Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397309.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_101.0, 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: 93324
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.25
Warning! 29805 characters in sequence are not A, C, G, or T
Found at i:399 original size:173 final size:162
Alignment explanation
Indices: 147--475 Score: 352
Period size: 173 Copynumber: 2.0 Consensus size: 162
137 AGAATTTAAT
* * ** *
147 ATCAATTTTGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTAGAAAGAATAAGAGACTA
1 ATCAATTTTGAGATAATAAAAACATTTAAAGCGAGTAATAAAACTTTAGAAAGAACAAGAGACTA
* * *
212 TAAATGAACTTTTCTTGCTAATGAATGCTTTTTTCTTCACGTTTCTTAATGAAAGACATTCAATT
66 TAAATGAACTTTTCTTGCAAACGAATGCCTTTTTCTTCACGTTTCTTAA-GAAAGACATTCAATT
* *
277 CTAGTCTGTTTTAACCAAAAATGTAAANNNNNNNNNNCATAAA
130 ATAGTCTATTTTAACCAAAAATGTAAA----------CATAAA
* * * * * *
320 ATCAATTTTGAGATAATAAAAACATTTAAAGTGAGTAATAAAACTTTTGCAGGAACAGGTGACTA
1 ATCAATTTTGAGATAATAAAAACATTTAAAGCGAGTAATAAAACTTTAGAAAGAACAAGAGACTA
* * * **
385 TAAATGGACTTTTCTTGCAAACGAATGCCTTTTTCTTCATGTTTCTTGAGGCAGACATTCAATTA
66 TAAATGAACTTTTCTTGCAAACGAATGCCTTTTTCTTCACGTTTCTTAAGAAAGACATTCAATTA
**
450 TAGTCTATTTTAAGGAAAAATGTAAA
131 TAGTCTATTTTAACCAAAAATGTAAA
476 AAATTTAACT
Statistics
Matches: 133, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
172 36 0.27
173 97 0.73
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.34
Consensus pattern (162 bp):
ATCAATTTTGAGATAATAAAAACATTTAAAGCGAGTAATAAAACTTTAGAAAGAACAAGAGACTA
TAAATGAACTTTTCTTGCAAACGAATGCCTTTTTCTTCACGTTTCTTAAGAAAGACATTCAATTA
TAGTCTATTTTAACCAAAAATGTAAACATAAA
Found at i:759 original size:50 final size:49
Alignment explanation
Indices: 657--761 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 49
647 AGGTAGACAT
* ** * *
657 TCAATTATAGTCTATTTTAATGAAAAATATAAAAACATTCAACTTAAGA
1 TCAATTATAATCTATTTTAACCAAAAATATAAAAAAATTCAACTTAAAA
* *
706 TCAATTATAATCTATTTTAACCAAAAA-AGTAAAAAAATTTGACCTTAAAA
1 TCAATTATAATCTATTTTAACCAAAAATA-TAAAAAAA-TTCAACTTAAAA
756 TCAATT
1 TCAATT
762 TTGAGATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
48 1 0.02
49 31 0.66
50 15 0.32
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (49 bp):
TCAATTATAATCTATTTTAACCAAAAATATAAAAAAATTCAACTTAAAA
Found at i:1647 original size:341 final size:339
Alignment explanation
Indices: 706--1825 Score: 915
Period size: 341 Copynumber: 3.3 Consensus size: 339
696 CAACTTAAGA
* * * * * *
706 TCAATTATAATCTATTTTAACCAAAAAAGTAAAAAAATTTGACCTTAAAATCAATTTTGAGATTT
1 TCAATTATAATCTAGTTTAACCAAAAATGTAAAAAAAATTGAACTT-AAATAAATTTTGAGATTA
* * * * * *
771 TAAACCATTTAAAGTGAGTAATAAGACTTGT-AAAGGAATGAGAGATTATAAAT-GAACTTTTCT
65 TAAAACATTTAAAGTGAGTAATAAGGCTTTTGAAAGAAATG-GTGACTATAAATAG-ACTTTTCT
* * * * * * *
834 TGCCAATGAATGTA-TTTTTCTTCTTGTTTC-TGAAGGCAGACATTTC-ATTATAGTCCGTTTTA
128 TACCAATGAA--TACTTTTTCTTCATATTTCTTG-AGGTAGACA-TTCAATTATAATCTGTTTCA
* * * * * * *** *
896 GCCAA-AAATGT-AAAAAATTCAATTTAAAATCAATTGTGAGATTATAAAACCATTTAAAGTGAC
189 -ACAAGAAATATAAAAAAATTGAACTTAAAATTAATTATGAGATTATAAAACCATTTAAACCAAG
* * ********** * * * *
959 TAATAAGACTTTTGANNNNNNNNNNGACTATAAATGGATTTTTCTTGCCAATGAATGCATTTTTC
253 TAATAAGGCTTTTAAAGAAATGAAAGACTATAAATGGACTTTCCTTGCAAATCAATGC-TTTTTC
* * * *
1024 TTCTCGTTTCAT-GAGGTAAACAT
317 TACACGTTTC-TCAAGGTGAACAT
* * **
1047 TTAATTATAATAT-GTTTTAACCAAAAATGTAAAAGGAATTGAACTTTAAATAAATTTTGAGATT
1 TCAATTATAATCTAG-TTTAACCAAAAATGTAAAAAAAATTGAAC-TTAAATAAATTTTGAGATT
* * * *
1111 ATAAAACTATTTAAAGCGAGTAACAAGGCTTTTGAAGGAAATGGTGACTATAAATGGACTTTTCT
64 ATAAAAC-ATTTAAAGTGAGTAATAAGGCTTTTGAAAGAAATGGTGACTATAAATAGACTTTTCT
** *
1176 TACCAATGAATACTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATGGTCTGTTTTAACAA
128 TACCAATGAATACTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATCTGTTTCAACAA
* * * * *
1241 GAAATGTAAAAAAATTTAACTTAAAATTAATTATGAGATTATGAAACTATTTAAAGCAAGTAATA
193 GAAATATAAAAAAATTGAACTTAAAATTAATTATGAGATTATAAAACCATTTAAACCAAGTAATA
* **
1306 AGGCTTTTAAAGAAATGAAAGACTATAAATGGACTTTTCTTTTAAATACATATG-TTTTTCTACA
258 AGGCTTTTAAAGAAATGAAAGACTATAAATGGACTTTCCTTGCAAAT-CA-ATGCTTTTTCTACA
* * *
1370 CGTTTCTTAATGT-AGATAT
321 CGTTTCTCAAGGTGA-ACAT
* *
1389 TCAATTATAATCT-GTTTAACTAATAAA-G-AAAAAAAATTGAACTTAATATCAATTTTGAGATT
1 TCAATTATAATCTAGTTTAACCAA-AAATGTAAAAAAAATTGAACTTAA-ATAAATTTTGAGATT
* ** *
1451 ATAAAATCATTTAAAGTTAGTAATAAGGCTTTT-AAAGAAATGCGTGACTATAGCTAGACTTTTT
64 ATAAAA-CATTTAAAGTGAGTAATAAGGCTTTTGAAAGAAATG-GTGACTATAAATAGACTTTTC
* * *
1515 TTGCCAATGAATGCCTTTTTCTTCA-AGTTTCTTGAGGTAGACATTCAATTATAATTTGTTTCAA
127 TTACCAATGAAT-ACTTTTTCTTCATA-TTTCTTGAGGTAGACATTCAATTATAATCTGTTTCAA
********** *
1579 CTAA-AAATATAAAAAAATTGANNNNNNNNNNAATTATGAGATTATAAAACCATTTCAACCAAGT
190 C-AAGAAATATAAAAAAATTGAACTTAAAATTAATTATGAGATTATAAAACCATTTAAACCAAGT
* *** * *
1643 AATAAGGCTTTTAAAGGAATGGGTGACTATAGATGGACTTTCCTTGCGAATCAATGCTTTTTTCT
254 AATAAGGCTTTTAAAGAAATGAAAGACTATAAATGGACTTTCCTTGCAAATCAATGC-TTTTTCT
* *
1708 TCATGTTTCTCAAGGTGAACAT
318 ACACGTTTCTCAAGGTGAACAT
* * * * * * * *
1730 TCAATTATACTCTATTTTAACCAAAAATGTAAAAACAATTGCACATAACATGAATTATGAGAATA
1 TCAATTATAATCTAGTTTAACCAAAAATGTAAAAAAAATTGAACTTAA-ATAAATTTTGAGATTA
*
1795 TAAAACCATTTCAAGTGAGTAATAAGGCTTT
65 TAAAA-CATTTAAAGTGAGTAATAAGGCTTT
1826 CGAAGGAATG
Statistics
Matches: 632, Mismatches: 120, Indels: 52
0.79 0.15 0.06
Matches are distributed among these distances:
339 15 0.02
340 93 0.15
341 278 0.44
342 178 0.28
343 65 0.10
344 3 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.36
Consensus pattern (339 bp):
TCAATTATAATCTAGTTTAACCAAAAATGTAAAAAAAATTGAACTTAAATAAATTTTGAGATTAT
AAAACATTTAAAGTGAGTAATAAGGCTTTTGAAAGAAATGGTGACTATAAATAGACTTTTCTTAC
CAATGAATACTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAATCTGTTTCAACAAGAA
ATATAAAAAAATTGAACTTAAAATTAATTATGAGATTATAAAACCATTTAAACCAAGTAATAAGG
CTTTTAAAGAAATGAAAGACTATAAATGGACTTTCCTTGCAAATCAATGCTTTTTCTACACGTTT
CTCAAGGTGAACAT
Found at i:1707 original size:171 final size:171
Alignment explanation
Indices: 706--2013 Score: 872
Period size: 170 Copynumber: 7.7 Consensus size: 171
696 CAACTTAAGA
* * * *
706 TCAATTATAATCTATTTTAACCAA-AAA-AGTAAAAAAATTTGACCTTAAAATCAATTTTGAGAT
1 TCAATTATAATCTGTTTTAACTAAGAAATA-TAAAAAAA-TTGAACTTAAAATCAATTATGAGAT
* ** * * * * * * *
769 T-TTAAACCATTTAAAGTGAGTAATAAGACTTGTAAAGGAATGAGAGATTATAAATGAACTTTTC
64 TATAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATGGACTTTTC
* * ** * *
833 TTGCCAATGAATGTATTTTTCTTCTTGTTTCTGAAGGCAGACATT
129 TTGCCAATCAATG-CTTTTTCTTCAAGTTTCTTAAGGTAGACA-T
* * * * * * * *
878 TC-ATTATAGTCCGTTTTAGCCAA-AAATGT-AAAAAATTCAATTTAAAATCAATTGTGAGATTA
1 TCAATTATAATCTGTTTTAACTAAGAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
** * * * ********** *
940 TAAAACCATTTAAAGTGACTAATAAGACTTTTGANNNNNNNNNNGACTATAAATGGATTTTTCTT
66 TAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATGGACTTTTCTT
* ** * * *
1005 GCCAATGAATGCATTTTTCTTCTCGTTTCATGAGGTAAACAT
131 GCCAATCAATGC-TTTTTCTTCAAGTTTCTTAAGGTAGACAT
* * * * * * * *
1047 TTAATTATAATATGTTTTAACCAA-AAATGTAAAAGGAATTGAACTTTAAATAAATTTTGAGATT
1 TCAATTATAATCTGTTTTAACTAAGAAATATAAAA-AAATTGAACTTAAAATCAATTATGAGATT
* * * *
1111 ATAAAACTATTTAAAGCGAGTAACAAGGCTTTTGAAGGAAAT-GGTGACTATAAATGGACTTTTC
65 ATAAAACCATTTAAAGCAAGTAATAAGGCTTTT-AAAGAAATGGGTGACTATAAATGGACTTTTC
* * * *
1175 TTACCAATGAATACTTTTTCTTCATA-TTTCTTGAGGTAGACAT
129 TTGCCAATCAATGCTTTTTCTTCA-AGTTTCTTAAGGTAGACAT
** * * *
1218 TCAATTATGGTCTGTTTTAAC-AAGAAATGTAAAAAAATTTAACTTAAAATTAATTATGAGATTA
1 TCAATTATAATCTGTTTTAACTAAGAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
* * ***
1282 TGAAACTATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGAAAGACTATAAATGGACTTTTCTT
66 TAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATGGACTTTTCTT
*** * * * *
1347 TTAAATACATATG-TTTTTCTACACGTTTCTTAATGTAGATAT
131 GCCAAT-CA-ATGCTTTTTCTTCAAGTTTCTTAAGGTAGACAT
* * * *
1389 TCAATTATAATCTG-TTTAACTAATAAAGA-AAAAAAATTGAACTTAATATCAATTTTGAGATTA
1 TCAATTATAATCTGTTTTAACTAAGAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
* ** * ** * *
1452 TAAAATCATTTAAAGTTAGTAATAAGGCTTTTAAAGAAATGCGTGACTATAGCTAGACTTTTTTT
66 TAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATGGACTTTTCTT
* *
1517 GCCAATGAATGCCTTTTTCTTCAAGTTTCTTGAGGTAGACAT
131 GCCAATCAATG-CTTTTTCTTCAAGTTTCTTAAGGTAGACAT
* * **********
1559 TCAATTATAATTTGTTTCAACTAA-AAATATAAAAAAATTGANNNNNNNNNNAATTATGAGATTA
1 TCAATTATAATCTGTTTTAACTAAGAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
* * * * *
1623 TAAAACCATTTCAACCAAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAGATGGACTTTCCTT
66 TAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATGGACTTTTCTT
* * *
1688 GCGAATCAATGCTTTTTTCTTCATGTTTCTCAAGGT-GAACAT
131 GCCAATCAATGC-TTTTTCTTCAAGTTTCTTAAGGTAG-ACAT
* * * * * * * * *
1730 TCAATTATACTCTATTTTAACCAA-AAATGTAAAAACAATTGCACATAACATGAATTATGAGAAT
1 TCAATTATAATCTGTTTTAACTAAGAAATATAAAAA-AATTGAACTTAAAATCAATTATGAGATT
* ** ** * ********** *
1794 ATAAAACCATTTCAAGTGAGTAATAAGGCTTTCGAAGGAATGNNNNNNNNNNAATGGACTTTTTT
65 ATAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATGGACTTTTCT
* * * * ** **
1859 TTCTCAATGAATGGCCTTTTCTACACCTTTCACAAGGTAGACAT
130 TGC-CAATCAAT-GCTTTTTCTTCAAGTTTCTTAAGGTAGACAT
** * * * * * * *
1903 TCAATTATAGCCTGTTTTAACGAA-AAATGT-AAAAAATTCAAGTTAAAATGAATTTTAAGATTA
1 TCAATTATAATCTGTTTTAACTAAGAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
* *
1966 TAAAAGCATTTAAAGCGAGTAATAAGGCTTTTGAAAG-AATGGGTGACT
66 TAAAACCATTTAAAGCAAGTAATAAGGCTTTT-AAAGAAATGGGTGACT
2014 NNNNNNNNNN
Statistics
Matches: 891, Mismatches: 220, Indels: 51
0.77 0.19 0.04
Matches are distributed among these distances:
168 3 0.00
169 32 0.04
170 325 0.36
171 316 0.35
172 157 0.18
173 55 0.06
174 3 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (171 bp):
TCAATTATAATCTGTTTTAACTAAGAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTA
TAAAACCATTTAAAGCAAGTAATAAGGCTTTTAAAGAAATGGGTGACTATAAATGGACTTTTCTT
GCCAATCAATGCTTTTTCTTCAAGTTTCTTAAGGTAGACAT
Found at i:4633 original size:172 final size:160
Alignment explanation
Indices: 4374--4685 Score: 282
Period size: 172 Copynumber: 1.9 Consensus size: 160
4364 GCATTCATTA
* * *
4374 GCAAGAAAACTTCATTTATATTCACACATTCCTTCAAAAGCCTTATTACTCGCTGTAAATAAATT
1 GCAAGAAAACTCCATTTATAGTCACACATTCCTTCAAAAGCCTTATGACTCGCTGTAAATAAATT
* * * ** * * **
4439 TCTAATTTCAAAAATAATTTTAAGTTCATTTTTTTAAATATTTTTGGTTAAAAAAGTTTATAATT
66 TATAATCTCAAAAATAATTTTAACTT-AAATTTTT-AACATTTTTAGTTAAAAAAGACTATAATT
4504 AAATGTCTACCTTGAAAAACATGAAGAAANNNNNNNNNNTTG
129 AAATGTCTACCTTGAAAAACATGAAGAAA----------TTG
* * * ** * * *
4546 GCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGCCTTATGACTTTCTTTAAATGATTT
1 GCAAGAAAACTCCATTTATAGTCACACATTCCTTCAAAAGCCTTATGACTCGCTGTAAATAAATT
* * * * * *
4611 TATAATCTCATAATTGATTTTAACTTAAATTTTTCACATTTTTAGTTAAAACAGACTATAATTGA
66 TATAATCTCAAAAATAATTTTAACTTAAATTTTTAACATTTTTAGTTAAAAAAGACTATAATTAA
4676 ATGTCTACCT
131 ATGTCTACCT
4686 CAAGAAACNN
Statistics
Matches: 114, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
170 34 0.30
171 6 0.05
172 74 0.65
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.38
Consensus pattern (160 bp):
GCAAGAAAACTCCATTTATAGTCACACATTCCTTCAAAAGCCTTATGACTCGCTGTAAATAAATT
TATAATCTCAAAAATAATTTTAACTTAAATTTTTAACATTTTTAGTTAAAAAAGACTATAATTAA
ATGTCTACCTTGAAAAACATGAAGAAATTG
Found at i:5938 original size:172 final size:170
Alignment explanation
Indices: 5421--7002 Score: 1392
Period size: 171 Copynumber: 9.2 Consensus size: 170
5411 ATTTATTTGA
* * ** *
5421 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGTGTTATTACTCGCTCTAAAT-GATTTT
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAG-TTTT
* * *** *
5485 ATATTCTCAAAATTGATTTTAAGTTTTTTTTTTTTACATTTATTGTT-AAACAGATTATAATTGA
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTT-TTGTTAAAACAGATTATAATTGA
* ** **
5549 TTGTCTACCTTGAGAAATGTGAA-AAAAATGACATTCATTTAC
129 ATGTCTACCTTGAGAAACATGAAGAAAAA-GACATTCATTGGC
* * * * * * *
5591 AGGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGGCTTATTACCCGTTTTAAAAAGTTTTA
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTA
* * * * * *
5656 TAATCTCATAACTGATTTTAAGTTGAATGTTTTTATATTTTTAGCTCAAACAAACTATAATTGAA
66 TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTT-GTTAAAACAGATTATAATTGAA
* *
5721 TGTCTACCTTAAGAAACGTGAAGAAAAA-AGCATTCATTGGC
130 TGTCTACCTTGAGAAACATGAAGAAAAAGA-CATTCATTGGC
**** ** *
5762 AAGAAAAGTCTATTTATAGTCGTTGATTCCTTCAAAAGCCTTATTACTTACTTTAAATAGTTTTT
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTA
* * * *
5827 TAATCTCAAAATTGATTTTAAGTTCAATATTTTTTATGTTTTTGCTTAAAACAAATTATAATTGA
66 TAATCTCATAATTGATTTTAAGTTGAAT-TTTTTTATATTTTTG-TTAAAACAGATTATAATTGA
* *
5892 ATGTCGACCTTGGGAAACATGAAGAAAAAGACATTCATTGGC
129 ATGTCTACCTTGAGAAACATGAAGAAAAAGACATTCATTGGC
* *
5934 AAGAAAAGT-TCATTTATAGTCACCCATTCCTTCAAAAG-CTATAGTATTCGCTTTAAA-AGGTT
1 AAGAAAAGTCT-ATTTATAGTCACCCATTCCTTCAAAAGCCT-TATTACTCGCTTTAAATA-GTT
* * * * * * *
5996 TTGTAATCTCATAACTGATTTTAAGTTAAATTGTTTGACATTTTTAGTTAAAACAGACTATAATT
63 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTT-GTTAAAACAGATTATAATT
* * * * *
6061 AAATGTCTATCTTGAGAAACATG-AGAAAAAATAAATTCATTGGA
127 GAATGTCTACCTTGAGAAACATGAAG-AAAAAGACATTCATTGGC
* * *
6105 AAGAAAAATCTATTTATTGTCACCCATTCTTTCAAAAGTCC-TATTACTTC-CTTTAAATAGTTT
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAG-CCTTATTAC-TCGCTTTAAATAGTTT
* * * *
6168 TATAATCTCAAAATTGATTTTAGGTTGAATTTTTTTTATTTTTTTAGTTGAAACAGATTATAATT
64 TATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTATATTTTT-GTTAAAACAGATTATAATT
* * * * * * *
6233 GAATATCTACCCTGACAAACATGTAGGAAAAGGCATTCATTAGC
127 GAATGTCTACCTTGAGAAACATGAAGAAAAAGACATTCATTGGC
* * * * * * *
6277 AAGAAAAGTTTATATATAGTGACCTATTCCTTCAAAAGCTTTAGTACTCACTTTAAA-AGTTTTT
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAG-TTTT
* * * * * ** *
6341 ATAATCTCATAATTAATTTTAAGTTAAATTTTTTCACATTTATGGTTAAAACAGACCATAATTGG
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTT-TTGTTAAAACAGATTATAATTGA
* * * * * ** * * *
6406 ATGCCTGCCAT-AGAAA-AAGTATAG-CAAATTCGATTTATTTGT
129 ATGTCTACCTTGAGAAACATG-A-AGAAAAAGAC-ATTCATTGGC
* ** * *
6448 AAGAAAAGTCCATTTATAGTGTCCCATTACTTCAAAAGCCTTATTACTCGCTTTAAATAGTTCTA
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTA
* * *
6513 TAATCTCATAATTGATTTCAAGTTGAATTTTTTTACTTTTTTTATTAAAACAGATTATAATTGAA
66 TAATCTCATAATTGATTTTAAGTTGAATTTTTTTA-TATTTTTGTTAAAACAGATTATAATTGAA
* * * *
6578 TGTCT-GCTTTAGGAAACGTGAA-AAAAGAGGCATTCATTGGC
130 TGTCTACCTTGA-GAAACATGAAGAAAA-AGACATTCATTGGC
* * * * *
6619 AAGAAAAGTCCATTTATAGTCACCCAATTCTTTCAAAATCCTTATTACTCACTTTAAATGGTTTT
1 AAGAAAAGTCTATTTATAGTCACCC-ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTT
* ** *
6684 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTCATCATTAAAA-AGATTATAATCGA
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATT-TTTGTTAAAACAGATTATAATTGA
* ** **
6748 ATGCCTACCTCAAGAAATGTGAAGAAAAAGACATTCATTGAG-
129 ATGTCTACCTTGAGAAACATGAAGAAAAAGACATTCATTG-GC
* * * * * *
6790 AAGAAAAATTTATTTAGAGTCACCCATTCCTTTAAAACCCTTAGTACTCGCTTTAAA-AGGTTTT
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATA-GTTTT
* * * * * * **
6854 ATAATTTCATAATTGATTGTAAGTTTAATTTTTTTACATTTCTAGTTAAAATAGGCTATAATTGA
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTT-TTGTTAAAACAGATTATAATTGA
* * ** *
6919 ATG-CATGA-CTT-AGAAAACTTGTAGAAAAATCCATTTATTTGG-
129 ATGTC-T-ACCTTGAG-AAACATGAAGAAAAAGACATTCA-TTGGC
*** *
6961 AAGAAAAGTCTATTTATAGTTTTCCATTCTTTCAAAAGCCTT
1 AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTT
7003 NNNNNNNNNN
Statistics
Matches: 1142, Mismatches: 224, Indels: 91
0.78 0.15 0.06
Matches are distributed among these distances:
169 4 0.00
170 179 0.16
171 574 0.50
172 380 0.33
173 5 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (170 bp):
AAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTA
TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGTTAAAACAGATTATAATTGAAT
GTCTACCTTGAGAAACATGAAGAAAAAGACATTCATTGGC
Found at i:6058 original size:343 final size:337
Alignment explanation
Indices: 5199--6921 Score: 1395
Period size: 343 Copynumber: 5.0 Consensus size: 337
5189 NNNNNNNNNN
* * * * * * *
5199 TTATAATTGAATGTCTACC-TCATGAAACATGAAGAAAAAGATATTCATTAGTAAAAAAAGTCCG
1 TTATAATTGAATGTCGACCTTGA-GAAACATGAA-AAAAAGACATTCATTGGCAAGAAAAGTCCA
* * * * *
5263 TTTATAGTTACCTATTCCTT-AGAAA-GCCTAATAACTCACTTTAAACGGTTTTATAATCTCATA
64 TTTATAGTCACCCATTCCTTCA-AAAGGCTTAGT-ACTCACTTTAAAAGGTTTTATAATCTCATA
* ********** * * * * * * * *
5326 ATTGNNNNNNNNNNAAATT-TTTTACATTTTTTGTTAAAACAGAATGTACTTAAATGCTTGCATT
127 ACTGATTTTAAGTTAAATTGTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTT
** * * * * * *
5390 GGGAAATGTGTAG-AAAATCTTATTTATTTGAAAGAAAAGTCCATTTATAGTC-TCCCATTCCTT
192 AAGAAACGTGAAGAAAAAGC--ATTCA-TTGGAAGAAAAGTCTATTTATAGTCAT-CCATTCCTT
** * * ***
5453 CAAAAGTGTTATTACTCGCTCTAAAT-GATTTTATATTCTCAAAATTGATTTTAAGTTTTTTTTT
253 CAAAAGCCTTATTACTCGCTTTAAATAG-TTTTATAATCTCAAAATTGATTTTAAGTTGAATTTT
*
5517 TTTACATTTATTGTT-AAACAGA
317 TTT--ATTTTTTGTTAAAACAGA
* * ** ** *
5539 TTATAATTGATTGTCTACCTTGAGAAATGTGAAAAAAATGACATTCATTTACAGGAAAAGTCCAT
1 TTATAATTGAATGTCGACCTTGAGAAACATGAAAAAAA-GACATTCATTGGCAAGAAAAGTCCAT
* * * ** *
5604 TTATAGTCACCCATTCTTTCAAAAGGCTTATTACCCGTTTTAAAAAGTTTTATAATCTCATAACT
65 TTATAGTCACCCATTCCTTCAAAAGGCTTAGTACTCACTTTAAAAGGTTTTATAATCTCATAACT
* * * * * *
5669 GATTTTAAGTTGAA-TGTTTTTATATTTTTAGCTCAAACAAACTATAATTGAATGTCTACCTTAA
130 GATTTTAAGTTAAATTG-TTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTTAA
* **
5733 GAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCGTTGATTCCTTCAAA
194 GAAACGTGAAG-AAAAAGCATTCATTGG-AAGAAAAGTCTATTTATAGTCATCCATTCCTTCAAA
** * *
5798 AGCCTTATTACTTACTTTAAATAGTTTTTTAATCTCAAAATTGATTTTAAGTTCAATATTTTTTA
257 AGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT-TTTTTTA
*
5863 TGTTTTTGCTTAAAACAAA
321 T-TTTTTG-TTAAAACAGA
* *
5882 TTATAATTGAATGTCGACCTTGGGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTTCAT
1 TTATAATTGAATGTCGACCTTGAGAAACATGAA-AAAAAGACATTCATTGGCAAGAAAAGTCCAT
* * *
5947 TTATAGTCACCCATTCCTTCAAAA-GCTATAGTATTCGCTTTAAAAGGTTTTGTAATCTCATAAC
65 TTATAGTCACCCATTCCTTCAAAAGGCT-TAGTACTCACTTTAAAAGGTTTTATAATCTCATAAC
* * * * *
6011 TGATTTTAAGTTAAATTGTTTGACATTTTTAGTTAAAACAGACTATAATTAAATGTCTATCTTGA
129 TGATTTTAAGTTAAATTGTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTTAA
* ** * * * *
6076 GAAACATG-AGAAAAAATAAATTCATTGGAAAGAAAAATCTATTTATTGTCACCCATTCTTTCAA
194 GAAACGTGAAG-AAAAA-GCATTCATTGG-AAGAAAAGTCTATTTATAGTCATCCATTCCTTCAA
*
6140 AAGTCC-TATTACTTC-CTTTAAATAGTTTTATAATCTCAAAATTGATTTTAGGTTGAATTTTTT
256 AAG-CCTTATTAC-TCGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAA-TTTTT
*
6203 TTATTTTTTTAGTTGAAACAGA
318 TTA-TTTTTT-GTTAAAACAGA
* * * * ** * * **
6225 TTATAATTGAATATCTACCCTGACAAACATGTAGGAAAAGGCATTCATTAGCAAGAAAAGTTTAT
1 TTATAATTGAATGTCGACCTTGAGAAACATG-AAAAAAAGACATTCATTGGCAAGAAAAGTCCAT
* * * * *
6290 ATATAGTGACCTATTCCTTCAAAA-GCTTTAGTACTCACTTTAAAAGTTTTTATAATCTCATAAT
65 TTATAGTCACCCATTCCTTCAAAAGGC-TTAGTACTCACTTTAAAAGGTTTTATAATCTCATAAC
* * * * * * *
6354 TAATTTTAAGTTAAATT-TTTTCACATTTATGGTTAAAACAGACCATAATTGGATGCCTGCCAT-
129 TGATTTTAAGTTAAATTGTTTT-ACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTTA
* * ** * * * * *
6417 AGAAAAAGT-ATAGCAAATTCGATTTATTTGTAAGAAAAGTCCATTTATAGT-GTCCCATTACTT
193 AG-AAACGTGA-AGAAAAAGC-ATTCA-TTGGAAGAAAAGTCTATTTATAGTCAT-CCATTCCTT
* * *
6480 CAAAAGCCTTATTACTCGCTTTAAATAGTTCTATAATCTCATAATTGATTTCAAGTTGAATTTTT
253 CAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTTTT
*
6545 TTACTTTTTTTATTAAAACAGA
318 TTA--TTTTTTGTTAAAACAGA
* * *
6567 TTATAATTGAATGTCTG--CTTTAGGAAACGTGAAAAAAGAGGCATTCATTGGCAAGAAAAGTCC
1 TTATAATTGAATGTC-GACCTTGA-GAAACATGAAAAAA-AGACATTCATTGGCAAGAAAAGTCC
* ** * *
6630 ATTTATAGTCACCCAATTCTTTCAAAATCCTTATTACTCACTTTAAATGGTTTTATAATCTCATA
63 ATTTATAGTCACCC-ATTCCTTCAAAAGGCTTAGTACTCACTTTAAAAGGTTTTATAATCTCATA
* * * * * * * *
6695 ATTGATTTTAAGTTGAATTTTTTTATATTCATCA-TTAAAA-AGATTATAATCGAATGCCTACCT
127 ACTGATTTTAAGTTAAATTGTTTTACATT-TTTAGTTAAAACAGACTATAATTGAATGCCTACCT
* * * * * * *
6758 CAAGAAATGTGAAGAAAAAGACATTCATTGAGAAGAAAAATTTATTTAGAGTCACCCATTCCTTT
191 TAAGAAACGTGAAGAAAAAG-CATTCATTG-GAAGAAAAGTCTATTTATAGTCATCCATTCCTTC
* * * * * *
6823 AAAACCCTTAGTACTCGCTTTAAA-AGGTTTTATAATTTCATAATTGATTGTAAGTTTAATTTTT
254 AAAAGCCTTATTACTCGCTTTAAATA-GTTTTATAATCTCAAAATTGATTTTAAGTTGAATTTTT
* * * *
6887 TTACATTTCTAGTTAAAATAGG
318 TT--ATTTTTTGTTAAAACAGA
*
6909 CTATAATTGAATG
1 TTATAATTGAATG
6922 CATGACTTAG
Statistics
Matches: 1112, Mismatches: 220, Indels: 100
0.78 0.15 0.07
Matches are distributed among these distances:
339 6 0.01
340 99 0.09
341 145 0.13
342 236 0.21
343 600 0.54
344 26 0.02
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.38
Consensus pattern (337 bp):
TTATAATTGAATGTCGACCTTGAGAAACATGAAAAAAAGACATTCATTGGCAAGAAAAGTCCATT
TATAGTCACCCATTCCTTCAAAAGGCTTAGTACTCACTTTAAAAGGTTTTATAATCTCATAACTG
ATTTTAAGTTAAATTGTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGCCTACCTTAAGA
AACGTGAAGAAAAAGCATTCATTGGAAGAAAAGTCTATTTATAGTCATCCATTCCTTCAAAAGCC
TTATTACTCGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTTTTTTATTTTT
TGTTAAAACAGA
Found at i:8190 original size:170 final size:170
Alignment explanation
Indices: 7880--9602 Score: 1228
Period size: 170 Copynumber: 10.1 Consensus size: 170
7870 NNNNNNNNNN
* * * *
7880 AGCCTTATTACTCGCTTTAAATAGTTTTATAATC-CTAAAATTCATTTTAAGTTCAATTGGTTTA
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC-ATAATTGATTTTAAGTTAAATT-GTTTA
* * * ** * * * * **
7944 TATTTTTGGTTAAAACAGATTATAATTGAATATCTATTTCATGAAACGTAAAGACAAAGATGTTC
64 TATTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC
**
8009 ATT-GACAAGAAAAGTTTATTTATAGTCACCTATTCCTTCAAA
129 ATTAG-CAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAA
* ** * * *
8051 AGCCTAACAACTCGCTTTAAACGGTTTTAAAATCTCCTAATTGATTTTAAGTTAAATTGTTTATA
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTGTTTATA
********** *
8116 TTTTTAGTTAAAACAGACTATANNNNNNNNNNTACCTCAAGAAACATGAAGAAAAAGGCATTCAT
66 TTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCAT
* * * * *
8181 TAGCAAGAAAAATCTATTTATAGTCTCTTATTCCCTCAAA
131 TAGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAA
* * * * * * **
8221 AGTCTTATTACTCACTTTAAATAGTTTTACAATGTCATAATTGATTTTAAGTGCAGTTTTGTTCT
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGT-TA-AATTGTT-T
* * * * * *
8286 AAATTATTAGGTAAAACGGATTATAATTGAATGTTTACCTCGAA-AAACATGAAGAAAAAGACAT
63 ATATTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTC-AAGAAACATGAAGAAAAAGACAT
* * * * *
8350 TCATTGGTAAAAAAAGTCCATTTATAGTCACCAATTCTTTCAAA
127 TCATTAGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAA
* * * * * * * *
