Multiple sequence alignment - TraesCS1D01G177800

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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 TraesCS1D01G177800 chr1D 100.000 5749 0 0 1 5749 252921876 252916128 0.000000e+00 10617
1 TraesCS1D01G177800 chr1D 96.335 191 6 1 327 516 18864554 18864744 4.320000e-81 313
2 TraesCS1D01G177800 chr1D 95.337 193 8 1 331 522 482994088 482993896 7.240000e-79 305
3 TraesCS1D01G177800 chr1D 95.000 100 4 1 5165 5264 181629192 181629094 7.710000e-34 156
4 TraesCS1D01G177800 chr1A 94.102 3018 109 32 562 3537 324498818 324495828 0.000000e+00 4523
5 TraesCS1D01G177800 chr1A 96.772 1642 45 3 4109 5749 324495199 324493565 0.000000e+00 2732
6 TraesCS1D01G177800 chr1A 94.659 543 25 2 3535 4077 324495735 324495197 0.000000e+00 839
7 TraesCS1D01G177800 chr1A 91.541 331 12 5 1 315 324499214 324498884 5.290000e-120 442
8 TraesCS1D01G177800 chr1A 94.000 100 5 1 5165 5264 176451820 176451722 3.590000e-32 150
9 TraesCS1D01G177800 chr1B 95.933 2213 71 12 3539 5749 359902142 359904337 0.000000e+00 3570
10 TraesCS1D01G177800 chr1B 96.968 1385 28 5 2166 3541 359900670 359902049 0.000000e+00 2313
11 TraesCS1D01G177800 chr1B 91.241 1370 81 18 838 2182 359899264 359900619 0.000000e+00 1829
12 TraesCS1D01G177800 chr1B 91.246 297 10 5 1 281 359896814 359897110 1.940000e-104 390
13 TraesCS1D01G177800 chr3D 95.876 194 7 1 330 522 70280645 70280452 4.320000e-81 313
14 TraesCS1D01G177800 chr3D 95.385 195 8 1 329 522 484804117 484803923 5.590000e-80 309
15 TraesCS1D01G177800 chr3D 94.030 201 9 3 323 522 323367576 323367774 9.360000e-78 302
16 TraesCS1D01G177800 chr7D 95.361 194 9 0 329 522 584768631 584768438 5.590000e-80 309
17 TraesCS1D01G177800 chr7D 95.337 193 8 1 331 522 527466958 527466766 7.240000e-79 305
18 TraesCS1D01G177800 chr6D 95.361 194 7 2 331 522 471972197 471972390 2.010000e-79 307
19 TraesCS1D01G177800 chrUn 94.444 198 9 2 327 522 90109936 90109739 2.600000e-78 303
20 TraesCS1D01G177800 chr4D 94.118 102 5 1 5155 5255 479956918 479957019 2.770000e-33 154
21 TraesCS1D01G177800 chr4D 97.727 88 2 0 5168 5255 117425317 117425230 9.980000e-33 152
22 TraesCS1D01G177800 chr4D 98.824 85 1 0 5171 5255 502760762 502760678 9.980000e-33 152
23 TraesCS1D01G177800 chr3A 97.647 85 2 0 5173 5257 308684804 308684888 4.640000e-31 147
24 TraesCS1D01G177800 chr4B 92.157 102 7 1 5155 5255 607282391 607282492 6.000000e-30 143


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 TraesCS1D01G177800 chr1D 252916128 252921876 5748 True 10617.0 10617 100.0000 1 5749 1 chr1D.!!$R2 5748
1 TraesCS1D01G177800 chr1A 324493565 324499214 5649 True 2134.0 4523 94.2685 1 5749 4 chr1A.!!$R2 5748
2 TraesCS1D01G177800 chr1B 359896814 359904337 7523 False 2025.5 3570 93.8470 1 5749 4 chr1B.!!$F1 5748

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
389 2110 0.105039 GCTCCCACTTCATCCTACGG 59.895 60.000 0.00 0.0 0.00 4.02 F
469 2190 0.174845 GGCCGGGCCTTATTTTGTTC 59.825 55.000 30.86 0.0 46.69 3.18 F
470 2191 0.174845 GCCGGGCCTTATTTTGTTCC 59.825 55.000 8.12 0.0 0.00 3.62 F
770 2640 0.179129 CGTGGATGAAATGCTTGGCC 60.179 55.000 0.00 0.0 34.76 5.36 F
813 2683 0.598065 ACGCAGGCAGAACAAATTCC 59.402 50.000 0.00 0.0 35.18 3.01 F
1573 3478 0.617249 CCCTCTCCTGCAGGTCTCTT 60.617 60.000 31.58 0.0 36.34 2.85 F
1830 3740 1.107114 TTTGCGGAAAGTGCAGGAAA 58.893 45.000 0.00 0.0 44.28 3.13 F
1831 3741 1.327303 TTGCGGAAAGTGCAGGAAAT 58.673 45.000 0.00 0.0 44.28 2.17 F
2438 4417 1.613630 GAGGGGAGAGGCTGGTTCA 60.614 63.158 0.00 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1908 3818 0.327924 TCCGCACAATTCCACCATCT 59.672 50.000 0.00 0.0 0.00 2.90 R
2673 4653 2.449464 TGCAAACAGGCTGATAAGCAT 58.551 42.857 23.66 0.0 36.33 3.79 R
2717 4697 6.793492 AATGAGAGTTAAAGACAGAAGTGC 57.207 37.500 0.00 0.0 0.00 4.40 R
3148 5136 1.198637 CCTTTGAGCTGCTGTAAGTGC 59.801 52.381 7.01 0.0 35.30 4.40 R
3252 5240 0.178831 AGGGGAGGGTCAAGGAACAT 60.179 55.000 0.00 0.0 0.00 2.71 R
