Multiple sequence alignment - TraesCS3B01G231700

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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 TraesCS3B01G231700 chr3B 100.000 6434 0 0 1 6434 351286627 351293060 0.000000e+00 11882.0
1 TraesCS3B01G231700 chr3B 78.251 1384 207 55 3231 4552 805098792 805097441 0.000000e+00 802.0
2 TraesCS3B01G231700 chr3B 93.846 65 2 2 5616 5680 663123876 663123814 5.310000e-16 97.1
3 TraesCS3B01G231700 chr3B 95.238 42 1 1 4767 4807 544827473 544827514 1.500000e-06 65.8
4 TraesCS3B01G231700 chr3B 95.238 42 1 1 4767 4807 544927422 544927463 1.500000e-06 65.8
5 TraesCS3B01G231700 chr3A 95.270 3890 115 25 771 4638 327295177 327291335 0.000000e+00 6100.0
6 TraesCS3B01G231700 chr3A 96.844 602 16 1 4746 5347 327291198 327290600 0.000000e+00 1003.0
7 TraesCS3B01G231700 chr3A 78.996 1395 217 41 3231 4556 728238268 728236881 0.000000e+00 883.0
8 TraesCS3B01G231700 chr3A 78.592 1420 214 43 3231 4569 728099818 728098408 0.000000e+00 856.0
9 TraesCS3B01G231700 chr3A 97.727 264 3 2 5333 5593 327290492 327290229 9.840000e-123 451.0
10 TraesCS3B01G231700 chr3A 89.542 153 5 3 5679 5823 327290216 327290067 3.960000e-42 183.0
11 TraesCS3B01G231700 chr3A 97.561 41 1 0 4666 4706 327291239 327291199 3.220000e-08 71.3
12 TraesCS3B01G231700 chr3D 96.021 3041 80 17 753 3768 256990319 256987295 0.000000e+00 4907.0
13 TraesCS3B01G231700 chr3D 97.465 710 17 1 4638 5347 256986435 256985727 0.000000e+00 1210.0
14 TraesCS3B01G231700 chr3D 91.455 866 41 8 3795 4648 256987307 256986463 0.000000e+00 1158.0
15 TraesCS3B01G231700 chr3D 86.458 480 32 4 5982 6434 19413290 19412817 4.480000e-136 496.0
16 TraesCS3B01G231700 chr3D 81.600 625 82 21 1 601 565624259 565624874 2.700000e-133 486.0
17 TraesCS3B01G231700 chr3D 95.533 291 10 2 5338 5625 256985611 256985321 4.540000e-126 462.0
18 TraesCS3B01G231700 chr3D 85.616 438 45 12 4149 4569 598077454 598077018 1.650000e-120 444.0
19 TraesCS3B01G231700 chr3D 90.688 247 21 2 5983 6229 554691114 554691358 1.730000e-85 327.0
20 TraesCS3B01G231700 chr3D 90.132 152 5 2 5679 5823 256985322 256985174 8.520000e-44 189.0
21 TraesCS3B01G231700 chr7B 81.737 1347 166 50 3282 4565 460587750 460586421 0.000000e+00 1051.0
22 TraesCS3B01G231700 chr7B 77.860 944 145 34 3671 4556 138034296 138035233 1.590000e-145 527.0
23 TraesCS3B01G231700 chr7B 80.282 710 104 23 2 695 396050249 396050938 2.680000e-138 503.0
24 TraesCS3B01G231700 chr7B 76.067 539 100 20 3516 4032 125381460 125380929 2.980000e-63 254.0
25 TraesCS3B01G231700 chr6D 84.383 762 94 23 1 752 80716453 80717199 0.000000e+00 725.0
26 TraesCS3B01G231700 chr6D 79.615 623 96 17 3521 4121 131930704 131931317 9.980000e-113 418.0
27 TraesCS3B01G231700 chr6D 83.459 133 20 2 4165 4296 62818562 62818693 8.760000e-24 122.0
28 TraesCS3B01G231700 chr6D 96.552 58 2 0 5624 5681 284394950 284395007 5.310000e-16 97.1
29 TraesCS3B01G231700 chr5D 87.864 618 38 11 5849 6434 370304837 370304225 0.000000e+00 691.0
30 TraesCS3B01G231700 chr5D 84.632 462 46 14 254 694 264895243 264895700 2.750000e-118 436.0
31 TraesCS3B01G231700 chr5D 78.594 626 95 19 3521 4121 497941106 497941717 1.690000e-100 377.0
32 TraesCS3B01G231700 chr5D 85.838 346 22 13 6116 6434 469797900 469798245 6.180000e-90 342.0
33 TraesCS3B01G231700 chr5D 79.470 151 29 2 4147 4296 453223823 453223674 8.820000e-19 106.0
34 TraesCS3B01G231700 chr5A 83.526 777 91 18 1 754 10919801 10920563 0.000000e+00 691.0
35 TraesCS3B01G231700 chr5A 89.919 248 20 4 5846 6090 653888329 653888574 1.350000e-81 315.0
36 TraesCS3B01G231700 chr5A 95.082 61 0 2 5624 5684 573621449 573621506 6.870000e-15 93.5
37 TraesCS3B01G231700 chr2D 83.333 762 109 5 1 744 139005132 139004371 0.000000e+00 688.0
38 TraesCS3B01G231700 chr2D 80.749 748 87 28 3858 4565 337847701 337846971 1.230000e-146 531.0
39 TraesCS3B01G231700 chr2A 82.817 774 107 13 1 756 161957706 161958471 0.000000e+00 669.0
40 TraesCS3B01G231700 chr2A 80.920 739 95 27 3858 4565 447929069 447928346 5.670000e-150 542.0
41 TraesCS3B01G231700 chr2A 82.788 581 60 17 5890 6434 724111476 724110900 3.490000e-132 483.0
