Multiple sequence alignment - TraesCS6D01G131900

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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 TraesCS6D01G131900 chr6D 100.000 8735 0 0 1 8735 98033111 98041845 0.000000e+00 16131.0
1 TraesCS6D01G131900 chr6D 92.481 133 9 1 7775 7906 47814026 47813894 1.160000e-43 189.0
2 TraesCS6D01G131900 chr6B 95.250 4084 107 17 1546 5545 183283067 183287147 0.000000e+00 6386.0
3 TraesCS6D01G131900 chr6B 94.277 2184 115 9 5581 7761 183287216 183289392 0.000000e+00 3332.0
4 TraesCS6D01G131900 chr6B 97.547 1549 33 3 1 1545 183281489 183283036 0.000000e+00 2645.0
5 TraesCS6D01G131900 chr6B 87.459 303 33 3 8355 8655 183289813 183290112 2.330000e-90 344.0
6 TraesCS6D01G131900 chr6A 96.241 3086 102 8 4680 7761 117069370 117072445 0.000000e+00 5044.0
7 TraesCS6D01G131900 chr6A 95.649 3172 81 15 43 3170 117058833 117061991 0.000000e+00 5040.0
8 TraesCS6D01G131900 chr6A 96.946 1539 25 5 3167 4686 117062276 117063811 0.000000e+00 2562.0
9 TraesCS6D01G131900 chr6A 89.980 499 34 11 8010 8503 117097354 117097841 1.600000e-176 630.0
10 TraesCS6D01G131900 chr6A 91.463 246 21 0 8490 8735 117097873 117098118 1.090000e-88 339.0
11 TraesCS6D01G131900 chr6A 94.118 85 5 0 7913 7997 117072554 117072638 7.120000e-26 130.0
12 TraesCS6D01G131900 chr6A 92.500 40 3 0 1 40 117058775 117058814 3.410000e-04 58.4
13 TraesCS6D01G131900 chr6A 100.000 30 0 0 8403 8432 563706555 563706526 1.000000e-03 56.5
14 TraesCS6D01G131900 chr7A 77.872 1541 321 17 6197 7736 425775910 425774389 0.000000e+00 939.0
15 TraesCS6D01G131900 chr7A 87.811 402 47 1 5146 5545 425776958 425776557 3.690000e-128 470.0
16 TraesCS6D01G131900 chr7A 80.998 621 91 15 2703 3298 425778938 425778320 1.330000e-127 468.0
17 TraesCS6D01G131900 chr7A 85.260 346 48 2 3359 3704 425778299 425777957 3.880000e-93 353.0
18 TraesCS6D01G131900 chr7A 85.034 294 33 10 4673 4962 425777748 425777462 1.110000e-73 289.0
19 TraesCS6D01G131900 chr7A 87.083 240 16 3 406 636 364004507 364004740 3.130000e-64 257.0
20 TraesCS6D01G131900 chr4B 89.513 534 39 6 175 705 654700735 654701254 0.000000e+00 660.0
21 TraesCS6D01G131900 chr4A 89.205 528 39 7 181 705 658036077 658035565 2.060000e-180 643.0
22 TraesCS6D01G131900 chr4A 84.416 308 32 3 406 704 472929103 472928803 1.110000e-73 289.0
23 TraesCS6D01G131900 chr4A 84.153 183 21 4 524 706 692653624 692653450 4.190000e-38 171.0
24 TraesCS6D01G131900 chr7D 81.672 622 86 17 2703 3298 378161239 378160620 7.880000e-135 492.0
25 TraesCS6D01G131900 chr7D 88.060 402 46 1 5146 5545 378159253 378158852 7.930000e-130 475.0
26 TraesCS6D01G131900 chr7D 84.971 346 49 2 3359 3704 378160599 378160257 1.800000e-91 348.0
27 TraesCS6D01G131900 chr7D 86.022 279 33 6 4688 4962 378160033 378159757 2.380000e-75 294.0
28 TraesCS6D01G131900 chr7D 93.939 132 7 1 7775 7905 106775664 106775533 1.920000e-46 198.0
29 TraesCS6D01G131900 chr7D 92.481 133 9 1 7775 7906 472731959 472732091 1.160000e-43 189.0
30 TraesCS6D01G131900 chr3B 86.768 461 31 8 245 704 528693930 528693499 3.670000e-133 486.0
31 TraesCS6D01G131900 chr1D 86.609 463 34 14 245 704 10431448 10431011 3.670000e-133 486.0
32 TraesCS6D01G131900 chr1D 87.764 237 16 7 245 479 4677268 4677043 1.870000e-66 265.0
33 TraesCS6D01G131900 chr4D 86.207 464 35 10 245 704 15854732 15854294 7.930000e-130 475.0
34 TraesCS6D01G131900 chr4D 93.233 133 8 1 7775 7906 504434809 504434677 2.490000e-45 195.0
35 TraesCS6D01G131900 chr4D 91.667 132 9 2 7775 7905 10410947 10410817 1.940000e-41 182.0
36 TraesCS6D01G131900 chr7B 81.029 622 90 17 2703 3298 372825112 372824493 3.690000e-128 470.0
37 TraesCS6D01G131900 chr7B 87.204 422 36 7 245 664 511946906 511947311 1.720000e-126 464.0
38 TraesCS6D01G131900 chr7B 85.748 428 59 1 5146 5571 372823126 372822699 1.340000e-122 451.0
39 TraesCS6D01G131900 chr7B 85.663 279 34 6 4688 4962 372823906 372823630 1.110000e-73 289.0
40 TraesCS6D01G131900 chr5D 93.939 132 6 2 7775 7905 518827732 518827602 1.920000e-46 198.0
41 TraesCS6D01G131900 chr1A 93.182 132 8 1 7775 7905 219374734 219374603 8.950000e-45 193.0
42 TraesCS6D01G131900 chr2D 92.424 132 9 1 7775 7905 466722984 466722853 4.160000e-43 187.0
