Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403237.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_907.0, 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: 16454
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.25
Warning! 5044 characters in sequence are not A, C, G, or T
Found at i:1030 original size:172 final size:171
Alignment explanation
Indices: 678--1405 Score: 503
Period size: 172 Copynumber: 4.2 Consensus size: 171
668 NNNNNNNNNN
* * * * * * * *
678 ATAGTAACCCATACCTTCAAAAACCTTATTACTCACTGTAAACGGTTTTGTAATGC-CATAATTG
1 ATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAAT-CTCAAAATTT
* * * * * * * * *
742 ATTTTAAGTTGAATTATTTTTATATTTTTTGTT-AAACAGACAATAATTGAATGTCTATCATGAG
65 ATTTCAATTTGAATTCTTTGTACATTTTTGGTTAAAACAGACTAGAATTGAATGTCTA-CTTGAG
** * **********
806 AAATGTAAAGAAAAAGGCATTCANNNNNNNNNNAAGTCCATTT
129 AAACATGAAGAAAAAGGCATTCATTAGCAAGAAAAGTCCATTT
* * * * *
849 ATAGTCACCCATTCCTTCGAAAGCCTTATCACTCACTTTACATGGTTTTACAATCTCAAAATTGA
1 ATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTTA
* * *
914 TTTCAATTTGAATTCTTTGTGCATTTTTGGTTAAAATAGACTAGGATTGAATGTCTACGTTGAGA
66 TTTCAATTTGAATTCTTTGTACATTTTTGGTTAAAACAGACTAGAATTGAATGTCTAC-TTGAGA
* * * **
979 ATCATGAAGAAAAATGCATTCATTAGCTAGAAAAGTTTATTT
130 AACATGAAGAAAAAGGCATTCATTAGCAAGAAAAGTCCATTT
* * * * * ** * *
1021 ATGGTCACCCATACCTTCAAAAGTCGTATTATTTGCTTTAAATGGTTTTGTAATGC-CATAATTT
1 ATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAAT-CTCAAAATTT
* * * * * * * * *
1085 ATTTCAAGTTGAATT-TGTCTACATTTTTGTTTTAAACAGAGTATAATTGAATGTATACCTGAAG
65 ATTTCAATTTGAATTCTTTGTACATTTTTGGTTAAAACAGACTAGAATTGAATGTCTACTTG-AG
*
1149 AAACAT-ATAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTT
129 AAACATGA-AGAAAAAGGCATTCATTAGCAAGAAAAGTCCATTT
********** * ** *
1192 NNNNNNNNNNATTCCTTCAAAAGCCTTATTACTCATTTTAAATATTTTTATAATCTCTAAATTTA
1 ATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTTA
* * * *
1257 TTTAAATTTGAATTCTTTGTATATTTTTGGTTAAAAGAGACTAGAATTGAATGTCTACCTTGAAA
66 TTTCAATTTGAATTCTTTGTACATTTTTGGTTAAAACAGACTAGAATTGAATGTCTA-CTTGAGA
***********
1322 AACATGAAGAAAAANNNNNNNNNNGGCAAGAAAAGTCCATTT
130 AACATGAAGAAAAAGGCATTCATTAGCAAGAAAAGTCCATTT
* * * *
1364 ATAGTCACCCATACTTTCAAAAGCCCTATTACTGACTTTAAA
1 ATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAA
1406 CGATTTTGTA
Statistics
Matches: 415, Mismatches: 132, Indels: 19
0.73 0.23 0.03
Matches are distributed among these distances:
170 5 0.01
171 201 0.48
172 204 0.49
173 5 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.35
Consensus pattern (171 bp):
ATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCAAAATTTA
TTTCAATTTGAATTCTTTGTACATTTTTGGTTAAAACAGACTAGAATTGAATGTCTACTTGAGAA
ACATGAAGAAAAAGGCATTCATTAGCAAGAAAAGTCCATTT
Found at i:3612 original size:172 final size:170
Alignment explanation
Indices: 3315--5614 Score: 1277
Period size: 172 Copynumber: 13.4 Consensus size: 170
3305 NNNNNNNNNC
* ** * * * *
3315 TAGTCCGTTTTAACCAAAAATATAAAAAGAATTCAAATTTAAATCAATTTTGAAATTATAAAACT
1 TAGTCTGTTTTAACCAAAAATGCAAAAA-ATTTCAAATTAAAATCAATTTTGAGATTATAAAACC
* * * *
3380 ATTTAGAGTGAGTAATAAGGCTTTTGAAGGAATGGATGACTATAAATGGACGTCTCTTGCCAATG
65 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * *
3445 AATGCTCTCTTT-TTTATGTTTGTTAGGGTAGACGTTCAATTA
130 AATGCT-T-TTTCTTTATGTTTCTCATGGTAGACATTCAATTA
* * * * *
3487 TAATATGTTTTAACCAAAAAAGCAATAAAATTTGAACTTAAAATCAATTTTGAGATTATAAAACC
1 TAGTCTGTTTTAACCAAAAATGCAA-AAAATTTCAAATTAAAATCAATTTTGAGATTATAAAACC
* ** * *
3552 ATTTAAAGTGATTAATAAGGCTTTTTCAGCAATGGGTGACTATATAA-AGACTTTTCTTGCCAAT
65 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATA-AATGGACTTTTCTTGCCAAT
* * * *
3616 GAATACTTTTTTCTTCATATTTCTCATGGTAGACATTCAATTC
129 GAATGC-TTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
* * * *
3659 TAGTCTATTTTAACCAAAAATGTGC-AAAACTTTCAAATTTAAATGAATTTTGAGATTATAAAAC
1 TAGTCTGTTTTAACCAAAAA--TGCAAAAAATTTCAAATTAAAATCAATTTTGAGATTATAAAAC
* * *
3723 CATTTAAACTGAGTAATAAGGCTCTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAAA
64 CATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* ** * *
3788 GAATGTCTTTTTATTTACATTTATTGA-GGTAGACATTCAATTA
129 GAATG-CTTTTTCTTTATGTTT-CTCATGGTAGACATTCAATTA
* * * ** ** **
3831 TAGTCTGTTTTAACCAAAAGTGTAAAAACA-TTCAACTTAAAATCAATAATGCCATTGCAAAACC
1 TAGTCTGTTTTAACCAAAAATGCAAAAA-ATTTCAAATTAAAATCAATTTTGAGATTATAAAACC
* * * * *
3895 ATTTAAAGCGAGTAATATA-GCTTTTGAAGGTATGGGTGACTATAAATAGACATTTCTTGCCTAT
65 ATTTAAAGTGAGTAATA-AGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * *
3959 GAATGCTTTTT-TGTTCATGTTTCTCATGGTAAACATTGAATTC
129 GAATGCTTTTTCT-TT-ATGTTTCTCATGGTAGACATTCAATTA
* * ** *
4002 TAGTTTATTTTAATAAAAAATGTACAAAGAATTT-AAATGT-AAATCAATTTTGAGATTATAAAA
1 TAGTCTGTTTTAACCAAAAATG--CAAAAAATTTCAAAT-TAAAATCAATTTTGAGATTATAAAA
* * * * * * *
4065 ACGTTTAAAGTGAGTAATAAGGCTTCTGATGGAACGAGTGACTATAAATGCACTTTTCTTGCCAA
63 CCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAA
* * * * *
4130 TAAATGCATTTTTCTATATGTTTCTCAAGGTTGACATTCAGTTA
128 TGAATGC-TTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
* * * * * * *
4174 TAGTCTGTTTAAACCAAAAATGTAAAACATTT-AAGTTAAAATAAATTATG-GCATTACAAAACC
1 TAGTCTGTTTTAACCAAAAATGCAAAAAATTTCAAATTAAAATCAATTTTGAG-ATTATAAAACC
* * * * * * * *
4237 ATTTAAAGTGAATAATACGACTTTTGAAGGTATGGGTGACCATAAATGAACTTTTCTAGTCAATG
65 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * **
4302 AATGAATTTTTCTTCATGATTCTCAAGGTAGACATTCAATCC
130 AATG-CTTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
* * *
4344 TAGTCTATTTTAACCAAAAATGTACAAAGAAA--TCAAATTTAAATCAATTTTGAGATTGTAAAA
1 TAGTCTGTTTTAACCAAAAATG--CAAA-AAATTTCAAATTAAAATCAATTTTGAGATTATAAAA
*
4407 CCATTTAAAGTGAGTAATAAAG-TTTTGAAGGAATGGGTGACTATAAATGGACTTCTT-TTGCCA
63 CCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTT-TTCTTGCCA
* * * *
4470 ATAAATGTCTTTTTCTTTACGTTTCTTATGATAGACATTCAATTA
127 ATGAATG-CTTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
* ** * * * *
4515 TAGTCTG-TTTAACAAAAAATATAAAAAAAATTCAACTTAAAATCAATTATG-GCATTACAAAAC
1 TAGTCTGTTTTAACCAAAAAT-GCAAAAAATTTCAAATTAAAATCAATTTTGAG-ATTATAAAAC
* * * * *****
4578 CGTTTAGAGTGAGTAATAAGGCTTTTGAAGGTATGAGTGACTATAAATGGACTTTTNNNNNNNNN
64 CATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTT----CTTGC
**********************************************
4643 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
125 CAATGAATGCTTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
********************************************* *
4689 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATTTTGAGAATATAAAACCA
