Multiple sequence alignment - TraesCS5A01G282900

Loading Multiple Alignment...

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 TraesCS5A01G282900 chr5A 100.000 3591 0 0 1 3591 491376659 491373069 0.000000e+00 6632.0
1 TraesCS5A01G282900 chr5A 94.744 742 39 0 1685 2426 606359733 606360474 0.000000e+00 1155.0
2 TraesCS5A01G282900 chr5A 92.608 717 50 2 1685 2401 378893898 378893185 0.000000e+00 1027.0
3 TraesCS5A01G282900 chr5D 92.923 1187 46 13 2426 3591 388337138 388335969 0.000000e+00 1692.0
4 TraesCS5A01G282900 chr5D 88.970 961 56 25 446 1365 388338467 388337516 0.000000e+00 1142.0
5 TraesCS5A01G282900 chr5D 86.500 400 39 5 12 408 388339268 388338881 3.310000e-115 425.0
6 TraesCS5A01G282900 chr5D 86.494 348 23 12 1361 1684 388337478 388337131 9.480000e-96 361.0
7 TraesCS5A01G282900 chr5D 82.079 279 24 12 3170 3430 388591506 388591236 7.810000e-52 215.0
8 TraesCS5A01G282900 chr4A 94.624 744 39 1 1685 2427 425886319 425885576 0.000000e+00 1151.0
9 TraesCS5A01G282900 chr4A 93.631 314 20 0 1685 1998 564787385 564787072 1.510000e-128 470.0
10 TraesCS5A01G282900 chr6A 93.935 742 35 4 1685 2425 20242494 20243226 0.000000e+00 1112.0
11 TraesCS5A01G282900 chr6A 91.589 749 42 6 1685 2430 22056036 22056766 0.000000e+00 1014.0
12 TraesCS5A01G282900 chr6A 91.141 745 48 7 1685 2426 375137961 375137232 0.000000e+00 994.0
13 TraesCS5A01G282900 chr6A 89.098 743 47 4 1685 2425 592453057 592453767 0.000000e+00 893.0
14 TraesCS5A01G282900 chr6A 86.747 166 11 2 3436 3591 130409312 130409148 1.330000e-39 174.0
15 TraesCS5A01G282900 chr6A 92.857 42 3 0 441 482 23878304 23878263 1.080000e-05 62.1
16 TraesCS5A01G282900 chr1A 91.129 744 47 3 1685 2425 589009001 589009728 0.000000e+00 990.0
17 TraesCS5A01G282900 chr6D 90.418 741 39 7 1685 2425 468581124 468580416 0.000000e+00 946.0
18 TraesCS5A01G282900 chr6D 90.377 239 21 2 1685 1923 20260897 20260661 2.690000e-81 313.0
19 TraesCS5A01G282900 chr6D 84.211 171 12 2 3436 3591 106945421 106945251 6.210000e-33 152.0
20 TraesCS5A01G282900 chr7B 78.406 690 110 24 1002 1671 44255879 44256549 2.580000e-111 412.0
21 TraesCS5A01G282900 chr7B 81.905 420 69 7 900 1315 44268897 44269313 7.380000e-92 348.0
22 TraesCS5A01G282900 chr7B 81.651 218 40 0 2627 2844 43269156 43269373 7.920000e-42 182.0
23 TraesCS5A01G282900 chr7B 84.906 106 16 0 2744 2849 44270294 44270399 1.360000e-19 108.0
24 TraesCS5A01G282900 chr7B 74.554 224 46 8 2709 2929 43547848 43548063 1.780000e-13 87.9
25 TraesCS5A01G282900 chr7A 83.055 419 66 5 900 1315 94395397 94395813 3.380000e-100 375.0
26 TraesCS5A01G282900 chr7A 80.546 293 53 3 2557 2847 94396457 94396747 4.670000e-54 222.0
27 TraesCS5A01G282900 chr7A 78.328 323 44 15 2782 3098 94382596 94382898 6.120000e-43 185.0
28 TraesCS5A01G282900 chr5B 85.757 337 34 10 1361 1684 466985033 466984698 9.550000e-91 344.0
29 TraesCS5A01G282900 chr5B 86.022 186 10 2 2426 2595 466984705 466984520 6.120000e-43 185.0
30 TraesCS5A01G282900 chr5B 91.753 97 8 0 965 1061 466985247 466985151 6.250000e-28 135.0
31 TraesCS5A01G282900 chr5B 98.276 58 1 0 2590 2647 466975899 466975842 6.340000e-18 102.0
32 TraesCS5A01G282900 chr5B 89.091 55 2 3 447 497 469850268 469850214 8.320000e-07 65.8
33 TraesCS5A01G282900 chr2D 91.701 241 17 3 1685 1925 7217253 7217490 7.430000e-87 331.0
34 TraesCS5A01G282900 chr2D 86.885 61 4 3 441 497 192301007 192301067 8.320000e-07 65.8
35 TraesCS5A01G282900 chr2D 94.595 37 2 0 441 477 556020649 556020613 1.390000e-04 58.4
36 TraesCS5A01G282900 chr7D 73.651 630 118 31 2636 3259 91664127 91663540 2.190000e-47 200.0
37 TraesCS5A01G282900 chr7D 92.857 42 3 0 441 482 124512831 124512790 1.080000e-05 62.1
38 TraesCS5A01G282900 chrUn 81.651 218 40 0 2627 2844 342457493 342457276 7.920000e-42 182.0
39 TraesCS5A01G282900 chr1D 86.364 66 4 3 441 501 433375639 433375704 2.310000e-07 67.6
40 TraesCS5A01G282900 chr1D 96.970 33 1 0 441 473 49431835 49431803 5.010000e-04 56.5
41 TraesCS5A01G282900 chr3D 85.075 67 7 3 441 504 594810531 594810465 8.320000e-07 65.8
42 TraesCS5A01G282900 chr2B 94.737 38 2 0 445 482 195687948 195687985 3.870000e-05 60.2
