Multiple sequence alignment - TraesCS3A01G276900

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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 TraesCS3A01G276900 chr3A 100.000 5576 0 0 1 5576 506979179 506973604 0.000000e+00 10298.0
1 TraesCS3A01G276900 chr3A 97.059 34 1 0 2709 2742 506976289 506976256 2.170000e-04 58.4
2 TraesCS3A01G276900 chr3A 97.059 34 1 0 2891 2924 506976471 506976438 2.170000e-04 58.4
3 TraesCS3A01G276900 chr3D 93.573 2474 103 21 2566 5025 384493149 384490718 0.000000e+00 3637.0
4 TraesCS3A01G276900 chr3D 94.690 1582 50 13 675 2252 384495090 384493539 0.000000e+00 2425.0
5 TraesCS3A01G276900 chr3D 94.633 354 17 1 5223 5576 384486467 384486116 1.060000e-151 547.0
6 TraesCS3A01G276900 chr3D 83.725 553 41 15 29 554 101671880 101671350 1.410000e-130 477.0
7 TraesCS3A01G276900 chr3D 91.641 323 21 5 2250 2568 384493513 384493193 5.130000e-120 442.0
8 TraesCS3A01G276900 chr3D 95.455 132 6 0 5047 5178 384486589 384486458 1.570000e-50 211.0
9 TraesCS3A01G276900 chr3D 100.000 34 0 0 2709 2742 384492824 384492791 4.660000e-06 63.9
10 TraesCS3A01G276900 chr3D 97.059 34 1 0 2891 2924 384493006 384492973 2.170000e-04 58.4
11 TraesCS3A01G276900 chr3B 93.984 1546 76 7 688 2232 499644256 499642727 0.000000e+00 2324.0
12 TraesCS3A01G276900 chr3B 94.086 1116 42 4 3596 4711 499640876 499639785 0.000000e+00 1674.0
13 TraesCS3A01G276900 chr3B 94.487 1034 46 5 2566 3596 499641991 499640966 0.000000e+00 1583.0
14 TraesCS3A01G276900 chr3B 93.660 347 19 2 29 372 283327832 283327486 2.980000e-142 516.0
15 TraesCS3A01G276900 chr3B 89.665 358 30 5 5223 5576 499636586 499636232 3.060000e-122 449.0
16 TraesCS3A01G276900 chr3B 93.645 299 17 2 2272 2569 499642335 499642038 3.960000e-121 446.0
17 TraesCS3A01G276900 chr3B 94.828 58 3 0 5173 5230 682910299 682910356 2.140000e-14 91.6
18 TraesCS3A01G276900 chr6A 87.850 642 49 10 29 654 5041311 5040683 0.000000e+00 726.0
19 TraesCS3A01G276900 chr6A 98.113 53 1 0 5173 5225 405668181 405668129 5.950000e-15 93.5
20 TraesCS3A01G276900 chr2A 86.708 647 77 7 29 675 524595666 524596303 0.000000e+00 710.0
21 TraesCS3A01G276900 chr2A 88.632 519 36 6 29 528 166061810 166062324 1.330000e-170 610.0
22 TraesCS3A01G276900 chr2A 95.556 360 16 0 1 360 13122741 13123100 1.350000e-160 577.0
23 TraesCS3A01G276900 chr2A 94.068 236 12 1 438 671 13123455 13123690 1.910000e-94 357.0
24 TraesCS3A01G276900 chr2A 82.895 152 10 2 393 528 714527502 714527351 7.590000e-24 122.0
25 TraesCS3A01G276900 chr1A 87.226 548 44 13 29 554 472581339 472580796 7.990000e-168 601.0
26 TraesCS3A01G276900 chr1A 91.960 199 15 1 478 676 74261332 74261135 1.530000e-70 278.0
27 TraesCS3A01G276900 chr1D 86.924 543 39 10 29 554 381967029 381967556 1.040000e-161 580.0
28 TraesCS3A01G276900 chr1D 93.768 353 17 5 29 377 41567967 41567616 4.950000e-145 525.0
29 TraesCS3A01G276900 chr2B 88.224 501 34 9 29 511 432931972 432932465 4.840000e-160 575.0
30 TraesCS3A01G276900 chr2B 96.364 55 1 1 5173 5226 462008252 462008306 7.690000e-14 89.8
31 TraesCS3A01G276900 chr2B 93.220 59 3 1 5173 5230 52148729 52148787 9.950000e-13 86.1
32 TraesCS3A01G276900 chr4A 86.004 543 47 9 29 554 616917755 616917225 6.310000e-154 555.0
33 TraesCS3A01G276900 chr4A 84.292 452 51 12 16 451 674761264 674760817 1.860000e-114 424.0
34 TraesCS3A01G276900 chr4A 94.828 58 2 1 5173 5229 327598004 327597947 7.690000e-14 89.8
35 TraesCS3A01G276900 chr5B 88.000 450 33 8 98 528 427918401 427917954 3.850000e-141 512.0
36 TraesCS3A01G276900 chr5B 98.077 52 1 0 5173 5224 353180459 353180408 2.140000e-14 91.6
37 TraesCS3A01G276900 chr7D 90.909 143 13 0 1346 1488 585414076 585414218 5.700000e-45 193.0
38 TraesCS3A01G276900 chrUn 96.296 54 2 0 5173 5226 40938931 40938984 7.690000e-14 89.8
39 TraesCS3A01G276900 chr6B 96.296 54 2 0 5173 5226 639145423 639145370 7.690000e-14 89.8
40 TraesCS3A01G276900 chr5D 91.803 61 5 0 5172 5232 353440567 353440507 9.950000e-13 86.1


