Multiple sequence alignment - TraesCS4A01G271000

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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 TraesCS4A01G271000 chr4A 100.000 3863 0 0 1 3863 582480578 582476716 0.000000e+00 7134.0
1 TraesCS4A01G271000 chr4A 85.232 1036 132 12 1882 2912 729477055 729476036 0.000000e+00 1046.0
2 TraesCS4A01G271000 chr4A 81.429 140 24 2 1932 2070 573172934 573172796 3.150000e-21 113.0
3 TraesCS4A01G271000 chr4D 91.531 3920 190 80 9 3859 18780089 18783935 0.000000e+00 5269.0
4 TraesCS4A01G271000 chr4D 79.720 143 27 2 1923 2064 30005079 30005220 6.830000e-18 102.0
5 TraesCS4A01G271000 chr4B 90.370 2949 120 70 465 3346 30860880 30863731 0.000000e+00 3722.0
6 TraesCS4A01G271000 chr4B 92.888 464 21 3 2028 2491 389754555 389755006 0.000000e+00 664.0
7 TraesCS4A01G271000 chr4B 95.652 207 8 1 2456 2661 389755009 389755215 8.000000e-87 331.0
8 TraesCS4A01G271000 chr4B 86.411 287 13 14 3485 3757 30863762 30864036 1.360000e-74 291.0
9 TraesCS4A01G271000 chr4B 93.056 72 3 2 307 378 30860789 30860858 1.900000e-18 104.0
10 TraesCS4A01G271000 chr4B 79.085 153 29 3 1919 2070 42776335 42776185 6.830000e-18 102.0
11 TraesCS4A01G271000 chr5A 94.016 635 25 4 2028 2661 363860115 363859493 0.000000e+00 950.0
12 TraesCS4A01G271000 chr5A 81.429 350 57 6 79 424 396747739 396748084 2.940000e-71 279.0
13 TraesCS4A01G271000 chr7B 93.534 464 18 3 2028 2491 60629189 60629640 0.000000e+00 680.0
14 TraesCS4A01G271000 chr7B 95.652 207 8 1 2456 2661 60629643 60629849 8.000000e-87 331.0
15 TraesCS4A01G271000 chr1B 93.534 464 18 3 2028 2491 605938407 605937956 0.000000e+00 680.0
16 TraesCS4A01G271000 chr1B 96.517 201 6 1 2462 2661 605937947 605937747 8.000000e-87 331.0
17 TraesCS4A01G271000 chr6B 91.879 431 23 3 2061 2491 623993608 623994026 3.320000e-165 592.0
18 TraesCS4A01G271000 chr6B 93.720 207 12 1 2456 2661 623994029 623994235 3.750000e-80 309.0
19 TraesCS4A01G271000 chr6B 97.368 38 1 0 2028 2065 623987611 623987648 8.960000e-07 65.8
20 TraesCS4A01G271000 chr7D 85.658 509 52 12 2405 2911 9093015 9093504 2.060000e-142 516.0
21 TraesCS4A01G271000 chr7D 83.333 330 49 5 98 424 537570813 537570487 2.260000e-77 300.0
22 TraesCS4A01G271000 chr7A 86.567 335 27 7 1427 1761 562904755 562904439 1.710000e-93 353.0
23 TraesCS4A01G271000 chr7A 89.818 275 25 1 1148 1422 563212858 563212587 2.210000e-92 350.0
24 TraesCS4A01G271000 chr7A 80.769 390 57 14 79 456 254378129 254377746 4.880000e-74 289.0
25 TraesCS4A01G271000 chr3D 83.143 350 52 5 79 424 178186877 178186531 2.900000e-81 313.0
26 TraesCS4A01G271000 chr3A 83.046 348 54 4 79 424 510413353 510413697 1.040000e-80 311.0
27 TraesCS4A01G271000 chr1A 82.759 348 55 4 79 424 3160081 3159737 4.850000e-79 305.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G271000 chr4A 582476716 582480578 3862 True 7134.000000 7134 100.000000 1 3863 1 chr4A.!!$R2 3862
1 TraesCS4A01G271000 chr4A 729476036 729477055 1019 True 1046.000000 1046 85.232000 1882 2912 1 chr4A.!!$R3 1030
2 TraesCS4A01G271000 chr4D 18780089 18783935 3846 False 5269.000000 5269 91.531000 9 3859 1 chr4D.!!$F1 3850
3 TraesCS4A01G271000 chr4B 30860789 30864036 3247 False 1372.333333 3722 89.945667 307 3757 3 chr4B.!!$F1 3450
4 TraesCS4A01G271000 chr4B 389754555 389755215 660 False 497.500000 664 94.270000 2028 2661 2 chr4B.!!$F2 633
5 TraesCS4A01G271000 chr5A 363859493 363860115 622 True 950.000000 950 94.016000 2028 2661 1 chr5A.!!$R1 633
6 TraesCS4A01G271000 chr7B 60629189 60629849 660 False 505.500000 680 94.593000 2028 2661 2 chr7B.!!$F1 633
7 TraesCS4A01G271000 chr1B 605937747 605938407 660 True 505.500000 680 95.025500 2028 2661 2 chr1B.!!$R1 633
8 TraesCS4A01G271000 chr6B 623993608 623994235 627 False 450.500000 592 92.799500 2061 2661 2 chr6B.!!$F2 600


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
863 925 0.253207 TTCCTCCTTCTTCCTCCCCC 60.253 60.0 0.00 0.00 0.0 5.40 F
