Multiple sequence alignment - TraesCS7B01G404900

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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 TraesCS7B01G404900 chr7B 100.000 2651 0 0 1 2651 672861878 672859228 0.000000e+00 4896.0
1 TraesCS7B01G404900 chr7B 83.957 829 92 25 685 1495 673221830 673221025 0.000000e+00 756.0
2 TraesCS7B01G404900 chr7B 88.183 567 61 4 998 1558 672779979 672779413 0.000000e+00 671.0
3 TraesCS7B01G404900 chr7B 88.955 335 34 2 2318 2651 156416779 156416447 6.830000e-111 411.0
4 TraesCS7B01G404900 chr7B 87.500 280 19 8 1522 1801 672779479 672779216 2.560000e-80 309.0
5 TraesCS7B01G404900 chr7B 80.093 216 19 3 1000 1206 672844446 672844246 3.560000e-29 139.0
6 TraesCS7B01G404900 chr7B 80.576 139 23 3 1 138 672780996 672780861 1.300000e-18 104.0
7 TraesCS7B01G404900 chr7B 82.955 88 14 1 1 88 672985911 672985825 7.870000e-11 78.7
8 TraesCS7B01G404900 chr7B 94.737 38 1 1 828 864 672776156 672776119 1.020000e-04 58.4
9 TraesCS7B01G404900 chr7A 90.448 1874 109 18 88 1952 688463570 688461758 0.000000e+00 2405.0
10 TraesCS7B01G404900 chr7A 85.000 820 82 17 987 1801 688360434 688359651 0.000000e+00 795.0
11 TraesCS7B01G404900 chr7A 84.406 699 74 19 806 1495 688666094 688665422 0.000000e+00 654.0
12 TraesCS7B01G404900 chr7A 83.385 644 74 16 1080 1711 688356420 688355798 1.380000e-157 566.0
13 TraesCS7B01G404900 chr7A 87.129 202 16 2 1953 2147 688461712 688461514 1.240000e-53 220.0
14 TraesCS7B01G404900 chr7A 95.122 82 4 0 1 82 688463742 688463661 2.140000e-26 130.0
15 TraesCS7B01G404900 chr7A 78.286 175 33 2 1 171 688617508 688617335 1.000000e-19 108.0
16 TraesCS7B01G404900 chr7A 90.196 51 1 3 813 863 688356610 688356564 2.200000e-06 63.9
17 TraesCS7B01G404900 chr7D 90.993 1743 116 18 528 2249 595587516 595585794 0.000000e+00 2311.0
18 TraesCS7B01G404900 chr7D 85.312 817 92 13 998 1801 595514254 595513453 0.000000e+00 819.0
19 TraesCS7B01G404900 chr7D 89.818 550 38 8 1 539 595591184 595590642 0.000000e+00 689.0
20 TraesCS7B01G404900 chr7D 84.555 641 74 15 1080 1711 595510196 595509572 1.740000e-171 612.0
21 TraesCS7B01G404900 chr7D 92.381 210 15 1 998 1206 595581895 595581686 5.550000e-77 298.0
22 TraesCS7B01G404900 chr7D 78.488 172 32 4 1 171 595607823 595607656 1.000000e-19 108.0
23 TraesCS7B01G404900 chr7D 84.337 83 11 1 1870 1950 595513421 595513339 2.190000e-11 80.5
24 TraesCS7B01G404900 chr7D 94.737 38 1 1 828 864 595510364 595510327 1.020000e-04 58.4
25 TraesCS7B01G404900 chr5D 89.583 336 31 3 2318 2651 552029045 552028712 8.770000e-115 424.0
26 TraesCS7B01G404900 chr5D 88.724 337 33 4 2318 2651 78602934 78602600 8.830000e-110 407.0
27 TraesCS7B01G404900 chr3A 89.349 338 30 4 2318 2651 693613629 693613294 1.130000e-113 420.0
28 TraesCS7B01G404900 chr2B 89.521 334 31 2 2318 2651 191888644 191888315 1.130000e-113 420.0
29 TraesCS7B01G404900 chr4D 89.286 336 32 3 2318 2651 491381490 491381823 4.080000e-113 418.0
30 TraesCS7B01G404900 chr3D 89.286 336 30 4 2318 2651 388399237 388399568 1.470000e-112 416.0
31 TraesCS7B01G404900 chr2D 89.318 337 28 6 2318 2651 130079133 130078802 1.470000e-112 416.0
32 TraesCS7B01G404900 chr6D 88.955 335 32 4 2317 2649 420171216 420171547 2.460000e-110 409.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G404900 chr7B 672859228 672861878 2650 True 4896.000000 4896 100.000000 1 2651 1 chr7B.!!$R3 2650
1 TraesCS7B01G404900 chr7B 673221025 673221830 805 True 756.000000 756 83.957000 685 1495 1 chr7B.!!$R5 810
2 TraesCS7B01G404900 chr7B 672776119 672780996 4877 True 285.600000 671 87.749000 1 1801 4 chr7B.!!$R6 1800
3 TraesCS7B01G404900 chr7A 688461514 688463742 2228 True 918.333333 2405 90.899667 1 2147 3 chr7A.!!$R4 2146
4 TraesCS7B01G404900 chr7A 688665422 688666094 672 True 654.000000 654 84.406000 806 1495 1 chr7A.!!$R2 689
5 TraesCS7B01G404900 chr7A 688355798 688360434 4636 True 474.966667 795 86.193667 813 1801 3 chr7A.!!$R3 988
6 TraesCS7B01G404900 chr7D 595581686 595591184 9498 True 1099.333333 2311 91.064000 1 2249 3 chr7D.!!$R3 2248
7 TraesCS7B01G404900 chr7D 595509572 595514254 4682 True 392.475000 819 87.235250 828 1950 4 chr7D.!!$R2 1122

