Multiple sequence alignment - TraesCS3D01G386200

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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 TraesCS3D01G386200 chr3D 100.000 3509 0 0 1 3509 501479738 501476230 0.000000e+00 6481.0
1 TraesCS3D01G386200 chr3D 95.167 2152 61 13 441 2582 501513558 501511440 0.000000e+00 3358.0
2 TraesCS3D01G386200 chr3D 91.405 1722 101 22 869 2582 501790852 501789170 0.000000e+00 2316.0
3 TraesCS3D01G386200 chr3D 91.988 337 25 1 111 445 501528089 501527753 4.100000e-129 472.0
4 TraesCS3D01G386200 chr3B 94.144 2459 104 17 101 2536 663036854 663039295 0.000000e+00 3707.0
5 TraesCS3D01G386200 chr3B 92.932 1627 91 16 869 2486 663086705 663085094 0.000000e+00 2346.0
6 TraesCS3D01G386200 chr3B 89.818 550 37 6 2785 3328 663039712 663040248 0.000000e+00 688.0
7 TraesCS3D01G386200 chr3B 97.872 94 2 0 2 95 663036716 663036809 2.800000e-36 163.0
8 TraesCS3D01G386200 chr3B 86.087 115 11 4 344 456 696701919 696702030 6.150000e-23 119.0
9 TraesCS3D01G386200 chr3A 90.167 1800 134 30 869 2646 641172481 641170703 0.000000e+00 2303.0
10 TraesCS3D01G386200 chr3A 90.572 1644 106 16 922 2563 641638844 641640440 0.000000e+00 2132.0
11 TraesCS3D01G386200 chr3A 88.727 550 49 9 2787 3328 641170701 641170157 0.000000e+00 660.0
12 TraesCS3D01G386200 chr3A 89.796 98 9 1 360 456 9972130 9972033 1.320000e-24 124.0
13 TraesCS3D01G386200 chr6D 83.230 1455 232 10 1024 2475 5942424 5940979 0.000000e+00 1325.0
14 TraesCS3D01G386200 chr6D 94.400 125 7 0 3328 3452 154592287 154592411 3.570000e-45 193.0
15 TraesCS3D01G386200 chr6D 92.188 128 10 0 3328 3455 136731713 136731586 7.740000e-42 182.0
16 TraesCS3D01G386200 chr6D 92.126 127 10 0 3329 3455 136738040 136737914 2.780000e-41 180.0
17 TraesCS3D01G386200 chr6D 87.234 94 11 1 500 593 45516187 45516095 4.790000e-19 106.0
18 TraesCS3D01G386200 chr6D 98.182 55 1 0 3455 3509 60515275 60515221 2.880000e-16 97.1
19 TraesCS3D01G386200 chr6D 81.513 119 13 4 360 470 292380369 292380486 4.820000e-14 89.8
20 TraesCS3D01G386200 chr7D 82.653 1470 232 16 1025 2481 40033365 40031906 0.000000e+00 1280.0
21 TraesCS3D01G386200 chr7D 98.113 53 1 0 3454 3506 385427914 385427966 3.730000e-15 93.5
22 TraesCS3D01G386200 chr6B 82.436 1412 242 5 1064 2475 11246649 11245244 0.000000e+00 1229.0
23 TraesCS3D01G386200 chr6B 92.174 115 8 1 3341 3455 139446847 139446960 1.010000e-35 161.0
24 TraesCS3D01G386200 chr7A 91.852 135 10 1 3328 3462 102660952 102661085 1.660000e-43 187.0
25 TraesCS3D01G386200 chr7A 92.188 128 10 0 3328 3455 277487082 277486955 7.740000e-42 182.0
26 TraesCS3D01G386200 chr7A 92.742 124 9 0 3329 3452 380878377 380878500 2.780000e-41 180.0
27 TraesCS3D01G386200 chr7A 91.200 125 11 0 3328 3452 380884524 380884648 1.670000e-38 171.0
28 TraesCS3D01G386200 chr7A 86.087 115 11 4 344 456 51358557 51358668 6.150000e-23 119.0
29 TraesCS3D01G386200 chr6A 88.596 114 13 0 360 473 430338894 430338781 4.720000e-29 139.0
30 TraesCS3D01G386200 chr6A 88.406 69 7 1 365 433 532008451 532008518 8.070000e-12 82.4
31 TraesCS3D01G386200 chr2B 90.476 105 9 1 3349 3452 734338504 734338608 1.700000e-28 137.0
32 TraesCS3D01G386200 chr2A 89.362 94 9 1 500 593 682726284 682726376 2.210000e-22 117.0
33 TraesCS3D01G386200 chr2A 88.421 95 10 1 499 593 335835264 335835171 2.860000e-21 113.0
34 TraesCS3D01G386200 chr5A 88.298 94 10 1 500 593 607216434 607216342 1.030000e-20 111.0
35 TraesCS3D01G386200 chr5A 100.000 28 0 0 2708 2735 548455768 548455795 6.000000e-03 52.8
36 TraesCS3D01G386200 chr5A 100.000 28 0 0 2708 2735 548496527 548496554 6.000000e-03 52.8
37 TraesCS3D01G386200 chr4A 88.298 94 10 1 500 593 73815366 73815274 1.030000e-20 111.0
38 TraesCS3D01G386200 chr5D 87.234 94 11 1 500 593 6185560 6185468 4.790000e-19 106.0
39 TraesCS3D01G386200 chr5D 87.234 94 11 1 500 593 483808206 483808114 4.790000e-19 106.0
40 TraesCS3D01G386200 chr5D 96.429 56 2 0 3454 3509 494755987 494755932 3.730000e-15 93.5
41 TraesCS3D01G386200 chr1D 87.234 94 11 1 500 593 487312759 487312667 4.790000e-19 106.0
42 TraesCS3D01G386200 chr1D 98.182 55 1 0 3455 3509 452268008 452267954 2.880000e-16 97.1
43 TraesCS3D01G386200 chr1D 96.429 56 2 0 3454 3509 41347225 41347170 3.730000e-15 93.5
44 TraesCS3D01G386200 chr1D 96.429 56 2 0 3454 3509 41383883 41383828 3.730000e-15 93.5
