Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397796.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1095.0, 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: 31975
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.26
Warning! 9345 characters in sequence are not A, C, G, or T
Found at i:1860 original size:171 final size:171
Alignment explanation
Indices: 1049--2130 Score: 587
Period size: 172 Copynumber: 6.3 Consensus size: 171
1039 NNNNNNNNNN
* * * *
1049 TGATTTTAAGTTG-ATTGTTTTTACACTTTT-CATTAAAACAGACTATAATTGAATGCTTGCCTC
1 TGATTTTAAGTTGAATT-TTTTTA-TCTTTTGCATTAAAACAGACTATAATTGAATGTTTACCTT
* * ** * *
1112 AAGAAACGTGTGGAAAAAGCCATTCATT-G-AA-AATAAAGTCCATTAATAGTCACCCATTCCTT
64 ATGAAACATGAAGAAAAAGCAATTCATTGGTAAGAA-AAA-TCCATTTATAGTCACCCATTCCTT
********** *
1174 CAAAAGCCTTNNNNNNNNNNTTAAATTATTTTATAATCTCATAAT
127 CAAAAGCCTTATTACTTGCTTTAAATAATTTTATAATCTCATAAT
* ** * * * * * * *
1219 TGATTTTAAATT-ATATTTTTTTAGATTTT-TAGTTCAAAGAGATTATAATTAAATGTCTACATC
1 TGATTTTAAGTTGA-ATTTTTTTATCTTTTGCA-TTAAAACAGACTATAATTGAATGTTTACCT-
* * * * * *** * **
1282 GA-GAAACGTGGAGAAAAAAGC-ATTCATTGGCAACAAATGCCCATTTATAGTCTCTTATTCCTT
63 TATGAAACATGAAG-AAAAAGCAATTCATTGGTAAGAAAAATCCATTTATAGTCACCCATTCCTT
* * * ********** *
1345 TAAAACCCTTATTACTCGCTTTNNNNNNNNNNATAATCTCAAAAT
127 CAAAAGCCTTATTACTTGCTTTAAATAATTTTATAATCTCATAAT
* * * *
1390 TGATTTTAGGTTCAATTTTTTT-TACATTATTGC-TTAAAACAGATTATAATTGAATGTTTA--G
1 TGATTTTAAGTTGAATTTTTTTAT-C-TT-TTGCATTAAAACAGACTATAATTGAATGTTTACCT
* * * * * *
1451 TATGAGAA-ATGTGAAGAAAGAGGC-ATTCATTAGCAAGAAAAGTCTATTTATAGTCACCTATTC
63 TATGA-AACA--TGAAGAAA-AAGCAATTCATTGGTAAGAAAAATCCATTTATAGTCACCCATTC
********** * * * *
1514 CTTCAAANNNNNNNNNNCTCGCTTTGAATGATTTTATAATCCCATAAT
124 CTTCAAAAGCCTTATTACTTGCTTTAAATAATTTTATAATCTCATAAT
*** * * * * ** *
1562 TGATTTTAAGTTGAAGTTTTCACAT-TTTTG-GTTCAAACAGACTATAATTTACTGTCAACCTCA
1 TGATTTTAAGTTGAA-TTTTTTTATCTTTTGCATTAAAACAGACTATAATTGAATGTTTACCTTA
* * *
1625 AGAAATAT-AAGGAAACAAGC-ATTCATTGGTAAGAAAAGTCC-TTATATAGTCACCCATTCCTT
65 TGAAACATGAA-GAAA-AAGCAATTCATTGGTAAGAAAAATCCATT-TATAGTCACCCATTCCTT
* * *
1687 CAAAAGCCTTCTCACTCGCTTTAAATAATTTTATAATCTCATAAT
127 CAAAAGCCTTATTACTTGCTTTAAATAATTTTATAATCTCATAAT
********** *
1732 TGATTTTAAGTTGAANNNNNNNNNNTTTTTCATTAAAACAGACTATAATTGAATGTCTT-CCTTG
1 TGATTTTAAGTTGAATTTTTTTATCTTTTGCATTAAAACAGACTATAATTGAATGT-TTACCTT-
* ** *
1796 A-GAAACATGTAA-AAAAATCAATTCATTGAGTAA-AAACGTCTATTTATAGTCACCCATTCCTT
64 ATGAAACATG-AAGAAAAAGCAATTCATTG-GTAAGAAAAATCCATTTATAGTCACCCATTCCTT
* ** * *
1858 CAAAAGCCTAATTACTTGCTTTAAATTTTTTTTATAATCTGATATT
127 CAAAAGCCTTATTACTTGCTTTAAA-TAATTTTATAATCTCATAAT
* * *
1904 TGATTTTAAGTTGAATTTTTTTATCTTTTGGATTCAAATAGACTATAATTGAATGTTTACCTTAT
1 TGATTTTAAGTTGAATTTTTTTATCTTTTGCATTAAAACAGACTATAATTGAATGTTTACCTTAT
* *
1969 GAAACATGAAGAAAAAGGAATTCATTGGTAAGAAAAATCCATTTATGGTCACCCATTCCTTCAAA
66 GAAACATGAAGAAAAAGCAATTCATTGGTAAGAAAAATCCATTTATAGTCACCCATTCCTTCAAA
* * *
2034 AGCCTTATTACTTGTTTTAAATGATTATATAATCTCATAAT
131 AGCCTTATTACTTGCTTTAAATAATTTTATAATCTCATAAT
* ** * *
2075 TGATTGTAAGTCAAATATTTTTA-CATTTTTG-GTTAAAACAGACTATAATTGAATGT
1 TGATTTTAAGTTGAATTTTTTTATC--TTTTGCATTAAAACAGACTATAATTGAATGT
2131 CTACTTTGAG
Statistics
Matches: 685, Mismatches: 185, Indels: 83
0.72 0.19 0.09
Matches are distributed among these distances:
169 10 0.01
170 179 0.26
171 231 0.34
172 254 0.37
173 10 0.01
174 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.37
Consensus pattern (171 bp):
TGATTTTAAGTTGAATTTTTTTATCTTTTGCATTAAAACAGACTATAATTGAATGTTTACCTTAT
GAAACATGAAGAAAAAGCAATTCATTGGTAAGAAAAATCCATTTATAGTCACCCATTCCTTCAAA
AGCCTTATTACTTGCTTTAAATAATTTTATAATCTCATAAT
Found at i:1959 original size:172 final size:170
Alignment explanation
Indices: 1377--2141 Score: 517
Period size: 171 Copynumber: 4.5 Consensus size: 170
1367 NNNNNNNNNN
* * * * * * *
1377 ATAATCTCAAAATTGATTTTAGGTTCAATTTTTTTTACATTATTGCTTAAAACAGATTATAATTG
1 ATAATCTCATAATTGATTGTAAG-TCAAATATTTTTACATT-TTGGTTAAAACAGACTATAATTG
** ** * * * * *
1442 AATGT-TTAGTATGAGAAATGTGAAGAAAGAGGC-ATTCATTAGCAAGAAAAGTCTATTTATAGT
64 AATGTCTTCCT-TGAGAAACATGAAGAAA-AAGCAATTCATTGGTAAGAAAAATCCATTTATAGT
* ********** * * *
1505 CACCTATTCCTTCAAANNNNNNNNNNCTCGCTTTGAATGATTTT
127 CACCCATTCCTTCAAAAGCCTAATTACTTGCTTTAAATGATTAT
* * ** * * * *
1549 ATAATCCCATAATTGATTTTAAGTTGAA-GTTTTCACATTTTTGGTTCAAACAGACTATAATTTA
1 ATAATCTCATAATTGATTGTAAGTCAAATATTTTTACA-TTTTGGTTAAAACAGACTATAATTGA
* ** ** * *
1613 CTGTCAACCTCAAGAAATAT-AAGGAAACAAGC-ATTCATTGGTAAGAAAAGTCC-TTATATAGT
65 ATGTCTTCCTTGAGAAACATGAA-GAAA-AAGCAATTCATTGGTAAGAAAAATCCATT-TATAGT
** * * * *
1675 CACCCATTCCTTCAAAAGCCTTCTCACTCGCTTTAAATAATTTT
127 CACCCATTCCTTCAAAAGCCTAATTACTTGCTTTAAATGATTAT
* * *********** **
1719 ATAATCTCATAATTGATTTTAAGTTGAANNNNNNNNNNTTTTTCATTAAAACAGACTATAATTGA
1 ATAATCTCATAATTGATTGTAAG-TCAAATATTTTTACATTTTGGTTAAAACAGACTATAATTGA
* ** *
1784 ATGTCTTCCTTGAGAAACATGTAA-AAAAATCAATTCATTGAGTAA-AAACGTCTATTTATAGTC
65 ATGTCTTCCTTGAGAAACATG-AAGAAAAAGCAATTCATTG-GTAAGAAAAATCCATTTATAGTC
** *
1847 ACCCATTCCTTCAAAAGCCTAATTACTTGCTTTAAATTTTTTTT
128 ACCCATTCCTTCAAAAGCCTAATTACTTGCTTTAAA-TGATTAT
* * * ** * * *
1891 ATAATCTGATATTTGATTTTAAGTTGAATTTTTTTATC-TTTTGGATTCAAATAGACTATAATTG
1 ATAATCTCATAATTGATTGTAAGTCAAATATTTTTA-CATTTTGG-TTAAAACAGACTATAATTG
* *
1955 AATGT-TTACCTT-ATGAAACATGAAGAAAAAGGAATTCATTGGTAAGAAAAATCCATTTATGGT
64 AATGTCTT-CCTTGA-GAAACATGAAGAAAAAGCAATTCATTGGTAAGAAAAATCCATTTATAGT
* *
2018 CACCCATTCCTTCAAAAGCCTTATTACTTGTTTTAAATGATTAT
127 CACCCATTCCTTCAAAAGCCTAATTACTTGCTTTAAATGATTAT
2062 ATAATCTCATAATTGATTGTAAGTCAAATATTTTTACATTTTTGGTTAAAACAGACTATAATTGA
1 ATAATCTCATAATTGATTGTAAGTCAAATATTTTTACA-TTTTGGTTAAAACAGACTATAATTGA
* *
2127 ATGTCTACTTTGAGA
65 ATGTCTTCCTTGAGA
2142 NNNNNNNNNN
Statistics
Matches: 462, Mismatches: 109, Indels: 45
0.75 0.18 0.07
Matches are distributed among these distances:
169 4 0.01
170 125 0.27
171 175 0.38
172 156 0.34
173 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.38
Consensus pattern (170 bp):
ATAATCTCATAATTGATTGTAAGTCAAATATTTTTACATTTTGGTTAAAACAGACTATAATTGAA
TGTCTTCCTTGAGAAACATGAAGAAAAAGCAATTCATTGGTAAGAAAAATCCATTTATAGTCACC
CATTCCTTCAAAAGCCTAATTACTTGCTTTAAATGATTAT
Found at i:3457 original size:172 final size:161
Alignment explanation
Indices: 3161--3474 Score: 295
Period size: 172 Copynumber: 1.9 Consensus size: 161
3151 NNNNNNNTTA
* * * * *
3161 TTACTCACTTTAAATTGTTTTATAATCTCATAACTGATTTTAAGTTGAATTATTTTACATTTTTA
1 TTACTCACTTTAAATAGTTTAATAATCTCAAAACTGATTCTAAGTTCAATTATTTTACATTTTTA
* * * * * *
3226 ATTAAAACAGACTATAATTGAATGTTTACCTTAAGAAACGTGCAGAAAAAGGAATTCATTGGCAA
66 ATTAAAACAGACTATAATTAAATGTCTACATCAAGAAACGTGAAGAAAAAAGAATTCATTGGCAA
* *
3291 GAAAAGTTCATTNNNNNNNNNNTATTCCTTCAAAAGCCTTG
131 AAAAAGTCCATT----------TATTCCTTCAAAAGCCTTG
* * * *
3332 TTACTCGCTTTAAATAGTTTAATAATCTCAAAATTGATTCTAGGTTCAATTTTTTTTACATTTTT
1 TTACTCACTTTAAATAGTTTAATAATCTCAAAACTGATTCTAAGTTCAA-TTATTTTACATTTTT
* * * * * ** * *
3397 GATTAGAACATATTATAATTAAATGTCTACATCGAGAAGTGTGAAGAAAAAAGCATTCATTGGTA
65 AATTAAAACAGACTATAATTAAATGTCTACATCAAGAAACGTGAAGAAAAAAGAATTCATTGGCA
3462 AAAAAAGTCCATT
130 AAAAAAGTCCATT
3475 ATAGTCATGC
Statistics
Matches: 116, Mismatches: 26, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
171 41 0.35
172 75 0.65
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.37
Consensus pattern (161 bp):
TTACTCACTTTAAATAGTTTAATAATCTCAAAACTGATTCTAAGTTCAATTATTTTACATTTTTA
ATTAAAACAGACTATAATTAAATGTCTACATCAAGAAACGTGAAGAAAAAAGAATTCATTGGCAA
AAAAAGTCCATTTATTCCTTCAAAAGCCTTG
Found at i:5891 original size:170 final size:169
Alignment explanation
Indices: 5592--6146 Score: 549
Period size: 171 Copynumber: 3.3 Consensus size: 169
5582 NNNNNNAAAC
* * *
5592 CAATTATGAGATTATAAAATTATTTAAAGCGAGTAAGAAGGCTTTTGAAGGAATTGGTGACTATA
1 CAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATA
* * * * * * * * *
5657 TAA-GGATTTTTCTTACCAATGAATGCTTGTTTCCTT-ATATTTCTTGAGGTTGATAGTAAATTA
66 -AATGGACTTTTCTTACCAATGAATGCTTCTTT-CTTCACATTTC-TCATGTAGACACTCAATTA
*
5720 TAGTCTGTTTTAACCAAAAT-TATAAAAAATTCAACTTAAAAT
128 TAATCTGTTTTAACCAAAATCTA-AAAAAATTCAACTTAAAAT
* * * * * *
5762 AAATTATGGGATTATAAAATCATTCAAAGCAAGTAATAAGGCTTTTGAAGGAATGGGTGGCTATA
1 CAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATA
* * *
5827 AATAGACTTTTCTTACTAATGAATGCCTCTTTCTTCACATTTCTCATGCTAGACACTCAATTATA
66 AATGGACTTTTCTTACCAATGAATGCTTCTTTCTTCACATTTCTCATG-TAGACACTCAATTATA
* * * *
5892 ATCTGTTTTAAGCAATAATGTAAAAAAATTGAACCTAAAAT
130 ATCTGTTTTAACCAA-AATCTAAAAAAATTCAACTTAAAAT
********** * * * *
5933 CAATNNNNNNNNNNTAAAACCATTTAAAGCGAGTAATAAGGGTTTTAAAGGAATAGGAGACTATA
1 CAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATA
* * * * * * *
5998 AATGGGCATTTCTTGCCAATGAATGCTTTTTTCTCCACGTTTCTCAATGTAGACATTCAATTATA
66 AATGGACTTTTCTTACCAATGAATGCTTCTTTCTTCACATTTCTC-ATGTAGACACTCAATTATA
* * * *
6063 ATCTGTTTGAACTAAAAATCTAAAAAAATACAATTTAAAAT
130 ATCTGTTTTAAC-CAAAATCTAAAAAAATTCAACTTAAAAT
*
6104 CAATTATGAGATTATAAAATAATTTAAAGCGAGTAATAAGGCT
1 CAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCT
6147 NNNNNNNNNN
Statistics
Matches: 304, Mismatches: 74, Indels: 13
0.78 0.19 0.03
Matches are distributed among these distances:
169 8 0.03
170 112 0.37
171 177 0.58
172 7 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.34
