Multiple sequence alignment - TraesCS2A01G284400

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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 TraesCS2A01G284400 chr2A 100.000 7682 0 0 1 7682 477001980 477009661 0.000000e+00 14187
1 TraesCS2A01G284400 chr2D 95.599 7384 243 39 1 7364 356525800 356533121 0.000000e+00 11760
2 TraesCS2A01G284400 chr2D 93.925 214 5 8 7474 7682 356533150 356533360 4.470000e-82 316
3 TraesCS2A01G284400 chr2B 95.574 4293 130 19 645 4909 424326268 424330528 0.000000e+00 6820
4 TraesCS2A01G284400 chr2B 92.769 2434 90 28 5044 7462 424330867 424333229 0.000000e+00 3441
5 TraesCS2A01G284400 chr2B 78.468 1449 284 19 1108 2539 54545157 54546594 0.000000e+00 922
6 TraesCS2A01G284400 chr2B 90.698 215 13 5 7474 7682 424333209 424333422 5.870000e-71 279
7 TraesCS2A01G284400 chr2B 76.094 297 47 15 350 636 136428952 136429234 4.840000e-27 134
8 TraesCS2A01G284400 chr6D 80.493 446 66 13 6 434 329839694 329840135 9.620000e-84 322
9 TraesCS2A01G284400 chr3B 76.536 537 82 23 97 632 52798186 52798679 3.560000e-63 254
10 TraesCS2A01G284400 chr5B 82.239 259 42 3 90 345 590380559 590380302 3.610000e-53 220
11 TraesCS2A01G284400 chr6B 78.816 321 57 6 90 408 680687864 680687553 1.010000e-48 206
12 TraesCS2A01G284400 chr7A 77.104 297 45 14 350 636 115265615 115265898 4.800000e-32 150
13 TraesCS2A01G284400 chr7D 76.976 291 45 15 350 632 109317305 109317581 6.210000e-31 147


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 TraesCS2A01G284400 chr2A 477001980 477009661 7681 False 14187.000000 14187 100.000000 1 7682 1 chr2A.!!$F1 7681
1 TraesCS2A01G284400 chr2D 356525800 356533360 7560 False 6038.000000 11760 94.762000 1 7682 2 chr2D.!!$F1 7681
2 TraesCS2A01G284400 chr2B 424326268 424333422 7154 False 3513.333333 6820 93.013667 645 7682 3 chr2B.!!$F3 7037
3 TraesCS2A01G284400 chr2B 54545157 54546594 1437 False 922.000000 922 78.468000 1108 2539 1 chr2B.!!$F1 1431

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
127 129 0.035458 GATGTCCGATCCACCCATCC 59.965 60.000 0.00 0.0 0.0 3.51 F
281 283 0.040646 ATCTACCACACCCTCCACGA 59.959 55.000 0.00 0.0 0.0 4.35 F
1563 1584 0.176219 TTCGTTCTGTGTTGGGACGT 59.824 50.000 0.00 0.0 0.0 4.34 F
2574 2595 0.251165 CCCGCTCCCAAAGGAAAGAA 60.251 55.000 0.00 0.0 43.4 2.52 F
3576 3628 1.004979 GGGGTGCACATGGGTTACTTA 59.995 52.381 20.43 0.0 0.0 2.24 F
3898 3952 1.533625 TTGGCATGCTAAGTGTCCAC 58.466 50.000 18.92 0.0 0.0 4.02 F
5507 5839 0.320683 TGAATGTCACCACTCCTGCG 60.321 55.000 0.00 0.0 0.0 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1614 1635 0.822121 AGTTGCACTTTTCCCGGTCC 60.822 55.000 0.00 0.0 0.00 4.46 R
1620 1641 1.000938 CTCAGCCAGTTGCACTTTTCC 60.001 52.381 0.00 0.0 44.83 3.13 R
3123 3175 2.025793 TGTGGAGGGAAACACAGAAACA 60.026 45.455 0.00 0.0 42.20 2.83 R
3892 3946 2.102252 GCCAAGGACAAATTTGTGGACA 59.898 45.455 27.85 0.0 42.43 4.02 R
4868 4923 0.467844 TGGCAGTTCCAGCATTGTGT 60.468 50.000 0.00 0.0 40.72 3.72 R
5622 5954 1.280710 TCCCGGTGTATCTGCAAACAT 59.719 47.619 0.00 0.0 0.00 2.71 R
7420 7770 0.189822 CCCCTTTTTCCCCACCTTGA 59.810 55.000 0.00 0.0 0.00 3.02 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
21 22 0.041386 AAACTCCTCCTACGCCCTCT 59.959 55.000 0.00 0.00 0.00 3.69
102 104 1.745489 GGATGCTTTCCGTCGCCTT 60.745 57.895 0.00 0.00 33.93 4.35
103 105 0.461339 GGATGCTTTCCGTCGCCTTA 60.461 55.000 0.00 0.00 33.93 2.69
119 121 1.001406 CCTTAGGCAGATGTCCGATCC 59.999 57.143 0.00 0.00 0.00 3.36
120 122 1.688735 CTTAGGCAGATGTCCGATCCA 59.311 52.381 0.00 0.00 0.00 3.41
127 129 0.035458 GATGTCCGATCCACCCATCC 59.965 60.000 0.00 0.00 0.00 3.51
195 197 2.186384 GCCGTCTGAGATGCAGCT 59.814 61.111 2.90 2.90 44.52 4.24
244 246 1.516603 GAGTACCAACTCGCCTCGC 60.517 63.158 0.00 0.00 42.66 5.03
245 247 1.935327 GAGTACCAACTCGCCTCGCT 61.935 60.000 0.00 0.00 42.66 4.93
252 254 2.515991 CTCGCCTCGCTCCTCTCT 60.516 66.667 0.00 0.00 0.00 3.10
257 259 2.132996 CCTCGCTCCTCTCTGGCAT 61.133 63.158 0.00 0.00 35.26 4.40