3286 5274 1.268899 GATGCTGCTGAACAAGTGCTT 59.731 47.619 0.00 0.0 0.00 3.91 R
4026 6205 1.027357 GATGGTGGCATAAGCACAGG 58.973 55.000 0.00 0.0 44.61 4.00 R
4384 6564 5.838531 ACCGTTGTATTCTGGAACAAAAA 57.161 34.783 0.00 0.0 38.70 1.94 R
4986 7167 1.637402 GTCGAACGTGAAAACGCCA 59.363 52.632 0.00 0.0 36.44 5.69 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
28 29 6.017440 AGCTTGTTCTCAACGCAAACTTATAA 60.017 34.615 0.00 0.00 33.49 0.98
33 34 4.697828 TCTCAACGCAAACTTATAATGCCA 59.302 37.500 4.39 0.00 36.75 4.92
35 36 5.960113 TCAACGCAAACTTATAATGCCATT 58.040 33.333 0.00 0.00 36.75 3.16
217 218 1.975660 TTTGGAGTAGTGTTGGGTGC 58.024 50.000 0.00 0.00 0.00 5.01
226 243 5.932455 AGTAGTGTTGGGTGCTTACTTAAA 58.068 37.500 0.00 0.00 0.00 1.52
315 2036 7.038017 TGTTTAAATTTGGATCCCAATAGCCAA 60.038 33.333 11.30 0.00 43.55 4.52
316 2037 5.357742 AAATTTGGATCCCAATAGCCAAC 57.642 39.130 11.30 0.00 43.55 3.77
317 2038 2.051334 TTGGATCCCAATAGCCAACG 57.949 50.000 9.90 0.00 38.75 4.10
318 2039 1.208706 TGGATCCCAATAGCCAACGA 58.791 50.000 9.90 0.00 0.00 3.85
319 2040 1.562008 TGGATCCCAATAGCCAACGAA 59.438 47.619 9.90 0.00 0.00 3.85
320 2041 1.947456 GGATCCCAATAGCCAACGAAC 59.053 52.381 0.00 0.00 0.00 3.95
321 2042 1.947456 GATCCCAATAGCCAACGAACC 59.053 52.381 0.00 0.00 0.00 3.62
322 2043 0.988832 TCCCAATAGCCAACGAACCT 59.011 50.000 0.00 0.00 0.00 3.50
323 2044 1.065709 TCCCAATAGCCAACGAACCTC 60.066 52.381 0.00 0.00 0.00 3.85
324 2045 1.339631 CCCAATAGCCAACGAACCTCA 60.340 52.381 0.00 0.00 0.00 3.86
325 2046 2.643551 CCAATAGCCAACGAACCTCAT 58.356 47.619 0.00 0.00 0.00 2.90
326 2047 2.355756 CCAATAGCCAACGAACCTCATG 59.644 50.000 0.00 0.00 0.00 3.07
327 2048 2.332063 ATAGCCAACGAACCTCATGG 57.668 50.000 0.00 0.00 39.83 3.66
328 2049 0.251916 TAGCCAACGAACCTCATGGG 59.748 55.000 0.00 0.00 41.89 4.00
329 2050 2.046285 GCCAACGAACCTCATGGGG 61.046 63.158 11.11 11.11 40.03 4.96
330 2051 1.378514 CCAACGAACCTCATGGGGG 60.379 63.158 18.14 10.25 40.03 5.40
345 2066 4.883354 GGGGATCCGGCTTGCCTG 62.883 72.222 5.45 3.29 0.00 4.85
347 2068 4.496336 GGATCCGGCTTGCCTGCT 62.496 66.667 10.12 0.00 0.00 4.24
348 2069 2.899339 GATCCGGCTTGCCTGCTC 60.899 66.667 10.12 0.76 0.00 4.26
349 2070 4.496336 ATCCGGCTTGCCTGCTCC 62.496 66.667 10.12 0.00 0.00 4.70
353 2074 4.811364 GGCTTGCCTGCTCCCTCC 62.811 72.222 4.11 0.00 0.00 4.30
354 2075 4.811364 GCTTGCCTGCTCCCTCCC 62.811 72.222 0.00 0.00 0.00 4.30
355 2076 4.120755 CTTGCCTGCTCCCTCCCC 62.121 72.222 0.00 0.00 0.00 4.81
357 2078 4.765970 TGCCTGCTCCCTCCCCAT 62.766 66.667 0.00 0.00 0.00 4.00
358 2079 4.201122 GCCTGCTCCCTCCCCATG 62.201 72.222 0.00 0.00 0.00 3.66
359 2080 4.201122 CCTGCTCCCTCCCCATGC 62.201 72.222 0.00 0.00 0.00 4.06
360 2081 3.095163 CTGCTCCCTCCCCATGCT 61.095 66.667 0.00 0.00 0.00 3.79
361 2082 3.092511 TGCTCCCTCCCCATGCTC 61.093 66.667 0.00 0.00 0.00 4.26
362 2083 3.883549 GCTCCCTCCCCATGCTCC 61.884 72.222 0.00 0.00 0.00 4.70
363 2084 3.174265 CTCCCTCCCCATGCTCCC 61.174 72.222 0.00 0.00 0.00 4.30
364 2085 4.037413 TCCCTCCCCATGCTCCCA 62.037 66.667 0.00 0.00 0.00 4.37
365 2086 2.780040 CCCTCCCCATGCTCCCAT 60.780 66.667 0.00 0.00 0.00 4.00
366 2087 2.838467 CCCTCCCCATGCTCCCATC 61.838 68.421 0.00 0.00 0.00 3.51
367 2088 2.838467 CCTCCCCATGCTCCCATCC 61.838 68.421 0.00 0.00 0.00 3.51
368 2089 3.170672 TCCCCATGCTCCCATCCG 61.171 66.667 0.00 0.00 0.00 4.18
369 2090 3.492353 CCCCATGCTCCCATCCGT 61.492 66.667 0.00 0.00 0.00 4.69
370 2091 2.203252 CCCATGCTCCCATCCGTG 60.203 66.667 0.00 0.00 0.00 4.94
371 2092 2.903855 CCATGCTCCCATCCGTGC 60.904 66.667 0.00 0.00 0.00 5.34
372 2093 2.191375 CATGCTCCCATCCGTGCT 59.809 61.111 0.00 0.00 0.00 4.40
373 2094 1.890979 CATGCTCCCATCCGTGCTC 60.891 63.158 0.00 0.00 0.00 4.26
374 2095 3.112205 ATGCTCCCATCCGTGCTCC 62.112 63.158 0.00 0.00 0.00 4.70
375 2096 4.554036 GCTCCCATCCGTGCTCCC 62.554 72.222 0.00 0.00 0.00 4.30
376 2097 3.083349 CTCCCATCCGTGCTCCCA 61.083 66.667 0.00 0.00 0.00 4.37
