Multiple sequence alignment - TraesCS3D01G479400

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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 TraesCS3D01G479400 chr3D 100.000 6802 0 0 1 6802 578519570 578526371 0.000000e+00 12562.0
1 TraesCS3D01G479400 chr3D 90.405 1876 141 16 3753 5615 578566710 578568559 0.000000e+00 2431.0
2 TraesCS3D01G479400 chr3D 88.458 1083 96 16 3750 4821 578549637 578550701 0.000000e+00 1280.0
3 TraesCS3D01G479400 chr3D 82.199 1073 133 22 1446 2481 578564911 578565962 0.000000e+00 870.0
4 TraesCS3D01G479400 chr3D 88.739 444 36 4 5721 6160 578568556 578568989 1.300000e-146 531.0
5 TraesCS3D01G479400 chr3D 83.486 545 77 8 2692 3226 578533522 578534063 4.740000e-136 496.0
6 TraesCS3D01G479400 chr3D 84.813 507 55 11 1603 2101 603351172 603350680 2.200000e-134 490.0
7 TraesCS3D01G479400 chr3D 85.681 426 38 12 4823 5243 578552289 578552696 1.750000e-115 427.0
8 TraesCS3D01G479400 chr3D 86.402 353 46 1 2716 3068 559489246 559489596 1.070000e-102 385.0
9 TraesCS3D01G479400 chr3D 81.107 524 56 23 3077 3599 559547791 559548272 4.980000e-101 379.0
10 TraesCS3D01G479400 chr3D 82.796 372 41 7 3227 3597 578534098 578534447 1.840000e-80 311.0
11 TraesCS3D01G479400 chr3D 81.748 389 32 18 6269 6649 578569190 578569547 8.630000e-74 289.0
12 TraesCS3D01G479400 chr3D 94.643 112 4 1 3595 3706 578523059 578523168 9.070000e-39 172.0
13 TraesCS3D01G479400 chr3D 94.643 112 4 1 3490 3599 578523164 578523275 9.070000e-39 172.0
14 TraesCS3D01G479400 chr3D 83.537 164 16 10 1603 1759 559454369 559454528 7.110000e-30 143.0
15 TraesCS3D01G479400 chr3D 87.755 98 8 2 1163 1257 603351759 603351663 2.010000e-20 111.0
16 TraesCS3D01G479400 chr3D 94.366 71 4 0 747 817 603352053 603351983 7.210000e-20 110.0
17 TraesCS3D01G479400 chr3D 94.545 55 2 1 1390 1444 603351664 603351611 4.370000e-12 84.2
18 TraesCS3D01G479400 chr3D 89.091 55 5 1 1390 1444 559449623 559449676 4.400000e-07 67.6
19 TraesCS3D01G479400 chr3D 89.091 55 5 1 1390 1444 559453361 559453414 4.400000e-07 67.6
20 TraesCS3D01G479400 chr3D 89.091 55 5 1 1390 1444 559459149 559459202 4.400000e-07 67.6
21 TraesCS3D01G479400 chr3B 94.333 3229 124 22 3595 6802 772182925 772179735 0.000000e+00 4894.0
22 TraesCS3D01G479400 chr3B 94.272 3160 118 25 3692 6802 772253631 772250486 0.000000e+00 4774.0
23 TraesCS3D01G479400 chr3B 93.347 2931 142 19 671 3584 772256827 772253933 0.000000e+00 4283.0
24 TraesCS3D01G479400 chr3B 92.857 2954 126 29 656 3584 772171292 772168399 0.000000e+00 4207.0
25 TraesCS3D01G479400 chr3B 91.311 2106 134 20 1301 3386 772185069 772182993 0.000000e+00 2830.0
26 TraesCS3D01G479400 chr3B 90.938 1876 131 14 3753 5615 771841912 771840063 0.000000e+00 2486.0
27 TraesCS3D01G479400 chr3B 90.032 1876 139 14 3753 5615 772224919 772223079 0.000000e+00 2385.0
28 TraesCS3D01G479400 chr3B 95.107 1349 62 2 4756 6102 772161881 772160535 0.000000e+00 2122.0
29 TraesCS3D01G479400 chr3B 93.132 1092 42 14 3692 4764 772168096 772167019 0.000000e+00 1570.0
30 TraesCS3D01G479400 chr3B 83.344 1591 204 28 1474 3030 771843596 771842033 0.000000e+00 1413.0
31 TraesCS3D01G479400 chr3B 81.568 1633 226 39 1446 3030 772226647 772225042 0.000000e+00 1279.0
32 TraesCS3D01G479400 chr3B 85.382 1033 132 12 1606 2627 742664823 742665847 0.000000e+00 1053.0
33 TraesCS3D01G479400 chr3B 92.642 598 19 5 656 1241 772186045 772185461 0.000000e+00 837.0
34 TraesCS3D01G479400 chr3B 92.238 554 33 5 111 660 772186655 772186108 0.000000e+00 776.0
35 TraesCS3D01G479400 chr3B 92.322 547 33 4 116 659 772171900 772171360 0.000000e+00 769.0
36 TraesCS3D01G479400 chr3B 91.392 546 40 2 116 660 772260169 772259630 0.000000e+00 741.0
37 TraesCS3D01G479400 chr3B 84.857 733 97 7 1821 2540 772074099 772073368 0.000000e+00 726.0
38 TraesCS3D01G479400 chr3B 84.720 733 98 7 1821 2540 771989410 771988679 0.000000e+00 721.0
39 TraesCS3D01G479400 chr3B 89.140 442 37 3 5721 6160 771840066 771839634 2.160000e-149 540.0