42 TraesCS3B01G231700 chr2A 95.122 41 2 0 4767 4807 764207130 764207170 1.500000e-06 65.8
43 TraesCS3B01G231700 chr4A 83.699 730 85 21 11 714 628815097 628815818 0.000000e+00 658.0
44 TraesCS3B01G231700 chr4A 76.094 1280 220 63 3335 4565 642642613 642643855 2.000000e-164 590.0
45 TraesCS3B01G231700 chr4A 82.692 624 65 12 5849 6434 2618219 2618837 1.240000e-141 514.0
46 TraesCS3B01G231700 chr4A 76.295 637 121 21 3485 4103 724504593 724505217 4.840000e-81 313.0
47 TraesCS3B01G231700 chr4A 89.243 251 23 3 5846 6093 513319653 513319404 1.740000e-80 311.0
48 TraesCS3B01G231700 chr4A 87.251 251 27 4 5846 6093 17273723 17273475 1.370000e-71 281.0
49 TraesCS3B01G231700 chr1A 82.642 772 106 15 1 754 34193503 34192742 0.000000e+00 658.0
50 TraesCS3B01G231700 chr1A 77.761 652 118 17 3488 4123 425687387 425686747 6.090000e-100 375.0
51 TraesCS3B01G231700 chr1A 77.323 635 116 18 3511 4124 61004686 61004059 3.690000e-92 350.0
52 TraesCS3B01G231700 chr1A 81.000 100 9 6 4716 4807 20515640 20515737 3.220000e-08 71.3
53 TraesCS3B01G231700 chr1A 81.000 100 9 6 4716 4807 20526334 20526431 3.220000e-08 71.3
54 TraesCS3B01G231700 chr2B 84.441 617 61 17 5849 6434 741450196 741450808 5.590000e-160 575.0
55 TraesCS3B01G231700 chr2B 83.503 588 66 12 1 576 649463702 649464270 2.660000e-143 520.0
56 TraesCS3B01G231700 chr4D 80.796 729 117 13 1 713 296676087 296676808 3.390000e-152 549.0
57 TraesCS3B01G231700 chr4D 79.625 746 81 30 1 712 337056532 337057240 2.720000e-128 470.0
58 TraesCS3B01G231700 chr4D 90.873 252 22 1 6184 6434 28441442 28441191 2.870000e-88 337.0
59 TraesCS3B01G231700 chr4D 82.667 225 30 7 477 695 18481170 18481391 2.370000e-44 191.0
60 TraesCS3B01G231700 chr7D 87.265 479 33 9 5983 6434 31379124 31378647 7.390000e-144 521.0
61 TraesCS3B01G231700 chr7D 91.935 248 18 2 5983 6230 577380130 577379885 4.780000e-91 346.0
62 TraesCS3B01G231700 chr7D 80.685 409 62 7 3728 4121 579139876 579139470 1.050000e-77 302.0
63 TraesCS3B01G231700 chr7D 87.952 83 9 1 4147 4228 618175572 618175654 5.310000e-16 97.1
64 TraesCS3B01G231700 chr7D 96.491 57 2 0 5624 5680 551735562 551735506 1.910000e-15 95.3
65 TraesCS3B01G231700 chr7A 82.880 625 62 21 5849 6434 619256002 619255384 2.660000e-143 520.0
66 TraesCS3B01G231700 chr7A 78.930 617 70 24 3719 4296 674275429 674276024 1.320000e-96 364.0
67 TraesCS3B01G231700 chr7A 80.328 488 59 16 255 712 22016675 22017155 1.030000e-87 335.0
68 TraesCS3B01G231700 chr7A 87.251 251 28 3 5846 6093 644000596 644000347 3.800000e-72 283.0
69 TraesCS3B01G231700 chr1B 85.106 423 46 10 4149 4555 886917 887338 3.590000e-112 416.0
70 TraesCS3B01G231700 chr1B 96.552 58 2 0 5624 5681 656234060 656234117 5.310000e-16 97.1
71 TraesCS3B01G231700 chr1B 92.308 65 3 1 5623 5687 354922689 354922751 2.470000e-14 91.6
72 TraesCS3B01G231700 chrUn 80.627 542 71 16 199 712 346947801 346948336 7.820000e-104 388.0
73 TraesCS3B01G231700 chrUn 90.780 141 8 1 4672 4807 29782610 29782750 3.960000e-42 183.0
74 TraesCS3B01G231700 chr1D 85.255 373 38 13 6077 6434 423889817 423889447 1.020000e-97 368.0
75 TraesCS3B01G231700 chr1D 76.840 652 125 17 3488 4123 328821257 328820616 1.720000e-90 344.0
76 TraesCS3B01G231700 chr1D 76.211 454 66 18 4112 4537 342871335 342870896 1.090000e-47 202.0
77 TraesCS3B01G231700 chr1D 93.443 61 3 1 5624 5684 467033943 467033884 8.890000e-14 89.8
78 TraesCS3B01G231700 chr1D 90.909 66 4 2 5614 5678 50062558 50062622 3.200000e-13 87.9
79 TraesCS3B01G231700 chr1D 91.045 67 2 3 5624 5687 403375946 403375881 3.200000e-13 87.9
80 TraesCS3B01G231700 chr5B 80.828 459 62 10 3685 4129 55544928 55544482 2.870000e-88 337.0


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 TraesCS3B01G231700 chr3B 351286627 351293060 6433 False 11882.00 11882 100.0000 1 6434 1 chr3B.!!$F1 6433
1 TraesCS3B01G231700 chr3B 805097441 805098792 1351 True 802.00 802 78.2510 3231 4552 1 chr3B.!!$R2 1321
2 TraesCS3B01G231700 chr3A 327290067 327295177 5110 True 1561.66 6100 95.3888 771 5823 5 chr3A.!!$R3 5052
3 TraesCS3B01G231700 chr3A 728236881 728238268 1387 True 883.00 883 78.9960 3231 4556 1 chr3A.!!$R2 1325
4 TraesCS3B01G231700 chr3A 728098408 728099818 1410 True 856.00 856 78.5920 3231 4569 1 chr3A.!!$R1 1338
