Multiple sequence alignment - TraesCS7B01G386400

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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 TraesCS7B01G386400 chr7B 100.000 3883 0 0 1 3883 651342814 651338932 0.000000e+00 7171.0
1 TraesCS7B01G386400 chr7B 95.353 2109 63 6 1383 3457 472329690 472327583 0.000000e+00 3319.0
2 TraesCS7B01G386400 chr7B 95.164 2109 64 7 1383 3457 472396558 472394454 0.000000e+00 3295.0
3 TraesCS7B01G386400 chr7B 81.145 1363 224 19 1617 2964 651408993 651410337 0.000000e+00 1062.0
4 TraesCS7B01G386400 chr7B 89.762 840 71 8 63 898 678403393 678404221 0.000000e+00 1061.0
5 TraesCS7B01G386400 chr7B 93.991 649 37 2 2022 2669 651443712 651444359 0.000000e+00 981.0
6 TraesCS7B01G386400 chr7B 80.063 1264 232 13 1624 2874 651336673 651337929 0.000000e+00 920.0
7 TraesCS7B01G386400 chr7B 79.827 1274 237 14 1619 2879 651453834 651452568 0.000000e+00 911.0
8 TraesCS7B01G386400 chr7B 96.067 534 20 1 2665 3198 651445085 651445617 0.000000e+00 869.0
9 TraesCS7B01G386400 chr7B 94.589 499 17 3 895 1386 472397082 472396587 0.000000e+00 763.0
10 TraesCS7B01G386400 chr7B 76.895 1372 257 38 1619 2956 651274368 651275713 0.000000e+00 723.0
11 TraesCS7B01G386400 chr7B 95.434 438 16 1 949 1386 472330152 472329719 0.000000e+00 695.0
12 TraesCS7B01G386400 chr7B 93.609 266 14 2 3193 3457 651450089 651450352 1.010000e-105 394.0
13 TraesCS7B01G386400 chr7B 86.436 376 29 7 3453 3820 651450380 651450741 3.640000e-105 392.0
14 TraesCS7B01G386400 chr7B 89.200 250 12 4 3573 3820 472327517 472327281 8.160000e-77 298.0
15 TraesCS7B01G386400 chr7B 89.200 250 12 4 3573 3820 472394388 472394152 8.160000e-77 298.0
16 TraesCS7B01G386400 chr7B 81.013 316 50 7 2650 2956 651302473 651302787 3.880000e-60 243.0
17 TraesCS7B01G386400 chr7B 97.959 49 0 1 895 942 472331601 472331553 2.490000e-12 84.2
18 TraesCS7B01G386400 chr7D 95.840 1322 54 1 2137 3457 583986486 583985165 0.000000e+00 2135.0
19 TraesCS7B01G386400 chr7D 82.995 1529 223 14 1383 2880 583478710 583477188 0.000000e+00 1349.0
20 TraesCS7B01G386400 chr7D 90.334 838 64 7 63 896 4742689 4741865 0.000000e+00 1083.0
21 TraesCS7B01G386400 chr7D 89.785 744 75 1 2115 2858 583965477 583964735 0.000000e+00 952.0
22 TraesCS7B01G386400 chr7D 80.182 1206 205 20 1782 2971 583994676 583993489 0.000000e+00 872.0
23 TraesCS7B01G386400 chr7D 91.054 503 30 6 895 1386 583479237 583478739 0.000000e+00 665.0
24 TraesCS7B01G386400 chr7D 86.007 536 71 3 1624 2157 583973589 583974122 4.350000e-159 571.0
25 TraesCS7B01G386400 chr7D 83.390 584 46 10 1433 1987 583989144 583988583 9.690000e-136 494.0
26 TraesCS7B01G386400 chr7D 88.235 374 25 5 3453 3820 583985137 583984777 2.770000e-116 429.0
27 TraesCS7B01G386400 chr7D 86.104 367 30 12 3455 3820 583870818 583870472 3.660000e-100 375.0
28 TraesCS7B01G386400 chr7D 84.358 358 32 10 2899 3242 583964740 583964393 2.890000e-86 329.0
29 TraesCS7B01G386400 chr7D 91.346 208 18 0 955 1162 583972790 583972997 6.350000e-73 285.0
30 TraesCS7B01G386400 chr7D 95.783 166 6 1 1003 1168 583989673 583989509 2.300000e-67 267.0
31 TraesCS7B01G386400 chr7D 88.060 67 7 1 1464 1530 583973400 583973465 1.160000e-10 78.7
32 TraesCS7B01G386400 chr7D 100.000 30 0 0 1565 1594 583973495 583973524 5.420000e-04 56.5
33 TraesCS7B01G386400 chr7A 82.941 1530 222 19 1383 2880 675115070 675113548 0.000000e+00 1343.0
34 TraesCS7B01G386400 chr7A 92.063 504 28 6 895 1386 675115602 675115099 0.000000e+00 699.0
35 TraesCS7B01G386400 chr7A 89.655 58 4 2 3570 3627 220098098 220098153 5.380000e-09 73.1
36 TraesCS7B01G386400 chr5D 89.667 842 74 7 59 898 48311487 48310657 0.000000e+00 1061.0
37 TraesCS7B01G386400 chr5D 89.593 836 64 8 64 896 458909795 458910610 0.000000e+00 1040.0
38 TraesCS7B01G386400 chr3B 89.392 839 73 10 63 898 119404565 119405390 0.000000e+00 1042.0
39 TraesCS7B01G386400 chr3B 88.290 854 66 15 63 899 62294987 62294151 0.000000e+00 992.0
40 TraesCS7B01G386400 chr3B 97.059 68 2 0 3816 3883 35385592 35385659 8.820000e-22 115.0
41 TraesCS7B01G386400 chr1B 88.229 875 66 16 63 903 34193182 34192311 0.000000e+00 1011.0
42 TraesCS7B01G386400 chr1B 93.120 625 43 0 63 687 400680650 400681274 0.000000e+00 917.0
