Multiple sequence alignment - TraesCS1A01G212400

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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 TraesCS1A01G212400 chr1A 100.000 3295 0 0 1 3295 375114629 375111335 0.000000e+00 6085.0
1 TraesCS1A01G212400 chr1A 85.143 350 41 5 1956 2296 375468969 375469316 6.770000e-92 348.0
2 TraesCS1A01G212400 chr1A 87.634 186 23 0 1500 1685 374690176 374689991 1.990000e-52 217.0
3 TraesCS1A01G212400 chr1D 92.868 2608 95 31 607 3167 300719715 300717152 0.000000e+00 3701.0
4 TraesCS1A01G212400 chr1D 90.337 445 27 3 1 439 300720419 300719985 1.330000e-158 569.0
5 TraesCS1A01G212400 chr1D 84.000 350 45 5 1956 2296 300859818 300860165 3.170000e-85 326.0
6 TraesCS1A01G212400 chr1D 86.979 192 25 0 1500 1691 300326303 300326112 1.990000e-52 217.0
7 TraesCS1A01G212400 chr1B 91.345 1941 87 34 1404 3292 405906077 405904166 0.000000e+00 2579.0
8 TraesCS1A01G212400 chr1B 93.424 806 33 6 608 1404 405906916 405906122 0.000000e+00 1177.0
9 TraesCS1A01G212400 chr1B 89.505 505 25 8 1 488 405907453 405906960 6.040000e-172 614.0
10 TraesCS1A01G212400 chr1B 85.294 340 41 4 1966 2296 406037238 406037577 3.150000e-90 342.0
11 TraesCS1A01G212400 chr1B 87.500 192 24 0 1500 1691 405525542 405525351 4.280000e-54 222.0
12 TraesCS1A01G212400 chr4B 84.164 341 42 3 1965 2293 659329680 659329340 1.480000e-83 320.0
13 TraesCS1A01G212400 chr4B 92.793 111 7 1 477 586 260123351 260123241 3.400000e-35 159.0
14 TraesCS1A01G212400 chr4B 81.111 180 29 5 2110 2287 659521548 659521724 4.430000e-29 139.0
15 TraesCS1A01G212400 chr5A 83.430 344 42 4 1965 2293 694760250 694760593 4.130000e-79 305.0
16 TraesCS1A01G212400 chr5A 82.682 179 28 3 2110 2287 693673605 693673429 4.400000e-34 156.0
17 TraesCS1A01G212400 chr5A 83.942 137 16 6 1263 1396 85165134 85165001 3.450000e-25 126.0
18 TraesCS1A01G212400 chr5A 92.857 56 4 0 1124 1179 693674746 693674691 7.580000e-12 82.4
19 TraesCS1A01G212400 chr4D 81.948 349 42 7 1966 2293 508501905 508502253 3.240000e-70 276.0
20 TraesCS1A01G212400 chr4D 96.078 102 4 0 487 588 230489641 230489540 2.030000e-37 167.0
21 TraesCS1A01G212400 chr4D 81.564 179 30 3 2110 2287 508431517 508431341 9.530000e-31 145.0
22 TraesCS1A01G212400 chrUn 87.500 176 22 0 1516 1691 76409314 76409489 1.550000e-48 204.0
23 TraesCS1A01G212400 chr6D 87.500 176 22 0 1516 1691 15551144 15550969 1.550000e-48 204.0
24 TraesCS1A01G212400 chr6D 86.364 176 24 0 1516 1691 15586362 15586187 3.360000e-45 193.0
25 TraesCS1A01G212400 chr6A 87.500 176 22 0 1516 1691 16338192 16338367 1.550000e-48 204.0
26 TraesCS1A01G212400 chr5B 94.068 118 4 3 489 604 97516599 97516715 3.380000e-40 176.0
27 TraesCS1A01G212400 chr5B 98.947 95 1 0 492 586 143296494 143296588 1.570000e-38 171.0
28 TraesCS1A01G212400 chr5B 85.124 121 15 3 1273 1391 96765395 96765276 1.610000e-23 121.0
29 TraesCS1A01G212400 chr7D 94.231 104 5 1 488 591 407716632 407716530 1.220000e-34 158.0
30 TraesCS1A01G212400 chr2D 95.000 100 5 0 487 586 107204179 107204080 1.220000e-34 158.0
31 TraesCS1A01G212400 chr4A 93.396 106 5 2 483 587 650040875 650040979 4.400000e-34 156.0
32 TraesCS1A01G212400 chr7B 91.071 112 10 0 475 586 217312248 217312359 5.690000e-33 152.0
33 TraesCS1A01G212400 chr3D 90.351 114 9 2 475 588 48070899 48071010 7.370000e-32 148.0
34 TraesCS1A01G212400 chr3D 85.455 110 12 3 1281 1388 577255575 577255468 9.670000e-21 111.0
35 TraesCS1A01G212400 chr5D 82.482 137 18 6 1263 1396 91406625 91406492 7.470000e-22 115.0
36 TraesCS1A01G212400 chr3A 85.455 110 11 4 1284 1390 712572205 712572098 3.480000e-20 110.0
37 TraesCS1A01G212400 chr3B 78.981 157 33 0 2131 2287 6118619 6118775 1.250000e-19 108.0


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 TraesCS1A01G212400 chr1A 375111335 375114629 3294 True 6085.000000 6085 100.000000 1 3295 1 chr1A.!!$R2 3294
1 TraesCS1A01G212400 chr1D 300717152 300720419 3267 True 2135.000000 3701 91.602500 1 3167 2 chr1D.!!$R2 3166