45 TraesCS3D01G386200 chr1D 96.429 56 2 0 3454 3509 479440468 479440413 3.730000e-15 93.5
46 TraesCS3D01G386200 chr2D 98.113 53 1 0 3454 3506 22959454 22959506 3.730000e-15 93.5
47 TraesCS3D01G386200 chrUn 98.077 52 1 0 3455 3506 46246609 46246660 1.340000e-14 91.6


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 TraesCS3D01G386200 chr3D 501476230 501479738 3508 True 6481.000000 6481 100.000000 1 3509 1 chr3D.!!$R1 3508
1 TraesCS3D01G386200 chr3D 501511440 501513558 2118 True 3358.000000 3358 95.167000 441 2582 1 chr3D.!!$R2 2141
2 TraesCS3D01G386200 chr3D 501789170 501790852 1682 True 2316.000000 2316 91.405000 869 2582 1 chr3D.!!$R4 1713
3 TraesCS3D01G386200 chr3B 663085094 663086705 1611 True 2346.000000 2346 92.932000 869 2486 1 chr3B.!!$R1 1617
4 TraesCS3D01G386200 chr3B 663036716 663040248 3532 False 1519.333333 3707 93.944667 2 3328 3 chr3B.!!$F2 3326
5 TraesCS3D01G386200 chr3A 641638844 641640440 1596 False 2132.000000 2132 90.572000 922 2563 1 chr3A.!!$F1 1641
6 TraesCS3D01G386200 chr3A 641170157 641172481 2324 True 1481.500000 2303 89.447000 869 3328 2 chr3A.!!$R2 2459
7 TraesCS3D01G386200 chr6D 5940979 5942424 1445 True 1325.000000 1325 83.230000 1024 2475 1 chr6D.!!$R1 1451
8 TraesCS3D01G386200 chr7D 40031906 40033365 1459 True 1280.000000 1280 82.653000 1025 2481 1 chr7D.!!$R1 1456
9 TraesCS3D01G386200 chr6B 11245244 11246649 1405 True 1229.000000 1229 82.436000 1064 2475 1 chr6B.!!$R1 1411

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
159 199 1.397343 GCGTAGATAGGATCGCGATCA 59.603 52.381 40.62 27.06 39.54 2.92 F
1128 1236 0.959867 TCGACACGTATCCGGTCCAA 60.960 55.000 0.00 0.00 38.78 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2486 2613 1.980765 AGTCATGCTTGGAGTCCTTGA 59.019 47.619 11.33 3.3 0.0 3.02 R
3372 3860 0.034337 ATCCACGTGCGGTTACAAGT 59.966 50.000 10.91 0.0 32.2 3.16 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
79 80 6.963322 AGAAGAAACTATCCTTAAGCCATGT 58.037 36.000 0.00 0.00 0.00 3.21
113 153 2.285220 GTGGGACATGATTTGACGATCG 59.715 50.000 14.88 14.88 44.52 3.69
159 199 1.397343 GCGTAGATAGGATCGCGATCA 59.603 52.381 40.62 27.06 39.54 2.92
162 202 3.846896 CGTAGATAGGATCGCGATCAAAC 59.153 47.826 40.62 28.43 39.54 2.93
319 359 3.282885 CTCCATCTGGGCTAGGTTTTTC 58.717 50.000 0.00 0.00 36.21 2.29
334 374 8.448615 GCTAGGTTTTTCGTGAACTTATTATGT 58.551 33.333 0.00 0.00 0.00 2.29
335 375 9.755064 CTAGGTTTTTCGTGAACTTATTATGTG 57.245 33.333 0.00 0.00 0.00 3.21
347 387 9.582431 TGAACTTATTATGTGCAACTACTACTC 57.418 33.333 0.00 0.00 38.04 2.59
752 833 7.672983 TTGCTTCTCTTCTACAAAACTATGG 57.327 36.000 0.00 0.00 0.00 2.74
1128 1236 0.959867 TCGACACGTATCCGGTCCAA 60.960 55.000 0.00 0.00 38.78 3.53
2486 2613 3.453679 GGAAGTCGGCGCTCTCCT 61.454 66.667 7.64 0.00 0.00 3.69
2497 2624 0.967887 CGCTCTCCTCAAGGACTCCA 60.968 60.000 0.00 0.00 39.78 3.86
2498 2625 1.270907 GCTCTCCTCAAGGACTCCAA 58.729 55.000 0.00 0.00 39.78 3.53
2538 2684 4.408694 ACGTGCGCTGAAATAAAATTACC 58.591 39.130 9.73 0.00 0.00 2.85
2582 3049 4.219288 GCATCAAAAAGGTGGAACAGATCT 59.781 41.667 0.00 0.00 41.80 2.75
2631 3100 1.269448 ACAGATCCGCAACGCAAAATT 59.731 42.857 0.00 0.00 0.00 1.82
2643 3112 7.838879 CCGCAACGCAAAATTAAAAATATACTG 59.161 33.333 0.00 0.00 0.00 2.74
2644 3113 8.579600 CGCAACGCAAAATTAAAAATATACTGA 58.420 29.630 0.00 0.00 0.00 3.41
2658 3127 9.503399 AAAAATATACTGATATTCCCTCCGTTC 57.497 33.333 0.00 0.00 37.27 3.95
2659 3128 7.792364 AATATACTGATATTCCCTCCGTTCA 57.208 36.000 0.00 0.00 33.72 3.18
2660 3129 7.792364 ATATACTGATATTCCCTCCGTTCAA 57.208 36.000 0.00 0.00 0.00 2.69
2661 3130 4.837093 ACTGATATTCCCTCCGTTCAAA 57.163 40.909 0.00 0.00 0.00 2.69
2662 3131 5.174037 ACTGATATTCCCTCCGTTCAAAA 57.826 39.130 0.00 0.00 0.00 2.44
2663 3132 5.566469 ACTGATATTCCCTCCGTTCAAAAA 58.434 37.500 0.00 0.00 0.00 1.94
2684 3153 4.415881 AAATTTGTCCCAAGTTTGTCCC 57.584 40.909 0.00 0.00 0.00 4.46
2685 3154 2.838637 TTTGTCCCAAGTTTGTCCCT 57.161 45.000 0.00 0.00 0.00 4.20
2686 3155 2.358322 TTGTCCCAAGTTTGTCCCTC 57.642 50.000 0.00 0.00 0.00 4.30
2687 3156 1.217916 TGTCCCAAGTTTGTCCCTCA 58.782 50.000 0.00 0.00 0.00 3.86
2688 3157 1.566703 TGTCCCAAGTTTGTCCCTCAA 59.433 47.619 0.00 0.00 0.00 3.02
2689 3158 2.024846 TGTCCCAAGTTTGTCCCTCAAA 60.025 45.455 0.00 0.00 42.79 2.69
2690 3159 3.230976 GTCCCAAGTTTGTCCCTCAAAT 58.769 45.455 0.00 0.00 45.88 2.32
