Multiple sequence alignment - TraesCS1D01G431200

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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 TraesCS1D01G431200 chr1D 100.000 4460 0 0 1 4460 481502947 481498488 0.000000e+00 8237.0
1 TraesCS1D01G431200 chr1D 83.551 1380 189 21 1290 2638 481453738 481452366 0.000000e+00 1256.0
2 TraesCS1D01G431200 chr1D 82.305 1362 193 29 1319 2638 481550717 481552072 0.000000e+00 1136.0
3 TraesCS1D01G431200 chr1D 95.387 607 17 1 3865 4460 481466073 481466679 0.000000e+00 955.0
4 TraesCS1D01G431200 chr1D 81.471 680 116 10 2422 3096 481488913 481488239 2.350000e-152 549.0
5 TraesCS1D01G431200 chr1D 84.106 453 49 13 2720 3153 481452363 481451915 2.480000e-112 416.0
6 TraesCS1D01G431200 chr1D 78.220 427 78 12 4034 4460 481475786 481476197 4.430000e-65 259.0
7 TraesCS1D01G431200 chr1D 78.220 427 78 12 4034 4460 481564467 481564056 4.430000e-65 259.0
8 TraesCS1D01G431200 chr1D 80.808 198 35 3 1703 1899 481489130 481488935 7.730000e-33 152.0
9 TraesCS1D01G431200 chr1D 87.288 118 14 1 1390 1507 481489247 481489131 2.800000e-27 134.0
10 TraesCS1D01G431200 chr1D 87.963 108 13 0 3496 3603 481465695 481465802 1.300000e-25 128.0
11 TraesCS1D01G431200 chr1A 92.237 3246 175 31 213 3415 578209362 578206151 0.000000e+00 4527.0
12 TraesCS1D01G431200 chr1A 93.299 985 39 6 3496 4460 578197656 578196679 0.000000e+00 1428.0
13 TraesCS1D01G431200 chr1A 82.366 1361 194 24 1319 2638 577985496 577986851 0.000000e+00 1142.0
14 TraesCS1D01G431200 chr1A 97.600 125 3 0 4059 4183 578052413 578052289 9.720000e-52 215.0
15 TraesCS1D01G431200 chr1A 90.244 123 11 1 5 126 578209884 578209762 4.620000e-35 159.0
16 TraesCS1D01G431200 chr1A 93.651 63 4 0 3436 3498 580149204 580149142 1.320000e-15 95.3
17 TraesCS1D01G431200 chr1B 96.119 1211 36 3 1207 2408 670142727 670143935 0.000000e+00 1965.0
18 TraesCS1D01G431200 chr1B 87.420 1256 105 22 5 1222 670141376 670142616 0.000000e+00 1395.0
19 TraesCS1D01G431200 chr1B 82.225 1384 196 36 1291 2638 670159068 670160437 0.000000e+00 1147.0
20 TraesCS1D01G431200 chr1B 81.791 1362 200 29 1319 2638 669922764 669924119 0.000000e+00 1098.0
21 TraesCS1D01G431200 chr1B 93.276 580 31 5 2401 2979 670149466 670150038 0.000000e+00 848.0
22 TraesCS1D01G431200 chr1B 87.595 661 60 11 3821 4460 670035130 670034471 0.000000e+00 747.0
23 TraesCS1D01G431200 chr1B 87.595 661 60 7 3821 4460 670166831 670167490 0.000000e+00 747.0
24 TraesCS1D01G431200 chr1B 79.167 432 65 21 4034 4460 670183901 670184312 4.390000e-70 276.0
25 TraesCS1D01G431200 chr1B 88.066 243 11 9 2978 3205 670150362 670150601 5.680000e-69 272.0
26 TraesCS1D01G431200 chr1B 75.702 605 103 34 3876 4460 670026165 670025585 3.420000e-66 263.0
27 TraesCS1D01G431200 chr2B 79.310 348 60 7 2268 2603 245130060 245130407 2.680000e-57 233.0
28 TraesCS1D01G431200 chr2B 81.818 209 36 2 2424 2631 245299413 245299620 1.650000e-39 174.0
29 TraesCS1D01G431200 chr2B 82.955 176 28 2 3228 3401 418951970 418952145 1.660000e-34 158.0
30 TraesCS1D01G431200 chr2B 89.474 76 4 3 3424 3496 170418334 170418260 4.750000e-15 93.5
31 TraesCS1D01G431200 chr7B 76.683 416 83 10 2235 2640 520417452 520417863 7.510000e-53 219.0
32 TraesCS1D01G431200 chr7B 83.000 200 27 5 3226 3422 15558422 15558617 1.650000e-39 174.0
33 TraesCS1D01G431200 chr3B 84.500 200 27 4 3228 3423 370151933 370152132 1.270000e-45 195.0
34 TraesCS1D01G431200 chr6D 81.116 233 25 16 3227 3450 96654383 96654605 7.670000e-38 169.0
35 TraesCS1D01G431200 chr6D 90.278 72 5 2 3427 3497 468870433 468870363 4.750000e-15 93.5
36 TraesCS1D01G431200 chr5A 74.877 406 85 12 4029 4427 546237554 546237949 7.670000e-38 169.0
37 TraesCS1D01G431200 chr5A 91.071 56 5 0 3228 3283 332920488 332920433 4.780000e-10 76.8
38 TraesCS1D01G431200 chr4D 81.006 179 28 5 3225 3399 157351791 157351967 2.160000e-28 137.0