2 TraesCS1A01G212400 chr1B 405904166 405907453 3287 True 1456.666667 2579 91.424667 1 3292 3 chr1B.!!$R2 3291

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
589 788 0.113776 TGGAACGGAGGGAGTACAGT 59.886 55.0 0.0 0.0 0.0 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2401 2704 0.31812 TCGACGACCCAACCTTAACC 59.682 55.0 0.0 0.0 0.0 2.85 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
19 20 2.621000 CTAACGAATCCGCAGCGC 59.379 61.111 10.07 0.00 39.95 5.92
143 154 4.319622 CCAACGTCCACGCTTTAATTGTAA 60.320 41.667 0.00 0.00 44.43 2.41
144 155 4.394099 ACGTCCACGCTTTAATTGTAAC 57.606 40.909 0.00 0.00 44.43 2.50
151 162 4.438145 CACGCTTTAATTGTAACGCAAACA 59.562 37.500 0.00 0.00 40.91 2.83
152 163 5.116377 CACGCTTTAATTGTAACGCAAACAT 59.884 36.000 0.00 0.00 40.91 2.71
153 164 5.688176 ACGCTTTAATTGTAACGCAAACATT 59.312 32.000 0.00 0.00 40.91 2.71
154 165 6.000542 CGCTTTAATTGTAACGCAAACATTG 58.999 36.000 0.00 0.00 40.91 2.82
202 213 3.003478 GTTCCTAACGCGGCATCG 58.997 61.111 12.47 0.00 39.81 3.84
312 332 1.266160 ACAGCTCAGAGCATCAGCCT 61.266 55.000 24.64 0.00 45.56 4.58
330 350 3.483869 GAGCAGGGCAGGTAGGGG 61.484 72.222 0.00 0.00 0.00 4.79
366 386 2.506217 CCATGTCCACGACCGTCG 60.506 66.667 19.24 19.24 46.93 5.12
384 405 3.592383 CGTCGTCGAAGCAAAAATTACAC 59.408 43.478 0.00 0.00 39.71 2.90
388 409 3.592383 GTCGAAGCAAAAATTACACGACG 59.408 43.478 0.00 0.00 39.08 5.12
390 411 2.981400 AGCAAAAATTACACGACGGG 57.019 45.000 0.00 0.00 0.00 5.28
432 453 4.572389 GTCCGTGAACAGAAATATGCAGAT 59.428 41.667 0.00 0.00 0.00 2.90
449 482 2.363680 CAGATGATGTCTAAGGGCGAGT 59.636 50.000 0.00 0.00 34.69 4.18
465 498 2.281762 GCGAGTTTTGCTACATCTACGG 59.718 50.000 0.00 0.00 0.00 4.02
470 503 6.183360 CGAGTTTTGCTACATCTACGGAAAAT 60.183 38.462 0.00 0.00 32.18 1.82
497 696 9.187996 AGTCTTAAACTTATGTAGTACTCCCTC 57.812 37.037 0.00 0.00 35.54 4.30
498 697 8.412456 GTCTTAAACTTATGTAGTACTCCCTCC 58.588 40.741 0.00 0.00 35.54 4.30
499 698 5.848833 AAACTTATGTAGTACTCCCTCCG 57.151 43.478 0.00 0.00 35.54 4.63
500 699 4.516652 ACTTATGTAGTACTCCCTCCGT 57.483 45.455 0.00 0.00 34.56 4.69
501 700 4.864726 ACTTATGTAGTACTCCCTCCGTT 58.135 43.478 0.00 0.00 34.56 4.44
502 701 4.886489 ACTTATGTAGTACTCCCTCCGTTC 59.114 45.833 0.00 0.00 34.56 3.95
503 702 2.134789 TGTAGTACTCCCTCCGTTCC 57.865 55.000 0.00 0.00 0.00 3.62
504 703 1.355381 TGTAGTACTCCCTCCGTTCCA 59.645 52.381 0.00 0.00 0.00 3.53
505 704 2.225091 TGTAGTACTCCCTCCGTTCCAA 60.225 50.000 0.00 0.00 0.00 3.53
506 705 2.019807 AGTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
507 706 2.332117 AGTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
508 707 2.910977 AGTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
509 708 4.098894 AGTACTCCCTCCGTTCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
510 709 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
511 710 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
512 711 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
513 712 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
514 713 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
515 714 4.412199 TCCCTCCGTTCCAAAATAGATGAT 59.588 41.667 0.00 0.00 0.00 2.45
516 715 4.757149 CCCTCCGTTCCAAAATAGATGATC 59.243 45.833 0.00 0.00 0.00 2.92
517 716 4.757149 CCTCCGTTCCAAAATAGATGATCC 59.243 45.833 0.00 0.00 0.00 3.36
518 717 5.366482 TCCGTTCCAAAATAGATGATCCA 57.634 39.130 0.00 0.00 0.00 3.41
519 718 5.750524 TCCGTTCCAAAATAGATGATCCAA 58.249 37.500 0.00 0.00 0.00 3.53
520 719 5.588648 TCCGTTCCAAAATAGATGATCCAAC 59.411 40.000 0.00 0.00 0.00 3.77
521 720 5.590259 CCGTTCCAAAATAGATGATCCAACT 59.410 40.000 0.00 0.00 0.00 3.16
522 721 6.095440 CCGTTCCAAAATAGATGATCCAACTT 59.905 38.462 0.00 0.00 0.00 2.66
523 722 7.362920 CCGTTCCAAAATAGATGATCCAACTTT 60.363 37.037 0.00 0.00 0.00 2.66
524 723 7.485913 CGTTCCAAAATAGATGATCCAACTTTG 59.514 37.037 0.00 0.00 0.00 2.77
