Multiple sequence alignment - TraesCS6D01G219900

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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 TraesCS6D01G219900 chr6D 100.000 3984 0 0 1 3984 309994421 309990438 0.000000e+00 7358
1 TraesCS6D01G219900 chr6D 92.584 445 32 1 1 444 455665072 455665516 4.340000e-179 638
2 TraesCS6D01G219900 chr6D 96.522 115 4 0 460 574 455665503 455665617 1.460000e-44 191
3 TraesCS6D01G219900 chr6B 91.620 2124 129 27 1371 3468 477798007 477795907 0.000000e+00 2891
4 TraesCS6D01G219900 chr6B 90.885 768 42 20 628 1378 477798787 477798031 0.000000e+00 1005
5 TraesCS6D01G219900 chr6B 84.029 407 22 21 3452 3854 477795879 477795512 6.330000e-93 351
6 TraesCS6D01G219900 chr6A 89.623 1060 72 12 1374 2424 446739273 446738243 0.000000e+00 1314
7 TraesCS6D01G219900 chr6A 90.265 791 42 17 2595 3374 446738182 446737416 0.000000e+00 1002
8 TraesCS6D01G219900 chr6A 89.382 518 36 9 870 1378 446739813 446739306 5.620000e-178 634
9 TraesCS6D01G219900 chr6A 85.455 330 20 12 3436 3760 446735889 446735583 6.420000e-83 318
10 TraesCS6D01G219900 chr6A 91.549 213 14 4 3772 3982 446735537 446735327 1.400000e-74 291
11 TraesCS6D01G219900 chr6A 92.126 127 9 1 626 751 446749190 446749064 1.140000e-40 178
12 TraesCS6D01G219900 chr4B 83.218 1013 91 43 1001 1959 229349650 229348663 0.000000e+00 856
13 TraesCS6D01G219900 chr1D 93.919 444 26 1 1 444 253189740 253189298 0.000000e+00 669
14 TraesCS6D01G219900 chr1D 93.468 444 29 0 1 444 203935866 203936309 0.000000e+00 660
15 TraesCS6D01G219900 chr1D 93.018 444 31 0 1 444 431817142 431817585 0.000000e+00 649
16 TraesCS6D01G219900 chr1D 97.391 115 3 0 460 574 79106206 79106320 3.140000e-46 196
17 TraesCS6D01G219900 chr1D 97.391 115 3 0 460 574 301220059 301220173 3.140000e-46 196
18 TraesCS6D01G219900 chr1D 95.763 118 5 0 460 577 253189311 253189194 1.460000e-44 191
19 TraesCS6D01G219900 chr7D 93.694 444 28 0 1 444 164402963 164403406 0.000000e+00 665
20 TraesCS6D01G219900 chr7D 97.391 115 3 0 460 574 164403393 164403507 3.140000e-46 196
21 TraesCS6D01G219900 chr5D 93.694 444 28 0 1 444 339719023 339719466 0.000000e+00 665
22 TraesCS6D01G219900 chr5D 97.391 115 3 0 460 574 339719453 339719567 3.140000e-46 196
23 TraesCS6D01G219900 chr3D 93.468 444 29 0 1 444 40759048 40759491 0.000000e+00 660
24 TraesCS6D01G219900 chr3D 97.391 115 3 0 460 574 40759478 40759592 3.140000e-46 196
25 TraesCS6D01G219900 chr2D 93.018 444 31 0 1 444 383549774 383549331 0.000000e+00 649
26 TraesCS6D01G219900 chr2D 97.368 114 3 0 460 573 383549344 383549231 1.130000e-45 195
27 TraesCS6D01G219900 chr2D 90.345 145 12 2 1006 1149 470642039 470642182 5.260000e-44 189
28 TraesCS6D01G219900 chr5B 92.793 444 32 0 1 444 589232280 589231837 0.000000e+00 643
29 TraesCS6D01G219900 chr3B 86.711 602 52 14 1371 1952 784733603 784734196 0.000000e+00 643
30 TraesCS6D01G219900 chr3B 86.379 602 53 15 1371 1952 784743369 784743961 7.270000e-177 630
31 TraesCS6D01G219900 chr2B 97.391 115 3 0 460 574 740680068 740679954 3.140000e-46 196
32 TraesCS6D01G219900 chr2B 89.655 145 13 2 1006 1149 549678074 549678217 2.450000e-42 183
33 TraesCS6D01G219900 chr7B 87.059 170 20 1 1470 1637 596018638 596018807 1.460000e-44 191
34 TraesCS6D01G219900 chr2A 88.966 145 14 2 1006 1149 612408210 612408353 1.140000e-40 178


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 TraesCS6D01G219900 chr6D 309990438 309994421 3983 True 7358.000000 7358 100.000000 1 3984 1 chr6D.!!$R1 3983
1 TraesCS6D01G219900 chr6D 455665072 455665617 545 False 414.500000 638 94.553000 1 574 2 chr6D.!!$F1 573
2 TraesCS6D01G219900 chr6B 477795512 477798787 3275 True 1415.666667 2891 88.844667 628 3854 3 chr6B.!!$R1 3226
3 TraesCS6D01G219900 chr6A 446735327 446739813 4486 True 711.800000 1314 89.254800 870 3982 5 chr6A.!!$R2 3112
4 TraesCS6D01G219900 chr4B 229348663 229349650 987 True 856.000000 856 83.218000 1001 1959 1 chr4B.!!$R1 958
