Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015463.1 Corchorus olitorius cultivar O-4 contig15496, 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: 10601
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Found at i:977 original size:332 final size:331
Alignment explanation
Indices: 1--2216 Score: 2882
Period size: 332 Copynumber: 6.7 Consensus size: 331
* * *
1 TCTTAGAAATTAAATTAGAAAAAATAAGAAAAACGACATTAGAAGCATGGAAAGCCCTCCAA-CG
1 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
65 TTTCTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAA-TTTTC
66 TTT-TAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTC
* * *
129 TGGTC-ATTTTTACAAAATTTTAGCCGAAATTGTGTAC---CCATCACGGTTTTGGCTAAAAACG
130 GGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACG
* * * * * * *
190 CGTTCCGTGGTGCCATCTCAGTTTTGCATGAATTTTGGCGCCAAGACTCCGTGAAATATCAATAT
195 CATTCCGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTCAAATATCTATAT
* * * *
255 TCATCTTAACAAATCTCTGCATCATAGGATATATGGAGTTGTGTTTACGAGCATCAT-AATCTTG
260 TCATC-TAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATC-TGAATCTTG
319 TTTCGATAT
323 TTTCGATAT
* * * **
328 ACTTAGAAAATTAATTCAGAAAAATTTTAA-AAAAATC-ATTTTAGAAGCGTGAAAAGCCCTCCA
1 TCTTAG-AAATTAAATCAGAAAAA--ATAAGAAAAA-CGACATTAGAAGCGTGAAAAGCCCTCCA
* * ** * *
391 ATCTTTTTGGCACTGAATTATATATTGTTAACGAGTATTTTTGATAAGAAATTGAGTAAAAACTT
62 ATCGTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTT
* *
456 TTTGTGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTT-GCCAAAA
127 TTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAA
* *
520 ACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTTAAATATCTA
192 ACGCATTCCGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTCAAATATCTA
*
585 TATTCATTTTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTGAATCT
257 TATTCA-TCTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTGAATCT
* *
650 TGTTTCAACAT
321 TGTTTCGATAT
661 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
1 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
*
726 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTAG
66 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTCG
*
791 GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGC
131 GGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGC
* * *
856 ATTCCGGGGCGTCAGCTCAGTTATGCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATATT
196 ATTCCGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTCAAATATCTATATT
* * * * * *
921 CATCTAACAATATCTCAGTAACATTGGATTTAAGTATTTGTTTTTACGACCATCTGAATCTTGTT
261 CATCTAACAA-ATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTGAATCTTGTT
986 TCGATAT
325 TCGATAT
*
993 TCTTAAAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
1 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
* * * *
1058 TTTTAGTGTTGAATTATATATTGTTAACGAGTATTTTTGACAACAAATTGAGGAAAAAATTTTCT
66 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTCG
** * * *
1123 GGTCAAAATTTGCAAAATTTTAGCCGATATCGTGTACTAACCATCACGGTTTTGGCCAAAAATGC
131 GGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGC
** *
1188 ATTCCGGGGCGCC-GTCTCAGTTTTGCATGATTTTTAACGCCAAGACTCCGTTAAATATCTATAT
196 ATTCCGGGGCGCCAG-CTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTCAAATATCTATAT
* * * * *
1252 TCATTTTTACAAATCTCAGCAACATAGGATATAAGTATTTGTTTTTACGAGCGTCTGAATCTTGT
260 TCA-TCTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTGAATCTTGT
1317 TTCGATAT
324 TTCGATAT
1325 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
1 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
* **
1390 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAATTTTTAT
66 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTCG
* *
1455 GGTCAAAATTTTT-CAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAAT
131 GGTC--AATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAAC
* *** * *
1519 GCATTCTGGGGCGTTTGCTCAGTTTTCCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATA
194 GCATTCCGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTCAAATATCTATA
* * * * * *
1584 TTCATCTAACCATATCTCAACAACATTGGATTTAAGGATTTGTTTTTATGA-CATTCTGAATCTT
259 TTCATCTAA-CAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCA-TCTGAATCTT
*
1648 CTTTCGATAT
322 GTTTCGATAT
** * * * ***
1658 AATTAGAAAATT-AATCAGAAAAAATAAGAAAAACTATATTAGAAGTGTGAAAAGAATTCCAATC
1 TCTTAG-AAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATC
* *
1722 TTTTTAGTGGTGAATTATATATTGTTAACGAGTATTTTTGATGAA-AAATTGAGGAAAAA-TTTC
65 GTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGAT-AACAAATTGAGGAAAAACTTT-
* ** * * *
1785 TCGGGTTAATTTTTGTAAAATTTTAGCCGAAATCGTGTAGTAACCATCACGGTATTGGCTAAAAA
128 TCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAA
* * * * * *
1850 CGCGTTCTGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGTGCCAAGACTCTGTGAAATATCAAT
193 CGCATTCCGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTCAAATATCTAT
* * * * * *
1915 ATTCATCTTAACAAAACTCTGCATCATAGGATTTAAGGAGTTCTTTTTACGAGCATCAGAATCTT
258 ATTCATC-TAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTGAATCTT
1980 GTTTCGATAT
322 GTTTCGATAT
* * * ** *
1990 ACTTAGAAAATTAATTCAGAAAAAATTTAAAAAAAATTATATTAGAAGCGTGAAAAGCCCTCCAA
1 TCTTAG-AAATTAAATCAGAAAAAA--TAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAA
* * * * * * * *
2055 TCTTTTTGGCGCTAAACTATATATTGTTAAGGAGTATTTTTGATAAAAAAATGAGGAAAAACTTT
63 TCGTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTT
* * **
2120 TC-GGTCAATTTTTACAAAATTTTAGCCGAAATAGTGTACTAACAACCATCATGGTTTTGGATAA
128 TCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACT---AACCATCACGGTTTTGGCCAA
* * * * * *
2184 AAACGCGTTACGAGCCGCCGGCTTAGTTTTGCA
190 AAACGCATTCCGGGGCGCCAGCTCAGTTTTGCA
2217 CGATATTAGA
Statistics
Matches: 1671, Mismatches: 181, Indels: 64
0.87 0.09 0.03
