Multiple sequence alignment - TraesCS3A01G265100

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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 TraesCS3A01G265100 chr3A 100.000 4669 0 0 1 4669 489564830 489569498 0.000000e+00 8623.0
1 TraesCS3A01G265100 chr3A 86.713 2032 150 50 1930 3910 429462793 429464755 0.000000e+00 2146.0
2 TraesCS3A01G265100 chr3A 86.942 291 13 14 916 1200 429461628 429461899 2.110000e-78 303.0
3 TraesCS3A01G265100 chr3A 77.225 382 68 7 86 465 429460136 429460500 6.120000e-49 206.0
4 TraesCS3A01G265100 chr3A 82.065 184 18 6 613 783 429461048 429461229 4.870000e-30 143.0
5 TraesCS3A01G265100 chr3A 90.244 82 7 1 828 908 429461512 429461593 6.390000e-19 106.0
6 TraesCS3A01G265100 chr3B 91.783 2714 131 31 542 3225 479494320 479496971 0.000000e+00 3692.0
7 TraesCS3A01G265100 chr3B 86.758 1888 140 49 1930 3774 411506645 411504825 0.000000e+00 2001.0
8 TraesCS3A01G265100 chr3B 89.405 689 27 5 3256 3912 479496973 479497647 0.000000e+00 826.0
9 TraesCS3A01G265100 chr3B 89.223 399 36 7 4278 4669 479500938 479501336 4.200000e-135 492.0
10 TraesCS3A01G265100 chr3B 87.709 358 10 11 970 1327 411507836 411507513 2.040000e-103 387.0
11 TraesCS3A01G265100 chr3B 82.742 423 54 9 1 421 479492735 479493140 4.440000e-95 359.0
12 TraesCS3A01G265100 chr3B 80.296 203 23 13 1625 1819 411506993 411506800 2.270000e-28 137.0
13 TraesCS3A01G265100 chr3D 92.695 1629 63 21 1617 3225 367358244 367359836 0.000000e+00 2298.0
14 TraesCS3A01G265100 chr3D 86.896 1862 131 40 1930 3745 309689331 309691125 0.000000e+00 1982.0
15 TraesCS3A01G265100 chr3D 88.973 925 41 27 711 1621 367356862 367357739 0.000000e+00 1086.0
16 TraesCS3A01G265100 chr3D 96.368 468 13 3 3257 3721 367359839 367360305 0.000000e+00 767.0
17 TraesCS3A01G265100 chr3D 83.359 661 94 11 1 653 309676429 309677081 8.650000e-167 597.0
18 TraesCS3A01G265100 chr3D 82.837 571 34 27 799 1357 309688147 309688665 1.980000e-123 453.0
19 TraesCS3A01G265100 chr3D 86.935 398 44 7 4278 4668 309693325 309693721 1.540000e-119 440.0
20 TraesCS3A01G265100 chr3D 91.787 207 15 2 3706 3911 367360324 367360529 2.130000e-73 287.0
21 TraesCS3A01G265100 chr3D 91.244 217 9 1 4463 4669 367361196 367361412 2.130000e-73 287.0
22 TraesCS3A01G265100 chr3D 79.469 414 42 26 1447 1854 309688825 309689201 2.160000e-63 254.0
23 TraesCS3A01G265100 chr3D 90.659 182 13 3 3730 3910 309692907 309693085 6.040000e-59 239.0
24 TraesCS3A01G265100 chr3D 74.083 409 89 13 1 396 165592050 165592454 8.090000e-33 152.0