8394 AGCCTTATTACTCGTTTTAAGTGCTTTTATAATCTTATAATTAATTTTAAGTTGAATTTTTTTAC
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTT-AAATTGTTTAT
* * * * * * *
8459 ATTCTTCGTTAAAGCAGACTACAATTGAATGTCT-CCTCAAGAAACGTGTAGAAAAAGTCATTCA
65 ATTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCA
*
8523 TTGAG-AA-AAAAGGTTCATTTATAGTCA-CTCATTCCTTCAAA
130 TT-AGCAAGAAAA-GTCCATTTATAGTCACCT-ATTCCTTCAAA
* * * *
8564 AGTCTTATTACTCGCTTTAAAAGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTATA
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTGTTTATA
* * * *** * * ** *
8629 TTTTTGGTTAAAATAGACTATAATTGAATGCCTACCTTGGGAAACGTGTA-AAAAATCCTATTTA
66 TTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGAC-ATTCA
* * * * * *
8693 TTTGTAAGAAAAGTCTATTTATAGTCTCTTATTCTTTCAAA
130 TTAGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAA
* * * * * * * * *
8734 AGCTTTATTACTTGCTTTAAGTAGTTTTATAATCTTAAAATTGAGTTTAAGTTCAATTTTTTTTA
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTT-AA-ATTGTTTA
* * * * * * ** * *
8799 CATTTATGGCTAAAACAGATTATAATTGATTGTCTACCTTGAGAAACATAAAGAAAATGACATTC
64 TATTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC
* *
8864 ATT-GACAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAA
129 ATTAG-CAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAA
* ** * * *
8906 AGCCTTATTACTCACTTTAAAAAGTTTAATAATCTCATAACTGATTTTAAG-TATAA-TGTTTTT
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTA-AATTGTTTAT
* * * * *
8969 ACTTTTTTAGCTCAAACAAACTATAATTGAATGTCTACCTTAAAAAACATGAAGAAAAAG-CATT
65 A--TTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATT
** * *
9033 C-GCAGGCAAGAAAAGTCTATATATAGTCA-CTGATTCCTTCAAA
128 CATTA-GCAAGAAAAGTCCATTTATAGTCACCT-ATTCCTTCAAA
* * ** * * * * * * *
9076 ACCCTTATTAGTTACTGTAAATGGTTTTATAACCTCAAAACTAATTTTAAGTTCAATTTTTTTTT
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTT-AA--ATTGTTT
* * * * * *
9141 ATATTTTT-GCTTTAAACAGATTATAATTGAATGTTTACCAT-AAAAAACATGAAGAAAAGGGCA
63 ATATTTTTAG-TTAAAACAGACTATAATTGAATGTCTACC-TCAAGAAACATGAAGAAAAAGACA
* * *
9204 TTCATTGGCAA-AAAATGTCTATTTATAGTCA-CTCATTCCTTTAAA
126 TTCATTAGCAAGAAAA-GTCCATTTATAGTCACCT-ATTCCTTCAAA
* * * * * *
9249 AG-CTTGAATACTCTCTTTCAAA-GGTTTTATAATCTCATAATTAATTTTAAATTGAATTTTTTT
1 AGCCTT-ATTACTCGCTTT-AAATGGTTTTATAATCTCATAATTGATTTTAAGTT-AAATTGTTT
* * * * * * * * ***
9312 ACATTTATGGTTAAAACAGACTATAATTGAAAGCCTACCTTAGGAAACGT-ATAGAAAATCCCAT
63 ATATTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGA-AGAAAAAGACAT
* * * * * ** *
9376 TTATTTGTACGAAAAGTCTATTTATAGT-GTCTCATTCCTT-TAA
127 TCATTAGCAAGAAAAGTCCATTTATAGTCACCT-ATTCCTTCAAA
* * * ** *
9419 AGTCGTATTACTCGCTTTAAATGGTTTTATAATCTTATAATTGATTTTAAGTTGTATTTTTTTTA
1 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAG-T-TAAATTGTTTA
* * * * * * *
9484 TTTTTTTA-TTAAAACAGACTATAATTGAATGTCTACTTTAGGAAAAATAAAGAAAAAGGCATTC
64 TATTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC
* * *
9548 ATT-GCCAAGAAAAGTCCATTTATAGTTACCCATTCTTTCAAA
129 ATTAG-CAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAA
9590 AGCCTTATTACTC
1 AGCCTTATTACTC
9603 ACTTNNNNNN
Statistics
Matches: 1223, Mismatches: 278, Indels: 102
0.76 0.17 0.06
Matches are distributed among these distances:
169 60 0.05
170 503 0.41
171 249 0.20
172 199 0.16
173 201 0.16
174 11 0.01
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (170 bp):
AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTAAATTGTTTATA
TTTTTAGTTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTCAT
TAGCAAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAA
Found at i:8514 original size:343 final size:335
Alignment explanation
Indices: 8148--9606 Score: 1253
Period size: 343 Copynumber: 4.3 Consensus size: 335
8138 NNNNNNNNNN
* * *
8148 TACCTCAAGAAACATGAAGAAAAAGGCATTCATTAGCAAGAAAA-ATCTATTTATAGTCTCTTAT
1 TACCTCAAGAAACATGAAGAAAAAGGCATTCATTAGCAA-AAAAGGTCTATTTATAGTCACTCAT
* * *
8212 TCCCTCAAAAGTCTTATTACTCACTTTAAATAGTTTTACAATGTCATAATTGATTTTAAGTGCAG
65 TCCTTCAAAAGTCTTATTACTCACTTTAAA-AGTTTTATAATCTCATAATTGATTTTAAGTG-A-
* * * *
8277 TTTTGTTCTAAATTATTAGGTAAAACGGATTATAATTGAATGTTTACCTCGAAAAACATGAAGAA
127 TTTT-TT-TAAATT-TTAGGTAAAACAGACTATAATTGAATGTCTACCTTGAAAAACATGAAGAA
* * * *
8342 AAAGACATTCATTGGTAAAAAAAGTCCATTTATAGTCACCAATTCTTTCAAAAGCCTTATTACTC
189 AAAG-CATTCATTGGTAAGAAAAGTCTATTTATAGTCACTAATTCTTTCAAAAGCCTTATTACTT
* * *
8407 GTTTTAAGTGCTTTTATAATCTTATAATTAATTTTAAGTTGAA-TTTTTTTACATTCTTCGTTAA
253 GCTTTAAGTG-TTTTATAATCTTAAAATTAATTTTAAGTTCAATTTTTTTTACATT-TTCGTTAA
* *
8471 AGCAGACTACAATTGAATGTC
316 A-CAGATTATAATTGAATGTC
* * *
8492 T-CCTCAAGAAACGTGTAGAAAAAGTCATTCATTGAG-AAAAAAGGT-TCATTTATAGTCACTCA
1 TACCTCAAGAAACATGAAGAAAAAGGCATTCATT-AGCAAAAAAGGTCT-ATTTATAGTCACTCA
*
8554 TTCCTTCAAAAGTCTTATTACTCGCTTTAAAAGGTTTTATAATCTCATAATTGATTTTAAGTTGA
64 TTCCTTCAAAAGTCTTATTACTCACTTTAAAA-GTTTTATAATCTCATAATTGATTTTAAG-TGA
* * * * * ** *
8619 ATTTTTTATATTTTTGGTTAAAATAGACTATAATTGAATGCCTACCTTGGGAAACGTGTAA-AAA
127 TTTTTTTAAATTTTAGG-TAAAACAGACTATAATTGAATGTCTACCTTGAAAAACATG-AAGAAA
** * * * * *
8683 ATCCTATTTATTTGTAAGAAAAGTCTATTTATAGTCTCTTATTCTTTCAAAAGCTTTATTACTTG
190 AAGC-ATTCATTGGTAAGAAAAGTCTATTTATAGTCACTAATTCTTTCAAAAGCCTTATTACTTG
* * * *
8748 CTTTAAGTAGTTTTATAATCTTAAAATTGAGTTTAAGTTCAATTTTTTTTACATTTATGGCTAAA
254 CTTTAAGT-GTTTTATAATCTTAAAATTAATTTTAAGTTCAATTTTTTTTACATTT-TCG-TTAA
*
8813 ACAGATTATAATTGATTGTC
316 ACAGATTATAATTGAATGTC
** * * * * *
8833 TACCTTGAGAAACATAAAGAAAATGACATTCATT-GACAAGAAAA-GTCCATTTATAGTCACCCA
1 TACCTCAAGAAACATGAAGAAAAAGGCATTCATTAG-CAA-AAAAGGTCTATTTATAGTCACTCA
* * * *
8896 TTCTTTCAAAAGCCTTATTACTCACTTTAAAAAGTTTAATAATCTCATAACTGATTTTAAGT-AT
64 TTCCTTCAAAAGTCTTATTACTCACTTT-AAAAGTTTTATAATCTCATAATTGATTTTAAGTGAT
** * * * *
8960 AATGTTTTTACTTTTTTAGCTCAAACAAACTATAATTGAATGTCTACCTTAAAAAACATGAAGAA
128 --T-TTTTTA-AATTTTAGGTAAAACAGACTATAATTGAATGTCTACCTTGAAAAACATGAAGAA
*** * * * * * * *
9025 AAAGCATTCGCAGGCAAGAAAAGTCTATATATAGTCACTGATTCCTTCAAAACCCTTATTAGTTA
189 AAAGCATTCATTGGTAAGAAAAGTCTATTTATAGTCACTAATTCTTTCAAAAGCCTTATTACTTG
* * * * * * *
9090 CTGTAAATGGTTTTATAACCTCAAAACTAATTTTAAGTTCAATTTTTTTTTATATTTTTGCTTTA
254 CTTTAAGT-GTTTTATAATCTTAAAATTAATTTTAAGTTCAA-TTTTTTTTACA-TTTT-CGTTA
*
9155 AACAGATTATAATTGAATGTT
315 AACAGATTATAATTGAATGTC
* * * *
9176 TACCAT-AAAAAACATGAAGAAAAGGGCATTCATTGGCAAAAAATGTCTATTTATAGTCACTCAT
1 TACC-TCAAGAAACATGAAGAAAAAGGCATTCATTAGCAAAAAAGGTCTATTTATAGTCACTCAT
* * * * * *
9240 TCCTTTAAAAG-CTTGAATACTCTCTTTCAAAGGTTTTATAATCTCATAATTAATTTTAAATTGA
65 TCCTTCAAAAGTCTT-ATTACTCACTTT-AAAAGTTTTATAATCTCATAATTGATTTT-AAGTG-
* * * * *
9304 ATTTTTTTACA-TTTATGGTTAAAACAGACTATAATTGAAAGCCTACCTT-AGGAAACGT-ATAG
126 ATTTTTTTAAATTTTA-GG-TAAAACAGACTATAATTGAATGTCTACCTTGA-AAAACATGA-AG
** * * * ** * * *
9366 AAAATCCCATTTATTTGTACGAAAAGTCTATTTATAGTGTCTCATTCCTTT--AAAGTCGTATTA
187 AAAA-AGCATTCATTGGTAAGAAAAGTCTATTTATAGTCACTAATT-CTTTCAAAAGCCTTATTA
* * * * ** ** **
9429 CTCGCTTTAAATGGTTTTATAATCTTATAATTGATTTTAAGTTGTATTTTTTTTATTTTTTTATT
250 CTTGCTTTAAGT-GTTTTATAATCTTAAAATTAATTTTAAGTTCAATTTTTTTTACATTTTCGTT
*
9494 AAAACAGACTATAATTGAATGTC
314 -AAACAGATTATAATTGAATGTC
* * * * * * * *
9517 TACTTTAGGAAAAATAAAGAAAAAGGCATTCATT-GCCAAGAAAA-GTCCATTTATAGTTACCCA
1 TACCTCAAGAAACATGAAGAAAAAGGCATTCATTAG-CAA-AAAAGGTCTATTTATAGTCACTCA
* *
9580 TTCTTTCAAAAGCCTTATTACTCACTT
64 TTCCTTCAAAAGTCTTATTACTCACTT
9607 NNNNNNNNNN
Statistics
Matches: 900, Mismatches: 171, Indels: 91
0.77 0.15 0.08
Matches are distributed among these distances:
339 5 0.01
340 133 0.15
341 129 0.14
342 217 0.24
343 363 0.40
344 48 0.05
345 3 0.00
346 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (335 bp):
TACCTCAAGAAACATGAAGAAAAAGGCATTCATTAGCAAAAAAGGTCTATTTATAGTCACTCATT
CCTTCAAAAGTCTTATTACTCACTTTAAAAGTTTTATAATCTCATAATTGATTTTAAGTGATTTT
TTTAAATTTTAGGTAAAACAGACTATAATTGAATGTCTACCTTGAAAAACATGAAGAAAAAGCAT
TCATTGGTAAGAAAAGTCTATTTATAGTCACTAATTCTTTCAAAAGCCTTATTACTTGCTTTAAG
TGTTTTATAATCTTAAAATTAATTTTAAGTTCAATTTTTTTTACATTTTCGTTAAACAGATTATA
ATTGAATGTC
Found at i:10167 original size:170 final size:170
Alignment explanation
Indices: 9713--12125 Score: 1771
Period size: 171 Copynumber: 14.1 Consensus size: 170
9703 NNNNATAGTC
* * * * *
9713 TGTTTTAACTAAAAATGTAAAAAAATTTAATTTAAAATCAATTATGAGCTTATAGAACC-TTTGA
1 TGTTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT-A
* * * * **********
9777 AAGAGAGTATTCAA-GCTTTTAAAGGAATGAGTGACTATAAATNNNNNNNNNNTGCCAATGAATG
65 AAGCGAGTAAT-AAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATG
* ** * *
9841 CCTTTTCTTCATGTTT-TTTATGGTAGATATTCAATTATAATA
129 CTTTTTCTTCATGTTTCTCGA-GGTAGACATTCAATTATAATT
* * * * *
9883 TGTTTTAAGC-AAAAATGCAAAAAAAATTGAACTTAAAATCAATTTTGAGGTTATAAAACCATTT
1 TGTTTTAA-CTAAAAAAG-TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* ** * * * * * *
9947 ACAGTAAGTAATAAGGGTTTTGAAGGAATCG-GTGACTATATATAGACTTTTCTTGCTAACGAAT
64 AAAGCGAGTAATAAGGCTTTTGAAGGAAT-GAGAGACTATAAATGGACTTTTCTTGCCAATGAAT
*
10011 GCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAATT
128 GCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATT
* * * * * * *
10054 TGTTTGAGCCAAAAAAGTAAAAACATTCAATTTAAAATCAGTTATGAGATTATAAAACCTTTTAA
1 TGTTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
********** *** *
10119 AGCGAGTAANNNNNNNNNNGAAGGAATGAGAGACTATAAATGGACTTTTCTTATAAATAAATAAG
66 AGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAAT--G
* * * * * * * * *
10184 -ATTTTCTACACGTTTCCCAAGGTTGGCATTCAATTATAGTC
129 CTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATT
** * * *
10225 AATTTTAACTAAAAATATAAAAAATATAAAAAATTCAACTTAAAATTAATTATGAGGTTATAAAA
1 TGTTTTAAC------TA-AAAAAGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * * * *
10290 CAATTTAAAGCGAGTAATAAGGCATTTGAAAGAATGGGTGACTATAACTGGACTTTTCTTGCTAA
58 CCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * **
10355 TGAATGTCATTTTCTTTATGTTTCTCGAGGTAGGTATTCAATTATAATCT
123 TGAATG-CTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAAT-T
* * * * * *
10405 T-TTTTAGA-GATAAATGTAAAAAAAATTGAACTTAAAATGAATTTTGAGATTATAAAACCATTT
1 TGTTTTA-ACTAAAAAAGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* * * * * *
10468 AAAGTGAGTAATAAGGCCTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTACAAATAAATA
64 AAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAAT-
** * * ** * * *
10533 GGATTTTCTACATGTTTC-CTAAGACAGGCATTCAATTATAGTA
128 GCTTTTTCTTCATGTTTCTC-GAGGTAGACATTCAATTATAATT
* * *
10576 TGTTTTCACT-AAAAA-TATAAAAAAGTCAACTTAAAATCAATTATGAGTTTATAAAACCATTTA
1 TGTTTTAACTAAAAAAGTA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
* * * * *
10639 AAGC-AGGTTATTAGGATTTTGAAGGAAT-AGGTGACTATAAACGGACTTTTCTTGCCAATGAAT
65 AAGCGA-GTAATAAGGCTTTTGAAGGAATGA-GAGACTATAAATGGACTTTTCTTGCCAATGAAT
* * *
10702 ATCTTTTCCTTCATGTTTCAT-GAGGTAGACATTCAATTATAATC
128 -GCTTTTTCTTCATGTTTC-TCGAGGTAGACATTCAATTATAATT
* * * * *
10746 TGTTTTAACCAAAAATA-TAAAAAAATTGAACTTAAAATCAATTTTGATATTATAAAACCATGTA
1 TGTTTTAACTAAAAA-AGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
* * *
10810 AAGCGAGTAATAAGGCTTTTGAAGGAATGA-ATTACTATAAATGAACTTTTCTTGCCAACGAATG
65 AAGCGAGTAATAAGGCTTTTGAAGGAATGAGA-GACTATAAATGGACTTTTCTTGCCAATGAATG
* *
10874 TCTTTTTCTTC-TCATTTCTCAAGGTAGACATTCAATTAT-ATT
129 -CTTTTTCTTCAT-GTTTCTCGAGGTAGACATTCAATTATAATT
* * ** * * * *
10916 CTATTTTAA-TCAATAATTTAAAATAAA-ACAGAAGC-AAAAATCAATTATGACATTATAAAATC
1 -TGTTTTAACT-AAAAAAGTAAAA-AAATTC--AA-CTTAAAATCAATTATGAGATTATAAAACC
* * * * * *
10978 ATTTAAAGCGAGTAGTAAGACTTTTGAGGGAATGAGAGAATATAAATGGACTTTTCTTACCAATA
60 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATG
* * ** * *
11043 AATGTTTTTTTCTTCATGTTTCTTGAATTAGCCATTCAATTATAGTT
125 AATG-CTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATT
* * *
11090 TGTTTTAACT-AAAAATTTAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
1 TGTTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
** * * * * *
11154 AGCGAGTTGTTAGGCTTTTGAAGGAAT-AGGTGACTATAACTGGACTTTTCTTGTCAATGAATAT
66 AGCGAGTAATAAGGCTTTTGAAGGAATGA-GAGACTATAAATGGACTTTTCTTGCCAATGAAT-G
* * * * * *
11218 CTTTTTCTTCATGTTTCACAAGATAGATATTTAATTATAATC
129 CTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATT
* * * *
11260 TGTTTTAACTAAAAATA-TAAAAAAATTAAACTTAAAATTAATTTTGAGATTATAAAACCATTGA
1 TGTTTTAACTAAAAA-AGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
* * *
11324 AAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGC
65 AAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATG-
* * * *
11389 CTGTTTCTTCATGTTGCTCGAGGTAGACTTTCAATTATAATC
129 CTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATT
* * * *
11431 TGTTTTCA-TAAAAAATGTAAAAACATTCAACTTAAAATCAATTATGACAATATAAAACCATTTA
1 TGTTTTAACTAAAAAA-GTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
* * * ** *
11495 AAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGAATATAAATAAACTTTTCTTGCCAATAAATGC
65 AAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGC
* * *
11560 TTTTTTCTTCATGTTTCAT-GAGGTAGACGTTCAATTGTAGTT
130 -TTTTTCTTCATGTTTC-TCGAGGTAGACATTCAATTATAATT
* * ********** *
11602 TGTTTTAACCAAAAATGTAANNNNNNNNNNCTTAAAATGAATTATGAGATTATAAAACCATTTAA
1 TGTTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
* * * * *
11667 AGCGAGTAGTAAGGCTTTTTAAGGAATTG-GTGACTATAAATGGACCTTTCTT-CTCAATGATAG
66 AGCGAGTAATAAGGCTTTTGAAGGAA-TGAGAGACTATAAATGGACTTTTCTTGC-CAATGA-AT
* * * * * *
11730 GCTTTTT-TTACATGTTTCTCAAGGCAAACATTCAATTGTAGTC
128 GCTTTTTCTT-CATGTTTCTCGAGGTAGACATTCAATTATAATT
* * * * * **********
11773 TGTTTTAACGAAGAATGTAAAAAAAAATCAGCTTAAAATCAATTATGAGATTNNNNNNNNNNTTA
1 TGTTTTAACTAAAAAAGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTA
** **
11838 AAGCGAGTAATAAGGC-TTTGAAGGAATTG-GTA-ACTATAAATGCCCTTTTCTCACCAATGAAT
65 AAGCGAGTAATAAGGCTTTTGAAGGAA-TGAG-AGACTATAAATGGACTTTTCTTGCCAATGAAT
* *
11900 GCCTTTTTCTTC-TCGTTTCTCGATGTAGACATTCAATTATAATC
128 G-CTTTTTCTTCAT-GTTTCTCGAGGTAGACATTCAATTATAATT
* ** * * * * ** *
11944 TGTTTTGACTAAAAAAGTAAAAAGAAATAGAACTTGAAGTCAATTTTGATATCGTACAACCATTT
1 TGTTTTAACTAAAAAAGT-AAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTT
* * * * * * * *
12009 GAAGTGAGTAATAAAGCTTTTGAAGGAATGGGTGAGC-ATAAATAGACTTTTCTAGCTAATGAAT
64 AAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGA-CTATAAATGGACTTTTCTTGCCAATGAAT
* * * * *
12073 GAATTTTTCTTCATGTTTCTCAAGGCAGACATTCAATTATAGTC
128 G-CTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATT
12117 TGTTTTAAC
1 TGTTTTAAC
12126 CAAANNNNNN
Statistics
Matches: 1761, Mismatches: 401, Indels: 159
0.76 0.17 0.07
Matches are distributed among these distances:
169 7 0.00
170 366 0.21
171 802 0.46
172 249 0.14
173 199 0.11
174 8 0.00
177 2 0.00
178 7 0.00
179 120 0.07
180 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
TGTTTTAACTAAAAAAGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAA
AGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCT
TTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATT
Found at i:11123 original size:514 final size:507
Alignment explanation
Indices: 9711--12125 Score: 2037
Period size: 514 Copynumber: 4.7 Consensus size: 507
9701 NNNNNNATAG
* * * * * * *
9711 TCTGTTTTAACTAAAAATGTAAAAAAATTTAATTTAAAATCAATTATGAGCTTATAGAACCTTTG
1 TCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT-
* * * * **********
9776 AAAGAGAGTATTCAA-GCTTTTAAAGGAATGAGTGACTATAAATNNNNNNNNNNTGCCAATGAAT
65 AAAGCGAGTAAT-AAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* ** * * * * *
9840 GCC-TTTTC-TTCATGTTTTTTATGGTAGATATTCAATTATAATATGTTTTAAGCAAAAATGCAA
129 GCCTTTTTCTTTCAT-TTCTCGA-GGTAGACATTCAATTATAATCTGTTTTAA-TAATAATGTAA
* * ** * * *
9903 AAAAAATTGAACTTAAAATCAATTTTGAGGTTATAAAACCATTTACAGTAAGTAATAAGGGTTTT
191 AAAAAA-CGAACTTAAAATCAATTATGACATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
* * * * * ** * *
9968 GAAGGAATCG-GTGACTATATATAGACTTTTCTTGCTAACGAATGCTTTTTCTTCATGTTTCTTG
255 GAAGGAAT-GAGAGAATATAAATAGACTTTTCTTACCAATAAATGTTTTTTCTTCATGTTTCATG
** * * * * * * *
10032 AGGTAGACATTCAATTATAATTTGTTTGAGCCAAAAA-AGTAAAAACATTCAATTTAAAATCAGT
319 AAATAGACATTCAATTATAGTTTGTTTTAACTAAAAATA-TAAAAA-AGTCAACTTAAAATCAAT
* * ********** * *
10096 TATGAGATTATAAAACCTTTTAAAGCGAGTAANNNNNNNNNNGAAGGAAT-GAGAGACTATAAAT
382 TATGAGATTATAAAACCATTTAAAGCGAGTTATTAGGCTTTTGAAGGAATAG-GTGACTATAAAC
*** * ** * * ** * * *
10160 GGACTTTTCTTATAAATAAATAAGATTTTCTACACGTTTCCCAAGGTTGGCATTCAATTATAG
446 GGACTTTTCTTGCCAATGAAT-ATCTTTTCTTCATGTTTCATAAGGTAGACATTCAATTATAA
** * * *
10223 TCAATTTTAACTAAAAATATAAAAAATATAAAAAATTCAACTTAAAATTAATTATGAGGTTATAA
1 TCTGTTTTAAC-CAAAA-AT-----ATA-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* * * * *
10288 AACAATTTAAAGCGAGTAATAAGGCATTTGAAAGAATGGGTGACTATAACTGGACTTTTCTTGCT
58 AACCA-TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCC
* * ** * *
10353 AATGAATGTCATTTTCTTT-ATGTTTCTCGAGGTAGGTATTCAATTATAATCTTTTTTAGA-GAT
122 AATGAATGCCTTTTTCTTTCA--TTTCTCGAGGTAGACATTCAATTATAATCTGTTTTA-ATAAT
* * * *
10416 AAATGTAAAAAAAATTGAACTTAAAATGAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATA
184 -AATGTAAAAAAAA-CGAACTTAAAATCAATTATGACATTATAAAACCATTTAAAGTGAGTAATA
* * * ** *
10481 AGGCCTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTACAAATAAATAGGATTTTCTACAT
247 AGGCTTTTGAAGGAATGAGAGAATATAAATAGACTTTTCTTACCAATAAAT-GTTTTTTCTTCAT
* * * * *
10546 GTTTCCT-AAGACAGGCATTCAATTATAGTATGTTTTCACTAAAAATATAAAAAAGTCAACTTAA
311 GTTTCATGAA-ATAGACATTCAATTATAGTTTGTTTTAACTAAAAATATAAAAAAGTCAACTTAA
* *
10610 AATCAATTATGAGTTTATAAAACCATTTAAAGC-AGGTTATTAGGATTTTGAAGGAATAGGTGAC
375 AATCAATTATGAGATTATAAAACCATTTAAAGCGA-GTTATTAGGCTTTTGAAGGAATAGGTGAC
*
10674 TATAAACGGACTTTTCTTGCCAATGAATATCTTTTCCTTCATGTTTCATGAGGTAGACATTCAAT
439 TATAAACGGACTTTTCTTGCCAATGAATATCTTTT-CTTCATGTTTCATAAGGTAGACATTCAAT
10739 TATAA
503 TATAA
* * *
10744 TCTGTTTTAACCAAAAATATAAAAAAATTGAACTTAAAATCAATTTTGATATTATAAAACCATGT
1 TCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT-T
** * * *
10809 AAAGCGAGTAATAAGGCTTTTGAAGGAATGAATTACTATAAATGAACTTTTCTTGCCAACGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATG
* * * * *
10874 TCTTTTTCTTCTCATTTCTCAAGGTAGACATTCAATTATATTCTATTTTAATCAATAATTTAAAA
130 CCTTTTTCTT-TCATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAAT-AATAATGTAAAA
* * * * *
10939 TAAAACAGAAGC-AAAAATCAATTATGACATTATAAAATCATTTAAAGCGAGTAGTAAGACTTTT
193 -AAAAC-GAA-CTTAAAATCAATTATGACATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
* * *
11003 GAGGGAATGAGAGAATATAAATGGACTTTTCTTACCAATAAATGTTTTTTTCTTCATGTTTCTTG
255 GAAGGAATGAGAGAATATAAATAGACTTTTCTTACCAATAAATG-TTTTTTCTTCATGTTTCATG
* * * * *
11068 AATTAGCCATTCAATTATAGTTTGTTTTAACTAAAAATTTAAAAAATTTAACTTAAAATCAATTA
319 AAATAGACATTCAATTATAGTTTGTTTTAACTAAAAATATAAAAAAGTCAACTTAAAATCAATTA
*
11133 TGAGATTATAAAACCATTTAAAGCGAGTTGTTAGGCTTTTGAAGGAATAGGTGACTAT-AACTGG
384 TGAGATTATAAAACCATTTAAAGCGAGTTATTAGGCTTTTGAAGGAATAGGTGACTATAAAC-GG
* * * * *
11197 ACTTTTCTTGTCAATGAATATCTTTTTCTTCATGTTTCACAAGATAGATATTTAATTATAA
448 ACTTTTCTTGCCAATGAATATC-TTTTCTTCATGTTTCATAAGGTAGACATTCAATTATAA
* * * *
11258 TCTGTTTTAACTAAAAATATAAAAAAATTAAACTTAAAATTAATTTTGAGATTATAAAACCATTG
1 TCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATT-
*
11323 AAAGCGAGTAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATG
* * * *
11388 CCTGTTTC-TTCATGTTGCTCGAGGTAGACTTTCAATTATAATCTGTTTTCATAAAAAATGTAAA
130 CCTTTTTCTTTCAT-TT-CTCGAGGTAGACATTCAATTATAATCTGTTTTAAT-AATAATGTAAA
** *
11452 AACATTC-AACTTAAAATCAATTATGACAATATAAAACCATTTAAAGTGAGTAATAAGGCTTTTG
192 AA-AAACGAACTTAAAATCAATTATGACATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTG
* * *
11516 AAGGAATGGGAGAATATAAATAAACTTTTCTTGCCAATAAATGCTTTTTTCTTCATGTTTCATGA
256 AAGGAATGAGAGAATATAAATAGACTTTTCTTACCAATAAATG-TTTTTTCTTCATGTTTCATGA
** * * * * ********* *
11581 GGTAGACGTTCAATTGTAGTTTGTTTTAACCAAAAATGTAANNNNNNNNNNCTTAAAATGAATTA
320 AATAGACATTCAATTATAGTTTGTTTTAACTAAAAATATAA-AAAAGTCAACTTAAAATCAATTA
* * * *
11646 TGAGATTATAAAACCATTTAAAGCGAG-TAGTAAGGCTTTTTAAGGAATTGGTGACTATAAATGG
384 TGAGATTATAAAACCATTTAAAGCGAGTTA-TTAGGCTTTTGAAGGAATAGGTGACTATAAACGG
* * * * * * *
11710 ACCTTTCTT-CTCAATG-ATAGGCTTTTTTTACATGTTTC-TCAAGGCAAACATTCAATTGTAG
448 ACTTTTCTTGC-CAATGAATA-TCTTTTCTT-CATGTTTCAT-AAGGTAGACATTCAATTATAA
* * * * * *********
11771 TCTGTTTTAACGAAGAATGTAAAAAAAAATCAGCTTAAAATCAATTATGAGATTNNNNNNNNNNT
1 TCTGTTTTAACCAAAAATAT-AAAAAAATTCAACTTAAAATCAATTATGAGATT-ATAAAACCAT
* * ** **
11836 TAAAGCGAGTAATAAGGC-TTTGAAGGAATTGGTAACTATAAATGCCCTTTTCTCACCAATGAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT
* * * * *
11900 GCCTTTTTCTTCTCGTTTCTCGATGTAGACATTCAATTATAATCTGTTTTGACTAAAAAAGTAAA
129 GCCTTTTTCTT-TCATTTCTCGAGGTAGACATTCAATTATAATCTGTTTT-AATAATAATGTAAA
* * * * * ** * * *
11965 AAGAAATAGAACTTGAAGTCAATTTTGATATCGTACAACCATTTGAAGTGAGTAATAAAGCTTTT
192 AA-AAA-CGAACTTAAAATCAATTATGACATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTT
* * ** * * *
12030 GAAGGAATGGGTGAGCATAAATAGACTTTTC-TAGCTAATGAATGAATTTTTCTTCATGTTTC-T
255 GAAGGAATGAGAGAATATAAATAGACTTTTCTTA-CCAATAAATG-TTTTTTCTTCATGTTTCAT
* ** *
12093 CAAGGCAGACATTCAATTATAGTCTGTTTTAAC
318 GAA-ATAGACATTCAATTATAGTTTGTTTTAAC
12126 CAAANNNNNN
Statistics
Matches: 1559, Mismatches: 287, Indels: 111
0.80 0.15 0.06
Matches are distributed among these distances:
511 1 0.00
512 166 0.11
513 363 0.23
514 492 0.32
515 136 0.09
519 6 0.00
520 91 0.06
521 246 0.16
522 56 0.04
523 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.35
Consensus pattern (507 bp):
TCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTA
AAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGC
CTTTTTCTTTCATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAATAATAATGTAAAAAAA
ACGAACTTAAAATCAATTATGACATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGA
ATGAGAGAATATAAATAGACTTTTCTTACCAATAAATGTTTTTTCTTCATGTTTCATGAAATAGA
CATTCAATTATAGTTTGTTTTAACTAAAAATATAAAAAAGTCAACTTAAAATCAATTATGAGATT
ATAAAACCATTTAAAGCGAGTTATTAGGCTTTTGAAGGAATAGGTGACTATAAACGGACTTTTCT
TGCCAATGAATATCTTTTCTTCATGTTTCATAAGGTAGACATTCAATTATAA
Found at i:23900 original size:21 final size:20
Alignment explanation
Indices: 23866--23906 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
23856 ATAGAAGACT
23866 ATAAATGGACTTTTCTTACAA
1 ATAAATGGACTTTTC-TACAA
**
23887 ATAAATGGGTTTTTCTACAA
1 ATAAATGGACTTTTCTACAA
23907 GTTTCCTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (20 bp):
ATAAATGGACTTTTCTACAA
Found at i:28148 original size:171 final size:171
Alignment explanation
Indices: 27849--28167 Score: 444
Period size: 171 Copynumber: 1.9 Consensus size: 171
27839 AAAATTAAAT
* * *
27849 TTAAAATCAATTATGAGATTATAAAACTTTTTAAAGCAAGTACTAAGGCTTTTGAAGGAATAAGT
1 TTAAAATCAATTATGAGATCATAAAAATTTTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAAGT
* * * * * * *
27914 GACTCTAAATGGACTTTTCTTACTAGTGAATGTCTTTTTCTTCACGTTTCTTAAGGTAGACATTC
66 GACTATAAATGGACTTTTCTTACCAATGAATGCCTTGTTCTTCACGTTTCTTAAAGCAGACATTC
