Multiple sequence alignment - TraesCS3B01G229500

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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 TraesCS3B01G229500 chr3B 100.000 2810 0 0 1 2810 338598557 338601366 0.000000e+00 5190
1 TraesCS3B01G229500 chr4D 93.715 1082 59 6 807 1880 260725425 260724345 0.000000e+00 1613
2 TraesCS3B01G229500 chr4B 93.698 1079 57 7 807 1880 285539350 285538278 0.000000e+00 1605
3 TraesCS3B01G229500 chr4B 93.290 924 57 3 961 1880 439196267 439197189 0.000000e+00 1358
4 TraesCS3B01G229500 chr4B 89.788 803 82 0 6 808 62045816 62046618 0.000000e+00 1029
5 TraesCS3B01G229500 chr4B 89.539 803 82 2 6 808 322640815 322640015 0.000000e+00 1016
6 TraesCS3B01G229500 chr4B 97.297 148 4 0 1894 2041 285538192 285538045 4.650000e-63 252
7 TraesCS3B01G229500 chr5B 93.939 924 51 3 961 1880 208430054 208430976 0.000000e+00 1391
8 TraesCS3B01G229500 chr5B 97.244 508 13 1 2041 2548 146830057 146830563 0.000000e+00 859
9 TraesCS3B01G229500 chr5B 97.297 148 4 0 1894 2041 208431041 208431188 4.650000e-63 252
10 TraesCS3B01G229500 chr5B 100.000 68 0 0 2545 2612 208431172 208431239 2.940000e-25 126
11 TraesCS3B01G229500 chr5B 100.000 68 0 0 2545 2612 325078890 325078823 2.940000e-25 126
12 TraesCS3B01G229500 chr3D 93.716 923 53 3 962 1880 272090431 272089510 0.000000e+00 1378
13 TraesCS3B01G229500 chr3D 90.037 803 80 0 6 808 96355757 96356559 0.000000e+00 1040
14 TraesCS3B01G229500 chr3D 92.361 288 16 5 807 1092 241406502 241406785 3.370000e-109 405
15 TraesCS3B01G229500 chr3D 98.649 148 2 0 1894 2041 241407569 241407716 2.150000e-66 263
16 TraesCS3B01G229500 chr3D 97.297 148 4 0 1894 2041 247887511 247887364 4.650000e-63 252
17 TraesCS3B01G229500 chr3D 100.000 68 0 0 2545 2612 152829160 152829227 2.940000e-25 126
18 TraesCS3B01G229500 chr3D 100.000 68 0 0 2545 2612 241407700 241407767 2.940000e-25 126
19 TraesCS3B01G229500 chr7A 93.398 924 56 3 961 1880 176257307 176258229 0.000000e+00 1363
20 TraesCS3B01G229500 chr7A 92.698 808 56 3 2 808 492248649 492247844 0.000000e+00 1162
21 TraesCS3B01G229500 chr7A 97.297 148 4 0 1894 2041 176258294 176258441 4.650000e-63 252
22 TraesCS3B01G229500 chr6A 93.398 924 56 3 961 1880 466092979 466093901 0.000000e+00 1363
23 TraesCS3B01G229500 chr6A 89.095 807 88 0 2 808 617314766 617315572 0.000000e+00 1003
24 TraesCS3B01G229500 chr6A 97.297 148 4 0 1894 2041 297636437 297636290 4.650000e-63 252
25 TraesCS3B01G229500 chr6A 97.297 148 4 0 1894 2041 466093966 466094113 4.650000e-63 252
26 TraesCS3B01G229500 chr6A 100.000 68 0 0 2545 2612 297636306 297636239 2.940000e-25 126
27 TraesCS3B01G229500 chr6A 100.000 68 0 0 2545 2612 466094097 466094164 2.940000e-25 126
28 TraesCS3B01G229500 chr2A 93.398 924 56 3 961 1880 642923954 642923032 0.000000e+00 1363
29 TraesCS3B01G229500 chr6B 93.290 924 57 3 961 1880 325035108 325036030 0.000000e+00 1358
30 TraesCS3B01G229500 chr6B 97.082 514 15 0 2035 2548 671923518 671924031 0.000000e+00 867
31 TraesCS3B01G229500 chr6B 95.631 206 9 0 2605 2810 718624390 718624595 5.800000e-87 331
32 TraesCS3B01G229500 chr6B 97.297 148 4 0 1894 2041 458497448 458497595 4.650000e-63 252
33 TraesCS3B01G229500 chr5D 94.796 807 42 0 2 808 193517293 193518099 0.000000e+00 1258
34 TraesCS3B01G229500 chr5D 89.480 808 82 3 2 808 213549360 213550165 0.000000e+00 1018
35 TraesCS3B01G229500 chr5D 96.078 510 19 1 2040 2548 346325596 346325087 0.000000e+00 830
36 TraesCS3B01G229500 chr2D 92.441 807 61 0 2 808 327941136 327940330 0.000000e+00 1153
37 TraesCS3B01G229500 chr2D 90.830 807 67 3 2 808 296376500 296375701 0.000000e+00 1074
38 TraesCS3B01G229500 chr2D 96.098 205 8 0 2605 2809 632583141 632583345 4.490000e-88 335
39 TraesCS3B01G229500 chr2D 96.059 203 7 1 2607 2809 401288917 401289118 2.090000e-86 329
40 TraesCS3B01G229500 chr2D 100.000 68 0 0 2545 2612 17653856 17653923 2.940000e-25 126
41 TraesCS3B01G229500 chr2B 95.669 508 21 1 2041 2548 646734313 646733807 0.000000e+00 815
42 TraesCS3B01G229500 chr2B 91.538 260 21 1 807 1065 263815945 263816204 9.570000e-95 357
43 TraesCS3B01G229500 chr3A 91.717 495 39 2 2043 2537 592495357 592495849 0.000000e+00 686
44 TraesCS3B01G229500 chr3A 96.059 203 8 0 2608 2810 249855247 249855449 5.800000e-87 331
45 TraesCS3B01G229500 chr7B 95.714 210 9 0 2600 2809 521121081 521120872 3.470000e-89 339
46 TraesCS3B01G229500 chr7B 95.192 208 10 0 2602 2809 27763569 27763362 2.090000e-86 329
47 TraesCS3B01G229500 chr7B 93.519 216 12 2 2593 2807 286836625 286836839 1.260000e-83 320
48 TraesCS3B01G229500 chr7D 96.517 201 7 0 2608 2808 28071199 28070999 1.610000e-87 333
49 TraesCS3B01G229500 chr4A 95.545 202 8 1 2608 2809 501242924 501242724 3.490000e-84 322