39 TraesCS1D01G431200 chr4D 89.796 49 3 2 4276 4323 502425811 502425858 1.340000e-05 62.1
40 TraesCS1D01G431200 chr4A 79.330 179 22 7 3225 3400 691200905 691201071 1.310000e-20 111.0
41 TraesCS1D01G431200 chr4A 96.667 60 2 0 3439 3498 741985007 741985066 2.840000e-17 100.0
42 TraesCS1D01G431200 chr7A 96.610 59 2 0 3440 3498 34752814 34752756 1.020000e-16 99.0
43 TraesCS1D01G431200 chr7A 90.141 71 5 2 3427 3496 6840396 6840465 1.710000e-14 91.6
44 TraesCS1D01G431200 chr4B 95.161 62 3 0 3437 3498 437405213 437405152 1.020000e-16 99.0
45 TraesCS1D01G431200 chr4B 89.796 49 3 2 4276 4323 646818706 646818753 1.340000e-05 62.1
46 TraesCS1D01G431200 chr7D 92.647 68 3 2 3436 3502 1420546 1420480 3.670000e-16 97.1
47 TraesCS1D01G431200 chr3D 95.082 61 3 0 3436 3496 613625336 613625396 3.670000e-16 97.1
48 TraesCS1D01G431200 chr2A 87.273 55 6 1 3228 3281 654555829 654555883 1.340000e-05 62.1


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 TraesCS1D01G431200 chr1D 481498488 481502947 4459 True 8237.000000 8237 100.0000 1 4460 1 chr1D.!!$R1 4459
1 TraesCS1D01G431200 chr1D 481550717 481552072 1355 False 1136.000000 1136 82.3050 1319 2638 1 chr1D.!!$F2 1319
2 TraesCS1D01G431200 chr1D 481451915 481453738 1823 True 836.000000 1256 83.8285 1290 3153 2 chr1D.!!$R3 1863
3 TraesCS1D01G431200 chr1D 481465695 481466679 984 False 541.500000 955 91.6750 3496 4460 2 chr1D.!!$F3 964
4 TraesCS1D01G431200 chr1D 481488239 481489247 1008 True 278.333333 549 83.1890 1390 3096 3 chr1D.!!$R4 1706
5 TraesCS1D01G431200 chr1A 578206151 578209884 3733 True 2343.000000 4527 91.2405 5 3415 2 chr1A.!!$R4 3410
6 TraesCS1D01G431200 chr1A 578196679 578197656 977 True 1428.000000 1428 93.2990 3496 4460 1 chr1A.!!$R2 964
7 TraesCS1D01G431200 chr1A 577985496 577986851 1355 False 1142.000000 1142 82.3660 1319 2638 1 chr1A.!!$F1 1319
8 TraesCS1D01G431200 chr1B 670141376 670143935 2559 False 1680.000000 1965 91.7695 5 2408 2 chr1B.!!$F5 2403
9 TraesCS1D01G431200 chr1B 670159068 670160437 1369 False 1147.000000 1147 82.2250 1291 2638 1 chr1B.!!$F2 1347
10 TraesCS1D01G431200 chr1B 669922764 669924119 1355 False 1098.000000 1098 81.7910 1319 2638 1 chr1B.!!$F1 1319
11 TraesCS1D01G431200 chr1B 670034471 670035130 659 True 747.000000 747 87.5950 3821 4460 1 chr1B.!!$R2 639
12 TraesCS1D01G431200 chr1B 670166831 670167490 659 False 747.000000 747 87.5950 3821 4460 1 chr1B.!!$F3 639
13 TraesCS1D01G431200 chr1B 670149466 670150601 1135 False 560.000000 848 90.6710 2401 3205 2 chr1B.!!$F6 804
14 TraesCS1D01G431200 chr1B 670025585 670026165 580 True 263.000000 263 75.7020 3876 4460 1 chr1B.!!$R1 584

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
693 1042 0.031857 TCATTGCTTTTGTGTGGGCG 59.968 50.000 0.0 0.0 0.0 6.13 F
1568 2078 0.592637 TGCAGAACAATGTCAAGGCG 59.407 50.000 0.0 0.0 0.0 5.52 F
1763 2273 1.144057 GATGTCATTCCCGCCGTCT 59.856 57.895 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2670 3239 0.175989 GGCTGGCCACTAGTGTAGAC 59.824 60.000 21.18 14.25 35.81 2.59 R
3205 4131 1.203994 AGCACCTGATGAAAAGCATGC 59.796 47.619 10.51 10.51 37.34 4.06 R
3568 4510 1.623811 GGGAGAAAGTACAGTGCTCCA 59.376 52.381 20.12 0.00 45.39 3.86 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
60 61 0.321671 AACATGACCTCCGACACCAG 59.678 55.000 0.00 0.00 0.00 4.00
112 113 1.888512 GTGTTCCATCCACAACAGCAT 59.111 47.619 0.00 0.00 33.16 3.79
114 115 3.696051 GTGTTCCATCCACAACAGCATAT 59.304 43.478 0.00 0.00 33.16 1.78
117 118 6.710295 GTGTTCCATCCACAACAGCATATATA 59.290 38.462 0.00 0.00 33.16 0.86
126 127 8.700973 TCCACAACAGCATATATAAGAACTACA 58.299 33.333 0.00 0.00 0.00 2.74
129 237 8.993121 ACAACAGCATATATAAGAACTACATGC 58.007 33.333 0.00 0.00 38.02 4.06
149 257 6.262496 ACATGCAACAGGAAATGAGATGATAG 59.738 38.462 0.00 0.00 0.00 2.08
151 259 4.518211 GCAACAGGAAATGAGATGATAGGG 59.482 45.833 0.00 0.00 0.00 3.53
