAACCATTTAAAG-TGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTT
* * * * * * *
1846 TCTTT-CCAATGAATGTCTTTTTCTTCATATTACTCGAGCTAGACATTCAATTATAATAT-TCTT
65 T-TTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGT-TT
* * * * *
1909 TAACCAATAAT-AAAAAAAAATTGAACTTAAAATCAATTTTGAGA
128 TAACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
* * *
1953 TTATGAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-AGGAGACTATAAATGGACTTG
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTT-
* * * * ** * *
2017 TCTTT-CCAATGAATG-CTTGTTTGTTCATGTTTC-CTGAGCTATGCATTTAATTATAGTATGTT
64 TTTTTGCCAATGAATGTCTT-TTTCTTCATGTTTCTC-AAGGTAAACATTCAATTATAGTCTGTT
* * *
2079 TTAACCAAAAATGT-TAAAAAATTCAACTTAAAATCAATTATGAGA
127 TTAACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
* ** * *
2124 TTATAATACCATTTAAAGCAAGTAATAAGGCTTTTGAGGGAATAAGTGACTATAAATGGACTTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT
* * * * * ** *
2189 CTTGCCAATTAATGCCTTTCTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAA
66 TTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAA
* * * *
2254 CAAAAAAACT--GAAAAATTCAACTTAAAATCAATTATGAGA
131 CCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
* * * * * * * **
2294 TTATAAAACTATTTAAA-TAAAGCAATAAGGTTTTTGAAGGAATGGGTCATTATAAATAAACTTT
1 TTATAAAACCATTTAAAGT-GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTT
* * * * * * * * *
2358 TCTTCCCAATTAATGACTTTTTCTTTATGTTTCTCGAGGTAGACATTCAATTATAGTTTTTTTTA
65 TTTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTA
* * * * * *
2423 ACAAAAAATGT-GAAAAAATAT-AACTTAATATCAATTATGATA
130 ACCAAAAATCTAAAAAAAAT-TCAACATAAAATCAATTATGAGA
* * * * *
2465 TTATAAAA-CAATTAAAG-CACGTAATAAGGCTTTTGAAGGAATAAGAGGCTATAAATGGACTTT
1 TTATAAAACCATTTAAAGTGA-GTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTT
* ** * ** * * * *
2528 TCTTATCAATGAATG-CTTGTTTCTTTACATTTCTCCAGGTAGACATTCAAATATAGTTTGTTTT
65 TTTTGCCAATGAATGTCTT-TTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTT
* * * *
2592 AACCAAAAATAT-AAAAAAATTTAACTTAAAACCAATTATGAGA
129 AACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
** * * *
2635 TTATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGATA-GAATGGGTGACTGTAAATGGACTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGA-AGGAATGAGTGACTATAAATGGACTTT
* * * * *
2699 TCTT-CTCAATGAATGGT-TTTTTCTACATGTTTCTCAAGGCAACCATTCAATTATAGTTTGTTT
65 TTTTGC-CAATGAAT-GTCTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTT
* * * * *** *
2762 TAACAAAAAATGT-GAAAAAATTTAGGTTAAAATCAATTATGATA
128 TAACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
** * * ** * * *
2806 TTATAAAATAATATAAAGCGACCAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAGACTTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT
* * * * ** * * *
2871 CTTGCCAATGAATG-CTTGTTTCTTTACGTTTCTCGATATAAATATTCAATTCTAGTATGTTTTA
66 TTTGCCAATGAATGTCTT-TTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTA
** *
2935 ACCAAAAAAGT--AAAAAATTCAGC-TCAAAATCAATTATGAGA
130 ACCAAAAATCTAAAAAAAATTCAACAT-AAAATCAATTATGAGA
* * * *
2976 TTATAAAACAATTTAAAGCGAGTAATAAGGTTTTTGAAGGAAT-ATGAGACTATAAATGGACTTT
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTTT
* * * * **
3040 TCTTACCAATGTATG-CTTTTTTCTTCATGTTTCTCGAGGTCGACATTCAATTATAGTCTGTTTT
65 TTTTGCCAATGAATGTC-TTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTT
* * * * *
3104 AACCAAAAATGT-TAAAACATTCAACTTAAAATCAGTTATGAGA
129 AACCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
* * * *
3147 TTAGAAAACCATTTAAAGTGAGTAATAAGACTTTTGAAGGAACGGGTGACTATAAA
1 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAA
3203 NNNNNNNNNN
Statistics
Matches: 1942, Mismatches: 414, Indels: 234
0.75 0.16 0.09
Matches are distributed among these distances:
169 11 0.01
170 539 0.28