50 TraesCS3B01G229500 chr1A 97.297 148 4 0 1894 2041 80307147 80307000 4.650000e-63 252
51 TraesCS3B01G229500 chr1A 100.000 68 0 0 2545 2612 80307016 80306949 2.940000e-25 126
52 TraesCS3B01G229500 chr1B 100.000 68 0 0 2545 2612 539559506 539559439 2.940000e-25 126


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 TraesCS3B01G229500 chr3B 338598557 338601366 2809 False 5190.000000 5190 100.000000 1 2810 1 chr3B.!!$F1 2809
1 TraesCS3B01G229500 chr4D 260724345 260725425 1080 True 1613.000000 1613 93.715000 807 1880 1 chr4D.!!$R1 1073
2 TraesCS3B01G229500 chr4B 439196267 439197189 922 False 1358.000000 1358 93.290000 961 1880 1 chr4B.!!$F2 919
3 TraesCS3B01G229500 chr4B 62045816 62046618 802 False 1029.000000 1029 89.788000 6 808 1 chr4B.!!$F1 802
4 TraesCS3B01G229500 chr4B 322640015 322640815 800 True 1016.000000 1016 89.539000 6 808 1 chr4B.!!$R1 802
5 TraesCS3B01G229500 chr4B 285538045 285539350 1305 True 928.500000 1605 95.497500 807 2041 2 chr4B.!!$R2 1234
6 TraesCS3B01G229500 chr5B 146830057 146830563 506 False 859.000000 859 97.244000 2041 2548 1 chr5B.!!$F1 507
7 TraesCS3B01G229500 chr5B 208430054 208431239 1185 False 589.666667 1391 97.078667 961 2612 3 chr5B.!!$F2 1651
8 TraesCS3B01G229500 chr3D 272089510 272090431 921 True 1378.000000 1378 93.716000 962 1880 1 chr3D.!!$R2 918
9 TraesCS3B01G229500 chr3D 96355757 96356559 802 False 1040.000000 1040 90.037000 6 808 1 chr3D.!!$F1 802
10 TraesCS3B01G229500 chr3D 241406502 241407767 1265 False 264.666667 405 97.003333 807 2612 3 chr3D.!!$F3 1805
11 TraesCS3B01G229500 chr7A 492247844 492248649 805 True 1162.000000 1162 92.698000 2 808 1 chr7A.!!$R1 806
12 TraesCS3B01G229500 chr7A 176257307 176258441 1134 False 807.500000 1363 95.347500 961 2041 2 chr7A.!!$F1 1080
13 TraesCS3B01G229500 chr6A 617314766 617315572 806 False 1003.000000 1003 89.095000 2 808 1 chr6A.!!$F1 806
14 TraesCS3B01G229500 chr6A 466092979 466094164 1185 False 580.333333 1363 96.898333 961 2612 3 chr6A.!!$F2 1651
15 TraesCS3B01G229500 chr2A 642923032 642923954 922 True 1363.000000 1363 93.398000 961 1880 1 chr2A.!!$R1 919
16 TraesCS3B01G229500 chr6B 325035108 325036030 922 False 1358.000000 1358 93.290000 961 1880 1 chr6B.!!$F1 919
17 TraesCS3B01G229500 chr6B 671923518 671924031 513 False 867.000000 867 97.082000 2035 2548 1 chr6B.!!$F3 513
18 TraesCS3B01G229500 chr5D 193517293 193518099 806 False 1258.000000 1258 94.796000 2 808 1 chr5D.!!$F1 806
19 TraesCS3B01G229500 chr5D 213549360 213550165 805 False 1018.000000 1018 89.480000 2 808 1 chr5D.!!$F2 806
20 TraesCS3B01G229500 chr5D 346325087 346325596 509 True 830.000000 830 96.078000 2040 2548 1 chr5D.!!$R1 508
21 TraesCS3B01G229500 chr2D 327940330 327941136 806 True 1153.000000 1153 92.441000 2 808 1 chr2D.!!$R2 806
22 TraesCS3B01G229500 chr2D 296375701 296376500 799 True 1074.000000 1074 90.830000 2 808 1 chr2D.!!$R1 806
23 TraesCS3B01G229500 chr2B 646733807 646734313 506 True 815.000000 815 95.669000 2041 2548 1 chr2B.!!$R1 507

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
885 889 0.537371 GGTGTTGCTACTGCTTGGGT 60.537 55.0 0.0 0.0 40.48 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2777 3163 0.106519 CAATGGGAGGTGCTTAGGGG 60.107 60.0 0.0 0.0 0.0 4.79 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
96 98 1.628340 TCCTTCACCCACATCAACGAT 59.372 47.619 0.00 0.00 0.00 3.73
456 459 1.760086 CTCTCAGGTCTGGGCCGAT 60.760 63.158 0.00 0.00 0.00 4.18
477 480 5.696270 CGATATTTCCATGGACTTCATCGAA 59.304 40.000 27.32 14.68 35.90 3.71
634 637 1.001248 CTCCACGGGTTCCCCTCTA 59.999 63.158 1.93 0.00 42.67 2.43
702 705 0.692419 ATCTCTTCCAGATGGCGGGT 60.692 55.000 0.00 0.00 40.71 5.28
711 714 0.981183 AGATGGCGGGTGTGAAACTA 59.019 50.000 0.00 0.00 38.04 2.24
726 729 1.941999 AACTACGCCTGAGTACGGCC 61.942 60.000 4.87 0.00 44.73 6.13
737 740 4.660611 TACGGCCTTCCACCCCCA 62.661 66.667 0.00 0.00 0.00 4.96
783 786 5.590259 GGTCAACAAGGTGATTGCTATGTAT 59.410 40.000 0.00 0.00 43.15 2.29
787 790 5.894807 ACAAGGTGATTGCTATGTATTTGC 58.105 37.500 0.00 0.00 43.15 3.68
796 799 4.717991 TGCTATGTATTTGCGTTGTGTTC 58.282 39.130 0.00 0.00 0.00 3.18
797 800 4.095610 GCTATGTATTTGCGTTGTGTTCC 58.904 43.478 0.00 0.00 0.00 3.62
861 865 2.083774 GCTATTGTGTGCTTGGTGCTA 58.916 47.619 0.00 0.00 43.37 3.49
870 874 0.609131 GCTTGGTGCTATGGTGGTGT 60.609 55.000 0.00 0.00 38.95 4.16
875 879 1.339631 GGTGCTATGGTGGTGTTGCTA 60.340 52.381 0.00 0.00 0.00 3.49
885 889 0.537371 GGTGTTGCTACTGCTTGGGT 60.537 55.000 0.00 0.00 40.48 4.51
913 920 2.370189 ACTTGCTGAGGCTAAGTTCTGT 59.630 45.455 0.00 0.00 36.88 3.41
937 944 1.070601 TGCTGTTGAGAGCTGCTACAA 59.929 47.619 0.15 9.79 39.90 2.41
955 962 5.048224 GCTACAACTGAAGTGTGTAGTCCTA 60.048 44.000 20.98 0.00 35.99 2.94
1075 1083 0.692419 AGGGCCATCATTCCTCGAGT 60.692 55.000 12.31 0.00 0.00 4.18