525 724 8.306761 GTTCCAAAATAGATGATCCAACTTTGT 58.693 33.333 0.00 0.00 0.00 2.83
526 725 9.527157 TTCCAAAATAGATGATCCAACTTTGTA 57.473 29.630 0.00 0.00 0.00 2.41
527 726 8.956426 TCCAAAATAGATGATCCAACTTTGTAC 58.044 33.333 0.00 0.00 0.00 2.90
528 727 8.960591 CCAAAATAGATGATCCAACTTTGTACT 58.039 33.333 0.00 0.00 0.00 2.73
561 760 7.578169 ACTAACGCTAGTACAAAGTTGAATC 57.422 36.000 0.00 0.00 36.56 2.52
562 761 7.149973 ACTAACGCTAGTACAAAGTTGAATCA 58.850 34.615 0.00 0.00 36.56 2.57
563 762 7.817962 ACTAACGCTAGTACAAAGTTGAATCAT 59.182 33.333 0.00 0.00 36.56 2.45
564 763 6.648725 ACGCTAGTACAAAGTTGAATCATC 57.351 37.500 0.00 0.00 0.00 2.92
565 764 6.398918 ACGCTAGTACAAAGTTGAATCATCT 58.601 36.000 0.00 0.00 0.00 2.90
566 765 7.544622 ACGCTAGTACAAAGTTGAATCATCTA 58.455 34.615 0.00 0.00 0.00 1.98
567 766 8.198109 ACGCTAGTACAAAGTTGAATCATCTAT 58.802 33.333 0.00 0.00 0.00 1.98
568 767 9.035607 CGCTAGTACAAAGTTGAATCATCTATT 57.964 33.333 0.00 0.00 0.00 1.73
575 774 9.696917 ACAAAGTTGAATCATCTATTTTGGAAC 57.303 29.630 10.86 0.00 40.04 3.62
576 775 8.853345 CAAAGTTGAATCATCTATTTTGGAACG 58.147 33.333 0.00 0.00 35.74 3.95
577 776 7.088589 AGTTGAATCATCTATTTTGGAACGG 57.911 36.000 0.00 0.00 0.00 4.44
578 777 6.884295 AGTTGAATCATCTATTTTGGAACGGA 59.116 34.615 0.00 0.00 0.00 4.69
579 778 6.925610 TGAATCATCTATTTTGGAACGGAG 57.074 37.500 0.00 0.00 0.00 4.63
580 779 5.822519 TGAATCATCTATTTTGGAACGGAGG 59.177 40.000 0.00 0.00 0.00 4.30
581 780 4.150897 TCATCTATTTTGGAACGGAGGG 57.849 45.455 0.00 0.00 0.00 4.30
582 781 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
583 782 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
584 783 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
585 784 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
586 785 2.845363 TTTTGGAACGGAGGGAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
587 786 1.719529 TTTGGAACGGAGGGAGTACA 58.280 50.000 0.00 0.00 0.00 2.90
588 787 1.263356 TTGGAACGGAGGGAGTACAG 58.737 55.000 0.00 0.00 0.00 2.74
589 788 0.113776 TGGAACGGAGGGAGTACAGT 59.886 55.000 0.00 0.00 0.00 3.55
590 789 1.355381 TGGAACGGAGGGAGTACAGTA 59.645 52.381 0.00 0.00 0.00 2.74
591 790 1.747924 GGAACGGAGGGAGTACAGTAC 59.252 57.143 2.05 2.05 0.00 2.73
592 791 2.440409 GAACGGAGGGAGTACAGTACA 58.560 52.381 13.37 0.00 0.00 2.90
611 837 0.995024 AAGCTTACATGGTCAGGCCT 59.005 50.000 0.00 0.00 38.35 5.19
613 839 2.412591 AGCTTACATGGTCAGGCCTAT 58.587 47.619 3.98 0.00 38.35 2.57
648 874 7.571025 TCAAGGGGAAGGTGATTAGTTTATAC 58.429 38.462 0.00 0.00 0.00 1.47
653 879 8.050930 GGGGAAGGTGATTAGTTTATACAAAGA 58.949 37.037 0.00 0.00 0.00 2.52
715 943 1.039856 TTTTTGCTCAAGGGCAGGTC 58.960 50.000 0.00 0.00 43.39 3.85
918 1153 4.265073 ACTCCCAGAACATCAAAGCATAC 58.735 43.478 0.00 0.00 0.00 2.39
919 1154 4.263462 ACTCCCAGAACATCAAAGCATACA 60.263 41.667 0.00 0.00 0.00 2.29
920 1155 4.858850 TCCCAGAACATCAAAGCATACAT 58.141 39.130 0.00 0.00 0.00 2.29
921 1156 6.000246 TCCCAGAACATCAAAGCATACATA 58.000 37.500 0.00 0.00 0.00 2.29
986 1223 1.630244 CCCACAAGCTCGAAGAAGCG 61.630 60.000 0.00 0.00 36.18 4.68
992 1229 2.383527 GCTCGAAGAAGCGGTGGTG 61.384 63.158 0.00 0.00 34.09 4.17
1276 1519 1.003116 GTGATCGATGTGCATTCAGGC 60.003 52.381 0.54 0.00 0.00 4.85
1330 1573 1.419387 CCCTTCTCCTCCATGACATCC 59.581 57.143 0.00 0.00 0.00 3.51
1413 1701 4.995124 ACACTAGCTCGTTCGTCATATTT 58.005 39.130 0.00 0.00 0.00 1.40
1420 1708 4.647964 CTCGTTCGTCATATTTTTGGTGG 58.352 43.478 0.00 0.00 0.00 4.61
1469 1757 0.319728 AGCTGGTGACACAGTGCTAG 59.680 55.000 14.63 0.00 36.48 3.42
1479 1767 3.722147 ACACAGTGCTAGTCTTGACTTG 58.278 45.455 8.66 8.09 0.00 3.16
1494 1782 7.755822 AGTCTTGACTTGTGATCGTTTACTATC 59.244 37.037 0.00 0.00 0.00 2.08
1510 1798 3.978687 ACTATCGCCTTTTCAGATACGG 58.021 45.455 0.00 0.00 0.00 4.02
1701 1989 0.321564 TTCAAGAGGTCGGTGGCATG 60.322 55.000 0.00 0.00 0.00 4.06
1702 1990 2.045926 AAGAGGTCGGTGGCATGC 60.046 61.111 9.90 9.90 0.00 4.06
1703 1991 2.894257 AAGAGGTCGGTGGCATGCA 61.894 57.895 21.36 2.54 0.00 3.96