936 998 0.665369 CCGAGGCAAGCAAAAGCTTG 60.665 55.0 22.09 22.09 46.9 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2418 2512 1.172180 ATGTGCCGGAGTTGTGGTTG 61.172 55.000 5.05 0.0 0.0 3.77 R
2962 3097 6.936335 TGACATGACATTTAGCTTCTTCTTCA 59.064 34.615 0.00 0.0 0.0 3.02 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
60 61 3.179795 CGTGTGTCGCATTAGCTATGTAC 59.820 47.826 0.00 0.00 39.10 2.90
69 70 4.376413 GCATTAGCTATGTACGTGTCATGC 60.376 45.833 15.10 14.99 36.57 4.06
83 84 4.345271 TGTCATGCGAGACAAAATCATG 57.655 40.909 8.41 0.00 44.92 3.07
84 85 3.752747 TGTCATGCGAGACAAAATCATGT 59.247 39.130 8.41 0.00 44.92 3.21
85 86 4.934602 TGTCATGCGAGACAAAATCATGTA 59.065 37.500 8.41 0.00 44.92 2.29
86 87 5.063817 TGTCATGCGAGACAAAATCATGTAG 59.936 40.000 8.41 0.00 44.92 2.74
88 89 6.018425 GTCATGCGAGACAAAATCATGTAGAT 60.018 38.462 3.71 0.00 38.40 1.98
89 90 7.169813 GTCATGCGAGACAAAATCATGTAGATA 59.830 37.037 3.71 0.00 38.40 1.98
90 91 7.383300 TCATGCGAGACAAAATCATGTAGATAG 59.617 37.037 0.00 0.00 35.39 2.08
92 93 5.986135 GCGAGACAAAATCATGTAGATAGGT 59.014 40.000 0.00 0.00 35.39 3.08
93 94 6.144724 GCGAGACAAAATCATGTAGATAGGTC 59.855 42.308 0.00 0.00 35.39 3.85
94 95 7.203218 CGAGACAAAATCATGTAGATAGGTCA 58.797 38.462 0.00 0.00 35.39 4.02
109 110 9.005777 GTAGATAGGTCAAAATGTTGGTTGTTA 57.994 33.333 0.00 0.00 35.29 2.41
114 115 7.433680 AGGTCAAAATGTTGGTTGTTAGATTC 58.566 34.615 0.00 0.00 35.29 2.52
116 117 6.362283 GTCAAAATGTTGGTTGTTAGATTCGG 59.638 38.462 0.00 0.00 35.29 4.30
144 145 5.128827 TCGATAGACAAGTTAGGGCATCTTT 59.871 40.000 0.00 0.00 42.67 2.52
173 174 8.620116 TCACATGATTCTAGAAACACATGAAA 57.380 30.769 32.51 23.88 35.97 2.69
225 226 2.544685 TCATGCACGGTTTTTGGTTTG 58.455 42.857 0.00 0.00 0.00 2.93
245 246 1.081774 TTGCATCGCCGGAAAAACG 60.082 52.632 5.05 0.00 0.00 3.60
251 252 1.133869 CGCCGGAAAAACGTGGATC 59.866 57.895 5.05 0.00 0.00 3.36
252 253 1.504900 GCCGGAAAAACGTGGATCC 59.495 57.895 5.05 4.20 0.00 3.36
257 258 3.561503 CGGAAAAACGTGGATCCTTTTC 58.438 45.455 20.78 20.78 37.15 2.29
259 260 4.320935 CGGAAAAACGTGGATCCTTTTCAT 60.321 41.667 26.09 9.29 38.80 2.57
263 264 2.991250 ACGTGGATCCTTTTCATGAGG 58.009 47.619 14.23 0.00 35.53 3.86
268 269 5.619981 CGTGGATCCTTTTCATGAGGTTTTC 60.620 44.000 14.23 0.00 35.71 2.29
275 276 5.507985 CCTTTTCATGAGGTTTTCAGTGGAC 60.508 44.000 0.00 0.00 39.68 4.02
276 277 3.855255 TCATGAGGTTTTCAGTGGACA 57.145 42.857 0.00 0.00 39.68 4.02
282 283 4.407621 TGAGGTTTTCAGTGGACACTAGAA 59.592 41.667 4.41 8.53 40.20 2.10
284 285 5.941788 AGGTTTTCAGTGGACACTAGAATT 58.058 37.500 4.41 0.00 40.20 2.17
286 287 5.181433 GGTTTTCAGTGGACACTAGAATTCC 59.819 44.000 4.41 11.36 40.20 3.01
314 317 6.703165 GGAATGAATACAAATGAATCCTTGGC 59.297 38.462 0.00 0.00 0.00 4.52
326 329 6.357579 TGAATCCTTGGCAAATATTTGTGT 57.642 33.333 25.15 6.07 40.24 3.72
367 370 0.661020 AACGACCAGCACGGAAAAAG 59.339 50.000 0.00 0.00 38.63 2.27
369 372 0.941542 CGACCAGCACGGAAAAAGAA 59.058 50.000 0.00 0.00 38.63 2.52
370 373 1.535462 CGACCAGCACGGAAAAAGAAT 59.465 47.619 0.00 0.00 38.63 2.40
371 374 2.412847 CGACCAGCACGGAAAAAGAATC 60.413 50.000 0.00 0.00 38.63 2.52
449 460 7.147497 ACCTTCAAAGTCTTGGAATCCATTTTT 60.147 33.333 1.39 0.00 31.53 1.94
450 461 7.386025 CCTTCAAAGTCTTGGAATCCATTTTTC 59.614 37.037 1.39 0.00 31.53 2.29
459 470 3.451902 GGAATCCATTTTTCCCATGAGCA 59.548 43.478 0.00 0.00 37.29 4.26
510 521 2.962569 CGCACGGAGAAGGAGTCA 59.037 61.111 0.00 0.00 0.00 3.41
527 552 2.760385 AGACGTAGCAGAGCCCCC 60.760 66.667 0.00 0.00 0.00 5.40
528 553 3.075005 GACGTAGCAGAGCCCCCA 61.075 66.667 0.00 0.00 0.00 4.96
529 554 2.365635 ACGTAGCAGAGCCCCCAT 60.366 61.111 0.00 0.00 0.00 4.00
530 555 2.370647 GACGTAGCAGAGCCCCCATC 62.371 65.000 0.00 0.00 0.00 3.51
537 562 3.249189 GAGCCCCCATCCCGCATA 61.249 66.667 0.00 0.00 0.00 3.14
538 563 3.252284 AGCCCCCATCCCGCATAG 61.252 66.667 0.00 0.00 0.00 2.23
540 565 3.569210 CCCCCATCCCGCATAGCA 61.569 66.667 0.00 0.00 0.00 3.49
