Multiple sequence alignment - TraesCS3B01G500500

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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 TraesCS3B01G500500 chr3B 100.000 6300 0 0 1 6300 744634396 744628097 0.000000e+00 11635.0
1 TraesCS3B01G500500 chr3B 99.461 5932 25 5 1 5927 744643543 744637614 0.000000e+00 10770.0
2 TraesCS3B01G500500 chr3B 100.000 3402 0 0 6556 9957 744627841 744624440 0.000000e+00 6283.0
3 TraesCS3B01G500500 chr3B 97.671 2705 58 5 3214 5914 746806053 746808756 0.000000e+00 4641.0
4 TraesCS3B01G500500 chr3B 95.331 1992 81 6 7789 9772 746810545 746812532 0.000000e+00 3153.0
5 TraesCS3B01G500500 chr3B 92.871 1066 65 4 6718 7779 746809443 746810501 0.000000e+00 1537.0
6 TraesCS3B01G500500 chr3B 89.735 1208 101 18 3214 4410 746804148 746805343 0.000000e+00 1522.0
7 TraesCS3B01G500500 chr3B 95.944 715 23 3 2449 3163 746805341 746806049 0.000000e+00 1155.0
8 TraesCS3B01G500500 chr3B 86.293 839 70 19 2326 3163 746803350 746804144 0.000000e+00 870.0
9 TraesCS3B01G500500 chr3B 92.373 590 27 8 656 1229 746801477 746802064 0.000000e+00 824.0
10 TraesCS3B01G500500 chr3B 98.718 390 5 0 5911 6300 746808883 746809272 0.000000e+00 693.0
11 TraesCS3B01G500500 chr3B 93.290 462 30 1 1 462 716985015 716984555 0.000000e+00 680.0
12 TraesCS3B01G500500 chr3B 80.107 749 114 26 2363 3102 746806239 746806961 8.860000e-145 525.0
13 TraesCS3B01G500500 chr3B 79.893 746 117 26 3403 4123 744641177 744640440 5.330000e-142 516.0
14 TraesCS3B01G500500 chr3B 79.573 749 118 25 2366 3105 744640142 744639420 4.150000e-138 503.0
15 TraesCS3B01G500500 chr3B 79.545 748 118 26 2366 3105 744630994 744630274 1.490000e-137 501.0
16 TraesCS3B01G500500 chr3B 85.270 482 64 6 1672 2150 746802880 746803357 3.230000e-134 490.0
17 TraesCS3B01G500500 chr3B 88.043 368 29 11 1228 1584 746802178 746802541 1.200000e-113 422.0
18 TraesCS3B01G500500 chr3B 97.541 122 3 0 6556 6677 746809326 746809447 1.010000e-49 209.0
19 TraesCS3B01G500500 chr3B 93.976 83 5 0 9875 9957 746812530 746812612 1.050000e-24 126.0
20 TraesCS3B01G500500 chr3B 100.000 42 0 0 3170 3211 473253345 473253304 2.980000e-10 78.7
21 TraesCS3B01G500500 chr3B 90.909 55 1 3 3170 3223 578596394 578596343 4.990000e-08 71.3
22 TraesCS3B01G500500 chr3B 100.000 30 0 0 1297 1326 648745528 648745499 1.000000e-03 56.5
23 TraesCS3B01G500500 chr3A 92.281 3135 154 46 3214 6300 696487109 696484015 0.000000e+00 4368.0
24 TraesCS3B01G500500 chr3A 91.205 1228 96 4 6559 7779 696483947 696482725 0.000000e+00 1659.0
25 TraesCS3B01G500500 chr3A 91.308 1070 71 9 7789 8843 696482681 696481619 0.000000e+00 1441.0
26 TraesCS3B01G500500 chr3A 91.340 843 55 5 2326 3166 696487936 696487110 0.000000e+00 1136.0
27 TraesCS3B01G500500 chr3A 94.678 451 22 1 21 471 714369941 714369493 0.000000e+00 699.0
28 TraesCS3B01G500500 chr3A 82.307 763 99 18 8895 9648 696481626 696480891 6.560000e-176 628.0
29 TraesCS3B01G500500 chr3A 79.051 864 141 28 3403 4251 696487896 696487058 3.140000e-154 556.0
30 TraesCS3B01G500500 chr3A 89.906 426 34 6 1730 2153 696488344 696487926 3.160000e-149 540.0
31 TraesCS3B01G500500 chr3A 99.435 177 1 0 2149 2325 646739246 646739070 1.250000e-83 322.0
32 TraesCS3B01G500500 chr3D 90.000 2130 152 25 6559 8659 560359590 560357493 0.000000e+00 2697.0
33 TraesCS3B01G500500 chr3D 92.517 1764 81 20 3214 4962 560362694 560360967 0.000000e+00 2479.0
34 TraesCS3B01G500500 chr3D 92.226 1325 75 13 4993 6300 560360970 560359657 0.000000e+00 1851.0
35 TraesCS3B01G500500 chr3D 92.527 843 43 5 2326 3166 560363519 560362695 0.000000e+00 1190.0
36 TraesCS3B01G500500 chr3D 89.450 891 83 7 8652 9536 560357308 560356423 0.000000e+00 1114.0
37 TraesCS3B01G500500 chr3D 90.498 642 34 7 979 1612 560366116 560365494 0.000000e+00 822.0
38 TraesCS3B01G500500 chr3D 79.466 862 139 27 3403 4251 560363479 560362643 2.410000e-160 577.0
39 TraesCS3B01G500500 chr3D 92.239 335 22 4 1822 2153 560363842 560363509 1.170000e-128 472.0
40 TraesCS3B01G500500 chr3D 87.582 306 13 9 656 936 560366423 560366118 2.070000e-86 331.0
41 TraesCS3B01G500500 chr3D 89.375 160 17 0 1675 1834 553334192 553334033 1.700000e-47 202.0
42 TraesCS3B01G500500 chr3D 88.820 161 18 0 1675 1835 93478307 93478467 2.190000e-46 198.0
43 TraesCS3B01G500500 chr3D 80.405 148 17 11 4945 5088 590334962 590334823 1.770000e-17 102.0
44 TraesCS3B01G500500 chr3D 97.619 42 1 0 3170 3211 379644850 379644891 1.390000e-08 73.1
45 TraesCS3B01G500500 chr3D 84.211 76 11 1 9697 9772 560356267 560356193 1.390000e-08 73.1