1 TAGTCTGTTTTAACCAAAAATGCAAAAAATTTCAAATTAAAATCAATTTTGAGATTATAAAACCA
* * * * ** * * *
4754 TTTCAAGTGATTAATTAGCCTTTTGAAGTTATAGGTGAATATAAATAGACTTTTCTTGCCAATGA
66 TTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGA
* * * * *
4819 TTACTTTTTCCTTCATGTTTCTCAAGGTAGACATTCAATTC
131 ATGCTTTTT-CTTTATGTTTCTCATGGTAGACATTCAATTA
* * * * ** *
4860 TAGTCTG-TTTAA-GAGAAAATGAAAAAAAAACTT-AACTTAAAATCAATTACG-GCATTACAAA
1 TAGTCTGTTTTAACCA-AAAATG--CAAAAAATTTCAAATTAAAATCAATTTTGAG-ATTATAAA
* * * * * *
4921 AGCATTTAAAGCGAGTAATAATGCTTTTAAAGGTATGGATGACTATAAATGGACTTTTCTTGCCA
62 ACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCA
* * * * * *
4986 ATTAATGCTTTTTTCTTCATGTTTGTCATGGTTGACATTTAATTC
127 ATGAATGC-TTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
* * * * * * * *
5031 TAGTCTGTTTTAAACAGAAATGTACAAAGACTTCATATTTAAATCAATTTTGAGATTATAAAAAC
1 TAGTCTGTTTTAACCAAAAATGCA-AAAAATTTCAAATTAAAATCAATTTTGAGATTATAAAACC
* ** *
5096 ATTTAAAGTGAGTAATAAGGCTTATGAAGGAATGGGTGACTATAAATAAATTTTTCTTGCCAATG
65 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * *
5161 AATGCCTTTTTATTTATGTTTATCGA-GGAAGACATTCAATTA
130 AATG-CTTTTTCTTTATGTTTCTC-ATGGTAGACATTCAATTA
* * * * * * *
5203 TAGTTTGTTTTAACCAAAAGTGTAAAAAAATTCAACTTAAAATCAATTATG-GCATTACAAAACC
1 TAGTCTGTTTTAACCAAAAATGCAAAAAATTTCAAATTAAAATCAATTTTGAG-ATTATAAAACC
* * * * * *
5267 ATTTAAAGCGAGTAATTAGGCTTTCGAAGGTATGGATGACTGTAAATGGACTTTTCTTGCCAATG
65 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * **
5332 AATACCTTTTTCTTCATGTTTCTAAAGGTAGACATTCAATCC
130 AAT-GCTTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
* * * * *
5374 TAGTCTGTTTTAACCAAAAATGTACAAAGAGTTCCAATTTAAATCAATTTTGAGATTATAAAACC
1 TAGTCTGTTTTAACCAAAAATGCA-AAAAATTTCAAATTAAAATCAATTTTGAGATTATAAAACC
* * * * *
5439 ATTTAAACTGAGTAATAAGACTCTTGAGGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATG
65 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * * **
5504 AATAC-TTTTCTTTTCATGATTCTGAAGGTA-ATCATTTAATCC
130 AATGCTTTTTC-TTT-ATGTTTCTCATGGTAGA-CATTCAATTA
* ** * *
5546 TATTCTGTTTTAACCAAAAATGTACAAGGAA-TTGAAATTTAAATCAATTTTGAGATTATAAAAC
1 TAGTCTGTTTTAACCAAAAATG--CAAAAAATTTCAAATTAAAATCAATTTTGAGATTATAAAAC
5610 CATTT
64 CATTT
5615 NNNNNNNNNN
Statistics
Matches: 1553, Mismatches: 509, Indels: 132
0.71 0.23 0.06
Matches are distributed among these distances:
168 3 0.00
169 7 0.00
170 211 0.14
171 482 0.31
172 754 0.49
173 33 0.02
174 62 0.04
175 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.35
Consensus pattern (170 bp):
TAGTCTGTTTTAACCAAAAATGCAAAAAATTTCAAATTAAAATCAATTTTGAGATTATAAAACCA
TTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGA
ATGCTTTTTCTTTATGTTTCTCATGGTAGACATTCAATTA
Found at i:5503 original size:343 final size:343
Alignment explanation
Indices: 3322--5614 Score: 1791
Period size: 343 Copynumber: 6.7 Consensus size: 343
3312 NNCTAGTCCG
* * * * *
3322 TTTTAACCAAAAATATAAAAAGAATTCAAATTTAAATCAATTTTGAAATTATAAAACTATTTAGA
1 TTTTAACCAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
* * * *
3387 GTGAGTAATAAGGCTTTTGAAGGAATGGATGACTATAAATGGACGTCTCTTGCCAATGAATGCTC
66 GTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGC-C
* * * * * * * * *
3452 TCTTT-TTTATGTTTGTTAGGGTAGACGTTCAATTATAATATGTTTTAACCAAAAAAGCAATAAA
130 TTTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA-AAA
* * * * * * **
3516 ATTTGAACTTAAAATCAATTTTGAG-ATTATAAAACCATTTAAAGTGATTAATAAGGCTTTTTCA
194 AATTCAACTTAAAATCAATTATG-GCATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
** * * *
3580 GCAATGGGTGACTATATAA-AGACTTTTCTTGCCAATGAATACTTTTTTCTTCATATTTCTCATG
258 GGTATGGATGACTATA-AATGGACTTTTCTTGCCAATGAATACTTTTTTCTTCATGTTTCTCATG
3644 GTAGACATTCAATTCTAGTCTA
322 GTAGACATTCAATTCTAGTCTA
* * *
3666 TTTTAACCAAAAATGTGCAAA-ACTTTCAAATTTAAATGAATTTTGAGATTATAAAACCATTTAA
1 TTTTAACCAAAAATGTACAAAGA-ATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAA
* * * * *
3730 ACTGAGTAATAAGGCTCTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAAAGAATGTC
65 AGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCC
* ** * ** * *
3795 TTTTTATTTACATTTATTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAGTGTAAAAAC
130 TTTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
* * *
3860 ATTCAACTTAAAATCAATAATGCCATTGCAAAACCATTTAAAGCGAGTAATATA-GCTTTTGAAG
195 ATTCAACTTAAAATCAATTATGGCATTACAAAACCATTTAAAGCGAGTAATA-AGGCTTTTGAAG
* * * * * *
3924 GTATGGGTGACTATAAATAGACATTTCTTGCCTATGAATGCTTTTTTGTTCATGTTTCTCATGGT
259 GTATGGATGACTATAAATGGACTTTTCTTGCCAATGAATACTTTTTTCTTCATGTTTCTCATGGT
* * *
3989 AAACATTGAATTCTAGTTTA
324 AGACATTCAATTCTAGTCTA
** * * * *
4009 TTTTAATAAAAAATGTACAAAGAATTTAAATGTAAATCAATTTTGAGATTATAAAAACGTTTAAA
1 TTTTAACCAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
* * * * * * *
4074 GTGAGTAATAAGGCTTCTGATGGAACGAGTGACTATAAATGCACTTTTCTTGCCAATAAATGCAT
66 GTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCCT
* * * * *
4139 TTTTCTATATGTTTCTCAAGGTTGACATTCAGTTATAGTCTGTTTAAACCAAAAATGT-AAAACA
131 TTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAA
* * * * * * *
4203 TTTAAGTTAAAATAAATTATGGCATTACAAAACCATTTAAAGTGAATAATACGACTTTTGAAGGT
196 TTCAACTTAAAATCAATTATGGCATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGT
* * * * * * * *
4268 ATGGGTGACCATAAATGAACTTTTCTAGTCAATGAATGA-ATTTTTCTTCATGATTCTCAAGGTA
261 ATGGATGACTATAAATGGACTTTTCTTGCCAATGAAT-ACTTTTTTCTTCATGTTTCTCATGGTA
*
4332 GACATTCAATCCTAGTCTA
325 GACATTCAATTCTAGTCTA
* *
4351 TTTTAACCAAAAATGTACAAAGAAATCAAATTTAAATCAATTTTGAGATTGTAAAACCATTTAAA
1 TTTTAACCAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
* * * *
4416 GTGAGTAATAAAG-TTTTGAAGGAATGGGTGACTATAAATGGACTTCTT-TTGCCAATAAATGTC
66 GTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTT-TTCTTGCCAATGAATGCC
* * * * * *
4479 TTTTTCTTTACGTTTCTTATGATAGACATTCAATTATAGTCTG-TTTAACAAAAAATATAAAAAA
130 TTTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAA
* * *
4543 AATTCAACTTAAAATCAATTATGGCATTACAAAACCGTTTAGAGTGAGTAATAAGGCTTTTGAAG
194 AATTCAACTTAAAATCAATTATGGCATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG
************************************
4608 GTAT-GAGTGACTATAAATGGACTTTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
259 GTATGGA-TGACTATAAATGGACTTTT--CTTGCCAATGAATACTTTTTTCTTCATGTTTCTCAT
***********************
4672 NNNNNNNNNNNNNNNNNNNNNNN
321 GGTAGACATTCAATTCTAGTCTA
*************************************** * *
4695 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATTTTGAGAATATAAAACCATTTCAA
1 TTTTAACCAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
* * * ** * * **
