Multiple sequence alignment - TraesCS4B01G218800

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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 TraesCS4B01G218800 chr4B 100.000 3719 0 0 1 3719 460784658 460780940 0.000000e+00 6868
1 TraesCS4B01G218800 chr4B 92.169 166 12 1 3554 3718 483266540 483266375 2.230000e-57 233
2 TraesCS4B01G218800 chr4B 87.958 191 17 5 3527 3714 41528070 41528257 1.740000e-53 220
3 TraesCS4B01G218800 chr4A 92.784 2245 93 20 612 2789 90048664 90050906 0.000000e+00 3184
4 TraesCS4B01G218800 chr4A 86.863 510 25 14 612 1080 89956955 89957463 1.970000e-147 532
5 TraesCS4B01G218800 chr4A 93.210 162 10 1 3554 3714 669198137 669197976 1.730000e-58 237
6 TraesCS4B01G218800 chr4A 89.691 194 7 5 3066 3250 90051173 90051362 6.210000e-58 235
7 TraesCS4B01G218800 chr4A 81.176 170 10 5 2822 2991 90050987 90051134 2.350000e-22 117
8 TraesCS4B01G218800 chr4A 90.667 75 5 2 623 697 89951974 89952046 8.500000e-17 99
9 TraesCS4B01G218800 chr4D 95.605 1934 53 7 862 2784 374336319 374334407 0.000000e+00 3072
10 TraesCS4B01G218800 chr4D 85.149 707 53 28 2787 3470 374334370 374333693 0.000000e+00 676
11 TraesCS4B01G218800 chr4D 87.410 278 13 7 614 870 374336752 374336476 2.170000e-77 300
12 TraesCS4B01G218800 chr7B 91.694 614 50 1 1 613 293068329 293067716 0.000000e+00 850
13 TraesCS4B01G218800 chr6D 91.843 613 44 3 1 612 379709588 379710195 0.000000e+00 850
14 TraesCS4B01G218800 chr6D 93.210 162 10 1 3554 3714 208781794 208781955 1.730000e-58 237
15 TraesCS4B01G218800 chr6D 93.210 162 10 1 3554 3714 311580534 311580695 1.730000e-58 237
16 TraesCS4B01G218800 chr7D 91.396 616 49 3 1 612 50084659 50084044 0.000000e+00 841
17 TraesCS4B01G218800 chr7D 91.617 167 13 1 3554 3719 543061318 543061152 2.890000e-56 230
18 TraesCS4B01G218800 chr1D 91.368 614 48 5 1 613 442044038 442044647 0.000000e+00 835
19 TraesCS4B01G218800 chr6B 91.220 615 51 3 1 612 674361357 674361971 0.000000e+00 833
20 TraesCS4B01G218800 chrUn 91.354 613 46 2 1 612 282688655 282688049 0.000000e+00 832
21 TraesCS4B01G218800 chr3B 91.176 612 54 0 1 612 808039131 808038520 0.000000e+00 832
22 TraesCS4B01G218800 chr2A 91.354 613 46 2 1 612 16570281 16569675 0.000000e+00 832
23 TraesCS4B01G218800 chr5D 91.191 613 50 3 1 612 17120168 17119559 0.000000e+00 830
24 TraesCS4B01G218800 chr2B 92.398 171 11 2 3549 3718 291855172 291855003 3.710000e-60 243
25 TraesCS4B01G218800 chr3D 92.262 168 11 2 3552 3718 238999412 238999578 1.730000e-58 237
26 TraesCS4B01G218800 chr3D 91.617 167 12 2 3554 3719 19328929 19328764 2.890000e-56 230


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 TraesCS4B01G218800 chr4B 460780940 460784658 3718 True 6868.000000 6868 100.000000 1 3719 1 chr4B.!!$R1 3718
1 TraesCS4B01G218800 chr4A 90048664 90051362 2698 False 1178.666667 3184 87.883667 612 3250 3 chr4A.!!$F3 2638
2 TraesCS4B01G218800 chr4A 89956955 89957463 508 False 532.000000 532 86.863000 612 1080 1 chr4A.!!$F2 468
3 TraesCS4B01G218800 chr4D 374333693 374336752 3059 True 1349.333333 3072 89.388000 614 3470 3 chr4D.!!$R1 2856
4 TraesCS4B01G218800 chr7B 293067716 293068329 613 True 850.000000 850 91.694000 1 613 1 chr7B.!!$R1 612
5 TraesCS4B01G218800 chr6D 379709588 379710195 607 False 850.000000 850 91.843000 1 612 1 chr6D.!!$F3 611
6 TraesCS4B01G218800 chr7D 50084044 50084659 615 True 841.000000 841 91.396000 1 612 1 chr7D.!!$R1 611
7 TraesCS4B01G218800 chr1D 442044038 442044647 609 False 835.000000 835 91.368000 1 613 1 chr1D.!!$F1 612
8 TraesCS4B01G218800 chr6B 674361357 674361971 614 False 833.000000 833 91.220000 1 612 1 chr6B.!!$F1 611
9 TraesCS4B01G218800 chrUn 282688049 282688655 606 True 832.000000 832 91.354000 1 612 1 chrUn.!!$R1 611
10 TraesCS4B01G218800 chr3B 808038520 808039131 611 True 832.000000 832 91.176000 1 612 1 chr3B.!!$R1 611
11 TraesCS4B01G218800 chr2A 16569675 16570281 606 True 832.000000 832 91.354000 1 612 1 chr2A.!!$R1 611
12 TraesCS4B01G218800 chr5D 17119559 17120168 609 True 830.000000 830 91.191000 1 612 1 chr5D.!!$R1 611

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
272 275 0.889306 CCGACGGGAGAGAGAAAACT 59.111 55.0 5.81 0.0 34.06 2.66 F
1692 1928 1.182667 TCGTCCACCTGAACATCGAT 58.817 50.0 0.00 0.0 0.00 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2259 2495 0.941542 GGTACTGCACGTTGCTGAAA 59.058 50.0 18.42 7.67 45.31 2.69 R
