Multiple sequence alignment - TraesCS5A01G080700

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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 TraesCS5A01G080700 chr5A 100.000 7700 0 0 1 7700 102842780 102835081 0.000000e+00 14220.0
1 TraesCS5A01G080700 chr5A 94.541 2473 114 10 718 3180 118345585 118348046 0.000000e+00 3799.0
2 TraesCS5A01G080700 chr5A 94.699 2207 97 9 718 2915 117510315 117508120 0.000000e+00 3410.0
3 TraesCS5A01G080700 chr5A 95.605 2116 73 13 3281 5387 117507687 117505583 0.000000e+00 3374.0
4 TraesCS5A01G080700 chr5A 89.421 2486 197 42 673 3146 298531915 298534346 0.000000e+00 3073.0
5 TraesCS5A01G080700 chr5A 96.373 1020 34 3 3281 4299 118348047 118349064 0.000000e+00 1676.0
6 TraesCS5A01G080700 chr5A 96.355 1015 33 1 4373 5387 118349080 118350090 0.000000e+00 1666.0
7 TraesCS5A01G080700 chr5A 91.620 1062 47 12 6259 7295 117504914 117503870 0.000000e+00 1430.0
8 TraesCS5A01G080700 chr5A 98.417 695 8 2 5549 6243 118350089 118350780 0.000000e+00 1219.0
9 TraesCS5A01G080700 chr5A 97.809 639 12 1 5549 6187 117505584 117504948 0.000000e+00 1101.0
10 TraesCS5A01G080700 chr5A 94.101 712 26 4 6220 6926 118350811 118351511 0.000000e+00 1068.0
11 TraesCS5A01G080700 chr5A 97.243 399 11 0 6247 6645 530380577 530380975 0.000000e+00 676.0
12 TraesCS5A01G080700 chr5A 90.188 479 35 6 3289 3760 298534363 298534836 1.420000e-171 614.0
13 TraesCS5A01G080700 chr5A 82.228 709 69 21 6604 7277 185645408 185646094 6.750000e-155 558.0
14 TraesCS5A01G080700 chr5A 92.647 272 19 1 2913 3183 117507956 117507685 2.610000e-104 390.0
15 TraesCS5A01G080700 chr5A 85.833 360 39 9 3777 4134 298535000 298535349 9.440000e-99 372.0
16 TraesCS5A01G080700 chr5A 96.040 101 4 0 7600 7700 117498946 117498846 1.720000e-36 165.0
17 TraesCS5A01G080700 chr5D 97.548 4731 94 11 663 5387 99915817 99920531 0.000000e+00 8074.0
18 TraesCS5A01G080700 chr5D 94.461 4748 184 35 687 5387 109807702 109812417 0.000000e+00 7238.0
19 TraesCS5A01G080700 chr5D 95.003 1881 30 14 5549 7382 99920530 99922393 0.000000e+00 2894.0
20 TraesCS5A01G080700 chr5D 92.542 1770 60 19 5549 7294 109812416 109814137 0.000000e+00 2471.0
21 TraesCS5A01G080700 chr5D 87.938 771 61 22 6538 7297 112947746 112948495 0.000000e+00 880.0
22 TraesCS5A01G080700 chr5D 95.719 327 14 0 7374 7700 99924444 99924770 1.900000e-145 527.0
23 TraesCS5A01G080700 chr5D 89.804 255 12 4 7446 7700 109814358 109814598 1.610000e-81 315.0
24 TraesCS5A01G080700 chr5D 93.548 186 9 3 5366 5550 25039961 25040144 2.740000e-69 274.0
25 TraesCS5A01G080700 chr5D 88.785 107 6 3 3182 3288 228447056 228446956 8.110000e-25 126.0
26 TraesCS5A01G080700 chr6B 96.662 4734 134 12 663 5387 184003159 184007877 0.000000e+00 7845.0
27 TraesCS5A01G080700 chr6B 95.213 1880 54 9 5549 7409 184007876 184009738 0.000000e+00 2940.0
28 TraesCS5A01G080700 chr6B 94.841 252 13 0 7449 7700 184015480 184015731 2.010000e-105 394.0
29 TraesCS5A01G080700 chr6B 97.059 34 0 1 7420 7452 184009726 184009759 1.000000e-03 56.5
30 TraesCS5A01G080700 chr5B 95.139 2263 100 5 923 3183 122852376 122850122 0.000000e+00 3561.0
31 TraesCS5A01G080700 chr5B 95.099 2265 96 6 923 3180 123685867 123688123 0.000000e+00 3554.0
32 TraesCS5A01G080700 chr5B 94.761 1947 81 13 3451 5386 122849849 122847913 0.000000e+00 3011.0
33 TraesCS5A01G080700 chr5B 89.024 2460 193 43 711 3146 248756870 248759276 0.000000e+00 2976.0
34 TraesCS5A01G080700 chr5B 94.834 1742 72 12 3655 5387 123688465 123690197 0.000000e+00 2702.0
35 TraesCS5A01G080700 chr5B 91.474 1900 83 23 5551 7406 122847911 122846047 0.000000e+00 2538.0
36 TraesCS5A01G080700 chr5B 91.521 1769 66 24 5549 7297 123690196 123691900 0.000000e+00 2359.0
37 TraesCS5A01G080700 chr5B 99.849 664 1 0 1 664 162873291 162872628 0.000000e+00 1221.0
38 TraesCS5A01G080700 chr5B 96.746 338 9 2 3281 3618 123688127 123688462 5.220000e-156 562.0
