Multiple sequence alignment - TraesCS7A01G090000

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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 TraesCS7A01G090000 chr7A 100.000 2683 0 0 1 2683 54944589 54941907 0.000000e+00 4955.0
1 TraesCS7A01G090000 chr7A 95.031 966 28 7 807 1755 54990155 54991117 0.000000e+00 1500.0
2 TraesCS7A01G090000 chr7A 94.414 734 33 5 85 811 54989229 54989961 0.000000e+00 1122.0
3 TraesCS7A01G090000 chr7A 94.003 717 39 4 1756 2470 609435362 609434648 0.000000e+00 1083.0
4 TraesCS7A01G090000 chr7A 93.863 717 41 3 1756 2470 27256989 27257704 0.000000e+00 1077.0
5 TraesCS7A01G090000 chr7A 92.089 493 22 11 894 1373 54996432 54996920 0.000000e+00 678.0
6 TraesCS7A01G090000 chr7A 86.200 500 48 11 84 562 54964154 54963655 3.060000e-144 521.0
7 TraesCS7A01G090000 chr7A 89.796 343 21 6 894 1227 54979616 54979279 6.860000e-116 427.0
8 TraesCS7A01G090000 chr7A 84.026 457 44 14 140 567 54995393 54995849 1.920000e-111 412.0
9 TraesCS7A01G090000 chr7A 87.427 342 35 7 1421 1755 54979113 54978773 1.160000e-103 387.0
10 TraesCS7A01G090000 chr7A 91.968 249 18 2 988 1235 54962370 54962123 5.500000e-92 348.0
11 TraesCS7A01G090000 chr7A 97.727 88 2 0 2596 2683 12804974 12804887 4.630000e-33 152.0
12 TraesCS7A01G090000 chr7A 96.629 89 3 0 2595 2683 691675287 691675199 5.980000e-32 148.0
13 TraesCS7A01G090000 chr7A 81.818 132 15 5 607 738 54995856 54995978 4.730000e-18 102.0
14 TraesCS7A01G090000 chr6A 95.119 717 33 2 1756 2470 2366024 2365308 0.000000e+00 1129.0
15 TraesCS7A01G090000 chrUn 94.561 717 37 2 1756 2470 71282769 71282053 0.000000e+00 1107.0
16 TraesCS7A01G090000 chr3B 94.553 716 37 2 1756 2469 257316711 257317426 0.000000e+00 1105.0
17 TraesCS7A01G090000 chr3B 93.994 716 40 3 1756 2469 744606973 744606259 0.000000e+00 1081.0
18 TraesCS7A01G090000 chr2D 94.413 716 38 2 1756 2469 630617433 630616718 0.000000e+00 1099.0
19 TraesCS7A01G090000 chr1B 93.872 718 40 4 1756 2471 543087875 543088590 0.000000e+00 1079.0
20 TraesCS7A01G090000 chr1B 96.591 88 3 0 2596 2683 35378761 35378848 2.150000e-31 147.0
21 TraesCS7A01G090000 chr1B 96.591 88 3 0 2596 2683 445073137 445073224 2.150000e-31 147.0
22 TraesCS7A01G090000 chr1A 94.093 711 40 2 1756 2464 512480245 512480955 0.000000e+00 1079.0
23 TraesCS7A01G090000 chr4A 89.098 743 61 8 84 811 667176703 667175966 0.000000e+00 905.0
24 TraesCS7A01G090000 chr4A 86.938 712 63 15 117 803 667317791 667318497 0.000000e+00 773.0
25 TraesCS7A01G090000 chr4A 83.375 800 73 35 894 1660 667175092 667174320 0.000000e+00 686.0
26 TraesCS7A01G090000 chr4A 83.879 794 50 32 894 1630 667345760 667346532 0.000000e+00 686.0
27 TraesCS7A01G090000 chr4A 89.977 429 26 5 807 1226 667226040 667226460 3.040000e-149 538.0
28 TraesCS7A01G090000 chr4A 88.117 446 19 14 1314 1755 667331150 667331565 1.430000e-137 499.0
29 TraesCS7A01G090000 chr4A 84.854 515 46 13 84 567 667344467 667344980 8.630000e-135 490.0
30 TraesCS7A01G090000 chr4A 84.428 533 27 23 317 811 667225282 667225796 8.690000e-130 473.0
31 TraesCS7A01G090000 chr4A 86.697 436 23 14 894 1322 667330706 667331113 4.070000e-123 451.0
32 TraesCS7A01G090000 chr4A 84.078 358 38 8 230 568 667167551 667167194 7.160000e-86 327.0
33 TraesCS7A01G090000 chr4A 87.059 255 26 3 77 325 667224740 667224993 5.660000e-72 281.0
34 TraesCS7A01G090000 chr4A 86.636 217 17 9 1421 1628 667226619 667226832 2.080000e-56 230.0
35 TraesCS7A01G090000 chr4A 93.966 116 7 0 2473 2588 667064640 667064525 2.750000e-40 176.0
36 TraesCS7A01G090000 chr4A 90.698 129 12 0 2470 2598 667193258 667193386 3.550000e-39 172.0
37 TraesCS7A01G090000 chr4A 90.083 121 12 0 2478 2598 667004684 667004564 9.940000e-35 158.0
38 TraesCS7A01G090000 chr4A 92.708 96 7 0 1128 1223 667062869 667062964 3.600000e-29 139.0
39 TraesCS7A01G090000 chr4A 93.750 80 4 1 819 897 667175219 667175140 4.690000e-23 119.0
40 TraesCS7A01G090000 chr4A 94.030 67 3 1 1690 1755 667156502 667156436 1.700000e-17 100.0
41 TraesCS7A01G090000 chr4A 77.596 183 21 13 627 803 667345167 667345335 2.840000e-15 93.5
42 TraesCS7A01G090000 chr4A 92.308 39 3 0 1707 1745 667103516 667103478 3.730000e-04 56.5