5 TraesCS6D01G219900 chr1D 253189194 253189740 546 True 430.000000 669 94.841000 1 577 2 chr1D.!!$R1 576
6 TraesCS6D01G219900 chr7D 164402963 164403507 544 False 430.500000 665 95.542500 1 574 2 chr7D.!!$F1 573
7 TraesCS6D01G219900 chr5D 339719023 339719567 544 False 430.500000 665 95.542500 1 574 2 chr5D.!!$F1 573
8 TraesCS6D01G219900 chr3D 40759048 40759592 544 False 428.000000 660 95.429500 1 574 2 chr3D.!!$F1 573
9 TraesCS6D01G219900 chr2D 383549231 383549774 543 True 422.000000 649 95.193000 1 573 2 chr2D.!!$R1 572
10 TraesCS6D01G219900 chr3B 784733603 784734196 593 False 643.000000 643 86.711000 1371 1952 1 chr3B.!!$F1 581
11 TraesCS6D01G219900 chr3B 784743369 784743961 592 False 630.000000 630 86.379000 1371 1952 1 chr3B.!!$F2 581

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
982 997 0.398381 CAGGAGAGAGGGGAAGAGGG 60.398 65.0 0.0 0.0 0.00 4.30 F
1976 2060 0.250295 TCCACTTTTCTGCCTCGTGG 60.250 55.0 0.0 0.0 44.92 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2911 3017 1.065401 GCAACAGCAGCTACAACAACA 59.935 47.619 0.0 0.0 0.00 3.33 R
3857 5568 0.381445 TCCGTCGTTCGTTTGAGTGA 59.619 50.000 0.0 0.0 37.94 3.41 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
55 56 8.622157 CCATGCATCTCTCCAAATATCAATATC 58.378 37.037 0.00 0.00 0.00 1.63
56 57 9.174166 CATGCATCTCTCCAAATATCAATATCA 57.826 33.333 0.00 0.00 0.00 2.15
107 108 5.012239 CCATTTTTGAGAGAATCCACTCCA 58.988 41.667 0.00 0.00 37.60 3.86
144 145 5.010012 TGCCAAGTGAAAGAAGATCCTTTTC 59.990 40.000 7.06 7.06 36.58 2.29
147 149 6.072230 CCAAGTGAAAGAAGATCCTTTTCTCC 60.072 42.308 12.57 6.25 36.58 3.71
157 159 1.135083 TCCTTTTCTCCGACTCGCATC 60.135 52.381 0.00 0.00 0.00 3.91
182 184 7.447238 TCCATTAAATCTCCATCCGGAAAATAC 59.553 37.037 9.01 0.00 42.21 1.89
210 212 3.010027 TCTCAAAATGGTGGCACATAGGA 59.990 43.478 20.82 7.75 44.52 2.94
215 217 2.435372 TGGTGGCACATAGGAAATCC 57.565 50.000 20.82 0.00 44.52 3.01
220 222 2.154462 GGCACATAGGAAATCCGGATG 58.846 52.381 19.95 7.66 42.08 3.51
342 345 1.841277 ACCATGCCATCCAATGCATTT 59.159 42.857 9.83 0.00 45.52 2.32
369 372 0.762418 ATTGTCTTCGTCACCCCACA 59.238 50.000 0.00 0.00 0.00 4.17
444 447 5.705609 AAAGACGGACATTGCATAAGTTT 57.294 34.783 0.00 0.00 0.00 2.66
445 448 5.705609 AAGACGGACATTGCATAAGTTTT 57.294 34.783 0.00 0.00 0.00 2.43
446 449 5.705609 AGACGGACATTGCATAAGTTTTT 57.294 34.783 0.00 0.00 0.00 1.94
466 469 1.414158 TTTTTCGGGGGAACATTGCA 58.586 45.000 0.00 0.00 0.00 4.08
467 470 1.638529 TTTTCGGGGGAACATTGCAT 58.361 45.000 0.00 0.00 0.00 3.96
468 471 2.516227 TTTCGGGGGAACATTGCATA 57.484 45.000 0.00 0.00 0.00 3.14
469 472 2.516227 TTCGGGGGAACATTGCATAA 57.484 45.000 0.00 0.00 0.00 1.90
470 473 2.051334 TCGGGGGAACATTGCATAAG 57.949 50.000 0.00 0.00 0.00 1.73
471 474 1.283613 TCGGGGGAACATTGCATAAGT 59.716 47.619 0.00 0.00 0.00 2.24
472 475 2.099405 CGGGGGAACATTGCATAAGTT 58.901 47.619 0.00 0.00 0.00 2.66
480 483 5.594317 GGAACATTGCATAAGTTGGGATAGT 59.406 40.000 3.99 0.00 0.00 2.12
564 567 7.871973 CCAACCACTGATTTTCATAACAATTCA 59.128 33.333 0.00 0.00 0.00 2.57
597 600 5.816449 AAACGGAGAGAGTACTTACTAGC 57.184 43.478 0.00 0.00 36.50 3.42
598 601 4.484537 ACGGAGAGAGTACTTACTAGCA 57.515 45.455 0.00 0.00 36.50 3.49
599 602 4.841422 ACGGAGAGAGTACTTACTAGCAA 58.159 43.478 0.00 0.00 36.50 3.91
600 603 4.877251 ACGGAGAGAGTACTTACTAGCAAG 59.123 45.833 0.00 0.86 36.50 4.01
601 604 4.260866 CGGAGAGAGTACTTACTAGCAAGC 60.261 50.000 2.40 0.00 36.50 4.01
602 605 4.641094 GGAGAGAGTACTTACTAGCAAGCA 59.359 45.833 2.40 0.00 36.50 3.91
603 606 5.220970 GGAGAGAGTACTTACTAGCAAGCAG 60.221 48.000 2.40 0.00 36.50 4.24
604 607 5.502079 AGAGAGTACTTACTAGCAAGCAGA 58.498 41.667 2.40 0.00 36.50 4.26
605 608 5.588648 AGAGAGTACTTACTAGCAAGCAGAG 59.411 44.000 2.40 0.00 36.50 3.35
606 609 4.642885 AGAGTACTTACTAGCAAGCAGAGG 59.357 45.833 2.40 0.00 36.50 3.69
607 610 2.682155 ACTTACTAGCAAGCAGAGGC 57.318 50.000 2.40 0.00 41.61 4.70
608 611 6.223740 AGTACTTACTAGCAAGCAGAGGCG 62.224 50.000 2.40 0.00 39.00 5.52