46 TraesCS3B01G500500 chrUn 100.000 1354 0 0 3200 4553 408346180 408344827 0.000000e+00 2501.0
47 TraesCS3B01G500500 chrUn 79.545 748 118 26 2366 3105 408345977 408345257 1.490000e-137 501.0
48 TraesCS3B01G500500 chrUn 96.373 193 6 1 2133 2325 284001542 284001733 5.800000e-82 316.0
49 TraesCS3B01G500500 chrUn 100.000 28 0 0 1110 1137 19210534 19210561 1.800000e-02 52.8
50 TraesCS3B01G500500 chr2B 95.671 462 20 0 1 462 557986934 557987395 0.000000e+00 743.0
51 TraesCS3B01G500500 chr2B 99.435 177 1 0 2149 2325 402680645 402680821 1.250000e-83 322.0
52 TraesCS3B01G500500 chr6B 95.022 462 23 0 1 462 710912441 710912902 0.000000e+00 726.0
53 TraesCS3B01G500500 chr6B 93.696 460 29 0 1 460 137386531 137386990 0.000000e+00 689.0
54 TraesCS3B01G500500 chr6B 92.000 125 8 1 9767 9891 613609186 613609308 3.700000e-39 174.0
55 TraesCS3B01G500500 chr6B 86.517 89 12 0 5387 5475 113580378 113580290 2.290000e-16 99.0
56 TraesCS3B01G500500 chr1A 93.464 459 26 2 2 460 586224921 586225375 0.000000e+00 678.0
57 TraesCS3B01G500500 chr5D 92.625 461 28 3 1 461 310574694 310575148 0.000000e+00 658.0
58 TraesCS3B01G500500 chr5D 87.195 164 21 0 1675 1838 324706086 324705923 4.750000e-43 187.0
59 TraesCS3B01G500500 chr5D 100.000 28 0 0 1110 1137 511936042 511936015 1.800000e-02 52.8
60 TraesCS3B01G500500 chr5A 91.991 462 32 5 1 461 404059745 404060202 2.340000e-180 643.0
61 TraesCS3B01G500500 chr7A 82.660 421 45 17 7547 7942 57873104 57873521 2.060000e-91 348.0
62 TraesCS3B01G500500 chr7A 95.500 200 7 2 2127 2325 554383335 554383137 1.610000e-82 318.0
63 TraesCS3B01G500500 chr7A 96.373 193 6 1 2133 2325 1755600 1755409 5.800000e-82 316.0
64 TraesCS3B01G500500 chr1B 99.435 177 1 0 2149 2325 604039671 604039847 1.250000e-83 322.0
65 TraesCS3B01G500500 chr1B 99.432 176 1 0 2150 2325 410793644 410793819 4.490000e-83 320.0
66 TraesCS3B01G500500 chr1B 96.809 188 5 1 2138 2325 330208723 330208537 7.510000e-81 313.0
67 TraesCS3B01G500500 chr1B 92.126 127 8 2 9752 9877 533752015 533752140 2.860000e-40 178.0
68 TraesCS3B01G500500 chr1B 94.737 114 6 0 9765 9878 632890123 632890236 2.860000e-40 178.0
69 TraesCS3B01G500500 chr7D 87.189 281 30 5 8048 8322 54365839 54366119 2.090000e-81 315.0
70 TraesCS3B01G500500 chr7D 80.630 413 51 20 7547 7936 54365346 54365752 9.780000e-75 292.0
71 TraesCS3B01G500500 chr7D 91.200 125 9 2 9770 9894 34224981 34225103 1.720000e-37 169.0
72 TraesCS3B01G500500 chr7D 81.746 126 17 4 1926 2048 600272014 600271892 6.360000e-17 100.0
73 TraesCS3B01G500500 chr7D 80.000 125 23 1 1926 2048 600275863 600275739 3.830000e-14 91.6
74 TraesCS3B01G500500 chr7D 78.400 125 23 2 1926 2048 610592936 610592814 2.980000e-10 78.7
75 TraesCS3B01G500500 chr4A 89.375 160 17 0 1674 1833 674361219 674361378 1.700000e-47 202.0
76 TraesCS3B01G500500 chr4A 94.783 115 6 0 9768 9882 36025127 36025241 7.950000e-41 180.0
77 TraesCS3B01G500500 chr4A 85.135 148 19 2 7796 7940 669904994 669905141 2.240000e-31 148.0
78 TraesCS3B01G500500 chr6D 88.199 161 19 0 1675 1835 388330750 388330910 1.020000e-44 193.0
79 TraesCS3B01G500500 chr2D 88.050 159 19 0 1675 1833 626118367 626118209 1.320000e-43 189.0
80 TraesCS3B01G500500 chr2D 95.652 46 2 0 3170 3215 646589592 646589547 3.860000e-09 75.0
81 TraesCS3B01G500500 chr2D 100.000 28 0 0 1110 1137 616500422 616500395 1.800000e-02 52.8
82 TraesCS3B01G500500 chr7B 94.118 119 6 1 9759 9877 560803031 560803148 7.950000e-41 180.0
83 TraesCS3B01G500500 chr7B 94.017 117 7 0 9771 9887 595228780 595228664 2.860000e-40 178.0
84 TraesCS3B01G500500 chr7B 94.017 117 7 0 9762 9878 677186421 677186305 2.860000e-40 178.0
85 TraesCS3B01G500500 chr7B 80.952 126 24 0 1917 2042 7074484 7074609 6.360000e-17 100.0
86 TraesCS3B01G500500 chr7B 80.620 129 24 1 1920 2048 7087440 7087313 2.290000e-16 99.0
87 TraesCS3B01G500500 chr7B 97.727 44 1 0 3170 3213 354275960 354276003 1.070000e-09 76.8
88 TraesCS3B01G500500 chr7B 97.674 43 1 0 3170 3212 158382965 158383007 3.860000e-09 75.0
89 TraesCS3B01G500500 chr7B 100.000 28 0 0 1110 1137 509562881 509562908 1.800000e-02 52.8
90 TraesCS3B01G500500 chr5B 92.623 122 7 2 9758 9877 572978379 572978500 3.700000e-39 174.0
91 TraesCS3B01G500500 chr5B 86.957 46 6 0 1281 1326 267419924 267419969 1.800000e-02 52.8
92 TraesCS3B01G500500 chr6A 83.333 120 20 0 5387 5506 59304314 59304195 2.940000e-20 111.0
93 TraesCS3B01G500500 chr6A 100.000 42 0 0 3170 3211 545144902 545144943 2.980000e-10 78.7