43 TraesCS7A01G090000 chr7D 81.763 817 69 36 894 1660 53269026 53268240 6.350000e-171 610.0
44 TraesCS7A01G090000 chr7D 81.369 628 55 26 2 567 53270447 53269820 3.150000e-124 455.0
45 TraesCS7A01G090000 chr7D 86.765 408 41 8 278 674 53276305 53275900 2.450000e-120 442.0
46 TraesCS7A01G090000 chr7D 88.218 348 25 13 1421 1755 53274846 53274502 4.160000e-108 401.0
47 TraesCS7A01G090000 chr7D 76.144 918 95 72 911 1755 52525926 52526792 4.220000e-98 368.0
48 TraesCS7A01G090000 chr7D 83.203 256 22 11 330 567 52663029 52663281 5.820000e-52 215.0
49 TraesCS7A01G090000 chr7D 96.032 126 4 1 2470 2594 53331236 53331361 1.260000e-48 204.0
50 TraesCS7A01G090000 chr7D 91.729 133 7 2 2470 2598 52523799 52523667 5.900000e-42 182.0
51 TraesCS7A01G090000 chr7D 79.681 251 36 11 1421 1662 52664221 52664465 1.650000e-37 167.0
52 TraesCS7A01G090000 chr7D 93.269 104 7 0 1122 1225 52513772 52513875 1.290000e-33 154.0
53 TraesCS7A01G090000 chr7D 92.381 105 8 0 464 568 52525195 52525299 1.660000e-32 150.0
54 TraesCS7A01G090000 chr7D 97.468 79 2 0 1125 1203 52663927 52664005 4.660000e-28 135.0
55 TraesCS7A01G090000 chr7D 86.777 121 15 1 2470 2590 53271433 53271552 1.680000e-27 134.0
56 TraesCS7A01G090000 chr7D 93.243 74 4 1 807 880 53374132 53374060 1.020000e-19 108.0
57 TraesCS7A01G090000 chr7D 80.986 142 14 6 607 746 53269813 53269683 1.700000e-17 100.0
58 TraesCS7A01G090000 chr3A 97.674 86 2 0 2598 2683 672217575 672217660 5.980000e-32 148.0
59 TraesCS7A01G090000 chr2A 96.629 89 3 0 2595 2683 692749185 692749097 5.980000e-32 148.0
60 TraesCS7A01G090000 chr5B 96.591 88 3 0 2596 2683 318717210 318717297 2.150000e-31 147.0
61 TraesCS7A01G090000 chr5B 96.591 88 3 0 2596 2683 431550364 431550451 2.150000e-31 147.0
62 TraesCS7A01G090000 chr4B 96.591 88 3 0 2596 2683 124883304 124883217 2.150000e-31 147.0


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 TraesCS7A01G090000 chr7A 54941907 54944589 2682 True 4955.000000 4955 100.000000 1 2683 1 chr7A.!!$R2 2682
1 TraesCS7A01G090000 chr7A 54989229 54991117 1888 False 1311.000000 1500 94.722500 85 1755 2 chr7A.!!$F2 1670
2 TraesCS7A01G090000 chr7A 609434648 609435362 714 True 1083.000000 1083 94.003000 1756 2470 1 chr7A.!!$R3 714
3 TraesCS7A01G090000 chr7A 27256989 27257704 715 False 1077.000000 1077 93.863000 1756 2470 1 chr7A.!!$F1 714
4 TraesCS7A01G090000 chr7A 54962123 54964154 2031 True 434.500000 521 89.084000 84 1235 2 chr7A.!!$R5 1151
5 TraesCS7A01G090000 chr7A 54978773 54979616 843 True 407.000000 427 88.611500 894 1755 2 chr7A.!!$R6 861
6 TraesCS7A01G090000 chr7A 54995393 54996920 1527 False 397.333333 678 85.977667 140 1373 3 chr7A.!!$F3 1233
7 TraesCS7A01G090000 chr6A 2365308 2366024 716 True 1129.000000 1129 95.119000 1756 2470 1 chr6A.!!$R1 714
8 TraesCS7A01G090000 chrUn 71282053 71282769 716 True 1107.000000 1107 94.561000 1756 2470 1 chrUn.!!$R1 714
9 TraesCS7A01G090000 chr3B 257316711 257317426 715 False 1105.000000 1105 94.553000 1756 2469 1 chr3B.!!$F1 713
10 TraesCS7A01G090000 chr3B 744606259 744606973 714 True 1081.000000 1081 93.994000 1756 2469 1 chr3B.!!$R1 713
11 TraesCS7A01G090000 chr2D 630616718 630617433 715 True 1099.000000 1099 94.413000 1756 2469 1 chr2D.!!$R1 713
12 TraesCS7A01G090000 chr1B 543087875 543088590 715 False 1079.000000 1079 93.872000 1756 2471 1 chr1B.!!$F3 715
13 TraesCS7A01G090000 chr1A 512480245 512480955 710 False 1079.000000 1079 94.093000 1756 2464 1 chr1A.!!$F1 708
14 TraesCS7A01G090000 chr4A 667317791 667318497 706 False 773.000000 773 86.938000 117 803 1 chr4A.!!$F3 686
15 TraesCS7A01G090000 chr4A 667174320 667176703 2383 True 570.000000 905 88.741000 84 1660 3 chr4A.!!$R6 1576
16 TraesCS7A01G090000 chr4A 667330706 667331565 859 False 475.000000 499 87.407000 894 1755 2 chr4A.!!$F5 861
17 TraesCS7A01G090000 chr4A 667344467 667346532 2065 False 423.166667 686 82.109667 84 1630 3 chr4A.!!$F6 1546
18 TraesCS7A01G090000 chr4A 667224740 667226832 2092 False 380.500000 538 87.025000 77 1628 4 chr4A.!!$F4 1551
19 TraesCS7A01G090000 chr7D 53274502 53276305 1803 True 421.500000 442 87.491500 278 1755 2 chr7D.!!$R4 1477