25 TraesCS3A01G265100 chr3D 87.719 57 6 1 4039 4095 309693083 309693138 1.080000e-06 65.8
26 TraesCS3A01G265100 chr5A 99.254 134 1 0 3909 4042 649614740 649614607 4.670000e-60 243.0
27 TraesCS3A01G265100 chr5A 73.966 411 82 16 4 396 32157048 32157451 4.870000e-30 143.0
28 TraesCS3A01G265100 chr5A 75.074 337 68 13 4 332 565420252 565419924 4.870000e-30 143.0
29 TraesCS3A01G265100 chr5A 92.063 63 5 0 1931 1993 461903713 461903775 6.430000e-14 89.8
30 TraesCS3A01G265100 chr5A 89.552 67 7 0 1931 1997 552314594 552314660 8.320000e-13 86.1
31 TraesCS3A01G265100 chr5A 89.552 67 7 0 1931 1997 552374833 552374899 8.320000e-13 86.1
32 TraesCS3A01G265100 chr5A 73.967 242 40 19 174 405 609791659 609791887 5.010000e-10 76.8
33 TraesCS3A01G265100 chr6A 97.761 134 3 0 3909 4042 553945486 553945619 1.010000e-56 231.0
34 TraesCS3A01G265100 chr6A 94.030 134 8 0 3909 4042 609045305 609045438 2.200000e-48 204.0
35 TraesCS3A01G265100 chr7A 94.521 146 6 2 3902 4046 593548920 593548776 1.690000e-54 224.0
36 TraesCS3A01G265100 chr7A 75.224 335 73 9 3 332 710756546 710756217 2.910000e-32 150.0
37 TraesCS3A01G265100 chr7A 75.219 343 69 12 1 339 608995407 608995737 1.050000e-31 148.0
38 TraesCS3A01G265100 chr7A 78.947 209 40 4 127 332 121932809 121933016 6.300000e-29 139.0
39 TraesCS3A01G265100 chr7A 86.667 75 10 0 1930 2004 83776703 83776777 2.990000e-12 84.2
40 TraesCS3A01G265100 chr6D 96.296 135 5 0 3909 4043 17236342 17236476 6.080000e-54 222.0
41 TraesCS3A01G265100 chr6D 95.385 130 6 0 3911 4040 379089613 379089484 1.700000e-49 207.0
42 TraesCS3A01G265100 chr5B 97.600 125 3 0 3910 4034 506317633 506317757 1.020000e-51 215.0
43 TraesCS3A01G265100 chr5B 95.349 129 6 0 3912 4040 501965074 501965202 6.120000e-49 206.0
44 TraesCS3A01G265100 chr1D 95.385 130 3 2 3911 4040 326014462 326014588 2.200000e-48 204.0
45 TraesCS3A01G265100 chr5D 75.893 336 67 11 4 332 447190546 447190874 4.840000e-35 159.0
46 TraesCS3A01G265100 chr5D 74.138 348 67 19 69 405 488785361 488785696 6.340000e-24 122.0
47 TraesCS3A01G265100 chrUn 100.000 29 0 0 2 30 24841213 24841185 2.000000e-03 54.7


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 TraesCS3A01G265100 chr3A 489564830 489569498 4668 False 8623.000000 8623 100.00000 1 4669 1 chr3A.!!$F1 4668
1 TraesCS3A01G265100 chr3A 429460136 429464755 4619 False 580.800000 2146 84.63780 86 3910 5 chr3A.!!$F2 3824
