Multiple sequence alignment - TraesCS7B01G175600

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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 TraesCS7B01G175600 chr7B 100.000 6140 0 0 1 6140 247257798 247263937 0.000000e+00 11339.0
1 TraesCS7B01G175600 chr7B 87.671 219 25 2 4788 5006 141816129 141815913 2.840000e-63 254.0
2 TraesCS7B01G175600 chr7B 79.221 154 31 1 478 630 64747485 64747638 8.420000e-19 106.0
3 TraesCS7B01G175600 chr7D 92.290 3411 155 29 279 3645 266887429 266884083 0.000000e+00 4743.0
4 TraesCS7B01G175600 chr7D 94.948 1841 43 16 3785 5594 266884085 266882264 0.000000e+00 2839.0
5 TraesCS7B01G175600 chr7D 95.848 554 14 4 5594 6140 266876156 266875605 0.000000e+00 887.0
6 TraesCS7B01G175600 chr7D 91.071 280 21 4 1 277 266887767 266887489 5.810000e-100 375.0
7 TraesCS7B01G175600 chr7D 91.968 249 19 1 3802 4049 231549744 231549992 1.270000e-91 348.0
8 TraesCS7B01G175600 chr7D 95.973 149 6 0 3637 3785 618707284 618707136 6.150000e-60 243.0
9 TraesCS7B01G175600 chr7D 80.153 131 20 4 442 569 409175969 409176096 6.550000e-15 93.5
10 TraesCS7B01G175600 chr7A 95.796 2593 59 18 1066 3645 292829559 292827004 0.000000e+00 4139.0
11 TraesCS7B01G175600 chr7A 92.502 1587 40 23 4566 6140 292821127 292819608 0.000000e+00 2198.0
12 TraesCS7B01G175600 chr7A 93.966 812 22 12 3785 4570 292827006 292826196 0.000000e+00 1203.0
13 TraesCS7B01G175600 chr7A 92.473 279 19 2 1 277 292845953 292845675 1.240000e-106 398.0
14 TraesCS7B01G175600 chr7A 84.085 377 41 15 656 1028 292832691 292832330 4.560000e-91 346.0
15 TraesCS7B01G175600 chr3D 91.968 249 19 1 3802 4049 24160677 24160925 1.270000e-91 348.0
16 TraesCS7B01G175600 chr3D 95.804 143 6 0 3639 3781 18362000 18361858 1.330000e-56 231.0
17 TraesCS7B01G175600 chr3D 93.878 98 5 1 3094 3190 445342953 445343050 4.960000e-31 147.0
18 TraesCS7B01G175600 chr1D 91.968 249 19 1 3802 4049 254471924 254472172 1.270000e-91 348.0
19 TraesCS7B01G175600 chr1D 89.954 219 22 0 4788 5006 268963500 268963282 3.620000e-72 283.0
20 TraesCS7B01G175600 chr1D 95.172 145 7 0 3645 3789 99547542 99547686 4.790000e-56 230.0
21 TraesCS7B01G175600 chr5D 91.566 249 20 1 3802 4049 432309866 432309618 5.890000e-90 342.0
22 TraesCS7B01G175600 chr5D 91.566 249 20 1 3802 4049 503326017 503326265 5.890000e-90 342.0
23 TraesCS7B01G175600 chr5D 93.878 98 5 1 3094 3190 180472061 180472158 4.960000e-31 147.0
24 TraesCS7B01G175600 chr3B 91.566 249 20 1 3802 4049 201484966 201485214 5.890000e-90 342.0
25 TraesCS7B01G175600 chr3B 91.566 249 20 1 3802 4049 201488238 201488486 5.890000e-90 342.0
26 TraesCS7B01G175600 chr3B 94.483 145 8 0 3645 3789 765923816 765923672 2.230000e-54 224.0
27 TraesCS7B01G175600 chr3B 80.000 175 30 5 405 576 76491714 76491542 2.320000e-24 124.0
28 TraesCS7B01G175600 chr4D 90.187 214 21 0 4790 5003 206060848 206061061 4.690000e-71 279.0
29 TraesCS7B01G175600 chr4D 90.654 107 7 3 3089 3194 265367225 265367329 8.300000e-29 139.0
30 TraesCS7B01G175600 chr4D 90.385 52 3 2 874 925 97971692 97971741 3.970000e-07 67.6
31 TraesCS7B01G175600 chr4B 90.187 214 21 0 4793 5006 258771566 258771353 4.690000e-71 279.0
32 TraesCS7B01G175600 chr4B 88.636 220 23 2 4785 5003 252007322 252007540 3.650000e-67 267.0
33 TraesCS7B01G175600 chr2D 89.815 216 20 2 4788 5003 388833660 388833873 6.060000e-70 276.0
34 TraesCS7B01G175600 chr2D 96.429 140 5 0 3645 3784 120092568 120092429 1.330000e-56 231.0
35 TraesCS7B01G175600 chr2D 88.889 63 7 0 874 936 320182372 320182310 1.830000e-10 78.7
36 TraesCS7B01G175600 chr6D 89.252 214 23 0 4790 5003 365846881 365847094 1.010000e-67 268.0
37 TraesCS7B01G175600 chr6D 95.833 144 6 0 3645 3788 459701993 459701850 3.700000e-57 233.0
38 TraesCS7B01G175600 chr6D 94.483 145 8 0 3645 3789 440963297 440963441 2.230000e-54 224.0
39 TraesCS7B01G175600 chr4A 97.260 146 4 0 3640 3785 462223869 462224014 1.320000e-61 248.0
40 TraesCS7B01G175600 chr6A 97.122 139 4 0 3643 3781 605337141 605337279 1.030000e-57 235.0
41 TraesCS7B01G175600 chr6A 89.744 117 8 4 3093 3207 74634148 74634034 4.960000e-31 147.0
42 TraesCS7B01G175600 chr6A 92.784 97 6 1 3095 3190 507116916 507117012 8.300000e-29 139.0
43 TraesCS7B01G175600 chr6B 93.069 101 5 2 3091 3190 633054015 633054114 4.960000e-31 147.0
44 TraesCS7B01G175600 chr6B 82.432 74 3 6 874 947 402200930 402200867 8.600000e-04 56.5
45 TraesCS7B01G175600 chr1A 92.157 102 7 1 3090 3190 561890746 561890847 6.420000e-30 143.0
46 TraesCS7B01G175600 chr2B 79.429 175 33 3 452 624 147493732 147493905 3.010000e-23 121.0
47 TraesCS7B01G175600 chr2A 79.845 129 23 3 436 562 220016225 220016352 2.360000e-14 91.6
48 TraesCS7B01G175600 chr5B 78.846 104 20 2 460 562 21524206 21524104 1.100000e-07 69.4


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 TraesCS7B01G175600 chr7B 247257798 247263937 6139 False 11339.000000 11339 100.000000 1 6140 1 chr7B.!!$F2 6139