20 TraesCS7A01G090000 chr7D 53268240 53270447 2207 True 388.333333 610 81.372667 2 1660 3 chr7D.!!$R3 1658
21 TraesCS7A01G090000 chr7D 52525195 52526792 1597 False 259.000000 368 84.262500 464 1755 2 chr7D.!!$F4 1291

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
66 68 0.109723 TCCCGTTTTGTCTCCCCAAG 59.89 55.0 0.0 0.0 0.0 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1953 4513 1.01613 CAGATGCAACGTCGCTCCTT 61.016 55.0 0.0 0.0 0.0 3.36 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
50 51 2.488153 CGAAGGAAACCAATCAAGTCCC 59.512 50.000 0.00 0.00 0.00 4.46
54 56 2.626266 GGAAACCAATCAAGTCCCGTTT 59.374 45.455 0.00 0.00 0.00 3.60
56 58 3.726291 AACCAATCAAGTCCCGTTTTG 57.274 42.857 0.00 0.00 0.00 2.44
66 68 0.109723 TCCCGTTTTGTCTCCCCAAG 59.890 55.000 0.00 0.00 0.00 3.61
67 69 0.893727 CCCGTTTTGTCTCCCCAAGG 60.894 60.000 0.00 0.00 0.00 3.61
68 70 0.893727 CCGTTTTGTCTCCCCAAGGG 60.894 60.000 0.00 0.00 46.11 3.95
80 82 4.720273 TCTCCCCAAGGGTACTTCTAATTC 59.280 45.833 4.11 0.00 44.74 2.17
194 220 5.163754 GGTCAAATATGGCAGTGTAGTGAAC 60.164 44.000 0.00 0.00 30.82 3.18
251 289 1.589803 ACTTCGGGTCAAAGGAAACG 58.410 50.000 0.00 0.00 0.00 3.60
264 302 0.248289 GGAAACGAATGAGGTCCCGA 59.752 55.000 0.00 0.00 0.00 5.14
269 309 3.899052 ACGAATGAGGTCCCGATTTTA 57.101 42.857 0.00 0.00 0.00 1.52
491 873 3.118038 GCAAGATGTATACCAACCCTCCA 60.118 47.826 0.00 0.00 0.00 3.86
578 961 3.282021 TGCCTGGTAATTGATTCAGCTC 58.718 45.455 0.00 0.00 0.00 4.09
922 2865 6.418819 TCGAGCTGTGTTAGTTAGTTACAAAC 59.581 38.462 0.00 0.00 0.00 2.93
1235 3596 2.279741 GAGACACACACACACACACAT 58.720 47.619 0.00 0.00 0.00 3.21
1242 3621 5.157067 CACACACACACACACATTTTGTTA 58.843 37.500 0.00 0.00 35.67 2.41
1284 3705 2.139118 GAGTTTTGCTCTGCTCGTCTT 58.861 47.619 0.00 0.00 40.98 3.01
1285 3706 2.139118 AGTTTTGCTCTGCTCGTCTTC 58.861 47.619 0.00 0.00 0.00 2.87
1412 3933 1.972075 GGACTGATTCCCCTAGTAGGC 59.028 57.143 11.08 0.00 38.70 3.93
1413 3934 2.426561 GGACTGATTCCCCTAGTAGGCT 60.427 54.545 11.08 0.00 38.70 4.58
1414 3935 3.181420 GGACTGATTCCCCTAGTAGGCTA 60.181 52.174 11.08 0.00 38.70 3.93
1415 3936 4.083565 GACTGATTCCCCTAGTAGGCTAG 58.916 52.174 11.08 1.90 43.26 3.42
1416 3937 3.467863 ACTGATTCCCCTAGTAGGCTAGT 59.532 47.826 11.08 7.12 42.35 2.57
1417 3938 4.668812 ACTGATTCCCCTAGTAGGCTAGTA 59.331 45.833 11.08 8.72 42.35 1.82
1467 3996 6.644347 TCTGTTCATTCTTCCCTTCTATGAC 58.356 40.000 0.00 0.00 0.00 3.06
1507 4056 7.275888 TGACTGATATAATTGGATGTTTGGC 57.724 36.000 0.00 0.00 0.00 4.52
1589 4138 3.903616 CTGCCTCTGCTGCTGCTGT 62.904 63.158 17.00 0.00 40.48 4.40
1635 4189 1.144057 CGGATGGACGGAGAAAGGG 59.856 63.158 0.00 0.00 0.00 3.95
1639 4193 1.497309 ATGGACGGAGAAAGGGGCAA 61.497 55.000 0.00 0.00 0.00 4.52
1781 4340 2.192175 GCCCAATCTACCCACCCG 59.808 66.667 0.00 0.00 0.00 5.28
1782 4341 2.372074 GCCCAATCTACCCACCCGA 61.372 63.158 0.00 0.00 0.00 5.14
1783 4342 1.705997 GCCCAATCTACCCACCCGAT 61.706 60.000 0.00 0.00 0.00 4.18
1784 4343 0.396811 CCCAATCTACCCACCCGATC 59.603 60.000 0.00 0.00 0.00 3.69
1924 4484 2.158355 TCTACAGGTGTAGGGGATAGGC 60.158 54.545 15.54 0.00 46.01 3.93
1943 4503 1.946984 CCCAGTGGTAGAAGGTGGTA 58.053 55.000 8.74 0.00 0.00 3.25
1953 4513 1.822990 AGAAGGTGGTATTCGCGAAGA 59.177 47.619 27.20 20.64 0.00 2.87
1988 4548 3.706698 CATCTGATACGTCGACAATGGT 58.293 45.455 17.16 7.71 0.00 3.55
2038 4598 3.663176 CTGCTGGGCGTGTGTTGG 61.663 66.667 0.00 0.00 0.00 3.77
2059 4619 3.356639 GACGAGCGCAGGATGGTGA 62.357 63.158 11.47 0.00 35.86 4.02
2081 4641 3.986006 GTCTGGCGTCGTGGTGGA 61.986 66.667 0.00 0.00 0.00 4.02
2148 4708 0.743097 GAAGATGGATTGGTGGCAGC 59.257 55.000 10.30 10.30 0.00 5.25
2181 4742 3.849951 CATACCCGGCAGGCGTCT 61.850 66.667 16.17 1.84 40.58 4.18
2200 4761 4.373116 GGTTGAGGAGTGCGCCGA 62.373 66.667 4.18 0.00 0.00 5.54
2253 4815 3.519510 CAGGATGGGAACTCAGGTCTTAA 59.480 47.826 0.00 0.00 0.00 1.85
2291 4853 3.369157 GCGAGGTCTGTTTGGTATTAGGT 60.369 47.826 0.00 0.00 0.00 3.08
2328 4890 6.266103 GCATCCCTTCATCAAATGAATAGGAA 59.734 38.462 18.15 0.00 46.16 3.36
2448 5010 1.304134 GATGCAAAGACCGGGGGTT 60.304 57.895 6.32 0.00 35.25 4.11
