Multiple sequence alignment - TraesCS7B01G088300

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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 TraesCS7B01G088300 chr7B 100.000 2559 0 0 1 2559 103580911 103583469 0.000000e+00 4726.0
1 TraesCS7B01G088300 chr7B 84.077 672 69 21 787 1451 103610282 103610922 4.680000e-172 614.0
2 TraesCS7B01G088300 chr7B 84.925 597 65 15 915 1507 103615338 103615913 4.750000e-162 580.0
3 TraesCS7B01G088300 chr7B 77.553 842 127 32 1517 2322 63019574 63020389 3.880000e-123 451.0
4 TraesCS7B01G088300 chr7B 79.444 540 74 15 1515 2018 487332043 487331505 5.240000e-92 348.0
5 TraesCS7B01G088300 chr7B 94.022 184 11 0 291 474 662001454 662001637 1.940000e-71 279.0
6 TraesCS7B01G088300 chr7B 89.844 128 9 3 787 913 103610157 103610281 7.330000e-36 161.0
7 TraesCS7B01G088300 chr7B 79.096 177 29 8 91 261 613023347 613023173 5.790000e-22 115.0
8 TraesCS7B01G088300 chr7B 94.444 54 2 1 1454 1507 103610951 103611003 5.870000e-12 82.4
9 TraesCS7B01G088300 chr7A 88.358 2053 156 33 489 2511 138181655 138183654 0.000000e+00 2390.0
10 TraesCS7B01G088300 chr7A 83.858 762 63 28 789 1507 138343533 138344277 0.000000e+00 671.0
11 TraesCS7B01G088300 chr7A 90.397 302 23 3 1 296 138181337 138181638 2.390000e-105 392.0
12 TraesCS7B01G088300 chr7A 85.492 386 38 11 1131 1507 138348409 138348785 1.110000e-103 387.0
13 TraesCS7B01G088300 chr7A 82.493 377 44 10 514 881 138283992 138284355 6.880000e-81 311.0
14 TraesCS7B01G088300 chr7A 89.540 239 18 5 875 1111 138348036 138348269 1.930000e-76 296.0
15 TraesCS7B01G088300 chr7A 90.476 84 5 3 91 172 648790271 648790189 9.680000e-20 108.0
16 TraesCS7B01G088300 chr7D 91.750 1006 56 11 511 1507 138280634 138281621 0.000000e+00 1373.0
17 TraesCS7B01G088300 chr7D 83.228 948 87 31 611 1507 138283825 138284751 0.000000e+00 804.0
18 TraesCS7B01G088300 chr7D 85.202 642 64 18 875 1507 138308238 138308857 4.650000e-177 630.0
19 TraesCS7B01G088300 chr7D 86.008 243 24 6 26 258 138283399 138283641 4.230000e-63 252.0
20 TraesCS7B01G088300 chr7D 91.061 179 15 1 1 179 138277011 138277188 9.150000e-60 241.0
21 TraesCS7B01G088300 chr7D 93.220 59 4 0 2499 2557 105328118 105328060 1.260000e-13 87.9
22 TraesCS7B01G088300 chr7D 87.143 70 7 2 2490 2557 238174177 238174108 7.590000e-11 78.7
23 TraesCS7B01G088300 chr6B 78.867 847 124 23 1515 2322 545212892 545213722 2.920000e-144 521.0
24 TraesCS7B01G088300 chr6B 92.821 195 12 2 282 474 213152369 213152563 5.390000e-72 281.0
25 TraesCS7B01G088300 chr6B 94.444 180 10 0 289 468 525106417 525106238 6.970000e-71 278.0
26 TraesCS7B01G088300 chr6B 92.973 185 13 0 284 468 471126453 471126637 1.170000e-68 270.0
27 TraesCS7B01G088300 chr6B 79.042 167 28 3 1515 1674 557425318 557425484 9.680000e-20 108.0
28 TraesCS7B01G088300 chr6B 93.220 59 2 1 2501 2559 674162884 674162940 4.540000e-13 86.1
29 TraesCS7B01G088300 chr1A 77.686 847 135 21 1515 2322 391946831 391946000 3.860000e-128 468.0
30 TraesCS7B01G088300 chr4B 77.488 844 142 22 1518 2320 644281065 644280229 1.790000e-126 462.0
31 TraesCS7B01G088300 chr4B 73.770 305 64 13 2036 2331 579578633 579578336 3.480000e-19 106.0
32 TraesCS7B01G088300 chr4B 87.805 82 7 2 1518 1596 427031306 427031387 2.710000e-15 93.5
33 TraesCS7B01G088300 chr4B 98.039 51 1 0 2509 2559 215903037 215903087 3.510000e-14 89.8
34 TraesCS7B01G088300 chr4B 98.039 51 1 0 2509 2559 347852947 347852997 3.510000e-14 89.8
35 TraesCS7B01G088300 chr3B 79.155 710 102 18 1517 2187 556033012 556032310 1.400000e-122 449.0
36 TraesCS7B01G088300 chr3B 94.118 187 10 1 288 473 30526030 30526216 1.500000e-72 283.0
37 TraesCS7B01G088300 chr3B 91.753 194 14 2 281 473 785329065 785329257 4.200000e-68 268.0
38 TraesCS7B01G088300 chr3B 89.706 204 21 0 283 486 795486479 795486276 7.020000e-66 261.0
39 TraesCS7B01G088300 chr2A 93.583 187 11 1 288 474 72943257 72943072 6.970000e-71 278.0
40 TraesCS7B01G088300 chr2B 91.753 194 14 2 281 473 741465630 741465438 4.200000e-68 268.0
41 TraesCS7B01G088300 chr2B 86.316 95 9 2 53 145 398708392 398708300 1.620000e-17 100.0
42 TraesCS7B01G088300 chr1B 75.897 585 98 19 1515 2061 576741292 576741871 2.530000e-65 259.0
43 TraesCS7B01G088300 chr1B 80.473 338 56 4 1793 2120 517351388 517351051 1.520000e-62 250.0
