Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403111.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_778.0, 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: 79211
ACGTcount: A:0.22, C:0.07, G:0.08, T:0.22
Warning! 33122 characters in sequence are not A, C, G, or T
Found at i:1716 original size:171 final size:169
Alignment explanation
Indices: 1539--1958 Score: 418
Period size: 171 Copynumber: 2.5 Consensus size: 169
1529 NNNNNNNNNN
*
1539 AAGTATTCAATGGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTGTTACTCGC
1 AAGTATTCAATGGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGC
* * *
1604 TTTAAATAGTTTT-CTAATCTAATAACTGATTTTAAGTT-ATTTTGTTTTACATTTTTAGTT-AA
66 TTTAAATGGTTTTAC-AATCTAATAACTGATTTTAA-TTAAATTT-TTTTACATTTTTACTTCAA
* * * * **
1666 AACAGACTATAATTGATTGTCTATCC-CAAGAAACGTG-ATGAAAA
128 AA-A-ACTATAATTGAATATCT-GCCTCAA-AAACATGAAAAAAAA
* * * * ********** *
1710 AAGTATTCATTGGTAAGAAAAGTCCATTTATAGACACCTATTCCTTCAAAAGNNNNNNNNNNCAC
1 AAGTATTCAATGGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGC
* * *
1775 TTTAAATGGTTTTACAATCTCATAATTGATTTTAATTAAATTTTTTTACATTTTTCCTTCAAAAA
66 TTTAAATGGTTTTACAATCTAATAACTGATTTTAATTAAATTTTTTTACATTTTTACTTCAAAAA
* *
1840 ACTATACTTGAATATCTGCCTTGAAAAACATGAAAAAAAA
131 ACTATAATTGAATATCTGCC-TCAAAAACATGAAAAAAAA
* * * * *
1880 AAGCATTCAATGGCAAGAAAAGTCTATTTATAGTCTCCCATTCCTCCAAAAGCCTTATTACTCGT
1 AAGTATTCAATGGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGC
1945 TTTAAATGGTTTTA
66 TTTAAATGGTTTTA
1959 NNNNNNNNNN
Statistics
Matches: 194, Mismatches: 49, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
168 2 0.01
169 20 0.10
170 83 0.43
171 88 0.45
172 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.36
Consensus pattern (169 bp):
AAGTATTCAATGGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGC
TTTAAATGGTTTTACAATCTAATAACTGATTTTAATTAAATTTTTTTACATTTTTACTTCAAAAA
ACTATAATTGAATATCTGCCTCAAAAACATGAAAAAAAA
Found at i:8747 original size:170 final size:167
Alignment explanation
Indices: 8339--8769 Score: 422
Period size: 170 Copynumber: 2.5 Consensus size: 167
8329 AAGAAAAAAG
* * * * *
8339 CATTCATTGGCAAGAACAGTTCATTTATAGTCACCCATTTCTTTAAAACCCTTATTACTCGCTTT
1 CATTCATTAGAAAGAAAAGTCCATTTATAGTCACCCATTTCTTTAAAAGCCTTATTACT--CTTT
* * * * *
8404 ACATGGTTTTATAATCTCATAGTTGATTTTAAGTTAAATATTTTAGATTTTTCATTAAAACAGAC
64 AAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATATTTTACATTTTTCATCAAAACAGAA
* * *
8469 TATAATTAAGTGCCTACCCAGAGAAACATGTAGAAAATCC
129 AATAATTAAGT-CCTACCCAGAGAAACATGTAAAAAATCA
* * * * * *
8509 CATTTATTTGAAAGAAAAGTCAATTTATAGTCTCTCATTTCTTCAAAAGCCTTGA-TACATGCTT
1 CATTCATTAGAAAGAAAAGTCCATTTATAGTCACCCATTTCTTTAAAAGCCTT-ATTAC-T-CTT
** * * * *
8573 TAAATAATTTTATAAT-TCCATAATTGATTTTACGTTGAATTTTTTTACATTTTTGATCAAAACA
63 TAAATGGTTTTATAATCT-CATAATTGATTTTAAGTT-AAATATTTTACATTTTTCATCAAAACA
* * *
8637 GAAAATAATTGAAGT-CTGTCTCA-AGAAACGTGTAAAAAAAT-A
126 GAAAATAATT-AAGTCCT-ACCCAGAGAAACATGT-AAAAAATCA
* * * *
8679 TATTCGTTAGTAAGAAAAGTCCATTTATAATCACCCATTTCTTTAAAAGCCTTATTACTCTTTTT
1 CATTCATTAGAAAGAAAAGTCCATTTATAGTCACCCATTTCTTTAAAAGCCTTATTACTC--TTT
8744 AAATGGTTTTATAATCTCATAATTGA
64 AAATGGTTTTATAATCTCATAATTGA
8770 NNNNNNNNNN
Statistics
Matches: 211, Mismatches: 39, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
168 1 0.00
169 3 0.01
170 161 0.76
171 42 0.20
172 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (167 bp):
CATTCATTAGAAAGAAAAGTCCATTTATAGTCACCCATTTCTTTAAAAGCCTTATTACTCTTTAA
ATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATATTTTACATTTTTCATCAAAACAGAAAA
TAATTAAGTCCTACCCAGAGAAACATGTAAAAAATCA
Found at i:17522 original size:171 final size:170
Alignment explanation
Indices: 17221--18111 Score: 672
Period size: 171 Copynumber: 5.2 Consensus size: 170
17211 CATGACGACC
*** * *
17221 AAAGCATTCATTGGTGAGAAAAGTCCATTTATAGTCTCTCATTCCTTCAAAAACCTTATTACTCG
1 AAAGCATTCATTGACAAGAAAAGTTCATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCG
* * * *
17286 CTTCAAATGGTTTTATAATCAAATAATTGATTTTAAGTT-AACTTTTTTTACATTTTTGGTTAAA
66 CTTTAAATGGTTTTATAATCTAATAATTAATTTTAAGTTGAA--TTTTTTACATTTTTGATTAAA
* *
17350 ACATATAATAATTGAATGTTTATCTCAAGAAACGTGAAGAAA
129 ACAGATAATAATTGAATGTCTATCTCAAGAAACGTGAAGAAA
* * * *
17392 AAAACATTCATTGACAAGAAAAGTTCATTTATAGTCTCCCATTCCTTCAAAAACCTTATCACTCG
1 AAAGCATTCATTGACAAGAAAAGTTCATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCG
* * * * *
17457 CTTTAAATGGTTTTATAATCTCATATTTAATTTTAAGTTGAATATTTTAGATTTTTTTATTAAAA
66 CTTTAAATGGTTTTATAATCTAATAATTAATTTTAAGTTGAATTTTTTACA-TTTTTGATTAAAA
* * * ** * *
17522 CGGACT-ATAATT-AAGTGTATACCTTGAGAAACATGTAGAAA
130 CAGA-TAATAATTGAA-TGTCTATCTCAAGAAACGTGAAGAAA
*** * * *********
17563 ATCCCATTTATTTGA-AA-AAAAG-TCTATTTATAGTCTCTTATTCCTTCAAAAGCNNNNNNNNN
1 AAAGCATTCA-TTGACAAGAAAAGTTC-ATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACT
* * ** * * * *
17625 NGCTTTAAATAGTTTTATAATCCCATAATTTATTTTAAGCTGAATGTTTTTACATTTTGGATCAA
64 CGCTTTAAATGGTTTTATAATCTAATAATTAATTTTAAGTTGAAT-TTTTTACATTTTTGATTAA
* * *
17690 AACAAATAATAATTGAATGTCTATCTTAAAAAACGTGTAA-AAA
128 AACAGATAATAATTGAATGTCTATCTCAAGAAACGTG-AAGAAA
* * ** *
17733 AATGCATTCATT-AGTAAGAAAAG-TCTATTTATAGTGACTCATTTCTTCAAAAGCCTTATTACT
1 AAAGCATTCATTGA-CAAGAAAAGTTC-ATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACT
** * * *
17796 CTTTTTAAATGGTTTTATAATCTAATAATTAATTTTAACTTAAATTTTTTTGCACTTTTTG-TTA
64 CGCTTTAAATGGTTTTATAATCTAATAATTAATTTTAAGTTGAA-TTTTTTACA-TTTTTGATTA
* * *
17860 AAACAGATTATAATTGATTGTCTATCTCAAGAAACCTGAAGAAA
127 AAACAGATAATAATTGAATGTCTATCTCAAGAAACGTGAAGAAA
* * * * * * *******
17904 AAAGCATTCATTGACAAAAAAAGTCCATTTATAGACACCCATTCCTTTAAAAGCCTTANNNNNNN
1 AAAGCATTCATTGACAAGAAAAGTTCATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCG
*** * * * * * * * * *
17969 NNNTAAATGATTTTCTAATCTCATAATTGATTTTGAGTTTCATTTTTTTACATATTTCATTAAAA
66 CTTTAAATGGTTTTATAATCTAATAATTAATTTTAAG-TTGAATTTTTTACATTTTTGATTAAAA
* * * *
18034 AAGACT-ATAATTGAATGTTTACCAT-AAGAAACATGAAGAAA
130 CAGA-TAATAATTGAATGTCTATC-TCAAGAAACGTGAAGAAA
* ** *
18075 AAAGCATTCAATGGTAAGAAAAGTCCATTTATAGTCT
1 AAAGCATTCATTGACAAGAAAAGTTCATTTATAGTCT
18112 NNNNNNNNNN
Statistics
Matches: 562, Mismatches: 136, Indels: 44
0.76 0.18 0.06
Matches are distributed among these distances:
168 1 0.00
169 5 0.01
170 128 0.23
171 408 0.73
172 20 0.04
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.38
Consensus pattern (170 bp):
AAAGCATTCATTGACAAGAAAAGTTCATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCG
CTTTAAATGGTTTTATAATCTAATAATTAATTTTAAGTTGAATTTTTTACATTTTTGATTAAAAC
AGATAATAATTGAATGTCTATCTCAAGAAACGTGAAGAAA
Found at i:24961 original size:171 final size:170
Alignment explanation
Indices: 24472--25824 Score: 1118
Period size: 171 Copynumber: 7.9 Consensus size: 170
24462 NAATCAAAGG
* * * *
24472 CTATAAATAGACATTTCTTGCCAATTAATG-TGTTTTTCTTCAAGTTTCTTGAGGT-GAACATTC
1 CTATAAATA-ACTTTTCTTGTCAATTAATGCT-TTTTTCTTCACGTTTCTTAAGGTAGAA-ATTC
* * ** * * *
24535 AATTATTGTCTGTTTTAATCAAATGTGTAAAAAAAAATGAACTTAAAATCAATTATTAGATTATA
63 AATTATAGTCTGTTTTAATAAAAAATGT-AAAAACATTCAACTTAAAATCAATTATTAGATTATA
** * *
24600 AAAATATTTAAAGAGAGTAATAAGGCTTTTGAAGGAATAGGG-GG
127 AAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGGAGA
* * * ** * * * * *
24644 CTATAAATGGATTTTTCTTGTCAATGAATAATTTTTTGTTTAAGTTTCCTAGGGT-GAACATTCA
1 CTATAAAT-AACTTTTCTTGTCAATTAATGCTTTTTTCTTCACGTTTCTTAAGGTAGAA-ATTCA
* * * *
24708 ATTATTA-TCTGTTTTAATCAAAAATATAAAAA-AATCAACTTAAAATCAATTCTTAGATTATAA
64 ATTA-TAGTCTGTTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAA
* * *
24771 AACCATTTAAAGTGAGTAATAAGGATTTTGAAGGAATGGGTGA
