Multiple sequence alignment - TraesCS1D01G223000

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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 TraesCS1D01G223000 chr1D 100.000 3489 0 0 1 3489 310773148 310776636 0.000000e+00 6444
1 TraesCS1D01G223000 chr1D 89.844 256 25 1 385 640 486154361 486154615 9.340000e-86 327
2 TraesCS1D01G223000 chr1A 95.053 2365 91 13 651 2998 390638659 390641014 0.000000e+00 3696
3 TraesCS1D01G223000 chr1A 95.393 369 17 0 3121 3489 390641012 390641380 3.880000e-164 588
4 TraesCS1D01G223000 chr1A 88.995 209 16 4 1 209 390636968 390637169 5.780000e-63 252
5 TraesCS1D01G223000 chr1A 93.182 88 6 0 272 359 390638564 390638651 2.830000e-26 130
6 TraesCS1D01G223000 chr1B 94.534 2360 75 21 651 2992 420415201 420417524 0.000000e+00 3594
7 TraesCS1D01G223000 chr1B 90.332 331 14 11 1 330 420414872 420415185 5.390000e-113 418
8 TraesCS1D01G223000 chr1B 92.095 253 16 3 3200 3450 420417560 420417810 1.540000e-93 353
9 TraesCS1D01G223000 chr1B 93.617 141 9 0 2997 3137 424541556 424541696 9.810000e-51 211
10 TraesCS1D01G223000 chr7D 89.139 267 29 0 390 656 215783331 215783597 2.010000e-87 333
11 TraesCS1D01G223000 chr5D 89.354 263 27 1 391 653 517961355 517961094 2.600000e-86 329
12 TraesCS1D01G223000 chr5D 94.286 140 6 2 2988 3127 90314135 90314272 2.730000e-51 213
13 TraesCS1D01G223000 chr5B 88.679 265 29 1 389 653 281946551 281946814 4.340000e-84 322
14 TraesCS1D01G223000 chr5B 87.823 271 31 2 386 655 445497309 445497578 2.020000e-82 316
15 TraesCS1D01G223000 chr4A 87.591 274 32 2 391 664 671653624 671653353 2.020000e-82 316
16 TraesCS1D01G223000 chr4A 96.241 133 4 1 2993 3124 177639143 177639011 2.110000e-52 217
17 TraesCS1D01G223000 chr3B 87.454 271 32 2 384 654 653096154 653096422 9.400000e-81 311
18 TraesCS1D01G223000 chr2B 86.572 283 36 2 390 671 42029560 42029841 9.400000e-81 311
19 TraesCS1D01G223000 chr2B 77.925 453 89 8 1558 2003 754977651 754977203 4.440000e-69 272
20 TraesCS1D01G223000 chr2B 94.776 134 7 0 2990 3123 517436876 517437009 3.530000e-50 209
21 TraesCS1D01G223000 chr2A 87.732 269 30 3 384 652 66802954 66802689 9.400000e-81 311
22 TraesCS1D01G223000 chr2D 78.059 474 88 13 1558 2023 618302366 618301901 5.700000e-73 285
23 TraesCS1D01G223000 chr2D 93.151 146 7 2 2979 3123 645613195 645613052 9.810000e-51 211
24 TraesCS1D01G223000 chr5A 77.826 460 82 15 1571 2023 697052507 697052061 2.060000e-67 267
25 TraesCS1D01G223000 chr3D 76.974 456 80 18 1571 2023 108288190 108287757 1.620000e-58 237
26 TraesCS1D01G223000 chr3D 93.571 140 6 1 2985 3124 11338060 11337924 4.560000e-49 206
27 TraesCS1D01G223000 chr4D 76.344 465 89 14 1571 2023 509096156 509095701 2.710000e-56 230
28 TraesCS1D01G223000 chr7A 95.588 136 5 1 2989 3123 462339177 462339312 2.110000e-52 217
29 TraesCS1D01G223000 chr7A 93.617 141 8 1 2983 3123 603025201 603025340 3.530000e-50 209
30 TraesCS1D01G223000 chr3A 94.891 137 6 1 2992 3128 469077428 469077563 2.730000e-51 213
31 TraesCS1D01G223000 chr4B 76.648 364 51 19 1675 2034 658179800 658180133 1.670000e-38 171


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 TraesCS1D01G223000 chr1D 310773148 310776636 3488 False 6444.0 6444 100.000000 1 3489 1 chr1D.!!$F1 3488
1 TraesCS1D01G223000 chr1A 390636968 390641380 4412 False 1166.5 3696 93.155750 1 3489 4 chr1A.!!$F1 3488
2 TraesCS1D01G223000 chr1B 420414872 420417810 2938 False 1455.0 3594 92.320333 1 3450 3 chr1B.!!$F2 3449

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
253 255 0.596083 CTGAATCGCGACCAGCTAGG 60.596 60.0 22.06 5.17 45.59 3.02 F
1667 3041 0.909623 ATCAAGGTGGGGTTCTACGG 59.090 55.0 0.00 0.00 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2071 3445 0.038166 ATGACCAGGACCGCACAAAT 59.962 50.0 0.0 0.0 0.0 2.32 R
3111 4515 0.043637 TCCCTTCATACCCCTTCCGT 59.956 55.0 0.0 0.0 0.0 4.69 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
73 74 3.733337 ACTCTTTGCCCATCATACGATC 58.267 45.455 0.00 0.00 0.00 3.69
120 122 9.520515 ACCATTAACTTGTCAACTTAATCATCT 57.479 29.630 7.05 0.00 0.00 2.90
170 172 4.236147 GGTCGTAAAGTTCTTGTCTCCTC 58.764 47.826 0.00 0.00 0.00 3.71