2485 5047 2.270352 AAAACCGAAGCACCATCAGA 57.730 45.000 0.00 0.00 0.00 3.27
2486 5048 2.496899 AAACCGAAGCACCATCAGAT 57.503 45.000 0.00 0.00 0.00 2.90
2487 5049 1.742761 AACCGAAGCACCATCAGATG 58.257 50.000 3.04 3.04 0.00 2.90
2488 5050 0.904649 ACCGAAGCACCATCAGATGA 59.095 50.000 12.41 0.00 0.00 2.92
2489 5051 1.278985 ACCGAAGCACCATCAGATGAA 59.721 47.619 12.41 0.00 0.00 2.57
2490 5052 1.667724 CCGAAGCACCATCAGATGAAC 59.332 52.381 12.41 0.85 0.00 3.18
2491 5053 2.349590 CGAAGCACCATCAGATGAACA 58.650 47.619 12.41 0.00 0.00 3.18
2492 5054 2.743664 CGAAGCACCATCAGATGAACAA 59.256 45.455 12.41 0.00 0.00 2.83
2493 5055 3.376234 CGAAGCACCATCAGATGAACAAT 59.624 43.478 12.41 0.00 0.00 2.71
2494 5056 4.142534 CGAAGCACCATCAGATGAACAATT 60.143 41.667 12.41 0.31 0.00 2.32
2495 5057 4.978083 AGCACCATCAGATGAACAATTC 57.022 40.909 12.41 0.00 0.00 2.17
2496 5058 3.698040 AGCACCATCAGATGAACAATTCC 59.302 43.478 12.41 0.00 0.00 3.01
2497 5059 3.698040 GCACCATCAGATGAACAATTCCT 59.302 43.478 12.41 0.00 0.00 3.36
2498 5060 4.883585 GCACCATCAGATGAACAATTCCTA 59.116 41.667 12.41 0.00 0.00 2.94
2499 5061 5.357878 GCACCATCAGATGAACAATTCCTAA 59.642 40.000 12.41 0.00 0.00 2.69
2500 5062 6.678900 GCACCATCAGATGAACAATTCCTAAC 60.679 42.308 12.41 0.00 0.00 2.34
2501 5063 6.375174 CACCATCAGATGAACAATTCCTAACA 59.625 38.462 12.41 0.00 0.00 2.41
2502 5064 7.067859 CACCATCAGATGAACAATTCCTAACAT 59.932 37.037 12.41 0.00 0.00 2.71
2503 5065 8.274322 ACCATCAGATGAACAATTCCTAACATA 58.726 33.333 12.41 0.00 0.00 2.29
2504 5066 9.293404 CCATCAGATGAACAATTCCTAACATAT 57.707 33.333 12.41 0.00 0.00 1.78
2525 5087 8.950210 ACATATACATATAGTTGCATTCCAAGC 58.050 33.333 0.00 0.00 33.21 4.01
2526 5088 6.824305 ATACATATAGTTGCATTCCAAGCC 57.176 37.500 0.00 0.00 33.21 4.35
2527 5089 4.796606 ACATATAGTTGCATTCCAAGCCT 58.203 39.130 0.00 0.00 33.21 4.58
2528 5090 4.823989 ACATATAGTTGCATTCCAAGCCTC 59.176 41.667 0.00 0.00 33.21 4.70
2529 5091 3.659183 ATAGTTGCATTCCAAGCCTCT 57.341 42.857 0.00 0.00 33.21 3.69
2530 5092 1.831580 AGTTGCATTCCAAGCCTCTC 58.168 50.000 0.00 0.00 33.21 3.20
2531 5093 0.449388 GTTGCATTCCAAGCCTCTCG 59.551 55.000 0.00 0.00 33.21 4.04
2532 5094 0.677731 TTGCATTCCAAGCCTCTCGG 60.678 55.000 0.00 0.00 0.00 4.63
2533 5095 1.821332 GCATTCCAAGCCTCTCGGG 60.821 63.158 0.00 0.00 38.36 5.14
2534 5096 1.604378 CATTCCAAGCCTCTCGGGT 59.396 57.895 0.00 0.00 44.55 5.28
2535 5097 0.462759 CATTCCAAGCCTCTCGGGTC 60.463 60.000 0.00 0.00 40.98 4.46
2536 5098 1.627297 ATTCCAAGCCTCTCGGGTCC 61.627 60.000 0.00 0.00 40.98 4.46
2537 5099 3.003173 CCAAGCCTCTCGGGTCCA 61.003 66.667 0.00 0.00 40.98 4.02
2538 5100 2.581354 CAAGCCTCTCGGGTCCAG 59.419 66.667 0.00 0.00 40.98 3.86
2539 5101 2.120718 AAGCCTCTCGGGTCCAGT 59.879 61.111 0.00 0.00 40.98 4.00
2540 5102 1.536662 AAGCCTCTCGGGTCCAGTT 60.537 57.895 0.00 0.00 40.98 3.16
2541 5103 1.545706 AAGCCTCTCGGGTCCAGTTC 61.546 60.000 0.00 0.00 40.98 3.01
2542 5104 3.020237 GCCTCTCGGGTCCAGTTCC 62.020 68.421 0.00 0.00 37.43 3.62
2543 5105 1.305381 CCTCTCGGGTCCAGTTCCT 60.305 63.158 0.00 0.00 0.00 3.36
2544 5106 1.324005 CCTCTCGGGTCCAGTTCCTC 61.324 65.000 0.00 0.00 0.00 3.71
2545 5107 0.323908 CTCTCGGGTCCAGTTCCTCT 60.324 60.000 0.00 0.00 0.00 3.69
2546 5108 0.997363 TCTCGGGTCCAGTTCCTCTA 59.003 55.000 0.00 0.00 0.00 2.43
2547 5109 1.064611 TCTCGGGTCCAGTTCCTCTAG 60.065 57.143 0.00 0.00 0.00 2.43
2548 5110 0.702902 TCGGGTCCAGTTCCTCTAGT 59.297 55.000 0.00 0.00 0.00 2.57
2549 5111 1.918262 TCGGGTCCAGTTCCTCTAGTA 59.082 52.381 0.00 0.00 0.00 1.82
2550 5112 2.309755 TCGGGTCCAGTTCCTCTAGTAA 59.690 50.000 0.00 0.00 0.00 2.24
2551 5113 3.053095 TCGGGTCCAGTTCCTCTAGTAAT 60.053 47.826 0.00 0.00 0.00 1.89
2552 5114 3.068307 CGGGTCCAGTTCCTCTAGTAATG 59.932 52.174 0.00 0.00 0.00 1.90
2553 5115 4.287552 GGGTCCAGTTCCTCTAGTAATGA 58.712 47.826 0.00 0.00 0.00 2.57
2554 5116 4.902448 GGGTCCAGTTCCTCTAGTAATGAT 59.098 45.833 0.00 0.00 0.00 2.45
2555 5117 5.221541 GGGTCCAGTTCCTCTAGTAATGATG 60.222 48.000 0.00 0.00 0.00 3.07
2556 5118 5.598830 GGTCCAGTTCCTCTAGTAATGATGA 59.401 44.000 0.00 0.00 0.00 2.92
2557 5119 6.268847 GGTCCAGTTCCTCTAGTAATGATGAT 59.731 42.308 0.00 0.00 0.00 2.45
2558 5120 7.151308 GTCCAGTTCCTCTAGTAATGATGATG 58.849 42.308 0.00 0.00 0.00 3.07