94 TraesCS3B01G500500 chr4B 97.674 43 1 0 3169 3211 623420873 623420915 3.860000e-09 75.0
95 TraesCS3B01G500500 chr2A 100.000 29 0 0 1298 1326 693359516 693359544 5.000000e-03 54.7
96 TraesCS3B01G500500 chr1D 100.000 28 0 0 1110 1137 134686197 134686170 1.800000e-02 52.8


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 TraesCS3B01G500500 chr3B 744624440 744634396 9956 True 8959.000000 11635 100.000000 1 9957 2 chr3B.!!$R7 9956
1 TraesCS3B01G500500 chr3B 744637614 744643543 5929 True 10770.000000 10770 99.461000 1 5927 1 chr3B.!!$R6 5926
2 TraesCS3B01G500500 chr3B 746801477 746812612 11135 False 1243.615385 4641 91.836385 656 9957 13 chr3B.!!$F1 9301
3 TraesCS3B01G500500 chr3B 744639420 744641177 1757 True 509.500000 516 79.733000 2366 4123 2 chr3B.!!$R8 1757
4 TraesCS3B01G500500 chr3B 744630274 744630994 720 True 501.000000 501 79.545000 2366 3105 1 chr3B.!!$R5 739
5 TraesCS3B01G500500 chr3A 696480891 696488344 7453 True 1475.428571 4368 88.199714 1730 9648 7 chr3A.!!$R3 7918
6 TraesCS3B01G500500 chr3D 560356193 560366423 10230 True 1160.610000 2697 89.071600 656 9772 10 chr3D.!!$R3 9116
7 TraesCS3B01G500500 chrUn 408344827 408346180 1353 True 1501.000000 2501 89.772500 2366 4553 2 chrUn.!!$R1 2187
8 TraesCS3B01G500500 chr7D 54365346 54366119 773 False 303.500000 315 83.909500 7547 8322 2 chr7D.!!$F2 775

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
377 378 3.306780 CCATGACTTGGTTAGGTTCTCGT 60.307 47.826 0.00 0.0 40.99 4.18 F
1709 2207 2.031870 CATCCAGATCCGTAGACCACA 58.968 52.381 0.00 0.0 0.00 4.17 F
2274 3961 2.108952 AGGCTGTTTCCAGGACTTGAAT 59.891 45.455 0.00 0.0 39.22 2.57 F
3198 6776 2.608090 GGTCTATTGTACGCAGCCTTTC 59.392 50.000 0.00 0.0 0.00 2.62 F
4553 8147 6.622245 GCCTAGTTTGGACGGATTAAGAAAAC 60.622 42.308 0.00 0.0 0.00 2.43 F
6620 10406 0.176910 CACACGGCCCAAACCTTTTT 59.823 50.000 0.00 0.0 0.00 1.94 F
8422 12334 0.108281 GCCCGACTTGTAGAAGGGTC 60.108 60.000 4.45 0.0 43.82 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1804 2302 1.460504 TAGCACGACGACTTCCTGAT 58.539 50.0 0.00 0.0 0.00 2.90 R
3198 6776 4.022242 CCACGAGTATCCAGTAATGTAGGG 60.022 50.0 0.00 0.0 0.00 3.53 R
5110 8726 7.477144 AGGAAAATTTTTGATTGTCGGTTTC 57.523 32.0 4.63 0.0 0.00 2.78 R
6247 10029 1.502231 TCTTCAAGTGCAAGACGAGC 58.498 50.0 0.00 0.0 0.00 5.03 R
6979 10815 0.107508 CCCCATCTCAGTGCATCGTT 60.108 55.0 0.00 0.0 0.00 3.85 R
8835 12951 0.179234 TCCAAACGACAACTCCAGCA 59.821 50.0 0.00 0.0 0.00 4.41 R
9768 13936 0.604578 TTCCAAACGGAGGGAGTACG 59.395 55.0 0.00 0.0 34.02 3.67 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
377 378 3.306780 CCATGACTTGGTTAGGTTCTCGT 60.307 47.826 0.00 0.00 40.99 4.18
920 947 7.255695 CCTCCAACGATATATATAATGCCGGTA 60.256 40.741 1.90 0.00 0.00 4.02
1709 2207 2.031870 CATCCAGATCCGTAGACCACA 58.968 52.381 0.00 0.00 0.00 4.17
1804 2302 7.334921 CCGGGAAAATATTGTTGTAGTAGACAA 59.665 37.037 0.00 2.49 46.03 3.18
2173 3860 2.117156 CAGCCCCAGTGCATGTAGC 61.117 63.158 0.00 0.00 45.96 3.58
2274 3961 2.108952 AGGCTGTTTCCAGGACTTGAAT 59.891 45.455 0.00 0.00 39.22 2.57
2657 6232 3.461061 ACATCTCAGCACACCGATTATG 58.539 45.455 0.00 0.00 0.00 1.90
3063 6640 8.580720 TCGGAGAATTATTTTGAATTTTCCACA 58.419 29.630 14.99 2.80 44.61 4.17
3198 6776 2.608090 GGTCTATTGTACGCAGCCTTTC 59.392 50.000 0.00 0.00 0.00 2.62
4553 8147 6.622245 GCCTAGTTTGGACGGATTAAGAAAAC 60.622 42.308 0.00 0.00 0.00 2.43
6602 10388 4.629523 GGACGACCCAAACCCGCA 62.630 66.667 0.00 0.00 34.14 5.69
6620 10406 0.176910 CACACGGCCCAAACCTTTTT 59.823 50.000 0.00 0.00 0.00 1.94
6677 10503 5.612725 AGCAAAAATTTCAAGGTCAAGGA 57.387 34.783 0.00 0.00 0.00 3.36
6679 10505 4.209080 GCAAAAATTTCAAGGTCAAGGACG 59.791 41.667 0.00 0.00 32.65 4.79
6680 10506 3.643159 AAATTTCAAGGTCAAGGACGC 57.357 42.857 0.00 0.00 32.65 5.19
6681 10507 2.568623 ATTTCAAGGTCAAGGACGCT 57.431 45.000 0.00 0.00 32.65 5.07
6682 10508 1.593196 TTTCAAGGTCAAGGACGCTG 58.407 50.000 0.00 0.00 32.65 5.18
6683 10509 0.756294 TTCAAGGTCAAGGACGCTGA 59.244 50.000 0.00 0.00 32.65 4.26
6684 10510 0.318441 TCAAGGTCAAGGACGCTGAG 59.682 55.000 0.00 0.00 32.65 3.35
6685 10511 1.004440 AAGGTCAAGGACGCTGAGC 60.004 57.895 0.00 0.00 40.77 4.26
6686 10512 2.435059 GGTCAAGGACGCTGAGCC 60.435 66.667 0.00 0.00 35.69 4.70
6687 10513 2.435059 GTCAAGGACGCTGAGCCC 60.435 66.667 0.00 0.00 0.00 5.19
6688 10514 3.706373 TCAAGGACGCTGAGCCCC 61.706 66.667 0.00 0.00 0.00 5.80
6689 10515 4.785453 CAAGGACGCTGAGCCCCC 62.785 72.222 0.00 0.00 0.00 5.40
6719 10545 4.182433 TGGTCGGCCAGCACACAA 62.182 61.111 3.51 0.00 40.46 3.33
