Multiple sequence alignment - TraesCS2B01G590200

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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 TraesCS2B01G590200 chr2B 100.000 3434 0 0 1 3434 776428071 776431504 0.000000e+00 6342.0
1 TraesCS2B01G590200 chr2B 94.885 1564 56 12 990 2551 776533915 776532374 0.000000e+00 2423.0
2 TraesCS2B01G590200 chr2B 100.000 30 0 0 2605 2634 61606870 61606899 4.790000e-04 56.5
3 TraesCS2B01G590200 chr2A 90.950 2221 159 15 1248 3434 759222670 759220458 0.000000e+00 2950.0
4 TraesCS2B01G590200 chr2A 91.950 1677 101 11 878 2552 780776892 780778536 0.000000e+00 2318.0
5 TraesCS2B01G590200 chr2A 83.077 390 35 11 878 1251 759235054 759234680 3.300000e-85 326.0
6 TraesCS2B01G590200 chr2A 88.722 266 17 10 617 881 780776605 780776858 2.570000e-81 313.0
7 TraesCS2B01G590200 chr2D 92.546 1677 100 14 878 2552 633434831 633433178 0.000000e+00 2381.0
8 TraesCS2B01G590200 chr2D 94.351 832 39 2 1735 2566 633353610 633354433 0.000000e+00 1269.0
9 TraesCS2B01G590200 chr2D 80.645 651 55 23 546 1149 633352984 633353610 4.070000e-119 438.0
10 TraesCS2B01G590200 chr2D 85.621 306 32 10 203 499 633352669 633352971 9.250000e-81 311.0
11 TraesCS2B01G590200 chr2D 87.259 259 17 9 628 881 633435116 633434869 7.260000e-72 281.0
12 TraesCS2B01G590200 chr2D 82.410 307 35 14 201 497 633435431 633435134 2.050000e-62 250.0
13 TraesCS2B01G590200 chr4D 85.800 831 98 18 2605 3419 479683243 479684069 0.000000e+00 863.0
14 TraesCS2B01G590200 chr4D 84.577 201 25 5 3223 3419 481072410 481072608 9.720000e-46 195.0
15 TraesCS2B01G590200 chr3D 84.729 812 102 11 2644 3434 283306965 283306155 0.000000e+00 793.0
16 TraesCS2B01G590200 chr3B 84.644 814 99 14 2644 3434 377404020 377403210 0.000000e+00 787.0
17 TraesCS2B01G590200 chr3B 82.092 698 97 15 2738 3417 823799208 823798521 3.840000e-159 571.0
18 TraesCS2B01G590200 chr3B 79.545 176 28 5 2605 2773 544544044 544544218 6.020000e-23 119.0
19 TraesCS2B01G590200 chr1D 84.925 796 96 14 2644 3420 340670017 340669227 0.000000e+00 784.0
20 TraesCS2B01G590200 chr1D 80.410 781 138 13 2650 3419 10288074 10287298 6.390000e-162 580.0
21 TraesCS2B01G590200 chr7D 83.818 791 103 10 2650 3422 107676903 107676120 0.000000e+00 728.0
22 TraesCS2B01G590200 chrUn 82.427 791 120 12 2647 3419 331004118 331004907 0.000000e+00 673.0
23 TraesCS2B01G590200 chrUn 81.899 790 119 12 2650 3419 292875038 292875823 0.000000e+00 645.0
24 TraesCS2B01G590200 chrUn 83.453 695 97 11 2742 3419 369409224 369408531 6.250000e-177 630.0
25 TraesCS2B01G590200 chr7A 85.574 610 68 13 2829 3419 1364851 1365459 3.760000e-174 621.0
26 TraesCS2B01G590200 chr3A 82.219 703 116 7 2650 3346 135967362 135968061 6.340000e-167 597.0


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 TraesCS2B01G590200 chr2B 776428071 776431504 3433 False 6342.000000 6342 100.000000 1 3434 1 chr2B.!!$F2 3433
1 TraesCS2B01G590200 chr2B 776532374 776533915 1541 True 2423.000000 2423 94.885000 990 2551 1 chr2B.!!$R1 1561
2 TraesCS2B01G590200 chr2A 759220458 759222670 2212 True 2950.000000 2950 90.950000 1248 3434 1 chr2A.!!$R1 2186
3 TraesCS2B01G590200 chr2A 780776605 780778536 1931 False 1315.500000 2318 90.336000 617 2552 2 chr2A.!!$F1 1935
4 TraesCS2B01G590200 chr2D 633433178 633435431 2253 True 970.666667 2381 87.405000 201 2552 3 chr2D.!!$R1 2351
5 TraesCS2B01G590200 chr2D 633352669 633354433 1764 False 672.666667 1269 86.872333 203 2566 3 chr2D.!!$F1 2363
6 TraesCS2B01G590200 chr4D 479683243 479684069 826 False 863.000000 863 85.800000 2605 3419 1 chr4D.!!$F1 814
7 TraesCS2B01G590200 chr3D 283306155 283306965 810 True 793.000000 793 84.729000 2644 3434 1 chr3D.!!$R1 790
8 TraesCS2B01G590200 chr3B 377403210 377404020 810 True 787.000000 787 84.644000 2644 3434 1 chr3B.!!$R1 790
9 TraesCS2B01G590200 chr3B 823798521 823799208 687 True 571.000000 571 82.092000 2738 3417 1 chr3B.!!$R2 679
10 TraesCS2B01G590200 chr1D 340669227 340670017 790 True 784.000000 784 84.925000 2644 3420 1 chr1D.!!$R2 776
11 TraesCS2B01G590200 chr1D 10287298 10288074 776 True 580.000000 580 80.410000 2650 3419 1 chr1D.!!$R1 769
