Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397703.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1000.0, 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: 14250
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.32
Warning! 1257 characters in sequence are not A, C, G, or T
Found at i:568 original size:171 final size:171
Alignment explanation
Indices: 4--1969 Score: 1694
Period size: 171 Copynumber: 11.5 Consensus size: 171
1 GGC
* * * * *
4 AGACATTGAATTATAATCTATTTTAATCAAAAATATAAAAAAAATTCAACTTAATATCAATTATA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAAATTCAACTTAAAATCAATTATG
* * * * * **
69 AGATTATAAAACCATTTGAAGCGAGTACTTAGGCTTTCGAAA-GCATGGGTAACTGTAAATGGGC
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-AAAGGCATGGGTGACTATAAATGAAC
** ** * ** ** *
133 TTTT-TTCACCAATGACCAGCTTTTTCTTCATATTTCTTGATGT
129 TTTTCTT-GTCAATGAATACCTTTTTCTTCACGTTTCTCAAGGT
* * * *
176 AGACATTCAACTATAATCTGTTTTAA-CAAGAAATATAAAAAGAACTCAACGTAAAATCCATTAT
1 AGACATTCAATTATAATCTGTTTTAACCAA-AAATATAAAAA-AATTCAACTTAAAATCAATTAT
* * *** *
240 GATATTATAAAATCATTTAAAGATCGTAATAAGGCTTCCAAAGGCATGGGTGACTATAAAT-AGA
64 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGA-A
* * * *
304 CTTTTCTTGTTAATGAATA-TTTTTTCTTCATGTTTCTCAAGGA
128 CTTTTCTTGTCAATGAATACCTTTTTCTTCACGTTTCTCAAGGT
* * * * * * *
347 AAATATTCAATTATAAGCTGTTTTAGCAAAAAATGTAAAACAATTCAACTTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * *
412 GATTATAAAACCGTTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGAATATAAATGAAATT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGAACTT
* * *
477 TTTTTGTCAATG-ATAACCTTTTTCTTCATGTTTCCCAAGGT
131 TTCTTGTCAATGAAT-ACCTTTTTCTTCACGTTTCTCAAGGT
* * * *
518 AGATATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAACTCAACTTAAAATCTATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * *
583 GATTATAAAGCTATTTAAAG-TACGTAATAAGGC-TTCTAAAGGTATGGGTGCCTATTAAT-AGA
66 GATTATAAAACCATTTAAAGCGA-GTAATAAGGCTTTC-AAAGGCATGGGTGACTATAAATGA-A
*
645 CTTTTCTTG-CAAATGAATTA-C-TTTTCTTCACGTTTCCCAAGGT
128 CTTTTCTTGTC-AATGAA-TACCTTTTTCTTCACGTTTCTCAAGGT
* * * * * *
688 AAATATTCAATTATAATCTATTTTAGCC-AAAATAGT-AAAAAAGTCAACTTAAAATCAAATATG
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATA-TAAAAAAATTCAACTTAAAATCAATTATG
* * * * *
751 CGATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGAACT
* * *
816 TGTCTTGTCAATAAATACCTTTTTCTTCACATTTCTCAAGGT
130 TTTCTTGTCAATGAATACCTTTTTCTTCACGTTTCTCAAGGT
* * * ** * * *
858 AGACATTTAATTATAATCTATTTTAACCATAAAGGT-AAAAACTTCAA-TCTAAAATTAATTAGG
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACT-TAAAATCAATTATG
* * *** *
921 AGATTATAAAACC-TTTCGAAGCGAGTAATTACATTTTCAAAGGCTTGGGTGACTATAAATGAAC
65 AGATTATAAAACCATTT-AAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGAAC
* ** * *
985 TTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTGC-CAAAGC
129 TTTTCTTGTCAATGAATACCTTTTTCTTCACGTTT-CTCAAGGT
* * * * *
1028 AGACATTCTATTACAATTTGTTTTAACCAAAAATATAAAAAAATTAAACCTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * * *
1093 TATAATAAAACTATTTAAAGTGAG-AAGTTAA-GTTTTCAAATGCATAGATGACTATAAATGGAC
66 GATTATAAAACCATTTAAAGCGAGTAA--TAAGGCTTTCAAAGGCATGGGTGACTATAAATGAAC
* * * * *
1156 CTTTATTG-CTAATGAATGCCTTTCGT-TTCACGTTT-TAAGAGGT
129 TTTTCTTGTC-AATGAATACCTTT-TTCTTCACGTTTCTCA-AGGT
* * * * *
1199 AGACATTTAGTTATAATCTGTTTTAACCAAAAATATAAAAGAATTCAACTTAAAATGAAGTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * *
1264 GATTATAACACCATTCAAAGCAAGTAATAAGGCTTCCAAAGGCATGGGTGGCTATAAATGGACTA
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGAACT-
* * * ** * *
1329 TTTCATCT-AATGAATGCCTTTTTTCTTTGCATTTCTTAAGGT
130 TTTCTTGTCAATGAATACC-TTTTTCTTCACGTTTCTCAAGGT
* * * * *
1371 AGAGATTCAATTATAATTTATTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCAATTTTG
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATAT-AAAAAAATTCAACTTAAAATCAATTATG
* * * *
1436 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAA-GCTTTGGTGACCAAAAATGAAC
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-AAAGGCATGGGTGACTATAAATGAAC
** * * *
1500 TTTT-TTCGTCAATGAATGGC-TTTTCTTCACATTTTTCAAGGC
129 TTTTCTT-GTCAATGAATACCTTTTTCTTCACGTTTCTCAAGGT
* * * * * * ** * *
1542 AGACATTTAATTATAATCTATTTAAAACAAAAATGTAAAAATATTTTACCTAAAATTAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * * *
1607 GATTATAAAACCATTGAAAGCGTGTACTAAGGCTTCCAAAGGCTTGGATGACAAGAAATGGACTT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGAACTT
* * *
1672 TTCTTG-CTAATGAATGA-CTTTGTCTTCACGTTTCTCGATGT
131 TTCTTGTC-AATGAAT-ACCTTTTTCTTCACGTTTCTCAAGGT
* * **
1713 AGACATGCAATTATAATATGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * ** * * *
1778 GATTATAAAGCCATTTAGAGCGAGCAATAAGGTTTTCAAAGGCATAGGCAAATATCAATGGACTT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGAACTT
* *
1843 TTCTTG-CTAATGACAT-CCTTTTTCTTCATGTTTC-CTAAAGT
131 TTCTTGTC-AATGA-ATACCTTTTTCTTCACGTTTCTC-AAGGT
* ** * *
1884 AGACATTCAATTATAATCTGTTTTAA-CAAACCATGCAAAACAATTCAACATAAAATCAATTATG
1 AGACATTCAATTATAATCTGTTTTAACCAAA-AATATAAAAAAATTCAACTTAAAATCAATTATG
*
1948 AGATTATAAAATCATTTAAAGC
65 AGATTATAAAACCATTTAAAGC
1970 AAGNNNNNNN
Statistics
Matches: 1442, Mismatches: 297, Indels: 111
0.78 0.16 0.06
Matches are distributed among these distances:
168 2 0.00
169 99 0.07
170 414 0.29
171 667 0.46
172 168 0.12
173 89 0.06
174 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (171 bp):
AGACATTCAATTATAATCTGTTTTAACCAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGAACTT
TTCTTGTCAATGAATACCTTTTTCTTCACGTTTCTCAAGGT
Found at i:672 original size:341 final size:340
Alignment explanation
Indices: 4--1957 Score: 1672
Period size: 341 Copynumber: 5.7 Consensus size: 340
1 GGC
* * *
4 AGACATTGAATTATAATCTATTTTAATC-AAAAATATAAAAAAAATTCAACTTAATATCAATTAT
1 AGACATTCAATTATAATCTGTTTTAA-CAAAAAATAT-AAAAAAATTCAACTTAAAATCAATTAT
* * * * * * * *
68 AAGATTATAAAACCATTTGAAGCGAGTACTTAGGCTTTCGAAAGCATGGGT-AACTGTAAATGGG
64 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGAA-TATAAATGGA
*** ** * * ** * *
132 CTTTTTTCACCAATGACCAGCTTTTTCTTCATATTTCTTGATGTAGACATTCAACTATAATCTGT
128 CTTTTTTTGTCAATGAATACCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGT
* * * * * *
197 TTTAA-CAAGAAATATAAAAAGAACTCAACGTAAAATCCATTATGATATTATAAAATCATTTAAA
193 TTTAACCAA-AAATGTAAAAA-AACTCAACTTAAAATCTATTATGAGATTATAAACT-ATTCAAA
* *
261 G-ATCGTAATAAGGCTTCCAAAGGCATGGGTGACTATAAATAGACTTTTCTTGTTAATGAAT-AT
255 GCA-CGTAATAAGGCTTCCAAAGGTATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATGA-
* * *
324 TTTTTCTTCATGTTTCTCAAGGA
318 CTTTTCTTCACGTTTCTCAAGGT
* * * * * *
347 AAATATTCAATTATAAGCTGTTTTAGCAAAAAATGTAAAACAATTCAACTTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * *
412 GATTATAAAACCGTTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGAGTGAATATAAATGAAATT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGAATATAAATGGACTT
** * *
477 TTTTTGTCAATG-ATAACCTTTTTCTTCATGTTTCCCAAGGTAGATATTCAATTATAATCTGTTT
131 TTTTTGTCAATGAAT-ACCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTT
* *
541 TAACCAAAAATGTAAAAAAACTCAACTTAAAATCTATTATGAGATTATAAAGCTATTTAAAGTAC
195 TAACCAAAAATGTAAAAAAACTCAACTTAAAATCTATTATGAGATTATAAA-CTATTCAAAGCAC
* * * * *
606 GTAATAAGGCTTCTAAAGGTATGGGTGCCTATTAATAGACTTTTCTTGCAAATGAATTACTTTTC
259 GTAATAAGGCTTCCAAAGGTATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATGACTTTTC
*
671 TTCACGTTTCCCAAGGT
324 TTCACGTTTCTCAAGGT
* * * * * * *
688 AAATATTCAATTATAATCTATTTTAGC-CAAAATAGT-AAAAAAGTCAACTTAAAATCAAATATG
1 AGACATTCAATTATAATCTGTTTTAACAAAAAATA-TAAAAAAATTCAACTTAAAATCAATTATG
* * * * *
751 CGATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGAATATAAATGGACT
* * * * *
816 TGTCTTGTCAATAAATACCTTTTTCTTCACATTTCTCAAGGTAGACATTTAATTATAATCTATTT
130 TTTTTTGTCAATGAATACCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTT
* * * *
881 TAACCATAAAGGT--AAAAACTTCAA-TCTAAAAT-TAATTAGGAGATTATAAAACCT-TTCGAA
195 TAACCAAAAATGTAAAAAAAC-TCAACT-TAAAATCT-ATTATGAGATTAT-AAA-CTATTCAAA
* *** * *
941 GCGA-GTAATTACATTTTCAAAGGCT-TGGGTGACTATAAAT-GAACTTTTCTTGCCAATGAATG
255 GC-ACGTAATAAGGCTTCCAAAGG-TATGGGTGACTATAAATAG-ACTTTTCTTGCTAATGAATG
* * *
1003 GCTTTTTCTTCACGTTTGC-CAAAGC
317 AC-TTTTCTTCACGTTT-CTCAAGGT
* * * * * *
1028 AGACATTCTATTACAATTTGTTTTAACCAAAAATATAAAAAAATTAAACCTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * *
1093 TATAATAAAACTATTTAAAGTGAG-AAGTTAA-GTTTTCAAATGCAT-AGATGACTATAAATGGA
66 GATTATAAAACCATTTAAAGCGAGTAA--TAAGGCTTTCGAAGGCATGAG-TGAATATAAATGGA
* * * * * * * *
1155 CCTTTATTG-CTAATGAATGCCTTTCGT-TTCACGTTT-TAAGAGGTAGACATTTAGTTATAATC
128 CTTTTTTTGTC-AATGAATACCTTT-TTCTTCACATTTCTCA-AGGTAGACATTCAATTATAATC
* * * ** * *
1217 TGTTTTAACCAAAAATATAAAAGAATTCAACTTAAAATGAAGTATGAGATTATAACACCATTCAA
190 TGTTTTAACCAAAAATGTAAAAAAACTCAACTTAAAATCTATTATGAGATTATAA-ACTATTCAA
* * * * * *
1282 AGCAAGTAATAAGGCTTCCAAAGGCATGGGTGGCTATAAATGGACTATTTCAT-CTAATGAATGC
254 AGCACGTAATAAGGCTTCCAAAGGTATGGGTGACTATAAATAGACT-TTTCTTGCTAATGAATGA
** * *
1346 CTTTTTTCTTTGCATTTCTTAAGGT
318 C--TTTTCTTCACGTTTCTCAAGGT
* * * * *
1371 AGAGATTCAATTATAATTTATTTTAACTAAAAATATAAAAAAAATTCAACTTAAAATCAATTTTG
1 AGACATTCAATTATAATCTGTTTTAACAAAAAATAT-AAAAAAATTCAACTTAAAATCAATTATG
* * ** * *
1436 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAAGCTTTG-GTGACCAAAAATGAAC
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGC-ATGAGTGAATATAAATGGAC
* ** * * * *
1500 TTTTTTCGTCAATGAATGGC-TTTTCTTCACATTTTTCAAGGCAGACATTTAATTATAATCTATT
129 TTTTTTTGTCAATGAATACCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTT
* * * * ** * * *
1564 TAAAACAAAAATGTAAAAATATTTTACCTAAAAT-TAATTATGAGATTATAAAACCATTGAAAGC
194 TTAACCAAAAATGTAAAAAAACTCAACTTAAAATCT-ATTATGAGATTAT-AAACTATTCAAAGC
** * * * * *
1628 GTGTACTAAGGCTTCCAAAGGCT-TGGATGACAAGAAATGGACTTTTCTTGCTAATGAATGACTT
257 ACGTAATAAGGCTTCCAAAGG-TATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATGACTT
* *
1692 TGTCTTCACGTTTCTCGATGT
321 T-TCTTCACGTTTCTCAAGGT
* * *
1713 AGACATGCAATTATAATATGTTTTAATAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * *
1778 GATTATAAAGCCATTTAGAGCGAGCAATAAGGTTTTCAAAGGCAT-AG-GCAAATATCAATGGAC
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTG--AATATAAATGGAC
* ** *
1841 TTTTCTTG-CTAATGACAT-CCTTTTTCTTCATGTTTC-CTAAAGTAGACATTCAATTATAATCT
129 TTTTTTTGTC-AATGA-ATACCTTTTTCTTCACATTTCTC-AAGGTAGACATTCAATTATAATCT
* * * * * *
1903 GTTTTAA-CAAACCATGCAAAACAATTCAACATAAAATCAATTATGAGATTATAAA
191 GTTTTAACCAAA-AATGTAAAAAAACTCAACTTAAAATCTATTATGAGATTATAAA
1958 ATCATTTAAA
Statistics
Matches: 1308, Mismatches: 243, Indels: 122
0.78 0.15 0.07
Matches are distributed among these distances:
338 9 0.01
339 73 0.06
340 206 0.16
341 372 0.28
342 339 0.26
343 219 0.17
344 85 0.06
345 5 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (340 bp):
AGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCAATTATGA
GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGAATATAAATGGACTT
TTTTTGTCAATGAATACCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTT
AACCAAAAATGTAAAAAAACTCAACTTAAAATCTATTATGAGATTATAAACTATTCAAAGCACGT
AATAAGGCTTCCAAAGGTATGGGTGACTATAAATAGACTTTTCTTGCTAATGAATGACTTTTCTT
CACGTTTCTCAAGGT
Found at i:2550 original size:154 final size:152
Alignment explanation
Indices: 2266--2557 Score: 342
Period size: 154 Copynumber: 1.9 Consensus size: 152
2256 NNNNNNNNNG
* * * *
2266 TAAAACAATTCAACTAAAAATCAATTATGAGATTAGAAAATCTTGTAAAGCGCGTAATAAGGTTT
1 TAAAAAAATTCAACTAAAAATCAATTATGAGATTACAAAACCTTGTAAAGAGCGTAATAAGG-TT
* * * * *
2331 TTGAAGGCTTGGGTTACTATAAATGGACTTCTCTAGCCAATGAATGGCTTTTCCTTAACATTTCC
65 TTGAAGGCATGGATAACTATAAATGGAATTCTATAGCCAATGAATGGCTTTTCCTT-ACATTTCC
*
2396 CAATGTATGTTTTAACCAAAAATA
129 CAAGGTATGTTTTAACCAAAAATA
*
2420 TAAAAAAATTCAACCT-AAAATCAATTTTGAGATTACAAAACCATT-TAAAGTAG-GTAATTAAG
1 TAAAAAAATTCAA-CTAAAAATCAATTATGAGATTACAAAACC-TTGTAAAG-AGCGTAA-TAAG
* * *
2482 CG-TTTGAAGGCATGGATAACTATAAATGGAATTTTATGGCCAATGAATGGCTTTTTCTT-CATG
62 -GTTTTGAAGGCATGGATAACTATAAATGGAATTCTATAGCCAATGAATGGCTTTTCCTTACAT-
2545 CTTCCCAAGGTAT
125 -TTCCCAAGGTAT
2558 ACATTCAATA
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
152 3 0.03
154 104 0.89
155 9 0.08
156 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (152 bp):
TAAAAAAATTCAACTAAAAATCAATTATGAGATTACAAAACCTTGTAAAGAGCGTAATAAGGTTT
TGAAGGCATGGATAACTATAAATGGAATTCTATAGCCAATGAATGGCTTTTCCTTACATTTCCCA
AGGTATGTTTTAACCAAAAATA
Found at i:2699 original size:170 final size:159
Alignment explanation
Indices: 2473--2786 Score: 295
Period size: 169 Copynumber: 1.9 Consensus size: 159
2463 TTTAAAGTAG
* * * * *
2473 GTAATTAAGCGTTTGAAGGCATGGATAACTATAAATGGAATTTTATGGCCAATGAATGGCTTTTT
1 GTAATTAAGCGTTTGAAGGCATGGATAAATATAAATAGAATTTTATGACAAATGAAT-GCATTTT
* * * * * * * * *
2538 CTTCATGCTTCCCAAGGTATACATTCAATAATAATTTTTTTAACCAAAAATGTAGAAAAATTCAA
65 CCTCAAGCTTACCAAGGTAGACATTCAATAATAATCTGTGTAACAAAAAATGTAAAAAAATTCAA
2603 CCTAAAATCAATTATNNNNNNNNNNTACCAATTAAAGCGA
130 CCTAAAATCAATTAT----------TACCAATTAAAGCGA
* * * * * *
2643 GTAATTAGGCTTTTGAAGGCATGGGTAAATATAAATAGACTTTTCTTACAAATGAATGCATTTTC
1 GTAATTAAGCGTTTGAAGGCATGGATAAATATAAATAGAATTTTATGACAAATGAATGCATTTTC
* * * *
2708 CTCAAGTTTACCGAGGTAGACATTCAATTATAGTCTGTGTAACAAAAAATGTAAAAAAATTCAAC
66 CTCAAGCTTACCAAGGTAGACATTCAATAATAATCTGTGTAACAAAAAATGTAAAAAAATTCAAC
* *
2773 GTCAAATCAATTAT
131 CTAAAATCAATTAT
2787 GAGATTATAA
Statistics
Matches: 118, Mismatches: 26, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
169 71 0.60
170 47 0.40
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.32
Consensus pattern (159 bp):
GTAATTAAGCGTTTGAAGGCATGGATAAATATAAATAGAATTTTATGACAAATGAATGCATTTTC
CTCAAGCTTACCAAGGTAGACATTCAATAATAATCTGTGTAACAAAAAATGTAAAAAAATTCAAC
CTAAAATCAATTATTACCAATTAAAGCGA
Found at i:2955 original size:171 final size:168
Alignment explanation
Indices: 2405--3204 Score: 638
Period size: 171 Copynumber: 4.7 Consensus size: 168
2395 CCAATGTATG
* * *
2405 TTTTAACCAAAAATATAAAAAAATTCAACCTAAAATCAATTTTGAGATTACAAAACCATTTAAAG
1 TTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * * * **
2470 -TAGGTAATTAAGCGTTTGAAGGCATGGAT-AACTATAAATGGAATTTTATGGCCAATGAATGGC
66 CGA-GTAA-TAAGCCTTTCAAGGCATGGGTGAA-TATAAATAGACTTTTCTTACCAATGAAT-GC
* * * * * *
2533 TTTTTCTTCATGCTTCCCAAGGTATACATTCAATAATAATTT
127 TTTTTCTTCATGTTTACCGAGGTAGACATTCAATTATAATCT
* *********** *
2575 TTTTAACCAAAAATGTAGAAAAATTCAACCTAAAATCAATTATNNNNNNNNNNTACCAATTAAAG
1 TTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * * * * *
2640 CGAGTAATTAGGCTTTTGAAGGCATGGGTAAATATAAATAGACTTTTCTTACAAATGAATGCATT
66 CGAGTAA-TAAGCCTTTCAAGGCATGGGTGAATATAAATAGACTTTTCTTACCAATGAATGCTTT
* * *
2705 TTCCTCAAGTTTACCGAGGTAGACATTCAATTATAGTCT
130 TTCTTCATGTTTACCGAGGTAGACATTCAATTATAATCT
* * * * *
2744 GTGTAACAAAAAATGTAAAAAAATTCAACGTCAAATCAATTATGAGATTATAAAACCATTTAAAG
1 TTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAG
* * ** * * * *
2809 TGCGTAATAAGTTTTTCAGAGGCTTGGGTGAATATAAATATACTTTTCTTGCCAATGAATGGTTG
66 CGAGTAATAAGCCTTTCA-AGGCATGGGTGAATATAAATAGACTTTTCTTACCAATGAATGCTT-
* * ** * *
2874 TTTCTTTAGGTTT-TTGAAGGAAGGCATTCAATTATAATCT
129 TTTCTTCATGTTTACCG-AGGTAGACATTCAATTATAATCT
* * *
2914 ATTTTAACTAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACTATTTACA
1 -TTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAA
* * * * * * * * *
2979 GCAAGTAATTAGGCC-TTCGAAAGTATGGGTGACTACAAATGGACTTTTCTCACCAATAAATAGC
65 GCGAGTAA-TAAGCCTTTC-AAGGCATGGGTGAATATAAATAGACTTTTCTTACCAATGAAT-GC
* *
