Multiple sequence alignment - TraesCS6A01G241300

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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 TraesCS6A01G241300 chr6A 100.000 3802 0 0 1 3802 452777666 452773865 0.000000e+00 7022
1 TraesCS6A01G241300 chr6A 95.855 193 8 0 3610 3802 452644565 452644373 2.850000e-81 313
2 TraesCS6A01G241300 chr6A 94.558 147 8 0 3279 3425 452644696 452644550 1.060000e-55 228
3 TraesCS6A01G241300 chr6A 90.598 117 6 4 3409 3522 549433126 549433012 2.370000e-32 150
4 TraesCS6A01G241300 chr6B 95.087 3094 88 24 1 3039 511566510 511569594 0.000000e+00 4813
5 TraesCS6A01G241300 chr6B 91.057 246 8 5 3036 3280 511694466 511694698 1.700000e-83 320
6 TraesCS6A01G241300 chr6B 91.908 173 14 0 3607 3779 511694871 511695043 3.790000e-60 243
7 TraesCS6A01G241300 chr6B 94.558 147 8 0 3279 3425 511694743 511694889 1.060000e-55 228
8 TraesCS6A01G241300 chr6B 93.396 106 7 0 3417 3522 680182295 680182400 1.410000e-34 158
9 TraesCS6A01G241300 chr6D 96.386 2546 46 11 1 2514 315626704 315624173 0.000000e+00 4150
10 TraesCS6A01G241300 chr6D 95.620 411 9 2 2511 2913 315624013 315623604 0.000000e+00 651
11 TraesCS6A01G241300 chr6D 93.333 375 10 5 2906 3280 315622548 315622189 1.200000e-149 540
12 TraesCS6A01G241300 chr6D 93.782 193 11 1 3610 3801 315622014 315621822 4.810000e-74 289
13 TraesCS6A01G241300 chr6D 95.238 147 7 0 3279 3425 315622145 315621999 2.280000e-57 233
14 TraesCS6A01G241300 chrUn 91.351 185 12 2 3427 3610 28417912 28418093 2.270000e-62 250
15 TraesCS6A01G241300 chr5A 86.667 180 20 4 3427 3603 549724562 549724740 3.000000e-46 196
16 TraesCS6A01G241300 chr5A 94.382 89 5 0 3521 3609 67968037 67967949 1.840000e-28 137
17 TraesCS6A01G241300 chr7B 92.982 114 7 1 3417 3529 461232132 461232245 8.450000e-37 165
18 TraesCS6A01G241300 chr7B 94.444 90 5 0 3521 3610 35138668 35138757 5.120000e-29 139
19 TraesCS6A01G241300 chr5B 94.340 106 5 1 3418 3522 535064501 535064606 1.090000e-35 161
20 TraesCS6A01G241300 chr5B 93.182 88 6 0 3522 3609 579407385 579407472 3.080000e-26 130
21 TraesCS6A01G241300 chr2B 95.918 98 4 0 3422 3519 131181741 131181838 3.930000e-35 159
22 TraesCS6A01G241300 chr2B 94.318 88 5 0 3522 3609 53455785 53455698 6.620000e-28 135
23 TraesCS6A01G241300 chr7A 94.231 104 5 1 3427 3529 9434563 9434666 1.410000e-34 158
24 TraesCS6A01G241300 chr1B 91.818 110 6 3 3413 3522 114468074 114467968 2.370000e-32 150
25 TraesCS6A01G241300 chr3D 93.258 89 6 0 3521 3609 313821188 313821276 8.570000e-27 132
26 TraesCS6A01G241300 chr3B 93.182 88 6 0 3522 3609 40229399 40229486 3.080000e-26 130
27 TraesCS6A01G241300 chr4B 88.571 105 10 2 3522 3625 653953506 653953609 3.990000e-25 126


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 TraesCS6A01G241300 chr6A 452773865 452777666 3801 True 7022.000000 7022 100.000000 1 3802 1 chr6A.!!$R1 3801
1 TraesCS6A01G241300 chr6B 511566510 511569594 3084 False 4813.000000 4813 95.087000 1 3039 1 chr6B.!!$F1 3038
2 TraesCS6A01G241300 chr6B 511694466 511695043 577 False 263.666667 320 92.507667 3036 3779 3 chr6B.!!$F3 743
3 TraesCS6A01G241300 chr6D 315621822 315626704 4882 True 1172.600000 4150 94.871800 1 3801 5 chr6D.!!$R1 3800

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
735 738 0.181350 CAGTTGATAGGGAGGGTGGC 59.819 60.0 0.00 0.0 0.0 5.01 F
1937 1940 0.523072 GTGTGTGGCCAGTTATGCAG 59.477 55.0 5.11 0.0 0.0 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2208 2235 1.998315 CTTCAGATCGGTGAACTGCAG 59.002 52.381 13.48 13.48 33.43 4.41 R
3600 4944 0.033642 TGATACACAACGCGGACCAA 59.966 50.000 12.47 0.00 0.00 3.67 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
44 45 8.025445 ACAAAGAAAAAGCTATGTCATGATCAC 58.975 33.333 0.00 0.00 0.00 3.06
205 206 7.556844 TCTTGCCTTCGAGATAGAAAAGTATT 58.443 34.615 0.00 0.00 0.00 1.89
260 261 6.254589 TGAAAAGTTCCATTTTTAAGCACACG 59.745 34.615 0.00 0.00 32.62 4.49
363 364 6.884295 AGCTCTGCAAGGTACAACATAAATTA 59.116 34.615 0.00 0.00 32.74 1.40
393 394 2.941415 GCGATCCAGGTTTGATTGTCCT 60.941 50.000 0.00 0.00 0.00 3.85
418 419 5.031066 AGTTCTTAATATACAAGCCGGCA 57.969 39.130 31.54 8.23 0.00 5.69
516 518 3.929610 GTGCATCAGAGAGACCTTGTTAC 59.070 47.826 0.00 0.00 0.00 2.50
732 735 1.207791 CAGCAGTTGATAGGGAGGGT 58.792 55.000 0.00 0.00 0.00 4.34