12 TraesCS2B01G590200 chr7D 107676120 107676903 783 True 728.000000 728 83.818000 2650 3422 1 chr7D.!!$R1 772
13 TraesCS2B01G590200 chrUn 331004118 331004907 789 False 673.000000 673 82.427000 2647 3419 1 chrUn.!!$F2 772
14 TraesCS2B01G590200 chrUn 292875038 292875823 785 False 645.000000 645 81.899000 2650 3419 1 chrUn.!!$F1 769
15 TraesCS2B01G590200 chrUn 369408531 369409224 693 True 630.000000 630 83.453000 2742 3419 1 chrUn.!!$R1 677
16 TraesCS2B01G590200 chr7A 1364851 1365459 608 False 621.000000 621 85.574000 2829 3419 1 chr7A.!!$F1 590
17 TraesCS2B01G590200 chr3A 135967362 135968061 699 False 597.000000 597 82.219000 2650 3346 1 chr3A.!!$F1 696

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
920 1011 0.232303 CCGCGGAACTCATAAATCGC 59.768 55.0 24.07 0.0 39.79 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2677 2798 0.179056 CACCACCAACGACTGAGGTT 60.179 55.0 0.0 0.0 32.75 3.5 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
40 41 2.814023 TTTTTGCGGGGTGTGATGT 58.186 47.368 0.00 0.00 0.00 3.06
41 42 1.982660 TTTTTGCGGGGTGTGATGTA 58.017 45.000 0.00 0.00 0.00 2.29
42 43 2.208132 TTTTGCGGGGTGTGATGTAT 57.792 45.000 0.00 0.00 0.00 2.29
43 44 3.351794 TTTTGCGGGGTGTGATGTATA 57.648 42.857 0.00 0.00 0.00 1.47
44 45 2.613026 TTGCGGGGTGTGATGTATAG 57.387 50.000 0.00 0.00 0.00 1.31
45 46 1.783071 TGCGGGGTGTGATGTATAGA 58.217 50.000 0.00 0.00 0.00 1.98
46 47 2.112190 TGCGGGGTGTGATGTATAGAA 58.888 47.619 0.00 0.00 0.00 2.10
47 48 2.703536 TGCGGGGTGTGATGTATAGAAT 59.296 45.455 0.00 0.00 0.00 2.40
48 49 3.135712 TGCGGGGTGTGATGTATAGAATT 59.864 43.478 0.00 0.00 0.00 2.17
49 50 4.134563 GCGGGGTGTGATGTATAGAATTT 58.865 43.478 0.00 0.00 0.00 1.82
50 51 4.024048 GCGGGGTGTGATGTATAGAATTTG 60.024 45.833 0.00 0.00 0.00 2.32
51 52 5.364778 CGGGGTGTGATGTATAGAATTTGA 58.635 41.667 0.00 0.00 0.00 2.69
52 53 5.820423 CGGGGTGTGATGTATAGAATTTGAA 59.180 40.000 0.00 0.00 0.00 2.69
53 54 6.486657 CGGGGTGTGATGTATAGAATTTGAAT 59.513 38.462 0.00 0.00 0.00 2.57
54 55 7.520453 CGGGGTGTGATGTATAGAATTTGAATG 60.520 40.741 0.00 0.00 0.00 2.67
55 56 7.285401 GGGGTGTGATGTATAGAATTTGAATGT 59.715 37.037 0.00 0.00 0.00 2.71
56 57 8.686334 GGGTGTGATGTATAGAATTTGAATGTT 58.314 33.333 0.00 0.00 0.00 2.71
57 58 9.722056 GGTGTGATGTATAGAATTTGAATGTTC 57.278 33.333 0.00 0.00 0.00 3.18
58 59 9.722056 GTGTGATGTATAGAATTTGAATGTTCC 57.278 33.333 0.00 0.00 0.00 3.62
59 60 9.685276 TGTGATGTATAGAATTTGAATGTTCCT 57.315 29.630 0.00 0.00 0.00 3.36
66 67 6.840780 AGAATTTGAATGTTCCTTGTAGGG 57.159 37.500 0.00 0.00 35.59 3.53
67 68 5.716703 AGAATTTGAATGTTCCTTGTAGGGG 59.283 40.000 0.00 0.00 35.59 4.79
68 69 4.463050 TTTGAATGTTCCTTGTAGGGGT 57.537 40.909 0.00 0.00 35.59 4.95
69 70 5.586155 TTTGAATGTTCCTTGTAGGGGTA 57.414 39.130 0.00 0.00 35.59 3.69
70 71 5.586155 TTGAATGTTCCTTGTAGGGGTAA 57.414 39.130 0.00 0.00 35.59 2.85
71 72 4.913784 TGAATGTTCCTTGTAGGGGTAAC 58.086 43.478 0.00 0.00 35.59 2.50
72 73 4.351407 TGAATGTTCCTTGTAGGGGTAACA 59.649 41.667 0.00 0.00 35.59 2.41
73 74 3.775261 TGTTCCTTGTAGGGGTAACAC 57.225 47.619 0.00 0.00 44.66 3.32
84 85 3.861276 GGGGTAACACAACCTATTTGC 57.139 47.619 0.00 0.00 42.67 3.68
85 86 3.158676 GGGGTAACACAACCTATTTGCA 58.841 45.455 0.00 0.00 42.67 4.08
86 87 3.767131 GGGGTAACACAACCTATTTGCAT 59.233 43.478 0.00 0.00 42.67 3.96
87 88 4.142249 GGGGTAACACAACCTATTTGCATC 60.142 45.833 0.00 0.00 42.67 3.91
88 89 4.438200 GGGTAACACAACCTATTTGCATCG 60.438 45.833 0.00 0.00 39.01 3.84
89 90 3.848272 AACACAACCTATTTGCATCGG 57.152 42.857 0.00 0.00 39.01 4.18
90 91 2.091541 ACACAACCTATTTGCATCGGG 58.908 47.619 0.00 0.00 39.01 5.14
91 92 2.290641 ACACAACCTATTTGCATCGGGA 60.291 45.455 0.00 0.00 39.01 5.14
92 93 2.752354 CACAACCTATTTGCATCGGGAA 59.248 45.455 0.00 0.00 39.01 3.97
93 94 3.381272 CACAACCTATTTGCATCGGGAAT 59.619 43.478 0.00 0.00 39.01 3.01
94 95 4.578516 CACAACCTATTTGCATCGGGAATA 59.421 41.667 0.00 0.00 39.01 1.75
95 96 5.241506 CACAACCTATTTGCATCGGGAATAT 59.758 40.000 0.00 0.00 39.01 1.28
96 97 6.429692 CACAACCTATTTGCATCGGGAATATA 59.570 38.462 0.00 0.00 39.01 0.86
97 98 7.121168 CACAACCTATTTGCATCGGGAATATAT 59.879 37.037 0.00 0.00 39.01 0.86