2 TraesCS3A01G265100 chr3B 479492735 479501336 8601 False 1342.250000 3692 88.28825 1 4669 4 chr3B.!!$F1 4668
3 TraesCS3A01G265100 chr3B 411504825 411507836 3011 True 841.666667 2001 84.92100 970 3774 3 chr3B.!!$R1 2804
4 TraesCS3A01G265100 chr3D 367356862 367361412 4550 False 945.000000 2298 92.21340 711 4669 5 chr3D.!!$F4 3958
5 TraesCS3A01G265100 chr3D 309676429 309677081 652 False 597.000000 597 83.35900 1 653 1 chr3D.!!$F2 652
6 TraesCS3A01G265100 chr3D 309688147 309693721 5574 False 572.300000 1982 85.75250 799 4668 6 chr3D.!!$F3 3869

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
103 105 0.176910 CGTGTTTTGGTGGGCCTTTT 59.823 50.0 4.53 0.0 35.27 2.27 F
112 114 0.958822 GTGGGCCTTTTGTAGTGTGG 59.041 55.0 4.53 0.0 0.00 4.17 F
1443 3562 0.676466 TCCATTGCGATTTGCCGACT 60.676 50.0 0.00 0.0 45.60 4.18 F
2361 5139 1.026182 TCAATGTGGCCATGCTCGTC 61.026 55.0 9.72 0.0 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1357 3385 0.250640 CTGGATGCCTGGCTATCACC 60.251 60.000 21.03 14.96 0.00 4.02 R
1743 4444 0.377203 CGGAATACTTTTCCTGCGGC 59.623 55.000 0.00 0.00 36.45 6.53 R
3111 5923 1.005037 GACCACGGTGATGCAGACA 60.005 57.895 10.28 0.00 0.00 3.41 R
4005 10113 0.033601 TCTCTCTGCTCCTCCACTCC 60.034 60.000 0.00 0.00 0.00 3.85 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
58 59 1.930656 AAGTGGGGGAGATGGTGGG 60.931 63.158 0.00 0.00 0.00 4.61
103 105 0.176910 CGTGTTTTGGTGGGCCTTTT 59.823 50.000 4.53 0.00 35.27 2.27
105 107 1.065782 GTGTTTTGGTGGGCCTTTTGT 60.066 47.619 4.53 0.00 35.27 2.83
112 114 0.958822 GTGGGCCTTTTGTAGTGTGG 59.041 55.000 4.53 0.00 0.00 4.17
131 133 3.370061 GTGGTTCTGTGTTATCCGCTAAC 59.630 47.826 0.57 0.57 40.21 2.34
132 134 3.259876 TGGTTCTGTGTTATCCGCTAACT 59.740 43.478 7.39 0.00 40.40 2.24
200 203 9.655769 CATGTACTATTTTGATGCTACAACATC 57.344 33.333 0.00 0.00 45.51 3.06
208 211 4.282950 GATGCTACAACATCACATGTGG 57.717 45.455 25.16 12.86 44.07 4.17
241 244 4.263572 TGGTGAAGGGGTGTGCGG 62.264 66.667 0.00 0.00 0.00 5.69
253 256 1.268692 GGTGTGCGGCATTGATATGTG 60.269 52.381 5.72 0.00 34.12 3.21
256 259 2.097304 TGTGCGGCATTGATATGTGTTC 59.903 45.455 5.72 0.00 34.12 3.18
263 266 6.348786 GCGGCATTGATATGTGTTCATAGATT 60.349 38.462 0.00 0.00 39.49 2.40
285 288 5.590530 TGGTTGCTGCCGATTAATTTAAT 57.409 34.783 1.25 1.25 0.00 1.40
298 301 9.938670 CCGATTAATTTAATAAATCGTTGACCA 57.061 29.630 15.47 0.00 46.49 4.02
444 971 5.045651 TGAGCTTGGAGACCTCAATTGAATA 60.046 40.000 9.88 0.00 33.05 1.75
446 973 7.141758 AGCTTGGAGACCTCAATTGAATATA 57.858 36.000 9.88 0.00 0.00 0.86