735 738 0.181350 CAGTTGATAGGGAGGGTGGC 59.819 60.000 0.00 0.00 0.00 5.01
901 904 4.402793 TCAGGTTGCTCTGTAGGAATAGTC 59.597 45.833 0.00 0.00 35.33 2.59
921 924 4.704540 AGTCCATGGAAATTGCAATCGTAA 59.295 37.500 18.20 0.00 0.00 3.18
926 929 3.446873 TGGAAATTGCAATCGTAATGCCT 59.553 39.130 13.38 0.00 43.16 4.75
1023 1026 3.392285 TGGATGCACTCATGGCTAACTAT 59.608 43.478 0.00 0.00 31.96 2.12
1038 1041 4.320641 GCTAACTATGGATCCGACTCTGAC 60.321 50.000 7.39 0.00 0.00 3.51
1057 1060 2.514592 ATGACAATGAGCCGGCGG 60.515 61.111 24.35 24.35 0.00 6.13
1176 1179 3.388024 CCTTCTTGAATCTATCCCGGTCA 59.612 47.826 0.00 0.00 0.00 4.02
1414 1417 1.221021 CTCCAGATGCTGCTGCTCA 59.779 57.895 17.00 0.00 40.48 4.26
1635 1638 2.194800 TCGTTATGAGAAGAGCTGCG 57.805 50.000 0.00 0.00 0.00 5.18
1794 1797 2.749621 GCATCAAATTGACTCCCTCGTT 59.250 45.455 0.00 0.00 0.00 3.85
1877 1880 3.797865 GCTGAGCTGACAATGTTTTGCTT 60.798 43.478 0.00 0.00 36.22 3.91
1937 1940 0.523072 GTGTGTGGCCAGTTATGCAG 59.477 55.000 5.11 0.00 0.00 4.41
1939 1942 1.001020 TGTGGCCAGTTATGCAGGG 60.001 57.895 5.11 0.00 0.00 4.45
1969 1996 8.428536 TGTAAATGCGTTTGTATTTGCATAAAC 58.571 29.630 14.25 0.16 46.60 2.01
2439 2502 5.450818 TGGATAACATAACTTTGCCTCCT 57.549 39.130 0.00 0.00 0.00 3.69
2837 3071 1.924524 CACCTGACTTGCGGTATTACG 59.075 52.381 0.00 0.00 30.91 3.18
2861 3095 6.310711 CGGAGTTTTGTAGAGTCAATACCTTC 59.689 42.308 0.00 0.00 32.52 3.46
2877 3111 3.888583 ACCTTCGGTTGTAACAAGGAAA 58.111 40.909 16.36 0.00 36.26 3.13
2895 3129 9.260002 ACAAGGAAATAAAAATGTCATGTGTTC 57.740 29.630 0.00 0.00 0.00 3.18
2928 4225 3.626670 TGTTGTTTTGGTAACTACACGGG 59.373 43.478 0.00 0.00 32.60 5.28
3073 4370 4.657436 ACAACATCGAATCCTCTACTCC 57.343 45.455 0.00 0.00 0.00 3.85
3132 4430 2.715046 TGGTGAAGCCATGTCATCTTC 58.285 47.619 7.14 7.14 43.61 2.87
3133 4431 2.306805 TGGTGAAGCCATGTCATCTTCT 59.693 45.455 12.88 0.00 43.61 2.85
3134 4432 3.245016 TGGTGAAGCCATGTCATCTTCTT 60.245 43.478 12.88 4.01 43.61 2.52
3135 4433 4.019411 TGGTGAAGCCATGTCATCTTCTTA 60.019 41.667 12.88 1.32 43.61 2.10
3136 4434 5.128919 GGTGAAGCCATGTCATCTTCTTAT 58.871 41.667 12.88 0.00 37.63 1.73
3137 4435 5.008415 GGTGAAGCCATGTCATCTTCTTATG 59.992 44.000 12.88 0.00 37.63 1.90
3138 4436 5.587844 GTGAAGCCATGTCATCTTCTTATGT 59.412 40.000 12.88 0.00 37.63 2.29
3139 4437 5.819379 TGAAGCCATGTCATCTTCTTATGTC 59.181 40.000 12.88 0.00 37.63 3.06
3140 4438 5.363562 AGCCATGTCATCTTCTTATGTCA 57.636 39.130 0.00 0.00 31.19 3.58
3141 4439 5.121811 AGCCATGTCATCTTCTTATGTCAC 58.878 41.667 0.00 0.00 29.75 3.67
3142 4440 4.274459 GCCATGTCATCTTCTTATGTCACC 59.726 45.833 0.00 0.00 29.75 4.02
3143 4441 5.430886 CCATGTCATCTTCTTATGTCACCA 58.569 41.667 0.00 0.00 29.75 4.17
3227 4525 1.671328 TCGTCTTCTCCGAGCACTATG 59.329 52.381 0.00 0.00 0.00 2.23
3280 4578 5.032846 AGTTTATCTCTTCATCTCCACCCA 58.967 41.667 0.00 0.00 0.00 4.51
3281 4579 5.104735 AGTTTATCTCTTCATCTCCACCCAC 60.105 44.000 0.00 0.00 0.00 4.61
3297 4641 2.290323 ACCCACTTCACCATAGCAGTTC 60.290 50.000 0.00 0.00 0.00 3.01
3384 4728 7.827236 TGACCAATAACTCTTCGTGGATAATTT 59.173 33.333 0.00 0.00 33.39 1.82
3385 4729 9.321562 GACCAATAACTCTTCGTGGATAATTTA 57.678 33.333 0.00 0.00 33.39 1.40
3414 4758 8.800231 TTCATTGTGTTCTTAATCATGTTGTG 57.200 30.769 0.00 0.00 0.00 3.33
3415 4759 7.939782 TCATTGTGTTCTTAATCATGTTGTGT 58.060 30.769 0.00 0.00 0.00 3.72
3416 4760 9.061435 TCATTGTGTTCTTAATCATGTTGTGTA 57.939 29.630 0.00 0.00 0.00 2.90
3417 4761 9.844790 CATTGTGTTCTTAATCATGTTGTGTAT 57.155 29.630 0.00 0.00 0.00 2.29
3419 4763 8.614469 TGTGTTCTTAATCATGTTGTGTATCA 57.386 30.769 0.00 0.00 0.00 2.15
3420 4764 9.230122 TGTGTTCTTAATCATGTTGTGTATCAT 57.770 29.630 0.00 0.00 0.00 2.45
3421 4765 9.494479 GTGTTCTTAATCATGTTGTGTATCATG 57.506 33.333 0.00 0.00 41.64 3.07
3422 4766 9.230122 TGTTCTTAATCATGTTGTGTATCATGT 57.770 29.630 0.00 0.00 41.22 3.21
3452 4796 8.829514 TTTTAACATCAGTACAGACAAAAACG 57.170 30.769 0.00 0.00 0.00 3.60
3453 4797 4.468095 ACATCAGTACAGACAAAAACGC 57.532 40.909 0.00 0.00 0.00 4.84
3454 4798 4.127171 ACATCAGTACAGACAAAAACGCT 58.873 39.130 0.00 0.00 0.00 5.07
3455 4799 4.211374 ACATCAGTACAGACAAAAACGCTC 59.789 41.667 0.00 0.00 0.00 5.03
3456 4800 3.787785 TCAGTACAGACAAAAACGCTCA 58.212 40.909 0.00 0.00 0.00 4.26
3457 4801 4.377021 TCAGTACAGACAAAAACGCTCAT 58.623 39.130 0.00 0.00 0.00 2.90
