Multiple sequence alignment - TraesCS2B01G061100

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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 TraesCS2B01G061100 chr2B 100.000 5282 0 0 1 5282 29183766 29189047 0.000000e+00 9755
1 TraesCS2B01G061100 chr2B 81.130 3222 458 81 11 3168 29250504 29253639 0.000000e+00 2444
2 TraesCS2B01G061100 chr2B 85.892 2013 234 25 2356 4347 29535065 29537048 0.000000e+00 2098
3 TraesCS2B01G061100 chr2B 92.624 1410 94 5 3626 5034 29253637 29255037 0.000000e+00 2019
4 TraesCS2B01G061100 chr2B 80.859 1886 297 29 449 2303 29533216 29535068 0.000000e+00 1424
5 TraesCS2B01G061100 chr2B 79.469 414 53 20 11 403 29532800 29533202 1.130000e-66 265
6 TraesCS2B01G061100 chr2B 80.658 243 33 9 5034 5273 29255071 29255302 5.440000e-40 176
7 TraesCS2B01G061100 chr2D 92.399 2697 177 16 567 3252 17793363 17790684 0.000000e+00 3819
8 TraesCS2B01G061100 chr2D 92.751 1007 59 7 4039 5034 17790691 17789688 0.000000e+00 1443
9 TraesCS2B01G061100 chr2D 84.084 999 131 13 1667 2639 17761724 17760728 0.000000e+00 939
10 TraesCS2B01G061100 chr2D 78.279 732 145 5 941 1671 17768085 17767367 4.820000e-125 459
11 TraesCS2B01G061100 chr2D 83.820 445 52 13 448 887 17768516 17768087 6.370000e-109 405
12 TraesCS2B01G061100 chr2D 88.274 307 14 4 116 402 17793675 17793371 1.090000e-91 348
13 TraesCS2B01G061100 chr2D 84.490 245 35 3 5037 5279 17789651 17789408 6.840000e-59 239
14 TraesCS2B01G061100 chr2D 96.639 119 4 0 1 119 17793953 17793835 1.160000e-46 198
15 TraesCS2B01G061100 chr2A 90.823 2539 195 21 725 3252 19073293 19070782 0.000000e+00 3363
16 TraesCS2B01G061100 chr2A 82.929 2677 410 20 1097 3742 19050139 19047479 0.000000e+00 2368
17 TraesCS2B01G061100 chr2A 85.561 1302 167 9 3745 5034 19045686 19044394 0.000000e+00 1343
18 TraesCS2B01G061100 chr2A 90.220 1002 69 12 4039 5034 19070789 19069811 0.000000e+00 1280
19 TraesCS2B01G061100 chr2A 82.083 240 32 8 5034 5273 19044360 19044132 1.500000e-45 195
20 TraesCS2B01G061100 chrUn 93.072 433 27 2 3048 3477 285731962 285731530 9.650000e-177 630
21 TraesCS2B01G061100 chrUn 93.072 433 27 2 3048 3477 304809953 304810385 9.650000e-177 630
22 TraesCS2B01G061100 chr4B 88.088 319 37 1 2736 3053 3792900 3793218 1.390000e-100 377


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 TraesCS2B01G061100 chr2B 29183766 29189047 5281 False 9755.000000 9755 100.000000 1 5282 1 chr2B.!!$F1 5281
1 TraesCS2B01G061100 chr2B 29250504 29255302 4798 False 1546.333333 2444 84.804000 11 5273 3 chr2B.!!$F2 5262
2 TraesCS2B01G061100 chr2B 29532800 29537048 4248 False 1262.333333 2098 82.073333 11 4347 3 chr2B.!!$F3 4336
3 TraesCS2B01G061100 chr2D 17789408 17793953 4545 True 1209.400000 3819 90.910600 1 5279 5 chr2D.!!$R3 5278
4 TraesCS2B01G061100 chr2D 17760728 17761724 996 True 939.000000 939 84.084000 1667 2639 1 chr2D.!!$R1 972
5 TraesCS2B01G061100 chr2D 17767367 17768516 1149 True 432.000000 459 81.049500 448 1671 2 chr2D.!!$R2 1223
6 TraesCS2B01G061100 chr2A 19069811 19073293 3482 True 2321.500000 3363 90.521500 725 5034 2 chr2A.!!$R2 4309
7 TraesCS2B01G061100 chr2A 19044132 19050139 6007 True 1302.000000 2368 83.524333 1097 5273 3 chr2A.!!$R1 4176

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
556 775 0.178912 AAGTAGGGACTGAACCGGGT 60.179 55.000 6.32 0.0 41.52 5.28 F
1354 1585 0.173481 TGGCTCGTCTTCTTCATCCG 59.827 55.000 0.00 0.0 0.00 4.18 F
1365 1596 1.209261 TCTTCATCCGCAAGCACCATA 59.791 47.619 0.00 0.0 0.00 2.74 F
2535 2790 1.840635 GAGAAGGTACCCAGCCAAGAT 59.159 52.381 8.74 0.0 0.00 2.40 F
2765 3047 0.250901 GCAGAAGAAGGTGCTTCCCA 60.251 55.000 0.00 0.0 44.14 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1365 1596 0.766674 TGGTGGTAGAGGCAGTGGTT 60.767 55.000 0.0 0.0 0.00 3.67 R