2691 3160 3.005791 GTCCCAAGTTTGTCCCTCAAATG 59.994 47.826 0.00 0.00 45.88 2.32
2692 3161 3.117322 TCCCAAGTTTGTCCCTCAAATGA 60.117 43.478 0.00 0.00 45.88 2.57
2693 3162 3.834231 CCCAAGTTTGTCCCTCAAATGAT 59.166 43.478 0.00 0.00 45.88 2.45
2694 3163 4.322198 CCCAAGTTTGTCCCTCAAATGATG 60.322 45.833 0.00 0.00 45.88 3.07
2695 3164 4.281688 CCAAGTTTGTCCCTCAAATGATGT 59.718 41.667 0.00 0.00 45.88 3.06
2696 3165 5.476599 CCAAGTTTGTCCCTCAAATGATGTA 59.523 40.000 0.00 0.00 45.88 2.29
2697 3166 6.153340 CCAAGTTTGTCCCTCAAATGATGTAT 59.847 38.462 0.00 0.00 45.88 2.29
2698 3167 7.253422 CAAGTTTGTCCCTCAAATGATGTATC 58.747 38.462 0.00 0.00 45.88 2.24
2699 3168 6.725364 AGTTTGTCCCTCAAATGATGTATCT 58.275 36.000 0.00 0.00 45.88 1.98
2700 3169 7.861629 AGTTTGTCCCTCAAATGATGTATCTA 58.138 34.615 0.00 0.00 45.88 1.98
2701 3170 7.989741 AGTTTGTCCCTCAAATGATGTATCTAG 59.010 37.037 0.00 0.00 45.88 2.43
2702 3171 5.858381 TGTCCCTCAAATGATGTATCTAGC 58.142 41.667 0.00 0.00 0.00 3.42
2703 3172 5.366477 TGTCCCTCAAATGATGTATCTAGCA 59.634 40.000 0.00 0.00 0.00 3.49
2704 3173 5.698545 GTCCCTCAAATGATGTATCTAGCAC 59.301 44.000 0.00 0.00 0.00 4.40
2705 3174 4.999950 CCCTCAAATGATGTATCTAGCACC 59.000 45.833 0.00 0.00 0.00 5.01
2706 3175 5.455183 CCCTCAAATGATGTATCTAGCACCA 60.455 44.000 0.00 0.00 0.00 4.17
2707 3176 6.236409 CCTCAAATGATGTATCTAGCACCAT 58.764 40.000 0.00 0.00 0.00 3.55
2708 3177 6.370994 CCTCAAATGATGTATCTAGCACCATC 59.629 42.308 7.84 7.84 35.40 3.51
2709 3178 6.829849 TCAAATGATGTATCTAGCACCATCA 58.170 36.000 15.66 15.66 45.40 3.07
2710 3179 7.281841 TCAAATGATGTATCTAGCACCATCAA 58.718 34.615 16.66 4.02 44.73 2.57
2711 3180 7.443272 TCAAATGATGTATCTAGCACCATCAAG 59.557 37.037 16.66 11.95 44.73 3.02
2712 3181 4.635223 TGATGTATCTAGCACCATCAAGC 58.365 43.478 12.67 0.00 40.36 4.01
2713 3182 4.346127 TGATGTATCTAGCACCATCAAGCT 59.654 41.667 12.67 0.00 40.36 3.74
2714 3183 4.760530 TGTATCTAGCACCATCAAGCTT 57.239 40.909 0.00 0.00 42.05 3.74
2715 3184 4.445453 TGTATCTAGCACCATCAAGCTTG 58.555 43.478 20.81 20.81 42.05 4.01
2716 3185 3.641434 ATCTAGCACCATCAAGCTTGT 57.359 42.857 25.19 10.69 42.05 3.16
2717 3186 3.423539 TCTAGCACCATCAAGCTTGTT 57.576 42.857 25.19 15.14 42.05 2.83
2718 3187 3.338249 TCTAGCACCATCAAGCTTGTTC 58.662 45.455 25.19 6.14 42.05 3.18
2719 3188 1.251251 AGCACCATCAAGCTTGTTCC 58.749 50.000 25.19 9.61 38.01 3.62
2720 3189 1.202976 AGCACCATCAAGCTTGTTCCT 60.203 47.619 25.19 11.50 38.01 3.36
2721 3190 1.200948 GCACCATCAAGCTTGTTCCTC 59.799 52.381 25.19 8.61 0.00 3.71
2722 3191 2.507484 CACCATCAAGCTTGTTCCTCA 58.493 47.619 25.19 6.03 0.00 3.86
2723 3192 2.886523 CACCATCAAGCTTGTTCCTCAA 59.113 45.455 25.19 5.26 34.61 3.02
2724 3193 3.318839 CACCATCAAGCTTGTTCCTCAAA 59.681 43.478 25.19 4.49 35.48 2.69
2725 3194 4.021719 CACCATCAAGCTTGTTCCTCAAAT 60.022 41.667 25.19 6.76 35.48 2.32
2726 3195 4.021719 ACCATCAAGCTTGTTCCTCAAATG 60.022 41.667 25.19 17.45 35.48 2.32
2727 3196 4.491676 CATCAAGCTTGTTCCTCAAATGG 58.508 43.478 25.19 0.00 35.48 3.16
2728 3197 3.831323 TCAAGCTTGTTCCTCAAATGGA 58.169 40.909 25.19 0.00 35.48 3.41
2729 3198 4.410099 TCAAGCTTGTTCCTCAAATGGAT 58.590 39.130 25.19 0.00 35.83 3.41
2730 3199 5.569355 TCAAGCTTGTTCCTCAAATGGATA 58.431 37.500 25.19 0.00 35.83 2.59
2731 3200 6.189859 TCAAGCTTGTTCCTCAAATGGATAT 58.810 36.000 25.19 0.00 35.83 1.63
2732 3201 7.345691 TCAAGCTTGTTCCTCAAATGGATATA 58.654 34.615 25.19 0.00 35.83 0.86
2733 3202 8.000709 TCAAGCTTGTTCCTCAAATGGATATAT 58.999 33.333 25.19 0.00 35.83 0.86
2734 3203 7.992754 AGCTTGTTCCTCAAATGGATATATC 57.007 36.000 3.96 3.96 35.83 1.63
2735 3204 7.753630 AGCTTGTTCCTCAAATGGATATATCT 58.246 34.615 12.42 0.00 35.83 1.98
2736 3205 7.664731 AGCTTGTTCCTCAAATGGATATATCTG 59.335 37.037 12.42 3.34 35.83 2.90
2737 3206 7.663081 GCTTGTTCCTCAAATGGATATATCTGA 59.337 37.037 12.42 7.33 35.83 3.27
2738 3207 9.736414 CTTGTTCCTCAAATGGATATATCTGAT 57.264 33.333 12.42 2.84 35.83 2.90
2739 3208 9.511272 TTGTTCCTCAAATGGATATATCTGATG 57.489 33.333 12.42 5.85 35.83 3.07
2740 3209 7.609146 TGTTCCTCAAATGGATATATCTGATGC 59.391 37.037 12.42 0.00 35.83 3.91
2741 3210 7.506361 TCCTCAAATGGATATATCTGATGCT 57.494 36.000 12.42 0.00 0.00 3.79
2742 3211 8.613922 TCCTCAAATGGATATATCTGATGCTA 57.386 34.615 12.42 0.00 0.00 3.49
2743 3212 9.222098 TCCTCAAATGGATATATCTGATGCTAT 57.778 33.333 12.42 0.00 0.00 2.97
2764 3233 9.944376 TGCTATACATCTATTTGAGGGATAAAC 57.056 33.333 0.00 0.00 32.57 2.01