154 262 5.934781 ACAGGAAATGAGATGATAGGGTTC 58.065 41.667 0.00 0.00 0.00 3.62
156 264 6.159398 ACAGGAAATGAGATGATAGGGTTCTT 59.841 38.462 0.00 0.00 0.00 2.52
225 539 6.158520 TGAGACCTCATCAAAATCCAGGATTA 59.841 38.462 15.55 0.00 34.14 1.75
230 544 7.147248 ACCTCATCAAAATCCAGGATTAGATCA 60.147 37.037 15.55 7.84 31.46 2.92
235 549 7.278135 TCAAAATCCAGGATTAGATCAGACTG 58.722 38.462 15.55 0.00 31.46 3.51
366 680 4.510340 CCCACGGTTGCTATACAAGATAAC 59.490 45.833 0.00 0.00 39.50 1.89
417 736 1.070105 AACTAGGCGCACGGAACAA 59.930 52.632 10.83 0.00 0.00 2.83
440 759 1.385999 GTTGCAAGCGACGTTTTCTC 58.614 50.000 0.00 0.00 0.00 2.87
551 875 2.557924 ACGTGTTGACAAATGCATGGAT 59.442 40.909 0.00 0.00 0.00 3.41
560 884 5.945191 TGACAAATGCATGGATTTCTCTGTA 59.055 36.000 20.89 2.85 0.00 2.74
589 913 7.718334 TTTTATCCAGTGACTGTCATCTCTA 57.282 36.000 14.37 4.28 0.00 2.43
590 914 6.701145 TTATCCAGTGACTGTCATCTCTAC 57.299 41.667 14.37 0.00 0.00 2.59
591 915 3.357203 TCCAGTGACTGTCATCTCTACC 58.643 50.000 14.37 0.00 0.00 3.18
592 916 3.010696 TCCAGTGACTGTCATCTCTACCT 59.989 47.826 14.37 1.38 0.00 3.08
597 921 1.480137 ACTGTCATCTCTACCTGCAGC 59.520 52.381 8.66 0.00 0.00 5.25
633 957 1.014352 GCCCGTGAGCGATGTAATTT 58.986 50.000 0.00 0.00 41.33 1.82
641 965 6.178507 CGTGAGCGATGTAATTTTTCTGTAG 58.821 40.000 0.00 0.00 41.33 2.74
642 966 5.960105 GTGAGCGATGTAATTTTTCTGTAGC 59.040 40.000 0.00 0.00 0.00 3.58
643 967 5.874810 TGAGCGATGTAATTTTTCTGTAGCT 59.125 36.000 0.00 0.00 0.00 3.32
666 1015 3.281359 GAAATGGCGGGCGTTGCTT 62.281 57.895 9.97 0.00 0.00 3.91
667 1016 3.572196 AAATGGCGGGCGTTGCTTG 62.572 57.895 9.97 0.00 0.00 4.01
671 1020 4.279043 GCGGGCGTTGCTTGGTTT 62.279 61.111 0.00 0.00 0.00 3.27
672 1021 2.910345 GCGGGCGTTGCTTGGTTTA 61.910 57.895 0.00 0.00 0.00 2.01
673 1022 1.880186 CGGGCGTTGCTTGGTTTAT 59.120 52.632 0.00 0.00 0.00 1.40
674 1023 0.242555 CGGGCGTTGCTTGGTTTATT 59.757 50.000 0.00 0.00 0.00 1.40
675 1024 1.731098 CGGGCGTTGCTTGGTTTATTC 60.731 52.381 0.00 0.00 0.00 1.75
676 1025 1.271102 GGGCGTTGCTTGGTTTATTCA 59.729 47.619 0.00 0.00 0.00 2.57
677 1026 2.094234 GGGCGTTGCTTGGTTTATTCAT 60.094 45.455 0.00 0.00 0.00 2.57
678 1027 3.584834 GGCGTTGCTTGGTTTATTCATT 58.415 40.909 0.00 0.00 0.00 2.57
680 1029 3.181531 GCGTTGCTTGGTTTATTCATTGC 60.182 43.478 0.00 0.00 0.00 3.56
681 1030 4.236935 CGTTGCTTGGTTTATTCATTGCT 58.763 39.130 0.00 0.00 0.00 3.91
682 1031 4.685628 CGTTGCTTGGTTTATTCATTGCTT 59.314 37.500 0.00 0.00 0.00 3.91
683 1032 5.177327 CGTTGCTTGGTTTATTCATTGCTTT 59.823 36.000 0.00 0.00 0.00 3.51
684 1033 6.292811 CGTTGCTTGGTTTATTCATTGCTTTT 60.293 34.615 0.00 0.00 0.00 2.27
685 1034 6.542574 TGCTTGGTTTATTCATTGCTTTTG 57.457 33.333 0.00 0.00 0.00 2.44
686 1035 6.054295 TGCTTGGTTTATTCATTGCTTTTGT 58.946 32.000 0.00 0.00 0.00 2.83
687 1036 6.018098 TGCTTGGTTTATTCATTGCTTTTGTG 60.018 34.615 0.00 0.00 0.00 3.33
688 1037 6.018016 GCTTGGTTTATTCATTGCTTTTGTGT 60.018 34.615 0.00 0.00 0.00 3.72
689 1038 6.841443 TGGTTTATTCATTGCTTTTGTGTG 57.159 33.333 0.00 0.00 0.00 3.82
690 1039 5.757320 TGGTTTATTCATTGCTTTTGTGTGG 59.243 36.000 0.00 0.00 0.00 4.17
691 1040 5.179182 GGTTTATTCATTGCTTTTGTGTGGG 59.821 40.000 0.00 0.00 0.00 4.61
692 1041 2.237393 TTCATTGCTTTTGTGTGGGC 57.763 45.000 0.00 0.00 0.00 5.36
693 1042 0.031857 TCATTGCTTTTGTGTGGGCG 59.968 50.000 0.00 0.00 0.00 6.13
694 1043 0.945265 CATTGCTTTTGTGTGGGCGG 60.945 55.000 0.00 0.00 0.00 6.13
695 1044 2.098426 ATTGCTTTTGTGTGGGCGGG 62.098 55.000 0.00 0.00 0.00 6.13
696 1045 3.223589 GCTTTTGTGTGGGCGGGT 61.224 61.111 0.00 0.00 0.00 5.28
697 1046 3.039134 CTTTTGTGTGGGCGGGTC 58.961 61.111 0.00 0.00 0.00 4.46
698 1047 2.519780 TTTTGTGTGGGCGGGTCC 60.520 61.111 0.00 0.00 0.00 4.46
728 1077 3.493350 CCGCCACTAGTGAGCATTTATCT 60.493 47.826 24.68 0.00 0.00 1.98
731 1080 5.303971 GCCACTAGTGAGCATTTATCTGAT 58.696 41.667 24.68 0.00 0.00 2.90
783 1132 3.658398 CCAAGCATGGGTCTTCAGT 57.342 52.632 0.00 0.00 43.51 3.41