3043 TTTTTCTTCATATTT-CTTGAGGTAGACATTCAATTATAATCT
127 TTTTTCTTCATGTTTAC-CGAGGTAGACATTCAATTATAATCT
* ** ** * * *
3085 GTTTTAACCAAAAATGTAAAAAAACTCAATTTAAAATCCTTTATGACATTATAAAGCTATTTAAA
1 -TTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAA
* * * * * * *
3150 GCGCGTAAAAAGGCTTTCAAAGACATGGGTGACTATAAATGGGCTTTTCTTACCA
65 GCGAGTAATAAGCCTTTC-AAGGCATGGGTGAATATAAATAGACTTTTCTTACCA
3205 GAAAGACATT
Statistics
Matches: 494, Mismatches: 125, Indels: 21
0.77 0.20 0.03
Matches are distributed among these distances:
168 8 0.02
169 125 0.25
170 128 0.26
171 224 0.45
172 9 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (168 bp):
TTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAG
CGAGTAATAAGCCTTTCAAGGCATGGGTGAATATAAATAGACTTTTCTTACCAATGAATGCTTTT
TCTTCATGTTTACCGAGGTAGACATTCAATTATAATCT
Found at i:3240 original size:142 final size:142
Alignment explanation
Indices: 3066--3332 Score: 347
Period size: 142 Copynumber: 1.9 Consensus size: 142
3056 TTCTTGAGGT
* * * * * **
3066 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAACTCAATTTAAAATCCTTTATGA
1 AGACATTCAATTATAATCTATTTTAACAAAAAATATAAAAAAACTCAACTTAAAAGCAATTATGA
* * *
3131 CATTAT-AAAGCTATTTAAAGCGCGTAAAAAGGCTTTCAAAGACATGGGTGACTATAAATGGGCT
66 CATTATAAAATC-ATTTAAAGCGAGTAAAAAGGCTTTCAAAGACATGAGTGACTATAAATGGGCT
3195 TTTCTTACCAGAA
130 TTTCTTACCAGAA
* * * *
3208 AGACATTTAATTATAATCTATTTTAACAAAAAATATAAAACAATTCAACTTAAAAGGAATTATGA
1 AGACATTCAATTATAATCTATTTTAACAAAAAATATAAAAAAACTCAACTTAAAAGCAATTATGA
* * * **
3273 GATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTCAAAGGTATGAGTGACTATAAATG
66 CATTATAAAATCATTTAAAGCGAGTAAAAAGGCTTTCAAAGACATGAGTGACTATAAATG
3333 AAAGTGTTTT
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
142 101 0.96
143 4 0.04
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (142 bp):
AGACATTCAATTATAATCTATTTTAACAAAAAATATAAAAAAACTCAACTTAAAAGCAATTATGA
CATTATAAAATCATTTAAAGCGAGTAAAAAGGCTTTCAAAGACATGAGTGACTATAAATGGGCTT
TTCTTACCAGAA
Found at i:3799 original size:171 final size:171
Alignment explanation
Indices: 3208--8259 Score: 3796
Period size: 171 Copynumber: 29.5 Consensus size: 171
3198 CTTACCAGAA
* * * * * **
3208 AGACATTTAATTATAATCTATTTTAACAAAAAATATAAAACAATTCAACTTAAAAGGAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * *
3273 GATTATAAAATCATTTAAAGTGAGTAATAAGGCTTTCAAAGGTATGAGTGACTATAAATGAAAGT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATG-GACT
* * * **
3338 GTT-TT-CTCAATG-ATAGCCTTTTTCTTTACATTTCTCC-AGGT
130 TTTCTTGC-CAATGAAT-GGCTTTTTCTTCATGTTTC-CCAAGGT
* * * * * *
3379 AGATATTCAATTATAATCTATGTTAACTAAAAATGT-AAAAACTTTAACTTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * ** * * * **
3443 GATTA-AAAATCTATTTAAAGTGAGTAAAAAAGCTTTTGAAGG-ATTGGGAGACCAGAAATTAAC
66 GATTATAAAA-CCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCA-TGGGTGACTATAAATGGAC
* *
3506 TTTTCTTGCCAATGAATGGC--TTTCTTCACGTTTTCCAAGGT
129 TTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * * *
3547 AAACATTCAATTGTAATCTGTTTGAACCAAAACTGT-AAAAAATAT-AACTTAAAATCAAATATA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAAT-TCAACTTAAAATCAATTATG
** * * * * *
3610 AGATTATAAAACCATTTAAAATGAGTAATAAGGCTTTCGAAGGTATAGGTGACTATAAAAGTACT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * ***
3675 TTTCTTGCCAATGAATGGCTATTTATTCATGTTTCCCAAAAC
130 TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * ** **
3717 AAACATTCAAATATAATATGTTTTAATGAAAAATGTAAAAAAATTCAACCCAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
3782 GATTATAAAAGCATTTAAAGCGAGTAGTAAGGCTTTCAAAGGTATAGGTGACTATAAATGGAATT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGG-ACT
* * * * *
3847 TTTCTTGTCAATG-ATAGCCTTTTTCTTCATGTTTTCTAAGGC
130 TTTCTTGCCAATGAAT-GGCTTTTTCTTCATGTTTCCCAAGGT
* * * *
3889 AGACAATCAATTATAATCTATTTTCACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATAA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * * *
3954 GCTTAT-AAATC-TTGTAAAGCGCA-TAATAAGGCTTCCAAAAGCTTAGGTTATTATAAATGAAC
66 GATTATAAAACCATT-TAAAGCG-AGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGAC
* ** * *
4016 TTCTCTTGCCAATGAATGGCTTTTTCTTCACATTTTCCAAGGC
129 TTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * *
4059 AGACATTCAATTATAATTTTTTTTAACCAAAAATGTAAAAAAATTCAACCTAAAATCAATTTTGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* ** *
4124 GATTATAAAACCATTTAAA-CCATGTAATTAA-GCTTTTGAAGGCAT-GGTAACTATAAATGGAC
66 GATTATAAAACCATTTAAAGCGA-GTAA-TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGAC
* * ** *
4186 TTTTCTAGCTAATGAATGGCTTTTTCTTCATACTTCCCAAGGC
129 TTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * ** * * * * *
4229 AAACATTCAATAATAATTTAATTCAACCAAAAATGTATAGACATTCAACCTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * ** * *
4294 CATTATAATATCGA-TTAAAACGAGTAATTAGGCTTTTGAAGGCATGGGTAACTCTAAATGGACT
66 GATTATAA-AACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * * * **
4358 TTACTTGCCAATAAATGGCTTTTTCCTC-TCGTTTGCTGAGGT
130 TTTCTTGCCAATGAATGGCTTTTTCTTCAT-GTTTCCCAAGGT
* * * ** * * ** *
4400 AGACATTTAATTATAGTCTGTTGTAATAAAAAATATAAAAAAATTCAACATCTAATTAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
4465 GATTATAAAACCATTTAAAGTGTGTAATAAGGCTTTCCAAGGCTTGGGTGAATATAAATGGACTT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTT
* **
4530 TTCTTGCCAATGAATGG-TTATTTCTTCAGGTTTCTAAAGGT
131 TTCTTGCCAATGAATGGCTT-TTTCTTCATGTTTCCCAAGGT
* * *
4571 A-AGCATTCAATTATAATCTGTTTTAATCAAAAATGTAAAAAAATTCAACTTAAAATTAATTATA
1 AGA-CATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* * * * * * ** *
4635 AGATTTTAACACTATTTATAGCGAGTAATTAGGGCTTT-GAAGGCATAAGTGACTACAAATGGAC
65 AGATTATAAAACCATTTAAAGCGAGTAA-TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGAC
* * * * * * * * ** * *
4699 ATCTGTTGCTAATGAATGGCTTTTTTTTTATATCTCTTAATGC
129 TTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* *
4742 AGACATTCAATTATAATCTGTGTTAACTAAAAATGTAAAAAAAAAATTCAA-TCTAAAATCAATT
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGT---AAAAAAATTCAACT-TAAAATCAATT
* * * * *
4806 ATGAGATTATAAAACCATTTGAAGTGAGTAATTAGGCTTTCAAAGGCATGGGTAACTATAAATAG
62 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGG
** * * * *
4871 ACTTTTCTCACCAACGAATAGCTTTTTCTTCATATTTCTCAAGGT
127 ACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* *
4916 AGACAATT-AATTATAATTTGTTTTAACCAAAAATGTAAAAAAACTCAACTTAAAATTC-ATTAT
1 AGAC-ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAA-TCAATTAT
* * ** * ** * * **
4979 AACATTATAAAGTCATTTAAAGCGCGTAATATTATAAAACTAATT-AAA-GC--GAGTAACTAGG
64 GAGATTATAAAACCATTTAAA--GCG-AGTA--ATAAGGCT--TTCAAAGGCATGGGTGACTATA
** * *** * * * ** * ** * *
5040 CCTCCGCAGGCATGGGGGACTAG-AAATGGATATCTTTTGCCAGCAAATAGCTTTTTCTTC-ATG
122 AAT--G--GAC-T---TTTCTTGCCAATGAATGGCTTTT-TCTTC--AT-G---TTTC-CCAAGG
5103 T
171 T
** * ** * ** *** * * * *
5104 -TTC--TCAATGTAGACATCAATTCTATTC--TGTTTTAACCAGAAATGTTAAAAAAATTCAACC
1 AGACATTCAAT-TATA-ATCTGTTTTAACCAAAAATGTAA--A-AAA-ATT---CAACTT-----
* * ** *
5164 TAAAATCAATTATGAGATTATAAAACCATTTGAAA-TGAGTAATTAGGCTTTTGAAGGCATGGCT
52 -AAAATCAATTATGAGATTATAAAACCATTT-AAAGCGAGTAATAAGGCTTTCAAAGGCATGGGT
* * * * ***
5228 AACTATAAATAGACTTTTCTTGTCAATGAATAGCTTTTTCTTCATGTTTCTTGAGGT
115 GACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * *
5285 AGACATTCAATTATAATATATTTTAACAAAAAATATAAAAAAACTCAACTTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
5350 GATTATAAAACTATTTAATGCGAGTAATAAGGCTTTCAAAGACATGGGTGACTATAAATAGAATT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTT
* ** * * ***
5415 TTTTTATCAATG-ATAGCTTTTTTCTTCACGTTTCATGAGGT
131 TTCTTGCCAATGAATGGC-TTTTTCTTCATGTTTCCCAAGGT
* * * * * * *
5456 AGACATTCAATTATAATCTATGTTAAACAAAAACGTAAAGAAATTCAACTTAAAATCAACTATCA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
