Multiple sequence alignment - TraesCS7B01G024900

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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 TraesCS7B01G024900 chr7B 100.000 5394 0 0 1 5394 23595784 23601177 0.000000e+00 9961.0
1 TraesCS7B01G024900 chr7B 89.250 3172 308 21 1091 4233 23958164 23961331 0.000000e+00 3938.0
2 TraesCS7B01G024900 chr7B 84.747 2570 315 41 1778 4295 23525403 23527947 0.000000e+00 2503.0
3 TraesCS7B01G024900 chr7B 83.563 2464 342 39 1765 4181 23516981 23519428 0.000000e+00 2248.0
4 TraesCS7B01G024900 chr7B 84.781 1853 240 25 843 2674 23582227 23584058 0.000000e+00 1821.0
5 TraesCS7B01G024900 chr7B 85.919 1605 189 22 2707 4295 23584118 23585701 0.000000e+00 1677.0
6 TraesCS7B01G024900 chr7B 87.682 1234 121 16 521 1742 23515693 23516907 0.000000e+00 1408.0
7 TraesCS7B01G024900 chr7B 83.968 1497 208 22 2774 4248 23639655 23641141 0.000000e+00 1406.0
8 TraesCS7B01G024900 chr7B 90.058 342 20 4 1 329 23515103 23515443 1.070000e-116 431.0
9 TraesCS7B01G024900 chr7B 90.643 171 14 1 4618 4788 23528938 23529106 5.440000e-55 226.0
10 TraesCS7B01G024900 chr7B 93.976 83 5 0 4453 4535 23528855 23528937 5.670000e-25 126.0
11 TraesCS7B01G024900 chr7A 86.217 3838 429 44 331 4123 80861393 80865175 0.000000e+00 4065.0
12 TraesCS7B01G024900 chr7A 90.407 344 15 7 1 329 80860915 80861255 2.310000e-118 436.0
13 TraesCS7B01G024900 chr7A 86.306 314 19 9 4305 4595 80865501 80865813 2.420000e-83 320.0
14 TraesCS7B01G024900 chr7A 90.452 199 17 2 4585 4783 80865839 80866035 1.490000e-65 261.0
15 TraesCS7B01G024900 chr7A 86.344 227 20 6 4080 4295 80865225 80865451 2.510000e-58 237.0
16 TraesCS7B01G024900 chr7D 87.225 3272 379 21 812 4058 76784059 76787316 0.000000e+00 3690.0
17 TraesCS7B01G024900 chr7D 85.291 3678 420 54 419 4051 76743081 76746682 0.000000e+00 3683.0
18 TraesCS7B01G024900 chr7D 86.281 3251 381 40 838 4057 76919223 76922439 0.000000e+00 3472.0
19 TraesCS7B01G024900 chr7D 87.863 2134 240 15 2241 4361 77045885 77048012 0.000000e+00 2488.0
20 TraesCS7B01G024900 chr7D 83.182 2539 344 53 1761 4247 76930729 76933236 0.000000e+00 2246.0
21 TraesCS7B01G024900 chr7D 84.577 2185 299 31 1903 4058 76973468 76975643 0.000000e+00 2134.0
22 TraesCS7B01G024900 chr7D 83.474 2015 285 24 2139 4127 76955733 76957725 0.000000e+00 1832.0
23 TraesCS7B01G024900 chr7D 82.952 1965 288 32 1742 3678 76624394 76622449 0.000000e+00 1729.0
24 TraesCS7B01G024900 chr7D 83.720 1640 233 21 962 2578 7548419 7550047 0.000000e+00 1519.0
25 TraesCS7B01G024900 chr7D 87.658 1264 127 15 838 2101 76954494 76955728 0.000000e+00 1443.0
26 TraesCS7B01G024900 chr7D 80.231 1735 302 30 966 2674 7924368 7926087 0.000000e+00 1266.0
27 TraesCS7B01G024900 chr7D 79.833 1795 306 41 912 2674 8052781 8054551 0.000000e+00 1258.0
28 TraesCS7B01G024900 chr7D 83.094 905 122 12 838 1742 76971236 76972109 0.000000e+00 795.0
29 TraesCS7B01G024900 chr7D 91.912 544 29 4 4786 5329 77048678 77049206 0.000000e+00 747.0
30 TraesCS7B01G024900 chr7D 90.155 386 25 2 4416 4788 77048244 77048629 1.750000e-134 490.0
31 TraesCS7B01G024900 chr7D 89.474 342 21 6 1 329 76742412 76742751 8.360000e-113 418.0
32 TraesCS7B01G024900 chr7D 85.091 275 26 6 4791 5058 76923256 76923522 3.200000e-67 267.0
33 TraesCS7B01G024900 chr7D 84.411 263 27 5 4793 5055 76787905 76788153 4.170000e-61 246.0
34 TraesCS7B01G024900 chr7D 85.593 236 14 9 4080 4295 76957705 76957940 4.200000e-56 230.0
35 TraesCS7B01G024900 chr7D 92.453 159 12 0 4075 4233 76787388 76787546 1.510000e-55 228.0
36 TraesCS7B01G024900 chr7D 80.000 360 31 19 4453 4788 76958166 76958508 1.510000e-55 228.0
37 TraesCS7B01G024900 chr7D 94.156 154 1 5 4358 4507 77048134 77048283 1.510000e-55 228.0
38 TraesCS7B01G024900 chr7D 84.390 205 20 4 4793 4996 76958564 76958757 1.980000e-44 191.0
39 TraesCS7B01G024900 chr7D 90.722 97 4 2 5205 5301 382093375 382093284 2.040000e-24 124.0
40 TraesCS7B01G024900 chr7D 91.489 94 3 2 5205 5298 626707619 626707707 2.040000e-24 124.0
41 TraesCS7B01G024900 chr7D 95.775 71 3 0 331 401 76742964 76743034 1.230000e-21 115.0
42 TraesCS7B01G024900 chr7D 77.206 136 22 6 4305 4438 76958000 76958128 2.700000e-08 71.3
43 TraesCS7B01G024900 chrUn 91.489 94 3 2 5205 5298 325547119 325547207 2.040000e-24 124.0
44 TraesCS7B01G024900 chrUn 91.489 94 3 2 5205 5298 325550215 325550303 2.040000e-24 124.0
45 TraesCS7B01G024900 chrUn 90.722 97 4 2 5205 5301 329020285 329020194 2.040000e-24 124.0
46 TraesCS7B01G024900 chr4D 90.722 97 4 2 5205 5301 123405092 123405001 2.040000e-24 124.0