43 TraesCS5A01G282900 chr2B 85.965 57 3 3 446 497 617734387 617734331 5.010000e-04 56.5
44 TraesCS5A01G282900 chr6B 94.595 37 1 1 446 482 321997717 321997752 5.010000e-04 56.5


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 TraesCS5A01G282900 chr5A 491373069 491376659 3590 True 6632.000000 6632 100.00000 1 3591 1 chr5A.!!$R2 3590
1 TraesCS5A01G282900 chr5A 606359733 606360474 741 False 1155.000000 1155 94.74400 1685 2426 1 chr5A.!!$F1 741
2 TraesCS5A01G282900 chr5A 378893185 378893898 713 True 1027.000000 1027 92.60800 1685 2401 1 chr5A.!!$R1 716
3 TraesCS5A01G282900 chr5D 388335969 388339268 3299 True 905.000000 1692 88.72175 12 3591 4 chr5D.!!$R2 3579
4 TraesCS5A01G282900 chr4A 425885576 425886319 743 True 1151.000000 1151 94.62400 1685 2427 1 chr4A.!!$R1 742
5 TraesCS5A01G282900 chr6A 20242494 20243226 732 False 1112.000000 1112 93.93500 1685 2425 1 chr6A.!!$F1 740
6 TraesCS5A01G282900 chr6A 22056036 22056766 730 False 1014.000000 1014 91.58900 1685 2430 1 chr6A.!!$F2 745
7 TraesCS5A01G282900 chr6A 375137232 375137961 729 True 994.000000 994 91.14100 1685 2426 1 chr6A.!!$R3 741
8 TraesCS5A01G282900 chr6A 592453057 592453767 710 False 893.000000 893 89.09800 1685 2425 1 chr6A.!!$F3 740
9 TraesCS5A01G282900 chr1A 589009001 589009728 727 False 990.000000 990 91.12900 1685 2425 1 chr1A.!!$F1 740
10 TraesCS5A01G282900 chr6D 468580416 468581124 708 True 946.000000 946 90.41800 1685 2425 1 chr6D.!!$R3 740
11 TraesCS5A01G282900 chr7B 44255879 44256549 670 False 412.000000 412 78.40600 1002 1671 1 chr7B.!!$F3 669
12 TraesCS5A01G282900 chr7B 44268897 44270399 1502 False 228.000000 348 83.40550 900 2849 2 chr7B.!!$F4 1949
13 TraesCS5A01G282900 chr7A 94395397 94396747 1350 False 298.500000 375 81.80050 900 2847 2 chr7A.!!$F2 1947
14 TraesCS5A01G282900 chr5B 466984520 466985247 727 True 221.333333 344 87.84400 965 2595 3 chr5B.!!$R3 1630

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
810 1200 0.108089 GGCTCTTCCTCCTTTCGTCC 60.108 60.0 0.0 0.0 0.0 4.79 F
1677 2583 0.035439 AACACTTGGAGCCGGTATGG 60.035 55.0 1.9 0.0 42.5 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2407 3336 0.032813 CCTCAAGATGGCAATGGGGT 60.033 55.0 8.59 0.0 29.7 4.95 R
2868 3823 0.323302 TCAAACCTATCAGCCACGCA 59.677 50.0 0.00 0.0 0.0 5.24 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
23 24 0.940126 CGCTCATGTTGGCTATGGTC 59.060 55.000 0.00 0.00 0.00 4.02
35 36 3.181445 TGGCTATGGTCAACAGAAACACT 60.181 43.478 0.00 0.00 0.00 3.55
39 40 6.183360 GGCTATGGTCAACAGAAACACTATTC 60.183 42.308 0.00 0.00 0.00 1.75
55 56 6.801575 ACACTATTCGTTTGTTTTTCATGGT 58.198 32.000 0.00 0.00 0.00 3.55
57 58 7.762159 ACACTATTCGTTTGTTTTTCATGGTTT 59.238 29.630 0.00 0.00 0.00 3.27
60 61 9.458374 CTATTCGTTTGTTTTTCATGGTTTAGT 57.542 29.630 0.00 0.00 0.00 2.24
63 64 7.313646 TCGTTTGTTTTTCATGGTTTAGTTGA 58.686 30.769 0.00 0.00 0.00 3.18
65 66 7.253950 CGTTTGTTTTTCATGGTTTAGTTGAGG 60.254 37.037 0.00 0.00 0.00 3.86
70 71 8.360390 GTTTTTCATGGTTTAGTTGAGGAAGAT 58.640 33.333 0.00 0.00 0.00 2.40
85 86 1.330655 AAGATGTCCCGTCGGCTCAT 61.331 55.000 15.77 15.77 0.00 2.90
86 87 1.300233 GATGTCCCGTCGGCTCATC 60.300 63.158 21.90 21.90 35.06 2.92
87 88 1.739338 GATGTCCCGTCGGCTCATCT 61.739 60.000 25.69 8.75 37.30 2.90
88 89 1.330655 ATGTCCCGTCGGCTCATCTT 61.331 55.000 5.50 0.00 0.00 2.40
89 90 1.218316 GTCCCGTCGGCTCATCTTT 59.782 57.895 5.50 0.00 0.00 2.52
90 91 0.391263 GTCCCGTCGGCTCATCTTTT 60.391 55.000 5.50 0.00 0.00 2.27
91 92 0.108329 TCCCGTCGGCTCATCTTTTC 60.108 55.000 5.50 0.00 0.00 2.29
92 93 0.108138 CCCGTCGGCTCATCTTTTCT 60.108 55.000 5.50 0.00 0.00 2.52
93 94 1.676014 CCCGTCGGCTCATCTTTTCTT 60.676 52.381 5.50 0.00 0.00 2.52
94 95 2.076863 CCGTCGGCTCATCTTTTCTTT 58.923 47.619 0.00 0.00 0.00 2.52
119 120 8.422973 TTCTTTTCATTTGTTTTCCACATCTG 57.577 30.769 0.00 0.00 34.43 2.90
131 132 7.706179 TGTTTTCCACATCTGTTTTGATTTCTC 59.294 33.333 0.00 0.00 0.00 2.87
152 153 7.604657 TCTCTTATAGATCTTTCCCAAGGAC 57.395 40.000 0.00 0.00 0.00 3.85
168 169 5.339530 CCCAAGGACATCTCTTCCTAATTGT 60.340 44.000 0.00 0.00 43.14 2.71
181 182 3.636764 TCCTAATTGTGCGAGCTATGAGA 59.363 43.478 0.00 0.00 0.00 3.27
208 209 7.510549 TTCTGAATGCTAGCAGTTAACTTTT 57.489 32.000 23.89 9.62 33.90 2.27