43 TraesCS6D01G131900 chr3D 91.729 133 9 2 7775 7906 579026561 579026430 5.390000e-42 183.0
44 TraesCS6D01G131900 chr2B 85.882 85 12 0 8651 8735 194633685 194633601 3.360000e-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 TraesCS6D01G131900 chr6D 98033111 98041845 8734 False 16131.000000 16131 100.000000 1 8735 1 chr6D.!!$F1 8734
1 TraesCS6D01G131900 chr6B 183281489 183290112 8623 False 3176.750000 6386 93.633250 1 8655 4 chr6B.!!$F1 8654
2 TraesCS6D01G131900 chr6A 117069370 117072638 3268 False 2587.000000 5044 95.179500 4680 7997 2 chr6A.!!$F2 3317
3 TraesCS6D01G131900 chr6A 117058775 117063811 5036 False 2553.466667 5040 95.031667 1 4686 3 chr6A.!!$F1 4685
4 TraesCS6D01G131900 chr6A 117097354 117098118 764 False 484.500000 630 90.721500 8010 8735 2 chr6A.!!$F3 725
5 TraesCS6D01G131900 chr7A 425774389 425778938 4549 True 503.800000 939 83.395000 2703 7736 5 chr7A.!!$R1 5033
6 TraesCS6D01G131900 chr4B 654700735 654701254 519 False 660.000000 660 89.513000 175 705 1 chr4B.!!$F1 530
7 TraesCS6D01G131900 chr4A 658035565 658036077 512 True 643.000000 643 89.205000 181 705 1 chr4A.!!$R2 524
8 TraesCS6D01G131900 chr7D 378158852 378161239 2387 True 402.250000 492 85.181250 2703 5545 4 chr7D.!!$R2 2842
9 TraesCS6D01G131900 chr7B 372822699 372825112 2413 True 403.333333 470 84.146667 2703 5571 3 chr7B.!!$R1 2868

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
925 949 2.154462 CTTGTACCTGGAACCAAGCTG 58.846 52.381 0.00 0.00 0.00 4.24 F
1796 1854 0.178903 TCAGTGGGGCCTAAGTCACT 60.179 55.000 0.84 4.86 40.62 3.41 F
2485 2594 1.198408 ACAAATGACACGCATGCAGAG 59.802 47.619 19.57 11.46 37.28 3.35 F
2561 2670 2.108514 CACCGCGAACATCATGGCT 61.109 57.895 8.23 0.00 0.00 4.75 F
2821 2935 3.641436 TGCTCTCTCTGTTAGTTGTTCCA 59.359 43.478 0.00 0.00 0.00 3.53 F
4592 5037 4.180057 GTCAAACAGAACCAATTGTTGCA 58.820 39.130 4.43 0.00 37.57 4.08 F
5584 6395 1.001974 CATCACAAGAGTTCCCCGTGA 59.998 52.381 0.00 0.00 40.59 4.35 F
5587 6398 0.834612 ACAAGAGTTCCCCGTGACAA 59.165 50.000 0.00 0.00 0.00 3.18 F
6525 7392 1.052124 ACGTCTCCACTTCCCACCAA 61.052 55.000 0.00 0.00 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2519 2628 0.468226 AGTCGGTGTCAAAAGCTCCA 59.532 50.000 0.00 0.00 0.00 3.86 R
2821 2935 1.615392 GCTCCAACCACAAGAAGCATT 59.385 47.619 0.00 0.00 0.00 3.56 R
3892 4317 1.961277 GGCACAACAGAGGACACCG 60.961 63.158 0.00 0.00 0.00 4.94 R
4432 4877 3.881089 CTCTATTCTGGCATCATGTTGCA 59.119 43.478 25.80 13.55 44.59 4.08 R
4639 5085 7.909641 ACACCGTATTACAAACACAAGTAAAAC 59.090 33.333 0.00 0.00 34.27 2.43 R
5587 6398 0.729116 CACAGCGCCGATTCATCTTT 59.271 50.000 2.29 0.00 0.00 2.52 R
6888 7755 0.729690 TGATCTGCGTCTCTCTGTCG 59.270 55.000 0.00 0.00 0.00 4.35 R
6900 7767 0.866427 CATCCAGCACGATGATCTGC 59.134 55.000 7.13 8.25 41.92 4.26 R
7860 8727 0.179067 CCAAATAGCGGCGGACCTTA 60.179 55.000 9.78 0.00 0.00 2.69 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
80 97 2.613977 GGATCTATCAAGGCATGGACCG 60.614 54.545 0.00 0.00 33.69 4.79
248 266 9.472361 CTGAAGATTGTGATTTTGTTCAGAAAT 57.528 29.630 3.60 0.00 41.16 2.17
401 423 8.559536 GCAGCAGTAAACTATATATGCTCAAAA 58.440 33.333 3.76 0.00 41.80 2.44
417 441 4.032104 GCTCAAAAAGCCTCAAATTATGCG 59.968 41.667 0.00 0.00 45.92 4.73
522 546 3.255149 GCCATCATATCAGGAGGCAAAAG 59.745 47.826 0.00 0.00 41.63 2.27
555 579 2.668625 GTAGGGTTAGGGGACTCTGAG 58.331 57.143 2.45 2.45 43.67 3.35
637 661 5.221501 ACAAAGATGGTTACAGCAGCAAAAT 60.222 36.000 0.00 0.00 33.97 1.82
925 949 2.154462 CTTGTACCTGGAACCAAGCTG 58.846 52.381 0.00 0.00 0.00 4.24
1017 1043 4.219288 GCATTCATGGAAGAAAAGGACTGT 59.781 41.667 0.00 0.00 0.00 3.55
1102 1128 5.259632 CTGATGAACCTTTCCCATTCTTCT 58.740 41.667 0.00 0.00 31.28 2.85
1506 1532 6.310711 CCTCTTCTAACTTTGCTAGTTTACCG 59.689 42.308 9.53 0.07 44.73 4.02
1796 1854 0.178903 TCAGTGGGGCCTAAGTCACT 60.179 55.000 0.84 4.86 40.62 3.41
1997 2055 6.869388 GGCCCGTTAAAATTTTCAGTGATAAA 59.131 34.615 6.72 2.22 0.00 1.40
2067 2125 2.178912 TTTAGGTGGTTCGGCTGAAG 57.821 50.000 8.61 0.00 33.98 3.02
2295 2387 8.792633 TGATAATAAAAGCGGGGAATTTCATAG 58.207 33.333 0.00 0.00 0.00 2.23
2485 2594 1.198408 ACAAATGACACGCATGCAGAG 59.802 47.619 19.57 11.46 37.28 3.35
2519 2628 5.105146 GGGATCAGTACTCAGTCAAGATGTT 60.105 44.000 0.00 0.00 0.00 2.71