27979 AATTATAGTCT-TTTTAATGATGAATGCAAAAAACTTAGAC
131 AATTATAGTCTATTTTAATGATGAATGCAAAAAACTTAGAC
** **
28019 TTAAAATCAATTATGAGATCATAAAAAATTTTTAAAGTGAGTAATAAGGCTTTTGAAGGAATTGG
1 TTAAAATCAATTATGAGATCAT-AAAAATTTTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAAG
* * * *
28084 TGACTATAAATGGGCTTTTCTTGCCAATGAATGCCTTGTTCTTTATGTTT-TCTAAAGCAGACAT
65 TGACTATAAATGGACTTTTCTTACCAATGAATGCCTTGTTCTTCACGTTTCT-TAAAGCAGACAT
28148 TCAATTATAGTCTATTTTAA
129 TCAATTATAGTCTATTTTAA
28168 CAAAANNNNN
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
170 22 0.17
171 100 0.78
172 6 0.05
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (171 bp):
TTAAAATCAATTATGAGATCATAAAAATTTTTAAAGCAAGTAATAAGGCTTTTGAAGGAATAAGT
GACTATAAATGGACTTTTCTTACCAATGAATGCCTTGTTCTTCACGTTTCTTAAAGCAGACATTC
AATTATAGTCTATTTTAATGATGAATGCAAAAAACTTAGAC
Found at i:33975 original size:170 final size:170
Alignment explanation
Indices: 33202--35500 Score: 1650
Period size: 171 Copynumber: 13.4 Consensus size: 170
33192 NNACCTCAAG
* * * * * ** *
33202 AAACATGTAGAAAAAGCCATTCATTGAG-AA-CAAAGATACATTTATACTCACCCATTTGTTCGA
1 AAACATGAAGAAAAAGACATTCATTG-GCAAGAAAAG-TCCATTTATAGTCACCCATTCCTTCAA
* ********** *
33265 AAGCCTTATTACTCGTTTTAAATGGTTTTTATAATCTCATAATTGATTTTNNNNNNNNNNTTTTA
64 AAGCCTTATTACTCGCTTTAAATGG-TTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTT
* * * * *
33330 CATTTTTGGTTAACACA-AGCTATAATTGAATGCCTACCTCATA
128 CATTTTTTGTTAAAACAGA-CTATAATTGAATGTCTACCTTAGA
* * * * * *
33373 AAACATGAAGAAAAA-AGTATTCATCGGTAAGAAAAGTCTATTTATAGTCTCCCATTCCTTTAAA
1 AAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAA
* * * * * * *
33437 ATCCTTATTGCTCGCTTTAAATGGTTTTTATATTGTCATAATTGATTTTAAGTTGAACTGTTTTA
65 AGCCTTATTACTCGCTTTAAATGG-TTTTATAATCTCATAATTGATTTTAAGTTCAA-TTTTTTT
*
33502 CATTTTTT-TGTAAAACTGACTATAATTGAATGTCTACCTT-GA
128 CATTTTTTGT-TAAAACAGACTATAATTGAATGTCTACCTTAGA
* ** ** * *
33544 GAAACGTGAAGAAAAAGGTATTTTTTGACAAGAAAAGTCCATTTATAGTCACCCAGTCCTTCAAA
1 -AAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAA
* ********** *
33609 AGCCTTATTATTCGCTTTAAATGGTTTTNNNNNNNNNNAATTGATTTTAAGTTTAATTTTTTT-A
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTCA
* * * * *
33673 TATTTTGGGTAAAAACAGATTATAATTGAATGTCTATCTCATG-
130 T-TTTT-TGTTAAAACAGACTATAATTGAATGTCTACCTTA-GA
* * * * * *
33716 AAACATGAGGAAAAAGATATTCATTGACAAGAAATA-TCCGTTTATAGTCACCTACTCCTTCAAA
1 AAACATGAAGAAAAAGACATTCATTGGCAAGAAA-AGTCCATTTATAGTCACCCATTCCTTCAAA
* ** * * *
33780 AGCCTAACAACTCGCTGTAAATGGTTTTATAATCTTATAATTGATTTTAAGTTGAATTTTTATTC
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTT-TTC
* * *
33845 ATTTTTTGTCAAAACAAACTATAATTGAATGTCTGCCTTAGA
129 ATTTTTTGTTAAAACAGACTATAATTGAATGTCTACCTTAGA
** * * *
33887 AAACATGAAG-AAAATCCATTCATTAGCAAGAAAAGTCTATTTATAGTCACCCGTTCCTTCAAAA
1 AAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
*
33951 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTCAATTTTTTT-AT
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTCAT
* * * * *
34015 ATTTTTGGTTAAAATATATTATAATTGAATTTCTATCTCGT-G-
131 -TTTTT-GTTAAAACAGACTATAATTGAATGTCTA-C-CTTAGA
* * * *
34057 AAACATGAAGAAAAAGATATTTATTGGCAAGAAAAGT-CAGTTTATAGTCACCTATTCCTTCTAA
1 AAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCA-TTTATAGTCACCCATTCCTTCAAA
* * * * * * *
34121 A-TCTTAATAAATCGTTTTAAATGTTTTTATAAACTCATAATTGATTTTAAGTTCAA-TTTTTAC
65 AGCCTT-ATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTC
* * * * * *
34184 ATTTTTTATTAGAATAGACTATAATTGAATCT-TGCCTTGGA
129 ATTTTTTGTTAAAACAGACTATAATTGAATGTCTACCTTAGA
* ** * * * * * * * * * *
34225 AAACATGTAG-AAAATCCTATTTATTTGTAAGGAAAGTGCATTTACAATCTCACATTCCTTTAAA
1 AAACATGAAGAAAAAGAC-ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAA
* * ** *
34289 GGTCTTATTACTAACTTTAAATGGTTTTATAATCTCAAAATTGATTTTATA-TTCAATTTGTTTT
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTA-AGTTCAATTT-TTTT
* * * * * * * *
34353 CCATTTATGGCTAAAACAGATTATAATTCAATATCTGCC-TCGA
128 -CATTTTTTGTTAAAACAGACTATAATTGAATGTCTACCTTAGA
* * **
34396 GAAACATGAAGAAAATAG-CATTCATTAGCAA-AAAATGTCAATTTATAGTCACCCATTATTTCA
1 -AAACATGAAGAAAA-AGACATTCATTGGCAAGAAAA-GTCCATTTATAGTCACCCATTCCTTCA
* ** * * *
34459 AAAGCCTTATGACTCATTTTAAATGGTTTTATAATCTCATAGTTGATTTTAAGTTGAATTTTTCT
63 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTT
** * *
34524 CATTTTTAATTAAAACAGACTATAATTGAATGTTTACCTCA-A
128 CATTTTTTGTTAAAACAGACTATAATTGAATGTCTACCTTAGA
* ** * *
34566 GAAACATGAAGAAAAA-AGCATTCATTGGCAAGAAAAGTCTATTTATAGTCTTCGATTCTTTCAA
1 -AAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * * * * * *
34630 AAGCCCTATTACTCGTTTTAAATGGGTTTCTAATGTCATAATTGATTTTAGGATCAGTTTATTTT
64 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCA----ATTTT
* * * * * * *
34695 TTT-AATTATTGATCAAAACATATTATAATTGAATGTCTATC-TCGA
125 TTTCATTTTTTG-TTAAAACAGACTATAATTGAATGTCTACCTTAGA
* * *
34740 GAAACATGAAGAAAAAGACATTCATTAGCAAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAA
1 -AAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAA
* * *
34805 AGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTTAA-TTTTTTCA
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTCA
* * * *
34869 TATTTCTGGTTAAAACATATTATAATTGAATGTCTACCTCATG-
130 T-TTT-TTGTTAAAACAGACTATAATTGAATGTCTACCTTA-GA
* * ** * * * * *
34912 AAACGTGAAGAAAAAGATATTCATTGATAAAAAAAGTCCGTTTATAGTTACCTACTCCTTCAAAA
1 AAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
* * * * * * * * * * *
34977 GCCTAATAACTAGTTTTAAATGATTTCATAATCTAATAATTAACTTTAAGTTGAATATTTTT-AC
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTCA-
* * * * *
35041 TTTTTCTGTTAAAACAGACGA-AA-GGAATGTCTGCATTGAAA
130 TTTTT-TGTTAAAACAGACTATAATTGAATGTCTACCTT-AGA
* * * * * *
35082 AAACCCATAAAAGAACAAGATATTCATTGGCAAGAAAAGTCCATTTATAGTCACACATTCTTTCC
1 AAA--CAT-GAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCA
* * * *
35147 AAAGCCTTATTACTCACTCTAAAAGGTTTTATATTCTCATAATTGATTTTAAG-TCAAATTTTTT
63 AAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTC-AATTTTTT
** ** *****
35211 TACATTCATCATTAAAA-AGACTATAATTGAATGTCTACCNNNNN
127 T-CATTTTTTGTTAAAACAGACTATAATTGAATGTCTACCTTAGA
***** * * * **
35255 NNNNNTGAAGAAAAAGACATTCACTGCCAAGAAAAGTCCATTTAAAGTCACTTATTCCTTCAAAA
1 AAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
* * * *
35320 GCCTTAGTACTCGCTTTAAAAGGCTTTATAATCTCATAATTGATTTTAAGTTTAATTTTTTTACA
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTT-CA
* * * * *
35385 TTTCTAGTTAAAACAGGCTATAATTGAATG-CATGCCTCA-A
130 TTTTTTGTTAAAACAGACTATAATTGAATGTC-TACCTTAGA
* * * * * * *
35425 GAAAC-TTATA-AAAAAGCCCATTTATTTGG-AAGAAAAGTTCATTTATAGTCTCTCATTTCTTC
1 -AAACATGA-AGAAAAAG-ACATTCA-TTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTC
*
35487 AAAAGCTTTATTAC
62 AAAAGCCTTATTAC
35501 CCTTTTTAAA
Statistics
Matches: 1662, Mismatches: 389, Indels: 154
0.75 0.18 0.07
Matches are distributed among these distances:
166 2 0.00
167 6 0.00
168 85 0.05
169 56 0.03
170 414 0.25
171 605 0.36
172 232 0.14
173 113 0.07
174 147 0.09
175 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.38
Consensus pattern (170 bp):
AAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTCAT
TTTTTGTTAAAACAGACTATAATTGAATGTCTACCTTAGA
Found at i:33994 original size:341 final size:340
Alignment explanation
Indices: 33202--35414 Score: 1756
Period size: 343 Copynumber: 6.5 Consensus size: 340
33192 NNACCTCAAG
* * * * * * ** *
33202 AAACATGTAGAAAAAGCCATTCATTGAGAA-CAAAGATACATTTATACTCACCCATTTGTTCGAA
1 AAACATGAAGAAAAAGACATTCATTGACAAGAAAAG-TCCATTTATAGTCACCCATTCCTTCAAA
* * **********
33266 AGCCTTATTACTCGTTTTAAATGGTTTTTATAATCTCATAATTGATTTT-NNNNNNNNNNTTTTA
65 AGCCTTATTACTCGCTTTAAATGG-TTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTA
* * * * * *
33330 CATTTTTGGTTAACACA-AGCTATAATTGAATGCCTACCTCATAAAACATGAAGAAAAA-AGTAT
129 TA-TTTTGGTTAAAACAGA-TTATAATTGAATGTCTATCTCATGAAACATGAAGAAAAAGA-TAT
* ** * * * * *
33393 TCATCGGTAAGAAAAGTCTATTTATAGTCTCCCATTCCTTTAAAATCCTTATTGCTCGCTTTAAA
191 TCATTGACAAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAA
* * * * *
33458 TGGTTTTTATATTGTCATAATTGATTTTAAGTTGAACTGTTTTACATTTTTT-TGTAAAACTGAC
256 TGG-TTTTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTCATTTTTTAT-TAAAACAGAC
33522 TATAATTGAATGTCTACCTT-GA
318 TATAATTGAATGTCTACCTTAGA
* ** ** *
33544 GAAACGTGAAGAAAAAGGTATTTTTTGACAAGAAAAGTCCATTTATAGTCACCCAGTCCTTCAAA
1 -AAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAA
* **********
33609 AGCCTTATTATTCGCTTTAAATGGTTTTNNNNNNNNNNAATTGATTTTAAGTTTAATTTTTTTAT
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTAT
* *
33674 ATTTTGGGTAAAAACAGATTATAATTGAATGTCTATCTCATGAAACATGAGGAAAAAGATATTCA
130 ATTTT-GGTTAAAACAGATTATAATTGAATGTCTATCTCATGAAACATGAAGAAAAAGATATTCA
** * * * ** *
33739 TTGACAAGAAATA-TCCGTTTATAGTCACCTACTCCTTCAAAAGCCTAACAACTCGCTGTAAATG
194 TTGACAAGAAA-AGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATG
* * * *
33803 GTTTTATAATCTTATAATTGATTTTAAGTTGAATTTTTATTCATTTTTTGTCAAAACAAACTATA
258 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTT-TTCATTTTTTATTAAAACAGACTATA
*
33868 ATTGAATGTCTGCCTTAGA
322 ATTGAATGTCTACCTTAGA
** * *
33887 AAACATGAAG-AAAATCCATTCATT-AGCAAGAAAAGTCTATTTATAGTCACCCGTTCCTTCAAA
1 AAACATGAAGAAAAAGACATTCATTGA-CAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAA
*
33950 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTCAATTTTTTTAT
65 AGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTAT
* * * * *
34015 ATTTTTGGTTAAAATATATTATAATTGAATTTCTATCTCGTGAAACATGAAGAAAAAGATATTTA
130 A-TTTTGGTTAAAACAGATTATAATTGAATGTCTATCTCATGAAACATGAAGAAAAAGATATTCA
* * * * * * * *
34080 TTGGCAAGAAAAGTCAGTTTATAGTCACCTATTCCTTCTAAA-TCTTAATAAATCGTTTTAAATG
194 TTGACAAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTT-ATTACTCGCTTTAAATG
* * * * * *
34144 TTTTTATAAACTCATAATTGATTTTAAGTTCAA-TTTTTACATTTTTTATTAGAATAGACTATAA
258 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTCATTTTTTATTAAAACAGACTATAA
* * *
34208 TTGAATCT-TGCCTTGGA
323 TTGAATGTCTACCTTAGA
* ** * * * * * * * * *
34225 AAACATGTAG-AAAATCCTATTTATTTG-TAAGGAAAGTGCATTTACAATCTCACATTCCTTTAA
1 AAACATGAAGAAAAAGAC-ATTCA-TTGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * ** *
34288 AGGTCTTATTACTAACTTTAAATGGTTTTATAATCTCAAAATTGATTTTATA-TTCAATTTGTTT
64 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTA-AGTTTAATTT-TTT
** * * * ** *
34352 TCCATTTATGGCTAAAACAGATTATAATTCAATATCTGCCTCGA-GAAACATGAAGAAAATAG-C
127 TATATTT-TGGTTAAAACAGATTATAATTGAATGTCTATCTC-ATGAAACATGAAGAAAA-AGAT
** * **
34415 ATTCATT-AGCAA-AAAATGTCAATTTATAGTCACCCATTATTTCAAAAGCCTTATGACTCATTT
189 ATTCATTGA-CAAGAAAA-GTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTT
* * *
34478 TAAATGGTTTTATAATCTCATAGTTGATTTTAAGTTGAATTTTTCTCATTTTTAATTAAAACAGA
252 TAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTCATTTTTTATTAAAACAGA
* *
34543 CTATAATTGAATGTTTACCTCA-A
317 CTATAATTGAATGTCTACCTTAGA
* * ** * *
34566 GAAACATGAAGAAAAA-AGCATTCATTGGCAAGAAAAGTCTATTTATAGTCTTCGATTCTTTCAA
1 -AAACATGAAGAAAAAGA-CATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * * * * *
34630 AAGCCCTATTACTCGTTTTAAATGGGTTTCTAATGTCATAATTGATTTTAGGATCAGTTT-ATTT
64 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTT---A--AGTTTAATTT
* * *
34694 TTTTA-ATTATTGATCAAAACATATTATAATTGAATGTCTATCTCGA-GAAACATGAAGAAAAAG
124 TTTTATATT-TTGGTTAAAACAGATTATAATTGAATGTCTATCTC-ATGAAACATGAAGAAAAAG
* * *
34757 ACATTCATT-AGCAAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAAAGCCTTATTACTCGCT
187 ATATTCATTGA-CAAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCT
* * * **
34821 TTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTTAA-TTTTTTCATATTTCTGGTTAAAAC
251 TTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTCAT-TTT-TTATTAAAAC
* * *
34885 ATATTATAATTGAATGTCTACCTCATG-
314 AGACTATAATTGAATGTCTACCTTA-GA
* * * * * * * *
34912 AAACGTGAAGAAAAAGATATTCATTGATAAAAAAAGTCCGTTTATAGTTACCTACTCCTTCAAAA
1 AAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
* * * * * * * * * *
34977 GCCTAATAACTAGTTTTAAATGATTTCATAATCT-AATAATTAACTTTAAGTTGAATATTTTTAC
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAA-AATTGATTTTAAGTTTAATTTTTTTA-
* ** * * ** * *
35041 T-TTTTCTGTTAAAACAGACGA-AA-GGAATGTCTGCAT-TGAAAAAACCCATAAAAGAACAAGA
129 TATTTT-GGTTAAAACAGATTATAATTGAATGTCT--ATCTCATGAAA--CAT-GAAGAAAAAGA
* * * * * * *
35102 TATTCATTGGCAAGAAAAGTCCATTTATAGTCACACATTCTTTCCAAAGCCTTATTACTCACTCT
188 TATTCATTGACAAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTT
* * ** ** *
35167 AAAAGGTTTTATATTCTCATAATTGATTTTAAGTCAAATTTTTTTACATTCATCATTAAAA-AGA
253 AAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT-CATTTTTTATTAAAACAGA
*****
35231 CTATAATTGAATGTCTACCNNNNN
317 CTATAATTGAATGTCTACCTTAGA
***** * * * **
35255 NNNNNTGAAGAAAAAGACATTCACTGCCAAGAAAAGTCCATTTAAAGTCACTTATTCCTTCAAAA
1 AAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
* * * * *
35320 GCCTTAGTACTCGCTTTAAAAGGCTTTATAATCTCATAATTGATTTTAAGTTTAATTTTTTTACA
66 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTATA
* **
35385 TTTCTAGTTAAAACAGGCTATAATTGAATG
131 TTT-TGGTTAAAACAGATTATAATTGAATG
35415 CATGCCTCAA
Statistics
Matches: 1489, Mismatches: 318, Indels: 124
0.77 0.16 0.06
Matches are distributed among these distances:
338 24 0.02
339 119 0.08
340 148 0.10
341 289 0.19
342 190 0.13
343 322 0.22
344 251 0.17
345 135 0.09
346 9 0.01
347 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (340 bp):
AAACATGAAGAAAAAGACATTCATTGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTATA
TTTTGGTTAAAACAGATTATAATTGAATGTCTATCTCATGAAACATGAAGAAAAAGATATTCATT
GACAAGAAAAGTCAATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTT
TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTCATTTTTTATTAAAACAGACTATAATTG
AATGTCTACCTTAGA
Found at i:35397 original size:343 final size:344
Alignment explanation
Indices: 34404--35400 Score: 787
Period size: 344 Copynumber: 2.9 Consensus size: 344
34394 GAGAAACATG
* * *
34404 AAGAAAATAG-CATTCATTAGCAA-AAAATGTCAATTTATAGTCACCCATT-ATTTCAAAAGCCT
1 AAGAAAA-AGACATTCATTAGCAAGAAAA-GTCCATTTATAGTCACACATTCCTTT-AAAAGCCT
* * * * * * ** * *
34466 TATGACTCATTTTAAATGGTTTTATAATCTCATAGTTGATTTTAAGTTGAA-TTTTTCTCATTTT
63 TATTACTCACTCTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTCAAATTTTTTCACATTTC
* * * * * *
34530 TAATTAAAACAGACTATAATTGAATGTTTACCTCAAGAAACATGAAGAAAAA-AGCATTCATTGG
128 TCATTAAAACAGACTATAATTGAATGTCTACCTCATGAAACGTGAAGAAAAAGA-CATTCACTGA
* * * ** * * * * * * *
34594 CAAGAAAAGTCTATTTATAGTCTTCGATTCTTTCAAAAGCCCT-ATTACTCGTTTTAAATGGGTT
192 CAAAAAAAGTCCATTTAAAGTCACCTACTCCTTCAAAAG-CCTAATAACTAG-TTTAAAAGGATT
* * * * * * ** * * * **
34658 TC-TAATGTCATAATTGATTTTAGGATCAGTTTATTTTT-TTAATTAT-TGATCAAAACATATTA
255 TCATAATCTAATAATTAACTTTAAG-T-TGAATATTTTTACT-ATT-TCTG-TTAAAACAGACGA
* * *
34720 TAATTGAATGTCT--ATCTCG-AGAAA--CAT-G
315 -AA-GGAATGTCTGCAT-T-GAAAAAACCCATAA
* *
34748 AAGAAAAAGACATTCATTAGCAAGAAAAGTCTATTTATAGTCACCCATTCCTTTAAAAGCCTTAT
1 AAGAAAAAGACATTCATTAGCAAGAAAAGTCCATTTATAGTCACACATTCCTTTAAAAGCCTTAT
* * ** * **
34813 TACTCGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTCATATTTCTGG
66 TACTCACTCTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTCAAATTTTTTCACATTTCTCA
* * * * *
34878 TTAAAACATATTATAATTGAATGTCTACCTCATGAAACGTGAAGAAAAAGATATTCATTGATAAA
131 TTAAAACAGACTATAATTGAATGTCTACCTCATGAAACGTGAAGAAAAAGACATTCACTGACAAA
* * * * *
34943 AAAAGTCCGTTTATAGTTACCTACTCCTTCAAAAGCCTAATAACTAGTTTTAAATGATTTCATAA
196 AAAAGTCCATTTAAAGTCACCTACTCCTTCAAAAGCCTAATAACTAGTTTAAAAGGATTTCATAA
*
35008 TCTAATAATTAACTTTAAGTTGAATATTTTTACTTTTTCTGTTAAAACAGACGAAAGGAATGTCT
261 TCTAATAATTAACTTTAAGTTGAATATTTTTACTATTTCTGTTAAAACAGACGAAAGGAATGTCT
35073 GCATTGAAAAAACCCATAA
326 GCATTGAAAAAACCCATAA
* * * *
35092 AAGAACAAGATATTCATTGGCAAGAAAAGTCCATTTATAGTCACACATT-CTTTCCAAAGCCTTA
1 AAGAAAAAGACATTCATTAGCAAGAAAAGTCCATTTATAGTCACACATTCCTTT-AAAAGCCTTA
* * *
35156 TTACTCACTCTAAA-AGGTTTTATATTCTCATAATTGATTTTAAGTCAAATTTTTTTACA-TTCA
65 TTACTCACTCTAAATA-GTTTTATAATCTCAAAATTGATTTTAAGTCAAATTTTTTCACATTTC-
********** *
35219 TCATTAAAA-AGACTATAATTGAATGTCTACCNNNNNNNNNNTGAAGAAAAAGACATTCACTGCC
128 TCATTAAAACAGACTATAATTGAATGTCTACCTCATGAAACGTGAAGAAAAAGACATTCACTGAC
* * * * * *
35283 AAGAAAAGTCCATTTAAAGTCACTTATTCCTTCAAAAGCCTTAGT-ACTCGCTTTAAAAGGCTTT
193 AAAAAAAGTCCATTTAAAGTCACCTACTCCTTCAAAAGCC-TAATAACTAG-TTTAAAAGGATTT
* * * * *
35347 -ATAATCTCATAATTGATTTTAAGTTTAATTTTTTTAC-ATTTCTAGTTAAAACAG
256 CATAATCTAATAATTAACTTTAAGTTGAATATTTTTACTATTTCT-GTTAAAACAG
35401 GCTATAATTG
Statistics
Matches: 529, Mismatches: 103, Indels: 43
0.78 0.15 0.06
Matches are distributed among these distances:
340 9 0.02
341 7 0.01
342 17 0.03
343 144 0.27
344 229 0.43
345 122 0.23
346 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (344 bp):
AAGAAAAAGACATTCATTAGCAAGAAAAGTCCATTTATAGTCACACATTCCTTTAAAAGCCTTAT
TACTCACTCTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTCAAATTTTTTCACATTTCTCA
TTAAAACAGACTATAATTGAATGTCTACCTCATGAAACGTGAAGAAAAAGACATTCACTGACAAA
AAAAGTCCATTTAAAGTCACCTACTCCTTCAAAAGCCTAATAACTAGTTTAAAAGGATTTCATAA
TCTAATAATTAACTTTAAGTTGAATATTTTTACTATTTCTGTTAAAACAGACGAAAGGAATGTCT
GCATTGAAAAAACCCATAA
Found at i:39509 original size:342 final size:340
Alignment explanation
Indices: 38277--40017 Score: 1572
Period size: 342 Copynumber: 5.1 Consensus size: 340
38267 NNNNNNNNNN
* * *
38277 AAAAGTCCATTTATAGTCACCCATTCGTTTAAAAGCCTTATTACTCGCTTTAAAAGGTTTTATAA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
* * * * * * *
38342 TCTTATAACTGATTTTAAGTTGAATGTTTTTACATTTTTGGCTCAAACAAACTATAATTGAATGT
66 TCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGT
* * * *
38407 CTACCTCAAGAAACATGAAGAAAAAAGCATTCATTAGCAAAAAAAGTCTATTTATAGTCAC-CGA
131 CTACCTTAAGAAAC-TTAAG-AAAAGGCATTCATTAGCAAGAAAAGTCTATTTATAGTCACTC-A
* * *
38471 TTCCTTCAAAAGCCTTATTACAT-GCTTTAAATAGTTTTATAGTCTCAAAATTGATTTTAAGTTT
193 TTCCTTCAAAAGCCTTATTAC-TCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTG
* * * * * *
38535 AATTTTTTTTATATTTTTACTTAAAACATATTATAATTGAATGTCTACCTTAAGAAACAT-AA-A
257 AA-TTGTTTTACATTTTAACTTAAAACAGACTATAATTGAATGCCTACCTTAAGAAACATGAAGA
* *
38598 AAAATGAATTCATTGGGAAG
321 AAAATGTATTCATTGGCAAG
** * *
38618 AAAAGTTTATTTATTGTCACCCATTCCTTCAAAAGCCTTATTACTTACTTTAAATA-GTTTTATA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAA-AGGTTTTATA
* * *
38682 ATCTCAAAATTGATTTTAAGTTGAATTCTTTTTACTTTTTTAGTTAAAACAGATTATAATTGAAT
65 ATCTCATAATTGATTTTAAGTTGAATT-TTTTTACATTTTTAGTTAAAACAGACTATAATTGAAT
* * * * *
38747 ATCTACCTTAAAAAAAGTTAAGGAAAAGGCATTCATT-GACAAGAAAAGTTTATTTATAGTCACC
129 GTCTACCTT-AAGAAACTTAA-GAAAAGGCATTCATTAG-CAAGAAAAGTCTATTTATAGTCACT
* *
38811 CATTCCTTCAAAAGCCTTAGTACTCGCTTTAAA-AGGTTTTATAATCCCATAATTGATTTTAAGT
191 CATTCCTTCAAAAGCCTTATTACTCGCTTTAAATA-GTTTTATAATCTCATAATTGATTTTAAGT
* ** * * ** *
38875 TGAATTGGTTTACATTTCT-GGTTAAAACAGACTATAATTGGATGCCTTA-CTTAGGAAATGTGT
255 TGAATTGTTTTACATTT-TAACTTAAAACAGACTATAATTGAATGCC-TACCTTAAGAAACATGA
* * * *
38938 AG-AAAATTTCATTTATTTGTAAG
318 AGAAAAATGT-ATTCATTGGCAAG
* * * * * ***
38961 AAATGTCTATTTATAGTCTCTCATTCCTTCAAAAGTCTTATTACT--CTTTAAATCATTTTATAA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
* *
39024 TCTCATAATTGATTTTAAGTTGAATTTGTTTACTTTTTTTA-TTAAAACAGACTATAATTGAATG
66 TCTCATAATTGATTTTAAGTTGAATTTTTTTAC-ATTTTTAGTTAAAACAGACTATAATTGAATG
* * * * * *
39088 TCTGCTTTAGGAAACGTAAAGAAAATGGTATTCATTAGCAAGAAAAGT-TCATTTATAGTTAC-C
130 TCTACCTTAAGAAAC-TTAAGAAAA-GGCATTCATTAGCAAGAAAAGTCT-ATTTATAGTCACTC
* * *
39151 TATTCCTTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTT
192 -ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTT
* * * * * * * *
39216 GAGTTTTTTTACA-TTCATCATTAAAA-AGACAATAATTGAATGTCTACCTCAAGAAACGTGAAG
256 GAATTGTTTTACATTTTAAC-TTAAAACAGACTATAATTGAATGCCTACCTTAAGAAACATGAAG
* * *
39279 AAAAAGGTATTCACTGGCAATT
320 AAAAATGTATTCATTGGCAA-G
* * * * *
39301 AAAA-TCCATTTAGAGTCATCCATTCTTTCAAAAGCCTTAGTACTCGCTTTAAAAGGTTTTATAA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
* * *
39365 TCTCATAATTGATTTTTAAGTTTAATTTTTTTACATTTCTAGTT-AAACTAGGCTATAATTGAAT
66 TCTCATAATTGA-TTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAAC-AGACTATAATTGAAT
* * * *
39429 G-CATGCCTTAAGAAACTTATAGAAAAGCCCATTTATTTTG-AAGAAAAGTCTATTTATAGT-AT
129 GTC-TACCTTAAGAAACTTA-AGAAAAG-GCATTCA-TTAGCAAGAAAAGTCTATTTATAGTCA-
* * * * * *
39491 CTCATTTCTTCGAAAGCCTTATTACCCTCTTTAAATAGTTTTATAATCTCAGAATTG-GTTTAAG
189 CTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAG
* * * * *
39555 TTCAATTGTTTCACATTTTAAGTTAAAACAGACTATAATTGAATGCCTGCCTTGAGAAACATGAA
254 TTGAATTGTTTTACATTTTAACTTAAAACAGACTATAATTGAATGCCTACCTTAAGAAACATGAA
* *
39620 GAAAAATTTATTCATCGGCAAG
319 GAAAAATGTATTCATTGGCAAG
** * * **
39642 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTTTTATTACTCACTTCAAATGGTTTTACGA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
* * * * * * * *
39707 TCTCAAAATTAACTTTAAGTTTAATTTTTTTTA-ATTTTTTGGTCAAAACAGATTATAATTAAAT
66 TCTCATAATTGATTTTAAGTTGAA-TTTTTTTACA-TTTTTAGTTAAAACAGACTATAATTGAAT
* * ** ** * * * *
39771 ATCTACATCGAGAAACAAGAAGAAAAAGGCATTAATTGGAAACAAAAGTGC-ATTTATAGTCAC-
129 GTCTACCTTAAGAAAC-TTAAG-AAAAGGCATTCATTAGCAAGAAAAGT-CTATTTATAGTCACT
* * *
39834 CAATTCCGTCAAAAG---TCTTACTCGCTTTAAAT-GCTTTTATAATCTCATAATTAATTTTAAG
191 C-ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATAG-TTTTATAATCTCATAATTGATTTTAAG
* * * * ** *
39895 TTAAATTTTTTTACATTCTTCA-TTAAAACAGACTACAATTGAATGTTTACCTCAAGAAAC--G-
254 TTGAATTGTTTTACATT-TTAACTTAAAACAGACTATAATTGAATGCCTACCTTAAGAAACATGA
* *
39956 AGTAAAAGAAGCCATTCATTGAG-AAG
318 AG-AAAA-ATG-TATTCATTG-GCAAG
* * *
39982 AAAGGTCTATTTATAGTCACTCATTCCTTCAAAAGC
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGC
40018 NNNNNNNNNN
Statistics
Matches: 1141, Mismatches: 201, Indels: 117
0.78 0.14 0.08
Matches are distributed among these distances:
337 2 0.00
338 8 0.01
339 112 0.10
340 242 0.21
341 257 0.23
342 446 0.39
343 74 0.06
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (340 bp):
AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
TCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAGACTATAATTGAATGT
CTACCTTAAGAAACTTAAGAAAAGGCATTCATTAGCAAGAAAAGTCTATTTATAGTCACTCATTC
CTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATAATTGATTTTAAGTTGAATT
GTTTTACATTTTAACTTAAAACAGACTATAATTGAATGCCTACCTTAAGAAACATGAAGAAAAAT
GTATTCATTGGCAAG
Found at i:39950 original size:682 final size:675
Alignment explanation
Indices: 38277--40017 Score: 1796
Period size: 682 Copynumber: 2.5 Consensus size: 675
38267 NNNNNNNNNN
* * * *
38277 AAAAGTCCATTTATAGTCACCCATTCGTTTAAAAGCCTTATTACTCGCTTTAAAAGGTTTTATAA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTCTTATTACTC-CTTTAAATGGTTTTATAA
* * * *
38342 TCTTATAACTGATTTTAAGTTGAATGTTTTTACA-TTTTTGGCTC-AAACAAACTATAATTGAAT
