Multiple sequence alignment - TraesCS2A01G542000

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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 TraesCS2A01G542000 chr2A 100.000 2517 0 0 1 2517 753000355 752997839 0.000000e+00 4649.0
1 TraesCS2A01G542000 chr2A 86.593 992 113 16 742 1720 752977479 752976495 0.000000e+00 1077.0
2 TraesCS2A01G542000 chr2A 92.643 734 32 6 1788 2517 753006424 753005709 0.000000e+00 1037.0
3 TraesCS2A01G542000 chr2A 86.010 965 121 12 758 1720 753053427 753052475 0.000000e+00 1022.0
4 TraesCS2A01G542000 chr2A 88.785 535 42 3 1788 2304 753060715 753060181 7.590000e-180 640.0
5 TraesCS2A01G542000 chr2A 89.053 475 40 7 212 682 753047613 753047147 1.680000e-161 579.0
6 TraesCS2A01G542000 chr2A 91.241 137 11 1 2165 2301 753044433 753044298 4.280000e-43 185.0
7 TraesCS2A01G542000 chr2A 91.525 59 3 2 647 703 753017574 753017632 2.080000e-11 80.5
8 TraesCS2A01G542000 chr2B 87.652 988 106 13 742 1720 762063400 762062420 0.000000e+00 1134.0
9 TraesCS2A01G542000 chr2B 87.203 969 105 15 758 1720 762071986 762071031 0.000000e+00 1085.0
10 TraesCS2A01G542000 chr2B 90.074 544 42 7 223 761 762066269 762065733 0.000000e+00 695.0
11 TraesCS2A01G542000 chr2B 87.906 554 54 7 1773 2314 762073460 762072908 7.590000e-180 640.0
12 TraesCS2A01G542000 chr2B 87.097 124 16 0 2351 2474 762072915 762072792 9.390000e-30 141.0
13 TraesCS2A01G542000 chrUn 87.551 988 107 13 742 1720 314618666 314617686 0.000000e+00 1129.0
14 TraesCS2A01G542000 chrUn 86.997 969 107 15 758 1720 342645039 342644084 0.000000e+00 1074.0
15 TraesCS2A01G542000 chrUn 89.381 565 43 10 203 761 307393706 307394259 0.000000e+00 695.0
16 TraesCS2A01G542000 chrUn 87.906 554 54 7 1773 2314 388950667 388950115 7.590000e-180 640.0
17 TraesCS2A01G542000 chrUn 85.547 512 35 20 1788 2282 23361477 23361966 1.340000e-137 499.0
18 TraesCS2A01G542000 chrUn 87.857 140 12 2 2166 2301 307395110 307395248 2.590000e-35 159.0
19 TraesCS2A01G542000 chrUn 90.756 119 9 1 2401 2517 23362199 23362317 9.320000e-35 158.0
20 TraesCS2A01G542000 chrUn 90.756 119 9 1 2401 2517 329050935 329050817 9.320000e-35 158.0
21 TraesCS2A01G542000 chr2D 87.348 988 109 13 742 1720 621129780 621128800 0.000000e+00 1118.0
22 TraesCS2A01G542000 chr2D 87.305 961 99 17 761 1714 621265656 621264712 0.000000e+00 1077.0
23 TraesCS2A01G542000 chr2D 86.957 943 108 13 780 1720 621140962 621140033 0.000000e+00 1046.0
24 TraesCS2A01G542000 chr2D 94.630 540 27 2 1788 2325 621315427 621314888 0.000000e+00 835.0
25 TraesCS2A01G542000 chr2D 88.774 579 52 7 1 573 621132827 621132256 0.000000e+00 697.0
26 TraesCS2A01G542000 chr2D 89.899 396 37 3 1923 2316 621151818 621151424 8.030000e-140 507.0
27 TraesCS2A01G542000 chr2D 86.617 269 20 7 1772 2024 621267334 621267066 1.470000e-72 283.0
28 TraesCS2A01G542000 chr2D 94.675 169 8 1 2349 2517 621314906 621314739 6.910000e-66 261.0
29 TraesCS2A01G542000 chr2D 88.776 196 16 3 571 761 621132153 621131959 4.190000e-58 235.0
30 TraesCS2A01G542000 chr2D 89.349 169 17 1 2349 2517 621151434 621151267 7.050000e-51 211.0
31 TraesCS2A01G542000 chr2D 90.714 140 12 1 2165 2304 621131290 621131152 4.280000e-43 185.0
32 TraesCS2A01G542000 chr2D 90.756 119 9 1 2401 2517 621131118 621131000 9.320000e-35 158.0
33 TraesCS2A01G542000 chr2D 90.265 113 9 2 2407 2517 621266859 621266747 2.020000e-31 147.0
34 TraesCS2A01G542000 chr6D 96.364 55 2 0 1719 1773 15719782 15719836 9.590000e-15 91.6
35 TraesCS2A01G542000 chr7D 96.226 53 2 0 1722 1774 276935006 276934954 1.240000e-13 87.9
36 TraesCS2A01G542000 chr1D 96.226 53 2 0 1721 1773 428167783 428167731 1.240000e-13 87.9
37 TraesCS2A01G542000 chr6B 94.340 53 3 0 1722 1774 48528768 48528716 5.770000e-12 82.4
38 TraesCS2A01G542000 chr7B 94.231 52 3 0 1721 1772 254836129 254836078 2.080000e-11 80.5
39 TraesCS2A01G542000 chr7A 95.745 47 2 0 1721 1767 310590633 310590587 2.680000e-10 76.8
40 TraesCS2A01G542000 chr7A 90.741 54 5 0 1721 1774 310585693 310585640 3.470000e-09 73.1
41 TraesCS2A01G542000 chr1A 91.071 56 4 1 1718 1773 104820830 104820884 9.660000e-10 75.0
42 TraesCS2A01G542000 chr3D 90.566 53 5 0 1721 1773 380955958 380956010 1.250000e-08 71.3


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 TraesCS2A01G542000 chr2A 752997839 753000355 2516 True 4649.000000 4649 100.000000 1 2517 1 chr2A.!!$R2 2516
1 TraesCS2A01G542000 chr2A 752976495 752977479 984 True 1077.000000 1077 86.593000 742 1720 1 chr2A.!!$R1 978
2 TraesCS2A01G542000 chr2A 753005709 753006424 715 True 1037.000000 1037 92.643000 1788 2517 1 chr2A.!!$R3 729
3 TraesCS2A01G542000 chr2A 753052475 753053427 952 True 1022.000000 1022 86.010000 758 1720 1 chr2A.!!$R4 962