2616 2871 0.981183 TTGGAACGCATACCTGGAGT 59.019 50.000 0.0 0.0 0.00 3.85 R
2617 2872 1.207089 TCTTGGAACGCATACCTGGAG 59.793 52.381 0.0 0.0 0.00 3.86 R
3582 3874 0.743097 GTGATGGAAATGCCTCTGCC 59.257 55.000 0.0 0.0 37.63 4.85 R
4686 6798 1.072159 GCTGGCACTCAACTGGTCT 59.928 57.895 0.0 0.0 0.00 3.85 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
220 410 7.742089 CGCAATTTTCTGAAATATCCGTATCTC 59.258 37.037 3.31 0.00 34.44 2.75
330 521 6.817140 GTGGTATACAAGTTTAAGTCCTCCAG 59.183 42.308 5.01 0.00 0.00 3.86
360 551 4.935352 AATTTAACACATGTGCACAGGT 57.065 36.364 30.00 30.00 42.05 4.00
388 579 3.129287 GCTGCATAAGTTAACACATGGCT 59.871 43.478 8.61 0.00 0.00 4.75
402 593 0.994247 ATGGCTGAGTCACATGGGAA 59.006 50.000 0.00 0.00 0.00 3.97
403 594 0.325933 TGGCTGAGTCACATGGGAAG 59.674 55.000 0.00 0.00 0.00 3.46
404 595 0.326264 GGCTGAGTCACATGGGAAGT 59.674 55.000 0.00 0.00 0.00 3.01
427 618 4.728772 TGGGAACAAGAACAATGATCACT 58.271 39.130 0.00 0.00 37.44 3.41
428 619 5.139727 TGGGAACAAGAACAATGATCACTT 58.860 37.500 0.00 0.00 37.44 3.16
429 620 5.598005 TGGGAACAAGAACAATGATCACTTT 59.402 36.000 0.00 0.00 37.44 2.66
430 621 5.922544 GGGAACAAGAACAATGATCACTTTG 59.077 40.000 0.00 2.06 37.25 2.77
431 622 5.922544 GGAACAAGAACAATGATCACTTTGG 59.077 40.000 12.48 0.00 36.09 3.28
432 623 6.239008 GGAACAAGAACAATGATCACTTTGGA 60.239 38.462 12.48 0.00 36.09 3.53
433 624 6.713762 ACAAGAACAATGATCACTTTGGAA 57.286 33.333 12.48 0.00 36.09 3.53
434 625 7.294017 ACAAGAACAATGATCACTTTGGAAT 57.706 32.000 12.48 0.54 36.09 3.01
435 626 7.729116 ACAAGAACAATGATCACTTTGGAATT 58.271 30.769 12.48 0.04 36.09 2.17
436 627 7.654520 ACAAGAACAATGATCACTTTGGAATTG 59.345 33.333 12.48 13.61 36.09 2.32
437 628 7.528996 AGAACAATGATCACTTTGGAATTGA 57.471 32.000 12.48 0.00 36.09 2.57
438 629 7.954835 AGAACAATGATCACTTTGGAATTGAA 58.045 30.769 12.48 0.00 36.09 2.69
439 630 8.423349 AGAACAATGATCACTTTGGAATTGAAA 58.577 29.630 12.48 0.00 36.09 2.69
440 631 8.961294 AACAATGATCACTTTGGAATTGAAAA 57.039 26.923 12.48 0.00 36.09 2.29
441 632 8.369218 ACAATGATCACTTTGGAATTGAAAAC 57.631 30.769 12.48 0.00 36.09 2.43
442 633 7.986320 ACAATGATCACTTTGGAATTGAAAACA 59.014 29.630 12.48 0.00 36.09 2.83
443 634 8.492748 CAATGATCACTTTGGAATTGAAAACAG 58.507 33.333 0.00 0.00 0.00 3.16
444 635 7.345422 TGATCACTTTGGAATTGAAAACAGA 57.655 32.000 0.00 0.00 0.00 3.41
445 636 7.428020 TGATCACTTTGGAATTGAAAACAGAG 58.572 34.615 0.00 0.00 0.00 3.35
446 637 7.285172 TGATCACTTTGGAATTGAAAACAGAGA 59.715 33.333 0.00 0.00 0.00 3.10
460 651 7.475015 TGAAAACAGAGATACTAATGCATTGC 58.525 34.615 22.27 0.46 0.00 3.56
487 706 7.978099 AAAAATTTACAATCCAGAGGGCTAT 57.022 32.000 0.00 0.00 0.00 2.97
490 709 8.697507 AAATTTACAATCCAGAGGGCTATAAG 57.302 34.615 0.00 0.00 0.00 1.73
499 718 6.506661 TCCAGAGGGCTATAAGTCATGATAT 58.493 40.000 0.00 0.00 0.00 1.63
553 772 6.218108 ACTAATTAAGTAGGGACTGAACCG 57.782 41.667 14.02 0.00 41.52 4.44
556 775 0.178912 AAGTAGGGACTGAACCGGGT 60.179 55.000 6.32 0.00 41.52 5.28
561 780 0.248565 GGGACTGAACCGGGTAGAAC 59.751 60.000 6.32 1.47 0.00 3.01
562 781 1.264295 GGACTGAACCGGGTAGAACT 58.736 55.000 6.32 0.00 0.00 3.01
563 782 2.450476 GGACTGAACCGGGTAGAACTA 58.550 52.381 6.32 0.00 0.00 2.24
565 784 3.450096 GGACTGAACCGGGTAGAACTATT 59.550 47.826 6.32 0.00 0.00 1.73
566 785 4.646492 GGACTGAACCGGGTAGAACTATTA 59.354 45.833 6.32 0.00 0.00 0.98
567 786 5.221204 GGACTGAACCGGGTAGAACTATTAG 60.221 48.000 6.32 0.00 0.00 1.73
568 787 4.099113 ACTGAACCGGGTAGAACTATTAGC 59.901 45.833 6.32 0.00 0.00 3.09
615 837 2.608752 GCAACAAGGTGCTGAAATGAGG 60.609 50.000 2.20 0.00 41.51 3.86
616 838 2.624838 CAACAAGGTGCTGAAATGAGGT 59.375 45.455 0.00 0.00 0.00 3.85
634 856 4.750098 TGAGGTTCACGATTCTTTCTGAAC 59.250 41.667 0.00 0.00 39.35 3.18
635 857 4.962155 AGGTTCACGATTCTTTCTGAACT 58.038 39.130 10.03 0.00 39.65 3.01