3458 4802 5.534407 TCAGTACAGACAAAAACGCTCATA 58.466 37.500 0.00 0.00 0.00 2.15
3459 4803 6.163476 TCAGTACAGACAAAAACGCTCATAT 58.837 36.000 0.00 0.00 0.00 1.78
3460 4804 7.317390 TCAGTACAGACAAAAACGCTCATATA 58.683 34.615 0.00 0.00 0.00 0.86
3461 4805 7.274904 TCAGTACAGACAAAAACGCTCATATAC 59.725 37.037 0.00 0.00 0.00 1.47
3462 4806 7.062956 CAGTACAGACAAAAACGCTCATATACA 59.937 37.037 0.00 0.00 0.00 2.29
3463 4807 6.165659 ACAGACAAAAACGCTCATATACAC 57.834 37.500 0.00 0.00 0.00 2.90
3464 4808 5.699001 ACAGACAAAAACGCTCATATACACA 59.301 36.000 0.00 0.00 0.00 3.72
3465 4809 6.015504 CAGACAAAAACGCTCATATACACAC 58.984 40.000 0.00 0.00 0.00 3.82
3466 4810 4.953269 ACAAAAACGCTCATATACACACG 58.047 39.130 0.00 0.00 0.00 4.49
3467 4811 3.651562 AAAACGCTCATATACACACGC 57.348 42.857 0.00 0.00 0.00 5.34
3468 4812 2.287393 AACGCTCATATACACACGCA 57.713 45.000 0.00 0.00 0.00 5.24
3469 4813 2.509052 ACGCTCATATACACACGCAT 57.491 45.000 0.00 0.00 0.00 4.73
3470 4814 3.636282 ACGCTCATATACACACGCATA 57.364 42.857 0.00 0.00 0.00 3.14
3471 4815 3.305964 ACGCTCATATACACACGCATAC 58.694 45.455 0.00 0.00 0.00 2.39
3472 4816 3.243267 ACGCTCATATACACACGCATACA 60.243 43.478 0.00 0.00 0.00 2.29
3473 4817 3.119628 CGCTCATATACACACGCATACAC 59.880 47.826 0.00 0.00 0.00 2.90
3474 4818 4.299155 GCTCATATACACACGCATACACT 58.701 43.478 0.00 0.00 0.00 3.55
3475 4819 4.383052 GCTCATATACACACGCATACACTC 59.617 45.833 0.00 0.00 0.00 3.51
3476 4820 5.508200 TCATATACACACGCATACACTCA 57.492 39.130 0.00 0.00 0.00 3.41
3477 4821 5.278604 TCATATACACACGCATACACTCAC 58.721 41.667 0.00 0.00 0.00 3.51
3478 4822 2.357327 TACACACGCATACACTCACC 57.643 50.000 0.00 0.00 0.00 4.02
3479 4823 0.320421 ACACACGCATACACTCACCC 60.320 55.000 0.00 0.00 0.00 4.61
3480 4824 1.019278 CACACGCATACACTCACCCC 61.019 60.000 0.00 0.00 0.00 4.95
3481 4825 1.192146 ACACGCATACACTCACCCCT 61.192 55.000 0.00 0.00 0.00 4.79
3482 4826 0.821517 CACGCATACACTCACCCCTA 59.178 55.000 0.00 0.00 0.00 3.53
3483 4827 1.412710 CACGCATACACTCACCCCTAT 59.587 52.381 0.00 0.00 0.00 2.57
3484 4828 1.412710 ACGCATACACTCACCCCTATG 59.587 52.381 0.00 0.00 0.00 2.23
3485 4829 1.686587 CGCATACACTCACCCCTATGA 59.313 52.381 0.00 0.00 0.00 2.15
3486 4830 2.102420 CGCATACACTCACCCCTATGAA 59.898 50.000 0.00 0.00 0.00 2.57
3487 4831 3.467803 GCATACACTCACCCCTATGAAC 58.532 50.000 0.00 0.00 0.00 3.18
3488 4832 3.717707 CATACACTCACCCCTATGAACG 58.282 50.000 0.00 0.00 0.00 3.95
3489 4833 0.249398 ACACTCACCCCTATGAACGC 59.751 55.000 0.00 0.00 0.00 4.84
3490 4834 0.249120 CACTCACCCCTATGAACGCA 59.751 55.000 0.00 0.00 0.00 5.24
3491 4835 0.249398 ACTCACCCCTATGAACGCAC 59.751 55.000 0.00 0.00 0.00 5.34
3492 4836 0.249120 CTCACCCCTATGAACGCACA 59.751 55.000 0.00 0.00 0.00 4.57
3493 4837 0.036765 TCACCCCTATGAACGCACAC 60.037 55.000 0.00 0.00 0.00 3.82
3494 4838 0.321210 CACCCCTATGAACGCACACA 60.321 55.000 0.00 0.00 0.00 3.72
3495 4839 0.321298 ACCCCTATGAACGCACACAC 60.321 55.000 0.00 0.00 0.00 3.82
3496 4840 1.358725 CCCCTATGAACGCACACACG 61.359 60.000 0.00 0.00 39.50 4.49
3497 4841 1.419922 CCTATGAACGCACACACGC 59.580 57.895 0.00 0.00 36.19 5.34
3498 4842 1.288419 CCTATGAACGCACACACGCA 61.288 55.000 0.00 0.00 36.19 5.24
3499 4843 0.179250 CTATGAACGCACACACGCAC 60.179 55.000 0.00 0.00 36.19 5.34
3500 4844 0.876342 TATGAACGCACACACGCACA 60.876 50.000 0.00 0.00 36.19 4.57
3501 4845 1.506309 ATGAACGCACACACGCACAT 61.506 50.000 0.00 0.00 36.19 3.21
3502 4846 1.438710 GAACGCACACACGCACATC 60.439 57.895 0.00 0.00 36.19 3.06
3503 4847 2.764251 GAACGCACACACGCACATCC 62.764 60.000 0.00 0.00 36.19 3.51
3504 4848 3.043713 CGCACACACGCACATCCT 61.044 61.111 0.00 0.00 0.00 3.24
3505 4849 1.736282 CGCACACACGCACATCCTA 60.736 57.895 0.00 0.00 0.00 2.94
3506 4850 1.787847 GCACACACGCACATCCTAC 59.212 57.895 0.00 0.00 0.00 3.18
3507 4851 1.635663 GCACACACGCACATCCTACC 61.636 60.000 0.00 0.00 0.00 3.18
3508 4852 1.019278 CACACACGCACATCCTACCC 61.019 60.000 0.00 0.00 0.00 3.69
3509 4853 1.449601 CACACGCACATCCTACCCC 60.450 63.158 0.00 0.00 0.00 4.95
3510 4854 1.612442 ACACGCACATCCTACCCCT 60.612 57.895 0.00 0.00 0.00 4.79
3511 4855 0.324923 ACACGCACATCCTACCCCTA 60.325 55.000 0.00 0.00 0.00 3.53
3512 4856 1.048601 CACGCACATCCTACCCCTAT 58.951 55.000 0.00 0.00 0.00 2.57
3513 4857 1.048601 ACGCACATCCTACCCCTATG 58.951 55.000 0.00 0.00 0.00 2.23