377 2098 3.391665 CTCCCATCCGTGCTCCCAC 62.392 68.421 0.00 0.00 38.62 4.61
378 2099 3.402681 CCCATCCGTGCTCCCACT 61.403 66.667 0.00 0.00 39.86 4.00
379 2100 2.671070 CCATCCGTGCTCCCACTT 59.329 61.111 0.00 0.00 39.86 3.16
380 2101 1.450312 CCATCCGTGCTCCCACTTC 60.450 63.158 0.00 0.00 39.86 3.01
381 2102 1.296392 CATCCGTGCTCCCACTTCA 59.704 57.895 0.00 0.00 39.86 3.02
382 2103 0.107508 CATCCGTGCTCCCACTTCAT 60.108 55.000 0.00 0.00 39.86 2.57
383 2104 0.179000 ATCCGTGCTCCCACTTCATC 59.821 55.000 0.00 0.00 39.86 2.92
384 2105 1.450312 CCGTGCTCCCACTTCATCC 60.450 63.158 0.00 0.00 39.86 3.51
385 2106 1.599047 CGTGCTCCCACTTCATCCT 59.401 57.895 0.00 0.00 39.86 3.24
386 2107 0.824109 CGTGCTCCCACTTCATCCTA 59.176 55.000 0.00 0.00 39.86 2.94
387 2108 1.471676 CGTGCTCCCACTTCATCCTAC 60.472 57.143 0.00 0.00 39.86 3.18
388 2109 0.824109 TGCTCCCACTTCATCCTACG 59.176 55.000 0.00 0.00 0.00 3.51
389 2110 0.105039 GCTCCCACTTCATCCTACGG 59.895 60.000 0.00 0.00 0.00 4.02
390 2111 0.105039 CTCCCACTTCATCCTACGGC 59.895 60.000 0.00 0.00 0.00 5.68
391 2112 0.325296 TCCCACTTCATCCTACGGCT 60.325 55.000 0.00 0.00 0.00 5.52
392 2113 0.179073 CCCACTTCATCCTACGGCTG 60.179 60.000 0.00 0.00 0.00 4.85
393 2114 0.537188 CCACTTCATCCTACGGCTGT 59.463 55.000 2.42 2.42 0.00 4.40
394 2115 1.471676 CCACTTCATCCTACGGCTGTC 60.472 57.143 0.00 0.00 0.00 3.51
395 2116 1.478510 CACTTCATCCTACGGCTGTCT 59.521 52.381 0.00 0.00 0.00 3.41
396 2117 2.093973 CACTTCATCCTACGGCTGTCTT 60.094 50.000 0.00 0.00 0.00 3.01
397 2118 2.567615 ACTTCATCCTACGGCTGTCTTT 59.432 45.455 0.00 0.00 0.00 2.52
398 2119 3.008049 ACTTCATCCTACGGCTGTCTTTT 59.992 43.478 0.00 0.00 0.00 2.27
399 2120 3.695830 TCATCCTACGGCTGTCTTTTT 57.304 42.857 0.00 0.00 0.00 1.94
432 2153 8.393959 TCCTTTCTAATATAATCATCTCCCCC 57.606 38.462 0.00 0.00 0.00 5.40
452 2173 2.945456 CCTGATTTTAAGGGGTAGGGC 58.055 52.381 0.00 0.00 0.00 5.19
453 2174 2.424379 CCTGATTTTAAGGGGTAGGGCC 60.424 54.545 0.00 0.00 0.00 5.80
454 2175 1.213430 TGATTTTAAGGGGTAGGGCCG 59.787 52.381 0.00 0.00 38.44 6.13
455 2176 0.554305 ATTTTAAGGGGTAGGGCCGG 59.446 55.000 0.00 0.00 38.44 6.13
456 2177 1.573607 TTTTAAGGGGTAGGGCCGGG 61.574 60.000 2.18 0.00 38.44 5.73
467 2188 4.027884 GGCCGGGCCTTATTTTGT 57.972 55.556 30.86 0.00 46.69 2.83
468 2189 2.282827 GGCCGGGCCTTATTTTGTT 58.717 52.632 30.86 0.00 46.69 2.83
469 2190 0.174845 GGCCGGGCCTTATTTTGTTC 59.825 55.000 30.86 0.00 46.69 3.18
470 2191 0.174845 GCCGGGCCTTATTTTGTTCC 59.825 55.000 8.12 0.00 0.00 3.62
471 2192 1.551452 CCGGGCCTTATTTTGTTCCA 58.449 50.000 0.84 0.00 0.00 3.53
472 2193 1.896465 CCGGGCCTTATTTTGTTCCAA 59.104 47.619 0.84 0.00 0.00 3.53
473 2194 2.499693 CCGGGCCTTATTTTGTTCCAAT 59.500 45.455 0.84 0.00 0.00 3.16
474 2195 3.430236 CCGGGCCTTATTTTGTTCCAATC 60.430 47.826 0.84 0.00 0.00 2.67
475 2196 3.194542 CGGGCCTTATTTTGTTCCAATCA 59.805 43.478 0.84 0.00 0.00 2.57
476 2197 4.322349 CGGGCCTTATTTTGTTCCAATCAA 60.322 41.667 0.84 0.00 0.00 2.57
477 2198 5.555966 GGGCCTTATTTTGTTCCAATCAAA 58.444 37.500 0.84 0.00 33.76 2.69
478 2199 6.179756 GGGCCTTATTTTGTTCCAATCAAAT 58.820 36.000 0.84 0.00 35.25 2.32
479 2200 6.316140 GGGCCTTATTTTGTTCCAATCAAATC 59.684 38.462 0.84 0.00 35.25 2.17
480 2201 6.878389 GGCCTTATTTTGTTCCAATCAAATCA 59.122 34.615 0.00 0.00 35.25 2.57
481 2202 7.390162 GGCCTTATTTTGTTCCAATCAAATCAA 59.610 33.333 0.00 0.00 35.25 2.57
482 2203 8.445493 GCCTTATTTTGTTCCAATCAAATCAAG 58.555 33.333 0.00 0.00 35.25 3.02
483 2204 8.445493 CCTTATTTTGTTCCAATCAAATCAAGC 58.555 33.333 0.00 0.00 35.25 4.01
484 2205 6.806388 ATTTTGTTCCAATCAAATCAAGCC 57.194 33.333 0.00 0.00 35.25 4.35
485 2206 4.952071 TTGTTCCAATCAAATCAAGCCA 57.048 36.364 0.00 0.00 0.00 4.75
486 2207 4.255833 TGTTCCAATCAAATCAAGCCAC 57.744 40.909 0.00 0.00 0.00 5.01
487 2208 3.244976 GTTCCAATCAAATCAAGCCACG 58.755 45.455 0.00 0.00 0.00 4.94
488 2209 2.513753 TCCAATCAAATCAAGCCACGT 58.486 42.857 0.00 0.00 0.00 4.49
