Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403307.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_98.0, 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: 21876
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.28
Warning! 5461 characters in sequence are not A, C, G, or T
Found at i:1372 original size:171 final size:171
Alignment explanation
Indices: 484--1841 Score: 852
Period size: 171 Copynumber: 8.0 Consensus size: 171
474 NNNNNNNNNN
* * *
484 ATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACCAT-AATGGACTTTTCT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * * ** * **********
548 T-GCACATGAATGCCTTTTTGTTTACATTTCTTGAGGTAGACATTCAATNNNNNNNNNNTTTAAC
66 TACCA-ATGAATGCCTTTTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAA-
* * * *
612 T-AAAAATGTAAAAACATTTAACTCAAAATCAATTATGAGATT
129 TAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
* * * * * *
654 GTAAAATAATTTAAAGTGAGTAATAAGGCTTTTGATGGAATGAGTGACCAT-AATGGACTTTTCT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * * * * * * * **
718 TGCAAATGAATACGTTTTTCTTCACGTTTCTCAAAGTATACATTCAATTATAGTTTGTTTCAACC
66 TACCAATGAATGCCTTTTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAATA
* * * *
783 ACAAATGT-AAAAAATTCAATTTAAAATCGATTATGAGATT
131 AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
* ********** * * * *
823 ATAAAATAATTTNNNNNNNNNNATAAGGCTTTTGAAGAAATGGGTCACTATAAATAGACTTTTTT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * * * * * * *
888 TACCAATCAGTGCATTTTTCTTCACATTTCTTGAAGTAA-ACATTTAATTATAGCCTGTTTTAAC
66 TACCAATGAATGCCTTTTTCTTCACGTTTC-TCAAGGAAGACATTCAATTATAGTCTGTTTTAAT
* * ********** *
952 CAAAAATGTAAAAANNNNNNNNNNAAAATCAATTATGAGGTT
130 AAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
* * * * * *
994 ATAAAACAATTTAAAGCAAGTAATAAAGCTTTTGAGGGAATGGGTAACTATAAACGCACTTTTCT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * ** * *
1059 T-CTCATTGAATGACTTTTT-TACATTTTTCCTC-A-GACTGACATTCAATTTATAGTCTATTTT
66 TAC-CAATGAATGCCTTTTTCTTCACGTTT-CTCAAGGA-AGACATTCAA-TTATAGTCTGTTTT
* * * * * *
1120 ACTGAAAAATGTAAAAAAATTTAACTTAAAATTAATTTTGAGATT
127 AATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
* * **********
1165 ATAAAATAATTTAAAGCAAGNNNNNNNNNNTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * * * *
1230 TACTAATGAATGTCTGTTTCCTCACGTTTCTCAATGAAGACATTCAATTATTGTCTGTTTTAATA
66 TACCAATGAATGCCTTTTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAATA
* **********
1295 AAAAATGTAAAAAAATTCAANNNNNNNNNNATTATGAGATT
131 AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
* * * *
1336 ATAATACAATTTAAAGCGAGTAATAAGGCTTTTGAAGCAATAGGTGACTATAAATAGACTTTTCT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * * * * * *
1401 T-CTCGATGAATGCCTCTTTCTTCACGTTTCTCATGGTAGAAATTCAATTATAGTTTTTTTTAAC
66 TAC-CAATGAATGCCTTTTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAAT
* * *
1465 CAAAAATATTAAAAAATTTAACTTAAAATCAATTATGAGATT
130 AAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
********** ** *
1507 ATAANNNNNNNNNNAGCGAGTAATAAGGCTTTTGAAGGAATGAATGACTATAAATGAACTTTTCT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * * * * * * * *
1572 TGCCAATAAATACCTTTTTCATCATGTTTTTCGAGGTAGACATTCTATTATAGTCTGTTTTAATC
66 TACCAATGAATGCCTTTTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAATA
* * *
1637 AAAAATATAAAAAAACTCAACTTAAAATCAATTATAAGTTT
131 AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
* * * * * **
1678 CTAAAACCATTTAAAGCGAGTTATAAGGCTTTTGAATGAATGGGTGACTGTAAATTTACTTTTCT
1 ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
* * * * * *
1743 TACCAATGACT-ACTTTTTCTTCATGTTTCCCAAGGTAA-ACATTCAATTATTGCCTGTTTTAAT
66 TACCAATGAATGCCTTTTTCTTCACGTTTCTCAAGG-AAGACATTCAATTATAGTCTGTTTTAAT
* * * *
1806 AGAAAATGTAAAGAAATTCAAATTAAAATCAATTAT
130 AAAAAATATAAAAAAATTCAACTTAAAATCAATTAT
1842 TNNNNNNNNN
Statistics
Matches: 888, Mismatches: 283, Indels: 34
0.74 0.23 0.03
Matches are distributed among these distances:
168 1 0.00
169 63 0.07
170 255 0.29
171 550 0.62
172 17 0.02
173 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.35
Consensus pattern (171 bp):
ATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT
TACCAATGAATGCCTTTTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAGTCTGTTTTAATA
AAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATT
Found at i:2266 original size:20 final size:21
Alignment explanation
Indices: 2228--2267 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2218 AGGTGACCGT
2228 AATGGATTTTTCTTGCACATG
1 AATGGATTTTTCTTGCACATG
*
2249 AATGTATTTTTCTT-CACAT
1 AATGGATTTTTCTTGCACAT
2268 TTTTTGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.47
Consensus pattern (21 bp):
AATGGATTTTTCTTGCACATG
Found at i:2481 original size:170 final size:171
Alignment explanation
Indices: 2305--3066 Score: 655
Period size: 171 Copynumber: 4.5 Consensus size: 171
2295 NNNNNNNNAC
* * * *
2305 TAAAAATATAAAAAAATTCAACTCAAAATCAATTATAAGATTGTAAAATAATTTAAAGCGAGTAA
1 TAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCGAGTAA
* * *
2370 TAAGGCTTTTGAAGGAATGAATGACCAT-AATGGACTTTTCTTGCAAATGAATGCGTTTTTCTTC
66 TAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCGTTTTTCTTC
*
2434 ATGTTTCTCAAAGTAGACATTCAATTAAAGTTTGTTTTAAG
131 ATGTTTCTCAAAGTAGACATTCAATTATAGTTTGTTTTAAG
* * * *
2475 TAAAAATGCT-AAAAAATTCAAATTAAAATCAGTTATGAGGTTATAAAATAATTTAAAGCGAGAA
1 TAAAAATG-TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCGAGTA
* * ********** *
2539 ATAAGACTTTTGAAGGAATGGGTNNNNNNNNNNGGACTTTTCTTGCTAATGAATG-GCTTTTTCT
65 ATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCG-TTTTTCT
* * * * * *
2603 TCATGTCTCTC-GAGATTGGCATTCAATTATAGTTTGTTTTCAC
129 TCATGTTTCTCAAAG-TAGACATTCAATTATAGTTTGTTTTAAG
********** * * *
2646 TAAAAATGTAAAAAAATNNNNNNNNNNATCAATTATGAGATTGTAAAACAATTTAAAGCGAGTCA
1 TAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCGAGTAA
* * **
2711 TAAGGCTTTCGAAGGAATGGGTGACTATAAATGGACTTTTGATGCCAATGAATGCGTTTTTCTTC
66 TAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCGTTTTTCTTC
** *
2776 ATGTTTCTTGAGGTAGACATTCAATTATAGTTTGTTTT-AG
131 ATGTTTCTCAAAGTAGACATTCAATTATAGTTTGTTTTAAG
* * * * * *
2816 CCAAAAATGTAAAACAATTTAACTTAAAATCAATTATGAGATTATAACACAATTTAAAGTGAGTA
1 -TAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCGAGTA
********** * *
2881 NNNNNNNNNNTGAAGGAAT-AGGTAACTATAAATGCACTTTTCTT-CTCAATGAATAGC-TTTTT
65 ATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTTTTCTTGC-CAATGAAT-GCGTTTTT
* * * * *
2943 CTACATGTTT-TCCATGACTAG-CATTCAATTATAGTCTATTTTAA-
127 CTTCATGTTTCT-CA-AAGTAGACATTCAATTATAGTTTGTTTTAAG
* * *
2987 TGAAAAATGTAAACAAATTCAACTTAAAAATCAATTTTGAGATTATAAAATAATTTAAAGCAAGT
1 T-AAAAATGTAAAAAAATTCAACTT-AAAATCAATTATGAGATTATAAAATAATTTAAAGCGAGT
3052 AATAAGGCTTTTGAA
64 AATAAGGCTTTTGAA
3067 NNNNNNNNNN
Statistics
Matches: 451, Mismatches: 125, Indels: 30
0.74 0.21 0.05
Matches are distributed among these distances:
170 81 0.18
171 323 0.72
172 47 0.10
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.34
Consensus pattern (171 bp):
TAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATAATTTAAAGCGAGTAA
TAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCGTTTTTCTTC
ATGTTTCTCAAAGTAGACATTCAATTATAGTTTGTTTTAAG
Found at i:3588 original size:172 final size:172
Alignment explanation
