Multiple sequence alignment - TraesCS2A01G454700

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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 TraesCS2A01G454700 chr2A 100.000 2734 0 0 1 2734 703447159 703449892 0.000000e+00 5049.0
1 TraesCS2A01G454700 chr2A 81.378 827 99 36 1028 1812 703400202 703401015 8.310000e-175 623.0
2 TraesCS2A01G454700 chr2A 78.282 1036 128 41 900 1854 703402802 703403821 6.560000e-161 577.0
3 TraesCS2A01G454700 chr2A 81.471 734 83 29 970 1660 703353710 703354433 1.110000e-153 553.0
4 TraesCS2A01G454700 chr2A 84.283 579 66 15 1003 1562 703381965 703382537 2.390000e-150 542.0
5 TraesCS2A01G454700 chr2A 84.100 239 28 7 40 276 703440247 703440477 3.540000e-54 222.0
6 TraesCS2A01G454700 chr2B 85.841 1349 91 39 401 1716 673628020 673629301 0.000000e+00 1341.0
7 TraesCS2A01G454700 chr2B 89.499 819 58 12 894 1695 673595336 673596143 0.000000e+00 1011.0
8 TraesCS2A01G454700 chr2B 83.092 692 75 26 900 1562 673241764 673242442 2.340000e-165 592.0
9 TraesCS2A01G454700 chr2B 89.362 470 32 5 445 897 673594502 673594970 2.360000e-160 575.0
10 TraesCS2A01G454700 chr2B 94.277 332 19 0 1 332 673594034 673594365 2.430000e-140 508.0
11 TraesCS2A01G454700 chr2B 83.985 537 65 15 1003 1522 673227596 673228128 1.890000e-136 496.0
12 TraesCS2A01G454700 chr2B 81.061 660 85 26 918 1546 673170519 673171169 8.800000e-135 490.0
13 TraesCS2A01G454700 chr2B 81.739 460 53 21 927 1359 672646420 672646875 3.350000e-94 355.0
14 TraesCS2A01G454700 chr2B 87.066 317 29 6 333 640 673705607 673705920 5.600000e-92 348.0
15 TraesCS2A01G454700 chr2B 80.860 465 60 22 918 1359 673050780 673051238 3.370000e-89 339.0
16 TraesCS2A01G454700 chr2B 85.948 306 36 3 33 332 673705343 673705647 1.220000e-83 320.0
17 TraesCS2A01G454700 chr2B 85.911 291 30 10 626 907 673705936 673706224 1.590000e-77 300.0
18 TraesCS2A01G454700 chr2B 87.692 65 4 2 1602 1662 673171259 673171323 3.780000e-09 73.1
19 TraesCS2A01G454700 chr1D 85.000 760 101 7 1911 2661 337998577 337999332 0.000000e+00 760.0
20 TraesCS2A01G454700 chr1D 84.736 701 96 8 1967 2661 75787396 75786701 0.000000e+00 691.0
21 TraesCS2A01G454700 chr2D 85.980 699 90 5 1967 2661 372702558 372703252 0.000000e+00 741.0
22 TraesCS2A01G454700 chr2D 88.014 584 47 16 332 896 563141275 563141854 0.000000e+00 669.0
23 TraesCS2A01G454700 chr2D 88.037 535 47 10 332 866 563096400 563096917 3.870000e-173 617.0
24 TraesCS2A01G454700 chr2D 83.552 687 54 22 1003 1662 563008915 563009569 3.030000e-164 588.0
25 TraesCS2A01G454700 chr2D 84.259 540 62 15 1003 1523 562859041 562859576 3.140000e-139 505.0
26 TraesCS2A01G454700 chr2D 92.424 330 24 1 1 329 563096110 563096439 1.150000e-128 470.0
27 TraesCS2A01G454700 chr2D 86.538 416 43 7 1003 1415 562895721 562896126 1.930000e-121 446.0
28 TraesCS2A01G454700 chr2D 82.500 440 58 9 933 1354 562807767 562808205 4.300000e-98 368.0
29 TraesCS2A01G454700 chr2D 86.645 307 35 3 30 332 563141012 563141316 4.360000e-88 335.0
30 TraesCS2A01G454700 chr2D 78.719 484 49 25 331 791 563008275 563008727 9.650000e-70 274.0
31 TraesCS2A01G454700 chr2D 84.756 164 18 2 392 549 562891966 562892128 1.010000e-34 158.0
32 TraesCS2A01G454700 chr7D 83.825 779 105 11 1905 2665 27179708 27178933 0.000000e+00 721.0
33 TraesCS2A01G454700 chr7D 93.333 45 3 0 1905 1949 449496494 449496450 1.760000e-07 67.6
34 TraesCS2A01G454700 chr7D 100.000 34 0 0 1905 1938 109561288 109561321 2.270000e-06 63.9
35 TraesCS2A01G454700 chr5B 85.570 693 89 9 1967 2652 395736460 395735772 0.000000e+00 715.0
36 TraesCS2A01G454700 chr4A 83.808 772 104 11 1904 2655 648472640 648473410 0.000000e+00 713.0
37 TraesCS2A01G454700 chr1B 85.303 694 89 7 1974 2661 119294264 119293578 0.000000e+00 704.0
38 TraesCS2A01G454700 chr6B 83.574 761 109 9 1905 2661 590914639 590915387 0.000000e+00 699.0
39 TraesCS2A01G454700 chr7A 84.075 697 101 7 1970 2661 694770700 694770009 0.000000e+00 664.0
40 TraesCS2A01G454700 chr3B 90.323 62 6 0 2673 2734 563313936 563313875 6.270000e-12 82.4
41 TraesCS2A01G454700 chr3B 91.111 45 4 0 1908 1952 252673518 252673474 8.170000e-06 62.1
42 TraesCS2A01G454700 chr4D 91.228 57 5 0 2667 2723 315516042 315516098 8.120000e-11 78.7
43 TraesCS2A01G454700 chr4D 93.478 46 3 0 1905 1950 84472203 84472248 4.890000e-08 69.4
44 TraesCS2A01G454700 chr5D 95.556 45 2 0 1905 1949 372097345 372097389 3.780000e-09 73.1
45 TraesCS2A01G454700 chr3D 89.474 57 6 0 1905 1961 881826 881882 3.780000e-09 73.1
46 TraesCS2A01G454700 chr3D 93.023 43 3 0 1905 1947 485229980 485229938 2.270000e-06 63.9
47 TraesCS2A01G454700 chr3D 90.698 43 3 1 1905 1947 372322641 372322600 3.800000e-04 56.5