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 TraesCS3A01G276900 chr3A 506973604 506979179 5575 True 3471.60 10298 98.039333 1 5576 3 chr3A.!!$R1 5575
1 TraesCS3A01G276900 chr3D 384490718 384495090 4372 True 1325.26 3637 95.392600 675 5025 5 chr3D.!!$R3 4350
2 TraesCS3A01G276900 chr3D 101671350 101671880 530 True 477.00 477 83.725000 29 554 1 chr3D.!!$R1 525
3 TraesCS3A01G276900 chr3B 499636232 499644256 8024 True 1295.20 2324 93.173400 688 5576 5 chr3B.!!$R2 4888
4 TraesCS3A01G276900 chr6A 5040683 5041311 628 True 726.00 726 87.850000 29 654 1 chr6A.!!$R1 625
5 TraesCS3A01G276900 chr2A 524595666 524596303 637 False 710.00 710 86.708000 29 675 1 chr2A.!!$F2 646
6 TraesCS3A01G276900 chr2A 166061810 166062324 514 False 610.00 610 88.632000 29 528 1 chr2A.!!$F1 499
7 TraesCS3A01G276900 chr2A 13122741 13123690 949 False 467.00 577 94.812000 1 671 2 chr2A.!!$F3 670
8 TraesCS3A01G276900 chr1A 472580796 472581339 543 True 601.00 601 87.226000 29 554 1 chr1A.!!$R2 525
9 TraesCS3A01G276900 chr1D 381967029 381967556 527 False 580.00 580 86.924000 29 554 1 chr1D.!!$F1 525
10 TraesCS3A01G276900 chr4A 616917225 616917755 530 True 555.00 555 86.004000 29 554 1 chr4A.!!$R2 525

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
671 979 0.531753 GCACCGCACCCAAATGTTTT 60.532 50.000 0.00 0.0 0.00 2.43 F
1036 1349 0.734942 CTACATATAACCCGCCCGCG 60.735 60.000 0.00 0.0 39.44 6.46 F
2248 2564 0.178987 TCTATCCTGACTCGGCCTCC 60.179 60.000 0.00 0.0 0.00 4.30 F
2862 3588 0.813210 TTTTGCTTTGCTTTGGCCCG 60.813 50.000 0.00 0.0 37.74 6.13 F
3086 3813 0.968901 CTACCACCACGTAGCAGGGA 60.969 60.000 0.00 0.0 29.96 4.20 F
3087 3814 0.968901 TACCACCACGTAGCAGGGAG 60.969 60.000 0.00 0.0 0.00 4.30 F
3107 3834 1.151899 AGGGTACTGGCTTGTCCCA 60.152 57.895 15.01 0.0 40.48 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1609 1922 0.172803 CCCCGAACTGGAAGACGTAG 59.827 60.0 0.00 0.00 42.00 3.51 R
3025 3752 0.740737 GCACCCGATTCAATCCAAGG 59.259 55.0 0.00 0.00 0.00 3.61 R
3168 3895 0.175760 GACAGCTGGTCGGATAGCAA 59.824 55.0 19.93 0.00 42.29 3.91 R
4401 5222 0.179220 CGACCAAGACGAGAGACGAC 60.179 60.0 0.00 0.00 45.77 4.34 R
4412 5233 0.250295 CAAGCCCAAGACGACCAAGA 60.250 55.0 0.00 0.00 0.00 3.02 R
4413 5234 0.250295 TCAAGCCCAAGACGACCAAG 60.250 55.0 0.00 0.00 0.00 3.61 R
5105 8709 0.179103 GCAAAGGCATGCATGTACCC 60.179 55.0 26.79 19.27 45.70 3.69 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
76 77 6.924060 CAGCGGTAGTAGCAAAATTCTACTAT 59.076 38.462 12.96 0.00 45.72 2.12
539 847 2.496942 GAGGGGATCCACGTTCGTA 58.503 57.895 15.23 0.00 34.83 3.43
671 979 0.531753 GCACCGCACCCAAATGTTTT 60.532 50.000 0.00 0.00 0.00 2.43
726 1034 8.052141 AGATTTTCACCATTTCCTTTTTCCAAA 58.948 29.630 0.00 0.00 0.00 3.28
809 1120 2.100631 GGCAACGACATCCCACGAG 61.101 63.158 0.00 0.00 0.00 4.18
843 1154 2.460918 CTACTAGCGTCCAATTCCGTG 58.539 52.381 0.00 0.00 0.00 4.94
859 1170 2.228582 TCCGTGCACCAAATCAAATCAG 59.771 45.455 12.15 0.00 0.00 2.90
877 1188 2.993853 CTCCCTGACCAGCCCTTC 59.006 66.667 0.00 0.00 0.00 3.46
878 1189 2.610859 TCCCTGACCAGCCCTTCC 60.611 66.667 0.00 0.00 0.00 3.46
886 1197 2.434359 CAGCCCTTCCGACGGTTC 60.434 66.667 14.79 0.00 0.00 3.62
916 1228 1.003262 CGCAACGCAAAACCTCCATG 61.003 55.000 0.00 0.00 0.00 3.66
1036 1349 0.734942 CTACATATAACCCGCCCGCG 60.735 60.000 0.00 0.00 39.44 6.46
1788 2101 3.508762 ACACGCTATACACTTGCTGTAC 58.491 45.455 0.00 0.00 38.22 2.90
1794 2107 2.251869 TACACTTGCTGTACGCGTAG 57.748 50.000 21.25 12.38 43.27 3.51
1814 2127 6.183360 GCGTAGATTCTTTCCATTTACTTGCT 60.183 38.462 0.00 0.00 0.00 3.91
1815 2128 7.011109 GCGTAGATTCTTTCCATTTACTTGCTA 59.989 37.037 0.00 0.00 0.00 3.49
2040 2353 3.124270 CTATGGCGTTGGCGTGCA 61.124 61.111 0.00 0.00 41.24 4.57
2060 2373 3.399181 TGTCATCGGCCCACCCTC 61.399 66.667 0.00 0.00 0.00 4.30
2074 2390 0.910088 ACCCTCCTCAAGCTACCACC 60.910 60.000 0.00 0.00 0.00 4.61
2075 2391 0.618968 CCCTCCTCAAGCTACCACCT 60.619 60.000 0.00 0.00 0.00 4.00
