Multiple sequence alignment - TraesCS5A01G408700

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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 TraesCS5A01G408700 chr5A 100.000 4195 0 0 1550 5744 598851103 598855297 0.000000e+00 7747.0
1 TraesCS5A01G408700 chr5A 100.000 1215 0 0 1 1215 598849554 598850768 0.000000e+00 2244.0
2 TraesCS5A01G408700 chr5A 94.612 631 32 2 1 629 631008523 631007893 0.000000e+00 976.0
3 TraesCS5A01G408700 chr5A 82.379 227 33 2 1 220 637477731 637477957 2.110000e-44 191.0
4 TraesCS5A01G408700 chr5B 93.227 3957 202 41 1550 5476 588500156 588504076 0.000000e+00 5762.0
5 TraesCS5A01G408700 chr5B 92.227 476 27 6 742 1215 588499656 588500123 0.000000e+00 665.0
6 TraesCS5A01G408700 chr5B 90.024 411 28 6 807 1215 588404433 588404832 2.370000e-143 520.0
7 TraesCS5A01G408700 chr5B 96.296 81 3 0 619 699 588499581 588499661 3.610000e-27 134.0
8 TraesCS5A01G408700 chr5D 89.845 3998 225 81 1550 5446 480351188 480355105 0.000000e+00 4966.0
9 TraesCS5A01G408700 chr5D 93.322 584 33 5 637 1215 480350573 480351155 0.000000e+00 857.0
10 TraesCS5A01G408700 chr7D 87.055 618 69 7 1 613 638542077 638541466 0.000000e+00 688.0
11 TraesCS5A01G408700 chrUn 86.731 618 71 9 1 613 10123846 10124457 0.000000e+00 676.0
12 TraesCS5A01G408700 chr2B 86.179 615 80 4 1 613 453996242 453996853 0.000000e+00 660.0
13 TraesCS5A01G408700 chr2A 80.892 628 106 8 1 617 49436694 49436070 3.110000e-132 483.0
14 TraesCS5A01G408700 chr2A 96.364 55 1 1 1031 1085 739847819 739847766 7.930000e-14 89.8
15 TraesCS5A01G408700 chr2A 100.000 30 0 0 3482 3511 624313588 624313559 8.040000e-04 56.5
16 TraesCS5A01G408700 chr1B 85.880 432 52 4 1 424 59836139 59835709 8.780000e-123 451.0
17 TraesCS5A01G408700 chr1B 85.714 252 27 6 3 246 646896067 646896317 2.050000e-64 257.0
18 TraesCS5A01G408700 chr1B 90.506 158 15 0 456 613 396535128 396534971 5.830000e-50 209.0
19 TraesCS5A01G408700 chr4A 87.946 224 25 2 1 222 663367321 663367544 4.410000e-66 263.0
20 TraesCS5A01G408700 chr6B 86.709 158 21 0 456 613 704975875 704975718 5.920000e-40 176.0
21 TraesCS5A01G408700 chr6B 95.652 92 2 1 1035 1126 123735376 123735465 4.640000e-31 147.0
22 TraesCS5A01G408700 chr6B 94.565 92 3 1 1035 1126 19328062 19328151 2.160000e-29 141.0
23 TraesCS5A01G408700 chr6B 92.391 92 5 1 1035 1126 64545389 64545478 4.670000e-26 130.0
24 TraesCS5A01G408700 chr6B 96.552 58 2 0 932 989 64545330 64545387 4.740000e-16 97.1
25 TraesCS5A01G408700 chr6B 94.828 58 3 0 932 989 123735317 123735374 2.200000e-14 91.6


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G408700 chr5A 598849554 598855297 5743 False 4995.5 7747 100.000000 1 5744 2 chr5A.!!$F2 5743
1 TraesCS5A01G408700 chr5A 631007893 631008523 630 True 976.0 976 94.612000 1 629 1 chr5A.!!$R1 628
2 TraesCS5A01G408700 chr5B 588499581 588504076 4495 False 2187.0 5762 93.916667 619 5476 3 chr5B.!!$F2 4857
3 TraesCS5A01G408700 chr5D 480350573 480355105 4532 False 2911.5 4966 91.583500 637 5446 2 chr5D.!!$F1 4809
4 TraesCS5A01G408700 chr7D 638541466 638542077 611 True 688.0 688 87.055000 1 613 1 chr7D.!!$R1 612
5 TraesCS5A01G408700 chrUn 10123846 10124457 611 False 676.0 676 86.731000 1 613 1 chrUn.!!$F1 612
6 TraesCS5A01G408700 chr2B 453996242 453996853 611 False 660.0 660 86.179000 1 613 1 chr2B.!!$F1 612
7 TraesCS5A01G408700 chr2A 49436070 49436694 624 True 483.0 483 80.892000 1 617 1 chr2A.!!$R1 616

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
764 791 0.383231 ATTGCATTGCTAAGCGCTCC 59.617 50.000 12.06 2.59 40.11 4.70 F
1962 2022 0.037326 TTACCACTGGAAGCTCTGCG 60.037 55.000 0.71 0.00 37.60 5.18 F
2287 2348 1.683917 CCTAGGTTGTCGAGCTATGCT 59.316 52.381 0.00 0.00 43.88 3.79 F