Consensus pattern (169 bp):
CAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATA
AATGGACTTTTCTTACCAATGAATGCTTCTTTCTTCACATTTCTCATGTAGACACTCAATTATAA
TCTGTTTTAACCAAAATCTAAAAAAATTCAACTTAAAAT
Found at i:7432 original size:170 final size:170
Alignment explanation
Indices: 7091--8441 Score: 1147
Period size: 171 Copynumber: 7.9 Consensus size: 170
7081 NNNNNNNNNN
** * * * * ** *
7091 CGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAGACATTTCTTGC-CCGTGAATGCTT
1 CGAGTAATAAGGCTTTTGAAGGAATGGGTGTCTATAAATGGACTTTTCTT-CTCAATGAATG-AT
** * * * * * *
7155 TTTTCTTCACGTTTCTCGATGTACACATTCAATTATAGTCTGCTTGAACTAAAAATGTAAAAAAA
64 TTTTCCACATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAAAAA
* * **
7220 AATCAACTTAAAATCAATTATTAGATTATAAAATAATTTAAAG
128 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
*
7263 CGAGTAATAAGGCTTTTGAAGGAATGGGTGTCTATTAATGGACTTTT-TTCTCAATGAATGGATT
1 CGAGTAATAAGGCTTTTGAAGGAATGGGTGTCTATAAATGGACTTTTCTTCTCAATGAAT-GATT
* * * * ** * * *
7327 TTTCCACAAGTTTCTTGAGGCAAAAATTCAATTATAGTCTGTTTTAATGAAAAGTGCAAAAACAT
65 TTTCCACATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAT
* * * *
7392 TCAACTTAAAATTAACTATGAGATTATAAACCCCTTTAAAG
130 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * * *
7433 CGAGTAATAAGGCCTTTGAAGGAATGAGCGACTATAAATTGACTTTTCTTACT-AATAAATGCTT
1 CGAGTAATAAGGCTTTTGAAGGAATGGGTGTCTATAAATGGACTTTTCTT-CTCAATGAATGATT
** * * * * **
7497 TTTCTTCATGTTTCTCAAAGTATACATTCAATTATAGTCTTTTTTAATAAAAAATGTAAAAAAAT
65 TTTCCACATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAT
* * * *
7562 TCAACTTAAAATCAAATATTAGATTATAAAACAATTTAAAA
130 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * *
7603 CGAGTAATAAGGCTTTTGAAGGAATGGGTGGCCATAAATGGACTTTTTTTCTCAATGAATTACTT
1 CGAGTAATAAGGCTTTTGAAGGAATGGGTGTCTATAAATGGACTTTTCTTCTCAATGAATGA-TT
* ** * * * * * * *
7668 TTTCTACACCTTTCTTGAAAG-AAGCATTAAATTATAG-CATGTTTTAGCAAAAAATGTAAAACA
65 TTTCCACATGTTTCTCG-AGGTAAACATTCAATTATAGTC-TGTTTTAACCAAAAATGTAAAAAA
* * *
7731 ATTCAACTTAAAATCAATTATGAGAGTATAAAACAATTTAGAG
128 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* ** * * ** *
7774 CAAGTAATAAGGCTTTTGAAGGAATGACTGACTACAAAAAGACTTTTCTT-TCCAATGAATGCTT
1 CGAGTAATAAGGCTTTTGAAGGAATGGGTGTCTATAAATGGACTTTTCTTCT-CAATGAATG-AT
** * * * *
7838 TTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAGAAAAA
64 TTTTCCACATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAA
* * *
7903 TTCAACTTACAATCAATAATGAGATTATAAAACCATTTATAG
129 TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* *
7945 CGAGTAATAAGGCTTTTGAAGAAATGGGTGAT-TATAAAT-GAGCTTTTCTTGC-CAATGAATGT
1 CGAGTAATAAGGCTTTTGAAGGAATGGGTG-TCTATAAATGGA-CTTTTCTT-CTCAATGAATGA
** ** * * * * *
8007 TTGTTTCCTTATGTTTCTC-ATGGTTGATAATCAATTATAATCTGTTTTAAACAAAAATAT-AAA
63 TT-TTTCCACATGTTTCTCGA-GGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAA
* * *
8070 AAATTCAACATAAAATCAATTTTGAGATTATAAAACCATTCAAAG
126 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * *
8115 CGACTAATAAGCCTTTTGAAAGAATGGATGAT-TATAAATGGACTTTTTTTGC-CAATGAATGCC
1 CGAGTAATAAGGCTTTTGAAGGAATGGGTG-TCTATAAATGGACTTTTCTT-CTCAATGAATG-A
* * *
8178 TTTTTCTTCACA--TTTCTCGAGCTAAACATTCAATTATAATC-GTTTTAACCAATAATGTAAAA
63 TTTTTC--CACATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGT-AAA
* * * *
8240 AAAATTGAACCTAAAATCAATTTTGGGATTATAAAACCATTTAAAG
125 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
** * * ** * * * *
8286 CGAGTAATAATTCTTTT-AAGAGAATAGGAGAATATAAATGAACATTTCTTAC-CAACGAATGCT
1 CGAGTAATAAGGCTTTTGAAG-GAATGGGTGTCTATAAATGGACTTTTCTT-CTCAATGAATG-A
* * * * *
8349 TTTTTCTTA-ATGTTTCTCGAGCTAGACATTCAATTATACTCTGTTTTAACCAAAAATCTAAAAA
63 TTTTTC-CACATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAA
** *
8413 CCTTCAACTTAAAATCAATTATGACATTA
127 AATTCAACTTAAAATCAATTATGAGATTA
8442 NNNNNNNNNN
Statistics
Matches: 962, Mismatches: 187, Indels: 61
0.80 0.15 0.05
Matches are distributed among these distances:
169 17 0.02
170 352 0.37
171 529 0.55
172 64 0.07
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
CGAGTAATAAGGCTTTTGAAGGAATGGGTGTCTATAAATGGACTTTTCTTCTCAATGAATGATTT
TTCCACATGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAATT
CAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
Found at i:7737 original size:341 final size:340
Alignment explanation
Indices: 7091--8295 Score: 1163
Period size: 341 Copynumber: 3.5 Consensus size: 340
7081 NNNNNNNNNN
* * * * **
7091 CGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAGACATTTCTTGCCCGTGAATGCTTT
1 CGAGTAATAAGGCTTTTGAAGGAATGAGCGACTATAAATAGACTTTTCTTACCAATGAATGCTTT
* * * * *
7156 TTTCTTCACGTTTCTCGATGTACACATTCAATTATAGTCTGCTTGAACTAAAAATGTAAAAAAAA
66 TTTCTTCATGTTTCTCAAAGTACACATTCAATTATAGTCTGTTTTAA-TAAAAATGT-AAAAAAA
* * *
7221 ATCAACTTAAAATCAATTATTAGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGA
129 TTCAACTTAAAATCAAATATTAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGA
* * * * *
7286 ATGGGTGTCTATTAATGGACTTTTTTCTCAATGAATGGATTTTTCCACAAGTTTCTTGAGGCAAA
194 ATGGGTGGCCATAAATGGACTTTTTTCTCAATGAATGGATTTTTCCACAACTTTCTTGAAGCAAA
* ** * * *
7351 AATTCAATTATAGTCTGTTTTAATGAAAAGTGCAAAAACATTCAACTTAAAATTAACTATGAGAT
259 AATTAAATTATAGTCTGTTTTAACAAAAAATGCAAAAACATTCAACTTAAAATCAACTATGAGAG
* **
7416 TATAAACCCCTTTAAAG
324 TATAAAACAATTTAAAG
* * * *
7433 CGAGTAATAAGGCCTTTGAAGGAATGAGCGACTATAAATTGACTTTTCTTACTAATAAATGC-TT
1 CGAGTAATAAGGCTTTTGAAGGAATGAGCGACTATAAATAGACTTTTCTTACCAATGAATGCTTT
* *
7497 TTTCTTCATGTTTCTCAAAGTATACATTCAATTATAGTCTTTTTTAATAAAAAATGTAAAAAAAT
66 TTTCTTCATGTTTCTCAAAGTACACATTCAATTATAGTCTGTTTTAAT-AAAAATGTAAAAAAAT
*
7562 TCAACTTAAAATCAAATATTAGATTATAAAACAATTTAAAACGAGTAATAAGGCTTTTGAAGGAA
130 TCAACTTAAAATCAAATATTAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * *
7627 TGGGTGGCCATAAATGGACTTTTTTTCTCAATGAAT-TACTTTTTCTACACCTTTCTTGAAAG-A
195 TGGGTGGCCATAAATGGAC-TTTTTTCTCAATGAATGGA-TTTTTCCACAACTTTCTTG-AAGCA
** * * *
7690 AGCATTAAATTATAG-CATGTTTTAGCAAAAAATG-TAAAACAATTCAACTTAAAATCAATTATG
257 AAAATTAAATTATAGTC-TGTTTTAACAAAAAATGCAAAAAC-ATTCAACTTAAAATCAACTATG
*
7753 AGAGTATAAAACAATTTAGAG
320 AGAGTATAAAACAATTTAAAG
* * * *
7774 CAAGTAATAAGGCTTTTGAAGGAATGA-CTGACTACAAAAAGACTTTTCTTTCCAATGAATGCTT
1 CGAGTAATAAGGCTTTTGAAGGAATGAGC-GACTATAAATAGACTTTTCTTACCAATGAATGCTT
* * * * *
7838 TTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAGAAAAA
65 TTTTCTTCATGTTTCTCAAAGTACACATTCAATTATAGTCTGTTTTAA-TAAAAATGTAAAAAAA
* * * * *
7903 TTCAACTTACAATC-AATAATGAGATTATAAAACCATTTATAGCGAGTAATAAGGCTTTTGAAGA
129 TTCAACTTAAAATCAAAT-ATTAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGG
*** * ** **
7967 AATGGGTGATTATAAAT-GAGCTTTTCTTGC-CAATGAAT-GTTTGTTTCCTTATGTTTCTCATG
193 AATGGGTGGCCATAAATGGA-CTTTT-TT-CTCAATGAATGGATT-TTTCCACAACTTTCT--TG
** * * * *
8029 --GTTGATAA-TCAATTATAATCTGTTTTAAACAAAAATAT--AAAAA-ATTCAACATAAAATCA
252 AAG-CAAAAATTAAATTATAGTCTGTTTT-AACAAAAA-ATGCAAAAACATTCAACTTAAAATCA
* * * * *
8088 ATTTTGAGATTATAAAACCATTCAAAG
314 ACTATGAGAGTATAAAACAATTTAAAG
* * * * * * * * *
8115 CGACTAATAAGCCTTTTGAAAGAATG-GATGATTATAAATGGACTTTTTTTGCCAATGAATGCCT
1 CGAGTAATAAGGCTTTTGAAGGAATGAG-CGACTATAAATAGACTTTTCTTACCAATGAATGCTT
** * * * * *
8179 TTTTCTTCACATTTCTC-GAGCTAAACATTCAATTATAATC-GTTTTAACCAATAATGTAAAAAA
65 TTTTCTTCATGTTTCTCAAAG-TACACATTCAATTATAGTCTGTTTTAA-TAAAAATGT-AAAAA
* * * * *
8242 AATTGAACCTAAAATC-AATTTTGGGATTATAAAACCATTTAAAGCGAGTAATAA
127 AATTCAACTTAAAATCAAATATT-AGATTATAAAACAATTTAAAGCGAGTAATAA
8296 TTCTTTTAAG
Statistics
Matches: 722, Mismatches: 115, Indels: 53
0.81 0.13 0.06
Matches are distributed among these distances:
340 111 0.15
341 376 0.52
342 216 0.30
343 15 0.02
344 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (340 bp):
CGAGTAATAAGGCTTTTGAAGGAATGAGCGACTATAAATAGACTTTTCTTACCAATGAATGCTTT
TTTCTTCATGTTTCTCAAAGTACACATTCAATTATAGTCTGTTTTAATAAAAATGTAAAAAAATT
CAACTTAAAATCAAATATTAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
GGGTGGCCATAAATGGACTTTTTTCTCAATGAATGGATTTTTCCACAACTTTCTTGAAGCAAAAA
TTAAATTATAGTCTGTTTTAACAAAAAATGCAAAAACATTCAACTTAAAATCAACTATGAGAGTA
TAAAACAATTTAAAG
Found at i:8073 original size:512 final size:508
Alignment explanation
Indices: 7095--8441 Score: 1360
Period size: 512 Copynumber: 2.6 Consensus size: 508
7085 NNNNNNCGAG
* * * * * * * **
7095 TAATAAGGCTTTTGAAGGAATAAGA-GACTATAAATAGACATTTCTTGCCCGTGAATG-CTTTTT
1 TAATAAGCCTTTTGAAAGAAT-GGATGACCATAAATGGACTTTTTTTGCCAATGAATGAC-TTTT
* * * * * * * * * *
7158 TCTTCACGTTTCTCG-ATGTACACATTCAATTATAGTCTGCTTGAACTAAAAATGTAAAAAAAAA
64 TCTACACATTTCTCGAAAG-AAACATTAAATTATAATC-GTTTTAACAAAAAATGTAAAAAAAAT
* *
7222 TCAACTTAAAATCAATTATTAGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
127 TCAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * ** ** ** * * * *
7287 TGGGTGTCTATTAATGGACTTT-TTTCTCAATGAATGGATTTTTCCACAAGTTTCTTGAGGCAAA
192 T-GATGACTA-TAAAAGACTTTCTTTC-CAATGAATGCTTTTTTCTTCATGTTTCTCGAGGTAGA
* ** * ** *
7351 AATTCAATTATAGTCTGTTTTAATGAAAAGTGCAAAAACATTCAACTTAAAATTAACTATGAGAT
254 CATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAACATTCAACTTAAAATCAA-TATGAGAT
* * *
7416 TATAAACCCCTTTAAAGCGAGTAATAAGGCCTTTGAAGGAATGAGCGACTATAAATTGACTTTTC
318 TATAAAACCATTTAAAGCGAGTAATAAGGCCTTTGAAGAAATGAGCGACTATAAATTGACTTTTC
* * *
7481 TTACTAATAAATGCTTTTTCTTCATGTTTCTCAAAGTATACATTCAATTATAGTCTTTTTTAATA
