Multiple sequence alignment - TraesCS6A01G018700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6A01G018700 chr6A 100.000 2570 0 0 1 2570 9053306 9055875 0.000000e+00 4747.0
1 TraesCS6A01G018700 chr6A 91.734 1234 93 8 612 1840 9134112 9135341 0.000000e+00 1705.0
2 TraesCS6A01G018700 chr6A 90.620 1226 97 12 612 1832 9113093 9114305 0.000000e+00 1611.0
3 TraesCS6A01G018700 chr6A 90.620 1226 97 12 612 1832 9128108 9129320 0.000000e+00 1611.0
4 TraesCS6A01G018700 chr6A 90.538 1226 98 12 612 1832 9098073 9099285 0.000000e+00 1605.0
5 TraesCS6A01G018700 chr6A 90.538 1226 98 12 612 1832 9104080 9105292 0.000000e+00 1605.0
6 TraesCS6A01G018700 chr6A 90.538 1226 98 12 612 1832 9107084 9108296 0.000000e+00 1605.0
7 TraesCS6A01G018700 chr6A 90.538 1226 98 12 612 1832 9122102 9123314 0.000000e+00 1605.0
8 TraesCS6A01G018700 chr6A 90.538 1226 98 12 612 1832 9125105 9126317 0.000000e+00 1605.0
9 TraesCS6A01G018700 chr6A 94.681 94 5 0 1886 1979 9135335 9135428 2.060000e-31 147.0
10 TraesCS6A01G018700 chr6A 95.946 74 3 0 380 453 9069590 9069663 1.250000e-23 121.0
11 TraesCS6A01G018700 chr6A 93.506 77 3 2 380 455 9142640 9142715 2.090000e-21 113.0
12 TraesCS6A01G018700 chr6D 92.476 1236 85 3 611 1841 8743951 8742719 0.000000e+00 1760.0
13 TraesCS6A01G018700 chr6D 80.025 791 90 32 379 1158 8752592 8751859 8.150000e-145 523.0
14 TraesCS6A01G018700 chr6D 89.303 402 41 2 2171 2570 8786079 8785678 1.060000e-138 503.0
15 TraesCS6A01G018700 chr6D 94.276 297 17 0 1880 2176 8786824 8786528 3.010000e-124 455.0
16 TraesCS6A01G018700 chr6D 86.262 313 14 11 1 312 8788371 8788087 1.920000e-81 313.0
17 TraesCS6A01G018700 chr6D 83.383 337 47 4 380 710 8788092 8787759 1.160000e-78 303.0
18 TraesCS6A01G018700 chr6D 95.890 73 3 0 380 452 8759352 8759280 4.490000e-23 119.0
19 TraesCS6A01G018700 chr6B 85.503 338 39 5 380 710 15929132 15928798 6.810000e-91 344.0
20 TraesCS6A01G018700 chr6B 85.127 316 17 16 1 312 15929416 15929127 1.930000e-76 296.0
21 TraesCS6A01G018700 chr6B 92.553 94 7 0 1886 1979 15889705 15889612 4.460000e-28 135.0
22 TraesCS6A01G018700 chr6B 93.243 74 4 1 383 455 15886008 15885935 9.720000e-20 108.0
23 TraesCS6A01G018700 chrUn 91.489 94 8 0 1886 1979 357590007 357589914 2.080000e-26 130.0
24 TraesCS6A01G018700 chr1B 93.103 58 4 0 318 375 465232749 465232806 4.560000e-13 86.1
25 TraesCS6A01G018700 chr1B 93.103 58 4 0 317 374 507805421 507805364 4.560000e-13 86.1
26 TraesCS6A01G018700 chr1A 93.617 47 3 0 326 372 551734144 551734190 1.280000e-08 71.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G018700 chr6A 9053306 9055875 2569 False 4747.0 4747 100.000000 1 2570 1 chr6A.!!$F1 2569
1 TraesCS6A01G018700 chr6A 9113093 9114305 1212 False 1611.0 1611 90.620000 612 1832 1 chr6A.!!$F4 1220
2 TraesCS6A01G018700 chr6A 9122102 9129320 7218 False 1607.0 1611 90.565333 612 1832 3 chr6A.!!$F7 1220
3 TraesCS6A01G018700 chr6A 9098073 9099285 1212 False 1605.0 1605 90.538000 612 1832 1 chr6A.!!$F3 1220
4 TraesCS6A01G018700 chr6A 9104080 9108296 4216 False 1605.0 1605 90.538000 612 1832 2 chr6A.!!$F6 1220
5 TraesCS6A01G018700 chr6A 9134112 9135428 1316 False 926.0 1705 93.207500 612 1979 2 chr6A.!!$F8 1367
6 TraesCS6A01G018700 chr6D 8742719 8743951 1232 True 1760.0 1760 92.476000 611 1841 1 chr6D.!!$R1 1230
7 TraesCS6A01G018700 chr6D 8751859 8752592 733 True 523.0 523 80.025000 379 1158 1 chr6D.!!$R2 779
8 TraesCS6A01G018700 chr6D 8785678 8788371 2693 True 393.5 503 88.306000 1 2570 4 chr6D.!!$R4 2569
9 TraesCS6A01G018700 chr6B 15928798 15929416 618 True 320.0 344 85.315000 1 710 2 chr6B.!!$R2 709

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
152 156 0.037326 TGTGCTCCGCTACCTTTCTG 60.037 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 11083 0.325933 CTGTCCAGAACCATGCCTGA 59.674 55.0 8.86 0.0 32.37 3.86 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
88 91 3.122613 GCGATACTGAGATGTATGCAAGC 59.877 47.826 0.00 0.00 33.74 4.01
146 150 3.102097 GCAATGTGCTCCGCTACC 58.898 61.111 0.00 0.00 40.96 3.18
147 151 1.450312 GCAATGTGCTCCGCTACCT 60.450 57.895 0.00 0.00 40.96 3.08
148 152 1.026718 GCAATGTGCTCCGCTACCTT 61.027 55.000 0.00 0.00 40.96 3.50
149 153 1.453155 CAATGTGCTCCGCTACCTTT 58.547 50.000 0.00 0.00 0.00 3.11
150 154 1.398390 CAATGTGCTCCGCTACCTTTC 59.602 52.381 0.00 0.00 0.00 2.62
151 155 0.905357 ATGTGCTCCGCTACCTTTCT 59.095 50.000 0.00 0.00 0.00 2.52