209 210 7.510549 TCTGAATGCTAGCAGTTAACTTTTT 57.489 32.000 23.89 8.85 33.90 1.94
256 258 9.999009 GTTTTCCCCTCTATTTTAGTATTTTCG 57.001 33.333 0.00 0.00 0.00 3.46
290 292 6.212955 ACCACATTAAACAACTTTTCATCCG 58.787 36.000 0.00 0.00 0.00 4.18
294 296 7.060633 CACATTAAACAACTTTTCATCCGTAGC 59.939 37.037 0.00 0.00 0.00 3.58
296 298 5.705609 AAACAACTTTTCATCCGTAGCAT 57.294 34.783 0.00 0.00 0.00 3.79
298 300 3.370978 ACAACTTTTCATCCGTAGCATCG 59.629 43.478 0.00 0.00 0.00 3.84
301 303 4.442706 ACTTTTCATCCGTAGCATCGAAT 58.557 39.130 0.00 0.00 0.00 3.34
305 307 4.053469 TCATCCGTAGCATCGAATTTCA 57.947 40.909 0.00 0.00 0.00 2.69
316 319 6.936374 AGCATCGAATTTCACAAAAGTTTTG 58.064 32.000 23.65 23.65 0.00 2.44
327 330 7.876896 TCACAAAAGTTTTGTTGGTCTTTAC 57.123 32.000 27.37 0.00 31.24 2.01
350 353 7.040913 ACCCCCTTCTAAAGTATTTTAAGCT 57.959 36.000 0.00 0.00 40.09 3.74
391 394 0.878523 TCTTGTGTCGGACAAAGCGG 60.879 55.000 13.23 2.42 44.14 5.52
396 399 1.005867 GTCGGACAAAGCGGTGGTA 60.006 57.895 2.62 0.00 0.00 3.25
408 411 6.127140 ACAAAGCGGTGGTAGAGTTATATCTT 60.127 38.462 0.00 0.00 0.00 2.40
409 412 5.708877 AGCGGTGGTAGAGTTATATCTTC 57.291 43.478 0.00 0.00 0.00 2.87
410 413 4.215827 AGCGGTGGTAGAGTTATATCTTCG 59.784 45.833 0.00 0.00 0.00 3.79
411 414 4.023365 GCGGTGGTAGAGTTATATCTTCGT 60.023 45.833 0.00 0.00 0.00 3.85
413 416 6.501781 CGGTGGTAGAGTTATATCTTCGTTT 58.498 40.000 0.00 0.00 0.00 3.60
414 417 6.636044 CGGTGGTAGAGTTATATCTTCGTTTC 59.364 42.308 0.00 0.00 0.00 2.78
415 418 6.636044 GGTGGTAGAGTTATATCTTCGTTTCG 59.364 42.308 0.00 0.00 0.00 3.46
416 419 7.192232 GTGGTAGAGTTATATCTTCGTTTCGT 58.808 38.462 0.00 0.00 0.00 3.85
418 421 6.855403 GGTAGAGTTATATCTTCGTTTCGTCC 59.145 42.308 0.00 0.00 0.00 4.79
419 422 6.696441 AGAGTTATATCTTCGTTTCGTCCT 57.304 37.500 0.00 0.00 0.00 3.85
420 423 6.727215 AGAGTTATATCTTCGTTTCGTCCTC 58.273 40.000 0.00 0.00 0.00 3.71
421 424 5.508872 AGTTATATCTTCGTTTCGTCCTCG 58.491 41.667 0.00 0.00 38.55 4.63
422 425 2.184385 TATCTTCGTTTCGTCCTCGC 57.816 50.000 0.00 0.00 36.96 5.03
424 427 2.048877 TTCGTTTCGTCCTCGCCC 60.049 61.111 0.00 0.00 36.96 6.13
425 428 2.488087 CTTCGTTTCGTCCTCGCCCT 62.488 60.000 0.00 0.00 36.96 5.19
426 429 1.243342 TTCGTTTCGTCCTCGCCCTA 61.243 55.000 0.00 0.00 36.96 3.53
429 432 1.738030 CGTTTCGTCCTCGCCCTAAAT 60.738 52.381 0.00 0.00 36.96 1.40
431 434 0.462789 TTCGTCCTCGCCCTAAATCC 59.537 55.000 0.00 0.00 36.96 3.01
432 435 0.396695 TCGTCCTCGCCCTAAATCCT 60.397 55.000 0.00 0.00 36.96 3.24
433 436 1.133699 TCGTCCTCGCCCTAAATCCTA 60.134 52.381 0.00 0.00 36.96 2.94
434 437 1.684983 CGTCCTCGCCCTAAATCCTAA 59.315 52.381 0.00 0.00 0.00 2.69
435 438 2.101917 CGTCCTCGCCCTAAATCCTAAA 59.898 50.000 0.00 0.00 0.00 1.85
436 439 3.464907 GTCCTCGCCCTAAATCCTAAAC 58.535 50.000 0.00 0.00 0.00 2.01
437 440 2.436911 TCCTCGCCCTAAATCCTAAACC 59.563 50.000 0.00 0.00 0.00 3.27
438 441 2.486727 CCTCGCCCTAAATCCTAAACCC 60.487 54.545 0.00 0.00 0.00 4.11
440 443 3.644738 CTCGCCCTAAATCCTAAACCCTA 59.355 47.826 0.00 0.00 0.00 3.53
443 446 4.286291 CGCCCTAAATCCTAAACCCTAGAT 59.714 45.833 0.00 0.00 0.00 1.98
444 447 5.561679 GCCCTAAATCCTAAACCCTAGATG 58.438 45.833 0.00 0.00 0.00 2.90
475 854 8.738199 TGACTCTAGTGTAGTGTTAAAAATCG 57.262 34.615 0.00 0.00 33.12 3.34
477 856 9.189723 GACTCTAGTGTAGTGTTAAAAATCGTT 57.810 33.333 0.00 0.00 33.12 3.85
493 872 0.538118 CGTTTTACGGGATGGAGGGA 59.462 55.000 0.00 0.00 38.08 4.20
536 915 2.607499 ACCCTGAATTGTCATTTGGCA 58.393 42.857 0.00 0.00 31.85 4.92
540 919 4.430007 CCTGAATTGTCATTTGGCATCTG 58.570 43.478 0.00 0.00 31.85 2.90
596 975 3.306364 CCTCCGTTTGACTTGTCTCTGAT 60.306 47.826 2.35 0.00 0.00 2.90
601 980 4.387256 CGTTTGACTTGTCTCTGATCCTTC 59.613 45.833 2.35 0.00 0.00 3.46
602 981 5.546526 GTTTGACTTGTCTCTGATCCTTCT 58.453 41.667 2.35 0.00 0.00 2.85
603 982 4.797800 TGACTTGTCTCTGATCCTTCTG 57.202 45.455 2.35 0.00 0.00 3.02
604 983 4.155709 TGACTTGTCTCTGATCCTTCTGT 58.844 43.478 2.35 0.00 0.00 3.41
631 1013 0.383949 GCGGCAAAAACTCTGTTCCA 59.616 50.000 0.00 0.00 0.00 3.53
649 1031 1.605202 CCAAAACAGGGCACGAATTGG 60.605 52.381 0.00 2.26 0.00 3.16
650 1032 0.678950 AAAACAGGGCACGAATTGGG 59.321 50.000 0.00 0.00 0.00 4.12