4760 GTGATTAATTAGCCTTTTGAAGTTATAGGTGAATATAAAT-AGACTTTTCTTGCCAATG-ATTAC
66 GTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGA-ACTTTTCTTGCCAATGAATGCC
* * * *
4823 TTTTTCCTTCATGTTTCTCAAGGTAGACATTCAATTCTAGTCTG-TTTAA-GAGAAAATGAAAAA
130 TTTTT-CTTTATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCA-AAAATG-TAAA
* * * *
4886 AAAACTT-AACTTAAAATCAATTACGGCATTACAAAAGCATTTAAAGCGAGTAATAATGCTTTTA
192 AAAA-TTCAACTTAAAATCAATTATGGCATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTG
* * *
4950 AAGGTATGGATGACTATAAATGGACTTTTCTTGCCAATTAATGCTTTTTTCTTCATGTTTGTCAT
256 AAGGTATGGATGACTATAAATGGACTTTTCTTGCCAATGAATACTTTTTTCTTCATGTTTCTCAT
* * *
5015 GGTTGACATTTAATTCTAGTCTG
321 GGTAGACATTCAATTCTAGTCTA
* * * * *
5038 TTTTAAACAGAAATGTACAAAGACTTCATATTTAAATCAATTTTGAGATTATAAAAACATTTAAA
1 TTTTAACCAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
* * *
5103 GTGAGTAATAAGGCTTATGAAGGAATGGGTGACTATAAATAAATTTTTCTTGCCAATGAATGCCT
66 GTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCCT
* * * * * *
5168 TTTTATTTATGTTTATCGAGGAAGACATTCAATTATAGTTTGTTTTAACCAAAAGTGTAAAAAAA
131 TTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAA
* *
5233 TTCAACTTAAAATCAATTATGGCATTACAAAACCATTTAAAGCGAGTAATTAGGCTTTCGAAGGT
196 TTCAACTTAAAATCAATTATGGCATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGT
* * * *
5298 ATGGATGACTGTAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATGTTTCTAAAGGTAG
261 ATGGATGACTATAAATGGACTTTTCTTGCCAATGAATACTTTTTTCTTCATGTTTCTCATGGTAG
* *
5363 ACATTCAATCCTAGTCTG
326 ACATTCAATTCTAGTCTA
* *
5381 TTTTAACCAAAAATGTACAAAGAGTTCCAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
1 TTTTAACCAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
* * * * *
5446 CTGAGTAATAAGACTCTTGAGGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAAT-AC-
66 GTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCCT
* * * ** *
5509 TTTTCTTTTCATGATTCTGAAGGTA-ATCATTTAATCCTATTCTGTTTTAACCAAAAATGTACAA
131 TTTTC-TTT-ATGTTTCTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAACCAAAAATGTA-AA
** * * * * *
5573 GGAATTGAAATTTAAATCAATTTTGAG-ATTATAAAACCATTT
192 AAAATTCAACTTAAAATCAATTATG-GCATTACAAAACCATTT
5615 NNNNNNNNNN
Statistics
Matches: 1473, Mismatches: 443, Indels: 66
0.74 0.22 0.03
Matches are distributed among these distances:
340 12 0.01
341 81 0.05
342 287 0.19
343 674 0.46
344 254 0.17
345 161 0.11
346 4 0.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.35
Consensus pattern (343 bp):
TTTTAACCAAAAATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAA
GTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCCT
TTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAA
TTCAACTTAAAATCAATTATGGCATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGT
ATGGATGACTATAAATGGACTTTTCTTGCCAATGAATACTTTTTTCTTCATGTTTCTCATGGTAG
ACATTCAATTCTAGTCTA
Found at i:7807 original size:172 final size:172
Alignment explanation
Indices: 7374--9633 Score: 2046
Period size: 172 Copynumber: 13.2 Consensus size: 172
7364 AAATTTGAAC
* * * *
7374 TTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGATTAATGAGGCTTTTGAAGCTATGGGT
1 TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
* * ** *
7439 GACTCTAAATAGACTTTTCTTGCCAATGAATAATGTTTTCTTCATGTTTCTCAAGGTAGACATTC
66 GACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTC
* * * * * *
7504 AATTATAGTCT-ATATAACAAAAAATATA-AAGAAAATTCAAC
131 AATTCTAGTCTGTTTTAACCAAAAATGTACAA-AAAATTCAAA
* * * * * *
7545 TTAAAATCAA-TTATG-GCATTACAAAATCGTTTAAAGTTAGTAATAAGGCTTTTGAAAGTATGA
1 TTAAAATCAATTTA-GAG-ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGG
* *
7608 GTGACTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTTTCAAGGTAGACAT
64 GTGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACAT
* * ** *
7673 TCAATTTTAGTCTCTTTTAACTGAAAATGTACAAAGAATTCAAA
129 TCAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * * *
7717 TTTAAATAAATTTAGGGATTATAAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGT
1 TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
* * ** *
7782 GACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTGT-ATATTTCTTGAGGTATACATT
66 GACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCT-TCATGTTTCTCAAGGTAGACATT
* * * * *
7846 CAATTATACTCTGTTTAAAACAAAAATGTA-GAAAAATTCAAA
130 CAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * * * * *
7888 TTGAAAT-AAATTATG-GCATTACAAAACCATTGAAAGTAAATAATACGACTTTTGAAGGTATGG
1 TTAAAATCAATTTA-GAG-ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGG
* * * * * * *
7951 GTGACCATAAATGAACTTTTCTAGCCAATGAATGCATTTTTCTTTATGATTCTCAATGTAGACAT
64 GTGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACAT
* * * * *
8016 TCAATCCTAGTCTATTTTAACCAAAAATGCACAAAGAGTTCAAA
129 TCAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * * * **
8060 TTGAAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTGATAAGGCTTTCGAAGGAATGAAT
1 TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
* * * * * * *
8125 GACTATAAATGGACTTCTCTTACTAATGAATACCTTTTTT-TT-ACGTTTCTCATGATAGACATT
66 GACTATAAATGGACTTTTCTTGCCAATGAAT-GCTTTTTTCTTCATGTTTCTCAAGGTAGACATT
* * * * *
8188 CAATTATTGTCTG-TTTAACAAAAAATATA-AAAAAATTCAAC
130 CAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * *
8229 TTAAAATCAA-TTATG-GCATTACAAAACCGTTTACAGTGAGTAATAAAGTTTTTGAAGGTATGG
1 TTAAAATCAATTTA-GAG-ATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGG
* * * * *
8292 GTTACTATAAATGGGCTTTTCTTGCCAATGAATACTTTATTCTTCATGTTTGTCAAGGTAGACAT
64 GTGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACAT
*
8357 TCAATTCTAGTCTGTTTTAACCAAAAATGTACAAAGAATTCAAA
129 TCAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * * * *
8401 TTTAAATCAATTTTGATATTATAAAAACATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAGGGGA
1 TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
* * * *
8466 GACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCCTAT-ATGTTTCTCTAGGTAAACATT
66 GACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCT-TCATGTTTCTCAAGGTAGACATT
* * * * * *
8530 CAATTATACTCTATTTAAACCAAAAATGTA-GAAAAATTCAAC
130 CAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * * * * *
8572 TTGAAAAATGAATTATAG-CATTACAAAACCATTTAAAGCGAATAATACGACTTTTAAAGGTATG
1 TT--AAAATCAATT-TAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATG
* * * * * *
8636 GGTGACCATAAATGAACTTTTCTTGCCTATGAATGCATTTTTCTTCATGATTCTCAACGTAGACA
63 GGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACA
* *
8701 TTCAATCCTAGTCTGTTTTAACCAAAAATGTACAAAGAATTCAAA
128 TTCAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * ** *