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G454700 chr2A 703447159 703449892 2733 False 5049.000000 5049 100.000000 1 2734 1 chr2A.!!$F4 2733
1 TraesCS2A01G454700 chr2A 703400202 703403821 3619 False 600.000000 623 79.830000 900 1854 2 chr2A.!!$F5 954
2 TraesCS2A01G454700 chr2A 703353710 703354433 723 False 553.000000 553 81.471000 970 1660 1 chr2A.!!$F1 690
3 TraesCS2A01G454700 chr2A 703381965 703382537 572 False 542.000000 542 84.283000 1003 1562 1 chr2A.!!$F2 559
4 TraesCS2A01G454700 chr2B 673628020 673629301 1281 False 1341.000000 1341 85.841000 401 1716 1 chr2B.!!$F5 1315
5 TraesCS2A01G454700 chr2B 673594034 673596143 2109 False 698.000000 1011 91.046000 1 1695 3 chr2B.!!$F7 1694
6 TraesCS2A01G454700 chr2B 673241764 673242442 678 False 592.000000 592 83.092000 900 1562 1 chr2B.!!$F4 662
7 TraesCS2A01G454700 chr2B 673227596 673228128 532 False 496.000000 496 83.985000 1003 1522 1 chr2B.!!$F3 519
8 TraesCS2A01G454700 chr2B 673705343 673706224 881 False 322.666667 348 86.308333 33 907 3 chr2B.!!$F8 874
9 TraesCS2A01G454700 chr2B 673170519 673171323 804 False 281.550000 490 84.376500 918 1662 2 chr2B.!!$F6 744
10 TraesCS2A01G454700 chr1D 337998577 337999332 755 False 760.000000 760 85.000000 1911 2661 1 chr1D.!!$F1 750
11 TraesCS2A01G454700 chr1D 75786701 75787396 695 True 691.000000 691 84.736000 1967 2661 1 chr1D.!!$R1 694
12 TraesCS2A01G454700 chr2D 372702558 372703252 694 False 741.000000 741 85.980000 1967 2661 1 chr2D.!!$F1 694
13 TraesCS2A01G454700 chr2D 563096110 563096917 807 False 543.500000 617 90.230500 1 866 2 chr2D.!!$F6 865
14 TraesCS2A01G454700 chr2D 562859041 562859576 535 False 505.000000 505 84.259000 1003 1523 1 chr2D.!!$F3 520
15 TraesCS2A01G454700 chr2D 563141012 563141854 842 False 502.000000 669 87.329500 30 896 2 chr2D.!!$F7 866
16 TraesCS2A01G454700 chr2D 563008275 563009569 1294 False 431.000000 588 81.135500 331 1662 2 chr2D.!!$F5 1331
17 TraesCS2A01G454700 chr2D 562891966 562896126 4160 False 302.000000 446 85.647000 392 1415 2 chr2D.!!$F4 1023
18 TraesCS2A01G454700 chr7D 27178933 27179708 775 True 721.000000 721 83.825000 1905 2665 1 chr7D.!!$R1 760
19 TraesCS2A01G454700 chr5B 395735772 395736460 688 True 715.000000 715 85.570000 1967 2652 1 chr5B.!!$R1 685
20 TraesCS2A01G454700 chr4A 648472640 648473410 770 False 713.000000 713 83.808000 1904 2655 1 chr4A.!!$F1 751
21 TraesCS2A01G454700 chr1B 119293578 119294264 686 True 704.000000 704 85.303000 1974 2661 1 chr1B.!!$R1 687
22 TraesCS2A01G454700 chr6B 590914639 590915387 748 False 699.000000 699 83.574000 1905 2661 1 chr6B.!!$F1 756
23 TraesCS2A01G454700 chr7A 694770009 694770700 691 True 664.000000 664 84.075000 1970 2661 1 chr7A.!!$R1 691

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
585 710 0.257039 GATCCATGGAGCCAACCAGT 59.743 55.0 19.66 0.0 43.49 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 6357 0.038166 TCTTGTGCAAGTCCATCCCC 59.962 55.0 11.17 0.0 39.38 4.81 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
174 176 2.167398 TACTCCGCACCTGTCTTGCC 62.167 60.000 0.00 0.00 36.57 4.52
219 227 7.047460 GGAATCATCCATCAATTGCTTTAGT 57.953 36.000 0.00 0.00 45.79 2.24
226 234 3.715618 TCAATTGCTTTAGTACACGCG 57.284 42.857 3.53 3.53 0.00 6.01
295 303 4.983090 GCACAGTGCATGCGATAC 57.017 55.556 21.22 5.82 44.26 2.24
297 305 0.659427 GCACAGTGCATGCGATACAT 59.341 50.000 21.22 0.00 44.26 2.29
298 306 1.333524 GCACAGTGCATGCGATACATC 60.334 52.381 21.22 0.00 44.26 3.06
299 307 1.935199 CACAGTGCATGCGATACATCA 59.065 47.619 14.09 0.00 36.64 3.07
301 309 2.804527 ACAGTGCATGCGATACATCATC 59.195 45.455 14.09 0.00 36.64 2.92
302 310 2.159037 CAGTGCATGCGATACATCATCC 59.841 50.000 14.09 0.00 36.64 3.51
303 311 2.038164 AGTGCATGCGATACATCATCCT 59.962 45.455 14.09 0.00 36.64 3.24
304 312 3.259123 AGTGCATGCGATACATCATCCTA 59.741 43.478 14.09 0.00 36.64 2.94
306 314 3.259123 TGCATGCGATACATCATCCTAGT 59.741 43.478 14.09 0.00 36.64 2.57
307 315 3.615937 GCATGCGATACATCATCCTAGTG 59.384 47.826 0.00 0.00 36.64 2.74
309 317 4.082026 CATGCGATACATCATCCTAGTGGA 60.082 45.833 0.00 0.00 41.46 4.02
310 318 3.255888 TGCGATACATCATCCTAGTGGAC 59.744 47.826 0.00 0.00 46.51 4.02
311 319 3.255888 GCGATACATCATCCTAGTGGACA 59.744 47.826 0.00 0.00 46.51 4.02
312 320 4.262036 GCGATACATCATCCTAGTGGACAA 60.262 45.833 0.00 0.00 46.51 3.18
313 321 5.739070 GCGATACATCATCCTAGTGGACAAA 60.739 44.000 0.00 0.00 46.51 2.83
314 322 5.923114 CGATACATCATCCTAGTGGACAAAG 59.077 44.000 0.00 0.00 46.51 2.77
316 324 3.209410 CATCATCCTAGTGGACAAAGGC 58.791 50.000 0.00 0.00 46.51 4.35
317 325 2.551270 TCATCCTAGTGGACAAAGGCT 58.449 47.619 0.00 0.00 46.51 4.58