4 TraesCS2A01G542000 chr2A 753060181 753060715 534 True 640.000000 640 88.785000 1788 2304 1 chr2A.!!$R5 516
5 TraesCS2A01G542000 chr2A 753044298 753047613 3315 True 382.000000 579 90.147000 212 2301 2 chr2A.!!$R6 2089
6 TraesCS2A01G542000 chr2B 762062420 762066269 3849 True 914.500000 1134 88.863000 223 1720 2 chr2B.!!$R1 1497
7 TraesCS2A01G542000 chr2B 762071031 762073460 2429 True 622.000000 1085 87.402000 758 2474 3 chr2B.!!$R2 1716
8 TraesCS2A01G542000 chrUn 314617686 314618666 980 True 1129.000000 1129 87.551000 742 1720 1 chrUn.!!$R1 978
9 TraesCS2A01G542000 chrUn 342644084 342645039 955 True 1074.000000 1074 86.997000 758 1720 1 chrUn.!!$R3 962
10 TraesCS2A01G542000 chrUn 388950115 388950667 552 True 640.000000 640 87.906000 1773 2314 1 chrUn.!!$R4 541
11 TraesCS2A01G542000 chrUn 307393706 307395248 1542 False 427.000000 695 88.619000 203 2301 2 chrUn.!!$F2 2098
12 TraesCS2A01G542000 chrUn 23361477 23362317 840 False 328.500000 499 88.151500 1788 2517 2 chrUn.!!$F1 729
13 TraesCS2A01G542000 chr2D 621140033 621140962 929 True 1046.000000 1046 86.957000 780 1720 1 chr2D.!!$R1 940
14 TraesCS2A01G542000 chr2D 621314739 621315427 688 True 548.000000 835 94.652500 1788 2517 2 chr2D.!!$R5 729
15 TraesCS2A01G542000 chr2D 621264712 621267334 2622 True 502.333333 1077 88.062333 761 2517 3 chr2D.!!$R4 1756
16 TraesCS2A01G542000 chr2D 621128800 621132827 4027 True 478.600000 1118 89.273600 1 2517 5 chr2D.!!$R2 2516
17 TraesCS2A01G542000 chr2D 621151267 621151818 551 True 359.000000 507 89.624000 1923 2517 2 chr2D.!!$R3 594

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
810 5261 0.110486 AGTCCAAAATCCAGGCACGT 59.89 50.0 0.0 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2405 7105 0.109597 GGCTCAATTGCACGGTTCAG 60.11 55.0 0.0 0.0 34.04 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
39 40 3.113260 AGGCTCGCCTCACATTAATAC 57.887 47.619 4.23 0.00 44.43 1.89
44 45 5.526111 GGCTCGCCTCACATTAATACTTTTA 59.474 40.000 0.00 0.00 0.00 1.52
56 57 1.814793 TACTTTTAGCGCATGCACCA 58.185 45.000 19.57 0.00 46.23 4.17
59 60 0.670706 TTTTAGCGCATGCACCACAA 59.329 45.000 19.57 1.32 46.23 3.33
61 62 0.887247 TTAGCGCATGCACCACAAAT 59.113 45.000 19.57 0.00 46.23 2.32
73 74 5.295950 TGCACCACAAATAGTTTCAAATGG 58.704 37.500 0.00 0.00 0.00 3.16
154 156 5.617252 TCGTTTTCATCAAAACTAGTCCCT 58.383 37.500 3.37 0.00 46.42 4.20
162 164 0.974383 AAACTAGTCCCTGTCACCGG 59.026 55.000 0.00 0.00 0.00 5.28
167 169 2.118732 TCCCTGTCACCGGCACTA 59.881 61.111 0.00 0.00 0.00 2.74
265 267 7.792374 TTACAATCTAGGATGATGCAAAGTC 57.208 36.000 0.00 0.00 0.00 3.01
286 288 3.189080 TCAGTCATTTGTTCCGCTGAATG 59.811 43.478 0.00 0.00 35.62 2.67
291 293 1.588674 TTGTTCCGCTGAATGTTCGT 58.411 45.000 0.00 0.00 31.98 3.85
299 301 1.522668 CTGAATGTTCGTGGGCTGAA 58.477 50.000 0.00 0.00 0.00 3.02
300 302 2.086869 CTGAATGTTCGTGGGCTGAAT 58.913 47.619 0.00 0.00 0.00 2.57
324 330 7.357429 TGCCAATTTCCCAATTTCAAATTTT 57.643 28.000 0.00 0.00 29.41 1.82
359 365 6.594159 TGGTACTAAAGCATTACTTCTTGAGC 59.406 38.462 0.00 0.00 37.75 4.26
369 375 7.555554 AGCATTACTTCTTGAGCTTAATGTCAT 59.444 33.333 11.68 0.00 0.00 3.06
370 376 8.830580 GCATTACTTCTTGAGCTTAATGTCATA 58.169 33.333 11.68 0.00 0.00 2.15
372 378 8.948631 TTACTTCTTGAGCTTAATGTCATAGG 57.051 34.615 0.00 0.00 0.00 2.57
373 379 7.187824 ACTTCTTGAGCTTAATGTCATAGGA 57.812 36.000 0.00 0.00 0.00 2.94
374 380 7.271511 ACTTCTTGAGCTTAATGTCATAGGAG 58.728 38.462 0.00 0.00 0.00 3.69
375 381 6.798427 TCTTGAGCTTAATGTCATAGGAGT 57.202 37.500 0.00 0.00 0.00 3.85
425 431 7.554835 TGCTTTTAGGAGAGTTGTTACTTTTGA 59.445 33.333 0.00 0.00 33.84 2.69
525 531 8.017946 GCTGACAATTTTAACAGAGGAAGTTAG 58.982 37.037 0.00 0.00 33.44 2.34
577 689 1.471676 GGGCAGTTGGATCTACGTCAG 60.472 57.143 0.00 0.00 0.00 3.51
588 700 4.338682 GGATCTACGTCAGAAGGTATGTGT 59.661 45.833 0.00 0.00 36.67 3.72
595 708 3.058224 GTCAGAAGGTATGTGTTTGTGGC 60.058 47.826 0.00 0.00 0.00 5.01
602 715 4.019321 AGGTATGTGTTTGTGGCAGTCTAT 60.019 41.667 0.00 0.00 0.00 1.98
603 716 4.094887 GGTATGTGTTTGTGGCAGTCTATG 59.905 45.833 0.00 0.00 0.00 2.23
605 718 3.138304 TGTGTTTGTGGCAGTCTATGTC 58.862 45.455 0.00 0.00 0.00 3.06
620 733 5.952347 AGTCTATGTCATGTCTTGTAGACCA 59.048 40.000 17.62 0.00 44.44 4.02
625 738 2.888414 TCATGTCTTGTAGACCACGTCA 59.112 45.455 4.52 0.00 44.44 4.35
651 764 4.215109 CTGGAGGAAAAGGAAAGGAAACA 58.785 43.478 0.00 0.00 0.00 2.83
659 772 5.394224 AAAGGAAAGGAAACACGTGAAAA 57.606 34.783 25.01 0.00 0.00 2.29
721 2614 7.965107 TGTTCAGTCGATCGATGATTATCATAG 59.035 37.037 22.50 8.27 37.20 2.23
734 2631 7.818997 TGATTATCATAGACTCCTACGTGTT 57.181 36.000 0.00 0.00 0.00 3.32
751 2648 5.790593 ACGTGTTTGAGTATGACCAAGTAT 58.209 37.500 0.00 0.00 0.00 2.12
761 2658 4.844349 ATGACCAAGTATGTACCAGCTT 57.156 40.909 0.00 0.00 0.00 3.74