1 TraesCS7B01G175600 chr7D 266882264 266887767 5503 True 2652.333333 4743 92.769667 1 5594 3 chr7D.!!$R3 5593
2 TraesCS7B01G175600 chr7D 266875605 266876156 551 True 887.000000 887 95.848000 5594 6140 1 chr7D.!!$R1 546
3 TraesCS7B01G175600 chr7A 292819608 292821127 1519 True 2198.000000 2198 92.502000 4566 6140 1 chr7A.!!$R1 1574
4 TraesCS7B01G175600 chr7A 292826196 292832691 6495 True 1896.000000 4139 91.282333 656 4570 3 chr7A.!!$R3 3914
5 TraesCS7B01G175600 chr3B 201484966 201488486 3520 False 342.000000 342 91.566000 3802 4049 2 chr3B.!!$F1 247

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
302 363 0.040514 TTCACGCAGGTGCATTTTCG 60.041 50.000 2.33 0.00 44.03 3.46 F
605 666 0.457443 TGTGCTGGCTCAGTATCTCG 59.543 55.000 4.45 0.00 33.43 4.04 F
606 667 0.741326 GTGCTGGCTCAGTATCTCGA 59.259 55.000 4.45 0.00 33.43 4.04 F
1268 4109 0.767375 ACTCATCCACTTGTGGCAGT 59.233 50.000 14.49 12.37 0.00 4.40 F
1496 4337 0.870307 CGCGAACCCTACTCAATCCG 60.870 60.000 0.00 0.00 0.00 4.18 F
2845 5710 1.072331 AGCCTTGTACCACTTCACCAG 59.928 52.381 0.00 0.00 0.00 4.00 F
3659 6526 0.041090 ATTCAGGGGCCGTTTGGAAT 59.959 50.000 0.00 0.00 37.49 3.01 F
3780 6647 0.036388 GCAGAGGATTCCCGAACACA 60.036 55.000 0.00 0.00 37.58 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1556 4398 0.101399 CGTAAGCAGCGAGACCAGAT 59.899 55.000 0.00 0.0 0.00 2.90 R
1614 4456 0.643820 GGCTATTGTACACGCACGAC 59.356 55.000 11.64 0.0 0.00 4.34 R
1827 4670 2.907892 AGAGACAAGATGAACCCCTCA 58.092 47.619 0.00 0.0 38.81 3.86 R
3168 6033 0.690762 CTCCCTCCGTCCCAAAGAAA 59.309 55.000 0.00 0.0 0.00 2.52 R
3171 6036 1.207329 CTTACTCCCTCCGTCCCAAAG 59.793 57.143 0.00 0.0 0.00 2.77 R
3761 6628 0.036388 TGTGTTCGGGAATCCTCTGC 60.036 55.000 0.00 0.0 0.00 4.26 R
4633 10798 0.469705 TGGTGGCCATCTGCAAACTT 60.470 50.000 18.94 0.0 43.89 2.66 R
5751 11937 1.003545 AGCTGCACATAATAAAGCGCG 60.004 47.619 0.00 0.0 38.90 6.86 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
30 31 1.404035 GAAGAGGACCGAGAGAGAAGC 59.596 57.143 0.00 0.00 0.00 3.86
31 32 0.623723 AGAGGACCGAGAGAGAAGCT 59.376 55.000 0.00 0.00 0.00 3.74
40 41 3.826157 CCGAGAGAGAAGCTGAGGAATAT 59.174 47.826 0.00 0.00 0.00 1.28
41 42 4.280677 CCGAGAGAGAAGCTGAGGAATATT 59.719 45.833 0.00 0.00 0.00 1.28
42 43 5.475220 CCGAGAGAGAAGCTGAGGAATATTA 59.525 44.000 0.00 0.00 0.00 0.98
49 50 9.825109 AGAGAAGCTGAGGAATATTAACTAAAC 57.175 33.333 0.00 0.00 0.00 2.01
93 94 5.644902 TGTTTCTACAACACACATGTACG 57.355 39.130 0.00 0.00 38.45 3.67
103 104 6.073980 ACAACACACATGTACGAATGTTCTAC 60.074 38.462 0.00 0.00 38.75 2.59
106 107 6.704493 ACACACATGTACGAATGTTCTACTTT 59.296 34.615 0.00 0.00 38.75 2.66
128 129 3.867493 TCATGCAGTTTCGCTAAGAGATG 59.133 43.478 0.00 0.00 0.00 2.90
141 142 7.041721 TCGCTAAGAGATGACATTTAATGTGT 58.958 34.615 15.83 3.88 45.03 3.72
192 193 6.970484 TCTAAAAAGGTCATCTTTGAAGCAC 58.030 36.000 0.00 0.00 44.30 4.40
195 197 5.859205 AAAGGTCATCTTTGAAGCACTTT 57.141 34.783 0.00 0.00 43.50 2.66
200 202 0.667993 TCTTTGAAGCACTTTGGCCG 59.332 50.000 0.00 0.00 0.00 6.13
202 204 2.362329 TTTGAAGCACTTTGGCCGCC 62.362 55.000 1.04 1.04 0.00 6.13
288 349 5.907197 AGAACACTCAAATACTGTTCACG 57.093 39.130 11.27 0.00 44.17 4.35
289 350 4.211374 AGAACACTCAAATACTGTTCACGC 59.789 41.667 11.27 0.00 44.17 5.34
302 363 0.040514 TTCACGCAGGTGCATTTTCG 60.041 50.000 2.33 0.00 44.03 3.46
320 381 1.376466 GTTTGGGAGCAGGAGAGCA 59.624 57.895 0.00 0.00 36.85 4.26
347 408 2.364970 GGAGAGAGAGTGGACATGATGG 59.635 54.545 0.00 0.00 0.00 3.51
350 411 3.705579 AGAGAGAGTGGACATGATGGAAG 59.294 47.826 0.00 0.00 0.00 3.46
351 412 2.170187 AGAGAGTGGACATGATGGAAGC 59.830 50.000 0.00 0.00 0.00 3.86
359 420 1.202734 ACATGATGGAAGCGGATGAGG 60.203 52.381 0.00 0.00 0.00 3.86
370 431 1.721664 CGGATGAGGGCACATGCAAG 61.722 60.000 6.15 0.00 44.36 4.01
391 452 5.679734 AGCTCACTATTATTCCAAATGCG 57.320 39.130 0.00 0.00 0.00 4.73
393 454 4.275936 GCTCACTATTATTCCAAATGCGGT 59.724 41.667 0.00 0.00 0.00 5.68
403 464 3.334691 TCCAAATGCGGTGAACTAAGAG 58.665 45.455 0.00 0.00 0.00 2.85
409 470 2.561419 TGCGGTGAACTAAGAGTAGCTT 59.439 45.455 0.00 0.00 40.68 3.74
427 488 7.459234 AGTAGCTTAAATGGTTAGGTTCTTGT 58.541 34.615 0.00 0.00 0.00 3.16
432 493 4.447138 AATGGTTAGGTTCTTGTGGTGA 57.553 40.909 0.00 0.00 0.00 4.02
438 499 5.048713 GGTTAGGTTCTTGTGGTGAAATCAG 60.049 44.000 0.00 0.00 0.00 2.90
439 500 2.887152 AGGTTCTTGTGGTGAAATCAGC 59.113 45.455 5.68 5.68 44.06 4.26
440 501 2.887152 GGTTCTTGTGGTGAAATCAGCT 59.113 45.455 13.17 0.00 44.12 4.24
443 504 3.141398 TCTTGTGGTGAAATCAGCTCAC 58.859 45.455 14.67 9.59 44.20 3.51
448 509 4.040339 TGTGGTGAAATCAGCTCACTAGAA 59.960 41.667 13.17 0.00 44.12 2.10
470 531 3.599730 TCATGTCCTAGACTTGCACTG 57.400 47.619 5.90 0.00 37.54 3.66
471 532 2.234661 TCATGTCCTAGACTTGCACTGG 59.765 50.000 5.90 0.00 37.54 4.00