2770 3239 9.190317 ACATCTATTTGAGGGATAAACTTTTCC 57.810 33.333 0.00 0.00 0.00 3.13
2771 3240 7.859325 TCTATTTGAGGGATAAACTTTTCCG 57.141 36.000 0.00 0.00 32.48 4.30
2772 3241 5.914898 ATTTGAGGGATAAACTTTTCCGG 57.085 39.130 0.00 0.00 32.48 5.14
2773 3242 3.359695 TGAGGGATAAACTTTTCCGGG 57.640 47.619 0.00 0.00 32.48 5.73
2774 3243 2.914278 TGAGGGATAAACTTTTCCGGGA 59.086 45.455 0.00 0.00 32.48 5.14
2775 3244 3.276857 GAGGGATAAACTTTTCCGGGAC 58.723 50.000 0.00 0.00 32.48 4.46
2796 3265 3.386078 ACGGAGTGAGTATGAAGCATGAT 59.614 43.478 0.00 0.00 42.51 2.45
2798 3267 3.497640 GGAGTGAGTATGAAGCATGATGC 59.502 47.826 9.89 9.89 45.46 3.91
2828 3297 9.916397 CTATAAAATTGTCAAACAGTATCCGAC 57.084 33.333 0.00 0.00 0.00 4.79
2833 3302 1.899814 TCAAACAGTATCCGACCTGCT 59.100 47.619 0.00 0.00 0.00 4.24
2863 3332 3.019964 GCACATGTGTGGGAGACAA 57.980 52.632 26.01 0.00 45.72 3.18
2870 3339 1.283613 TGTGTGGGAGACAACACCTTT 59.716 47.619 3.18 0.00 35.91 3.11
2978 3451 2.615447 CAGTCTGATGCAACAAGTGTGT 59.385 45.455 0.00 0.00 40.75 3.72
2982 3455 5.532406 AGTCTGATGCAACAAGTGTGTAAAT 59.468 36.000 0.00 0.00 36.80 1.40
2983 3456 6.039717 AGTCTGATGCAACAAGTGTGTAAATT 59.960 34.615 0.00 0.00 36.80 1.82
3064 3540 8.714179 ACAGTGCAATTGTTTTATCATCATTTG 58.286 29.630 7.40 0.00 29.90 2.32
3134 3613 5.130975 TGCCTCTATTCATTCTAGCTTGGAA 59.869 40.000 0.00 0.00 0.00 3.53
3200 3680 6.737254 ATTGTTTATCGGGTGTTTCTAGTG 57.263 37.500 0.00 0.00 0.00 2.74
3201 3681 3.998341 TGTTTATCGGGTGTTTCTAGTGC 59.002 43.478 0.00 0.00 0.00 4.40
3382 3870 9.367444 AGTTAATTCAATCTCTACTTGTAACCG 57.633 33.333 0.00 0.00 0.00 4.44
3383 3871 6.663944 AATTCAATCTCTACTTGTAACCGC 57.336 37.500 0.00 0.00 0.00 5.68
3384 3872 4.794278 TCAATCTCTACTTGTAACCGCA 57.206 40.909 0.00 0.00 0.00 5.69
3385 3873 4.491676 TCAATCTCTACTTGTAACCGCAC 58.508 43.478 0.00 0.00 0.00 5.34
3386 3874 2.624316 TCTCTACTTGTAACCGCACG 57.376 50.000 0.00 0.00 0.00 5.34
3387 3875 1.881973 TCTCTACTTGTAACCGCACGT 59.118 47.619 0.00 0.00 0.00 4.49
3388 3876 1.983605 CTCTACTTGTAACCGCACGTG 59.016 52.381 12.28 12.28 0.00 4.49
3389 3877 1.065358 CTACTTGTAACCGCACGTGG 58.935 55.000 18.88 3.64 0.00 4.94
3390 3878 0.672889 TACTTGTAACCGCACGTGGA 59.327 50.000 18.88 0.00 0.00 4.02
3391 3879 0.034337 ACTTGTAACCGCACGTGGAT 59.966 50.000 18.88 0.00 0.00 3.41
3392 3880 1.273048 ACTTGTAACCGCACGTGGATA 59.727 47.619 18.88 0.00 0.00 2.59
3393 3881 2.093869 ACTTGTAACCGCACGTGGATAT 60.094 45.455 18.88 0.45 0.00 1.63
3394 3882 2.212869 TGTAACCGCACGTGGATATC 57.787 50.000 18.88 0.00 0.00 1.63
3395 3883 1.202440 TGTAACCGCACGTGGATATCC 60.202 52.381 18.88 15.39 0.00 2.59
3396 3884 0.390124 TAACCGCACGTGGATATCCC 59.610 55.000 19.34 9.45 34.29 3.85
3397 3885 2.030562 CCGCACGTGGATATCCCC 59.969 66.667 19.34 6.74 34.29 4.81
3398 3886 2.802724 CCGCACGTGGATATCCCCA 61.803 63.158 19.34 0.00 34.29 4.96
3414 3902 4.846551 CACAGTGTGGAACCGACA 57.153 55.556 15.86 0.00 34.36 4.35
3415 3903 3.305709 CACAGTGTGGAACCGACAT 57.694 52.632 15.86 0.00 34.36 3.06
3416 3904 2.448926 CACAGTGTGGAACCGACATA 57.551 50.000 15.86 0.00 34.36 2.29
3417 3905 2.972625 CACAGTGTGGAACCGACATAT 58.027 47.619 15.86 0.00 34.36 1.78
3418 3906 2.930040 CACAGTGTGGAACCGACATATC 59.070 50.000 15.86 0.00 34.36 1.63
3424 3912 2.104967 TGGAACCGACATATCGTTCCT 58.895 47.619 20.61 0.00 46.91 3.36
3425 3913 2.159156 TGGAACCGACATATCGTTCCTG 60.159 50.000 20.61 0.00 46.91 3.86
3426 3914 5.299450 TGGAACCGACATATCGTTCCTGG 62.299 52.174 20.61 0.00 46.91 4.45
3429 3917 1.772182 CGACATATCGTTCCTGGAGC 58.228 55.000 0.00 0.00 43.66 4.70
3430 3918 1.772182 GACATATCGTTCCTGGAGCG 58.228 55.000 24.58 24.58 37.60 5.03
3431 3919 1.067212 GACATATCGTTCCTGGAGCGT 59.933 52.381 28.04 18.97 37.52 5.07
3432 3920 1.067212 ACATATCGTTCCTGGAGCGTC 59.933 52.381 28.04 6.53 37.52 5.19
3433 3921 0.311165 ATATCGTTCCTGGAGCGTCG 59.689 55.000 28.04 16.49 37.52 5.12
3434 3922 2.332362 TATCGTTCCTGGAGCGTCGC 62.332 60.000 28.04 9.80 37.52 5.19
3436 3924 4.070552 GTTCCTGGAGCGTCGCCT 62.071 66.667 14.86 0.63 0.00 5.52
3437 3925 3.760035 TTCCTGGAGCGTCGCCTC 61.760 66.667 14.86 10.62 0.00 4.70
3443 3931 2.261671 GAGCGTCGCCTCCAAGAA 59.738 61.111 14.86 0.00 0.00 2.52
3444 3932 2.048127 AGCGTCGCCTCCAAGAAC 60.048 61.111 14.86 0.00 0.00 3.01
3445 3933 3.119096 GCGTCGCCTCCAAGAACC 61.119 66.667 5.75 0.00 0.00 3.62
3446 3934 2.809601 CGTCGCCTCCAAGAACCG 60.810 66.667 0.00 0.00 0.00 4.44