261 263 1.524165 GCTCCTCTCTGGCATGCTG 60.524 63.158 18.92 11.12 35.26 4.41
281 283 0.040646 ATCTACCACACCCTCCACGA 59.959 55.000 0.00 0.00 0.00 4.35
285 287 1.374947 CCACACCCTCCACGACAAT 59.625 57.895 0.00 0.00 0.00 2.71
294 296 2.350895 CACGACAATGAGCCCCCA 59.649 61.111 0.00 0.00 0.00 4.96
322 324 1.572085 GGACGACTTCGACGACTCCA 61.572 60.000 5.47 0.00 43.02 3.86
324 326 0.879765 ACGACTTCGACGACTCCAAT 59.120 50.000 5.47 0.00 43.02 3.16
341 343 3.004839 TCCAATGACGAGTAGATGCTAGC 59.995 47.826 8.10 8.10 0.00 3.42
362 364 9.221933 GCTAGCATGAACTATCTAGTCTAGTTA 57.778 37.037 10.63 2.58 39.04 2.24
455 457 4.941263 TGTATGAACTATGCTTGTGGAACC 59.059 41.667 0.00 0.00 34.36 3.62
466 468 1.373435 GTGGAACCACGGTGATGGA 59.627 57.895 10.28 0.00 43.02 3.41
470 472 3.070446 GTGGAACCACGGTGATGGATATA 59.930 47.826 10.28 0.00 43.02 0.86
471 473 3.323691 TGGAACCACGGTGATGGATATAG 59.676 47.826 10.28 0.00 43.02 1.31
486 488 0.458260 TATAGCGCGAAGGCTTGTGA 59.542 50.000 12.10 0.00 41.39 3.58
488 490 0.601576 TAGCGCGAAGGCTTGTGAAA 60.602 50.000 12.10 0.00 41.39 2.69
497 499 5.983720 GCGAAGGCTTGTGAAACTATCTATA 59.016 40.000 3.46 0.00 34.81 1.31
521 524 3.567585 TGAAATCAAGTGCAAATCCGACA 59.432 39.130 0.00 0.00 0.00 4.35
533 536 5.689514 TGCAAATCCGACAACATTTAACAAG 59.310 36.000 0.00 0.00 0.00 3.16
536 539 7.116233 GCAAATCCGACAACATTTAACAAGATT 59.884 33.333 0.00 0.00 0.00 2.40
554 557 9.700831 AACAAGATTTATTATACAAGAAGGCCT 57.299 29.630 0.00 0.00 0.00 5.19
617 620 6.989155 ATTTACAGGACAGTTATATCCCGA 57.011 37.500 0.00 0.00 35.38 5.14
618 621 6.795144 TTTACAGGACAGTTATATCCCGAA 57.205 37.500 0.00 0.00 35.38 4.30
619 622 6.989155 TTACAGGACAGTTATATCCCGAAT 57.011 37.500 0.00 0.00 35.38 3.34
620 623 5.470047 ACAGGACAGTTATATCCCGAATC 57.530 43.478 0.00 0.00 35.38 2.52
621 624 5.148502 ACAGGACAGTTATATCCCGAATCT 58.851 41.667 0.00 0.00 35.38 2.40
622 625 5.011125 ACAGGACAGTTATATCCCGAATCTG 59.989 44.000 0.00 0.00 35.38 2.90
623 626 4.021016 AGGACAGTTATATCCCGAATCTGC 60.021 45.833 0.00 0.00 35.38 4.26
624 627 4.021016 GGACAGTTATATCCCGAATCTGCT 60.021 45.833 0.00 0.00 0.00 4.24
626 629 6.274157 ACAGTTATATCCCGAATCTGCTAG 57.726 41.667 0.00 0.00 0.00 3.42
627 630 6.010850 ACAGTTATATCCCGAATCTGCTAGA 58.989 40.000 0.00 0.00 0.00 2.43
628 631 6.151985 ACAGTTATATCCCGAATCTGCTAGAG 59.848 42.308 0.00 0.00 0.00 2.43
629 632 6.375736 CAGTTATATCCCGAATCTGCTAGAGA 59.624 42.308 0.00 0.00 34.25 3.10
630 633 7.068103 CAGTTATATCCCGAATCTGCTAGAGAT 59.932 40.741 0.00 0.00 43.91 2.75
631 634 5.850557 ATATCCCGAATCTGCTAGAGATG 57.149 43.478 0.00 0.00 40.89 2.90
632 635 2.242926 TCCCGAATCTGCTAGAGATGG 58.757 52.381 0.00 0.00 40.89 3.51
633 636 1.967066 CCCGAATCTGCTAGAGATGGT 59.033 52.381 0.00 0.00 40.89 3.55
635 638 2.890311 CCGAATCTGCTAGAGATGGTCT 59.110 50.000 0.00 0.00 40.89 3.85
636 639 4.075682 CCGAATCTGCTAGAGATGGTCTA 58.924 47.826 0.00 0.00 40.89 2.59
637 640 4.520874 CCGAATCTGCTAGAGATGGTCTAA 59.479 45.833 0.00 0.00 40.89 2.10
638 641 5.010112 CCGAATCTGCTAGAGATGGTCTAAA 59.990 44.000 0.00 0.00 40.89 1.85
639 642 6.461648 CCGAATCTGCTAGAGATGGTCTAAAA 60.462 42.308 0.00 0.00 40.89 1.52
640 643 6.980978 CGAATCTGCTAGAGATGGTCTAAAAA 59.019 38.462 0.00 0.00 40.89 1.94
641 644 7.168972 CGAATCTGCTAGAGATGGTCTAAAAAG 59.831 40.741 0.00 0.00 40.89 2.27
642 645 6.859112 TCTGCTAGAGATGGTCTAAAAAGT 57.141 37.500 0.00 0.00 37.32 2.66
643 646 7.956328 TCTGCTAGAGATGGTCTAAAAAGTA 57.044 36.000 0.00 0.00 37.32 2.24
644 647 8.540507 TCTGCTAGAGATGGTCTAAAAAGTAT 57.459 34.615 0.00 0.00 37.32 2.12
645 648 8.634444 TCTGCTAGAGATGGTCTAAAAAGTATC 58.366 37.037 0.00 0.00 37.32 2.24
646 649 7.727181 TGCTAGAGATGGTCTAAAAAGTATCC 58.273 38.462 0.00 0.00 37.32 2.59
647 650 7.344612 TGCTAGAGATGGTCTAAAAAGTATCCA 59.655 37.037 0.00 0.00 37.32 3.41
648 651 7.654116 GCTAGAGATGGTCTAAAAAGTATCCAC 59.346 40.741 0.00 0.00 37.32 4.02
649 652 7.496346 AGAGATGGTCTAAAAAGTATCCACA 57.504 36.000 0.00 0.00 31.71 4.17
650 653 8.095452 AGAGATGGTCTAAAAAGTATCCACAT 57.905 34.615 0.00 0.00 31.71 3.21