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
30 31 0.034574 TGAATGATTGGTCCACCCGG 60.035 55.0 0.0 0.0 35.15 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1797 13399 0.032678 AAGTCTCGCATATGGGCTCG 59.967 55.0 14.65 4.61 0.0 5.03 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
30 31 0.034574 TGAATGATTGGTCCACCCGG 60.035 55.000 0.00 0.00 35.15 5.73
41 42 1.227263 CCACCCGGCGTTCTATCTG 60.227 63.158 6.01 0.00 0.00 2.90
76 77 6.845758 TGATCCCTACGTAATATACCTTGG 57.154 41.667 0.00 0.00 0.00 3.61
82 83 8.152246 TCCCTACGTAATATACCTTGGAATTTG 58.848 37.037 0.00 0.00 0.00 2.32
149 235 9.209175 CTTAGTCAGCTAAAAACATCACTTAGT 57.791 33.333 0.00 0.00 36.82 2.24
175 261 7.342318 CAAAATTGGAGTATTGAAAGTGCAG 57.658 36.000 0.00 0.00 0.00 4.41
199 285 8.596380 CAGAACTAGAGGAAAATTTACGTGATC 58.404 37.037 0.00 0.00 0.00 2.92
305 782 2.277858 AGTAGACGACTTGGCCTGG 58.722 57.895 3.32 0.00 33.13 4.45
306 783 0.251653 AGTAGACGACTTGGCCTGGA 60.252 55.000 3.32 0.00 33.13 3.86
307 784 0.824759 GTAGACGACTTGGCCTGGAT 59.175 55.000 3.32 0.00 0.00 3.41
308 785 1.112113 TAGACGACTTGGCCTGGATC 58.888 55.000 3.32 0.00 0.00 3.36
309 786 1.153349 GACGACTTGGCCTGGATCC 60.153 63.158 4.20 4.20 0.00 3.36
311 788 2.721167 CGACTTGGCCTGGATCCGA 61.721 63.158 7.39 0.00 0.00 4.55
356 837 2.254546 TCGCCATATGACATTGACCC 57.745 50.000 3.65 0.00 0.00 4.46
357 838 1.202758 TCGCCATATGACATTGACCCC 60.203 52.381 3.65 0.00 0.00 4.95
366 847 0.999712 ACATTGACCCCGGATCCTTT 59.000 50.000 10.75 0.00 0.00 3.11
373 854 0.039035 CCCCGGATCCTTTGAAACCA 59.961 55.000 10.75 0.00 0.00 3.67
431 912 9.658475 TCTAAAACAAAATCGTTTCACTGTATG 57.342 29.630 0.00 0.00 38.13 2.39
558 4179 4.957327 AGTTAACACAAAAACCTTAGCCCA 59.043 37.500 8.61 0.00 0.00 5.36
569 4190 5.675684 AACCTTAGCCCAATGGTAAAATG 57.324 39.130 0.00 0.00 36.54 2.32
600 4221 7.436673 ACACACTTAATCATCGCTAATCTCTTC 59.563 37.037 0.00 0.00 0.00 2.87
601 4222 7.651304 CACACTTAATCATCGCTAATCTCTTCT 59.349 37.037 0.00 0.00 0.00 2.85
602 4223 7.651304 ACACTTAATCATCGCTAATCTCTTCTG 59.349 37.037 0.00 0.00 0.00 3.02
603 4224 7.651304 CACTTAATCATCGCTAATCTCTTCTGT 59.349 37.037 0.00 0.00 0.00 3.41
608 4229 7.295952 TCATCGCTAATCTCTTCTGTTTTTC 57.704 36.000 0.00 0.00 0.00 2.29
681 4302 7.467675 GCTTTGAAAATTGCAGTGGAGATTTTT 60.468 33.333 14.08 9.10 33.29 1.94
683 4304 5.691305 TGAAAATTGCAGTGGAGATTTTTCG 59.309 36.000 16.86 0.00 33.29 3.46
804 4433 9.178758 ACAAATAGACAATCCTCCTATGTTTTC 57.821 33.333 0.00 0.00 0.00 2.29
844 4475 4.112331 GGCCTCCTCCCCTATAAATACAT 58.888 47.826 0.00 0.00 0.00 2.29
865 4496 1.359130 CCCATTTCCCTCTCACCCTTT 59.641 52.381 0.00 0.00 0.00 3.11
886 4532 1.887242 CACCAGACACCACACCACG 60.887 63.158 0.00 0.00 0.00 4.94
937 4583 3.482156 AAAACAGAGAGAGCAGAGCAA 57.518 42.857 0.00 0.00 0.00 3.91
945 4591 2.075338 GAGAGCAGAGCAACAAGAAGG 58.925 52.381 0.00 0.00 0.00 3.46
946 4592 1.696336 AGAGCAGAGCAACAAGAAGGA 59.304 47.619 0.00 0.00 0.00 3.36
948 4594 0.877743 GCAGAGCAACAAGAAGGACC 59.122 55.000 0.00 0.00 0.00 4.46
951 4597 1.072965 AGAGCAACAAGAAGGACCCTG 59.927 52.381 0.00 0.00 0.00 4.45
955 4601 1.338020 CAACAAGAAGGACCCTGCAAC 59.662 52.381 0.00 0.00 0.00 4.17
956 4602 0.178990 ACAAGAAGGACCCTGCAACC 60.179 55.000 0.00 0.00 0.00 3.77
957 4603 0.895559 CAAGAAGGACCCTGCAACCC 60.896 60.000 0.00 0.00 0.00 4.11
959 4605 2.452491 AAGGACCCTGCAACCCCT 60.452 61.111 0.00 0.00 0.00 4.79
968 4629 2.121992 CTGCAACCCCTCTGCTCTGT 62.122 60.000 0.00 0.00 40.59 3.41
978 4639 2.048597 TGCTCTGTTACGCCGTGG 60.049 61.111 0.00 0.00 0.00 4.94
993 4654 1.333619 CCGTGGAAGTGAAACACCAAG 59.666 52.381 0.00 0.00 44.34 3.61
994 4655 1.333619 CGTGGAAGTGAAACACCAAGG 59.666 52.381 0.00 0.00 44.34 3.61
1206 8845 0.383949 GCTCCTACTGGAAGCTCTCG 59.616 60.000 0.00 0.00 42.66 4.04
1320 12880 2.111043 CTGGAGCACGTGGTGGTT 59.889 61.111 27.15 0.00 44.55 3.67
1649 13236 1.614385 CTGCAAGAAAGCTCGCAATG 58.386 50.000 0.00 0.00 34.07 2.82
1660 13247 1.915614 CTCGCAATGAAAGCAGCCGT 61.916 55.000 0.00 0.00 0.00 5.68
1759 13361 1.985159 TGGGCTGTGTAGATTCTTGGT 59.015 47.619 0.00 0.00 0.00 3.67
1774 13376 4.698201 TCTTGGTGTGATTGGTTGAGTA 57.302 40.909 0.00 0.00 0.00 2.59
1802 13404 8.839310 AATTAATGGAGATATATATGCGAGCC 57.161 34.615 0.00 0.00 0.00 4.70