2908 3247 0.184933 ATCTAGCCTCACTCTCCGCT 59.815 55.0 0.00 0.00 35.34 5.52 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
17 18 2.351276 GTCGGGGTGATGCAGGTT 59.649 61.111 0.00 0.00 0.00 3.50
19 20 1.303236 TCGGGGTGATGCAGGTTTG 60.303 57.895 0.00 0.00 0.00 2.93
70 71 4.404098 GGTGACGGGCGGACCAAT 62.404 66.667 0.00 0.00 40.22 3.16
256 258 1.588932 GCGCGATCAAGATGACCGA 60.589 57.895 12.10 0.00 0.00 4.69
272 275 0.889306 CCGACGGGAGAGAGAAAACT 59.111 55.000 5.81 0.00 34.06 2.66
443 449 3.132467 GCTAGGGTTTAGGATCGACTTGT 59.868 47.826 0.00 0.00 0.00 3.16
452 458 8.524487 GGTTTAGGATCGACTTGTGATAGATAT 58.476 37.037 0.00 0.00 0.00 1.63
462 468 9.553418 CGACTTGTGATAGATATCATGTTAGAG 57.447 37.037 5.32 0.00 43.82 2.43
497 504 8.190326 AGATTTGGTGGAATAGTCGATGTATA 57.810 34.615 0.00 0.00 0.00 1.47
579 588 9.566432 CAAGCCAGAATATTTCCTAGTCTAATT 57.434 33.333 0.00 0.00 33.14 1.40
620 629 2.224113 ACGTTACTCAACACGGGTCATT 60.224 45.455 0.00 0.00 40.84 2.57
645 655 3.559171 GGAGGGACTGAGCAACACAATTA 60.559 47.826 0.00 0.00 41.55 1.40
746 775 3.951663 ACAGCAAGTTAATACAGGACCC 58.048 45.455 0.00 0.00 0.00 4.46
910 1121 4.662961 CGGCCACTGTCACGAGCA 62.663 66.667 2.24 0.00 0.00 4.26
1028 1261 1.595109 CTGCATTGCCTATCCGCGA 60.595 57.895 8.23 0.00 0.00 5.87
1593 1829 1.741770 CGAGTTCTTCCCCAAGGCG 60.742 63.158 0.00 0.00 0.00 5.52
1643 1879 2.223745 GCCGTTCCTGGTTCAAACTAA 58.776 47.619 0.00 0.00 0.00 2.24
1650 1886 2.107552 CCTGGTTCAAACTAAGGACCCA 59.892 50.000 8.58 0.00 35.85 4.51
1692 1928 1.182667 TCGTCCACCTGAACATCGAT 58.817 50.000 0.00 0.00 0.00 3.59
1722 1958 2.270352 TCATCTTTGCCAAGAACCGT 57.730 45.000 4.09 0.00 42.53 4.83
2164 2400 2.705821 CGGTTCGAGGAGCAGAGCT 61.706 63.158 0.00 0.00 43.88 4.09
2196 2432 2.959372 CGGCTGTACCACTCGTCA 59.041 61.111 0.00 0.00 39.03 4.35
2214 2450 3.675563 GCGATCCTCCTCCGCGAT 61.676 66.667 8.23 0.00 39.54 4.58
2259 2495 3.531538 CAACCCGCACATCTACTACAAT 58.468 45.455 0.00 0.00 0.00 2.71
2355 2591 1.604378 CCTCCGCCCAAAGATCACT 59.396 57.895 0.00 0.00 0.00 3.41
2573 2809 3.998672 GTTCCTGGACGTGGCGGA 61.999 66.667 0.00 0.00 0.00 5.54
2784 3043 4.515567 ACCCGATTGTTTTGTTCTCTTCTC 59.484 41.667 0.00 0.00 0.00 2.87
2786 3045 5.239525 CCCGATTGTTTTGTTCTCTTCTCTT 59.760 40.000 0.00 0.00 0.00 2.85
2787 3046 6.138761 CCGATTGTTTTGTTCTCTTCTCTTG 58.861 40.000 0.00 0.00 0.00 3.02
2790 3049 7.465916 CGATTGTTTTGTTCTCTTCTCTTGTGA 60.466 37.037 0.00 0.00 0.00 3.58
2791 3050 7.630242 TTGTTTTGTTCTCTTCTCTTGTGAT 57.370 32.000 0.00 0.00 0.00 3.06
2792 3051 8.731275 TTGTTTTGTTCTCTTCTCTTGTGATA 57.269 30.769 0.00 0.00 0.00 2.15
2798 3093 8.581253 TGTTCTCTTCTCTTGTGATAGTGATA 57.419 34.615 0.00 0.00 0.00 2.15
2809 3104 4.461431 TGTGATAGTGATACCGTGACTTGT 59.539 41.667 0.00 0.00 0.00 3.16
2812 3107 5.867174 TGATAGTGATACCGTGACTTGTTTG 59.133 40.000 0.00 0.00 0.00 2.93
2813 3108 4.067972 AGTGATACCGTGACTTGTTTGT 57.932 40.909 0.00 0.00 0.00 2.83
2890 3229 2.159787 CGAAAGGCGAAGAATGTCTGTG 60.160 50.000 0.00 0.00 44.57 3.66
2891 3230 2.839486 AAGGCGAAGAATGTCTGTGA 57.161 45.000 0.00 0.00 0.00 3.58
2892 3231 2.839486 AGGCGAAGAATGTCTGTGAA 57.161 45.000 0.00 0.00 0.00 3.18
2893 3232 3.126001 AGGCGAAGAATGTCTGTGAAA 57.874 42.857 0.00 0.00 0.00 2.69
2894 3233 3.476552 AGGCGAAGAATGTCTGTGAAAA 58.523 40.909 0.00 0.00 0.00 2.29
2895 3234 3.882888 AGGCGAAGAATGTCTGTGAAAAA 59.117 39.130 0.00 0.00 0.00 1.94
2910 3249 1.952263 AAAAAGTGCTCGGCTCAGC 59.048 52.632 0.00 0.00 40.13 4.26
2911 3250 1.845809 AAAAAGTGCTCGGCTCAGCG 61.846 55.000 0.00 0.00 42.92 5.18
2941 3280 1.135199 GCTAGATTCACGTGAACCGGA 60.135 52.381 31.87 15.67 42.24 5.14
3010 3359 3.480470 CCTAGGTGCATTTGGTGGATAG 58.520 50.000 0.00 0.00 0.00 2.08
3011 3360 3.117888 CCTAGGTGCATTTGGTGGATAGT 60.118 47.826 0.00 0.00 0.00 2.12
3012 3361 4.102524 CCTAGGTGCATTTGGTGGATAGTA 59.897 45.833 0.00 0.00 0.00 1.82
3013 3362 3.886123 AGGTGCATTTGGTGGATAGTAC 58.114 45.455 0.00 0.00 0.00 2.73
3014 3363 3.265737 AGGTGCATTTGGTGGATAGTACA 59.734 43.478 0.00 0.00 0.00 2.90
3015 3364 4.079787 AGGTGCATTTGGTGGATAGTACAT 60.080 41.667 0.00 0.00 0.00 2.29
3016 3365 4.275936 GGTGCATTTGGTGGATAGTACATC 59.724 45.833 0.00 0.00 0.00 3.06
3017 3366 5.126067 GTGCATTTGGTGGATAGTACATCT 58.874 41.667 0.00 0.00 0.00 2.90
3018 3367 5.237344 GTGCATTTGGTGGATAGTACATCTC 59.763 44.000 0.00 0.00 0.00 2.75
3019 3368 4.449068 GCATTTGGTGGATAGTACATCTCG 59.551 45.833 0.00 0.00 0.00 4.04
3020 3369 5.601662 CATTTGGTGGATAGTACATCTCGT 58.398 41.667 0.00 0.00 0.00 4.18