651 654 9.213777 AGAGATGGTCTAAAAAGTATCCACATA 57.786 33.333 0.00 0.00 31.71 2.29
652 655 9.832445 GAGATGGTCTAAAAAGTATCCACATAA 57.168 33.333 0.00 0.00 0.00 1.90
653 656 9.614792 AGATGGTCTAAAAAGTATCCACATAAC 57.385 33.333 0.00 0.00 0.00 1.89
654 657 7.837202 TGGTCTAAAAAGTATCCACATAACG 57.163 36.000 0.00 0.00 0.00 3.18
862 876 1.533338 CGAAGAATCCGGACGTAGGTG 60.533 57.143 6.12 0.00 0.00 4.00
944 959 3.112263 TCTCTTTGATCGGTACCCCAAT 58.888 45.455 6.25 0.00 0.00 3.16
1335 1356 1.040339 GCCAGACGATCCAGGAGAGT 61.040 60.000 0.00 0.00 0.00 3.24
1563 1584 0.176219 TTCGTTCTGTGTTGGGACGT 59.824 50.000 0.00 0.00 0.00 4.34
1614 1635 2.203800 ACGAGTACATGCACATACCG 57.796 50.000 0.00 13.64 0.00 4.02
2034 2055 4.780021 ACTTCATATGATAGGCCTACCAGG 59.220 45.833 16.61 5.73 39.06 4.45
2130 2151 3.604582 GAAGACCAGAGCAAAGCAGTAT 58.395 45.455 0.00 0.00 0.00 2.12
2256 2277 1.880027 CTTCCAAACTACACCACTGGC 59.120 52.381 0.00 0.00 0.00 4.85
2340 2361 6.975772 GGAGATCTTCACAGTATTGTACAGAC 59.024 42.308 0.00 0.00 35.25 3.51
2544 2565 5.935789 GCCTAAAATGTACAAGGTACTGTCA 59.064 40.000 11.97 0.00 40.86 3.58
2549 2570 3.708890 TGTACAAGGTACTGTCAACACG 58.291 45.455 7.90 0.00 40.86 4.49
2551 2572 0.865769 CAAGGTACTGTCAACACGCC 59.134 55.000 0.00 0.00 40.86 5.68
2573 2594 1.378762 CCCGCTCCCAAAGGAAAGA 59.621 57.895 0.00 0.00 43.40 2.52
2574 2595 0.251165 CCCGCTCCCAAAGGAAAGAA 60.251 55.000 0.00 0.00 43.40 2.52
2610 2631 5.948162 ACACCATTATGATTATGATCTGGCC 59.052 40.000 0.00 0.00 30.72 5.36
2613 2634 6.134055 CCATTATGATTATGATCTGGCCCAT 58.866 40.000 0.00 0.00 33.28 4.00
2696 2718 7.595819 TTTGAGTAAACACCATCTTTGGAAT 57.404 32.000 0.00 0.00 46.92 3.01
2736 2758 3.027412 AGTAGACATACCTGTGAGCCTG 58.973 50.000 0.00 0.00 35.14 4.85
2781 2813 5.819901 GGTAAGCAGAACTAGAATGATTGCT 59.180 40.000 0.00 0.09 41.72 3.91
2862 2905 9.995003 AGCAACTTAAGATATCTTTCTATCTGG 57.005 33.333 22.60 7.30 38.25 3.86
3038 3081 1.439543 ACAAGAGGGACTGGCTTTCT 58.560 50.000 0.00 0.00 41.55 2.52
3118 3170 6.095580 GGGTAAATGATTCTTTCCTTCCAGTC 59.904 42.308 0.00 0.00 0.00 3.51
3119 3171 6.887002 GGTAAATGATTCTTTCCTTCCAGTCT 59.113 38.462 0.00 0.00 0.00 3.24
3120 3172 6.830873 AAATGATTCTTTCCTTCCAGTCTG 57.169 37.500 0.00 0.00 0.00 3.51
3121 3173 4.292186 TGATTCTTTCCTTCCAGTCTGG 57.708 45.455 13.21 13.21 39.43 3.86
3122 3174 3.652869 TGATTCTTTCCTTCCAGTCTGGT 59.347 43.478 18.65 0.00 39.03 4.00
3123 3175 4.104738 TGATTCTTTCCTTCCAGTCTGGTT 59.895 41.667 18.65 0.00 39.03 3.67
3124 3176 3.492102 TCTTTCCTTCCAGTCTGGTTG 57.508 47.619 18.65 11.91 39.03 3.77
3125 3177 2.777692 TCTTTCCTTCCAGTCTGGTTGT 59.222 45.455 18.65 0.00 39.03 3.32
3126 3178 3.202151 TCTTTCCTTCCAGTCTGGTTGTT 59.798 43.478 18.65 0.00 39.03 2.83
3453 3505 2.584835 TCCATGACCAAGAAACTGGG 57.415 50.000 0.00 0.00 41.16 4.45
3462 3514 2.025887 CCAAGAAACTGGGGAGCAGTAT 60.026 50.000 0.00 0.00 32.32 2.12
3534 3586 7.429636 TGTAAGCAACAGGTAAGAATTGTAC 57.570 36.000 0.00 0.00 33.01 2.90
3576 3628 1.004979 GGGGTGCACATGGGTTACTTA 59.995 52.381 20.43 0.00 0.00 2.24
3627 3681 6.291377 TGAAATCACCATAAGCAGATAGACC 58.709 40.000 0.00 0.00 0.00 3.85
3686 3740 8.240682 TGGTTTTATGTTGTACATAGTGATTGC 58.759 33.333 0.00 0.00 41.56 3.56
3775 3829 5.294306 ACACATAACTGACCAATTATGCTCG 59.706 40.000 10.11 3.84 40.82 5.03
3807 3861 4.583871 ACTCTGGAATGGAGAATTGACAC 58.416 43.478 0.00 0.00 35.10 3.67
3893 3947 2.962125 TGCAATTTGGCATGCTAAGTG 58.038 42.857 18.92 20.25 42.97 3.16
3898 3952 1.533625 TTGGCATGCTAAGTGTCCAC 58.466 50.000 18.92 0.00 0.00 4.02
3911 3965 4.654091 AGTGTCCACAAATTTGTCCTTG 57.346 40.909 20.85 9.88 39.91 3.61
3995 4049 2.684374 ACAAGGTTTGTACCCGTTGAAC 59.316 45.455 13.33 0.00 46.28 3.18
4042 4096 1.632409 AGACATGTTGCTCAGGGATGT 59.368 47.619 0.00 0.00 31.56 3.06
4149 4203 8.429237 AAACACCATCTTGGAATAATTGGTAA 57.571 30.769 0.00 0.00 40.96 2.85
4155 4209 7.071071 CCATCTTGGAATAATTGGTAAACCCAT 59.929 37.037 0.00 0.00 41.18 4.00
4223 4277 6.486657 TGTCTGGAACTGTTAAGAAAATCTGG 59.513 38.462 6.91 0.00 0.00 3.86