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
*
24814 CTATAAATCAAATTTTCTTGTCAATTAATGCTTTTTTCTTCACGTTT-TTGAAGGTAGATAATT-
1 CTATAAAT-AACTTTTCTTGTCAATTAATGCTTTTTTCTTCACGTTTCTT-AAGGTAGA-AATTC
* *
24877 AATTATAGTCTATTTTAACAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAA
63 AATTATAGTCTGTTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAA
* * *
24942 AATCATTTAAAACGAGTAATAAGGCTTTTGAAGGAAT-AGATGA
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGA-GA
* * * * * ** * *
24985 CTATAAATAGAATTTT-TTTTACTAATGAATGAGTTTTTT-TACACGTTTCTCGAGATAG-ACTT
1 CTATAAATA-ACTTTTCTTGT-C-AATTAATG-CTTTTTTCTTCACGTTTCTTAAGGTAGAAATT
* * * * *
25047 CAATTATTGTCTGTTTTGATAAAAAATGTAAAAACAATCAACGTAAAATCAATTATTGGATTATA
62 CAATTATAGTCTGTTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATA
* * * *
25112 AAACCATTTAAAGC-ATGTAACATGGCTTTT-AAGTGACTGAGAGA
127 AAACCATTTAAAGCGA-GTAATAAGGCTTTTGAAG-GAATGGGAGA
* * * * * * * ** * ** *
25156 TTATAAATAGACTTTTCTT-TTAGCTAAATGGATTTTTT-TACATGTTTCTCGAGGCAGGCACTC
1 CTATAAATA-ACTTTTCTTGTCA-ATTAAT-GCTTTTTTCTTCACGTTTCTTAAGGTAGAAATTC
* * * * *
25219 AATTATAGTTTGTTTTAATGAAAAATCT-AAAATATTCAACTTAAAATCAATTATGAGATTATAA
63 AATTATAGTCTGTTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAA
* * * *
25283 AACCGTTTAAAGCGAGTAATAAGGGTTTTAAAGGAATGGGTGA
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * *
25326 CTATAAATGGACTTTTCTTG-CTAATGAATAG-TTTTTTCTTCATGTTTCTTAAGATAGACATTC
1 CTATAAAT-AACTTTTCTTGTC-AATTAAT-GCTTTTTTCTTCACGTTTCTTAAGGTAGAAATTC
* * * *
25389 AATTATTGTCTGTTTTAA-AGAAAAATAT-TAAACAATTCAACTTAAAATTAATTATTAGATTAT
63 AATTATAGTCTGTTTTAATA-AAAAATGTAAAAAC-ATTCAACTTAAAATCAATTATTAGATTAT
* * * *
25452 TAAACTATTTAAAGCGAGTAGTAAGGCTTTTGAGGGAATGGGAGA
126 AAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * * * * *
25497 TTATAAATTTACTTTTCTT-ACCATTGAATGCATTTTTCTTCATGTTTCTTAAGGCAGACATTGA
1 CTATAAA-TAACTTTTCTTGTCAATT-AATGCTTTTTTCTTCACGTTTCTTAAGGTAGAAATTCA
* * * * * *
25561 ATTTTAGTCTTTTTTTAATGAACAATGTAAAAAAATTCAAC-TAAAATCAATTATGAGATTATAA
64 ATTATAGTC-TGTTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAA
* * * *
25625 AACCATTTAAATCAAGTAATAAGGCTTTTGAAAGAATGAGAGA
128 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
* * * * * ** *
25668 CTATAAATTGACTTTTCTT-CCCATTGATTTCTTTTTTCTTCACGTTTCTTAAGACAGACATTCA
1 CTATAAA-TAACTTTTCTTGTCAATT-AATGCTTTTTTCTTCACGTTTCTTAAGGTAGAAATTCA
* * * * * * *
25732 ACTATAGTCTTTTTTAATGAAAAATATAAAAA-ATTCAATTTAAAATCAACTATGAGATTATAAA
64 ATTATAGTCTGTTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAAA
*
25796 ACCATTTAAATCGAGTAATAAGGCTTTTG
129 ACCATTTAAAGCGAGTAATAAGGCTTTTG
25825 NNNNNNNNNN
Statistics
Matches: 977, Mismatches: 165, Indels: 80
0.80 0.14 0.07
Matches are distributed among these distances:
169 19 0.02
170 370 0.38
171 458 0.47
172 118 0.12
173 12 0.01
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (170 bp):
CTATAAATAACTTTTCTTGTCAATTAATGCTTTTTTCTTCACGTTTCTTAAGGTAGAAATTCAAT
TATAGTCTGTTTTAATAAAAAATGTAAAAACATTCAACTTAAAATCAATTATTAGATTATAAAAC
CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGA
Found at i:25258 original size:341 final size:333
Alignment explanation
Indices: 24504--25823 Score: 1147
Period size: 341 Copynumber: 3.9 Consensus size: 333
24494 AATTAATGTG
* * * * * * * **
24504 TTTTTCTTCAAGTTTCTTGAGG-TGAACATTCAATTATTGTCTGTTTTAATCAAATGTGTAAAAA
1 TTTTT-TTCATGTTTCTTGAGGCAG-ACAATCAATTATAGTTTATTTTAATGAAAAATGT-AAAA
* * * **
24568 AAAATGAACTTAAAATCAATTATTAGATTATAAAAATATTTAAAGA-GAGTAATAAGGCTTTTGA
63 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAA-ACGAGTAATAAGGCTTTTGA
** * *
24632 AGGAATAGGGGGCTATAAATGGATTTTTCTTGTC-AATGAATAATTTTTTGTTTA-AGTTTC-CT
127 AGGAATAGATGACTATAAATGGATTTTT-TT-TCTAATGAAT-A-GTTTT-TTTACAGTTTCTC-
* * * *
24694 AGGGT-GAACATTCAATTATTATCTGTTTTAATCAAAAATATAAAAA-AATCAACTTAAAATCAA
186 AAGATAG-ACATTCAATTATTGTCTGTTTT-ATAAAAAATATAAAAACAATCAACTTAAAATCAA
* * * * *
24757 TTCTTAGATTATAAAACCATTTAAAGTGAGTAATAAGGATTTTGAAGGAATGGGTGACTATAAAT
249 TTATTAGATTATAAAACCATTTAAAG-CAGTAATAAGGCTTTT-AAGGAATGGGAGATTATAAAT
* * * * **
24822 CAAATTTTCTTGTCAATTAATGCT
312 -AACTTTTCTT-TTACTAAATGGA
* * * * * **
24846 TTTTTCTTCACGTTT-TTGAAGGTAGATAATTAATTATAGTCTATTTTAACAAAAAATGTAAAAA
1 TTTTT-TTCATGTTTCTTG-AGGCAGACAATCAATTATAGTTTATTTTAATGAAAAATGTAAAAA
* * *
24910 CATTCAACTTAAAATCAATTATTAGATTATAAAATCATTTAAAACGAGTAATAAGGCTTTTGAAG
64 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTTGAAG
* *
24975 GAATAGATGACTATAAATAGAATTTTTTTTACTAATGAATGAGTTTTTTTACACGTTTCTCGAGA
129 GAATAGATGACTATAAAT-GGATTTTTTTT-CTAATGAAT-AGTTTTTTTACA-GTTTCTCAAGA
* *
25040 TAGAC-TTCAATTATTGTCTGTTTTGATAAAAAATGTAAAAACAATCAACGTAAAATCAATTATT
190 TAGACATTCAATTATTGTCTGTTTT-ATAAAAAATATAAAAACAATCAACTTAAAATCAATTATT
* * * * *
25104 GGATTATAAAACCATTTAAAGCATGTAACATGGCTTTTAAGTGACTGAGAGATTATAAATAGACT
254 AGATTATAAAACCATTTAAAGCA-GTAATAAGGCTTTTAAG-GAATGGGAGATTATAAATA-ACT
25169 TTTCTTTTAGCTAAATGGA
316 TTTCTTTTA-CTAAATGGA
* * * * * *
25188 TTTTTTTACATGTTTCTCGAGGCAGGCACTCAATTATAGTTTGTTTTAATGAAAAATCT-AAAAT
1 TTTTTTT-CATGTTTCTTGAGGCAGACAATCAATTATAGTTTATTTTAATGAAAAATGTAAAAAA
* * * *
25252 ATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGGTTTTAAAGG
65 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTTGAAGG
* * * * * *
25317 AATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATAGTTTTTTCTTCATGTTTCTTAAGATA
130 AATAGATGACTATAAATGGA-TTTTTTTTCTAATGAATAGTTTTTT-TACA-GTTTCTCAAGATA
* * *
25382 GACATTCAATTATTGTCTGTTTTAAAGAAAAATAT-TAAACAATTCAACTTAAAATTAATTATTA
192 GACATTCAATTATTGTCTGTTTTATA-AAAAATATAAAAACAA-TCAACTTAAAATCAATTATTA
* * * * *
25446 GATTATTAAACTATTTAAAGCGAGTAGTAAGGCTTTTGAGGGAATGGGAGATTATAAATTTACTT
255 GATTATAAAACCATTTAAAGC-AGTAATAAGGCTTTT-AAGGAATGGGAGATTATAAA-TAACTT
** * * *
25511 TTCTTACCATTGAATGCA
317 TTCTT-TTACTAAATGGA
* * * * * *
25529 TTTTTCTTCATGTTTCTTAAGGCAGACATTGAATTTTAGTCTTTTTTTAATGAACAATGTAAAAA
1 TTTTT-TTCATGTTTCTTGAGGCAGACAATCAATTATAGT-TTATTTTAATGAAAAATGTAAAAA
* * *
25594 AATTCAAC-TAAAATCAATTATGAGATTATAAAACCATTTAAATCAAGTAATAAGGCTTTTGAAA
64 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTTGAAG
* * * * * * ** * *
25658 GAATGAGA-GACTATAAATTGACTTTTCTTCCCATTGATTTCTTTTTTCTTCACGTTTCTTAAGA
129 GAAT-AGATGACTATAAATGGA-TTTTTTTTCTAATGAATAGTTTTTT-TACA-GTTTCTCAAGA
* * * * * * * * *
25722 CAGACATTCAACTATAGTCTTTTTTAATGAAAAATATAAAAA-ATTCAATTTAAAATCAACTATG
190 TAGACATTCAATTATTGTCTGTTTT-ATAAAAAATATAAAAACAATCAACTTAAAATCAATTATT
*
25786 AGATTATAAAACCATTTAAATCGAGTAATAAGGCTTTT
254 AGATTATAAAACCATTTAAAGC-AGTAATAAGGCTTTT
25824 GNNNNNNNNN
Statistics
Matches: 810, Mismatches: 136, Indels: 65
0.80 0.13 0.06
Matches are distributed among these distances:
339 8 0.01
340 42 0.05
341 399 0.49
342 340 0.42
343 21 0.03
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (333 bp):
TTTTTTTCATGTTTCTTGAGGCAGACAATCAATTATAGTTTATTTTAATGAAAAATGTAAAAAAA
TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTTGAAGGA
ATAGATGACTATAAATGGATTTTTTTTCTAATGAATAGTTTTTTTACAGTTTCTCAAGATAGACA
TTCAATTATTGTCTGTTTTATAAAAAATATAAAAACAATCAACTTAAAATCAATTATTAGATTAT
AAAACCATTTAAAGCAGTAATAAGGCTTTTAAGGAATGGGAGATTATAAATAACTTTTCTTTTAC
TAAATGGA
Found at i:25608 original size:512 final size:513
Alignment explanation
Indices: 24532--25823 Score: 1286
Period size: 512 Copynumber: 2.5 Consensus size: 513
24522 GAGGTGAACA
* ** * * * *
24532 TTCAATTATTGTCTGTTTTAATCAAATGTGTAAAAAAAAATGAACTTAAAATCAATTATTAGATT
1 TTCAATTATTGTCTGTTTTAATAAAAAATGT-AAAAACAATCAACGTAAAATCAATTATGAGATT
** * * * * * *
24597 ATAAAAATATTTAAAG-AGAGTAATAAGGCTTTTGAAGGAAT-AGGGGGCTATAAATGGATTTTT
65 ATAAAACCATTTAAAGCA-AGTAACAAGGCTTTTGAAAGAATGA-GAGACTATAAATAGACTTTT
