Multiple sequence alignment - TraesCS6D01G232800

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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 TraesCS6D01G232800 chr6D 100.000 2684 0 0 1 2684 326571644 326574327 0.000000e+00 4957
1 TraesCS6D01G232800 chr6D 84.752 282 40 1 1141 1422 326760687 326760965 2.030000e-71 279
2 TraesCS6D01G232800 chr6B 92.995 2027 102 12 498 2489 495744870 495742849 0.000000e+00 2920
3 TraesCS6D01G232800 chr6B 88.211 475 31 6 1 455 495745334 495744865 6.540000e-151 544
4 TraesCS6D01G232800 chr6B 86.822 258 31 1 1165 1422 495543773 495543519 4.370000e-73 285
5 TraesCS6D01G232800 chr6A 93.825 1506 63 9 646 2127 465316177 465317676 0.000000e+00 2239
6 TraesCS6D01G232800 chr6A 92.560 336 20 4 1 335 465301983 465302314 6.720000e-131 477
7 TraesCS6D01G232800 chr6A 85.461 282 38 1 1141 1422 465389763 465390041 9.400000e-75 291
8 TraesCS6D01G232800 chr6A 87.387 222 16 4 2207 2421 465318924 465319140 7.420000e-61 244
9 TraesCS6D01G232800 chr2A 89.273 289 28 1 1135 1423 672265702 672265417 2.540000e-95 359
10 TraesCS6D01G232800 chr2A 88.050 159 16 3 2487 2643 165008144 165008301 4.560000e-43 185
11 TraesCS6D01G232800 chr2D 88.927 289 27 3 1136 1423 527272583 527272299 4.250000e-93 351
12 TraesCS6D01G232800 chr2D 88.755 249 22 3 1165 1413 527004214 527003972 1.560000e-77 300
13 TraesCS6D01G232800 chr2B 88.194 288 31 1 1136 1423 624287325 624287041 9.200000e-90 340
14 TraesCS6D01G232800 chr2B 88.608 158 14 4 2487 2642 110136007 110135852 3.530000e-44 189
15 TraesCS6D01G232800 chr2B 88.050 159 15 4 2487 2643 716284375 716284219 4.560000e-43 185
16 TraesCS6D01G232800 chr1A 88.679 159 16 2 2487 2643 502810723 502810565 2.730000e-45 193
17 TraesCS6D01G232800 chr3B 88.679 159 14 4 2487 2643 799799394 799799238 9.810000e-45 191
18 TraesCS6D01G232800 chr4A 87.349 166 17 4 2481 2644 693235105 693234942 1.270000e-43 187
19 TraesCS6D01G232800 chr4A 87.654 162 17 3 2487 2647 719415954 719416113 4.560000e-43 185
20 TraesCS6D01G232800 chr4A 87.654 162 17 3 2487 2647 720554170 720554011 4.560000e-43 185
21 TraesCS6D01G232800 chr3D 88.125 160 12 6 2487 2643 388779725 388779570 1.640000e-42 183


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 TraesCS6D01G232800 chr6D 326571644 326574327 2683 False 4957.0 4957 100.000 1 2684 1 chr6D.!!$F1 2683
1 TraesCS6D01G232800 chr6B 495742849 495745334 2485 True 1732.0 2920 90.603 1 2489 2 chr6B.!!$R2 2488
2 TraesCS6D01G232800 chr6A 465316177 465319140 2963 False 1241.5 2239 90.606 646 2421 2 chr6A.!!$F3 1775

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
496 517 0.103755 GCGAGGCTGATCACTCATCA 59.896 55.0 12.39 0.0 39.39 3.07 F
853 880 0.179070 TGCGCACCTGACACTACAAA 60.179 50.0 5.66 0.0 0.00 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1528 1567 0.737715 AGCGCGAGGTCAAGAATGTC 60.738 55.0 12.1 0.0 37.07 3.06 R
2664 3919 0.027194 CGACGCTCCAATCAAGCATG 59.973 55.0 0.0 0.0 39.81 4.06 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
34 35 1.145598 CATCAGAGCCGCATGAGGT 59.854 57.895 17.41 3.84 0.00 3.85
53 54 1.193874 GTGGAACAACCGCTAAACTCG 59.806 52.381 0.00 0.00 44.16 4.18
61 62 1.065928 CGCTAAACTCGCGGGATCT 59.934 57.895 15.95 0.00 46.32 2.75
64 65 1.841450 CTAAACTCGCGGGATCTGAC 58.159 55.000 15.95 0.00 0.00 3.51
81 82 3.515502 TCTGACTCCAAATCGATGGACTT 59.484 43.478 3.55 0.00 44.52 3.01
117 122 3.047280 GCGTCCATGGCGTTGTCA 61.047 61.111 23.32 0.00 0.00 3.58
146 151 8.253113 GGAGAAAATGAAGCCAATTCTAAATCA 58.747 33.333 0.00 0.00 38.83 2.57
154 159 4.897670 AGCCAATTCTAAATCAAGGGATGG 59.102 41.667 0.00 0.00 32.92 3.51
183 188 3.194116 GCAAGATGAGAGAAATTTGGGCA 59.806 43.478 0.00 0.00 0.00 5.36
210 215 1.939934 TGCACAACGTGGAAGAAAGAG 59.060 47.619 0.00 0.00 33.64 2.85
211 216 2.210116 GCACAACGTGGAAGAAAGAGA 58.790 47.619 0.00 0.00 33.64 3.10
218 223 3.261897 ACGTGGAAGAAAGAGATGGTGAT 59.738 43.478 0.00 0.00 0.00 3.06
219 224 3.620374 CGTGGAAGAAAGAGATGGTGATG 59.380 47.826 0.00 0.00 0.00 3.07
251 256 5.236478 GTGATGAAAGAGAGGTCGAAAACAA 59.764 40.000 0.00 0.00 0.00 2.83
252 257 5.466728 TGATGAAAGAGAGGTCGAAAACAAG 59.533 40.000 0.00 0.00 0.00 3.16
301 306 1.770294 TGACAAAACCCTTGTGTCCC 58.230 50.000 3.37 0.00 40.79 4.46
305 310 1.138069 CAAAACCCTTGTGTCCCAACC 59.862 52.381 0.00 0.00 0.00 3.77
312 317 1.076350 CTTGTGTCCCAACCCCCAATA 59.924 52.381 0.00 0.00 0.00 1.90
320 325 0.536724 CAACCCCCAATAGCAAAGCC 59.463 55.000 0.00 0.00 0.00 4.35
367 372 8.091449 CACACTAGAACTTCTAAAGATCAAGGT 58.909 37.037 0.00 0.00 33.19 3.50
383 388 3.327757 TCAAGGTGAAGCCATACTTGACT 59.672 43.478 0.00 0.00 41.71 3.41