476 537 1.072331 CCTAGACTTGCACTGGTGGTT 59.928 52.381 2.84 0.00 0.00 3.67
478 539 1.103398 AGACTTGCACTGGTGGTTGC 61.103 55.000 2.84 0.00 0.00 4.17
570 631 0.969149 AGGCGTCTGTGATGACTTCA 59.031 50.000 0.00 0.00 32.18 3.02
572 633 2.027745 AGGCGTCTGTGATGACTTCATT 60.028 45.455 0.00 0.00 32.18 2.57
576 637 5.065218 GGCGTCTGTGATGACTTCATTAATT 59.935 40.000 0.00 0.00 36.54 1.40
605 666 0.457443 TGTGCTGGCTCAGTATCTCG 59.543 55.000 4.45 0.00 33.43 4.04
606 667 0.741326 GTGCTGGCTCAGTATCTCGA 59.259 55.000 4.45 0.00 33.43 4.04
609 670 3.004839 GTGCTGGCTCAGTATCTCGAATA 59.995 47.826 4.45 0.00 33.43 1.75
635 696 9.700831 ATGCTCATAGGAGTATATGTATGTACA 57.299 33.333 6.17 0.00 43.55 2.90
670 731 2.515926 TCTAATCCGAGCTCATGTGC 57.484 50.000 15.40 11.79 0.00 4.57
691 752 3.255725 CGCTCGGGTGAACAGTAAAATA 58.744 45.455 0.00 0.00 0.00 1.40
695 756 5.594724 TCGGGTGAACAGTAAAATAAACG 57.405 39.130 0.00 0.00 0.00 3.60
809 870 6.421377 TTCATCATGAAACGATACTTGTGG 57.579 37.500 0.00 0.00 32.71 4.17
850 912 5.990996 ACAAAATCGATGCTCCAAAACATTT 59.009 32.000 0.00 0.00 0.00 2.32
854 920 4.797471 TCGATGCTCCAAAACATTTCAAG 58.203 39.130 0.00 0.00 0.00 3.02
1021 1124 9.191995 GATAAATGAGGAAGCGAAAAAGAAAAA 57.808 29.630 0.00 0.00 0.00 1.94
1022 1125 7.468922 AAATGAGGAAGCGAAAAAGAAAAAG 57.531 32.000 0.00 0.00 0.00 2.27
1268 4109 0.767375 ACTCATCCACTTGTGGCAGT 59.233 50.000 14.49 12.37 0.00 4.40
1288 4129 3.049674 CCAATCGCCACGTGCACT 61.050 61.111 16.19 0.00 41.33 4.40
1496 4337 0.870307 CGCGAACCCTACTCAATCCG 60.870 60.000 0.00 0.00 0.00 4.18
1556 4398 3.678806 CGAGTAGCTTGCTTGAATACCCA 60.679 47.826 0.00 0.00 0.00 4.51
1614 4456 3.823421 CCGTGTACTGCGTTCGCG 61.823 66.667 12.35 0.00 44.73 5.87
1714 4557 3.924114 TTTGTTTCAGTCTGTCTCCCA 57.076 42.857 0.00 0.00 0.00 4.37
1969 4813 6.757897 TTTATCTTTGTGCGATTGAGGATT 57.242 33.333 0.00 0.00 0.00 3.01
1971 4815 3.411446 TCTTTGTGCGATTGAGGATTGT 58.589 40.909 0.00 0.00 0.00 2.71
2248 5092 7.115805 GTGTACATTTAATCAGTTCAGTGACGA 59.884 37.037 0.00 0.00 0.00 4.20
2262 5106 5.778862 TCAGTGACGACATAAGAATTGACA 58.221 37.500 0.00 0.00 0.00 3.58
2631 5477 3.433957 TGCAATCTTGACATTTTGCATGC 59.566 39.130 11.82 11.82 46.76 4.06
2699 5545 7.504926 TGTTTATAGTCTTACCCTTGACCAT 57.495 36.000 0.00 0.00 34.02 3.55
2832 5697 2.919602 TCTGGAAATCCCTTAGCCTTGT 59.080 45.455 0.00 0.00 35.38 3.16
2833 5698 4.108570 TCTGGAAATCCCTTAGCCTTGTA 58.891 43.478 0.00 0.00 35.38 2.41
2834 5699 4.080526 TCTGGAAATCCCTTAGCCTTGTAC 60.081 45.833 0.00 0.00 35.38 2.90
2835 5700 3.053917 TGGAAATCCCTTAGCCTTGTACC 60.054 47.826 0.00 0.00 35.38 3.34
2836 5701 3.053917 GGAAATCCCTTAGCCTTGTACCA 60.054 47.826 0.00 0.00 0.00 3.25
2837 5702 3.646736 AATCCCTTAGCCTTGTACCAC 57.353 47.619 0.00 0.00 0.00 4.16
2838 5703 2.337359 TCCCTTAGCCTTGTACCACT 57.663 50.000 0.00 0.00 0.00 4.00
2839 5704 2.627933 TCCCTTAGCCTTGTACCACTT 58.372 47.619 0.00 0.00 0.00 3.16
2840 5705 2.570302 TCCCTTAGCCTTGTACCACTTC 59.430 50.000 0.00 0.00 0.00 3.01
2841 5706 2.304761 CCCTTAGCCTTGTACCACTTCA 59.695 50.000 0.00 0.00 0.00 3.02
2842 5707 3.335579 CCTTAGCCTTGTACCACTTCAC 58.664 50.000 0.00 0.00 0.00 3.18
2843 5708 3.335579 CTTAGCCTTGTACCACTTCACC 58.664 50.000 0.00 0.00 0.00 4.02
2844 5709 1.136828 AGCCTTGTACCACTTCACCA 58.863 50.000 0.00 0.00 0.00 4.17
2845 5710 1.072331 AGCCTTGTACCACTTCACCAG 59.928 52.381 0.00 0.00 0.00 4.00
2846 5711 1.523758 CCTTGTACCACTTCACCAGC 58.476 55.000 0.00 0.00 0.00 4.85
2847 5712 1.523758 CTTGTACCACTTCACCAGCC 58.476 55.000 0.00 0.00 0.00 4.85
2848 5713 1.072331 CTTGTACCACTTCACCAGCCT 59.928 52.381 0.00 0.00 0.00 4.58
2849 5714 1.136828 TGTACCACTTCACCAGCCTT 58.863 50.000 0.00 0.00 0.00 4.35
2850 5715 1.202758 TGTACCACTTCACCAGCCTTG 60.203 52.381 0.00 0.00 0.00 3.61
3023 5888 7.775120 AGATGTTGGATAAATTGTTTAGGCAG 58.225 34.615 0.00 0.00 0.00 4.85
3104 5969 5.566469 CCATTTTACAAAGTACTCCCTCCA 58.434 41.667 0.00 0.00 0.00 3.86
3266 6132 3.499918 GTGGTCAGCACAATATATCTGGC 59.500 47.826 0.95 0.00 0.00 4.85
3456 6323 4.428209 CTTGCTCGTCAGTATCATGAGTT 58.572 43.478 0.09 0.00 30.58 3.01
3603 6470 6.445451 ACCATCATCTTAGTGGCTAATGAT 57.555 37.500 0.00 0.00 36.47 2.45
3608 6475 6.914259 TCATCTTAGTGGCTAATGATCGTAG 58.086 40.000 0.00 0.00 0.00 3.51
3648 6515 9.495572 GTCTATGTATTTCTAGAAATTCAGGGG 57.504 37.037 30.39 22.72 39.97 4.79
3649 6516 8.157476 TCTATGTATTTCTAGAAATTCAGGGGC 58.843 37.037 30.39 14.91 39.97 5.80
3650 6517 5.445964 TGTATTTCTAGAAATTCAGGGGCC 58.554 41.667 30.39 12.35 40.99 5.80
3651 6518 2.710096 TTCTAGAAATTCAGGGGCCG 57.290 50.000 1.68 0.00 0.00 6.13
3652 6519 1.580059 TCTAGAAATTCAGGGGCCGT 58.420 50.000 0.00 0.00 0.00 5.68
3653 6520 1.913419 TCTAGAAATTCAGGGGCCGTT 59.087 47.619 0.00 0.00 0.00 4.44
3654 6521 2.307686 TCTAGAAATTCAGGGGCCGTTT 59.692 45.455 0.00 0.00 0.00 3.60
3655 6522 1.256812 AGAAATTCAGGGGCCGTTTG 58.743 50.000 0.00 0.00 0.00 2.93