152 156 0.037326 TGTGCTCCGCTACCTTTCTG 60.037 55.000 0.00 0.00 0.00 3.02
153 157 1.079127 TGCTCCGCTACCTTTCTGC 60.079 57.895 0.00 0.00 0.00 4.26
154 158 1.815840 GCTCCGCTACCTTTCTGCC 60.816 63.158 0.00 0.00 0.00 4.85
155 159 1.596934 CTCCGCTACCTTTCTGCCA 59.403 57.895 0.00 0.00 0.00 4.92
156 160 0.460987 CTCCGCTACCTTTCTGCCAG 60.461 60.000 0.00 0.00 0.00 4.85
157 161 2.109126 CCGCTACCTTTCTGCCAGC 61.109 63.158 0.00 0.00 0.00 4.85
158 162 3.490890 GCTACCTTTCTGCCAGCG 58.509 61.111 0.00 0.00 0.00 5.18
159 163 2.754995 GCTACCTTTCTGCCAGCGC 61.755 63.158 0.00 0.00 0.00 5.92
160 164 2.434185 TACCTTTCTGCCAGCGCG 60.434 61.111 0.00 0.00 38.08 6.86
161 165 3.234630 TACCTTTCTGCCAGCGCGT 62.235 57.895 8.43 0.00 38.08 6.01
162 166 1.879737 TACCTTTCTGCCAGCGCGTA 61.880 55.000 8.43 0.00 38.08 4.42
163 167 1.815421 CCTTTCTGCCAGCGCGTAT 60.815 57.895 8.43 0.00 38.08 3.06
164 168 0.529773 CCTTTCTGCCAGCGCGTATA 60.530 55.000 8.43 0.00 38.08 1.47
165 169 1.502231 CTTTCTGCCAGCGCGTATAT 58.498 50.000 8.43 0.00 38.08 0.86
166 170 1.193203 CTTTCTGCCAGCGCGTATATG 59.807 52.381 8.43 1.63 38.08 1.78
167 171 1.221466 TTCTGCCAGCGCGTATATGC 61.221 55.000 8.43 6.88 38.08 3.14
168 172 1.955663 CTGCCAGCGCGTATATGCA 60.956 57.895 16.91 9.25 38.08 3.96
169 173 1.894223 CTGCCAGCGCGTATATGCAG 61.894 60.000 16.91 18.33 40.05 4.41
170 174 1.956170 GCCAGCGCGTATATGCAGT 60.956 57.895 16.91 0.08 34.15 4.40
174 178 1.452025 CAGCGCGTATATGCAGTGTAC 59.548 52.381 16.91 0.00 34.15 2.90
244 249 5.357257 AGTAAGATGTTACTACGGCAATGG 58.643 41.667 13.29 0.00 45.92 3.16
306 313 3.865011 ATGGCGAAAATATGTGTTGCA 57.135 38.095 0.00 0.00 0.00 4.08
307 314 3.214697 TGGCGAAAATATGTGTTGCAG 57.785 42.857 0.00 0.00 0.00 4.41
308 315 1.919918 GGCGAAAATATGTGTTGCAGC 59.080 47.619 0.00 0.00 0.00 5.25
309 316 2.594321 GCGAAAATATGTGTTGCAGCA 58.406 42.857 0.00 0.00 0.00 4.41
310 317 2.595536 GCGAAAATATGTGTTGCAGCAG 59.404 45.455 2.40 0.00 0.00 4.24
311 318 2.595536 CGAAAATATGTGTTGCAGCAGC 59.404 45.455 2.40 1.51 42.57 5.25
312 319 3.671433 CGAAAATATGTGTTGCAGCAGCT 60.671 43.478 10.92 0.00 42.74 4.24
313 320 3.947910 AAATATGTGTTGCAGCAGCTT 57.052 38.095 10.92 0.63 42.74 3.74
314 321 2.933495 ATATGTGTTGCAGCAGCTTG 57.067 45.000 10.92 0.00 42.74 4.01
315 322 1.608055 TATGTGTTGCAGCAGCTTGT 58.392 45.000 10.92 0.00 42.74 3.16
316 323 0.748450 ATGTGTTGCAGCAGCTTGTT 59.252 45.000 10.92 0.00 42.74 2.83
317 324 0.531657 TGTGTTGCAGCAGCTTGTTT 59.468 45.000 10.92 0.00 42.74 2.83
318 325 1.067000 TGTGTTGCAGCAGCTTGTTTT 60.067 42.857 10.92 0.00 42.74 2.43
319 326 1.589779 GTGTTGCAGCAGCTTGTTTTC 59.410 47.619 10.92 0.00 42.74 2.29
320 327 1.477700 TGTTGCAGCAGCTTGTTTTCT 59.522 42.857 10.92 0.00 42.74 2.52
321 328 2.094078 TGTTGCAGCAGCTTGTTTTCTT 60.094 40.909 10.92 0.00 42.74 2.52
322 329 2.497107 TGCAGCAGCTTGTTTTCTTC 57.503 45.000 1.76 0.00 42.74 2.87
323 330 1.067516 TGCAGCAGCTTGTTTTCTTCC 59.932 47.619 1.76 0.00 42.74 3.46
324 331 1.603931 GCAGCAGCTTGTTTTCTTCCC 60.604 52.381 0.00 0.00 37.91 3.97
325 332 1.959282 CAGCAGCTTGTTTTCTTCCCT 59.041 47.619 0.00 0.00 0.00 4.20
326 333 1.959282 AGCAGCTTGTTTTCTTCCCTG 59.041 47.619 0.00 0.00 0.00 4.45
327 334 1.683385 GCAGCTTGTTTTCTTCCCTGT 59.317 47.619 0.00 0.00 0.00 4.00
328 335 2.884639 GCAGCTTGTTTTCTTCCCTGTA 59.115 45.455 0.00 0.00 0.00 2.74
329 336 3.317993 GCAGCTTGTTTTCTTCCCTGTAA 59.682 43.478 0.00 0.00 0.00 2.41
330 337 4.202111 GCAGCTTGTTTTCTTCCCTGTAAA 60.202 41.667 0.00 0.00 0.00 2.01
331 338 5.281727 CAGCTTGTTTTCTTCCCTGTAAAC 58.718 41.667 0.00 0.00 0.00 2.01
332 339 4.341235 AGCTTGTTTTCTTCCCTGTAAACC 59.659 41.667 0.00 0.00 31.25 3.27
333 340 4.341235 GCTTGTTTTCTTCCCTGTAAACCT 59.659 41.667 0.00 0.00 31.25 3.50
334 341 5.163447 GCTTGTTTTCTTCCCTGTAAACCTT 60.163 40.000 0.00 0.00 31.25 3.50
335 342 5.845391 TGTTTTCTTCCCTGTAAACCTTG 57.155 39.130 0.00 0.00 31.25 3.61
336 343 5.265989 TGTTTTCTTCCCTGTAAACCTTGT 58.734 37.500 0.00 0.00 31.25 3.16
337 344 5.126384 TGTTTTCTTCCCTGTAAACCTTGTG 59.874 40.000 0.00 0.00 31.25 3.33
338 345 4.781775 TTCTTCCCTGTAAACCTTGTGA 57.218 40.909 0.00 0.00 0.00 3.58
339 346 4.081322 TCTTCCCTGTAAACCTTGTGAC 57.919 45.455 0.00 0.00 0.00 3.67
340 347 2.536761 TCCCTGTAAACCTTGTGACG 57.463 50.000 0.00 0.00 0.00 4.35
341 348 1.071071 TCCCTGTAAACCTTGTGACGG 59.929 52.381 0.00 0.00 0.00 4.79
342 349 1.202722 CCCTGTAAACCTTGTGACGGT 60.203 52.381 0.00 0.00 35.97 4.83