385 390 4.473477 AGGTGAAGCCATACTTGACTAC 57.527 45.455 0.00 0.00 41.71 2.73
446 467 2.489722 GGCCCATCAGTTTTGTTCTCTC 59.510 50.000 0.00 0.00 0.00 3.20
449 470 3.755378 CCCATCAGTTTTGTTCTCTCCTG 59.245 47.826 0.00 0.00 0.00 3.86
450 471 4.392940 CCATCAGTTTTGTTCTCTCCTGT 58.607 43.478 0.00 0.00 0.00 4.00
451 472 4.823989 CCATCAGTTTTGTTCTCTCCTGTT 59.176 41.667 0.00 0.00 0.00 3.16
452 473 5.278169 CCATCAGTTTTGTTCTCTCCTGTTG 60.278 44.000 0.00 0.00 0.00 3.33
453 474 4.843728 TCAGTTTTGTTCTCTCCTGTTGT 58.156 39.130 0.00 0.00 0.00 3.32
454 475 5.253330 TCAGTTTTGTTCTCTCCTGTTGTT 58.747 37.500 0.00 0.00 0.00 2.83
455 476 5.354234 TCAGTTTTGTTCTCTCCTGTTGTTC 59.646 40.000 0.00 0.00 0.00 3.18
456 477 4.332819 AGTTTTGTTCTCTCCTGTTGTTCG 59.667 41.667 0.00 0.00 0.00 3.95
457 478 3.536956 TTGTTCTCTCCTGTTGTTCGT 57.463 42.857 0.00 0.00 0.00 3.85
458 479 3.536956 TGTTCTCTCCTGTTGTTCGTT 57.463 42.857 0.00 0.00 0.00 3.85
459 480 3.869065 TGTTCTCTCCTGTTGTTCGTTT 58.131 40.909 0.00 0.00 0.00 3.60
460 481 3.869246 TGTTCTCTCCTGTTGTTCGTTTC 59.131 43.478 0.00 0.00 0.00 2.78
461 482 4.120589 GTTCTCTCCTGTTGTTCGTTTCT 58.879 43.478 0.00 0.00 0.00 2.52
462 483 3.978687 TCTCTCCTGTTGTTCGTTTCTC 58.021 45.455 0.00 0.00 0.00 2.87
463 484 3.637229 TCTCTCCTGTTGTTCGTTTCTCT 59.363 43.478 0.00 0.00 0.00 3.10
464 485 3.978687 TCTCCTGTTGTTCGTTTCTCTC 58.021 45.455 0.00 0.00 0.00 3.20
465 486 3.060602 CTCCTGTTGTTCGTTTCTCTCC 58.939 50.000 0.00 0.00 0.00 3.71
466 487 2.143925 CCTGTTGTTCGTTTCTCTCCC 58.856 52.381 0.00 0.00 0.00 4.30
467 488 2.224305 CCTGTTGTTCGTTTCTCTCCCT 60.224 50.000 0.00 0.00 0.00 4.20
468 489 3.467803 CTGTTGTTCGTTTCTCTCCCTT 58.532 45.455 0.00 0.00 0.00 3.95
469 490 3.202906 TGTTGTTCGTTTCTCTCCCTTG 58.797 45.455 0.00 0.00 0.00 3.61
470 491 1.878953 TGTTCGTTTCTCTCCCTTGC 58.121 50.000 0.00 0.00 0.00 4.01
471 492 1.140052 TGTTCGTTTCTCTCCCTTGCA 59.860 47.619 0.00 0.00 0.00 4.08
472 493 1.801178 GTTCGTTTCTCTCCCTTGCAG 59.199 52.381 0.00 0.00 0.00 4.41
473 494 1.338107 TCGTTTCTCTCCCTTGCAGA 58.662 50.000 0.00 0.00 0.00 4.26
474 495 1.691976 TCGTTTCTCTCCCTTGCAGAA 59.308 47.619 0.00 0.00 0.00 3.02
475 496 2.104111 TCGTTTCTCTCCCTTGCAGAAA 59.896 45.455 0.00 0.00 34.47 2.52
476 497 2.481952 CGTTTCTCTCCCTTGCAGAAAG 59.518 50.000 0.00 0.00 36.93 2.62
483 504 2.873288 CTTGCAGAAAGGCGAGGC 59.127 61.111 0.00 0.00 40.86 4.70
484 505 1.673665 CTTGCAGAAAGGCGAGGCT 60.674 57.895 0.00 0.00 40.86 4.58
485 506 1.919956 CTTGCAGAAAGGCGAGGCTG 61.920 60.000 0.00 0.00 40.86 4.85
486 507 2.046892 GCAGAAAGGCGAGGCTGA 60.047 61.111 0.00 0.00 0.00 4.26
487 508 1.451028 GCAGAAAGGCGAGGCTGAT 60.451 57.895 0.00 0.00 0.00 2.90
488 509 1.435408 GCAGAAAGGCGAGGCTGATC 61.435 60.000 0.00 2.52 0.00 2.92
489 510 0.107993 CAGAAAGGCGAGGCTGATCA 60.108 55.000 0.00 0.00 0.00 2.92
490 511 0.107945 AGAAAGGCGAGGCTGATCAC 60.108 55.000 0.00 0.00 0.00 3.06
491 512 0.107945 GAAAGGCGAGGCTGATCACT 60.108 55.000 0.00 0.00 0.00 3.41
492 513 0.107945 AAAGGCGAGGCTGATCACTC 60.108 55.000 0.00 3.73 0.00 3.51
493 514 1.260538 AAGGCGAGGCTGATCACTCA 61.261 55.000 12.39 0.00 33.36 3.41
494 515 1.047596 AGGCGAGGCTGATCACTCAT 61.048 55.000 12.39 0.00 33.36 2.90
495 516 0.599728 GGCGAGGCTGATCACTCATC 60.600 60.000 12.39 4.92 33.36 2.92
496 517 0.103755 GCGAGGCTGATCACTCATCA 59.896 55.000 12.39 0.00 39.39 3.07
527 548 5.055812 GGAAGCTAGTCAATTGATCTCAGG 58.944 45.833 12.12 6.39 0.00 3.86
606 631 3.296854 TCACCTTACCGTATCTGAGCAT 58.703 45.455 0.00 0.00 0.00 3.79
619 644 2.093500 TCTGAGCATGTTAGCCGTGATT 60.093 45.455 0.00 0.00 34.23 2.57
620 645 2.009051 TGAGCATGTTAGCCGTGATTG 58.991 47.619 0.00 0.00 34.23 2.67
751 777 0.250234 TCACATTTCCTCGCCTCCTG 59.750 55.000 0.00 0.00 0.00 3.86
771 797 3.007979 GGGGAACGCAAAAACAAGTAG 57.992 47.619 0.00 0.00 42.57 2.57
772 798 2.619646 GGGGAACGCAAAAACAAGTAGA 59.380 45.455 0.00 0.00 42.57 2.59
807 833 0.790993 TCCCAGTCCCTACCTTGACT 59.209 55.000 0.00 0.00 42.41 3.41
812 838 3.436243 CAGTCCCTACCTTGACTCTCTT 58.564 50.000 0.00 0.00 39.76 2.85
814 840 3.166679 GTCCCTACCTTGACTCTCTTGT 58.833 50.000 0.00 0.00 0.00 3.16
853 880 0.179070 TGCGCACCTGACACTACAAA 60.179 50.000 5.66 0.00 0.00 2.83
917 944 2.479566 AGTGACAAGCATACACCAGG 57.520 50.000 0.00 0.00 35.47 4.45
948 975 1.911293 TTTGAGATTGCGAGCCGTGC 61.911 55.000 0.00 0.00 0.00 5.34
949 976 2.510238 GAGATTGCGAGCCGTGCT 60.510 61.111 0.00 0.00 43.88 4.40
959 986 3.406361 GCCGTGCTCACTGTGTCG 61.406 66.667 7.79 8.61 0.00 4.35
968 995 0.959553 TCACTGTGTCGAGTTCTCCC 59.040 55.000 7.79 0.00 0.00 4.30
1021 1051 4.400961 AGGAGAAGGGTGCGCTGC 62.401 66.667 9.73 0.69 0.00 5.25