98 99 8.325787 ACAACCTATTTGCATCGGGAATATATA 58.674 33.333 0.00 0.00 39.01 0.86
99 100 9.342308 CAACCTATTTGCATCGGGAATATATAT 57.658 33.333 0.00 0.00 0.00 0.86
100 101 9.920946 AACCTATTTGCATCGGGAATATATATT 57.079 29.630 7.72 7.72 0.00 1.28
101 102 9.561069 ACCTATTTGCATCGGGAATATATATTC 57.439 33.333 22.31 22.31 40.96 1.75
102 103 9.784531 CCTATTTGCATCGGGAATATATATTCT 57.215 33.333 26.89 10.97 41.33 2.40
108 109 9.987272 TGCATCGGGAATATATATTCTATTCAG 57.013 33.333 26.89 15.26 41.33 3.02
109 110 9.988815 GCATCGGGAATATATATTCTATTCAGT 57.011 33.333 26.89 10.52 41.33 3.41
123 124 5.822278 TCTATTCAGTTCTCATCGTAGTGC 58.178 41.667 0.00 0.00 0.00 4.40
124 125 3.934457 TTCAGTTCTCATCGTAGTGCA 57.066 42.857 0.00 0.00 0.00 4.57
125 126 4.456280 TTCAGTTCTCATCGTAGTGCAT 57.544 40.909 0.00 0.00 0.00 3.96
126 127 4.033990 TCAGTTCTCATCGTAGTGCATC 57.966 45.455 0.00 0.00 0.00 3.91
127 128 3.696548 TCAGTTCTCATCGTAGTGCATCT 59.303 43.478 0.00 0.00 0.00 2.90
128 129 3.795639 CAGTTCTCATCGTAGTGCATCTG 59.204 47.826 0.00 0.00 0.00 2.90
129 130 2.498807 TCTCATCGTAGTGCATCTGC 57.501 50.000 0.00 0.00 42.50 4.26
130 131 2.027385 TCTCATCGTAGTGCATCTGCT 58.973 47.619 3.53 0.00 42.66 4.24
131 132 2.125685 CTCATCGTAGTGCATCTGCTG 58.874 52.381 3.53 0.00 42.66 4.41
132 133 1.478105 TCATCGTAGTGCATCTGCTGT 59.522 47.619 3.53 0.00 42.66 4.40
133 134 2.687935 TCATCGTAGTGCATCTGCTGTA 59.312 45.455 3.53 0.00 42.66 2.74
134 135 2.561733 TCGTAGTGCATCTGCTGTAC 57.438 50.000 3.53 4.48 42.66 2.90
140 141 2.589014 GTGCATCTGCTGTACTTTTGC 58.411 47.619 3.53 0.00 42.66 3.68
141 142 2.030893 GTGCATCTGCTGTACTTTTGCA 60.031 45.455 3.53 0.00 42.66 4.08
142 143 2.821378 TGCATCTGCTGTACTTTTGCAT 59.179 40.909 3.53 0.00 42.66 3.96
143 144 3.176708 GCATCTGCTGTACTTTTGCATG 58.823 45.455 0.00 0.00 36.07 4.06
144 145 2.995466 TCTGCTGTACTTTTGCATGC 57.005 45.000 11.82 11.82 36.07 4.06
145 146 2.228925 TCTGCTGTACTTTTGCATGCA 58.771 42.857 18.46 18.46 36.07 3.96
146 147 2.622470 TCTGCTGTACTTTTGCATGCAA 59.378 40.909 28.80 28.80 36.07 4.08
147 148 3.067883 TCTGCTGTACTTTTGCATGCAAA 59.932 39.130 35.80 35.80 43.23 3.68
149 150 3.555139 TGCTGTACTTTTGCATGCAAAAC 59.445 39.130 40.87 34.04 46.80 2.43
150 151 3.803778 GCTGTACTTTTGCATGCAAAACT 59.196 39.130 40.87 34.38 46.80 2.66
151 152 4.318263 GCTGTACTTTTGCATGCAAAACTG 60.318 41.667 40.87 34.63 46.80 3.16
152 153 5.003692 TGTACTTTTGCATGCAAAACTGA 57.996 34.783 40.87 29.16 46.80 3.41
153 154 5.414360 TGTACTTTTGCATGCAAAACTGAA 58.586 33.333 40.87 27.97 46.80 3.02
154 155 5.871524 TGTACTTTTGCATGCAAAACTGAAA 59.128 32.000 40.87 26.67 46.80 2.69
155 156 5.876612 ACTTTTGCATGCAAAACTGAAAA 57.123 30.435 40.87 26.06 46.80 2.29
156 157 6.439675 ACTTTTGCATGCAAAACTGAAAAT 57.560 29.167 40.87 23.07 46.80 1.82
157 158 6.854778 ACTTTTGCATGCAAAACTGAAAATT 58.145 28.000 40.87 20.61 46.80 1.82
158 159 7.314393 ACTTTTGCATGCAAAACTGAAAATTT 58.686 26.923 40.87 20.27 46.80 1.82
159 160 8.457261 ACTTTTGCATGCAAAACTGAAAATTTA 58.543 25.926 40.87 23.83 46.80 1.40
160 161 9.453325 CTTTTGCATGCAAAACTGAAAATTTAT 57.547 25.926 40.87 0.00 46.80 1.40
161 162 9.448294 TTTTGCATGCAAAACTGAAAATTTATC 57.552 25.926 40.87 0.92 46.80 1.75
162 163 7.725818 TGCATGCAAAACTGAAAATTTATCA 57.274 28.000 20.30 0.00 0.00 2.15
163 164 8.283992 TTGCATGCAAAACTGAAAATTTATCAG 58.716 29.630 30.19 19.86 40.36 2.90
221 222 1.509004 GACTGACCTCGAGACAGGC 59.491 63.158 28.89 25.96 36.98 4.85
262 263 1.576421 GGCTCACCAAGACTTTGCG 59.424 57.895 0.00 0.00 35.26 4.85
264 265 1.160137 GCTCACCAAGACTTTGCGAT 58.840 50.000 0.00 0.00 32.79 4.58
302 303 1.993370 GACTTGTAGTCGTCACCATGC 59.007 52.381 0.00 0.00 35.28 4.06
377 378 8.084684 TGTACTGCTATGACAGATGATGAATAC 58.915 37.037 4.02 0.00 40.25 1.89
411 414 8.419076 TTTTTCTGAAAAATAGTGCAAAGGAC 57.581 30.769 20.98 0.00 35.57 3.85
414 417 6.061441 TCTGAAAAATAGTGCAAAGGACAGA 58.939 36.000 0.00 0.00 0.00 3.41
451 461 1.541588 GCATTGGAACACTCAAGGACC 59.458 52.381 0.00 0.00 39.29 4.46
502 516 3.634568 TTGTCCGTGTAAAATTGGCTG 57.365 42.857 0.00 0.00 0.00 4.85
503 517 2.852449 TGTCCGTGTAAAATTGGCTGA 58.148 42.857 0.00 0.00 0.00 4.26
504 518 3.215151 TGTCCGTGTAAAATTGGCTGAA 58.785 40.909 0.00 0.00 0.00 3.02