3021 3370 6.737622 GCATTTGGTGGATAGTACATCTCGTA 60.738 42.308 0.00 0.00 0.00 3.43
3022 3371 6.387041 TTTGGTGGATAGTACATCTCGTAG 57.613 41.667 0.00 0.00 0.00 3.51
3023 3372 4.395625 TGGTGGATAGTACATCTCGTAGG 58.604 47.826 0.00 0.00 0.00 3.18
3024 3373 4.141321 TGGTGGATAGTACATCTCGTAGGT 60.141 45.833 0.00 0.00 0.00 3.08
3025 3374 4.215827 GGTGGATAGTACATCTCGTAGGTG 59.784 50.000 0.00 0.00 0.00 4.00
3026 3375 4.215827 GTGGATAGTACATCTCGTAGGTGG 59.784 50.000 0.00 0.00 0.00 4.61
3027 3376 4.103627 TGGATAGTACATCTCGTAGGTGGA 59.896 45.833 0.00 0.00 0.00 4.02
3028 3377 4.455190 GGATAGTACATCTCGTAGGTGGAC 59.545 50.000 0.00 3.15 0.00 4.02
3029 3378 3.361281 AGTACATCTCGTAGGTGGACA 57.639 47.619 11.50 0.00 0.00 4.02
3030 3379 3.693807 AGTACATCTCGTAGGTGGACAA 58.306 45.455 11.50 0.00 0.00 3.18
3031 3380 4.084287 AGTACATCTCGTAGGTGGACAAA 58.916 43.478 11.50 0.00 0.00 2.83
3032 3381 4.525487 AGTACATCTCGTAGGTGGACAAAA 59.475 41.667 11.50 0.00 0.00 2.44
3033 3382 4.553330 ACATCTCGTAGGTGGACAAAAT 57.447 40.909 0.00 0.00 0.00 1.82
3034 3383 4.906618 ACATCTCGTAGGTGGACAAAATT 58.093 39.130 0.00 0.00 0.00 1.82
3035 3384 4.695455 ACATCTCGTAGGTGGACAAAATTG 59.305 41.667 0.00 0.00 0.00 2.32
3036 3385 3.670625 TCTCGTAGGTGGACAAAATTGG 58.329 45.455 0.00 0.00 0.00 3.16
3056 3405 2.789917 CTGCTGCATCGAAGTGGC 59.210 61.111 1.31 0.00 0.00 5.01
3101 3450 2.975799 GTTGGCGGCGTTCCTTCA 60.976 61.111 9.37 0.00 0.00 3.02
3268 3627 4.335647 CCCGGCAGTCAGCTTGGT 62.336 66.667 0.00 0.00 44.79 3.67
3293 3652 0.729116 CAAGTAATGGCTGCGGTCTG 59.271 55.000 0.00 0.00 0.00 3.51
3294 3653 1.026718 AAGTAATGGCTGCGGTCTGC 61.027 55.000 0.00 0.00 46.70 4.26
3330 3689 2.033448 AAAATCCTGGCGTGCCGA 59.967 55.556 6.37 0.00 39.42 5.54
3335 3694 4.457496 CCTGGCGTGCCGAGATGT 62.457 66.667 6.37 0.00 39.42 3.06
3338 3697 2.583593 GGCGTGCCGAGATGTCTC 60.584 66.667 0.00 0.00 39.55 3.36
3425 3784 2.522367 TTGGTCGGACTGAACCCCC 61.522 63.158 8.23 0.00 31.20 5.40
3428 3787 1.452801 GTCGGACTGAACCCCCAAA 59.547 57.895 0.00 0.00 0.00 3.28
3429 3788 0.037734 GTCGGACTGAACCCCCAAAT 59.962 55.000 0.00 0.00 0.00 2.32
3435 3794 3.699538 GGACTGAACCCCCAAATATCAAC 59.300 47.826 0.00 0.00 0.00 3.18
3448 3807 7.287950 CCCAAATATCAACAATGTATCGTACG 58.712 38.462 9.53 9.53 0.00 3.67
3465 3824 3.858040 CGAAAATGCTTCGTCTCGG 57.142 52.632 0.00 0.00 37.18 4.63
3467 3826 1.439679 GAAAATGCTTCGTCTCGGGT 58.560 50.000 0.00 0.00 0.00 5.28
3468 3827 2.613691 GAAAATGCTTCGTCTCGGGTA 58.386 47.619 0.00 0.00 0.00 3.69
3469 3828 2.295253 AAATGCTTCGTCTCGGGTAG 57.705 50.000 0.00 0.00 0.00 3.18
3470 3829 0.179108 AATGCTTCGTCTCGGGTAGC 60.179 55.000 0.00 0.00 0.00 3.58
3471 3830 1.038130 ATGCTTCGTCTCGGGTAGCT 61.038 55.000 0.00 0.00 33.15 3.32
3472 3831 0.393402 TGCTTCGTCTCGGGTAGCTA 60.393 55.000 0.00 0.00 33.15 3.32
3473 3832 0.029167 GCTTCGTCTCGGGTAGCTAC 59.971 60.000 15.88 15.88 0.00 3.58
3474 3833 0.304098 CTTCGTCTCGGGTAGCTACG 59.696 60.000 17.48 7.20 34.99 3.51
3475 3834 0.108186 TTCGTCTCGGGTAGCTACGA 60.108 55.000 17.48 11.57 40.48 3.43
3476 3835 0.108186 TCGTCTCGGGTAGCTACGAA 60.108 55.000 17.48 4.73 39.40 3.85
3477 3836 0.027324 CGTCTCGGGTAGCTACGAAC 59.973 60.000 17.48 9.40 38.79 3.95
3478 3837 1.089920 GTCTCGGGTAGCTACGAACA 58.910 55.000 17.48 0.98 38.79 3.18
3479 3838 1.063764 GTCTCGGGTAGCTACGAACAG 59.936 57.143 17.48 10.38 38.79 3.16
3480 3839 0.248539 CTCGGGTAGCTACGAACAGC 60.249 60.000 17.48 2.55 42.12 4.40
3489 3848 2.180397 GCTACGAACAGCTTACGTACC 58.820 52.381 11.13 4.10 40.61 3.34
3490 3849 2.159462 GCTACGAACAGCTTACGTACCT 60.159 50.000 11.13 0.00 40.61 3.08
3491 3850 2.626088 ACGAACAGCTTACGTACCTC 57.374 50.000 7.64 0.00 38.47 3.85
3492 3851 1.200948 ACGAACAGCTTACGTACCTCC 59.799 52.381 7.64 0.00 38.47 4.30
3493 3852 1.792993 CGAACAGCTTACGTACCTCCG 60.793 57.143 0.00 0.00 0.00 4.63
3494 3853 0.529378 AACAGCTTACGTACCTCCGG 59.471 55.000 0.00 0.00 0.00 5.14
3495 3854 1.226888 CAGCTTACGTACCTCCGGC 60.227 63.158 0.00 0.00 0.00 6.13
3496 3855 2.105729 GCTTACGTACCTCCGGCC 59.894 66.667 0.00 0.00 0.00 6.13
3497 3856 2.713967 GCTTACGTACCTCCGGCCA 61.714 63.158 2.24 0.00 0.00 5.36
3498 3857 1.892338 CTTACGTACCTCCGGCCAA 59.108 57.895 2.24 0.00 0.00 4.52
3499 3858 0.247185 CTTACGTACCTCCGGCCAAA 59.753 55.000 2.24 0.00 0.00 3.28
3500 3859 0.037419 TTACGTACCTCCGGCCAAAC 60.037 55.000 2.24 0.00 0.00 2.93
3501 3860 0.899717 TACGTACCTCCGGCCAAACT 60.900 55.000 2.24 0.00 0.00 2.66
3502 3861 1.004200 CGTACCTCCGGCCAAACTT 60.004 57.895 2.24 0.00 0.00 2.66