47 TraesCS7B01G024900 chr4D 89.691 97 5 2 5205 5301 134966582 134966491 9.490000e-23 119.0
48 TraesCS7B01G024900 chr2B 89.362 94 5 2 5205 5298 357447592 357447680 4.420000e-21 113.0


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 TraesCS7B01G024900 chr7B 23595784 23601177 5393 False 9961.000000 9961 100.000000 1 5394 1 chr7B.!!$F1 5393
1 TraesCS7B01G024900 chr7B 23958164 23961331 3167 False 3938.000000 3938 89.250000 1091 4233 1 chr7B.!!$F3 3142
2 TraesCS7B01G024900 chr7B 23582227 23585701 3474 False 1749.000000 1821 85.350000 843 4295 2 chr7B.!!$F6 3452
3 TraesCS7B01G024900 chr7B 23639655 23641141 1486 False 1406.000000 1406 83.968000 2774 4248 1 chr7B.!!$F2 1474
4 TraesCS7B01G024900 chr7B 23515103 23519428 4325 False 1362.333333 2248 87.101000 1 4181 3 chr7B.!!$F4 4180
5 TraesCS7B01G024900 chr7B 23525403 23529106 3703 False 951.666667 2503 89.788667 1778 4788 3 chr7B.!!$F5 3010
6 TraesCS7B01G024900 chr7A 80860915 80866035 5120 False 1063.800000 4065 87.945200 1 4783 5 chr7A.!!$F1 4782
7 TraesCS7B01G024900 chr7D 76930729 76933236 2507 False 2246.000000 2246 83.182000 1761 4247 1 chr7D.!!$F4 2486
8 TraesCS7B01G024900 chr7D 76919223 76923522 4299 False 1869.500000 3472 85.686000 838 5058 2 chr7D.!!$F8 4220
9 TraesCS7B01G024900 chr7D 76622449 76624394 1945 True 1729.000000 1729 82.952000 1742 3678 1 chr7D.!!$R1 1936
10 TraesCS7B01G024900 chr7D 7548419 7550047 1628 False 1519.000000 1519 83.720000 962 2578 1 chr7D.!!$F1 1616
11 TraesCS7B01G024900 chr7D 76971236 76975643 4407 False 1464.500000 2134 83.835500 838 4058 2 chr7D.!!$F10 3220
12 TraesCS7B01G024900 chr7D 76742412 76746682 4270 False 1405.333333 3683 90.180000 1 4051 3 chr7D.!!$F6 4050
13 TraesCS7B01G024900 chr7D 76784059 76788153 4094 False 1388.000000 3690 88.029667 812 5055 3 chr7D.!!$F7 4243
14 TraesCS7B01G024900 chr7D 7924368 7926087 1719 False 1266.000000 1266 80.231000 966 2674 1 chr7D.!!$F2 1708
15 TraesCS7B01G024900 chr7D 8052781 8054551 1770 False 1258.000000 1258 79.833000 912 2674 1 chr7D.!!$F3 1762
16 TraesCS7B01G024900 chr7D 77045885 77049206 3321 False 988.250000 2488 91.021500 2241 5329 4 chr7D.!!$F11 3088
17 TraesCS7B01G024900 chr7D 76954494 76958757 4263 False 665.883333 1832 83.053500 838 4996 6 chr7D.!!$F9 4158

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
184 199 0.251354 AGCGTCATCAAGCATCCTGT 59.749 50.0 0.00 0.00 35.48 4.00 F
1181 1532 0.038744 AGGAGCCAGACAAATGGTGG 59.961 55.0 0.00 0.85 42.75 4.61 F
2997 4658 0.033504 GTCAGCTGGTCAACCTTCGA 59.966 55.0 15.13 0.00 36.82 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1283 1634 0.744771 GGAAGTGGACTTGCCGATCC 60.745 60.000 0.00 0.0 38.21 3.36 R
3108 4770 0.038892 CTTTTGCATGCTCGGCACTT 60.039 50.000 20.33 0.0 43.04 3.16 R
4431 7159 1.066143 GGCACTAGCAGCAGGAAGTAA 60.066 52.381 9.64 0.0 44.61 2.24 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
107 109 9.435688 CTGAAATGGTGGATATATCGTTGATAA 57.564 33.333 6.64 0.00 0.00 1.75
184 199 0.251354 AGCGTCATCAAGCATCCTGT 59.749 50.000 0.00 0.00 35.48 4.00
207 222 3.382865 AGATTGAAGAGCGAGCTGTATCA 59.617 43.478 0.84 3.01 0.00 2.15
259 274 4.575973 AGCCCTGCATGATCGCCC 62.576 66.667 0.00 0.00 0.00 6.13
293 308 0.400594 ACCTGTGAAGGGGCACTTAC 59.599 55.000 0.00 1.99 40.21 2.34
305 320 2.029918 GGGCACTTACTTTCCTGCAAAG 60.030 50.000 0.00 0.00 46.36 2.77
308 323 3.315191 GCACTTACTTTCCTGCAAAGACA 59.685 43.478 3.66 0.00 44.02 3.41
314 329 3.385755 ACTTTCCTGCAAAGACAAGCATT 59.614 39.130 3.66 0.00 44.02 3.56
329 344 1.541588 AGCATTGTTTCGAGCTTTCCC 59.458 47.619 0.00 0.00 32.52 3.97
366 604 9.326489 TCTAGGAATTGCTATATAACATCCTGT 57.674 33.333 14.61 0.00 36.74 4.00
485 752 2.493278 ACTGCAAACAATACATCCTGCC 59.507 45.455 0.00 0.00 0.00 4.85
486 753 2.492881 CTGCAAACAATACATCCTGCCA 59.507 45.455 0.00 0.00 0.00 4.92
506 773 7.255801 CCTGCCACCAGAAGTTTTCTTTTATTA 60.256 37.037 0.00 0.00 41.77 0.98
508 775 9.303116 TGCCACCAGAAGTTTTCTTTTATTATA 57.697 29.630 0.00 0.00 40.61 0.98
531 798 1.680555 GCCACCCCATGTTATCGTTCA 60.681 52.381 0.00 0.00 0.00 3.18
597 864 1.223187 ACGAACGGTAAAAGCAGTGG 58.777 50.000 0.00 0.00 0.00 4.00
627 915 6.404074 GCACTTTACTGCATCAGCTTTATTCT 60.404 38.462 0.00 0.00 42.74 2.40
688 1007 5.257262 AGTTTAGCATCTCTTCTTTTCCCC 58.743 41.667 0.00 0.00 0.00 4.81
689 1008 2.816777 AGCATCTCTTCTTTTCCCCC 57.183 50.000 0.00 0.00 0.00 5.40
691 1010 2.651841 AGCATCTCTTCTTTTCCCCCTT 59.348 45.455 0.00 0.00 0.00 3.95
692 1011 3.852578 AGCATCTCTTCTTTTCCCCCTTA 59.147 43.478 0.00 0.00 0.00 2.69