489 2210 3.680490 TCCAATCAAATCAAGCCACGTA 58.320 40.909 0.00 0.00 0.00 3.57
490 2211 3.438781 TCCAATCAAATCAAGCCACGTAC 59.561 43.478 0.00 0.00 0.00 3.67
491 2212 3.416277 CAATCAAATCAAGCCACGTACG 58.584 45.455 15.01 15.01 0.00 3.67
492 2213 0.793861 TCAAATCAAGCCACGTACGC 59.206 50.000 16.72 0.00 0.00 4.42
493 2214 0.518355 CAAATCAAGCCACGTACGCG 60.518 55.000 16.72 3.53 44.93 6.01
494 2215 1.632046 AAATCAAGCCACGTACGCGG 61.632 55.000 17.94 17.94 43.45 6.46
495 2216 4.728102 TCAAGCCACGTACGCGGG 62.728 66.667 22.89 20.94 43.45 6.13
496 2217 4.728102 CAAGCCACGTACGCGGGA 62.728 66.667 25.61 0.00 45.97 5.14
497 2218 4.430765 AAGCCACGTACGCGGGAG 62.431 66.667 25.61 2.82 45.97 4.30
531 2252 2.350458 GCGTGGGGATGCCATTTGT 61.350 57.895 5.30 0.00 0.00 2.83
577 2307 5.911752 ACAAAACACACATGGCAATTTCTA 58.088 33.333 0.00 0.00 0.00 2.10
578 2308 5.984926 ACAAAACACACATGGCAATTTCTAG 59.015 36.000 0.00 0.00 0.00 2.43
579 2309 3.855689 ACACACATGGCAATTTCTAGC 57.144 42.857 0.00 0.00 0.00 3.42
580 2310 3.156293 ACACACATGGCAATTTCTAGCA 58.844 40.909 0.00 0.00 0.00 3.49
582 2312 3.922240 CACACATGGCAATTTCTAGCAAC 59.078 43.478 0.00 0.00 0.00 4.17
584 2314 4.039004 ACACATGGCAATTTCTAGCAACAA 59.961 37.500 0.00 0.00 0.00 2.83
585 2315 5.172934 CACATGGCAATTTCTAGCAACAAT 58.827 37.500 0.00 0.00 0.00 2.71
586 2316 5.640357 CACATGGCAATTTCTAGCAACAATT 59.360 36.000 0.00 0.00 0.00 2.32
587 2317 6.148150 CACATGGCAATTTCTAGCAACAATTT 59.852 34.615 0.00 0.00 0.00 1.82
610 2364 5.378292 TTTTGCTGTGAAAACTGTGTGTA 57.622 34.783 0.00 0.00 0.00 2.90
664 2428 5.196825 GTGAAAAATGTTCGTTTTGCCATG 58.803 37.500 3.92 0.00 32.02 3.66
673 2437 1.537776 CGTTTTGCCATGCACCTTCAA 60.538 47.619 0.00 0.00 38.71 2.69
682 2446 0.745128 TGCACCTTCAACGACCGTTT 60.745 50.000 4.93 0.00 36.00 3.60
715 2576 8.825064 AGCAATCGCATTAAAATTTAATTTGC 57.175 26.923 23.99 23.99 42.27 3.68
735 2596 4.531034 GCAATTTCTGCGAAAAGTTACG 57.469 40.909 7.59 0.00 42.37 3.18
738 2599 4.806342 ATTTCTGCGAAAAGTTACGTGT 57.194 36.364 0.00 0.00 0.00 4.49
745 2615 4.150980 TGCGAAAAGTTACGTGTCTAATGG 59.849 41.667 0.00 0.00 0.00 3.16
753 2623 0.734942 CGTGTCTAATGGAACGCCGT 60.735 55.000 0.00 0.00 36.79 5.68
759 2629 0.537653 TAATGGAACGCCGTGGATGA 59.462 50.000 0.00 0.00 36.79 2.92
762 2632 0.322098 TGGAACGCCGTGGATGAAAT 60.322 50.000 0.00 0.00 36.79 2.17
770 2640 0.179129 CGTGGATGAAATGCTTGGCC 60.179 55.000 0.00 0.00 34.76 5.36
806 2676 1.667830 TGCTACACGCAGGCAGAAC 60.668 57.895 0.00 0.00 45.47 3.01
811 2681 1.032014 ACACGCAGGCAGAACAAATT 58.968 45.000 0.00 0.00 0.00 1.82
812 2682 1.001378 ACACGCAGGCAGAACAAATTC 60.001 47.619 0.00 0.00 34.78 2.17
813 2683 0.598065 ACGCAGGCAGAACAAATTCC 59.402 50.000 0.00 0.00 35.18 3.01
860 2730 1.600957 CGCTCTTACCGTCGGATCTTA 59.399 52.381 20.51 0.00 0.00 2.10
873 2743 1.101331 GATCTTAGACGGACGGTGGT 58.899 55.000 0.00 0.00 0.00 4.16
876 2746 0.815734 CTTAGACGGACGGTGGTGAT 59.184 55.000 0.00 0.00 0.00 3.06
889 2759 1.222936 GGTGATGGCAGGTGAGGAG 59.777 63.158 0.00 0.00 0.00 3.69
1098 2976 4.115199 GCCCACTTCCGCCCTCAT 62.115 66.667 0.00 0.00 0.00 2.90
1174 3052 2.768492 GCAGTACGGTCCGTCGGAT 61.768 63.158 22.74 3.93 41.54 4.18
1332 3219 2.512896 GCCATCGAGGAGGCCATT 59.487 61.111 5.01 0.00 45.18 3.16
1339 3226 2.742348 TCGAGGAGGCCATTGTACTAA 58.258 47.619 5.01 0.00 0.00 2.24
1573 3478 0.617249 CCCTCTCCTGCAGGTCTCTT 60.617 60.000 31.58 0.00 36.34 2.85
1592 3497 1.919240 TTCTCTGCCTGTACCTCGAA 58.081 50.000 0.00 0.00 0.00 3.71
1601 3506 4.764823 TGCCTGTACCTCGAATTTTCAAAT 59.235 37.500 0.00 0.00 0.00 2.32
1604 3509 6.645003 GCCTGTACCTCGAATTTTCAAATTTT 59.355 34.615 0.00 0.00 38.64 1.82
1619 3524 9.585099 TTTTCAAATTTTATCATGAGAATCCCG 57.415 29.630 3.15 0.00 0.00 5.14
1640 3545 4.028383 CGTGACAGTTAGCAACAAACAAG 58.972 43.478 0.00 0.00 0.00 3.16
1689 3594 4.501071 GTGGAAACTCTGCTATTCCGTTA 58.499 43.478 0.00 0.00 44.48 3.18
1743 3650 7.177568 GGAGCTATTAGAGGTTGATCATGAGTA 59.822 40.741 0.09 0.00 35.50 2.59