3503 3862 0.604511 CGTACCTCCGGCCAAACTTT 60.605 55.000 2.24 0.00 0.00 2.66
3504 3863 0.879090 GTACCTCCGGCCAAACTTTG 59.121 55.000 2.24 0.00 0.00 2.77
3505 3864 0.766131 TACCTCCGGCCAAACTTTGA 59.234 50.000 2.24 0.00 0.00 2.69
3506 3865 0.112412 ACCTCCGGCCAAACTTTGAT 59.888 50.000 2.24 0.00 0.00 2.57
3507 3866 0.811281 CCTCCGGCCAAACTTTGATC 59.189 55.000 2.24 0.00 0.00 2.92
3508 3867 1.533625 CTCCGGCCAAACTTTGATCA 58.466 50.000 2.24 0.00 0.00 2.92
3509 3868 2.094675 CTCCGGCCAAACTTTGATCAT 58.905 47.619 2.24 0.00 0.00 2.45
3510 3869 3.278574 CTCCGGCCAAACTTTGATCATA 58.721 45.455 2.24 0.00 0.00 2.15
3511 3870 3.885297 CTCCGGCCAAACTTTGATCATAT 59.115 43.478 2.24 0.00 0.00 1.78
3512 3871 5.042463 TCCGGCCAAACTTTGATCATATA 57.958 39.130 2.24 0.00 0.00 0.86
3513 3872 5.630121 TCCGGCCAAACTTTGATCATATAT 58.370 37.500 2.24 0.00 0.00 0.86
3514 3873 6.068010 TCCGGCCAAACTTTGATCATATATT 58.932 36.000 2.24 0.00 0.00 1.28
3515 3874 6.549364 TCCGGCCAAACTTTGATCATATATTT 59.451 34.615 2.24 0.00 0.00 1.40
3516 3875 7.721842 TCCGGCCAAACTTTGATCATATATTTA 59.278 33.333 2.24 0.00 0.00 1.40
3517 3876 8.356657 CCGGCCAAACTTTGATCATATATTTAA 58.643 33.333 2.24 0.00 0.00 1.52
3518 3877 9.912634 CGGCCAAACTTTGATCATATATTTAAT 57.087 29.630 2.24 0.00 0.00 1.40
3558 3917 8.083462 TCATGCACGTCATAAAATTATACTCC 57.917 34.615 0.00 0.00 33.19 3.85
3559 3918 6.854496 TGCACGTCATAAAATTATACTCCC 57.146 37.500 0.00 0.00 0.00 4.30
3560 3919 6.588204 TGCACGTCATAAAATTATACTCCCT 58.412 36.000 0.00 0.00 0.00 4.20
3561 3920 6.704493 TGCACGTCATAAAATTATACTCCCTC 59.296 38.462 0.00 0.00 0.00 4.30
3562 3921 6.147328 GCACGTCATAAAATTATACTCCCTCC 59.853 42.308 0.00 0.00 0.00 4.30
3563 3922 6.365247 CACGTCATAAAATTATACTCCCTCCG 59.635 42.308 0.00 0.00 0.00 4.63
3564 3923 6.041296 ACGTCATAAAATTATACTCCCTCCGT 59.959 38.462 0.00 0.00 0.00 4.69
3565 3924 6.927381 CGTCATAAAATTATACTCCCTCCGTT 59.073 38.462 0.00 0.00 0.00 4.44
3566 3925 7.440255 CGTCATAAAATTATACTCCCTCCGTTT 59.560 37.037 0.00 0.00 0.00 3.60
3567 3926 8.771766 GTCATAAAATTATACTCCCTCCGTTTC 58.228 37.037 0.00 0.00 0.00 2.78
3568 3927 8.711170 TCATAAAATTATACTCCCTCCGTTTCT 58.289 33.333 0.00 0.00 0.00 2.52
3569 3928 9.991906 CATAAAATTATACTCCCTCCGTTTCTA 57.008 33.333 0.00 0.00 0.00 2.10
3572 3931 9.916360 AAAATTATACTCCCTCCGTTTCTAAAT 57.084 29.630 0.00 0.00 0.00 1.40
3578 3937 7.672122 ACTCCCTCCGTTTCTAAATATAAGT 57.328 36.000 0.00 0.00 0.00 2.24
3579 3938 7.724287 ACTCCCTCCGTTTCTAAATATAAGTC 58.276 38.462 0.00 0.00 0.00 3.01
3580 3939 7.564292 ACTCCCTCCGTTTCTAAATATAAGTCT 59.436 37.037 0.00 0.00 0.00 3.24
3581 3940 8.315220 TCCCTCCGTTTCTAAATATAAGTCTT 57.685 34.615 0.00 0.00 0.00 3.01
3582 3941 8.202137 TCCCTCCGTTTCTAAATATAAGTCTTG 58.798 37.037 0.00 0.00 0.00 3.02
3583 3942 7.985752 CCCTCCGTTTCTAAATATAAGTCTTGT 59.014 37.037 0.00 0.00 0.00 3.16
3600 3959 6.844696 GTCTTGTAGACATTTCACTGTGAA 57.155 37.500 18.69 18.69 44.45 3.18
3601 3960 6.650372 GTCTTGTAGACATTTCACTGTGAAC 58.350 40.000 21.95 11.14 44.45 3.18
3602 3961 5.758296 TCTTGTAGACATTTCACTGTGAACC 59.242 40.000 21.95 11.73 35.89 3.62
3603 3962 5.029807 TGTAGACATTTCACTGTGAACCA 57.970 39.130 21.95 9.86 35.89 3.67
3604 3963 4.814234 TGTAGACATTTCACTGTGAACCAC 59.186 41.667 21.95 10.72 35.89 4.16
3605 3964 3.884895 AGACATTTCACTGTGAACCACA 58.115 40.909 21.95 8.78 42.45 4.17
3606 3965 4.464008 AGACATTTCACTGTGAACCACAT 58.536 39.130 21.95 10.68 43.71 3.21
3607 3966 5.620206 AGACATTTCACTGTGAACCACATA 58.380 37.500 21.95 7.69 43.71 2.29
3608 3967 5.470098 AGACATTTCACTGTGAACCACATAC 59.530 40.000 21.95 10.53 43.71 2.39
3609 3968 5.129634 ACATTTCACTGTGAACCACATACA 58.870 37.500 21.95 6.26 43.71 2.29
3610 3969 5.239306 ACATTTCACTGTGAACCACATACAG 59.761 40.000 21.95 6.57 43.71 2.74
3611 3970 4.681074 TTCACTGTGAACCACATACAGA 57.319 40.909 18.69 0.00 43.71 3.41
3612 3971 4.890158 TCACTGTGAACCACATACAGAT 57.110 40.909 8.27 0.00 43.71 2.90
3613 3972 5.993748 TCACTGTGAACCACATACAGATA 57.006 39.130 8.27 0.00 43.71 1.98
3614 3973 6.544928 TCACTGTGAACCACATACAGATAT 57.455 37.500 8.27 0.00 43.71 1.63
3615 3974 7.654022 TCACTGTGAACCACATACAGATATA 57.346 36.000 8.27 0.00 43.71 0.86
3616 3975 8.250143 TCACTGTGAACCACATACAGATATAT 57.750 34.615 8.27 0.00 43.71 0.86
3617 3976 9.362151 TCACTGTGAACCACATACAGATATATA 57.638 33.333 8.27 0.00 43.71 0.86
3644 4003 8.430801 AGATGCATTTTAGAGTGTAGATTCAC 57.569 34.615 0.00 0.00 38.46 3.18
3656 4015 7.516198 AGTGTAGATTCACTCATTTTGCTTT 57.484 32.000 0.00 0.00 44.07 3.51