43 TraesCS7B01G386400 chr1B 85.740 554 60 9 360 898 674676265 674675716 5.630000e-158 568.0
44 TraesCS7B01G386400 chr4A 88.585 841 80 10 64 899 669991096 669991925 0.000000e+00 1007.0
45 TraesCS7B01G386400 chr5B 89.271 727 75 3 63 787 712848564 712849289 0.000000e+00 907.0
46 TraesCS7B01G386400 chr5B 94.521 73 2 2 3811 3883 470280958 470280888 1.140000e-20 111.0
47 TraesCS7B01G386400 chr6A 79.275 1269 227 18 1625 2879 146501916 146500670 0.000000e+00 854.0
48 TraesCS7B01G386400 chr6A 82.940 762 76 33 3032 3781 146497163 146497882 4.230000e-179 638.0
49 TraesCS7B01G386400 chr6A 87.397 484 33 10 922 1386 146502673 146502199 7.390000e-147 531.0
50 TraesCS7B01G386400 chr6A 84.899 543 40 12 1619 2155 146496315 146496821 9.620000e-141 510.0
51 TraesCS7B01G386400 chr6A 88.219 365 25 2 2639 3002 146496820 146497167 1.670000e-113 420.0
52 TraesCS7B01G386400 chr4B 85.320 797 94 22 63 847 627544441 627545226 0.000000e+00 802.0
53 TraesCS7B01G386400 chr4B 100.000 67 0 0 1 67 5169871 5169937 1.460000e-24 124.0
54 TraesCS7B01G386400 chr4B 100.000 67 0 0 1 67 7386783 7386849 1.460000e-24 124.0
55 TraesCS7B01G386400 chr4B 100.000 67 0 0 1 67 22233527 22233461 1.460000e-24 124.0
56 TraesCS7B01G386400 chr4B 100.000 67 0 0 1 67 110407204 110407138 1.460000e-24 124.0
57 TraesCS7B01G386400 chr4B 100.000 67 0 0 1 67 611671097 611671163 1.460000e-24 124.0
58 TraesCS7B01G386400 chr4B 100.000 67 0 0 1 67 636927523 636927589 1.460000e-24 124.0
59 TraesCS7B01G386400 chr4B 100.000 67 0 0 1 67 658450697 658450631 1.460000e-24 124.0
60 TraesCS7B01G386400 chr4B 97.101 69 2 0 3815 3883 539674605 539674537 2.450000e-22 117.0
61 TraesCS7B01G386400 chr4B 95.833 72 2 1 3812 3883 371976265 371976335 8.820000e-22 115.0
62 TraesCS7B01G386400 chr4B 85.321 109 12 4 3465 3571 642627969 642628075 4.100000e-20 110.0
63 TraesCS7B01G386400 chrUn 86.719 128 5 2 3694 3820 479953204 479953320 8.750000e-27 132.0
64 TraesCS7B01G386400 chr6D 100.000 67 0 0 1 67 175150719 175150785 1.460000e-24 124.0
65 TraesCS7B01G386400 chr1D 100.000 67 0 0 1 67 465604296 465604362 1.460000e-24 124.0
66 TraesCS7B01G386400 chr5A 98.485 66 1 0 3818 3883 6772016 6772081 2.450000e-22 117.0
67 TraesCS7B01G386400 chr1A 92.683 82 4 2 3803 3883 256813798 256813718 2.450000e-22 117.0
68 TraesCS7B01G386400 chr6B 95.775 71 3 0 3813 3883 15713363 15713293 8.820000e-22 115.0
69 TraesCS7B01G386400 chr6B 95.833 72 2 1 3812 3883 410235858 410235788 8.820000e-22 115.0
70 TraesCS7B01G386400 chr3D 95.714 70 3 0 3814 3883 604370740 604370671 3.170000e-21 113.0
71 TraesCS7B01G386400 chr2B 100.000 47 0 0 3568 3614 80628965 80629011 1.920000e-13 87.9
72 TraesCS7B01G386400 chr4D 89.474 57 6 0 3569 3625 368701780 368701836 5.380000e-09 73.1


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 TraesCS7B01G386400 chr7B 651338932 651342814 3882 True 7171.000000 7171 100.000000 1 3883 1 chr7B.!!$R1 3882
1 TraesCS7B01G386400 chr7B 472394152 472397082 2930 True 1452.000000 3295 92.984333 895 3820 3 chr7B.!!$R4 2925
2 TraesCS7B01G386400 chr7B 472327281 472331601 4320 True 1099.050000 3319 94.486500 895 3820 4 chr7B.!!$R3 2925
3 TraesCS7B01G386400 chr7B 651408993 651410337 1344 False 1062.000000 1062 81.145000 1617 2964 1 chr7B.!!$F4 1347
4 TraesCS7B01G386400 chr7B 678403393 678404221 828 False 1061.000000 1061 89.762000 63 898 1 chr7B.!!$F5 835
5 TraesCS7B01G386400 chr7B 651443712 651445617 1905 False 925.000000 981 95.029000 2022 3198 2 chr7B.!!$F6 1176
6 TraesCS7B01G386400 chr7B 651336673 651337929 1256 False 920.000000 920 80.063000 1624 2874 1 chr7B.!!$F3 1250
7 TraesCS7B01G386400 chr7B 651452568 651453834 1266 True 911.000000 911 79.827000 1619 2879 1 chr7B.!!$R2 1260
8 TraesCS7B01G386400 chr7B 651274368 651275713 1345 False 723.000000 723 76.895000 1619 2956 1 chr7B.!!$F1 1337
9 TraesCS7B01G386400 chr7B 651450089 651450741 652 False 393.000000 394 90.022500 3193 3820 2 chr7B.!!$F7 627
10 TraesCS7B01G386400 chr7D 4741865 4742689 824 True 1083.000000 1083 90.334000 63 896 1 chr7D.!!$R1 833
11 TraesCS7B01G386400 chr7D 583477188 583479237 2049 True 1007.000000 1349 87.024500 895 2880 2 chr7D.!!$R3 1985
12 TraesCS7B01G386400 chr7D 583984777 583994676 9899 True 839.400000 2135 88.686000 1003 3820 5 chr7D.!!$R5 2817