44 TraesCS7B01G088300 chr1B 85.417 96 9 3 1515 1606 585168016 585168110 7.540000e-16 95.3
45 TraesCS7B01G088300 chr4D 75.254 493 109 11 1960 2445 485381329 485380843 3.310000e-54 222.0
46 TraesCS7B01G088300 chr5B 81.714 175 27 4 92 261 255969463 255969289 9.550000e-30 141.0
47 TraesCS7B01G088300 chr5B 93.478 46 2 1 1515 1559 705052660 705052615 1.640000e-07 67.6
48 TraesCS7B01G088300 chr4A 77.358 265 42 15 1 250 43371119 43371380 9.550000e-30 141.0
49 TraesCS7B01G088300 chr4A 93.443 61 4 0 2499 2559 697924383 697924443 9.750000e-15 91.6
50 TraesCS7B01G088300 chr4A 93.220 59 4 0 2499 2557 509074017 509074075 1.260000e-13 87.9
51 TraesCS7B01G088300 chr2D 92.771 83 5 1 83 164 330495912 330495830 4.470000e-23 119.0
52 TraesCS7B01G088300 chr2D 72.638 307 64 15 2036 2331 91214055 91213758 1.630000e-12 84.2
53 TraesCS7B01G088300 chrUn 82.946 129 18 3 1638 1764 22755191 22755065 2.080000e-21 113.0
54 TraesCS7B01G088300 chr5D 88.298 94 6 4 1517 1606 483567780 483567872 9.680000e-20 108.0
55 TraesCS7B01G088300 chr3A 100.000 49 0 0 2509 2557 153028704 153028752 9.750000e-15 91.6
56 TraesCS7B01G088300 chr6A 93.220 59 4 0 2499 2557 250013285 250013343 1.260000e-13 87.9
57 TraesCS7B01G088300 chr5A 88.571 70 5 3 1524 1590 411154003 411154072 5.870000e-12 82.4


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 TraesCS7B01G088300 chr7B 103580911 103583469 2558 False 4726.000000 4726 100.000000 1 2559 1 chr7B.!!$F2 2558
1 TraesCS7B01G088300 chr7B 103615338 103615913 575 False 580.000000 580 84.925000 915 1507 1 chr7B.!!$F3 592
2 TraesCS7B01G088300 chr7B 63019574 63020389 815 False 451.000000 451 77.553000 1517 2322 1 chr7B.!!$F1 805
3 TraesCS7B01G088300 chr7B 487331505 487332043 538 True 348.000000 348 79.444000 1515 2018 1 chr7B.!!$R1 503
4 TraesCS7B01G088300 chr7B 103610157 103611003 846 False 285.800000 614 89.455000 787 1507 3 chr7B.!!$F5 720
5 TraesCS7B01G088300 chr7A 138181337 138183654 2317 False 1391.000000 2390 89.377500 1 2511 2 chr7A.!!$F2 2510
6 TraesCS7B01G088300 chr7A 138343533 138348785 5252 False 451.333333 671 86.296667 789 1507 3 chr7A.!!$F3 718
7 TraesCS7B01G088300 chr7D 138277011 138284751 7740 False 667.500000 1373 88.011750 1 1507 4 chr7D.!!$F2 1506
8 TraesCS7B01G088300 chr7D 138308238 138308857 619 False 630.000000 630 85.202000 875 1507 1 chr7D.!!$F1 632
9 TraesCS7B01G088300 chr6B 545212892 545213722 830 False 521.000000 521 78.867000 1515 2322 1 chr6B.!!$F3 807
10 TraesCS7B01G088300 chr1A 391946000 391946831 831 True 468.000000 468 77.686000 1515 2322 1 chr1A.!!$R1 807
11 TraesCS7B01G088300 chr4B 644280229 644281065 836 True 462.000000 462 77.488000 1518 2320 1 chr4B.!!$R2 802
12 TraesCS7B01G088300 chr3B 556032310 556033012 702 True 449.000000 449 79.155000 1517 2187 1 chr3B.!!$R1 670
13 TraesCS7B01G088300 chr1B 576741292 576741871 579 False 259.000000 259 75.897000 1515 2061 1 chr1B.!!$F1 546

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
386 609 1.277326 TAAGATGCGTGCGTGATGAC 58.723 50.0 0.0 0.0 0.0 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2307 13349 0.036732 TGTCTGGAGCATGGGTGAAC 59.963 55.0 0.0 0.0 0.0 3.18 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
79 80 2.474612 GGCGGTTGGTTGTTCACGT 61.475 57.895 0.00 0.00 0.00 4.49
81 82 1.984321 GCGGTTGGTTGTTCACGTGT 61.984 55.000 16.51 0.00 0.00 4.49
108 109 1.997606 GCGTTTTACATCACTAGGCGT 59.002 47.619 0.00 0.00 0.00 5.68
109 110 2.222729 GCGTTTTACATCACTAGGCGTG 60.223 50.000 0.00 0.00 45.18 5.34
111 112 3.181534 CGTTTTACATCACTAGGCGTGTG 60.182 47.826 6.58 6.58 44.16 3.82
175 176 5.946377 ACTTGGAGGAGGTGATGTAAAAATC 59.054 40.000 0.00 0.00 0.00 2.17
271 276 6.746104 TCATGTATTGAAGCAACGTTTTTG 57.254 33.333 0.00 0.00 0.00 2.44
277 284 2.427453 TGAAGCAACGTTTTTGGCCTTA 59.573 40.909 3.32 0.00 0.00 2.69
283 290 4.558697 GCAACGTTTTTGGCCTTAGAGATT 60.559 41.667 3.32 0.00 0.00 2.40
287 294 6.235664 ACGTTTTTGGCCTTAGAGATTTAGA 58.764 36.000 3.32 0.00 0.00 2.10
288 295 6.713450 ACGTTTTTGGCCTTAGAGATTTAGAA 59.287 34.615 3.32 0.00 0.00 2.10
289 296 7.229907 ACGTTTTTGGCCTTAGAGATTTAGAAA 59.770 33.333 3.32 0.00 0.00 2.52
290 297 8.079809 CGTTTTTGGCCTTAGAGATTTAGAAAA 58.920 33.333 3.32 0.00 0.00 2.29