693 1012 4.292306 AGCATCTCTTCTTTTCCCCCTTAA 59.708 41.667 0.00 0.00 0.00 1.85
695 1014 5.658634 GCATCTCTTCTTTTCCCCCTTAATT 59.341 40.000 0.00 0.00 0.00 1.40
696 1015 6.833933 GCATCTCTTCTTTTCCCCCTTAATTA 59.166 38.462 0.00 0.00 0.00 1.40
697 1016 7.342026 GCATCTCTTCTTTTCCCCCTTAATTAA 59.658 37.037 0.00 0.00 0.00 1.40
700 1019 9.837681 TCTCTTCTTTTCCCCCTTAATTAATTT 57.162 29.630 5.91 0.00 0.00 1.82
708 1027 9.837681 TTTCCCCCTTAATTAATTTTCTCTTCT 57.162 29.630 5.91 0.00 0.00 2.85
709 1028 9.837681 TTCCCCCTTAATTAATTTTCTCTTCTT 57.162 29.630 5.91 0.00 0.00 2.52
710 1029 9.837681 TCCCCCTTAATTAATTTTCTCTTCTTT 57.162 29.630 5.91 0.00 0.00 2.52
719 1038 8.887036 TTAATTTTCTCTTCTTTTCCCTTTGC 57.113 30.769 0.00 0.00 0.00 3.68
720 1039 4.937201 TTTCTCTTCTTTTCCCTTTGCC 57.063 40.909 0.00 0.00 0.00 4.52
721 1040 3.884037 TCTCTTCTTTTCCCTTTGCCT 57.116 42.857 0.00 0.00 0.00 4.75
791 1110 2.754186 GCAGCATCCCATTCCCATAGTT 60.754 50.000 0.00 0.00 0.00 2.24
802 1121 0.679640 CCCATAGTTGCCTTGGCGAA 60.680 55.000 2.72 0.00 0.00 4.70
803 1122 1.173043 CCATAGTTGCCTTGGCGAAA 58.827 50.000 2.72 0.00 0.00 3.46
804 1123 1.543802 CCATAGTTGCCTTGGCGAAAA 59.456 47.619 2.72 0.00 0.00 2.29
805 1124 2.595386 CATAGTTGCCTTGGCGAAAAC 58.405 47.619 2.72 4.36 0.00 2.43
856 1175 1.855360 GTTGGATCTGATCGACTTCGC 59.145 52.381 11.28 0.00 39.60 4.70
906 1232 3.935818 TCTGGGGTGTGTTTTGTTCTA 57.064 42.857 0.00 0.00 0.00 2.10
1179 1530 2.519013 GAAAGGAGCCAGACAAATGGT 58.481 47.619 0.00 0.00 42.75 3.55
1180 1531 1.915141 AAGGAGCCAGACAAATGGTG 58.085 50.000 0.00 0.00 42.75 4.17
1181 1532 0.038744 AGGAGCCAGACAAATGGTGG 59.961 55.000 0.00 0.85 42.75 4.61
1182 1533 0.251341 GGAGCCAGACAAATGGTGGT 60.251 55.000 6.09 0.00 42.75 4.16
1183 1534 0.883833 GAGCCAGACAAATGGTGGTG 59.116 55.000 6.09 0.00 42.75 4.17
1184 1535 0.478072 AGCCAGACAAATGGTGGTGA 59.522 50.000 6.09 0.00 42.75 4.02
1265 1616 1.465354 CGACGACTTTCAGTACGAGGG 60.465 57.143 0.00 0.00 0.00 4.30
1325 1676 2.418197 GCAAGGTACTCGGCTATGTCAA 60.418 50.000 0.00 0.00 38.49 3.18
1353 1704 1.866925 CCCGTTGCTCTTCCGTTTC 59.133 57.895 0.00 0.00 0.00 2.78
1989 3557 2.941480 CCCCATGAGCTAGCATTTCTT 58.059 47.619 18.83 1.14 0.00 2.52
2349 3922 3.738830 CAACTATGGATGGCAAATGGG 57.261 47.619 0.00 0.00 0.00 4.00
2571 4174 8.530269 AAGAATTGATTGAACAGAAAGCATTC 57.470 30.769 0.00 0.00 35.70 2.67
2613 4228 6.154877 ACCTGCAAATGTCAATGGATAATTCA 59.845 34.615 0.00 0.00 0.00 2.57
2617 4232 8.937884 TGCAAATGTCAATGGATAATTCAAAAG 58.062 29.630 0.00 0.00 0.00 2.27
2629 4244 9.565090 TGGATAATTCAAAAGAGACCTATGATG 57.435 33.333 0.00 0.00 0.00 3.07
2688 4327 4.446371 CTCCTTCATTGATGTACCAGGAC 58.554 47.826 0.00 0.00 0.00 3.85
2715 4373 1.533129 CGGCTGTCACATGCATCATTG 60.533 52.381 0.00 0.00 0.00 2.82
2884 4542 4.098349 GGCTGAATAATTGCAATGGACTGA 59.902 41.667 13.82 0.00 0.00 3.41
2901 4559 3.177228 ACTGAGGCAGTTACCAGAAGAT 58.823 45.455 0.00 0.00 42.59 2.40
2919 4577 5.188163 AGAAGATATGATGATGAGCCTGAGG 59.812 44.000 0.00 0.00 0.00 3.86
2936 4594 5.435291 CCTGAGGAAGCTCATACATCTTTT 58.565 41.667 0.00 0.00 32.39 2.27
2956 4617 6.534793 TCTTTTTCTTTTTGGATGTCAGTTGC 59.465 34.615 0.00 0.00 0.00 4.17
2986 4647 2.005451 CTCGAAAGATTGGTCAGCTGG 58.995 52.381 15.13 0.00 40.84 4.85
2987 4648 1.347707 TCGAAAGATTGGTCAGCTGGT 59.652 47.619 15.13 0.00 33.31 4.00
2997 4658 0.033504 GTCAGCTGGTCAACCTTCGA 59.966 55.000 15.13 0.00 36.82 3.71
3087 4749 3.222603 CCTTAGCAACAGGTTGGAACTT 58.777 45.455 13.52 0.00 40.74 2.66
3114 4776 8.196802 ACAACTTGAGAAAAATAAAAAGTGCC 57.803 30.769 0.00 0.00 0.00 5.01
3144 4806 2.592102 AAGAAGCCAATCTCCAGCAA 57.408 45.000 0.00 0.00 0.00 3.91
3158 4820 3.981211 TCCAGCAAAAGCAAAATCTGAC 58.019 40.909 0.00 0.00 0.00 3.51
3211 4882 0.323269 TGGCATGCCCGAAAATGAGA 60.323 50.000 33.44 8.21 35.87 3.27
3215 4886 2.618241 GCATGCCCGAAAATGAGACATA 59.382 45.455 6.36 0.00 0.00 2.29
3218 4889 5.391310 GCATGCCCGAAAATGAGACATATAG 60.391 44.000 6.36 0.00 0.00 1.31
3225 4896 7.382110 CCGAAAATGAGACATATAGTGAGGAT 58.618 38.462 0.00 0.00 0.00 3.24
3234 4905 8.768501 AGACATATAGTGAGGATGAAGTGTTA 57.231 34.615 0.00 0.00 0.00 2.41
3237 4908 8.928448 ACATATAGTGAGGATGAAGTGTTACAT 58.072 33.333 0.00 0.00 0.00 2.29
3292 4963 1.635487 AGTTACATGGATGTGGTGGCT 59.365 47.619 2.38 0.00 41.89 4.75
3336 5007 4.019501 AGAGATCCTCAAATGCTTCAGTGT 60.020 41.667 0.00 0.00 32.06 3.55
3420 5091 5.992217 GTCAACTTCACTGGAGTTCTTACAT 59.008 40.000 0.00 0.00 0.00 2.29
3436 5107 4.646040 TCTTACATTTGGGCAGAATGGATG 59.354 41.667 14.08 9.30 38.50 3.51