8746 TTTAAATCAATTTTGAGATTGTAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGCAATAGGT
1 TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
* * ** * * * * * * * ***
8811 GATTATAAATGGATTTTTCTTGTTAATGACTACTCTCTTCTTTATGTTTCTTAGGGTAGGTGTTC
66 GACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTC
* *** * * * *
8876 AATTGTAAAATGTTTTAACTAGAACA-G--CAAACAAATTTGAAC
131 AATTCTAGTCTGTTTTAACCA-AAAATGTACAAA-AAA-TTCAAA
* * * *
8918 TTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGATTAATGAGGCTTTTGAAGCTATGGGT
1 TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
* * * *
8983 GACTCTAAATAGACTTTTCTTGCCAATGAATACTGTTTTCTTCATGTTTCTCAAGGTAGACATTC
66 GACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTC
* * * * *
9048 AATTCTATTCTATTTTACCCAAAAATATATAAAAAAATT-AAA
131 AATTCTAGTCTGTTTTAACCAAAAATGTA-CAAAAAATTCAAA
* * * * * * *
9090 TTTAAATAAATTTTA-AGATTATAAAACCATTTAAATTGAGTAATAAGGCTATT-AAAGAATAGG
1 TTAAAATCAA-TTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGG
* * * * * * *
9153 CGTCTATAAATGGACTTTTATTACCAATGAAAGCCTTTTTCTTTATGTTTCT-AGAGGTA-ACTA
65 TGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCA-AGGTAGAC-A
* * * *
9216 TTCAATTATAGT-TTTTTTAACAAAAAATGT-CAAAAAAATTCAAC
128 TTCAATTCTAGTCTGTTTTAACCAAAAATGTAC-AAAAAATTCAAA
* * * ** * * *
9260 TTAAAATCAA-TTACGACATTACAAAACCATTTAAAGCGAGTAATAATACGTTTAAAGGTATGAG
1 TTAAAATCAATTTA-GAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGG
* * * * *
9324 TGACTATAAATGGACTTTTCTTGACAATAAATGCATTTTTCTTCATGATTCTCAAGATAGACATT
65 TGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATT
* * *
9389 CAATCCTAGTCTGTTTTAACCGAAAATGTACAAAGAATTCAAA
130 CAATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
* * * * *
9432 TTTAAATCAATTTTGAGATTATAAAACCATGTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGAT
1 TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
* * * * * * *
9497 GACTATAAATGGACTTCTCTTGCAAATGAATGCTCTATTTT-AT-ATGTTTTTTAGGGTAGACGT
66 GACTATAAATGGACTTTTCTTGCCAATGAATGCT-T-TTTTCTTCATGTTTCTCAAGGTAGACAT
* * * * * * *
9560 TCAATTATAATATGTTTTATCCAAAAAAG--CAATAAAATTTGAAC
129 TCAATTCTAGTCTGTTTTAACCAAAAATGTACAA-AAAA-TTCAAA
*
9604 TTAAAATCAATTTTGAGATTATAAAACCAT
1 TTAAAATCAATTTAGAGATTATAAAACCAT
9634 NNNNNNNNNN
Statistics
Matches: 1654, Mismatches: 382, Indels: 105
0.77 0.18 0.05
Matches are distributed among these distances:
168 12 0.01
169 92 0.06
170 115 0.07
171 437 0.26
172 817 0.49
173 158 0.10
174 20 0.01
175 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (172 bp):
TTAAAATCAATTTAGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGTATGGGT
GACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGACATTC
AATTCTAGTCTGTTTTAACCAAAAATGTACAAAAAATTCAAA
Found at i:7907 original size:343 final size:341
Alignment explanation
Indices: 7377--9568 Score: 2444
Period size: 343 Copynumber: 6.4 Consensus size: 341
7367 TTTGAACTTA
* * **
7377 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGATTAATGAGGCTTTTGAAGCTATGGGTGAC
1 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * ** * **
7442 TCTAAATAGACTTTTCTTGCCAATGAAT-AATGTTTTCTTCATGTTTCTCAAGGTAGACATTCAA
66 TATAAATGGACTTTTCTTGCCAATGAATGCCT-TTTTCTTTATGTTTCTTGAGGTAGACATTCAA
* * * *
7506 TTATAGTCTATATAACAAAAAATATAAAGAAAATTCAACTTAAAATCAATTATGGCATTACAAAA
130 TTATAGTCTGTTTAAAAAAAAATGTAAA-AAAATTCAACTTAAAATCAATTATGGCATTACAAAA
* * * * *
7571 TCGTTTAAAGTTAGTAATAAGGCTTTTGAAAGTATGAGTGACTATAAATAGACTTTTCTTGCCAA
194 CCATTTAAAGTGAGTAATAAGACTTTTGAAAGTATGGGTGACTATAAAT-GACTTTTCTTGCCAA
* * * ** * **
7636 TGAATGCTTTTTTCTTCATGTTTTTCAAGGTAGACATTCAATTTTAGTCTCTTTTAACTGAAAAT
258 TGAATGCATTTTTCTTCATGATTCTCAAGGTAGACATTCAATCCTAGTCTGTTTTAACCAAAAAT
7701 GTACAAAGAATTCAAATTT
323 GTACAAAGAATTCAAATTT
* * * * *
7720 AAATAAATTTAGGGATTATAAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
1 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * *
7785 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTGTATATTTCTTGAGGTATACATTCAAT
66 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTTATGTTTCTTGAGGTAGACATTCAAT
* * * * *
7850 TATACTCTGTTTAAAACAAAAATGTAGAAAAATTCAAATTGAAATAAATTATGGCATTACAAAAC
131 TATAGTCTGTTTAAAA-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGGCATTACAAAAC
* * * * * * *
7915 CATTGAAAGTAAATAATACGACTTTTGAAGGTATGGGTGACCATAAATGAACTTTTCTAGCCAAT
195 CATTTAAAGTGAGTAATAAGACTTTTGAAAGTATGGGTGACTATAAATG-ACTTTTCTTGCCAAT
* * *
7980 GAATGCATTTTTCTTTATGATTCTCAATGTAGACATTCAATCCTAGTCTATTTTAACCAAAAATG
259 GAATGCATTTTTCTTCATGATTCTCAAGGTAGACATTCAATCCTAGTCTGTTTTAACCAAAAATG
* * *
8045 CACAAAGAGTTCAAATTG
324 TACAAAGAATTCAAATTT
* * * **
8063 AAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTGATAAGGCTTTCGAAGGAATGAATGAC
1 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * * * *
8128 TATAAATGGACTTCTCTTACTAATGAATACCTTTTT-TTTACGTTTCTCATGA--TAGACATTCA
66 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTTATGTTTCT--TGAGGTAGACATTCA
* * *
8190 ATTATTGTCTGTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGGCATTACAAAA
129 ATTATAGTCTGTTTAAAAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGGCATTACAAAA
* * * * * *
8255 CCGTTTACAGTGAGTAATAA-AGTTTTTGAAGGTATGGGTTACTATAAATGGGCTTTTCTTGCCA
194 CCATTTAAAGTGAGTAATAAGA-CTTTTGAAAGTATGGGTGACTATAAAT-GACTTTTCTTGCCA
* * * *
8319 ATGAATAC-TTTATTCTTCATGTTTGTCAAGGTAGACATTCAATTCTAGTCTGTTTTAACCAAAA
257 ATGAATGCATTT-TTCTTCATGATTCTCAAGGTAGACATTCAATCCTAGTCTGTTTTAACCAAAA
8383 ATGTACAAAGAATTCAAATTT
321 ATGTACAAAGAATTCAAATTT
* * * *
8404 AAATCAATTTTGATATTATAAAAACATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAGGGGAGAC
1 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * *
8469 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCCTATATGTTTCTCT-AGGTAAACATTCAA
66 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTTATGTTTCT-TGAGGTAGACATTCAA
* * * * * *
8533 TTATACTCTATTTAAACCAAAAATGTAGAAAAATTCAACTTGAAAAATGAATTATAGCATTACAA
130 TTATAGTCTGTTTAAA-AAAAAATGTAAAAAAATTCAACTT--AAAATCAATTATGGCATTACAA
* * * *
8598 AACCATTTAAAGCGAATAATACGACTTTT-AAAGGTATGGGTGACCATAAATGAACTTTTCTTGC
192 AACCATTTAAAGTGAGTAATAAGACTTTTGAAA-GTATGGGTGACTATAAATG-ACTTTTCTTGC
* *
8662 CTATGAATGCATTTTTCTTCATGATTCTCAACGTAGACATTCAATCCTAGTCTGTTTTAACCAAA
255 CAATGAATGCATTTTTCTTCATGATTCTCAAGGTAGACATTCAATCCTAGTCTGTTTTAACCAAA
8727 AATGTACAAAGAATTCAAATTT
320 AATGTACAAAGAATTCAAATTT
* * * * *
8749 AAATCAATTTTGAGATTGTAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGCAATAGGTGAT
1 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* ** * * * ***
8814 TATAAATGGATTTTTCTTGTTAATGACT-ACTCTCTTCTTTATGTTTCTT-AGGGTAGGTGTTCA