219 221 1.621672 CCTCCTTCCAGGCCAGACTC 61.622 65.000 5.01 0.00 34.61 3.36
220 222 1.954362 CTCCTTCCAGGCCAGACTCG 61.954 65.000 5.01 0.00 34.61 4.18
238 240 4.388499 GGCGGGTCCGAAGCTGAA 62.388 66.667 14.15 0.00 42.83 3.02
240 242 2.174319 GCGGGTCCGAAGCTGAATC 61.174 63.158 14.15 0.00 42.83 2.52
241 243 1.878522 CGGGTCCGAAGCTGAATCG 60.879 63.158 2.83 0.00 42.83 3.34
242 244 2.174319 GGGTCCGAAGCTGAATCGC 61.174 63.158 0.64 0.00 38.93 4.58
243 245 2.517450 GGTCCGAAGCTGAATCGCG 61.517 63.158 0.00 0.00 38.93 5.87
244 246 1.516386 GTCCGAAGCTGAATCGCGA 60.516 57.895 13.09 13.09 38.93 5.87
245 247 1.516386 TCCGAAGCTGAATCGCGAC 60.516 57.895 12.93 0.00 38.93 5.19
246 248 2.517450 CCGAAGCTGAATCGCGACC 61.517 63.158 12.93 7.25 38.93 4.79
247 249 1.805539 CGAAGCTGAATCGCGACCA 60.806 57.895 12.93 12.18 33.07 4.02
248 250 1.746727 CGAAGCTGAATCGCGACCAG 61.747 60.000 26.67 26.67 33.07 4.00
250 252 2.510238 GCTGAATCGCGACCAGCT 60.510 61.111 37.16 14.46 46.96 4.24
251 253 1.226974 GCTGAATCGCGACCAGCTA 60.227 57.895 37.16 14.66 46.96 3.32
252 254 1.211818 GCTGAATCGCGACCAGCTAG 61.212 60.000 37.16 21.72 46.96 3.42
253 255 0.596083 CTGAATCGCGACCAGCTAGG 60.596 60.000 22.06 5.17 45.59 3.02
263 265 2.128729 CCAGCTAGGTGGCTCCTAC 58.871 63.158 27.07 8.68 46.10 3.18
336 1705 8.997621 TTAGCTCCATATTAATACGGAATCAC 57.002 34.615 11.24 2.56 0.00 3.06
340 1709 9.088512 GCTCCATATTAATACGGAATCACTAAG 57.911 37.037 11.24 0.00 0.00 2.18
350 1719 6.227298 ACGGAATCACTAAGAATCTGACAT 57.773 37.500 0.00 0.00 36.27 3.06
357 1726 5.186603 TCACTAAGAATCTGACATCAGCACT 59.813 40.000 3.88 1.18 43.46 4.40
358 1727 5.873712 CACTAAGAATCTGACATCAGCACTT 59.126 40.000 3.88 10.71 43.46 3.16
359 1728 5.873712 ACTAAGAATCTGACATCAGCACTTG 59.126 40.000 17.09 12.42 43.46 3.16
360 1729 3.607741 AGAATCTGACATCAGCACTTGG 58.392 45.455 3.88 0.00 43.46 3.61
361 1730 2.414994 ATCTGACATCAGCACTTGGG 57.585 50.000 3.88 0.00 43.46 4.12
362 1731 1.351076 TCTGACATCAGCACTTGGGA 58.649 50.000 3.88 0.00 43.46 4.37
363 1732 1.277273 TCTGACATCAGCACTTGGGAG 59.723 52.381 3.88 0.00 43.46 4.30
364 1733 1.002888 CTGACATCAGCACTTGGGAGT 59.997 52.381 0.00 0.00 37.15 3.85
365 1734 2.234661 CTGACATCAGCACTTGGGAGTA 59.765 50.000 0.00 0.00 37.15 2.59
366 1735 2.840038 TGACATCAGCACTTGGGAGTAT 59.160 45.455 0.00 0.00 33.90 2.12
367 1736 4.030216 TGACATCAGCACTTGGGAGTATA 58.970 43.478 0.00 0.00 33.90 1.47
368 1737 4.469586 TGACATCAGCACTTGGGAGTATAA 59.530 41.667 0.00 0.00 33.90 0.98
369 1738 5.028549 ACATCAGCACTTGGGAGTATAAG 57.971 43.478 0.00 0.00 33.90 1.73
370 1739 4.716784 ACATCAGCACTTGGGAGTATAAGA 59.283 41.667 0.00 0.00 33.90 2.10
371 1740 5.189736 ACATCAGCACTTGGGAGTATAAGAA 59.810 40.000 0.00 0.00 33.90 2.52
372 1741 5.344743 TCAGCACTTGGGAGTATAAGAAG 57.655 43.478 0.00 0.00 33.90 2.85
384 1753 7.402071 TGGGAGTATAAGAAGCCTCTTTTAGAA 59.598 37.037 2.23 0.00 42.17 2.10
397 1766 9.622637 AGCCTCTTTTAGAAATATATACTCCCT 57.377 33.333 0.00 0.00 0.00 4.20
398 1767 9.878667 GCCTCTTTTAGAAATATATACTCCCTC 57.121 37.037 0.00 0.00 0.00 4.30
433 1802 8.846943 ATATAAGATGTATTGATTTCCGTGCA 57.153 30.769 0.00 0.00 0.00 4.57
434 1803 5.895636 AAGATGTATTGATTTCCGTGCAA 57.104 34.783 0.00 0.00 0.00 4.08
435 1804 5.490139 AGATGTATTGATTTCCGTGCAAG 57.510 39.130 0.00 0.00 0.00 4.01
436 1805 4.943705 AGATGTATTGATTTCCGTGCAAGT 59.056 37.500 0.00 0.00 0.00 3.16
437 1806 4.678509 TGTATTGATTTCCGTGCAAGTC 57.321 40.909 0.00 0.00 0.00 3.01
438 1807 4.068599 TGTATTGATTTCCGTGCAAGTCA 58.931 39.130 0.00 0.00 0.00 3.41
439 1808 4.517075 TGTATTGATTTCCGTGCAAGTCAA 59.483 37.500 6.01 6.01 36.69 3.18
440 1809 3.347958 TTGATTTCCGTGCAAGTCAAC 57.652 42.857 0.00 0.00 29.69 3.18
441 1810 1.606668 TGATTTCCGTGCAAGTCAACC 59.393 47.619 0.00 0.00 0.00 3.77
442 1811 1.606668 GATTTCCGTGCAAGTCAACCA 59.393 47.619 0.00 0.00 0.00 3.67
443 1812 1.686355 TTTCCGTGCAAGTCAACCAT 58.314 45.000 0.00 0.00 0.00 3.55
444 1813 1.686355 TTCCGTGCAAGTCAACCATT 58.314 45.000 0.00 0.00 0.00 3.16
445 1814 1.686355 TCCGTGCAAGTCAACCATTT 58.314 45.000 0.00 0.00 0.00 2.32
446 1815 1.336440 TCCGTGCAAGTCAACCATTTG 59.664 47.619 0.00 0.00 0.00 2.32