2559 5121 7.014711 GTCCAGTTCCTCTAGTAATGATGATGA 59.985 40.741 0.00 0.00 0.00 2.92
2560 5122 7.232330 TCCAGTTCCTCTAGTAATGATGATGAG 59.768 40.741 0.00 0.00 0.00 2.90
2561 5123 7.232330 CCAGTTCCTCTAGTAATGATGATGAGA 59.768 40.741 0.00 0.00 0.00 3.27
2562 5124 8.637099 CAGTTCCTCTAGTAATGATGATGAGAA 58.363 37.037 0.00 0.00 0.00 2.87
2563 5125 8.637986 AGTTCCTCTAGTAATGATGATGAGAAC 58.362 37.037 0.00 0.00 0.00 3.01
2564 5126 8.417106 GTTCCTCTAGTAATGATGATGAGAACA 58.583 37.037 0.00 0.00 0.00 3.18
2565 5127 8.718158 TCCTCTAGTAATGATGATGAGAACAT 57.282 34.615 0.00 0.00 39.67 2.71
2566 5128 9.813826 TCCTCTAGTAATGATGATGAGAACATA 57.186 33.333 0.00 0.00 36.82 2.29
2567 5129 9.853555 CCTCTAGTAATGATGATGAGAACATAC 57.146 37.037 0.00 0.00 36.82 2.39
2577 5139 9.835389 TGATGATGAGAACATACATACATTCAA 57.165 29.630 0.00 0.00 36.82 2.69
2591 5153 8.299262 ACATACATTCAATAAGTAGTGATCGC 57.701 34.615 0.00 0.00 29.81 4.58
2592 5154 5.890110 ACATTCAATAAGTAGTGATCGCG 57.110 39.130 0.00 0.00 29.81 5.87
2593 5155 5.348986 ACATTCAATAAGTAGTGATCGCGT 58.651 37.500 5.77 0.00 29.81 6.01
2594 5156 5.810587 ACATTCAATAAGTAGTGATCGCGTT 59.189 36.000 5.77 0.00 29.81 4.84
2595 5157 6.312918 ACATTCAATAAGTAGTGATCGCGTTT 59.687 34.615 5.77 0.00 29.81 3.60
2596 5158 6.715344 TTCAATAAGTAGTGATCGCGTTTT 57.285 33.333 5.77 0.00 29.81 2.43
2597 5159 7.815398 TTCAATAAGTAGTGATCGCGTTTTA 57.185 32.000 5.77 1.79 29.81 1.52
2598 5160 7.445900 TCAATAAGTAGTGATCGCGTTTTAG 57.554 36.000 5.77 0.00 0.00 1.85
2599 5161 6.474427 TCAATAAGTAGTGATCGCGTTTTAGG 59.526 38.462 5.77 0.00 0.00 2.69
2600 5162 2.537401 AGTAGTGATCGCGTTTTAGGC 58.463 47.619 5.77 0.00 0.00 3.93
2601 5163 2.165845 AGTAGTGATCGCGTTTTAGGCT 59.834 45.455 5.77 0.00 0.00 4.58
2602 5164 1.359848 AGTGATCGCGTTTTAGGCTG 58.640 50.000 5.77 0.00 0.00 4.85
2603 5165 0.373716 GTGATCGCGTTTTAGGCTGG 59.626 55.000 5.77 0.00 0.00 4.85
2604 5166 0.036765 TGATCGCGTTTTAGGCTGGT 60.037 50.000 5.77 0.00 0.00 4.00
2605 5167 1.084289 GATCGCGTTTTAGGCTGGTT 58.916 50.000 5.77 0.00 0.00 3.67
2606 5168 0.802494 ATCGCGTTTTAGGCTGGTTG 59.198 50.000 5.77 0.00 0.00 3.77
2607 5169 0.533308 TCGCGTTTTAGGCTGGTTGT 60.533 50.000 5.77 0.00 0.00 3.32
2608 5170 1.149987 CGCGTTTTAGGCTGGTTGTA 58.850 50.000 0.00 0.00 0.00 2.41
2609 5171 1.532007 CGCGTTTTAGGCTGGTTGTAA 59.468 47.619 0.00 0.00 0.00 2.41
2610 5172 2.160813 CGCGTTTTAGGCTGGTTGTAAT 59.839 45.455 0.00 0.00 0.00 1.89
2611 5173 3.498082 GCGTTTTAGGCTGGTTGTAATG 58.502 45.455 0.00 0.00 0.00 1.90
2612 5174 3.672241 GCGTTTTAGGCTGGTTGTAATGG 60.672 47.826 0.00 0.00 0.00 3.16
2613 5175 3.754323 CGTTTTAGGCTGGTTGTAATGGA 59.246 43.478 0.00 0.00 0.00 3.41
2614 5176 4.142687 CGTTTTAGGCTGGTTGTAATGGAG 60.143 45.833 0.00 0.00 0.00 3.86
2615 5177 4.919774 TTTAGGCTGGTTGTAATGGAGA 57.080 40.909 0.00 0.00 0.00 3.71
2616 5178 4.487714 TTAGGCTGGTTGTAATGGAGAG 57.512 45.455 0.00 0.00 0.00 3.20
2617 5179 2.269940 AGGCTGGTTGTAATGGAGAGT 58.730 47.619 0.00 0.00 0.00 3.24
2618 5180 3.450904 AGGCTGGTTGTAATGGAGAGTA 58.549 45.455 0.00 0.00 0.00 2.59
2619 5181 4.040755 AGGCTGGTTGTAATGGAGAGTAT 58.959 43.478 0.00 0.00 0.00 2.12
2620 5182 4.101741 AGGCTGGTTGTAATGGAGAGTATC 59.898 45.833 0.00 0.00 0.00 2.24
2621 5183 4.141711 GGCTGGTTGTAATGGAGAGTATCA 60.142 45.833 0.00 0.00 37.82 2.15
2622 5184 5.455326 GGCTGGTTGTAATGGAGAGTATCAT 60.455 44.000 0.00 0.00 37.82 2.45
2623 5185 6.239600 GGCTGGTTGTAATGGAGAGTATCATA 60.240 42.308 0.00 0.00 37.82 2.15
2624 5186 7.390027 GCTGGTTGTAATGGAGAGTATCATAT 58.610 38.462 0.00 0.00 37.82 1.78
2625 5187 8.531982 GCTGGTTGTAATGGAGAGTATCATATA 58.468 37.037 0.00 0.00 37.82 0.86
2656 5218 7.288810 TCATGCATATGATACTAGTGTGTGA 57.711 36.000 6.97 0.00 38.37 3.58
2657 5219 7.899973 TCATGCATATGATACTAGTGTGTGAT 58.100 34.615 6.97 0.00 38.37 3.06
2658 5220 9.023962 TCATGCATATGATACTAGTGTGTGATA 57.976 33.333 6.97 0.00 38.37 2.15
2659 5221 9.080915 CATGCATATGATACTAGTGTGTGATAC 57.919 37.037 6.97 0.00 36.36 2.24
2660 5222 8.409358 TGCATATGATACTAGTGTGTGATACT 57.591 34.615 6.97 0.00 0.00 2.12
2661 5223 9.515226 TGCATATGATACTAGTGTGTGATACTA 57.485 33.333 6.97 0.00 0.00 1.82