3514 4858 1.338107 CGCACATCCTACCCCTATGA 58.662 55.000 0.00 0.00 0.00 2.15
3515 4859 1.273606 CGCACATCCTACCCCTATGAG 59.726 57.143 0.00 0.00 0.00 2.90
3516 4860 1.002544 GCACATCCTACCCCTATGAGC 59.997 57.143 0.00 0.00 31.75 4.26
3517 4861 2.329267 CACATCCTACCCCTATGAGCA 58.671 52.381 0.00 0.00 0.00 4.26
3518 4862 2.037772 CACATCCTACCCCTATGAGCAC 59.962 54.545 0.00 0.00 0.00 4.40
3519 4863 1.625818 CATCCTACCCCTATGAGCACC 59.374 57.143 0.00 0.00 0.00 5.01
3520 4864 0.941963 TCCTACCCCTATGAGCACCT 59.058 55.000 0.00 0.00 0.00 4.00
3521 4865 1.133136 TCCTACCCCTATGAGCACCTC 60.133 57.143 0.00 0.00 0.00 3.85
3522 4866 1.413082 CCTACCCCTATGAGCACCTCA 60.413 57.143 0.00 0.00 44.99 3.86
3523 4867 1.967066 CTACCCCTATGAGCACCTCAG 59.033 57.143 1.20 0.00 44.08 3.35
3524 4868 0.692419 ACCCCTATGAGCACCTCAGG 60.692 60.000 0.00 0.00 44.08 3.86
3525 4869 0.399091 CCCCTATGAGCACCTCAGGA 60.399 60.000 0.00 0.00 44.08 3.86
3526 4870 1.500474 CCCTATGAGCACCTCAGGAA 58.500 55.000 0.00 0.00 44.08 3.36
3527 4871 2.053244 CCCTATGAGCACCTCAGGAAT 58.947 52.381 0.00 0.00 44.08 3.01
3528 4872 3.242867 CCCTATGAGCACCTCAGGAATA 58.757 50.000 0.00 0.00 44.08 1.75
3529 4873 3.648067 CCCTATGAGCACCTCAGGAATAA 59.352 47.826 0.00 0.00 44.08 1.40
3530 4874 4.103153 CCCTATGAGCACCTCAGGAATAAA 59.897 45.833 0.00 0.00 44.08 1.40
3531 4875 5.222007 CCCTATGAGCACCTCAGGAATAAAT 60.222 44.000 0.00 0.00 44.08 1.40
3532 4876 6.013379 CCCTATGAGCACCTCAGGAATAAATA 60.013 42.308 0.00 0.00 44.08 1.40
3533 4877 6.876257 CCTATGAGCACCTCAGGAATAAATAC 59.124 42.308 0.00 0.00 44.08 1.89
3534 4878 4.693283 TGAGCACCTCAGGAATAAATACG 58.307 43.478 0.00 0.00 35.39 3.06
3535 4879 4.404394 TGAGCACCTCAGGAATAAATACGA 59.596 41.667 0.00 0.00 35.39 3.43
3536 4880 4.950050 AGCACCTCAGGAATAAATACGAG 58.050 43.478 0.00 0.00 0.00 4.18
3537 4881 3.495001 GCACCTCAGGAATAAATACGAGC 59.505 47.826 0.00 0.00 0.00 5.03
3538 4882 4.693283 CACCTCAGGAATAAATACGAGCA 58.307 43.478 0.00 0.00 0.00 4.26
3539 4883 4.508124 CACCTCAGGAATAAATACGAGCAC 59.492 45.833 0.00 0.00 0.00 4.40
3540 4884 4.058817 CCTCAGGAATAAATACGAGCACC 58.941 47.826 0.00 0.00 0.00 5.01
3541 4885 4.442893 CCTCAGGAATAAATACGAGCACCA 60.443 45.833 0.00 0.00 0.00 4.17
3542 4886 4.693283 TCAGGAATAAATACGAGCACCAG 58.307 43.478 0.00 0.00 0.00 4.00
3543 4887 3.809832 CAGGAATAAATACGAGCACCAGG 59.190 47.826 0.00 0.00 0.00 4.45
3544 4888 3.709653 AGGAATAAATACGAGCACCAGGA 59.290 43.478 0.00 0.00 0.00 3.86
3545 4889 4.348168 AGGAATAAATACGAGCACCAGGAT 59.652 41.667 0.00 0.00 0.00 3.24
3546 4890 5.063880 GGAATAAATACGAGCACCAGGATT 58.936 41.667 0.00 0.00 0.00 3.01
3547 4891 5.531287 GGAATAAATACGAGCACCAGGATTT 59.469 40.000 0.00 0.00 0.00 2.17
3548 4892 6.708949 GGAATAAATACGAGCACCAGGATTTA 59.291 38.462 0.00 0.00 0.00 1.40
3549 4893 7.227910 GGAATAAATACGAGCACCAGGATTTAA 59.772 37.037 0.00 0.00 0.00 1.52
3550 4894 8.514330 AATAAATACGAGCACCAGGATTTAAA 57.486 30.769 0.00 0.00 0.00 1.52
3551 4895 5.813080 AATACGAGCACCAGGATTTAAAC 57.187 39.130 0.00 0.00 0.00 2.01
3552 4896 2.433436 ACGAGCACCAGGATTTAAACC 58.567 47.619 0.00 0.00 0.00 3.27
3553 4897 1.743394 CGAGCACCAGGATTTAAACCC 59.257 52.381 0.00 0.00 0.00 4.11
3554 4898 2.618045 CGAGCACCAGGATTTAAACCCT 60.618 50.000 0.00 0.00 0.00 4.34
3571 4915 0.546598 CCTGGTGGGTTGAGGATACC 59.453 60.000 0.00 0.00 34.82 2.73
3572 4916 1.285280 CTGGTGGGTTGAGGATACCA 58.715 55.000 0.00 0.00 38.98 3.25
3573 4917 1.846439 CTGGTGGGTTGAGGATACCAT 59.154 52.381 0.00 0.00 40.34 3.55
3574 4918 3.045634 CTGGTGGGTTGAGGATACCATA 58.954 50.000 0.00 0.00 40.34 2.74
3575 4919 3.045634 TGGTGGGTTGAGGATACCATAG 58.954 50.000 0.00 0.00 36.56 2.23
3576 4920 3.046374 GGTGGGTTGAGGATACCATAGT 58.954 50.000 0.00 0.00 37.40 2.12
3577 4921 3.071167 GGTGGGTTGAGGATACCATAGTC 59.929 52.174 0.00 0.00 37.40 2.59
3578 4922 3.071167 GTGGGTTGAGGATACCATAGTCC 59.929 52.174 0.00 0.00 37.40 3.85
3579 4923 2.638363 GGGTTGAGGATACCATAGTCCC 59.362 54.545 0.00 0.00 37.40 4.46
3580 4924 3.588569 GGTTGAGGATACCATAGTCCCT 58.411 50.000 0.00 0.00 35.00 4.20
3581 4925 3.579151 GGTTGAGGATACCATAGTCCCTC 59.421 52.174 0.00 0.00 42.21 4.30
3582 4926 4.484912 GTTGAGGATACCATAGTCCCTCT 58.515 47.826 11.77 0.00 42.29 3.69
3583 4927 5.459241 GGTTGAGGATACCATAGTCCCTCTA 60.459 48.000 11.77 4.34 42.29 2.43
