Multiple sequence alignment - TraesCS3A01G535400

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3A01G535400 chr3A 100.000 3584 0 0 1 3584 746946426 746942843 0.000000e+00 6619.0
1 TraesCS3A01G535400 chr3A 94.375 160 9 0 3425 3584 723839061 723838902 2.760000e-61 246.0
2 TraesCS3A01G535400 chr3A 95.745 47 2 0 3379 3425 264658189 264658143 3.840000e-10 76.8
3 TraesCS3A01G535400 chr3B 90.270 1295 86 26 1704 2983 826712091 826713360 0.000000e+00 1657.0
4 TraesCS3A01G535400 chr3B 86.270 976 52 29 1 907 826710181 826711143 0.000000e+00 985.0
5 TraesCS3A01G535400 chr3B 88.210 687 46 18 893 1548 826711290 826711972 0.000000e+00 787.0
6 TraesCS3A01G535400 chr3B 89.931 437 43 1 2989 3425 610304360 610304795 2.420000e-156 562.0
7 TraesCS3A01G535400 chr3B 88.101 437 50 2 2989 3425 610296494 610296928 5.300000e-143 518.0
8 TraesCS3A01G535400 chr3B 85.849 106 15 0 335 440 381463601 381463496 2.920000e-21 113.0
9 TraesCS3A01G535400 chr3D 88.847 1318 71 40 900 2182 612291922 612290646 0.000000e+00 1550.0
10 TraesCS3A01G535400 chr3D 85.803 965 51 23 1 900 612292909 612291966 0.000000e+00 944.0
11 TraesCS3A01G535400 chr3D 89.501 762 49 17 2241 2992 612290627 612289887 0.000000e+00 935.0
12 TraesCS3A01G535400 chr3D 75.765 392 64 15 79 440 2137452 2137842 6.150000e-38 169.0
13 TraesCS3A01G535400 chr3D 91.837 49 4 0 1099 1147 123517119 123517071 6.420000e-08 69.4
14 TraesCS3A01G535400 chr3D 100.000 30 0 0 2587 2616 612027836 612027865 5.000000e-04 56.5
15 TraesCS3A01G535400 chr1D 92.938 439 31 0 1707 2145 139979689 139980127 1.080000e-179 640.0
16 TraesCS3A01G535400 chr1D 87.156 545 39 19 1034 1548 139979041 139979584 1.110000e-164 590.0
17 TraesCS3A01G535400 chr1D 93.141 277 15 3 2310 2585 139980843 139981116 1.550000e-108 403.0
18 TraesCS3A01G535400 chr1D 76.190 189 38 5 2368 2551 461506367 461506181 3.810000e-15 93.5
19 TraesCS3A01G535400 chr1D 75.661 189 39 5 2368 2551 461485695 461485509 1.770000e-13 87.9
20 TraesCS3A01G535400 chr1B 92.938 439 31 0 1707 2145 198644546 198644108 1.080000e-179 640.0
21 TraesCS3A01G535400 chr1B 94.694 245 13 0 2341 2585 198643257 198643013 7.260000e-102 381.0
22 TraesCS3A01G535400 chr1B 95.475 221 10 0 1328 1548 198644837 198644617 1.580000e-93 353.0
23 TraesCS3A01G535400 chr1B 93.665 221 14 0 1034 1254 198645169 198644949 7.420000e-87 331.0
24 TraesCS3A01G535400 chr1A 92.711 439 32 0 1707 2145 150901386 150900948 5.050000e-178 634.0
25 TraesCS3A01G535400 chr1A 91.096 438 39 0 2987 3424 584432031 584431594 8.570000e-166 593.0
26 TraesCS3A01G535400 chr1A 87.293 543 38 18 1034 1548 150902018 150901479 3.080000e-165 592.0
27 TraesCS3A01G535400 chr1A 88.657 432 49 0 2996 3427 584429109 584428678 8.810000e-146 527.0
28 TraesCS3A01G535400 chr1A 93.066 274 13 2 2312 2585 150900027 150899760 2.590000e-106 396.0
29 TraesCS3A01G535400 chr1A 93.125 160 11 0 3425 3584 17305913 17306072 5.980000e-58 235.0
30 TraesCS3A01G535400 chr1A 91.071 168 7 4 3425 3584 47378135 47378302 1.680000e-53 220.0
31 TraesCS3A01G535400 chr1A 85.321 109 16 0 332 440 544123517 544123625 2.920000e-21 113.0
32 TraesCS3A01G535400 chr4A 89.703 437 39 4 2991 3427 426203072 426203502 1.450000e-153 553.0
33 TraesCS3A01G535400 chr5A 89.294 439 47 0 2989 3427 93247931 93248369 5.230000e-153 551.0
34 TraesCS3A01G535400 chr5A 87.699 439 54 0 2989 3427 93352528 93352966 2.470000e-141 512.0
35 TraesCS3A01G535400 chr2B 88.063 444 52 1 2985 3427 600972496 600972939 3.170000e-145 525.0
36 TraesCS3A01G535400 chr6D 89.048 420 39 3 2989 3401 422087216 422087635 6.860000e-142 514.0
37 TraesCS3A01G535400 chr6A 90.476 168 8 1 3425 3584 589252198 589252365 7.790000e-52 215.0
38 TraesCS3A01G535400 chr7A 89.286 168 10 1 3425 3584 415463129 415463296 1.690000e-48 204.0
39 TraesCS3A01G535400 chr7A 88.690 168 11 1 3425 3584 415922526 415922693 7.850000e-47 198.0
40 TraesCS3A01G535400 chr7D 88.571 105 11 1 337 440 49759674 49759778 3.760000e-25 126.0
41 TraesCS3A01G535400 chr2A 88.462 104 11 1 338 440 10847405 10847302 1.350000e-24 124.0