694 916 6.870971 GTCCAACAAGTAAAAGGACATACA 57.129 37.500 0.00 0.00 46.15 2.29
695 917 6.665465 GTCCAACAAGTAAAAGGACATACAC 58.335 40.000 0.00 0.00 46.15 2.90
699 924 7.352739 CAACAAGTAAAAGGACATACACTGAC 58.647 38.462 0.00 0.00 0.00 3.51
763 990 3.942748 GGTACACACACTGACAAAGGAAA 59.057 43.478 0.00 0.00 0.00 3.13
764 991 4.396790 GGTACACACACTGACAAAGGAAAA 59.603 41.667 0.00 0.00 0.00 2.29
766 993 6.261381 GGTACACACACTGACAAAGGAAAATA 59.739 38.462 0.00 0.00 0.00 1.40
771 998 5.916883 CACACTGACAAAGGAAAATAGCAAG 59.083 40.000 0.00 0.00 0.00 4.01
786 1013 9.301153 GAAAATAGCAAGAACAAAGTTGAAAGA 57.699 29.630 0.00 0.00 0.00 2.52
901 1132 5.128991 TCATGATTCTCTCTTGACTGCATCT 59.871 40.000 0.00 0.00 34.17 2.90
1080 1311 1.153086 GGTGTGCTCCTATGCTGGG 60.153 63.158 0.00 0.00 0.00 4.45
1122 1353 5.701290 ACGGAAAGATACAAAGGAGAAACTG 59.299 40.000 0.00 0.00 0.00 3.16
1173 1404 2.287915 CCAAACAGCGATACACATAGCC 59.712 50.000 0.00 0.00 33.60 3.93
1354 1585 0.173481 TGGCTCGTCTTCTTCATCCG 59.827 55.000 0.00 0.00 0.00 4.18
1365 1596 1.209261 TCTTCATCCGCAAGCACCATA 59.791 47.619 0.00 0.00 0.00 2.74
1527 1758 5.507637 AGTGAGATGCAAAGATTTCTGGAT 58.492 37.500 0.00 0.00 0.00 3.41
1817 2048 8.464404 CCATGTCTCAGATAAATTTGATGTTGT 58.536 33.333 0.00 0.00 0.00 3.32
2025 2280 6.954297 GCAAAGTAATAGTTACAACTCGAAGC 59.046 38.462 0.00 0.00 40.37 3.86
2227 2482 2.030805 GCAATGACAGTTGGGAGTTCAC 60.031 50.000 0.00 0.00 0.00 3.18
2274 2529 5.485353 ACATTGGAGTTCTATCTGTGGAAGA 59.515 40.000 0.00 0.00 39.94 2.87
2419 2674 3.181467 CCACCTTCAAGGAGATGAGCTAG 60.181 52.174 11.59 0.00 37.67 3.42
2457 2712 4.702131 GCTCATGGTTTCCTTAACACAGAT 59.298 41.667 0.00 0.00 38.55 2.90
2458 2713 5.392380 GCTCATGGTTTCCTTAACACAGATG 60.392 44.000 0.00 0.00 38.55 2.90
2528 2783 5.102953 TCATTCATTGAGAAGGTACCCAG 57.897 43.478 8.74 0.00 40.15 4.45
2535 2790 1.840635 GAGAAGGTACCCAGCCAAGAT 59.159 52.381 8.74 0.00 0.00 2.40
2614 2869 8.595362 TGGAGAACACTTCAGAATAGAAGATA 57.405 34.615 10.37 0.00 46.18 1.98
2616 2871 9.877178 GGAGAACACTTCAGAATAGAAGATAAA 57.123 33.333 10.37 0.00 46.18 1.40
2622 2892 9.311916 CACTTCAGAATAGAAGATAAACTCCAG 57.688 37.037 10.37 0.00 46.18 3.86
2628 2898 8.371699 AGAATAGAAGATAAACTCCAGGTATGC 58.628 37.037 0.00 0.00 0.00 3.14
2629 2899 4.950050 AGAAGATAAACTCCAGGTATGCG 58.050 43.478 0.00 0.00 0.00 4.73
2669 2939 3.558829 CACCTATATGTCAGTGCAAGCAG 59.441 47.826 0.00 0.00 0.00 4.24
2675 2945 7.490725 CCTATATGTCAGTGCAAGCAGTATATC 59.509 40.741 1.50 0.00 0.00 1.63
2676 2946 4.743057 TGTCAGTGCAAGCAGTATATCT 57.257 40.909 1.50 0.00 0.00 1.98
2677 2947 4.436332 TGTCAGTGCAAGCAGTATATCTG 58.564 43.478 1.50 2.21 46.12 2.90
2678 2948 4.160252 TGTCAGTGCAAGCAGTATATCTGA 59.840 41.667 1.50 4.56 46.27 3.27
2679 2949 4.744137 GTCAGTGCAAGCAGTATATCTGAG 59.256 45.833 10.00 0.00 46.27 3.35
2680 2950 4.056740 CAGTGCAAGCAGTATATCTGAGG 58.943 47.826 1.50 0.00 46.27 3.86
2686 2962 5.221342 GCAAGCAGTATATCTGAGGTGTACT 60.221 44.000 0.00 0.00 46.27 2.73
2687 2963 6.212235 CAAGCAGTATATCTGAGGTGTACTG 58.788 44.000 21.04 21.04 46.27 2.74
2690 2966 5.478679 GCAGTATATCTGAGGTGTACTGGAT 59.521 44.000 24.73 0.00 46.27 3.41
2695 2971 3.674997 TCTGAGGTGTACTGGATTTTGC 58.325 45.455 0.00 0.00 0.00 3.68
2705 2981 6.363357 GTGTACTGGATTTTGCAAGAATTCAC 59.637 38.462 8.44 0.00 0.00 3.18
2764 3046 0.962855 GGCAGAAGAAGGTGCTTCCC 60.963 60.000 0.00 0.00 44.14 3.97
2765 3047 0.250901 GCAGAAGAAGGTGCTTCCCA 60.251 55.000 0.00 0.00 44.14 4.37
2766 3048 1.818642 CAGAAGAAGGTGCTTCCCAG 58.181 55.000 0.00 0.00 44.14 4.45
2776 3058 4.336280 AGGTGCTTCCCAGAAAAGAATAC 58.664 43.478 0.00 0.00 36.75 1.89
2778 3063 3.444034 GTGCTTCCCAGAAAAGAATACCC 59.556 47.826 0.00 0.00 0.00 3.69
2782 3067 5.760131 CTTCCCAGAAAAGAATACCCTCAT 58.240 41.667 0.00 0.00 0.00 2.90