Matches are distributed among these distances:
327 5 0.00
328 15 0.01
329 78 0.05
330 19 0.01
331 188 0.11
332 746 0.45
333 425 0.25
334 62 0.04
335 85 0.05
336 3 0.00
337 45 0.03
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (331 bp):
TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTCG
GGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGC
ATTCCGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTCAAATATCTATATT
CATCTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTGAATCTTGTTT
CGATAT
Found at i:1807 original size:665 final size:662
Alignment explanation
Indices: 1--2189 Score: 3021
Period size: 665 Copynumber: 3.3 Consensus size: 662
* * *
1 TCTTAGAAATTAAATTAGAAAAAATAAGAAAAACGACATTAGAAGCATGGAAAGCCCTCCAA-CG
1 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
*
65 TTTCTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAA-TTTTC
66 TTT-TAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTA
* *
129 TGGTC-ATTTTTACAAAATTTTAGCCGAAATTGTGTAC---CCATCACGGTTTTGGCTAAAAACG
130 TGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACG
* * * * * * *
190 CGTTCCGTGGTGC-CAT-CTCAGTTTTGCATGAATTTTGGCGCCAAGACTCCGTGAAATATCAAT
195 CATT-C-TGGGGCGTATGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTAT
* * * * * * * * *
253 ATTCATCTTAA-CAAATCTCTGCATCATAGGATATATGGAGTTGTGTTTACGAGCATCAT-AATC
258 ATTCATC-TAACCATATCTCAGCAACATTGGATTTAAGGATTTGTTTTTACGACCATC-TGAATC
* *
316 TTGTTTCGATATACTTAGAAAATTAATTCAGAAAAATTTTAA-AAAAA-TCATTTTAGAAGCGTG
321 TTGTTTCGATATACTTAGAAAATTAA-TCAGAAAAA--ATAAGAAAAACT-ATATTAGAAGCGTG
* ** *
379 AAAAGCCCTCCAATCTTTTTGGCACTGAATTATATATTGTTAACGAGTATTTTTGATAAGAAATT
382 AAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATT
* * * *
444 GAGTAAAAACTTTTTGTGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG
447 GAGGAAAAA-TTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG
509 TTTT-GCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCC
511 TTTTGGCCAAAAACGCATTCCGGGGCGCC-GCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCC
573 GTTAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGA
575 GTTAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGA
* *
638 GCATCTGAATCTTGTTTCAACAT
640 GCATCTGAATCTTGTTTCGATAT
661 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
1 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
*
726 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTAG
66 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTAT
*
791 GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGC
131 GGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGC
* *
856 ATTCCGGGGCGTCA-GCTCAGTTATGCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATAT
196 ATTCTGGGGCGT-ATGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATAT
* * *
920 TCATCTAACAATATCTCAGTAACATTGGATTTAAGTATTTGTTTTTACGACCATCTGAATCTTGT
260 TCATCTAACCATATCTCAGCAACATTGGATTTAAGGATTTGTTTTTACGACCATCTGAATCTTGT
* * *
985 TTCGATATTCTTA-AAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCC
325 TTCGATATACTTAGAAAATT-AATCAGAAAAAATAAGAAAAACTATATTAGAAGCGTGAAAAGCC
* * *
1049 CTCCAATCGTTTTAGTGTTGAATTATATATTGTTAACGAGTATTTTTGACAACAAATTGAGGAAA
389 CTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGG-AA
* ** *
1114 AAATTTTCTGGTCAAAATTTGCAAAATTTTAGCCGATATCGTGTACTAACCATCACGGTTTTGGC
453 AAATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGC
* **
1179 CAAAAATGCATTCCGGGGCGCCGTCTCAGTTTTGCATGATTTTTAACGCCAAGACTCCGTTAAAT
518 CAAAAACGCATTCCGGGGCGCCG-CTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTTAAAT
* * * *
1244 ATCTATATTCATTTTTACAAATCTCAGCAACATAGGATATAAGTATTTGTTTTTACGAGCGTCTG
582 ATCTATATTCATTTTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTG
1309 AATCTTGTTTCGATAT
647 AATCTTGTTTCGATAT
1325 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
1 TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
*
1390 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAATTTTTAT
66 TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTAT
* *
1455 GGTCAAAATTTTT-CAAAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAAT
131 GGTC--AATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAAC
* *
1519 GCATTCTGGGGCGTTTGCTCAGTTTTCCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATA
194 GCATTCTGGGGCGTATGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATA
* *
1584 TTCATCTAACCATATCTCAACAACATTGGATTTAAGGATTTGTTTTTATGA-CATTCTGAATCTT
259 TTCATCTAACCATATCTCAGCAACATTGGATTTAAGGATTTGTTTTTACGACCA-TCTGAATCTT
* * * *
1648 CTTTCGATATAATTAGAAAATTAATCAGAAAAAATAAGAAAAACTATATTAGAAGTGTGAAAAGA
323 GTTTCGATATACTTAGAAAATTAATCAGAAAAAATAAGAAAAACTATATTAGAAGCGTGAAAAGC
** *
1713 ATTCCAATCTTTTTAGTGGTGAATTATATATTGTTAACGAGTATTTTTGATGAA-AAATTGAGGA
388 CCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGAT-AACAAATTGAGGA
* * * *
1777 AAAATTTCTCGGGTTAATTTTTGTAAAATTTTAGCCGAAATCGTGTAGTAACCATCACGGTATTG
452 AAAATTT-TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTG
* * * * * *
1842 GCTAAAAACGCGTTCTGGGGCGCCAGCTCAGTTTTGCATGATTTTTGGTGCCAAGACTCTGTGAA
516 GCCAAAAACGCATTCCGGGGCGCC-GCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTTAA
* * * * * * *
1907 ATATCAATATTCATCTTAACAAAACTCTGCATCATAGGATTTAAGGAGTTCTTTTTACGAGCATC
580 ATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATC
*
1972 AGAATCTTGTTTCGATAT
645 TGAATCTTGTTTCGATAT
* * * ** *
1990 ACTTAGAAAATTAATTCAGAAAAAATTTAAAAAAAATTATATTAGAAGCGTGAAAAGCCCTCCAA
1 TCTTAG-AAATTAAATCAGAAAAAA--TAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAA
* * * * * * * *
2055 TCTTTTTGGCGCTAAACTATATATTGTTAAGGAGTATTTTTGATAAAAAAATGAGGAAAAACTTT
63 TCGTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTT
* * * **
2120 T-CGGTCAATTTTTACAAAATTTTAGCCGAAATAGTGTACTAACAACCATCATGGTTTTGGATAA
128 TATGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACT---AACCATCACGGTTTTGGCCAA
2184 AAACGC