652 1034 1.178534 AACAGGGCACGAATTGGGTG 61.179 55.000 0.00 2.58 38.42 4.61
654 1036 0.322098 CAGGGCACGAATTGGGTGTA 60.322 55.000 7.76 0.00 37.70 2.90
655 1037 0.402504 AGGGCACGAATTGGGTGTAA 59.597 50.000 7.76 0.00 37.70 2.41
656 1038 1.202952 AGGGCACGAATTGGGTGTAAA 60.203 47.619 7.76 0.00 37.70 2.01
657 1039 1.201414 GGGCACGAATTGGGTGTAAAG 59.799 52.381 7.76 0.00 37.70 1.85
658 1040 1.402325 GGCACGAATTGGGTGTAAAGC 60.402 52.381 7.76 0.00 37.70 3.51
659 1041 1.268352 GCACGAATTGGGTGTAAAGCA 59.732 47.619 7.76 0.00 37.70 3.91
684 1066 7.067372 CAGAAATGAAGTTGTATTATGGGCTCA 59.933 37.037 0.00 0.00 0.00 4.26
705 1087 0.908198 ATGGGCCTCAGTCTTCTGAC 59.092 55.000 4.53 0.00 44.58 3.51
791 1181 2.104451 CTCATCATCCTCAACCCCTCTG 59.896 54.545 0.00 0.00 0.00 3.35
792 1182 1.142465 CATCATCCTCAACCCCTCTGG 59.858 57.143 0.00 0.00 41.37 3.86
799 1189 1.201429 TCAACCCCTCTGGCTCTTCC 61.201 60.000 0.00 0.00 37.83 3.46
800 1190 1.162085 AACCCCTCTGGCTCTTCCT 59.838 57.895 0.00 0.00 37.83 3.36
801 1191 0.912006 AACCCCTCTGGCTCTTCCTC 60.912 60.000 0.00 0.00 37.83 3.71
803 1193 1.002792 CCCTCTGGCTCTTCCTCCT 59.997 63.158 0.00 0.00 35.26 3.69
804 1194 0.620121 CCCTCTGGCTCTTCCTCCTT 60.620 60.000 0.00 0.00 35.26 3.36
805 1195 1.284313 CCTCTGGCTCTTCCTCCTTT 58.716 55.000 0.00 0.00 35.26 3.11
807 1197 0.898320 TCTGGCTCTTCCTCCTTTCG 59.102 55.000 0.00 0.00 35.26 3.46
808 1198 0.610687 CTGGCTCTTCCTCCTTTCGT 59.389 55.000 0.00 0.00 35.26 3.85
810 1200 0.108089 GGCTCTTCCTCCTTTCGTCC 60.108 60.000 0.00 0.00 0.00 4.79
811 1201 0.608640 GCTCTTCCTCCTTTCGTCCA 59.391 55.000 0.00 0.00 0.00 4.02
812 1202 1.404851 GCTCTTCCTCCTTTCGTCCAG 60.405 57.143 0.00 0.00 0.00 3.86
824 1214 4.329545 GTCCAGCCAGCCACCGAA 62.330 66.667 0.00 0.00 0.00 4.30
855 1245 7.205297 CACTCAGAAAGACAAAATCAACCAAT 58.795 34.615 0.00 0.00 0.00 3.16
865 1255 4.781959 CAACCAATGCCGGCTGCG 62.782 66.667 29.70 15.14 45.60 5.18
1191 1612 2.041081 CCACAAAACACCTCCCATCCTA 59.959 50.000 0.00 0.00 0.00 2.94
1270 1691 4.054825 CCCGCAATTGCAAGCCGT 62.055 61.111 28.77 0.00 42.21 5.68
1271 1692 2.049248 CCGCAATTGCAAGCCGTT 60.049 55.556 28.77 0.00 42.21 4.44
1289 1710 0.249868 TTGGACAGTTCTGTGCTCGG 60.250 55.000 21.10 0.00 0.00 4.63
1366 1787 4.040217 CGGATGAGAATGAGGAGGAAGATT 59.960 45.833 0.00 0.00 0.00 2.40
1385 1938 8.874816 GGAAGATTATTACGAGGAATATGAAGC 58.125 37.037 0.00 0.00 0.00 3.86
1454 2008 0.995024 CCTGACATCTTCAACCCCCT 59.005 55.000 0.00 0.00 32.21 4.79
1582 2487 1.947456 ACAAAGTGACCGAAAGAAGGC 59.053 47.619 0.00 0.00 0.00 4.35
1652 2558 1.025812 CCTCTATTCACGTCGGCTCT 58.974 55.000 0.00 0.00 0.00 4.09
1671 2577 0.817634 TGTTGGAACACTTGGAGCCG 60.818 55.000 0.00 0.00 39.29 5.52
1672 2578 1.228124 TTGGAACACTTGGAGCCGG 60.228 57.895 0.00 0.00 39.29 6.13
1673 2579 1.990160 TTGGAACACTTGGAGCCGGT 61.990 55.000 1.90 0.00 39.29 5.28
1676 2582 1.369625 GAACACTTGGAGCCGGTATG 58.630 55.000 1.90 0.00 0.00 2.39
1677 2583 0.035439 AACACTTGGAGCCGGTATGG 60.035 55.000 1.90 0.00 42.50 2.74
1679 2585 0.744414 CACTTGGAGCCGGTATGGTG 60.744 60.000 1.90 1.70 41.21 4.17
1680 2586 1.153168 CTTGGAGCCGGTATGGTGG 60.153 63.158 1.90 0.00 41.21 4.61
1681 2587 2.608970 CTTGGAGCCGGTATGGTGGG 62.609 65.000 1.90 0.00 41.21 4.61
1682 2588 2.766651 GGAGCCGGTATGGTGGGA 60.767 66.667 1.90 0.00 41.21 4.37
1683 2589 2.372074 GGAGCCGGTATGGTGGGAA 61.372 63.158 1.90 0.00 41.21 3.97
1708 2614 0.251564 ATGGCAACGGGGATGAAACA 60.252 50.000 0.00 0.00 42.51 2.83
1736 2642 3.181455 GGTTTTGCCTTCTCAAACCCATT 60.181 43.478 2.17 0.00 38.10 3.16
1926 2836 5.643379 AAACGATACCACATTTCAGCAAT 57.357 34.783 0.00 0.00 0.00 3.56
2047 2972 8.883954 TGATTCACAAATCAAAAGCACAAATA 57.116 26.923 0.00 0.00 46.41 1.40
2176 3101 8.414629 AAAGACTATCTTCAAAGCTTCCAAAT 57.585 30.769 0.00 0.00 35.27 2.32
2267 3196 1.956802 CTTTGCCGGGTTTCAGGTC 59.043 57.895 2.18 0.00 0.00 3.85
2337 3266 2.521708 GTGCCCAACAACAGCCCT 60.522 61.111 0.00 0.00 0.00 5.19
2352 3281 3.200522 CCTGCGGGGATGAAAAGC 58.799 61.111 2.57 0.00 37.23 3.51
2492 3427 1.037493 TGATCGTTATGAGGGGGACG 58.963 55.000 0.00 0.00 36.89 4.79
2508 3443 3.875134 GGGGACGGTTGTATTATCAAGTG 59.125 47.826 0.00 0.00 0.00 3.16