447 1816 1.336440 CCGTGCAAGTCAACCATTTGA 59.664 47.619 0.00 0.00 39.55 2.69
448 1817 2.223688 CCGTGCAAGTCAACCATTTGAA 60.224 45.455 0.00 0.00 43.52 2.69
449 1818 3.552684 CCGTGCAAGTCAACCATTTGAAT 60.553 43.478 0.00 0.00 43.52 2.57
450 1819 3.426191 CGTGCAAGTCAACCATTTGAATG 59.574 43.478 0.00 0.00 43.52 2.67
451 1820 4.370917 GTGCAAGTCAACCATTTGAATGT 58.629 39.130 0.00 0.00 43.52 2.71
452 1821 4.810491 GTGCAAGTCAACCATTTGAATGTT 59.190 37.500 0.00 0.00 43.52 2.71
453 1822 5.294060 GTGCAAGTCAACCATTTGAATGTTT 59.706 36.000 0.00 0.00 43.52 2.83
454 1823 5.293814 TGCAAGTCAACCATTTGAATGTTTG 59.706 36.000 7.44 7.44 43.52 2.93
455 1824 5.523188 GCAAGTCAACCATTTGAATGTTTGA 59.477 36.000 11.22 11.22 42.89 2.69
456 1825 6.203338 GCAAGTCAACCATTTGAATGTTTGAT 59.797 34.615 16.30 3.22 45.38 2.57
457 1826 7.569957 GCAAGTCAACCATTTGAATGTTTGATC 60.570 37.037 16.30 11.48 45.38 2.92
458 1827 7.053316 AGTCAACCATTTGAATGTTTGATCA 57.947 32.000 16.30 0.00 45.38 2.92
459 1828 7.499292 AGTCAACCATTTGAATGTTTGATCAA 58.501 30.769 16.30 3.38 45.38 2.57
460 1829 7.654520 AGTCAACCATTTGAATGTTTGATCAAG 59.345 33.333 16.30 0.00 45.38 3.02
461 1830 7.652909 GTCAACCATTTGAATGTTTGATCAAGA 59.347 33.333 16.30 0.00 45.38 3.02
462 1831 8.369424 TCAACCATTTGAATGTTTGATCAAGAT 58.631 29.630 8.41 2.40 41.11 2.40
463 1832 8.995220 CAACCATTTGAATGTTTGATCAAGATT 58.005 29.630 8.41 10.77 40.09 2.40
465 1834 9.643693 ACCATTTGAATGTTTGATCAAGATTAC 57.356 29.630 8.41 4.69 36.93 1.89
466 1835 9.642327 CCATTTGAATGTTTGATCAAGATTACA 57.358 29.630 11.94 11.94 36.93 2.41
595 1964 7.532682 TTTCTAAAAAGTTGGTCAAACATGC 57.467 32.000 0.00 0.00 41.61 4.06
596 1965 6.214191 TCTAAAAAGTTGGTCAAACATGCA 57.786 33.333 0.00 0.00 41.61 3.96
597 1966 6.039616 TCTAAAAAGTTGGTCAAACATGCAC 58.960 36.000 0.00 0.00 41.61 4.57
598 1967 4.470334 AAAAGTTGGTCAAACATGCACT 57.530 36.364 0.00 0.00 41.61 4.40
599 1968 3.715628 AAGTTGGTCAAACATGCACTC 57.284 42.857 0.00 0.00 41.61 3.51
600 1969 1.603802 AGTTGGTCAAACATGCACTCG 59.396 47.619 0.00 0.00 41.61 4.18
601 1970 1.333619 GTTGGTCAAACATGCACTCGT 59.666 47.619 0.00 0.00 38.75 4.18
602 1971 1.674359 TGGTCAAACATGCACTCGTT 58.326 45.000 0.00 0.00 0.00 3.85
603 1972 2.020720 TGGTCAAACATGCACTCGTTT 58.979 42.857 5.20 5.20 35.76 3.60
609 1978 4.370364 AAACATGCACTCGTTTGACTTT 57.630 36.364 9.29 0.00 34.16 2.66
610 1979 4.370364 AACATGCACTCGTTTGACTTTT 57.630 36.364 0.00 0.00 0.00 2.27
611 1980 3.952535 ACATGCACTCGTTTGACTTTTC 58.047 40.909 0.00 0.00 0.00 2.29
612 1981 3.376859 ACATGCACTCGTTTGACTTTTCA 59.623 39.130 0.00 0.00 0.00 2.69
613 1982 4.142491 ACATGCACTCGTTTGACTTTTCAA 60.142 37.500 0.00 0.00 40.14 2.69
646 2015 6.426646 ACACCTTATATAAAGGAGCAGAGG 57.573 41.667 10.67 4.52 39.81 3.69
647 2016 5.308237 ACACCTTATATAAAGGAGCAGAGGG 59.692 44.000 10.67 4.11 39.81 4.30
648 2017 5.308237 CACCTTATATAAAGGAGCAGAGGGT 59.692 44.000 10.67 4.61 39.81 4.34
649 2018 5.308237 ACCTTATATAAAGGAGCAGAGGGTG 59.692 44.000 10.67 0.00 39.81 4.61
743 2112 4.945246 AGGAGTATATGCGTTTGAATCGT 58.055 39.130 0.00 0.00 0.00 3.73
760 2129 4.653806 ATCGTCTCGCAGAAAAGAAAAG 57.346 40.909 0.00 0.00 34.09 2.27
1667 3041 0.909623 ATCAAGGTGGGGTTCTACGG 59.090 55.000 0.00 0.00 0.00 4.02
2058 3432 1.377994 CAGTTGGGCTGCTTCCTCT 59.622 57.895 0.00 0.00 38.52 3.69
2062 3436 1.200760 TTGGGCTGCTTCCTCTGCTA 61.201 55.000 0.00 0.00 0.00 3.49
2071 3445 4.350245 TGCTTCCTCTGCTAGGTTAGTTA 58.650 43.478 5.70 0.00 46.62 2.24
2148 3522 8.506168 TCGTTTTTATAGGCAAAAGATCAGAT 57.494 30.769 0.00 0.00 0.00 2.90
2149 3523 9.607988 TCGTTTTTATAGGCAAAAGATCAGATA 57.392 29.630 0.00 0.00 0.00 1.98
2150 3524 9.651718 CGTTTTTATAGGCAAAAGATCAGATAC 57.348 33.333 0.00 0.00 0.00 2.24
2187 3563 8.993424 AGTGTTGGGTAGTTTGATTCTATCTAT 58.007 33.333 0.00 0.00 0.00 1.98
2314 3698 8.134202 TCTACTGTTTGACTTGAGGATTATGA 57.866 34.615 0.00 0.00 0.00 2.15
2356 3740 7.952671 ACTTTCACTACAGAGAACTGACATTA 58.047 34.615 0.00 0.00 46.03 1.90
2505 3896 1.438651 TAAGCATGTCCTGTGTTCGC 58.561 50.000 0.00 0.00 0.00 4.70
2528 3919 4.209538 CCATGGAGGCATGAATAAACTCA 58.790 43.478 5.56 0.00 34.66 3.41
2639 4033 1.566298 ATGGCTGGGGGACTTCAGAC 61.566 60.000 0.00 0.00 37.89 3.51