546 573 2.890311 CCCATCCCGCATAGCATTTTTA 59.110 45.455 0.00 0.00 0.00 1.52
703 730 4.394712 CCAGCGACCCACCACTCC 62.395 72.222 0.00 0.00 0.00 3.85
704 731 3.625897 CAGCGACCCACCACTCCA 61.626 66.667 0.00 0.00 0.00 3.86
708 735 2.852075 GACCCACCACTCCACCCA 60.852 66.667 0.00 0.00 0.00 4.51
710 737 2.529136 CCCACCACTCCACCCAGA 60.529 66.667 0.00 0.00 0.00 3.86
748 782 2.501128 CATCACCCGATGCCGTCT 59.499 61.111 0.00 0.00 42.54 4.18
749 783 1.592669 CATCACCCGATGCCGTCTC 60.593 63.158 0.00 0.00 42.54 3.36
750 784 3.138930 ATCACCCGATGCCGTCTCG 62.139 63.158 0.00 0.00 35.92 4.04
753 787 4.812476 CCCGATGCCGTCTCGCAA 62.812 66.667 0.00 0.00 43.24 4.85
754 788 2.586079 CCGATGCCGTCTCGCAAT 60.586 61.111 0.00 0.00 43.24 3.56
755 789 2.589492 CCGATGCCGTCTCGCAATC 61.589 63.158 0.00 0.00 43.24 2.67
756 790 1.589993 CGATGCCGTCTCGCAATCT 60.590 57.895 0.00 0.00 43.24 2.40
757 791 1.543941 CGATGCCGTCTCGCAATCTC 61.544 60.000 0.00 0.00 43.24 2.75
758 792 1.218230 GATGCCGTCTCGCAATCTCC 61.218 60.000 0.00 0.00 43.24 3.71
759 793 2.586357 GCCGTCTCGCAATCTCCC 60.586 66.667 0.00 0.00 0.00 4.30
760 794 2.107141 CCGTCTCGCAATCTCCCC 59.893 66.667 0.00 0.00 0.00 4.81
761 795 2.107141 CGTCTCGCAATCTCCCCC 59.893 66.667 0.00 0.00 0.00 5.40
826 860 4.724602 TCGCTCGCTCGCTGCTTT 62.725 61.111 0.00 0.00 40.11 3.51
831 893 3.117171 CGCTCGCTGCTTTGCTCT 61.117 61.111 0.00 0.00 40.11 4.09
832 894 2.783935 GCTCGCTGCTTTGCTCTC 59.216 61.111 0.00 0.00 38.95 3.20
839 901 1.338960 GCTGCTTTGCTCTCTCTCCTT 60.339 52.381 0.00 0.00 0.00 3.36
852 914 4.045334 TCTCTCTCCTTCTTCTTCCTCCTT 59.955 45.833 0.00 0.00 0.00 3.36
853 915 4.349365 TCTCTCCTTCTTCTTCCTCCTTC 58.651 47.826 0.00 0.00 0.00 3.46
854 916 4.045334 TCTCTCCTTCTTCTTCCTCCTTCT 59.955 45.833 0.00 0.00 0.00 2.85
855 917 4.757692 TCTCCTTCTTCTTCCTCCTTCTT 58.242 43.478 0.00 0.00 0.00 2.52
857 919 3.841255 TCCTTCTTCTTCCTCCTTCTTCC 59.159 47.826 0.00 0.00 0.00 3.46
858 920 3.843619 CCTTCTTCTTCCTCCTTCTTCCT 59.156 47.826 0.00 0.00 0.00 3.36
859 921 4.081142 CCTTCTTCTTCCTCCTTCTTCCTC 60.081 50.000 0.00 0.00 0.00 3.71
860 922 3.445987 TCTTCTTCCTCCTTCTTCCTCC 58.554 50.000 0.00 0.00 0.00 4.30
861 923 2.255770 TCTTCCTCCTTCTTCCTCCC 57.744 55.000 0.00 0.00 0.00 4.30
862 924 1.208706 CTTCCTCCTTCTTCCTCCCC 58.791 60.000 0.00 0.00 0.00 4.81
863 925 0.253207 TTCCTCCTTCTTCCTCCCCC 60.253 60.000 0.00 0.00 0.00 5.40
864 926 1.082954 CCTCCTTCTTCCTCCCCCA 59.917 63.158 0.00 0.00 0.00 4.96
865 927 1.275421 CCTCCTTCTTCCTCCCCCAC 61.275 65.000 0.00 0.00 0.00 4.61
902 964 2.231642 GGATCCAAATCCCGACCCT 58.768 57.895 6.95 0.00 45.11 4.34
936 998 0.665369 CCGAGGCAAGCAAAAGCTTG 60.665 55.000 22.09 22.09 46.90 4.01
952 1014 0.871163 CTTGGCGCAATTATTGGCCG 60.871 55.000 22.69 13.77 44.71 6.13
960 1022 2.749621 GCAATTATTGGCCGGAGATAGG 59.250 50.000 5.05 0.00 0.00 2.57
967 1029 1.497716 TGGCCGGAGATAGGTAGAGAA 59.502 52.381 5.05 0.00 0.00 2.87
974 1036 2.486592 GAGATAGGTAGAGAAGCGAGGC 59.513 54.545 0.00 0.00 0.00 4.70
1026 1088 4.509737 GAGTACCAGGACGCCGGC 62.510 72.222 19.07 19.07 0.00 6.13
1422 1496 3.200887 CTTCGATCTCCCGCCCTCG 62.201 68.421 0.00 0.00 0.00 4.63
1449 1523 4.082523 TCCTGCAGCACCTACGCC 62.083 66.667 8.66 0.00 0.00 5.68
1617 1697 2.527624 TCTGTGGTGGAGGCTGCT 60.528 61.111 7.74 0.00 0.00 4.24
2418 2512 4.416738 GTGGTGGAGCAGGAGGCC 62.417 72.222 0.00 0.00 46.50 5.19
2541 2674 4.554036 GTCTCATCGGGGGCTGCC 62.554 72.222 11.05 11.05 0.00 4.85
2802 2935 2.204059 AAGGAGGGCTGCCTGACT 60.204 61.111 19.68 7.18 35.50 3.41
2805 2938 2.730524 GGAGGGCTGCCTGACTCTC 61.731 68.421 19.68 15.19 0.00 3.20
2990 3133 7.615403 AGAAGAAGCTAAATGTCATGTCAGTA 58.385 34.615 0.00 0.00 0.00 2.74
3024 3167 2.052414 GACCGGCTACGATCGACG 60.052 66.667 24.34 18.65 44.60 5.12
3112 3260 4.149922 CACCGGCATGTAGTAATGTAATCG 59.850 45.833 0.00 0.00 0.00 3.34
3134 3282 0.974383 TCTTCGTTCCCAGTTCTCCC 59.026 55.000 0.00 0.00 0.00 4.30
3135 3283 0.389948 CTTCGTTCCCAGTTCTCCCG 60.390 60.000 0.00 0.00 0.00 5.14