13 TraesCS7B01G386400 chr7D 583964393 583965477 1084 True 640.500000 952 87.071500 2115 3242 2 chr7D.!!$R4 1127
14 TraesCS7B01G386400 chr7D 583972790 583974122 1332 False 247.800000 571 91.353250 955 2157 4 chr7D.!!$F1 1202
15 TraesCS7B01G386400 chr7A 675113548 675115602 2054 True 1021.000000 1343 87.502000 895 2880 2 chr7A.!!$R1 1985
16 TraesCS7B01G386400 chr5D 48310657 48311487 830 True 1061.000000 1061 89.667000 59 898 1 chr5D.!!$R1 839
17 TraesCS7B01G386400 chr5D 458909795 458910610 815 False 1040.000000 1040 89.593000 64 896 1 chr5D.!!$F1 832
18 TraesCS7B01G386400 chr3B 119404565 119405390 825 False 1042.000000 1042 89.392000 63 898 1 chr3B.!!$F2 835
19 TraesCS7B01G386400 chr3B 62294151 62294987 836 True 992.000000 992 88.290000 63 899 1 chr3B.!!$R1 836
20 TraesCS7B01G386400 chr1B 34192311 34193182 871 True 1011.000000 1011 88.229000 63 903 1 chr1B.!!$R1 840
21 TraesCS7B01G386400 chr1B 400680650 400681274 624 False 917.000000 917 93.120000 63 687 1 chr1B.!!$F1 624
22 TraesCS7B01G386400 chr1B 674675716 674676265 549 True 568.000000 568 85.740000 360 898 1 chr1B.!!$R2 538
23 TraesCS7B01G386400 chr4A 669991096 669991925 829 False 1007.000000 1007 88.585000 64 899 1 chr4A.!!$F1 835
24 TraesCS7B01G386400 chr5B 712848564 712849289 725 False 907.000000 907 89.271000 63 787 1 chr5B.!!$F1 724
25 TraesCS7B01G386400 chr6A 146500670 146502673 2003 True 692.500000 854 83.336000 922 2879 2 chr6A.!!$R1 1957
26 TraesCS7B01G386400 chr6A 146496315 146497882 1567 False 522.666667 638 85.352667 1619 3781 3 chr6A.!!$F1 2162
27 TraesCS7B01G386400 chr4B 627544441 627545226 785 False 802.000000 802 85.320000 63 847 1 chr4B.!!$F5 784

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
44 45 0.038166 TTGGGATGCCAGGAACTCAC 59.962 55.0 5.91 0.00 34.60 3.51 F
864 938 0.179189 CCATGCCGCTCTTTTTCGTC 60.179 55.0 0.00 0.00 0.00 4.20 F
2234 8772 0.109132 CTGGTCCCGCAATTGCTTTC 60.109 55.0 26.86 14.25 39.32 2.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1217 5508 0.109458 TGTGCGACAGATCACGGTAC 60.109 55.0 0.00 0.00 36.06 3.34 R
2441 8993 1.343069 AGTAATCATCTCCCTCGGCC 58.657 55.0 0.00 0.00 0.00 6.13 R
3851 11300 0.037734 ACTTCTTTACCCGGGCTTGG 59.962 55.0 24.08 9.25 0.00 3.61 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
19 20 1.743996 GACCTCTGGATTTGGCACTC 58.256 55.000 0.00 0.00 0.00 3.51
20 21 1.280421 GACCTCTGGATTTGGCACTCT 59.720 52.381 0.00 0.00 0.00 3.24
21 22 1.707427 ACCTCTGGATTTGGCACTCTT 59.293 47.619 0.00 0.00 0.00 2.85
23 24 2.751806 CCTCTGGATTTGGCACTCTTTC 59.248 50.000 0.00 0.00 0.00 2.62
24 25 3.560882 CCTCTGGATTTGGCACTCTTTCT 60.561 47.826 0.00 0.00 0.00 2.52
26 27 4.473444 TCTGGATTTGGCACTCTTTCTTT 58.527 39.130 0.00 0.00 0.00 2.52
27 28 4.279169 TCTGGATTTGGCACTCTTTCTTTG 59.721 41.667 0.00 0.00 0.00 2.77
28 29 3.321682 TGGATTTGGCACTCTTTCTTTGG 59.678 43.478 0.00 0.00 0.00 3.28
29 30 3.306294 GGATTTGGCACTCTTTCTTTGGG 60.306 47.826 0.00 0.00 0.00 4.12
30 31 2.746279 TTGGCACTCTTTCTTTGGGA 57.254 45.000 0.00 0.00 0.00 4.37
33 34 1.203287 GGCACTCTTTCTTTGGGATGC 59.797 52.381 0.00 0.00 0.00 3.91
35 36 2.517959 CACTCTTTCTTTGGGATGCCA 58.482 47.619 0.00 0.00 0.00 4.92
36 37 2.490903 CACTCTTTCTTTGGGATGCCAG 59.509 50.000 5.91 0.00 0.00 4.85
37 38 2.097825 CTCTTTCTTTGGGATGCCAGG 58.902 52.381 5.91 3.98 0.00 4.45
38 39 1.710244 TCTTTCTTTGGGATGCCAGGA 59.290 47.619 5.91 6.48 0.00 3.86
39 40 2.109834 TCTTTCTTTGGGATGCCAGGAA 59.890 45.455 15.85 15.85 0.00 3.36
40 41 1.923356 TTCTTTGGGATGCCAGGAAC 58.077 50.000 15.85 0.00 0.00 3.62
41 42 1.075601 TCTTTGGGATGCCAGGAACT 58.924 50.000 5.91 0.00 43.88 3.01
43 44 0.776810 TTTGGGATGCCAGGAACTCA 59.223 50.000 5.91 0.00 34.60 3.41
44 45 0.038166 TTGGGATGCCAGGAACTCAC 59.962 55.000 5.91 0.00 34.60 3.51
45 46 1.133181 TGGGATGCCAGGAACTCACA 61.133 55.000 0.00 0.00 34.60 3.58
46 47 0.038166 GGGATGCCAGGAACTCACAA 59.962 55.000 0.00 0.00 34.60 3.33
48 49 1.747355 GGATGCCAGGAACTCACAATG 59.253 52.381 0.00 0.00 34.60 2.82
49 50 2.618816 GGATGCCAGGAACTCACAATGA 60.619 50.000 0.00 0.00 34.60 2.57
50 51 1.896220 TGCCAGGAACTCACAATGAC 58.104 50.000 0.00 0.00 34.60 3.06
51 52 1.142667 TGCCAGGAACTCACAATGACA 59.857 47.619 0.00 0.00 34.60 3.58
52 53 2.224843 TGCCAGGAACTCACAATGACAT 60.225 45.455 0.00 0.00 34.60 3.06
