Multiple sequence alignment - TraesCS7B01G329900

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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 TraesCS7B01G329900 chr7B 100.000 3605 0 0 1 3605 585485861 585489465 0.000000e+00 6658.0
1 TraesCS7B01G329900 chr7B 85.129 1244 106 41 1362 2568 584036595 584035394 0.000000e+00 1199.0
2 TraesCS7B01G329900 chr7B 83.485 878 92 29 1366 2200 584270015 584269148 0.000000e+00 769.0
3 TraesCS7B01G329900 chr7B 88.117 547 44 13 2196 2728 584269077 584268538 6.570000e-177 630.0
4 TraesCS7B01G329900 chr7B 88.012 342 38 3 2836 3175 584035231 584034891 5.610000e-108 401.0
5 TraesCS7B01G329900 chr7B 90.780 282 17 5 1016 1291 584036973 584036695 5.690000e-98 368.0
6 TraesCS7B01G329900 chr7B 87.973 291 22 7 2924 3205 584262750 584262464 7.460000e-87 331.0
7 TraesCS7B01G329900 chr7B 93.923 181 11 0 1113 1293 584270301 584270121 1.280000e-69 274.0
8 TraesCS7B01G329900 chr7B 88.957 163 10 3 3427 3588 152467610 152467765 1.020000e-45 195.0
9 TraesCS7B01G329900 chr7B 86.624 157 16 1 3428 3584 712253647 712253798 6.190000e-38 169.0
10 TraesCS7B01G329900 chr7B 84.559 136 13 3 3427 3562 477812992 477813119 1.050000e-25 128.0
11 TraesCS7B01G329900 chr7B 85.556 90 13 0 3224 3313 584034784 584034695 1.070000e-15 95.3
12 TraesCS7B01G329900 chr7A 88.288 3108 216 78 591 3605 624806903 624809955 0.000000e+00 3587.0
13 TraesCS7B01G329900 chr7A 84.668 1474 123 45 1340 2782 622373142 622371741 0.000000e+00 1375.0
14 TraesCS7B01G329900 chr7A 86.760 861 97 14 1345 2200 623322990 623322142 0.000000e+00 942.0
15 TraesCS7B01G329900 chr7A 91.875 320 20 4 1016 1332 622373504 622373188 3.300000e-120 442.0
16 TraesCS7B01G329900 chr7A 85.938 384 38 6 2836 3205 622371741 622371360 2.610000e-106 396.0
17 TraesCS7B01G329900 chr7A 88.235 340 29 9 959 1293 623323424 623323091 2.610000e-106 396.0
18 TraesCS7B01G329900 chr7A 89.377 273 26 3 2196 2467 623322071 623321801 1.240000e-89 340.0
19 TraesCS7B01G329900 chr7A 87.086 302 29 6 3 303 624805923 624806215 2.070000e-87 333.0
20 TraesCS7B01G329900 chr7A 82.000 250 24 7 2923 3151 623297967 623297718 3.670000e-45 193.0
21 TraesCS7B01G329900 chr7A 88.344 163 11 3 3427 3588 187460832 187460677 4.750000e-44 189.0
22 TraesCS7B01G329900 chr7A 83.824 136 14 5 3427 3562 543780074 543779947 4.890000e-24 122.0
23 TraesCS7B01G329900 chr7A 86.667 90 10 2 3224 3313 622371296 622371209 8.240000e-17 99.0
24 TraesCS7B01G329900 chr7A 100.000 31 0 0 3175 3205 623297713 623297683 1.400000e-04 58.4
25 TraesCS7B01G329900 chr7A 100.000 28 0 0 2908 2935 623320844 623320817 7.000000e-03 52.8
26 TraesCS7B01G329900 chr7D 90.992 2298 152 25 1340 3605 541495084 541497358 0.000000e+00 3046.0
27 TraesCS7B01G329900 chr7D 85.401 1459 138 40 1340 2782 540716086 540714687 0.000000e+00 1445.0
28 TraesCS7B01G329900 chr7D 86.721 866 96 16 1340 2200 540793152 540792301 0.000000e+00 944.0
29 TraesCS7B01G329900 chr7D 87.636 736 65 16 566 1293 541494287 541495004 0.000000e+00 832.0
30 TraesCS7B01G329900 chr7D 87.778 540 36 11 2196 2728 540792230 540791714 3.980000e-169 604.0
31 TraesCS7B01G329900 chr7D 86.559 372 45 4 2836 3204 540714687 540714318 4.330000e-109 405.0
32 TraesCS7B01G329900 chr7D 86.592 358 37 8 943 1292 540793602 540793248 5.650000e-103 385.0
33 TraesCS7B01G329900 chr7D 91.111 270 23 1 1026 1295 540716451 540716183 7.360000e-97 364.0
34 TraesCS7B01G329900 chr7D 85.567 97 14 0 3217 3313 540714212 540714116 6.370000e-18 102.0
35 TraesCS7B01G329900 chr7D 80.142 141 20 7 2224 2357 421790101 421789962 8.240000e-17 99.0
36 TraesCS7B01G329900 chr7D 83.168 101 12 4 99 198 580761833 580761737 1.780000e-13 87.9
37 TraesCS7B01G329900 chr7D 95.556 45 0 1 3427 3471 454075961 454076003 1.800000e-08 71.3
38 TraesCS7B01G329900 chr3D 89.506 162 11 1 3427 3588 426451862 426452017 2.200000e-47 200.0
