Multiple sequence alignment - TraesCS3B01G596600

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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 TraesCS3B01G596600 chr3B 100.000 4083 0 0 1 4083 819380353 819384435 0.000000e+00 7540.0
1 TraesCS3B01G596600 chr3B 91.094 1920 150 14 1805 3707 819522960 819524875 0.000000e+00 2579.0
2 TraesCS3B01G596600 chr3B 93.539 1718 90 12 1622 3322 819650865 819652578 0.000000e+00 2538.0
3 TraesCS3B01G596600 chr3B 91.863 1487 110 8 1828 3304 819299949 819301434 0.000000e+00 2065.0
4 TraesCS3B01G596600 chr3B 89.222 1670 131 29 1 1636 819649039 819650693 0.000000e+00 2041.0
5 TraesCS3B01G596600 chr3B 89.082 1557 137 21 1 1537 819521389 819522932 0.000000e+00 1903.0
6 TraesCS3B01G596600 chr3B 83.689 1594 208 26 1801 3364 819740852 819742423 0.000000e+00 1456.0
7 TraesCS3B01G596600 chr3B 94.849 563 29 0 3314 3876 819653107 819653669 0.000000e+00 880.0
8 TraesCS3B01G596600 chr3B 93.015 587 37 3 922 1505 819298075 819298660 0.000000e+00 854.0
9 TraesCS3B01G596600 chr3B 88.795 589 57 6 3292 3876 819302169 819302752 0.000000e+00 713.0
10 TraesCS3B01G596600 chr3B 85.080 563 67 13 1 551 819296042 819296599 3.560000e-155 558.0
11 TraesCS3B01G596600 chr3B 92.958 213 15 0 3871 4083 172394301 172394513 1.100000e-80 311.0
12 TraesCS3B01G596600 chr3B 92.857 210 15 0 3874 4083 443886502 443886293 5.130000e-79 305.0
13 TraesCS3B01G596600 chr3B 83.607 305 18 14 1530 1829 819299590 819299867 1.460000e-64 257.0
14 TraesCS3B01G596600 chr3B 100.000 29 0 0 657 685 764688948 764688976 2.000000e-03 54.7
15 TraesCS3B01G596600 chr3A 91.737 1670 116 9 2133 3791 742313762 742315420 0.000000e+00 2300.0
16 TraesCS3B01G596600 chr3A 88.830 1513 131 15 2377 3873 742333342 742334832 0.000000e+00 1823.0
17 TraesCS3B01G596600 chr3A 82.834 1637 227 32 1799 3407 742356198 742357808 0.000000e+00 1417.0
18 TraesCS3B01G596600 chr3A 91.106 922 63 8 1230 2145 742298155 742299063 0.000000e+00 1230.0
19 TraesCS3B01G596600 chr3A 90.929 915 65 9 581 1490 742331847 742332748 0.000000e+00 1214.0
20 TraesCS3B01G596600 chr3A 85.813 1156 149 10 1938 3086 742872387 742871240 0.000000e+00 1212.0
21 TraesCS3B01G596600 chr3A 86.854 639 54 16 609 1239 742277385 742278001 0.000000e+00 688.0
22 TraesCS3B01G596600 chr3D 92.800 1500 101 4 1723 3215 608951788 608953287 0.000000e+00 2165.0
23 TraesCS3B01G596600 chr3D 88.312 1754 142 29 1 1729 608949910 608951625 0.000000e+00 2045.0
24 TraesCS3B01G596600 chr3D 88.631 1592 135 24 1 1580 608980292 608981849 0.000000e+00 1895.0
25 TraesCS3B01G596600 chr3D 83.282 1633 218 31 1799 3403 609005391 609006996 0.000000e+00 1452.0
26 TraesCS3B01G596600 chr3D 86.116 1246 164 4 1938 3179 609286678 609285438 0.000000e+00 1334.0
27 TraesCS3B01G596600 chr3D 92.913 127 9 0 1603 1729 608981837 608981963 6.970000e-43 185.0
28 TraesCS3B01G596600 chr3D 73.210 377 78 13 1 364 98941063 98940697 9.270000e-22 115.0
29 TraesCS3B01G596600 chr3D 71.645 529 117 28 13 526 303798876 303799386 9.270000e-22 115.0
30 TraesCS3B01G596600 chr2B 81.000 500 69 10 986 1482 765454632 765455108 1.390000e-99 374.0
31 TraesCS3B01G596600 chr2B 80.176 227 45 0 1 227 596372608 596372834 1.950000e-38 171.0
32 TraesCS3B01G596600 chrUn 85.465 344 40 6 1 341 480923349 480923013 2.340000e-92 350.0
33 TraesCS3B01G596600 chrUn 88.636 44 5 0 240 283 12902418 12902375 2.000000e-03 54.7
34 TraesCS3B01G596600 chr7B 93.333 210 14 0 3874 4083 497868624 497868415 1.100000e-80 311.0
35 TraesCS3B01G596600 chr7B 92.857 210 15 0 3874 4083 245120087 245119878 5.130000e-79 305.0
36 TraesCS3B01G596600 chr7B 72.176 363 85 9 14 365 113132630 113132987 3.360000e-16 97.1
37 TraesCS3B01G596600 chr6B 92.523 214 16 0 3870 4083 280924224 280924011 1.430000e-79 307.0
38 TraesCS3B01G596600 chr1B 92.857 210 15 0 3874 4083 355360504 355360295 5.130000e-79 305.0
39 TraesCS3B01G596600 chr2D 92.488 213 15 1 3871 4083 625591203 625591414 1.840000e-78 303.0
40 TraesCS3B01G596600 chr2D 73.790 496 112 13 1 482 483146136 483146627 3.240000e-41 180.0
41 TraesCS3B01G596600 chr2D 74.238 361 76 12 72 427 159824285 159823937 7.120000e-28 135.0
42 TraesCS3B01G596600 chr6D 92.019 213 17 0 3871 4083 34427975 34428187 2.390000e-77 300.0
43 TraesCS3B01G596600 chr1D 92.381 210 16 0 3874 4083 345747016 345746807 2.390000e-77 300.0
44 TraesCS3B01G596600 chr1D 83.607 61 8 2 625 684 409761878 409761937 5.700000e-04 56.5