1076 1084 0.181350 GGGCCATCATTCCTCGAGTT 59.819 55.000 12.31 0.00 0.00 3.01
1088 1096 0.390472 CTCGAGTTGGAAGTGGCTCC 60.390 60.000 3.62 0.00 35.88 4.70
1127 1135 2.392662 CCTGGACATGAAGCTAGAGGA 58.607 52.381 0.00 0.00 0.00 3.71
1142 1150 4.517075 GCTAGAGGAGGCAACCAATTATTC 59.483 45.833 0.00 0.00 37.17 1.75
1365 1373 7.673082 TCTGCTGAGATATGGAAGATTCTATCA 59.327 37.037 0.00 0.00 30.61 2.15
1525 1539 2.176247 TCCCCTGGAACTCTATGACC 57.824 55.000 0.00 0.00 0.00 4.02
1560 1574 3.443045 GGGCACAAGTGGATGGCG 61.443 66.667 2.00 0.00 42.10 5.69
1582 1596 3.187637 GCGCAGGTGTGTACTGAAATTTA 59.812 43.478 0.30 0.00 38.20 1.40
1707 1732 2.275318 GTGCACCTATCTCTTGAGCAC 58.725 52.381 5.22 0.00 43.08 4.40
1787 2099 2.808543 GAGATCCCGCCAAATGTCATAC 59.191 50.000 0.00 0.00 0.00 2.39
1808 2120 1.006758 CTGTGGGGAGGTAGGTCACTA 59.993 57.143 0.00 0.00 0.00 2.74
1864 2178 3.720002 GGGATATAACAGAGGGGGAACAA 59.280 47.826 0.00 0.00 0.00 2.83
1976 2362 5.591472 CCAAAGGCAAAGATGTAGATGATGA 59.409 40.000 0.00 0.00 0.00 2.92
1997 2383 5.052481 TGATGTCTATGGAGATTTTGCTCG 58.948 41.667 0.00 0.00 35.74 5.03
2086 2472 9.743057 ACTTTTATTCAATCAACGATTGTTCAA 57.257 25.926 14.55 4.71 46.48 2.69
2250 2636 8.908786 TTGATGCCCTACTCTTAATATCAAAG 57.091 34.615 0.00 0.00 32.32 2.77
2518 2904 1.001293 AGAAGACTGCAGCATCGACAA 59.999 47.619 15.27 0.00 0.00 3.18
2556 2942 3.577313 GGCGGCGGAAAGAGCATC 61.577 66.667 9.78 0.00 36.08 3.91
2612 2998 3.703556 TCTTGACTCTGGAGCATCTAAGG 59.296 47.826 0.00 0.00 33.73 2.69
2613 2999 1.759445 TGACTCTGGAGCATCTAAGGC 59.241 52.381 0.00 0.00 33.73 4.35
2614 3000 1.069978 GACTCTGGAGCATCTAAGGCC 59.930 57.143 0.00 0.00 33.73 5.19
2615 3001 1.343884 ACTCTGGAGCATCTAAGGCCT 60.344 52.381 0.00 0.00 33.73 5.19
2616 3002 1.767681 CTCTGGAGCATCTAAGGCCTT 59.232 52.381 24.18 24.18 33.73 4.35
2617 3003 1.487976 TCTGGAGCATCTAAGGCCTTG 59.512 52.381 28.77 17.30 33.73 3.61
2618 3004 1.211457 CTGGAGCATCTAAGGCCTTGT 59.789 52.381 28.77 11.06 33.73 3.16
2619 3005 2.435805 CTGGAGCATCTAAGGCCTTGTA 59.564 50.000 28.77 15.86 33.73 2.41
2620 3006 2.170607 TGGAGCATCTAAGGCCTTGTAC 59.829 50.000 28.77 12.41 33.73 2.90
2621 3007 2.170607 GGAGCATCTAAGGCCTTGTACA 59.829 50.000 28.77 6.91 33.73 2.90
2622 3008 3.370527 GGAGCATCTAAGGCCTTGTACAA 60.371 47.826 28.77 8.28 33.73 2.41
2623 3009 4.455606 GAGCATCTAAGGCCTTGTACAAT 58.544 43.478 28.77 9.91 0.00 2.71
2624 3010 4.202441 AGCATCTAAGGCCTTGTACAATG 58.798 43.478 28.77 21.19 0.00 2.82
2625 3011 3.316308 GCATCTAAGGCCTTGTACAATGG 59.684 47.826 28.77 13.26 0.00 3.16
2626 3012 3.644966 TCTAAGGCCTTGTACAATGGG 57.355 47.619 28.77 14.91 0.00 4.00
2627 3013 3.186283 TCTAAGGCCTTGTACAATGGGA 58.814 45.455 28.77 2.40 0.00 4.37
2628 3014 2.514458 AAGGCCTTGTACAATGGGAG 57.486 50.000 19.73 1.65 0.00 4.30
2629 3015 0.625849 AGGCCTTGTACAATGGGAGG 59.374 55.000 16.08 11.34 0.00 4.30
2630 3016 0.331616 GGCCTTGTACAATGGGAGGT 59.668 55.000 16.08 0.00 0.00 3.85
2631 3017 1.463674 GCCTTGTACAATGGGAGGTG 58.536 55.000 16.08 0.00 0.00 4.00
2632 3018 1.463674 CCTTGTACAATGGGAGGTGC 58.536 55.000 9.13 0.00 0.00 5.01
2633 3019 1.004745 CCTTGTACAATGGGAGGTGCT 59.995 52.381 9.13 0.00 0.00 4.40
2634 3020 2.555227 CCTTGTACAATGGGAGGTGCTT 60.555 50.000 9.13 0.00 0.00 3.91
2635 3021 3.308117 CCTTGTACAATGGGAGGTGCTTA 60.308 47.826 9.13 0.00 0.00 3.09
2636 3022 3.627395 TGTACAATGGGAGGTGCTTAG 57.373 47.619 0.00 0.00 0.00 2.18
2637 3023 3.178046 TGTACAATGGGAGGTGCTTAGA 58.822 45.455 0.00 0.00 0.00 2.10
2638 3024 3.197766 TGTACAATGGGAGGTGCTTAGAG 59.802 47.826 0.00 0.00 0.00 2.43
2639 3025 2.551270 ACAATGGGAGGTGCTTAGAGA 58.449 47.619 0.00 0.00 0.00 3.10
2640 3026 2.503356 ACAATGGGAGGTGCTTAGAGAG 59.497 50.000 0.00 0.00 0.00 3.20
2641 3027 2.768527 CAATGGGAGGTGCTTAGAGAGA 59.231 50.000 0.00 0.00 0.00 3.10
2642 3028 2.856760 TGGGAGGTGCTTAGAGAGAT 57.143 50.000 0.00 0.00 0.00 2.75
2643 3029 2.392662 TGGGAGGTGCTTAGAGAGATG 58.607 52.381 0.00 0.00 0.00 2.90
2644 3030 1.069978 GGGAGGTGCTTAGAGAGATGC 59.930 57.143 0.00 0.00 0.00 3.91
2645 3031 2.038659 GGAGGTGCTTAGAGAGATGCT 58.961 52.381 0.00 0.00 0.00 3.79
2646 3032 2.433970 GGAGGTGCTTAGAGAGATGCTT 59.566 50.000 0.00 0.00 0.00 3.91
2647 3033 3.639094 GGAGGTGCTTAGAGAGATGCTTA 59.361 47.826 0.00 0.00 0.00 3.09
2648 3034 4.261994 GGAGGTGCTTAGAGAGATGCTTAG 60.262 50.000 0.00 0.00 0.00 2.18
2649 3035 4.541705 AGGTGCTTAGAGAGATGCTTAGA 58.458 43.478 0.00 0.00 0.00 2.10
2650 3036 4.959210 AGGTGCTTAGAGAGATGCTTAGAA 59.041 41.667 0.00 0.00 0.00 2.10
2651 3037 5.423610 AGGTGCTTAGAGAGATGCTTAGAAA 59.576 40.000 0.00 0.00 0.00 2.52
2652 3038 6.070538 AGGTGCTTAGAGAGATGCTTAGAAAA 60.071 38.462 0.00 0.00 0.00 2.29
2653 3039 6.595716 GGTGCTTAGAGAGATGCTTAGAAAAA 59.404 38.462 0.00 0.00 0.00 1.94
