Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397572.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2853.0, 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: 6699
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.27
Warning! 1749 characters in sequence are not A, C, G, or T
Found at i:299 original size:171 final size:170
Alignment explanation
Indices: 3--986 Score: 839
Period size: 171 Copynumber: 5.8 Consensus size: 170
1 AT
* * * * * ** * *
3 ATTATAATTGATTGTCTGCCTCGAAAAATATGAAGAAAAAGTTATTCATTAGCAAAAAAAGTCTA
1 ATTATAATTGAATGTCTACCTAGGAAAACATGAAGAAAAAGCCATTCA-TGGCAAGAAAAGTCTA
* * ** * * * *
68 CTTATAATCACATATTTCTTCAAAAGCCTTATTATTGGCTTTAAATAGTTTT-TCAATCTCATAA
65 TTTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCGCTTTAAATAGTTTTAT-AATCTCATAA
*
132 TTGATTTTAAATTAAATTTTTTTACATTTTTTATTAAAACAG
129 TTGATTTTAAGTTAAATTTTTTTACATTTTTTATTAAAACAG
** * *
174 GCTATAATTGATTGTTTACCTAGGAAAACATGAA-AAGAAAGCCATTCATAGGCAAGAAAAGTCT
1 ATTATAATTGAATGTCTACCTAGGAAAACATGAAGAA-AAAGCCATTCAT-GGCAAGAAAAGTCT
* * *
238 ATTTATAGTCACCCATTCCTTTAAAAGCCTTACTACTCACTTTAAATGGTTTTATAATCTCATAA
64 ATTTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAA
* * * * *
303 TTGATTTTAGGTTAAATGTTTTCACATTTTTTGTTAAAATAG
129 TTGATTTTAAGTTAAATTTTTTTACATTTTTTATTAAAACAG
* * * * * ** * *
345 ATTATAATTAAATGTTTGCTTA-GAGAAACGTGAAGAAAAAGATATTCATTGACTAGAAAAGTCT
1 ATTATAATTGAATGTCTACCTAGGA-AAACATGAAGAAAAAGCCATTCA-TGGCAAGAAAAGTCT
** * * **
409 ATTTATAGTCACCCAAGCCTTTGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTGTAA
64 ATTTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAA
* * * **
474 TTAATTTTAATTTGAATTTTTTTAC-TTCTTTGGTTAAAACA-
129 TTGATTTTAAGTTAAATTTTTTTACATT-TTTTATTAAAACAG
* * * * * *
515 AGCTAT-ATTCGAATGTTTGCCTTA--AAAAAATGAAGAAAAAGCCTTTCATTTGCAA-AACAAG
1 A-TTATAATT-GAATGTCTACC-TAGGAAAACATGAAGAAAAAGCCATTCA-TGGCAAGAA-AAG
* * * * * *
576 TCCATTTATAGTCACCAATT-CTTTCGAAAGCCTTATTACTCGCTTTAAATGGTTTAATAATCTT
61 TCTATTTATAGTCACCCATTCCTTT-AAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTC
* ** *
640 ATAATTCATTTTAAGTTTTATTTTTTTATATTTTTTATTAAAACAG
125 ATAATTGATTTTAAGTTAAATTTTTTTACATTTTTTATTAAAACAG
* * * * * * *
686 ATTAGAATTGAATATCTACCTTGGGAAACGTGAAG-AAAAGCCTATTCATGGACTAGAAAAGCCT
1 ATTATAATTGAATGTCTACCTAGGAAAACATGAAGAAAAAGCC-ATTCATGG-CAAGAAAAGTCT
* ** * *
750 ATTTATAGTCACCCATGCCTTCGAAAGCCTTATTACTCACTTTAAATAGTTTTATAAT-TACGTA
64 ATTTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCT-CATA
* *
814 ATTGATTTTAAGTTGAA-TTTTTTACATTTTTGGT-TTAAAA-AA
128 ATTGATTTTAAGTTAAATTTTTTTACATTTTT--TATTAAAACAG
* * * * * *
856 ATTATAATCGAATGTCTATCTCAAG-AAACGTGAAGAAAAAGCCGTTTATGGACAAGAAAAGTCT
1 ATTATAATTGAATGTCTACCT-AGGAAAACATGAAGAAAAAGCCATTCATGG-CAAGAAAAGTCT
* * * * * * *
920 ATTTATAGCCACCTATTCCTTGAAAAGCCTTCTTGCTCGCTTTAAATAGTTTTTTAAGCTCATAA
64 ATTTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAA
985 TT