1057 1087 4.034258 CCACCACTTGCAGCAGCG 62.034 66.667 0.00 0.00 46.23 5.18
1058 1088 4.034258 CACCACTTGCAGCAGCGG 62.034 66.667 0.00 0.00 46.23 5.52
1439 1478 2.034879 CGCAAATGGACCGAGCACT 61.035 57.895 0.00 0.00 0.00 4.40
1711 1750 1.209383 TCGTGTGACGAGCAGCTAC 59.791 57.895 0.00 0.00 46.73 3.58
1814 1856 3.323979 ACACTGGTAAAATCGACTCCTGT 59.676 43.478 0.00 0.00 0.00 4.00
1832 1874 3.070446 CCTGTGTGGTGTACTAACAAGGA 59.930 47.826 0.00 0.00 37.36 3.36
1958 2000 5.296780 TCTTAAACTTGCTTCTCTGGTGTTG 59.703 40.000 0.00 0.00 0.00 3.33
1973 2015 4.724399 TGGTGTTGGTTGTTCATATGTCT 58.276 39.130 1.90 0.00 0.00 3.41
2083 2139 2.222007 TGTGTGCATTTGCCTGAAAC 57.778 45.000 0.00 0.00 41.18 2.78
2176 2232 2.190578 CAATCCGGAGTCAGGGCC 59.809 66.667 11.34 0.00 0.00 5.80
2211 3452 2.680352 GCCGGTGGAGGAGAGTCA 60.680 66.667 1.90 0.00 0.00 3.41
2255 3496 3.423154 GTTGCTTGGAGGTCGCCG 61.423 66.667 0.00 0.00 0.00 6.46
2259 3500 4.796231 CTTGGAGGTCGCCGACGG 62.796 72.222 10.29 10.29 40.63 4.79
2286 3527 1.376812 GTGCCGGGGTTTAGAGGTG 60.377 63.158 2.18 0.00 0.00 4.00
2287 3528 1.536907 TGCCGGGGTTTAGAGGTGA 60.537 57.895 2.18 0.00 0.00 4.02
2288 3529 0.912487 TGCCGGGGTTTAGAGGTGAT 60.912 55.000 2.18 0.00 0.00 3.06
2458 3713 5.657474 TCTATGAAAACTATCCACACCGTC 58.343 41.667 0.00 0.00 0.00 4.79
2472 3727 2.124983 CGTCACCATGGGAGCCAG 60.125 66.667 18.09 0.00 36.75 4.85
2475 3730 1.229625 TCACCATGGGAGCCAGTCT 60.230 57.895 18.09 0.00 36.75 3.24
2483 3738 1.644337 TGGGAGCCAGTCTTAGAGGTA 59.356 52.381 0.00 0.00 0.00 3.08
2486 3741 2.367486 GAGCCAGTCTTAGAGGTACGT 58.633 52.381 0.00 0.00 0.00 3.57
2489 3744 2.230750 GCCAGTCTTAGAGGTACGTGTT 59.769 50.000 0.00 0.00 0.00 3.32
2490 3745 3.834610 CCAGTCTTAGAGGTACGTGTTG 58.165 50.000 0.00 0.00 0.00 3.33
2491 3746 3.504906 CCAGTCTTAGAGGTACGTGTTGA 59.495 47.826 0.00 0.00 0.00 3.18
2492 3747 4.379603 CCAGTCTTAGAGGTACGTGTTGAG 60.380 50.000 0.00 0.00 0.00 3.02
2493 3748 3.757493 AGTCTTAGAGGTACGTGTTGAGG 59.243 47.826 0.00 0.00 0.00 3.86
2494 3749 3.755378 GTCTTAGAGGTACGTGTTGAGGA 59.245 47.826 0.00 0.00 0.00 3.71
2495 3750 4.217118 GTCTTAGAGGTACGTGTTGAGGAA 59.783 45.833 0.00 0.00 0.00 3.36
2496 3751 4.217118 TCTTAGAGGTACGTGTTGAGGAAC 59.783 45.833 0.00 0.00 0.00 3.62
2497 3752 1.268899 AGAGGTACGTGTTGAGGAACG 59.731 52.381 0.00 0.00 45.15 3.95
2503 3758 2.577300 CGTGTTGAGGAACGTGATTG 57.423 50.000 0.00 0.00 34.49 2.67
2504 3759 1.864711 CGTGTTGAGGAACGTGATTGT 59.135 47.619 0.00 0.00 34.49 2.71
2505 3760 3.054166 CGTGTTGAGGAACGTGATTGTA 58.946 45.455 0.00 0.00 34.49 2.41
2506 3761 3.678072 CGTGTTGAGGAACGTGATTGTAT 59.322 43.478 0.00 0.00 34.49 2.29
2507 3762 4.151689 CGTGTTGAGGAACGTGATTGTATT 59.848 41.667 0.00 0.00 34.49 1.89
2508 3763 5.346551 CGTGTTGAGGAACGTGATTGTATTA 59.653 40.000 0.00 0.00 34.49 0.98
2509 3764 6.453791 CGTGTTGAGGAACGTGATTGTATTAG 60.454 42.308 0.00 0.00 34.49 1.73
2510 3765 6.588756 GTGTTGAGGAACGTGATTGTATTAGA 59.411 38.462 0.00 0.00 34.49 2.10
2511 3766 7.117236 GTGTTGAGGAACGTGATTGTATTAGAA 59.883 37.037 0.00 0.00 34.49 2.10
2512 3767 7.658167 TGTTGAGGAACGTGATTGTATTAGAAA 59.342 33.333 0.00 0.00 34.49 2.52
2513 3768 8.500773 GTTGAGGAACGTGATTGTATTAGAAAA 58.499 33.333 0.00 0.00 0.00 2.29
2514 3769 8.786826 TGAGGAACGTGATTGTATTAGAAAAT 57.213 30.769 0.00 0.00 0.00 1.82
2515 3770 9.878667 TGAGGAACGTGATTGTATTAGAAAATA 57.121 29.630 0.00 0.00 0.00 1.40
2541 3796 7.698506 AGGGTAAACTAAAAAGTATTCTGGC 57.301 36.000 0.00 0.00 0.00 4.85
2542 3797 7.467650 AGGGTAAACTAAAAAGTATTCTGGCT 58.532 34.615 0.00 0.00 0.00 4.75
2543 3798 7.948447 AGGGTAAACTAAAAAGTATTCTGGCTT 59.052 33.333 0.00 0.00 0.00 4.35
2544 3799 8.027189 GGGTAAACTAAAAAGTATTCTGGCTTG 58.973 37.037 0.00 0.00 0.00 4.01
2545 3800 8.573885 GGTAAACTAAAAAGTATTCTGGCTTGT 58.426 33.333 0.00 0.00 0.00 3.16
2546 3801 9.608617 GTAAACTAAAAAGTATTCTGGCTTGTC 57.391 33.333 0.00 0.00 0.00 3.18
2547 3802 8.465273 AAACTAAAAAGTATTCTGGCTTGTCT 57.535 30.769 0.00 0.00 0.00 3.41
2548 3803 8.465273 AACTAAAAAGTATTCTGGCTTGTCTT 57.535 30.769 0.00 0.00 0.00 3.01
2549 3804 7.875971 ACTAAAAAGTATTCTGGCTTGTCTTG 58.124 34.615 0.00 0.00 0.00 3.02
2550 3805 6.715347 AAAAAGTATTCTGGCTTGTCTTGT 57.285 33.333 0.00 0.00 0.00 3.16
2551 3806 7.817418 AAAAAGTATTCTGGCTTGTCTTGTA 57.183 32.000 0.00 0.00 0.00 2.41
2552 3807 8.409358 AAAAAGTATTCTGGCTTGTCTTGTAT 57.591 30.769 0.00 0.00 0.00 2.29
2553 3808 8.409358 AAAAGTATTCTGGCTTGTCTTGTATT 57.591 30.769 0.00 0.00 0.00 1.89
2554 3809 7.617041 AAGTATTCTGGCTTGTCTTGTATTC 57.383 36.000 0.00 0.00 0.00 1.75