3314 3386 1.074752 GCTGCTTCGTTCCTCTCTTG 58.925 55.000 0.00 0.00 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2287 2348 0.835971 TCAGCCAGCTGTGGTCCTTA 60.836 55.0 18.61 0.00 46.96 2.69 R
3314 3386 0.036022 GGATAGGCATGCTGGGTCTC 59.964 60.0 18.92 6.21 0.00 3.36 R
3440 3514 0.036952 CGAGGTCACCATGTCTGCTT 60.037 55.0 0.00 0.00 0.00 3.91 R
4976 5101 0.039798 CAACACAGCACAGCACATCC 60.040 55.0 0.00 0.00 0.00 3.51 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
28 29 1.001181 CCAAAACCTGCATCCACCAAG 59.999 52.381 0.00 0.00 0.00 3.61
172 181 1.153939 CCAGAGACGAACCAGAGCG 60.154 63.158 0.00 0.00 0.00 5.03
249 260 2.421314 CAGTGGTGTGACGCAGGA 59.579 61.111 0.00 0.00 0.00 3.86
253 264 3.626924 GGTGTGACGCAGGAGGGT 61.627 66.667 0.00 0.00 44.44 4.34
279 290 2.859165 AAGCTCGGACTTGGATGAAA 57.141 45.000 0.00 0.00 0.00 2.69
368 390 2.552743 GCCGAGACAGTTTAAAAAGGCT 59.447 45.455 0.00 0.00 39.01 4.58
552 577 5.013236 CGAAGTGTATTAATGTTGCACGAC 58.987 41.667 0.00 0.00 35.46 4.34
557 582 5.347635 GTGTATTAATGTTGCACGACTCTCA 59.652 40.000 0.00 0.00 0.00 3.27
558 583 6.036083 GTGTATTAATGTTGCACGACTCTCAT 59.964 38.462 0.00 0.00 0.00 2.90
586 611 3.806591 CGGTATGAATATCGCCCGT 57.193 52.632 0.00 0.00 29.40 5.28
634 659 1.860641 TCGGTTGAAGATGCCCTCTA 58.139 50.000 0.00 0.00 32.41 2.43
656 681 3.102972 TCTCTCCCTCCATCAAAGTGAG 58.897 50.000 0.00 0.00 0.00 3.51
710 735 1.375140 CACTCATCCGCACACTGCT 60.375 57.895 0.00 0.00 42.25 4.24
726 751 2.158325 ACTGCTTCCCTTCCCAATTCAA 60.158 45.455 0.00 0.00 0.00 2.69
728 753 1.202348 GCTTCCCTTCCCAATTCAACG 59.798 52.381 0.00 0.00 0.00 4.10
764 791 0.383231 ATTGCATTGCTAAGCGCTCC 59.617 50.000 12.06 2.59 40.11 4.70
769 796 0.471617 ATTGCTAAGCGCTCCCTCAT 59.528 50.000 12.06 0.00 40.11 2.90
811 838 2.223479 ACCATGCACACGAACAAGTTTC 60.223 45.455 0.00 0.00 0.00 2.78
826 853 6.036577 ACAAGTTTCTTCAAGCCAGAAAAA 57.963 33.333 0.00 0.00 40.99 1.94
845 872 3.915437 AAATGACGCAAACCACCTTAG 57.085 42.857 0.00 0.00 0.00 2.18
865 892 6.200097 CCTTAGAAAAATGGTGAAAACAACCG 59.800 38.462 0.00 0.00 40.86 4.44
872 899 1.003223 GGTGAAAACAACCGAGGAACG 60.003 52.381 0.00 0.00 42.18 3.95
916 943 1.147153 CGGATTTCCTCTGCCTCCC 59.853 63.158 0.00 0.00 0.00 4.30
1685 1739 0.391597 TCAAGTCCAACCTCACCGAC 59.608 55.000 0.00 0.00 0.00 4.79
1745 1799 4.200283 GACGAGCAGGAGCCGGAG 62.200 72.222 5.05 0.00 43.56 4.63
1909 1966 2.487372 GCAAGGCTTCCAAGAAGAAGAG 59.513 50.000 8.50 0.00 45.08 2.85
1962 2022 0.037326 TTACCACTGGAAGCTCTGCG 60.037 55.000 0.71 0.00 37.60 5.18
1991 2051 4.043100 GGCCACCACTACACCCCC 62.043 72.222 0.00 0.00 0.00 5.40
2145 2205 1.843851 TGAGGGGGTCGAGCATAATTT 59.156 47.619 17.59 0.00 0.00 1.82
2157 2217 7.917505 GGTCGAGCATAATTTGATGAAAAATCT 59.082 33.333 10.30 0.00 0.00 2.40
2186 2246 7.492352 TGTTTTCCTTCTTCTGCTTTACTAC 57.508 36.000 0.00 0.00 0.00 2.73
2187 2247 7.280356 TGTTTTCCTTCTTCTGCTTTACTACT 58.720 34.615 0.00 0.00 0.00 2.57
2188 2248 8.426489 TGTTTTCCTTCTTCTGCTTTACTACTA 58.574 33.333 0.00 0.00 0.00 1.82
2243 2304 3.492383 CGTTATGCACTTATCTCTGCAGG 59.508 47.826 15.13 4.77 46.26 4.85
2287 2348 1.683917 CCTAGGTTGTCGAGCTATGCT 59.316 52.381 0.00 0.00 43.88 3.79
2366 2427 3.595108 GAGTTCAAAGGCGGCGCAC 62.595 63.158 34.36 21.35 0.00 5.34
2367 2428 3.959975 GTTCAAAGGCGGCGCACA 61.960 61.111 34.36 8.85 0.00 4.57
2397 2458 4.028852 TCGACACGATTGATGAGGTAAG 57.971 45.455 0.00 0.00 0.00 2.34
2398 2459 3.116300 CGACACGATTGATGAGGTAAGG 58.884 50.000 0.00 0.00 0.00 2.69
2409 2470 3.931907 TGAGGTAAGGATTGGTGGATG 57.068 47.619 0.00 0.00 0.00 3.51
2423 2484 5.543507 TGGTGGATGTTTTACATTTGCTT 57.456 34.783 0.00 0.00 39.27 3.91
2464 2532 2.094286 TGCAGAAAGAGCTCTAGCACTC 60.094 50.000 18.59 8.89 41.01 3.51
2486 2554 6.022163 TCAGGCTCAGTTACAGTTTACTAC 57.978 41.667 0.00 0.00 0.00 2.73
2534 2602 4.488126 TTTCTGCACATTGCTAACTGAC 57.512 40.909 0.00 0.00 45.31 3.51