1783 3693 8.935844 TCAAATTGCTTTGTAGTGTGTATAGAG 58.064 33.333 0.00 0.00 42.02 2.43
1784 3694 8.721478 CAAATTGCTTTGTAGTGTGTATAGAGT 58.279 33.333 0.00 0.00 37.54 3.24
1785 3695 9.938280 AAATTGCTTTGTAGTGTGTATAGAGTA 57.062 29.630 0.00 0.00 0.00 2.59
1789 3699 9.623000 TGCTTTGTAGTGTGTATAGAGTATAGA 57.377 33.333 0.00 0.00 0.00 1.98
1830 3740 1.107114 TTTGCGGAAAGTGCAGGAAA 58.893 45.000 0.00 0.00 44.28 3.13
1831 3741 1.327303 TTGCGGAAAGTGCAGGAAAT 58.673 45.000 0.00 0.00 44.28 2.17
1887 3797 5.308825 CAGGTAGGGCAAATATACCAGAAG 58.691 45.833 3.65 0.00 41.23 2.85
1908 3818 1.691195 TTGAGTGCAAGGGTCGGTCA 61.691 55.000 0.00 0.00 0.00 4.02
2151 4061 9.598517 ACATGTTTTTGTTTTATGAGTGTCATT 57.401 25.926 0.00 0.00 38.26 2.57
2438 4417 1.613630 GAGGGGAGAGGCTGGTTCA 60.614 63.158 0.00 0.00 0.00 3.18
3044 5024 2.175284 TCCAGAATCAATATGCCAGGCA 59.825 45.455 18.99 18.99 44.86 4.75
3143 5131 5.532557 AGCAATCAAGGTTACTGAAAAAGC 58.467 37.500 0.00 0.00 0.00 3.51
3148 5136 3.982576 AGGTTACTGAAAAAGCAACGG 57.017 42.857 0.00 0.00 33.51 4.44
3252 5240 6.892485 TCATCAAATAGAAGCTTCATCTCCA 58.108 36.000 27.57 8.25 0.00 3.86
3500 5489 1.618487 AGGCTACGTAGGTGATAGGC 58.382 55.000 23.47 11.00 40.76 3.93
3521 5510 3.513119 GCATGCTCTATGAGGTATCTCCA 59.487 47.826 11.37 0.00 39.21 3.86
3537 5526 4.862902 TCTCCATATCTGCAGCTAAGTC 57.137 45.455 9.47 0.00 0.00 3.01
3625 5804 4.748892 CCAGACTCTGACATGTTATCGTT 58.251 43.478 7.69 0.00 32.44 3.85
3669 5848 4.382291 TGGCTACGAGTTGTTTGTAATGT 58.618 39.130 0.00 0.00 0.00 2.71
3673 5852 4.829064 ACGAGTTGTTTGTAATGTGCAT 57.171 36.364 0.00 0.00 0.00 3.96
3709 5888 5.586643 ACAGTTCTTTGTTGGTTTCTCTCTC 59.413 40.000 0.00 0.00 0.00 3.20
3843 6022 5.584649 GGCTTTGCTTTCTTTTGGTTTTAGT 59.415 36.000 0.00 0.00 0.00 2.24
3994 6173 6.627395 TGTCCGTTTTCTGTATTTTCATGT 57.373 33.333 0.00 0.00 0.00 3.21
4012 6191 6.808321 TCATGTACCATCTAAAGCTAAGGT 57.192 37.500 0.00 0.00 0.00 3.50
4018 6197 6.128138 ACCATCTAAAGCTAAGGTTTCTGT 57.872 37.500 0.00 0.00 34.94 3.41
4026 6205 4.068599 AGCTAAGGTTTCTGTGAAGAAGC 58.931 43.478 0.00 0.00 0.00 3.86
4467 6647 6.210796 TCACTTTCAAAATGCTCATCAACTG 58.789 36.000 0.00 0.00 0.00 3.16
4492 6672 2.813061 ACAAGTGTTTCATTGCAGTGC 58.187 42.857 8.58 8.58 0.00 4.40
4550 6730 2.159184 CGAGCTCAAGTTCCTATCAGCA 60.159 50.000 15.40 0.00 0.00 4.41
4698 6878 2.905996 ATGCTCCTGGGGCGTTCAA 61.906 57.895 14.98 0.00 0.00 2.69
4742 6922 1.376942 CACAAGAGCCCAGCCTCTG 60.377 63.158 0.00 0.00 41.19 3.35
4783 6963 8.830915 AATTTCCATGGGTGTGTTGTATAATA 57.169 30.769 13.02 0.00 0.00 0.98
4933 7114 9.014297 AGGTTTCTGAGTTAATTAACTTGATGG 57.986 33.333 27.27 16.68 45.84 3.51
5137 7318 4.266976 GTCGTACCTGAAAATGTCGTATGG 59.733 45.833 0.00 0.00 0.00 2.74
5498 7680 3.914426 AGTAGCTGTTAGGTGATTGGG 57.086 47.619 0.00 0.00 0.00 4.12
5619 7801 1.347378 TCATGTGTAGCAAGCCTGTCA 59.653 47.619 0.00 0.00 0.00 3.58
5620 7802 1.736126 CATGTGTAGCAAGCCTGTCAG 59.264 52.381 0.00 0.00 0.00 3.51
5621 7803 0.758734 TGTGTAGCAAGCCTGTCAGT 59.241 50.000 0.00 0.00 0.00 3.41
5622 7804 1.151668 GTGTAGCAAGCCTGTCAGTG 58.848 55.000 0.00 0.00 0.00 3.66
5623 7805 0.758734 TGTAGCAAGCCTGTCAGTGT 59.241 50.000 0.00 0.00 0.00 3.55
5624 7806 1.270305 TGTAGCAAGCCTGTCAGTGTC 60.270 52.381 0.00 0.00 0.00 3.67
5636 7818 5.288015 CCTGTCAGTGTCACAGATGATATC 58.712 45.833 12.38 0.00 43.54 1.63
5638 7820 6.284891 TGTCAGTGTCACAGATGATATCAA 57.715 37.500 9.99 0.00 37.14 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 5.878627 TGGAAAAAGGAAATTCAATGGCAT 58.121 33.333 0.00 0.00 0.00 4.40
66 67 5.221048 GCCTTACAATGTACAATCATGACCC 60.221 44.000 0.00 0.00 0.00 4.46
283 2004 7.841282 TGGGATCCAAATTTAAACAACAGTA 57.159 32.000 15.23 0.00 0.00 2.74
328 2049 4.883354 CAGGCAAGCCGGATCCCC 62.883 72.222 5.05 2.27 41.95 4.81
330 2051 4.496336 AGCAGGCAAGCCGGATCC 62.496 66.667 15.46 0.00 41.95 3.36
331 2052 2.899339 GAGCAGGCAAGCCGGATC 60.899 66.667 15.46 14.32 39.23 3.36
332 2053 4.496336 GGAGCAGGCAAGCCGGAT 62.496 66.667 15.46 8.74 41.95 4.18