762 2659 3.937814 TGACCAAGTATGTACCAGCTTG 58.062 45.455 11.22 11.22 38.33 4.01
763 2660 2.678336 GACCAAGTATGTACCAGCTTGC 59.322 50.000 12.20 0.00 37.56 4.01
806 5257 4.248058 CATTCAAAGTCCAAAATCCAGGC 58.752 43.478 0.00 0.00 0.00 4.85
809 5260 1.247567 AAGTCCAAAATCCAGGCACG 58.752 50.000 0.00 0.00 0.00 5.34
810 5261 0.110486 AGTCCAAAATCCAGGCACGT 59.890 50.000 0.00 0.00 0.00 4.49
812 5263 1.467342 GTCCAAAATCCAGGCACGTAC 59.533 52.381 0.00 0.00 0.00 3.67
813 5264 0.446222 CCAAAATCCAGGCACGTACG 59.554 55.000 15.01 15.01 0.00 3.67
816 5267 3.191669 CAAAATCCAGGCACGTACGATA 58.808 45.455 24.41 0.00 0.00 2.92
817 5268 3.530265 AAATCCAGGCACGTACGATAA 57.470 42.857 24.41 0.02 0.00 1.75
818 5269 3.746045 AATCCAGGCACGTACGATAAT 57.254 42.857 24.41 1.90 0.00 1.28
820 5271 3.909776 TCCAGGCACGTACGATAATAG 57.090 47.619 24.41 6.50 0.00 1.73
823 5274 3.562505 CAGGCACGTACGATAATAGTCC 58.437 50.000 24.41 9.96 0.00 3.85
840 5291 2.291043 CCAGGCTTCCACCTACCGT 61.291 63.158 0.00 0.00 38.26 4.83
949 5415 2.416547 CGCTCAAGGACCAATACAACAG 59.583 50.000 0.00 0.00 0.00 3.16
1017 5490 0.957395 CAATGGCTGCCACGAGAACT 60.957 55.000 25.99 2.60 35.80 3.01
1021 5494 1.003118 TGGCTGCCACGAGAACTATTT 59.997 47.619 19.30 0.00 0.00 1.40
1029 5502 4.320202 GCCACGAGAACTATTTTTCTTGCA 60.320 41.667 0.00 0.00 39.72 4.08
1083 5556 1.366111 CGGCAATCTACAACGTGGGG 61.366 60.000 0.00 0.00 0.00 4.96
1084 5557 1.654023 GGCAATCTACAACGTGGGGC 61.654 60.000 0.00 0.00 0.00 5.80
1125 5598 1.596752 CAGCACCAACTACGGCACA 60.597 57.895 0.00 0.00 0.00 4.57
1139 5612 2.350895 CACATGGGCGTCCTCCAA 59.649 61.111 7.97 0.00 37.87 3.53
1155 5628 3.897505 CCTCCAAGAACTTCCAAACCAAT 59.102 43.478 0.00 0.00 0.00 3.16
1223 5696 1.208052 GGTCAGCAAGGCAGACTATGA 59.792 52.381 12.43 0.00 43.09 2.15
1264 5737 1.417890 CCTGTCACCACCTTCAACTCT 59.582 52.381 0.00 0.00 0.00 3.24
1327 5800 1.002134 CATCTGCGGTTTCCCTGGT 60.002 57.895 0.00 0.00 0.00 4.00
1336 5809 1.074775 TTTCCCTGGTCATTGCGCT 59.925 52.632 9.73 0.00 0.00 5.92
1351 5824 3.064324 GCTGGCGGCATGAAGGTT 61.064 61.111 13.85 0.00 41.35 3.50
1357 5830 2.024414 GGCGGCATGAAGGTTAAGATT 58.976 47.619 3.07 0.00 0.00 2.40
1382 5858 0.762082 CATGCCAGGCTCCTCCTCTA 60.762 60.000 14.15 0.00 45.52 2.43
1424 5900 0.517316 CCCAAGTGCAAGTAACGCTC 59.483 55.000 0.00 0.00 0.00 5.03
1444 5920 3.374402 CCGCGGACACCTGTCTCT 61.374 66.667 24.07 0.00 44.20 3.10
1450 5926 1.375268 GACACCTGTCTCTGCTGCC 60.375 63.158 0.00 0.00 41.65 4.85
1467 5943 3.443045 CACCAATGTGGAGGCCGC 61.443 66.667 0.00 0.00 40.96 6.53
1492 5968 4.404654 GGCCTCGCCGTTTTGCTG 62.405 66.667 0.00 0.00 39.62 4.41
1500 5976 2.411290 CGTTTTGCTGGCCGTTGT 59.589 55.556 0.00 0.00 0.00 3.32
1526 6002 0.390866 CGTGGCTTGAGTGCATCTCT 60.391 55.000 14.60 0.00 43.13 3.10
1528 6004 0.689055 TGGCTTGAGTGCATCTCTGT 59.311 50.000 14.60 0.00 43.13 3.41
1531 6007 2.167281 GGCTTGAGTGCATCTCTGTAGA 59.833 50.000 14.60 0.00 43.13 2.59
1549 6025 1.086696 GACGCAGGCACATGTGTATT 58.913 50.000 26.01 10.01 43.68 1.89
1554 6030 4.037021 CGCAGGCACATGTGTATTTTATG 58.963 43.478 26.01 14.66 0.00 1.90
1555 6031 4.438608 CGCAGGCACATGTGTATTTTATGT 60.439 41.667 26.01 0.00 35.56 2.29
1556 6032 5.220758 CGCAGGCACATGTGTATTTTATGTA 60.221 40.000 26.01 0.00 33.57 2.29
1557 6033 6.201517 GCAGGCACATGTGTATTTTATGTAG 58.798 40.000 26.01 5.68 33.57 2.74
1558 6034 6.038161 GCAGGCACATGTGTATTTTATGTAGA 59.962 38.462 26.01 0.00 33.57 2.59
1559 6035 7.255242 GCAGGCACATGTGTATTTTATGTAGAT 60.255 37.037 26.01 0.00 33.57 1.98
1560 6036 8.623903 CAGGCACATGTGTATTTTATGTAGATT 58.376 33.333 26.01 0.00 33.57 2.40
1561 6037 8.840321 AGGCACATGTGTATTTTATGTAGATTC 58.160 33.333 26.01 3.90 33.57 2.52
1562 6038 8.620416 GGCACATGTGTATTTTATGTAGATTCA 58.380 33.333 26.01 0.00 33.57 2.57
1609 6086 7.320399 TCTGTGTGTATGGTCAAGTAGTTATG 58.680 38.462 0.00 0.00 0.00 1.90
1610 6087 6.999950 TGTGTGTATGGTCAAGTAGTTATGT 58.000 36.000 0.00 0.00 0.00 2.29
1611 6088 6.871492 TGTGTGTATGGTCAAGTAGTTATGTG 59.129 38.462 0.00 0.00 0.00 3.21
1612 6089 6.872020 GTGTGTATGGTCAAGTAGTTATGTGT 59.128 38.462 0.00 0.00 0.00 3.72
1613 6090 8.030692 GTGTGTATGGTCAAGTAGTTATGTGTA 58.969 37.037 0.00 0.00 0.00 2.90
1614 6091 8.755028 TGTGTATGGTCAAGTAGTTATGTGTAT 58.245 33.333 0.00 0.00 0.00 2.29
1615 6092 9.031360 GTGTATGGTCAAGTAGTTATGTGTATG 57.969 37.037 0.00 0.00 0.00 2.39
1616 6093 8.755028 TGTATGGTCAAGTAGTTATGTGTATGT 58.245 33.333 0.00 0.00 0.00 2.29
1617 6094 9.595823 GTATGGTCAAGTAGTTATGTGTATGTT 57.404 33.333 0.00 0.00 0.00 2.71
1618 6095 7.899178 TGGTCAAGTAGTTATGTGTATGTTG 57.101 36.000 0.00 0.00 0.00 3.33
1619 6096 6.876789 TGGTCAAGTAGTTATGTGTATGTTGG 59.123 38.462 0.00 0.00 0.00 3.77
1620 6097 7.101054 GGTCAAGTAGTTATGTGTATGTTGGA 58.899 38.462 0.00 0.00 0.00 3.53