53 54 2.421424 GCCAGGAACTCACAATGACATC 59.579 50.000 0.00 0.00 34.60 3.06
54 55 3.678289 CCAGGAACTCACAATGACATCA 58.322 45.455 0.00 0.00 34.60 3.07
55 56 4.074259 CCAGGAACTCACAATGACATCAA 58.926 43.478 0.00 0.00 34.60 2.57
56 57 4.083110 CCAGGAACTCACAATGACATCAAC 60.083 45.833 0.00 0.00 34.60 3.18
58 59 3.498397 GGAACTCACAATGACATCAACGT 59.502 43.478 0.00 0.00 0.00 3.99
59 60 4.377431 GGAACTCACAATGACATCAACGTC 60.377 45.833 0.00 0.00 36.40 4.34
61 62 3.244215 ACTCACAATGACATCAACGTCCT 60.244 43.478 0.00 0.00 34.88 3.85
161 162 2.032528 CCAGGAGGCAAGAACGCA 59.967 61.111 0.00 0.00 0.00 5.24
190 191 0.615331 AAGATTCAGGAGGCTCGCAA 59.385 50.000 8.69 1.08 0.00 4.85
221 222 3.050339 CGGGCATTTGGTGTGCTT 58.950 55.556 0.00 0.00 42.16 3.91
237 238 3.503363 TGTGCTTCAATCTCGATTTGCTT 59.497 39.130 3.92 0.00 0.00 3.91
292 293 5.622180 AGATCAAATGTGGGAGATCATGAG 58.378 41.667 0.09 0.00 39.39 2.90
430 431 3.654414 CAAACTGGACTGACTACCTCAC 58.346 50.000 0.00 0.00 0.00 3.51
439 440 1.669265 TGACTACCTCACTATGCGTCG 59.331 52.381 0.00 0.00 0.00 5.12
483 485 3.610114 GCATCAAGAACTGCAACACGATT 60.610 43.478 0.00 0.00 38.28 3.34
651 713 5.005394 CCGAACTATGTGACGAACTAATTGG 59.995 44.000 0.00 0.00 0.00 3.16
679 741 8.415192 TCTATTTGTATACGAAAATTCACGCT 57.585 30.769 9.62 0.00 0.00 5.07
693 765 1.959226 ACGCTGAAACACGCCGAAT 60.959 52.632 0.00 0.00 0.00 3.34
707 779 1.459592 GCCGAATCGCGCTAAATATGT 59.540 47.619 5.56 0.00 39.11 2.29
738 811 2.288666 GCAGATATCAGGCCGTTTTGA 58.711 47.619 5.32 0.00 0.00 2.69
749 822 3.829601 AGGCCGTTTTGAACATATTTGGA 59.170 39.130 0.00 0.00 0.00 3.53
768 841 2.420967 GGACCGAAAGCTGGGCTAAATA 60.421 50.000 0.00 0.00 38.25 1.40
799 872 4.253257 CGACCTAGGAGGCGACGC 62.253 72.222 17.98 12.43 39.63 5.19
800 873 4.253257 GACCTAGGAGGCGACGCG 62.253 72.222 17.98 3.53 39.63 6.01
831 905 4.726304 CCCCCGGCGCCAAGTTTA 62.726 66.667 28.98 0.00 0.00 2.01
832 906 2.439519 CCCCGGCGCCAAGTTTAT 60.440 61.111 28.98 0.00 0.00 1.40
834 908 1.747367 CCCGGCGCCAAGTTTATCA 60.747 57.895 28.98 0.00 0.00 2.15
835 909 1.427819 CCGGCGCCAAGTTTATCAC 59.572 57.895 28.98 0.00 0.00 3.06
836 910 1.427819 CGGCGCCAAGTTTATCACC 59.572 57.895 28.98 0.00 0.00 4.02
838 912 1.427819 GCGCCAAGTTTATCACCGG 59.572 57.895 0.00 0.00 0.00 5.28
840 914 1.427819 GCCAAGTTTATCACCGGCG 59.572 57.895 0.00 0.00 35.34 6.46
841 915 1.427819 CCAAGTTTATCACCGGCGC 59.572 57.895 0.00 0.00 0.00 6.53
842 916 1.302383 CCAAGTTTATCACCGGCGCA 61.302 55.000 10.83 0.00 0.00 6.09
843 917 0.179200 CAAGTTTATCACCGGCGCAC 60.179 55.000 10.83 0.00 0.00 5.34
844 918 1.303091 AAGTTTATCACCGGCGCACC 61.303 55.000 10.83 0.00 0.00 5.01
846 920 3.980442 TTTATCACCGGCGCACCCC 62.980 63.158 10.83 0.00 0.00 4.95
858 932 2.361610 CACCCCATGCCGCTCTTT 60.362 61.111 0.00 0.00 0.00 2.52
859 933 1.978617 CACCCCATGCCGCTCTTTT 60.979 57.895 0.00 0.00 0.00 2.27
860 934 1.228862 ACCCCATGCCGCTCTTTTT 60.229 52.632 0.00 0.00 0.00 1.94
861 935 1.250840 ACCCCATGCCGCTCTTTTTC 61.251 55.000 0.00 0.00 0.00 2.29
862 936 1.137404 CCCATGCCGCTCTTTTTCG 59.863 57.895 0.00 0.00 0.00 3.46
863 937 1.586154 CCCATGCCGCTCTTTTTCGT 61.586 55.000 0.00 0.00 0.00 3.85
864 938 0.179189 CCATGCCGCTCTTTTTCGTC 60.179 55.000 0.00 0.00 0.00 4.20
865 939 0.519175 CATGCCGCTCTTTTTCGTCG 60.519 55.000 0.00 0.00 0.00 5.12
866 940 2.202184 GCCGCTCTTTTTCGTCGC 60.202 61.111 0.00 0.00 0.00 5.19
867 941 2.474712 CCGCTCTTTTTCGTCGCC 59.525 61.111 0.00 0.00 0.00 5.54
868 942 2.474712 CGCTCTTTTTCGTCGCCC 59.525 61.111 0.00 0.00 0.00 6.13
870 944 1.497722 GCTCTTTTTCGTCGCCCTG 59.502 57.895 0.00 0.00 0.00 4.45
871 945 1.912371 GCTCTTTTTCGTCGCCCTGG 61.912 60.000 0.00 0.00 0.00 4.45
872 946 1.298859 CTCTTTTTCGTCGCCCTGGG 61.299 60.000 8.86 8.86 0.00 4.45
874 948 1.298859 CTTTTTCGTCGCCCTGGGAG 61.299 60.000 19.27 14.77 0.00 4.30
875 949 3.894547 TTTTCGTCGCCCTGGGAGC 62.895 63.158 19.27 8.84 0.00 4.70
893 967 3.483954 CCGAATGGCTGGAGATGTT 57.516 52.632 0.00 0.00 0.00 2.71
1192 5483 6.270927 TCCTATCTCCCTCGATGATGAATTTT 59.729 38.462 0.00 0.00 0.00 1.82
1240 5531 1.130613 GTGATCTGTCGCACAACGC 59.869 57.895 0.00 0.00 43.23 4.84
1268 5559 7.263496 AGAAAGATCCAATTTTTATGAGCTGC 58.737 34.615 0.00 0.00 0.00 5.25
1354 5658 6.359087 GCCAATCGATCGTACGGATTATATAC 59.641 42.308 16.52 2.27 34.82 1.47