129 TT
987 NNNNNNNNNN
Statistics
Matches: 660, Mismatches: 126, Indels: 55
0.78 0.15 0.07
Matches are distributed among these distances:
169 7 0.01
170 256 0.39
171 385 0.58
172 12 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (170 bp):
ATTATAATTGAATGTCTACCTAGGAAAACATGAAGAAAAAGCCATTCATGGCAAGAAAAGTCTAT
TTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATT
GATTTTAAGTTAAATTTTTTTACATTTTTTATTAAAACAG
Found at i:734 original size:341 final size:340
Alignment explanation
Indices: 85--986 Score: 993
Period size: 341 Copynumber: 2.6 Consensus size: 340
75 TCACATATTT
* * * * *
85 CTTCAAAAGCCTTATTATTGGCTTTAAATAGTTTT-TCAATCTCATAATTGATTTTAAATTAAAT
1 CTTCGAAAGCCTTATTACTCGCTTTAAATAGTTTTAT-AATCTCGTAATTGATTTTAAATTGAAT
** * *
149 TTTTTTACATTTTTTATTAAAACAGGCTATAATT-GATTGTTTACC-TAGGAAAACATGAA-AAG
65 TTTTTTACATTTTTGGTTAAAACAAGCTAT-ATTCGAATGTTTACCTTA--AAAACATGAAGAA-
* * * * *
211 AAAGCCATTCATAGGCAAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAAAGCCTTACTACTC
126 AAAGCCTTTCATTGGCAAGAAAAGTCTATTTATAGTCACCAATT-CTTTGAAAGCCTTATTACTC
* * * * *
276 ACTTTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTAAATGTTTTCACATTTTTTGTTAAA
190 GCTTTAAATGGTTTAATAATCTCATAATTCATTTTAAGTTAAATGTTTTCACATTTTTTATTAAA
* * * ** *
341 ATAGATTATAATTAAATGTTTGCTTAGAGAAACGTGAAGAAAAAGATATTCATTGACTAGAAAAG
255 ACAGATTAGAATTAAATATTACCTTAGAGAAACGTGAAGAAAAAGATATTCATGGACTAGAAAAG
*
406 TCTATTTATAGTCACCCAAGC
320 CCTATTTATAGTCACCCAAGC
* * * * *
427 CTTTGAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTTGTAATTAATTTTAATTTGAATT
1 CTTCGAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCGTAATTGATTTTAAATTGAATT
* *
492 TTTTTAC-TTCTTTGGTTAAAACAAGCTATATTCGAATGTTTGCCTTAAAAAAATGAAGAAAAAG
66 TTTTTACATT-TTTGGTTAAAACAAGCTATATTCGAATGTTTACCTTAAAAACATGAAGAAAAAG
* *
556 CCTTTCATTTGCAA-AACAAGTCCATTTATAGTCACCAATTCTTTCGAAAGCCTTATTACTCGCT
130 CCTTTCATTGGCAAGAA-AAGTCTATTTATAGTCACCAATTCTTT-GAAAGCCTTATTACTCGCT
* ** * * *
620 TTAAATGGTTTAATAATCTTATAATTCATTTTAAGTTTTATTTTTTTATATTTTTTATTAAAACA
193 TTAAATGGTTTAATAATCTCATAATTCATTTTAAGTTAAATGTTTTCACATTTTTTATTAAAACA
* * *
685 GATTAGAATTGAATATCTACCTT-GGGAAACGTGAAG-AAAAGCCTATTCATGGACTAGAAAAGC
258 GATTAGAATTAAATAT-TACCTTAGAGAAACGTGAAGAAAAAG-ATATTCATGGACTAGAAAAGC
*
748 CTATTTATAGTCACCCATGC
321 CTATTTATAGTCACCCAAGC
* *
768 CTTCGAAAGCCTTATTACTCACTTTAAATAGTTTTATAAT-TACGTAATTGATTTTAAGTTGAA-
1 CTTCGAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCT-CGTAATTGATTTTAAATTGAAT
** * * * * *
831 TTTTTTACATTTTTGGTTTAAAA-AAATTATAATCGAATGTCTATCTCAAGAAACGTGAAGAAAA
65 TTTTTTACATTTTTGG-TTAAAACAAGCTATATTCGAATGTTTACCTTAA-AAACATGAAGAAAA
* * * * *
895 AGCCGTTT-A-TGGACAAGAAAAGTCTATTTATAGCCACCTATTCCTTGAAAAGCCTTCTTGCTC
128 AGCC-TTTCATTGG-CAAGAAAAGTCTATTTATAGTCACCAATTCTTTG-AAAGCCTTATTACTC
* ** *
958 GCTTTAAATAGTTTTTTAAGCTCATAATT
190 GCTTTAAATGGTTTAATAATCTCATAATT
987 NNNNNNNNNN
Statistics