3656 6523 0.246360 GAAATTCAGGGGCCGTTTGG 59.754 55.000 0.00 0.00 38.77 3.28
3657 6524 0.178947 AAATTCAGGGGCCGTTTGGA 60.179 50.000 0.00 0.00 37.49 3.53
3658 6525 0.178947 AATTCAGGGGCCGTTTGGAA 60.179 50.000 0.00 0.00 37.49 3.53
3659 6526 0.041090 ATTCAGGGGCCGTTTGGAAT 59.959 50.000 0.00 0.00 37.49 3.01
3660 6527 0.610785 TTCAGGGGCCGTTTGGAATC 60.611 55.000 0.00 0.00 37.49 2.52
3661 6528 1.304052 CAGGGGCCGTTTGGAATCA 60.304 57.895 0.00 0.00 37.49 2.57
3662 6529 1.304134 AGGGGCCGTTTGGAATCAC 60.304 57.895 0.00 0.00 37.49 3.06
3663 6530 1.304134 GGGGCCGTTTGGAATCACT 60.304 57.895 0.00 0.00 37.49 3.41
3664 6531 1.313091 GGGGCCGTTTGGAATCACTC 61.313 60.000 0.00 0.00 37.49 3.51
3665 6532 1.313091 GGGCCGTTTGGAATCACTCC 61.313 60.000 0.00 0.00 45.64 3.85
3674 6541 2.961526 GGAATCACTCCGCTCTGTAA 57.038 50.000 0.00 0.00 33.37 2.41
3675 6542 2.541556 GGAATCACTCCGCTCTGTAAC 58.458 52.381 0.00 0.00 33.37 2.50
3676 6543 2.166664 GGAATCACTCCGCTCTGTAACT 59.833 50.000 0.00 0.00 33.37 2.24
3677 6544 3.440228 GAATCACTCCGCTCTGTAACTC 58.560 50.000 0.00 0.00 0.00 3.01
3678 6545 1.174783 TCACTCCGCTCTGTAACTCC 58.825 55.000 0.00 0.00 0.00 3.85
3679 6546 0.179161 CACTCCGCTCTGTAACTCCG 60.179 60.000 0.00 0.00 0.00 4.63
3680 6547 1.226717 CTCCGCTCTGTAACTCCGC 60.227 63.158 0.00 0.00 0.00 5.54
3681 6548 2.202756 CCGCTCTGTAACTCCGCC 60.203 66.667 0.00 0.00 0.00 6.13
3682 6549 2.579787 CGCTCTGTAACTCCGCCG 60.580 66.667 0.00 0.00 0.00 6.46
3683 6550 2.886124 GCTCTGTAACTCCGCCGC 60.886 66.667 0.00 0.00 0.00 6.53
3684 6551 2.579787 CTCTGTAACTCCGCCGCG 60.580 66.667 5.59 5.59 0.00 6.46
3709 6576 4.895854 GCGGCATGCAGTTCAATT 57.104 50.000 21.36 0.00 45.45 2.32
3710 6577 3.126729 GCGGCATGCAGTTCAATTT 57.873 47.368 21.36 0.00 45.45 1.82
3711 6578 1.431496 GCGGCATGCAGTTCAATTTT 58.569 45.000 21.36 0.00 45.45 1.82
3712 6579 2.605030 GCGGCATGCAGTTCAATTTTA 58.395 42.857 21.36 0.00 45.45 1.52
3713 6580 2.599973 GCGGCATGCAGTTCAATTTTAG 59.400 45.455 21.36 0.00 45.45 1.85
3714 6581 2.599973 CGGCATGCAGTTCAATTTTAGC 59.400 45.455 21.36 0.00 0.00 3.09
3715 6582 2.599973 GGCATGCAGTTCAATTTTAGCG 59.400 45.455 21.36 0.00 0.00 4.26
3716 6583 3.500982 GCATGCAGTTCAATTTTAGCGA 58.499 40.909 14.21 0.00 0.00 4.93
3717 6584 3.545078 GCATGCAGTTCAATTTTAGCGAG 59.455 43.478 14.21 0.00 0.00 5.03
3718 6585 3.201726 TGCAGTTCAATTTTAGCGAGC 57.798 42.857 0.00 0.00 0.00 5.03
3719 6586 2.169179 GCAGTTCAATTTTAGCGAGCG 58.831 47.619 0.00 0.00 0.00 5.03
3720 6587 2.774007 CAGTTCAATTTTAGCGAGCGG 58.226 47.619 0.00 0.00 0.00 5.52
3721 6588 1.130561 AGTTCAATTTTAGCGAGCGGC 59.869 47.619 0.00 0.00 44.05 6.53
3762 6629 4.219999 GCTCTCTGGCGGAGGAGC 62.220 72.222 22.67 22.79 42.10 4.70
3763 6630 2.757508 CTCTCTGGCGGAGGAGCA 60.758 66.667 22.67 2.89 42.10 4.26
3764 6631 2.757508 TCTCTGGCGGAGGAGCAG 60.758 66.667 22.67 0.00 42.10 4.24
3765 6632 2.757508 CTCTGGCGGAGGAGCAGA 60.758 66.667 15.82 0.00 38.35 4.26
3766 6633 2.757508 TCTGGCGGAGGAGCAGAG 60.758 66.667 0.00 0.00 39.27 3.35
3767 6634 3.847602 CTGGCGGAGGAGCAGAGG 61.848 72.222 0.00 0.00 39.27 3.69
3768 6635 4.382541 TGGCGGAGGAGCAGAGGA 62.383 66.667 0.00 0.00 39.27 3.71
3769 6636 2.841988 GGCGGAGGAGCAGAGGAT 60.842 66.667 0.00 0.00 39.27 3.24
3770 6637 2.439104 GGCGGAGGAGCAGAGGATT 61.439 63.158 0.00 0.00 39.27 3.01
3771 6638 1.068921 GCGGAGGAGCAGAGGATTC 59.931 63.158 0.00 0.00 37.05 2.52
3772 6639 1.745264 CGGAGGAGCAGAGGATTCC 59.255 63.158 0.00 0.00 0.00 3.01
3773 6640 1.753368 CGGAGGAGCAGAGGATTCCC 61.753 65.000 0.00 0.00 0.00 3.97
3774 6641 1.745264 GAGGAGCAGAGGATTCCCG 59.255 63.158 0.00 0.00 37.58 5.14
3775 6642 0.757188 GAGGAGCAGAGGATTCCCGA 60.757 60.000 0.00 0.00 37.58 5.14
3776 6643 0.325671 AGGAGCAGAGGATTCCCGAA 60.326 55.000 0.00 0.00 37.58 4.30
3777 6644 0.179070 GGAGCAGAGGATTCCCGAAC 60.179 60.000 0.00 0.00 37.58 3.95
3778 6645 0.537188 GAGCAGAGGATTCCCGAACA 59.463 55.000 0.00 0.00 37.58 3.18
3779 6646 0.250513 AGCAGAGGATTCCCGAACAC 59.749 55.000 0.00 0.00 37.58 3.32
3780 6647 0.036388 GCAGAGGATTCCCGAACACA 60.036 55.000 0.00 0.00 37.58 3.72
3781 6648 2.009042 GCAGAGGATTCCCGAACACAG 61.009 57.143 0.00 0.00 37.58 3.66
3782 6649 0.250513 AGAGGATTCCCGAACACAGC 59.749 55.000 0.00 0.00 37.58 4.40
3783 6650 0.744771 GAGGATTCCCGAACACAGCC 60.745 60.000 0.00 0.00 37.58 4.85
3784 6651 1.201429 AGGATTCCCGAACACAGCCT 61.201 55.000 0.00 0.00 37.58 4.58
3785 6652 0.744771 GGATTCCCGAACACAGCCTC 60.745 60.000 0.00 0.00 0.00 4.70
3786 6653 0.036388 GATTCCCGAACACAGCCTCA 60.036 55.000 0.00 0.00 0.00 3.86
4017 10157 4.880120 TCTTCCGTAGTTATGATGTCTCGT 59.120 41.667 0.00 0.00 0.00 4.18
4049 10189 9.341899 GCAACAAAAACTTGGTATATTGACTAG 57.658 33.333 0.00 0.00 0.00 2.57
4050 10190 9.840427 CAACAAAAACTTGGTATATTGACTAGG 57.160 33.333 0.00 0.00 0.00 3.02
4051 10191 8.051901 ACAAAAACTTGGTATATTGACTAGGC 57.948 34.615 0.00 0.00 0.00 3.93