45 TraesCS3B01G596600 chr5A 81.481 243 42 3 1 243 427201695 427201456 3.220000e-46 196.0
46 TraesCS3B01G596600 chr5D 74.572 409 86 10 27 423 556094116 556093714 3.270000e-36 163.0
47 TraesCS3B01G596600 chr5D 73.258 445 88 22 1 428 36759203 36758773 2.560000e-27 134.0
48 TraesCS3B01G596600 chr4D 76.256 219 46 4 3 220 408802382 408802595 1.200000e-20 111.0
49 TraesCS3B01G596600 chr5B 76.608 171 37 3 46 214 590239834 590239665 1.560000e-14 91.6
50 TraesCS3B01G596600 chr6A 75.000 176 32 11 635 803 171797028 171797198 2.040000e-08 71.3


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G596600 chr3B 819380353 819384435 4082 False 7540.000000 7540 100.000000 1 4083 1 chr3B.!!$F3 4082
1 TraesCS3B01G596600 chr3B 819521389 819524875 3486 False 2241.000000 2579 90.088000 1 3707 2 chr3B.!!$F6 3706
2 TraesCS3B01G596600 chr3B 819649039 819653669 4630 False 1819.666667 2538 92.536667 1 3876 3 chr3B.!!$F7 3875
3 TraesCS3B01G596600 chr3B 819740852 819742423 1571 False 1456.000000 1456 83.689000 1801 3364 1 chr3B.!!$F4 1563
4 TraesCS3B01G596600 chr3B 819296042 819302752 6710 False 889.400000 2065 88.472000 1 3876 5 chr3B.!!$F5 3875
5 TraesCS3B01G596600 chr3A 742313762 742315420 1658 False 2300.000000 2300 91.737000 2133 3791 1 chr3A.!!$F3 1658
6 TraesCS3B01G596600 chr3A 742331847 742334832 2985 False 1518.500000 1823 89.879500 581 3873 2 chr3A.!!$F5 3292
7 TraesCS3B01G596600 chr3A 742356198 742357808 1610 False 1417.000000 1417 82.834000 1799 3407 1 chr3A.!!$F4 1608
8 TraesCS3B01G596600 chr3A 742298155 742299063 908 False 1230.000000 1230 91.106000 1230 2145 1 chr3A.!!$F2 915
9 TraesCS3B01G596600 chr3A 742871240 742872387 1147 True 1212.000000 1212 85.813000 1938 3086 1 chr3A.!!$R1 1148
10 TraesCS3B01G596600 chr3A 742277385 742278001 616 False 688.000000 688 86.854000 609 1239 1 chr3A.!!$F1 630
11 TraesCS3B01G596600 chr3D 608949910 608953287 3377 False 2105.000000 2165 90.556000 1 3215 2 chr3D.!!$F3 3214
12 TraesCS3B01G596600 chr3D 609005391 609006996 1605 False 1452.000000 1452 83.282000 1799 3403 1 chr3D.!!$F2 1604
13 TraesCS3B01G596600 chr3D 609285438 609286678 1240 True 1334.000000 1334 86.116000 1938 3179 1 chr3D.!!$R2 1241
14 TraesCS3B01G596600 chr3D 608980292 608981963 1671 False 1040.000000 1895 90.772000 1 1729 2 chr3D.!!$F4 1728

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
301 313 0.179111 CCGCATACACACAGATCCGT 60.179 55.0 0.00 0.0 0.0 4.69 F
1034 2339 0.326238 TGCTCGGAGTTTATCCCCCT 60.326 55.0 6.90 0.0 46.5 4.79 F
1377 2702 0.106149 ACCTCAAGAACGTCGGCTTT 59.894 50.0 0.00 0.0 0.0 3.51 F
2117 4848 0.107456 CGTGCTTGAGGAGGCCATAT 59.893 55.0 5.01 0.0 0.0 1.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1358 2683 0.106149 AAAGCCGACGTTCTTGAGGT 59.894 50.0 0.0 0.0 0.0 3.85 R
2329 5062 0.033601 TGTTGAGGGTGCCACTGTTT 60.034 50.0 0.0 0.0 0.0 2.83 R
3003 5785 0.622665 CTTGCCTTCCTCCTCCATGT 59.377 55.0 0.0 0.0 0.0 3.21 R
3946 8043 0.390860 CTGTGATCTCATCCGGGACC 59.609 60.0 0.0 0.0 0.0 4.46 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
24 25 6.971726 ATTCATCAAACATCATGGCAGTAT 57.028 33.333 0.00 0.00 0.00 2.12
44 45 7.063544 GCAGTATGAAGAACACGAGAAGTAATT 59.936 37.037 0.00 0.00 39.69 1.40
70 71 4.866508 TTACATCCATGTCCGTAGATCC 57.133 45.455 0.00 0.00 41.97 3.36
96 97 5.864418 AGTGACAACTACAAGTAGTGGAA 57.136 39.130 19.02 6.36 44.96 3.53
165 166 4.161102 GGGCAGACCTTACTATAGTGGAT 58.839 47.826 15.90 1.52 35.85 3.41
171 172 7.394923 GCAGACCTTACTATAGTGGATAGTCAT 59.605 40.741 15.90 3.64 46.64 3.06
195 196 1.819632 CGTCATGCTAAGGCCCCAC 60.820 63.158 0.00 0.00 37.74 4.61
229 230 2.437716 AATAGCAACCACCGCCCG 60.438 61.111 0.00 0.00 0.00 6.13
236 237 2.890766 AACCACCGCCCGATGAAGT 61.891 57.895 0.00 0.00 0.00 3.01
237 238 1.546589 AACCACCGCCCGATGAAGTA 61.547 55.000 0.00 0.00 0.00 2.24
269 281 5.700832 TCCAACTTGTAGACACATGAACATC 59.299 40.000 0.00 0.00 33.76 3.06
280 292 5.451908 ACACATGAACATCGACAAATGAAC 58.548 37.500 0.00 0.00 0.00 3.18
301 313 0.179111 CCGCATACACACAGATCCGT 60.179 55.000 0.00 0.00 0.00 4.69
351 363 1.827344 AGATTCGCCAGAGACACATCA 59.173 47.619 0.00 0.00 0.00 3.07
357 369 2.740904 CGCCAGAGACACATCATCACAT 60.741 50.000 0.00 0.00 0.00 3.21
385 397 2.507992 GACGCGAGATGCACTGCT 60.508 61.111 15.93 0.00 46.97 4.24
428 440 7.401493 AGAGAGAACTTTATTCCATCTTGAGGA 59.599 37.037 0.00 0.00 0.00 3.71
443 455 0.606604 GAGGAAACTGTCACCGCCTA 59.393 55.000 0.00 0.00 44.43 3.93
447 459 0.470766 AAACTGTCACCGCCTAACCA 59.529 50.000 0.00 0.00 0.00 3.67