383 TTACCAATAAATGCTTTTTCTTCATGTTTCTCAAAGTATACATTCAATTATAATCTGTTTTAATA
* * * *
7546 AAAAATGTAAAAAAATTCAACTTAAAATCAAATATT-AGATTATAAAACAATTTAAAACGAG
448 AAAAATATAAAAAAATTCAACATAAAATC-AATATTGAGATTATAAAACAATTCAAAACGAC
* * * * *
7607 TAATAAGGCTTTTGAAGGAATGGGTGGCCATAAATGGACTTTTTTT-CTCAATGAATTACTTTTT
1 TAATAAGCCTTTTGAAAGAATGGATGACCATAAATGGACTTTTTTTGC-CAATGAATGACTTTTT
* * * * *
7671 CTACACCTTTCTTGAAAGAAGCATTAAATTATAGCAT-GTTTTAGCAAAAAATGT-AAAACAATT
65 CTACACATTTCTCGAAAGAAACATTAAATTATA--ATCGTTTTAACAAAAAATGTAAAAAAAATT
* * *
7734 CAACTTAAAATCAATTATGAGAGTATAAAACAATTTAGAGCAAGTAATAAGGCTTTTGAAGGAAT
128 CAACTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT
* *
7799 GACTGACTACAAAAAGACTTTTCTTTCCAATGAATGCTTTTTTCTTCATGTTTCTCAAGGTAGAC
193 GA-TGACTA-TAAAAGAC-TTTCTTTCCAATGAATGCTTTTTTCTTCATGTTTCTCGAGGTAGAC
*
7864 ATTCAATTATAGTCTGTTTTAACCAAAAATATAGAAAA-ATTCAACTTACAATCAATAATGAGAT
255 ATTCAATTATAGTCTGTTTTAACCAAAAATATA-AAAACATTCAACTTAAAATCAAT-ATGAGAT
* * * * *
7928 TATAAAACCATTTATAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGATTATAAA-TGAGCTTTT
318 TATAAAACCATTTAAAGCGAGTAATAAGGCCTTTGAAGAAATGAGCGACTATAAATTGA-CTTTT
* * * **
7992 CTTGCCAATGAATGTTTGTTTCCTT-ATGTTTCTCATGGTTGATA-A-TCAATTATAATCTGTTT
382 CTTACCAATAAATGCTT-TTT-CTTCATGTTTCTCAAAG-T-ATACATTCAATTATAATCTGTTT
* * *
8054 TAA-ACAAAAATAT-AAAAAATTCAACATAAAATCAATTTTGAGATTATAAAACCATTCAAAGCG
443 TAATA-AAAAATATAAAAAAATTCAACATAAAATCAATATTGAGATTATAAAACAATTCAAAACG
8117 AC
507 AC
** *
8119 TAATAAGCCTTTTGAAAGAATGGATGATTATAAATGGACTTTTTTTGCCAATGAATGCCTTTTTC
1 TAATAAGCCTTTTGAAAGAATGGATGACCATAAATGGACTTTTTTTGCCAATGAATGACTTTTTC
* *** * * * *
8184 TTCACATTTCTCGAGCTAAACATTCAATTATAATCGTTTTAACCAATAATGTAAAAAAAATTGAA
66 TACACATTTCTCGAAAGAAACATTAAATTATAATCGTTTTAACAAAAAATGTAAAAAAAATTCAA
* * * * **
8249 CCTAAAATCAATTTTGGGATTATAAAACCATTTAAAGCGAGTAATAATTCTTTT-AAGAGAATAG
131 CTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAG-GAAT--
* * * * * *
8313 GA-GAATATAAATGAACATTTCTTACCAACGAATGCTTTTTTCTTAATGTTTCTCGAGCTAGACA
193 GATGACTATAAAAG-AC-TTTCTTTCCAATGAATGCTTTTTTCTTCATGTTTCTCGAGGTAGACA
* * * *
8377 TTCAATTATACTCTGTTTTAACCAAAAATCTAAAAACCTTCAACTTAAAATCAATTATGACATTA
256 TTCAATTATAGTCTGTTTTAACCAAAAATATAAAAACATTCAACTTAAAATCAA-TATGAGATTA
8442 NNNNNNNNNN
Statistics
Matches: 689, Mismatches: 119, Indels: 54
0.80 0.14 0.06
Matches are distributed among these distances:
510 3 0.00
511 113 0.16
512 510 0.74
513 52 0.08
514 8 0.01
515 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (508 bp):
TAATAAGCCTTTTGAAAGAATGGATGACCATAAATGGACTTTTTTTGCCAATGAATGACTTTTTC
TACACATTTCTCGAAAGAAACATTAAATTATAATCGTTTTAACAAAAAATGTAAAAAAAATTCAA
CTTAAAATCAATTATGAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAT
GACTATAAAAGACTTTCTTTCCAATGAATGCTTTTTTCTTCATGTTTCTCGAGGTAGACATTCAA
TTATAGTCTGTTTTAACCAAAAATATAAAAACATTCAACTTAAAATCAATATGAGATTATAAAAC
CATTTAAAGCGAGTAATAAGGCCTTTGAAGAAATGAGCGACTATAAATTGACTTTTCTTACCAAT
AAATGCTTTTTCTTCATGTTTCTCAAAGTATACATTCAATTATAATCTGTTTTAATAAAAAATAT
AAAAAAATTCAACATAAAATCAATATTGAGATTATAAAACAATTCAAAACGAC
Found at i:8364 original size:341 final size:341
Alignment explanation
Indices: 7095--8441 Score: 973
Period size: 341 Copynumber: 3.9 Consensus size: 341
7085 NNNNNNCGAG
* * * ** * * * * ** *
7095 TAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAGACATTTCTTGCCCGTGAATGCTTTTTTC
1 TAATAAGCCTTTTGAAAGAATGACTGACTACAAAAAGACTTTTCTTTCCAATGAATGCCTTTTTC
* * * * * * * * *
7160 TTCACGTTTCTCGATG-TACACATTCAATTATAGTCTGCTTGAACTAAAAATGTAAAAAAAAATC
66 TTCACATTTCTC-AAGCTAAACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAAATTC
* * * ** * *
7224 AACTTAAAATCAATTATTAGATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG
129 AACCTAAAATCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATA
* ** * * * * * ** * *
7289 GGTGTCTATTAATGGAC-TTT-TTTCTCAATGAATGGATT-TTTCCACAAGTTTCTTGAGGC-A-
194 GGAGAATATAAATGAACATTTCTTAC-CAACGAAT-GTTTGTTTCCTTATGTTTCTCGA-GCTAG
* * ** * ** * *
7349 AAAATTCAATTATAGTCTGTTTTAATGAAAAGTGCAAAAACATTCAACTTAAAATTAACTATGAG
256 ACAA-TCAATTATAATCTGTTTTAAACAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAG
* ** * * *
7414 ATTATAAACCCCTTTAAAGCGAG
319 ATTATAAAACAATTCAAAGCAAC
* * ** * * *
7437 TAATAAGGCC-TTTGAAGGAATGAGC-GACTATAAATTGACTTTTCTTACTAATAAATG-CTTTT
1 TAATAA-GCCTTTTGAAAGAATGA-CTGACTACAAAAAGACTTTTCTTTCCAATGAATGCCTTTT
** * * * ** *
7499 TCTTCATGTTTCTCAAAG-TATACATTCAATTATAGTCTTTTTTAATAAAAAATGTAAAAAAATT
64 TCTTCACATTTCTC-AAGCTAAACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATT
* * * * *
7563 CAACTTAAAATCAA-ATATTAGATTATAAAACAATTTAAAACGAGTAATAAGGCTTTTGAAGGAA
128 CAACCTAAAATCAATA-ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAA
* * *** * * * * * ** *
7627 TGGGTGGCCATAAATGGAC-TTTTTTTCTCAATGAAT-TACTT-TTT-CTACACCTTTCTTGA--
192 TAGGAGAATATAAATGAACATTTCTTAC-CAACGAATGT--TTGTTTCCT-TATGTTTCTCGAGC
* * * * * *
7686 AAGAAGCATTAAATTAT-AGCATGTTTT-AGCAAAAAATGTAAAACAATTCAACTTAAAATCAAT
253 TAG-A-CAATCAATTATAATC-TGTTTTAAAC-AAAAATATAAAA-AATTCAACTTAAAATCAAT
* * * *
7749 TATGAGAGTATAAAACAATTTAGAGCAAG
313 TATGAGATTATAAAACAATTCAAAGCAAC
* * *
7778 TAATAAGGCTTTTGAAGGAATGACTGACTACAAAAAGACTTTTCTTTCCAATGAATGCTTTTTTC
1 TAATAAGCCTTTTGAAAGAATGACTGACTACAAAAAGACTTTTCTTTCCAATGAATGCCTTTTTC
** * * * *
7843 TTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAGAAAAATTCAA
66 TTCACATTTCTCAAGCTAAACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAA
* * * *
7908 CTTACAATCAATAATGAGATTATAAAACCATTTATAGCGAGTAATAAGGCTTTTGAAGAAATGGG
131 CCTAAAATCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGG
* * * * * * * * *
7973 TGATTATAAATGAGCTTTTCTTGCCAATGAATGTTTGTTTCCTTATGTTTCTC-ATGGTTGATAA
196 AGAATATAAATGAACATTTCTTACCAACGAATGTTTGTTTCCTTATGTTTCTCGA-GCTAGACAA
* *
8037 TCAATTATAATCTGTTTTAAACAAAAATATAAAAAATTCAACATAAAATCAATTTTGAGATTATA
260 TCAATTATAATCTGTTTTAAACAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* *
8102 AAACCATTCAAAGCGAC
325 AAACAATTCAAAGCAAC
* * **
8119 TAATAAGCCTTTTGAAAGAATGGA-TGATTATAAATGGACTTTT-TTTGCCAATGAATGCCTTTT
1 TAATAAGCCTTTTGAAAGAAT-GACTGACTACAAAAAGACTTTTCTTT-CCAATGAATGCCTTTT
* * *
8182 TCTTCACATTTCTCGAGCTAAACATTCAATTATAATC-GTTTTAACCAATAATGTAAAAAAAATT
64 TCTTCACATTTCTCAAGCTAAACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAAATT
* ** * **
8246 GAACCTAAAATCAATTTTGGGATTATAAAACCATTTAAAGCGAGTAATAATTCTTTT-AAGAGAA
128 CAACCTAAAATCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGA-AA
8310 TAGGAGAATATAAATGAACATTTCTTACCAACGAATGCTTT-TTT-CTTAATGTTTCTCGAGCTA
192 TAGGAGAATATAAATGAACATTTCTTACCAACGAATG-TTTGTTTCCTT-ATGTTTCTCGAGCTA
* * * * * *
8373 GACATTCAATTATACTCTGTTTTAACCAAAAATCTAAAAACCTTCAACTTAAAATCAATTATGAC
255 GACAATCAATTATAATCTGTTTTAAACAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAG
8438 ATTA
319 ATTA
8442 NNNNNNNNNN
Statistics
Matches: 831, Mismatches: 138, Indels: 72
0.80 0.13 0.07
Matches are distributed among these distances:
339 1 0.00
340 118 0.14
341 449 0.54
342 245 0.29
343 17 0.02
344 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (341 bp):
TAATAAGCCTTTTGAAAGAATGACTGACTACAAAAAGACTTTTCTTTCCAATGAATGCCTTTTTC
TTCACATTTCTCAAGCTAAACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAA
CCTAAAATCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATAGG
AGAATATAAATGAACATTTCTTACCAACGAATGTTTGTTTCCTTATGTTTCTCGAGCTAGACAAT
CAATTATAATCTGTTTTAAACAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAA
AACAATTCAAAGCAAC
Found at i:8842 original size:171 final size:159
Alignment explanation
Indices: 8665--8977 Score: 324
Period size: 171 Copynumber: 1.9 Consensus size: 159
8655 ATTTAAAGCG
* *
8665 AGTAATAAGGCTTTTGAAGAAATAGGAGACTATAAATGGA-TATTTCTTGCCAATTAATGT-TGT
1 AGTAATAAGGCTTTTAAAGAAATAGGAGACTATAAATGGACT-TTTCTTGCCAATGAAT-TCT-T
* * * * *
8728 TTTCTTCATGTTTCTCGAGGAAGACATTCAATTATAGTCTATTTTTACCAAAAATGTAAAAAAAA
63 TTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAATCTATTTTAACCAAAAATCT-AAAAAAA
*
8793 TCAACTTACAATCAATTATGAGACTATAAAACT
127 TCAACTTAAAATCAATTATGAGACTATAAAACT
* * *
8826 NNNNNNNNNNAGTAATAAGGCTTTTAAAGAAATAGGTGATTGTAAATGGACTTTTCTTGCCAATG
1 ----------AGTAATAAGGCTTTTAAAGAAATAGGAGACTATAAATGGACTTTTCTTGCCAATG
* * * * *
8891 AATTCCTTTTTCTTCACGTTTCTTAAGGTAGACATTGAATTATAATCTGTTTTAATCAAAAATCT
56 AATT-CTTTTTCTTCACGTTTCTCAAGGAAGACATTCAATTATAATCTATTTTAACCAAAAATCT
*
8956 AAAAAATTCAACTTAAAATCAA
120 AAAAAAATCAACTTAAAATCAA
8978 ATATTAAATT
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
170 21 0.17
171 99 0.81
172 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (159 bp):
AGTAATAAGGCTTTTAAAGAAATAGGAGACTATAAATGGACTTTTCTTGCCAATGAATTCTTTTT
CTTCACGTTTCTCAAGGAAGACATTCAATTATAATCTATTTTAACCAAAAATCTAAAAAAATCAA
CTTAAAATCAATTATGAGACTATAAAACT
Found at i:11573 original size:172 final size:171
Alignment explanation
Indices: 10916--12886 Score: 987
Period size: 171 Copynumber: 11.5 Consensus size: 171
10906 NNNNNNNNNN
* * *
10916 TTAACAAAAAATGTAAAAAAATTCAACTTAAAATCAAATATGAGATTATAAAACC-TCTTAAAGC
1 TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCAT-TCAAAGC
* * * * **
10980 GAGTAATAAGGCTTTTGAATGAATGTA-TGACTATAAATGGACTTTTTTTCCCAATGAATGTGTT
65 GAGTAATAAGGCTTTTGAAAGAATG-AGTGACTATAAAAGGACTTTTCTTGCCAATGAATGCCTT
* * ** * * *
11044 TTT-CTTCATGTTTATCAAAG-TAGACATTCAATCATAGTTTGTT