4052 10192 7.888546 ACAAAAACTTGGTATATTGACTAGGCT 59.111 33.333 0.00 0.00 0.00 4.58
4053 10193 9.391006 CAAAAACTTGGTATATTGACTAGGCTA 57.609 33.333 0.00 0.00 0.00 3.93
4055 10195 7.916077 AACTTGGTATATTGACTAGGCTACT 57.084 36.000 0.00 0.00 0.00 2.57
4078 10235 1.509644 AAGCTCACGTGCCACACATG 61.510 55.000 11.67 0.00 41.41 3.21
4082 10239 3.043713 ACGTGCCACACATGAGCG 61.044 61.111 0.00 0.00 38.75 5.03
4181 10339 1.302366 CTGTTTGTGTGCAGCAGAGA 58.698 50.000 0.00 0.00 33.99 3.10
4205 10363 1.406614 GGACTAGCAGCAGCATTCAGT 60.407 52.381 3.17 0.57 45.49 3.41
4280 10438 1.932156 TATGTGATGGTGGGGTGGCC 61.932 60.000 0.00 0.00 0.00 5.36
4291 10449 4.767255 GGTGGCCTCGACAGCTGG 62.767 72.222 19.93 0.00 35.99 4.85
4407 10572 4.222810 GCCCCTTGGTTCTAATGAAATTGT 59.777 41.667 0.00 0.00 36.99 2.71
4633 10798 6.723298 TTTCCTTGTGGCATTTCTTTCTTA 57.277 33.333 0.00 0.00 0.00 2.10
4666 10831 2.420687 GGCCACCATGAGAAGTTCCTAG 60.421 54.545 0.00 0.00 0.00 3.02
4667 10832 2.237392 GCCACCATGAGAAGTTCCTAGT 59.763 50.000 0.00 0.00 0.00 2.57
4668 10833 3.307762 GCCACCATGAGAAGTTCCTAGTT 60.308 47.826 0.00 0.00 0.00 2.24
4669 10834 4.508662 CCACCATGAGAAGTTCCTAGTTC 58.491 47.826 0.00 0.00 34.51 3.01
4670 10835 4.508662 CACCATGAGAAGTTCCTAGTTCC 58.491 47.826 0.00 0.00 34.79 3.62
4671 10836 4.223923 CACCATGAGAAGTTCCTAGTTCCT 59.776 45.833 0.00 0.00 34.79 3.36
4672 10837 5.422331 CACCATGAGAAGTTCCTAGTTCCTA 59.578 44.000 0.00 0.00 34.79 2.94
4731 10896 1.333636 AAGCTAGCCAGGATCACGCT 61.334 55.000 12.13 0.05 36.63 5.07
4757 10922 6.624352 TTTCTTAATGGAGTGATATGCAGC 57.376 37.500 0.00 0.00 0.00 5.25
4767 10932 1.415289 TGATATGCAGCTCTCCTGTGG 59.585 52.381 0.00 0.00 43.71 4.17
4866 11043 5.933790 TGAAACCCATAAAATCTCGAAACG 58.066 37.500 0.00 0.00 0.00 3.60
5417 11595 3.678548 GTCCTTTGTCGTGAGGATAACAC 59.321 47.826 0.00 0.00 43.54 3.32
5489 11668 6.469782 AGAGGATTGAAAAAGTTCTTTGCA 57.530 33.333 0.00 0.00 34.60 4.08
5490 11669 6.877236 AGAGGATTGAAAAAGTTCTTTGCAA 58.123 32.000 0.00 0.00 34.60 4.08
5491 11670 7.330262 AGAGGATTGAAAAAGTTCTTTGCAAA 58.670 30.769 12.14 12.14 34.60 3.68
5492 11671 7.823799 AGAGGATTGAAAAAGTTCTTTGCAAAA 59.176 29.630 13.84 1.75 34.60 2.44
5493 11672 8.334263 AGGATTGAAAAAGTTCTTTGCAAAAA 57.666 26.923 13.84 7.86 34.60 1.94
5574 11753 6.266168 TCAACCGATTTAATTTGATGTGCT 57.734 33.333 0.00 0.00 0.00 4.40
5575 11754 7.384439 TCAACCGATTTAATTTGATGTGCTA 57.616 32.000 0.00 0.00 0.00 3.49
5680 11859 3.520290 TGCTATTTACAGGACCACTCG 57.480 47.619 0.00 0.00 0.00 4.18
5691 11870 4.142138 ACAGGACCACTCGATTCTTGTATC 60.142 45.833 0.00 0.00 28.58 2.24
5717 11903 6.513393 GCAGTTGCACTTTTAATCTACACTGT 60.513 38.462 7.83 0.00 41.59 3.55
5750 11936 7.116233 CCAACAACAATAAAAATCTACACTGGC 59.884 37.037 0.00 0.00 0.00 4.85
5751 11937 6.687604 ACAACAATAAAAATCTACACTGGCC 58.312 36.000 0.00 0.00 0.00 5.36
5862 12051 5.585820 TTGTTTGTAAAAGTTGAGACCCC 57.414 39.130 0.00 0.00 0.00 4.95
5867 12056 4.585879 TGTAAAAGTTGAGACCCCTATGC 58.414 43.478 0.00 0.00 0.00 3.14
5870 12059 4.388577 AAAGTTGAGACCCCTATGCTTT 57.611 40.909 0.00 0.00 0.00 3.51
5995 12184 3.451141 TGAAATGGTTGTTGCAAGGAC 57.549 42.857 0.00 0.92 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 0.247460 TCTCGGTCCTCTTCGTCGTA 59.753 55.000 0.00 0.00 0.00 3.43
10 11 1.404035 GCTTCTCTCTCGGTCCTCTTC 59.596 57.143 0.00 0.00 0.00 2.87
74 75 5.986741 ACATTCGTACATGTGTGTTGTAGAA 59.013 36.000 9.11 3.07 39.77 2.10
76 77 5.839262 ACATTCGTACATGTGTGTTGTAG 57.161 39.130 9.11 0.00 39.77 2.74
77 78 5.986741 AGAACATTCGTACATGTGTGTTGTA 59.013 36.000 9.11 0.00 37.46 2.41
93 94 6.521133 CGAAACTGCATGAAAGTAGAACATTC 59.479 38.462 0.00 0.00 0.00 2.67
103 104 4.389992 TCTCTTAGCGAAACTGCATGAAAG 59.610 41.667 0.00 0.00 37.31 2.62
106 107 3.592898 TCTCTTAGCGAAACTGCATGA 57.407 42.857 0.00 0.00 37.31 3.07
192 193 0.179086 AACAAAACAGGCGGCCAAAG 60.179 50.000 23.09 12.99 0.00 2.77
195 197 0.250513 AAAAACAAAACAGGCGGCCA 59.749 45.000 23.09 0.00 0.00 5.36
277 280 0.034756 TGCACCTGCGTGAACAGTAT 59.965 50.000 0.00 0.00 43.14 2.12
288 349 1.139163 CCAAACGAAAATGCACCTGC 58.861 50.000 0.00 0.00 42.50 4.85
289 350 1.339610 TCCCAAACGAAAATGCACCTG 59.660 47.619 0.00 0.00 0.00 4.00
302 363 0.957888 GTGCTCTCCTGCTCCCAAAC 60.958 60.000 0.00 0.00 0.00 2.93
320 381 2.164338 GTCCACTCTCTCTCCGAAAGT 58.836 52.381 0.00 0.00 0.00 2.66
338 399 2.141517 CTCATCCGCTTCCATCATGTC 58.858 52.381 0.00 0.00 0.00 3.06
347 408 1.153086 ATGTGCCCTCATCCGCTTC 60.153 57.895 0.00 0.00 0.00 3.86
350 411 3.589881 GCATGTGCCCTCATCCGC 61.590 66.667 0.00 0.00 34.31 5.54
351 412 1.721664 CTTGCATGTGCCCTCATCCG 61.722 60.000 2.07 0.00 41.18 4.18
359 420 1.386533 ATAGTGAGCTTGCATGTGCC 58.613 50.000 2.07 0.00 41.18 5.01
370 431 4.275936 ACCGCATTTGGAATAATAGTGAGC 59.724 41.667 0.00 0.00 0.00 4.26
391 452 7.104290 ACCATTTAAGCTACTCTTAGTTCACC 58.896 38.462 0.00 0.00 38.41 4.02