* * * * * ** * * *** * *
24660 CTTGTCAATGAAT-AATTTTTTGTTTAAGTTTC-CTAGGGTGAACATTCAATTATTA-TC-TGTT
128 CTT-ACCATAAATGGATTTTTTCTACACGTTTCTCAAGACAG-ACACTCAACTA-TAGTCTTGTT
* * * * *
24721 TTAATCAAAAATATAAAAAAATCAACTTAAAATCAATTCTTAGATTATAAAACCATTTAAAGTGA
190 TTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
* *
24786 GTAATAAGGATTTTGAAGGAATGGGTGACTATAAATCAAATTTTCTTGTCAATTAATGCTTTTTT
255 GTAATAAGGATTTTAAAGGAATGGGTGACTATAAATCAAATTTTCTTGTCAATGAATGCTTTTTT
*
24851 CTTCACGTTTTTGAAGGTAGATAATTAATTATAGTCTATTTTAACAAAAAATGTAAAAACATTCA
320 CTTCACGTTTTTGAAGATAGATAATTAATTATAGTCTATTTTAACAAAAAATGTAAAAACATTCA
24916 ACTTAAAATCAATTATTAGATTATAAAATCATTTAAAACGAGTAATAAGGCTTTTGAAGGAATAG
385 ACTTAAAATCAATTATTAGATTATAAAATCATTTAAAACGAGTAATAAGGCTTTTGAAGGAATAG
* * * * *
24981 ATGACTATAAATAGAATTTTTTTTACTAATGAATGAGTTTTTTTACACGTTTCTCGAGATAGAC
450 ATGACTATAAATAGAACTTTTCTTACCAATGAATGAGTTTTTTTACACGTTTCTCAAGACAGAC
*
25045 TTCAATTATTGTCTGTTTTGATAAAAAATGTAAAAACAATCAACGTAAAATCAATTATTG-GATT
1 TTCAATTATTGTCTGTTTTAATAAAAAATGTAAAAACAATCAACGTAAAATCAATTA-TGAGATT
* * * * *
25109 ATAAAACCATTTAAAGCATGTAACATGGCTTTT-AAGTGACTGAGAGATTATAAATAGACTTTTC
65 ATAAAACCATTTAAAGCAAGTAACAAGGCTTTTGAA-AGAATGAGAGACTATAAATAGACTTTTC
* * * * * *
25173 TTTTAGC-TAAATGGATTTTTT-TACATGTTTCTCGAGGCAGGCACTCAATTATAGT-TTGTTTT
129 --TTACCATAAATGGATTTTTTCTACACGTTTCTCAAGACAGACACTCAACTATAGTCTTGTTTT
* * *
25235 AATGAAAAATCTAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGT
192 AATGAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
* ** *
25300 AATAAGGGTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTG-CTAATGAATAG-TTTTTT
257 AATAAGGATTTTAAAGGAATGGGTGACTATAAATCAAATTTTCTTGTC-AATGAAT-GCTTTTTT
* * * * * *
25363 CTTCATGTTTCTT-AAGATAGA-CATTCAATTATTGTCTGTTTTAA-AGAAAAATAT-TAAACAA
320 CTTCACGTTT-TTGAAGATAGATAATT-AATTATAGTCTATTTTAACA-AAAAATGTAAAAAC-A
* * * * *
25424 TTCAACTTAAAATTAATTATTAGATTATTAAA-CTATTTAAAGCGAGTAGTAAGGCTTTTGAGGG
381 TTCAACTTAAAATCAATTATTAGATTATAAAATC-ATTTAAAACGAGTAATAAGGCTTTTGAAGG
* * ** * * *
25488 AATGGGA-GATTATAAAT-TTACTTTTCTTACCATTGAATGCA-TTTTTCTT-CATGTTTCTTAA
445 AAT-AGATGACTATAAATAGAACTTTTCTTACCAATGAATG-AGTTTTT-TTACACGTTTCTCAA
*
25549 GGCAGAC
507 GACAGAC
* * * *
25556 ATTGAATT-TTAGTCTTTTTTTAATGAACAATGTAAAAA-AATTCAAC-TAAAATCAATTATGAG
1 -TTCAATTATT-GTC-TGTTTTAATAAAAAATGTAAAAACAA-TCAACGTAAAATCAATTATGAG
* * *
25618 ATTATAAAACCATTTAAATCAAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATTGACTTT
62 ATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTTGAAAGAATGAGAGACTATAAATAGACTTT
* ** *** * * *
25683 TCTTCCCATTGATTTCTTTTTTCTTCACGTTTCTTAAGACAGACATTCAACTATAGTCTT-TTTT
127 TCTTACCATAAATGGATTTTTTCTACACGTTTCTCAAGACAGACACTCAACTATAGTCTTGTTTT
* * *
25747 AATGAAAAATATAAAAAATTCAATTTAAAATCAACTATGAGATTATAAAACCATTTAAATCGAGT
192 AATGAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
*
25812 AATAAGGCTTTT
257 AATAAGGATTTT
25824 GNNNNNNNNN
Statistics
Matches: 643, Mismatches: 107, Indels: 59
0.79 0.13 0.07
Matches are distributed among these distances:
510 3 0.00
511 62 0.10
512 501 0.78
513 75 0.12
514 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (513 bp):
TTCAATTATTGTCTGTTTTAATAAAAAATGTAAAAACAATCAACGTAAAATCAATTATGAGATTA
TAAAACCATTTAAAGCAAGTAACAAGGCTTTTGAAAGAATGAGAGACTATAAATAGACTTTTCTT
ACCATAAATGGATTTTTTCTACACGTTTCTCAAGACAGACACTCAACTATAGTCTTGTTTTAATG
AAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
AGGATTTTAAAGGAATGGGTGACTATAAATCAAATTTTCTTGTCAATGAATGCTTTTTTCTTCAC
GTTTTTGAAGATAGATAATTAATTATAGTCTATTTTAACAAAAAATGTAAAAACATTCAACTTAA
AATCAATTATTAGATTATAAAATCATTTAAAACGAGTAATAAGGCTTTTGAAGGAATAGATGACT
ATAAATAGAACTTTTCTTACCAATGAATGAGTTTTTTTACACGTTTCTCAAGACAGAC
Found at i:28106 original size:171 final size:170
Alignment explanation
Indices: 27586--28670 Score: 528
Period size: 171 Copynumber: 6.4 Consensus size: 170
27576 NNNNNNNGTA
* * * * *
27586 AAAAAATTCAA-TGTAAAATCAATTATGGGATTATAAAACCATTTAAAGCAAGTAACATGGCTTT
1 AAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTT
* * * * **** * *
27650 TAA-GTGAATGGTAGATTATAAATAGACTTTT-TTTTTTAT-AAATAGTTTTTT-TACATGTTTC
65 TAACG-AAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAA-ACTTTTTTCTTCATGTTTC
* * * * *
27711 TCGAGGCAGACACTCAATTATAGT-TTGTTTTAATGAAAAATCT
128 TCAAGACAGACATTCAATTATAGTCTT-TTTTAATAAAAAATAT
* *
27754 AAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGGTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTTT
* * *** * *
27819 AACGAAATTGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTTTTTTTCTTCACGTTTCTTA
66 AACGAAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAAACTTTTTTCTTCATGTTTCTCA
* * *
27884 AGATAGACATTCAATTACT-GTCTGTTTCAA-AGAAAAATATT
131 AGACAGACATTCAATTA-TAGTCTTTTTTAATA-AAAAATA-T
* * * **********
27925 AAACAATTCAACTTAAAATCAATTATTAGATTATTAANNNNNNNNNNGCGAGTAATAAGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTTT
* * * *
27990 GAA-GGAATGGGAGGCTGTAAATGGACTTTTCTTGCCATTGAAAACTTTTTTCTTCATGTTTCTC
66 -AACGAAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAAACTTTTTTCTTCATGTTTCTC
*
28054 AAGACAGACATTCAATTATAGTCTTTTTTAATAAAAAATGT
130 AAGACAGACATTCAATTATAGTCTTTTTTAATAAAAAATAT
* ********** * ** ** * *
28095 AAAAAAATTCAACTCAANNNNNNNNNNGGGATTATAAAACTATTTAAAGCTTGTAACATGGCTTT
1 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTT
* * * * * *** * **
28160 TGGA-GGAATGAGAGACTATAAATGGACTTTTCTTTCAAAT-AAATGGGTTCTTCTAAATGTTTC
65 T-AACGAAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAA-ACTTTTTTCTTCATGTTTC
* * * * * * * * *
28223 TCAGGGCAGATATTTAATTACAGTCTGTTGTAATGAAAAATCT
128 TCAAGACAGACATTCAATTATAGTCTTTTTTAATAAAAAATAT
* * * * * **********
28266 AAAATATTCAAATTAAAATCAATTAAGAAATTATAAAACCATTTAAAGCGAGTAANNNNNNNNNN
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTTT
* * * * * ** ** ** *
28331 AAAGGAATGGGTGGCTATAAATGGACTATT-TTGTGAATGAATGCTTTTTTCTTCACATTTCTTA
66 AACGAAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAAACTTTTTTCTTCATGTTTCTCA
* * * **
28395 AGATAGACATTCCATTATTA-TCTATTTTAA-AGAAAAACGT
131 AGACAGACATTCAATTA-TAGTCTTTTTTAATA-AAAAATAT
********** *
28435 AAAACAATTCAACTTAAAATCAATNNNNNNNNNNTAAAACCATTTAAAGCGAGTAATAAGGCTTT
1 AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTT
* * * ** * * ** *
28500 TGAA-GGAATGTGAGATTATAAATTTACTTTTCTTACCATTGAATGCTTTTTTCTTCATGTTGCT
65 T-AACGAAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAAACTTTTTTCTTCATGTTTCT
* * * * * * *
28564 TAAGGCAGAAATTGAATTTTAGTCTTTTTTAATGAAAAATGT
129 CAAGACAGACATTCAATTATAGTCTTTTTTAATAAAAAATAT
* * ** * *
28606 GAACAAATTCAAC-TAAAATCAGTTATGAGATTATAAAACTATTTAAAACAAGTAATAAGGCTTT
1 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTT
28670 T
65 T
28671 GAAGGAATGG
Statistics
Matches: 664, Mismatches: 229, Indels: 46
0.71 0.24 0.05
Matches are distributed among these distances:
168 78 0.12
169 61 0.09
170 205 0.31
171 314 0.47
172 6 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGTAATAAGGCTTTT
AACGAAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAAACTTTTTTCTTCATGTTTCTCA
AGACAGACATTCAATTATAGTCTTTTTTAATAAAAAATAT
Found at i:28551 original size:511 final size:500
Alignment explanation
Indices: 27612--28619 Score: 1052
Period size: 511 Copynumber: 2.0 Consensus size: 500
27602 AATCAATTAT
*
27612 GGGATTATAAAACCATTTAAAGCAAGTAACATGGCTTTTAAGTGAATGGTAGATTATAAATAGAC
1 GGGATTATAAAACCATTTAAAGCAAGTAACATGGCTTTTAAGTGAATGGTAGACTATAAATAGAC
*** * * * * * *
27677 TTTTTTTTTTATAAATAGTTTTTTTACATGTTTCTCGAGGCAGACACTCAATTATAGTTTGTTTT
66 TTTTTTTCAAATAAATAGTTCTTCTAAATGTTTCTCGAGGCAGACACTCAATTACAGTCTGTTGT
* * * *