3447 3935 3.119096 GTCGCCTCCAAGAACCGC 61.119 66.667 0.00 0.00 0.00 5.68
3448 3936 4.388499 TCGCCTCCAAGAACCGCC 62.388 66.667 0.00 0.00 0.00 6.13
3449 3937 4.394712 CGCCTCCAAGAACCGCCT 62.395 66.667 0.00 0.00 0.00 5.52
3450 3938 2.034221 GCCTCCAAGAACCGCCTT 59.966 61.111 0.00 0.00 0.00 4.35
3451 3939 2.041115 GCCTCCAAGAACCGCCTTC 61.041 63.158 0.00 0.00 0.00 3.46
3452 3940 1.377333 CCTCCAAGAACCGCCTTCC 60.377 63.158 0.00 0.00 0.00 3.46
3453 3941 1.741770 CTCCAAGAACCGCCTTCCG 60.742 63.158 0.00 0.00 0.00 4.30
3454 3942 2.167398 CTCCAAGAACCGCCTTCCGA 62.167 60.000 0.00 0.00 40.02 4.55
3455 3943 1.741770 CCAAGAACCGCCTTCCGAG 60.742 63.158 0.00 0.00 40.02 4.63
3456 3944 1.292223 CAAGAACCGCCTTCCGAGA 59.708 57.895 0.00 0.00 40.02 4.04
3457 3945 0.737715 CAAGAACCGCCTTCCGAGAG 60.738 60.000 0.00 0.00 40.02 3.20
3458 3946 2.508586 AAGAACCGCCTTCCGAGAGC 62.509 60.000 0.00 0.00 40.02 4.09
3459 3947 3.296709 GAACCGCCTTCCGAGAGCA 62.297 63.158 0.00 0.00 40.02 4.26
3460 3948 2.579684 GAACCGCCTTCCGAGAGCAT 62.580 60.000 0.00 0.00 40.02 3.79
3461 3949 2.279784 CCGCCTTCCGAGAGCATC 60.280 66.667 0.00 0.00 40.02 3.91
3503 3991 1.510844 CCCCCAAGCGATTTTTCGG 59.489 57.895 0.00 0.00 0.00 4.30
3504 3992 1.153842 CCCCAAGCGATTTTTCGGC 60.154 57.895 0.00 0.00 0.00 5.54
3505 3993 1.153842 CCCAAGCGATTTTTCGGCC 60.154 57.895 0.00 0.00 0.00 6.13
3506 3994 1.583986 CCAAGCGATTTTTCGGCCA 59.416 52.632 2.24 0.00 0.00 5.36
3507 3995 0.732538 CCAAGCGATTTTTCGGCCAC 60.733 55.000 2.24 0.00 0.00 5.01
3508 3996 0.732538 CAAGCGATTTTTCGGCCACC 60.733 55.000 2.24 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 4.808042 AGATACATGCCTAATTTTGCCCT 58.192 39.130 0.00 0.00 0.00 5.19
95 96 3.186909 TCACGATCGTCAAATCATGTCC 58.813 45.455 19.84 0.00 0.00 4.02
96 97 4.105486 TCTCACGATCGTCAAATCATGTC 58.895 43.478 19.84 0.00 0.00 3.06
97 98 4.110036 TCTCACGATCGTCAAATCATGT 57.890 40.909 19.84 0.00 0.00 3.21
99 100 3.553511 GCTTCTCACGATCGTCAAATCAT 59.446 43.478 19.84 0.00 0.00 2.45
105 145 1.136774 CCGCTTCTCACGATCGTCA 59.863 57.895 19.84 4.12 0.00 4.35
113 153 2.630592 GATCCCGTCCCGCTTCTCAC 62.631 65.000 0.00 0.00 0.00 3.51
143 183 2.922758 GCGTTTGATCGCGATCCTATCT 60.923 50.000 38.25 11.42 46.31 1.98
144 184 1.387084 GCGTTTGATCGCGATCCTATC 59.613 52.381 38.25 25.64 46.31 2.08
159 199 2.034558 CCAAACACATCAGGAAGCGTTT 59.965 45.455 0.00 0.00 0.00 3.60
162 202 1.238439 ACCAAACACATCAGGAAGCG 58.762 50.000 0.00 0.00 0.00 4.68
261 301 9.461312 TTTATTAGTCTCCTTTGCATATTGTGT 57.539 29.630 0.00 0.00 0.00 3.72
319 359 7.290857 AGTAGTTGCACATAATAAGTTCACG 57.709 36.000 0.00 0.00 0.00 4.35
334 374 4.931914 ACTAAGGAGGAGTAGTAGTTGCA 58.068 43.478 0.00 0.00 0.00 4.08
335 375 5.195185 AGACTAAGGAGGAGTAGTAGTTGC 58.805 45.833 0.00 0.00 30.65 4.17
347 387 8.794553 ACATCGTATATTTGTAGACTAAGGAGG 58.205 37.037 0.00 0.00 0.00 4.30
397 437 9.550811 GTTTGTTCCTTTATTTTAGTCCGTATG 57.449 33.333 0.00 0.00 0.00 2.39
398 438 9.287373 TGTTTGTTCCTTTATTTTAGTCCGTAT 57.713 29.630 0.00 0.00 0.00 3.06
399 439 8.558700 GTGTTTGTTCCTTTATTTTAGTCCGTA 58.441 33.333 0.00 0.00 0.00 4.02
400 440 7.067251 TGTGTTTGTTCCTTTATTTTAGTCCGT 59.933 33.333 0.00 0.00 0.00 4.69
401 441 7.377662 GTGTGTTTGTTCCTTTATTTTAGTCCG 59.622 37.037 0.00 0.00 0.00 4.79
402 442 8.192110 TGTGTGTTTGTTCCTTTATTTTAGTCC 58.808 33.333 0.00 0.00 0.00 3.85
414 454 5.546526 ACATGTTTTTGTGTGTTTGTTCCT 58.453 33.333 0.00 0.00 0.00 3.36
476 516 8.980481 AAAAAGGGACAGTATATACTTCCATG 57.020 34.615 27.38 16.44 36.29 3.66
505 555 9.834628 TTTTTCATTATCATAACGGTTCTTCAC 57.165 29.630 0.00 0.00 0.00 3.18
562 612 9.226606 GGACGGATTTATCACATTGGAATATTA 57.773 33.333 0.00 0.00 0.00 0.98
568 618 4.495690 TGGACGGATTTATCACATTGGA 57.504 40.909 0.00 0.00 0.00 3.53
627 677 1.827969 CCCACTCCAAACACCAACAAA 59.172 47.619 0.00 0.00 0.00 2.83
628 678 1.272760 ACCCACTCCAAACACCAACAA 60.273 47.619 0.00 0.00 0.00 2.83
629 679 0.333312 ACCCACTCCAAACACCAACA 59.667 50.000 0.00 0.00 0.00 3.33
674 724 2.743938 TCGAACAAGAAGACTGAGCAC 58.256 47.619 0.00 0.00 0.00 4.40
2486 2613 1.980765 AGTCATGCTTGGAGTCCTTGA 59.019 47.619 11.33 3.30 0.00 3.02
2497 2624 2.993899 CGTTCCGTTCTTAGTCATGCTT 59.006 45.455 0.00 0.00 0.00 3.91
2498 2625 2.029290 ACGTTCCGTTCTTAGTCATGCT 60.029 45.455 0.00 0.00 36.35 3.79
2548 2694 8.156165 TCCACCTTTTTGATGCTTAATGAATTT 58.844 29.630 0.00 0.00 0.00 1.82