293 300 7.687941 TTGGCCTTAGAGATTTAGAAAACAG 57.312 36.000 3.32 0.00 0.00 3.16
294 301 6.779860 TGGCCTTAGAGATTTAGAAAACAGT 58.220 36.000 3.32 0.00 0.00 3.55
295 302 7.231467 TGGCCTTAGAGATTTAGAAAACAGTT 58.769 34.615 3.32 0.00 0.00 3.16
296 303 7.724061 TGGCCTTAGAGATTTAGAAAACAGTTT 59.276 33.333 3.32 0.00 0.00 2.66
297 304 8.577296 GGCCTTAGAGATTTAGAAAACAGTTTT 58.423 33.333 11.22 11.22 35.12 2.43
299 306 9.399403 CCTTAGAGATTTAGAAAACAGTTTTGC 57.601 33.333 16.21 7.83 31.94 3.68
305 312 9.952188 AGATTTAGAAAACAGTTTTGCTAGAAC 57.048 29.630 16.21 10.38 34.75 3.01
306 313 9.952188 GATTTAGAAAACAGTTTTGCTAGAACT 57.048 29.630 16.21 7.43 34.75 3.01
307 314 9.952188 ATTTAGAAAACAGTTTTGCTAGAACTC 57.048 29.630 16.21 0.00 34.75 3.01
308 315 8.500753 TTAGAAAACAGTTTTGCTAGAACTCA 57.499 30.769 16.21 0.00 34.75 3.41
311 318 7.500559 AGAAAACAGTTTTGCTAGAACTCATCT 59.499 33.333 16.21 0.00 35.26 2.90
312 319 8.677148 AAAACAGTTTTGCTAGAACTCATCTA 57.323 30.769 10.62 0.00 39.71 1.98
350 357 7.875327 TTGGTCTCATTTACCTTTTATAGCC 57.125 36.000 0.00 0.00 37.91 3.93
352 359 7.582719 TGGTCTCATTTACCTTTTATAGCCAT 58.417 34.615 0.00 0.00 37.91 4.40
353 360 8.058847 TGGTCTCATTTACCTTTTATAGCCATT 58.941 33.333 0.00 0.00 37.91 3.16
356 363 8.278639 TCTCATTTACCTTTTATAGCCATTGGA 58.721 33.333 6.95 0.00 0.00 3.53
358 365 8.859090 TCATTTACCTTTTATAGCCATTGGATG 58.141 33.333 6.95 0.00 0.00 3.51
359 366 8.641541 CATTTACCTTTTATAGCCATTGGATGT 58.358 33.333 6.95 0.10 0.00 3.06
360 367 7.581213 TTACCTTTTATAGCCATTGGATGTG 57.419 36.000 6.95 0.00 0.00 3.21
361 368 5.765510 ACCTTTTATAGCCATTGGATGTGA 58.234 37.500 6.95 0.00 0.00 3.58
362 369 6.376248 ACCTTTTATAGCCATTGGATGTGAT 58.624 36.000 6.95 0.00 0.00 3.06
363 370 6.266103 ACCTTTTATAGCCATTGGATGTGATG 59.734 38.462 6.95 0.00 0.00 3.07
364 371 5.710513 TTTATAGCCATTGGATGTGATGC 57.289 39.130 6.95 0.00 0.00 3.91
365 372 3.520691 ATAGCCATTGGATGTGATGCT 57.479 42.857 6.95 0.00 0.00 3.79
367 590 3.520691 AGCCATTGGATGTGATGCTAT 57.479 42.857 6.95 0.00 0.00 2.97
370 593 5.008331 AGCCATTGGATGTGATGCTATAAG 58.992 41.667 6.95 0.00 0.00 1.73
375 598 4.248058 TGGATGTGATGCTATAAGATGCG 58.752 43.478 0.00 0.00 0.00 4.73
377 600 4.092529 GGATGTGATGCTATAAGATGCGTG 59.907 45.833 0.00 0.00 0.00 5.34
384 607 2.159920 GCTATAAGATGCGTGCGTGATG 60.160 50.000 0.00 0.00 0.00 3.07
385 608 2.223537 ATAAGATGCGTGCGTGATGA 57.776 45.000 0.00 0.00 0.00 2.92
386 609 1.277326 TAAGATGCGTGCGTGATGAC 58.723 50.000 0.00 0.00 0.00 3.06
395 618 4.354155 CGTGATGACGTGGGTTGT 57.646 55.556 0.00 0.00 40.91 3.32
397 620 2.004583 CGTGATGACGTGGGTTGTAT 57.995 50.000 0.00 0.00 40.91 2.29
399 622 2.416836 CGTGATGACGTGGGTTGTATCT 60.417 50.000 0.00 0.00 40.91 1.98
400 623 2.930040 GTGATGACGTGGGTTGTATCTG 59.070 50.000 0.00 0.00 0.00 2.90
401 624 2.565391 TGATGACGTGGGTTGTATCTGT 59.435 45.455 0.00 0.00 0.00 3.41
406 934 4.035792 TGACGTGGGTTGTATCTGTTTTTG 59.964 41.667 0.00 0.00 0.00 2.44
428 956 6.928979 TGTTTTCAAAGTAAATGAGACCGA 57.071 33.333 0.00 0.00 0.00 4.69
429 957 7.323049 TGTTTTCAAAGTAAATGAGACCGAA 57.677 32.000 0.00 0.00 0.00 4.30
430 958 7.936584 TGTTTTCAAAGTAAATGAGACCGAAT 58.063 30.769 0.00 0.00 0.00 3.34
431 959 8.410141 TGTTTTCAAAGTAAATGAGACCGAATT 58.590 29.630 0.00 0.00 0.00 2.17
520 3666 3.908733 AGATGCTCTGGTGGTCATCATAT 59.091 43.478 0.00 0.00 38.15 1.78
555 3703 5.701224 CCCATAGGCCTGATAGGTTAAAAA 58.299 41.667 17.99 0.00 37.80 1.94
556 3704 5.535030 CCCATAGGCCTGATAGGTTAAAAAC 59.465 44.000 17.99 0.00 37.80 2.43
557 3705 6.365520 CCATAGGCCTGATAGGTTAAAAACT 58.634 40.000 17.99 0.00 37.80 2.66
558 3706 6.833933 CCATAGGCCTGATAGGTTAAAAACTT 59.166 38.462 17.99 0.00 37.80 2.66
559 3707 7.996644 CCATAGGCCTGATAGGTTAAAAACTTA 59.003 37.037 17.99 0.00 37.80 2.24
560 3708 9.403583 CATAGGCCTGATAGGTTAAAAACTTAA 57.596 33.333 17.99 0.00 37.80 1.85
561 3709 9.984590 ATAGGCCTGATAGGTTAAAAACTTAAA 57.015 29.630 17.99 0.00 37.80 1.52
562 3710 8.715190 AGGCCTGATAGGTTAAAAACTTAAAA 57.285 30.769 3.11 0.00 37.80 1.52
647 3795 7.330262 TGAACACATCAGCAAACTATATCAGA 58.670 34.615 0.00 0.00 33.04 3.27
652 3800 5.718649 TCAGCAAACTATATCAGAAACGC 57.281 39.130 0.00 0.00 0.00 4.84
773 3924 2.134789 ATGCCAGCCTTCCTACTTTG 57.865 50.000 0.00 0.00 0.00 2.77
785 3936 1.470098 CCTACTTTGCACATGCCAGTC 59.530 52.381 8.64 0.00 41.18 3.51