42 TraesCS3A01G535400 chr4B 97.222 72 2 0 3513 3584 41007725 41007654 4.860000e-24 122.0
43 TraesCS3A01G535400 chr5B 86.538 104 12 2 339 440 709163285 709163182 2.920000e-21 113.0
44 TraesCS3A01G535400 chr2D 84.404 109 15 2 332 440 637526157 637526263 4.890000e-19 106.0
45 TraesCS3A01G535400 chrUn 76.190 189 32 8 2368 2548 218156143 218156326 1.770000e-13 87.9
46 TraesCS3A01G535400 chrUn 76.042 192 33 8 2368 2551 246422226 246422040 1.770000e-13 87.9


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 TraesCS3A01G535400 chr3A 746942843 746946426 3583 True 6619.000000 6619 100.000000 1 3584 1 chr3A.!!$R3 3583
1 TraesCS3A01G535400 chr3B 826710181 826713360 3179 False 1143.000000 1657 88.250000 1 2983 3 chr3B.!!$F3 2982
2 TraesCS3A01G535400 chr3D 612289887 612292909 3022 True 1143.000000 1550 88.050333 1 2992 3 chr3D.!!$R2 2991
3 TraesCS3A01G535400 chr1D 139979041 139981116 2075 False 544.333333 640 91.078333 1034 2585 3 chr1D.!!$F1 1551
4 TraesCS3A01G535400 chr1B 198643013 198645169 2156 True 426.250000 640 94.193000 1034 2585 4 chr1B.!!$R1 1551
5 TraesCS3A01G535400 chr1A 584428678 584432031 3353 True 560.000000 593 89.876500 2987 3427 2 chr1A.!!$R2 440
6 TraesCS3A01G535400 chr1A 150899760 150902018 2258 True 540.666667 634 91.023333 1034 2585 3 chr1A.!!$R1 1551

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
278 301 0.094730 GAAGGCGACGTGTATGTTGC 59.905 55.0 7.74 7.74 46.49 4.17 F
784 857 0.249447 TAAGCGCATCCAGATCACGG 60.249 55.0 11.47 0.00 0.00 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2135 2554 0.040646 TGGAGTGGGACTGACCGTAT 59.959 55.000 0.00 0.00 40.11 3.06 R
2617 4103 3.743636 AAAAATCACGCGCGGGGG 61.744 61.111 34.16 24.42 0.00 5.40 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
101 104 1.222936 CTCCCCACATGTGAGGAGC 59.777 63.158 34.95 0.00 0.00 4.70
163 166 2.923121 GCATATGTCTGCCTCCTTTCA 58.077 47.619 4.29 0.00 36.10 2.69
186 189 2.091830 ACATATCGTCCCTCTCCAGTGA 60.092 50.000 0.00 0.00 0.00 3.41
220 223 1.948834 CAATATGCTTGTGGCGGATCA 59.051 47.619 0.00 0.00 45.43 2.92
235 238 0.510359 GATCAGATTGATGCGACGGC 59.490 55.000 0.00 0.00 37.20 5.68
278 301 0.094730 GAAGGCGACGTGTATGTTGC 59.905 55.000 7.74 7.74 46.49 4.17
280 303 2.275812 GCGACGTGTATGTTGCGC 60.276 61.111 0.00 0.00 39.33 6.09
329 352 4.771903 TGTGTTGTGGTGCTTTAGACTTA 58.228 39.130 0.00 0.00 0.00 2.24
330 353 5.186942 TGTGTTGTGGTGCTTTAGACTTAA 58.813 37.500 0.00 0.00 0.00 1.85
333 379 7.499563 TGTGTTGTGGTGCTTTAGACTTAATTA 59.500 33.333 0.00 0.00 0.00 1.40
348 394 6.884836 AGACTTAATTATTCAGGTTTTCGCCT 59.115 34.615 0.00 0.00 39.99 5.52
395 442 2.175931 TGTGGGTCCTTGTACCATGTTT 59.824 45.455 0.00 0.00 41.67 2.83
440 487 5.409826 AGCTCTCCTGTTATCGTTCAAAAAG 59.590 40.000 0.00 0.00 0.00 2.27
503 550 5.015924 TCGTAGATAAGGATGGGGGAGATAA 59.984 44.000 0.00 0.00 0.00 1.75
507 559 2.918774 AGGATGGGGGAGATAACCTT 57.081 50.000 0.00 0.00 0.00 3.50
512 564 3.951563 TGGGGGAGATAACCTTCAATG 57.048 47.619 0.00 0.00 0.00 2.82
530 582 4.518970 TCAATGATTAATTTCCTAGCGCCC 59.481 41.667 2.29 0.00 0.00 6.13
533 585 3.820467 TGATTAATTTCCTAGCGCCCATG 59.180 43.478 2.29 0.00 0.00 3.66
534 586 1.604604 TAATTTCCTAGCGCCCATGC 58.395 50.000 2.29 0.00 0.00 4.06
620 672 2.910977 TCTTCCCTTTGACTCTAACCCC 59.089 50.000 0.00 0.00 0.00 4.95
621 673 1.665137 TCCCTTTGACTCTAACCCCC 58.335 55.000 0.00 0.00 0.00 5.40
623 675 0.252197 CCTTTGACTCTAACCCCCGG 59.748 60.000 0.00 0.00 0.00 5.73
624 676 1.272807 CTTTGACTCTAACCCCCGGA 58.727 55.000 0.73 0.00 0.00 5.14
625 677 1.207329 CTTTGACTCTAACCCCCGGAG 59.793 57.143 0.73 0.00 0.00 4.63
641 693 1.873069 CGGAGCCTGCTCAGATGAATC 60.873 57.143 19.90 0.28 44.40 2.52
689 741 4.045104 GAGTAGTACATGAAGGTGCATCG 58.955 47.826 0.00 0.00 0.00 3.84
784 857 0.249447 TAAGCGCATCCAGATCACGG 60.249 55.000 11.47 0.00 0.00 4.94
820 893 5.548706 TGGTAATTAATGCACCACGTAAC 57.451 39.130 15.10 0.00 37.42 2.50
939 1174 3.648545 ACTCCTTTTCTTGTAGCTGTCCT 59.351 43.478 0.00 0.00 0.00 3.85