Indices: 3325--3699 Score: 450
Period size: 172 Copynumber: 2.2 Consensus size: 172
3315 CGTTTCTCAT
* * * * * *
3325 GGTAGACATTCAATTATAGTTTCTTTTAACCAAAAATATTAAAAAATTCAACTTAAAGTCAATTA
1 GGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAACTCAACCTAAAATCAATTA
* ** * * *
3390 TGAGATTATAAAAACAATTAAAAGCGAGCAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-G
66 TAAGATTATAAAAACAATTAAAAGCGAGCAATAAAACTTTTGAACGAATGAGTGACTACAAATAG
* ** *
3454 AAATTTTCTTACCAATGAATACCTTTTTCTTCATGTTTTTTGA
131 -AATTTTCTTACCAATGAATACCTTTTCCTTCATGTTTCCTAA
3497 GGTAGACATTTC-ATTATAGTCTGTTTTAACCAAAAATATAAAAAAACCTCAACCTAAAATCAAT
1 GGTAGACA-TTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAA-CTCAACCTAAAATCAAT
* * * *
3561 TATAAGTTTAT-AAAACTATTTAAAGCGAGTAATAAAACTTTTGAACGAATGAGTGACTACAAAT
64 TATAAGATTATAAAAACAATTAAAAGCGAGCAATAAAACTTTTGAACGAATGAGTGACTACAAAT
** * * * *
3625 AGTCTTTTCTTACTAGTGACTGCCTTTTCCTTCATGTTTCCTAA
129 AGAATTTTCTTACCAATGAATACCTTTTCCTTCATGTTTCCTAA
* *
3669 GGTAGACATTCAATTATTGCCTGTTTTAACC
1 GGTAGACATTCAATTATAGTCTGTTTTAACC
3700 GNNNNNNNNN
Statistics
Matches: 171, Mismatches: 28, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
171 3 0.02
172 141 0.82
173 27 0.16
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (172 bp):
GGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAACTCAACCTAAAATCAATTA
TAAGATTATAAAAACAATTAAAAGCGAGCAATAAAACTTTTGAACGAATGAGTGACTACAAATAG
AATTTTCTTACCAATGAATACCTTTTCCTTCATGTTTCCTAA
Found at i:4407 original size:171 final size:170
Alignment explanation
Indices: 4111--6060 Score: 1400
Period size: 171 Copynumber: 11.4 Consensus size: 170
4101 NNNNNNNNNN
* * * * * *
4111 AAATCAATTATGAGATTGTAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGCACTGAGTGAC
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
* * * * *
4176 CAT-AATGGACTTTTTTTACAAATGAATGTG-TTTTTCTTCACGTTTCTCAAAGTAGACATTCAA
66 TATAAATGGACTTTTCTTGCTAATGAATG-GCTTTTTCTTCACGTTTCTCAGAGTAGACATTCAA
*
4239 TTATAGTTTGTTTTAAGTAAAAATGTAAAAAAATTCAAATTA
130 TTATAGTTTGTTTTAA-TAAAAATGTAAAAAAATTCAACTTA
* * *
4281 AAATCAGTTATGAGATTATAAAATAATTTAAAGAGAGAAATAAGACTTTTCAAGGAATGGGTGAC
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
* * * * *
4346 TATAAATGGACTTTTCTTGCTAATGAGTGGCTTTTTCTTCATGTCTCCCGAGACT-GACATTCAA
66 TATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTTCACGTTTCTC-AGAGTAGACATTCAA
* *
4410 TTATAATTTGTTTTAACAAAAATTGTAAAAAAATTCAACTTA
130 TTATAGTTTGTTTTAATAAAAA-TGTAAAAAAATTCAACTTA
* * *
4452 AAATCAATTATGAGATTGTAAAACAATTTAAA-ATGAGTAATAA-AGCTTTTAAAGGAATGGGTG
1 AAATCAATTATGAGATTATAAAATAATTTAAAGA-GAGTAATAAGA-CTTTTGAAGGAATGGGTG
* * * * *
4515 ACTATAAATGGGCTTTTCTTACCAATGAATGTCTTTTTCTTCATC-TTTCT-TGAGGTAGACATT
64 ACTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTTCA-CGTTTCTCAGA-GTAGACATT
* * * *
4578 CAATTATAGTTTGTTTTAGTTAAAAAAGT-AAACAATTTAACTTA
127 CAATTATAGTTTGTTTTA-ATAAAAATGTAAAAAAATTCAACTTA
* * * * * * *
4622 AAATCTATTATGACATTATAACACAATTTAAAGTGAGTAATAAG-CTTTTTGAAGGAATGAGTTA
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGAC-TTTTGAAGGAATGGGTGA
* * * * * * * * * *
4686 CTATAAATGGACTTTTGTTTCCAATGAGT-GCGTTTTTCTTCACATTTCTTAAAATAGATATTTA
65 CTATAAATGGACTTTTCTTGCTAATGAATGGC-TTTTTCTTCACGTTTCTCAGAGTAGACATTCA
* * * * *
4750 ATTATAGTCTATTTTAACCATAAATGTAAAAAAATTTAACTTA
129 ATTATAGTTTGTTTTAA-TAAAAATGTAAAAAAATTCAACTTA
* * * *
4793 AAATCAATTATGAGGTTATAAAATAATTTAAAGTGAGTAATAAGACTTTTGAAGGAATGAGTAAC
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
* * * * *
4858 TATAAATGTACTTTTCTT-CTCAATGAATGGCTTTTTCTACATGTTTCCCAAGACTAG-CATTCA
66 TATAAATGGACTTTTCTTGCT-AATGAATGGCTTTTTCTTCACGTTTCTC-AGAGTAGACATTCA
* *
4921 ATTATAGTCTGTTTTAATGAAAACTGTAAAAAAATTCAACTTA
129 ATTATAGTTTGTTTTAAT-AAAAATGTAAAAAAATTCAACTTA
* * *
4964 AAATCAATTTTGAGATTATAAAATAATTTAAAGCA-AGTAATAAGGCTTTTGAAGGAATAGGTGA
1 AAATCAATTATGAGATTATAAAATAATTTAAAG-AGAGTAATAAGACTTTTGAAGGAATGGGTGA
* * * *
5028 CTATAAATGAACTTTTCTTGCTAATGAATGCCTTTTTCCTCACGTTTCTCATG-GAAGACATTCA
65 CTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTTCACGTTTCTCA-GAGTAGACATTCA
** **
5092 ATTATTA-ACTGTTTTCAGCAAAAATGTAAAAAAATTCAACTTA
129 ATTA-TAGTTTGTTTT-AATAAAAATGTAAAAAAATTCAACTTA
* * * *
5135 AAATCAATTATTAGATTATGAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
* * * *
5200 TATAAATGAACTTTTCTT-ATCAATGAA-GTCCTCTTTCTTCACGTTTCTCATG-GTAGACATTC
66 TATAAATGGACTTTTCTTGCT-AATGAATG-GCTTTTTCTTCACGTTTCTCA-GAGTAGACATTC
* * * * *
5262 AATTATTGTTTGTTTTAACAAAAAATATTAAAAAATTTAACTTA
128 AATTATAGTTTGTTTTAA-TAAAAATGTAAAAAAATTCAACTTA
* * * * * * **
5306 AAGTCAATTATGAGATTATAAAACAATTAAAAGCGAGCAATAA-AGCTTTTAAAGGAATATGTGA
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGA-CTTTTGAAGGAATGGGTGA
* * * * ** * *
5370 CCATAAATGAAATTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTTTCA-AGGTAGACATTTC
65 CTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTTCACGTTTCTCAGA-GTAGACA-TTC
* *
5434 -ATTATAGTTTGTTTTAATCAAAAATATAAAAAGAACCTCAACTTA
128 AATTATAGTTTGTTTTAAT-AAAAATGTAAAAA-AA-TTCAACTTA
* * ********** * * * *
5479 AAATCAATTATAAGTTTANNNNNNNNNNTAAAGCGAGTAATAAGACTTTTGAACGAATGAGTGAT
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
* * * * * ** * * *
5544 TATAAATAGTCTTTTCTTACCAATGACTACCTTTTCCTTCATGTTTCCTAAG-GTAGACATTCAA
66 TATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTTCACGTTT-CTCAGAGTAGACATTCAA
********** ** * *
5608 TNNNNNNNNNNTTTAACCGAAAATGTAAAGAAATTCAAATTA
130 TTATAGTTTGTTTTAA-TAAAAATGTAAAAAAATTCAACTTA
* * * * ********** *
5650 AAATTAGTTATTAGATTATAAAATAATTTAAAGCGAGNNNNNNNNNNTTTGAAGGAATGGGTAAC
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
** * * * *
5715 TATAAATAAACTTTTTCTAT-C-AATGAATGCCTTTTTCATCATGTTTCT-TGAGGTAGACATTC
66 TATAAATGGAC-TTTTCT-TGCTAATGAATGGCTTTTTCTTCACGTTTCTCAGA-GTAGACATTC
********* *
5777 AATTATANNNNNNNNNNACTAAAAATGTAAAAAAATTCAACTTA
128 AATTATA-GTTTGTTTTAATAAAAATGTAAAAAAATTCAACTTA
* * * * * * * * *
5821 AAACCAATTTTGAGGTTAGAAAACT-ATTAAAAGTGAGTAATAAGGCTTTTGTACGAATGGGTGA
1 AAATCAATTATGAGATTATAAAA-TAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGA
* ********** * * *
5885 CTATAAATGGACTTTTCTTGCCAATGAATNNNNNNNNNNTCATGTTTCT-TGAGGCAGACATTCA
65 CTATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTTCACGTTTCTCAGA-GTAGACATTCA
**
5949 ATTATAGTTT-TTTTAACCAAAATGTAAAAAAATTCAACTTA
129 ATTATAGTTTGTTTTAATAAAAATGTAAAAAAATTCAACTTA
********** * ** *
5990 AANNNNNNNNNNAGATTATAAAATAATTTAAAGCGACAAATAAGACTTTTGAAGGAATGGATGAC
1 AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
6055 TATAAA
66 TATAAA
6061 NNNNNNNNNN
Statistics
Matches: 1413, Mismatches: 310, Indels: 115
0.77 0.17 0.06
Matches are distributed among these distances:
168 1 0.00
169 80 0.06
170 217 0.15
171 953 0.67
172 46 0.03
173 113 0.08
174 3 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.35
Consensus pattern (170 bp):
AAATCAATTATGAGATTATAAAATAATTTAAAGAGAGTAATAAGACTTTTGAAGGAATGGGTGAC
TATAAATGGACTTTTCTTGCTAATGAATGGCTTTTTCTTCACGTTTCTCAGAGTAGACATTCAAT
TATAGTTTGTTTTAATAAAAATGTAAAAAAATTCAACTTA
Found at i:5742 original size:686 final size:679
Alignment explanation
Indices: 4111--5913 Score: 1703
Period size: 683 Copynumber: 2.6 Consensus size: 679
4101 NNNNNNNNNN
* * * * * *
4111 AAATCAATTATGAGATTGTAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAA-GCACTGAGTGA