3584 4928 5.942977 TGAGGATACCATAGTCCCTCTAA 57.057 43.478 11.77 0.00 42.29 2.10
3585 4929 5.642165 TGAGGATACCATAGTCCCTCTAAC 58.358 45.833 11.77 0.00 42.29 2.34
3586 4930 5.013258 AGGATACCATAGTCCCTCTAACC 57.987 47.826 0.00 0.00 35.00 2.85
3587 4931 4.422592 AGGATACCATAGTCCCTCTAACCA 59.577 45.833 0.00 0.00 35.00 3.67
3588 4932 5.078006 AGGATACCATAGTCCCTCTAACCAT 59.922 44.000 0.00 0.00 35.00 3.55
3589 4933 5.422650 GGATACCATAGTCCCTCTAACCATC 59.577 48.000 0.00 0.00 31.94 3.51
3590 4934 3.588569 ACCATAGTCCCTCTAACCATCC 58.411 50.000 0.00 0.00 31.94 3.51
3591 4935 3.051341 ACCATAGTCCCTCTAACCATCCA 60.051 47.826 0.00 0.00 31.94 3.41
3592 4936 3.973973 CCATAGTCCCTCTAACCATCCAA 59.026 47.826 0.00 0.00 31.94 3.53
3593 4937 4.202367 CCATAGTCCCTCTAACCATCCAAC 60.202 50.000 0.00 0.00 31.94 3.77
3594 4938 2.197465 AGTCCCTCTAACCATCCAACC 58.803 52.381 0.00 0.00 0.00 3.77
3595 4939 1.913419 GTCCCTCTAACCATCCAACCA 59.087 52.381 0.00 0.00 0.00 3.67
3596 4940 1.913419 TCCCTCTAACCATCCAACCAC 59.087 52.381 0.00 0.00 0.00 4.16
3597 4941 1.633432 CCCTCTAACCATCCAACCACA 59.367 52.381 0.00 0.00 0.00 4.17
3598 4942 2.041081 CCCTCTAACCATCCAACCACAA 59.959 50.000 0.00 0.00 0.00 3.33
3599 4943 3.347216 CCTCTAACCATCCAACCACAAG 58.653 50.000 0.00 0.00 0.00 3.16
3600 4944 3.244911 CCTCTAACCATCCAACCACAAGT 60.245 47.826 0.00 0.00 0.00 3.16
3601 4945 4.398319 CTCTAACCATCCAACCACAAGTT 58.602 43.478 0.00 0.00 40.16 2.66
3743 5088 7.064253 AGGAAGAACGAGGTACAATTATTTTCG 59.936 37.037 0.00 0.00 0.00 3.46
3782 5127 9.781633 TTACCACCGCATATTTATTTGTAGTAT 57.218 29.630 0.00 0.00 0.00 2.12
3801 5146 8.954350 TGTAGTATAAGACTCTTCCAGTACAAC 58.046 37.037 13.20 0.43 39.81 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 5.358922 TGAGAAAACCATTCTGCCAAAAAG 58.641 37.500 0.00 0.00 0.00 2.27
253 254 1.195115 AGGTATCCATCACGTGTGCT 58.805 50.000 16.51 6.16 0.00 4.40
260 261 8.958119 TTTTGTATCAGTTAGGTATCCATCAC 57.042 34.615 0.00 0.00 0.00 3.06
363 364 3.350219 AACCTGGATCGCTAAACACAT 57.650 42.857 0.00 0.00 0.00 3.21
373 374 2.991250 AGGACAATCAAACCTGGATCG 58.009 47.619 0.00 0.00 32.39 3.69
393 394 6.041182 TGCCGGCTTGTATATTAAGAACTCTA 59.959 38.462 29.70 0.00 0.00 2.43
516 518 2.355513 ACCAAGAGGAAGCATACAGCTG 60.356 50.000 13.48 13.48 46.53 4.24
732 735 0.545071 TCATCACAGTCTCCCTGCCA 60.545 55.000 0.00 0.00 45.68 4.92
901 904 4.209703 GCATTACGATTGCAATTTCCATGG 59.790 41.667 14.33 4.97 39.90 3.66
921 924 5.864418 ATGCAATTTGTATCAAGAGGCAT 57.136 34.783 0.00 0.00 34.89 4.40
957 960 7.763071 AGTTGGATAACTGTTCGGTTATTAGAC 59.237 37.037 15.34 13.42 45.17 2.59
1023 1026 1.025041 CATCGTCAGAGTCGGATCCA 58.975 55.000 13.41 0.00 0.00 3.41
1038 1041 2.874694 CGCCGGCTCATTGTCATCG 61.875 63.158 26.68 0.00 0.00 3.84
1176 1179 0.856982 TCACCACAGACCCCCAAAAT 59.143 50.000 0.00 0.00 0.00 1.82
1235 1238 1.168714 GACTCCCCTGTGCAATTGTC 58.831 55.000 7.40 0.07 0.00 3.18
1289 1292 1.561730 GATGTAGACATGCAGCGCG 59.438 57.895 0.00 0.00 36.57 6.86
1414 1417 5.305644 AGATTAGTTCAGAGACCAAGTGTGT 59.694 40.000 0.00 0.00 0.00 3.72
1635 1638 2.758736 AGAGATCTGGCACAAGTGAC 57.241 50.000 0.00 0.83 38.70 3.67
1686 1689 5.177326 AGTTTTTGCTCATCTTTGCACAAA 58.823 33.333 0.00 0.00 39.05 2.83
1877 1880 5.189539 TCACATGATTTGATACACCAGAGGA 59.810 40.000 0.00 0.00 0.00 3.71
1937 1940 7.463515 GCAAATACAAACGCATTTACATAACCC 60.464 37.037 0.00 0.00 0.00 4.11
1939 1942 7.943952 TGCAAATACAAACGCATTTACATAAC 58.056 30.769 0.00 0.00 0.00 1.89
2208 2235 1.998315 CTTCAGATCGGTGAACTGCAG 59.002 52.381 13.48 13.48 33.43 4.41
2230 2265 9.298774 GTACACACAGACCTCATTATAGTAAAC 57.701 37.037 0.00 0.00 0.00 2.01
2439 2502 6.827586 AGGGCGTTTGATTTATTAGTTTCA 57.172 33.333 0.00 0.00 0.00 2.69
2553 2779 2.557924 TCCAAATTTGCTGACGAATGCT 59.442 40.909 12.92 0.00 29.85 3.79
2554 2780 2.945278 TCCAAATTTGCTGACGAATGC 58.055 42.857 12.92 0.00 29.85 3.56
2555 2781 5.117592 GTCTTTCCAAATTTGCTGACGAATG 59.882 40.000 12.92 11.62 29.85 2.67
2556 2782 5.222631 GTCTTTCCAAATTTGCTGACGAAT 58.777 37.500 12.92 0.00 0.00 3.34
2564 2797 7.116819 CAGTTAAAACGTCTTTCCAAATTTGC 58.883 34.615 12.92 0.00 0.00 3.68
2837 3071 6.310711 CGAAGGTATTGACTCTACAAAACTCC 59.689 42.308 0.00 0.00 33.44 3.85
2861 3095 8.582433 ACATTTTTATTTCCTTGTTACAACCG 57.418 30.769 0.00 0.00 0.00 4.44
2877 3111 5.975693 ACCGGAACACATGACATTTTTAT 57.024 34.783 9.46 0.00 0.00 1.40