2654 3040 7.281999 GGTGCTTAGAGAGATGCTTAGAAAAAT 59.718 37.037 0.00 0.00 0.00 1.82
2655 3041 9.319143 GTGCTTAGAGAGATGCTTAGAAAAATA 57.681 33.333 0.00 0.00 0.00 1.40
2656 3042 9.890629 TGCTTAGAGAGATGCTTAGAAAAATAA 57.109 29.630 0.00 0.00 0.00 1.40
2660 3046 8.202745 AGAGAGATGCTTAGAAAAATAAACCG 57.797 34.615 0.00 0.00 0.00 4.44
2661 3047 7.281100 AGAGAGATGCTTAGAAAAATAAACCGG 59.719 37.037 0.00 0.00 0.00 5.28
2662 3048 7.110155 AGAGATGCTTAGAAAAATAAACCGGA 58.890 34.615 9.46 0.00 0.00 5.14
2663 3049 7.775561 AGAGATGCTTAGAAAAATAAACCGGAT 59.224 33.333 9.46 0.00 0.00 4.18
2664 3050 8.293699 AGATGCTTAGAAAAATAAACCGGATT 57.706 30.769 9.46 4.89 0.00 3.01
2665 3051 8.749354 AGATGCTTAGAAAAATAAACCGGATTT 58.251 29.630 9.46 7.90 0.00 2.17
2666 3052 9.366216 GATGCTTAGAAAAATAAACCGGATTTT 57.634 29.630 9.46 7.56 37.96 1.82
2667 3053 9.719355 ATGCTTAGAAAAATAAACCGGATTTTT 57.281 25.926 19.49 19.49 44.95 1.94
2675 3061 9.549078 AAAAATAAACCGGATTTTTCTAAAGCA 57.451 25.926 9.46 0.00 40.70 3.91
2676 3062 8.528917 AAATAAACCGGATTTTTCTAAAGCAC 57.471 30.769 9.46 0.00 31.34 4.40
2677 3063 4.514781 AACCGGATTTTTCTAAAGCACC 57.485 40.909 9.46 0.00 31.34 5.01
2678 3064 2.486592 ACCGGATTTTTCTAAAGCACCG 59.513 45.455 9.46 0.00 37.73 4.94
2679 3065 2.515912 CGGATTTTTCTAAAGCACCGC 58.484 47.619 0.00 0.00 34.41 5.68
2680 3066 2.161609 CGGATTTTTCTAAAGCACCGCT 59.838 45.455 0.00 0.00 42.56 5.52
2681 3067 3.501950 GGATTTTTCTAAAGCACCGCTG 58.498 45.455 0.00 0.00 39.62 5.18
2682 3068 2.415697 TTTTTCTAAAGCACCGCTGC 57.584 45.000 0.00 0.00 44.63 5.25
2683 3069 0.596082 TTTTCTAAAGCACCGCTGCC 59.404 50.000 0.00 0.00 45.53 4.85
2684 3070 0.250727 TTTCTAAAGCACCGCTGCCT 60.251 50.000 0.00 0.00 45.53 4.75
2685 3071 0.611200 TTCTAAAGCACCGCTGCCTA 59.389 50.000 0.00 0.00 45.53 3.93
2686 3072 0.830648 TCTAAAGCACCGCTGCCTAT 59.169 50.000 0.00 0.00 45.53 2.57
2687 3073 1.209504 TCTAAAGCACCGCTGCCTATT 59.790 47.619 0.00 0.00 45.53 1.73
2688 3074 2.017049 CTAAAGCACCGCTGCCTATTT 58.983 47.619 0.00 0.00 45.53 1.40
2689 3075 0.811281 AAAGCACCGCTGCCTATTTC 59.189 50.000 0.00 0.00 45.53 2.17
2690 3076 0.035056 AAGCACCGCTGCCTATTTCT 60.035 50.000 0.00 0.00 45.53 2.52
2691 3077 0.830648 AGCACCGCTGCCTATTTCTA 59.169 50.000 0.00 0.00 45.53 2.10
2692 3078 0.938008 GCACCGCTGCCTATTTCTAC 59.062 55.000 0.00 0.00 37.45 2.59
2693 3079 1.742411 GCACCGCTGCCTATTTCTACA 60.742 52.381 0.00 0.00 37.45 2.74
2694 3080 2.205074 CACCGCTGCCTATTTCTACAG 58.795 52.381 0.00 0.00 0.00 2.74
2695 3081 1.139058 ACCGCTGCCTATTTCTACAGG 59.861 52.381 0.00 0.00 34.85 4.00
2696 3082 1.412710 CCGCTGCCTATTTCTACAGGA 59.587 52.381 0.00 0.00 33.42 3.86
2697 3083 2.546795 CCGCTGCCTATTTCTACAGGAG 60.547 54.545 0.00 0.00 33.42 3.69
2698 3084 2.362397 CGCTGCCTATTTCTACAGGAGA 59.638 50.000 0.00 0.00 33.42 3.71
2699 3085 3.551863 CGCTGCCTATTTCTACAGGAGAG 60.552 52.174 0.00 0.00 34.93 3.20
2700 3086 3.244044 GCTGCCTATTTCTACAGGAGAGG 60.244 52.174 0.00 0.00 34.93 3.69
2701 3087 2.700897 TGCCTATTTCTACAGGAGAGGC 59.299 50.000 3.97 3.97 42.01 4.70
2702 3088 2.288518 GCCTATTTCTACAGGAGAGGCG 60.289 54.545 0.00 0.00 36.84 5.52
2703 3089 2.288518 CCTATTTCTACAGGAGAGGCGC 60.289 54.545 0.00 0.00 34.93 6.53
2704 3090 1.490574 ATTTCTACAGGAGAGGCGCT 58.509 50.000 7.64 0.00 34.93 5.92
2705 3091 1.267121 TTTCTACAGGAGAGGCGCTT 58.733 50.000 7.64 0.00 34.93 4.68
2706 3092 2.139323 TTCTACAGGAGAGGCGCTTA 57.861 50.000 7.64 0.00 34.93 3.09
2707 3093 1.681538 TCTACAGGAGAGGCGCTTAG 58.318 55.000 7.64 0.00 0.00 2.18
2708 3094 1.064611 TCTACAGGAGAGGCGCTTAGT 60.065 52.381 7.64 0.00 0.00 2.24
2709 3095 1.751924 CTACAGGAGAGGCGCTTAGTT 59.248 52.381 7.64 0.00 0.00 2.24
2710 3096 1.848652 ACAGGAGAGGCGCTTAGTTA 58.151 50.000 7.64 0.00 0.00 2.24
2711 3097 2.176889 ACAGGAGAGGCGCTTAGTTAA 58.823 47.619 7.64 0.00 0.00 2.01
2712 3098 2.166664 ACAGGAGAGGCGCTTAGTTAAG 59.833 50.000 7.64 0.00 36.40 1.85
2727 3113 7.024340 CTTAGTTAAGCGTCTATCCTGTACA 57.976 40.000 0.00 0.00 0.00 2.90
2728 3114 5.909621 AGTTAAGCGTCTATCCTGTACAA 57.090 39.130 0.00 0.00 0.00 2.41
2729 3115 6.276832 AGTTAAGCGTCTATCCTGTACAAA 57.723 37.500 0.00 0.00 0.00 2.83
2730 3116 6.875076 AGTTAAGCGTCTATCCTGTACAAAT 58.125 36.000 0.00 0.00 0.00 2.32
2731 3117 8.004087 AGTTAAGCGTCTATCCTGTACAAATA 57.996 34.615 0.00 0.00 0.00 1.40
2732 3118 8.472413 AGTTAAGCGTCTATCCTGTACAAATAA 58.528 33.333 0.00 0.00 0.00 1.40
2733 3119 8.753175 GTTAAGCGTCTATCCTGTACAAATAAG 58.247 37.037 0.00 0.00 0.00 1.73
2734 3120 5.290386 AGCGTCTATCCTGTACAAATAAGC 58.710 41.667 0.00 4.79 0.00 3.09
2735 3121 5.047847 GCGTCTATCCTGTACAAATAAGCA 58.952 41.667 0.00 0.00 0.00 3.91
2736 3122 5.050972 GCGTCTATCCTGTACAAATAAGCAC 60.051 44.000 0.00 0.00 0.00 4.40
2737 3123 5.462398 CGTCTATCCTGTACAAATAAGCACC 59.538 44.000 0.00 0.00 0.00 5.01
2738 3124 5.462398 GTCTATCCTGTACAAATAAGCACCG 59.538 44.000 0.00 0.00 0.00 4.94