40 TraesCS3D01G479400 chr3B 89.140 442 37 3 5721 6160 772223082 772222650 2.160000e-149 540.0
41 TraesCS3D01G479400 chr3B 85.389 527 61 4 2716 3226 742665847 742666373 3.610000e-147 532.0
42 TraesCS3D01G479400 chr3B 85.317 504 54 8 1603 2098 810447985 810448476 2.830000e-138 503.0
43 TraesCS3D01G479400 chr3B 94.444 270 15 0 6533 6802 772145997 772145728 3.790000e-112 416.0
44 TraesCS3D01G479400 chr3B 89.172 314 16 6 6217 6529 772146636 772146340 6.440000e-100 375.0
45 TraesCS3D01G479400 chr3B 93.860 228 14 0 6533 6760 771997604 771997377 1.820000e-90 344.0
46 TraesCS3D01G479400 chr3B 87.586 290 36 0 2251 2540 772026886 772026597 3.040000e-88 337.0
47 TraesCS3D01G479400 chr3B 86.722 241 26 6 3750 3988 742667555 742667791 5.230000e-66 263.0
48 TraesCS3D01G479400 chr3B 95.082 122 5 1 1 122 772186819 772186699 2.500000e-44 191.0
49 TraesCS3D01G479400 chr3B 94.262 122 6 1 1 122 772260342 772260222 1.160000e-42 185.0
50 TraesCS3D01G479400 chr3B 78.521 284 53 8 111 391 720985415 720985693 5.420000e-41 180.0
51 TraesCS3D01G479400 chr3B 93.443 122 6 2 1 122 772172071 772171952 5.420000e-41 180.0
52 TraesCS3D01G479400 chr3B 98.947 95 1 0 6128 6222 772160536 772160442 3.260000e-38 171.0
53 TraesCS3D01G479400 chr3B 97.895 95 2 0 3595 3689 772168493 772168399 1.520000e-36 165.0
54 TraesCS3D01G479400 chr3B 97.895 95 2 0 3595 3689 772254027 772253933 1.520000e-36 165.0
55 TraesCS3D01G479400 chr3B 93.069 101 6 1 6549 6649 772222244 772222145 5.500000e-31 147.0
56 TraesCS3D01G479400 chr3B 86.466 133 9 4 3467 3599 772182947 772182824 3.310000e-28 137.0
57 TraesCS3D01G479400 chr3B 94.444 72 4 0 747 818 810509644 810509715 2.010000e-20 111.0
58 TraesCS3D01G479400 chr3B 92.453 53 3 1 1390 1442 742664406 742664457 2.630000e-09 75.0
59 TraesCS3D01G479400 chr3B 100.000 38 0 0 749 786 810447121 810447158 3.400000e-08 71.3
60 TraesCS3D01G479400 chr3A 92.431 2312 109 21 1294 3583 714111039 714108772 0.000000e+00 3240.0
61 TraesCS3D01G479400 chr3A 94.811 2062 78 6 3681 5717 714108200 714106143 0.000000e+00 3188.0
62 TraesCS3D01G479400 chr3A 90.235 1874 134 21 3753 5615 714026633 714024798 0.000000e+00 2401.0
63 TraesCS3D01G479400 chr3A 87.261 1672 149 31 3750 5397 714086865 714085234 0.000000e+00 1849.0
64 TraesCS3D01G479400 chr3A 96.056 862 32 1 5943 6802 714093562 714092701 0.000000e+00 1402.0
65 TraesCS3D01G479400 chr3A 94.667 600 24 3 671 1270 714111895 714111304 0.000000e+00 924.0
66 TraesCS3D01G479400 chr3A 93.047 489 32 2 198 684 714116491 714116003 0.000000e+00 713.0
67 TraesCS3D01G479400 chr3A 85.714 525 56 2 2718 3226 628651649 628652170 2.790000e-148 536.0
68 TraesCS3D01G479400 chr3A 85.714 525 56 2 2718 3226 695913316 695913837 2.790000e-148 536.0
69 TraesCS3D01G479400 chr3A 88.616 448 34 5 5721 6160 714024801 714024363 4.670000e-146 529.0
70 TraesCS3D01G479400 chr3A 91.860 344 23 3 5431 5773 714085237 714084898 6.170000e-130 475.0
71 TraesCS3D01G479400 chr3A 83.333 522 63 14 1612 2121 695912358 695912867 1.730000e-125 460.0
72 TraesCS3D01G479400 chr3A 97.154 246 7 0 5681 5926 714106096 714105851 3.790000e-112 416.0
73 TraesCS3D01G479400 chr3A 83.512 467 52 10 1612 2065 628642689 628643143 4.910000e-111 412.0
74 TraesCS3D01G479400 chr3A 83.333 372 39 7 3227 3597 714088104 714087755 8.510000e-84 322.0
75 TraesCS3D01G479400 chr3A 78.808 453 56 24 2177 2627 628651233 628651647 1.120000e-67 268.0
76 TraesCS3D01G479400 chr3A 83.936 249 27 6 6269 6509 714024177 714023934 6.860000e-55 226.0
77 TraesCS3D01G479400 chr3A 82.447 188 27 5 3224 3408 628652202 628652386 7.060000e-35 159.0
78 TraesCS3D01G479400 chr3A 87.597 129 15 1 3471 3599 628653521 628653648 1.530000e-31 148.0
79 TraesCS3D01G479400 chr3A 97.647 85 2 0 6568 6652 714023703 714023619 5.500000e-31 147.0
80 TraesCS3D01G479400 chr3A 84.892 139 19 2 1119 1257 695911541 695911677 9.200000e-29 139.0