822 3975 2.323959 ACGCACACACACAAACAAAAG 58.676 42.857 0.00 0.00 0.00 2.27
856 4009 1.459592 CTGTTTTCTTGCGGGTACTCG 59.540 52.381 11.78 11.78 0.00 4.18
992 4268 7.038445 CCCTTCTCTACATTCATCCATCATAGT 60.038 40.741 0.00 0.00 0.00 2.12
993 4269 9.029368 CCTTCTCTACATTCATCCATCATAGTA 57.971 37.037 0.00 0.00 0.00 1.82
1009 4285 8.152898 CCATCATAGTACAATCCATCTTGAAGA 58.847 37.037 0.00 0.00 0.00 2.87
1111 4395 2.401699 CTGCTCCTTGTGGCCACAGA 62.402 60.000 35.60 28.49 42.94 3.41
1128 4412 6.936900 GGCCACAGATATGTATGATGTACTTT 59.063 38.462 0.00 0.00 0.00 2.66
1287 9103 3.758425 GAGCCACAAGTTTAAGGGGTTA 58.242 45.455 0.00 0.00 0.00 2.85
1332 12272 0.880278 GTGTTTGCCTCACAGAGCGA 60.880 55.000 0.00 0.00 36.05 4.93
1393 12333 1.303309 ATGCACCGAGAAATGCTAGC 58.697 50.000 8.10 8.10 42.55 3.42
1439 12381 5.233476 ACGTACATGCTTCCGTGTAATATTG 59.767 40.000 0.00 0.00 43.15 1.90
1546 12521 4.952335 AGGCAAAAGATTTACCTCATCCAG 59.048 41.667 0.00 0.00 0.00 3.86
1576 12551 5.026790 AGTAGAAGAGAGTTGCCCAGTTAT 58.973 41.667 0.00 0.00 0.00 1.89
1585 12563 5.365314 AGAGTTGCCCAGTTATTTGGAAAAA 59.635 36.000 0.00 0.00 40.87 1.94
1606 12584 1.067915 CGGGCGAAAACCATCACAAAT 60.068 47.619 0.00 0.00 0.00 2.32
1634 12612 1.134401 CGGCACACTCAAGATACCCAT 60.134 52.381 0.00 0.00 0.00 4.00
1636 12614 3.733337 GGCACACTCAAGATACCCATAG 58.267 50.000 0.00 0.00 0.00 2.23
1684 12662 0.315886 ACAGTACAACGACGCCATCA 59.684 50.000 0.00 0.00 0.00 3.07
1687 12665 0.570734 GTACAACGACGCCATCATCG 59.429 55.000 0.00 0.00 43.97 3.84
1699 12677 1.759445 CCATCATCGTCACTTCTCCCT 59.241 52.381 0.00 0.00 0.00 4.20
1740 12718 4.262506 CCCCAAACTCTAAGAAACGACTCT 60.263 45.833 0.00 0.00 0.00 3.24
1798 12824 1.550327 AGATCTGTGCGAGACCTCAA 58.450 50.000 0.00 0.00 31.75 3.02
1854 12880 2.161808 CGAAGAGCTACGAAGGAGAACA 59.838 50.000 0.00 0.00 0.00 3.18
1855 12881 3.181495 CGAAGAGCTACGAAGGAGAACAT 60.181 47.826 0.00 0.00 0.00 2.71
1858 12884 2.166664 GAGCTACGAAGGAGAACATGGT 59.833 50.000 0.00 0.00 0.00 3.55
1859 12885 2.567615 AGCTACGAAGGAGAACATGGTT 59.432 45.455 0.00 0.00 0.00 3.67
1860 12886 2.673368 GCTACGAAGGAGAACATGGTTG 59.327 50.000 0.00 0.00 0.00 3.77
1861 12887 2.930826 ACGAAGGAGAACATGGTTGT 57.069 45.000 0.00 0.00 37.82 3.32
1948 12984 2.029649 CCACTGCAGCTTAGCAACAAAT 60.030 45.455 15.27 0.00 45.13 2.32
1957 12993 2.472695 TAGCAACAAATCAGCCGAGT 57.527 45.000 0.00 0.00 0.00 4.18
2012 13048 1.832167 ACAACCAATGCCACGCCTT 60.832 52.632 0.00 0.00 0.00 4.35
2075 13112 1.631405 CCAACACAACCACCATCCAT 58.369 50.000 0.00 0.00 0.00 3.41
2077 13114 3.161067 CCAACACAACCACCATCCATAA 58.839 45.455 0.00 0.00 0.00 1.90
2082 13119 2.919602 ACAACCACCATCCATAAGTCCT 59.080 45.455 0.00 0.00 0.00 3.85
2095 13132 1.016130 AAGTCCTGCTTGTCGATGCG 61.016 55.000 0.00 0.00 35.80 4.73
2144 13181 2.293399 GGAAAATGACACCAAAGCGTCT 59.707 45.455 0.00 0.00 33.18 4.18
2161 13198 1.338337 GTCTCCATCGTCCGATCACAT 59.662 52.381 0.00 0.00 31.62 3.21
2184 13222 1.267121 TCAAGAGTTTCCCTCGGAGG 58.733 55.000 17.41 17.41 45.44 4.30
2239 13279 0.529119 GTAGCAATGCAGCAATGCCC 60.529 55.000 28.33 17.29 40.72 5.36
2247 13287 1.829523 GCAGCAATGCCCCCAAGAAA 61.830 55.000 0.00 0.00 0.00 2.52
2261 13301 1.531149 CAAGAAATGTCAACGACGCCT 59.469 47.619 0.00 0.00 34.95 5.52
2263 13303 0.165944 GAAATGTCAACGACGCCTGG 59.834 55.000 0.00 0.00 34.95 4.45
2266 13306 1.816863 ATGTCAACGACGCCTGGAGT 61.817 55.000 1.61 1.61 34.95 3.85
2268 13308 2.197605 TCAACGACGCCTGGAGTCA 61.198 57.895 26.52 7.69 38.46 3.41
2290 13330 1.915614 GCCATCGCTGGTCACAACAG 61.916 60.000 7.21 0.00 45.10 3.16
2291 13331 1.300971 CCATCGCTGGTCACAACAGG 61.301 60.000 0.00 0.00 37.79 4.00
2307 13349 1.682684 AGGTAGCCGAGACAGGGTG 60.683 63.158 0.00 0.00 42.69 4.61
2325 13367 0.036732 TGTTCACCCATGCTCCAGAC 59.963 55.000 0.00 0.00 0.00 3.51
2335 13377 2.217038 GCTCCAGACACACCCTCCA 61.217 63.158 0.00 0.00 0.00 3.86
2349 13391 0.955428 CCTCCACCACACATCAACCG 60.955 60.000 0.00 0.00 0.00 4.44
2350 13392 0.955428 CTCCACCACACATCAACCGG 60.955 60.000 0.00 0.00 0.00 5.28
2380 13422 1.228862 GCAAGACCACCAACCCCAT 60.229 57.895 0.00 0.00 0.00 4.00
2388 13430 1.094785 CACCAACCCCATCATCGAAC 58.905 55.000 0.00 0.00 0.00 3.95
2481 13527 3.321039 AGGCACCAGATCCATCAATAGA 58.679 45.455 0.00 0.00 0.00 1.98