1704 1992 2.124570 GAGGTCGGTGGCATGCAT 60.125 61.111 21.36 0.00 0.00 3.96
1706 1994 1.304381 AGGTCGGTGGCATGCATTT 60.304 52.632 21.36 0.00 0.00 2.32
1707 1995 1.139520 GGTCGGTGGCATGCATTTC 59.860 57.895 21.36 1.89 0.00 2.17
1708 1996 1.594194 GGTCGGTGGCATGCATTTCA 61.594 55.000 21.36 5.00 0.00 2.69
1709 1997 0.457035 GTCGGTGGCATGCATTTCAT 59.543 50.000 21.36 0.00 35.31 2.57
1710 1998 0.740149 TCGGTGGCATGCATTTCATC 59.260 50.000 21.36 7.46 31.79 2.92
1711 1999 0.456628 CGGTGGCATGCATTTCATCA 59.543 50.000 21.36 2.93 31.79 3.07
1712 2000 1.799917 CGGTGGCATGCATTTCATCAC 60.800 52.381 21.36 15.45 31.79 3.06
1757 2045 3.512680 CCTACCTGAACGATGAACAGTC 58.487 50.000 0.00 0.00 0.00 3.51
1782 2070 9.368416 TCTCATACTCTATATAACCAGTGCTTT 57.632 33.333 0.00 0.00 0.00 3.51
1783 2071 9.988815 CTCATACTCTATATAACCAGTGCTTTT 57.011 33.333 0.00 0.00 0.00 2.27
1784 2072 9.764363 TCATACTCTATATAACCAGTGCTTTTG 57.236 33.333 0.00 0.00 0.00 2.44
1808 2096 2.446282 CCCAACAAAACTTTCACGACG 58.554 47.619 0.00 0.00 0.00 5.12
1913 2201 4.842091 CGTCCCGGCTCGGTTACG 62.842 72.222 17.50 17.50 46.80 3.18
1914 2202 3.443045 GTCCCGGCTCGGTTACGA 61.443 66.667 11.85 0.00 46.80 3.43
1954 2242 1.246056 GGGTTGCTGATTGCTGCTGA 61.246 55.000 0.00 0.00 43.37 4.26
2318 2621 3.189495 GCTGCTCATCATCTGGAATCATG 59.811 47.826 0.00 0.00 0.00 3.07
2371 2674 1.750206 TCATGGATCGTTTTGCATGGG 59.250 47.619 13.72 0.00 43.36 4.00
2372 2675 1.477700 CATGGATCGTTTTGCATGGGT 59.522 47.619 0.00 0.00 40.55 4.51
2373 2676 2.498644 TGGATCGTTTTGCATGGGTA 57.501 45.000 0.00 0.00 0.00 3.69
2374 2677 2.088423 TGGATCGTTTTGCATGGGTAC 58.912 47.619 0.00 0.00 0.00 3.34
2402 2705 4.965119 CCGAGGAGGTTTTTGATTAAGG 57.035 45.455 0.00 0.00 34.51 2.69
2417 2720 4.041938 TGATTAAGGTTAAGGTTGGGTCGT 59.958 41.667 0.00 0.00 0.00 4.34
2418 2721 2.556144 AAGGTTAAGGTTGGGTCGTC 57.444 50.000 0.00 0.00 0.00 4.20
2419 2722 0.319405 AGGTTAAGGTTGGGTCGTCG 59.681 55.000 0.00 0.00 0.00 5.12
2456 2759 1.201578 GTCGTCGTGCATGTGTGTG 59.798 57.895 5.68 0.00 0.00 3.82
2458 2761 1.201578 CGTCGTGCATGTGTGTGTC 59.798 57.895 5.68 0.00 0.00 3.67
2567 2870 7.590279 ACCATAAGTTATTACTGTTTGTGTGC 58.410 34.615 0.00 0.00 34.01 4.57
2616 2919 2.020720 AGTCTCTCATCAGTACTGCCG 58.979 52.381 18.45 11.13 0.00 5.69
2627 2930 2.778187 GTACTGCCGGTACTCATCTC 57.222 55.000 1.90 0.00 45.25 2.75
2705 3026 3.030668 ACTTTCTAACCAACGTACGGG 57.969 47.619 21.06 14.43 0.00 5.28
2751 3072 2.251409 TCCGGTAGATTCGACGATCT 57.749 50.000 0.00 6.70 39.59 2.75
2756 3078 3.607310 CGGTAGATTCGACGATCTTGGAG 60.607 52.174 4.99 0.00 37.54 3.86
2789 3111 6.140110 ACGTCATAATTTTTGAAACGACCAG 58.860 36.000 7.65 0.00 0.00 4.00
2790 3112 6.017770 ACGTCATAATTTTTGAAACGACCAGA 60.018 34.615 7.65 0.00 0.00 3.86
2791 3113 6.519761 CGTCATAATTTTTGAAACGACCAGAG 59.480 38.462 0.00 0.00 0.00 3.35
2855 3177 2.159947 CGACTAGCTAGTGCGTCTATCG 60.160 54.545 30.70 19.80 45.42 2.92
2867 3189 0.651031 GTCTATCGAACGCAAAGGGC 59.349 55.000 0.00 0.00 39.90 5.19
2899 3221 2.662791 CGGCACATGTCTTTCACTTTCG 60.663 50.000 0.00 0.00 0.00 3.46
2950 3272 4.377022 CCACTAACCAATTCGTTCGTTCTG 60.377 45.833 0.00 0.00 0.00 3.02
2966 3288 4.456911 TCGTTCTGTAACCGTCAGTCTTAT 59.543 41.667 0.00 0.00 34.86 1.73
2967 3289 4.557690 CGTTCTGTAACCGTCAGTCTTATG 59.442 45.833 0.00 0.00 34.86 1.90
2968 3290 4.713824 TCTGTAACCGTCAGTCTTATGG 57.286 45.455 0.00 0.00 34.86 2.74
2969 3291 3.119245 TCTGTAACCGTCAGTCTTATGGC 60.119 47.826 0.00 0.00 34.86 4.40
2970 3292 2.829720 TGTAACCGTCAGTCTTATGGCT 59.170 45.455 0.00 0.00 0.00 4.75
2971 3293 3.259876 TGTAACCGTCAGTCTTATGGCTT 59.740 43.478 0.00 0.00 0.00 4.35
2972 3294 2.386661 ACCGTCAGTCTTATGGCTTG 57.613 50.000 0.00 0.00 0.00 4.01
2992 3314 7.286087 TGGCTTGCTAATGATAGTGAATGATTT 59.714 33.333 0.00 0.00 0.00 2.17
2994 3316 8.133627 GCTTGCTAATGATAGTGAATGATTTGT 58.866 33.333 0.00 0.00 0.00 2.83
3091 3429 6.630838 GTTGTTTAACTGGCATGCATGCTAC 61.631 44.000 41.51 29.79 42.15 3.58