1803 13405 4.881019 ATGGAGATATATATGCGAGCCC 57.119 45.455 0.00 0.00 0.00 5.19
1859 13461 7.208064 AGGTCTCTTTGCACCCTAAATAATA 57.792 36.000 0.00 0.00 32.45 0.98
1922 13528 0.391597 AAACGGACGACACTCCACAT 59.608 50.000 0.00 0.00 0.00 3.21
2023 13712 9.985730 ATTGAATACAGATTCTTTTGCTTTTGA 57.014 25.926 0.00 0.00 41.87 2.69
2053 13742 0.102844 GTCCTGCAGCAAACAAGCAA 59.897 50.000 8.66 0.00 37.89 3.91
2069 13758 0.037975 GCAATGCAACAGGGTCAAGG 60.038 55.000 0.00 0.00 0.00 3.61
2155 13855 3.492829 GGGTCTGCTTTATACTCCCTTCG 60.493 52.174 0.00 0.00 0.00 3.79
2164 13864 1.348064 TACTCCCTTCGCCCCATATG 58.652 55.000 0.00 0.00 0.00 1.78
2172 13872 0.104120 TCGCCCCATATGAAGTGTCG 59.896 55.000 3.65 0.00 0.00 4.35
2187 13887 2.755655 AGTGTCGCTTGTATCTAGCACT 59.244 45.455 0.00 0.00 38.55 4.40
2195 13895 5.748630 CGCTTGTATCTAGCACTGAAATACA 59.251 40.000 0.00 0.00 38.55 2.29
2196 13896 6.074623 CGCTTGTATCTAGCACTGAAATACAG 60.075 42.308 0.00 0.00 41.01 2.74
2239 13939 6.823689 AGCGACACTAAATATGAAATGGAAGT 59.176 34.615 0.00 0.00 0.00 3.01
2241 13941 8.609176 GCGACACTAAATATGAAATGGAAGTAA 58.391 33.333 0.00 0.00 0.00 2.24
2295 14036 2.489938 ATTAAGCAAGCCTCGTCCAA 57.510 45.000 0.00 0.00 0.00 3.53
2296 14037 2.264005 TTAAGCAAGCCTCGTCCAAA 57.736 45.000 0.00 0.00 0.00 3.28
2297 14038 1.808411 TAAGCAAGCCTCGTCCAAAG 58.192 50.000 0.00 0.00 0.00 2.77
2298 14039 0.108585 AAGCAAGCCTCGTCCAAAGA 59.891 50.000 0.00 0.00 0.00 2.52
2299 14040 0.326264 AGCAAGCCTCGTCCAAAGAT 59.674 50.000 0.00 0.00 0.00 2.40
2303 16706 3.797039 CAAGCCTCGTCCAAAGATATGA 58.203 45.455 0.00 0.00 0.00 2.15
2326 16729 8.199176 TGAACGTTGTAAAATAGAGTGTTTGA 57.801 30.769 5.00 0.00 0.00 2.69
2328 16731 7.542534 ACGTTGTAAAATAGAGTGTTTGACA 57.457 32.000 0.00 0.00 30.02 3.58
2329 16732 7.976826 ACGTTGTAAAATAGAGTGTTTGACAA 58.023 30.769 0.00 0.00 37.50 3.18
2330 16733 8.452534 ACGTTGTAAAATAGAGTGTTTGACAAA 58.547 29.630 0.00 0.00 40.05 2.83
2357 16760 7.933215 AAACTAATAGTTTAGGGATTTGCGT 57.067 32.000 15.99 0.00 45.75 5.24
2358 16761 7.549615 AACTAATAGTTTAGGGATTTGCGTC 57.450 36.000 0.00 0.00 39.36 5.19
2360 16763 8.333516 AACTAATAGTTTAGGGATTTGCGTCCC 61.334 40.741 12.44 12.44 46.13 4.46
2365 16768 4.713946 GGATTTGCGTCCCACAGA 57.286 55.556 0.00 0.00 31.82 3.41
2367 16770 0.321653 GGATTTGCGTCCCACAGACT 60.322 55.000 0.00 0.00 43.91 3.24
2369 16772 2.614481 GGATTTGCGTCCCACAGACTTA 60.614 50.000 0.00 0.00 43.91 2.24
2370 16773 1.873698 TTTGCGTCCCACAGACTTAC 58.126 50.000 0.00 0.00 43.91 2.34
2372 16775 1.174078 TGCGTCCCACAGACTTACGA 61.174 55.000 0.00 0.00 43.91 3.43
2373 16776 0.731855 GCGTCCCACAGACTTACGAC 60.732 60.000 0.00 0.00 43.91 4.34
2374 16777 0.879765 CGTCCCACAGACTTACGACT 59.120 55.000 0.00 0.00 43.91 4.18
2376 16779 2.288030 CGTCCCACAGACTTACGACTTT 60.288 50.000 0.00 0.00 43.91 2.66
2377 16780 3.725490 GTCCCACAGACTTACGACTTTT 58.275 45.455 0.00 0.00 42.69 2.27
2400 16803 6.777213 TTTAAAAGTGCCTGAAAACTACCA 57.223 33.333 0.00 0.00 0.00 3.25
2401 16804 6.777213 TTAAAAGTGCCTGAAAACTACCAA 57.223 33.333 0.00 0.00 0.00 3.67
2402 16805 5.669164 AAAAGTGCCTGAAAACTACCAAA 57.331 34.783 0.00 0.00 0.00 3.28
2403 16806 5.669164 AAAGTGCCTGAAAACTACCAAAA 57.331 34.783 0.00 0.00 0.00 2.44
2404 16807 5.669164 AAGTGCCTGAAAACTACCAAAAA 57.331 34.783 0.00 0.00 0.00 1.94
2431 16834 8.645730 TGTAATCACGTGACTAAAAACTACAA 57.354 30.769 22.71 0.00 0.00 2.41
2433 16836 9.577003 GTAATCACGTGACTAAAAACTACAAAG 57.423 33.333 22.71 0.00 0.00 2.77
2434 16837 7.781548 ATCACGTGACTAAAAACTACAAAGT 57.218 32.000 22.71 0.00 37.65 2.66
2436 16839 7.457868 TCACGTGACTAAAAACTACAAAGTTG 58.542 34.615 15.76 0.00 45.37 3.16
2437 16840 6.685403 CACGTGACTAAAAACTACAAAGTTGG 59.315 38.462 10.90 0.00 45.37 3.77
2438 16841 5.679792 CGTGACTAAAAACTACAAAGTTGGC 59.320 40.000 0.00 0.00 45.37 4.52
2439 16842 6.457799 CGTGACTAAAAACTACAAAGTTGGCT 60.458 38.462 0.00 0.00 45.37 4.75
2440 16843 6.691388 GTGACTAAAAACTACAAAGTTGGCTG 59.309 38.462 0.00 0.00 45.37 4.85
2441 16844 6.600032 TGACTAAAAACTACAAAGTTGGCTGA 59.400 34.615 0.00 0.00 45.37 4.26
2442 16845 7.121463 TGACTAAAAACTACAAAGTTGGCTGAA 59.879 33.333 0.00 0.00 45.37 3.02