2739 3125 2.980568 TCCTGTACAAATAAGCACCGG 58.019 47.619 0.00 0.00 0.00 5.28
2740 3126 2.303600 TCCTGTACAAATAAGCACCGGT 59.696 45.455 0.00 0.00 0.00 5.28
2741 3127 2.418628 CCTGTACAAATAAGCACCGGTG 59.581 50.000 30.66 30.66 0.00 4.94
2754 3140 3.537793 CACCGGTGCTTAAGAAAAGTC 57.462 47.619 24.02 0.00 0.00 3.01
2755 3141 3.139077 CACCGGTGCTTAAGAAAAGTCT 58.861 45.455 24.02 0.00 34.72 3.24
2756 3142 3.058914 CACCGGTGCTTAAGAAAAGTCTG 60.059 47.826 24.02 0.00 33.05 3.51
2757 3143 2.484264 CCGGTGCTTAAGAAAAGTCTGG 59.516 50.000 6.67 0.00 33.05 3.86
2758 3144 3.139077 CGGTGCTTAAGAAAAGTCTGGT 58.861 45.455 6.67 0.00 33.05 4.00
2759 3145 3.564225 CGGTGCTTAAGAAAAGTCTGGTT 59.436 43.478 6.67 0.00 33.05 3.67
2760 3146 4.036380 CGGTGCTTAAGAAAAGTCTGGTTT 59.964 41.667 6.67 0.00 33.05 3.27
2761 3147 5.237779 CGGTGCTTAAGAAAAGTCTGGTTTA 59.762 40.000 6.67 0.00 33.05 2.01
2762 3148 6.072673 CGGTGCTTAAGAAAAGTCTGGTTTAT 60.073 38.462 6.67 0.00 33.05 1.40
2763 3149 7.521585 CGGTGCTTAAGAAAAGTCTGGTTTATT 60.522 37.037 6.67 0.00 33.05 1.40
2764 3150 8.141909 GGTGCTTAAGAAAAGTCTGGTTTATTT 58.858 33.333 6.67 0.00 33.05 1.40
2765 3151 9.181805 GTGCTTAAGAAAAGTCTGGTTTATTTC 57.818 33.333 6.67 0.00 33.05 2.17
2766 3152 9.131791 TGCTTAAGAAAAGTCTGGTTTATTTCT 57.868 29.630 6.67 0.00 40.90 2.52
2767 3153 9.613957 GCTTAAGAAAAGTCTGGTTTATTTCTC 57.386 33.333 6.67 0.00 38.89 2.87
2769 3155 9.635404 TTAAGAAAAGTCTGGTTTATTTCTCCA 57.365 29.630 0.00 0.00 38.89 3.86
2770 3156 8.533569 AAGAAAAGTCTGGTTTATTTCTCCAA 57.466 30.769 0.00 0.00 38.89 3.53
2771 3157 8.171164 AGAAAAGTCTGGTTTATTTCTCCAAG 57.829 34.615 0.00 0.00 35.96 3.61
2772 3158 5.966742 AAGTCTGGTTTATTTCTCCAAGC 57.033 39.130 0.00 0.00 0.00 4.01
2773 3159 4.985538 AGTCTGGTTTATTTCTCCAAGCA 58.014 39.130 0.00 0.00 0.00 3.91
2774 3160 4.762251 AGTCTGGTTTATTTCTCCAAGCAC 59.238 41.667 0.00 0.00 0.00 4.40
2775 3161 4.079253 TCTGGTTTATTTCTCCAAGCACC 58.921 43.478 0.00 0.00 0.00 5.01
2776 3162 4.082125 CTGGTTTATTTCTCCAAGCACCT 58.918 43.478 0.00 0.00 0.00 4.00
2777 3163 4.079253 TGGTTTATTTCTCCAAGCACCTC 58.921 43.478 0.00 0.00 0.00 3.85
2778 3164 3.444034 GGTTTATTTCTCCAAGCACCTCC 59.556 47.826 0.00 0.00 0.00 4.30
2779 3165 3.366052 TTATTTCTCCAAGCACCTCCC 57.634 47.619 0.00 0.00 0.00 4.30
2780 3166 0.332972 ATTTCTCCAAGCACCTCCCC 59.667 55.000 0.00 0.00 0.00 4.81
2781 3167 0.772124 TTTCTCCAAGCACCTCCCCT 60.772 55.000 0.00 0.00 0.00 4.79
2782 3168 0.118346 TTCTCCAAGCACCTCCCCTA 59.882 55.000 0.00 0.00 0.00 3.53
2783 3169 0.118346 TCTCCAAGCACCTCCCCTAA 59.882 55.000 0.00 0.00 0.00 2.69
2784 3170 0.543749 CTCCAAGCACCTCCCCTAAG 59.456 60.000 0.00 0.00 0.00 2.18
2785 3171 1.077429 CCAAGCACCTCCCCTAAGC 60.077 63.158 0.00 0.00 0.00 3.09
2786 3172 1.685224 CAAGCACCTCCCCTAAGCA 59.315 57.895 0.00 0.00 0.00 3.91
2787 3173 0.678048 CAAGCACCTCCCCTAAGCAC 60.678 60.000 0.00 0.00 0.00 4.40
2788 3174 1.853250 AAGCACCTCCCCTAAGCACC 61.853 60.000 0.00 0.00 0.00 5.01
2789 3175 2.301738 GCACCTCCCCTAAGCACCT 61.302 63.158 0.00 0.00 0.00 4.00
2790 3176 1.908483 CACCTCCCCTAAGCACCTC 59.092 63.158 0.00 0.00 0.00 3.85
2791 3177 1.307084 ACCTCCCCTAAGCACCTCC 60.307 63.158 0.00 0.00 0.00 4.30
2792 3178 2.073101 CCTCCCCTAAGCACCTCCC 61.073 68.421 0.00 0.00 0.00 4.30
2793 3179 1.306997 CTCCCCTAAGCACCTCCCA 60.307 63.158 0.00 0.00 0.00 4.37
2794 3180 0.695803 CTCCCCTAAGCACCTCCCAT 60.696 60.000 0.00 0.00 0.00 4.00
2795 3181 0.253630 TCCCCTAAGCACCTCCCATT 60.254 55.000 0.00 0.00 0.00 3.16
2796 3182 0.106519 CCCCTAAGCACCTCCCATTG 60.107 60.000 0.00 0.00 0.00 2.82
2797 3183 0.625849 CCCTAAGCACCTCCCATTGT 59.374 55.000 0.00 0.00 0.00 2.71
2798 3184 1.843851 CCCTAAGCACCTCCCATTGTA 59.156 52.381 0.00 0.00 0.00 2.41
2799 3185 2.421529 CCCTAAGCACCTCCCATTGTAC 60.422 54.545 0.00 0.00 0.00 2.90
2800 3186 2.238646 CCTAAGCACCTCCCATTGTACA 59.761 50.000 0.00 0.00 0.00 2.90
2801 3187 2.969821 AAGCACCTCCCATTGTACAA 57.030 45.000 11.41 11.41 0.00 2.41
2802 3188 2.496899 AGCACCTCCCATTGTACAAG 57.503 50.000 14.65 6.30 0.00 3.16
2803 3189 1.004745 AGCACCTCCCATTGTACAAGG 59.995 52.381 14.65 13.92 0.00 3.61
2804 3190 1.463674 CACCTCCCATTGTACAAGGC 58.536 55.000 14.66 0.00 0.00 4.35
2805 3191 0.331616 ACCTCCCATTGTACAAGGCC 59.668 55.000 14.66 0.00 0.00 5.19
2806 3192 0.625849 CCTCCCATTGTACAAGGCCT 59.374 55.000 14.66 0.00 0.00 5.19
2807 3193 1.843851 CCTCCCATTGTACAAGGCCTA 59.156 52.381 14.66 1.57 0.00 3.93
2808 3194 2.241176 CCTCCCATTGTACAAGGCCTAA 59.759 50.000 14.66 0.00 0.00 2.69
2809 3195 3.545703 CTCCCATTGTACAAGGCCTAAG 58.454 50.000 14.66 4.24 0.00 2.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
173 175 3.135457 CATCAGCCATGCGCCACA 61.135 61.111 4.18 0.00 38.78 4.17
456 459 5.368145 CCTTCGATGAAGTCCATGGAAATA 58.632 41.667 18.20 3.74 45.22 1.40