2641 4035 1.492993 GGCTGGGGGACTTCAGACTT 61.493 60.000 0.00 0.00 35.48 3.01
2644 4038 1.912043 CTGGGGGACTTCAGACTTGAT 59.088 52.381 0.00 0.00 33.16 2.57
2646 4040 2.838202 TGGGGGACTTCAGACTTGATAC 59.162 50.000 0.00 0.00 32.27 2.24
2666 4060 1.671979 CGCCAGACATTGTGGATGAT 58.328 50.000 0.00 0.00 39.15 2.45
2676 4070 6.653740 AGACATTGTGGATGATACTGCATATG 59.346 38.462 0.00 0.00 39.15 1.78
2684 4078 7.859377 GTGGATGATACTGCATATGTTTGAAAG 59.141 37.037 4.29 0.00 0.00 2.62
2686 4080 7.859377 GGATGATACTGCATATGTTTGAAAGTG 59.141 37.037 4.29 0.00 0.00 3.16
2712 4107 7.410120 AGTGAGAAAAATGGACAAAAGTCTT 57.590 32.000 0.00 0.00 0.00 3.01
2741 4136 5.761726 TCAATCCATCATGATGAGCACTAAC 59.238 40.000 32.71 0.00 41.20 2.34
2742 4137 4.758773 TCCATCATGATGAGCACTAACA 57.241 40.909 32.71 6.38 41.20 2.41
2743 4138 4.700700 TCCATCATGATGAGCACTAACAG 58.299 43.478 32.71 14.43 41.20 3.16
2748 4143 7.362315 CCATCATGATGAGCACTAACAGAAAAA 60.362 37.037 32.71 0.00 41.20 1.94
2749 4144 7.692460 TCATGATGAGCACTAACAGAAAAAT 57.308 32.000 0.00 0.00 0.00 1.82
2750 4145 8.791327 TCATGATGAGCACTAACAGAAAAATA 57.209 30.769 0.00 0.00 0.00 1.40
2751 4146 8.886719 TCATGATGAGCACTAACAGAAAAATAG 58.113 33.333 0.00 0.00 0.00 1.73
2752 4147 8.671921 CATGATGAGCACTAACAGAAAAATAGT 58.328 33.333 0.00 0.00 0.00 2.12
2753 4148 9.890629 ATGATGAGCACTAACAGAAAAATAGTA 57.109 29.630 0.00 0.00 0.00 1.82
2754 4149 9.371136 TGATGAGCACTAACAGAAAAATAGTAG 57.629 33.333 0.00 0.00 0.00 2.57
2755 4150 7.596749 TGAGCACTAACAGAAAAATAGTAGC 57.403 36.000 0.00 0.00 0.00 3.58
2835 4235 9.734620 TTTTACATTTGAGTTTCACAGAGAATG 57.265 29.630 0.00 0.00 35.83 2.67
2998 4402 7.094377 ACCACATGATTCCAGTTTTACATGTAC 60.094 37.037 4.68 0.00 43.74 2.90
2999 4403 7.121168 CCACATGATTCCAGTTTTACATGTACT 59.879 37.037 4.68 0.00 43.74 2.73
3000 4404 8.177663 CACATGATTCCAGTTTTACATGTACTC 58.822 37.037 4.68 0.00 43.74 2.59
3001 4405 7.336931 ACATGATTCCAGTTTTACATGTACTCC 59.663 37.037 4.68 0.00 43.75 3.85
3002 4406 6.177610 TGATTCCAGTTTTACATGTACTCCC 58.822 40.000 4.68 0.00 0.00 4.30
3003 4407 5.836024 TTCCAGTTTTACATGTACTCCCT 57.164 39.130 4.68 0.00 0.00 4.20
3004 4408 5.416271 TCCAGTTTTACATGTACTCCCTC 57.584 43.478 4.68 0.00 0.00 4.30
3005 4409 4.224370 TCCAGTTTTACATGTACTCCCTCC 59.776 45.833 4.68 0.00 0.00 4.30
3006 4410 4.181578 CAGTTTTACATGTACTCCCTCCG 58.818 47.826 4.68 0.00 0.00 4.63
3007 4411 3.836562 AGTTTTACATGTACTCCCTCCGT 59.163 43.478 4.68 0.00 0.00 4.69
3008 4412 4.081807 AGTTTTACATGTACTCCCTCCGTC 60.082 45.833 4.68 0.00 0.00 4.79
3009 4413 2.062971 TACATGTACTCCCTCCGTCC 57.937 55.000 0.08 0.00 0.00 4.79
3010 4414 1.035932 ACATGTACTCCCTCCGTCCG 61.036 60.000 0.00 0.00 0.00 4.79
3011 4415 0.750546 CATGTACTCCCTCCGTCCGA 60.751 60.000 0.00 0.00 0.00 4.55
3012 4416 0.033796 ATGTACTCCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
3013 4417 0.251297 TGTACTCCCTCCGTCCGAAA 60.251 55.000 0.00 0.00 0.00 3.46
3014 4418 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
3015 4419 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
3016 4420 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
3017 4421 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
3018 4422 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
3019 4423 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
3020 4424 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
3021 4425 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
3022 4426 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
3023 4427 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
3024 4428 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
3025 4429 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
3026 4430 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
3027 4431 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
3028 4432 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
3029 4433 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
3030 4434 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
3031 4435 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