Matches: 471, Mismatches: 72, Indels: 35
0.81 0.12 0.06
Matches are distributed among these distances:
340 47 0.10
341 325 0.69
342 96 0.20
343 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (340 bp):
CTTCGAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCGTAATTGATTTTAAATTGAATT
TTTTTACATTTTTGGTTAAAACAAGCTATATTCGAATGTTTACCTTAAAAACATGAAGAAAAAGC
CTTTCATTGGCAAGAAAAGTCTATTTATAGTCACCAATTCTTTGAAAGCCTTATTACTCGCTTTA
AATGGTTTAATAATCTCATAATTCATTTTAAGTTAAATGTTTTCACATTTTTTATTAAAACAGAT
TAGAATTAAATATTACCTTAGAGAAACGTGAAGAAAAAGATATTCATGGACTAGAAAAGCCTATT
TATAGTCACCCAAGC
Found at i:3235 original size:21 final size:21
Alignment explanation
Indices: 3206--3245 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3196 NNNTGGGTGA
3206 CTATAAATGGACTTT-TCTTGC
1 CTATAAATGG-CTTTCTCTTGC
*
3227 CTATGAATGGCTTTCTCTT
1 CTATAAATGGCTTTCTCTT
3246 CATGTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (21 bp):
CTATAAATGGCTTTCTCTTGC
Found at i:4331 original size:170 final size:170
Alignment explanation
Indices: 2234--5013 Score: 817
Period size: 171 Copynumber: 16.3 Consensus size: 170
2224 GTTTCACAAA
* ** * * *
2234 GCAAACATTCAATTATAACCTGTTTTAACCAAAAATGTAAAAAAAATCAACTTAAAATGAATTAA
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * * * * **********
2299 GAGATTATAAAACCATTTAAAGTGAGTAATAAAGCTTTTTAAGNNNNNNNNNNCTATAAATGGAC
66 GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGAC
* * *
2364 TTTTCTTGCCAATGAATGCCTTTTTCTTAATGTTTTTTGAG
131 TTTTCTTGCCAATGAATGACTTTTT-TTCATGTTTTTCGAG
* * ** * * **********
2405 ACAAACATTCAATTATAGCTTGTTTTAACCAAAAATGTCAAAAATTTCNNNNNNNNNNCAATTAT
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * * * * * *
2470 GAGCTTAAAAAACTATTTAAAGTGAGCAAA-AAGGCTTTTCG-AGGAATGGGTGGCTATAAATAG
66 GAGATTACAAAACCATTTAAAGCGAG-AAATAAGGCTTTT-GAAGGAATGAGTGACTATAAATGG
* * * *
2533 ACTTTTCTTGTCC-ATAAATGGCTTTTTCTTCACG-TTTCCTGAG
129 ACTTTTCTTG-CCAATGAATGACTTTTT-TTCATGTTTTTC-GAG
** * ** * ********** * *
2576 ATAGACATTCAATTATA-ATTTTTTTNNNNNNNNNNGT-AAAAAATTTAACTTAAAATCAATTAC
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * * * * * * **********
2639 GTGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTCGAAGGTANNNNNNNNNNTAAATAGG-
66 GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAAT-GGA
* * * * * *
2703 CTTTTCTAGTCC-ATGAATAGGCTTTTCTTCACGTTTTCCAAG
130 CTTTTCTTG-CCAATGAAT-GACTTTTTTTCATGTTTTTCGAG
* * * * ** ** ** *
2745 GTAGATATTCAATTCTAATAC-GTTTTAACCAAAAATGTAAAAAAATGAAACTTAAAATGAATTA
1 GCAAACATTCAATTAT-AGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
* ********** * * *
2809 TAAGATNNNNNNNNNNTTTAAAGCGAGTAATAAGGCTTTTGAAAGAATTG-GTGACTATAAATGT
65 TGAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAA-TGAGTGACTATAAATGG
* * * * **
2873 ACTTGTT-TTGCAAATGAAGGGCTTTTTCTTCATATTTTTTAAG
129 ACTT-TTCTTGCCAATGAATGACTTTTT-TTCATGTTTTTCGAG
* * * * * * * * * * *