343 350 2.567985 CCTGTAAACCTTGTGACGGTT 58.432 47.619 0.00 0.00 46.27 4.44
344 351 2.289547 CCTGTAAACCTTGTGACGGTTG 59.710 50.000 0.00 0.00 43.66 3.77
345 352 3.199677 CTGTAAACCTTGTGACGGTTGA 58.800 45.455 0.00 0.00 43.66 3.18
346 353 3.607741 TGTAAACCTTGTGACGGTTGAA 58.392 40.909 0.00 0.00 43.66 2.69
347 354 4.200874 TGTAAACCTTGTGACGGTTGAAT 58.799 39.130 0.00 0.00 43.66 2.57
348 355 5.366460 TGTAAACCTTGTGACGGTTGAATA 58.634 37.500 0.00 0.00 43.66 1.75
349 356 5.821470 TGTAAACCTTGTGACGGTTGAATAA 59.179 36.000 0.00 0.00 43.66 1.40
350 357 5.838531 AAACCTTGTGACGGTTGAATAAA 57.161 34.783 0.00 0.00 43.66 1.40
351 358 5.432885 AACCTTGTGACGGTTGAATAAAG 57.567 39.130 0.00 0.00 42.87 1.85
352 359 3.252458 ACCTTGTGACGGTTGAATAAAGC 59.748 43.478 0.00 0.00 0.00 3.51
353 360 3.502211 CCTTGTGACGGTTGAATAAAGCT 59.498 43.478 0.00 0.00 33.95 3.74
354 361 4.023193 CCTTGTGACGGTTGAATAAAGCTT 60.023 41.667 0.00 0.00 33.95 3.74
355 362 5.507315 CCTTGTGACGGTTGAATAAAGCTTT 60.507 40.000 17.30 17.30 33.95 3.51
356 363 4.854399 TGTGACGGTTGAATAAAGCTTTG 58.146 39.130 22.02 4.70 33.95 2.77
357 364 4.336993 TGTGACGGTTGAATAAAGCTTTGT 59.663 37.500 22.02 12.64 33.95 2.83
358 365 4.675114 GTGACGGTTGAATAAAGCTTTGTG 59.325 41.667 22.02 4.68 33.95 3.33
359 366 4.576873 TGACGGTTGAATAAAGCTTTGTGA 59.423 37.500 22.02 1.88 33.95 3.58
360 367 5.108385 ACGGTTGAATAAAGCTTTGTGAG 57.892 39.130 22.02 7.24 33.95 3.51
361 368 4.578928 ACGGTTGAATAAAGCTTTGTGAGT 59.421 37.500 22.02 0.49 33.95 3.41
362 369 5.067283 ACGGTTGAATAAAGCTTTGTGAGTT 59.933 36.000 22.02 8.35 33.95 3.01
363 370 5.977129 CGGTTGAATAAAGCTTTGTGAGTTT 59.023 36.000 22.02 0.00 33.95 2.66
364 371 6.074888 CGGTTGAATAAAGCTTTGTGAGTTTG 60.075 38.462 22.02 2.73 33.95 2.93
365 372 6.756542 GGTTGAATAAAGCTTTGTGAGTTTGT 59.243 34.615 22.02 0.00 33.31 2.83
366 373 7.043391 GGTTGAATAAAGCTTTGTGAGTTTGTC 60.043 37.037 22.02 8.09 33.31 3.18
367 374 7.333528 TGAATAAAGCTTTGTGAGTTTGTCT 57.666 32.000 22.02 0.00 0.00 3.41
368 375 8.445275 TGAATAAAGCTTTGTGAGTTTGTCTA 57.555 30.769 22.02 0.00 0.00 2.59
369 376 8.898761 TGAATAAAGCTTTGTGAGTTTGTCTAA 58.101 29.630 22.02 0.00 0.00 2.10
370 377 9.730420 GAATAAAGCTTTGTGAGTTTGTCTAAA 57.270 29.630 22.02 0.00 0.00 1.85
466 478 9.912634 TTATTTCCTTCTGTGTGAAATTGAATC 57.087 29.630 0.00 0.00 38.99 2.52
476 488 8.217131 TGTGTGAAATTGAATCAGGATATCTG 57.783 34.615 2.05 0.00 44.68 2.90
482 494 9.129532 GAAATTGAATCAGGATATCTGGTTTCT 57.870 33.333 2.05 0.00 46.11 2.52
565 577 1.664016 GCCTTGCATGAACACACGAAG 60.664 52.381 0.00 0.00 0.00 3.79
585 597 0.173708 GAGACCTGCACGAACTAGGG 59.826 60.000 0.00 0.00 35.89 3.53
588 600 1.207329 GACCTGCACGAACTAGGGAAT 59.793 52.381 0.00 0.00 35.89 3.01
589 601 1.628846 ACCTGCACGAACTAGGGAATT 59.371 47.619 0.00 0.00 35.89 2.17
652 3677 7.532571 TGTTGCTATCAATTCATTCAGTTCTG 58.467 34.615 0.00 0.00 34.29 3.02
671 3696 4.318332 TCTGTGAACCTGTTCTGCAATAG 58.682 43.478 11.03 0.00 40.14 1.73
682 3707 7.067494 ACCTGTTCTGCAATAGTTTTATCATCC 59.933 37.037 0.00 0.00 0.00 3.51
788 3819 6.053005 ACAATCCATTTGATACGTTACGGAT 58.947 36.000 0.55 0.55 38.76 4.18
866 6900 1.634702 CTCAGAACTGAACTAGCGGC 58.365 55.000 6.01 0.00 39.39 6.53
868 6902 1.343142 TCAGAACTGAACTAGCGGCAA 59.657 47.619 1.45 0.00 36.53 4.52
883 6917 5.018539 AGCGGCAACACTATATAAAGTCA 57.981 39.130 1.45 0.00 0.00 3.41
943 6977 4.528920 AGGCAAACAAACCAGTACTGTAA 58.471 39.130 21.18 0.00 0.00 2.41
955 6991 4.377021 CAGTACTGTAACAGCAACCAAGA 58.623 43.478 15.06 0.00 34.37 3.02
956 6992 4.814234 CAGTACTGTAACAGCAACCAAGAA 59.186 41.667 15.06 0.00 34.37 2.52
957 6993 5.050091 CAGTACTGTAACAGCAACCAAGAAG 60.050 44.000 15.06 0.00 34.37 2.85
963 6999 6.296026 TGTAACAGCAACCAAGAAGAAGTAT 58.704 36.000 0.00 0.00 0.00 2.12
974 7010 6.610425 ACCAAGAAGAAGTATACGAGGGTTAT 59.390 38.462 0.00 0.00 0.00 1.89
1048 7084 0.620556 GGCAATCTTCCTCCTGGTGA 59.379 55.000 0.00 0.00 34.23 4.02
1158 7194 0.033504 GTGAGAAGAGCAACGACCCA 59.966 55.000 0.00 0.00 0.00 4.51
1578 10618 5.551233 TGGTCTGATGAGTAGTTTCCAAAG 58.449 41.667 0.00 0.00 0.00 2.77
1607 10647 1.586154 GCGCAGGTTGTTGCTACCAT 61.586 55.000 0.30 0.00 41.90 3.55
1689 10729 6.718912 ACTTATCCTATACTCGGGAGGTTTAC 59.281 42.308 0.00 0.00 34.89 2.01
1756 10796 5.182001 GCTACCTATGTTTTAGCATGGATGG 59.818 44.000 0.00 0.00 38.50 3.51
1793 10833 8.689251 TTGCTCTACGATCAAGCATATAATAC 57.311 34.615 9.15 0.00 44.84 1.89