3032 4436 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
3033 4437 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
3034 4438 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
3042 4446 8.096414 ACTTGTCATCAAAATGGATAAAAAGGG 58.904 33.333 0.00 0.00 33.42 3.95
3043 4447 7.789202 TGTCATCAAAATGGATAAAAAGGGA 57.211 32.000 0.00 0.00 33.42 4.20
3044 4448 8.378115 TGTCATCAAAATGGATAAAAAGGGAT 57.622 30.769 0.00 0.00 33.42 3.85
3045 4449 8.259411 TGTCATCAAAATGGATAAAAAGGGATG 58.741 33.333 0.00 0.00 33.42 3.51
3046 4450 8.260114 GTCATCAAAATGGATAAAAAGGGATGT 58.740 33.333 0.00 0.00 33.42 3.06
3047 4451 9.486123 TCATCAAAATGGATAAAAAGGGATGTA 57.514 29.630 0.00 0.00 33.42 2.29
3050 4454 9.713684 TCAAAATGGATAAAAAGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
3056 4460 9.225682 TGGATAAAAAGGGATGTATCTAGAACT 57.774 33.333 0.00 0.00 0.00 3.01
3102 4506 9.918630 CTCCTTTTATTCATTTTGATGACAAGT 57.081 29.630 0.00 0.00 37.32 3.16
3109 4513 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
3110 4514 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
3111 4515 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
3112 4516 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
3113 4517 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
3114 4518 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
3115 4519 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
3149 4553 2.618709 GGACAGGCACCAATATTGTAGC 59.381 50.000 14.25 15.66 0.00 3.58
3169 4573 3.012518 GCCTACAGAGCAACATGTGATT 58.987 45.455 0.00 0.00 0.00 2.57
3174 4578 3.504906 ACAGAGCAACATGTGATTTCCTG 59.495 43.478 0.00 5.49 0.00 3.86
3207 4611 6.484977 TGTGTGTGTGTATGCTTCAAAAGATA 59.515 34.615 0.00 0.00 0.00 1.98
3220 4624 3.193267 TCAAAAGATAAGCCACCATGTGC 59.807 43.478 0.00 0.00 31.34 4.57
3246 4650 2.381752 AAGGTTGTTTCAGGAAGGGG 57.618 50.000 0.00 0.00 0.00 4.79
3372 4777 6.127479 GGCAATCCACAATCAAATACTGGTAA 60.127 38.462 0.00 0.00 0.00 2.85
3456 4861 8.281893 GCTCAGAAGATACATTTCTTATCTTGC 58.718 37.037 8.91 3.78 43.38 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 74 0.911769 TAGGTGATTGGGCTGAGGTG 59.088 55.000 0.00 0.00 0.00 4.00
120 122 2.302260 TCGTGCAAATTGACCAAGGAA 58.698 42.857 0.00 0.00 0.00 3.36
170 172 2.031012 TTCAGCGTGGCCTCTGTG 59.969 61.111 3.32 0.21 0.00 3.66
228 230 2.517450 GGTCGCGATTCAGCTTCGG 61.517 63.158 14.06 0.00 37.10 4.30
229 231 1.746727 CTGGTCGCGATTCAGCTTCG 61.747 60.000 22.82 1.88 39.55 3.79
230 232 2.002127 CTGGTCGCGATTCAGCTTC 58.998 57.895 22.82 5.21 34.40 3.86
231 233 4.192000 CTGGTCGCGATTCAGCTT 57.808 55.556 22.82 0.00 34.40 3.74
234 236 0.596083 CCTAGCTGGTCGCGATTCAG 60.596 60.000 27.18 27.18 45.59 3.02
235 237 1.437573 CCTAGCTGGTCGCGATTCA 59.562 57.895 14.06 13.47 45.59 2.57
236 238 4.327885 CCTAGCTGGTCGCGATTC 57.672 61.111 14.06 8.92 45.59 2.52
252 254 0.391793 GAACTGCAGTAGGAGCCACC 60.392 60.000 22.01 0.00 36.54 4.61
253 255 0.391793 GGAACTGCAGTAGGAGCCAC 60.392 60.000 22.01 4.49 36.54 5.01
263 265 2.348666 GCACACGTATTAGGAACTGCAG 59.651 50.000 13.48 13.48 41.52 4.41
336 1705 5.293814 CCAAGTGCTGATGTCAGATTCTTAG 59.706 44.000 13.94 4.45 46.59 2.18
340 1709 2.681848 CCCAAGTGCTGATGTCAGATTC 59.318 50.000 13.94 3.45 46.59 2.52
350 1719 4.383118 GCTTCTTATACTCCCAAGTGCTGA 60.383 45.833 0.00 0.00 36.92 4.26
357 1726 6.388619 AAAAGAGGCTTCTTATACTCCCAA 57.611 37.500 11.97 0.00 42.80 4.12
358 1727 6.901300 TCTAAAAGAGGCTTCTTATACTCCCA 59.099 38.462 11.97 0.00 42.80 4.37
359 1728 7.362802 TCTAAAAGAGGCTTCTTATACTCCC 57.637 40.000 11.97 0.00 42.80 4.30
360 1729 9.839817 ATTTCTAAAAGAGGCTTCTTATACTCC 57.160 33.333 11.97 0.00 42.80 3.85
371 1740 9.622637 AGGGAGTATATATTTCTAAAAGAGGCT 57.377 33.333 0.00 0.00 0.00 4.58
372 1741 9.878667 GAGGGAGTATATATTTCTAAAAGAGGC 57.121 37.037 0.00 0.00 0.00 4.70
407 1776 9.283768 TGCACGGAAATCAATACATCTTATATT 57.716 29.630 0.00 0.00 0.00 1.28
408 1777 8.846943 TGCACGGAAATCAATACATCTTATAT 57.153 30.769 0.00 0.00 0.00 0.86
409 1778 8.669946 TTGCACGGAAATCAATACATCTTATA 57.330 30.769 0.00 0.00 0.00 0.98
410 1779 7.283127 ACTTGCACGGAAATCAATACATCTTAT 59.717 33.333 0.00 0.00 0.00 1.73