318 326 3.719871 TCATCCTAGTGGACAAAGGCTA 58.280 45.455 0.00 0.00 46.51 3.93
319 327 3.451178 TCATCCTAGTGGACAAAGGCTAC 59.549 47.826 0.00 0.00 46.51 3.58
320 328 2.897350 TCCTAGTGGACAAAGGCTACA 58.103 47.619 0.00 0.00 37.46 2.74
322 330 3.649023 TCCTAGTGGACAAAGGCTACAAA 59.351 43.478 0.00 0.00 37.46 2.83
323 331 4.003648 CCTAGTGGACAAAGGCTACAAAG 58.996 47.826 0.00 0.00 34.57 2.77
324 332 3.857157 AGTGGACAAAGGCTACAAAGA 57.143 42.857 0.00 0.00 0.00 2.52
325 333 4.373156 AGTGGACAAAGGCTACAAAGAT 57.627 40.909 0.00 0.00 0.00 2.40
326 334 5.499004 AGTGGACAAAGGCTACAAAGATA 57.501 39.130 0.00 0.00 0.00 1.98
327 335 6.067217 AGTGGACAAAGGCTACAAAGATAT 57.933 37.500 0.00 0.00 0.00 1.63
328 336 7.195374 AGTGGACAAAGGCTACAAAGATATA 57.805 36.000 0.00 0.00 0.00 0.86
329 337 7.806180 AGTGGACAAAGGCTACAAAGATATAT 58.194 34.615 0.00 0.00 0.00 0.86
585 710 0.257039 GATCCATGGAGCCAACCAGT 59.743 55.000 19.66 0.00 43.49 4.00
734 1487 9.199982 GAGAAATGAATAAATATCGGACGGTTA 57.800 33.333 0.00 0.00 0.00 2.85
803 1563 0.465705 ATCAGTACTGCGGACATGGG 59.534 55.000 18.45 0.00 0.00 4.00
851 1611 1.736282 CCGGTTTTGATTTGCCCGC 60.736 57.895 0.00 0.00 37.37 6.13
854 1618 0.732538 GGTTTTGATTTGCCCGCTCG 60.733 55.000 0.00 0.00 0.00 5.03
904 2955 3.004315 GGCTTTGCAACTTGCTTACTGTA 59.996 43.478 14.78 0.00 45.31 2.74
997 5330 1.852965 CTCTCCTCTTCCTCCCTCTCT 59.147 57.143 0.00 0.00 0.00 3.10
1003 5361 0.459489 CTTCCTCCCTCTCTTCGCAG 59.541 60.000 0.00 0.00 0.00 5.18
1012 5370 2.357881 TCTTCGCAGCAGCACCAG 60.358 61.111 0.82 0.00 42.27 4.00
1040 5423 1.735386 GCTCTGCTCAGCTTTGATCA 58.265 50.000 0.00 0.00 36.38 2.92
1072 5457 2.985282 ACACCCACAATGGCAGCG 60.985 61.111 0.00 0.00 35.79 5.18
1204 5594 1.182667 TCATGTACAGAGGGGACACG 58.817 55.000 0.33 0.00 0.00 4.49
1205 5595 0.460284 CATGTACAGAGGGGACACGC 60.460 60.000 0.33 0.00 0.00 5.34
1270 5660 1.605992 CATCTGCTCCAGGAAGGCA 59.394 57.895 3.44 3.44 37.29 4.75
1331 5721 0.322816 TTGCTGGCATCAAGACTCCC 60.323 55.000 0.00 0.00 0.00 4.30
1391 5781 3.191078 TCGTGGCCTAGTAGAGTAGAC 57.809 52.381 3.32 0.00 0.00 2.59
1472 5889 0.320771 GAGCCGGAGAAGCAGTGAAA 60.321 55.000 5.05 0.00 0.00 2.69
1474 5891 1.301677 GCCGGAGAAGCAGTGAAAGG 61.302 60.000 5.05 0.00 0.00 3.11
1573 6029 0.254462 TGTGTGTGGAGGCTTGTGAA 59.746 50.000 0.00 0.00 0.00 3.18
1677 6160 7.918033 TCTGAGCTTTATTTTACGATCTCTGAG 59.082 37.037 0.00 0.00 0.00 3.35
1678 6161 7.548097 TGAGCTTTATTTTACGATCTCTGAGT 58.452 34.615 4.32 0.00 0.00 3.41
1679 6162 7.702772 TGAGCTTTATTTTACGATCTCTGAGTC 59.297 37.037 4.32 1.36 0.00 3.36
1680 6163 7.777095 AGCTTTATTTTACGATCTCTGAGTCT 58.223 34.615 4.32 0.00 0.00 3.24
1681 6164 7.704472 AGCTTTATTTTACGATCTCTGAGTCTG 59.296 37.037 4.32 0.00 0.00 3.51
1682 6165 7.702772 GCTTTATTTTACGATCTCTGAGTCTGA 59.297 37.037 4.32 0.00 0.00 3.27
1683 6166 8.912787 TTTATTTTACGATCTCTGAGTCTGAC 57.087 34.615 4.32 0.00 0.00 3.51
1684 6167 4.601621 TTTACGATCTCTGAGTCTGACG 57.398 45.455 4.32 6.88 0.00 4.35
1685 6168 2.388310 ACGATCTCTGAGTCTGACGA 57.612 50.000 13.13 8.03 0.00 4.20
1722 6210 6.250527 CCGAAAAACTATGCCTTAACAAATCG 59.749 38.462 0.00 0.00 0.00 3.34
1734 6222 6.074463 GCCTTAACAAATCGAGTATTCGTAGG 60.074 42.308 7.56 4.65 46.72 3.18
1740 6228 1.611977 TCGAGTATTCGTAGGGCATGG 59.388 52.381 7.56 0.00 46.72 3.66
1742 6230 2.755650 GAGTATTCGTAGGGCATGGTG 58.244 52.381 0.00 0.00 0.00 4.17
1743 6231 1.202651 AGTATTCGTAGGGCATGGTGC 60.203 52.381 0.00 0.00 44.08 5.01
1744 6232 1.128200 TATTCGTAGGGCATGGTGCT 58.872 50.000 1.64 0.00 44.28 4.40
1745 6233 0.464373 ATTCGTAGGGCATGGTGCTG 60.464 55.000 1.64 0.00 44.28 4.41
1746 6234 1.549243 TTCGTAGGGCATGGTGCTGA 61.549 55.000 1.64 0.00 44.28 4.26
1747 6235 1.815421 CGTAGGGCATGGTGCTGAC 60.815 63.158 1.64 0.00 44.28 3.51
1748 6236 1.299648 GTAGGGCATGGTGCTGACA 59.700 57.895 1.64 0.00 44.28 3.58
1784 6272 3.890147 AGTATGTACTCCCTTCGATCCAC 59.110 47.826 0.00 0.00 0.00 4.02
1790 6281 4.138487 ACTCCCTTCGATCCACAATAAC 57.862 45.455 0.00 0.00 0.00 1.89
1796 6287 2.536365 TCGATCCACAATAACTGTCGC 58.464 47.619 0.00 0.00 35.47 5.19
1803 6294 2.282555 CACAATAACTGTCGCTGGATCG 59.717 50.000 0.00 0.00 35.47 3.69
1812 6303 2.818132 GCTGGATCGGAGGGAGTG 59.182 66.667 0.00 0.00 0.00 3.51
1818 6309 1.002274 ATCGGAGGGAGTGGCTTCT 59.998 57.895 0.00 0.00 0.00 2.85
1820 6311 0.836400 TCGGAGGGAGTGGCTTCTTT 60.836 55.000 0.00 0.00 0.00 2.52
1821 6312 0.674895 CGGAGGGAGTGGCTTCTTTG 60.675 60.000 0.00 0.00 0.00 2.77
1826 6317 2.108952 AGGGAGTGGCTTCTTTGTGAAT 59.891 45.455 0.00 0.00 33.71 2.57
1832 6323 4.051237 GTGGCTTCTTTGTGAATCAAACC 58.949 43.478 0.00 0.00 40.56 3.27
1833 6324 3.243367 TGGCTTCTTTGTGAATCAAACCG 60.243 43.478 0.00 0.00 40.56 4.44