1 AAATCAATTATAAGGTTATAAAATAATTTAAAGCGAGTAATAAGACTTTTGAACG-AATGAGTAA
* * *** * * * * *
4175 CCAT-AATGGACTTTT-TT-TACAAATGAATGTGTTTTTCTTCACGTTTCTCAA-AGTAGACATT
65 CTATAAATGTACTTTTCTTCT-C-AATGAATACCTTTTCCTACATGTTTCCCAAGACTAG-CATT
* * * *
4236 CAATTATAGTTTGTTTTAA-GTAAAAATGTAAAAAAATTCAAATTAAAATCAGTTATGAGATTAT
127 CAATTATAGTCTGTTTTAACG-AAAACTGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTAT
* * * * * **
4300 AAAATAATTTAAAG-AGAGAAATAAGACTTTTCAAGGAATGGGTGACTATAAATGGACTTTTCTT
191 AAAATAATTTAAAGCA-AGTAATAAGGCTTTTGAAGGAATAGGTAACTATAAATAAACTTTTCTT
* * * * * * * *
4364 GCTAATGAGTGGCTTTTTCTTCA--TGTCTCCCGAGACTGACATTCAATTATAATTTGTTTTAAC
255 GCTAATGAATGCCTTTTTCATCACGTTTCTTCAG-GA-AGACATTCAATTATAA-CTGTTTT-AC
* * * *
4427 AAAAATTGTAAAAAAATTCAACTTAAAATCAATTATGAGATTGTAAAACAATTTAAAATGAGTAA
316 AAAAA-TGTAAAAAAATTCAACTTAAAATCAATTATTAGATTATGAAA-AATTTAAAGTGAGTAA
* * * *
4492 TAAAGCTTTTAAAGGAATGGGTGACTATAAATGGGCTTTTCTTACCAATGAATGTCTTTTTCTTC
379 TAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGTCTCTTTCTTC
* *** *
4557 ATCTTTCTTGAGGTAGACATTCAATTATAGTTTGTTTTAGTTAAAAAAGTAAACAATTTAACTTA
444 ATCTTTCTTCAGGTAGACATTCAATTATAGTTTGTTTTAACAAAAAAAGTAAAAAATTTAACTTA
* * * * * * *
4622 AAATCTATTATGACATTATAACACAATTTAAAGTGAGTAATAAGCTTTTTGAAGGAATGAGTTAC
509 AAATCAATTATGACATTATAAAACAATTAAAAGCGAGCAATAAGCTTTTTAAAGGAATGAGTGAC
* * * * * * * * *
4687 TATAAATGGACTTTTGTTTCCAATGAGTGCGTTTTTCTTCACATTTCTTAAAATAGATATTTAAT
574 CATAAATGAAATTTTCTTGCCAATGAATACCTTTTTCTTCACATTTCTTAAAATAGACATTTAAT
* * * *
4752 TATAGTCTATTTTAACCATAAATGTAAAAAAATTTAACTTA
639 TATAGTCTATTTTAACCAAAAATATAAAAAAACTCAACTTA
* * *
4793 AAATCAATTATGAGGTTATAAAATAATTTAAAGTGAGTAATAAGACTTTTGAAGGAATGAGTAAC
1 AAATCAATTATAAGGTTATAAAATAATTTAAAGCGAGTAATAAGACTTTTGAACGAATGAGTAAC
** *
4858 TATAAATGTACTTTTCTTCTCAATGAATGGCTTTTTCTACATGTTTCCCAAGACTAGCATTCAAT
66 TATAAATGTACTTTTCTTCTCAATGAATACCTTTTCCTACATGTTTCCCAAGACTAGCATTCAAT
* *
4923 TATAGTCTGTTTTAATGAAAACTGTAAAAAAATTCAACTTAAAATCAATTTTGAGATTATAAAAT
131 TATAGTCTGTTTTAACGAAAACTGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAAT
* *
4988 AATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATGAACTTTTCTTGCTAAT
196 AATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAGGTAACTATAAATAAACTTTTCTTGCTAAT
*
5053 GAATGCCTTTTTCCTCACGTTTC-TCATGGAAGACATTCAATTATTAACTGTTTTCAGCAAAAAT
261 GAATGCCTTTTTCATCACGTTTCTTCA-GGAAGACATTCAATTA-TAACTGTTTT-A-CAAAAAT
*
5117 GTAAAAAAATTCAACTTAAAATCAATTATTAGATTATGAAATAATTTAAAGCGAGTAATAAGGCT
322 GTAAAAAAATTCAACTTAAAATCAATTATTAGATTATGAAA-AATTTAAAGTGAGTAATAAGGCT
* *
5182 TTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTATCAATGAA-GTCCTCTTTCTTCA-CGTT
386 TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGT-CTCTTTCTTCATC-TT
* * *
5245 TC-TCATGGTAGACATTCAATTATTGTTTGTTTTAACAAAAAATATTAAAAAATTTAACTTAAAG
449 TCTTCA-GGTAGACATTCAATTATAGTTTGTTTTAACAAAAAA-AGTAAAAAATTTAACTTAAAA
*
5309 TCAATTATGAGATTATAAAACAATTAAAAGCGAGCAATAAAGC-TTTTAAAGGAAT-ATGTGACC
512 TCAATTATGACATTATAAAACAATTAAAAGCGAGCAAT-AAGCTTTTTAAAGGAATGA-GTGACC
** ** *
5372 ATAAATGAAATTTTCTTGCCAATGAATACCTTTTTCTTCATGTTT-TTCAAGGTAGACATTTCAT
575 ATAAATGAAATTTTCTTGCCAATGAATACCTTTTTCTTCACATTTCTT-AAAATAGACATTTAAT
* * *
5436 TATAGTTTGTTTTAATCAAAAATATAAAAAGAACCTCAACTTA
639 TATAGTCTATTTTAACCAAAAATATAAAAA-AA-CTCAACTTA
* ********** * *
5479 AAATCAATTATAAGTTTANNNNNNNNNNTAAAGCGAGTAATAAGACTTTTGAACGAATGAGTGAT
1 AAATCAATTATAAGGTTATAAAATAATTTAAAGCGAGTAATAAGACTTTTGAACGAATGAGTAAC
* * * *
5544 TATAAATAGT-CTTTTCTTAC-CAATGACTACCTTTTCCTTCATGTTTCCTAAG-GTAGACATTC
66 TATAAAT-GTACTTTTCTT-CTCAATGAATACCTTTTCCTACATGTTTCCCAAGACTAG-CATTC
********** * * *
5606 AATNNNNNNNNNNTTTAACCGAAAA-TGTAAAGAAATTCAAATTAAAATTAGTTATT-AGATTAT
128 AATTATAGTCTGTTTTAA-CGAAAACTGTAAAAAAATTCAAATTAAAATCAATT-TTGAGATTAT
* ********** *
5669 AAAATAATTTAAAGCGAGNNNNNNNNNNTTTGAAGGAATGGGTAACTATAAATAAACTTTTTCTA
191 AAAATAATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAGGTAACTATAAATAAAC-TTTTCT-
* * * ********
5734 T-C-AATGAATGCCTTTTTCATCATGTTTCTTGAGGTAGACATTCAATTATANNNNNNNNNNACT
254 TGCTAATGAATGCCTTTTTCATCACGTTTCTTCAGGAAGACATTCAATTATA--ACTGTTTTAC-
* * *
5797 AAAAATGTAAAAAAATTCAACTTAAAACCAATT-TTGAGGTTA-GAAAACTATTAAAAGTGAGTA
316 AAAAATGTAAAAAAATTCAACTTAAAATCAATTATT-AGATTATGAAAA--ATTTAAAGTGAGTA
* * *
5860 ATAAGGCTTTTGTACGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
378 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAAT
5914 NNNNNNNNNN
Statistics
Matches: 930, Mismatches: 155, Indels: 67
0.81 0.13 0.06
Matches are distributed among these distances:
682 64 0.07
683 342 0.37
684 160 0.17
685 23 0.02
686 321 0.35
687 19 0.02
688 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.35
Consensus pattern (679 bp):
AAATCAATTATAAGGTTATAAAATAATTTAAAGCGAGTAATAAGACTTTTGAACGAATGAGTAAC
TATAAATGTACTTTTCTTCTCAATGAATACCTTTTCCTACATGTTTCCCAAGACTAGCATTCAAT
TATAGTCTGTTTTAACGAAAACTGTAAAAAAATTCAAATTAAAATCAATTTTGAGATTATAAAAT
AATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAGGTAACTATAAATAAACTTTTCTTGCTAAT
GAATGCCTTTTTCATCACGTTTCTTCAGGAAGACATTCAATTATAACTGTTTTACAAAAATGTAA
AAAAATTCAACTTAAAATCAATTATTAGATTATGAAAAATTTAAAGTGAGTAATAAGGCTTTTGA
AGGAATGGGTGACTATAAATGGACTTTTCTTACCAATGAATGTCTCTTTCTTCATCTTTCTTCAG
GTAGACATTCAATTATAGTTTGTTTTAACAAAAAAAGTAAAAAATTTAACTTAAAATCAATTATG
ACATTATAAAACAATTAAAAGCGAGCAATAAGCTTTTTAAAGGAATGAGTGACCATAAATGAAAT
TTTCTTGCCAATGAATACCTTTTTCTTCACATTTCTTAAAATAGACATTTAATTATAGTCTATTT
TAACCAAAAATATAAAAAAACTCAACTTA
Found at i:7261 original size:170 final size:169
Alignment explanation
Indices: 6953--7579 Score: 548
Period size: 170 Copynumber: 3.7 Consensus size: 169
6943 NNNNNNNNNN
** * * * * * *
6953 TTATAAAATAATTTAAAGCAAGTAATAAGGCTTTTGAAAGAATGGGTGACTATATATAAATTTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATAGACTTTT
* * *
7018 CTTCTCAATGAATAGCTTTTTCTGCACGTTTTTCAAGGTA-ATAATTCAATTATAGTCTTTTTTA
66 CTTCTCAATGAATAGCTTTTTCTTCACGTTTTT-AAGGTAGA-CATTCAATTATAGTCTATTTTA
7082 ACTAAAAATGTAAAAAAATTCAACTTAAAACTAATTTTGAGG
129 ACTAAAAATGTAAAAAAATTCAACTTAAAA-TAATTTTGAGG
* * * * **
7124 TTCTAAAACCATTAAAAGTGAGTAATAAGGCTTTTTAAGGAATGAATGACTATAAATAGACTTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATAGACTTTT
* * * *
7189 TTTATCAATGAAT-GTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATTA-TCTATTTTA
66 CTTCTCAATGAATAGCTTTTTCTTCACGTTT-TTAAGGTAGACATTCAATTA-TAGTCTATTTTA
* * ********* *
7252 ACCAAAAATGTAAACAAATTCAACTTAAAANNNNNNNNNNGA
129 ACTAAAAATGTAAAAAAATTCAACTTAAAA-TAATTTTGAGG
** * * *
7294 TTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTAAAAGAATGGGTGAC-ATATATGGACTTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATAGACTTTT
* * * * * *
7358 CTTCTCAATGAATGGCTTTTTCTAT-ACATTTTTTAAGGCAGGCATTTAATTATAGTCTGTTTTA
66 CTTCTCAATGAATAGCTTTTTCT-TCAC-GTTTTTAAGGTAGACATTCAATTATAGTCTATTTTA
**********
7422 ACTAAAANNNNNNNNNNATTCAACTTAAAATCAATTTTGAGG
129 ACTAAAAATGTAAAAAAATTCAACTTAAAAT-AATTTTGAGG
* * * * *
7464 TTATAAAACCATTAACAGGGAGTAATAAGGCTTTTAAAGGAATGGGTAACTAGAAATAGACTTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATAGACTTTT
* *
7529 CTTGC-CAATGAAT-GCCTTTTTCTTCATGTTTATTTAGGTAGACATTCAATT
66 CTT-CTCAATGAATAG-CTTTTTCTTCACGTTT-TTAAGGTAGACATTCAATT
7580 NNNNNNNNNN
Statistics
Matches: 353, Mismatches: 90, Indels: 26
0.75 0.19 0.06
Matches are distributed among these distances:
169 25 0.07
170 209 0.59
171 118 0.33
172 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.37
Consensus pattern (169 bp):
TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATAGACTTTT
CTTCTCAATGAATAGCTTTTTCTTCACGTTTTTAAGGTAGACATTCAATTATAGTCTATTTTAAC
TAAAAATGTAAAAAAATTCAACTTAAAATAATTTTGAGG
Found at i:9016 original size:171 final size:171
Alignment explanation
Indices: 8718--9048 Score: 488
Period size: 171 Copynumber: 1.9 Consensus size: 171
8708 NNNNNNNNNN
* *
8718 AATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTCAACTTAAAACCAATTTGAGGGTTATAA
1 AATTATAGTATGTTTTAACTAAAAATGTAAAAAAATTCAACTCAAAACCAATTTGAGGGTTATAA
* * * * * *
8783 AACTATTAAAAGGGAGTAACAAGACTTTTAAAGGAATGAGTGACTATAAATGGATATTTCTTGCC
66 AACCATTAAAAGCGAGTAACAAGACTTTTAAAAGAATGAGTAACTAGAAATAGATATTTCTTGCC
*
8848 AATGAAT-CTCTTTTTCTTCACGTTTGTTGAGGTAAACATTC
131 AATGAATGC-CTTTTTCTTCACGTTTCTTGAGGTAAACATTC
*
8889 AATTATAGTATGTTTTAACTAAAAGTGTAAAAAAATTCAACTCAAAACCAATTTTGA-GGTTATA
1 AATTATAGTATGTTTTAACTAAAAATGTAAAAAAATTCAACTCAAAACCAA-TTTGAGGGTTATA
* * *
8953 AAACCATTAATAGCGAGTAATAAGGCTTTTAAAAGAATGAGTAACTAGAAATAGACT-TTTCTTG
65 AAACCATTAAAAGCGAGTAACAAGACTTTTAAAAGAATGAGTAACTAGAAATAGA-TATTTCTTG
*
9017 CCAATGAATGCCTTTTTCTTCATGTTTCTTGA
129 CCAATGAATGCCTTTTTCTTCACGTTTCTTGA
9049 AGTAGANNNN
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
171 136 0.95
172 7 0.05
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (171 bp):
AATTATAGTATGTTTTAACTAAAAATGTAAAAAAATTCAACTCAAAACCAATTTGAGGGTTATAA
AACCATTAAAAGCGAGTAACAAGACTTTTAAAAGAATGAGTAACTAGAAATAGATATTTCTTGCC
AATGAATGCCTTTTTCTTCACGTTTCTTGAGGTAAACATTC
Found at i:9645 original size:171 final size:171
Alignment explanation
Indices: 9218--9827 Score: 568
Period size: 171 Copynumber: 3.6 Consensus size: 171
9208 NNNNNNNNNN
* * *
9218 GTGACTATAAATGGACTTTTCTTACCAATGAATACCTTTTTCTTCATGTTTTTTGAGGTAGACAA
1 GTGACTATAAATGAACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGAC-A
* * * * * *
9283 TT-GATTATAGTCTGTTTTAACCAATAATATAAAAAAACTCAACTT-AAAATCAATTATAAGTTT
65 TTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAAAT-AATTATTAGATT
********** * *
9346 ATNNNNNNNNNNAAAGCGAGTAATAAGACTTTTGAACGAATGG
129 ATAAAGCAATTAAAAGCGAATAATAAGGCTTTTGAACGAATGG
* * * * * *
9389 GTGACTATAAAT-AGACTTTTCTTGCCAAGGACTGCCATTGTCTTCATGTTTCTTAAGGTAGACA
1 GTGACTATAAATGA-ACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACA
* *
9453 TTCAA-T-TAGTGCATGTTTTAACCAAAAATGTAAAAAAATTTAAATTAAAAATAATTATTAGAT
65 TTCAATTATAGT-C-TGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAAATAATTATTAGAT
* ** *
9516 TATAAAGCAATTTAGTGCGAATAATAAGGCTTTTGAAGGAATGG
128 TATAAAGCAATTAAAAGCGAATAATAAGGCTTTTGAACGAATGG
* * * *
9560 GTAACTATAAATGAACTTTTTTTATCAATGAATGCCTTTTTCTTCATATTTCTTGAGGTAGACAT
1 GTGACTATAAATGAACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACAT
* ** * ** ****
9625 TCAATTATAGTCTTTTTTAACTGAAAATGTAACAAAATTCAACTTAAAACCAATT-TTGAGGNNN
66 TCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAAATAATTATT-AGATTA
*******
9689 NNNNNNNATTAAAAGC-AAGTAATAAGGCTTTTGAACGAATGG
130 TAAAGCAATTAAAAGCGAA-TAATAAGGCTTTTGAACGAATGG
* * * * *
9731 GTGACTATAAATGAGCTTTTCTTACCAATTAATGCTTTTTTCATCACGTTTCTTGAGGTAGACAT
1 GTGACTATAAATGAACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACAT
*
9796 TCAATTATAGTCTATTTTAACCAAAAATGTAA
66 TCAATTATAGTCTGTTTTAACCAAAAATGTAA
9828 NNNNNNNNNN
Statistics
Matches: 352, Mismatches: 77, Indels: 20
0.78 0.17 0.04
Matches are distributed among these distances:
169 4 0.01
170 9 0.03
171 327 0.93
172 8 0.02
173 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.36
Consensus pattern (171 bp):
GTGACTATAAATGAACTTTTCTTACCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACAT
TCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAAATAATTATTAGATTAT
AAAGCAATTAAAAGCGAATAATAAGGCTTTTGAACGAATGG
Found at i:10882 original size:171 final size:171
Alignment explanation
Indices: 10500--11152 Score: 563
Period size: 171 Copynumber: 3.8 Consensus size: 171
10490 NNNNNNNNNN
* * *
10500 TAATTGATTTTAAGTTGAATTTTTTTATATTTTTTGTTAAAACAGACTACAATTGAAT-ATCTAC
1 TAATTGATTTTAAGTTGAATTTGTTTATATTTTTAGTTAAAACAGACTATAATTGAATGATCTAC
*
10564 CTCAAGAAACGTAAAGAAAAAGACATTCATTGGCAAGAAAATCCATTTATAGTCACCCATTCCTT
66 CTCAAGAAACGTAAAGAAAAAGACATTCATTGGCAAGAAAATCCATATATAGTCACCCATTCCTT
* *
10629 TAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAACCTCA
131 CAAAAACCTTATTACTCGCTTTTAATGGTTTTATAACCTCA
* * * *
10670 AAATTGGTTTTAAGTTGAA-TTGTTTTATATTTTTAGTTAAAACAGACTATAATTGAATGCT-TC
1 TAATTGATTTTAAGTTGAATTTG-TTTATATTTTTAGTTAAAACAGACTATAATTGAATGATCTA
* **
10733 CCTTGAA-AAACGTGTAGAAAAAG-CTATTCATTGAG-AAGAAAAGTCCATATATAGTCACCCAT
65 CC-TCAAGAAACGTAAAGAAAAAGAC-ATTCATTG-GCAAGAAAA-TCCATATATAGTCACCCAT
* ********** *
10795 TTCTTCAAAAACCTTATTACTCGCTTNNNNNNNNNNTATAATCTCA
126 TCCTTCAAAAACCTTATTACTCGCTTTTAATGGTTTTATAACCTCA
* * * *
10841 TAATTGATTTTTAGTTGAATTTGTTTACT-TTTTTGGTTAAAACAGTCTATAATTGAATG-TCGA
1 TAATTGATTTTAAGTTGAATTTGTTTA-TATTTTTAGTTAAAACAGACTATAATTGAATGATCTA
* * * * * **********
10904 ACTCAAGAAACGTAAAGAAAAAGGCATTTATTGACAAGAAAAGTCTANNNNNNNNNNCCCATTCC
65 CCTCAAGAAACGTAAAGAAAAAGACATTCATTGGCAAGAAAA-TCCATATATAGTCACCCATTCC
* * *
10969 TTCAAAAGCCTTATTACTCGCTTTTAATAGTTTTATAAACTCCA
129 TTCAAAAACCTTATTACTCGCTTTTAATGGTTTTATAACCT-CA
* * * * * * * *
11013 -AGTTGGTTTTAAGTTGAATTTTTTTACATTTTTAGCTGAAACAGACTATAATTGAATG-CCTGC
1 TAATTGATTTTAAGTTGAATTTGTTTATATTTTTAGTTAAAACAGACTATAATTGAATGATCTAC
* ** * * ** *
11076 CTTAAGAAACGTGTAGAAAAAGACATTCATTGAG-AAGAAAAGTCTATTTATAGTCACATATTTC
66 CTCAAGAAACGTAAAGAAAAAGACATTCATTG-GCAAGAAAA-TCCATATATAGTCACCCATTCC
*
11140 TTCAAAAGCCTTA
129 TTCAAAAACCTTA
11153 NNNNNNNNNN
Statistics
Matches: 374, Mismatches: 94, Indels: 29
0.75 0.19 0.06
Matches are distributed among these distances:
169 3 0.01
170 86 0.23
171 278 0.74
172 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.36
Consensus pattern (171 bp):
TAATTGATTTTAAGTTGAATTTGTTTATATTTTTAGTTAAAACAGACTATAATTGAATGATCTAC
CTCAAGAAACGTAAAGAAAAAGACATTCATTGGCAAGAAAATCCATATATAGTCACCCATTCCTT
CAAAAACCTTATTACTCGCTTTTAATGGTTTTATAACCTCA
Found at i:11130 original size:342 final size:331
Alignment explanation
Indices: 10500--11152 Score: 817
Period size: 342 Copynumber: 1.9 Consensus size: 331
10490 NNNNNNNNNN
* * * *
10500 TAATTGATTTTAAGTTGAATTTTTTTATATTTTTTGTTAAAACAGACTACAATTGAATATCTACC
1 TAATTGATTTTAAGTTGAATTTGTTTATATTTTTGGTTAAAACAGACTACAATTGAATATCGAAC
* *
10565 TCAAGAAACGTAAAGAAAAAGACATTCATTGGCAAGAAAATCCATTTATAGTCACCCATTCCTTT
66 TCAAGAAACGTAAAGAAAAAGACATTCATTGACAAGAAAATCCATTTATAGTCACCCATTCCTTC
* *
10630 AAAAGCCTTATTACTCGCTTTTAATGGTTTTATAACCTCAAAATTGGTTTTAAGTTGAATTGTTT
131 AAAAGCCTTATTACTCGCTTTTAATAGTTTTATAAACTCAAAATTGGTTTTAAGTTGAATTGTTT
* * *
10695 TATATTTTTAGTTAAAACAGACTATAATTGAATGCTTCCCTTGAAAAACGTGTAGAAAAAGCTAT
196 TACATTTTTAGCTAAAACAGACTATAATTGAATGCCTCCCTTGAAAAACGTGTAGAAAAAGCTAT
*
10760 TCATTGAGAAGAAAAGTCCATATATAGTCACCCATTTCTTCAAAAACCTTATTACTCGCTTNNNN
261 TCATTGAGAAGAAAAGTCCATATATAGTCACACATTTCTTCAAAAACCTTATTACTCGCTT----
10825 NNNNNNTATAATCTCA
322 ------TATAATCTCA
* * * *
10841 TAATTGATTTTTAGTTGAATTTGTTTACT-TTTTTGGTTAAAACAGTCTATAATTGAATGTCGAA
1 TAATTGATTTTAAGTTGAATTTGTTTA-TATTTTTGGTTAAAACAGACTACAATTGAATATCGAA
* * * **********