2895 3129 3.056304 CCAAAACAACAAATGCTACCGG 58.944 45.455 0.00 0.00 0.00 5.28
2928 4225 8.547967 TTCCTAGTTATCTGTGATTCAAACAC 57.452 34.615 0.00 0.00 38.55 3.32
3209 4507 1.846541 GCATAGTGCTCGGAGAAGAC 58.153 55.000 9.69 1.78 40.96 3.01
3227 4525 5.813157 GGTGGTGAGAAACTTAAGAGATAGC 59.187 44.000 10.09 1.14 0.00 2.97
3235 4533 6.527423 ACTAAATCGGTGGTGAGAAACTTAA 58.473 36.000 0.00 0.00 0.00 1.85
3280 4578 6.115448 ACTAAAGAACTGCTATGGTGAAGT 57.885 37.500 0.00 0.00 0.00 3.01
3281 4579 6.876257 AGAACTAAAGAACTGCTATGGTGAAG 59.124 38.462 0.00 0.00 0.00 3.02
3331 4675 4.787135 TCACATCACTAAATATGGGCCA 57.213 40.909 9.61 9.61 0.00 5.36
3426 4770 9.279904 CGTTTTTGTCTGTACTGATGTTAAAAA 57.720 29.630 5.69 12.90 0.00 1.94
3427 4771 7.429920 GCGTTTTTGTCTGTACTGATGTTAAAA 59.570 33.333 5.69 8.67 0.00 1.52
3428 4772 6.908284 GCGTTTTTGTCTGTACTGATGTTAAA 59.092 34.615 5.69 3.78 0.00 1.52
3429 4773 6.259167 AGCGTTTTTGTCTGTACTGATGTTAA 59.741 34.615 5.69 0.00 0.00 2.01
3430 4774 5.756347 AGCGTTTTTGTCTGTACTGATGTTA 59.244 36.000 5.69 0.00 0.00 2.41
3431 4775 4.574828 AGCGTTTTTGTCTGTACTGATGTT 59.425 37.500 5.69 0.00 0.00 2.71
3432 4776 4.127171 AGCGTTTTTGTCTGTACTGATGT 58.873 39.130 5.69 0.00 0.00 3.06
3433 4777 4.211164 TGAGCGTTTTTGTCTGTACTGATG 59.789 41.667 5.69 0.00 0.00 3.07
3434 4778 4.377021 TGAGCGTTTTTGTCTGTACTGAT 58.623 39.130 5.69 0.00 0.00 2.90
3435 4779 3.787785 TGAGCGTTTTTGTCTGTACTGA 58.212 40.909 0.00 0.00 0.00 3.41
3436 4780 4.732285 ATGAGCGTTTTTGTCTGTACTG 57.268 40.909 0.00 0.00 0.00 2.74
3437 4781 7.063074 GTGTATATGAGCGTTTTTGTCTGTACT 59.937 37.037 0.00 0.00 0.00 2.73
3438 4782 7.148705 TGTGTATATGAGCGTTTTTGTCTGTAC 60.149 37.037 0.00 0.00 0.00 2.90
3439 4783 6.869388 TGTGTATATGAGCGTTTTTGTCTGTA 59.131 34.615 0.00 0.00 0.00 2.74
3440 4784 5.699001 TGTGTATATGAGCGTTTTTGTCTGT 59.301 36.000 0.00 0.00 0.00 3.41
3441 4785 6.015504 GTGTGTATATGAGCGTTTTTGTCTG 58.984 40.000 0.00 0.00 0.00 3.51
3442 4786 5.163992 CGTGTGTATATGAGCGTTTTTGTCT 60.164 40.000 0.00 0.00 0.00 3.41
3443 4787 5.013236 CGTGTGTATATGAGCGTTTTTGTC 58.987 41.667 0.00 0.00 0.00 3.18
3444 4788 4.668177 GCGTGTGTATATGAGCGTTTTTGT 60.668 41.667 0.00 0.00 0.00 2.83
3445 4789 3.778718 GCGTGTGTATATGAGCGTTTTTG 59.221 43.478 0.00 0.00 0.00 2.44
3446 4790 3.433957 TGCGTGTGTATATGAGCGTTTTT 59.566 39.130 0.00 0.00 0.00 1.94
3447 4791 2.997303 TGCGTGTGTATATGAGCGTTTT 59.003 40.909 0.00 0.00 0.00 2.43
3448 4792 2.612604 TGCGTGTGTATATGAGCGTTT 58.387 42.857 0.00 0.00 0.00 3.60
3449 4793 2.287393 TGCGTGTGTATATGAGCGTT 57.713 45.000 0.00 0.00 0.00 4.84
3450 4794 2.509052 ATGCGTGTGTATATGAGCGT 57.491 45.000 0.00 0.00 0.00 5.07
3451 4795 3.119628 GTGTATGCGTGTGTATATGAGCG 59.880 47.826 0.00 0.00 0.00 5.03
3452 4796 4.299155 AGTGTATGCGTGTGTATATGAGC 58.701 43.478 0.00 0.00 0.00 4.26
3453 4797 5.399596 GTGAGTGTATGCGTGTGTATATGAG 59.600 44.000 0.00 0.00 0.00 2.90
3454 4798 5.278604 GTGAGTGTATGCGTGTGTATATGA 58.721 41.667 0.00 0.00 0.00 2.15
3455 4799 4.444388 GGTGAGTGTATGCGTGTGTATATG 59.556 45.833 0.00 0.00 0.00 1.78
3456 4800 4.500887 GGGTGAGTGTATGCGTGTGTATAT 60.501 45.833 0.00 0.00 0.00 0.86
3457 4801 3.181484 GGGTGAGTGTATGCGTGTGTATA 60.181 47.826 0.00 0.00 0.00 1.47
3458 4802 2.418197 GGGTGAGTGTATGCGTGTGTAT 60.418 50.000 0.00 0.00 0.00 2.29
3459 4803 1.067425 GGGTGAGTGTATGCGTGTGTA 60.067 52.381 0.00 0.00 0.00 2.90
3460 4804 0.320421 GGGTGAGTGTATGCGTGTGT 60.320 55.000 0.00 0.00 0.00 3.72
3461 4805 1.019278 GGGGTGAGTGTATGCGTGTG 61.019 60.000 0.00 0.00 0.00 3.82
3462 4806 1.192146 AGGGGTGAGTGTATGCGTGT 61.192 55.000 0.00 0.00 0.00 4.49
3463 4807 0.821517 TAGGGGTGAGTGTATGCGTG 59.178 55.000 0.00 0.00 0.00 5.34
3464 4808 1.412710 CATAGGGGTGAGTGTATGCGT 59.587 52.381 0.00 0.00 0.00 5.24
3465 4809 1.686587 TCATAGGGGTGAGTGTATGCG 59.313 52.381 0.00 0.00 0.00 4.73
3466 4810 3.467803 GTTCATAGGGGTGAGTGTATGC 58.532 50.000 0.00 0.00 0.00 3.14
3467 4811 3.717707 CGTTCATAGGGGTGAGTGTATG 58.282 50.000 0.00 0.00 0.00 2.39
3468 4812 2.102588 GCGTTCATAGGGGTGAGTGTAT 59.897 50.000 0.00 0.00 0.00 2.29
3469 4813 1.479323 GCGTTCATAGGGGTGAGTGTA 59.521 52.381 0.00 0.00 0.00 2.90
3470 4814 0.249398 GCGTTCATAGGGGTGAGTGT 59.751 55.000 0.00 0.00 0.00 3.55
3471 4815 0.249120 TGCGTTCATAGGGGTGAGTG 59.751 55.000 0.00 0.00 0.00 3.51