1621 6098 7.064253 GGTCAAGTAGTTATGTGTATGTTGGAC 59.936 40.741 0.00 0.00 0.00 4.02
1622 6099 6.809689 TCAAGTAGTTATGTGTATGTTGGACG 59.190 38.462 0.00 0.00 0.00 4.79
1623 6100 6.276832 AGTAGTTATGTGTATGTTGGACGT 57.723 37.500 0.00 0.00 0.00 4.34
1624 6101 7.395190 AGTAGTTATGTGTATGTTGGACGTA 57.605 36.000 0.00 0.00 0.00 3.57
1625 6102 8.004087 AGTAGTTATGTGTATGTTGGACGTAT 57.996 34.615 0.00 0.00 0.00 3.06
1626 6103 8.472413 AGTAGTTATGTGTATGTTGGACGTATT 58.528 33.333 0.00 0.00 0.00 1.89
1627 6104 7.766219 AGTTATGTGTATGTTGGACGTATTC 57.234 36.000 0.00 0.00 0.00 1.75
1628 6105 6.474427 AGTTATGTGTATGTTGGACGTATTCG 59.526 38.462 0.00 0.00 43.34 3.34
1629 6106 3.513662 TGTGTATGTTGGACGTATTCGG 58.486 45.455 0.00 0.00 41.85 4.30
1630 6107 2.861935 GTGTATGTTGGACGTATTCGGG 59.138 50.000 0.00 0.00 41.85 5.14
1631 6108 1.862827 GTATGTTGGACGTATTCGGGC 59.137 52.381 0.00 0.00 41.85 6.13
1632 6109 0.539986 ATGTTGGACGTATTCGGGCT 59.460 50.000 0.00 0.00 41.85 5.19
1633 6110 0.322322 TGTTGGACGTATTCGGGCTT 59.678 50.000 0.00 0.00 41.85 4.35
1634 6111 1.270947 TGTTGGACGTATTCGGGCTTT 60.271 47.619 0.00 0.00 41.85 3.51
1635 6112 1.129811 GTTGGACGTATTCGGGCTTTG 59.870 52.381 0.00 0.00 41.85 2.77
1636 6113 0.322322 TGGACGTATTCGGGCTTTGT 59.678 50.000 0.00 0.00 41.85 2.83
1637 6114 0.725117 GGACGTATTCGGGCTTTGTG 59.275 55.000 0.00 0.00 41.85 3.33
1638 6115 1.435577 GACGTATTCGGGCTTTGTGT 58.564 50.000 0.00 0.00 41.85 3.72
1639 6116 2.609350 GACGTATTCGGGCTTTGTGTA 58.391 47.619 0.00 0.00 41.85 2.90
1640 6117 3.192466 GACGTATTCGGGCTTTGTGTAT 58.808 45.455 0.00 0.00 41.85 2.29
1641 6118 3.602483 ACGTATTCGGGCTTTGTGTATT 58.398 40.909 0.00 0.00 41.85 1.89
1642 6119 3.372822 ACGTATTCGGGCTTTGTGTATTG 59.627 43.478 0.00 0.00 41.85 1.90
1643 6120 2.939460 ATTCGGGCTTTGTGTATTGC 57.061 45.000 0.00 0.00 0.00 3.56
1644 6121 1.904287 TTCGGGCTTTGTGTATTGCT 58.096 45.000 0.00 0.00 0.00 3.91
1645 6122 1.164411 TCGGGCTTTGTGTATTGCTG 58.836 50.000 0.00 0.00 0.00 4.41
1646 6123 1.164411 CGGGCTTTGTGTATTGCTGA 58.836 50.000 0.00 0.00 0.00 4.26
1647 6124 1.745087 CGGGCTTTGTGTATTGCTGAT 59.255 47.619 0.00 0.00 0.00 2.90
1648 6125 2.164219 CGGGCTTTGTGTATTGCTGATT 59.836 45.455 0.00 0.00 0.00 2.57
1649 6126 3.731867 CGGGCTTTGTGTATTGCTGATTC 60.732 47.826 0.00 0.00 0.00 2.52
1650 6127 3.193267 GGGCTTTGTGTATTGCTGATTCA 59.807 43.478 0.00 0.00 0.00 2.57
1651 6128 4.142093 GGGCTTTGTGTATTGCTGATTCAT 60.142 41.667 0.00 0.00 0.00 2.57
1652 6129 5.413499 GGCTTTGTGTATTGCTGATTCATT 58.587 37.500 0.00 0.00 0.00 2.57
1653 6130 5.870978 GGCTTTGTGTATTGCTGATTCATTT 59.129 36.000 0.00 0.00 0.00 2.32
1654 6131 6.369615 GGCTTTGTGTATTGCTGATTCATTTT 59.630 34.615 0.00 0.00 0.00 1.82
1655 6132 7.231607 GCTTTGTGTATTGCTGATTCATTTTG 58.768 34.615 0.00 0.00 0.00 2.44
1656 6133 7.622672 GCTTTGTGTATTGCTGATTCATTTTGG 60.623 37.037 0.00 0.00 0.00 3.28
1657 6134 6.587206 TGTGTATTGCTGATTCATTTTGGA 57.413 33.333 0.00 0.00 0.00 3.53
1658 6135 6.623486 TGTGTATTGCTGATTCATTTTGGAG 58.377 36.000 0.00 0.00 0.00 3.86
1659 6136 6.038356 GTGTATTGCTGATTCATTTTGGAGG 58.962 40.000 0.00 0.00 0.00 4.30
1660 6137 5.951148 TGTATTGCTGATTCATTTTGGAGGA 59.049 36.000 0.00 0.00 0.00 3.71
1661 6138 6.608405 TGTATTGCTGATTCATTTTGGAGGAT 59.392 34.615 0.00 0.00 0.00 3.24
1662 6139 6.555463 ATTGCTGATTCATTTTGGAGGATT 57.445 33.333 0.00 0.00 0.00 3.01
1663 6140 6.363167 TTGCTGATTCATTTTGGAGGATTT 57.637 33.333 0.00 0.00 0.00 2.17
1664 6141 7.479352 TTGCTGATTCATTTTGGAGGATTTA 57.521 32.000 0.00 0.00 0.00 1.40
1665 6142 7.664552 TGCTGATTCATTTTGGAGGATTTAT 57.335 32.000 0.00 0.00 0.00 1.40
1666 6143 8.081517 TGCTGATTCATTTTGGAGGATTTATT 57.918 30.769 0.00 0.00 0.00 1.40
1667 6144 9.199645 TGCTGATTCATTTTGGAGGATTTATTA 57.800 29.630 0.00 0.00 0.00 0.98
1707 6184 9.554395 TTGTCTTATACAACATTTCTCTTGACA 57.446 29.630 0.00 0.00 43.22 3.58
1708 6185 8.988934 TGTCTTATACAACATTTCTCTTGACAC 58.011 33.333 0.00 0.00 34.29 3.67
1709 6186 8.988934 GTCTTATACAACATTTCTCTTGACACA 58.011 33.333 0.00 0.00 0.00 3.72
1710 6187 9.208022 TCTTATACAACATTTCTCTTGACACAG 57.792 33.333 0.00 0.00 0.00 3.66
1711 6188 6.808008 ATACAACATTTCTCTTGACACAGG 57.192 37.500 0.00 0.00 0.00 4.00
1712 6189 4.526970 ACAACATTTCTCTTGACACAGGT 58.473 39.130 0.00 0.00 0.00 4.00
1713 6190 4.949856 ACAACATTTCTCTTGACACAGGTT 59.050 37.500 0.00 0.00 0.00 3.50
1714 6191 6.119536 ACAACATTTCTCTTGACACAGGTTA 58.880 36.000 0.00 0.00 0.00 2.85
1715 6192 6.260936 ACAACATTTCTCTTGACACAGGTTAG 59.739 38.462 0.00 0.00 0.00 2.34
1716 6193 5.930135 ACATTTCTCTTGACACAGGTTAGT 58.070 37.500 0.00 0.00 0.00 2.24
1717 6194 6.357367 ACATTTCTCTTGACACAGGTTAGTT 58.643 36.000 0.00 0.00 0.00 2.24
1718 6195 6.483640 ACATTTCTCTTGACACAGGTTAGTTC 59.516 38.462 0.00 0.00 0.00 3.01
1719 6196 5.871396 TTCTCTTGACACAGGTTAGTTCT 57.129 39.130 0.00 0.00 0.00 3.01