1833 10873 7.176515 TGGTGCATAAAGAATATGAAACACACT 59.823 33.333 0.00 0.00 25.63 3.55
1842 10882 8.815565 AGAATATGAAACACACTAGAGAGAGA 57.184 34.615 0.00 0.00 0.00 3.10
1843 10883 8.902806 AGAATATGAAACACACTAGAGAGAGAG 58.097 37.037 0.00 0.00 0.00 3.20
1844 10884 8.815565 AATATGAAACACACTAGAGAGAGAGA 57.184 34.615 0.00 0.00 0.00 3.10
1845 10885 6.757897 ATGAAACACACTAGAGAGAGAGAG 57.242 41.667 0.00 0.00 0.00 3.20
1846 10886 5.870706 TGAAACACACTAGAGAGAGAGAGA 58.129 41.667 0.00 0.00 0.00 3.10
1847 10887 5.937540 TGAAACACACTAGAGAGAGAGAGAG 59.062 44.000 0.00 0.00 0.00 3.20
1848 10888 5.755409 AACACACTAGAGAGAGAGAGAGA 57.245 43.478 0.00 0.00 0.00 3.10
1849 10889 5.344743 ACACACTAGAGAGAGAGAGAGAG 57.655 47.826 0.00 0.00 0.00 3.20
1850 10890 5.023452 ACACACTAGAGAGAGAGAGAGAGA 58.977 45.833 0.00 0.00 0.00 3.10
1851 10891 5.127845 ACACACTAGAGAGAGAGAGAGAGAG 59.872 48.000 0.00 0.00 0.00 3.20
1852 10892 5.360999 CACACTAGAGAGAGAGAGAGAGAGA 59.639 48.000 0.00 0.00 0.00 3.10
1853 10893 5.596361 ACACTAGAGAGAGAGAGAGAGAGAG 59.404 48.000 0.00 0.00 0.00 3.20
1854 10894 5.830457 CACTAGAGAGAGAGAGAGAGAGAGA 59.170 48.000 0.00 0.00 0.00 3.10
1855 10895 6.016360 CACTAGAGAGAGAGAGAGAGAGAGAG 60.016 50.000 0.00 0.00 0.00 3.20
1856 10896 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
1857 10897 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1858 10898 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1859 10899 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1860 10900 4.222336 AGAGAGAGAGAGAGAGAGAGAGG 58.778 52.174 0.00 0.00 0.00 3.69
1861 10901 3.312890 AGAGAGAGAGAGAGAGAGAGGG 58.687 54.545 0.00 0.00 0.00 4.30
1862 10902 3.051803 AGAGAGAGAGAGAGAGAGAGGGA 60.052 52.174 0.00 0.00 0.00 4.20
1863 10903 3.312890 AGAGAGAGAGAGAGAGAGGGAG 58.687 54.545 0.00 0.00 0.00 4.30
1864 10904 3.051803 AGAGAGAGAGAGAGAGAGGGAGA 60.052 52.174 0.00 0.00 0.00 3.71
1865 10905 3.312890 AGAGAGAGAGAGAGAGGGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1866 10906 3.051803 AGAGAGAGAGAGAGAGGGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1867 10907 3.312890 AGAGAGAGAGAGAGGGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1868 10908 3.051803 AGAGAGAGAGAGAGGGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1869 10909 3.312890 AGAGAGAGAGAGGGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1870 10910 3.051803 AGAGAGAGAGAGGGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1871 10911 3.312890 AGAGAGAGAGGGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1872 10912 3.051803 AGAGAGAGAGGGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1873 10913 3.312890 AGAGAGAGGGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1874 10914 3.051803 AGAGAGAGGGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1875 10915 3.312890 AGAGAGGGAGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1876 10916 3.051803 AGAGAGGGAGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1877 10917 3.312890 AGAGGGAGAGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1878 10918 3.051803 AGAGGGAGAGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1879 10919 3.312890 AGGGAGAGAGAGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1880 10920 3.051803 AGGGAGAGAGAGAGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1881 10921 3.323403 GGGAGAGAGAGAGAGAGAGAGAG 59.677 56.522 0.00 0.00 0.00 3.20
1882 10922 4.219115 GGAGAGAGAGAGAGAGAGAGAGA 58.781 52.174 0.00 0.00 0.00 3.10
1883 10923 4.280677 GGAGAGAGAGAGAGAGAGAGAGAG 59.719 54.167 0.00 0.00 0.00 3.20
1884 10924 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
1885 10925 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1886 10926 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1887 10927 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1888 10928 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1893 10933 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1930 10970 1.401905 CGCTCATTTTCAAGGGTAGCC 59.598 52.381 1.60 1.60 0.00 3.93
2043 11083 6.017934 CAGTAATGTGTTACAAGCACTCAACT 60.018 38.462 0.00 0.00 42.13 3.16
2045 11085 3.867857 TGTGTTACAAGCACTCAACTCA 58.132 40.909 0.00 0.00 37.70 3.41
2047 11087 3.248602 GTGTTACAAGCACTCAACTCAGG 59.751 47.826 0.00 0.00 34.30 3.86
2069 11109 3.375299 GCATGGTTCTGGACAGATGTAAC 59.625 47.826 2.42 0.00 37.29 2.50
2070 11110 4.578871 CATGGTTCTGGACAGATGTAACA 58.421 43.478 2.42 0.00 37.29 2.41