3137 3285 2.747686 GTTCCCAGTTCTCCCGCA 59.252 61.111 0.00 0.00 0.00 5.69
3164 3312 3.604875 TGATCACCCGTAAAACTCCTC 57.395 47.619 0.00 0.00 0.00 3.71
3165 3313 2.235402 TGATCACCCGTAAAACTCCTCC 59.765 50.000 0.00 0.00 0.00 4.30
3166 3314 2.019807 TCACCCGTAAAACTCCTCCT 57.980 50.000 0.00 0.00 0.00 3.69
3167 3315 3.173953 TCACCCGTAAAACTCCTCCTA 57.826 47.619 0.00 0.00 0.00 2.94
3168 3316 3.509442 TCACCCGTAAAACTCCTCCTAA 58.491 45.455 0.00 0.00 0.00 2.69
3169 3317 3.512724 TCACCCGTAAAACTCCTCCTAAG 59.487 47.826 0.00 0.00 0.00 2.18
3170 3318 2.235650 ACCCGTAAAACTCCTCCTAAGC 59.764 50.000 0.00 0.00 0.00 3.09
3171 3319 2.419713 CCCGTAAAACTCCTCCTAAGCC 60.420 54.545 0.00 0.00 0.00 4.35
3173 3321 2.419713 CGTAAAACTCCTCCTAAGCCCC 60.420 54.545 0.00 0.00 0.00 5.80
3175 3323 1.987080 AAACTCCTCCTAAGCCCCAT 58.013 50.000 0.00 0.00 0.00 4.00
3178 3326 3.368921 ACTCCTCCTAAGCCCCATTAT 57.631 47.619 0.00 0.00 0.00 1.28
3286 3443 1.338200 CGGACTTTGTTAGCAGCTCCT 60.338 52.381 0.00 0.00 0.00 3.69
3311 3474 5.153513 TGAGAATGAATTTTGTACGCAAGC 58.846 37.500 0.00 0.00 45.62 4.01
3315 3478 2.359214 TGAATTTTGTACGCAAGCCACA 59.641 40.909 0.00 0.00 45.62 4.17
3323 3486 0.968405 ACGCAAGCCACATCCAAAAT 59.032 45.000 0.00 0.00 45.62 1.82
3346 3509 1.609072 GGCTGACCTTTGTTCTGTTCC 59.391 52.381 0.00 0.00 0.00 3.62
3349 3512 2.943033 CTGACCTTTGTTCTGTTCCGTT 59.057 45.455 0.00 0.00 0.00 4.44
3350 3513 2.940410 TGACCTTTGTTCTGTTCCGTTC 59.060 45.455 0.00 0.00 0.00 3.95
3351 3514 3.203716 GACCTTTGTTCTGTTCCGTTCT 58.796 45.455 0.00 0.00 0.00 3.01
3352 3515 3.617284 ACCTTTGTTCTGTTCCGTTCTT 58.383 40.909 0.00 0.00 0.00 2.52
3353 3516 3.377172 ACCTTTGTTCTGTTCCGTTCTTG 59.623 43.478 0.00 0.00 0.00 3.02
3354 3517 3.625764 CCTTTGTTCTGTTCCGTTCTTGA 59.374 43.478 0.00 0.00 0.00 3.02
3355 3518 4.275936 CCTTTGTTCTGTTCCGTTCTTGAT 59.724 41.667 0.00 0.00 0.00 2.57
3356 3519 5.418310 TTTGTTCTGTTCCGTTCTTGATC 57.582 39.130 0.00 0.00 0.00 2.92
3357 3520 4.066646 TGTTCTGTTCCGTTCTTGATCA 57.933 40.909 0.00 0.00 0.00 2.92
3358 3521 4.058124 TGTTCTGTTCCGTTCTTGATCAG 58.942 43.478 0.00 0.00 33.03 2.90
3359 3522 4.058817 GTTCTGTTCCGTTCTTGATCAGT 58.941 43.478 0.00 0.00 33.36 3.41
3360 3523 3.653344 TCTGTTCCGTTCTTGATCAGTG 58.347 45.455 0.00 0.00 33.36 3.66
3361 3524 2.738846 CTGTTCCGTTCTTGATCAGTGG 59.261 50.000 0.00 0.00 0.00 4.00
3362 3525 2.104111 TGTTCCGTTCTTGATCAGTGGT 59.896 45.455 0.00 0.00 0.00 4.16
3363 3526 3.322541 TGTTCCGTTCTTGATCAGTGGTA 59.677 43.478 0.00 0.00 0.00 3.25
3364 3527 4.020573 TGTTCCGTTCTTGATCAGTGGTAT 60.021 41.667 0.00 0.00 0.00 2.73
3365 3528 5.186215 TGTTCCGTTCTTGATCAGTGGTATA 59.814 40.000 0.00 0.00 0.00 1.47
3366 3529 5.925506 TCCGTTCTTGATCAGTGGTATAA 57.074 39.130 0.00 0.00 0.00 0.98
3367 3530 5.902681 TCCGTTCTTGATCAGTGGTATAAG 58.097 41.667 0.00 0.00 0.00 1.73
3368 3531 4.508124 CCGTTCTTGATCAGTGGTATAAGC 59.492 45.833 0.00 0.00 0.00 3.09
3369 3532 5.352284 CGTTCTTGATCAGTGGTATAAGCT 58.648 41.667 0.00 0.00 0.00 3.74
3370 3533 5.812642 CGTTCTTGATCAGTGGTATAAGCTT 59.187 40.000 3.48 3.48 0.00 3.74
3371 3534 6.237942 CGTTCTTGATCAGTGGTATAAGCTTG 60.238 42.308 9.86 0.00 0.00 4.01
3383 3546 5.530915 TGGTATAAGCTTGTATGTTCATGGC 59.469 40.000 9.86 0.00 0.00 4.40
3396 3559 0.035317 TCATGGCGTTCACTGCTCTT 59.965 50.000 0.00 0.00 0.00 2.85
3421 3599 2.352388 ACATGATGGCTTTGCAATTGC 58.648 42.857 23.69 23.69 42.50 3.56
3425 3603 1.997606 GATGGCTTTGCAATTGCTGAC 59.002 47.619 29.37 21.16 42.66 3.51
3429 3607 1.689959 CTTTGCAATTGCTGACCGTC 58.310 50.000 29.37 0.24 42.66 4.79
3432 3610 0.250252 TGCAATTGCTGACCGTCTGA 60.250 50.000 29.37 3.82 42.66 3.27
3451 3629 1.286305 ACTTGGGGACTTGGTGGTGT 61.286 55.000 0.00 0.00 0.00 4.16
3452 3630 0.823356 CTTGGGGACTTGGTGGTGTG 60.823 60.000 0.00 0.00 0.00 3.82
3453 3631 2.597510 GGGGACTTGGTGGTGTGC 60.598 66.667 0.00 0.00 0.00 4.57
3491 3669 4.687948 CACATCACGGATTAGATTAGCCTG 59.312 45.833 0.00 0.00 0.00 4.85
3540 3718 3.094572 ACGAAGTTTCCCGATCTAGGAA 58.905 45.455 9.41 9.41 37.78 3.36