2076 2392 0.827368 CCTCCTCAAGCTACCACCTC 59.173 60.000 0.00 0.00 0.00 3.85
2117 2433 2.286121 CAGCCCCCTCTAACCCCA 60.286 66.667 0.00 0.00 0.00 4.96
2135 2451 2.892852 CCCAATGTTTTCTCCAGCTTCA 59.107 45.455 0.00 0.00 0.00 3.02
2152 2468 1.380380 CAATGAGCCCCCACCCTTC 60.380 63.158 0.00 0.00 0.00 3.46
2159 2475 2.311854 CCCCCACCCTTCTCTGCAT 61.312 63.158 0.00 0.00 0.00 3.96
2168 2484 2.426522 CCTTCTCTGCATCGAAACCAA 58.573 47.619 0.00 0.00 0.00 3.67
2232 2548 1.076485 GTCCCAGGCTACGGGTCTA 60.076 63.158 9.58 0.00 44.81 2.59
2248 2564 0.178987 TCTATCCTGACTCGGCCTCC 60.179 60.000 0.00 0.00 0.00 4.30
2259 2603 1.450312 CGGCCTCCCTGTCATTCAC 60.450 63.158 0.00 0.00 0.00 3.18
2300 2968 2.932614 CCTCAAGTCGCATTCTTCGAAT 59.067 45.455 0.00 0.00 37.73 3.34
2306 2974 2.408704 GTCGCATTCTTCGAATATCGGG 59.591 50.000 0.00 0.00 40.88 5.14
2362 3031 7.413644 CAATGACAAAACCCACAAAAATAACC 58.586 34.615 0.00 0.00 0.00 2.85
2401 3070 7.040686 ACGGATGCTAAATAAGTTGTTTTGTCT 60.041 33.333 2.74 0.00 0.00 3.41
2433 3102 1.732941 TGTGTCACGTGCAGTCTTTT 58.267 45.000 11.67 0.00 0.00 2.27
2462 3135 2.339418 ACGTGTCTTGTGACGTTTTCA 58.661 42.857 0.00 0.00 46.27 2.69
2481 3154 7.517575 CGTTTTCAAAAATAGGTTTTCGCCAAT 60.518 33.333 0.00 0.00 37.32 3.16
2491 3164 3.500680 GGTTTTCGCCAATGTGAGAACTA 59.499 43.478 8.71 0.00 42.58 2.24
2590 3313 6.405397 CCTCGGGTTTTGGTGAATTTATAAGG 60.405 42.308 0.00 0.00 0.00 2.69
2605 3328 8.931385 AATTTATAAGGTCATGTGAACAATGC 57.069 30.769 0.34 0.00 33.22 3.56
2606 3329 7.459795 TTTATAAGGTCATGTGAACAATGCA 57.540 32.000 0.34 0.00 33.22 3.96
2608 3331 3.861276 AGGTCATGTGAACAATGCATG 57.139 42.857 0.00 0.00 40.76 4.06
2670 3393 5.982890 AACCTTGATACTTGACCATTTGG 57.017 39.130 0.00 0.00 42.17 3.28
2671 3394 3.763897 ACCTTGATACTTGACCATTTGGC 59.236 43.478 0.00 0.00 39.32 4.52
2687 3411 7.227156 ACCATTTGGCCAATACTCTTCTATAG 58.773 38.462 21.26 1.86 39.32 1.31
2763 3489 3.370953 CCCCATCTTAGAACCTCAGGTTG 60.371 52.174 15.92 0.00 46.95 3.77
2779 3505 3.056107 CAGGTTGAGTGACCCGAATCTAA 60.056 47.826 0.00 0.00 40.73 2.10
2826 3552 3.008835 TCGAAGAGAATTCCCCGTCTA 57.991 47.619 0.65 0.00 0.00 2.59
2862 3588 0.813210 TTTTGCTTTGCTTTGGCCCG 60.813 50.000 0.00 0.00 37.74 6.13
2869 3595 1.531739 TTGCTTTGGCCCGTCATTCC 61.532 55.000 0.00 0.00 37.74 3.01
2882 3608 4.644685 CCCGTCATTCCTTTCATTATTGGT 59.355 41.667 0.00 0.00 0.00 3.67
2920 3646 3.552273 GCCTTGCAGATAATTCATGCCAG 60.552 47.826 6.91 5.62 39.22 4.85
2969 3696 8.121305 TCACCTGATAAAAGTATTGCAACAAT 57.879 30.769 0.00 0.00 0.00 2.71
2989 3716 6.369799 ACAATGCGTTTTGGATTATTTTTGC 58.630 32.000 0.00 0.00 36.34 3.68
2990 3717 6.204495 ACAATGCGTTTTGGATTATTTTTGCT 59.796 30.769 0.00 0.00 36.34 3.91
3000 3727 3.866883 TTATTTTTGCTAGGGTGCTGC 57.133 42.857 0.00 0.00 0.00 5.25
3025 3752 3.911719 AGCCCATGGGTCATTTCTC 57.088 52.632 31.58 12.50 37.65 2.87
3032 3759 3.373438 CCATGGGTCATTTCTCCTTGGAT 60.373 47.826 2.85 0.00 44.15 3.41
3048 3775 1.173043 GGATTGAATCGGGTGCAACA 58.827 50.000 3.06 0.00 39.98 3.33
3064 3791 6.419710 GGGTGCAACAGTGAAAAGTTTAATAC 59.580 38.462 3.06 0.00 39.98 1.89
3074 3801 9.716531 AGTGAAAAGTTTAATACTACTACCACC 57.283 33.333 0.00 0.00 35.54 4.61
3075 3802 9.492973 GTGAAAAGTTTAATACTACTACCACCA 57.507 33.333 0.00 0.00 35.54 4.17
3076 3803 9.492973 TGAAAAGTTTAATACTACTACCACCAC 57.507 33.333 0.00 0.00 35.54 4.16
3078 3805 6.840780 AGTTTAATACTACTACCACCACGT 57.159 37.500 0.00 0.00 34.56 4.49
3079 3806 7.938140 AGTTTAATACTACTACCACCACGTA 57.062 36.000 0.00 0.00 34.56 3.57
3080 3807 7.989826 AGTTTAATACTACTACCACCACGTAG 58.010 38.462 0.00 0.00 41.32 3.51
3081 3808 4.907879 AATACTACTACCACCACGTAGC 57.092 45.455 0.00 0.00 39.53 3.58
3083 3810 2.089980 ACTACTACCACCACGTAGCAG 58.910 52.381 0.00 0.00 39.53 4.24
3084 3811 1.404391 CTACTACCACCACGTAGCAGG 59.596 57.143 0.00 0.00 39.53 4.85
3085 3812 1.255667 ACTACCACCACGTAGCAGGG 61.256 60.000 0.00 0.00 39.53 4.45
3086 3813 0.968901 CTACCACCACGTAGCAGGGA 60.969 60.000 0.00 0.00 29.96 4.20