2483 13529 3.181451 GGCACCAGATCCATCAATAGACA 60.181 47.826 0.00 0.00 0.00 3.41
2490 13536 7.017353 ACCAGATCCATCAATAGACAATCAGAT 59.983 37.037 0.00 0.00 0.00 2.90
2494 13540 9.368674 GATCCATCAATAGACAATCAGATGTAG 57.631 37.037 0.00 0.00 32.29 2.74
2502 13548 1.138859 CAATCAGATGTAGGACCGCCA 59.861 52.381 0.00 0.00 36.29 5.69
2507 13553 0.601311 GATGTAGGACCGCCAGATGC 60.601 60.000 0.00 0.00 36.29 3.91
2511 13557 4.479993 GGACCGCCAGATGCAGCT 62.480 66.667 0.00 0.00 41.33 4.24
2512 13558 2.437359 GACCGCCAGATGCAGCTT 60.437 61.111 0.00 0.00 41.33 3.74
2513 13559 2.749044 ACCGCCAGATGCAGCTTG 60.749 61.111 0.00 0.00 41.33 4.01
2514 13560 2.437180 CCGCCAGATGCAGCTTGA 60.437 61.111 7.31 0.00 41.33 3.02
2515 13561 1.822613 CCGCCAGATGCAGCTTGAT 60.823 57.895 7.31 0.00 41.33 2.57
2516 13562 1.355563 CGCCAGATGCAGCTTGATG 59.644 57.895 7.31 0.00 41.33 3.07
2517 13563 1.374343 CGCCAGATGCAGCTTGATGT 61.374 55.000 7.31 0.00 41.33 3.06
2518 13564 0.381089 GCCAGATGCAGCTTGATGTC 59.619 55.000 7.31 0.00 40.77 3.06
2519 13565 2.017623 GCCAGATGCAGCTTGATGTCT 61.018 52.381 7.31 0.00 40.77 3.41
2520 13566 2.744166 GCCAGATGCAGCTTGATGTCTA 60.744 50.000 7.31 0.00 40.77 2.59
2521 13567 2.871022 CCAGATGCAGCTTGATGTCTAC 59.129 50.000 0.00 0.00 0.00 2.59
2522 13568 3.431905 CCAGATGCAGCTTGATGTCTACT 60.432 47.826 0.00 0.00 0.00 2.57
2523 13569 4.202192 CCAGATGCAGCTTGATGTCTACTA 60.202 45.833 0.00 0.00 0.00 1.82
2524 13570 4.744137 CAGATGCAGCTTGATGTCTACTAC 59.256 45.833 0.00 0.00 0.00 2.73
2525 13571 4.403752 AGATGCAGCTTGATGTCTACTACA 59.596 41.667 0.00 0.00 43.86 2.74
2526 13572 3.849911 TGCAGCTTGATGTCTACTACAC 58.150 45.455 0.00 0.00 42.09 2.90
2527 13573 3.258123 TGCAGCTTGATGTCTACTACACA 59.742 43.478 0.00 0.00 42.09 3.72
2528 13574 4.245660 GCAGCTTGATGTCTACTACACAA 58.754 43.478 0.00 0.00 42.09 3.33
2529 13575 4.092091 GCAGCTTGATGTCTACTACACAAC 59.908 45.833 0.00 0.00 42.09 3.32
2530 13576 4.627467 CAGCTTGATGTCTACTACACAACC 59.373 45.833 0.00 0.00 42.09 3.77
2531 13577 4.528596 AGCTTGATGTCTACTACACAACCT 59.471 41.667 0.00 0.00 42.09 3.50
2532 13578 5.012148 AGCTTGATGTCTACTACACAACCTT 59.988 40.000 0.00 0.00 42.09 3.50
2533 13579 5.701290 GCTTGATGTCTACTACACAACCTTT 59.299 40.000 0.00 0.00 42.09 3.11
2534 13580 6.204882 GCTTGATGTCTACTACACAACCTTTT 59.795 38.462 0.00 0.00 42.09 2.27
2535 13581 7.255139 GCTTGATGTCTACTACACAACCTTTTT 60.255 37.037 0.00 0.00 42.09 1.94
2536 13582 7.724305 TGATGTCTACTACACAACCTTTTTC 57.276 36.000 0.00 0.00 42.09 2.29
2537 13583 7.506114 TGATGTCTACTACACAACCTTTTTCT 58.494 34.615 0.00 0.00 42.09 2.52
2538 13584 7.990886 TGATGTCTACTACACAACCTTTTTCTT 59.009 33.333 0.00 0.00 42.09 2.52
2539 13585 7.548196 TGTCTACTACACAACCTTTTTCTTG 57.452 36.000 0.00 0.00 31.43 3.02
2540 13586 7.107542 TGTCTACTACACAACCTTTTTCTTGT 58.892 34.615 0.00 0.00 31.43 3.16
2541 13587 8.259411 TGTCTACTACACAACCTTTTTCTTGTA 58.741 33.333 0.00 0.00 31.43 2.41
2542 13588 9.101655 GTCTACTACACAACCTTTTTCTTGTAA 57.898 33.333 0.00 0.00 0.00 2.41
2543 13589 9.669887 TCTACTACACAACCTTTTTCTTGTAAA 57.330 29.630 0.00 0.00 0.00 2.01
2544 13590 9.712359 CTACTACACAACCTTTTTCTTGTAAAC 57.288 33.333 0.00 0.00 0.00 2.01
2545 13591 7.245604 ACTACACAACCTTTTTCTTGTAAACG 58.754 34.615 0.00 0.00 0.00 3.60
2546 13592 6.016213 ACACAACCTTTTTCTTGTAAACGT 57.984 33.333 0.00 0.00 0.00 3.99
2547 13593 6.448852 ACACAACCTTTTTCTTGTAAACGTT 58.551 32.000 0.00 0.00 0.00 3.99
2548 13594 6.363896 ACACAACCTTTTTCTTGTAAACGTTG 59.636 34.615 0.00 0.00 37.44 4.10
2549 13595 6.363896 CACAACCTTTTTCTTGTAAACGTTGT 59.636 34.615 0.00 0.00 41.24 3.32
2550 13596 6.924612 ACAACCTTTTTCTTGTAAACGTTGTT 59.075 30.769 0.00 0.00 39.46 2.83
2551 13597 6.937886 ACCTTTTTCTTGTAAACGTTGTTG 57.062 33.333 0.00 0.00 0.00 3.33
2552 13598 5.865013 ACCTTTTTCTTGTAAACGTTGTTGG 59.135 36.000 0.00 0.00 0.00 3.77
2553 13599 5.289917 CCTTTTTCTTGTAAACGTTGTTGGG 59.710 40.000 0.00 0.00 0.00 4.12
2554 13600 3.423996 TTCTTGTAAACGTTGTTGGGC 57.576 42.857 0.00 0.00 0.00 5.36
2555 13601 1.677052 TCTTGTAAACGTTGTTGGGCC 59.323 47.619 0.00 0.00 0.00 5.80
2556 13602 1.679153 CTTGTAAACGTTGTTGGGCCT 59.321 47.619 4.53 0.00 0.00 5.19
2557 13603 1.025812 TGTAAACGTTGTTGGGCCTG 58.974 50.000 4.53 0.00 0.00 4.85