448 975 7.718753 AGCTTGGAGACCTCAATTGAATATAAG 59.281 37.037 9.88 8.74 0.00 1.73
560 1865 5.049060 GCTTCAGAGAAAAGAGGAAAGGAAC 60.049 44.000 0.00 0.00 0.00 3.62
581 1886 2.132089 TAAGGCCTTGTTCGTGGGGG 62.132 60.000 28.77 0.00 0.00 5.40
585 1890 1.901464 CCTTGTTCGTGGGGGTTGG 60.901 63.158 0.00 0.00 0.00 3.77
616 2080 5.912360 TCACAAAAGATAGCATAGCGATG 57.088 39.130 1.93 1.93 36.02 3.84
637 2101 3.875727 TGGGTAGAAGACTCGTTCTATCG 59.124 47.826 0.00 0.00 39.97 2.92
640 2104 3.929417 AGAAGACTCGTTCTATCGTCG 57.071 47.619 0.00 0.00 34.90 5.12
646 2110 2.287373 ACTCGTTCTATCGTCGACATCC 59.713 50.000 17.16 0.00 0.00 3.51
656 2120 2.094258 TCGTCGACATCCTTACGTACAC 59.906 50.000 17.16 0.00 36.73 2.90
674 2138 2.177531 CGCAGTGCTGAATGCCAC 59.822 61.111 14.33 0.00 42.00 5.01
676 2140 2.177531 CAGTGCTGAATGCCACGC 59.822 61.111 0.00 0.00 42.00 5.34
699 2174 1.063266 AGCCCTTCCACAGTTTCCAAA 60.063 47.619 0.00 0.00 0.00 3.28
731 2207 1.913762 AGACCTTGGACCTGGACCG 60.914 63.158 10.56 0.00 0.00 4.79
779 2255 2.355756 GCTCAGAGCGCCATGATTTTTA 59.644 45.455 6.67 0.00 0.00 1.52
781 2257 4.346129 CTCAGAGCGCCATGATTTTTAAC 58.654 43.478 12.07 0.00 0.00 2.01
783 2259 3.129287 CAGAGCGCCATGATTTTTAACCT 59.871 43.478 2.29 0.00 0.00 3.50
785 2261 3.088532 AGCGCCATGATTTTTAACCTGA 58.911 40.909 2.29 0.00 0.00 3.86
786 2262 3.701040 AGCGCCATGATTTTTAACCTGAT 59.299 39.130 2.29 0.00 0.00 2.90
787 2263 3.798337 GCGCCATGATTTTTAACCTGATG 59.202 43.478 0.00 0.00 0.00 3.07
788 2264 4.677779 GCGCCATGATTTTTAACCTGATGT 60.678 41.667 0.00 0.00 0.00 3.06
789 2265 5.449862 GCGCCATGATTTTTAACCTGATGTA 60.450 40.000 0.00 0.00 0.00 2.29
790 2266 6.201517 CGCCATGATTTTTAACCTGATGTAG 58.798 40.000 0.00 0.00 0.00 2.74
791 2267 6.183360 CGCCATGATTTTTAACCTGATGTAGT 60.183 38.462 0.00 0.00 0.00 2.73
1264 3047 1.814394 TCGTACGCACACCACTTATCT 59.186 47.619 11.24 0.00 0.00 1.98
1282 3065 4.825679 CCACCCTCCCCTCCCCTC 62.826 77.778 0.00 0.00 0.00 4.30
1283 3066 4.825679 CACCCTCCCCTCCCCTCC 62.826 77.778 0.00 0.00 0.00 4.30
1333 3361 1.650645 CGTTTACGGCCTCTCGTTTAC 59.349 52.381 0.00 0.00 43.59 2.01
1357 3385 1.470098 CCTTCAGTTTCCATTCGCCTG 59.530 52.381 0.00 0.00 0.00 4.85
1378 3496 1.058428 TGATAGCCAGGCATCCAGCT 61.058 55.000 15.80 5.85 44.79 4.24
1438 3557 0.863119 GCTCGTCCATTGCGATTTGC 60.863 55.000 0.00 0.00 46.70 3.68
1443 3562 0.676466 TCCATTGCGATTTGCCGACT 60.676 50.000 0.00 0.00 45.60 4.18
1484 3603 1.347050 CATCGAGATTGCTCCCAGGAT 59.653 52.381 0.00 0.00 37.91 3.24
