Multiple sequence alignment - TraesCS5B01G371700

Loading Multiple Alignment...

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 TraesCS5B01G371700 chr5B 100.000 3289 0 0 1 3289 550218226 550214938 0.000000e+00 6074.0
1 TraesCS5B01G371700 chr5B 98.158 543 10 0 1 543 550222574 550222032 0.000000e+00 948.0
2 TraesCS5B01G371700 chr5B 84.713 785 70 24 1657 2428 711725656 711724909 0.000000e+00 739.0
3 TraesCS5B01G371700 chr5B 86.164 477 59 4 985 1458 711726132 711725660 2.930000e-140 508.0
4 TraesCS5B01G371700 chr5B 88.462 208 22 2 629 835 550224593 550224387 1.960000e-62 250.0
5 TraesCS5B01G371700 chr5B 89.431 123 9 1 2268 2386 712900630 712900508 5.680000e-33 152.0
6 TraesCS5B01G371700 chr5B 86.301 73 7 3 2929 2999 603648259 603648330 3.520000e-10 76.8
7 TraesCS5B01G371700 chr5B 96.970 33 1 0 2236 2268 550215535 550215503 4.580000e-04 56.5
8 TraesCS5B01G371700 chr5B 96.970 33 1 0 2692 2724 550215991 550215959 4.580000e-04 56.5
9 TraesCS5B01G371700 chr5D 93.738 1629 81 9 558 2167 450205446 450203820 0.000000e+00 2423.0
10 TraesCS5B01G371700 chr5D 87.669 1403 123 24 984 2361 562533803 562532426 0.000000e+00 1587.0
11 TraesCS5B01G371700 chr5D 91.429 455 39 0 1674 2128 561806668 561806214 2.790000e-175 625.0
12 TraesCS5B01G371700 chr5D 91.435 432 15 7 2268 2695 450203780 450203367 1.020000e-159 573.0
13 TraesCS5B01G371700 chr5D 81.870 524 48 18 1954 2461 561806262 561805770 6.610000e-107 398.0
14 TraesCS5B01G371700 chr5D 89.716 282 19 4 3012 3289 450202115 450201840 5.220000e-93 351.0
15 TraesCS5B01G371700 chr5D 88.679 106 10 1 561 666 562947336 562947439 9.580000e-26 128.0
16 TraesCS5B01G371700 chr5D 88.679 106 10 1 561 666 563001176 563001073 9.580000e-26 128.0
17 TraesCS5B01G371700 chr5D 93.976 83 5 0 2878 2960 450202202 450202120 3.450000e-25 126.0
18 TraesCS5B01G371700 chr5A 92.819 1685 96 9 559 2223 569545352 569543673 0.000000e+00 2418.0
19 TraesCS5B01G371700 chr5A 86.010 193 4 4 2268 2460 569543654 569543485 5.600000e-43 185.0
20 TraesCS5B01G371700 chr7B 86.494 1429 139 31 969 2373 120916 122314 0.000000e+00 1520.0
21 TraesCS5B01G371700 chr7B 85.818 1382 150 18 1025 2390 1148040 1149391 0.000000e+00 1424.0
22 TraesCS5B01G371700 chr7B 85.960 1339 146 16 1064 2390 1017580 1018888 0.000000e+00 1393.0
23 TraesCS5B01G371700 chr7B 96.468 538 14 4 1 537 287928682 287929215 0.000000e+00 883.0
24 TraesCS5B01G371700 chr7B 93.220 59 4 0 2955 3013 506497810 506497868 1.630000e-13 87.9
25 TraesCS5B01G371700 chr4B 96.324 544 18 2 1 543 136742481 136741939 0.000000e+00 893.0
26 TraesCS5B01G371700 chr4A 96.317 543 20 0 1 543 652703651 652703109 0.000000e+00 893.0
27 TraesCS5B01G371700 chrUn 96.133 543 21 0 1 543 142683679 142683137 0.000000e+00 887.0
28 TraesCS5B01G371700 chrUn 95.795 547 21 2 1 546 60463283 60463828 0.000000e+00 881.0
29 TraesCS5B01G371700 chr1B 96.140 544 18 3 1 543 619405768 619406309 0.000000e+00 885.0
30 TraesCS5B01G371700 chr1B 95.963 545 20 2 1 544 619411281 619411824 0.000000e+00 883.0
31 TraesCS5B01G371700 chr6D 95.963 545 18 4 1 543 332800532 332799990 0.000000e+00 881.0
32 TraesCS5B01G371700 chr2B 84.685 333 48 2 1354 1686 390364548 390364219 2.450000e-86 329.0
33 TraesCS5B01G371700 chr2A 84.084 333 50 2 1354 1686 409437406 409437735 5.300000e-83 318.0
34 TraesCS5B01G371700 chr2D 83.784 333 51 2 1354 1686 322124111 322123782 2.460000e-81 313.0
35 TraesCS5B01G371700 chr6A 98.246 57 1 0 2961 3017 517650268 517650212 2.090000e-17 100.0
36 TraesCS5B01G371700 chr1A 96.667 60 2 0 2954 3013 83824903 83824962 2.090000e-17 100.0
37 TraesCS5B01G371700 chr6B 94.915 59 3 0 2959 3017 7144801 7144743 3.490000e-15 93.5
38 TraesCS5B01G371700 chr3A 94.828 58 1 2 2945 3002 736118038 736118093 4.520000e-14 89.8
39 TraesCS5B01G371700 chr3D 91.803 61 4 1 2943 3002 414368686 414368746 2.100000e-12 84.2
40 TraesCS5B01G371700 chr3B 90.625 64 5 1 2954 3017 486812420 486812358 2.100000e-12 84.2
41 TraesCS5B01G371700 chr1D 90.625 64 4 1 2940 3003 320727889 320727828 2.100000e-12 84.2