66 TATAAATGGACTTTTCTTGCCAATGAATGCCT-TTTTCTTTATGTTTCTTGA-GGTAGACATTCA
* *** * * * * * * * *
8877 ATTGTAAAATGTTTTAACTAGAACA-GCAAACAAATTTGAACTTAAAATCAATTTTGAG-ATTAT
129 ATTATAGTCTG-TTTAA-AAAAAAATGTAAA-AAAATTCAACTTAAAATCAATTATG-GCATTAC
* * * *
8940 AAAACCATTTAAAGTGATTAATGAGGCTTTTG-AAGCTATGGGTGACTCTAAATAGACTTTTCTT
190 AAAACCATTTAAAGTGAGTAATAAGACTTTTGAAAG-TATGGGTGACTATAAAT-GACTTTTCTT
* * * * * *
9004 GCCAATGAATAC-TGTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTCTATTCTATTTTACCC
253 GCCAATGAATGCAT-TTTTCTTCATGATTCTCAAGGTAGACATTCAATCCTAGTCTGTTTTAACC
* * *
9068 AAAAATATATAAAAAAATT-AAATTT
317 AAAAATGTA-CAAAGAATTCAAATTT
* * * * * * * *
9093 AAATAAATTTTAAGATTATAAAACCATTTAAATTGAGTAATAAGGCTATT-AAAGAATAGGCGTC
1 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * * *
9157 TATAAATGGACTTTTATTACCAATGAAAGCCTTTTTCTTTATGTTTCTAGAGGTA-ACTATTCAA
66 TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTTATGTTTCTTGAGGTAGAC-ATTCAA
* * * * *
9221 TTATAGTTTTTTTAACAAAAAATGTCAAAAAAATTCAACTTAAAATCAATTACGACATTACAAAA
130 TTATAGTCTGTTTAAAAAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGGCATTACAAAA
* * * * *
9286 CCATTTAAAGCGAGTAATAATACGTTT-AAAGGTATGAGTGACTATAAATGGACTTTTCTTGACA
194 CCATTTAAAGTGAGTAATAAGACTTTTGAAA-GTATGGGTGACTATAAAT-GACTTTTCTTGCCA
* * *
9350 ATAAATGCATTTTTCTTCATGATTCTCAAGATAGACATTCAATCCTAGTCTGTTTTAACCGAAAA
257 ATGAATGCATTTTTCTTCATGATTCTCAAGGTAGACATTCAATCCTAGTCTGTTTTAACCAAAAA
9415 TGTACAAAGAATTCAAATTT
322 TGTACAAAGAATTCAAATTT
* *
9435 AAATCAATTTTGAGATTATAAAACCATGTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGATGAC
1 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
* * * * * *
9500 TATAAATGGACTTCTCTTGCAAATGAATGCTCTATTT-TATATGTTT-TTTAGGGTAGACGTTCA
66 TATAAATGGACTTTTCTTGCCAATGAATGC-CTTTTTCTTTATGTTTCTTGA-GGTAGACATTCA
9563 ATTATA
129 ATTATA
9569 ATATGTTTTA
Statistics
Matches: 1527, Mismatches: 279, Indels: 86
0.81 0.15 0.05
Matches are distributed among these distances:
340 5 0.00
341 261 0.17
342 261 0.17
343 507 0.33
344 208 0.14
345 263 0.17
346 22 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (341 bp):
AAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGAC
TATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTTTATGTTTCTTGAGGTAGACATTCAAT
TATAGTCTGTTTAAAAAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGGCATTACAAAACC
ATTTAAAGTGAGTAATAAGACTTTTGAAAGTATGGGTGACTATAAATGACTTTTCTTGCCAATGA
ATGCATTTTTCTTCATGATTCTCAAGGTAGACATTCAATCCTAGTCTGTTTTAACCAAAAATGTA
CAAAGAATTCAAATTT
Found at i:9282 original size:686 final size:676
Alignment explanation
Indices: 7377--9633 Score: 2723
Period size: 686 Copynumber: 3.3 Consensus size: 676
7367 TTTGAACTTA
* * * **
7377 AAATCAATTTTGAGATTATAAAACCATTTAAAGTGATTAATGAGGCTTTTGAAGCTATGGGTGAC
1 AAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* * * * * * * * *
7442 TCTAAATAGACTTTTCTTGCCAATGAATAATGT-TTTCTTCATGTTTCTCAAGGTAGACATTCAA
65 TATAAATGGACTTCTCTTGCTAATGAATACTCTATTT-TT-ATGTTTCTTAGGGTAGACGTTCAA
* * * * ** * *
7506 TTATAGTCT-ATATAACAAAAAATATAAAGAAAATTCAACTTAAAATCAATTATGGCATTACAAA
128 TTATAATATGTTTTAAC-AAAAA-GCAAA-AAATTTGAACTTAAAATCAATTATGGCATTACAAA
* * * *
7570 ATCGTTTAAAGTTAGTAATAAGGCTTTTGAAAGTATGAGTGACTATAAATAGACTTTTCTTGCCA
190 ACCATTTAAAGTGAGTAATAAGGCTTTTG-AAGTATGGGTGACTATAAATAGACTTTTCTTGCCA
* * * * **
7635 ATGAATGCTTTTTTCTTCATGTTTTTCAAGGTAGACATTCAATTTTAGTCTCTTTTAACTGAAAA
254 ATGAATAC-TTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTCTAGTCTATTTTAACCAAAAA
* *
7700 TGTACAAAGAATTCAAATTTAAATAAA-TTTAGGGATTATAAAAACATTTAAAGCGAGTAATAAG
318 TGTACAAAGAATTCAAATTTAAATAAATTTTA-AGATTATAAAAACATTTAAAGTGAGTAATAAG
* * *
7764 GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTGTATAT
382 GCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTATATGT
* * * * * *
7829 TTCTTGAGGTATACATTCAATTATACTCTGTTTAAAACAAAAATGTAGAAAAATTCAAATTGAAA
447 TTCTAGAGGTA-ACATTCAATTATACTTTTTTTAACA-AAAAATGTAGAAAAATTCAACTTAAAA
* * ** *
7894 TAAATTATGGCATTACAAAACCATTGAAAGTAAATAATACGACTTTTGAAGGTATGGGTGACCAT
510 TAAATTA-GACATTACAAAACCATTTAAAGCGAATAATACGACTTTTAAAGGTATGGGTGACCAT
* *
7959 AAATGAACTTTTCTAGCCAATGAATGCATTTTTCTTTATGATTCTCAATGTAGACATTCAATCCT
574 AAATGAACTTTTCTTGCCAATGAATGCATTTTTCTTCATGATTCTCAA-GTAGACATTCAATCCT
* * * *
8024 AGTCTATTTTAACCAAAAATGCACAAAGAGTTCAAATTG
638 AGTCTGTTTTAACCAAAAATGTACAAAGAATTCAAATTT
* * *
8063 AAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTGATAAGGCTTTCGAAGGAATGAATGAC
1 AAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATG-GTGAC
* * * * * * *
8128 TATAAATGGACTTCTCTTACTAATGAATAC-CTTTTTTTTACGTTTCTCATGATAGACATTCAAT
65 TATAAATGGACTTCTCTTGCTAATGAATACTC-TATTTTTATGTTTCTTAGGGTAGACGTTCAAT
** * ** * *
8192 TATTGTCTG-TTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGGCATTACAAAAC
129 TATAATATGTTTTAAC-AAAAA-GCAAAAAATTTGAACTTAAAATCAATTATGGCATTACAAAAC
* * * * * * *
8256 CGTTTACAGTGAGTAATAAAGTTTTTGAAGGTATGGGTTACTATAAATGGGCTTTTCTTGCCAAT
192 CATTTAAAGTGAGTAATAAGGCTTTTGAA-GTATGGGTGACTATAAATAGACTTTTCTTGCCAAT
* *
8321 GAATACTTTATTCTTCATGTTTGTCAAGGTAGACATTCAATTCTAGTCTGTTTTAACCAAAAATG
256 GAATACTTT-TTCTTCATGTTTCTCAAGGTAGACATTCAATTCTAGTCTATTTTAACCAAAAATG
* * *
8386 TACAAAGAATTCAAATTTAAATCAATTTTGATATTATAAAAACATTTAAAGTGAGTAATAAGGCT
320 TACAAAGAATTCAAATTTAAATAAATTTTAAGATTATAAAAACATTTAAAGTGAGTAATAAGGCT
* *
8451 TTTGAAGGAAGGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTCCTATATGTTTC
385 TTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTATATGTTTC
** * * *
8516 TCTAGGTAAACATTCAATTATACTCTATTTAAACCAAAAATGTAGAAAAATTCAACTTGAAAAAT
450 TAGAGGT-AACATTCAATTATACT-TTTTTTAACAAAAAATGTAGAAAAATTCAACTT--AAAAT
* *
8581 GAATTATAGCATTACAAAACCATTTAAAGCGAATAATACGACTTTTAAAGGTATGGGTGACCATA
511 AAATTAGA-CATTACAAAACCATTTAAAGCGAATAATACGACTTTTAAAGGTATGGGTGACCATA
*
8646 AATGAACTTTTCTTGCCTATGAATGCATTTTTCTTCATGATTCTCAACGTAGACATTCAATCCTA
575 AATGAACTTTTCTTGCCAATGAATGCATTTTTCTTCATGATTCTCAA-GTAGACATTCAATCCTA
8711 GTCTGTTTTAACCAAAAATGTACAAAGAATTCAAATTT
639 GTCTGTTTTAACCAAAAATGTACAAAGAATTCAAATTT
* * *
8749 AAATCAATTTTGAGATTGTAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGCAATAGGTGAT
1 AAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAAT-GGTGAC
* * * * * **
8814 TATAAATGGATTTTTCTTGTTAATGACTACTCTCTTCTTTATGTTTCTTAGGGTAGGTGTTCAAT
65 TATAAATGGACTTCTCTTGCTAATGAATACTCTATT-TTTATGTTTCTTAGGGTAGACGTTCAAT
* * * * *
8879 TGTAAAATGTTTTAACTAGAACAGCAAACAAATTTGAACTTAAAATCAATTTTGAG-ATTATAAA
129 TATAATATGTTTTAAC-A-AAAAGCAAA-AAATTTGAACTTAAAATCAATTATG-GCATTACAAA
* * *
8943 ACCATTTAAAGTGATTAATGAGGCTTTTGAAGCTATGGGTGACTCTAAATAGACTTTTCTTGCCA