2071 11111 4.698201 TGGTTCTGGACAGATGTAACAA 57.302 40.909 2.42 0.00 37.29 2.83
2072 11112 4.385825 TGGTTCTGGACAGATGTAACAAC 58.614 43.478 2.42 0.00 37.29 3.32
2113 11153 5.841237 TCCAAAGTTTGATAACCCCAAATCA 59.159 36.000 17.33 0.00 36.14 2.57
2147 11187 4.440880 CCAGCCATTTTTCTTCACACAAA 58.559 39.130 0.00 0.00 0.00 2.83
2149 11189 5.111293 CAGCCATTTTTCTTCACACAAAGT 58.889 37.500 0.00 0.00 0.00 2.66
2186 11226 5.248870 TCAAGAAAAGTTTGTTGAGGCTC 57.751 39.130 7.79 7.79 42.98 4.70
2187 11227 4.097892 TCAAGAAAAGTTTGTTGAGGCTCC 59.902 41.667 12.86 0.00 42.98 4.70
2188 11228 2.959030 AGAAAAGTTTGTTGAGGCTCCC 59.041 45.455 12.86 3.04 0.00 4.30
2189 11229 2.755952 AAAGTTTGTTGAGGCTCCCT 57.244 45.000 12.86 0.00 36.03 4.20
2190 11230 2.755952 AAGTTTGTTGAGGCTCCCTT 57.244 45.000 12.86 1.88 31.76 3.95
2272 11766 1.559368 TGCAAAACATGGAGGGATGG 58.441 50.000 0.00 0.00 0.00 3.51
2275 11769 0.712380 AAAACATGGAGGGATGGGCT 59.288 50.000 0.00 0.00 0.00 5.19
2295 11789 2.672996 CACTGAAAGGGGCCCACG 60.673 66.667 27.72 10.14 39.30 4.94
2297 11791 1.844289 ACTGAAAGGGGCCCACGTA 60.844 57.895 27.72 7.42 39.30 3.57
2299 11793 2.437895 GAAAGGGGCCCACGTAGC 60.438 66.667 27.72 4.38 0.00 3.58
2304 11798 3.142838 GGGCCCACGTAGCGAGTA 61.143 66.667 19.95 0.00 0.00 2.59
2315 11809 1.065251 GTAGCGAGTAGAAACGAGGGG 59.935 57.143 0.00 0.00 0.00 4.79
2317 11811 0.245813 GCGAGTAGAAACGAGGGGTT 59.754 55.000 0.00 0.00 41.76 4.11
2349 11843 2.897972 GGTATGGACGAAGGCGGT 59.102 61.111 0.00 0.00 43.17 5.68
2368 11862 1.812571 GTGTCGGCACAATCCATTCTT 59.187 47.619 16.80 0.00 44.64 2.52
2373 11867 2.424601 CGGCACAATCCATTCTTGACAT 59.575 45.455 0.00 0.00 0.00 3.06
2387 11881 1.511464 GACATCGTCGACGCTTCGT 60.511 57.895 32.19 23.58 46.01 3.85
2401 11895 3.121126 ACGCTTCGTACAAAAGATTGACG 60.121 43.478 8.74 5.28 38.73 4.35
2409 11903 4.999751 ACAAAAGATTGACGAGAGAAGC 57.000 40.909 0.00 0.00 38.94 3.86
2455 11950 1.534729 GTCCGGAGCAAGGAAAATGT 58.465 50.000 3.06 0.00 39.84 2.71
2514 12009 0.392863 CATGGTGCGGTGATCCAGAA 60.393 55.000 0.00 0.00 34.62 3.02
2515 12010 0.327924 ATGGTGCGGTGATCCAGAAA 59.672 50.000 0.00 0.00 34.62 2.52
2516 12011 0.327924 TGGTGCGGTGATCCAGAAAT 59.672 50.000 0.00 0.00 0.00 2.17
2527 12023 5.440610 GTGATCCAGAAATGGTATTGGAGT 58.559 41.667 0.00 0.00 42.54 3.85
2530 12026 2.689983 CCAGAAATGGTATTGGAGTGCC 59.310 50.000 0.00 0.00 32.34 5.01
2532 12028 2.026262 AGAAATGGTATTGGAGTGCCGT 60.026 45.455 0.00 0.00 36.79 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 70 4.301628 TGCTTGCATACATCTCAGTATCG 58.698 43.478 0.00 0.00 32.56 2.92
88 91 1.822990 AGAACAGGGCATGCTTGATTG 59.177 47.619 23.30 14.63 0.00 2.67
138 142 1.596934 CTGGCAGAAAGGTAGCGGA 59.403 57.895 9.42 0.00 0.00 5.54
139 143 2.109126 GCTGGCAGAAAGGTAGCGG 61.109 63.158 20.86 0.00 0.00 5.52
140 144 3.490890 GCTGGCAGAAAGGTAGCG 58.509 61.111 20.86 0.00 0.00 4.26
143 147 1.879737 TACGCGCTGGCAGAAAGGTA 61.880 55.000 20.86 10.97 39.92 3.08
144 148 2.521958 ATACGCGCTGGCAGAAAGGT 62.522 55.000 20.86 11.98 39.92 3.50
145 149 0.529773 TATACGCGCTGGCAGAAAGG 60.530 55.000 20.86 6.21 39.92 3.11
146 150 1.193203 CATATACGCGCTGGCAGAAAG 59.807 52.381 20.86 10.27 39.92 2.62
147 151 1.217001 CATATACGCGCTGGCAGAAA 58.783 50.000 20.86 0.00 39.92 2.52
148 152 1.221466 GCATATACGCGCTGGCAGAA 61.221 55.000 20.86 0.00 39.92 3.02
149 153 1.664649 GCATATACGCGCTGGCAGA 60.665 57.895 20.86 0.00 39.92 4.26
150 154 1.894223 CTGCATATACGCGCTGGCAG 61.894 60.000 19.27 19.27 42.14 4.85
151 155 1.955663 CTGCATATACGCGCTGGCA 60.956 57.895 5.73 8.75 39.92 4.92
152 156 1.956170 ACTGCATATACGCGCTGGC 60.956 57.895 5.73 3.67 33.35 4.85
153 157 0.875908 ACACTGCATATACGCGCTGG 60.876 55.000 5.73 0.00 33.35 4.85
154 158 1.452025 GTACACTGCATATACGCGCTG 59.548 52.381 5.73 1.02 33.35 5.18
155 159 1.337071 AGTACACTGCATATACGCGCT 59.663 47.619 5.73 0.00 33.35 5.92
156 160 1.767289 AGTACACTGCATATACGCGC 58.233 50.000 5.73 0.00 33.35 6.86
157 161 3.880610 TGTAGTACACTGCATATACGCG 58.119 45.455 3.53 3.53 33.67 6.01
158 162 5.918576 TGAATGTAGTACACTGCATATACGC 59.081 40.000 12.48 0.00 46.23 4.42
159 163 6.582672 CCTGAATGTAGTACACTGCATATACG 59.417 42.308 12.48 3.70 46.23 3.06
160 164 6.366332 GCCTGAATGTAGTACACTGCATATAC 59.634 42.308 12.48 8.55 46.23 1.47
161 165 6.041523 TGCCTGAATGTAGTACACTGCATATA 59.958 38.462 12.48 5.29 46.23 0.86
162 166 5.163311 TGCCTGAATGTAGTACACTGCATAT 60.163 40.000 12.48 4.66 46.23 1.78