411 1780 6.597672 ACTTGCACGGAAATCAATACATCTTA 59.402 34.615 0.00 0.00 0.00 2.10
412 1781 5.415701 ACTTGCACGGAAATCAATACATCTT 59.584 36.000 0.00 0.00 0.00 2.40
413 1782 4.943705 ACTTGCACGGAAATCAATACATCT 59.056 37.500 0.00 0.00 0.00 2.90
414 1783 5.163764 TGACTTGCACGGAAATCAATACATC 60.164 40.000 0.00 0.00 0.00 3.06
415 1784 4.699735 TGACTTGCACGGAAATCAATACAT 59.300 37.500 0.00 0.00 0.00 2.29
416 1785 4.068599 TGACTTGCACGGAAATCAATACA 58.931 39.130 0.00 0.00 0.00 2.29
417 1786 4.678509 TGACTTGCACGGAAATCAATAC 57.321 40.909 0.00 0.00 0.00 1.89
418 1787 4.083003 GGTTGACTTGCACGGAAATCAATA 60.083 41.667 0.00 0.00 0.00 1.90
419 1788 3.305335 GGTTGACTTGCACGGAAATCAAT 60.305 43.478 0.00 0.00 0.00 2.57
420 1789 2.034053 GGTTGACTTGCACGGAAATCAA 59.966 45.455 0.00 0.00 0.00 2.57
421 1790 1.606668 GGTTGACTTGCACGGAAATCA 59.393 47.619 0.00 0.00 0.00 2.57
422 1791 1.606668 TGGTTGACTTGCACGGAAATC 59.393 47.619 0.00 0.00 0.00 2.17
423 1792 1.686355 TGGTTGACTTGCACGGAAAT 58.314 45.000 0.00 0.00 0.00 2.17
424 1793 1.686355 ATGGTTGACTTGCACGGAAA 58.314 45.000 0.00 0.00 0.00 3.13
425 1794 1.686355 AATGGTTGACTTGCACGGAA 58.314 45.000 0.00 0.00 0.00 4.30
426 1795 1.336440 CAAATGGTTGACTTGCACGGA 59.664 47.619 0.00 0.00 36.83 4.69
427 1796 1.336440 TCAAATGGTTGACTTGCACGG 59.664 47.619 0.00 0.00 38.88 4.94
428 1797 2.772568 TCAAATGGTTGACTTGCACG 57.227 45.000 0.00 0.00 38.88 5.34
429 1798 4.370917 ACATTCAAATGGTTGACTTGCAC 58.629 39.130 7.58 0.00 43.52 4.57
430 1799 4.669206 ACATTCAAATGGTTGACTTGCA 57.331 36.364 7.58 0.00 43.52 4.08
431 1800 5.989551 AAACATTCAAATGGTTGACTTGC 57.010 34.783 5.24 0.00 44.21 4.01
439 1808 9.643693 GTAATCTTGATCAAACATTCAAATGGT 57.356 29.630 9.88 0.00 40.70 3.55
440 1809 9.642327 TGTAATCTTGATCAAACATTCAAATGG 57.358 29.630 9.88 0.00 40.70 3.16
569 1938 8.447053 GCATGTTTGACCAACTTTTTAGAAAAA 58.553 29.630 0.00 0.58 36.21 1.94
570 1939 7.604164 TGCATGTTTGACCAACTTTTTAGAAAA 59.396 29.630 0.00 0.00 36.21 2.29
571 1940 7.064016 GTGCATGTTTGACCAACTTTTTAGAAA 59.936 33.333 0.00 0.00 36.21 2.52
572 1941 6.533367 GTGCATGTTTGACCAACTTTTTAGAA 59.467 34.615 0.00 0.00 36.21 2.10
573 1942 6.039616 GTGCATGTTTGACCAACTTTTTAGA 58.960 36.000 0.00 0.00 36.21 2.10
574 1943 6.042143 AGTGCATGTTTGACCAACTTTTTAG 58.958 36.000 0.00 0.00 36.21 1.85
575 1944 5.971763 AGTGCATGTTTGACCAACTTTTTA 58.028 33.333 0.00 0.00 36.21 1.52
576 1945 4.831107 AGTGCATGTTTGACCAACTTTTT 58.169 34.783 0.00 0.00 36.21 1.94
577 1946 4.432712 GAGTGCATGTTTGACCAACTTTT 58.567 39.130 0.00 0.00 36.21 2.27
578 1947 3.489059 CGAGTGCATGTTTGACCAACTTT 60.489 43.478 0.00 0.00 36.21 2.66
579 1948 2.033299 CGAGTGCATGTTTGACCAACTT 59.967 45.455 0.00 0.00 36.21 2.66
580 1949 1.603802 CGAGTGCATGTTTGACCAACT 59.396 47.619 0.00 0.00 36.21 3.16
581 1950 1.333619 ACGAGTGCATGTTTGACCAAC 59.666 47.619 0.00 0.00 35.71 3.77
582 1951 1.674359 ACGAGTGCATGTTTGACCAA 58.326 45.000 0.00 0.00 0.00 3.67
583 1952 1.674359 AACGAGTGCATGTTTGACCA 58.326 45.000 0.00 0.00 0.00 4.02
584 1953 2.774439 AAACGAGTGCATGTTTGACC 57.226 45.000 12.15 0.00 36.96 4.02
588 1957 4.370364 AAAGTCAAACGAGTGCATGTTT 57.630 36.364 8.36 8.36 38.76 2.83
589 1958 4.142491 TGAAAAGTCAAACGAGTGCATGTT 60.142 37.500 0.00 0.00 0.00 2.71
590 1959 3.376859 TGAAAAGTCAAACGAGTGCATGT 59.623 39.130 0.00 0.00 0.00 3.21
591 1960 3.951306 TGAAAAGTCAAACGAGTGCATG 58.049 40.909 0.00 0.00 0.00 4.06
592 1961 4.630894 TTGAAAAGTCAAACGAGTGCAT 57.369 36.364 0.00 0.00 40.87 3.96
593 1962 4.427096 TTTGAAAAGTCAAACGAGTGCA 57.573 36.364 0.00 0.00 46.48 4.57
620 1989 8.598041 CCTCTGCTCCTTTATATAAGGTGTATT 58.402 37.037 4.13 0.00 38.55 1.89
621 1990 7.181125 CCCTCTGCTCCTTTATATAAGGTGTAT 59.819 40.741 4.13 0.00 38.55 2.29
622 1991 6.497259 CCCTCTGCTCCTTTATATAAGGTGTA 59.503 42.308 4.13 8.71 38.55 2.90
623 1992 5.308237 CCCTCTGCTCCTTTATATAAGGTGT 59.692 44.000 4.13 0.00 38.55 4.16
624 1993 5.308237 ACCCTCTGCTCCTTTATATAAGGTG 59.692 44.000 4.13 10.35 38.55 4.00
625 1994 5.308237 CACCCTCTGCTCCTTTATATAAGGT 59.692 44.000 4.13 0.00 38.55 3.50
626 1995 5.308237 ACACCCTCTGCTCCTTTATATAAGG 59.692 44.000 0.00 0.00 38.78 2.69