5521 GATTA-AAAATCCATTTAAAGAGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAAAGAACT
66 GATTATAAAA-CCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * * * * * **
5585 TTTCTTGTCAATAAATGGCTGTTTATTCACGTTTACTTAGGT
130 TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * * *
5627 AAACATTCAATTATAATATGTTTTAA-TAACAAATGTAAAAAACTTCAACCTGAAATCAATTATG
1 AGACATTCAATTATAATCTGTTTTAACCAA-AAATGTAAAAAAATTCAACTTAAAATCAATTATG
* * * *
5691 AGATTATAAAAGCATTTAAAGCGAGTAGTAAGGCTTTTAAAGGCATGGGTGACTATAAATGAACT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * **
5756 TTTCTTACCAATGACA-GCCTTTTTCTTCATGTTTCCTGAGGT
130 TTTCTTGCCAATGA-ATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * *
5798 AGACATTTAATTTTAATCTGTTCTCACCAAAAATGTAAAAAAACTCAACTTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * * *
5863 GATTATAAAATC-TTGTAAAGTGCGCAATAGGGCTTTCAAAAGCTTGGGTTACTATAAATAGACT
66 GATTATAAAACCATT-TAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * * * ** * *
5927 ACTT-TTACCAAT-AACTGACTTTTTTTTCACATTTTCCAAGGC
130 -TTTCTTGCCAATGAA-TGGCTTTTTCTTCATGTTTCCCAAGGT
* * *
5969 AGACATTCAATTATAATATGTTTTTACCAAAAATGTAAAAAAAATTCAA-TCTAAAATCAATTTT
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGT-AAAAAAATTCAACT-TAAAATCAATTAT
* * ** * *
6033 GAGATTATAAAACTATTTAAATCGAGTAATTAA-GCTTTTTAAGGCATGGGTAATTATAAATGGA
64 GAGATTATAAAACCATTTAAAGCGAGTAA-TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGA
* * * * * *
6097 CTTTTCTGGCTAATAAATGACTTTTTCTTCATACTTT-CCAAGGC
128 CTTTTCTTGCCAATGAATGGCTTTTTCTTCAT-GTTTCCCAAGGT
* * * * * *
6141 AAACATTCAATAATAATTTATTTTAACCAAAAATGTAGAAAAATTCAACCTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * *
6206 CATTATAATACCAATTAAAGCGAGTAATTAGGCTTTTAAAGGCATGGGTAACTATAAATGGACTT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTT
* * ** *
6271 TTCTTGTCAACGAATGGCTTTTTCTTCATGTTTCTTAAGAT
131 TTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * * * * *
6312 AGACATTCAATTATATTCTGTTTTAGCTAAAAATATAAAAAAATTTCAACCTCAAATCCATTATT
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAA-TTCAACTTAAAATCAATTATG
* * * * * *
6377 AGATTATAAAACCTTTTGAAGCGAGTAATTAGGC-TTCTAAAGGCATGGGTAACTATAAATGAAT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-AAAGGCATGGGTGACTATAAATGGAC
** * * * *
6441 TTTTCTTTTCAATGAATAGCTTTTTCTCCATGTTTCTCTAGGT
129 TTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * *
6484 AGACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAAA-CCAACTTAAAATCCATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
** * * * * * ** *
6548 GATTATAAAGTCATTTAAAG-TATGTAATAAGGCTTCCAAAGGTATGAGCGACTATAAATAAAGT
66 GATTATAAAACCATTTAAAGCGA-GTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * * *
6612 TTTCTTACCAATGAATGGC-TTTTCTTCAAGTTTCCTAAGGC
130 TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * *
6653 AAACATTTAATTATAATCTGTTTTAGCC-AAAATAGT-AAAAAAGTCAACTTAAAATCAAATATG
1 AGACATTCAATTATAATCTGTTTTAACCAAAAAT-GTAAAAAAATTCAACTTAAAATCAATTATG
*
6716 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATAGACT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
** * ** ** **
6781 TGCCTTGCCAATAAATATCTTTTTCTTCACATTTTTCAAGGT
130 TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * * *
6823 AAACATTCAATTATAATCTATTTTAACCAAAAATGTAAAAAACTTCAACCTAAGATCAATTAAGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
6888 GATTATAAAA-CATTTTGAAGCGA-TAATTAGGCTTTCGAAGGCTTGGGTGACAATAAATGGACT
66 GATTATAAAACCA-TTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * * * ** * *
6951 TTTCTTGCCAATGAA------TTGCTACACGCTTCATAGGGC
130 TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * * *
6987 AGACATTCAATTACAATTTATTTTAGCCAAAAATGTAAAAAAATTTAACCTAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * ** * * ** * *
7052 TATAATAAAATCATTTAAAGTAAG-AAGTTAGG-TTTCAAATGCATGAATAACTATAAATAGACT
66 GATTATAAAACCATTTAAAGCGAGTAA-TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
*
7115 TTTCTTGCCAATGAATGTCTTTTGT-TTGC--GTTT--CAAGAGT
130 TTTCTTGCCAATGAATGGCTTTT-TCTT-CATGTTTCCCAAG-GT
* * * * *
7155 AGACATTTAGTTATAATTTGTTTTAACCAAAAATGTAAAAGAATTCAACTTAAAATGAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * * * * * *
7220 GATTATAACAGCATTCAAAGCAAGTAATCAGGC-TTCTAGAGGTATGGGTGGCTATCAATGGACT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-AAAGGCATGGGTGACTATAAATGGACT
* * * * ** * **
7284 ATTTCAT-CAAATGAAAGTCTCTTTT-TTTGTGTTTCTCAAGAC
130 -TTTCTTGCCAATGAATGGCT-TTTTCTTCATGTTTCCCAAGGT
* * * * *
7326 AGAGAATCAATTATAATCTG-TTTAACCAAAAATATAAAAAAATTTAACTTAAAATCAATTTTGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * * *
7390 GAGTATAAAACTATTTAAAACGAGTAATAAGGCTTTCAAAGGCTTGGGTGACCATAAATGGACTT
66 GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTT
* * * * *
7455 TTCTTGCCAATGAATGTC-TTTTCTTCATATTTTCTAAGGC
131 TTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * * ** * * * *
7495 AAACATTTAATTATAATCTATTTGAAATAAAAATGTGAAAACATTTAA-TATAAAATCAATTATC
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACT-TAAAATCAATTATG
* * * * * * ** *
7559 AGATTATAAAATCATTTAAAGCGTGTAATAAGGCTTTCGAAGGCTTGAGTGCCTACCAATAGACT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGAC-
* * *
7624 TTTTTTTGCTAATGAATGGCTTTTTCTTCATGTTTCTCAAGGT
129 TTTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * *
7667 AGACATCCAATTATAATTTGTTTTAA-CATAAAATATAAAAATATTCAACTTAAAATCAATTATG
1 AGACATTCAATTATAATCTGTTTTAACCA-AAAATGTAAAAAAATTCAACTTAAAATCAATTATG
* * * *
7731 AGATTATAAAACCATTTAAAACGAGTAATAAGGCTTTCAACGGCATGGATGACTATAAAAGGACT
65 AGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * * *
7796 TTTCTTACTAATGAATGGC-TTTTCTTCATGTTTCCTAAGGA
130 TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* * * *
7837 AGACATTTAATTATAATCTGTTTGAAACAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGT
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
* * ** * * *
7902 GATTATAAAACCATTTTAAGC-ATGTAATAATGCTTTTGAAGGCTTGGGTGACTAGAAATGGAAT
66 GATTATAAAACCATTTAAAGCGA-GTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACT
* * * *
7966 TTTCTTGCAAATAAATGGCTTTTTCTTCATGTTTCTCGAGGT
130 TTTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
* *
8008 AGACATTCAATTATAATCTGTTTT-ACAAAAAAATATAAAAAAATAT-AACTTAAAATCAATTAT
1 AGACATTCAATTATAATCTGTTTTAAC-CAAAAATGTAAAAAAAT-TCAACTTAAAATCAATTAT
* *
8071 GAGATTATAAAACCATTT-----GAGTAATAAAGCTTTCAAAGGTATGGGTGACTATAAATGGAC
64 GAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGAC
* * * * *** **
8131 TTTTCTTTCTAATGAGA-GCCTTTTTCTTTATGTTTCTTGATAT
129 TTTTCTTGCCAATGA-ATGGCTTTTTCTTCATGTTTCCCAAGGT
* ** * * *
8174 AGATATTCAATTATAATCTACTTTAACCAAAAAAGTAAAACAATTCAACATAAAATCAATTATGA
1 AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
*
8239 GATTATAAAATCATTTAAAGC
66 GATTATAAAACCATTTAAAGC
8260 AANNNNNNNN
Statistics
Matches: 3861, Mismatches: 848, Indels: 344
0.76 0.17 0.07
Matches are distributed among these distances:
164 124 0.03
165 8 0.00
166 133 0.03
167 8 0.00
168 227 0.06
169 216 0.06
170 894 0.23
171 1396 0.36
172 516 0.13
173 20 0.01
174 136 0.04
175 3 0.00
176 7 0.00
177 7 0.00
178 4 0.00
179 1 0.00
180 2 0.00
181 21 0.01
182 13 0.00
183 3 0.00
184 13 0.00
185 9 0.00
186 3 0.00
187 14 0.00
188 22 0.01
189 3 0.00
190 1 0.00
191 4 0.00
192 6 0.00
193 7 0.00
195 11 0.00
196 1 0.00
197 2 0.00
198 23 0.01
199 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (171 bp):
AGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGA
GATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTT
TTCTTGCCAATGAATGGCTTTTTCTTCATGTTTCCCAAGGT
Found at i:10328 original size:342 final size:342
Alignment explanation
Indices: 9896--10534 Score: 822
Period size: 342 Copynumber: 1.9 Consensus size: 342