940 1175 4.249661 CTCCTTTTCTTGTAGCTGTCCTC 58.750 47.826 0.00 0.00 0.00 3.71
942 1177 4.021016 TCCTTTTCTTGTAGCTGTCCTCTC 60.021 45.833 0.00 0.00 0.00 3.20
944 1179 5.512232 CCTTTTCTTGTAGCTGTCCTCTCTT 60.512 44.000 0.00 0.00 0.00 2.85
963 1211 2.910688 TCTCTTTCTTCCGCACACTT 57.089 45.000 0.00 0.00 0.00 3.16
964 1212 2.483876 TCTCTTTCTTCCGCACACTTG 58.516 47.619 0.00 0.00 0.00 3.16
968 1216 0.934496 TTCTTCCGCACACTTGTTCG 59.066 50.000 0.00 0.00 34.59 3.95
1006 1254 3.266686 TTGGCGGTGACCATGGAGG 62.267 63.158 21.47 3.32 40.13 4.30
1007 1255 4.489771 GGCGGTGACCATGGAGGG 62.490 72.222 21.47 3.71 43.89 4.30
1010 1258 2.072487 CGGTGACCATGGAGGGGAT 61.072 63.158 21.47 0.00 43.89 3.85
1020 1268 2.386935 GGAGGGGATGAGGGGGTTG 61.387 68.421 0.00 0.00 0.00 3.77
1021 1269 3.023735 AGGGGATGAGGGGGTTGC 61.024 66.667 0.00 0.00 0.00 4.17
1022 1270 4.143301 GGGGATGAGGGGGTTGCC 62.143 72.222 0.00 0.00 0.00 4.52
1023 1271 3.346734 GGGATGAGGGGGTTGCCA 61.347 66.667 0.00 0.00 0.00 4.92
1024 1272 2.704424 GGGATGAGGGGGTTGCCAT 61.704 63.158 0.00 0.00 0.00 4.40
1025 1273 1.152673 GGATGAGGGGGTTGCCATC 60.153 63.158 0.00 0.00 35.81 3.51
1028 1276 2.438434 GAGGGGGTTGCCATCGTG 60.438 66.667 0.00 0.00 0.00 4.35
1030 1278 4.360405 GGGGGTTGCCATCGTGGT 62.360 66.667 6.02 0.00 40.46 4.16
1031 1279 3.061848 GGGGTTGCCATCGTGGTG 61.062 66.667 6.02 0.00 40.46 4.17
1032 1280 3.747976 GGGTTGCCATCGTGGTGC 61.748 66.667 6.02 0.00 40.46 5.01
1266 1533 0.859374 CGTGCTCTGTCGTCTCGATG 60.859 60.000 0.00 0.00 38.42 3.84
1267 1534 0.524392 GTGCTCTGTCGTCTCGATGG 60.524 60.000 0.00 0.00 38.42 3.51
1312 1579 4.080356 TCCCTTCTGAATCGAAATGGATGT 60.080 41.667 0.00 0.00 0.00 3.06
1318 1602 7.019774 TCTGAATCGAAATGGATGTTGATTC 57.980 36.000 10.99 10.99 41.12 2.52
1326 1684 7.031372 CGAAATGGATGTTGATTCATCTTTGT 58.969 34.615 6.63 0.00 42.45 2.83
1534 1892 1.544691 GTTAAGGAGACCGTCTGCTCA 59.455 52.381 21.44 5.89 44.73 4.26
1667 2030 4.331717 GTCGGTTCTGAGTTTTCTTGTTGA 59.668 41.667 0.00 0.00 0.00 3.18
1677 2040 9.230932 CTGAGTTTTCTTGTTGATTTCTCTTTC 57.769 33.333 0.00 0.00 0.00 2.62
1781 2200 0.856641 GCAACGACTACAGTTTCGCA 59.143 50.000 4.54 0.00 38.88 5.10
1970 2389 0.883814 CCGAGGACCGTAGCGACTAT 60.884 60.000 0.00 0.00 36.31 2.12
2006 2425 1.134220 TGCCTCAAGAAGTTCAACGGT 60.134 47.619 5.50 0.00 0.00 4.83
2132 2551 2.030412 TTCGCACGCACACCTCAT 59.970 55.556 0.00 0.00 0.00 2.90
2135 2554 1.153842 CGCACGCACACCTCATCTA 60.154 57.895 0.00 0.00 0.00 1.98
2154 2573 0.040646 ATACGGTCAGTCCCACTCCA 59.959 55.000 0.00 0.00 0.00 3.86
2246 2696 3.767711 TCTGTTCTGCTCTCCTCTGTTA 58.232 45.455 0.00 0.00 0.00 2.41
2250 2700 3.944055 TCTGCTCTCCTCTGTTACAAC 57.056 47.619 0.00 0.00 0.00 3.32
2598 4084 6.893005 TGGTCTATTAACGGGAAATCCAATTT 59.107 34.615 1.22 0.00 37.91 1.82
2782 4269 3.252458 ACGAAGTGTTACCTTCAAATGGC 59.748 43.478 11.86 0.00 42.51 4.40
2832 4319 6.643770 CGTACGAGGCAATACTATACCATTTT 59.356 38.462 10.44 0.00 0.00 1.82
2835 4322 5.238432 CGAGGCAATACTATACCATTTTGCA 59.762 40.000 7.62 0.00 40.81 4.08
2849 4337 5.067413 ACCATTTTGCATGCAAATTGTCAAA 59.933 32.000 39.12 28.37 44.14 2.69
2867 4355 9.730420 ATTGTCAAACATTCTTGTTACACTAAC 57.270 29.630 0.00 0.00 45.30 2.34
2879 4367 9.419297 TCTTGTTACACTAACATGAACATCTAC 57.581 33.333 0.00 0.00 46.89 2.59
2880 4368 7.806149 TGTTACACTAACATGAACATCTACG 57.194 36.000 0.00 0.00 43.23 3.51
2886 4375 6.948228 CACTAACATGAACATCTACGAAAACG 59.052 38.462 0.00 0.00 0.00 3.60
2906 4395 3.332783 ACGAGTAAATCCCTTTTTCCCCT 59.667 43.478 0.00 0.00 0.00 4.79
2908 4397 5.014438 ACGAGTAAATCCCTTTTTCCCCTTA 59.986 40.000 0.00 0.00 0.00 2.69
2909 4398 5.356190 CGAGTAAATCCCTTTTTCCCCTTAC 59.644 44.000 0.00 0.00 0.00 2.34
2910 4399 6.479395 AGTAAATCCCTTTTTCCCCTTACT 57.521 37.500 0.00 0.00 0.00 2.24
2911 4400 6.253758 AGTAAATCCCTTTTTCCCCTTACTG 58.746 40.000 0.00 0.00 29.56 2.74
2913 4402 3.801307 TCCCTTTTTCCCCTTACTGTC 57.199 47.619 0.00 0.00 0.00 3.51
2914 4403 3.057586 TCCCTTTTTCCCCTTACTGTCA 58.942 45.455 0.00 0.00 0.00 3.58
2915 4404 3.073946 TCCCTTTTTCCCCTTACTGTCAG 59.926 47.826 0.00 0.00 0.00 3.51