39 TraesCS7B01G329900 chr4A 87.195 164 11 5 3427 3588 24207439 24207594 1.030000e-40 178.0
40 TraesCS7B01G329900 chr3A 86.420 162 14 2 3427 3588 562286689 562286842 1.720000e-38 171.0
41 TraesCS7B01G329900 chr3A 82.716 162 20 2 3427 3588 466057138 466056985 1.750000e-28 137.0
42 TraesCS7B01G329900 chr3A 77.830 212 23 7 99 289 614999761 614999553 3.810000e-20 110.0
43 TraesCS7B01G329900 chr5D 86.335 161 15 2 3429 3588 398532997 398532843 6.190000e-38 169.0
44 TraesCS7B01G329900 chr6A 83.951 162 17 5 3427 3586 90098948 90098794 2.900000e-31 147.0
45 TraesCS7B01G329900 chr2D 80.423 189 28 6 20 205 106359889 106360071 6.280000e-28 135.0
46 TraesCS7B01G329900 chr2D 80.682 176 26 6 33 205 630709342 630709512 2.920000e-26 130.0
47 TraesCS7B01G329900 chr1D 79.894 189 29 6 20 205 397399588 397399770 2.920000e-26 130.0
48 TraesCS7B01G329900 chr1D 81.132 106 18 2 39 142 470887851 470887956 2.310000e-12 84.2
49 TraesCS7B01G329900 chr2B 77.540 187 34 7 22 205 671403617 671403798 4.920000e-19 106.0
50 TraesCS7B01G329900 chr2B 83.495 103 14 3 96 198 10990602 10990701 3.830000e-15 93.5
51 TraesCS7B01G329900 chr3B 79.839 124 23 2 39 160 661823121 661823244 4.960000e-14 89.8


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 TraesCS7B01G329900 chr7B 585485861 585489465 3604 False 6658.000000 6658 100.000000 1 3605 1 chr7B.!!$F3 3604
1 TraesCS7B01G329900 chr7B 584268538 584270301 1763 True 557.666667 769 88.508333 1113 2728 3 chr7B.!!$R3 1615
2 TraesCS7B01G329900 chr7B 584034695 584036973 2278 True 515.825000 1199 87.369250 1016 3313 4 chr7B.!!$R2 2297
3 TraesCS7B01G329900 chr7A 624805923 624809955 4032 False 1960.000000 3587 87.687000 3 3605 2 chr7A.!!$F1 3602
4 TraesCS7B01G329900 chr7A 622371209 622373504 2295 True 578.000000 1375 87.287000 1016 3313 4 chr7A.!!$R3 2297
5 TraesCS7B01G329900 chr7A 623320817 623323424 2607 True 432.700000 942 91.093000 959 2935 4 chr7A.!!$R5 1976
6 TraesCS7B01G329900 chr7D 541494287 541497358 3071 False 1939.000000 3046 89.314000 566 3605 2 chr7D.!!$F2 3039
7 TraesCS7B01G329900 chr7D 540791714 540793602 1888 True 644.333333 944 87.030333 943 2728 3 chr7D.!!$R4 1785
8 TraesCS7B01G329900 chr7D 540714116 540716451 2335 True 579.000000 1445 87.159500 1026 3313 4 chr7D.!!$R3 2287

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
576 797 0.029167 TCAGACAAACGTACGTGCGA 59.971 50.0 32.3 9.37 35.59 5.10 F
1555 2227 0.037232 CTCCGGTGGTTCAAGGACTC 60.037 60.0 0.0 0.00 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1672 2376 0.439985 GCGTATCACTGCACACACAG 59.560 55.0 0.0 0.0 43.59 3.66 R
3527 5144 0.464916 GGTCCTGGGTTCAACGTGTT 60.465 55.0 0.0 0.0 0.00 3.32 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
52 53 3.827898 CGACGAGACCAGCTCCCC 61.828 72.222 0.00 0.00 40.70 4.81
54 55 2.203788 ACGAGACCAGCTCCCCAA 60.204 61.111 0.00 0.00 40.70 4.12
83 84 1.961277 GGGTGTCGTCACTGCAAGG 60.961 63.158 12.42 0.00 43.41 3.61
98 99 2.190841 AAGGCAAAACGACCACCCG 61.191 57.895 0.00 0.00 0.00 5.28
124 125 0.250513 CCTCCACTACACCTCTTGCC 59.749 60.000 0.00 0.00 0.00 4.52
153 154 1.077787 CCAAGATTGGTAGCCGCCA 60.078 57.895 3.30 0.00 43.43 5.69
154 155 1.376609 CCAAGATTGGTAGCCGCCAC 61.377 60.000 3.30 0.00 43.43 5.01
155 156 1.077716 AAGATTGGTAGCCGCCACC 60.078 57.895 0.29 0.29 38.42 4.61
216 217 1.079405 GGCATCCACGTCCGAGAAA 60.079 57.895 0.00 0.00 0.00 2.52
219 220 0.739813 CATCCACGTCCGAGAAACCC 60.740 60.000 0.00 0.00 0.00 4.11
223 224 2.142104 ACGTCCGAGAAACCCCCAA 61.142 57.895 0.00 0.00 0.00 4.12
224 225 1.670083 CGTCCGAGAAACCCCCAAC 60.670 63.158 0.00 0.00 0.00 3.77
225 226 1.670083 GTCCGAGAAACCCCCAACG 60.670 63.158 0.00 0.00 0.00 4.10
238 239 1.806542 CCCCAACGATCTTCAACACAG 59.193 52.381 0.00 0.00 0.00 3.66
240 241 2.146342 CCAACGATCTTCAACACAGCT 58.854 47.619 0.00 0.00 0.00 4.24
258 259 2.378547 AGCTTCCCAACCATGGTAGAAA 59.621 45.455 20.12 9.54 46.01 2.52