5 TraesCS3B01G231700 chr3D 256985174 256990319 5145 True 1585.20 4907 94.1212 753 5823 5 chr3D.!!$R3 5070
6 TraesCS3B01G231700 chr3D 565624259 565624874 615 False 486.00 486 81.6000 1 601 1 chr3D.!!$F2 600
7 TraesCS3B01G231700 chr7B 460586421 460587750 1329 True 1051.00 1051 81.7370 3282 4565 1 chr7B.!!$R2 1283
8 TraesCS3B01G231700 chr7B 138034296 138035233 937 False 527.00 527 77.8600 3671 4556 1 chr7B.!!$F1 885
9 TraesCS3B01G231700 chr7B 396050249 396050938 689 False 503.00 503 80.2820 2 695 1 chr7B.!!$F2 693
10 TraesCS3B01G231700 chr7B 125380929 125381460 531 True 254.00 254 76.0670 3516 4032 1 chr7B.!!$R1 516
11 TraesCS3B01G231700 chr6D 80716453 80717199 746 False 725.00 725 84.3830 1 752 1 chr6D.!!$F2 751
12 TraesCS3B01G231700 chr6D 131930704 131931317 613 False 418.00 418 79.6150 3521 4121 1 chr6D.!!$F3 600
13 TraesCS3B01G231700 chr5D 370304225 370304837 612 True 691.00 691 87.8640 5849 6434 1 chr5D.!!$R1 585
14 TraesCS3B01G231700 chr5D 497941106 497941717 611 False 377.00 377 78.5940 3521 4121 1 chr5D.!!$F3 600
15 TraesCS3B01G231700 chr5A 10919801 10920563 762 False 691.00 691 83.5260 1 754 1 chr5A.!!$F1 753
16 TraesCS3B01G231700 chr2D 139004371 139005132 761 True 688.00 688 83.3330 1 744 1 chr2D.!!$R1 743
17 TraesCS3B01G231700 chr2D 337846971 337847701 730 True 531.00 531 80.7490 3858 4565 1 chr2D.!!$R2 707
18 TraesCS3B01G231700 chr2A 161957706 161958471 765 False 669.00 669 82.8170 1 756 1 chr2A.!!$F1 755
19 TraesCS3B01G231700 chr2A 447928346 447929069 723 True 542.00 542 80.9200 3858 4565 1 chr2A.!!$R1 707
20 TraesCS3B01G231700 chr2A 724110900 724111476 576 True 483.00 483 82.7880 5890 6434 1 chr2A.!!$R2 544
21 TraesCS3B01G231700 chr4A 628815097 628815818 721 False 658.00 658 83.6990 11 714 1 chr4A.!!$F2 703
22 TraesCS3B01G231700 chr4A 642642613 642643855 1242 False 590.00 590 76.0940 3335 4565 1 chr4A.!!$F3 1230
23 TraesCS3B01G231700 chr4A 2618219 2618837 618 False 514.00 514 82.6920 5849 6434 1 chr4A.!!$F1 585
24 TraesCS3B01G231700 chr4A 724504593 724505217 624 False 313.00 313 76.2950 3485 4103 1 chr4A.!!$F4 618
25 TraesCS3B01G231700 chr1A 34192742 34193503 761 True 658.00 658 82.6420 1 754 1 chr1A.!!$R1 753
26 TraesCS3B01G231700 chr1A 425686747 425687387 640 True 375.00 375 77.7610 3488 4123 1 chr1A.!!$R3 635
27 TraesCS3B01G231700 chr1A 61004059 61004686 627 True 350.00 350 77.3230 3511 4124 1 chr1A.!!$R2 613
28 TraesCS3B01G231700 chr2B 741450196 741450808 612 False 575.00 575 84.4410 5849 6434 1 chr2B.!!$F2 585
29 TraesCS3B01G231700 chr2B 649463702 649464270 568 False 520.00 520 83.5030 1 576 1 chr2B.!!$F1 575
30 TraesCS3B01G231700 chr4D 296676087 296676808 721 False 549.00 549 80.7960 1 713 1 chr4D.!!$F2 712
31 TraesCS3B01G231700 chr4D 337056532 337057240 708 False 470.00 470 79.6250 1 712 1 chr4D.!!$F3 711
32 TraesCS3B01G231700 chr7A 619255384 619256002 618 True 520.00 520 82.8800 5849 6434 1 chr7A.!!$R1 585
33 TraesCS3B01G231700 chr7A 674275429 674276024 595 False 364.00 364 78.9300 3719 4296 1 chr7A.!!$F2 577
34 TraesCS3B01G231700 chrUn 346947801 346948336 535 False 388.00 388 80.6270 199 712 1 chrUn.!!$F2 513
35 TraesCS3B01G231700 chr1D 328820616 328821257 641 True 344.00 344 76.8400 3488 4123 1 chr1D.!!$R1 635

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
704 832 0.850217 CGACTTTTTGACGCTGACGA 59.150 50.000 0.00 0.0 43.93 4.20 F
1713 1853 2.031616 GAGCCTGTCTGTGCTGCA 59.968 61.111 0.00 0.0 38.11 4.41 F
2078 2218 2.555325 TCAAAGTGAGATTGCAAGCAGG 59.445 45.455 18.24 0.0 0.00 4.85 F
3207 3357 0.251253 AACCTCTCGTCCCTCTTCGT 60.251 55.000 0.00 0.0 0.00 3.85 F
4135 4360 0.036164 AGCGGTGTGGCATCTAACAA 59.964 50.000 0.00 0.0 34.64 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1756 1896 1.171308 CAGGCAATTGGTCACTCTGG 58.829 55.000 7.72 0.0 0.00 3.86 R
2979 3129 1.760480 AAACCAACCAGGCACCCAC 60.760 57.895 0.00 0.0 43.14 4.61 R
3784 3978 1.021968 GACCACCCACAACAACACTC 58.978 55.000 0.00 0.0 0.00 3.51 R
4436 4711 0.178961 ACCCAAAGCCACCTTCCTTC 60.179 55.000 0.00 0.0 0.00 3.46 R
5842 6329 0.108138 AAATCGTTGAGGAGGCTCGG 60.108 55.000 8.69 0.0 0.00 4.63 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