3441 5112 2.425143 TGGGCAGAATGGATGAACTC 57.575 50.000 0.00 0.00 35.86 3.01
3529 5200 4.389374 GAAGTTGAAGGACATGGTCTTGA 58.611 43.478 7.41 0.00 32.47 3.02
3561 5232 1.507300 AGTCTAGAGGGATGGGCAGAT 59.493 52.381 0.00 0.00 0.00 2.90
3569 5240 1.212935 GGGATGGGCAGATAACAGTGT 59.787 52.381 0.00 0.00 0.00 3.55
3597 5268 7.928706 GGTGTGTCTATTGATAGCTCAGTAATT 59.071 37.037 0.00 0.00 31.68 1.40
3651 5322 5.310451 CACTGCCCTAAGGTTACAAGTTTA 58.690 41.667 0.00 0.00 34.57 2.01
3679 5353 0.321653 CCCCGTTCTCAAAGACCTGG 60.322 60.000 0.00 0.00 0.00 4.45
3749 5450 3.161866 GGTTGCCTACATCCCTTGAAAA 58.838 45.455 0.00 0.00 30.50 2.29
3825 5526 0.321919 TGGCAAAGCTGAGCTACCTG 60.322 55.000 7.68 7.07 38.25 4.00
3832 5533 0.036875 GCTGAGCTACCTGGTGGTTT 59.963 55.000 10.23 0.00 46.05 3.27
3845 5546 1.338020 GGTGGTTTATAGCTGCATGGC 59.662 52.381 1.02 0.00 0.00 4.40
3905 5606 5.620738 TCTCTTCGGAAATTGGAGATCAT 57.379 39.130 0.00 0.00 0.00 2.45
4025 5726 2.581354 CAGAGAAGGCGGGGAGTG 59.419 66.667 0.00 0.00 0.00 3.51
4047 5748 4.530553 TGTTTCCAGCACTTGTCTCCTATA 59.469 41.667 0.00 0.00 0.00 1.31
4192 6037 6.377429 TCACTCGAAGTCTGGTGATAACTAAT 59.623 38.462 0.00 0.00 34.38 1.73
4431 7159 4.105754 TCCGATCCAGTGACATCTCTAT 57.894 45.455 0.00 0.00 0.00 1.98
4494 7347 6.897966 TCCAGTGACATCTCTAATACTTCCTT 59.102 38.462 0.00 0.00 0.00 3.36
4568 7432 3.733337 ACTGCAGATTCCCGATGATAAC 58.267 45.455 23.35 0.00 0.00 1.89
4662 7583 2.658373 AATTGCTTTGATGCGATGCA 57.342 40.000 0.00 0.00 44.86 3.96
4711 7634 4.098055 TGTCTCTCTGTAATCGACAAGC 57.902 45.455 0.00 0.00 37.70 4.01
4766 7804 6.884295 ACCTACAATTATCTTGCTTTGCACTA 59.116 34.615 0.00 0.00 38.71 2.74
4788 7826 4.748892 ACTGTCAGAATTCAGATACCACG 58.251 43.478 6.91 0.00 35.84 4.94
4789 7827 3.521560 TGTCAGAATTCAGATACCACGC 58.478 45.455 8.44 0.00 0.00 5.34
4889 7979 7.359514 CGACGCTAATGTGATCAATCAATGTAT 60.360 37.037 0.00 0.00 38.75 2.29
4901 7998 3.998913 TCAATGTATCTGCAGGTTGGA 57.001 42.857 15.13 0.00 0.00 3.53
4999 8096 4.155462 GCATGTGATCAGTGTTGTCTGAAT 59.845 41.667 0.00 0.00 45.65 2.57
5003 8100 5.237127 TGTGATCAGTGTTGTCTGAATGAAC 59.763 40.000 0.00 0.00 45.65 3.18
5085 8182 6.470278 CAGGCAGATATGTCTTGATCCAATA 58.530 40.000 0.00 0.00 30.42 1.90
5107 8204 9.623350 CAATATCTCTACATGTAGATGTCAGTG 57.377 37.037 30.76 21.22 42.14 3.66
5112 8209 7.611855 TCTCTACATGTAGATGTCAGTGAGAAA 59.388 37.037 30.76 8.20 42.14 2.52
5113 8210 8.298729 TCTACATGTAGATGTCAGTGAGAAAT 57.701 34.615 27.96 0.00 42.14 2.17
5114 8211 8.753133 TCTACATGTAGATGTCAGTGAGAAATT 58.247 33.333 27.96 0.00 42.14 1.82
5117 8214 9.725019 ACATGTAGATGTCAGTGAGAAATTAAA 57.275 29.630 0.00 0.00 38.53 1.52
5152 8249 4.335594 GCCTGTAAATTCGCAAATAGTCCT 59.664 41.667 0.00 0.00 0.00 3.85
5178 8275 0.539051 CTCAGAGGAACGAAGCCCAT 59.461 55.000 0.00 0.00 0.00 4.00
5200 8297 1.227793 TGTGTGCGTGGCAATCTGA 60.228 52.632 0.00 0.00 41.47 3.27
5238 8335 2.280628 GAGATGGTTCGATGGTTGGTC 58.719 52.381 0.00 0.00 0.00 4.02
5251 8348 4.311700 TGGTCACTCCAAGCCAGA 57.688 55.556 0.00 0.00 44.12 3.86
5274 8371 9.107177 CAGAGTGATGCTTTCTTAGTTTCATAT 57.893 33.333 0.00 0.00 0.00 1.78
5301 8398 0.748367 GCCTTTCTAAGCCCTTCCCG 60.748 60.000 0.00 0.00 0.00 5.14
5323 8420 5.088739 CGTTTCAATTCCTTTCCTTCATCG 58.911 41.667 0.00 0.00 0.00 3.84
5329 8426 7.165485 TCAATTCCTTTCCTTCATCGTTCTTA 58.835 34.615 0.00 0.00 0.00 2.10
5330 8427 7.829211 TCAATTCCTTTCCTTCATCGTTCTTAT 59.171 33.333 0.00 0.00 0.00 1.73
5331 8428 8.462016 CAATTCCTTTCCTTCATCGTTCTTATT 58.538 33.333 0.00 0.00 0.00 1.40
5332 8429 9.681062 AATTCCTTTCCTTCATCGTTCTTATTA 57.319 29.630 0.00 0.00 0.00 0.98
5333 8430 8.488651 TTCCTTTCCTTCATCGTTCTTATTAC 57.511 34.615 0.00 0.00 0.00 1.89
5334 8431 7.046033 TCCTTTCCTTCATCGTTCTTATTACC 58.954 38.462 0.00 0.00 0.00 2.85
5335 8432 6.821665 CCTTTCCTTCATCGTTCTTATTACCA 59.178 38.462 0.00 0.00 0.00 3.25
5336 8433 7.011482 CCTTTCCTTCATCGTTCTTATTACCAG 59.989 40.741 0.00 0.00 0.00 4.00
5337 8434 6.540438 TCCTTCATCGTTCTTATTACCAGT 57.460 37.500 0.00 0.00 0.00 4.00
5338 8435 6.338146 TCCTTCATCGTTCTTATTACCAGTG 58.662 40.000 0.00 0.00 0.00 3.66
5339 8436 5.523916 CCTTCATCGTTCTTATTACCAGTGG 59.476 44.000 7.91 7.91 0.00 4.00
5340 8437 5.925506 TCATCGTTCTTATTACCAGTGGA 57.074 39.130 18.40 0.00 0.00 4.02
5341 8438 6.479972 TCATCGTTCTTATTACCAGTGGAT 57.520 37.500 18.40 1.80 0.00 3.41
5342 8439 6.513180 TCATCGTTCTTATTACCAGTGGATC 58.487 40.000 18.40 0.00 0.00 3.36
5343 8440 4.928601 TCGTTCTTATTACCAGTGGATCG 58.071 43.478 18.40 2.51 0.00 3.69
5344 8441 4.400251 TCGTTCTTATTACCAGTGGATCGT 59.600 41.667 18.40 0.00 0.00 3.73