1834 6325 2.726241 GCTTCTTTGTGAATCAAACCGC 59.274 45.455 0.00 0.00 40.56 5.68
1846 6337 3.311486 TCAAACCGCCATGAAAATTCC 57.689 42.857 0.00 0.00 0.00 3.01
1849 6340 2.214376 ACCGCCATGAAAATTCCTCA 57.786 45.000 0.00 0.00 0.00 3.86
1854 6345 4.157656 CCGCCATGAAAATTCCTCAGTTAA 59.842 41.667 0.00 0.00 0.00 2.01
1855 6346 5.163519 CCGCCATGAAAATTCCTCAGTTAAT 60.164 40.000 0.00 0.00 0.00 1.40
1856 6347 5.973565 CGCCATGAAAATTCCTCAGTTAATC 59.026 40.000 0.00 0.00 0.00 1.75
1857 6348 6.404623 CGCCATGAAAATTCCTCAGTTAATCA 60.405 38.462 0.00 0.00 0.00 2.57
1858 6349 7.495055 GCCATGAAAATTCCTCAGTTAATCAT 58.505 34.615 0.00 0.00 0.00 2.45
1859 6350 8.632679 GCCATGAAAATTCCTCAGTTAATCATA 58.367 33.333 0.00 0.00 0.00 2.15
1868 6359 7.782897 TCCTCAGTTAATCATATAGACTGGG 57.217 40.000 0.00 0.00 38.30 4.45
1870 6361 7.782897 CTCAGTTAATCATATAGACTGGGGA 57.217 40.000 0.00 0.00 38.53 4.81
1871 6362 8.372877 CTCAGTTAATCATATAGACTGGGGAT 57.627 38.462 0.00 0.00 38.53 3.85
1872 6363 8.138928 TCAGTTAATCATATAGACTGGGGATG 57.861 38.462 0.00 0.00 38.53 3.51
1873 6364 7.180946 TCAGTTAATCATATAGACTGGGGATGG 59.819 40.741 0.00 0.00 38.53 3.51
1874 6365 7.180946 CAGTTAATCATATAGACTGGGGATGGA 59.819 40.741 0.00 0.00 35.32 3.41
1875 6366 7.181125 AGTTAATCATATAGACTGGGGATGGAC 59.819 40.741 0.00 0.00 0.00 4.02
1876 6367 4.767000 TCATATAGACTGGGGATGGACT 57.233 45.455 0.00 0.00 0.00 3.85
1877 6368 5.093236 TCATATAGACTGGGGATGGACTT 57.907 43.478 0.00 0.00 0.00 3.01
1878 6369 4.840680 TCATATAGACTGGGGATGGACTTG 59.159 45.833 0.00 0.00 0.00 3.16
1879 6370 1.204146 TAGACTGGGGATGGACTTGC 58.796 55.000 0.00 0.00 0.00 4.01
1880 6371 0.842030 AGACTGGGGATGGACTTGCA 60.842 55.000 0.00 0.00 0.00 4.08
1881 6372 0.678048 GACTGGGGATGGACTTGCAC 60.678 60.000 0.00 0.00 0.00 4.57
1882 6373 1.379916 CTGGGGATGGACTTGCACA 59.620 57.895 0.00 0.00 0.00 4.57
1883 6374 0.251297 CTGGGGATGGACTTGCACAA 60.251 55.000 0.00 0.00 0.00 3.33
1884 6375 0.251297 TGGGGATGGACTTGCACAAG 60.251 55.000 8.82 8.82 43.79 3.16
1885 6376 0.038166 GGGGATGGACTTGCACAAGA 59.962 55.000 16.95 0.00 40.79 3.02
1886 6377 1.341383 GGGGATGGACTTGCACAAGAT 60.341 52.381 16.95 0.31 40.79 2.40
1887 6378 2.450476 GGGATGGACTTGCACAAGATT 58.550 47.619 16.95 0.00 40.79 2.40
1888 6379 2.827921 GGGATGGACTTGCACAAGATTT 59.172 45.455 16.95 0.00 40.79 2.17
1889 6380 3.367703 GGGATGGACTTGCACAAGATTTG 60.368 47.826 16.95 0.00 40.79 2.32
1890 6381 3.367703 GGATGGACTTGCACAAGATTTGG 60.368 47.826 16.95 0.00 40.79 3.28
1891 6382 1.962807 TGGACTTGCACAAGATTTGGG 59.037 47.619 16.95 0.00 40.79 4.12
1892 6383 2.238521 GGACTTGCACAAGATTTGGGA 58.761 47.619 16.95 0.00 40.79 4.37
1893 6384 2.627699 GGACTTGCACAAGATTTGGGAA 59.372 45.455 16.95 0.00 40.79 3.97
1894 6385 3.305608 GGACTTGCACAAGATTTGGGAAG 60.306 47.826 16.95 3.38 40.79 3.46
1895 6386 3.565307 ACTTGCACAAGATTTGGGAAGA 58.435 40.909 16.95 0.00 40.79 2.87
1896 6387 4.154942 ACTTGCACAAGATTTGGGAAGAT 58.845 39.130 16.95 0.00 40.79 2.40
1897 6388 4.590222 ACTTGCACAAGATTTGGGAAGATT 59.410 37.500 16.95 0.00 40.79 2.40
1898 6389 4.789012 TGCACAAGATTTGGGAAGATTC 57.211 40.909 0.00 0.00 35.62 2.52
1899 6390 3.511146 TGCACAAGATTTGGGAAGATTCC 59.489 43.478 2.81 2.81 46.82 3.01
1900 6391 8.192401 CTTGCACAAGATTTGGGAAGATTCCA 62.192 42.308 13.44 0.00 43.79 3.53
1901 6392 9.566778 CTTGCACAAGATTTGGGAAGATTCCAA 62.567 40.741 13.44 0.00 43.79 3.53
1914 6405 2.505819 AGATTCCAACTTACAGCCGGAT 59.494 45.455 5.05 0.00 0.00 4.18
2158 6671 4.684134 GCTGCCCTTGCCCTTCCA 62.684 66.667 0.00 0.00 36.33 3.53
2160 6673 3.185203 TGCCCTTGCCCTTCCAGT 61.185 61.111 0.00 0.00 36.33 4.00
2163 6676 2.750350 CCTTGCCCTTCCAGTCGT 59.250 61.111 0.00 0.00 0.00 4.34
2257 6770 2.579787 GTCCTCGCCGTCGATGTG 60.580 66.667 3.52 0.00 44.56 3.21
2266 6779 0.108615 CCGTCGATGTGCTCCTTCTT 60.109 55.000 3.52 0.00 0.00 2.52
2267 6780 0.994995 CGTCGATGTGCTCCTTCTTG 59.005 55.000 0.00 0.00 0.00 3.02
2272 6785 2.626840 GATGTGCTCCTTCTTGTCCTC 58.373 52.381 0.00 0.00 0.00 3.71
2273 6786 1.722034 TGTGCTCCTTCTTGTCCTCT 58.278 50.000 0.00 0.00 0.00 3.69
2359 6874 2.811431 CCACTGCCGTTTCTTCACAATA 59.189 45.455 0.00 0.00 0.00 1.90
2362 6877 4.154015 CACTGCCGTTTCTTCACAATATGA 59.846 41.667 0.00 0.00 34.65 2.15
2385 6900 1.333636 CGGATGGCTTCCTCCTCTGT 61.334 60.000 16.47 0.00 42.99 3.41
2512 7027 5.957771 TTCAATGGGACTTATAGTCTGCT 57.042 39.130 6.77 0.00 44.46 4.24
2544 7059 0.613777 GGGAAGGAGATGTGTTCCGT 59.386 55.000 0.00 0.00 40.71 4.69
2547 7065 2.758979 GGAAGGAGATGTGTTCCGTCTA 59.241 50.000 7.06 0.00 41.27 2.59
2549 7067 2.803956 AGGAGATGTGTTCCGTCTACA 58.196 47.619 0.00 0.00 41.88 2.74
2621 7139 2.082629 TATGGCATCGCGATGGACGT 62.083 55.000 40.84 29.07 44.60 4.34