10905 CTCAAGAAACGTAAAGAAAAAGGCATTTATTGACAAGAAAAGTCTANNNNNNNNNNCCCATTCCT
65 CTCAAGAAACGTAAAGAAAAAGACATTCATTGACAAGAAAA-TCCATTTATAGTCACCCATTCCT
* * *
10970 TCAAAAGCCTTATTACTCGCTTTTAATAGTTTTATAAACTCCAAGTTGGTTTTAAGTTGAATTTT
129 TCAAAAGCCTTATTACTCGCTTTTAATAGTTTTATAAACTCAAAATTGGTTTTAAGTTGAATTGT
* *
11035 TTTACATTTTTAGCTGAAACAGACTATAATTGAATGCCTGCCTT-AAGAAACGTGTAGAAAAAGA
194 TTTACATTTTTAGCTAAAACAGACTATAATTGAATGCCTCCCTTGAA-AAACGTGTAGAAAAAG-
* * * *
11099 C-ATTCATTGAGAAGAAAAGTCTATTTATAGTCACATATTTCTTCAAAAGCCTTA
257 CTATTCATTGAGAAGAAAAGTCCATATATAGTCACACATTTCTTCAAAAACCTTA
11153 NNNNNNNNNN
Statistics
Matches: 270, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
341 94 0.35
342 175 0.65
343 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.36
Consensus pattern (331 bp):
TAATTGATTTTAAGTTGAATTTGTTTATATTTTTGGTTAAAACAGACTACAATTGAATATCGAAC
TCAAGAAACGTAAAGAAAAAGACATTCATTGACAAGAAAATCCATTTATAGTCACCCATTCCTTC
AAAAGCCTTATTACTCGCTTTTAATAGTTTTATAAACTCAAAATTGGTTTTAAGTTGAATTGTTT
TACATTTTTAGCTAAAACAGACTATAATTGAATGCCTCCCTTGAAAAACGTGTAGAAAAAGCTAT
TCATTGAGAAGAAAAGTCCATATATAGTCACACATTTCTTCAAAAACCTTATTACTCGCTTTATA
ATCTCA
Found at i:13554 original size:171 final size:168
Alignment explanation
Indices: 12511--14192 Score: 918
Period size: 170 Copynumber: 9.9 Consensus size: 168
12501 NNNTTTTAAT
* * * * * * *
12511 CTCATAATTGATTTTTATTTGAATGTTTTTACATTTTTGGTTAAAACTA-ACAATAATGGAATG-
1 CTCAAAATTGGTTTTAAGTTGAAT-TTTTTACATTTTTAGTTAAAAC-AGACTATAATTGAATGC
* * * ** * * *
12574 TGTCCCTTTAGAAACGTAAAGAAAAAGGCATTCA-T-A-AAGAAATGTCCA-TTATTAGTCA-CC
64 T-TACC-TCAAAAACGTGTAGAAAAAAGCATTCATTGAGAAGAAAAGTCCACATA-T-GTCACCC
* * * *
12634 ATTCCTTTAAAAGCCTTATTGCTC-ATTTTAAATAGTTTTATAAC
125 ATTCCTTCAAAAGCCTTATTACTCGCTTTT-AATGGTTTTATAAC
* * * * * *
12678 TTTATAATTGATTTTAAGTTGAATTATTTTATATTTTTTA-TTCAAACAGACTATAATTGAATGC
1 CTCAAAATTGGTTTTAAGTTGAATT-TTTTACA-TTTTTAGTTAAAACAGACTATAATTGAATGC
* ** * * **
12742 TTATCTCAAACAACGTGTAG-AAAAAGCCATAAAATGAGAAAAAAAGTCCATTTATAGTCACCCA
64 TTACCTCAAA-AACGTGTAGAAAAAAG-CATTCATTGAGAAGAAAAGTCCACATAT-GTCACCCA
* * ********** * * * *
12806 TTCCTGCAAAAGTCNNNNNNNNNNCTTTAAATAGTTTTATCAT
126 TTCCTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
* * * * * * **********
12849 CTCATAATTGATTTTAAGCTCAATTGTTTTACATTTTTTGTTAAAAAAGNNNNNNNNNNAATG-T
1 CTCAAAATTGGTTTTAAGTTGAATT-TTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCT
* * * * **
12913 CTACCTCGAGAAACATG-ATGAAAAACGTATTCATTG-GTAAGAAAAGT-CATTTATAGTCACCC
65 -TACCTC-AAAAACGTGTA-GAAAAAAGCATTCATTGAG-AAGAAAAGTCCACATAT-GTCACCC
* * *
12975 ATTTCTTCAAAAGCCTTATTACTCGCCTTTAATGCTTTTATAAC
125 ATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
* *
13019 CCCAAAATTGGTTTTAAGTTGAATTTTTTTACATTTTCAGTTAAAACAGACTATAATTGAATGCT
1 CTCAAAATTGGTTTTAAGTTGAA-TTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCT
* * *
13084 TACCTTAAAAAATGTGTAG-AAAAAGTCATTCATTGAGAAGAAAAGTCCATATATGTCACCCATT
65 TACC-TCAAAAACGTGTAGAAAAAAG-CATTCATTGAGAAGAAAAGTCCACATATGTCACCCATT
* * *
13148 CTTTCAAAAGACTTATTACTTGCTTTTAATGGTTTTATAAC
128 CCTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
*
13189 CTCAAAATTGGTTTTACGTTGAATTTTTTCACATTTTTAGTTAAAACAGACTATAATTGAATGCT
1 CTCAAAATTGGTTTTAAGTTGAATTTTTT-ACATTTTTAGTTAAAACAGACTATAATTGAATGCT
* *
13254 TACCTTGAAAAACATGTA-AAAAAAGCTATTCATTGAGAAGAAAAGTCCACATATGTCACCCATT
65 TACC-TCAAAAACGTGTAGAAAAAAGC-ATTCATTGAGAAGAAAAGTCCACATATGTCACCCATT
* * ** *
13318 CTTTCAAAAGCCTTATTACTCGCTTTAAATTTTTTTATAAT
128 CCTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
* **********
13359 CTCATAANNNNNNNNNNGTTGAATTTGTTTACATTTTTAGTTAAAACAGA-TAATAATTGAATG-
1 CTCAAAATTGGTTTTAAGTTGAATTT-TTTACATTTTTAGTTAAAACAGACT-ATAATTGAATGC
* * ******** *
13422 TCTAGCTCAAGAAACGTGAAGAAAAAAGCATTCATT-AGCAAGAANNNNNNNNNNATA-GTCACT
64 T-TACCTCAA-AAACGTGTAGAAAAAAGCATTCATTGAG-AAGAA--AAGTCCACATATGTCACC
*
13485 CATTCCTTCAAAAGCTTTATTACTCGCTTTTAATGGTTTTATAAC
124 CATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
* ********** *
13530 CTCAAAATTGATTTTAAGTTGAATTTTTTNNNNNNNNNNTTAAAACAGACTATAATTGAATGCCT
1 CTCAAAATTGGTTTTAAGTTGAATTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCTT
* * * * * * ** *********
13595 GCCATGAGAAACGTATAG-AAAAAGCCATTCATTGAGAAGAGAAGTTCATTTANNNNNNNNNNTT
66 ACC-TCAAAAACGTGTAGAAAAAAG-CATTCATTGAGAAGAAAAGTCCACATA-TGTCACCCATT
* *
13659 CCTTCAAAAGCCTTATTACTCGCTTTTAATGATTTTATTAC
128 CCTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
*
13700 CTCAAAATTAGTTTTAAGTTGAATATTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCT
1 CTCAAAATTGGTTTTAAGTTGAAT-TTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCT
* * * * * * * **
13765 TTCCTTGAGAAACATGTAG-AGAAAGCCATTTATTGAGAGGAAAAGTCCATTTATAGTCACCCAT
65 TACC-TCAAAAACGTGTAGAAAAAAG-CATTCATTGAGAAGAAAAGTCCACATAT-GTCACCCAT
* * * * *
13829 TCCTT-AAACGGCCTTATTACTCGCATTAAATTGTTTTATAAT
127 TCCTTCAAA-AGCCTTATTACTCGCTTTTAATGGTTTTATAAC
* * * * * * **
13871 CTCATAATTGATTTTATGTTCAATTTTTTTACATTTTTTA-TTAAAATAGATTATTTTTGAATG-
1 CTCAAAATTGGTTTTAAGTTGAA-TTTTTTACA-TTTTTAGTTAAAACAGACTATAATTGAATGC
* ** * * ** * *
13934 TCTACCTCAAGAAACGTGAACCAAAAGGCATTCATTG-GCAAGAAAAGTCTATTTGTAGCCACCC
64 T-TACCTCAA-AAACGTGTAGAAAAAAGCATTCATTGAG-AAGAAAAGTCCACATAT-GTCACCC
* * * * *
13998 ATTTCTTTAAAAGCCTTATTACTCACTTTTAATAGTTTTATAAT
125 ATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
* * * **********
14042 ATTAAAATTGATTTTAAGTTGAATTTTTNNNNNNNNNNGTTAAAACAGACTATAATTGAATAG-T
1 CTCAAAATTGGTTTTAAGTTGAATTTTTTACATTTTTAGTTAAAACAGACTATAATTGAAT-GCT
* * * ** ** *
14106 TGCCTCAAGAAACGTAT-GAAAAAAGTCATTCATTAAGAAGAAAAGTTTATTTATAATCACCCAT
65 TACCTCAA-AAACGTGTAGAAAAAAG-CATTCATTGAGAAGAAAAGTCCACATAT-GTCACCCAT
14170 TCCTTCAAAAGCCTTATTACTCG
127 TCCTTCAAAAGCCTTATTACTCG
14193 GTTTNNNNNN
Statistics
Matches: 1153, Mismatches: 305, Indels: 111
0.73 0.19 0.07
Matches are distributed among these distances:
166 10 0.01
167 57 0.05
168 9 0.01
169 31 0.03
170 597 0.52
171 422 0.37
172 27 0.02
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.36
Consensus pattern (168 bp):
CTCAAAATTGGTTTTAAGTTGAATTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCTT
ACCTCAAAAACGTGTAGAAAAAAGCATTCATTGAGAAGAAAAGTCCACATATGTCACCCATTCCT
TCAAAAGCCTTATTACTCGCTTTTAATGGTTTTATAAC
Found at i:13733 original size:341 final size:339
Alignment explanation
Indices: 12628--14192 Score: 950
Period size: 341 Copynumber: 4.6 Consensus size: 339
12618 TCCATTATTA
* * * * * *
12628 GTCA-CCATTCCTTTAAAAGCCTTATTGCTC-ATTTTAAAT-AGTTTTATAACTTTATAATT-GA
1 GTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTT-AATGA-TTTTATAACCTCAAAATTAG-
* * * *
12689 TTTTAAGTTGAATTATTTTATATTTTTTA-TTCAAACAGACTATAATTGAATGCTTATCTCAAAC
63 TTTTAAGTTGAATT-TTTTACA-TTTTTAGTTAAAACAGACTATAATTGAATGCTTACCTCAAAA
* * ** * * * *
12753 AACGTGTAGAAAAAGCCATAAAATGAGAAAAAAAGTCCATTTATAGTCACCCATTCCTGCAAAAG
126 AACGTGAAGAAAAAGTCATTCATTGAGAAGAAAAGTCCATATAT-GTCACCCATTCCTTCAAAAG
* ********** * * * * * * *
12818 TCNNNNNNNNNNCTTTAAATAGTTTTATCATCTCATAATTGATTTTAAGCTCAATTGTTTT-ACA
190 ACTTATTACTCGCTTTTAATGGTTTTATAACCTCAAAATTGATTTTAAGTTGAATT-TTTTCACA
* * ********** * * * * *
12882 TTTTTTGTTAAAAAAGNNNNNNNNNNAATGTCTACC-TCGAGAAACATGATGAAAAACG-TATTC
254 TTTTTAGTTAAAACAGACTATAATTGAATGCCTACCAT-GAAAAACAT-ATAAAAAAAGCCATTC
**
12945 ATTG-GTAAGAAAAGT-CATTTAT
317 ATTGAG-AAGAAAAGTCCACATAT
* * * * *