1556 3686 3.428862 CGTGTTCTTTATTCCCATTGGGC 60.429 47.826 17.60 0.01 43.94 5.36
1661 4356 1.802069 GAGAGACTGAACTTGTGGGC 58.198 55.000 0.00 0.00 0.00 5.36
1714 4415 9.590451 CGAAAGTGGTATTATTTCCTTGTAGTA 57.410 33.333 0.00 0.00 30.79 1.82
1743 4444 1.135888 TCCGATAACGACAGTGTGACG 60.136 52.381 0.00 0.79 42.66 4.35
1779 4484 3.111853 TCCGCAGCCATCAAAGTATAG 57.888 47.619 0.00 0.00 0.00 1.31
1780 4485 2.434336 TCCGCAGCCATCAAAGTATAGT 59.566 45.455 0.00 0.00 0.00 2.12
1781 4486 3.639561 TCCGCAGCCATCAAAGTATAGTA 59.360 43.478 0.00 0.00 0.00 1.82
1782 4487 3.741344 CCGCAGCCATCAAAGTATAGTAC 59.259 47.826 0.00 0.00 0.00 2.73
1783 4488 4.501571 CCGCAGCCATCAAAGTATAGTACT 60.502 45.833 0.00 0.00 41.73 2.73
1860 4569 2.975732 TTTGCACCATTTTGTCAGCA 57.024 40.000 0.00 0.00 0.00 4.41
1893 4667 1.391485 CGGTCGCTTTTCAGTGATCAG 59.609 52.381 0.00 0.00 40.28 2.90
1902 4676 5.564259 GCTTTTCAGTGATCAGCATCAAGTT 60.564 40.000 15.88 0.00 40.90 2.66
1908 4682 4.880120 AGTGATCAGCATCAAGTTGGTATG 59.120 41.667 2.34 1.64 40.90 2.39
1910 4684 4.877823 TGATCAGCATCAAGTTGGTATGTC 59.122 41.667 2.34 0.98 35.99 3.06
1917 4691 5.617751 GCATCAAGTTGGTATGTCACTGAAC 60.618 44.000 2.34 0.00 0.00 3.18
2154 4932 1.221566 CATCGTGTGGCTCATCCCA 59.778 57.895 0.00 0.00 0.00 4.37
2346 5124 1.208052 AGCGTGTCATACTGGCTCAAT 59.792 47.619 0.00 0.00 0.00 2.57
2361 5139 1.026182 TCAATGTGGCCATGCTCGTC 61.026 55.000 9.72 0.00 0.00 4.20
2423 5201 2.825836 GCCGACCATCAAGGCCTG 60.826 66.667 5.69 0.00 44.80 4.85
2601 5399 2.079925 GAGTGGTGGTCATTTGAGCTC 58.920 52.381 6.82 6.82 42.60 4.09
2670 5472 3.467803 GGTGCTCTCAATATGGTACCAC 58.532 50.000 19.09 1.10 35.18 4.16
2671 5473 3.134804 GGTGCTCTCAATATGGTACCACT 59.865 47.826 19.09 9.34 35.18 4.00
2672 5474 4.344102 GGTGCTCTCAATATGGTACCACTA 59.656 45.833 19.09 11.32 35.18 2.74
2673 5475 5.290386 GTGCTCTCAATATGGTACCACTAC 58.710 45.833 19.09 0.08 0.00 2.73
2674 5476 4.344102 TGCTCTCAATATGGTACCACTACC 59.656 45.833 19.09 0.00 42.83 3.18
2685 5487 5.353394 GGTACCACTACCAAATGATCTCA 57.647 43.478 7.15 0.00 42.16 3.27
2692 5494 7.390718 ACCACTACCAAATGATCTCAGTTTTAC 59.609 37.037 0.00 0.00 31.17 2.01
2706 5508 6.993902 TCTCAGTTTTACGTGGGTTAAATCTT 59.006 34.615 0.00 0.00 28.70 2.40
2711 5516 8.777413 AGTTTTACGTGGGTTAAATCTTCTTAC 58.223 33.333 0.00 0.00 28.70 2.34
2717 5525 7.021196 CGTGGGTTAAATCTTCTTACACAATG 58.979 38.462 0.00 0.00 0.00 2.82
2838 5646 4.537135 ACGATCTCTCAAGGCAGTTAAA 57.463 40.909 0.00 0.00 0.00 1.52