65 TCTCATAATTGATTTTAAGTTGAATTTTTTTA-ATTTTTTGG-TCAAAACAGACTATAATTGAAT
* * * *
38405 GTCTACCTCAAGAAACATGAAGAAAAAAGCATTCATTAGCAAAAAAAGTCTATTTATAGTCACCG
128 GTCTA-CTCAAGAAACAAGAAGAAAAAGGCATTCATT-GGAAAAAAAGTC-ATTTATAGTCACCA
* * * *
38470 ATTCCTTCAAAAGCCTTATTACATGCTTTAAATAGTTTTATAGTCTCAAAATTGATTTTAAGTTT
190 ATTCCTTCAAAAGTCTTACT-C--GCTTTAAAT-GTTTTATAATCTCATAATTGATTTTAAG-TT
* * * * * * *
38535 AATTTTTTTTATATT-TTTACTTAAAACATATTATAATTGAATGTCTACCTTAAGAAACATAAAA
250 AAATTTTTTTACATTCTTCA-TTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACGTAAAA
* * * ** ** * *
38599 AAATGAATTCATTGGGAAGAAAAGTTTATTTATTGTCACCCATTCCTTCAAAAGCCTTATTACTT
314 AAAGGAATTCACTGGCAAGAAAAGTCCATTTAGAGTCACCCATTCCTTCAAAAGCCTTAGTACTC
* *
38664 ACTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTCTTTTTACTTTTTTAGTTAA
379 ACTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTCTTTTTACATTTCTAGTTAA
* * * *
38729 AACAGATTATAATTGAATATCTACCTTAAAAAAAGTTAAGGAAAAGGCATTCATTGACAAGAAAA
444 AACAGACTATAATTGAATAGCTACCTTAAAAAAACTTAAGGAAAAGCCATTCATTGACAAGAAAA
* *
38794 GTTTATTTATAGTCACCCATTCCTTCAAAAGCCTTAGTACTCGCTTTAAAAGGTTTTATAATCCC
509 GTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTAGTACCCGCTTTAAAAGGTTTTATAATCCC
* * * * * *
38859 ATAATTGATTTTAAGTTGAATTGGTTTACATTTCTGGTTAAAACAGACTATAATTGGATGCCTTA
574 AGAATTGAGTTTAAGTTCAATTGGTTTACATTTCTAGTTAAAACAGACTATAATTGAATGCCTGA
** * * ** *
38924 CTTAGGAAATGTGTAGAAAATTTCATTTATTTGTAAG
639 CTTAGGAAACATGAAGAAAATTTCATTCATCGGCAAG
* * * * **
38961 AAATGTCTATTTATAGTCTCTCATTCCTTCAAAAGTCTTATTACT-CTTTAAATCATTTTATAAT
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTCTTATTACTCCTTTAAATGGTTTTATAAT
* * ** *
39025 CTCATAATTGATTTTAAGTTGAATTTGTTTACTTTTTTTATTAAAACAGACTATAATTGAATGTC
66 CTCATAATTGATTTTAAGTTGAATTTTTTTAATTTTTTGGTCAAAACAGACTATAATTGAATGTC
* * * * * * * * * *
39090 TGCTTTAGGAAACGTA-AAGAAAATGGTATTCATTAGCAAGAAAAGTTCATTTATAGTTACCTAT
131 TAC-TCAAGAAAC-AAGAAGAAAAAGGCATTCATT-GGAAAAAAAG-TCATTTATAGTCACCAAT
* * * * *
39154 TCCTTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAG
192 TCCTTCAAAAG---TCTTACTCGCTTTAAAT-GTTTTATAATCTCATAATTGATTTTAAGTTAAA
* *
39219 TTTTTTTACATTCATCATTAAAA-AGACAATAATTGAATGTCTACCTCAAGAAACGTGAAGAAAA
253 TTTTTTTACATTCTTCATTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACGT-AA-AAAA
* * * * *
39283 AGGTATTCACTGGCAATTAAAA-TCCATTTAGAGTCATCCATTCTTTCAAAAGCCTTAGTACTCG
316 AGGAATTCACTGGCAA-GAAAAGTCCATTTAGAGTCACCCATTCCTTCAAAAGCCTTAGTACTCA
* *
39347 CTTTAAA-AGGTTTTATAATCTCATAATTGATTTTTAAGTTTAATT-TTTTTACATTTCTAGTT-
380 CTTTAAATA-GTTTTATAATCTCAAAATTGA-TTTTAAGTTGAATTCTTTTTACATTTCTAGTTA
* * * * ***
39409 AAACTAGGCTATAATTGAAT-GCATGCCTT-AAGAAACTTATA-GAAAAGCCCATTTATTTTGAA
443 AAAC-AGACTATAATTGAATAGC-TACCTTAAAAAAACTTA-AGGAAAAG-CCATTCATTGACAA
* * * * *
39471 GAAAAGTCTATTTATAGT-ATCTCATTTCTTCGAAAGCCTTATTACCCTCTTTAAATA-GTTTTA
504 GAAAAGTCTATTTATAGTCA-CCCATTCCTTCAAAAGCCTTAGTACCCGCTTTAAA-AGGTTTTA
*
39534 TAATCTCAGAATTG-GTTTAAGTTCAATT-GTTTCACATTT-TAAGTTAAAACAGACTATAATTG
567 TAATCCCAGAATTGAGTTTAAGTTCAATTGGTTT-ACATTTCT-AGTTAAAACAGACTATAATTG
*
39596 AATGCCTGCCTT-GAGAAACATGAAGAAAAATTT-ATTCATCGGCAAG
630 AATGCCTGACTTAG-GAAACATGAAG-AAAATTTCATTCATCGGCAAG
* * **
39642 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTTTTATTACTCACTTCAAATGGTTTTACGA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTCTTATTACTC-CTTTAAATGGTTTTATAA
* * * * * * *
39707 TCTCAAAATTAACTTTAAGTTTAATTTTTTTTAATTTTTTGGTCAAAACAGATTATAATTAAATA
65 TCTCATAATTGATTTTAAGTTGAA-TTTTTTTAATTTTTTGGTCAAAACAGACTATAATTGAATG
* *
39772 TCTACATCGAGAAACAAGAAGAAAAAGGCATTAATTGGAAACAAAAGTGCATTTATAGTCACCAA
129 TCTAC-TCAAGAAACAAGAAGAAAAAGGCATTCATTGGAAA-AAAAGT-CATTTATAGTCACCAA
* *
39837 TTCCGTCAAAAGTCTTACTCGCTTTAAATGCTTTTATAATCTCATAATTAATTTTAAGTTAAATT
191 TTCCTTCAAAAGTCTTACTCGCTTTAAATG-TTTTATAATCTCATAATTGATTTTAAGTTAAATT
* * *
39902 TTTTTACATTCTTCATTAAAACAGACTACAATTGAATGTTTACCTCAAGAAACGAGTAAAAGAAG
255 TTTTTACATTCTTCATTAAAACAGACTATAATTGAATGTCTACCTCAAGAAAC--GTAAAAAAAG
** * * * * *
39967 CCATTCATTGAG-AAGAAAGGTCTATTTATAGTCACTCATTCCTTCAAAAGC
318 GAATTCACTG-GCAAGAAAAGTCCATTTAGAGTCACCCATTCCTTCAAAAGC
40018 NNNNNNNNNN
Statistics
Matches: 865, Mismatches: 156, Indels: 74
0.79 0.14 0.07
Matches are distributed among these distances:
680 35 0.04
681 218 0.25
682 420 0.49
683 61 0.07
684 127 0.15
685 4 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (675 bp):
AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTCTTATTACTCCTTTAAATGGTTTTATAAT
CTCATAATTGATTTTAAGTTGAATTTTTTTAATTTTTTGGTCAAAACAGACTATAATTGAATGTC
TACTCAAGAAACAAGAAGAAAAAGGCATTCATTGGAAAAAAAGTCATTTATAGTCACCAATTCCT
TCAAAAGTCTTACTCGCTTTAAATGTTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTA
CATTCTTCATTAAAACAGACTATAATTGAATGTCTACCTCAAGAAACGTAAAAAAAGGAATTCAC
TGGCAAGAAAAGTCCATTTAGAGTCACCCATTCCTTCAAAAGCCTTAGTACTCACTTTAAATAGT
TTTATAATCTCAAAATTGATTTTAAGTTGAATTCTTTTTACATTTCTAGTTAAAACAGACTATAA
TTGAATAGCTACCTTAAAAAAACTTAAGGAAAAGCCATTCATTGACAAGAAAAGTCTATTTATAG
TCACCCATTCCTTCAAAAGCCTTAGTACCCGCTTTAAAAGGTTTTATAATCCCAGAATTGAGTTT
AAGTTCAATTGGTTTACATTTCTAGTTAAAACAGACTATAATTGAATGCCTGACTTAGGAAACAT
GAAGAAAATTTCATTCATCGGCAAG
Found at i:39975 original size:852 final size:852
Alignment explanation
Indices: 38277--40017 Score: 1943
Period size: 852 Copynumber: 2.0 Consensus size: 852
38267 NNNNNNNNNN
* * * *
38277 AAAAGTCCATTTATAGTCACCCATTCGTTTAAAAGCCTTATTACTCGCTTTAAAAGGTTTTATAA
1 AAAAGTTCATTTATAGTCACCTATTCCTTTAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
* ** *
38342 TCTTATAACTGATTTTAAGTTGAATGTTTTTACATTTTTGGCTCAAACAAACTATAATTGAATGT
66 TCTCATAACTGATTTTAAGTTGAATGTTTTTACATTCAT-GCTCAAACAAACAATAATTGAATGT
* * *
38407 CTACCTCAAGAAACATGAAGAAAAAAGCATTCATTAGCAAAAAAAGTCTATTTATAGTCACCGAT
130 CTACCTCAAGAAACATGAAGAAAAAAGCATTCACTAGCAAAAAAAGTCCATTTAGAGTCACCGAT
* *
38472 TCCTTCAAAAGCCTTATTACATGCTTTAAATAGTTTTATAGTCTCAAAATTGATTTTAAGTTTAA
195 TCCTTCAAAAGCCTTAGTACATGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTTAA
* * *
38537 TTTTTTTTATATTTTTACTTAAAACATATTATAATTGAATGTCTACCTTAAGAAACATAAAAAAA
260 TTTTTTTTACATTTCTACTTAAAACATACTATAATTGAATGTCTACCTTAAGAAACATAAAAAAA
* * *
38602 TGAATTCATTGGGAAGAAAAGTTTATTTATTGTCACCCATTCCTTCAAAAGCCTTATTACTTACT
325 TGAATTCATTGGGAAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACCTACT
* * * * * *
38667 TTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTCTTTTTACTTTTTTAGTTAAAAC
390 TTAAATAGTTTTATAATCTCAAAATTGAGTTTAAGTTCAATTCGTTTCACATTTTAAGTTAAAAC
* * * * * *
38732 AGATTATAATTGAATATCTACCTTAAAAAAAGTTAAGGAAAAGGCATTCATTGACAAGAAAAGTT
455 AGACTATAATTGAATACCTACCTTAAAAAAAGTGAAGAAAAAGGCATTCATCGACAAGAAAAGTC
* * * * *
38797 TATTTATAGTCACCCATTCCTTCAAAAGCCTTAGTACTCGCTTTAAAAGGTTTTATAATCCCATA
520 CATTTATAGTCACCCATTCCTTCAAAAGCCTTAGTACTCACTTCAAAAGGTTTTACAATCCCAAA
* * * ** * *
38862 ATTGATTTTAAGTTGAATTGGTTTACATTTCTGGTTAAAACAGACTATAATTGGATGCCTTACTT
585 ATTAACTTTAAGTTGAATTGGTTTACATTTCTGGTCAAAACAGACTATAATTAAATACCTTACAT
*** * *** * * * * * * *
38927 AGGAAATGTGTAGAAAATTTCATTTATTTGTAAGAAATGTCTATTTATAGTCTCTCATTCCTTCA
650 AGGAAACAAGAAGAAAAAGGCATTAATTGGAAACAAAAGTCTATTTATAGTCACTCATTCCGTCA
* * * *
38992 AAAGTCTTATTACTCTTTAAATCATTTTATAATCTCATAATTGATTTTAAGTTGAATTTGTTTAC
715 AAAGTCTTACTACGCTTTAAATCATTTTATAATCTCATAATTAATTTTAAGTTAAATTTGTTTAC
* * * * * * * * **
39057 TTTTTTTATTAAAACAGACTATAATTGAATGTCTGCTTTAGGAAACGTAAAGAAAATGGTATTCA
780 ATTCTTCATTAAAACAGACTACAATTGAATGTCTACCTCAAGAAACGTAAAGAAAATGCCATTCA
39122 TT-AGCAAG
845 TTGAG-AAG
* *
39130 AAAAGTTCATTTATAGTTACCTATTCCTTTAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
1 AAAAGTTCATTTATAGTCACCTATTCCTTTAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
* * * *
39195 TCTCATAATTGATTTTAAGTTGAGTTTTTTTACATTCAT-CATTAAA-AAGACAATAATTGAATG
66 TCTCATAACTGATTTTAAGTTGAATGTTTTTACATTCATGC-TCAAACAA-ACAATAATTGAATG
* * * * *
39258 TCTACCTCAAGAAACGTGAAGAAAAAGGTATTCACTGGCAATTAAAA-TCCATTTAGAGTCATCC
129 TCTACCTCAAGAAACATGAAGAAAAAAGCATTCACTAGCAA-AAAAAGTCCATTTAGAGTCA-CC
* *
39322 -ATTCTTTCAAAAGCCTTAGTAC-TCGCTTTAAA-AGGTTTTATAATCTCATAATTGATTTTTAA
192 GATTCCTTCAAAAGCCTTAGTACAT-GCTTTAAATA-GTTTTATAATCTCAAAATTGA-TTTTAA
* *
39384 GTTTAA-TTTTTTTACATTTCTAGTT-AAAC-TAGGCTATAATTGAATG-CATGCCTTAAGAAAC
254 GTTTAATTTTTTTTACATTTCTACTTAAAACATA--CTATAATTGAATGTC-TACCTTAAGAAAC
* * * * ** * * *
39445 TTATAGAAAA-GCCCATTTATTTTGAAGAAAAGTCTATTTATAGT-ATCTCATTTCTTCGAAAGC
316 ATA-AAAAAATG--AATTCATTGGGAAGAAAAGTCTATTTATAGTCA-CCCATTCCTTCAAAAGC
*
39508 CTTATTACCCT-CTTTAAATAGTTTTATAATCTCAGAATTG-GTTTAAGTTCAATT-GTTTCACA
377 CTTATTA-CCTACTTTAAATAGTTTTATAATCTCAAAATTGAGTTTAAGTTCAATTCGTTTCACA
* * * * ***
39570 TTTTAAGTTAAAACAGACTATAATTGAATGCCTGCCTTGAGAAACA-TGAAGAAAAATTTATTCA
441 TTTTAAGTTAAAACAGACTATAATTGAATACCTACCTT-AAAAAAAGTGAAGAAAAAGGCATTCA
* ** * *
39634 TCGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGTTTTATTACTCACTTCAAATGG
505 TCGACAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTAGTACTCACTTCAAAAGG
* * * ** * *
39699 TTTTACGATCTCAAAATTAACTTTAAGTTTAATTTTTTTTA-ATTTTTTGGTCAAAACAGATTAT
570 TTTTACAATCCCAAAATTAACTTTAAGTTGAA-TTGGTTTACA-TTTCTGGTCAAAACAGACTAT
* *
39763 AATTAAATATC-TACATCGAGAAACAAGAAGAAAAAGGCATTAATTGGAAACAAAAGTGC-ATTT
633 AATTAAATACCTTACATAG-GAAACAAGAAGAAAAAGGCATTAATTGGAAACAAAAGT-CTATTT
39826 ATAGTCAC-CAATTCCGTCAAAAGTCTTACT-CGCTTTAAATGC-TTTTATAATCTCATAATTAA
696 ATAGTCACTC-ATTCCGTCAAAAGTCTTACTACGCTTTAAAT-CATTTTATAATCTCATAATTAA
* *
39888 TTTTAAGTTAAATTTTTTTACATTCTTCATTAAAACAGACTACAATTGAATGTTTACCTCAAGAA
759 TTTTAAGTTAAATTTGTTTACATTCTTCATTAAAACAGACTACAATTGAATGTCTACCTCAAGAA
*
39953 ACGAGTAAA-AGAA-GCCATTCATTGAGAAG
824 AC--GTAAAGAAAATGCCATTCATTGAGAAG
* *
39982 -AAAGGTCTATTTATAGTCA-CTCATTCCTTCAAAAGC
1 AAAAGTTC-ATTTATAGTCACCT-ATTCCTTTAAAAGC
40018 NNNNNNNNNN
Statistics
Matches: 738, Mismatches: 123, Indels: 55
0.81 0.13 0.06
Matches are distributed among these distances:
850 2 0.00
851 18 0.02
852 411 0.56
853 225 0.30
854 80 0.11
855 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (852 bp):
AAAAGTTCATTTATAGTCACCTATTCCTTTAAAAGCCTTATTACTCACTTTAAAAGGTTTTATAA
TCTCATAACTGATTTTAAGTTGAATGTTTTTACATTCATGCTCAAACAAACAATAATTGAATGTC
TACCTCAAGAAACATGAAGAAAAAAGCATTCACTAGCAAAAAAAGTCCATTTAGAGTCACCGATT
CCTTCAAAAGCCTTAGTACATGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTTAAT
TTTTTTTACATTTCTACTTAAAACATACTATAATTGAATGTCTACCTTAAGAAACATAAAAAAAT
GAATTCATTGGGAAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACCTACTT
TAAATAGTTTTATAATCTCAAAATTGAGTTTAAGTTCAATTCGTTTCACATTTTAAGTTAAAACA
GACTATAATTGAATACCTACCTTAAAAAAAGTGAAGAAAAAGGCATTCATCGACAAGAAAAGTCC
ATTTATAGTCACCCATTCCTTCAAAAGCCTTAGTACTCACTTCAAAAGGTTTTACAATCCCAAAA
TTAACTTTAAGTTGAATTGGTTTACATTTCTGGTCAAAACAGACTATAATTAAATACCTTACATA
GGAAACAAGAAGAAAAAGGCATTAATTGGAAACAAAAGTCTATTTATAGTCACTCATTCCGTCAA
AAGTCTTACTACGCTTTAAATCATTTTATAATCTCATAATTAATTTTAAGTTAAATTTGTTTACA
TTCTTCATTAAAACAGACTACAATTGAATGTCTACCTCAAGAAACGTAAAGAAAATGCCATTCAT
TGAGAAG
Found at i:40699 original size:169 final size:170
Alignment explanation
Indices: 40333--40782 Score: 491
Period size: 169 Copynumber: 2.6 Consensus size: 170
40323 NNNNNTCACT
* * * *
40333 TTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTCTATTTTTAGTTAAAACA
1 TTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTAAATTTTTTAC-ATTTTTAGTTAAAACA
* *** *
40398 GACTATAATTGAATGTCTATCTCGTGAAACATG-AGAAAAAGGATATTCATTGATAAGAAAAGTC
65 GACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAA-GATATTCATTGACAAGAAAAGTC
*
40462 CATTTATAGTTACCTATTCCTTTAAAAGCTTAACAACTCGCA
129 CATTTATAGTTACCTATTCCTTCAAAAGCTTAACAACTCGCA
* * *
40504 TTAAATGGTTTAATAATCTCATAATTGATTTTAGGTTAAATTTTTTACATTTTTGGTTGAAACAG
1 TTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTAAATTTTTTACATTTTTAGTTAAAACAG
* * *
40569 ACTACAATTGAATGGCTACCTTAAGAAACATGAAGAAAAA-ATATTCATTGGCAAGAAAAGTCCA
66 ACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAGATATTCATTGACAAGAAAAGTCCA
* * **
40633 TTTATAGTCTCCCT-TT-CTCTCAAAAG-TCTCATTACTCGC-
131 TTTATAGT-TACCTATTCCT-TCAAAAGCT-TAACAACTCGCA
* * * * ** * *
40672 TTAAAATAGTTTTATAATGTTATAATTGATTTTAGGCTCAGTTTTGTTTTAAATTATTAGTTAAA
1 TT-AAATGGTTTTATAATCTCATAATTGATTTTAGG-TTA-AATT-TTTTACATTTTTAGTTAAA
* *
40737 ACATATTATAATTGAATGTCTACCTTGAA-AAACATGAAGAAAAAGA
62 ACAGACTATAATTGAATGTCTACCTT-AAGAAACATGAAGAAAAAGA
40783 CANNNNNNNN
Statistics
Matches: 234, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
168 5 0.02
169 75 0.32
170 47 0.20
171 52 0.22
172 52 0.22
173 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (170 bp):
TTAAATGGTTTTATAATCTCATAATTGATTTTAGGTTAAATTTTTTACATTTTTAGTTAAAACAG
ACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAGATATTCATTGACAAGAAAAGTCCA
TTTATAGTTACCTATTCCTTCAAAAGCTTAACAACTCGCA
Found at i:41177 original size:173 final size:173
Alignment explanation
Indices: 40885--41605 Score: 446
Period size: 173 Copynumber: 4.2 Consensus size: 173
40875 NNNNNNNNNN
* * *
40885 ACTTAAAATAAATTATGAGATTATAAAAGCATTTAAAGCGAGTAATAAGGCTTTTGACAGAATTG
1 ACTTAAAATAAATTATGAGATTATAAAAGCATTTAAAGCGAGTAATAAAGATTTTGACAGAATGG
* * *** ***
40950 GTGACTATAAATGCACTTTTGTTGCCAATTAATGCCTTTTTCTTCTCATTTCTCAATTTAGACAT
66 GTGACTATAAATGCACTTTTCTTGCCAATGAATAAATTTTTCTTCTCATTTCTCAAGGCAGACAT
41015 TCAATTATAATTCGTTTTGACCAAGAAAGTAAAAAGAAATTGA
131 TCAATTATAATTCGTTTTGACCAAGAAAGTAAAAAGAAATTGA
* * * * * *
41058 ACTTAAAGTTAATTTTGAGATTGT-AAAGCCATTTGAAGTGAGTAATAAAGATTTTGA-AGGAAT
1 ACTTAAAATAAATTATGAGATTATAAAAG-CATTTAAAGCGAGTAATAAAGATTTTGACA-GAAT
* *
41121 GGGTGACTATAAATAG-ACTTTTCTTGCCGATGAATAAATTTTTCTTCAT-GTTTCTCAAGGCAG
64 GGGTGACTATAAAT-GCACTTTTCTTGCCAATGAATAAATTTTTCTTC-TCATTTCTCAAGGCAG
* * * ** * *
41184 GCATTCAATTATAGTAT-GTTTTAATTAA-AAATGT-GAAA-CAATTGA
127 ACATTCAATTATAAT-TCGTTTTGACCAAGAAA-GTAAAAAGAAATTGA
** ** * * *
41229 ACTT-AAACCAATTATGAGATTATAAAA-CTATTTAAATAGGGTAATAAGGGTTTTGA-AGAAAT
1 ACTTAAAATAAATTATGAGATTATAAAAGC-ATTTAAAGCGAGTAATAAAGATTTTGACAG-AAT
* * * * * * *
41291 GAGAGACTATAAATAG-ACTTTTCTT-CCAAATAAATAGATTTTTC-TATAAGTTTC-CTATGGC
64 GGGTGACTATAAAT-GCACTTTTCTTGCC-AATGAATAAATTTTTCTTCTCA-TTTCTC-AAGGC
* * * * * *
41352 ATG-CCTTCAATTAT-AGTCTGTTTTAACTAA-AAA-TATAAAAAAAATTAA
125 A-GACATTCAATTATAATTC-GTTTTGACCAAGAAAGTA-AAAAGAAATTGA
* * * * * *
41400 ACTTAAAATTAATTATGAGATTATAAAATCTTTTAAAGCGAGTACTAAGGCTTTTGA-AGAATGG
1 ACTTAAAATAAATTATGAGATTATAAAAGCATTTAAAGCGAGTAATAAAGATTTTGACAGAATGG
* * * * *** * * ** *
41464 GTGACTCTAAATGGACTTTTCTTGTCAGTGAATGCCTTTTTCCTTAT-GTTTCTTGAGGTAGACA
66 GTGACTATAAATGCACTTTTCTTGCCAATGAATAAATTTTT-CTTCTCATTTCTCAAGGCAGACA
* * * * * ** * * *
41528 ATAAATTAT-AGTCTTTTTAATGATGAATGTAAAAA-AAA-TCA
130 TTCAATTATAATTCGTTTTGACCAAGAAAGTAAAAAGAAATTGA
* *
41569 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAA
1 ACTTAAAATAAATTATGAGATTATAAAAGCATTTAAA
41606 NNNNNNNNNN
Statistics
Matches: 433, Mismatches: 86, Indels: 62
0.75 0.15 0.11
Matches are distributed among these distances:
168 3 0.01
169 42 0.10
170 122 0.28
171 81 0.19
172 59 0.14
173 123 0.28
174 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (173 bp):
ACTTAAAATAAATTATGAGATTATAAAAGCATTTAAAGCGAGTAATAAAGATTTTGACAGAATGG
GTGACTATAAATGCACTTTTCTTGCCAATGAATAAATTTTTCTTCTCATTTCTCAAGGCAGACAT
TCAATTATAATTCGTTTTGACCAAGAAAGTAAAAAGAAATTGA
Found at i:41307 original size:170 final size:168
Alignment explanation
Indices: 40885--41995 Score: 591
Period size: 170 Copynumber: 6.5 Consensus size: 168
40875 NNNNNNNNNN
* * * *
40885 ACTTAAAATAAATTATGAGATTATAAAAGC-ATTTAAAGCGAGTAATAAGGCTTTTGACAGAATT
1 ACTTAAAATCAATTATGAGATTATAAAA-CTATTTAAAGAGAGTAATAAGGATTTTGA-AGAATG
* * *** * * *** *
40949 GGTGACTATAAAT-GCACTTTTGTTGCCAATTAATGCCTTTTTCTTCTCATTTCTCAATTTAGAC
64 GGTGACTATAAATAG-ACTTTTCTTGCC-ATGAATAAATTTTTCTTAT-GTTTCTCAAGGCAGGC
* * ** *
41013 ATTCAATTATAAT-TCGTTTTGACCAAGAAA-GTAAAAAGAAATTGA
126 ATTCAATTATAGTCT-GTTTTAATTAA-AAATGT-AAAA-AAATTAA
* * * * * * * * *
41058 ACTTAAAGTTAATTTTGAGATTGTAAAGCCATTTGAAGTGAGTAATAAAGATTTTGAAGGAATGG
1 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGATTTTGAA-GAATGG
41123 GTGACTATAAATAGACTTTTCTTGCCGATGAATAAATTTTTCTTCATGTTTCTCAAGGCAGGCAT
65 GTGACTATAAATAGACTTTTCTTGCC-ATGAATAAATTTTTCTT-ATGTTTCTCAAGGCAGGCAT
* * * *
41188 TCAATTATAGTATGTTTTAATTAAAAATGTGAAACAATTGA
128 TCAATTATAGTCTGTTTTAATTAAAAATGTAAAAAAATTAA
* * * * *
41229 ACTT-AAACCAATTATGAGATTATAAAACTATTTAAATAGGGTAATAAGGGTTTTGAAGAAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGATTTTGAAG-AATGG
* * * * * *
41293 GAGACTATAAATAGACTTTTCTT-CCAAATAAATAGATTTTTCTATAAGTTTC-CTATGGCATGC
65 GTGACTATAAATAGACTTTTCTTGCC--ATGAATAAATTTTTCT-TATGTTTCTC-AAGGCAGGC
* * *
41356 CTTCAATTATAGTCTGTTTTAACTAAAAATATAAAAAAAATTAA
126 ATTCAATTATAGTCTGTTTTAATTAAAAATGT-AAAAAAATTAA
* * * *
41400 ACTTAAAATTAATTATGAGATTATAAAATCT-TTTAAAGCGAGTACTAAGGCTTTTGAAGAATGG
1 ACTTAAAATCAATTATGAGATTATAAAA-CTATTTAAAGAGAGTAATAAGGATTTTGAAGAATGG
* * * *** ** * * *
41464 GTGACTCTAAATGGACTTTTCTTGTCAGTGAATGCCTTTTTCCTTATGTTTCTTGAGGTAGACAA
65 GTGACTATAAATAGACTTTTCTTGCCA-TGAATAAATTTTT-CTTATGTTTCTCAAGGCAGGCAT
* * ** * *
41529 TAAATTATAGTCT-TTTTAATGATGAATGTAAAAAAAATCA
128 TCAATTATAGTCTGTTTTAATTAAAAATGTAAAAAAATTAA
* ************************
41569 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAANNNNNNNNNNNNNNNNNNNNNNNNNTGG
1 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAA-GAGAGTAATAAGGATTTTGAAGAATGG
* * ** * *
41634 GTGACTATAAATGGACTTTTCTTGCTAATGAATACCTTTTTCTTCACAT-TTTCTAAAGTG--GA
65 GTGACTATAAATAGACTTTTCTTGC-CATGAATAAATTTTTCTT---ATGTTTCTCAAG-GCAGG
* *
41696 CATTCAATTATAGTCTG--TT--TTAACAA---AAAAAAATTCA
125 CATTCAATTATAGTCTGTTTTAATTAAAAATGTAAAAAAATTAA
* * * * * *
41733 ACTTAAAATCAATAATGAGATTATAAAACCATTTATAGTGAGTAATAAGGCTTTTGAAGGAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGATTTTGAA-GAATGG
** * * * * * *
41798 GACACTATAAATTA-ACTTTTCCTACAAATAAATAAGA-TTTTCTATACGTTTC-CTAAGGCAAG
65 GTGACTATAAA-TAGACTTTTCTTGC-CATGAATAA-ATTTTTCT-TATGTTTCTC-AAGGCAGG
* * * *
41860 C-TTCCAATTATAGTCTATTTTAACTAGAAATAG-AAAAAAATTCA
125 CATT-CAATTATAGTCTGTTTTAATTAAAAAT-GTAAAAAAATTAA
* * * *
41904 ATTTAAAATCAATTATGAGATTATAAAACCT-TTTAAAGCGAGTATTCAA-GCTTTTGAAGAAAT
1 ACTTAAAATCAATTATGAGATTATAAAA-CTATTTAAAGAGAGTAAT-AAGGATTTTGAAG-AAT
41967 GGGTGACTATAAATAGACTTTTCTTGCCA
63 GGGTGACTATAAATAGACTTTTCTTGCCA
41996 ATAAATACCT
Statistics
Matches: 710, Mismatches: 183, Indels: 93
0.72 0.19 0.09
Matches are distributed among these distances:
162 2 0.00
163 9 0.01
164 91 0.13
165 2 0.00
166 2 0.00
167 4 0.01
168 5 0.01
169 51 0.07
170 191 0.27
171 167 0.24
172 61 0.09
173 122 0.17
174 3 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (168 bp):
ACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGAGAGTAATAAGGATTTTGAAGAATGGG
TGACTATAAATAGACTTTTCTTGCCATGAATAAATTTTTCTTATGTTTCTCAAGGCAGGCATTCA
ATTATAGTCTGTTTTAATTAAAAATGTAAAAAAATTAA
Found at i:42001 original size:171 final size:170
Alignment explanation
Indices: 40885--42116 Score: 710
Period size: 171 Copynumber: 7.3 Consensus size: 170
40875 NNNNNNNNNN
* * *
40885 ACTTAAAATAAATTATGAGATTATAAAAGCATTTAAAGCGAGTAATAAGGCTTTTGACAG-AATT
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA-AGAAATG
* * ** * * * ***
40949 GGTGACTATAAAT-GCACTTTTGTTGCCAATTAATGCCTTTTTCTTCTCATTT-CTCAA-TTTAG
65 GGTGACTATAAATAG-ACTTTTCTTGCCAATAAATAACATTTTCTT-ACGTTTCCT-AAGGCAAG
* * * *
41011 ACATTCAATTATAAT-TCGTTTTGACCAAGAAAGTA-AAAAGAAATTGA
127 -CATTCAATTATAGTCT-GTTTTAACTAA-AAA-TAGAAAA-AAATTCA
* * * * * * * * * *
41058 ACTTAAAGTTAATTTTGAGATTGTAAAGCCATTTGAAGTGAGTAATAAAGATTTTGAAGGAATGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGG
* * * *
41123 GTGACTATAAATAGACTTTTCTTGCCGATGAATAA-ATTTTTCTTCATGTTT-CTCAAGGCAGGC
66 GTGACTATAAATAGACTTTTCTTGCCAATAAATAACA-TTTTCTT-ACGTTTCCT-AAGGCAAGC
* * * * *
41186 ATTCAATTATAGTATGTTTTAATTAAAAAT-GTGAAACAATTGA
128 ATTCAATTATAGTCTGTTTTAACTAAAAATAG-AAAAAAATTCA
* * ** * * *
41229 ACTT-AAACCAATTATGAGATTATAAAACTATTTAAATAGGGTAATAAGGGTTTTGAAGAAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGG
* * * * *
41293 GAGACTATAAATAGACTTTTCTT-CCAAATAAATAGA-TTTTTCTATAAGTTTCCTATGGCATGC
66 GTGACTATAAATAGACTTTTCTTGCC-AATAAATA-ACATTTTCT-TACGTTTCCTAAGGCAAGC
* * *
41356 CTTCAATTATAGTCTGTTTTAACTAAAAATATAAAAAAAATTAA
128 ATTCAATTATAGTCTGTTTTAACTAAAAATA-GAAAAAAATTCA
* * * *
41400 ACTTAAAATTAATTATGAGATTATAAAATCTTTTAAAGCGAGTACTAAGGCTTTTGAAG-AATGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGG
* * * * * ** * * * * *
41464 GTGACTCTAAATGGACTTTTCTTGTCAGTGAATGCCTTTTTCCTTATGTTTCTTGAGG-TAGACA
66 GTGACTATAAATAGACTTTTCTTGCCAATAAATAACATTTT-CTTACGTTTCCTAAGGCAAG-CA
* * ** *
41528 ATAAATTATAGTCT-TTTTAA-TGATGAAT-GTAAAAAAAATCA
129 TTCAATTATAGTCTGTTTTAACT-AAAAATAG-AAAAAAATTCA
*************************
41569 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAANNNNNNNNNNNNNNNNNNNNNNNNNTGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGG
* * * * * * * *
41634 GTGACTATAAATGGACTTTTCTTGCTAATGAATACCTTTTTCTTCACATTTTCTAAAGTG-GA-C
66 GTGACTATAAATAGACTTTTCTTGCCAATAAATAACATTTTCTT-ACGTTTCCT-AAG-GCAAGC
41697 ATTCAATTATAGTCTGTTTTAAC-----A-A-AAAAAAATTCA
128 ATTCAATTATAGTCTGTTTTAACTAAAAATAGAAAAAAATTCA
* * * * *
41733 ACTTAAAATCAATAATGAGATTATAAAACCATTTATAGTGAGTAATAAGGCTTTTGAAGGAATGA
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGG
** * * * *
41798 GACACTATAAATTA-ACTTTTCCTACAAATAAATAAGATTTTCTATACGTTTCCTAAGGCAAGC-
66 GTGACTATAAA-TAGACTTTTCTTGCCAATAAATAACATTTTCT-TACGTTTCCTAAGGCAAGCA
* *
41861 TTCCAATTATAGTCTATTTTAACTAGAAATAGAAAAAAATTCA
129 TT-CAATTATAGTCTGTTTTAACTAAAAATAGAAAAAAATTCA
* * *
41904 ATTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTATTCAA-GCTTTTGAAGAAATG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-AAGGCTTTTGAAGAAATG
* * *
41968 GGTGACTATAAATAGACTTTTCTTGCCAATAAAT-ACCTTTTCTTTCACCTTT-CTCAAGG-TAG
65 GGTGACTATAAATAGACTTTTCTTGCCAATAAATAACATTTTC-TT-ACGTTTCCT-AAGGCAAG
* * *
42030 ACATTCAATTATTA-TCTTTTTTAACCAAAAA-CG-------TTCA
127 -CATTCAATTA-TAGTCTGTTTTAACTAAAAATAGAAAAAAATTCA
* * *
42067 ACTTAAAATCAATTTTGAGATTATAAAACCATTGAAAGCAAGTAATAAGG
1 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGG
42117 NNNNNNNNNN
Statistics
Matches: 809, Mismatches: 202, Indels: 106
0.72 0.18 0.09
Matches are distributed among these distances:
162 3 0.00
163 51 0.06
164 105 0.13
165 2 0.00
166 1 0.00
169 50 0.06
170 202 0.25
171 213 0.26
172 63 0.08
173 116 0.14
174 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGG
GTGACTATAAATAGACTTTTCTTGCCAATAAATAACATTTTCTTACGTTTCCTAAGGCAAGCATT
CAATTATAGTCTGTTTTAACTAAAAATAGAAAAAAATTCA
Found at i:42030 original size:505 final size:480
Alignment explanation
Indices: 41118--42050 Score: 1001
Period size: 505 Copynumber: 1.9 Consensus size: 480
41108 ATTTTGAAGG
* *
41118 AATGGGTGACTATAAATAGACTTTTCTTGCCGATGAATAAATTTTTCTTCATGTTTCTCAAGGCA
1 AATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAAATTTTTCTTCATGTTTCTAAAGG-A