3657 4016 7.365741 AGTGTAGATTCACTCATTTTGCTTTG 58.634 34.615 0.00 0.00 44.07 2.77
3658 4017 7.013655 AGTGTAGATTCACTCATTTTGCTTTGT 59.986 33.333 0.00 0.00 44.07 2.83
3659 4018 8.289618 GTGTAGATTCACTCATTTTGCTTTGTA 58.710 33.333 0.00 0.00 35.68 2.41
3660 4019 9.013229 TGTAGATTCACTCATTTTGCTTTGTAT 57.987 29.630 0.00 0.00 0.00 2.29
3661 4020 9.282247 GTAGATTCACTCATTTTGCTTTGTATG 57.718 33.333 0.00 0.00 0.00 2.39
3662 4021 7.889469 AGATTCACTCATTTTGCTTTGTATGT 58.111 30.769 0.00 0.00 0.00 2.29
3663 4022 9.013229 AGATTCACTCATTTTGCTTTGTATGTA 57.987 29.630 0.00 0.00 0.00 2.29
3664 4023 9.282247 GATTCACTCATTTTGCTTTGTATGTAG 57.718 33.333 0.00 0.00 0.00 2.74
3665 4024 6.611381 TCACTCATTTTGCTTTGTATGTAGC 58.389 36.000 0.00 0.00 37.89 3.58
3666 4025 5.801947 CACTCATTTTGCTTTGTATGTAGCC 59.198 40.000 0.00 0.00 36.56 3.93
3667 4026 5.711976 ACTCATTTTGCTTTGTATGTAGCCT 59.288 36.000 0.00 0.00 36.56 4.58
3668 4027 6.884295 ACTCATTTTGCTTTGTATGTAGCCTA 59.116 34.615 0.00 0.00 36.56 3.93
3669 4028 7.557719 ACTCATTTTGCTTTGTATGTAGCCTAT 59.442 33.333 0.00 0.00 36.56 2.57
3670 4029 8.972458 TCATTTTGCTTTGTATGTAGCCTATA 57.028 30.769 0.00 0.00 36.56 1.31
3671 4030 9.056005 TCATTTTGCTTTGTATGTAGCCTATAG 57.944 33.333 0.00 0.00 36.56 1.31
3672 4031 8.840321 CATTTTGCTTTGTATGTAGCCTATAGT 58.160 33.333 0.00 0.00 36.56 2.12
3673 4032 7.786178 TTTGCTTTGTATGTAGCCTATAGTG 57.214 36.000 0.00 0.00 36.56 2.74
3674 4033 6.724893 TGCTTTGTATGTAGCCTATAGTGA 57.275 37.500 0.00 0.00 36.56 3.41
3675 4034 7.119709 TGCTTTGTATGTAGCCTATAGTGAA 57.880 36.000 0.00 0.00 36.56 3.18
3676 4035 7.561251 TGCTTTGTATGTAGCCTATAGTGAAA 58.439 34.615 0.00 0.00 36.56 2.69
3677 4036 8.210946 TGCTTTGTATGTAGCCTATAGTGAAAT 58.789 33.333 0.00 0.00 36.56 2.17
3678 4037 8.713271 GCTTTGTATGTAGCCTATAGTGAAATC 58.287 37.037 0.00 0.00 0.00 2.17
3679 4038 9.988815 CTTTGTATGTAGCCTATAGTGAAATCT 57.011 33.333 0.00 0.00 0.00 2.40
3680 4039 9.982651 TTTGTATGTAGCCTATAGTGAAATCTC 57.017 33.333 0.00 0.00 0.00 2.75
3681 4040 8.941995 TGTATGTAGCCTATAGTGAAATCTCT 57.058 34.615 0.00 0.00 0.00 3.10
3684 4043 8.941995 ATGTAGCCTATAGTGAAATCTCTACA 57.058 34.615 0.00 0.00 38.40 2.74
3685 4044 8.762481 TGTAGCCTATAGTGAAATCTCTACAA 57.238 34.615 0.00 0.00 33.31 2.41
3686 4045 9.197306 TGTAGCCTATAGTGAAATCTCTACAAA 57.803 33.333 0.00 0.00 33.31 2.83
3687 4046 9.685828 GTAGCCTATAGTGAAATCTCTACAAAG 57.314 37.037 0.00 0.00 0.00 2.77
3688 4047 8.540507 AGCCTATAGTGAAATCTCTACAAAGA 57.459 34.615 0.00 0.00 0.00 2.52
3689 4048 8.417884 AGCCTATAGTGAAATCTCTACAAAGAC 58.582 37.037 0.00 0.00 0.00 3.01
3690 4049 8.417884 GCCTATAGTGAAATCTCTACAAAGACT 58.582 37.037 0.00 0.00 0.00 3.24
3708 4067 9.379791 ACAAAGACTTATATTTAGAAACGGAGG 57.620 33.333 0.00 0.00 0.00 4.30
3709 4068 8.827677 CAAAGACTTATATTTAGAAACGGAGGG 58.172 37.037 0.00 0.00 0.00 4.30
3710 4069 7.909485 AGACTTATATTTAGAAACGGAGGGA 57.091 36.000 0.00 0.00 0.00 4.20
3711 4070 7.953752 AGACTTATATTTAGAAACGGAGGGAG 58.046 38.462 0.00 0.00 0.00 4.30
3712 4071 7.564292 AGACTTATATTTAGAAACGGAGGGAGT 59.436 37.037 0.00 0.00 0.00 3.85
3713 4072 8.773033 ACTTATATTTAGAAACGGAGGGAGTA 57.227 34.615 0.00 0.00 0.00 2.59
3714 4073 9.377238 ACTTATATTTAGAAACGGAGGGAGTAT 57.623 33.333 0.00 0.00 0.00 2.12
3715 4074 9.857957 CTTATATTTAGAAACGGAGGGAGTATC 57.142 37.037 0.00 0.00 0.00 2.24
3716 4075 7.850935 ATATTTAGAAACGGAGGGAGTATCA 57.149 36.000 0.00 0.00 36.25 2.15
3717 4076 6.749036 ATTTAGAAACGGAGGGAGTATCAT 57.251 37.500 0.00 0.00 36.25 2.45
3718 4077 6.555463 TTTAGAAACGGAGGGAGTATCATT 57.445 37.500 0.00 0.00 36.25 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 2.108514 CAGCCATCGTCCACGCATT 61.109 57.895 0.00 0.00 39.60 3.56
70 71 4.758251 CCAGCCATCGTCCACGCA 62.758 66.667 0.00 0.00 39.60 5.24
221 223 1.256895 GCGCGGTTTCTTTTTGGTTTC 59.743 47.619 8.83 0.00 0.00 2.78
256 258 0.889306 CGGAGTTTTCTCTCTCCCGT 59.111 55.000 5.76 0.00 45.12 5.28
443 449 7.944176 TCTCCCCTCTAACATGATATCTATCA 58.056 38.462 0.00 2.54 45.78 2.15
452 458 3.788708 TCTCTCTCTCCCCTCTAACATGA 59.211 47.826 0.00 0.00 0.00 3.07
462 468 1.488393 CCACCAAATCTCTCTCTCCCC 59.512 57.143 0.00 0.00 0.00 4.81
620 629 2.206900 TTGCTCAGTCCCTCCCCA 59.793 61.111 0.00 0.00 0.00 4.96
645 655 1.127567 TGACCAGCTACCACCTGCTT 61.128 55.000 0.00 0.00 37.44 3.91
746 775 2.827322 TCTGACATTGATTTTGGGGCTG 59.173 45.455 0.00 0.00 0.00 4.85
910 1121 1.202580 GCGAAGGCTGTATGGATCTGT 60.203 52.381 0.00 0.00 35.83 3.41