81 TraesCS3D01G479400 chr3A 86.538 104 12 2 3224 3326 695913869 695913971 5.580000e-21 113.0
82 TraesCS3D01G479400 chr3A 82.540 126 22 0 1132 1257 628641882 628642007 2.010000e-20 111.0
83 TraesCS3D01G479400 chr5B 76.404 267 48 14 160 420 270301378 270301121 5.540000e-26 130.0
84 TraesCS3D01G479400 chr6B 83.333 120 15 5 4 122 705762190 705762305 9.330000e-19 106.0
85 TraesCS3D01G479400 chr4B 85.567 97 10 4 344 438 584949499 584949405 1.560000e-16 99.0
86 TraesCS3D01G479400 chr5D 81.513 119 19 3 4 122 125611003 125610888 2.020000e-15 95.3


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 TraesCS3D01G479400 chr3D 578519570 578526371 6801 False 4302.000000 12562 96.428667 1 6802 3 chr3D.!!$F5 6801
1 TraesCS3D01G479400 chr3D 578564911 578569547 4636 False 1030.250000 2431 85.772750 1446 6649 4 chr3D.!!$F8 5203
2 TraesCS3D01G479400 chr3D 578549637 578552696 3059 False 853.500000 1280 87.069500 3750 5243 2 chr3D.!!$F7 1493
3 TraesCS3D01G479400 chr3D 578533522 578534447 925 False 403.500000 496 83.141000 2692 3597 2 chr3D.!!$F6 905
4 TraesCS3D01G479400 chr3B 772250486 772256827 6341 True 3074.000000 4774 95.171333 671 6802 3 chr3B.!!$R11 6131
5 TraesCS3D01G479400 chr3B 772179735 772186819 7084 True 1610.833333 4894 92.012000 1 6802 6 chr3B.!!$R9 6801
6 TraesCS3D01G479400 chr3B 771839634 771843596 3962 True 1479.666667 2486 87.807333 1474 6160 3 chr3B.!!$R5 4686
7 TraesCS3D01G479400 chr3B 772167019 772172071 5052 True 1378.200000 4207 93.929800 1 4764 5 chr3B.!!$R8 4763
8 TraesCS3D01G479400 chr3B 772160442 772161881 1439 True 1146.500000 2122 97.027000 4756 6222 2 chr3B.!!$R7 1466
9 TraesCS3D01G479400 chr3B 772222145 772226647 4502 True 1087.750000 2385 88.452250 1446 6649 4 chr3B.!!$R10 5203
10 TraesCS3D01G479400 chr3B 772073368 772074099 731 True 726.000000 726 84.857000 1821 2540 1 chr3B.!!$R4 719
11 TraesCS3D01G479400 chr3B 771988679 771989410 731 True 721.000000 721 84.720000 1821 2540 1 chr3B.!!$R1 719
12 TraesCS3D01G479400 chr3B 742664406 742667791 3385 False 480.750000 1053 87.486500 1390 3988 4 chr3B.!!$F3 2598
13 TraesCS3D01G479400 chr3B 772259630 772260342 712 True 463.000000 741 92.827000 1 660 2 chr3B.!!$R12 659
14 TraesCS3D01G479400 chr3B 772145728 772146636 908 True 395.500000 416 91.808000 6217 6802 2 chr3B.!!$R6 585
15 TraesCS3D01G479400 chr3B 810447121 810448476 1355 False 287.150000 503 92.658500 749 2098 2 chr3B.!!$F4 1349
16 TraesCS3D01G479400 chr3A 714105851 714111895 6044 True 1942.000000 3240 94.765750 671 5926 4 chr3A.!!$R5 5255
17 TraesCS3D01G479400 chr3A 714092701 714093562 861 True 1402.000000 1402 96.056000 5943 6802 1 chr3A.!!$R1 859
18 TraesCS3D01G479400 chr3A 714084898 714088104 3206 True 882.000000 1849 87.484667 3227 5773 3 chr3A.!!$R4 2546
19 TraesCS3D01G479400 chr3A 714023619 714026633 3014 True 825.750000 2401 90.108500 3753 6652 4 chr3A.!!$R3 2899
20 TraesCS3D01G479400 chr3A 695911541 695913971 2430 False 312.000000 536 85.119250 1119 3326 4 chr3A.!!$F3 2207
21 TraesCS3D01G479400 chr3A 628651233 628653648 2415 False 277.750000 536 83.641500 2177 3599 4 chr3A.!!$F2 1422
22 TraesCS3D01G479400 chr3A 628641882 628643143 1261 False 261.500000 412 83.026000 1132 2065 2 chr3A.!!$F1 933

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
709 847 0.108138 CAATCTCTCGGTCCACCACC 60.108 60.0 0.00 0.0 42.69 4.61 F
1260 1415 0.247736 GTCGACCAAGGTGAGCTGAT 59.752 55.0 3.51 0.0 0.00 2.90 F
2131 3139 0.117140 TCCAGTGGAGATGGACACCT 59.883 55.0 8.12 0.0 41.96 4.00 F
2905 4020 0.251033 AGCATTGCAGGCAGAAGTCA 60.251 50.0 11.91 0.0 0.00 3.41 F
4110 8178 0.043637 TAGGGATCTTTGGACGGGGT 59.956 55.0 0.00 0.0 0.00 4.95 F
4718 8795 0.895100 GCCTTTGCATGGAGTGGACA 60.895 55.0 10.08 0.0 37.47 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1658 2643 0.304705 GTCCTATTGCAACATCGCCG 59.695 55.000 0.00 0.0 0.00 6.46 R
2886 4001 0.251033 TGACTTCTGCCTGCAATGCT 60.251 50.000 6.82 0.0 0.00 3.79 R