393 454 9.871238 CTAACCATTTAAGCTACTCTTAGTTCA 57.129 33.333 0.00 0.00 38.41 3.18
403 464 7.361799 CCACAAGAACCTAACCATTTAAGCTAC 60.362 40.741 0.00 0.00 0.00 3.58
409 470 5.942961 TCACCACAAGAACCTAACCATTTA 58.057 37.500 0.00 0.00 0.00 1.40
427 488 4.890158 TTCTAGTGAGCTGATTTCACCA 57.110 40.909 0.00 0.00 44.68 4.17
432 493 6.541641 GGACATGAATTCTAGTGAGCTGATTT 59.458 38.462 7.05 0.00 0.00 2.17
438 499 6.040391 AGTCTAGGACATGAATTCTAGTGAGC 59.960 42.308 7.05 2.30 34.60 4.26
439 500 7.581213 AGTCTAGGACATGAATTCTAGTGAG 57.419 40.000 7.05 3.25 34.60 3.51
440 501 7.631594 GCAAGTCTAGGACATGAATTCTAGTGA 60.632 40.741 7.05 0.00 33.78 3.41
443 504 6.478344 GTGCAAGTCTAGGACATGAATTCTAG 59.522 42.308 7.05 5.06 33.78 2.43
448 509 4.511527 CAGTGCAAGTCTAGGACATGAAT 58.488 43.478 0.00 0.00 33.78 2.57
485 546 5.413499 CCCGAAGACCTAAAGTAAATTCGA 58.587 41.667 6.04 0.00 39.52 3.71
486 547 4.033702 GCCCGAAGACCTAAAGTAAATTCG 59.966 45.833 0.00 0.00 38.11 3.34
505 566 3.853330 CTGAACGCACATCGCCCG 61.853 66.667 0.00 0.00 43.23 6.13
506 567 4.166011 GCTGAACGCACATCGCCC 62.166 66.667 0.00 0.00 43.23 6.13
548 609 0.109086 AGTCATCACAGACGCCTTCG 60.109 55.000 0.00 0.00 43.24 3.79
570 631 7.567458 AGCCAGCACAATATTTTGGAATTAAT 58.433 30.769 3.87 0.00 37.15 1.40
572 633 6.154192 TGAGCCAGCACAATATTTTGGAATTA 59.846 34.615 3.87 0.00 37.15 1.40
576 637 3.429492 TGAGCCAGCACAATATTTTGGA 58.571 40.909 3.87 0.00 37.15 3.53
588 649 1.474330 TTCGAGATACTGAGCCAGCA 58.526 50.000 2.50 0.00 34.37 4.41
591 652 3.829026 AGCATATTCGAGATACTGAGCCA 59.171 43.478 0.00 0.00 0.00 4.75
609 670 9.700831 TGTACATACATATACTCCTATGAGCAT 57.299 33.333 0.00 0.00 42.74 3.79
625 686 4.599041 ACCACTTTGGCATGTACATACAT 58.401 39.130 8.32 0.00 43.34 2.29
627 688 4.217550 ACAACCACTTTGGCATGTACATAC 59.782 41.667 8.32 2.21 42.67 2.39
632 693 3.561143 AGAACAACCACTTTGGCATGTA 58.439 40.909 5.05 0.00 42.67 2.29
635 696 4.220602 GGATTAGAACAACCACTTTGGCAT 59.779 41.667 0.00 0.00 42.67 4.40
670 731 1.504359 TTTTACTGTTCACCCGAGCG 58.496 50.000 0.00 0.00 0.00 5.03
766 827 9.932207 TGATGAAATTTCACAAGCTATCAAAAT 57.068 25.926 22.71 2.03 40.49 1.82
780 841 9.558648 CAAGTATCGTTTCATGATGAAATTTCA 57.441 29.630 22.52 22.52 46.55 2.69
803 864 2.285827 TTTGCCGTGTTTTCCACAAG 57.714 45.000 0.00 0.00 44.78 3.16
805 866 2.743636 TTTTTGCCGTGTTTTCCACA 57.256 40.000 0.00 0.00 44.78 4.17
834 896 5.291971 ACACTTGAAATGTTTTGGAGCATC 58.708 37.500 0.00 0.00 0.00 3.91
838 900 7.543172 CCATATGACACTTGAAATGTTTTGGAG 59.457 37.037 3.65 0.00 0.00 3.86
850 912 7.575532 GCTTTTTCATCACCATATGACACTTGA 60.576 37.037 3.65 0.00 41.24 3.02
854 920 6.199937 AGCTTTTTCATCACCATATGACAC 57.800 37.500 3.65 0.00 41.24 3.67
980 1078 8.170061 TCCTCATTTATCTTCCTTCCTTCAAAA 58.830 33.333 0.00 0.00 0.00 2.44
1001 1104 5.828299 TCTTTTTCTTTTTCGCTTCCTCA 57.172 34.783 0.00 0.00 0.00 3.86
1021 1124 4.513318 CGAAGCTTCTCTTCCTGTTTTTCT 59.487 41.667 23.50 0.00 46.60 2.52
1022 1125 4.777823 CGAAGCTTCTCTTCCTGTTTTTC 58.222 43.478 23.50 0.00 46.60 2.29
1104 3939 0.249280 TTGTGAAGCGAGTGAGCGAA 60.249 50.000 0.00 0.00 43.00 4.70
1268 4109 3.047280 GCACGTGGCGATTGGTGA 61.047 61.111 18.88 0.00 32.23 4.02
1556 4398 0.101399 CGTAAGCAGCGAGACCAGAT 59.899 55.000 0.00 0.00 0.00 2.90
1614 4456 0.643820 GGCTATTGTACACGCACGAC 59.356 55.000 11.64 0.00 0.00 4.34
1714 4557 6.322201 ACCAAAATGATGAGAACAAGACAACT 59.678 34.615 0.00 0.00 0.00 3.16
1824 4667 4.006319 GAGACAAGATGAACCCCTCAAAG 58.994 47.826 0.00 0.00 37.67 2.77
1826 4669 3.251484 AGAGACAAGATGAACCCCTCAA 58.749 45.455 0.00 0.00 37.67 3.02
1827 4670 2.907892 AGAGACAAGATGAACCCCTCA 58.092 47.619 0.00 0.00 38.81 3.86
1828 4671 4.407296 ACATAGAGACAAGATGAACCCCTC 59.593 45.833 0.00 0.00 0.00 4.30
1953 4797 4.037327 TGAAAACAATCCTCAATCGCACAA 59.963 37.500 0.00 0.00 0.00 3.33
1969 4813 7.416890 CCAAAGTAAGGTGGTGTAATGAAAACA 60.417 37.037 0.00 0.00 0.00 2.83
1971 4815 6.461788 GCCAAAGTAAGGTGGTGTAATGAAAA 60.462 38.462 0.00 0.00 37.23 2.29
2037 4881 6.543465 TCATACATCAAGCACAGGAAATTAGG 59.457 38.462 0.00 0.00 0.00 2.69
2248 5092 7.160547 TGTGATGCATTGTCAATTCTTATGT 57.839 32.000 0.00 0.00 0.00 2.29
2262 5106 4.283337 TCCCTGAATTCATGTGATGCATT 58.717 39.130 8.96 0.00 35.19 3.56
2631 5477 9.170734 CATACAATTATGTAGATCAAGGATGGG 57.829 37.037 0.00 0.00 44.85 4.00
2699 5545 7.997803 TGGACACACCATATCATCAATTCATTA 59.002 33.333 0.00 0.00 44.64 1.90
2832 5697 1.429930 TCAAGGCTGGTGAAGTGGTA 58.570 50.000 0.00 0.00 0.00 3.25
2833 5698 0.773644 ATCAAGGCTGGTGAAGTGGT 59.226 50.000 0.00 0.00 0.00 4.16
2834 5699 1.915141 AATCAAGGCTGGTGAAGTGG 58.085 50.000 0.00 0.00 0.00 4.00
2835 5700 2.886523 TGAAATCAAGGCTGGTGAAGTG 59.113 45.455 0.00 0.00 0.00 3.16
2836 5701 3.228188 TGAAATCAAGGCTGGTGAAGT 57.772 42.857 0.00 0.00 0.00 3.01
2837 5702 4.796038 AATGAAATCAAGGCTGGTGAAG 57.204 40.909 0.00 0.00 0.00 3.02
2838 5703 6.662865 TTAAATGAAATCAAGGCTGGTGAA 57.337 33.333 0.00 0.00 0.00 3.18