3133 3471 1.862827 CGTAAATACTGGCGCTAACCC 59.137 52.381 7.64 0.00 0.00 4.11
3185 3523 5.881923 TGTTGTCCACTTAAACTACTCCT 57.118 39.130 0.00 0.00 0.00 3.69
3188 3526 7.794041 TGTTGTCCACTTAAACTACTCCTAAA 58.206 34.615 0.00 0.00 0.00 1.85
3189 3527 8.434392 TGTTGTCCACTTAAACTACTCCTAAAT 58.566 33.333 0.00 0.00 0.00 1.40
3190 3528 9.933723 GTTGTCCACTTAAACTACTCCTAAATA 57.066 33.333 0.00 0.00 0.00 1.40
3192 3530 9.933723 TGTCCACTTAAACTACTCCTAAATAAC 57.066 33.333 0.00 0.00 0.00 1.89
3193 3531 9.376075 GTCCACTTAAACTACTCCTAAATAACC 57.624 37.037 0.00 0.00 0.00 2.85
3194 3532 9.330220 TCCACTTAAACTACTCCTAAATAACCT 57.670 33.333 0.00 0.00 0.00 3.50
3195 3533 9.379791 CCACTTAAACTACTCCTAAATAACCTG 57.620 37.037 0.00 0.00 0.00 4.00
3201 3539 9.892130 AAACTACTCCTAAATAACCTGAATCTG 57.108 33.333 0.00 0.00 0.00 2.90
3202 3540 7.501844 ACTACTCCTAAATAACCTGAATCTGC 58.498 38.462 0.00 0.00 0.00 4.26
3204 3542 6.352516 ACTCCTAAATAACCTGAATCTGCTG 58.647 40.000 0.00 0.00 0.00 4.41
3228 3572 5.857822 ATGTAAGACTTTTCGGCTGTTAC 57.142 39.130 0.00 0.00 0.00 2.50
3242 3586 2.380084 TGTTACCGACAGGATCAAGC 57.620 50.000 0.00 0.00 41.02 4.01
3243 3587 1.899814 TGTTACCGACAGGATCAAGCT 59.100 47.619 0.00 0.00 41.02 3.74
3244 3588 3.093814 TGTTACCGACAGGATCAAGCTA 58.906 45.455 0.00 0.00 41.02 3.32
3246 3590 0.461961 ACCGACAGGATCAAGCTAGC 59.538 55.000 6.62 6.62 41.02 3.42
3251 3595 0.033228 CAGGATCAAGCTAGCTCCGG 59.967 60.000 19.65 11.94 32.87 5.14
3258 3602 1.067821 CAAGCTAGCTCCGGTAGAAGG 59.932 57.143 19.65 0.00 35.90 3.46
3260 3604 0.756070 GCTAGCTCCGGTAGAAGGGT 60.756 60.000 7.70 0.00 35.90 4.34
3265 3609 1.664321 CTCCGGTAGAAGGGTGACGG 61.664 65.000 0.00 0.00 42.45 4.79
3266 3610 2.183555 CGGTAGAAGGGTGACGGC 59.816 66.667 0.00 0.00 0.00 5.68
3271 3615 4.373116 GAAGGGTGACGGCAGCGA 62.373 66.667 15.42 0.00 43.31 4.93
3272 3616 4.681978 AAGGGTGACGGCAGCGAC 62.682 66.667 15.42 0.76 43.31 5.19
3275 3619 2.260434 GGTGACGGCAGCGACTTA 59.740 61.111 3.89 0.00 32.24 2.24
3292 3638 1.740332 TTATCGGCGGCTCATTCGGA 61.740 55.000 7.21 0.00 0.00 4.55
3293 3639 2.416244 TATCGGCGGCTCATTCGGAC 62.416 60.000 7.21 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 5.173774 TGCGTAGAGGTACCTAATTAACG 57.826 43.478 16.29 19.29 0.00 3.18
151 162 1.251251 GGAACAGCAGGAACAGCAAT 58.749 50.000 0.00 0.00 45.86 3.56
152 163 0.823356 GGGAACAGCAGGAACAGCAA 60.823 55.000 0.00 0.00 45.86 3.91
153 164 1.228245 GGGAACAGCAGGAACAGCA 60.228 57.895 0.00 0.00 45.86 4.41
154 165 2.328099 CGGGAACAGCAGGAACAGC 61.328 63.158 0.00 0.00 42.86 4.40
155 166 2.328099 GCGGGAACAGCAGGAACAG 61.328 63.158 0.00 0.00 34.19 3.16
156 167 2.281484 GCGGGAACAGCAGGAACA 60.281 61.111 0.00 0.00 34.19 3.18
157 168 3.056328 GGCGGGAACAGCAGGAAC 61.056 66.667 0.00 0.00 36.08 3.62
158 169 4.344865 GGGCGGGAACAGCAGGAA 62.345 66.667 0.00 0.00 36.08 3.36
161 172 3.976701 ATTCGGGCGGGAACAGCAG 62.977 63.158 0.00 0.00 36.08 4.24
185 196 1.749609 GACGATGCCGCGTTAGGAAC 61.750 60.000 4.92 0.00 45.72 3.62
312 332 2.688666 CCCTACCTGCCCTGCTCA 60.689 66.667 0.00 0.00 0.00 4.26
330 350 4.077188 GACGCCGTCAGCTTGCAC 62.077 66.667 13.23 0.00 40.39 4.57
349 369 2.506217 CGACGGTCGTGGACATGG 60.506 66.667 21.68 0.00 34.72 3.66
366 386 3.592383 CGTCGTGTAATTTTTGCTTCGAC 59.408 43.478 0.00 0.00 38.56 4.20
390 411 2.813908 GTCGTGGACATGCCGACC 60.814 66.667 13.62 4.74 43.77 4.79
394 415 1.741770 GGACAGTCGTGGACATGCC 60.742 63.158 0.00 0.00 34.60 4.40
424 445 3.306294 CGCCCTTAGACATCATCTGCATA 60.306 47.826 0.00 0.00 38.49 3.14
432 453 3.334691 CAAAACTCGCCCTTAGACATCA 58.665 45.455 0.00 0.00 0.00 3.07
449 482 8.038944 AGACTATTTTCCGTAGATGTAGCAAAA 58.961 33.333 0.00 0.00 0.00 2.44
488 687 2.845363 TTTTGGAACGGAGGGAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
489 688 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
490 689 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
491 690 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