3467 5750 0.817654 CAGTGGGAGCGAGTCATACA 59.182 55.000 0.00 0.0 0.00 2.29 R
4298 8371 1.405105 CCGGTATCATGCCAACCAAAG 59.595 52.381 0.00 0.0 32.55 2.77 R
4917 10595 1.699634 CCCACCTCAGGAAACTCAAGA 59.300 52.381 0.00 0.0 40.21 3.02 R
6318 12197 0.576328 GTTTTGGCAACGCACACATG 59.424 50.000 0.00 0.0 42.51 3.21 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
90 91 3.595758 GCAGCGCCAAACACCAGT 61.596 61.111 2.29 0.00 0.00 4.00
175 234 2.664851 CCGTTGACGAAGCTGCCA 60.665 61.111 4.91 0.00 43.02 4.92
206 265 2.259818 CGAGAGACGCTGCCAAGT 59.740 61.111 0.00 0.00 34.51 3.16
249 308 2.762459 TAGAGGCCCGCCGACAAT 60.762 61.111 0.00 0.00 41.95 2.71
283 342 2.769621 ATGGATCCCGAGCTGGCA 60.770 61.111 9.90 0.00 35.87 4.92
303 362 3.202373 GCATAGAAGAAGGGGGTAAACCT 59.798 47.826 0.00 0.00 40.96 3.50
496 555 3.814268 CGCTGGGGCATGGTTTCG 61.814 66.667 0.00 0.00 38.60 3.46
623 684 2.031919 CCGTGGTTGGCTACTGCA 59.968 61.111 0.00 0.00 41.91 4.41
624 685 1.377202 CCGTGGTTGGCTACTGCAT 60.377 57.895 0.00 0.00 41.91 3.96
625 686 0.960364 CCGTGGTTGGCTACTGCATT 60.960 55.000 0.00 0.00 41.91 3.56
626 687 0.881118 CGTGGTTGGCTACTGCATTT 59.119 50.000 0.00 0.00 41.91 2.32
627 688 2.080693 CGTGGTTGGCTACTGCATTTA 58.919 47.619 0.00 0.00 41.91 1.40
628 689 2.682856 CGTGGTTGGCTACTGCATTTAT 59.317 45.455 0.00 0.00 41.91 1.40
634 695 5.125417 GGTTGGCTACTGCATTTATCAAAGA 59.875 40.000 0.00 0.00 41.91 2.52
700 838 3.550437 AACCAGAATCCAATCTCTCGG 57.450 47.619 0.00 0.00 0.00 4.63
709 847 0.108138 CAATCTCTCGGTCCACCACC 60.108 60.000 0.00 0.00 42.69 4.61
726 864 2.365582 CACCGTCCTCCCCTTTTTATG 58.634 52.381 0.00 0.00 0.00 1.90
857 995 2.092323 GGCGTTAAGAAAATCCCAGCT 58.908 47.619 0.00 0.00 0.00 4.24
917 1055 3.800924 CCAGGGATGGAAGGATAGAGAT 58.199 50.000 0.00 0.00 0.00 2.75
918 1056 4.819426 GCCAGGGATGGAAGGATAGAGATA 60.819 50.000 0.00 0.00 0.00 1.98
919 1057 4.714308 CCAGGGATGGAAGGATAGAGATAC 59.286 50.000 0.00 0.00 0.00 2.24
982 1131 3.181491 CGCTCCACAAGACAAAAAGGAAA 60.181 43.478 0.00 0.00 0.00 3.13
1258 1413 1.734477 CGTCGACCAAGGTGAGCTG 60.734 63.158 10.58 0.00 0.00 4.24
1260 1415 0.247736 GTCGACCAAGGTGAGCTGAT 59.752 55.000 3.51 0.00 0.00 2.90
1455 1939 2.160853 CACGACGATGAGCGCACAT 61.161 57.895 20.54 20.54 46.04 3.21
1537 2032 1.618837 CCGGTCATGTAGGGGTATCTG 59.381 57.143 0.00 0.00 0.00 2.90
1640 2625 9.378551 TGATATATGAACCTGTCTGTTAACAAC 57.621 33.333 10.03 11.00 0.00 3.32
1658 2643 1.174712 ACATTGCTGCAGTGTCCCAC 61.175 55.000 22.89 0.00 28.29 4.61
1818 2808 8.091449 AGTAAGTATATGTAGCTGAATCTTGCC 58.909 37.037 0.00 0.00 0.00 4.52
1900 2892 3.490348 ACAAGTCATAACAGCCAAGCTT 58.510 40.909 0.00 0.00 36.40 3.74
2098 3106 3.193903 TCAAATGCACATTGATCCACCTG 59.806 43.478 11.62 0.00 0.00 4.00
2131 3139 0.117140 TCCAGTGGAGATGGACACCT 59.883 55.000 8.12 0.00 41.96 4.00
2440 3457 6.811665 AGTAAGTGTCGATCATTTTCATTCGA 59.188 34.615 0.00 0.00 38.20 3.71
2467 3486 6.329496 GTTCAACTTTTTGACTTGTCATCCA 58.671 36.000 4.18 0.00 41.64 3.41
2523 3542 1.269723 CGTTCAGCACAGTCACTAGGA 59.730 52.381 0.00 0.00 0.00 2.94
2673 3780 7.765819 TCATCTGAGTTGTATGTGGTAAGATTG 59.234 37.037 0.00 0.00 0.00 2.67
2753 3867 7.722363 TGTTGACAATCAGTTAGAGTCTGTAA 58.278 34.615 1.86 0.00 34.86 2.41
2804 3919 2.307392 TGGTCGATCCCTTTGAATCCAA 59.693 45.455 0.00 0.00 34.77 3.53
2861 3976 6.867662 TCTCCTGTCTTTTGAACAGAAATC 57.132 37.500 4.89 0.00 32.88 2.17
2886 4001 4.019411 TGTGAACTGGAATCCAAGCATCTA 60.019 41.667 2.61 0.00 30.80 1.98
2905 4020 0.251033 AGCATTGCAGGCAGAAGTCA 60.251 50.000 11.91 0.00 0.00 3.41
2920 4035 2.325583 AGTCAAAAGTCTCCGTGCAA 57.674 45.000 0.00 0.00 0.00 4.08
3092 4230 2.447429 TCTCTATGGATCTCTCCGGGTT 59.553 50.000 0.00 0.00 45.37 4.11
3094 4232 3.759618 CTCTATGGATCTCTCCGGGTTAC 59.240 52.174 0.00 0.00 45.37 2.50
3386 4574 6.656693 AGATTAGTGTCTCCATTTCACCTTTG 59.343 38.462 0.00 0.00 33.21 2.77
3451 5734 9.587772 CTATAAACACAGTATTCTACAAGTGCT 57.412 33.333 8.75 0.00 39.21 4.40
3452 5735 8.848474 ATAAACACAGTATTCTACAAGTGCTT 57.152 30.769 8.75 6.73 39.21 3.91