2593 2661 6.245115 TCATTTAGCAGAAGTGTGTGATTG 57.755 37.500 0.00 0.00 0.00 2.67
2708 2776 2.159324 TGTCTTAGCTGTGATCTGCTCG 60.159 50.000 10.70 5.67 45.22 5.03
2794 2863 6.378280 GTCATTCCTAGGTGGTTTTCATCAAT 59.622 38.462 9.08 0.00 37.07 2.57
3101 3172 2.427453 GGATTCGGAGTTGCTCTACTCA 59.573 50.000 12.14 0.00 45.07 3.41
3244 3315 7.229506 CCCTTTCCTAGTGGTTCATTTGATATC 59.770 40.741 0.00 0.00 34.23 1.63
3256 3327 7.933577 GGTTCATTTGATATCATCCACTGTAGA 59.066 37.037 6.17 0.00 0.00 2.59
3271 3342 4.268644 CACTGTAGAGAATGCAACATACCG 59.731 45.833 0.00 0.00 0.00 4.02
3294 3365 6.427150 CGTGGCATTCTAATGGTATTTACAC 58.573 40.000 4.93 0.00 36.90 2.90
3314 3386 1.074752 GCTGCTTCGTTCCTCTCTTG 58.925 55.000 0.00 0.00 0.00 3.02
3363 3437 6.339730 TGCTCACATCTTGAACAACATTTTT 58.660 32.000 0.00 0.00 32.21 1.94
3513 3587 1.609072 GTGTGGAGAAAAGGCTGGAAC 59.391 52.381 0.00 0.00 0.00 3.62
3539 3614 8.437360 TGCTGAAATACCACTGTCATTATAAG 57.563 34.615 0.00 0.00 0.00 1.73
3540 3615 8.046708 TGCTGAAATACCACTGTCATTATAAGT 58.953 33.333 0.00 0.00 0.00 2.24
3571 3646 7.464358 AGCATGTAAAATATCACGACTTTCAC 58.536 34.615 0.00 0.00 0.00 3.18
3586 3661 1.575419 TTCACGGGGCCATTACTAGT 58.425 50.000 4.39 0.00 0.00 2.57
3590 3665 2.696707 CACGGGGCCATTACTAGTCTTA 59.303 50.000 4.39 0.00 0.00 2.10
3591 3666 2.963782 ACGGGGCCATTACTAGTCTTAG 59.036 50.000 4.39 0.00 0.00 2.18
3594 3669 4.217983 CGGGGCCATTACTAGTCTTAGTAG 59.782 50.000 4.39 0.00 41.95 2.57
3595 3670 4.021280 GGGGCCATTACTAGTCTTAGTAGC 60.021 50.000 4.39 0.00 41.95 3.58
3598 3673 6.183360 GGGCCATTACTAGTCTTAGTAGCTTT 60.183 42.308 4.39 0.00 41.95 3.51
3599 3674 7.015001 GGGCCATTACTAGTCTTAGTAGCTTTA 59.985 40.741 4.39 0.00 41.95 1.85
3600 3675 8.586744 GGCCATTACTAGTCTTAGTAGCTTTAT 58.413 37.037 0.00 0.00 41.95 1.40
3610 3707 8.041919 AGTCTTAGTAGCTTTATTTCCCTTGTC 58.958 37.037 0.00 0.00 0.00 3.18
3612 3709 8.041323 TCTTAGTAGCTTTATTTCCCTTGTCTG 58.959 37.037 0.00 0.00 0.00 3.51
3627 3724 8.561738 TCCCTTGTCTGTGTTTTAAATATCTC 57.438 34.615 0.00 0.00 0.00 2.75
3630 3727 8.169268 CCTTGTCTGTGTTTTAAATATCTCGAC 58.831 37.037 0.00 0.00 0.00 4.20
3679 3776 1.652930 CGCGGTTTGTTGGAACGTG 60.653 57.895 0.00 0.00 0.00 4.49
3867 3964 4.096382 ACGGTGTTTCCTGAATTATCATGC 59.904 41.667 0.00 0.00 34.37 4.06
3891 3992 5.295787 CACACTAGAGTTTGTTTGGCTTGTA 59.704 40.000 0.00 0.00 0.00 2.41
3894 3995 7.068226 ACACTAGAGTTTGTTTGGCTTGTAAAT 59.932 33.333 0.00 0.00 0.00 1.40
3923 4024 4.576053 ACGTTGGTTTTCCTTTGTAGGTAC 59.424 41.667 0.00 0.00 42.60 3.34
3995 4096 2.061220 CAGTGAGTGGCCTGAGGAA 58.939 57.895 0.65 0.00 0.00 3.36
4031 4132 2.548920 CGAGACTTTTCCTGACTGGCTT 60.549 50.000 0.00 0.00 35.26 4.35
4118 4219 5.605540 ATCTGGATGGCTTGGGTATTAAT 57.394 39.130 0.00 0.00 0.00 1.40
4124 4225 4.601406 TGGCTTGGGTATTAATTGGACT 57.399 40.909 0.00 0.00 0.00 3.85
4139 4240 9.985730 ATTAATTGGACTAATATCCGAAACGTA 57.014 29.630 0.00 0.00 42.24 3.57
4151 4252 5.327616 TCCGAAACGTACTGGATATGAAA 57.672 39.130 0.00 0.00 0.00 2.69
4198 4300 5.255207 TCCTTTCTGAATTTCCATTCCCCTA 59.745 40.000 0.00 0.00 38.50 3.53
4262 4364 1.958579 AGATTTGCTGCAGCTTTGTCA 59.041 42.857 36.61 15.23 42.66 3.58
4313 4415 2.733671 CGTGCATGCTCCAGACACG 61.734 63.158 20.33 14.36 46.57 4.49
4391 4493 4.520492 CCATTTAGCACATATCCAAGGTCC 59.480 45.833 0.00 0.00 0.00 4.46
4427 4529 0.796312 CCGACCATTTGTTCTCACGG 59.204 55.000 0.00 0.00 0.00 4.94
4482 4584 2.032549 CCTCACTTGAACTTTGACGCTG 60.033 50.000 0.00 0.00 0.00 5.18
4483 4585 1.330521 TCACTTGAACTTTGACGCTGC 59.669 47.619 0.00 0.00 0.00 5.25
4542 4644 0.540133 TGACATGGCCTGCACAATGT 60.540 50.000 3.32 3.67 0.00 2.71
4554 4656 3.011818 TGCACAATGTAGATGCAAGGAG 58.988 45.455 0.00 0.00 45.96 3.69
4559 4661 0.107508 TGTAGATGCAAGGAGCCTGC 60.108 55.000 0.00 0.00 44.83 4.85
4772 4874 0.882484 TCGAATCACAAGGCGCACAA 60.882 50.000 10.83 0.00 0.00 3.33