2443 16846 8.007405 ACTAAAAACTACAAAGTTGGCTGAAT 57.993 30.769 0.00 0.00 45.37 2.57
2444 16847 7.920682 ACTAAAAACTACAAAGTTGGCTGAATG 59.079 33.333 0.00 0.00 45.37 2.67
2445 16848 4.853924 AACTACAAAGTTGGCTGAATGG 57.146 40.909 0.00 0.00 44.40 3.16
2446 16849 3.832527 ACTACAAAGTTGGCTGAATGGT 58.167 40.909 0.00 0.00 29.00 3.55
2447 16850 3.569701 ACTACAAAGTTGGCTGAATGGTG 59.430 43.478 0.00 0.00 29.00 4.17
2449 16852 3.233507 ACAAAGTTGGCTGAATGGTGAT 58.766 40.909 0.00 0.00 0.00 3.06
2450 16853 3.642848 ACAAAGTTGGCTGAATGGTGATT 59.357 39.130 0.00 0.00 0.00 2.57
2451 16854 4.101430 ACAAAGTTGGCTGAATGGTGATTT 59.899 37.500 0.00 0.00 0.00 2.17
2452 16855 4.961438 AAGTTGGCTGAATGGTGATTTT 57.039 36.364 0.00 0.00 0.00 1.82
2453 16856 4.261578 AGTTGGCTGAATGGTGATTTTG 57.738 40.909 0.00 0.00 0.00 2.44
2455 16858 3.940209 TGGCTGAATGGTGATTTTGAC 57.060 42.857 0.00 0.00 0.00 3.18
2456 16859 2.562298 TGGCTGAATGGTGATTTTGACC 59.438 45.455 0.00 0.00 0.00 4.02
2457 16860 2.415893 GGCTGAATGGTGATTTTGACCG 60.416 50.000 0.00 0.00 36.12 4.79
2458 16861 2.228822 GCTGAATGGTGATTTTGACCGT 59.771 45.455 0.00 0.00 36.12 4.83
2460 16863 4.795962 GCTGAATGGTGATTTTGACCGTTT 60.796 41.667 0.00 0.00 41.83 3.60
2461 16864 5.269505 TGAATGGTGATTTTGACCGTTTT 57.730 34.783 0.00 0.00 41.83 2.43
2463 16866 6.806751 TGAATGGTGATTTTGACCGTTTTAA 58.193 32.000 0.00 0.00 41.83 1.52
2464 16867 6.697892 TGAATGGTGATTTTGACCGTTTTAAC 59.302 34.615 0.00 0.00 41.83 2.01
2465 16868 4.934515 TGGTGATTTTGACCGTTTTAACC 58.065 39.130 0.00 0.00 36.12 2.85
2466 16869 3.976306 GGTGATTTTGACCGTTTTAACCG 59.024 43.478 0.00 0.00 0.00 4.44
2468 16871 4.438471 GTGATTTTGACCGTTTTAACCGTG 59.562 41.667 0.00 0.00 0.00 4.94
2469 16872 2.471862 TTTGACCGTTTTAACCGTGC 57.528 45.000 0.00 0.00 0.00 5.34
2470 16873 1.666054 TTGACCGTTTTAACCGTGCT 58.334 45.000 0.00 0.00 0.00 4.40
2471 16874 1.666054 TGACCGTTTTAACCGTGCTT 58.334 45.000 0.00 0.00 0.00 3.91
2472 16875 1.598601 TGACCGTTTTAACCGTGCTTC 59.401 47.619 0.00 0.00 0.00 3.86
2474 16877 1.600485 ACCGTTTTAACCGTGCTTCTG 59.400 47.619 0.00 0.00 0.00 3.02
2475 16878 1.868498 CCGTTTTAACCGTGCTTCTGA 59.132 47.619 0.00 0.00 0.00 3.27
2476 16879 2.349155 CCGTTTTAACCGTGCTTCTGAC 60.349 50.000 0.00 0.00 0.00 3.51
2477 16880 2.349155 CGTTTTAACCGTGCTTCTGACC 60.349 50.000 0.00 0.00 0.00 4.02
2481 16884 0.608640 AACCGTGCTTCTGACCCTAG 59.391 55.000 0.00 0.00 0.00 3.02
2483 16886 0.108615 CCGTGCTTCTGACCCTAGTG 60.109 60.000 0.00 0.00 0.00 2.74
2485 16888 0.391793 GTGCTTCTGACCCTAGTGGC 60.392 60.000 0.00 0.00 37.83 5.01
2486 16889 1.222113 GCTTCTGACCCTAGTGGCC 59.778 63.158 0.00 0.00 37.83 5.36
2487 16890 1.908483 CTTCTGACCCTAGTGGCCC 59.092 63.158 0.00 0.00 37.83 5.80
2488 16891 0.909610 CTTCTGACCCTAGTGGCCCA 60.910 60.000 0.00 0.00 37.83 5.36
2489 16892 1.198759 TTCTGACCCTAGTGGCCCAC 61.199 60.000 5.50 5.50 37.83 4.61
2490 16893 3.000819 TGACCCTAGTGGCCCACG 61.001 66.667 8.52 0.00 39.64 4.94
2491 16894 3.001406 GACCCTAGTGGCCCACGT 61.001 66.667 8.52 0.00 39.64 4.49
2492 16895 3.310860 GACCCTAGTGGCCCACGTG 62.311 68.421 9.08 9.08 39.64 4.49
2493 16896 4.778143 CCCTAGTGGCCCACGTGC 62.778 72.222 10.91 0.00 39.64 5.34
2553 16956 2.184579 GCCTTTAGAGCCGCTCGT 59.815 61.111 14.71 6.21 35.36 4.18
2554 16957 1.878975 GCCTTTAGAGCCGCTCGTC 60.879 63.158 14.71 0.00 35.36 4.20
2555 16958 1.586564 CCTTTAGAGCCGCTCGTCG 60.587 63.158 14.71 5.11 35.36 5.12
2565 16968 2.430921 GCTCGTCGGTCACACCTG 60.431 66.667 0.00 0.00 35.66 4.00
2566 16969 2.258591 CTCGTCGGTCACACCTGG 59.741 66.667 0.00 0.00 35.66 4.45
2568 16971 2.049433 CGTCGGTCACACCTGGTC 60.049 66.667 0.00 0.00 35.66 4.02
2569 16972 2.049433 GTCGGTCACACCTGGTCG 60.049 66.667 0.00 0.00 35.66 4.79
2570 16973 3.299977 TCGGTCACACCTGGTCGG 61.300 66.667 0.00 0.00 35.66 4.79
2571 16974 3.299977 CGGTCACACCTGGTCGGA 61.300 66.667 0.00 0.00 35.66 4.55
2573 16976 2.342648 GTCACACCTGGTCGGACC 59.657 66.667 20.36 20.36 39.22 4.46
2575 16978 2.030562 CACACCTGGTCGGACCAC 59.969 66.667 25.53 1.38 44.79 4.16
2576 16979 3.612681 ACACCTGGTCGGACCACG 61.613 66.667 25.53 22.54 44.79 4.94
2587 16990 2.776659 GGACCACGAATAACCTGGC 58.223 57.895 0.00 0.00 0.00 4.85
2588 16991 0.746923 GGACCACGAATAACCTGGCC 60.747 60.000 0.00 0.00 0.00 5.36