39 TraesCS5A01G080700 chr5B 86.804 485 39 9 3289 3760 248759293 248759765 1.150000e-142 518.0
40 TraesCS5A01G080700 chr5B 85.635 362 37 10 3777 4134 248759953 248760303 4.390000e-97 366.0
41 TraesCS5A01G080700 chr5B 91.775 231 9 3 7470 7700 122844129 122843909 5.800000e-81 313.0
42 TraesCS5A01G080700 chr5B 95.930 172 6 1 3281 3452 122850124 122849954 2.120000e-70 278.0
43 TraesCS5A01G080700 chr5B 90.686 204 14 5 5354 5553 120547724 120547522 4.580000e-67 267.0
44 TraesCS5A01G080700 chr5B 93.204 103 5 1 3182 3284 315893437 315893337 4.810000e-32 150.0
45 TraesCS5A01G080700 chr5B 90.196 102 9 1 3178 3279 398071461 398071561 1.740000e-26 132.0
46 TraesCS5A01G080700 chr3A 99.850 665 1 0 1 665 640876360 640877024 0.000000e+00 1223.0
47 TraesCS5A01G080700 chr3A 85.000 120 13 3 3170 3289 668212688 668212802 4.880000e-22 117.0
48 TraesCS5A01G080700 chr7A 99.849 663 1 0 1 663 326869484 326868822 0.000000e+00 1219.0
49 TraesCS5A01G080700 chr7A 97.789 407 9 0 6239 6645 210624377 210624783 0.000000e+00 702.0
50 TraesCS5A01G080700 chr3B 100.000 659 0 0 1 659 59716048 59715390 0.000000e+00 1218.0
51 TraesCS5A01G080700 chr3B 99.398 664 4 0 1 664 798149299 798148636 0.000000e+00 1205.0
52 TraesCS5A01G080700 chr2A 99.699 664 2 0 1 664 72358771 72359434 0.000000e+00 1216.0
53 TraesCS5A01G080700 chr1B 99.697 660 2 0 1 660 137470807 137470148 0.000000e+00 1208.0
54 TraesCS5A01G080700 chr1B 91.667 60 1 3 4348 4403 1798507 1798566 6.410000e-11 80.5
55 TraesCS5A01G080700 chr6A 98.944 663 6 1 1 663 196507772 196507111 0.000000e+00 1184.0
56 TraesCS5A01G080700 chr2B 99.385 650 4 0 1 650 669623179 669622530 0.000000e+00 1179.0
57 TraesCS5A01G080700 chr2B 98.922 371 4 0 5017 5387 521919101 521918731 0.000000e+00 664.0
58 TraesCS5A01G080700 chr7D 98.296 587 8 1 5549 6135 561633314 561632730 0.000000e+00 1027.0
59 TraesCS5A01G080700 chr7D 99.256 403 3 0 6243 6645 561632700 561632298 0.000000e+00 728.0
60 TraesCS5A01G080700 chr7D 99.730 371 1 0 5017 5387 561633683 561633313 0.000000e+00 680.0
61 TraesCS5A01G080700 chr7D 95.082 183 7 2 5378 5559 39001457 39001276 3.520000e-73 287.0
62 TraesCS5A01G080700 chr7D 93.103 58 3 1 4347 4403 89726734 89726677 4.950000e-12 84.2
63 TraesCS5A01G080700 chr7B 98.296 587 8 1 5549 6135 641949863 641950447 0.000000e+00 1027.0
64 TraesCS5A01G080700 chr1D 96.512 172 6 0 5382 5553 178466474 178466303 1.260000e-72 285.0
65 TraesCS5A01G080700 chr1D 96.491 171 6 0 5386 5556 490547404 490547234 4.550000e-72 283.0
66 TraesCS5A01G080700 chr1D 88.785 107 7 1 3177 3283 354519020 354518919 8.110000e-25 126.0
67 TraesCS5A01G080700 chr1D 80.682 88 11 6 4318 4404 211400647 211400729 6.450000e-06 63.9
68 TraesCS5A01G080700 chr4A 96.471 170 6 0 5382 5551 362067907 362068076 1.640000e-71 281.0
69 TraesCS5A01G080700 chr4A 96.471 170 5 1 5382 5550 582530146 582529977 5.880000e-71 279.0
70 TraesCS5A01G080700 chr4D 95.930 172 7 0 5382 5553 75782221 75782050 5.880000e-71 279.0
71 TraesCS5A01G080700 chr2D 93.989 183 8 3 5373 5553 29162376 29162557 2.740000e-69 274.0
72 TraesCS5A01G080700 chr6D 88.889 108 5 4 3182 3289 419276463 419276563 8.110000e-25 126.0


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 TraesCS5A01G080700 chr5A 102835081 102842780 7699 True 14220.000000 14220 100.000000 1 7700 1 chr5A.!!$R1 7699
1 TraesCS5A01G080700 chr5A 117503870 117510315 6445 True 1941.000000 3410 94.476000 718 7295 5 chr5A.!!$R3 6577
2 TraesCS5A01G080700 chr5A 118345585 118351511 5926 False 1885.600000 3799 95.957400 718 6926 5 chr5A.!!$F3 6208
3 TraesCS5A01G080700 chr5A 298531915 298535349 3434 False 1353.000000 3073 88.480667 673 4134 3 chr5A.!!$F4 3461
4 TraesCS5A01G080700 chr5A 185645408 185646094 686 False 558.000000 558 82.228000 6604 7277 1 chr5A.!!$F1 673
5 TraesCS5A01G080700 chr5D 99915817 99924770 8953 False 3831.666667 8074 96.090000 663 7700 3 chr5D.!!$F3 7037
6 TraesCS5A01G080700 chr5D 109807702 109814598 6896 False 3341.333333 7238 92.269000 687 7700 3 chr5D.!!$F4 7013