3591 3769 0.606604 TCTCGTGTAGTTTCCCCTGC 59.393 55.000 0.00 0.00 0.00 4.85
3592 3770 0.608640 CTCGTGTAGTTTCCCCTGCT 59.391 55.000 0.00 0.00 0.00 4.24
3598 3776 2.463589 TAGTTTCCCCTGCTGTGCCG 62.464 60.000 0.00 0.00 0.00 5.69
3671 3850 0.320421 TGCACGTTAGTTGGAGAGGC 60.320 55.000 0.00 0.00 0.00 4.70
3673 3852 1.080025 ACGTTAGTTGGAGAGGCGC 60.080 57.895 0.00 0.00 0.00 6.53
3674 3853 1.080093 CGTTAGTTGGAGAGGCGCA 60.080 57.895 10.83 0.00 0.00 6.09
3675 3854 0.460284 CGTTAGTTGGAGAGGCGCAT 60.460 55.000 10.83 0.00 0.00 4.73
3676 3855 1.291132 GTTAGTTGGAGAGGCGCATC 58.709 55.000 15.45 15.45 0.00 3.91
3677 3856 0.901827 TTAGTTGGAGAGGCGCATCA 59.098 50.000 25.38 0.38 0.00 3.07
3678 3857 0.175760 TAGTTGGAGAGGCGCATCAC 59.824 55.000 25.38 18.28 0.00 3.06
3679 3858 2.109126 GTTGGAGAGGCGCATCACC 61.109 63.158 28.11 28.11 0.00 4.02
3680 3859 2.293318 TTGGAGAGGCGCATCACCT 61.293 57.895 32.59 11.00 41.41 4.00
3734 3930 3.242543 GCCGTAGCAATCAGTTGATCAAG 60.243 47.826 8.80 0.00 37.53 3.02
3751 3947 4.002906 TCAAGCCGAATACTGTTTCTGT 57.997 40.909 0.00 0.00 0.00 3.41
3777 3976 3.853330 CCGTCTGAATGCCGCACG 61.853 66.667 0.00 0.00 0.00 5.34
3794 3993 1.237285 ACGGCCACAGCAATCAGTTC 61.237 55.000 2.24 0.00 42.56 3.01
3795 3994 1.885871 GGCCACAGCAATCAGTTCC 59.114 57.895 0.00 0.00 42.56 3.62
3803 4002 3.693085 ACAGCAATCAGTTCCATGATCAC 59.307 43.478 0.00 0.00 39.00 3.06
3807 4006 3.928005 ATCAGTTCCATGATCACAGCT 57.072 42.857 0.00 0.00 34.84 4.24
3808 4007 3.708403 TCAGTTCCATGATCACAGCTT 57.292 42.857 0.00 0.00 0.00 3.74
3809 4008 4.025040 TCAGTTCCATGATCACAGCTTT 57.975 40.909 0.00 0.00 0.00 3.51
3811 4010 4.937620 TCAGTTCCATGATCACAGCTTTAC 59.062 41.667 0.00 0.00 0.00 2.01
3812 4011 4.696877 CAGTTCCATGATCACAGCTTTACA 59.303 41.667 0.00 0.00 0.00 2.41
3813 4012 4.697352 AGTTCCATGATCACAGCTTTACAC 59.303 41.667 0.00 0.00 0.00 2.90
3840 4044 3.482809 CACTGCTGATCGGTGCTG 58.517 61.111 2.89 6.91 44.30 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 0.031917 TACGGGTCAAGCCATAGGGA 60.032 55.000 0.00 0.00 39.65 4.20
24 25 1.826720 ACACACGGTTATGATACGGGT 59.173 47.619 0.00 0.00 46.33 5.28
60 61 2.157474 TGATTTTGTCTCGCATGACACG 59.843 45.455 8.09 0.00 45.32 4.49
69 70 7.203218 TGACCTATCTACATGATTTTGTCTCG 58.797 38.462 0.00 0.00 36.65 4.04
81 82 7.669722 ACAACCAACATTTTGACCTATCTACAT 59.330 33.333 0.00 0.00 34.24 2.29
82 83 7.001674 ACAACCAACATTTTGACCTATCTACA 58.998 34.615 0.00 0.00 34.24 2.74
83 84 7.448748 ACAACCAACATTTTGACCTATCTAC 57.551 36.000 0.00 0.00 34.24 2.59
84 85 9.226606 CTAACAACCAACATTTTGACCTATCTA 57.773 33.333 0.00 0.00 34.24 1.98
85 86 6.976934 AACAACCAACATTTTGACCTATCT 57.023 33.333 0.00 0.00 34.24 1.98
86 87 8.106247 TCTAACAACCAACATTTTGACCTATC 57.894 34.615 0.00 0.00 34.24 2.08
88 89 8.472007 AATCTAACAACCAACATTTTGACCTA 57.528 30.769 0.00 0.00 34.24 3.08
89 90 6.976934 ATCTAACAACCAACATTTTGACCT 57.023 33.333 0.00 0.00 34.24 3.85
90 91 6.362283 CGAATCTAACAACCAACATTTTGACC 59.638 38.462 0.00 0.00 34.24 4.02
92 93 6.039941 ACCGAATCTAACAACCAACATTTTGA 59.960 34.615 0.00 0.00 34.24 2.69
93 94 6.212955 ACCGAATCTAACAACCAACATTTTG 58.787 36.000 0.00 0.00 0.00 2.44
94 95 6.039941 TGACCGAATCTAACAACCAACATTTT 59.960 34.615 0.00 0.00 0.00 1.82
114 115 4.537965 CCTAACTTGTCTATCGATGACCG 58.462 47.826 18.87 14.20 40.25 4.79
116 117 4.202121 TGCCCTAACTTGTCTATCGATGAC 60.202 45.833 8.54 13.59 35.21 3.06
123 124 6.313519 TCAAAGATGCCCTAACTTGTCTAT 57.686 37.500 0.00 0.00 0.00 1.98
144 145 8.671028 CATGTGTTTCTAGAATCATGTGAATCA 58.329 33.333 23.10 14.88 0.00 2.57
173 174 4.923281 GGCGTAACTTTGCAATCTTTTCAT 59.077 37.500 0.00 0.00 0.00 2.57
175 176 3.673338 GGGCGTAACTTTGCAATCTTTTC 59.327 43.478 0.00 0.00 0.00 2.29
190 191 2.757314 TGCATGATTCAAATGGGCGTAA 59.243 40.909 0.00 0.00 0.00 3.18
193 194 1.563111 GTGCATGATTCAAATGGGCG 58.437 50.000 0.00 0.00 0.00 6.13
225 226 1.006825 GTTTTTCCGGCGATGCAACC 61.007 55.000 9.30 0.00 0.00 3.77
245 246 5.243730 TGAAAACCTCATGAAAAGGATCCAC 59.756 40.000 15.82 2.97 37.35 4.02