505 519 3.632604 TGTCCGTGTAAAATTGGCTGAAA 59.367 39.130 0.00 0.00 0.00 2.69
506 520 4.226761 GTCCGTGTAAAATTGGCTGAAAG 58.773 43.478 0.00 0.00 0.00 2.62
523 537 6.851222 CTGAAAGCTAGTCTTTTCTTGACA 57.149 37.500 11.71 5.51 44.58 3.58
524 538 7.251704 CTGAAAGCTAGTCTTTTCTTGACAA 57.748 36.000 11.71 0.00 44.58 3.18
525 539 7.807977 TGAAAGCTAGTCTTTTCTTGACAAT 57.192 32.000 11.71 0.00 44.58 2.71
526 540 8.225603 TGAAAGCTAGTCTTTTCTTGACAATT 57.774 30.769 11.71 0.00 44.58 2.32
527 541 8.131100 TGAAAGCTAGTCTTTTCTTGACAATTG 58.869 33.333 3.24 3.24 44.58 2.32
528 542 6.566197 AGCTAGTCTTTTCTTGACAATTGG 57.434 37.500 10.83 0.00 36.94 3.16
529 543 6.064717 AGCTAGTCTTTTCTTGACAATTGGT 58.935 36.000 10.83 0.00 36.94 3.67
530 544 6.547510 AGCTAGTCTTTTCTTGACAATTGGTT 59.452 34.615 10.83 0.00 36.94 3.67
531 545 6.638468 GCTAGTCTTTTCTTGACAATTGGTTG 59.362 38.462 10.83 0.00 41.20 3.77
532 546 6.773976 AGTCTTTTCTTGACAATTGGTTGA 57.226 33.333 10.83 0.00 38.71 3.18
533 547 7.169158 AGTCTTTTCTTGACAATTGGTTGAA 57.831 32.000 10.83 5.95 38.71 2.69
534 548 7.610865 AGTCTTTTCTTGACAATTGGTTGAAA 58.389 30.769 10.83 11.19 38.71 2.69
535 549 7.761249 AGTCTTTTCTTGACAATTGGTTGAAAG 59.239 33.333 10.83 11.35 38.71 2.62
536 550 6.534793 TCTTTTCTTGACAATTGGTTGAAAGC 59.465 34.615 10.83 0.00 38.71 3.51
537 551 5.596836 TTCTTGACAATTGGTTGAAAGCT 57.403 34.783 10.83 0.00 38.71 3.74
538 552 6.707440 TTCTTGACAATTGGTTGAAAGCTA 57.293 33.333 10.83 0.00 38.71 3.32
539 553 6.317789 TCTTGACAATTGGTTGAAAGCTAG 57.682 37.500 10.83 0.00 38.71 3.42
540 554 5.827797 TCTTGACAATTGGTTGAAAGCTAGT 59.172 36.000 10.83 0.00 38.71 2.57
541 555 6.321181 TCTTGACAATTGGTTGAAAGCTAGTT 59.679 34.615 10.83 0.00 38.71 2.24
542 556 7.500892 TCTTGACAATTGGTTGAAAGCTAGTTA 59.499 33.333 10.83 0.00 38.71 2.24
543 557 7.575414 TGACAATTGGTTGAAAGCTAGTTAA 57.425 32.000 10.83 0.00 38.71 2.01
544 558 8.177119 TGACAATTGGTTGAAAGCTAGTTAAT 57.823 30.769 10.83 0.00 38.71 1.40
590 604 8.802267 TGTTAAGAGATTAATGAAAAAGGGTGG 58.198 33.333 0.00 0.00 0.00 4.61
595 609 6.314917 AGATTAATGAAAAAGGGTGGTGACT 58.685 36.000 0.00 0.00 0.00 3.41
657 677 3.794690 CCTGATGTATAGGCGGTCG 57.205 57.895 0.00 0.00 0.00 4.79
690 731 2.301870 AGGTAGACAAAAGGCACGATCA 59.698 45.455 0.00 0.00 0.00 2.92
711 752 1.327303 ATCGACAGGCAAGGCAAAAA 58.673 45.000 0.00 0.00 0.00 1.94
731 772 7.404203 CAAAAAGTCTTTCAATTGAGCCAAAG 58.596 34.615 8.41 9.46 0.00 2.77
734 776 4.522022 AGTCTTTCAATTGAGCCAAAGAGG 59.478 41.667 16.87 0.00 35.93 3.69
743 785 0.964358 AGCCAAAGAGGACAGCATGC 60.964 55.000 10.51 10.51 41.22 4.06
769 811 4.156477 TCCAGAAACCCCAAACCAAATAG 58.844 43.478 0.00 0.00 0.00 1.73
779 821 6.183361 ACCCCAAACCAAATAGCATTAAAACA 60.183 34.615 0.00 0.00 0.00 2.83
789 831 9.862585 CAAATAGCATTAAAACAGGTCAAAAAC 57.137 29.630 0.00 0.00 0.00 2.43
790 832 9.830975 AAATAGCATTAAAACAGGTCAAAAACT 57.169 25.926 0.00 0.00 0.00 2.66
792 834 6.872920 AGCATTAAAACAGGTCAAAAACTGA 58.127 32.000 0.00 0.00 38.09 3.41
846 892 6.948353 ACGATCGATCAAATGGACTTTATTG 58.052 36.000 24.34 5.39 0.00 1.90
919 1010 1.257936 CACCGCGGAACTCATAAATCG 59.742 52.381 35.90 0.00 0.00 3.34
920 1011 0.232303 CCGCGGAACTCATAAATCGC 59.768 55.000 24.07 0.00 39.79 4.58
1011 1106 2.486504 CGCACCATGGTCATGCAC 59.513 61.111 16.53 0.00 39.39 4.57
1012 1107 2.486504 GCACCATGGTCATGCACG 59.513 61.111 16.53 2.67 39.23 5.34
1013 1108 2.486504 CACCATGGTCATGCACGC 59.513 61.111 16.53 0.00 37.49 5.34
1437 1532 2.893398 CCCACGGAGCAGTACCTC 59.107 66.667 0.00 0.00 0.00 3.85
1470 1565 1.381928 GGAGCGACGTCATCTGGGTA 61.382 60.000 17.16 0.00 0.00 3.69
2202 2297 1.582968 GTGTTACGACCTGAGCGGA 59.417 57.895 0.00 0.00 36.31 5.54
2409 2504 1.445582 CTCCGCCACTGGTTACGTC 60.446 63.158 0.00 0.00 0.00 4.34
2569 2665 6.141560 AGGTACTCCGTGCTACTAATTAAC 57.858 41.667 0.00 0.00 39.05 2.01
2573 2673 6.034161 ACTCCGTGCTACTAATTAACAGTT 57.966 37.500 0.00 0.00 0.00 3.16
2580 2680 7.201496 CGTGCTACTAATTAACAGTTTAGTGGG 60.201 40.741 8.74 4.41 38.68 4.61
2642 2763 8.887036 AAGACAGGAAAAGCGATTTAATTTTT 57.113 26.923 0.00 0.00 0.00 1.94
2677 2798 2.764128 GGCTCCCCTCCATCGACA 60.764 66.667 0.00 0.00 0.00 4.35
2683 2804 1.264749 CCCCTCCATCGACAACCTCA 61.265 60.000 0.00 0.00 0.00 3.86