1680 6239 1.076677 GGTCGGACCTCCCCATAGATA 59.923 57.143 19.92 0.00 34.73 1.98
1848 6421 2.669133 CCGGCAGGGGATCAACAGA 61.669 63.158 0.00 0.00 0.00 3.41
1901 6474 0.392193 CCACTTCTGAGCTCCGCAAT 60.392 55.000 12.15 0.00 0.00 3.56
1904 6477 1.277557 ACTTCTGAGCTCCGCAATCTT 59.722 47.619 12.15 0.00 0.00 2.40
2135 6913 4.214758 GTGGGCTATCGTTACAGTTGTTTT 59.785 41.667 0.00 0.00 0.00 2.43
2150 8688 4.393062 AGTTGTTTTGAGAGTGACAGTGTG 59.607 41.667 0.00 0.00 0.00 3.82
2157 8695 5.316327 TGAGAGTGACAGTGTGTATGATC 57.684 43.478 0.00 0.00 0.00 2.92
2234 8772 0.109132 CTGGTCCCGCAATTGCTTTC 60.109 55.000 26.86 14.25 39.32 2.62
2390 8942 6.496565 TGGTGACAATGGAAGGTAAATTGAAT 59.503 34.615 1.89 0.00 37.44 2.57
2441 8993 2.095263 ACCGCCAAAGAAAACGATCATG 60.095 45.455 0.00 0.00 0.00 3.07
2627 9185 2.202866 CCCTGCGAAGGCTCTAAGA 58.797 57.895 2.84 0.00 40.82 2.10
2638 9196 1.935327 GCTCTAAGAGGACACGCGGT 61.935 60.000 12.47 5.31 0.00 5.68
2659 9217 2.642311 TGTTCCTTGGTCAGAATAGCCA 59.358 45.455 0.00 0.00 0.00 4.75
2964 10266 9.481340 GCTTTGATTGTTTCCTTCTAAATTCTT 57.519 29.630 0.00 0.00 0.00 2.52
2981 10283 9.824534 CTAAATTCTTTTTGCAGTTGTTTGTTT 57.175 25.926 0.00 0.00 0.00 2.83
3062 10381 8.219178 AGTTCTGTGTATATAGTAGTAGCTGGT 58.781 37.037 0.00 0.00 0.00 4.00
3066 10385 9.451002 CTGTGTATATAGTAGTAGCTGGTATGT 57.549 37.037 0.00 0.00 0.00 2.29
3154 10473 2.579207 TAGATGTGCACCGAGCTAAC 57.421 50.000 15.69 0.00 45.94 2.34
3258 10580 2.290367 TCTGTTGGTTTCATTCTGTGCG 59.710 45.455 0.00 0.00 0.00 5.34
3330 10654 4.780815 TGGTCAACTTCATCTTGTGAACT 58.219 39.130 0.00 0.00 41.79 3.01
3373 10697 4.340617 CCCCAGGCTGTAAAGTTATTTCA 58.659 43.478 14.43 0.00 0.00 2.69
3374 10698 4.770010 CCCCAGGCTGTAAAGTTATTTCAA 59.230 41.667 14.43 0.00 0.00 2.69
3391 10715 9.415544 GTTATTTCAATCTTTCATCACAGCTTT 57.584 29.630 0.00 0.00 0.00 3.51
3429 10753 9.582431 AACAATTGATTTGCTAATTCTCATCAG 57.418 29.630 13.59 0.00 39.03 2.90
3460 10816 7.011857 GGAATTAGCAAAGTCTCATCTAAGTGG 59.988 40.741 0.00 0.00 30.48 4.00
3466 10822 6.169094 CAAAGTCTCATCTAAGTGGATGTGT 58.831 40.000 4.78 0.00 42.45 3.72
3470 10826 7.907389 AGTCTCATCTAAGTGGATGTGTTTAA 58.093 34.615 4.78 0.00 42.45 1.52
3509 10952 5.092554 TGATTCACCAACATACACGGTAT 57.907 39.130 0.00 0.00 0.00 2.73
3591 11038 7.418378 ACATACTCCCTCCATTCCAAAATAAA 58.582 34.615 0.00 0.00 0.00 1.40
3649 11096 4.745351 TGTATACCATGCTCTCAGAGGAT 58.255 43.478 2.10 2.10 41.26 3.24
3802 11251 7.147966 GGACACTCTTCTTTTTCCCAAAGTAAA 60.148 37.037 0.00 0.00 0.00 2.01
3805 11254 9.249457 CACTCTTCTTTTTCCCAAAGTAAATTC 57.751 33.333 0.00 0.00 0.00 2.17
3824 11273 9.124807 GTAAATTCAAGGTAAATTTCAACTCCG 57.875 33.333 0.00 0.00 37.47 4.63
3825 11274 4.759516 TCAAGGTAAATTTCAACTCCGC 57.240 40.909 0.00 0.00 0.00 5.54
3826 11275 3.504520 TCAAGGTAAATTTCAACTCCGCC 59.495 43.478 0.00 0.00 0.00 6.13
3827 11276 3.434940 AGGTAAATTTCAACTCCGCCT 57.565 42.857 0.00 0.00 0.00 5.52
3828 11277 4.563140 AGGTAAATTTCAACTCCGCCTA 57.437 40.909 0.00 0.00 0.00 3.93
3829 11278 5.112129 AGGTAAATTTCAACTCCGCCTAT 57.888 39.130 0.00 0.00 0.00 2.57
3830 11279 4.881850 AGGTAAATTTCAACTCCGCCTATG 59.118 41.667 0.00 0.00 0.00 2.23
3831 11280 4.638865 GGTAAATTTCAACTCCGCCTATGT 59.361 41.667 0.00 0.00 0.00 2.29
3832 11281 4.965119 AAATTTCAACTCCGCCTATGTC 57.035 40.909 0.00 0.00 0.00 3.06
3833 11282 3.914426 ATTTCAACTCCGCCTATGTCT 57.086 42.857 0.00 0.00 0.00 3.41
3834 11283 3.695830 TTTCAACTCCGCCTATGTCTT 57.304 42.857 0.00 0.00 0.00 3.01
3835 11284 2.961526 TCAACTCCGCCTATGTCTTC 57.038 50.000 0.00 0.00 0.00 2.87
3836 11285 2.457598 TCAACTCCGCCTATGTCTTCT 58.542 47.619 0.00 0.00 0.00 2.85
3837 11286 3.628008 TCAACTCCGCCTATGTCTTCTA 58.372 45.455 0.00 0.00 0.00 2.10
3838 11287 3.632604 TCAACTCCGCCTATGTCTTCTAG 59.367 47.826 0.00 0.00 0.00 2.43
3839 11288 2.588620 ACTCCGCCTATGTCTTCTAGG 58.411 52.381 0.00 0.00 39.06 3.02
3855 11304 2.203209 GGCATAGCCGGTCCCAAG 60.203 66.667 1.90 0.00 39.62 3.61
3856 11305 2.902343 GCATAGCCGGTCCCAAGC 60.902 66.667 1.90 0.00 0.00 4.01
3857 11306 2.203209 CATAGCCGGTCCCAAGCC 60.203 66.667 1.90 0.00 0.00 4.35
3858 11307 3.489513 ATAGCCGGTCCCAAGCCC 61.490 66.667 1.90 0.00 0.00 5.19
3867 11316 3.083386 CCCAAGCCCGGGTAAAGA 58.917 61.111 24.63 0.00 41.83 2.52
