Multiple sequence alignment - TraesCS1A01G390700

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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 TraesCS1A01G390700 chr1A 100.000 2261 0 0 1 2261 558017647 558015387 0.000000e+00 4176.0
1 TraesCS1A01G390700 chr1A 93.653 646 31 8 765 1404 490470644 490470003 0.000000e+00 957.0
2 TraesCS1A01G390700 chr1A 93.291 313 19 2 161 472 490470942 490470631 5.690000e-126 460.0
3 TraesCS1A01G390700 chr1A 94.964 139 6 1 1 139 490472855 490472718 1.360000e-52 217.0
4 TraesCS1A01G390700 chr4A 97.997 1498 27 3 765 2261 420016718 420018213 0.000000e+00 2597.0
5 TraesCS1A01G390700 chr4A 97.608 418 7 3 3 419 420016279 420016694 0.000000e+00 713.0
6 TraesCS1A01G390700 chr4A 100.000 46 0 0 427 472 420016686 420016731 4.000000e-13 86.1
7 TraesCS1A01G390700 chr2D 95.683 857 32 5 1405 2261 52286635 52285784 0.000000e+00 1373.0
8 TraesCS1A01G390700 chr5B 92.882 857 35 9 1405 2261 634119252 634120082 0.000000e+00 1221.0
9 TraesCS1A01G390700 chr5B 88.992 645 26 16 765 1404 166591552 166592156 0.000000e+00 756.0
10 TraesCS1A01G390700 chr5B 94.080 473 24 4 1 472 166591096 166591565 0.000000e+00 715.0
11 TraesCS1A01G390700 chr5B 97.635 296 7 0 471 766 674376766 674376471 2.000000e-140 508.0
12 TraesCS1A01G390700 chr5B 95.031 161 6 2 1 160 166586341 166586500 3.730000e-63 252.0
13 TraesCS1A01G390700 chr7A 95.047 747 31 6 1405 2148 299414532 299415275 0.000000e+00 1170.0
14 TraesCS1A01G390700 chr7A 87.446 462 44 11 782 1233 123205770 123206227 9.260000e-144 520.0
15 TraesCS1A01G390700 chr7A 96.774 124 4 0 2138 2261 299429489 299429612 8.180000e-50 207.0
16 TraesCS1A01G390700 chr7A 81.579 114 14 5 1587 1700 87272495 87272601 1.110000e-13 87.9
17 TraesCS1A01G390700 chr3D 95.050 707 29 4 1405 2107 30973554 30972850 0.000000e+00 1107.0
18 TraesCS1A01G390700 chr3D 95.810 525 19 2 1737 2261 477611554 477612075 0.000000e+00 845.0
19 TraesCS1A01G390700 chr3D 91.653 611 43 7 1405 2010 412105397 412104790 0.000000e+00 839.0
20 TraesCS1A01G390700 chr3D 96.165 339 10 3 1405 1742 477570929 477571265 3.280000e-153 551.0
21 TraesCS1A01G390700 chr3D 94.203 207 12 0 2054 2260 412104792 412104586 1.300000e-82 316.0
22 TraesCS1A01G390700 chr3D 97.484 159 4 0 2103 2261 30972034 30971876 2.860000e-69 272.0
23 TraesCS1A01G390700 chr2A 94.640 597 32 0 1663 2259 315764602 315764006 0.000000e+00 926.0
24 TraesCS1A01G390700 chr7D 91.783 645 21 5 765 1404 221991431 221990814 0.000000e+00 869.0
25 TraesCS1A01G390700 chr7D 96.436 477 10 5 1 472 221991892 221991418 0.000000e+00 780.0
26 TraesCS1A01G390700 chr7D 97.635 296 7 0 470 765 536119116 536118821 2.000000e-140 508.0
27 TraesCS1A01G390700 chr6D 91.761 619 43 5 1650 2261 169716392 169715775 0.000000e+00 854.0
28 TraesCS1A01G390700 chr6D 89.873 158 13 2 1406 1560 169716902 169716745 1.370000e-47 200.0
29 TraesCS1A01G390700 chr2B 90.180 611 55 4 796 1404 15465731 15465124 0.000000e+00 791.0
30 TraesCS1A01G390700 chr2B 96.711 304 8 2 471 773 77779300 77779602 2.590000e-139 505.0
31 TraesCS1A01G390700 chr2B 86.797 462 47 11 782 1233 17850997 17850540 9.320000e-139 503.0
32 TraesCS1A01G390700 chr2B 82.589 448 30 13 52 474 15466160 15465736 3.570000e-93 351.0
33 TraesCS1A01G390700 chr3B 89.555 584 46 10 1604 2184 726178471 726179042 0.000000e+00 726.0
34 TraesCS1A01G390700 chr3B 96.405 306 10 1 471 775 606376059 606376364 9.320000e-139 503.0
35 TraesCS1A01G390700 chr3B 90.476 189 16 1 1405 1591 726178213 726178401 4.820000e-62 248.0
36 TraesCS1A01G390700 chr5D 86.207 638 71 11 765 1395 196319931 196320558 0.000000e+00 675.0
37 TraesCS1A01G390700 chr5D 88.258 264 17 11 2 256 196319499 196319757 1.010000e-78 303.0
38 TraesCS1A01G390700 chr5D 93.548 62 3 1 338 399 196319790 196319850 8.600000e-15 91.6
39 TraesCS1A01G390700 chr7B 97.667 300 7 0 471 770 717329202 717328903 1.200000e-142 516.0
40 TraesCS1A01G390700 chr7B 95.238 315 11 4 458 770 120740269 120740581 1.560000e-136 496.0
41 TraesCS1A01G390700 chr7B 86.316 95 8 4 1599 1693 356684726 356684637 5.140000e-17 99.0
42 TraesCS1A01G390700 chr6A 97.667 300 6 1 471 770 181910143 181909845 4.310000e-142 514.0
43 TraesCS1A01G390700 chr6A 97.324 299 7 1 471 768 485754914 485754616 7.210000e-140 507.0
44 TraesCS1A01G390700 chr1B 87.013 462 46 11 782 1233 62430259 62429802 2.000000e-140 508.0
45 TraesCS1A01G390700 chr1B 97.020 302 8 1 471 772 588322709 588322409 7.210000e-140 507.0
46 TraesCS1A01G390700 chr1B 86.797 462 47 11 782 1233 229526165 229525708 9.320000e-139 503.0
47 TraesCS1A01G390700 chr1B 88.608 79 7 2 223 300 62430544 62430467 6.650000e-16 95.3
48 TraesCS1A01G390700 chr1B 96.970 33 1 0 1372 1404 469195044 469195012 3.140000e-04 56.5
49 TraesCS1A01G390700 chr1B 96.970 33 1 0 1372 1404 469208948 469208916 3.140000e-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 TraesCS1A01G390700 chr1A 558015387 558017647 2260 True 4176.000000 4176 100.000000 1 2261 1 chr1A.!!$R1 2260
1 TraesCS1A01G390700 chr1A 490470003 490472855 2852 True 544.666667 957 93.969333 1 1404 3 chr1A.!!$R2 1403
2 TraesCS1A01G390700 chr4A 420016279 420018213 1934 False 1132.033333 2597 98.535000 3 2261 3 chr4A.!!$F1 2258
3 TraesCS1A01G390700 chr2D 52285784 52286635 851 True 1373.000000 1373 95.683000 1405 2261 1 chr2D.!!$R1 856