163 167 4.161377 TGCCTGAATGTAGTACACTGCATA 59.839 41.667 12.48 0.00 46.23 3.14
165 169 2.301583 TGCCTGAATGTAGTACACTGCA 59.698 45.455 4.80 7.43 42.54 4.41
166 170 2.972625 TGCCTGAATGTAGTACACTGC 58.027 47.619 4.80 4.96 0.00 4.40
167 171 5.178061 TCATTGCCTGAATGTAGTACACTG 58.822 41.667 4.80 0.00 42.06 3.66
168 172 5.420725 TCATTGCCTGAATGTAGTACACT 57.579 39.130 4.80 0.00 42.06 3.55
169 173 6.494893 TTTCATTGCCTGAATGTAGTACAC 57.505 37.500 4.80 0.00 43.30 2.90
170 174 6.095300 CCATTTCATTGCCTGAATGTAGTACA 59.905 38.462 5.24 5.24 43.30 2.90
174 178 5.345702 CACCATTTCATTGCCTGAATGTAG 58.654 41.667 0.21 0.00 43.30 2.74
244 249 4.583871 ACCACAGTTTCATCCTCAGATTC 58.416 43.478 0.00 0.00 0.00 2.52
306 313 1.959282 CAGGGAAGAAAACAAGCTGCT 59.041 47.619 0.00 0.00 0.00 4.24
307 314 1.683385 ACAGGGAAGAAAACAAGCTGC 59.317 47.619 0.00 0.00 0.00 5.25
308 315 5.281727 GTTTACAGGGAAGAAAACAAGCTG 58.718 41.667 0.00 0.00 33.16 4.24
309 316 4.341235 GGTTTACAGGGAAGAAAACAAGCT 59.659 41.667 0.00 0.00 34.30 3.74
310 317 4.341235 AGGTTTACAGGGAAGAAAACAAGC 59.659 41.667 0.00 0.00 34.30 4.01
311 318 6.127451 ACAAGGTTTACAGGGAAGAAAACAAG 60.127 38.462 0.00 0.00 34.30 3.16
312 319 5.717654 ACAAGGTTTACAGGGAAGAAAACAA 59.282 36.000 0.00 0.00 34.30 2.83
313 320 5.126384 CACAAGGTTTACAGGGAAGAAAACA 59.874 40.000 0.00 0.00 34.30 2.83
314 321 5.358725 TCACAAGGTTTACAGGGAAGAAAAC 59.641 40.000 0.00 0.00 0.00 2.43
315 322 5.358725 GTCACAAGGTTTACAGGGAAGAAAA 59.641 40.000 0.00 0.00 0.00 2.29
316 323 4.885325 GTCACAAGGTTTACAGGGAAGAAA 59.115 41.667 0.00 0.00 0.00 2.52
317 324 4.457466 GTCACAAGGTTTACAGGGAAGAA 58.543 43.478 0.00 0.00 0.00 2.52
318 325 3.493699 CGTCACAAGGTTTACAGGGAAGA 60.494 47.826 0.00 0.00 0.00 2.87
319 326 2.806244 CGTCACAAGGTTTACAGGGAAG 59.194 50.000 0.00 0.00 0.00 3.46
320 327 2.485835 CCGTCACAAGGTTTACAGGGAA 60.486 50.000 0.00 0.00 0.00 3.97
321 328 1.071071 CCGTCACAAGGTTTACAGGGA 59.929 52.381 0.00 0.00 0.00 4.20
322 329 1.202722 ACCGTCACAAGGTTTACAGGG 60.203 52.381 0.00 0.00 39.29 4.45
323 330 2.249844 ACCGTCACAAGGTTTACAGG 57.750 50.000 0.00 0.00 39.29 4.00
330 337 3.252458 GCTTTATTCAACCGTCACAAGGT 59.748 43.478 0.00 0.00 45.29 3.50
331 338 3.502211 AGCTTTATTCAACCGTCACAAGG 59.498 43.478 0.00 0.00 0.00 3.61
332 339 4.749245 AGCTTTATTCAACCGTCACAAG 57.251 40.909 0.00 0.00 0.00 3.16
333 340 5.163602 ACAAAGCTTTATTCAACCGTCACAA 60.164 36.000 12.25 0.00 0.00 3.33
334 341 4.336993 ACAAAGCTTTATTCAACCGTCACA 59.663 37.500 12.25 0.00 0.00 3.58
335 342 4.675114 CACAAAGCTTTATTCAACCGTCAC 59.325 41.667 12.25 0.00 0.00 3.67
336 343 4.576873 TCACAAAGCTTTATTCAACCGTCA 59.423 37.500 12.25 0.00 0.00 4.35
337 344 5.103290 TCACAAAGCTTTATTCAACCGTC 57.897 39.130 12.25 0.00 0.00 4.79
338 345 4.578928 ACTCACAAAGCTTTATTCAACCGT 59.421 37.500 12.25 0.00 0.00 4.83
339 346 5.108385 ACTCACAAAGCTTTATTCAACCG 57.892 39.130 12.25 0.00 0.00 4.44
340 347 6.756542 ACAAACTCACAAAGCTTTATTCAACC 59.243 34.615 12.25 0.00 0.00 3.77
341 348 7.702348 AGACAAACTCACAAAGCTTTATTCAAC 59.298 33.333 12.25 0.00 0.00 3.18
342 349 7.771183 AGACAAACTCACAAAGCTTTATTCAA 58.229 30.769 12.25 0.00 0.00 2.69
343 350 7.333528 AGACAAACTCACAAAGCTTTATTCA 57.666 32.000 12.25 0.00 0.00 2.57
344 351 9.730420 TTTAGACAAACTCACAAAGCTTTATTC 57.270 29.630 12.25 0.00 0.00 1.75
369 376 5.643348 CAGTTCCTTGCTGGTTTTTCTTTTT 59.357 36.000 0.00 0.00 37.07 1.94
370 377 5.178061 CAGTTCCTTGCTGGTTTTTCTTTT 58.822 37.500 0.00 0.00 37.07 2.27
371 378 4.758688 CAGTTCCTTGCTGGTTTTTCTTT 58.241 39.130 0.00 0.00 37.07 2.52
372 379 3.430790 GCAGTTCCTTGCTGGTTTTTCTT 60.431 43.478 0.00 0.00 40.89 2.52
373 380 2.101415 GCAGTTCCTTGCTGGTTTTTCT 59.899 45.455 0.00 0.00 40.89 2.52
374 381 2.159114 TGCAGTTCCTTGCTGGTTTTTC 60.159 45.455 0.00 0.00 44.38 2.29
375 382 1.830477 TGCAGTTCCTTGCTGGTTTTT 59.170 42.857 0.00 0.00 44.38 1.94
376 383 1.136891 GTGCAGTTCCTTGCTGGTTTT 59.863 47.619 0.00 0.00 44.38 2.43
377 384 0.746659 GTGCAGTTCCTTGCTGGTTT 59.253 50.000 0.00 0.00 44.38 3.27
412 424 7.279615 TGTACAACTTGGGGAGAACATATATG 58.720 38.462 11.29 11.29 0.00 1.78
466 478 9.793252 CAAAATGTTAAGAAACCAGATATCCTG 57.207 33.333 0.00 0.00 42.55 3.86
476 488 8.245701 TGTGTTGTTCAAAATGTTAAGAAACC 57.754 30.769 0.00 0.00 34.49 3.27
495 507 5.707298 AGGTCCAAGTCTAATTCATGTGTTG 59.293 40.000 0.00 0.00 0.00 3.33
565 577 0.173708 CCTAGTTCGTGCAGGTCTCC 59.826 60.000 6.26 0.00 0.00 3.71