2699 2820 0.389391 CTCAGTCGTTGGTGGTGAGT 59.611 55.000 0.00 0.00 31.77 3.41
2705 2826 1.229076 GTTGGTGGTGAGTGGGGTT 59.771 57.895 0.00 0.00 0.00 4.11
2718 2839 2.359478 GGGTTGCCGGATTCACGT 60.359 61.111 5.05 0.00 0.00 4.49
2857 2982 4.461198 GATTGGTCTTATCGTTGGGGATT 58.539 43.478 0.00 0.00 0.00 3.01
3026 3160 3.246226 GTGGTATGCATCGACAACATCTC 59.754 47.826 0.19 0.00 0.00 2.75
3107 3241 1.246056 CGTCTTAGTCGTGGTGGGGA 61.246 60.000 0.00 0.00 0.00 4.81
3177 3313 2.756829 TCGTTCAACGACAATGGCTTA 58.243 42.857 9.01 0.00 46.73 3.09
3316 3471 2.159382 GGATGGACGTTGGTGTCAAAT 58.841 47.619 0.00 0.00 40.72 2.32
3346 3502 9.175060 GAGATGTTTTGCTCTCTTTTTAGTTTC 57.825 33.333 0.00 0.00 35.95 2.78
3348 3504 8.862550 ATGTTTTGCTCTCTTTTTAGTTTCAG 57.137 30.769 0.00 0.00 0.00 3.02
3349 3505 8.050778 TGTTTTGCTCTCTTTTTAGTTTCAGA 57.949 30.769 0.00 0.00 0.00 3.27
3350 3506 8.184192 TGTTTTGCTCTCTTTTTAGTTTCAGAG 58.816 33.333 0.00 0.00 35.09 3.35
3351 3507 6.867662 TTGCTCTCTTTTTAGTTTCAGAGG 57.132 37.500 0.00 0.00 34.61 3.69
3352 3508 5.930135 TGCTCTCTTTTTAGTTTCAGAGGT 58.070 37.500 0.00 0.00 34.61 3.85
3353 3509 5.760253 TGCTCTCTTTTTAGTTTCAGAGGTG 59.240 40.000 0.00 0.00 34.61 4.00
3355 3511 6.073494 GCTCTCTTTTTAGTTTCAGAGGTGTC 60.073 42.308 0.00 0.00 34.61 3.67
3356 3512 6.884832 TCTCTTTTTAGTTTCAGAGGTGTCA 58.115 36.000 0.00 0.00 34.61 3.58
3357 3513 7.335627 TCTCTTTTTAGTTTCAGAGGTGTCAA 58.664 34.615 0.00 0.00 34.61 3.18
3359 3515 8.519799 TCTTTTTAGTTTCAGAGGTGTCAAAT 57.480 30.769 0.00 0.00 0.00 2.32
3362 3518 7.873719 TTTAGTTTCAGAGGTGTCAAATTCA 57.126 32.000 0.00 0.00 0.00 2.57
3363 3519 7.496529 TTAGTTTCAGAGGTGTCAAATTCAG 57.503 36.000 0.00 0.00 0.00 3.02
3364 3520 5.684704 AGTTTCAGAGGTGTCAAATTCAGA 58.315 37.500 0.00 0.00 0.00 3.27
3365 3521 5.762218 AGTTTCAGAGGTGTCAAATTCAGAG 59.238 40.000 0.00 0.00 0.00 3.35
3366 3522 5.551305 TTCAGAGGTGTCAAATTCAGAGA 57.449 39.130 0.00 0.00 0.00 3.10
3411 3576 5.122519 TGAATGATACACGCATTACCATGT 58.877 37.500 0.00 0.00 36.19 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 1.982660 TACATCACACCCCGCAAAAA 58.017 45.000 0.00 0.00 0.00 1.94
23 24 2.208132 ATACATCACACCCCGCAAAA 57.792 45.000 0.00 0.00 0.00 2.44
24 25 2.502130 TCTATACATCACACCCCGCAAA 59.498 45.455 0.00 0.00 0.00 3.68
25 26 2.112190 TCTATACATCACACCCCGCAA 58.888 47.619 0.00 0.00 0.00 4.85
26 27 1.783071 TCTATACATCACACCCCGCA 58.217 50.000 0.00 0.00 0.00 5.69
27 28 2.902705 TTCTATACATCACACCCCGC 57.097 50.000 0.00 0.00 0.00 6.13
28 29 5.364778 TCAAATTCTATACATCACACCCCG 58.635 41.667 0.00 0.00 0.00 5.73
29 30 7.285401 ACATTCAAATTCTATACATCACACCCC 59.715 37.037 0.00 0.00 0.00 4.95
30 31 8.225603 ACATTCAAATTCTATACATCACACCC 57.774 34.615 0.00 0.00 0.00 4.61
31 32 9.722056 GAACATTCAAATTCTATACATCACACC 57.278 33.333 0.00 0.00 0.00 4.16
32 33 9.722056 GGAACATTCAAATTCTATACATCACAC 57.278 33.333 0.00 0.00 0.00 3.82
33 34 9.685276 AGGAACATTCAAATTCTATACATCACA 57.315 29.630 0.00 0.00 0.00 3.58
40 41 9.627123 CCCTACAAGGAACATTCAAATTCTATA 57.373 33.333 0.00 0.00 37.67 1.31
41 42 7.561356 CCCCTACAAGGAACATTCAAATTCTAT 59.439 37.037 0.00 0.00 37.67 1.98
42 43 6.889722 CCCCTACAAGGAACATTCAAATTCTA 59.110 38.462 0.00 0.00 37.67 2.10
43 44 5.716703 CCCCTACAAGGAACATTCAAATTCT 59.283 40.000 0.00 0.00 37.67 2.40
44 45 5.480422 ACCCCTACAAGGAACATTCAAATTC 59.520 40.000 0.00 0.00 37.67 2.17
45 46 5.402630 ACCCCTACAAGGAACATTCAAATT 58.597 37.500 0.00 0.00 37.67 1.82
46 47 5.010708 ACCCCTACAAGGAACATTCAAAT 57.989 39.130 0.00 0.00 37.67 2.32
47 48 4.463050 ACCCCTACAAGGAACATTCAAA 57.537 40.909 0.00 0.00 37.67 2.69
48 49 5.163077 TGTTACCCCTACAAGGAACATTCAA 60.163 40.000 0.00 0.00 37.67 2.69
49 50 4.351407 TGTTACCCCTACAAGGAACATTCA 59.649 41.667 0.00 0.00 37.67 2.57
50 51 4.698780 GTGTTACCCCTACAAGGAACATTC 59.301 45.833 0.00 0.00 37.67 2.67
51 52 4.105057 TGTGTTACCCCTACAAGGAACATT 59.895 41.667 0.00 0.00 37.67 2.71
52 53 3.653836 TGTGTTACCCCTACAAGGAACAT 59.346 43.478 0.00 0.00 37.67 2.71
53 54 3.047115 TGTGTTACCCCTACAAGGAACA 58.953 45.455 0.00 0.00 37.67 3.18
54 55 3.775261 TGTGTTACCCCTACAAGGAAC 57.225 47.619 0.00 0.00 37.67 3.62
55 56 3.181441 GGTTGTGTTACCCCTACAAGGAA 60.181 47.826 0.00 0.00 37.67 3.36