5345 8442 5.589855 TCGTTCTTATTACCAGTGGATCGTA 59.410 40.000 18.40 0.00 0.00 3.43
5346 8443 6.263842 TCGTTCTTATTACCAGTGGATCGTAT 59.736 38.462 18.40 4.02 0.00 3.06
5347 8444 6.921857 CGTTCTTATTACCAGTGGATCGTATT 59.078 38.462 18.40 0.00 0.00 1.89
5348 8445 7.096189 CGTTCTTATTACCAGTGGATCGTATTG 60.096 40.741 18.40 0.00 0.00 1.90
5349 8446 7.356089 TCTTATTACCAGTGGATCGTATTGT 57.644 36.000 18.40 0.00 0.00 2.71
5350 8447 7.431249 TCTTATTACCAGTGGATCGTATTGTC 58.569 38.462 18.40 0.00 0.00 3.18
5351 8448 2.981859 ACCAGTGGATCGTATTGTCC 57.018 50.000 18.40 0.00 35.02 4.02
5352 8449 1.136305 ACCAGTGGATCGTATTGTCCG 59.864 52.381 18.40 0.00 37.32 4.79
5353 8450 1.136305 CCAGTGGATCGTATTGTCCGT 59.864 52.381 1.68 0.00 37.32 4.69
5354 8451 2.193447 CAGTGGATCGTATTGTCCGTG 58.807 52.381 0.00 0.00 37.32 4.94
5355 8452 1.822990 AGTGGATCGTATTGTCCGTGT 59.177 47.619 0.00 0.00 37.32 4.49
5356 8453 1.924524 GTGGATCGTATTGTCCGTGTG 59.075 52.381 0.00 0.00 37.32 3.82
5357 8454 0.928229 GGATCGTATTGTCCGTGTGC 59.072 55.000 0.00 0.00 0.00 4.57
5358 8455 0.570734 GATCGTATTGTCCGTGTGCG 59.429 55.000 0.00 0.00 37.95 5.34
5359 8456 0.108992 ATCGTATTGTCCGTGTGCGT 60.109 50.000 0.00 0.00 36.15 5.24
5360 8457 1.004785 TCGTATTGTCCGTGTGCGTG 61.005 55.000 0.00 0.00 36.15 5.34
5361 8458 1.279527 CGTATTGTCCGTGTGCGTGT 61.280 55.000 0.00 0.00 36.15 4.49
5362 8459 0.437295 GTATTGTCCGTGTGCGTGTC 59.563 55.000 0.00 0.00 36.15 3.67
5363 8460 1.004785 TATTGTCCGTGTGCGTGTCG 61.005 55.000 0.00 0.00 36.15 4.35
5364 8461 2.964438 ATTGTCCGTGTGCGTGTCGT 62.964 55.000 0.00 0.00 36.15 4.34
5365 8462 2.958016 GTCCGTGTGCGTGTCGTT 60.958 61.111 0.00 0.00 36.15 3.85
5366 8463 2.957489 TCCGTGTGCGTGTCGTTG 60.957 61.111 0.00 0.00 36.15 4.10
5367 8464 3.259020 CCGTGTGCGTGTCGTTGT 61.259 61.111 0.00 0.00 36.15 3.32
5368 8465 2.698616 CGTGTGCGTGTCGTTGTT 59.301 55.556 0.00 0.00 0.00 2.83
5369 8466 1.059681 CGTGTGCGTGTCGTTGTTT 59.940 52.632 0.00 0.00 0.00 2.83
5370 8467 1.185128 CGTGTGCGTGTCGTTGTTTG 61.185 55.000 0.00 0.00 0.00 2.93
5371 8468 0.859788 GTGTGCGTGTCGTTGTTTGG 60.860 55.000 0.00 0.00 0.00 3.28
5372 8469 1.019805 TGTGCGTGTCGTTGTTTGGA 61.020 50.000 0.00 0.00 0.00 3.53
5373 8470 0.097325 GTGCGTGTCGTTGTTTGGAA 59.903 50.000 0.00 0.00 0.00 3.53
5374 8471 1.018148 TGCGTGTCGTTGTTTGGAAT 58.982 45.000 0.00 0.00 0.00 3.01
5375 8472 1.402259 TGCGTGTCGTTGTTTGGAATT 59.598 42.857 0.00 0.00 0.00 2.17
5376 8473 1.778591 GCGTGTCGTTGTTTGGAATTG 59.221 47.619 0.00 0.00 0.00 2.32
5377 8474 2.380660 CGTGTCGTTGTTTGGAATTGG 58.619 47.619 0.00 0.00 0.00 3.16
5378 8475 2.738135 GTGTCGTTGTTTGGAATTGGG 58.262 47.619 0.00 0.00 0.00 4.12
5379 8476 2.359531 GTGTCGTTGTTTGGAATTGGGA 59.640 45.455 0.00 0.00 0.00 4.37
5380 8477 2.621055 TGTCGTTGTTTGGAATTGGGAG 59.379 45.455 0.00 0.00 0.00 4.30
5381 8478 2.621526 GTCGTTGTTTGGAATTGGGAGT 59.378 45.455 0.00 0.00 0.00 3.85
5382 8479 2.621055 TCGTTGTTTGGAATTGGGAGTG 59.379 45.455 0.00 0.00 0.00 3.51
5383 8480 2.360801 CGTTGTTTGGAATTGGGAGTGT 59.639 45.455 0.00 0.00 0.00 3.55
5384 8481 3.181480 CGTTGTTTGGAATTGGGAGTGTT 60.181 43.478 0.00 0.00 0.00 3.32
5385 8482 4.679372 CGTTGTTTGGAATTGGGAGTGTTT 60.679 41.667 0.00 0.00 0.00 2.83
5386 8483 4.399004 TGTTTGGAATTGGGAGTGTTTG 57.601 40.909 0.00 0.00 0.00 2.93
5387 8484 3.133721 TGTTTGGAATTGGGAGTGTTTGG 59.866 43.478 0.00 0.00 0.00 3.28
5388 8485 2.765689 TGGAATTGGGAGTGTTTGGT 57.234 45.000 0.00 0.00 0.00 3.67
5389 8486 2.593026 TGGAATTGGGAGTGTTTGGTC 58.407 47.619 0.00 0.00 0.00 4.02
5390 8487 2.091610 TGGAATTGGGAGTGTTTGGTCA 60.092 45.455 0.00 0.00 0.00 4.02
5391 8488 2.558359 GGAATTGGGAGTGTTTGGTCAG 59.442 50.000 0.00 0.00 0.00 3.51
5392 8489 3.222603 GAATTGGGAGTGTTTGGTCAGT 58.777 45.455 0.00 0.00 0.00 3.41
5393 8490 2.818751 TTGGGAGTGTTTGGTCAGTT 57.181 45.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
184 199 4.580580 TGATACAGCTCGCTCTTCAATCTA 59.419 41.667 0.00 0.00 0.00 1.98
207 222 2.780010 ACCAATTTCCTCTCGGATGGAT 59.220 45.455 6.51 0.00 38.67 3.41
279 294 2.062636 AGGAAAGTAAGTGCCCCTTCA 58.937 47.619 0.00 0.00 34.46 3.02
293 308 3.655276 ATGCTTGTCTTTGCAGGAAAG 57.345 42.857 8.09 8.09 42.74 2.62
305 320 2.977405 AGCTCGAAACAATGCTTGTC 57.023 45.000 2.65 0.00 44.59 3.18
308 323 2.029918 GGGAAAGCTCGAAACAATGCTT 60.030 45.455 1.81 1.81 46.11 3.91
314 329 0.816018 TTGCGGGAAAGCTCGAAACA 60.816 50.000 0.00 0.00 41.67 2.83
401 639 7.178451 TCCACGCAAAGGATATATGAAGATCTA 59.822 37.037 0.00 0.00 0.00 1.98
403 641 6.091441 GTCCACGCAAAGGATATATGAAGATC 59.909 42.308 0.00 0.00 37.52 2.75