7 TraesCS5A01G080700 chr5D 112947746 112948495 749 False 880.000000 880 87.938000 6538 7297 1 chr5D.!!$F2 759
8 TraesCS5A01G080700 chr6B 184003159 184009759 6600 False 3613.833333 7845 96.311333 663 7452 3 chr6B.!!$F2 6789
9 TraesCS5A01G080700 chr5B 123685867 123691900 6033 False 2294.250000 3554 94.550000 923 7297 4 chr5B.!!$F2 6374
10 TraesCS5A01G080700 chr5B 122843909 122852376 8467 True 1940.200000 3561 93.815800 923 7700 5 chr5B.!!$R4 6777
11 TraesCS5A01G080700 chr5B 248756870 248760303 3433 False 1286.666667 2976 87.154333 711 4134 3 chr5B.!!$F3 3423
12 TraesCS5A01G080700 chr5B 162872628 162873291 663 True 1221.000000 1221 99.849000 1 664 1 chr5B.!!$R2 663
13 TraesCS5A01G080700 chr3A 640876360 640877024 664 False 1223.000000 1223 99.850000 1 665 1 chr3A.!!$F1 664
14 TraesCS5A01G080700 chr7A 326868822 326869484 662 True 1219.000000 1219 99.849000 1 663 1 chr7A.!!$R1 662
15 TraesCS5A01G080700 chr3B 59715390 59716048 658 True 1218.000000 1218 100.000000 1 659 1 chr3B.!!$R1 658
16 TraesCS5A01G080700 chr3B 798148636 798149299 663 True 1205.000000 1205 99.398000 1 664 1 chr3B.!!$R2 663
17 TraesCS5A01G080700 chr2A 72358771 72359434 663 False 1216.000000 1216 99.699000 1 664 1 chr2A.!!$F1 663
18 TraesCS5A01G080700 chr1B 137470148 137470807 659 True 1208.000000 1208 99.697000 1 660 1 chr1B.!!$R1 659
19 TraesCS5A01G080700 chr6A 196507111 196507772 661 True 1184.000000 1184 98.944000 1 663 1 chr6A.!!$R1 662
20 TraesCS5A01G080700 chr2B 669622530 669623179 649 True 1179.000000 1179 99.385000 1 650 1 chr2B.!!$R2 649
21 TraesCS5A01G080700 chr7D 561632298 561633683 1385 True 811.666667 1027 99.094000 5017 6645 3 chr7D.!!$R3 1628
22 TraesCS5A01G080700 chr7B 641949863 641950447 584 False 1027.000000 1027 98.296000 5549 6135 1 chr7B.!!$F1 586

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
830 840 0.541392 CTCGATCCCACATTCCACCA 59.459 55.000 0.00 0.00 0.00 4.17 F
1077 1099 0.254178 TAAGCCTCTACTCCGACGGT 59.746 55.000 14.79 0.00 0.00 4.83 F
1937 1974 0.990374 ATATCTCCCATGGCTGCTCC 59.010 55.000 6.09 0.00 0.00 4.70 F
3285 3502 0.034059 GGGACGGATGGAGCACTATG 59.966 60.000 0.00 0.00 0.00 2.23 F
3473 3814 2.291465 TGTTGTTGCATGCTCTCAGTTC 59.709 45.455 20.33 9.66 0.00 3.01 F
3742 4088 2.353889 CTGTCATCGGGCAATCTGAAAG 59.646 50.000 0.00 0.00 33.91 2.62 F
4572 5142 1.028905 TTCTGCAGGTTGGGAAAACG 58.971 50.000 15.13 0.00 0.00 3.60 F
5400 5989 2.829023 TCATTTACTCCCTCCGTTCCT 58.171 47.619 0.00 0.00 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2061 2103 1.881324 TCAACCGTCACTGATACGACA 59.119 47.619 7.83 0.0 42.90 4.35 R
2964 3174 0.407528 TGGGCAGCAGGAATTTACCA 59.592 50.000 0.00 0.0 0.00 3.25 R
3728 4074 1.089920 CTGGTCTTTCAGATTGCCCG 58.910 55.000 0.00 0.0 36.93 6.13 R
4556 5126 1.134965 CAAACGTTTTCCCAACCTGCA 60.135 47.619 11.66 0.0 0.00 4.41 R
4572 5142 2.352127 GGCCACAATCTCAGAAGCAAAC 60.352 50.000 0.00 0.0 0.00 2.93 R
5427 6016 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.0 0.00 3.16 R
5428 6017 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.0 0.00 3.16 R
7384 8191 0.761802 GCTGGGATGGTTAGGAGGAG 59.238 60.000 0.00 0.0 0.00 3.69 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
765 772 6.213600 GCTGAATATAAATACCTCCTCCTCCA 59.786 42.308 0.00 0.00 0.00 3.86
811 821 2.989253 CCCAAAACCACCGCCTCC 60.989 66.667 0.00 0.00 0.00 4.30
830 840 0.541392 CTCGATCCCACATTCCACCA 59.459 55.000 0.00 0.00 0.00 4.17
873 886 1.360393 TTGCCTCCTCCACCCAAACT 61.360 55.000 0.00 0.00 0.00 2.66
1077 1099 0.254178 TAAGCCTCTACTCCGACGGT 59.746 55.000 14.79 0.00 0.00 4.83
1780 1817 3.414700 CCGTGTCTCAAGCGGCAC 61.415 66.667 1.45 0.00 38.99 5.01
1937 1974 0.990374 ATATCTCCCATGGCTGCTCC 59.010 55.000 6.09 0.00 0.00 4.70
2040 2082 5.302059 TGCACTATACTGGTCCTCTATGAAC 59.698 44.000 0.00 0.00 0.00 3.18
2145 2187 4.096833 GCAAAGACCATATCTGATGCAACA 59.903 41.667 0.00 0.00 44.69 3.33