468 481 4.509616 CATCCCGAGTATAACACAAACCA 58.490 43.478 0.00 0.00 0.00 3.67
485 498 9.093970 ACACAAACCATAAAAAGACTAAAAAGC 57.906 29.630 0.00 0.00 0.00 3.51
488 501 8.547894 CAAACCATAAAAAGACTAAAAAGCACC 58.452 33.333 0.00 0.00 0.00 5.01
489 502 7.597288 ACCATAAAAAGACTAAAAAGCACCT 57.403 32.000 0.00 0.00 0.00 4.00
507 523 2.083774 CCTAAAACGAAGCATGAGCCA 58.916 47.619 0.00 0.00 43.56 4.75
508 524 2.096496 CCTAAAACGAAGCATGAGCCAG 59.904 50.000 0.00 0.00 43.56 4.85
512 528 2.042259 CGAAGCATGAGCCAGCCAA 61.042 57.895 0.00 0.00 43.56 4.52
515 531 2.677524 GCATGAGCCAGCCAACCA 60.678 61.111 0.00 0.00 33.58 3.67
520 536 4.673375 AGCCAGCCAACCAGCCAG 62.673 66.667 0.00 0.00 0.00 4.85
574 590 3.715628 AGAAATGGTTGTGTGCTTCAC 57.284 42.857 5.83 5.83 46.31 3.18
576 592 4.460263 AGAAATGGTTGTGTGCTTCACTA 58.540 39.130 12.23 4.09 46.27 2.74
693 713 7.394923 TGAATAACGGAAATACAAAACCATCCT 59.605 33.333 0.00 0.00 0.00 3.24
707 727 5.428184 AACCATCCTGAGTTTAAGGAGAG 57.572 43.478 0.00 0.00 46.85 3.20
853 878 5.063880 ACCATAAGAGAACAGGTTCACAAC 58.936 41.667 14.06 3.54 41.84 3.32
901 927 0.804989 ACGCAGGAGCAAAACATAGC 59.195 50.000 0.00 0.00 42.27 2.97
902 928 0.804364 CGCAGGAGCAAAACATAGCA 59.196 50.000 0.00 0.00 42.27 3.49
903 929 1.402968 CGCAGGAGCAAAACATAGCAT 59.597 47.619 0.00 0.00 42.27 3.79
1003 2308 9.086336 CAAACACACAACTAAGAAAATCAATGT 57.914 29.630 0.00 0.00 0.00 2.71
1015 2320 6.719301 AGAAAATCAATGTCCATCTCACTCT 58.281 36.000 0.00 0.00 0.00 3.24
1024 2329 1.102154 CATCTCACTCTGCTCGGAGT 58.898 55.000 6.90 5.57 46.14 3.85
1026 2331 1.621992 TCTCACTCTGCTCGGAGTTT 58.378 50.000 8.55 0.00 43.14 2.66
1027 2332 2.791655 TCTCACTCTGCTCGGAGTTTA 58.208 47.619 8.55 0.60 43.14 2.01
1030 2335 2.427453 TCACTCTGCTCGGAGTTTATCC 59.573 50.000 8.55 0.00 43.14 2.59
1034 2339 0.326238 TGCTCGGAGTTTATCCCCCT 60.326 55.000 6.90 0.00 46.50 4.79
1066 2371 1.309347 CAGCTCCTCCTCCTCCTGA 59.691 63.158 0.00 0.00 0.00 3.86
1074 2379 0.989602 TCCTCCTCCTGACACTCGTA 59.010 55.000 0.00 0.00 0.00 3.43
1092 2397 2.605823 CGTATCCCTCGTGCTCTTGATC 60.606 54.545 0.00 0.00 0.00 2.92
1352 2677 2.436646 CGGGATGAAGCGGCTGTT 60.437 61.111 1.81 0.00 0.00 3.16
1358 2683 0.530744 ATGAAGCGGCTGTTCTACGA 59.469 50.000 1.81 0.00 0.00 3.43
1377 2702 0.106149 ACCTCAAGAACGTCGGCTTT 59.894 50.000 0.00 0.00 0.00 3.51
1482 2808 3.807538 GCACGCCAGCATCAGGTG 61.808 66.667 0.00 0.00 42.78 4.00
1495 2821 2.034066 AGGTGCGGACAACCATGG 59.966 61.111 11.19 11.19 32.04 3.66
1519 3738 3.573538 TGCATGCAACCTGTGTAGAATTT 59.426 39.130 20.30 0.00 0.00 1.82
1565 3806 9.277783 GCATTATGTGTAGAATTATCTCCACTT 57.722 33.333 3.72 0.69 41.64 3.16
1580 3821 5.258841 TCTCCACTTCAACGTATTCTCCTA 58.741 41.667 0.00 0.00 0.00 2.94
1582 3823 4.768448 TCCACTTCAACGTATTCTCCTACA 59.232 41.667 0.00 0.00 0.00 2.74
1583 3824 5.244402 TCCACTTCAACGTATTCTCCTACAA 59.756 40.000 0.00 0.00 0.00 2.41
1584 3825 5.929992 CCACTTCAACGTATTCTCCTACAAA 59.070 40.000 0.00 0.00 0.00 2.83
1585 3826 6.425721 CCACTTCAACGTATTCTCCTACAAAA 59.574 38.462 0.00 0.00 0.00 2.44
1656 4120 1.953559 AGCACACAGAAACACGACAT 58.046 45.000 0.00 0.00 0.00 3.06
1698 4169 5.121611 CACTATAATGTGCTCCAAAACACGA 59.878 40.000 0.00 0.00 39.71 4.35
1708 4179 4.679654 GCTCCAAAACACGATAAAAACCAG 59.320 41.667 0.00 0.00 0.00 4.00
1711 4182 4.987912 CCAAAACACGATAAAAACCAGCAT 59.012 37.500 0.00 0.00 0.00 3.79
1712 4183 5.465056 CCAAAACACGATAAAAACCAGCATT 59.535 36.000 0.00 0.00 0.00 3.56
1729 4369 5.591099 CAGCATTACTGGTTTCAAAACACT 58.409 37.500 7.82 0.00 43.19 3.55
1739 4379 4.562789 GGTTTCAAAACACTCAGAAGCAAC 59.437 41.667 7.82 0.00 40.63 4.17
1773 4413 4.832248 TGGTGCATAGAAGAACAAGGTAG 58.168 43.478 0.00 0.00 0.00 3.18
1806 4446 0.751643 GAACAAGGCCCACACACAGT 60.752 55.000 0.00 0.00 0.00 3.55
1932 4663 2.040947 TCATGGACTGTATTGCACCCAA 59.959 45.455 0.00 0.00 31.36 4.12
1933 4664 2.897271 TGGACTGTATTGCACCCAAT 57.103 45.000 0.00 0.00 43.74 3.16
1973 4704 1.375098 GATGAGCACCTTGAGCAGCC 61.375 60.000 0.00 0.00 0.00 4.85
2062 4793 3.351740 TGGATTTGGCGACATGTACAAT 58.648 40.909 0.00 0.00 42.32 2.71
2117 4848 0.107456 CGTGCTTGAGGAGGCCATAT 59.893 55.000 5.01 0.00 0.00 1.78
2120 4851 2.104792 GTGCTTGAGGAGGCCATATACA 59.895 50.000 5.01 0.00 0.00 2.29
2220 4953 0.863538 CGTCGTGAGCGGATCTTCAG 60.864 60.000 0.00 0.00 38.89 3.02
2308 5041 0.175760 ACGATGACCTCATTGACCGG 59.824 55.000 0.00 0.00 39.56 5.28
2329 5062 3.259374 GGCTCATCGATCTATGGAAGGAA 59.741 47.826 7.33 0.00 0.00 3.36