702 705 2.351060 CGTACTCAGGCGTAGTTTCACA 60.351 50.000 0.13 0.00 0.00 3.58
715 718 1.218316 GGTGGAAGGCCGTACTCAG 59.782 63.158 1.49 0.00 36.79 3.35
726 729 2.606519 TCCGTCTGGGGGTGGAAG 60.607 66.667 0.00 0.00 36.01 3.46
737 740 0.811915 CTCAGATTGTCCGTCCGTCT 59.188 55.000 0.00 0.00 0.00 4.18
746 749 3.126001 TGTTGACCACCTCAGATTGTC 57.874 47.619 0.00 0.00 0.00 3.18
747 750 3.480470 CTTGTTGACCACCTCAGATTGT 58.520 45.455 0.00 0.00 0.00 2.71
783 786 0.453793 CACCTGGAACACAACGCAAA 59.546 50.000 0.00 0.00 0.00 3.68
787 790 0.790207 CGATCACCTGGAACACAACG 59.210 55.000 0.00 0.00 0.00 4.10
796 799 1.732259 GTAAAGCACACGATCACCTGG 59.268 52.381 0.00 0.00 0.00 4.45
797 800 2.688507 AGTAAAGCACACGATCACCTG 58.311 47.619 0.00 0.00 0.00 4.00
830 833 3.141398 CACACAATAGCAAGTCCACAGT 58.859 45.455 0.00 0.00 0.00 3.55
861 865 0.401738 AGCAGTAGCAACACCACCAT 59.598 50.000 0.00 0.00 45.49 3.55
870 874 3.326588 TCTTCTTACCCAAGCAGTAGCAA 59.673 43.478 0.00 0.00 45.49 3.91
875 879 3.744660 CAAGTCTTCTTACCCAAGCAGT 58.255 45.455 0.00 0.00 32.07 4.40
885 889 4.528596 ACTTAGCCTCAGCAAGTCTTCTTA 59.471 41.667 0.00 0.00 43.56 2.10
913 920 2.625375 CAGCTCTCAACAGCAGCAA 58.375 52.632 0.00 0.00 42.40 3.91
937 944 3.833070 CCCTTAGGACTACACACTTCAGT 59.167 47.826 0.00 0.00 33.47 3.41
955 962 3.549794 GATAATCAGCAGAGCAACCCTT 58.450 45.455 0.00 0.00 0.00 3.95
1076 1084 4.500265 GCTTTGGAGCCACTTCCA 57.500 55.556 0.00 0.00 45.34 3.53
1088 1096 1.669795 GGGGCGACATTTTCAGCTTTG 60.670 52.381 0.00 0.00 0.00 2.77
1095 1103 0.608035 TGTCCAGGGGCGACATTTTC 60.608 55.000 0.00 0.00 35.35 2.29
1096 1104 0.039618 ATGTCCAGGGGCGACATTTT 59.960 50.000 0.00 0.00 46.36 1.82
1127 1135 2.684881 CAGCTCGAATAATTGGTTGCCT 59.315 45.455 0.00 0.00 0.00 4.75
1142 1150 3.465403 CCCTCCTGGACCAGCTCG 61.465 72.222 16.72 2.80 35.39 5.03
1339 1347 7.673082 TGATAGAATCTTCCATATCTCAGCAGA 59.327 37.037 0.00 0.00 0.00 4.26
1482 1496 1.281867 CAGTTATCCTGGTCAGCCCAA 59.718 52.381 0.00 0.00 44.65 4.12
1525 1539 0.807667 CCTGACTCGATTGAAGCCGG 60.808 60.000 0.00 0.00 0.00 6.13
1560 1574 1.156736 ATTTCAGTACACACCTGCGC 58.843 50.000 0.00 0.00 0.00 6.09
1567 1581 4.157656 GCCAGCCATAAATTTCAGTACACA 59.842 41.667 0.00 0.00 0.00 3.72
1582 1596 0.971386 CAACTTTTGAGGCCAGCCAT 59.029 50.000 12.03 0.00 38.92 4.40
1691 1705 1.135915 CTGCGTGCTCAAGAGATAGGT 59.864 52.381 0.32 0.00 0.00 3.08
1707 1732 0.370273 GCATAACCTTCACGTCTGCG 59.630 55.000 0.00 0.00 44.93 5.18
1723 2035 1.589716 GCAAAGGTCGAAGCTGGCAT 61.590 55.000 0.00 0.00 30.36 4.40
1774 2086 1.750778 CCCACAGGTATGACATTTGGC 59.249 52.381 0.00 0.00 0.00 4.52
1787 2099 1.080354 TGACCTACCTCCCCACAGG 59.920 63.158 0.00 0.00 39.80 4.00
1808 2120 5.732633 CATGAGTTGGACATTCTCTCTTCT 58.267 41.667 0.00 0.00 0.00 2.85
1864 2178 1.484240 GTATCCACTTCTGCCTCTGCT 59.516 52.381 0.00 0.00 38.71 4.24
1976 2362 3.812053 GCGAGCAAAATCTCCATAGACAT 59.188 43.478 0.00 0.00 33.57 3.06
1997 2383 2.124403 CATCAGTGGAGGCCCAGC 60.124 66.667 0.00 0.00 44.55 4.85
2250 2636 6.054860 AGATCACATATAGGTGCCATAACC 57.945 41.667 12.62 0.00 40.85 2.85
2265 2651 9.857656 AAGAATGTTACAATGGATAGATCACAT 57.142 29.630 0.00 0.00 0.00 3.21
2518 2904 3.352648 CGGAAGGTTTGGTGATGGTTAT 58.647 45.455 0.00 0.00 0.00 1.89
2553 2939 5.691305 GCACTCTCATTAGTAGCAAGAGATG 59.309 44.000 4.80 0.00 37.49 2.90
2554 2940 5.598005 AGCACTCTCATTAGTAGCAAGAGAT 59.402 40.000 4.80 0.00 37.49 2.75
2555 2941 4.952957 AGCACTCTCATTAGTAGCAAGAGA 59.047 41.667 4.80 0.00 37.49 3.10
2556 2942 5.261209 AGCACTCTCATTAGTAGCAAGAG 57.739 43.478 0.00 0.00 39.47 2.85
2557 2943 4.098654 GGAGCACTCTCATTAGTAGCAAGA 59.901 45.833 0.00 0.00 41.13 3.02
2558 2944 4.142071 TGGAGCACTCTCATTAGTAGCAAG 60.142 45.833 0.00 0.00 41.13 4.01
2559 2945 3.769300 TGGAGCACTCTCATTAGTAGCAA 59.231 43.478 0.00 0.00 41.13 3.91
2560 2946 3.365472 TGGAGCACTCTCATTAGTAGCA 58.635 45.455 0.00 0.00 41.13 3.49
2612 2998 1.463674 CACCTCCCATTGTACAAGGC 58.536 55.000 14.66 0.00 0.00 4.35
2613 2999 1.004745 AGCACCTCCCATTGTACAAGG 59.995 52.381 14.65 13.92 0.00 3.61
2614 3000 2.496899 AGCACCTCCCATTGTACAAG 57.503 50.000 14.65 6.30 0.00 3.16
2615 3001 2.969821 AAGCACCTCCCATTGTACAA 57.030 45.000 11.41 11.41 0.00 2.41
2616 3002 3.178046 TCTAAGCACCTCCCATTGTACA 58.822 45.455 0.00 0.00 0.00 2.90
2617 3003 3.451178 TCTCTAAGCACCTCCCATTGTAC 59.549 47.826 0.00 0.00 0.00 2.90
2618 3004 3.706594 CTCTCTAAGCACCTCCCATTGTA 59.293 47.826 0.00 0.00 0.00 2.41
2619 3005 2.503356 CTCTCTAAGCACCTCCCATTGT 59.497 50.000 0.00 0.00 0.00 2.71
2620 3006 2.768527 TCTCTCTAAGCACCTCCCATTG 59.231 50.000 0.00 0.00 0.00 2.82
2621 3007 3.121929 TCTCTCTAAGCACCTCCCATT 57.878 47.619 0.00 0.00 0.00 3.16
2622 3008 2.856760 TCTCTCTAAGCACCTCCCAT 57.143 50.000 0.00 0.00 0.00 4.00
2623 3009 2.392662 CATCTCTCTAAGCACCTCCCA 58.607 52.381 0.00 0.00 0.00 4.37