2350 2392 3.118775 TGATCACTCGTTGGTTGGGATAG 60.119 47.826 0.00 0.00 0.00 2.08
2408 2450 3.956199 AGGGTGCAGGATATGTTTGAATG 59.044 43.478 0.00 0.00 0.00 2.67
2557 2599 3.093057 ACACTTAGCACTGAGGTCTAGG 58.907 50.000 0.00 0.00 0.00 3.02
2844 2888 2.094675 GCTCAACTGCCCATATTGTGT 58.905 47.619 0.00 0.00 0.00 3.72
2845 2889 2.159338 GCTCAACTGCCCATATTGTGTG 60.159 50.000 0.00 0.00 0.00 3.82
2846 2890 1.818060 TCAACTGCCCATATTGTGTGC 59.182 47.619 0.00 0.00 0.00 4.57
2847 2891 1.820519 CAACTGCCCATATTGTGTGCT 59.179 47.619 0.00 0.00 31.90 4.40
2848 2892 3.016031 CAACTGCCCATATTGTGTGCTA 58.984 45.455 0.00 0.00 31.90 3.49
2849 2893 2.643551 ACTGCCCATATTGTGTGCTAC 58.356 47.619 0.00 0.00 31.90 3.58
2992 3203 1.826720 TCCTGCTGCCCAATGAATTTC 59.173 47.619 0.00 0.00 0.00 2.17
3014 3225 7.984422 TTCTGTTAACTCATGTCACATTGAT 57.016 32.000 7.22 0.00 0.00 2.57
3023 3234 5.472148 TCATGTCACATTGATTTTTCCAGC 58.528 37.500 0.00 0.00 0.00 4.85
3047 3258 3.181487 GCCTTTTGTTCTTCTGCTGTCAA 60.181 43.478 0.00 0.00 0.00 3.18
3197 3408 0.035056 CTGCTCCCTCCGTTCCAAAT 60.035 55.000 0.00 0.00 0.00 2.32
3285 3502 0.034059 GGGACGGATGGAGCACTATG 59.966 60.000 0.00 0.00 0.00 2.23
3403 3638 4.037923 TGCACTCAGTTCCAAAGGAAAATC 59.962 41.667 0.00 0.00 43.86 2.17
3473 3814 2.291465 TGTTGTTGCATGCTCTCAGTTC 59.709 45.455 20.33 9.66 0.00 3.01
3562 3908 3.091545 GGCCAATCTGTCAAGGAAATGA 58.908 45.455 0.00 0.00 0.00 2.57
3728 4074 6.656632 TCCTATGTATGTCTTCCTGTCATC 57.343 41.667 0.00 0.00 0.00 2.92
3742 4088 2.353889 CTGTCATCGGGCAATCTGAAAG 59.646 50.000 0.00 0.00 33.91 2.62
3882 4400 7.354025 TGCACAGCAATTTTATGAAATCTTG 57.646 32.000 0.00 0.00 34.76 3.02
4299 4832 9.448438 TGAATATTGATACCAAGTATATGCACC 57.552 33.333 0.00 0.00 35.48 5.01
4306 4839 5.372343 ACCAAGTATATGCACCAGAATGA 57.628 39.130 0.00 0.00 39.69 2.57
4474 5044 8.881743 TCTTTTACGTTGTGTGTAAAGTATTGT 58.118 29.630 0.00 0.00 41.35 2.71
4556 5126 5.655532 CCTGAATTCCTGGTGAATCAATTCT 59.344 40.000 13.92 0.00 42.97 2.40
4572 5142 1.028905 TTCTGCAGGTTGGGAAAACG 58.971 50.000 15.13 0.00 0.00 3.60
4859 5429 6.856895 GCTGTATGCAATAGTTTTCTTCCTT 58.143 36.000 0.00 0.00 42.31 3.36
4866 5436 5.648092 GCAATAGTTTTCTTCCTTCCTAGCA 59.352 40.000 0.00 0.00 0.00 3.49
4889 5459 7.231317 AGCAAACATTGTATAGGTGGATATTGG 59.769 37.037 0.00 0.00 0.00 3.16
5385 5974 9.860898 GGAGCTGAACAAATACTTTTATCATTT 57.139 29.630 0.00 0.00 0.00 2.32
5395 5984 8.904099 AATACTTTTATCATTTACTCCCTCCG 57.096 34.615 0.00 0.00 0.00 4.63
5396 5985 6.309389 ACTTTTATCATTTACTCCCTCCGT 57.691 37.500 0.00 0.00 0.00 4.69
5397 5986 6.718294 ACTTTTATCATTTACTCCCTCCGTT 58.282 36.000 0.00 0.00 0.00 4.44
5398 5987 6.822170 ACTTTTATCATTTACTCCCTCCGTTC 59.178 38.462 0.00 0.00 0.00 3.95
5399 5988 3.840124 ATCATTTACTCCCTCCGTTCC 57.160 47.619 0.00 0.00 0.00 3.62
5400 5989 2.829023 TCATTTACTCCCTCCGTTCCT 58.171 47.619 0.00 0.00 0.00 3.36
5401 5990 3.985127 TCATTTACTCCCTCCGTTCCTA 58.015 45.455 0.00 0.00 0.00 2.94
5402 5991 4.355549 TCATTTACTCCCTCCGTTCCTAA 58.644 43.478 0.00 0.00 0.00 2.69
5403 5992 4.778958 TCATTTACTCCCTCCGTTCCTAAA 59.221 41.667 0.00 0.00 0.00 1.85
5404 5993 5.427481 TCATTTACTCCCTCCGTTCCTAAAT 59.573 40.000 0.00 0.00 0.00 1.40
5405 5994 6.612456 TCATTTACTCCCTCCGTTCCTAAATA 59.388 38.462 0.00 0.00 0.00 1.40
5406 5995 7.291651 TCATTTACTCCCTCCGTTCCTAAATAT 59.708 37.037 0.00 0.00 0.00 1.28
5407 5996 7.441903 TTTACTCCCTCCGTTCCTAAATATT 57.558 36.000 0.00 0.00 0.00 1.28
5408 5997 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
5409 5998 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
5410 5999 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
5411 6000 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
5412 6001 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
5413 6002 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
5414 6003 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
5415 6004 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