4 TraesCS1A01G390700 chr5B 634119252 634120082 830 False 1221.000000 1221 92.882000 1405 2261 1 chr5B.!!$F2 856
5 TraesCS1A01G390700 chr5B 166591096 166592156 1060 False 735.500000 756 91.536000 1 1404 2 chr5B.!!$F3 1403
6 TraesCS1A01G390700 chr7A 299414532 299415275 743 False 1170.000000 1170 95.047000 1405 2148 1 chr7A.!!$F3 743
7 TraesCS1A01G390700 chr3D 477611554 477612075 521 False 845.000000 845 95.810000 1737 2261 1 chr3D.!!$F2 524
8 TraesCS1A01G390700 chr3D 30971876 30973554 1678 True 689.500000 1107 96.267000 1405 2261 2 chr3D.!!$R1 856
9 TraesCS1A01G390700 chr3D 412104586 412105397 811 True 577.500000 839 92.928000 1405 2260 2 chr3D.!!$R2 855
10 TraesCS1A01G390700 chr2A 315764006 315764602 596 True 926.000000 926 94.640000 1663 2259 1 chr2A.!!$R1 596
11 TraesCS1A01G390700 chr7D 221990814 221991892 1078 True 824.500000 869 94.109500 1 1404 2 chr7D.!!$R2 1403
12 TraesCS1A01G390700 chr6D 169715775 169716902 1127 True 527.000000 854 90.817000 1406 2261 2 chr6D.!!$R1 855
13 TraesCS1A01G390700 chr2B 15465124 15466160 1036 True 571.000000 791 86.384500 52 1404 2 chr2B.!!$R2 1352
14 TraesCS1A01G390700 chr3B 726178213 726179042 829 False 487.000000 726 90.015500 1405 2184 2 chr3B.!!$F2 779
15 TraesCS1A01G390700 chr5D 196319499 196320558 1059 False 356.533333 675 89.337667 2 1395 3 chr5D.!!$F1 1393
16 TraesCS1A01G390700 chr1B 62429802 62430544 742 True 301.650000 508 87.810500 223 1233 2 chr1B.!!$R5 1010

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
676 2492 0.033601 AGTCTCTCGGAGGTGCTCAT 60.034 55.0 4.96 0.0 31.08 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1829 4042 2.715046 TGAAGTAAGGCCAGCATCAAG 58.285 47.619 5.01 0.0 0.0 3.02 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
100 108 5.353111 TGTTCAATCGGTTAGCGAATGATA 58.647 37.500 22.17 13.30 0.00 2.15
287 2054 0.393820 GTCCCCACACCACGTAGAAA 59.606 55.000 0.00 0.00 0.00 2.52
309 2091 2.363788 AAGAACGCAACTCTCGCATA 57.636 45.000 0.00 0.00 0.00 3.14
462 2278 4.030913 CACTTATCCCCACCACTTAGAGA 58.969 47.826 0.00 0.00 0.00 3.10
463 2279 4.469945 CACTTATCCCCACCACTTAGAGAA 59.530 45.833 0.00 0.00 0.00 2.87
464 2280 4.470304 ACTTATCCCCACCACTTAGAGAAC 59.530 45.833 0.00 0.00 0.00 3.01
465 2281 1.652947 TCCCCACCACTTAGAGAACC 58.347 55.000 0.00 0.00 0.00 3.62
466 2282 0.618981 CCCCACCACTTAGAGAACCC 59.381 60.000 0.00 0.00 0.00 4.11
467 2283 1.657804 CCCACCACTTAGAGAACCCT 58.342 55.000 0.00 0.00 0.00 4.34
468 2284 2.561297 CCCCACCACTTAGAGAACCCTA 60.561 54.545 0.00 0.00 0.00 3.53
469 2285 2.766828 CCCACCACTTAGAGAACCCTAG 59.233 54.545 0.00 0.00 0.00 3.02
470 2286 2.168728 CCACCACTTAGAGAACCCTAGC 59.831 54.545 0.00 0.00 0.00 3.42
471 2287 2.168728 CACCACTTAGAGAACCCTAGCC 59.831 54.545 0.00 0.00 0.00 3.93
472 2288 2.044630 ACCACTTAGAGAACCCTAGCCT 59.955 50.000 0.00 0.00 0.00 4.58
473 2289 2.432510 CCACTTAGAGAACCCTAGCCTG 59.567 54.545 0.00 0.00 0.00 4.85
474 2290 3.100671 CACTTAGAGAACCCTAGCCTGT 58.899 50.000 0.00 0.00 0.00 4.00
475 2291 3.100671 ACTTAGAGAACCCTAGCCTGTG 58.899 50.000 0.00 0.00 0.00 3.66
476 2292 2.160721 TAGAGAACCCTAGCCTGTGG 57.839 55.000 0.00 0.00 0.00 4.17
477 2293 0.117340 AGAGAACCCTAGCCTGTGGT 59.883 55.000 0.00 0.00 0.00 4.16
478 2294 0.984995 GAGAACCCTAGCCTGTGGTT 59.015 55.000 0.48 0.48 44.80 3.67
479 2295 0.693049 AGAACCCTAGCCTGTGGTTG 59.307 55.000 5.22 0.00 42.27 3.77
480 2296 0.690762 GAACCCTAGCCTGTGGTTGA 59.309 55.000 5.22 0.00 42.27 3.18
481 2297 0.693049 AACCCTAGCCTGTGGTTGAG 59.307 55.000 0.11 0.00 40.75 3.02
482 2298 0.473886 ACCCTAGCCTGTGGTTGAGT 60.474 55.000 0.00 0.00 0.00 3.41
483 2299 0.693049 CCCTAGCCTGTGGTTGAGTT 59.307 55.000 0.00 0.00 0.00 3.01
484 2300 1.611673 CCCTAGCCTGTGGTTGAGTTG 60.612 57.143 0.00 0.00 0.00 3.16
485 2301 1.611673 CCTAGCCTGTGGTTGAGTTGG 60.612 57.143 0.00 0.00 0.00 3.77
486 2302 1.072331 CTAGCCTGTGGTTGAGTTGGT 59.928 52.381 0.00 0.00 0.00 3.67
487 2303 0.258774 AGCCTGTGGTTGAGTTGGTT 59.741 50.000 0.00 0.00 0.00 3.67
488 2304 1.493022 AGCCTGTGGTTGAGTTGGTTA 59.507 47.619 0.00 0.00 0.00 2.85
489 2305 1.880027 GCCTGTGGTTGAGTTGGTTAG 59.120 52.381 0.00 0.00 0.00 2.34
490 2306 2.504367 CCTGTGGTTGAGTTGGTTAGG 58.496 52.381 0.00 0.00 0.00 2.69
491 2307 2.158667 CCTGTGGTTGAGTTGGTTAGGT 60.159 50.000 0.00 0.00 0.00 3.08
492 2308 2.878406 CTGTGGTTGAGTTGGTTAGGTG 59.122 50.000 0.00 0.00 0.00 4.00
493 2309 2.227194 GTGGTTGAGTTGGTTAGGTGG 58.773 52.381 0.00 0.00 0.00 4.61
494 2310 2.128535 TGGTTGAGTTGGTTAGGTGGA 58.871 47.619 0.00 0.00 0.00 4.02
495 2311 2.158726 TGGTTGAGTTGGTTAGGTGGAC 60.159 50.000 0.00 0.00 0.00 4.02
496 2312 2.158726 GGTTGAGTTGGTTAGGTGGACA 60.159 50.000 0.00 0.00 0.00 4.02
497 2313 3.139077 GTTGAGTTGGTTAGGTGGACAG 58.861 50.000 0.00 0.00 0.00 3.51
498 2314 2.404559 TGAGTTGGTTAGGTGGACAGT 58.595 47.619 0.00 0.00 0.00 3.55
499 2315 2.104111 TGAGTTGGTTAGGTGGACAGTG 59.896 50.000 0.00 0.00 0.00 3.66
500 2316 1.420138 AGTTGGTTAGGTGGACAGTGG 59.580 52.381 0.00 0.00 0.00 4.00
501 2317 1.142262 GTTGGTTAGGTGGACAGTGGT 59.858 52.381 0.00 0.00 0.00 4.16
502 2318 2.369532 GTTGGTTAGGTGGACAGTGGTA 59.630 50.000 0.00 0.00 0.00 3.25
503 2319 2.910544 TGGTTAGGTGGACAGTGGTAT 58.089 47.619 0.00 0.00 0.00 2.73
504 2320 2.835764 TGGTTAGGTGGACAGTGGTATC 59.164 50.000 0.00 0.00 0.00 2.24
505 2321 2.169978 GGTTAGGTGGACAGTGGTATCC 59.830 54.545 0.00 0.00 35.37 2.59