2916 4405 2.820197 CCTTTTTCCCCTTACTGTCAGC 59.180 50.000 0.00 0.00 0.00 4.26
2919 4408 3.876309 TTTCCCCTTACTGTCAGCTTT 57.124 42.857 0.00 0.00 0.00 3.51
2920 4409 2.859165 TCCCCTTACTGTCAGCTTTG 57.141 50.000 0.00 0.00 0.00 2.77
2952 4442 3.087370 ACCCCTGGCTGTCTATTTTTC 57.913 47.619 0.00 0.00 0.00 2.29
2960 4450 6.865205 CCTGGCTGTCTATTTTTCTTTTCTTG 59.135 38.462 0.00 0.00 0.00 3.02
2964 4454 6.144563 GCTGTCTATTTTTCTTTTCTTGTGGC 59.855 38.462 0.00 0.00 0.00 5.01
2975 4465 2.582728 TCTTGTGGCTTGCTTGTTTG 57.417 45.000 0.00 0.00 0.00 2.93
2983 4473 2.487086 GGCTTGCTTGTTTGGGGATTTT 60.487 45.455 0.00 0.00 0.00 1.82
2994 4484 0.326927 GGGGATTTTCCACTGTCGGA 59.673 55.000 0.00 0.00 36.87 4.55
2999 4489 4.202367 GGGATTTTCCACTGTCGGAGATAT 60.202 45.833 0.00 0.00 37.23 1.63
3006 4496 0.526662 CTGTCGGAGATATACCCCGC 59.473 60.000 0.00 0.00 42.70 6.13
3026 4516 1.298667 GTGTAACCTGGCCGGATGT 59.701 57.895 15.09 0.00 36.31 3.06
3038 4528 2.030562 GGATGTATGACCCGGCCG 59.969 66.667 21.04 21.04 0.00 6.13
3056 4546 1.666011 GGACTTGGCGACTCACTGA 59.334 57.895 0.00 0.00 0.00 3.41
3061 4551 0.969149 TTGGCGACTCACTGATGACT 59.031 50.000 0.00 0.00 0.00 3.41
3093 4583 0.807496 GCGACTCACTAGTAACCCGT 59.193 55.000 0.00 0.00 35.56 5.28
3095 4585 1.399791 CGACTCACTAGTAACCCGTCC 59.600 57.143 0.00 0.00 35.56 4.79
3107 4597 2.342279 CCGTCCAGAGTTGGCGAA 59.658 61.111 10.47 0.00 44.63 4.70
3108 4598 1.301401 CCGTCCAGAGTTGGCGAAA 60.301 57.895 10.47 0.00 44.63 3.46
3122 4612 1.873165 CGAAACATTGGTGACCCGG 59.127 57.895 0.00 0.00 0.00 5.73
3145 4635 1.371183 CGGGTCAGAGGAGCAACAA 59.629 57.895 0.00 0.00 43.32 2.83
3151 4641 0.397941 CAGAGGAGCAACAAGACCCA 59.602 55.000 0.00 0.00 0.00 4.51
3154 4644 0.109342 AGGAGCAACAAGACCCAGTG 59.891 55.000 0.00 0.00 0.00 3.66
3160 4650 2.034687 CAAGACCCAGTGGCCCAG 59.965 66.667 2.61 0.00 33.59 4.45
3162 4652 1.542375 AAGACCCAGTGGCCCAGAT 60.542 57.895 2.61 0.00 33.59 2.90
3216 4706 1.296715 GCCGGCTTGAGAAGGAAGA 59.703 57.895 22.15 0.00 0.00 2.87
3229 4719 7.928307 TGAGAAGGAAGACAAAAGGAATATG 57.072 36.000 0.00 0.00 0.00 1.78
3256 4746 4.009370 ACAAAGGAAGCAAGACTAGGAC 57.991 45.455 0.00 0.00 0.00 3.85
3272 4762 7.057894 AGACTAGGACTCCACTTGTAATAGAG 58.942 42.308 0.00 0.00 0.00 2.43
3278 4768 7.839705 AGGACTCCACTTGTAATAGAGTAATCA 59.160 37.037 0.00 0.00 37.90 2.57
3309 4799 5.259632 ACTAGAACTAGTCATGTAACCCGT 58.740 41.667 8.47 0.00 42.30 5.28
3311 4801 4.342359 AGAACTAGTCATGTAACCCGTCT 58.658 43.478 0.00 0.00 0.00 4.18
3314 4804 4.342359 ACTAGTCATGTAACCCGTCTCTT 58.658 43.478 0.00 0.00 0.00 2.85
3332 4822 7.230913 CCGTCTCTTCAACTTATATAAGGAGGA 59.769 40.741 23.24 16.28 37.62 3.71
3337 4827 7.785028 TCTTCAACTTATATAAGGAGGAGCAGA 59.215 37.037 23.24 14.76 37.62 4.26
3341 4831 6.022315 ACTTATATAAGGAGGAGCAGAGCAT 58.978 40.000 23.24 0.00 37.62 3.79
3367 4857 4.236527 AGAGGGACAAGTTTCACAAGTT 57.763 40.909 0.00 0.00 0.00 2.66
3396 4886 4.702612 AGACAAGTCAATAGCTCTCGAGAA 59.297 41.667 17.36 1.60 0.00 2.87
3424 4914 2.171003 GCCAAAGAGCACCCTTGTAAT 58.829 47.619 0.00 0.00 0.00 1.89
3425 4915 2.164422 GCCAAAGAGCACCCTTGTAATC 59.836 50.000 0.00 0.00 0.00 1.75
3426 4916 2.420022 CCAAAGAGCACCCTTGTAATCG 59.580 50.000 0.00 0.00 0.00 3.34
3428 4918 1.568504 AGAGCACCCTTGTAATCGGA 58.431 50.000 0.00 0.00 0.00 4.55
3429 4919 1.207329 AGAGCACCCTTGTAATCGGAC 59.793 52.381 0.00 0.00 0.00 4.79
3430 4920 1.207329 GAGCACCCTTGTAATCGGACT 59.793 52.381 0.00 0.00 0.00 3.85
3433 4923 2.354805 GCACCCTTGTAATCGGACTTCT 60.355 50.000 0.00 0.00 0.00 2.85
3435 4925 2.500504 ACCCTTGTAATCGGACTTCTCC 59.499 50.000 0.00 0.00 0.00 3.71
3443 4933 4.144703 GGACTTCTCCGCGGGGTC 62.145 72.222 27.35 24.52 33.83 4.46
3444 4934 3.069318 GACTTCTCCGCGGGGTCT 61.069 66.667 27.35 8.39 33.83 3.85
3445 4935 3.358076 GACTTCTCCGCGGGGTCTG 62.358 68.421 27.35 18.14 33.83 3.51
3446 4936 4.148825 CTTCTCCGCGGGGTCTGG 62.149 72.222 27.35 9.84 33.83 3.86
3456 4946 3.775654 GGGTCTGGTGCGGGAGAG 61.776 72.222 0.00 0.00 0.00 3.20
3458 4948 3.775654 GTCTGGTGCGGGAGAGGG 61.776 72.222 0.00 0.00 0.00 4.30