336 2057 4.811364 GGAGGGAGCAGGCAAGCC 62.811 72.222 2.02 2.02 34.23 4.35
337 2058 4.811364 GGGAGGGAGCAGGCAAGC 62.811 72.222 0.00 0.00 0.00 4.01
338 2059 4.120755 GGGGAGGGAGCAGGCAAG 62.121 72.222 0.00 0.00 0.00 4.01
340 2061 4.765970 ATGGGGAGGGAGCAGGCA 62.766 66.667 0.00 0.00 0.00 4.75
341 2062 4.201122 CATGGGGAGGGAGCAGGC 62.201 72.222 0.00 0.00 0.00 4.85
342 2063 4.201122 GCATGGGGAGGGAGCAGG 62.201 72.222 0.00 0.00 0.00 4.85
343 2064 3.095163 AGCATGGGGAGGGAGCAG 61.095 66.667 0.00 0.00 0.00 4.24
344 2065 3.092511 GAGCATGGGGAGGGAGCA 61.093 66.667 0.00 0.00 0.00 4.26
345 2066 3.883549 GGAGCATGGGGAGGGAGC 61.884 72.222 0.00 0.00 0.00 4.70
346 2067 3.174265 GGGAGCATGGGGAGGGAG 61.174 72.222 0.00 0.00 0.00 4.30
347 2068 3.367604 ATGGGAGCATGGGGAGGGA 62.368 63.158 0.00 0.00 0.00 4.20
348 2069 2.780040 ATGGGAGCATGGGGAGGG 60.780 66.667 0.00 0.00 0.00 4.30
349 2070 2.838467 GGATGGGAGCATGGGGAGG 61.838 68.421 0.00 0.00 0.00 4.30
350 2071 2.842058 GGATGGGAGCATGGGGAG 59.158 66.667 0.00 0.00 0.00 4.30
351 2072 3.170672 CGGATGGGAGCATGGGGA 61.171 66.667 0.00 0.00 0.00 4.81
352 2073 3.492353 ACGGATGGGAGCATGGGG 61.492 66.667 0.00 0.00 0.00 4.96
353 2074 2.203252 CACGGATGGGAGCATGGG 60.203 66.667 0.00 0.00 0.00 4.00
354 2075 2.903855 GCACGGATGGGAGCATGG 60.904 66.667 0.00 0.00 0.00 3.66
355 2076 1.890979 GAGCACGGATGGGAGCATG 60.891 63.158 0.00 0.00 0.00 4.06
356 2077 2.507944 GAGCACGGATGGGAGCAT 59.492 61.111 0.00 0.00 0.00 3.79
357 2078 3.785859 GGAGCACGGATGGGAGCA 61.786 66.667 0.00 0.00 0.00 4.26
358 2079 4.554036 GGGAGCACGGATGGGAGC 62.554 72.222 0.00 0.00 0.00 4.70
359 2080 3.083349 TGGGAGCACGGATGGGAG 61.083 66.667 0.00 0.00 0.00 4.30
360 2081 3.399181 GTGGGAGCACGGATGGGA 61.399 66.667 0.00 0.00 0.00 4.37
361 2082 2.876368 GAAGTGGGAGCACGGATGGG 62.876 65.000 0.00 0.00 0.00 4.00
362 2083 1.450312 GAAGTGGGAGCACGGATGG 60.450 63.158 0.00 0.00 0.00 3.51
363 2084 0.107508 ATGAAGTGGGAGCACGGATG 60.108 55.000 0.00 0.00 0.00 3.51
364 2085 0.179000 GATGAAGTGGGAGCACGGAT 59.821 55.000 0.00 0.00 0.00 4.18
365 2086 1.596934 GATGAAGTGGGAGCACGGA 59.403 57.895 0.00 0.00 0.00 4.69
366 2087 1.450312 GGATGAAGTGGGAGCACGG 60.450 63.158 0.00 0.00 0.00 4.94
367 2088 0.824109 TAGGATGAAGTGGGAGCACG 59.176 55.000 0.00 0.00 0.00 5.34
368 2089 1.471676 CGTAGGATGAAGTGGGAGCAC 60.472 57.143 0.00 0.00 0.00 4.40
369 2090 0.824109 CGTAGGATGAAGTGGGAGCA 59.176 55.000 0.00 0.00 0.00 4.26
370 2091 3.669354 CGTAGGATGAAGTGGGAGC 57.331 57.895 0.00 0.00 0.00 4.70
406 2127 8.836735 GGGGGAGATGATTATATTAGAAAGGAA 58.163 37.037 0.00 0.00 0.00 3.36
407 2128 8.393959 GGGGGAGATGATTATATTAGAAAGGA 57.606 38.462 0.00 0.00 0.00 3.36
432 2153 2.424379 GGCCCTACCCCTTAAAATCAGG 60.424 54.545 0.00 0.00 0.00 3.86
433 2154 2.748465 CGGCCCTACCCCTTAAAATCAG 60.748 54.545 0.00 0.00 33.26 2.90
434 2155 1.213430 CGGCCCTACCCCTTAAAATCA 59.787 52.381 0.00 0.00 33.26 2.57
435 2156 1.478105 CCGGCCCTACCCCTTAAAATC 60.478 57.143 0.00 0.00 33.26 2.17
436 2157 0.554305 CCGGCCCTACCCCTTAAAAT 59.446 55.000 0.00 0.00 33.26 1.82
437 2158 1.573607 CCCGGCCCTACCCCTTAAAA 61.574 60.000 0.00 0.00 33.26 1.52
438 2159 2.002407 CCCGGCCCTACCCCTTAAA 61.002 63.158 0.00 0.00 33.26 1.52
439 2160 2.367242 CCCGGCCCTACCCCTTAA 60.367 66.667 0.00 0.00 33.26 1.85
451 2172 0.174845 GGAACAAAATAAGGCCCGGC 59.825 55.000 0.00 0.00 0.00 6.13
452 2173 1.551452 TGGAACAAAATAAGGCCCGG 58.449 50.000 0.00 0.00 31.92 5.73
465 2186 3.305267 CGTGGCTTGATTTGATTGGAACA 60.305 43.478 0.00 0.00 0.00 3.18
466 2187 3.244976 CGTGGCTTGATTTGATTGGAAC 58.755 45.455 0.00 0.00 0.00 3.62
467 2188 2.890311 ACGTGGCTTGATTTGATTGGAA 59.110 40.909 0.00 0.00 0.00 3.53
468 2189 2.513753 ACGTGGCTTGATTTGATTGGA 58.486 42.857 0.00 0.00 0.00 3.53
469 2190 3.727673 CGTACGTGGCTTGATTTGATTGG 60.728 47.826 7.22 0.00 0.00 3.16
470 2191 3.416277 CGTACGTGGCTTGATTTGATTG 58.584 45.455 7.22 0.00 0.00 2.67
471 2192 2.159572 GCGTACGTGGCTTGATTTGATT 60.160 45.455 17.90 0.00 0.00 2.57