648 651 3.193691 TGAAGGCTACAGCTTGTCTAGAC 59.806 47.826 16.32 16.32 41.70 2.59
780 786 2.198827 TCGACAACTAACTACCCGGA 57.801 50.000 0.73 0.00 0.00 5.14
795 801 1.392710 CCGGAGTGTCGCCCTTATCT 61.393 60.000 0.00 0.00 0.00 1.98
857 863 3.543680 ATCAATAGAGAACACACGGGG 57.456 47.619 0.00 0.00 0.00 5.73
907 917 3.853330 CACGCTCCCGCATTGTCG 61.853 66.667 0.00 0.00 38.22 4.35
945 959 3.359002 GGAAACCAGCACCAGCAG 58.641 61.111 0.00 0.00 45.49 4.24
967 982 1.984570 CAGCGAGAGGGGAACAGGA 60.985 63.158 0.00 0.00 0.00 3.86
976 991 1.392534 GGGAACAGGAGAGAGGGGA 59.607 63.158 0.00 0.00 0.00 4.81
980 995 2.107366 GAACAGGAGAGAGGGGAAGAG 58.893 57.143 0.00 0.00 0.00 2.85
982 997 0.398381 CAGGAGAGAGGGGAAGAGGG 60.398 65.000 0.00 0.00 0.00 4.30
985 1000 2.250635 GAGAGAGGGGAAGAGGGGCT 62.251 65.000 0.00 0.00 0.00 5.19
1173 1188 1.132689 ACCTGTTCCCTCTTCTCTGGT 60.133 52.381 0.00 0.00 0.00 4.00
1235 1251 4.569761 AGAGGAAAAGAAAAGGCGAAAC 57.430 40.909 0.00 0.00 0.00 2.78
1256 1272 2.676471 ACCGATTTGGGCTGTGGC 60.676 61.111 0.00 0.00 44.64 5.01
1276 1292 1.956629 CTGTGGGGGTAGGTACGCTG 61.957 65.000 4.42 0.00 38.94 5.18
1279 1295 2.762875 GGGGTAGGTACGCTGGCT 60.763 66.667 4.42 0.00 38.94 4.75
1282 1301 1.610554 GGGTAGGTACGCTGGCTTCA 61.611 60.000 0.00 0.00 36.36 3.02
1283 1302 0.459759 GGTAGGTACGCTGGCTTCAC 60.460 60.000 0.00 0.00 0.00 3.18
1295 1314 1.270839 TGGCTTCACGAAAGAGGAAGG 60.271 52.381 6.51 0.00 42.18 3.46
1296 1315 1.270893 GGCTTCACGAAAGAGGAAGGT 60.271 52.381 6.51 0.00 42.18 3.50
1308 1327 1.687123 GAGGAAGGTAGCGCCAAGATA 59.313 52.381 2.29 0.00 40.61 1.98
1322 1348 0.457337 AAGATAACCGTCGTGTCCGC 60.457 55.000 0.00 0.00 0.00 5.54
1343 1369 2.344441 CGCGATTTAGAAAAGCGTCTGA 59.656 45.455 0.00 0.00 41.11 3.27
1352 1378 9.696917 ATTTAGAAAAGCGTCTGATTGAATTTT 57.303 25.926 0.00 0.00 0.00 1.82
1360 1386 3.365820 GTCTGATTGAATTTTTGCTGCGG 59.634 43.478 0.00 0.00 0.00 5.69
1365 1391 1.344226 GAATTTTTGCTGCGGGCGTC 61.344 55.000 0.00 0.00 45.43 5.19
1389 1452 5.555017 GGCTTGGAGATTAGATGATGCTTA 58.445 41.667 0.00 0.00 0.00 3.09
1397 1460 7.122650 GGAGATTAGATGATGCTTAGCTCTAGT 59.877 40.741 5.60 0.98 32.38 2.57
1401 1464 6.028146 AGATGATGCTTAGCTCTAGTCATG 57.972 41.667 5.60 0.00 0.00 3.07
1402 1465 4.597404 TGATGCTTAGCTCTAGTCATGG 57.403 45.455 5.60 0.00 0.00 3.66
1403 1466 3.963374 TGATGCTTAGCTCTAGTCATGGT 59.037 43.478 5.60 0.00 0.00 3.55
1404 1467 4.406972 TGATGCTTAGCTCTAGTCATGGTT 59.593 41.667 5.60 0.00 0.00 3.67
1405 1468 4.128925 TGCTTAGCTCTAGTCATGGTTG 57.871 45.455 5.60 0.00 0.00 3.77
1406 1469 3.515502 TGCTTAGCTCTAGTCATGGTTGT 59.484 43.478 5.60 0.00 0.00 3.32
1407 1470 4.709886 TGCTTAGCTCTAGTCATGGTTGTA 59.290 41.667 5.60 0.00 0.00 2.41
1408 1471 5.363868 TGCTTAGCTCTAGTCATGGTTGTAT 59.636 40.000 5.60 0.00 0.00 2.29
1409 1472 6.127054 TGCTTAGCTCTAGTCATGGTTGTATT 60.127 38.462 5.60 0.00 0.00 1.89
1421 1484 9.162764 AGTCATGGTTGTATTACTTGTGATAAC 57.837 33.333 0.00 0.00 0.00 1.89
1439 1502 1.908065 ACAACAACTTCTGTTTGCGC 58.092 45.000 0.00 0.00 46.49 6.09
1448 1515 6.538742 ACAACTTCTGTTTGCGCTATATATGT 59.461 34.615 9.73 0.00 32.99 2.29
1450 1517 8.712363 CAACTTCTGTTTGCGCTATATATGTAT 58.288 33.333 9.73 0.00 33.52 2.29
1563 1630 4.699735 TGCACATCGATTGTACTCCAAATT 59.300 37.500 0.00 0.00 36.57 1.82
1582 1649 3.750639 TTTCAACCACACGTTTCTGTC 57.249 42.857 0.00 0.00 29.93 3.51
1596 1663 3.616956 TTCTGTCAGGGTCATTAGCTG 57.383 47.619 0.00 0.00 0.00 4.24
1663 1738 5.008613 GTCTGCCATGTCTGTTTCAGTTAAA 59.991 40.000 0.00 0.00 32.61 1.52
1899 1982 5.690865 TGTTGGATATTACAGGTTCATCCC 58.309 41.667 0.00 0.00 35.32 3.85
1959 2043 5.418840 TGAAGGTAATGCTGAAAATTCCTCC 59.581 40.000 0.00 0.00 0.00 4.30
1969 2053 5.200368 TGAAAATTCCTCCACTTTTCTGC 57.800 39.130 8.06 0.00 38.86 4.26
1976 2060 0.250295 TCCACTTTTCTGCCTCGTGG 60.250 55.000 0.00 0.00 44.92 4.94
1997 2081 8.030106 TCGTGGTTTTTCTTTTGTTTGTAAGAT 58.970 29.630 0.00 0.00 31.00 2.40
2064 2148 5.553123 ACGGTGAACCATGATACAACTAAA 58.447 37.500 0.00 0.00 35.14 1.85
2088 2172 5.077134 TGATCCATCTAATACTCCATGCG 57.923 43.478 0.00 0.00 0.00 4.73