27742 AATGAAAAATCTAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCGTTTAAAGCGAGT
131 AATGAAAAATCTAAAATATTCAAATTAAAATCAATTAAGAAATTATAAAACCATTTAAAGCGAGT
* * * *
27807 AATAAGGGTTTTAACGAAATTGGTGACTATAAATGGACTTTTCTTGCCAATGAATGTTTTTTTCT
196 AATAAGGGTTTTAAAGAAATGGGTGACTATAAATGGACTATTCTTGCCAATGAATGCTTTTTTCT
* * * * *
27872 TCACGTTTCTTAAGATAGACATTCAATTACTGTCTGTTTCAAAGAAAAATATTAAACAATTCAAC
261 TCACATTTCTTAAGATAGACATTCAATTACTATCTATTTCAAAGAAAAACATAAAACAATTCAAC
* **********
27937 TTAAAATCAATTATTAGATTATTAANNNNNNNNNNGCGAGTAATAAGGCTTTTGAAGGAATGGGA
326 TTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGA
* * * * *
28002 GGCTGTAAATGGACTTTTCTTGCCATTGAAAACTTTTTTCTTCATGTTTCTCAAGACAGACATTC
391 GACTATAAATGGACTTTTCTTACCATTGAAAACTTTTTTCTTCATGTTGCTCAAGACAGAAATTC
28067 AATTATAGTCTTTTTTAATAAAAAATGTAAAAAAATTCAACTCAA
456 AATTATAGTCTTTTTTAATAAAAAATGTAAAAAAATTCAACTCAA
* ** *
28112 NNNNNNNNNNGGGATTATAAAACTATTTAAAGCTTGTAACATGGCTTTTGGAG-GAATGAG-AGA
1 ----------GGGATTATAAAACCATTTAAAGCAAGTAACATGGCTTTT-AAGTGAATG-GTAGA
* * * * *
28175 CTATAAATGGACTTTTCTTTCAAATAAATGGGTTCTTCTAAATGTTTCTC-AGGGCAGATATTTA
54 CTATAAATAGACTTTT-TTTCAAATAAAT-AGTTCTTCTAAATGTTTCTCGA-GGCAGACACTCA
28239 ATTACAGTCTGTTGTAATGAAAAATCTAAAATATTCAAATTAAAATCAATTAAGAAATTATAAAA
116 ATTACAGTCTGTTGTAATGAAAAATCTAAAATATTCAAATTAAAATCAATTAAGAAATTATAAAA
********** * * **
28304 CCATTTAAAGCGAGTAANNNNNNNNNNAAAGGAATGGGTGGCTATAAATGGACTATT-TTGTGAA
181 CCATTTAAAGCGAGTAATAAGGGTTTTAAAGAAATGGGTGACTATAAATGGACTATTCTTGCCAA
* * *
28368 TGAATGCTTTTTTCTTCACATTTCTTAAGATAGACATTCCATTATTATCTATTTTAAAGAAAAAC
246 TGAATGCTTTTTTCTTCACATTTCTTAAGATAGACATTCAATTACTATCTATTTCAAAGAAAAAC
* **********
28433 GTAAAACAATTCAACTTAAAATCAATNNNNNNNNNNTAAAACCATTTAAAGCGAGTAATAAGGCT
311 ATAAAACAATTCAACTTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
* * ** **
28498 TTTGAAGGAATGTGAGATTATAAATTTACTTTTCTTACCATTGAATGCTTTTTTCTTCATGTTGC
376 TTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTACCATTGAAAACTTTTTTCTTCATGTTGC
* * * * * * *
28563 TTAAGGCAGAAATTGAATTTTAGTCTTTTTTAATGAAAAATGTGAACAAATTCAACT
441 TCAAGACAGAAATTCAATTATAGTCTTTTTTAATAAAAAATGTAAAAAAATTCAACT
28620 AAAATCAGTT
Statistics
Matches: 404, Mismatches: 89, Indels: 9
0.80 0.18 0.02
Matches are distributed among these distances:
510 58 0.14
511 221 0.55
512 125 0.31
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.35
Consensus pattern (500 bp):
GGGATTATAAAACCATTTAAAGCAAGTAACATGGCTTTTAAGTGAATGGTAGACTATAAATAGAC
TTTTTTTCAAATAAATAGTTCTTCTAAATGTTTCTCGAGGCAGACACTCAATTACAGTCTGTTGT
AATGAAAAATCTAAAATATTCAAATTAAAATCAATTAAGAAATTATAAAACCATTTAAAGCGAGT
AATAAGGGTTTTAAAGAAATGGGTGACTATAAATGGACTATTCTTGCCAATGAATGCTTTTTTCT
TCACATTTCTTAAGATAGACATTCAATTACTATCTATTTCAAAGAAAAACATAAAACAATTCAAC
TTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGA
GACTATAAATGGACTTTTCTTACCATTGAAAACTTTTTTCTTCATGTTGCTCAAGACAGAAATTC
AATTATAGTCTTTTTTAATAAAAAATGTAAAAAAATTCAACTCAA
Found at i:32114 original size:21 final size:19
Alignment explanation
Indices: 32090--32129 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
32080 AAGGAATGGG
*
32090 TGGCTATAAATGGACTTTTTT
1 TGGCAATAAAT-GA-TTTTTT
32111 TGGCAATAAATGATTTTTT
1 TGGCAATAAATGATTTTTT
32130 CTTTACGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (19 bp):
TGGCAATAAATGATTTTTT
Found at i:32206 original size:342 final size:341
Alignment explanation
Indices: 31635--32419 Score: 892
Period size: 342 Copynumber: 2.3 Consensus size: 341
31625 TTTCTTGAGA
* * *
31635 CAGACATTCAATTATAGTTTGTTTTAA--AAAAATGTAAAAAAATTCAAGTTAAAATTAATTATG
1 CAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* *
31698 AGATCATAAAACCATTTAAAAAGAGTAATAAGGCTTTTGAAGAAATAGGTGGCTATAAATGGACT
66 AGATTATAAAACCATTTAAAAAGAGTAATAAGGCTTTTAAAGAAATAGGTGGCTATAAATGGACT
* * *
31763 TTTCTTACCAATAAATGTATTTTTTTTACACGTTTCTCGATATGCATATTCAATTATTATCTGTT
131 TTTCTTACCAATAAATGTATTTTTTTTACACGTTTATAGATATGCACATTCAATTATTATCTGTT
** * *
31828 TTAATAAAAAAATTTAAAAAATTCAGCTTAAAATCAATTATTGGAATATAAAACTATTTAAGGCA
196 TTAATAAAAAAACGTAAAAAATTCAACTTAAAATCAATTATTGGAATATAAAACTATTTAAAGCA
* * * * * *
31893 TGTAACATGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTTTTTTCAAATAAATGGGTTT
261 AGTAACAAGGC-TTTGAAGGAATGAGAAACTATAAATGGAC-TTTTCTTACAAATAAAT-GCTTT
* * *
31958 TT-TTGCATGTTTCTTAGGG
323 TTCTT-CATATTTCTCAAGG
* * * * *
31977 TAGACATTTAATTATAGTCTGTTTTAATGAAAAATCT-AAAATATTGAACTTAAAATCAATTATG
1 CAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* ** * *
32041 AGATTATAAAACCATTTAGAGCGCA-TAATAAGTG-TTTTAAAGGAATGGGTGGCTATAAATGGA
66 AGATTATAAAACCATTTAAAAAG-AGTAATAAG-GCTTTTAAAGAAATAGGTGGCTATAAATGGA
* ** *
32104 CTTTTTTTGGCAATAAATG-ATTTTTTCTT-TACGTTTGATAAGATA-G-ACATTCAATTATTAT
129 CTTTTCTTACCAATAAATGTATTTTTT-TTACACGTTT-AT-AGATATGCACATTCAATTATTAT
* * * *
32165 CTGTTTTAA-AGAAAAACGTAAAATATTTCAACTTGAAATCAATTATTGGATTATAAAACTATTT
191 CTGTTTTAATAAAAAAACGTAAAA-AATTCAACTTAAAATCAATTATTGGAATATAAAACTATTT
* * * * * *
32229 AAAGCAAGTAATAAGGCTTTGAAGGAATGGGAAACTATAAATTGACTTTTCTTACTATTGAATGC
255 AAAGCAAGTAACAAGGCTTTGAAGGAATGAGAAACTATAAATGGACTTTTCTTACAAATAAATGC
32294 TTTTTCTTCATATTTCTCAAGG
320 TTTTTCTTCATATTTCTCAAGG
* * * *
32316 CAGACATTGAATTATAGTCTTTTTTTAATGAAAAATGTAAAAAAACTCAAC-TAAAATCAGTTAT
1 CAGACATTCAATTATAGTC-TGTTTTAATGAAAAATGTAAAAAAATTCAACTTAAAATCAATTAT
* * * **
32380 TAGATTATAAAACCCTTGAAAGCGAGTGAATAAGGCTTTT
65 GAGATTATAAAACCATTTAAAAAGAGT-AATAAGGCTTTT
32420 GANNNNNNNN
Statistics
Matches: 372, Mismatches: 57, Indels: 29
0.81 0.12 0.06
Matches are distributed among these distances:
339 35 0.09
340 64 0.17
341 56 0.15
342 109 0.29
343 95 0.26
344 13 0.03
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (341 bp):
CAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
AGATTATAAAACCATTTAAAAAGAGTAATAAGGCTTTTAAAGAAATAGGTGGCTATAAATGGACT
TTTCTTACCAATAAATGTATTTTTTTTACACGTTTATAGATATGCACATTCAATTATTATCTGTT
TTAATAAAAAAACGTAAAAAATTCAACTTAAAATCAATTATTGGAATATAAAACTATTTAAAGCA
AGTAACAAGGCTTTGAAGGAATGAGAAACTATAAATGGACTTTTCTTACAAATAAATGCTTTTTC
TTCATATTTCTCAAGG
Found at i:32256 original size:170 final size:170
Alignment explanation
Indices: 31612--32421 Score: 662
Period size: 170 Copynumber: 4.7 Consensus size: 170
31602 CATGAGTGCT
* * * * * *
31612 TTTTTTCTTAACGTTTCTTGAGACAGACATTCAATTATAGTTTGTTTT-AA-AAAAATGTAAAAA
1 TTTTTT-TTCACGTTTCTTAAGATAGACATTCAATTATAGTCTGTTTTAAAGAAAAACGTAAAAT
* * * *
31675 AATTCAAGTTAAAATTAATTATGAGATCATAAAACCATTTAAA-AAGAGTAATAAGGCTTTTGAA
65 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCA-AGTAATAAGGCTTTTGAA
* * * * *
31739 GAAATAGGTGGCTATAAATGGACTTTTCTTACCAATAAATGTA
129 GGAATGGGAGACTATAAATGGACTTTTTTTACCAATAAATG-A
* * * **
31782 TTTTTTTTACACGTTTC-T-CGATATGCATATTCAATTATTA-TCTGTTTTAATAAAAAAATTTA
1 TTTTTTTT-CACGTTTCTTAAGATA-G-ACATTCAATTA-TAGTCTGTTTTAA-AGAAAAACGTA
* * * * * * *
31844 AAA-AATTCAGCTTAAAATCAATTATTG-GAATATAAAACTATTTAAGGCATGTAACATGGCTTT
61 AAATAATTCAACTTAAAATCAATTA-TGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTT
* * * *
31907 TGAAGGAATGAGAGACTATAAATGGACTTTTTTTTTCAAATAAATGGG
125 TGAAGGAATGGGAGACTATAAATGGAC-TTTTTTTACCAATAAAT-GA
* * * * * *
31955 TTTTTTTGCATGTTTCTTAGGGTAGACATTTAATTATAGTCTGTTTTAATGAAAAATC-TAAAAT
1 TTTTTTTTCACGTTTCTTAAGATAGACATTCAATTATAGTCTGTTTTAAAGAAAAA-CGTAAAAT
* * * *
32019 -ATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAGAGCGCA-TAATAAGTG-TTTTAA
65 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-AAGTAATAAG-GCTTTTGA
* * **
32081 AGGAATGGGTGGCTATAAATGGACTTTTTTTGGCAATAAATGA
128 AGGAATGGGAGACTATAAATGGACTTTTTTTACCAATAAATGA
* **
32124 TTTTTTCTTTACGTTTGATAAGATAGACATTCAATTATTA-TCTGTTTTAAAGAAAAACGTAAAA
1 TTTTTT-TTCACGTTTCTTAAGATAGACATTCAATTA-TAGTCTGTTTTAAAGAAAAACGTAAAA