9886 NNNTTTAAGT
* * * *
9896 GAGTAATAAGGCTTTCAAAGGTATGGGTAACTATAAATGGACTTTTCTTTCTAGTGATAGCCTTT
1 GAGTAATAAGGCTTTCAAAGGTATGGGTAACTATAAATAGACTTTTCTTGCCAATGATAGCCTTT
* * * *
9961 TTCTTTATGTTTCTCGGTGTAGACATTCAATTATAATCTACTTT-AACAAAAAAAGTAAAATAAT
66 GTCTTTATGTTTCCCAGTGTAGACATTCAATTATAATCT-CTTTCAACAAAAAAAGTAAAAAAAT
* *
10025 TCAACATAAAATTAATTATGAGATTATAAAATCATT-TAAAGCAATTAA-TAAGGCTTTCAAAGG
130 TCAACATAAAATCAATTATGAGATTATAAAATC-TTGTAAAGCAAGTAATTAA-GCTTTCAAAGG
* * *
10088 CATGGGTGACTATAAAAAGACTT-TTCTTGTCAATGAATGGCTGTTTATTCACATTTCCCAAGGC
193 CATAGGTGACTATAAAAAGACTTCTT-TTGCCAATGAATGACTGTTTATTCACATTTCCCAAGGC
10152 AGACATTCAATTATAATATGTTTTAA-TGAAAAATGTAAAAAGCTTCAACCTAAAATCAATTATG
257 AGACATTCAATTATAATATGTTTTAACT-AAAAATGTAAAAAGCTTCAACCTAAAATCAATTATG
10216 AGATTATAAAAGCATTTAAAGC
321 AGATTATAAAAGCATTTAAAGC
* * * *
10238 GAGTAGTAAGGCTTTCAAAGGTATGGGTGACTATAAATAGACTTTTCTTGCCAATGGTAGTCTTT
1 GAGTAATAAGGCTTTCAAAGGTATGGGTAACTATAAATAGACTTTTCTTGCCAATGATAGCCTTT
* * * * *
10303 GTCTTTATGTTTCCCAAG-GTAGACATTCAATTATAATCTGTTTCCACTAAACATGTAAAAAAAT
66 GTCTTTATGTTTCCC-AGTGTAGACATTCAATTATAATCTCTTTCAACAAAAAAAGTAAAAAAAT
* * * ** * *
10367 TTAACTTAATATCAATTATGAGATTATAAAATCTTGTAAAGCGCGTAATTAAGCTTTCGAAGGCT
130 TCAACATAAAATCAATTATGAGATTATAAAATCTTGTAAAGCAAGTAATTAAGCTTTCAAAGGCA
* * ** * * * * * *
10432 TAGGTTATTATAAATGGACTTCTTTTGCCAATGAATGACTTTTTCTTCATATTTTCTAAGGTAGA
195 TAGGTGACTATAAAAAGACTTCTTTTGCCAATGAATGACTGTTTATTCACATTTCCCAAGGCAGA
*
10497 CATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAA
260 CATTCAATTATAATATGTTTTAACTAAAAATGTAAAAA
10535 AAATTCAACN
Statistics
Matches: 251, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
341 5 0.02
342 239 0.95
343 7 0.03
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (342 bp):
GAGTAATAAGGCTTTCAAAGGTATGGGTAACTATAAATAGACTTTTCTTGCCAATGATAGCCTTT
GTCTTTATGTTTCCCAGTGTAGACATTCAATTATAATCTCTTTCAACAAAAAAAGTAAAAAAATT
CAACATAAAATCAATTATGAGATTATAAAATCTTGTAAAGCAAGTAATTAAGCTTTCAAAGGCAT
AGGTGACTATAAAAAGACTTCTTTTGCCAATGAATGACTGTTTATTCACATTTCCCAAGGCAGAC
ATTCAATTATAATATGTTTTAACTAAAAATGTAAAAAGCTTCAACCTAAAATCAATTATGAGATT
ATAAAAGCATTTAAAGC
Found at i:10536 original size:171 final size:171
Alignment explanation
Indices: 9896--10543 Score: 684
Period size: 171 Copynumber: 3.8 Consensus size: 171
9886 NNNTTTAAGT
* * * * * *
9896 GAGTAATAAGGCTTTCAAAGG-TATGGGTAACTATAAATGGACTTTTCTTTCTAGTG-ATAGCCT
1 GAGTAATAAGGCTTTCAAAGGCT-TGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT-GACT
* * * * ** * * *
9959 TTTTCTTTATGTTTCTC-GGTGTAGACATTCAATTATAATCTACTTTAACAAAAAAAGTAAAATA
64 TTTTCTTCATATTTCCCAAG-GTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAA
*
10023 ATTCAACATAAAATTAATTATGAGATTATAAAATCATTTAAAGC
128 ATTCAACATAAAATCAATTATGAGATTATAAAATCATTTAAAGC
* * * * * * *
10067 AATTAATAAGGCTTTCAAAGGCATGGGTGACTATAAAAAGACTTTTCTTGTCAATGAATGGCTGT
1 GAGTAATAAGGCTTTCAAAGGCTTGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGACTTT
* * * * **
10132 TTATTCACATTTCCCAAGGCAGACATTCAATTATAATATGTTTTAA-TGAAAAATGTAAAAAGCT
66 TTCTTCATATTTCCCAAGGTAGACATTCAATTATAATCTGTTTTAACT-AAAAATGTAAAAAAAT
* *
10196 TCAACCTAAAATCAATTATGAGATTATAAAAGCATTTAAAGC
130 TCAACATAAAATCAATTATGAGATTATAAAATCATTTAAAGC
* * *
10238 GAGTAGTAAGGCTTTCAAAGG-TATGGGTGACTATAAATAGACTTTTCTTGCCAATG-GTAGTCT
1 GAGTAATAAGGCTTTCAAAGGCT-TGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT-GACT
* * * ** *
10301 TTGTCTTTATGTTTCCCAAGGTAGACATTCAATTATAATCTGTTTCCACTAAACATGTAAAAAAA
64 TTTTCTTCATATTTCCCAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAA
* * *
10366 TTTAACTTAATATCAATTATGAGATTATAAAATC-TTGTAAAGC
129 TTCAACATAAAATCAATTATGAGATTATAAAATCATT-TAAAGC
* * * * * *
10409 GCGTAATTAA-GCTTTCGAAGGCTTAGGTTATTATAAATGGACTTCTT-TTGCCAATGAATGACT
1 GAGTAA-TAAGGCTTTCAAAGGCTTGGGTGACTATAAATAGACTT-TTCTTGCCAATGAATGACT
* *
10472 TTTTCTTCATATTTTCTAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAA
64 TTTTCTTCATATTTCCCAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGT-AAAAAA
10537 ATTCAAC
128 ATTCAAC
10544 NNNNNNNNNN
Statistics
Matches: 391, Mismatches: 73, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
170 3 0.01
171 365 0.93
172 23 0.06
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (171 bp):
GAGTAATAAGGCTTTCAAAGGCTTGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGACTTT
TTCTTCATATTTCCCAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATT
CAACATAAAATCAATTATGAGATTATAAAATCATTTAAAGC
Found at i:11350 original size:171 final size:170
Alignment explanation
Indices: 10720--11833 Score: 1053
Period size: 171 Copynumber: 6.6 Consensus size: 170
10710 NNCATTGGTA
* * * * *
10720 ACTATAAATGGATTTTTCTTGCTAATGAATGGCTTCTTCTTCATGTCTCCCAAGGCAGACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGCAGACATTCA
* * * *
10785 ATTATAATTTATTTTAATGC-AAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAA
66 ATTATAATCTGTTTTAA-CCAAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAA
* ** *
10849 AACCATTTAAAGCAAGTAAT-TAGGCCATCGAAGGAATGGGTG
129 AACCATTTAAAGCGAGTAATAT-GGCTTTCAAAGGAATGGGTG
* * * ** * *
10891 ACTATAAATTGACTTTTCTTGTCAATGAATGACTTTTTCTTCATTTTTCTTAATGTAGACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGCAGACATTCA
* * * * *
10956 A-TATAATTTGTTTTAACAAAAAATATAAAACAATTAAACATAAAATC-AGT-T-AGATTATAAA
66 ATTATAATCTGTTTTAACCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAA
** * * * * *
11017 ATTATTTCAAGCAAGTAGTAAT-GCTTCCAAAGGTATGGGTG
130 ACCATTTAAAGCGAGTAAT-ATGGCTTTCAAAGGAATGGGTG
* * * * ** * *
11058 AATATAAAAGGACTTTT-TTGCTAATGAATGACTTTTTCTTCACGTTTTTCAAGGAAAACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGCAGACATTCA
* *
11122 ATTATAAGCTGTTTTTA--AAAAATATAAAATAATTCAACTTAAAATCAATTATGAGATTATAAA
66 ATTATAATCTGTTTTAACCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAA
* * *
11185 ACCATTTAAAGTGAGGAATATGGCTTTCAAAGGCATGGGTG
130 ACCATTTAAAGCGAGTAATATGGCTTTCAAAGGAATGGGTG
* * * * *
11226 ACTATAAATGGAAATTTT-TTACCAATG-ATAGTCTTTTTCTTCACGTTTCCCAAGGCAGATATT
1 ACTATAAATGG-ACTTTTCTTGCCAATGAAT-GACTTTTTCTTCATGTTTCCCAAGGCAGACATT
* * * *
11289 CAATTATAATCTATGTTAACCAAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGATTAGA
64 CAATTATAATCTGTTTTAACCAAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATA
* * * * * ***
11354 AAACCATTTAAAGCTAGTAAAAAGACTTTCGAAGTCTTGGGTG
128 AAACCATTTAAAGCGAGTAATATGGCTTTCAAAGGAATGGGTG
* * * * * *
11397 ACCATAAATGAACTTTTCTTGTCAATGAATGAC-TTTTCTTCACGTTTCCCAGGGCAAACATTCA
1 ACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGCAGACATTCA
* ** * *
11461 ATTATAATCTATTTTAAATAAAACTATAAAAAATTCAACTTAAAATCAAATATGAGATTAT-AAA
66 ATTATAATCTGTTTTAACCAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
* * *
11525 CCATTTAAAGCGAGTAATAAGGCTTGCGAAGGAATGGGTG
131 CCATTTAAAGCGAGTAATATGGCTTTCAAAGGAATGGGTG
* * * * *
11565 ACTATAAATAGACTTTTCTTGCCAATTAAT-ACCTCTTTCTTCATGTTTCCTAAGGCAGAAATTC
1 ACTATAAATGGACTTTTCTTGCCAATGAATGA-CTTTTTCTTCATGTTTCCCAAGGCAGACATTC
* * * * * *
11629 AATTATAATCTGTTTTAACCCAAAATGTAAAAACCTTCAACCTAAAATTAATTAGGAGATTATAA
65 AATTATAATCTGTTTTAACCAAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAA
* * * * *
11694 AA-CTTTTGAAA-TGAGTAAT-TAGGTTTTCAAA-GATTTAGGTG
129 AACCATTT-AAAGCGAGTAATAT-GGCTTTCAAAGGA-ATGGGTG
* * * * * *
11735 ACTATAAATGGACTTTTTTTTGTCAATGAATGGCTTTTTCTACATGTTTCCCAAGTCAAACATTC
1 ACTATAAATGGAC-TTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGCAGACATTC
*
11800 AATTACAAAT-TGTTTTAACCAAAAATATAAAAAA
65 AATTA-TAATCTGTTTTAACCAAAAATATAAAAAA
11834 AATTGAACAA
Statistics
Matches: 768, Mismatches: 150, Indels: 51
0.79 0.15 0.05
Matches are distributed among these distances:
165 26 0.03
166 41 0.05
167 69 0.09
168 113 0.15
169 142 0.18
170 153 0.20
171 219 0.29