2839 5704 6.041409 TGTTTAAATGAAATCAAGGCTGGTGA 59.959 34.615 0.00 0.00 0.00 4.02
2840 5705 6.222389 TGTTTAAATGAAATCAAGGCTGGTG 58.778 36.000 0.00 0.00 0.00 4.17
2841 5706 6.418057 TGTTTAAATGAAATCAAGGCTGGT 57.582 33.333 0.00 0.00 0.00 4.00
2842 5707 7.624764 GCATTGTTTAAATGAAATCAAGGCTGG 60.625 37.037 13.21 0.00 39.70 4.85
2843 5708 7.238571 GCATTGTTTAAATGAAATCAAGGCTG 58.761 34.615 13.21 1.30 39.70 4.85
2844 5709 6.372381 GGCATTGTTTAAATGAAATCAAGGCT 59.628 34.615 17.42 0.00 40.96 4.58
2845 5710 6.372381 AGGCATTGTTTAAATGAAATCAAGGC 59.628 34.615 12.47 12.47 40.74 4.35
2846 5711 7.910441 AGGCATTGTTTAAATGAAATCAAGG 57.090 32.000 2.33 0.00 0.00 3.61
2847 5712 7.747357 GCAAGGCATTGTTTAAATGAAATCAAG 59.253 33.333 13.30 0.00 38.76 3.02
2848 5713 7.228108 TGCAAGGCATTGTTTAAATGAAATCAA 59.772 29.630 13.30 0.00 38.76 2.57
2849 5714 6.709397 TGCAAGGCATTGTTTAAATGAAATCA 59.291 30.769 13.30 0.00 38.76 2.57
2850 5715 7.131498 TGCAAGGCATTGTTTAAATGAAATC 57.869 32.000 13.30 0.00 38.76 2.17
2958 5823 4.402829 ACAGAGCAAAGAGAGTGACTAGA 58.597 43.478 0.00 0.00 0.00 2.43
2997 5862 7.771183 TGCCTAAACAATTTATCCAACATCTC 58.229 34.615 0.00 0.00 0.00 2.75
3082 5947 6.318900 GGATGGAGGGAGTACTTTGTAAAATG 59.681 42.308 0.00 0.00 0.00 2.32
3104 5969 7.725844 AGAAAGTTGAGTCACTTATTTTGGGAT 59.274 33.333 0.00 0.00 35.87 3.85
3168 6033 0.690762 CTCCCTCCGTCCCAAAGAAA 59.309 55.000 0.00 0.00 0.00 2.52
3171 6036 1.207329 CTTACTCCCTCCGTCCCAAAG 59.793 57.143 0.00 0.00 0.00 2.77
3266 6132 4.044426 TCGAGTCATGAATAACAGCATCG 58.956 43.478 0.00 0.00 0.00 3.84
3456 6323 3.960102 AGGGACTGAAAAATCAAGTGCAA 59.040 39.130 0.00 0.00 37.18 4.08
3603 6470 3.255888 AGACAAGCTCATGAACACTACGA 59.744 43.478 0.00 0.00 0.00 3.43
3608 6475 7.545362 AATACATAGACAAGCTCATGAACAC 57.455 36.000 0.00 0.00 0.00 3.32
3645 6512 1.304134 AGTGATTCCAAACGGCCCC 60.304 57.895 0.00 0.00 0.00 5.80
3646 6513 1.313091 GGAGTGATTCCAAACGGCCC 61.313 60.000 0.00 0.00 46.01 5.80
3647 6514 2.180674 GGAGTGATTCCAAACGGCC 58.819 57.895 0.00 0.00 46.01 6.13
3655 6522 2.166664 AGTTACAGAGCGGAGTGATTCC 59.833 50.000 0.00 0.00 43.04 3.01
3656 6523 3.440228 GAGTTACAGAGCGGAGTGATTC 58.560 50.000 0.00 0.00 0.00 2.52
3657 6524 2.166664 GGAGTTACAGAGCGGAGTGATT 59.833 50.000 0.00 0.00 0.00 2.57
3658 6525 1.751924 GGAGTTACAGAGCGGAGTGAT 59.248 52.381 0.00 0.00 0.00 3.06
3659 6526 1.174783 GGAGTTACAGAGCGGAGTGA 58.825 55.000 0.00 0.00 0.00 3.41
3660 6527 0.179161 CGGAGTTACAGAGCGGAGTG 60.179 60.000 0.00 0.00 0.00 3.51
3661 6528 1.935327 GCGGAGTTACAGAGCGGAGT 61.935 60.000 0.00 0.00 0.00 3.85
3662 6529 1.226717 GCGGAGTTACAGAGCGGAG 60.227 63.158 0.00 0.00 0.00 4.63
3663 6530 2.707849 GGCGGAGTTACAGAGCGGA 61.708 63.158 0.00 0.00 0.00 5.54
3664 6531 2.202756 GGCGGAGTTACAGAGCGG 60.203 66.667 0.00 0.00 0.00 5.52
3665 6532 2.579787 CGGCGGAGTTACAGAGCG 60.580 66.667 0.00 0.00 0.00 5.03
3666 6533 2.886124 GCGGCGGAGTTACAGAGC 60.886 66.667 9.78 0.00 0.00 4.09
3667 6534 2.579787 CGCGGCGGAGTTACAGAG 60.580 66.667 15.84 0.00 0.00 3.35
3688 6555 3.869272 GAACTGCATGCCGCTCCG 61.869 66.667 16.68 0.00 43.06 4.63
3689 6556 1.660560 ATTGAACTGCATGCCGCTCC 61.661 55.000 16.68 2.24 43.06 4.70
3690 6557 0.171903 AATTGAACTGCATGCCGCTC 59.828 50.000 16.68 10.52 43.06 5.03
3691 6558 0.604578 AAATTGAACTGCATGCCGCT 59.395 45.000 16.68 0.00 43.06 5.52
3692 6559 1.431496 AAAATTGAACTGCATGCCGC 58.569 45.000 16.68 2.13 42.89 6.53
3693 6560 2.599973 GCTAAAATTGAACTGCATGCCG 59.400 45.455 16.68 12.01 0.00 5.69
3694 6561 2.599973 CGCTAAAATTGAACTGCATGCC 59.400 45.455 16.68 0.00 0.00 4.40
3695 6562 3.500982 TCGCTAAAATTGAACTGCATGC 58.499 40.909 11.82 11.82 0.00 4.06
3696 6563 3.545078 GCTCGCTAAAATTGAACTGCATG 59.455 43.478 0.00 0.00 0.00 4.06
3697 6564 3.728864 CGCTCGCTAAAATTGAACTGCAT 60.729 43.478 0.00 0.00 0.00 3.96
3698 6565 2.412716 CGCTCGCTAAAATTGAACTGCA 60.413 45.455 0.00 0.00 0.00 4.41
3699 6566 2.169179 CGCTCGCTAAAATTGAACTGC 58.831 47.619 0.00 0.00 0.00 4.40
3700 6567 2.774007 CCGCTCGCTAAAATTGAACTG 58.226 47.619 0.00 0.00 0.00 3.16
3701 6568 1.130561 GCCGCTCGCTAAAATTGAACT 59.869 47.619 0.00 0.00 0.00 3.01
3702 6569 1.535088 GCCGCTCGCTAAAATTGAAC 58.465 50.000 0.00 0.00 0.00 3.18
3703 6570 0.096281 CGCCGCTCGCTAAAATTGAA 59.904 50.000 0.00 0.00 34.21 2.69
3704 6571 0.738063 TCGCCGCTCGCTAAAATTGA 60.738 50.000 0.00 0.00 38.27 2.57
3705 6572 0.096281 TTCGCCGCTCGCTAAAATTG 59.904 50.000 0.00 0.00 38.27 2.32
3706 6573 0.800012 TTTCGCCGCTCGCTAAAATT 59.200 45.000 0.00 0.00 38.27 1.82
3707 6574 0.373716 CTTTCGCCGCTCGCTAAAAT 59.626 50.000 0.00 0.00 32.30 1.82
3708 6575 1.632046 CCTTTCGCCGCTCGCTAAAA 61.632 55.000 0.00 0.00 32.30 1.52
3709 6576 2.098233 CCTTTCGCCGCTCGCTAAA 61.098 57.895 0.00 0.00 38.27 1.85
3710 6577 2.508439 CCTTTCGCCGCTCGCTAA 60.508 61.111 0.00 0.00 38.27 3.09
3711 6578 4.508128 CCCTTTCGCCGCTCGCTA 62.508 66.667 0.00 0.00 38.27 4.26