91 92 2.763215 GCATCCCCAGGGTTGTGA 59.237 61.111 13.99 0.00 37.32 3.58
176 180 1.152963 GGGTGGGTTCATCATCCCG 60.153 63.158 0.00 0.00 46.13 5.14
182 187 1.449601 GTTCATCATCCCGGCGTGT 60.450 57.895 6.01 0.00 0.00 4.49
289 315 1.961277 CGTTGAGCTTGTTCGGCCT 60.961 57.895 0.00 0.00 0.00 5.19
440 474 2.170012 AGGGGCCGTATACTTCTTCA 57.830 50.000 0.00 0.00 0.00 3.02
451 485 2.033911 TTCTTCAGCGGCATGGCA 59.966 55.556 20.37 0.00 34.64 4.92
650 777 1.680338 GCTGTTATTTCGGCCCAGAT 58.320 50.000 7.06 0.00 34.02 2.90
704 832 0.850217 CGACTTTTTGACGCTGACGA 59.150 50.000 0.00 0.00 43.93 4.20
759 889 3.305950 GCGAGTGAGGATGCTCTAATGAT 60.306 47.826 15.82 0.00 0.00 2.45
927 1067 2.043450 AGCAGCCTACTCGGAGCT 60.043 61.111 4.58 0.00 39.80 4.09
1304 1444 3.388024 ACAAGCAACAAGACCTGAGTAGA 59.612 43.478 0.00 0.00 0.00 2.59
1713 1853 2.031616 GAGCCTGTCTGTGCTGCA 59.968 61.111 0.00 0.00 38.11 4.41
1756 1896 3.190118 CAGTGCATTTCCCTTCTTCAGTC 59.810 47.826 0.00 0.00 0.00 3.51
1848 1988 6.186957 TGTAGGTGATGCCACTTTAATGAAT 58.813 36.000 0.00 0.00 42.77 2.57
2013 2153 6.015504 CACTGAACGAATTAACTATGTGTGC 58.984 40.000 0.00 0.00 0.00 4.57
2078 2218 2.555325 TCAAAGTGAGATTGCAAGCAGG 59.445 45.455 18.24 0.00 0.00 4.85
2127 2267 3.459598 ACTATTCTGGAGCCCTTAATGCA 59.540 43.478 0.00 0.00 0.00 3.96
2546 2686 5.945784 TGTCTGCAAAAGCTTTATACCTCAT 59.054 36.000 13.10 0.00 0.00 2.90
2621 2761 3.838317 ACTGCATGAGTCCTTTGTAGGTA 59.162 43.478 0.00 0.00 42.60 3.08
2813 2953 5.885912 ACCAATATCCAAACACTTAGCGAAT 59.114 36.000 0.00 0.00 0.00 3.34
2979 3129 6.803154 AGGTTATTGAGTTTTTCTCTTCCG 57.197 37.500 0.00 0.00 43.13 4.30
3006 3156 1.688197 CCTGGTTGGTTTGCTCAACAT 59.312 47.619 8.82 0.00 44.38 2.71
3007 3157 2.890311 CCTGGTTGGTTTGCTCAACATA 59.110 45.455 8.82 0.00 44.38 2.29
3069 3219 6.261381 TCGTTTTATTGCTGACTACCTGTTTT 59.739 34.615 0.00 0.00 0.00 2.43
3171 3321 5.072741 TCTGTCAGCCTTTTTCTAATGCTT 58.927 37.500 0.00 0.00 0.00 3.91
3172 3322 6.237901 TCTGTCAGCCTTTTTCTAATGCTTA 58.762 36.000 0.00 0.00 0.00 3.09
3204 3354 0.977395 CCAAACCTCTCGTCCCTCTT 59.023 55.000 0.00 0.00 0.00 2.85
3207 3357 0.251253 AACCTCTCGTCCCTCTTCGT 60.251 55.000 0.00 0.00 0.00 3.85
3328 3485 2.650196 GCAAAGCCCGTGCATTGA 59.350 55.556 11.98 0.00 46.38 2.57
3340 3497 2.472909 GCATTGACAGGTAGCGGCC 61.473 63.158 0.00 0.00 0.00 6.13
3377 3537 2.895372 GGATCGAACGGCGGCAAT 60.895 61.111 13.24 0.00 41.33 3.56
3417 3577 2.671682 GCCTCTCCCTTGGTCCAC 59.328 66.667 0.00 0.00 0.00 4.02
3609 3781 2.434331 CCCCTGTCCAAGCGGAAA 59.566 61.111 0.00 0.00 45.20 3.13
4086 4311 0.251916 TTGTAGGGGTTCATCGGCTG 59.748 55.000 0.00 0.00 0.00 4.85
4131 4356 1.987306 TGGAGCGGTGTGGCATCTA 60.987 57.895 0.00 0.00 34.64 1.98
4135 4360 0.036164 AGCGGTGTGGCATCTAACAA 59.964 50.000 0.00 0.00 34.64 2.83
4136 4361 0.168128 GCGGTGTGGCATCTAACAAC 59.832 55.000 0.00 0.00 0.00 3.32
4285 4545 2.028125 GATGGGACGGCGGAAGATGA 62.028 60.000 13.24 0.00 0.00 2.92
4353 4628 2.977178 CTCTCGGCTCAAGGCAGT 59.023 61.111 4.35 0.00 44.01 4.40
4367 4642 2.592993 GCAGTCTAGGGTGGCCACA 61.593 63.158 35.78 16.13 0.00 4.17
4384 4659 0.846693 ACAGGATTAGATGGTGGGCC 59.153 55.000 0.00 0.00 0.00 5.80
4426 4701 1.816835 TGAGACTTGTAGGTGTAGCGG 59.183 52.381 0.00 0.00 0.00 5.52
4436 4711 1.445582 GTGTAGCGGTTGAGGTCGG 60.446 63.158 0.00 0.00 0.00 4.79
4437 4712 1.604308 TGTAGCGGTTGAGGTCGGA 60.604 57.895 0.00 0.00 0.00 4.55
4663 5011 3.198853 GGAGAGACATTGGGAAAGCTAGT 59.801 47.826 0.00 0.00 0.00 2.57
4794 5142 2.746277 CTAAAGCCGGGCAAGCGT 60.746 61.111 23.09 3.50 34.64 5.07
4828 5176 4.662278 AGGTAATTCCAAAGCAGCAGTTA 58.338 39.130 0.00 0.00 39.02 2.24
4859 5207 9.211485 CTAGGAAAATTTCGTTGGTTAGTCTAA 57.789 33.333 6.24 0.00 0.00 2.10
4946 5294 4.261072 GCTAGAGTTTCATGATGTGGCATG 60.261 45.833 0.00 0.00 45.41 4.06
5120 5468 1.600957 CTTGTGCTGGAGGAATATGCG 59.399 52.381 0.00 0.00 0.00 4.73
5204 5552 9.093458 TCATCACTACAATACATCCATACTGAT 57.907 33.333 0.00 0.00 0.00 2.90
5319 5667 6.885376 TGTTCTTAACTTTGGAACAGGTAACA 59.115 34.615 3.77 0.00 42.56 2.41
5329 5677 8.528044 TTTGGAACAGGTAACATTTTCTACTT 57.472 30.769 0.00 0.00 42.39 2.24