1720 6197 5.871396 TCTCTTGACACAGGTTAGTTCTT 57.129 39.130 0.00 0.00 0.00 2.52
1721 6198 5.601662 TCTCTTGACACAGGTTAGTTCTTG 58.398 41.667 0.00 0.00 0.00 3.02
1722 6199 5.128827 TCTCTTGACACAGGTTAGTTCTTGT 59.871 40.000 0.00 0.00 0.00 3.16
1723 6200 5.116180 TCTTGACACAGGTTAGTTCTTGTG 58.884 41.667 7.25 7.25 46.16 3.33
1724 6201 3.804036 TGACACAGGTTAGTTCTTGTGG 58.196 45.455 12.10 0.00 45.41 4.17
1725 6202 3.452990 TGACACAGGTTAGTTCTTGTGGA 59.547 43.478 12.10 0.00 45.41 4.02
1726 6203 4.102524 TGACACAGGTTAGTTCTTGTGGAT 59.897 41.667 12.10 0.00 45.41 3.41
1727 6204 5.048846 ACACAGGTTAGTTCTTGTGGATT 57.951 39.130 12.10 0.00 45.41 3.01
1728 6205 4.821805 ACACAGGTTAGTTCTTGTGGATTG 59.178 41.667 12.10 0.00 45.41 2.67
1729 6206 4.821805 CACAGGTTAGTTCTTGTGGATTGT 59.178 41.667 0.00 0.00 40.23 2.71
1730 6207 4.821805 ACAGGTTAGTTCTTGTGGATTGTG 59.178 41.667 0.00 0.00 0.00 3.33
1731 6208 5.063204 CAGGTTAGTTCTTGTGGATTGTGA 58.937 41.667 0.00 0.00 0.00 3.58
1732 6209 5.530915 CAGGTTAGTTCTTGTGGATTGTGAA 59.469 40.000 0.00 0.00 0.00 3.18
1733 6210 6.207417 CAGGTTAGTTCTTGTGGATTGTGAAT 59.793 38.462 0.00 0.00 0.00 2.57
1734 6211 7.390440 CAGGTTAGTTCTTGTGGATTGTGAATA 59.610 37.037 0.00 0.00 0.00 1.75
1735 6212 8.109634 AGGTTAGTTCTTGTGGATTGTGAATAT 58.890 33.333 0.00 0.00 0.00 1.28
1736 6213 8.739972 GGTTAGTTCTTGTGGATTGTGAATATT 58.260 33.333 0.00 0.00 0.00 1.28
1739 6216 7.092716 AGTTCTTGTGGATTGTGAATATTTGC 58.907 34.615 0.00 0.00 0.00 3.68
1740 6217 6.587206 TCTTGTGGATTGTGAATATTTGCA 57.413 33.333 0.00 0.00 0.00 4.08
1741 6218 7.172868 TCTTGTGGATTGTGAATATTTGCAT 57.827 32.000 0.00 0.00 0.00 3.96
1742 6219 7.613585 TCTTGTGGATTGTGAATATTTGCATT 58.386 30.769 0.00 0.00 0.00 3.56
1743 6220 7.546316 TCTTGTGGATTGTGAATATTTGCATTG 59.454 33.333 0.00 0.00 0.00 2.82
1744 6221 6.932947 TGTGGATTGTGAATATTTGCATTGA 58.067 32.000 0.00 0.00 0.00 2.57
1745 6222 7.557724 TGTGGATTGTGAATATTTGCATTGAT 58.442 30.769 0.00 0.00 0.00 2.57
1746 6223 7.707464 TGTGGATTGTGAATATTTGCATTGATC 59.293 33.333 0.00 0.00 0.00 2.92
1747 6224 6.919115 TGGATTGTGAATATTTGCATTGATCG 59.081 34.615 0.00 0.00 0.00 3.69
1748 6225 6.919662 GGATTGTGAATATTTGCATTGATCGT 59.080 34.615 0.00 0.00 0.00 3.73
1749 6226 8.075574 GGATTGTGAATATTTGCATTGATCGTA 58.924 33.333 0.00 0.00 0.00 3.43
1750 6227 9.616634 GATTGTGAATATTTGCATTGATCGTAT 57.383 29.630 0.00 0.00 0.00 3.06
1751 6228 8.785468 TTGTGAATATTTGCATTGATCGTATG 57.215 30.769 0.00 3.84 0.00 2.39
1752 6229 6.857451 TGTGAATATTTGCATTGATCGTATGC 59.143 34.615 20.04 20.04 46.63 3.14
1753 6230 6.306356 GTGAATATTTGCATTGATCGTATGCC 59.694 38.462 22.50 10.85 46.05 4.40
1754 6231 2.753989 TTTGCATTGATCGTATGCCG 57.246 45.000 22.50 0.00 46.05 5.69
1755 6232 1.662517 TTGCATTGATCGTATGCCGT 58.337 45.000 22.50 0.00 46.05 5.68
1756 6233 2.517650 TGCATTGATCGTATGCCGTA 57.482 45.000 22.50 8.05 46.05 4.02
1757 6234 2.403259 TGCATTGATCGTATGCCGTAG 58.597 47.619 22.50 0.00 46.05 3.51
1758 6235 1.126846 GCATTGATCGTATGCCGTAGC 59.873 52.381 17.41 0.00 41.94 3.58
1775 6252 7.008332 TGCCGTAGCATATATAGGGTACATAT 58.992 38.462 26.95 0.00 46.52 1.78
1941 6450 0.610687 GGCCTACTGACTGCTTCACT 59.389 55.000 0.00 0.00 0.00 3.41
1961 6471 4.434588 CACTCGTTGCTTTTCTTTTCTTCG 59.565 41.667 0.00 0.00 0.00 3.79
2010 6520 4.040047 ACTATCACAATCCATGTCCCTGA 58.960 43.478 0.00 0.00 41.46 3.86
2032 6542 2.036217 TCACGTACATCAAGGGTTCGTT 59.964 45.455 0.00 0.00 39.66 3.85
2186 6709 3.775661 ACACCTTTCAAGTTTCAACGG 57.224 42.857 0.00 0.00 0.00 4.44
2304 7004 9.609223 GTTAAGTTAACACGTTTTAAATTGCAC 57.391 29.630 22.93 17.03 38.52 4.57
2305 7005 7.813852 AAGTTAACACGTTTTAAATTGCACA 57.186 28.000 16.42 0.00 30.25 4.57
2316 7016 0.525242 AATTGCACACACGCACACAC 60.525 50.000 0.00 0.00 42.87 3.82
2317 7017 1.652167 ATTGCACACACGCACACACA 61.652 50.000 0.00 0.00 42.87 3.72
2318 7018 2.277247 GCACACACGCACACACAC 60.277 61.111 0.00 0.00 0.00 3.82
2319 7019 3.033166 GCACACACGCACACACACA 62.033 57.895 0.00 0.00 0.00 3.72
2320 7020 1.225991 CACACACGCACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
2321 7021 1.669437 ACACACGCACACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
2322 7022 1.225991 CACACGCACACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
2323 7023 1.669437 ACACGCACACACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
2324 7024 1.225991 CACGCACACACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
2325 7025 1.669437 ACGCACACACACACACACA 60.669 52.632 0.00 0.00 0.00 3.72
2326 7026 1.225991 CGCACACACACACACACAC 60.226 57.895 0.00 0.00 0.00 3.82
2327 7027 1.872468 GCACACACACACACACACA 59.128 52.632 0.00 0.00 0.00 3.72
2328 7028 0.454285 GCACACACACACACACACAC 60.454 55.000 0.00 0.00 0.00 3.82
2329 7029 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2330 7030 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