404 642 5.934625 GTCCACGCAAAGGATATATGAAGAT 59.065 40.000 0.00 0.00 37.52 2.40
405 643 5.163353 TGTCCACGCAAAGGATATATGAAGA 60.163 40.000 0.00 0.00 37.52 2.87
406 644 5.056480 TGTCCACGCAAAGGATATATGAAG 58.944 41.667 0.00 0.00 37.52 3.02
407 645 5.029807 TGTCCACGCAAAGGATATATGAA 57.970 39.130 0.00 0.00 37.52 2.57
408 646 4.681074 TGTCCACGCAAAGGATATATGA 57.319 40.909 0.00 0.00 37.52 2.15
409 647 4.154737 CCATGTCCACGCAAAGGATATATG 59.845 45.833 0.00 0.00 35.14 1.78
410 648 4.041567 TCCATGTCCACGCAAAGGATATAT 59.958 41.667 0.00 0.00 35.14 0.86
412 650 2.172505 TCCATGTCCACGCAAAGGATAT 59.827 45.455 0.00 0.00 37.45 1.63
456 723 2.664402 ATTGTTTGCAGTCCCTGACT 57.336 45.000 0.00 0.00 44.44 3.41
475 742 1.656587 ACTTCTGGTGGCAGGATGTA 58.343 50.000 0.00 0.00 39.31 2.29
506 773 2.290896 CGATAACATGGGGTGGCCATAT 60.291 50.000 9.72 0.00 0.00 1.78
508 775 0.178992 CGATAACATGGGGTGGCCAT 60.179 55.000 9.72 0.00 0.00 4.40
526 793 6.195613 TGAACGTTTGCTTCTTTTTATGAACG 59.804 34.615 0.46 0.00 42.81 3.95
531 798 8.379902 CAAAACTGAACGTTTGCTTCTTTTTAT 58.620 29.630 0.46 0.00 44.77 1.40
564 831 5.229921 ACCGTTCGTTTGGATTAATGATG 57.770 39.130 0.00 0.00 0.00 3.07
567 834 6.033091 GCTTTTACCGTTCGTTTGGATTAATG 59.967 38.462 0.00 0.00 0.00 1.90
607 884 8.109705 TGAAAAGAATAAAGCTGATGCAGTAA 57.890 30.769 0.00 0.00 42.74 2.24
609 886 6.579666 TGAAAAGAATAAAGCTGATGCAGT 57.420 33.333 0.00 0.00 42.74 4.40
693 1012 9.494271 GCAAAGGGAAAAGAAGAGAAAATTAAT 57.506 29.630 0.00 0.00 0.00 1.40
695 1014 7.290014 AGGCAAAGGGAAAAGAAGAGAAAATTA 59.710 33.333 0.00 0.00 0.00 1.40
696 1015 6.100279 AGGCAAAGGGAAAAGAAGAGAAAATT 59.900 34.615 0.00 0.00 0.00 1.82
697 1016 5.604231 AGGCAAAGGGAAAAGAAGAGAAAAT 59.396 36.000 0.00 0.00 0.00 1.82
700 1019 4.141158 AGAGGCAAAGGGAAAAGAAGAGAA 60.141 41.667 0.00 0.00 0.00 2.87
701 1020 3.395941 AGAGGCAAAGGGAAAAGAAGAGA 59.604 43.478 0.00 0.00 0.00 3.10
702 1021 3.755905 GAGAGGCAAAGGGAAAAGAAGAG 59.244 47.826 0.00 0.00 0.00 2.85
703 1022 3.395941 AGAGAGGCAAAGGGAAAAGAAGA 59.604 43.478 0.00 0.00 0.00 2.87
704 1023 3.760738 AGAGAGGCAAAGGGAAAAGAAG 58.239 45.455 0.00 0.00 0.00 2.85
706 1025 3.756117 GAAGAGAGGCAAAGGGAAAAGA 58.244 45.455 0.00 0.00 0.00 2.52
707 1026 2.485814 CGAAGAGAGGCAAAGGGAAAAG 59.514 50.000 0.00 0.00 0.00 2.27
708 1027 2.158667 ACGAAGAGAGGCAAAGGGAAAA 60.159 45.455 0.00 0.00 0.00 2.29
709 1028 1.420138 ACGAAGAGAGGCAAAGGGAAA 59.580 47.619 0.00 0.00 0.00 3.13
710 1029 1.002087 GACGAAGAGAGGCAAAGGGAA 59.998 52.381 0.00 0.00 0.00 3.97
711 1030 0.608640 GACGAAGAGAGGCAAAGGGA 59.391 55.000 0.00 0.00 0.00 4.20
712 1031 0.321671 TGACGAAGAGAGGCAAAGGG 59.678 55.000 0.00 0.00 0.00 3.95
713 1032 1.719600 CTGACGAAGAGAGGCAAAGG 58.280 55.000 0.00 0.00 0.00 3.11
714 1033 1.074752 GCTGACGAAGAGAGGCAAAG 58.925 55.000 0.00 0.00 0.00 2.77
715 1034 0.681733 AGCTGACGAAGAGAGGCAAA 59.318 50.000 0.00 0.00 0.00 3.68
716 1035 0.037882 CAGCTGACGAAGAGAGGCAA 60.038 55.000 8.42 0.00 0.00 4.52
717 1036 1.588597 CAGCTGACGAAGAGAGGCA 59.411 57.895 8.42 0.00 0.00 4.75
718 1037 1.809209 GCAGCTGACGAAGAGAGGC 60.809 63.158 20.43 0.00 0.00 4.70
719 1038 0.175302 ATGCAGCTGACGAAGAGAGG 59.825 55.000 20.43 0.00 0.00 3.69
720 1039 1.279152 CATGCAGCTGACGAAGAGAG 58.721 55.000 20.43 0.00 0.00 3.20
721 1040 0.738762 GCATGCAGCTGACGAAGAGA 60.739 55.000 20.43 0.00 41.15 3.10
791 1110 0.030101 CTTTCGTTTTCGCCAAGGCA 59.970 50.000 12.19 0.00 43.73 4.75
802 1121 0.666374 CCGGTTTGGAGCTTTCGTTT 59.334 50.000 0.00 0.00 42.00 3.60
803 1122 1.170290 CCCGGTTTGGAGCTTTCGTT 61.170 55.000 0.00 0.00 42.00 3.85
804 1123 1.599797 CCCGGTTTGGAGCTTTCGT 60.600 57.895 0.00 0.00 42.00 3.85
805 1124 2.332654 CCCCGGTTTGGAGCTTTCG 61.333 63.158 0.00 0.00 42.00 3.46
906 1232 2.872038 GCAGATCAGGAACAACCGAAGT 60.872 50.000 0.00 0.00 44.74 3.01
1136 1481 4.347453 CGTTGGCCAGCTTGCACC 62.347 66.667 18.19 0.00 0.00 5.01
1179 1530 2.234661 CCAGCTCTTGATGTAGTCACCA 59.765 50.000 0.00 0.00 36.32 4.17
1180 1531 2.497675 TCCAGCTCTTGATGTAGTCACC 59.502 50.000 0.00 0.00 36.32 4.02
1181 1532 3.876274 TCCAGCTCTTGATGTAGTCAC 57.124 47.619 0.00 0.00 36.32 3.67
1182 1533 3.133542 CCATCCAGCTCTTGATGTAGTCA 59.866 47.826 13.52 0.00 37.30 3.41
1183 1534 3.386078 TCCATCCAGCTCTTGATGTAGTC 59.614 47.826 13.52 0.00 37.30 2.59
1184 1535 3.378512 TCCATCCAGCTCTTGATGTAGT 58.621 45.455 13.52 0.00 37.30 2.73
1283 1634 0.744771 GGAAGTGGACTTGCCGATCC 60.745 60.000 0.00 0.00 38.21 3.36
1325 1676 3.996614 GCAACGGGCTGTGGTATT 58.003 55.556 0.00 0.00 40.25 1.89
1989 3557 4.656100 TTCCCATGAATCTTCTTCACCA 57.344 40.909 0.00 0.00 0.00 4.17