5416 6005 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
5417 6006 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
5418 6007 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
5419 6008 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
5432 6021 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
5433 6022 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
5434 6023 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
5435 6024 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
5436 6025 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
5437 6026 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
5438 6027 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
5439 6028 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
5440 6029 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
5442 6031 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
5443 6032 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
5444 6033 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
5445 6034 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
5446 6035 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
5447 6036 3.505464 ACAAGTGACTACATACGGAGC 57.495 47.619 0.00 0.00 0.00 4.70
5448 6037 2.823747 ACAAGTGACTACATACGGAGCA 59.176 45.455 0.00 0.00 0.00 4.26
5449 6038 3.257375 ACAAGTGACTACATACGGAGCAA 59.743 43.478 0.00 0.00 0.00 3.91
5450 6039 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
5451 6040 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
5452 6041 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
5453 6042 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
5454 6043 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
5455 6044 5.005779 GTGACTACATACGGAGCAAAATGAG 59.994 44.000 0.00 0.00 0.00 2.90
5456 6045 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
5457 6046 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
5458 6047 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
5459 6048 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
5460 6049 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
5461 6050 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
5462 6051 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
5463 6052 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
5464 6053 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
5465 6054 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
5466 6055 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
5509 6098 7.962964 ACATCCGTATGTTATAGTCCATTTG 57.037 36.000 0.00 0.00 44.07 2.32
5510 6099 7.732025 ACATCCGTATGTTATAGTCCATTTGA 58.268 34.615 0.00 0.00 44.07 2.69
5511 6100 8.208224 ACATCCGTATGTTATAGTCCATTTGAA 58.792 33.333 0.00 0.00 44.07 2.69
5512 6101 9.051679 CATCCGTATGTTATAGTCCATTTGAAA 57.948 33.333 0.00 0.00 0.00 2.69
5513 6102 9.793259 ATCCGTATGTTATAGTCCATTTGAAAT 57.207 29.630 0.00 0.00 0.00 2.17
5514 6103 9.268268 TCCGTATGTTATAGTCCATTTGAAATC 57.732 33.333 0.00 0.00 0.00 2.17
5515 6104 9.273016 CCGTATGTTATAGTCCATTTGAAATCT 57.727 33.333 0.00 0.00 0.00 2.40
5526 6115 9.354673 AGTCCATTTGAAATCTCTAAAAAGACA 57.645 29.630 0.00 0.00 0.00 3.41
5527 6116 9.617975 GTCCATTTGAAATCTCTAAAAAGACAG 57.382 33.333 0.00 0.00 0.00 3.51
5528 6117 9.573166 TCCATTTGAAATCTCTAAAAAGACAGA 57.427 29.630 0.00 0.00 0.00 3.41
5544 6133 9.467796 AAAAAGACAGATATTTAGGAAAGGAGG 57.532 33.333 0.00 0.00 0.00 4.30
5545 6134 6.755542 AGACAGATATTTAGGAAAGGAGGG 57.244 41.667 0.00 0.00 0.00 4.30
5546 6135 6.453476 AGACAGATATTTAGGAAAGGAGGGA 58.547 40.000 0.00 0.00 0.00 4.20
5547 6136 6.556874 AGACAGATATTTAGGAAAGGAGGGAG 59.443 42.308 0.00 0.00 0.00 4.30
5757 6347 2.577700 TGGTTAAATGGCGTTGTCACT 58.422 42.857 0.00 0.00 0.00 3.41
6766 7421 0.178990 GCCAACTCTGGACCCAGTTT 60.179 55.000 15.06 7.67 46.92 2.66
6767 7422 1.754201 GCCAACTCTGGACCCAGTTTT 60.754 52.381 15.06 7.35 46.92 2.43