4226 4280 6.601332 TGGAACTGTTAAGAAAATCTGGAGT 58.399 36.000 0.00 0.00 0.00 3.85
4242 4296 3.744660 TGGAGTGAGAAAAAGAAGAGGC 58.255 45.455 0.00 0.00 0.00 4.70
4320 4374 2.976882 AGACTACTTGGGGTGCACTTTA 59.023 45.455 17.98 0.00 0.00 1.85
4322 4376 2.440253 ACTACTTGGGGTGCACTTTACA 59.560 45.455 17.98 7.93 0.00 2.41
4333 4387 5.009210 GGGTGCACTTTACAAAGTCATAACA 59.991 40.000 17.98 0.00 45.65 2.41
4900 4955 3.371595 GGAACTGCCATAACCATACACCT 60.372 47.826 0.00 0.00 36.34 4.00
4997 5328 1.621317 TCCTGTTCGCATGACCTAACA 59.379 47.619 0.00 0.00 0.00 2.41
5096 5427 4.381505 GCTTCCTCTACTTCTGAGTTCTGG 60.382 50.000 0.00 0.00 37.33 3.86
5137 5468 5.163195 ACACCAGACTTGATTCTTAGTTGGT 60.163 40.000 13.66 13.66 36.80 3.67
5221 5553 6.029346 AGTATTGGTGAAGCATTTTGAAGG 57.971 37.500 0.00 0.00 0.00 3.46
5498 5830 1.298859 GGCAGGTCGTGAATGTCACC 61.299 60.000 2.91 0.00 44.20 4.02
5507 5839 0.320683 TGAATGTCACCACTCCTGCG 60.321 55.000 0.00 0.00 0.00 5.18
5621 5953 3.592059 GTGCGTTAACCTGTATCTTCCA 58.408 45.455 0.00 0.00 0.00 3.53
5622 5954 3.998341 GTGCGTTAACCTGTATCTTCCAA 59.002 43.478 0.00 0.00 0.00 3.53
5913 6245 1.069636 GCAAACTCAGCTTCTTCACCG 60.070 52.381 0.00 0.00 0.00 4.94
6200 6532 9.547753 GAAACTCTTCTATCTTACATGCCAATA 57.452 33.333 0.00 0.00 0.00 1.90
6232 6564 5.994416 ATGGGGTACAGAACAATAGGAAT 57.006 39.130 0.00 0.00 0.00 3.01
6335 6673 5.321927 TCCAGTACACTTGTGAGTATGAGA 58.678 41.667 7.83 0.00 33.90 3.27
6564 6903 6.312426 GTGGCAGCATAGATGATATCAAGTAC 59.688 42.308 9.99 2.36 0.00 2.73
6618 6957 5.978814 ACAGGTTTCTATACTGTCCATGTC 58.021 41.667 0.00 0.00 41.27 3.06
6786 7125 4.799949 CAGCCATTTGGTGAATAATCGTTG 59.200 41.667 0.00 0.00 45.48 4.10
6804 7146 3.496131 CGCATGTGTGGTACCGCC 61.496 66.667 22.54 13.97 37.90 6.13
6814 7156 2.040012 TGTGGTACCGCCCATTAGAAAA 59.960 45.455 22.54 0.00 36.74 2.29
6906 7249 4.794334 TCTGGGTGCTAAGGTTAAACAAA 58.206 39.130 0.00 0.00 0.00 2.83
6935 7278 4.026052 CCAGTTCTCCCTTTGCCAATAAT 58.974 43.478 0.00 0.00 0.00 1.28
6957 7300 3.056107 TGAAGTGTACCCAGTACTGATGC 60.056 47.826 24.68 14.98 39.49 3.91
7018 7361 4.829968 CCTAGCATATGATTCCAGTCTGG 58.170 47.826 13.21 13.21 39.43 3.86
7115 7461 2.804549 TGTGTGGCACATGCTTTCA 58.195 47.368 24.95 12.89 44.52 2.69
7121 7467 0.179156 GGCACATGCTTTCATCACCG 60.179 55.000 3.48 0.00 41.70 4.94
7149 7495 2.096218 CGTTAAGCAGGCTTCTTGTGTC 60.096 50.000 10.21 0.00 37.47 3.67
7189 7539 4.585162 TGGCCGTTTTCTTTCCATTTCTTA 59.415 37.500 0.00 0.00 0.00 2.10
7278 7628 2.953466 TGTAACCCTCACGTGCTATC 57.047 50.000 11.67 0.00 0.00 2.08
7305 7655 4.093261 GGAAAATTGAATTGGCATCCAACG 59.907 41.667 0.00 0.00 46.95 4.10
7321 7671 2.412089 CCAACGACGAGAAACTGGATTC 59.588 50.000 0.00 0.00 0.00 2.52
7370 7720 1.700042 GGCCATAGCACTACCAGGCT 61.700 60.000 0.00 0.00 42.56 4.58
7372 7722 0.833287 CCATAGCACTACCAGGCTGT 59.167 55.000 14.43 4.32 41.25 4.40
7373 7723 1.210478 CCATAGCACTACCAGGCTGTT 59.790 52.381 14.43 0.60 41.25 3.16
7374 7724 2.283298 CATAGCACTACCAGGCTGTTG 58.717 52.381 14.43 6.06 41.25 3.33
7375 7725 1.348064 TAGCACTACCAGGCTGTTGT 58.652 50.000 14.43 7.70 41.25 3.32
7376 7726 0.474184 AGCACTACCAGGCTGTTGTT 59.526 50.000 14.43 0.20 39.30 2.83
7398 7748 1.808390 GGGACGAACGCGCACTTAT 60.808 57.895 5.73 0.00 42.48 1.73
7399 7749 0.526096 GGGACGAACGCGCACTTATA 60.526 55.000 5.73 0.00 42.48 0.98
7406 7756 2.357327 ACGCGCACTTATACACAAGA 57.643 45.000 5.73 0.00 0.00 3.02
7419 7769 2.384828 ACACAAGAAAAAGGACACCCC 58.615 47.619 0.00 0.00 0.00 4.95
7435 7785 3.861002 CCCTCAAGGTGGGGAAAAA 57.139 52.632 0.00 0.00 41.85 1.94
7437 7787 1.632589 CCTCAAGGTGGGGAAAAAGG 58.367 55.000 0.00 0.00 41.85 3.11
7438 7788 1.632589 CTCAAGGTGGGGAAAAAGGG 58.367 55.000 0.00 0.00 0.00 3.95
7439 7789 0.189822 TCAAGGTGGGGAAAAAGGGG 59.810 55.000 0.00 0.00 0.00 4.79
7440 7790 0.835971 CAAGGTGGGGAAAAAGGGGG 60.836 60.000 0.00 0.00 0.00 5.40
7454 7804 4.979657 GGGGGAAAAGGACGATCC 57.020 61.111 0.00 0.00 36.58 3.36
7468 7818 5.729974 GGACGATCCTACGCTTTATTTTT 57.270 39.130 0.00 0.00 36.70 1.94