259 260 2.755103 GCTTCCCAACCATGGTAGAAAG 59.245 50.000 20.12 18.82 46.01 2.62
261 262 4.265073 CTTCCCAACCATGGTAGAAAGAG 58.735 47.826 20.12 8.62 46.01 2.85
262 263 2.026262 TCCCAACCATGGTAGAAAGAGC 60.026 50.000 20.12 0.00 46.01 4.09
263 264 2.290896 CCCAACCATGGTAGAAAGAGCA 60.291 50.000 20.12 0.00 46.01 4.26
277 278 2.360475 AGCAAAAGGCGCCTCCTC 60.360 61.111 32.93 18.83 46.94 3.71
287 288 1.452145 GCGCCTCCTCTCACTCCTAG 61.452 65.000 0.00 0.00 0.00 3.02
288 289 1.452145 CGCCTCCTCTCACTCCTAGC 61.452 65.000 0.00 0.00 0.00 3.42
291 292 0.821711 CTCCTCTCACTCCTAGCCCG 60.822 65.000 0.00 0.00 0.00 6.13
298 299 0.824109 CACTCCTAGCCCGACATCAA 59.176 55.000 0.00 0.00 0.00 2.57
299 300 1.414181 CACTCCTAGCCCGACATCAAT 59.586 52.381 0.00 0.00 0.00 2.57
301 302 1.001406 CTCCTAGCCCGACATCAATCC 59.999 57.143 0.00 0.00 0.00 3.01
303 304 0.946221 CTAGCCCGACATCAATCCGC 60.946 60.000 0.00 0.00 0.00 5.54
304 305 2.377628 TAGCCCGACATCAATCCGCC 62.378 60.000 0.00 0.00 0.00 6.13
308 309 3.640000 GACATCAATCCGCCGCCG 61.640 66.667 0.00 0.00 0.00 6.46
334 553 3.857038 GCCGCAACCCCCGAGATA 61.857 66.667 0.00 0.00 0.00 1.98
335 554 2.421739 CCGCAACCCCCGAGATAG 59.578 66.667 0.00 0.00 0.00 2.08
336 555 2.131709 CCGCAACCCCCGAGATAGA 61.132 63.158 0.00 0.00 0.00 1.98
337 556 1.364171 CGCAACCCCCGAGATAGAG 59.636 63.158 0.00 0.00 0.00 2.43
338 557 1.069935 GCAACCCCCGAGATAGAGC 59.930 63.158 0.00 0.00 0.00 4.09
339 558 1.749033 CAACCCCCGAGATAGAGCC 59.251 63.158 0.00 0.00 0.00 4.70
342 561 2.992114 CCCCGAGATAGAGCCCCG 60.992 72.222 0.00 0.00 0.00 5.73
344 563 1.974343 CCCGAGATAGAGCCCCGAG 60.974 68.421 0.00 0.00 0.00 4.63
345 564 1.073373 CCGAGATAGAGCCCCGAGA 59.927 63.158 0.00 0.00 0.00 4.04
346 565 0.958382 CCGAGATAGAGCCCCGAGAG 60.958 65.000 0.00 0.00 0.00 3.20
349 568 1.228737 GATAGAGCCCCGAGAGCCT 60.229 63.158 0.00 0.00 0.00 4.58
350 569 1.228737 ATAGAGCCCCGAGAGCCTC 60.229 63.158 0.00 0.00 0.00 4.70
353 572 4.851214 AGCCCCGAGAGCCTCCTC 62.851 72.222 0.00 0.00 38.42 3.71
356 575 4.507916 CCCGAGAGCCTCCTCCGA 62.508 72.222 1.13 0.00 38.96 4.55
358 577 3.591835 CGAGAGCCTCCTCCGAGC 61.592 72.222 0.00 0.00 38.96 5.03
359 578 3.223589 GAGAGCCTCCTCCGAGCC 61.224 72.222 0.00 0.00 38.96 4.70
387 606 3.000819 CCACCACGCCCTGACCTA 61.001 66.667 0.00 0.00 0.00 3.08
388 607 2.579201 CACCACGCCCTGACCTAG 59.421 66.667 0.00 0.00 0.00 3.02
389 608 3.391382 ACCACGCCCTGACCTAGC 61.391 66.667 0.00 0.00 0.00 3.42
412 631 4.404098 GTCACCGGCCGGGAACAT 62.404 66.667 44.99 24.17 39.97 2.71
413 632 4.090588 TCACCGGCCGGGAACATC 62.091 66.667 44.99 0.00 39.97 3.06
448 667 2.487428 CACGCGTGGAGAGGAGAG 59.513 66.667 31.15 0.81 0.00 3.20
449 668 2.034376 ACGCGTGGAGAGGAGAGT 59.966 61.111 12.93 0.00 0.00 3.24
450 669 2.041686 ACGCGTGGAGAGGAGAGTC 61.042 63.158 12.93 0.00 0.00 3.36
451 670 2.795297 GCGTGGAGAGGAGAGTCG 59.205 66.667 0.00 0.00 0.00 4.18
452 671 2.766400 GCGTGGAGAGGAGAGTCGG 61.766 68.421 0.00 0.00 0.00 4.79
453 672 2.766400 CGTGGAGAGGAGAGTCGGC 61.766 68.421 0.00 0.00 0.00 5.54
454 673 2.043852 TGGAGAGGAGAGTCGGCC 60.044 66.667 0.00 0.00 0.00 6.13
455 674 2.835895 GGAGAGGAGAGTCGGCCC 60.836 72.222 0.00 0.00 0.00 5.80
456 675 2.277404 GAGAGGAGAGTCGGCCCT 59.723 66.667 0.00 2.10 0.00 5.19
457 676 2.043450 AGAGGAGAGTCGGCCCTG 60.043 66.667 0.00 0.00 0.00 4.45
458 677 3.844090 GAGGAGAGTCGGCCCTGC 61.844 72.222 0.00 0.00 0.00 4.85
475 694 4.814294 CCGTCGCCAGCACCTACC 62.814 72.222 0.00 0.00 0.00 3.18
477 696 4.065281 GTCGCCAGCACCTACCGT 62.065 66.667 0.00 0.00 0.00 4.83
478 697 4.063967 TCGCCAGCACCTACCGTG 62.064 66.667 0.00 0.00 46.03 4.94
485 704 3.263941 CACCTACCGTGCTTTGCC 58.736 61.111 0.00 0.00 35.18 4.52
486 705 2.033602 ACCTACCGTGCTTTGCCC 59.966 61.111 0.00 0.00 0.00 5.36
487 706 3.124921 CCTACCGTGCTTTGCCCG 61.125 66.667 0.00 0.00 0.00 6.13
488 707 3.124921 CTACCGTGCTTTGCCCGG 61.125 66.667 11.52 11.52 46.93 5.73