190 ACCATTTAAAGTGAGTAATAAGGCTTTTGAAG-TATGGGTGACTATAAATAGACTTTTCTTGCCA
* *
9008 ATGAATACTGTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTCTATTCTATTTTACCCAAAAA
254 ATGAATACT-TTTTCTTCATGTTTCTCAAGGTAGACATTCAATTCTAGTCTATTTTAACCAAAAA
* * * * *
9073 TATATAAAAAAATT-AAATTTAAATAAATTTTAAGATTATAAAACCATTTAAATTGAGTAATAAG
318 TGTA-CAAAGAATTCAAATTTAAATAAATTTTAAGATTATAAAAACATTTAAAGTGAGTAATAAG
* * * * * * * * *
9137 GCTATT-AAAGAATAGGCGTCTATAAATGGACTTTTATTACCAATGAAAGCCTTTTTCTTTATGT
382 GCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTATATGT
* *
9201 TTCTAGAGGTAACTATTCAATTATAGTTTTTTTAACAAAAAATGTCAAAAAAATTCAACTTAAAA
447 TTCTAGAGGTAAC-ATTCAATTATACTTTTTTTAACAAAAAATGT-AGAAAAATTCAACTTAAAA
* * ** * * *
9266 TCAATTACGACATTACAAAACCATTTAAAGCGAGTAATAATACGTTTAAAGGTATGAGTGACTAT
510 TAAATTA-GACATTACAAAACCATTTAAAGCGAATAATACGACTTTTAAAGGTATGGGTGACCAT
* * *
9331 AAATGGACTTTTCTTGACAATAAATGCATTTTTCTTCATGATTCTCAAGATAGACATTCAATCCT
574 AAATGAACTTTTCTTGCCAATGAATGCATTTTTCTTCATGATTCTCAAG-TAGACATTCAATCCT
*
9396 AGTCTGTTTTAACCGAAAATGTACAAAGAATTCAAATTT
638 AGTCTGTTTTAACCAAAAATGTACAAAGAATTCAAATTT
* *
9435 AAATCAATTTTGAGATTATAAAACCATGTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGATGAC
1 AAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGG-TGAC
* * *
9500 TATAAATGGACTTCTCTTGCAAATGAATGCTCTATTTTATATGTTTTTTAGGGTAGACGTTCAAT
65 TATAAATGGACTTCTCTTGCTAATGAATACTCTATTTT-TATGTTTCTTAGGGTAGACGTTCAAT
* * *
9565 TATAATATGTTTTATCCAAAAAAGCAATAAAATTTGAACTTAAAATCAATTTTGAG-ATTATAAA
129 TATAATATGTTTTA-AC-AAAAAGCAA-AAAATTTGAACTTAAAATCAATTATG-GCATTACAAA
9629 ACCAT
190 ACCAT
9634 NNNNNNNNNN
Statistics
Matches: 1366, Mismatches: 175, Indels: 60
0.85 0.11 0.04
Matches are distributed among these distances:
683 5 0.00
684 303 0.22
685 60 0.04
686 647 0.47
687 52 0.04
688 93 0.07
689 196 0.14
690 10 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (676 bp):
AAATCAATTTTGAGATTGTAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGTGACT
ATAAATGGACTTCTCTTGCTAATGAATACTCTATTTTTATGTTTCTTAGGGTAGACGTTCAATTA
TAATATGTTTTAACAAAAAGCAAAAAATTTGAACTTAAAATCAATTATGGCATTACAAAACCATT
TAAAGTGAGTAATAAGGCTTTTGAAGTATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATA
CTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTCTAGTCTATTTTAACCAAAAATGTACAAA
GAATTCAAATTTAAATAAATTTTAAGATTATAAAAACATTTAAAGTGAGTAATAAGGCTTTTGAA
GGAATGGGAGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTATATGTTTCTAGAGG
TAACATTCAATTATACTTTTTTTAACAAAAAATGTAGAAAAATTCAACTTAAAATAAATTAGACA
TTACAAAACCATTTAAAGCGAATAATACGACTTTTAAAGGTATGGGTGACCATAAATGAACTTTT
CTTGCCAATGAATGCATTTTTCTTCATGATTCTCAAGTAGACATTCAATCCTAGTCTGTTTTAAC
CAAAAATGTACAAAGAATTCAAATTT
Found at i:9348 original size:21 final size:21
Alignment explanation
Indices: 9324--9366 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9314 AAGGTATGAG
* *
9324 TGACTATAAATGGACTTTTCT
1 TGACAATAAATGCACTTTTCT
*
9345 TGACAATAAATGCATTTTTCT
1 TGACAATAAATGCACTTTTCT
9366 T
1 T
9367 CATGATTCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (21 bp):
TGACAATAAATGCACTTTTCT
Found at i:11155 original size:344 final size:343
Alignment explanation
Indices: 10411--11264 Score: 904
Period size: 344 Copynumber: 2.5 Consensus size: 343
10401 NNNNNNNNNN
* * *
10411 AATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTTAAAATAGGCTAGAATTAAATGTCTACC
1 AATTGATTTAAATTTGAATTCTTTGTACATTTTTTGTTAAAATAGACTAGAATTGAATGTCTACC
* * * * * *
10476 TTAAGAATCAT-AAG-GAAAAATGCATTTATTGTCAAGAAAAGTCCATTTATAGTCACCCATACC
66 TTGAGAATCATGAAGAGAAAACT--ATTCATTGGCAAGAAAAGTCCATTTAGAATCACCCATACC
* * * * * * ** * *
10539 TTCAAAAGCATTATTACTCGCTTTAACTGGTTTTGTAATGTCGTAATTGATTTTAAATTTAATTT
129 TTCAAAAGCATCATTAATCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAATTCAAATT
* * * *
10604 TTTTTACATTTTTTGTTAAAAAAACTATAATTGAATGTTCACCCCTAGAAACATAAAGAAAAAGG
194 TGTTTACATTTCTGGTTAAAAAAACTACAATTGAATGTTCACCCCTAGAAACATAAAGAAAAAGG
* * * * ** * * *
10669 CATTCATTGGCAATAAAAGTCTATTTATAGTTGCCCATTCCTTTAAGAGCCTTATTACTCAGTTG
259 CACTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTG
*
10734 AAATAGTTTTATAATCTCAA
324 AAATAGTTTTACAATCTCAA
* * * *
10754 AATTTATTTAAATTT-AATT-TTTTTATATATTTTTGGGTAAAATAGGA-TAGAATTGAATGTCT
1 AATTGATTTAAATTTGAATTCTTTGTACAT-TTTTT-GTTAAAATA-GACTAGAATTGAATGTCT
* * * * **
10816 ACCATGAGAAACATGAAGAGAAAACTATTCATTGGCAAGAAAAGTCTATTTAGAATTACCCATTG
63 ACCTTGAGAATCATGAAGAGAAAACTATTCATTGGCAAGAAAAGTCCATTTAGAATCACCCATAC
* *
10881 CTTCAAAAGCCTCATTAATCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTCAAAT
128 CTTCAAAAGCATCATTAATCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAATTCAAAT
* * *
10946 TTGTTTGC-TGTTCTGGTTAAAACATATTACAATTGAATG-TCTA-CCCTAAGAAACATAAAG-A
193 TTGTTTACAT-TTCTGGTTAAAA-AAACTACAATTGAATGTTC-ACCCCT-AGAAACATAAAGAA
* * * * *
11007 AGAGAGTACTCATTAGCAAGAGAAGTCCATTTATAGTCACTCATTGCTTCAAAAGCCTTATTACT
254 AAAG-GCACTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACT
*
11072 CACTTTAAATAGTTTTACAATCTCAA
318 CACTTGAAATAGTTTTACAATCTCAA
* * *
11098 AATTGATTTAAATTTGAATTCTTTGTACATTTTTTGTTCAAACAGACTAGGATTGAATGTCTACC
1 AATTGATTTAAATTTGAATTCTTTGTACATTTTTTGTTAAAATAGACTAGAATTGAATGTCTACC
* * * **
11163 TTGAGAATCATGAAGAAAAATAC-ATTCATTGGCAAGAAAAGTTCATTTATG-GTCACCCATAAT
66 TTGAGAATCATGAAGAGAAA-ACTATTCATTGGCAAGAAAAGTCCATTTA-GAATCACCCATACC
* * * * *
11226 TTCAAAAGTCGT-ATTATTCGCTTTAAGTGGTTTTGTAAT
129 TTCAAAAG-CATCATTAATCACTTTAAATGGTTTTATAAT
11265 GCCATAATTC
Statistics
Matches: 419, Mismatches: 76, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
341 7 0.02
342 9 0.02
343 159 0.38
344 217 0.52
345 20 0.05
346 7 0.02
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (343 bp):
AATTGATTTAAATTTGAATTCTTTGTACATTTTTTGTTAAAATAGACTAGAATTGAATGTCTACC
TTGAGAATCATGAAGAGAAAACTATTCATTGGCAAGAAAAGTCCATTTAGAATCACCCATACCTT
CAAAAGCATCATTAATCACTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAATTCAAATTTG
TTTACATTTCTGGTTAAAAAAACTACAATTGAATGTTCACCCCTAGAAACATAAAGAAAAAGGCA
CTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTGAA
ATAGTTTTACAATCTCAA
Found at i:11232 original size:172 final size:170
Alignment explanation
Indices: 10411--11251 Score: 723
Period size: 172 Copynumber: 4.9 Consensus size: 170
10401 NNNNNNNNNN
* * * *
10411 AATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTTAAAATAGGCTAGAATTAAATGTCTACC
1 AATTGATTTAAATTT-AATT-TTTGTACATTTTTTGTTAAAACAGACTAGAATTGAATGTCTACC
* * * * * * *
10476 TTAAGAATCATAAGGAAAAATGCATTTATTGTCAAGAAAAGTCCATTTATAGTCACCCATACCTT
64 CTAAGAAACATAAAGAAAAATACATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATACCTT
* * * * * * **
10541 CAAAAGCATTATTACTCGCTTTAACTGGTTTTGTAATGTCGT
129 CAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAA
* * *
10583 AATTGATTTTAAATTTAATTTTTTTTACATTTTTTGTTAAAA-AAACTATAATTGAATGT-TCAC
1 AATTGA-TTTAAATTTAA-TTTTTGTACATTTTTTGTTAAAACAGACTAGAATTGAATGTCT-A-
** * ** *
10646 CCCT-AGAAACATAAAGAAAAAGGCATTCATTGGCAATAAAAG-TCTATTTATAGTTGCCCATTC
62 CCCTAAGAAACATAAAGAAAAATACATTCATTGGCAAGAAAAGTTC-ATTTATAGTCACCCATAC
* * * *
10709 CTTTAAGAGCCTTATTACTCAGTTGAAATAGTTTTATAATCTCAA
126 CTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAA
* * * * *
10754 AATTTATTTAAATTTAATTTTTTTATATATTTTTGGGTAAAATAGGA-TAGAATTGAATGTCTAC
1 AATTGATTTAAATTTAATTTTTGTACAT-TTTTT-GTTAAAACA-GACTAGAATTGAATGTCTAC
* * * * * * * **
10818 CATGAGAAACATGAAGAGAAA-ACTATTCATTGGCAAGAAAAG-TCTATTTAGAATTACCCATTG
63 CCTAAGAAACATAAAGAAAAATAC-ATTCATTGGCAAGAAAAGTTC-ATTTATAGTCACCCATAC
* * *
10881 CTTCAAAAGCCTCATTAATCACTTTAAATGGTTTTATAATCTCAA
126 CTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAA
* * * * * * * *
10926 AATTGATTTTAAGTTCAAATTTGTT-TGC-TGTTCTGGTTAAAACATATTACAATTGAATGTCTA
1 AATTGA-TTTAAATT-TAATTT-TTGTACAT-TTTTTGTTAAAACAGACTAGAATTGAATGTCTA
* * * * * *
10989 CCCTAAGAAACATAAAGAAGAGAGTAC--TCATTAGCAAGAGAAGTCCATTTATAGTCACTCATT
62 CCCTAAGAAACATAAAGAA-A-AATACATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATA
* *
11052 GCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTACAATCTCAA
125 CCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAA
* *
11098 AATTGATTTAAATTTGAATTCTTTGTACATTTTTTGTTCAAACAGACTAGGATTGAATGTCTACC
1 AATTGATTTAAATTT-AATT-TTTGTACATTTTTTGTTAAAACAGACTAGAATTGAATGTCTACC
* * * * * **
11163 TTGAGAATCATGAAGAAAAATACATTCATTGGCAAGAAAAGTTCATTTATGGTCACCCATAATTT
64 CTAAGAAACATAAAGAAAAATACATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATACCTT
* * * *
11228 CAAAAGTCGTATTATTCGCTTTAA
129 CAAAAGCCTTATTACTCACTTTAA
11252 GTGGTTTTGT
Statistics
Matches: 538, Mismatches: 105, Indels: 52
0.77 0.15 0.07
Matches are distributed among these distances:
169 10 0.02
170 22 0.04
171 124 0.23
172 344 0.64
173 27 0.05
174 7 0.01
175 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (170 bp):
AATTGATTTAAATTTAATTTTTGTACATTTTTTGTTAAAACAGACTAGAATTGAATGTCTACCCT
AAGAAACATAAAGAAAAATACATTCATTGGCAAGAAAAGTTCATTTATAGTCACCCATACCTTCA
AAAGCCTTATTACTCACTTTAAATAGTTTTATAATCTCAA
Found at i:13696 original size:172 final size:170
Alignment explanation
Indices: 13228--13723 Score: 440
Period size: 172 Copynumber: 2.9 Consensus size: 170
13218 GTCTTTTTAT
* * * * * ** *** * *
13228 TGAATGTCTACCTTAAAAAACATGAAGTAAAAA-GTATTCATTGGCAAGAAAAGTCTTTTTGTTG
1 TGAATGTCTACATTGAGAAACATAAAG-AAAAAGGCATTCATTGATAAGAAAAGTCCAGTTATAG
* ** * *
13292 TCAACCATACCTTCAAAAGCATTATTACTTGCTTTAAATAGTTTTATAATGCCATAATTGATTTT
65 TCACCCATACCTTCAAAAGCATTA-TACTCACTTTAAATGGTTTTATAATGTCATAATTGATTTT
* * * **
13357 ACTCTGAATTTTTTTACAATTTTGGTTAAAACAGACTTTAAC
129 AATTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAGAAC
*
13399 TGAATGTCTACATTGAGAAACATAAAGAAAAAGGCATTCATTGGTAAGAAAAGTCCAGTTATAGT
1 TGAATGTCTACATTGAGAAACATAAAGAAAAAGGCATTCATTGATAAGAAAAGTCCAGTTATAGT
* * * * * * * * * * *
13464 GACGCATTCCTTCAAGAGCCTATT-TACTCAGTTGAAAAGATTTTATAATCTCAAAATTGATTTA
66 CACCCATACCTTCAAAAG-C-ATTATACTCACTTTAAATGGTTTTATAATGTCATAATTGATTTT
* * * *
13528 AATTTGAATTCTTTGTACATTTTTGGTTAAAATAGGCTAGAAT
129 AATTTGAATT-TTTTTACATTTTTGGTTAAAACAGACTAGAAC
* * * * * * * *
13571 TGAATGTCTACCTTGAGAATCATGAAGAAAAATGCATTTATT-ATCAATAAAAGTTCATTTATAG
1 TGAATGTCTACATTGAGAAACATAAAGAAAAAGGCATTCATTGAT-AAGAAAAGTCCAGTTATAG
* * *
13635 TCACCCATACCTTCAAAAGCATTAATACTCACTTTAAATGGCTTTGTAATGTCGTAATTGATTTT
65 TCACCCATACCTTCAAAAGCATT-ATACTCACTTTAAATGGTTTTATAATGTCATAATTGATTTT
* *
13700 AACTTGAATTTTTTTTATATTTTT
129 AATTTGAA-TTTTTTTACATTTTT
13724 TATTAAAAGT
Statistics
Matches: 255, Mismatches: 62, Indels: 15
0.77 0.19 0.05
Matches are distributed among these distances:
170 8 0.03
171 100 0.39
172 142 0.56
173 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (170 bp):
TGAATGTCTACATTGAGAAACATAAAGAAAAAGGCATTCATTGATAAGAAAAGTCCAGTTATAGT
CACCCATACCTTCAAAAGCATTATACTCACTTTAAATGGTTTTATAATGTCATAATTGATTTTAA
TTTGAATTTTTTTACATTTTTGGTTAAAACAGACTAGAAC
Found at i:13773 original size:109 final size:109
Alignment explanation
Indices: 13618--13832 Score: 279
Period size: 109 Copynumber: 2.0 Consensus size: 109
13608 TTATTATCAA
* *
13618 TAAAAGTTCATTTATAGTCACCCATACCTTCAAAAGCATTAATACTCACTTTAAATGGCTTTGTA
1 TAAAAGTTCATTTATAGTCACCCATACCTTCAAAAGCACTAATACTCACTTTAAATGGCTTTATA
* ** *
13683 ATGTCGTAATTGATTTTAACTTGAATTTTTTT-TATATTTTTTAT
66 ATCTCAAAATTGA-TTTAAATTGAATTTTTTTATATATTTTTTAT
* * * * * * *
13727 TAAAAGTTCATTTATAGTCACCCATTCCTTTAAGAGCCCTATTACTCAGTTTAAATGGTTTTATA
1 TAAAAGTTCATTTATAGTCACCCATACCTTCAAAAGCACTAATACTCACTTTAAATGGCTTTATA
* *
13792 ATCTCAAAATTTATTTAAATTTAATTTTTTTATATATTTTT
66 ATCTCAAAATTGATTTAAATTGAATTTTTTTATATATTTTT
13833 GGATAAAATA
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
108 16 0.18
109 74 0.82
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (109 bp):
TAAAAGTTCATTTATAGTCACCCATACCTTCAAAAGCACTAATACTCACTTTAAATGGCTTTATA
ATCTCAAAATTGATTTAAATTGAATTTTTTTATATATTTTTTAT
Found at i:13964 original size:281 final size:281
Alignment explanation
Indices: 13447--14011 Score: 778
Period size: 281 Copynumber: 2.0 Consensus size: 281
13437 CATTGGTAAG
* *
13447 AAAAGTCCAGTTATAGTGACGCATTCCTTCAAGAGCCTATTTACTCAGTTGAAAAGATTTTATAA
1 AAAAGTCCAGTTATAGTCACCCATTCCTTCAAGAGCCTATTTACTCAGTTGAAAAGATTTTATAA
* * **
13512 TCTCAAAATTGATTTAAATTTGAATTCTTTGTACATTTTTGGTTAAAATAGGCTAGAATTGAATG
66 TCTCAAAATTGATTTAAATTTGAATTCTTTATACATTTTTGGATAAAATAGAATAGAATTGAATG
* * * * * *
13577 TCTACCTTGAGAATCATGAAGAAAAATGCATTTATTATCAATAAAAGTTCATTTATAGTCACCCA
131 TCTACCATGAGAAACATGAAGAAAAATGCATTCATTAGCAAGAAAAGTTCATTTAGAGTCACCCA
* * *
13642 TACCTTCAAAAGCATTAATACTCACTTTAAATGGCTTTGTAATGTCGTAATTGATTTTAACTTGA
196 TACCTTCAAAAGCATTAATACTCACTTTAAACGGCTTTGTAATGCCATAATTGATTTTAACTTGA
*
13707 ATTTTTTTTATATTTTTTATT
261 ATGTTTTTTATATTTTTTATT
* * * * * *
13728 AAAAGTTCATTTATAGTCACCCATTCCTTTAAGAGCCCTA-TTACTCAGTTTAAATGGTTTTATA
1 AAAAGTCCAGTTATAGTCACCCATTCCTTCAAGAG-CCTATTTACTCAGTTGAAAAGATTTTATA
* * *
13792 ATCTCAAAATTTATTTAAATTT-AATTTTTTTATATATTTTTGGATAAAATAGAATAGAATTGAA
65 ATCTCAAAATTGATTTAAATTTGAA-TTCTTTATACATTTTTGGATAAAATAGAATAGAATTGAA
* *
13856 TGTCTACCATGAGAAACATGAAGAAAACA-GTATTCATTGGCAAGAAAAG-TCTATTTAGAGTCA
129 TGTCTACCATGAGAAACATGAAGAAAA-ATGCATTCATTAGCAAGAAAAGTTC-ATTTAGAGTCA
* * * *
13919 CCCATACCTTCAAAAGCCTTATTACTCACTTTAAACGGTTTTGTAATGCCATAATTGATTTTAAG