4773 4875 0.040514 CGAATCACAAGGCGCACAAA 60.041 50.000 10.83 0.00 0.00 2.83
4868 4979 0.888736 TGTTGGCTTCCACGACCATG 60.889 55.000 0.00 0.00 30.78 3.66
4876 4987 2.179767 CACGACCATGTACCGCGA 59.820 61.111 8.23 0.00 0.00 5.87
4877 4988 1.872234 CACGACCATGTACCGCGAG 60.872 63.158 8.23 0.00 0.00 5.03
4878 4989 2.954868 CGACCATGTACCGCGAGC 60.955 66.667 8.23 0.00 0.00 5.03
4879 4990 2.954868 GACCATGTACCGCGAGCG 60.955 66.667 8.23 10.86 39.44 5.03
4918 5029 3.004524 ACAGTGTTACTCTCGTCAGTTCC 59.995 47.826 0.00 0.00 0.00 3.62
4975 5100 4.161565 AGGTGCTGGATAGATCGTGTAAAA 59.838 41.667 0.00 0.00 0.00 1.52
4976 5101 4.508124 GGTGCTGGATAGATCGTGTAAAAG 59.492 45.833 0.00 0.00 0.00 2.27
4979 5104 5.070446 TGCTGGATAGATCGTGTAAAAGGAT 59.930 40.000 0.00 0.00 36.10 3.24
4980 5105 5.406780 GCTGGATAGATCGTGTAAAAGGATG 59.593 44.000 0.00 0.00 33.54 3.51
4981 5106 6.479972 TGGATAGATCGTGTAAAAGGATGT 57.520 37.500 0.00 0.00 33.54 3.06
4986 5111 3.120321 TCGTGTAAAAGGATGTGCTGT 57.880 42.857 0.00 0.00 0.00 4.40
5059 5197 8.081633 TGTAAAGCTTCTGAACATTGTAAATGG 58.918 33.333 0.00 0.00 0.00 3.16
5078 5216 7.437713 AAATGGATCTGTACAAGGATGTAGA 57.562 36.000 2.53 0.00 42.54 2.59
5082 5220 6.322456 TGGATCTGTACAAGGATGTAGAAGAG 59.678 42.308 2.53 0.00 42.54 2.85
5083 5221 6.322712 GGATCTGTACAAGGATGTAGAAGAGT 59.677 42.308 2.53 0.00 42.54 3.24
5084 5222 7.147811 GGATCTGTACAAGGATGTAGAAGAGTT 60.148 40.741 2.53 0.00 42.54 3.01
5091 5229 6.876257 ACAAGGATGTAGAAGAGTTGTTGATC 59.124 38.462 0.00 0.00 38.24 2.92
5093 5231 7.009179 AGGATGTAGAAGAGTTGTTGATCAA 57.991 36.000 3.38 3.38 0.00 2.57
5095 5233 8.105829 AGGATGTAGAAGAGTTGTTGATCAATT 58.894 33.333 12.12 0.00 38.38 2.32
5099 5237 8.902806 TGTAGAAGAGTTGTTGATCAATTGTTT 58.097 29.630 12.12 2.39 38.38 2.83
5117 5257 3.509575 TGTTTGGTGCTTCTGAAAGTTGT 59.490 39.130 0.00 0.00 34.79 3.32
5159 5299 5.683859 CAAAAGATCTCAAGACTTTGGACG 58.316 41.667 0.00 0.00 34.70 4.79
5224 5372 4.496895 CAGTTTCAGAAAGAACAGCAAACG 59.503 41.667 0.00 0.00 35.56 3.60
5234 5382 4.531426 AGCAAACGCCAACCCCCA 62.531 61.111 0.00 0.00 0.00 4.96
5236 5384 3.611674 CAAACGCCAACCCCCACC 61.612 66.667 0.00 0.00 0.00 4.61
5271 5419 1.677217 GCACAGCAAAACCCACCAAAA 60.677 47.619 0.00 0.00 0.00 2.44
5292 5440 2.356667 GAAGCCAACCTCCCCCTG 59.643 66.667 0.00 0.00 0.00 4.45
5298 5446 4.959460 AACCTCCCCCTGCCCCAA 62.959 66.667 0.00 0.00 0.00 4.12
5299 5447 4.959460 ACCTCCCCCTGCCCCAAA 62.959 66.667 0.00 0.00 0.00 3.28
5305 5453 4.702274 CCCTGCCCCAAACCCCAG 62.702 72.222 0.00 0.00 0.00 4.45
5307 5455 4.305956 CTGCCCCAAACCCCAGCT 62.306 66.667 0.00 0.00 0.00 4.24
5311 5459 4.659172 CCCAAACCCCAGCTCGCA 62.659 66.667 0.00 0.00 0.00 5.10
5430 5578 4.399618 TCTTCTTCCTCTACAAGTCCATCG 59.600 45.833 0.00 0.00 0.00 3.84
5476 5624 2.778717 CCCCTCCCCTTCCCCATC 60.779 72.222 0.00 0.00 0.00 3.51
5477 5625 2.778717 CCCTCCCCTTCCCCATCC 60.779 72.222 0.00 0.00 0.00 3.51
5478 5626 2.378522 CCTCCCCTTCCCCATCCT 59.621 66.667 0.00 0.00 0.00 3.24
5479 5627 1.772156 CCTCCCCTTCCCCATCCTC 60.772 68.421 0.00 0.00 0.00 3.71
5480 5628 1.772156 CTCCCCTTCCCCATCCTCC 60.772 68.421 0.00 0.00 0.00 4.30
5481 5629 2.272170 TCCCCTTCCCCATCCTCCT 61.272 63.158 0.00 0.00 0.00 3.69
5482 5630 1.772156 CCCCTTCCCCATCCTCCTC 60.772 68.421 0.00 0.00 0.00 3.71
5483 5631 1.772156 CCCTTCCCCATCCTCCTCC 60.772 68.421 0.00 0.00 0.00 4.30
5484 5632 1.319799 CCTTCCCCATCCTCCTCCT 59.680 63.158 0.00 0.00 0.00 3.69
5485 5633 0.766288 CCTTCCCCATCCTCCTCCTC 60.766 65.000 0.00 0.00 0.00 3.71
5486 5634 0.766288 CTTCCCCATCCTCCTCCTCC 60.766 65.000 0.00 0.00 0.00 4.30
5487 5635 2.122189 CCCCATCCTCCTCCTCCC 60.122 72.222 0.00 0.00 0.00 4.30
5488 5636 2.122189 CCCATCCTCCTCCTCCCC 60.122 72.222 0.00 0.00 0.00 4.81
5489 5637 2.122189 CCATCCTCCTCCTCCCCC 60.122 72.222 0.00 0.00 0.00 5.40