534 753 2.454941 GGAGAAGGAGGTGGGGGA 59.545 66.667 0.00 0.00 0.00 4.81
535 754 1.996187 GGAGAAGGAGGTGGGGGAC 60.996 68.421 0.00 0.00 0.00 4.46
536 755 2.284699 AGAAGGAGGTGGGGGACG 60.285 66.667 0.00 0.00 0.00 4.79
537 756 4.097361 GAAGGAGGTGGGGGACGC 62.097 72.222 0.00 0.00 43.69 5.19
561 782 0.882927 CGACGGCTTGGGTTTTCAGA 60.883 55.000 0.00 0.00 0.00 3.27
562 783 0.591659 GACGGCTTGGGTTTTCAGAC 59.408 55.000 0.00 0.00 0.00 3.51
563 784 0.106918 ACGGCTTGGGTTTTCAGACA 60.107 50.000 0.00 0.00 0.00 3.41
575 796 0.847670 TTCAGACAAACGTACGTGCG 59.152 50.000 23.57 24.57 37.94 5.34
576 797 0.029167 TCAGACAAACGTACGTGCGA 59.971 50.000 32.30 9.37 35.59 5.10
582 803 3.940975 AACGTACGTGCGAGGCGAG 62.941 63.158 32.30 1.72 35.59 5.03
584 805 4.477975 GTACGTGCGAGGCGAGCT 62.478 66.667 0.00 0.00 35.28 4.09
593 1120 2.765807 AGGCGAGCTATGGCAGGT 60.766 61.111 13.51 0.00 41.70 4.00
676 1203 1.203523 ACTCTAGTCCAAAGCAGAGCG 59.796 52.381 0.00 0.00 38.46 5.03
704 1231 3.138798 CCCACGATCTCGGACCGT 61.139 66.667 14.79 0.00 44.95 4.83
745 1272 1.094650 TTGTCAGCAGCAAAGCGACA 61.095 50.000 14.26 14.26 42.06 4.35
764 1291 2.049526 ACACACAGAATCGCGCGA 60.050 55.556 36.65 36.65 0.00 5.87
775 1302 2.899345 ATCGCGCGACATGGCACTTA 62.899 55.000 37.37 8.52 0.00 2.24
861 1428 0.321653 GCCACACTCCTCCGTCAATT 60.322 55.000 0.00 0.00 0.00 2.32
888 1455 3.458163 CTCTAGAACGCCCGGCCA 61.458 66.667 2.24 0.00 0.00 5.36
889 1456 3.718210 CTCTAGAACGCCCGGCCAC 62.718 68.421 2.24 0.00 0.00 5.01
890 1457 3.771160 CTAGAACGCCCGGCCACT 61.771 66.667 2.24 3.47 0.00 4.00
891 1458 4.077184 TAGAACGCCCGGCCACTG 62.077 66.667 2.24 0.00 0.00 3.66
894 1461 4.887190 AACGCCCGGCCACTGTTT 62.887 61.111 2.24 0.00 0.00 2.83
897 1464 3.977244 GCCCGGCCACTGTTTGTG 61.977 66.667 2.24 0.00 45.80 3.33
898 1465 3.977244 CCCGGCCACTGTTTGTGC 61.977 66.667 2.24 0.00 44.92 4.57
899 1466 3.977244 CCGGCCACTGTTTGTGCC 61.977 66.667 2.24 0.00 44.92 5.01
900 1467 3.977244 CGGCCACTGTTTGTGCCC 61.977 66.667 2.24 0.00 44.92 5.36
901 1468 2.521708 GGCCACTGTTTGTGCCCT 60.522 61.111 0.00 0.00 44.92 5.19
902 1469 2.730094 GCCACTGTTTGTGCCCTG 59.270 61.111 0.00 0.00 44.92 4.45
903 1470 2.730094 CCACTGTTTGTGCCCTGC 59.270 61.111 0.00 0.00 44.92 4.85
904 1471 2.730094 CACTGTTTGTGCCCTGCC 59.270 61.111 0.00 0.00 40.06 4.85
905 1472 2.521708 ACTGTTTGTGCCCTGCCC 60.522 61.111 0.00 0.00 0.00 5.36
906 1473 3.305516 CTGTTTGTGCCCTGCCCC 61.306 66.667 0.00 0.00 0.00 5.80
907 1474 3.815407 CTGTTTGTGCCCTGCCCCT 62.815 63.158 0.00 0.00 0.00 4.79
908 1475 2.524148 GTTTGTGCCCTGCCCCTT 60.524 61.111 0.00 0.00 0.00 3.95
909 1476 2.203625 TTTGTGCCCTGCCCCTTC 60.204 61.111 0.00 0.00 0.00 3.46
910 1477 3.826265 TTTGTGCCCTGCCCCTTCC 62.826 63.158 0.00 0.00 0.00 3.46
912 1479 4.066139 GTGCCCTGCCCCTTCCAT 62.066 66.667 0.00 0.00 0.00 3.41
913 1480 3.743017 TGCCCTGCCCCTTCCATC 61.743 66.667 0.00 0.00 0.00 3.51
914 1481 3.743017 GCCCTGCCCCTTCCATCA 61.743 66.667 0.00 0.00 0.00 3.07
915 1482 3.078843 GCCCTGCCCCTTCCATCAT 62.079 63.158 0.00 0.00 0.00 2.45
916 1483 1.152368 CCCTGCCCCTTCCATCATC 59.848 63.158 0.00 0.00 0.00 2.92
917 1484 1.152368 CCTGCCCCTTCCATCATCC 59.848 63.158 0.00 0.00 0.00 3.51
918 1485 1.228063 CTGCCCCTTCCATCATCCG 60.228 63.158 0.00 0.00 0.00 4.18
919 1486 2.595754 GCCCCTTCCATCATCCGC 60.596 66.667 0.00 0.00 0.00 5.54
932 1499 4.556233 CATCATCCGCGTATAAAAGGAGA 58.444 43.478 4.92 0.00 36.08 3.71
934 1501 3.382227 TCATCCGCGTATAAAAGGAGACA 59.618 43.478 4.92 0.00 36.08 3.41
949 1516 2.615869 GAGACAGTAGCAAAGCAGGAG 58.384 52.381 0.00 0.00 0.00 3.69
965 1537 1.218230 GGAGCTCATCGACCATTCGC 61.218 60.000 17.19 0.00 45.46 4.70
966 1538 0.249238 GAGCTCATCGACCATTCGCT 60.249 55.000 9.40 0.00 45.46 4.93
967 1539 0.249238 AGCTCATCGACCATTCGCTC 60.249 55.000 0.00 0.00 45.46 5.03
968 1540 1.543941 GCTCATCGACCATTCGCTCG 61.544 60.000 0.00 0.00 45.46 5.03
976 1548 3.267860 CATTCGCTCGCCAGCTCC 61.268 66.667 0.79 0.00 44.40 4.70