2916 GCAGACATTCGAGTATAGCTTATTTTAACCAAAGAAGGAAAAAAAATTCAAATTAAAATTAATTA
1 GCAAACATTCAATTATAGCCTGTTTTAA-TAAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
** ********** * ** * ** * *
2981 CAANNNNNNNNNNCCATTTAAAGCGAGTAATAAGGCTTTCAAAAGCTTGGGTGATTATAAATGGA
65 TGAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGA
* * ** * * *
3046 CTTTTCTAGTCAATGAAT-ATCTTTTTCTTCACATTTCTCCAA
130 CTTTTCTTGCCAATGAATGA-CTTTTT-TTCATGTTTTTCGAG
* * * ** * * * * *
3088 GCAGACATTTAATTGTAATCTTTTTTAACAAAAAATGTGAAAAAATTTAACCTAAAATCAATTAT
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
** * * * ********** *
3153 GAGATTGTAAAACCATTTAAAGTGAGTAGTAAGGCTNNNNNNNNNNTGGGTGACTATAAATGGAC
66 GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGAC
* * * * *
3218 TTTTCTTGCCTATGAATGGCTTTCTCTTCATGTTTTCCTAG
131 TTTTCTTGCCAATGAATGACTTT-TTTTCATGTTTTTCGAG
* * * * *
3259 GTAAACAATCAATTATAGCCTGTTTTAATGAAAAATGTAAAAATATTTAACTTAAAATCAATTAT
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * * * *
3324 GAGATTGA-AAAACCATTTAAAGCCAGTAATAAGGCTTTTGAAGAAAT-AGGTGATTAT-AATAG
66 GAGATT-ACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGG
* * *
3386 ACTTTTTTTGCTAATGAATAACTTTTTTTCATGTTTTTCGA-
129 ACTTTTCTTGCCAATGAATGACTTTTTTTCATGTTTTTCGAG
***
3427 GCAGAA-A-TCAATTATAATATGTTTTAATAAAAACA--T-AAAAAATTCAAC-T-AAATCAATT
1 GCA-AACATTCAATTATAGCCTGTTTTAATAAAAA-ATGTAAAAAAATTCAACTTAAAATCAATT
* * * * * * *
3485 ACT-AGATGT---AAACCATTTAAAGCGATAAAAAACGCTTTTCAAGGCATGTGTGATTATAAAT
64 A-TGAGAT-TACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAAT
* * * * * * *
3546 GGGCTTTTCTAGTCAACGAATGGCTTTTTTTTCATG-TTTCCTAAG
127 GGACTTTTCTTGCCAATGAATGAC-TTTTTTTCATGTTTTTC-GAG
* * * * *** * * * *
3591 ACAGATATTCAATTGTAATATGTTTTAACT-AAAAATATAAAAAAATTTAACTTAAAATGAATCA
1 GCAAACATTCAATTATAGCCTGTTTTAA-TAAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
* * * ********** *
3655 TGAGATTATAAAACTATTTAAAGCGAGTAATNNNNNNNNNNAAGGAATGAGTGACTGTAAATGGA
65 TGAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGA
* * * **
3720 CTTTTCTTACCAATGAATGCCTTTTTCTTAATGGTTTTTTTAG
130 CTTTTCTTGCCAATGAATGACTTTTT-TTCAT-GTTTTTCGAG
* * * * *
3763 ACAGACATTGAATTATAGCATGTTTTAATAAAAAATGTAAAAAAATTCAACAT-AAATCAATTAT
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* ********** *
3827 GAGATTATAAAACCNNNNNNNNNNAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGAC
66 GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGAC
* * * *
3892 TTTTATTGTCAATGAATGACCTTTTCTTT-ATTTTTTTTTGAG
131 TTTTCTTGCCAATGAATGA-CTTTT-TTTCA-TGTTTTTCGAG
* ** ** * **********
3934 GTAAACATTTGATTATAGCCTACTTTAATCAAAAATGTAAAAAAATTCAANNNNNNNNNNATTAT
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * * *
3999 GAGATTACAAAACCATTTAAAGCGAGTAATAAGCCTTTTGAAGGAATGAAT-ACCTATAAATGCA
66 GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGA-CTATAAATGGA
* * ** * * *
4063 GTTTTCTTACCAATGAATGACTTTTTTTCA-CATTTCCTAAA
130 CTTTTCTTGCCAATGAATGACTTTTTTTCATGTTTTTC-GAG