3453 5736 6.545504 AACACAGTATTCTACAAGTGCTTG 57.454 37.500 10.09 10.09 45.58 4.01
3454 5737 4.452455 ACACAGTATTCTACAAGTGCTTGC 59.548 41.667 11.43 0.00 44.03 4.01
3455 5738 4.452114 CACAGTATTCTACAAGTGCTTGCA 59.548 41.667 11.43 0.00 44.03 4.08
3456 5739 5.122869 CACAGTATTCTACAAGTGCTTGCAT 59.877 40.000 11.43 2.80 44.03 3.96
3457 5740 6.313658 CACAGTATTCTACAAGTGCTTGCATA 59.686 38.462 11.43 1.99 44.03 3.14
3458 5741 6.536582 ACAGTATTCTACAAGTGCTTGCATAG 59.463 38.462 11.43 7.35 44.03 2.23
3459 5742 6.758416 CAGTATTCTACAAGTGCTTGCATAGA 59.242 38.462 11.43 9.27 44.03 1.98
3460 5743 7.440556 CAGTATTCTACAAGTGCTTGCATAGAT 59.559 37.037 11.43 3.64 44.03 1.98
3461 5744 7.989741 AGTATTCTACAAGTGCTTGCATAGATT 59.010 33.333 11.43 10.32 44.03 2.40
3462 5745 9.261180 GTATTCTACAAGTGCTTGCATAGATTA 57.739 33.333 11.43 9.58 44.03 1.75
3463 5746 8.737168 ATTCTACAAGTGCTTGCATAGATTAA 57.263 30.769 11.43 0.27 44.03 1.40
3464 5747 7.539712 TCTACAAGTGCTTGCATAGATTAAC 57.460 36.000 11.43 0.00 44.03 2.01
3465 5748 5.567138 ACAAGTGCTTGCATAGATTAACC 57.433 39.130 11.43 0.00 44.03 2.85
3466 5749 5.256474 ACAAGTGCTTGCATAGATTAACCT 58.744 37.500 11.43 0.00 44.03 3.50
3467 5750 5.711976 ACAAGTGCTTGCATAGATTAACCTT 59.288 36.000 11.43 0.00 44.03 3.50
3468 5751 5.824904 AGTGCTTGCATAGATTAACCTTG 57.175 39.130 0.00 0.00 0.00 3.61
3469 5752 5.256474 AGTGCTTGCATAGATTAACCTTGT 58.744 37.500 0.00 0.00 0.00 3.16
3510 5793 7.500141 TGTTGATCTAGTGCTTGCATAGATTA 58.500 34.615 18.81 15.15 36.60 1.75
3511 5794 7.986889 TGTTGATCTAGTGCTTGCATAGATTAA 59.013 33.333 18.81 18.03 36.60 1.40
3512 5795 7.953158 TGATCTAGTGCTTGCATAGATTAAC 57.047 36.000 18.81 12.16 36.60 2.01
3513 5796 6.931281 TGATCTAGTGCTTGCATAGATTAACC 59.069 38.462 18.81 11.96 36.60 2.85
3514 5797 6.485830 TCTAGTGCTTGCATAGATTAACCT 57.514 37.500 0.00 0.00 0.00 3.50
3515 5798 6.889198 TCTAGTGCTTGCATAGATTAACCTT 58.111 36.000 0.00 0.00 0.00 3.50
3516 5799 7.338710 TCTAGTGCTTGCATAGATTAACCTTT 58.661 34.615 0.00 0.00 0.00 3.11
3517 5800 6.840780 AGTGCTTGCATAGATTAACCTTTT 57.159 33.333 0.00 0.00 0.00 2.27
3518 5801 7.938140 AGTGCTTGCATAGATTAACCTTTTA 57.062 32.000 0.00 0.00 0.00 1.52
3519 5802 7.989826 AGTGCTTGCATAGATTAACCTTTTAG 58.010 34.615 0.00 0.00 0.00 1.85
3520 5803 7.611855 AGTGCTTGCATAGATTAACCTTTTAGT 59.388 33.333 0.00 0.00 0.00 2.24
3521 5804 7.698130 GTGCTTGCATAGATTAACCTTTTAGTG 59.302 37.037 0.00 0.00 0.00 2.74
3522 5805 6.693113 GCTTGCATAGATTAACCTTTTAGTGC 59.307 38.462 0.00 0.00 0.00 4.40
3523 5806 7.628366 GCTTGCATAGATTAACCTTTTAGTGCA 60.628 37.037 0.00 0.00 37.12 4.57
3524 5807 7.880160 TGCATAGATTAACCTTTTAGTGCAT 57.120 32.000 0.00 0.00 34.37 3.96
3525 5808 8.972458 TGCATAGATTAACCTTTTAGTGCATA 57.028 30.769 0.00 0.00 34.37 3.14
3526 5809 9.056005 TGCATAGATTAACCTTTTAGTGCATAG 57.944 33.333 0.00 0.00 34.37 2.23
3527 5810 9.273016 GCATAGATTAACCTTTTAGTGCATAGA 57.727 33.333 0.00 0.00 0.00 1.98
3529 5812 7.793927 AGATTAACCTTTTAGTGCATAGAGC 57.206 36.000 0.00 0.00 45.96 4.09
3571 5854 9.733556 TTAATGTATGTGTTTCCTGTAATCAGT 57.266 29.630 0.00 0.00 39.82 3.41
3573 5856 9.905713 AATGTATGTGTTTCCTGTAATCAGTAT 57.094 29.630 0.00 0.00 39.82 2.12
3574 5857 8.716646 TGTATGTGTTTCCTGTAATCAGTATG 57.283 34.615 0.00 0.00 39.82 2.39
3575 5858 8.318412 TGTATGTGTTTCCTGTAATCAGTATGT 58.682 33.333 0.00 0.00 39.82 2.29
3576 5859 9.811995 GTATGTGTTTCCTGTAATCAGTATGTA 57.188 33.333 0.00 0.00 39.82 2.29
3612 5895 6.907853 ACATAGATCTAGTGCTTGCATAGA 57.092 37.500 8.70 13.08 0.00 1.98
3613 5896 7.479352 ACATAGATCTAGTGCTTGCATAGAT 57.521 36.000 18.30 18.30 38.62 1.98
3614 5897 7.905265 ACATAGATCTAGTGCTTGCATAGATT 58.095 34.615 18.81 14.18 36.60 2.40
3637 5920 2.840651 ACCTTGTAGTGCATAGAGCCTT 59.159 45.455 0.00 0.00 44.83 4.35
3730 6923 3.775316 CAGGTCCCTATTCTACAAGTGGT 59.225 47.826 0.00 0.00 0.00 4.16
3755 7802 2.168728 ACATCTAGGGAAGCGGAAAGAC 59.831 50.000 0.00 0.00 0.00 3.01
3988 8040 6.579865 AGGGATGCTTGATGATGAAATTTTC 58.420 36.000 2.05 2.05 0.00 2.29