977 1549 4.880537 ATTCGCTCGCCAGCTCCG 62.881 66.667 0.79 0.00 44.40 4.63
1338 1937 3.464907 CATCCTCTGCTTCAGTACATGG 58.535 50.000 0.00 0.00 32.61 3.66
1343 2014 1.736126 CTGCTTCAGTACATGGCACTG 59.264 52.381 18.75 18.75 43.92 3.66
1349 2020 3.161866 TCAGTACATGGCACTGAGTGTA 58.838 45.455 21.85 4.32 45.68 2.90
1358 2030 0.179187 CACTGAGTGTACCGCTCTCG 60.179 60.000 4.01 8.52 41.09 4.04
1360 2032 0.097325 CTGAGTGTACCGCTCTCGTC 59.903 60.000 13.43 0.00 41.09 4.20
1429 2101 0.179179 GCCAAGAACATGAGCTTCGC 60.179 55.000 0.00 2.96 0.00 4.70
1555 2227 0.037232 CTCCGGTGGTTCAAGGACTC 60.037 60.000 0.00 0.00 0.00 3.36
1578 2250 0.108756 GAAGTCCACCTACGCCACTC 60.109 60.000 0.00 0.00 0.00 3.51
1594 2266 2.223735 CCACTCATGCAGGCAATTCATC 60.224 50.000 0.00 0.00 0.00 2.92
1661 2361 5.361571 TCAACAGTCGGGCATACTAATTCTA 59.638 40.000 0.00 0.00 0.00 2.10
1684 2402 8.040727 TCTATATGTAAAATCTGTGTGTGCAGT 58.959 33.333 0.00 0.00 37.70 4.40
1688 2406 5.994668 TGTAAAATCTGTGTGTGCAGTGATA 59.005 36.000 0.00 0.00 37.70 2.15
1710 2428 2.165030 CGCAAAAGGCTCCAATCATCTT 59.835 45.455 0.00 0.00 41.67 2.40
1862 2589 9.166173 CCATCAAAACATCTTCTATCACAAGTA 57.834 33.333 0.00 0.00 0.00 2.24
2128 2864 1.001120 TCTCCAGGCGTCATACCCA 59.999 57.895 0.00 0.00 0.00 4.51
2386 3198 1.227380 CAGGCTCATCTACCACGGC 60.227 63.158 0.00 0.00 0.00 5.68
2387 3199 2.109181 GGCTCATCTACCACGGCC 59.891 66.667 0.00 0.00 0.00 6.13
2437 3252 0.807667 CGGAGAAGAATGGGCAGACG 60.808 60.000 0.00 0.00 0.00 4.18
2467 3282 6.394345 AACTGTTTTGATTCTCCCCTAGAT 57.606 37.500 0.00 0.00 33.05 1.98
2500 3437 0.240945 CCGCGACATTTTGAGCCTTT 59.759 50.000 8.23 0.00 0.00 3.11
2524 3506 2.507058 TGAGTTCTTCCATGGCTATGCT 59.493 45.455 6.96 2.09 32.79 3.79
2525 3507 3.711190 TGAGTTCTTCCATGGCTATGCTA 59.289 43.478 6.96 0.00 32.79 3.49
2526 3508 4.349048 TGAGTTCTTCCATGGCTATGCTAT 59.651 41.667 6.96 0.00 32.79 2.97
2535 3518 7.803487 TCCATGGCTATGCTATATATGCTAT 57.197 36.000 6.96 0.00 32.79 2.97
2563 3546 3.068732 TGCTCTGCACTATGTATCCAGAC 59.931 47.826 0.00 0.00 31.71 3.51
2575 3561 6.636562 ATGTATCCAGACTAAACTACGAGG 57.363 41.667 0.00 0.00 0.00 4.63
2623 3611 1.078709 CATGTTGAGCAGGGTACACG 58.921 55.000 0.00 0.00 0.00 4.49
2640 3630 6.421405 GGTACACGGTTACAAACAAAGTTAG 58.579 40.000 0.00 0.00 0.00 2.34
2689 3680 3.942748 ACGTGTTGATTTGGTACACAGTT 59.057 39.130 0.00 0.00 41.64 3.16
2690 3681 5.117584 ACGTGTTGATTTGGTACACAGTTA 58.882 37.500 0.00 0.00 41.64 2.24
2691 3682 5.235616 ACGTGTTGATTTGGTACACAGTTAG 59.764 40.000 0.00 0.00 41.64 2.34
2706 3697 7.958053 ACACAGTTAGTACAAACCTACATTC 57.042 36.000 0.00 0.00 0.00 2.67
2809 4259 1.066858 TCACGCTTTCATCTGGACTCC 60.067 52.381 0.00 0.00 0.00 3.85
2862 4313 2.807676 ACAAGGGCAAATCTTACAGGG 58.192 47.619 0.00 0.00 0.00 4.45
2870 4321 4.283467 GGCAAATCTTACAGGGAAAAACCT 59.717 41.667 0.00 0.00 43.08 3.50
2901 4352 6.464895 AATAAATGTGCACAAATCCAAACG 57.535 33.333 25.72 0.00 0.00 3.60
3003 4454 0.179073 CTGGCGAATGATCTCCGGTT 60.179 55.000 0.00 0.00 32.99 4.44
3014 4465 4.065088 TGATCTCCGGTTCAAAGTTCTTG 58.935 43.478 0.00 0.00 0.00 3.02
3054 4505 3.334691 TGTTAAATCTGGGTCAGCTTCG 58.665 45.455 0.00 0.00 0.00 3.79
3206 4672 3.900601 AGGAGTTCTGGCTGGATATGTAG 59.099 47.826 0.00 0.00 0.00 2.74
3207 4673 3.643792 GGAGTTCTGGCTGGATATGTAGT 59.356 47.826 0.00 0.00 0.00 2.73
3212 4678 7.067421 AGTTCTGGCTGGATATGTAGTAGTAA 58.933 38.462 0.00 0.00 0.00 2.24
3314 4908 0.254462 TGACCTGGTTTGAGTGCACA 59.746 50.000 21.04 0.00 0.00 4.57
3315 4909 1.340502 TGACCTGGTTTGAGTGCACAA 60.341 47.619 21.04 3.51 0.00 3.33
3411 5025 3.012518 CCTGGCCAGAAGTATTGTTCAG 58.987 50.000 34.91 8.41 0.00 3.02
3423 5037 6.299805 AGTATTGTTCAGCTAGTCCATTGA 57.700 37.500 0.00 0.00 0.00 2.57
3446 5060 1.623811 GGACAGACCCAGTGCTAGAAA 59.376 52.381 0.00 0.00 0.00 2.52
3480 5097 1.619669 GGGTCTGGGTCTGGGGAAT 60.620 63.158 0.00 0.00 0.00 3.01