2561 2670 2.108514 CACCGCGAACATCATGGCT 61.109 57.895 8.23 0.00 0.00 4.75
2636 2745 5.809464 TCAGTTTGCATGTTATAGCATTCG 58.191 37.500 0.00 0.00 40.94 3.34
2821 2935 3.641436 TGCTCTCTCTGTTAGTTGTTCCA 59.359 43.478 0.00 0.00 0.00 3.53
2964 3078 8.703336 GTTTTGTTAGAAGTAAGTAGGTTACCG 58.297 37.037 0.00 0.00 41.96 4.02
3277 3702 6.019801 CGGTGCAATGTAATACTGAGAACTAC 60.020 42.308 0.00 0.00 0.00 2.73
3691 4116 5.713389 TCTTTGGTTCAGAGGTTCTACGATA 59.287 40.000 0.00 0.00 0.00 2.92
3712 4137 6.368243 CGATACTATGTCAGGTACACGTCTAT 59.632 42.308 0.00 0.00 42.09 1.98
3892 4317 5.178061 CAATCCCCCTTTTGCTATGAAAAC 58.822 41.667 0.00 0.00 0.00 2.43
4592 5037 4.180057 GTCAAACAGAACCAATTGTTGCA 58.820 39.130 4.43 0.00 37.57 4.08
4870 5316 5.574055 CAGCTAATGTGCACACCTTTATTTG 59.426 40.000 24.37 13.12 34.99 2.32
4935 5384 4.402155 TCACAAAGCAAGGACAGTGAAAAT 59.598 37.500 0.00 0.00 33.55 1.82
5433 6207 4.037923 GGAACTCACAAAGAATTGCTGGAA 59.962 41.667 0.00 0.00 40.34 3.53
5545 6321 8.956533 TGCATGCTTCTTTACACTGTATAATA 57.043 30.769 20.33 0.00 0.00 0.98
5571 6347 5.834742 CCCCTTATCAAATCCATCATCACAA 59.165 40.000 0.00 0.00 0.00 3.33
5572 6348 6.015688 CCCCTTATCAAATCCATCATCACAAG 60.016 42.308 0.00 0.00 0.00 3.16
5573 6349 6.774170 CCCTTATCAAATCCATCATCACAAGA 59.226 38.462 0.00 0.00 0.00 3.02
5574 6350 7.040617 CCCTTATCAAATCCATCATCACAAGAG 60.041 40.741 0.00 0.00 0.00 2.85
5575 6351 7.501559 CCTTATCAAATCCATCATCACAAGAGT 59.498 37.037 0.00 0.00 0.00 3.24
5577 6353 6.748333 TCAAATCCATCATCACAAGAGTTC 57.252 37.500 0.00 0.00 0.00 3.01
5578 6354 5.649395 TCAAATCCATCATCACAAGAGTTCC 59.351 40.000 0.00 0.00 0.00 3.62
5579 6355 3.634397 TCCATCATCACAAGAGTTCCC 57.366 47.619 0.00 0.00 0.00 3.97
5580 6356 2.239654 TCCATCATCACAAGAGTTCCCC 59.760 50.000 0.00 0.00 0.00 4.81
5584 6395 1.001974 CATCACAAGAGTTCCCCGTGA 59.998 52.381 0.00 0.00 40.59 4.35
5587 6398 0.834612 ACAAGAGTTCCCCGTGACAA 59.165 50.000 0.00 0.00 0.00 3.18
5897 6763 2.457366 AAGTTCTGCTGGGTTCTACG 57.543 50.000 0.00 0.00 0.00 3.51
6132 6998 3.679980 CCTCTTTTCAGGTATGACACACG 59.320 47.826 0.00 0.00 34.35 4.49
6133 6999 3.064207 TCTTTTCAGGTATGACACACGC 58.936 45.455 0.00 0.00 34.35 5.34
6134 7000 2.535012 TTTCAGGTATGACACACGCA 57.465 45.000 0.00 0.00 34.35 5.24
6169 7035 2.508887 CTCTCTCGCCAGCTGCAC 60.509 66.667 8.66 0.95 41.33 4.57
6203 7069 4.457949 GGTAAATGGACGGTCATTGTCTTT 59.542 41.667 10.76 3.03 37.42 2.52
6525 7392 1.052124 ACGTCTCCACTTCCCACCAA 61.052 55.000 0.00 0.00 0.00 3.67
6777 7644 2.788786 GGCGACATTTGAAAACTGTGTG 59.211 45.455 0.00 0.00 0.00 3.82
6861 7728 4.451150 GTCATGTCGGCCCTCGCA 62.451 66.667 0.00 0.00 39.05 5.10
6864 7731 4.457496 ATGTCGGCCCTCGCAGTG 62.457 66.667 0.00 0.00 39.05 3.66
6888 7755 1.880340 CCCTGCGCTCGACATTCTC 60.880 63.158 9.73 0.00 0.00 2.87
6906 7773 1.010580 TCGACAGAGAGACGCAGATC 58.989 55.000 0.00 0.00 35.39 2.75
6907 7774 0.729690 CGACAGAGAGACGCAGATCA 59.270 55.000 0.00 0.00 0.00 2.92
6908 7775 1.333308 CGACAGAGAGACGCAGATCAT 59.667 52.381 0.00 0.00 0.00 2.45
6909 7776 2.601979 CGACAGAGAGACGCAGATCATC 60.602 54.545 0.00 0.00 0.00 2.92
6914 7781 0.248825 GAGACGCAGATCATCGTGCT 60.249 55.000 15.37 11.99 39.22 4.40
7243 8110 1.351017 TCCTGTTCAACCTGTCCATCC 59.649 52.381 0.00 0.00 0.00 3.51
7255 8122 2.124293 TCCATCCGGGAGAACATCG 58.876 57.895 0.00 0.00 42.15 3.84
7383 8250 1.377856 GGACAAAGGGAGCCAGCTC 60.378 63.158 11.28 11.28 42.04 4.09
7648 8515 2.710724 GAAAGGTGCGGTGGTCGAGT 62.711 60.000 0.00 0.00 42.43 4.18
7749 8616 6.294176 CGAAGGACTGATTTTCTTTTCATGGT 60.294 38.462 0.00 0.00 0.00 3.55
7751 8618 6.986250 AGGACTGATTTTCTTTTCATGGTTC 58.014 36.000 0.00 0.00 0.00 3.62
7761 8628 9.519191 TTTTCTTTTCATGGTTCTCTGATATGA 57.481 29.630 0.00 0.00 0.00 2.15
7763 8630 7.050377 TCTTTTCATGGTTCTCTGATATGACC 58.950 38.462 0.00 0.00 0.00 4.02
7764 8631 5.955961 TTCATGGTTCTCTGATATGACCA 57.044 39.130 0.00 0.00 0.00 4.02
7765 8632 5.955961 TCATGGTTCTCTGATATGACCAA 57.044 39.130 0.00 0.00 0.00 3.67
7766 8633 6.505048 TCATGGTTCTCTGATATGACCAAT 57.495 37.500 0.00 0.00 0.00 3.16
7768 8635 5.698741 TGGTTCTCTGATATGACCAATGT 57.301 39.130 0.00 0.00 0.00 2.71
7769 8636 6.065976 TGGTTCTCTGATATGACCAATGTT 57.934 37.500 0.00 0.00 0.00 2.71
7773 8640 8.956426 GGTTCTCTGATATGACCAATGTTTTAA 58.044 33.333 0.00 0.00 0.00 1.52