2331 7031 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
2341 7041 0.179227 CACACACACACACACACACG 60.179 55.000 0.00 0.00 0.00 4.49
2482 7184 6.268797 TCGAGTGAAATAATATTGTGCGAC 57.731 37.500 0.00 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 4.065110 AGGCGAGCCTTGAAACAC 57.935 55.556 11.42 0.00 45.70 3.32
30 31 5.971202 GTGCATGCGCTAAAAGTATTAATGT 59.029 36.000 23.77 0.00 39.64 2.71
39 40 0.240678 TGTGGTGCATGCGCTAAAAG 59.759 50.000 28.86 0.00 39.64 2.27
44 45 0.452987 CTATTTGTGGTGCATGCGCT 59.547 50.000 28.86 12.04 39.64 5.92
108 109 9.877178 ACGATAAACAAGTCTTGAAGAATAGAT 57.123 29.630 19.53 1.37 0.00 1.98
109 110 9.706691 AACGATAAACAAGTCTTGAAGAATAGA 57.293 29.630 19.53 0.00 0.00 1.98
129 130 7.333423 CAGGGACTAGTTTTGATGAAAACGATA 59.667 37.037 13.73 2.87 46.45 2.92
133 134 6.262273 TGACAGGGACTAGTTTTGATGAAAAC 59.738 38.462 12.02 12.02 44.07 2.43
154 156 0.744874 GCTAGATAGTGCCGGTGACA 59.255 55.000 1.90 0.00 0.00 3.58
162 164 6.292150 ACTGGAATAAAAGGCTAGATAGTGC 58.708 40.000 0.00 0.00 0.00 4.40
167 169 9.755122 AAGTTTTACTGGAATAAAAGGCTAGAT 57.245 29.630 0.00 0.00 35.29 1.98
237 239 9.294030 CTTTGCATCATCCTAGATTGTAAAAAC 57.706 33.333 0.00 0.00 0.00 2.43
265 267 3.058016 ACATTCAGCGGAACAAATGACTG 60.058 43.478 0.00 0.00 35.46 3.51
299 301 7.541916 AAATTTGAAATTGGGAAATTGGCAT 57.458 28.000 3.62 0.00 31.31 4.40
300 302 6.973460 AAATTTGAAATTGGGAAATTGGCA 57.027 29.167 3.62 0.00 31.31 4.92
329 335 7.324178 AGAAGTAATGCTTTAGTACCACAGAG 58.676 38.462 0.47 0.00 37.59 3.35
331 337 7.602644 TCAAGAAGTAATGCTTTAGTACCACAG 59.397 37.037 0.47 0.00 37.59 3.66
336 342 7.835634 AGCTCAAGAAGTAATGCTTTAGTAC 57.164 36.000 0.47 0.00 37.59 2.73
340 346 9.231297 ACATTAAGCTCAAGAAGTAATGCTTTA 57.769 29.630 10.56 0.00 40.55 1.85
484 490 4.415881 TGTCAGCTTTCAACTACCTGAA 57.584 40.909 0.00 0.00 34.67 3.02
554 561 0.537188 CGTAGATCCAACTGCCCAGT 59.463 55.000 0.00 0.00 44.94 4.00
562 569 3.870633 ACCTTCTGACGTAGATCCAAC 57.129 47.619 0.00 0.00 34.80 3.77
577 689 2.884639 ACTGCCACAAACACATACCTTC 59.115 45.455 0.00 0.00 0.00 3.46
588 700 4.002982 GACATGACATAGACTGCCACAAA 58.997 43.478 0.00 0.00 0.00 2.83
595 708 6.127619 TGGTCTACAAGACATGACATAGACTG 60.128 42.308 21.48 0.60 46.79 3.51
602 715 2.626266 ACGTGGTCTACAAGACATGACA 59.374 45.455 0.00 0.00 46.79 3.58
603 716 3.243336 GACGTGGTCTACAAGACATGAC 58.757 50.000 0.00 0.00 46.79 3.06
605 718 3.297830 TGACGTGGTCTACAAGACATG 57.702 47.619 9.15 0.00 46.79 3.21
620 733 3.581332 TCCTTTTCCTCCAGTATTGACGT 59.419 43.478 0.00 0.00 0.00 4.34
625 738 5.860648 TCCTTTCCTTTTCCTCCAGTATT 57.139 39.130 0.00 0.00 0.00 1.89
651 764 1.166531 GCCTGCTGACCTTTTCACGT 61.167 55.000 0.00 0.00 0.00 4.49
659 772 1.529244 GTTGTTGGCCTGCTGACCT 60.529 57.895 3.32 0.00 0.00 3.85
721 2614 5.094134 GTCATACTCAAACACGTAGGAGTC 58.906 45.833 12.09 0.00 40.76 3.36
734 2631 6.629515 GCTGGTACATACTTGGTCATACTCAA 60.630 42.308 0.00 0.00 38.20 3.02
751 2648 1.946768 GAACACAAGCAAGCTGGTACA 59.053 47.619 1.02 0.00 0.00 2.90
806 5257 3.252701 AGCCTGGACTATTATCGTACGTG 59.747 47.826 16.05 2.84 0.00 4.49
809 5260 4.280174 TGGAAGCCTGGACTATTATCGTAC 59.720 45.833 0.00 0.00 0.00 3.67
810 5261 4.280174 GTGGAAGCCTGGACTATTATCGTA 59.720 45.833 0.00 0.00 0.00 3.43
812 5263 3.555168 GGTGGAAGCCTGGACTATTATCG 60.555 52.174 0.00 0.00 0.00 2.92
813 5264 3.648545 AGGTGGAAGCCTGGACTATTATC 59.351 47.826 0.00 0.00 37.50 1.75
816 5267 1.972588 AGGTGGAAGCCTGGACTATT 58.027 50.000 0.00 0.00 37.50 1.73
817 5268 2.399580 GTAGGTGGAAGCCTGGACTAT 58.600 52.381 0.00 0.00 39.60 2.12
818 5269 1.621622 GGTAGGTGGAAGCCTGGACTA 60.622 57.143 0.00 0.00 39.60 2.59
820 5271 1.602771 GGTAGGTGGAAGCCTGGAC 59.397 63.158 0.00 0.00 39.60 4.02
823 5274 0.175073 GTACGGTAGGTGGAAGCCTG 59.825 60.000 0.00 0.00 39.60 4.85
840 5291 2.093075 TGGTGGGTTGAAGAAACGTGTA 60.093 45.455 0.00 0.00 39.91 2.90
949 5415 4.694509 CAGAGGAGATTATAATGCAGGTGC 59.305 45.833 1.78 0.00 42.50 5.01
1017 5490 2.671596 GCGGCAACTGCAAGAAAAATA 58.328 42.857 3.76 0.00 44.36 1.40
1021 5494 1.514678 ATCGCGGCAACTGCAAGAAA 61.515 50.000 6.13 0.00 44.36 2.52
1029 5502 4.373116 ACGGTCATCGCGGCAACT 62.373 61.111 6.13 0.00 43.89 3.16
1096 5569 1.426251 TTGGTGCTGAGGTCCCATGT 61.426 55.000 0.00 0.00 0.00 3.21
1125 5598 1.201429 AGTTCTTGGAGGACGCCCAT 61.201 55.000 0.00 0.00 33.04 4.00
1137 5610 4.099266 TGGTCATTGGTTTGGAAGTTCTTG 59.901 41.667 2.25 0.00 0.00 3.02
1139 5612 3.891366 CTGGTCATTGGTTTGGAAGTTCT 59.109 43.478 2.25 0.00 0.00 3.01
1155 5628 4.079970 AGTACTTGAAGACGATCTGGTCA 58.920 43.478 0.00 0.00 39.42 4.02
1223 5696 2.172483 CTGGCGGTGCTACAGGAGTT 62.172 60.000 0.00 0.00 0.00 3.01
1264 5737 3.327464 TGAGAGTGACAACATCATTCCCA 59.673 43.478 0.00 0.00 43.44 4.37
1336 5809 0.326595 TCTTAACCTTCATGCCGCCA 59.673 50.000 0.00 0.00 0.00 5.69