2783 3068 5.373812 TCCCAGAAAAGAATACCCTCATC 57.626 43.478 0.00 0.00 0.00 2.92
2784 3069 4.788075 TCCCAGAAAAGAATACCCTCATCA 59.212 41.667 0.00 0.00 0.00 3.07
2786 3071 5.358160 CCCAGAAAAGAATACCCTCATCAAC 59.642 44.000 0.00 0.00 0.00 3.18
2794 3079 6.735556 AGAATACCCTCATCAACCTTCAATT 58.264 36.000 0.00 0.00 0.00 2.32
2798 3083 5.203528 ACCCTCATCAACCTTCAATTATGG 58.796 41.667 0.00 0.00 0.00 2.74
2877 3162 4.080356 CCTGATGGTATTCTCCCAGACAAA 60.080 45.833 0.00 0.00 34.92 2.83
2890 3175 6.720748 TCTCCCAGACAAAATTGATCATTTGA 59.279 34.615 22.57 0.00 38.50 2.69
2918 3203 7.993183 ACACCTTAGGTATCTAAACATTCATGG 59.007 37.037 2.52 0.00 35.30 3.66
3007 3295 3.620374 CCAAACTCATCAAGACAGGATCG 59.380 47.826 0.00 0.00 0.00 3.69
3010 3298 2.167281 ACTCATCAAGACAGGATCGTGG 59.833 50.000 18.95 2.10 37.41 4.94
3058 3346 2.772515 AGGCTGACCCAGTTAAGATACC 59.227 50.000 0.00 0.00 36.11 2.73
3104 3392 2.960384 CAGGCATAGAATGGATTGGCAA 59.040 45.455 0.68 0.68 37.14 4.52
3118 3406 0.839946 TGGCAAGCTAAGATCCCTCC 59.160 55.000 0.00 0.00 0.00 4.30
3158 3447 5.050091 ACAAAGTGAAGAGTAACATGAAGCG 60.050 40.000 0.00 0.00 0.00 4.68
3200 3489 3.665190 AGTTGAATGAACTTCGAGGGAC 58.335 45.455 0.00 0.00 42.70 4.46
3237 3526 6.374565 AATCTTCAGAATGTAAGATGCAGC 57.625 37.500 0.00 0.00 39.95 5.25
3265 3554 7.039882 AGAAGCAAATGAGGCAAGATTATTTG 58.960 34.615 0.00 0.00 40.11 2.32
3289 3578 7.099764 TGATAAGAAGAACCTGAACAAGCTAG 58.900 38.462 0.00 0.00 0.00 3.42
3296 3585 2.028567 ACCTGAACAAGCTAGCACTCTC 60.029 50.000 18.83 8.59 0.00 3.20
3377 3669 1.615392 ACCAAATGCCAACTTGAGAGC 59.385 47.619 0.00 0.00 0.00 4.09
3428 3720 3.730269 AGTCTCCTTCTTGGCTATCCTT 58.270 45.455 0.00 0.00 35.26 3.36
3436 3728 5.237344 CCTTCTTGGCTATCCTTTGAATACG 59.763 44.000 0.00 0.00 0.00 3.06
3437 3729 4.127171 TCTTGGCTATCCTTTGAATACGC 58.873 43.478 0.00 0.00 0.00 4.42
3467 3759 5.105877 ACATTCACTCCATTGAATTGCTCTG 60.106 40.000 0.00 0.00 42.45 3.35
3495 3787 0.401395 ACTGGAAGACCCTTCCACCA 60.401 55.000 20.88 5.19 43.17 4.17
3517 3809 3.571748 GGGAGTTTACCCTTCCTGC 57.428 57.895 0.00 0.00 45.90 4.85
3518 3810 0.696501 GGGAGTTTACCCTTCCTGCA 59.303 55.000 0.00 0.00 45.90 4.41
3521 3813 2.039879 GGAGTTTACCCTTCCTGCAGAA 59.960 50.000 17.39 6.85 0.00 3.02
3527 3819 6.434340 AGTTTACCCTTCCTGCAGAAATTAAG 59.566 38.462 17.39 10.03 32.88 1.85
3536 3828 5.239306 TCCTGCAGAAATTAAGGATAATGCG 59.761 40.000 17.39 0.00 33.85 4.73
3542 3834 7.044052 GCAGAAATTAAGGATAATGCGTTTGAC 60.044 37.037 0.00 0.00 32.06 3.18
3555 3847 3.923461 TGCGTTTGACAAAACTGGAAAAG 59.077 39.130 1.27 0.00 42.99 2.27
3573 3865 8.511604 TGGAAAAGATTGATTCTGGATTCTAC 57.488 34.615 0.00 0.00 33.93 2.59
3582 3874 0.583438 CTGGATTCTACGGCAATGCG 59.417 55.000 0.00 0.00 0.00 4.73
3700 3992 1.209128 CCTGCGTGACATCCGTATTC 58.791 55.000 0.00 0.00 0.00 1.75
3712 4004 7.064134 GTGACATCCGTATTCAGAAATGTAACA 59.936 37.037 7.25 0.00 31.54 2.41
3778 5860 9.903682 AAATCAAAATTTCAGTATGTGACTCAG 57.096 29.630 0.00 0.00 35.64 3.35
3800 5882 3.449018 GCCTCTGAGAAGGTAATCAGTCA 59.551 47.826 6.17 0.00 42.86 3.41
3827 5909 3.132160 CTGAAGATACAGCTGATGCCAG 58.868 50.000 23.35 14.56 43.22 4.85
3838 5920 4.889112 ATGCCAGCATGCCCCTCG 62.889 66.667 15.66 0.00 35.03 4.63
3878 5960 3.400255 ACCGCTTGGAACTTCTCTTTAC 58.600 45.455 0.00 0.00 36.26 2.01
3935 6017 2.560105 TGCTGGATATCTCATCCGACTG 59.440 50.000 2.05 0.00 41.03 3.51
4048 6130 2.756207 TCACTGCCATCCAACATGATTG 59.244 45.455 0.00 0.09 0.00 2.67
4089 6171 3.785486 TCTGTGCATAGAGAAATGTCCG 58.215 45.455 9.37 0.00 0.00 4.79
4112 6194 1.202818 ACTTGAGTTGCTTCCCCAGAC 60.203 52.381 0.00 0.00 0.00 3.51
4142 6227 6.200878 ACCTATTTCCCTGAAGAAACTCAA 57.799 37.500 0.00 0.00 38.51 3.02
4215 6300 1.086696 GCAGCACCAACACGATACAT 58.913 50.000 0.00 0.00 0.00 2.29
4309 6401 8.574251 AACCTGTAAGCATGACAAACATATTA 57.426 30.769 0.00 0.00 37.46 0.98