3484 4974 4.623814 TCGACCTCGACATACCGT 57.376 55.556 0.00 0.00 44.22 4.83
3485 4975 2.387309 TCGACCTCGACATACCGTC 58.613 57.895 0.00 0.00 44.22 4.79
3493 4983 1.808390 GACATACCGTCGGTGGTGC 60.808 63.158 27.20 15.78 43.68 5.01
3495 4985 2.682494 ATACCGTCGGTGGTGCCT 60.682 61.111 27.20 0.00 43.68 4.75
3496 4986 1.380246 ATACCGTCGGTGGTGCCTA 60.380 57.895 27.20 5.10 43.68 3.93
3499 4989 1.740296 CCGTCGGTGGTGCCTAAAG 60.740 63.158 2.08 0.00 34.25 1.85
3500 4990 1.740296 CGTCGGTGGTGCCTAAAGG 60.740 63.158 0.00 0.00 38.53 3.11
3501 4991 1.675219 GTCGGTGGTGCCTAAAGGA 59.325 57.895 0.00 0.00 37.39 3.36
3505 4995 1.205460 GGTGGTGCCTAAAGGAGGGA 61.205 60.000 0.00 0.00 46.81 4.20
3508 4998 3.741325 TGCCTAAAGGAGGGAGCC 58.259 61.111 0.00 0.00 46.81 4.70
3509 4999 2.367202 TGCCTAAAGGAGGGAGCCG 61.367 63.158 0.00 0.00 46.81 5.52
3510 5000 3.108288 GCCTAAAGGAGGGAGCCGG 62.108 68.421 0.00 0.00 46.81 6.13
3511 5001 2.444256 CCTAAAGGAGGGAGCCGGG 61.444 68.421 2.18 0.00 42.39 5.73
3512 5002 2.366435 TAAAGGAGGGAGCCGGGG 60.366 66.667 2.18 0.00 0.00 5.73
3513 5003 2.891307 CTAAAGGAGGGAGCCGGGGA 62.891 65.000 2.18 0.00 0.00 4.81
3514 5004 2.265890 TAAAGGAGGGAGCCGGGGAT 62.266 60.000 2.18 0.00 0.00 3.85
3515 5005 3.660092 AAGGAGGGAGCCGGGGATT 62.660 63.158 2.18 0.00 0.00 3.01
3516 5006 3.561241 GGAGGGAGCCGGGGATTC 61.561 72.222 2.18 0.00 0.00 2.52
3517 5007 2.768344 GAGGGAGCCGGGGATTCA 60.768 66.667 2.18 0.00 0.00 2.57
3518 5008 2.286121 AGGGAGCCGGGGATTCAA 60.286 61.111 2.18 0.00 0.00 2.69
3519 5009 2.124278 GGGAGCCGGGGATTCAAC 60.124 66.667 2.18 0.00 0.00 3.18
3525 5015 2.267642 CGGGGATTCAACCTCGCA 59.732 61.111 0.00 0.00 46.85 5.10
3527 5017 2.106683 GGGGATTCAACCTCGCACG 61.107 63.158 0.00 0.00 0.00 5.34
3531 5021 1.135199 GGATTCAACCTCGCACGACTA 60.135 52.381 0.00 0.00 0.00 2.59
3532 5022 2.481449 GGATTCAACCTCGCACGACTAT 60.481 50.000 0.00 0.00 0.00 2.12
3533 5023 1.990799 TTCAACCTCGCACGACTATG 58.009 50.000 0.00 0.00 0.00 2.23
3534 5024 0.172578 TCAACCTCGCACGACTATGG 59.827 55.000 0.00 0.00 0.00 2.74
3535 5025 0.172578 CAACCTCGCACGACTATGGA 59.827 55.000 3.40 0.00 0.00 3.41
3536 5026 0.892755 AACCTCGCACGACTATGGAA 59.107 50.000 3.40 0.00 0.00 3.53
3537 5027 0.456221 ACCTCGCACGACTATGGAAG 59.544 55.000 3.40 0.00 0.00 3.46
3538 5028 0.249073 CCTCGCACGACTATGGAAGG 60.249 60.000 0.00 0.00 0.00 3.46
3539 5029 0.738975 CTCGCACGACTATGGAAGGA 59.261 55.000 0.00 0.00 0.00 3.36
3540 5030 0.738975 TCGCACGACTATGGAAGGAG 59.261 55.000 0.00 0.00 0.00 3.69
3541 5031 0.249073 CGCACGACTATGGAAGGAGG 60.249 60.000 0.00 0.00 0.00 4.30
3542 5032 0.530870 GCACGACTATGGAAGGAGGC 60.531 60.000 0.00 0.00 0.00 4.70
3546 5036 0.030908 GACTATGGAAGGAGGCGACG 59.969 60.000 0.00 0.00 0.00 5.12
3547 5037 0.683504 ACTATGGAAGGAGGCGACGT 60.684 55.000 0.00 0.00 0.00 4.34
3548 5038 0.030908 CTATGGAAGGAGGCGACGTC 59.969 60.000 5.18 5.18 0.00 4.34
3549 5039 1.721664 TATGGAAGGAGGCGACGTCG 61.722 60.000 32.57 32.57 43.27 5.12
3565 5055 4.778415 CGACCTCGACGCACCAGG 62.778 72.222 0.00 0.00 43.02 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.447217 CGCAGGCTCCATGTCCATA 59.553 57.895 0.00 0.00 0.00 2.74
101 104 1.202417 ACTAACATGGCTCGTCCGATG 60.202 52.381 0.00 0.00 37.80 3.84
186 189 3.118261 AGCATATTGGTCAACCTCATCGT 60.118 43.478 0.10 0.00 36.82 3.73
235 238 2.170260 CTACCAAAGTGCACACCGCG 62.170 60.000 21.04 0.00 46.97 6.46
348 394 6.061441 TGCTCAGTTTATTGAAGAAAGACCA 58.939 36.000 0.00 0.00 0.00 4.02
503 550 6.238759 GCGCTAGGAAATTAATCATTGAAGGT 60.239 38.462 0.00 0.00 0.00 3.50
507 559 4.518970 GGGCGCTAGGAAATTAATCATTGA 59.481 41.667 7.64 0.00 0.00 2.57
512 564 3.366374 GCATGGGCGCTAGGAAATTAATC 60.366 47.826 7.64 0.00 0.00 1.75
530 582 1.089920 GCACTAACACTCCCAGCATG 58.910 55.000 0.00 0.00 0.00 4.06
533 585 1.301677 GCAGCACTAACACTCCCAGC 61.302 60.000 0.00 0.00 0.00 4.85
534 586 0.674895 GGCAGCACTAACACTCCCAG 60.675 60.000 0.00 0.00 0.00 4.45
620 672 1.964608 TTCATCTGAGCAGGCTCCGG 61.965 60.000 17.92 11.04 42.09 5.14
621 673 0.106335 ATTCATCTGAGCAGGCTCCG 59.894 55.000 17.92 12.13 42.09 4.63