3087 3814 0.968901 TACCACCACGTAGCAGGGAG 60.969 60.000 0.00 0.00 0.00 4.30
3107 3834 1.151899 AGGGTACTGGCTTGTCCCA 60.152 57.895 15.01 0.00 40.48 4.37
3117 3844 1.339151 GGCTTGTCCCAATCGAAGTCT 60.339 52.381 0.00 0.00 0.00 3.24
3168 3895 8.561738 AACAAGTCCAGAATATGTTATCGTTT 57.438 30.769 0.00 0.00 32.81 3.60
3251 3978 2.200067 GCTCAGATCCATGTCGACTTG 58.800 52.381 21.24 21.24 0.00 3.16
3539 4266 6.373779 CATGATCGCCATTACCTATTGTTTC 58.626 40.000 0.00 0.00 31.94 2.78
3555 4282 9.878599 CCTATTGTTTCTTTGTTTGTACTACTG 57.121 33.333 0.00 0.00 0.00 2.74
3598 4331 5.655488 CATTAACTGCTGTCAGCTACTACT 58.345 41.667 24.76 6.96 44.10 2.57
3599 4332 6.796426 CATTAACTGCTGTCAGCTACTACTA 58.204 40.000 24.76 2.56 44.10 1.82
3600 4333 4.705337 AACTGCTGTCAGCTACTACTAC 57.295 45.455 24.76 0.00 44.10 2.73
3601 4334 2.678836 ACTGCTGTCAGCTACTACTACG 59.321 50.000 24.76 5.53 44.10 3.51
3602 4335 2.678836 CTGCTGTCAGCTACTACTACGT 59.321 50.000 24.76 0.00 42.97 3.57
3603 4336 3.865446 TGCTGTCAGCTACTACTACGTA 58.135 45.455 24.76 0.00 42.97 3.57
3604 4337 3.869832 TGCTGTCAGCTACTACTACGTAG 59.130 47.826 24.76 20.97 42.97 3.51
3606 4339 4.260294 GCTGTCAGCTACTACTACGTAGTG 60.260 50.000 33.23 24.68 46.99 2.74
3636 4457 9.116067 TGCTCTAAATTATTGTTACCGCTTAAT 57.884 29.630 0.00 0.00 0.00 1.40
3673 4494 2.797850 CGTGCATGCACTTGTGCG 60.798 61.111 39.46 26.09 44.11 5.34
3684 4505 2.708514 CACTTGTGCGTTTCAACTGAG 58.291 47.619 0.00 0.00 0.00 3.35
3852 4673 1.218316 GGTGACCATCCACGACCTC 59.782 63.158 0.00 0.00 37.91 3.85
4212 5033 2.511600 GGGTTCGTGATGGGCTCG 60.512 66.667 0.00 0.00 34.98 5.03
4311 5132 2.391821 GTGTTCATCGCGCTGTCG 59.608 61.111 10.07 0.00 39.07 4.35
4411 5232 2.348660 ACTAGTCTTGGTCGTCTCTCG 58.651 52.381 0.00 0.00 41.41 4.04
4412 5233 2.289569 ACTAGTCTTGGTCGTCTCTCGT 60.290 50.000 0.00 0.00 40.80 4.18
4413 5234 1.158434 AGTCTTGGTCGTCTCTCGTC 58.842 55.000 0.00 0.00 40.80 4.20
4414 5235 1.158434 GTCTTGGTCGTCTCTCGTCT 58.842 55.000 0.00 0.00 40.80 4.18
4415 5236 1.536331 GTCTTGGTCGTCTCTCGTCTT 59.464 52.381 0.00 0.00 40.80 3.01
4416 5237 1.535896 TCTTGGTCGTCTCTCGTCTTG 59.464 52.381 0.00 0.00 40.80 3.02
4417 5238 0.596577 TTGGTCGTCTCTCGTCTTGG 59.403 55.000 0.00 0.00 40.80 3.61
4418 5239 0.536687 TGGTCGTCTCTCGTCTTGGT 60.537 55.000 0.00 0.00 40.80 3.67
4419 5240 0.168568 GGTCGTCTCTCGTCTTGGTC 59.831 60.000 0.00 0.00 40.80 4.02
4525 5346 3.428870 ACGAGTGTGTGCTTATTCTTTCG 59.571 43.478 0.00 0.00 0.00 3.46
4537 5358 8.064814 GTGCTTATTCTTTCGTTGAGATATTCC 58.935 37.037 0.00 0.00 0.00 3.01
4601 5422 2.015736 ATTCAGTGTCGTGCCTGATC 57.984 50.000 0.00 0.00 37.54 2.92
4608 5429 1.136891 TGTCGTGCCTGATCGATTCAT 59.863 47.619 0.00 0.00 38.32 2.57
4633 5454 7.470935 TTGGAATGTTCAATCATGTTGAGAT 57.529 32.000 9.59 5.44 0.00 2.75
4637 5458 5.556355 TGTTCAATCATGTTGAGATGAGC 57.444 39.130 9.59 0.00 35.81 4.26
4661 5482 0.738389 ATAAACGGAAATGCGCAGGG 59.262 50.000 18.32 5.29 0.00 4.45
4701 5522 0.391661 CATCTGCCAAGTACTGCCGT 60.392 55.000 0.00 0.00 0.00 5.68
4707 5528 1.374252 CAAGTACTGCCGTCCGCTT 60.374 57.895 0.00 0.00 38.78 4.68
4714 5535 2.729491 GCCGTCCGCTTGTTTTGC 60.729 61.111 0.00 0.00 0.00 3.68
4718 5539 1.285950 GTCCGCTTGTTTTGCCTCC 59.714 57.895 0.00 0.00 0.00 4.30
4719 5540 1.901464 TCCGCTTGTTTTGCCTCCC 60.901 57.895 0.00 0.00 0.00 4.30
4725 5546 2.162681 CTTGTTTTGCCTCCCGATTCT 58.837 47.619 0.00 0.00 0.00 2.40
4726 5547 1.821216 TGTTTTGCCTCCCGATTCTC 58.179 50.000 0.00 0.00 0.00 2.87
4727 5548 0.727398 GTTTTGCCTCCCGATTCTCG 59.273 55.000 0.00 0.00 40.07 4.04
4733 5554 0.312416 CCTCCCGATTCTCGCAGTAG 59.688 60.000 0.00 0.00 38.82 2.57
4738 5559 2.223829 CCCGATTCTCGCAGTAGTTCAT 60.224 50.000 0.00 0.00 38.82 2.57
4743 5564 1.134367 TCTCGCAGTAGTTCATTCCCG 59.866 52.381 0.00 0.00 0.00 5.14
4745 5566 0.739462 CGCAGTAGTTCATTCCCGCA 60.739 55.000 0.00 0.00 0.00 5.69
4749 5570 1.135083 AGTAGTTCATTCCCGCACGAG 60.135 52.381 0.00 0.00 0.00 4.18
4762 5583 1.990563 CGCACGAGGGTACAGTAAAAG 59.009 52.381 0.00 0.00 0.00 2.27