2350 5083 0.185901 ACAGTGGCACCCTCAACATT 59.814 50.000 15.27 0.00 0.00 2.71
2433 5200 5.939883 TGTCATGTCTCGATTGAGGAAAAAT 59.060 36.000 10.19 0.00 42.79 1.82
2440 5211 7.492669 TGTCTCGATTGAGGAAAAATAGATCAC 59.507 37.037 10.19 0.00 42.79 3.06
2648 5427 1.677217 CCAAGCTGGTCTACCTCAAGC 60.677 57.143 0.02 1.43 36.82 4.01
2796 5578 1.502527 ATTGGTAGGGACCCGGCAAA 61.503 55.000 4.40 2.11 46.32 3.68
2894 5676 1.160329 GCTAACTCCATTCGGCGCAT 61.160 55.000 10.83 0.00 0.00 4.73
2918 5700 2.980233 GGATATGCCCCGCACTGC 60.980 66.667 0.00 0.00 43.04 4.40
3003 5785 2.803203 CGGAGGGGATCGTAGTGAA 58.197 57.895 0.00 0.00 0.00 3.18
3032 5814 0.553333 GGAAGGCAAGCTTATCCCCT 59.447 55.000 11.98 7.17 0.00 4.79
3112 5896 1.940883 GCATGGCATGACACACCCAG 61.941 60.000 30.69 0.44 0.00 4.45
3484 7577 2.816087 ACACCATTCAGACTGAACATGC 59.184 45.455 19.96 0.00 39.45 4.06
3543 7640 1.202268 GGCATCGTAGACGTGTAAGCT 60.202 52.381 0.00 0.00 42.51 3.74
3546 7643 3.486375 GCATCGTAGACGTGTAAGCTACA 60.486 47.826 10.78 0.00 42.51 2.74
3547 7644 4.655027 CATCGTAGACGTGTAAGCTACAA 58.345 43.478 10.78 0.00 42.51 2.41
3562 7659 3.055167 AGCTACAATGTGTGTATGCCTCA 60.055 43.478 0.00 0.00 41.93 3.86
3581 7678 1.976474 GCCACCTTTCCATTGCCGA 60.976 57.895 0.00 0.00 0.00 5.54
3592 7689 0.179137 CATTGCCGAGTCACGAGCTA 60.179 55.000 0.00 0.00 45.77 3.32
3632 7729 3.746492 GTGTTCGAAGTTGTAGGAGCATT 59.254 43.478 0.00 0.00 0.00 3.56
3664 7761 0.454196 GGCAACACGGACACTTTTGT 59.546 50.000 0.00 0.00 39.32 2.83
3692 7789 5.625150 AGTAGAAACCATCAAAGTTGCTCT 58.375 37.500 0.00 0.00 34.78 4.09
3837 7934 7.198390 AGCATTAGACATGCAAATATGTTGAC 58.802 34.615 9.39 0.00 46.77 3.18
3876 7973 1.004200 GGAATCGACGTTGTGGGGT 60.004 57.895 1.96 0.00 0.00 4.95
3877 7974 1.017701 GGAATCGACGTTGTGGGGTC 61.018 60.000 1.96 0.00 0.00 4.46
3878 7975 1.004200 AATCGACGTTGTGGGGTCC 60.004 57.895 1.96 0.00 0.00 4.46
3879 7976 2.775032 AATCGACGTTGTGGGGTCCG 62.775 60.000 1.96 0.00 0.00 4.79
3881 7978 4.612412 GACGTTGTGGGGTCCGCA 62.612 66.667 4.12 4.12 42.73 5.69
3882 7979 4.922026 ACGTTGTGGGGTCCGCAC 62.922 66.667 27.78 27.78 44.22 5.34
3887 7984 2.580276 GTGGGGTCCGCACGATTA 59.420 61.111 21.96 0.00 37.54 1.75
3888 7985 1.078988 GTGGGGTCCGCACGATTAA 60.079 57.895 21.96 0.00 37.54 1.40
3889 7986 0.463116 GTGGGGTCCGCACGATTAAT 60.463 55.000 21.96 0.00 37.54 1.40
3890 7987 0.462937 TGGGGTCCGCACGATTAATG 60.463 55.000 4.12 0.00 0.00 1.90
3891 7988 0.463116 GGGGTCCGCACGATTAATGT 60.463 55.000 0.00 0.00 0.00 2.71
3892 7989 1.375551 GGGTCCGCACGATTAATGTT 58.624 50.000 0.00 0.00 0.00 2.71
3893 7990 1.741145 GGGTCCGCACGATTAATGTTT 59.259 47.619 0.00 0.00 0.00 2.83
3894 7991 2.477189 GGGTCCGCACGATTAATGTTTG 60.477 50.000 0.00 0.00 0.00 2.93
3895 7992 2.417239 GGTCCGCACGATTAATGTTTGA 59.583 45.455 0.00 0.00 0.00 2.69
3896 7993 3.064820 GGTCCGCACGATTAATGTTTGAT 59.935 43.478 0.00 0.00 0.00 2.57
3897 7994 4.028383 GTCCGCACGATTAATGTTTGATG 58.972 43.478 0.00 0.00 0.00 3.07
3898 7995 3.935828 TCCGCACGATTAATGTTTGATGA 59.064 39.130 0.00 0.00 0.00 2.92
3899 7996 4.028383 CCGCACGATTAATGTTTGATGAC 58.972 43.478 0.00 0.00 0.00 3.06
3900 7997 4.436718 CCGCACGATTAATGTTTGATGACA 60.437 41.667 0.00 0.00 0.00 3.58
3901 7998 5.085390 CGCACGATTAATGTTTGATGACAA 58.915 37.500 0.00 0.00 32.47 3.18
3902 7999 5.738693 CGCACGATTAATGTTTGATGACAAT 59.261 36.000 0.00 0.00 35.85 2.71
3903 8000 6.904543 CGCACGATTAATGTTTGATGACAATA 59.095 34.615 0.00 0.00 35.85 1.90
3904 8001 7.587392 CGCACGATTAATGTTTGATGACAATAT 59.413 33.333 0.00 0.00 35.85 1.28
3905 8002 8.684655 GCACGATTAATGTTTGATGACAATATG 58.315 33.333 0.00 0.00 35.85 1.78
3906 8003 9.720667 CACGATTAATGTTTGATGACAATATGT 57.279 29.630 0.00 0.00 35.85 2.29
3933 8030 7.523293 AATGAGTTATGTGTTTTGATGACCA 57.477 32.000 0.00 0.00 0.00 4.02
3934 8031 6.951062 TGAGTTATGTGTTTTGATGACCAA 57.049 33.333 0.00 0.00 0.00 3.67
3935 8032 7.340122 TGAGTTATGTGTTTTGATGACCAAA 57.660 32.000 0.00 0.00 42.56 3.28
3936 8033 7.424803 TGAGTTATGTGTTTTGATGACCAAAG 58.575 34.615 0.00 0.00 44.67 2.77
3937 8034 7.068103 TGAGTTATGTGTTTTGATGACCAAAGT 59.932 33.333 0.00 0.00 44.67 2.66
3938 8035 7.781056 AGTTATGTGTTTTGATGACCAAAGTT 58.219 30.769 0.00 0.00 44.67 2.66
3939 8036 8.257306 AGTTATGTGTTTTGATGACCAAAGTTT 58.743 29.630 0.00 0.00 44.67 2.66
3940 8037 6.907206 ATGTGTTTTGATGACCAAAGTTTG 57.093 33.333 8.73 8.73 44.67 2.93
3941 8038 5.788450 TGTGTTTTGATGACCAAAGTTTGT 58.212 33.333 14.36 2.94 44.67 2.83