190 AAACGC
2190 GTTACGAGCC
Statistics
Matches: 1363, Mismatches: 134, Indels: 55
0.88 0.09 0.04
Matches are distributed among these distances:
660 114 0.08
661 13 0.01
662 33 0.02
663 135 0.10
664 304 0.22
665 589 0.43
666 57 0.04
667 4 0.00
668 91 0.07
669 23 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (662 bp):
TCTTAGAAATTAAATCAGAAAAAATAAGAAAAACGACATTAGAAGCGTGAAAAGCCCTCCAATCG
TTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAACTTTTAT
GGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGC
ATTCTGGGGCGTATGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATATT
CATCTAACCATATCTCAGCAACATTGGATTTAAGGATTTGTTTTTACGACCATCTGAATCTTGTT
TCGATATACTTAGAAAATTAATCAGAAAAAATAAGAAAAACTATATTAGAAGCGTGAAAAGCCCT
CCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAAAAA
TTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAA
AAACGCATTCCGGGGCGCCGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTTAAATATCT
ATATTCATTTTAACAAATCTCAGCAACATAGGATATAAGGAGTTGTTTTTACGAGCATCTGAATC
TTGTTTCGATAT
Found at i:2369 original size:191 final size:190
Alignment explanation
Indices: 2028--2380 Score: 512
Period size: 191 Copynumber: 1.8 Consensus size: 190
2018 AAAAAAAATT
* *
2028 ATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGCTAAACTATATATTGTTAAGGAGTATT
1 ATATTAGAAGCGTGAAAAGCCCTCCAATCTCTTTAGCGCTAAACTATATATTGTTAAGGAGTATT
**
2093 TTTGATAAAAAAATGAGGAAAAACTTTTCGGTCAATTTTTACAAAATTTTAGCCGAAATAGTGTA
66 TTTGATAAAAAAATGAGGAAAAACTTTTCGGTCAAAATTTACAAAATTTTAGCCGAAATAGTGTA
*
2158 CTAACAACCATCATGGTTTTGGATAAAAACGCGTTACGAGCCGCCGGCTTAGTTTTGCACG
131 CTAAC-ACCATCACGGTTTTGGATAAAAACGCGTTACGAGCCGCCGGCTTAGTTTTGCACG
* * * *
2219 ATATTAGAAGCGTGAAAAGCCCTCCAATCTCTTTAGTGCTCAATTATATATTGTTAATGAGTATT
1 ATATTAGAAGCGTGAAAAGCCCTCCAATCTCTTTAGCGCTAAACTATATATTGTTAAGGAGTATT
* * * * *
2284 TTTGATAACAAATTGAGGAAAAACCTTTTGGGTCAAAATTTGCAAAATTTTTAGCCGAAATCGTG
66 TTTGATAAAAAAATGAGGAAAAA-CTTTTCGGTCAAAATTTACAAAA-TTTTAGCCGAAATAGTG
* *
2349 TAC-AATC-TCATCACGGTTTTGGCTAAAAACGC
129 TACTAA-CACCATCACGGTTTTGGATAAAAACGC
2381 ATTCCGTGGA
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
191 102 0.71
192 21 0.15
193 20 0.14
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (190 bp):
ATATTAGAAGCGTGAAAAGCCCTCCAATCTCTTTAGCGCTAAACTATATATTGTTAAGGAGTATT
TTTGATAAAAAAATGAGGAAAAACTTTTCGGTCAAAATTTACAAAATTTTAGCCGAAATAGTGTA
CTAACACCATCACGGTTTTGGATAAAAACGCGTTACGAGCCGCCGGCTTAGTTTTGCACG
Found at i:3222 original size:332 final size:329
Alignment explanation
Indices: 2216--5690 Score: 3861
Period size: 332 Copynumber: 10.5 Consensus size: 329
2206 TTAGTTTTGC
* * * *
2216 ACGATATTAGAAGCGTGAAAAGCCCTCCAATCTCTTTAGTGCTCAATTATATATTGTTAATGAGT
1 ACGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGT
* **
2281 ATTTTTGATAACAAATTGAGGAAAAACCTTTT-GGGTCAAAATTTGCAAAATTTTTAGCCGAAAT
66 ATTTTTGATAAAAAATTGAGGAAAAA--TTTTCGGGTCAATTTTTGCAAAA-TTTTAGCCGAAAT
*
2345 CGTGTAC-AATCTCATCACGGTTTTGGCTAAAAACGCATTCCGTGGAGCCTGCTCAGTTTTGCAT
128 CGTGTACTAA-C-CATCACGGTTTTGGCTAAAAACGCATTCCG-GGCGCCTGCTCAGTTTTGCAT
** *
2409 GATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGTTACCTAGGA
190 GATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGA
* * *
2474 TTTAAGTATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATATTCTTAGAAATTAAATCAGAAA
255 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAGAAATT-AATCAGAAA
2539 AAATAAGAAAA
319 AAATAAGAAAA
* * * *
2550 ACGATATTAGAAGCGTGAAATGCCCTCCAATCTTTATAGTGCTCAATTATATATTGTTAACGAGT
1 ACGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGT
* * * ** *
2615 ATTTTTGATAACAATTTGAGGAAAAAATTTTCTGGTCAAAATTTACAAAATTTTAGCCGAAATCG
66 ATTTTTGATAAAAAATTGAGG-AAAAATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCG
* * * * *
2680 TG---T-ACCATCACGGTTTTGGCCAAAATCGCATTCCGGGGCGACGGCTCAATTTTGCATGATT
130 TGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCC-GGGCGCCTGCTCAGTTTTGCATGATT
* * * * * * *
2741 TTTGGCGTCAAGACTCCGTCAAATATCTATATTCA-TCTAACCATATCTCAACAATATTGGATTT
194 TTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAA-CAAATCTCAGCAACATAGGATTT
* * * * *
2805 AAGGATTTGTTTTTACGACCATCTGAATCTTCTTTCGATATAATTAAAAAATTAATCAAAAAAAA
258 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTT-AGAAATTAATC-AGAAAAA
2870 ATAAGAAAA
321 ATAAGAAAA
* ** *
2879 ACTATATTAGAAGTGTGAAAAGCATTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGA
1 ACGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGT
* * * * *
2944 ATTTTTGATGAGAAATTGAGGAAAAATTTCTCGAGTCAATTTTTGTAAAATTTTAGCTGAAATCG
66 ATTTTTGATAAAAAATTGAGGAAAAATTT-TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCG
* *
3009 TGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCCGGGCGCCTACTCAGTATTGCATGATTT
130 TGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCCGGGCGCCTGCTCAGTTTTGCATGATTT
* *
3074 TTGGTGCCAAGACTCCGAGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATTTAA
195 TTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATTTAA
* * *
3139 GGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATATTCTTAGAAATTAAATTAGAAAAAATA
260 GGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAGAAATT-AATCAGAAAAAATA
3204 AGAAAAA
324 AG-AAAA
* * *
3211 ACGACATTAGAAGCATG-GAAAA-CCCTCCAATCGTTTCAGTGCTGAATTATATATTGTTAACGA
1 ACGATATTAGAAG--TGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGA
* * * *
3274 GTATTTTTGATAACAAATTGAGGAAAAAAATTTCTGGTCAATTTTTACAAAATTTTAGCCGAAAT
64 GTATTTTTGATAAAAAATTGAGG-AAAAATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
* * * *
3339 CGTGTAC---CCATCACGGTTTTGACCAAAAACGCATTCCGGGGCGCC-GATTTAGTTTTGCATG
128 CGTGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCC-GGGCGCCTG-CTCAGTTTTGCATG
*** * * * * * *
3400 ATTTTTGGCATTAAGACTCCGTCAAATATCTATATTCA-TCTAACCATATCTGAACAACATTGGA
191 ATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAA-CAAATCTCAGCAACATAGGA