2555 3810 6.116126 AGTATTCTGGCTTGTCTTGTATTCC 58.884 40.000 0.00 0.00 0.00 3.01
2556 3811 4.365514 TTCTGGCTTGTCTTGTATTCCA 57.634 40.909 0.00 0.00 0.00 3.53
2557 3812 4.365514 TCTGGCTTGTCTTGTATTCCAA 57.634 40.909 0.00 0.00 0.00 3.53
2558 3813 4.724399 TCTGGCTTGTCTTGTATTCCAAA 58.276 39.130 0.00 0.00 31.20 3.28
2559 3814 5.324409 TCTGGCTTGTCTTGTATTCCAAAT 58.676 37.500 0.00 0.00 31.20 2.32
2560 3815 6.480763 TCTGGCTTGTCTTGTATTCCAAATA 58.519 36.000 0.00 0.00 31.20 1.40
2561 3816 6.599244 TCTGGCTTGTCTTGTATTCCAAATAG 59.401 38.462 0.00 0.00 31.20 1.73
2562 3817 6.480763 TGGCTTGTCTTGTATTCCAAATAGA 58.519 36.000 0.00 0.00 31.20 1.98
2563 3818 7.118723 TGGCTTGTCTTGTATTCCAAATAGAT 58.881 34.615 0.00 0.00 31.20 1.98
2564 3819 7.283127 TGGCTTGTCTTGTATTCCAAATAGATC 59.717 37.037 0.00 0.00 31.20 2.75
2565 3820 7.283127 GGCTTGTCTTGTATTCCAAATAGATCA 59.717 37.037 0.00 0.00 31.20 2.92
2566 3821 8.844244 GCTTGTCTTGTATTCCAAATAGATCAT 58.156 33.333 0.00 0.00 31.20 2.45
2568 3823 9.685276 TTGTCTTGTATTCCAAATAGATCATGT 57.315 29.630 0.00 0.00 31.20 3.21
2589 3844 8.630037 TCATGTACTTCTATATATATGCCCACG 58.370 37.037 5.44 0.00 0.00 4.94
2590 3845 7.342769 TGTACTTCTATATATATGCCCACGG 57.657 40.000 5.44 0.00 0.00 4.94
2591 3846 5.871396 ACTTCTATATATATGCCCACGGG 57.129 43.478 5.44 0.00 38.57 5.28
2601 3856 2.361610 CCCACGGGCTCAAGCAAT 60.362 61.111 4.13 0.00 44.36 3.56
2602 3857 1.077787 CCCACGGGCTCAAGCAATA 60.078 57.895 4.13 0.00 44.36 1.90
2603 3858 0.679640 CCCACGGGCTCAAGCAATAA 60.680 55.000 4.13 0.00 44.36 1.40
2604 3859 1.173043 CCACGGGCTCAAGCAATAAA 58.827 50.000 4.13 0.00 44.36 1.40
2605 3860 1.543802 CCACGGGCTCAAGCAATAAAA 59.456 47.619 4.13 0.00 44.36 1.52
2606 3861 2.595386 CACGGGCTCAAGCAATAAAAC 58.405 47.619 4.13 0.00 44.36 2.43
2607 3862 1.199097 ACGGGCTCAAGCAATAAAACG 59.801 47.619 4.13 0.00 44.36 3.60
2608 3863 1.466950 CGGGCTCAAGCAATAAAACGA 59.533 47.619 4.13 0.00 44.36 3.85
2609 3864 2.095466 CGGGCTCAAGCAATAAAACGAA 60.095 45.455 4.13 0.00 44.36 3.85
2610 3865 3.242518 GGGCTCAAGCAATAAAACGAAC 58.757 45.455 4.13 0.00 44.36 3.95
2611 3866 2.908626 GGCTCAAGCAATAAAACGAACG 59.091 45.455 4.13 0.00 44.36 3.95
2612 3867 3.364565 GGCTCAAGCAATAAAACGAACGA 60.365 43.478 4.13 0.00 44.36 3.85
2613 3868 4.403453 GCTCAAGCAATAAAACGAACGAT 58.597 39.130 0.14 0.00 41.59 3.73
2614 3869 4.851558 GCTCAAGCAATAAAACGAACGATT 59.148 37.500 0.14 0.00 41.59 3.34
2615 3870 5.002561 GCTCAAGCAATAAAACGAACGATTC 59.997 40.000 0.14 0.00 41.59 2.52
2616 3871 5.387279 TCAAGCAATAAAACGAACGATTCC 58.613 37.500 0.14 0.00 0.00 3.01
2617 3872 5.049336 TCAAGCAATAAAACGAACGATTCCA 60.049 36.000 0.14 0.00 0.00 3.53
2618 3873 5.560966 AGCAATAAAACGAACGATTCCAT 57.439 34.783 0.14 0.00 0.00 3.41
2619 3874 5.569413 AGCAATAAAACGAACGATTCCATC 58.431 37.500 0.14 0.00 0.00 3.51
2620 3875 5.123186 AGCAATAAAACGAACGATTCCATCA 59.877 36.000 0.14 0.00 0.00 3.07
2621 3876 5.797934 GCAATAAAACGAACGATTCCATCAA 59.202 36.000 0.14 0.00 0.00 2.57
2622 3877 6.472163 GCAATAAAACGAACGATTCCATCAAT 59.528 34.615 0.14 0.00 0.00 2.57
2623 3878 7.009174 GCAATAAAACGAACGATTCCATCAATT 59.991 33.333 0.14 0.00 0.00 2.32
2624 3879 8.523464 CAATAAAACGAACGATTCCATCAATTC 58.477 33.333 0.14 0.00 0.00 2.17
2625 3880 4.616181 AACGAACGATTCCATCAATTCC 57.384 40.909 0.14 0.00 0.00 3.01
2626 3881 3.873910 ACGAACGATTCCATCAATTCCT 58.126 40.909 0.14 0.00 0.00 3.36
2627 3882 3.871594 ACGAACGATTCCATCAATTCCTC 59.128 43.478 0.14 0.00 0.00 3.71
2628 3883 4.122776 CGAACGATTCCATCAATTCCTCT 58.877 43.478 0.00 0.00 0.00 3.69
2629 3884 4.210120 CGAACGATTCCATCAATTCCTCTC 59.790 45.833 0.00 0.00 0.00 3.20
2630 3885 5.363939 GAACGATTCCATCAATTCCTCTCT 58.636 41.667 0.00 0.00 0.00 3.10
2631 3886 4.954875 ACGATTCCATCAATTCCTCTCTC 58.045 43.478 0.00 0.00 0.00 3.20
2632 3887 4.653341 ACGATTCCATCAATTCCTCTCTCT 59.347 41.667 0.00 0.00 0.00 3.10
2633 3888 5.221422 ACGATTCCATCAATTCCTCTCTCTC 60.221 44.000 0.00 0.00 0.00 3.20
2634 3889 5.010922 CGATTCCATCAATTCCTCTCTCTCT 59.989 44.000 0.00 0.00 0.00 3.10
2635 3890 6.462768 CGATTCCATCAATTCCTCTCTCTCTT 60.463 42.308 0.00 0.00 0.00 2.85
2636 3891 6.633325 TTCCATCAATTCCTCTCTCTCTTT 57.367 37.500 0.00 0.00 0.00 2.52
2637 3892 6.232581 TCCATCAATTCCTCTCTCTCTTTC 57.767 41.667 0.00 0.00 0.00 2.62
2638 3893 5.963253 TCCATCAATTCCTCTCTCTCTTTCT 59.037 40.000 0.00 0.00 0.00 2.52
2639 3894 7.128751 TCCATCAATTCCTCTCTCTCTTTCTA 58.871 38.462 0.00 0.00 0.00 2.10
2640 3895 7.621285 TCCATCAATTCCTCTCTCTCTTTCTAA 59.379 37.037 0.00 0.00 0.00 2.10
2641 3896 7.710475 CCATCAATTCCTCTCTCTCTTTCTAAC 59.290 40.741 0.00 0.00 0.00 2.34
2642 3897 7.782897 TCAATTCCTCTCTCTCTTTCTAACA 57.217 36.000 0.00 0.00 0.00 2.41