3942 8039 6.226787 TGTGTTTTGATGACCAAAGTTTGTT 58.773 32.000 14.36 0.00 44.67 2.83
3943 8040 6.367422 TGTGTTTTGATGACCAAAGTTTGTTC 59.633 34.615 14.36 10.32 44.67 3.18
3944 8041 5.574830 TGTTTTGATGACCAAAGTTTGTTCG 59.425 36.000 14.36 2.15 44.67 3.95
3945 8042 3.980646 TGATGACCAAAGTTTGTTCGG 57.019 42.857 14.36 1.67 0.00 4.30
3946 8043 2.621055 TGATGACCAAAGTTTGTTCGGG 59.379 45.455 14.36 1.30 0.00 5.14
3947 8044 1.394618 TGACCAAAGTTTGTTCGGGG 58.605 50.000 14.36 0.58 0.00 5.73
3948 8045 1.341187 TGACCAAAGTTTGTTCGGGGT 60.341 47.619 14.36 3.91 0.00 4.95
3949 8046 1.335810 GACCAAAGTTTGTTCGGGGTC 59.664 52.381 14.36 9.38 36.86 4.46
3950 8047 0.671796 CCAAAGTTTGTTCGGGGTCC 59.328 55.000 14.36 0.00 0.00 4.46
3951 8048 0.671796 CAAAGTTTGTTCGGGGTCCC 59.328 55.000 7.48 0.00 0.00 4.46
3961 8058 3.472809 GGGGTCCCGGATGAGATC 58.527 66.667 0.73 0.00 0.00 2.75
3962 8059 1.459539 GGGGTCCCGGATGAGATCA 60.460 63.158 0.73 0.00 0.00 2.92
3963 8060 1.749033 GGGTCCCGGATGAGATCAC 59.251 63.158 0.73 0.00 0.00 3.06
3964 8061 1.048724 GGGTCCCGGATGAGATCACA 61.049 60.000 0.73 0.00 0.00 3.58
3965 8062 0.390860 GGTCCCGGATGAGATCACAG 59.609 60.000 0.73 0.00 0.00 3.66
3966 8063 1.403814 GTCCCGGATGAGATCACAGA 58.596 55.000 0.73 0.00 0.00 3.41
3967 8064 1.967066 GTCCCGGATGAGATCACAGAT 59.033 52.381 0.73 0.00 0.00 2.90
3968 8065 1.966354 TCCCGGATGAGATCACAGATG 59.034 52.381 0.73 0.00 0.00 2.90
3969 8066 1.690893 CCCGGATGAGATCACAGATGT 59.309 52.381 0.73 0.00 0.00 3.06
3970 8067 2.547430 CCCGGATGAGATCACAGATGTG 60.547 54.545 0.73 6.63 46.91 3.21
4006 8103 5.998553 GATATGGTCGAGACGTAAAGATCA 58.001 41.667 0.00 0.00 0.00 2.92
4007 8104 4.713824 ATGGTCGAGACGTAAAGATCAA 57.286 40.909 4.13 0.00 0.00 2.57
4008 8105 4.713824 TGGTCGAGACGTAAAGATCAAT 57.286 40.909 0.00 0.00 0.00 2.57
4009 8106 5.823209 TGGTCGAGACGTAAAGATCAATA 57.177 39.130 0.00 0.00 0.00 1.90
4010 8107 6.387041 TGGTCGAGACGTAAAGATCAATAT 57.613 37.500 0.00 0.00 0.00 1.28
4011 8108 7.500720 TGGTCGAGACGTAAAGATCAATATA 57.499 36.000 0.00 0.00 0.00 0.86
4012 8109 8.107399 TGGTCGAGACGTAAAGATCAATATAT 57.893 34.615 0.00 0.00 0.00 0.86
4013 8110 8.573885 TGGTCGAGACGTAAAGATCAATATATT 58.426 33.333 0.00 0.00 0.00 1.28
4014 8111 8.851416 GGTCGAGACGTAAAGATCAATATATTG 58.149 37.037 17.82 17.82 39.10 1.90
4015 8112 8.851416 GTCGAGACGTAAAGATCAATATATTGG 58.149 37.037 22.31 8.59 38.30 3.16
4016 8113 8.789762 TCGAGACGTAAAGATCAATATATTGGA 58.210 33.333 22.31 11.51 38.30 3.53
4017 8114 9.406828 CGAGACGTAAAGATCAATATATTGGAA 57.593 33.333 22.31 7.36 38.30 3.53
4019 8116 9.712305 AGACGTAAAGATCAATATATTGGAAGG 57.288 33.333 22.31 11.07 38.30 3.46
4020 8117 8.324163 ACGTAAAGATCAATATATTGGAAGGC 57.676 34.615 22.31 9.65 38.30 4.35
4021 8118 8.157476 ACGTAAAGATCAATATATTGGAAGGCT 58.843 33.333 22.31 11.36 38.30 4.58
4022 8119 9.653287 CGTAAAGATCAATATATTGGAAGGCTA 57.347 33.333 22.31 4.69 38.30 3.93
4034 8131 8.814038 ATATTGGAAGGCTATATTTGGACATC 57.186 34.615 0.00 0.00 0.00 3.06
4035 8132 4.641396 TGGAAGGCTATATTTGGACATCG 58.359 43.478 0.00 0.00 0.00 3.84
4036 8133 4.003648 GGAAGGCTATATTTGGACATCGG 58.996 47.826 0.00 0.00 0.00 4.18
4037 8134 4.262894 GGAAGGCTATATTTGGACATCGGA 60.263 45.833 0.00 0.00 0.00 4.55
4038 8135 4.974645 AGGCTATATTTGGACATCGGAA 57.025 40.909 0.00 0.00 0.00 4.30
4039 8136 5.304686 AGGCTATATTTGGACATCGGAAA 57.695 39.130 0.00 0.00 0.00 3.13
4040 8137 5.308825 AGGCTATATTTGGACATCGGAAAG 58.691 41.667 0.00 0.00 0.00 2.62
4041 8138 4.455877 GGCTATATTTGGACATCGGAAAGG 59.544 45.833 0.00 0.00 0.00 3.11
4042 8139 5.063880 GCTATATTTGGACATCGGAAAGGT 58.936 41.667 0.00 0.00 0.00 3.50
4043 8140 5.531287 GCTATATTTGGACATCGGAAAGGTT 59.469 40.000 0.00 0.00 0.00 3.50
4044 8141 6.293462 GCTATATTTGGACATCGGAAAGGTTC 60.293 42.308 0.00 0.00 0.00 3.62
4045 8142 2.194201 TTGGACATCGGAAAGGTTCC 57.806 50.000 0.00 0.00 46.62 3.62
4066 8163 4.178156 CGAGTGATTCGGGTATTTTTCG 57.822 45.455 0.00 0.00 45.54 3.46
4067 8164 3.000925 CGAGTGATTCGGGTATTTTTCGG 59.999 47.826 0.00 0.00 45.54 4.30
4068 8165 4.186159 GAGTGATTCGGGTATTTTTCGGA 58.814 43.478 0.00 0.00 0.00 4.55
4069 8166 4.189231 AGTGATTCGGGTATTTTTCGGAG 58.811 43.478 0.00 0.00 0.00 4.63
4070 8167 3.937079 GTGATTCGGGTATTTTTCGGAGT 59.063 43.478 0.00 0.00 0.00 3.85
4071 8168 5.105228 AGTGATTCGGGTATTTTTCGGAGTA 60.105 40.000 0.00 0.00 0.00 2.59
4072 8169 5.006068 GTGATTCGGGTATTTTTCGGAGTAC 59.994 44.000 0.00 0.00 0.00 2.73