4310 6402 8.574251 ACCTGTAAGCATGACAAACATATTAA 57.426 30.769 0.00 0.00 37.46 1.40
4311 6403 9.019656 ACCTGTAAGCATGACAAACATATTAAA 57.980 29.630 0.00 0.00 37.46 1.52
4312 6404 9.853555 CCTGTAAGCATGACAAACATATTAAAA 57.146 29.630 0.00 0.00 37.46 1.52
4336 6429 8.822652 AACCTTCTTTTTCATCAACATGAATC 57.177 30.769 0.00 0.00 46.36 2.52
4574 6686 1.620819 GCTCTCTTCTCCCTTGTGACA 59.379 52.381 0.00 0.00 0.00 3.58
4649 6761 3.349927 TGCTGATGTTTTGGGATCTCTG 58.650 45.455 0.00 0.00 0.00 3.35
4686 6798 0.037326 ACGAAGAGCCGCATCTTTGA 60.037 50.000 18.90 0.00 41.46 2.69
4734 6846 1.134521 TCACTGACACCAGCGAAGTTT 60.135 47.619 0.00 0.00 44.16 2.66
4754 6866 4.647424 TTGTGTGGAAATGGAGAAACAC 57.353 40.909 0.00 0.00 38.66 3.32
4762 6874 0.321653 ATGGAGAAACACTGGACGGC 60.322 55.000 0.00 0.00 0.00 5.68
4860 6973 7.959658 AATCATTGTTACATCTTCCATTGGA 57.040 32.000 0.00 0.00 0.00 3.53
4893 7006 2.968574 GACTAGCAGATTCAGGGGATCA 59.031 50.000 0.00 0.00 0.00 2.92
4896 7009 1.489649 AGCAGATTCAGGGGATCACAG 59.510 52.381 0.00 0.00 0.00 3.66
4901 7014 3.454082 AGATTCAGGGGATCACAGTTCTC 59.546 47.826 0.00 0.00 0.00 2.87
4906 7019 1.405661 GGGGATCACAGTTCTCGTTCC 60.406 57.143 0.00 0.00 0.00 3.62
4971 7084 1.242076 CAAACTCTGGAGGCTGGTTG 58.758 55.000 0.00 0.00 0.00 3.77
4979 7092 1.456287 GAGGCTGGTTGGAGTGGTT 59.544 57.895 0.00 0.00 0.00 3.67
5006 7119 3.385111 AGATCGTTGTTCCAGGGAGATAC 59.615 47.826 0.00 0.00 0.00 2.24
5021 7134 7.227512 CCAGGGAGATACAGCTATTTTGTTTAG 59.772 40.741 0.00 0.00 0.00 1.85
5024 7137 8.208903 GGGAGATACAGCTATTTTGTTTAGGTA 58.791 37.037 0.00 0.00 0.00 3.08
5109 7259 6.655003 TGATTCTTTGCTCCTTCTAAACGAAT 59.345 34.615 0.00 0.00 0.00 3.34
5111 7261 7.972832 TTCTTTGCTCCTTCTAAACGAATTA 57.027 32.000 0.00 0.00 0.00 1.40
5114 7264 8.450964 TCTTTGCTCCTTCTAAACGAATTAATG 58.549 33.333 0.00 0.00 0.00 1.90
5122 7272 6.811253 TCTAAACGAATTAATGCACTTGGT 57.189 33.333 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 44 8.245701 TGTTTCTTGTTGTTTATTGTTGTTCC 57.754 30.769 0.00 0.00 0.00 3.62
84 90 7.128976 GCTTAGATTGTTATTAGCAGAAGCAC 58.871 38.462 0.00 0.00 45.49 4.40
310 501 6.697641 TTCCTGGAGGACTTAAACTTGTAT 57.302 37.500 0.00 0.00 45.39 2.29
313 504 7.996098 TTAATTCCTGGAGGACTTAAACTTG 57.004 36.000 13.22 0.00 45.39 3.16
323 514 9.983024 TGTGTTAAATTATTAATTCCTGGAGGA 57.017 29.630 2.22 0.00 43.73 3.71
341 532 3.282885 TGACCTGTGCACATGTGTTAAA 58.717 40.909 29.07 10.73 0.00 1.52
348 539 0.450583 GCATCTGACCTGTGCACATG 59.549 55.000 22.00 20.38 38.68 3.21
360 551 5.244755 TGTGTTAACTTATGCAGCATCTGA 58.755 37.500 12.38 0.00 32.44 3.27
388 579 1.073763 CCCAACTTCCCATGTGACTCA 59.926 52.381 0.00 0.00 0.00 3.41
402 593 5.010012 GTGATCATTGTTCTTGTTCCCAACT 59.990 40.000 0.00 0.00 0.00 3.16
403 594 5.010012 AGTGATCATTGTTCTTGTTCCCAAC 59.990 40.000 0.00 0.00 0.00 3.77
404 595 5.139727 AGTGATCATTGTTCTTGTTCCCAA 58.860 37.500 0.00 0.00 0.00 4.12
422 613 7.587037 TCTCTGTTTTCAATTCCAAAGTGAT 57.413 32.000 0.00 0.00 35.21 3.06
423 614 7.587037 ATCTCTGTTTTCAATTCCAAAGTGA 57.413 32.000 0.00 0.00 33.10 3.41
424 615 8.571336 AGTATCTCTGTTTTCAATTCCAAAGTG 58.429 33.333 0.00 0.00 0.00 3.16
425 616 8.697507 AGTATCTCTGTTTTCAATTCCAAAGT 57.302 30.769 0.00 0.00 0.00 2.66
429 620 8.677300 GCATTAGTATCTCTGTTTTCAATTCCA 58.323 33.333 0.00 0.00 0.00 3.53
430 621 8.677300 TGCATTAGTATCTCTGTTTTCAATTCC 58.323 33.333 0.00 0.00 0.00 3.01
434 625 7.970061 GCAATGCATTAGTATCTCTGTTTTCAA 59.030 33.333 12.53 0.00 0.00 2.69
435 626 7.337689 AGCAATGCATTAGTATCTCTGTTTTCA 59.662 33.333 12.53 0.00 0.00 2.69
436 627 7.701445 AGCAATGCATTAGTATCTCTGTTTTC 58.299 34.615 12.53 0.00 0.00 2.29
437 628 7.636150 AGCAATGCATTAGTATCTCTGTTTT 57.364 32.000 12.53 0.00 0.00 2.43
438 629 7.636150 AAGCAATGCATTAGTATCTCTGTTT 57.364 32.000 12.53 0.00 0.00 2.83