129 TTTCCTT-ATATTTCT-TGAGCTAGACATTCAATTATAATCTGTT
* * **********
11087 TTTACCAAAAATGTAAAAAAATTCAACTTACAATCAATTATGAGATTATANNNNNNNNNNAAGCG
1 TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGCG
* * * *
11152 AGTAATAAGGCTTTTG-AAGAAAT-AGGTGATTGTAAATGGACTTTTCTTACCAATGAGAT-CCT
66 AGTAATAAGGCTTTTGAAAG-AATGA-GTGACTATAAAAGGACTTTTCTTGCCAATGA-ATGCCT
* * * * *
11214 TTTT-CTTCATGTTTCTTAAGGTAGATATTCAATTATAGA-CTATT
128 TTTTCCTT-ATATTTCTTGAGCTAGACATTCAATTATA-ATCTGTT
* * * * * * * *
11258 TTAATCGAAAA--TAAAAAAAATCAACTTAAAATTAAATATTAGCTTATAAAACAATTTC-AAGC
1 TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA-TTCAAAGC
* ********** * * * * *
11320 AAGTAATAAGGCTTNNNNNNNNNNGGGTGACTATAAATGAACTTTT-TTACTCAATGAATGGCTT
65 GAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTCTTGC-CAATGAATGCCTT
** * * * *
11384 TTT-C-TATGCGCTTCTTGAGCTAGGCATTGAAATATAATCTGCT
129 TTTCCTTAT--ATTTCTTGAGCTAGACATTCAATTATAATCTGTT
* ** * *
11427 TCAAGGAAAAATGTAAAAACAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT
1 TTAACCAAAAATGTAAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGC
* *
11492 G-GATAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTTTTGCCCATGAATG-CTC
65 GAG-TAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTCTTGCCAATGAATGCCT-
* * * *
11555 TTTTCCTTCTATTTCTTGAGGTTGACAATCAATTCA-AATCTGTT
128 TTTTCCTTATATTTCTTGAGCTAGACATTCAATT-ATAATCTGTT
* * * *
11599 TTGATCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATTAGTTTATAAAACCATTCAAAGCG
1 TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGCG
* * *
11664 AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCTAATGAATGCCTTTT
66 AGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTCTTGCCAATGAATGCCTTTT
* ** * *
11729 TCTTTATATTTCTCAAGTTAAACATTCAATTATAAT-TAGTT
131 TCCTTATATTTCTTGAGCTAGACATTCAATTATAATCT-GTT
* * * * **************
11770 TTAACTAATAATGTAAAAAAAATTGAACTTAAAATCAATTTTGAGATTATANNNNNNNNNNNNNN
1 TTAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGC
* * * * * *
11835 NAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACATTTCTTGCCAATAAATGCCTTT
65 GAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTCTTGCCAATGAATGCCTTT
* * * *
11900 TT-CTCTATGTTTCTTTAAG-TAGACATTAAATTATAGTCTGTT
130 TTCCT-TATATTTC-TTGAGCTAGACATTCAATTATAATCTGTT
* * * * ********** * * *
11942 TTAACTAAAAATGTCAAACAATTCAACTTAAATTCAATTANNNNNNNNNNAAACTATTTAAAGTG
1 TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGCG
* * * * * *
12007 AGTAATAAGTCTATCGAAGGAATGCGTGACT-TCAAATGGACTTTTCTTGCCAATGAATG-CTTT
66 AGTAATAAGGCTTTTGAAAGAATGAGTGACTAT-AAAAGGACTTTTCTTGCCAATGAATGCCTTT
* * * ** * *
12070 TTTCTTGACATTTGTCAATG-TAGACATTCAATTACAATCTCTT
130 TTCCTT-ATATTTCTTGA-GCTAGACATTCAATTATAATCTGTT
* * * * * * * * *
12113 TTGATCAAAAATGTAAAAAAAATTGAACCTAAAATCAATTTTCAGATTATAAAACCATTTAACGT
1 TTAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGC
* * ********** ** *
12178 AAGTAATAAGGCTTTTGAAGGAATNNNNNNNNNNAAATTGACTTTTCTTGCCAATGAAT-TCTAT
65 GAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTCTTGCCAATGAATGCCT-T
* * * * **
12242 TTT-CTTCATGTTTCTTCAGATAGACAATT-AACTATTGTCTGTT
129 TTTCCTT-ATATTTCTTGAGCTAGAC-ATTCAATTATAATCTGTT
* ********** * *
12285 TTAACTAAAAATGTAAAAAAAATTCAACNNNNNNNNNNTTATGAGATTATAAAACAATTTAAAGC
1 TTAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGC
* * * * *
12350 AAGTAATAGGGCTTTTTAAAGAAT-AGGTGACTATAAATGGACTTTTCTT-CTCAATGAATTCCT
65 GAGTAATAAGGCTTTTGAAAGAATGA-GTGACTATAAAAGGACTTTTCTTGC-CAATGAATGCCT
* * * * * *
12413 TTTT-CTTCATGTTTCTTAAAG-TATACATCCAATTATATTATGTT
128 TTTTCCTT-ATATTTCTT-GAGCTAGACATTCAATTATAATCTGTT
* * * ********** *
12457 TTAACTAAATATGTAAAAAAAATT-AACTTAAAATCAATTTTGAGATNNNNNNNNNNTTTAAAGC
1 TTAACCAAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGC
* * * * * * *
12521 GAGTAATAAGGATTTTGAAGGAATGGGTAACCATAAAAGGACTTTTCTTGTCAATGAAT-ACTTG
65 GAGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTCTTGCCAATGAATGCCTT-
* * ** *
12585 TTTCTTTACATTTCTCAAGGCT-GACATTCAATTATACTCTGTT
129 TTTCCTTATATTTCTTGA-GCTAGACATTCAATTATAATCTGTT
* * ********** *
12628 TTAACCAAAAATGTTAACAAATTCAACTTAAAATCAATTATGNNNNNNNNNNACTATTCAAAGCG
1 TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGCG
* * * * **
12693 AGTAATAAGGCTTTTGAAGGAATG-GATAACAATAAATGGACTTTTCTTGCCAATGAAT-ATTTT
66 AGTAATAAGGCTTTTGAAAGAATGAG-TGACTATAAAAGGACTTTTCTTGCCAATGAATGCCTTT
* * * * *
12756 TTTCTTCATGTTTCTAGAAG-TAGACATTCAATTATAGTCTATT
130 TTCCTT-ATATTTCTTG-AGCTAGACATTCAATTATAATCTGTT
* * * *
12799 TTAACCAAAAATTTCAAAAAATTCAACTTAAAATCAAATATGAGATTGTAAAATCGC-TT-AAAG
1 TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-C-CATTCAAAG
*
12862 CGAGTAATAAGGCTTTTGAAGGAAT
64 CGAGTAATAAGGCTTTTGAAAGAAT
12887 ACGNNNNNNN
Statistics
Matches: 1364, Mismatches: 375, Indels: 122
0.73 0.20 0.07
Matches are distributed among these distances:
167 2 0.00
168 8 0.01
169 109 0.08
170 37 0.03
171 683 0.50
172 502 0.37
173 21 0.02
174 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (171 bp):
TTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGCG
AGTAATAAGGCTTTTGAAAGAATGAGTGACTATAAAAGGACTTTTCTTGCCAATGAATGCCTTTT
TCCTTATATTTCTTGAGCTAGACATTCAATTATAATCTGTT
Found at i:11785 original size:343 final size:342
Alignment explanation
Indices: 10916--12886 Score: 1280
Period size: 343 Copynumber: 5.8 Consensus size: 342
10906 NNNNNNNNNN
* * *
10916 TTAACAAAAAATGTAAAAAAATTCAACTTAAAATCAAATATGAGATTATAAAAC-CTCTTAAAGC
1 TTAAC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAAT-TCAAAGC
* * * **
10980 GAGTAATAAGGCTTTTGAATGAATGTA-TGACTATAAATGGACTTTTTTTCCCAATGAATGTGTT
64 GAGTAATAAGGCTTTTGAAGGAATG-AGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTT
* * * * * *
11044 TTTCTTCATGTTTATCAAAGTAGACATTCAATCATAGT-TTGTTTTTACCAAAAATGT-AAAAAA
128 TTTCTTCATGTTTCTC-AAGTAGACATTCAATTATAATCTAGTTTTAACTAAAAATGTAAAAAAA
* ********** *
11107 ATTCAACTTACAATCAATTATGAGATTATANNNNNNNNNNAAGCGAGTAATAAGGCTTTTGAAGA
192 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG
* * * * *
11172 AAT-AGGTGATTGTAAATGGACTTTTCTTACCAATGAGAT-C-CTTTTTCTTCATGTTTCTTAAG
257 AATGA-GTGACTATAAATGGACTTTTCTTGCCAATGA-ATGCTCTTTTCCTTC-TATTTCTTAAG
* *
11234 GTAGATATTCAATTATAGA-CTATT
319 GTAGACATTCAATTATA-ATCTGTT
* * * * * *
11258 TTAATCGAAAA--TAAAAAAAATCAACTTAAAATTAAATATTAGCTTATAAAACAATTTC-AAGC
1 TTAA-CAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAA-TTCAAAGC
* ********** * * * *
11320 AAGTAATAAGGCTTNNNNNNNNNNGGGTGACTATAAATGAACTTTT-TTACTCAATGAATGGCTT
64 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGC-CAATGAATGCCTT
* ** * * * * * **
11384 TTTC-T-ATGCGCTTCTTGAGCTAGGCATTGAAATATAATCT-GCTTCAAGGAAAAATGTAAAAA
128 TTTCTTCAT--GTTTCTCAAG-TAGACATTCAATTATAATCTAGTTTTAACTAAAAATGTAAAAA
* *
11446 CAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTG-GATAATAAGGCTTTTGA
190 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG-TAATAAGGCTTTTGA
* * * * *
11510 AAGAATGAGTGACTATAAAAGGACTTTTTTTGCCCATGAATGCTCTTTTCCTTCTATTTCTTGAG
254 AGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTCTTTTCCTTCTATTTCTTAAG
* *
11575 GTTGACAATCAATTCA-AATCTGTT
319 GTAGACATTCAATT-ATAATCTGTT
* * * *
11599 TTGATCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATTAGTTTATAAAACCATTCAAAGCG
1 TT-AACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTCAAAGCG
*
11664 AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCTAATGAATGCCTTTT
65 AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTT
* * * *
11729 TCTTTATATTTCTCAAGTTAAACATTCAATTATAAT-TAGTTTTAACTAATAATGTAAAAAAAAT
130 TCTTCATGTTTCTCAAG-TAGACATTCAATTATAATCTAGTTTTAACTAAAAATGTAAAAAAAAT
* * ***************
11793 TGAACTTAAAATCAATTTTGAGATTATANNNNNNNNNNNNNNNAGTAATAAGGCTTTTGAAGGAA
194 TCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA
* * * *
11858 TGGGTGACTATAAATGGACATTTCTTGCCAATAAATGC-CTTTTTC-TCTATGTTTCTTTAA-GT
259 TGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTCTTTTCCTTCTA--TTTC-TTAAGGT
* *
11920 AGACATTAAATTATAGTCTGTT
321 AGACATTCAATTATAATCTGTT
* * * ********** * * *
11942 TTAACTAAAAATGTCAAACAATTCAACTTAAATTCAATTANNNNNNNNNNAAACTATTTAAAGTG
1 TTAAC-AAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTCAAAGCG
* * * * *
12007 AGTAATAAGTCTATCGAAGGAATGCGTGACT-TCAAATGGACTTTTCTTGCCAATGAATGCTTTT
65 AGTAATAAGGCTTTTGAAGGAATGAGTGACTAT-AAATGGACTTTTCTTGCCAATGAATGCCTTT
* ** * * * *
12071 TTCTTGACATTTGTCAATGTAGACATTCAATTACAATCT-CTTTTGA-TCAAAAATGTAAAAAAA
129 TTCTTCATGTTTCTCAA-GTAGACATTCAATTATAATCTAGTTTTAACT-AAAAATGTAAAAAAA
* * * * * **
12134 ATTGAACCTAAAATCAATTTTCAGATTATAAAACCATTTAACGTAAGTAATAAGGCTTTTGAAGG
192 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGG
********** * * * * * *
12199 AATNNNNNNNNNNAAATTGACTTTTCTTGCCAATGAATTCTATTTT-CTTCATGTTTCTTCAGAT
257 AATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTCTTTTCCTTC-TATTTCTTAAGGT
* **
12263 AGACAATT-AACTATTGTCTGTT
321 AGAC-ATTCAATTATAATCTGTT
********** *
12285 TTAACTAAAAATGTAAAAAAAATTCAACNNNNNNNNNNTTATGAGATTATAAAACAATTTAAAGC
1 TTAAC-AAAAATGT-AAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTCAAAGC
* * * * *
12350 AAGTAATAGGGCTTTTTAAAGAAT-AGGTGACTATAAATGGACTTTTCTT-CTCAATGAATTCCT
64 GAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGGACTTTTCTTGC-CAATGAATGCCT
* * * *