6720 10546 3.357079 GGTCGGCCAGCACACAAG 61.357 66.667 0.00 0.00 34.09 3.16
6721 10547 3.357079 GTCGGCCAGCACACAAGG 61.357 66.667 2.24 0.00 0.00 3.61
6722 10548 3.872603 TCGGCCAGCACACAAGGT 61.873 61.111 2.24 0.00 0.00 3.50
6723 10549 2.906897 CGGCCAGCACACAAGGTT 60.907 61.111 2.24 0.00 0.00 3.50
6832 10662 1.310904 GTCCCTTTACGCACAACCAA 58.689 50.000 0.00 0.00 0.00 3.67
6942 10778 2.282462 CCACAAGCTTTCCGGCCT 60.282 61.111 0.00 0.00 0.00 5.19
6979 10815 4.531854 TGTTGGAAGTCAATGGTTCTCAA 58.468 39.130 0.00 0.00 37.73 3.02
6992 10828 2.158449 GGTTCTCAAACGATGCACTGAG 59.842 50.000 0.00 0.00 36.16 3.35
6995 10831 3.256558 TCTCAAACGATGCACTGAGATG 58.743 45.455 9.13 0.00 39.43 2.90
7205 11041 4.622313 TCGTTACCAAAACATGTACTAGCG 59.378 41.667 0.00 0.00 0.00 4.26
7258 11094 5.603596 TGCATGAAAACATCAAAAGCTTCT 58.396 33.333 0.00 0.00 42.54 2.85
7259 11095 5.693104 TGCATGAAAACATCAAAAGCTTCTC 59.307 36.000 0.00 0.00 42.54 2.87
7264 11100 7.719483 TGAAAACATCAAAAGCTTCTCTCAAT 58.281 30.769 0.00 0.00 34.30 2.57
7265 11101 8.199449 TGAAAACATCAAAAGCTTCTCTCAATT 58.801 29.630 0.00 0.00 34.30 2.32
7284 11120 6.697395 TCAATTATGGATGTAGATACACCCG 58.303 40.000 0.00 0.00 43.17 5.28
7315 11151 9.685276 ATTTGGATATGATTTTCTGACAGTACA 57.315 29.630 1.59 0.00 0.00 2.90
7347 11183 5.814764 ATAGACGTTCTAACATCGACTGT 57.185 39.130 0.00 0.00 40.84 3.55
7439 11282 5.817296 GCATGATCAATGTTAGTACTCCACA 59.183 40.000 0.00 4.29 38.65 4.17
7445 11288 6.330278 TCAATGTTAGTACTCCACATTCTCG 58.670 40.000 22.12 15.10 38.75 4.04
7476 11319 6.155737 AGGAGAAAGGAATTTATGCTGCAATT 59.844 34.615 6.36 1.48 0.00 2.32
7480 11323 3.776417 AGGAATTTATGCTGCAATTGGGT 59.224 39.130 6.36 0.00 0.00 4.51
7503 11346 8.279800 GGGTTGTGCAAAATTCAAAACTAATAC 58.720 33.333 0.00 0.00 0.00 1.89
7569 11412 1.837439 TCAGATAAATGAGGTGCGGGT 59.163 47.619 0.00 0.00 0.00 5.28
7589 11432 0.471780 TCTCCTTGGCAGTCTGACCA 60.472 55.000 2.39 7.54 0.00 4.02
7600 11443 0.615331 GTCTGACCAAGGAGATGCCA 59.385 55.000 0.00 0.00 40.02 4.92
7607 11450 2.108952 ACCAAGGAGATGCCAAGTTTCT 59.891 45.455 0.00 0.00 40.02 2.52
7627 11470 2.994995 TCAGACGCCACCATCCGT 60.995 61.111 0.00 0.00 40.85 4.69
7815 11696 4.393371 GGATTGTGTAAGCAACTCTTCTCC 59.607 45.833 0.00 0.00 36.25 3.71
7817 11698 4.689612 TGTGTAAGCAACTCTTCTCCTT 57.310 40.909 0.00 0.00 36.25 3.36
7820 11701 5.057149 GTGTAAGCAACTCTTCTCCTTGAA 58.943 41.667 0.00 0.00 36.25 2.69
7860 11754 1.002366 CTGAAATGGAGAACGAGGCG 58.998 55.000 0.00 0.00 0.00 5.52
7905 11799 3.823304 ACCTTGACAAGAATGGAAGAAGC 59.177 43.478 16.99 0.00 0.00 3.86
8064 11976 6.202188 AGGTTCATTAACTTGTACAACAGTCG 59.798 38.462 3.59 0.00 35.81 4.18
8202 12114 3.909776 TCGATATCGAGTACGCCATTT 57.090 42.857 23.48 0.00 44.22 2.32
8285 12197 2.614481 CGATTCCTTTTGACCCTCCGAA 60.614 50.000 0.00 0.00 0.00 4.30
8353 12265 7.598278 GTGGTATTTTATGTCCACATCAAACA 58.402 34.615 8.09 0.00 46.44 2.83
8422 12334 0.108281 GCCCGACTTGTAGAAGGGTC 60.108 60.000 4.45 0.00 43.82 4.46
8423 12335 0.535797 CCCGACTTGTAGAAGGGTCC 59.464 60.000 4.45 0.00 37.36 4.46
8437 12349 7.792736 TGTAGAAGGGTCCATATATAACCTTGT 59.207 37.037 9.21 8.06 38.36 3.16
8609 12529 2.048222 CCACATGAGCGTCCACGT 60.048 61.111 0.00 0.00 42.22 4.49
8615 12535 0.955428 ATGAGCGTCCACGTGCAATT 60.955 50.000 10.91 0.00 42.22 2.32
8654 12770 2.350772 CCTGTCGGTGTTTGCAATCTTC 60.351 50.000 0.00 0.00 0.00 2.87
8835 12951 5.798132 TGCTGACATCTTTGACTTAGACAT 58.202 37.500 0.00 0.00 0.00 3.06
8887 13003 4.525487 ACCAGTGCAATCTTTGACATCAAT 59.475 37.500 0.00 0.00 35.55 2.57
8936 13052 5.039984 CCGACAAGATGAGAGTAACATCAG 58.960 45.833 0.00 0.00 44.29 2.90
8982 13098 5.067954 TCCATGAGCAATGACCATGATTAG 58.932 41.667 13.97 1.87 39.86 1.73
9134 13254 9.507280 TCTTCATAAATTTTTCGAAGATGATGC 57.493 29.630 16.51 0.00 35.58 3.91
9190 13313 5.057149 TGTTCTCCTTTTCTTTCTTCCTCG 58.943 41.667 0.00 0.00 0.00 4.63
9332 13455 2.094100 TTTGGCAAGGGTTGATGGAA 57.906 45.000 0.00 0.00 0.00 3.53
9360 13483 9.233649 TGAAGAAACTTCTTTTTGTACCTGTTA 57.766 29.630 6.18 0.00 46.84 2.41
9449 13575 5.609533 TGCTACTTCCTACCTTGGATTAC 57.390 43.478 0.00 0.00 35.83 1.89
9625 13752 6.322201 AGGATAACCAACTCATATGGCTTTTG 59.678 38.462 2.13 1.85 41.89 2.44
9705 13873 9.408648 CCCTATAGATGTACTTGGAAAACAAAT 57.591 33.333 0.00 0.00 38.91 2.32
9754 13922 4.857130 TGTCTGGCTCTAAGAGGTAGTA 57.143 45.455 0.00 0.00 0.00 1.82
9768 13936 9.968870 CTAAGAGGTAGTATTCCAACAAGATAC 57.031 37.037 0.00 0.00 0.00 2.24
9772 13940 7.710896 AGGTAGTATTCCAACAAGATACGTAC 58.289 38.462 0.00 0.00 0.00 3.67
9773 13941 7.559170 AGGTAGTATTCCAACAAGATACGTACT 59.441 37.037 0.00 0.00 0.00 2.73