2130 2214 3.391049 GGTCGGGATATACTGTGCTTTC 58.609 50.000 0.00 0.00 0.00 2.62
2157 2241 5.733620 ATCACAATGAAACTGGAATTGCT 57.266 34.783 0.00 0.00 0.00 3.91
2239 2323 4.053983 GGTAAGACTTTTTCGACTTCCGT 58.946 43.478 0.00 0.00 39.75 4.69
2309 2393 9.828852 GATCACATTGGTTTTACGTATTTGTAA 57.171 29.630 0.00 0.00 32.70 2.41
2448 2533 6.246919 AGTACGCATAGGTAAGACTATGGAT 58.753 40.000 13.29 0.00 46.59 3.41
2465 2550 9.561069 GACTATGGATAATTTATATGGGCGAAT 57.439 33.333 0.00 0.00 0.00 3.34
2567 2652 4.873746 TTGGTTGCGGAAAAATGGATTA 57.126 36.364 0.00 0.00 0.00 1.75
2585 2670 7.066307 TGGATTAGTTTAGAGCTGATGCATA 57.934 36.000 0.00 0.00 42.74 3.14
2589 2674 5.102953 AGTTTAGAGCTGATGCATACCAA 57.897 39.130 0.00 0.00 42.74 3.67
2591 2676 5.587844 AGTTTAGAGCTGATGCATACCAAAG 59.412 40.000 0.00 0.00 42.74 2.77
2592 2677 3.920231 AGAGCTGATGCATACCAAAGA 57.080 42.857 0.00 0.00 42.74 2.52
2593 2678 4.226427 AGAGCTGATGCATACCAAAGAA 57.774 40.909 0.00 0.00 42.74 2.52
2604 2710 7.156876 TGCATACCAAAGAAATAGTTGAAGG 57.843 36.000 0.00 0.00 0.00 3.46
2606 2712 6.564328 CATACCAAAGAAATAGTTGAAGGCC 58.436 40.000 0.00 0.00 0.00 5.19
2615 2721 7.606349 AGAAATAGTTGAAGGCCAAAGAATTC 58.394 34.615 5.01 0.00 36.36 2.17
2618 2724 3.888930 AGTTGAAGGCCAAAGAATTCGAA 59.111 39.130 5.01 0.00 36.36 3.71
2620 2726 4.927978 TGAAGGCCAAAGAATTCGAAAA 57.072 36.364 5.01 0.00 0.00 2.29
2621 2727 5.269505 TGAAGGCCAAAGAATTCGAAAAA 57.730 34.783 5.01 0.00 0.00 1.94
2624 2730 6.202570 TGAAGGCCAAAGAATTCGAAAAATTG 59.797 34.615 5.01 5.72 0.00 2.32
2664 2770 5.933187 TGAGTGCTCTTTAATTTGCGTTA 57.067 34.783 0.68 0.00 0.00 3.18
2665 2771 6.494893 TGAGTGCTCTTTAATTTGCGTTAT 57.505 33.333 0.68 0.00 0.00 1.89
2666 2772 6.314018 TGAGTGCTCTTTAATTTGCGTTATG 58.686 36.000 0.68 0.00 0.00 1.90
2669 2775 5.856455 GTGCTCTTTAATTTGCGTTATGTGT 59.144 36.000 0.00 0.00 0.00 3.72
2732 2838 0.250684 TGCGCCAAATGTGAGGAAGA 60.251 50.000 4.18 0.00 0.00 2.87
2751 2857 2.669569 TGCTCTTCCTTGGCACGC 60.670 61.111 0.00 0.00 0.00 5.34
2845 2951 0.543277 TCCAAAGCTCAGGCATCGAT 59.457 50.000 0.00 0.00 41.70 3.59
2911 3017 2.162681 GTTGTGCTATTTGGTGCCTCT 58.837 47.619 0.00 0.00 0.00 3.69
2932 3038 1.334869 GTTGTTGTAGCTGCTGTTGCT 59.665 47.619 13.43 0.00 43.79 3.91
2968 3074 2.267961 CCACAGGGTTACGCTCCC 59.732 66.667 0.00 2.43 44.90 4.30
3002 3113 6.896021 ACTAGTATGTGTGAAGTGTACTGT 57.104 37.500 0.00 0.00 0.00 3.55
3010 3121 7.438564 ATGTGTGAAGTGTACTGTATACACAA 58.561 34.615 20.91 10.96 46.64 3.33
3237 3352 8.996024 TTCGTGATCTGATGAGTTTTATTGTA 57.004 30.769 0.00 0.00 0.00 2.41
3326 3441 4.319911 GCAAGTACATAAACTGCCGAACAA 60.320 41.667 0.00 0.00 0.00 2.83
3364 3479 5.241728 ACTTAGTTTCCTTGGCAGATTGAAC 59.758 40.000 0.00 0.00 0.00 3.18
3464 5089 7.047891 CCACATAGCTACAGATTAGGAAACAA 58.952 38.462 0.00 0.00 0.00 2.83
3488 5158 6.053632 TCCAATCAAGAAACAGCTAGATCA 57.946 37.500 0.00 0.00 0.00 2.92
3540 5210 2.627699 GTCAGCAAAGGGGATCAACAAA 59.372 45.455 0.00 0.00 0.00 2.83
3564 5235 9.994432 AAAATCTTAGAAATCTCAGCATTTACG 57.006 29.630 0.00 0.00 0.00 3.18
3573 5244 4.385825 TCTCAGCATTTACGGTGAAAACT 58.614 39.130 0.00 0.00 42.45 2.66
3606 5277 5.901884 GTCGCCGATGTAAAATTCATTAGTG 59.098 40.000 0.00 0.00 0.00 2.74
3609 5280 5.221048 GCCGATGTAAAATTCATTAGTGGCT 60.221 40.000 0.00 0.00 32.46 4.75
3634 5305 1.671054 ACCAATTGACGGCCACTCG 60.671 57.895 7.12 0.00 0.00 4.18
3707 5379 1.002868 GTGCTGCAGTCTCACCCAT 60.003 57.895 16.64 0.00 0.00 4.00
3708 5380 1.023513 GTGCTGCAGTCTCACCCATC 61.024 60.000 16.64 0.00 0.00 3.51
3709 5381 1.297689 GCTGCAGTCTCACCCATCA 59.702 57.895 16.64 0.00 0.00 3.07
3711 5383 1.681166 GCTGCAGTCTCACCCATCAAT 60.681 52.381 16.64 0.00 0.00 2.57
3712 5384 2.286872 CTGCAGTCTCACCCATCAATC 58.713 52.381 5.25 0.00 0.00 2.67
3713 5385 1.293924 GCAGTCTCACCCATCAATCG 58.706 55.000 0.00 0.00 0.00 3.34
3714 5386 1.134699 GCAGTCTCACCCATCAATCGA 60.135 52.381 0.00 0.00 0.00 3.59
3716 5388 2.932614 CAGTCTCACCCATCAATCGAAC 59.067 50.000 0.00 0.00 0.00 3.95