4768 5589 5.350640 CACGAGGGTACAGTAAAAGAAATCC 59.649 44.000 0.00 0.00 0.00 3.01
4770 5591 5.570034 CGAGGGTACAGTAAAAGAAATCCCA 60.570 44.000 0.00 0.00 35.31 4.37
4779 5605 7.979537 ACAGTAAAAGAAATCCCACAAAAAGTC 59.020 33.333 0.00 0.00 0.00 3.01
4791 5617 5.452356 CCCACAAAAAGTCTCAAGCTTCAAT 60.452 40.000 0.00 0.00 0.00 2.57
4877 5703 2.486472 ACTGCCAAGTTCCAGAGATG 57.514 50.000 6.98 0.00 30.14 2.90
4881 5707 4.202461 ACTGCCAAGTTCCAGAGATGTAAA 60.202 41.667 6.98 0.00 30.14 2.01
4885 5711 5.163612 GCCAAGTTCCAGAGATGTAAATTCC 60.164 44.000 0.00 0.00 0.00 3.01
4923 8512 4.330620 TCGGTCGTAGCCACAAAATAATTC 59.669 41.667 0.00 0.00 0.00 2.17
5006 8607 9.643693 ACAAAATGGATCTTATTTAAAGCACTG 57.356 29.630 8.29 5.22 0.00 3.66
5012 8613 5.643379 TCTTATTTAAAGCACTGGCCAAG 57.357 39.130 7.01 3.21 42.56 3.61
5091 8693 8.445275 AAACTTTAAAAATCGGAAGCCAAAAT 57.555 26.923 0.00 0.00 0.00 1.82
5098 8702 7.793927 AAAATCGGAAGCCAAAATAAAAACA 57.206 28.000 0.00 0.00 0.00 2.83
5104 8708 3.389221 AGCCAAAATAAAAACAGGCACG 58.611 40.909 0.00 0.00 44.34 5.34
5105 8709 2.478514 GCCAAAATAAAAACAGGCACGG 59.521 45.455 0.00 0.00 41.63 4.94
5114 8718 2.824041 CAGGCACGGGGTACATGC 60.824 66.667 0.00 0.00 38.68 4.06
5115 8719 3.326578 AGGCACGGGGTACATGCA 61.327 61.111 11.29 0.00 41.27 3.96
5120 8724 2.192979 CGGGGTACATGCATGCCT 59.807 61.111 26.53 10.82 0.00 4.75
5121 8725 1.453745 CGGGGTACATGCATGCCTT 60.454 57.895 26.53 10.06 0.00 4.35
5122 8726 1.037030 CGGGGTACATGCATGCCTTT 61.037 55.000 26.53 9.67 0.00 3.11
5160 8764 8.624776 CCACAAATCTTCTCCCTATTCATAAAC 58.375 37.037 0.00 0.00 0.00 2.01
5162 8766 9.401058 ACAAATCTTCTCCCTATTCATAAACAG 57.599 33.333 0.00 0.00 0.00 3.16
5163 8767 9.401058 CAAATCTTCTCCCTATTCATAAACAGT 57.599 33.333 0.00 0.00 0.00 3.55
5164 8768 9.981460 AAATCTTCTCCCTATTCATAAACAGTT 57.019 29.630 0.00 0.00 0.00 3.16
5216 8820 5.973651 ATGCACACTCGTGTATATTCAAG 57.026 39.130 1.90 0.00 45.37 3.02
5217 8821 5.066968 TGCACACTCGTGTATATTCAAGA 57.933 39.130 1.90 0.00 45.50 3.02
5218 8822 5.474825 TGCACACTCGTGTATATTCAAGAA 58.525 37.500 1.90 0.00 45.50 2.52
5219 8823 5.929415 TGCACACTCGTGTATATTCAAGAAA 59.071 36.000 1.90 0.00 45.50 2.52
5220 8824 6.425417 TGCACACTCGTGTATATTCAAGAAAA 59.575 34.615 1.90 0.00 45.50 2.29
5221 8825 7.041712 TGCACACTCGTGTATATTCAAGAAAAA 60.042 33.333 1.90 0.00 45.50 1.94
5256 8861 2.616842 CCAAGTCGCCACTTTAACTTGT 59.383 45.455 11.76 0.00 44.45 3.16
5257 8862 3.548014 CCAAGTCGCCACTTTAACTTGTG 60.548 47.826 11.76 0.00 44.45 3.33
5263 8868 3.303132 CGCCACTTTAACTTGTGTGAGTC 60.303 47.826 0.00 0.00 32.72 3.36
5268 8873 0.319211 TAACTTGTGTGAGTCGCCGG 60.319 55.000 0.00 0.00 0.00 6.13
5300 8905 0.905357 ACCTACTTGCCCAGCTAGTG 59.095 55.000 12.84 1.44 43.48 2.74
5331 8936 3.706600 ACAGGAAATTTTGCCATGCAT 57.293 38.095 0.00 0.00 38.76 3.96
5332 8937 4.023726 ACAGGAAATTTTGCCATGCATT 57.976 36.364 0.00 0.00 38.76 3.56
5356 8961 2.359967 CCCTTCACGTCTCCCCCTC 61.360 68.421 0.00 0.00 0.00 4.30
5358 8963 2.284405 TTCACGTCTCCCCCTCCC 60.284 66.667 0.00 0.00 0.00 4.30
5369 8974 4.693915 CCCTCCCCCAGGTTCCCA 62.694 72.222 0.00 0.00 41.51 4.37
5373 8978 0.995675 CTCCCCCAGGTTCCCATGAT 60.996 60.000 0.00 0.00 0.00 2.45
5375 8980 1.231018 CCCCCAGGTTCCCATGATAA 58.769 55.000 0.00 0.00 0.00 1.75
5436 9041 2.276732 CACATAAGCCATGGGGTAGG 57.723 55.000 15.13 0.00 39.13 3.18
5524 9129 9.816354 ATTAAATAAACTGCCATGGTCATAAAC 57.184 29.630 14.67 0.00 0.00 2.01
5526 9131 6.849085 ATAAACTGCCATGGTCATAAACAA 57.151 33.333 14.67 0.00 0.00 2.83
5527 9132 5.743636 AAACTGCCATGGTCATAAACAAT 57.256 34.783 14.67 0.00 0.00 2.71
5536 9142 7.467131 GCCATGGTCATAAACAATAAAAATGCC 60.467 37.037 14.67 0.00 0.00 4.40
5562 9168 9.174166 CATGGTAGCTACAAATAAAACTACCTT 57.826 33.333 24.75 8.55 46.36 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 7.581213 ACATCCATGTAGAAAAGTTTCAACA 57.419 32.000 6.56 0.00 39.68 3.33
76 77 0.040514 CGACGATTTTGCTGCAACCA 60.041 50.000 15.72 5.18 0.00 3.67