627 1996 6.426646 ACACCCTCTGCTCCTTTATATAAG 57.573 41.667 0.00 0.00 0.00 1.73
628 1997 9.610104 TTATACACCCTCTGCTCCTTTATATAA 57.390 33.333 0.00 0.00 0.00 0.98
629 1998 9.256228 CTTATACACCCTCTGCTCCTTTATATA 57.744 37.037 0.00 0.00 0.00 0.86
630 1999 7.181125 CCTTATACACCCTCTGCTCCTTTATAT 59.819 40.741 0.00 0.00 0.00 0.86
631 2000 6.497259 CCTTATACACCCTCTGCTCCTTTATA 59.503 42.308 0.00 0.00 0.00 0.98
632 2001 5.308237 CCTTATACACCCTCTGCTCCTTTAT 59.692 44.000 0.00 0.00 0.00 1.40
633 2002 4.654262 CCTTATACACCCTCTGCTCCTTTA 59.346 45.833 0.00 0.00 0.00 1.85
634 2003 3.456277 CCTTATACACCCTCTGCTCCTTT 59.544 47.826 0.00 0.00 0.00 3.11
635 2004 3.041946 CCTTATACACCCTCTGCTCCTT 58.958 50.000 0.00 0.00 0.00 3.36
636 2005 2.022918 ACCTTATACACCCTCTGCTCCT 60.023 50.000 0.00 0.00 0.00 3.69
637 2006 2.399580 ACCTTATACACCCTCTGCTCC 58.600 52.381 0.00 0.00 0.00 4.70
638 2007 4.471548 TCTACCTTATACACCCTCTGCTC 58.528 47.826 0.00 0.00 0.00 4.26
639 2008 4.537945 TCTACCTTATACACCCTCTGCT 57.462 45.455 0.00 0.00 0.00 4.24
640 2009 4.894114 TCTTCTACCTTATACACCCTCTGC 59.106 45.833 0.00 0.00 0.00 4.26
641 2010 6.015010 CCATCTTCTACCTTATACACCCTCTG 60.015 46.154 0.00 0.00 0.00 3.35
642 2011 6.078664 CCATCTTCTACCTTATACACCCTCT 58.921 44.000 0.00 0.00 0.00 3.69
643 2012 6.075984 TCCATCTTCTACCTTATACACCCTC 58.924 44.000 0.00 0.00 0.00 4.30
644 2013 6.039415 TCCATCTTCTACCTTATACACCCT 57.961 41.667 0.00 0.00 0.00 4.34
645 2014 5.839606 ACTCCATCTTCTACCTTATACACCC 59.160 44.000 0.00 0.00 0.00 4.61
646 2015 6.980416 ACTCCATCTTCTACCTTATACACC 57.020 41.667 0.00 0.00 0.00 4.16
647 2016 8.461249 TGTACTCCATCTTCTACCTTATACAC 57.539 38.462 0.00 0.00 0.00 2.90
648 2017 9.483489 TTTGTACTCCATCTTCTACCTTATACA 57.517 33.333 0.00 0.00 0.00 2.29
1988 3362 0.750182 GTCGTAGAGGGAGCTGAGCT 60.750 60.000 6.69 6.69 38.83 4.09
2058 3432 3.936453 CCGCACAAATAACTAACCTAGCA 59.064 43.478 0.00 0.00 0.00 3.49
2062 3436 3.008704 AGGACCGCACAAATAACTAACCT 59.991 43.478 0.00 0.00 0.00 3.50
2071 3445 0.038166 ATGACCAGGACCGCACAAAT 59.962 50.000 0.00 0.00 0.00 2.32
2287 3671 6.672266 AATCCTCAAGTCAAACAGTAGAGA 57.328 37.500 0.00 0.00 0.00 3.10
2288 3672 8.253810 TCATAATCCTCAAGTCAAACAGTAGAG 58.746 37.037 0.00 0.00 0.00 2.43
2314 3698 6.482308 AGTGAAAGTTTGTCGCTGTTACTAAT 59.518 34.615 0.00 0.00 34.59 1.73
2320 3704 3.936453 TGTAGTGAAAGTTTGTCGCTGTT 59.064 39.130 0.00 0.00 36.54 3.16
2447 3838 1.317613 TGTTTGCGATGTCAAAGGCT 58.682 45.000 0.00 0.00 36.71 4.58
2505 3896 3.569491 AGTTTATTCATGCCTCCATGGG 58.431 45.455 13.02 2.26 47.00 4.00
2596 3990 0.252881 ATCTCCTCCTGTGAAGCCCA 60.253 55.000 0.00 0.00 0.00 5.36
2608 4002 1.072015 CCCAGCCATCTTCATCTCCTC 59.928 57.143 0.00 0.00 0.00 3.71
2639 4033 2.352651 CACAATGTCTGGCGGTATCAAG 59.647 50.000 0.00 0.00 0.00 3.02
2641 4035 1.406751 CCACAATGTCTGGCGGTATCA 60.407 52.381 0.00 0.00 0.00 2.15
2644 4038 0.908910 ATCCACAATGTCTGGCGGTA 59.091 50.000 0.00 0.00 0.00 4.02
2646 4040 0.392863 TCATCCACAATGTCTGGCGG 60.393 55.000 0.00 0.00 36.68 6.13
2666 4060 7.443879 TCACTTCACTTTCAAACATATGCAGTA 59.556 33.333 1.58 0.00 0.00 2.74
2676 4070 7.759433 TCCATTTTTCTCACTTCACTTTCAAAC 59.241 33.333 0.00 0.00 0.00 2.93
2684 4078 7.035612 ACTTTTGTCCATTTTTCTCACTTCAC 58.964 34.615 0.00 0.00 0.00 3.18
2686 4080 7.685532 GACTTTTGTCCATTTTTCTCACTTC 57.314 36.000 0.00 0.00 43.37 3.01
2712 4107 5.830991 TGCTCATCATGATGGATTGAATTGA 59.169 36.000 30.54 11.24 39.24 2.57
2835 4235 9.683069 AGATGATTGATTTCTTTTGTTGTACAC 57.317 29.630 0.00 0.00 0.00 2.90
2901 4303 8.697507 AAGTATTCTAATGCTTAGGATTTGGG 57.302 34.615 3.97 0.00 39.15 4.12
2966 4370 6.723298 AAACTGGAATCATGTGGTGTTTTA 57.277 33.333 0.00 0.00 0.00 1.52
2967 4371 5.612725 AAACTGGAATCATGTGGTGTTTT 57.387 34.783 0.00 0.00 0.00 2.43
2998 4402 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
2999 4403 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
3000 4404 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
3001 4405 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
3002 4406 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
3003 4407 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