3745 6612 4.219999 GCTCCTCCGCCAGAGAGC 62.220 72.222 0.00 0.00 46.50 4.09
3746 6613 2.757508 TGCTCCTCCGCCAGAGAG 60.758 66.667 0.00 0.00 46.50 3.20
3747 6614 2.757508 CTGCTCCTCCGCCAGAGA 60.758 66.667 0.00 0.00 46.50 3.10
3748 6615 2.757508 TCTGCTCCTCCGCCAGAG 60.758 66.667 0.00 0.00 42.83 3.35
3749 6616 2.757508 CTCTGCTCCTCCGCCAGA 60.758 66.667 0.00 0.00 0.00 3.86
3750 6617 3.847602 CCTCTGCTCCTCCGCCAG 61.848 72.222 0.00 0.00 0.00 4.85
3751 6618 3.686098 ATCCTCTGCTCCTCCGCCA 62.686 63.158 0.00 0.00 0.00 5.69
3752 6619 2.376228 GAATCCTCTGCTCCTCCGCC 62.376 65.000 0.00 0.00 0.00 6.13
3753 6620 1.068921 GAATCCTCTGCTCCTCCGC 59.931 63.158 0.00 0.00 0.00 5.54
3754 6621 1.745264 GGAATCCTCTGCTCCTCCG 59.255 63.158 0.00 0.00 0.00 4.63
3755 6622 1.753368 CGGGAATCCTCTGCTCCTCC 61.753 65.000 0.00 0.00 0.00 4.30
3756 6623 0.757188 TCGGGAATCCTCTGCTCCTC 60.757 60.000 0.00 0.00 0.00 3.71
3757 6624 0.325671 TTCGGGAATCCTCTGCTCCT 60.326 55.000 0.00 0.00 0.00 3.69
3758 6625 0.179070 GTTCGGGAATCCTCTGCTCC 60.179 60.000 0.00 0.00 0.00 4.70
3759 6626 0.537188 TGTTCGGGAATCCTCTGCTC 59.463 55.000 0.00 0.00 0.00 4.26
3760 6627 0.250513 GTGTTCGGGAATCCTCTGCT 59.749 55.000 0.00 0.00 0.00 4.24
3761 6628 0.036388 TGTGTTCGGGAATCCTCTGC 60.036 55.000 0.00 0.00 0.00 4.26
3762 6629 2.009042 GCTGTGTTCGGGAATCCTCTG 61.009 57.143 0.00 0.00 0.00 3.35
3763 6630 0.250513 GCTGTGTTCGGGAATCCTCT 59.749 55.000 0.00 0.00 0.00 3.69
3764 6631 0.744771 GGCTGTGTTCGGGAATCCTC 60.745 60.000 0.00 0.00 0.00 3.71
3765 6632 1.201429 AGGCTGTGTTCGGGAATCCT 61.201 55.000 0.00 0.00 0.00 3.24
3766 6633 0.744771 GAGGCTGTGTTCGGGAATCC 60.745 60.000 0.00 0.00 0.00 3.01
3767 6634 0.036388 TGAGGCTGTGTTCGGGAATC 60.036 55.000 0.00 0.00 0.00 2.52
3768 6635 0.400213 TTGAGGCTGTGTTCGGGAAT 59.600 50.000 0.00 0.00 0.00 3.01
3769 6636 0.400213 ATTGAGGCTGTGTTCGGGAA 59.600 50.000 0.00 0.00 0.00 3.97
3770 6637 1.271856 TATTGAGGCTGTGTTCGGGA 58.728 50.000 0.00 0.00 0.00 5.14
3771 6638 2.332063 ATATTGAGGCTGTGTTCGGG 57.668 50.000 0.00 0.00 0.00 5.14
3772 6639 2.802816 GCTATATTGAGGCTGTGTTCGG 59.197 50.000 0.00 0.00 0.00 4.30
3773 6640 3.722147 AGCTATATTGAGGCTGTGTTCG 58.278 45.455 0.00 0.00 34.82 3.95
3774 6641 6.931281 TGATTAGCTATATTGAGGCTGTGTTC 59.069 38.462 0.00 0.00 37.50 3.18
3775 6642 6.830912 TGATTAGCTATATTGAGGCTGTGTT 58.169 36.000 0.00 0.00 37.50 3.32
3776 6643 6.425210 TGATTAGCTATATTGAGGCTGTGT 57.575 37.500 0.00 0.00 37.50 3.72
3777 6644 6.933521 ACTTGATTAGCTATATTGAGGCTGTG 59.066 38.462 0.00 0.00 37.50 3.66
3778 6645 7.072263 ACTTGATTAGCTATATTGAGGCTGT 57.928 36.000 0.00 0.00 37.50 4.40
3779 6646 7.976135 AACTTGATTAGCTATATTGAGGCTG 57.024 36.000 0.00 0.00 37.50 4.85
3780 6647 9.717942 CTTAACTTGATTAGCTATATTGAGGCT 57.282 33.333 0.00 0.00 39.74 4.58
3781 6648 9.495572 ACTTAACTTGATTAGCTATATTGAGGC 57.504 33.333 0.00 0.00 0.00 4.70
4049 10189 0.173708 ACGTGAGCTTGCTAGTAGCC 59.826 55.000 19.41 4.28 41.51 3.93
4050 10190 1.272781 CACGTGAGCTTGCTAGTAGC 58.727 55.000 15.56 15.56 42.82 3.58
4051 10191 1.272781 GCACGTGAGCTTGCTAGTAG 58.727 55.000 22.23 0.00 36.98 2.57
4052 10192 0.108804 GGCACGTGAGCTTGCTAGTA 60.109 55.000 22.23 0.00 39.48 1.82
4053 10193 1.374758 GGCACGTGAGCTTGCTAGT 60.375 57.895 22.23 0.00 39.48 2.57
4055 10195 1.667830 GTGGCACGTGAGCTTGCTA 60.668 57.895 22.23 0.00 39.48 3.49
4057 10197 3.279116 TGTGGCACGTGAGCTTGC 61.279 61.111 22.23 1.50 38.91 4.01
4058 10198 1.509644 ATGTGTGGCACGTGAGCTTG 61.510 55.000 22.23 0.00 37.14 4.01
4146 10304 0.321564 ACAGCACAGAGGCGCATTTA 60.322 50.000 10.83 0.00 39.27 1.40
4165 10323 1.168407 GCCTCTCTGCTGCACACAAA 61.168 55.000 0.00 0.00 0.00 2.83
4181 10339 4.154347 GCTGCTGCTAGTCCGCCT 62.154 66.667 8.53 0.00 36.03 5.52
4633 10798 0.469705 TGGTGGCCATCTGCAAACTT 60.470 50.000 18.94 0.00 43.89 2.66
4672 10837 9.461312 TGCACTTATATCTAAATGGTTTCAAGT 57.539 29.630 0.00 0.00 0.00 3.16
4693 10858 8.398665 GCTAGCTTGTAAAATAATTACTGCACT 58.601 33.333 7.70 5.20 32.23 4.40
4731 10896 7.415541 GCTGCATATCACTCCATTAAGAAAACA 60.416 37.037 0.00 0.00 0.00 2.83
4757 10922 1.480137 CTGCTAGAACCCACAGGAGAG 59.520 57.143 0.00 0.00 36.73 3.20
4767 10932 1.367599 CTGCTGCTGCTGCTAGAACC 61.368 60.000 27.67 2.64 40.48 3.62
5616 11795 9.950680 GTACATAACAAAATACAATAGCTGCAT 57.049 29.630 1.02 0.00 0.00 3.96
5680 11859 3.674423 GTGCAACTGCGATACAAGAATC 58.326 45.455 0.00 0.00 45.83 2.52
5750 11936 1.921573 GCTGCACATAATAAAGCGCGG 60.922 52.381 8.83 0.00 0.00 6.46
5751 11937 1.003545 AGCTGCACATAATAAAGCGCG 60.004 47.619 0.00 0.00 38.90 6.86
5835 12024 6.309494 GGTCTCAACTTTTACAAACAAACCAC 59.691 38.462 0.00 0.00 0.00 4.16
5870 12059 2.098443 GCCAACACCGAGAGTTTGAAAA 59.902 45.455 0.00 0.00 0.00 2.29
5995 12184 2.474266 CGGCGTTGATGGTTGACG 59.526 61.111 0.00 0.00 39.61 4.35


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

AutoCloner maintained by Alex Coulton.