* ** *
3464 TTTAAGGATTTGTTTTTACGACCATCTGAATCTTCATTCGATATAATTAGACAATTAATCAGAAA
255 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAGA-AATTAATCAGAAA
3529 AAATAAGAAAA
319 AAATAAGAAAA
* * ** * * * * *
3540 CCTATATTAGAAGTGTGAAAAGCATTCCAATTTTTTTAATGCTGAATTATATAATGTTAATGAAT
1 ACGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGT
* * *
3605 ATTTTTGATGAAAAATTGAGGAAAAATTTCTCGGGTCAATTTTTGTAAAATTTTAGTCGAAATCG
66 ATTTTTGATAAAAAATTGAGGAAAAATTT-TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCG
* *
3670 TGTACTAACCATCACGGTTTTGGCTAAAAACGCGTTTCGGGGCGCCAT-CTCAGTTTTGCATGAT
130 TGTACTAACCATCACGGTTTTGGCTAAAAACGC-ATTCCGGGCGCC-TGCTCAGTTTTGCATGAT
* * ** * *
3734 TTTTGGCGCCAAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTTTGCATCATAGGATCT
193 TTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATTT
* * * *
3799 ATGGAGTTGTGTTTACGAGCATCAGAATCTTGTTTCGATATACTTAGAAAATTAATTCAGAAAAA
258 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAG-AAATTAA-TCAGAAAAA
* *
3864 TTTTTA-AAAA
321 --ATAAGAAAA
* * * ** * *
3874 ATGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCACTGAACTATATATTGTTAAAGAGT
1 ACGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGT
* * *
3939 ATTTTTGATAAAAAAAATTGAGTAAAAACATTTCGGGTCAATTTTTACAAAATTTTAGCCGAAAT
66 ATTTTTGAT--AAAAAATTGAGGAAAAA-TTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
* * *
4004 CGTGTACTAACCATCACTGTTTTGGCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGA
128 CGTGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCC-GGGCGCCTGCTCAGTTTTGCATGA
* * * * *
4069 TTTTTGGCACCAAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTCTGCATCATAGGATT
192 TTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATT
* * *
4134 TAAGGAGTTGTTTTTACAAGCATCAGAATCTTGTTTCGATATACTTAGAAAATTAATTCAGAAAA
257 TAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAG-AAATTAA-TCAGAAAA
* *
4199 ATTTTCAAAAAAA
320 A--AT-AAGAAAA
** * * * * * *
4212 ATTATATTAGAAGCGTTAAAAGCCCTCCAATCTTTTTGGCGCTGAACTATATATTGTTAAGGAGT
1 ACGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGT
* *
4277 ATTTTTGATAAAATATTGAGGAAAAATTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGT
66 ATTTTTGATAAAAAATTGAGGAAAAATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGT
* * * * * *
4342 GTACTAACCATCATGGTTTTGGCTAAAAACGCGTTCCGAGCCGCCGGCTTAGTTTTGCAAGATTT
131 GTACTAACCATCACGGTTTTGGCTAAAAACGCATTCCG-GGCGCCTGCTCAGTTTTGCATGATTT
* * * * * *
4407 TTGGCGCCAAGACTCCGTGAAATAACTTTACTCATCTTAACAAATCTCAGCAACATCGGGTTTAA
195 TTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATTTAA
** * * * *
4472 GGGGTTGTTTTTACGAGCATTTGAAAT-TTGTTTTGATATTCTTACAAATTAAATCAGAAAAAAT
260 GGATTTGTTTTTACGAGCATCTG-AATCTTGTTTCGATATACTTAGAAATT-AATCAGAAAAAAT
4536 AAGAAAA
323 AAGAAAA
* * *
4543 ACGATATTAGAA-TCGTGAAAAGCCCTCCAATCCTTTTAGTGCTGGAATTATATATTGTAAATGA
1 ACGATATTAGAAGT-GTGAAAAGCCCTCCAATCTTTTTAGTGCT-GAATTATATATTGTTAACGA
* ** *
4607 GTATTTTTGATAACAAATTGAGGAAAAAAATTTT-GGGTCAAAATTTGCAACATTTTAGCCGAAA
64 GTATTTTTGATAAAAAATTGAGG--AAAAATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAA
** ** * * *** ** * ** *
4671 TCGTGTACTAA--A--AC--AATCAG--AAAAATTGAATT------ATATATTGAAATTTGTATG
127 TCGTGTACTAACCATCACGGTTTTGGCTAAAAA-CGCATTCCGGGCGCCTGCTCAGTTTTGCATG
* * * *
4722 ATTTTTGGCGCCAAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTCTGCATCATAGGAT
191 ATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGAT
* * * *
4787 TTAAGGAGTTGTTTTTACGAGCATCAGAAGCTTGTTTCCATATACTTAGAAAATTAATTCAGAAA
256 TTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAG-AAATTAA-TCAGAAA
* *
4852 AATTTTAAAAAAA
319 AA--ATAAGAAAA
* * * * * * *
4865 ATTG-TATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTTGCGTTGAACTATATATTGTTAAGGAG
1 A-CGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAG
* * *
4929 TATTTTTGATAAAAAAAATTGAGTAAAAACTTTTCGGGCCAATTTTTACAAAATTTTAGCCGAAA
65 TATTTTTGAT--AAAAAATTGAGGAAAAA-TTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAA
*
4994 TCGTGTACTAACCATCACGGTTTTGGCTCAAAACGCATTCCGGGGCGCCTGCTCAGTTTTGCATG
127 TCGTGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCC-GGGCGCCTGCTCAGTTTTGCATG
** * * *
5059 ATTTTTTACGCCATGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGTAACCTAGGAT
191 ATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGAT
* * *
5124 TTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATATTCTTAGAAATTAAATCAGAAAA
256 TTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAGAAATT-AATCAGAAAA
5189 AATAAGAAAA
320 AATAAGAAAA
* * * ** * * *
5199 ACGACATTGAAAACT-TGAAAAGCCCTAAAATTCGTTTTAGTGCTTAATTTTATATTGTTAACGA
1 ACGATATT-AGAAGTGTGAAAAGCCCTCCAA-TCTTTTTAGTGCTGAATTATATATTGTTAACGA
* * * **
5263 GTATTTTTGATGACAAATTGAGGAAAATATTTTCTGGTCAAAATTTGCAAAATTTTAGCCGAAAT
64 GTATTTTTGATAAAAAATTGAGGAAAA-ATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
* *
5328 CGTGTACTAACCATCACGGTTTTGGCCAAAAACGCATTTCGGG-GCGCTGGCTCAGTTTTGCATG
128 CGTGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCCGGGCGC-CT-GCTCAGTTTTGCATG
* * * * * *
5392 ATTTTTGGCGTCAAGACTCCGTCAAATATCTATATTCA-TCTAACCATATCTCAACAACATTGGA
191 ATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAA-CAAATCTCAGCAACATAGGA
* * *
5456 TTTAAGGATTTG-TTTTAGCGA-CATTCTGAATCTTCTTTCGATATAATTAGAAAATTAATCAGT
255 TTTAAGGATTTGTTTTTA-CGAGCA-TCTGAATCTTGTTTCGATATACTTAG-AAATTAATCAGA
5519 AAAAATAAGAAAA
317 AAAAATAAGAAAA
* * * *
5532 ACTATATTAGAAGTGTGAAAA-CCATTCCAATCTTTTTAGTGATGAATTATATATTGTTAACGAC
1 ACGATATTAGAAGTGTGAAAAGCC-CTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAG
* * * *
5596 TATTTTTGATGAAAAATTGAGGAAAAATTTATCTGGTCAATTTTTGTAAATTTTTAGCCGAAATC
65 TATTTTTGATAAAAAATTGAGGAAAAATTT-TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATC
*
5661 GTG---T-ACCGTCACGGTTTTGGCTAAAAACGC
129 GTGTACTAACCATCACGGTTTTGGCTAAAAACGC
5691 GTCATCTTAA
Statistics