5490 5638 2.525381 CATCCTCCTCCTCCCCCG 60.525 72.222 0.00 0.00 0.00 5.73
5491 5639 4.565850 ATCCTCCTCCTCCCCCGC 62.566 72.222 0.00 0.00 0.00 6.13
5521 5669 4.517934 CGCCCCGACCCTCCTCTA 62.518 72.222 0.00 0.00 0.00 2.43
5522 5670 2.838693 GCCCCGACCCTCCTCTAC 60.839 72.222 0.00 0.00 0.00 2.59
5523 5671 2.518825 CCCCGACCCTCCTCTACG 60.519 72.222 0.00 0.00 0.00 3.51
5524 5672 3.217743 CCCGACCCTCCTCTACGC 61.218 72.222 0.00 0.00 0.00 4.42
5525 5673 3.584052 CCGACCCTCCTCTACGCG 61.584 72.222 3.53 3.53 0.00 6.01
5526 5674 2.823147 CGACCCTCCTCTACGCGT 60.823 66.667 19.17 19.17 0.00 6.01
5527 5675 2.821688 CGACCCTCCTCTACGCGTC 61.822 68.421 18.63 0.00 0.00 5.19
5528 5676 2.821688 GACCCTCCTCTACGCGTCG 61.822 68.421 18.63 10.61 0.00 5.12
5529 5677 3.584052 CCCTCCTCTACGCGTCGG 61.584 72.222 18.63 15.67 0.00 4.79
5530 5678 4.253257 CCTCCTCTACGCGTCGGC 62.253 72.222 18.63 0.00 0.00 5.54
5531 5679 4.253257 CTCCTCTACGCGTCGGCC 62.253 72.222 18.63 0.00 35.02 6.13
5533 5681 4.849329 CCTCTACGCGTCGGCCAC 62.849 72.222 18.63 0.00 35.02 5.01
5552 5700 4.748144 GGCACCTCCAAGGCCCTG 62.748 72.222 0.00 0.00 39.63 4.45
5553 5701 4.748144 GCACCTCCAAGGCCCTGG 62.748 72.222 14.93 14.93 39.63 4.45
5554 5702 4.748144 CACCTCCAAGGCCCTGGC 62.748 72.222 16.33 0.00 39.63 4.85
5633 5781 4.790861 GCCTTCGACCCGGACGAC 62.791 72.222 19.74 8.28 39.46 4.34
5634 5782 4.125695 CCTTCGACCCGGACGACC 62.126 72.222 19.74 0.00 39.46 4.79
5635 5783 3.060615 CTTCGACCCGGACGACCT 61.061 66.667 19.74 0.00 39.46 3.85
5636 5784 3.048941 CTTCGACCCGGACGACCTC 62.049 68.421 19.74 0.00 39.46 3.85
5644 5792 4.755507 GGACGACCTCCCCTCGGT 62.756 72.222 0.00 0.00 37.50 4.69
5645 5793 3.139469 GACGACCTCCCCTCGGTC 61.139 72.222 0.00 0.00 45.88 4.79
5646 5794 4.755507 ACGACCTCCCCTCGGTCC 62.756 72.222 3.82 0.00 46.48 4.46
5656 5804 4.824515 CTCGGTCCCGCTCCTCCT 62.825 72.222 0.00 0.00 39.59 3.69
5660 5808 3.844090 GTCCCGCTCCTCCTGCTC 61.844 72.222 0.00 0.00 0.00 4.26
5663 5811 4.200283 CCGCTCCTCCTGCTCGTC 62.200 72.222 0.00 0.00 0.00 4.20
5664 5812 4.200283 CGCTCCTCCTGCTCGTCC 62.200 72.222 0.00 0.00 0.00 4.79
5665 5813 2.757917 GCTCCTCCTGCTCGTCCT 60.758 66.667 0.00 0.00 0.00 3.85
5666 5814 2.781158 GCTCCTCCTGCTCGTCCTC 61.781 68.421 0.00 0.00 0.00 3.71
5667 5815 2.043852 TCCTCCTGCTCGTCCTCC 60.044 66.667 0.00 0.00 0.00 4.30
5668 5816 3.151022 CCTCCTGCTCGTCCTCCC 61.151 72.222 0.00 0.00 0.00 4.30
5669 5817 3.151022 CTCCTGCTCGTCCTCCCC 61.151 72.222 0.00 0.00 0.00 4.81
5670 5818 3.965026 CTCCTGCTCGTCCTCCCCA 62.965 68.421 0.00 0.00 0.00 4.96
5671 5819 3.775654 CCTGCTCGTCCTCCCCAC 61.776 72.222 0.00 0.00 0.00 4.61
5672 5820 3.775654 CTGCTCGTCCTCCCCACC 61.776 72.222 0.00 0.00 0.00 4.61
5675 5823 3.391382 CTCGTCCTCCCCACCCAC 61.391 72.222 0.00 0.00 0.00 4.61
5678 5826 3.703127 GTCCTCCCCACCCACGAC 61.703 72.222 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 5.446340 CCAAGCTCTTTTTGTGTTTTTCAGC 60.446 40.000 0.00 0.00 0.00 4.26
122 131 0.179045 CCCAGGGAGGCATTTCTACG 60.179 60.000 0.00 0.00 35.39 3.51
279 290 1.302752 TCTGCCTCGCAAGCATGTT 60.303 52.632 0.00 0.00 40.04 2.71
552 577 3.250323 CGCACGACGCCATGAGAG 61.250 66.667 0.00 0.00 37.30 3.20
557 582 2.566057 TTCATACCGCACGACGCCAT 62.566 55.000 0.00 0.00 41.76 4.40
558 583 2.566057 ATTCATACCGCACGACGCCA 62.566 55.000 0.00 0.00 41.76 5.69
586 611 1.875262 GTGAACATGCCATCACGCA 59.125 52.632 10.09 0.00 44.35 5.24
634 659 3.710677 CTCACTTTGATGGAGGGAGAGAT 59.289 47.826 0.00 0.00 45.51 2.75
656 681 2.048603 GCAGGTTGATGGGCAGTCC 61.049 63.158 0.00 0.00 0.00 3.85
710 735 2.373836 TCTCGTTGAATTGGGAAGGGAA 59.626 45.455 0.00 0.00 0.00 3.97
726 751 2.589798 TGAGACGGTGTTTTTCTCGT 57.410 45.000 0.00 0.00 38.96 4.18
728 753 3.003275 TGCAATGAGACGGTGTTTTTCTC 59.997 43.478 0.00 0.00 36.99 2.87
764 791 6.118170 AGTCAGTGGTCAATTAATGATGAGG 58.882 40.000 0.00 0.00 40.97 3.86