506 2322 2.169978 GTTAGGTGGACAGTGGTATCCC 59.830 54.545 0.00 0.00 33.69 3.85
507 2323 0.620700 AGGTGGACAGTGGTATCCCC 60.621 60.000 0.00 0.00 33.69 4.81
508 2324 0.912487 GGTGGACAGTGGTATCCCCA 60.912 60.000 0.00 0.00 42.51 4.96
515 2331 3.844063 TGGTATCCCCAACCCACC 58.156 61.111 0.00 0.00 41.50 4.61
516 2332 1.151565 TGGTATCCCCAACCCACCA 60.152 57.895 0.00 0.00 41.50 4.17
517 2333 1.211567 TGGTATCCCCAACCCACCAG 61.212 60.000 0.00 0.00 41.50 4.00
518 2334 1.613061 GTATCCCCAACCCACCAGG 59.387 63.158 0.00 0.00 43.78 4.45
531 2347 3.004752 CCACCAGGGTTCAAATCCTAG 57.995 52.381 0.00 0.00 37.45 3.02
532 2348 2.308866 CCACCAGGGTTCAAATCCTAGT 59.691 50.000 0.00 0.00 37.45 2.57
533 2349 3.347216 CACCAGGGTTCAAATCCTAGTG 58.653 50.000 6.28 6.28 41.36 2.74
534 2350 2.290960 ACCAGGGTTCAAATCCTAGTGC 60.291 50.000 0.00 0.00 37.45 4.40
535 2351 2.025887 CCAGGGTTCAAATCCTAGTGCT 60.026 50.000 0.00 0.00 37.45 4.40
536 2352 3.274288 CAGGGTTCAAATCCTAGTGCTC 58.726 50.000 0.00 0.00 37.45 4.26
537 2353 2.093447 AGGGTTCAAATCCTAGTGCTCG 60.093 50.000 0.00 0.00 37.89 5.03
538 2354 1.666189 GGTTCAAATCCTAGTGCTCGC 59.334 52.381 0.00 0.00 0.00 5.03
539 2355 2.346803 GTTCAAATCCTAGTGCTCGCA 58.653 47.619 0.00 0.00 0.00 5.10
540 2356 2.939103 GTTCAAATCCTAGTGCTCGCAT 59.061 45.455 0.00 0.00 0.00 4.73
541 2357 3.266510 TCAAATCCTAGTGCTCGCATT 57.733 42.857 0.00 0.00 0.00 3.56
542 2358 4.400529 TCAAATCCTAGTGCTCGCATTA 57.599 40.909 0.00 0.00 0.00 1.90
543 2359 4.960938 TCAAATCCTAGTGCTCGCATTAT 58.039 39.130 0.00 0.00 0.00 1.28
544 2360 5.368145 TCAAATCCTAGTGCTCGCATTATT 58.632 37.500 0.00 0.00 0.00 1.40
545 2361 5.466728 TCAAATCCTAGTGCTCGCATTATTC 59.533 40.000 0.00 0.00 0.00 1.75
546 2362 3.386768 TCCTAGTGCTCGCATTATTCC 57.613 47.619 0.00 0.00 0.00 3.01
547 2363 2.965831 TCCTAGTGCTCGCATTATTCCT 59.034 45.455 0.00 0.00 0.00 3.36
548 2364 3.062763 CCTAGTGCTCGCATTATTCCTG 58.937 50.000 0.00 0.00 0.00 3.86
549 2365 1.959042 AGTGCTCGCATTATTCCTGG 58.041 50.000 0.00 0.00 0.00 4.45
550 2366 1.486310 AGTGCTCGCATTATTCCTGGA 59.514 47.619 0.00 0.00 0.00 3.86
551 2367 2.105477 AGTGCTCGCATTATTCCTGGAT 59.895 45.455 0.00 0.00 0.00 3.41
552 2368 2.880890 GTGCTCGCATTATTCCTGGATT 59.119 45.455 0.00 0.00 0.00 3.01
553 2369 3.316308 GTGCTCGCATTATTCCTGGATTT 59.684 43.478 0.00 0.00 0.00 2.17
554 2370 4.515191 GTGCTCGCATTATTCCTGGATTTA 59.485 41.667 0.00 0.00 0.00 1.40
555 2371 5.182001 GTGCTCGCATTATTCCTGGATTTAT 59.818 40.000 0.00 0.00 0.00 1.40
556 2372 5.769662 TGCTCGCATTATTCCTGGATTTATT 59.230 36.000 0.00 0.00 0.00 1.40
557 2373 6.265196 TGCTCGCATTATTCCTGGATTTATTT 59.735 34.615 0.00 0.00 0.00 1.40
558 2374 6.803807 GCTCGCATTATTCCTGGATTTATTTC 59.196 38.462 0.00 0.00 0.00 2.17
559 2375 7.522073 GCTCGCATTATTCCTGGATTTATTTCA 60.522 37.037 0.00 0.00 0.00 2.69
560 2376 7.874940 TCGCATTATTCCTGGATTTATTTCAG 58.125 34.615 0.00 0.00 0.00 3.02
561 2377 7.040478 TCGCATTATTCCTGGATTTATTTCAGG 60.040 37.037 0.00 0.00 46.91 3.86
569 2385 6.076981 CTGGATTTATTTCAGGATTTCCGG 57.923 41.667 0.00 0.00 42.08 5.14
570 2386 4.340950 TGGATTTATTTCAGGATTTCCGGC 59.659 41.667 0.00 0.00 42.08 6.13
571 2387 4.537015 GATTTATTTCAGGATTTCCGGCG 58.463 43.478 0.00 0.00 42.08 6.46
572 2388 2.992124 TATTTCAGGATTTCCGGCGA 57.008 45.000 9.30 0.00 42.08 5.54
573 2389 2.348411 ATTTCAGGATTTCCGGCGAT 57.652 45.000 9.30 0.00 42.08 4.58
574 2390 1.378531 TTTCAGGATTTCCGGCGATG 58.621 50.000 9.30 0.00 42.08 3.84
575 2391 1.095228 TTCAGGATTTCCGGCGATGC 61.095 55.000 9.30 0.00 42.08 3.91
576 2392 2.588877 AGGATTTCCGGCGATGCG 60.589 61.111 9.30 0.00 42.08 4.73
587 2403 2.787249 CGATGCGCTTTCAGTGGG 59.213 61.111 9.73 0.00 0.00 4.61
588 2404 1.741401 CGATGCGCTTTCAGTGGGA 60.741 57.895 9.73 0.00 0.00 4.37
589 2405 1.699656 CGATGCGCTTTCAGTGGGAG 61.700 60.000 9.73 0.00 0.00 4.30
590 2406 1.372087 GATGCGCTTTCAGTGGGAGG 61.372 60.000 9.73 0.00 0.00 4.30
591 2407 1.841302 ATGCGCTTTCAGTGGGAGGA 61.841 55.000 9.73 0.00 0.00 3.71
592 2408 1.743252 GCGCTTTCAGTGGGAGGAG 60.743 63.158 0.00 0.00 0.00 3.69
593 2409 1.975327 CGCTTTCAGTGGGAGGAGA 59.025 57.895 0.00 0.00 0.00 3.71
594 2410 0.390472 CGCTTTCAGTGGGAGGAGAC 60.390 60.000 0.00 0.00 0.00 3.36
595 2411 0.390472 GCTTTCAGTGGGAGGAGACG 60.390 60.000 0.00 0.00 0.00 4.18
596 2412 0.969894 CTTTCAGTGGGAGGAGACGT 59.030 55.000 0.00 0.00 0.00 4.34
597 2413 1.344763 CTTTCAGTGGGAGGAGACGTT 59.655 52.381 0.00 0.00 0.00 3.99
598 2414 0.966920 TTCAGTGGGAGGAGACGTTC 59.033 55.000 0.00 0.00 0.00 3.95
621 2437 4.883300 GACGACGAGGCGCCTACG 62.883 72.222 32.91 32.91 44.07 3.51
624 2440 4.849329 GACGAGGCGCCTACGGTG 62.849 72.222 34.97 23.88 40.57 4.94
626 2442 4.849329 CGAGGCGCCTACGGTGAC 62.849 72.222 32.97 14.51 42.50 3.67
629 2445 2.508663 GGCGCCTACGGTGACTTC 60.509 66.667 22.15 0.00 38.38 3.01
630 2446 2.879462 GCGCCTACGGTGACTTCG 60.879 66.667 0.00 0.00 40.57 3.79
631 2447 2.564975 CGCCTACGGTGACTTCGT 59.435 61.111 0.00 0.00 43.64 3.85
632 2448 1.796151 CGCCTACGGTGACTTCGTA 59.204 57.895 0.00 0.00 41.38 3.43
633 2449 0.168788 CGCCTACGGTGACTTCGTAA 59.831 55.000 0.00 0.00 41.62 3.18
634 2450 1.401409 CGCCTACGGTGACTTCGTAAA 60.401 52.381 0.00 0.00 41.62 2.01
635 2451 2.733227 CGCCTACGGTGACTTCGTAAAT 60.733 50.000 0.00 0.00 41.62 1.40
636 2452 2.856557 GCCTACGGTGACTTCGTAAATC 59.143 50.000 0.00 0.00 41.62 2.17