Matches: 2660, Mismatches: 390, Indels: 188
0.82 0.12 0.06
Matches are distributed among these distances:
318 2 0.00
319 105 0.04
320 14 0.01
321 33 0.01
322 45 0.02
323 47 0.02
325 6 0.00
326 3 0.00
327 10 0.00
328 184 0.07
329 267 0.10
330 131 0.05
331 73 0.03
332 506 0.19
333 334 0.13
334 216 0.08
335 235 0.09
336 261 0.10
337 114 0.04
338 74 0.03
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (329 bp):
ACGATATTAGAAGTGTGAAAAGCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGT
ATTTTTGATAAAAAATTGAGGAAAAATTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGT
GTACTAACCATCACGGTTTTGGCTAAAAACGCATTCCGGGCGCCTGCTCAGTTTTGCATGATTTT
TGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGATTTAAG
GATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATACTTAGAAATTAATCAGAAAAAATAAG
AAAA
Found at i:4824 original size:990 final size:985
Alignment explanation
Indices: 2216--5666 Score: 4157
Period size: 990 Copynumber: 3.5 Consensus size: 985
2206 TTAGTTTTGC
* * *
2216 ACGATATTAGAAGCGTGAAAAGCCCTCCAATC-TCTTTAGTGCTCAATTATATATTGTTAATGAG
1 ACGACATTAGAAGCGTGAAAAGCCCTCCAATCGT-TTTAGTGCTGAATTATATATTGTTAACGAG
*
2280 TATTTTTGATAACAAATTGAGGAAAAACCTTTT-GGGTCAAAATTTGCAAAATTTTTAGCCGAAA
65 TATTTTTGATAACAAATTGAGGAAAAA--TTTTCGGGTCAAAATTTACAAAA-TTTTAGCCGAAA
* * * *
2344 TCGTGTACAATCTCATCACGGTTTTGGCTAAAAACGCATTCCGTGGAGCCTGCTCAGTTTTGCAT
127 TCGTGTACAA-C-CATCACGGTTTTGGCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCAT
* * *** * *
2409 GATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAA-CAAATCTCAGTTACCTAGG
190 GATTTTTGGCGCCAAGACTCCGTCAAATATCTATATTCA-TCTAACCAAATCTCAACAACATTGG
* * **
2473 ATTTAAGTATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATATTCTTAGAAATTAAATCAGAA
254 ATTTAAGGATTTGTTTTTACGAGCATTTGAATCTTCTTTCGATATAATTAGAAATT-AATCAGAA
* * *
2538 AAAATAAGAAAAACGATATTAGAAGCGTGAAATGCCCTCCAAT-CTTTATAGTGCTCAATTATAT
318 AAAATAAGAAAAACGATATTAGAAGTGTGAAAAGCCCTCCAATCCTTT-TAGTGCTGAATTATAT
* * *
2602 ATTGTTAACGAGTATTTTTGAT-AACAATTTGAGGAAAAAATTT-TCTGGTCAAAATTTACAAAA
382 ATTGTTAACGAGTATTTTTGATGAA-AAATTGAGG-AAAAATTTATCGGGTCAAAATTTGCAAAA
* ** * * **
2665 TTTTAGCCGAAATCGTGTACCATCACGGTTTTGGCCAAAATCGCATTCCGGGGCGACGGCTCAAT
445 TTTTAGCCGAAATCGTGTACTAAAAC-GTTTTGGCAAAAATCGCATT-------TAC-ATTCAAT
* * * * **
2730 TTTGCATGATTTTTGGCGTCAAGACTCCGTCAAATATCTATATTCATC-TAACCATATCTCAACA
501 TTTGCATGATTTTTGGCGCCAAGACTCCGTGAAATATCAATATTCATCTTAA-CAAATCTCTGC-
* * * * * * *
2794 AT-ATTGGATTTAAGGATTTGTTTTTACGACCATCTGAATCTTCTTTCGATATAATTAAAAAATT
564 ATCATAGGATTTAAGGAGTTGTTTTTACGAGCATCAGAATCTTGTTTCGATATACTTAGAAAATT
*** * ** *
2858 AA-TCA-AAAAAAAATAAGAAAAACT-ATATTAGAAGTGTGAAAAGCATTCCAATCTTTTTAGTG
629 AATTCAGAAAAATTTTAA-AAAAACTGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTAGCG
* * * * * * *
2920 CTGAATTATATATTGTTAACGAGAATTTTTGAT--GAGAAATTGAGGAAAAA-TTTCTCGAGTCA
693 CTGAACTATATATTGTTAAAGAGTATTTTTGATAAAAAAAATTGAGTAAAAACTTT-TCGGGTCA
** * *
2982 ATTTTTGTAAAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTGGCTAAAAACGCATTCC
757 ATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGCATTCC
* * * *
3047 -GGGCGCCTACTCAGTATTGCATGATTTTTGGTGCCAAGACTCCGAGAAATATCTATATTCATTT
822 GGGGCGCCTGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTT
*
3111 TAACAAATCTCAGCAACATAGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGAT
887 TAACAAATCTCAGCAACATAGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
3176 ATTCTTAGAAATTAAATT-AGAAAAAATAAGAAAAA
952 ATTCTTAGAAATT-AATTCAGAAAAAATAA-AAAAA
* *
3211 ACGACATTAGAAGCATGGAAAA-CCCTCCAATCGTTTCAGTGCTGAATTATATATTGTTAACGAG
1 ACGACATTAGAAGCGT-GAAAAGCCCTCCAATCGTTTTAGTGCTGAATTATATATTGTTAACGAG
* * **
3275 TATTTTTGATAACAAATTGAGGAAAAAAATTTCTGGTCAATTTTTACAAAATTTTAGCCGAAATC
65 TATTTTTGATAACAAATTGAGG-AAAAATTTTCGGGTCAAAATTTACAAAATTTTAGCCGAAATC
* ** *
3340 GTGTAC--CCATCACGGTTTTGACCAAAAACGCATTCCGGGGCGCCGATTTAGTTTTGCATGATT
129 GTGTACAACCATCACGGTTTTGGCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGATT
*** * *
3403 TTTGGCATTAAGACTCCGTCAAATATCTATATTCATCTAACCATATCTGAACAACATTGGATTTA
194 TTTGGCGCCAAGACTCCGTCAAATATCTATATTCATCTAACCAAATCTCAACAACATTGGATTTA
* * *
3468 AGGATTTGTTTTTACGACCATCTGAATCTTCATTCGATATAATTAGACAATTAATCAGAAAAAAT
259 AGGATTTGTTTTTACGAGCATTTGAATCTTCTTTCGATATAATTAGA-AATTAATCAGAAAAAAT
* * ** ** * *
3533 AAGAAAACCTATATTAGAAGTGTGAAAAGCATTCCAATTTTTTTAATGCTGAATTATATAATGTT
323 AAGAAAAACGATATTAGAAGTGTGAAAAGCCCTCCAATCCTTTTAGTGCTGAATTATATATTGTT
* * * ** * *
3598 AATGAATATTTTTGATGAAAAATTGAGGAAAAATTTCTCGGGTCAATTTTTGTAAAATTTTAGTC
388 AACGAGTATTTTTGATGAAAAATTGAGGAAAAATTTATCGGGTCAAAATTTGCAAAATTTTAGCC
* * *
3663 GAAATCGTGTACTAACCATCACGGTTTTGGCTAAAAA-CGCGTTTCGGGGCGCCATCTCAGTTTT
453 GAAATCGTGTACTAA--A--AC-GTTTTGGC-AAAAATCGCATTT-------ACAT-TCAATTTT
*
3727 GCATGATTTTTGGCGCCAAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTTTGCATCAT
504 GCATGATTTTTGGCGCCAAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTCTGCATCAT
* * *
3792 AGGATCTATGGAGTTGTGTTTACGAGCATCAGAATCTTGTTTCGATATACTTAGAAAATTAATTC
569 AGGATTTAAGGAGTTGTTTTTACGAGCATCAGAATCTTGTTTCGATATACTTAGAAAATTAATTC
* * *
3857 AGAAAAATTTTTAAAAAA-TGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTGGCACTGAAC
634 AGAAAAATTTTAAAAAAACTGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTAGCGCTGAAC
*
3921 TATATATTGTTAAAGAGTATTTTTGATAAAAAAAATTGAGTAAAAACATTTCGGGTCAATTTTTA
699 TATATATTGTTAAAGAGTATTTTTGATAAAAAAAATTGAGTAAAAACTTTTCGGGTCAATTTTTA
*
3986 CAAAATTTTAGCCGAAATCGTGTACTAACCATCACTGTTTTGGCCAAAAACGCATTCCGGGGCGC
764 CAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCCAAAAACGCATTCCGGGGCGC
* * * *
4051 CGGCTCAGTTTTGCATGATTTTTGGCACCAAGACTCCGTGAAATATCAATATTCATCTTAACAAA
829 CTGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAA
* * * * * *
4116 TCTCTGCATCATAGGATTTAAGGAGTTGTTTTTACAAGCATCAGAATCTTGTTTCGATATACTTA