1028 1261 1.371558 GCCAGGACAAGAACGAGGT 59.628 57.895 0.00 0.00 0.00 3.85
1098 1331 2.598099 TGCAGTACGTCCCACCGA 60.598 61.111 0.00 0.00 0.00 4.69
1321 1554 1.831286 AGGTGTCGGTGAAGACGGT 60.831 57.895 0.00 0.00 43.70 4.83
1593 1829 2.586357 GAGGCGTCGGAAGCATCC 60.586 66.667 17.62 0.00 39.22 3.51
1643 1879 2.192263 GATTGTTCTCCTCTGGGTCCT 58.808 52.381 0.00 0.00 0.00 3.85
1650 1886 6.406400 CGAAAGGATACAGATTGTTCTCCTCT 60.406 42.308 11.22 1.60 39.14 3.69
1692 1928 3.110447 GCAAAGATGAAAAGGTTGCCA 57.890 42.857 0.00 0.00 38.88 4.92
1722 1958 1.211969 GTAGTCGAGAAGCACGGCA 59.788 57.895 0.00 0.00 37.85 5.69
2196 2432 4.877619 TCGCGGAGGAGGATCGCT 62.878 66.667 6.13 0.00 46.23 4.93
2259 2495 0.941542 GGTACTGCACGTTGCTGAAA 59.058 50.000 18.42 7.67 45.31 2.69
2377 2613 1.995991 CGTAATTCACGCTCACCGG 59.004 57.895 0.00 0.00 45.03 5.28
2391 2627 1.430632 GGTCATCGAGTCGCCGTAA 59.569 57.895 7.92 0.00 0.00 3.18
2397 2633 1.226802 CTGCAGGGTCATCGAGTCG 60.227 63.158 5.57 6.09 0.00 4.18
2403 2639 0.460987 CCTCGAACTGCAGGGTCATC 60.461 60.000 19.93 7.11 0.00 2.92
2473 2709 4.200283 GAGGCCGAGAGCACCGAG 62.200 72.222 0.00 0.00 46.50 4.63
2784 3043 5.250235 AGTCACGGTATCACTATCACAAG 57.750 43.478 0.00 0.00 0.00 3.16
2786 3045 4.461431 ACAAGTCACGGTATCACTATCACA 59.539 41.667 0.00 0.00 0.00 3.58
2787 3046 4.995124 ACAAGTCACGGTATCACTATCAC 58.005 43.478 0.00 0.00 0.00 3.06
2790 3049 5.790593 ACAAACAAGTCACGGTATCACTAT 58.209 37.500 0.00 0.00 0.00 2.12
2791 3050 5.204409 ACAAACAAGTCACGGTATCACTA 57.796 39.130 0.00 0.00 0.00 2.74
2792 3051 4.067972 ACAAACAAGTCACGGTATCACT 57.932 40.909 0.00 0.00 0.00 3.41
2798 3093 3.078837 AGAACAACAAACAAGTCACGGT 58.921 40.909 0.00 0.00 0.00 4.83
2809 3104 1.004398 CACGCACGCTAGAACAACAAA 60.004 47.619 0.00 0.00 0.00 2.83
2812 3107 1.154654 GCACGCACGCTAGAACAAC 60.155 57.895 0.00 0.00 0.00 3.32
2813 3108 0.878523 AAGCACGCACGCTAGAACAA 60.879 50.000 0.00 0.00 42.89 2.83
2892 3231 1.845809 CGCTGAGCCGAGCACTTTTT 61.846 55.000 0.00 0.00 39.07 1.94
2893 3232 2.320587 CGCTGAGCCGAGCACTTTT 61.321 57.895 0.00 0.00 39.07 2.27
2894 3233 2.740055 CGCTGAGCCGAGCACTTT 60.740 61.111 0.00 0.00 39.07 2.66
2895 3234 4.749310 CCGCTGAGCCGAGCACTT 62.749 66.667 0.00 0.00 39.07 3.16
2899 3238 4.567385 CTCTCCGCTGAGCCGAGC 62.567 72.222 16.32 0.00 38.58 5.03
2900 3239 3.137459 ACTCTCCGCTGAGCCGAG 61.137 66.667 15.23 15.23 38.58 4.63
2901 3240 3.443925 CACTCTCCGCTGAGCCGA 61.444 66.667 0.00 0.00 38.58 5.54
2902 3241 3.408501 CTCACTCTCCGCTGAGCCG 62.409 68.421 0.00 0.00 38.58 5.52
2903 3242 2.493973 CTCACTCTCCGCTGAGCC 59.506 66.667 0.00 0.00 38.58 4.70
2904 3243 2.493973 CCTCACTCTCCGCTGAGC 59.506 66.667 0.00 0.00 38.58 4.26
2905 3244 0.749818 TAGCCTCACTCTCCGCTGAG 60.750 60.000 0.00 0.00 40.17 3.35
2906 3245 0.749818 CTAGCCTCACTCTCCGCTGA 60.750 60.000 0.00 0.00 32.76 4.26
2907 3246 0.749818 TCTAGCCTCACTCTCCGCTG 60.750 60.000 0.00 0.00 32.76 5.18
2908 3247 0.184933 ATCTAGCCTCACTCTCCGCT 59.815 55.000 0.00 0.00 35.34 5.52
2909 3248 1.000717 GAATCTAGCCTCACTCTCCGC 60.001 57.143 0.00 0.00 0.00 5.54
2910 3249 2.034053 GTGAATCTAGCCTCACTCTCCG 59.966 54.545 13.77 0.00 39.11 4.63
2911 3250 2.034053 CGTGAATCTAGCCTCACTCTCC 59.966 54.545 17.03 0.00 39.87 3.71
3010 3359 4.445452 TTTGTCCACCTACGAGATGTAC 57.555 45.455 0.00 0.00 0.00 2.90
3011 3360 5.670792 ATTTTGTCCACCTACGAGATGTA 57.329 39.130 0.00 0.00 0.00 2.29
3012 3361 4.553330 ATTTTGTCCACCTACGAGATGT 57.447 40.909 0.00 0.00 0.00 3.06
3013 3362 4.094887 CCAATTTTGTCCACCTACGAGATG 59.905 45.833 0.00 0.00 0.00 2.90
3014 3363 4.261801 CCAATTTTGTCCACCTACGAGAT 58.738 43.478 0.00 0.00 0.00 2.75
3015 3364 3.071892 ACCAATTTTGTCCACCTACGAGA 59.928 43.478 0.00 0.00 0.00 4.04
3016 3365 3.188460 CACCAATTTTGTCCACCTACGAG 59.812 47.826 0.00 0.00 0.00 4.18
3017 3366 3.142951 CACCAATTTTGTCCACCTACGA 58.857 45.455 0.00 0.00 0.00 3.43
3018 3367 2.351350 GCACCAATTTTGTCCACCTACG 60.351 50.000 0.00 0.00 0.00 3.51
3019 3368 2.890945 AGCACCAATTTTGTCCACCTAC 59.109 45.455 0.00 0.00 0.00 3.18
3020 3369 2.890311 CAGCACCAATTTTGTCCACCTA 59.110 45.455 0.00 0.00 0.00 3.08
3021 3370 1.688197 CAGCACCAATTTTGTCCACCT 59.312 47.619 0.00 0.00 0.00 4.00
3022 3371 1.873486 GCAGCACCAATTTTGTCCACC 60.873 52.381 0.00 0.00 0.00 4.61
3023 3372 1.069049 AGCAGCACCAATTTTGTCCAC 59.931 47.619 0.00 0.00 0.00 4.02
3024 3373 1.068895 CAGCAGCACCAATTTTGTCCA 59.931 47.619 0.00 0.00 0.00 4.02
3025 3374 1.787012 CAGCAGCACCAATTTTGTCC 58.213 50.000 0.00 0.00 0.00 4.02