250 252 1.692519 ACCGTCACCTAGAACAGCTTT 59.307 47.619 0.00 0.00 0.00 3.51
499 805 2.444895 CCTTCTCTCCTCCCGGGG 60.445 72.222 23.50 6.77 35.33 5.73
539 847 1.566231 CATCCCCTACCTTCAGCCTTT 59.434 52.381 0.00 0.00 0.00 3.11
627 935 1.429423 CGAATTTTCGGCAGGCTCC 59.571 57.895 4.81 0.00 46.30 4.70
659 967 6.839134 AGAACTAGAAAGGAAAACATTTGGGT 59.161 34.615 0.00 0.00 0.00 4.51
671 979 6.935240 TGAATTCTCCAGAACTAGAAAGGA 57.065 37.500 7.05 0.00 36.80 3.36
715 1023 6.331369 TCTAATGCTCTGTTTGGAAAAAGG 57.669 37.500 0.00 0.00 0.00 3.11
726 1034 6.422100 CGCACTTGTATAATCTAATGCTCTGT 59.578 38.462 0.00 0.00 0.00 3.41
809 1120 2.869636 GCTAGTAGGATCTGCATGTGGC 60.870 54.545 0.00 0.00 45.13 5.01
843 1154 2.417787 GGGAGCTGATTTGATTTGGTGC 60.418 50.000 0.00 0.00 0.00 5.01
859 1170 3.334054 AAGGGCTGGTCAGGGAGC 61.334 66.667 0.00 0.00 34.23 4.70
916 1228 4.159857 GTGGATGTAGCTCGATCGATTAC 58.840 47.826 19.78 21.81 0.00 1.89
1048 1361 1.264288 GTGTTACAGTGCTGTTGGCTC 59.736 52.381 10.28 0.00 41.83 4.70
1609 1922 0.172803 CCCCGAACTGGAAGACGTAG 59.827 60.000 0.00 0.00 42.00 3.51
1788 2101 5.968387 AGTAAATGGAAAGAATCTACGCG 57.032 39.130 3.53 3.53 0.00 6.01
1894 2207 2.747507 AAACGCATCTTGGCCGTTGC 62.748 55.000 0.00 3.45 33.29 4.17
2040 2353 4.388499 GGTGGGCCGATGACACGT 62.388 66.667 0.00 0.00 36.02 4.49
2044 2357 4.176752 GGAGGGTGGGCCGATGAC 62.177 72.222 0.00 0.00 34.97 3.06
2060 2373 1.480137 CAGAGAGGTGGTAGCTTGAGG 59.520 57.143 0.00 0.00 0.00 3.86
2074 2390 3.074999 GCAGGAGACCGGCAGAGAG 62.075 68.421 0.00 0.00 43.90 3.20
2075 2391 3.071206 GCAGGAGACCGGCAGAGA 61.071 66.667 0.00 0.00 43.90 3.10
2076 2392 4.154347 GGCAGGAGACCGGCAGAG 62.154 72.222 13.89 0.00 46.17 3.35
2117 2433 5.566230 GCTCATTGAAGCTGGAGAAAACATT 60.566 40.000 0.00 0.00 39.27 2.71
2135 2451 1.544917 AGAAGGGTGGGGGCTCATT 60.545 57.895 0.00 0.00 0.00 2.57
2152 2468 3.426695 GGTTGATTGGTTTCGATGCAGAG 60.427 47.826 0.00 0.00 0.00 3.35
2159 2475 3.349879 GGGGGTTGATTGGTTTCGA 57.650 52.632 0.00 0.00 0.00 3.71
2182 2498 4.414732 GACGTCCCTTATGGCGAC 57.585 61.111 3.51 0.00 37.18 5.19
2232 2548 2.444895 GGGAGGCCGAGTCAGGAT 60.445 66.667 0.00 0.00 0.00 3.24
2248 2564 1.811266 CGCCGAGGTGAATGACAGG 60.811 63.158 0.00 0.00 0.00 4.00
2259 2603 3.827898 GAGACAGGGACGCCGAGG 61.828 72.222 0.00 0.00 0.00 4.63
2300 2968 1.077645 GCAACACGCGTTACCCGATA 61.078 55.000 10.22 0.00 39.56 2.92
2306 2974 3.359580 CCTAAAATTGCAACACGCGTTAC 59.640 43.478 10.22 0.00 46.97 2.50
2362 3031 1.202290 GCATCCGTTTGGTATTGGCAG 60.202 52.381 0.00 0.00 36.30 4.85
2401 3070 5.096169 CACGTGACACATTTTAACCACAAA 58.904 37.500 10.90 0.00 0.00 2.83
2433 3102 5.978919 ACGTCACAAGACACGTTTTTATAGA 59.021 36.000 0.00 0.00 46.93 1.98
2462 3135 5.848406 TCACATTGGCGAAAACCTATTTTT 58.152 33.333 0.00 0.00 38.17 1.94
2481 3154 4.675976 TTTCCGGTTCTTAGTTCTCACA 57.324 40.909 0.00 0.00 0.00 3.58
2491 3164 3.343941 TCCGATCATTTTCCGGTTCTT 57.656 42.857 0.00 0.00 43.40 2.52
2590 3313 7.019774 AGTATACATGCATTGTTCACATGAC 57.980 36.000 5.50 0.00 43.04 3.06
2605 3328 8.432110 TGTTGCACCTTTGTATAGTATACATG 57.568 34.615 20.94 16.94 0.00 3.21
2670 3393 4.828072 CCCCCTATAGAAGAGTATTGGC 57.172 50.000 0.00 0.00 0.00 4.52
2763 3489 4.201822 GCACAAATTAGATTCGGGTCACTC 60.202 45.833 0.00 0.00 0.00 3.51
2779 3505 1.865865 ACGACGAGAAGTGCACAAAT 58.134 45.000 21.04 4.35 0.00 2.32
2826 3552 3.099141 CAAAATGTTCCCTAGGGTGCAT 58.901 45.455 27.58 25.67 36.47 3.96
2862 3588 5.812127 GGCAACCAATAATGAAAGGAATGAC 59.188 40.000 0.00 0.00 0.00 3.06
2869 3595 4.159135 AGAGCTGGCAACCAATAATGAAAG 59.841 41.667 0.00 0.00 30.80 2.62
2882 3608 0.914644 AGGCATCTAAGAGCTGGCAA 59.085 50.000 0.00 0.00 39.07 4.52
2920 3646 1.202440 TGCCAATACCGATACGTGGTC 60.202 52.381 0.00 0.00 40.96 4.02
2969 3696 5.866633 CCTAGCAAAAATAATCCAAAACGCA 59.133 36.000 0.00 0.00 0.00 5.24
2989 3716 2.194056 CCCATGGCAGCACCCTAG 59.806 66.667 6.09 0.00 37.83 3.02
2990 3717 2.286045 TCCCATGGCAGCACCCTA 60.286 61.111 6.09 0.00 37.83 3.53