2349 3922 6.967199 CCATTGTCGCCTCTTCTTTAATAAAC 59.033 38.462 0.00 0.00 0.00 2.01
2603 4209 9.565090 CATCATAGGTCTCTTTTGAATTATCCA 57.435 33.333 0.00 0.00 0.00 3.41
2613 4228 9.401058 CCATTTAGAACATCATAGGTCTCTTTT 57.599 33.333 0.00 0.00 0.00 2.27
2617 4232 6.291377 TGCCATTTAGAACATCATAGGTCTC 58.709 40.000 0.00 0.00 0.00 3.36
2629 4244 4.142381 GGGAGATGTGTTGCCATTTAGAAC 60.142 45.833 0.00 0.00 0.00 3.01
2631 4252 3.620488 GGGAGATGTGTTGCCATTTAGA 58.380 45.455 0.00 0.00 0.00 2.10
2632 4253 2.689983 GGGGAGATGTGTTGCCATTTAG 59.310 50.000 0.00 0.00 0.00 1.85
2634 4255 1.560505 GGGGAGATGTGTTGCCATTT 58.439 50.000 0.00 0.00 0.00 2.32
2688 4327 2.031245 TGCATGTGACAGCCGTTTAAAG 60.031 45.455 0.00 0.00 0.00 1.85
2715 4373 4.950974 CGCCGATGCAATGCTCGC 62.951 66.667 17.24 12.94 37.32 5.03
2728 4386 2.333581 GTGAAACAAACCCCGCCG 59.666 61.111 0.00 0.00 36.32 6.46
2884 4542 5.604231 TCATCATATCTTCTGGTAACTGCCT 59.396 40.000 0.00 0.00 35.12 4.75
2901 4559 3.007723 GCTTCCTCAGGCTCATCATCATA 59.992 47.826 0.00 0.00 0.00 2.15
2919 4577 8.919661 CCAAAAAGAAAAAGATGTATGAGCTTC 58.080 33.333 0.00 0.00 27.16 3.86
2936 4594 3.243367 CCGCAACTGACATCCAAAAAGAA 60.243 43.478 0.00 0.00 0.00 2.52
2973 4634 1.168714 GGTTGACCAGCTGACCAATC 58.831 55.000 17.39 14.66 35.64 2.67
2986 4647 4.330620 TGTTGTTAGTGTTCGAAGGTTGAC 59.669 41.667 0.00 0.00 0.00 3.18
2987 4648 4.505808 TGTTGTTAGTGTTCGAAGGTTGA 58.494 39.130 0.00 0.00 0.00 3.18
3108 4770 0.038892 CTTTTGCATGCTCGGCACTT 60.039 50.000 20.33 0.00 43.04 3.16
3114 4776 0.241749 TGGCTTCTTTTGCATGCTCG 59.758 50.000 20.33 4.57 0.00 5.03
3144 4806 5.841957 ACAACTCAGTCAGATTTTGCTTT 57.158 34.783 0.00 0.00 0.00 3.51
3158 4820 2.358898 CCCCAACAGAACAACAACTCAG 59.641 50.000 0.00 0.00 0.00 3.35
3197 4859 5.056480 CACTATATGTCTCATTTTCGGGCA 58.944 41.667 0.00 0.00 0.00 5.36
3211 4882 8.306313 TGTAACACTTCATCCTCACTATATGT 57.694 34.615 0.00 0.00 0.00 2.29
3215 4886 7.423844 TGATGTAACACTTCATCCTCACTAT 57.576 36.000 0.00 0.00 39.47 2.12
3218 4889 6.595772 GATGATGTAACACTTCATCCTCAC 57.404 41.667 17.82 1.64 46.01 3.51
3225 4896 7.178451 TGAGGTTCTAGATGATGTAACACTTCA 59.822 37.037 0.00 0.00 36.82 3.02
3234 4905 6.552725 TCTTGCTATGAGGTTCTAGATGATGT 59.447 38.462 0.00 0.00 0.00 3.06
3237 4908 6.210385 GGATCTTGCTATGAGGTTCTAGATGA 59.790 42.308 0.00 0.00 0.00 2.92
3292 4963 5.508567 TCTCATCCATTGTGGCATTTCTAA 58.491 37.500 0.00 0.00 37.47 2.10
3328 4999 9.573133 AATTGTGAGTTTTCTTAAACACTGAAG 57.427 29.630 0.00 0.00 44.88 3.02
3420 5091 3.091545 GAGTTCATCCATTCTGCCCAAA 58.908 45.455 0.00 0.00 0.00 3.28
3436 5107 6.879458 AGGTTACCACATAATGTCTTGAGTTC 59.121 38.462 3.51 0.00 0.00 3.01
3441 5112 6.092748 GCAAAGGTTACCACATAATGTCTTG 58.907 40.000 3.51 0.00 0.00 3.02
3529 5200 5.661565 TCCCTCTAGACTAGATAGCTCTCT 58.338 45.833 12.62 6.85 33.66 3.10
3561 5232 4.345547 TCAATAGACACACCCACACTGTTA 59.654 41.667 0.00 0.00 0.00 2.41
3569 5240 4.030216 TGAGCTATCAATAGACACACCCA 58.970 43.478 1.15 0.00 30.61 4.51
3597 5268 3.322514 CTTCTCAAGCACCGGGAAA 57.677 52.632 6.32 0.00 0.00 3.13
3651 5322 2.526873 AGAACGGGGCTCTGTGGT 60.527 61.111 0.00 0.00 31.84 4.16
3679 5353 6.599638 ACTTCCAAGTAACATCCTGCTAAATC 59.400 38.462 0.00 0.00 37.52 2.17
3749 5450 5.182001 CCTTCGAAGTCTTGAATCCACAAAT 59.818 40.000 23.03 0.00 0.00 2.32
3825 5526 1.338020 GCCATGCAGCTATAAACCACC 59.662 52.381 0.00 0.00 0.00 4.61
3832 5533 1.139439 TTCAGGGCCATGCAGCTATA 58.861 50.000 13.87 0.00 0.00 1.31
3905 5606 3.031013 TCCTCTATCGCTGGACAATCAA 58.969 45.455 0.00 0.00 0.00 2.57
4025 5726 2.262423 AGGAGACAAGTGCTGGAAAC 57.738 50.000 0.00 0.00 0.00 2.78
4047 5748 6.656693 CAGTTCTGAATCCTCTTTTACATGGT 59.343 38.462 0.00 0.00 0.00 3.55
4192 6037 2.737544 AGGAATTGTGGCATATGCACA 58.262 42.857 28.07 24.23 44.36 4.57
4431 7159 1.066143 GGCACTAGCAGCAGGAAGTAA 60.066 52.381 9.64 0.00 44.61 2.24
4560 7424 8.446273 GTTGATGTGGCACATATAGTTATCATC 58.554 37.037 31.48 18.01 41.21 2.92
4568 7432 5.759763 TGCTTAGTTGATGTGGCACATATAG 59.240 40.000 31.48 20.73 41.21 1.31
4691 7612 4.098055 TGCTTGTCGATTACAGAGAGAC 57.902 45.455 0.00 0.00 39.87 3.36
4766 7804 4.748892 CGTGGTATCTGAATTCTGACAGT 58.251 43.478 16.26 4.93 35.84 3.55
4889 7979 3.507162 TCAGAAATTCCAACCTGCAGA 57.493 42.857 17.39 0.00 0.00 4.26
4901 7998 6.395629 CATCTTGTGGATGCTTTCAGAAATT 58.604 36.000 0.00 0.00 44.21 1.82
4953 8050 3.862267 CGTGATGATGGAGTTCTGACTTC 59.138 47.826 0.00 0.00 35.88 3.01
4985 8082 4.224433 GCATGTTCATTCAGACAACACTG 58.776 43.478 0.00 0.00 39.02 3.66
4999 8096 2.964464 AGTTCCCATTGTTGCATGTTCA 59.036 40.909 0.00 0.00 0.00 3.18