894 TCTCAGCAACATAGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATTCTTA
*
4181 GAAAATTAATTCAGAAAAATTTTCAAAAAAA
959 G-AAATTAATTCAGAAAAA--AT-AAAAAAA
** * * * * * * *
4212 ATTATATTAGAAGCGTTAAAAGCCCTCCAATCTTTTTGGCGCTGAACTATATATTGTTAAGGAGT
1 ACGACATTAGAAGCGTGAAAAGCCCTCCAATCGTTTTAGTGCTGAATTATATATTGTTAACGAGT
**
4277 ATTTTTGATAA-AATATTGAGGAAAAATTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCG
66 ATTTTTGATAACAA-ATTGAGGAAAAATTTTCGGGTCAAAATTTACAAAATTTTAGCCGAAATCG
* * * * * * *
4341 TGTACTAACCATCATGGTTTTGGCTAAAAACGCGTTCCGAGCCGCCGGCTTAGTTTTGCAAGATT
130 TGTAC-AACCATCACGGTTTTGGCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGATT
* * * * * * *
4406 TTTGGCGCCAAGACTCCGTGAAATAACTTTACTCATCTTAA-CAAATCTCAGCAACATCGGGTTT
194 TTTGGCGCCAAGACTCCGTCAAATATCTATATTCATC-TAACCAAATCTCAACAACATTGGATTT
** * * ** *
4470 AAGGGGTTGTTTTTACGAGCATTTGAAAT-TTGTTTTGATATTCTTACAAATTAAATCAGAAAAA
258 AAGGATTTGTTTTTACGAGCATTTG-AATCTTCTTTCGATATAATTAGAAATT-AATCAGAAAAA
4534 ATAAGAAAAACGATATTAGAA-TCGTGAAAAGCCCTCCAATCCTTTTAGTGCTGGAATTATATAT
321 ATAAGAAAAACGATATTAGAAGT-GTGAAAAGCCCTCCAATCCTTTTAGTGCT-GAATTATATAT
* * *
4598 TGTAAATGAGTATTTTTGAT-AACAAATTGAGGAAAAAAATTT-T-GGGTCAAAATTTGCAACAT
384 TGTTAACGAGTATTTTTGATGAA-AAATTGAGG--AAAAATTTATCGGGTCAAAATTTGCAAAAT
** ** * * * * * *
4660 TTTAGCCGAAATCGTGTACTAAAAC-AATCAG-AAAAATTGAATTATATATTGAAATTTGTATGA
446 TTTAGCCGAAATCGTGTACTAAAACGTTTTGGCAAAAATCGCATT-TACATTCAATTTTGCATGA
4723 TTTTTGGCGCCAAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTCTGCATCATAGGATT
510 TTTTTGGCGCCAAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTCTGCATCATAGGATT
* *
4788 TAAGGAGTTGTTTTTACGAGCATCAGAAGCTTGTTTCCATATACTTAGAAAATTAATTCAGAAAA
575 TAAGGAGTTGTTTTTACGAGCATCAGAATCTTGTTTCGATATACTTAGAAAATTAATTCAGAAAA
* * *
4853 ATTTTAAAAAAAATTG-TATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTTGCGTTGAACTATAT
640 ATTTT-AAAAAAACTGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTAGCGCTGAACTATAT
* *
4917 ATTGTTAAGGAGTATTTTTGATAAAAAAAATTGAGTAAAAACTTTTCGGGCCAATTTTTACAAAA
704 ATTGTTAAAGAGTATTTTTGATAAAAAAAATTGAGTAAAAACTTTTCGGGTCAATTTTTACAAAA
4982 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGCTC-AAAACGCATTCCGGGGCGCCTGC
769 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGC-CAAAAACGCATTCCGGGGCGCCTGC
** *
5046 TCAGTTTTGCATGATTTTTTACGCCATGACTCCGTGAAATATCTATATTCATTTTAACAAATCTC
833 TCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTC
* * * *
5111 AGTAACCTAGGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATATTCTTAGAAA
898 AGCAACATAGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATTCTTAGAAA
* *
5176 TTAAATCAGAAAAAATAAGAAAA
963 TTAATTCAGAAAAAATAAAAAAA
* * ** * *
5199 ACGACATT-GAAAACTTGAAAAGCCCTAAAATTCGTTTTAGTGCTTAATTTTATATTGTTAACGA
1 ACGACATTAG-AAGCGTGAAAAGCCCTCCAA-TCGTTTTAGTGCTGAATTATATATTGTTAACGA
* * *
5263 GTATTTTTGATGACAAATTGAGGAAAATATTTTCTGGTCAAAATTTGCAAAATTTTAGCCGAAAT
64 GTATTTTTGATAACAAATTGAGGAAAA-ATTTTCGGGTCAAAATTTACAAAATTTTAGCCGAAAT
* *
5328 CGTGTACTAACCATCACGGTTTTGGCCAAAAACGCATTTCGGGGCGCTGGCTCAGTTTTGCATGA
128 CGTGTAC-AACCATCACGGTTTTGGCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGA
* *
5393 TTTTTGGCGTCAAGACTCCGTCAAATATCTATATTCATCTAACCATATCTCAACAACATTGGATT
192 TTTTTGGCGCCAAGACTCCGTCAAATATCTATATTCATCTAACCAAATCTCAACAACATTGGATT
*
5458 TAAGGATTTG-TTTTAGCGA-CATTCTGAATCTTCTTTCGATATAATTAGAAAATTAATCAGTAA
257 TAAGGATTTGTTTTTA-CGAGCATT-TGAATCTTCTTTCGATATAATTAG-AAATTAATCAGAAA
* * * *
5521 AAATAAGAAAAACTATATTAGAAGTGTGAAAA-CCATTCCAATCTTTTTAGTGATGAATTATATA
319 AAATAAGAAAAACGATATTAGAAGTGTGAAAAGCC-CTCCAATCCTTTTAGTGCTGAATTATATA
* * ** * *
5585 TTGTTAACGACTATTTTTGATGAAAAATTGAGGAAAAATTTATCTGGTCAATTTTTGTAAATTTT
383 TTGTTAACGAGTATTTTTGATGAAAAATTGAGGAAAAATTTATCGGGTCAAAATTTGCAAAATTT
5650 TAGCCGAAATCGTGTAC
448 TAGCCGAAATCGTGTAC
5667 CGTCACGGTT
Statistics
Matches: 2101, Mismatches: 287, Indels: 143
0.83 0.11 0.06
Matches are distributed among these distances:
986 9 0.00
987 27 0.01
988 136 0.06
989 236 0.11
990 418 0.20
991 296 0.14
992 3 0.00
993 2 0.00
994 151 0.07
995 164 0.08
996 23 0.01
997 84 0.04
998 131 0.06
999 12 0.01
1000 54 0.03
1001 73 0.03
1002 8 0.00
1003 186 0.09
1004 79 0.04
1005 1 0.00
1006 8 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (985 bp):
ACGACATTAGAAGCGTGAAAAGCCCTCCAATCGTTTTAGTGCTGAATTATATATTGTTAACGAGT
ATTTTTGATAACAAATTGAGGAAAAATTTTCGGGTCAAAATTTACAAAATTTTAGCCGAAATCGT
GTACAACCATCACGGTTTTGGCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGATTTT
TGGCGCCAAGACTCCGTCAAATATCTATATTCATCTAACCAAATCTCAACAACATTGGATTTAAG
GATTTGTTTTTACGAGCATTTGAATCTTCTTTCGATATAATTAGAAATTAATCAGAAAAAATAAG
AAAAACGATATTAGAAGTGTGAAAAGCCCTCCAATCCTTTTAGTGCTGAATTATATATTGTTAAC
GAGTATTTTTGATGAAAAATTGAGGAAAAATTTATCGGGTCAAAATTTGCAAAATTTTAGCCGAA
ATCGTGTACTAAAACGTTTTGGCAAAAATCGCATTTACATTCAATTTTGCATGATTTTTGGCGCC
AAGACTCCGTGAAATATCAATATTCATCTTAACAAATCTCTGCATCATAGGATTTAAGGAGTTGT
TTTTACGAGCATCAGAATCTTGTTTCGATATACTTAGAAAATTAATTCAGAAAAATTTTAAAAAA
ACTGATATTAGAAGCGTGAAAAGCCCTCCAATCTTTTTAGCGCTGAACTATATATTGTTAAAGAG
TATTTTTGATAAAAAAAATTGAGTAAAAACTTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
TCGTGTACTAACCATCACGGTTTTGGCCAAAAACGCATTCCGGGGCGCCTGCTCAGTTTTGCATG
ATTTTTGGCGCCAAGACTCCGTGAAATATCTATATTCATTTTAACAAATCTCAGCAACATAGGAT
TTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATATTCTTAGAAATTAATTCAGAAAA
AATAAAAAAA
Found at i:7255 original size:334 final size:332
Alignment explanation
Indices: 5692--8453 Score: 3529
Period size: 332 Copynumber: 8.3 Consensus size: 332
5682 TAAAAACGCG
* * * * **
5692 TCATCTTAACTAATCTCTGCATCATAGGATTTAAGGAGTTGTTTTTACGAGCATCAGAATCTTGT
1 TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCATTTGAATCTTGT
** * **
5757 TTCGATATACTTAGAAAATTAATTCAGAAAAAGTTTTAAAAAAAATTATATTAGAAGCGTGAAAA
66 TTCGATATACTTAG-AAATTAATTCAGAAAAA--AATAAGAAAAACGATATTAGAAGCGTGAAAA
* * * * * *