2892 5702 9.726232 GGAAATAATTTCAGTCCGGTAATTAAC 57.274 33.333 0.00 0.00 41.43 2.01
2991 5803 1.287815 GGTCCGTGTCGTGATGTCA 59.712 57.895 0.00 0.00 0.00 3.58
3093 5905 4.814294 GAGGTCGCATCCGCCGTT 62.814 66.667 0.00 0.00 36.30 4.44
3111 5923 4.759205 GCCGCCATGGTTCCCCTT 62.759 66.667 14.67 0.00 41.21 3.95
3169 5981 4.187694 GGTTCTCTCAGGTCACATTCATC 58.812 47.826 0.00 0.00 0.00 2.92
3216 6054 5.299531 TGTCCATCGTTTCCAACAAAATGTA 59.700 36.000 0.00 0.00 0.00 2.29
3225 6063 8.767085 CGTTTCCAACAAAATGTACTACTCTTA 58.233 33.333 0.00 0.00 0.00 2.10
3281 6131 7.879070 TGTTACTAACATCTGTACGTTCTTCT 58.121 34.615 0.00 0.00 36.25 2.85
3372 6222 2.595095 GGATCCCCATGGCGTTGA 59.405 61.111 6.09 0.00 0.00 3.18
3428 6278 3.950794 TTGGATGGGCGTCGTCTGC 62.951 63.158 0.00 0.00 0.00 4.26
3484 6334 0.099791 ACGTTTTTCACCAACTGGCG 59.900 50.000 0.00 0.00 39.32 5.69
3566 6434 2.865343 ACGGTCCGATACACAATCTC 57.135 50.000 20.51 0.00 31.87 2.75
3763 8500 2.832733 AGGAGGAAGAGGACTTAAACCG 59.167 50.000 0.00 0.00 36.39 4.44
3778 8515 1.056660 AACCGCTCTCCTTTTCTCCA 58.943 50.000 0.00 0.00 0.00 3.86
3799 8536 4.582656 CCATCTTTACTTGTTTGGTGTCCA 59.417 41.667 0.00 0.00 0.00 4.02
3823 8561 1.531149 CGAAATGTTGGTGAAGCTCGT 59.469 47.619 0.00 0.00 0.00 4.18
3846 8584 0.608035 TGAAATCCCCTGGTTCACGC 60.608 55.000 0.00 0.00 0.00 5.34
3851 8589 2.750350 CCCTGGTTCACGCTTCCT 59.250 61.111 0.00 0.00 0.00 3.36
3880 8618 1.132844 CTCGACTCGGACAGACACG 59.867 63.158 0.00 0.00 0.00 4.49
3913 8652 1.752683 GGACAGCTCGAGACTTAGGA 58.247 55.000 18.75 0.00 0.00 2.94
3914 8653 2.093106 GGACAGCTCGAGACTTAGGAA 58.907 52.381 18.75 0.00 0.00 3.36
3915 8654 2.098443 GGACAGCTCGAGACTTAGGAAG 59.902 54.545 18.75 2.72 0.00 3.46
3916 8655 1.474879 ACAGCTCGAGACTTAGGAAGC 59.525 52.381 18.75 0.00 0.00 3.86
3917 8656 0.736053 AGCTCGAGACTTAGGAAGCG 59.264 55.000 18.75 0.00 0.00 4.68
3919 8658 1.135344 GCTCGAGACTTAGGAAGCGTT 60.135 52.381 18.75 0.00 0.00 4.84
3920 8659 2.788030 CTCGAGACTTAGGAAGCGTTC 58.212 52.381 6.58 0.00 0.00 3.95
3921 8660 1.129998 TCGAGACTTAGGAAGCGTTCG 59.870 52.381 0.00 0.00 33.21 3.95
3923 8662 1.201880 GAGACTTAGGAAGCGTTCGGT 59.798 52.381 0.00 0.00 0.00 4.69
3924 8663 1.617357 AGACTTAGGAAGCGTTCGGTT 59.383 47.619 9.31 9.31 0.00 4.44
3925 8664 1.991264 GACTTAGGAAGCGTTCGGTTC 59.009 52.381 22.96 22.96 40.60 3.62
3929 8668 4.990288 GAAGCGTTCGGTTCCTCT 57.010 55.556 21.26 0.00 36.85 3.69
3933 8672 2.506438 CGTTCGGTTCCTCTCCGC 60.506 66.667 0.00 0.00 46.49 5.54