1351 5824 3.117776 AGCCTGGCATGACATCAATCTTA 60.118 43.478 22.65 0.00 0.00 2.10
1357 5830 1.225426 GGAGCCTGGCATGACATCA 59.775 57.895 22.65 0.00 0.00 3.07
1405 5881 0.517316 GAGCGTTACTTGCACTTGGG 59.483 55.000 0.00 0.00 33.85 4.12
1410 5886 2.038837 GGGGGAGCGTTACTTGCAC 61.039 63.158 0.00 0.00 33.85 4.57
1431 5907 1.375268 GCAGCAGAGACAGGTGTCC 60.375 63.158 6.50 0.00 45.85 4.02
1432 5908 1.375268 GGCAGCAGAGACAGGTGTC 60.375 63.158 1.60 1.60 45.08 3.67
1450 5926 3.443045 GCGGCCTCCACATTGGTG 61.443 66.667 0.00 0.00 44.85 4.17
1483 5959 1.657181 GACAACGGCCAGCAAAACG 60.657 57.895 2.24 0.00 0.00 3.60
1526 6002 0.670239 CACATGTGCCTGCGTCTACA 60.670 55.000 13.94 0.00 0.00 2.74
1528 6004 0.892063 TACACATGTGCCTGCGTCTA 59.108 50.000 25.68 5.13 0.00 2.59
1531 6007 1.533625 AAATACACATGTGCCTGCGT 58.466 45.000 25.68 7.68 0.00 5.24
1595 6072 7.064253 GTCCAACATACACATAACTACTTGACC 59.936 40.741 0.00 0.00 0.00 4.02
1609 6086 2.861935 CCCGAATACGTCCAACATACAC 59.138 50.000 0.00 0.00 37.88 2.90
1610 6087 2.739287 GCCCGAATACGTCCAACATACA 60.739 50.000 0.00 0.00 37.88 2.29
1611 6088 1.862827 GCCCGAATACGTCCAACATAC 59.137 52.381 0.00 0.00 37.88 2.39
1612 6089 1.758280 AGCCCGAATACGTCCAACATA 59.242 47.619 0.00 0.00 37.88 2.29
1613 6090 0.539986 AGCCCGAATACGTCCAACAT 59.460 50.000 0.00 0.00 37.88 2.71
1614 6091 0.322322 AAGCCCGAATACGTCCAACA 59.678 50.000 0.00 0.00 37.88 3.33
1615 6092 1.129811 CAAAGCCCGAATACGTCCAAC 59.870 52.381 0.00 0.00 37.88 3.77
1616 6093 1.270947 ACAAAGCCCGAATACGTCCAA 60.271 47.619 0.00 0.00 37.88 3.53
1617 6094 0.322322 ACAAAGCCCGAATACGTCCA 59.678 50.000 0.00 0.00 37.88 4.02
1618 6095 0.725117 CACAAAGCCCGAATACGTCC 59.275 55.000 0.00 0.00 37.88 4.79
1619 6096 1.435577 ACACAAAGCCCGAATACGTC 58.564 50.000 0.00 0.00 37.88 4.34
1620 6097 2.747396 TACACAAAGCCCGAATACGT 57.253 45.000 0.00 0.00 37.88 3.57
1621 6098 3.787476 GCAATACACAAAGCCCGAATACG 60.787 47.826 0.00 0.00 39.43 3.06
1622 6099 3.377172 AGCAATACACAAAGCCCGAATAC 59.623 43.478 0.00 0.00 0.00 1.89
1623 6100 3.376859 CAGCAATACACAAAGCCCGAATA 59.623 43.478 0.00 0.00 0.00 1.75
1624 6101 2.164219 CAGCAATACACAAAGCCCGAAT 59.836 45.455 0.00 0.00 0.00 3.34
1625 6102 1.539388 CAGCAATACACAAAGCCCGAA 59.461 47.619 0.00 0.00 0.00 4.30
1626 6103 1.164411 CAGCAATACACAAAGCCCGA 58.836 50.000 0.00 0.00 0.00 5.14
1627 6104 1.164411 TCAGCAATACACAAAGCCCG 58.836 50.000 0.00 0.00 0.00 6.13
1628 6105 3.193267 TGAATCAGCAATACACAAAGCCC 59.807 43.478 0.00 0.00 0.00 5.19
1629 6106 4.439305 TGAATCAGCAATACACAAAGCC 57.561 40.909 0.00 0.00 0.00 4.35
1630 6107 6.956299 AAATGAATCAGCAATACACAAAGC 57.044 33.333 0.00 0.00 0.00 3.51
1631 6108 7.599621 TCCAAAATGAATCAGCAATACACAAAG 59.400 33.333 0.00 0.00 0.00 2.77
1632 6109 7.440198 TCCAAAATGAATCAGCAATACACAAA 58.560 30.769 0.00 0.00 0.00 2.83
1633 6110 6.990798 TCCAAAATGAATCAGCAATACACAA 58.009 32.000 0.00 0.00 0.00 3.33
1634 6111 6.350361 CCTCCAAAATGAATCAGCAATACACA 60.350 38.462 0.00 0.00 0.00 3.72
1635 6112 6.038356 CCTCCAAAATGAATCAGCAATACAC 58.962 40.000 0.00 0.00 0.00 2.90
1636 6113 5.951148 TCCTCCAAAATGAATCAGCAATACA 59.049 36.000 0.00 0.00 0.00 2.29
1637 6114 6.455360 TCCTCCAAAATGAATCAGCAATAC 57.545 37.500 0.00 0.00 0.00 1.89
1638 6115 7.664552 AATCCTCCAAAATGAATCAGCAATA 57.335 32.000 0.00 0.00 0.00 1.90
1639 6116 6.555463 AATCCTCCAAAATGAATCAGCAAT 57.445 33.333 0.00 0.00 0.00 3.56
1640 6117 6.363167 AAATCCTCCAAAATGAATCAGCAA 57.637 33.333 0.00 0.00 0.00 3.91
1641 6118 7.664552 ATAAATCCTCCAAAATGAATCAGCA 57.335 32.000 0.00 0.00 0.00 4.41
1681 6158 9.554395 TGTCAAGAGAAATGTTGTATAAGACAA 57.446 29.630 0.00 0.00 46.03 3.18
1682 6159 8.988934 GTGTCAAGAGAAATGTTGTATAAGACA 58.011 33.333 0.00 0.00 35.78 3.41
1683 6160 8.988934 TGTGTCAAGAGAAATGTTGTATAAGAC 58.011 33.333 0.00 0.00 0.00 3.01
1684 6161 9.208022 CTGTGTCAAGAGAAATGTTGTATAAGA 57.792 33.333 0.00 0.00 0.00 2.10
1685 6162 8.446273 CCTGTGTCAAGAGAAATGTTGTATAAG 58.554 37.037 0.00 0.00 0.00 1.73
1686 6163 7.936847 ACCTGTGTCAAGAGAAATGTTGTATAA 59.063 33.333 0.00 0.00 0.00 0.98
1687 6164 7.450074 ACCTGTGTCAAGAGAAATGTTGTATA 58.550 34.615 0.00 0.00 0.00 1.47
1688 6165 6.299141 ACCTGTGTCAAGAGAAATGTTGTAT 58.701 36.000 0.00 0.00 0.00 2.29
1689 6166 5.680619 ACCTGTGTCAAGAGAAATGTTGTA 58.319 37.500 0.00 0.00 0.00 2.41
1690 6167 4.526970 ACCTGTGTCAAGAGAAATGTTGT 58.473 39.130 0.00 0.00 0.00 3.32
1691 6168 5.505173 AACCTGTGTCAAGAGAAATGTTG 57.495 39.130 0.00 0.00 0.00 3.33
1692 6169 6.357367 ACTAACCTGTGTCAAGAGAAATGTT 58.643 36.000 0.00 0.00 0.00 2.71
1693 6170 5.930135 ACTAACCTGTGTCAAGAGAAATGT 58.070 37.500 0.00 0.00 0.00 2.71
1694 6171 6.708054 AGAACTAACCTGTGTCAAGAGAAATG 59.292 38.462 0.00 0.00 0.00 2.32
1695 6172 6.831976 AGAACTAACCTGTGTCAAGAGAAAT 58.168 36.000 0.00 0.00 0.00 2.17