7779 8646 9.683069 CTGATATGACCAATGTTTTAAATAGCC 57.317 33.333 0.00 0.00 0.00 3.93
7780 8647 9.194972 TGATATGACCAATGTTTTAAATAGCCA 57.805 29.630 0.00 0.00 0.00 4.75
7781 8648 9.463443 GATATGACCAATGTTTTAAATAGCCAC 57.537 33.333 0.00 0.00 0.00 5.01
7782 8649 6.909550 TGACCAATGTTTTAAATAGCCACT 57.090 33.333 0.00 0.00 0.00 4.00
7784 8651 8.588290 TGACCAATGTTTTAAATAGCCACTAT 57.412 30.769 0.00 0.00 0.00 2.12
7785 8652 9.688091 TGACCAATGTTTTAAATAGCCACTATA 57.312 29.630 0.00 0.00 0.00 1.31
7802 8669 7.039363 AGCCACTATATAGCCTTTTCACTAGAG 60.039 40.741 9.78 0.00 0.00 2.43
7804 8671 8.085296 CCACTATATAGCCTTTTCACTAGAGTG 58.915 40.741 9.78 3.12 46.91 3.51
7805 8672 7.596995 CACTATATAGCCTTTTCACTAGAGTGC 59.403 40.741 9.78 0.00 45.25 4.40
7808 8675 1.079503 CCTTTTCACTAGAGTGCCGC 58.920 55.000 4.72 0.00 45.25 6.53
7809 8676 1.338200 CCTTTTCACTAGAGTGCCGCT 60.338 52.381 4.72 0.00 45.25 5.52
7810 8677 2.094182 CCTTTTCACTAGAGTGCCGCTA 60.094 50.000 4.72 0.00 45.25 4.26
7811 8678 3.585862 CTTTTCACTAGAGTGCCGCTAA 58.414 45.455 4.72 0.00 45.25 3.09
7813 8680 3.887621 TTCACTAGAGTGCCGCTAAAT 57.112 42.857 4.72 0.00 45.25 1.40
7814 8681 3.165058 TCACTAGAGTGCCGCTAAATG 57.835 47.619 4.72 0.00 45.25 2.32
7815 8682 2.159099 TCACTAGAGTGCCGCTAAATGG 60.159 50.000 4.72 0.00 45.25 3.16
7816 8683 1.831736 ACTAGAGTGCCGCTAAATGGT 59.168 47.619 0.00 0.00 0.00 3.55
7817 8684 2.159085 ACTAGAGTGCCGCTAAATGGTC 60.159 50.000 0.00 0.00 0.00 4.02
7818 8685 0.107654 AGAGTGCCGCTAAATGGTCC 60.108 55.000 0.00 0.00 0.00 4.46
7819 8686 1.077716 AGTGCCGCTAAATGGTCCC 60.078 57.895 0.00 0.00 0.00 4.46
7820 8687 1.377987 GTGCCGCTAAATGGTCCCA 60.378 57.895 0.00 0.00 0.00 4.37
7822 8689 0.751277 TGCCGCTAAATGGTCCCATG 60.751 55.000 0.00 0.00 36.68 3.66
7824 8691 1.476110 GCCGCTAAATGGTCCCATGTA 60.476 52.381 0.00 0.00 36.68 2.29
7825 8692 2.218603 CCGCTAAATGGTCCCATGTAC 58.781 52.381 0.00 0.00 36.68 2.90
7826 8693 2.420827 CCGCTAAATGGTCCCATGTACA 60.421 50.000 0.00 0.00 36.68 2.90
7827 8694 3.275143 CGCTAAATGGTCCCATGTACAA 58.725 45.455 0.00 0.00 36.68 2.41
7828 8695 3.692101 CGCTAAATGGTCCCATGTACAAA 59.308 43.478 0.00 0.00 36.68 2.83
7829 8696 4.338118 CGCTAAATGGTCCCATGTACAAAT 59.662 41.667 0.00 0.00 36.68 2.32
7830 8697 5.529430 CGCTAAATGGTCCCATGTACAAATA 59.471 40.000 0.00 0.00 36.68 1.40
7831 8698 6.293407 CGCTAAATGGTCCCATGTACAAATAG 60.293 42.308 0.00 0.00 36.68 1.73
7832 8699 5.852282 AAATGGTCCCATGTACAAATAGC 57.148 39.130 0.00 0.00 36.68 2.97
7833 8700 3.290948 TGGTCCCATGTACAAATAGCC 57.709 47.619 0.00 0.85 0.00 3.93
7834 8701 2.092103 TGGTCCCATGTACAAATAGCCC 60.092 50.000 0.00 0.00 0.00 5.19
7835 8702 2.218603 GTCCCATGTACAAATAGCCCG 58.781 52.381 0.00 0.00 0.00 6.13
7836 8703 0.951558 CCCATGTACAAATAGCCCGC 59.048 55.000 0.00 0.00 0.00 6.13
7837 8704 1.476833 CCCATGTACAAATAGCCCGCT 60.477 52.381 0.00 0.00 0.00 5.52
7838 8705 2.224426 CCCATGTACAAATAGCCCGCTA 60.224 50.000 0.00 0.00 0.00 4.26
7839 8706 3.559171 CCCATGTACAAATAGCCCGCTAT 60.559 47.826 0.00 3.31 40.63 2.97
7840 8707 4.323180 CCCATGTACAAATAGCCCGCTATA 60.323 45.833 9.56 0.00 38.20 1.31
7842 8709 3.921677 TGTACAAATAGCCCGCTATAGC 58.078 45.455 15.09 15.09 38.20 2.97
7869 8736 4.152580 GCTATAGCTGATTTTAAGGTCCGC 59.847 45.833 17.75 0.00 38.21 5.54
7870 8737 1.751437 AGCTGATTTTAAGGTCCGCC 58.249 50.000 0.00 0.00 0.00 6.13
7871 8738 0.377203 GCTGATTTTAAGGTCCGCCG 59.623 55.000 0.00 0.00 40.50 6.46
7872 8739 0.377203 CTGATTTTAAGGTCCGCCGC 59.623 55.000 0.00 0.00 40.50 6.53
7873 8740 0.035820 TGATTTTAAGGTCCGCCGCT 60.036 50.000 0.00 0.00 40.50 5.52
7874 8741 1.207570 TGATTTTAAGGTCCGCCGCTA 59.792 47.619 0.00 0.00 40.50 4.26
7875 8742 2.158871 TGATTTTAAGGTCCGCCGCTAT 60.159 45.455 0.00 0.00 40.50 2.97
7876 8743 2.406596 TTTTAAGGTCCGCCGCTATT 57.593 45.000 0.00 0.00 40.50 1.73
7877 8744 2.406596 TTTAAGGTCCGCCGCTATTT 57.593 45.000 0.00 0.00 40.50 1.40
7878 8745 1.658994 TTAAGGTCCGCCGCTATTTG 58.341 50.000 0.00 0.00 40.50 2.32
7879 8746 0.179067 TAAGGTCCGCCGCTATTTGG 60.179 55.000 0.00 0.00 40.50 3.28
7901 8768 4.927422 GCAATAGCCCGCTATTTAAAACA 58.073 39.130 17.30 0.00 44.18 2.83
7902 8769 5.528870 GCAATAGCCCGCTATTTAAAACAT 58.471 37.500 17.30 0.00 44.18 2.71
7903 8770 5.983118 GCAATAGCCCGCTATTTAAAACATT 59.017 36.000 17.30 0.00 44.18 2.71