3717 5389 1.927174 GTCTCACCCATCAATCGAACG 59.073 52.381 0.00 0.00 0.00 3.95
3718 5390 0.652592 CTCACCCATCAATCGAACGC 59.347 55.000 0.00 0.00 0.00 4.84
3738 5413 7.410300 CGAACGCAAAACTGCAACAAATATTAT 60.410 33.333 0.00 0.00 34.41 1.28
3830 5541 6.048509 AGCCCAACAAGACAAATAAAACAAG 58.951 36.000 0.00 0.00 0.00 3.16
3838 5549 6.783708 AGACAAATAAAACAAGAACCCACA 57.216 33.333 0.00 0.00 0.00 4.17
3857 5568 2.093658 ACAAAGACACGAACAGTCTGGT 60.094 45.455 4.53 0.00 45.11 4.00
3871 5582 1.521423 GTCTGGTCACTCAAACGAACG 59.479 52.381 0.00 0.00 0.00 3.95
3891 5602 5.080969 ACGACGGATATTTCTCAGGAAAA 57.919 39.130 0.00 0.00 43.51 2.29
3914 5625 4.877378 AAACATCCACAAATGATGCAGT 57.123 36.364 0.00 0.00 42.68 4.40
3924 5635 2.522836 ATGATGCAGTCGGAGCTAAG 57.477 50.000 0.00 0.00 0.00 2.18
3978 5689 5.651530 TGGCTGAGATTTAACTACTTCTCG 58.348 41.667 0.00 0.00 37.92 4.04
3982 5693 6.625300 GCTGAGATTTAACTACTTCTCGGTCA 60.625 42.308 8.83 0.00 41.57 4.02
3983 5694 7.223260 TGAGATTTAACTACTTCTCGGTCAA 57.777 36.000 0.00 0.00 37.92 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 6.573664 TTTGGAGAGTTGGTAATGAACATG 57.426 37.500 0.00 0.00 0.00 3.21
60 61 8.553153 TGGTTATATTTGGAGAGTTGGTAATGA 58.447 33.333 0.00 0.00 0.00 2.57
144 145 2.509052 TTAATGGATGCGAGTCGGAG 57.491 50.000 15.52 0.00 0.00 4.63
147 149 3.430218 GGAGATTTAATGGATGCGAGTCG 59.570 47.826 8.54 8.54 0.00 4.18
182 184 3.084039 TGCCACCATTTTGAGAGCTAAG 58.916 45.455 0.00 0.00 0.00 2.18
210 212 2.579873 CCTGCTTGATCATCCGGATTT 58.420 47.619 16.19 5.10 36.00 2.17
215 217 2.890109 GCGCCTGCTTGATCATCCG 61.890 63.158 0.00 0.00 38.39 4.18
220 222 3.869272 CGTGGCGCCTGCTTGATC 61.869 66.667 29.70 6.68 42.25 2.92
342 345 4.307432 GGTGACGAAGACAATCAGAAGAA 58.693 43.478 0.00 0.00 32.13 2.52
376 379 4.433615 AGAAATCATTGACGCGATGTAGT 58.566 39.130 15.93 0.00 0.00 2.73
378 381 5.559227 CAAAGAAATCATTGACGCGATGTA 58.441 37.500 15.93 0.00 0.00 2.29
415 418 9.139174 CTTATGCAATGTCCGTCTTTAAATTTT 57.861 29.630 0.00 0.00 0.00 1.82
447 450 1.414158 TGCAATGTTCCCCCGAAAAA 58.586 45.000 0.00 0.00 0.00 1.94
448 451 1.638529 ATGCAATGTTCCCCCGAAAA 58.361 45.000 0.00 0.00 0.00 2.29
449 452 2.516227 TATGCAATGTTCCCCCGAAA 57.484 45.000 0.00 0.00 0.00 3.46
450 453 2.291282 ACTTATGCAATGTTCCCCCGAA 60.291 45.455 0.00 0.00 0.00 4.30
451 454 1.283613 ACTTATGCAATGTTCCCCCGA 59.716 47.619 0.00 0.00 0.00 5.14
452 455 1.762708 ACTTATGCAATGTTCCCCCG 58.237 50.000 0.00 0.00 0.00 5.73
453 456 2.168313 CCAACTTATGCAATGTTCCCCC 59.832 50.000 0.00 0.00 0.00 5.40
454 457 2.168313 CCCAACTTATGCAATGTTCCCC 59.832 50.000 0.00 0.00 0.00 4.81
455 458 3.096092 TCCCAACTTATGCAATGTTCCC 58.904 45.455 0.00 0.00 0.00 3.97
456 459 5.594317 ACTATCCCAACTTATGCAATGTTCC 59.406 40.000 0.00 0.00 0.00 3.62
457 460 6.699575 ACTATCCCAACTTATGCAATGTTC 57.300 37.500 0.00 0.00 0.00 3.18
458 461 7.039082 ACAAACTATCCCAACTTATGCAATGTT 60.039 33.333 0.00 0.00 0.00 2.71
459 462 6.437162 ACAAACTATCCCAACTTATGCAATGT 59.563 34.615 0.00 0.00 0.00 2.71
460 463 6.866480 ACAAACTATCCCAACTTATGCAATG 58.134 36.000 0.00 0.00 0.00 2.82
461 464 7.613801 TGTACAAACTATCCCAACTTATGCAAT 59.386 33.333 0.00 0.00 0.00 3.56
462 465 6.943146 TGTACAAACTATCCCAACTTATGCAA 59.057 34.615 0.00 0.00 0.00 4.08
463 466 6.477253 TGTACAAACTATCCCAACTTATGCA 58.523 36.000 0.00 0.00 0.00 3.96
464 467 6.995511 TGTACAAACTATCCCAACTTATGC 57.004 37.500 0.00 0.00 0.00 3.14
465 468 7.413657 CGGTTGTACAAACTATCCCAACTTATG 60.414 40.741 20.88 0.00 34.22 1.90
466 469 6.596497 CGGTTGTACAAACTATCCCAACTTAT 59.404 38.462 20.88 0.00 34.22 1.73
467 470 5.933463 CGGTTGTACAAACTATCCCAACTTA 59.067 40.000 20.88 0.00 34.22 2.24
468 471 4.758165 CGGTTGTACAAACTATCCCAACTT 59.242 41.667 20.88 0.00 34.22 2.66
469 472 4.040706 TCGGTTGTACAAACTATCCCAACT 59.959 41.667 20.88 0.00 34.22 3.16
470 473 4.317488 TCGGTTGTACAAACTATCCCAAC 58.683 43.478 20.88 0.39 33.27 3.77
471 474 4.620589 TCGGTTGTACAAACTATCCCAA 57.379 40.909 20.88 0.00 0.00 4.12
472 475 4.829872 ATCGGTTGTACAAACTATCCCA 57.170 40.909 20.88 2.21 0.00 4.37