593 605 9.685828 CTATTTCTACAACCATTTTTCCGAAAA 57.314 29.630 2.01 2.01 38.96 2.29
594 606 9.069082 TCTATTTCTACAACCATTTTTCCGAAA 57.931 29.630 0.00 0.00 0.00 3.46
596 608 8.624367 TTCTATTTCTACAACCATTTTTCCGA 57.376 30.769 0.00 0.00 0.00 4.55
652 3677 5.438761 AAACTATTGCAGAACAGGTTCAC 57.561 39.130 14.06 6.60 41.84 3.18
671 3696 6.761714 AGACAGGATTACACGGATGATAAAAC 59.238 38.462 0.00 0.00 0.00 2.43
682 3707 3.191581 ACAGACAGAGACAGGATTACACG 59.808 47.826 0.00 0.00 0.00 4.49
732 3761 5.814764 AGGTCGGATGTATACATATCGTC 57.185 43.478 26.36 22.97 36.57 4.20
746 3777 8.660295 TGGATTGTTATAATACTAGGTCGGAT 57.340 34.615 0.00 0.00 0.00 4.18
788 3819 1.693606 TGAGTTCAGACATGGCACTGA 59.306 47.619 0.00 8.32 40.66 3.41
851 6885 1.194772 GTGTTGCCGCTAGTTCAGTTC 59.805 52.381 0.00 0.00 0.00 3.01
866 6900 6.597672 TGCAGGGTTGACTTTATATAGTGTTG 59.402 38.462 0.09 0.00 0.00 3.33
868 6902 6.308015 TGCAGGGTTGACTTTATATAGTGT 57.692 37.500 0.09 0.00 0.00 3.55
883 6917 0.615850 GGTTAGAGAGCTGCAGGGTT 59.384 55.000 17.12 0.00 0.00 4.11
943 6977 4.929808 CGTATACTTCTTCTTGGTTGCTGT 59.070 41.667 0.56 0.00 0.00 4.40
955 6991 8.757982 TGAACTATAACCCTCGTATACTTCTT 57.242 34.615 0.56 0.00 0.00 2.52
956 6992 7.040548 GCTGAACTATAACCCTCGTATACTTCT 60.041 40.741 0.56 0.00 0.00 2.85
957 6993 7.083230 GCTGAACTATAACCCTCGTATACTTC 58.917 42.308 0.56 0.00 0.00 3.01
963 6999 4.097437 CAGTGCTGAACTATAACCCTCGTA 59.903 45.833 0.00 0.00 36.83 3.43
974 7010 3.574396 AGCTACTGAACAGTGCTGAACTA 59.426 43.478 21.25 2.01 42.52 2.24
1060 7096 4.451150 TGAGGACGCGATGTGGGC 62.451 66.667 15.93 0.00 0.00 5.36
1084 7120 3.371063 GCAGACACCGAGACCCGA 61.371 66.667 0.00 0.00 41.76 5.14
1158 7194 1.078848 GCCATCCTCGCAACAGTCT 60.079 57.895 0.00 0.00 0.00 3.24
1578 10618 2.555547 AACCTGCGCTCACCTTTGC 61.556 57.895 9.73 0.00 0.00 3.68
1607 10647 1.762370 ACATGACACTGGACTGACACA 59.238 47.619 0.00 0.00 0.00 3.72
1689 10729 9.682465 ATTCATGGAATCATATACAGAATCTGG 57.318 33.333 15.38 0.00 31.91 3.86
1742 10782 3.831333 TGAACTTGCCATCCATGCTAAAA 59.169 39.130 0.00 0.00 0.00 1.52
1756 10796 2.659291 CGTAGAGCAAACGTGAACTTGC 60.659 50.000 13.50 13.50 46.68 4.01
1793 10833 1.699656 GCACCACGCTGCTCACTATG 61.700 60.000 0.00 0.00 37.77 2.23
1833 10873 6.101881 TCTCTCTCTCTCTCTCTCTCTCTCTA 59.898 46.154 0.00 0.00 0.00 2.43
1842 10882 3.051803 TCTCCCTCTCTCTCTCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1843 10883 3.309296 TCTCCCTCTCTCTCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1844 10884 3.051803 TCTCTCCCTCTCTCTCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1845 10885 3.309296 TCTCTCCCTCTCTCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1846 10886 3.051803 TCTCTCTCCCTCTCTCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1847 10887 3.309296 TCTCTCTCCCTCTCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1848 10888 3.051803 TCTCTCTCTCCCTCTCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1849 10889 3.309296 TCTCTCTCTCCCTCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1850 10890 3.051803 TCTCTCTCTCTCCCTCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1851 10891 3.309296 TCTCTCTCTCTCCCTCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1852 10892 3.051803 TCTCTCTCTCTCTCCCTCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1853 10893 3.309296 TCTCTCTCTCTCTCCCTCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1854 10894 3.051803 TCTCTCTCTCTCTCTCCCTCTCT 60.052 52.174 0.00 0.00 0.00 3.10
1855 10895 3.309296 TCTCTCTCTCTCTCTCCCTCTC 58.691 54.545 0.00 0.00 0.00 3.20
1856 10896 3.051803 TCTCTCTCTCTCTCTCTCCCTCT 60.052 52.174 0.00 0.00 0.00 3.69
1857 10897 3.309296 TCTCTCTCTCTCTCTCTCCCTC 58.691 54.545 0.00 0.00 0.00 4.30
1858 10898 3.051803 TCTCTCTCTCTCTCTCTCTCCCT 60.052 52.174 0.00 0.00 0.00 4.20
1859 10899 3.309296 TCTCTCTCTCTCTCTCTCTCCC 58.691 54.545 0.00 0.00 0.00 4.30
1860 10900 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
1861 10901 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1862 10902 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1863 10903 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1864 10904 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1865 10905 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1866 10906 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1867 10907 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1868 10908 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1869 10909 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1870 10910 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1871 10911 5.009610 GTCTCTCTCTCTCTCTCTCTCTCTC 59.990 52.000 0.00 0.00 0.00 3.20