3472 4816 0.249398 GTGCGTTCATAGGGGTGAGT 59.751 55.000 0.00 0.00 0.00 3.41
3473 4817 0.249120 TGTGCGTTCATAGGGGTGAG 59.751 55.000 0.00 0.00 0.00 3.51
3474 4818 0.036765 GTGTGCGTTCATAGGGGTGA 60.037 55.000 0.00 0.00 0.00 4.02
3475 4819 0.321210 TGTGTGCGTTCATAGGGGTG 60.321 55.000 0.00 0.00 0.00 4.61
3476 4820 0.321298 GTGTGTGCGTTCATAGGGGT 60.321 55.000 0.00 0.00 0.00 4.95
3477 4821 1.358725 CGTGTGTGCGTTCATAGGGG 61.359 60.000 0.00 0.00 0.00 4.79
3478 4822 1.966493 GCGTGTGTGCGTTCATAGGG 61.966 60.000 0.00 0.00 0.00 3.53
3479 4823 1.288419 TGCGTGTGTGCGTTCATAGG 61.288 55.000 0.00 0.00 37.81 2.57
3480 4824 0.179250 GTGCGTGTGTGCGTTCATAG 60.179 55.000 0.00 0.00 37.81 2.23
3481 4825 0.876342 TGTGCGTGTGTGCGTTCATA 60.876 50.000 0.00 0.00 37.81 2.15
3482 4826 1.506309 ATGTGCGTGTGTGCGTTCAT 61.506 50.000 0.00 0.00 37.81 2.57
3483 4827 2.100024 GATGTGCGTGTGTGCGTTCA 62.100 55.000 0.00 0.00 37.81 3.18
3484 4828 1.438710 GATGTGCGTGTGTGCGTTC 60.439 57.895 0.00 0.00 37.81 3.95
3485 4829 2.631428 GATGTGCGTGTGTGCGTT 59.369 55.556 0.00 0.00 37.81 4.84
3486 4830 2.428960 TAGGATGTGCGTGTGTGCGT 62.429 55.000 0.00 0.00 37.81 5.24
3487 4831 1.736282 TAGGATGTGCGTGTGTGCG 60.736 57.895 0.00 0.00 37.81 5.34
3488 4832 1.635663 GGTAGGATGTGCGTGTGTGC 61.636 60.000 0.00 0.00 0.00 4.57
3489 4833 1.019278 GGGTAGGATGTGCGTGTGTG 61.019 60.000 0.00 0.00 0.00 3.82
3490 4834 1.295423 GGGTAGGATGTGCGTGTGT 59.705 57.895 0.00 0.00 0.00 3.72
3491 4835 1.449601 GGGGTAGGATGTGCGTGTG 60.450 63.158 0.00 0.00 0.00 3.82
3492 4836 0.324923 TAGGGGTAGGATGTGCGTGT 60.325 55.000 0.00 0.00 0.00 4.49
3493 4837 1.048601 ATAGGGGTAGGATGTGCGTG 58.951 55.000 0.00 0.00 0.00 5.34
3494 4838 1.048601 CATAGGGGTAGGATGTGCGT 58.951 55.000 0.00 0.00 0.00 5.24
3495 4839 1.273606 CTCATAGGGGTAGGATGTGCG 59.726 57.143 0.00 0.00 0.00 5.34
3496 4840 1.002544 GCTCATAGGGGTAGGATGTGC 59.997 57.143 0.00 0.00 0.00 4.57
3497 4841 2.037772 GTGCTCATAGGGGTAGGATGTG 59.962 54.545 0.00 0.00 0.00 3.21
3498 4842 2.330216 GTGCTCATAGGGGTAGGATGT 58.670 52.381 0.00 0.00 0.00 3.06
3499 4843 1.625818 GGTGCTCATAGGGGTAGGATG 59.374 57.143 0.00 0.00 0.00 3.51
3500 4844 1.509961 AGGTGCTCATAGGGGTAGGAT 59.490 52.381 0.00 0.00 0.00 3.24
3501 4845 0.941963 AGGTGCTCATAGGGGTAGGA 59.058 55.000 0.00 0.00 0.00 2.94
3502 4846 1.343069 GAGGTGCTCATAGGGGTAGG 58.657 60.000 0.00 0.00 0.00 3.18
3503 4847 1.967066 CTGAGGTGCTCATAGGGGTAG 59.033 57.143 0.00 0.00 39.92 3.18
3504 4848 1.413082 CCTGAGGTGCTCATAGGGGTA 60.413 57.143 0.00 0.00 39.92 3.69
3505 4849 0.692419 CCTGAGGTGCTCATAGGGGT 60.692 60.000 0.00 0.00 39.92 4.95
3506 4850 0.399091 TCCTGAGGTGCTCATAGGGG 60.399 60.000 0.00 0.00 39.92 4.79
3507 4851 1.500474 TTCCTGAGGTGCTCATAGGG 58.500 55.000 0.00 0.00 39.92 3.53
3508 4852 4.963318 TTATTCCTGAGGTGCTCATAGG 57.037 45.455 0.00 0.00 39.92 2.57
3509 4853 6.587990 CGTATTTATTCCTGAGGTGCTCATAG 59.412 42.308 0.00 0.00 39.92 2.23
3510 4854 6.266786 TCGTATTTATTCCTGAGGTGCTCATA 59.733 38.462 0.00 0.00 39.92 2.15
3511 4855 5.070446 TCGTATTTATTCCTGAGGTGCTCAT 59.930 40.000 0.00 0.00 39.92 2.90
3512 4856 4.404394 TCGTATTTATTCCTGAGGTGCTCA 59.596 41.667 0.00 0.00 38.25 4.26
3513 4857 4.945246 TCGTATTTATTCCTGAGGTGCTC 58.055 43.478 0.00 0.00 0.00 4.26
3514 4858 4.740934 GCTCGTATTTATTCCTGAGGTGCT 60.741 45.833 0.00 0.00 0.00 4.40
3515 4859 3.495001 GCTCGTATTTATTCCTGAGGTGC 59.505 47.826 0.00 0.00 0.00 5.01
3516 4860 4.508124 GTGCTCGTATTTATTCCTGAGGTG 59.492 45.833 0.00 0.00 0.00 4.00
3517 4861 4.443034 GGTGCTCGTATTTATTCCTGAGGT 60.443 45.833 0.00 0.00 0.00 3.85
3518 4862 4.058817 GGTGCTCGTATTTATTCCTGAGG 58.941 47.826 0.00 0.00 0.00 3.86
3519 4863 4.693283 TGGTGCTCGTATTTATTCCTGAG 58.307 43.478 0.00 0.00 0.00 3.35
3520 4864 4.442893 CCTGGTGCTCGTATTTATTCCTGA 60.443 45.833 0.00 0.00 0.00 3.86
3521 4865 3.809832 CCTGGTGCTCGTATTTATTCCTG 59.190 47.826 0.00 0.00 0.00 3.86
3522 4866 3.709653 TCCTGGTGCTCGTATTTATTCCT 59.290 43.478 0.00 0.00 0.00 3.36
3523 4867 4.067972 TCCTGGTGCTCGTATTTATTCC 57.932 45.455 0.00 0.00 0.00 3.01
3524 4868 6.619801 AAATCCTGGTGCTCGTATTTATTC 57.380 37.500 0.00 0.00 0.00 1.75
3525 4869 8.403236 GTTTAAATCCTGGTGCTCGTATTTATT 58.597 33.333 0.00 0.00 0.00 1.40
3526 4870 7.012989 GGTTTAAATCCTGGTGCTCGTATTTAT 59.987 37.037 0.00 0.00 0.00 1.40
3527 4871 6.316890 GGTTTAAATCCTGGTGCTCGTATTTA 59.683 38.462 0.00 0.00 0.00 1.40