5822 GCCCTCCAATCTTTTT-GCCGCTAAACTATATATTGTTAAGGAGTATTTTTGATAAAAAAAAATT
128 GCCCTCCAATCTTTTTAG-TGCTGAATTATATATTGTTAACGAGTATTTTT--T-ATAACAAATT
* *
5886 GAGGAAAAACTTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCATGG
189 GAGGAAAAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG
* * * * * * *
5951 TTTTGGCGAAGAACGCGTTCCGAGCCGCCGGCTTAGTTTTGAAAGATATTTGGCGCCAAGACTCC
254 TTTTGGCTAAAAACGCATTCCGAG-CGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCC
*
6016 GTGAAATAACTTTAT
318 GTGAAATAACTATAT
* ** * *
6031 TGA--TTAACAAATCTCAATAACATTGGATTTAAAGAGTTGTTTTTACGAGCATTTGAAGCTTGT
1 TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCATTTGAATCTTGT
* * *
6094 TTCGATATTCTTACAAATTAAATT-AG-AAAAAATAAGAAAAACGATATTAGAATCGTGAAAAGC
66 TTCGATATACTTAGAAATT-AATTCAGAAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGC
* * * * *
6157 CCTCCAATCCTTTCAGTGCTGGAATTATATATTGTTAATGAGTACTTTTGATAACAAATTGAGGA
130 CCTCCAATCTTTTTAGTGCT-GAATTATATATTGTTAACGAGTATTTTTTATAACAAATTGAGGA
** ** *
6222 AAAAAATTTCGGGTCAAAATTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTG
194 AAAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTG
* * *
6287 GCCAAAAACGCATTCCGGGGCGCCGGCTCAGTTTTGCATGATTTTTGACGCCAAGACTCCGTGAA
259 GCTAAAAACGCATTCC-GAGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAA
*
6352 ATAACTTTAT
323 ATAACTATAT
* ** * * * *
6362 TCATATTCCCAAATATCAGCAACATTGGGTTTAAGGAGTTGTTTTTACAAGCATTTTTAATCTTG
1 TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCA-TTTGAATCTTG
* *
6427 TCTCGGTATACTTAGAAATTAATTCAG-AAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGC
65 TTTCGATATACTTAGAAATTAATTCAGAAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGC
* * *
6491 CCTCCAATCTTTATAGTGCTCAATTATATATTGTTAACGAGTATTTTTGATAACAAATTGAGGAA
130 CCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTATAACAAATTGAGGAA
* * **
6556 AAACTTTTAGTGTCAATTTTTGCAAAATTTTAGCCGAAATTATGTACTAACCATCACGGTTTTGG
195 AAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGG
* * * * * *
6621 CTAAAAACGCATTCTGGGCGCCTGCTCAGTTTTGCACGATTTTTTGCGCCAAGACTCCGTTAAAT
260 CTAAAAACGCATTCCGAGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAAAT
*
6686 ATCTATAT
325 AACTATAT
* * * * * *
6694 TCATTTTAACAAATCTCAGCAACATAGGATATAAGGATTTGTTTTTACGAGAATCTGAATCTTGT
1 TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCATTTGAATCTTGT
* * * * *
6759 TTCGATAT-TTATAAAAATTAAATCAG-AAAAAATAAGAAAAACGACATTAGAAGCATGAAAAGC
66 TTCGATATACT-TAGAAATTAATTCAGAAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGC
* * * * *
6822 CCTCCAATCGTTTTAGTGCTAAATTATATATTGTGAACGAGTATTTTTGATAACAAATTAAGGAA
130 CCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTATAACAAATTGAGGAA
* * ** * * *
6887 AAATTTTTCTGGTCAAAATTTGAAAAACTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTGG
195 AAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGG
** * * * *
6952 CTAAAAACGTGTTCCCGAGCGCCAGCTCAGTTTTGCATGATTTTTGACGCCAAGGCACCGTGAAA
260 CTAAAAACGCATT-CCGAGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAAA
*
7017 TAACTTTAT
324 TAACTATAT
*
7026 TCATCTTAACAAATCTCAGCAACATTGGGTTTAAGGAGTTGTTTTCTACGAGCATTTGAATCTTG
1 TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTT-TACGAGCATTTGAATCTTG
*
7091 TTTCGATATACTTAGAAATTAATTCAGAAAAAAATAAGAAAAACGTTATTAGAAGCGTGAAAAGC
65 TTTCGATATACTTAGAAATTAATTCAGAAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGC
* *
7156 CCTCCAATCTTTTTAGTGCTGAATTATATATTGTCAACAAGTATTTTTTATAACAAATTGAGGAA
130 CCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTATAACAAATTGAGGAA
** **
7221 AATTTTTTCGGGTCAAAATTTGCAAAATTTTAGCCGAAATCGTGTACT----ATCACGGTTTTGG
195 AAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGG
* * * *
7282 CCAAAAACGCATTCCTGGGCGCCGGTTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCGTCG-A
260 CTAAAAACGCATTCC-GAGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGT-GAA
*
7346 ATATCTATAT
323 ATAACTATAT
* * * *
7356 TTATC-TAACCATATCTCAGCAACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
1 TCATCTTAA-CAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCATTTGAATCTTG
* **
7420 TTTCGATATAATTAGAAATTAA-T-A-AAAAAAATAAGAAAAATTATATTAGAAGCGTGAAAAGC
65 TTTCGATATACTTAGAAATTAATTCAGAAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGC
7482 CCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTATGAA-AAATTGAGGA
130 CCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTAT-AACAAATTGAGGA
* * *
7546 AAAA-TTATCGGGT-ATATTTTTGCAAAATTTTAGCCGAAATCGTGTTCTAACCATCACAGTTTT
194 AAAACTTTTCGGGTCA-ATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTT
* * *
7609 GGCTAAAAACGCATTCCGAGACGTCAGCTCCGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGA
258 GGCTAAAAACGCATTCCGAG-CGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGA
*
7674 AATATCTATAT
322 AATAACTATAT
* * *
7685 TCATCTTAACAAATCTCTGCATCATAGGATTTAAGGAGTTGTTTTTTACGAGCATCTT-AATCTT
1 TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTG-TTTTTACGAGCAT-TTGAATCTT
* * * *
7749 GTTTTGATATACTTAGAAATTAATTCAGAAAAAATTTAA-AAAAATGATATTAGAAACGTGAAAA
64 GTTTCGATATACTTAGAAATTAATTCAGAAAAAA-ATAAGAAAAACGATATTAGAAGCGTGAAAA
* * ** * *
7813 GCCCTCCAATCTTTTTGGCGCTGACCTATATATTGTTAATGAGTATTTTTTATAAAAAATTGAGG
128 GCCCTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTATAACAAATTGAGG
** *
7878 AAAAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATTATGTACTAACCATCATGGTTTT
193 AAAAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTT
* * * * * * *
7943 GGCTAAAAACGCGTTTCGAGCTTCCGGCTTAGTTTTGCATGATTTTTGGCGGCAAGACTCCATTA
258 GGCTAAAAACGCATTCCGAGC-GCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGA
*
8008 AATAACTTTAT
322 AATAACTATAT
* * *
8019 TCATCTTAACGAATCTCAGCAACATTGGGTTTAAGGAGTTGTTTTTATGAGCATTTGAATCTTGT
1 TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCATTTGAATCTTGT
*