2534 3469 1.961394 TGGGTAGTCATCGCCTATCAC 59.039 52.381 0.00 0.00 0.00 3.06
2696 3651 3.107601 TCAGAGAAATGGACTTCGGGAT 58.892 45.455 0.00 0.00 0.00 3.85
2701 3656 2.044123 AATGGACTTCGGGATGCTTC 57.956 50.000 0.00 0.00 0.00 3.86
2704 3659 0.827368 GGACTTCGGGATGCTTCTCT 59.173 55.000 0.00 0.00 0.00 3.10
2734 3689 4.685575 GCAATACCAGGAGCTCAGATTCTT 60.686 45.833 17.19 0.00 0.00 2.52
2737 3692 7.222872 CAATACCAGGAGCTCAGATTCTTTAT 58.777 38.462 17.19 0.00 0.00 1.40
2740 3695 3.814283 CAGGAGCTCAGATTCTTTATGGC 59.186 47.826 17.19 0.00 0.00 4.40
2763 3718 3.958860 GGCTGTGTGGAGGGCACT 61.959 66.667 0.00 0.00 37.70 4.40
2849 3804 2.401351 GAAGTTGTCGAGTAAGCCGTT 58.599 47.619 0.00 0.00 0.00 4.44
2850 3805 2.061740 AGTTGTCGAGTAAGCCGTTC 57.938 50.000 0.00 0.00 0.00 3.95
2851 3806 0.706729 GTTGTCGAGTAAGCCGTTCG 59.293 55.000 0.00 0.00 35.76 3.95
2861 3816 2.225068 AAGCCGTTCGAGGACATATG 57.775 50.000 0.00 0.00 0.00 1.78
2862 3817 1.112113 AGCCGTTCGAGGACATATGT 58.888 50.000 8.43 8.43 0.00 2.29
2864 3819 1.593006 GCCGTTCGAGGACATATGTTG 59.407 52.381 10.30 1.18 0.00 3.33
2865 3820 2.737359 GCCGTTCGAGGACATATGTTGA 60.737 50.000 10.30 3.59 0.00 3.18
2866 3821 3.717707 CCGTTCGAGGACATATGTTGAT 58.282 45.455 10.30 0.00 0.00 2.57
2867 3822 4.794981 GCCGTTCGAGGACATATGTTGATA 60.795 45.833 10.30 0.00 0.00 2.15
2868 3823 5.470368 CCGTTCGAGGACATATGTTGATAT 58.530 41.667 10.30 0.00 0.00 1.63
2869 3824 5.346011 CCGTTCGAGGACATATGTTGATATG 59.654 44.000 10.30 0.00 44.98 1.78
2870 3825 5.164051 CGTTCGAGGACATATGTTGATATGC 60.164 44.000 10.30 0.00 43.78 3.14
2871 3826 4.485163 TCGAGGACATATGTTGATATGCG 58.515 43.478 10.30 7.63 43.78 4.73
2877 3832 3.499537 ACATATGTTGATATGCGTGGCTG 59.500 43.478 1.41 0.00 43.78 4.85
2880 3835 3.467374 TGTTGATATGCGTGGCTGATA 57.533 42.857 0.00 0.00 0.00 2.15
2881 3836 3.392882 TGTTGATATGCGTGGCTGATAG 58.607 45.455 0.00 0.00 0.00 2.08
2887 3842 0.323302 TGCGTGGCTGATAGGTTTGA 59.677 50.000 0.00 0.00 0.00 2.69
2892 3847 3.617531 CGTGGCTGATAGGTTTGAGAGTT 60.618 47.826 0.00 0.00 0.00 3.01
2905 3860 6.987404 AGGTTTGAGAGTTTCTTTCTCTACAC 59.013 38.462 4.16 0.00 41.58 2.90
2930 3885 4.227300 AGCTTCAACAATCCACCTGGTATA 59.773 41.667 0.00 0.00 36.34 1.47
2932 3887 6.101150 AGCTTCAACAATCCACCTGGTATATA 59.899 38.462 0.00 0.00 36.34 0.86
2934 3889 7.094634 GCTTCAACAATCCACCTGGTATATATG 60.095 40.741 0.00 0.00 36.34 1.78
2941 3896 9.436957 CAATCCACCTGGTATATATGTTTACTC 57.563 37.037 0.00 0.00 36.34 2.59
2947 3902 9.893975 ACCTGGTATATATGTTTACTCTAACCT 57.106 33.333 0.00 0.00 0.00 3.50
3129 4086 1.135170 GCCAAAGAAAGCCAGATCAGC 60.135 52.381 0.00 0.00 0.00 4.26
3178 4135 6.085555 ACAGTTTGAATCGAGAGTAAGTCA 57.914 37.500 0.00 0.00 0.00 3.41
3212 4169 5.979517 GGAAGTTCAGTTTGATCTTTTGGTG 59.020 40.000 5.01 0.00 36.76 4.17
3269 4226 6.839134 TGATATGGGAGTCTTTAGTCTTAGCA 59.161 38.462 0.00 0.00 0.00 3.49
3281 4238 9.067986 TCTTTAGTCTTAGCAATGATATCTCGA 57.932 33.333 3.98 0.00 0.00 4.04
3313 4270 4.140536 AGTTGCTTAGCTTGCTCTTCTTT 58.859 39.130 5.60 0.00 0.00 2.52
3335 4292 2.675844 GCGTGGCATATCAAGTTGTACA 59.324 45.455 2.11 0.00 0.00 2.90
3350 4307 5.880901 AGTTGTACAATCAGAAACCAGGAT 58.119 37.500 12.26 0.00 0.00 3.24
3463 4420 4.082787 GCTTGGCAAGAAAACTGCAGTATA 60.083 41.667 30.45 0.00 41.78 1.47
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.554142 CATAGCCAACATGAGCGAAGA 58.446 47.619 0.00 0.00 0.00 2.87
1 2 1.600957 CCATAGCCAACATGAGCGAAG 59.399 52.381 0.00 0.00 0.00 3.79
2 3 1.065491 ACCATAGCCAACATGAGCGAA 60.065 47.619 0.00 0.00 0.00 4.70
3 4 0.541392 ACCATAGCCAACATGAGCGA 59.459 50.000 0.00 0.00 0.00 4.93
4 5 0.940126 GACCATAGCCAACATGAGCG 59.060 55.000 0.00 0.00 0.00 5.03
5 6 2.042686 TGACCATAGCCAACATGAGC 57.957 50.000 0.00 0.00 0.00 4.26
6 7 3.346315 TGTTGACCATAGCCAACATGAG 58.654 45.455 0.00 0.00 45.13 2.90
7 8 3.431673 TGTTGACCATAGCCAACATGA 57.568 42.857 0.00 0.00 45.13 3.07
23 24 7.734538 AAACAAACGAATAGTGTTTCTGTTG 57.265 32.000 0.00 0.00 40.53 3.33
27 28 9.019764 CATGAAAAACAAACGAATAGTGTTTCT 57.980 29.630 14.05 0.00 42.96 2.52
35 36 9.804758 AACTAAACCATGAAAAACAAACGAATA 57.195 25.926 0.00 0.00 0.00 1.75
39 40 7.253950 CCTCAACTAAACCATGAAAAACAAACG 60.254 37.037 0.00 0.00 0.00 3.60