492 691 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
493 692 4.150897 TCATCTATTTTGGAACGGAGGG 57.849 45.455 0.00 0.00 0.00 4.30
494 693 4.757149 GGATCATCTATTTTGGAACGGAGG 59.243 45.833 0.00 0.00 0.00 4.30
495 694 5.368145 TGGATCATCTATTTTGGAACGGAG 58.632 41.667 0.00 0.00 0.00 4.63
496 695 5.366482 TGGATCATCTATTTTGGAACGGA 57.634 39.130 0.00 0.00 0.00 4.69
497 696 5.590259 AGTTGGATCATCTATTTTGGAACGG 59.410 40.000 0.00 0.00 0.00 4.44
498 697 6.683974 AGTTGGATCATCTATTTTGGAACG 57.316 37.500 0.00 0.00 0.00 3.95
499 698 8.306761 ACAAAGTTGGATCATCTATTTTGGAAC 58.693 33.333 11.01 0.00 0.00 3.62
500 699 8.421249 ACAAAGTTGGATCATCTATTTTGGAA 57.579 30.769 11.01 0.00 0.00 3.53
501 700 8.956426 GTACAAAGTTGGATCATCTATTTTGGA 58.044 33.333 11.01 2.87 0.00 3.53
502 701 8.960591 AGTACAAAGTTGGATCATCTATTTTGG 58.039 33.333 11.01 0.00 0.00 3.28
535 734 9.298774 GATTCAACTTTGTACTAGCGTTAGTAT 57.701 33.333 20.13 3.44 42.66 2.12
536 735 8.298854 TGATTCAACTTTGTACTAGCGTTAGTA 58.701 33.333 14.36 14.36 40.55 1.82
537 736 7.149973 TGATTCAACTTTGTACTAGCGTTAGT 58.850 34.615 16.45 16.45 42.66 2.24
538 737 7.576750 TGATTCAACTTTGTACTAGCGTTAG 57.423 36.000 4.57 4.57 0.00 2.34
539 738 8.033038 AGATGATTCAACTTTGTACTAGCGTTA 58.967 33.333 0.00 0.00 0.00 3.18
540 739 6.874134 AGATGATTCAACTTTGTACTAGCGTT 59.126 34.615 0.00 0.00 0.00 4.84
541 740 6.398918 AGATGATTCAACTTTGTACTAGCGT 58.601 36.000 0.00 0.00 0.00 5.07
542 741 6.893958 AGATGATTCAACTTTGTACTAGCG 57.106 37.500 0.00 0.00 0.00 4.26
549 748 9.696917 GTTCCAAAATAGATGATTCAACTTTGT 57.303 29.630 1.47 0.00 0.00 2.83
550 749 8.853345 CGTTCCAAAATAGATGATTCAACTTTG 58.147 33.333 1.47 1.65 0.00 2.77
551 750 8.028938 CCGTTCCAAAATAGATGATTCAACTTT 58.971 33.333 1.47 0.00 0.00 2.66
552 751 7.393234 TCCGTTCCAAAATAGATGATTCAACTT 59.607 33.333 1.47 0.00 0.00 2.66
553 752 6.884295 TCCGTTCCAAAATAGATGATTCAACT 59.116 34.615 1.83 1.83 0.00 3.16
554 753 7.083875 TCCGTTCCAAAATAGATGATTCAAC 57.916 36.000 0.00 0.00 0.00 3.18
555 754 6.318648 CCTCCGTTCCAAAATAGATGATTCAA 59.681 38.462 0.00 0.00 0.00 2.69
556 755 5.822519 CCTCCGTTCCAAAATAGATGATTCA 59.177 40.000 0.00 0.00 0.00 2.57
557 756 5.239525 CCCTCCGTTCCAAAATAGATGATTC 59.760 44.000 0.00 0.00 0.00 2.52
558 757 5.104109 TCCCTCCGTTCCAAAATAGATGATT 60.104 40.000 0.00 0.00 0.00 2.57
559 758 4.412199 TCCCTCCGTTCCAAAATAGATGAT 59.588 41.667 0.00 0.00 0.00 2.45
560 759 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
561 760 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
562 761 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
563 762 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
564 763 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
565 764 3.839490 TGTACTCCCTCCGTTCCAAAATA 59.161 43.478 0.00 0.00 0.00 1.40
566 765 2.640826 TGTACTCCCTCCGTTCCAAAAT 59.359 45.455 0.00 0.00 0.00 1.82
567 766 2.038033 CTGTACTCCCTCCGTTCCAAAA 59.962 50.000 0.00 0.00 0.00 2.44
568 767 1.621814 CTGTACTCCCTCCGTTCCAAA 59.378 52.381 0.00 0.00 0.00 3.28
569 768 1.263356 CTGTACTCCCTCCGTTCCAA 58.737 55.000 0.00 0.00 0.00 3.53
570 769 0.113776 ACTGTACTCCCTCCGTTCCA 59.886 55.000 0.00 0.00 0.00 3.53
571 770 1.747924 GTACTGTACTCCCTCCGTTCC 59.252 57.143 10.64 0.00 0.00 3.62
572 771 2.440409 TGTACTGTACTCCCTCCGTTC 58.560 52.381 17.98 0.00 0.00 3.95
573 772 2.592102 TGTACTGTACTCCCTCCGTT 57.408 50.000 17.98 0.00 0.00 4.44
574 773 2.444421 CTTGTACTGTACTCCCTCCGT 58.556 52.381 17.98 0.00 0.00 4.69
575 774 1.134560 GCTTGTACTGTACTCCCTCCG 59.865 57.143 17.98 1.76 0.00 4.63
576 775 2.458620 AGCTTGTACTGTACTCCCTCC 58.541 52.381 17.98 2.55 0.00 4.30
577 776 4.461781 TGTAAGCTTGTACTGTACTCCCTC 59.538 45.833 17.98 4.41 0.00 4.30
578 777 4.413760 TGTAAGCTTGTACTGTACTCCCT 58.586 43.478 17.98 8.72 0.00 4.20
579 778 4.796038 TGTAAGCTTGTACTGTACTCCC 57.204 45.455 17.98 6.81 0.00 4.30
580 779 5.109903 CCATGTAAGCTTGTACTGTACTCC 58.890 45.833 17.98 7.12 0.00 3.85
581 780 5.721232 ACCATGTAAGCTTGTACTGTACTC 58.279 41.667 17.98 8.07 0.00 2.59