472 2193 1.396996 GCGTACGTGGCTTGATTTGAT 59.603 47.619 17.90 0.00 0.00 2.57
473 2194 0.793861 GCGTACGTGGCTTGATTTGA 59.206 50.000 17.90 0.00 0.00 2.69
474 2195 0.518355 CGCGTACGTGGCTTGATTTG 60.518 55.000 20.84 0.00 33.53 2.32
475 2196 1.632046 CCGCGTACGTGGCTTGATTT 61.632 55.000 32.68 0.00 39.06 2.17
476 2197 2.098233 CCGCGTACGTGGCTTGATT 61.098 57.895 32.68 0.00 39.06 2.57
477 2198 2.508439 CCGCGTACGTGGCTTGAT 60.508 61.111 32.68 0.00 39.06 2.57
478 2199 4.728102 CCCGCGTACGTGGCTTGA 62.728 66.667 36.56 0.00 43.94 3.02
479 2200 4.728102 TCCCGCGTACGTGGCTTG 62.728 66.667 36.56 25.05 43.94 4.01
480 2201 4.430765 CTCCCGCGTACGTGGCTT 62.431 66.667 36.56 0.00 43.94 4.35
487 2208 4.203076 ATCCGTGCTCCCGCGTAC 62.203 66.667 4.92 0.00 43.11 3.67
488 2209 4.201679 CATCCGTGCTCCCGCGTA 62.202 66.667 4.92 0.00 43.11 4.42
517 2238 1.265236 TGTTCACAAATGGCATCCCC 58.735 50.000 0.00 0.00 0.00 4.81
518 2239 3.615224 AATGTTCACAAATGGCATCCC 57.385 42.857 0.00 0.00 0.00 3.85
519 2240 5.945466 AAAAATGTTCACAAATGGCATCC 57.055 34.783 0.00 0.00 0.00 3.51
520 2241 6.962678 GCATAAAAATGTTCACAAATGGCATC 59.037 34.615 0.00 0.00 0.00 3.91
521 2242 6.127952 GGCATAAAAATGTTCACAAATGGCAT 60.128 34.615 0.00 0.00 38.23 4.40
522 2243 5.180868 GGCATAAAAATGTTCACAAATGGCA 59.819 36.000 0.00 0.00 38.23 4.92
523 2244 5.180868 TGGCATAAAAATGTTCACAAATGGC 59.819 36.000 0.00 0.00 38.65 4.40
524 2245 6.798315 TGGCATAAAAATGTTCACAAATGG 57.202 33.333 0.00 0.00 0.00 3.16
525 2246 9.680315 AATTTGGCATAAAAATGTTCACAAATG 57.320 25.926 0.00 0.00 36.49 2.32
526 2247 9.896263 GAATTTGGCATAAAAATGTTCACAAAT 57.104 25.926 0.00 0.00 37.54 2.32
531 2252 9.770097 TTGTAGAATTTGGCATAAAAATGTTCA 57.230 25.926 0.00 0.00 0.00 3.18
587 2317 4.626042 ACACACAGTTTTCACAGCAAAAA 58.374 34.783 0.00 0.00 0.00 1.94
602 2355 5.396484 CAATTCCTTCAAGCATACACACAG 58.604 41.667 0.00 0.00 0.00 3.66
610 2364 2.901839 AGTTGGCAATTCCTTCAAGCAT 59.098 40.909 1.92 0.00 35.26 3.79
639 2403 4.092091 TGGCAAAACGAACATTTTTCACAC 59.908 37.500 0.00 0.00 29.17 3.82
664 2428 0.316689 CAAACGGTCGTTGAAGGTGC 60.317 55.000 9.57 0.00 38.47 5.01
673 2437 3.436001 CTATCCAGCAAACGGTCGT 57.564 52.632 0.00 0.00 0.00 4.34
715 2576 4.967575 ACACGTAACTTTTCGCAGAAATTG 59.032 37.500 4.91 4.63 45.90 2.32
727 2588 4.151157 GCGTTCCATTAGACACGTAACTTT 59.849 41.667 0.00 0.00 33.96 2.66
735 2596 0.719465 CACGGCGTTCCATTAGACAC 59.281 55.000 11.19 0.00 0.00 3.67
738 2599 0.828022 ATCCACGGCGTTCCATTAGA 59.172 50.000 11.19 0.00 0.00 2.10
745 2615 0.523335 GCATTTCATCCACGGCGTTC 60.523 55.000 11.19 0.00 0.00 3.95
753 2623 1.947597 GCGGCCAAGCATTTCATCCA 61.948 55.000 2.24 0.00 37.05 3.41
759 2629 3.384532 CCTGGCGGCCAAGCATTT 61.385 61.111 23.94 0.00 39.27 2.32
806 2676 6.388435 TTTTTGGCAAAATGAGGGAATTTG 57.612 33.333 24.61 0.00 37.17 2.32
833 2703 2.478370 CCGACGGTAAGAGCGATTGTTA 60.478 50.000 5.48 0.00 42.41 2.41
834 2704 1.625616 CGACGGTAAGAGCGATTGTT 58.374 50.000 4.92 0.00 42.41 2.83
835 2705 0.179145 CCGACGGTAAGAGCGATTGT 60.179 55.000 5.48 0.00 42.41 2.71
836 2706 0.099968 TCCGACGGTAAGAGCGATTG 59.900 55.000 14.79 0.00 42.41 2.67
837 2707 1.001597 GATCCGACGGTAAGAGCGATT 60.002 52.381 14.79 0.00 42.41 3.34
860 2730 2.646175 CCATCACCACCGTCCGTCT 61.646 63.158 0.00 0.00 0.00 4.18
873 2743 1.997311 CCCTCCTCACCTGCCATCA 60.997 63.158 0.00 0.00 0.00 3.07
876 2746 2.194951 ATACCCCTCCTCACCTGCCA 62.195 60.000 0.00 0.00 0.00 4.92
889 2759 1.073897 GGCCAGAGATGCATACCCC 59.926 63.158 0.00 0.00 0.00 4.95
1049 2927 2.813908 GCGAAGACGGCGATGGTT 60.814 61.111 16.62 0.00 40.15 3.67
1098 2976 4.382320 GGGCTGCGACGTGGGTTA 62.382 66.667 0.00 0.00 0.00 2.85
1332 3219 1.396653 GCTAGAGCGGGGTTAGTACA 58.603 55.000 0.00 0.00 0.00 2.90
1573 3478 1.919240 TTCGAGGTACAGGCAGAGAA 58.081 50.000 0.00 0.00 0.00 2.87
1601 3506 5.739959 TGTCACGGGATTCTCATGATAAAA 58.260 37.500 0.00 0.00 0.00 1.52
1604 3509 3.960755 ACTGTCACGGGATTCTCATGATA 59.039 43.478 0.00 0.00 0.00 2.15
1619 3524 4.981794 ACTTGTTTGTTGCTAACTGTCAC 58.018 39.130 0.00 0.00 0.00 3.67