4073 8170 3.525268 TCGGGTATTTTTCGGAGTACC 57.475 47.619 0.00 0.00 36.66 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 7.876068 GGATCTACGGACATGGATGTAATTTTA 59.124 37.037 0.00 0.00 41.95 1.52
70 71 5.336531 CCACTACTTGTAGTTGTCACTAGGG 60.337 48.000 10.38 0.00 36.09 3.53
165 166 6.504398 CCTTAGCATGACGACTTTATGACTA 58.496 40.000 0.00 0.00 0.00 2.59
171 172 2.419574 GGGCCTTAGCATGACGACTTTA 60.420 50.000 0.84 0.00 42.56 1.85
195 196 1.901591 ATTCTGGTGCACTGGTCTTG 58.098 50.000 17.98 0.00 0.00 3.02
229 230 6.881602 ACAAGTTGGATCCTTCTTACTTCATC 59.118 38.462 14.23 0.00 0.00 2.92
236 237 6.269077 TGTGTCTACAAGTTGGATCCTTCTTA 59.731 38.462 14.23 3.13 32.88 2.10
237 238 5.071788 TGTGTCTACAAGTTGGATCCTTCTT 59.928 40.000 14.23 13.81 32.88 2.52
269 281 2.158645 TGTATGCGGTGTTCATTTGTCG 59.841 45.455 0.00 0.00 0.00 4.35
280 292 1.290203 GGATCTGTGTGTATGCGGTG 58.710 55.000 0.00 0.00 0.00 4.94
301 313 3.459145 TCGGTCGATGTTTGTCTTTTGA 58.541 40.909 0.00 0.00 0.00 2.69
351 363 1.748244 CGTCATTGGAGGGCATGTGAT 60.748 52.381 0.00 0.00 0.00 3.06
357 369 3.664025 CTCGCGTCATTGGAGGGCA 62.664 63.158 5.77 0.00 0.00 5.36
385 397 0.322546 TCTGTCTAGCTCCTGTCGCA 60.323 55.000 0.00 0.00 0.00 5.10
428 440 0.470766 TGGTTAGGCGGTGACAGTTT 59.529 50.000 0.00 0.00 0.00 2.66
430 442 0.249398 GATGGTTAGGCGGTGACAGT 59.751 55.000 0.00 0.00 0.00 3.55
443 455 4.829872 TTGTGTTATACTCGGGATGGTT 57.170 40.909 0.00 0.00 0.00 3.67
447 459 4.829872 TGGTTTGTGTTATACTCGGGAT 57.170 40.909 0.00 0.00 0.00 3.85
484 497 2.729156 GCTCATGCTTCGTTTTAGGTGC 60.729 50.000 0.00 0.00 36.03 5.01
485 498 2.159517 GGCTCATGCTTCGTTTTAGGTG 60.160 50.000 0.00 0.00 39.59 4.00
488 501 2.476854 GCTGGCTCATGCTTCGTTTTAG 60.477 50.000 0.00 0.00 39.59 1.85
489 502 1.468520 GCTGGCTCATGCTTCGTTTTA 59.531 47.619 0.00 0.00 39.59 1.52
515 531 4.444957 AGGATCCTGGCCCTGGCT 62.445 66.667 15.29 0.00 41.60 4.75
520 536 0.776176 ATCAATGAGGATCCTGGCCC 59.224 55.000 22.02 4.92 0.00 5.80
550 566 6.403866 TGAAGCACACAACCATTTCTAAAT 57.596 33.333 0.00 0.00 0.00 1.40
628 644 8.745590 GGCACATCCCGGTATTAAAAATATATT 58.254 33.333 0.00 0.00 0.00 1.28
693 713 3.587506 CCTTTCCCCTCTCCTTAAACTCA 59.412 47.826 0.00 0.00 0.00 3.41
707 727 1.962321 GACTCGCTCTCCCTTTCCCC 61.962 65.000 0.00 0.00 0.00 4.81
756 776 1.745489 GGTGTCTCATGGGCGAACC 60.745 63.158 0.00 0.00 40.81 3.62
758 778 1.296392 CAGGTGTCTCATGGGCGAA 59.704 57.895 0.00 0.00 0.00 4.70
766 786 1.455849 CCCCAAAGCAGGTGTCTCA 59.544 57.895 0.00 0.00 0.00 3.27
853 878 3.877508 CCCCTTAGAAACTTATTGCTCGG 59.122 47.826 0.00 0.00 0.00 4.63
901 927 5.178067 CCTTTTAAACTCCTTTTGCTGCATG 59.822 40.000 1.84 0.00 0.00 4.06
902 928 5.299949 CCTTTTAAACTCCTTTTGCTGCAT 58.700 37.500 1.84 0.00 0.00 3.96
903 929 4.692228 CCTTTTAAACTCCTTTTGCTGCA 58.308 39.130 0.00 0.00 0.00 4.41
1003 2308 0.034089 TCCGAGCAGAGTGAGATGGA 60.034 55.000 0.00 0.00 0.00 3.41
1015 2320 0.326238 AGGGGGATAAACTCCGAGCA 60.326 55.000 0.00 0.00 46.01 4.26
1024 2329 1.149782 TGTTGGGGCAGGGGGATAAA 61.150 55.000 0.00 0.00 0.00 1.40
1026 2331 0.928726 ATTGTTGGGGCAGGGGGATA 60.929 55.000 0.00 0.00 0.00 2.59
1027 2332 2.255935 ATTGTTGGGGCAGGGGGAT 61.256 57.895 0.00 0.00 0.00 3.85
1030 2335 2.684655 CCATTGTTGGGGCAGGGG 60.685 66.667 0.00 0.00 39.56 4.79
1066 2371 0.680280 AGCACGAGGGATACGAGTGT 60.680 55.000 0.00 0.00 37.91 3.55
1074 2379 1.411977 CTGATCAAGAGCACGAGGGAT 59.588 52.381 0.00 0.00 0.00 3.85
1092 2397 2.149578 CCTTTGTTGCTCAGTCTCCTG 58.850 52.381 0.00 0.00 40.25 3.86
1141 2446 0.327576 AGGTTCCCCAGGATCGGAAT 60.328 55.000 3.50 0.00 40.22 3.01
1358 2683 0.106149 AAAGCCGACGTTCTTGAGGT 59.894 50.000 0.00 0.00 0.00 3.85
1482 2808 1.386525 ATGCATCCATGGTTGTCCGC 61.387 55.000 21.24 9.67 36.30 5.54
1495 2821 2.358957 TCTACACAGGTTGCATGCATC 58.641 47.619 23.37 20.66 0.00 3.91
1585 3826 8.617809 AGAACACATTAACCGCGATATATTTTT 58.382 29.630 8.23 0.00 0.00 1.94
1590 3831 5.010314 AGGAGAACACATTAACCGCGATATA 59.990 40.000 8.23 0.00 0.00 0.86
1656 4120 4.727507 AGTGTTACATTTTGTGGTTGCA 57.272 36.364 0.00 0.00 0.00 4.08
1708 4179 5.587289 TGAGTGTTTTGAAACCAGTAATGC 58.413 37.500 4.32 0.00 38.11 3.56
1711 4182 6.404293 GCTTCTGAGTGTTTTGAAACCAGTAA 60.404 38.462 4.32 2.26 38.11 2.24
1712 4183 5.065988 GCTTCTGAGTGTTTTGAAACCAGTA 59.934 40.000 4.32 0.00 38.11 2.74
1721 4361 4.095410 TGTGTTGCTTCTGAGTGTTTTG 57.905 40.909 0.00 0.00 0.00 2.44
1739 4379 3.814842 TCTATGCACCAGAACAGTTTGTG 59.185 43.478 0.00 7.02 0.00 3.33
1773 4413 4.379918 GGCCTTGTTCTTCTATGCAAGTTC 60.380 45.833 0.00 0.00 37.28 3.01