7904 8771 6.074356 GCAATAGCCCGCTATTTAAAACATTG 60.074 38.462 17.30 8.45 44.18 2.82
7905 8772 4.385358 AGCCCGCTATTTAAAACATTGG 57.615 40.909 0.00 0.00 0.00 3.16
7906 8773 4.020543 AGCCCGCTATTTAAAACATTGGA 58.979 39.130 0.00 0.00 0.00 3.53
7907 8774 4.649218 AGCCCGCTATTTAAAACATTGGAT 59.351 37.500 0.00 0.00 0.00 3.41
7908 8775 5.830991 AGCCCGCTATTTAAAACATTGGATA 59.169 36.000 0.00 0.00 0.00 2.59
7909 8776 6.493458 AGCCCGCTATTTAAAACATTGGATAT 59.507 34.615 0.00 0.00 0.00 1.63
7910 8777 6.586082 GCCCGCTATTTAAAACATTGGATATG 59.414 38.462 0.00 0.00 0.00 1.78
7911 8778 7.523052 GCCCGCTATTTAAAACATTGGATATGA 60.523 37.037 0.00 0.00 0.00 2.15
7914 8781 9.385902 CGCTATTTAAAACATTGGATATGACTG 57.614 33.333 0.00 0.00 0.00 3.51
7933 8800 3.132289 ACTGAGTTTCGGTCTTGTCTTGA 59.868 43.478 0.00 0.00 27.61 3.02
8017 8888 6.757010 CCCTGTATGCCGACTCATATATTTAC 59.243 42.308 0.00 0.00 32.24 2.01
8036 8907 3.578272 GTGTCAACCGCGGTGCAA 61.578 61.111 34.95 17.81 0.00 4.08
8054 8925 2.867647 GCAATGGAAAGTTCAAGTGGGC 60.868 50.000 0.00 0.00 27.40 5.36
8055 8926 2.629617 CAATGGAAAGTTCAAGTGGGCT 59.370 45.455 0.00 0.00 0.00 5.19
8057 8928 0.315251 GGAAAGTTCAAGTGGGCTGC 59.685 55.000 0.00 0.00 0.00 5.25
8110 9036 4.597507 ACTTACATCCAAACTCCAAGAGGA 59.402 41.667 0.00 0.00 43.21 3.71
8162 9088 6.978343 TCCAGTTACAGTTATATTGTGCAC 57.022 37.500 10.75 10.75 0.00 4.57
8163 9089 5.579119 TCCAGTTACAGTTATATTGTGCACG 59.421 40.000 13.13 0.00 0.00 5.34
8166 9092 2.985896 ACAGTTATATTGTGCACGGCT 58.014 42.857 13.13 1.40 0.00 5.52
8167 9093 2.936498 ACAGTTATATTGTGCACGGCTC 59.064 45.455 13.13 0.00 0.00 4.70
8168 9094 2.287915 CAGTTATATTGTGCACGGCTCC 59.712 50.000 13.13 0.00 0.00 4.70
8170 9096 2.526304 TATATTGTGCACGGCTCCTC 57.474 50.000 13.13 0.00 0.00 3.71
8172 9098 0.175760 TATTGTGCACGGCTCCTCTC 59.824 55.000 13.13 0.00 0.00 3.20
8175 9101 1.446966 GTGCACGGCTCCTCTCTTC 60.447 63.158 0.00 0.00 0.00 2.87
8176 9102 1.607756 TGCACGGCTCCTCTCTTCT 60.608 57.895 0.00 0.00 0.00 2.85
8177 9103 1.140804 GCACGGCTCCTCTCTTCTC 59.859 63.158 0.00 0.00 0.00 2.87
8178 9104 1.431440 CACGGCTCCTCTCTTCTCG 59.569 63.158 0.00 0.00 0.00 4.04
8179 9105 1.027255 CACGGCTCCTCTCTTCTCGA 61.027 60.000 0.00 0.00 0.00 4.04
8180 9106 0.322636 ACGGCTCCTCTCTTCTCGAA 60.323 55.000 0.00 0.00 0.00 3.71
8181 9107 0.811915 CGGCTCCTCTCTTCTCGAAA 59.188 55.000 0.00 0.00 0.00 3.46
8182 9108 1.202582 CGGCTCCTCTCTTCTCGAAAA 59.797 52.381 0.00 0.00 0.00 2.29
8183 9109 2.159170 CGGCTCCTCTCTTCTCGAAAAT 60.159 50.000 0.00 0.00 0.00 1.82
8184 9110 3.453424 GGCTCCTCTCTTCTCGAAAATC 58.547 50.000 0.00 0.00 0.00 2.17
8187 9113 4.442753 GCTCCTCTCTTCTCGAAAATCCAT 60.443 45.833 0.00 0.00 0.00 3.41
8234 9211 0.761187 TGGCTAGGGACATCATCTGC 59.239 55.000 0.00 0.00 0.00 4.26
8262 9240 1.484356 ATCGTCCGCGCAAGTTATAC 58.516 50.000 8.75 0.00 41.68 1.47
8326 9304 0.036010 CATGACACACACCCCTCTCC 60.036 60.000 0.00 0.00 0.00 3.71
8329 9307 0.896940 GACACACACCCCTCTCCGTA 60.897 60.000 0.00 0.00 0.00 4.02
8396 9375 3.004326 GCGGCATGTTGGCAATGGA 62.004 57.895 1.92 0.00 43.94 3.41
8477 9456 3.070734 CCAATCCTGGGATCTCTACTGTG 59.929 52.174 2.31 0.00 39.30 3.66
8504 9529 7.719193 TGGTGAATCAGAAAACAGAGTTATTGA 59.281 33.333 0.00 0.00 0.00 2.57
8622 9647 9.277783 GCTGAAGTATTATTATGGTGACTGAAT 57.722 33.333 0.00 0.00 0.00 2.57
8634 9659 5.359756 TGGTGACTGAATAGGATGATTTCG 58.640 41.667 0.00 0.00 0.00 3.46
8676 9701 3.979948 TCGTTGTCGGTATTGTTCTTCA 58.020 40.909 0.00 0.00 37.69 3.02
8681 9706 6.534934 GTTGTCGGTATTGTTCTTCATTCTC 58.465 40.000 0.00 0.00 0.00 2.87
8696 9721 3.435327 TCATTCTCGTTGAAATGTTCCGG 59.565 43.478 0.00 0.00 38.29 5.14
8702 9727 1.818674 GTTGAAATGTTCCGGCATCCT 59.181 47.619 0.00 0.00 0.00 3.24
8708 9733 1.144057 GTTCCGGCATCCTCGTGAT 59.856 57.895 0.00 0.00 0.00 3.06
8723 9748 5.008712 TCCTCGTGATGTAGTCATATGTGTC 59.991 44.000 1.90 0.00 39.48 3.67
8727 9752 4.747108 GTGATGTAGTCATATGTGTCTGGC 59.253 45.833 1.90 0.52 39.48 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 3.686016 TCCATAAAGAACTTGCCACCTC 58.314 45.455 0.00 0.00 0.00 3.85
80 97 3.885297 ACTATGCATCCTAAACATGCCAC 59.115 43.478 0.19 0.00 45.25 5.01
179 197 1.972872 AGGACAGTTGGAAGCAACAG 58.027 50.000 0.00 0.00 37.52 3.16
248 266 2.972713 AGCAGGTGGTTTACTCTCAGAA 59.027 45.455 0.00 0.00 0.00 3.02