7493 7843 2.279136 CGAAAAGACGATCCTACGCTTG 59.721 50.000 0.00 0.00 36.70 4.01
7541 7893 6.878389 AGAAGAAGAGGCTTGATGTTTAAGAG 59.122 38.462 0.00 0.00 0.00 2.85
7617 7969 3.411446 CAAGGACCAGCTGTACAAATCA 58.589 45.455 13.81 0.00 0.00 2.57
7619 7971 3.679389 AGGACCAGCTGTACAAATCAAG 58.321 45.455 13.81 0.00 0.00 3.02
7620 7972 2.162408 GGACCAGCTGTACAAATCAAGC 59.838 50.000 13.81 0.00 0.00 4.01
7621 7973 3.077359 GACCAGCTGTACAAATCAAGCT 58.923 45.455 13.81 0.00 0.00 3.74
7622 7974 3.490348 ACCAGCTGTACAAATCAAGCTT 58.510 40.909 13.81 0.00 0.00 3.74
7623 7975 3.254166 ACCAGCTGTACAAATCAAGCTTG 59.746 43.478 20.81 20.81 0.00 4.01
7624 7976 3.503363 CCAGCTGTACAAATCAAGCTTGA 59.497 43.478 30.23 30.23 42.14 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.076632 CAGAGGGCGTAGGAGGAGT 60.077 63.158 0.00 0.00 0.00 3.85
10 11 2.893398 GACACCAGAGGGCGTAGG 59.107 66.667 0.00 0.00 37.90 3.18
21 22 0.817634 CCTGTGCCTTTTCGACACCA 60.818 55.000 1.19 0.00 33.30 4.17
58 59 2.202440 CTACGGGACTGTGCGTCG 60.202 66.667 0.00 0.00 43.79 5.12
83 85 3.202706 GGCGACGGAAAGCATCCC 61.203 66.667 0.00 0.00 46.39 3.85
87 89 1.079405 CCTAAGGCGACGGAAAGCA 60.079 57.895 0.00 0.00 34.54 3.91
88 90 2.461945 GCCTAAGGCGACGGAAAGC 61.462 63.158 0.00 0.00 39.62 3.51
102 104 1.040646 GTGGATCGGACATCTGCCTA 58.959 55.000 0.00 0.00 0.00 3.93
103 105 1.690219 GGTGGATCGGACATCTGCCT 61.690 60.000 0.00 0.00 0.00 4.75
113 115 2.111878 GCTGGATGGGTGGATCGG 59.888 66.667 0.00 0.00 0.00 4.18
182 184 2.186125 CCGCAGCTGCATCTCAGA 59.814 61.111 36.03 0.00 45.72 3.27
244 246 0.759959 ATCAGCATGCCAGAGAGGAG 59.240 55.000 15.66 0.00 40.02 3.69
245 247 0.757512 GATCAGCATGCCAGAGAGGA 59.242 55.000 15.66 1.30 40.02 3.71
252 254 0.911053 TGTGGTAGATCAGCATGCCA 59.089 50.000 15.66 0.78 36.92 4.92
257 259 1.195115 GAGGGTGTGGTAGATCAGCA 58.805 55.000 0.00 0.00 34.33 4.41
261 263 0.460311 CGTGGAGGGTGTGGTAGATC 59.540 60.000 0.00 0.00 0.00 2.75
281 283 3.672503 GGGGTGGGGGCTCATTGT 61.673 66.667 0.00 0.00 0.00 2.71
294 296 2.203596 AAGTCGTCCTCACGGGGT 60.204 61.111 0.00 0.00 46.70 4.95
314 316 2.708051 TCTACTCGTCATTGGAGTCGT 58.292 47.619 0.00 0.00 43.39 4.34
322 324 4.279420 TCATGCTAGCATCTACTCGTCATT 59.721 41.667 27.34 0.00 33.90 2.57
324 326 3.214328 TCATGCTAGCATCTACTCGTCA 58.786 45.455 27.34 0.00 33.90 4.35
362 364 8.543774 ACACTGATAGATAGGTCAAACTGAAAT 58.456 33.333 0.00 0.00 0.00 2.17
384 386 2.169832 AGTTTCGCACATAGCACACT 57.830 45.000 0.00 0.00 46.13 3.55
445 447 0.874390 CATCACCGTGGTTCCACAAG 59.126 55.000 19.90 13.31 36.82 3.16
455 457 1.350193 GCGCTATATCCATCACCGTG 58.650 55.000 0.00 0.00 0.00 4.94
466 468 1.068588 TCACAAGCCTTCGCGCTATAT 59.931 47.619 5.56 0.00 38.44 0.86
470 472 1.891919 TTTCACAAGCCTTCGCGCT 60.892 52.632 5.56 0.00 42.22 5.92
471 473 1.725973 GTTTCACAAGCCTTCGCGC 60.726 57.895 0.00 0.00 41.18 6.86
497 499 5.163513 GTCGGATTTGCACTTGATTTCAAT 58.836 37.500 0.00 0.00 35.02 2.57
506 509 4.320608 AAATGTTGTCGGATTTGCACTT 57.679 36.364 0.00 0.00 0.00 3.16
510 513 5.918011 TCTTGTTAAATGTTGTCGGATTTGC 59.082 36.000 0.00 0.00 0.00 3.68
533 536 6.935208 ACGGAGGCCTTCTTGTATAATAAATC 59.065 38.462 6.77 0.00 0.00 2.17
536 539 5.221581 GGACGGAGGCCTTCTTGTATAATAA 60.222 44.000 6.77 0.00 0.00 1.40
540 543 2.037144 GGACGGAGGCCTTCTTGTATA 58.963 52.381 6.77 0.00 0.00 1.47
543 546 2.593956 GGGACGGAGGCCTTCTTGT 61.594 63.158 6.77 0.00 0.00 3.16
554 557 5.297776 TTGTAAACAAAATTTACGGGACGGA 59.702 36.000 0.00 0.00 45.28 4.69
609 612 4.648762 CCATCTCTAGCAGATTCGGGATAT 59.351 45.833 2.93 0.00 40.20 1.63
613 616 1.967066 ACCATCTCTAGCAGATTCGGG 59.033 52.381 10.54 8.30 40.20 5.14
617 620 7.856415 ACTTTTTAGACCATCTCTAGCAGATT 58.144 34.615 2.93 0.00 40.20 2.40
618 621 7.430760 ACTTTTTAGACCATCTCTAGCAGAT 57.569 36.000 0.00 0.44 43.33 2.90
619 622 6.859112 ACTTTTTAGACCATCTCTAGCAGA 57.141 37.500 0.00 0.00 32.75 4.26
620 623 7.870445 GGATACTTTTTAGACCATCTCTAGCAG 59.130 40.741 0.00 0.00 32.75 4.24
621 624 7.344612 TGGATACTTTTTAGACCATCTCTAGCA 59.655 37.037 0.00 0.00 32.66 3.49