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 TraesCS5B01G371700 chr5B 550214938 550218226 3288 True 2062.333333 6074 97.98000 1 3289 3 chr5B.!!$R2 3288
1 TraesCS5B01G371700 chr5B 711724909 711726132 1223 True 623.500000 739 85.43850 985 2428 2 chr5B.!!$R4 1443
2 TraesCS5B01G371700 chr5B 550222032 550224593 2561 True 599.000000 948 93.31000 1 835 2 chr5B.!!$R3 834
3 TraesCS5B01G371700 chr5D 562532426 562533803 1377 True 1587.000000 1587 87.66900 984 2361 1 chr5D.!!$R1 1377
4 TraesCS5B01G371700 chr5D 450201840 450205446 3606 True 868.250000 2423 92.21625 558 3289 4 chr5D.!!$R3 2731
5 TraesCS5B01G371700 chr5D 561805770 561806668 898 True 511.500000 625 86.64950 1674 2461 2 chr5D.!!$R4 787
6 TraesCS5B01G371700 chr5A 569543485 569545352 1867 True 1301.500000 2418 89.41450 559 2460 2 chr5A.!!$R1 1901
7 TraesCS5B01G371700 chr7B 120916 122314 1398 False 1520.000000 1520 86.49400 969 2373 1 chr7B.!!$F1 1404
8 TraesCS5B01G371700 chr7B 1148040 1149391 1351 False 1424.000000 1424 85.81800 1025 2390 1 chr7B.!!$F3 1365
9 TraesCS5B01G371700 chr7B 1017580 1018888 1308 False 1393.000000 1393 85.96000 1064 2390 1 chr7B.!!$F2 1326
10 TraesCS5B01G371700 chr7B 287928682 287929215 533 False 883.000000 883 96.46800 1 537 1 chr7B.!!$F4 536
11 TraesCS5B01G371700 chr4B 136741939 136742481 542 True 893.000000 893 96.32400 1 543 1 chr4B.!!$R1 542
12 TraesCS5B01G371700 chr4A 652703109 652703651 542 True 893.000000 893 96.31700 1 543 1 chr4A.!!$R1 542
13 TraesCS5B01G371700 chrUn 142683137 142683679 542 True 887.000000 887 96.13300 1 543 1 chrUn.!!$R1 542
14 TraesCS5B01G371700 chrUn 60463283 60463828 545 False 881.000000 881 95.79500 1 546 1 chrUn.!!$F1 545
15 TraesCS5B01G371700 chr1B 619405768 619406309 541 False 885.000000 885 96.14000 1 543 1 chr1B.!!$F1 542
16 TraesCS5B01G371700 chr1B 619411281 619411824 543 False 883.000000 883 95.96300 1 544 1 chr1B.!!$F2 543
17 TraesCS5B01G371700 chr6D 332799990 332800532 542 True 881.000000 881 95.96300 1 543 1 chr6D.!!$R1 542

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
879 2913 0.687354 ATTTCAGCCCAGTCGACAGT 59.313 50.0 19.5 0.0 0.0 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2783 5668 0.178918 AGGTATGGAGGGAGCTAGGC 60.179 60.0 0.0 0.0 0.0 3.93 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
225 2245 3.549827 GCCGATTGAACAACACACAATCA 60.550 43.478 15.77 0.00 45.50 2.57
379 2402 4.530857 GCAGCCCATAGCCGTCGT 62.531 66.667 0.00 0.00 45.47 4.34
546 2570 2.538737 CGTGTTCGTGTGCAAACAGAAT 60.539 45.455 8.00 0.00 36.14 2.40
547 2571 2.783284 GTGTTCGTGTGCAAACAGAATG 59.217 45.455 8.00 0.00 46.00 2.67
548 2572 1.780860 GTTCGTGTGCAAACAGAATGC 59.219 47.619 8.00 0.00 42.53 3.56
657 2681 6.419791 TCAAACGTATTTTATCCCTGGATGT 58.580 36.000 8.97 0.00 36.17 3.06
685 2709 6.073276 CGACAAAGTTTGACAAGATACATCCA 60.073 38.462 22.23 0.00 0.00 3.41
745 2777 5.599732 AGACAAGAAGCATGAGCACTATAG 58.400 41.667 0.00 0.00 45.49 1.31
749 2781 5.822132 AGAAGCATGAGCACTATAGGAAT 57.178 39.130 4.43 0.00 45.49 3.01
782 2814 7.067129 TGCTCTCTGTCGACAAGTAAAGTATAT 59.933 37.037 20.49 0.00 0.00 0.86
879 2913 0.687354 ATTTCAGCCCAGTCGACAGT 59.313 50.000 19.50 0.00 0.00 3.55
929 2969 3.494254 TTCGTGGGGTGGCCACTT 61.494 61.111 33.91 0.00 36.18 3.16
1018 3058 1.531149 CAGTTTGTACACCAAGAGCGG 59.469 52.381 0.00 0.00 33.75 5.52
1089 3139 2.124942 GCTCCTCTTCTTGGCGGG 60.125 66.667 0.00 0.00 0.00 6.13
1413 3463 1.380302 GTGGGTGCCAGAACCTCAT 59.620 57.895 0.00 0.00 40.35 2.90
1527 3577 1.202915 TGATTGTGCTCTCAAGGGCAA 60.203 47.619 6.06 0.00 40.26 4.52
1534 3584 0.695347 CTCTCAAGGGCAAGGTTCCT 59.305 55.000 0.00 0.00 34.29 3.36
1558 3608 5.244402 TGAATGGTTGTCTCAATGCAAGAAT 59.756 36.000 0.00 0.00 0.00 2.40
1624 3674 0.527817 CGTCGTGGATTGGTAGGCTC 60.528 60.000 0.00 0.00 0.00 4.70
1795 3845 0.521242 GCCGACAACTTAAGCATGCG 60.521 55.000 13.01 9.72 0.00 4.73
2089 4265 2.746904 TGGGAGCAACAATGTTGTATCG 59.253 45.455 24.71 2.20 41.31 2.92
2179 4363 9.143155 TGAGGTTAATGACTCATAGCATAAGTA 57.857 33.333 0.00 0.00 38.71 2.24
2224 4411 5.245977 TCCATGTTGACAGAAGATGTACTCA 59.754 40.000 0.00 0.00 44.17 3.41