* * *
32188 TATTTCAACTTGAAATCAATTATTG-GATTATAAAACTATTTAAAGCAAGTAATAAGGC-TTTGA
64 TAATTCAACTTAAAATCAATTA-TGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGA
* * * * * * *
32251 AGGAATGGGAAACTATAAATTGACTTTTCTTACTATTGAATGC
128 AGGAATGGGAGACTATAAATGGACTTTTTTTACCAATAAATGA
* ** * ** * * * * *
32294 TTTTTCTTCATATTTCTCAAGGCAGACATTGAATTATAGTCTTTTTTTAATGAAAAATGTAAAAA
1 TTTTTTTTCACGTTTCTTAAGATAGACATTCAATTATAGTC-TGTTTTAAAGAAAAACGTAAAAT
* * * * * *
32359 AACTCAAC-TAAAATCAGTTATTAGATTATAAAACCCTTGAAAGCGAGTGAATAAGGCTTTTGA
65 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGT-AATAAGGCTTTTGA
32422 NNNNNNNNNN
Statistics
Matches: 506, Mismatches: 103, Indels: 61
0.76 0.15 0.09
Matches are distributed among these distances:
168 6 0.01
169 66 0.13
170 166 0.33
171 131 0.26
172 96 0.19
173 37 0.07
174 4 0.01
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (170 bp):
TTTTTTTTCACGTTTCTTAAGATAGACATTCAATTATAGTCTGTTTTAAAGAAAAACGTAAAATA
ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTTGAAGG
AATGGGAGACTATAAATGGACTTTTTTTACCAATAAATGA
Found at i:35823 original size:175 final size:163
Alignment explanation
Indices: 35617--35934 Score: 361
Period size: 173 Copynumber: 1.9 Consensus size: 163
35607 NNNNNNNNNT
* *
35617 TGAGATTATACAACCATTTAAAGCAAGTAATAAGACTTTTGAAGGAATG-GGTGACCATAAATGG
1 TGAGATTATAAAACCATTGAAAGCAAGTAATAAGACTTTTGAAGGAATGAGG-GACCATAAATGG
* * * * *
35681 ATTTTTTTCTTACCAATGAAT-GTATTTTTCTTTATGATTCTCGAGATAGACATTCAATTATTGT
65 A-CTTTTT-TTACCAATGAATACT-TTTTTCTTTATGATTCTCAAGACAGACATTCAATTATAGT
35745 CTTTTTTAATCAAAAATGAAAAAAAAAATNNNNNNNNNNATCAATGA
127 CTTTTTTAATCAAAAATGAAAAAAAAAAT----------ATCAATGA
* * * *
35792 TGAGATTATAAAACCATTGAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGGGACTATAAATTGA
1 TGAGATTATAAAACCATTGAAAGCAAGTAATAAGACTTTTGAAGGAATGAGGGACCATAAATGGA
* * *
35857 CTTTTTTTACCATTGAATACTTTTTTCTTTATGTTTCTCAAGACAGATATTCAATTATAGTCTTT
66 CTTTTTTTACCAATGAATACTTTTTTCTTTATGATTCTCAAGACAGACATTCAATTATAGTCTTT
*
35922 TTTAATGAAAAAT
131 TTTAATCAAAAAT
35935 ATAAAANNNN
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
173 62 0.49
174 6 0.05
175 56 0.44
176 2 0.02
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.36
Consensus pattern (163 bp):
TGAGATTATAAAACCATTGAAAGCAAGTAATAAGACTTTTGAAGGAATGAGGGACCATAAATGGA
CTTTTTTTACCAATGAATACTTTTTTCTTTATGATTCTCAAGACAGACATTCAATTATAGTCTTT
TTTAATCAAAAATGAAAAAAAAAATATCAATGA
Found at i:50784 original size:20 final size:21
Alignment explanation
Indices: 50756--50794 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
50746 TCAAGAACAG
50756 GTAAAAAAA-TACATTTATTA
1 GTAAAAAAAGTACATTTATTA
* *
50776 GTAAGAAAAGTCCATTTAT
1 GTAAAAAAAGTACATTTAT
50795 AGTCACCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (21 bp):
GTAAAAAAAGTACATTTATTA
Found at i:53324 original size:172 final size:162
Alignment explanation
Indices: 53130--53598 Score: 404
Period size: 172 Copynumber: 2.8 Consensus size: 162
53120 TTATTACTCG
* * * *
53130 CTTTAATTGGTTTTAGAATCTCATAATTGATTTTAAGTTTATTTTTTAAAAAATTTTTAGTTAAA
1 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTT--AATATTTTTAGTTAAA
* * * * *
53195 ACAAACTATAATTAATTGTCTTTCTCAAGAAACATGATGAAAAAAGCATTGATTGGCAAGAAAAG
64 ACAAACTATAATTAATTGTCTATCTTAAGAAACATAAAGAAAAAAGCATTCATTGGCAAGAAAAG
**
53260 TCCATTTATAGACACCCATTCCTTCAAAAGCCNNNNNNNNNN
129 TCCATTTATAGACACCCATTCCTTCAAAAGCC--------TT
* * * **
53302 CTTTAAATGGTTTCATAATCTCATAATTGATTTT-AGTTAAATTTTTCATATTTTTTCTTAAAA-
1 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTAATATTTTTAGTTAAAAC
* * * * *
53365 AAGACTATACTTGAA-TGTCTGTCTTAAGAAACATAAAAAAAAAACACATTCAATGGCAAGAAAA
66 AA-ACTATAATT-AATTGTCTATCTTAAGAAACATAAAGAAAAAA-GCATTCATTGGCAAGAAAA
* * *
53429 GTCCATTTATAGTCTCTCATTCCTTCAAAAGCCTT
128 GTCCATTTATAGACACCCATTCCTTCAAAAGCCTT
** * * *
53464 NNNNNNNNNNTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGATTTTTTTTATATTTCT
1 --------CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTT-AATTTTTTAATATTTTT
* * * * * *
53529 GGTTAAAACAAACTATAATTGATTATCTATCTTGAGAAACGTAAAGAAAAAAGTATTCATTGGCA
57 AGTTAAAACAAACTATAATTAATTGTCTATCTTAAGAAACATAAAGAAAAAAGCATTCATTGGCA
53594 AGAAA
122 AGAAA
53599 NNNNNNNNNN
Statistics
Matches: 240, Mismatches: 42, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
168 2 0.01
169 45 0.19
170 79 0.33
171 30 0.12
172 82 0.34
173 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.37
Consensus pattern (162 bp):
CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAATTTTTTAATATTTTTAGTTAAAAC
AAACTATAATTAATTGTCTATCTTAAGAAACATAAAGAAAAAAGCATTCATTGGCAAGAAAAGTC
CATTTATAGACACCCATTCCTTCAAAAGCCTT
Found at i:53463 original size:342 final size:331
Alignment explanation
Indices: 52820--53598 Score: 711
Period size: 342 Copynumber: 2.3 Consensus size: 331
52810 NNNNNNNNNN
** * * * *
52820 TTTAAGTTGATTTTTTTTACATTTTTGGTTAAAACAGACTATAATTGATTGTCGGTT-TGAAGAA
1 TTTAAGTTGATTTTTTAAAAATTTTTGGTTAAAACAAACTATAATTGATTGTC-TTTCTCAAGAA
* *
52884 ACGTGGTGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGACACCCATTCCTTCAAANNN
65 ACGTGATGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGACACCCATTCCTTCAAA---
**** * * *
52949 NNNNNNNNNNNATTTAAATGGTTTTATAATCTCATAATTGATTTTAGTTGAATTTTTTTACATTT
127 -------AGCCATTTAAATGGTTTCATAATCTCATAATTGATTTTAGTTGAAATTTTTCACATTT
* * * * * *
53014 CTCCTTAAAAAAGATTATACTTCAATGTCTGCATTGAGAAAAATGAAGAAAAAAGCATTCATTGG
185 CTCCTTAAAAAAGACTATACTTCAATGTCTGCATTAAGAAAAATAAAAAAAAAAACATTCAATGG
* ********** *
53079 CAAGAAAAGTCTATTTATAGTCTCCANNNNNNNNNNAAGCCTTATTACTCGCTTTAATTGGTTTT
250 CAAGAAAAGTCCATTTATAGTCTCCAATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
53144 AGAATCTCATAATTGAT
315 AGAATCTCATAATTGAT
* * *
53161 TTTAAGTTTATTTTTTAAAAAATTTTTAGTTAAAACAAACTATAATTAATTGTCTTTCTCAAGAA
1 TTTAAGTTGATTTTTT-AAAAATTTTTGGTTAAAACAAACTATAATTGATTGTCTTTCTCAAGAA
* *
53226 ACATGATGAAAAAAGCATTGATTGGCAAGAAAAGTCCATTTATAGACACCCATTCCTTCAAAAGC
65 ACGTGATGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGACACCCATTCCTTCAAAAGC
* *
53291 CNNNNNNNNNNCTTTAAATGGTTTCATAATCTCATAATTGATTTTAGTT-AAATTTTTCATATTT
130 C----------ATTTAAATGGTTTCATAATCTCATAATTGATTTTAGTTGAAATTTTTCACATTT
* * * *
53355 TTTCTTAAAAAAGACTATACTTGAATGTCTGTC-TTAAGAAACATAAAAAAAAAACACATTCAAT
185 CTCCTTAAAAAAGACTATACTTCAATGTCTG-CATTAAGAAAAATAAAAAAAAAA-ACATTCAAT
**********
53419 GGCAAGAAAAGTCCATTTATAGTCTCTC-ATTCCTTCAAAAGCCTTNNNNNNNNNNTTAAATGGT
248 GGCAAGAAAAGTCCATTTATAGTCTC-CAATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
*
53483 TTTATAATCTCATAATTGAT
312 TTTAGAATCTCATAATTGAT
** * * * * **
53503 TTTAAGTTGATTTTTTTTATATTTCTGGTTAAAACAAACTATAATTGATTATCTATCTTGAGAAA
1 TTTAAGTTGATTTTTTAAAAATTTTTGGTTAAAACAAACTATAATTGATTGTCTTTCTCAAGAAA
* * *
53568 CGTAAAGAAAAAAGTATTCATTGGCAAGAAA
66 CGTGATGAAAAAAGCATTCATTGGCAAGAAA
53599 NNNNNNNNNN
Statistics
Matches: 352, Mismatches: 71, Indels: 30
0.78 0.16 0.07
Matches are distributed among these distances:
341 138 0.39
342 213 0.61
343 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.36
Consensus pattern (331 bp):
TTTAAGTTGATTTTTTAAAAATTTTTGGTTAAAACAAACTATAATTGATTGTCTTTCTCAAGAAA
CGTGATGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGACACCCATTCCTTCAAAAGCC
ATTTAAATGGTTTCATAATCTCATAATTGATTTTAGTTGAAATTTTTCACATTTCTCCTTAAAAA
AGACTATACTTCAATGTCTGCATTAAGAAAAATAAAAAAAAAAACATTCAATGGCAAGAAAAGTC
CATTTATAGTCTCCAATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTAGAATCTCATA
ATTGAT
Found at i:67624 original size:170 final size:170
Alignment explanation
Indices: 67218--67651 Score: 460
Period size: 170 Copynumber: 2.6 Consensus size: 170
67208 ATCTATCTCA