* * *
41183 GGCATTCAATTATAGTATGTTTTAATTAAAAATGTGAAACAATTGAACTTAAACCAATTATGAGA
65 GACATTCAATTATAGTATGTTTTAA-TAAAAA---GAAACAATTCAACTTAAACCAATAATGAGA
* * *
41248 TTATAAAACTATTTAAATAGGGTAATAAGGGTTTTGAAGAAATGAGAGACTATAAATAGACTTTT
126 TTATAAAACCATTT-AATAGGGTAATAAGGCTTTTGAAGAAATGAGACACTATAAATAGACTTTT
* * * * *
41313 CTTCCAAATAAATAGATTTTTCTATAAGTTTCCTATGGCATGCCTTCAATTATAGTCTGTTTTAA
190 CCTACAAATAAATAGATTTTTCTATAAGTTTCCTAAGGCAAGCCTTCAATTATAGTCTATTTTAA
* *
41378 CTAAAAATATAAAAAAAATTAAACTTAAAATTAATTATGAGATTATAAAATCTTTTAAAGCGAGT
255 CTAAAAATATAAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGT
* * * * * *
41443 ACTAAGGCTTTTGAAGAATGGGTGACTCTAAATGGACTTTTCTTGTCAGTGAATGCCTTTTTCCT
320 ACTAAGGCTTTTGAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATAAATACCTTTTTCCT
** **
41508 TATGTTTCTTGAGGTAGACAATAAATTA-TAGTCTTTTTAATGATGAATGTAAAAAAAATCAACT
385 TACCTTTCTCAAGGTAGACAATAAATTATTA-TCTTTTTAATGATGAATGTAAAAAAAATCAACT
41572 TAAAATCAATTATGAGATTATAAAACCATTTA
449 TAAAATCAATTATGAGATTATAAAACCATTTA
* * *
41604 AANNNNNNNNNNNNNNNNNNNNNNNNNTGGGTGACTATAAATGGACTTTTCTTGCTAATGAATAC
1 AA-------------------------TGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAA
* * *
41669 CTTTTTCTTCACAT-TTTCTAAAGTG-GACATTCAATTATAGTCTGTTTTAA-CAAAA-AAA-AA
41 ATTTTTCTT--CATGTTTCTAAAG-GAGACATTCAATTATAGTATGTTTTAATAAAAAGAAACAA
* *
41729 TTCAACTTAAAATCAATAATGAGATTATAAAACCATTT-ATAGTGAGTAATAAGGCTTTTGAAGG
103 TTCAACTT-AAACCAATAATGAGATTATAAAACCATTTAATAG-G-GTAATAAGGCTTTTGAAGA
*
41793 AATGAGACACTATAAATTA-ACTTTTCCTACAAATAAATAAGA-TTTTCTATACGTTTCCTAAGG
165 AATGAGACACTATAAA-TAGACTTTTCCTACAAATAAAT-AGATTTTTCTATAAGTTTCCTAAGG
* * * *
41856 CAAG-CTTCCAATTATAGTCTATTTTAACTAGAAATA-GAAAAAAATTCAATTTAAAATCAATTA
228 CAAGCCTT-CAATTATAGTCTATTTTAACTAAAAATATAAAAAAAATTAAACTTAAAATCAATTA
*
41919 TGAGATTATAAAACCTTTTAAAGCGAGTATTCAA-GCTTTTGAAGAAATGGGTGACTATAAATAG
292 TGAGATTATAAAACCTTTTAAAGCGAGTACT-AAGGCTTTTGAAG-AATGGGTGACTATAAATAG
* * *
41983 ACTTTTCTTGCCAATAAATACC-TTTTCTTTCACCTTTCTCAAGGTAGACATTCAATTATTATCT
355 ACTTTTCTTGCCAATAAATACCTTTTTCCTT-ACCTTTCTCAAGGTAGACAATAAATTATTATCT
42047 TTTT
419 TTTT
42051 TAACCAAAAA
Statistics
Matches: 367, Mismatches: 42, Indels: 57
0.79 0.09 0.12
Matches are distributed among these distances:
486 2 0.01
503 4 0.01
504 82 0.22
505 191 0.52
506 7 0.02
509 4 0.01
511 65 0.18
512 8 0.02
513 4 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.36
Consensus pattern (480 bp):
AATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATAAATTTTTCTTCATGTTTCTAAAGGAG
ACATTCAATTATAGTATGTTTTAATAAAAAGAAACAATTCAACTTAAACCAATAATGAGATTATA
AAACCATTTAATAGGGTAATAAGGCTTTTGAAGAAATGAGACACTATAAATAGACTTTTCCTACA
AATAAATAGATTTTTCTATAAGTTTCCTAAGGCAAGCCTTCAATTATAGTCTATTTTAACTAAAA
ATATAAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCGAGTACTAAG
GCTTTTGAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATAAATACCTTTTTCCTTACCTT
TCTCAAGGTAGACAATAAATTATTATCTTTTTAATGATGAATGTAAAAAAAATCAACTTAAAATC
AATTATGAGATTATAAAACCATTTA
Found at i:43026 original size:171 final size:170
Alignment explanation
Indices: 42655--43850 Score: 1230
Period size: 171 Copynumber: 7.0 Consensus size: 170
42645 NNNNNNNNNN
* * * ** *
42655 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTACAAATAAATAGGATTTTCTA
1 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATAGCTTTTTCTT
* * * * * * * *
42720 CATGTTTTCCAAGGTAGGCATTCAATTATAGTCTATTTTAACTAAAAATGT-AAAAAATTCAACT
66 TATG-TTTCTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAACT
* * * * *
42784 TCAAATCAATTATGAGATTATCAAACCATGTAAAGCGAGTT
130 TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTA
* * * *
42825 ATTAGGCTTTTGAAGGAATAGGTA-ACTATAAATAGACTTTTCTTGCCAATGAATATCTTTTTCT
1 ATAAGGCTTTTGAAGGAAT-GGGAGACTATAAATGGACTTTTCTTGCCAATGAATAGCTTTTTCT
* *
42889 TTACGTTTCATGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAAC
65 TTATGTTTC-TAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAAC
* *
42954 TTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGACTA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTA
* * * *
42996 ATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTGCAAATAAATAAG-ATTTTCT
1 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAAT-AGCTTTTTCT
* * ** * *
43060 ATATGTTTCCTAAGGTAGGCATTCAATTATAGCCTGTTTTAACAAAAAATATAAAAAAA-TCAAC
65 TTATGTTT-CTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAAC
* * * *
43124 TTAAAATCAATTATGAGATTCTAAAATCATGTAAA-TCGAGTT
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-GAGTA
* * ** * ** * *
43166 ATTAGGCTTTTGAAAGAATAAGTGACTATAAACAGACTTTTCTTGTCAATGAATATCTTTTT-TT
1 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATAGCTTTTTCTT
* * * * *
43230 TGACGTTTCATAAGGTAAACATTCAATTGTAATCTGTTTTAACCAAAAATATAGAAAAATTGAGC
66 T-ATGTTTC-TAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAAC
* *
43295 TTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTA
129 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTA
* * *
43337 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATTAAT-GCATTTTTCT
1 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATAGC-TTTTTCT
* * * * * * *
43401 TCACGTTTCTCAATGTAGACATTCAATTATAATCTATTTTAACCAATAATTTAAAAAAAAACTGA
65 TTATGTTTCT-AAGGTAGACATTCAATTATAATCTGTTTTAACCAA-AA-ATATAAAAAAATTGA
* * * *
43466 ACCTAAAATCAATTATAACATTATAAAATCATTTAAAGTGAGTA
127 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTA
* * * * *
43510 ACAAGGCTTTTGAAGGAATAGGAAACTATAAATAGACTTTTCTTGCCAGTGAAT-GCTTTTTTCT
1 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATAGC-TTTTTCT
* *
43574 TTATGTTTCTTACA-GTAGACATTCAATTATAGAT-TGTTTTAACCAAAAATGT-AAAAAATTCA
65 TTATGTTTC-TA-AGGTAGACATTCAATTATA-ATCTGTTTTAACCAAAAATATAAAAAAATTGA
* * *
43636 ACTTAAAATCAATTATGAGACTAT-AAATCATTTAAAGCGAGTA
127 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTA
* * * * * *
43679 ATAAGGCTTTTGAAAGAATGGGTGGCTATAATTGGACTTTTCTTACCAATGAAT-GCTATTTTAT
1 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATAGCT-TTTTCT
* * * * * * *
43743 TCATGTTTCTCGAGGTAGACATTCAATTATAATCTTTTTTAGTCATAAATGTAAAAAAAAAAAAT
65 TTATGTTTCT-AAGGTAGACATTCAATTATAATCTGTTTTA-AC-CAAA---AATATAAAAAAAT
* *
43808 TGAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTG
124 TGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTG
43851 NNNNNNNNNN
Statistics
Matches: 843, Mismatches: 152, Indels: 56
0.80 0.14 0.05
Matches are distributed among these distances:
168 5 0.01
169 109 0.13
170 254 0.30
171 278 0.33
172 9 0.01
173 139 0.16
174 6 0.01
175 31 0.04
176 12 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (170 bp):
ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATAGCTTTTTCTT
TATGTTTCTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAACTT
AAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTA
Found at i:43278 original size:341 final size:339
Alignment explanation
Indices: 42655--43838 Score: 1388
Period size: 341 Copynumber: 3.5 Consensus size: 339
42645 NNNNNNNNNN
*
42655 ATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTACAAATAAATAGGATTTTCTA
1 ATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTACAAATAAATA-GATTTTCTA
* * * *
42720 CATGTTTTCC-AAGGTAGGCATTCAATTATAGTCTATTTTAACTAAAAATGTAAAAAATTCAACT
65 TATG-TTTCCTAAGGTAGGCATTCAATTATAGTCTATTTTAACAAAAAATATAAAAAAATCAACT
* * * *
42784 TCAAATCAATTATGAGATTATCAAACCATGTAAAGCGAGTTATTAGGCTTTTGAAGGAATAGGTA
129 TAAAATCAATTATGAGATTATAAAATCATGTAAATCGAGTTATTAGGCTTTTGAAGGAATAGGTA
*
42849 ACTATAAATAGACTTTTCTTGCCAATGAATATCTTTTTCTTTACGTTTCATGAGGTAGACATTCA
194 ACTATAAATAGACTTTTCTTGCCAATGAATATCTTTTT-TTTACGTTTCATAAGGTAGACATTCA
42914 ATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAA
258 ATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAA
*
42979 ACCATTTAAAGTGACTA
323 ACCATTTAAAGTGAGTA
*
42996 ATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTGCAAATAAATAAGATTTTCTA
1 ATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTACAAATAAAT-AGATTTTCTA
* *
43061 TATGTTTCCTAAGGTAGGCATTCAATTATAGCCTGTTTTAACAAAAAATATAAAAAAATCAACTT
65 TATGTTTCCTAAGGTAGGCATTCAATTATAGTCTATTTTAACAAAAAATATAAAAAAATCAACTT
* * * *
43126 AAAATCAATTATGAGATTCTAAAATCATGTAAATCGAGTTATTAGGCTTTTGAAAGAATAAGTGA
130 AAAATCAATTATGAGATTATAAAATCATGTAAATCGAGTTATTAGGCTTTTGAAGGAATAGGTAA
* * *
43191 CTATAAACAGACTTTTCTTGTCAATGAATATCTTTTTTTTGACGTTTCATAAGGTAAACATTCAA
195 CTATAAATAGACTTTTCTTGCCAATGAATATCTTTTTTTT-ACGTTTCATAAGGTAGACATTCAA
* * *
43256 TTGTAATCTGTTTTAACCAAAAATATAGAAAAATTGAGCTTAAAATCAATTTTGAGATTATAAAA
259 TTATAATCTGTTTTAACCAAAAATATAAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAA
*
43321 CTATTTAAAGTGAGTA
324 CCATTTAAAGTGAGTA
* * * *
43337 ATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTACCAATTAAT-GCATTTTTCT
1 ATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTACAAATAAATAG-A-TTTTCT
* * * * ** *
43401 -TCACGTTT-CTCAATGTAGACATTCAATTATAATCTATTTTAACCAATAATTTAAAAAAAAACT
64 AT-ATGTTTCCT-AAGGTAGGCATTCAATTATAGTCTATTTTAA-CAA-AAAATATAAAAAAA-T
* * * * * * **
43464 GAACCTAAAATCAATTATAACATTATAAAATCATTTAAAGT-GAGTAACAAGGCTTTTGAAGGAA
124 CAACTTAAAATCAATTATGAGATTATAAAATCATGTAAA-TCGAGTTATTAGGCTTTTGAAGGAA
* * * * *
43528 TAGGAAACTATAAATAGACTTTTCTTGCCAGTGAAT-GCTTTTTTCTTTATGTTTCTTACA-GTA
188 TAGGTAACTATAAATAGACTTTTCTTGCCAATGAATATC-TTTTT-TTTACGTTTCATA-AGGTA
* * *
43591 GACATTCAATTATAGAT-TGTTTTAACCAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGA
250 GACATTCAATTATA-ATCTGTTTTAACCAAAAATATAAAAAAATTGAACTTAAAATCAATTTTGA
* * *
43654 GACTAT-AAATCATTTAAAGCGAGTA
314 GATTATAAAACCATTTAAAGTGAGTA
* * * * * *
43679 ATAAGGCTTTTGAA-AGAATGGGTGGCTATAATTGGACTTTTCTTACCAATGAAT-GCTATTT-T
1 ATAAGGCTTTTGAAGA-AATGGGAGACTATAAATGGACTTTTCTTACAAATAAATAGAT-TTTCT
* * * * * * *
43741 ATTCATGTTT-CTCGAGGTAGACATTCAATTATAATCTTTTTTAGTCATAAATGTAAAAAAAAAA
64 A-T-ATGTTTCCT-AAGGTAGGCATTCAATTATAGTCTATTTTA-ACA-AAA---AATATAAAAA
* *
43805 AATTGAACTTAAAATCAATTTTGAGATTATAAAA
121 AA-TCAACTTAAAATCAATTATGAGATTATAAAA
43839 CTATTTAAAG
Statistics
Matches: 732, Mismatches: 87, Indels: 44
0.85 0.10 0.05
Matches are distributed among these distances:
339 1 0.00
340 14 0.02
341 393 0.54
342 111 0.15
343 42 0.06
344 128 0.17
345 43 0.06
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (339 bp):
ATAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTACAAATAAATAGATTTTCTAT
ATGTTTCCTAAGGTAGGCATTCAATTATAGTCTATTTTAACAAAAAATATAAAAAAATCAACTTA
AAATCAATTATGAGATTATAAAATCATGTAAATCGAGTTATTAGGCTTTTGAAGGAATAGGTAAC
TATAAATAGACTTTTCTTGCCAATGAATATCTTTTTTTTACGTTTCATAAGGTAGACATTCAATT
ATAATCTGTTTTAACCAAAAATATAAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAACC
ATTTAAAGTGAGTA
Found at i:48082 original size:171 final size:170
Alignment explanation
Indices: 47791--49195 Score: 1315
Period size: 171 Copynumber: 8.2 Consensus size: 170
47781 ATGAGATAAA
* * * * * *
47791 CATTCAATTATAATCTG-TTTAACTAAAAATATAAAAAAAATTAAACTTAAAATCAATTTTGAGA
1 CATTCAATTATAGTTTGTTTTAACGAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGA
* * *
47855 TTATAAAAGCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGATTATAAAT-TGACTTT
65 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGGGACTATAAATGT-ACTTT
* * *
47919 TCTTGTCAATGGATGTCTTTTTCTTCATGTTTCTCAAGGT-GG
129 TCTTGCCAATGAATG-CTTTTTCTTCATGTTTCTCGAGGTAGG
* * * * * * * * *
47961 ACATTTAATTATAATCTATTTTACCCAAAAATATAAAAAAATTTAACTTAAAATCAATTATGACA
1 -CATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGA
* * ** *
48026 ATATAAAACTATTTAAAGCGACCAATAAGGCTTTTGAAGAAATGAGGGACTATAAATAG-ACTTT
65 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGGGACTATAAAT-GTACTTT
*
48090 TCTTGCCAATGAATGTTTTTTTCTTCATGTTT-TACGAGGTAGG
129 TCTTGCCAATGAATG-CTTTTTCTTCATGTTTCT-CGAGGTAGG
* *
48133 CATTCAATTATAGTTTGCTTTAA--AAAAATGTAAAAACATT-ATACTTAAAATCAATTATGAGA
1 CATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCA-ACTTAAAATCAATTATGAGA
* * * * * *
48195 TTATAAAATCAATTAAAGCGAGTAATAAGGCATTTAAAGGAATG-GGTGATTAGAAATGTA-TCT
65 TTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGG-GACTATAAATGTACT-T
* * ** * * *
48258 TTATT-CTCAATGAATGGCTTTTTCTACACATTTCTTGAGGTCGA
128 TTCTTGC-CAATGAAT-GCTTTTTCTTCATGTTTCTCGAGGTAGG
* * *
48302 CATTCAATTATAGTTTGTTTTAATGAAGAATGTAAAAATATTCAACTTAAAATCAATTATGAGAT
1 CATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
* * * * *
48367 TATAAAACCATTTAAAACGAGTAATAAGACTTTTAAAGGAAT-AGATGACTATAAATGCACTTTT
66 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAG-GGACTATAAATGTACTTTT
* * *
48431 C-TGCCAATGAATACCTTTTTCTTCTCAT-TTT-TCAATGTAGG
130 CTTGCCAATGAAT-GCTTTTTC-T-TCATGTTTCTCGAGGTAGG
* * * * * * * * *
48472 CATTCAATTATAATCTGTTTTGATGAAAGAA-GTAAAAACAAAATTGAACATAAATTCATTTTTG
1 CATTCAATTATAGTTTGTTTTAACGAAA-AATGT--AAA-AAAATTCAACTTAAAATCAATTATG
* * * ** ** *
48536 AAATCT-TAAAATCATTTGAAA-TGAGTAATAAAACTTTTGAAGGAATGAAAGACTGTAAATAG-
62 AGAT-TATAAAACCATTT-AAAGCGAGTAATAAGGCTTTTGAAGGAATGAGGGACTATAAAT-GT
*
48598 ACTTTTCTTGCCAATGAATGCTTTTGTCGTCATGTTTCAT-GAGGTAGG
124 ACTTTTCTTGCCAATGAATGCTTTT-TCTTCATGTTTC-TCGAGGTAGG
* * *
48646 CATTCAATTATAGTTTGTTTTAACAAAAAATGT-AAAAAATTCAACATAAAATCAATTATGACAT
1 CATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
* * * *
48710 TAT-AAACCATTTAAAGCGACTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATGTACCTTTC
66 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGGGACTATAAATGTACTTTTC
*
48774 TTGCCAATGAATGCTTTTTTCTTCATGTTTCAT-AAGGTAGG
131 TTGCCAATGAATGC-TTTTTCTTCATGTTTC-TCGAGGTAGG
* * * * *
48815 CAATCAATTATACTTTCTTTTAACTAAATATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
1 CATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
*
48880 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATG-GGTGACTATAAATGTA-TCTT
66 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGG-GACTATAAATGTACT-TT
* * **
48943 TCTT-CTCAATGAATGGCTTTTTATACATGTTTCTCGAGGTAAA
129 TCTTGC-CAATGAAT-GCTTTTTCTTCATGTTTCTCGAGGTAGG
* * * * *
48986 CATTCAATTATAGTTTGTTTTAACGAATAATGCAAAAATATTTAACTTAAAATTAATTATGAGAT
1 CATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
* * *
49051 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATCGA-TGACTACAAATGCACTTTT
66 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GAGGGACTATAAATGTACTTTT
* * * * * *
49115 C-TGACCCATGAATTCATTTTTTTCTCAT-TTT-TCAATGTAGA
130 CTTG-CCAATGAATGC-TTTTTCT-TCATGTTTCTCGAGGTAGG
* * *
49156 CATTCAATTATAATCTGTTTTAACTAAAGAA-GTAAAAAAA
1 CATTCAATTATAGTTTGTTTTAACGAAA-AATGTAAAAAAA
49196 ACTTGAANNN
Statistics
Matches: 1024, Mismatches: 156, Indels: 109
0.79 0.12 0.08
Matches are distributed among these distances:
168 10 0.01
169 240 0.23
170 154 0.15
171 455 0.44
172 34 0.03
173 80 0.08
174 50 0.05
175 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (170 bp):
CATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGGGACTATAAATGTACTTTTC
TTGCCAATGAATGCTTTTTCTTCATGTTTCTCGAGGTAGG
Found at i:49187 original size:684 final size:683
Alignment explanation
Indices: 47790--49202 Score: 1949
Period size: 684 Copynumber: 2.1 Consensus size: 683
47780 TATGAGATAA
* *
47790 ACATTCAATTATAATCTG-TTTAACTAAA-AA-TATAAAAAAAATTAAACTTAAAATCAATTTTG
1 ACATTCAATTATAATCTGTTTTAACTAAAGAAGTA-AAAAAAAATTGAACATAAAATCAATTTTG
* ** ** * *
47852 AGATTATAAAAGCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGATTATAAATTGACT
65 AAATTATAAAAGCATTTAAAGCGAGTAATAAAACTTTTGAAGGAATGAAAGACTATAAATAGACT
* * * *
47917 TTTCTTGTCAATGGATGTCTTTTTCTTCATGTTTCTCAAGGTGGACATTTAATTATAATCTATTT
130 TTTCTTGCCAATGAATGTCTTTTTCGTCATGTTTCTCAAGGTGGACATTCAATTATAATCTATTT
* * * * *
47982 TACCCAAAAATATAAAAAAATTTAACTTAAAATCAATTATGACAATATAAAACTATTTAAAGCGA
195 TAACAAAAAATATAAAAAAATTCAACATAAAATCAATTATGACAATATAAAACCATTTAAAGCGA
* * *
48047 CCAATAAGGCTTTTGAAGAAATGAGGGACTATAAATAGACTTTTCTTGCCAATGAATGTTTTTTT
260 CCAATAAGGCTTTTGAAGAAATGAGAGACTATAAATAGACCTTTCTTGCCAATGAATGCTTTTTT
* * * * *
48112 CTTCATGTTTTACGAGGTAGGCATTCAATTATAGTTTGCTTTAAAAAAATGTAAAAACATTATAC
325 CTTCATGTTTCACAAGGTAGGCAATCAATTATACTTTGCTTTAAAAAAATGTAAAAAAATTATAC
* *
48177 TTAAAATCAATTATGAGATTATAAAATCAATTAAAGCGAGTAATAAGGCATTTAAAGGAATGGGT
390 TTAAAATCAATTATGAGATTATAAAACCAATTAAAGCGAGTAATAAGGCATTTAAAGAAATGGGT
* * * **
48242 GATTAGAAATGTATCTTTATTCTCAATGAATGGCTTTTTCTACACATTTCTTGAGGTCGACATTC
455 GACTAGAAATGTATCTTTATTCTCAATGAATGGCTTTTTATACACATTTCTCGAGGTAAACATTC
* *
48307 AATTATAGTTTGTTTTAATGAAGAATGTAAAAATATTCAACTTAAAATCAATTATGAGATTATAA
520 AATTATAGTTTGTTTTAACGAAGAATGCAAAAATATTCAACTTAAAATCAATTATGAGATTATAA
*
48372 AACCATTTAAAACGAGTAATAAGACTTTTAAAGGAATAGATGACTATAAATGCACTTTTCTGCCA
585 AACCATTTAAAACGAGTAATAAGACTTTTAAAGGAATAGATGACTACAAATGCACTTTTCTGCCA
*
48437 ATGAATACCTTTTTCTTCTCATTTTTCAATGTAG
650 ATGAATACATTTTTCTTCTCATTTTTCAATGTAG
* * * *
48471 GCATTCAATTATAATCTGTTTTGA-TGAAAGAAGTAAAAACAAAATTGAACATAAATTCATTTTT
1 ACATTCAATTATAATCTGTTTTAACT-AAAGAAGTAAAAA-AAAATTGAACATAAAATCAATTTT
* * *
48535 GAAATCT-TAAAATCATTTGAAA-TGAGTAATAAAACTTTTGAAGGAATGAAAGACTGTAAATAG
64 GAAAT-TATAAAAGCATTT-AAAGCGAGTAATAAAACTTTTGAAGGAATGAAAGACTATAAATAG
* *
48598 ACTTTTCTTGCCAATGAATG-CTTTTGTCGTCATGTTTCAT-GAGGTAGG-CATTCAATTATAGT
127 ACTTTTCTTGCCAATGAATGTCTTTT-TCGTCATGTTTC-TCAAGGT-GGACATTCAATTATAAT
* * * *
48660 TTGTTTTAACAAAAAATGT-AAAAAATTCAACATAAAATCAATTATGACATTAT-AAACCATTTA
189 CTATTTTAACAAAAAATATAAAAAAATTCAACATAAAATCAATTATGACAATATAAAACCATTTA
*
48723 AAGCGACTAATAAGGCTTTTGAA-AGAATGAGAGACTATAAAT-GTACCTTTCTTGCCAATGAAT
254 AAGCGACCAATAAGGCTTTTGAAGA-AATGAGAGACTATAAATAG-ACCTTTCTTGCCAATGAAT
* *
48786 GCTTTTTTCTTCATGTTTCATAAGGTAGGCAATCAATTATACTTT-CTTTTAACTAAATATGTAA
317 GCTTTTTTCTTCATGTTTCACAAGGTAGGCAATCAATTATACTTTGC-TTTAA--AAAAATGTAA
* *
48850 AAAAATTCA-ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
379 AAAAATT-ATACTTAAAATCAATTATGAGATTATAAAACCAATTAAAGCGAGTAATAAGGCATTT
* * * **
48914 GAAGAAATGGGTGACTATAAATGTATCTTTCTTCTCAATGAATGGCTTTTTATACATGTTTCTCG
443 AAAGAAATGGGTGACTAGAAATGTATCTTTATTCTCAATGAATGGCTTTTTATACACATTTCTCG
* * *
48979 AGGTAAACATTCAATTATAGTTTGTTTTAACGAATAATGCAAAAATATTTAACTTAAAATTAATT
508 AGGTAAACATTCAATTATAGTTTGTTTTAACGAAGAATGCAAAAATATTCAACTTAAAATCAATT
* * * *
49044 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATCGATGACTACAAATGC
573 ATGAGATTATAAAACCATTTAAAACGAGTAATAAGACTTTTAAAGGAATAGATGACTACAAATGC
* *
49109 ACTTTTCTGACCCATGAATTCATTTTT-TTCTCATTTTTCAATGTAG
638 ACTTTTCTG-CCAATGAATACATTTTTCTTCTCATTTTTCAATGTAG
*
49155 ACATTCAATTATAATCTGTTTTAACTAAAGAAGTAAAAAAAACTTGAA
1 ACATTCAATTATAATCTGTTTTAACTAAAGAAGTAAAAAAAAATTGAA
49203 NNNNNNNNNN
Statistics
Matches: 642, Mismatches: 72, Indels: 34
0.86 0.10 0.05
Matches are distributed among these distances:
681 21 0.03
682 116 0.18
683 50 0.08
684 432 0.67
685 23 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (683 bp):
ACATTCAATTATAATCTGTTTTAACTAAAGAAGTAAAAAAAAATTGAACATAAAATCAATTTTGA
AATTATAAAAGCATTTAAAGCGAGTAATAAAACTTTTGAAGGAATGAAAGACTATAAATAGACTT
TTCTTGCCAATGAATGTCTTTTTCGTCATGTTTCTCAAGGTGGACATTCAATTATAATCTATTTT
AACAAAAAATATAAAAAAATTCAACATAAAATCAATTATGACAATATAAAACCATTTAAAGCGAC
CAATAAGGCTTTTGAAGAAATGAGAGACTATAAATAGACCTTTCTTGCCAATGAATGCTTTTTTC
TTCATGTTTCACAAGGTAGGCAATCAATTATACTTTGCTTTAAAAAAATGTAAAAAAATTATACT
TAAAATCAATTATGAGATTATAAAACCAATTAAAGCGAGTAATAAGGCATTTAAAGAAATGGGTG
ACTAGAAATGTATCTTTATTCTCAATGAATGGCTTTTTATACACATTTCTCGAGGTAAACATTCA
ATTATAGTTTGTTTTAACGAAGAATGCAAAAATATTCAACTTAAAATCAATTATGAGATTATAAA
ACCATTTAAAACGAGTAATAAGACTTTTAAAGGAATAGATGACTACAAATGCACTTTTCTGCCAA
TGAATACATTTTTCTTCTCATTTTTCAATGTAG
Found at i:52609 original size:171 final size:167
Alignment explanation
Indices: 52432--52864 Score: 462
Period size: 169 Copynumber: 2.5 Consensus size: 167
52422 NNNNNNNNNN
52432 AATTGATTTTAAGTTGAATTTTTTTACATTCTTCGTTAAAAAAAACTATAATTGAATGTCTACCT
1 AATTGATTTTAAGTTGAATTTTTTTACATT-TT-GTTAAAAAAAACTATAATTGAATGTCTACCT
* * *
52497 TGAGAAACATGTAGAAAAAGCCATTCATTG--AGAATAAAGATAC-ATTTCTAATCACC-CATTT
64 TAAGAAACATGAAGAAAAAG-CATTCATTGTAAG-A-AAAG-T-CTATTTATAATC-CCTCATTT
* *** * *
52558 CTTCAAAAACCTTATTACTCGCTTTAATTGGTTTTATAATCTTAT
123 CTTCAAAAACCTTATTACTCGCTTTAAATAAATTTATAATATCAT
* * * * ** * *
52603 AATTGATTTTAAGTTTAATTTTTTTACCTTTTTTTGAAGCAAACTATAATTGAATGCCTACCTCA
1 AATTGATTTTAAGTTGAATTTTTTTACATTTTGTTAAAAAAAACTATAATTGAATGTCTACCTTA
* *
52668 TGAAACATGAAGAAAAAAGCATTCATTTGTAAGAAAAGTCTATTTATAGTCCCTCATTTCTTCAA
66 AGAAACATGAAG-AAAAAGCATTCA-TTGTAAGAAAAGTCTATTTATAATCCCTCATTTCTTCAA
* * *
52733 AAGCCTTATTAGTCGCTTTAAATAAATTTATATTATCAT
129 AAACCTTATTACTCGCTTTAAATAAATTTATAATATCAT
* * * * *
52772 AATTGATTTTAAGTTGAATTTTTTTACTTTTTTGGGTAAAATAGATTATAATTGAATGT-TCACC
1 AATTGATTTTAAGTTGAATTTTTTTAC-ATTTT-GTTAAAAAAAACTATAATTGAATGTCT-ACC
52836 TTAAGAAACATGAAGAAAAAGACATTCAT
63 TTAAGAAACATGAAGAAAAAG-CATTCAT
52865 NNNNNNNNNN
Statistics
Matches: 218, Mismatches: 34, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
168 3 0.01
169 118 0.54
170 27 0.12
171 68 0.31
172 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (167 bp):
AATTGATTTTAAGTTGAATTTTTTTACATTTTGTTAAAAAAAACTATAATTGAATGTCTACCTTA
AGAAACATGAAGAAAAAGCATTCATTGTAAGAAAAGTCTATTTATAATCCCTCATTTCTTCAAAA
ACCTTATTACTCGCTTTAAATAAATTTATAATATCAT
Found at i:54118 original size:171 final size:172
Alignment explanation
Indices: 53322--54118 Score: 550
Period size: 171 Copynumber: 4.7 Consensus size: 172
53312 NNNNNNNNNN
** * * *
53322 CAAACTATAATTGAATACCTACCTCATGAAACATGAAGAAAAA-AGCATTCATTGCCAAGAAAAG
1 CAAACTATAATTGAATGTCTACTTGA-GAAACATGAAGAAAAAGA-CATTCATTGGCAAGAAAAG
* * * * * * * **
53386 -TTCATTTATAGTCTCTC-GTTCTTTCAAAAGCTTTATTACTCGCTTCAAATGGTTTTACGATCT
64 ACT-ATTTATAGTCACCCAG-TCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCT
* * *
53449 CAAAATTGACTTTAAGTT-CAATATTTTTTAC-TGTTTT-GGTCAAAA-
127 CATAATTGATTTTAAGTTGAAATA-TTTTTACAT-TTTTGGGT-AAAAG
* * * * * *
53494 CAGATTATAATTGAATGTCTACATTGAGAAACAAGAAAAAAAATG-CATTCGTTGGCCAGAAAAG
1 CAAACTATAATTGAATGTCTAC-TTGAGAAACATGAAGAAAAA-GACATTCATTGGCAAGAAAAG
* * * * *
53558 TGC-ATTTATAGTCATCAATTCCTTCAAATGCCTTATTACTCGCTTTAAATAGTTTTATAATCTC
64 -ACTATTTATAGTCACCCAGTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTC
* * **********
53622 ATCATTGATTTTAAGTT-AAATATTTTTGCATTNNNNNNNNNNA-
128 ATAATTGATTTTAAGTTGAAATATTTTTACATTTTTGGGTAAAAG
* * * *
53665 CAAACTATAATTGAATGTTTACCTTGAGAAACGTGTAGAAAAAGTCATTCATTGAG-AAGAAAGA
1 CAAACTATAATTGAATGTCTA-CTTGAGAAACATGAAGAAAAAGACATTCATTG-GCAAGAAA-A
* * * * * * *
53729 TAC-ATTTATATTCACCCATTCTTTCAAAAGCCTTATTACTCGTTTTAAATTGTTTTATAATCTA
63 GACTATTTATAGTCACCCAGTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTC
********** *
53793 ATAATTGATTTTAAGTTG-AATNNNNNNNNNNTTTTGGTTAAAAG
128 ATAATTGATTTTAAGTTGAAATATTTTTACATTTTTGGGTAAAAG
* * * * *
53837 -AAACTATAATTGAATGCCTACCTCATGAAATATGAAGAAAAA-ACATTCATTGGCAAGAAAAGT
1 CAAACTATAATTGAATGTCTACTTGA-GAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGA
* ********** * * *
53900 CTATTTATAGTCTCCCANNNNNNNNNNAGCCTTATTGCTCGCTTTAAATAGTTTTATATTGTCAT
65 CTATTTATAGTCACCCAGTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCAT
* *
53965 AATTGAGTTTAAGTTGAACT-TTTTTACATTTTTGGGT-AAAG
130 AATTGATTTTAAGTTGAAATATTTTTACATTTTTGGGTAAAAG
* *
54006 CAGATTATAATTGAATGTCTACTTGGAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGA
1 CAAACTATAATTGAATGTCTACTT-GAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGA
* *
54071 CTATTTATAGTCACCTAGTCCTTCAAAAACCTTATTACTCGCTTTAAA
65 CTATTTATAGTCACCCAGTCCTTCAAAAGCCTTATTACTCGCTTTAAA
54119 NNNNNNNNNN
Statistics
Matches: 465, Mismatches: 139, Indels: 43
0.72 0.21 0.07
Matches are distributed among these distances:
169 7 0.02
170 120 0.26
171 218 0.47
172 118 0.25
173 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.35
Consensus pattern (172 bp):
CAAACTATAATTGAATGTCTACTTGAGAAACATGAAGAAAAAGACATTCATTGGCAAGAAAAGAC
TATTTATAGTCACCCAGTCCTTCAAAAGCCTTATTACTCGCTTTAAATAGTTTTATAATCTCATA
ATTGATTTTAAGTTGAAATATTTTTACATTTTTGGGTAAAAG
Found at i:55816 original size:170 final size:171
Alignment explanation
Indices: 55640--56086 Score: 462
Period size: 171 Copynumber: 2.6 Consensus size: 171
55630 NNNNGGCAGG
* * *
55640 CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAACTCAACTTAAAATCAATTATGAGTTT
1 CATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATT
* *
55705 ATAAAACTATTTAAAGCGAGTTATTAA-GCTTTTAAAGGAATAAGTGACTATAAACT-GACTTTT
66 ATAAAACTATTTAAAGCGAGATAATAAGGCTTTTAAAGGAATAAGTGACTATAAA-TAGACTTTT
********* *
55768 CTNNNNNNNNNNTAT-C-TTTTTCTTCATGTTTCAT-GAGCTAGA
130 CT--TGCCAATGAATGCTTTTTTCTTCACGTTTC-TCGAGCTAGA
* * *
55810 CATTCAATTATAATCTGTTTTAACTC-AAAATGTAAAAAAATTGAACTTAAAATTAATTTTGAGA
1 CATTCAATTATAATCTGTTTTAAC-CAAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGA
* * * * * * *
55874 TTATAAAACCATGTAAAGC-AAATAATAAGGCTTTTGAAGGACTAGGTGACTATAAATAGATTTT
64 TTATAAAACTATTTAAAGCGAGATAATAAGGCTTTTAAAGGAATAAGTGACTATAAATAGACTTT
* * *
55938 TCTTGCCAATGAATGCTTTTTTCTTCACGTTTCTCTAGGTATA
129 TCTTGCCAATGAATGCTTTTTTCTTCACGTTTCTCGAGCTAGA
* *
55981 CATTCAATTATAATCT-TCTTTACCCAAAAATGTAAACAAATTCAACTTAAAATCAATTATGACA
1 CATTCAATTATAATCTGT-TTTAACCAAAAATGTAAA-AAATTCAACTTAAAATCAATTATGAGA
* * *
56045 ATATAAAACTATTTAAAGCGAG-CAATAAGGCTTTTGAAGGAA
64 TTATAAAACTATTTAAAGCGAGATAATAAGGCTTTTAAAGGAA
56087 NNNNNNNNNN
Statistics
Matches: 227, Mismatches: 39, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
169 2 0.01
170 44 0.19
171 180 0.79
172 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.35
Consensus pattern (171 bp):
CATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAATTCAACTTAAAATCAATTATGAGATT
ATAAAACTATTTAAAGCGAGATAATAAGGCTTTTAAAGGAATAAGTGACTATAAATAGACTTTTC
TTGCCAATGAATGCTTTTTTCTTCACGTTTCTCGAGCTAGA
Found at i:57576 original size:171 final size:169
Alignment explanation
Indices: 57290--58660 Score: 1222
Period size: 171 Copynumber: 8.0 Consensus size: 169
57280 NNNNNNNNNN
** *
57290 AAGGCTTTTGAAAAAATGAGAGACTATAAATAG-ACTTTTCTTGCT-AATGAATGCTTTTTTCTT
1 AAGGCTTTTGAAGGAATGAGTGACTATAAAT-GCAC-TTTCTT-CTCAATGAATGC-TTTTTCTT
* ** * * * *
57353 CATGTTTCAT-GAGGTAGGTATTCAATTATAGTTTGCTTTAACAAAAAATGTAAAAAAATTGAAT
62 CATGTTTC-TCAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAGAATGTAAAAAAATTGAAC
57417 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
126 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * ** ** * *
57461 AAGGCTTTTGAAGGAATGGGTGATTAGAAATATATCTTGATTCTCAATGAATGGCTTTTCCTACA
1 AAGGCTTTTGAAGGAATGAGTGACTATAAATGCA-CTTTCTTCTCAATGAAT-GCTTTTTCTTCA
*
57526 TGTTTCTCAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAGAATGTAAAAAAATTTAACTTA
64 TGTTTCTCAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAGAATGTAAAAAAATTGAACTTA
* *
57591 AAATCAATTATGAGATTATAAAACTATTTAAAGTGAGTAAT
129 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
57632 AAGGCTTTTGAAAGAATCAATGACTATAAATGCACTTTTCTGC-CAATGAATACCTTTTTCTTC-
1 AAGGCTTTTGAAGGAATGAGTGACTATAAATGCAC-TTTCTTCTCAATGAAT-GCTTTTTCTTCA
* * * * * *
57695 TCGTTTCTCAATGTAGACATT-ATATTATAATCTATTTTGATGAAAGAA-GTAAAAAAAAAATTG
64 T-GTTTCTCAAGGTAGACATTCA-ATTATAGTTTGTTTTAACG-AAGAATGT---AAAAAAATTG
* * * * *
57758 AACTTAAAGTCAATTTTGAGATCT-TAAAATCATTTGAAGTGAGTAAT
123 AACTTAAAATCAATTATGAGAT-TATAAAACCATTTAAAGCGAGTAAT
* * * *
57805 AAAGCTTTTGAACGAATGAGAGACTATAAATGGACTTTTCTT-TCCAATGAATGCTTTTTCCTTC
1 AAGGCTTTTGAAGGAATGAGTGACTATAAATGCAC-TTTCTTCT-CAATGAATGCTTTTT-CTTC
** * ** * * *
57869 ATGTTTCAT-GGGGTAGGCATTCAATTATAGTTTGTTTTAAATAAAAATGT-AAAAAATTCAACA
63 ATGTTTC-TCAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAGAATGTAAAAAAATTGAACT
* * *
57932 TGAAATCAATTATGACATTATAAAACCATTTAAAACGAGTAAT
127 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * *
57975 AAGGCTTTTGAAAGAATGAGAGATTATAAATGGACTTTCTTC-CAATGAATACTTTTTTCTTCAT
1 AAGGCTTTTGAAGGAATGAGTGACTATAAATGCACTTTCTTCTCAATGAATGC-TTTTTCTTCAT
* * * * *
58039 GTTTCAT-GAGGTACG-CAATCAATTATAGTTTCTTTTAACTGAA-AATGTAAAAAAAATGGACT
65 GTTTC-TCAAGGTA-GACATTCAATTATAGTTTGTTTTAAC-GAAGAATGTAAAAAAATTGAACT
58101 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
127 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * * * * * * * *
58144 AAAGCTTTTGAAGAAACGGGTGACTCTAAATGTATCTTTCTTATCAATGGATGATTTTTTCTACA
1 AAGGCTTTTGAAGGAATGAGTGACTATAAATGCA-CTTTCTTCTCAATGAATG-CTTTTTCTTCA
* * *
58209 CGTTTCTCAAGGTAAACATTCAATTATAGTTTGTTTT-ACTGAAGAATGTAAAAAAATTTAACTT
64 TGTTTCTCAAGGTAGACATTCAATTATAGTTTGTTTTAAC-GAAGAATGTAAAAAAATTGAACTT
* * *
58273 AAAATCAATTATGAGGTTATAAAACCTTTTAAAGTGAGTAAT
128 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
58315 AAGGCTTTTGAAGGAATCGA-TGACTATAAATACACTTTTCTGGC-CAATGAATACCTTTTTTTT
1 AAGGCTTTTGAAGGAAT-GAGTGACTATAAATGCAC-TTTCT-TCTCAATGAAT-GCTTTTTCTT
* ** * * * * **
58378 C-TCATTTCTCATTGTAGCCATTCAATTATAATCTGTTTTGATTAGAGAA-GTAAAAAAAATTGA
62 CAT-GTTTCTCAAGGTAGACATTCAATTATAGTTTGTTTTAACGA-AGAATGT-AAAAAAATTGA
* ** * * * *
58441 TCTTAATGTCAATTTTGAGATCATAAAACCATTTGAAGTGAGTAAT
124 ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* * * *
58487 AAAGCTTTCGAAGGAATGAGAGACTATAAATGAACTTCTCTTGC-CAATGAATGCTTTTTTCTTC
1 AAGGCTTTTGAAGGAATGAGTGACTATAAATGCACTT-TCTT-CTCAATGAATGC-TTTTTCTTC
* * * * ** *
58551 ATGTTTCAT-GAGGTAGCCATTCAATTATAGTTT-TTTATAACAAAAAATGTAAAAAGCTTCAAC
63 ATGTTTC-TCAAGGTAGACATTCAATTATAGTTTGTTT-TAACGAAGAATGTAAAAAAATTGAAC
* *
58614 TCAAAATCAATTATGACATTATAAAACCATTTAAAGCGAGTAAT
126 TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
58658 AAG
1 AAG
58661 NNNNNNNNNN
Statistics
Matches: 970, Mismatches: 182, Indels: 96
0.78 0.15 0.08
Matches are distributed among these distances:
168 53 0.05
169 91 0.09
170 145 0.15
171 409 0.42
172 132 0.14
173 96 0.10
174 41 0.04
175 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (169 bp):
AAGGCTTTTGAAGGAATGAGTGACTATAAATGCACTTTCTTCTCAATGAATGCTTTTTCTTCATG
TTTCTCAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAGAATGTAAAAAAATTGAACTTAAA
ATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
Found at i:58575 original size:343 final size:340
Alignment explanation
Indices: 57404--58660 Score: 1378
Period size: 343 Copynumber: 3.7 Consensus size: 340
57394 CAAAAAATGT
* *
57404 AAAAAAATTGAAT-TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTT
1 AAAAAAATTG-ATCTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAGTAATAAAGCTT
* * * * **
57468 TTGAAGGAATGGGTGATTAGAAAT-ATATCTTGATTCTCAATGAATGGC-TTTTCCTACATGTTT
65 TTGAAGGAATGAGAGACTATAAATGA-A-CTTTCTTC-CAATGAAT-GCTTTTTCCTACATGTTT
* *
57531 CTCAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAGAATGTAAAAAAATTTAACTTAAAATC
126 CTCAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATC
* * * *
57596 AATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATCAATGACTATAA
191 AATTATGACATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATCGATGACTATAA
* * * *
57661 ATGCACTTTTCTGCCAATGAATACCTTTTTCTTCTCGTTTCTCAATGTAGACATT-ATATTATAA
256 ATGCACTTTTCTGCCAATGAATACCTTTTTTTTCTCATTTCTCATTGTAGCCATTCA-ATTATAA
* *
57725 TCTATTTTGATGAAAGAAGTAAA
320 TCTATTTTGATTAGAGAAGT--A
* * * * * * *
57748 AAAAAAATTGAACTTAAAGTCAATTTTGAGATCTTAAAATCATTTGAAGTGAGTAATAAAGCTTT
1 AAAAAAATTGATCTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAGTAATAAAGCTTT
* * *
57813 TGAACGAATGAGAGACTATAAATGGACTTTTCTTTCCAATGAATGCTTTTTCCTTCATGTTTCAT
66 TGAAGGAATGAGAGACTATAAATGAAC-TTTC-TTCCAATGAATGCTTTTTCCTACATGTTTC-T
** * ** * *
57878 -GGGGTAGGCATTCAATTATAGTTTGTTTTAAATAAAAATGT-AAAAAATTCAACATGAAATCAA
128 CAAGGTAGACATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAA
* * *
57941 TTATGACATTATAAAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAAT-GAGAGATTATAAA
193 TTATGACATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATCGA-TGACTATAAA
* * * * *
58005 TGGAC-TTTCTTCCAATGAATA-CTTTTTTCT-TCATGTT-TCATGAGGTA-CGCAATCAATTAT
257 TGCACTTTTCTGCCAATGAATACCTTTTTTTTCTCAT-TTCTCAT--TGTAGC-CATTCAATTAT
* * * * * *
58065 AGTTTCTTTTAACT-GAAAATGTA
318 AATCTATTTTGATTAGAGAA-GTA
* *
58088 AAAAAAATGGA-CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTT
1 AAAAAAATTGATCTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAGTAATAAAGCTTT
* * * * * * * * * * *
58152 TGAAGAAACGGGTGACTCTAAATGTATCTTTCTTATCAATGGATGATTTTTTCTACACGTTTCTC
66 TGAAGGAATGAGAGACTATAAATG-AACTTTCTT-CCAATGAATGCTTTTTCCTACATGTTTCTC
* * *
58217 AAGGTAAACATTCAATTATAGTTTGTTTT-ACTGAAGAATGTAAAAAAATTTAACTTAAAATCAA
129 AAGGTAGACATTCAATTATAGTTTGTTTTAAC-GAAAAATGTAAAAAAATTCAACTTAAAATCAA
** * * *
58281 TTATGAGGTTATAAAACCTTTTAAAGTGAGTAATAAGGCTTTTGAAGGAATCGATGACTATAAAT
193 TTATGACATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATCGATGACTATAAAT
*
58346 ACACTTTTCTGGCCAATGAATACCTTTTTTTTCTCATTTCTCATTGTAGCCATTCAATTATAATC
258 GCACTTTTCT-GCCAATGAATACCTTTTTTTTCTCATTTCTCATTGTAGCCATTCAATTATAATC
*
58411 TGTTTTGATTAGAGAAGTA
322 TATTTTGATTAGAGAAGTA
** * * *
58430 AAAAAAATTGATCTTAATGTCAATTTTGAGATCATAAAACCATTTGAAGTGAGTAATAAAGCTTT
1 AAAAAAATTGATCTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAGTAATAAAGCTTT
* * *
58495 CGAAGGAATGAGAGACTATAAATGAACTTCTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCAT
66 TGAAGGAATGAGAGACTATAAATGAACTT-TCTT-CCAATGAATGCTTTTTCCTACATGTTTC-T
* * * ** *
58560 -GAGGTAGCCATTCAATTATAGTTT-TTTATAACAAAAAATGTAAAAAGCTTCAACTCAAAATCA
128 CAAGGTAGACATTCAATTATAGTTTGTTT-TAACGAAAAATGTAAAAAAATTCAACTTAAAATCA
58623 ATTATGACATTATAAAACCATTTAAAGCGAGTAATAAG
192 ATTATGACATTATAAAACCATTTAAAGCGAGTAATAAG
58661 NNNNNNNNNN
Statistics
Matches: 746, Mismatches: 136, Indels: 63
0.79 0.14 0.07
Matches are distributed among these distances:
338 4 0.01
339 122 0.16
340 93 0.12
341 19 0.03
342 89 0.12
343 271 0.36
344 144 0.19
345 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (340 bp):
AAAAAAATTGATCTTAAAATCAATTATGAGATCATAAAACCATTTAAAGCGAGTAATAAAGCTTT
TGAAGGAATGAGAGACTATAAATGAACTTTCTTCCAATGAATGCTTTTTCCTACATGTTTCTCAA
GGTAGACATTCAATTATAGTTTGTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATTA
TGACATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATCGATGACTATAAATGCA
CTTTTCTGCCAATGAATACCTTTTTTTTCTCATTTCTCATTGTAGCCATTCAATTATAATCTATT
TTGATTAGAGAAGTA
Found at i:58640 original size:683 final size:684
Alignment explanation
Indices: 57290--58660 Score: 2087
Period size: 683 Copynumber: 2.0 Consensus size: 684
57280 NNNNNNNNNN
* *
57290 AAGGCTTTTGAAAAAATGAGAGACTATAAATAGACTTTTCTTGCTAATGAATGCTTTTTTCTTCA
1 AAGGCTTTTGAAAAAATGAGAGACTATAAATAGACTTTTCTTGCCAATGAATACTTTTTTCTTCA
* * * * *
57355 TGTTTCATGAGGTAGGTATTCAATTATAGTTTGCTTTAACAAAAAATGTAAAAAAATTGAATTTA
66 TGTTTCATGAGGTACGCAATCAATTATAGTTTGCTTTAACAAAAAATGTAAAAAAAATGAACTTA
* * * *
57420 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGAT
131 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGAAACGGGTGAC
* * * *
57485 TAGAAATATATCTTGATTCTCAATGAATGGCTTTTCCTACATGTTTCTCAAGGTAGACATTCAAT
196 TAGAAATATATCTTGATTATCAATGAATGACTTTTCCTACACGTTTCTCAAGGTAAACATTCAAT
57550 TATAGTTTGTTTTAACGAAGAATGTAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAAC
261 TATAGTTTGTTTTAACGAAGAATGTAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAAC
*
57615 TATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATCAATGACTATAAATGCACTTTTCTGCCAATG
326 TATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATCAATGACTATAAATACACTTTTCTGCCAATG
*
57680 AATACCTTTTTCTTCTCGTTTCTCAATGTAGACATTATATTATAATCTATTTTGATGAAAGAAGT
391 AATACCTTTTTCTTCTCATTTCTCAATGTAGACATTATATTATAATCTATTTTGATGAAAGAAGT
* *
57745 AAAAAAAAAATTGAACTTAAAGTCAATTTTGAGATCTTAAAATCATTTGAAGTGAGTAATAAAGC
456 -AAAAAAAAATTGAACTTAAAGTCAATTTTGAGATCATAAAACCATTTGAAGTGAGTAATAAAGC
* * * *
57810 TTTTGAACGAATGAGAGACTATAAATGGACTTTTCTTTCCAATGAATGCTTTTTCCTTCATGTTT
520 TTTCGAACGAATGAGAGACTATAAATGAACTTCTCTTGCCAATGAATGCTTTTTCCTTCATGTTT
* * *
57875 CATGGGGTAGGCATTCAATTATAGTTTGTTTTAAATAAAAATGTAAAAAATTCAACATGAAATCA
585 CATGAGGTAGCCATTCAATTATAGTTTGTTTTAAATAAAAATGTAAAAAATTCAACATAAAATCA
57940 ATTATGACATTATAAAACCATTTAAAACGAGTAAT
650 ATTATGACATTATAAAACCATTTAAAACGAGTAAT
* * *
57975 AAGGCTTTTGAAAGAATGAGAGATTATAAATGGAC-TTTCTT-CCAATGAATACTTTTTTCTTCA
1 AAGGCTTTTGAAAAAATGAGAGACTATAAATAGACTTTTCTTGCCAATGAATACTTTTTTCTTCA
** *
58038 TGTTTCATGAGGTACGCAATCAATTATAGTTT-CTTTTAACTGAAAATGTAAAAAAAATGGACTT
66 TGTTTCATGAGGTACGCAATCAATTATAGTTTGC-TTTAACAAAAAATGTAAAAAAAATGAACTT
58102 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGAAACGGGTGA
130 AAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGAAACGGGTGA
** * ** * * *
58167 CTCTAAATGTATCTTTCTTATCAATGGATGATTTTTTCTACACGTTTCTCAAGGTAAACATTCAA
195 CTAGAAATATATCTTGATTATCAATGAATGACTTTTCCTACACGTTTCTCAAGGTAAACATTCAA
*
58232 TTATAGTTTGTTTT-ACTGAAGAATGTAAAAAAATTTAACTTAAAATCAATTATGAGGTTATAAA
260 TTATAGTTTGTTTTAAC-GAAGAATGTAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAA
* *
58296 ACCT-TTTAAAGTGAGTAATAAGGCTTTTGAAGGAATCGATGACTATAAATACACTTTTCTGGCC
324 A-CTATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATCAATGACTATAAATACACTTTTCT-GCC
* * * * * *
58360 AATGAATACCTTTTTTTTCTCATTTCTCATTGTAGCCATTCA-ATTATAATCTGTTTTGATTAGA
387 AATGAATACCTTTTTCTTCTCATTTCTCAATGTAGACATT-ATATTATAATCTATTTTGATGAAA
* *
58424 GAAGT-AAAAAAAATTGATCTTAATGTCAATTTTGAGATCATAAAACCATTTGAAGTGAGTAATA
451 GAAGTAAAAAAAAATTGAACTTAAAGTCAATTTTGAGATCATAAAACCATTTGAAGTGAGTAATA
* *
58488 AAGCTTTCGAAGGAATGAGAGACTATAAATGAACTTCTCTTGCCAATGAATGCTTTTTTCTTCAT
516 AAGCTTTCGAACGAATGAGAGACTATAAATGAACTTCTCTTGCCAATGAATGCTTTTTCCTTCAT
*
58553 GTTTCATGAGGTAGCCATTCAATTATAGTTT-TTTATAACA-AAAAATGTAAAAAGCTTCAAC-T
581 GTTTCATGAGGTAGCCATTCAATTATAGTTTGTTT-TAA-ATAAAAATGTAAAAA-ATTCAACAT
*
58615 CAAAATCAATTATGACATTATAAAACCATTTAAAGCGAGTAAT
643 -AAAATCAATTATGACATTATAAAACCATTTAAAACGAGTAAT
58658 AAG
1 AAG
58661 NNNNNNNNNN
Statistics
Matches: 622, Mismatches: 55, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
681 3 0.00
682 163 0.26
683 352 0.57
684 71 0.11
685 33 0.05
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (684 bp):
AAGGCTTTTGAAAAAATGAGAGACTATAAATAGACTTTTCTTGCCAATGAATACTTTTTTCTTCA
TGTTTCATGAGGTACGCAATCAATTATAGTTTGCTTTAACAAAAAATGTAAAAAAAATGAACTTA
AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGCTTTTGAAGAAACGGGTGAC
TAGAAATATATCTTGATTATCAATGAATGACTTTTCCTACACGTTTCTCAAGGTAAACATTCAAT
TATAGTTTGTTTTAACGAAGAATGTAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAAC
TATTTAAAGTGAGTAATAAGGCTTTTGAAAGAATCAATGACTATAAATACACTTTTCTGCCAATG
AATACCTTTTTCTTCTCATTTCTCAATGTAGACATTATATTATAATCTATTTTGATGAAAGAAGT
AAAAAAAAATTGAACTTAAAGTCAATTTTGAGATCATAAAACCATTTGAAGTGAGTAATAAAGCT
TTCGAACGAATGAGAGACTATAAATGAACTTCTCTTGCCAATGAATGCTTTTTCCTTCATGTTTC
ATGAGGTAGCCATTCAATTATAGTTTGTTTTAAATAAAAATGTAAAAAATTCAACATAAAATCAA
TTATGACATTATAAAACCATTTAAAACGAGTAAT
Found at i:59674 original size:17 final size:18
Alignment explanation
Indices: 59650--59689 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
59640 ACCATAGAAG
59650 TAAAAAAAAAATTGAACT
1 TAAAAAAAAAATTGAACT
59668 TAAAAAAAAAATTGAACT
1 TAAAAAAAAAATTGAACT
59686 TAAA
1 TAAA
59690 GTGCATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAAAAAAATTGAACT
Found at i:60402 original size:168 final size:171
Alignment explanation
Indices: 60126--60445 Score: 405
Period size: 168 Copynumber: 1.9 Consensus size: 171
60116 ATGAATGGCT
* * * * *
60126 TTTTCTACATGTTTCTCAAGGTAGACATACAATTATAGTTTGTTTTAACAAAGAATGTAAAAAAA
1 TTTTCTACATGTTTCTCAAGGCAGACATACAAATATAGTCTATTTTAACAAAGAATATAAAAAAA
* * * * * *
60191 TTTAACGTAAAATCAATTTTGAGATTATAAGACCATGTAAAGCGAGTAATAAGGTTTTTTAAGGA
66 TTCAACGTAAAATCAATTATAAGATTATAAAACCATGTAAAGCGAGTAATAAGGCTTTTGAAGGA
60256 ATAGG-AGACTATAAATGGACTTCTCTTACAAATAACTAAGA
131 ATAGGTA-ACTATAAATGGACTTCTCTTACAAATAACTAAGA
* * * * *
60297 TTTTCTACATGTTTTTGAAGGCAGGCATTCAAATATAGTCTATTTTTA-AAA-AATAT-AAAAAA
1 TTTTCTACATGTTTCTCAAGGCAGACATACAAATATAGTCTATTTTAACAAAGAATATAAAAAAA
* * * * *
60359 TTCAACTTAAAATCTATTATAAGATTATAAAACCATTTAAAGCGAGTTATTAGGCTTTTGAAGGA
66 TTCAACGTAAAATCAATTATAAGATTATAAAACCATGTAAAGCGAGTAATAAGGCTTTTGAAGGA
*
60424 ATGGGTAACTATAAATGGACTT
131 ATAGGTAACTATAAATGGACTT
60446 TTTTTACCAT
Statistics
Matches: 126, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
168 79 0.63
169 5 0.04
170 3 0.02
171 39 0.31
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (171 bp):
TTTTCTACATGTTTCTCAAGGCAGACATACAAATATAGTCTATTTTAACAAAGAATATAAAAAAA
TTCAACGTAAAATCAATTATAAGATTATAAAACCATGTAAAGCGAGTAATAAGGCTTTTGAAGGA
ATAGGTAACTATAAATGGACTTCTCTTACAAATAACTAAGA
Found at i:60496 original size:168 final size:171
Alignment explanation
Indices: 60126--60501 Score: 397
Period size: 168 Copynumber: 2.2 Consensus size: 171
60116 ATGAATGGCT
* * * * * *
60126 TTTTCTACATGTTTCTCAAGGTAGACATACAATTATAGTTTGTTTTAACAAAGAATGTAAAAAAA
1 TTTTCTACATGTTTATGAAGGTAGACATTCAATTATAGTCTATTTTAACAAAGAATATAAAAAAA
* * * * * *
60191 TTTAACGTAAAATCAATTTTGAGATTATAAGACCATGTAAAGCGAGTAATAAGGTTTTTTAAGGA
66 TTCAACGTAAAATCAATTATAAGATTATAAAACCATGTAAAGCGAGTAATAAGGCTTTTGAAGGA
*
60256 ATAGGAGACTATAAATGGACTTCTCTTACAAATAACTAAGA
131 ATAGGAGACTATAAATGGACTTCTCTTACAAATAACTAACA
* * * * *
60297 TTTTCTACATGTTTTTGAAGGCAGGCATTCAAATATAGTCTATTTTTA-AAA-AATAT-AAAAAA
1 TTTTCTACATGTTTATGAAGGTAGACATTCAATTATAGTCTATTTTAACAAAGAATATAAAAAAA
* * * * *
60359 TTCAACTTAAAATCTATTATAAGATTATAAAACCATTTAAAGCGAGTTATTAGGCTTTTGAAGGA
66 TTCAACGTAAAATCAATTATAAGATTATAAAACCATGTAAAGCGAGTAATAAGGCTTTTGAAGGA
* * * * * * *
60424 ATGGGTA-ACTATAAATGGACTTTTTTTACCATTGAA-TATCT
131 ATAGG-AGACTATAAATGGACTTCTCTTACAAAT-AACTAACA
60465 TTTTC-ATCATGTTTCATG-AGGTAGACATTCAATTATA
1 TTTTCTA-CATGTTT-ATGAAGGTAGACATTCAATTATA
60502 ATATGTTTNN
Statistics
Matches: 168, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
167 1 0.01
168 116 0.69
169 9 0.05
170 3 0.02
171 39 0.23
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (171 bp):
TTTTCTACATGTTTATGAAGGTAGACATTCAATTATAGTCTATTTTAACAAAGAATATAAAAAAA
TTCAACGTAAAATCAATTATAAGATTATAAAACCATGTAAAGCGAGTAATAAGGCTTTTGAAGGA
ATAGGAGACTATAAATGGACTTCTCTTACAAATAACTAACA
Found at i:61311 original size:171 final size:168
Alignment explanation
Indices: 60919--61332 Score: 449
Period size: 171 Copynumber: 2.4 Consensus size: 168
60909 NNNNNNNNNN
* *
60919 ATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGATTTTTCTTGC-CAATGAATGCTTTTTTCT
1 ATAAGGCTTTTGAAGGAATGAGTGACTATAAAT-GATCTTTCTT-CTCAATGAATGC-TTTTTCT
* * * * * *
60983 TCATGTTTCTTGGGGTAGACATTTAATTATAGTCTGTTTTAACCAAAAATATAAAAACTTCACCA
63 TCATGTTTCATGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAATTCAACA
* *
61048 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTT
128 TAAAATCAATGATGAGATTATAAAACCATTTAAAGCAAGTA
* * * * * * *
61089 GTTAGGCTTTTGAAGGAAT-AGGTAACTATAAACGGA-CACTTCTTGTCAATGAATATCTTTTTC
1 ATAAGGCTTTTGAAGGAATGA-GTGACTATAAA-TGATC-TTTCTTCTCAATGAAT-GCTTTTTC
* * * *
61152 TTCATGTTTCATGAGGTAGGCATTCAATTATAATTTGTTTTAACGAAAAATGTAAAAAAATTCAA
62 TTCATGTTTCATGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAATTCAA
* *
61217 C-TCAAAATCAATGATGAGATTATAAAATCATTTAAAGCGAGTA
126 CAT-AAAATCAATGATGAGATTATAAAACCATTTAAAGCAAGTA
* ** * *
61260 ATAAGGCTTCTGAATAAATGAGTGACTATAAATGTATCTTTCTTCTCAATGAATGGCTTTCTCTA
1 ATAAGGCTTTTGAAGGAATGAGTGACTATAAATG-ATCTTTCTTCTCAATGAAT-GCTTTTTCTT
61325 CATGTTTC
64 CATGTTTC
61333 TCNNNNNNNN
Statistics
Matches: 198, Mismatches: 36, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
169 1 0.01
170 94 0.47
171 101 0.51
172 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (168 bp):
ATAAGGCTTTTGAAGGAATGAGTGACTATAAATGATCTTTCTTCTCAATGAATGCTTTTTCTTCA
TGTTTCATGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAATTCAACATAA
AATCAATGATGAGATTATAAAACCATTTAAAGCAAGTA
Found at i:64422 original size:170 final size:172
Alignment explanation
Indices: 64075--64428 Score: 436
Period size: 173 Copynumber: 2.1 Consensus size: 172
64065 NNNNNNNNGT
* * * *
64075 GACTATAAAT-AGACTTTTCTTGCTAATGAATGCCTTTTTCTTTACATTTCTCTAGGTAAATATT
1 GACTATAAATGAGACTTTACTTGCTAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAAAGATT
* * *
64139 CAATTATAATCTGTTTTAACCAATAAGTTAAAACAAAATTTATCCTAAAATCAATTATGACATTA
66 CAATTATAATCTGTTTTAACCAAAAAGTT--AACAAAATTTATCATAAAATCAAGTATGACATTA
* * *
64204 TAAAACCCTTTAAACCGAGTAATAAGGCTTTTGAAGGAATAGGA
129 TAAAACCCTTAAAACCGAGTAATAAGGCTTGTAAAGGAATAGGA
* * **
64248 GACTATAAATGA-ACTTTACTTGCTAATGAATGCTTTTTTCTTCATATTTCAT-GAGGTAGGGAT
1 GACTATAAATGAGACTTTACTTGCTAATGAATGCCTTTTTCTTCACATTTC-TCGAGGTAAAGAT
* *
64311 TCAATTATAGTTTGTTTTAACCAAAAA-TGT-A-AAAATTTCAAT-ATAAAATCAAGTATGACAT
65 TCAATTATAATCTGTTTTAACCAAAAAGT-TAACAAAATTT--ATCATAAAATCAAGTATGACAT
*
64372 TATAAAACCCTTAAAAGCGAGTAATAAGGCTTGTAAAGGAAT-GAGA
127 TATAAAACCCTTAAAACCGAGTAATAAGGCTTGTAAAGGAATAG-GA
64418 GACTATAAATG
1 GACTATAAATG
64429 GGCTTTTCTT
Statistics
Matches: 158, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
169 8 0.05
170 69 0.44
171 2 0.01
172 1 0.01
173 76 0.48
174 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (172 bp):
GACTATAAATGAGACTTTACTTGCTAATGAATGCCTTTTTCTTCACATTTCTCGAGGTAAAGATT
CAATTATAATCTGTTTTAACCAAAAAGTTAACAAAATTTATCATAAAATCAAGTATGACATTATA
AAACCCTTAAAACCGAGTAATAAGGCTTGTAAAGGAATAGGA
Found at i:65172 original size:169 final size:163
Alignment explanation
Indices: 64997--65489 Score: 369
Period size: 173 Copynumber: 2.9 Consensus size: 163
64987 TGAGGTAGAC
* *
64997 ATTCAATTATAATAAT-TTTTAACCAA-AAA-TATAAA-AAAA-TGA-ACTTAAATCAATTTTGA
1 ATTCAATTATAAT-ATGTTTTAACCAATAAATTA-AAACAAAATTGATACTAAAATCAATTATGA
* * * * * * *
65056 GATTATAAAACTGTTTAAAGCAAGTAACAAGGCTTTTGAAGGAATGGGTGACTATAATTAGACTT
64 CATTATAAAACTATTTAAAGCAAGTAACAAGACTTTTGAAGCAATGAGAGACTATAAATAGACTT
*
65121 TTCCTGCCAATGAATGCCTTTTTCTTTACGTTNNNNNNNNNNGAT
129 TACCTGCCAATGAATGCCTTTTTCTTTACGTT----------GAT
* * *
65166 ATTCAATTATAATCTGTTTTAACCAATAAGTTAAAACAAAATTGATCCTAAAATCAATTATGACA