6803 7466 2.738314 GCCACCATTTTGATGCTGTTTC 59.262 45.455 0.00 0.00 0.00 2.78
6892 7558 6.856135 TCTTAACTCGAAAGAAGGGTTTTC 57.144 37.500 0.00 0.00 41.32 2.29
6901 7567 6.548251 TCGAAAGAAGGGTTTTCTGGTATTTT 59.452 34.615 0.00 0.00 37.03 1.82
6928 7594 3.077359 GGAAGTTGGAACTGATGAGTGG 58.923 50.000 0.00 0.00 39.66 4.00
7016 7702 5.876651 TGATAATGGCTAGCTGAGAGAAA 57.123 39.130 15.72 0.00 0.00 2.52
7127 7835 1.529226 CGTTGTCTGTTTATGGCCCA 58.471 50.000 0.00 0.00 0.00 5.36
7328 8133 3.787001 CGAGAGAGGGGGTTGGGC 61.787 72.222 0.00 0.00 0.00 5.36
7418 10777 4.008916 TCCCAGCTTAATCCTCCTAACT 57.991 45.455 0.00 0.00 0.00 2.24
7485 12246 6.177610 CCCACAAATACTAATACACACAGGT 58.822 40.000 0.00 0.00 0.00 4.00
7587 12348 1.149174 CTGTCCTGCACCACCACTT 59.851 57.895 0.00 0.00 0.00 3.16
7598 12359 2.028476 CACCACCACTTAGAATCGGACA 60.028 50.000 0.00 0.00 0.00 4.02
7658 12419 5.046529 CAGGTATCAGATCCAAGAACGAAG 58.953 45.833 0.00 0.00 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
765 772 2.688538 GTAGAGGGGAGGACCGGT 59.311 66.667 6.92 6.92 41.60 5.28
811 821 0.541392 TGGTGGAATGTGGGATCGAG 59.459 55.000 0.00 0.00 0.00 4.04
1921 1958 2.041762 AGGAGCAGCCATGGGAGA 59.958 61.111 15.13 0.00 40.02 3.71
1937 1974 2.716814 GCATCAGAATCTGCCCCAG 58.283 57.895 5.18 0.00 32.15 4.45
2061 2103 1.881324 TCAACCGTCACTGATACGACA 59.119 47.619 7.83 0.00 42.90 4.35
2145 2187 3.007398 ACTCCTGATTCTTGAGAAAGCGT 59.993 43.478 9.16 0.00 37.61 5.07
2208 2250 4.254402 ACTAGTGTCCGGAAACTTCTTC 57.746 45.455 31.90 4.93 0.00 2.87
2350 2392 3.768922 AGACTGGCGGCTGAGAGC 61.769 66.667 22.54 8.43 41.46 4.09
2557 2599 5.822519 TGAAACCATGCCATATGTAGAAGTC 59.177 40.000 1.24 0.00 0.00 3.01
2844 2888 5.363868 AGATGGTTATCAGTTAGCAGTAGCA 59.636 40.000 0.00 0.00 38.37 3.49
2845 2889 5.848406 AGATGGTTATCAGTTAGCAGTAGC 58.152 41.667 0.00 0.00 37.06 3.58
2846 2890 7.254590 GCAAAGATGGTTATCAGTTAGCAGTAG 60.255 40.741 0.00 0.00 35.70 2.57
2847 2891 6.538742 GCAAAGATGGTTATCAGTTAGCAGTA 59.461 38.462 0.00 0.00 35.70 2.74
2848 2892 5.355350 GCAAAGATGGTTATCAGTTAGCAGT 59.645 40.000 0.00 0.00 35.70 4.40
2849 2893 5.355071 TGCAAAGATGGTTATCAGTTAGCAG 59.645 40.000 0.00 0.00 35.70 4.24
2964 3174 0.407528 TGGGCAGCAGGAATTTACCA 59.592 50.000 0.00 0.00 0.00 3.25
2992 3203 9.467258 AAAAATCAATGTGACATGAGTTAACAG 57.533 29.630 8.61 0.00 33.22 3.16
3014 3225 3.197549 AGAACAAAAGGCTGCTGGAAAAA 59.802 39.130 0.00 0.00 0.00 1.94
3023 3234 3.009301 CAGCAGAAGAACAAAAGGCTG 57.991 47.619 0.00 0.00 40.88 4.85
3403 3638 4.467795 TCCAAGAGGTTAGACTGAATGGAG 59.532 45.833 0.00 0.00 35.89 3.86
3562 3908 1.131638 TGAGAACTGGAGGTGCTTGT 58.868 50.000 0.00 0.00 33.02 3.16
3728 4074 1.089920 CTGGTCTTTCAGATTGCCCG 58.910 55.000 0.00 0.00 36.93 6.13
3742 4088 7.502561 ACATACAAAGGAAATTATAGGCTGGTC 59.497 37.037 0.00 0.00 0.00 4.02
3834 4352 2.504367 CAGGGATTTTCAACTGACGGT 58.496 47.619 0.00 0.00 32.86 4.83
3882 4400 3.250280 GGTCGTTTTTCTCCCAAGAAGAC 59.750 47.826 0.00 0.00 42.36 3.01
4261 4793 8.858094 TGGTATCAATATTCAGCATGCATAAAA 58.142 29.630 21.98 8.43 34.76 1.52
4299 4832 5.463724 GGAGTACCTAAATTCGCTCATTCTG 59.536 44.000 0.00 0.00 0.00 3.02
4393 4963 8.934697 AGCTTATAATAACAACATACTCCCTCA 58.065 33.333 0.00 0.00 0.00 3.86
4556 5126 1.134965 CAAACGTTTTCCCAACCTGCA 60.135 47.619 11.66 0.00 0.00 4.41
4572 5142 2.352127 GGCCACAATCTCAGAAGCAAAC 60.352 50.000 0.00 0.00 0.00 2.93
4652 5222 4.021016 AGTTCACTACATGTCTCTTGGTCC 60.021 45.833 0.00 0.00 0.00 4.46
4853 5423 7.227512 CCTATACAATGTTTGCTAGGAAGGAAG 59.772 40.741 0.00 0.00 39.74 3.46
4854 5424 7.054124 CCTATACAATGTTTGCTAGGAAGGAA 58.946 38.462 0.00 0.00 39.74 3.36
4855 5425 6.157994 ACCTATACAATGTTTGCTAGGAAGGA 59.842 38.462 17.00 0.00 39.74 3.36
4856 5426 6.260936 CACCTATACAATGTTTGCTAGGAAGG 59.739 42.308 17.00 0.00 39.74 3.46
4859 5429 5.427157 TCCACCTATACAATGTTTGCTAGGA 59.573 40.000 17.00 4.76 39.74 2.94
4866 5436 6.206634 CGCCAATATCCACCTATACAATGTTT 59.793 38.462 0.00 0.00 0.00 2.83