3527 5144 1.804601 CACAGTGCAATGCAGAGAGA 58.195 50.000 15.18 0.00 40.08 3.10
3528 5145 2.148768 CACAGTGCAATGCAGAGAGAA 58.851 47.619 15.18 0.00 40.08 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 2.415491 CGCTCGTCCTAAAGACACATGA 60.415 50.000 0.00 0.00 46.69 3.07
19 20 1.132780 GTCGCGCTCGTCCTAAAGAC 61.133 60.000 5.56 0.00 42.54 3.01
52 53 1.404717 CGACACCCTGATCCAGACTTG 60.405 57.143 0.00 0.00 32.44 3.16
54 55 0.251832 ACGACACCCTGATCCAGACT 60.252 55.000 0.00 0.00 32.44 3.24
83 84 2.943653 CTCGGGTGGTCGTTTTGC 59.056 61.111 0.00 0.00 0.00 3.68
98 99 1.597461 GTGTAGTGGAGGGTGGCTC 59.403 63.158 0.00 0.00 0.00 4.70
110 111 2.663196 GGCGGCAAGAGGTGTAGT 59.337 61.111 3.07 0.00 0.00 2.73
112 113 2.925706 TGGGCGGCAAGAGGTGTA 60.926 61.111 12.47 0.00 0.00 2.90
124 125 1.671054 AATCTTGGTCGTGTGGGCG 60.671 57.895 0.00 0.00 0.00 6.13
153 154 2.115910 CTGCATGGTGGTGGTGGT 59.884 61.111 0.00 0.00 0.00 4.16
154 155 3.376078 GCTGCATGGTGGTGGTGG 61.376 66.667 0.00 0.00 0.00 4.61
155 156 3.376078 GGCTGCATGGTGGTGGTG 61.376 66.667 0.50 0.00 0.00 4.17
176 177 2.124983 CACATGGGTGGCTCTCGG 60.125 66.667 0.00 0.00 41.45 4.63
216 217 0.768622 TGTTGAAGATCGTTGGGGGT 59.231 50.000 0.00 0.00 0.00 4.95
219 220 1.197721 GCTGTGTTGAAGATCGTTGGG 59.802 52.381 0.00 0.00 0.00 4.12
223 224 2.417719 GGAAGCTGTGTTGAAGATCGT 58.582 47.619 0.00 0.00 0.00 3.73
224 225 1.734465 GGGAAGCTGTGTTGAAGATCG 59.266 52.381 0.00 0.00 0.00 3.69
225 226 2.783135 TGGGAAGCTGTGTTGAAGATC 58.217 47.619 0.00 0.00 0.00 2.75
258 259 2.360475 GGAGGCGCCTTTTGCTCT 60.360 61.111 33.34 5.00 38.05 4.09
272 273 0.821711 CGGGCTAGGAGTGAGAGGAG 60.822 65.000 0.00 0.00 0.00 3.69
276 277 0.259065 ATGTCGGGCTAGGAGTGAGA 59.741 55.000 0.00 0.00 0.00 3.27
277 278 0.671251 GATGTCGGGCTAGGAGTGAG 59.329 60.000 0.00 0.00 0.00 3.51
287 288 3.279875 GGCGGATTGATGTCGGGC 61.280 66.667 0.00 0.00 36.97 6.13
288 289 2.967076 CGGCGGATTGATGTCGGG 60.967 66.667 0.00 0.00 0.00 5.14
291 292 3.640000 CGGCGGCGGATTGATGTC 61.640 66.667 25.36 0.00 0.00 3.06
317 536 3.809374 CTATCTCGGGGGTTGCGGC 62.809 68.421 0.00 0.00 0.00 6.53
324 543 2.604991 GGGGCTCTATCTCGGGGG 60.605 72.222 0.00 0.00 0.00 5.40
326 545 1.974343 CTCGGGGCTCTATCTCGGG 60.974 68.421 0.00 0.00 0.00 5.14
330 549 1.228737 GGCTCTCGGGGCTCTATCT 60.229 63.158 0.00 0.00 0.00 1.98
331 550 1.228737 AGGCTCTCGGGGCTCTATC 60.229 63.158 0.00 0.00 37.58 2.08
332 551 2.939298 AGGCTCTCGGGGCTCTAT 59.061 61.111 0.00 0.00 37.58 1.98
336 555 4.851214 GAGGAGGCTCTCGGGGCT 62.851 72.222 15.23 1.00 44.87 5.19
339 558 4.507916 TCGGAGGAGGCTCTCGGG 62.508 72.222 15.23 2.30 35.60 5.14
370 589 3.000819 TAGGTCAGGGCGTGGTGG 61.001 66.667 7.42 0.00 0.00 4.61
371 590 2.579201 CTAGGTCAGGGCGTGGTG 59.421 66.667 7.42 0.00 0.00 4.17
372 591 3.391382 GCTAGGTCAGGGCGTGGT 61.391 66.667 7.42 0.00 0.00 4.16
373 592 4.514577 CGCTAGGTCAGGGCGTGG 62.515 72.222 7.42 0.00 43.28 4.94
395 614 4.404098 ATGTTCCCGGCCGGTGAC 62.404 66.667 40.52 34.57 0.00 3.67
396 615 4.090588 GATGTTCCCGGCCGGTGA 62.091 66.667 40.52 32.52 0.00 4.02
431 650 2.259875 GACTCTCCTCTCCACGCGTG 62.260 65.000 31.77 31.77 0.00 5.34
432 651 2.034376 ACTCTCCTCTCCACGCGT 59.966 61.111 5.58 5.58 0.00 6.01
433 652 2.795297 GACTCTCCTCTCCACGCG 59.205 66.667 3.53 3.53 0.00 6.01
434 653 2.766400 CCGACTCTCCTCTCCACGC 61.766 68.421 0.00 0.00 0.00 5.34
435 654 2.766400 GCCGACTCTCCTCTCCACG 61.766 68.421 0.00 0.00 0.00 4.94
436 655 2.419739 GGCCGACTCTCCTCTCCAC 61.420 68.421 0.00 0.00 0.00 4.02
437 656 2.043852 GGCCGACTCTCCTCTCCA 60.044 66.667 0.00 0.00 0.00 3.86
438 657 2.835895 GGGCCGACTCTCCTCTCC 60.836 72.222 0.00 0.00 0.00 3.71
439 658 2.124693 CAGGGCCGACTCTCCTCTC 61.125 68.421 0.00 0.00 0.00 3.20
440 659 2.043450 CAGGGCCGACTCTCCTCT 60.043 66.667 0.00 0.00 0.00 3.69
441 660 3.844090 GCAGGGCCGACTCTCCTC 61.844 72.222 0.00 0.00 0.00 3.71
458 677 4.814294 GGTAGGTGCTGGCGACGG 62.814 72.222 0.00 0.00 40.79 4.79