12967 AGTCACCCATTTCTTCAAAAGCCTTATTACTCGCCTTTAATGCTTTTATAACCCCAAAATTGGTT
1 -GTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGATTTTATAACCTCAAAATTAGTT
* * *
13032 TTAAGTTGAATTTTTTTACATTTTCAGTTAAAACAGACTATAATTGAATGCTTACCTTAAAAAAT
65 TTAAGTTGAA-TTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCTTACCTCAAAAAAC
* *
13097 GTGTAGAAAAAGTCATTCATTGAGAAGAAAAGTCCATATATGTCACCCATTCTTTCAAAAGACTT
129 GTGAAGAAAAAGTCATTCATTGAGAAGAAAAGTCCATATATGTCACCCATTCCTTCAAAAGACTT
* * *
13162 ATTACTTGCTTTTAATGGTTTTATAACCTCAAAATTGGTTTTACGTTGAATTTTTTCACATTTTT
194 ATTACTCGCTTTTAATGGTTTTATAACCTCAAAATTGATTTTAAGTTGAATTTTTTCACATTTTT
* * * *
13227 AGTTAAAACAGACTATAATTGAATGCTTACCTTGAAAAACATGTAAAAAAAGCTATTCATTGAGA
259 AGTTAAAACAGACTATAATTGAATGCCTACCATGAAAAACATATAAAAAAAGCCATTCATTGAGA
13292 AGAAAAGTCCACATAT
324 AGAAAAGTCCACATAT
* * ** * * *******
13308 GTCACCCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATTTTTTTATAATCTCATAANNNNNNN
1 GTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGATTTTATAACCTCAAAATTAGTTT
*** * *
13373 NNNGTTGAATTTGTTTACATTTTTAGTTAAAACAGA-TAATAATTGAATG-TCTAGCTCAAGAAA
66 TAAGTTGAATTT-TTTACATTTTTAGTTAAAACAGACT-ATAATTGAATGCT-TACCTCAAAAAA
******** *
13436 CGTGAAGAAAAAAG-CATTCATT-AGCAAGAANNNNNNNNNNATA-GTCACTCATTCCTTCAAAA
128 CGTGAAG-AAAAAGTCATTCATTGAG-AAGAA--AAGTCCATATATGTCACCCATTCCTTCAAAA
**
13498 G-CTTTATTACTCGCTTTTAATGGTTTTATAACCTCAAAATTGATTTTAAGTTGAATTTTTT-NN
189 GAC-TTATTACTCGCTTTTAATGGTTTTATAACCTCAAAATTGATTTTAAGTTGAATTTTTTCAC
******** * * * *
13561 NNNNNNNNTTAAAACAGACTATAATTGAATGCCTGCCATGAGAAACGTATAGAAAAAGCCATTCA
253 ATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCATGAAAAACATATAAAAAAAGCCATTCA
* * ** *
13626 TTGAGAAGAGAAGTTCATTTANN
318 TTGAGAAGAAAAGTCCACATA-T
******** *
13649 NNNNNNNNTTCCTTCAAAAGCCTTATTACTCGCTTTTAATGATTTTATTACCTCAAAATTAGTTT
1 GTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGATTTTATAACCTCAAAATTAGTTT
* ** * *
13714 TAAGTTGAATATTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCTTTCCTTGAGAAACA
66 TAAGTTGAAT-TTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCTTACCTCAAAAAACG
* * * * * * * *
13779 TGTAGAGAAAGCCATTTATTGAGAGGAAAAGTCCATTTATAGTCACCCATTCCTT-AAACGGCCT
130 TGAAGAAAAAGTCATTCATTGAGAAGAAAAGTCCATATAT-GTCACCCATTCCTTCAAA-AGACT
* * * * * * * *
13843 TATTACTCGCATTAAATTGTTTTATAATCTCATAATTGATTTTATGTTCAATTTTTTTACATTTT
193 TATTACTCGCTTTTAATGGTTTTATAACCTCAAAATTGATTTTAAGTTGAATTTTTTCACA-TTT
* * ** * * * ** *
13908 TTA-TTAAAATAGATTATTTTTGAATGTCTACC-TCAAGAAACGTGA-ACCAAAAGGCATTCATT
257 TTAGTTAAAACAGACTATAATTGAATGCCTACCATGAA-AAACAT-ATAAAAAAAGCCATTCATT
* ** *
13970 G-GCAAGAAAAGTCTATTTGT
320 GAG-AAGAAAAGTCCACATAT
* * * * ** *
13990 AGCCACCCATTTCTTTAAAAGCCTTATTACTCACTTTTAAT-AGTTTTATAATATTAAAATT-GA
1 -GTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGA-TTTTATAACCTCAAAATTAG-
********** * *
14053 TTTTAAGTTGAATTTTTNNNNNNNNNNGTTAAAACAGACTATAATTGAATAG-TTGCCTCAAGAA
63 TTTTAAGTTGAATTTTTTACATTTTTAGTTAAAACAGACTATAATTGAAT-GCTTACCTCAAAAA
* * ** * *
14117 ACGT-ATGAAAAAAGTCATTCATTAAGAAGAAAAGTTTATTTATAATCACCCATTCCTTCAAAAG
127 ACGTGAAG-AAAAAGTCATTCATTGAGAAGAAAAGTCCATATAT-GTCACCCATTCCTTCAAAAG
*
14181 CCTTATTACTCG
190 ACTTATTACTCG
14193 GTTTNNNNNN
Statistics
Matches: 942, Mismatches: 243, Indels: 79
0.75 0.19 0.06
Matches are distributed among these distances:
339 20 0.02
340 305 0.32
341 484 0.51
342 132 0.14
343 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.36
Consensus pattern (339 bp):
GTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTTAATGATTTTATAACCTCAAAATTAGTTT
TAAGTTGAATTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCTTACCTCAAAAAACGT
GAAGAAAAAGTCATTCATTGAGAAGAAAAGTCCATATATGTCACCCATTCCTTCAAAAGACTTAT
TACTCGCTTTTAATGGTTTTATAACCTCAAAATTGATTTTAAGTTGAATTTTTTCACATTTTTAG
TTAAAACAGACTATAATTGAATGCCTACCATGAAAAACATATAAAAAAAGCCATTCATTGAGAAG
AAAAGTCCACATAT
Found at i:15315 original size:170 final size:170
Alignment explanation
Indices: 14782--15328 Score: 458
Period size: 171 Copynumber: 3.2 Consensus size: 170
14772 NNNNNATTGA
* * *
14782 TTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAAAAGATTATAATTGAATGTCTACCTCGAGAA
1 TTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAAAAGACTATAATTGAATGTCTACCTCAAAAA
* * * ** ** *
14847 ATATGAAGAAAAAGGTATTCATTGGTAAGAAAAGTCGTTTTATAGTTACCCAT-TTCATCAAAAG
66 ATGTGAAGAAAAAAGCATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATCTT--TCAAAAG
* * * *
14911 CCTTATTACTTGCTTTTAATGCTTTTATAACCCCAAAATTGG
129 CCTTATTACTCGCTTTTAATGATTTTATAAACCCAAAATTAG
*********** * *
14953 TTTTAAGTTGAATTTTTTTACATTTNNNNNNNNNNCATACTATAATTGAATGTCTGCCTTCAAAA
1 TTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAAAAGACTATAATTGAATGTCTACC-TCAAAA
* * * * *
15018 ACATGT--CG-AAAAAGTCATTCATTGAGAAGAAAAATCTATTTATAGTCACTCATTCTTTCAAA
65 A-ATGTGAAGAAAAAAG-CATTCATTGACAAGAAAAGTCCATTTATAGTCACCCA-TCTTTCAAA
* * * * * * *******
15080 AGTCTTATTTA-TCGGTTTAAATTATTTTATAATCTCATNNNNNN
127 AGCCTTA-TTACTCGCTTTTAATGATTTTATAAACCCAAAATTAG
**** * * *
15124 NNNNAAGTTCAATTTTTTTACA-TTTTGGTTAAAAAAGACTATAGTTGAATGTCTACCTCAAAAA
1 TTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAAAAGACTATAATTGAATGTCTACCTCAAAAA
* *
15188 ATGTGAAGAAAAAAGCATTCATTTACAAGAAAAGTCCATCTATAGTCACCCATCCTTTCAAAAGC
66 ATGTGAAGAAAAAAGCATTCATTGACAAGAAAAGTCCATTTATAGTCACCCAT-CTTTCAAAAGC
*
15253 CTTATTACTCGCTTTTAATGGTTTTATAAACCCAAAATTAG
130 CTTATTACTCGCTTTTAATGATTTTATAAACCCAAAATTAG
* *
15294 TTTTAAGTTAAATTGTTTTACATTTTTAGTTAAAA
1 TTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAA
15329 CNNNNNNNNN
Statistics
Matches: 275, Mismatches: 89, Indels: 24
0.71 0.23 0.06
Matches are distributed among these distances:
168 4 0.01
169 11 0.04
170 108 0.39
171 138 0.50
172 9 0.03
173 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.38
Consensus pattern (170 bp):
TTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAAAAGACTATAATTGAATGTCTACCTCAAAAA
ATGTGAAGAAAAAAGCATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATCTTTCAAAAGCC
TTATTACTCGCTTTTAATGATTTTATAAACCCAAAATTAG
Found at i:15952 original size:170 final size:166
Alignment explanation
Indices: 15742--16245 Score: 460
Period size: 167 Copynumber: 3.0 Consensus size: 166
15732 TTTCTTACCA
* * * * * *
15742 ATGAATGTCTTTTTCTTCATGTTTCTTAAAG-TAGACATTCAATTATAGTCTTTTTTAACCAAAA
1 ATGAATGACTTTTTCTACATCTTTC-TAAAGACAAACATTCAATTATAGTCTGTTTTAACCAAAA
* * *******
15806 TGTAAAATAATTCAAATTAAAATCAATTATGAGATGATAAAACAATTTAAAGCGAGTANNNNNNN
65 TGTAAAATAATTCAAATTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGCAATGATGC
*** **
15871 NNNTGCAGGAATGGGTGACTATAAATGGACTTTTCTTCT
130 TTTTAAAGGAAT-GGTGACTATAAATGGACTTTTCTT-T
* * * **
15910 CATTGTATGACTTTTTCTACA-CGTTTTCT-GAGATAAACATTCAATTATAGTCTGTTTTAAAGA
1 -A-TGAATGACTTTTTCTACATC--TTTCTAAAGACAAACATTCAATTATAGTCTGTTTTAACCA
* * * *
15973 AATATATAAAATAATTCAACTTAAAATCAATTAT-AAAGTTATAAAACTATTTAAAGCGAGCAAT
62 AA-ATGTAAAATAATTCAAATTAAAATCAATTATGAGA-TTATAAAACAATTTAAAGCGAGCAAT
16037 GATGCTTTTAAAGGAATGGTGACTATAAATGGACTTTTCTTT
125 GATGCTTTTAAAGGAATGGTGACTATAAATGGACTTTTCTTT
* * * * *
16079 ATGAATGCCTTTTTCTTCATCTTTCTAAAGGCAAACATTCCATTATTGTCTGTTTTAACCAAAAA
1 ATGAATGACTTTTTCTACATCTTTCTAAAGACAAACATTCAATTATAGTCTGTTTTAACC-AAAA
* * * * * * *
16144 TGTAAAA-ACATTCAAATAAAAATCAATTATGAGATTAGAAAATAATTTAAACCGAGAAATAAGG