480 483 5.369833 TCCTTCTCAAATCGGTTGTACAAA 58.630 37.500 10.51 0.00 38.47 2.83
574 577 5.709164 TGCTAGTAAGTACTCTCTCCGTTTT 59.291 40.000 0.00 0.00 37.73 2.43
577 580 4.484537 TGCTAGTAAGTACTCTCTCCGT 57.515 45.455 0.00 0.00 37.73 4.69
578 581 4.260866 GCTTGCTAGTAAGTACTCTCTCCG 60.261 50.000 19.97 0.00 37.73 4.63
579 582 4.641094 TGCTTGCTAGTAAGTACTCTCTCC 59.359 45.833 19.97 2.95 37.73 3.71
580 583 5.587043 TCTGCTTGCTAGTAAGTACTCTCTC 59.413 44.000 19.97 3.59 37.73 3.20
581 584 5.502079 TCTGCTTGCTAGTAAGTACTCTCT 58.498 41.667 19.97 0.23 37.73 3.10
582 585 5.220970 CCTCTGCTTGCTAGTAAGTACTCTC 60.221 48.000 19.97 4.87 37.73 3.20
583 586 4.642885 CCTCTGCTTGCTAGTAAGTACTCT 59.357 45.833 19.97 0.00 37.73 3.24
584 587 4.735283 GCCTCTGCTTGCTAGTAAGTACTC 60.735 50.000 19.97 5.84 34.55 2.59
585 588 3.131400 GCCTCTGCTTGCTAGTAAGTACT 59.869 47.826 19.97 0.00 35.98 2.73
586 589 3.449632 GCCTCTGCTTGCTAGTAAGTAC 58.550 50.000 19.97 6.81 33.53 2.73
587 590 2.099263 CGCCTCTGCTTGCTAGTAAGTA 59.901 50.000 19.97 15.42 34.43 2.24
588 591 1.134965 CGCCTCTGCTTGCTAGTAAGT 60.135 52.381 19.97 0.00 34.43 2.24
589 592 1.134965 ACGCCTCTGCTTGCTAGTAAG 60.135 52.381 15.55 15.55 34.43 2.34
590 593 0.895530 ACGCCTCTGCTTGCTAGTAA 59.104 50.000 0.00 0.00 34.43 2.24
591 594 0.895530 AACGCCTCTGCTTGCTAGTA 59.104 50.000 0.00 0.00 34.43 1.82
592 595 0.895530 TAACGCCTCTGCTTGCTAGT 59.104 50.000 0.00 0.00 34.43 2.57
593 596 1.929836 CTTAACGCCTCTGCTTGCTAG 59.070 52.381 0.00 0.00 34.43 3.42
594 597 2.007049 GCTTAACGCCTCTGCTTGCTA 61.007 52.381 0.00 0.00 34.43 3.49
595 598 1.301677 GCTTAACGCCTCTGCTTGCT 61.302 55.000 0.00 0.00 34.43 3.91
596 599 1.135523 GCTTAACGCCTCTGCTTGC 59.864 57.895 0.00 0.00 34.43 4.01
597 600 0.445436 CTGCTTAACGCCTCTGCTTG 59.555 55.000 0.00 0.00 38.05 4.01
598 601 0.321671 TCTGCTTAACGCCTCTGCTT 59.678 50.000 0.00 0.00 38.05 3.91
599 602 0.108424 CTCTGCTTAACGCCTCTGCT 60.108 55.000 0.00 0.00 38.05 4.24
600 603 1.086634 CCTCTGCTTAACGCCTCTGC 61.087 60.000 0.00 0.00 38.05 4.26
601 604 1.086634 GCCTCTGCTTAACGCCTCTG 61.087 60.000 0.00 0.00 38.05 3.35
602 605 1.219393 GCCTCTGCTTAACGCCTCT 59.781 57.895 0.00 0.00 38.05 3.69
603 606 2.167861 CGCCTCTGCTTAACGCCTC 61.168 63.158 0.00 0.00 38.05 4.70
604 607 2.125512 CGCCTCTGCTTAACGCCT 60.126 61.111 0.00 0.00 38.05 5.52
605 608 0.738412 TAACGCCTCTGCTTAACGCC 60.738 55.000 0.00 0.00 38.05 5.68
606 609 1.073177 TTAACGCCTCTGCTTAACGC 58.927 50.000 0.00 0.00 39.77 4.84
607 610 2.927477 TCATTAACGCCTCTGCTTAACG 59.073 45.455 0.00 0.00 34.43 3.18
608 611 4.201822 CCTTCATTAACGCCTCTGCTTAAC 60.202 45.833 0.00 0.00 34.43 2.01
609 612 3.938963 CCTTCATTAACGCCTCTGCTTAA 59.061 43.478 0.00 0.00 34.43 1.85
610 613 3.531538 CCTTCATTAACGCCTCTGCTTA 58.468 45.455 0.00 0.00 34.43 3.09
611 614 2.359900 CCTTCATTAACGCCTCTGCTT 58.640 47.619 0.00 0.00 34.43 3.91
612 615 2.014068 GCCTTCATTAACGCCTCTGCT 61.014 52.381 0.00 0.00 34.43 4.24
613 616 0.378610 GCCTTCATTAACGCCTCTGC 59.621 55.000 0.00 0.00 0.00 4.26
614 617 2.029838 AGCCTTCATTAACGCCTCTG 57.970 50.000 0.00 0.00 0.00 3.35
615 618 2.500098 TGTAGCCTTCATTAACGCCTCT 59.500 45.455 0.00 0.00 0.00 3.69
616 619 2.866762 CTGTAGCCTTCATTAACGCCTC 59.133 50.000 0.00 0.00 0.00 4.70
617 620 2.906354 CTGTAGCCTTCATTAACGCCT 58.094 47.619 0.00 0.00 0.00 5.52
618 621 1.330829 GCTGTAGCCTTCATTAACGCC 59.669 52.381 0.00 0.00 34.31 5.68
619 622 2.280628 AGCTGTAGCCTTCATTAACGC 58.719 47.619 0.00 0.00 43.38 4.84
620 623 3.684788 ACAAGCTGTAGCCTTCATTAACG 59.315 43.478 0.00 0.00 43.38 3.18
621 624 4.938226 AGACAAGCTGTAGCCTTCATTAAC 59.062 41.667 0.00 0.00 43.38 2.01
622 625 5.165961 AGACAAGCTGTAGCCTTCATTAA 57.834 39.130 0.00 0.00 43.38 1.40
623 626 4.826274 AGACAAGCTGTAGCCTTCATTA 57.174 40.909 0.00 0.00 43.38 1.90
624 627 3.710209 AGACAAGCTGTAGCCTTCATT 57.290 42.857 0.00 0.00 43.38 2.57
625 628 4.026744 TCTAGACAAGCTGTAGCCTTCAT 58.973 43.478 0.00 0.00 43.38 2.57
626 629 3.193691 GTCTAGACAAGCTGTAGCCTTCA 59.806 47.826 18.20 0.00 43.38 3.02