623 675 1.417145 AGGATTCATCTGAGCAGGCTC 59.583 52.381 14.20 14.20 43.01 4.70
624 676 1.417145 GAGGATTCATCTGAGCAGGCT 59.583 52.381 0.00 0.00 0.00 4.58
625 677 1.542987 GGAGGATTCATCTGAGCAGGC 60.543 57.143 0.00 0.00 0.00 4.85
939 1174 2.628178 TGTGCGGAAGAAAGAGAAGAGA 59.372 45.455 0.00 0.00 0.00 3.10
940 1175 2.734079 GTGTGCGGAAGAAAGAGAAGAG 59.266 50.000 0.00 0.00 0.00 2.85
942 1177 2.760374 AGTGTGCGGAAGAAAGAGAAG 58.240 47.619 0.00 0.00 0.00 2.85
944 1179 2.158957 ACAAGTGTGCGGAAGAAAGAGA 60.159 45.455 0.00 0.00 0.00 3.10
963 1211 3.172106 TTGGCCCCTCACCGAACA 61.172 61.111 0.00 0.00 0.00 3.18
964 1212 2.671963 GTTGGCCCCTCACCGAAC 60.672 66.667 0.00 0.00 0.00 3.95
968 1216 1.908299 CCAAAGTTGGCCCCTCACC 60.908 63.158 0.00 0.00 42.21 4.02
1006 1254 2.647003 GATGGCAACCCCCTCATCCC 62.647 65.000 0.00 0.00 32.27 3.85
1007 1255 1.152673 GATGGCAACCCCCTCATCC 60.153 63.158 0.00 0.00 32.27 3.51
1010 1258 2.933287 ACGATGGCAACCCCCTCA 60.933 61.111 0.00 0.00 0.00 3.86
1020 1268 3.434319 CACCAGCACCACGATGGC 61.434 66.667 0.00 0.00 42.67 4.40
1021 1269 3.434319 GCACCAGCACCACGATGG 61.434 66.667 0.00 0.00 45.02 3.51
1022 1270 3.792047 CGCACCAGCACCACGATG 61.792 66.667 0.00 0.00 42.27 3.84
1023 1271 4.314440 ACGCACCAGCACCACGAT 62.314 61.111 0.00 0.00 42.27 3.73
1024 1272 4.961511 GACGCACCAGCACCACGA 62.962 66.667 0.00 0.00 42.27 4.35
1028 1276 3.537206 AAGAGGACGCACCAGCACC 62.537 63.158 2.21 0.00 42.27 5.01
1030 1278 2.031012 CAAGAGGACGCACCAGCA 59.969 61.111 2.21 0.00 42.27 4.41
1031 1279 2.031163 ACAAGAGGACGCACCAGC 59.969 61.111 2.21 0.00 42.04 4.85
1032 1280 2.320587 GCACAAGAGGACGCACCAG 61.321 63.158 2.21 0.00 42.04 4.00
1266 1533 3.021269 TCACTGACGTGTACATGTTCC 57.979 47.619 21.31 10.60 41.89 3.62
1267 1534 5.389516 GGAATTCACTGACGTGTACATGTTC 60.390 44.000 21.31 14.43 41.89 3.18
1284 1551 5.357878 CCATTTCGATTCAGAAGGGAATTCA 59.642 40.000 7.93 0.00 40.67 2.57
1285 1552 5.590259 TCCATTTCGATTCAGAAGGGAATTC 59.410 40.000 0.00 0.00 37.61 2.17
1286 1553 5.509498 TCCATTTCGATTCAGAAGGGAATT 58.491 37.500 0.00 0.00 37.61 2.17
1287 1554 5.116084 TCCATTTCGATTCAGAAGGGAAT 57.884 39.130 0.00 0.00 40.10 3.01
1288 1555 4.568072 TCCATTTCGATTCAGAAGGGAA 57.432 40.909 0.00 0.00 34.61 3.97
1289 1556 4.080356 ACATCCATTTCGATTCAGAAGGGA 60.080 41.667 2.93 2.93 38.69 4.20
1290 1557 4.202441 ACATCCATTTCGATTCAGAAGGG 58.798 43.478 0.00 0.00 0.00 3.95
1294 1561 6.598850 TGAATCAACATCCATTTCGATTCAGA 59.401 34.615 8.19 0.00 42.11 3.27
1312 1579 4.191544 CCTCGGCTACAAAGATGAATCAA 58.808 43.478 0.00 0.00 0.00 2.57
1318 1602 0.460284 ACGCCTCGGCTACAAAGATG 60.460 55.000 6.35 0.00 39.32 2.90
1326 1684 3.458163 CTCCCAACGCCTCGGCTA 61.458 66.667 6.35 0.00 39.32 3.93
1534 1892 3.312736 AAATGATTACCTTGCGGGGAT 57.687 42.857 1.64 0.00 40.03 3.85
1629 1987 5.874810 CAGAACCGACTTGATCTCCATTTTA 59.125 40.000 0.00 0.00 0.00 1.52
1781 2200 3.036429 GCTCCACTCCGCCTTCCAT 62.036 63.158 0.00 0.00 0.00 3.41
2006 2425 1.669440 GTTGTGGTAGAGGGCGACA 59.331 57.895 0.00 0.00 0.00 4.35
2132 2551 2.422519 GGAGTGGGACTGACCGTATAGA 60.423 54.545 0.00 0.00 40.11 1.98
2135 2554 0.040646 TGGAGTGGGACTGACCGTAT 59.959 55.000 0.00 0.00 40.11 3.06
2154 2573 3.856206 ACAAGACATAGGGGGTATGGTTT 59.144 43.478 0.00 0.00 42.74 3.27
2246 2696 8.557029 CCTTAAAGTTGTATTCTTTCTCGTTGT 58.443 33.333 0.00 0.00 36.65 3.32
2250 2700 8.306680 TGTCCTTAAAGTTGTATTCTTTCTCG 57.693 34.615 0.00 0.00 36.65 4.04
2391 3877 5.073311 ACGAGCTCATGTTGTAGTTGTAT 57.927 39.130 15.40 0.00 0.00 2.29
2617 4103 3.743636 AAAAATCACGCGCGGGGG 61.744 61.111 34.16 24.42 0.00 5.40
2654 4140 9.185192 CATAAACACATCTCTTTTCTTTTGGAC 57.815 33.333 0.00 0.00 0.00 4.02
2655 4141 8.359642 CCATAAACACATCTCTTTTCTTTTGGA 58.640 33.333 0.00 0.00 0.00 3.53
2656 4142 8.143835 ACCATAAACACATCTCTTTTCTTTTGG 58.856 33.333 0.00 0.00 0.00 3.28
2657 4143 9.185192 GACCATAAACACATCTCTTTTCTTTTG 57.815 33.333 0.00 0.00 0.00 2.44
2662 4148 7.202016 TGTGACCATAAACACATCTCTTTTC 57.798 36.000 0.00 0.00 41.19 2.29
2801 4288 3.916761 AGTATTGCCTCGTACGTGAAAA 58.083 40.909 18.29 11.87 0.00 2.29