2228 4415 6.333416 TGTTGACAGAAGATGTACTCATAGC 58.667 40.000 0.00 0.00 44.17 2.97
2229 4416 6.071391 TGTTGACAGAAGATGTACTCATAGCA 60.071 38.462 0.00 0.00 44.17 3.49
2230 4417 6.721704 TGACAGAAGATGTACTCATAGCAT 57.278 37.500 0.00 0.00 44.17 3.79
2231 4418 7.823745 TGACAGAAGATGTACTCATAGCATA 57.176 36.000 0.00 0.00 44.17 3.14
2232 4419 8.237811 TGACAGAAGATGTACTCATAGCATAA 57.762 34.615 0.00 0.00 44.17 1.90
2235 4422 9.355916 ACAGAAGATGTACTCATAGCATAAGTA 57.644 33.333 0.00 0.00 41.60 2.24
2240 4427 9.920133 AGATGTACTCATAGCATAAGTATGTTG 57.080 33.333 0.00 0.00 33.88 3.33
2241 4428 7.946655 TGTACTCATAGCATAAGTATGTTGC 57.053 36.000 0.00 0.00 36.11 4.17
2242 4429 6.929049 TGTACTCATAGCATAAGTATGTTGCC 59.071 38.462 0.00 0.00 37.07 4.52
2243 4430 4.991056 ACTCATAGCATAAGTATGTTGCCG 59.009 41.667 0.54 0.00 37.07 5.69
2245 4432 4.988540 TCATAGCATAAGTATGTTGCCGAC 59.011 41.667 0.54 0.00 37.07 4.79
2246 4433 2.561569 AGCATAAGTATGTTGCCGACC 58.438 47.619 0.54 0.00 37.07 4.79
2247 4434 2.093181 AGCATAAGTATGTTGCCGACCA 60.093 45.455 0.54 0.00 37.07 4.02
2248 4435 2.031683 GCATAAGTATGTTGCCGACCAC 59.968 50.000 0.54 0.00 36.11 4.16
2249 4436 3.266636 CATAAGTATGTTGCCGACCACA 58.733 45.455 0.00 0.00 0.00 4.17
2250 4437 2.489938 AAGTATGTTGCCGACCACAT 57.510 45.000 0.00 0.00 0.00 3.21
2251 4438 3.620427 AAGTATGTTGCCGACCACATA 57.380 42.857 0.00 0.00 0.00 2.29
2252 4439 3.838244 AGTATGTTGCCGACCACATAT 57.162 42.857 0.00 0.00 0.00 1.78
2253 4440 3.466836 AGTATGTTGCCGACCACATATG 58.533 45.455 0.00 0.00 0.00 1.78
2380 4592 9.095700 TGTATGTATGTATGTATGTATGTGGGT 57.904 33.333 0.00 0.00 0.00 4.51
2461 4673 5.846203 TCACAGGGTACTTTACTTACACAC 58.154 41.667 0.00 0.00 0.00 3.82
2481 4693 1.838077 CGTCCTCTTCCCTGGGTTATT 59.162 52.381 13.56 0.00 0.00 1.40
2482 4694 3.036091 CGTCCTCTTCCCTGGGTTATTA 58.964 50.000 13.56 0.00 0.00 0.98
2483 4695 3.181468 CGTCCTCTTCCCTGGGTTATTAC 60.181 52.174 13.56 4.90 0.00 1.89
2498 4711 8.921353 TGGGTTATTACTACTTTGCTACAAAA 57.079 30.769 0.00 0.00 0.00 2.44
2505 4718 3.011949 ACTTTGCTACAAAACCATGCG 57.988 42.857 0.00 0.00 0.00 4.73
2511 4724 0.600557 TACAAAACCATGCGGGCTTG 59.399 50.000 7.64 7.64 42.05 4.01
2546 4759 3.008704 ACGGCTTGGTAGAATTAGTTGGT 59.991 43.478 0.00 0.00 0.00 3.67
2547 4760 3.374058 CGGCTTGGTAGAATTAGTTGGTG 59.626 47.826 0.00 0.00 0.00 4.17
2548 4761 4.332828 GGCTTGGTAGAATTAGTTGGTGT 58.667 43.478 0.00 0.00 0.00 4.16
2549 4762 5.493809 GGCTTGGTAGAATTAGTTGGTGTA 58.506 41.667 0.00 0.00 0.00 2.90
2550 4763 5.941647 GGCTTGGTAGAATTAGTTGGTGTAA 59.058 40.000 0.00 0.00 0.00 2.41
2551 4764 6.093633 GGCTTGGTAGAATTAGTTGGTGTAAG 59.906 42.308 0.00 0.00 0.00 2.34
2564 4777 6.342111 AGTTGGTGTAAGCTAGCTTAAGATC 58.658 40.000 33.21 23.85 39.82 2.75
2586 4799 1.207329 CTTAAGAAGTGTCGGGAGGGG 59.793 57.143 0.00 0.00 0.00 4.79
2661 4874 2.086869 ACGCCTTCATTCATTCACAGG 58.913 47.619 0.00 0.00 0.00 4.00
2667 4880 2.114670 ATTCATTCACAGGCGGGCG 61.115 57.895 0.00 0.00 0.00 6.13
2695 4908 5.371526 CAAGCAATAGTAGTGATGGATGGT 58.628 41.667 0.88 0.00 0.00 3.55
2696 4909 4.965814 AGCAATAGTAGTGATGGATGGTG 58.034 43.478 0.88 0.00 0.00 4.17
2697 4910 3.499918 GCAATAGTAGTGATGGATGGTGC 59.500 47.826 0.88 0.00 0.00 5.01
2698 4911 4.067896 CAATAGTAGTGATGGATGGTGCC 58.932 47.826 0.00 0.00 0.00 5.01
2699 4912 0.465705 AGTAGTGATGGATGGTGCCG 59.534 55.000 0.00 0.00 0.00 5.69
2700 4913 0.464036 GTAGTGATGGATGGTGCCGA 59.536 55.000 0.00 0.00 0.00 5.54
2701 4914 0.464036 TAGTGATGGATGGTGCCGAC 59.536 55.000 0.00 0.00 0.00 4.79
2725 4938 7.396540 CCACATATGGCCTCTAATATTTTCC 57.603 40.000 3.32 0.00 39.82 3.13
2728 4941 9.028284 CACATATGGCCTCTAATATTTTCCATT 57.972 33.333 3.32 0.00 34.91 3.16
2729 4942 9.605951 ACATATGGCCTCTAATATTTTCCATTT 57.394 29.630 3.32 0.00 34.91 2.32
2730 4943 9.865321 CATATGGCCTCTAATATTTTCCATTTG 57.135 33.333 3.32 2.72 34.91 2.32
2731 4944 7.919385 ATGGCCTCTAATATTTTCCATTTGT 57.081 32.000 3.32 0.00 29.31 2.83
2733 4946 6.894654 TGGCCTCTAATATTTTCCATTTGTGA 59.105 34.615 3.32 0.00 0.00 3.58
2734 4947 7.147915 TGGCCTCTAATATTTTCCATTTGTGAC 60.148 37.037 3.32 0.00 0.00 3.67