2662 5224 9.776158 GCATATGATACTAGTGTGTGATACTAC 57.224 37.037 6.97 0.00 0.00 2.73
2665 5227 8.624367 ATGATACTAGTGTGTGATACTACCTC 57.376 38.462 5.39 0.00 0.00 3.85
2666 5228 6.996879 TGATACTAGTGTGTGATACTACCTCC 59.003 42.308 5.39 0.00 0.00 4.30
2667 5229 4.197750 ACTAGTGTGTGATACTACCTCCG 58.802 47.826 0.00 0.00 0.00 4.63
2668 5230 3.083122 AGTGTGTGATACTACCTCCGT 57.917 47.619 0.00 0.00 0.00 4.69
2669 5231 4.226427 AGTGTGTGATACTACCTCCGTA 57.774 45.455 0.00 0.00 0.00 4.02
2670 5232 4.592942 AGTGTGTGATACTACCTCCGTAA 58.407 43.478 0.00 0.00 0.00 3.18
2671 5233 5.198965 AGTGTGTGATACTACCTCCGTAAT 58.801 41.667 0.00 0.00 0.00 1.89
2672 5234 5.067413 AGTGTGTGATACTACCTCCGTAATG 59.933 44.000 0.00 0.00 0.00 1.90
2673 5235 4.202080 TGTGTGATACTACCTCCGTAATGC 60.202 45.833 0.00 0.00 0.00 3.56
2674 5236 3.955551 TGTGATACTACCTCCGTAATGCA 59.044 43.478 0.00 0.00 0.00 3.96
2675 5237 4.587262 TGTGATACTACCTCCGTAATGCAT 59.413 41.667 0.00 0.00 0.00 3.96
2676 5238 5.771165 TGTGATACTACCTCCGTAATGCATA 59.229 40.000 0.00 0.00 0.00 3.14
2677 5239 6.072119 TGTGATACTACCTCCGTAATGCATAG 60.072 42.308 0.00 0.00 0.00 2.23
2678 5240 6.008331 TGATACTACCTCCGTAATGCATAGT 58.992 40.000 0.00 0.00 0.00 2.12
2679 5241 7.120285 GTGATACTACCTCCGTAATGCATAGTA 59.880 40.741 0.00 0.81 0.00 1.82
2680 5242 7.832685 TGATACTACCTCCGTAATGCATAGTAT 59.167 37.037 11.08 11.08 37.18 2.12
2681 5243 6.512342 ACTACCTCCGTAATGCATAGTATC 57.488 41.667 0.00 0.00 0.00 2.24
2682 5244 6.008331 ACTACCTCCGTAATGCATAGTATCA 58.992 40.000 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 9.944941 CGCGAAGATTTCTAAATTATCATCTAC 57.055 33.333 0.00 0.00 0.00 2.59
3 4 8.594881 ACGCGAAGATTTCTAAATTATCATCT 57.405 30.769 15.93 0.00 0.00 2.90
4 5 7.680439 CGACGCGAAGATTTCTAAATTATCATC 59.320 37.037 15.93 0.00 0.00 2.92
5 6 7.381408 TCGACGCGAAGATTTCTAAATTATCAT 59.619 33.333 15.93 0.00 31.06 2.45
6 7 6.693978 TCGACGCGAAGATTTCTAAATTATCA 59.306 34.615 15.93 0.00 31.06 2.15
8 9 7.459394 TTCGACGCGAAGATTTCTAAATTAT 57.541 32.000 15.93 0.00 41.05 1.28
26 27 2.806244 ACTTGATTGGTTTCCTTCGACG 59.194 45.455 0.00 0.00 0.00 5.12
66 68 4.398358 GCCCAACAAGAATTAGAAGTACCC 59.602 45.833 0.00 0.00 0.00 3.69
67 69 4.094442 CGCCCAACAAGAATTAGAAGTACC 59.906 45.833 0.00 0.00 0.00 3.34
68 70 4.694037 ACGCCCAACAAGAATTAGAAGTAC 59.306 41.667 0.00 0.00 0.00 2.73
80 82 0.670546 ATCTGTCGACGCCCAACAAG 60.671 55.000 11.62 0.00 0.00 3.16
111 135 5.582950 ATGCCCAACATTAATAGGCTAGA 57.417 39.130 15.15 0.00 44.19 2.43
134 158 7.871973 CCAAATTAAGATGTCCAACATTTGTCA 59.128 33.333 0.00 0.00 39.27 3.58
194 220 5.068198 CCTAGTGTGATTCCCATTGAATTGG 59.932 44.000 0.00 0.00 43.81 3.16
242 280 2.791655 GGGACCTCATTCGTTTCCTTT 58.208 47.619 0.00 0.00 0.00 3.11
251 289 4.998033 GGAGATAAAATCGGGACCTCATTC 59.002 45.833 0.00 0.00 0.00 2.67
491 873 2.436109 GACATGCCCTGTGGTGGT 59.564 61.111 0.00 0.00 38.54 4.16
578 961 4.336433 TGTCTTGCTTCAGAAAAAGTGAGG 59.664 41.667 5.54 0.00 0.00 3.86
1235 3596 6.659242 GGGAGAATGAGAGTGGATTAACAAAA 59.341 38.462 0.00 0.00 0.00 2.44
1242 3621 3.710677 CAGAGGGAGAATGAGAGTGGATT 59.289 47.826 0.00 0.00 0.00 3.01
1284 3705 1.654023 ATCGACCGATGCACACGAGA 61.654 55.000 15.15 11.57 36.49 4.04
1285 3706 1.226688 ATCGACCGATGCACACGAG 60.227 57.895 15.15 8.70 36.49 4.18
1467 3996 5.469373 TCAGTCAAACAATAATAGCAGCG 57.531 39.130 0.00 0.00 0.00 5.18
1538 4087 1.733041 GCACGTCTCGTAGCAGCAA 60.733 57.895 0.00 0.00 38.32 3.91
1635 4189 3.255379 GGTCGATCTCGCGTTGCC 61.255 66.667 5.77 0.00 39.60 4.52
1924 4484 1.946984 TACCACCTTCTACCACTGGG 58.053 55.000 0.00 0.00 41.29 4.45
1953 4513 1.016130 CAGATGCAACGTCGCTCCTT 61.016 55.000 0.00 0.00 0.00 3.36
1988 4548 4.100084 CCATGCCGCTGAGACCCA 62.100 66.667 0.00 0.00 0.00 4.51
2038 4598 2.887568 CATCCTGCGCTCGTCCAC 60.888 66.667 9.73 0.00 0.00 4.02
2059 4619 2.657296 CACGACGCCAGACAACGT 60.657 61.111 0.00 0.00 46.91 3.99
2081 4641 2.408241 GGTCTAGCTGCCGTCGACT 61.408 63.158 14.70 0.00 0.00 4.18
2161 4721 4.609018 CGCCTGCCGGGTATGAGG 62.609 72.222 2.18 0.00 37.43 3.86
2181 4742 2.281484 GGCGCACTCCTCAACCAA 60.281 61.111 10.83 0.00 0.00 3.67
2232 4794 2.350863 AAGACCTGAGTTCCCATCCT 57.649 50.000 0.00 0.00 0.00 3.24