784 1133 1.171308 CCAAGCATGGGTCTTCAGTG 58.829 55.000 0.00 0.00 43.51 3.66
798 1147 4.210120 GTCTTCAGTGACAAGTTGTAGCTG 59.790 45.833 23.06 23.06 36.97 4.24
831 1180 2.054799 AGTCCAAGTCCAAGTTAGGCA 58.945 47.619 0.00 0.00 0.00 4.75
833 1182 2.749621 GTCCAAGTCCAAGTTAGGCATG 59.250 50.000 0.00 0.00 0.00 4.06
890 1239 1.999048 TTGGTTGCACTATCGTACGG 58.001 50.000 16.52 1.50 0.00 4.02
895 1244 0.804544 TGCACTATCGTACGGCTTGC 60.805 55.000 16.52 17.96 0.00 4.01
900 1249 0.804544 TATCGTACGGCTTGCTGTGC 60.805 55.000 16.52 13.96 0.00 4.57
907 1256 3.292936 GCTTGCTGTGCCTGCTGT 61.293 61.111 5.84 0.00 0.00 4.40
909 1258 1.895231 CTTGCTGTGCCTGCTGTCA 60.895 57.895 5.84 0.00 0.00 3.58
910 1259 2.126417 CTTGCTGTGCCTGCTGTCAC 62.126 60.000 0.00 0.00 0.00 3.67
911 1260 2.592574 GCTGTGCCTGCTGTCACA 60.593 61.111 7.26 7.26 40.50 3.58
913 1262 2.910360 TGTGCCTGCTGTCACAGT 59.090 55.556 6.68 0.00 38.18 3.55
944 1298 5.049828 GCACAAAGAAAAATGTAGCACCTT 58.950 37.500 0.00 0.00 0.00 3.50
951 1313 6.917533 AGAAAAATGTAGCACCTTCATCTTG 58.082 36.000 0.00 0.00 0.00 3.02
960 1322 0.804989 CCTTCATCTTGCCGTTGGTC 59.195 55.000 0.00 0.00 0.00 4.02
1034 1396 0.614697 TCATCGTCTCCTCAAGGCCA 60.615 55.000 5.01 0.00 34.44 5.36
1562 2072 2.557924 TCAATGGGTGCAGAACAATGTC 59.442 45.455 0.00 0.00 0.00 3.06
1568 2078 0.592637 TGCAGAACAATGTCAAGGCG 59.407 50.000 0.00 0.00 0.00 5.52
1577 2087 1.861982 ATGTCAAGGCGTACTACCCT 58.138 50.000 0.00 0.00 0.00 4.34
1583 2093 2.652095 GGCGTACTACCCTGCCACA 61.652 63.158 2.70 0.00 46.76 4.17
1763 2273 1.144057 GATGTCATTCCCGCCGTCT 59.856 57.895 0.00 0.00 0.00 4.18
1924 2434 2.593436 CTTGTTCCGCCCCAACGT 60.593 61.111 0.00 0.00 0.00 3.99
2206 2722 1.826054 CCGGCACCACCTCAAACAA 60.826 57.895 0.00 0.00 35.61 2.83
2647 3205 2.119801 CCATCAGGTGAGTCCTTTGG 57.880 55.000 0.00 0.00 45.67 3.28
2670 3239 3.196463 ACGACGACTATCCACTCTACAG 58.804 50.000 0.00 0.00 0.00 2.74
2679 3248 7.434927 ACTATCCACTCTACAGTCTACACTA 57.565 40.000 0.00 0.00 0.00 2.74
2681 3250 5.758790 TCCACTCTACAGTCTACACTAGT 57.241 43.478 0.00 0.00 0.00 2.57
2727 3296 4.452733 GTAGGCCGCTGCGACCTT 62.453 66.667 33.58 18.07 36.00 3.50
2754 3323 4.874977 TGGTGTGTCGCGAACGCA 62.875 61.111 25.19 21.49 45.93 5.24
2802 3371 3.760035 CTGGACTACGCCTGCGGT 61.760 66.667 16.63 4.78 44.69 5.68
2805 3374 2.494918 GACTACGCCTGCGGTCAT 59.505 61.111 16.63 0.00 44.69 3.06
2909 3481 4.617253 ATGACTATTACCAGCGCCATAA 57.383 40.909 2.29 0.13 0.00 1.90
2912 3484 2.436542 ACTATTACCAGCGCCATAACCA 59.563 45.455 2.29 0.00 0.00 3.67
3022 3925 2.587612 TCACGAAGCAAAATGTACGC 57.412 45.000 0.00 0.00 0.00 4.42
3164 4090 9.167311 GATTAAGCAATAATCCCGACAGATTAT 57.833 33.333 9.85 8.59 46.57 1.28
3231 4169 3.181502 GCTTTTCATCAGGTGCTTAGAGC 60.182 47.826 0.00 0.00 42.82 4.09
3266 4204 3.175109 GCTTATAGCCTGGTTACGTGT 57.825 47.619 0.00 0.00 34.48 4.49
3286 4224 5.587289 GTGTCACTTTTGCCTATGTGAAAA 58.413 37.500 0.00 0.00 40.47 2.29
3287 4225 5.687285 GTGTCACTTTTGCCTATGTGAAAAG 59.313 40.000 0.00 0.00 40.47 2.27
3309 4247 5.256474 AGGAGTGATGTGGAAAAATAGTGG 58.744 41.667 0.00 0.00 0.00 4.00
3370 4309 7.889469 ACTCCTAGGCAATTGCAATAAATATG 58.111 34.615 30.32 8.03 44.36 1.78
3378 4317 9.101655 GGCAATTGCAATAAATATGAAGAAAGT 57.898 29.630 30.32 0.00 44.36 2.66
3430 4372 9.494271 TTCTTATAGCTAACCTTATTGCATGAG 57.506 33.333 0.00 0.00 0.00 2.90
3431 4373 8.651389 TCTTATAGCTAACCTTATTGCATGAGT 58.349 33.333 0.00 0.00 0.00 3.41
3432 4374 8.607441 TTATAGCTAACCTTATTGCATGAGTG 57.393 34.615 0.00 0.00 0.00 3.51
3433 4375 5.102953 AGCTAACCTTATTGCATGAGTGA 57.897 39.130 0.00 0.00 0.00 3.41
3434 4376 4.878397 AGCTAACCTTATTGCATGAGTGAC 59.122 41.667 0.00 0.00 0.00 3.67
3435 4377 4.878397 GCTAACCTTATTGCATGAGTGACT 59.122 41.667 0.00 0.00 0.00 3.41
3436 4378 6.049149 GCTAACCTTATTGCATGAGTGACTA 58.951 40.000 0.00 0.00 0.00 2.59
3437 4379 6.708054 GCTAACCTTATTGCATGAGTGACTAT 59.292 38.462 0.00 0.00 0.00 2.12