406 430 4.458989 GGGAATATCTGGCGCATAATTTGA 59.541 41.667 10.83 0.00 0.00 2.69
417 441 1.490490 TGGTGACTGGGAATATCTGGC 59.510 52.381 0.00 0.00 0.00 4.85
522 546 5.416639 CCCTAACCCTACCAATTAAACACAC 59.583 44.000 0.00 0.00 0.00 3.82
555 579 5.873146 AAACTACTGCCTAGGATCTTACC 57.127 43.478 14.75 0.00 0.00 2.85
637 661 7.613801 ACCACTGTAAAATACAAAGCATGGATA 59.386 33.333 0.00 0.00 38.38 2.59
833 857 6.886459 ACAGCATGAAACCAGATAACAATAGT 59.114 34.615 0.00 0.00 39.69 2.12
837 861 5.123820 GCTACAGCATGAAACCAGATAACAA 59.876 40.000 0.00 0.00 39.69 2.83
865 889 8.786826 TGTTACTCTCAAGGTTTATATGTTGG 57.213 34.615 0.00 0.00 0.00 3.77
925 949 7.126726 ACACGAGTGATATATAGTAACCGAC 57.873 40.000 10.50 0.00 0.00 4.79
1017 1043 2.352388 GGTTTGAATGATTCGACGGGA 58.648 47.619 0.18 0.00 0.00 5.14
1089 1115 1.076024 AGCAGGCAGAAGAATGGGAAA 59.924 47.619 0.00 0.00 0.00 3.13
1548 1604 7.602517 ACTGTGAAATAGTTTAGCTCATCAC 57.397 36.000 0.00 0.00 32.90 3.06
1679 1736 7.609760 TCCACTGTAACTAGCATTAATGTTG 57.390 36.000 16.61 9.47 0.00 3.33
1685 1743 7.602644 CAGAAGTTTCCACTGTAACTAGCATTA 59.397 37.037 0.00 0.00 31.69 1.90
1689 1747 5.298347 ACAGAAGTTTCCACTGTAACTAGC 58.702 41.667 0.00 0.00 42.01 3.42
1743 1801 4.155099 CACCTGGATGTTACGCACATTTTA 59.845 41.667 0.00 0.00 46.96 1.52
1997 2055 4.021192 ACATTTCAATCTGCCCGAAATTGT 60.021 37.500 0.00 0.00 37.28 2.71
2295 2387 8.950208 AAGAGTTAAATAGAGATTGGTGCTAC 57.050 34.615 0.00 0.00 0.00 3.58
2485 2594 3.177228 AGTACTGATCCCAGATATGCCC 58.823 50.000 0.00 0.00 43.02 5.36
2519 2628 0.468226 AGTCGGTGTCAAAAGCTCCA 59.532 50.000 0.00 0.00 0.00 3.86
2561 2670 3.684305 CGCTCATGTGATTAGTTGTTCCA 59.316 43.478 0.00 0.00 0.00 3.53
2821 2935 1.615392 GCTCCAACCACAAGAAGCATT 59.385 47.619 0.00 0.00 0.00 3.56
3277 3702 8.043113 TGCCAGTATGATATATTGCTAGAAAGG 58.957 37.037 0.00 0.00 39.69 3.11
3691 4116 5.296283 GTCATAGACGTGTACCTGACATAGT 59.704 44.000 17.10 0.00 41.14 2.12
3712 4137 3.447944 TGTGCGGTGTTAGGTATATGTCA 59.552 43.478 0.00 0.00 0.00 3.58
3892 4317 1.961277 GGCACAACAGAGGACACCG 60.961 63.158 0.00 0.00 0.00 4.94
4399 4844 8.410912 ACAACTTAAGTATGTTCAAAGGGTTTC 58.589 33.333 8.92 0.00 0.00 2.78
4432 4877 3.881089 CTCTATTCTGGCATCATGTTGCA 59.119 43.478 25.80 13.55 44.59 4.08
4631 5077 9.930693 TTACAAACACAAGTAAAACCTGAAAAT 57.069 25.926 0.00 0.00 0.00 1.82
4639 5085 7.909641 ACACCGTATTACAAACACAAGTAAAAC 59.090 33.333 0.00 0.00 34.27 2.43
4870 5316 5.195001 TGAGTATTGGTTTGGAAGTTTGC 57.805 39.130 0.00 0.00 0.00 3.68
5433 6207 5.057149 ACACTCGAGTAGAATGCACTTTTT 58.943 37.500 19.57 0.00 27.16 1.94
5545 6321 6.183361 TGTGATGATGGATTTGATAAGGGGAT 60.183 38.462 0.00 0.00 0.00 3.85
5571 6347 1.766496 TCTTTTGTCACGGGGAACTCT 59.234 47.619 0.00 0.00 0.00 3.24
5572 6348 2.249844 TCTTTTGTCACGGGGAACTC 57.750 50.000 0.00 0.00 0.00 3.01
5573 6349 2.105821 TCATCTTTTGTCACGGGGAACT 59.894 45.455 0.00 0.00 0.00 3.01
5574 6350 2.500229 TCATCTTTTGTCACGGGGAAC 58.500 47.619 0.00 0.00 0.00 3.62
5575 6351 2.940994 TCATCTTTTGTCACGGGGAA 57.059 45.000 0.00 0.00 0.00 3.97
5577 6353 2.095853 CGATTCATCTTTTGTCACGGGG 59.904 50.000 0.00 0.00 0.00 5.73
5578 6354 2.095853 CCGATTCATCTTTTGTCACGGG 59.904 50.000 0.00 0.00 34.38 5.28
5579 6355 2.476185 GCCGATTCATCTTTTGTCACGG 60.476 50.000 0.00 0.00 37.76 4.94
5580 6356 2.774007 GCCGATTCATCTTTTGTCACG 58.226 47.619 0.00 0.00 0.00 4.35
5584 6395 1.131126 CAGCGCCGATTCATCTTTTGT 59.869 47.619 2.29 0.00 0.00 2.83
5587 6398 0.729116 CACAGCGCCGATTCATCTTT 59.271 50.000 2.29 0.00 0.00 2.52
5664 6517 2.928116 GTGAGTGCGTTGTACCCTTATC 59.072 50.000 0.00 0.00 0.00 1.75
5897 6763 2.436292 CCAGAGACTGCTGCTGCC 60.436 66.667 13.47 0.00 38.71 4.85
5971 6837 2.223923 ACTATTCTCTGCGCATCTGTCC 60.224 50.000 12.24 0.00 0.00 4.02
6132 6998 2.484264 AGCCAAAACTCTATGTTCGTGC 59.516 45.455 0.00 0.00 38.03 5.34
6133 6999 3.997021 AGAGCCAAAACTCTATGTTCGTG 59.003 43.478 0.00 0.00 45.25 4.35
6134 7000 4.273148 AGAGCCAAAACTCTATGTTCGT 57.727 40.909 0.00 0.00 45.25 3.85
6169 7035 3.865745 CGTCCATTTACCTCTGTGCTAAG 59.134 47.826 0.00 0.00 0.00 2.18
6180 7046 3.606687 AGACAATGACCGTCCATTTACC 58.393 45.455 0.00 0.00 34.77 2.85
6203 7069 6.711277 AGCAAAGAGAGATGGTGTTACATTA 58.289 36.000 0.00 0.00 0.00 1.90