439 630 8.737168 TTAAGCAATGCATTAGTATCTCTGTT 57.263 30.769 12.53 0.00 0.00 3.16
440 631 8.737168 TTTAAGCAATGCATTAGTATCTCTGT 57.263 30.769 12.53 0.00 0.00 3.41
460 651 7.840931 AGCCCTCTGGATTGTAAATTTTTAAG 58.159 34.615 0.00 0.00 0.00 1.85
469 688 5.903010 TGACTTATAGCCCTCTGGATTGTAA 59.097 40.000 0.00 0.00 0.00 2.41
477 696 7.925483 GCTAATATCATGACTTATAGCCCTCTG 59.075 40.741 15.54 0.00 0.00 3.35
487 706 6.213677 GTGTCCGTGCTAATATCATGACTTA 58.786 40.000 0.00 0.00 0.00 2.24
490 709 3.741344 GGTGTCCGTGCTAATATCATGAC 59.259 47.826 0.00 0.00 0.00 3.06
499 718 0.250553 CCTTTGGGTGTCCGTGCTAA 60.251 55.000 0.00 0.00 35.24 3.09
535 754 2.181975 CCCGGTTCAGTCCCTACTTAA 58.818 52.381 0.00 0.00 31.97 1.85
539 758 1.109609 CTACCCGGTTCAGTCCCTAC 58.890 60.000 0.00 0.00 0.00 3.18
540 759 1.002069 TCTACCCGGTTCAGTCCCTA 58.998 55.000 0.00 0.00 0.00 3.53
553 772 6.049790 CCTCTGTTTGCTAATAGTTCTACCC 58.950 44.000 4.74 0.00 0.00 3.69
556 775 6.546428 AGCCTCTGTTTGCTAATAGTTCTA 57.454 37.500 4.74 0.00 35.69 2.10
561 780 9.579768 CAGTATATAGCCTCTGTTTGCTAATAG 57.420 37.037 0.00 0.00 42.85 1.73
562 781 9.090103 ACAGTATATAGCCTCTGTTTGCTAATA 57.910 33.333 0.00 0.00 42.85 0.98
563 782 7.967908 ACAGTATATAGCCTCTGTTTGCTAAT 58.032 34.615 0.00 0.00 42.85 1.73
565 784 6.978674 ACAGTATATAGCCTCTGTTTGCTA 57.021 37.500 0.00 0.00 43.66 3.49
566 785 5.878406 ACAGTATATAGCCTCTGTTTGCT 57.122 39.130 0.00 0.00 37.81 3.91
567 786 6.424207 GGTAACAGTATATAGCCTCTGTTTGC 59.576 42.308 16.98 12.12 45.01 3.68
568 787 7.653713 CAGGTAACAGTATATAGCCTCTGTTTG 59.346 40.741 16.98 9.31 45.01 2.93
615 837 7.794349 CACTTAAGTTCAGAAAGAATCGTGAAC 59.206 37.037 5.07 6.03 41.47 3.18
616 838 7.518370 GCACTTAAGTTCAGAAAGAATCGTGAA 60.518 37.037 5.07 0.00 38.76 3.18
634 856 3.222603 ACTGGAACCTTTGGCACTTAAG 58.777 45.455 0.00 0.00 0.00 1.85
635 857 3.306472 ACTGGAACCTTTGGCACTTAA 57.694 42.857 0.00 0.00 0.00 1.85
705 930 9.110502 CTGAAGGTGTTTCTAAGTAAAAGACTT 57.889 33.333 0.00 0.00 41.30 3.01
738 963 3.250762 CCTTTGTCAGTGTGTGTACCATG 59.749 47.826 0.00 0.00 0.00 3.66
763 990 8.131731 GTCTCTTTCAACTTTGTTCTTGCTATT 58.868 33.333 0.00 0.00 0.00 1.73
764 991 7.283127 TGTCTCTTTCAACTTTGTTCTTGCTAT 59.717 33.333 0.00 0.00 0.00 2.97
766 993 5.415701 TGTCTCTTTCAACTTTGTTCTTGCT 59.584 36.000 0.00 0.00 0.00 3.91
786 1013 8.611051 ATCCTAGTGAAGGTTAGTAAATGTCT 57.389 34.615 0.00 0.00 46.62 3.41
809 1037 6.254157 TCGTCTTGTTTTGTTACGCCTATATC 59.746 38.462 0.00 0.00 33.75 1.63
814 1042 2.553086 TCGTCTTGTTTTGTTACGCCT 58.447 42.857 0.00 0.00 33.75 5.52
901 1132 8.593679 TGTTGATTTGAAGAGAGTTGGTATCTA 58.406 33.333 0.00 0.00 0.00 1.98
1080 1311 3.133362 TCCGTTGGTATTCATACTGGTCC 59.867 47.826 0.00 0.00 33.81 4.46
1173 1404 0.037882 TCTTTGCCTGCACTCTCTCG 60.038 55.000 0.00 0.00 0.00 4.04
1341 1572 1.129437 GTGCTTGCGGATGAAGAAGAC 59.871 52.381 0.00 0.00 0.00 3.01
1354 1585 0.109132 GCAGTGGTTATGGTGCTTGC 60.109 55.000 0.00 0.00 32.97 4.01
1365 1596 0.766674 TGGTGGTAGAGGCAGTGGTT 60.767 55.000 0.00 0.00 0.00 3.67
1527 1758 5.227569 TGCTGTCCTCTATCTTGACAAAA 57.772 39.130 0.00 0.00 38.45 2.44
1817 2048 5.047590 TCTGCCATCTCTTTTGTTAGACGTA 60.048 40.000 0.00 0.00 0.00 3.57
2025 2280 9.749490 GATTCATTCATACTTGCAACATTTTTG 57.251 29.630 0.00 0.00 0.00 2.44
2227 2482 4.561735 TTTCTTTTAGCACCGGTTTCAG 57.438 40.909 2.97 0.00 0.00 3.02
2274 2529 8.203485 TCCTTTTGCTCTATTTGACACAATTTT 58.797 29.630 0.00 0.00 0.00 1.82
2314 2569 4.682787 TCATAACTCAGTCGCAATACTGG 58.317 43.478 10.07 5.02 45.69 4.00
2419 2674 3.492309 CCATGAGCTCTCCACATCTGTAC 60.492 52.174 16.19 0.00 0.00 2.90
2458 2713 4.224433 CGATATGCAATTTCATCTGGTGC 58.776 43.478 0.00 0.00 35.75 5.01
2528 2783 5.822519 TGAACTACATAATGGTCATCTTGGC 59.177 40.000 0.00 0.00 0.00 4.52
2535 2790 5.654603 AGTCGTGAACTACATAATGGTCA 57.345 39.130 0.00 0.00 36.07 4.02