55 56 3.581332 ACGGGACATCTTCCTCAACTAAA 59.419 43.478 0.00 0.00 45.09 1.85
57 58 2.758979 GACGGGACATCTTCCTCAACTA 59.241 50.000 0.00 0.00 45.09 2.24
60 61 0.530744 CGACGGGACATCTTCCTCAA 59.469 55.000 0.00 0.00 45.09 3.02
63 64 2.722201 GCCGACGGGACATCTTCCT 61.722 63.158 17.22 0.00 45.09 3.36
65 66 1.227002 GAGCCGACGGGACATCTTC 60.227 63.158 17.22 0.00 34.06 2.87
70 71 1.541310 AAAGATGAGCCGACGGGACA 61.541 55.000 17.22 1.70 34.06 4.02
76 77 5.363979 AAGAAAAGAAAAGATGAGCCGAC 57.636 39.130 0.00 0.00 0.00 4.79
89 90 9.277783 TGTGGAAAACAAATGAAAAGAAAAGAA 57.722 25.926 0.00 0.00 35.24 2.52
90 91 8.839310 TGTGGAAAACAAATGAAAAGAAAAGA 57.161 26.923 0.00 0.00 35.24 2.52
91 92 9.706846 GATGTGGAAAACAAATGAAAAGAAAAG 57.293 29.630 0.00 0.00 43.61 2.27
92 93 9.447157 AGATGTGGAAAACAAATGAAAAGAAAA 57.553 25.926 0.00 0.00 43.61 2.29
93 94 8.881743 CAGATGTGGAAAACAAATGAAAAGAAA 58.118 29.630 0.00 0.00 43.61 2.52
94 95 8.040132 ACAGATGTGGAAAACAAATGAAAAGAA 58.960 29.630 0.00 0.00 43.61 2.52
109 110 7.587037 AAGAGAAATCAAAACAGATGTGGAA 57.413 32.000 0.00 0.00 0.00 3.53
131 132 7.972301 AGATGTCCTTGGGAAAGATCTATAAG 58.028 38.462 0.00 0.00 31.38 1.73
152 153 3.247173 GCTCGCACAATTAGGAAGAGATG 59.753 47.826 0.00 0.00 0.00 2.90
168 169 4.391405 TCAGAAAATCTCATAGCTCGCA 57.609 40.909 0.00 0.00 0.00 5.10
181 182 7.693969 AGTTAACTGCTAGCATTCAGAAAAT 57.306 32.000 19.72 3.92 34.57 1.82
230 231 9.999009 CGAAAATACTAAAATAGAGGGGAAAAC 57.001 33.333 0.00 0.00 0.00 2.43
235 236 7.661847 AGCATCGAAAATACTAAAATAGAGGGG 59.338 37.037 0.00 0.00 0.00 4.79
236 237 8.608844 AGCATCGAAAATACTAAAATAGAGGG 57.391 34.615 0.00 0.00 0.00 4.30
256 258 9.855021 AAGTTGTTTAATGTGGTAATTAGCATC 57.145 29.630 19.53 13.50 35.99 3.91
290 292 7.623268 AAACTTTTGTGAAATTCGATGCTAC 57.377 32.000 0.00 0.00 0.00 3.58
294 296 7.635587 CCAACAAAACTTTTGTGAAATTCGATG 59.364 33.333 18.49 10.48 32.22 3.84
296 298 6.647067 ACCAACAAAACTTTTGTGAAATTCGA 59.353 30.769 18.49 0.00 32.22 3.71
298 300 8.028540 AGACCAACAAAACTTTTGTGAAATTC 57.971 30.769 18.49 11.51 32.22 2.17
301 303 7.793927 AAAGACCAACAAAACTTTTGTGAAA 57.206 28.000 18.49 0.00 32.22 2.69
327 330 7.116736 TCAGCTTAAAATACTTTAGAAGGGGG 58.883 38.462 0.00 0.00 0.00 5.40
369 372 2.032030 CGCTTTGTCCGACACAAGAATT 60.032 45.455 19.27 0.00 45.98 2.17
376 379 2.604174 CCACCGCTTTGTCCGACAC 61.604 63.158 0.00 0.00 0.00 3.67
379 382 1.180456 TCTACCACCGCTTTGTCCGA 61.180 55.000 0.00 0.00 0.00 4.55
391 394 7.192232 ACGAAACGAAGATATAACTCTACCAC 58.808 38.462 0.00 0.00 0.00 4.16
396 399 6.511444 CGAGGACGAAACGAAGATATAACTCT 60.511 42.308 0.00 0.00 42.66 3.24
408 411 1.243342 TTAGGGCGAGGACGAAACGA 61.243 55.000 0.00 0.00 42.66 3.85
409 412 0.388907 TTTAGGGCGAGGACGAAACG 60.389 55.000 0.00 0.00 42.66 3.60
410 413 1.931841 GATTTAGGGCGAGGACGAAAC 59.068 52.381 0.00 0.00 42.66 2.78
411 414 1.134610 GGATTTAGGGCGAGGACGAAA 60.135 52.381 0.00 0.00 42.66 3.46
413 416 0.396695 AGGATTTAGGGCGAGGACGA 60.397 55.000 0.00 0.00 42.66 4.20
414 417 1.325355 TAGGATTTAGGGCGAGGACG 58.675 55.000 0.00 0.00 42.93 4.79
415 418 3.464907 GTTTAGGATTTAGGGCGAGGAC 58.535 50.000 0.00 0.00 0.00 3.85
416 419 2.436911 GGTTTAGGATTTAGGGCGAGGA 59.563 50.000 0.00 0.00 0.00 3.71
418 421 2.438392 AGGGTTTAGGATTTAGGGCGAG 59.562 50.000 0.00 0.00 0.00 5.03
419 422 2.484602 AGGGTTTAGGATTTAGGGCGA 58.515 47.619 0.00 0.00 0.00 5.54
420 423 3.644738 TCTAGGGTTTAGGATTTAGGGCG 59.355 47.826 0.00 0.00 0.00 6.13
421 424 5.073280 ACATCTAGGGTTTAGGATTTAGGGC 59.927 44.000 0.00 0.00 0.00 5.19
422 425 6.765355 ACATCTAGGGTTTAGGATTTAGGG 57.235 41.667 0.00 0.00 0.00 3.53
467 846 5.354792 CCTCCATCCCGTAAAACGATTTTTA 59.645 40.000 0.15 0.00 46.05 1.52
475 854 1.558294 ACTCCCTCCATCCCGTAAAAC 59.442 52.381 0.00 0.00 0.00 2.43
477 856 2.245546 TCTACTCCCTCCATCCCGTAAA 59.754 50.000 0.00 0.00 0.00 2.01
481 860 2.016905 ATTCTACTCCCTCCATCCCG 57.983 55.000 0.00 0.00 0.00 5.14
517 896 3.449737 AGATGCCAAATGACAATTCAGGG 59.550 43.478 0.00 0.00 34.35 4.45
518 897 4.081862 ACAGATGCCAAATGACAATTCAGG 60.082 41.667 0.00 0.00 34.35 3.86
520 899 5.711506 AGTACAGATGCCAAATGACAATTCA 59.288 36.000 0.00 0.00 35.73 2.57
525 904 6.040278 TCAAAAAGTACAGATGCCAAATGACA 59.960 34.615 0.00 0.00 0.00 3.58