6252 7119 2.420642 GGTTCTTCGAACCAACCTACC 58.579 52.381 20.31 6.82 40.03 3.18
6297 7164 2.202810 TCGCTGACAACACGTGCA 60.203 55.556 17.22 4.29 0.00 4.57
6508 7375 2.230660 CTTTTGGTGGGAAGTGGAGAC 58.769 52.381 0.00 0.00 0.00 3.36
6525 7392 0.901124 AGGTGAGCGAGATGAGCTTT 59.099 50.000 0.00 0.00 46.13 3.51
6777 7644 1.138047 CGAACGTCTGGTATGACCGC 61.138 60.000 0.00 0.00 42.58 5.68
6888 7755 0.729690 TGATCTGCGTCTCTCTGTCG 59.270 55.000 0.00 0.00 0.00 4.35
6897 7764 1.485838 CCAGCACGATGATCTGCGTC 61.486 60.000 9.86 6.43 38.92 5.19
6900 7767 0.866427 CATCCAGCACGATGATCTGC 59.134 55.000 7.13 8.25 41.92 4.26
6906 7773 3.758715 TGGTACATCCAGCACGATG 57.241 52.632 10.55 10.55 44.38 3.84
6914 7781 2.037902 TGAGACGCTTTTGGTACATCCA 59.962 45.455 0.00 0.00 45.60 3.41
7221 8088 2.566833 TGGACAGGTTGAACAGGATG 57.433 50.000 0.00 0.00 46.00 3.51
7243 8110 1.299165 CGTAGCCGATGTTCTCCCG 60.299 63.158 0.00 0.00 35.63 5.14
7255 8122 3.497031 GCCTTCGTTGCCGTAGCC 61.497 66.667 0.00 0.00 38.69 3.93
7648 8515 2.046023 CGTCTCATGGCTGCCCAA 60.046 61.111 17.53 0.00 46.14 4.12
7683 8550 0.734942 ACATCCGCGAGTAAACACCG 60.735 55.000 8.23 0.00 0.00 4.94
7773 8640 7.978925 AGTGAAAAGGCTATATAGTGGCTATT 58.021 34.615 11.38 0.60 38.14 1.73
7775 8642 6.996180 AGTGAAAAGGCTATATAGTGGCTA 57.004 37.500 11.38 0.00 38.14 3.93
7776 8643 5.896073 AGTGAAAAGGCTATATAGTGGCT 57.104 39.130 11.38 2.17 40.91 4.75
7777 8644 6.994221 TCTAGTGAAAAGGCTATATAGTGGC 58.006 40.000 11.38 0.00 0.00 5.01
7778 8645 8.184304 ACTCTAGTGAAAAGGCTATATAGTGG 57.816 38.462 11.38 0.00 0.00 4.00
7796 8663 1.831736 ACCATTTAGCGGCACTCTAGT 59.168 47.619 1.45 0.00 0.00 2.57
7802 8669 0.751643 ATGGGACCATTTAGCGGCAC 60.752 55.000 1.45 0.00 31.82 5.01
7804 8671 0.751643 ACATGGGACCATTTAGCGGC 60.752 55.000 0.00 0.00 33.90 6.53
7805 8672 2.218603 GTACATGGGACCATTTAGCGG 58.781 52.381 0.00 0.00 33.90 5.52
7808 8675 6.016276 GGCTATTTGTACATGGGACCATTTAG 60.016 42.308 0.00 0.00 33.90 1.85
7809 8676 5.830991 GGCTATTTGTACATGGGACCATTTA 59.169 40.000 0.00 0.00 33.90 1.40
7810 8677 4.649218 GGCTATTTGTACATGGGACCATTT 59.351 41.667 0.00 0.00 33.90 2.32
7811 8678 4.215109 GGCTATTTGTACATGGGACCATT 58.785 43.478 0.00 0.00 33.90 3.16
7813 8680 2.092103 GGGCTATTTGTACATGGGACCA 60.092 50.000 0.00 0.00 0.00 4.02
7814 8681 2.583143 GGGCTATTTGTACATGGGACC 58.417 52.381 0.00 0.00 0.00 4.46
7815 8682 2.218603 CGGGCTATTTGTACATGGGAC 58.781 52.381 0.00 0.00 0.00 4.46
7816 8683 1.476110 GCGGGCTATTTGTACATGGGA 60.476 52.381 0.00 0.00 0.00 4.37
7817 8684 0.951558 GCGGGCTATTTGTACATGGG 59.048 55.000 0.00 0.00 0.00 4.00
7818 8685 1.967319 AGCGGGCTATTTGTACATGG 58.033 50.000 0.00 0.00 0.00 3.66
7819 8686 4.330074 GCTATAGCGGGCTATTTGTACATG 59.670 45.833 17.49 0.00 39.65 3.21
7820 8687 4.504858 GCTATAGCGGGCTATTTGTACAT 58.495 43.478 17.49 0.00 39.65 2.29
7846 8713 4.152580 GCGGACCTTAAAATCAGCTATAGC 59.847 45.833 17.33 17.33 42.49 2.97
7847 8714 4.691216 GGCGGACCTTAAAATCAGCTATAG 59.309 45.833 9.54 0.00 36.44 1.31
7850 8717 2.740580 CGGCGGACCTTAAAATCAGCTA 60.741 50.000 0.00 0.00 36.44 3.32
7851 8718 1.751437 GGCGGACCTTAAAATCAGCT 58.249 50.000 9.54 0.00 36.44 4.24
7852 8719 0.377203 CGGCGGACCTTAAAATCAGC 59.623 55.000 0.00 3.14 35.57 4.26
7853 8720 0.377203 GCGGCGGACCTTAAAATCAG 59.623 55.000 9.78 0.00 0.00 2.90
7855 8722 1.944032 TAGCGGCGGACCTTAAAATC 58.056 50.000 9.78 0.00 0.00 2.17
7856 8723 2.632987 ATAGCGGCGGACCTTAAAAT 57.367 45.000 9.78 0.00 0.00 1.82
7857 8724 2.406596 AATAGCGGCGGACCTTAAAA 57.593 45.000 9.78 0.00 0.00 1.52
7858 8725 2.011222 CAAATAGCGGCGGACCTTAAA 58.989 47.619 9.78 0.00 0.00 1.52
7859 8726 1.658994 CAAATAGCGGCGGACCTTAA 58.341 50.000 9.78 0.00 0.00 1.85
7860 8727 0.179067 CCAAATAGCGGCGGACCTTA 60.179 55.000 9.78 0.00 0.00 2.69
7862 8729 2.189521 CCAAATAGCGGCGGACCT 59.810 61.111 9.78 0.00 0.00 3.85
7863 8730 3.583086 GCCAAATAGCGGCGGACC 61.583 66.667 9.78 0.00 40.35 4.46
7879 8746 4.927422 TGTTTTAAATAGCGGGCTATTGC 58.073 39.130 22.61 12.89 45.37 3.56
7880 8747 6.420604 CCAATGTTTTAAATAGCGGGCTATTG 59.579 38.462 22.61 11.73 45.37 1.90
7882 8749 5.830991 TCCAATGTTTTAAATAGCGGGCTAT 59.169 36.000 7.36 7.36 40.63 2.97
7883 8750 5.194432 TCCAATGTTTTAAATAGCGGGCTA 58.806 37.500 2.42 2.42 0.00 3.93
7884 8751 4.020543 TCCAATGTTTTAAATAGCGGGCT 58.979 39.130 0.00 0.00 0.00 5.19