3868 11317 1.381076 CCCAAGCCCGGGTAAAGAA 59.619 57.895 24.63 0.00 41.83 2.52
3869 11318 0.679960 CCCAAGCCCGGGTAAAGAAG 60.680 60.000 24.63 4.65 41.83 2.85
3870 11319 0.037734 CCAAGCCCGGGTAAAGAAGT 59.962 55.000 24.63 0.00 0.00 3.01
3871 11320 1.279846 CCAAGCCCGGGTAAAGAAGTA 59.720 52.381 24.63 0.00 0.00 2.24
3872 11321 2.629051 CAAGCCCGGGTAAAGAAGTAG 58.371 52.381 24.63 0.00 0.00 2.57
3873 11322 1.201424 AGCCCGGGTAAAGAAGTAGG 58.799 55.000 24.63 0.00 0.00 3.18
3874 11323 0.179702 GCCCGGGTAAAGAAGTAGGG 59.820 60.000 24.63 0.00 40.27 3.53
3875 11324 1.576577 CCCGGGTAAAGAAGTAGGGT 58.423 55.000 14.18 0.00 33.00 4.34
3876 11325 1.911357 CCCGGGTAAAGAAGTAGGGTT 59.089 52.381 14.18 0.00 33.00 4.11
3877 11326 2.355412 CCCGGGTAAAGAAGTAGGGTTG 60.355 54.545 14.18 0.00 33.00 3.77
3878 11327 2.303890 CCGGGTAAAGAAGTAGGGTTGT 59.696 50.000 0.00 0.00 0.00 3.32
3879 11328 3.332034 CGGGTAAAGAAGTAGGGTTGTG 58.668 50.000 0.00 0.00 0.00 3.33
3880 11329 3.007182 CGGGTAAAGAAGTAGGGTTGTGA 59.993 47.826 0.00 0.00 0.00 3.58
3881 11330 4.323257 CGGGTAAAGAAGTAGGGTTGTGAT 60.323 45.833 0.00 0.00 0.00 3.06
3882 11331 5.105228 CGGGTAAAGAAGTAGGGTTGTGATA 60.105 44.000 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.280421 AGAGTGCCAAATCCAGAGGTC 59.720 52.381 0.00 0.00 0.00 3.85
4 5 3.795688 AGAAAGAGTGCCAAATCCAGA 57.204 42.857 0.00 0.00 0.00 3.86
6 7 3.321682 CCAAAGAAAGAGTGCCAAATCCA 59.678 43.478 0.00 0.00 0.00 3.41
8 9 3.573967 TCCCAAAGAAAGAGTGCCAAATC 59.426 43.478 0.00 0.00 0.00 2.17
9 10 3.575805 TCCCAAAGAAAGAGTGCCAAAT 58.424 40.909 0.00 0.00 0.00 2.32
10 11 3.025322 TCCCAAAGAAAGAGTGCCAAA 57.975 42.857 0.00 0.00 0.00 3.28
11 12 2.746279 TCCCAAAGAAAGAGTGCCAA 57.254 45.000 0.00 0.00 0.00 4.52
12 13 2.517959 CATCCCAAAGAAAGAGTGCCA 58.482 47.619 0.00 0.00 0.00 4.92
13 14 1.203287 GCATCCCAAAGAAAGAGTGCC 59.797 52.381 0.00 0.00 0.00 5.01
14 15 1.203287 GGCATCCCAAAGAAAGAGTGC 59.797 52.381 0.00 0.00 0.00 4.40
16 17 2.556114 CCTGGCATCCCAAAGAAAGAGT 60.556 50.000 0.00 0.00 41.58 3.24
17 18 2.097825 CCTGGCATCCCAAAGAAAGAG 58.902 52.381 0.00 0.00 41.58 2.85
19 20 2.220653 TCCTGGCATCCCAAAGAAAG 57.779 50.000 0.00 0.00 41.58 2.62
20 21 2.158325 AGTTCCTGGCATCCCAAAGAAA 60.158 45.455 0.00 0.00 41.58 2.52
21 22 1.428912 AGTTCCTGGCATCCCAAAGAA 59.571 47.619 0.00 0.00 41.58 2.52
23 24 1.272092 TGAGTTCCTGGCATCCCAAAG 60.272 52.381 0.00 0.00 41.58 2.77
24 25 0.776810 TGAGTTCCTGGCATCCCAAA 59.223 50.000 0.00 0.00 41.58 3.28
26 27 1.133181 TGTGAGTTCCTGGCATCCCA 61.133 55.000 0.00 0.00 39.32 4.37
27 28 0.038166 TTGTGAGTTCCTGGCATCCC 59.962 55.000 0.00 0.00 0.00 3.85
28 29 1.747355 CATTGTGAGTTCCTGGCATCC 59.253 52.381 0.00 0.00 0.00 3.51
29 30 2.421424 GTCATTGTGAGTTCCTGGCATC 59.579 50.000 0.00 0.00 0.00 3.91
30 31 2.224843 TGTCATTGTGAGTTCCTGGCAT 60.225 45.455 0.00 0.00 0.00 4.40
33 34 3.678289 TGATGTCATTGTGAGTTCCTGG 58.322 45.455 0.00 0.00 0.00 4.45
35 36 3.748048 CGTTGATGTCATTGTGAGTTCCT 59.252 43.478 0.00 0.00 0.00 3.36
36 37 3.498397 ACGTTGATGTCATTGTGAGTTCC 59.502 43.478 0.00 0.00 0.00 3.62
37 38 4.377431 GGACGTTGATGTCATTGTGAGTTC 60.377 45.833 5.77 0.00 40.72 3.01
38 39 3.498397 GGACGTTGATGTCATTGTGAGTT 59.502 43.478 5.77 0.00 40.72 3.01
39 40 3.067106 GGACGTTGATGTCATTGTGAGT 58.933 45.455 5.77 0.00 40.72 3.41
40 41 3.124128 CAGGACGTTGATGTCATTGTGAG 59.876 47.826 5.77 0.00 40.72 3.51
41 42 3.066380 CAGGACGTTGATGTCATTGTGA 58.934 45.455 5.77 0.00 40.72 3.58
43 44 1.806542 GCAGGACGTTGATGTCATTGT 59.193 47.619 5.77 0.00 40.72 2.71
44 45 1.805943 TGCAGGACGTTGATGTCATTG 59.194 47.619 5.77 4.73 40.72 2.82
45 46 2.079158 CTGCAGGACGTTGATGTCATT 58.921 47.619 5.57 0.00 40.72 2.57
46 47 1.002430 ACTGCAGGACGTTGATGTCAT 59.998 47.619 19.93 0.00 40.72 3.06
48 49 1.993370 GTACTGCAGGACGTTGATGTC 59.007 52.381 14.67 0.00 38.17 3.06
49 50 1.343142 TGTACTGCAGGACGTTGATGT 59.657 47.619 23.93 0.00 0.00 3.06
50 51 2.078849 TGTACTGCAGGACGTTGATG 57.921 50.000 23.93 0.00 0.00 3.07
51 52 2.224185 TGTTGTACTGCAGGACGTTGAT 60.224 45.455 23.93 0.00 0.00 2.57
52 53 1.137282 TGTTGTACTGCAGGACGTTGA 59.863 47.619 23.93 3.42 0.00 3.18
53 54 1.577468 TGTTGTACTGCAGGACGTTG 58.423 50.000 23.93 0.00 0.00 4.10
54 55 2.210116 CTTGTTGTACTGCAGGACGTT 58.790 47.619 23.93 1.42 0.00 3.99
55 56 1.540363 CCTTGTTGTACTGCAGGACGT 60.540 52.381 23.93 2.81 0.00 4.34