* * * ********** *
4104 ACAAACATTCAATTATAGTCTATTTTAATAAAAAATGTAANNNNNNNNNNCTTAAAATAAATTAT
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* ** * *
4169 GAGATTACAAAACCATTTAAAGTGAGAAATAAAACTTTTGAAGGAATGGGTGACTACAAATGGAC
66 GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGAC
* * * *
4234 TTTTTTTGTCAATGAATGACTTTTTTTTATGCTTTTCGAG
131 TTTTCTTGCCAATGAATGACTTTTTTTCATGTTTTTCGAG
* * * * * * *
4274 GTAAACATTCAATTGTAGCCTATTTTAACT-AAAAATGTAAAAGAATTTAATTTAAAATGAATTA
1 GCAAACATTCAATTATAGCCTGTTTTAA-TAAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
********** * * *
4338 TGAGATTACAAAACCATTTANNNNNNNNNNTAAGGCTTTTGAAGAAATGGGT-AGCTATAAATGC
65 TGAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGA-CTATAAATGG
* * * **
4402 AGTTTTCTTGCCAATGAATGACTTTTTCTTTATATTTCCCGAG
129 ACTTTTCTTGCCAATGAATGACTTTTT-TTCATGTTTTTCGAG
* * *** * * * * * *
4445 GCAAACAATCAATCATAATTTGTTTTCACAACAAATGTAAAAACATTCAACTTAAATTCAATTAC
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
********** * ** * *
4510 NNNNNNNNNNAATCATTTAAAGCGAGTAAA-AATGG-TTTTGAAGTTATGAGTGATTATAAATAG
66 GAGATTACAAAACCATTTAAAGCGAG-AAATAA-GGCTTTTGAAGGAATGAGTGACTATAAATGG
** * *
4573 ACTTTT-TTAGTTAATGAAT-AGTTTTTTCTTTATGTTTATT-GAG
129 ACTTTTCTT-GCCAATGAATGA-CTTTTT-TTCATGTTT-TTCGAG
* * *** * ** * * *********
4616 GCAGACAATCAATTATAATTTGTTGTAACCAAAAATATAAAAAAATTTAA-TTNNNNNNNNNNTA
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTT-AAAATCAATTA
* * * *
4680 TGAGATTACAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGGAAT-ATGTGACTATAAGTAG
65 TGAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGG
* *
4744 ACTTTTCTTACCAATGAATGACTTTTTCTTCACGTTTCCTT--AG
129 ACTTTTCTTGCCAATGAATGACTTTTT-TTCATGTTT--TTCGAG
********** *** * * *
4787 GNNNNNNNNNNATTATAATTTGTTTTAACAAAAAAAGTAAAAAAATTCAACTTAAAATCAATTAN
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
********* * * * * * *
4852 NNNNNNNNNAAACTATTTAAAGCGAGTAATAAGGCCTTTAAAGAAATAAGTGACTATAAATGGAC
66 GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGAC
* * * * * *
4917 TTTTCTCGCCAATAAATGCCTTTTTCTTCCTGTTTTTTTGAC
131 TTTTCTTGCCAATGAATGACTTTTT-TTCATG-TTTTTCGAG
* * *
4959 TCAAACATTCAATTATAGCCTGTTTTAACAAAAAATGT-AAAAAATTTAACTTAAA
1 GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAA
5014 NNNNNNNNNN
Statistics
Matches: 1868, Mismatches: 659, Indels: 164
0.69 0.24 0.06
Matches are distributed among these distances:
161 38 0.02
162 22 0.01
163 27 0.01
164 7 0.00
165 33 0.02
166 3 0.00
167 33 0.02
168 10 0.01
169 121 0.06
170 321 0.17
171 958 0.51
172 291 0.16
173 4 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.34
Consensus pattern (170 bp):
GCAAACATTCAATTATAGCCTGTTTTAATAAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
GAGATTACAAAACCATTTAAAGCGAGAAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGAC
TTTTCTTGCCAATGAATGACTTTTTTTCATGTTTTTCGAG
Done.