4889 5459 5.688176 CCTACTTTCTAGAATACTCTTGCGC 59.312 44.000 5.89 0.00 32.70 6.09
4924 5494 7.996644 TCTGTACAAGGACAATTAAAACCTCTT 59.003 33.333 0.00 0.00 31.89 2.85
5385 5974 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
5386 5975 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
5387 5976 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
5388 5977 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
5389 5978 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
5390 5979 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
5391 5980 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
5392 5981 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
5393 5982 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
5406 5995 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
5407 5996 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
5408 5997 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
5409 5998 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
5410 5999 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
5411 6000 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
5412 6001 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
5413 6002 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
5414 6003 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
5415 6004 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
5416 6005 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
5417 6006 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
5418 6007 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
5419 6008 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
5420 6009 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
5421 6010 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
5422 6011 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
5423 6012 5.456548 TCCGTATGTAGTCACTTGTTGAA 57.543 39.130 0.00 0.00 35.39 2.69
5424 6013 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
5425 6014 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
5426 6015 3.257375 TGCTCCGTATGTAGTCACTTGTT 59.743 43.478 0.00 0.00 0.00 2.83
5427 6016 2.823747 TGCTCCGTATGTAGTCACTTGT 59.176 45.455 0.00 0.00 0.00 3.16
5428 6017 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
5429 6018 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
5430 6019 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
5431 6020 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
5432 6021 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
5433 6022 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
5434 6023 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
5435 6024 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
5436 6025 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
5437 6026 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
5438 6027 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
5439 6028 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
5440 6029 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
5441 6030 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
5442 6031 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
5443 6032 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
5444 6033 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
5483 6072 9.653287 CAAATGGACTATAACATACGGATGTAT 57.347 33.333 15.10 10.34 45.93 2.29
5484 6073 8.862085 TCAAATGGACTATAACATACGGATGTA 58.138 33.333 15.10 3.00 45.93 2.29
5486 6075 8.601845 TTCAAATGGACTATAACATACGGATG 57.398 34.615 5.94 5.94 39.16 3.51
5487 6076 9.793259 ATTTCAAATGGACTATAACATACGGAT 57.207 29.630 0.00 0.00 0.00 4.18
5488 6077 9.268268 GATTTCAAATGGACTATAACATACGGA 57.732 33.333 0.00 0.00 0.00 4.69
5489 6078 9.273016 AGATTTCAAATGGACTATAACATACGG 57.727 33.333 0.00 0.00 0.00 4.02
5500 6089 9.354673 TGTCTTTTTAGAGATTTCAAATGGACT 57.645 29.630 0.00 0.00 0.00 3.85