2558 13604 0.318360 GTAAACGTTGTTGGGCCTGC 60.318 55.000 4.53 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 3.417185 CGCCGAATCTGAAACTTTTAGC 58.583 45.455 0.00 0.00 0.00 3.09
79 80 0.538516 ATGTAAAACGCCCAGCCACA 60.539 50.000 0.00 0.00 0.00 4.17
81 82 0.250945 TGATGTAAAACGCCCAGCCA 60.251 50.000 0.00 0.00 0.00 4.75
108 109 4.346730 AGATCCAAATTTGCATCTCCACA 58.653 39.130 17.29 0.00 0.00 4.17
109 110 4.929781 GAGATCCAAATTTGCATCTCCAC 58.070 43.478 30.13 14.49 36.69 4.02
258 263 2.691011 TCTAAGGCCAAAAACGTTGCTT 59.309 40.909 5.01 0.00 0.00 3.91
271 276 7.689446 AACTGTTTTCTAAATCTCTAAGGCC 57.311 36.000 0.00 0.00 0.00 5.19
277 284 9.561069 TCTAGCAAAACTGTTTTCTAAATCTCT 57.439 29.630 15.17 5.92 0.00 3.10
283 290 8.500753 TGAGTTCTAGCAAAACTGTTTTCTAA 57.499 30.769 15.17 6.20 37.10 2.10
287 294 7.573968 AGATGAGTTCTAGCAAAACTGTTTT 57.426 32.000 12.50 12.50 37.10 2.43
288 295 8.316640 CTAGATGAGTTCTAGCAAAACTGTTT 57.683 34.615 0.00 0.00 45.63 2.83
289 296 7.897575 CTAGATGAGTTCTAGCAAAACTGTT 57.102 36.000 0.32 0.00 45.63 3.16
326 333 7.406916 TGGCTATAAAAGGTAAATGAGACCAA 58.593 34.615 0.00 0.00 39.65 3.67
327 334 6.964464 TGGCTATAAAAGGTAAATGAGACCA 58.036 36.000 0.00 0.00 39.65 4.02
328 335 8.352942 CAATGGCTATAAAAGGTAAATGAGACC 58.647 37.037 0.00 0.00 37.22 3.85
329 336 8.352942 CCAATGGCTATAAAAGGTAAATGAGAC 58.647 37.037 0.00 0.00 0.00 3.36
330 337 8.278639 TCCAATGGCTATAAAAGGTAAATGAGA 58.721 33.333 0.00 0.00 0.00 3.27
331 338 8.463930 TCCAATGGCTATAAAAGGTAAATGAG 57.536 34.615 0.00 0.00 0.00 2.90
332 339 8.859090 CATCCAATGGCTATAAAAGGTAAATGA 58.141 33.333 0.00 0.00 0.00 2.57
335 342 7.836685 TCACATCCAATGGCTATAAAAGGTAAA 59.163 33.333 0.00 0.00 33.60 2.01
336 343 7.350382 TCACATCCAATGGCTATAAAAGGTAA 58.650 34.615 0.00 0.00 33.60 2.85
338 345 5.765510 TCACATCCAATGGCTATAAAAGGT 58.234 37.500 0.00 0.00 33.60 3.50
339 346 6.684686 CATCACATCCAATGGCTATAAAAGG 58.315 40.000 0.00 0.00 33.60 3.11
341 348 5.834742 AGCATCACATCCAATGGCTATAAAA 59.165 36.000 0.00 0.00 33.60 1.52
342 349 5.387788 AGCATCACATCCAATGGCTATAAA 58.612 37.500 0.00 0.00 33.60 1.40
343 350 4.989277 AGCATCACATCCAATGGCTATAA 58.011 39.130 0.00 0.00 33.60 0.98
344 351 4.645863 AGCATCACATCCAATGGCTATA 57.354 40.909 0.00 0.00 33.60 1.31
346 353 4.645863 ATAGCATCACATCCAATGGCTA 57.354 40.909 0.00 0.00 33.60 3.93
347 354 3.520691 ATAGCATCACATCCAATGGCT 57.479 42.857 0.00 0.00 33.60 4.75
348 355 5.005740 TCTTATAGCATCACATCCAATGGC 58.994 41.667 0.00 0.00 33.60 4.40
349 356 6.404403 GCATCTTATAGCATCACATCCAATGG 60.404 42.308 0.00 0.00 33.60 3.16
350 357 6.552629 GCATCTTATAGCATCACATCCAATG 58.447 40.000 0.00 0.00 0.00 2.82
352 359 4.692155 CGCATCTTATAGCATCACATCCAA 59.308 41.667 0.00 0.00 0.00 3.53
353 360 4.248058 CGCATCTTATAGCATCACATCCA 58.752 43.478 0.00 0.00 0.00 3.41
356 363 3.434641 GCACGCATCTTATAGCATCACAT 59.565 43.478 0.00 0.00 0.00 3.21
358 365 2.159920 CGCACGCATCTTATAGCATCAC 60.160 50.000 0.00 0.00 0.00 3.06
359 366 2.061028 CGCACGCATCTTATAGCATCA 58.939 47.619 0.00 0.00 0.00 3.07
360 367 2.061773 ACGCACGCATCTTATAGCATC 58.938 47.619 0.00 0.00 0.00 3.91
361 368 1.794701 CACGCACGCATCTTATAGCAT 59.205 47.619 0.00 0.00 0.00 3.79
362 369 1.202359 TCACGCACGCATCTTATAGCA 60.202 47.619 0.00 0.00 0.00 3.49
363 370 1.487482 TCACGCACGCATCTTATAGC 58.513 50.000 0.00 0.00 0.00 2.97
364 371 3.120286 GTCATCACGCACGCATCTTATAG 59.880 47.826 0.00 0.00 0.00 1.31
365 372 3.049912 GTCATCACGCACGCATCTTATA 58.950 45.455 0.00 0.00 0.00 0.98
367 590 1.277326 GTCATCACGCACGCATCTTA 58.723 50.000 0.00 0.00 0.00 2.10
370 593 2.317689 CGTCATCACGCACGCATC 59.682 61.111 0.00 0.00 39.69 3.91
384 607 4.035909 ACAAAAACAGATACAACCCACGTC 59.964 41.667 0.00 0.00 0.00 4.34
385 608 3.949113 ACAAAAACAGATACAACCCACGT 59.051 39.130 0.00 0.00 0.00 4.49
386 609 4.561735 ACAAAAACAGATACAACCCACG 57.438 40.909 0.00 0.00 0.00 4.94
387 610 6.814146 TGAAAACAAAAACAGATACAACCCAC 59.186 34.615 0.00 0.00 0.00 4.61
390 613 8.931775 ACTTTGAAAACAAAAACAGATACAACC 58.068 29.630 0.00 0.00 0.00 3.77
400 623 9.967245 GGTCTCATTTACTTTGAAAACAAAAAC 57.033 29.630 0.00 0.00 0.00 2.43
401 624 8.865001 CGGTCTCATTTACTTTGAAAACAAAAA 58.135 29.630 0.00 0.00 0.00 1.94
406 934 8.797266 AATTCGGTCTCATTTACTTTGAAAAC 57.203 30.769 0.00 0.00 0.00 2.43