2662 3131 9.163931 TTGAGGGACAAACTTGGGACAAATTTT 62.164 37.037 0.00 0.00 38.59 1.82
2663 3132 7.768506 TTGAGGGACAAACTTGGGACAAATTT 61.769 38.462 0.00 0.00 38.59 1.82
2664 3133 6.341127 TTGAGGGACAAACTTGGGACAAATT 61.341 40.000 0.00 0.00 38.59 1.82
2665 3134 4.877760 TTGAGGGACAAACTTGGGACAAAT 60.878 41.667 0.00 0.00 38.59 2.32
2666 3135 3.564571 TTGAGGGACAAACTTGGGACAAA 60.565 43.478 0.00 0.00 38.59 2.83
2667 3136 2.024846 TTGAGGGACAAACTTGGGACAA 60.025 45.455 0.00 0.00 38.59 3.18
2668 3137 1.217916 TGAGGGACAAACTTGGGACA 58.782 50.000 0.00 0.00 0.00 4.02
2669 3138 2.358322 TTGAGGGACAAACTTGGGAC 57.642 50.000 0.00 0.00 35.39 4.46
2678 3147 6.126796 TGCTAGATACATCATTTGAGGGACAA 60.127 38.462 0.00 0.00 36.65 3.18
2679 3148 5.366477 TGCTAGATACATCATTTGAGGGACA 59.634 40.000 0.00 0.00 0.00 4.02
2680 3149 5.698545 GTGCTAGATACATCATTTGAGGGAC 59.301 44.000 0.00 0.00 0.00 4.46
2681 3150 5.221722 GGTGCTAGATACATCATTTGAGGGA 60.222 44.000 0.00 0.00 0.00 4.20
2682 3151 4.999950 GGTGCTAGATACATCATTTGAGGG 59.000 45.833 0.00 0.00 0.00 4.30
2683 3152 5.614308 TGGTGCTAGATACATCATTTGAGG 58.386 41.667 0.00 0.00 0.00 3.86
2684 3153 6.932960 TGATGGTGCTAGATACATCATTTGAG 59.067 38.462 15.36 0.00 43.23 3.02
2685 3154 6.829849 TGATGGTGCTAGATACATCATTTGA 58.170 36.000 15.36 0.00 43.23 2.69
2686 3155 7.500720 TTGATGGTGCTAGATACATCATTTG 57.499 36.000 18.26 0.00 46.18 2.32
2687 3156 6.206243 GCTTGATGGTGCTAGATACATCATTT 59.794 38.462 18.26 0.00 46.18 2.32
2688 3157 5.704515 GCTTGATGGTGCTAGATACATCATT 59.295 40.000 18.26 0.00 46.18 2.57
2689 3158 5.012871 AGCTTGATGGTGCTAGATACATCAT 59.987 40.000 18.26 8.76 46.18 2.45
2690 3159 4.346127 AGCTTGATGGTGCTAGATACATCA 59.654 41.667 15.36 15.36 45.53 3.07
2691 3160 4.892433 AGCTTGATGGTGCTAGATACATC 58.108 43.478 11.70 11.70 39.99 3.06
2692 3161 4.970860 AGCTTGATGGTGCTAGATACAT 57.029 40.909 0.00 0.00 37.81 2.29
2693 3162 4.080919 ACAAGCTTGATGGTGCTAGATACA 60.081 41.667 32.50 0.00 38.75 2.29
2694 3163 4.446371 ACAAGCTTGATGGTGCTAGATAC 58.554 43.478 32.50 0.00 38.75 2.24
2695 3164 4.760530 ACAAGCTTGATGGTGCTAGATA 57.239 40.909 32.50 0.00 38.75 1.98
2696 3165 3.641434 ACAAGCTTGATGGTGCTAGAT 57.359 42.857 32.50 2.52 38.75 1.98
2697 3166 3.338249 GAACAAGCTTGATGGTGCTAGA 58.662 45.455 32.50 0.00 38.75 2.43
2698 3167 2.421424 GGAACAAGCTTGATGGTGCTAG 59.579 50.000 32.50 2.31 38.75 3.42
2699 3168 2.040278 AGGAACAAGCTTGATGGTGCTA 59.960 45.455 32.50 0.00 34.11 3.49
2700 3169 1.202976 AGGAACAAGCTTGATGGTGCT 60.203 47.619 32.50 19.68 41.82 4.40
2701 3170 1.200948 GAGGAACAAGCTTGATGGTGC 59.799 52.381 32.50 17.94 0.00 5.01
2702 3171 2.507484 TGAGGAACAAGCTTGATGGTG 58.493 47.619 32.50 6.35 0.00 4.17
2703 3172 2.957402 TGAGGAACAAGCTTGATGGT 57.043 45.000 32.50 13.93 0.00 3.55
2704 3173 4.491676 CATTTGAGGAACAAGCTTGATGG 58.508 43.478 32.50 6.72 39.77 3.51
2705 3174 4.219070 TCCATTTGAGGAACAAGCTTGATG 59.781 41.667 32.50 20.49 39.77 3.07
2706 3175 4.410099 TCCATTTGAGGAACAAGCTTGAT 58.590 39.130 32.50 21.76 39.77 2.57
2707 3176 3.831323 TCCATTTGAGGAACAAGCTTGA 58.169 40.909 32.50 8.10 39.77 3.02
2708 3177 4.796038 ATCCATTTGAGGAACAAGCTTG 57.204 40.909 24.84 24.84 41.92 4.01
2709 3178 8.223330 AGATATATCCATTTGAGGAACAAGCTT 58.777 33.333 9.18 0.00 41.92 3.74
2710 3179 7.664731 CAGATATATCCATTTGAGGAACAAGCT 59.335 37.037 9.18 0.00 41.92 3.74
2711 3180 7.663081 TCAGATATATCCATTTGAGGAACAAGC 59.337 37.037 9.18 0.00 41.92 4.01
2712 3181 9.736414 ATCAGATATATCCATTTGAGGAACAAG 57.264 33.333 9.18 0.00 41.92 3.16
2713 3182 9.511272 CATCAGATATATCCATTTGAGGAACAA 57.489 33.333 9.18 0.00 41.92 2.83
2714 3183 7.609146 GCATCAGATATATCCATTTGAGGAACA 59.391 37.037 14.85 0.00 41.92 3.18
2715 3184 7.828223 AGCATCAGATATATCCATTTGAGGAAC 59.172 37.037 14.85 2.90 41.92 3.62
2716 3185 7.925622 AGCATCAGATATATCCATTTGAGGAA 58.074 34.615 14.85 0.00 41.92 3.36
2717 3186 7.506361 AGCATCAGATATATCCATTTGAGGA 57.494 36.000 14.85 0.00 43.01 3.71
2738 3207 9.944376 GTTTATCCCTCAAATAGATGTATAGCA 57.056 33.333 0.00 0.00 0.00 3.49
2744 3213 9.190317 GGAAAAGTTTATCCCTCAAATAGATGT 57.810 33.333 0.00 0.00 0.00 3.06
2745 3214 8.345565 CGGAAAAGTTTATCCCTCAAATAGATG 58.654 37.037 9.74 0.00 31.73 2.90
2746 3215 7.502561 CCGGAAAAGTTTATCCCTCAAATAGAT 59.497 37.037 0.00 0.00 31.73 1.98
2747 3216 6.826741 CCGGAAAAGTTTATCCCTCAAATAGA 59.173 38.462 0.00 0.00 31.73 1.98
2748 3217 6.039382 CCCGGAAAAGTTTATCCCTCAAATAG 59.961 42.308 0.73 0.00 31.73 1.73