637 2453 3.428589 GCCTACGGTGACTTCGTAAATCT 60.429 47.826 0.00 0.00 41.62 2.40
638 2454 4.349501 CCTACGGTGACTTCGTAAATCTC 58.650 47.826 0.00 0.00 41.62 2.75
639 2455 3.928727 ACGGTGACTTCGTAAATCTCA 57.071 42.857 0.00 0.00 39.22 3.27
640 2456 4.247267 ACGGTGACTTCGTAAATCTCAA 57.753 40.909 0.00 0.00 39.22 3.02
641 2457 4.235360 ACGGTGACTTCGTAAATCTCAAG 58.765 43.478 0.00 0.00 39.22 3.02
642 2458 4.022589 ACGGTGACTTCGTAAATCTCAAGA 60.023 41.667 0.00 0.00 39.22 3.02
643 2459 5.103000 CGGTGACTTCGTAAATCTCAAGAT 58.897 41.667 0.00 0.00 36.07 2.40
644 2460 5.004821 CGGTGACTTCGTAAATCTCAAGATG 59.995 44.000 0.00 0.00 34.49 2.90
645 2461 6.100004 GGTGACTTCGTAAATCTCAAGATGA 58.900 40.000 0.00 0.00 34.49 2.92
646 2462 6.758886 GGTGACTTCGTAAATCTCAAGATGAT 59.241 38.462 0.00 0.00 34.49 2.45
647 2463 7.921214 GGTGACTTCGTAAATCTCAAGATGATA 59.079 37.037 0.00 0.00 34.49 2.15
648 2464 9.469807 GTGACTTCGTAAATCTCAAGATGATAT 57.530 33.333 0.00 0.00 34.49 1.63
649 2465 9.468532 TGACTTCGTAAATCTCAAGATGATATG 57.531 33.333 0.00 0.00 34.49 1.78
650 2466 8.304202 ACTTCGTAAATCTCAAGATGATATGC 57.696 34.615 0.00 0.00 34.49 3.14
651 2467 7.386299 ACTTCGTAAATCTCAAGATGATATGCC 59.614 37.037 0.00 0.00 34.49 4.40
652 2468 5.863935 TCGTAAATCTCAAGATGATATGCCG 59.136 40.000 0.00 0.00 34.49 5.69
653 2469 5.062683 CGTAAATCTCAAGATGATATGCCGG 59.937 44.000 0.00 0.00 34.49 6.13
654 2470 2.462456 TCTCAAGATGATATGCCGGC 57.538 50.000 22.73 22.73 0.00 6.13
655 2471 1.973515 TCTCAAGATGATATGCCGGCT 59.026 47.619 29.70 15.76 0.00 5.52
656 2472 2.028658 TCTCAAGATGATATGCCGGCTC 60.029 50.000 29.70 17.89 0.00 4.70
657 2473 1.693606 TCAAGATGATATGCCGGCTCA 59.306 47.619 29.70 23.34 0.00 4.26
658 2474 2.074576 CAAGATGATATGCCGGCTCAG 58.925 52.381 29.70 7.35 0.00 3.35
659 2475 1.346062 AGATGATATGCCGGCTCAGT 58.654 50.000 29.70 13.44 0.00 3.41
660 2476 1.274728 AGATGATATGCCGGCTCAGTC 59.725 52.381 29.70 19.55 0.00 3.51
661 2477 1.274728 GATGATATGCCGGCTCAGTCT 59.725 52.381 29.70 8.26 0.00 3.24
662 2478 0.676184 TGATATGCCGGCTCAGTCTC 59.324 55.000 29.70 15.31 0.00 3.36
663 2479 0.965439 GATATGCCGGCTCAGTCTCT 59.035 55.000 29.70 3.16 0.00 3.10
664 2480 0.965439 ATATGCCGGCTCAGTCTCTC 59.035 55.000 29.70 0.00 0.00 3.20
665 2481 1.448119 TATGCCGGCTCAGTCTCTCG 61.448 60.000 29.70 0.00 0.00 4.04
666 2482 4.200283 GCCGGCTCAGTCTCTCGG 62.200 72.222 22.15 0.00 43.13 4.63
667 2483 2.438614 CCGGCTCAGTCTCTCGGA 60.439 66.667 0.00 0.00 42.94 4.55
668 2484 2.477176 CCGGCTCAGTCTCTCGGAG 61.477 68.421 0.00 0.00 42.94 4.63
669 2485 2.477176 CGGCTCAGTCTCTCGGAGG 61.477 68.421 4.96 0.00 38.48 4.30
670 2486 1.379309 GGCTCAGTCTCTCGGAGGT 60.379 63.158 4.96 0.00 38.48 3.85
671 2487 1.662438 GGCTCAGTCTCTCGGAGGTG 61.662 65.000 4.96 0.00 38.48 4.00
672 2488 1.806568 CTCAGTCTCTCGGAGGTGC 59.193 63.158 4.96 0.00 35.32 5.01
673 2489 0.679640 CTCAGTCTCTCGGAGGTGCT 60.680 60.000 4.96 0.00 35.32 4.40
674 2490 0.678366 TCAGTCTCTCGGAGGTGCTC 60.678 60.000 4.96 0.00 0.00 4.26
675 2491 0.962855 CAGTCTCTCGGAGGTGCTCA 60.963 60.000 4.96 0.00 31.08 4.26
676 2492 0.033601 AGTCTCTCGGAGGTGCTCAT 60.034 55.000 4.96 0.00 31.08 2.90
677 2493 1.213182 AGTCTCTCGGAGGTGCTCATA 59.787 52.381 4.96 0.00 31.08 2.15
678 2494 1.606668 GTCTCTCGGAGGTGCTCATAG 59.393 57.143 4.96 0.00 31.08 2.23
679 2495 0.958091 CTCTCGGAGGTGCTCATAGG 59.042 60.000 4.96 0.00 31.08 2.57
680 2496 0.468214 TCTCGGAGGTGCTCATAGGG 60.468 60.000 4.96 0.00 31.08 3.53
681 2497 1.457643 TCGGAGGTGCTCATAGGGG 60.458 63.158 0.00 0.00 31.08 4.79
682 2498 1.762460 CGGAGGTGCTCATAGGGGT 60.762 63.158 0.00 0.00 31.08 4.95
683 2499 0.469331 CGGAGGTGCTCATAGGGGTA 60.469 60.000 0.00 0.00 31.08 3.69
684 2500 1.343069 GGAGGTGCTCATAGGGGTAG 58.657 60.000 0.00 0.00 31.08 3.18
685 2501 1.343069 GAGGTGCTCATAGGGGTAGG 58.657 60.000 0.00 0.00 0.00 3.18
686 2502 0.104934 AGGTGCTCATAGGGGTAGGG 60.105 60.000 0.00 0.00 0.00 3.53
687 2503 0.400093 GGTGCTCATAGGGGTAGGGT 60.400 60.000 0.00 0.00 0.00 4.34
688 2504 0.759346 GTGCTCATAGGGGTAGGGTG 59.241 60.000 0.00 0.00 0.00 4.61
689 2505 0.341961 TGCTCATAGGGGTAGGGTGT 59.658 55.000 0.00 0.00 0.00 4.16
690 2506 0.759346 GCTCATAGGGGTAGGGTGTG 59.241 60.000 0.00 0.00 0.00 3.82
691 2507 0.759346 CTCATAGGGGTAGGGTGTGC 59.241 60.000 0.00 0.00 0.00 4.57
692 2508 1.046472 TCATAGGGGTAGGGTGTGCG 61.046 60.000 0.00 0.00 0.00 5.34
693 2509 1.002533 ATAGGGGTAGGGTGTGCGT 59.997 57.895 0.00 0.00 0.00 5.24
694 2510 1.335132 ATAGGGGTAGGGTGTGCGTG 61.335 60.000 0.00 0.00 0.00 5.34
695 2511 2.735151 TAGGGGTAGGGTGTGCGTGT 62.735 60.000 0.00 0.00 0.00 4.49
696 2512 2.358247 GGGTAGGGTGTGCGTGTG 60.358 66.667 0.00 0.00 0.00 3.82
697 2513 2.424302 GGTAGGGTGTGCGTGTGT 59.576 61.111 0.00 0.00 0.00 3.72
698 2514 1.959226 GGTAGGGTGTGCGTGTGTG 60.959 63.158 0.00 0.00 0.00 3.82
699 2515 2.280524 TAGGGTGTGCGTGTGTGC 60.281 61.111 0.00 0.00 0.00 4.57
702 2518 3.871574 GGTGTGCGTGTGTGCGTT 61.872 61.111 0.00 0.00 37.81 4.84
703 2519 2.350760 GTGTGCGTGTGTGCGTTC 60.351 61.111 0.00 0.00 37.81 3.95
704 2520 2.815647 TGTGCGTGTGTGCGTTCA 60.816 55.556 0.00 0.00 37.81 3.18
705 2521 2.176926 TGTGCGTGTGTGCGTTCAT 61.177 52.632 0.00 0.00 37.81 2.57
706 2522 0.876342 TGTGCGTGTGTGCGTTCATA 60.876 50.000 0.00 0.00 37.81 2.15
707 2523 0.179250 GTGCGTGTGTGCGTTCATAG 60.179 55.000 0.00 0.00 37.81 2.23
708 2524 1.288419 TGCGTGTGTGCGTTCATAGG 61.288 55.000 0.00 0.00 37.81 2.57