2735 4948 7.203218 GCCTCTAATATTTTCCATTTGTGACC 58.797 38.462 0.00 0.00 0.00 4.02
2736 4949 7.417612 CCTCTAATATTTTCCATTTGTGACCG 58.582 38.462 0.00 0.00 0.00 4.79
2737 4950 7.282224 CCTCTAATATTTTCCATTTGTGACCGA 59.718 37.037 0.00 0.00 0.00 4.69
2738 4951 8.568676 TCTAATATTTTCCATTTGTGACCGAA 57.431 30.769 0.00 0.00 0.00 4.30
2739 4952 8.455682 TCTAATATTTTCCATTTGTGACCGAAC 58.544 33.333 0.00 0.00 0.00 3.95
2740 4953 3.719173 TTTTCCATTTGTGACCGAACC 57.281 42.857 0.00 0.00 0.00 3.62
2741 4954 2.649531 TTCCATTTGTGACCGAACCT 57.350 45.000 0.00 0.00 0.00 3.50
2742 4955 1.890876 TCCATTTGTGACCGAACCTG 58.109 50.000 0.00 0.00 0.00 4.00
2743 4956 1.418264 TCCATTTGTGACCGAACCTGA 59.582 47.619 0.00 0.00 0.00 3.86
2744 4957 2.039746 TCCATTTGTGACCGAACCTGAT 59.960 45.455 0.00 0.00 0.00 2.90
2745 4958 2.420022 CCATTTGTGACCGAACCTGATC 59.580 50.000 0.00 0.00 0.00 2.92
2746 4959 3.338249 CATTTGTGACCGAACCTGATCT 58.662 45.455 0.00 0.00 0.00 2.75
2747 4960 4.503910 CATTTGTGACCGAACCTGATCTA 58.496 43.478 0.00 0.00 0.00 1.98
2748 4961 4.819105 TTTGTGACCGAACCTGATCTAT 57.181 40.909 0.00 0.00 0.00 1.98
2750 4963 2.693591 TGTGACCGAACCTGATCTATCC 59.306 50.000 0.00 0.00 0.00 2.59
2751 4964 2.959707 GTGACCGAACCTGATCTATCCT 59.040 50.000 0.00 0.00 0.00 3.24
2754 4967 1.688735 CCGAACCTGATCTATCCTGCA 59.311 52.381 0.00 0.00 0.00 4.41
2755 4968 2.301296 CCGAACCTGATCTATCCTGCAT 59.699 50.000 0.00 0.00 0.00 3.96
2780 5665 6.466885 ACAGTATGCCTAATAGTTTCTCGT 57.533 37.500 0.00 0.00 42.53 4.18
2783 5668 7.085116 CAGTATGCCTAATAGTTTCTCGTAGG 58.915 42.308 0.00 0.00 35.42 3.18
2803 5688 1.077334 GCCTAGCTCCCTCCATACCTA 59.923 57.143 0.00 0.00 0.00 3.08
2810 5695 1.691976 TCCCTCCATACCTATTGTGCG 59.308 52.381 0.00 0.00 0.00 5.34
2831 5720 4.754332 CGCCACGACGGTTAAATAAATAG 58.246 43.478 0.00 0.00 36.97 1.73
2853 5742 2.668632 GGATGTCCTCCGCACCAA 59.331 61.111 0.00 0.00 33.29 3.67
2863 5752 2.027460 CGCACCAACCCAGCAAAC 59.973 61.111 0.00 0.00 0.00 2.93
2864 5753 2.489275 CGCACCAACCCAGCAAACT 61.489 57.895 0.00 0.00 0.00 2.66
2865 5754 1.363807 GCACCAACCCAGCAAACTC 59.636 57.895 0.00 0.00 0.00 3.01
2866 5755 1.391157 GCACCAACCCAGCAAACTCA 61.391 55.000 0.00 0.00 0.00 3.41
2867 5756 1.331214 CACCAACCCAGCAAACTCAT 58.669 50.000 0.00 0.00 0.00 2.90
2868 5757 1.000060 CACCAACCCAGCAAACTCATG 60.000 52.381 0.00 0.00 0.00 3.07
2869 5758 0.604578 CCAACCCAGCAAACTCATGG 59.395 55.000 0.00 0.00 0.00 3.66
2871 5760 2.513753 CAACCCAGCAAACTCATGGTA 58.486 47.619 0.00 0.00 31.85 3.25
2872 5761 2.200373 ACCCAGCAAACTCATGGTAC 57.800 50.000 0.00 0.00 31.85 3.34
2874 5763 1.463674 CCAGCAAACTCATGGTACCC 58.536 55.000 10.07 0.00 0.00 3.69
2875 5764 1.463674 CAGCAAACTCATGGTACCCC 58.536 55.000 10.07 0.00 0.00 4.95
2877 5766 1.004745 AGCAAACTCATGGTACCCCTG 59.995 52.381 10.07 7.35 0.00 4.45
2878 5767 1.463674 CAAACTCATGGTACCCCTGC 58.536 55.000 10.07 0.00 0.00 4.85
2879 5768 0.035439 AAACTCATGGTACCCCTGCG 60.035 55.000 10.07 4.76 0.00 5.18
2880 5769 1.198759 AACTCATGGTACCCCTGCGT 61.199 55.000 10.07 5.43 0.00 5.24
2881 5770 1.144057 CTCATGGTACCCCTGCGTC 59.856 63.158 10.07 0.00 0.00 5.19
2893 6088 1.376424 CTGCGTCTCAATGCCCACT 60.376 57.895 0.00 0.00 36.52 4.00
2897 6092 1.236616 CGTCTCAATGCCCACTTGCA 61.237 55.000 0.00 0.00 46.94 4.08
2923 6118 0.249868 CCAACAGTCCAGCTCGTGAA 60.250 55.000 0.00 0.00 0.00 3.18
2970 6165 9.736414 ATTAGAGTTTTAAAAAGTACTCCCTCC 57.264 33.333 12.17 0.00 38.17 4.30
2971 6166 6.228995 AGAGTTTTAAAAAGTACTCCCTCCG 58.771 40.000 12.17 0.00 38.17 4.63
2972 6167 5.933617 AGTTTTAAAAAGTACTCCCTCCGT 58.066 37.500 1.31 0.00 0.00 4.69
2973 6168 7.015584 AGAGTTTTAAAAAGTACTCCCTCCGTA 59.984 37.037 12.17 0.00 38.17 4.02
2974 6169 7.508687 AGTTTTAAAAAGTACTCCCTCCGTAA 58.491 34.615 1.31 0.00 0.00 3.18
2975 6170 7.992608 AGTTTTAAAAAGTACTCCCTCCGTAAA 59.007 33.333 1.31 0.00 0.00 2.01
2976 6171 7.728847 TTTAAAAAGTACTCCCTCCGTAAAC 57.271 36.000 0.00 0.00 0.00 2.01
2977 6172 5.557576 AAAAAGTACTCCCTCCGTAAACT 57.442 39.130 0.00 0.00 0.00 2.66
2978 6173 6.670695 AAAAAGTACTCCCTCCGTAAACTA 57.329 37.500 0.00 0.00 0.00 2.24