713 716 2.769617 GTCGCACATCAACGTCGG 59.230 61.111 0.00 0.00 0.00 4.79
780 786 3.914426 AATCAAGATAAGGGCGACACT 57.086 42.857 0.00 0.00 0.00 3.55
795 801 7.156876 ACGCATTTCTCTCCATAAAAATCAA 57.843 32.000 0.00 0.00 0.00 2.57
962 977 0.338120 CCTCTTCCCCTCTCTCCTGT 59.662 60.000 0.00 0.00 0.00 4.00
967 982 2.260524 AGCCCCTCTTCCCCTCTCT 61.261 63.158 0.00 0.00 0.00 3.10
1121 1136 4.319766 CGTTGAAGATGAGGTTCTTGTTGG 60.320 45.833 0.00 0.00 36.10 3.77
1235 1251 3.814268 CAGCCCAAATCGGTGCGG 61.814 66.667 0.00 0.00 36.41 5.69
1256 1272 2.728435 GCGTACCTACCCCCACAGG 61.728 68.421 0.00 0.00 37.97 4.00
1257 1273 1.684734 AGCGTACCTACCCCCACAG 60.685 63.158 0.00 0.00 0.00 3.66
1258 1274 1.985662 CAGCGTACCTACCCCCACA 60.986 63.158 0.00 0.00 0.00 4.17
1259 1275 2.728435 CCAGCGTACCTACCCCCAC 61.728 68.421 0.00 0.00 0.00 4.61
1276 1292 1.270893 ACCTTCCTCTTTCGTGAAGCC 60.271 52.381 0.00 0.00 35.32 4.35
1279 1295 2.352421 CGCTACCTTCCTCTTTCGTGAA 60.352 50.000 0.00 0.00 0.00 3.18
1282 1301 0.108756 GCGCTACCTTCCTCTTTCGT 60.109 55.000 0.00 0.00 0.00 3.85
1283 1302 0.806492 GGCGCTACCTTCCTCTTTCG 60.806 60.000 7.64 0.00 34.51 3.46
1295 1314 1.206523 GACGGTTATCTTGGCGCTAC 58.793 55.000 7.64 0.00 0.00 3.58
1296 1315 0.248743 CGACGGTTATCTTGGCGCTA 60.249 55.000 7.64 0.00 0.00 4.26
1343 1369 1.441738 GCCCGCAGCAAAAATTCAAT 58.558 45.000 0.00 0.00 42.97 2.57
1360 1386 0.876342 CTAATCTCCAAGCCGACGCC 60.876 60.000 0.00 0.00 34.57 5.68
1365 1391 2.740981 GCATCATCTAATCTCCAAGCCG 59.259 50.000 0.00 0.00 0.00 5.52
1389 1452 7.093289 ACAAGTAATACAACCATGACTAGAGCT 60.093 37.037 0.00 0.00 0.00 4.09
1397 1460 9.508642 TTGTTATCACAAGTAATACAACCATGA 57.491 29.630 0.00 0.00 38.03 3.07
1401 1464 9.389570 GTTGTTGTTATCACAAGTAATACAACC 57.610 33.333 10.17 0.00 43.83 3.77
1407 1470 9.120538 ACAGAAGTTGTTGTTATCACAAGTAAT 57.879 29.630 0.00 0.00 43.83 1.89
1408 1471 8.500753 ACAGAAGTTGTTGTTATCACAAGTAA 57.499 30.769 0.00 0.00 43.83 2.24
1466 1533 8.785946 CCATTTTGTTCAGATTGGCTTAAATTT 58.214 29.630 0.00 0.00 0.00 1.82
1467 1534 8.156165 TCCATTTTGTTCAGATTGGCTTAAATT 58.844 29.630 0.00 0.00 0.00 1.82
1468 1535 7.603784 GTCCATTTTGTTCAGATTGGCTTAAAT 59.396 33.333 0.00 0.00 0.00 1.40
1548 1615 6.640907 GTGTGGTTGAAATTTGGAGTACAATC 59.359 38.462 0.00 0.00 39.21 2.67
1563 1630 2.675844 CTGACAGAAACGTGTGGTTGAA 59.324 45.455 0.00 0.00 39.30 2.69
1663 1738 0.404040 TCGGAGGCCTGGATGTTTTT 59.596 50.000 12.00 0.00 0.00 1.94
1676 1751 2.939103 CCTTCTGCAATTAACTCGGAGG 59.061 50.000 10.23 0.00 0.00 4.30
1680 1755 4.872691 ACATCTCCTTCTGCAATTAACTCG 59.127 41.667 0.00 0.00 0.00 4.18
1872 1955 9.349713 GGATGAACCTGTAATATCCAACATTAA 57.650 33.333 0.00 0.00 37.75 1.40
1899 1982 9.950680 ATAATAAAGCCAATCAACATAAGAACG 57.049 29.630 0.00 0.00 0.00 3.95
1959 2043 1.308998 AACCACGAGGCAGAAAAGTG 58.691 50.000 0.00 0.00 39.06 3.16
1969 2053 4.926832 ACAAACAAAAGAAAAACCACGAGG 59.073 37.500 0.00 0.00 42.21 4.63
1997 2081 4.888326 ATAGCTGCCAAAATGGACAAAA 57.112 36.364 0.00 0.00 40.96 2.44
2064 2148 6.070596 TCGCATGGAGTATTAGATGGATCAAT 60.071 38.462 0.00 0.00 0.00 2.57
2130 2214 7.359765 GCAATTCCAGTTTCATTGTGATTCTTG 60.360 37.037 0.00 0.00 31.60 3.02
2157 2241 5.705441 CCAAGAATGCAGACTGTAAAGGTTA 59.295 40.000 3.99 0.00 0.00 2.85
2275 2359 8.087750 ACGTAAAACCAATGTGATCAAATGAAT 58.912 29.630 0.00 0.00 0.00 2.57
2314 2398 9.668497 GGACTCATAAAAGGTTAGAAACTACAT 57.332 33.333 0.00 0.00 0.00 2.29
2323 2408 4.567159 GTCAGCGGACTCATAAAAGGTTAG 59.433 45.833 9.95 0.00 40.99 2.34
2424 2509 5.628130 TCCATAGTCTTACCTATGCGTACT 58.372 41.667 3.25 0.00 41.88 2.73
2498 2583 5.754782 ACAAGCATGAAGTATATGGGTCAA 58.245 37.500 0.00 0.00 0.00 3.18
2547 2632 3.829601 ACTAATCCATTTTTCCGCAACCA 59.170 39.130 0.00 0.00 0.00 3.67
2551 2636 6.404293 GCTCTAAACTAATCCATTTTTCCGCA 60.404 38.462 0.00 0.00 0.00 5.69
2567 2652 4.760530 TGGTATGCATCAGCTCTAAACT 57.239 40.909 0.19 0.00 42.74 2.66
2585 2670 4.479158 TGGCCTTCAACTATTTCTTTGGT 58.521 39.130 3.32 0.00 0.00 3.67
2589 2674 6.976934 TTCTTTGGCCTTCAACTATTTCTT 57.023 33.333 3.32 0.00 34.67 2.52