9774 13942 7.859875 GGTAGTATTCCAACAAGATACGTACTC 59.140 40.741 0.00 0.00 0.00 2.59
9775 13943 6.803642 AGTATTCCAACAAGATACGTACTCC 58.196 40.000 0.00 0.00 0.00 3.85
9776 13944 4.460948 TTCCAACAAGATACGTACTCCC 57.539 45.455 0.00 0.00 0.00 4.30
9777 13945 3.705051 TCCAACAAGATACGTACTCCCT 58.295 45.455 0.00 0.00 0.00 4.20
9778 13946 3.698040 TCCAACAAGATACGTACTCCCTC 59.302 47.826 0.00 0.00 0.00 4.30
9779 13947 3.181478 CCAACAAGATACGTACTCCCTCC 60.181 52.174 0.00 0.00 0.00 4.30
9780 13948 2.295885 ACAAGATACGTACTCCCTCCG 58.704 52.381 0.00 0.00 0.00 4.63
9781 13949 2.295885 CAAGATACGTACTCCCTCCGT 58.704 52.381 0.00 0.00 38.53 4.69
9782 13950 2.686915 CAAGATACGTACTCCCTCCGTT 59.313 50.000 0.00 0.00 36.12 4.44
9783 13951 3.010200 AGATACGTACTCCCTCCGTTT 57.990 47.619 0.00 0.00 36.12 3.60
9784 13952 2.686915 AGATACGTACTCCCTCCGTTTG 59.313 50.000 0.00 0.00 36.12 2.93
9785 13953 1.176527 TACGTACTCCCTCCGTTTGG 58.823 55.000 0.00 0.00 36.12 3.28
9786 13954 0.540365 ACGTACTCCCTCCGTTTGGA 60.540 55.000 0.00 0.00 43.88 3.53
9787 13955 0.604578 CGTACTCCCTCCGTTTGGAA 59.395 55.000 0.00 0.00 45.87 3.53
9788 13956 1.206371 CGTACTCCCTCCGTTTGGAAT 59.794 52.381 0.00 0.00 45.87 3.01
9789 13957 2.354403 CGTACTCCCTCCGTTTGGAATT 60.354 50.000 0.00 0.00 45.87 2.17
9790 13958 3.119029 CGTACTCCCTCCGTTTGGAATTA 60.119 47.826 0.00 0.00 45.87 1.40
9791 13959 3.345508 ACTCCCTCCGTTTGGAATTAC 57.654 47.619 0.00 0.00 45.87 1.89
9792 13960 2.910977 ACTCCCTCCGTTTGGAATTACT 59.089 45.455 0.00 0.00 45.87 2.24
9793 13961 3.329814 ACTCCCTCCGTTTGGAATTACTT 59.670 43.478 0.00 0.00 45.87 2.24
9794 13962 3.681593 TCCCTCCGTTTGGAATTACTTG 58.318 45.455 0.00 0.00 45.87 3.16
9795 13963 3.073356 TCCCTCCGTTTGGAATTACTTGT 59.927 43.478 0.00 0.00 45.87 3.16
9796 13964 3.439129 CCCTCCGTTTGGAATTACTTGTC 59.561 47.826 0.00 0.00 45.87 3.18
9797 13965 3.124636 CCTCCGTTTGGAATTACTTGTCG 59.875 47.826 0.00 0.00 45.87 4.35
9798 13966 3.731089 TCCGTTTGGAATTACTTGTCGT 58.269 40.909 0.00 0.00 42.85 4.34
9799 13967 3.495377 TCCGTTTGGAATTACTTGTCGTG 59.505 43.478 0.00 0.00 42.85 4.35
9800 13968 3.495377 CCGTTTGGAATTACTTGTCGTGA 59.505 43.478 0.00 0.00 37.49 4.35
9801 13969 4.024725 CCGTTTGGAATTACTTGTCGTGAA 60.025 41.667 0.00 0.00 37.49 3.18
9802 13970 5.503498 CGTTTGGAATTACTTGTCGTGAAA 58.497 37.500 0.00 0.00 0.00 2.69
9803 13971 5.966503 CGTTTGGAATTACTTGTCGTGAAAA 59.033 36.000 0.00 0.00 0.00 2.29
9804 13972 6.635239 CGTTTGGAATTACTTGTCGTGAAAAT 59.365 34.615 0.00 0.00 0.00 1.82
9805 13973 7.357206 CGTTTGGAATTACTTGTCGTGAAAATG 60.357 37.037 0.00 0.00 0.00 2.32
9806 13974 6.007936 TGGAATTACTTGTCGTGAAAATGG 57.992 37.500 0.00 0.00 0.00 3.16
9807 13975 5.765677 TGGAATTACTTGTCGTGAAAATGGA 59.234 36.000 0.00 0.00 0.00 3.41
9808 13976 6.432783 TGGAATTACTTGTCGTGAAAATGGAT 59.567 34.615 0.00 0.00 0.00 3.41
9809 13977 6.747280 GGAATTACTTGTCGTGAAAATGGATG 59.253 38.462 0.00 0.00 0.00 3.51
9810 13978 6.817765 ATTACTTGTCGTGAAAATGGATGT 57.182 33.333 0.00 0.00 0.00 3.06
9811 13979 7.915293 ATTACTTGTCGTGAAAATGGATGTA 57.085 32.000 0.00 0.00 0.00 2.29
9812 13980 7.915293 TTACTTGTCGTGAAAATGGATGTAT 57.085 32.000 0.00 0.00 0.00 2.29
9813 13981 6.422776 ACTTGTCGTGAAAATGGATGTATC 57.577 37.500 0.00 0.00 0.00 2.24
9814 13982 6.173339 ACTTGTCGTGAAAATGGATGTATCT 58.827 36.000 0.00 0.00 0.00 1.98
9815 13983 7.327975 ACTTGTCGTGAAAATGGATGTATCTA 58.672 34.615 0.00 0.00 0.00 1.98
9816 13984 7.492669 ACTTGTCGTGAAAATGGATGTATCTAG 59.507 37.037 0.00 0.00 0.00 2.43
9817 13985 7.107639 TGTCGTGAAAATGGATGTATCTAGA 57.892 36.000 0.00 0.00 0.00 2.43
9818 13986 6.978659 TGTCGTGAAAATGGATGTATCTAGAC 59.021 38.462 0.00 0.00 0.00 2.59
9819 13987 6.142480 GTCGTGAAAATGGATGTATCTAGACG 59.858 42.308 0.00 0.00 0.00 4.18
9820 13988 5.977725 CGTGAAAATGGATGTATCTAGACGT 59.022 40.000 0.00 0.00 0.00 4.34
9821 13989 7.012610 TCGTGAAAATGGATGTATCTAGACGTA 59.987 37.037 0.00 0.00 0.00 3.57
9822 13990 7.808381 CGTGAAAATGGATGTATCTAGACGTAT 59.192 37.037 0.00 0.00 0.00 3.06
9823 13991 9.477484 GTGAAAATGGATGTATCTAGACGTATT 57.523 33.333 0.00 0.00 0.00 1.89
9852 14020 9.522804 AGTTCTAGATACATCAATTTTCGAGAC 57.477 33.333 0.00 0.00 0.00 3.36
9853 14021 9.302345 GTTCTAGATACATCAATTTTCGAGACA 57.698 33.333 0.00 0.00 0.00 3.41
9854 14022 9.869757 TTCTAGATACATCAATTTTCGAGACAA 57.130 29.630 0.00 0.00 0.00 3.18
9855 14023 9.521503 TCTAGATACATCAATTTTCGAGACAAG 57.478 33.333 0.00 0.00 0.00 3.16
9856 14024 9.307121 CTAGATACATCAATTTTCGAGACAAGT 57.693 33.333 0.00 0.00 0.00 3.16
9858 14026 9.653287 AGATACATCAATTTTCGAGACAAGTAA 57.347 29.630 0.00 0.00 0.00 2.24