1696 6173 6.235231 AGAACTAACCTGTGTCAAGAGAAA 57.765 37.500 0.00 0.00 0.00 2.52
1697 6174 5.871396 AGAACTAACCTGTGTCAAGAGAA 57.129 39.130 0.00 0.00 0.00 2.87
1698 6175 5.128827 ACAAGAACTAACCTGTGTCAAGAGA 59.871 40.000 0.00 0.00 0.00 3.10
1699 6176 5.235186 CACAAGAACTAACCTGTGTCAAGAG 59.765 44.000 0.00 0.00 0.00 2.85
1700 6177 5.116180 CACAAGAACTAACCTGTGTCAAGA 58.884 41.667 0.00 0.00 0.00 3.02
1701 6178 4.273480 CCACAAGAACTAACCTGTGTCAAG 59.727 45.833 0.00 0.00 0.00 3.02
1702 6179 4.080807 TCCACAAGAACTAACCTGTGTCAA 60.081 41.667 0.00 0.00 0.00 3.18
1703 6180 3.452990 TCCACAAGAACTAACCTGTGTCA 59.547 43.478 0.00 0.00 0.00 3.58
1704 6181 4.067972 TCCACAAGAACTAACCTGTGTC 57.932 45.455 0.00 0.00 0.00 3.67
1705 6182 4.706842 ATCCACAAGAACTAACCTGTGT 57.293 40.909 0.00 0.00 0.00 3.72
1706 6183 4.821805 ACAATCCACAAGAACTAACCTGTG 59.178 41.667 0.00 0.00 0.00 3.66
1707 6184 4.821805 CACAATCCACAAGAACTAACCTGT 59.178 41.667 0.00 0.00 0.00 4.00
1708 6185 5.063204 TCACAATCCACAAGAACTAACCTG 58.937 41.667 0.00 0.00 0.00 4.00
1709 6186 5.304686 TCACAATCCACAAGAACTAACCT 57.695 39.130 0.00 0.00 0.00 3.50
1710 6187 6.575162 ATTCACAATCCACAAGAACTAACC 57.425 37.500 0.00 0.00 0.00 2.85
1713 6190 8.243426 GCAAATATTCACAATCCACAAGAACTA 58.757 33.333 0.00 0.00 0.00 2.24
1714 6191 7.092716 GCAAATATTCACAATCCACAAGAACT 58.907 34.615 0.00 0.00 0.00 3.01
1715 6192 6.867816 TGCAAATATTCACAATCCACAAGAAC 59.132 34.615 0.00 0.00 0.00 3.01
1716 6193 6.990798 TGCAAATATTCACAATCCACAAGAA 58.009 32.000 0.00 0.00 0.00 2.52
1717 6194 6.587206 TGCAAATATTCACAATCCACAAGA 57.413 33.333 0.00 0.00 0.00 3.02
1718 6195 7.546316 TCAATGCAAATATTCACAATCCACAAG 59.454 33.333 0.00 0.00 0.00 3.16
1719 6196 7.384477 TCAATGCAAATATTCACAATCCACAA 58.616 30.769 0.00 0.00 0.00 3.33
1720 6197 6.932947 TCAATGCAAATATTCACAATCCACA 58.067 32.000 0.00 0.00 0.00 4.17
1721 6198 7.096353 CGATCAATGCAAATATTCACAATCCAC 60.096 37.037 0.00 0.00 0.00 4.02
1722 6199 6.919115 CGATCAATGCAAATATTCACAATCCA 59.081 34.615 0.00 0.00 0.00 3.41
1723 6200 6.919662 ACGATCAATGCAAATATTCACAATCC 59.080 34.615 0.00 0.00 0.00 3.01
1724 6201 7.919313 ACGATCAATGCAAATATTCACAATC 57.081 32.000 0.00 0.00 0.00 2.67
1725 6202 9.401873 CATACGATCAATGCAAATATTCACAAT 57.598 29.630 0.00 0.00 0.00 2.71
1726 6203 8.785468 CATACGATCAATGCAAATATTCACAA 57.215 30.769 0.00 0.00 0.00 3.33
1751 6228 5.786264 ATGTACCCTATATATGCTACGGC 57.214 43.478 0.00 0.00 39.26 5.68
1782 6259 8.561738 TCAAAGTCCAAAATTCAGATAGGTAC 57.438 34.615 0.00 0.00 0.00 3.34
1786 6263 9.918630 AACATTCAAAGTCCAAAATTCAGATAG 57.081 29.630 0.00 0.00 0.00 2.08
1905 6402 0.827368 GCCCGGTCTTCAGATCTTCT 59.173 55.000 0.00 0.00 0.00 2.85
1941 6450 3.375922 ACCGAAGAAAAGAAAAGCAACGA 59.624 39.130 0.00 0.00 0.00 3.85
1961 6471 1.083144 CGTAGACCGCGTCGATACC 60.083 63.158 4.92 0.00 37.67 2.73
2010 6520 2.232941 ACGAACCCTTGATGTACGTGAT 59.767 45.455 0.00 0.00 0.00 3.06
2032 6542 3.930336 AGTTCGAGTTGAATGCTGATCA 58.070 40.909 0.00 0.00 39.21 2.92
2301 7001 2.277247 GTGTGTGTGCGTGTGTGC 60.277 61.111 0.00 0.00 0.00 4.57
2304 7004 1.225991 GTGTGTGTGTGTGCGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
2305 7005 1.669437 TGTGTGTGTGTGTGCGTGT 60.669 52.632 0.00 0.00 0.00 4.49
2316 7016 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2317 7017 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2318 7018 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2319 7019 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2320 7020 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
2321 7021 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2322 7022 0.179227 CGTGTGTGTGTGTGTGTGTG 60.179 55.000 0.00 0.00 0.00 3.82
2323 7023 1.906994 GCGTGTGTGTGTGTGTGTGT 61.907 55.000 0.00 0.00 0.00 3.72
2324 7024 1.225991 GCGTGTGTGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
2325 7025 1.669437 TGCGTGTGTGTGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
2326 7026 1.225991 GTGCGTGTGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
2327 7027 1.669437 TGTGCGTGTGTGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
2328 7028 1.225991 GTGTGCGTGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
2329 7029 1.669437 TGTGTGCGTGTGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
2330 7030 1.225991 GTGTGTGCGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
2331 7031 1.669437 TGTGTGTGCGTGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
2341 7041 0.454285 GTGTGTGTGTGTGTGTGTGC 60.454 55.000 0.00 0.00 0.00 4.57
2405 7105 0.109597 GGCTCAATTGCACGGTTCAG 60.110 55.000 0.00 0.00 34.04 3.02
2409 7109 1.340017 ACTATGGCTCAATTGCACGGT 60.340 47.619 0.00 0.00 34.04 4.83


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

AutoCloner maintained by Alex Coulton.