709 2525 1.966493 GCGTGTGTGCGTTCATAGGG 61.966 60.000 0.00 0.00 0.00 3.53
710 2526 1.358725 CGTGTGTGCGTTCATAGGGG 61.359 60.000 0.00 0.00 0.00 4.79
711 2527 0.321298 GTGTGTGCGTTCATAGGGGT 60.321 55.000 0.00 0.00 0.00 4.95
712 2528 0.321210 TGTGTGCGTTCATAGGGGTG 60.321 55.000 0.00 0.00 0.00 4.61
713 2529 0.036765 GTGTGCGTTCATAGGGGTGA 60.037 55.000 0.00 0.00 0.00 4.02
714 2530 0.249120 TGTGCGTTCATAGGGGTGAG 59.751 55.000 0.00 0.00 0.00 3.51
715 2531 0.249398 GTGCGTTCATAGGGGTGAGT 59.751 55.000 0.00 0.00 0.00 3.41
716 2532 0.249120 TGCGTTCATAGGGGTGAGTG 59.751 55.000 0.00 0.00 0.00 3.51
717 2533 0.249398 GCGTTCATAGGGGTGAGTGT 59.751 55.000 0.00 0.00 0.00 3.55
718 2534 1.479323 GCGTTCATAGGGGTGAGTGTA 59.521 52.381 0.00 0.00 0.00 2.90
719 2535 2.102588 GCGTTCATAGGGGTGAGTGTAT 59.897 50.000 0.00 0.00 0.00 2.29
720 2536 3.717707 CGTTCATAGGGGTGAGTGTATG 58.282 50.000 0.00 0.00 0.00 2.39
721 2537 3.467803 GTTCATAGGGGTGAGTGTATGC 58.532 50.000 0.00 0.00 0.00 3.14
722 2538 1.686587 TCATAGGGGTGAGTGTATGCG 59.313 52.381 0.00 0.00 0.00 4.73
723 2539 0.393077 ATAGGGGTGAGTGTATGCGC 59.607 55.000 0.00 0.00 0.00 6.09
724 2540 2.011741 TAGGGGTGAGTGTATGCGCG 62.012 60.000 0.00 0.00 0.00 6.86
725 2541 2.125673 GGGTGAGTGTATGCGCGT 60.126 61.111 8.43 7.55 0.00 6.01
726 2542 2.452813 GGGTGAGTGTATGCGCGTG 61.453 63.158 13.61 0.00 0.00 5.34
727 2543 1.736645 GGTGAGTGTATGCGCGTGT 60.737 57.895 13.61 0.00 0.00 4.49
728 2544 0.457166 GGTGAGTGTATGCGCGTGTA 60.457 55.000 13.61 0.00 0.00 2.90
729 2545 1.556564 GTGAGTGTATGCGCGTGTAT 58.443 50.000 13.61 4.63 0.00 2.29
730 2546 2.542205 GGTGAGTGTATGCGCGTGTATA 60.542 50.000 13.61 2.40 0.00 1.47
731 2547 3.305964 GTGAGTGTATGCGCGTGTATAT 58.694 45.455 13.61 0.00 0.00 0.86
732 2548 3.119628 GTGAGTGTATGCGCGTGTATATG 59.880 47.826 13.61 0.00 0.00 1.78
733 2549 3.003897 TGAGTGTATGCGCGTGTATATGA 59.996 43.478 13.61 0.00 0.00 2.15
734 2550 3.565516 AGTGTATGCGCGTGTATATGAG 58.434 45.455 13.61 0.00 0.00 2.90
735 2551 3.004419 AGTGTATGCGCGTGTATATGAGT 59.996 43.478 13.61 1.18 0.00 3.41
736 2552 3.119628 GTGTATGCGCGTGTATATGAGTG 59.880 47.826 13.61 0.00 0.00 3.51
737 2553 1.139989 ATGCGCGTGTATATGAGTGC 58.860 50.000 8.43 3.80 40.17 4.40
738 2554 0.102300 TGCGCGTGTATATGAGTGCT 59.898 50.000 8.43 0.00 40.38 4.40
739 2555 1.209128 GCGCGTGTATATGAGTGCTT 58.791 50.000 8.43 0.00 37.18 3.91
740 2556 1.071239 GCGCGTGTATATGAGTGCTTG 60.071 52.381 8.43 0.00 37.18 4.01
741 2557 2.193447 CGCGTGTATATGAGTGCTTGT 58.807 47.619 0.00 0.00 0.00 3.16
742 2558 2.034591 CGCGTGTATATGAGTGCTTGTG 60.035 50.000 0.00 0.00 0.00 3.33
743 2559 2.930040 GCGTGTATATGAGTGCTTGTGT 59.070 45.455 0.00 0.00 0.00 3.72
744 2560 3.000322 GCGTGTATATGAGTGCTTGTGTC 60.000 47.826 0.00 0.00 0.00 3.67
745 2561 4.424626 CGTGTATATGAGTGCTTGTGTCT 58.575 43.478 0.00 0.00 0.00 3.41
746 2562 4.266265 CGTGTATATGAGTGCTTGTGTCTG 59.734 45.833 0.00 0.00 0.00 3.51
747 2563 5.171476 GTGTATATGAGTGCTTGTGTCTGT 58.829 41.667 0.00 0.00 0.00 3.41
748 2564 6.330278 GTGTATATGAGTGCTTGTGTCTGTA 58.670 40.000 0.00 0.00 0.00 2.74
749 2565 6.253727 GTGTATATGAGTGCTTGTGTCTGTAC 59.746 42.308 0.00 0.00 0.00 2.90
750 2566 2.134201 TGAGTGCTTGTGTCTGTACG 57.866 50.000 0.00 0.00 0.00 3.67
751 2567 1.269569 TGAGTGCTTGTGTCTGTACGG 60.270 52.381 0.00 0.00 0.00 4.02
752 2568 1.000607 GAGTGCTTGTGTCTGTACGGA 60.001 52.381 0.00 0.00 0.00 4.69
753 2569 1.618837 AGTGCTTGTGTCTGTACGGAT 59.381 47.619 7.85 0.00 0.00 4.18
754 2570 1.726791 GTGCTTGTGTCTGTACGGATG 59.273 52.381 7.85 0.00 0.00 3.51
755 2571 0.721718 GCTTGTGTCTGTACGGATGC 59.278 55.000 7.85 4.71 0.00 3.91
756 2572 1.673033 GCTTGTGTCTGTACGGATGCT 60.673 52.381 7.85 0.00 0.00 3.79
757 2573 2.416836 GCTTGTGTCTGTACGGATGCTA 60.417 50.000 7.85 0.67 0.00 3.49
758 2574 3.845178 CTTGTGTCTGTACGGATGCTAA 58.155 45.455 7.85 1.21 0.00 3.09
759 2575 3.945981 TGTGTCTGTACGGATGCTAAA 57.054 42.857 7.85 0.00 0.00 1.85
760 2576 4.260139 TGTGTCTGTACGGATGCTAAAA 57.740 40.909 7.85 0.00 0.00 1.52
761 2577 4.633175 TGTGTCTGTACGGATGCTAAAAA 58.367 39.130 7.85 0.00 0.00 1.94
940 2772 1.453379 CGCGTTCTCCTCCTCCCTA 60.453 63.158 0.00 0.00 0.00 3.53
1134 2973 1.918253 CTATCCCCTGCAAGCCTGT 59.082 57.895 0.00 0.00 0.00 4.00
1363 3207 8.818860 GGGTTGATTAAATAAAAAGTTAGGGGT 58.181 33.333 0.00 0.00 0.00 4.95
1583 3739 8.650143 ATCCAACATTCAAGTAATTTAGGTGT 57.350 30.769 0.00 0.00 0.00 4.16
1616 3788 4.467082 TGCATAGTACTCCCTCCGTAAAAA 59.533 41.667 0.00 0.00 0.00 1.94
1829 4042 5.921962 AAATCATGGCCCTTAAGTTTCTC 57.078 39.130 0.00 0.00 0.00 2.87
1998 4214 8.782144 GTTCTTGGCCATCAAATTATTTTTCAA 58.218 29.630 6.09 0.00 34.56 2.69
2199 5238 2.358737 GTTCACACCTCCGGCCAG 60.359 66.667 2.24 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
178 1941 2.357952 GGTCTTAATTGGCCGGCTTTAG 59.642 50.000 28.56 15.95 0.00 1.85
287 2054 1.668751 TGCGAGAGTTGCGTTCTTTTT 59.331 42.857 0.00 0.00 34.24 1.94
462 2278 0.693049 CTCAACCACAGGCTAGGGTT 59.307 55.000 14.34 14.34 45.42 4.11
463 2279 0.473886 ACTCAACCACAGGCTAGGGT 60.474 55.000 9.65 6.76 36.19 4.34
464 2280 0.693049 AACTCAACCACAGGCTAGGG 59.307 55.000 9.65 6.14 0.00 3.53
465 2281 1.611673 CCAACTCAACCACAGGCTAGG 60.612 57.143 3.79 3.79 0.00 3.02
466 2282 1.072331 ACCAACTCAACCACAGGCTAG 59.928 52.381 0.00 0.00 0.00 3.42