9862 14030 9.612620 ACATCAATTTTCGAGACAAGTAATTTC 57.387 29.630 0.00 0.00 0.00 2.17
9863 14031 8.779561 CATCAATTTTCGAGACAAGTAATTTCG 58.220 33.333 0.00 0.00 0.00 3.46
9864 14032 8.078959 TCAATTTTCGAGACAAGTAATTTCGA 57.921 30.769 0.00 0.00 38.38 3.71
9865 14033 8.552865 TCAATTTTCGAGACAAGTAATTTCGAA 58.447 29.630 6.78 6.78 45.23 3.71
9866 14034 8.618952 CAATTTTCGAGACAAGTAATTTCGAAC 58.381 33.333 9.65 0.00 46.15 3.95
9867 14035 5.490472 TTCGAGACAAGTAATTTCGAACG 57.510 39.130 0.00 0.00 43.00 3.95
9868 14036 3.916172 TCGAGACAAGTAATTTCGAACGG 59.084 43.478 0.00 0.00 37.35 4.44
9869 14037 3.916172 CGAGACAAGTAATTTCGAACGGA 59.084 43.478 0.00 0.00 33.38 4.69
9870 14038 4.030306 CGAGACAAGTAATTTCGAACGGAG 59.970 45.833 0.00 0.00 33.38 4.63
9871 14039 4.243270 AGACAAGTAATTTCGAACGGAGG 58.757 43.478 0.00 0.00 0.00 4.30
9872 14040 3.332034 ACAAGTAATTTCGAACGGAGGG 58.668 45.455 0.00 0.00 0.00 4.30
9873 14041 3.007182 ACAAGTAATTTCGAACGGAGGGA 59.993 43.478 0.00 0.00 0.00 4.20
9874 14042 3.521947 AGTAATTTCGAACGGAGGGAG 57.478 47.619 0.00 0.00 0.00 4.30
9875 14043 2.830321 AGTAATTTCGAACGGAGGGAGT 59.170 45.455 0.00 0.00 0.00 3.85
9876 14044 4.019174 AGTAATTTCGAACGGAGGGAGTA 58.981 43.478 0.00 0.00 0.00 2.59
9877 14045 4.648307 AGTAATTTCGAACGGAGGGAGTAT 59.352 41.667 0.00 0.00 0.00 2.12
9878 14046 4.482952 AATTTCGAACGGAGGGAGTATT 57.517 40.909 0.00 0.00 0.00 1.89
9907 14075 3.700538 AGAGGCAGGCAATATTGTCAAA 58.299 40.909 21.53 0.00 34.61 2.69
9935 14103 4.286297 TGTTCCGTGATGAGAAGGAATT 57.714 40.909 0.00 0.00 43.62 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
246 247 5.204409 AGACTCATCATCAGCTTGATCTC 57.796 43.478 0.00 0.00 34.28 2.75
377 378 2.418669 AGTTCCAAAACTCTGGGAGGA 58.581 47.619 0.00 0.00 42.10 3.71
920 947 1.091771 CCGTGGATTCGCATTGAGCT 61.092 55.000 0.00 0.00 42.61 4.09
1709 2207 3.813724 TCAGTGCTTATAGTCGTCGCTAT 59.186 43.478 11.93 11.93 35.93 2.97
1804 2302 1.460504 TAGCACGACGACTTCCTGAT 58.539 50.000 0.00 0.00 0.00 2.90
2604 6179 4.290942 AGACCACACCCCTAATCTAAGAG 58.709 47.826 0.00 0.00 0.00 2.85
3198 6776 4.022242 CCACGAGTATCCAGTAATGTAGGG 60.022 50.000 0.00 0.00 0.00 3.53
5110 8726 7.477144 AGGAAAATTTTTGATTGTCGGTTTC 57.523 32.000 4.63 0.00 0.00 2.78
6247 10029 1.502231 TCTTCAAGTGCAAGACGAGC 58.498 50.000 0.00 0.00 0.00 5.03
6602 10388 0.176910 CAAAAAGGTTTGGGCCGTGT 59.823 50.000 0.00 0.00 40.47 4.49
6620 10406 5.508825 GCTTATGTTGACCATGGTTTGAACA 60.509 40.000 27.12 27.12 34.86 3.18
6702 10528 4.182433 TTGTGTGCTGGCCGACCA 62.182 61.111 0.00 0.00 46.51 4.02
6703 10529 3.357079 CTTGTGTGCTGGCCGACC 61.357 66.667 0.00 0.00 0.00 4.79
6704 10530 3.357079 CCTTGTGTGCTGGCCGAC 61.357 66.667 0.00 0.00 0.00 4.79
6705 10531 3.414136 AACCTTGTGTGCTGGCCGA 62.414 57.895 0.00 0.00 0.00 5.54
6706 10532 2.906897 AACCTTGTGTGCTGGCCG 60.907 61.111 0.00 0.00 0.00 6.13
6707 10533 2.564721 GGAACCTTGTGTGCTGGCC 61.565 63.158 0.00 0.00 0.00 5.36
6708 10534 1.827789 TGGAACCTTGTGTGCTGGC 60.828 57.895 0.00 0.00 0.00 4.85
6709 10535 2.032981 GTGGAACCTTGTGTGCTGG 58.967 57.895 0.00 0.00 0.00 4.85
6721 10547 4.383880 GGGAAGTATAAGGTGAGGTGGAAC 60.384 50.000 0.00 0.00 0.00 3.62
6722 10548 3.778629 GGGAAGTATAAGGTGAGGTGGAA 59.221 47.826 0.00 0.00 0.00 3.53
6723 10549 3.013648 AGGGAAGTATAAGGTGAGGTGGA 59.986 47.826 0.00 0.00 0.00 4.02
6768 10594 1.815817 GCTTTCATTTGGGCCGGTGT 61.816 55.000 1.90 0.00 0.00 4.16
6832 10662 2.625790 GCTATTCGTCATCTCACTCCCT 59.374 50.000 0.00 0.00 0.00 4.20
6942 10778 9.126151 TGACTTCCAACATTTATACAACAAGAA 57.874 29.630 0.00 0.00 0.00 2.52
6979 10815 0.107508 CCCCATCTCAGTGCATCGTT 60.108 55.000 0.00 0.00 0.00 3.85
6992 10828 0.249911 GCTACATCGGTGTCCCCATC 60.250 60.000 3.56 0.00 39.77 3.51
6995 10831 2.106332 CGCTACATCGGTGTCCCC 59.894 66.667 3.56 0.00 39.77 4.81
7080 10916 7.513856 TGTACTACTATACGGTTATACCACCA 58.486 38.462 0.00 0.00 38.47 4.17
7142 10978 1.959985 TCAACATGGATTTGCGGTGTT 59.040 42.857 0.00 0.00 33.63 3.32
7147 10983 4.359971 TGAAGATCAACATGGATTTGCG 57.640 40.909 0.00 0.00 0.00 4.85
7237 11073 7.143340 TGAGAGAAGCTTTTGATGTTTTCATG 58.857 34.615 0.00 0.00 41.05 3.07
7406 11249 2.156917 CATTGATCATGCGCCCTGTAT 58.843 47.619 4.18 0.00 0.00 2.29
7439 11282 6.607004 TTCCTTTCTCCTTTCTACGAGAAT 57.393 37.500 0.70 0.00 42.96 2.40
7445 11288 8.401709 CAGCATAAATTCCTTTCTCCTTTCTAC 58.598 37.037 0.00 0.00 0.00 2.59
7460 11303 4.937015 ACAACCCAATTGCAGCATAAATTC 59.063 37.500 0.00 0.00 42.62 2.17
7476 11319 4.583871 AGTTTTGAATTTTGCACAACCCA 58.416 34.783 0.00 0.00 28.75 4.51