171 927 0.48
172 40 0.02
173 139 0.07
174 132 0.07
175 13 0.01
176 13 0.01
177 7 0.00
179 1 0.00
180 9 0.00
181 4 0.00
184 4 0.00
185 9 0.00
188 8 0.00
189 12 0.01
190 16 0.01
191 12 0.01
192 31 0.02
193 12 0.01
194 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (172 bp):
TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT
TTTGCCAATGAATGTCTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAA
CCAAAAATCTAAAAAAAATTCAACATAAAATCAATTATGAGA
Found at i:1217 original size:23 final size:23
Alignment explanation
Indices: 1187--1234 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1177 GTAGACCTTC
1187 AATTATAGTCTGTTTTAACCAAA
1 AATTATAGTCTGTTTTAACCAAA
1210 AATTATAGTCTGTTTTAACCAAA
1 AATTATAGTCTGTTTTAACCAAA
1233 AA
1 AA
1235 AGTGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (23 bp):
AATTATAGTCTGTTTTAACCAAA
Found at i:1384 original size:194 final size:193
Alignment explanation
Indices: 1017--1406 Score: 543
Period size: 194 Copynumber: 2.0 Consensus size: 193
1007 GTAAACATTC
* * * *
1017 AATTATAGTCTGTATTAACCAAAAATCTGAAAGTAATCAACTTAAAATCAATTAGGATATTATAA
1 AATTATAGTCTGTATTAACCAAAAAACTGAAAGAAATCAACTAAAAATCAATTAGGAGATTATAA
* * *
1082 AACCGTTTAAAATGAGTAATAAGGCTTTGAAGGAATGAGTGACTTTAAATAGACTTTTTTTGCCA
66 AACCATTTAAAATGAGTAATAAGGCTTTGAAGGAATGAGTCACTATAAATAGACTTTTTTTGCCA
* * * *
1147 GTGAATGTCTTTTTCTTCATGTTTCTCAAGGTAGACCTTCAATTATAGTCTGTTTTAACCAAA
131 ATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAA
* * * * *
1210 AATTATAGTCTGTTTTAACCAAAAAAGTGAAA-AAATTCATCTAAAAATCAATTATGAGATTATC
1 AATTATAGTCTGTATTAACCAAAAAACTGAAAGAAA-TCAACTAAAAATCAATTAGGAGATTATA
* * *
1274 AAACTATTT-AAATCGAGTAATAAGGCTTTTGAAGGAATGGGTCACTATAAATGGACTTTTCTTT
65 AAACCATTTAAAAT-GAGTAATAAGGC-TTTGAAGGAATGAGTCACTATAAATAGACTTTT-TTT
*
1338 -CCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAGTCTATTTTAACCA
127 GCCAATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCA
1402 AA
192 AA
1404 AAT
1 AAT
1407 GTGAAAACAT
Statistics
Matches: 173, Mismatches: 20, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
192 6 0.03
193 71 0.41
194 93 0.54
195 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (193 bp):
AATTATAGTCTGTATTAACCAAAAAACTGAAAGAAATCAACTAAAAATCAATTAGGAGATTATAA
AACCATTTAAAATGAGTAATAAGGCTTTGAAGGAATGAGTCACTATAAATAGACTTTTTTTGCCA
ATGAATGCCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACCAAA
Found at i:1495 original size:171 final size:171
Alignment explanation
Indices: 1210--3202 Score: 2215
Period size: 171 Copynumber: 11.7 Consensus size: 171
1200 TTTAACCAAA
* * * *
1210 AATTATAGTCTGTTTTAACCAAAAAAGTGAAAAAATTCATCTAAAAATCAATTATGAGATTATCA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * ** *
1275 AACTATTTAAATCGAGTAATAAGGCTTTTGAAGGAATGGGTCACTATAAATGGACTTTTCTTTCC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
1340 AATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
131 AATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
* * *
1381 AATTATAGTCTATTTTAACCAAAAATGTGAAAACATTCAACTTAAAATCAATTTTGAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * *
1446 AGCCATTTAAAGCGAGTAATAATGCTCTTGAAGGAATAAGAGACTATAAATGGACTTTTCTTACC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
* * *
1511 AATGAATGCTTTTTTCATT-ATGTTTCTCAAGGTAAACATTC
131 AATGAATGCCTTTTTC-TTCATGTTTCTCGAGGTAGACATTC
* * * * *** * **
1552 AATTATAGTTTGTATTAACTAAAAATCTGAAGGCATTCAGCTTAAAATCAATTATGTTATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * ** *
1617 AACTATTTTAAA-TGAGTAATAAGGCTTTTGAAGGAATTGGTGACTTTAAATGGACTTTT-TTTG
66 AACCA-TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTT-
* ** *
1680 CCAGTGAATATCTTTTTCTTCATGTTTCTCAAGGTAGAGC-TTC
129 CCAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGA-CATTC
* *
1723 AATTATAGTCTATTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * *** * *