2979 6174 6.670695 AAAAGTACTCCCTCCGTAAACTAA 57.329 37.500 0.00 0.00 0.00 2.24
2980 6175 6.864151 AAAGTACTCCCTCCGTAAACTAAT 57.136 37.500 0.00 0.00 0.00 1.73
2981 6176 7.961326 AAAGTACTCCCTCCGTAAACTAATA 57.039 36.000 0.00 0.00 0.00 0.98
2982 6177 8.544687 AAAGTACTCCCTCCGTAAACTAATAT 57.455 34.615 0.00 0.00 0.00 1.28
2983 6178 9.646522 AAAGTACTCCCTCCGTAAACTAATATA 57.353 33.333 0.00 0.00 0.00 0.86
2984 6179 9.646522 AAGTACTCCCTCCGTAAACTAATATAA 57.353 33.333 0.00 0.00 0.00 0.98
2985 6180 9.294614 AGTACTCCCTCCGTAAACTAATATAAG 57.705 37.037 0.00 0.00 0.00 1.73
2986 6181 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
2987 6182 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
2988 6183 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
2989 6184 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
2990 6185 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
2991 6186 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
2992 6187 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
2993 6188 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
2994 6189 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
2995 6190 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
3004 6199 9.900710 AATATAAGAGCGTTTAGATCACTACAG 57.099 33.333 0.00 0.00 37.82 2.74
3005 6200 5.899120 AAGAGCGTTTAGATCACTACAGA 57.101 39.130 0.00 0.00 37.82 3.41
3006 6201 5.493133 AGAGCGTTTAGATCACTACAGAG 57.507 43.478 0.00 0.00 37.82 3.35
3007 6202 4.336993 AGAGCGTTTAGATCACTACAGAGG 59.663 45.833 0.00 0.00 37.82 3.69
3008 6203 3.381908 AGCGTTTAGATCACTACAGAGGG 59.618 47.826 0.00 0.00 0.00 4.30
3009 6204 3.380637 GCGTTTAGATCACTACAGAGGGA 59.619 47.826 0.00 0.00 40.22 4.20
3010 6205 4.498345 GCGTTTAGATCACTACAGAGGGAG 60.498 50.000 0.00 0.00 38.94 4.30
3029 6224 6.895782 AGGGAGTATATTTGAATGTTTCGGA 58.104 36.000 0.00 0.00 0.00 4.55
3031 6226 6.766467 GGGAGTATATTTGAATGTTTCGGACT 59.234 38.462 0.00 0.00 0.00 3.85
3043 6238 4.894784 TGTTTCGGACTTCTAAGATGCTT 58.105 39.130 0.00 0.00 0.00 3.91
3078 6273 2.613133 GTGCTTGCAAAATTTCTTGGCA 59.387 40.909 0.00 0.00 0.00 4.92
3081 6276 4.223659 GCTTGCAAAATTTCTTGGCAATG 58.776 39.130 15.33 0.00 0.00 2.82
3119 6314 5.992217 GCTCAGAAAGAAAGTAGGAGTTTGA 59.008 40.000 0.00 0.00 0.00 2.69
3125 6320 8.841300 AGAAAGAAAGTAGGAGTTTGACATTTC 58.159 33.333 0.00 0.00 0.00 2.17
3150 6347 2.680577 CAGCTTTGGACATTTTGGAGC 58.319 47.619 0.00 0.00 0.00 4.70
3159 6356 3.181496 GGACATTTTGGAGCTCCGATTTC 60.181 47.826 27.43 20.45 39.43 2.17
3165 6362 3.322211 TGGAGCTCCGATTTCGTTTTA 57.678 42.857 27.43 2.35 39.43 1.52
3170 6367 5.292589 GGAGCTCCGATTTCGTTTTATTACA 59.707 40.000 19.06 0.00 37.74 2.41
3174 6371 7.019418 GCTCCGATTTCGTTTTATTACAAAGT 58.981 34.615 0.00 0.00 37.74 2.66
3202 6399 0.249238 TGAAAATTTGCACGCGCCTT 60.249 45.000 5.73 0.00 37.32 4.35
3203 6400 0.434628 GAAAATTTGCACGCGCCTTC 59.565 50.000 5.73 0.00 37.32 3.46
3204 6401 0.943835 AAAATTTGCACGCGCCTTCC 60.944 50.000 5.73 0.00 37.32 3.46
3205 6402 2.763627 AAATTTGCACGCGCCTTCCC 62.764 55.000 5.73 0.00 37.32 3.97
3206 6403 4.947147 TTTGCACGCGCCTTCCCT 62.947 61.111 5.73 0.00 37.32 4.20
3220 6417 2.509166 TTCCCTAGAAGAGTCGAGCA 57.491 50.000 0.00 0.00 0.00 4.26
3222 6419 2.577700 TCCCTAGAAGAGTCGAGCATC 58.422 52.381 0.00 0.00 0.00 3.91
3231 6428 3.583806 AGAGTCGAGCATCTTTGAAGTG 58.416 45.455 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
585 2609 8.707796 ATGGATGCAATCTCATCTTAATCTTT 57.292 30.769 0.00 0.00 44.71 2.52
588 2612 8.107399 TGAATGGATGCAATCTCATCTTAATC 57.893 34.615 3.80 0.00 44.71 1.75
600 2624 5.687166 ATTCCTTGTTGAATGGATGCAAT 57.313 34.783 0.00 0.00 33.77 3.56
601 2625 5.486735 AATTCCTTGTTGAATGGATGCAA 57.513 34.783 0.00 0.00 35.21 4.08
628 2652 7.832187 TCCAGGGATAAAATACGTTTGAATTCT 59.168 33.333 7.05 0.00 0.00 2.40
651 2675 4.396478 TGTCAAACTTTGTCGAAACATCCA 59.604 37.500 1.44 0.00 34.73 3.41
657 2681 7.310072 TGTATCTTGTCAAACTTTGTCGAAA 57.690 32.000 1.44 0.00 0.00 3.46
685 2709 1.745827 CGACACTTGTTTCCACCCACT 60.746 52.381 0.00 0.00 0.00 4.00