582 781 5.245301 TGACCATGTAAGCTTGTACTGTACT 59.755 40.000 17.98 1.18 0.00 2.73
583 782 5.475719 TGACCATGTAAGCTTGTACTGTAC 58.524 41.667 9.86 10.98 0.00 2.90
584 783 5.337250 CCTGACCATGTAAGCTTGTACTGTA 60.337 44.000 9.86 0.00 0.00 2.74
585 784 4.563580 CCTGACCATGTAAGCTTGTACTGT 60.564 45.833 9.86 0.57 0.00 3.55
586 785 3.935203 CCTGACCATGTAAGCTTGTACTG 59.065 47.826 9.86 1.32 0.00 2.74
587 786 3.619979 GCCTGACCATGTAAGCTTGTACT 60.620 47.826 9.86 0.00 0.00 2.73
588 787 2.678336 GCCTGACCATGTAAGCTTGTAC 59.322 50.000 9.86 0.00 0.00 2.90
589 788 2.355716 GGCCTGACCATGTAAGCTTGTA 60.356 50.000 9.86 0.00 38.86 2.41
590 789 1.614317 GGCCTGACCATGTAAGCTTGT 60.614 52.381 9.86 0.00 38.86 3.16
591 790 1.098050 GGCCTGACCATGTAAGCTTG 58.902 55.000 9.86 0.00 38.86 4.01
592 791 0.995024 AGGCCTGACCATGTAAGCTT 59.005 50.000 3.11 3.48 43.14 3.74
611 837 4.523083 CTTCCCCTTGAATTTCACGGATA 58.477 43.478 20.37 7.54 37.96 2.59
613 839 2.554344 CCTTCCCCTTGAATTTCACGGA 60.554 50.000 20.37 12.53 37.96 4.69
653 879 8.932791 CCTCTTACATGATGTTACGTAACTTTT 58.067 33.333 32.10 20.05 37.12 2.27
684 912 6.322201 CCCTTGAGCAAAAATGATACACCTAT 59.678 38.462 0.00 0.00 0.00 2.57
693 921 1.619827 CCTGCCCTTGAGCAAAAATGA 59.380 47.619 0.00 0.00 43.52 2.57
788 1022 0.468648 GTAGGGGTCACATGGCTACC 59.531 60.000 0.00 0.98 0.00 3.18
918 1153 1.071128 GCTGGGAGGCTGAGCTATG 59.929 63.158 3.72 0.00 0.00 2.23
919 1154 2.146061 GGCTGGGAGGCTGAGCTAT 61.146 63.158 3.72 0.00 37.85 2.97
920 1155 2.765807 GGCTGGGAGGCTGAGCTA 60.766 66.667 3.72 0.00 37.85 3.32
986 1223 1.181098 AGCCATGTCAAAGCACCACC 61.181 55.000 0.00 0.00 0.00 4.61
992 1229 1.831580 AAGAGGAGCCATGTCAAAGC 58.168 50.000 0.00 0.00 0.00 3.51
1231 1474 5.672426 CGCATGTTATTACACAAACGATCAG 59.328 40.000 0.00 0.00 37.03 2.90
1392 1635 5.950965 AAAATATGACGAACGAGCTAGTG 57.049 39.130 0.00 0.00 0.00 2.74
1413 1701 2.439104 GCAGGGGCAAACCACCAAA 61.439 57.895 0.00 0.00 42.21 3.28
1420 1708 3.428282 CGTACGGCAGGGGCAAAC 61.428 66.667 7.57 0.00 43.71 2.93
1469 1757 7.253354 CGATAGTAAACGATCACAAGTCAAGAC 60.253 40.741 0.00 0.00 0.00 3.01
1479 1767 5.290158 TGAAAAGGCGATAGTAAACGATCAC 59.710 40.000 0.00 0.00 39.35 3.06
1494 1782 0.373716 GCACCGTATCTGAAAAGGCG 59.626 55.000 0.00 0.00 0.00 5.52
1510 1798 2.251642 GGACTGGTCGTTGGTGCAC 61.252 63.158 8.80 8.80 0.00 4.57
1701 1989 2.245096 GTGCAACGAGTGATGAAATGC 58.755 47.619 0.00 0.00 0.00 3.56
1757 2045 9.988815 AAAAGCACTGGTTATATAGAGTATGAG 57.011 33.333 0.00 0.00 0.00 2.90
1784 2072 2.347150 CGTGAAAGTTTTGTTGGGCAAC 59.653 45.455 0.00 0.00 41.50 4.17
1808 2096 2.036571 CCCAGTTAAACCGGTCGCC 61.037 63.158 8.04 0.00 0.00 5.54
1913 2201 4.201950 CCATGTGCCATTGTAGCTTACTTC 60.202 45.833 0.00 0.00 0.00 3.01
1914 2202 3.696051 CCATGTGCCATTGTAGCTTACTT 59.304 43.478 0.00 0.00 0.00 2.24
1916 2204 2.358898 CCCATGTGCCATTGTAGCTTAC 59.641 50.000 0.00 0.00 0.00 2.34
1921 2209 1.135024 GCAACCCATGTGCCATTGTAG 60.135 52.381 0.00 0.00 0.00 2.74
2135 2423 2.111878 CGCCAGATGGATCCCCAC 59.888 66.667 9.90 0.29 46.98 4.61
2141 2429 2.769621 TCCAGCCGCCAGATGGAT 60.770 61.111 2.18 0.00 38.19 3.41
2308 2611 2.547855 CCAATGCATGCCATGATTCCAG 60.548 50.000 16.68 0.00 33.49 3.86
2318 2621 1.668751 CAAATCAAGCCAATGCATGCC 59.331 47.619 16.68 0.00 41.13 4.40
2371 2674 2.317530 ACCTCCTCGGTAGTACGTAC 57.682 55.000 18.10 18.10 46.73 3.67
2401 2704 0.318120 TCGACGACCCAACCTTAACC 59.682 55.000 0.00 0.00 0.00 2.85
2402 2705 2.265683 GATCGACGACCCAACCTTAAC 58.734 52.381 0.00 0.00 0.00 2.01
2417 2720 1.029681 CCTACATGACACCCGATCGA 58.970 55.000 18.66 0.00 0.00 3.59
2418 2721 0.597637 GCCTACATGACACCCGATCG 60.598 60.000 8.51 8.51 0.00 3.69
2419 2722 0.597637 CGCCTACATGACACCCGATC 60.598 60.000 0.00 0.00 0.00 3.69
2567 2870 3.330267 GGACAAGAGTTAAGCAGGAGTG 58.670 50.000 0.00 0.00 0.00 3.51
2616 2919 4.299978 GGCAATACGAAGAGATGAGTACC 58.700 47.826 0.00 0.00 0.00 3.34
2626 2929 4.708421 ACAAGTACTAGGGCAATACGAAGA 59.292 41.667 0.00 0.00 0.00 2.87