172 5 0.01
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (170 bp):
ACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGCAGACATTCA
ATTATAATCTGTTTTAACCAAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAA
CCATTTAAAGCGAGTAATATGGCTTTCAAAGGAATGGGTG
Found at i:11530 original size:339 final size:336
Alignment explanation
Indices: 10720--12431 Score: 1148
Period size: 339 Copynumber: 5.0 Consensus size: 336
10710 NNCATTGGTA
* * * * * *
10720 ACTATAAATGGATTTTTCTTGCTAATGAATGGCTTCTTCTTCATGTCTCCCAAGGCAGACATTCA
1 ACTATAAATGGACTTTTCTTGCTAATGAATGACTTTTTCTTCACGTTTCCCAAGGCAAACATTCA
* *
10785 ATTATAATTTATTTTAATGCAAAATATAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAA
66 ATTATAATCTATTTTAAT--AAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* ** * *
10850 ACCATTTAAAGCAAGTAAT-TAGGCCATCGAAGGAATGGGTGACTATAAATTGACTTTTCTTGTC
128 ACCATTTAAAGCGAGTAATAT-GGCTTTCGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCC
* * * * * * *
10914 AATGA-ATGACTTTTTCTTCATTTTTCTTAATGTAGACATTCAA-TATAATTTGTTTTAACAAAA
192 AATGATA-GACTTTTTCTTCATGTTTCCTAAGGCAGAAATTCAATTATAATCTGTTTTAACCAAA
* * * * * * * *
10977 AATATAAAACAATTAAACATAAAATC-AGT-T-AGATTATAAAATTATTTCAAGCAAGTAGTAAT
256 AATGTAAAACAATTCAACATAAAATCAATTATGAGATTATAAAA-CATTTAAAGCTAGTA-AAAA
* *
11039 GCTTCCAAAGGTATGGGTG
319 GCTTTCAAA-GTTTGGGTG
* * ** *
11058 AATATAAAAGGACTTTT-TTGCTAATGAATGACTTTTTCTTCACGTTTTTCAAGGAAAACATTCA
1 ACTATAAATGGACTTTTCTTGCTAATGAATGACTTTTTCTTCACGTTTCCCAAGGCAAACATTCA
* *
11122 ATTATAAGCTGTTTTTAA-AAAATATAAAATAATTCAACTTAAAATCAATTATGAGATTATAAAA
66 ATTATAATCT-ATTTTAATAAAATATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAA
* * * * * * *
11186 CCATTTAAAGTGAGGAATATGGCTTTCAAAGGCATGGGTGACTATAAATGGAAATTTT-TTACCA
129 CCATTTAAAGCGAGTAATATGGCTTTCGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGCCA
* * * * * *
11250 ATGATAGTCTTTTTCTTCACGTTTCCCAAGGCAGATATTCAATTATAATCTATGTTAACCAAAAA
193 ATGATAGACTTTTTCTTCATGTTTCCTAAGGCAGAAATTCAATTATAATCTGTTTTAACCAAAAA
* *
11315 TGTAAAACAATTCAACTTAAAATCAATTATGAGATTAGAAAACCATTTAAAGCTAGTAAAAAGAC
258 TGTAAAACAATTCAACATAAAATCAATTATGAGATTATAAAA-CATTTAAAGCTAGTAAAAAG-C
*
11380 TTTCGAAGTCTTGGGTG
321 TTTCAAAGT-TTGGGTG
* * *
11397 ACCATAAATGAACTTTTCTTG-TCAATGAATGAC-TTTTCTTCACGTTTCCCAGGGCAAACATTC
1 ACTATAAATGGACTTTTCTTGCT-AATGAATGACTTTTTCTTCACGTTTCCCAAGGCAAACATTC
*
11460 AATTATAATCTATTTTAAATAAAACTATAAAAAATTCAACTTAAAATCAAATATGAGATTAT-AA
65 AATTATAATCTATTTT-AATAAAA-TATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAA
* *
11524 ACCATTTAAAGCGAGTAATAAGGCTTGCGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCA
128 ACCATTTAAAGCGAGTAATATGGCTTTCGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCA
* * * *
11589 ATTAATA-CCTCTTTCTTCATGTTTCCTAAGGCAGAAATTCAATTATAATCTGTTTTAACCCAAA
193 A-TGATAGACTTTTTCTTCATGTTTCCTAAGGCAGAAATTCAATTATAATCTGTTTTAACCAAAA
* * * * * *
11653 ATGTAAAA-ACCTTCAACCTAAAATTAATTAGGAGATTATAAAACTTTTGAAA--TGAGTAATTA
257 ATGTAAAACA-ATTCAACATAAAATCAATTATGAGATTATAAAACATTT-AAAGCT-AGTAA-AA
* * *
11715 GGTTTTCAAAGATTTAGGTG
318 AGCTTTCAAAG-TTTGGGTG
* * * * *
11735 ACTATAAATGGACTTTTTTTTG-TCAATGAATGGCTTTTTCTACATGTTTCCCAAGTCAAACATT
1 ACTATAAATGGAC-TTTTCTTGCT-AATGAATGACTTTTTCTTCACGTTTCCCAAGGCAAACATT
* *
11799 CAATTACAAAT-TGTTTTAACCAAAAATATAAAAAAAATTGAACAAAAAATGTAAAAAAATTCAA
64 CAATTA-TAATCTATTTT--------A-AT----AAAA-T---------A--T-AAAAAATTCAA
* * * * ** * * ** *
11863 CTTAAAATGAATAATGAGATTATAACATCATTTAAAGCGAGTAATAAAGATTTCAAAGTCATAGG
102 CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGGCTTTCGAAGGAATGGG
* * * * *
11928 TGACTATAAAT-GAACTATTTCAT-CTAACGA-ATGCCTTTTTCTTTATGTTT-CTCAAGGCA-A
167 TGACTATAAATAG-ACT-TTTCTTGCCAATGATA-GACTTTTTCTTCATGTTTCCT-AAGGCAGA
* * * * * * *********
11988 AGATTCAGTTATAATCTGTTTTAACTAAAAATATAAAAAAATTTAACTTAAAATCANNNNNNNNN
228 A-ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAACAATTCAACATAAAATCAATTATGAGA
* * * * ** * *
12053 NTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTCGATGGCTTAGGTG
292 TTATAAAA-CATTTAAAGCTAGTA-AAAAGCTTTC-AAAGTTTGGGTG
* * ** * *** *
12101 ACCATAAATGGACTTTTCTTGCAAATGAATTG-C-TTTTCTTCATATTTCCCAAGGTAGGTATTT
1 ACTATAAATGGACTTTTCTTGCTAATGAA-TGACTTTTTCTTCACGTTTCCCAAGGCAAACATTC
* * *
12164 AATTATAATCTATTTGAAATAAAAATGTAAAAAACTTCAACTTAAAATCAATTATGACATTATAA
65 AATTATAATCTATTT-TAAT-AAAATATAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAA
** ** * ** ** * *
12229 AATTATTTAAAGCGTA-TAATAACGCTTTCCAAGGCTTGGACGACTACAAAT-GAACTTTTCTTA
127 AACCATTTAAAGCG-AGTAATATGGCTTTCGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTG
* * * * * * * *
12292 CTAATGAATAG-CCTTTTCTTCATATTT-CTCAAGGTAGACATTCAATTATAATCTATTGTAA-T
190 CCAATG-ATAGACTTTTTCTTCATGTTTCCT-AAGGCAGAAATTCAATTATAATCTGTTTTAACC
* * * * * *
12354 AAACAATATATAAAC-ACTCAACTTAAAATC-ACTATGAGATTATAAAACCATTGAAAGCGAGTA
253 AAA-AATGTA-AAACAATTCAACATAAAATCAATTATGAGATTATAAAA-CATTTAAAGCTAGTA
*
12417 ATAAGGCTTTCAAAG
315 A-AAAGCTTTCAAAG
12432 GCATNNNNNN
Statistics
Matches: 1095, Mismatches: 203, Indels: 151
0.76 0.14 0.10
Matches are distributed among these distances:
334 4 0.00
335 117 0.11
336 46 0.04
337 50 0.05
338 69 0.06
339 250 0.23
340 132 0.12
341 145 0.13
342 7 0.01
343 1 0.00
347 2 0.00
348 2 0.00
352 6 0.01
353 5 0.00
356 2 0.00
357 1 0.00
361 1 0.00
363 5 0.00
364 68 0.06
365 138 0.13
366 42 0.04
367 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (336 bp):
ACTATAAATGGACTTTTCTTGCTAATGAATGACTTTTTCTTCACGTTTCCCAAGGCAAACATTCA
ATTATAATCTATTTTAATAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
ATTTAAAGCGAGTAATATGGCTTTCGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATG
ATAGACTTTTTCTTCATGTTTCCTAAGGCAGAAATTCAATTATAATCTGTTTTAACCAAAAATGT
AAAACAATTCAACATAAAATCAATTATGAGATTATAAAACATTTAAAGCTAGTAAAAAGCTTTCA
AAGTTTGGGTG
Found at i:11869 original size:23 final size:23
Alignment explanation
Indices: 11820--11863 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11810 TGTTTTAACC
*
11820 AAAAATATAAAAAAAATTGAACA
1 AAAAATATAAAAAAAATTCAACA
*
11843 AAAAATGT-AAAAAAATTCAAC
1 AAAAATATAAAAAAAATTCAAC
11864 TTAAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAAATATAAAAAAAATTCAACA
Found at i:12010 original size:194 final size:194
Alignment explanation
Indices: 11650--12028 Score: 442
Period size: 194 Copynumber: 2.0 Consensus size: 194
11640 GTTTTAACCC
** * * * * *
11650 AAAATGTAAAAACCTTCAACCTAAAATTAATTAGGAGATTATAAAACTTTTGAAATGAGTAATTA
1 AAAATGTAAAAAAATTCAACCTAAAATGAATAAGGAGATTATAAAACATTTGAAACGAGTAATAA
* * * * * ** * * *
11715 GGTTTTCAAAGATTTAGGTGACTATAAATGGACTTTTTTTTGTCAATGAATGGCTTTTTCTACAT
66 AGATTTCAAAGATATAGGTGACTATAAATGAACTATTTCATCTCAACGAATGCCTTTTTCTACAT
*
11780 GTTTCCCAAGTCAAACATTCAATTACAAATTGTTTTAACCAAAAATATAAAAAAAATTGAACAA
131 GTTTCCCAAGGCAAACATTCAATTACAAATTGTTTTAACCAAAAATATAAAAAAAATTGAACAA
* * *
11844 AAAATGTAAAAAAATTCAACTTAAAATGAATAATGAGATTATAACATCATTT-AAAGCGAGTAAT
1 AAAATGTAAAAAAATTCAACCTAAAATGAATAAGGAGATTATAA-AACATTTGAAA-CGAGTAAT
*
11908 AAAGATTTCAAAG-TCATAGGTGACTATAAATGAACTATTTCATCT-AACGAATGCCTTTTTCTT
64 AAAGATTTCAAAGAT-ATAGGTGACTATAAATGAACTATTTCATCTCAACGAATGCCTTTTTCTA
* * * * * *
11971 TATGTTTCTCAAGGCAAAGATTCAGTTA-TAATCTGTTTTAACTAAAAATATAAAAAAA
128 CATGTTTCCCAAGGCAAACATTCAATTACAAAT-TGTTTTAACCAAAAATATAAAAAAA
12029 TTTAACTTAA
Statistics
Matches: 153, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
193 3 0.02
194 104 0.68
195 46 0.30
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (194 bp):
AAAATGTAAAAAAATTCAACCTAAAATGAATAAGGAGATTATAAAACATTTGAAACGAGTAATAA
AGATTTCAAAGATATAGGTGACTATAAATGAACTATTTCATCTCAACGAATGCCTTTTTCTACAT
GTTTCCCAAGGCAAACATTCAATTACAAATTGTTTTAACCAAAAATATAAAAAAAATTGAACAA
Found at i:12230 original size:170 final size:170