719 2751 3.887716 AGTGCTCATGCTTCTTGTCTTTT 59.112 39.130 0.00 0.00 40.48 2.27
720 2752 3.484407 AGTGCTCATGCTTCTTGTCTTT 58.516 40.909 0.00 0.00 40.48 2.52
831 2865 0.338120 CCAACTCCTCCTCCTCCTCT 59.662 60.000 0.00 0.00 0.00 3.69
879 2913 3.697542 CCTGCCATTGATTTGATCTGTGA 59.302 43.478 0.00 0.00 0.00 3.58
929 2969 5.696822 CGTTGTTGCAAGTAGTAGAGAGTA 58.303 41.667 0.00 0.00 0.00 2.59
1527 3577 2.711009 TGAGACAACCATTCAGGAACCT 59.289 45.455 0.00 0.00 41.22 3.50
1534 3584 4.143543 TCTTGCATTGAGACAACCATTCA 58.856 39.130 0.00 0.00 0.00 2.57
1558 3608 2.027192 GGACAAGTCAAGCACCTCCATA 60.027 50.000 2.29 0.00 0.00 2.74
1624 3674 1.156736 CCAAGTAGCAAAGGTGGTCG 58.843 55.000 0.00 0.00 36.66 4.79
1795 3845 1.678101 GTCCCAGCTATGACATTTGGC 59.322 52.381 9.33 0.00 0.00 4.52
1877 3927 1.828979 ACGGCGTTGTTATTCCCAAT 58.171 45.000 6.77 0.00 0.00 3.16
1984 4034 2.607750 ACGACATGGTGGCTCCCT 60.608 61.111 2.66 0.00 34.77 4.20
2089 4265 1.451387 CACGGTATTGTGGCTCCCC 60.451 63.158 0.00 0.00 36.20 4.81
2131 4307 0.938713 TTACGACTTTGTTGTGCCCG 59.061 50.000 0.00 0.00 31.92 6.13
2224 4411 4.202315 TGGTCGGCAACATACTTATGCTAT 60.202 41.667 0.00 0.00 39.94 2.97
2228 4415 3.266636 TGTGGTCGGCAACATACTTATG 58.733 45.455 0.00 0.00 39.55 1.90
2229 4416 3.620427 TGTGGTCGGCAACATACTTAT 57.380 42.857 0.00 0.00 0.00 1.73
2230 4417 3.620427 ATGTGGTCGGCAACATACTTA 57.380 42.857 8.65 0.00 37.49 2.24
2231 4418 2.489938 ATGTGGTCGGCAACATACTT 57.510 45.000 8.65 0.00 37.49 2.24
2232 4419 3.466836 CATATGTGGTCGGCAACATACT 58.533 45.455 19.25 6.54 42.47 2.12
2235 4422 1.679139 CCATATGTGGTCGGCAACAT 58.321 50.000 15.60 15.60 41.79 2.71
2236 4423 3.167189 CCATATGTGGTCGGCAACA 57.833 52.632 0.00 0.00 40.83 3.33
2274 4461 3.106827 TGCCCTGAATACATGAGTCTCA 58.893 45.455 4.68 4.68 0.00 3.27
2320 4509 9.542462 GTTTTGGATATGTCATACAAGCTAGTA 57.458 33.333 0.00 0.00 0.00 1.82
2321 4510 8.267894 AGTTTTGGATATGTCATACAAGCTAGT 58.732 33.333 0.00 0.00 0.00 2.57
2322 4511 8.668510 AGTTTTGGATATGTCATACAAGCTAG 57.331 34.615 0.00 0.00 0.00 3.42
2374 4586 2.887783 TCCTTTTACGTACGTACCCACA 59.112 45.455 26.83 10.07 0.00 4.17
2375 4587 3.569250 TCCTTTTACGTACGTACCCAC 57.431 47.619 26.83 0.00 0.00 4.61
2376 4588 4.592485 TTTCCTTTTACGTACGTACCCA 57.408 40.909 26.83 10.83 0.00 4.51
2377 4589 4.388773 CCTTTTCCTTTTACGTACGTACCC 59.611 45.833 26.83 0.00 0.00 3.69
2378 4590 5.227152 TCCTTTTCCTTTTACGTACGTACC 58.773 41.667 26.83 2.84 0.00 3.34
2379 4591 6.149633 TCTCCTTTTCCTTTTACGTACGTAC 58.850 40.000 26.83 15.90 0.00 3.67
2380 4592 6.325919 TCTCCTTTTCCTTTTACGTACGTA 57.674 37.500 23.60 23.60 0.00 3.57
2381 4593 5.200368 TCTCCTTTTCCTTTTACGTACGT 57.800 39.130 25.98 25.98 0.00 3.57
2382 4594 5.636543 ACATCTCCTTTTCCTTTTACGTACG 59.363 40.000 15.01 15.01 0.00 3.67
2445 4657 6.006759 AGAGGACGTGTGTAAGTAAAGTAC 57.993 41.667 0.00 0.00 0.00 2.73
2461 4673 1.497161 ATAACCCAGGGAAGAGGACG 58.503 55.000 14.54 0.00 0.00 4.79
2481 4693 5.106869 CGCATGGTTTTGTAGCAAAGTAGTA 60.107 40.000 0.00 0.00 37.87 1.82
2482 4694 4.320202 CGCATGGTTTTGTAGCAAAGTAGT 60.320 41.667 0.00 0.00 37.87 2.73
2483 4695 4.158384 CGCATGGTTTTGTAGCAAAGTAG 58.842 43.478 0.00 0.00 37.87 2.57
2498 4711 1.555967 AATTAACAAGCCCGCATGGT 58.444 45.000 0.00 0.00 36.04 3.55
2503 4716 4.260091 CGTCTTACTAATTAACAAGCCCGC 60.260 45.833 2.26 0.00 0.00 6.13
2505 4718 4.034858 GCCGTCTTACTAATTAACAAGCCC 59.965 45.833 2.26 0.00 0.00 5.19
2511 4724 7.260603 TCTACCAAGCCGTCTTACTAATTAAC 58.739 38.462 0.00 0.00 0.00 2.01
2564 4777 2.166664 CCCTCCCGACACTTCTTAAGAG 59.833 54.545 5.12 3.14 0.00 2.85
2586 4799 4.674281 AGATTTACATCTCCCTTCGGTC 57.326 45.455 0.00 0.00 34.26 4.79
2667 4880 4.497006 CCATCACTACTATTGCTTGCTTGC 60.497 45.833 0.00 0.00 0.00 4.01
2675 4888 3.499918 GCACCATCCATCACTACTATTGC 59.500 47.826 0.00 0.00 0.00 3.56
2703 4916 9.605951 AAATGGAAAATATTAGAGGCCATATGT 57.394 29.630 5.01 0.00 33.82 2.29
2704 4917 9.865321 CAAATGGAAAATATTAGAGGCCATATG 57.135 33.333 5.01 0.00 33.82 1.78
2705 4918 9.605951 ACAAATGGAAAATATTAGAGGCCATAT 57.394 29.630 5.01 0.00 33.82 1.78
2707 4920 7.564660 TCACAAATGGAAAATATTAGAGGCCAT 59.435 33.333 5.01 0.00 36.29 4.40