5611 6091 2.617308 GACCCAATCAGTCATGAGCATG 59.383 50.000 0.00 4.10 39.29 4.06
5623 6103 6.864685 CAGTCATGAGCATGTTGTAAATTGTT 59.135 34.615 10.01 0.00 39.72 2.83
5624 6104 8.022550 CAGTCATGAGCATGTTGTAAATTGTTA 58.977 33.333 10.01 0.00 39.72 2.41
5625 6105 8.023128 AGTCATGAGCATGTTGTAAATTGTTAC 58.977 33.333 10.01 0.00 38.84 2.50
5626 6106 8.023128 GTCATGAGCATGTTGTAAATTGTTACT 58.977 33.333 10.01 0.00 38.97 2.24
5627 6107 8.236586 TCATGAGCATGTTGTAAATTGTTACTC 58.763 33.333 10.01 0.00 38.97 2.59
5628 6108 6.908825 TGAGCATGTTGTAAATTGTTACTCC 58.091 36.000 0.00 0.00 40.35 3.85
5629 6109 6.072175 TGAGCATGTTGTAAATTGTTACTCCC 60.072 38.462 0.00 0.00 40.35 4.30
5630 6110 6.010219 AGCATGTTGTAAATTGTTACTCCCT 58.990 36.000 0.00 0.00 40.35 4.20
5631 6111 6.151144 AGCATGTTGTAAATTGTTACTCCCTC 59.849 38.462 0.00 0.00 40.35 4.30
5632 6112 6.625081 GCATGTTGTAAATTGTTACTCCCTCC 60.625 42.308 0.00 0.00 40.35 4.30
5633 6113 4.998672 TGTTGTAAATTGTTACTCCCTCCG 59.001 41.667 0.00 0.00 40.35 4.63
5634 6114 4.895668 TGTAAATTGTTACTCCCTCCGT 57.104 40.909 0.00 0.00 40.35 4.69
5635 6115 4.824289 TGTAAATTGTTACTCCCTCCGTC 58.176 43.478 0.00 0.00 40.35 4.79
5636 6116 3.345508 AAATTGTTACTCCCTCCGTCC 57.654 47.619 0.00 0.00 0.00 4.79
5637 6117 1.201424 ATTGTTACTCCCTCCGTCCC 58.799 55.000 0.00 0.00 0.00 4.46
5638 6118 0.178926 TTGTTACTCCCTCCGTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
5639 6119 0.042131 TGTTACTCCCTCCGTCCCAT 59.958 55.000 0.00 0.00 0.00 4.00
5640 6120 1.288633 TGTTACTCCCTCCGTCCCATA 59.711 52.381 0.00 0.00 0.00 2.74
5641 6121 2.292389 TGTTACTCCCTCCGTCCCATAA 60.292 50.000 0.00 0.00 0.00 1.90
5642 6122 2.970640 GTTACTCCCTCCGTCCCATAAT 59.029 50.000 0.00 0.00 0.00 1.28
5643 6123 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
5644 6124 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
5645 6125 1.344763 CTCCCTCCGTCCCATAATGTC 59.655 57.143 0.00 0.00 0.00 3.06
5646 6126 1.128200 CCCTCCGTCCCATAATGTCA 58.872 55.000 0.00 0.00 0.00 3.58
5647 6127 1.488812 CCCTCCGTCCCATAATGTCAA 59.511 52.381 0.00 0.00 0.00 3.18
5648 6128 2.092646 CCCTCCGTCCCATAATGTCAAA 60.093 50.000 0.00 0.00 0.00 2.69
5649 6129 3.616219 CCTCCGTCCCATAATGTCAAAA 58.384 45.455 0.00 0.00 0.00 2.44
5650 6130 4.013728 CCTCCGTCCCATAATGTCAAAAA 58.986 43.478 0.00 0.00 0.00 1.94
5838 6325 9.528018 TTTTTGTTCATCCAGAAATAAGTTGTC 57.472 29.630 0.00 0.00 38.13 3.18
5839 6326 8.463930 TTTGTTCATCCAGAAATAAGTTGTCT 57.536 30.769 0.00 0.00 38.13 3.41
5840 6327 7.672983 TGTTCATCCAGAAATAAGTTGTCTC 57.327 36.000 0.00 0.00 38.13 3.36
5841 6328 7.223584 TGTTCATCCAGAAATAAGTTGTCTCA 58.776 34.615 0.00 0.00 38.13 3.27
5842 6329 7.173218 TGTTCATCCAGAAATAAGTTGTCTCAC 59.827 37.037 0.00 0.00 38.13 3.51
5843 6330 6.173339 TCATCCAGAAATAAGTTGTCTCACC 58.827 40.000 0.00 0.00 0.00 4.02
5844 6331 4.566004 TCCAGAAATAAGTTGTCTCACCG 58.434 43.478 0.00 0.00 0.00 4.94
5845 6332 4.282449 TCCAGAAATAAGTTGTCTCACCGA 59.718 41.667 0.00 0.00 0.00 4.69
5846 6333 4.627467 CCAGAAATAAGTTGTCTCACCGAG 59.373 45.833 0.00 0.00 0.00 4.63
5847 6334 4.092091 CAGAAATAAGTTGTCTCACCGAGC 59.908 45.833 0.00 0.00 0.00 5.03
5855 6343 1.076727 TCTCACCGAGCCTCCTCAA 59.923 57.895 0.00 0.00 38.00 3.02
5858 6346 2.282958 ACCGAGCCTCCTCAACGA 60.283 61.111 0.00 0.00 38.00 3.85
5861 6349 0.108138 CCGAGCCTCCTCAACGATTT 60.108 55.000 0.00 0.00 38.00 2.17
5871 6359 4.905429 TCCTCAACGATTTGGATTTCTGA 58.095 39.130 0.00 0.00 33.06 3.27
5879 6367 1.243902 TTGGATTTCTGACCGTTGGC 58.756 50.000 0.00 0.00 0.00 4.52
5881 6369 1.626321 TGGATTTCTGACCGTTGGCTA 59.374 47.619 0.00 0.00 0.00 3.93
5882 6370 2.238646 TGGATTTCTGACCGTTGGCTAT 59.761 45.455 0.00 0.00 0.00 2.97
5883 6371 2.614057 GGATTTCTGACCGTTGGCTATG 59.386 50.000 0.00 0.00 0.00 2.23
5885 6373 0.392461 TTCTGACCGTTGGCTATGGC 60.392 55.000 7.12 0.00 36.26 4.40
6006 6496 2.099098 GCCACCGCATGTAAATAGCTTT 59.901 45.455 0.00 0.00 34.03 3.51
6018 6508 1.327690 ATAGCTTTGCCCCGTCGAGA 61.328 55.000 0.00 0.00 0.00 4.04
6029 6519 1.068474 CCGTCGAGAGCATTTTCGTT 58.932 50.000 0.00 0.00 37.99 3.85
6043 6533 7.312154 AGCATTTTCGTTATTTCATGCTTACA 58.688 30.769 0.00 0.00 43.80 2.41
6090 6580 2.136196 GATGACCTAGCCGCCTCTCG 62.136 65.000 0.00 0.00 38.08 4.04