467 2283 1.136828 ACCAACTCAACCACAGGCTA 58.863 50.000 0.00 0.00 0.00 3.93
468 2284 0.258774 AACCAACTCAACCACAGGCT 59.741 50.000 0.00 0.00 0.00 4.58
469 2285 1.880027 CTAACCAACTCAACCACAGGC 59.120 52.381 0.00 0.00 0.00 4.85
470 2286 2.158667 ACCTAACCAACTCAACCACAGG 60.159 50.000 0.00 0.00 0.00 4.00
471 2287 2.878406 CACCTAACCAACTCAACCACAG 59.122 50.000 0.00 0.00 0.00 3.66
472 2288 2.422235 CCACCTAACCAACTCAACCACA 60.422 50.000 0.00 0.00 0.00 4.17
473 2289 2.158726 TCCACCTAACCAACTCAACCAC 60.159 50.000 0.00 0.00 0.00 4.16
474 2290 2.128535 TCCACCTAACCAACTCAACCA 58.871 47.619 0.00 0.00 0.00 3.67
475 2291 2.158726 TGTCCACCTAACCAACTCAACC 60.159 50.000 0.00 0.00 0.00 3.77
476 2292 3.139077 CTGTCCACCTAACCAACTCAAC 58.861 50.000 0.00 0.00 0.00 3.18
477 2293 2.775384 ACTGTCCACCTAACCAACTCAA 59.225 45.455 0.00 0.00 0.00 3.02
478 2294 2.104111 CACTGTCCACCTAACCAACTCA 59.896 50.000 0.00 0.00 0.00 3.41
479 2295 2.550208 CCACTGTCCACCTAACCAACTC 60.550 54.545 0.00 0.00 0.00 3.01
480 2296 1.420138 CCACTGTCCACCTAACCAACT 59.580 52.381 0.00 0.00 0.00 3.16
481 2297 1.142262 ACCACTGTCCACCTAACCAAC 59.858 52.381 0.00 0.00 0.00 3.77
482 2298 1.513858 ACCACTGTCCACCTAACCAA 58.486 50.000 0.00 0.00 0.00 3.67
483 2299 2.402182 TACCACTGTCCACCTAACCA 57.598 50.000 0.00 0.00 0.00 3.67
484 2300 2.169978 GGATACCACTGTCCACCTAACC 59.830 54.545 0.00 0.00 34.57 2.85
485 2301 3.538634 GGATACCACTGTCCACCTAAC 57.461 52.381 0.00 0.00 34.57 2.34
500 2316 1.613061 CCTGGTGGGTTGGGGATAC 59.387 63.158 0.00 0.00 0.00 2.24
501 2317 4.179896 CCTGGTGGGTTGGGGATA 57.820 61.111 0.00 0.00 0.00 2.59
511 2327 2.308866 ACTAGGATTTGAACCCTGGTGG 59.691 50.000 0.00 0.00 41.78 4.61
512 2328 3.721087 ACTAGGATTTGAACCCTGGTG 57.279 47.619 0.00 0.00 41.78 4.17
513 2329 2.290960 GCACTAGGATTTGAACCCTGGT 60.291 50.000 0.00 0.00 43.75 4.00
514 2330 2.025887 AGCACTAGGATTTGAACCCTGG 60.026 50.000 0.00 0.00 37.12 4.45
515 2331 3.274288 GAGCACTAGGATTTGAACCCTG 58.726 50.000 0.00 0.00 34.11 4.45
516 2332 2.093447 CGAGCACTAGGATTTGAACCCT 60.093 50.000 0.00 0.00 36.60 4.34
517 2333 2.280628 CGAGCACTAGGATTTGAACCC 58.719 52.381 0.00 0.00 0.00 4.11
518 2334 1.666189 GCGAGCACTAGGATTTGAACC 59.334 52.381 0.00 0.00 0.00 3.62
519 2335 2.346803 TGCGAGCACTAGGATTTGAAC 58.653 47.619 0.00 0.00 0.00 3.18
520 2336 2.760634 TGCGAGCACTAGGATTTGAA 57.239 45.000 0.00 0.00 0.00 2.69
521 2337 2.988010 ATGCGAGCACTAGGATTTGA 57.012 45.000 0.00 0.00 0.00 2.69
522 2338 5.334414 GGAATAATGCGAGCACTAGGATTTG 60.334 44.000 0.00 0.00 30.17 2.32
523 2339 4.757149 GGAATAATGCGAGCACTAGGATTT 59.243 41.667 0.00 0.00 30.17 2.17
524 2340 4.040952 AGGAATAATGCGAGCACTAGGATT 59.959 41.667 0.00 3.32 32.01 3.01
525 2341 3.580458 AGGAATAATGCGAGCACTAGGAT 59.420 43.478 0.00 0.00 0.00 3.24
526 2342 2.965831 AGGAATAATGCGAGCACTAGGA 59.034 45.455 0.00 0.00 0.00 2.94
527 2343 3.062763 CAGGAATAATGCGAGCACTAGG 58.937 50.000 0.00 0.00 0.00 3.02
528 2344 3.062763 CCAGGAATAATGCGAGCACTAG 58.937 50.000 0.00 0.00 0.00 2.57
529 2345 2.698274 TCCAGGAATAATGCGAGCACTA 59.302 45.455 0.00 0.00 0.00 2.74
530 2346 1.486310 TCCAGGAATAATGCGAGCACT 59.514 47.619 0.00 0.00 0.00 4.40
531 2347 1.953559 TCCAGGAATAATGCGAGCAC 58.046 50.000 0.00 0.00 0.00 4.40
532 2348 2.936919 ATCCAGGAATAATGCGAGCA 57.063 45.000 0.00 0.00 0.00 4.26
533 2349 5.886960 ATAAATCCAGGAATAATGCGAGC 57.113 39.130 0.00 0.00 0.00 5.03
534 2350 7.874940 TGAAATAAATCCAGGAATAATGCGAG 58.125 34.615 0.00 0.00 0.00 5.03
535 2351 7.815840 TGAAATAAATCCAGGAATAATGCGA 57.184 32.000 0.00 0.00 0.00 5.10
545 2361 5.010012 CCGGAAATCCTGAAATAAATCCAGG 59.990 44.000 0.00 0.00 46.64 4.45
546 2362 5.507985 GCCGGAAATCCTGAAATAAATCCAG 60.508 44.000 5.05 0.00 0.00 3.86
547 2363 4.340950 GCCGGAAATCCTGAAATAAATCCA 59.659 41.667 5.05 0.00 0.00 3.41
548 2364 4.556699 CGCCGGAAATCCTGAAATAAATCC 60.557 45.833 5.05 0.00 0.00 3.01
549 2365 4.274950 TCGCCGGAAATCCTGAAATAAATC 59.725 41.667 5.05 0.00 0.00 2.17
550 2366 4.204012 TCGCCGGAAATCCTGAAATAAAT 58.796 39.130 5.05 0.00 0.00 1.40
551 2367 3.611970 TCGCCGGAAATCCTGAAATAAA 58.388 40.909 5.05 0.00 0.00 1.40
552 2368 3.269538 TCGCCGGAAATCCTGAAATAA 57.730 42.857 5.05 0.00 0.00 1.40
553 2369 2.992124 TCGCCGGAAATCCTGAAATA 57.008 45.000 5.05 0.00 0.00 1.40
554 2370 1.949525 CATCGCCGGAAATCCTGAAAT 59.050 47.619 5.05 0.00 0.00 2.17
555 2371 1.378531 CATCGCCGGAAATCCTGAAA 58.621 50.000 5.05 0.00 0.00 2.69
556 2372 1.095228 GCATCGCCGGAAATCCTGAA 61.095 55.000 5.05 0.00 0.00 3.02
557 2373 1.523711 GCATCGCCGGAAATCCTGA 60.524 57.895 5.05 0.00 0.00 3.86
558 2374 2.885676 CGCATCGCCGGAAATCCTG 61.886 63.158 5.05 0.00 0.00 3.86
559 2375 2.588877 CGCATCGCCGGAAATCCT 60.589 61.111 5.05 0.00 0.00 3.24
570 2386 1.699656 CTCCCACTGAAAGCGCATCG 61.700 60.000 11.47 6.82 37.60 3.84
571 2387 1.372087 CCTCCCACTGAAAGCGCATC 61.372 60.000 11.47 8.39 37.60 3.91
572 2388 1.377725 CCTCCCACTGAAAGCGCAT 60.378 57.895 11.47 0.00 37.60 4.73
573 2389 2.032528 CCTCCCACTGAAAGCGCA 59.967 61.111 11.47 0.00 37.60 6.09
574 2390 1.743252 CTCCTCCCACTGAAAGCGC 60.743 63.158 0.00 0.00 37.60 5.92
575 2391 0.390472 GTCTCCTCCCACTGAAAGCG 60.390 60.000 0.00 0.00 37.60 4.68
576 2392 0.390472 CGTCTCCTCCCACTGAAAGC 60.390 60.000 0.00 0.00 37.60 3.51
577 2393 0.969894 ACGTCTCCTCCCACTGAAAG 59.030 55.000 0.00 0.00 42.29 2.62
578 2394 1.343465 GAACGTCTCCTCCCACTGAAA 59.657 52.381 0.00 0.00 0.00 2.69