251 252 4.584325 TCCACTGAAAACCTCATGAAAAGG 59.416 41.667 0.00 0.00 39.96 3.11
252 253 5.067674 TGTCCACTGAAAACCTCATGAAAAG 59.932 40.000 0.00 0.00 32.14 2.27
257 258 3.480470 AGTGTCCACTGAAAACCTCATG 58.520 45.455 0.00 0.00 40.75 3.07
259 260 3.964688 TCTAGTGTCCACTGAAAACCTCA 59.035 43.478 10.15 0.00 42.52 3.86
263 264 5.998363 AGGAATTCTAGTGTCCACTGAAAAC 59.002 40.000 10.15 9.19 42.52 2.43
268 269 4.020218 TCCAAGGAATTCTAGTGTCCACTG 60.020 45.833 10.15 1.15 42.52 3.66
275 276 8.737168 TGTATTCATTCCAAGGAATTCTAGTG 57.263 34.615 11.54 1.96 42.30 2.74
276 277 9.753674 TTTGTATTCATTCCAAGGAATTCTAGT 57.246 29.630 11.54 1.36 42.30 2.57
284 285 7.840716 AGGATTCATTTGTATTCATTCCAAGGA 59.159 33.333 0.00 0.00 0.00 3.36
286 287 9.309516 CAAGGATTCATTTGTATTCATTCCAAG 57.690 33.333 0.00 0.00 0.00 3.61
370 373 4.183916 AGGAGTCTTTTAATCCTTGGGGA 58.816 43.478 0.00 0.00 40.65 4.81
371 374 4.592997 AGGAGTCTTTTAATCCTTGGGG 57.407 45.455 0.00 0.00 40.65 4.96
386 389 2.933260 GCCTCTTTGAATCGAAGGAGTC 59.067 50.000 10.14 0.00 37.76 3.36
387 390 2.355209 GGCCTCTTTGAATCGAAGGAGT 60.355 50.000 10.14 0.00 0.00 3.85
449 460 1.676635 GCTTGCAGTGCTCATGGGA 60.677 57.895 17.60 0.00 0.00 4.37
450 461 2.707849 GGCTTGCAGTGCTCATGGG 61.708 63.158 17.60 0.00 0.00 4.00
459 470 1.374190 CCTCTCTGTGGCTTGCAGT 59.626 57.895 0.00 0.00 35.60 4.40
503 514 1.745232 CTCTGCTACGTCTGACTCCT 58.255 55.000 6.21 0.00 0.00 3.69
510 521 2.760385 GGGGGCTCTGCTACGTCT 60.760 66.667 0.00 0.00 0.00 4.18
527 552 8.761575 ATTAAATAAAAATGCTATGCGGGATG 57.238 30.769 0.00 0.00 0.00 3.51
528 553 9.777297 AAATTAAATAAAAATGCTATGCGGGAT 57.223 25.926 0.00 0.00 0.00 3.85
529 554 9.039870 CAAATTAAATAAAAATGCTATGCGGGA 57.960 29.630 0.00 0.00 0.00 5.14
530 555 7.798052 GCAAATTAAATAAAAATGCTATGCGGG 59.202 33.333 0.00 0.00 32.72 6.13
533 558 7.798052 CCCGCAAATTAAATAAAAATGCTATGC 59.202 33.333 0.00 0.00 33.08 3.14
534 559 8.281893 CCCCGCAAATTAAATAAAAATGCTATG 58.718 33.333 0.00 0.00 33.08 2.23
535 560 8.207545 TCCCCGCAAATTAAATAAAAATGCTAT 58.792 29.630 0.00 0.00 33.08 2.97
536 561 7.556844 TCCCCGCAAATTAAATAAAAATGCTA 58.443 30.769 0.00 0.00 33.08 3.49
537 562 6.410540 TCCCCGCAAATTAAATAAAAATGCT 58.589 32.000 0.00 0.00 33.08 3.79
538 563 6.670077 TCCCCGCAAATTAAATAAAAATGC 57.330 33.333 0.00 0.00 32.34 3.56
539 564 9.715123 GAAATCCCCGCAAATTAAATAAAAATG 57.285 29.630 0.00 0.00 0.00 2.32
540 565 9.679661 AGAAATCCCCGCAAATTAAATAAAAAT 57.320 25.926 0.00 0.00 0.00 1.82
546 573 4.141733 CCCAGAAATCCCCGCAAATTAAAT 60.142 41.667 0.00 0.00 0.00 1.40
702 729 2.273449 GCATCTGGGTCTGGGTGG 59.727 66.667 0.00 0.00 0.00 4.61
703 730 1.856539 AAGGCATCTGGGTCTGGGTG 61.857 60.000 0.00 0.00 0.00 4.61
704 731 1.542375 AAGGCATCTGGGTCTGGGT 60.542 57.895 0.00 0.00 0.00 4.51
708 735 2.003548 GGGGAAGGCATCTGGGTCT 61.004 63.158 0.00 0.00 0.00 3.85
710 737 3.023735 GGGGGAAGGCATCTGGGT 61.024 66.667 0.00 0.00 0.00 4.51
758 792 3.382864 TAGGGGAAGGGGAGGGGG 61.383 72.222 0.00 0.00 0.00 5.40
759 793 2.039724 GTAGGGGAAGGGGAGGGG 60.040 72.222 0.00 0.00 0.00 4.79
760 794 1.084084 TTGTAGGGGAAGGGGAGGG 59.916 63.158 0.00 0.00 0.00 4.30
761 795 0.253207 AGTTGTAGGGGAAGGGGAGG 60.253 60.000 0.00 0.00 0.00 4.30
762 796 2.117051 GTAGTTGTAGGGGAAGGGGAG 58.883 57.143 0.00 0.00 0.00 4.30
763 797 1.726352 AGTAGTTGTAGGGGAAGGGGA 59.274 52.381 0.00 0.00 0.00 4.81
764 798 2.265526 AGTAGTTGTAGGGGAAGGGG 57.734 55.000 0.00 0.00 0.00 4.79
765 799 3.991683 AGTAGTAGTTGTAGGGGAAGGG 58.008 50.000 0.00 0.00 0.00 3.95
766 800 5.764432 AGTAGTAGTAGTTGTAGGGGAAGG 58.236 45.833 0.00 0.00 0.00 3.46
767 801 5.526846 CGAGTAGTAGTAGTTGTAGGGGAAG 59.473 48.000 0.00 0.00 0.00 3.46
768 802 5.431765 CGAGTAGTAGTAGTTGTAGGGGAA 58.568 45.833 0.00 0.00 0.00 3.97
769 803 4.684485 GCGAGTAGTAGTAGTTGTAGGGGA 60.684 50.000 0.00 0.00 0.00 4.81
770 804 3.563390 GCGAGTAGTAGTAGTTGTAGGGG 59.437 52.174 0.00 0.00 0.00 4.79
771 805 4.450053 AGCGAGTAGTAGTAGTTGTAGGG 58.550 47.826 0.00 0.00 0.00 3.53