2614 2869 1.349688 TGGAACGCATACCTGGAGTTT 59.650 47.619 0.00 0.00 0.00 2.66
2616 2871 0.981183 TTGGAACGCATACCTGGAGT 59.019 50.000 0.00 0.00 0.00 3.85
2617 2872 1.207089 TCTTGGAACGCATACCTGGAG 59.793 52.381 0.00 0.00 0.00 3.86
2622 2892 4.412207 GAACATTTCTTGGAACGCATACC 58.588 43.478 0.00 0.00 0.00 2.73
2628 2898 1.265635 TGGCGAACATTTCTTGGAACG 59.734 47.619 0.00 0.00 0.00 3.95
2629 2899 2.607038 GGTGGCGAACATTTCTTGGAAC 60.607 50.000 0.00 0.00 0.00 3.62
2669 2939 7.171678 GCAAAATCCAGTACACCTCAGATATAC 59.828 40.741 0.00 0.00 0.00 1.47
2675 2945 3.411446 TGCAAAATCCAGTACACCTCAG 58.589 45.455 0.00 0.00 0.00 3.35
2676 2946 3.500448 TGCAAAATCCAGTACACCTCA 57.500 42.857 0.00 0.00 0.00 3.86
2677 2947 4.072131 TCTTGCAAAATCCAGTACACCTC 58.928 43.478 0.00 0.00 0.00 3.85
2678 2948 4.098914 TCTTGCAAAATCCAGTACACCT 57.901 40.909 0.00 0.00 0.00 4.00
2679 2949 4.846779 TTCTTGCAAAATCCAGTACACC 57.153 40.909 0.00 0.00 0.00 4.16
2680 2950 6.363357 GTGAATTCTTGCAAAATCCAGTACAC 59.637 38.462 7.05 0.00 0.00 2.90
2686 2962 5.787953 TCTGTGAATTCTTGCAAAATCCA 57.212 34.783 7.05 0.00 0.00 3.41
2687 2963 7.385752 TCAATTCTGTGAATTCTTGCAAAATCC 59.614 33.333 7.05 0.00 0.00 3.01
2690 2966 7.980662 TCTTCAATTCTGTGAATTCTTGCAAAA 59.019 29.630 7.05 0.00 36.92 2.44
2705 2981 8.298140 AGCTTCTCAGATTTTTCTTCAATTCTG 58.702 33.333 0.00 0.00 36.27 3.02
2739 3021 1.321474 CACCTTCTTCTGCCTTGCAA 58.679 50.000 0.00 0.00 38.41 4.08
2764 3046 6.183347 AGGTTGATGAGGGTATTCTTTTCTG 58.817 40.000 0.00 0.00 0.00 3.02
2765 3047 6.394345 AGGTTGATGAGGGTATTCTTTTCT 57.606 37.500 0.00 0.00 0.00 2.52
2766 3048 6.659242 TGAAGGTTGATGAGGGTATTCTTTTC 59.341 38.462 0.00 0.00 0.00 2.29
2776 3058 5.203528 ACCATAATTGAAGGTTGATGAGGG 58.796 41.667 0.00 0.00 29.58 4.30
2778 3063 7.415989 CCAAGACCATAATTGAAGGTTGATGAG 60.416 40.741 0.00 0.00 35.36 2.90
2782 3067 5.640147 ACCAAGACCATAATTGAAGGTTGA 58.360 37.500 0.00 0.00 35.36 3.18
2783 3068 5.476599 TGACCAAGACCATAATTGAAGGTTG 59.523 40.000 0.00 0.00 35.36 3.77
2784 3069 5.640147 TGACCAAGACCATAATTGAAGGTT 58.360 37.500 0.00 0.00 35.36 3.50
2786 3071 5.500234 TCTGACCAAGACCATAATTGAAGG 58.500 41.667 0.00 0.00 0.00 3.46
2877 3162 8.193953 ACCTAAGGTGTTTCAAATGATCAATT 57.806 30.769 0.00 0.00 32.98 2.32
2890 3175 9.975218 ATGAATGTTTAGATACCTAAGGTGTTT 57.025 29.630 0.00 0.00 36.19 2.83
2918 3203 7.118390 CGGGGACATTGATAAATCTCATACTTC 59.882 40.741 0.00 0.00 0.00 3.01
2924 3209 4.408921 ACTCGGGGACATTGATAAATCTCA 59.591 41.667 0.00 0.00 0.00 3.27
2928 3213 4.771114 TGACTCGGGGACATTGATAAAT 57.229 40.909 0.00 0.00 0.00 1.40
2985 3270 3.620374 CGATCCTGTCTTGATGAGTTTGG 59.380 47.826 0.00 0.00 0.00 3.28
2994 3279 3.557054 CCTTTTCCACGATCCTGTCTTGA 60.557 47.826 0.00 0.00 0.00 3.02
2995 3280 2.744202 CCTTTTCCACGATCCTGTCTTG 59.256 50.000 0.00 0.00 0.00 3.02
2996 3281 2.637872 TCCTTTTCCACGATCCTGTCTT 59.362 45.455 0.00 0.00 0.00 3.01
3007 3295 3.149981 CCTCTTGGAGTTCCTTTTCCAC 58.850 50.000 0.00 0.00 42.93 4.02
3010 3298 2.163509 GCCCTCTTGGAGTTCCTTTTC 58.836 52.381 0.00 0.00 35.39 2.29
3058 3346 6.442513 AATTATTTTCTTCGGAGCCTTCAG 57.557 37.500 0.00 0.00 0.00 3.02
3095 3383 2.158549 AGGGATCTTAGCTTGCCAATCC 60.159 50.000 0.00 0.00 33.44 3.01
3104 3392 2.022527 AGTTCCTGGAGGGATCTTAGCT 60.023 50.000 0.00 0.00 44.66 3.32
3118 3406 6.982852 TCACTTTGTACTCTTCTAGTTCCTG 58.017 40.000 0.00 0.00 39.80 3.86
3129 3418 7.952671 TCATGTTACTCTTCACTTTGTACTCT 58.047 34.615 0.00 0.00 0.00 3.24
3200 3489 6.662414 TCTGAAGATTTGTTATGGTTAGCG 57.338 37.500 0.00 0.00 0.00 4.26
3237 3526 4.247267 TCTTGCCTCATTTGCTTCTTTG 57.753 40.909 0.00 0.00 0.00 2.77
3265 3554 6.036626 GCTAGCTTGTTCAGGTTCTTCTTATC 59.963 42.308 7.70 0.00 34.13 1.75
3296 3585 3.063180 GCTCTGTTTGAGATGATTCCACG 59.937 47.826 0.00 0.00 45.39 4.94