2253 4815 1.812571 CTCGCAGCCAAACCTAACATT 59.187 47.619 0.00 0.00 0.00 2.71
2291 4853 2.783379 AGGGATGCTGATAGTCTGGA 57.217 50.000 0.00 0.00 0.00 3.86
2439 5001 1.365894 AAAGGAGGAAAACCCCCGGT 61.366 55.000 0.00 0.00 37.65 5.28
2471 5033 2.349590 TGTTCATCTGATGGTGCTTCG 58.650 47.619 17.06 0.00 0.00 3.79
2472 5034 4.978083 ATTGTTCATCTGATGGTGCTTC 57.022 40.909 17.06 3.59 0.00 3.86
2473 5035 4.159135 GGAATTGTTCATCTGATGGTGCTT 59.841 41.667 17.06 5.66 0.00 3.91
2474 5036 3.698040 GGAATTGTTCATCTGATGGTGCT 59.302 43.478 17.06 0.00 0.00 4.40
2475 5037 3.698040 AGGAATTGTTCATCTGATGGTGC 59.302 43.478 17.06 8.50 0.00 5.01
2476 5038 6.375174 TGTTAGGAATTGTTCATCTGATGGTG 59.625 38.462 17.06 0.00 0.00 4.17
2477 5039 6.484288 TGTTAGGAATTGTTCATCTGATGGT 58.516 36.000 17.06 0.00 0.00 3.55
2478 5040 7.578310 ATGTTAGGAATTGTTCATCTGATGG 57.422 36.000 17.06 0.00 0.00 3.51
2499 5061 8.950210 GCTTGGAATGCAACTATATGTATATGT 58.050 33.333 0.00 0.00 36.91 2.29
2500 5062 8.400947 GGCTTGGAATGCAACTATATGTATATG 58.599 37.037 0.00 0.00 39.01 1.78
2501 5063 8.331740 AGGCTTGGAATGCAACTATATGTATAT 58.668 33.333 0.00 0.00 39.01 0.86
2502 5064 7.689299 AGGCTTGGAATGCAACTATATGTATA 58.311 34.615 0.00 0.00 39.01 1.47
2503 5065 6.546484 AGGCTTGGAATGCAACTATATGTAT 58.454 36.000 0.00 0.00 39.01 2.29
2504 5066 5.940617 AGGCTTGGAATGCAACTATATGTA 58.059 37.500 0.00 0.00 39.01 2.29
2505 5067 4.796606 AGGCTTGGAATGCAACTATATGT 58.203 39.130 0.00 0.00 39.01 2.29
2506 5068 5.068636 AGAGGCTTGGAATGCAACTATATG 58.931 41.667 0.00 0.00 39.01 1.78
2507 5069 5.312079 GAGAGGCTTGGAATGCAACTATAT 58.688 41.667 0.00 0.00 39.01 0.86
2508 5070 4.708177 GAGAGGCTTGGAATGCAACTATA 58.292 43.478 0.00 0.00 39.01 1.31
2509 5071 3.549794 GAGAGGCTTGGAATGCAACTAT 58.450 45.455 0.00 0.00 39.01 2.12
2510 5072 2.677902 CGAGAGGCTTGGAATGCAACTA 60.678 50.000 0.00 0.00 39.01 2.24
2511 5073 1.831580 GAGAGGCTTGGAATGCAACT 58.168 50.000 0.00 0.00 39.01 3.16
2512 5074 0.449388 CGAGAGGCTTGGAATGCAAC 59.551 55.000 0.00 0.00 39.01 4.17
2513 5075 2.858622 CGAGAGGCTTGGAATGCAA 58.141 52.632 0.00 0.00 39.01 4.08
2514 5076 4.623814 CGAGAGGCTTGGAATGCA 57.376 55.556 0.00 0.00 39.01 3.96
2526 5088 0.323908 AGAGGAACTGGACCCGAGAG 60.324 60.000 0.00 0.00 41.55 3.20
2527 5089 0.997363 TAGAGGAACTGGACCCGAGA 59.003 55.000 0.00 0.00 41.55 4.04
2528 5090 1.341187 ACTAGAGGAACTGGACCCGAG 60.341 57.143 0.00 0.00 41.55 4.63
2529 5091 0.702902 ACTAGAGGAACTGGACCCGA 59.297 55.000 0.00 0.00 41.55 5.14
2530 5092 2.431954 TACTAGAGGAACTGGACCCG 57.568 55.000 0.00 0.00 41.55 5.28
2531 5093 4.287552 TCATTACTAGAGGAACTGGACCC 58.712 47.826 0.00 0.00 41.55 4.46
2532 5094 5.598830 TCATCATTACTAGAGGAACTGGACC 59.401 44.000 0.00 0.00 41.55 4.46
2533 5095 6.716934 TCATCATTACTAGAGGAACTGGAC 57.283 41.667 0.00 0.00 41.55 4.02
2534 5096 7.069344 TCATCATCATTACTAGAGGAACTGGA 58.931 38.462 0.00 0.00 41.55 3.86
2535 5097 7.232330 TCTCATCATCATTACTAGAGGAACTGG 59.768 40.741 0.00 0.00 41.55 4.00
2536 5098 8.175925 TCTCATCATCATTACTAGAGGAACTG 57.824 38.462 0.00 0.00 41.55 3.16
2538 5100 8.417106 TGTTCTCATCATCATTACTAGAGGAAC 58.583 37.037 0.00 0.00 28.94 3.62
2539 5101 8.539117 TGTTCTCATCATCATTACTAGAGGAA 57.461 34.615 0.00 0.00 28.94 3.36
2540 5102 8.718158 ATGTTCTCATCATCATTACTAGAGGA 57.282 34.615 0.00 0.00 0.00 3.71
2541 5103 9.853555 GTATGTTCTCATCATCATTACTAGAGG 57.146 37.037 0.00 0.00 35.70 3.69
2551 5113 9.835389 TTGAATGTATGTATGTTCTCATCATCA 57.165 29.630 0.00 0.00 35.70 3.07
2565 5127 9.406828 GCGATCACTACTTATTGAATGTATGTA 57.593 33.333 0.00 0.00 0.00 2.29
2566 5128 7.114953 CGCGATCACTACTTATTGAATGTATGT 59.885 37.037 0.00 0.00 0.00 2.29
2567 5129 7.114953 ACGCGATCACTACTTATTGAATGTATG 59.885 37.037 15.93 0.00 0.00 2.39
2568 5130 7.145985 ACGCGATCACTACTTATTGAATGTAT 58.854 34.615 15.93 0.00 0.00 2.29
2569 5131 6.500910 ACGCGATCACTACTTATTGAATGTA 58.499 36.000 15.93 0.00 0.00 2.29
2570 5132 5.348986 ACGCGATCACTACTTATTGAATGT 58.651 37.500 15.93 0.00 0.00 2.71
2571 5133 5.890110 ACGCGATCACTACTTATTGAATG 57.110 39.130 15.93 0.00 0.00 2.67
2572 5134 6.903883 AAACGCGATCACTACTTATTGAAT 57.096 33.333 15.93 0.00 0.00 2.57
2573 5135 6.715344 AAAACGCGATCACTACTTATTGAA 57.285 33.333 15.93 0.00 0.00 2.69