566 945 1.079405 TCAAACGGAGGCCACGATC 60.079 57.895 24.06 3.94 34.93 3.69
596 975 0.738975 CCGCTATCACGACAGAAGGA 59.261 55.000 0.00 0.00 34.06 3.36
601 980 1.075542 TTTTGCCGCTATCACGACAG 58.924 50.000 0.00 0.00 34.06 3.51
602 981 1.195900 GTTTTTGCCGCTATCACGACA 59.804 47.619 0.00 0.00 34.06 4.35
603 982 1.463444 AGTTTTTGCCGCTATCACGAC 59.537 47.619 0.00 0.00 34.06 4.34
604 983 1.730064 GAGTTTTTGCCGCTATCACGA 59.270 47.619 0.00 0.00 34.06 4.35
631 1013 0.678950 CCCAATTCGTGCCCTGTTTT 59.321 50.000 0.00 0.00 0.00 2.43
649 1031 5.831997 ACAACTTCATTTCTGCTTTACACC 58.168 37.500 0.00 0.00 0.00 4.16
654 1036 8.253113 CCCATAATACAACTTCATTTCTGCTTT 58.747 33.333 0.00 0.00 0.00 3.51
655 1037 7.631377 GCCCATAATACAACTTCATTTCTGCTT 60.631 37.037 0.00 0.00 0.00 3.91
656 1038 6.183360 GCCCATAATACAACTTCATTTCTGCT 60.183 38.462 0.00 0.00 0.00 4.24
657 1039 5.979517 GCCCATAATACAACTTCATTTCTGC 59.020 40.000 0.00 0.00 0.00 4.26
658 1040 7.067372 TGAGCCCATAATACAACTTCATTTCTG 59.933 37.037 0.00 0.00 0.00 3.02
659 1041 7.118723 TGAGCCCATAATACAACTTCATTTCT 58.881 34.615 0.00 0.00 0.00 2.52
684 1066 1.202330 CAGAAGACTGAGGCCCATCT 58.798 55.000 0.00 0.00 46.03 2.90
765 1147 0.465705 GTTGAGGATGATGAGGGCGA 59.534 55.000 0.00 0.00 0.00 5.54
767 1149 0.179006 GGGTTGAGGATGATGAGGGC 60.179 60.000 0.00 0.00 0.00 5.19
769 1151 1.419387 GAGGGGTTGAGGATGATGAGG 59.581 57.143 0.00 0.00 0.00 3.86
770 1152 2.104451 CAGAGGGGTTGAGGATGATGAG 59.896 54.545 0.00 0.00 0.00 2.90
771 1153 2.121948 CAGAGGGGTTGAGGATGATGA 58.878 52.381 0.00 0.00 0.00 2.92
772 1154 1.142465 CCAGAGGGGTTGAGGATGATG 59.858 57.143 0.00 0.00 0.00 3.07
773 1155 1.516110 CCAGAGGGGTTGAGGATGAT 58.484 55.000 0.00 0.00 0.00 2.45
791 1181 0.108089 GGACGAAAGGAGGAAGAGCC 60.108 60.000 0.00 0.00 0.00 4.70
792 1182 0.608640 TGGACGAAAGGAGGAAGAGC 59.391 55.000 0.00 0.00 0.00 4.09
799 1189 1.743252 GCTGGCTGGACGAAAGGAG 60.743 63.158 0.00 0.00 0.00 3.69
800 1190 2.347490 GCTGGCTGGACGAAAGGA 59.653 61.111 0.00 0.00 0.00 3.36
801 1191 2.747855 GGCTGGCTGGACGAAAGG 60.748 66.667 0.00 0.00 0.00 3.11
803 1193 2.281484 GTGGCTGGCTGGACGAAA 60.281 61.111 2.00 0.00 0.00 3.46
804 1194 4.329545 GGTGGCTGGCTGGACGAA 62.330 66.667 2.00 0.00 0.00 3.85
807 1197 3.842925 TTTCGGTGGCTGGCTGGAC 62.843 63.158 2.00 0.00 0.00 4.02
808 1198 3.126703 TTTTCGGTGGCTGGCTGGA 62.127 57.895 2.00 0.00 0.00 3.86
810 1200 2.644992 GTTTTCGGTGGCTGGCTG 59.355 61.111 2.00 0.00 0.00 4.85
811 1201 2.597510 GGTTTTCGGTGGCTGGCT 60.598 61.111 2.00 0.00 0.00 4.75
812 1202 3.680786 GGGTTTTCGGTGGCTGGC 61.681 66.667 0.00 0.00 0.00 4.85
824 1214 3.662759 TTGTCTTTCTGAGTGGGGTTT 57.337 42.857 0.00 0.00 0.00 3.27
865 1255 3.095347 GCTGGACCCATCTCCGGAC 62.095 68.421 0.00 0.00 38.86 4.79
868 1258 1.153289 CTTGCTGGACCCATCTCCG 60.153 63.158 0.00 0.00 32.22 4.63
869 1259 1.225704 CCTTGCTGGACCCATCTCC 59.774 63.158 0.00 0.00 38.35 3.71
1025 1446 1.797211 GAGCTCGTACATCTCCCCCG 61.797 65.000 0.00 0.00 0.00 5.73
1165 1586 1.954382 GGGAGGTGTTTTGTGGAAGAC 59.046 52.381 0.00 0.00 0.00 3.01
1166 1587 1.566703 TGGGAGGTGTTTTGTGGAAGA 59.433 47.619 0.00 0.00 0.00 2.87
1191 1612 0.980231 CCCAGCTCTGTAGGAAGCCT 60.980 60.000 0.00 0.00 37.71 4.58
1270 1691 0.249868 CCGAGCACAGAACTGTCCAA 60.250 55.000 4.38 0.00 42.83 3.53
1271 1692 1.367471 CCGAGCACAGAACTGTCCA 59.633 57.895 4.38 0.00 42.83 4.02
1351 1772 6.782988 TCCTCGTAATAATCTTCCTCCTCATT 59.217 38.462 0.00 0.00 0.00 2.57
1366 1787 6.071560 ACCATCGCTTCATATTCCTCGTAATA 60.072 38.462 0.00 0.00 0.00 0.98
1385 1938 1.400530 GGGGTCCCAGACTACCATCG 61.401 65.000 10.98 0.00 37.51 3.84
1422 1976 4.910195 AGATGTCAGGATTGTGCAACTTA 58.090 39.130 0.00 0.00 38.04 2.24
1454 2008 3.930229 CGAATAGTTTGTCCCGTTGATGA 59.070 43.478 0.00 0.00 0.00 2.92
1497 2057 1.028330 CGTCATGGTTGCAGCCATCT 61.028 55.000 30.06 11.10 45.47 2.90
1566 2453 1.004918 CGGCCTTCTTTCGGTCACT 60.005 57.895 0.00 0.00 0.00 3.41
1582 2487 0.526954 GTATACAGACGCCCACACGG 60.527 60.000 0.00 0.00 37.37 4.94
1652 2558 0.817634 CGGCTCCAAGTGTTCCAACA 60.818 55.000 0.00 0.00 36.38 3.33
1671 2577 3.490348 CCATCTTGATTCCCACCATACC 58.510 50.000 0.00 0.00 0.00 2.73
1672 2578 2.887152 GCCATCTTGATTCCCACCATAC 59.113 50.000 0.00 0.00 0.00 2.39