3026 3375 1.142474 GCAGCAGCACCAATTTTGTC 58.858 50.000 0.00 0.00 41.58 3.18
3027 3376 3.294079 GCAGCAGCACCAATTTTGT 57.706 47.368 0.00 0.00 41.58 2.83
3196 3554 3.310860 ATTCCCGTGACGTCCCAGC 62.311 63.158 14.12 0.00 0.00 4.85
3253 3611 1.016130 CAGTACCAAGCTGACTGCCG 61.016 60.000 0.02 0.00 44.23 5.69
3275 3634 1.026718 GCAGACCGCAGCCATTACTT 61.027 55.000 0.00 0.00 41.79 2.24
3278 3637 2.511373 CGCAGACCGCAGCCATTA 60.511 61.111 0.00 0.00 42.60 1.90
3299 3658 2.305826 GATTTTCCCTTCGGCGTCGC 62.306 60.000 9.22 9.22 36.13 5.19
3302 3661 0.676782 CAGGATTTTCCCTTCGGCGT 60.677 55.000 6.85 0.00 37.19 5.68
3307 3666 0.811281 CACGCCAGGATTTTCCCTTC 59.189 55.000 0.00 0.00 37.19 3.46
3330 3689 1.227089 GCATGACGCCGAGACATCT 60.227 57.895 0.00 0.00 33.16 2.90
3335 3694 3.763356 AGCTGCATGACGCCGAGA 61.763 61.111 1.02 0.00 41.33 4.04
3340 3699 3.807538 CACCCAGCTGCATGACGC 61.808 66.667 8.66 0.00 42.89 5.19
3345 3704 2.360350 CCGTTCACCCAGCTGCAT 60.360 61.111 8.66 0.00 0.00 3.96
3397 3756 3.411351 CCGACCAACAACGGCTCG 61.411 66.667 0.00 0.00 42.55 5.03
3425 3784 9.909043 TTTCGTACGATACATTGTTGATATTTG 57.091 29.630 20.27 0.00 0.00 2.32
3429 3788 8.059502 GCATTTTCGTACGATACATTGTTGATA 58.940 33.333 20.27 0.00 0.00 2.15
3435 3794 5.611596 CGAAGCATTTTCGTACGATACATTG 59.388 40.000 20.27 13.12 37.18 2.82
3448 3807 1.439679 ACCCGAGACGAAGCATTTTC 58.560 50.000 0.00 0.00 0.00 2.29
3463 3822 4.396854 GCTGTTCGTAGCTACCCG 57.603 61.111 18.16 7.85 40.52 5.28
3469 3828 2.180397 GGTACGTAAGCTGTTCGTAGC 58.820 52.381 21.97 21.97 45.75 3.58
3470 3829 3.486542 GGAGGTACGTAAGCTGTTCGTAG 60.487 52.174 15.17 0.00 39.96 3.51
3471 3830 2.420022 GGAGGTACGTAAGCTGTTCGTA 59.580 50.000 12.13 12.13 45.62 3.43
3472 3831 1.200948 GGAGGTACGTAAGCTGTTCGT 59.799 52.381 13.75 13.75 45.62 3.85
3473 3832 1.792993 CGGAGGTACGTAAGCTGTTCG 60.793 57.143 0.00 0.00 45.62 3.95
3474 3833 1.905449 CGGAGGTACGTAAGCTGTTC 58.095 55.000 0.00 0.00 45.62 3.18
3489 3848 1.533625 TGATCAAAGTTTGGCCGGAG 58.466 50.000 15.47 0.00 0.00 4.63
3490 3849 2.214376 ATGATCAAAGTTTGGCCGGA 57.786 45.000 15.47 0.00 0.00 5.14
3491 3850 5.964958 ATATATGATCAAAGTTTGGCCGG 57.035 39.130 15.47 0.00 0.00 6.13
3492 3851 9.912634 ATTAAATATATGATCAAAGTTTGGCCG 57.087 29.630 15.47 0.00 0.00 6.13
3532 3891 8.556194 GGAGTATAATTTTATGACGTGCATGAA 58.444 33.333 14.17 0.21 37.87 2.57
3533 3892 7.172532 GGGAGTATAATTTTATGACGTGCATGA 59.827 37.037 14.17 0.00 37.87 3.07
3534 3893 7.173218 AGGGAGTATAATTTTATGACGTGCATG 59.827 37.037 3.82 3.82 37.87 4.06
3535 3894 7.224297 AGGGAGTATAATTTTATGACGTGCAT 58.776 34.615 0.00 0.00 41.08 3.96
3536 3895 6.588204 AGGGAGTATAATTTTATGACGTGCA 58.412 36.000 0.00 0.00 0.00 4.57
3537 3896 6.147328 GGAGGGAGTATAATTTTATGACGTGC 59.853 42.308 0.00 0.00 0.00 5.34
3538 3897 6.365247 CGGAGGGAGTATAATTTTATGACGTG 59.635 42.308 0.00 0.00 0.00 4.49
3539 3898 6.041296 ACGGAGGGAGTATAATTTTATGACGT 59.959 38.462 0.00 0.00 0.00 4.34
3540 3899 6.453092 ACGGAGGGAGTATAATTTTATGACG 58.547 40.000 0.00 0.00 0.00 4.35
3541 3900 8.672823 AAACGGAGGGAGTATAATTTTATGAC 57.327 34.615 0.00 0.00 0.00 3.06
3542 3901 8.711170 AGAAACGGAGGGAGTATAATTTTATGA 58.289 33.333 0.00 0.00 0.00 2.15
3543 3902 8.904099 AGAAACGGAGGGAGTATAATTTTATG 57.096 34.615 0.00 0.00 0.00 1.90
3546 3905 9.916360 ATTTAGAAACGGAGGGAGTATAATTTT 57.084 29.630 0.00 0.00 0.00 1.82
3552 3911 9.377238 ACTTATATTTAGAAACGGAGGGAGTAT 57.623 33.333 0.00 0.00 0.00 2.12
3553 3912 8.773033 ACTTATATTTAGAAACGGAGGGAGTA 57.227 34.615 0.00 0.00 0.00 2.59
3554 3913 7.564292 AGACTTATATTTAGAAACGGAGGGAGT 59.436 37.037 0.00 0.00 0.00 3.85
3555 3914 7.953752 AGACTTATATTTAGAAACGGAGGGAG 58.046 38.462 0.00 0.00 0.00 4.30
3556 3915 7.909485 AGACTTATATTTAGAAACGGAGGGA 57.091 36.000 0.00 0.00 0.00 4.20
3557 3916 7.985752 ACAAGACTTATATTTAGAAACGGAGGG 59.014 37.037 0.00 0.00 0.00 4.30
3558 3917 8.943909 ACAAGACTTATATTTAGAAACGGAGG 57.056 34.615 0.00 0.00 0.00 4.30
3572 3931 9.639601 CACAGTGAAATGTCTACAAGACTTATA 57.360 33.333 8.42 0.00 45.27 0.98
3573 3932 8.367911 TCACAGTGAAATGTCTACAAGACTTAT 58.632 33.333 0.00 0.00 45.27 1.73
3574 3933 7.722363 TCACAGTGAAATGTCTACAAGACTTA 58.278 34.615 0.00 0.00 45.27 2.24
3575 3934 6.582636 TCACAGTGAAATGTCTACAAGACTT 58.417 36.000 0.00 0.00 45.27 3.01
3576 3935 6.161855 TCACAGTGAAATGTCTACAAGACT 57.838 37.500 0.00 0.00 45.27 3.24
3577 3936 6.292919 GGTTCACAGTGAAATGTCTACAAGAC 60.293 42.308 17.83 1.30 40.72 3.01