* * * *
67218 AGAAACATGATGAAAAAAAA--A-TCATTGGCAAGAAAAGTCCATTTATGGACACCCATTCCTTA
1 AGAAACATGA--AAAAAAAAGCATTCAATGGCAAGAAAAGTCCATTTATAGACACACATTCCTTC
* *
67280 AAAAGCCTTATTACTCGCTTTCAATGGTTTTATAATCTCATAACTGATTTTAGTTAAATTTTTTT
64 AAAAGCCTTATTACTCCCTTTAAATGGTTTTATAATCTCATAACTGATTTTAGTTAAATTTTTTT
* * * * * *
67345 ACATTTTTCCTTAAAAAAGACTATACTTGAATGTTTTCCTTG
129 AAATTTTTCATTAAAAAAGACTATAATTCAATGTCTGCCTTG
*****************
67387 AGAAACATGAAAAAAAAAGCATTCAATGGCAAGAAAAGTCCATTNNNNNNNNNNNNNNNNNTCAA
1 AGAAACATGAAAAAAAAAGCATTCAATGGCAAGAAAAGTCCATTTATAGACACACATTCCTTCAA
*
67452 AAGCCTTATTACTCCCTTTAAATGGTTTTATAATCTCATAACTGATTTTAGTTGAATTTTTTTAA
66 AAGCCTTATTACTCCCTTTAAATGGTTTTATAATCTCATAACTGATTTTAGTTAAATTTTTTTAA
*
67517 ATTTTTCATTAAAAAAGATTATAATTCAATGTCTGCCTTG
131 ATTTTTCATTAAAAAAGACTATAATTCAATGTCTGCCTTG
* * ** * * * * *
67557 AGAAATATGAAGAACGAATCATTCAATGGTAAGAAAAGTCAATTTATAGTCTCACATTCCTTCAA
1 AGAAACATGAAAAAAAAAGCATTCAATGGCAAGAAAAGTCCATTTATAGACACACATTCCTTCAA
*
67622 AAGCCTTATTACTCTCTTTAAATGGTTTTA
66 AAGCCTTATTACTCCCTTTAAATGGTTTTA
67652 NNNNNNNNNN
Statistics
Matches: 208, Mismatches: 54, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
167 8 0.04
169 11 0.05
170 189 0.91
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.35
Consensus pattern (170 bp):
AGAAACATGAAAAAAAAAGCATTCAATGGCAAGAAAAGTCCATTTATAGACACACATTCCTTCAA
AAGCCTTATTACTCCCTTTAAATGGTTTTATAATCTCATAACTGATTTTAGTTAAATTTTTTTAA
ATTTTTCATTAAAAAAGACTATAATTCAATGTCTGCCTTG
Found at i:72583 original size:171 final size:169
Alignment explanation
Indices: 72406--72945 Score: 490
Period size: 171 Copynumber: 3.2 Consensus size: 169
72396 NNNNNNNNNN
* * * *
72406 TATAATCTAATAATTGATTTTAAGTAGATTTTCTTTTCATTTTTGATTAAAACAGACTATAATTA
1 TATAATCTAATAATTGATTTTAAGTTGAGTTT-TTTACATTTTTCATTAAAACAGACTATAATTA
* * ** * * *
72471 ATTATCTATCTCAAGAAACGTGATGAAAAAAATAATCATTGGTAAGAAAAGTCCATTTATGGACA
65 A-TATCTATCTTAAGAAACGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCAATTTATAGACA
* *
72536 GCCATTCCTTCAAAAGCCTTATTACTCGCTTTAATTGGTTT
129 CCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
* * * **
72577 TATAATCTCATAACTGATTTT-AGTTGAAGTTTTTTACATTTTTCATTAAAAAAGACTATAANNN
1 TATAATCTAATAATTGATTTTAAGTTG-AGTTTTTTACATTTTTCATTAAAACAGACTATAA-TT
********* * * * * * * *
72641 NNNNNNNGCCTTGAGAAACATGAAGAAAGAAGCATTCAATGGTAAGCAAAGTCAATTTATAGTCT
64 AATATCTATCTTAAGAAACGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCAATTTATAGACA
* *
72706 CCCATTCCTTCAAAAGACTTATTATTCGCTTTAAATGGTTT
129 CCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
********* * * *
72747 TATAATCTAATAATTGATTTTAAGTTNNNNNNNNNNACATTTTTCCTT-AAACAAAATAATAATT
1 TATAATCTAATAATTGATTTTAAGTT-GAGTTTTTTACATTTTTCATTAAAACAGACT-ATAATT
* * * *
72811 GAATGTCTATCTTAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAAAAAAGTCAATTTATAGCC
64 -AATATCTATCTTAAGAAACGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCAATTTATAGAC
* * * *
72876 ACCCATTCCTTTAAAACCCTTATTACTAGCTTTAAATAGTTT
128 ACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
*
72918 TATAATCTCATAATTGATTTTAAGTTGA
1 TATAATCTAATAATTGATTTTAAGTTGA
72946 ANNNNNNNNN
Statistics
Matches: 283, Mismatches: 80, Indels: 13
0.75 0.21 0.03
Matches are distributed among these distances:
170 134 0.47
171 149 0.53
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.36
Consensus pattern (169 bp):
TATAATCTAATAATTGATTTTAAGTTGAGTTTTTTACATTTTTCATTAAAACAGACTATAATTAA
TATCTATCTTAAGAAACGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCAATTTATAGACACC
CATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
Found at i:74079 original size:170 final size:170
Alignment explanation
Indices: 73710--74179 Score: 503
Period size: 170 Copynumber: 2.8 Consensus size: 170
73700 NNNNNNNNNN
* * * * * * *
73710 TCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGATAGATAATAAATTATAGTCTGTTTTA
1 TCTTGCCAATGAATTCGTTTTCCTTCATGTTTCTCAAGATAGACAATCAAGTATAGTCTATTTTA
* * * ********** *
73775 ACAAAAAATGTAAAACAAATCAACTTAAAATCAATNNNNNNNNNNTAAAACCATTTAAAGTGAGT
66 ACGAAAAATGTAAAA-AAATTAACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
* *
73840 AATAAGGCATTTGAAGGAACGGGAGACTATAAATTGACTAT
130 AATAAGGCATTTGAACGAACGGGAGACTATAAATGGACTAT
* * * * * * *
73881 TCTTGCCATTGAATTCTTTTTTCTTCATGTTTCTCAAGGTAGACATTCAAGTATTGTCTTTTTTA
1 TCTTGCCAATGAATTCGTTTTCCTTCATGTTTCTCAAGATAGACAATCAAGTATAGTCTATTTTA
* *
73946 AGGAAAAATGTAAAAAAATTCAAC-AAAAATCAATTATGAGATTATAAAACCATTTGAAGCGAGT
66 ACGAAAAATGTAAAAAAATT-AACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
* * * * *
74010 AATAAGGCTTTTGAACGAATGGGTGTCTATAAATGGACTTT
130 AATAAGGCATTTGAACGAACGGGAGACTATAAATGGACTAT
* * *
74051 TCTTTCCAATGAGTAT-GTTTTCCTTCATGTTTCTCAAGATAGACAATCAATTATAGTCTATTTT
1 TCTTGCCAATGAAT-TCGTTTTCCTTCATGTTTCTCAAGATAGACAATCAAGTATAGTCTATTTT
* * * *
74115 AACTAAAGATGTAAAAAAATTAACTTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGT
65 AACGAAAAATGTAAAAAAATTAACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
74180 NNNNNNNNNN
Statistics
Matches: 248, Mismatches: 48, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
169 3 0.01
170 172 0.69
171 73 0.29
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
TCTTGCCAATGAATTCGTTTTCCTTCATGTTTCTCAAGATAGACAATCAAGTATAGTCTATTTTA
ACGAAAAATGTAAAAAAATTAACTAAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
ATAAGGCATTTGAACGAACGGGAGACTATAAATGGACTAT
Found at i:75302 original size:170 final size:170
Alignment explanation
Indices: 74698--76401 Score: 1664
Period size: 170 Copynumber: 10.0 Consensus size: 170
74688 NNNNNNNNNG
* * * * *
74698 AAAAATGTAAAAAAATTCAAC-TAAAATCAGTTATGAGATGATAAAACCAATTAGAGCGAGTAAT
1 AAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * * * *
74762 AAGCCTTTTGAAGGAATGGGAGACAATAAATTG-ACTTTTCTTGCCAATGACTACTTTTTTTCTT
65 AAGGCTTTTGAAGGAATGGGTGACTATAAA-TGAACTTTTCTTACCAATGAATGC-TTTTTTCTT
* *
74826 CACGTTTCTCGATG-TAG-CGATGCAATTATAGTCTGTTTTAATA
128 CACGTTTCTC-AAGATAGAC-ATTCAATTATAGTCTGTTTTAATA
* * * * * *
74869 AAAATATGTAAAAAAAATTCAAGTTCAAATCAATTTTGAGGTTATAAAATTATTTAAAACGAGTA
1 AAAA-ATGT--AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTA
* * *
74934 ACAAGGCTTTT-AAAGAACTAGGTGACTAT-AAT-AGACTTTTCTTACCAATGAATG-TATTTTT
63 ATAAGGCTTTTGAAGGAA-TGGGTGACTATAAATGA-ACTTTTCTTACCAATGAATGCT-TTTTT
* * * * *
74995 -TTACACGTTTCTCGAGAAAAGACATTCAATTATTGTCTGTTTTGATC
125 CTT-CACGTTTCTCAAG-ATAGACATTCAATTATAGTCTGTTTTAATA
* *
75042 AAAAATGTAAAAAAATTCAGCTTAAAATAAATTATGAGATTATAAAACTATTTAAAGC-ATGTAA
1 AAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGA-GTAA
* * * * * * * *** *
75106 CATGGCTTTTGAAGAAATGAGTGACTATAAATGAACTTTTCTTTCAAATAAATTAGTTTTTCTAC
64 TAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTACCAATGAATGCTTTTTTCTTC
* *
75171 ACGTTTCTC-AGCGTAGACACTT-AATTATAGTCTGTTTTAATG
129 ACGTTTCTCAAG-ATAGACA-TTCAATTATAGTCTGTTTTAATA
* * * * *
75213 AAAAATCTAAAATATTCAACTTAACATCAATTATTAGATTATAAAACTATTTAAAGCGAGCAATA
1 AAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATA
* * *
75278 AGGCTTTGGAGGGAATGGGTGACTATAAAT-AGACTTTTCTTACCAATGAATGGTTTTTTCTTCA
66 AGGCTTTTGAAGGAATGGGTGACTATAAATGA-ACTTTTCTTACCAATGAATGCTTTTTTCTTCA
* *
75342 CGTTTATCAAGATAGACATTCAATTATTGTCTGTTTTAATA
130 CGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTAATA
* * * *
75383 AAAAATGTAAAAAA-TCTAACTTAAAATCAATTATGCGATTATAAGACCATTTAAAGGGAGTAAT
1 AAAAATGTAAAAAATTC-AACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * * *
75447 AGGGCTTTTGAAGGAATGGGAGACTATAAAT-AGAGTTTTCTTACCATTGAATGCTTTTTTCTTG
65 AAGGCTTTTGAAGGAATGGGTGACTATAAATGA-ACTTTTCTTACCAATGAATGCTTTTTTCTTC
** * * * * * *
75511 ATATTTCTCAAGGTAAACATTCAAGTATAGTCTTTTTTATTG