3438 4380 7.872993 GCTAACCTTATTGCATGAGTGACTATA 59.127 37.037 0.00 0.00 0.00 1.31
3439 4381 9.197694 CTAACCTTATTGCATGAGTGACTATAC 57.802 37.037 0.00 0.00 0.00 1.47
3440 4382 7.124573 ACCTTATTGCATGAGTGACTATACA 57.875 36.000 0.00 0.00 0.00 2.29
3441 4383 7.564793 ACCTTATTGCATGAGTGACTATACAA 58.435 34.615 0.00 0.00 0.00 2.41
3442 4384 8.213679 ACCTTATTGCATGAGTGACTATACAAT 58.786 33.333 0.00 7.46 0.00 2.71
3443 4385 9.710900 CCTTATTGCATGAGTGACTATACAATA 57.289 33.333 0.00 6.01 0.00 1.90
3447 4389 7.425577 TGCATGAGTGACTATACAATAATGC 57.574 36.000 10.31 10.31 46.49 3.56
3448 4390 7.219322 TGCATGAGTGACTATACAATAATGCT 58.781 34.615 15.83 0.00 46.47 3.79
3449 4391 8.367156 TGCATGAGTGACTATACAATAATGCTA 58.633 33.333 15.83 4.31 46.47 3.49
3450 4392 9.208022 GCATGAGTGACTATACAATAATGCTAA 57.792 33.333 10.05 0.00 44.39 3.09
3469 4411 7.112528 TGCTAAACATACAAAGAGTTACACG 57.887 36.000 0.00 0.00 0.00 4.49
3470 4412 6.013689 GCTAAACATACAAAGAGTTACACGC 58.986 40.000 0.00 0.00 0.00 5.34
3471 4413 5.994887 AAACATACAAAGAGTTACACGCA 57.005 34.783 0.00 0.00 0.00 5.24
3472 4414 5.994887 AACATACAAAGAGTTACACGCAA 57.005 34.783 0.00 0.00 0.00 4.85
3473 4415 6.554334 AACATACAAAGAGTTACACGCAAT 57.446 33.333 0.00 0.00 0.00 3.56
3474 4416 6.554334 ACATACAAAGAGTTACACGCAATT 57.446 33.333 0.00 0.00 0.00 2.32
3475 4417 7.661127 ACATACAAAGAGTTACACGCAATTA 57.339 32.000 0.00 0.00 0.00 1.40
3476 4418 7.515643 ACATACAAAGAGTTACACGCAATTAC 58.484 34.615 0.00 0.00 0.00 1.89
3477 4419 5.994887 ACAAAGAGTTACACGCAATTACA 57.005 34.783 0.00 0.00 0.00 2.41
3478 4420 6.554334 ACAAAGAGTTACACGCAATTACAT 57.446 33.333 0.00 0.00 0.00 2.29
3479 4421 6.370593 ACAAAGAGTTACACGCAATTACATG 58.629 36.000 0.00 0.00 0.00 3.21
3480 4422 4.600012 AGAGTTACACGCAATTACATGC 57.400 40.909 0.00 0.00 42.94 4.06
3489 4431 2.833794 GCAATTACATGCGGACTAGGA 58.166 47.619 0.00 0.00 36.45 2.94
3490 4432 3.403038 GCAATTACATGCGGACTAGGAT 58.597 45.455 0.00 0.00 36.45 3.24
3491 4433 3.815401 GCAATTACATGCGGACTAGGATT 59.185 43.478 0.00 0.00 36.45 3.01
3492 4434 4.083802 GCAATTACATGCGGACTAGGATTC 60.084 45.833 0.00 0.00 36.45 2.52
3493 4435 5.300752 CAATTACATGCGGACTAGGATTCT 58.699 41.667 0.00 0.00 0.00 2.40
3494 4436 5.552870 ATTACATGCGGACTAGGATTCTT 57.447 39.130 0.00 0.00 0.00 2.52
3530 4472 4.082026 AGAGCCAAACAATGAGGTTTATGC 60.082 41.667 0.00 0.00 38.86 3.14
3550 4492 3.550437 CCTGCTATTGTAGGCAAGAGT 57.450 47.619 0.00 0.00 43.63 3.24
3553 4495 5.615289 CCTGCTATTGTAGGCAAGAGTATT 58.385 41.667 0.00 0.00 43.63 1.89
3556 4498 7.332926 CCTGCTATTGTAGGCAAGAGTATTATG 59.667 40.741 0.00 0.00 43.63 1.90
3568 4510 6.294473 CAAGAGTATTATGAGAACCATGCCT 58.706 40.000 0.00 0.00 36.71 4.75
3572 4514 3.565764 TTATGAGAACCATGCCTGGAG 57.434 47.619 15.66 0.00 46.37 3.86
3670 4612 2.105649 TCACAAGATTACACCCTGCACA 59.894 45.455 0.00 0.00 0.00 4.57
3684 4626 6.164876 CACCCTGCACAATTTGAAATGATTA 58.835 36.000 2.79 0.00 0.00 1.75
3685 4627 6.819649 CACCCTGCACAATTTGAAATGATTAT 59.180 34.615 2.79 0.00 0.00 1.28
3699 4641 8.463930 TGAAATGATTATAGGGAAATGGACAC 57.536 34.615 0.00 0.00 0.00 3.67
3908 4923 3.807538 GGCAGCTGCACCATCACG 61.808 66.667 37.63 0.00 44.36 4.35
4274 5302 2.427245 CGGCGGAGAGGAACTGGAT 61.427 63.158 0.00 0.00 41.55 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
114 115 8.892723 CATTTCCTGTTGCATGTAGTTCTTATA 58.107 33.333 0.00 0.00 0.00 0.98
117 118 5.769662 TCATTTCCTGTTGCATGTAGTTCTT 59.230 36.000 0.00 0.00 0.00 2.52
126 127 5.768662 CCTATCATCTCATTTCCTGTTGCAT 59.231 40.000 0.00 0.00 0.00 3.96
129 237 5.688807 ACCCTATCATCTCATTTCCTGTTG 58.311 41.667 0.00 0.00 0.00 3.33
149 257 2.969262 TGGGTCAATTTGGAAAGAACCC 59.031 45.455 12.59 12.59 37.04 4.11
151 259 5.276461 AGTTGGGTCAATTTGGAAAGAAC 57.724 39.130 0.00 0.00 0.00 3.01
154 262 3.897505 AGGAGTTGGGTCAATTTGGAAAG 59.102 43.478 0.00 0.00 0.00 2.62
156 264 3.611025 AGGAGTTGGGTCAATTTGGAA 57.389 42.857 0.00 0.00 0.00 3.53