2643 3898 7.835822 TCAATTCCTCTCTCTCTTTCTAACAG 58.164 38.462 0.00 0.00 0.00 3.16
2644 3899 7.453126 TCAATTCCTCTCTCTCTTTCTAACAGT 59.547 37.037 0.00 0.00 0.00 3.55
2645 3900 8.744652 CAATTCCTCTCTCTCTTTCTAACAGTA 58.255 37.037 0.00 0.00 0.00 2.74
2646 3901 7.690952 TTCCTCTCTCTCTTTCTAACAGTAC 57.309 40.000 0.00 0.00 0.00 2.73
2647 3902 5.875910 TCCTCTCTCTCTTTCTAACAGTACG 59.124 44.000 0.00 0.00 0.00 3.67
2648 3903 5.065474 CCTCTCTCTCTTTCTAACAGTACGG 59.935 48.000 0.00 0.00 0.00 4.02
2649 3904 4.942483 TCTCTCTCTTTCTAACAGTACGGG 59.058 45.833 0.00 0.00 0.00 5.28
2650 3905 4.660168 TCTCTCTTTCTAACAGTACGGGT 58.340 43.478 0.00 0.00 0.00 5.28
2651 3906 5.809001 TCTCTCTTTCTAACAGTACGGGTA 58.191 41.667 0.00 0.00 0.00 3.69
2652 3907 6.240894 TCTCTCTTTCTAACAGTACGGGTAA 58.759 40.000 0.00 0.00 0.00 2.85
2653 3908 6.150140 TCTCTCTTTCTAACAGTACGGGTAAC 59.850 42.308 0.00 0.00 0.00 2.50
2654 3909 5.769662 TCTCTTTCTAACAGTACGGGTAACA 59.230 40.000 0.00 0.00 39.74 2.41
2655 3910 6.265196 TCTCTTTCTAACAGTACGGGTAACAA 59.735 38.462 0.00 0.00 39.74 2.83
2656 3911 6.215845 TCTTTCTAACAGTACGGGTAACAAC 58.784 40.000 0.00 0.00 39.74 3.32
2657 3912 5.528043 TTCTAACAGTACGGGTAACAACA 57.472 39.130 0.00 0.00 39.74 3.33
2658 3913 5.125100 TCTAACAGTACGGGTAACAACAG 57.875 43.478 0.00 0.00 39.74 3.16
2659 3914 2.159327 ACAGTACGGGTAACAACAGC 57.841 50.000 0.00 0.00 39.74 4.40
2660 3915 1.065358 CAGTACGGGTAACAACAGCG 58.935 55.000 0.00 0.00 39.74 5.18
2661 3916 0.668401 AGTACGGGTAACAACAGCGC 60.668 55.000 0.00 0.00 39.74 5.92
2662 3917 0.945265 GTACGGGTAACAACAGCGCA 60.945 55.000 11.47 0.00 39.74 6.09
2663 3918 0.037139 TACGGGTAACAACAGCGCAT 60.037 50.000 11.47 0.00 39.74 4.73
2664 3919 1.296056 ACGGGTAACAACAGCGCATC 61.296 55.000 11.47 0.00 39.74 3.91
2665 3920 1.295357 CGGGTAACAACAGCGCATCA 61.295 55.000 11.47 0.00 39.74 3.07
2666 3921 1.094785 GGGTAACAACAGCGCATCAT 58.905 50.000 11.47 0.00 39.74 2.45
2667 3922 1.202177 GGGTAACAACAGCGCATCATG 60.202 52.381 11.47 5.49 39.74 3.07
2668 3923 1.538276 GTAACAACAGCGCATCATGC 58.462 50.000 11.47 0.00 40.69 4.06
2669 3924 1.131126 GTAACAACAGCGCATCATGCT 59.869 47.619 11.47 0.00 42.25 3.79
2670 3925 0.599558 AACAACAGCGCATCATGCTT 59.400 45.000 11.47 0.00 42.25 3.91
2671 3926 0.109458 ACAACAGCGCATCATGCTTG 60.109 50.000 11.47 7.89 42.25 4.01
2672 3927 0.169451 CAACAGCGCATCATGCTTGA 59.831 50.000 11.47 4.57 42.25 3.02
2673 3928 1.100510 AACAGCGCATCATGCTTGAT 58.899 45.000 11.47 9.20 43.51 2.57
2674 3929 1.100510 ACAGCGCATCATGCTTGATT 58.899 45.000 11.47 0.00 40.70 2.57
2675 3930 1.202256 ACAGCGCATCATGCTTGATTG 60.202 47.619 11.47 10.54 40.70 2.67
2676 3931 0.384309 AGCGCATCATGCTTGATTGG 59.616 50.000 11.47 8.42 40.70 3.16
2677 3932 0.382873 GCGCATCATGCTTGATTGGA 59.617 50.000 12.15 0.00 40.70 3.53
2678 3933 1.599667 GCGCATCATGCTTGATTGGAG 60.600 52.381 12.15 5.95 40.70 3.86
2679 3934 1.599667 CGCATCATGCTTGATTGGAGC 60.600 52.381 12.15 11.34 40.70 4.70
2680 3935 1.599667 GCATCATGCTTGATTGGAGCG 60.600 52.381 12.15 2.28 40.70 5.03
2681 3936 1.674441 CATCATGCTTGATTGGAGCGT 59.326 47.619 12.15 0.00 40.70 5.07
2682 3937 1.372582 TCATGCTTGATTGGAGCGTC 58.627 50.000 0.00 0.00 43.02 5.19
2683 3938 0.027194 CATGCTTGATTGGAGCGTCG 59.973 55.000 0.00 0.00 43.02 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.300465 CGGCTCTGATGGATGACCG 60.300 63.158 0.00 0.00 39.42 4.79
34 35 1.504359 CGAGTTTAGCGGTTGTTCCA 58.496 50.000 0.00 0.00 35.57 3.53
36 37 3.652018 GCGAGTTTAGCGGTTGTTC 57.348 52.632 0.00 0.00 0.00 3.18
53 54 1.587547 GATTTGGAGTCAGATCCCGC 58.412 55.000 0.00 0.00 38.72 6.13
61 62 3.599343 CAAGTCCATCGATTTGGAGTCA 58.401 45.455 14.38 0.00 46.55 3.41
102 107 2.870372 GCTGACAACGCCATGGAC 59.130 61.111 18.40 5.97 0.00 4.02
103 108 2.741985 CGCTGACAACGCCATGGA 60.742 61.111 18.40 0.00 0.00 3.41
104 109 3.803082 CCGCTGACAACGCCATGG 61.803 66.667 7.63 7.63 0.00 3.66
105 110 2.741985 TCCGCTGACAACGCCATG 60.742 61.111 0.00 0.00 0.00 3.66
111 116 3.814945 CTTCATTTTCTCCGCTGACAAC 58.185 45.455 0.00 0.00 0.00 3.32
117 122 1.909700 TTGGCTTCATTTTCTCCGCT 58.090 45.000 0.00 0.00 0.00 5.52
146 151 2.484287 CTTGCACGACCCCATCCCTT 62.484 60.000 0.00 0.00 0.00 3.95
154 159 0.532573 TCTCTCATCTTGCACGACCC 59.467 55.000 0.00 0.00 0.00 4.46
183 188 3.818210 TCTTCCACGTTGTGCAATATGTT 59.182 39.130 0.00 0.00 31.34 2.71
194 199 3.187227 CACCATCTCTTTCTTCCACGTTG 59.813 47.826 0.00 0.00 0.00 4.10
210 215 1.833630 TCACCAGAGTCCATCACCATC 59.166 52.381 0.00 0.00 0.00 3.51
211 216 1.956869 TCACCAGAGTCCATCACCAT 58.043 50.000 0.00 0.00 0.00 3.55