56 57 2.372837 GGTTGTGTTACCCCTACAAGGA 59.627 50.000 0.00 0.00 37.67 3.36
57 58 2.374170 AGGTTGTGTTACCCCTACAAGG 59.626 50.000 0.00 0.00 39.08 3.61
58 59 3.782656 AGGTTGTGTTACCCCTACAAG 57.217 47.619 0.00 0.00 39.08 3.16
59 60 5.846528 AATAGGTTGTGTTACCCCTACAA 57.153 39.130 0.00 0.00 39.08 2.41
60 61 5.562635 CAAATAGGTTGTGTTACCCCTACA 58.437 41.667 0.00 0.00 39.08 2.74
61 62 4.397103 GCAAATAGGTTGTGTTACCCCTAC 59.603 45.833 0.00 0.00 39.63 3.18
62 63 4.043059 TGCAAATAGGTTGTGTTACCCCTA 59.957 41.667 0.00 0.00 39.63 3.53
63 64 3.181427 TGCAAATAGGTTGTGTTACCCCT 60.181 43.478 0.00 0.00 39.63 4.79
64 65 3.158676 TGCAAATAGGTTGTGTTACCCC 58.841 45.455 0.00 0.00 39.63 4.95
65 66 4.438200 CGATGCAAATAGGTTGTGTTACCC 60.438 45.833 0.00 0.00 39.63 3.69
66 67 4.438200 CCGATGCAAATAGGTTGTGTTACC 60.438 45.833 0.00 0.00 39.63 2.85
67 68 4.438200 CCCGATGCAAATAGGTTGTGTTAC 60.438 45.833 0.00 0.00 39.63 2.50
68 69 3.692101 CCCGATGCAAATAGGTTGTGTTA 59.308 43.478 0.00 0.00 39.63 2.41
69 70 2.491693 CCCGATGCAAATAGGTTGTGTT 59.508 45.455 0.00 0.00 39.63 3.32
70 71 2.091541 CCCGATGCAAATAGGTTGTGT 58.908 47.619 0.00 0.00 39.63 3.72
71 72 2.364632 TCCCGATGCAAATAGGTTGTG 58.635 47.619 0.00 0.00 39.63 3.33
72 73 2.799126 TCCCGATGCAAATAGGTTGT 57.201 45.000 0.00 0.00 39.63 3.32
73 74 5.964958 ATATTCCCGATGCAAATAGGTTG 57.035 39.130 0.00 0.00 40.50 3.77
74 75 9.920946 AATATATATTCCCGATGCAAATAGGTT 57.079 29.630 1.91 0.00 0.00 3.50
75 76 9.561069 GAATATATATTCCCGATGCAAATAGGT 57.439 33.333 20.53 0.00 36.85 3.08
76 77 9.784531 AGAATATATATTCCCGATGCAAATAGG 57.215 33.333 25.33 0.00 42.29 2.57
82 83 9.987272 CTGAATAGAATATATATTCCCGATGCA 57.013 33.333 25.33 19.90 42.29 3.96
83 84 9.988815 ACTGAATAGAATATATATTCCCGATGC 57.011 33.333 25.33 17.34 42.29 3.91
97 98 8.076781 GCACTACGATGAGAACTGAATAGAATA 58.923 37.037 0.00 0.00 0.00 1.75
98 99 6.920758 GCACTACGATGAGAACTGAATAGAAT 59.079 38.462 0.00 0.00 0.00 2.40
99 100 6.127730 TGCACTACGATGAGAACTGAATAGAA 60.128 38.462 0.00 0.00 0.00 2.10
100 101 5.357032 TGCACTACGATGAGAACTGAATAGA 59.643 40.000 0.00 0.00 0.00 1.98
101 102 5.582550 TGCACTACGATGAGAACTGAATAG 58.417 41.667 0.00 0.00 0.00 1.73
102 103 5.576447 TGCACTACGATGAGAACTGAATA 57.424 39.130 0.00 0.00 0.00 1.75
103 104 4.456280 TGCACTACGATGAGAACTGAAT 57.544 40.909 0.00 0.00 0.00 2.57
104 105 3.934457 TGCACTACGATGAGAACTGAA 57.066 42.857 0.00 0.00 0.00 3.02
105 106 3.696548 AGATGCACTACGATGAGAACTGA 59.303 43.478 0.00 0.00 0.00 3.41
106 107 3.795639 CAGATGCACTACGATGAGAACTG 59.204 47.826 0.00 0.00 0.00 3.16
107 108 3.736433 GCAGATGCACTACGATGAGAACT 60.736 47.826 0.00 0.00 41.59 3.01
108 109 2.537625 GCAGATGCACTACGATGAGAAC 59.462 50.000 0.00 0.00 41.59 3.01
109 110 2.428530 AGCAGATGCACTACGATGAGAA 59.571 45.455 7.68 0.00 45.16 2.87
110 111 2.027385 AGCAGATGCACTACGATGAGA 58.973 47.619 7.68 0.00 45.16 3.27
111 112 2.125685 CAGCAGATGCACTACGATGAG 58.874 52.381 7.68 0.00 45.16 2.90
112 113 1.478105 ACAGCAGATGCACTACGATGA 59.522 47.619 7.68 0.00 45.16 2.92
113 114 1.931906 ACAGCAGATGCACTACGATG 58.068 50.000 7.68 0.00 45.16 3.84
114 115 2.690497 AGTACAGCAGATGCACTACGAT 59.310 45.455 7.68 0.00 45.16 3.73
115 116 2.092323 AGTACAGCAGATGCACTACGA 58.908 47.619 7.68 0.00 45.16 3.43
116 117 2.568696 AGTACAGCAGATGCACTACG 57.431 50.000 7.68 0.00 45.16 3.51
117 118 4.670221 GCAAAAGTACAGCAGATGCACTAC 60.670 45.833 7.68 5.80 45.16 2.73
118 119 3.436704 GCAAAAGTACAGCAGATGCACTA 59.563 43.478 7.68 0.00 45.16 2.74
119 120 2.227388 GCAAAAGTACAGCAGATGCACT 59.773 45.455 7.68 0.00 45.16 4.40
120 121 2.030893 TGCAAAAGTACAGCAGATGCAC 60.031 45.455 7.68 0.00 45.16 4.57
121 122 2.228925 TGCAAAAGTACAGCAGATGCA 58.771 42.857 7.68 0.00 45.16 3.96
122 123 2.995466 TGCAAAAGTACAGCAGATGC 57.005 45.000 0.00 0.00 42.49 3.91
123 124 3.176708 GCATGCAAAAGTACAGCAGATG 58.823 45.455 14.21 0.00 42.14 2.90
124 125 2.821378 TGCATGCAAAAGTACAGCAGAT 59.179 40.909 20.30 0.00 42.14 2.90
125 126 2.228925 TGCATGCAAAAGTACAGCAGA 58.771 42.857 20.30 0.00 42.14 4.26
126 127 2.710220 TGCATGCAAAAGTACAGCAG 57.290 45.000 20.30 0.00 42.14 4.24
127 128 3.449528 TTTGCATGCAAAAGTACAGCA 57.550 38.095 36.92 16.38 42.16 4.41