197 305 2.939103 GGATTTTGATGAGGTCTCACCG 59.061 50.000 2.46 0.00 44.90 4.94
200 308 3.845992 TCCTGGATTTTGATGAGGTCTCA 59.154 43.478 2.93 2.93 44.59 3.27
225 539 5.077159 AGGATTAGGATACCCAGTCTGATCT 59.923 44.000 0.00 0.00 33.88 2.75
230 544 5.845065 GGTAAAGGATTAGGATACCCAGTCT 59.155 44.000 0.00 0.00 31.78 3.24
235 549 7.756614 AGAAATGGTAAAGGATTAGGATACCC 58.243 38.462 0.00 0.00 36.10 3.69
275 589 9.088987 AGGGCTCATTCAGAATACTTTTAAAAA 57.911 29.630 1.66 0.00 0.00 1.94
276 590 8.650143 AGGGCTCATTCAGAATACTTTTAAAA 57.350 30.769 0.00 0.00 0.00 1.52
277 591 9.174166 GTAGGGCTCATTCAGAATACTTTTAAA 57.826 33.333 0.00 0.00 0.00 1.52
278 592 7.494625 CGTAGGGCTCATTCAGAATACTTTTAA 59.505 37.037 0.00 0.00 0.00 1.52
283 597 4.215908 TCGTAGGGCTCATTCAGAATACT 58.784 43.478 0.00 0.00 0.00 2.12
287 601 1.757118 CCTCGTAGGGCTCATTCAGAA 59.243 52.381 0.00 0.00 0.00 3.02
288 602 1.403814 CCTCGTAGGGCTCATTCAGA 58.596 55.000 0.00 0.00 0.00 3.27
315 629 2.270923 GCAACTATCTGTCATGTGCGA 58.729 47.619 0.00 0.00 0.00 5.10
417 736 1.984321 AAACGTCGCTTGCAACCGTT 61.984 50.000 13.48 13.10 42.86 4.44
440 759 6.372659 ACCAATAGCTCATTGTTGTCTTGTAG 59.627 38.462 0.00 0.00 42.22 2.74
567 891 5.594725 GGTAGAGATGACAGTCACTGGATAA 59.405 44.000 10.28 0.00 35.51 1.75
568 892 5.103898 AGGTAGAGATGACAGTCACTGGATA 60.104 44.000 10.28 0.00 35.51 2.59
569 893 3.957497 GGTAGAGATGACAGTCACTGGAT 59.043 47.826 10.28 0.00 35.51 3.41
570 894 3.010696 AGGTAGAGATGACAGTCACTGGA 59.989 47.826 10.28 0.00 35.51 3.86
579 903 1.857965 AGCTGCAGGTAGAGATGACA 58.142 50.000 18.63 0.00 0.00 3.58
587 911 1.066587 GACGGCTAGCTGCAGGTAG 59.933 63.158 37.17 37.17 45.95 3.18
589 913 4.135153 CGACGGCTAGCTGCAGGT 62.135 66.667 23.72 23.72 45.15 4.00
590 914 4.880537 CCGACGGCTAGCTGCAGG 62.881 72.222 23.72 21.32 45.15 4.85
591 915 3.649277 AACCGACGGCTAGCTGCAG 62.649 63.158 23.72 16.55 45.15 4.41
592 916 2.725203 AAAACCGACGGCTAGCTGCA 62.725 55.000 23.72 0.00 45.15 4.41
597 921 1.495951 GCACAAAACCGACGGCTAG 59.504 57.895 15.39 4.15 0.00 3.42
633 957 4.256920 GCCATTTCTCTCAGCTACAGAAA 58.743 43.478 13.47 13.47 39.77 2.52
641 965 2.476320 GCCCGCCATTTCTCTCAGC 61.476 63.158 0.00 0.00 0.00 4.26
642 966 2.176273 CGCCCGCCATTTCTCTCAG 61.176 63.158 0.00 0.00 0.00 3.35
643 967 2.125147 CGCCCGCCATTTCTCTCA 60.125 61.111 0.00 0.00 0.00 3.27
666 1015 5.757320 CCACACAAAAGCAATGAATAAACCA 59.243 36.000 0.00 0.00 0.00 3.67
667 1016 5.179182 CCCACACAAAAGCAATGAATAAACC 59.821 40.000 0.00 0.00 0.00 3.27
669 1018 4.754114 GCCCACACAAAAGCAATGAATAAA 59.246 37.500 0.00 0.00 0.00 1.40
670 1019 4.314121 GCCCACACAAAAGCAATGAATAA 58.686 39.130 0.00 0.00 0.00 1.40
671 1020 3.613671 CGCCCACACAAAAGCAATGAATA 60.614 43.478 0.00 0.00 0.00 1.75
672 1021 2.769893 GCCCACACAAAAGCAATGAAT 58.230 42.857 0.00 0.00 0.00 2.57
673 1022 1.537776 CGCCCACACAAAAGCAATGAA 60.538 47.619 0.00 0.00 0.00 2.57
674 1023 0.031857 CGCCCACACAAAAGCAATGA 59.968 50.000 0.00 0.00 0.00 2.57
675 1024 0.945265 CCGCCCACACAAAAGCAATG 60.945 55.000 0.00 0.00 0.00 2.82
676 1025 1.367102 CCGCCCACACAAAAGCAAT 59.633 52.632 0.00 0.00 0.00 3.56
677 1026 2.790791 CCCGCCCACACAAAAGCAA 61.791 57.895 0.00 0.00 0.00 3.91
678 1027 3.222855 CCCGCCCACACAAAAGCA 61.223 61.111 0.00 0.00 0.00 3.91
680 1029 2.561037 GGACCCGCCCACACAAAAG 61.561 63.158 0.00 0.00 0.00 2.27
681 1030 2.519780 GGACCCGCCCACACAAAA 60.520 61.111 0.00 0.00 0.00 2.44
697 1046 4.077184 TAGTGGCGGCAACTCGGG 62.077 66.667 14.49 0.00 0.00 5.14
698 1047 2.509336 CTAGTGGCGGCAACTCGG 60.509 66.667 14.49 4.68 0.00 4.63
699 1048 2.094659 CACTAGTGGCGGCAACTCG 61.095 63.158 14.49 10.57 0.00 4.18
700 1049 0.737715 CTCACTAGTGGCGGCAACTC 60.738 60.000 22.48 0.46 0.00 3.01
701 1050 1.293498 CTCACTAGTGGCGGCAACT 59.707 57.895 22.48 15.48 0.00 3.16
702 1051 2.391389 GCTCACTAGTGGCGGCAAC 61.391 63.158 22.48 8.43 0.00 4.17
703 1052 2.047274 GCTCACTAGTGGCGGCAA 60.047 61.111 22.48 0.00 0.00 4.52