56 57 1.148310 CCTTGTTGTACTGCAGGACG 58.852 55.000 23.93 9.17 0.00 4.79
58 59 0.400213 CCCCTTGTTGTACTGCAGGA 59.600 55.000 19.93 6.60 0.00 3.86
59 60 0.110486 ACCCCTTGTTGTACTGCAGG 59.890 55.000 19.93 0.00 0.00 4.85
61 62 2.051692 AGTACCCCTTGTTGTACTGCA 58.948 47.619 1.80 0.00 44.42 4.41
161 162 3.012518 CTCCTGAATCTTCGCAAACCAT 58.987 45.455 0.00 0.00 0.00 3.55
190 191 3.441290 CCCGCTCGACGTCCTTCT 61.441 66.667 10.58 0.00 41.42 2.85
221 222 5.335113 CCAGACAAAAGCAAATCGAGATTGA 60.335 40.000 15.66 0.00 0.00 2.57
292 293 1.334556 TGTGCAAGATGACACAGCAAC 59.665 47.619 0.00 0.00 41.67 4.17
439 440 0.976073 TTGTGGGTCTCGGATCTCCC 60.976 60.000 0.00 5.65 40.26 4.30
500 502 2.930562 ACCTCGCCCTTGAGCCTT 60.931 61.111 0.00 0.00 34.56 4.35
609 657 0.247775 GGCGTGTTTCGACGTGTTTT 60.248 50.000 0.00 0.00 41.54 2.43
679 741 2.857448 GCGATTCGGCGTGTTTCA 59.143 55.556 6.85 0.00 0.00 2.69
693 765 2.478547 TCGACACATATTTAGCGCGA 57.521 45.000 12.10 0.00 0.00 5.87
699 771 5.344884 TCTGCGTGAATCGACACATATTTA 58.655 37.500 6.93 0.00 42.86 1.40
707 779 3.550842 CCTGATATCTGCGTGAATCGACA 60.551 47.826 3.98 0.00 42.86 4.35
738 811 3.443681 CCAGCTTTCGGTCCAAATATGTT 59.556 43.478 0.00 0.00 0.00 2.71
749 822 2.640184 GTATTTAGCCCAGCTTTCGGT 58.360 47.619 0.00 0.00 40.44 4.69
819 893 1.427819 CGGTGATAAACTTGGCGCC 59.572 57.895 22.73 22.73 0.00 6.53
825 899 1.303091 GGTGCGCCGGTGATAAACTT 61.303 55.000 21.76 0.00 0.00 2.66
841 915 1.535204 AAAAAGAGCGGCATGGGGTG 61.535 55.000 1.45 0.00 0.00 4.61
842 916 1.228862 AAAAAGAGCGGCATGGGGT 60.229 52.632 1.45 0.00 0.00 4.95
843 917 1.512694 GAAAAAGAGCGGCATGGGG 59.487 57.895 1.45 0.00 0.00 4.96
844 918 1.137404 CGAAAAAGAGCGGCATGGG 59.863 57.895 1.45 0.00 0.00 4.00
846 920 0.519175 CGACGAAAAAGAGCGGCATG 60.519 55.000 1.45 0.00 34.59 4.06
848 922 2.950172 GCGACGAAAAAGAGCGGCA 61.950 57.895 1.45 0.00 34.59 5.69
850 924 2.474712 GGCGACGAAAAAGAGCGG 59.525 61.111 0.00 0.00 0.00 5.52
851 925 2.027625 AGGGCGACGAAAAAGAGCG 61.028 57.895 0.00 0.00 0.00 5.03
852 926 1.497722 CAGGGCGACGAAAAAGAGC 59.502 57.895 0.00 0.00 0.00 4.09
853 927 1.298859 CCCAGGGCGACGAAAAAGAG 61.299 60.000 0.00 0.00 0.00 2.85
854 928 1.302192 CCCAGGGCGACGAAAAAGA 60.302 57.895 0.00 0.00 0.00 2.52
855 929 1.298859 CTCCCAGGGCGACGAAAAAG 61.299 60.000 0.00 0.00 0.00 2.27
856 930 1.302192 CTCCCAGGGCGACGAAAAA 60.302 57.895 0.00 0.00 0.00 1.94
857 931 2.345991 CTCCCAGGGCGACGAAAA 59.654 61.111 0.00 0.00 0.00 2.29
858 932 4.388499 GCTCCCAGGGCGACGAAA 62.388 66.667 0.00 0.00 0.00 3.46
865 939 4.883354 CCATTCGGCTCCCAGGGC 62.883 72.222 0.00 0.00 0.00 5.19
875 949 1.134280 AGAACATCTCCAGCCATTCGG 60.134 52.381 0.00 0.00 0.00 4.30
878 952 3.535561 CGTAAGAACATCTCCAGCCATT 58.464 45.455 0.00 0.00 43.02 3.16
879 953 2.743183 GCGTAAGAACATCTCCAGCCAT 60.743 50.000 0.00 0.00 43.02 4.40
880 954 1.405526 GCGTAAGAACATCTCCAGCCA 60.406 52.381 0.00 0.00 43.02 4.75
883 957 2.159366 AGACGCGTAAGAACATCTCCAG 60.159 50.000 13.97 0.00 43.02 3.86
884 958 1.816835 AGACGCGTAAGAACATCTCCA 59.183 47.619 13.97 0.00 43.02 3.86
885 959 2.452105 GAGACGCGTAAGAACATCTCC 58.548 52.381 13.97 0.00 43.02 3.71
886 960 2.452105 GGAGACGCGTAAGAACATCTC 58.548 52.381 13.97 11.93 43.02 2.75
887 961 1.134560 GGGAGACGCGTAAGAACATCT 59.865 52.381 13.97 1.03 43.02 2.90
888 962 1.557651 GGGAGACGCGTAAGAACATC 58.442 55.000 13.97 0.00 43.02 3.06
889 963 0.175073 GGGGAGACGCGTAAGAACAT 59.825 55.000 13.97 0.00 43.02 2.71
891 965 4.491101 GGGGAGACGCGTAAGAAC 57.509 61.111 13.97 0.00 43.02 3.01
1217 5508 0.109458 TGTGCGACAGATCACGGTAC 60.109 55.000 0.00 0.00 36.06 3.34
1268 5559 1.333619 CCCTCAACAAAACTCCACACG 59.666 52.381 0.00 0.00 0.00 4.49
1386 5690 4.533311 AGGATTCCATCAACATTTTTGCCT 59.467 37.500 5.29 0.00 0.00 4.75
1387 5691 4.835678 AGGATTCCATCAACATTTTTGCC 58.164 39.130 5.29 0.00 0.00 4.52
1388 5692 4.872124 GGAGGATTCCATCAACATTTTTGC 59.128 41.667 5.29 0.00 43.45 3.68
1658 6217 0.471971 CTATGGGGAGGTCCGACCAT 60.472 60.000 19.95 16.10 45.19 3.55
1901 6474 4.090761 AGTTTTCTCAGCATCCACAAGA 57.909 40.909 0.00 0.00 0.00 3.02
1904 6477 3.569701 GGAAAGTTTTCTCAGCATCCACA 59.430 43.478 4.75 0.00 37.35 4.17
2086 6864 2.542550 TCCCTTCATCTCCGTAAACCA 58.457 47.619 0.00 0.00 0.00 3.67