1689 3594 3.056107 TCCATAGAGCGTTAAAGTGCACT 60.056 43.478 15.25 15.25 36.08 4.40
1743 3650 6.212888 AGCAATTTGAAGTGTCAGAAAACT 57.787 33.333 0.00 0.00 34.49 2.66
1789 3699 9.309516 GCAAATTTATCAAACATGATCATCTGT 57.690 29.630 4.86 0.00 0.00 3.41
1830 3740 1.212935 GCACCACCCCAGACATAAGAT 59.787 52.381 0.00 0.00 0.00 2.40
1831 3741 0.618458 GCACCACCCCAGACATAAGA 59.382 55.000 0.00 0.00 0.00 2.10
1887 3797 0.818040 ACCGACCCTTGCACTCAAAC 60.818 55.000 0.00 0.00 0.00 2.93
1908 3818 0.327924 TCCGCACAATTCCACCATCT 59.672 50.000 0.00 0.00 0.00 2.90
2673 4653 2.449464 TGCAAACAGGCTGATAAGCAT 58.551 42.857 23.66 0.00 36.33 3.79
2717 4697 6.793492 AATGAGAGTTAAAGACAGAAGTGC 57.207 37.500 0.00 0.00 0.00 4.40
3143 5131 1.207593 GCTGCTGTAAGTGCCGTTG 59.792 57.895 0.00 0.00 35.30 4.10
3148 5136 1.198637 CCTTTGAGCTGCTGTAAGTGC 59.801 52.381 7.01 0.00 35.30 4.40
3252 5240 0.178831 AGGGGAGGGTCAAGGAACAT 60.179 55.000 0.00 0.00 0.00 2.71
3286 5274 1.268899 GATGCTGCTGAACAAGTGCTT 59.731 47.619 0.00 0.00 0.00 3.91
3500 5489 5.936187 ATGGAGATACCTCATAGAGCATG 57.064 43.478 0.00 0.00 41.20 4.06
3521 5510 7.631717 TCATATACGACTTAGCTGCAGATAT 57.368 36.000 20.43 0.14 0.00 1.63
3537 5526 9.973246 GGATAATGCTAATGTGTTTCATATACG 57.027 33.333 0.00 0.00 35.48 3.06
3625 5804 8.833231 GCCATGAGCAGTAAGTTAGAAATATA 57.167 34.615 0.00 0.00 42.97 0.86
3669 5848 1.628340 ACTGTGCAACTACCCTATGCA 59.372 47.619 0.00 0.00 46.97 3.96
3673 5852 4.141574 ACAAAGAACTGTGCAACTACCCTA 60.142 41.667 0.00 0.00 38.04 3.53
3728 5907 2.627771 ACCCTTCCAGGTGTGTTCA 58.372 52.632 0.00 0.00 39.24 3.18
3807 5986 8.956533 AAGAAAGCAAAGCCAAAAATTAAGTA 57.043 26.923 0.00 0.00 0.00 2.24
3843 6022 6.941857 ACAGGCAAAAAGGAGAAAAACTAAA 58.058 32.000 0.00 0.00 0.00 1.85
3994 6173 7.038587 TCACAGAAACCTTAGCTTTAGATGGTA 60.039 37.037 0.00 0.00 0.00 3.25
4012 6191 1.949525 GCACAGGCTTCTTCACAGAAA 59.050 47.619 0.00 0.00 38.63 2.52
4026 6205 1.027357 GATGGTGGCATAAGCACAGG 58.973 55.000 0.00 0.00 44.61 4.00
4384 6564 5.838531 ACCGTTGTATTCTGGAACAAAAA 57.161 34.783 0.00 0.00 38.70 1.94
4437 6617 6.645700 TGAGCATTTTGAAAGTGAAACAAC 57.354 33.333 4.51 0.00 41.43 3.32
4467 6647 6.088085 GCACTGCAATGAAACACTTGTATAAC 59.912 38.462 0.00 0.00 0.00 1.89
4550 6730 2.511659 GAAAAAGTACCTTTCGGGGCT 58.488 47.619 3.10 0.00 40.03 5.19
4592 6772 4.813296 AACTTACGAACAAAGGAAGCAG 57.187 40.909 0.00 0.00 0.00 4.24
4698 6878 4.966787 AACACCACCGCCGCCAAT 62.967 61.111 0.00 0.00 0.00 3.16
4706 6886 6.037098 TCTTGTGAAAATAAAAACACCACCG 58.963 36.000 0.00 0.00 33.08 4.94
4742 6922 9.586435 CCATGGAAATTAGAAAACCTTCATAAC 57.414 33.333 5.56 0.00 33.64 1.89
4783 6963 7.451566 GGTAAGCCCATCTATAACCATCATTTT 59.548 37.037 0.00 0.00 0.00 1.82
4933 7114 3.995705 TGCCAATGCACAGAATAAAAAGC 59.004 39.130 0.00 0.00 44.23 3.51
4957 7138 9.462174 CATATAGCAGAACTCAAACAAAAACAA 57.538 29.630 0.00 0.00 0.00 2.83
4986 7167 1.637402 GTCGAACGTGAAAACGCCA 59.363 52.632 0.00 0.00 36.44 5.69
5005 7186 4.036027 ACATGCATCTGCTATTGTACTTGC 59.964 41.667 0.00 0.00 42.66 4.01
5402 7584 3.358707 TTGAATTTGCACAGACAGCAG 57.641 42.857 0.00 0.00 43.75 4.24
5533 7715 9.001542 CATAATTGTTTTTGTGGGACATCAATT 57.998 29.630 0.00 0.00 44.52 2.32
5619 7801 4.162888 TGCCTTGATATCATCTGTGACACT 59.837 41.667 6.17 0.00 37.14 3.55
5620 7802 4.445453 TGCCTTGATATCATCTGTGACAC 58.555 43.478 6.17 0.00 37.14 3.67
5621 7803 4.758773 TGCCTTGATATCATCTGTGACA 57.241 40.909 6.17 0.00 37.14 3.58
5622 7804 5.121811 AGTTGCCTTGATATCATCTGTGAC 58.878 41.667 6.17 2.41 37.14 3.67
5623 7805 5.363562 AGTTGCCTTGATATCATCTGTGA 57.636 39.130 6.17 0.00 39.04 3.58
5624 7806 7.741027 AATAGTTGCCTTGATATCATCTGTG 57.259 36.000 6.17 0.00 0.00 3.66
5636 7818 8.511321 TGTGACTGTAATAAAATAGTTGCCTTG 58.489 33.333 0.00 0.00 0.00 3.61
5638 7820 8.807948 ATGTGACTGTAATAAAATAGTTGCCT 57.192 30.769 0.00 0.00 0.00 4.75


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

AutoCloner maintained by Alex Coulton.