769 796 6.774673 TGGTTAGTCAGTGGTCAATTAATGA 58.225 36.000 0.00 0.00 35.05 2.57
826 853 3.134574 TCTAAGGTGGTTTGCGTCATT 57.865 42.857 0.00 0.00 0.00 2.57
827 854 2.851263 TCTAAGGTGGTTTGCGTCAT 57.149 45.000 0.00 0.00 0.00 3.06
831 858 3.987220 CCATTTTTCTAAGGTGGTTTGCG 59.013 43.478 0.00 0.00 0.00 4.85
845 872 4.506288 CCTCGGTTGTTTTCACCATTTTTC 59.494 41.667 0.00 0.00 0.00 2.29
964 997 2.037367 CGGTGGAGTGGAGAGGGA 59.963 66.667 0.00 0.00 0.00 4.20
968 1001 2.276116 GCTGTCGGTGGAGTGGAGA 61.276 63.158 0.00 0.00 0.00 3.71
1661 1697 2.357517 AGGTTGGACTTGAGCGCG 60.358 61.111 0.00 0.00 0.00 6.86
1662 1698 1.301716 TGAGGTTGGACTTGAGCGC 60.302 57.895 0.00 0.00 0.00 5.92
1663 1699 0.951040 GGTGAGGTTGGACTTGAGCG 60.951 60.000 0.00 0.00 0.00 5.03
1669 1705 2.214920 GGGTCGGTGAGGTTGGACT 61.215 63.158 0.00 0.00 0.00 3.85
1685 1739 1.659794 CTTGTTGGCTTGTTCCGGG 59.340 57.895 0.00 0.00 0.00 5.73
1779 1833 4.729918 CTCCTTGGGCGCCTTGCT 62.730 66.667 28.56 0.00 45.43 3.91
1781 1835 3.984193 CTCCTCCTTGGGCGCCTTG 62.984 68.421 28.56 16.10 36.20 3.61
1991 2051 1.439353 CCCCATCGAAATCCACGCAG 61.439 60.000 0.00 0.00 0.00 5.18
2157 2217 7.765695 AAAGCAGAAGAAGGAAAACATCATA 57.234 32.000 0.00 0.00 0.00 2.15
2186 2246 4.693283 TCAGACACACAAGAACAACCTAG 58.307 43.478 0.00 0.00 0.00 3.02
2187 2247 4.746535 TCAGACACACAAGAACAACCTA 57.253 40.909 0.00 0.00 0.00 3.08
2188 2248 3.627395 TCAGACACACAAGAACAACCT 57.373 42.857 0.00 0.00 0.00 3.50
2243 2304 3.829601 TGTCCAACATTCCCATACCAAAC 59.170 43.478 0.00 0.00 0.00 2.93
2287 2348 0.835971 TCAGCCAGCTGTGGTCCTTA 60.836 55.000 18.61 0.00 46.96 2.69
2366 2427 8.006741 TCATCAATCGTGTCGATATAATGTTG 57.993 34.615 5.11 5.91 46.30 3.33
2367 2428 7.329471 CCTCATCAATCGTGTCGATATAATGTT 59.671 37.037 5.11 0.00 46.30 2.71
2397 2458 5.351189 GCAAATGTAAAACATCCACCAATCC 59.649 40.000 0.00 0.00 37.97 3.01
2398 2459 6.165577 AGCAAATGTAAAACATCCACCAATC 58.834 36.000 0.00 0.00 37.97 2.67
2423 2484 4.764308 TGCATACAACTACCTTGCATCAAA 59.236 37.500 0.00 0.00 38.32 2.69
2464 2532 6.026947 AGTAGTAAACTGTAACTGAGCCTG 57.973 41.667 6.10 0.00 36.93 4.85
2502 2570 6.758149 GCAATGTGCAGAAATTGATTTACAG 58.242 36.000 16.87 0.00 44.26 2.74
2503 2571 6.709145 GCAATGTGCAGAAATTGATTTACA 57.291 33.333 16.87 0.00 44.26 2.41
2552 2620 8.673711 GCTAAATGATCCACACATTTGTTACTA 58.326 33.333 13.67 0.00 44.25 1.82
2787 2856 8.583296 TGTGGTAAATGATTTCACAATTGATGA 58.417 29.630 13.59 9.35 35.72 2.92
2794 2863 6.545666 ACTCAGTGTGGTAAATGATTTCACAA 59.454 34.615 12.24 0.32 39.58 3.33
3085 3156 3.506810 CTTCTTGAGTAGAGCAACTCCG 58.493 50.000 10.31 3.77 44.40 4.63
3244 3315 4.256110 TGTTGCATTCTCTACAGTGGATG 58.744 43.478 0.00 0.00 0.00 3.51
3256 3327 1.094785 GCCACGGTATGTTGCATTCT 58.905 50.000 0.00 0.00 39.01 2.40
3271 3342 6.427150 CGTGTAAATACCATTAGAATGCCAC 58.573 40.000 0.00 0.00 35.08 5.01
3294 3365 0.389166 AAGAGAGGAACGAAGCAGCG 60.389 55.000 0.00 0.00 37.29 5.18
3314 3386 0.036022 GGATAGGCATGCTGGGTCTC 59.964 60.000 18.92 6.21 0.00 3.36
3363 3437 5.471556 TTTCCGCCTAATCCATACGATAA 57.528 39.130 0.00 0.00 0.00 1.75
3367 3441 1.798813 GCTTTCCGCCTAATCCATACG 59.201 52.381 0.00 0.00 0.00 3.06
3380 3454 5.193663 TCATCTCTATGAGAAGCTTTCCG 57.806 43.478 0.00 0.00 42.27 4.30
3431 3505 4.020307 TCACCATGTCTGCTTGAGATAACA 60.020 41.667 0.00 0.00 31.63 2.41
3440 3514 0.036952 CGAGGTCACCATGTCTGCTT 60.037 55.000 0.00 0.00 0.00 3.91
3481 3555 4.955811 TTCTCCACACACACAGAGTAAT 57.044 40.909 0.00 0.00 0.00 1.89
3487 3561 1.334869 GCCTTTTCTCCACACACACAG 59.665 52.381 0.00 0.00 0.00 3.66
3513 3587 6.932356 ATAATGACAGTGGTATTTCAGCAG 57.068 37.500 0.00 0.00 34.69 4.24
3526 3601 7.391554 ACATGCTTGTTCACTTATAATGACAGT 59.608 33.333 0.00 0.00 29.55 3.55
3527 3602 7.755591 ACATGCTTGTTCACTTATAATGACAG 58.244 34.615 0.00 0.00 29.55 3.51