1673 2579 2.513317 TGCCATCTTGATTCCCACCATA 59.487 45.455 0.00 0.00 0.00 2.74
1676 2582 1.478105 GTTGCCATCTTGATTCCCACC 59.522 52.381 0.00 0.00 0.00 4.61
1677 2583 1.133025 CGTTGCCATCTTGATTCCCAC 59.867 52.381 0.00 0.00 0.00 4.61
1679 2585 0.740737 CCGTTGCCATCTTGATTCCC 59.259 55.000 0.00 0.00 0.00 3.97
1680 2586 0.740737 CCCGTTGCCATCTTGATTCC 59.259 55.000 0.00 0.00 0.00 3.01
1681 2587 0.740737 CCCCGTTGCCATCTTGATTC 59.259 55.000 0.00 0.00 0.00 2.52
1682 2588 0.331278 TCCCCGTTGCCATCTTGATT 59.669 50.000 0.00 0.00 0.00 2.57
1683 2589 0.552848 ATCCCCGTTGCCATCTTGAT 59.447 50.000 0.00 0.00 0.00 2.57
1708 2614 1.202879 TGAGAAGGCAAAACCCGATGT 60.203 47.619 0.00 0.00 40.58 3.06
1785 2691 2.224793 GGGGACAGGTGAAAAACTAGCT 60.225 50.000 0.00 0.00 0.00 3.32
1836 2743 2.271173 GATTTCCCCGCGGGTTCT 59.729 61.111 40.52 23.08 44.74 3.01
2047 2972 9.886132 AACTTATGTATTGGACTATTTCGTCTT 57.114 29.630 0.00 0.00 34.38 3.01
2176 3101 2.627699 GGACTTGGCACTTTGATTTGGA 59.372 45.455 0.00 0.00 0.00 3.53
2249 3178 1.524008 GGACCTGAAACCCGGCAAAG 61.524 60.000 0.00 0.00 0.00 2.77
2267 3196 0.034896 CCCATTTCGATAGTCCCCGG 59.965 60.000 0.00 0.00 37.40 5.73
2337 3266 2.749839 CGGCTTTTCATCCCCGCA 60.750 61.111 0.00 0.00 33.77 5.69
2407 3336 0.032813 CCTCAAGATGGCAATGGGGT 60.033 55.000 8.59 0.00 29.70 4.95
2534 3469 4.211389 GTTTCGCATAAACACACACAGAG 58.789 43.478 6.76 0.00 0.00 3.35
2696 3651 0.700564 ATTGCCAAGGGAGAGAAGCA 59.299 50.000 0.00 0.00 0.00 3.91
2734 3689 1.612950 CACACAGCCAACAAGCCATAA 59.387 47.619 0.00 0.00 0.00 1.90
2737 3692 2.126596 CCACACAGCCAACAAGCCA 61.127 57.895 0.00 0.00 0.00 4.75
2740 3695 1.174712 CCCTCCACACAGCCAACAAG 61.175 60.000 0.00 0.00 0.00 3.16
2763 3718 2.040947 TGTGGCCACAACAAGGATATCA 59.959 45.455 36.10 8.02 38.56 2.15
2823 3778 4.246458 GCTTACTCGACAACTTCCTTGAT 58.754 43.478 0.00 0.00 33.59 2.57
2825 3780 2.737252 GGCTTACTCGACAACTTCCTTG 59.263 50.000 0.00 0.00 35.77 3.61
2826 3781 2.609737 CGGCTTACTCGACAACTTCCTT 60.610 50.000 0.00 0.00 0.00 3.36
2849 3804 4.022329 ACGCATATCAACATATGTCCTCGA 60.022 41.667 9.23 4.40 42.84 4.04
2850 3805 4.090498 CACGCATATCAACATATGTCCTCG 59.910 45.833 9.23 8.54 42.84 4.63
2851 3806 4.389992 CCACGCATATCAACATATGTCCTC 59.610 45.833 9.23 0.00 42.84 3.71
2861 3816 2.738846 CCTATCAGCCACGCATATCAAC 59.261 50.000 0.00 0.00 0.00 3.18
2862 3817 2.368548 ACCTATCAGCCACGCATATCAA 59.631 45.455 0.00 0.00 0.00 2.57
2864 3819 2.751166 ACCTATCAGCCACGCATATC 57.249 50.000 0.00 0.00 0.00 1.63
2865 3820 3.141398 CAAACCTATCAGCCACGCATAT 58.859 45.455 0.00 0.00 0.00 1.78
2866 3821 2.169561 TCAAACCTATCAGCCACGCATA 59.830 45.455 0.00 0.00 0.00 3.14
2867 3822 1.065491 TCAAACCTATCAGCCACGCAT 60.065 47.619 0.00 0.00 0.00 4.73
2868 3823 0.323302 TCAAACCTATCAGCCACGCA 59.677 50.000 0.00 0.00 0.00 5.24
2869 3824 1.009829 CTCAAACCTATCAGCCACGC 58.990 55.000 0.00 0.00 0.00 5.34
2870 3825 2.093973 ACTCTCAAACCTATCAGCCACG 60.094 50.000 0.00 0.00 0.00 4.94
2871 3826 3.618690 ACTCTCAAACCTATCAGCCAC 57.381 47.619 0.00 0.00 0.00 5.01
2877 3832 9.361315 GTAGAGAAAGAAACTCTCAAACCTATC 57.639 37.037 0.00 0.00 42.68 2.08
2880 3835 6.987404 GTGTAGAGAAAGAAACTCTCAAACCT 59.013 38.462 0.00 0.00 42.68 3.50
2881 3836 6.074249 CGTGTAGAGAAAGAAACTCTCAAACC 60.074 42.308 0.00 0.00 42.68 3.27
2905 3860 1.466167 CAGGTGGATTGTTGAAGCTCG 59.534 52.381 0.00 0.00 0.00 5.03
2967 3923 9.482627 TGGTGAATAAAACACATCATAAAAACC 57.517 29.630 0.00 0.00 39.65 3.27
2980 3936 6.266558 ACTTAGCATTGGTGGTGAATAAAACA 59.733 34.615 0.00 0.00 37.28 2.83
3129 4086 1.740380 CGCCATGACCTACTTCACTGG 60.740 57.143 0.00 0.00 32.03 4.00
3178 4135 6.240894 TCAAACTGAACTTCCATGCTTCTAT 58.759 36.000 0.00 0.00 0.00 1.98
3212 4169 7.067981 AGGATAAGACTCAAAATGGAAATCAGC 59.932 37.037 0.00 0.00 0.00 4.26
3281 4238 7.830739 AGCAAGCTAAGCAACTTACAAATTAT 58.169 30.769 12.91 0.00 0.00 1.28
3313 4270 1.819928 ACAACTTGATATGCCACGCA 58.180 45.000 0.00 0.00 44.86 5.24
3335 4292 5.595952 GCCATTCTTATCCTGGTTTCTGATT 59.404 40.000 0.00 0.00 32.42 2.57
3350 4307 5.502079 TCCTCAATTTTACGGCCATTCTTA 58.498 37.500 2.24 0.00 0.00 2.10
3463 4420 0.465705 CTCATGTACTGTGGCCGGAT 59.534 55.000 5.05 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.