1788 AACCATTTAAAGCTAATAATATTACTTTTTAAGGAATGAGTGACTATAAATGGACTTTTCTTTCC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
* * * *
1853 AATGAATGTCTTTTTCTTCATATTACTCGAGCTAGACATTC
131 AATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
* * * *** * * *
1894 AATTATAATAT-TCTTTAACCAATAATAAAAAAAAATTGAACTTAAAATCAATTTTGAGATTATG
1 AATTATAGTCTGT-TTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * *
1958 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATGGACTTGTCTTTC
65 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTC
* * *
2023 CAATGAATG-CTTGTTTGTTCATGTTTC-CTGAGCTATG-CATTT
130 CAATGAATGCCTT-TTTCTTCATGTTTCTC-GAGGTA-GACATTC
* *
2065 AATTATAGTATGTTTTAACCAAAAATGTTAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * *
2130 TACCATTTAAAGCAAGTAATAAGGCTTTTGAGGGAATAAGTGACTATAAATGGACTTTTCTTGCC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
* * * *
2195 AATTAATGCCTTTCTCTTCACGTTTCTTGAGGTAGACATTC
131 AATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
* **
2236 AATTATAGTCTGTTTTAACAAAAAAACTG-AAAAATTCAACTTAAAATCAATTATGAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* *** * * ** * * ** *
2300 AACTATTTAAATAAAGCAATAAGGTTTTTGAAGGAATGGGTCATTATAAATAAACTTTTCTTCCC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
* * *
2365 AATTAATGACTTTTTCTTTATGTTTCTCGAGGTAGACATTC
131 AATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
* * * * *
2406 AATTATAGTTTTTTTTAACAAAAAATGTGAAAAAATAT-AACTTAATATCAATTATGATATTATA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAAT-TCAACTTAAAATCAATTATGAGATTATA
* * *
2470 AAA-CAATTAAAGC-ACGTAATAAGGCTTTTGAAGGAATAAGAGGCTATAAATGGACTTTTCTTA
65 AAACCATTTAAAGCGA-GTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTT-
* ** *
2533 T-CAATGAATG-CTTGTTTCTTTACATTTCTCCAGGTAGACATTC
128 TCCAATGAATGCCTT-TTTCTTCATGTTTCTCGAGGTAGACATTC
* * * * * *
2576 AAATATAGTTTGTTTTAACCAAAAATATAAAAAAATTTAACTTAAAACCAATTATGAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
** ** *
2641 AATTATTTAAAGCGAGTAATAAGGCTTTTGATA-GAATGGGTGACTGTAAATGGACTTTTC-TTC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGA-AGGAATAAGTGACTATAAATGGACTTTTCTTTC
** * * *
2704 TCAATGAATGGTTTTTTCTACATGTTTCTCAAGGCA-ACCATTC
130 -CAATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGA-CATTC
* * * ** *
2747 AATTATAGTTTGTTTTAACAAAAAATGTGAAAAAATTTAGGTTAAAATCAATTATGATATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
** * ** * * *
2812 AATAATATAAAGCGACCAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAGACTTTTCTTGCC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
* * ** * *
2877 AATGAATG-CTTGTTTCTTTACGTTTCTCGATATAAATATTC
131 AATGAATGCCTT-TTTCTTCATGTTTCTCGAGGTAGACATTC
* * * * *
2918 AATTCTAGTATGTTTTAACCAAAAAAGT-AAAAAATTCAGCTCAAAATCAATTATGAGATTATAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * *
2982 AACAATTTAAAGCGAGTAATAAGGTTTTTGAAGGAATATGAGACTATAAATGGACTTTTCTTACC
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
* * *
3047 AATGTATGCTTTTTTCTTCATGTTTCTCGAGGTCGACATTC
131 AATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
* * * *
3088 AATTATAGTCTGTTTTAACCAAAAATGTTAAAACATTCAACTTAAAATCAGTTATGAGATTAGAA
1 AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * ***
3153 AACCATTTAAAGTGAGTAATAAGACTTTTGAAGGAACGGGTGACTATAAA
66 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAA
3203 NNNNNNNNNN
Statistics
Matches: 1529, Mismatches: 258, Indels: 70
0.82 0.14 0.04
Matches are distributed among these distances:
169 6 0.00
170 446 0.29
171 1052 0.69
172 25 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (171 bp):
AATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGTGACTATAAATGGACTTTTCTTTCC
AATGAATGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTC
Done.