218 223 3.510459 TCTCTTTCATCACCAGAGTCCA 58.490 45.455 0.00 0.00 36.27 4.02
219 224 3.118811 CCTCTCTTTCATCACCAGAGTCC 60.119 52.174 0.00 0.00 36.27 3.85
251 256 4.333372 CACCAATCTTGCAAACTTTTTGCT 59.667 37.500 20.94 1.99 45.13 3.91
252 257 4.496175 CCACCAATCTTGCAAACTTTTTGC 60.496 41.667 15.22 15.22 45.11 3.68
267 272 5.696270 GGTTTTGTCAAATCTTCCACCAATC 59.304 40.000 8.95 0.00 0.00 2.67
272 277 4.937201 AGGGTTTTGTCAAATCTTCCAC 57.063 40.909 0.00 0.00 0.00 4.02
301 306 0.536724 GGCTTTGCTATTGGGGGTTG 59.463 55.000 0.00 0.00 0.00 3.77
305 310 2.127232 CCCGGCTTTGCTATTGGGG 61.127 63.158 0.00 0.00 32.85 4.96
320 325 2.177580 AGACAACAACGTGTGCCCG 61.178 57.895 0.00 0.00 0.00 6.13
446 467 2.143925 GGGAGAGAAACGAACAACAGG 58.856 52.381 0.00 0.00 0.00 4.00
449 470 2.031944 GCAAGGGAGAGAAACGAACAAC 60.032 50.000 0.00 0.00 0.00 3.32
450 471 2.218603 GCAAGGGAGAGAAACGAACAA 58.781 47.619 0.00 0.00 0.00 2.83
451 472 1.140052 TGCAAGGGAGAGAAACGAACA 59.860 47.619 0.00 0.00 0.00 3.18
452 473 1.801178 CTGCAAGGGAGAGAAACGAAC 59.199 52.381 0.00 0.00 0.00 3.95
453 474 1.691976 TCTGCAAGGGAGAGAAACGAA 59.308 47.619 0.00 0.00 0.00 3.85
454 475 1.338107 TCTGCAAGGGAGAGAAACGA 58.662 50.000 0.00 0.00 0.00 3.85
455 476 2.169832 TTCTGCAAGGGAGAGAAACG 57.830 50.000 0.00 0.00 0.00 3.60
466 487 1.673665 AGCCTCGCCTTTCTGCAAG 60.674 57.895 0.00 0.00 0.00 4.01
467 488 1.968017 CAGCCTCGCCTTTCTGCAA 60.968 57.895 0.00 0.00 0.00 4.08
468 489 2.189191 ATCAGCCTCGCCTTTCTGCA 62.189 55.000 0.00 0.00 0.00 4.41
469 490 1.435408 GATCAGCCTCGCCTTTCTGC 61.435 60.000 0.00 0.00 0.00 4.26
470 491 0.107993 TGATCAGCCTCGCCTTTCTG 60.108 55.000 0.00 0.00 0.00 3.02
471 492 0.107945 GTGATCAGCCTCGCCTTTCT 60.108 55.000 0.00 0.00 0.00 2.52
472 493 0.107945 AGTGATCAGCCTCGCCTTTC 60.108 55.000 0.00 0.00 0.00 2.62
473 494 0.107945 GAGTGATCAGCCTCGCCTTT 60.108 55.000 0.00 0.00 0.00 3.11
474 495 1.260538 TGAGTGATCAGCCTCGCCTT 61.261 55.000 0.00 0.00 0.00 4.35
475 496 1.047596 ATGAGTGATCAGCCTCGCCT 61.048 55.000 0.00 0.00 0.00 5.52
476 497 0.599728 GATGAGTGATCAGCCTCGCC 60.600 60.000 0.00 0.00 0.00 5.54
477 498 0.103755 TGATGAGTGATCAGCCTCGC 59.896 55.000 0.00 0.00 36.06 5.03
484 505 3.008266 TCCAAGCAACTGATGAGTGATCA 59.992 43.478 0.00 0.00 38.87 2.92
485 506 3.603532 TCCAAGCAACTGATGAGTGATC 58.396 45.455 0.00 0.00 30.61 2.92
486 507 3.708403 TCCAAGCAACTGATGAGTGAT 57.292 42.857 0.00 0.00 30.61 3.06
487 508 3.405831 CTTCCAAGCAACTGATGAGTGA 58.594 45.455 0.00 0.00 30.61 3.41
488 509 3.826236 CTTCCAAGCAACTGATGAGTG 57.174 47.619 0.00 0.00 30.61 3.51
501 522 6.111382 TGAGATCAATTGACTAGCTTCCAAG 58.889 40.000 11.07 0.00 0.00 3.61
527 548 1.468736 GCACGTAGTACTGTACAGGGC 60.469 57.143 26.12 17.41 41.61 5.19
574 595 2.152016 GGTAAGGTGAACTCAACTGCC 58.848 52.381 0.00 0.82 44.43 4.85
606 631 3.786516 TCGATACAATCACGGCTAACA 57.213 42.857 0.00 0.00 0.00 2.41
619 644 1.536072 GCGGCTGTGAGAATCGATACA 60.536 52.381 0.00 0.00 38.61 2.29
620 645 1.132588 GCGGCTGTGAGAATCGATAC 58.867 55.000 0.00 0.00 38.61 2.24
751 777 2.619646 TCTACTTGTTTTTGCGTTCCCC 59.380 45.455 0.00 0.00 0.00 4.81
771 797 2.094390 TGGGAGTGCAACGTGTATACTC 60.094 50.000 4.17 11.74 45.86 2.59
772 798 1.897133 TGGGAGTGCAACGTGTATACT 59.103 47.619 4.17 0.00 45.86 2.12
812 838 7.851963 GCGCAACGGATTAGTATTAATTTAACA 59.148 33.333 0.30 0.00 29.67 2.41
814 840 7.851963 GTGCGCAACGGATTAGTATTAATTTAA 59.148 33.333 14.00 0.00 29.67 1.52
853 880 7.570132 AGAGTGAGCGAGATATATACTGGTAT 58.430 38.462 0.00 0.00 0.00 2.73
948 975 1.068194 GGGAGAACTCGACACAGTGAG 60.068 57.143 7.81 0.75 38.21 3.51
949 976 0.959553 GGGAGAACTCGACACAGTGA 59.040 55.000 7.81 0.00 0.00 3.41
959 986 0.325272 GGTGGTTCTGGGGAGAACTC 59.675 60.000 13.22 7.96 45.34 3.01
968 995 1.528309 GTGGTGGTGGTGGTTCTGG 60.528 63.158 0.00 0.00 0.00 3.86
1030 1060 1.462238 AAGTGGTGGAGGAGCTGGT 60.462 57.895 0.00 0.00 0.00 4.00
1035 1065 1.673665 GCTGCAAGTGGTGGAGGAG 60.674 63.158 0.00 0.00 45.47 3.69
1080 1110 2.127496 GAAGACGACGTCGCGACA 60.127 61.111 35.92 0.65 44.43 4.35
1233 1272 2.002127 CCAGATGCGCGACTTCTTC 58.998 57.895 12.10 0.00 30.62 2.87
1524 1563 1.668919 GCGAGGTCAAGAATGTCGTCA 60.669 52.381 0.00 0.00 31.73 4.35
1528 1567 0.737715 AGCGCGAGGTCAAGAATGTC 60.738 55.000 12.10 0.00 37.07 3.06
1596 1635 2.286008 TGAGTACGCATCATACGTCGAC 60.286 50.000 5.18 5.18 43.88 4.20
1814 1856 4.162698 AGTTGTCCTTGTTAGTACACCACA 59.837 41.667 0.00 0.00 32.98 4.17
1903 1945 6.939730 TGGCACAAATCAAGATGTAAAGTAGA 59.060 34.615 0.00 0.00 31.92 2.59
1916 1958 7.230510 AGTTTAAGAGTATGTGGCACAAATCAA 59.769 33.333 25.95 10.72 44.16 2.57
1958 2000 8.723942 AAATAGACTCAGACATATGAACAACC 57.276 34.615 10.38 0.00 0.00 3.77