2624 3010 1.069978 GCATCTCTCTAAGCACCTCCC 59.930 57.143 0.00 0.00 0.00 4.30
2625 3011 2.038659 AGCATCTCTCTAAGCACCTCC 58.961 52.381 0.00 0.00 0.00 4.30
2626 3012 3.817709 AAGCATCTCTCTAAGCACCTC 57.182 47.619 0.00 0.00 0.00 3.85
2627 3013 4.541705 TCTAAGCATCTCTCTAAGCACCT 58.458 43.478 0.00 0.00 0.00 4.00
2628 3014 4.927978 TCTAAGCATCTCTCTAAGCACC 57.072 45.455 0.00 0.00 0.00 5.01
2629 3015 7.602517 TTTTTCTAAGCATCTCTCTAAGCAC 57.397 36.000 0.00 0.00 0.00 4.40
2630 3016 9.890629 TTATTTTTCTAAGCATCTCTCTAAGCA 57.109 29.630 0.00 0.00 0.00 3.91
2634 3020 9.314321 CGGTTTATTTTTCTAAGCATCTCTCTA 57.686 33.333 0.00 0.00 0.00 2.43
2635 3021 7.281100 CCGGTTTATTTTTCTAAGCATCTCTCT 59.719 37.037 0.00 0.00 0.00 3.10
2636 3022 7.280205 TCCGGTTTATTTTTCTAAGCATCTCTC 59.720 37.037 0.00 0.00 0.00 3.20
2637 3023 7.110155 TCCGGTTTATTTTTCTAAGCATCTCT 58.890 34.615 0.00 0.00 0.00 3.10
2638 3024 7.316544 TCCGGTTTATTTTTCTAAGCATCTC 57.683 36.000 0.00 0.00 0.00 2.75
2639 3025 7.881775 ATCCGGTTTATTTTTCTAAGCATCT 57.118 32.000 0.00 0.00 0.00 2.90
2640 3026 8.926715 AAATCCGGTTTATTTTTCTAAGCATC 57.073 30.769 0.00 0.00 0.00 3.91
2641 3027 9.719355 AAAAATCCGGTTTATTTTTCTAAGCAT 57.281 25.926 15.66 0.00 40.68 3.79
2649 3035 9.549078 TGCTTTAGAAAAATCCGGTTTATTTTT 57.451 25.926 19.49 19.49 44.88 1.94
2650 3036 8.984764 GTGCTTTAGAAAAATCCGGTTTATTTT 58.015 29.630 0.00 3.75 37.98 1.82
2651 3037 7.601130 GGTGCTTTAGAAAAATCCGGTTTATTT 59.399 33.333 0.00 0.00 0.00 1.40
2652 3038 7.094631 GGTGCTTTAGAAAAATCCGGTTTATT 58.905 34.615 0.00 0.00 0.00 1.40
2653 3039 6.624204 CGGTGCTTTAGAAAAATCCGGTTTAT 60.624 38.462 0.00 0.00 33.57 1.40
2654 3040 5.335035 CGGTGCTTTAGAAAAATCCGGTTTA 60.335 40.000 0.00 0.00 33.57 2.01
2655 3041 4.557895 CGGTGCTTTAGAAAAATCCGGTTT 60.558 41.667 0.00 0.00 33.57 3.27
2656 3042 3.057806 CGGTGCTTTAGAAAAATCCGGTT 60.058 43.478 0.00 0.00 33.57 4.44
2657 3043 2.486592 CGGTGCTTTAGAAAAATCCGGT 59.513 45.455 0.00 0.00 33.57 5.28
2658 3044 2.731027 GCGGTGCTTTAGAAAAATCCGG 60.731 50.000 0.00 0.00 35.61 5.14
2659 3045 2.161609 AGCGGTGCTTTAGAAAAATCCG 59.838 45.455 0.00 0.00 33.89 4.18
2660 3046 3.501950 CAGCGGTGCTTTAGAAAAATCC 58.498 45.455 0.00 0.00 36.40 3.01
2674 3060 2.205074 CTGTAGAAATAGGCAGCGGTG 58.795 52.381 10.98 10.98 0.00 4.94
2675 3061 1.139058 CCTGTAGAAATAGGCAGCGGT 59.861 52.381 0.00 0.00 0.00 5.68
2676 3062 1.412710 TCCTGTAGAAATAGGCAGCGG 59.587 52.381 0.00 0.00 34.08 5.52
2677 3063 2.362397 TCTCCTGTAGAAATAGGCAGCG 59.638 50.000 0.00 0.00 34.08 5.18
2678 3064 3.244044 CCTCTCCTGTAGAAATAGGCAGC 60.244 52.174 0.00 0.00 34.08 5.25
2679 3065 3.244044 GCCTCTCCTGTAGAAATAGGCAG 60.244 52.174 5.61 0.00 41.46 4.85
2680 3066 2.700897 GCCTCTCCTGTAGAAATAGGCA 59.299 50.000 5.61 0.00 41.46 4.75
2681 3067 2.288518 CGCCTCTCCTGTAGAAATAGGC 60.289 54.545 0.00 0.00 39.75 3.93
2682 3068 2.288518 GCGCCTCTCCTGTAGAAATAGG 60.289 54.545 0.00 0.00 35.36 2.57
2683 3069 2.625790 AGCGCCTCTCCTGTAGAAATAG 59.374 50.000 2.29 0.00 32.46 1.73
2684 3070 2.667470 AGCGCCTCTCCTGTAGAAATA 58.333 47.619 2.29 0.00 32.46 1.40
2685 3071 1.490574 AGCGCCTCTCCTGTAGAAAT 58.509 50.000 2.29 0.00 32.46 2.17
2686 3072 1.267121 AAGCGCCTCTCCTGTAGAAA 58.733 50.000 2.29 0.00 32.46 2.52
2687 3073 2.025155 CTAAGCGCCTCTCCTGTAGAA 58.975 52.381 2.29 0.00 32.46 2.10
2688 3074 1.064611 ACTAAGCGCCTCTCCTGTAGA 60.065 52.381 2.29 0.00 0.00 2.59
2689 3075 1.394618 ACTAAGCGCCTCTCCTGTAG 58.605 55.000 2.29 0.00 0.00 2.74
2690 3076 1.848652 AACTAAGCGCCTCTCCTGTA 58.151 50.000 2.29 0.00 0.00 2.74
2691 3077 1.848652 TAACTAAGCGCCTCTCCTGT 58.151 50.000 2.29 0.00 0.00 4.00
2692 3078 2.815478 CTTAACTAAGCGCCTCTCCTG 58.185 52.381 2.29 0.00 0.00 3.86
2703 3089 7.024340 TGTACAGGATAGACGCTTAACTAAG 57.976 40.000 0.00 0.00 36.40 2.18
2704 3090 7.395190 TTGTACAGGATAGACGCTTAACTAA 57.605 36.000 0.00 0.00 0.00 2.24
2705 3091 7.395190 TTTGTACAGGATAGACGCTTAACTA 57.605 36.000 0.00 0.00 0.00 2.24
2706 3092 5.909621 TTGTACAGGATAGACGCTTAACT 57.090 39.130 0.00 0.00 0.00 2.24
2707 3093 8.638685 TTATTTGTACAGGATAGACGCTTAAC 57.361 34.615 0.00 0.00 0.00 2.01
2708 3094 7.437267 GCTTATTTGTACAGGATAGACGCTTAA 59.563 37.037 0.00 0.00 0.00 1.85
2709 3095 6.921857 GCTTATTTGTACAGGATAGACGCTTA 59.078 38.462 0.00 0.00 0.00 3.09
2710 3096 5.753921 GCTTATTTGTACAGGATAGACGCTT 59.246 40.000 0.00 0.00 0.00 4.68
2711 3097 5.163447 TGCTTATTTGTACAGGATAGACGCT 60.163 40.000 0.00 0.00 0.00 5.07
2712 3098 5.047847 TGCTTATTTGTACAGGATAGACGC 58.952 41.667 0.00 4.64 0.00 5.19
2713 3099 5.462398 GGTGCTTATTTGTACAGGATAGACG 59.538 44.000 0.00 0.00 0.00 4.18
2714 3100 5.462398 CGGTGCTTATTTGTACAGGATAGAC 59.538 44.000 0.00 0.00 0.00 2.59
2715 3101 5.452776 CCGGTGCTTATTTGTACAGGATAGA 60.453 44.000 0.00 0.00 39.37 1.98
2716 3102 4.750098 CCGGTGCTTATTTGTACAGGATAG 59.250 45.833 0.00 0.00 39.37 2.08