460 679 4.065281 ACGGTAGGTGCTGGCGAC 62.065 66.667 0.00 0.00 0.00 5.19
461 680 4.063967 CACGGTAGGTGCTGGCGA 62.064 66.667 0.00 0.00 40.33 5.54
469 688 2.033602 GGGCAAAGCACGGTAGGT 59.966 61.111 0.00 0.00 0.00 3.08
487 706 4.814294 CTACCGGTCTGCGCCACC 62.814 72.222 12.40 14.33 0.00 4.61
510 729 1.869452 ACCTCCTTCTCCCCTCCCT 60.869 63.158 0.00 0.00 0.00 4.20
513 732 1.690985 CCCACCTCCTTCTCCCCTC 60.691 68.421 0.00 0.00 0.00 4.30
538 757 3.837570 AAACCCAAGCCGTCGGACC 62.838 63.158 17.49 0.00 0.00 4.46
539 758 1.848932 GAAAACCCAAGCCGTCGGAC 61.849 60.000 17.49 6.52 0.00 4.79
546 767 2.798145 CGTTTGTCTGAAAACCCAAGCC 60.798 50.000 8.71 0.00 36.83 4.35
561 782 2.305127 GCCTCGCACGTACGTTTGT 61.305 57.895 20.23 0.00 0.00 2.83
562 783 2.468532 GCCTCGCACGTACGTTTG 59.531 61.111 20.23 14.13 0.00 2.93
563 784 3.101428 CGCCTCGCACGTACGTTT 61.101 61.111 20.23 0.00 0.00 3.60
575 796 2.030262 CCTGCCATAGCTCGCCTC 59.970 66.667 0.00 0.00 40.80 4.70
576 797 2.370445 AACCTGCCATAGCTCGCCT 61.370 57.895 0.00 0.00 40.80 5.52
593 1120 5.675684 AGGAAAAGAAGAAAAGGCAACAA 57.324 34.783 0.00 0.00 41.41 2.83
704 1231 3.079578 GGATGTCACGTAGGATCGGATA 58.920 50.000 0.00 0.00 34.94 2.59
745 1272 2.088763 CGCGCGATTCTGTGTGTCT 61.089 57.895 28.94 0.00 0.00 3.41
764 1291 5.826643 TCTAGGGAATTTTAAGTGCCATGT 58.173 37.500 3.40 0.00 36.92 3.21
803 1351 3.447742 GTGTGGCAAAGAACAAAGGAAG 58.552 45.455 0.00 0.00 0.00 3.46
841 1389 2.185310 ATTGACGGAGGAGTGTGGCC 62.185 60.000 0.00 0.00 0.00 5.36
845 1393 1.336887 CGTGAATTGACGGAGGAGTGT 60.337 52.381 9.77 0.00 35.65 3.55
847 1395 0.389948 GCGTGAATTGACGGAGGAGT 60.390 55.000 18.96 0.00 39.81 3.85
861 1428 1.402456 GCGTTCTAGAGAAAGGCGTGA 60.402 52.381 7.22 0.00 35.58 4.35
888 1455 2.521708 GGGCAGGGCACAAACAGT 60.522 61.111 0.00 0.00 0.00 3.55
889 1456 3.305516 GGGGCAGGGCACAAACAG 61.306 66.667 0.00 0.00 30.93 3.16
890 1457 3.387609 AAGGGGCAGGGCACAAACA 62.388 57.895 0.00 0.00 30.93 2.83
891 1458 2.524148 AAGGGGCAGGGCACAAAC 60.524 61.111 0.00 0.00 30.93 2.93
892 1459 2.203625 GAAGGGGCAGGGCACAAA 60.204 61.111 0.00 0.00 30.93 2.83
893 1460 4.299796 GGAAGGGGCAGGGCACAA 62.300 66.667 0.00 0.00 30.93 3.33
895 1462 4.066139 ATGGAAGGGGCAGGGCAC 62.066 66.667 0.00 0.00 0.00 5.01
896 1463 3.743017 GATGGAAGGGGCAGGGCA 61.743 66.667 0.00 0.00 0.00 5.36
897 1464 2.990994 GATGATGGAAGGGGCAGGGC 62.991 65.000 0.00 0.00 0.00 5.19
898 1465 1.152368 GATGATGGAAGGGGCAGGG 59.848 63.158 0.00 0.00 0.00 4.45
899 1466 1.152368 GGATGATGGAAGGGGCAGG 59.848 63.158 0.00 0.00 0.00 4.85
900 1467 1.228063 CGGATGATGGAAGGGGCAG 60.228 63.158 0.00 0.00 0.00 4.85
901 1468 2.918248 CGGATGATGGAAGGGGCA 59.082 61.111 0.00 0.00 0.00 5.36
902 1469 2.595754 GCGGATGATGGAAGGGGC 60.596 66.667 0.00 0.00 0.00 5.80
903 1470 1.754380 TACGCGGATGATGGAAGGGG 61.754 60.000 12.47 0.00 0.00 4.79
904 1471 0.321671 ATACGCGGATGATGGAAGGG 59.678 55.000 12.47 0.00 0.00 3.95
905 1472 3.313012 TTATACGCGGATGATGGAAGG 57.687 47.619 15.81 0.00 0.00 3.46
906 1473 4.152402 CCTTTTATACGCGGATGATGGAAG 59.848 45.833 15.81 6.56 0.00 3.46
907 1474 4.062293 CCTTTTATACGCGGATGATGGAA 58.938 43.478 15.81 0.00 0.00 3.53
908 1475 3.322541 TCCTTTTATACGCGGATGATGGA 59.677 43.478 15.81 15.71 0.00 3.41
909 1476 3.659786 TCCTTTTATACGCGGATGATGG 58.340 45.455 15.81 13.70 0.00 3.51
910 1477 4.386049 GTCTCCTTTTATACGCGGATGATG 59.614 45.833 15.81 4.84 0.00 3.07
911 1478 4.038763 TGTCTCCTTTTATACGCGGATGAT 59.961 41.667 15.81 1.96 0.00 2.45
912 1479 3.382227 TGTCTCCTTTTATACGCGGATGA 59.618 43.478 15.81 1.61 0.00 2.92
913 1480 3.713288 TGTCTCCTTTTATACGCGGATG 58.287 45.455 15.81 0.00 0.00 3.51
914 1481 3.383825 ACTGTCTCCTTTTATACGCGGAT 59.616 43.478 9.74 9.74 0.00 4.18
915 1482 2.756760 ACTGTCTCCTTTTATACGCGGA 59.243 45.455 12.47 0.00 0.00 5.54
916 1483 3.160777 ACTGTCTCCTTTTATACGCGG 57.839 47.619 12.47 0.00 0.00 6.46
917 1484 3.729716 GCTACTGTCTCCTTTTATACGCG 59.270 47.826 3.53 3.53 0.00 6.01