136 137 8.618677 TGATAAATTTTCAGTTTTGCATGCAAA 58.381 25.926 35.80 35.80 43.23 3.68
137 138 8.151141 TGATAAATTTTCAGTTTTGCATGCAA 57.849 26.923 28.80 28.80 0.00 4.08
138 139 7.725818 TGATAAATTTTCAGTTTTGCATGCA 57.274 28.000 18.46 18.46 0.00 3.96
176 177 9.391006 GGGTGTTGTGAAATCTATCTATTTGTA 57.609 33.333 0.00 0.00 0.00 2.41
177 178 7.065803 CGGGTGTTGTGAAATCTATCTATTTGT 59.934 37.037 0.00 0.00 0.00 2.83
178 179 7.279981 TCGGGTGTTGTGAAATCTATCTATTTG 59.720 37.037 0.00 0.00 0.00 2.32
179 180 7.280205 GTCGGGTGTTGTGAAATCTATCTATTT 59.720 37.037 0.00 0.00 0.00 1.40
180 181 6.761714 GTCGGGTGTTGTGAAATCTATCTATT 59.238 38.462 0.00 0.00 0.00 1.73
181 182 6.098409 AGTCGGGTGTTGTGAAATCTATCTAT 59.902 38.462 0.00 0.00 0.00 1.98
182 183 5.421056 AGTCGGGTGTTGTGAAATCTATCTA 59.579 40.000 0.00 0.00 0.00 1.98
183 184 4.223032 AGTCGGGTGTTGTGAAATCTATCT 59.777 41.667 0.00 0.00 0.00 1.98
184 185 4.330074 CAGTCGGGTGTTGTGAAATCTATC 59.670 45.833 0.00 0.00 0.00 2.08
185 186 4.020573 TCAGTCGGGTGTTGTGAAATCTAT 60.021 41.667 0.00 0.00 0.00 1.98
186 187 3.322541 TCAGTCGGGTGTTGTGAAATCTA 59.677 43.478 0.00 0.00 0.00 1.98
187 188 2.104111 TCAGTCGGGTGTTGTGAAATCT 59.896 45.455 0.00 0.00 0.00 2.40
188 189 2.223377 GTCAGTCGGGTGTTGTGAAATC 59.777 50.000 0.00 0.00 0.00 2.17
189 190 2.218603 GTCAGTCGGGTGTTGTGAAAT 58.781 47.619 0.00 0.00 0.00 2.17
190 191 1.658994 GTCAGTCGGGTGTTGTGAAA 58.341 50.000 0.00 0.00 0.00 2.69
191 192 0.179067 GGTCAGTCGGGTGTTGTGAA 60.179 55.000 0.00 0.00 0.00 3.18
192 193 1.046472 AGGTCAGTCGGGTGTTGTGA 61.046 55.000 0.00 0.00 0.00 3.58
193 194 0.600255 GAGGTCAGTCGGGTGTTGTG 60.600 60.000 0.00 0.00 0.00 3.33
194 195 1.746517 GAGGTCAGTCGGGTGTTGT 59.253 57.895 0.00 0.00 0.00 3.32
195 196 1.372997 CGAGGTCAGTCGGGTGTTG 60.373 63.158 0.00 0.00 36.26 3.33
196 197 1.524863 CTCGAGGTCAGTCGGGTGTT 61.525 60.000 3.91 0.00 40.49 3.32
197 198 1.972223 CTCGAGGTCAGTCGGGTGT 60.972 63.158 3.91 0.00 40.49 4.16
198 199 1.674651 TCTCGAGGTCAGTCGGGTG 60.675 63.158 13.56 0.00 41.45 4.61
199 200 1.674980 GTCTCGAGGTCAGTCGGGT 60.675 63.158 13.56 0.00 41.45 5.28
200 201 1.649390 CTGTCTCGAGGTCAGTCGGG 61.649 65.000 21.65 5.75 42.12 5.14
201 202 1.649390 CCTGTCTCGAGGTCAGTCGG 61.649 65.000 25.09 14.62 40.49 4.79
262 263 4.407296 AGTCAAATCCTGTCCTCCACTATC 59.593 45.833 0.00 0.00 0.00 2.08
264 265 3.791320 AGTCAAATCCTGTCCTCCACTA 58.209 45.455 0.00 0.00 0.00 2.74
298 299 2.047274 AGGTTCGTGGACCGCATG 60.047 61.111 5.75 0.00 44.62 4.06
302 303 2.596904 ATAATCAGGTTCGTGGACCG 57.403 50.000 0.00 0.00 44.62 4.79
329 330 7.482169 ACAGAGAACACCATCAGAAGTATAA 57.518 36.000 0.00 0.00 0.00 0.98
340 341 4.711846 TCATAGCAGTACAGAGAACACCAT 59.288 41.667 0.00 0.00 0.00 3.55
341 342 4.082190 GTCATAGCAGTACAGAGAACACCA 60.082 45.833 0.00 0.00 0.00 4.17
342 343 4.082190 TGTCATAGCAGTACAGAGAACACC 60.082 45.833 0.00 0.00 0.00 4.16
343 344 5.060662 TGTCATAGCAGTACAGAGAACAC 57.939 43.478 0.00 0.00 0.00 3.32
399 401 4.152647 TCTTCTCTCTGTCCTTTGCACTA 58.847 43.478 0.00 0.00 0.00 2.74
407 410 4.044065 TCTTCTTCCTCTTCTCTCTGTCCT 59.956 45.833 0.00 0.00 0.00 3.85
411 414 3.763360 TGCTCTTCTTCCTCTTCTCTCTG 59.237 47.826 0.00 0.00 0.00 3.35
414 417 4.080975 CCAATGCTCTTCTTCCTCTTCTCT 60.081 45.833 0.00 0.00 0.00 3.10
451 461 0.821711 TCCAACAACCGCCCTTCTTG 60.822 55.000 0.00 0.00 0.00 3.02
497 511 4.357918 AGAAAAGACTAGCTTTCAGCCA 57.642 40.909 11.07 0.00 45.85 4.75
502 516 7.592903 CCAATTGTCAAGAAAAGACTAGCTTTC 59.407 37.037 4.43 8.04 45.85 2.62
504 518 6.547510 ACCAATTGTCAAGAAAAGACTAGCTT 59.452 34.615 4.43 0.00 38.88 3.74
505 519 6.064717 ACCAATTGTCAAGAAAAGACTAGCT 58.935 36.000 4.43 0.00 36.94 3.32
506 520 6.319141 ACCAATTGTCAAGAAAAGACTAGC 57.681 37.500 4.43 0.00 36.94 3.42
507 521 7.930217 TCAACCAATTGTCAAGAAAAGACTAG 58.070 34.615 4.43 0.00 37.11 2.57
508 522 7.873719 TCAACCAATTGTCAAGAAAAGACTA 57.126 32.000 4.43 0.00 37.11 2.59
509 523 6.773976 TCAACCAATTGTCAAGAAAAGACT 57.226 33.333 4.43 0.00 37.11 3.24
510 524 7.464577 GCTTTCAACCAATTGTCAAGAAAAGAC 60.465 37.037 4.43 0.00 37.11 3.01
511 525 6.534793 GCTTTCAACCAATTGTCAAGAAAAGA 59.465 34.615 4.43 0.00 37.11 2.52
512 526 6.536224 AGCTTTCAACCAATTGTCAAGAAAAG 59.464 34.615 4.43 7.56 37.11 2.27