422 950 9.913310 TCATCTAGATGAGATATAATTCGGTCT 57.087 33.333 27.93 0.00 43.52 3.85
533 3681 6.365520 AGTTTTTAACCTATCAGGCCTATGG 58.634 40.000 3.98 8.00 39.63 2.74
576 3724 8.123445 GCTCCATTTAGCAAGTCAAAATAATG 57.877 34.615 0.00 0.00 42.30 1.90
628 3776 6.132056 GCGTTTCTGATATAGTTTGCTGATG 58.868 40.000 0.00 0.00 0.00 3.07
630 3778 5.175127 TGCGTTTCTGATATAGTTTGCTGA 58.825 37.500 0.00 0.00 0.00 4.26
647 3795 2.988493 CTGCTGCATGTTATTTGCGTTT 59.012 40.909 1.31 0.00 43.10 3.60
652 3800 6.954616 TTTCAATCTGCTGCATGTTATTTG 57.045 33.333 1.31 1.89 0.00 2.32
754 3905 1.957113 GCAAAGTAGGAAGGCTGGCAT 60.957 52.381 3.38 0.00 0.00 4.40
813 3965 5.940470 AGAGATAGTACAGCCCTTTTGTTTG 59.060 40.000 0.00 0.00 0.00 2.93
814 3966 5.940470 CAGAGATAGTACAGCCCTTTTGTTT 59.060 40.000 0.00 0.00 0.00 2.83
822 3975 5.346181 AGAAAACAGAGATAGTACAGCCC 57.654 43.478 0.00 0.00 0.00 5.19
856 4009 5.672421 ACTGAGTGGGTAGTGTAATAACC 57.328 43.478 0.00 0.00 32.69 2.85
970 4246 8.940397 TGTACTATGATGGATGAATGTAGAGA 57.060 34.615 0.00 0.00 0.00 3.10
993 4269 9.339850 CAGATTAAGATCTTCAAGATGGATTGT 57.660 33.333 12.24 0.00 40.67 2.71
1009 4285 7.786943 TGAGAGGGTTCTATGACAGATTAAGAT 59.213 37.037 0.00 0.00 32.53 2.40
1170 4454 1.683385 TCAGCCATCTCACATACGGAG 59.317 52.381 0.00 0.00 0.00 4.63
1172 4456 2.827800 ATCAGCCATCTCACATACGG 57.172 50.000 0.00 0.00 0.00 4.02
1323 12263 2.202932 CCGGGGAATCGCTCTGTG 60.203 66.667 0.00 0.00 0.00 3.66
1326 12266 2.840102 CCTCCGGGGAATCGCTCT 60.840 66.667 0.37 0.00 37.23 4.09
1332 12272 2.677228 CACTTGCCTCCGGGGAAT 59.323 61.111 0.37 0.00 41.99 3.01
1393 12333 0.598065 CCAAGAAGAAAACAGGGCCG 59.402 55.000 0.00 0.00 0.00 6.13
1513 12486 3.813529 ATCTTTTGCCTTCGTTTCGAG 57.186 42.857 0.00 0.00 37.14 4.04
1546 12521 7.328737 TGGGCAACTCTCTTCTACTTAATTAC 58.671 38.462 0.00 0.00 0.00 1.89
1555 12530 6.173339 CAAATAACTGGGCAACTCTCTTCTA 58.827 40.000 0.00 0.00 0.00 2.10
1576 12551 2.269172 GTTTTCGCCCGTTTTTCCAAA 58.731 42.857 0.00 0.00 0.00 3.28
1585 12563 0.820074 TTGTGATGGTTTTCGCCCGT 60.820 50.000 0.00 0.00 0.00 5.28
1634 12612 2.501723 GCCCTCTTTGGAGTGACATCTA 59.498 50.000 0.00 0.00 37.86 1.98
1636 12614 1.680249 GGCCCTCTTTGGAGTGACATC 60.680 57.143 0.00 0.00 37.86 3.06
1663 12641 0.389426 ATGGCGTCGTTGTACTGTCC 60.389 55.000 0.00 0.00 0.00 4.02
1684 12662 3.292460 CCTCTAAGGGAGAAGTGACGAT 58.708 50.000 0.00 0.00 44.45 3.73
1687 12665 1.135333 CGCCTCTAAGGGAGAAGTGAC 59.865 57.143 0.00 0.00 44.45 3.67
1717 12695 3.995048 GAGTCGTTTCTTAGAGTTTGGGG 59.005 47.826 0.00 0.00 0.00 4.96
1740 12718 1.710013 GATCGTCTTTGGCGAAGTCA 58.290 50.000 14.05 0.44 45.30 3.41
1784 12810 0.037326 GATGGTTGAGGTCTCGCACA 60.037 55.000 0.00 0.00 0.00 4.57
1798 12824 0.671796 TGTTGTCTCGTCGTGATGGT 59.328 50.000 0.00 0.00 0.00 3.55
1854 12880 1.667830 CACGACGCCAGACAACCAT 60.668 57.895 0.00 0.00 0.00 3.55
1855 12881 2.279851 CACGACGCCAGACAACCA 60.280 61.111 0.00 0.00 0.00 3.67
1858 12884 0.103390 TCTTTCACGACGCCAGACAA 59.897 50.000 0.00 0.00 0.00 3.18
1859 12885 0.317160 ATCTTTCACGACGCCAGACA 59.683 50.000 0.00 0.00 0.00 3.41
1860 12886 0.992802 GATCTTTCACGACGCCAGAC 59.007 55.000 0.00 0.00 0.00 3.51
1861 12887 0.601057 TGATCTTTCACGACGCCAGA 59.399 50.000 0.00 0.00 0.00 3.86
1948 12984 2.038813 TGGGATGGACTCGGCTGA 59.961 61.111 0.00 0.00 0.00 4.26
1957 12993 1.077787 GGCATGTTCGTGGGATGGA 60.078 57.895 0.00 0.00 0.00 3.41
2034 13070 1.136891 GTTGAGGCTTTTGTGGCAACT 59.863 47.619 5.91 0.00 34.43 3.16
2075 13112 1.735700 CGCATCGACAAGCAGGACTTA 60.736 52.381 7.06 0.00 36.04 2.24
2077 13114 1.446792 CGCATCGACAAGCAGGACT 60.447 57.895 7.06 0.00 0.00 3.85
2082 13119 3.792047 GCTGCGCATCGACAAGCA 61.792 61.111 12.24 9.62 38.03 3.91
2095 13132 0.378610 GGCTTCGTATTTGGAGCTGC 59.621 55.000 0.00 0.00 0.00 5.25
2106 13143 2.591915 CCCTCTTGAGGGCTTCGTA 58.408 57.895 21.32 0.00 42.99 3.43
2144 13181 0.389025 CCATGTGATCGGACGATGGA 59.611 55.000 12.40 0.00 34.60 3.41
2161 13198 1.555075 CCGAGGGAAACTCTTGATCCA 59.445 52.381 0.00 0.00 44.33 3.41
2170 13208 1.831652 CTGCACCTCCGAGGGAAACT 61.832 60.000 18.99 0.00 40.58 2.66
2184 13222 2.125912 ATCTGGTCGTCGCTGCAC 60.126 61.111 0.00 0.00 0.00 4.57
2230 13270 0.906775 CATTTCTTGGGGGCATTGCT 59.093 50.000 8.82 0.00 0.00 3.91
2233 13273 2.302733 GTTGACATTTCTTGGGGGCATT 59.697 45.455 0.00 0.00 0.00 3.56