2644 7162 1.669440 GTCCGTCAGTTGGGCACTA 59.331 57.895 0.00 0.00 32.76 2.74
2665 7183 1.341156 CCTCCCAGGAGTGGCTAAGG 61.341 65.000 12.65 0.00 43.44 2.69
2666 7184 0.618968 CTCCCAGGAGTGGCTAAGGT 60.619 60.000 5.47 0.00 43.44 3.50
2667 7185 0.178873 TCCCAGGAGTGGCTAAGGTT 60.179 55.000 0.00 0.00 43.44 3.50
2668 7186 0.035056 CCCAGGAGTGGCTAAGGTTG 60.035 60.000 0.00 0.00 43.44 3.77
2669 7187 0.678048 CCAGGAGTGGCTAAGGTTGC 60.678 60.000 0.00 0.00 36.89 4.17
2670 7188 0.326264 CAGGAGTGGCTAAGGTTGCT 59.674 55.000 0.00 0.00 0.00 3.91
2671 7189 1.068121 AGGAGTGGCTAAGGTTGCTT 58.932 50.000 0.00 0.00 0.00 3.91
2672 7190 1.003696 AGGAGTGGCTAAGGTTGCTTC 59.996 52.381 0.00 0.00 0.00 3.86
2673 7191 1.079503 GAGTGGCTAAGGTTGCTTCG 58.920 55.000 0.00 0.00 0.00 3.79
2674 7192 0.321653 AGTGGCTAAGGTTGCTTCGG 60.322 55.000 0.00 0.00 0.00 4.30
2675 7193 1.674322 TGGCTAAGGTTGCTTCGGC 60.674 57.895 0.00 0.00 42.19 5.54
2676 7194 2.750888 GGCTAAGGTTGCTTCGGCG 61.751 63.158 0.00 0.00 45.37 6.46
2677 7195 1.740296 GCTAAGGTTGCTTCGGCGA 60.740 57.895 4.99 4.99 45.37 5.54
2678 7196 1.696832 GCTAAGGTTGCTTCGGCGAG 61.697 60.000 10.46 5.82 45.37 5.03
2679 7197 0.108804 CTAAGGTTGCTTCGGCGAGA 60.109 55.000 10.46 0.33 45.37 4.04
2680 7198 0.108804 TAAGGTTGCTTCGGCGAGAG 60.109 55.000 10.46 11.82 45.37 3.20
2681 7199 2.788191 AAGGTTGCTTCGGCGAGAGG 62.788 60.000 10.46 5.97 45.37 3.69
2682 7200 2.261671 GTTGCTTCGGCGAGAGGA 59.738 61.111 10.46 9.33 45.37 3.71
2683 7201 1.153549 GTTGCTTCGGCGAGAGGAT 60.154 57.895 10.46 0.00 45.37 3.24
2684 7202 1.153568 TTGCTTCGGCGAGAGGATG 60.154 57.895 10.46 0.00 45.37 3.51
2685 7203 2.279784 GCTTCGGCGAGAGGATGG 60.280 66.667 10.46 0.00 0.00 3.51
2686 7204 2.419198 CTTCGGCGAGAGGATGGG 59.581 66.667 10.46 0.00 0.00 4.00
2687 7205 3.154473 TTCGGCGAGAGGATGGGG 61.154 66.667 10.46 0.00 0.00 4.96
2688 7206 3.672338 TTCGGCGAGAGGATGGGGA 62.672 63.158 10.46 0.00 0.00 4.81
2689 7207 2.919856 CGGCGAGAGGATGGGGAT 60.920 66.667 0.00 0.00 0.00 3.85
2690 7208 2.746359 GGCGAGAGGATGGGGATG 59.254 66.667 0.00 0.00 0.00 3.51
2691 7209 1.838846 GGCGAGAGGATGGGGATGA 60.839 63.158 0.00 0.00 0.00 2.92
2692 7210 1.670590 GCGAGAGGATGGGGATGAG 59.329 63.158 0.00 0.00 0.00 2.90
2693 7211 1.118356 GCGAGAGGATGGGGATGAGT 61.118 60.000 0.00 0.00 0.00 3.41
2694 7212 1.823648 GCGAGAGGATGGGGATGAGTA 60.824 57.143 0.00 0.00 0.00 2.59
2695 7213 2.813907 CGAGAGGATGGGGATGAGTAT 58.186 52.381 0.00 0.00 0.00 2.12
2696 7214 3.878131 GCGAGAGGATGGGGATGAGTATA 60.878 52.174 0.00 0.00 0.00 1.47
2697 7215 4.344978 CGAGAGGATGGGGATGAGTATAA 58.655 47.826 0.00 0.00 0.00 0.98
2698 7216 4.400884 CGAGAGGATGGGGATGAGTATAAG 59.599 50.000 0.00 0.00 0.00 1.73
2699 7217 5.337788 GAGAGGATGGGGATGAGTATAAGT 58.662 45.833 0.00 0.00 0.00 2.24
2700 7218 5.090139 AGAGGATGGGGATGAGTATAAGTG 58.910 45.833 0.00 0.00 0.00 3.16
2701 7219 5.087323 GAGGATGGGGATGAGTATAAGTGA 58.913 45.833 0.00 0.00 0.00 3.41
2702 7220 5.090139 AGGATGGGGATGAGTATAAGTGAG 58.910 45.833 0.00 0.00 0.00 3.51
2703 7221 4.223923 GGATGGGGATGAGTATAAGTGAGG 59.776 50.000 0.00 0.00 0.00 3.86
2704 7222 4.280789 TGGGGATGAGTATAAGTGAGGT 57.719 45.455 0.00 0.00 0.00 3.85
2705 7223 4.223953 TGGGGATGAGTATAAGTGAGGTC 58.776 47.826 0.00 0.00 0.00 3.85
2706 7224 3.256136 GGGGATGAGTATAAGTGAGGTCG 59.744 52.174 0.00 0.00 0.00 4.79
2707 7225 3.256136 GGGATGAGTATAAGTGAGGTCGG 59.744 52.174 0.00 0.00 0.00 4.79
2708 7226 3.256136 GGATGAGTATAAGTGAGGTCGGG 59.744 52.174 0.00 0.00 0.00 5.14
2709 7227 3.377253 TGAGTATAAGTGAGGTCGGGT 57.623 47.619 0.00 0.00 0.00 5.28
2710 7228 3.021695 TGAGTATAAGTGAGGTCGGGTG 58.978 50.000 0.00 0.00 0.00 4.61
2711 7229 2.361438 GAGTATAAGTGAGGTCGGGTGG 59.639 54.545 0.00 0.00 0.00 4.61
2712 7230 1.411612 GTATAAGTGAGGTCGGGTGGG 59.588 57.143 0.00 0.00 0.00 4.61
2713 7231 1.623542 ATAAGTGAGGTCGGGTGGGC 61.624 60.000 0.00 0.00 0.00 5.36
2731 7249 3.895025 CAGCATGGGTTGAGTCCG 58.105 61.111 0.00 0.00 0.00 4.79
2732 7250 1.296392 CAGCATGGGTTGAGTCCGA 59.704 57.895 0.00 0.00 0.00 4.55
2733 7251 1.021390 CAGCATGGGTTGAGTCCGAC 61.021 60.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 2.159226 GGATCTACCGACAGTCCAACAG 60.159 54.545 0.00 0.00 0.00 3.16
174 176 3.675225 CCATCAGAATATCTAACGTGGCG 59.325 47.826 0.00 0.00 0.00 5.69
219 227 0.607112 TTGGTGGGATAACGCGTGTA 59.393 50.000 14.98 8.13 0.00 2.90
226 234 2.166254 CCATGCAACTTGGTGGGATAAC 59.834 50.000 0.00 0.00 0.00 1.89
301 309 3.695830 TTGTAGCCTTTGTCCACTAGG 57.304 47.619 0.00 0.00 0.00 3.02
302 310 4.894784 TCTTTGTAGCCTTTGTCCACTAG 58.105 43.478 0.00 0.00 0.00 2.57
303 311 4.967084 TCTTTGTAGCCTTTGTCCACTA 57.033 40.909 0.00 0.00 0.00 2.74
304 312 3.857157 TCTTTGTAGCCTTTGTCCACT 57.143 42.857 0.00 0.00 0.00 4.00