579 2395 0.966920 GAACGTCTCCTCCCACTGAA 59.033 55.000 0.00 0.00 0.00 3.02
580 2396 0.898789 GGAACGTCTCCTCCCACTGA 60.899 60.000 8.87 0.00 41.61 3.41
581 2397 1.592223 GGAACGTCTCCTCCCACTG 59.408 63.158 8.87 0.00 41.61 3.66
582 2398 4.115270 GGAACGTCTCCTCCCACT 57.885 61.111 8.87 0.00 41.61 4.00
603 2419 4.883300 GTAGGCGCCTCGTCGTCG 62.883 72.222 36.73 0.00 39.34 5.12
604 2420 4.883300 CGTAGGCGCCTCGTCGTC 62.883 72.222 36.73 15.88 36.23 4.20
617 2433 4.978186 TGAGATTTACGAAGTCACCGTAG 58.022 43.478 0.00 0.00 43.93 3.51
618 2434 5.181811 TCTTGAGATTTACGAAGTCACCGTA 59.818 40.000 0.00 0.00 43.93 4.02
619 2435 3.928727 TGAGATTTACGAAGTCACCGT 57.071 42.857 0.00 0.00 43.93 4.83
620 2436 4.482386 TCTTGAGATTTACGAAGTCACCG 58.518 43.478 0.00 0.00 43.93 4.94
621 2437 6.100004 TCATCTTGAGATTTACGAAGTCACC 58.900 40.000 0.00 0.00 35.39 4.02
622 2438 7.763172 ATCATCTTGAGATTTACGAAGTCAC 57.237 36.000 0.00 0.00 35.39 3.67
623 2439 9.468532 CATATCATCTTGAGATTTACGAAGTCA 57.531 33.333 0.00 0.00 35.39 3.41
624 2440 8.431593 GCATATCATCTTGAGATTTACGAAGTC 58.568 37.037 0.00 0.00 35.39 3.01
625 2441 7.386299 GGCATATCATCTTGAGATTTACGAAGT 59.614 37.037 0.00 0.00 37.29 3.01
626 2442 7.411264 CGGCATATCATCTTGAGATTTACGAAG 60.411 40.741 0.00 0.00 31.21 3.79
627 2443 6.366061 CGGCATATCATCTTGAGATTTACGAA 59.634 38.462 0.00 0.00 31.21 3.85
628 2444 5.863935 CGGCATATCATCTTGAGATTTACGA 59.136 40.000 0.00 0.00 31.21 3.43
629 2445 5.062683 CCGGCATATCATCTTGAGATTTACG 59.937 44.000 0.00 0.00 31.21 3.18
630 2446 5.163814 GCCGGCATATCATCTTGAGATTTAC 60.164 44.000 24.80 0.00 31.21 2.01
631 2447 4.937620 GCCGGCATATCATCTTGAGATTTA 59.062 41.667 24.80 0.00 31.21 1.40
632 2448 3.755378 GCCGGCATATCATCTTGAGATTT 59.245 43.478 24.80 0.00 31.21 2.17
633 2449 3.008813 AGCCGGCATATCATCTTGAGATT 59.991 43.478 31.54 0.00 31.21 2.40
634 2450 2.570752 AGCCGGCATATCATCTTGAGAT 59.429 45.455 31.54 0.00 34.56 2.75
635 2451 1.973515 AGCCGGCATATCATCTTGAGA 59.026 47.619 31.54 0.00 0.00 3.27
636 2452 2.289257 TGAGCCGGCATATCATCTTGAG 60.289 50.000 31.54 0.00 0.00 3.02
637 2453 1.693606 TGAGCCGGCATATCATCTTGA 59.306 47.619 31.54 0.00 0.00 3.02
638 2454 2.074576 CTGAGCCGGCATATCATCTTG 58.925 52.381 31.54 7.95 0.00 3.02
639 2455 1.696336 ACTGAGCCGGCATATCATCTT 59.304 47.619 31.54 3.33 0.00 2.40
640 2456 1.274728 GACTGAGCCGGCATATCATCT 59.725 52.381 31.54 11.40 0.00 2.90
641 2457 1.274728 AGACTGAGCCGGCATATCATC 59.725 52.381 31.54 19.98 0.00 2.92
642 2458 1.274728 GAGACTGAGCCGGCATATCAT 59.725 52.381 31.54 13.17 0.00 2.45
643 2459 0.676184 GAGACTGAGCCGGCATATCA 59.324 55.000 31.54 22.44 0.00 2.15
644 2460 0.965439 AGAGACTGAGCCGGCATATC 59.035 55.000 31.54 18.63 0.00 1.63
645 2461 0.965439 GAGAGACTGAGCCGGCATAT 59.035 55.000 31.54 8.11 0.00 1.78
646 2462 1.448119 CGAGAGACTGAGCCGGCATA 61.448 60.000 31.54 16.21 0.00 3.14
647 2463 2.780094 CGAGAGACTGAGCCGGCAT 61.780 63.158 31.54 14.28 0.00 4.40
648 2464 3.443925 CGAGAGACTGAGCCGGCA 61.444 66.667 31.54 7.98 0.00 5.69
649 2465 4.200283 CCGAGAGACTGAGCCGGC 62.200 72.222 21.89 21.89 33.47 6.13
650 2466 2.438614 TCCGAGAGACTGAGCCGG 60.439 66.667 0.00 0.00 41.36 6.13
651 2467 2.477176 CCTCCGAGAGACTGAGCCG 61.477 68.421 0.00 0.00 0.00 5.52
652 2468 1.379309 ACCTCCGAGAGACTGAGCC 60.379 63.158 0.00 0.00 0.00 4.70
653 2469 1.806568 CACCTCCGAGAGACTGAGC 59.193 63.158 0.00 0.00 0.00 4.26
654 2470 0.679640 AGCACCTCCGAGAGACTGAG 60.680 60.000 0.00 0.00 0.00 3.35
655 2471 0.678366 GAGCACCTCCGAGAGACTGA 60.678 60.000 0.00 0.00 0.00 3.41
656 2472 0.962855 TGAGCACCTCCGAGAGACTG 60.963 60.000 0.00 0.22 0.00 3.51
657 2473 0.033601 ATGAGCACCTCCGAGAGACT 60.034 55.000 0.00 0.00 0.00 3.24
658 2474 1.606668 CTATGAGCACCTCCGAGAGAC 59.393 57.143 0.00 0.00 0.00 3.36
659 2475 1.477740 CCTATGAGCACCTCCGAGAGA 60.478 57.143 0.00 0.00 0.00 3.10
660 2476 0.958091 CCTATGAGCACCTCCGAGAG 59.042 60.000 0.00 0.00 0.00 3.20
661 2477 0.468214 CCCTATGAGCACCTCCGAGA 60.468 60.000 0.00 0.00 0.00 4.04
662 2478 1.467678 CCCCTATGAGCACCTCCGAG 61.468 65.000 0.00 0.00 0.00 4.63
663 2479 1.457643 CCCCTATGAGCACCTCCGA 60.458 63.158 0.00 0.00 0.00 4.55
664 2480 0.469331 TACCCCTATGAGCACCTCCG 60.469 60.000 0.00 0.00 0.00 4.63
665 2481 1.343069 CTACCCCTATGAGCACCTCC 58.657 60.000 0.00 0.00 0.00 4.30
666 2482 1.343069 CCTACCCCTATGAGCACCTC 58.657 60.000 0.00 0.00 0.00 3.85
667 2483 0.104934 CCCTACCCCTATGAGCACCT 60.105 60.000 0.00 0.00 0.00 4.00
668 2484 0.400093 ACCCTACCCCTATGAGCACC 60.400 60.000 0.00 0.00 0.00 5.01
669 2485 0.759346 CACCCTACCCCTATGAGCAC 59.241 60.000 0.00 0.00 0.00 4.40
670 2486 0.341961 ACACCCTACCCCTATGAGCA 59.658 55.000 0.00 0.00 0.00 4.26
671 2487 0.759346 CACACCCTACCCCTATGAGC 59.241 60.000 0.00 0.00 0.00 4.26
672 2488 0.759346 GCACACCCTACCCCTATGAG 59.241 60.000 0.00 0.00 0.00 2.90
673 2489 1.046472 CGCACACCCTACCCCTATGA 61.046 60.000 0.00 0.00 0.00 2.15
674 2490 1.335132 ACGCACACCCTACCCCTATG 61.335 60.000 0.00 0.00 0.00 2.23
675 2491 1.002533 ACGCACACCCTACCCCTAT 59.997 57.895 0.00 0.00 0.00 2.57
676 2492 1.985662 CACGCACACCCTACCCCTA 60.986 63.158 0.00 0.00 0.00 3.53
677 2493 3.319198 CACGCACACCCTACCCCT 61.319 66.667 0.00 0.00 0.00 4.79
678 2494 3.633116 ACACGCACACCCTACCCC 61.633 66.667 0.00 0.00 0.00 4.95
679 2495 2.358247 CACACGCACACCCTACCC 60.358 66.667 0.00 0.00 0.00 3.69