5003 8100 3.507233 ACAGTAGTTCCCATTGTTGCATG 59.493 43.478 0.00 0.00 0.00 4.06
5085 8182 7.286313 TCTCACTGACATCTACATGTAGAGAT 58.714 38.462 32.81 25.05 43.79 2.75
5116 8213 8.227119 GCGAATTTACAGGCAAATACAAAATTT 58.773 29.630 0.00 0.00 0.00 1.82
5117 8214 7.386299 TGCGAATTTACAGGCAAATACAAAATT 59.614 29.630 0.00 0.00 31.50 1.82
5118 8215 6.870965 TGCGAATTTACAGGCAAATACAAAAT 59.129 30.769 0.00 0.00 31.50 1.82
5119 8216 6.216569 TGCGAATTTACAGGCAAATACAAAA 58.783 32.000 0.00 0.00 31.50 2.44
5140 8237 2.352960 GAGAGCCAAAGGACTATTTGCG 59.647 50.000 0.00 0.00 38.57 4.85
5152 8249 1.338107 TCGTTCCTCTGAGAGCCAAA 58.662 50.000 6.17 0.00 0.00 3.28
5200 8297 3.713003 TCTCCAGGTCATAGTCACATGT 58.287 45.455 0.00 0.00 0.00 3.21
5246 8343 3.604582 ACTAAGAAAGCATCACTCTGGC 58.395 45.455 0.00 0.00 0.00 4.85
5301 8398 6.013842 ACGATGAAGGAAAGGAATTGAAAC 57.986 37.500 0.00 0.00 0.00 2.78
5323 8420 7.709613 ACAATACGATCCACTGGTAATAAGAAC 59.290 37.037 0.00 0.00 0.00 3.01
5329 8426 4.500887 CGGACAATACGATCCACTGGTAAT 60.501 45.833 0.00 0.00 34.35 1.89
5330 8427 3.181484 CGGACAATACGATCCACTGGTAA 60.181 47.826 0.00 0.00 34.35 2.85
5331 8428 2.359848 CGGACAATACGATCCACTGGTA 59.640 50.000 0.00 0.00 34.35 3.25
5332 8429 1.136305 CGGACAATACGATCCACTGGT 59.864 52.381 0.00 0.00 34.35 4.00
5333 8430 1.136305 ACGGACAATACGATCCACTGG 59.864 52.381 0.00 0.00 34.35 4.00
5334 8431 2.193447 CACGGACAATACGATCCACTG 58.807 52.381 0.00 0.00 34.35 3.66
5335 8432 1.822990 ACACGGACAATACGATCCACT 59.177 47.619 0.00 0.00 34.35 4.00
5336 8433 1.924524 CACACGGACAATACGATCCAC 59.075 52.381 0.00 0.00 34.35 4.02
5337 8434 1.737696 GCACACGGACAATACGATCCA 60.738 52.381 0.00 0.00 34.35 3.41
5338 8435 0.928229 GCACACGGACAATACGATCC 59.072 55.000 0.00 0.00 34.93 3.36
5339 8436 0.570734 CGCACACGGACAATACGATC 59.429 55.000 0.00 0.00 34.97 3.69
5340 8437 0.108992 ACGCACACGGACAATACGAT 60.109 50.000 0.00 0.00 46.04 3.73
5341 8438 1.004785 CACGCACACGGACAATACGA 61.005 55.000 0.00 0.00 46.04 3.43
5342 8439 1.279527 ACACGCACACGGACAATACG 61.280 55.000 0.00 0.00 46.04 3.06
5343 8440 0.437295 GACACGCACACGGACAATAC 59.563 55.000 0.00 0.00 46.04 1.89
5344 8441 1.004785 CGACACGCACACGGACAATA 61.005 55.000 0.00 0.00 46.04 1.90
5345 8442 2.307309 CGACACGCACACGGACAAT 61.307 57.895 0.00 0.00 46.04 2.71
5346 8443 2.957489 CGACACGCACACGGACAA 60.957 61.111 0.00 0.00 46.04 3.18
5347 8444 3.703255 AACGACACGCACACGGACA 62.703 57.895 0.00 0.00 46.04 4.02
5348 8445 2.958016 AACGACACGCACACGGAC 60.958 61.111 0.00 0.00 46.04 4.79
5349 8446 2.957489 CAACGACACGCACACGGA 60.957 61.111 0.00 0.00 46.04 4.69
5350 8447 2.299294 AAACAACGACACGCACACGG 62.299 55.000 0.00 0.00 46.04 4.94
5352 8449 0.859788 CCAAACAACGACACGCACAC 60.860 55.000 0.00 0.00 0.00 3.82
5353 8450 1.019805 TCCAAACAACGACACGCACA 61.020 50.000 0.00 0.00 0.00 4.57
5354 8451 0.097325 TTCCAAACAACGACACGCAC 59.903 50.000 0.00 0.00 0.00 5.34
5355 8452 1.018148 ATTCCAAACAACGACACGCA 58.982 45.000 0.00 0.00 0.00 5.24
5356 8453 1.778591 CAATTCCAAACAACGACACGC 59.221 47.619 0.00 0.00 0.00 5.34
5357 8454 2.380660 CCAATTCCAAACAACGACACG 58.619 47.619 0.00 0.00 0.00 4.49
5358 8455 2.359531 TCCCAATTCCAAACAACGACAC 59.640 45.455 0.00 0.00 0.00 3.67
5359 8456 2.621055 CTCCCAATTCCAAACAACGACA 59.379 45.455 0.00 0.00 0.00 4.35
5360 8457 2.621526 ACTCCCAATTCCAAACAACGAC 59.378 45.455 0.00 0.00 0.00 4.34
5361 8458 2.621055 CACTCCCAATTCCAAACAACGA 59.379 45.455 0.00 0.00 0.00 3.85
5362 8459 2.360801 ACACTCCCAATTCCAAACAACG 59.639 45.455 0.00 0.00 0.00 4.10
5363 8460 4.400529 AACACTCCCAATTCCAAACAAC 57.599 40.909 0.00 0.00 0.00 3.32
5364 8461 4.383552 CCAAACACTCCCAATTCCAAACAA 60.384 41.667 0.00 0.00 0.00 2.83
5365 8462 3.133721 CCAAACACTCCCAATTCCAAACA 59.866 43.478 0.00 0.00 0.00 2.83
5366 8463 3.133901 ACCAAACACTCCCAATTCCAAAC 59.866 43.478 0.00 0.00 0.00 2.93
5367 8464 3.379452 ACCAAACACTCCCAATTCCAAA 58.621 40.909 0.00 0.00 0.00 3.28
5368 8465 2.962421 GACCAAACACTCCCAATTCCAA 59.038 45.455 0.00 0.00 0.00 3.53
5369 8466 2.091610 TGACCAAACACTCCCAATTCCA 60.092 45.455 0.00 0.00 0.00 3.53
5370 8467 2.558359 CTGACCAAACACTCCCAATTCC 59.442 50.000 0.00 0.00 0.00 3.01
5371 8468 3.222603 ACTGACCAAACACTCCCAATTC 58.777 45.455 0.00 0.00 0.00 2.17
5372 8469 3.312736 ACTGACCAAACACTCCCAATT 57.687 42.857 0.00 0.00 0.00 2.32
5373 8470 3.312736 AACTGACCAAACACTCCCAAT 57.687 42.857 0.00 0.00 0.00 3.16
5374 8471 2.818751 AACTGACCAAACACTCCCAA 57.181 45.000 0.00 0.00 0.00 4.12


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

AutoCloner maintained by Alex Coulton.