3025 3752 0.740737 GCACCCGATTCAATCCAAGG 59.259 55.000 0.00 0.00 0.00 3.61
3032 3759 0.950836 CACTGTTGCACCCGATTCAA 59.049 50.000 0.00 0.00 0.00 2.69
3048 3775 9.716531 GGTGGTAGTAGTATTAAACTTTTCACT 57.283 33.333 0.00 0.00 39.80 3.41
3064 3791 1.404391 CCTGCTACGTGGTGGTAGTAG 59.596 57.143 0.00 9.85 46.47 2.57
3071 3798 1.949847 CTCCTCCCTGCTACGTGGTG 61.950 65.000 0.00 0.00 0.00 4.17
3072 3799 1.682684 CTCCTCCCTGCTACGTGGT 60.683 63.158 0.00 0.00 0.00 4.16
3073 3800 2.427245 CCTCCTCCCTGCTACGTGG 61.427 68.421 0.00 0.00 0.00 4.94
3074 3801 2.427245 CCCTCCTCCCTGCTACGTG 61.427 68.421 0.00 0.00 0.00 4.49
3075 3802 1.578215 TACCCTCCTCCCTGCTACGT 61.578 60.000 0.00 0.00 0.00 3.57
3076 3803 1.108132 GTACCCTCCTCCCTGCTACG 61.108 65.000 0.00 0.00 0.00 3.51
3078 3805 0.261991 CAGTACCCTCCTCCCTGCTA 59.738 60.000 0.00 0.00 0.00 3.49
3079 3806 1.002274 CAGTACCCTCCTCCCTGCT 59.998 63.158 0.00 0.00 0.00 4.24
3080 3807 2.066999 CCAGTACCCTCCTCCCTGC 61.067 68.421 0.00 0.00 0.00 4.85
3081 3808 2.066999 GCCAGTACCCTCCTCCCTG 61.067 68.421 0.00 0.00 0.00 4.45
3083 3810 1.307084 AAGCCAGTACCCTCCTCCC 60.307 63.158 0.00 0.00 0.00 4.30
3084 3811 0.910088 ACAAGCCAGTACCCTCCTCC 60.910 60.000 0.00 0.00 0.00 4.30
3085 3812 0.537653 GACAAGCCAGTACCCTCCTC 59.462 60.000 0.00 0.00 0.00 3.71
3086 3813 0.910088 GGACAAGCCAGTACCCTCCT 60.910 60.000 0.00 0.00 36.34 3.69
3087 3814 1.602771 GGACAAGCCAGTACCCTCC 59.397 63.158 0.00 0.00 36.34 4.30
3107 3834 2.632996 TGGGTGAACAGAGACTTCGATT 59.367 45.455 0.00 0.00 0.00 3.34
3168 3895 0.175760 GACAGCTGGTCGGATAGCAA 59.824 55.000 19.93 0.00 42.29 3.91
3251 3978 7.063074 TGTCTCTTTAAGCTATCTTAAACACGC 59.937 37.037 7.30 1.60 45.05 5.34
3312 4039 2.320781 CACAGCCCTACAGCCTAGTAT 58.679 52.381 0.00 0.00 0.00 2.12
3539 4266 3.880490 TGTGGGCAGTAGTACAAACAAAG 59.120 43.478 2.52 0.00 0.00 2.77
3598 4331 9.726232 CAATAATTTAGAGCAGTACACTACGTA 57.274 33.333 0.00 0.00 0.00 3.57
3599 4332 8.248945 ACAATAATTTAGAGCAGTACACTACGT 58.751 33.333 0.00 0.00 0.00 3.57
3600 4333 8.630278 ACAATAATTTAGAGCAGTACACTACG 57.370 34.615 0.00 0.00 0.00 3.51
3603 4336 9.379791 GGTAACAATAATTTAGAGCAGTACACT 57.620 33.333 0.00 0.00 0.00 3.55
3604 4337 8.325997 CGGTAACAATAATTTAGAGCAGTACAC 58.674 37.037 0.00 0.00 0.00 2.90
3606 4339 7.224167 AGCGGTAACAATAATTTAGAGCAGTAC 59.776 37.037 0.00 0.00 0.00 2.73
3636 4457 3.055675 ACGGCCAGCACAGTATTTACTTA 60.056 43.478 2.24 0.00 33.46 2.24
3637 4458 2.290071 ACGGCCAGCACAGTATTTACTT 60.290 45.455 2.24 0.00 33.46 2.24
3638 4459 1.278127 ACGGCCAGCACAGTATTTACT 59.722 47.619 2.24 0.00 36.90 2.24
3673 4494 2.870411 ACGTGGTTAGCTCAGTTGAAAC 59.130 45.455 0.00 0.00 0.00 2.78
3684 4505 1.154225 GCACATGCACGTGGTTAGC 60.154 57.895 18.88 2.25 41.59 3.09
4311 5132 2.279120 CAGAGATCGACGGCAGCC 60.279 66.667 0.00 0.00 0.00 4.85
4401 5222 0.179220 CGACCAAGACGAGAGACGAC 60.179 60.000 0.00 0.00 45.77 4.34
4402 5223 0.602106 ACGACCAAGACGAGAGACGA 60.602 55.000 0.00 0.00 45.77 4.20
4404 5225 1.158434 AGACGACCAAGACGAGAGAC 58.842 55.000 0.00 0.00 34.70 3.36
4405 5226 1.535896 CAAGACGACCAAGACGAGAGA 59.464 52.381 0.00 0.00 34.70 3.10
4406 5227 1.401670 CCAAGACGACCAAGACGAGAG 60.402 57.143 0.00 0.00 34.70 3.20
4407 5228 0.596577 CCAAGACGACCAAGACGAGA 59.403 55.000 0.00 0.00 34.70 4.04
4408 5229 0.388649 CCCAAGACGACCAAGACGAG 60.389 60.000 0.00 0.00 34.70 4.18
4409 5230 1.663739 CCCAAGACGACCAAGACGA 59.336 57.895 0.00 0.00 34.70 4.20
4410 5231 2.027625 GCCCAAGACGACCAAGACG 61.028 63.158 0.00 0.00 0.00 4.18
4411 5232 0.250338 AAGCCCAAGACGACCAAGAC 60.250 55.000 0.00 0.00 0.00 3.01
4412 5233 0.250295 CAAGCCCAAGACGACCAAGA 60.250 55.000 0.00 0.00 0.00 3.02
4413 5234 0.250295 TCAAGCCCAAGACGACCAAG 60.250 55.000 0.00 0.00 0.00 3.61
4414 5235 0.534203 GTCAAGCCCAAGACGACCAA 60.534 55.000 0.00 0.00 0.00 3.67
4415 5236 1.070786 GTCAAGCCCAAGACGACCA 59.929 57.895 0.00 0.00 0.00 4.02
4416 5237 0.670854 GAGTCAAGCCCAAGACGACC 60.671 60.000 0.00 0.00 39.67 4.79
4417 5238 0.318762 AGAGTCAAGCCCAAGACGAC 59.681 55.000 0.00 0.00 39.67 4.34