622 625 7.654116 GTGGATACTTTTTAGACCATCTCTAGC 59.346 40.741 0.00 0.00 32.66 3.42
623 626 8.696374 TGTGGATACTTTTTAGACCATCTCTAG 58.304 37.037 0.00 0.00 32.66 2.43
624 627 8.603898 TGTGGATACTTTTTAGACCATCTCTA 57.396 34.615 0.00 0.00 37.61 2.43
626 629 9.832445 TTATGTGGATACTTTTTAGACCATCTC 57.168 33.333 0.00 0.00 37.61 2.75
627 630 9.614792 GTTATGTGGATACTTTTTAGACCATCT 57.385 33.333 0.00 0.00 37.61 2.90
628 631 8.548721 CGTTATGTGGATACTTTTTAGACCATC 58.451 37.037 0.00 0.00 37.61 3.51
629 632 8.262227 TCGTTATGTGGATACTTTTTAGACCAT 58.738 33.333 0.00 0.00 37.61 3.55
630 633 7.613585 TCGTTATGTGGATACTTTTTAGACCA 58.386 34.615 0.00 0.00 37.61 4.02
631 634 8.483307 TTCGTTATGTGGATACTTTTTAGACC 57.517 34.615 0.00 0.00 37.61 3.85
638 641 9.661563 TCATACTTTTCGTTATGTGGATACTTT 57.338 29.630 0.00 0.00 37.61 2.66
639 642 9.661563 TTCATACTTTTCGTTATGTGGATACTT 57.338 29.630 0.00 0.00 37.61 2.24
640 643 9.095065 GTTCATACTTTTCGTTATGTGGATACT 57.905 33.333 0.00 0.00 37.61 2.12
641 644 8.875803 TGTTCATACTTTTCGTTATGTGGATAC 58.124 33.333 0.00 0.00 0.00 2.24
642 645 9.438228 TTGTTCATACTTTTCGTTATGTGGATA 57.562 29.630 0.00 0.00 0.00 2.59
643 646 7.915293 TGTTCATACTTTTCGTTATGTGGAT 57.085 32.000 0.00 0.00 0.00 3.41
644 647 7.731882 TTGTTCATACTTTTCGTTATGTGGA 57.268 32.000 0.00 0.00 0.00 4.02
645 648 8.964420 AATTGTTCATACTTTTCGTTATGTGG 57.036 30.769 0.00 0.00 0.00 4.17
647 650 9.769093 GCTAATTGTTCATACTTTTCGTTATGT 57.231 29.630 0.00 0.00 0.00 2.29
648 651 9.767684 TGCTAATTGTTCATACTTTTCGTTATG 57.232 29.630 0.00 0.00 0.00 1.90
649 652 9.769093 GTGCTAATTGTTCATACTTTTCGTTAT 57.231 29.630 0.00 0.00 0.00 1.89
650 653 7.953173 CGTGCTAATTGTTCATACTTTTCGTTA 59.047 33.333 0.00 0.00 0.00 3.18
651 654 6.795114 CGTGCTAATTGTTCATACTTTTCGTT 59.205 34.615 0.00 0.00 0.00 3.85
652 655 6.304126 CGTGCTAATTGTTCATACTTTTCGT 58.696 36.000 0.00 0.00 0.00 3.85
653 656 5.732647 CCGTGCTAATTGTTCATACTTTTCG 59.267 40.000 0.00 0.00 0.00 3.46
654 657 6.027749 CCCGTGCTAATTGTTCATACTTTTC 58.972 40.000 0.00 0.00 0.00 2.29
660 663 4.080807 TCCTTCCCGTGCTAATTGTTCATA 60.081 41.667 0.00 0.00 0.00 2.15
862 876 3.469739 TCCAAACAAGTTAGGGTTCGTC 58.530 45.455 4.23 0.00 0.00 4.20
944 959 2.356553 CGCGGAAAACTGGACGGA 60.357 61.111 0.00 0.00 0.00 4.69
1335 1356 1.145598 GAGCAGCAGCAGCCTCATA 59.854 57.895 6.10 0.00 45.49 2.15
1563 1584 1.079256 ACAGTAGGCCTGCTCCAGA 59.921 57.895 21.89 0.00 45.68 3.86
1614 1635 0.822121 AGTTGCACTTTTCCCGGTCC 60.822 55.000 0.00 0.00 0.00 4.46
1620 1641 1.000938 CTCAGCCAGTTGCACTTTTCC 60.001 52.381 0.00 0.00 44.83 3.13
2034 2055 3.884037 AGATGGATATGTTTCCCACCC 57.116 47.619 0.00 0.00 34.67 4.61
2130 2151 8.089625 TGGTCCTGTCAAGATCATTAGAATAA 57.910 34.615 0.00 0.00 0.00 1.40
2256 2277 3.501828 TGACCACAAGATGAATTGTTCCG 59.498 43.478 0.00 0.00 41.41 4.30
2551 2572 4.740822 CCTTTGGGAGCGGGGTGG 62.741 72.222 0.00 0.00 33.58 4.61
2610 2631 7.414222 AGGCCAAATGCATATAGAATTATGG 57.586 36.000 5.01 0.00 43.89 2.74
2613 2634 8.922237 TGAAAAGGCCAAATGCATATAGAATTA 58.078 29.630 5.01 0.00 43.89 1.40
2725 2747 5.491982 AGTAAAATACTTCAGGCTCACAGG 58.508 41.667 0.00 0.00 34.86 4.00
2762 2794 7.488187 TTCATAGCAATCATTCTAGTTCTGC 57.512 36.000 0.00 0.00 0.00 4.26
2862 2905 3.809905 GGTGGTTCCTAATCACCTGATC 58.190 50.000 13.64 0.00 45.36 2.92
3038 3081 3.393278 ACTTAAACCCAGTCCAGTAAGCA 59.607 43.478 0.00 0.00 0.00 3.91
3118 3170 3.023832 AGGGAAACACAGAAACAACCAG 58.976 45.455 0.00 0.00 0.00 4.00
3119 3171 3.020984 GAGGGAAACACAGAAACAACCA 58.979 45.455 0.00 0.00 0.00 3.67
3120 3172 2.361119 GGAGGGAAACACAGAAACAACC 59.639 50.000 0.00 0.00 0.00 3.77
3121 3173 3.020984 TGGAGGGAAACACAGAAACAAC 58.979 45.455 0.00 0.00 0.00 3.32
3122 3174 3.020984 GTGGAGGGAAACACAGAAACAA 58.979 45.455 0.00 0.00 37.54 2.83
3123 3175 2.025793 TGTGGAGGGAAACACAGAAACA 60.026 45.455 0.00 0.00 42.20 2.83
3124 3176 2.650322 TGTGGAGGGAAACACAGAAAC 58.350 47.619 0.00 0.00 42.20 2.78
3462 3514 4.661222 TGACAAGATTATCAAGTGGGCAA 58.339 39.130 0.00 0.00 0.00 4.52