1841 4566 1.809547 TGTGTGCCACATTAATCCACG 59.190 47.619 0.00 0.00 39.62 4.94
1872 4600 7.119699 CGCACAATTGTATCCACCATCTATTAT 59.880 37.037 11.53 0.00 0.00 1.28
1876 4604 4.126437 CGCACAATTGTATCCACCATCTA 58.874 43.478 11.53 0.00 0.00 1.98
1932 4663 4.466370 TCAGTTTCTCCACCTAATCGACAT 59.534 41.667 0.00 0.00 0.00 3.06
1933 4664 3.830178 TCAGTTTCTCCACCTAATCGACA 59.170 43.478 0.00 0.00 0.00 4.35
2062 4793 2.120312 TGGTGTGGGAACTTGTCACTA 58.880 47.619 0.00 0.00 33.04 2.74
2117 4848 1.176527 GAAAAGCTGGCCTGCATGTA 58.823 50.000 32.96 0.00 34.99 2.29
2120 4851 2.345760 CGGAAAAGCTGGCCTGCAT 61.346 57.895 32.96 21.37 34.99 3.96
2220 4953 3.198068 TCGAAGAATGTATCAAGCTGCC 58.802 45.455 0.00 0.00 0.00 4.85
2292 5025 0.179000 GAGCCGGTCAATGAGGTCAT 59.821 55.000 1.90 0.00 38.41 3.06
2300 5033 1.043816 AGATCGATGAGCCGGTCAAT 58.956 50.000 0.54 0.00 41.78 2.57
2308 5041 4.527509 TTCCTTCCATAGATCGATGAGC 57.472 45.455 16.51 0.00 0.00 4.26
2329 5062 0.033601 TGTTGAGGGTGCCACTGTTT 60.034 50.000 0.00 0.00 0.00 2.83
2350 5083 2.027192 GCCCTTGACATGGTCTCTTGTA 60.027 50.000 6.62 0.00 32.36 2.41
2433 5200 6.095580 GTGAGTGATGTCAGTTAGGTGATCTA 59.904 42.308 0.00 0.00 0.00 1.98
2440 5211 3.589988 GTGGTGAGTGATGTCAGTTAGG 58.410 50.000 0.00 0.00 0.00 2.69
2648 5427 1.605058 CGTAGGGTCTCCACCACCAG 61.605 65.000 0.00 0.00 45.94 4.00
2728 5510 1.078426 GGCCAACACGTCATAGCCT 60.078 57.895 0.00 0.00 37.42 4.58
2836 5618 3.378742 TGAAGTCTATCTTGCTCGTCTCC 59.621 47.826 0.00 0.00 36.40 3.71
2918 5700 2.203070 GGTGGCCGTGCTCATAGG 60.203 66.667 0.00 0.00 0.00 2.57
2979 5761 2.577020 TACGATCCCCTCCGGAAGCA 62.577 60.000 5.23 0.00 46.47 3.91
3003 5785 0.622665 CTTGCCTTCCTCCTCCATGT 59.377 55.000 0.00 0.00 0.00 3.21
3032 5814 2.870435 GCAAGAGCGGTGTCTTTAGGAA 60.870 50.000 0.00 0.00 34.38 3.36
3112 5896 6.693113 GCAAATTAATTTTGACCGGATCTCTC 59.307 38.462 9.46 0.00 46.36 3.20
3471 7564 6.791887 TCTTTTCTAAGCATGTTCAGTCTG 57.208 37.500 0.00 0.00 0.00 3.51
3484 7577 7.872113 AGGCACCTTATTCATCTTTTCTAAG 57.128 36.000 0.00 0.00 0.00 2.18
3543 7640 3.270027 GCTGAGGCATACACACATTGTA 58.730 45.455 0.00 0.00 45.03 2.41
3546 7643 1.004628 TGGCTGAGGCATACACACATT 59.995 47.619 3.93 0.00 40.87 2.71
3547 7644 0.620030 TGGCTGAGGCATACACACAT 59.380 50.000 3.93 0.00 40.87 3.21
3562 7659 1.978617 CGGCAATGGAAAGGTGGCT 60.979 57.895 0.00 0.00 35.78 4.75
3581 7678 3.067461 GGTCATCAAGATAGCTCGTGACT 59.933 47.826 15.42 0.00 41.66 3.41
3592 7689 0.984230 ACACACGGGGTCATCAAGAT 59.016 50.000 0.00 0.00 0.00 2.40
3632 7729 2.285083 GTGTTGCCACTACTGTTCACA 58.715 47.619 0.00 0.00 38.61 3.58
3664 7761 5.825593 ACTTTGATGGTTTCTACTCCAGA 57.174 39.130 0.00 0.00 37.14 3.86
3692 7789 4.188462 CAACAATGGTTATCACCTCGCTA 58.812 43.478 0.00 0.00 44.61 4.26
3876 7973 3.935828 TCATCAAACATTAATCGTGCGGA 59.064 39.130 0.00 0.00 0.00 5.54
3877 7974 4.028383 GTCATCAAACATTAATCGTGCGG 58.972 43.478 0.00 0.00 0.00 5.69
3878 7975 4.646960 TGTCATCAAACATTAATCGTGCG 58.353 39.130 0.00 0.00 0.00 5.34
3879 7976 8.684655 CATATTGTCATCAAACATTAATCGTGC 58.315 33.333 0.00 0.00 37.11 5.34
3880 7977 9.720667 ACATATTGTCATCAAACATTAATCGTG 57.279 29.630 0.00 0.00 37.11 4.35
3907 8004 9.241919 TGGTCATCAAAACACATAACTCATTAT 57.758 29.630 0.00 0.00 0.00 1.28
3908 8005 8.628630 TGGTCATCAAAACACATAACTCATTA 57.371 30.769 0.00 0.00 0.00 1.90
3909 8006 7.523293 TGGTCATCAAAACACATAACTCATT 57.477 32.000 0.00 0.00 0.00 2.57
3910 8007 7.523293 TTGGTCATCAAAACACATAACTCAT 57.477 32.000 0.00 0.00 31.46 2.90
3911 8008 6.951062 TTGGTCATCAAAACACATAACTCA 57.049 33.333 0.00 0.00 31.46 3.41
3912 8009 7.425606 ACTTTGGTCATCAAAACACATAACTC 58.574 34.615 0.00 0.00 43.88 3.01
3913 8010 7.346751 ACTTTGGTCATCAAAACACATAACT 57.653 32.000 0.00 0.00 43.88 2.24
3914 8011 8.327429 CAAACTTTGGTCATCAAAACACATAAC 58.673 33.333 0.00 0.00 43.88 1.89
3915 8012 8.037758 ACAAACTTTGGTCATCAAAACACATAA 58.962 29.630 6.47 0.00 43.88 1.90
3916 8013 7.551585 ACAAACTTTGGTCATCAAAACACATA 58.448 30.769 6.47 0.00 43.88 2.29
3917 8014 6.405538 ACAAACTTTGGTCATCAAAACACAT 58.594 32.000 6.47 0.00 43.88 3.21
3918 8015 5.788450 ACAAACTTTGGTCATCAAAACACA 58.212 33.333 6.47 0.00 43.88 3.72
3919 8016 6.720012 AACAAACTTTGGTCATCAAAACAC 57.280 33.333 6.47 0.00 43.88 3.32
3920 8017 6.959671 GAACAAACTTTGGTCATCAAAACA 57.040 33.333 13.72 0.00 46.57 2.83
3929 8026 1.335810 GACCCCGAACAAACTTTGGTC 59.664 52.381 9.23 9.23 43.92 4.02
3930 8027 1.395635 GACCCCGAACAAACTTTGGT 58.604 50.000 6.47 0.00 34.12 3.67