Alignment explanation
Indices: 12054--12433 Score: 464
Period size: 170 Copynumber: 2.2 Consensus size: 170
12044 NNNNNNNNNN
* * * * * *
12054 TATAAAACCATTTAAAGCGAGTAGTAAGGCTTTCGATGGCTTAGG-TGACCATAAATGGACTTTT
1 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCCAAGGCTT-GGACGACCACAAATGAACTTTT
* * ** *
12118 CTTGCAAATGAATTG-CTTTTCTTCATATTTCCCAAGGTAGGTATTTAATTATAATCTATTTGAA
65 CTTACAAATGAATAGCCTTTTCTTCATATTTCCCAAGGTAGACATTCAATTATAATCTA-TTGAA
* *
12182 ATAAA-AATGTA-AAAAACTTCAACTTAAAATCAATTATGACAT
129 ATAAACAATATATAAAAAC-TCAACTTAAAATC-ACTATGACAT
** * *
12224 TATAAAATTATTTAAAGCGTA-TAATAACGCTTTCCAAGGCTTGGACGACTACAAATGAACTTTT
1 TATAAAACCATTTAAAGCG-AGTAATAAGGCTTTCCAAGGCTTGGACGACCACAAATGAACTTTT
* * *
12288 CTTACTAATGAATAGCCTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAATCTATTGTAA
65 CTTACAAATGAATAGCCTTTTCTTCATATTTCCCAAGGTAGACATTCAATTATAATCTATTGAAA
* *
12353 TAAACAATATATAAACACTCAACTTAAAATCACTATGAGAT
130 TAAACAATATATAAAAACTCAACTTAAAATCACTATGACAT
* *
12394 TATAAAACCATTGAAAGCGAGTAATAAGGCTTTCAAAGGC
1 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCCAAGGC
12434 ATNNNNNNNN
Statistics
Matches: 177, Mismatches: 27, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
169 3 0.02
170 111 0.63
171 58 0.33
172 5 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (170 bp):
TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCCAAGGCTTGGACGACCACAAATGAACTTTTC
TTACAAATGAATAGCCTTTTCTTCATATTTCCCAAGGTAGACATTCAATTATAATCTATTGAAAT
AAACAATATATAAAAACTCAACTTAAAATCACTATGACAT
Found at i:12335 original size:535 final size:533
Alignment explanation
Indices: 11310--12339 Score: 1167
Period size: 535 Copynumber: 1.9 Consensus size: 533
11300 TATGTTAACC
* * *
11310 AAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGATTAGAAAACCATTTAAAGCTAGTAAA
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTAGAAAACCATTTAAAGCGAGTAAA
* * * * * *
11375 AAGACTTTCGAAGTCTTGGGTGACCATAAATGAACTTTTCTTGTCAATGAATGACTTTTCTTCAC
66 AAGACTTTCAAAGTCATAGGTGACCATAAATGAACTTTTCATCTCAACGAATGACTTTTCTTCAC
* *
11440 GTTTCCCAGGGCAAACATTCAATTATAATCTATTTTAAATAAAACTATAAAAAATTCAACTTAAA
131 GTTTCCCAAGGCAAACATTCAATTATAATCTATTTTAAATAAAAATATAAAAAATTCAACTTAAA
* *
11505 ATCAAATATGAGATTATAAACCATTTAAAGCGAGTAATAAGGCTTGCGAAGGAATGGGTGACTAT
196 ATCAAATATGAGATTATAAACCATTTAAAGCGAGTAATAAGGCTTGCGAAGGAATAGGTGACCAT
* * * *
11570 AAATAGACTTTTCTTGCCAATTAATACCTCTTTCTTCATGTTTCCTAAGGCAGAAATTCAATTAT
261 AAATAGACTTTTCTTGCAAATGAATACCTCTTTCTTCATATTTCCCAAGGCAGAAATTCAATTAT
* * * * * * *
11635 AATCTGTTTTAACCCAAAATGTAAAAACCTTCAACCTAAAATTAATTAGGAGATTATAAAACTTT
326 AATCTATTTGAAACAAAAATGTAAAAAACTTCAACCTAAAATCAATTAGGACATTATAAAACTTT
* * * * * * * * * **
11700 TGAAATGAGTAATTAGGTTTTCAAAGATTTAGGTGACTATAAATGGACTTTTTTTTGTCAATGAA
391 TGAAACGAGTAATAACGCTTTCAAAGACTTAGGCGACTACAAATGAACTTTTCTTACTCAATGAA
* * *
11765 TGGCTTTTTCTACATGTTTCCCAAGTCAAACATTCAATTACAAATTGTTTTAACCAAAAATATAA
456 TAGCCTTTTCTACATATTTCCCAAGTCAAACATTCAATTACAAATTGTTTTAACCAAAAATATAA
11830 AAAAAATTGAACA
521 AAAAAATTGAACA
* * * *
11843 AAAAATGTAAAAAAATTCAACTTAAAATGAATAATGAGATTATAACATCATTTAAAGCGAGTAAT
1 AAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTAGAAAACCATTTAAAGCGAGTAA-
* *
11908 AAAGA-TTTCAAAGTCATAGGTGACTATAAATGAACTATTTCATCT-AACGAATGCCTTTTTCTT
65 AAAGACTTTCAAAGTCATAGGTGACCATAAATGAACT-TTTCATCTCAACGAATGAC-TTTTCTT
* * * * * * * *
11971 TATGTTTCTCAAGGCAAAGATTCAGTTATAATCTGTTTTAACTAAAAATATAAAAAAATTTAACT
128 CACGTTTCCCAAGGCAAACATTCAATTATAATCTATTTTAAATAAAAATAT-AAAAAATTCAACT
********** * * * **
12036 TAAAATCANNNNNNNNNNTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTCGATGGCTTAGGTG
192 TAAAATCAAATATGAGATTAT-AAACCATTTAAAGCGAGTAATAAGGCTTGCGAAGGAATAGGTG
* ** * ** *
12101 ACCATAAATGGACTTTTCTTGCAAATGAATTGCT-TTTCTTCATATTTCCCAAGGTAGGTATTTA
256 ACCATAAATAGACTTTTCTTGCAAATGAATACCTCTTTCTTCATATTTCCCAAGGCAGAAATTCA
* * *
12165 ATTATAATCTATTTGAAATAAAAATGTAAAAAACTTCAACTTAAAATCAATTATGACATTATAAA
321 ATTATAATCTATTTGAAACAAAAATGTAAAAAACTTCAACCTAAAATCAATTAGGACATTATAAA
* * *
12230 A-TTATTTAAAGCGTA-TAATAACGCTTTCCAAGGCTT-GGACGACTACAAATGAACTTTTCTTA
386 ACTT-TTGAAA-CG-AGTAATAACGCTTTCAAAGACTTAGG-CGACTACAAATGAACTTTTCTTA
* * *
12292 CT-AATGAATAGCCTTTTCTTCATATTTCTCAAGGT-AGACATTCAATTA
447 CTCAATGAATAGCCTTTTCTACATATTTCCCAA-GTCAAACATTCAATTA
12340 TAATCTATTG
Statistics
Matches: 404, Mismatches: 83, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
533 92 0.23
534 62 0.15
535 147 0.36
536 102 0.25
537 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (533 bp):
AAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTAGAAAACCATTTAAAGCGAGTAAA
AAGACTTTCAAAGTCATAGGTGACCATAAATGAACTTTTCATCTCAACGAATGACTTTTCTTCAC
GTTTCCCAAGGCAAACATTCAATTATAATCTATTTTAAATAAAAATATAAAAAATTCAACTTAAA
ATCAAATATGAGATTATAAACCATTTAAAGCGAGTAATAAGGCTTGCGAAGGAATAGGTGACCAT
AAATAGACTTTTCTTGCAAATGAATACCTCTTTCTTCATATTTCCCAAGGCAGAAATTCAATTAT
AATCTATTTGAAACAAAAATGTAAAAAACTTCAACCTAAAATCAATTAGGACATTATAAAACTTT
TGAAACGAGTAATAACGCTTTCAAAGACTTAGGCGACTACAAATGAACTTTTCTTACTCAATGAA
TAGCCTTTTCTACATATTTCCCAAGTCAAACATTCAATTACAAATTGTTTTAACCAAAAATATAA
AAAAAATTGAACA
Found at i:12377 original size:171 final size:169
Alignment explanation
Indices: 11843--12433 Score: 449
Period size: 170 Copynumber: 3.5 Consensus size: 169
11833 AAATTGAACA
* * * * * * * *
11843 AAAAATGTAAAAAAATTCAACTTAAAATGAATAATGAGATTATAACATCATTTAAAGCGAGTAAT
1 AAAAATATAAAAAACTTCAACTTAAAATCACT-ATGACATTATAAAACCATTGAAAGCGAGTAAT
* * * * * * * * *
11908 AAAGATTTCAAAGTCATAGG-TGACTATAAATGAACTATTTCAT-CTAACGAAT-GCCTTTTTCT
65 AACGCTTTCAAAGGC-TTGGACGACTACAAATGAACT-TTTCTTACAAATGAATAG-C-TTTTCT
* * * * * * * * * *
11970 TTATGTTTCTCAAGGCAAAGATTCAGTTATAATCTGTTTTAACT
126 TCATATTTCCCAAGGTAGACATTCAATTATAATCTATTTGAAAT
* * ********* * *
12014 AAAAATATAAAAAAATTTAACTTAAAATCANNNNNNNNNNTATAAAACCATTTAAAGCGAGTAGT
1 AAAAATATAAAAAACTTCAACTTAAAATCA-CTATGACATTATAAAACCATTGAAAGCGAGTAAT
* * * * * * * * *
12079 AAGGCTTTCGATGGCTTAGG-TGACCATAAATGGACTTTTCTTGCAAATGAATTGCTTTTCTTCA
65 AACGCTTTCAAAGGCTT-GGACGACTACAAATGAACTTTTCTTACAAATGAATAGCTTTTCTTCA
** *
12143 TATTTCCCAAGGTAGGTATTTAATTATAATCTATTTGAAAT
129 TATTTCCCAAGGTAGACATTCAATTATAATCTATTTGAAAT
* * ** *
12184 AAAAATGTAAAAAACTTCAACTTAAAATCAATTATGACATTATAAAATTATTTAAAGCGTA-TAA
1 AAAAATATAAAAAACTTCAACTTAAAATC-ACTATGACATTATAAAACCATTGAAAGCG-AGTAA
* *
12248 TAACGCTTTCCAAGGCTTGGACGACTACAAATGAACTTTTCTTACTAATGAATAGCCTTTTCTTC
64 TAACGCTTTCAAAGGCTTGGACGACTACAAATGAACTTTTCTTACAAATGAATAG-CTTTTCTTC
* *
12313 ATATTTCTCAAGGTAGACATTCAATTATAATCTA-TTGTAAT
128 ATATTTCCCAAGGTAGACATTCAATTATAATCTATTTGAAAT
* *
12354 AAACAATATATAAACAC-TCAACTTAAAATCACTATGAGATTATAAAACCATTGAAAGCGAGTAA
1 AAA-AATATA-AAAAACTTCAACTTAAAATCACTATGACATTATAAAACCATTGAAAGCGAGTAA
*
12418 TAAGGCTTTCAAAGGC
64 TAACGCTTTCAAAGGC
12434 ATNNNNNNNN
Statistics
Matches: 332, Mismatches: 77, Indels: 23
0.77 0.18 0.05
Matches are distributed among these distances:
169 3 0.01
170 181 0.55
171 142 0.43
172 6 0.02
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (169 bp):
AAAAATATAAAAAACTTCAACTTAAAATCACTATGACATTATAAAACCATTGAAAGCGAGTAATA
ACGCTTTCAAAGGCTTGGACGACTACAAATGAACTTTTCTTACAAATGAATAGCTTTTCTTCATA
TTTCCCAAGGTAGACATTCAATTATAATCTATTTGAAAT
Found at i:13286 original size:341 final size:338
Alignment explanation
Indices: 12644--13624 Score: 878
Period size: 341 Copynumber: 2.9 Consensus size: 338
12634 NNNNNNTTGC
* *
12644 CAATG-ATAGCCTTTTTCTTCATGTTTCCTAAGGTAGAAATTCAATTATAATCTATTTTCACCAA
1 CAATGAATAG-CTTTTTCTTCATGTTTCC-AAGGTAGAAATTCAATTATAATCTATTTTAACTAA
* *
12708 AAATGTAAAAAAAAATCAATTTAAAATAAATTATGAGATTATAAAATCAAGTAAAGCGCATAATA
64 AAATG--AAAAAAATTCAACTTAAAATAAATTATGAGATTATAAAATCAAGTAAAGCGCATAATA
* * * *