2808 4295 7.570691 GCAAAATGGTATAGTATTGCCTCGTAC 60.571 40.741 0.00 0.00 37.71 3.67
2809 4296 6.425721 GCAAAATGGTATAGTATTGCCTCGTA 59.574 38.462 0.00 0.00 37.71 3.43
2812 4299 6.633500 TGCAAAATGGTATAGTATTGCCTC 57.367 37.500 5.91 0.00 41.72 4.70
2820 4307 7.104939 ACAATTTGCATGCAAAATGGTATAGT 58.895 30.769 42.12 28.20 45.74 2.12
2832 4319 5.057819 AGAATGTTTGACAATTTGCATGCA 58.942 33.333 18.46 18.46 0.00 3.96
2867 4355 5.763444 ACTCGTTTTCGTAGATGTTCATG 57.237 39.130 0.00 0.00 44.46 3.07
2879 4367 6.906584 GAAAAAGGGATTTACTCGTTTTCG 57.093 37.500 0.00 0.00 43.32 3.46
2886 4375 6.377429 CAGTAAGGGGAAAAAGGGATTTACTC 59.623 42.308 0.00 0.00 0.00 2.59
2910 4399 5.008613 GGTAAAATCTGTCACAAAGCTGACA 59.991 40.000 6.38 6.38 46.69 3.58
2911 4400 5.452777 GGTAAAATCTGTCACAAAGCTGAC 58.547 41.667 0.00 0.00 40.98 3.51
2913 4402 4.321230 GGGGTAAAATCTGTCACAAAGCTG 60.321 45.833 0.00 0.00 0.00 4.24
2914 4403 3.826729 GGGGTAAAATCTGTCACAAAGCT 59.173 43.478 0.00 0.00 0.00 3.74
2915 4404 3.826729 AGGGGTAAAATCTGTCACAAAGC 59.173 43.478 0.00 0.00 0.00 3.51
2916 4405 4.218417 CCAGGGGTAAAATCTGTCACAAAG 59.782 45.833 0.00 0.00 0.00 2.77
2919 4408 2.554344 GCCAGGGGTAAAATCTGTCACA 60.554 50.000 0.00 0.00 0.00 3.58
2920 4409 2.092323 GCCAGGGGTAAAATCTGTCAC 58.908 52.381 0.00 0.00 0.00 3.67
2952 4442 3.169355 ACAAGCAAGCCACAAGAAAAG 57.831 42.857 0.00 0.00 0.00 2.27
2960 4450 1.069596 CCCCAAACAAGCAAGCCAC 59.930 57.895 0.00 0.00 0.00 5.01
2964 4454 3.181456 TGGAAAATCCCCAAACAAGCAAG 60.181 43.478 0.00 0.00 35.03 4.01
2975 4465 0.326927 TCCGACAGTGGAAAATCCCC 59.673 55.000 0.00 0.00 35.03 4.81
2983 4473 2.490351 GGGGTATATCTCCGACAGTGGA 60.490 54.545 0.00 0.00 36.37 4.02
3006 4496 3.026431 ATCCGGCCAGGTTACACCG 62.026 63.158 2.24 0.00 44.90 4.94
3016 4506 2.802724 CGGGTCATACATCCGGCCA 61.803 63.158 2.24 0.00 40.07 5.36
3017 4507 2.030562 CGGGTCATACATCCGGCC 59.969 66.667 0.00 0.00 40.07 6.13
3021 4511 2.030562 CGGCCGGGTCATACATCC 59.969 66.667 20.10 0.00 0.00 3.51
3026 4516 2.364579 AAGTCCGGCCGGGTCATA 60.365 61.111 42.36 22.14 37.00 2.15
3038 4528 0.247736 ATCAGTGAGTCGCCAAGTCC 59.752 55.000 0.00 0.00 0.00 3.85
3056 4546 3.461773 CGGGTCAGGGCGAGTCAT 61.462 66.667 0.00 0.00 0.00 3.06
3093 4583 1.879380 CAATGTTTCGCCAACTCTGGA 59.121 47.619 0.00 0.00 46.92 3.86
3095 4585 1.608590 ACCAATGTTTCGCCAACTCTG 59.391 47.619 0.00 0.00 36.21 3.35
3107 4597 1.603455 CTGCCGGGTCACCAATGTT 60.603 57.895 2.18 0.00 36.13 2.71
3108 4598 2.034066 CTGCCGGGTCACCAATGT 59.966 61.111 2.18 0.00 36.13 2.71
3122 4612 4.154347 CTCCTCTGACCCGCCTGC 62.154 72.222 0.00 0.00 0.00 4.85
3145 4635 2.125912 ATCTGGGCCACTGGGTCT 59.874 61.111 0.00 0.00 39.39 3.85
3160 4650 1.728490 GCCTTCCATGAACCGCCATC 61.728 60.000 0.00 0.00 0.00 3.51
3162 4652 2.361104 GCCTTCCATGAACCGCCA 60.361 61.111 0.00 0.00 0.00 5.69
3216 4706 6.070824 CCTTTGTAAGGGCATATTCCTTTTGT 60.071 38.462 11.19 0.00 45.27 2.83
3291 4781 4.342359 AGAGACGGGTTACATGACTAGTT 58.658 43.478 0.00 0.00 0.00 2.24
3295 4785 3.162666 TGAAGAGACGGGTTACATGACT 58.837 45.455 0.00 0.00 0.00 3.41
3296 4786 3.587797 TGAAGAGACGGGTTACATGAC 57.412 47.619 0.00 0.00 0.00 3.06
3301 4791 9.460906 CTTATATAAGTTGAAGAGACGGGTTAC 57.539 37.037 13.48 0.00 0.00 2.50
3309 4799 7.785028 TGCTCCTCCTTATATAAGTTGAAGAGA 59.215 37.037 20.53 10.89 0.00 3.10
3311 4801 7.785028 TCTGCTCCTCCTTATATAAGTTGAAGA 59.215 37.037 18.91 9.68 0.00 2.87
3314 4804 6.015010 GCTCTGCTCCTCCTTATATAAGTTGA 60.015 42.308 18.91 10.41 0.00 3.18
3332 4822 1.913722 CCTCTTGGGATGCTCTGCT 59.086 57.895 0.00 0.00 37.23 4.24
3353 4843 5.122239 TGTCTGTCTCAACTTGTGAAACTTG 59.878 40.000 0.00 0.00 38.04 3.16
3367 4857 4.769488 AGAGCTATTGACTTGTCTGTCTCA 59.231 41.667 2.35 0.00 37.79 3.27
3396 4886 1.003696 GGTGCTCTTTGGCTACCTCTT 59.996 52.381 0.00 0.00 33.69 2.85
3426 4916 4.144703 GACCCCGCGGAGAAGTCC 62.145 72.222 30.73 8.65 39.88 3.85
3428 4918 3.382832 CAGACCCCGCGGAGAAGT 61.383 66.667 30.73 18.34 0.00 3.01
3429 4919 4.148825 CCAGACCCCGCGGAGAAG 62.149 72.222 30.73 14.89 0.00 2.85