6114 6604 2.262915 CTCGCGCTCTCAACCCTT 59.737 61.111 5.56 0.00 0.00 3.95
6182 6672 2.227036 CCCTCCACCAGACCTTGCT 61.227 63.158 0.00 0.00 0.00 3.91
6337 6858 1.229145 AGAGTGAGCAGGTCAGGCT 60.229 57.895 1.45 0.30 46.07 4.58
6373 6894 1.864565 CATATTCGCCGGTGATGTCA 58.135 50.000 20.33 3.65 0.00 3.58
6411 6932 4.099170 GCTTGTGCTCTGCCTGCG 62.099 66.667 0.00 0.00 36.03 5.18
6431 6952 3.818787 GCTCCCACGCAATGCCTG 61.819 66.667 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
91 92 2.490217 CCGGCTTCTCATCGTCGT 59.510 61.111 0.00 0.00 0.00 4.34
114 115 4.379243 CCAGCAGAGCGTCGGGTT 62.379 66.667 0.00 0.00 0.00 4.11
153 157 1.004745 GATGATGAACCCACCCAGTGT 59.995 52.381 0.00 0.00 0.00 3.55
157 161 1.920734 CGGGATGATGAACCCACCCA 61.921 60.000 0.00 0.00 45.83 4.51
182 187 4.074526 GAGCAGGCAGAGGCGTCA 62.075 66.667 9.41 0.00 42.47 4.35
279 305 2.280524 CACCGACAGGCCGAACAA 60.281 61.111 0.00 0.00 42.76 2.83
285 311 3.936203 TGTCACCACCGACAGGCC 61.936 66.667 0.00 0.00 40.94 5.19
289 315 2.842462 AGGCTGTCACCACCGACA 60.842 61.111 0.00 0.00 43.54 4.35
382 410 3.233231 GCCACCCAGCCAAAGCAA 61.233 61.111 0.00 0.00 43.56 3.91
420 448 3.228453 CTGAAGAAGTATACGGCCCCTA 58.772 50.000 0.00 0.00 0.00 3.53
451 485 1.074167 ATCTCCCCTCCATTCGGCT 60.074 57.895 0.00 0.00 0.00 5.52
566 692 2.325082 GCCGGCTGAAGCGAAAAGA 61.325 57.895 22.15 0.00 43.26 2.52
648 775 1.067060 GGGCCTTGTTTATTGCCGATC 59.933 52.381 0.84 0.00 44.96 3.69
650 777 0.039035 AGGGCCTTGTTTATTGCCGA 59.961 50.000 0.00 0.00 44.96 5.54
717 846 1.768870 CGTCCCCAACATCCTCCTAAT 59.231 52.381 0.00 0.00 0.00 1.73
720 849 2.670148 GCGTCCCCAACATCCTCCT 61.670 63.158 0.00 0.00 0.00 3.69
723 853 3.000819 TCGCGTCCCCAACATCCT 61.001 61.111 5.77 0.00 0.00 3.24
725 855 2.100631 CACTCGCGTCCCCAACATC 61.101 63.158 5.77 0.00 0.00 3.06
744 874 6.491714 AGTTGTACATCATTAGAGCATCCT 57.508 37.500 6.70 0.00 33.66 3.24
745 875 6.989169 AGAAGTTGTACATCATTAGAGCATCC 59.011 38.462 6.70 0.00 33.66 3.51
777 907 8.766000 TGCAGTCTCTAAAATCGTTTTGTATA 57.234 30.769 6.13 0.00 34.19 1.47
778 908 7.602644 TCTGCAGTCTCTAAAATCGTTTTGTAT 59.397 33.333 14.67 0.00 34.19 2.29
792 922 6.824553 AGCAAATGAATATCTGCAGTCTCTA 58.175 36.000 14.67 2.28 37.26 2.43
827 960 1.225704 GGCTGCTCAGGGCTGTTAT 59.774 57.895 0.00 0.00 42.39 1.89
927 1067 3.397955 AGGGAAAGAAGGGTAGAAGCAAA 59.602 43.478 0.00 0.00 0.00 3.68
1123 1263 2.294233 CCAATCCCCAATACAAGCGATG 59.706 50.000 0.00 0.00 0.00 3.84
1245 1385 8.619546 ACGAGAAACAGACTAATATACCACTAC 58.380 37.037 0.00 0.00 0.00 2.73
1304 1444 6.882768 AATGGAATGGTTCTCTAGTCTCTT 57.117 37.500 0.00 0.00 0.00 2.85
1713 1853 2.086610 AACTGCAAGGTGAAATGGGT 57.913 45.000 0.00 0.00 39.30 4.51
1756 1896 1.171308 CAGGCAATTGGTCACTCTGG 58.829 55.000 7.72 0.00 0.00 3.86
1848 1988 4.465632 TGTAAGAGCGGCAAGAATCTTA 57.534 40.909 1.45 3.66 34.08 2.10
1958 2098 2.040947 TCATCCACATTAACCTGGCACA 59.959 45.455 0.00 0.00 0.00 4.57
2078 2218 2.695359 TGACGGCAGTAGATTTTCCAC 58.305 47.619 0.00 0.00 0.00 4.02
2127 2267 3.326006 CCTGTCTGACTATGGTGGCATAT 59.674 47.826 9.51 0.00 0.00 1.78
2621 2761 5.127519 TGAATCGCCCATCATTCTTGATTTT 59.872 36.000 0.00 0.00 40.70 1.82
2787 2927 4.201910 CGCTAAGTGTTTGGATATTGGTGG 60.202 45.833 0.00 0.00 0.00 4.61
2813 2953 4.442753 GGGCTTCACAAGTGGAAAATGAAA 60.443 41.667 0.00 0.00 0.00 2.69
2973 3123 3.636231 CCAGGCACCCACGGAAGA 61.636 66.667 0.00 0.00 0.00 2.87
2979 3129 1.760480 AAACCAACCAGGCACCCAC 60.760 57.895 0.00 0.00 43.14 4.61
3006 3156 6.203915 GGATACATCAACAACCATTACGCATA 59.796 38.462 0.00 0.00 0.00 3.14
3007 3157 5.008613 GGATACATCAACAACCATTACGCAT 59.991 40.000 0.00 0.00 0.00 4.73
3069 3219 6.656902 AGTCAGCATCTTCAAATAATCCAGA 58.343 36.000 0.00 0.00 0.00 3.86
3171 3321 8.647796 ACGAGAGGTTTGGAATGTGATAATATA 58.352 33.333 0.00 0.00 0.00 0.86
3172 3322 7.509546 ACGAGAGGTTTGGAATGTGATAATAT 58.490 34.615 0.00 0.00 0.00 1.28
3609 3781 3.838271 ACCAGATCGCCGACGCAT 61.838 61.111 0.00 0.00 39.84 4.73
3642 3824 3.195610 TGCTCGTCACCATCACTTATCTT 59.804 43.478 0.00 0.00 0.00 2.40
3647 3829 2.254546 TTTGCTCGTCACCATCACTT 57.745 45.000 0.00 0.00 0.00 3.16
3784 3978 1.021968 GACCACCCACAACAACACTC 58.978 55.000 0.00 0.00 0.00 3.51