2749 3218 5.889289 CCCGGAAAAGTTTATCCCTCAAATA 59.111 40.000 0.73 0.00 31.73 1.40
2750 3219 4.709886 CCCGGAAAAGTTTATCCCTCAAAT 59.290 41.667 0.73 0.00 31.73 2.32
2751 3220 4.083565 CCCGGAAAAGTTTATCCCTCAAA 58.916 43.478 0.73 0.00 31.73 2.69
2752 3221 3.331294 TCCCGGAAAAGTTTATCCCTCAA 59.669 43.478 0.73 0.00 31.73 3.02
2753 3222 2.914278 TCCCGGAAAAGTTTATCCCTCA 59.086 45.455 0.73 0.00 31.73 3.86
2754 3223 3.276857 GTCCCGGAAAAGTTTATCCCTC 58.723 50.000 0.73 0.00 31.73 4.30
2755 3224 2.355412 CGTCCCGGAAAAGTTTATCCCT 60.355 50.000 0.73 0.00 31.73 4.20
2756 3225 2.011947 CGTCCCGGAAAAGTTTATCCC 58.988 52.381 0.73 2.74 31.73 3.85
2770 3239 1.065701 CTTCATACTCACTCCGTCCCG 59.934 57.143 0.00 0.00 0.00 5.14
2771 3240 1.202428 GCTTCATACTCACTCCGTCCC 60.202 57.143 0.00 0.00 0.00 4.46
2772 3241 1.476891 TGCTTCATACTCACTCCGTCC 59.523 52.381 0.00 0.00 0.00 4.79
2773 3242 2.941453 TGCTTCATACTCACTCCGTC 57.059 50.000 0.00 0.00 0.00 4.79
2774 3243 2.760650 TCATGCTTCATACTCACTCCGT 59.239 45.455 0.00 0.00 0.00 4.69
2775 3244 3.443099 TCATGCTTCATACTCACTCCG 57.557 47.619 0.00 0.00 0.00 4.63
2776 3245 3.497640 GCATCATGCTTCATACTCACTCC 59.502 47.826 1.02 0.00 40.96 3.85
2777 3246 4.025061 GTGCATCATGCTTCATACTCACTC 60.025 45.833 11.84 0.00 45.31 3.51
2778 3247 3.875727 GTGCATCATGCTTCATACTCACT 59.124 43.478 11.84 0.00 45.31 3.41
2779 3248 3.003068 GGTGCATCATGCTTCATACTCAC 59.997 47.826 11.84 0.00 45.31 3.51
2780 3249 3.208594 GGTGCATCATGCTTCATACTCA 58.791 45.455 11.84 0.00 45.31 3.41
2781 3250 2.551459 GGGTGCATCATGCTTCATACTC 59.449 50.000 11.84 0.00 45.31 2.59
2782 3251 2.174210 AGGGTGCATCATGCTTCATACT 59.826 45.455 11.84 0.00 45.31 2.12
2783 3252 2.579873 AGGGTGCATCATGCTTCATAC 58.420 47.619 11.84 0.00 45.31 2.39
2796 3265 6.266558 ACTGTTTGACAATTTTATAGGGTGCA 59.733 34.615 0.00 0.00 0.00 4.57
2828 3297 0.460109 TGCGCATACACACTAGCAGG 60.460 55.000 5.66 0.00 0.00 4.85
2922 3391 9.747898 ATGTTTATGTTCTATCTGGTGGTTAAA 57.252 29.630 0.00 0.00 0.00 1.52
3037 3513 8.836268 AATGATGATAAAACAATTGCACTGTT 57.164 26.923 5.05 7.41 38.65 3.16
3038 3514 8.714179 CAAATGATGATAAAACAATTGCACTGT 58.286 29.630 5.05 0.00 0.00 3.55
3060 3536 7.994425 AACTTGGGAAAAAGTTGAAACAAAT 57.006 28.000 1.71 0.00 46.16 2.32
3106 3582 6.185114 AGCTAGAATGAATAGAGGCATTGT 57.815 37.500 0.00 0.00 35.05 2.71
3187 3667 3.703286 AAAAACGCACTAGAAACACCC 57.297 42.857 0.00 0.00 0.00 4.61
3277 3765 7.437713 ACATCTTGTACTAATGAATGGAGGA 57.562 36.000 8.91 0.00 0.00 3.71
3356 3844 9.367444 CGGTTACAAGTAGAGATTGAATTAACT 57.633 33.333 0.00 0.00 0.00 2.24
3357 3845 8.114905 GCGGTTACAAGTAGAGATTGAATTAAC 58.885 37.037 0.00 0.00 0.00 2.01
3358 3846 7.820386 TGCGGTTACAAGTAGAGATTGAATTAA 59.180 33.333 0.00 0.00 0.00 1.40
3359 3847 7.277098 GTGCGGTTACAAGTAGAGATTGAATTA 59.723 37.037 0.00 0.00 0.00 1.40
3360 3848 6.092259 GTGCGGTTACAAGTAGAGATTGAATT 59.908 38.462 0.00 0.00 0.00 2.17
3361 3849 5.581085 GTGCGGTTACAAGTAGAGATTGAAT 59.419 40.000 0.00 0.00 0.00 2.57
3362 3850 4.927425 GTGCGGTTACAAGTAGAGATTGAA 59.073 41.667 0.00 0.00 0.00 2.69
3363 3851 4.491676 GTGCGGTTACAAGTAGAGATTGA 58.508 43.478 0.00 0.00 0.00 2.57
3364 3852 3.303495 CGTGCGGTTACAAGTAGAGATTG 59.697 47.826 0.00 0.00 0.00 2.67
3365 3853 3.057033 ACGTGCGGTTACAAGTAGAGATT 60.057 43.478 0.00 0.00 30.17 2.40
3366 3854 2.490903 ACGTGCGGTTACAAGTAGAGAT 59.509 45.455 0.00 0.00 30.17 2.75
3367 3855 1.881973 ACGTGCGGTTACAAGTAGAGA 59.118 47.619 0.00 0.00 30.17 3.10
3368 3856 1.983605 CACGTGCGGTTACAAGTAGAG 59.016 52.381 0.82 0.00 30.82 2.43
3369 3857 1.336148 CCACGTGCGGTTACAAGTAGA 60.336 52.381 10.91 0.00 30.82 2.59
3370 3858 1.065358 CCACGTGCGGTTACAAGTAG 58.935 55.000 10.91 0.00 30.82 2.57
3371 3859 0.672889 TCCACGTGCGGTTACAAGTA 59.327 50.000 10.91 0.00 30.82 2.24
3372 3860 0.034337 ATCCACGTGCGGTTACAAGT 59.966 50.000 10.91 0.00 32.20 3.16
3373 3861 1.999048 TATCCACGTGCGGTTACAAG 58.001 50.000 10.91 0.00 0.00 3.16
3374 3862 2.542597 GATATCCACGTGCGGTTACAA 58.457 47.619 10.91 0.00 0.00 2.41
3375 3863 1.202440 GGATATCCACGTGCGGTTACA 60.202 52.381 17.34 0.00 35.64 2.41
3376 3864 1.494824 GGATATCCACGTGCGGTTAC 58.505 55.000 17.34 0.00 35.64 2.50
3377 3865 0.390124 GGGATATCCACGTGCGGTTA 59.610 55.000 23.27 0.00 37.91 2.85
3378 3866 1.145377 GGGATATCCACGTGCGGTT 59.855 57.895 23.27 0.00 37.91 4.44
3379 3867 2.803817 GGGGATATCCACGTGCGGT 61.804 63.158 23.27 2.24 37.91 5.68