306 314 6.998074 CCATATATCTTTGTAGCCTTTGTCCA 59.002 38.462 0.00 0.00 0.00 4.02
307 315 6.072452 GCCATATATCTTTGTAGCCTTTGTCC 60.072 42.308 0.00 0.00 0.00 4.02
309 317 5.470098 CGCCATATATCTTTGTAGCCTTTGT 59.530 40.000 0.00 0.00 0.00 2.83
310 318 5.700832 TCGCCATATATCTTTGTAGCCTTTG 59.299 40.000 0.00 0.00 0.00 2.77
311 319 5.865085 TCGCCATATATCTTTGTAGCCTTT 58.135 37.500 0.00 0.00 0.00 3.11
312 320 5.483685 TCGCCATATATCTTTGTAGCCTT 57.516 39.130 0.00 0.00 0.00 4.35
313 321 5.683876 ATCGCCATATATCTTTGTAGCCT 57.316 39.130 0.00 0.00 0.00 4.58
314 322 6.338146 TGTATCGCCATATATCTTTGTAGCC 58.662 40.000 0.00 0.00 0.00 3.93
316 324 9.755804 ATGATGTATCGCCATATATCTTTGTAG 57.244 33.333 8.96 0.00 35.25 2.74
317 325 9.750125 GATGATGTATCGCCATATATCTTTGTA 57.250 33.333 8.96 0.00 35.25 2.41
318 326 7.712639 GGATGATGTATCGCCATATATCTTTGT 59.287 37.037 8.96 0.00 35.25 2.83
319 327 7.930325 AGGATGATGTATCGCCATATATCTTTG 59.070 37.037 8.96 0.00 35.25 2.77
320 328 8.027524 AGGATGATGTATCGCCATATATCTTT 57.972 34.615 8.96 0.00 35.25 2.52
322 330 7.947332 ACTAGGATGATGTATCGCCATATATCT 59.053 37.037 8.96 0.00 35.25 1.98
323 331 8.116651 ACTAGGATGATGTATCGCCATATATC 57.883 38.462 1.86 1.86 36.62 1.63
324 332 7.094592 CGACTAGGATGATGTATCGCCATATAT 60.095 40.741 0.00 0.00 36.62 0.86
325 333 6.204882 CGACTAGGATGATGTATCGCCATATA 59.795 42.308 0.00 0.00 36.62 0.86
326 334 5.009110 CGACTAGGATGATGTATCGCCATAT 59.991 44.000 0.00 0.00 36.62 1.78
327 335 4.335594 CGACTAGGATGATGTATCGCCATA 59.664 45.833 0.00 0.00 36.62 2.74
328 336 3.129462 CGACTAGGATGATGTATCGCCAT 59.871 47.826 0.00 0.00 36.62 4.40
329 337 2.488153 CGACTAGGATGATGTATCGCCA 59.512 50.000 0.00 0.00 36.62 5.69
585 710 1.433879 CGGTTTTGTGGTTCCGCAA 59.566 52.632 12.94 12.94 36.68 4.85
645 800 9.174166 GTAGGAATACCTTTGTAAACATGTCAT 57.826 33.333 0.00 0.00 45.36 3.06
734 1487 1.006805 GCACTCAGCTGTGTCGACT 60.007 57.895 18.18 0.00 41.15 4.18
851 1611 3.929389 GCTAATCAGCTCGCCGAG 58.071 61.111 10.36 10.36 44.93 4.63
904 2955 0.593263 GACGGACGTCGAAACACAGT 60.593 55.000 9.92 0.00 42.43 3.55
997 5330 4.933563 TGCTGGTGCTGCTGCGAA 62.934 61.111 11.21 0.00 43.34 4.70
1003 5361 1.505353 CTTAGCTTGCTGGTGCTGC 59.495 57.895 5.26 0.00 40.08 5.25
1012 5370 1.008329 CTGAGCAGAGCTTAGCTTGC 58.992 55.000 23.59 23.59 42.04 4.01
1040 5423 2.186826 GTGTGTGGTGGCGAGCTTT 61.187 57.895 0.00 0.00 0.00 3.51
1072 5457 3.056179 AGAAGAAGGAGCAAGCTACTGAC 60.056 47.826 7.72 5.68 37.30 3.51
1204 5594 4.087892 TCCTCGCTGCAGAAGGGC 62.088 66.667 26.50 9.80 38.71 5.19
1205 5595 2.186384 CTCCTCGCTGCAGAAGGG 59.814 66.667 26.50 19.39 40.19 3.95
1312 5702 0.322816 GGGAGTCTTGATGCCAGCAA 60.323 55.000 0.00 0.00 0.00 3.91
1313 5703 1.300963 GGGAGTCTTGATGCCAGCA 59.699 57.895 0.00 0.00 0.00 4.41
1370 5760 3.054875 TGTCTACTCTACTAGGCCACGAA 60.055 47.826 5.01 0.00 0.00 3.85
1391 5781 2.607771 CCCGTTGATTCAAGCCAAGTTG 60.608 50.000 0.00 0.00 0.00 3.16
1472 5889 3.072184 AGCACATGAACTTTCTCAGACCT 59.928 43.478 0.00 0.00 0.00 3.85
1474 5891 4.060900 TCAGCACATGAACTTTCTCAGAC 58.939 43.478 0.00 0.00 34.02 3.51
1677 6160 2.243407 GACAGATGAACGTCGTCAGAC 58.757 52.381 0.00 0.00 43.72 3.51
1678 6161 1.199327 GGACAGATGAACGTCGTCAGA 59.801 52.381 0.00 0.00 34.91 3.27
1679 6162 1.618861 GGACAGATGAACGTCGTCAG 58.381 55.000 0.00 0.00 34.91 3.51
1680 6163 0.109919 CGGACAGATGAACGTCGTCA 60.110 55.000 0.00 0.00 34.91 4.35
1681 6164 0.167470 TCGGACAGATGAACGTCGTC 59.833 55.000 0.00 0.00 32.74 4.20
1682 6165 0.594602 TTCGGACAGATGAACGTCGT 59.405 50.000 0.00 0.00 32.74 4.34
1683 6166 1.693467 TTTCGGACAGATGAACGTCG 58.307 50.000 0.00 0.00 32.74 5.12
1684 6167 3.493503 AGTTTTTCGGACAGATGAACGTC 59.506 43.478 0.00 0.00 32.60 4.34
1685 6168 3.463944 AGTTTTTCGGACAGATGAACGT 58.536 40.909 0.00 0.00 32.60 3.99
1722 6210 2.755650 CACCATGCCCTACGAATACTC 58.244 52.381 0.00 0.00 0.00 2.59
1734 6222 2.986306 GCAGTGTCAGCACCATGCC 61.986 63.158 0.00 0.00 46.52 4.40
1740 6228 0.041839 CGTTCAAGCAGTGTCAGCAC 60.042 55.000 0.00 0.00 45.57 4.40
1742 6230 0.937304 TTCGTTCAAGCAGTGTCAGC 59.063 50.000 0.00 0.00 0.00 4.26
1743 6231 2.609459 ACTTTCGTTCAAGCAGTGTCAG 59.391 45.455 0.00 0.00 0.00 3.51
1744 6232 2.627945 ACTTTCGTTCAAGCAGTGTCA 58.372 42.857 0.00 0.00 0.00 3.58
1745 6233 4.211374 ACATACTTTCGTTCAAGCAGTGTC 59.789 41.667 0.00 0.00 0.00 3.67
1746 6234 4.127171 ACATACTTTCGTTCAAGCAGTGT 58.873 39.130 0.00 0.00 0.00 3.55
1747 6235 4.732285 ACATACTTTCGTTCAAGCAGTG 57.268 40.909 0.00 0.00 0.00 3.66
1748 6236 5.539048 AGTACATACTTTCGTTCAAGCAGT 58.461 37.500 0.00 0.00 31.13 4.40
1784 6272 1.860950 CCGATCCAGCGACAGTTATTG 59.139 52.381 0.00 0.00 0.00 1.90
1790 6281 2.415010 CCTCCGATCCAGCGACAG 59.585 66.667 0.00 0.00 0.00 3.51