3539 3614 7.216317 GTCGTGATATTTTACATGCTTGTTCAC 59.784 37.037 10.85 14.67 37.28 3.18
3540 3615 7.119116 AGTCGTGATATTTTACATGCTTGTTCA 59.881 33.333 10.85 4.65 37.28 3.18
3571 3646 2.963782 ACTAAGACTAGTAATGGCCCCG 59.036 50.000 0.00 0.00 36.56 5.73
3586 3661 8.041323 CAGACAAGGGAAATAAAGCTACTAAGA 58.959 37.037 0.00 0.00 0.00 2.10
3590 3665 5.940470 CACAGACAAGGGAAATAAAGCTACT 59.060 40.000 0.00 0.00 0.00 2.57
3591 3666 5.705905 ACACAGACAAGGGAAATAAAGCTAC 59.294 40.000 0.00 0.00 0.00 3.58
3594 3669 5.453567 AACACAGACAAGGGAAATAAAGC 57.546 39.130 0.00 0.00 0.00 3.51
3595 3670 9.810545 TTTAAAACACAGACAAGGGAAATAAAG 57.189 29.630 0.00 0.00 0.00 1.85
3600 3675 9.362151 AGATATTTAAAACACAGACAAGGGAAA 57.638 29.630 0.00 0.00 0.00 3.13
3603 3678 7.333423 TCGAGATATTTAAAACACAGACAAGGG 59.667 37.037 0.00 0.00 0.00 3.95
3610 3707 7.950236 AGTTCGTCGAGATATTTAAAACACAG 58.050 34.615 0.00 0.00 0.00 3.66
3627 3724 5.051641 GCTGATATTCCTGTAAAGTTCGTCG 60.052 44.000 0.00 0.00 0.00 5.12
3630 3727 6.535150 TGAAGCTGATATTCCTGTAAAGTTCG 59.465 38.462 0.00 0.00 0.00 3.95
3679 3776 6.758416 TGACATCATCACTGTTGTAAGCTATC 59.242 38.462 0.00 0.00 35.85 2.08
3867 3964 4.096382 ACAAGCCAAACAAACTCTAGTGTG 59.904 41.667 0.00 0.00 39.16 3.82
3891 3992 5.592104 AGGAAAACCAACGTTTCAGATTT 57.408 34.783 0.00 0.00 41.42 2.17
3894 3995 4.218852 ACAAAGGAAAACCAACGTTTCAGA 59.781 37.500 0.00 0.00 41.42 3.27
3923 4024 1.822990 AGGCAATGCTTGATTGGAGTG 59.177 47.619 4.82 0.00 41.74 3.51
3965 4066 2.224378 CCACTCACTGCCTCTTTCTTCA 60.224 50.000 0.00 0.00 0.00 3.02
4031 4132 2.528818 CCTTGTCTGCAGGTCCCCA 61.529 63.158 15.13 0.41 0.00 4.96
4118 4219 6.267817 CAGTACGTTTCGGATATTAGTCCAA 58.732 40.000 0.00 0.00 38.21 3.53
4124 4225 8.339344 TCATATCCAGTACGTTTCGGATATTA 57.661 34.615 20.93 14.75 44.99 0.98
4139 4240 7.310921 CCTCCATATACAGCTTTCATATCCAGT 60.311 40.741 0.00 0.00 0.00 4.00
4151 4252 3.772025 GAGCATACCCTCCATATACAGCT 59.228 47.826 0.00 0.00 0.00 4.24
4262 4364 4.148838 TCATGACCCAAACTTTTTCGGAT 58.851 39.130 0.00 0.00 0.00 4.18
4313 4415 2.285488 GCGCTCAAAGATTACAGGTAGC 59.715 50.000 0.00 0.00 0.00 3.58
4391 4493 1.063616 TCGGCGTGAAGAAGATCGTAG 59.936 52.381 6.85 0.00 0.00 3.51
4427 4529 5.008613 TCAGCAAACATACCTGTTCTTCAAC 59.991 40.000 0.00 0.00 44.83 3.18
4457 4559 4.124238 CGTCAAAGTTCAAGTGAGGGTAA 58.876 43.478 0.00 0.00 0.00 2.85
4482 4584 0.168128 AAGCACGCCGAAAACTATGC 59.832 50.000 0.00 0.00 0.00 3.14
4483 4585 2.413796 TGTAAGCACGCCGAAAACTATG 59.586 45.455 0.00 0.00 0.00 2.23
4530 4632 1.097232 TGCATCTACATTGTGCAGGC 58.903 50.000 0.00 0.00 43.30 4.85
4542 4644 0.984961 AGGCAGGCTCCTTGCATCTA 60.985 55.000 10.79 0.00 45.15 1.98
4554 4656 1.522580 GACCAAGATCGAGGCAGGC 60.523 63.158 6.41 0.00 0.00 4.85
4754 4856 0.040514 TTTGTGCGCCTTGTGATTCG 60.041 50.000 4.18 0.00 0.00 3.34
4755 4857 2.352503 ATTTGTGCGCCTTGTGATTC 57.647 45.000 4.18 0.00 0.00 2.52
4756 4858 2.818130 AATTTGTGCGCCTTGTGATT 57.182 40.000 4.18 0.00 0.00 2.57
4772 4874 8.635765 ACTATGTCTGTACCACATCAAAAATT 57.364 30.769 10.11 0.00 35.95 1.82
4773 4875 8.635765 AACTATGTCTGTACCACATCAAAAAT 57.364 30.769 10.11 0.00 35.95 1.82
4918 5029 0.445436 GCTGGATGCTGTTCAAGACG 59.555 55.000 0.00 0.00 38.95 4.18
4975 5100 0.179009 AACACAGCACAGCACATCCT 60.179 50.000 0.00 0.00 0.00 3.24
4976 5101 0.039798 CAACACAGCACAGCACATCC 60.040 55.000 0.00 0.00 0.00 3.51
4979 5104 0.887247 AAACAACACAGCACAGCACA 59.113 45.000 0.00 0.00 0.00 4.57
4980 5105 1.133025 AGAAACAACACAGCACAGCAC 59.867 47.619 0.00 0.00 0.00 4.40
4981 5106 1.132834 CAGAAACAACACAGCACAGCA 59.867 47.619 0.00 0.00 0.00 4.41
5059 5197 7.341445 ACTCTTCTACATCCTTGTACAGATC 57.659 40.000 0.00 0.00 37.28 2.75
5078 5216 6.757947 CACCAAACAATTGATCAACAACTCTT 59.242 34.615 13.59 0.00 41.52 2.85
5082 5220 4.810491 AGCACCAAACAATTGATCAACAAC 59.190 37.500 13.59 0.00 41.52 3.32