1872 10912 4.892934 GTCTCTCTCTCTCTCTCTCTCTCT 59.107 50.000 0.00 0.00 0.00 3.10
1873 10913 4.038642 GGTCTCTCTCTCTCTCTCTCTCTC 59.961 54.167 0.00 0.00 0.00 3.20
1874 10914 3.964031 GGTCTCTCTCTCTCTCTCTCTCT 59.036 52.174 0.00 0.00 0.00 3.10
1875 10915 3.964031 AGGTCTCTCTCTCTCTCTCTCTC 59.036 52.174 0.00 0.00 0.00 3.20
1876 10916 3.708631 CAGGTCTCTCTCTCTCTCTCTCT 59.291 52.174 0.00 0.00 0.00 3.10
1877 10917 3.706594 TCAGGTCTCTCTCTCTCTCTCTC 59.293 52.174 0.00 0.00 0.00 3.20
1878 10918 3.708631 CTCAGGTCTCTCTCTCTCTCTCT 59.291 52.174 0.00 0.00 0.00 3.10
1879 10919 3.706594 TCTCAGGTCTCTCTCTCTCTCTC 59.293 52.174 0.00 0.00 0.00 3.20
1880 10920 3.724478 TCTCAGGTCTCTCTCTCTCTCT 58.276 50.000 0.00 0.00 0.00 3.10
1881 10921 4.487714 TTCTCAGGTCTCTCTCTCTCTC 57.512 50.000 0.00 0.00 0.00 3.20
1882 10922 4.848357 CTTTCTCAGGTCTCTCTCTCTCT 58.152 47.826 0.00 0.00 0.00 3.10
1883 10923 3.378427 GCTTTCTCAGGTCTCTCTCTCTC 59.622 52.174 0.00 0.00 0.00 3.20
1884 10924 3.010584 AGCTTTCTCAGGTCTCTCTCTCT 59.989 47.826 0.00 0.00 0.00 3.10
1885 10925 3.356290 AGCTTTCTCAGGTCTCTCTCTC 58.644 50.000 0.00 0.00 0.00 3.20
1886 10926 3.456380 AGCTTTCTCAGGTCTCTCTCT 57.544 47.619 0.00 0.00 0.00 3.10
1887 10927 4.013728 TGTAGCTTTCTCAGGTCTCTCTC 58.986 47.826 0.00 0.00 34.13 3.20
1888 10928 3.761752 GTGTAGCTTTCTCAGGTCTCTCT 59.238 47.826 0.00 0.00 34.13 3.10
1893 10933 1.351153 GCGTGTAGCTTTCTCAGGTC 58.649 55.000 0.00 0.00 44.04 3.85
1930 10970 7.343691 TGTTACCGTTTTGTTATACTTGTTCG 58.656 34.615 0.00 0.00 0.00 3.95
2043 11083 0.325933 CTGTCCAGAACCATGCCTGA 59.674 55.000 8.86 0.00 32.37 3.86
2045 11085 1.064906 CATCTGTCCAGAACCATGCCT 60.065 52.381 0.37 0.00 41.36 4.75
2047 11087 2.119801 ACATCTGTCCAGAACCATGC 57.880 50.000 0.37 0.00 41.36 4.06
2070 11110 8.264347 ACTTTGGAATAGAAACCAACATTTGTT 58.736 29.630 0.00 0.00 44.34 2.83
2071 11111 7.791029 ACTTTGGAATAGAAACCAACATTTGT 58.209 30.769 0.00 0.00 44.34 2.83
2072 11112 8.661352 AACTTTGGAATAGAAACCAACATTTG 57.339 30.769 0.00 0.00 44.34 2.32
2113 11153 1.958288 ATGGCTGGGACTGACTTACT 58.042 50.000 0.00 0.00 35.79 2.24
2172 11212 2.310538 CAAAGGGAGCCTCAACAAACT 58.689 47.619 0.00 0.00 30.89 2.66
2176 11216 2.452600 AAACAAAGGGAGCCTCAACA 57.547 45.000 0.00 0.00 30.89 3.33
2177 11217 3.132111 TGAAAAACAAAGGGAGCCTCAAC 59.868 43.478 0.00 0.00 30.89 3.18
2179 11219 3.025322 TGAAAAACAAAGGGAGCCTCA 57.975 42.857 0.00 0.00 30.89 3.86
2180 11220 4.400529 TTTGAAAAACAAAGGGAGCCTC 57.599 40.909 0.00 0.00 42.57 4.70
2260 11754 1.061905 TGGTAGCCCATCCCTCCATG 61.062 60.000 0.00 0.00 35.17 3.66
2272 11766 1.378646 GCCCCTTTCAGTGGTAGCC 60.379 63.158 0.00 0.00 0.00 3.93
2275 11769 1.464395 TGGGCCCCTTTCAGTGGTA 60.464 57.895 22.27 0.00 0.00 3.25
2280 11774 1.078426 CTACGTGGGCCCCTTTCAG 60.078 63.158 22.27 6.20 0.00 3.02
2295 11789 1.065251 CCCCTCGTTTCTACTCGCTAC 59.935 57.143 0.00 0.00 0.00 3.58
2297 11791 0.611340 ACCCCTCGTTTCTACTCGCT 60.611 55.000 0.00 0.00 0.00 4.93
2299 11793 2.738013 AAACCCCTCGTTTCTACTCG 57.262 50.000 0.00 0.00 40.86 4.18
2304 11798 2.583143 CAGGAAAAACCCCTCGTTTCT 58.417 47.619 0.00 0.00 44.09 2.52
2344 11838 3.799755 GATTGTGCCGACACCGCC 61.800 66.667 0.00 0.00 46.86 6.13
2349 11843 1.811965 CAAGAATGGATTGTGCCGACA 59.188 47.619 0.00 0.00 0.00 4.35
2358 11852 3.865745 GTCGACGATGTCAAGAATGGATT 59.134 43.478 0.00 0.00 32.09 3.01
2368 11862 4.452753 GAAGCGTCGACGATGTCA 57.547 55.556 39.74 0.00 43.02 3.58
2386 11880 5.443431 CGCTTCTCTCGTCAATCTTTTGTAC 60.443 44.000 0.00 0.00 34.32 2.90
2387 11881 4.621460 CGCTTCTCTCGTCAATCTTTTGTA 59.379 41.667 0.00 0.00 34.32 2.41
2401 11895 0.591236 CTAGTGCGCTCGCTTCTCTC 60.591 60.000 9.73 0.23 42.51 3.20
2409 11903 0.380733 TACATGGACTAGTGCGCTCG 59.619 55.000 9.73 0.00 0.00 5.03
2434 11929 0.698818 ATTTTCCTTGCTCCGGACCT 59.301 50.000 0.00 0.00 0.00 3.85
2514 12009 1.681780 CCACGGCACTCCAATACCATT 60.682 52.381 0.00 0.00 0.00 3.16
2515 12010 0.107214 CCACGGCACTCCAATACCAT 60.107 55.000 0.00 0.00 0.00 3.55
2516 12011 1.298340 CCACGGCACTCCAATACCA 59.702 57.895 0.00 0.00 0.00 3.25
2532 12028 4.323477 GCCACCGTGTAGCACCCA 62.323 66.667 0.00 0.00 0.00 4.51


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.