7535 11378 9.961265 CTCATTTATCTGACATACATGCAAATT 57.039 29.630 0.00 0.00 0.00 1.82
7543 11386 5.049828 CGCACCTCATTTATCTGACATACA 58.950 41.667 0.00 0.00 0.00 2.29
7569 11412 0.687354 GGTCAGACTGCCAAGGAGAA 59.313 55.000 10.08 0.00 0.00 2.87
7589 11432 3.823304 GACAAGAAACTTGGCATCTCCTT 59.177 43.478 11.78 0.00 35.26 3.36
7600 11443 1.940613 GTGGCGTCTGACAAGAAACTT 59.059 47.619 8.73 0.00 32.32 2.66
7607 11450 1.003839 GGATGGTGGCGTCTGACAA 60.004 57.895 8.73 0.00 32.32 3.18
7627 11470 2.875485 CTCGCTCGGAGGAAACGA 59.125 61.111 7.20 6.24 39.22 3.85
7815 11696 3.305608 GGTCTTCCTGCCATTTGTTCAAG 60.306 47.826 0.00 0.00 0.00 3.02
7817 11698 2.158475 AGGTCTTCCTGCCATTTGTTCA 60.158 45.455 0.00 0.00 43.33 3.18
7820 11701 2.242043 CAAGGTCTTCCTGCCATTTGT 58.758 47.619 0.00 0.00 44.35 2.83
7860 11754 1.476891 TCGGCTACATGTGTTCTCCTC 59.523 52.381 9.11 0.00 0.00 3.71
8036 11944 9.052759 ACTGTTGTACAAGTTAATGAACCTTAG 57.947 33.333 8.98 0.00 36.08 2.18
8064 11976 4.130118 TCTGCTCCTTGACTGAAACTTTC 58.870 43.478 0.00 0.00 0.00 2.62
8202 12114 1.364901 GGTCTCACGGGTTGTCGAA 59.635 57.895 0.00 0.00 0.00 3.71
8384 12296 0.528901 CAACCCACGACTCACGAACA 60.529 55.000 0.00 0.00 45.77 3.18
8422 12334 6.779860 AGCCCTACAACAAGGTTATATATGG 58.220 40.000 0.00 0.00 34.56 2.74
8423 12335 8.691661 AAAGCCCTACAACAAGGTTATATATG 57.308 34.615 0.00 0.00 34.56 1.78
8437 12349 2.504367 GCAAGACTGAAAGCCCTACAA 58.496 47.619 0.00 0.00 37.60 2.41
8609 12529 5.933463 GGATGGATTTTCTGTTTCAATTGCA 59.067 36.000 0.00 0.00 0.00 4.08
8615 12535 4.739793 ACAGGGATGGATTTTCTGTTTCA 58.260 39.130 0.00 0.00 35.44 2.69
8654 12770 1.871080 AACAGGAAACGCACTCTCAG 58.129 50.000 0.00 0.00 0.00 3.35
8700 12816 5.948992 ATCAAGTAAAGGCAGAGTTGTTC 57.051 39.130 0.00 0.00 0.00 3.18
8804 12920 7.551035 AGTCAAAGATGTCAGCAATTATCTC 57.449 36.000 0.00 0.00 0.00 2.75
8835 12951 0.179234 TCCAAACGACAACTCCAGCA 59.821 50.000 0.00 0.00 0.00 4.41
8887 13003 8.303156 GCTCTTATCATTCTCTCAGCATACTTA 58.697 37.037 0.00 0.00 0.00 2.24
8936 13052 5.717119 AGATCATTTGCCATTTGTGTCTTC 58.283 37.500 0.00 0.00 0.00 2.87
9134 13254 6.550938 TGCTATATGGATGGAACTAGATGG 57.449 41.667 0.00 0.00 0.00 3.51
9140 13260 9.051259 AGTATATGTTGCTATATGGATGGAACT 57.949 33.333 0.00 0.00 0.00 3.01
9259 13382 2.224305 CCCAGAGTTCTGTTCGAAAGGT 60.224 50.000 0.00 0.00 42.27 3.50
9260 13383 2.037251 TCCCAGAGTTCTGTTCGAAAGG 59.963 50.000 0.00 0.00 42.27 3.11
9332 13455 8.749354 ACAGGTACAAAAAGAAGTTTCTTCAAT 58.251 29.630 7.52 0.00 46.22 2.57
9370 13493 3.874383 TGGTCTGACCATCTCCAAAAA 57.126 42.857 25.12 0.00 44.79 1.94
9386 13509 2.434702 ACGATCTTCCCAATACCTGGTC 59.565 50.000 0.63 0.00 44.76 4.02
9625 13752 9.583765 CTAACATAAACCTAACCAGAAGTAGAC 57.416 37.037 0.00 0.00 0.00 2.59
9754 13922 4.715297 AGGGAGTACGTATCTTGTTGGAAT 59.285 41.667 0.00 0.00 0.00 3.01
9768 13936 0.604578 TTCCAAACGGAGGGAGTACG 59.395 55.000 0.00 0.00 34.02 3.67
9772 13940 3.629142 AGTAATTCCAAACGGAGGGAG 57.371 47.619 0.00 0.00 34.02 4.30
9773 13941 3.073356 ACAAGTAATTCCAAACGGAGGGA 59.927 43.478 0.00 0.00 32.88 4.20
9774 13942 3.418047 ACAAGTAATTCCAAACGGAGGG 58.582 45.455 0.00 0.00 32.88 4.30
9775 13943 3.124636 CGACAAGTAATTCCAAACGGAGG 59.875 47.826 0.00 0.00 32.88 4.30
9776 13944 3.744426 ACGACAAGTAATTCCAAACGGAG 59.256 43.478 0.00 0.00 32.88 4.63
9777 13945 3.495377 CACGACAAGTAATTCCAAACGGA 59.505 43.478 0.00 0.00 0.00 4.69
9778 13946 3.495377 TCACGACAAGTAATTCCAAACGG 59.505 43.478 0.00 0.00 0.00 4.44
9779 13947 4.718858 TCACGACAAGTAATTCCAAACG 57.281 40.909 0.00 0.00 0.00 3.60
9780 13948 7.096230 CCATTTTCACGACAAGTAATTCCAAAC 60.096 37.037 0.00 0.00 0.00 2.93
9781 13949 6.920758 CCATTTTCACGACAAGTAATTCCAAA 59.079 34.615 0.00 0.00 0.00 3.28
9782 13950 6.263392 TCCATTTTCACGACAAGTAATTCCAA 59.737 34.615 0.00 0.00 0.00 3.53
9783 13951 5.765677 TCCATTTTCACGACAAGTAATTCCA 59.234 36.000 0.00 0.00 0.00 3.53
9784 13952 6.249035 TCCATTTTCACGACAAGTAATTCC 57.751 37.500 0.00 0.00 0.00 3.01
9785 13953 7.305474 ACATCCATTTTCACGACAAGTAATTC 58.695 34.615 0.00 0.00 0.00 2.17
9786 13954 7.214467 ACATCCATTTTCACGACAAGTAATT 57.786 32.000 0.00 0.00 0.00 1.40
9787 13955 6.817765 ACATCCATTTTCACGACAAGTAAT 57.182 33.333 0.00 0.00 0.00 1.89
9788 13956 7.822334 AGATACATCCATTTTCACGACAAGTAA 59.178 33.333 0.00 0.00 0.00 2.24
9789 13957 7.327975 AGATACATCCATTTTCACGACAAGTA 58.672 34.615 0.00 0.00 0.00 2.24
9790 13958 6.173339 AGATACATCCATTTTCACGACAAGT 58.827 36.000 0.00 0.00 0.00 3.16
9791 13959 6.668541 AGATACATCCATTTTCACGACAAG 57.331 37.500 0.00 0.00 0.00 3.16