12773 AGGCTTTCGAAGGCTTGGGTTACTATAAATGGACTTATCTTGCCAATGAATGCCTTGTTTTTTAT
127 AGGCTTTCGAAGGCTTGGGTAAC-ATAAACGGACTTATCTTACCAATGAATGCCTTGTTTCTTAT
* *
12838 ATTTCCTAAGGCAAACATTCAAGTATAATATGTTTTAACCAAAAATATAAAAGAATTCAACCTAA
191 ATTTCCTAAGGCAAACATTCAAGTATAATATGTTTTAACCAAAAATAGAAAAGAATTCAACCAAA
* *
12903 AATCTATTATGACATCATAAAACTATTTAAAGCGACTAATTAAGA-TTCTAAAGCCATGGGCAAC
256 AATCAATTATGACATCATAAAACCATTTAAAGCGACTAATTAA-ACTTCTAAAGCCATGGGCAAC
* ** *
12967 TATAAATGGATTTTTTTTTTG
320 TAGAAAT-G-TACTTTTCTTG
* * * *
12988 CAATGAATAGCTTTTTCTTGATGTTTTCCAAGGTAGACATTCAATTATAATCTATTTTAATTAGA
1 CAATGAATAGCTTTTTCTTCATG-TTTCCAAGGTAGAAATTCAATTATAATCTATTTTAACTAAA
* * * ** *
13053 AATGCAAAAAACTTCAACTTAAAATCAATTATGATATTATAAAA-CTATTTAAAGCG-AGTAATT
65 AATG-AAAAAAATTCAACTTAAAATAAATTATGAGATTATAAAATC-AAGTAAAGCGCA-TAATA
* * * *
13116 AGGCTTTTGAAGG-TATGGGTAAC-TAAACGGACTTTTCTTACCAATGAATGGCTT-TTTCTTCT
127 AGGCTTTCGAAGGCT-TGGGTAACATAAACGGACTTATCTTACCAATGAATGCCTTGTTTCTTAT
* *** * * **
13178 CATTTCCTGAGGTTGATATTCAATTATAATATGTTTTAACTTAAAATAGAGAAA-AATTCAACCA
191 -ATTTCCTAAGGCAAACATTCAAGTATAATATGTTTTAACCAAAAATAGA-AAAGAATTCAACCA
** * * * * *
13242 AAAATCAATTATTAGAC-T-ATAAAACCATTTAAAGTTAGTAATTAAACTTTTGAAGCCTTGGGT
254 AAAATCAATTA-T-GACATCATAAAACCATTTAAAGCGACTAATTAAACTTCTAAAGCCATGGGC
*
13305 GACTAGAAATGTACTTTTCTTG
317 AACTAGAAATGTACTTTTCTTG
* * ** *
13327 CTAATGAATAGCTTTCTCTTTATGTTTCTTGAGGTAGATAA-TCAATTATAATCTGTTTTAACTA
1 C-AATGAATAGCTTTTTCTTCATGTTTC-CAAGGTAGA-AATTCAATTATAATCTATTTTAACTA
* * * * ** * * *
13391 AAAATGTAAAACAATTCAACTTAAAATTAATTTTAAGATTATAAAATCATTTAGAGTGCATAATG
63 AAAATG-AAAAAAATTCAACTTAAAATAAATTATGAGATTATAAAATCAAGTAAAGCGCATAATA
* * ** * ** * * *
13456 AGGCTTTCAAAGGCATCAGTGACCATAAATAGACTTTTCTTATCAATGAATG-CTTTTTTCTTCA
127 AGGCTTTCGAAGGCTTGGGT-AACATAAACGGACTTATCTTACCAATGAATGCCTTGTTTCTT-A
* * * ** * **
13520 TGTTT-CTCAAGGTAAACATTCAATTATAACCTATTTTAATAAAAAAT-GTAAAA-ATATTCAAC
190 TATTTCCT-AAGGCAAACATTCAAGTATAATATGTTTTAACCAAAAATAG-AAAAGA-ATTCAAC
* * * *
13582 CTAAAATCAATTATGAAATTAT-AAACCATTTAAAGCGAATAAT
252 CAAAAATCAATTATGACATCATAAAACCATTTAAAGCGACTAAT
13625 ACGGTTTTTG
Statistics
Matches: 521, Mismatches: 91, Indels: 53
0.78 0.14 0.08
Matches are distributed among these distances:
339 13 0.02
340 122 0.23
341 164 0.31
342 92 0.18
343 69 0.13
344 52 0.10
345 9 0.02
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (338 bp):
CAATGAATAGCTTTTTCTTCATGTTTCCAAGGTAGAAATTCAATTATAATCTATTTTAACTAAAA
ATGAAAAAAATTCAACTTAAAATAAATTATGAGATTATAAAATCAAGTAAAGCGCATAATAAGGC
TTTCGAAGGCTTGGGTAACATAAACGGACTTATCTTACCAATGAATGCCTTGTTTCTTATATTTC
CTAAGGCAAACATTCAAGTATAATATGTTTTAACCAAAAATAGAAAAGAATTCAACCAAAAATCA
ATTATGACATCATAAAACCATTTAAAGCGACTAATTAAACTTCTAAAGCCATGGGCAACTAGAAA
TGTACTTTTCTTG
Found at i:13410 original size:171 final size:171
Alignment explanation
Indices: 12640--13624 Score: 652
Period size: 171 Copynumber: 5.8 Consensus size: 171
12630 NNNNNNNNNN
* * * * *
12640 TTGCCAATG-ATAGCCTTTTTCTTCATGTTTC-CTAAGGTAGAAATTCAATTATAATCTATTTTC
1 TTGCTAATGAATAG-CTTTTTCTTTATGTTTCTC-AAGGTAGACATTCAATTATAATCTGTTTTA
* * ** * * * **
12703 ACCAAAAATGTAAAAAAAAATCAATTTAAAATAAATTATGAGATTATAAAATCAAGTAAAGCGCA
64 ACTAAAAATGT--AAAAAATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCG-A
* ** * * * * *
12768 -TAA-TAAGGCTTTCGAAGGCTTGGGTTACTATAAAT-GGACTTATC
126 GTAATTAA-ACTTTTAAAGCCATGGGTAACTATAAATAGTACTTTTC
* * * * * *
12812 TTGCCAATGAAT-GCCTTGTTT-TTTATATTTC-CTAAGGCAAACATTCAAGTATAATATGTTTT
1 TTGCTAATGAATAG-CTT-TTTCTTTATGTTTCTC-AAGGTAGACATTCAATTATAATCTGTTTT
* * * * * * * *
12874 AACCAAAAATATAAAAGAATTCAACCTAAAATCTATTATGACATCATAAAACTATTTAAAGCGAC
63 AACTAAAAATGTAAAA-AATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAG
* * * ** *
12939 TAATTAAGA-TTCTAAAGCCATGGGCAACTATAAATGGATTTTTTTT
127 TAATTAA-ACTTTTAAAGCCATGGGTAACTATAAATAG-TACTTTTC
* *
12985 TTGC-AATGAATAGCTTTTTCTTGATGTTT-TCCAAGGTAGACATTCAATTATAATCTATTTTAA
1 TTGCTAATGAATAGCTTTTTCTTTATGTTTCT-CAAGGTAGACATTCAATTATAATCTGTTTTAA
* * * * * * *
13048 TTAGAAATGCAAAAAACTTCAACTTAAAATCAATTATGATATTATAAAACTATTTAAAGCGAGTA
65 CTAAAAATGTAAAAAA-TTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTA
** * ** * *
13113 ATTAGGCTTTTGAAGGTATGGGTAAC--TAAA-CGGACTTTTC
129 ATTAAACTTTTAAAGCCATGGGTAACTATAAATAGTACTTTTC
* * * * * * * *
13153 TTACCAATGAATGGCTTTTTCTTCTCAT-TTCCT-GAGGTTGATATTCAATTATAATATGTTTTA
1 TTGCTAATGAATAGCTTTTTCTT-T-ATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTA
* * * **
13216 ACTTAAAATAG-AGAAAAATTCAACCAAAAATCAATTATTAGACTATAAAACCATTTAAAGTTAG
64 ACTAAAAAT-GTA-AAAAATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAG
* * * *
13280 TAATTAAACTTTTGAAGCCTTGGGTGACTAGAAAT-GTACTTTTC
127 TAATTAAACTTTTAAAGCCATGGGTAACTATAAATAGTACTTTTC
* ** * *
13324 TTGCTAATGAATAGCTTTCTCTTTATGTTTCTTGAGGTAGATAATCAATTATAATCTGTTTTAAC
1 TTGCTAATGAATAGCTTTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAAC
* * * * *
13389 TAAAAATGTAAAACAATTCAACTTAAAATTAATT-TTAAGATTATAAAATCATTTAGAGTGCA-T
66 TAAAAATGTAAAA-AATTCAACCTAAAATCAATTATT-AGATTATAAAACCATTTAAAGCG-AGT
* ** * * ** * *
13452 AATGAGGCTTTCAAAGGCATCAGTGACCATAAATAG-ACTTTTC
128 AATTAAACTTTTAAAGCCATGGGTAACTATAAATAGTACTTTTC
* * * * *
13495 TT-ATCAATGAAT-GCTTTTTTCTTCATGTTTCTCAAGGTAAACATTCAATTATAACCTATTTTA
1 TTGCT-AATGAATAGC-TTTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTA
* * *
13558 A-TAAAAAATGTAAAAATATTCAACCTAAAATCAATTATGAAATTAT-AAACCATTTAAAGCGAA
64 ACT-AAAAATGTAAAAA-ATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAG
13621 TAAT
127 TAAT
13625 ACGGTTTTTG
Statistics
Matches: 643, Mismatches: 135, Indels: 72
0.76 0.16 0.08
Matches are distributed among these distances:
168 7 0.01
169 113 0.18
170 49 0.08
171 282 0.44
172 178 0.28
173 14 0.02
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (171 bp):
TTGCTAATGAATAGCTTTTTCTTTATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAAC
TAAAAATGTAAAAAATTCAACCTAAAATCAATTATTAGATTATAAAACCATTTAAAGCGAGTAAT
TAAACTTTTAAAGCCATGGGTAACTATAAATAGTACTTTTC
Found at i:14215 original size:171 final size:170
Alignment explanation
Indices: 13749--14250 Score: 591
Period size: 171 Copynumber: 2.9 Consensus size: 170
13739 ATGATTGATA
* * *
13749 TTTTCTTCAGGTTT-TCAGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGTAAAA-A
1 TTTTCTTCACGTTTCT-AGAGGCAGACATTCAATTATAATCTGTTTTCACAAAAAATGTAAAACA
* * * * *
13812 TATTCAACTTAAAATCAATTATGTGATTATAAAACTATTTGAAGTGAGTAATAAGGCTTTCAAAG
65 -ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAA-
* * * *
13877 GCATGAGTGACTATAAATGGACTTTTTTTACTAGTTATAGCCT
128 GCCTGGGTGACTATAAATGGACTTTTTTTGCCAGTTATAGCCT
* * * ** * *
13920 TTTTCTTCACATTTACCA-AGGCAAATGTTTAATTATAATCTGTTTTCACCAAAAATGTAAAACA
1 TTTTCTTCACGTTT-CTAGAGGCAGACATTCAATTATAATCTGTTTTCACAAAAAATGTAAAACA
* * * *
13984 ATTCAAATTAAAATCAATTATGAGATTGTAAAACCATTTAAATCGAGTAATTAGGCTTTCGAAGC
65 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGC
*
14049 CGTGGGTGACTATAAATGGACTTTTTTTGCCA-TTGA-ATGGCT
130 C-TGGGTGACTATAAATGGACTTTTTTTGCCAGTT-ATA-GCCT
* * *
14091 TTTTCTTCATGTTTCTTGAGGCAGACATTCAATTATAATCTATTTTCACAAAAAATGTAAAACAA
1 TTTTCTTCACGTTTCTAGAGGCAGACATTCAATTATAATCTGTTTTCACAAAAAATGTAAAACAA
* * *
14156 TTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAGGGC
66 TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGA-AGC
* * * *
14221 CTGGGTGTCTACAAATAGACTTTTCTTGCC
130 CTGGGTGACTATAAATGGACTTTTTTTGCC
Statistics
Matches: 278, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
170 6 0.02
171 267 0.96
172 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (170 bp):
TTTTCTTCACGTTTCTAGAGGCAGACATTCAATTATAATCTGTTTTCACAAAAAATGTAAAACAA
TTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGCC
TGGGTGACTATAAATGGACTTTTTTTGCCAGTTATAGCCT
Done.