513 527 6.405538 AGCTTTCAACCAATTGTCAAGAAAA 58.594 32.000 4.43 0.00 37.11 2.29
514 528 5.976458 AGCTTTCAACCAATTGTCAAGAAA 58.024 33.333 4.43 8.19 37.11 2.52
515 529 5.596836 AGCTTTCAACCAATTGTCAAGAA 57.403 34.783 4.43 0.70 37.11 2.52
516 530 5.827797 ACTAGCTTTCAACCAATTGTCAAGA 59.172 36.000 4.43 0.00 37.11 3.02
517 531 6.076981 ACTAGCTTTCAACCAATTGTCAAG 57.923 37.500 4.43 0.61 37.11 3.02
518 532 6.463995 AACTAGCTTTCAACCAATTGTCAA 57.536 33.333 4.43 0.00 37.11 3.18
519 533 7.575414 TTAACTAGCTTTCAACCAATTGTCA 57.425 32.000 4.43 0.00 37.11 3.58
525 539 9.959749 CTGTTTAATTAACTAGCTTTCAACCAA 57.040 29.630 0.00 0.00 37.64 3.67
526 540 9.344772 TCTGTTTAATTAACTAGCTTTCAACCA 57.655 29.630 0.00 0.00 37.64 3.67
527 541 9.608617 GTCTGTTTAATTAACTAGCTTTCAACC 57.391 33.333 0.00 0.00 37.64 3.77
565 579 8.803235 ACCACCCTTTTTCATTAATCTCTTAAC 58.197 33.333 0.00 0.00 29.85 2.01
572 586 6.389906 CAGTCACCACCCTTTTTCATTAATC 58.610 40.000 0.00 0.00 0.00 1.75
657 677 7.530863 CCTTTTGTCTACCTTTCATCTTTAGC 58.469 38.462 0.00 0.00 0.00 3.09
690 731 1.327303 TTTGCCTTGCCTGTCGATTT 58.673 45.000 0.00 0.00 0.00 2.17
695 736 1.683385 AGACTTTTTGCCTTGCCTGTC 59.317 47.619 0.00 0.00 0.00 3.51
711 752 4.522022 CCTCTTTGGCTCAATTGAAAGACT 59.478 41.667 13.77 0.00 32.40 3.24
731 772 1.451028 GGAGTGGCATGCTGTCCTC 60.451 63.158 18.92 15.88 0.00 3.71
734 776 0.321919 TTCTGGAGTGGCATGCTGTC 60.322 55.000 18.92 11.41 0.00 3.51
743 785 1.328279 GTTTGGGGTTTCTGGAGTGG 58.672 55.000 0.00 0.00 0.00 4.00
789 831 4.383052 CGCAAGTTAGTGAACTACAGTCAG 59.617 45.833 0.00 0.00 45.50 3.51
790 832 4.295870 CGCAAGTTAGTGAACTACAGTCA 58.704 43.478 0.00 0.00 45.50 3.41
846 892 4.955590 CACGTATGATAACGCATTGTTGAC 59.044 41.667 0.00 0.00 46.71 3.18
881 927 2.123939 TGTGGGTGGCAAGTGTGG 60.124 61.111 0.00 0.00 0.00 4.17
920 1011 3.751049 TAGGTAGCAGAGGCCCGGG 62.751 68.421 19.09 19.09 42.56 5.73
952 1047 3.395639 TGTGGAAACGACGAAGCTTTAT 58.604 40.909 0.00 0.00 0.00 1.40
992 1087 4.541482 GCATGACCATGGTGCGCG 62.541 66.667 25.52 8.99 39.16 6.86
1164 1259 2.979649 GACAACGAGGAGGGGGAC 59.020 66.667 0.00 0.00 0.00 4.46
1230 1325 3.384532 GGGTACGTCCTGCCGGAA 61.385 66.667 5.05 0.00 42.08 4.30
1437 1532 3.812019 CTCCCGGAGTCCACGACG 61.812 72.222 10.49 0.00 37.67 5.12
2409 2504 1.804326 CGTAGTTGGTCCGAAGCCG 60.804 63.158 0.00 0.00 0.00 5.52
2542 2638 2.363683 AGTAGCACGGAGTACCTACAC 58.636 52.381 7.26 0.00 42.86 2.90
2569 2665 4.399303 CCTTTGCTTATCCCCACTAAACTG 59.601 45.833 0.00 0.00 0.00 3.16
2573 2673 4.291249 AGTTCCTTTGCTTATCCCCACTAA 59.709 41.667 0.00 0.00 0.00 2.24
2677 2798 0.179056 CACCACCAACGACTGAGGTT 60.179 55.000 0.00 0.00 32.75 3.50
2683 2804 1.445942 CCACTCACCACCAACGACT 59.554 57.895 0.00 0.00 0.00 4.18
2689 2810 2.923035 CAACCCCACTCACCACCA 59.077 61.111 0.00 0.00 0.00 4.17
2699 2820 2.034999 GTGAATCCGGCAACCCCA 59.965 61.111 0.00 0.00 0.00 4.96
2705 2826 1.958715 CACACACGTGAATCCGGCA 60.959 57.895 25.01 0.00 46.80 5.69
2718 2839 7.283625 ACTTTGGCATAAAACTATTCACACA 57.716 32.000 0.00 0.00 0.00 3.72
2823 2948 1.885163 GACCAATCGTCTCACCGGGT 61.885 60.000 6.32 0.00 38.57 5.28
2857 2982 6.072508 GCTTGAACAGACTGTATTCCAAATCA 60.073 38.462 8.91 3.40 0.00 2.57
2973 3107 1.063867 TGCTCCTAGACTACCTCCCAC 60.064 57.143 0.00 0.00 0.00 4.61
3026 3160 1.382419 CTAGCACACGTTTCGTCTTCG 59.618 52.381 0.00 0.00 38.32 3.79
3107 3241 3.006323 GCCATCGAACTCCATATCTGACT 59.994 47.826 0.00 0.00 0.00 3.41
3177 3313 0.264657 AAGGTGGCTCCCCAAAAGTT 59.735 50.000 1.14 0.00 44.33 2.66
3346 3502 5.243981 ACATCTCTGAATTTGACACCTCTG 58.756 41.667 0.00 0.00 0.00 3.35
3348 3504 6.402222 AGTACATCTCTGAATTTGACACCTC 58.598 40.000 0.00 0.00 0.00 3.85
3349 3505 6.365970 AGTACATCTCTGAATTTGACACCT 57.634 37.500 0.00 0.00 0.00 4.00
3350 3506 7.173218 TCAAAGTACATCTCTGAATTTGACACC 59.827 37.037 0.00 0.00 32.30 4.16
3351 3507 8.087982 TCAAAGTACATCTCTGAATTTGACAC 57.912 34.615 0.00 0.00 32.30 3.67
3352 3508 8.853077 ATCAAAGTACATCTCTGAATTTGACA 57.147 30.769 0.00 0.00 36.00 3.58
3353 3509 9.160496 AGATCAAAGTACATCTCTGAATTTGAC 57.840 33.333 0.00 0.00 36.00 3.18


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

AutoCloner maintained by Alex Coulton.