3380 3868 2.030562 GGGGATATCCACGTGCGG 59.969 66.667 23.27 0.00 37.91 5.69
3381 3869 1.594293 GTGGGGATATCCACGTGCG 60.594 63.158 23.27 3.66 46.31 5.34
3382 3870 4.456806 GTGGGGATATCCACGTGC 57.543 61.111 23.27 10.32 46.31 5.34
3386 3874 1.134098 CCACACTGTGGGGATATCCAC 60.134 57.143 24.83 20.71 46.22 4.02
3387 3875 1.212375 CCACACTGTGGGGATATCCA 58.788 55.000 24.83 1.12 46.22 3.41
3388 3876 1.507140 TCCACACTGTGGGGATATCC 58.493 55.000 27.37 13.87 46.95 2.59
3397 3885 2.448926 TATGTCGGTTCCACACTGTG 57.551 50.000 6.19 6.19 32.85 3.66
3398 3886 2.416836 CGATATGTCGGTTCCACACTGT 60.417 50.000 3.61 0.00 44.00 3.55
3399 3887 2.193447 CGATATGTCGGTTCCACACTG 58.807 52.381 3.61 0.00 44.00 3.66
3400 3888 2.579207 CGATATGTCGGTTCCACACT 57.421 50.000 3.61 0.00 44.00 3.55
3411 3899 1.067212 ACGCTCCAGGAACGATATGTC 59.933 52.381 19.30 0.00 0.00 3.06
3412 3900 1.067212 GACGCTCCAGGAACGATATGT 59.933 52.381 19.30 0.00 0.00 2.29
3413 3901 1.772182 GACGCTCCAGGAACGATATG 58.228 55.000 19.30 0.00 0.00 1.78
3414 3902 0.311165 CGACGCTCCAGGAACGATAT 59.689 55.000 19.30 0.00 0.00 1.63
3415 3903 1.725665 CGACGCTCCAGGAACGATA 59.274 57.895 19.30 0.00 0.00 2.92
3416 3904 2.490217 CGACGCTCCAGGAACGAT 59.510 61.111 19.30 3.28 0.00 3.73
3417 3905 4.415332 GCGACGCTCCAGGAACGA 62.415 66.667 19.30 0.00 0.00 3.85
3419 3907 3.991536 GAGGCGACGCTCCAGGAAC 62.992 68.421 20.77 0.00 0.00 3.62
3420 3908 3.760035 GAGGCGACGCTCCAGGAA 61.760 66.667 20.77 0.00 0.00 3.36
3424 3912 4.069232 CTTGGAGGCGACGCTCCA 62.069 66.667 26.66 26.66 46.84 3.86
3425 3913 3.296709 TTCTTGGAGGCGACGCTCC 62.297 63.158 20.77 22.29 40.05 4.70
3426 3914 2.095252 GTTCTTGGAGGCGACGCTC 61.095 63.158 20.77 14.40 0.00 5.03
3427 3915 2.048127 GTTCTTGGAGGCGACGCT 60.048 61.111 20.77 5.59 0.00 5.07
3428 3916 3.119096 GGTTCTTGGAGGCGACGC 61.119 66.667 12.43 12.43 0.00 5.19
3429 3917 2.809601 CGGTTCTTGGAGGCGACG 60.810 66.667 0.00 0.00 0.00 5.12
3430 3918 3.119096 GCGGTTCTTGGAGGCGAC 61.119 66.667 0.00 0.00 0.00 5.19
3431 3919 4.388499 GGCGGTTCTTGGAGGCGA 62.388 66.667 0.00 0.00 0.00 5.54
3432 3920 3.901797 AAGGCGGTTCTTGGAGGCG 62.902 63.158 0.00 0.00 0.00 5.52
3433 3921 2.034221 AAGGCGGTTCTTGGAGGC 59.966 61.111 0.00 0.00 0.00 4.70
3434 3922 1.377333 GGAAGGCGGTTCTTGGAGG 60.377 63.158 0.00 0.00 35.25 4.30
3435 3923 1.741770 CGGAAGGCGGTTCTTGGAG 60.742 63.158 0.00 0.00 35.25 3.86
3436 3924 2.167398 CTCGGAAGGCGGTTCTTGGA 62.167 60.000 0.00 0.00 35.25 3.53
3437 3925 1.741770 CTCGGAAGGCGGTTCTTGG 60.742 63.158 0.00 0.00 35.25 3.61
3438 3926 0.737715 CTCTCGGAAGGCGGTTCTTG 60.738 60.000 0.00 0.00 35.25 3.02
3439 3927 1.592223 CTCTCGGAAGGCGGTTCTT 59.408 57.895 0.00 0.00 35.25 2.52
3440 3928 3.007973 GCTCTCGGAAGGCGGTTCT 62.008 63.158 0.00 0.00 35.25 3.01
3441 3929 2.509561 GCTCTCGGAAGGCGGTTC 60.510 66.667 0.00 0.00 0.00 3.62
3442 3930 2.579684 GATGCTCTCGGAAGGCGGTT 62.580 60.000 0.00 0.00 0.00 4.44
3443 3931 3.077556 ATGCTCTCGGAAGGCGGT 61.078 61.111 0.00 0.00 0.00 5.68
3444 3932 2.279784 GATGCTCTCGGAAGGCGG 60.280 66.667 0.00 0.00 0.00 6.13
3445 3933 1.299773 GAGATGCTCTCGGAAGGCG 60.300 63.158 0.00 0.00 33.35 5.52
3446 3934 1.068921 GGAGATGCTCTCGGAAGGC 59.931 63.158 6.97 0.00 44.28 4.35
3447 3935 0.388659 CTGGAGATGCTCTCGGAAGG 59.611 60.000 6.97 0.00 44.28 3.46
3448 3936 0.249405 GCTGGAGATGCTCTCGGAAG 60.249 60.000 6.97 6.17 44.28 3.46
3449 3937 1.680522 GGCTGGAGATGCTCTCGGAA 61.681 60.000 6.97 0.00 44.28 4.30
3450 3938 2.130426 GGCTGGAGATGCTCTCGGA 61.130 63.158 6.97 0.00 44.28 4.55
3451 3939 2.420890 GGCTGGAGATGCTCTCGG 59.579 66.667 6.97 4.66 44.28 4.63
3452 3940 2.027314 CGGCTGGAGATGCTCTCG 59.973 66.667 6.97 0.00 44.28 4.04
3453 3941 2.280052 GCGGCTGGAGATGCTCTC 60.280 66.667 0.00 5.01 42.66 3.20
3454 3942 4.218578 CGCGGCTGGAGATGCTCT 62.219 66.667 0.00 0.00 0.00 4.09
3485 3973 1.510844 CCGAAAAATCGCTTGGGGG 59.489 57.895 0.00 0.00 0.00 5.40
3486 3974 1.153842 GCCGAAAAATCGCTTGGGG 60.154 57.895 0.00 0.00 0.00 4.96
3487 3975 1.153842 GGCCGAAAAATCGCTTGGG 60.154 57.895 0.00 0.00 0.00 4.12
3488 3976 0.732538 GTGGCCGAAAAATCGCTTGG 60.733 55.000 0.00 0.00 0.00 3.61
3489 3977 0.732538 GGTGGCCGAAAAATCGCTTG 60.733 55.000 0.00 0.00 0.00 4.01
3490 3978 1.584495 GGTGGCCGAAAAATCGCTT 59.416 52.632 0.00 0.00 0.00 4.68
3491 3979 3.274067 GGTGGCCGAAAAATCGCT 58.726 55.556 0.00 0.00 0.00 4.93


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

AutoCloner maintained by Alex Coulton.