7885 8752 4.379339 TCCAATGTTTTAAATAGCGGGC 57.621 40.909 0.00 0.00 0.00 6.13
7886 8753 7.807907 GTCATATCCAATGTTTTAAATAGCGGG 59.192 37.037 0.00 0.00 0.00 6.13
7887 8754 8.567948 AGTCATATCCAATGTTTTAAATAGCGG 58.432 33.333 0.00 0.00 0.00 5.52
7888 8755 9.385902 CAGTCATATCCAATGTTTTAAATAGCG 57.614 33.333 0.00 0.00 0.00 4.26
7895 8762 8.664798 CGAAACTCAGTCATATCCAATGTTTTA 58.335 33.333 0.00 0.00 0.00 1.52
7896 8763 7.362056 CCGAAACTCAGTCATATCCAATGTTTT 60.362 37.037 0.00 0.00 0.00 2.43
7897 8764 6.094048 CCGAAACTCAGTCATATCCAATGTTT 59.906 38.462 0.00 0.00 0.00 2.83
7898 8765 5.586243 CCGAAACTCAGTCATATCCAATGTT 59.414 40.000 0.00 0.00 0.00 2.71
7899 8766 5.118990 CCGAAACTCAGTCATATCCAATGT 58.881 41.667 0.00 0.00 0.00 2.71
7900 8767 5.118990 ACCGAAACTCAGTCATATCCAATG 58.881 41.667 0.00 0.00 0.00 2.82
7901 8768 5.129485 AGACCGAAACTCAGTCATATCCAAT 59.871 40.000 0.00 0.00 32.82 3.16
7902 8769 4.466370 AGACCGAAACTCAGTCATATCCAA 59.534 41.667 0.00 0.00 32.82 3.53
7903 8770 4.023980 AGACCGAAACTCAGTCATATCCA 58.976 43.478 0.00 0.00 32.82 3.41
7904 8771 4.657436 AGACCGAAACTCAGTCATATCC 57.343 45.455 0.00 0.00 32.82 2.59
7905 8772 5.411781 ACAAGACCGAAACTCAGTCATATC 58.588 41.667 0.00 0.00 32.82 1.63
7906 8773 5.186021 AGACAAGACCGAAACTCAGTCATAT 59.814 40.000 0.00 0.00 32.82 1.78
7907 8774 4.523173 AGACAAGACCGAAACTCAGTCATA 59.477 41.667 0.00 0.00 32.82 2.15
7908 8775 3.322254 AGACAAGACCGAAACTCAGTCAT 59.678 43.478 0.00 0.00 32.82 3.06
7909 8776 2.693591 AGACAAGACCGAAACTCAGTCA 59.306 45.455 0.00 0.00 32.82 3.41
7910 8777 3.372660 AGACAAGACCGAAACTCAGTC 57.627 47.619 0.00 0.00 0.00 3.51
7911 8778 3.132289 TCAAGACAAGACCGAAACTCAGT 59.868 43.478 0.00 0.00 0.00 3.41
7914 8781 3.433615 CCATCAAGACAAGACCGAAACTC 59.566 47.826 0.00 0.00 0.00 3.01
7933 8800 1.610379 GGGCTGCAAGTTTCCCCAT 60.610 57.895 0.50 0.00 33.23 4.00
8036 8907 2.242043 CAGCCCACTTGAACTTTCCAT 58.758 47.619 0.00 0.00 0.00 3.41
8054 8925 2.985282 TGAAAGCGGGGCAAGCAG 60.985 61.111 6.23 0.00 37.01 4.24
8055 8926 2.974692 TTCTGAAAGCGGGGCAAGCA 62.975 55.000 6.23 0.00 37.01 3.91
8057 8928 0.673437 TTTTCTGAAAGCGGGGCAAG 59.327 50.000 2.75 0.00 0.00 4.01
8162 9088 0.811915 TTTCGAGAAGAGAGGAGCCG 59.188 55.000 0.00 0.00 0.00 5.52
8163 9089 3.453424 GATTTTCGAGAAGAGAGGAGCC 58.547 50.000 0.00 0.00 0.00 4.70
8166 9092 5.894393 AGTATGGATTTTCGAGAAGAGAGGA 59.106 40.000 0.00 0.00 0.00 3.71
8167 9093 6.155475 AGTATGGATTTTCGAGAAGAGAGG 57.845 41.667 0.00 0.00 0.00 3.69
8168 9094 7.488322 AGAAGTATGGATTTTCGAGAAGAGAG 58.512 38.462 0.00 0.00 0.00 3.20
8170 9096 6.699642 GGAGAAGTATGGATTTTCGAGAAGAG 59.300 42.308 0.00 0.00 0.00 2.85
8172 9098 6.341316 TGGAGAAGTATGGATTTTCGAGAAG 58.659 40.000 0.00 0.00 0.00 2.85
8175 9101 8.715998 CATATTGGAGAAGTATGGATTTTCGAG 58.284 37.037 0.00 0.00 0.00 4.04
8176 9102 7.661437 CCATATTGGAGAAGTATGGATTTTCGA 59.339 37.037 4.97 0.00 44.90 3.71
8177 9103 7.661437 TCCATATTGGAGAAGTATGGATTTTCG 59.339 37.037 8.78 0.00 45.39 3.46
8178 9104 8.924511 TCCATATTGGAGAAGTATGGATTTTC 57.075 34.615 8.78 0.00 45.39 2.29
8234 9211 2.230940 CGCGGACGATAACTGCTGG 61.231 63.158 0.00 0.00 43.93 4.85
8282 9260 5.416952 ACAGCAAGGAATAGTTGGATTTCTG 59.583 40.000 0.00 0.00 0.00 3.02
8293 9271 4.093998 GTGTGTCATGACAGCAAGGAATAG 59.906 45.833 28.54 0.00 42.74 1.73
8326 9304 2.682856 CACATCACCCCTTTCCAATACG 59.317 50.000 0.00 0.00 0.00 3.06
8329 9307 1.273211 CCCACATCACCCCTTTCCAAT 60.273 52.381 0.00 0.00 0.00 3.16
8396 9375 9.844257 CTATCTTCCCAAAATCTCACTAATCTT 57.156 33.333 0.00 0.00 0.00 2.40
8477 9456 5.757850 AACTCTGTTTTCTGATTCACCAC 57.242 39.130 0.00 0.00 0.00 4.16
8504 9529 2.108075 TGAAGTCCAACCCACACATCAT 59.892 45.455 0.00 0.00 0.00 2.45
8615 9640 8.867935 CATATGACGAAATCATCCTATTCAGTC 58.132 37.037 0.00 0.00 45.52 3.51
8656 9681 4.921470 ATGAAGAACAATACCGACAACG 57.079 40.909 0.00 0.00 39.43 4.10
8676 9701 2.161609 GCCGGAACATTTCAACGAGAAT 59.838 45.455 5.05 0.00 35.83 2.40
8681 9706 1.467374 GGATGCCGGAACATTTCAACG 60.467 52.381 5.05 0.00 0.00 4.10
8702 9727 5.221048 CCAGACACATATGACTACATCACGA 60.221 44.000 10.38 0.00 41.24 4.35
8708 9733 3.103742 TGGCCAGACACATATGACTACA 58.896 45.455 10.38 3.85 29.20 2.74


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

AutoCloner maintained by Alex Coulton.