2708 4921 6.894654 TCACAAATGGAAAATATTAGAGGCCA 59.105 34.615 5.01 0.00 0.00 5.36
2709 4922 7.203218 GTCACAAATGGAAAATATTAGAGGCC 58.797 38.462 0.00 0.00 0.00 5.19
2711 4924 7.282224 TCGGTCACAAATGGAAAATATTAGAGG 59.718 37.037 0.00 0.00 0.00 3.69
2714 4927 7.700656 GGTTCGGTCACAAATGGAAAATATTAG 59.299 37.037 0.00 0.00 0.00 1.73
2715 4928 7.394923 AGGTTCGGTCACAAATGGAAAATATTA 59.605 33.333 0.00 0.00 0.00 0.98
2716 4929 6.210584 AGGTTCGGTCACAAATGGAAAATATT 59.789 34.615 0.00 0.00 0.00 1.28
2717 4930 5.714806 AGGTTCGGTCACAAATGGAAAATAT 59.285 36.000 0.00 0.00 0.00 1.28
2718 4931 5.048364 CAGGTTCGGTCACAAATGGAAAATA 60.048 40.000 0.00 0.00 0.00 1.40
2719 4932 3.895041 AGGTTCGGTCACAAATGGAAAAT 59.105 39.130 0.00 0.00 0.00 1.82
2723 4936 1.418264 TCAGGTTCGGTCACAAATGGA 59.582 47.619 0.00 0.00 0.00 3.41
2724 4937 1.890876 TCAGGTTCGGTCACAAATGG 58.109 50.000 0.00 0.00 0.00 3.16
2725 4938 3.338249 AGATCAGGTTCGGTCACAAATG 58.662 45.455 0.00 0.00 0.00 2.32
2728 4941 3.132289 GGATAGATCAGGTTCGGTCACAA 59.868 47.826 0.00 0.00 0.00 3.33
2729 4942 2.693591 GGATAGATCAGGTTCGGTCACA 59.306 50.000 0.00 0.00 0.00 3.58
2730 4943 2.959707 AGGATAGATCAGGTTCGGTCAC 59.040 50.000 0.00 0.00 0.00 3.67
2731 4944 2.959030 CAGGATAGATCAGGTTCGGTCA 59.041 50.000 0.00 0.00 0.00 4.02
2733 4946 1.689273 GCAGGATAGATCAGGTTCGGT 59.311 52.381 0.00 0.00 0.00 4.69
2734 4947 1.688735 TGCAGGATAGATCAGGTTCGG 59.311 52.381 0.00 0.00 0.00 4.30
2735 4948 3.674528 ATGCAGGATAGATCAGGTTCG 57.325 47.619 0.00 0.00 0.00 3.95
2736 4949 5.858381 TGTTATGCAGGATAGATCAGGTTC 58.142 41.667 0.00 0.00 0.00 3.62
2737 4950 5.862845 CTGTTATGCAGGATAGATCAGGTT 58.137 41.667 0.00 0.00 41.42 3.50
2738 4951 5.480642 CTGTTATGCAGGATAGATCAGGT 57.519 43.478 0.00 0.00 41.42 4.00
2739 4952 7.040494 CATACTGTTATGCAGGATAGATCAGG 58.960 42.308 0.00 0.00 46.74 3.86
2754 4967 8.639761 ACGAGAAACTATTAGGCATACTGTTAT 58.360 33.333 0.00 0.00 0.00 1.89
2755 4968 8.004087 ACGAGAAACTATTAGGCATACTGTTA 57.996 34.615 0.00 0.00 0.00 2.41
2768 5653 4.216708 AGCTAGGCCTACGAGAAACTATT 58.783 43.478 8.91 0.00 0.00 1.73
2780 5665 1.077334 GTATGGAGGGAGCTAGGCCTA 59.923 57.143 13.09 13.09 0.00 3.93
2783 5668 0.178918 AGGTATGGAGGGAGCTAGGC 60.179 60.000 0.00 0.00 0.00 3.93
2784 5669 3.767309 ATAGGTATGGAGGGAGCTAGG 57.233 52.381 0.00 0.00 0.00 3.02
2803 5688 4.980805 ACCGTCGTGGCGCACAAT 62.981 61.111 10.83 0.00 43.94 2.71
2810 5695 5.063817 ACACTATTTATTTAACCGTCGTGGC 59.936 40.000 0.00 0.00 43.94 5.01
2847 5736 1.363807 GAGTTTGCTGGGTTGGTGC 59.636 57.895 0.00 0.00 0.00 5.01
2849 5738 1.331214 CATGAGTTTGCTGGGTTGGT 58.669 50.000 0.00 0.00 0.00 3.67
2853 5742 1.271926 GGTACCATGAGTTTGCTGGGT 60.272 52.381 7.15 0.00 34.21 4.51
2869 5758 1.090052 GCATTGAGACGCAGGGGTAC 61.090 60.000 0.00 0.00 0.00 3.34
2871 5760 2.045926 GCATTGAGACGCAGGGGT 60.046 61.111 0.00 0.00 0.00 4.95
2872 5761 2.825836 GGCATTGAGACGCAGGGG 60.826 66.667 0.00 0.00 0.00 4.79
2874 5763 2.046023 TGGGCATTGAGACGCAGG 60.046 61.111 0.00 0.00 0.00 4.85
2875 5764 0.957395 AAGTGGGCATTGAGACGCAG 60.957 55.000 0.00 0.00 0.00 5.18
2877 5766 1.503542 CAAGTGGGCATTGAGACGC 59.496 57.895 0.00 0.00 0.00 5.19
2878 5767 1.236616 TGCAAGTGGGCATTGAGACG 61.237 55.000 0.00 0.00 39.25 4.18
2879 5768 2.644887 TGCAAGTGGGCATTGAGAC 58.355 52.632 0.00 0.00 39.25 3.36
2954 6149 6.670695 AGTTTACGGAGGGAGTACTTTTTA 57.329 37.500 0.00 0.00 0.00 1.52
2960 6155 9.289782 TCTTATATTAGTTTACGGAGGGAGTAC 57.710 37.037 0.00 0.00 0.00 2.73
2961 6156 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
2962 6157 7.039853 GCTCTTATATTAGTTTACGGAGGGAGT 60.040 40.741 0.00 0.00 0.00 3.85
2963 6158 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
2964 6159 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
2965 6160 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
2966 6161 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
2967 6162 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
2968 6163 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
2969 6164 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