2574 5136 6.474427 CCTAAAACGCGATCACTACTTATTGA 59.526 38.462 15.93 0.00 0.00 2.57
2575 5137 6.637365 CCTAAAACGCGATCACTACTTATTG 58.363 40.000 15.93 0.00 0.00 1.90
2576 5138 5.233689 GCCTAAAACGCGATCACTACTTATT 59.766 40.000 15.93 0.00 0.00 1.40
2577 5139 4.743644 GCCTAAAACGCGATCACTACTTAT 59.256 41.667 15.93 0.00 0.00 1.73
2578 5140 4.107622 GCCTAAAACGCGATCACTACTTA 58.892 43.478 15.93 0.00 0.00 2.24
2579 5141 2.928116 GCCTAAAACGCGATCACTACTT 59.072 45.455 15.93 0.00 0.00 2.24
2580 5142 2.165845 AGCCTAAAACGCGATCACTACT 59.834 45.455 15.93 0.00 0.00 2.57
2581 5143 2.281762 CAGCCTAAAACGCGATCACTAC 59.718 50.000 15.93 0.00 0.00 2.73
2582 5144 2.536365 CAGCCTAAAACGCGATCACTA 58.464 47.619 15.93 0.00 0.00 2.74
2583 5145 1.359848 CAGCCTAAAACGCGATCACT 58.640 50.000 15.93 0.00 0.00 3.41
2584 5146 0.373716 CCAGCCTAAAACGCGATCAC 59.626 55.000 15.93 0.00 0.00 3.06
2585 5147 0.036765 ACCAGCCTAAAACGCGATCA 60.037 50.000 15.93 0.00 0.00 2.92
2586 5148 1.084289 AACCAGCCTAAAACGCGATC 58.916 50.000 15.93 0.00 0.00 3.69
2587 5149 0.802494 CAACCAGCCTAAAACGCGAT 59.198 50.000 15.93 0.00 0.00 4.58
2588 5150 0.533308 ACAACCAGCCTAAAACGCGA 60.533 50.000 15.93 0.00 0.00 5.87
2589 5151 1.149987 TACAACCAGCCTAAAACGCG 58.850 50.000 3.53 3.53 0.00 6.01
2590 5152 3.498082 CATTACAACCAGCCTAAAACGC 58.502 45.455 0.00 0.00 0.00 4.84
2591 5153 3.754323 TCCATTACAACCAGCCTAAAACG 59.246 43.478 0.00 0.00 0.00 3.60
2592 5154 5.007682 TCTCCATTACAACCAGCCTAAAAC 58.992 41.667 0.00 0.00 0.00 2.43
2593 5155 5.222048 ACTCTCCATTACAACCAGCCTAAAA 60.222 40.000 0.00 0.00 0.00 1.52
2594 5156 4.288626 ACTCTCCATTACAACCAGCCTAAA 59.711 41.667 0.00 0.00 0.00 1.85
2595 5157 3.844211 ACTCTCCATTACAACCAGCCTAA 59.156 43.478 0.00 0.00 0.00 2.69
2596 5158 3.450904 ACTCTCCATTACAACCAGCCTA 58.549 45.455 0.00 0.00 0.00 3.93
2597 5159 2.269940 ACTCTCCATTACAACCAGCCT 58.730 47.619 0.00 0.00 0.00 4.58
2598 5160 2.789409 ACTCTCCATTACAACCAGCC 57.211 50.000 0.00 0.00 0.00 4.85
2599 5161 5.023533 TGATACTCTCCATTACAACCAGC 57.976 43.478 0.00 0.00 0.00 4.85
2632 5194 7.288810 TCACACACTAGTATCATATGCATGA 57.711 36.000 10.16 0.00 45.15 3.07
2633 5195 9.080915 GTATCACACACTAGTATCATATGCATG 57.919 37.037 10.16 0.00 0.00 4.06
2634 5196 9.029368 AGTATCACACACTAGTATCATATGCAT 57.971 33.333 3.79 3.79 0.00 3.96
2635 5197 8.409358 AGTATCACACACTAGTATCATATGCA 57.591 34.615 0.00 0.00 0.00 3.96
2636 5198 9.776158 GTAGTATCACACACTAGTATCATATGC 57.224 37.037 0.00 0.00 0.00 3.14
2639 5201 9.722184 GAGGTAGTATCACACACTAGTATCATA 57.278 37.037 0.00 0.00 0.00 2.15
2640 5202 7.666388 GGAGGTAGTATCACACACTAGTATCAT 59.334 40.741 0.00 0.00 0.00 2.45
2641 5203 6.996879 GGAGGTAGTATCACACACTAGTATCA 59.003 42.308 0.00 0.00 0.00 2.15
2642 5204 6.147492 CGGAGGTAGTATCACACACTAGTATC 59.853 46.154 0.00 0.00 0.00 2.24
2643 5205 5.996513 CGGAGGTAGTATCACACACTAGTAT 59.003 44.000 0.00 0.00 0.00 2.12
2644 5206 5.104776 ACGGAGGTAGTATCACACACTAGTA 60.105 44.000 0.00 0.00 0.00 1.82
2645 5207 4.197750 CGGAGGTAGTATCACACACTAGT 58.802 47.826 0.00 0.00 0.00 2.57
2646 5208 4.197750 ACGGAGGTAGTATCACACACTAG 58.802 47.826 0.00 0.00 0.00 2.57
2647 5209 4.226427 ACGGAGGTAGTATCACACACTA 57.774 45.455 0.00 0.00 0.00 2.74
2648 5210 3.083122 ACGGAGGTAGTATCACACACT 57.917 47.619 0.00 0.00 0.00 3.55
2649 5211 4.970662 TTACGGAGGTAGTATCACACAC 57.029 45.455 0.00 0.00 0.00 3.82
2650 5212 4.202080 GCATTACGGAGGTAGTATCACACA 60.202 45.833 0.00 0.00 0.00 3.72
2651 5213 4.202080 TGCATTACGGAGGTAGTATCACAC 60.202 45.833 0.00 0.00 0.00 3.82
2652 5214 3.955551 TGCATTACGGAGGTAGTATCACA 59.044 43.478 0.00 0.00 0.00 3.58
2653 5215 4.579454 TGCATTACGGAGGTAGTATCAC 57.421 45.455 0.00 0.00 0.00 3.06
2654 5216 6.008331 ACTATGCATTACGGAGGTAGTATCA 58.992 40.000 3.54 0.00 0.00 2.15
2655 5217 6.512342 ACTATGCATTACGGAGGTAGTATC 57.488 41.667 3.54 0.00 0.00 2.24
2656 5218 7.832685 TGATACTATGCATTACGGAGGTAGTAT 59.167 37.037 3.54 8.56 36.89 2.12
2657 5219 7.170277 TGATACTATGCATTACGGAGGTAGTA 58.830 38.462 3.54 3.44 0.00 1.82
2658 5220 6.008331 TGATACTATGCATTACGGAGGTAGT 58.992 40.000 3.54 0.88 0.00 2.73
2659 5221 6.510879 TGATACTATGCATTACGGAGGTAG 57.489 41.667 3.54 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.