3439 4929 3.775654 CTCTCCCGCACCAGACCC 61.776 72.222 0.00 0.00 0.00 4.46
3440 4930 3.775654 CCTCTCCCGCACCAGACC 61.776 72.222 0.00 0.00 0.00 3.85
3441 4931 3.775654 CCCTCTCCCGCACCAGAC 61.776 72.222 0.00 0.00 0.00 3.51
3458 4948 4.570663 CGAGGTCGATGTCGCCCC 62.571 72.222 6.46 1.34 38.28 5.80
3459 4949 3.515286 TCGAGGTCGATGTCGCCC 61.515 66.667 13.00 3.65 44.22 6.13
3468 4958 4.991760 GACGGTATGTCGAGGTCG 57.008 61.111 0.00 0.00 37.96 4.79
3475 4965 1.808390 GCACCACCGACGGTATGTC 60.808 63.158 21.25 12.83 44.53 3.06
3476 4966 2.263540 GCACCACCGACGGTATGT 59.736 61.111 21.25 16.94 37.07 2.29
3477 4967 1.669049 TAGGCACCACCGACGGTATG 61.669 60.000 21.25 21.00 46.52 2.39
3478 4968 0.971959 TTAGGCACCACCGACGGTAT 60.972 55.000 21.25 8.30 46.52 2.73
3479 4969 1.184322 TTTAGGCACCACCGACGGTA 61.184 55.000 21.25 0.00 46.52 4.02
3480 4970 2.444700 CTTTAGGCACCACCGACGGT 62.445 60.000 15.37 15.37 46.52 4.83
3483 4973 0.391263 CTCCTTTAGGCACCACCGAC 60.391 60.000 0.00 0.00 46.52 4.79
3484 4974 1.550130 CCTCCTTTAGGCACCACCGA 61.550 60.000 0.00 0.00 46.52 4.69
3485 4975 1.078426 CCTCCTTTAGGCACCACCG 60.078 63.158 0.00 0.00 46.52 4.94
3487 4977 0.253327 CTCCCTCCTTTAGGCACCAC 59.747 60.000 0.00 0.00 45.03 4.16
3488 4978 1.562672 GCTCCCTCCTTTAGGCACCA 61.563 60.000 0.00 0.00 45.03 4.17
3489 4979 1.224870 GCTCCCTCCTTTAGGCACC 59.775 63.158 0.00 0.00 45.03 5.01
3491 4981 2.367202 CGGCTCCCTCCTTTAGGCA 61.367 63.158 0.00 0.00 45.03 4.75
3493 4983 2.444256 CCCGGCTCCCTCCTTTAGG 61.444 68.421 0.00 0.00 46.09 2.69
3495 4985 2.265890 ATCCCCGGCTCCCTCCTTTA 62.266 60.000 0.00 0.00 0.00 1.85
3496 4986 3.660092 ATCCCCGGCTCCCTCCTTT 62.660 63.158 0.00 0.00 0.00 3.11
3499 4989 3.561241 GAATCCCCGGCTCCCTCC 61.561 72.222 0.00 0.00 0.00 4.30
3500 4990 2.375345 TTGAATCCCCGGCTCCCTC 61.375 63.158 0.00 0.00 0.00 4.30
3501 4991 2.286121 TTGAATCCCCGGCTCCCT 60.286 61.111 0.00 0.00 0.00 4.20
3505 4995 2.998949 GAGGTTGAATCCCCGGCT 59.001 61.111 0.00 0.00 0.00 5.52
3506 4996 2.513897 CGAGGTTGAATCCCCGGC 60.514 66.667 0.00 0.00 0.00 6.13
3507 4997 2.513897 GCGAGGTTGAATCCCCGG 60.514 66.667 0.00 0.00 0.00 5.73
3508 4998 2.106683 GTGCGAGGTTGAATCCCCG 61.107 63.158 0.00 0.00 0.00 5.73
3509 4999 2.106683 CGTGCGAGGTTGAATCCCC 61.107 63.158 0.00 0.00 0.00 4.81
3510 5000 1.079405 TCGTGCGAGGTTGAATCCC 60.079 57.895 0.00 0.00 0.00 3.85
3511 5001 0.389948 AGTCGTGCGAGGTTGAATCC 60.390 55.000 0.00 0.00 0.00 3.01
3512 5002 2.273370 TAGTCGTGCGAGGTTGAATC 57.727 50.000 0.00 0.00 0.00 2.52
3513 5003 2.540515 CATAGTCGTGCGAGGTTGAAT 58.459 47.619 0.00 0.00 0.00 2.57
3514 5004 1.403647 CCATAGTCGTGCGAGGTTGAA 60.404 52.381 0.00 0.00 0.00 2.69
3515 5005 0.172578 CCATAGTCGTGCGAGGTTGA 59.827 55.000 0.00 0.00 0.00 3.18
3516 5006 0.172578 TCCATAGTCGTGCGAGGTTG 59.827 55.000 0.00 0.00 0.00 3.77
3517 5007 0.892755 TTCCATAGTCGTGCGAGGTT 59.107 50.000 0.00 0.00 0.00 3.50
3518 5008 0.456221 CTTCCATAGTCGTGCGAGGT 59.544 55.000 0.00 0.00 0.00 3.85
3519 5009 0.249073 CCTTCCATAGTCGTGCGAGG 60.249 60.000 0.00 0.00 0.00 4.63
3524 5014 0.249073 CGCCTCCTTCCATAGTCGTG 60.249 60.000 0.00 0.00 0.00 4.35
3525 5015 0.395311 TCGCCTCCTTCCATAGTCGT 60.395 55.000 0.00 0.00 0.00 4.34
3527 5017 0.030908 CGTCGCCTCCTTCCATAGTC 59.969 60.000 0.00 0.00 0.00 2.59
3531 5021 2.893398 GACGTCGCCTCCTTCCAT 59.107 61.111 0.00 0.00 0.00 3.41
3532 5022 3.744719 CGACGTCGCCTCCTTCCA 61.745 66.667 26.59 0.00 0.00 3.53
3533 5023 3.437795 TCGACGTCGCCTCCTTCC 61.438 66.667 32.19 0.00 39.60 3.46
3534 5024 2.202453 GTCGACGTCGCCTCCTTC 60.202 66.667 32.19 12.11 39.60 3.46
3535 5025 3.745803 GGTCGACGTCGCCTCCTT 61.746 66.667 32.19 0.00 39.60 3.36
3536 5026 4.719106 AGGTCGACGTCGCCTCCT 62.719 66.667 33.53 31.25 40.14 3.69
3537 5027 4.176851 GAGGTCGACGTCGCCTCC 62.177 72.222 40.84 34.29 46.71 4.30
3548 5038 4.778415 CCTGGTGCGTCGAGGTCG 62.778 72.222 7.01 0.00 37.29 4.79
3560 5050 4.760047 GTGTCGATGGCGCCTGGT 62.760 66.667 29.70 13.97 37.46 4.00


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

AutoCloner maintained by Alex Coulton.