2239 13279 1.399727 GCGTCGTTGACATTTCTTGGG 60.400 52.381 0.00 0.00 32.09 4.12
2247 13287 1.079819 CTCCAGGCGTCGTTGACAT 60.080 57.895 0.00 0.00 32.09 3.06
2261 13301 2.106938 GCGATGGCGATGACTCCA 59.893 61.111 0.00 0.00 40.82 3.86
2268 13308 2.202932 GTGACCAGCGATGGCGAT 60.203 61.111 21.97 0.00 46.35 4.58
2290 13330 1.542187 AACACCCTGTCTCGGCTACC 61.542 60.000 0.00 0.00 0.00 3.18
2291 13331 0.108756 GAACACCCTGTCTCGGCTAC 60.109 60.000 0.00 0.00 0.00 3.58
2307 13349 0.036732 TGTCTGGAGCATGGGTGAAC 59.963 55.000 0.00 0.00 0.00 3.18
2325 13367 0.606401 GATGTGTGGTGGAGGGTGTG 60.606 60.000 0.00 0.00 0.00 3.82
2335 13377 1.896660 GTGCCGGTTGATGTGTGGT 60.897 57.895 1.90 0.00 0.00 4.16
2350 13392 3.286751 TCTTGCTGGCGTTGGTGC 61.287 61.111 0.00 0.00 0.00 5.01
2361 13403 1.729267 ATGGGGTTGGTGGTCTTGCT 61.729 55.000 0.00 0.00 0.00 3.91
2412 13454 1.141881 GCGAGGTGCAGCTAGCTAA 59.858 57.895 34.41 6.01 45.94 3.09
2441 13483 2.980233 GTGCTGGAGCTTGCCGTT 60.980 61.111 0.00 0.00 42.66 4.44
2447 13489 3.630013 TGCCTCGTGCTGGAGCTT 61.630 61.111 0.00 0.00 42.66 3.74
2450 13492 3.947132 CTGGTGCCTCGTGCTGGAG 62.947 68.421 1.74 0.00 42.00 3.86
2451 13493 4.007644 CTGGTGCCTCGTGCTGGA 62.008 66.667 1.74 0.00 42.00 3.86
2467 13513 7.975608 ACATCTGATTGTCTATTGATGGATCT 58.024 34.615 0.00 0.00 34.55 2.75
2481 13527 1.139058 GGCGGTCCTACATCTGATTGT 59.861 52.381 0.00 0.00 0.00 2.71
2483 13529 1.414181 CTGGCGGTCCTACATCTGATT 59.586 52.381 0.00 0.00 0.00 2.57
2490 13536 2.900273 GCATCTGGCGGTCCTACA 59.100 61.111 0.00 0.00 0.00 2.74
2502 13548 4.403752 TGTAGTAGACATCAAGCTGCATCT 59.596 41.667 1.02 0.00 31.20 2.90
2507 13553 4.627467 GGTTGTGTAGTAGACATCAAGCTG 59.373 45.833 0.29 0.00 41.14 4.24
2511 13557 7.990886 AGAAAAAGGTTGTGTAGTAGACATCAA 59.009 33.333 0.29 0.00 41.14 2.57
2512 13558 7.506114 AGAAAAAGGTTGTGTAGTAGACATCA 58.494 34.615 0.29 0.00 41.14 3.07
2513 13559 7.964604 AGAAAAAGGTTGTGTAGTAGACATC 57.035 36.000 0.29 0.61 41.14 3.06
2514 13560 7.773690 ACAAGAAAAAGGTTGTGTAGTAGACAT 59.226 33.333 0.29 0.00 41.14 3.06
2515 13561 7.107542 ACAAGAAAAAGGTTGTGTAGTAGACA 58.892 34.615 0.00 0.00 35.55 3.41
2516 13562 7.549615 ACAAGAAAAAGGTTGTGTAGTAGAC 57.450 36.000 0.00 0.00 35.55 2.59
2517 13563 9.669887 TTTACAAGAAAAAGGTTGTGTAGTAGA 57.330 29.630 0.00 0.00 37.46 2.59
2518 13564 9.712359 GTTTACAAGAAAAAGGTTGTGTAGTAG 57.288 33.333 0.00 0.00 37.46 2.57
2519 13565 8.389603 CGTTTACAAGAAAAAGGTTGTGTAGTA 58.610 33.333 0.00 0.00 37.46 1.82
2520 13566 7.094677 ACGTTTACAAGAAAAAGGTTGTGTAGT 60.095 33.333 0.00 0.00 37.46 2.73
2521 13567 7.245604 ACGTTTACAAGAAAAAGGTTGTGTAG 58.754 34.615 0.00 0.00 37.46 2.74
2522 13568 7.143514 ACGTTTACAAGAAAAAGGTTGTGTA 57.856 32.000 0.00 0.00 37.46 2.90
2523 13569 6.016213 ACGTTTACAAGAAAAAGGTTGTGT 57.984 33.333 0.00 0.00 37.46 3.72
2524 13570 6.747344 CAACGTTTACAAGAAAAAGGTTGTG 58.253 36.000 18.64 3.63 46.86 3.33
2525 13571 6.937886 CAACGTTTACAAGAAAAAGGTTGT 57.062 33.333 18.64 0.00 46.86 3.32
2527 13573 6.366604 CCAACAACGTTTACAAGAAAAAGGTT 59.633 34.615 0.00 0.00 42.47 3.50
2528 13574 5.865013 CCAACAACGTTTACAAGAAAAAGGT 59.135 36.000 0.00 0.00 36.72 3.50
2529 13575 5.289917 CCCAACAACGTTTACAAGAAAAAGG 59.710 40.000 0.00 0.00 0.00 3.11
2530 13576 5.220322 GCCCAACAACGTTTACAAGAAAAAG 60.220 40.000 0.00 0.00 0.00 2.27
2531 13577 4.626172 GCCCAACAACGTTTACAAGAAAAA 59.374 37.500 0.00 0.00 0.00 1.94
2532 13578 4.174762 GCCCAACAACGTTTACAAGAAAA 58.825 39.130 0.00 0.00 0.00 2.29
2533 13579 3.429135 GGCCCAACAACGTTTACAAGAAA 60.429 43.478 0.00 0.00 0.00 2.52
2534 13580 2.099427 GGCCCAACAACGTTTACAAGAA 59.901 45.455 0.00 0.00 0.00 2.52
2535 13581 1.677052 GGCCCAACAACGTTTACAAGA 59.323 47.619 0.00 0.00 0.00 3.02
2536 13582 1.679153 AGGCCCAACAACGTTTACAAG 59.321 47.619 0.00 0.00 0.00 3.16
2537 13583 1.405821 CAGGCCCAACAACGTTTACAA 59.594 47.619 0.00 0.00 0.00 2.41
2538 13584 1.025812 CAGGCCCAACAACGTTTACA 58.974 50.000 0.00 0.00 0.00 2.41
2539 13585 0.318360 GCAGGCCCAACAACGTTTAC 60.318 55.000 0.00 0.00 0.00 2.01
2540 13586 2.034607 GCAGGCCCAACAACGTTTA 58.965 52.632 0.00 0.00 0.00 2.01
2541 13587 2.811799 GCAGGCCCAACAACGTTT 59.188 55.556 0.00 0.00 0.00 3.60


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

AutoCloner maintained by Alex Coulton.