3534 3586 4.932200 CCTAACTGGAACAAGTTAGCAGAG 59.068 45.833 18.47 6.29 42.74 3.35
3627 3681 7.813852 ACTAAACTAGCTGATACAGTTTTCG 57.186 36.000 14.92 10.16 41.46 3.46
3775 3829 6.173339 TCTCCATTCCAGAGTTGACAATAAC 58.827 40.000 0.00 0.00 32.93 1.89
3826 3880 8.617290 ATTTGTTTATGTTCTAACCGTTCTCT 57.383 30.769 0.00 0.00 0.00 3.10
3892 3946 2.102252 GCCAAGGACAAATTTGTGGACA 59.898 45.455 27.85 0.00 42.43 4.02
3893 3947 2.547855 GGCCAAGGACAAATTTGTGGAC 60.548 50.000 27.85 20.20 42.43 4.02
3995 4049 3.720193 GCCACGTGTGCTGCTCAG 61.720 66.667 15.65 2.66 0.00 3.35
4149 4203 7.201965 CCTTCTAAACCAACTTTGTTATGGGTT 60.202 37.037 0.00 0.00 45.71 4.11
4155 4209 7.941431 TCAACCTTCTAAACCAACTTTGTTA 57.059 32.000 0.00 0.00 0.00 2.41
4223 4277 5.956068 ATTGCCTCTTCTTTTTCTCACTC 57.044 39.130 0.00 0.00 0.00 3.51
4226 4280 6.966534 AAGAATTGCCTCTTCTTTTTCTCA 57.033 33.333 0.00 0.00 39.34 3.27
4333 4387 8.969260 TGACAAGCTTATATTCAGATGACAAT 57.031 30.769 0.00 0.00 0.00 2.71
4868 4923 0.467844 TGGCAGTTCCAGCATTGTGT 60.468 50.000 0.00 0.00 40.72 3.72
4997 5328 7.283329 CCTATGAGGTATTTAGCTTTGTCCTT 58.717 38.462 0.00 0.00 33.58 3.36
5096 5427 3.813166 TGGTGTAGTTGCAACTTTCTAGC 59.187 43.478 35.20 25.17 40.37 3.42
5137 5468 7.062322 ACCCATAAATTGCATGATACAGAAGA 58.938 34.615 0.00 0.00 0.00 2.87
5221 5553 8.986477 ATTTGGCAAGTATTTCAATGAACTAC 57.014 30.769 13.50 13.50 30.98 2.73
5498 5830 2.972625 TGGAAATAGTTCGCAGGAGTG 58.027 47.619 0.00 0.00 34.28 3.51
5507 5839 2.420022 ACGCAGCACATGGAAATAGTTC 59.580 45.455 0.00 0.00 0.00 3.01
5567 5899 1.616628 GAAGGGCAGGAGGAAGGGA 60.617 63.158 0.00 0.00 0.00 4.20
5621 5953 2.091541 CCCGGTGTATCTGCAAACATT 58.908 47.619 0.00 0.00 0.00 2.71
5622 5954 1.280710 TCCCGGTGTATCTGCAAACAT 59.719 47.619 0.00 0.00 0.00 2.71
6092 6424 4.122046 CAACGCAATGGACATATCTGAGA 58.878 43.478 0.00 0.00 0.00 3.27
6097 6429 6.508563 CGATATAGCAACGCAATGGACATATC 60.509 42.308 0.00 0.00 0.00 1.63
6102 6434 3.057019 TCGATATAGCAACGCAATGGAC 58.943 45.455 0.00 0.00 0.00 4.02
6200 6532 8.429237 TTGTTCTGTACCCCATTTCAAATAAT 57.571 30.769 0.00 0.00 0.00 1.28
6232 6564 2.353704 CCTGCACTACTTGACCGATCAA 60.354 50.000 0.00 0.00 42.73 2.57
6302 6640 6.545666 TCACAAGTGTACTGGATCAACAAAAT 59.454 34.615 0.00 0.00 0.00 1.82
6335 6673 8.486210 TCACTAGAGCAAACAATATGAGGTATT 58.514 33.333 0.00 0.00 33.23 1.89
6564 6903 4.547367 GATGGGGCCCTTCCGACG 62.547 72.222 25.93 0.00 34.94 5.12
6618 6957 2.348998 AGCTCGGTTTGCTCCTGG 59.651 61.111 0.00 0.00 35.67 4.45
6786 7125 4.160635 GCGGTACCACACATGCGC 62.161 66.667 13.54 0.00 0.00 6.09
6804 7146 4.019321 TGGACCTCAGACCTTTTCTAATGG 60.019 45.833 0.00 0.00 31.12 3.16
6814 7156 2.982488 ACTCAAAATGGACCTCAGACCT 59.018 45.455 0.00 0.00 0.00 3.85
6883 7226 4.015872 TGTTTAACCTTAGCACCCAGAG 57.984 45.455 0.00 0.00 0.00 3.35
6935 7278 3.056107 GCATCAGTACTGGGTACACTTCA 60.056 47.826 22.48 0.00 41.03 3.02
6957 7300 2.617308 ACCGTCTCGTAGGACATACATG 59.383 50.000 0.00 0.00 36.12 3.21
7018 7361 7.174080 AGTTTCTTTCCAAGTATTTCAGAGAGC 59.826 37.037 0.00 0.00 0.00 4.09
7045 7388 2.364324 TCACTGAACTGTCCCTGTGTAC 59.636 50.000 14.73 0.00 0.00 2.90
7046 7389 2.673258 TCACTGAACTGTCCCTGTGTA 58.327 47.619 14.73 5.14 0.00 2.90
7047 7390 1.496060 TCACTGAACTGTCCCTGTGT 58.504 50.000 14.73 0.00 0.00 3.72
7048 7391 2.487934 CTTCACTGAACTGTCCCTGTG 58.512 52.381 11.28 11.28 0.00 3.66
7049 7392 1.202698 GCTTCACTGAACTGTCCCTGT 60.203 52.381 0.00 0.00 0.00 4.00
7050 7393 1.202687 TGCTTCACTGAACTGTCCCTG 60.203 52.381 0.00 0.00 0.00 4.45
7051 7394 1.071385 CTGCTTCACTGAACTGTCCCT 59.929 52.381 0.00 0.00 0.00 4.20
7052 7395 1.517242 CTGCTTCACTGAACTGTCCC 58.483 55.000 0.00 0.00 0.00 4.46
7053 7396 0.871057 GCTGCTTCACTGAACTGTCC 59.129 55.000 0.00 0.00 0.00 4.02
7054 7397 1.262683 GTGCTGCTTCACTGAACTGTC 59.737 52.381 0.00 0.00 34.29 3.51
7055 7398 1.303309 GTGCTGCTTCACTGAACTGT 58.697 50.000 0.00 0.00 34.29 3.55
7056 7399 1.003116 GTGTGCTGCTTCACTGAACTG 60.003 52.381 16.59 0.00 37.81 3.16