4024 8076 5.944007 GGAGTATGTCCTGCCTTTTTCTTAA 59.056 40.000 0.00 0.00 42.99 1.85
4109 8177 0.468648 GTAGGGATCTTTGGACGGGG 59.531 60.000 0.00 0.00 0.00 5.73
4110 8178 0.043637 TAGGGATCTTTGGACGGGGT 59.956 55.000 0.00 0.00 0.00 4.95
4139 8207 4.499183 CGGAAAAGAAGAGTGACTATGCT 58.501 43.478 0.00 0.00 0.00 3.79
4190 8263 5.818136 ACATCACTGGGAAACATAAATCG 57.182 39.130 0.00 0.00 0.00 3.34
4298 8371 6.088616 GCTTTGTTATCTTGCACAATCACTTC 59.911 38.462 0.00 0.00 32.96 3.01
4663 8740 4.287585 AGCCTACCAAGGTGTTTGTATGTA 59.712 41.667 1.07 0.00 45.64 2.29
4700 8777 3.627577 CCACATGGTCCATTGTACTTAGC 59.372 47.826 0.00 0.00 0.00 3.09
4718 8795 0.895100 GCCTTTGCATGGAGTGGACA 60.895 55.000 10.08 0.00 37.47 4.02
4750 8827 4.497291 ACCGAGGCCTCAATTTATGTTA 57.503 40.909 31.67 0.00 0.00 2.41
4821 8907 5.238214 GGCAACCTTATTCTGAATCTGCTAG 59.762 44.000 6.10 0.00 0.00 3.42
4917 10595 3.256631 GGCAGTTCACAAATCAAGTCCAT 59.743 43.478 0.00 0.00 0.00 3.41
5000 10680 8.783093 TGCTGAAAAACCTATCCATTATTATCG 58.217 33.333 0.00 0.00 0.00 2.92
5243 10923 7.401484 TCCAATTTGTTTCTTTACGCAAATC 57.599 32.000 0.00 0.00 39.65 2.17
5244 10924 6.980978 TCCAATTTGTTTCTTTACGCAAATCA 59.019 30.769 0.00 0.00 39.65 2.57
5436 11121 1.889545 ACTTCTCTGCAGGAAACAGC 58.110 50.000 15.13 0.00 44.24 4.40
5471 11156 4.100189 ACAGAGTAGGTCATATGGCAAGAC 59.900 45.833 9.98 3.65 0.00 3.01
5673 11362 0.248866 CAACGGTGGCAAGTTTGGAC 60.249 55.000 6.84 0.00 0.00 4.02
5791 11566 3.980775 CGAATCTGCAAACGTTTCCATTT 59.019 39.130 11.37 5.31 0.00 2.32
6047 11823 0.874390 TGCATCGAGTTGGTTTCTGC 59.126 50.000 0.00 0.00 0.00 4.26
6248 12090 2.045708 TACGTACGCGGGTGTGGAT 61.046 57.895 16.72 0.00 43.45 3.41
6318 12197 1.940613 GACGCTACCATTCCCATTCAC 59.059 52.381 0.00 0.00 0.00 3.18
6402 12289 1.891919 GCCAGAACTGTGCCGACAA 60.892 57.895 1.18 0.00 0.00 3.18
6432 12348 4.796231 CGAGCGCCACTAGCCGTT 62.796 66.667 2.29 0.00 38.78 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 1.745141 GCAGTGGTGGGATGCTAGAAG 60.745 57.143 0.00 0.00 37.00 2.85
90 91 2.253758 GCGTGCTGGTCTTTGCTGA 61.254 57.895 0.00 0.00 0.00 4.26
160 219 2.551270 CGTGGCAGCTTCGTCAAC 59.449 61.111 0.00 0.00 0.00 3.18
212 271 2.125512 CTTCCTTCTCCGGCGTGG 60.126 66.667 6.01 0.00 40.09 4.94
240 299 1.882198 CTTTAGTTGCATTGTCGGCG 58.118 50.000 0.00 0.00 0.00 6.46
245 304 3.081061 TCGATGGCTTTAGTTGCATTGT 58.919 40.909 0.00 0.00 0.00 2.71
249 308 2.016318 CCATCGATGGCTTTAGTTGCA 58.984 47.619 30.53 0.00 41.75 4.08
303 362 2.768344 GGGGCTCGAGATGGGGAA 60.768 66.667 18.75 0.00 0.00 3.97
409 468 3.979497 CCTTCCCGCCCCCACTTT 61.979 66.667 0.00 0.00 0.00 2.66
439 498 4.091939 GGCGGAAACCTAGCCCGT 62.092 66.667 0.00 0.00 44.80 5.28
496 555 2.860735 GAGCACGATCAGGATGTACAAC 59.139 50.000 0.00 0.00 37.40 3.32
621 682 7.795431 TCGAAAACATGTCTTTGATAAATGC 57.205 32.000 0.00 0.00 0.00 3.56
700 838 3.703127 GGGAGGACGGTGGTGGAC 61.703 72.222 0.00 0.00 0.00 4.02
709 847 4.805219 CAAAACATAAAAAGGGGAGGACG 58.195 43.478 0.00 0.00 0.00 4.79
715 853 3.492756 CACACGCAAAACATAAAAAGGGG 59.507 43.478 0.00 0.00 0.00 4.79
917 1055 6.790461 ACTCTCCAGTCCATCTCTATCTAGTA 59.210 42.308 0.00 0.00 0.00 1.82
918 1056 5.610982 ACTCTCCAGTCCATCTCTATCTAGT 59.389 44.000 0.00 0.00 0.00 2.57
919 1057 6.126863 ACTCTCCAGTCCATCTCTATCTAG 57.873 45.833 0.00 0.00 0.00 2.43
982 1131 3.746492 GCTATGGACAAACAAAGACGACT 59.254 43.478 0.00 0.00 0.00 4.18
1106 1258 0.955919 GCGAGAACCTTGGACTTGGG 60.956 60.000 0.00 0.00 0.00 4.12
1258 1413 1.669265 GGGAAAATCGACCGGTTCATC 59.331 52.381 9.42 1.77 0.00 2.92
1260 1415 0.321830 GGGGAAAATCGACCGGTTCA 60.322 55.000 9.42 0.00 0.00 3.18
1561 2307 7.316640 TCCAACCAAATACCAATTATCAAACG 58.683 34.615 0.00 0.00 0.00 3.60
1633 2618 3.243367 GGACACTGCAGCAATGTTGTTAA 60.243 43.478 11.49 0.00 0.00 2.01
1640 2625 4.084265 TGGGACACTGCAGCAATG 57.916 55.556 15.27 1.30 0.00 2.82
1658 2643 0.304705 GTCCTATTGCAACATCGCCG 59.695 55.000 0.00 0.00 0.00 6.46