3004 4408 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
3005 4409 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
3006 4410 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
3007 4411 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
3008 4412 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
3009 4413 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
3016 4420 8.096414 CCCTTTTTATCCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
3017 4421 8.313292 TCCCTTTTTATCCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
3018 4422 8.200024 TCCCTTTTTATCCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
3019 4423 7.789202 TCCCTTTTTATCCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
3020 4424 8.260114 ACATCCCTTTTTATCCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
3021 4425 8.378115 ACATCCCTTTTTATCCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
3024 4428 9.713684 AGATACATCCCTTTTTATCCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
3030 4434 9.225682 AGTTCTAGATACATCCCTTTTTATCCA 57.774 33.333 0.00 0.00 0.00 3.41
3076 4480 9.918630 ACTTGTCATCAAAATGAATAAAAGGAG 57.081 29.630 0.00 0.00 43.42 3.69
3084 4488 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
3085 4489 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
3086 4490 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
3087 4491 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
3088 4492 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
3089 4493 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
3090 4494 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
3091 4495 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
3092 4496 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
3093 4497 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
3094 4498 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
3095 4499 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
3096 4500 2.660189 TCCGTCCGGAAATACTTGTC 57.340 50.000 5.23 0.00 42.05 3.18
3106 4510 1.759299 CATACCCCTTCCGTCCGGA 60.759 63.158 0.00 0.00 43.52 5.14
3107 4511 1.332144 TTCATACCCCTTCCGTCCGG 61.332 60.000 0.00 0.00 0.00 5.14
3108 4512 0.104304 CTTCATACCCCTTCCGTCCG 59.896 60.000 0.00 0.00 0.00 4.79
3109 4513 0.468648 CCTTCATACCCCTTCCGTCC 59.531 60.000 0.00 0.00 0.00 4.79
3110 4514 0.468648 CCCTTCATACCCCTTCCGTC 59.531 60.000 0.00 0.00 0.00 4.79
3111 4515 0.043637 TCCCTTCATACCCCTTCCGT 59.956 55.000 0.00 0.00 0.00 4.69
3112 4516 0.468648 GTCCCTTCATACCCCTTCCG 59.531 60.000 0.00 0.00 0.00 4.30
3113 4517 1.490910 CTGTCCCTTCATACCCCTTCC 59.509 57.143 0.00 0.00 0.00 3.46
3114 4518 1.490910 CCTGTCCCTTCATACCCCTTC 59.509 57.143 0.00 0.00 0.00 3.46
3115 4519 1.596496 CCTGTCCCTTCATACCCCTT 58.404 55.000 0.00 0.00 0.00 3.95
3116 4520 0.988678 GCCTGTCCCTTCATACCCCT 60.989 60.000 0.00 0.00 0.00 4.79
3117 4521 1.279025 TGCCTGTCCCTTCATACCCC 61.279 60.000 0.00 0.00 0.00 4.95
3118 4522 0.107165 GTGCCTGTCCCTTCATACCC 60.107 60.000 0.00 0.00 0.00 3.69
3119 4523 0.107165 GGTGCCTGTCCCTTCATACC 60.107 60.000 0.00 0.00 0.00 2.73
3120 4524 0.618458 TGGTGCCTGTCCCTTCATAC 59.382 55.000 0.00 0.00 0.00 2.39
3121 4525 1.367346 TTGGTGCCTGTCCCTTCATA 58.633 50.000 0.00 0.00 0.00 2.15
3122 4526 0.706433 ATTGGTGCCTGTCCCTTCAT 59.294 50.000 0.00 0.00 0.00 2.57
3149 4553 4.095483 GGAAATCACATGTTGCTCTGTAGG 59.905 45.833 0.00 0.00 0.00 3.18
3153 4557 3.119602 CCAGGAAATCACATGTTGCTCTG 60.120 47.826 0.00 0.00 0.00 3.35
3169 4573 4.133820 CACACACACAATTAGTCCAGGAA 58.866 43.478 0.00 0.00 0.00 3.36
3174 4578 4.695455 AGCATACACACACACAATTAGTCC 59.305 41.667 0.00 0.00 0.00 3.85
3207 4611 4.326255 GCTAGCACATGGTGGCTT 57.674 55.556 10.63 0.50 44.84 4.35
3220 4624 5.355350 CCTTCCTGAAACAACCTTATGCTAG 59.645 44.000 0.00 0.00 0.00 3.42
3372 4777 7.230510 TGTGCTTTGGTGTTTATGTCTTTAGAT 59.769 33.333 0.00 0.00 0.00 1.98
3383 4788 2.493675 TGTGCTTGTGCTTTGGTGTTTA 59.506 40.909 0.00 0.00 40.48 2.01
3456 4861 4.318332 TCACCTGTTAGTGAAGCAATCAG 58.682 43.478 0.00 0.00 43.65 2.90


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

AutoCloner maintained by Alex Coulton.