707 1056 3.492383 CAGATAAATGCTCACTAGTGGCG 59.508 47.826 22.48 14.58 32.09 5.69
728 1077 5.428457 TGCCCCTAAATCTAAGAGACAATCA 59.572 40.000 0.00 0.00 0.00 2.57
731 1080 5.339200 CCTTGCCCCTAAATCTAAGAGACAA 60.339 44.000 0.00 0.00 0.00 3.18
781 1130 3.255888 TCGATCAGCTACAACTTGTCACT 59.744 43.478 0.00 0.00 0.00 3.41
783 1132 3.255888 AGTCGATCAGCTACAACTTGTCA 59.744 43.478 0.00 0.00 0.00 3.58
784 1133 3.839293 AGTCGATCAGCTACAACTTGTC 58.161 45.455 0.00 0.00 0.00 3.18
846 1195 4.394797 TGGGGTATATGCAATGCCAATA 57.605 40.909 1.53 0.00 0.00 1.90
890 1239 3.264866 GACAGCAGGCACAGCAAGC 62.265 63.158 0.00 0.00 45.86 4.01
900 1249 0.105593 AGTGACACTGTGACAGCAGG 59.894 55.000 15.86 5.24 40.59 4.85
905 1254 1.338579 TGTGCAAGTGACACTGTGACA 60.339 47.619 15.86 12.09 38.86 3.58
907 1256 2.106477 TTGTGCAAGTGACACTGTGA 57.894 45.000 15.86 0.00 38.86 3.58
909 1258 2.710377 TCTTTGTGCAAGTGACACTGT 58.290 42.857 9.33 0.00 38.86 3.55
910 1259 3.763097 TTCTTTGTGCAAGTGACACTG 57.237 42.857 9.33 4.86 38.86 3.66
911 1260 4.782019 TTTTCTTTGTGCAAGTGACACT 57.218 36.364 1.07 1.07 38.86 3.55
912 1261 5.348451 ACATTTTTCTTTGTGCAAGTGACAC 59.652 36.000 0.00 0.00 38.55 3.67
913 1262 5.477510 ACATTTTTCTTTGTGCAAGTGACA 58.522 33.333 0.00 0.00 33.66 3.58
944 1298 1.002624 GGGACCAACGGCAAGATGA 60.003 57.895 0.00 0.00 0.00 2.92
960 1322 1.534729 GGCTGGAATTTATAGCCGGG 58.465 55.000 2.18 0.00 46.47 5.73
1230 1730 9.292195 AGGGTTTATCGTTCTTTCTCAAAAATA 57.708 29.630 0.00 0.00 0.00 1.40
1562 2072 1.153429 GGCAGGGTAGTACGCCTTG 60.153 63.158 13.34 14.27 41.50 3.61
1568 2078 1.263356 TCAGTGTGGCAGGGTAGTAC 58.737 55.000 0.00 0.00 0.00 2.73
1583 2093 0.246360 TCGTCACGCCATTGATCAGT 59.754 50.000 0.00 0.00 0.00 3.41
1815 2325 1.318576 CCGGTTTCCTGCAAGAAGTT 58.681 50.000 0.00 0.00 34.07 2.66
1924 2434 3.304391 GCTATTCTTGTCAACAACGCCAA 60.304 43.478 0.00 0.00 0.00 4.52
1932 2442 4.379793 CGTTTGCTTGCTATTCTTGTCAAC 59.620 41.667 0.00 0.00 0.00 3.18
2206 2722 0.250166 GGTGGCGAGCCGGTTATATT 60.250 55.000 9.78 0.00 39.42 1.28
2339 2858 1.599797 GTACACGGGCTGCTGGTTT 60.600 57.895 0.00 0.00 0.00 3.27
2511 3069 2.031674 GCAAGCTTGGTGTTGGGCTT 62.032 55.000 27.10 0.00 44.43 4.35
2552 3110 2.490903 GCCGTTCTTCTGGTAGTAGTCA 59.509 50.000 0.00 0.00 0.00 3.41
2645 3203 2.093288 AGAGTGGATAGTCGTCGTACCA 60.093 50.000 0.00 0.00 0.00 3.25
2646 3204 2.559440 AGAGTGGATAGTCGTCGTACC 58.441 52.381 0.00 0.00 0.00 3.34
2647 3205 4.115516 TGTAGAGTGGATAGTCGTCGTAC 58.884 47.826 0.00 0.00 0.00 3.67
2670 3239 0.175989 GGCTGGCCACTAGTGTAGAC 59.824 60.000 21.18 14.25 35.81 2.59
3022 3925 5.563751 CGAAATCACCATTAACAAACAGACG 59.436 40.000 0.00 0.00 0.00 4.18
3205 4131 1.203994 AGCACCTGATGAAAAGCATGC 59.796 47.619 10.51 10.51 37.34 4.06
3206 4132 3.587797 AAGCACCTGATGAAAAGCATG 57.412 42.857 0.00 0.00 37.34 4.06
3209 4135 3.181502 GCTCTAAGCACCTGATGAAAAGC 60.182 47.826 0.00 0.00 41.89 3.51
3210 4136 4.612932 GCTCTAAGCACCTGATGAAAAG 57.387 45.455 0.00 0.00 41.89 2.27
3255 4193 2.286772 GGCAAAAGTGACACGTAACCAG 60.287 50.000 0.00 0.00 30.49 4.00
3256 4194 1.671845 GGCAAAAGTGACACGTAACCA 59.328 47.619 0.00 0.00 30.49 3.67
3263 4201 4.829064 TTCACATAGGCAAAAGTGACAC 57.171 40.909 0.00 0.00 40.37 3.67
3265 4203 5.009610 TCCTTTTCACATAGGCAAAAGTGAC 59.990 40.000 9.87 0.00 40.37 3.67
3266 4204 5.136828 TCCTTTTCACATAGGCAAAAGTGA 58.863 37.500 9.87 0.00 39.06 3.41
3286 4224 5.256474 CCACTATTTTTCCACATCACTCCT 58.744 41.667 0.00 0.00 0.00 3.69
3287 4225 4.399303 CCCACTATTTTTCCACATCACTCC 59.601 45.833 0.00 0.00 0.00 3.85
3337 4275 4.453819 GCAATTGCCTAGGAGTAAGCATAG 59.546 45.833 20.06 0.00 34.72 2.23
3404 4346 9.494271 CTCATGCAATAAGGTTAGCTATAAGAA 57.506 33.333 0.00 0.00 0.00 2.52
3415 4357 7.564793 TGTATAGTCACTCATGCAATAAGGTT 58.435 34.615 0.00 0.00 0.00 3.50
3416 4358 7.124573 TGTATAGTCACTCATGCAATAAGGT 57.875 36.000 0.00 0.00 0.00 3.50
3417 4359 8.613060 ATTGTATAGTCACTCATGCAATAAGG 57.387 34.615 0.00 0.00 36.22 2.69