7115 7461 1.651987 CTTAACGCATGTCCGGTGAT 58.348 50.000 0.00 0.00 0.00 3.06
7149 7495 3.181507 CGGCCAGTTCAGACATAACAATG 60.182 47.826 2.24 0.00 0.00 2.82
7210 7560 7.909485 AAAAGAAATGGATCTATCAGGCAAT 57.091 32.000 0.00 0.00 0.00 3.56
7245 7595 8.293867 CGTGAGGGTTACAAGATTGAAATTTTA 58.706 33.333 0.00 0.00 0.00 1.52
7278 7628 3.037431 TGCCAATTCAATTTTCCGTGG 57.963 42.857 0.00 0.00 0.00 4.94
7282 7632 4.093261 CGTTGGATGCCAATTCAATTTTCC 59.907 41.667 1.79 0.00 45.80 3.13
7289 7639 0.801872 CGTCGTTGGATGCCAATTCA 59.198 50.000 1.79 0.00 45.80 2.57
7305 7655 1.641577 CCCGAATCCAGTTTCTCGTC 58.358 55.000 0.00 0.00 0.00 4.20
7370 7720 0.531090 CGTTCGTCCCAGGAACAACA 60.531 55.000 9.16 0.00 41.55 3.33
7372 7722 1.595929 GCGTTCGTCCCAGGAACAA 60.596 57.895 9.16 0.00 41.55 2.83
7373 7723 2.029964 GCGTTCGTCCCAGGAACA 59.970 61.111 9.16 0.00 41.55 3.18
7374 7724 3.110178 CGCGTTCGTCCCAGGAAC 61.110 66.667 0.00 0.01 39.02 3.62
7398 7748 3.203487 AGGGGTGTCCTTTTTCTTGTGTA 59.797 43.478 0.00 0.00 45.47 2.90
7399 7749 2.024369 AGGGGTGTCCTTTTTCTTGTGT 60.024 45.455 0.00 0.00 45.47 3.72
7419 7769 1.632589 CCCTTTTTCCCCACCTTGAG 58.367 55.000 0.00 0.00 0.00 3.02
7420 7770 0.189822 CCCCTTTTTCCCCACCTTGA 59.810 55.000 0.00 0.00 0.00 3.02
7421 7771 0.835971 CCCCCTTTTTCCCCACCTTG 60.836 60.000 0.00 0.00 0.00 3.61
7423 7773 3.282838 CCCCCTTTTTCCCCACCT 58.717 61.111 0.00 0.00 0.00 4.00
7437 7787 1.140452 GTAGGATCGTCCTTTTCCCCC 59.860 57.143 11.09 0.00 46.91 5.40
7438 7788 1.202498 CGTAGGATCGTCCTTTTCCCC 60.202 57.143 11.09 0.00 46.91 4.81
7439 7789 1.805495 GCGTAGGATCGTCCTTTTCCC 60.805 57.143 11.09 0.00 46.91 3.97
7440 7790 1.136500 AGCGTAGGATCGTCCTTTTCC 59.864 52.381 11.09 0.00 46.91 3.13
7441 7791 2.580966 AGCGTAGGATCGTCCTTTTC 57.419 50.000 11.09 3.81 46.91 2.29
7442 7792 3.329929 AAAGCGTAGGATCGTCCTTTT 57.670 42.857 11.09 4.43 46.91 2.27
7443 7793 4.667519 ATAAAGCGTAGGATCGTCCTTT 57.332 40.909 11.09 11.08 46.91 3.11
7444 7794 4.667519 AATAAAGCGTAGGATCGTCCTT 57.332 40.909 11.09 0.00 46.91 3.36
7446 7796 5.729974 AAAAATAAAGCGTAGGATCGTCC 57.270 39.130 0.00 0.00 36.58 4.79
7466 7816 4.376615 CGTAGGATCGTCTTTTCGCAAAAA 60.377 41.667 0.00 0.00 33.42 1.94
7467 7817 3.122278 CGTAGGATCGTCTTTTCGCAAAA 59.878 43.478 0.00 0.00 0.00 2.44
7468 7818 2.664568 CGTAGGATCGTCTTTTCGCAAA 59.335 45.455 0.00 0.00 0.00 3.68
7469 7819 2.256174 CGTAGGATCGTCTTTTCGCAA 58.744 47.619 0.00 0.00 0.00 4.85
7470 7820 1.904144 CGTAGGATCGTCTTTTCGCA 58.096 50.000 0.00 0.00 0.00 5.10
7471 7821 0.571197 GCGTAGGATCGTCTTTTCGC 59.429 55.000 0.00 0.00 36.06 4.70
7472 7822 2.190325 AGCGTAGGATCGTCTTTTCG 57.810 50.000 0.00 0.00 0.00 3.46
7473 7823 2.603560 CCAAGCGTAGGATCGTCTTTTC 59.396 50.000 0.00 0.00 0.00 2.29
7477 7827 0.739561 GTCCAAGCGTAGGATCGTCT 59.260 55.000 0.00 0.00 37.52 4.18
7517 7867 6.403092 GCTCTTAAACATCAAGCCTCTTCTTC 60.403 42.308 0.00 0.00 0.00 2.87
7518 7868 5.414144 GCTCTTAAACATCAAGCCTCTTCTT 59.586 40.000 0.00 0.00 0.00 2.52
7520 7870 4.697352 TGCTCTTAAACATCAAGCCTCTTC 59.303 41.667 0.00 0.00 31.96 2.87
7525 7877 3.347216 TCCTGCTCTTAAACATCAAGCC 58.653 45.455 0.00 0.00 31.96 4.35
7541 7893 3.243002 GCATTTGCTATCTGTCTTCCTGC 60.243 47.826 0.00 0.00 38.21 4.85
7617 7969 7.390027 ACAGTACTGACAGATAAATCAAGCTT 58.610 34.615 29.30 0.00 0.00 3.74
7619 7971 6.256757 GGACAGTACTGACAGATAAATCAAGC 59.743 42.308 29.30 2.14 0.00 4.01
7620 7972 6.473778 CGGACAGTACTGACAGATAAATCAAG 59.526 42.308 29.30 7.15 0.00 3.02
7621 7973 6.330278 CGGACAGTACTGACAGATAAATCAA 58.670 40.000 29.30 0.00 0.00 2.57
7622 7974 5.163550 CCGGACAGTACTGACAGATAAATCA 60.164 44.000 29.30 0.00 0.00 2.57
7623 7975 5.067413 TCCGGACAGTACTGACAGATAAATC 59.933 44.000 29.30 12.22 0.00 2.17
7624 7976 4.954202 TCCGGACAGTACTGACAGATAAAT 59.046 41.667 29.30 3.01 0.00 1.40
7625 7977 4.157289 GTCCGGACAGTACTGACAGATAAA 59.843 45.833 29.75 7.59 0.00 1.40
7628 7980 2.093106 GTCCGGACAGTACTGACAGAT 58.907 52.381 29.75 6.23 0.00 2.90


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

AutoCloner maintained by Alex Coulton.