2627 2930 5.007385 ACAAGTACTAGGGCAATACGAAG 57.993 43.478 0.00 0.00 0.00 3.79
2684 3005 3.392882 CCCGTACGTTGGTTAGAAAGTT 58.607 45.455 15.21 0.00 0.00 2.66
2705 3026 1.212751 GAATTTCCACTGGCCGTGC 59.787 57.895 18.57 4.30 42.42 5.34
2751 3072 0.250858 TGACGTACCGACCTCTCCAA 60.251 55.000 0.00 0.00 0.00 3.53
2756 3078 5.577945 TCAAAAATTATGACGTACCGACCTC 59.422 40.000 0.00 0.00 0.00 3.85
2780 3102 1.217882 CGTGCTTTCTCTGGTCGTTT 58.782 50.000 0.00 0.00 0.00 3.60
2789 3111 0.664767 ACTCGACTGCGTGCTTTCTC 60.665 55.000 0.00 0.00 38.98 2.87
2790 3112 0.596577 TACTCGACTGCGTGCTTTCT 59.403 50.000 0.00 0.00 38.98 2.52
2791 3113 1.321743 CATACTCGACTGCGTGCTTTC 59.678 52.381 0.00 0.00 38.98 2.62
2875 3197 0.889186 GTGAAAGACATGTGCCGGGT 60.889 55.000 1.15 0.00 0.00 5.28
2899 3221 5.392057 CCATACGGAAAGAAAAGGAGCTTTC 60.392 44.000 0.00 0.00 45.68 2.62
2950 3272 3.521947 AGCCATAAGACTGACGGTTAC 57.478 47.619 0.00 0.00 0.00 2.50
2966 3288 5.683681 TCATTCACTATCATTAGCAAGCCA 58.316 37.500 0.00 0.00 0.00 4.75
2967 3289 6.814506 ATCATTCACTATCATTAGCAAGCC 57.185 37.500 0.00 0.00 0.00 4.35
2968 3290 8.133627 ACAAATCATTCACTATCATTAGCAAGC 58.866 33.333 0.00 0.00 0.00 4.01
2971 3293 9.836864 ACTACAAATCATTCACTATCATTAGCA 57.163 29.630 0.00 0.00 0.00 3.49
2992 3314 6.365839 CGTCTCTCGTGTAAAAGTTACTACA 58.634 40.000 0.31 0.00 34.52 2.74
2994 3316 5.617751 GCCGTCTCTCGTGTAAAAGTTACTA 60.618 44.000 0.31 0.00 37.94 1.82
3091 3429 0.589223 GACGATCCAGCGGTCTCTAG 59.411 60.000 0.00 0.00 35.12 2.43
3133 3471 2.427540 CTAGCTCGGCGATTGGGAGG 62.428 65.000 11.27 0.00 0.00 4.30
3185 3523 9.679661 TTACATTCAGCAGATTCAGGTTATTTA 57.320 29.630 0.00 0.00 0.00 1.40
3188 3526 7.497249 GTCTTACATTCAGCAGATTCAGGTTAT 59.503 37.037 0.00 0.00 0.00 1.89
3189 3527 6.818644 GTCTTACATTCAGCAGATTCAGGTTA 59.181 38.462 0.00 0.00 0.00 2.85
3190 3528 5.645497 GTCTTACATTCAGCAGATTCAGGTT 59.355 40.000 0.00 0.00 0.00 3.50
3192 3530 5.426504 AGTCTTACATTCAGCAGATTCAGG 58.573 41.667 0.00 0.00 0.00 3.86
3193 3531 6.981762 AAGTCTTACATTCAGCAGATTCAG 57.018 37.500 0.00 0.00 0.00 3.02
3194 3532 7.360353 CGAAAAGTCTTACATTCAGCAGATTCA 60.360 37.037 0.00 0.00 0.00 2.57
3195 3533 6.958193 CGAAAAGTCTTACATTCAGCAGATTC 59.042 38.462 0.00 0.00 0.00 2.52
3196 3534 6.128172 CCGAAAAGTCTTACATTCAGCAGATT 60.128 38.462 0.00 0.00 0.00 2.40
3197 3535 5.352569 CCGAAAAGTCTTACATTCAGCAGAT 59.647 40.000 0.00 0.00 0.00 2.90
3200 3538 3.188460 GCCGAAAAGTCTTACATTCAGCA 59.812 43.478 0.00 0.00 0.00 4.41
3201 3539 3.437049 AGCCGAAAAGTCTTACATTCAGC 59.563 43.478 0.00 0.00 0.00 4.26
3202 3540 4.452455 ACAGCCGAAAAGTCTTACATTCAG 59.548 41.667 0.00 0.00 0.00 3.02
3204 3542 5.358298 AACAGCCGAAAAGTCTTACATTC 57.642 39.130 0.00 0.00 0.00 2.67
3228 3572 0.749649 AGCTAGCTTGATCCTGTCGG 59.250 55.000 12.68 0.00 0.00 4.79
3234 3578 1.271102 CTACCGGAGCTAGCTTGATCC 59.729 57.143 20.42 20.67 38.99 3.36
3236 3580 2.366640 TCTACCGGAGCTAGCTTGAT 57.633 50.000 20.42 4.18 0.00 2.57
3242 3586 1.033574 CACCCTTCTACCGGAGCTAG 58.966 60.000 9.46 0.00 0.00 3.42
3243 3587 0.627451 TCACCCTTCTACCGGAGCTA 59.373 55.000 9.46 0.00 0.00 3.32
3244 3588 0.971447 GTCACCCTTCTACCGGAGCT 60.971 60.000 9.46 0.00 0.00 4.09
3246 3590 1.664321 CCGTCACCCTTCTACCGGAG 61.664 65.000 9.46 0.60 37.66 4.63
3251 3595 1.448013 GCTGCCGTCACCCTTCTAC 60.448 63.158 0.00 0.00 0.00 2.59
3258 3602 1.146358 GATAAGTCGCTGCCGTCACC 61.146 60.000 0.00 0.00 35.54 4.02
3260 3604 1.226575 CGATAAGTCGCTGCCGTCA 60.227 57.895 0.00 0.00 41.49 4.35
3265 3609 3.330853 CCGCCGATAAGTCGCTGC 61.331 66.667 0.00 0.00 46.32 5.25
3266 3610 3.330853 GCCGCCGATAAGTCGCTG 61.331 66.667 0.00 0.00 46.32 5.18
3271 3615 0.597637 CGAATGAGCCGCCGATAAGT 60.598 55.000 0.00 0.00 0.00 2.24
3272 3616 1.284982 CCGAATGAGCCGCCGATAAG 61.285 60.000 0.00 0.00 0.00 1.73
3273 3617 1.300620 CCGAATGAGCCGCCGATAA 60.301 57.895 0.00 0.00 0.00 1.75
3275 3619 3.536917 TCCGAATGAGCCGCCGAT 61.537 61.111 0.00 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.