3528 4872 5.124936 GGTTTAAATCCTGGTGCTCGTATTT 59.875 40.000 0.00 0.00 0.00 1.40
3529 4873 4.638865 GGTTTAAATCCTGGTGCTCGTATT 59.361 41.667 0.00 0.00 0.00 1.89
3530 4874 4.196971 GGTTTAAATCCTGGTGCTCGTAT 58.803 43.478 0.00 0.00 0.00 3.06
3531 4875 3.602483 GGTTTAAATCCTGGTGCTCGTA 58.398 45.455 0.00 0.00 0.00 3.43
3532 4876 2.433436 GGTTTAAATCCTGGTGCTCGT 58.567 47.619 0.00 0.00 0.00 4.18
3533 4877 1.743394 GGGTTTAAATCCTGGTGCTCG 59.257 52.381 10.45 0.00 0.00 5.03
3534 4878 3.087370 AGGGTTTAAATCCTGGTGCTC 57.913 47.619 19.53 0.00 38.36 4.26
3552 4896 0.546598 GGTATCCTCAACCCACCAGG 59.453 60.000 0.00 0.00 43.78 4.45
3553 4897 1.285280 TGGTATCCTCAACCCACCAG 58.715 55.000 0.00 0.00 34.40 4.00
3554 4898 1.979809 ATGGTATCCTCAACCCACCA 58.020 50.000 0.00 0.00 43.10 4.17
3555 4899 3.046374 ACTATGGTATCCTCAACCCACC 58.954 50.000 0.00 0.00 36.06 4.61
3556 4900 3.071167 GGACTATGGTATCCTCAACCCAC 59.929 52.174 0.00 0.00 36.06 4.61
3557 4901 3.314693 GGACTATGGTATCCTCAACCCA 58.685 50.000 0.00 0.00 36.06 4.51
3558 4902 2.638363 GGGACTATGGTATCCTCAACCC 59.362 54.545 0.00 0.00 36.06 4.11
3559 4903 3.579151 GAGGGACTATGGTATCCTCAACC 59.421 52.174 19.53 0.00 41.55 3.77
3560 4904 4.484912 AGAGGGACTATGGTATCCTCAAC 58.515 47.826 23.62 6.88 42.86 3.18
3561 4905 4.834406 AGAGGGACTATGGTATCCTCAA 57.166 45.455 23.62 0.00 42.86 3.02
3562 4906 5.459241 GGTTAGAGGGACTATGGTATCCTCA 60.459 48.000 23.62 12.73 42.86 3.86
3563 4907 5.018149 GGTTAGAGGGACTATGGTATCCTC 58.982 50.000 17.81 17.81 41.55 3.71
3564 4908 4.422592 TGGTTAGAGGGACTATGGTATCCT 59.577 45.833 3.70 3.70 41.55 3.24
3565 4909 4.748701 TGGTTAGAGGGACTATGGTATCC 58.251 47.826 0.00 0.00 41.55 2.59
3566 4910 5.422650 GGATGGTTAGAGGGACTATGGTATC 59.577 48.000 0.00 0.00 41.55 2.24
3567 4911 5.162760 TGGATGGTTAGAGGGACTATGGTAT 60.163 44.000 0.00 0.00 41.55 2.73
3568 4912 4.171243 TGGATGGTTAGAGGGACTATGGTA 59.829 45.833 0.00 0.00 41.55 3.25
3569 4913 3.051341 TGGATGGTTAGAGGGACTATGGT 60.051 47.826 0.00 0.00 41.55 3.55
3570 4914 3.587498 TGGATGGTTAGAGGGACTATGG 58.413 50.000 0.00 0.00 41.55 2.74
3571 4915 4.202367 GGTTGGATGGTTAGAGGGACTATG 60.202 50.000 0.00 0.00 41.55 2.23
3572 4916 3.974642 GGTTGGATGGTTAGAGGGACTAT 59.025 47.826 0.00 0.00 41.55 2.12
3573 4917 3.246203 TGGTTGGATGGTTAGAGGGACTA 60.246 47.826 0.00 0.00 41.55 2.59
3575 4919 1.913419 TGGTTGGATGGTTAGAGGGAC 59.087 52.381 0.00 0.00 0.00 4.46
3576 4920 1.913419 GTGGTTGGATGGTTAGAGGGA 59.087 52.381 0.00 0.00 0.00 4.20
3577 4921 1.633432 TGTGGTTGGATGGTTAGAGGG 59.367 52.381 0.00 0.00 0.00 4.30
3578 4922 3.244911 ACTTGTGGTTGGATGGTTAGAGG 60.245 47.826 0.00 0.00 0.00 3.69
3579 4923 4.021102 ACTTGTGGTTGGATGGTTAGAG 57.979 45.455 0.00 0.00 0.00 2.43
3580 4924 4.447138 AACTTGTGGTTGGATGGTTAGA 57.553 40.909 0.00 0.00 36.70 2.10
3594 4938 1.010125 CAACGCGGACCAACTTGTG 60.010 57.895 12.47 0.00 0.00 3.33
3595 4939 1.450669 ACAACGCGGACCAACTTGT 60.451 52.632 12.47 7.16 0.00 3.16
3596 4940 1.010125 CACAACGCGGACCAACTTG 60.010 57.895 12.47 6.43 0.00 3.16
3597 4941 0.179078 TACACAACGCGGACCAACTT 60.179 50.000 12.47 0.00 0.00 2.66
3598 4942 0.034337 ATACACAACGCGGACCAACT 59.966 50.000 12.47 0.00 0.00 3.16
3599 4943 0.441145 GATACACAACGCGGACCAAC 59.559 55.000 12.47 0.00 0.00 3.77
3600 4944 0.033642 TGATACACAACGCGGACCAA 59.966 50.000 12.47 0.00 0.00 3.67
3601 4945 0.248012 ATGATACACAACGCGGACCA 59.752 50.000 12.47 0.00 0.00 4.02
3602 4946 0.650512 CATGATACACAACGCGGACC 59.349 55.000 12.47 0.00 0.00 4.46
3603 4947 1.355971 ACATGATACACAACGCGGAC 58.644 50.000 12.47 0.00 0.00 4.79
3604 4948 2.943449 TACATGATACACAACGCGGA 57.057 45.000 12.47 0.00 0.00 5.54
3605 4949 4.743151 ACTAATACATGATACACAACGCGG 59.257 41.667 12.47 0.00 0.00 6.46
3606 4950 5.883328 ACTAATACATGATACACAACGCG 57.117 39.130 3.53 3.53 0.00 6.01
3607 4951 7.229228 TCAACTAATACATGATACACAACGC 57.771 36.000 0.00 0.00 0.00 4.84
3608 4952 9.636965 CATTCAACTAATACATGATACACAACG 57.363 33.333 0.00 0.00 0.00 4.10
3704 5049 3.181501 CGTTCTTCCTGTTTTGTTGAGCA 60.182 43.478 0.00 0.00 0.00 4.26
3707 5052 3.625764 CCTCGTTCTTCCTGTTTTGTTGA 59.374 43.478 0.00 0.00 0.00 3.18
3717 5062 7.064253 CGAAAATAATTGTACCTCGTTCTTCCT 59.936 37.037 0.00 0.00 0.00 3.36
3743 5088 3.442100 CGGTGGTAAACGAAGAGGATAC 58.558 50.000 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.