2589 16992 1.078708 ACCACGAATAACCTGGCCG 60.079 57.895 0.00 0.00 0.00 6.13
2590 16993 1.219664 CCACGAATAACCTGGCCGA 59.780 57.895 0.00 0.00 0.00 5.54
2591 16994 1.087771 CCACGAATAACCTGGCCGAC 61.088 60.000 0.00 0.00 0.00 4.79
2592 16995 1.087771 CACGAATAACCTGGCCGACC 61.088 60.000 0.00 0.00 0.00 4.79
2593 16996 1.881252 CGAATAACCTGGCCGACCG 60.881 63.158 0.00 0.00 39.70 4.79
2594 16997 1.523032 GAATAACCTGGCCGACCGG 60.523 63.158 0.00 0.00 42.66 5.28
2612 17015 4.162690 GCCGCTAGTCCCCACCAG 62.163 72.222 0.00 0.00 0.00 4.00
2613 17016 4.162690 CCGCTAGTCCCCACCAGC 62.163 72.222 0.00 0.00 0.00 4.85
2614 17017 3.077556 CGCTAGTCCCCACCAGCT 61.078 66.667 0.00 0.00 31.74 4.24
2622 18078 1.611851 CCCCACCAGCTCTCTCACT 60.612 63.158 0.00 0.00 0.00 3.41
2625 18081 0.817013 CCACCAGCTCTCTCACTCTC 59.183 60.000 0.00 0.00 0.00 3.20
2629 18085 1.042559 CAGCTCTCTCACTCTCCCCC 61.043 65.000 0.00 0.00 0.00 5.40
2631 18087 1.610327 CTCTCTCACTCTCCCCCGA 59.390 63.158 0.00 0.00 0.00 5.14
2632 18088 0.465460 CTCTCTCACTCTCCCCCGAG 60.465 65.000 0.00 0.00 37.48 4.63
2634 18090 2.043450 CTCACTCTCCCCCGAGCT 60.043 66.667 0.00 0.00 35.94 4.09
2638 18094 2.043450 CTCTCCCCCGAGCTCACT 60.043 66.667 15.40 0.00 35.94 3.41
2639 18095 2.043852 TCTCCCCCGAGCTCACTC 60.044 66.667 15.40 0.00 39.75 3.51
2643 18099 2.681778 CCCCGAGCTCACTCCACT 60.682 66.667 15.40 0.00 40.03 4.00
2647 18103 1.662438 CCGAGCTCACTCCACTCCTC 61.662 65.000 15.40 0.00 40.03 3.71
2648 18104 0.679640 CGAGCTCACTCCACTCCTCT 60.680 60.000 15.40 0.00 40.03 3.69
2650 18106 0.704076 AGCTCACTCCACTCCTCTCT 59.296 55.000 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 2.892784 AACTAGGCCAGATAGAACGC 57.107 50.000 5.01 0.00 0.00 4.84
41 42 3.005578 CGTAGGGATCAAGTAACTAGGCC 59.994 52.174 0.00 0.00 0.00 5.19
82 83 9.817809 TGATAGTCGGGAATTAGCATATTAATC 57.182 33.333 0.00 0.00 0.00 1.75
175 261 8.705048 AGATCACGTAAATTTTCCTCTAGTTC 57.295 34.615 0.00 0.00 0.00 3.01
199 285 8.797438 TGCTATCCTAATATCGCTTCCATATAG 58.203 37.037 0.00 0.00 0.00 1.31
299 776 0.107214 TTGACATTCGGATCCAGGCC 60.107 55.000 13.41 0.00 0.00 5.19
300 777 1.750193 TTTGACATTCGGATCCAGGC 58.250 50.000 13.41 0.66 0.00 4.85
303 780 6.356556 AGTTCATATTTGACATTCGGATCCA 58.643 36.000 13.41 0.00 0.00 3.41
304 781 6.867662 AGTTCATATTTGACATTCGGATCC 57.132 37.500 0.00 0.00 0.00 3.36
305 782 7.360438 GGCTAGTTCATATTTGACATTCGGATC 60.360 40.741 0.00 0.00 0.00 3.36
306 783 6.428159 GGCTAGTTCATATTTGACATTCGGAT 59.572 38.462 0.00 0.00 0.00 4.18
307 784 5.758296 GGCTAGTTCATATTTGACATTCGGA 59.242 40.000 0.00 0.00 0.00 4.55
308 785 5.760253 AGGCTAGTTCATATTTGACATTCGG 59.240 40.000 0.00 0.00 0.00 4.30
309 786 6.258727 ACAGGCTAGTTCATATTTGACATTCG 59.741 38.462 0.00 0.00 0.00 3.34
311 788 7.112122 TGACAGGCTAGTTCATATTTGACATT 58.888 34.615 0.00 0.00 0.00 2.71
356 837 4.244862 CAAAATGGTTTCAAAGGATCCGG 58.755 43.478 5.98 0.00 0.00 5.14
357 838 4.881920 ACAAAATGGTTTCAAAGGATCCG 58.118 39.130 5.98 0.00 0.00 4.18
403 884 7.758495 ACAGTGAAACGATTTTGTTTTAGAGT 58.242 30.769 0.00 0.00 45.86 3.24
492 976 9.208022 TCAATAAGGAGTTATATTGCTTGATCG 57.792 33.333 0.00 0.00 38.69 3.69
526 4147 5.517411 GGTTTTTGTGTTAACTAGTTGGTGC 59.483 40.000 18.56 6.73 0.00 5.01
569 4190 5.786401 AGCGATGATTAAGTGTGTTTCTC 57.214 39.130 0.00 0.00 0.00 2.87
647 4268 7.376601 CCACTGCAATTTTCAAAGCAAATAAAC 59.623 33.333 0.00 0.00 36.44 2.01
658 4279 6.200665 CGAAAAATCTCCACTGCAATTTTCAA 59.799 34.615 5.28 0.00 35.90 2.69
660 4281 5.388786 GCGAAAAATCTCCACTGCAATTTTC 60.389 40.000 5.28 0.00 31.86 2.29
804 4433 2.552373 GGCCGGGGAGAAATATACTTGG 60.552 54.545 2.18 0.00 0.00 3.61
844 4475 0.121197 AGGGTGAGAGGGAAATGGGA 59.879 55.000 0.00 0.00 0.00 4.37
865 4496 2.108157 GTGTGGTGTCTGGTGCGA 59.892 61.111 0.00 0.00 0.00 5.10
937 4583 0.178990 GGTTGCAGGGTCCTTCTTGT 60.179 55.000 0.00 0.00 0.00 3.16
945 4591 2.352805 CAGAGGGGTTGCAGGGTC 59.647 66.667 0.00 0.00 0.00 4.46
946 4592 3.971702 GCAGAGGGGTTGCAGGGT 61.972 66.667 0.00 0.00 41.17 4.34
948 4594 2.045536 GAGCAGAGGGGTTGCAGG 60.046 66.667 0.00 0.00 43.92 4.85
951 4597 0.324943 TAACAGAGCAGAGGGGTTGC 59.675 55.000 0.00 0.00 41.83 4.17
955 4601 1.153549 GCGTAACAGAGCAGAGGGG 60.154 63.158 0.00 0.00 0.00 4.79