3364 3656 1.678101 ACAAAGTGCTCTCAAGTTGGC 59.322 47.619 2.34 0.00 0.00 4.52
3377 3669 4.214119 CCATGTAACCTCTGACACAAAGTG 59.786 45.833 0.00 0.00 39.75 3.16
3428 3720 4.699735 AGTGAATGTTGGATGCGTATTCAA 59.300 37.500 2.70 2.70 38.87 2.69
3436 3728 3.444742 TCAATGGAGTGAATGTTGGATGC 59.555 43.478 0.00 0.00 0.00 3.91
3437 3729 5.648178 TTCAATGGAGTGAATGTTGGATG 57.352 39.130 0.00 0.00 32.56 3.51
3467 3759 1.028868 GGTCTTCCAGTGATGGCAGC 61.029 60.000 0.00 0.00 0.00 5.25
3504 3796 5.714806 CCTTAATTTCTGCAGGAAGGGTAAA 59.285 40.000 14.04 5.30 35.16 2.01
3517 3809 7.967854 TGTCAAACGCATTATCCTTAATTTCTG 59.032 33.333 0.00 0.00 0.00 3.02
3518 3810 8.050778 TGTCAAACGCATTATCCTTAATTTCT 57.949 30.769 0.00 0.00 0.00 2.52
3521 3813 8.921670 GTTTTGTCAAACGCATTATCCTTAATT 58.078 29.630 0.00 0.00 33.21 1.40
3527 3819 4.621034 CCAGTTTTGTCAAACGCATTATCC 59.379 41.667 0.00 0.00 46.14 2.59
3536 3828 7.826260 TCAATCTTTTCCAGTTTTGTCAAAC 57.174 32.000 0.00 0.00 42.48 2.93
3542 3834 7.436118 TCCAGAATCAATCTTTTCCAGTTTTG 58.564 34.615 0.00 0.00 35.73 2.44
3555 3847 4.380531 TGCCGTAGAATCCAGAATCAATC 58.619 43.478 0.00 0.00 0.00 2.67
3582 3874 0.743097 GTGATGGAAATGCCTCTGCC 59.257 55.000 0.00 0.00 37.63 4.85
3667 3959 1.577328 CGCAGGCGAGGAAACACATT 61.577 55.000 8.15 0.00 42.83 2.71
3672 3964 2.357034 TCACGCAGGCGAGGAAAC 60.357 61.111 21.62 0.00 42.83 2.78
3700 3992 5.713025 CCCCATCAACTTGTTACATTTCTG 58.287 41.667 0.00 0.00 0.00 3.02
3712 4004 2.365410 GCAAAGGCCCCATCAACTT 58.635 52.632 0.00 0.00 0.00 2.66
3778 5860 3.449018 TGACTGATTACCTTCTCAGAGGC 59.551 47.826 6.56 0.00 41.13 4.70
3800 5882 5.366460 CATCAGCTGTATCTTCAGGTTCAT 58.634 41.667 14.67 0.00 43.02 2.57
3827 5909 3.134127 GAACACCGAGGGGCATGC 61.134 66.667 9.90 9.90 36.48 4.06
3832 5914 2.232298 GAGAGCTGAACACCGAGGGG 62.232 65.000 0.00 0.00 40.11 4.79
3838 5920 1.194781 TCCAGGGAGAGCTGAACACC 61.195 60.000 0.00 0.00 0.00 4.16
4048 6130 3.960102 AGAGACTCAAGGGATGTGAGATC 59.040 47.826 5.02 6.02 44.44 2.75
4089 6171 2.294512 CTGGGGAAGCAACTCAAGTTTC 59.705 50.000 0.00 0.00 35.83 2.78
4112 6194 4.164221 TCTTCAGGGAAATAGGTAAGCCTG 59.836 45.833 0.00 0.00 46.47 4.85
4123 6208 6.070656 TGACATTGAGTTTCTTCAGGGAAAT 58.929 36.000 0.00 0.00 37.50 2.17
4142 6227 5.648178 TGTTTTGCTGCATCTTATGACAT 57.352 34.783 1.84 0.00 0.00 3.06
4215 6300 1.829222 GGTTCCCTCACGATAACCTGA 59.171 52.381 0.00 0.00 38.66 3.86
4329 6422 9.558648 TTGATTTACATGTTTCTTCGATTCATG 57.441 29.630 2.30 11.39 40.80 3.07
4574 6686 7.867403 ACAATTTGCGTATTCTTGATTCTTGTT 59.133 29.630 0.00 0.00 0.00 2.83
4649 6761 1.168714 GTGAATTGGCCTGGACACTC 58.831 55.000 0.00 2.29 0.00 3.51
4686 6798 1.072159 GCTGGCACTCAACTGGTCT 59.928 57.895 0.00 0.00 0.00 3.85
4734 6846 3.631686 CAGTGTTTCTCCATTTCCACACA 59.368 43.478 0.00 0.00 37.57 3.72
4754 6866 4.067192 TGATCATATTGAATGCCGTCCAG 58.933 43.478 0.00 0.00 0.00 3.86
4860 6973 6.825213 TGAATCTGCTAGTCAATGCATTAAGT 59.175 34.615 12.53 2.91 38.59 2.24
4893 7006 1.068741 GGTGAGTGGAACGAGAACTGT 59.931 52.381 0.00 0.00 45.86 3.55
4896 7009 0.680061 AGGGTGAGTGGAACGAGAAC 59.320 55.000 0.00 0.00 45.86 3.01
4901 7014 2.161609 GCAAATTAGGGTGAGTGGAACG 59.838 50.000 0.00 0.00 45.86 3.95
4906 7019 0.451783 GCCGCAAATTAGGGTGAGTG 59.548 55.000 0.00 0.00 0.00 3.51
4971 7084 3.056749 ACAACGATCTACTGAACCACTCC 60.057 47.826 0.00 0.00 0.00 3.85
4979 7092 2.496070 CCCTGGAACAACGATCTACTGA 59.504 50.000 0.00 0.00 38.70 3.41
5039 7186 7.977904 TGTGAGCAAGAACATCATATTAAGTG 58.022 34.615 0.00 0.00 0.00 3.16
5075 7223 7.440255 AGAAGGAGCAAAGAATCACAAAAATTG 59.560 33.333 0.00 0.00 0.00 2.32
5076 7224 7.503549 AGAAGGAGCAAAGAATCACAAAAATT 58.496 30.769 0.00 0.00 0.00 1.82
5242 7394 9.565213 GGAAGTCAATTTTCTATCACATCTTTG 57.435 33.333 0.00 0.00 0.00 2.77


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

AutoCloner maintained by Alex Coulton.