1796 6287 2.801631 GCCACTCCCTCCGATCCAG 61.802 68.421 0.00 0.00 0.00 3.86
1803 6294 0.402121 ACAAAGAAGCCACTCCCTCC 59.598 55.000 0.00 0.00 0.00 4.30
1818 6309 2.625314 TCATGGCGGTTTGATTCACAAA 59.375 40.909 0.00 0.00 44.79 2.83
1820 6311 1.902938 TCATGGCGGTTTGATTCACA 58.097 45.000 0.00 0.00 0.00 3.58
1821 6312 3.296322 TTTCATGGCGGTTTGATTCAC 57.704 42.857 0.00 0.00 0.00 3.18
1826 6317 2.896685 AGGAATTTTCATGGCGGTTTGA 59.103 40.909 0.00 0.00 0.00 2.69
1832 6323 3.855689 AACTGAGGAATTTTCATGGCG 57.144 42.857 0.00 0.00 0.00 5.69
1833 6324 6.866480 TGATTAACTGAGGAATTTTCATGGC 58.134 36.000 0.00 0.00 0.00 4.40
1846 6337 7.782897 TCCCCAGTCTATATGATTAACTGAG 57.217 40.000 2.54 0.00 39.72 3.35
1849 6340 7.181125 GTCCATCCCCAGTCTATATGATTAACT 59.819 40.741 0.00 0.00 0.00 2.24
1854 6345 5.296909 AGTCCATCCCCAGTCTATATGAT 57.703 43.478 0.00 0.00 0.00 2.45
1855 6346 4.767000 AGTCCATCCCCAGTCTATATGA 57.233 45.455 0.00 0.00 0.00 2.15
1856 6347 4.564406 GCAAGTCCATCCCCAGTCTATATG 60.564 50.000 0.00 0.00 0.00 1.78
1857 6348 3.584848 GCAAGTCCATCCCCAGTCTATAT 59.415 47.826 0.00 0.00 0.00 0.86
1858 6349 2.972713 GCAAGTCCATCCCCAGTCTATA 59.027 50.000 0.00 0.00 0.00 1.31
1859 6350 1.771255 GCAAGTCCATCCCCAGTCTAT 59.229 52.381 0.00 0.00 0.00 1.98
1860 6351 1.204146 GCAAGTCCATCCCCAGTCTA 58.796 55.000 0.00 0.00 0.00 2.59
1861 6352 0.842030 TGCAAGTCCATCCCCAGTCT 60.842 55.000 0.00 0.00 0.00 3.24
1862 6353 0.678048 GTGCAAGTCCATCCCCAGTC 60.678 60.000 0.00 0.00 0.00 3.51
1863 6354 1.380302 GTGCAAGTCCATCCCCAGT 59.620 57.895 0.00 0.00 0.00 4.00
1864 6355 0.251297 TTGTGCAAGTCCATCCCCAG 60.251 55.000 0.00 0.00 0.00 4.45
1865 6356 0.251297 CTTGTGCAAGTCCATCCCCA 60.251 55.000 3.91 0.00 33.87 4.96
1866 6357 0.038166 TCTTGTGCAAGTCCATCCCC 59.962 55.000 11.17 0.00 39.38 4.81
1867 6358 2.134789 ATCTTGTGCAAGTCCATCCC 57.865 50.000 11.17 0.00 39.38 3.85
1868 6359 3.367703 CCAAATCTTGTGCAAGTCCATCC 60.368 47.826 11.17 0.00 39.38 3.51
1869 6360 3.367703 CCCAAATCTTGTGCAAGTCCATC 60.368 47.826 11.17 0.00 39.38 3.51
1870 6361 2.564062 CCCAAATCTTGTGCAAGTCCAT 59.436 45.455 11.17 0.00 39.38 3.41
1871 6362 1.962807 CCCAAATCTTGTGCAAGTCCA 59.037 47.619 11.17 0.00 39.38 4.02
1872 6363 2.238521 TCCCAAATCTTGTGCAAGTCC 58.761 47.619 11.17 0.00 39.38 3.85
1873 6364 3.569701 TCTTCCCAAATCTTGTGCAAGTC 59.430 43.478 11.17 0.00 39.38 3.01
1874 6365 3.565307 TCTTCCCAAATCTTGTGCAAGT 58.435 40.909 11.17 0.00 39.38 3.16
1875 6366 4.796038 ATCTTCCCAAATCTTGTGCAAG 57.204 40.909 5.63 5.63 39.71 4.01
1876 6367 4.021192 GGAATCTTCCCAAATCTTGTGCAA 60.021 41.667 0.00 0.00 41.62 4.08
1877 6368 3.511146 GGAATCTTCCCAAATCTTGTGCA 59.489 43.478 0.00 0.00 41.62 4.57
1878 6369 4.115401 GGAATCTTCCCAAATCTTGTGC 57.885 45.455 0.00 0.00 41.62 4.57
1883 6374 8.713950 GCTGTAAGTTGGAATCTTCCCAAATCT 61.714 40.741 6.51 0.00 44.41 2.40
1884 6375 6.625960 GCTGTAAGTTGGAATCTTCCCAAATC 60.626 42.308 6.51 0.00 44.41 2.17
1885 6376 5.185828 GCTGTAAGTTGGAATCTTCCCAAAT 59.814 40.000 6.51 0.00 44.41 2.32
1886 6377 4.522789 GCTGTAAGTTGGAATCTTCCCAAA 59.477 41.667 6.51 0.00 44.41 3.28
1887 6378 4.079253 GCTGTAAGTTGGAATCTTCCCAA 58.921 43.478 6.51 0.00 41.08 4.12
1888 6379 3.561313 GGCTGTAAGTTGGAATCTTCCCA 60.561 47.826 6.51 0.00 41.08 4.37
1889 6380 3.017442 GGCTGTAAGTTGGAATCTTCCC 58.983 50.000 6.51 0.00 41.08 3.97
1890 6381 2.678336 CGGCTGTAAGTTGGAATCTTCC 59.322 50.000 1.83 1.83 41.77 3.46
1891 6382 2.678336 CCGGCTGTAAGTTGGAATCTTC 59.322 50.000 0.00 0.00 35.30 2.87
1892 6383 2.304761 TCCGGCTGTAAGTTGGAATCTT 59.695 45.455 0.00 0.00 36.62 2.40
1893 6384 1.906574 TCCGGCTGTAAGTTGGAATCT 59.093 47.619 0.00 0.00 36.62 2.40
1894 6385 2.396590 TCCGGCTGTAAGTTGGAATC 57.603 50.000 0.00 0.00 36.62 2.52
1895 6386 3.366052 AATCCGGCTGTAAGTTGGAAT 57.634 42.857 0.00 0.00 41.49 3.01
1896 6387 2.817258 CAAATCCGGCTGTAAGTTGGAA 59.183 45.455 0.00 0.00 41.49 3.53
1897 6388 2.432444 CAAATCCGGCTGTAAGTTGGA 58.568 47.619 0.00 0.00 42.17 3.53
1898 6389 1.472480 CCAAATCCGGCTGTAAGTTGG 59.528 52.381 5.10 5.10 35.30 3.77
1899 6390 2.919666 CCAAATCCGGCTGTAAGTTG 57.080 50.000 0.00 0.00 35.30 3.16
2158 6671 2.156051 GAAGGACGGCAAGGACGACT 62.156 60.000 0.00 0.00 35.20 4.18
2160 6673 1.874345 GAGAAGGACGGCAAGGACGA 61.874 60.000 0.00 0.00 35.20 4.20
2163 6676 2.970639 CGAGAAGGACGGCAAGGA 59.029 61.111 0.00 0.00 0.00 3.36
2196 6709 2.099831 CGGTCCGTACTGCGTCTC 59.900 66.667 2.08 0.00 39.32 3.36
2257 6770 1.338579 CCACAGAGGACAAGAAGGAGC 60.339 57.143 0.00 0.00 41.22 4.70
2266 6779 2.574018 CGGACTGCCACAGAGGACA 61.574 63.158 0.78 0.00 41.22 4.02
2267 6780 2.262915 CGGACTGCCACAGAGGAC 59.737 66.667 0.78 0.00 41.22 3.85