9792 13960 7.491372 GTCTAGATACATCCATTTTCACGACAA 59.509 37.037 0.00 0.00 0.00 3.18
9793 13961 6.978659 GTCTAGATACATCCATTTTCACGACA 59.021 38.462 0.00 0.00 0.00 4.35
9794 13962 6.142480 CGTCTAGATACATCCATTTTCACGAC 59.858 42.308 0.00 0.00 0.00 4.34
9795 13963 6.183360 ACGTCTAGATACATCCATTTTCACGA 60.183 38.462 0.00 0.00 0.00 4.35
9796 13964 5.977725 ACGTCTAGATACATCCATTTTCACG 59.022 40.000 0.00 0.00 0.00 4.35
9797 13965 9.477484 AATACGTCTAGATACATCCATTTTCAC 57.523 33.333 0.00 0.00 0.00 3.18
9826 13994 9.522804 GTCTCGAAAATTGATGTATCTAGAACT 57.477 33.333 0.00 0.00 0.00 3.01
9827 13995 9.302345 TGTCTCGAAAATTGATGTATCTAGAAC 57.698 33.333 0.00 0.00 0.00 3.01
9828 13996 9.869757 TTGTCTCGAAAATTGATGTATCTAGAA 57.130 29.630 0.00 0.00 0.00 2.10
9829 13997 9.521503 CTTGTCTCGAAAATTGATGTATCTAGA 57.478 33.333 0.00 0.00 0.00 2.43
9830 13998 9.307121 ACTTGTCTCGAAAATTGATGTATCTAG 57.693 33.333 0.00 0.00 0.00 2.43
9832 14000 9.653287 TTACTTGTCTCGAAAATTGATGTATCT 57.347 29.630 0.00 0.00 0.00 1.98
9836 14004 9.612620 GAAATTACTTGTCTCGAAAATTGATGT 57.387 29.630 0.00 0.00 0.00 3.06
9837 14005 8.779561 CGAAATTACTTGTCTCGAAAATTGATG 58.220 33.333 0.00 0.00 0.00 3.07
9838 14006 8.717821 TCGAAATTACTTGTCTCGAAAATTGAT 58.282 29.630 0.00 0.00 35.74 2.57
9839 14007 8.078959 TCGAAATTACTTGTCTCGAAAATTGA 57.921 30.769 0.00 0.00 35.74 2.57
9840 14008 8.618952 GTTCGAAATTACTTGTCTCGAAAATTG 58.381 33.333 9.69 0.00 46.49 2.32
9841 14009 7.529519 CGTTCGAAATTACTTGTCTCGAAAATT 59.470 33.333 9.69 0.00 46.49 1.82
9842 14010 7.007697 CGTTCGAAATTACTTGTCTCGAAAAT 58.992 34.615 9.69 0.00 46.49 1.82
9843 14011 6.349426 CGTTCGAAATTACTTGTCTCGAAAA 58.651 36.000 9.69 0.00 46.49 2.29
9844 14012 5.107760 CCGTTCGAAATTACTTGTCTCGAAA 60.108 40.000 9.69 0.00 46.49 3.46
9845 14013 4.383649 CCGTTCGAAATTACTTGTCTCGAA 59.616 41.667 0.00 5.10 43.89 3.71
9846 14014 3.916172 CCGTTCGAAATTACTTGTCTCGA 59.084 43.478 0.00 0.00 36.80 4.04
9847 14015 3.916172 TCCGTTCGAAATTACTTGTCTCG 59.084 43.478 0.00 0.00 0.00 4.04
9848 14016 4.326548 CCTCCGTTCGAAATTACTTGTCTC 59.673 45.833 0.00 0.00 0.00 3.36
9849 14017 4.243270 CCTCCGTTCGAAATTACTTGTCT 58.757 43.478 0.00 0.00 0.00 3.41
9850 14018 3.370061 CCCTCCGTTCGAAATTACTTGTC 59.630 47.826 0.00 0.00 0.00 3.18
9851 14019 3.007182 TCCCTCCGTTCGAAATTACTTGT 59.993 43.478 0.00 0.00 0.00 3.16
9852 14020 3.592059 TCCCTCCGTTCGAAATTACTTG 58.408 45.455 0.00 0.00 0.00 3.16
9853 14021 3.260128 ACTCCCTCCGTTCGAAATTACTT 59.740 43.478 0.00 0.00 0.00 2.24
9854 14022 2.830321 ACTCCCTCCGTTCGAAATTACT 59.170 45.455 0.00 0.00 0.00 2.24
9855 14023 3.242549 ACTCCCTCCGTTCGAAATTAC 57.757 47.619 0.00 0.00 0.00 1.89
9856 14024 5.603170 AATACTCCCTCCGTTCGAAATTA 57.397 39.130 0.00 0.00 0.00 1.40
9857 14025 4.482952 AATACTCCCTCCGTTCGAAATT 57.517 40.909 0.00 0.00 0.00 1.82
9858 14026 4.189231 CAAATACTCCCTCCGTTCGAAAT 58.811 43.478 0.00 0.00 0.00 2.17
9859 14027 3.592059 CAAATACTCCCTCCGTTCGAAA 58.408 45.455 0.00 0.00 0.00 3.46
9860 14028 2.675889 GCAAATACTCCCTCCGTTCGAA 60.676 50.000 0.00 0.00 0.00 3.71
9861 14029 1.134907 GCAAATACTCCCTCCGTTCGA 60.135 52.381 0.00 0.00 0.00 3.71
9862 14030 1.134788 AGCAAATACTCCCTCCGTTCG 60.135 52.381 0.00 0.00 0.00 3.95
9863 14031 2.693267 AGCAAATACTCCCTCCGTTC 57.307 50.000 0.00 0.00 0.00 3.95
9864 14032 3.371965 TCTAGCAAATACTCCCTCCGTT 58.628 45.455 0.00 0.00 0.00 4.44
9865 14033 3.028094 TCTAGCAAATACTCCCTCCGT 57.972 47.619 0.00 0.00 0.00 4.69
9866 14034 3.637229 TCTTCTAGCAAATACTCCCTCCG 59.363 47.826 0.00 0.00 0.00 4.63
9867 14035 4.039852 CCTCTTCTAGCAAATACTCCCTCC 59.960 50.000 0.00 0.00 0.00 4.30
9868 14036 4.502431 GCCTCTTCTAGCAAATACTCCCTC 60.502 50.000 0.00 0.00 0.00 4.30
9869 14037 3.389656 GCCTCTTCTAGCAAATACTCCCT 59.610 47.826 0.00 0.00 0.00 4.20
9870 14038 3.134804 TGCCTCTTCTAGCAAATACTCCC 59.865 47.826 0.00 0.00 35.69 4.30
9871 14039 4.376146 CTGCCTCTTCTAGCAAATACTCC 58.624 47.826 0.00 0.00 38.82 3.85
9872 14040 4.376146 CCTGCCTCTTCTAGCAAATACTC 58.624 47.826 0.00 0.00 38.82 2.59
9873 14041 3.432890 GCCTGCCTCTTCTAGCAAATACT 60.433 47.826 0.00 0.00 38.82 2.12
9874 14042 2.875317 GCCTGCCTCTTCTAGCAAATAC 59.125 50.000 0.00 0.00 38.82 1.89
9875 14043 2.505407 TGCCTGCCTCTTCTAGCAAATA 59.495 45.455 0.00 0.00 38.82 1.40
9876 14044 1.283029 TGCCTGCCTCTTCTAGCAAAT 59.717 47.619 0.00 0.00 38.82 2.32
9877 14045 0.692476 TGCCTGCCTCTTCTAGCAAA 59.308 50.000 0.00 0.00 38.82 3.68
9878 14046 0.692476 TTGCCTGCCTCTTCTAGCAA 59.308 50.000 0.00 0.00 38.82 3.91
9907 14075 3.411446 TCTCATCACGGAACAAGCATTT 58.589 40.909 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.