1973 2015 1.416401 GCGGATGGGGAAATAGACTCA 59.584 52.381 0.00 0.00 0.00 3.41
2083 2139 1.341531 AGCGATCAACCCTAATCGGAG 59.658 52.381 6.85 0.00 43.75 4.63
2118 2174 1.739562 GCACTTCCGTCTCTGCCTG 60.740 63.158 0.00 0.00 0.00 4.85
2146 2202 2.735772 GGATTGCTCCTGGCTCGGA 61.736 63.158 0.00 0.00 42.39 4.55
2160 2216 3.470888 CGGCCCTGACTCCGGATT 61.471 66.667 3.57 0.00 41.82 3.01
2193 2249 3.827898 GACTCTCCTCCACCGGCG 61.828 72.222 0.00 0.00 0.00 6.46
2196 2252 1.034838 CCTCTGACTCTCCTCCACCG 61.035 65.000 0.00 0.00 0.00 4.94
2211 3452 2.580601 CCCGAACCCGTCAACCTCT 61.581 63.158 0.00 0.00 0.00 3.69
2238 3479 3.423154 CGGCGACCTCCAAGCAAC 61.423 66.667 0.00 0.00 0.00 4.17
2255 3496 3.195698 GGCACAATCTCCGCCGTC 61.196 66.667 0.00 0.00 35.79 4.79
2353 3596 2.895372 GCCTATTGTCGCCACCCG 60.895 66.667 0.00 0.00 38.61 5.28
2411 3664 8.661345 AGATTTAAGTGGGTAGTTTCTTCTTCT 58.339 33.333 0.00 0.00 0.00 2.85
2447 3702 1.299648 CCATGGTGACGGTGTGGAT 59.700 57.895 2.57 0.00 31.59 3.41
2448 3703 2.747022 CCATGGTGACGGTGTGGA 59.253 61.111 2.57 0.00 31.59 4.02
2458 3713 0.911769 TAAGACTGGCTCCCATGGTG 59.088 55.000 11.73 4.22 30.82 4.17
2472 3727 3.755378 TCCTCAACACGTACCTCTAAGAC 59.245 47.826 0.00 0.00 0.00 3.01
2475 3730 3.058016 CGTTCCTCAACACGTACCTCTAA 60.058 47.826 0.00 0.00 32.14 2.10
2486 3741 6.693466 TCTAATACAATCACGTTCCTCAACA 58.307 36.000 0.00 0.00 32.14 3.33
2489 3744 8.786826 ATTTTCTAATACAATCACGTTCCTCA 57.213 30.769 0.00 0.00 0.00 3.86
2515 3770 9.404848 GCCAGAATACTTTTTAGTTTACCCTAT 57.595 33.333 0.00 0.00 0.00 2.57
2516 3771 8.608598 AGCCAGAATACTTTTTAGTTTACCCTA 58.391 33.333 0.00 0.00 0.00 3.53
2517 3772 7.467650 AGCCAGAATACTTTTTAGTTTACCCT 58.532 34.615 0.00 0.00 0.00 4.34
2518 3773 7.698506 AGCCAGAATACTTTTTAGTTTACCC 57.301 36.000 0.00 0.00 0.00 3.69
2519 3774 8.573885 ACAAGCCAGAATACTTTTTAGTTTACC 58.426 33.333 0.00 0.00 0.00 2.85
2520 3775 9.608617 GACAAGCCAGAATACTTTTTAGTTTAC 57.391 33.333 0.00 0.00 0.00 2.01
2521 3776 9.569122 AGACAAGCCAGAATACTTTTTAGTTTA 57.431 29.630 0.00 0.00 0.00 2.01
2522 3777 8.465273 AGACAAGCCAGAATACTTTTTAGTTT 57.535 30.769 0.00 0.00 0.00 2.66
2523 3778 8.352942 CAAGACAAGCCAGAATACTTTTTAGTT 58.647 33.333 0.00 0.00 0.00 2.24
2524 3779 7.502561 ACAAGACAAGCCAGAATACTTTTTAGT 59.497 33.333 0.00 0.00 0.00 2.24
2525 3780 7.875971 ACAAGACAAGCCAGAATACTTTTTAG 58.124 34.615 0.00 0.00 0.00 1.85
2526 3781 7.817418 ACAAGACAAGCCAGAATACTTTTTA 57.183 32.000 0.00 0.00 0.00 1.52
2527 3782 6.715347 ACAAGACAAGCCAGAATACTTTTT 57.285 33.333 0.00 0.00 0.00 1.94
2528 3783 8.409358 AATACAAGACAAGCCAGAATACTTTT 57.591 30.769 0.00 0.00 0.00 2.27
2529 3784 7.121315 GGAATACAAGACAAGCCAGAATACTTT 59.879 37.037 0.00 0.00 0.00 2.66
2530 3785 6.599638 GGAATACAAGACAAGCCAGAATACTT 59.400 38.462 0.00 0.00 0.00 2.24
2531 3786 6.116126 GGAATACAAGACAAGCCAGAATACT 58.884 40.000 0.00 0.00 0.00 2.12
2532 3787 5.880332 TGGAATACAAGACAAGCCAGAATAC 59.120 40.000 0.00 0.00 0.00 1.89
2533 3788 6.061022 TGGAATACAAGACAAGCCAGAATA 57.939 37.500 0.00 0.00 0.00 1.75
2534 3789 4.922206 TGGAATACAAGACAAGCCAGAAT 58.078 39.130 0.00 0.00 0.00 2.40
2535 3790 4.365514 TGGAATACAAGACAAGCCAGAA 57.634 40.909 0.00 0.00 0.00 3.02
2536 3791 4.365514 TTGGAATACAAGACAAGCCAGA 57.634 40.909 0.00 0.00 33.18 3.86
2537 3792 5.649782 ATTTGGAATACAAGACAAGCCAG 57.350 39.130 0.00 0.00 40.82 4.85
2538 3793 6.480763 TCTATTTGGAATACAAGACAAGCCA 58.519 36.000 0.00 0.00 40.82 4.75
2539 3794 7.283127 TGATCTATTTGGAATACAAGACAAGCC 59.717 37.037 0.00 0.00 40.82 4.35
2540 3795 8.213518 TGATCTATTTGGAATACAAGACAAGC 57.786 34.615 0.00 0.00 40.82 4.01
2542 3797 9.685276 ACATGATCTATTTGGAATACAAGACAA 57.315 29.630 0.00 0.00 40.82 3.18
2563 3818 8.630037 CGTGGGCATATATATAGAAGTACATGA 58.370 37.037 0.00 0.00 0.00 3.07
2564 3819 7.867909 CCGTGGGCATATATATAGAAGTACATG 59.132 40.741 0.00 0.00 0.00 3.21
2565 3820 7.015292 CCCGTGGGCATATATATAGAAGTACAT 59.985 40.741 0.00 0.00 0.00 2.29
2566 3821 6.322969 CCCGTGGGCATATATATAGAAGTACA 59.677 42.308 0.00 0.00 0.00 2.90
2567 3822 6.746120 CCCGTGGGCATATATATAGAAGTAC 58.254 44.000 0.00 0.00 0.00 2.73
2568 3823 6.971726 CCCGTGGGCATATATATAGAAGTA 57.028 41.667 0.00 0.00 0.00 2.24
2569 3824 5.871396 CCCGTGGGCATATATATAGAAGT 57.129 43.478 0.00 0.00 0.00 3.01
2584 3839 0.679640 TTATTGCTTGAGCCCGTGGG 60.680 55.000 0.00 0.00 41.18 4.61
2585 3840 1.173043 TTTATTGCTTGAGCCCGTGG 58.827 50.000 0.00 0.00 41.18 4.94
2586 3841 2.595386 GTTTTATTGCTTGAGCCCGTG 58.405 47.619 0.00 0.00 41.18 4.94
2587 3842 1.199097 CGTTTTATTGCTTGAGCCCGT 59.801 47.619 0.00 0.00 41.18 5.28