2291 6805 1.014044 CAGAATCGGACGGTGTGTGG 61.014 60.000 0.00 0.00 0.00 4.17
2296 6810 1.772182 GATAGCAGAATCGGACGGTG 58.228 55.000 0.00 0.00 0.00 4.94
2359 6874 2.590007 GAAGCCATCCGCGCTCAT 60.590 61.111 5.56 0.00 44.76 2.90
2432 6947 4.647615 CGAGGCCCGTATCGCAGG 62.648 72.222 0.00 0.00 31.42 4.85
2450 6965 1.400530 AAGGAGAGGATAACGGCCGG 61.401 60.000 31.76 11.88 0.00 6.13
2456 6971 2.224646 GCCATGGGAAGGAGAGGATAAC 60.225 54.545 15.13 0.00 0.00 1.89
2490 7005 5.451937 CGAGCAGACTATAAGTCCCATTGAA 60.452 44.000 3.49 0.00 46.18 2.69
2493 7008 4.215908 TCGAGCAGACTATAAGTCCCATT 58.784 43.478 3.49 0.00 46.18 3.16
2512 7027 1.399744 CCTTCCCCATCACCGATCGA 61.400 60.000 18.66 0.00 0.00 3.59
2544 7059 2.280404 ATCCTCGCGGTCCCTGTAGA 62.280 60.000 6.13 0.00 0.00 2.59
2547 7065 2.125961 GTATCCTCGCGGTCCCTGT 61.126 63.158 6.13 0.00 0.00 4.00
2549 7067 1.828660 CTGTATCCTCGCGGTCCCT 60.829 63.158 6.13 0.00 0.00 4.20
2564 7082 1.770110 TTGGGTCCTCTGGTGCTGT 60.770 57.895 0.00 0.00 0.00 4.40
2600 7118 0.319900 GTCCATCGCGATGCCATAGT 60.320 55.000 37.48 6.13 37.49 2.12
2621 7139 1.952102 GCCCAACTGACGGACGGATA 61.952 60.000 0.00 0.00 0.00 2.59
2633 7151 2.621486 GGGAGGATAGTGCCCAACT 58.379 57.895 0.00 0.00 41.64 3.16
2644 7162 0.343372 TTAGCCACTCCTGGGAGGAT 59.657 55.000 19.32 6.30 44.81 3.24
2661 7179 0.108804 CTCTCGCCGAAGCAACCTTA 60.109 55.000 0.00 0.00 39.83 2.69
2665 7183 1.153549 ATCCTCTCGCCGAAGCAAC 60.154 57.895 0.00 0.00 39.83 4.17
2666 7184 1.153568 CATCCTCTCGCCGAAGCAA 60.154 57.895 0.00 0.00 39.83 3.91
2667 7185 2.496341 CATCCTCTCGCCGAAGCA 59.504 61.111 0.00 0.00 39.83 3.91
2668 7186 2.279784 CCATCCTCTCGCCGAAGC 60.280 66.667 0.00 0.00 0.00 3.86
2669 7187 2.419198 CCCATCCTCTCGCCGAAG 59.581 66.667 0.00 0.00 0.00 3.79
2670 7188 2.946988 ATCCCCATCCTCTCGCCGAA 62.947 60.000 0.00 0.00 0.00 4.30
2671 7189 3.452621 ATCCCCATCCTCTCGCCGA 62.453 63.158 0.00 0.00 0.00 5.54
2672 7190 2.919856 ATCCCCATCCTCTCGCCG 60.920 66.667 0.00 0.00 0.00 6.46
2673 7191 1.825281 CTCATCCCCATCCTCTCGCC 61.825 65.000 0.00 0.00 0.00 5.54
2674 7192 1.118356 ACTCATCCCCATCCTCTCGC 61.118 60.000 0.00 0.00 0.00 5.03
2675 7193 2.294449 TACTCATCCCCATCCTCTCG 57.706 55.000 0.00 0.00 0.00 4.04
2676 7194 5.186797 CACTTATACTCATCCCCATCCTCTC 59.813 48.000 0.00 0.00 0.00 3.20
2677 7195 5.090139 CACTTATACTCATCCCCATCCTCT 58.910 45.833 0.00 0.00 0.00 3.69
2678 7196 5.087323 TCACTTATACTCATCCCCATCCTC 58.913 45.833 0.00 0.00 0.00 3.71
2679 7197 5.090139 CTCACTTATACTCATCCCCATCCT 58.910 45.833 0.00 0.00 0.00 3.24
2680 7198 4.223923 CCTCACTTATACTCATCCCCATCC 59.776 50.000 0.00 0.00 0.00 3.51
2681 7199 4.841246 ACCTCACTTATACTCATCCCCATC 59.159 45.833 0.00 0.00 0.00 3.51
2682 7200 4.832492 ACCTCACTTATACTCATCCCCAT 58.168 43.478 0.00 0.00 0.00 4.00
2683 7201 4.223953 GACCTCACTTATACTCATCCCCA 58.776 47.826 0.00 0.00 0.00 4.96
2684 7202 3.256136 CGACCTCACTTATACTCATCCCC 59.744 52.174 0.00 0.00 0.00 4.81
2685 7203 3.256136 CCGACCTCACTTATACTCATCCC 59.744 52.174 0.00 0.00 0.00 3.85
2686 7204 3.256136 CCCGACCTCACTTATACTCATCC 59.744 52.174 0.00 0.00 0.00 3.51
2687 7205 3.890147 ACCCGACCTCACTTATACTCATC 59.110 47.826 0.00 0.00 0.00 2.92
2688 7206 3.637229 CACCCGACCTCACTTATACTCAT 59.363 47.826 0.00 0.00 0.00 2.90
2689 7207 3.021695 CACCCGACCTCACTTATACTCA 58.978 50.000 0.00 0.00 0.00 3.41
2690 7208 2.361438 CCACCCGACCTCACTTATACTC 59.639 54.545 0.00 0.00 0.00 2.59
2691 7209 2.385803 CCACCCGACCTCACTTATACT 58.614 52.381 0.00 0.00 0.00 2.12
2692 7210 1.411612 CCCACCCGACCTCACTTATAC 59.588 57.143 0.00 0.00 0.00 1.47
2693 7211 1.784358 CCCACCCGACCTCACTTATA 58.216 55.000 0.00 0.00 0.00 0.98
2694 7212 1.623542 GCCCACCCGACCTCACTTAT 61.624 60.000 0.00 0.00 0.00 1.73
2695 7213 2.288025 GCCCACCCGACCTCACTTA 61.288 63.158 0.00 0.00 0.00 2.24
2696 7214 3.637273 GCCCACCCGACCTCACTT 61.637 66.667 0.00 0.00 0.00 3.16
2707 7225 4.702274 AACCCATGCTGGCCCACC 62.702 66.667 0.00 0.00 35.79 4.61
2708 7226 3.384532 CAACCCATGCTGGCCCAC 61.385 66.667 0.00 0.00 35.79 4.61
2709 7227 3.588511 TCAACCCATGCTGGCCCA 61.589 61.111 0.00 0.00 35.79 5.36
2710 7228 2.757099 CTCAACCCATGCTGGCCC 60.757 66.667 0.00 0.00 35.79 5.80
2711 7229 2.036256 ACTCAACCCATGCTGGCC 59.964 61.111 0.00 0.00 35.79 5.36
2712 7230 2.048603 GGACTCAACCCATGCTGGC 61.049 63.158 0.00 0.00 35.79 4.85
2713 7231 1.746615 CGGACTCAACCCATGCTGG 60.747 63.158 0.00 0.00 37.25 4.85
2714 7232 1.021390 GTCGGACTCAACCCATGCTG 61.021 60.000 0.00 0.00 0.00 4.41
2715 7233 1.296715 GTCGGACTCAACCCATGCT 59.703 57.895 0.00 0.00 0.00 3.79
2716 7234 3.890674 GTCGGACTCAACCCATGC 58.109 61.111 0.00 0.00 0.00 4.06


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

AutoCloner maintained by Alex Coulton.