1818 2808 7.728847 TGGTAATAACATCCGAATGATCAAG 57.271 36.000 0.00 0.00 36.67 3.02
2098 3106 2.280628 CACTGGATTTCGCCTTAGACC 58.719 52.381 0.00 0.00 0.00 3.85
2131 3139 7.228507 CGGAAATTTTGGTACCATCTCATGATA 59.771 37.037 17.17 0.00 0.00 2.15
2440 3457 5.764131 TGACAAGTCAAAAAGTTGAACGTT 58.236 33.333 0.00 0.00 45.29 3.99
2467 3486 4.513442 TGAAAACATATCAGGCGCTAGTT 58.487 39.130 7.64 0.00 0.00 2.24
2511 3530 1.358103 TGGGCTACTCCTAGTGACTGT 59.642 52.381 0.00 0.00 34.39 3.55
2523 3542 1.749638 CGGAGTCTCGTGGGCTACT 60.750 63.158 0.00 0.00 0.00 2.57
2618 3719 1.402968 CCCGAGTGAAGCCATGAATTG 59.597 52.381 0.00 0.00 0.00 2.32
2673 3780 3.268103 ATCGTGCCCCCACTGGAAC 62.268 63.158 0.00 0.00 39.86 3.62
2753 3867 9.667107 TTTCGAAGACAAAGAATGGTCTAATAT 57.333 29.630 0.00 0.00 43.26 1.28
2815 3930 8.478775 AGATGGCAGTTAGTAATATAGTGACA 57.521 34.615 0.00 0.00 0.00 3.58
2861 3976 1.815003 GCTTGGATTCCAGTTCACAGG 59.185 52.381 5.36 0.00 33.81 4.00
2886 4001 0.251033 TGACTTCTGCCTGCAATGCT 60.251 50.000 6.82 0.00 0.00 3.79
2897 4012 2.221981 GCACGGAGACTTTTGACTTCTG 59.778 50.000 0.00 0.00 0.00 3.02
2905 4020 2.099098 CCAGTTTTGCACGGAGACTTTT 59.901 45.455 0.00 0.00 0.00 2.27
2920 4035 6.663734 TCTTCCTTTTCTCTTTCTCCAGTTT 58.336 36.000 0.00 0.00 0.00 2.66
3094 4232 2.227865 CGAACCAAAACACACCCATAGG 59.772 50.000 0.00 0.00 40.04 2.57
3437 5720 9.830975 TTAATCTATGCAAGCACTTGTAGAATA 57.169 29.630 11.77 6.89 42.31 1.75
3438 5721 8.616076 GTTAATCTATGCAAGCACTTGTAGAAT 58.384 33.333 11.77 7.70 42.31 2.40
3439 5722 7.065803 GGTTAATCTATGCAAGCACTTGTAGAA 59.934 37.037 11.77 0.27 42.31 2.10
3440 5723 6.538742 GGTTAATCTATGCAAGCACTTGTAGA 59.461 38.462 11.77 11.39 42.31 2.59
3441 5724 6.540189 AGGTTAATCTATGCAAGCACTTGTAG 59.460 38.462 11.77 6.91 42.31 2.74
3443 5726 5.256474 AGGTTAATCTATGCAAGCACTTGT 58.744 37.500 11.77 0.00 42.31 3.16
3446 5729 5.256474 ACAAGGTTAATCTATGCAAGCACT 58.744 37.500 0.00 0.00 0.00 4.40
3449 5732 7.227512 AGTCATACAAGGTTAATCTATGCAAGC 59.772 37.037 0.00 0.00 0.00 4.01
3451 5734 7.438160 CGAGTCATACAAGGTTAATCTATGCAA 59.562 37.037 0.00 0.00 0.00 4.08
3452 5735 6.923508 CGAGTCATACAAGGTTAATCTATGCA 59.076 38.462 0.00 0.00 0.00 3.96
3453 5736 6.128795 GCGAGTCATACAAGGTTAATCTATGC 60.129 42.308 0.00 0.00 0.00 3.14
3454 5737 7.148641 AGCGAGTCATACAAGGTTAATCTATG 58.851 38.462 0.00 0.00 0.00 2.23
3455 5738 7.291411 AGCGAGTCATACAAGGTTAATCTAT 57.709 36.000 0.00 0.00 0.00 1.98
3456 5739 6.238953 GGAGCGAGTCATACAAGGTTAATCTA 60.239 42.308 0.00 0.00 0.00 1.98
3457 5740 5.452077 GGAGCGAGTCATACAAGGTTAATCT 60.452 44.000 0.00 0.00 0.00 2.40
3458 5741 4.745620 GGAGCGAGTCATACAAGGTTAATC 59.254 45.833 0.00 0.00 0.00 1.75
3459 5742 4.443034 GGGAGCGAGTCATACAAGGTTAAT 60.443 45.833 0.00 0.00 0.00 1.40
3460 5743 3.118884 GGGAGCGAGTCATACAAGGTTAA 60.119 47.826 0.00 0.00 0.00 2.01
3461 5744 2.429610 GGGAGCGAGTCATACAAGGTTA 59.570 50.000 0.00 0.00 0.00 2.85
3462 5745 1.207329 GGGAGCGAGTCATACAAGGTT 59.793 52.381 0.00 0.00 0.00 3.50
3463 5746 0.824759 GGGAGCGAGTCATACAAGGT 59.175 55.000 0.00 0.00 0.00 3.50
3464 5747 0.824109 TGGGAGCGAGTCATACAAGG 59.176 55.000 0.00 0.00 0.00 3.61
3465 5748 1.478510 AGTGGGAGCGAGTCATACAAG 59.521 52.381 0.00 0.00 0.00 3.16
3466 5749 1.204704 CAGTGGGAGCGAGTCATACAA 59.795 52.381 0.00 0.00 0.00 2.41
3467 5750 0.817654 CAGTGGGAGCGAGTCATACA 59.182 55.000 0.00 0.00 0.00 2.29
3468 5751 0.818296 ACAGTGGGAGCGAGTCATAC 59.182 55.000 0.00 0.00 0.00 2.39
3469 5752 1.204704 CAACAGTGGGAGCGAGTCATA 59.795 52.381 0.00 0.00 0.00 2.15
3586 5869 9.686683 TCTATGCAAGCACTAGATCTATGTATA 57.313 33.333 2.11 6.86 0.00 1.47
3587 5870 8.586879 TCTATGCAAGCACTAGATCTATGTAT 57.413 34.615 2.11 6.07 0.00 2.29
3588 5871 8.586879 ATCTATGCAAGCACTAGATCTATGTA 57.413 34.615 2.11 0.00 29.46 2.29
3589 5872 6.907853 TCTATGCAAGCACTAGATCTATGT 57.092 37.500 2.11 1.19 0.00 2.29
3590 5873 9.866798 TTAATCTATGCAAGCACTAGATCTATG 57.133 33.333 18.46 5.50 31.79 2.23