2135 6913 5.012893 AGATCATACACACTGTCACTCTCA 58.987 41.667 0.00 0.00 0.00 3.27
2150 8688 2.101582 ACCAAGAGACCGCAGATCATAC 59.898 50.000 0.00 0.00 0.00 2.39
2157 8695 2.046892 CCCACCAAGAGACCGCAG 60.047 66.667 0.00 0.00 0.00 5.18
2390 8942 1.463214 TCCACTGAGGCCCCAAGAA 60.463 57.895 0.00 0.00 37.29 2.52
2425 8977 2.161410 TCGGCCATGATCGTTTTCTTTG 59.839 45.455 2.24 0.00 0.00 2.77
2441 8993 1.343069 AGTAATCATCTCCCTCGGCC 58.657 55.000 0.00 0.00 0.00 6.13
2627 9185 2.803817 AAGGAACACCGCGTGTCCT 61.804 57.895 13.33 16.01 46.79 3.85
2638 9196 2.642311 TGGCTATTCTGACCAAGGAACA 59.358 45.455 0.00 0.00 0.00 3.18
2659 9217 6.600882 ATTTATCGACGGACAATATACCCT 57.399 37.500 0.00 0.00 0.00 4.34
2964 10266 6.563010 CGTTCTTGAAACAAACAACTGCAAAA 60.563 34.615 0.00 0.00 0.00 2.44
2981 10283 4.320129 CCACATTATGCAACACGTTCTTGA 60.320 41.667 6.87 0.00 0.00 3.02
3040 10359 9.451002 ACATACCAGCTACTACTATATACACAG 57.549 37.037 0.00 0.00 0.00 3.66
3062 10381 3.818210 ACAAACTTGTGATCGCCAACATA 59.182 39.130 3.31 0.00 40.49 2.29
3066 10385 4.068599 TCATACAAACTTGTGATCGCCAA 58.931 39.130 3.31 0.62 42.31 4.52
3154 10473 8.028354 CAGACTCTTATTCATAGGCAGTGATAG 58.972 40.741 0.00 0.00 0.00 2.08
3258 10580 3.767902 AGAATCAGAGGGCTAAGCATC 57.232 47.619 0.00 0.00 0.00 3.91
3330 10654 5.066764 GGGGCGTAGATAATAAACAAAGCAA 59.933 40.000 0.00 0.00 0.00 3.91
3373 10697 6.263842 TCACTTCAAAGCTGTGATGAAAGATT 59.736 34.615 23.01 0.46 36.03 2.40
3374 10698 5.766670 TCACTTCAAAGCTGTGATGAAAGAT 59.233 36.000 23.01 1.12 36.03 2.40
3391 10715 7.765360 AGCAAATCAATTGTTTCTTTCACTTCA 59.235 29.630 5.13 0.00 41.32 3.02
3429 10753 6.545298 AGATGAGACTTTGCTAATTCCAATCC 59.455 38.462 6.94 0.00 0.00 3.01
3460 10816 5.414454 TCAGGGCTAACATGTTAAACACATC 59.586 40.000 18.55 5.51 43.17 3.06
3466 10822 7.716799 ATCAATTCAGGGCTAACATGTTAAA 57.283 32.000 18.55 9.69 31.56 1.52
3470 10826 5.126061 GTGAATCAATTCAGGGCTAACATGT 59.874 40.000 5.68 0.00 46.44 3.21
3474 10830 4.016444 TGGTGAATCAATTCAGGGCTAAC 58.984 43.478 5.68 0.00 46.44 2.34
3475 10831 4.314522 TGGTGAATCAATTCAGGGCTAA 57.685 40.909 5.68 0.00 46.44 3.09
3476 10832 4.016444 GTTGGTGAATCAATTCAGGGCTA 58.984 43.478 5.68 0.00 46.44 3.93
3509 10952 8.877808 TGCATTTGTGTTTTGTATTACATCAA 57.122 26.923 0.00 0.00 0.00 2.57
3521 10968 9.926158 TGTAATAGAATGATGCATTTGTGTTTT 57.074 25.926 0.00 0.00 33.90 2.43
3554 11001 5.544176 GGAGGGAGTATGTTATTCTGGATCA 59.456 44.000 0.00 0.00 0.00 2.92
3631 11078 6.560003 TTTTAATCCTCTGAGAGCATGGTA 57.440 37.500 6.17 0.00 0.00 3.25
3632 11079 5.441718 TTTTAATCCTCTGAGAGCATGGT 57.558 39.130 6.17 0.00 0.00 3.55
3735 11183 9.611284 GCTGCAAATATAACATAAAATCGATCA 57.389 29.630 0.00 0.00 0.00 2.92
3736 11184 9.831737 AGCTGCAAATATAACATAAAATCGATC 57.168 29.630 0.00 0.00 0.00 3.69
3737 11185 9.616634 CAGCTGCAAATATAACATAAAATCGAT 57.383 29.630 0.00 0.00 0.00 3.59
3738 11186 8.075574 CCAGCTGCAAATATAACATAAAATCGA 58.924 33.333 8.66 0.00 0.00 3.59
3739 11187 7.862372 ACCAGCTGCAAATATAACATAAAATCG 59.138 33.333 8.66 0.00 0.00 3.34
3802 11251 5.336451 GGCGGAGTTGAAATTTACCTTGAAT 60.336 40.000 0.00 0.00 0.00 2.57
3805 11254 3.506067 AGGCGGAGTTGAAATTTACCTTG 59.494 43.478 0.00 0.00 0.00 3.61
3825 11274 4.464069 GGCTATGCCTAGAAGACATAGG 57.536 50.000 16.76 0.00 46.69 2.57
3838 11287 2.203209 CTTGGGACCGGCTATGCC 60.203 66.667 0.00 0.00 46.75 4.40
3839 11288 2.902343 GCTTGGGACCGGCTATGC 60.902 66.667 0.00 0.00 0.00 3.14
3840 11289 2.203209 GGCTTGGGACCGGCTATG 60.203 66.667 0.00 0.00 0.00 2.23
3841 11290 3.489513 GGGCTTGGGACCGGCTAT 61.490 66.667 0.00 0.00 0.00 2.97
3851 11300 0.037734 ACTTCTTTACCCGGGCTTGG 59.962 55.000 24.08 9.25 0.00 3.61
3852 11301 2.629051 CTACTTCTTTACCCGGGCTTG 58.371 52.381 24.08 8.87 0.00 4.01
3853 11302 1.558294 CCTACTTCTTTACCCGGGCTT 59.442 52.381 24.08 4.08 0.00 4.35
3854 11303 1.201424 CCTACTTCTTTACCCGGGCT 58.799 55.000 24.08 10.93 0.00 5.19
3855 11304 0.179702 CCCTACTTCTTTACCCGGGC 59.820 60.000 24.08 0.00 0.00 6.13
3856 11305 1.576577 ACCCTACTTCTTTACCCGGG 58.423 55.000 22.25 22.25 36.30 5.73
3857 11306 2.303890 ACAACCCTACTTCTTTACCCGG 59.696 50.000 0.00 0.00 0.00 5.73
3858 11307 3.007182 TCACAACCCTACTTCTTTACCCG 59.993 47.826 0.00 0.00 0.00 5.28
3859 11308 4.628963 TCACAACCCTACTTCTTTACCC 57.371 45.455 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.