1 ATTCAATTATAATATGTTTTAACCAATAAATTAAAACAAAATTGATACTAAAATCAATTATGACA
* *
65231 TTATAAAACTATTTAAAGCGAGTAATAAGACTTTTGAAGCAATGAGAGACTATAAATAGACTTTA
66 TTATAAAACTATTTAAAGCAAGTAACAAGACTTTTGAAGCAATGAGAGACTATAAATAGACTTTA
* * ***
65296 CTTGCCAATGAATGCTTTTTTCTTCATTTTTCATGAGGT
131 CCTGCCAATGAATGCCTTTTTCTT--TACGT--TGA--T
* * *
65335 GGGCATTCAATTATAGTTTGTTTTAACCAA-AAATGT--AA-AAAATTCA-ACATAAAATCAATT
1 ----ATTCAATTATAATATGTTTTAACCAATAAAT-TAAAACAAAATTGATAC-TAAAATCAATT
* * * * * * * * *
65395 ATGACATTATAAAACCATTTAAAGCGAGTAATAAGGCTTGTAAAGGAATGTGAGACTATAAATGG
60 ATGACATTATAAAACTATTTAAAGCAAGTAACAAGACTTTTGAAGCAATGAGAGACTATAAATAG
* * * *
65460 ACTTTTCTTGCGAATGAATGCTTTTTTCTT
125 ACTTTACCTGCCAATGAATGCCTTTTTCTT
65490 CATGTTTCAT
Statistics
Matches: 272, Mismatches: 34, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
167 2 0.01
168 1 0.00
169 25 0.09
170 109 0.40
171 8 0.03
172 6 0.02
173 118 0.43
175 2 0.01
177 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.35
Consensus pattern (163 bp):
ATTCAATTATAATATGTTTTAACCAATAAATTAAAACAAAATTGATACTAAAATCAATTATGACA
TTATAAAACTATTTAAAGCAAGTAACAAGACTTTTGAAGCAATGAGAGACTATAAATAGACTTTA
CCTGCCAATGAATGCCTTTTTCTTTACGTTGAT
Found at i:65478 original size:170 final size:170
Alignment explanation
Indices: 64554--65609 Score: 612
Period size: 170 Copynumber: 6.2 Consensus size: 170
64544 NNNNNNNNNN
* * *
64554 AACCATTTAAAGCGAGTAATAAGGCTTTTGATGGAATGGGTGACTATAAAT-G-CATCTTTCTTG
1 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGAC-T-TTTCTTG
* * * * * **
64617 TCAATGAATAGC-TTTTTCTACATGTTTC-TCAAGGTAGACATTCAATTATAGTTTGTTTTAATG
64 CCAATGAAT-GCTTTTTTCTTCATGTTTCAT-GAGGTAGACATTCAATTATAATATGTTTTAACC
* * * * *
64680 AAGAATGTAAAAGAATTCAACTTAAAATCAATTTTGAGATTATAA
127 AAAAATGTAAAAAAATTGAAC-TAAAATCAATTATGACATTATAA
* ************** * * *
64725 GACCATTTAAAGCGAGTAATAAGGCTTNNNNNNNNNNNNNNGACTATAAATGGACTTTTCTTACA
1 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTGCC
* **** * * * * *
64790 AATAAATAAGATTTTCTAT-ATGTTTCCA-AAGGTAGGCATTCAATTATAGTTTATTTT-A-CAA
66 AATGAATGCTTTTTTCT-TCATGTTT-CATGAGGTAGACATTCAATTATAATATGTTTTAACCAA
* * **********
64851 AAATATATAAAAAATTCAACTTAAAATNNNNNNNNNNATTATAA
129 AAATGTA-AAAAAATTGAAC-TAAAATCAATTATGACATTATAA
* * * * ** * *
64895 AACTATTTAAAGTGAGTTATTAGGCTTTTGAAGGAAT-AG-GTAACTATAAACGGACTTTTTTTA
1 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAG--ACTATAAATAGACTTTTCTTG
* **********
64958 CCAATGAAT-ATCTTTNNNNNNNNNNTTCATGAGGTAGACATTCAATTATAATAAT-TTTTAACC
64 CCAATGAATGCT-TTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAAT-ATGTTTTAACC
* * * *
65021 AAAAATATAAAAAAA-TGAACTTAAATCAATTTTGAGATTATAA
127 AAAAATGTAAAAAAATTGAACTAAAATCAATTATGACATTATAA
** * * * * * *
65064 AACTGTTTAAAGCAAGTAACAAGGCTTTTGAAGGAATGGGTGACTATAATTAGACTTTTCCTGCC
1 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTGCC
* * * ********** * * *
65129 AATGAATGCCTTTTTCTTTACGTTNNNNNNNNNNGATATTCAATTATAATCTGTTTTAACCAATA
66 AATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCAAAA
*
65194 A-GTTAAAACAAAATTGATCCTAAAATCAATTATGACATTATAA
131 ATG-T-AAA-AAAATTGA-ACTAAAATCAATTATGACATTATAA
* * * *
65237 AACTATTTAAAGCGAGTAATAAGACTTTTGAAGCAATGAGAGACTATAAATAGACTTTACTTGCC
1 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTGCC
* * * * *
65302 AATGAATGCTTTTTTCTTCATTTTTCATGAGGTGGGCATTCAATTATAGTTTGTTTTAACCAAAA
66 AATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCAAAA
*
65367 ATGT-AAAAAATTCAACATAAAATCAATTATGACATTATAA
131 ATGTAAAAAAATTGAAC-TAAAATCAATTATGACATTATAA
* * * * *
65407 AACCATTTAAAGCGAGTAATAAGGCTTGTAAAGGAATGTGAGACTATAAATGGACTTTTCTTGCG
1 AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTGCC
********** * *
65472 AATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGANNNNNNNNNNTAGTGTGTTTTAACCAAAA
66 AATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCAAAA
* * * * *
65537 ATTTGAAAAAATTTAAGTCAAAATCAATTATGATATTATAA
131 ATGTAAAAAAATTGAACT-AAAATCAATTATGACATTATAA
*
65578 AATCATTTAAAGCGAGTAATAAGGCTTTTGAA
1 AACCATTTAAAGCGAGTAATAAGGCTTTTGAA
65610 NNNNNNNNNN
Statistics
Matches: 666, Mismatches: 191, Indels: 56
0.73 0.21 0.06
Matches are distributed among these distances:
168 2 0.00
169 110 0.17
170 250 0.38
171 162 0.24
172 16 0.02
173 125 0.19
174 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.34
Consensus pattern (170 bp):
AACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTCTTGCC
AATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCAAAA
ATGTAAAAAAATTGAACTAAAATCAATTATGACATTATAA
Found at i:66941 original size:169 final size:170
Alignment explanation
Indices: 66735--67040 Score: 404
Period size: 170 Copynumber: 1.8 Consensus size: 170
66725 NNNNNNNNNA
* * *
66735 GGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT-GTCTTTTCTTCATGTTTC-TCA-A
1 GGAATAGGAGACTATAAATAGACTTTTCTTACCAATGAATAGTCTTTTCTTCATGTTTCTTCAGA
* * *
66797 TATGGACATTCAATTATAATCTGTTTT-ACCCAAAATGTAAAAAAATTTAACTTAAAAGCAATTA
66 TA-GG-CATTCAATTATAATCTGTTTTAACCAAAAATGT-AAAAAATTTAACATAAAACCAATTA
66861 TGAAATTATAAAATCATTTAAAATGAGCAATAAGGCTTTTGAG
128 TGAAATTATAAAATCATTTAAAATGAGCAATAAGGCTTTTGAG
* * * * *
66904 GGAATAGGAGACTATAAATGGACTTTTGTTACCAATGAATAGTTTTTTCTTCATGTTTCTTGAGG
1 GGAATAGGAGACTATAAATAGACTTTTCTTACCAATGAATAGTCTTTTCTTCATGTTTCTTCAGA
* * * * *
66969 TAGGCATTCAATTATAGTTTGTTTTAACTAAAAATGTGAAAACTTTAACATAAAACCAATTATGA
66 TAGGCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAATTTAACATAAAACCAATTATGA
*
67034 CATTATA
131 AATTATA
67041 TAACGATTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
169 35 0.30
170 66 0.57
171 13 0.11
172 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (170 bp):
GGAATAGGAGACTATAAATAGACTTTTCTTACCAATGAATAGTCTTTTCTTCATGTTTCTTCAGA
TAGGCATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAATTTAACATAAAACCAATTATGA
AATTATAAAATCATTTAAAATGAGCAATAAGGCTTTTGAG
Found at i:67283 original size:341 final size:315
Alignment explanation
Indices: 66744--67373 Score: 396
Period size: 341 Copynumber: 1.9 Consensus size: 315
66734 AGGAATGGGT
* * *
66744 GACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTCTTCATGTTTCTCAATATGGACATTCA
1 GACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTCTTCATGTTCCACAATATGGACAATCA
* * *
66809 ATTATAATCTGTTTTACCCAAAATGTAAAAAAATTTAACTTAAAAGCAATTATGAAATTATAAAA
66 ATTATAATCTCTTTTACCAAAAATGTAAAAAAATTCAACTTAAAAGCAATTATGAAATTATAAAA
* * * * * *
66874 TCATTTAAAATGAGCAATAAGGCTTTTGAGGGAATAGGAGACTATAAATGGACTTTTGTTACCAA
131 CCATTTAAAACGAGCAATAAGGCTTTTGAAGAAATAGGAGACTATAAACGGACTTTTCTTACCAA
* * ** ** **
66939 TGAAT-AGTTTTTTCTTCATGTTTCTTGAGGTAGGCATTCAATTATAGTTTGTTTTAACT-AAAA
196 TGAATGA-CTTTTTCTACACATTTCTCCAGGTAAACATTCAATTATAGTTTGTTTTAA-TGAAAA
* * *
67002 ATGT-GAAAACTTTAACATAAAACCAATTATGACATTATATAACGATTTAANNNNNNNNNNNNNN
259 ATGTAAAAAAATTCAACATAAAACCAATTATGACATTATATAACGATTTAA--------------
*****
67066 NNNNNNNNNNNA
310 ------ATGACA
* *** * * *
67078 TGACAGACTATAA-ATGGACTTTTCTTGCCAATGAATGTTTTTTTCTTCATGTTCCACGAGGTA-
1 -GAC-TA-TA-AATA-GACTTTTC-TTGCCAATGAATG-TCTTTTCTTCATGTTCCAC-A-ATAT
* * * ****
67141 GG-CAATCAATTATACTTTCTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTNNNN
57 GGACAATCAATTATAATCTCTTTT-ACCAAAAATGTAAAAAAATTCAACTTAAAAGCAATTATGA
****** * * * *
67205 NNNNNNAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAAT-GAGTGACTATAAACGTA-T
121 AATTATAAAACCATTTAAAACGAGCAATAAGGCTTTTGAAGAAATAG-GAGACTATAAACGGACT
*
67268 CTTTCTT-CTCAATGAATGACTTTTTCTACACATTTCTCCAGGTAAACATTCAGTTATAGTTTGT
185 -TTTCTTAC-CAATGAATGACTTTTTCTACACATTTCTCCAGGTAAACATTCAATTATAGTTTGT
*
67332 TTTAATGAAAAATGTAAAAAAATTCAACATAAAATCAATTAT
248 TTTAATGAAAAATGTAAAAAAATTCAACATAAAACCAATTAT
67374 AAGATTATNN
Statistics
Matches: 231, Mismatches: 49, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
335 3 0.01
336 1 0.00
337 3 0.01
338 6 0.03
339 13 0.06
340 37 0.16
341 143 0.62
342 25 0.11
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.34
Consensus pattern (315 bp):
GACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTCTTCATGTTCCACAATATGGACAATCA
ATTATAATCTCTTTTACCAAAAATGTAAAAAAATTCAACTTAAAAGCAATTATGAAATTATAAAA
CCATTTAAAACGAGCAATAAGGCTTTTGAAGAAATAGGAGACTATAAACGGACTTTTCTTACCAA
TGAATGACTTTTTCTACACATTTCTCCAGGTAAACATTCAATTATAGTTTGTTTTAATGAAAAAT
GTAAAAAAATTCAACATAAAACCAATTATGACATTATATAACGATTTAAATGACA
Found at i:69902 original size:170 final size:171
Alignment explanation
Indices: 69661--69987 Score: 426
Period size: 170 Copynumber: 1.9 Consensus size: 171
69651 NNNNNNNNNN
* * * * * *
69661 AACCATTTAAAACGAGCAATAAGGCTTTTGAGGGAATGAGAAACTTTAAATGGACTTTTCTTGCC
1 AACCATTTAAAACGAGCAACAAGGCTTTTAAAGGAATGAGAAACTATAAATAGACTTTTCTTGAC
* * * * *
69726 AATGAATAG-TTTT-TCCTTCATGTTTCTTGAGGTAGGCTTTCAATTATAGTTTGTTTTAACTAA
66 AATGAAT-GCTTTTGT-CTTCATGTTTCATGAGGTAGGCATTCAATTATAGTTTCTCTTAACCAA
*
69789 AAATGTGAA-AAATTCAACATAAAATCAACTATGATATTATAT
129 AAATGTAAATAAATTCAACATAAAATCAACTATGATATTATAT
* * * * *
69831 AACCATTTAAAGCGAGTAACAAGGCTTTTAAAGGAATGAGAGACTATAGATAGACTTTTCTTGAT
1 AACCATTTAAAACGAGCAACAAGGCTTTTAAAGGAATGAGAAACTATAAATAGACTTTTCTTGAC
** *
69896 AATGAATGCTTTTGTCTTTGTTTTTCATGAGGTAGGCATTCAATTATAGTTTCTCTTAACCAAAA
66 AATGAATGCTTTTGTCTTCATGTTTCATGAGGTAGGCATTCAATTATAGTTTCTCTTAACCAAAA
*
69961 ATGTAAATAAATTCAACTTAAAATCAA
131 ATGTAAATAAATTCAACATAAAATCAA
69988 TTNNNNNNNN
Statistics
Matches: 133, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
169 1 0.01
170 113 0.85
171 19 0.14
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (171 bp):
AACCATTTAAAACGAGCAACAAGGCTTTTAAAGGAATGAGAAACTATAAATAGACTTTTCTTGAC
AATGAATGCTTTTGTCTTCATGTTTCATGAGGTAGGCATTCAATTATAGTTTCTCTTAACCAAAA
ATGTAAATAAATTCAACATAAAATCAACTATGATATTATAT
Found at i:72546 original size:170 final size:169
Alignment explanation
Indices: 72038--72837 Score: 505
Period size: 171 Copynumber: 4.7 Consensus size: 169
72028 NNNNNNNNNN
* * *
72038 TCAACTTAAAATAAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCCTTTGAAGGAA
1 TCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* ** * ** * * * *
72103 TCGATA-ACTATAAATTCACTTATCTGGCCAATGAATACTTTTTTCTAC-TTGTTTC-TCAATGT
66 T-GAGAGACTATAAATGGACTTCTCTTACCAATGAATGCTTTTTTCTTCATT-TTTCAT-GAGGT
* * * * * *
72165 -AGACATTCAATTATAATCTGTTTTGACAAAAGAAGTAAAAAACAAAA
128 AAG-CATTCAATTATAGTTTCTTTT---AACAGAAAT-GAAAA-AAAA
* * * * * * * * * **********
72212 TTGAACATAAAGTCAATTTTTAGATCATAAAACCATTTGAAGTGAGTAATAANNNNNNNNNNGGA
1 -TCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGA
*
72277 ATGAGAGACTATAAATGGACTTCTC-TACCTAATGAATGCTTTTTTCTTCATGTTTCATGAGGTA
65 ATGAGAGACTATAAATGGACTTCTCTTACC-AATGAATGCTTTTTTCTTCATTTTTCATGAGGTA
* *********
72341 GGCATTCAATTATAGTTNNNNNNNNNNNA-AAATGAAAAAAAA
129 AGCATTCAATTATAGTT--TCTTTTAACAGAAATGAAAAAAAA
* * * * *
72383 TCAACATAAAATCAAATATGACATTATAAAACTATTTAAAGCGAGTCATAAGGCTTTTAAAGGAA
1 TCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * *
72448 TGAGAGACTATAGATGGACTTTTCTTACCAATGAATGCTTTTTTCTTCGTTTTTCATGAGGTAAG
66 TGAGAGACTATAAATGGACTTCTCTTACCAATGAATGCTTTTTTCTTCATTTTTCATGAGGTAAG
*
72513 CATTCAATTATAGTTTCTTTTAATCAGAAATGAAAAGAAAT
131 CATTCAATTATAGTTTCTTTTAA-CAGAAATGAAAA-AAAA
********** *
72554 TCAACTTAAAATCAATTATGAGATTATAANNNNNNNNNNAGCTAGTAATAAGGCTTTTGAAGGAA
1 TCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * * * *
72619 TGGGTA-ACTATAAATGTATCTTAT-TT-CTCAATGAAAGGC-TTTTTCTGCACCTTTTT--TGA
66 TGAG-AGACTATAAATGGA-CTTCTCTTAC-CAATG-AATGCTTTTTTCTTCA--TTTTTCATGA
*
72678 GGT-AGACATTCAATTATAGTTTGTTTTAAC-GAATAATGTAAAAAAAA
125 GGTAAG-CATTCAATTATAGTTTCTTTTAACAG-A-AATG-AAAAAAAA
* * * *
72725 TTAACTTAAAATCAATTATGAGGTTATAAACCTATTTAAAGCGAGTAATAAGGCTTTCGAAGGAA
1 TCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * * * *
72790 TTG-GTGACTATAAATGCACTTCTCTGACCAATGAATTCCTTTTTCTTC
66 -TGAGAGACTATAAATGGACTTCTCTTACCAATGAATGCTTTTTTCTTC
72838 TCGTTTCTTA
Statistics
Matches: 473, Mismatches: 126, Indels: 56
0.72 0.19 0.09
Matches are distributed among these distances:
169 2 0.00
170 135 0.29
171 200 0.42
172 20 0.04
173 8 0.02
174 6 0.01
175 99 0.21
176 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.33
Consensus pattern (169 bp):
TCAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
TGAGAGACTATAAATGGACTTCTCTTACCAATGAATGCTTTTTTCTTCATTTTTCATGAGGTAAG
CATTCAATTATAGTTTCTTTTAACAGAAATGAAAAAAAA
Found at i:75693 original size:170 final size:172
Alignment explanation
Indices: 75029--75748 Score: 572
Period size: 172 Copynumber: 4.2 Consensus size: 172
75019 NNNNNNNNNN
* * * **** *
75029 TGAGGTAGACATTCAATTATAATATGTTTTAACCAAAAATAT-AAAAAAATTGAAGTTAAAATCA
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACCAATAATATAAAAAAAATTCATCCGAAAATAA
* * * * * * * * * * *****
75093 ATTTTGAGACTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTAAACGAATGGGTGACTNNNNN
66 ATTATGACATTATAAAACCATTTAAAGCGAGTAGTTAGGGTTTTGAAGGAATGGGAGACTATAAA
***** *
75158 NNNNNTTTTCTTGCCAATGAATGCTTTTTTCTTCACGTTTCT
131 TAGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCT
* * * *
75200 CT-AGTTAGACATTCAATTATAATCTGTTTTAACCAATAATTTAAAACAAAATTGATCCTAAAAT
1 -TGAGGTAGACATTCAATTATAATCTGTTTTAACCAATAATATAAAA-AAAATTCATCCGAAAAT
* ******************
75264 CAATTATGACATTATAAAACCATTNNNNNNNNNNNNNNNNNNTTTTGAAGGAATGGGAGACTATA
64 AAATTATGACATTATAAAACCATTTAAAGCGAGTAGTTAGGGTTTTGAAGGAATGGGAGACTATA
* *
75329 AATAGACTTTTCTTGCCAATGAATGCTTTTTCCTTCATATTTCT
129 AATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCT
* * * *
75373 CT-AGGTAGACATTCAATTGTAATCTGTTTTAACCAATAATGTAAAAAAAATTGATCCTAAAATA
1 -TGAGGTAGACATTCAATTATAATCTGTTTTAACCAATAATATAAAAAAAATTCATCCGAAAATA
**********
75437 AATTATGACATTATAAAACCATTTAAAGCGAGTANNNNNNNNNNTGAAGGAATGGGAGACTATAA
65 AATTATGACATTATAAAACCATTTAAAGCGAGTAGTTAGGGTTTTGAAGGAATGGGAGACTATAA
* * *
75502 ATGGACTTTTGTTGCCAATGAATGCTTTTTTCTTCTTGTTTCT
130 ATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCT
** * * *
75545 TGAGGTAGACATTCAATTATTGTCTGTTTTAACCAA-AA-ATATAAAAACTTCA-CCAGAAAATC
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACCAATAATATAAAAAAAATTCATCC-GAAAATA
* * * * *
75607 AATTATGAGATTATAAAACCATTTAAAGCGAGTTGTTAGGGTTTTAAAGGAATAGGTGACTATAA
65 AATTATGACATTATAAAACCATTTAAAGCGAGTAGTTAGGGTTTTGAAGGAATGGGAGACTATAA
* * * *
75672 ACAGACATTTCTTGTCAATGAATG-TATTTTTCTTCATGTTTCA
130 ATAGACTTTTCTTGCCAATGAATGCT-TTTTTCTTCATGTTTCT
*
75715 TGAGATAGACATTCAATTATAATCTGTTTTAACC
1 TGAGGTAGACATTCAATTATAATCTGTTTTAACC
75749 CAANNNNNNN
Statistics
Matches: 441, Mismatches: 102, Indels: 12
0.79 0.18 0.02
Matches are distributed among these distances:
169 3 0.01
170 130 0.29
171 39 0.09
172 141 0.32
173 128 0.29
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.35
Consensus pattern (172 bp):
TGAGGTAGACATTCAATTATAATCTGTTTTAACCAATAATATAAAAAAAATTCATCCGAAAATAA
ATTATGACATTATAAAACCATTTAAAGCGAGTAGTTAGGGTTTTGAAGGAATGGGAGACTATAAA
TAGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCT
Found at i:77513 original size:515 final size:511
Alignment explanation
Indices: 76461--77926 Score: 1262
Period size: 515 Copynumber: 2.8 Consensus size: 511
76451 TTTTCTATAC
* * ** *
76461 GTTTCTTGAGGTAGACATTCAATTATAGTTTGTATTAATGAAGAATGTAAAAAAATTCAACTTAA
1 GTTTCTT-AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAAATTCAACTTAA
* * * * * * * *
76526 AATCAAATATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATCGATGACT
64 AATCAATTATAAGATTATAAAACCATTTAAAGTGAGTAATTAGGCTTTTG-AGAAATAGGTAACT
* * *** * * *
76591 ATAAATGCACTTTTCTGACCAATGAATGCCTTTTTCTTCTCGTTTGTCCT-TGTAGACATTCAAT
128 ATAAATGAACTTTTCTTACCAATGAAAATCTTTTTCTTCACG-TT-TCATAGGTAGACATTCAAT
* * * * * **
76655 TATAATCTGTTTTGACCAAAAAAGTAAAAAAAAATTGAACATAAAGTAAATTTTGCGATCGTAAA
191 TATAATCTGTTTTAACC-AAAAA-TATAAAAAAATTGAACATAAAATCAATTTTGAGATTATAAA
* * * *
76720 ACCATTTGAAGTGAATAACGAAGCTTTTGAAGGAATGAAAGACTATAAATAGACTTTTCTTGCTG
254 ACCATTTCAAGTCAATAACGAAGCTTTTGAAGGAATGAAAGACTATAAATAGACTTTTCTTACTA
* * * * * *
76785 ATGAATGTTTTTTTCTTCCTGTTTCTTAAAGTAGACACTCAATTATAGTTTGTTTTATCGAAAAA
319 ATGAATGTCTTTTTCTTCATGTTTCTCAAAGTAAACACTCAATTATAATCTGTTTTATCGAAAAA
* * * * * * * **
76850 TGTAAAAAAATTCAACTTAAAATCAATTTTGAGATTATAAGACTATTTACAATGAGTAGTAAGGC
384 TGTAAAAAAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTACAACGAGTAATAAAAC
* *
76915 TTTTGAAGGAATAAGAGACTATAAATAGATTTTTTTTTACAAACAAATAAGATTTTTTGAACAT
449 TTTTGAAGGAATAAGAGACTATAAATAGATTTTTTCTTACAAACAAAT-AGATTTTTTCAACAT
* ** * *
76979 -TTGCCAAGGCA-AGCATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAATTCAACTTAAA
1 GTTTCTTAGGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAATTCAACTTAAA
* * *
77042 ATCAATTATAAGATTATATAACCATTTAAAGCGAGTTATTAGGCTTTTGACGAAATAGGTAACTA
65 ATCAATTATAAGATTATAAAACCATTTAAAGTGAGTAATTAGGCTTTTGA-GAAATAGGTAACTA
* * *
77107 TAAATGGACTTTTTTTATCAATGAAAATCTTTTTCTTTC-CGTTTCATGAGGTAGACATTCAATT
129 TAAATGAACTTTTCTTACCAATGAAAATCTTTTTC-TTCACGTTTCAT-AGGTAGACATTCAATT
* * * * *
77171 ATACTATATTTTAACCAAAAATATAAAAAAATTAAACTTAAAATCAATTTTGAGATTATAAAACC
192 ATAATCTGTTTTAACCAAAAATATAAAAAAATTGAACATAAAATCAATTTTGAGATTATAAAACC
* * ** * *
77236 GTTTCAAG-CAACTAA-TAAGGCTTTTGAAGGAATGGGTAG-CTATAAATCGACTTTTTTTTACT
257 ATTTCAAGTCAA-TAACGAA-GCTTTTGAAGGAAT-GAAAGACTATAAATAGAC-TTTTCTTACT
* * *
77298 AATGAATGTCTTTTTCTTCATGTTTCTCGAGGTAAACATTCAATTATAATCTGTTTTAATC-AAT
318 AATGAATGTCTTTTTCTTCATGTTTCTCAAAGTAAACACTCAATTATAATCTGTTTT-ATCGAA-
* * * *
77362 AATTTTAAAAAAATTGATCCTAAAATCAATTATGACATTATAAAACCATTTA-AAGCGAGTAATA
381 AAATGTAAAAAAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTACAA-CGAGTAATA
* * * * * ** * **
77426 AAACTTTTTGAAGGAATAGGAGATTATAAATGGA-TTTTTCTTGCCAATGAAT-GCTTTTTTCTT
445 AAAC-TTTTGAAGGAATAAGAGACTATAAATAGATTTTTTCTTACAAACAAATAGATTTTTTCAA
77489 CAT
509 CAT
* * *
77492 GTTTCTTACGGTAGACATTCAATTATAGTCTGGTTTAACCAAAAATGTGAAAAATTTAACTTAAA
1 GTTTCTTA-GGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAATTCAACTTAAA
* * * * * *
77557 ATCAATTATGAA-ATTATAAAATCATTTAAAGTGAGTCA-TAGGGCTTTCGAAAGAATGGGTTAC
65 ATCAATTAT-AAGATTATAAAACCATTTAAAGTGAGTAATTA-GGCTTTTGAGA-AATAGGTAAC
* * * * *
77620 TATAAATGAACTTTTCTTGCCAAT--AAATGCCATTTTCTTCAAGTTTCTTAAGGTAGACATTTA
127 TATAAATGAACTTTTCTTACCAATGAAAAT--CTTTTTCTTCACGTTTCAT-AGGTAGACATTCA
* * * * *
77683 GTTATAATCTGTTTTAGCCATAAATGTAAAACAAATTGAGCATAAAATCAATTTTGAGATTATAA
189 ATTATAATCTGTTTTAACCAAAAATATAAAA-AAATTGAACATAAAATCAATTTTGAGATTATAA
* * * * * * ** * ** * * *
77748 AATCATTTAAATTTAGTAA-TAAGGCCCTAGAAGGAATGGGAGACTACAAATGGACTTTGCTTAC
253 AACCATTTCAAGTCAATAACGAA-GCTTTTGAAGGAATGAAAGACTATAAATAGACTTTTCTTAC
* * ** * ** * * * * *
77812 AAATAAATAG-GATTTTCTAT-ATGTTTC-CCAAGATAGGCATTCGATTATAGTCTGTTTTAACT
317 TAATGAAT-GTCTTTTTCT-TCATGTTTCTCAAAG-TAAACACTCAATTATAATCTGTTTTATCG
* * ** *
77874 AAAAATAT-AAAAAATTTAATTTAAAATCAATTATGAGATTATAAAACCATTTA
379 AAAAATGTAAAAAAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTA
77927 ANNNNNNNNN
Statistics
Matches: 766, Mismatches: 153, Indels: 63
0.78 0.16 0.06
Matches are distributed among these distances:
512 4 0.01
513 127 0.17
514 89 0.12
515 411 0.54
516 131 0.17
517 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (511 bp):
GTTTCTTAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAATTCAACTTAAAA
TCAATTATAAGATTATAAAACCATTTAAAGTGAGTAATTAGGCTTTTGAGAAATAGGTAACTATA
AATGAACTTTTCTTACCAATGAAAATCTTTTTCTTCACGTTTCATAGGTAGACATTCAATTATAA
TCTGTTTTAACCAAAAATATAAAAAAATTGAACATAAAATCAATTTTGAGATTATAAAACCATTT
CAAGTCAATAACGAAGCTTTTGAAGGAATGAAAGACTATAAATAGACTTTTCTTACTAATGAATG
TCTTTTTCTTCATGTTTCTCAAAGTAAACACTCAATTATAATCTGTTTTATCGAAAAATGTAAAA
AAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTACAACGAGTAATAAAACTTTTGAA
GGAATAAGAGACTATAAATAGATTTTTTCTTACAAACAAATAGATTTTTTCAACAT
Found at i:77819 original size:172 final size:171
Alignment explanation
Indices: 76461--77927 Score: 1150
Period size: 171 Copynumber: 8.6 Consensus size: 171
76451 TTTTCTATAC
* * * * ** * *
76461 GTTTCTTGAGGTAGACATTCAATTATAGTTTGTATTAATGAAGAATGTAAAAAAATTCAACTTAA
1 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAA
* * * *
76526 AATCAAATATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-CGATGAC
66 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGA-GAC
* * *
76590 TATAAATGCACTTTTCTGACCAATGAATGCCTTTTTCTTC-T
130 TATAAATGGACTTTTCTTACCAATAAATGCCTTTTTCTTCAT
* **** * * *
76631 CGTTTGTCCTTGTAGACATTCAATTATAATCTGTTTTGACCAAAAAAGTAAAAAAAAATTGAACA
1 -GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT--AAAAAAATTGAACT
* * * * ** * * * * **
76696 TAAAGTAAATTTTGCGATCGTAAAACCATTTGAAGTGAATAACGAA-GCTTTTGAAGGAATGAAA
63 TAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA-TAAGGCTTTTGAAGGAATGGGA
* * ** * ** *
76760 GACTATAAATAGACTTTTCTTGCTGATGAATGTTTTTTTCTTCCT
127 GACTATAAATGGACTTTTCTTACCAATAAATGCCTTTTTCTTCAT
* * * * * * *
76805 GTTTCTTAAAGTAGACACTCAATTATAGTTTGTTTTATCGAAAAATGTAAAAAAATTCAACTTAA
1 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAA
* * * * * **
76870 AATCAATTTTGAGATTATAAGACTATTTACAA-TGAGTAGTAAGGCTTTTGAAGGAATAAGAGAC
66 AATCAATTATGAGATTATAAAACCATTTA-AAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGAC
* * * * * ** ***
76934 TATAAATAGATTTTTTTTTACAAACAAATAAGATTTTTTGAACAT
130 TATAAATGGA-CTTTTCTTACCAATAAAT--GCCTTTTTCTTCAT
* * * * * *
76979 -TTGC-CAAGGCA-AGCATTCAATTATAGTCTGTTTTAACCAAAAATAT-AAAAAATTCAACTTA
1 GTTTCTTAAGGTAGA-CATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTA
* * * * * * *
77040 AAATCAATTATAAGATTATATAACCATTTAAAGCGAGTTATTAGGCTTTTGACGAAATAGGTA-A
65 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGGAGA
* * *
77104 CTATAAATGGACTTTTTTTATCAATGAAAAT--CTTTTTCTTTC-C
129 CTATAAATGGACTTTTCTTACCAAT--AAATGCCTTTTTC-TTCAT
* * * * * * *
77147 GTTTCATGAGGTAGACATTCAATTATACTATATTTTAACCAAAAATATAAAAAAATTAAACTTAA
1 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAA
* * * * *
77212 AATCAATTTTGAGATTATAAAACCGTTTCAAGCAACTAATAAGGCTTTTGAAGGAATGGGTAG-C
66 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGG-AGAC
* * * * *
77276 TATAAATCGACTTTTTTTTACTAATGAATGTCTTTTTCTTCAT
130 TATAAATGGAC-TTTTCTTACCAATAAATGCCTTTTTCTTCAT
** * * * * * *
77319 GTTTCTCGAGGTAAACATTCAATTATAATCTGTTTTAATCAATAATTTTAAAAAAATTGATCCTA
1 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAA-AAATGTAAAAAAATTGAACTTA
* ** *
77384 AAATCAATTATGACATTATAAAACCATTTAAAGCGAGTAATAAAACTTTTTGAAGGAATAGGAGA
65 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-TTTTGAAGGAATGGGAGA
* * * * *
77449 TTATAAATGGATTTTTCTTGCCAATGAATGCTTTTTTCTTCAT
129 CTATAAATGGACTTTTCTTACCAATAAATGCCTTTTTCTTCAT
* * * * *
77492 GTTTCTTACGGTAGACATTCAATTATAGTCTGGTTTAACCAAAAATGT-GAAAAATTTAACTTAA
1 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAA
* * * * * * * **
77556 AATCAATTATGAAATTATAAAATCATTTAAAGTGAGTCATAGGGCTTTCGAAAGAATGGGTTACT
66 AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACT
* * * *
77621 ATAAATGAACTTTTCTTGCCAATAAATGCCATTTTCTTCAA
131 ATAAATGGACTTTTCTTACCAATAAATGCCTTTTTCTTCAT