680 2496 1.959226 CACACACGCACACCCTACC 60.959 63.158 0.00 0.00 0.00 3.18
681 2497 2.604174 GCACACACGCACACCCTAC 61.604 63.158 0.00 0.00 0.00 3.18
682 2498 2.280524 GCACACACGCACACCCTA 60.281 61.111 0.00 0.00 0.00 3.53
685 2501 3.783588 GAACGCACACACGCACACC 62.784 63.158 0.00 0.00 36.19 4.16
686 2502 2.350760 GAACGCACACACGCACAC 60.351 61.111 0.00 0.00 36.19 3.82
687 2503 0.876342 TATGAACGCACACACGCACA 60.876 50.000 0.00 0.00 36.19 4.57
688 2504 0.179250 CTATGAACGCACACACGCAC 60.179 55.000 0.00 0.00 36.19 5.34
689 2505 1.288419 CCTATGAACGCACACACGCA 61.288 55.000 0.00 0.00 36.19 5.24
690 2506 1.419922 CCTATGAACGCACACACGC 59.580 57.895 0.00 0.00 36.19 5.34
691 2507 1.358725 CCCCTATGAACGCACACACG 61.359 60.000 0.00 0.00 39.50 4.49
692 2508 0.321298 ACCCCTATGAACGCACACAC 60.321 55.000 0.00 0.00 0.00 3.82
693 2509 0.321210 CACCCCTATGAACGCACACA 60.321 55.000 0.00 0.00 0.00 3.72
694 2510 0.036765 TCACCCCTATGAACGCACAC 60.037 55.000 0.00 0.00 0.00 3.82
695 2511 0.249120 CTCACCCCTATGAACGCACA 59.751 55.000 0.00 0.00 0.00 4.57
696 2512 0.249398 ACTCACCCCTATGAACGCAC 59.751 55.000 0.00 0.00 0.00 5.34
697 2513 0.249120 CACTCACCCCTATGAACGCA 59.751 55.000 0.00 0.00 0.00 5.24
698 2514 0.249398 ACACTCACCCCTATGAACGC 59.751 55.000 0.00 0.00 0.00 4.84
699 2515 3.717707 CATACACTCACCCCTATGAACG 58.282 50.000 0.00 0.00 0.00 3.95
700 2516 3.467803 GCATACACTCACCCCTATGAAC 58.532 50.000 0.00 0.00 0.00 3.18
701 2517 2.102420 CGCATACACTCACCCCTATGAA 59.898 50.000 0.00 0.00 0.00 2.57
702 2518 1.686587 CGCATACACTCACCCCTATGA 59.313 52.381 0.00 0.00 0.00 2.15
703 2519 1.873903 GCGCATACACTCACCCCTATG 60.874 57.143 0.30 0.00 0.00 2.23
704 2520 0.393077 GCGCATACACTCACCCCTAT 59.607 55.000 0.30 0.00 0.00 2.57
705 2521 1.820581 GCGCATACACTCACCCCTA 59.179 57.895 0.30 0.00 0.00 3.53
706 2522 2.584608 GCGCATACACTCACCCCT 59.415 61.111 0.30 0.00 0.00 4.79
707 2523 2.890474 CGCGCATACACTCACCCC 60.890 66.667 8.75 0.00 0.00 4.95
708 2524 2.125673 ACGCGCATACACTCACCC 60.126 61.111 5.73 0.00 0.00 4.61
709 2525 0.457166 TACACGCGCATACACTCACC 60.457 55.000 5.73 0.00 0.00 4.02
710 2526 1.556564 ATACACGCGCATACACTCAC 58.443 50.000 5.73 0.00 0.00 3.51
711 2527 3.003897 TCATATACACGCGCATACACTCA 59.996 43.478 5.73 0.00 0.00 3.41
712 2528 3.561503 TCATATACACGCGCATACACTC 58.438 45.455 5.73 0.00 0.00 3.51
713 2529 3.004419 ACTCATATACACGCGCATACACT 59.996 43.478 5.73 0.00 0.00 3.55
714 2530 3.119628 CACTCATATACACGCGCATACAC 59.880 47.826 5.73 0.00 0.00 2.90
715 2531 3.305110 CACTCATATACACGCGCATACA 58.695 45.455 5.73 0.00 0.00 2.29
716 2532 2.090658 GCACTCATATACACGCGCATAC 59.909 50.000 5.73 0.00 0.00 2.39
717 2533 2.030274 AGCACTCATATACACGCGCATA 60.030 45.455 5.73 1.53 0.00 3.14
718 2534 1.139989 GCACTCATATACACGCGCAT 58.860 50.000 5.73 0.00 0.00 4.73
719 2535 0.102300 AGCACTCATATACACGCGCA 59.898 50.000 5.73 0.00 0.00 6.09
720 2536 1.071239 CAAGCACTCATATACACGCGC 60.071 52.381 5.73 0.00 0.00 6.86
721 2537 2.034591 CACAAGCACTCATATACACGCG 60.035 50.000 3.53 3.53 0.00 6.01
722 2538 2.930040 ACACAAGCACTCATATACACGC 59.070 45.455 0.00 0.00 0.00 5.34
723 2539 4.266265 CAGACACAAGCACTCATATACACG 59.734 45.833 0.00 0.00 0.00 4.49
724 2540 5.171476 ACAGACACAAGCACTCATATACAC 58.829 41.667 0.00 0.00 0.00 2.90
725 2541 5.405935 ACAGACACAAGCACTCATATACA 57.594 39.130 0.00 0.00 0.00 2.29
726 2542 5.455849 CGTACAGACACAAGCACTCATATAC 59.544 44.000 0.00 0.00 0.00 1.47
727 2543 5.449999 CCGTACAGACACAAGCACTCATATA 60.450 44.000 0.00 0.00 0.00 0.86
728 2544 4.424626 CGTACAGACACAAGCACTCATAT 58.575 43.478 0.00 0.00 0.00 1.78
729 2545 3.366985 CCGTACAGACACAAGCACTCATA 60.367 47.826 0.00 0.00 0.00 2.15
730 2546 2.610479 CCGTACAGACACAAGCACTCAT 60.610 50.000 0.00 0.00 0.00 2.90
731 2547 1.269569 CCGTACAGACACAAGCACTCA 60.270 52.381 0.00 0.00 0.00 3.41
732 2548 1.000607 TCCGTACAGACACAAGCACTC 60.001 52.381 0.00 0.00 0.00 3.51
733 2549 1.037493 TCCGTACAGACACAAGCACT 58.963 50.000 0.00 0.00 0.00 4.40
734 2550 1.726791 CATCCGTACAGACACAAGCAC 59.273 52.381 0.00 0.00 0.00 4.40
735 2551 1.939381 GCATCCGTACAGACACAAGCA 60.939 52.381 0.00 0.00 0.00 3.91
736 2552 0.721718 GCATCCGTACAGACACAAGC 59.278 55.000 0.00 0.00 0.00 4.01
737 2553 2.370281 AGCATCCGTACAGACACAAG 57.630 50.000 0.00 0.00 0.00 3.16
738 2554 3.945981 TTAGCATCCGTACAGACACAA 57.054 42.857 0.00 0.00 0.00 3.33
739 2555 3.945981 TTTAGCATCCGTACAGACACA 57.054 42.857 0.00 0.00 0.00 3.72
760 2576 1.982958 TCGGGCTAGGGTTCTCTTTTT 59.017 47.619 0.00 0.00 0.00 1.94
761 2577 1.652947 TCGGGCTAGGGTTCTCTTTT 58.347 50.000 0.00 0.00 0.00 2.27
762 2578 1.880941 ATCGGGCTAGGGTTCTCTTT 58.119 50.000 0.00 0.00 0.00 2.52
763 2579 1.763545 GAATCGGGCTAGGGTTCTCTT 59.236 52.381 0.00 0.00 0.00 2.85
1363 3207 3.669290 CGTCGTGGCATTTTTGCAAGATA 60.669 43.478 0.00 0.00 36.33 1.98
1364 3208 2.676076 GTCGTGGCATTTTTGCAAGAT 58.324 42.857 0.00 0.00 36.33 2.40
1583 3739 5.189736 AGGGAGTACTATGCACAAAGATCAA 59.810 40.000 0.00 0.00 0.00 2.57
1627 3837 7.588854 CACTACTTTTAAAAACCTAAGCGTTCC 59.411 37.037 1.66 0.00 0.00 3.62
1829 4042 2.715046 TGAAGTAAGGCCAGCATCAAG 58.285 47.619 5.01 0.00 0.00 3.02
1998 4214 6.360370 AAAGATACATGTCACTGTGGTAGT 57.640 37.500 0.00 4.88 41.36 2.73
2199 5238 4.215613 GGAGTGTATTTCAGTTGACCAACC 59.784 45.833 9.07 0.00 42.06 3.77


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

AutoCloner maintained by Alex Coulton.