12413 TTTTCTTCATGTTTCTTAAAGTATACATCCAATTAT-AT-TATGTTTTAACTAAATATGTAAAAA
127 TTTTCTTCATGTTTC-TCAAGTAGACATTCAATTATAATCTA-GTTTTAACTAAAAATGTAAAAA
* ********** *
12476 AAATT-AACTTAAAATCAATTTTGAGATNNNNNNNNNNTTTAAAGCGAGTAATAAGGATTTTGAA
190 AAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAA
* * * * * * * *
12540 GGAATGGGTAACCATAAAAGGACTTTTCTTGTCAATGAATACT-TGTTTCTTTAC-ATTTCTCAA
255 GGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTCT-TTTCCTT-CTATTTCTTAA
*
12603 GGCT-GACATTCAATTATACTCTGTT
318 GG-TAGACATTCAATTATAATCTGTT
* * ********** *
12628 TTAACCAAAAATGTTAACAAATTCAACTTAAAATCAATTATGNNNNNNNNNNACTATTCAAAGCG
1 TTAA-CAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTCAAAGCG
* * ***
12693 AGTAATAAGGCTTTTGAAGGAATG-GATAACAATAAATGGACTTTTCTTGCCAATGAATATTTTT
65 AGTAATAAGGCTTTTGAAGGAATGAG-TGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTT
* * * **
12757 TTCTTCATGTTTCTAGAAGTAGACATTCAATTATAGTCTA-TTTTAACCAAAAAT-TTCAAAAAA
129 TTCTTCATGTTTCT-CAAGTAGACATTCAATTATAATCTAGTTTTAACTAAAAATGTAAAAAAAA
* * * **
12820 TTCAACTTAAAATCAAATATGAGATTGTAAAATCGCTTAAAGCGAGTAATAAGGCTTTTGAAGGA
193 TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGA
12885 AT
258 AT
12887 ACGNNNNNNN
Statistics
Matches: 1230, Mismatches: 339, Indels: 120
0.73 0.20 0.07
Matches are distributed among these distances:
338 2 0.00
339 6 0.00
340 121 0.10
341 132 0.11
342 212 0.17
343 603 0.49
344 145 0.12
345 9 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.35
Consensus pattern (342 bp):
TTAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTCAAAGCGA
GTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTT
CTTCATGTTTCTCAAGTAGACATTCAATTATAATCTAGTTTTAACTAAAAATGTAAAAAAAATTC
AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG
AGTGACTATAAATGGACTTTTCTTGCCAATGAATGCTCTTTTCCTTCTATTTCTTAAGGTAGACA
TTCAATTATAATCTGTT
Found at i:14137 original size:170 final size:169
Alignment explanation
Indices: 13232--14210 Score: 653
Period size: 171 Copynumber: 5.7 Consensus size: 169
13222 NNNNNNNNNN
* *
13232 TTTGAAGGAATGGGTGACTATAAATAGACTTTT-TTACTCAATGAATGGC-TTTTTCTATATGTT
1 TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-C-CAATGAAT-GCTTTTTTCTACATGTT
* * * * **********
13295 TCTCAAGGCAAACATTCAATTATAGTATGTTTTAA-TGAAAAATG-TANNNNNNNNNNACTTAAA
63 TCTCGAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAA-GCTAAAAAAATTCAACTTAAA
* * * * *
13358 ATCAATTATGAGATTATAAAATTATTTAAGGCGAGTAAGAAGACT
126 ATCAATTTTGAGATTATAAAACT-TTTAAAGCGAGTAATAAGGCT
* * ** * * * *
13403 TTTGAAAGAATGGGTGACAATAAAAAGACTTTTCCTACCAATGAATGCTTGTTTCCT-TATATTT
1 TTTGAAGGAATGGGTGACTATAAATGGACTTTT-CTTCCAATGAATGCTT-TTTTCTACATGTTT
* * * * * *
13467 CTCGAGGCTA-ATAATCAATTATAGTATGTTTTAACCAAAAATG-TGAAAAACTTCAACTTAAAA
64 CTCGAGG-TAGACATTCAATTATAGTCTGTTTTAACTAAAAA-GCTAAAAAAATTCAACTTAAAA
* * * * **********
13530 TCAATTATGGGATTATAAAATCATTCAAAGCGAGNNNNNNNNNN
127 TCAATTTTGAGATTATAAAA-CTTTTAAAGCGAGTAATAAGGCT
* * * * * * **
13574 TTTGAAGGAATGGGTGGCTATAAATAGACTTTTCTTGCTAATGAATGCCTCTTTCTTCACATTTC
1 TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CCAATGAATGCTTTTTTCTACATGTTTC
* * * * * * ********
13639 TC-ATGCTAGACATTCAATTATAATCTATTTTAACCAATAATG-TAAAAAAAATTGANNNNNNNN
65 TCGA-GGTAGACATTCAATTATAGTCTGTTTTAACTAA-AAAGCT-AAAAAAATTCAACTTAAAA
**
13702 NNAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
127 TCAATTTTGAGATTATAAAACT-TTTAAAGCGAGTAATAAGGCT
* ** * * * *
13746 TTTGAA-GAATAGAAGACTATAAATGGGCATTTCTTACCAATGAAT-TTTTTTTCTCCATGTTTC
1 TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CCAATGAATGCTTTTTTCTACATGTTTC
* * * *
13809 TCGATGTAGACATTCAATTATAGTCTGTTTGAACTAAAAATCTAAAATAATTCAACTTAAAATCA
65 TCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAGCTAAAAAAATTCAACTTAAAATCA
* * *
13874 ATTTTTAGATTATAAAA-TAATTTAAAGTGAGTAACAAGGCT
130 ATTTTGAGATTATAAAACT--TTTAAAGCGAGTAATAAGGCT
* * * * *
13915 TTTAAAGGAATGGGTGACTATTAATGGACTATT-TTCTCAATAAATGGCTTTTTTC-ACACGTTT
1 TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTC-CAATGAAT-GCTTTTTTCTACATGTTT
* * * *
13978 CTTGAGGCAGGCATTCAATTATAGTCTGTTTTAA-TGAAAAGCATAAAAACAATT-AACTTAAAA
64 CTCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAGC-TAAAAA-AATTCAACTTAAAA
* * *
14041 TCAATTATGAGATTATAAACCCTTTTAAAGCGAGTAATAAGGCC
127 TCAATTTTGAGATTATAAA-ACTTTTAAAGCGAGTAATAAGGCT
* * *
14085 TTTGAAGGAATGGGTGACTATAAATTGACTTTTCTTGCCAGTGAATGC-TTTTTCTTCATGTTTC
1 TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTT-CCAATGAATGCTTTTTTCTACATGTTTC
* * *
14149 TCAAGGTTGACATTTAATTATAGTCTGTTTTAACTAAAAATG-TAAAAAAATTCAACTTAAAA
65 TCGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAA-GCTAAAAAAATTCAACTTAAAA
14211 NNNNNNNNNN
Statistics
Matches: 616, Mismatches: 161, Indels: 63
0.73 0.19 0.08
Matches are distributed among these distances:
168 2 0.00
169 78 0.13
170 236 0.38
171 247 0.40
172 52 0.08
173 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.35
Consensus pattern (169 bp):
TTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTCCAATGAATGCTTTTTTCTACATGTTTCT
CGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAGCTAAAAAAATTCAACTTAAAATCAA
TTTTGAGATTATAAAACTTTTAAAGCGAGTAATAAGGCT
Found at i:16067 original size:171 final size:169
Alignment explanation
Indices: 15345--17178 Score: 635
Period size: 171 Copynumber: 10.7 Consensus size: 169
15335 NNNNNNAAGT
* * * ** * **
15345 GAGTAATAAGGCTTTTGAAGGAATGTGTGACTATGAATAGACTTTTCTTGTCAATAAATG-CATT
1 GAGTAATAAGGCTTTTGAAGGAATG-GAGACTATAAATGGAC-TTTCTTACCAATGAATGTGTTT
** * ********** * * *
15409 TTCTTCATGCTTCTCAAGGTAGACATTCAATTATNNNNNNNNNNAACTAAAAATGTAAAAAACTT
64 TTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATT
* * * * **
15474 CAACTTAAAATCAATGATAAGATTATAAAACCATTCAAAGT
129 GAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* ** * * *
15515 GAGTAATAAGGCTTTTGAAGAAATAAAAGACTATTAATGGACCTTTCTT-CCAAATAAATAG-AT
1 GAGTAATAAGGCTTTTGAAGGAAT-GGAGACTATAAATGGA-CTTTCTTACC-AATGAAT-GTGT
* * * * * * *
15578 TTTTCTACACATTTC-CTGAGGTAGGCATT-TATGTATAGTCTGTTTTAACTAAAAATGTAAAAA
62 TTTTCTTCATATTTCTC-GAGGTAGACATTCAAT-TATAATCTGTTTTAACCAAAAATATAAAAA
** * ********** * **
15641 GCTTCAACTTAAAATCNNNNNNNNNNTTATAAAATCATTTAAAGT
125 AATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * * * **
15686 GAGTAATAAGG-TTTTGAAAGAACGG-GTTACTATAAATGAAGTTTTCTTACCAATGAATGCCTT
1 GAGTAATAAGGCTTTTGAAGGAATGGAG--ACTATAAATGGA-CTTTCTTACCAATGAATGTGTT
********** * * * * *
15749 TTTCTNNNNNNNNNNCAAGGTAAACATTCAATTATAATCTGCTTTAACCAAAAGTGTAAAAAAAA
63 TTTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAAA
* * * **
15814 TTGAACTTAAAACCGATTCTGAGATTATAAAACCATTTAAATT
127 TTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * *
15857 GAGTAATACGGCTTTTGAAAGAATGGGTGACTATAAATGGACTTTGCTTACCAATGAATGTGTTT
1 GAGTAATAAGGCTTTTGAAGGAAT-GGAGACTATAAATGGACTTT-CTTACCAATGAATGTGTTT
**
15922 TTCTTCATATTTCTCGAGGTAGACATTCAATTATTGTCTGTTTTAACCAAAAATATAAAAAAATT
64 TTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATT
* * *
15987 AAACTTACAATCAATTATGAGATTATAAAGCCATTTAAAAC
129 GAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * ** *
16028 GAGTAATATGGCTTTTGAGGGAATAGGAGACTATAAATGGACATTTCTTATGAATAAATGTGTTT
1 GAGTAATAAGGCTTTTGAAGGAAT-GGAGACTATAAATGGAC-TTTCTTACCAATGAATGTGTTT
* * * * * * ** *
16093 TACTACATGTTTCTCGAGGCA-AGCATTTAATTGTAATCTGTTTTAATGAAAAATGT-AAAAAAT
64 TTCTTCATATTTCTCGAGGTAGA-CATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAAT
* ********** *
16156 TCAACTTAAAATCAATTATGAGNNNNNNNNNNCATTTAAAGC
128 TGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * * *
16198 GAGTAATAAGGCTTTTGAAGGAATGGAAGACTATAAATAGAGTTTTCTTGCCAATGAAT-TCCTT
1 GAGTAATAAGGCTTTTGAAGGAATGG-AGACTATAAATGGA-CTTTCTTACCAATGAATGT-GTT
* * *
16262 TTTCCTCATATTTCTCGATGTAGACATTTAATTATAATCTGTTTTAACC-AAAATAGTAAAAAAC
63 TTTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATA-TAAAAAA-
* * ********** *
16326 ATTGAACCTAAAATCAATTTTGAGATTNNNNNNNNNNTTAAAGC
126 ATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * * * * * * *
16370 GAGTAATATGGCCTTTGAAGTAACGGGTGACTATAAATAGACTTTTCTTACCAATAAATACT-TT
1 GAGTAATAAGGCTTTTGAAGGAA-TGGAGACTATAAATGGAC-TTTCTTACCAATGAAT-GTGTT
* * * * * * * ** *
16434 TTTCTTAACATTTCTTGAGGTAGACATTCAATCACAGTTTGTTTTAATAAAAAAAATGTAAATAA
63 TTTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTT-A-ACCAAAAATAT-AA-AA
* * * * * * **
16499 AAATTGAGCATAAAATCAATTGTGGGATAATAAAACAATTTAAAGT
124 AAATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * * * * * * * *******
16545 GAGTAATATGACCTTTGAACGAACAGGTGACTATAAATAGACTTTTCTTGCCAAT-ANNNNNNNN
1 GAGTAATAAGGCTTTTGAAGGAA-TGGAGACTATAAATGGAC-TTTCTTACCAATGA-ATGTGTT
** ** * * * * * ** *
16609 NNTCTTCACGTTTCTTGAGGTAGACAATCAATCATAGTCTGCTTTAATAAAAAATGTAAATAAAA
63 TTTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATAT-AA-AAAA
* * * * * * **
16674 ATTGAACATGAAATCAATTTTGGGATAATAAAACGATTTAAAGT
126 ATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * * * ** *
16718 GAGTTATAAGGCTTTTGAAGGAATGGGAGATTAAAAATGGACTTTTCATGTCGATGAATGCT-TT
1 GAGTAATAAGGCTTTTGAAGGAAT-GGAGACTATAAATGGAC-TTTCTTACCAATGAATG-TGTT
** * * * ******************
16782 TTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTATTNNNNNNNNNNNNNNNNNNNAAA
63 TTTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTT-TTAACCAAAAATATAAAAAAA
* * **