3828 4022 1.237285 CCAGACCACCTTCAAAGCCG 61.237 60.000 0.00 0.00 0.00 5.52
4019 4239 1.225855 CTTAAGCGCCGCCATCATTA 58.774 50.000 4.98 0.00 0.00 1.90
4086 4311 2.283676 TCGTCCACTGGTCCCTCC 60.284 66.667 0.00 0.00 0.00 4.30
4353 4628 0.253160 AATCCTGTGGCCACCCTAGA 60.253 55.000 32.62 22.36 0.00 2.43
4367 4642 1.143813 CAGGCCCACCATCTAATCCT 58.856 55.000 0.00 0.00 39.06 3.24
4426 4701 0.685660 ACCTTCCTTCCGACCTCAAC 59.314 55.000 0.00 0.00 0.00 3.18
4436 4711 0.178961 ACCCAAAGCCACCTTCCTTC 60.179 55.000 0.00 0.00 0.00 3.46
4437 4712 0.264657 AACCCAAAGCCACCTTCCTT 59.735 50.000 0.00 0.00 0.00 3.36
4663 5011 4.081322 AGAGGCACGTTTCTTTTCCTTA 57.919 40.909 0.00 0.00 0.00 2.69
4828 5176 7.754851 AACCAACGAAATTTTCCTAGTACAT 57.245 32.000 3.61 0.00 0.00 2.29
4946 5294 5.101628 TCATCAATTTTCGCTAAATGTGGC 58.898 37.500 0.00 0.00 36.57 5.01
5019 5367 0.178995 TTGCTGGCATTCACACAGGA 60.179 50.000 0.00 0.00 32.98 3.86
5204 5552 2.877786 TGCAGAAAAGCACGATCTTTGA 59.122 40.909 7.26 0.00 40.11 2.69
5352 5700 7.341445 AGTTTTACAGGAATAGTGTGCAAAA 57.659 32.000 0.00 0.00 0.00 2.44
5353 5701 6.952773 AGTTTTACAGGAATAGTGTGCAAA 57.047 33.333 0.00 0.00 0.00 3.68
5354 5702 7.717875 AGTTAGTTTTACAGGAATAGTGTGCAA 59.282 33.333 0.00 0.00 0.00 4.08
5355 5703 7.172532 CAGTTAGTTTTACAGGAATAGTGTGCA 59.827 37.037 0.00 0.00 0.00 4.57
5356 5704 7.386848 TCAGTTAGTTTTACAGGAATAGTGTGC 59.613 37.037 0.00 0.00 0.00 4.57
5432 5911 7.043059 GCAGCGCAGAGTTTATATATAATCCTC 60.043 40.741 11.47 17.20 0.00 3.71
5445 5924 1.103398 AACCTTGCAGCGCAGAGTTT 61.103 50.000 11.47 0.00 40.61 2.66
5501 5980 7.734942 TCCTATGCTGAATGATTGTGTATGTA 58.265 34.615 0.00 0.00 0.00 2.29
5611 6091 4.999311 ACGGAGGGAGTAACAATTTACAAC 59.001 41.667 0.00 0.00 40.25 3.32
5623 6103 2.090943 ACATTATGGGACGGAGGGAGTA 60.091 50.000 0.00 0.00 0.00 2.59
5624 6104 1.344087 ACATTATGGGACGGAGGGAGT 60.344 52.381 0.00 0.00 0.00 3.85
5625 6105 1.344763 GACATTATGGGACGGAGGGAG 59.655 57.143 0.00 0.00 0.00 4.30
5626 6106 1.343580 TGACATTATGGGACGGAGGGA 60.344 52.381 0.00 0.00 0.00 4.20
5627 6107 1.128200 TGACATTATGGGACGGAGGG 58.872 55.000 0.00 0.00 0.00 4.30
5628 6108 3.275617 TTTGACATTATGGGACGGAGG 57.724 47.619 0.00 0.00 0.00 4.30
5647 6127 6.938030 TCTGTCCCATAATGTAAGACGTTTTT 59.062 34.615 0.00 0.00 0.00 1.94
5648 6128 6.469410 TCTGTCCCATAATGTAAGACGTTTT 58.531 36.000 0.00 0.00 0.00 2.43
5649 6129 6.045072 TCTGTCCCATAATGTAAGACGTTT 57.955 37.500 0.00 0.00 0.00 3.60
5650 6130 5.395324 CCTCTGTCCCATAATGTAAGACGTT 60.395 44.000 0.00 0.00 0.00 3.99
5651 6131 4.099573 CCTCTGTCCCATAATGTAAGACGT 59.900 45.833 0.00 0.00 0.00 4.34
5652 6132 4.501571 CCCTCTGTCCCATAATGTAAGACG 60.502 50.000 0.00 0.00 0.00 4.18
5653 6133 4.654262 TCCCTCTGTCCCATAATGTAAGAC 59.346 45.833 0.00 0.00 0.00 3.01
5654 6134 4.890988 TCCCTCTGTCCCATAATGTAAGA 58.109 43.478 0.00 0.00 0.00 2.10
5655 6135 4.656112 ACTCCCTCTGTCCCATAATGTAAG 59.344 45.833 0.00 0.00 0.00 2.34
5656 6136 4.631234 ACTCCCTCTGTCCCATAATGTAA 58.369 43.478 0.00 0.00 0.00 2.41
5657 6137 4.280789 ACTCCCTCTGTCCCATAATGTA 57.719 45.455 0.00 0.00 0.00 2.29
5658 6138 3.136641 ACTCCCTCTGTCCCATAATGT 57.863 47.619 0.00 0.00 0.00 2.71
5659 6139 3.007398 GCTACTCCCTCTGTCCCATAATG 59.993 52.174 0.00 0.00 0.00 1.90
5660 6140 3.116551 AGCTACTCCCTCTGTCCCATAAT 60.117 47.826 0.00 0.00 0.00 1.28
5661 6141 2.247635 AGCTACTCCCTCTGTCCCATAA 59.752 50.000 0.00 0.00 0.00 1.90
5662 6142 1.860240 AGCTACTCCCTCTGTCCCATA 59.140 52.381 0.00 0.00 0.00 2.74
5663 6143 0.639392 AGCTACTCCCTCTGTCCCAT 59.361 55.000 0.00 0.00 0.00 4.00
5664 6144 0.413832 AAGCTACTCCCTCTGTCCCA 59.586 55.000 0.00 0.00 0.00 4.37
5665 6145 1.574263 AAAGCTACTCCCTCTGTCCC 58.426 55.000 0.00 0.00 0.00 4.46
5666 6146 3.118702 GGTAAAAGCTACTCCCTCTGTCC 60.119 52.174 0.00 0.00 0.00 4.02
5667 6147 3.429135 CGGTAAAAGCTACTCCCTCTGTC 60.429 52.174 0.00 0.00 0.00 3.51
5668 6148 2.496470 CGGTAAAAGCTACTCCCTCTGT 59.504 50.000 0.00 0.00 0.00 3.41
5669 6149 2.758979 TCGGTAAAAGCTACTCCCTCTG 59.241 50.000 0.00 0.00 0.00 3.35
5670 6150 3.097342 TCGGTAAAAGCTACTCCCTCT 57.903 47.619 0.00 0.00 0.00 3.69
5671 6151 3.718815 CATCGGTAAAAGCTACTCCCTC 58.281 50.000 0.00 0.00 0.00 4.30