2588 3843 1.466950 TCGTTTTATTGCTTGAGCCCG 59.533 47.619 0.00 0.00 41.18 6.13
2589 3844 3.242518 GTTCGTTTTATTGCTTGAGCCC 58.757 45.455 0.00 0.00 41.18 5.19
2590 3845 2.908626 CGTTCGTTTTATTGCTTGAGCC 59.091 45.455 0.00 0.00 41.18 4.70
2591 3846 3.805823 TCGTTCGTTTTATTGCTTGAGC 58.194 40.909 0.00 0.00 42.50 4.26
2592 3847 5.508224 GGAATCGTTCGTTTTATTGCTTGAG 59.492 40.000 0.00 0.00 0.00 3.02
2593 3848 5.049336 TGGAATCGTTCGTTTTATTGCTTGA 60.049 36.000 0.00 0.00 0.00 3.02
2594 3849 5.150683 TGGAATCGTTCGTTTTATTGCTTG 58.849 37.500 0.00 0.00 0.00 4.01
2595 3850 5.365403 TGGAATCGTTCGTTTTATTGCTT 57.635 34.783 0.00 0.00 0.00 3.91
2596 3851 5.560966 ATGGAATCGTTCGTTTTATTGCT 57.439 34.783 0.00 0.00 0.00 3.91
2597 3852 5.849861 GATGGAATCGTTCGTTTTATTGC 57.150 39.130 0.00 0.00 31.13 3.56
2611 3866 6.423776 AGAGAGAGAGGAATTGATGGAATC 57.576 41.667 0.00 0.00 45.83 2.52
2612 3867 6.828307 AAGAGAGAGAGGAATTGATGGAAT 57.172 37.500 0.00 0.00 0.00 3.01
2613 3868 6.443206 AGAAAGAGAGAGAGGAATTGATGGAA 59.557 38.462 0.00 0.00 0.00 3.53
2614 3869 5.963253 AGAAAGAGAGAGAGGAATTGATGGA 59.037 40.000 0.00 0.00 0.00 3.41
2615 3870 6.237887 AGAAAGAGAGAGAGGAATTGATGG 57.762 41.667 0.00 0.00 0.00 3.51
2616 3871 8.256605 TGTTAGAAAGAGAGAGAGGAATTGATG 58.743 37.037 0.00 0.00 0.00 3.07
2617 3872 8.372877 TGTTAGAAAGAGAGAGAGGAATTGAT 57.627 34.615 0.00 0.00 0.00 2.57
2618 3873 7.453126 ACTGTTAGAAAGAGAGAGAGGAATTGA 59.547 37.037 0.00 0.00 0.00 2.57
2619 3874 7.610865 ACTGTTAGAAAGAGAGAGAGGAATTG 58.389 38.462 0.00 0.00 0.00 2.32
2620 3875 7.790782 ACTGTTAGAAAGAGAGAGAGGAATT 57.209 36.000 0.00 0.00 0.00 2.17
2621 3876 7.066525 CGTACTGTTAGAAAGAGAGAGAGGAAT 59.933 40.741 0.00 0.00 0.00 3.01
2622 3877 6.372103 CGTACTGTTAGAAAGAGAGAGAGGAA 59.628 42.308 0.00 0.00 0.00 3.36
2623 3878 5.875910 CGTACTGTTAGAAAGAGAGAGAGGA 59.124 44.000 0.00 0.00 0.00 3.71
2624 3879 5.065474 CCGTACTGTTAGAAAGAGAGAGAGG 59.935 48.000 0.00 0.00 0.00 3.69
2625 3880 5.065474 CCCGTACTGTTAGAAAGAGAGAGAG 59.935 48.000 0.00 0.00 0.00 3.20
2626 3881 4.942483 CCCGTACTGTTAGAAAGAGAGAGA 59.058 45.833 0.00 0.00 0.00 3.10
2627 3882 4.701171 ACCCGTACTGTTAGAAAGAGAGAG 59.299 45.833 0.00 0.00 0.00 3.20
2628 3883 4.660168 ACCCGTACTGTTAGAAAGAGAGA 58.340 43.478 0.00 0.00 0.00 3.10
2629 3884 6.072286 TGTTACCCGTACTGTTAGAAAGAGAG 60.072 42.308 0.00 0.00 0.00 3.20
2630 3885 5.769662 TGTTACCCGTACTGTTAGAAAGAGA 59.230 40.000 0.00 0.00 0.00 3.10
2631 3886 6.017400 TGTTACCCGTACTGTTAGAAAGAG 57.983 41.667 0.00 0.00 0.00 2.85
2632 3887 6.183360 TGTTGTTACCCGTACTGTTAGAAAGA 60.183 38.462 0.00 0.00 0.00 2.52
2633 3888 5.984926 TGTTGTTACCCGTACTGTTAGAAAG 59.015 40.000 0.00 0.00 0.00 2.62
2634 3889 5.911752 TGTTGTTACCCGTACTGTTAGAAA 58.088 37.500 0.00 0.00 0.00 2.52
2635 3890 5.528043 TGTTGTTACCCGTACTGTTAGAA 57.472 39.130 0.00 0.00 0.00 2.10
2636 3891 4.559300 GCTGTTGTTACCCGTACTGTTAGA 60.559 45.833 0.00 0.00 0.00 2.10
2637 3892 3.676646 GCTGTTGTTACCCGTACTGTTAG 59.323 47.826 0.00 0.00 0.00 2.34
2638 3893 3.652274 GCTGTTGTTACCCGTACTGTTA 58.348 45.455 0.00 0.00 0.00 2.41
2639 3894 2.486918 GCTGTTGTTACCCGTACTGTT 58.513 47.619 0.00 0.00 0.00 3.16
2640 3895 1.603678 CGCTGTTGTTACCCGTACTGT 60.604 52.381 0.00 0.00 0.00 3.55
2641 3896 1.065358 CGCTGTTGTTACCCGTACTG 58.935 55.000 0.00 0.00 0.00 2.74
2642 3897 0.668401 GCGCTGTTGTTACCCGTACT 60.668 55.000 0.00 0.00 0.00 2.73
2643 3898 0.945265 TGCGCTGTTGTTACCCGTAC 60.945 55.000 9.73 0.00 0.00 3.67
2644 3899 0.037139 ATGCGCTGTTGTTACCCGTA 60.037 50.000 9.73 0.00 0.00 4.02
2645 3900 1.296056 GATGCGCTGTTGTTACCCGT 61.296 55.000 9.73 0.00 0.00 5.28
2646 3901 1.295357 TGATGCGCTGTTGTTACCCG 61.295 55.000 9.73 0.00 0.00 5.28
2647 3902 1.094785 ATGATGCGCTGTTGTTACCC 58.905 50.000 9.73 0.00 0.00 3.69
2648 3903 1.795162 GCATGATGCGCTGTTGTTACC 60.795 52.381 9.73 0.00 31.71 2.85
2649 3904 1.538276 GCATGATGCGCTGTTGTTAC 58.462 50.000 9.73 0.00 31.71 2.50
2650 3905 3.994729 GCATGATGCGCTGTTGTTA 57.005 47.368 9.73 0.00 31.71 2.41
2651 3906 4.874534 GCATGATGCGCTGTTGTT 57.125 50.000 9.73 0.00 31.71 2.83
2660 3915 1.599667 CGCTCCAATCAAGCATGATGC 60.600 52.381 9.89 9.89 45.60 3.91
2661 3916 1.674441 ACGCTCCAATCAAGCATGATG 59.326 47.619 4.99 0.31 45.60 3.07
2663 3918 1.372582 GACGCTCCAATCAAGCATGA 58.627 50.000 0.00 0.00 39.81 3.07
2664 3919 0.027194 CGACGCTCCAATCAAGCATG 59.973 55.000 0.00 0.00 39.81 4.06
2665 3920 2.387309 CGACGCTCCAATCAAGCAT 58.613 52.632 0.00 0.00 39.81 3.79
2666 3921 3.874873 CGACGCTCCAATCAAGCA 58.125 55.556 0.00 0.00 39.81 3.91


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

AutoCloner maintained by Alex Coulton.