65 TGTAAAATA-ATTCAAATTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGCAATGATG
* * * *
16208 CTTTTCAAGAAATGGGTGACTCTAAATGAACTTTTCTT
129 CTTTTAAAGGAAT-GGTGACTATAAATGGACTTTTCTT
16246 CTCAATGAAT
Statistics
Matches: 271, Mismatches: 52, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
166 6 0.02
167 101 0.37
168 29 0.11
169 4 0.01
170 70 0.26
171 61 0.23
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.36
Consensus pattern (166 bp):
ATGAATGACTTTTTCTACATCTTTCTAAAGACAAACATTCAATTATAGTCTGTTTTAACCAAAAT
GTAAAATAATTCAAATTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGCAATGATGCT
TTTAAAGGAATGGTGACTATAAATGGACTTTTCTTT
Found at i:16054 original size:171 final size:171
Alignment explanation
Indices: 15527--16271 Score: 590
Period size: 170 Copynumber: 4.4 Consensus size: 171
15517 NNNNNNNNNN
* *
15527 AGGCTTTTGAAA-GAATGGGTGAC-ATATATGGACTTTTCTTCTCAATGAATGGCTTTTTCTACA
1 AGGCTTTT-AAAGGAATGGGTGACTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACA
* * * * * * *
15590 TGTTTTAC-AAGGTAAACATTCAACTATAGTCTGTTTTAACTAAAAATATAAAAAAATTTAACTT
65 CGTTTT-CTAAGATAAACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAATAATTCAAATT
* * * ** *
15654 AAAA-CTAATTTTGGGGTTATAAAAAGATTAAAAGCGAGTAATA
129 AAAATC-AATTATGAGATTATAAAACTATTTAAAGCGAGTAATA
* * ********** * *
15697 AGGCTTTTGAAGAAATGGGTGACTNNNNNNNNNNTTTTCTTAC-CAATGAATGTCTTTTTCTTCA
1 AGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTT-CTCAATGAATGACTTTTTCTACA
* * * *
15761 TG-TTTCTTAA-AGTAGACATTCAATTATAGTCTTTTTTAACC-AAAATGTAAAATAATTCAAAT
65 CGTTTTC-TAAGA-TAAACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAATAATTCAAAT
* * ***
15823 TAAAATCAATTATGAGATGATAAAACAATTTAAAGCGAGTANNN
128 TAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATA
******* ** * *
15867 NNNNNNNTGCAGGAATGGGTGACTATAAATGGACTTTTCTTCTCATTGTATGACTTTTTCTACAC
1 AGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACAC
* ** * *
15932 GTTTTCTGAGATAAACATTCAATTATAGTCTGTTTTAAAGAAATATATAAAATAATTCAACTTAA
66 GTTTTCTAAGATAAACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAATAATTCAAATTAA
* * *
15997 AATCAATTAT-AAAGTTATAAAACTATTTAAAGCGAGCAATG
131 AATCAATTATGAGA-TTATAAAACTATTTAAAGCGAGTAATA
* * *
16038 ATGCTTTTAAAGGAAT-GGTGACTATAAATGGACTTTTCTT-T--ATGAATGCCTTTTTCTTCA-
1 AGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACAC
** * * *
16098 -TCTTTCTAAAGGCAAACATTCCATTATTGTCTGTTTTAACCAAAAATGTAAAA-ACATTCAAAT
66 GT-TTTCT-AAGATAAACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAATA-ATTCAAAT
* * * *
16161 AAAAATCAATTATGAGATTAGAAAA-TAATTTAAACCGAGAAATA
128 TAAAATCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATA
* * * * *
16205 AGGCTTTTCAAGAAATGGGTGACTCTAAATGAACTTTTCTTCTCAATGAAT-AGTTTATTCTACA
1 AGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTCTCAATGAATGACTTT-TTCTACA
16269 CGT
65 CGT
16272 NNNNNNNNNN
Statistics
Matches: 442, Mismatches: 109, Indels: 45
0.74 0.18 0.08
Matches are distributed among these distances:
165 1 0.00
166 7 0.02
167 104 0.24
168 24 0.05
169 6 0.01
170 166 0.38
171 132 0.30
172 1 0.00
173 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (171 bp):
AGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTCTCAATGAATGACTTTTTCTACAC
GTTTTCTAAGATAAACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAATAATTCAAATTAA
AATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATA
Found at i:16974 original size:170 final size:169
Alignment explanation
Indices: 16570--17148 Score: 501
Period size: 170 Copynumber: 3.4 Consensus size: 169
16560 NNNAATTTTA
* *
16570 AGATTATAAAACT-ATTAAAAGCGAGTAATAAGGCTTTTG-AAGAAATGTGTGACTATAATTAGA
1 AGATTATAAAA-TAATTTAAAGCGAGTAATAAGGCTTTTGAAAG-AATGGGTGACTATAA-TAGA
** * * * **
16633 CTTTTCTTGCCAATGAATGCCTTTTGGTTCATGTTTCTTGAGGTAGACATTCAAAAATAGTCTG-
63 CTTTTCTTGCCAATGAATTTCTTTT-CTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGT
* * * *
16697 TTTAACCAAAAATATAAAAAAATTGAACTTCAAATCAATTATG
127 TTTAACTAAAAATGTAAAAAAATTTAACTTAAAATCAATTATG
* * * * *********
16740 AGATTATAAAACAAGTTAATGCGAGTAATAAGGCTTTTGAAGGAATGNNNNNNNNNNAATAGACT
1 AGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATG-GGTGACTATAATAGACT
* *
16805 TTTCTTGCCAATGAATTTCTTTTCTTCACATTTCCCGAGGTAGACATTCAATTATAGTCTGTTTT
65 TTTCTTGCCAATGAATTTCTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTT
* *******
16870 AACTAAAAATGTAAACAAATTTAACTTAAAATCNNNNNNN
130 AACTAAAAATGTAAAAAAATTTAACTTAAAATCAATTATG
*** *
16910 NNNTTATAAAATAATTTAAACCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATATATAGACT
1 AGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATA-ATAGACT
* ** * *
16975 TTT-TTTCTCAATGAATGATT-TTTTCGACACGTTTTTCAAGGTA-AGCATTCAATTATAGTCTG
65 TTTCTTGC-CAATGAAT--TTCTTTTCTTCACGTTTCTCGAGGTAGA-CATTCAATTATAGTCTG
*
17037 TTTTAACT-AAAATGTAAAAAAATTTAACTTAAAACCAATT-TGG
126 TTTTAACTAAAAATGTAAAAAAATTTAACTTAAAATCAATTAT-G
* ** * * * *
17080 AGGTTATAAAACCACTAAAAGCGAGTAATAAGGCTTTT-AAAGGAATGAGTGACTATAAATGGAC
1 AGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAATGGGTGACTAT-AATAGAC
17144 TTTTC
64 TTTTC
17149 NNNNNNNNNN
Statistics
Matches: 319, Mismatches: 77, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
169 38 0.12
170 232 0.73
171 47 0.15
172 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.34
Consensus pattern (169 bp):
AGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGGGTGACTATAATAGACTT
TTCTTGCCAATGAATTTCTTTTCTTCACGTTTCTCGAGGTAGACATTCAATTATAGTCTGTTTTA
ACTAAAAATGTAAAAAAATTTAACTTAAAATCAATTATG
Found at i:17715 original size:170 final size:170
Alignment explanation
Indices: 17358--18388 Score: 813
Period size: 170 Copynumber: 6.1 Consensus size: 170
17348 NNNNNNNNNN
* * * * * *
17358 AAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTGTAAAACAATTTAATGCGAGTAATA
1 AAAATGT-AAAAAATTCAACTTAAAACCAATTATAAGATTATAAAACAATTAAAAGCGAGTAATA
* * * * *
17423 AGGCTTTTGAAGGAATGGGTCACTAT-AATGGACTTTTCTTCTCAGTGAATGGC-TTTTTCTACA
65 AGGCTTTTGAACGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAAT-GCTTTTTTCTTCA
* * * ****
17486 TGTTTC-TCATGGCA-AGCATTCAATTATAGTCTATTTTANNNN
129 TGTTTCTTGA-GGTAGA-CATTCAATTATAGTCTGTTTTAACCA
****** * * * * *
17528 NNNNNNTAAAAAAATTCAACTTAAAACCAATTTTAAGGTTCTAAAACCATTAAAAGC-AATAATA
1 AAAATGT-AAAAAATTCAACTTAAAACCAATTATAAGATTATAAAACAATTAAAAGCGAGTAATA
* * * *
17592 AGGCTTTTGAAGGAATGAGTAACTATAAATGGACTTTTCTTATCAGTGAATGCTTTTTTCTTCAT
65 AGGCTTTTGAACGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGCTTTTTTCTTCAT
* * * * *
17657 GTTTTTTGAGGTAAACATTCGATTATTGTCTGTTTTGACCA
130 GTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * * * * ****
17698 AAAATGTGAACAAATTCAACTTAAAACTAATTATGAGATTATAAAATAATTTAAAGCGAGTNNNN
1 AAAATGT-AAAAAATTCAACTTAAAACCAATTATAAGATTATAAAACAATTAAAAGCGAGTAATA
****** * * ** * *
17763 NNNNNNTTGAAAGAATGGGTGAC-ATATATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCAT
65 AGGCTTTTGAACGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGCTTTTTTCTTCAT
* ** *
17827 GTTTTTTGAGGTAGACATTTGATTATAGTCTGTTTTATCCA
130 GTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * * * * **********
17868 ATAATATAAAAGAACTCAACTTAAAATCAATTATAAGTTTATAAANNNNNNNNNNGCGAGTAATA
1 AAAATGTAAAA-AATTCAACTTAAAACCAATTATAAGATTATAAAACAATTAAAAGCGAGTAATA
* * * * * * *