3578 3937 5.758296 GGTTCACAGTGAAATGTCTACAAGA 59.242 40.000 17.83 0.00 38.22 3.02
3579 3938 5.527214 TGGTTCACAGTGAAATGTCTACAAG 59.473 40.000 17.83 0.00 38.22 3.16
3580 3939 5.295787 GTGGTTCACAGTGAAATGTCTACAA 59.704 40.000 17.83 0.00 38.22 2.41
3581 3940 4.814234 GTGGTTCACAGTGAAATGTCTACA 59.186 41.667 17.83 5.98 38.22 2.74
3582 3941 4.814234 TGTGGTTCACAGTGAAATGTCTAC 59.186 41.667 17.83 13.06 39.62 2.59
3583 3942 5.029807 TGTGGTTCACAGTGAAATGTCTA 57.970 39.130 17.83 0.68 39.62 2.59
3584 3943 3.884895 TGTGGTTCACAGTGAAATGTCT 58.115 40.909 17.83 0.00 39.62 3.41
3618 3977 9.534565 GTGAATCTACACTCTAAAATGCATCTA 57.465 33.333 0.00 0.00 37.73 1.98
3619 3978 8.263640 AGTGAATCTACACTCTAAAATGCATCT 58.736 33.333 0.00 0.00 46.36 2.90
3620 3979 8.430801 AGTGAATCTACACTCTAAAATGCATC 57.569 34.615 0.00 0.00 46.36 3.91
3633 3992 7.141363 ACAAAGCAAAATGAGTGAATCTACAC 58.859 34.615 0.00 0.00 40.60 2.90
3634 3993 7.275888 ACAAAGCAAAATGAGTGAATCTACA 57.724 32.000 0.00 0.00 0.00 2.74
3635 3994 9.282247 CATACAAAGCAAAATGAGTGAATCTAC 57.718 33.333 0.00 0.00 0.00 2.59
3636 3995 9.013229 ACATACAAAGCAAAATGAGTGAATCTA 57.987 29.630 0.00 0.00 0.00 1.98
3637 3996 7.889469 ACATACAAAGCAAAATGAGTGAATCT 58.111 30.769 0.00 0.00 0.00 2.40
3638 3997 9.282247 CTACATACAAAGCAAAATGAGTGAATC 57.718 33.333 0.00 0.00 0.00 2.52
3639 3998 7.756722 GCTACATACAAAGCAAAATGAGTGAAT 59.243 33.333 0.00 0.00 38.63 2.57
3640 3999 7.083858 GCTACATACAAAGCAAAATGAGTGAA 58.916 34.615 0.00 0.00 38.63 3.18
3641 4000 6.349280 GGCTACATACAAAGCAAAATGAGTGA 60.349 38.462 0.00 0.00 40.61 3.41
3642 4001 5.801947 GGCTACATACAAAGCAAAATGAGTG 59.198 40.000 0.00 0.00 40.61 3.51
3643 4002 5.711976 AGGCTACATACAAAGCAAAATGAGT 59.288 36.000 0.00 0.00 40.61 3.41
3644 4003 6.199937 AGGCTACATACAAAGCAAAATGAG 57.800 37.500 0.00 0.00 40.61 2.90
3645 4004 7.880160 ATAGGCTACATACAAAGCAAAATGA 57.120 32.000 0.00 0.00 40.61 2.57
3646 4005 8.840321 ACTATAGGCTACATACAAAGCAAAATG 58.160 33.333 4.43 0.00 40.61 2.32
3647 4006 8.840321 CACTATAGGCTACATACAAAGCAAAAT 58.160 33.333 4.43 0.00 40.61 1.82
3648 4007 8.044309 TCACTATAGGCTACATACAAAGCAAAA 58.956 33.333 4.43 0.00 40.61 2.44
3649 4008 7.561251 TCACTATAGGCTACATACAAAGCAAA 58.439 34.615 4.43 0.00 40.61 3.68
3650 4009 7.119709 TCACTATAGGCTACATACAAAGCAA 57.880 36.000 4.43 0.00 40.61 3.91
3651 4010 6.724893 TCACTATAGGCTACATACAAAGCA 57.275 37.500 4.43 0.00 40.61 3.91
3652 4011 8.608844 ATTTCACTATAGGCTACATACAAAGC 57.391 34.615 4.43 0.00 38.03 3.51
3653 4012 9.988815 AGATTTCACTATAGGCTACATACAAAG 57.011 33.333 4.43 0.00 0.00 2.77
3654 4013 9.982651 GAGATTTCACTATAGGCTACATACAAA 57.017 33.333 4.43 0.00 0.00 2.83
3655 4014 9.368416 AGAGATTTCACTATAGGCTACATACAA 57.632 33.333 4.43 0.00 0.00 2.41
3656 4015 8.941995 AGAGATTTCACTATAGGCTACATACA 57.058 34.615 4.43 0.00 0.00 2.29
3659 4018 8.941995 TGTAGAGATTTCACTATAGGCTACAT 57.058 34.615 4.43 0.00 33.07 2.29
3660 4019 8.762481 TTGTAGAGATTTCACTATAGGCTACA 57.238 34.615 4.43 0.00 35.33 2.74
3661 4020 9.685828 CTTTGTAGAGATTTCACTATAGGCTAC 57.314 37.037 4.43 0.00 0.00 3.58
3662 4021 9.642343 TCTTTGTAGAGATTTCACTATAGGCTA 57.358 33.333 4.43 0.00 0.00 3.93
3663 4022 8.417884 GTCTTTGTAGAGATTTCACTATAGGCT 58.582 37.037 4.43 0.00 0.00 4.58
3664 4023 8.417884 AGTCTTTGTAGAGATTTCACTATAGGC 58.582 37.037 4.43 0.00 0.00 3.93
3682 4041 9.379791 CCTCCGTTTCTAAATATAAGTCTTTGT 57.620 33.333 0.00 0.00 0.00 2.83
3683 4042 8.827677 CCCTCCGTTTCTAAATATAAGTCTTTG 58.172 37.037 0.00 0.00 0.00 2.77
3684 4043 8.765517 TCCCTCCGTTTCTAAATATAAGTCTTT 58.234 33.333 0.00 0.00 0.00 2.52
3685 4044 8.315220 TCCCTCCGTTTCTAAATATAAGTCTT 57.685 34.615 0.00 0.00 0.00 3.01
3686 4045 7.564292 ACTCCCTCCGTTTCTAAATATAAGTCT 59.436 37.037 0.00 0.00 0.00 3.24
3687 4046 7.724287 ACTCCCTCCGTTTCTAAATATAAGTC 58.276 38.462 0.00 0.00 0.00 3.01
3688 4047 7.672122 ACTCCCTCCGTTTCTAAATATAAGT 57.328 36.000 0.00 0.00 0.00 2.24
3689 4048 9.857957 GATACTCCCTCCGTTTCTAAATATAAG 57.142 37.037 0.00 0.00 0.00 1.73
3690 4049 9.370930 TGATACTCCCTCCGTTTCTAAATATAA 57.629 33.333 0.00 0.00 0.00 0.98
3691 4050 8.945195 TGATACTCCCTCCGTTTCTAAATATA 57.055 34.615 0.00 0.00 0.00 0.86
3692 4051 7.850935 TGATACTCCCTCCGTTTCTAAATAT 57.149 36.000 0.00 0.00 0.00 1.28
3693 4052 7.850935 ATGATACTCCCTCCGTTTCTAAATA 57.149 36.000 0.00 0.00 0.00 1.40
3694 4053 6.749036 ATGATACTCCCTCCGTTTCTAAAT 57.251 37.500 0.00 0.00 0.00 1.40
3695 4054 6.555463 AATGATACTCCCTCCGTTTCTAAA 57.445 37.500 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.