4418 5239 1.048601 AAGAGTCAAGCCCAAGACGA 58.951 50.000 0.00 0.00 39.67 4.20
4419 5240 1.151668 CAAGAGTCAAGCCCAAGACG 58.848 55.000 0.00 0.00 39.67 4.18
4525 5346 8.202745 ACAAAGAATCGAAGGAATATCTCAAC 57.797 34.615 0.00 0.00 0.00 3.18
4601 5422 7.490079 ACATGATTGAACATTCCAAATGAATCG 59.510 33.333 0.00 0.00 41.85 3.34
4608 5429 7.287512 TCTCAACATGATTGAACATTCCAAA 57.712 32.000 0.00 0.00 0.00 3.28
4633 5454 4.671377 GCATTTCCGTTTATGAATGCTCA 58.329 39.130 11.43 0.00 46.56 4.26
4637 5458 3.433709 TGCGCATTTCCGTTTATGAATG 58.566 40.909 5.66 0.00 33.71 2.67
4701 5522 1.901464 GGGAGGCAAAACAAGCGGA 60.901 57.895 0.00 0.00 0.00 5.54
4707 5528 1.821216 GAGAATCGGGAGGCAAAACA 58.179 50.000 0.00 0.00 0.00 2.83
4725 5546 0.459585 GCGGGAATGAACTACTGCGA 60.460 55.000 0.00 0.00 0.00 5.10
4726 5547 0.739462 TGCGGGAATGAACTACTGCG 60.739 55.000 0.00 0.00 38.03 5.18
4727 5548 0.727398 GTGCGGGAATGAACTACTGC 59.273 55.000 0.00 0.00 35.83 4.40
4733 5554 3.486263 CCTCGTGCGGGAATGAAC 58.514 61.111 0.00 0.00 0.00 3.18
4743 5564 3.308438 TCTTTTACTGTACCCTCGTGC 57.692 47.619 0.00 0.00 0.00 5.34
4745 5566 5.485620 GGATTTCTTTTACTGTACCCTCGT 58.514 41.667 0.00 0.00 0.00 4.18
4749 5570 5.318630 TGTGGGATTTCTTTTACTGTACCC 58.681 41.667 0.00 0.00 35.82 3.69
4752 5573 8.973182 ACTTTTTGTGGGATTTCTTTTACTGTA 58.027 29.630 0.00 0.00 0.00 2.74
4754 5575 8.197439 AGACTTTTTGTGGGATTTCTTTTACTG 58.803 33.333 0.00 0.00 0.00 2.74
4756 5577 8.194769 TGAGACTTTTTGTGGGATTTCTTTTAC 58.805 33.333 0.00 0.00 0.00 2.01
4762 5583 4.984785 GCTTGAGACTTTTTGTGGGATTTC 59.015 41.667 0.00 0.00 0.00 2.17
4768 5589 4.637483 TGAAGCTTGAGACTTTTTGTGG 57.363 40.909 2.10 0.00 0.00 4.17
4770 5591 6.455360 TCATTGAAGCTTGAGACTTTTTGT 57.545 33.333 2.10 0.00 0.00 2.83
4923 8512 4.326817 TGGTACGAACGACCGATAAAAATG 59.673 41.667 8.04 0.00 40.09 2.32
5006 8607 3.938963 TCATATTCGTGTTTCTCTTGGCC 59.061 43.478 0.00 0.00 0.00 5.36
5079 8681 3.431912 GCCTGTTTTTATTTTGGCTTCCG 59.568 43.478 0.00 0.00 37.58 4.30
5085 8687 3.063485 CCCGTGCCTGTTTTTATTTTGG 58.937 45.455 0.00 0.00 0.00 3.28
5091 8693 1.142465 TGTACCCCGTGCCTGTTTTTA 59.858 47.619 0.00 0.00 0.00 1.52
5104 8708 0.461135 CAAAGGCATGCATGTACCCC 59.539 55.000 26.79 18.93 0.00 4.95
5105 8709 0.179103 GCAAAGGCATGCATGTACCC 60.179 55.000 26.79 19.27 45.70 3.69
5130 8734 1.425066 AGGGAGAAGATTTGTGGCACA 59.575 47.619 17.96 17.96 0.00 4.57
5221 8825 3.930229 GCGACTTGGTTTGAAAGGTTTTT 59.070 39.130 0.00 0.00 0.00 1.94
5237 8841 3.064820 CACACAAGTTAAAGTGGCGACTT 59.935 43.478 8.47 8.47 44.79 3.01
5256 8861 3.770040 CATCCCCGGCGACTCACA 61.770 66.667 9.30 0.00 0.00 3.58
5257 8862 4.530857 CCATCCCCGGCGACTCAC 62.531 72.222 9.30 0.00 0.00 3.51
5263 8868 3.338275 TTTTCTCCCATCCCCGGCG 62.338 63.158 0.00 0.00 0.00 6.46
5268 8873 3.621558 CAAGTAGGTTTTCTCCCATCCC 58.378 50.000 0.00 0.00 0.00 3.85
5277 8882 1.911057 AGCTGGGCAAGTAGGTTTTC 58.089 50.000 0.00 0.00 0.00 2.29
5300 8905 6.036470 GCAAAATTTCCTGTACATAGCTTCC 58.964 40.000 0.00 0.00 0.00 3.46
5332 8937 1.314730 GGAGACGTGAAGGGCAAAAA 58.685 50.000 0.00 0.00 0.00 1.94
5337 8942 4.097361 GGGGGAGACGTGAAGGGC 62.097 72.222 0.00 0.00 0.00 5.19
5340 8945 2.359967 GGGAGGGGGAGACGTGAAG 61.360 68.421 0.00 0.00 0.00 3.02
5346 8951 4.825679 CCTGGGGGAGGGGGAGAC 62.826 77.778 0.00 0.00 38.36 3.36
5500 9105 8.354711 TGTTTATGACCATGGCAGTTTATTTA 57.645 30.769 13.04 0.00 0.00 1.40
5505 9110 5.743636 ATTGTTTATGACCATGGCAGTTT 57.256 34.783 13.04 0.00 0.00 2.66
5508 9113 8.605746 CATTTTTATTGTTTATGACCATGGCAG 58.394 33.333 13.04 0.00 0.00 4.85
5524 9129 6.804677 TGTAGCTACCATGGCATTTTTATTG 58.195 36.000 21.01 0.00 0.00 1.90
5526 9131 7.416964 TTTGTAGCTACCATGGCATTTTTAT 57.583 32.000 21.01 0.00 0.00 1.40
5527 9132 6.842437 TTTGTAGCTACCATGGCATTTTTA 57.158 33.333 21.01 0.00 0.00 1.52
5536 9142 8.732746 AGGTAGTTTTATTTGTAGCTACCATG 57.267 34.615 21.01 0.00 46.40 3.66


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

AutoCloner maintained by Alex Coulton.