5501 6090 9.617975 CTGTCTTTTTAGAGATTTCAAATGGAC 57.382 33.333 0.00 0.00 0.00 4.02
5502 6091 9.573166 TCTGTCTTTTTAGAGATTTCAAATGGA 57.427 29.630 0.00 0.00 0.00 3.41
5518 6107 9.467796 CCTCCTTTCCTAAATATCTGTCTTTTT 57.532 33.333 0.00 0.00 0.00 1.94
5519 6108 8.055790 CCCTCCTTTCCTAAATATCTGTCTTTT 58.944 37.037 0.00 0.00 0.00 2.27
5520 6109 7.406151 TCCCTCCTTTCCTAAATATCTGTCTTT 59.594 37.037 0.00 0.00 0.00 2.52
5521 6110 6.909158 TCCCTCCTTTCCTAAATATCTGTCTT 59.091 38.462 0.00 0.00 0.00 3.01
5522 6111 6.453476 TCCCTCCTTTCCTAAATATCTGTCT 58.547 40.000 0.00 0.00 0.00 3.41
5523 6112 6.327887 ACTCCCTCCTTTCCTAAATATCTGTC 59.672 42.308 0.00 0.00 0.00 3.51
5524 6113 6.213525 ACTCCCTCCTTTCCTAAATATCTGT 58.786 40.000 0.00 0.00 0.00 3.41
5525 6114 6.755542 ACTCCCTCCTTTCCTAAATATCTG 57.244 41.667 0.00 0.00 0.00 2.90
5526 6115 9.467030 AATTACTCCCTCCTTTCCTAAATATCT 57.533 33.333 0.00 0.00 0.00 1.98
5527 6116 9.727859 GAATTACTCCCTCCTTTCCTAAATATC 57.272 37.037 0.00 0.00 0.00 1.63
5528 6117 9.467030 AGAATTACTCCCTCCTTTCCTAAATAT 57.533 33.333 0.00 0.00 0.00 1.28
5529 6118 8.871570 AGAATTACTCCCTCCTTTCCTAAATA 57.128 34.615 0.00 0.00 0.00 1.40
5530 6119 7.406151 TGAGAATTACTCCCTCCTTTCCTAAAT 59.594 37.037 0.00 0.00 44.34 1.40
5531 6120 6.733807 TGAGAATTACTCCCTCCTTTCCTAAA 59.266 38.462 0.00 0.00 44.34 1.85
5532 6121 6.269194 TGAGAATTACTCCCTCCTTTCCTAA 58.731 40.000 0.00 0.00 44.34 2.69
5533 6122 5.850278 TGAGAATTACTCCCTCCTTTCCTA 58.150 41.667 0.00 0.00 44.34 2.94
5534 6123 4.699994 TGAGAATTACTCCCTCCTTTCCT 58.300 43.478 0.00 0.00 44.34 3.36
5535 6124 5.104318 ACATGAGAATTACTCCCTCCTTTCC 60.104 44.000 0.00 0.00 44.34 3.13
5536 6125 5.995446 ACATGAGAATTACTCCCTCCTTTC 58.005 41.667 0.00 0.00 44.34 2.62
5537 6126 6.394345 AACATGAGAATTACTCCCTCCTTT 57.606 37.500 0.00 0.00 44.34 3.11
5538 6127 7.366011 CCTTAACATGAGAATTACTCCCTCCTT 60.366 40.741 0.00 0.00 44.34 3.36
5539 6128 6.100424 CCTTAACATGAGAATTACTCCCTCCT 59.900 42.308 0.00 0.00 44.34 3.69
5540 6129 6.126739 ACCTTAACATGAGAATTACTCCCTCC 60.127 42.308 0.00 0.00 44.34 4.30
5541 6130 6.890293 ACCTTAACATGAGAATTACTCCCTC 58.110 40.000 0.00 0.00 44.34 4.30
5542 6131 6.893020 ACCTTAACATGAGAATTACTCCCT 57.107 37.500 0.00 0.00 44.34 4.20
5543 6132 9.274206 GATTACCTTAACATGAGAATTACTCCC 57.726 37.037 0.00 0.00 44.34 4.30
5544 6133 9.274206 GGATTACCTTAACATGAGAATTACTCC 57.726 37.037 0.00 0.00 44.34 3.85
5546 6135 9.838339 CAGGATTACCTTAACATGAGAATTACT 57.162 33.333 0.00 0.00 45.36 2.24
5547 6136 9.832445 TCAGGATTACCTTAACATGAGAATTAC 57.168 33.333 0.00 0.00 45.36 1.89
5757 6347 8.474025 CAATATAACCTAGGCAATTTGAACCAA 58.526 33.333 9.30 0.00 0.00 3.67
6803 7466 1.462283 CAATGTCAGAGTGACCAAGCG 59.538 52.381 4.65 0.00 46.40 4.68
6892 7558 7.049799 TCCAACTTCCAAAGAAAAATACCAG 57.950 36.000 0.00 0.00 0.00 4.00
6901 7567 5.445069 TCATCAGTTCCAACTTCCAAAGAA 58.555 37.500 0.00 0.00 37.08 2.52
6928 7594 5.409520 TGACATTAGAAGTCAAGACATGCAC 59.590 40.000 2.72 0.00 42.57 4.57
7016 7702 5.221441 CCTGATGGTGATGCATCAAAATCAT 60.221 40.000 33.94 29.05 38.82 2.45
7127 7835 3.016736 CCAGATACAAACAAAGGCCGAT 58.983 45.455 0.00 0.00 0.00 4.18
7220 7946 3.619233 AAAGGGTCGACATTTTCAACG 57.381 42.857 18.91 0.00 0.00 4.10
7375 8182 6.464607 GGGATGGTTAGGAGGAGAGTTTTATC 60.465 46.154 0.00 0.00 0.00 1.75
7382 8189 2.324541 CTGGGATGGTTAGGAGGAGAG 58.675 57.143 0.00 0.00 0.00 3.20
7384 8191 0.761802 GCTGGGATGGTTAGGAGGAG 59.238 60.000 0.00 0.00 0.00 3.69
7418 10777 3.010138 GGGTATGGCATTAAGCTGGGATA 59.990 47.826 4.78 0.00 44.79 2.59
7485 12246 8.467598 GGTAGAATTACTGTACTGTCTGATGAA 58.532 37.037 8.85 0.00 0.00 2.57
7529 12290 1.303236 ATTTAGGTGCGGCTGTGCA 60.303 52.632 0.00 0.00 43.95 4.57
7587 12348 4.801330 TTTCTGCTTCTGTCCGATTCTA 57.199 40.909 0.00 0.00 0.00 2.10
7598 12359 4.006319 CCTCCGAGAATTTTTCTGCTTCT 58.994 43.478 0.00 0.00 40.87 2.85
7658 12419 7.021790 GCTAGTTGTAACAAAATCAGTAAGGC 58.978 38.462 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.