2978 6173 9.900710 CTGTAGTGATCTAAACGCTCTTATATT 57.099 33.333 0.00 0.00 0.00 1.28
2979 6174 9.286170 TCTGTAGTGATCTAAACGCTCTTATAT 57.714 33.333 0.00 0.00 0.00 0.86
2980 6175 8.672823 TCTGTAGTGATCTAAACGCTCTTATA 57.327 34.615 0.00 0.00 0.00 0.98
2981 6176 7.255312 CCTCTGTAGTGATCTAAACGCTCTTAT 60.255 40.741 0.00 0.00 0.00 1.73
2982 6177 6.038382 CCTCTGTAGTGATCTAAACGCTCTTA 59.962 42.308 0.00 0.00 0.00 2.10
2983 6178 5.163602 CCTCTGTAGTGATCTAAACGCTCTT 60.164 44.000 0.00 0.00 0.00 2.85
2984 6179 4.336993 CCTCTGTAGTGATCTAAACGCTCT 59.663 45.833 0.00 0.00 0.00 4.09
2985 6180 4.498345 CCCTCTGTAGTGATCTAAACGCTC 60.498 50.000 0.00 0.00 0.00 5.03
2986 6181 3.381908 CCCTCTGTAGTGATCTAAACGCT 59.618 47.826 0.00 0.00 0.00 5.07
2987 6182 3.380637 TCCCTCTGTAGTGATCTAAACGC 59.619 47.826 0.00 0.00 0.00 4.84
2988 6183 4.641094 ACTCCCTCTGTAGTGATCTAAACG 59.359 45.833 0.00 0.00 0.00 3.60
2989 6184 7.826918 ATACTCCCTCTGTAGTGATCTAAAC 57.173 40.000 0.00 0.00 0.00 2.01
2992 6187 9.521841 CAAATATACTCCCTCTGTAGTGATCTA 57.478 37.037 0.00 0.00 0.00 1.98
2993 6188 8.228206 TCAAATATACTCCCTCTGTAGTGATCT 58.772 37.037 0.00 0.00 0.00 2.75
2994 6189 8.410673 TCAAATATACTCCCTCTGTAGTGATC 57.589 38.462 0.00 0.00 0.00 2.92
2995 6190 8.783660 TTCAAATATACTCCCTCTGTAGTGAT 57.216 34.615 0.00 0.00 0.00 3.06
2996 6191 8.642432 CATTCAAATATACTCCCTCTGTAGTGA 58.358 37.037 0.00 0.00 0.00 3.41
2997 6192 8.424918 ACATTCAAATATACTCCCTCTGTAGTG 58.575 37.037 0.00 0.00 0.00 2.74
2998 6193 8.554490 ACATTCAAATATACTCCCTCTGTAGT 57.446 34.615 0.00 0.00 0.00 2.73
2999 6194 9.838339 AAACATTCAAATATACTCCCTCTGTAG 57.162 33.333 0.00 0.00 0.00 2.74
3000 6195 9.832445 GAAACATTCAAATATACTCCCTCTGTA 57.168 33.333 0.00 0.00 0.00 2.74
3001 6196 7.495934 CGAAACATTCAAATATACTCCCTCTGT 59.504 37.037 0.00 0.00 0.00 3.41
3002 6197 7.041780 CCGAAACATTCAAATATACTCCCTCTG 60.042 40.741 0.00 0.00 0.00 3.35
3003 6198 6.992715 CCGAAACATTCAAATATACTCCCTCT 59.007 38.462 0.00 0.00 0.00 3.69
3004 6199 6.990349 TCCGAAACATTCAAATATACTCCCTC 59.010 38.462 0.00 0.00 0.00 4.30
3005 6200 6.766467 GTCCGAAACATTCAAATATACTCCCT 59.234 38.462 0.00 0.00 0.00 4.20
3006 6201 6.766467 AGTCCGAAACATTCAAATATACTCCC 59.234 38.462 0.00 0.00 0.00 4.30
3007 6202 7.787725 AGTCCGAAACATTCAAATATACTCC 57.212 36.000 0.00 0.00 0.00 3.85
3008 6203 9.099454 AGAAGTCCGAAACATTCAAATATACTC 57.901 33.333 0.00 0.00 0.00 2.59
3016 6211 6.128282 GCATCTTAGAAGTCCGAAACATTCAA 60.128 38.462 0.00 0.00 0.00 2.69
3029 6224 5.931146 CACAAGAGTCAAGCATCTTAGAAGT 59.069 40.000 0.00 0.00 34.04 3.01
3031 6226 5.858381 ACACAAGAGTCAAGCATCTTAGAA 58.142 37.500 0.00 0.00 34.04 2.10
3043 6238 2.806745 GCAAGCACCTACACAAGAGTCA 60.807 50.000 0.00 0.00 0.00 3.41
3078 6273 0.779997 AGCCCCTCCAAACTCACATT 59.220 50.000 0.00 0.00 0.00 2.71
3081 6276 0.322008 CTGAGCCCCTCCAAACTCAC 60.322 60.000 0.00 0.00 35.42 3.51
3119 6314 3.132646 TGTCCAAAGCTGCAAAGAAATGT 59.867 39.130 1.02 0.00 0.00 2.71
3125 6320 3.249080 CCAAAATGTCCAAAGCTGCAAAG 59.751 43.478 1.02 0.00 0.00 2.77
3150 6347 8.944212 AACTTTGTAATAAAACGAAATCGGAG 57.056 30.769 7.81 0.00 44.95 4.63
3159 6356 6.563222 TGGGAGGAACTTTGTAATAAAACG 57.437 37.500 0.00 0.00 41.55 3.60
3165 6362 7.797121 ATTTTCATGGGAGGAACTTTGTAAT 57.203 32.000 0.00 0.00 41.55 1.89
3170 6367 5.163216 TGCAAATTTTCATGGGAGGAACTTT 60.163 36.000 0.00 0.00 41.55 2.66
3174 6371 3.305950 CGTGCAAATTTTCATGGGAGGAA 60.306 43.478 2.46 0.00 0.00 3.36
3202 6399 2.173782 AGATGCTCGACTCTTCTAGGGA 59.826 50.000 0.00 0.00 0.00 4.20
3203 6400 2.582052 AGATGCTCGACTCTTCTAGGG 58.418 52.381 0.00 0.00 0.00 3.53
3204 6401 4.097135 TCAAAGATGCTCGACTCTTCTAGG 59.903 45.833 0.00 0.00 31.45 3.02
3205 6402 5.242069 TCAAAGATGCTCGACTCTTCTAG 57.758 43.478 1.77 0.00 31.45 2.43
3206 6403 5.184096 ACTTCAAAGATGCTCGACTCTTCTA 59.816 40.000 0.00 0.00 31.45 2.10
3220 6417 6.808829 TCTGAAATGTTTGCACTTCAAAGAT 58.191 32.000 0.00 0.00 46.66 2.40
3222 6419 7.473027 AATCTGAAATGTTTGCACTTCAAAG 57.527 32.000 0.00 0.00 44.59 2.77


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

AutoCloner maintained by Alex Coulton.