17933 AGACTTTTGAACGAATGGGTGATTATAAATAGACTTCTCTTATCAAGGACTGCCTTTTTCTTCAT
65 AGGCTTTTGAACGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGCTTTTTTCTTCAT
* * * *
17998 ATTTCCTAAGGTAGACATTCAATTAGT-GCCTGTTTTAACCA
130 GTTTCTTGAGGTAGACATTCAATTA-TAGTCTGTTTTAACCA
* * * * * * *
18039 AAAATGTAAAGAAATTTAAATTAAAATCAATTATTAGATT-TAAAAAAATTTAAACCGAGTAATA
1 AAAATGTAAA-AAATTCAACTTAAAACCAATTATAAGATTATAAAACAATTAAAAGCGAGTAATA
* * * * *
18103 AGGCTTTTAAAGGAATGGGTAACTATAAATGAACTTTT-TCTATCAATGAATGCTTTTTTGTTCA
65 AGGCTTTTGAACGAATGGGTGACTATAAATGGACTTTTCT-TATCAATGAATGCTTTTTTCTTCA
* * *
18167 TATTTCTTGAGGTAGACATCCAATTATAGTCTTTTTTAACCA
129 TGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * * * * * * *
18209 AAAATATAAAAAATTTCAACTTAGAACCCATTCTGAGGTTATAAAACCATTAAAAGCAAGTAATA
1 AAAATGTAAAAAA-TTCAACTTAAAACCAATTATAAGATTATAAAACAATTAAAAGCGAGTAATA
* ** * * *
18274 AGGCTTTTGAACGAATTGGTGACTATAAAT-GAGCTTTTCTTGCCAATTAATACTTTTTTCATCA
65 AGGCTTTTGAACGAATGGGTGACTATAAATGGA-CTTTTCTTATCAATGAATGCTTTTTTCTTCA
*
18338 TGTTTCTTGAGCTAGACATTCAATTATAGTCTGTTTTAACCA
129 TGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCA
18380 AAAATGTAA
1 AAAATGTAA
18389 NNNNNNNNNN
Statistics
Matches: 663, Mismatches: 183, Indels: 29
0.76 0.21 0.03
Matches are distributed among these distances:
169 40 0.06
170 392 0.59
171 228 0.34
172 3 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (170 bp):
AAAATGTAAAAAATTCAACTTAAAACCAATTATAAGATTATAAAACAATTAAAAGCGAGTAATAA
GGCTTTTGAACGAATGGGTGACTATAAATGGACTTTTCTTATCAATGAATGCTTTTTTCTTCATG
TTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCA
Found at i:18273 original size:341 final size:335
Alignment explanation
Indices: 17358--18388 Score: 921
Period size: 341 Copynumber: 3.0 Consensus size: 335
17348 NNNNNNNNNN
* * * *
17358 AAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTGTAAAACAATTTAATGCGAGTAATA
1 AAAATGTAAAAAATTTAAA-TTAAAATCAATTATGAGATTATAAAAAAATTTAAAGCGAGTAATA
* * * *
17423 AGGCTTTTGAAGGAATGGGTCACTAT-AATGGACTTTTCTTCTCAGTGAATGGCTTTTTCTACAT
65 AGGCTTTTAAAGGAATGGGTAACTATAAATGGACTTTTC-T-TCAATGAAT-GCTTTTTCTTCAT
* * ********
17487 GTTTC-TCATGGCA-AGCATTCAATTATAGTCTATTTTANNNNNNNNNNTA-AAAAAATTCAACT
127 GTTTCTTGA-GGTAGA-CATTCAATTATAGTCTATTTTA--ACCAAAAATATAAAAAATTCAACT
* * * * *
17549 TAAAACCAATTTTAAGGTTCTAAAACCATTAAAAGCAA-TAATAAGGCTTTTGAAGGAATGAGTA
188 TAAAACCAATTATAAGGTTATAAAACCATTAAAAGCAAGTAATAAGGCTTTTGAACGAATGGGTG
* *
17613 ACTATAAATGGACTTTTCTTATC-AGTGAATGCTTTTTTCTTCATGTTTTTTGAGGTAAACATTC
253 ACTATAAAT-GACTTTTCTTATCAAG-GAATGCTTTTTTCTTCATGTTTCTTGAGGTAGACATTC
* *
17677 GATTATTGTCTGTTTTGACCA
316 AATTA-TGTCTGTTTTAACCA
* * * * **
17698 AAAATGTGAACAAATTCAACTTAAAA-CTAATTATGAGATTATAAAATAATTTAAAGCGAGTNNN
1 AAAATGT-AAAAAATTTAAATTAAAATC-AATTATGAGATTATAAAAAAATTTAAAGCGAGT-AA
******* * * * *
17762 NNNNNNNTTGAAA-GAATGGGTGAC-ATATATGGACTTTTCTTGCCAATGAATACCTTTTTCTTC
63 TAAGGCTTTTAAAGGAATGGGTAACTATAAATGGACTTTTCTT--CAATGAAT-GCTTTTTCTTC
* ** * * * *
17825 ATGTTTTTTGAGGTAGACATTTGATTATAGTCTGTTTTATCCAATAATATAAAAGAACTCAACTT
125 ATGTTTCTTGAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAA-AATTCAACTT
* * ********** * *
17890 AAAATCAATTATAAGTTTATAAANNNNNNNNNNGCGAGTAATAAGACTTTTGAACGAATGGGTGA
189 AAAACCAATTATAAGGTTATAAAACCATTAAAAGCAAGTAATAAGGCTTTTGAACGAATGGGTGA
* * * * * * *
17955 TTATAAATAGACTTCTCTTATCAAGGACTGCCTTTTTCTTCATATTTCCTAAGGTAGACATTCAA
254 CTATAAAT-GACTTTTCTTATCAAGGAATGCTTTTTTCTTCATGTTTCTTGAGGTAGACATTCAA
*
18020 TTAGTGCCTGTTTTAACCA
318 TTA-TGTCTGTTTTAACCA
* *
18039 AAAATGTAAAGAAATTTAAATTAAAATCAATTATTAGATT-TAAAAAAATTTAAACCGAGTAATA
1 AAAATGTAAA-AAATTTAAATTAAAATCAATTATGAGATTATAAAAAAATTTAAAGCGAGTAATA
* *
18103 AGGCTTTTAAAGGAATGGGTAACTATAAATGAACTTTTTCTATCAATGAATGCTTTTTTGTTCAT
65 AGGCTTTTAAAGGAATGGGTAACTATAAATGGAC-TTTTCT-TCAATGAATGC-TTTTTCTTCAT
* * * *
18168 ATTTCTTGAGGTAGACATCCAATTATAGTCTTTTTTAACCAAAAATATAAAAAATTTCAACTTAG
127 GTTTCTTGAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAAAA-TTCAACTTAA
* * * *
18233 AACCCATTCTGAGGTTATAAAACCATTAAAAGCAAGTAATAAGGCTTTTGAACGAATTGGTGACT
191 AACCAATTATAAGGTTATAAAACCATTAAAAGCAAGTAATAAGGCTTTTGAACGAATGGGTGACT
** ** * * *
18298 ATAAATGAGCTTTTCTTGCCAATTAATACTTTTTTCATCATGTTTCTTGAGCTAGACATTCAATT
256 ATAAATGA-CTTTTCTTATCAAGGAATGCTTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATT
18363 ATAGTCTGTTTTAACCA
320 AT-GTCTGTTTTAACCA
18380 AAAATGTAA
1 AAAATGTAA
18389 NNNNNNNNNN
Statistics
Matches: 533, Mismatches: 136, Indels: 43
0.75 0.19 0.06
Matches are distributed among these distances:
338 3 0.01
339 13 0.02
340 175 0.33
341 332 0.62
342 9 0.02
343 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (335 bp):
AAAATGTAAAAAATTTAAATTAAAATCAATTATGAGATTATAAAAAAATTTAAAGCGAGTAATAA
GGCTTTTAAAGGAATGGGTAACTATAAATGGACTTTTCTTCAATGAATGCTTTTTCTTCATGTTT
CTTGAGGTAGACATTCAATTATAGTCTATTTTAACCAAAAATATAAAAAATTCAACTTAAAACCA
ATTATAAGGTTATAAAACCATTAAAAGCAAGTAATAAGGCTTTTGAACGAATGGGTGACTATAAA
TGACTTTTCTTATCAAGGAATGCTTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATGTCT
GTTTTAACCA
Found at i:19389 original size:171 final size:169
Alignment explanation
Indices: 19084--19757 Score: 702
Period size: 171 Copynumber: 4.0 Consensus size: 169
19074 NNNNNNNNNN
** * * * * *
19084 TTATAAAATAATTTAAAGGGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATATATGAACTTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTAGAAATGGACTTTT
* ** * * * *
19149 CTTCTCAATGAATAAATTTTTCTACAGGTTTTTCAAGGTACG-CATTCAATTATTGTCTGTTTTA
66 CTTCTCAACGAAT-GCTTTTTCTTCACGTTTTTCAAGGTA-GACATTCAATTATAGTCTGTTTCA
19213 ACTAAAAATGTAAAAAAATTCAACTTAAAACGAATTTTGAGG
129 ACTAAAAATGTAAAAAAATTCAACTTAAAAC-AATTTTGAGG
* *
19255 TTACAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAGGAATGAGTGACTAGAAATGGACTTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTAGAAATGGACTTTT
*
19320 CTTAC-CAACGAATGCCTTTTTCTTCACGTTTCTT-GAGGTAGACATTCAATTATAGTCTGTTTC
66 CTT-CTCAACGAATG-CTTTTTCTTCACGTTT-TTCAAGGTAGACATTCAATTATAGTCTGTTTC
* *******
19383 AACTAAAAATGTAAACAAATTCAACTTAAAATCAATNNNNNNN
128 AACTAAAAATGTAAAAAAATTCAACTTAAAA-CAATTTTGAGG
*** ** * * * * *
19426 NNNTAAAATAATTTAAAGCGAGTAACAAGGCTTTTGAAA-GAATGGGTGAC-ATATAGGGACTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGTGACTAGAAATGGACTTT
* * *
19489 TCTTCTCAACGAATGGCTTTTT-TTGCACGTTTTTCAAGATAGGCATTCAATTATAGTTTG-TTC
65 TCTTCTCAACGAAT-GCTTTTTCTT-CACGTTTTTCAAGGTAGACATTCAATTATAGTCTGTTTC
* *
19552 TAACTAAAAATGTAAAAAAATTTAACTTATAACCAATTTTGAGG
128 -AACTAAAAATGTAAAAAAATTCAACTTA-AAACAATTTTGAGG
* *
19596 TTATAAAACCATTAAAAGTGAGTAATAAGGCTTTTAAAGGAAT-GGTGACTAGAAATGGTCTTTT
1 TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTAGAAATGGACTTTT
* * * * * * *
19660 CTTGC-CAATGAATGTTTTTTCTTCATGTTTCTT-GACGTAGACAGTCAATTATAGTCTGTTTTA
66 CTT-CTCAACGAATGCTTTTTCTTCACGTTT-TTCAAGGTAGACATTCAATTATAGTCTGTTTCA
19723 ACTAAAAATGTAAAAAAATTCAACTTAAAATCAAT
129 ACTAAAAATGTAAAAAAATTCAACTTAAAA-CAAT
19758 NNNNNNNNNN
Statistics
Matches: 409, Mismatches: 75, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
168 2 0.00
169 79 0.19
170 144 0.35
171 177 0.43
172 7 0.02
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (169 bp):
TTATAAAACCATTAAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTAGAAATGGACTTTT
CTTCTCAACGAATGCTTTTTCTTCACGTTTTTCAAGGTAGACATTCAATTATAGTCTGTTTCAAC
TAAAAATGTAAAAAAATTCAACTTAAAACAATTTTGAGG
Done.