3931 8028 0.671796 GGACCCCGAACAAACTTTGG 59.328 55.000 6.47 0.00 34.12 3.28
3932 8029 0.671796 GGGACCCCGAACAAACTTTG 59.328 55.000 0.00 0.00 0.00 2.77
3933 8030 3.120796 GGGACCCCGAACAAACTTT 57.879 52.632 0.00 0.00 0.00 2.66
3934 8031 4.914128 GGGACCCCGAACAAACTT 57.086 55.556 0.00 0.00 0.00 2.66
3944 8041 1.459539 TGATCTCATCCGGGACCCC 60.460 63.158 4.46 0.00 0.00 4.95
3945 8042 1.048724 TGTGATCTCATCCGGGACCC 61.049 60.000 0.00 0.00 0.00 4.46
3946 8043 0.390860 CTGTGATCTCATCCGGGACC 59.609 60.000 0.00 0.00 0.00 4.46
3947 8044 1.403814 TCTGTGATCTCATCCGGGAC 58.596 55.000 0.00 0.00 0.00 4.46
3948 8045 1.966354 CATCTGTGATCTCATCCGGGA 59.034 52.381 0.00 0.00 0.00 5.14
3949 8046 1.690893 ACATCTGTGATCTCATCCGGG 59.309 52.381 0.00 0.00 0.00 5.73
3961 8058 1.815613 AGACTCCTCGTCACATCTGTG 59.184 52.381 3.90 3.90 45.32 3.66
3962 8059 2.088423 GAGACTCCTCGTCACATCTGT 58.912 52.381 0.00 0.00 45.32 3.41
3963 8060 2.842208 GAGACTCCTCGTCACATCTG 57.158 55.000 0.00 0.00 45.32 2.90
3983 8080 5.998553 TGATCTTTACGTCTCGACCATATC 58.001 41.667 0.00 0.00 0.00 1.63
3984 8081 6.387041 TTGATCTTTACGTCTCGACCATAT 57.613 37.500 0.00 0.00 0.00 1.78
3985 8082 5.823209 TTGATCTTTACGTCTCGACCATA 57.177 39.130 0.00 0.00 0.00 2.74
3986 8083 4.713824 TTGATCTTTACGTCTCGACCAT 57.286 40.909 0.00 0.00 0.00 3.55
3987 8084 4.713824 ATTGATCTTTACGTCTCGACCA 57.286 40.909 0.00 0.00 0.00 4.02
3988 8085 8.851416 CAATATATTGATCTTTACGTCTCGACC 58.149 37.037 18.92 0.00 40.14 4.79
3989 8086 8.851416 CCAATATATTGATCTTTACGTCTCGAC 58.149 37.037 24.17 0.00 40.14 4.20
3990 8087 8.789762 TCCAATATATTGATCTTTACGTCTCGA 58.210 33.333 24.17 7.01 40.14 4.04
3991 8088 8.965986 TCCAATATATTGATCTTTACGTCTCG 57.034 34.615 24.17 4.97 40.14 4.04
3993 8090 9.712305 CCTTCCAATATATTGATCTTTACGTCT 57.288 33.333 24.17 0.00 40.14 4.18
3994 8091 8.443937 GCCTTCCAATATATTGATCTTTACGTC 58.556 37.037 24.17 2.38 40.14 4.34
3995 8092 8.157476 AGCCTTCCAATATATTGATCTTTACGT 58.843 33.333 24.17 0.00 40.14 3.57
3996 8093 8.553459 AGCCTTCCAATATATTGATCTTTACG 57.447 34.615 24.17 7.26 40.14 3.18
4008 8105 9.905713 GATGTCCAAATATAGCCTTCCAATATA 57.094 33.333 0.00 0.00 0.00 0.86
4009 8106 7.554118 CGATGTCCAAATATAGCCTTCCAATAT 59.446 37.037 0.00 0.00 0.00 1.28
4010 8107 6.878923 CGATGTCCAAATATAGCCTTCCAATA 59.121 38.462 0.00 0.00 0.00 1.90
4011 8108 5.707298 CGATGTCCAAATATAGCCTTCCAAT 59.293 40.000 0.00 0.00 0.00 3.16
4012 8109 5.063204 CGATGTCCAAATATAGCCTTCCAA 58.937 41.667 0.00 0.00 0.00 3.53
4013 8110 4.504864 CCGATGTCCAAATATAGCCTTCCA 60.505 45.833 0.00 0.00 0.00 3.53
4014 8111 4.003648 CCGATGTCCAAATATAGCCTTCC 58.996 47.826 0.00 0.00 0.00 3.46
4015 8112 4.894784 TCCGATGTCCAAATATAGCCTTC 58.105 43.478 0.00 0.00 0.00 3.46
4016 8113 4.974645 TCCGATGTCCAAATATAGCCTT 57.025 40.909 0.00 0.00 0.00 4.35
4017 8114 4.974645 TTCCGATGTCCAAATATAGCCT 57.025 40.909 0.00 0.00 0.00 4.58
4018 8115 4.455877 CCTTTCCGATGTCCAAATATAGCC 59.544 45.833 0.00 0.00 0.00 3.93
4019 8116 5.063880 ACCTTTCCGATGTCCAAATATAGC 58.936 41.667 0.00 0.00 0.00 2.97
4020 8117 6.204882 GGAACCTTTCCGATGTCCAAATATAG 59.795 42.308 0.00 0.00 40.59 1.31
4021 8118 6.059484 GGAACCTTTCCGATGTCCAAATATA 58.941 40.000 0.00 0.00 40.59 0.86
4022 8119 4.887655 GGAACCTTTCCGATGTCCAAATAT 59.112 41.667 0.00 0.00 40.59 1.28
4023 8120 4.266714 GGAACCTTTCCGATGTCCAAATA 58.733 43.478 0.00 0.00 40.59 1.40
4024 8121 3.089284 GGAACCTTTCCGATGTCCAAAT 58.911 45.455 0.00 0.00 40.59 2.32
4025 8122 2.510613 GGAACCTTTCCGATGTCCAAA 58.489 47.619 0.00 0.00 40.59 3.28
4026 8123 2.194201 GGAACCTTTCCGATGTCCAA 57.806 50.000 0.00 0.00 40.59 3.53
4027 8124 3.948735 GGAACCTTTCCGATGTCCA 57.051 52.632 0.00 0.00 40.59 4.02
4035 8132 2.000447 CGAATCACTCGGAACCTTTCC 59.000 52.381 0.00 0.00 44.20 3.13
4046 8143 4.186159 TCCGAAAAATACCCGAATCACTC 58.814 43.478 0.00 0.00 0.00 3.51
4047 8144 4.189231 CTCCGAAAAATACCCGAATCACT 58.811 43.478 0.00 0.00 0.00 3.41
4048 8145 3.937079 ACTCCGAAAAATACCCGAATCAC 59.063 43.478 0.00 0.00 0.00 3.06
4049 8146 4.210724 ACTCCGAAAAATACCCGAATCA 57.789 40.909 0.00 0.00 0.00 2.57
4050 8147 4.509230 GGTACTCCGAAAAATACCCGAATC 59.491 45.833 0.00 0.00 32.44 2.52
4051 8148 4.445453 GGTACTCCGAAAAATACCCGAAT 58.555 43.478 0.00 0.00 32.44 3.34
4052 8149 3.860641 GGTACTCCGAAAAATACCCGAA 58.139 45.455 0.00 0.00 32.44 4.30
4053 8150 3.525268 GGTACTCCGAAAAATACCCGA 57.475 47.619 0.00 0.00 32.44 5.14


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

AutoCloner maintained by Alex Coulton.