2717 3103 4.162698 ACCGGTGCTTATTTGTACAGGATA 59.837 41.667 6.12 0.00 39.37 2.59
2718 3104 3.054655 ACCGGTGCTTATTTGTACAGGAT 60.055 43.478 6.12 0.00 39.37 3.24
2719 3105 2.303600 ACCGGTGCTTATTTGTACAGGA 59.696 45.455 6.12 0.00 39.37 3.86
2720 3106 2.418628 CACCGGTGCTTATTTGTACAGG 59.581 50.000 24.02 0.00 41.71 4.00
2721 3107 3.740044 CACCGGTGCTTATTTGTACAG 57.260 47.619 24.02 0.00 0.00 2.74
2734 3120 3.058914 CAGACTTTTCTTAAGCACCGGTG 60.059 47.826 30.66 30.66 0.00 4.94
2735 3121 3.139077 CAGACTTTTCTTAAGCACCGGT 58.861 45.455 0.00 0.00 0.00 5.28
2736 3122 2.484264 CCAGACTTTTCTTAAGCACCGG 59.516 50.000 0.00 0.00 0.00 5.28
2737 3123 3.139077 ACCAGACTTTTCTTAAGCACCG 58.861 45.455 0.00 0.00 0.00 4.94
2738 3124 5.515797 AAACCAGACTTTTCTTAAGCACC 57.484 39.130 0.00 0.00 0.00 5.01
2739 3125 9.181805 GAAATAAACCAGACTTTTCTTAAGCAC 57.818 33.333 0.00 0.00 0.00 4.40
2740 3126 9.131791 AGAAATAAACCAGACTTTTCTTAAGCA 57.868 29.630 0.00 0.00 33.97 3.91
2741 3127 9.613957 GAGAAATAAACCAGACTTTTCTTAAGC 57.386 33.333 0.00 0.00 36.91 3.09
2743 3129 9.635404 TGGAGAAATAAACCAGACTTTTCTTAA 57.365 29.630 0.00 0.00 36.91 1.85
2744 3130 9.635404 TTGGAGAAATAAACCAGACTTTTCTTA 57.365 29.630 0.00 0.00 36.91 2.10
2745 3131 8.533569 TTGGAGAAATAAACCAGACTTTTCTT 57.466 30.769 0.00 0.00 36.91 2.52
2746 3132 7.255625 GCTTGGAGAAATAAACCAGACTTTTCT 60.256 37.037 0.00 0.00 38.86 2.52
2747 3133 6.863645 GCTTGGAGAAATAAACCAGACTTTTC 59.136 38.462 0.00 0.00 35.08 2.29
2748 3134 6.323739 TGCTTGGAGAAATAAACCAGACTTTT 59.676 34.615 0.00 0.00 35.08 2.27
2749 3135 5.833131 TGCTTGGAGAAATAAACCAGACTTT 59.167 36.000 0.00 0.00 35.08 2.66
2750 3136 5.241728 GTGCTTGGAGAAATAAACCAGACTT 59.758 40.000 0.00 0.00 35.08 3.01
2751 3137 4.762251 GTGCTTGGAGAAATAAACCAGACT 59.238 41.667 0.00 0.00 35.08 3.24
2752 3138 4.082733 GGTGCTTGGAGAAATAAACCAGAC 60.083 45.833 0.00 0.00 35.08 3.51
2753 3139 4.079253 GGTGCTTGGAGAAATAAACCAGA 58.921 43.478 0.00 0.00 35.08 3.86
2754 3140 4.082125 AGGTGCTTGGAGAAATAAACCAG 58.918 43.478 0.00 0.00 35.08 4.00
2755 3141 4.079253 GAGGTGCTTGGAGAAATAAACCA 58.921 43.478 0.00 0.00 0.00 3.67
2756 3142 3.444034 GGAGGTGCTTGGAGAAATAAACC 59.556 47.826 0.00 0.00 0.00 3.27
2757 3143 3.444034 GGGAGGTGCTTGGAGAAATAAAC 59.556 47.826 0.00 0.00 0.00 2.01
2758 3144 3.563479 GGGGAGGTGCTTGGAGAAATAAA 60.563 47.826 0.00 0.00 0.00 1.40
2759 3145 2.025321 GGGGAGGTGCTTGGAGAAATAA 60.025 50.000 0.00 0.00 0.00 1.40
2760 3146 1.564348 GGGGAGGTGCTTGGAGAAATA 59.436 52.381 0.00 0.00 0.00 1.40
2761 3147 0.332972 GGGGAGGTGCTTGGAGAAAT 59.667 55.000 0.00 0.00 0.00 2.17
2762 3148 0.772124 AGGGGAGGTGCTTGGAGAAA 60.772 55.000 0.00 0.00 0.00 2.52
2763 3149 0.118346 TAGGGGAGGTGCTTGGAGAA 59.882 55.000 0.00 0.00 0.00 2.87
2764 3150 0.118346 TTAGGGGAGGTGCTTGGAGA 59.882 55.000 0.00 0.00 0.00 3.71
2765 3151 0.543749 CTTAGGGGAGGTGCTTGGAG 59.456 60.000 0.00 0.00 0.00 3.86
2766 3152 1.562672 GCTTAGGGGAGGTGCTTGGA 61.563 60.000 0.00 0.00 0.00 3.53
2767 3153 1.077429 GCTTAGGGGAGGTGCTTGG 60.077 63.158 0.00 0.00 0.00 3.61
2768 3154 0.678048 GTGCTTAGGGGAGGTGCTTG 60.678 60.000 0.00 0.00 0.00 4.01
2769 3155 1.685820 GTGCTTAGGGGAGGTGCTT 59.314 57.895 0.00 0.00 0.00 3.91
2770 3156 2.301738 GGTGCTTAGGGGAGGTGCT 61.302 63.158 0.00 0.00 0.00 4.40
2771 3157 2.258748 GAGGTGCTTAGGGGAGGTGC 62.259 65.000 0.00 0.00 0.00 5.01
2772 3158 1.627297 GGAGGTGCTTAGGGGAGGTG 61.627 65.000 0.00 0.00 0.00 4.00
2773 3159 1.307084 GGAGGTGCTTAGGGGAGGT 60.307 63.158 0.00 0.00 0.00 3.85
2774 3160 2.073101 GGGAGGTGCTTAGGGGAGG 61.073 68.421 0.00 0.00 0.00 4.30
2775 3161 0.695803 ATGGGAGGTGCTTAGGGGAG 60.696 60.000 0.00 0.00 0.00 4.30
2776 3162 0.253630 AATGGGAGGTGCTTAGGGGA 60.254 55.000 0.00 0.00 0.00 4.81
2777 3163 0.106519 CAATGGGAGGTGCTTAGGGG 60.107 60.000 0.00 0.00 0.00 4.79
2778 3164 0.625849 ACAATGGGAGGTGCTTAGGG 59.374 55.000 0.00 0.00 0.00 3.53
2779 3165 2.238646 TGTACAATGGGAGGTGCTTAGG 59.761 50.000 0.00 0.00 0.00 2.69
2780 3166 3.627395 TGTACAATGGGAGGTGCTTAG 57.373 47.619 0.00 0.00 0.00 2.18
2781 3167 3.308117 CCTTGTACAATGGGAGGTGCTTA 60.308 47.826 9.13 0.00 0.00 3.09
2782 3168 2.555227 CCTTGTACAATGGGAGGTGCTT 60.555 50.000 9.13 0.00 0.00 3.91
2783 3169 1.004745 CCTTGTACAATGGGAGGTGCT 59.995 52.381 9.13 0.00 0.00 4.40
2784 3170 1.463674 CCTTGTACAATGGGAGGTGC 58.536 55.000 9.13 0.00 0.00 5.01
2785 3171 1.463674 GCCTTGTACAATGGGAGGTG 58.536 55.000 16.08 0.00 0.00 4.00
2786 3172 0.331616 GGCCTTGTACAATGGGAGGT 59.668 55.000 16.08 0.00 0.00 3.85
2787 3173 0.625849 AGGCCTTGTACAATGGGAGG 59.374 55.000 16.08 11.34 0.00 4.30
2788 3174 3.545703 CTTAGGCCTTGTACAATGGGAG 58.454 50.000 12.58 1.65 0.00 4.30
2789 3175 3.644966 CTTAGGCCTTGTACAATGGGA 57.355 47.619 12.58 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.