16847 TTGAACTTAAAATCAATTTTGAGATTATAAAATCATTTAAAGT
127 TTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * * * * *
16890 GAGTAATATA-GCTTTTAAAGGAATAGGAGACTATTAATAGACTTTTCTT-CAAAATAAATGGGT
1 GAGTAATA-AGGCTTTTGAAGGAAT-GGAGACTATAAATGGAC-TTTCTTAC-CAATGAATGTGT
* * ** * * * ** *
16953 TTTTCTACATGTTTCAAGAGGTAGGCATTCATTTATAGTCTGTTTTAATGAAAAATATAAAAAAT
62 TTTTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAA
* ********** * **
17018 TTCAACTTANNNNNNNNNNTGAGATTATAAAATCATTTAAAGT
127 TTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
* * * * * * *
17061 GAGTAATAAGGCTTTCGTAGGAATGAGAGAC-ATAACTAGACTTTTCTTGCAAATAAATGCT-TT
1 GAGTAATAAGGCTTTTGAAGGAATG-GAGACTATAAATGGAC-TTTCTTACCAATGAATG-TGTT
* ** * * * *
17124 TTTCATCACGTTTCTTGAGGTAGACATTCAATTATAGTATGTTTTAACTAAAAAT
63 TTTCTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAAT
17179 GTAANNNNNN
Statistics
Matches: 1266, Mismatches: 350, Indels: 96
0.74 0.20 0.06
Matches are distributed among these distances:
168 1 0.00
169 10 0.01
170 316 0.25
171 341 0.27
172 323 0.26
173 142 0.11
174 7 0.01
175 122 0.10
176 4 0.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.33
Consensus pattern (169 bp):
GAGTAATAAGGCTTTTGAAGGAATGGAGACTATAAATGGACTTTCTTACCAATGAATGTGTTTTT
CTTCATATTTCTCGAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTGA
ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAAC
Found at i:16577 original size:175 final size:172
Alignment explanation
Indices: 16363--16813 Score: 524
Period size: 173 Copynumber: 2.6 Consensus size: 172
16353 NNNNNNNNNN
* *
16363 TTAAAGCGAGTAATATGGCCTTTGAAGTAACGGGTGACTATAAATAGACTTTTCTTACCAATAAA
1 TTAAAGTGAGTAATATGGCCTTTGAAG-AACGGGTGACTATAAATAGACTTTTCTTGCCAATAAA
* * * *
16428 TACTTTTTTCTTAACATTTCTTGAGGTAGACATTCAATCACAGTTTGTTTTAATAAAAAAAATGT
65 TACTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATCACAGTCTGCTTTAAT--AAAAAATGT
*
16493 AAATAAAAATTGAGCATAAAATCAATTGTGGGATAATAAAACAAT
128 AAATAAAAATTGAACATAAAATCAATTGTGGGATAATAAAACAAT
* * **
16538 TTAAAGTGAGTAATATGACCTTTGAACGAACAGGTGACTATAAATAGACTTTTCTTGCCAATANN
1 TTAAAGTGAGTAATATGGCCTTTGAA-GAACGGGTGACTATAAATAGACTTTTCTTGCCAATAAA
******** * *
16603 NNNNNNNNTCTTCACGTTTCTTGAGGTAGACAATCAATCATAGTCTGCTTTAATAAAAAATGTAA
65 TACTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATCACAGTCTGCTTTAATAAAAAATGTAA
* * *
16668 ATAAAAATTGAACATGAAATCAATTTTGGGATAATAAAACGAT
130 ATAAAAATTGAACATAAAATCAATTGTGGGATAATAAAACAAT
* * * * * * * * * * * *
16711 TTAAAGTGAGTTATAAGGCTTTTGAAGGAATGGGAGATTAAAAATGGACTTTTCATGTCGATGAA
1 TTAAAGTGAGTAATATGGCCTTTGAA-GAACGGGTGACTATAAATAGACTTTTCTTGCCAATAAA
*
16776 TGCTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAAT
65 TACTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAAT
16814 TATAGTCTAT
Statistics
Matches: 225, Mismatches: 50, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
173 127 0.56
175 97 0.43
176 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.33
Consensus pattern (172 bp):
TTAAAGTGAGTAATATGGCCTTTGAAGAACGGGTGACTATAAATAGACTTTTCTTGCCAATAAAT
ACTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATCACAGTCTGCTTTAATAAAAAATGTAAA
TAAAAATTGAACATAAAATCAATTGTGGGATAATAAAACAAT
Found at i:18478 original size:173 final size:173
Alignment explanation
Indices: 18051--18651 Score: 598
Period size: 173 Copynumber: 3.5 Consensus size: 173
18041 GTTGAAGTTT
* * * * * * * **
18051 TTTACATTTTTCATTAAAACAGACTATAAATGAATGCCTACCTCGAGAAACATGTAGAAAAACTC
1 TTTACATTTTTTATTAAAACAGACTATGATTAAATGTCTACCTCAAGAAACATGAAGAAAAAAGC
* * * * * ** * * *
18116 ATT-ATTTTG-AAAAAAAGTCTATTAATAGTCTCTTATTCTTTTAAAAGCTATATTACTCACTTT
66 ATTCA-TTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCATATTACTCACTTT
* * *
18179 AAAT-GATTTTATAATCTCAAAATTTATTTTAAGTTCAATTTTT-
130 AAATCG-TTTTATTATCCCAAAATTTATTTTATGTTCAATTTTTA
* ** * * * *
18222 TTTAAATTTTTGGTTAAAATAGACAATAATTAAATGTCTACCTCAAGAAACTTGAAGAAAAAAGC
1 TTTACATTTTTTATTAAAACAGACTATGATTAAATGTCTACCTCAAGAAACATGAAGAAAAAAGC
* * * * *
18287 ATTCATCGGCATGAAAAGTCCATTTTTAGTCTCCCATTCCTTCAAAAGCCTTATTACTCACTTTA
66 ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCATATTACTCACTTTA
********** *
18352 AATCGTTTNNNNNNNNNNAAATTGATTTTATGTTCAATTTTTA
131 AATCGTTTTATTATCCCAAAATTTATTTTATGTTCAATTTTTA
* * * * *
18395 TTTACATTTTTTATTAAAGCAGACTATGATTTATTGTCTACCTCAAGAAACGTGAAGAAAAAAGT
1 TTTACATTTTTTATTAAAACAGACTATGATTAAATGTCTACCTCAAGAAACATGAAGAAAAAAGC
* * ** *
18460 ATTCTTTGGCAAGAAAAGTCTATTTATAGTCACCTGTTCCTTCAAAGGCCATATTACTCACTTTA
66 ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCATATTACTCACTTTA
* *
18525 AATTGTTTTATTATCCCAAAATTTATTTTATGCTCAATTTTTA
131 AATCGTTTTATTATCCCAAAATTTATTTTATGTTCAATTTTTA
* *
18568 TTTACATTTTTTTTATTAAAACAGACTATGATTGAATGTCTACCTCAAGAAATATGAAGAAAAAA
1 TTTACA--TTTTTTATTAAAACAGACTATGATTAAATGTCTACCTCAAGAAACATGAAGAAAAAA
*
18633 GCATTCATTGGTAAGAAAA
64 GCATTCATTGGCAAGAAAA
18652 NNNNNNNNNN
Statistics
Matches: 344, Mismatches: 80, Indels: 8
0.80 0.19 0.02
Matches are distributed among these distances:
171 57 0.17
172 73 0.21
173 146 0.42
175 68 0.20
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.38
Consensus pattern (173 bp):
TTTACATTTTTTATTAAAACAGACTATGATTAAATGTCTACCTCAAGAAACATGAAGAAAAAAGC
ATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCATATTACTCACTTTA
AATCGTTTTATTATCCCAAAATTTATTTTATGTTCAATTTTTA
Found at i:20725 original size:171 final size:171
Alignment explanation
Indices: 20427--20932 Score: 488
Period size: 171 Copynumber: 3.0 Consensus size: 171
20417 TATTTTTTGT
* * * *
20427 TAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTGATA-AAAATGGCATTCATTGACAAG
1 TAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATG-TAGAAAAAGCCATTCATTGACAAA
* * * * *
20491 AAAAGTCCTTTTATAGTCACCCATTCCTTGAAGAGCCTTATTATTCGCTTTAAATGATTTTATAA
65 AAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAA
* * * * *
20556 TCTCATAATTCATTTTAAGTTGATTTTTTTTACATTTTTCA-C
130 TCTAATAATTCATTTTAAGTTAAATGTTTTTACATATTT-AGC
* * * * *
20598 TAAAACATG-CTATAATTGAATGTTTCCCTTGACAAACATGTAGAAAAAGCCATTTATTGAGAAA
1 TAAAACA-GACTATAATTGAATGTCTACCTTGAGAAACATGTAGAAAAAGCCATTCATTGACAAA
*
20662 AAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCTTTATTACTCG-TTTCAAATTG-TTTTAT
65 AAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCGCTTT-AAA-TGATTTTAT
* * *
20725 AATCTAATATTTGATTTTAAGTTAAATGTTTTTACATATTTAGT
128 AATCTAATAATTCATTTTAAGTTAAATGTTTTTACATATTTAGC
* ********** * *
20769 TAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGAAG-AANNNNNNNNNNTTGGCAAGA
1 TAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGTAGAAAAAGCCATTCATTGACAAAA
* * * * *
20833 AAAGTCAATTTATAGTCGCCCATTCCTTCAAAGGCCTTATTACTCGATTTAAAT-AGTTTTATAA
66 AAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGA-TTTTATAA
* * *
20897 TCTCAA-AATTAATTTTAGGTTCAATTGTTTTTACAT
130 TCT-AATAATTCATTTTAAGTT-AAATGTTTTTACAT
20933 TANNNNNNNN
Statistics
Matches: 275, Mismatches: 49, Indels: 22
0.79 0.14 0.06
Matches are distributed among these distances:
169 1 0.00
170 82 0.30
171 189 0.69
172 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.37
Consensus pattern (171 bp):
TAAAACAGACTATAATTGAATGTCTACCTTGAGAAACATGTAGAAAAAGCCATTCATTGACAAAA
AAAGTCCATTTATAGCCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAAT
CTAATAATTCATTTTAAGTTAAATGTTTTTACATATTTAGC
Found at i:24010 original size:171 final size:171
Alignment explanation
Indices: 23461--25596 Score: 1001
Period size: 171 Copynumber: 12.5 Consensus size: 171
23451 NNNNNNNNNN
* * *
23461 AAGAAAAGTCCATTTATAGTCA-CTCATTCCTTCAAAAGCCTTATTACTCTCTTTGAATGATTTT
1 AAGAAAAGTCCATTTATAGTCACCT-ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTT
* * * * * * *
23525 ATAAACTAATAATTGATTTTAAGTTGAATTTGTTTACATTTTT-AGTCAAAATAGATTATAATT-
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGA-TTAAAACAGACTATAATTG
* * * *
23588 AATTGTCAACCTTGAGAAATA-GAAGGAAAAA-AGCATTCATGGGC
129 AA-TGTCTACCTTAAGAAACATGAA-GAAAAAGA-CATTCATTGGC
*** * * * * *
23632 AAGAAAAGTTTTTTTATAGTCACCCATTCTTTCAAAAACCTTATTATTCACTTTAAA-TAGTTTT
1 AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTA-TTTT
* * * ** * * *
23696 TTAATCTCATAAATGATTTTAAGTTGAATTTTTTTTACATTTTTCCTTGAAACAGACTATATTTC
65 ATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTATATTTTTGATTAAAACAGACTATAATTG
* ** * * *
23761 AATGCCTGGCTTAAG-AA-GTGCATAGAAAAAGGCATTCATT-GA
129 AATGTCTACCTTAAGAAACATG-A-AGAAAAAGACATTCATTGGC
* * *
23803 ATAAAAAAGTTCATTTATAGTCA-CTCATTCCTTCAAAAGCCTTATTACTCGCTTGAAATTATTT
1 A-AGAAAAGTCCATTTATAGTCACCT-ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTT
* * * *
23867 TATAATCTAATATTTGATTTTAAGTTGAATTTTTTTGTATTTTTGATTAAAACAGTCTATAATTG
64 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAATTG
*
23932 AATGTCTACCTTAAGAAACATGAAGAAAAAGAAATTCATTGGC
129 AATGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGGC
* * * * *
23975 AAGAAAAGTCCATTTACAATCACCTATTTCTTCAAAAGTCTTATTACTCGCTTTAAATTGTTTTA
1 AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTTA
* ********** * * *
24040 TAATATCATAATTNNNNNNNNNNTGAATTTTTTTACATTTTTGGTTAAAACAAACTATAATTGAA
66 TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAATTGAA
* * * *
24105 TGTCTACTTTGACAAACATGAAGAAAAACACATTCATTGAG-
131 TGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTG-GC