3421 4363 8.509690 GCATTATTGTATAGTCACTCATGCAAT 58.490 33.333 12.02 12.02 39.67 3.56
3422 4364 7.716560 AGCATTATTGTATAGTCACTCATGCAA 59.283 33.333 0.00 0.00 32.48 4.08
3423 4365 7.219322 AGCATTATTGTATAGTCACTCATGCA 58.781 34.615 0.00 0.00 0.00 3.96
3424 4366 7.664082 AGCATTATTGTATAGTCACTCATGC 57.336 36.000 0.00 0.00 0.00 4.06
3443 4385 8.227791 CGTGTAACTCTTTGTATGTTTAGCATT 58.772 33.333 0.00 0.00 35.02 3.56
3444 4386 7.623506 GCGTGTAACTCTTTGTATGTTTAGCAT 60.624 37.037 0.00 0.00 36.70 3.79
3445 4387 6.347079 GCGTGTAACTCTTTGTATGTTTAGCA 60.347 38.462 0.00 0.00 31.75 3.49
3446 4388 6.013689 GCGTGTAACTCTTTGTATGTTTAGC 58.986 40.000 0.00 0.00 31.75 3.09
3447 4389 7.112528 TGCGTGTAACTCTTTGTATGTTTAG 57.887 36.000 0.00 0.00 31.75 1.85
3448 4390 7.479897 TTGCGTGTAACTCTTTGTATGTTTA 57.520 32.000 0.00 0.00 31.75 2.01
3449 4391 5.994887 TGCGTGTAACTCTTTGTATGTTT 57.005 34.783 0.00 0.00 31.75 2.83
3450 4392 5.994887 TTGCGTGTAACTCTTTGTATGTT 57.005 34.783 0.00 0.00 31.75 2.71
3451 4393 6.554334 AATTGCGTGTAACTCTTTGTATGT 57.446 33.333 0.00 0.00 31.75 2.29
3452 4394 7.514805 TGTAATTGCGTGTAACTCTTTGTATG 58.485 34.615 0.00 0.00 31.75 2.39
3453 4395 7.661127 TGTAATTGCGTGTAACTCTTTGTAT 57.339 32.000 0.00 0.00 31.75 2.29
3454 4396 7.514805 CATGTAATTGCGTGTAACTCTTTGTA 58.485 34.615 7.52 0.00 31.75 2.41
3455 4397 5.994887 TGTAATTGCGTGTAACTCTTTGT 57.005 34.783 0.00 0.00 31.75 2.83
3456 4398 5.283717 GCATGTAATTGCGTGTAACTCTTTG 59.716 40.000 15.87 0.00 32.06 2.77
3457 4399 5.390613 GCATGTAATTGCGTGTAACTCTTT 58.609 37.500 15.87 0.00 32.06 2.52
3458 4400 4.969816 GCATGTAATTGCGTGTAACTCTT 58.030 39.130 15.87 0.00 32.06 2.85
3459 4401 4.600012 GCATGTAATTGCGTGTAACTCT 57.400 40.909 15.87 0.00 32.06 3.24
3469 4411 2.833794 TCCTAGTCCGCATGTAATTGC 58.166 47.619 0.00 0.00 39.29 3.56
3470 4412 5.300752 AGAATCCTAGTCCGCATGTAATTG 58.699 41.667 0.00 0.00 0.00 2.32
3471 4413 5.552870 AGAATCCTAGTCCGCATGTAATT 57.447 39.130 0.00 0.00 0.00 1.40
3472 4414 5.552870 AAGAATCCTAGTCCGCATGTAAT 57.447 39.130 0.00 0.00 0.00 1.89
3473 4415 5.353394 AAAGAATCCTAGTCCGCATGTAA 57.647 39.130 0.00 0.00 0.00 2.41
3474 4416 4.202223 GGAAAGAATCCTAGTCCGCATGTA 60.202 45.833 0.00 0.00 45.56 2.29
3475 4417 3.432326 GGAAAGAATCCTAGTCCGCATGT 60.432 47.826 0.00 0.00 45.56 3.21
3476 4418 3.134458 GGAAAGAATCCTAGTCCGCATG 58.866 50.000 0.00 0.00 45.56 4.06
3477 4419 3.477210 GGAAAGAATCCTAGTCCGCAT 57.523 47.619 0.00 0.00 45.56 4.73
3478 4420 2.981859 GGAAAGAATCCTAGTCCGCA 57.018 50.000 0.00 0.00 45.56 5.69
3488 4430 5.163571 GGCTCTTTTCATGGAGGAAAGAATC 60.164 44.000 12.27 8.81 37.98 2.52
3489 4431 4.708909 GGCTCTTTTCATGGAGGAAAGAAT 59.291 41.667 12.27 0.00 37.98 2.40
3490 4432 4.082125 GGCTCTTTTCATGGAGGAAAGAA 58.918 43.478 12.27 0.00 37.98 2.52
3491 4433 3.074390 TGGCTCTTTTCATGGAGGAAAGA 59.926 43.478 11.31 11.31 37.98 2.52
3492 4434 3.424703 TGGCTCTTTTCATGGAGGAAAG 58.575 45.455 0.00 0.00 37.98 2.62
3493 4435 3.524095 TGGCTCTTTTCATGGAGGAAA 57.476 42.857 0.00 0.00 35.11 3.13
3494 4436 3.524095 TTGGCTCTTTTCATGGAGGAA 57.476 42.857 0.00 0.00 0.00 3.36
3530 4472 3.550437 ACTCTTGCCTACAATAGCAGG 57.450 47.619 0.00 0.00 40.73 4.85
3568 4510 1.623811 GGGAGAAAGTACAGTGCTCCA 59.376 52.381 20.12 0.00 45.39 3.86
3572 4514 2.841442 ACAGGGAGAAAGTACAGTGC 57.159 50.000 0.00 0.00 0.00 4.40
3684 4626 3.591527 TCAACCAGTGTCCATTTCCCTAT 59.408 43.478 0.00 0.00 0.00 2.57
3685 4627 2.983192 TCAACCAGTGTCCATTTCCCTA 59.017 45.455 0.00 0.00 0.00 3.53
3756 4719 8.854237 TGCTTCCCTCTATATATATTTAGGCA 57.146 34.615 13.83 7.52 0.00 4.75
3818 4781 3.999663 CAGAGGGTGAGCTCTTAACTTTG 59.000 47.826 16.19 9.35 0.00 2.77
3908 4923 2.136229 GCCCTTCATCAATGGCCCC 61.136 63.158 0.00 0.00 37.34 5.80
4035 5061 4.394712 CAGTGCACCCCCGACCTC 62.395 72.222 14.63 0.00 0.00 3.85
4274 5302 1.753078 ATGCTCCGCTACTCCGACA 60.753 57.895 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.