918 1485 4.679662 TGCTACTGTCTCCTTTTATACGC 58.320 43.478 0.00 0.00 0.00 4.42
919 1486 6.237861 GCTTTGCTACTGTCTCCTTTTATACG 60.238 42.308 0.00 0.00 0.00 3.06
932 1499 3.239861 GCTCCTGCTTTGCTACTGT 57.760 52.632 0.00 0.00 36.03 3.55
977 1549 1.598601 GTATCTCGACAGGACTCGGTC 59.401 57.143 0.00 0.00 34.27 4.79
978 1550 1.666054 GTATCTCGACAGGACTCGGT 58.334 55.000 0.00 0.00 34.27 4.69
1118 1703 2.494445 CTGTAGATCGCCGCCACA 59.506 61.111 0.00 0.00 0.00 4.17
1250 1835 1.153997 GAGAAGTCCGTCGGAGCAC 60.154 63.158 15.95 8.72 29.39 4.40
1320 1919 1.065926 TGCCATGTACTGAAGCAGAGG 60.066 52.381 0.82 0.00 35.18 3.69
1338 1937 0.456995 GAGAGCGGTACACTCAGTGC 60.457 60.000 4.13 0.00 40.48 4.40
1343 2014 0.097325 CAGACGAGAGCGGTACACTC 59.903 60.000 6.97 6.97 43.17 3.51
1349 2020 1.016130 CATTTGCAGACGAGAGCGGT 61.016 55.000 0.00 0.00 43.17 5.68
1555 2227 0.462047 GGCGTAGGTGGACTTCATGG 60.462 60.000 0.00 0.00 0.00 3.66
1578 2250 4.272504 GGAAATTGATGAATTGCCTGCATG 59.727 41.667 7.37 0.00 42.38 4.06
1594 2266 7.578203 AGGAGTAATAAGAGGGAAGGAAATTG 58.422 38.462 0.00 0.00 0.00 2.32
1661 2361 6.654582 TCACTGCACACACAGATTTTACATAT 59.345 34.615 0.00 0.00 40.25 1.78
1672 2376 0.439985 GCGTATCACTGCACACACAG 59.560 55.000 0.00 0.00 43.59 3.66
1710 2428 0.774908 ATCTCCCCGACCAAAACCAA 59.225 50.000 0.00 0.00 0.00 3.67
1862 2589 5.395324 CCTGAGGTTAATCGTTGGATGTACT 60.395 44.000 0.00 0.00 31.83 2.73
1909 2644 2.412591 ACTTCCTGTGATGATAGGGGG 58.587 52.381 0.00 0.00 34.76 5.40
1990 2726 1.452953 CCATCGCGGTGAGGTAGCTA 61.453 60.000 23.56 0.00 0.00 3.32
2038 2774 2.284331 TCCTTGAGGCAGGCCGTA 60.284 61.111 4.37 0.00 41.95 4.02
2149 2885 4.742012 TGAGGAAGGAGTTGAAGTAGTCT 58.258 43.478 0.00 0.00 0.00 3.24
2207 3019 1.358725 GCCTTGTGCGTGCTATTCGA 61.359 55.000 0.00 0.00 0.00 3.71
2386 3198 3.958147 CTGTGGCTGCAGGTACCGG 62.958 68.421 17.12 7.81 33.11 5.28
2387 3199 2.244117 ATCTGTGGCTGCAGGTACCG 62.244 60.000 17.12 2.66 37.12 4.02
2437 3252 6.152379 GGGAGAATCAAAACAGTTTCATCAC 58.848 40.000 0.00 0.00 36.25 3.06
2467 3282 2.435938 GCGGCGAGGTTTCCATCA 60.436 61.111 12.98 0.00 0.00 3.07
2500 3437 4.711399 CATAGCCATGGAAGAACTCATCA 58.289 43.478 18.40 0.00 0.00 3.07
2623 3611 7.781548 TGAGAGACTAACTTTGTTTGTAACC 57.218 36.000 0.00 0.00 0.00 2.85
2654 3645 7.362056 CCAAATCAACACGTAAAATCCTCTCAT 60.362 37.037 0.00 0.00 0.00 2.90
2689 3680 9.537852 TCTTTAGAGGAATGTAGGTTTGTACTA 57.462 33.333 0.00 0.00 0.00 1.82
2690 3681 8.431910 TCTTTAGAGGAATGTAGGTTTGTACT 57.568 34.615 0.00 0.00 0.00 2.73
2691 3682 9.152595 CTTCTTTAGAGGAATGTAGGTTTGTAC 57.847 37.037 0.00 0.00 0.00 2.90
2706 3697 7.259290 TGTAACTTTGCAACTTCTTTAGAGG 57.741 36.000 0.00 0.00 0.00 3.69
2793 3785 2.163211 GCTTTGGAGTCCAGATGAAAGC 59.837 50.000 23.21 23.21 35.94 3.51
2809 4259 1.239968 AAAGCTCGCTGGAGGCTTTG 61.240 55.000 10.65 0.00 41.14 2.77
2862 4313 7.360017 GCACATTTATTTGCTGGTAGGTTTTTC 60.360 37.037 0.00 0.00 35.74 2.29
2870 4321 5.459536 TTGTGCACATTTATTTGCTGGTA 57.540 34.783 22.39 0.00 39.62 3.25
2901 4352 4.272261 GGCTGTTAAATCTTAGCTCTCAGC 59.728 45.833 0.00 0.00 42.99 4.26
3003 4454 3.284793 TCCCGTTTCCAAGAACTTTGA 57.715 42.857 0.00 0.00 0.00 2.69
3014 4465 1.334869 CATTGCTGCTATCCCGTTTCC 59.665 52.381 0.00 0.00 0.00 3.13
3054 4505 1.809547 GAGGAAGCTTGGAAGAAGCAC 59.190 52.381 2.10 2.90 45.30 4.40
3233 4823 1.222936 CCGCTTGGATTCAGGAGCT 59.777 57.895 0.00 0.00 33.09 4.09
3236 4826 1.078214 CTGCCGCTTGGATTCAGGA 60.078 57.895 0.00 0.00 33.02 3.86
3338 4932 2.119495 GATACTGGAGTGGTGATGGGT 58.881 52.381 0.00 0.00 0.00 4.51
3423 5037 1.556911 CTAGCACTGGGTCTGTCCAAT 59.443 52.381 0.00 0.00 36.21 3.16
3480 5097 4.202284 GGTAGGGTTTGCCTCGTATAATCA 60.202 45.833 0.00 0.00 34.45 2.57
3527 5144 0.464916 GGTCCTGGGTTCAACGTGTT 60.465 55.000 0.00 0.00 0.00 3.32
3528 5145 1.147600 GGTCCTGGGTTCAACGTGT 59.852 57.895 0.00 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.