129 ACGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTAATA
*
75553 AAAAATGTAAAAAAATTCAAC-TAAAATCAATTATGAGATTATATAACTATTTAAAGCGAGTAAT
1 AAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * *
75617 AAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCATGCCAATGAATGCTTTTTTCTTCA
65 AAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTACCAATGAATGCTTTTTTCTTCA
* * * *
75682 TGTTTCTCAAGATAGATACTAAATTATAGTCTGTTTTAACT-
130 CGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTAA-TA
* * * * *
75723 AAAAATTTAAAACAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAACGTGAGTAAT
1 AAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * * * *
75788 AAGGCATTTGAAGGAATGAGAGACTATAAATTG-ACTTTTCTTGCCATTGAATTCTTTTTTCTTC
65 AAGGCTTTTGAAGGAATGGGTGACTATAAA-TGAACTTTTCTTACCAATGAATGCTTTTTTCTTC
* * *** * *
75852 ATGTTTCTTAAGGCGGAAATTCAAGTATAGTCT-TTTTAAATA
129 ACGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTT-AATA
* * * * * *
75894 AAAAATATAAACAAATTAAAC-TAAAATCAATTATCAAATTATAAAACCATTTAAAGTGAGTAAT
1 AAAAATGTAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAAT
* * * *
75958 AAGGCTTTTGAAGGAATGGGTGTCTATAAAT-AGACTTTTCTTATCAATGAATGATTTTTTCATC
65 AAGGCTTTTGAAGGAATGGGTGACTATAAATGA-ACTTTTCTTACCAATGAATGCTTTTTTCTTC
* * * **
76022 ACGTTTCTCGAGATAGAAAATT-AATTATAGTATGTTTTAACC
129 ACGTTTCTCAAGATAG-ACATTCAATTATAGTCTGTTTTAATA
* * *
76064 AAAAATGTAAAAAAAATT-AACTTAAAATCAATTATTAGATTATAAAACCATTTAATGCGAGTAA
1 AAAAATGT--AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAA
*** * * * *
76128 TAAGGCTTTTGAAGGAATAAAAT-ACTATAAATGGACTTTT-TACACCATTGGATGCTTTTTTCT
64 TAAGGCTTTTGAAGGAAT-GGGTGACTATAAATGAACTTTTCT-TACCAATGAATGCTTTTTTCT
* ** *
76191 TCATGTTTCTCAAGGCAAACATTCAATTATAGTCT-TTTTAA-A
127 TCACGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTAATA
* * *
76233 GAAATATGTTAAAAAATTCAACTAAAAATCAATTATGAGATTAGAAAA-TCATTTAAAGCGAGTA
1 -AAAAATG-TAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTA
* * * * ** *
76297 ATAAGGCTTTTGAAGGAATGGATGTCTATAAATGGACTTATCTTACTGATGAATGCCTTTTTCTT
63 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTACCAATGAATGCTTTTTTCTT
* *
76362 CACGTTTCTCGAGATAGACAATCAATTATAGTCTGTTTTA
128 CACGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTA
76402 NNNNNNNNNN
Statistics
Matches: 1263, Mismatches: 219, Indels: 102
0.80 0.14 0.06
Matches are distributed among these distances:
169 20 0.02
170 676 0.54
171 381 0.30
172 73 0.06
173 64 0.05
174 49 0.04
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (170 bp):
AAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATA
AGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTACCAATGAATGCTTTTTTCTTCAC
GTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTAATA
Found at i:75367 original size:341 final size:338
Alignment explanation
Indices: 74698--76401 Score: 1812
Period size: 341 Copynumber: 5.0 Consensus size: 338
74688 NNNNNNNNNG
* * * *
74698 AAAAATGTAAAAAAATTCAAC-TAAAATCAGTTATGAGATGATAAAACCAATTAGAGCGAGTAAT
1 AAAAATGTAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-AGTAAT
* * * * * *
74762 AAGCCTTTTGAAGGAATGGGAGACAATAAATTG-ACTTTTCTTGCCAA-TGACTACTTTTTTTCT
64 AAGGCTTTTGAAGGAATGAGAGACTATAAA-TGAACTTTTCTT-ACAATTGAATGC-TTTTTTCT
* * * * * *
74825 TCACGTTTCTCGATGT-AGCGATGCAATTATAGTCTGTTTTAATAAAAATATGTAAAAAAAATTC
126 TCATGTTTCTCAAGGTAAAC-ATTCAATTATAGTCT-TTTTAATGAAAA-ATGT--AAAAAATTC
* * * * * * * *
74889 AAGTTCAAATCAATTTTGAGGTTATAAAATTATTTAAAACGAGTAACAAGGCTTTT-AAAGAACT
186 AACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA-T
* *
74953 AGGTGACTAT-AATAGACTTTTCTTACCAATGAATG-TATTTTT-TTACACGTTTCTCGAGAAAA
250 GGGTGACTATAAATAGACTTTTCTTACCAATGAATGCT-TTTTTCTT-CACGTTTCTCGAG-ATA
* *
75015 GACATTCAATTATTGTCTGTTTTGATC
312 GACATTCAATTATAGTCTGTTTTAATC
* * * *
75042 AAAAATGTAAAAAAATTCAGCTTAAAATAAATTATGAGATTATAAAACTATTTAAAGCATGTAAC
1 AAAAATGTAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCA-GTAAT
* * * * * * *** *
75107 ATGGCTTTTGAAGAAATGAGTGACTATAAATGAACTTTTCTTTCAAATAAATTAGTTTTTCTACA
64 AAGGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTACAATTGAATGCTTTTTTCTTCA
* * * *
75172 CGTTTCTC-AGCGTAGACACTT-AATTATAGTCTGTTTTAATGAAAAATCTAAAATATTCAACTT
129 TGTTTCTCAAG-GTAAACA-TTCAATTATAGTCT-TTTTAATGAAAAATGTAAAAAATTCAACTT
* * * * *
75235 AACATCAATTATTAGATTATAAAACTATTTAAAGCGAGCAATAAGGCTTTGGAGGGAATGGGTGA
191 AAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGA
* * *
75300 CTATAAATAGACTTTTCTTACCAATGAATGGTTTTTTCTTCACGTTTATCAAGATAGACATTCAA
256 CTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTCTTCACGTTTCTCGAGATAGACATTCAA
* *
75365 TTATTGTCTGTTTTAATA
321 TTATAGTCTGTTTTAATC
* * *
75383 AAAAATGT-AAAAAATCTAACTTAAAATCAATTATGCGATTATAAGACCATTTAAAGGGAGTAAT
1 AAAAATGTAAAAAAATC-AACTTAAAATCAATTATGAGATTATAAAACCATTTAAA-GCAGTAAT
* * * * *
75447 AGGGCTTTTGAAGGAATGGGAGACTATAAAT-AGAGTTTTCTTACCATTGAATGCTTTTTTCTTG
64 AAGGCTTTTGAAGGAATGAGAGACTATAAATGA-ACTTTTCTTACAATTGAATGCTTTTTTCTTC
* * *
75511 ATATTTCTCAAGGTAAACATTCAAGTATAGTCTTTTTTATTGAAAAATGTAAAAAAATTCAAC-T
128 ATGTTTCTCAAGGTAAACATTCAATTATAGTC-TTTTTAATGAAAAATGT-AAAAAATTCAACTT
* *
75575 AAAATCAATTATGAGATTATATAACTATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGA
191 AAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGA
* * * * * * * *
75640 CTATAAATGGACTTTTCATGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGATAGATACTAAA
256 CTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTCTTCACGTTTCTCGAGATAGACATTCAA
75705 TTATAGTCTGTTTTAA-C
321 TTATAGTCTGTTTTAATC
* * *
75722 TAAAAATTTAAAACAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAACGTGAGTAA
1 -AAAAATGTAAAA-AAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-CAGTAA
* * * *
75787 TAAGGCATTTGAAGGAATGAGAGACTATAAATTG-ACTTTTCTTGCCATTGAATTCTTTTTTCTT
63 TAAGGCTTTTGAAGGAATGAGAGACTATAAA-TGAACTTTTCTTACAATTGAATGCTTTTTTCTT
* ** * * * *
75851 CATGTTTCTTAAGGCGGAA-ATTCAAGTATAGTCTTTTTAAATAAAAAATATAAACAAATTAAAC
127 CATGTTTCTCAAGG-TAAACATTCAATTATAGTCTTTTT-AATGAAAAATGTAAA-AAATTCAAC
* * * *
75915 -TAAAATCAATTATCAAATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGT
189 TTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
* * * * *
75979 GTCTATAAATAGACTTTTCTTATCAATGAATGATTTTTTCATCACGTTTCTCGAGATAGAAAATT
254 GACTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTCTTCACGTTTCTCGAGATAG-ACATT
* *
76044 -AATTATAGTATGTTTTAACC
318 CAATTATAGTCTGTTTTAATC
* * *
76064 AAAAATGTAAAAAAAATTAACTTAAAATCAATTATTAGATTATAAAACCATTTAATGCGAGTAAT
1 AAAAATGT-AAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-AGTAAT
* * * * *
76129 AAGGCTTTTGAAGGAATAAAATACTATAAATGGAC-TTT-TTACACCATTGGATGCTTTTTTCTT
64 AAGGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTACA--ATTGAATGCTTTTTTCTT
* * * *
76192 CATGTTTCTCAAGGCAAACATTCAATTATAGTCTTTTTAAAGAAATATGTTAAAAAATTCAACTA
127 CATGTTTCTCAAGGTAAACATTCAATTATAGTCTTTTTAATGAAAAATG-TAAAAAATTCAACTT
* *
76257 AAAATCAATTATGAGATTAGAAAA-TCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGATG
191 AAAATCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTG
* * * ** * *
76321 TCTATAAATGGACTTATCTTACTGATGAATGCCTTTTTCTTCACGTTTCTCGAGATAGACAATCA
255 ACTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTCTTCACGTTTCTCGAGATAGACATTCA
76386 ATTATAGTCTGTTTTA
320 ATTATAGTCTGTTTTA
76402 NNNNNNNNNN
Statistics
Matches: 1151, Mismatches: 170, Indels: 81
0.82 0.12 0.06
Matches are distributed among these distances:
339 8 0.01
340 298 0.26
341 636 0.55
342 61 0.05
343 7 0.01
344 69 0.06
345 72 0.06
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (338 bp):
AAAAATGTAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAGTAATAA
GGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTCTTACAATTGAATGCTTTTTTCTTCATG
TTTCTCAAGGTAAACATTCAATTATAGTCTTTTTAATGAAAAATGTAAAAAATTCAACTTAAAAT
CAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATA
AATAGACTTTTCTTACCAATGAATGCTTTTTTCTTCACGTTTCTCGAGATAGACATTCAATTATA
GTCTGTTTTAATC
Found at i:75765 original size:511 final size:507
Alignment explanation
Indices: 74698--76401 Score: 1844
Period size: 511 Copynumber: 3.3 Consensus size: 507
74688 NNNNNNNNNG
* * * * *
74698 AAAAATGTAAAAAAATTCAAC-TAAAATCAGTTATGAGATGATAAAACCAATTAGAGCGAGTAAT
1 AAAAATTTAAAAAAA-TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
74762 AAGCCTTTTGAAGGAATGGGAGACAATAAATTGACTTTTCTTGCCAATGACTACTTTTTTTCTTC
65 AAGGCTTTTGAAGGAATGGGAGACTATAAATTGACTTTTCTTACCAATGAATGC-TTTTTTCTTC
* * *
74827 ACGTTTCTCGATG-TAG-CGATGCAATTATAGTCTGTTTTAATAAAAATATGTAAAAAAAATTCA
129 ACGTTTCTC-AAGATAGAC-ATTCAATTATAGTCTGTTTTAATAAAAA-ATGT--AAAAAATTAA
* * * * * ** * * * *
74890 AGTTCAAATCAATTTTGAGGTTATAAAATTATTTAAAACGAGTAACAAGGCTTTT-AAAGAACTA
189 ACTTAAAATCAATTATGCGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA-TG
*
74954 GGTGACTAT-AATAGACTTTTCTTACCAATGAATGTATTTTT-TTACACGTTTCTCGAGAAAAGA
253 GGTGACTATAAATAGACTTTTCTTACCAATGAATGT-TTTTTCTTACA--TTTCTCGAGATAA-A
* * * *
75017 CATTCAATTATTGTCTGTTTTGATCAAAAATGTAAAAAAATTCAGCTTAAAATAAATTATGAGAT
314 CATTCAATTATAGTCT-TTTTTATCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
* * * *
75082 TATAAAACTATTTAAAGC-ATGTAACATGGCTTTTGAAGAAATGAGTGACTATAAATGAACTTTT
378 TATAAAACTATTTAAAGCGA-GTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT
* * * * *** * * *
75146 CTTTCAAATAAATTAGTTTTTCTACACGTTTCTC-AGCGTAGACACTTAATTATAGTCTGTTTTA
442 CATACCAATGAATGCTTTTTTCTTCATGTTTCTCAAG-GTAGACACTAAATTATAGTCTGTTTTA
75210 AT
506 AT
* * * * * * *
75212 GAAAAATCTAAAATATTCAACTTAACATCAATTATTAGATTATAAAACTATTTAAAGCGAGCAAT
1 -AAAAATTTAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
75277 AAGGCTTTGGAGGGAATGGGTGACTATAAATAGACTTTTCTTACCAATGAATGGTTTTTTCTTCA
65 AAGGCTTTTGAAGGAATGGGAGACTATAAATTGACTTTTCTTACCAATGAATGCTTTTTTCTTCA
* *
75342 CGTTTATCAAGATAGACATTCAATTATTGTCTGTTTTAATAAAAAATGTAAAAAATCT-AACTTA
130 CGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAAT-TAAACTTA
* * * *
75406 AAATCAATTATGCGATTATAAGACCATTTAAAGGGAGTAATAGGGCTTTTGAAGGAATGGGAGAC
194 AAATCAATTATGCGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * * * * *
75471 TATAAATAGAGTTTTCTTACCATTGAATGCTTTTTTCTTGATATTTCTCAAGGTAAACATTCAAG
259 TATAAATAGACTTTTCTTACCAATGAATG-TTTTTTCTT-ACATTTCTCGAGATAAACATTCAAT
* *
75536 TATAGTCTTTTTTATTGAAAAATGTAAAAAAATTCAAC-TAAAATCAATTATGAGATTATATAAC
322 TATAGTCTTTTTTA-TCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAC
* * *
75600 TATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCATGCCAAT
386 TATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCATACCAAT
* *
75665 GAATGCTTTTTTCTTCATGTTTCTCAAGATAGATACTAAATTATAGTCTGTTTTAACT
451 GAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACACTAAATTATAGTCTGTTTTAA-T
* *
75723 AAAAATTTAAAACAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAACGTGAGTAAT
1 AAAAATTTAAAA-AAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
75788 AAGGCATTTGAAGGAATGAGAGACTATAAATTGACTTTTCTTGCCATTGAATTCTTTTTTCTTCA
65 AAGGCTTTTGAAGGAATGGGAGACTATAAATTGACTTTTCTTACCAATGAATGCTTTTTTCTTCA
* * *** * * *
75853 TGTTTCTTAAGGCGGAAATTCAAGTATAGTCT-TTTTAAATAAAAAATATAAACAAATTAAAC-T
130 CGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTT-AATAAAAAATGTAAA-AAATTAAACTT
* *
75916 AAAATCAATTAT-CAAATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTG
193 AAAATCAATTATGC-GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTG
* * * * *
75980 TCTATAAATAGACTTTTCTTATCAATGAATGATTTTTTCATCACGTTTCTCGAGATAGAAAATT-
257 ACTATAAATAGACTTTTCTTACCAATGAATG-TTTTTTC-TTACATTTCTCGAGATA-AACATTC
* * * *
76044 AATTATAGTATGTTTTAACCAAAAATGTAAAAAAAATT-AACTTAAAATCAATTATTAGATTATA
319 AATTATAGTCT-TTTTTATCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * * * *
76108 AAACCATTTAATGCGAGTAATAAGGCTTTTGAAGGAATAAAAT-ACTATAAATGGACTTTTTACA
382 AAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GAGTGACTATAAATGGACTTTTCATA
* * * * * *
76172 CCATTGGATGCTTTTTTCTTCATGTTTCTCAAGGCAAACATTCAATTATAGTCT-TTTTAA-
446 CCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACACTAAATTATAGTCTGTTTTAAT
* * * *
76232 AGAAATATGTTAAAAAATTCAACTAAAAATCAATTATGAGATTAGAAAATCATTTAAAGCGAGTA
1 A-AAA-AT-TTAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * * ** *
76297 ATAAGGCTTTTGAAGGAAT-GGATGTCTATAAATGGACTTATCTTACTGATGAATGCCTTTTTCT
63 ATAAGGCTTTTGAAGGAATGGGA-GACTATAAATTGACTTTTCTTACCAATGAATGCTTTTTTCT
* *
76361 TCACGTTTCTCGAGATAGACAATCAATTATAGTCTGTTTTA
127 TCACGTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTA
76402 NNNNNNNNNN
Statistics
Matches: 994, Mismatches: 166, Indels: 62
0.81 0.14 0.05
Matches are distributed among these distances:
509 1 0.00
510 148 0.15
511 489 0.49
512 200 0.20
513 10 0.01
514 54 0.05
515 92 0.09
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (507 bp):
AAAAATTTAAAAAAATCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
AGGCTTTTGAAGGAATGGGAGACTATAAATTGACTTTTCTTACCAATGAATGCTTTTTTCTTCAC
GTTTCTCAAGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAATTAAACTTAAA
ATCAATTATGCGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTA
TAAATAGACTTTTCTTACCAATGAATGTTTTTTCTTACATTTCTCGAGATAAACATTCAATTATA
GTCTTTTTTATCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACTATTT
AAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCATACCAATGAATG
CTTTTTTCTTCATGTTTCTCAAGGTAGACACTAAATTATAGTCTGTTTTAAT
Found at i:77519 original size:171 final size:169
Alignment explanation
Indices: 77318--77831 Score: 467
Period size: 171 Copynumber: 3.0 Consensus size: 169
77308 NNNNNNNNNN
* * *
77318 ATGAGATTAGAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGTGTCTATAAATAG
1 ATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCTTTTGAAGGAAT-GGTGACTATAAATAG
* * *
77383 ACTTTTCTTGTCAATGAATG-TTTTTTTCTTCACGTTGT-TCAAGATAGACAATCAGTTA-TAGT
65 ACTTTTCTT-TCAATGAATGCATTTTTT-TACACGTT-TCTCAAGATAGACAATCAATTATTA-T
* *
77445 CCA-TTTTAACAAAAAATATAAAAAAATTTAAGTTAAAATCAATT
126 CCATTTTTAA-AAAAAATATAAAAAAATTCAACTTAAAATCAATT
* * *
77489 ATGAGATTATAAAACCATTTAAAATGAGTAATAAGGGTTTTGAAGAAATGGGTGACTATAAATTG
1 ATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCTTTTGAAGGAAT-GGTGACTATAAATAG
** * *** *
77554 ACTTTT-TTTACTAATGAATGCATTTTTTTACACGTTTCTTGATATAGAGGTTCAATTATTATCT
65 ACTTTTCTTT-C-AATGAATGCATTTTTTTACACGTTTCTCAAGATAGACAATCAATTATTATCC
*
77618 ATTTTTAAAAAAAATATAAAACAATTCAACTTAAAATCAATT
128 ATTTTTAAAAAAAATATAAAAAAATTCAACTTAAAATCAATT
* * * * * *
77660 ATGGGATTCTAAAACTATTT-AAA-GCATGTAACATGGCTTTTGAAGGAATGAGAGACTATAAAT
1 ATGAGATTATAAAACCATTTAAAATG-A-GTAATAAGGCTTTTGAAGGAATG-GTGACTATAAAT
* * * * * * * *
77723 AAACTTTTCTTTCAAATAAATGGGA-TTTTCTACATGTTTCTCGACG-TAGACACTTAATTA-TA
63 AGACTTTTCTTTC-AATGAAT-GCATTTTTTTACACGTTTCTC-AAGATAGACAATCAATTATTA
* * *
77785 GTCTA-TTTTAATAAAAAATCT-AAAATATTCAACTTAAAATCAATT
125 -TCCATTTTTAA-AAAAAATATAAAAAAATTCAACTTAAAATCAATT
77830 AT
1 AT
77832 NNNNNNNNNN
Statistics
Matches: 283, Mismatches: 46, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
169 2 0.01
170 41 0.14
171 221 0.78
172 19 0.07
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (169 bp):
ATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCTTTTGAAGGAATGGTGACTATAAATAGA
CTTTTCTTTCAATGAATGCATTTTTTTACACGTTTCTCAAGATAGACAATCAATTATTATCCATT
TTTAAAAAAAATATAAAAAAATTCAACTTAAAATCAATT
Done.