956 4602 1.153549 GGCGTAACAGAGCAGAGGG 60.154 63.158 0.00 0.00 34.54 4.30
957 4603 1.517257 CGGCGTAACAGAGCAGAGG 60.517 63.158 0.00 0.00 34.54 3.69
959 4605 1.080772 CACGGCGTAACAGAGCAGA 60.081 57.895 14.22 0.00 34.54 4.26
968 4629 1.219646 GTTTCACTTCCACGGCGTAA 58.780 50.000 14.22 3.11 0.00 3.18
978 4639 3.445805 TGGTTTCCTTGGTGTTTCACTTC 59.554 43.478 0.06 0.00 34.40 3.01
993 4654 2.440247 CCGGGCCTCATGGTTTCC 60.440 66.667 0.84 0.00 35.27 3.13
994 4655 1.452108 CTCCGGGCCTCATGGTTTC 60.452 63.158 0.84 0.00 35.27 2.78
1290 12850 0.106318 GCTCCAGGAAATCCATGGCT 60.106 55.000 6.96 0.00 38.89 4.75
1320 12880 3.207547 CTCGTCGCCGGCCATGATA 62.208 63.158 23.46 4.36 33.95 2.15
1344 12904 2.668550 GGCTTGGCGAGGAACGTT 60.669 61.111 0.00 0.00 44.60 3.99
1380 12940 2.343758 GTTGCGAGCTCCACCTCA 59.656 61.111 8.47 0.00 0.00 3.86
1503 13081 4.451150 TGGTGATCACGGCTCGGC 62.451 66.667 19.33 4.53 0.00 5.54
1574 13161 3.118454 CATCGTGGTGGTGGTCGC 61.118 66.667 0.00 0.00 0.00 5.19
1649 13236 0.312102 AGCAAAAGACGGCTGCTTTC 59.688 50.000 13.13 0.00 43.83 2.62
1660 13247 0.819259 AAGCTGTGGCGAGCAAAAGA 60.819 50.000 10.56 0.00 41.83 2.52
1759 13361 9.703892 CCATTAATTTTTACTCAACCAATCACA 57.296 29.630 0.00 0.00 0.00 3.58
1792 13394 0.536724 TCGCATATGGGCTCGCATAT 59.463 50.000 14.65 12.02 0.00 1.78
1793 13395 0.108662 CTCGCATATGGGCTCGCATA 60.109 55.000 14.65 8.72 0.00 3.14
1794 13396 1.375140 CTCGCATATGGGCTCGCAT 60.375 57.895 14.65 4.84 0.00 4.73
1795 13397 2.029518 CTCGCATATGGGCTCGCA 59.970 61.111 14.65 0.00 0.00 5.10
1796 13398 2.024319 GTCTCGCATATGGGCTCGC 61.024 63.158 14.65 2.06 0.00 5.03
1797 13399 0.032678 AAGTCTCGCATATGGGCTCG 59.967 55.000 14.65 4.61 0.00 5.03
1798 13400 1.506493 CAAGTCTCGCATATGGGCTC 58.494 55.000 14.65 7.53 0.00 4.70
1799 13401 0.107456 CCAAGTCTCGCATATGGGCT 59.893 55.000 14.65 3.95 0.00 5.19
1800 13402 0.106708 TCCAAGTCTCGCATATGGGC 59.893 55.000 14.65 1.64 0.00 5.36
1801 13403 2.620251 TTCCAAGTCTCGCATATGGG 57.380 50.000 13.38 13.38 0.00 4.00
1802 13404 5.505173 AAATTTCCAAGTCTCGCATATGG 57.495 39.130 4.56 0.00 0.00 2.74
1803 13405 5.230726 GCAAAATTTCCAAGTCTCGCATATG 59.769 40.000 0.00 0.00 0.00 1.78
1859 13461 2.160822 GCATGATGCTACGATCCACT 57.839 50.000 10.72 0.00 40.96 4.00
1882 13484 4.781775 TCTTCAGAGGGGTGTAAAAACA 57.218 40.909 0.00 0.00 0.00 2.83
1883 13485 5.505159 CGTTTCTTCAGAGGGGTGTAAAAAC 60.505 44.000 0.00 0.00 0.00 2.43
1886 13488 3.495453 CCGTTTCTTCAGAGGGGTGTAAA 60.495 47.826 0.00 0.00 0.00 2.01
1889 13493 0.396811 CCGTTTCTTCAGAGGGGTGT 59.603 55.000 0.00 0.00 0.00 4.16
1922 13528 5.381184 TTCCGAAAGATGGGGAATAATGA 57.619 39.130 0.00 0.00 35.01 2.57
2004 13693 7.066043 TGCATTTTCAAAAGCAAAAGAATCTGT 59.934 29.630 0.00 0.00 39.34 3.41
2053 13742 1.067295 TCTCCTTGACCCTGTTGCAT 58.933 50.000 0.00 0.00 0.00 3.96
2069 13758 2.553172 CCTACATACCTAGTGCCGTCTC 59.447 54.545 0.00 0.00 0.00 3.36
2155 13855 0.179045 AGCGACACTTCATATGGGGC 60.179 55.000 2.13 0.00 0.00 5.80
2164 13864 3.548268 GTGCTAGATACAAGCGACACTTC 59.452 47.826 0.00 0.00 43.11 3.01
2172 13872 7.171447 CTGTATTTCAGTGCTAGATACAAGC 57.829 40.000 0.00 0.00 39.17 4.01
2206 13906 7.408132 TCATATTTAGTGTCGCTTAATCAGC 57.592 36.000 1.09 0.00 46.31 4.26
2213 13913 7.336931 ACTTCCATTTCATATTTAGTGTCGCTT 59.663 33.333 0.00 0.00 0.00 4.68
2249 13949 4.381505 GCCTTGGTTCTTGAACAAGTTTCA 60.382 41.667 14.38 7.91 39.85 2.69
2250 13950 4.112634 GCCTTGGTTCTTGAACAAGTTTC 58.887 43.478 14.38 6.27 39.85 2.78
2278 14019 1.346395 TCTTTGGACGAGGCTTGCTTA 59.654 47.619 0.37 0.00 0.00 3.09
2296 14037 9.871238 ACACTCTATTTTACAACGTTCATATCT 57.129 29.630 0.00 0.00 0.00 1.98
2303 16706 7.976826 TGTCAAACACTCTATTTTACAACGTT 58.023 30.769 0.00 0.00 0.00 3.99
2332 16735 8.344446 ACGCAAATCCCTAAACTATTAGTTTT 57.656 30.769 23.06 10.47 45.38 2.43
2333 16736 7.066645 GGACGCAAATCCCTAAACTATTAGTTT 59.933 37.037 21.92 21.92 40.87 2.66
2356 16759 3.382048 AAAGTCGTAAGTCTGTGGGAC 57.618 47.619 0.00 0.00 44.80 4.46
2357 16760 4.411256 AAAAAGTCGTAAGTCTGTGGGA 57.589 40.909 0.00 0.00 35.44 4.37
2376 16779 7.171630 TGGTAGTTTTCAGGCACTTTTAAAA 57.828 32.000 0.00 0.00 34.60 1.52
2377 16780 6.777213 TGGTAGTTTTCAGGCACTTTTAAA 57.223 33.333 0.00 0.00 34.60 1.52