5672 6152 2.158943 GCATCGGTAAAAGCTACTCCCT 60.159 50.000 0.00 0.00 0.00 4.20
5673 6153 2.210961 GCATCGGTAAAAGCTACTCCC 58.789 52.381 0.00 0.00 0.00 4.30
5674 6154 2.210961 GGCATCGGTAAAAGCTACTCC 58.789 52.381 0.00 0.00 0.00 3.85
5675 6155 2.210961 GGGCATCGGTAAAAGCTACTC 58.789 52.381 0.00 0.00 0.00 2.59
5676 6156 1.557832 TGGGCATCGGTAAAAGCTACT 59.442 47.619 0.00 0.00 0.00 2.57
5677 6157 1.669265 GTGGGCATCGGTAAAAGCTAC 59.331 52.381 0.00 0.00 0.00 3.58
5734 6214 6.366604 TCATTGCACAAATAAGCAGATGTTTG 59.633 34.615 0.00 5.33 42.39 2.93
5823 6310 4.566004 TCGGTGAGACAACTTATTTCTGG 58.434 43.478 0.00 0.00 0.00 3.86
5824 6311 4.092091 GCTCGGTGAGACAACTTATTTCTG 59.908 45.833 0.00 0.00 0.00 3.02
5825 6312 4.246458 GCTCGGTGAGACAACTTATTTCT 58.754 43.478 0.00 0.00 0.00 2.52
5826 6313 3.371285 GGCTCGGTGAGACAACTTATTTC 59.629 47.826 0.00 0.00 37.69 2.17
5827 6314 3.008049 AGGCTCGGTGAGACAACTTATTT 59.992 43.478 2.00 0.00 40.81 1.40
5828 6315 2.567615 AGGCTCGGTGAGACAACTTATT 59.432 45.455 2.00 0.00 40.81 1.40
5829 6316 2.166664 GAGGCTCGGTGAGACAACTTAT 59.833 50.000 0.00 0.00 40.81 1.73
5830 6317 1.544691 GAGGCTCGGTGAGACAACTTA 59.455 52.381 0.00 0.00 40.81 2.24
5831 6318 0.318762 GAGGCTCGGTGAGACAACTT 59.681 55.000 0.00 0.00 40.81 2.66
5832 6319 1.536943 GGAGGCTCGGTGAGACAACT 61.537 60.000 8.69 0.00 40.81 3.16
5833 6320 1.079750 GGAGGCTCGGTGAGACAAC 60.080 63.158 8.69 0.00 40.81 3.32
5834 6321 1.228894 AGGAGGCTCGGTGAGACAA 60.229 57.895 8.69 0.00 40.81 3.18
5835 6322 1.679305 GAGGAGGCTCGGTGAGACA 60.679 63.158 8.69 0.00 40.81 3.41
5836 6323 1.251527 TTGAGGAGGCTCGGTGAGAC 61.252 60.000 8.69 0.00 38.12 3.36
5837 6324 1.076727 TTGAGGAGGCTCGGTGAGA 59.923 57.895 8.69 0.00 0.00 3.27
5838 6325 1.216710 GTTGAGGAGGCTCGGTGAG 59.783 63.158 8.69 0.00 0.00 3.51
5839 6326 2.636412 CGTTGAGGAGGCTCGGTGA 61.636 63.158 8.69 0.00 0.00 4.02
5840 6327 1.949847 ATCGTTGAGGAGGCTCGGTG 61.950 60.000 8.69 0.00 0.00 4.94
5841 6328 1.258445 AATCGTTGAGGAGGCTCGGT 61.258 55.000 8.69 0.00 0.00 4.69
5842 6329 0.108138 AAATCGTTGAGGAGGCTCGG 60.108 55.000 8.69 0.00 0.00 4.63
5843 6330 1.002366 CAAATCGTTGAGGAGGCTCG 58.998 55.000 8.69 0.00 36.83 5.03
5844 6331 1.066143 TCCAAATCGTTGAGGAGGCTC 60.066 52.381 5.78 5.78 36.83 4.70
5845 6332 0.984230 TCCAAATCGTTGAGGAGGCT 59.016 50.000 0.00 0.00 36.83 4.58
5846 6333 2.044123 ATCCAAATCGTTGAGGAGGC 57.956 50.000 0.00 0.00 36.83 4.70
5847 6334 4.095483 CAGAAATCCAAATCGTTGAGGAGG 59.905 45.833 0.00 0.00 36.83 4.30
5855 6343 3.053831 ACGGTCAGAAATCCAAATCGT 57.946 42.857 0.00 0.00 0.00 3.73
5858 6346 2.231235 GCCAACGGTCAGAAATCCAAAT 59.769 45.455 0.00 0.00 0.00 2.32
5861 6349 0.400213 AGCCAACGGTCAGAAATCCA 59.600 50.000 0.00 0.00 0.00 3.41
5871 6359 2.438434 GCAGCCATAGCCAACGGT 60.438 61.111 0.00 0.00 41.25 4.83
5879 6367 1.463831 GATCGCATCAAGCAGCCATAG 59.536 52.381 0.00 0.00 46.13 2.23
5881 6369 0.179026 AGATCGCATCAAGCAGCCAT 60.179 50.000 0.00 0.00 46.13 4.40
5882 6370 1.093496 CAGATCGCATCAAGCAGCCA 61.093 55.000 0.00 0.00 46.13 4.75
5883 6371 1.647629 CAGATCGCATCAAGCAGCC 59.352 57.895 0.00 0.00 46.13 4.85
5885 6373 1.783031 GCCCAGATCGCATCAAGCAG 61.783 60.000 0.00 0.00 46.13 4.24
5918 6407 2.257371 CGAGCGAGGTCGTTCCAA 59.743 61.111 15.45 0.00 44.87 3.53
5955 6445 5.753921 CGAGGTGAAACTATTCATTCCTACC 59.246 44.000 1.94 0.00 46.67 3.18
5994 6484 2.361789 GACGGGGCAAAGCTATTTACA 58.638 47.619 0.00 0.00 0.00 2.41
6006 6496 2.463589 AAAATGCTCTCGACGGGGCA 62.464 55.000 12.29 12.29 39.06 5.36
6043 6533 2.806244 GGAGCGGACGCAATTTATATGT 59.194 45.455 19.48 0.00 44.88 2.29
6098 6588 2.048222 CAAGGGTTGAGAGCGCGA 60.048 61.111 12.10 0.00 0.00 5.87
6104 6594 1.192146 CGGGAGGACAAGGGTTGAGA 61.192 60.000 0.00 0.00 0.00 3.27
6114 6604 3.083349 CTGGGATGCGGGAGGACA 61.083 66.667 0.00 0.00 0.00 4.02
6157 6647 0.545548 GTCTGGTGGAGGGAGAGGTT 60.546 60.000 0.00 0.00 0.00 3.50
6277 6793 2.191400 TCCCTTCTGATGACAAGAGGG 58.809 52.381 2.50 2.50 43.66 4.30
6283 6799 2.342406 TCCCTTCCCTTCTGATGACA 57.658 50.000 0.00 0.00 0.00 3.58
6356 6877 1.270094 GGATGACATCACCGGCGAATA 60.270 52.381 17.08 0.00 0.00 1.75
6373 6894 3.470888 CGGAGGCCAAGGTCGGAT 61.471 66.667 5.01 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.