3591 5874 9.868277 GTTAATCTATGCAAGCACTAGATCTAT 57.132 33.333 18.46 11.23 31.79 1.98
3592 5875 8.307483 GGTTAATCTATGCAAGCACTAGATCTA 58.693 37.037 18.46 1.69 31.79 1.98
3593 5876 7.016072 AGGTTAATCTATGCAAGCACTAGATCT 59.984 37.037 18.46 0.00 31.79 2.75
3594 5877 7.158021 AGGTTAATCTATGCAAGCACTAGATC 58.842 38.462 18.46 11.38 31.79 2.75
3595 5878 7.072263 AGGTTAATCTATGCAAGCACTAGAT 57.928 36.000 15.18 15.18 33.01 1.98
3596 5879 6.485830 AGGTTAATCTATGCAAGCACTAGA 57.514 37.500 0.00 6.76 0.00 2.43
3597 5880 6.540189 ACAAGGTTAATCTATGCAAGCACTAG 59.460 38.462 0.00 1.51 0.00 2.57
3598 5881 6.414732 ACAAGGTTAATCTATGCAAGCACTA 58.585 36.000 0.00 0.00 0.00 2.74
3599 5882 5.256474 ACAAGGTTAATCTATGCAAGCACT 58.744 37.500 0.00 0.00 0.00 4.40
3600 5883 5.567138 ACAAGGTTAATCTATGCAAGCAC 57.433 39.130 0.00 0.00 0.00 4.40
3601 5884 6.316140 CACTACAAGGTTAATCTATGCAAGCA 59.684 38.462 0.00 0.00 0.00 3.91
3602 5885 6.719365 CACTACAAGGTTAATCTATGCAAGC 58.281 40.000 0.00 0.00 0.00 4.01
3603 5886 6.316140 TGCACTACAAGGTTAATCTATGCAAG 59.684 38.462 8.32 0.00 36.48 4.01
3604 5887 6.176896 TGCACTACAAGGTTAATCTATGCAA 58.823 36.000 8.32 0.00 36.48 4.08
3605 5888 5.739959 TGCACTACAAGGTTAATCTATGCA 58.260 37.500 7.19 7.19 37.03 3.96
3606 5889 6.867662 ATGCACTACAAGGTTAATCTATGC 57.132 37.500 0.00 0.00 0.00 3.14
3607 5890 9.416794 CTCTATGCACTACAAGGTTAATCTATG 57.583 37.037 0.00 0.00 0.00 2.23
3608 5891 8.091449 GCTCTATGCACTACAAGGTTAATCTAT 58.909 37.037 0.00 0.00 42.31 1.98
3609 5892 7.434492 GCTCTATGCACTACAAGGTTAATCTA 58.566 38.462 0.00 0.00 42.31 1.98
3610 5893 6.284459 GCTCTATGCACTACAAGGTTAATCT 58.716 40.000 0.00 0.00 42.31 2.40
3611 5894 5.467063 GGCTCTATGCACTACAAGGTTAATC 59.533 44.000 0.00 0.00 45.15 1.75
3612 5895 5.131142 AGGCTCTATGCACTACAAGGTTAAT 59.869 40.000 0.00 0.00 45.15 1.40
3613 5896 4.469945 AGGCTCTATGCACTACAAGGTTAA 59.530 41.667 0.00 0.00 45.15 2.01
3614 5897 4.030913 AGGCTCTATGCACTACAAGGTTA 58.969 43.478 0.00 0.00 45.15 2.85
3730 6923 1.522092 CGCTTCCCTAGATGTGGCA 59.478 57.895 0.00 0.00 0.00 4.92
4109 8177 5.577554 GTCACTCTTCTTTTCCGGATCTAAC 59.422 44.000 4.15 0.00 0.00 2.34
4110 8178 5.480772 AGTCACTCTTCTTTTCCGGATCTAA 59.519 40.000 4.15 0.00 0.00 2.10
4139 8207 4.882427 TCAAACCACAACGAATCAAGGTAA 59.118 37.500 0.00 0.00 0.00 2.85
4190 8263 7.228314 AGCTTTTACCCATTTAAGGACTTTC 57.772 36.000 0.00 0.00 0.00 2.62
4298 8371 1.405105 CCGGTATCATGCCAACCAAAG 59.595 52.381 0.00 0.00 32.55 2.77
4700 8777 1.747355 GATGTCCACTCCATGCAAAGG 59.253 52.381 0.00 0.00 0.00 3.11
4766 8844 8.201242 TGGGCTACAGATCATGTAAATGTATA 57.799 34.615 0.00 0.00 43.78 1.47
4917 10595 1.699634 CCCACCTCAGGAAACTCAAGA 59.300 52.381 0.00 0.00 40.21 3.02
4967 10647 5.779771 TGGATAGGTTTTTCAGCAAAGGATT 59.220 36.000 0.00 0.00 0.00 3.01
5348 11033 4.740695 GTCGAATGAGCATACTCTTGGTAC 59.259 45.833 0.00 0.00 43.85 3.34
5407 11092 3.070302 CCTGCAGAGAAGTATAGGGGAAC 59.930 52.174 17.39 0.00 0.00 3.62
5436 11121 4.517285 ACCTACTCTGTAATTGTGCCATG 58.483 43.478 0.00 0.00 0.00 3.66
5471 11156 4.997395 AGGTGTACAGTTTACTTGATGCAG 59.003 41.667 0.00 0.00 0.00 4.41
5552 11241 8.599055 TTAACATAAGAGAGCAGAGCATTATG 57.401 34.615 0.00 0.00 36.91 1.90
5673 11362 5.515548 TCATCAACAATCTTCGAACTTCG 57.484 39.130 4.72 4.72 42.10 3.79
6047 11823 8.974408 TCATAACATACTCGTAATTTCCGATTG 58.026 33.333 1.07 3.27 33.27 2.67
6248 12090 4.763793 AGCTAGTACTTCACTTCGGTGTAA 59.236 41.667 0.00 0.00 45.46 2.41
6261 12103 7.767198 TGTAAGTTTGTTGTTGAGCTAGTACTT 59.233 33.333 0.00 0.00 0.00 2.24
6318 12197 0.576328 GTTTTGGCAACGCACACATG 59.424 50.000 0.00 0.00 42.51 3.21
6370 12249 1.302033 CTGGCAAGGTCACGCTCTT 60.302 57.895 0.00 0.00 0.00 2.85
6402 12289 2.007608 GGCGCTCGAGAAATAAAACCT 58.992 47.619 18.75 0.00 0.00 3.50
6558 12840 4.517453 TGCTATACCACGATTTATTTGCCC 59.483 41.667 0.00 0.00 0.00 5.36
6718 13226 5.018539 TCCCGAAGATAACGATCAAATGT 57.981 39.130 0.00 0.00 34.17 2.71


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

AutoCloner maintained by Alex Coulton.