2379 16782 6.777213 TTTGGTAGTTTTCAGGCACTTTTA 57.223 33.333 0.00 0.00 34.60 1.52
2381 16784 5.669164 TTTTGGTAGTTTTCAGGCACTTT 57.331 34.783 0.00 0.00 34.60 2.66
2382 16785 5.669164 TTTTTGGTAGTTTTCAGGCACTT 57.331 34.783 0.00 0.00 34.60 3.16
2404 16807 9.263538 TGTAGTTTTTAGTCACGTGATTACATT 57.736 29.630 23.12 7.73 0.00 2.71
2405 16808 8.821147 TGTAGTTTTTAGTCACGTGATTACAT 57.179 30.769 23.12 8.31 0.00 2.29
2406 16809 8.645730 TTGTAGTTTTTAGTCACGTGATTACA 57.354 30.769 23.12 12.24 0.00 2.41
2407 16810 9.577003 CTTTGTAGTTTTTAGTCACGTGATTAC 57.423 33.333 23.12 12.24 0.00 1.89
2408 16811 9.316730 ACTTTGTAGTTTTTAGTCACGTGATTA 57.683 29.630 23.12 19.22 0.00 1.75
2409 16812 8.205131 ACTTTGTAGTTTTTAGTCACGTGATT 57.795 30.769 23.12 20.40 0.00 2.57
2412 16815 6.685403 CCAACTTTGTAGTTTTTAGTCACGTG 59.315 38.462 9.94 9.94 41.85 4.49
2413 16816 6.676213 GCCAACTTTGTAGTTTTTAGTCACGT 60.676 38.462 0.00 0.00 41.85 4.49
2414 16817 5.679792 GCCAACTTTGTAGTTTTTAGTCACG 59.320 40.000 0.00 0.00 41.85 4.35
2415 16818 6.691388 CAGCCAACTTTGTAGTTTTTAGTCAC 59.309 38.462 0.00 0.00 41.85 3.67
2416 16819 6.600032 TCAGCCAACTTTGTAGTTTTTAGTCA 59.400 34.615 0.00 0.00 41.85 3.41
2417 16820 7.023197 TCAGCCAACTTTGTAGTTTTTAGTC 57.977 36.000 0.00 0.00 41.85 2.59
2419 16822 7.382218 CCATTCAGCCAACTTTGTAGTTTTTAG 59.618 37.037 0.00 0.00 41.85 1.85
2421 16824 6.048509 CCATTCAGCCAACTTTGTAGTTTTT 58.951 36.000 0.00 0.00 41.85 1.94
2423 16826 4.649218 ACCATTCAGCCAACTTTGTAGTTT 59.351 37.500 0.00 0.00 41.85 2.66
2424 16827 4.037923 CACCATTCAGCCAACTTTGTAGTT 59.962 41.667 0.00 0.00 45.40 2.24
2425 16828 3.569701 CACCATTCAGCCAACTTTGTAGT 59.430 43.478 0.00 0.00 35.68 2.73
2426 16829 3.820467 TCACCATTCAGCCAACTTTGTAG 59.180 43.478 0.00 0.00 0.00 2.74
2427 16830 3.826524 TCACCATTCAGCCAACTTTGTA 58.173 40.909 0.00 0.00 0.00 2.41
2429 16832 3.947910 ATCACCATTCAGCCAACTTTG 57.052 42.857 0.00 0.00 0.00 2.77
2431 16834 4.344679 TCAAAATCACCATTCAGCCAACTT 59.655 37.500 0.00 0.00 0.00 2.66
2433 16836 3.989817 GTCAAAATCACCATTCAGCCAAC 59.010 43.478 0.00 0.00 0.00 3.77
2434 16837 3.006752 GGTCAAAATCACCATTCAGCCAA 59.993 43.478 0.00 0.00 33.63 4.52
2436 16839 2.415893 CGGTCAAAATCACCATTCAGCC 60.416 50.000 0.00 0.00 32.89 4.85
2437 16840 2.228822 ACGGTCAAAATCACCATTCAGC 59.771 45.455 0.00 0.00 32.89 4.26
2438 16841 4.503741 AACGGTCAAAATCACCATTCAG 57.496 40.909 0.00 0.00 32.89 3.02
2439 16842 4.927978 AAACGGTCAAAATCACCATTCA 57.072 36.364 0.00 0.00 32.89 2.57
2440 16843 6.144886 GGTTAAAACGGTCAAAATCACCATTC 59.855 38.462 0.00 0.00 32.89 2.67
2441 16844 5.986741 GGTTAAAACGGTCAAAATCACCATT 59.013 36.000 0.00 0.00 32.89 3.16
2442 16845 5.534407 GGTTAAAACGGTCAAAATCACCAT 58.466 37.500 0.00 0.00 32.89 3.55
2443 16846 4.497674 CGGTTAAAACGGTCAAAATCACCA 60.498 41.667 0.00 0.00 32.89 4.17
2444 16847 3.976306 CGGTTAAAACGGTCAAAATCACC 59.024 43.478 0.00 0.00 0.00 4.02
2445 16848 4.438471 CACGGTTAAAACGGTCAAAATCAC 59.562 41.667 4.51 0.00 39.97 3.06
2446 16849 4.599047 CACGGTTAAAACGGTCAAAATCA 58.401 39.130 4.51 0.00 39.97 2.57
2447 16850 3.422876 GCACGGTTAAAACGGTCAAAATC 59.577 43.478 4.51 0.00 39.97 2.17
2449 16852 2.422832 AGCACGGTTAAAACGGTCAAAA 59.577 40.909 4.51 0.00 39.97 2.44
2450 16853 2.015587 AGCACGGTTAAAACGGTCAAA 58.984 42.857 4.51 0.00 39.97 2.69
2451 16854 1.666054 AGCACGGTTAAAACGGTCAA 58.334 45.000 4.51 0.00 39.97 3.18
2452 16855 1.598601 GAAGCACGGTTAAAACGGTCA 59.401 47.619 4.51 0.00 39.97 4.02
2453 16856 1.869132 AGAAGCACGGTTAAAACGGTC 59.131 47.619 4.51 1.56 39.97 4.79
2455 16858 1.868498 TCAGAAGCACGGTTAAAACGG 59.132 47.619 2.43 2.43 35.23 4.44
2456 16859 2.349155 GGTCAGAAGCACGGTTAAAACG 60.349 50.000 0.00 0.00 37.36 3.60
2457 16860 2.031420 GGGTCAGAAGCACGGTTAAAAC 60.031 50.000 0.00 0.00 0.00 2.43
2458 16861 2.158726 AGGGTCAGAAGCACGGTTAAAA 60.159 45.455 0.00 0.00 0.00 1.52
2460 16863 1.053424 AGGGTCAGAAGCACGGTTAA 58.947 50.000 0.00 0.00 0.00 2.01
2461 16864 1.822990 CTAGGGTCAGAAGCACGGTTA 59.177 52.381 0.00 0.00 0.00 2.85
2463 16866 0.542232 ACTAGGGTCAGAAGCACGGT 60.542 55.000 0.00 0.00 0.00 4.83
2464 16867 0.108615 CACTAGGGTCAGAAGCACGG 60.109 60.000 0.00 0.00 0.00 4.94
2465 16868 0.108615 CCACTAGGGTCAGAAGCACG 60.109 60.000 0.00 0.00 0.00 5.34