772 806 4.511082 GGAGCGAGTAGTAGTAGTTGTAGG 59.489 50.000 0.00 0.00 0.00 3.18
773 807 4.511082 GGGAGCGAGTAGTAGTAGTTGTAG 59.489 50.000 0.00 0.00 0.00 2.74
815 849 1.694955 GAGAGAGCAAAGCAGCGAGC 61.695 60.000 0.00 0.00 46.19 5.03
816 850 0.108709 AGAGAGAGCAAAGCAGCGAG 60.109 55.000 0.00 0.00 40.15 5.03
817 851 0.108898 GAGAGAGAGCAAAGCAGCGA 60.109 55.000 0.00 0.00 40.15 4.93
818 852 1.083242 GGAGAGAGAGCAAAGCAGCG 61.083 60.000 0.00 0.00 40.15 5.18
822 856 3.055891 AGAAGAAGGAGAGAGAGCAAAGC 60.056 47.826 0.00 0.00 0.00 3.51
823 857 4.806640 AGAAGAAGGAGAGAGAGCAAAG 57.193 45.455 0.00 0.00 0.00 2.77
824 858 4.020662 GGAAGAAGAAGGAGAGAGAGCAAA 60.021 45.833 0.00 0.00 0.00 3.68
826 860 3.096092 GGAAGAAGAAGGAGAGAGAGCA 58.904 50.000 0.00 0.00 0.00 4.26
831 893 4.045334 AGAAGGAGGAAGAAGAAGGAGAGA 59.955 45.833 0.00 0.00 0.00 3.10
832 894 4.352893 AGAAGGAGGAAGAAGAAGGAGAG 58.647 47.826 0.00 0.00 0.00 3.20
839 901 3.445987 GGAGGAAGAAGGAGGAAGAAGA 58.554 50.000 0.00 0.00 0.00 2.87
852 914 4.364686 GGGGGTGGGGGAGGAAGA 62.365 72.222 0.00 0.00 0.00 2.87
902 964 3.315949 CGGTTCCGGTTCTGGGGA 61.316 66.667 0.00 0.00 0.00 4.81
936 998 2.027460 CCGGCCAATAATTGCGCC 59.973 61.111 4.18 0.00 41.01 6.53
952 1014 3.078837 CCTCGCTTCTCTACCTATCTCC 58.921 54.545 0.00 0.00 0.00 3.71
960 1022 0.248866 GAGCTGCCTCGCTTCTCTAC 60.249 60.000 0.00 0.00 41.08 2.59
984 1046 1.953138 CATGATCTCGCCTCACCGC 60.953 63.158 0.00 0.00 0.00 5.68
985 1047 0.103026 TTCATGATCTCGCCTCACCG 59.897 55.000 0.00 0.00 0.00 4.94
986 1048 1.863267 CTTCATGATCTCGCCTCACC 58.137 55.000 0.00 0.00 0.00 4.02
987 1049 1.216122 GCTTCATGATCTCGCCTCAC 58.784 55.000 0.00 0.00 0.00 3.51
988 1050 0.249197 CGCTTCATGATCTCGCCTCA 60.249 55.000 0.00 0.00 0.00 3.86
1059 1124 2.094026 CGACACCATCATCTTGTCCTCA 60.094 50.000 0.00 0.00 37.01 3.86
1398 1472 1.389609 GCGGGAGATCGAAGTACCCA 61.390 60.000 16.47 0.00 40.45 4.51
1422 1496 1.376553 GCTGCAGGAGGAGTCAACC 60.377 63.158 17.12 0.00 35.34 3.77
1425 1499 2.587247 GGTGCTGCAGGAGGAGTCA 61.587 63.158 17.12 0.00 35.34 3.41
2418 2512 1.172180 ATGTGCCGGAGTTGTGGTTG 61.172 55.000 5.05 0.00 0.00 3.77
2959 3094 7.333921 ACATGACATTTAGCTTCTTCTTCAGAG 59.666 37.037 0.00 0.00 31.12 3.35
2960 3095 7.164122 ACATGACATTTAGCTTCTTCTTCAGA 58.836 34.615 0.00 0.00 0.00 3.27
2961 3096 7.118825 TGACATGACATTTAGCTTCTTCTTCAG 59.881 37.037 0.00 0.00 0.00 3.02
2962 3097 6.936335 TGACATGACATTTAGCTTCTTCTTCA 59.064 34.615 0.00 0.00 0.00 3.02
3024 3167 4.105553 GGAACCACCCGTAGCCCC 62.106 72.222 0.00 0.00 0.00 5.80
3112 3260 2.070028 GAGAACTGGGAACGAAGAAGC 58.930 52.381 0.00 0.00 0.00 3.86
3134 3282 1.524621 GGGTGATCATGGAGGTGCG 60.525 63.158 0.00 0.00 0.00 5.34
3135 3283 1.524621 CGGGTGATCATGGAGGTGC 60.525 63.158 0.00 0.00 0.00 5.01
3137 3285 1.874129 TTACGGGTGATCATGGAGGT 58.126 50.000 0.00 0.00 0.00 3.85
3164 3312 7.793948 AGTAGTAGTAATAATGGGGCTTAGG 57.206 40.000 0.00 0.00 0.00 2.69
3165 3313 9.531158 AGTAGTAGTAGTAATAATGGGGCTTAG 57.469 37.037 0.00 0.00 0.00 2.18
3219 3376 5.050091 GCGATTGGAGGAATTACACATACAG 60.050 44.000 0.00 0.00 0.00 2.74
3220 3377 4.814234 GCGATTGGAGGAATTACACATACA 59.186 41.667 0.00 0.00 0.00 2.29
3221 3378 5.057149 AGCGATTGGAGGAATTACACATAC 58.943 41.667 0.00 0.00 0.00 2.39
3222 3379 5.163353 TGAGCGATTGGAGGAATTACACATA 60.163 40.000 0.00 0.00 0.00 2.29
3223 3380 4.130118 GAGCGATTGGAGGAATTACACAT 58.870 43.478 0.00 0.00 0.00 3.21
3286 3443 6.966632 GCTTGCGTACAAAATTCATTCTCATA 59.033 34.615 0.00 0.00 34.74 2.15
3323 3486 1.064017 ACAGAACAAAGGTCAGCCCAA 60.064 47.619 0.00 0.00 34.66 4.12
3332 3495 3.625764 TCAAGAACGGAACAGAACAAAGG 59.374 43.478 0.00 0.00 0.00 3.11
3346 3509 5.352284 AGCTTATACCACTGATCAAGAACG 58.648 41.667 0.00 0.00 0.00 3.95
3349 3512 6.299805 ACAAGCTTATACCACTGATCAAGA 57.700 37.500 0.00 0.00 0.00 3.02
3350 3513 7.712639 ACATACAAGCTTATACCACTGATCAAG 59.287 37.037 0.00 0.00 0.00 3.02
3351 3514 7.564793 ACATACAAGCTTATACCACTGATCAA 58.435 34.615 0.00 0.00 0.00 2.57
3352 3515 7.124573 ACATACAAGCTTATACCACTGATCA 57.875 36.000 0.00 0.00 0.00 2.92