* * * * * *
77662 GTTTCTTAAGGTAGACATTTAGTTATAATCTGTTTTAGCCATAAATGTAAAACAAATTGAGCATA
1 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAA-AAATTGAACTTA
* * *** ** *
77727 AAATCAATTTTGAGATTATAAAATCATTTAAATTTAGTAATAAGGCCCTAGAAGGAATGGGAGAC
65 AAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGAC
* * * **
77792 TACAAATGGACTTTGCTTACAAATAAATAG-GATTTTCTAT-AT
130 TATAAATGGACTTTTCTTACCAATAAAT-GCCTTTTTCT-TCAT
** * * * * * * * *
77834 GTTTCCCAAGATAGGCATTCGATTATAGTCTGTTTTAACTAAAAATAT-AAAAAATTTAATTTAA
1 GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAA
77898 AATCAATTATGAGATTATAAAACCATTTAA
66 AATCAATTATGAGATTATAAAACCATTTAA
77928 NNNNNNNNNN
Statistics
Matches: 1021, Mismatches: 242, Indels: 67
0.77 0.18 0.05
Matches are distributed among these distances:
168 5 0.00
169 4 0.00
170 180 0.18
171 308 0.30
172 236 0.23
173 252 0.25
174 36 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (171 bp):
GTTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAA
AATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACT
ATAAATGGACTTTTCTTACCAATAAATGCCTTTTTCTTCAT
Found at i:78660 original size:21 final size:20
Alignment explanation
Indices: 78622--78660 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
78612 AATGAGAAGA
*
78622 AAAAGGCATTCATTGTCAAG
1 AAAAGGCATTCATAGTCAAG
*
78642 AAAAGTGCATTTATAGTCA
1 AAAAG-GCATTCATAGTCA
78661 TCAATTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (20 bp):
AAAAGGCATTCATAGTCAAG
Found at i:80853 original size:170 final size:170
Alignment explanation
Indices: 80273--80944 Score: 433
Period size: 171 Copynumber: 3.9 Consensus size: 170
80263 TAAGAAACGA
* * * * *
80273 GAAGAA-AAAGGCATTCATTGGCAAGAAAAGTGCATTTATAGTCAT-CAATTCCTTCAAATGCCT
1 GAAGAACAAA-GCATTCATTGACAAGAAAAGTCCATTTATAG-CCTCCCATTCCTTCAAAAGCCT
* * * * * * * * *
80336 TATTACTCATTTTAAATAGTTTTATAATCCCGTAAGTGATTTTAAGTTGAA-TTTTTTTACTTTC
64 TATTACTCACTTCAAATGGCTTTACAATCTCATAATTGATTTTAAGTTGAATTTTTTTTA-TAT-
** * * * ******
80400 TTCATTAAAACAAACTATAATTGAATGTCTACCTCAAGNNNNNN
127 TTGGTTAAAGCAAACTATAATTGAATGCCTACCTCATGAAAAAT
**** * * * * ** *
80444 NNNNAA-AAAGCCATTCATTGAGAAG-AAAGATACATTTATAGTCACTTATTCCTTCAAAAGCTT
1 GAAGAACAAAG-CATTCATTGACAAGAAAAG-TCCATTTATAGCCTCCCATTCCTTCAAAAGCCT
* * ********** * ** *
80507 TATTACTCGCTTTAAATNNNNNNNNNNTCTAATAATTGATTTTAAGTTGAATTGTTTTACATTTT
64 TATTACTCACTTCAAATGGCTTTACAATCTCATAATTGATTTTAAGTTGAATT-TTTTTTATATT
* *
80572 TGGTTAAAAGC-AACTATAATTAAATGCCTATCTCATGAAAAAT
128 TGGTT-AAAGCAAACTATAATTGAATGCCTACCTCATGAAAAAT
* * * ** * *
80615 GAATAACAAAGTATTCATTGACAAGAAAAGTCCATTTATAGTCTCTTATTCCTTTAGAAGCCTTA
1 GAAGAACAAAGCATTCATTGACAAGAAAAGTCCATTTATAGCCTCCCATTCCTTCAAAAGCCTTA
* * * * * *
80680 TTACTCGCTGT-AATTGGCTTTATAATGTCATAACTGATTTTATGTTGAATTTTTTTTATATTTG
66 TTACTCACT-TCAAATGGCTTTACAATCTCATAATTGATTTTAAGTTGAATTTTTTTTATATTTG
*
80744 GTTAAAGCAAACTATAATTGAATGCCTACCTCATGAAACAT
130 GTTAAAGCAAACTATAATTGAATGCCTACCTCATGAAAAAT
* ** **
80785 GAAGAA-AAAGGCATTGATTGGGAAGAAAAGTCCATTTATAGCCTCCCATTCCTTCAAAAGTTTT
1 GAAGAACAAA-GCATTCATTGACAAGAAAAGTCCATTTATAGCCTCCCATTCCTTCAAAAGCCTT
* * * * *
80849 ATTACTCACTTCAAATGGCTTTACGATCTCAAAATTGACTTTAAGTTTAATTTTTTTTACTTGTT
65 ATTACTCACTTCAAATGGCTTTACAATCTCATAATTGATTTTAAGTTGAATTTTTTTTA--TATT
* * * * *
80914 TGGTCAAAACAGATTATAATTGAATGTCTAC
128 TGGTTAAAGCAAACTATAATTGAATGCCTAC
80945 ATTGAGAAAA
Statistics
Matches: 382, Mismatches: 105, Indels: 27
0.74 0.20 0.05
Matches are distributed among these distances:
169 9 0.02
170 142 0.37
171 180 0.47
172 46 0.12
173 5 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.37
Consensus pattern (170 bp):
GAAGAACAAAGCATTCATTGACAAGAAAAGTCCATTTATAGCCTCCCATTCCTTCAAAAGCCTTA
TTACTCACTTCAAATGGCTTTACAATCTCATAATTGATTTTAAGTTGAATTTTTTTTATATTTGG
TTAAAGCAAACTATAATTGAATGCCTACCTCATGAAAAAT
Found at i:80976 original size:342 final size:341
Alignment explanation
Indices: 80229--81183 Score: 824
Period size: 342 Copynumber: 2.8 Consensus size: 341
80219 NNNNNNNNNN
* * * * *
80229 TTGGTCAAAACAGATTATAATTGAATGTCCACATTAAGAAACGAGAAGAAAAAGGCATTCATTGG
1 TTGGTCAAAACAGATTATAATTGAATGTCTACATTGAGAAAAGAGAAGAAAAAGGTATTCATTGA
** * *
80294 CAAGAAAAGTGCATTTATAGTCATC-AATTCCTTCAAATGCCTTATTACTCATTTTAAATAGTTT
66 CAAGAAAAGTGCATTTATAGTC-TCTAATTCCTTCAAA-GCCTTATTACTCGCTGTAAATAGCTT
* * *
80358 TATAATCCCGTAAGTGATTTTAAGTTGAATTTTTTTACTTTCTTCATTAAAACAAACTATAATTG
129 TATAATCCCATAACTGATTTTAAGTTGAATTTTTTTACTATCTTCATTAAAACAAACTATAATTG
* ********** *
80423 AATGTCTACCTCAAGNNNNNNNNNNAAAAAGCCATTCATTGAGAAGAAAGATACATTTATAGTCA
194 AATGCCTACCTCAAGAAACATGAAGAAAAAGCCATTCATTGAGAAGAAAGATACATTTATAGCCA
** * * ********** *
80488 CTTATTCCTTCAAAAGCTTTATTACTCGCTTTAAATNNNNNNNNNNTCTAATAATTGATTTTAAG
259 CCCATTCCTTCAAAAGCTTTATTACTCACTTCAAATGGCTTTACGATCTAATAATTGACTTTAAG
80553 TTGAATTGTTTTACATTT
324 TTGAATTGTTTTACATTT
* * * * * *
80571 TTGGTTAAAAGCA-ACTATAATTAAATGCCTATC-TCATGA-AAAA-TGAATAACAAA-GTATTC
1 TTGGTCAAAA-CAGATTATAATTGAATGTCTA-CAT--TGAGAAAAGAGAAGAA-AAAGGTATTC
* * * * *
80631 ATTGACAAGAAAAGTCCATTTATAGTCTCTTATTCCTTTAGAAGCCTTATTACTCGCTGTAATTG
61 ATTGACAAGAAAAGTGCATTTATAGTCTCTAATTCCTTCA-AAGCCTTATTACTCGCTGTAAATA
** * ** *
80696 GCTTTATAATGTCATAACTGATTTTATGTTGAATTTTTTTTA-TAT-TTGGTTAAAGCAAACTAT
125 GCTTTATAATCCCATAACTGATTTTAAGTTGAA-TTTTTTTACTATCTTCATTAAAACAAACTAT
* * * * *
80759 AATTGAATGCCTACCTCATGAAACATGAAGAAAAAGGCATTGATTGGGAAGAAA-AGTCCATTTA
189 AATTGAATGCCTACCTCAAGAAACATGAAGAAAAAGCCATTCATTGAGAAGAAAGA-TACATTTA
* *
80823 TAGCCTCCCATTCCTTCAAAAGTTTTATTACTCACTTCAAATGGCTTTACGATCTCAA-AATTGA
253 TAGCCACCCATTCCTTCAAAAGCTTTATTACTCACTTCAAATGGCTTTACGATCT-AATAATTGA
* *
80887 CTTTAAGTTTAATTTTTTTTAC-TTGT
317 CTTTAAGTTGAA-TTGTTTTACATT-T
*
80913 TTGGTCAAAACAGATTATAATTGAATGTCTACATTGAGAAAAGAGAAGAAAAAGGTTTTCATTGG
1 TTGGTCAAAACAGATTATAATTGAATGTCTACATTGAGAAAAGAGAAGAAAAAGGTATTCATT-G
* * * * * *
80978 CCAA-ATAAGTGCATTTATAGT-TATCAATTTCTTCAAAAGCCTTATTACTCGCTTTAAAT-GNN
65 ACAAGAAAAGTGCATTTATAGTCTCT-AATTCCTTC-AAAGCCTTATTACTCGCTGTAAATAG-C
******** * * * *
81040 NNNNNNNNCTCATAATTGATTTTAAGTTGAATTTTTTTA-TAGTCTTCATTAAAATAAACTACAA
127 TTTATAATCCCATAACTGATTTTAAGTTGAATTTTTTTACTA-TCTTCATTAAAACAAACTATAA
** * * *
81104 TTGAATGTTTACCTCGACAAACATGCAGAAAAAGCCATTCATTGAGAAGAAAGATACATTTATAG
191 TTGAATGCCTACCTCAAGAAACATGAAGAAAAAGCCATTCATTGAGAAGAAAGATACATTTATAG
* *
81169 TCACTCATTCCTTCA
256 CCACCCATTCCTTCA
81184 NNNNNNNNNN
Statistics
Matches: 478, Mismatches: 111, Indels: 47
0.75 0.17 0.07
Matches are distributed among these distances:
340 4 0.01
341 142 0.30
342 225 0.47
343 104 0.22
344 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.35
Consensus pattern (341 bp):
TTGGTCAAAACAGATTATAATTGAATGTCTACATTGAGAAAAGAGAAGAAAAAGGTATTCATTGA
CAAGAAAAGTGCATTTATAGTCTCTAATTCCTTCAAAGCCTTATTACTCGCTGTAAATAGCTTTA
TAATCCCATAACTGATTTTAAGTTGAATTTTTTTACTATCTTCATTAAAACAAACTATAATTGAA
TGCCTACCTCAAGAAACATGAAGAAAAAGCCATTCATTGAGAAGAAAGATACATTTATAGCCACC
CATTCCTTCAAAAGCTTTATTACTCACTTCAAATGGCTTTACGATCTAATAATTGACTTTAAGTT
GAATTGTTTTACATTT
Found at i:82303 original size:170 final size:169
Alignment explanation
Indices: 81777--82476 Score: 449
Period size: 170 Copynumber: 4.1 Consensus size: 169
81767 NNNNNNNNNN
*
81777 TAAATAGTTTTATAATCTCATAATTGATTTTGAGTTGAATTTTTTTACATTTTTCGTTAAAACAA
1 TAAATAGTTTTATAATCTCATAATTGATTTT-AGTTGAA-TTTTTTACATTTTTAGTTAAAACAA
* * ** *
81842 ACTATAATTGAATGT-CTACCTCAAGAAACGTG-CCAAAAAAGCTATTCATTGAG-AAG-AAAGA
64 ACTATAATTGAAT-TCCTACCTCATGAAACATGAAGAAAAAATC-ATTCATTG-GCAAGAAAAG-
* * * ***
81903 TACATTTATAGTCGT-TCATT-TCTTCAAAAGCCTTATTACTTGNNN
125 TCCCTTTATAGTC-TCTCATTCTC-TCAAAAGCCTTATTACTCGTTT
******* * * * * *
81948 NNNNNNNTTTTATAATCTCATAATTGA-TTAAGTTTCATTTTTTTACATTTTTGGTTAAAAGAAA
1 TAAATAGTTTTATAATCTCATAATTGATTTTAG-TTGAATTTTTTACATTTTTAGTTAAAACAAA
82012 -TGATAATTG-ATTGCCTACCTCATGAAACATGAAGAAAAAAGT-ATTCATTGGCAAGAAAAGTC
65 CT-ATAATTGAATT-CCTACCTCATGAAACATGAAGAAAAAA-TCATTCATTGGCAAGAAAAGTC
* *********
82074 CCTTTATAGTCTCTCATTCTTTCAAAAGCCTTATNNNNNNNNN
127 CCTTTATAGTCTCTCATTCTCTCAAAAGCCTTATTACTCGTTT
****** * * *
82117 NNNNNNGTTATATAATGTCATAATTGATTTTATGTTGAATTTTTCACATTTTTAGTT-AAACAAA
1 TAAATAGTTTTATAATCTCATAATTGATTTTA-GTTGAATTTTTTACATTTTTAGTTAAAAC-AA
*
82181 ACTATAATTGAATTCCTACCTCATGAGACATGAAGAAAAAATCATTCATTGGCAAGAAAAGTCCC
64 ACTATAATTGAATTCCTACCTCATGAAACATGAAGAAAAAATCATTCATTGGCAAGAAAAGTCCC
*
82246 TTTATAGTCTCTCATTCTCTCAAAAGCCTTATTGCTCGTTT
129 TTTATAGTCTCTCATTCTCTCAAAAGCCTTATTACTCGTTT
* ********** * * * *
82287 TAAATAGTTTTATAATGTCATNNNNNNNNNNAAGTTGAATTTTTTACATTTTTGGGTAAAATAGA
1 TAAATAGTTTTATAATCTCAT-AATTGATTTTAGTTGAATTTTTTACATTTTTAGTTAAAACAAA
* * * * *
82352 TTATAATTGAATGTCC-ACCTTGA-GAAACATAAAGAGAAAGA-CATTCATTGGTAAGAAAAGTC
65 CTATAATTGAAT-TCCTACC-TCATGAAACATGAAGA-AAAAATCATTCATTGGCAAGAAAAGTC
* ** * * * * *
82414 CATTTACGGTCGCCCATTC-CTTCAAAAGCCTTTTTACTTGCTT
127 CCTTTATAGTCTCTCATTCTC-TCAAAAGCCTTATTACTCGTTT
* *
82457 TAAATGGTTTTATAACCTCA
1 TAAATAGTTTTATAATCTCA
82477 AAATNNNNNN
Statistics
Matches: 421, Mismatches: 86, Indels: 45
0.76 0.16 0.08
Matches are distributed among these distances:
167 1 0.00
168 5 0.01
169 120 0.29
170 257 0.61
171 38 0.09
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.36
Consensus pattern (169 bp):
TAAATAGTTTTATAATCTCATAATTGATTTTAGTTGAATTTTTTACATTTTTAGTTAAAACAAAC
TATAATTGAATTCCTACCTCATGAAACATGAAGAAAAAATCATTCATTGGCAAGAAAAGTCCCTT
TATAGTCTCTCATTCTCTCAAAAGCCTTATTACTCGTTT
Found at i:85126 original size:170 final size:169
Alignment explanation
Indices: 84745--86313 Score: 1315
Period size: 170 Copynumber: 9.2 Consensus size: 169
84735 NNNNNNNNNN
* * ** **
84745 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAAT-TAATGACTATAAATCCACTTTTCT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGA-GACTATAAATGGACTTTTCT
* ** * * * * *
84809 GGCCAATGAATGC-TTTTTCTTGTTGTTTCTTAATGTAGACATTCAATTATAATCTGTTTTGACC
65 TGCCAATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACC
* * **
84873 AAAGAA-GTAAAAAAAAAATTGAACTTAAAGTCAATTTTGAGATCG
130 AAA-AATGT----AAAAAATT-AACTTAAAATCAATTATGAGATTA
*
84918 TAAAACCATTTGAAGTGAGTAATAAAGG-TTTTGAAGGAATGGGAGACTATAAATGGACTTTTCT
1 TAAAACCATTTAAAGTGAGTAAT-AAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCT
*
84982 TGCCGATGAATGCTTTTTTCTTCATGTTTCATGAGGTA-AGCATTCAATTATAGAT-TGTTTTAA
65 TGCCAATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGA-CATTCAATTATA-ATATGTTTTAA
** * * *
85045 TGAAAAATGTAAAAAATGCAACATAAAATCAATTATGACATTA
128 CCAAAAATGTAAAAAAT-TAACTTAAAATCAATTATGAGATTA
* * *
85088 TAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGAACTTTTCTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTT
* * *
85153 GCCAATGAATGC--TTTTATTCATGTTTC-TCAAGGTAGACATTCAATTATAGTATGTTTTAACC
66 GCCAATGAATGCTTTTTTCTTCATGTTTCAT-GAGGTAGACATTCAATTATAATATGTTTTAACC
* * *
85215 -AAAATGTGAAAAATTTAACTTAAAAACAAATATGAGATTA
130 AAAAATGT-AAAAAATTAACTTAAAATCAATTATGAGATTA
* * * * * *
85255 TAAAACCATTTAAAGTGAGTCATAAGGCTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCGT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTT
* ** * * * *
85320 GCTAATGAATGCAATTTTCTTCATGTTTC-TAGAGATAGATATTAAATTATAATATATTTTAACC
66 GCCAATGAATGCTTTTTTCTTCATGTTTCAT-GAGGTAGACATTCAATTATAATATGTTTTAACC
* * * *
85384 ATAAATGTAAAAATAATTGAACATAAAATCAATTTTGAGATTC
130 AAAAATGT-AAAA-AATT-AACTTAAAATCAATTATGAGATTA
* * * * * * * *
85427 TAAAACTATTTAAAGTTAGTAATAGGGCCTTTGGAGAAAT-TGATGACTATAAATGTACTTTT-T
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGA-GACTATAAATGGACTTTTCT
* * * * * * * *
85490 TGGCCAATGAATCCCTTTTTCTTGTCATTTTTTAT--TGTCGACATTCAATTATAATCTGTTTTG
65 T-GCCAATGAATGCTTTTTTC-T-TCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTA
** * * * * *
85553 ACCAAAGAAATAAAAAAAAATTGAACTTAAAGTAAATTTTGGGATTG
127 ACC-AA-AAAT-GTAAAAAATT-AACTTAAAATCAATTATGAGATTA
* * * *
85600 TAAAACCATTTGAAGTGAGTAATAAAGCTTTTGAAGAAATGAGAGACTATAAATGGACTTTTCTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTT
* * * * * * * * *
85665 TCCAATAAAAGCTTTTTTCTTCATGTTTCATGAGGTAGGCATTCAATTACAGTTTGTTTTAGCAA
66 GCCAATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCA
* * * *
85730 AAAATGTAAAAAATTCAACATAAAATGAATTATAAAATTA
131 AAAATGTAAAAAATT-AACTTAAAATCAATTATGAGATTA
* *
85770 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATAGACTTTTCTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTT
* * * * * * * * *
85835 GTCAATTAATGCTTTTTCCATCATGTTTCATGAGGTAGGCATTCAATTATTATTTGTTTCAATCA
66 GCCAATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCA
* * *
85900 AAAAAGTAAAATATTCAACTTAAAATCAATTATTAGATTA
131 AAAATGTAAAAAATT-AACTTAAAATCAATTATGAGATTA
* ** * * * *
85940 TAAATCCATTTAAAACGAGTTATTAGGCTTTTGAAGGAATGGGTGACTATAAACGGACTTTTCTT
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTT
** * * * * * * * *
86005 ATCAATAAAT-ATTTTTACTTCACGTTTTATGAGGTAGAAATTCAATTATAATCTATTTTAACCA
66 GCCAATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCA
* * * * *
86069 TAAATATAAAAAAATTAAATTTAAAATTAATTATGAGATAA
131 AAAATGT-AAAAAATT-AACTTAAAATCAATTATGAGATTA
* * * * * * ** * *
86110 TAAAGCTATTTAAAGCCGA-CAATAAGGCTTTTGACGGTACCGAAGACTATAAATAGACTTTTCT
1 TAAAACCATTTAAAG-TGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCT
* * ** * * * *
86174 T-CAAAATAAATGGGTTTTTCTACATGTTTTCCA--AGGTAAACATTCAATTATAGTATGTTTTG
65 TGC-CAATGAATGCTTTTTTCTTCATG-TTT-CATGAGGTAGACATTCAATTATAATATGTTTTA
** * ** *
86236 ATAAAAAATGTAAAAAATTTAACTTAAAATCTATTACAAAATTA
127 ACCAAAAATGTAAAAAA-TTAACTTAAAATCAATTATGAGATTA
* *
86280 TAAAACCATTTAAAGCGAGTAATTAGGCTTTTGA
1 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGA
86314 NNNNNNNNNN
Statistics
Matches: 1122, Mismatches: 237, Indels: 77
0.78 0.17 0.05
Matches are distributed among these distances:
167 96 0.09
168 45 0.04
169 96 0.09
170 465 0.41
171 62 0.06
172 111 0.10
173 177 0.16
174 67 0.06
175 3 0.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (169 bp):
TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTT
GCCAATGAATGCTTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAATATGTTTTAACCA
AAAATGTAAAAAATTAACTTAAAATCAATTATGAGATTA
Found at i:86279 original size:510 final size:501
Alignment explanation
Indices: 84745--86313 Score: 1511
Period size: 510 Copynumber: 3.1 Consensus size: 501
84735 NNNNNNNNNN
**
84745 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATTA--ATGACTATAAATCCACTTTTC
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAA-TAGGA-GACTATAAATAGACTTTTC
* ** * * * *
84808 TGGCCAATGAATGCTTTTTCTTGTTGTTTCTTAATGTAGACATTCAATTATAATCTGTTTTGACC
64 TTG-CAATGAATGCTTTTTCTTCATGTTTC-TGAGGTAGACATTCAATTATAATATGTTTTAACC
* * * ** *
84873 AAAGAAGTAAAAAAAAAATTGAACTTAAAGTCAATTTTGAGATCGTAAAACCATTTGAAGTGAGT
127 AAAAAAGT---AAAAATATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGT
* * * * *
84938 AATAAAGG-TTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCGATGAATGCTTTTTTC
189 TAT-TAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAAT-CCTTTTTC
* ** * **
85002 TTCATGTTTCATGAGGTA-AGCATTCAATTATAGAT-TGTTTTAATGAAAAATGT-AAAAAATGC
252 TTCATGTTTTATGAGGTAGA-CATTCAATTATA-ATCTGTTTTAACCAAAAATATAAAAAAATTA
* * *
85064 AACATAAAATCAATTATGACATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATG
315 AACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTG-AGGAATG
*
85129 AGAGACTATAAATGAACTTTTCTTGCCAATGAAT-GCTTTTAT-TCATGTTTCTCAAGGTAGACA
379 AGAGACTATAAATG-ACTTTTCTT-CCAATAAATGGCTTTT-TCTCATGTTTC-CAAGGTAGACA
* * * * * *
85192 TTCAATTATAGTATGTTTTAACCAAAATGTGAAAAATTTAACTTAAAAACAAATATGAGATTA
440 TTCAATTATAGTATGTTTTAA-AAAAATGTAAAAAATTTAACTTAAAATCAATTATAAAATTA
* * * *
85255 TAAAACCATTTAAAGTGAGTCATAAGGCTTTTGAAAGAATAGGTGACTATAAATAGACTTTTCGT
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGAGACTATAAATAGACTTTTCTT
* * * * *
85320 GCTAATGAATGCAATTTTCTTCATGTTTCTAGAGATAGATATTAAATTATAATATATTTTAACCA
66 GC-AATGAATGC-TTTTTCTTCATGTTTCT-GAGGTAGACATTCAATTATAATATGTTTTAACCA
* * * * * * *
85385 TAAATGTAAAAATAATTGAACATAAAATCAATTTTGAGATTCTAAAACTATTTAAAGTTAG-TAA
128 AAAAAGTAAAAAT-ATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTTAT
* * * * * *
85449 TAGGGCCTTTGGAGAAATTGATGACTATAAATGTACTTTT-TTGGCCAATGAATCCCTTTTTCTT
192 TA-GGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-GCCAATGAAT-CCTTTTTC-T
* * * * * *
85513 GTCATTTTTTAT--TGTCGACATTCAATTATAATCTGTTTTGACCAAAGAAATAAAAAAAAATTG
253 -TCATGTTTTATGAGGTAGACATTCAATTATAATCTGTTTTAACC-AA-AAATATAAAAAAATTA
* * * * * * * *
85576 AACTTAAAGTAAATTTTGGGATTGTAAAACCATTTGAAGTGAGTAATAAAGCTTTTGAAGAAATG
315 AACTTAAAATAAATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTG-AGGAATG
* *
85641 AGAGACTATAAATGGACTTTTCTTTCCAATAAA-AGCTTTTTTCTTCATGTTT-CATGAGGTAGG
379 AGAGACTATAAAT-GACTTTTC-TTCCAATAAATGGC-TTTTTC-TCATGTTTCCA--AGGTAGA
* * * * *
85704 CATTCAATTACAGTTTGTTTTAGCAAAAAATGTAAAAAATTCAACATAAAATGAATTATAAAATT
438 CATTCAATTATAGTATGTTTTA--AAAAAATGTAAAAAATTTAACTTAAAATCAATTATAAAATT
85769 A
501 A
* *
85770 TAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGAGACTATAAATAGACTTTTCTT
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGAGACTATAAATAGACTTTTCTT
* * * * * * *
85835 GTCAATTAATGCTTTTTCCATCATGTTTCATGAGGTAGGCATTCAATTATTATTTGTTTCAATCA
66 G-CAATGAATGCTTTTT-CTTCATGTTTC-TGAGGTAGACATTCAATTATAATATGTTTTAACCA
* * **
85900 AAAAAGT-AAAATATTCAACTTAAAATCAATTATT-AGATTATAAATCCATTTAAAACGAGTTAT
128 AAAAAGTAAAAATATTGAACTTAAAATCAATT-TTGAGATTATAAAACCATTTAAAGTGAGTTAT
* ** * *
85963 TAGGCTTTTGAAGGAATGGGTGACTATAAACGGACTTTTCTTATCAATAAAT-ATTTTTACTTCA
192 TAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATCCTTTTT-CTTCA
* * * * *
86027 CGTTTTATGAGGTAGAAATTCAATTATAATCTATTTTAACCATAAATATAAAAAAATTAAATTTA
256 TGTTTTATGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTAAACTTA
* * * * * **
86092 AAATTAATTATGAGATAATAAAGCTATTTAAAGCCGA-CAATAAGGCTTTTGACGGTACCGA-AG
321 AAATAAATTATGAGATTATAAAACTATTTAAAG-TGAGTAATAAGGCTTTTGA-GG-AATGAGAG
* * *
86155 ACTATAAATAGACTTTTCTTCAAAATAAATGGGTTTTTCTACATGTTTTCCAAGGTAAACATTCA
383 ACTATAAAT-GACTTTTCTTC-CAATAAATGGCTTTTTCT-CATG-TTTCCAAGGTAGACATTCA
* *
86220 ATTATAGTATGTTTTGATAAAAAATGTAAAAAATTTAACTTAAAATCTATTACAAAATTA
444 ATTATAGTATGTTTT-A-AAAAAATGTAAAAAATTTAACTTAAAATCAATTATAAAATTA
*
86280 TAAAACCATTTAAAGCGAGTAATTAGGCTTTTGA
1 TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGA
86314 NNNNNNNNNN
Statistics
Matches: 858, Mismatches: 157, Indels: 88
0.78 0.14 0.08
Matches are distributed among these distances:
507 1 0.00
508 12 0.01
509 112 0.13
510 262 0.31
511 73 0.09
512 122 0.14
513 80 0.09
514 51 0.06
515 142 0.17
516 3 0.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (501 bp):
TAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGAGACTATAAATAGACTTTTCTT
GCAATGAATGCTTTTTCTTCATGTTTCTGAGGTAGACATTCAATTATAATATGTTTTAACCAAAA
AAGTAAAAATATTGAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTTATTAGG
CTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATCCTTTTTCTTCATGTTT
TATGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTAAACTTAAAATA
AATTATGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAGGAATGAGAGACTATAAA
TGACTTTTCTTCCAATAAATGGCTTTTTCTCATGTTTCCAAGGTAGACATTCAATTATAGTATGT
TTTAAAAAAATGTAAAAAATTTAACTTAAAATCAATTATAAAATTA
Found at i:88151 original size:21 final size:21
Alignment explanation
Indices: 88117--88156 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
88107 GAGAAACATG
*
88117 AAGAAAAAAGCATTCATAGGT
1 AAGAAAAAACCATTCATAGGT
* *
88138 AAGAAAAATCCATTTATAG
1 AAGAAAAAACCATTCATAG
88157 TCTCCCATTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (21 bp):
AAGAAAAAACCATTCATAGGT
Found at i:89627 original size:170 final size:171
Alignment explanation
Indices: 88648--89631 Score: 1022
Period size: 170 Copynumber: 5.8 Consensus size: 171
88638 NNNNNNNNNN
* * * * *
88648 TTTTAC-TTTTTTGGTTGAAACA-AACTATAATTGAATGCCTACCTCATGAAATATGAAGAAAAA
1 TTTTACATTTTTT-GTTAAAACAGATCTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAA
* * * ** *
88711 AGCATTAATTGACAAGAAAAGTCTATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTTGCA
65 AGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCACT
* * *
88776 TTAAATGGTTTTATACTGTCATAATTCATTTTATGTTGAATT
130 TTAAATGGTTTTATAATCTCATAATTCATTTTATGTTGATTT
* * * * * * **
88818 GTTTACATTTTTGGCTAAAACA-AACTGTAATTGAATGCCTACCTCATTAAACATGAAGAAAAAA
1 TTTTACATTTTTTGTTAAAACAGATCTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAA
* * *
88882 ACATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTGCTTCAAAAGCTTTATTACTCACTT
66 GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCACTT
* * * * * * *
88947 CAAATGGTTTTATGATCTCAAAATTGAGTTTAAGTTTAATTTTT
131 TAAATGGTTTTATAATCTCATAATTCATTTTATG-TTGA--TTT
* * *
88991 TTTTAC-TTTTTTGGTCAAAACAGAT-TATAATTGAATGTCTACATTAAGAAACGA-GAAGAAAA
1 TTTTACATTTTTT-GTTAAAACAGATCTATAATTGAATGTCTACCTCAAGAAAC-ATGAAGAAAA
* * * * * * * * * *
89053 AGGCATTCATTGGCCAGAAAAGTGCATCTATAGTCAT-CGATTTCTCCAAAGGCCCTATTACTAA
64 AAGCATTCATTGGCAAGAAAAGTCCATTTATAGTC-TCCCATTCCTTCAAAAGCCTTATTACTCA
* * * *
89117 CTTTAAATAGTTTTATAATCTCAAAATTGATTTTATGTTTAATTTT
128 CTTTAAATGGTTTTATAATCTCATAATTCATTTTATG-TTGA-TTT
* * * * **
89163 TTTTACATTTATGGCTAAAATAGAT-TATAATTGAATGTCTACCTCAAGAAACATGAAGAAAATG
1 TTTTACATTTTTTGTTAAAACAGATCTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAA
* * * * * *
89227 GCATTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAGTCTTATGACTCACTC
66 GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCACTT
* * * * *
89292 TAAATGGTTTTGTAATCTCATATTTAATTTTAAGTTGAATT
131 TAAATGGTTTTATAATCTCATAATTCATTTTATGTTGATTT
* * *
89333 TTTCATATTTTTAGTTAAAACAGA-CTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAA
1 TTTTACATTTTTTGTTAAAACAGATCTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAA
* *
89397 GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTCA-TCCTTTCGAAAA-CCTTATTACTCGC
66 GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCC-TTC-AAAAGCCTTATTACTCAC
* * *
89460 TTTAAATGGTTTTATAATGTCATAATTCATTTTGTGTTGCTTT
129 TTTAAATGGTTTTATAATCTCATAATTCATTTTATGTTGATTT
* * * *
89503 TTTTACCTTTTTTGTTAAAACA-ATCTATAATTGAATG-CTTACCTCATGAAAAAAGAAGAAAAA
1 TTTTACATTTTTTGTTAAAACAGATCTATAATTGAATGTC-TACCTCAAGAAACATGAAGAAAAA
* * * * *
89566 AGCATTCATCGGCAAGAAAAGTCGATTTATAGTGTCTCATTCCTTCAAAAGCTTTATTACTCACT
65 AGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCACT
89631 T
130 T
89632 CAANNNNNNN
Statistics
Matches: 675, Mismatches: 121, Indels: 36
0.81 0.15 0.04
Matches are distributed among these distances:
169 8 0.01
170 376 0.56
171 19 0.03
172 135 0.20
173 134 0.20
174 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (171 bp):
TTTTACATTTTTTGTTAAAACAGATCTATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAA
GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCACTT
TAAATGGTTTTATAATCTCATAATTCATTTTATGTTGATTT
Done.