2466 16869 0.391793 GCCACTAGGGTCAGAAGCAC 60.392 60.000 0.00 0.00 39.65 4.40
2468 16871 1.222113 GGCCACTAGGGTCAGAAGC 59.778 63.158 0.00 0.00 42.53 3.86
2469 16872 0.909610 TGGGCCACTAGGGTCAGAAG 60.910 60.000 0.00 0.00 45.89 2.85
2470 16873 1.159905 TGGGCCACTAGGGTCAGAA 59.840 57.895 0.00 0.00 45.89 3.02
2471 16874 1.612442 GTGGGCCACTAGGGTCAGA 60.612 63.158 29.22 0.00 45.89 3.27
2472 16875 2.990479 GTGGGCCACTAGGGTCAG 59.010 66.667 29.22 0.00 45.89 3.51
2474 16877 3.001406 ACGTGGGCCACTAGGGTC 61.001 66.667 32.28 6.54 42.12 4.46
2475 16878 3.319198 CACGTGGGCCACTAGGGT 61.319 66.667 32.28 20.56 39.65 4.34
2476 16879 4.778143 GCACGTGGGCCACTAGGG 62.778 72.222 32.28 20.90 40.85 3.53
2510 16913 3.613702 CGCGCCGTTAGCCGTTAG 61.614 66.667 0.00 0.00 38.78 2.34
2511 16914 4.418401 ACGCGCCGTTAGCCGTTA 62.418 61.111 5.73 0.00 43.05 3.18
2527 16930 4.770874 TCTAAAGGCCCCGCGCAC 62.771 66.667 8.75 0.00 40.31 5.34
2528 16931 4.467084 CTCTAAAGGCCCCGCGCA 62.467 66.667 8.75 0.00 40.31 6.09
2533 16936 3.758973 GAGCGGCTCTAAAGGCCCC 62.759 68.421 22.32 0.00 46.24 5.80
2534 16937 2.203084 GAGCGGCTCTAAAGGCCC 60.203 66.667 22.32 0.00 46.24 5.80
2535 16938 2.586357 CGAGCGGCTCTAAAGGCC 60.586 66.667 25.96 0.00 45.04 5.19
2536 16939 1.878975 GACGAGCGGCTCTAAAGGC 60.879 63.158 25.96 10.37 44.42 4.35
2537 16940 1.586564 CGACGAGCGGCTCTAAAGG 60.587 63.158 25.96 13.44 36.03 3.11
2538 16941 3.984241 CGACGAGCGGCTCTAAAG 58.016 61.111 25.96 13.80 36.03 1.85
2547 16950 4.039357 AGGTGTGACCGACGAGCG 62.039 66.667 0.00 0.00 44.90 5.03
2548 16951 2.430921 CAGGTGTGACCGACGAGC 60.431 66.667 0.00 0.00 44.90 5.03
2549 16952 2.258591 CCAGGTGTGACCGACGAG 59.741 66.667 0.00 0.00 44.90 4.18
2550 16953 2.520020 ACCAGGTGTGACCGACGA 60.520 61.111 0.00 0.00 44.90 4.20
2551 16954 2.049433 GACCAGGTGTGACCGACG 60.049 66.667 0.00 0.00 44.90 5.12
2553 16956 3.299977 CCGACCAGGTGTGACCGA 61.300 66.667 0.00 0.00 44.90 4.69
2554 16957 3.299977 TCCGACCAGGTGTGACCG 61.300 66.667 0.00 0.00 44.90 4.79
2555 16958 2.342648 GTCCGACCAGGTGTGACC 59.657 66.667 0.00 0.00 41.99 4.02
2556 16959 2.342648 GGTCCGACCAGGTGTGAC 59.657 66.667 13.05 2.87 41.99 3.67
2557 16960 2.123208 TGGTCCGACCAGGTGTGA 60.123 61.111 16.73 0.00 44.79 3.58
2568 16971 3.059603 CCAGGTTATTCGTGGTCCG 57.940 57.895 0.00 0.00 44.33 4.79
2569 16972 0.746923 GGCCAGGTTATTCGTGGTCC 60.747 60.000 0.00 6.43 46.99 4.46
2573 16976 1.087771 GGTCGGCCAGGTTATTCGTG 61.088 60.000 0.00 0.00 34.09 4.35
2574 16977 1.219935 GGTCGGCCAGGTTATTCGT 59.780 57.895 0.00 0.00 34.09 3.85
2575 16978 1.881252 CGGTCGGCCAGGTTATTCG 60.881 63.158 6.96 0.00 34.09 3.34
2576 16979 1.523032 CCGGTCGGCCAGGTTATTC 60.523 63.158 6.96 0.00 34.09 1.75
2577 16980 2.587889 CCGGTCGGCCAGGTTATT 59.412 61.111 6.96 0.00 34.09 1.40
2595 16998 4.162690 CTGGTGGGGACTAGCGGC 62.163 72.222 0.00 0.00 0.00 6.53
2596 16999 4.162690 GCTGGTGGGGACTAGCGG 62.163 72.222 0.00 0.00 0.00 5.52
2597 17000 3.077556 AGCTGGTGGGGACTAGCG 61.078 66.667 5.09 0.00 40.92 4.26
2598 17001 1.681486 GAGAGCTGGTGGGGACTAGC 61.681 65.000 0.00 2.57 36.45 3.42
2599 17002 0.032615 AGAGAGCTGGTGGGGACTAG 60.033 60.000 0.00 0.00 0.00 2.57
2602 17005 1.610673 TGAGAGAGCTGGTGGGGAC 60.611 63.158 0.00 0.00 0.00 4.46
2603 17006 1.610673 GTGAGAGAGCTGGTGGGGA 60.611 63.158 0.00 0.00 0.00 4.81
2607 17010 0.817013 GGAGAGTGAGAGAGCTGGTG 59.183 60.000 0.00 0.00 0.00 4.17
2608 17011 0.324275 GGGAGAGTGAGAGAGCTGGT 60.324 60.000 0.00 0.00 0.00 4.00
2611 17014 1.309688 GGGGGAGAGTGAGAGAGCT 59.690 63.158 0.00 0.00 0.00 4.09
2612 17015 2.124693 CGGGGGAGAGTGAGAGAGC 61.125 68.421 0.00 0.00 0.00 4.09
2613 17016 0.465460 CTCGGGGGAGAGTGAGAGAG 60.465 65.000 0.00 0.00 33.75 3.20
2614 17017 1.610327 CTCGGGGGAGAGTGAGAGA 59.390 63.158 0.00 0.00 33.75 3.10
2622 18078 2.043852 GAGTGAGCTCGGGGGAGA 60.044 66.667 9.64 0.00 31.39 3.71
2625 18081 3.775654 GTGGAGTGAGCTCGGGGG 61.776 72.222 9.64 0.00 42.53 5.40
2629 18085 0.679640 AGAGGAGTGGAGTGAGCTCG 60.680 60.000 9.64 0.00 42.53 5.03
2631 18087 0.704076 AGAGAGGAGTGGAGTGAGCT 59.296 55.000 0.00 0.00 0.00 4.09
2632 18088 3.281332 AGAGAGGAGTGGAGTGAGC 57.719 57.895 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.