3353 3516 7.710907 TGAACATACAAGCTTATACCACTGATC 59.289 37.037 0.00 0.00 0.00 2.92
3354 3517 7.564793 TGAACATACAAGCTTATACCACTGAT 58.435 34.615 0.00 0.00 0.00 2.90
3355 3518 6.941857 TGAACATACAAGCTTATACCACTGA 58.058 36.000 0.00 0.00 0.00 3.41
3356 3519 7.254898 CCATGAACATACAAGCTTATACCACTG 60.255 40.741 0.00 0.00 0.00 3.66
3357 3520 6.767902 CCATGAACATACAAGCTTATACCACT 59.232 38.462 0.00 0.00 0.00 4.00
3358 3521 6.513393 GCCATGAACATACAAGCTTATACCAC 60.513 42.308 0.00 0.00 0.00 4.16
3359 3522 5.530915 GCCATGAACATACAAGCTTATACCA 59.469 40.000 0.00 0.00 0.00 3.25
3360 3523 5.334105 CGCCATGAACATACAAGCTTATACC 60.334 44.000 0.00 0.00 0.00 2.73
3361 3524 5.236478 ACGCCATGAACATACAAGCTTATAC 59.764 40.000 0.00 0.00 0.00 1.47
3362 3525 5.364778 ACGCCATGAACATACAAGCTTATA 58.635 37.500 0.00 0.00 0.00 0.98
3363 3526 4.199310 ACGCCATGAACATACAAGCTTAT 58.801 39.130 0.00 0.00 0.00 1.73
3364 3527 3.605634 ACGCCATGAACATACAAGCTTA 58.394 40.909 0.00 0.00 0.00 3.09
3365 3528 2.436417 ACGCCATGAACATACAAGCTT 58.564 42.857 0.00 0.00 0.00 3.74
3366 3529 2.113860 ACGCCATGAACATACAAGCT 57.886 45.000 0.00 0.00 0.00 3.74
3367 3530 2.161410 TGAACGCCATGAACATACAAGC 59.839 45.455 0.00 0.00 0.00 4.01
3368 3531 3.436704 AGTGAACGCCATGAACATACAAG 59.563 43.478 0.00 0.00 0.00 3.16
3369 3532 3.188254 CAGTGAACGCCATGAACATACAA 59.812 43.478 0.00 0.00 0.00 2.41
3370 3533 2.741517 CAGTGAACGCCATGAACATACA 59.258 45.455 0.00 0.00 0.00 2.29
3371 3534 2.476185 GCAGTGAACGCCATGAACATAC 60.476 50.000 0.00 0.00 0.00 2.39
3396 3559 5.601583 ATTGCAAAGCCATCATGTTCATA 57.398 34.783 1.71 0.00 0.00 2.15
3421 3599 1.185618 TCCCCAAGTCAGACGGTCAG 61.186 60.000 11.27 2.08 0.00 3.51
3425 3603 0.320771 CAAGTCCCCAAGTCAGACGG 60.321 60.000 0.00 0.00 35.65 4.79
3429 3607 0.250901 CCACCAAGTCCCCAAGTCAG 60.251 60.000 0.00 0.00 0.00 3.51
3432 3610 1.286305 ACACCACCAAGTCCCCAAGT 61.286 55.000 0.00 0.00 0.00 3.16
3451 3629 1.634973 TGTGAATCTCTTCCCATGGCA 59.365 47.619 6.09 0.00 0.00 4.92
3452 3630 2.425143 TGTGAATCTCTTCCCATGGC 57.575 50.000 6.09 0.00 0.00 4.40
3453 3631 3.881688 GTGATGTGAATCTCTTCCCATGG 59.118 47.826 4.14 4.14 30.76 3.66
3461 3639 6.662865 ATCTAATCCGTGATGTGAATCTCT 57.337 37.500 0.00 0.00 0.00 3.10
3491 3669 0.519077 CTCTCAAAGACGGCAAAGGC 59.481 55.000 0.00 0.00 40.13 4.35
3570 3748 2.893637 CAGGGGAAACTACACGAGATG 58.106 52.381 0.00 0.00 0.00 2.90
3635 3813 4.759693 ACGTGCAGGTTCATTTTTAGATGA 59.240 37.500 6.15 0.00 34.37 2.92
3636 3814 5.046910 ACGTGCAGGTTCATTTTTAGATG 57.953 39.130 6.15 0.00 0.00 2.90
3671 3850 1.077501 ATTGGTGGGAGGTGATGCG 60.078 57.895 0.00 0.00 0.00 4.73
3673 3852 0.464373 CCGATTGGTGGGAGGTGATG 60.464 60.000 0.00 0.00 0.00 3.07
3674 3853 1.915228 CCGATTGGTGGGAGGTGAT 59.085 57.895 0.00 0.00 0.00 3.06
3675 3854 3.399046 CCGATTGGTGGGAGGTGA 58.601 61.111 0.00 0.00 0.00 4.02
3734 3930 4.433805 CGTTGTACAGAAACAGTATTCGGC 60.434 45.833 0.00 0.00 34.46 5.54
3751 3947 0.390603 CATTCAGACGGGCCGTTGTA 60.391 55.000 34.58 24.02 41.37 2.41
3777 3976 0.895100 TGGAACTGATTGCTGTGGCC 60.895 55.000 0.00 0.00 37.74 5.36
3782 3981 3.692593 TGTGATCATGGAACTGATTGCTG 59.307 43.478 0.00 0.00 36.01 4.41
3794 3993 3.181503 GCAGTGTAAAGCTGTGATCATGG 60.182 47.826 0.00 0.00 36.42 3.66
3795 3994 3.437741 TGCAGTGTAAAGCTGTGATCATG 59.562 43.478 0.00 0.00 36.42 3.07
3803 4002 1.001378 GGTTGGTGCAGTGTAAAGCTG 60.001 52.381 0.00 0.00 37.06 4.24
3807 4006 2.020720 CAGTGGTTGGTGCAGTGTAAA 58.979 47.619 0.00 0.00 0.00 2.01
3808 4007 1.674359 CAGTGGTTGGTGCAGTGTAA 58.326 50.000 0.00 0.00 0.00 2.41
3809 4008 0.817634 GCAGTGGTTGGTGCAGTGTA 60.818 55.000 0.00 0.00 39.62 2.90
3811 4010 1.825191 AGCAGTGGTTGGTGCAGTG 60.825 57.895 0.00 0.00 42.47 3.66
3812 4011 2.597340 AGCAGTGGTTGGTGCAGT 59.403 55.556 0.00 0.00 42.47 4.40
3840 4044 5.485662 AGTATCTTTTGTTATGGCTTCGC 57.514 39.130 0.00 0.00 0.00 4.70



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

AutoCloner maintained by Alex Coulton.