* *********** * **
24146 AAGAAAAGTCCATTTATAGACACANNNNNNNNNNAAAGCCTTATTACTCGCTTTAAGTGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTTA
* *
24211 TAATCTCATATTTGATTTTAAGTTGAATTTTTTTATATTTTTTG-TTAAAATAGACTATAATTGA
66 TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATA-TTTTTGATTAAAACAGACTATAATTGA
********************************
24275 ANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTCATTGGC
130 ATGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGGC
* * * * *
24317 AAGAAAAGCCCATTTATAGTTACCCATTCCTTCAAAAGCCTTATTGCTCACTTTAAATTATTTTA
1 AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTTA
* * * * *
24382 TAATCTCAAAATTGATTTTATGATGAATGTTTTTATATTTTTCATTAAAACAGACTATAATTGAA
66 TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAATTGAA
* * * * * * *
24447 TGTCTACTTTGAGAAATATAAAGAAAAAGGCTTTCATTAGC
131 TGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGGC
* * * * **
24488 AAGAAAAGTCTATTTATAGGCACGTATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTTA
* ************************************ *
24553 TAATCTAATAATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATAGACTATAATTGAA
66 TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAATTGAA
* * * *
24618 TGTCTACCTTGAGAAACATGAAGAAAAA-AGTATTCATTAGT
131 TGTCTACCTTAAGAAACATGAAGAAAAAGA-CATTCATTGGC
** * ********** **
24659 AAGAAATA-TCCATTGGTAGTCTCCTATTCCTTCAAAAGCCTTATTNNNNNNNNNNAATGGTTTT
1 AAGAAA-AGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTT
* * * * * * *
24723 ATAATTTGAAAATTGATTTTAGGTTCAATTTTTTTATATTATTGGA-TAAAACAGATTATAATTG
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATT-TTTGATTAAAACAGACTATAATTG
* * * * ** * **
24787 GATGTCTAGCATGAGAAATGTGGAGAAAAAGGTATTCATTGGC
129 AATGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGGC
* * ********* * **
24830 AAGAAAAGTCTATTCATNNNNNNNNNNTT-CTTCAAAAGCCTTATTACTCACTTTAAATGGTTTT
1 AAGAAAAGTCCATTTAT-AGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTT
* * * * *
24894 AT-ATCTCATAATTGAGTTTAAGTTGAATTTTTTTTACATTTTTGATCAAAACATATTATAATTG
65 ATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTATATTTTTGATTAAAACAGACTATAATTG
* * * ** *
24958 AGTGTCTACATCAAGAAATGTGAAGAAAAAGACATTCATTGGG
129 AATGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGGC
* ** ** * *********
25001 AAGAAAAGTCCATTTCTAGTCACAAATTTGTT-AAAAGCCTTATTACTTGCTTTAANNNNNNNNN
1 AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTTA
* * * **
25065 NAATCTCATATTTGATTTTAAGTTG-ATGTTTTTTATATTTTTGTTTAAAGTAGACTATAATTGA
66 TAATCTCATAATTGATTTTAAGTTGAAT-TTTTTTATATTTTTGATTAAAACAGACTATAATTGA
* * * *
25129 ATATCTACCTCAAGAAACGTGAAGAAACAAGA-ATTCATTGGT
130 ATGTCTACCTTAAGAAACATGAAGAAA-AAGACATTCATTGGC
* * * * * **
25171 AAGAAATA-TCCATTTATAGTCTCATTTTCCTTCAAAAGCCTTATTACTCACCTTAAATGGTTTT
1 AAGAAA-AGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTT
********** * * *
25235 ATAATCTCATAANNNNNNNNNNGTTGAATTTTTTTACATTTTTGGTTAAAACATACTATAATTGA
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAATTGA
**
25300 ATGTCTAGTTTAAGAAACATGAAGAAAAA-AGCATTCATTGGC
130 ATGTCTACCTTAAGAAACATGAAGAAAAAGA-CATTCATTGGC
* * **
25342 AAGAAATGTCC-TTTCATAGTCACCTATTCCTTCAAAAGTCTTATTACTCGCTTTAAATGGTTTT
1 AAGAAAAGTCCATTT-ATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTT
*************** * *
25406 ATAATNNNNNNNNNNNNNNNAAGTTGAATTTTTTTACATTTTT-AGTTAAAACAAACTATAATTG
65 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGA-TTAAAACAGACTATAATTG
* * * **
25470 AATGTCTACCATGAGAAACAAGAAGAAACAAG-CATTCATTAAC
129 AATGTCTACCTTAAGAAACATGAAGAAA-AAGACATTCATTGGC
* * * * * * **
25513 AACAAAACTCCATTTATAGTCTCTTATTCCTTCAAAAGCTTTATTACTCGCTCTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTTA
* *
25578 TAATCTGAAAATTGATTTT
66 TAATCTCATAATTGATTTT
25597 NNNNNNNNNN
Statistics
Matches: 1417, Mismatches: 505, Indels: 86
0.71 0.25 0.04
Matches are distributed among these distances:
169 2 0.00
170 145 0.10
171 1116 0.79
172 147 0.10
173 7 0.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.36
Consensus pattern (171 bp):
AAGAAAAGTCCATTTATAGTCACCTATTCCTTCAAAAGCCTTATTACTCGCTTTAAATTATTTTA
TAATCTCATAATTGATTTTAAGTTGAATTTTTTTATATTTTTGATTAAAACAGACTATAATTGAA
TGTCTACCTTAAGAAACATGAAGAAAAAGACATTCATTGGC
Found at i:25145 original size:170 final size:162
Alignment explanation
Indices: 24896--25218 Score: 323
Period size: 170 Copynumber: 1.9 Consensus size: 162
24886 ATGGTTTTAT
* * * *
24896 ATCTCATAATTGAGTTTAAGTTGAATTTTTTTTACATTTTTGATCAAAACATATTATAATTGAGT
1 ATCTCATAATTGAGTTTAAGTTGAATGTTTTTTACATTTTTGATCAAAACAGACTATAATTGAAT
* * *
24961 GTCTACATCAAGAAATGTGAAGAAA-AAGACATTCATTGGGAAGAAA-AGTCCATTTCTAGTCAC
66 ATCTACATCAAGAAACGTGAAGAAACAAGA-ATTCATTGGGAAGAAATA-TCCATTTATAGTCAC
*
25024 AAATTT-GTT-AAAAGCCTTATTACTTGCTTTAANNNNNNNNNNA
129 -AATTTCCTTCAAAAGCCTTATTACTTGCTTTAA----------A
* * * * * **
25067 ATCTCATATTTGATTTTAAGTTG-ATGTTTTTTATATTTTTGTTTAAAGTAGACTATAATTGAAT
1 ATCTCATAATTGAGTTTAAGTTGAATGTTTTTTACATTTTTGATCAAAACAGACTATAATTGAAT
* * * *
25131 ATCTACCTCAAGAAACGTGAAGAAACAAGAATTCATTGGTAAGAAATATCCATTTATAGTCTCAT
66 ATCTACATCAAGAAACGTGAAGAAACAAGAATTCATTGGGAAGAAATATCCATTTATAGTCACAA
25196 TTTCCTTCAAAAGCCTTATTACT
131 TTTCCTTCAAAAGCCTTATTACT
25219 CACCTTAAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
169 4 0.03
170 84 0.65
171 41 0.32
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.38
Consensus pattern (162 bp):
ATCTCATAATTGAGTTTAAGTTGAATGTTTTTTACATTTTTGATCAAAACAGACTATAATTGAAT
ATCTACATCAAGAAACGTGAAGAAACAAGAATTCATTGGGAAGAAATATCCATTTATAGTCACAA
TTTCCTTCAAAAGCCTTATTACTTGCTTTAAA
Found at i:26414 original size:161 final size:161
Alignment explanation
Indices: 26146--26464 Score: 406
Period size: 161 Copynumber: 2.0 Consensus size: 161
26136 ACTTTAAATA
* *******
26146 GTTTTATAATCTCATAATTGATTGTAAGTTGAATATTTTTACATTTTTGGTTAAAACANNNNNNN
1 GTTTTATAATCTCATAATTGATTGTAAGTAGAATATTTTTACATTTTTGGTTAAAACAGACTATA
*** ** * *
26211 NNNGAATGTCTACTTTGAGAAACATGAAGAAAAACACATTCATTGG-GAAGAAAAGTCTATTTCC
66 ATTGAATGTCTACTTCAAGAAACATGAAGAAAAACACATTCATTGGTG-AGAAAAGTCCATTTAC
26275 AGTCACCCATTCCTTCAAAGGCCTTATTAGTG
130 AGTCACCCATTCCTTCAAAGGCCTTATTAGTG
* * *
26307 GTTTTATAATCTCATATTTGATTTTAAGTAGAATGTTTTTACATTTTTGGTTAAAACAGACTATA
1 GTTTTATAATCTCATAATTGATTGTAAGTAGAATATTTTTACATTTTTGGTTAAAACAGACTATA
* ** *
26372 ATTGATTGTCTACTTCAAGAAACATGAAGAAAAAGGCATTCATTGGTGAGAAAAGTCCATTTATA
66 ATTGAATGTCTACTTCAAGAAACATGAAGAAAAACACATTCATTGGTGAGAAAAGTCCATTTACA
* *
26437 GTTATCCATTCCTTCAAAGGCCTTATTA
131 GTCACCCATTCCTTCAAAGGCCTTATTA
26465 CTCACTTNNN
Statistics
Matches: 133, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
161 132 0.99
162 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.36
Consensus pattern (161 bp):
GTTTTATAATCTCATAATTGATTGTAAGTAGAATATTTTTACATTTTTGGTTAAAACAGACTATA
ATTGAATGTCTACTTCAAGAAACATGAAGAAAAACACATTCATTGGTGAGAAAAGTCCATTTACA
GTCACCCATTCCTTCAAAGGCCTTATTAGTG
Found at i:26659 original size:171 final size:168
Alignment explanation
Indices: 26024--26844 Score: 484
Period size: 171 Copynumber: 4.9 Consensus size: 168
26014 NNNNNNNNNN
** * * * * *
26024 ATTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACGTGAAGAAAAAGGAAGTCACTGGTAA
1 ATTAAAACAGACTATAATTGAATGTCTATTTTGAGAAACGTGAAG-AAAAGGCATTCATTGGCAA
* * ********* *
26089 GAAAAGTCCATTTACATTCACNNNNNNNNNNAAAAGCCTTATTAGTCACTTTAAAT-AGTTTTAT
65 GAAAAGTCCATTTATAGTCAC--CATTCCTTCAAAGCCTTATTACTCACTTTAAATGA-TTTTAT
* * * *
26153 AATCTCATAATTGATTGTAAGTTGAATATTTTTACATTTTTG
127 AATCTCAAAATTGATTTTAAGTTGAATGTTTTTACATTTTTT
* ********** * * ** *
26195 GTTAAAACANNNNNNNNNNGAATGTCTACTTTGAGAAACATGAAGAAAAACACATTCATTGGGAA
1 ATTAAAACAGACTATAATTGAATGTCTATTTTGAGAAACGTGAAG-AAAAGGCATTCATTGGCAA
* ** * *
26260 GAAAAGTCTATTTCCAGTCACCCATTCCTTCAAAGGCC----T--T-A--TT-AGTGGTTTTATA
65 GAAAAGTCCATTTATAGTCA-CCATTCCTTCAAA-GCCTTATTACTCACTTTAAATGATTTTATA
* * * *
26315 ATCTCATATTTGATTTTAAGTAGAATGTTTTTACATTTTTG
128 ATCTCAAAATTGATTTTAAGTTGAATGTTTTTACATTTTTT
* * * ** * **
26356 GTTAAAACAGACTATAATTGATTGTCTACTTCAAGAAACATGAAGAAAAAGGCATTCATTGGTGA
1 ATTAAAACAGACTATAATTGAATGTCTATTTTGAGAAACGTGAAG-AAAAGGCATTCATTGGCAA
* **********
26421 GAAAAGTCCATTTATAGTTATCCATTCCTTCAAAGGCCTTATTACTCACTTNNNNNNNNNNTATA
65 GAAAAGTCCATTTATAGTCA-CCATTCCTTCAAA-GCCTTATTACTCACTTTAAATGATTTTATA
*
26486 ATCTCAAAATTGATTTTGAGTTGAATGTTTTTACATTTTTT
128 ATCTCAAAATTGATTTTAAGTTGAATGTTTTTACATTTTTT
* * * *
26527 ATTAAAACAGACTATAATTTAATGTCTATTTTGAGAGATGTGAAGAAAACGGCATTCATTAGCAA
1 ATTAAAACAGACTATAATTGAATGTCTATTTTGAGAAACGTGAAGAAAA-GGCATTCATTGGCAA
**
26592 GAAAAGTCCATTTATAGTCACACATT-CTCTCGAAAGCCTTATTACTTGCTTTAAATGATTTTAT
65 GAAAAGTCCATTTATAGTCAC-CATTCCT-TC-AAAGCCTTATTACTCACTTTAAATGATTTTAT
********** *
26656 AATCT-AATAATNNNNNNNNNNTTGAA-GTTTTT-TATATTTTT
127 AATCTCAA-AATTGATTTTAAGTTGAATGTTTTTACAT-TTTTT
* * * *
26697 AGTTAAAACAGATTATAATTGAATGTGTATCTTGAGAAACGTGAAGAAAAAGCATTCATTGGCAA
1 A-TTAAAACAGACTATAATTGAATGTCTATTTTGAGAAACGTGAAGAAAAGGCATTCATTGGCAA
* * ** * * * **
26762 GAAATGTCTATTGGTAGTCTCTTATTCCTTCAAAAGCCTTATTACTCACTTTATATGGGTTTATA
65 GAAAAGTCCATTTATAGTCAC-CATTCCTTC-AAAGCCTTATTACTCACTTTAAATGATTTTATA
26827 ATCTCAAAATTGATTTTA
128 ATCTCAAAATTGATTTTA
26845 GATTCAATTT
Statistics
Matches: 489, Mismatches: 139, Indels: 45
0.73 0.21 0.07
Matches are distributed among these distances:
161 127 0.26
162 2 0.00
164 1 0.00
165 2 0.00
167 2 0.00
168 1 0.00
169 2 0.00
170 94 0.19
171 254 0.52
172 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.35
Consensus pattern (168 bp):
ATTAAAACAGACTATAATTGAATGTCTATTTTGAGAAACGTGAAGAAAAGGCATTCATTGGCAAG
AAAAGTCCATTTATAGTCACCATTCCTTCAAAGCCTTATTACTCACTTTAAATGATTTTATAATC
TCAAAATTGATTTTAAGTTGAATGTTTTTACATTTTTT
Found at i:27270 original size:171 final size:172
Alignment explanation
Indices: 26969--27332 Score: 461
Period size: 171 Copynumber: 2.1 Consensus size: 172
26959 NNNNNNNNTA
* *
26969 GTTTTATAATCTCATAATTGATTTTAAGTTGAATTTGTTTTATATTTTTAGTCAAAATAGATTAT
1 GTTTTATAATCTCATAATTGATTTTAAGTTGAAGTTGTTTTATATTTTTAGTCAAAATAGACTAT
* * * * * *
27034 AATTGAGTGTCGAGATCGAGAAATGTGAAGAAAAAAGCATTCATTGGGAAGAAAAGTCTATTTAT
66 AATTGAATGTCGACATCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
27099 AGCCACACATTCCATCAAAAACCTTATTACT-AGCTTTAAATG
131 AGCCACACATTCCATCAAAAACCTTATTACTCA-CTTTAAATG
* *
27141 GTTTTATAAAT-TCATATTTGATTTTAAGTTGAAGTT-TTTTATATTTTT-GATTAAAATAGACT
1 GTTTTAT-AATCTCATAATTGATTTTAAGTTGAAGTTGTTTTATATTTTTAG-TCAAAATAGACT
*
27203 ATAATTGAATGT-GTACCTCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAATA-TCCAT
64 ATAATTGAATGTCG-ACATCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAA-AGTCCAT
* * *** ** *
27266 TTATAGTCTCGTTTTCTTTCAAAAGCCTTATTACTCACTTTAAATG
127 TTATAGCCACACATTCCATCAAAAACCTTATTACTCACTTTAAATG
*
27312 GTTTTCTAATCTCATAATTGA
1 GTTTTATAATCTCATAATTGA
27333 NNNNNNNNNN
Statistics
Matches: 165, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
170 5 0.03
171 125 0.76
172 32 0.19
173 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (172 bp):
GTTTTATAATCTCATAATTGATTTTAAGTTGAAGTTGTTTTATATTTTTAGTCAAAATAGACTAT
AATTGAATGTCGACATCAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTAT
AGCCACACATTCCATCAAAAACCTTATTACTCACTTTAAATG
Found at i:27849 original size:169 final size:170
Alignment explanation
Indices: 27433--27866 Score: 462
Period size: 170 Copynumber: 2.6 Consensus size: 170
27423 NNNNNNNNNN
* * *
27433 GAGAAATGTGAAGAAAAAGGCATTCATTAGCAAGAAAAGTCCATTTATAGTCACGC-ATTCCCTC
1 GAGAAATGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCAC-CTATTCCTTC
** *
27497 AAAAGCCTTATTACTTGCTTTAAAAGGTTTTATAAACTAATAATTAATTTTAAGTTAAATTTTTT
65 AAAAGCCTTATTACTCACTTTAAAAGGTTTTACAAACTAATAATTAATTTTAAGTTAAATTTTTT
* * * * **
27562 ATATTTTTGGTTAAAATAGACTATAATTAAATGTTTACCTT
130 ATATTATTGGATAAAACAGACTATAATTAAATGTCTACCAC
* * * * * * * * *
27603 AAGAAACGTGAAGAAAAAAGCATTCATCGGCAAGAAATGCCTATTGATAGTCTCTTATTCCTTCA
1 GAGAAATGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCTATTCCTTCA
********** * * * *
27668 AAAGCCTTATTACTCANNNNNNNNNNTTTTACAATCTGAA-AATTGATTTTAGGTTTAATTTTTT
66 AAAGCCTTATTACTCACTTTAAAAGGTTTTACAAACT-AATAATTAATTTTAAGTTAAATTTTTT
* * *
27732 ATATTATTGGATAAAACAGATTATAATTAGATGTCTAGCAC
130 ATATTATTGGATAAAACAGACTATAATTAAATGTCTACCAC
*
27773 GAGAAATGTGAA-AAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCTCTTCCTTCA
1 GAGAAATGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCTATTCCTTCA
*
27837 AAAGCCTTATTACTCAC-TTAAATGGTTTTA
66 AAAGCCTTATTACTCACTTTAAAAGGTTTTA
27867 TAATCTCATA
Statistics
Matches: 205, Mismatches: 57, Indels: 6
0.76 0.21 0.02
Matches are distributed among these distances:
168 5 0.02
169 60 0.29
170 138 0.67
171 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
GAGAAATGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCTATTCCTTCA
AAAGCCTTATTACTCACTTTAAAAGGTTTTACAAACTAATAATTAATTTTAAGTTAAATTTTTTA
TATTATTGGATAAAACAGACTATAATTAAATGTCTACCAC
Found at i:28338 original size:172 final size:172
Alignment explanation
Indices: 28052--28463 Score: 508
Period size: 172 Copynumber: 2.4 Consensus size: 172
28042 NNNNNNNNNN
* ** * *
28052 TAGTCACCCATTCCTTCAAAAGCCTTATTACTCGTTTTAAATTATTTTATAATCCAATAATTGAT
1 TAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTAAAAATTGAT
* * ** * *
28117 TTTAAGCTGATTTTTTTTTACATTTTTAGTTAAAACAGTTTAGAATTGAATGTCTACTTTGAGAA
66 TTTAAGCTGAATTCTTTTTACATTTTTAGTTAAAACAGACTAGAATTGAATGTCTACCTTAAGAA
* **
28182 ACGTAA-A-GAAA-AAGATATTCATTGGCAAGAAATGTCC-TTTCA
131 AC--AAGATGAAACAAG-TATTCATTGACAAGAAAACTCCATTT-A
* *
28224 TAGTCACCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAATGGTATTATAATCTAAAAATTGAT
1 TAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTAAAAATTGAT
* * * *
28289 TTTAAGTTGAATTCTTTTTACATTTTTTGTTAAAATAGACTATAATTGAATGTCTACCTTAAGAA
66 TTTAAGCTGAATTCTTTTTACATTTTTAGTTAAAACAGACTAGAATTGAATGTCTACCTTAAGAA
28354 ACAAGATGAAACAAGTATTCATTGACAAGAAAACTCCATTTA
131 ACAAGATGAAACAAGTATTCATTGACAAGAAAACTCCATTTA
**** * * * *
28396 TAGTCTTTTATTCTTTCAAAAGCTTTATTACTCGCTCTAAATGGTTTTATAATCTGAAAATTGAT
1 TAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTAAAAATTGAT
28461 TTT
66 TTT
28464 NNNNNNNNNN
Statistics
Matches: 206, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
170 2 0.01
171 1 0.00
172 197 0.96
173 6 0.03
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (172 bp):
TAGTCACCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTAAAAATTGAT
TTTAAGCTGAATTCTTTTTACATTTTTAGTTAAAACAGACTAGAATTGAATGTCTACCTTAAGAA
ACAAGATGAAACAAGTATTCATTGACAAGAAAACTCCATTTA
Found at i:30245 original size:172 final size:171
Alignment explanation
Indices: 29946--30404 Score: 454
Period size: 172 Copynumber: 2.7 Consensus size: 171
29936 NNCAAAAGTT
* ** *
29946 TTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAATAGAAGTTTTTTATA-TT
1 TTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAA-TTTTTTTTACTT
* * * * * * *
30010 TTTGGTTAAAACAGACTATAATTGAATGTCAACCTCGAGAAACATGAAGAAAACAACATTCATTG
65 TTTGGTCAAAACAGATTATAATTGAGTGTCAACCTTGAGAAATATAAAGAAAACAACATTCATTA
* * ** * ***********
30075 GCAAGAAATGCCCATTTATAGTCTCCTNNNNNNNNNNAAGCC
130 GAAAGAAAAGCCCATTTATAACCACCAATTCTTTCAAAAGCC
* * * * * *
30117 TTATTACTCGCTTTAAATGATTTTGTAATCTTAAAATTGATTTTAGGTTTAATTTTTTTTACTTT
1 TTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACTTT
* * * **
30182 ATTGATCAAAACAGATTATAATTGAGTGTCTACCTTGAGAAATTTAAAGAAAA-AGGTATTCATT
66 -TTGGTCAAAACAGATTATAATTGAGTGTCAACCTTGAGAAATATAAAGAAAACA-ACATTCATT
* * *
30246 AGAAAGAAAAGTCTATTTATAACCACGAATTCTTTCAAAAGCC
129 AGAAAGAAAAGCCCATTTATAACCACCAATTCTTTCAAAAGCC
* * *
30289 TTCTCACTCGCTTTAAATGGTTGTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACATT
1 TTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTAC-TT
* *
30354 TTTGGGCAAAACAGATTATAATTGAGTGTCGACCTTGAGAAATATAAAGAA
65 TTTGGTCAAAACAGATTATAATTGAGTGTCAACCTTGAGAAATATAAAGAA
30405 NNNNNNNNNN
Statistics
Matches: 231, Mismatches: 53, Indels: 7
0.79 0.18 0.02
Matches are distributed among these distances:
170 8 0.03
171 48 0.21
172 172 0.74
173 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.38
Consensus pattern (171 bp):
TTATTACTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTCAATTTTTTTTACTTT
TTGGTCAAAACAGATTATAATTGAGTGTCAACCTTGAGAAATATAAAGAAAACAACATTCATTAG
AAAGAAAAGCCCATTTATAACCACCAATTCTTTCAAAAGCC
Found at i:31974 original size:171 final size:170
Alignment explanation
Indices: 31304--31975 Score: 493
Period size: 170 Copynumber: 3.9 Consensus size: 170
31294 NNNNNNNNNN
* * * ** * *
31304 TTAAGTTGAATTTTTTTACATTTTTCACTAAAACACGCTATAATTGAATG-CTTCCCTTAAGAAA
1 TTAAGTTGAATTTTTTTTCATTTTT-AGTTAAACAAACTATAATTGAATGTC-TACCTTGAGAAA
** ** * * * * * * * *
31368 GGTGTA-GAAAAAGCCATTCATTGAGAAAAAAAAGTCCATTTATAGCCACCCATTCCTTTAAAAG
64 CATG-AGGAAAAAAACATTTATTG-GCAAGAAAAGTCCATTTAAAGTCTCTCATTCCTTCAAAAG
* * * *
31432 CTTTATTACTCGTTTTAAATTGTTTTATAATATAATATTTGATT
127 CCTTATTACTCGCTTTAAATTGTTTTATAATCTAATAATTGATT
*********
31476 TTAAGTTGAATTTTTTTAT-ATTTTTAGTTAANNNNNNNNNNAATTGAATGTCTACCTTGAGAAA
1 TTAAGTTGAATTTTTTT-TCATTTTTAGTTAA-ACAAACTATAATTGAATGTCTACCTTGAGAAA
* * * * * *
31540 CATGAAG-AAAAAGCATTTATTGGCAAGAAAAGTCAATTTATAGT-TGTCCATTCCTTCAAAGGC
64 CATGAGGAAAAAAACATTTATTGGCAAGAAAAGTCCATTTAAAGTCTCT-CATTCCTTCAAAAGC
********** *
31603 CTTATTACTCGCTNNNNNNNNNNTTATAATCTCATAATTGATT
128 CTTATTACTCGCTTTAAATTGTTTTATAATCTAATAATTGATT
* * * *
31646 TTAAGTTCAATGTTTTTACACTTTTTA-TTAAAACAAACTATAATTGAAT-TCTTGCCTTGAGAA
1 TTAAGTTGAATTTTTTTTCA-TTTTTAGTT-AAACAAACTATAATTGAATGTC-TACCTTGAGAA
* * ** * * * *
31709 ACGTGTGGAAAAACCCATTTATTGTG-AA-AAAGGTCCA-TTAATTGTCACCCATTCCTTCAAAA
63 ACATGAGGAAAAAAACATTTATTG-GCAAGAAAAGTCCATTTAA-AGTCTCTCATTCCTTCAAAA
* * * *
31771 GTCTTATTACTCACTTTATATTATTTTATAATCTAATAATTGA-T
126 GCCTTATTACTCGCTTTAAATTGTTTTATAATCTAATAATTGATT
* * *
31815 TTAAGTTGAATTTTTTTCTCATTTTTAGTTCAAACAGACTATAATTGAATGTGTACATTGAGAAA
1 TTAAGTTGAATTTTTTT-TCATTTTTAGTT-AAACAAACTATAATTGAATGTCTACCTTGAGAAA
* * *
31880 CATGAGGAAAAAAACATTCATTGGCAAGAAATGTCCATTTAAAGTCTCTTATTCCTTCAAAAGCC
64 CATGAGGAAAAAAACATTTATTGGCAAGAAAAGTCCATTTAAAGTCTCTCATTCCTTCAAAAGCC
*
31945 TTATTACTCGCTTTAAATGGTTTTATAATCT
129 TTATTACTCGCTTTAAATTGTTTTATAATCT
Statistics
Matches: 376, Mismatches: 105, Indels: 39
0.72 0.20 0.08
Matches are distributed among these distances:
169 28 0.07
170 203 0.54
171 94 0.25
172 50 0.13
173 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.38
Consensus pattern (170 bp):
TTAAGTTGAATTTTTTTTCATTTTTAGTTAAACAAACTATAATTGAATGTCTACCTTGAGAAACA
TGAGGAAAAAAACATTTATTGGCAAGAAAAGTCCATTTAAAGTCTCTCATTCCTTCAAAAGCCTT
ATTACTCGCTTTAAATTGTTTTATAATCTAATAATTGATT
Done.