192 CCCATACCTTCAAAAGCATTAATACTCACTTTAAACGGCTTTGTAATGCCATAATTGATTTTAAC
*
13984 TTGAATGTTTTTTATATTTTTTGTT
257 TTGAATGTTTTTTATATTTTTTATT
14009 AAA
1 AAA
14012 CAGACTATAA
Statistics
Matches: 248, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
280 4 0.02
281 239 0.96
282 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (281 bp):
AAAAGTCCAGTTATAGTCACCCATTCCTTCAAGAGCCTATTTACTCAGTTGAAAAGATTTTATAA
TCTCAAAATTGATTTAAATTTGAATTCTTTATACATTTTTGGATAAAATAGAATAGAATTGAATG
TCTACCATGAGAAACATGAAGAAAAATGCATTCATTAGCAAGAAAAGTTCATTTAGAGTCACCCA
TACCTTCAAAAGCATTAATACTCACTTTAAACGGCTTTGTAATGCCATAATTGATTTTAACTTGA
ATGTTTTTTATATTTTTTATT
Found at i:14053 original size:171 final size:170
Alignment explanation
Indices: 13728--14638 Score: 941
Period size: 171 Copynumber: 5.3 Consensus size: 170
13718 ATTTTTTATT
* * * * *
13728 AAAAGT-TCATTTATAGTCACCCATTCCTTTAAGAGCCCTATTACTCAGTTTAAATGGTTTTATA
1 AAAAGTCT-ATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATA
* * * * * *
13792 ATCTCAAAATTTATTTAAATTT-AATTTTTTTATATATTTTTGGATAAAATAGAATAGAATTGAA
65 ATCTCATAATTGATTTTAATTTGAATTTTTTTACAT-TTTTT-G-TTAAATAGACTAGAATTGAA
* *
13856 TGTCTACCATGAGAAACATGAAGAAAACA-GTATTCATTGGCAAG
127 TGTCTACCTTGAGAAACATGAAGAAAA-AGGCATTCATTGGCAAG
* * *
13900 AAAAGTCTATTTAGAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAACGGTTTTGTAA
1 AAAAGTCTATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
* * * *
13965 TGC-CATAATTGATTTTAAGTTGAATGTTTTTTATATTTTTTGTTAAACAGACTATAATTGAATG
66 T-CTCATAATTGATTTTAATTTGAAT-TTTTTTACATTTTTTGTTAAATAGACTAGAATTGAATG
* * * * *
14029 TCTATCATGAGAAACGTAAAGAAAAAGGCATTCATTGACAAG
129 TCTACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAG
* * * * *
14071 AGAAGTCCATTTATAGTCACCCATTCCTTCAAAA-CTTTATTACTCACTTTAAATGGTTTTACAA
1 AAAAGTCTATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
* * * *
14135 TCTCAAAATTGATTTAAATTTG-ATTTCTTTGTACATTTTTGGTTATAATAGACTAGGATTGAAT
66 TCTCATAATTGATTTTAATTTGAATTT-TTT-TACATTTTTTGTTA-AATAGACTAGAATTGAAT
* * * * *
14199 GTCTACCTTTAGAATCATGAAGAAAAATGCATTCATTGACTAG
128 GTCTACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAG
* * * * *
14242 AAAAGT-TCATTTAT-GATCACCCATACCTTCAAAAGTCGTATTATTCACTTTAAATAGTTTTGT
1 AAAAGTCT-ATTTATAG-TCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTAT
* * * * * * *
14305 AATGC-CATAATTTATTTTAACTTAAATTTTTTTACATTTTTGGTTTAAACAGACTATAATTAAA
64 AAT-CTCATAATTGATTTTAATTTGAATTTTTTTACATTTTTTG-TTAAATAGACTAGAATTGAA
* *
14369 TGTCTACCTTGATAAACGT-ATAGAAAAAGGCATTCATT-GCTAAG
127 TGTCTACCTTGAGAAACATGA-AGAAAAAGGCATTCATTGGC-AAG
* * * * *
14413 AAAAGTGC-ATTTATAGTCACCCGTTCCATCAAAAGCCTTCTTACTCACTTTAAATGTTTTTATA
1 AAAAGT-CTATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATA
* * * *
14477 ATCTC-TAAATTGATTTAAATTTGAATTCTTTATACATTTTTTATTAAAGTAGACTAGAATTCAA
65 ATCTCAT-AATTGATTTTAATTTGAATT-TTTTTACATTTTTTGTTAAA-TAGACTAGAATTGAA
* * *
14541 TGTTTACCTTGAGAAACATGAAGAAAAAAGCATTCATAGGCAAG
127 TGTCTACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAG
* *
14585 -AAAGTCTATTTATAGTCACCCATACCTTCAAAAGCCTTAGTACTCGCTTTAAAT
1 AAAAGTCTATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAAT
14639 NNNNNNNNNN
Statistics
Matches: 610, Mismatches: 102, Indels: 55
0.80 0.13 0.07
Matches are distributed among these distances:
168 2 0.00
169 6 0.01
170 62 0.10
171 338 0.55
172 174 0.29
173 18 0.03
174 10 0.02
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (170 bp):
AAAAGTCTATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
TCTCATAATTGATTTTAATTTGAATTTTTTTACATTTTTTGTTAAATAGACTAGAATTGAATGTC
TACCTTGAGAAACATGAAGAAAAAGGCATTCATTGGCAAG
Found at i:14638 original size:342 final size:342
Alignment explanation
Indices: 13728--14638 Score: 1224
Period size: 342 Copynumber: 2.7 Consensus size: 342
13718 ATTTTTTATT
* * * * *
13728 AAAAGTTCATTTATAGTCACCCATTCCTTTAAGAGCCCTATTACTCAGTTTAAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
* * * * *
13793 TCTCAAAATTTATTTAAATTT-AATTTTTTTATATATTTTTGGATAAAATAGAATAGAATTGAAT
66 TCTCAAAATTGATTTAAATTTGAA-TTCTTTATACATTTTT-GATTAAATAGACTAGAATTGAAT
* * * *
13857 GTCTACCATGAGAAACATGAAGAAAACAGTATTCATTGGCAAGAAAAGTCTATTTAGAGTCACCC
129 GTCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCC
** * *
13922 ATACCTTCAAAAGCCTTATTACTCACTTTAAACGGTTTTGTAATGCCATAATTGATTTTAAGTTG
194 ATACCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTGTAATGCCATAATTGATTTTAACTTA
* * * *
13987 AATGTTTTTTATATTTTTTGTTAAACAGACTATAATTGAATGTCTATCATGAGAAACGTAAAGAA
259 AATGTTTTTTACATTTTTGGTTAAACAGACTATAATTAAATGTCTACCATGAGAAACGTAAAGAA
14052 AAAGGCATTCATTGACAAG
324 AAAGGCATTCATTGACAAG
* * *
14071 AGAAGTCCATTTATAGTCACCCATTCCTTCAAAA-CTTTATTACTCACTTTAAATGGTTTTACAA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
* * * *
14135 TCTCAAAATTGATTTAAATTTGATTTCTTTGTACATTTTTGGTTATAATAGACTAGGATTGAATG
66 TCTCAAAATTGATTTAAATTTGAATTCTTTATACATTTTTGATTA-AATAGACTAGAATTGAATG
* * * * *
14200 TCTACCTTTAGAATCATGAAGAAAAATGCATTCATTGACTAGAAAAGT-TCATTTAT-GATCACC
130 TCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCT-ATTTATAG-TCACC
* * * *
14263 CATACCTTCAAAAGTCGTATTATTCACTTTAAATAGTTTTGTAATGCCATAATTTATTTTAACTT
193 CATACCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTGTAATGCCATAATTGATTTTAACTT
* * *
14328 AAAT-TTTTTTACATTTTTGGTTTAAACAGACTATAATTAAATGTCTACCTTGATAAACGTATAG
258 AAATGTTTTTTACATTTTTGG-TTAAACAGACTATAATTAAATGTCTACCATGAGAAACGTAAAG
14392 AAAAAGGCATTCATTG-CTAAG
322 AAAAAGGCATTCATTGAC-AAG
* * * * *
14413 AAAAGTGCATTTATAGTCACCCGTTCCATCAAAAGCCTTCTTACTCACTTTAAATGTTTTTATAA
1 AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
* * *
14478 TCTCTAAATTGATTTAAATTTGAATTCTTTATACATTTTTTATTAAAGTAGACTAGAATTCAATG
66 TCTCAAAATTGATTTAAATTTGAATTCTTTATACATTTTTGATTAAA-TAGACTAGAATTGAATG
* *
14543 TTTACCTTGAGAAACATGAAGAAAAAAGCATTCATAGGCAAG-AAAGTCTATTTATAGTCACCCA
130 TCTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCCA
* *
14607 TACCTTCAAAAGCCTTAGTACTCGCTTTAAAT
195 TACCTTCAAAAGCCTTATTACTCACTTTAAAT
14639 NNNNNNNNNN
Statistics
Matches: 490, Mismatches: 68, Indels: 21
0.85 0.12 0.04
Matches are distributed among these distances:
341 20 0.04
342 321 0.66
343 149 0.30
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (342 bp):
AAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAA
TCTCAAAATTGATTTAAATTTGAATTCTTTATACATTTTTGATTAAATAGACTAGAATTGAATGT
CTACCTTGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCCAT
ACCTTCAAAAGCCTTATTACTCACTTTAAATAGTTTTGTAATGCCATAATTGATTTTAACTTAAA
TGTTTTTTACATTTTTGGTTAAACAGACTATAATTAAATGTCTACCATGAGAAACGTAAAGAAAA
AGGCATTCATTGACAAG
Done.