8084 TTCGATATATTTAGAAATTAATTCAG-AAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCC
66 TTCGATATACTTAGAAATTAATTCAGAAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCC
* * * *
8148 CTCCAATATTTATAGTGCTCAATTATATATTGTTAAAGAGTATTTTTTATAACAAATTGAGGAAA
131 CTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTATAACAAATTGAGGAAA
* *
8213 AACTTTTAGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGC
196 AACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGC
* * * * *
8278 TAAAAGCGCATTCCGGGGCGCCTGCTCAGTTTTGCATGATTTTTGGTGTCAAGACTCCGTGAAAT
261 TAAAAACGCATTCC-GAGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAAAT
*
8343 ATCTATAT
325 AACTATAT
* * * * *
8351 TCAT-TATAACAAATCTCAACAACATAGGATTTATGGATTTGTTTTTACGAGCATCTGAATCTTG
1 TCATCT-TAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCATTTGAATCTTG
* *
8415 TTTCGATATTCTTAGAAATTAAATCAGAAAAAAATAAGA
65 TTTCGATATACTTAGAAATTAATTCAGAAAAAAATAAGA
8454 TTTACCATAA
Statistics
Matches: 2110, Mismatches: 273, Indels: 86
0.85 0.11 0.03
Matches are distributed among these distances:
324 1 0.00
325 38 0.02
326 97 0.05
327 3 0.00
328 4 0.00
329 149 0.07
330 151 0.07
331 334 0.16
332 471 0.22
333 388 0.18
334 394 0.19
335 5 0.00
336 7 0.00
337 66 0.03
339 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (332 bp):
TCATCTTAACAAATCTCAGCAACATTGGATTTAAGGAGTTGTTTTTACGAGCATTTGAATCTTGT
TTCGATATACTTAGAAATTAATTCAGAAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGCC
CTCCAATCTTTTTAGTGCTGAATTATATATTGTTAACGAGTATTTTTTATAACAAATTGAGGAAA
AACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTGGC
TAAAAACGCATTCCGAGCGCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCGTGAAATA
ACTATAT
Found at i:10028 original size:50 final size:50
Alignment explanation
Indices: 9887--10410 Score: 762
Period size: 50 Copynumber: 10.2 Consensus size: 50
9877 ACATGCGAAG
9887 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
*
9937 ACGAGAAGACA-AGGGACCTCCACAGTGAGGCGAGGCCAGACACGAAGCTAC
1 ACGAGAAGACAGA-GG-CCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
* * *
9988 ACGAGAAGACAGAGGCCTCCACAGTTAGGCGAGGCCAGACACAAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
* * *
10038 ACGAGACGACAGACGCCTCCGCAGTGAGGCGAGGCCACACACGAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
*
10088 ACGAGAAGACAAAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
10138 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGCAGACACGAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGG-C--CAGACACGAAGCTAC
*
10191 AAGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGCAGACACGAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGG-C--CAGACACGAAGCTAC
* *
10244 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCAAGGCCAGCAGACACCAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGG-C--CAGACACGAAGCTAC
** *
10297 ACGAGAAGACAGAGGCCTCCGCAGTGAGATGAGGCCGGACACGAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
* *
10347 ACGAGAAGACAGAGGCCCCCACAGTGAGGCGAGGCCAGCAGACACGAAGCTAC
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGG-C--CAGACACGAAGCTAC
*
10400 GCGAGAAGACA
1 ACGAGAAGACA
10411 CACACCAAGG
Statistics
Matches: 436, Mismatches: 29, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
49 1 0.00
50 212 0.49
51 49 0.11
52 2 0.00
53 172 0.39
ACGTcount: A:0.34, C:0.28, G:0.32, T:0.06
Consensus pattern (50 bp):
ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTAC
Found at i:10338 original size:156 final size:151
Alignment explanation
Indices: 9887--10410 Score: 777
Period size: 156 Copynumber: 3.4 Consensus size: 151
9877 ACATGCGAAG
9887 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGG-C-CAGACACGAAGCTACACGAGAAGACAAG
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCACAGACACGAAGCTACACGAGAAGACAA-
* * *
9950 GGACCTCCACAGTGAGGCGAGGCCAGACACGAAGCTACACGAGAAGACAGAGGCCTCCACAGTTA
65 GG-CCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTACACGAGAAGACAGAGGCCTCCGCAGTGA
* *
10015 GGCGAGGCCAGACACAAAGCTAC
129 GGCGAGGCCGGACACGAAGCTAC
* *
10038 ACGAGACGACAGACGCCTCCGCAGTGAGGCGAGGCCAC--ACACGAAGCTACACGAGAAGACAAA
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCACAGACACGAAGCTACACGAGAAGAC-AA
10101 GGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTACACGAGAAGACAGAGGCCTCCGCAGTGAG
65 GGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTACACGAGAAGACAGAGGCCTCCGCAGTGAG
10166 GCGAGGCCAGCAGACACGAAGCTAC
130 GCGAGGCC-G--GACACGAAGCTAC
*
10191 AAGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCAGCAGACACGAAGCTACACGAGAAGACAG
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCA-CAGACACGAAGCTACACGAGAAGACA-
* *
10256 AGGCCTCCGCAGTGAGGCAAGGCCAGCAGACACCAAGCTACACGAGAAGACAGAGGCCTCCGCAG
64 AGGCCTCCGCAGTGAGGCGAGG-C--CAGACACGAAGCTACACGAGAAGACAGAGGCCTCCGCAG
**
10321 TGAGATGAGGCCGGACACGAAGCTAC
126 TGAGGCGAGGCCGGACACGAAGCTAC
* * *
10347 ACGAGAAGACAGAGGCCCCCACAGTGAGGCGAGGCCAGCAGACACGAAGCTACGCGAGAAGACA
1 ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCA-CAGACACGAAGCTACACGAGAAGACA
10411 CACACCAAGG
Statistics
Matches: 342, Mismatches: 18, Indels: 21
0.90 0.05 0.06
Matches are distributed among these distances:
150 68 0.20
151 56 0.16
152 3 0.01
153 47 0.14
154 1 0.00
155 1 0.00
156 116 0.34
157 1 0.00
158 1 0.00
159 48 0.14
ACGTcount: A:0.34, C:0.28, G:0.32, T:0.06
Consensus pattern (151 bp):
ACGAGAAGACAGAGGCCTCCGCAGTGAGGCGAGGCCACAGACACGAAGCTACACGAGAAGACAAG
GCCTCCGCAGTGAGGCGAGGCCAGACACGAAGCTACACGAGAAGACAGAGGCCTCCGCAGTGAGG
CGAGGCCGGACACGAAGCTAC
Found at i:10552 original size:2 final size:2
Alignment explanation
Indices: 10539--10593 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
10529 GTATCCTTGG
* *
10539 GA GA GA GG GA GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10581 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
10594 TAGTACGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Done.