5083 5221 5.021033 AGCACCAAACAATTGATCAACAA 57.979 34.783 13.59 0.00 42.95 2.83
5084 5222 4.669206 AGCACCAAACAATTGATCAACA 57.331 36.364 13.59 0.00 38.94 3.33
5091 5229 5.111293 ACTTTCAGAAGCACCAAACAATTG 58.889 37.500 3.24 3.24 36.29 2.32
5093 5231 5.111293 CAACTTTCAGAAGCACCAAACAAT 58.889 37.500 0.00 0.00 36.29 2.71
5095 5233 3.509575 ACAACTTTCAGAAGCACCAAACA 59.490 39.130 0.00 0.00 36.29 2.83
5099 5237 2.682856 GTCACAACTTTCAGAAGCACCA 59.317 45.455 0.00 0.00 36.29 4.17
5145 5285 2.872245 CAGAAAGCGTCCAAAGTCTTGA 59.128 45.455 0.00 0.00 34.14 3.02
5159 5299 2.223249 TGCACGTCAAACTTCAGAAAGC 60.223 45.455 0.00 0.00 35.81 3.51
5186 5334 4.732784 TGAAACTGAAACTGAAACTGCAC 58.267 39.130 0.00 0.00 0.00 4.57
5271 5419 3.647771 GGGAGGTTGGCTTCCGGT 61.648 66.667 0.00 0.00 41.35 5.28
5296 5444 3.365265 GGTGCGAGCTGGGGTTTG 61.365 66.667 0.00 0.00 0.00 2.93
5297 5445 3.850098 CTGGTGCGAGCTGGGGTTT 62.850 63.158 0.00 0.00 0.00 3.27
5298 5446 4.335647 CTGGTGCGAGCTGGGGTT 62.336 66.667 0.00 0.00 0.00 4.11
5378 5526 1.457455 GGAGAGCAGGAGGAGGAGG 60.457 68.421 0.00 0.00 0.00 4.30
5468 5616 1.318380 GGAGGAGGAGGATGGGGAA 59.682 63.158 0.00 0.00 0.00 3.97
5504 5652 4.517934 TAGAGGAGGGTCGGGGCG 62.518 72.222 0.00 0.00 0.00 6.13
5505 5653 2.838693 GTAGAGGAGGGTCGGGGC 60.839 72.222 0.00 0.00 0.00 5.80
5506 5654 2.518825 CGTAGAGGAGGGTCGGGG 60.519 72.222 0.00 0.00 0.00 5.73
5507 5655 3.217743 GCGTAGAGGAGGGTCGGG 61.218 72.222 0.00 0.00 0.00 5.14
5508 5656 3.584052 CGCGTAGAGGAGGGTCGG 61.584 72.222 0.00 0.00 0.00 4.79
5509 5657 2.821688 GACGCGTAGAGGAGGGTCG 61.822 68.421 13.97 0.00 39.77 4.79
5510 5658 2.821688 CGACGCGTAGAGGAGGGTC 61.822 68.421 13.97 0.00 43.86 4.46
5511 5659 2.823147 CGACGCGTAGAGGAGGGT 60.823 66.667 13.97 0.00 36.21 4.34
5512 5660 3.584052 CCGACGCGTAGAGGAGGG 61.584 72.222 21.43 5.89 0.00 4.30
5513 5661 4.253257 GCCGACGCGTAGAGGAGG 62.253 72.222 25.72 16.98 0.00 4.30
5514 5662 4.253257 GGCCGACGCGTAGAGGAG 62.253 72.222 25.72 9.91 35.02 3.69
5516 5664 4.849329 GTGGCCGACGCGTAGAGG 62.849 72.222 21.43 20.39 35.02 3.69
5530 5678 4.722700 CCTTGGAGGTGCCCGTGG 62.723 72.222 0.00 0.00 34.97 4.94
5535 5683 4.748144 CAGGGCCTTGGAGGTGCC 62.748 72.222 1.32 0.00 44.59 5.01
5536 5684 4.748144 CCAGGGCCTTGGAGGTGC 62.748 72.222 29.70 0.00 40.87 5.01
5537 5685 4.748144 GCCAGGGCCTTGGAGGTG 62.748 72.222 36.65 10.93 40.87 4.00
5616 5764 4.790861 GTCGTCCGGGTCGAAGGC 62.791 72.222 17.50 2.74 39.01 4.35
5617 5765 4.125695 GGTCGTCCGGGTCGAAGG 62.126 72.222 17.50 0.00 39.01 3.46
5618 5766 3.048941 GAGGTCGTCCGGGTCGAAG 62.049 68.421 17.50 0.00 39.01 3.79
5619 5767 3.058160 GAGGTCGTCCGGGTCGAA 61.058 66.667 17.50 0.32 39.01 3.71
5627 5775 4.755507 ACCGAGGGGAGGTCGTCC 62.756 72.222 2.75 2.75 46.10 4.79
5639 5787 4.824515 AGGAGGAGCGGGACCGAG 62.825 72.222 15.99 0.00 42.83 4.63
5643 5791 3.844090 GAGCAGGAGGAGCGGGAC 61.844 72.222 0.00 0.00 37.01 4.46
5646 5794 4.200283 GACGAGCAGGAGGAGCGG 62.200 72.222 0.00 0.00 37.01 5.52
5647 5795 4.200283 GGACGAGCAGGAGGAGCG 62.200 72.222 0.00 0.00 37.01 5.03
5648 5796 2.757917 AGGACGAGCAGGAGGAGC 60.758 66.667 0.00 0.00 0.00 4.70
5649 5797 2.124693 GGAGGACGAGCAGGAGGAG 61.125 68.421 0.00 0.00 0.00 3.69
5650 5798 2.043852 GGAGGACGAGCAGGAGGA 60.044 66.667 0.00 0.00 0.00 3.71
5651 5799 3.151022 GGGAGGACGAGCAGGAGG 61.151 72.222 0.00 0.00 0.00 4.30
5652 5800 3.151022 GGGGAGGACGAGCAGGAG 61.151 72.222 0.00 0.00 0.00 3.69
5653 5801 3.992641 TGGGGAGGACGAGCAGGA 61.993 66.667 0.00 0.00 0.00 3.86
5654 5802 3.775654 GTGGGGAGGACGAGCAGG 61.776 72.222 0.00 0.00 0.00 4.85
5655 5803 3.775654 GGTGGGGAGGACGAGCAG 61.776 72.222 0.00 0.00 0.00 4.24
5658 5806 3.391382 GTGGGTGGGGAGGACGAG 61.391 72.222 0.00 0.00 0.00 4.18
5661 5809 3.703127 GTCGTGGGTGGGGAGGAC 61.703 72.222 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.