2591 2676 6.528072 CGAATTCTTTGGCCTTCAACTATTTC 59.472 38.462 3.32 0.00 34.67 2.17
2592 2677 6.208599 TCGAATTCTTTGGCCTTCAACTATTT 59.791 34.615 3.32 0.00 34.67 1.40
2593 2678 5.710099 TCGAATTCTTTGGCCTTCAACTATT 59.290 36.000 3.32 0.00 34.67 1.73
2604 2710 9.709600 TTAAAACAATTTTTCGAATTCTTTGGC 57.290 25.926 0.00 0.00 36.32 4.52
2624 2730 8.579682 AGCACTCATCAAAACTCAATTAAAAC 57.420 30.769 0.00 0.00 0.00 2.43
2642 2748 4.829064 AACGCAAATTAAAGAGCACTCA 57.171 36.364 0.00 0.00 0.00 3.41
2643 2749 6.249260 CACATAACGCAAATTAAAGAGCACTC 59.751 38.462 0.00 0.00 0.00 3.51
2664 2770 5.178096 TCCAAATATCCACTGTGACACAT 57.822 39.130 9.11 0.00 0.00 3.21
2665 2771 4.632327 TCCAAATATCCACTGTGACACA 57.368 40.909 9.86 8.26 0.00 3.72
2666 2772 5.882557 AGAATCCAAATATCCACTGTGACAC 59.117 40.000 9.86 0.00 0.00 3.67
2669 2775 5.887598 CCAAGAATCCAAATATCCACTGTGA 59.112 40.000 9.86 0.00 0.00 3.58
2751 2857 5.475719 TGTAAACGAAGATCCCAAGTAGTG 58.524 41.667 0.00 0.00 0.00 2.74
2911 3017 1.065401 GCAACAGCAGCTACAACAACA 59.935 47.619 0.00 0.00 0.00 3.33
2932 3038 1.593787 CTCTTCAAGGCGAGCTGGA 59.406 57.895 0.00 0.00 0.00 3.86
3002 3113 9.593134 AGCAAACTTTGTGAATTTTTGTGTATA 57.407 25.926 3.48 0.00 0.00 1.47
3010 3121 5.812127 GGTGAGAGCAAACTTTGTGAATTTT 59.188 36.000 3.48 0.00 0.00 1.82
3128 3242 6.204882 GGAAGAACAATATGTACCTGTATGGC 59.795 42.308 0.00 0.00 40.22 4.40
3129 3243 7.279615 TGGAAGAACAATATGTACCTGTATGG 58.720 38.462 0.00 0.00 42.93 2.74
3130 3244 8.777413 CATGGAAGAACAATATGTACCTGTATG 58.223 37.037 0.00 0.00 0.00 2.39
3131 3245 8.494433 ACATGGAAGAACAATATGTACCTGTAT 58.506 33.333 0.00 0.00 30.79 2.29
3132 3246 7.857456 ACATGGAAGAACAATATGTACCTGTA 58.143 34.615 0.00 0.00 30.79 2.74
3133 3247 6.721318 ACATGGAAGAACAATATGTACCTGT 58.279 36.000 0.00 0.00 30.79 4.00
3134 3248 8.908786 ATACATGGAAGAACAATATGTACCTG 57.091 34.615 0.00 0.00 37.14 4.00
3135 3249 8.713971 TGATACATGGAAGAACAATATGTACCT 58.286 33.333 0.00 0.00 37.14 3.08
3136 3250 8.902540 TGATACATGGAAGAACAATATGTACC 57.097 34.615 0.00 0.00 37.14 3.34
3169 3284 7.959689 ATAGCTGCTTACATAGATGTTTCAG 57.040 36.000 7.79 7.16 41.97 3.02
3326 3441 7.912719 AGGAAACTAAGTAGCATCTCTCTTTT 58.087 34.615 0.00 0.00 40.61 2.27
3364 3479 6.500684 ACATTACCATGAGCAAACAAGTAG 57.499 37.500 0.00 0.00 34.11 2.57
3435 5060 5.897250 TCCTAATCTGTAGCTATGTGGTGAA 59.103 40.000 0.00 0.00 0.00 3.18
3464 5089 6.656902 TGATCTAGCTGTTTCTTGATTGGAT 58.343 36.000 0.00 0.00 30.71 3.41
3488 5158 3.566742 GTGAAATTTGTCCCGTACCACTT 59.433 43.478 0.00 0.00 0.00 3.16
3540 5210 7.770897 ACCGTAAATGCTGAGATTTCTAAGATT 59.229 33.333 0.00 0.00 0.00 2.40
3564 5235 2.349155 CGACTTGCGGTTAGTTTTCACC 60.349 50.000 0.00 0.00 36.03 4.02
3606 5277 0.668401 GTCAATTGGTGCTTGCAGCC 60.668 55.000 19.91 13.01 41.51 4.85
3609 5280 1.659233 CCGTCAATTGGTGCTTGCA 59.341 52.632 5.42 0.00 0.00 4.08
3694 5366 1.134699 TCGATTGATGGGTGAGACTGC 60.135 52.381 0.00 0.00 0.00 4.40
3707 5379 2.031037 GCAGTTTTGCGTTCGATTGA 57.969 45.000 0.00 0.00 41.13 2.57
3761 5436 9.500785 CCCATATGTTGTGTGTTGATATGTATA 57.499 33.333 1.24 0.00 0.00 1.47
3762 5437 7.998383 ACCCATATGTTGTGTGTTGATATGTAT 59.002 33.333 1.24 0.00 0.00 2.29
3781 5491 5.913137 TTTGCGATTCTTTTGACCCATAT 57.087 34.783 0.00 0.00 0.00 1.78
3830 5541 2.011222 TGTTCGTGTCTTTGTGGGTTC 58.989 47.619 0.00 0.00 0.00 3.62
3838 5549 2.167693 TGACCAGACTGTTCGTGTCTTT 59.832 45.455 0.93 0.00 42.21 2.52
3857 5568 0.381445 TCCGTCGTTCGTTTGAGTGA 59.619 50.000 0.00 0.00 37.94 3.41
3891 5602 5.613329 ACTGCATCATTTGTGGATGTTTTT 58.387 33.333 0.00 0.00 43.17 1.94
3924 5635 2.729360 GCGTTGGGTTTGTTTGCTAATC 59.271 45.455 0.00 0.00 0.00 1.75
3932 5643 2.359848 GGAGTTAAGCGTTGGGTTTGTT 59.640 45.455 0.00 0.00 35.15 2.83
3934 5645 1.268625 GGGAGTTAAGCGTTGGGTTTG 59.731 52.381 0.00 0.00 35.15 2.93
3938 5649 0.676782 CCAGGGAGTTAAGCGTTGGG 60.677 60.000 0.00 0.00 0.00 4.12
3939 5650 1.305930 GCCAGGGAGTTAAGCGTTGG 61.306 60.000 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.