3934 8673 2.971452 GTTCGGTTCCTCTCCGCT 59.029 61.111 0.00 0.00 46.49 5.52
3936 8675 1.304217 TTCGGTTCCTCTCCGCTCT 60.304 57.895 0.00 0.00 46.49 4.09
3937 8676 1.313812 TTCGGTTCCTCTCCGCTCTC 61.314 60.000 0.00 0.00 46.49 3.20
3938 8677 1.751162 CGGTTCCTCTCCGCTCTCT 60.751 63.158 0.00 0.00 41.48 3.10
3939 8678 1.316706 CGGTTCCTCTCCGCTCTCTT 61.317 60.000 0.00 0.00 41.48 2.85
3940 8679 1.765230 GGTTCCTCTCCGCTCTCTTA 58.235 55.000 0.00 0.00 0.00 2.10
3941 8680 2.100989 GGTTCCTCTCCGCTCTCTTAA 58.899 52.381 0.00 0.00 0.00 1.85
3943 8682 2.756207 GTTCCTCTCCGCTCTCTTAACT 59.244 50.000 0.00 0.00 0.00 2.24
3945 8684 2.240160 TCCTCTCCGCTCTCTTAACTCT 59.760 50.000 0.00 0.00 0.00 3.24
3946 8685 2.357637 CCTCTCCGCTCTCTTAACTCTG 59.642 54.545 0.00 0.00 0.00 3.35
3947 8686 1.746220 TCTCCGCTCTCTTAACTCTGC 59.254 52.381 0.00 0.00 0.00 4.26
3948 8687 1.748493 CTCCGCTCTCTTAACTCTGCT 59.252 52.381 0.00 0.00 0.00 4.24
3950 8689 1.202359 CCGCTCTCTTAACTCTGCTCC 60.202 57.143 0.00 0.00 0.00 4.70
3951 8690 1.202359 CGCTCTCTTAACTCTGCTCCC 60.202 57.143 0.00 0.00 0.00 4.30
3952 8691 1.202359 GCTCTCTTAACTCTGCTCCCG 60.202 57.143 0.00 0.00 0.00 5.14
3953 8692 1.407258 CTCTCTTAACTCTGCTCCCGG 59.593 57.143 0.00 0.00 0.00 5.73
3954 8693 1.005569 TCTCTTAACTCTGCTCCCGGA 59.994 52.381 0.73 0.00 0.00 5.14
3968 8707 2.657237 CGGAGCGGACCTCACTTT 59.343 61.111 0.00 0.00 42.62 2.66
3969 8708 1.888018 CGGAGCGGACCTCACTTTA 59.112 57.895 0.00 0.00 42.62 1.85
3970 8709 0.245539 CGGAGCGGACCTCACTTTAA 59.754 55.000 0.00 0.00 42.62 1.52
3971 8710 1.134788 CGGAGCGGACCTCACTTTAAT 60.135 52.381 0.00 0.00 42.62 1.40
3972 8711 2.280628 GGAGCGGACCTCACTTTAATG 58.719 52.381 0.00 0.00 42.62 1.90
3973 8712 2.280628 GAGCGGACCTCACTTTAATGG 58.719 52.381 0.00 0.00 40.45 3.16
3977 9427 2.093447 CGGACCTCACTTTAATGGAGCT 60.093 50.000 0.00 0.00 0.00 4.09
3982 9432 3.507233 CCTCACTTTAATGGAGCTGCAAA 59.493 43.478 13.45 0.00 0.00 3.68
3984 9434 4.397420 TCACTTTAATGGAGCTGCAAAGA 58.603 39.130 20.84 4.34 32.02 2.52
3986 9436 3.507622 ACTTTAATGGAGCTGCAAAGACC 59.492 43.478 20.84 2.03 32.02 3.85
3988 9438 0.036732 AATGGAGCTGCAAAGACCGA 59.963 50.000 13.45 0.00 0.00 4.69
3989 9439 0.392193 ATGGAGCTGCAAAGACCGAG 60.392 55.000 13.45 0.00 0.00 4.63
3990 9440 2.394563 GGAGCTGCAAAGACCGAGC 61.395 63.158 0.00 0.00 0.00 5.03
4000 9450 1.122019 AAGACCGAGCTCCACCAACT 61.122 55.000 8.47 0.00 0.00 3.16
4001 9451 1.079750 GACCGAGCTCCACCAACTC 60.080 63.158 8.47 0.00 0.00 3.01
4002 9452 2.266055 CCGAGCTCCACCAACTCC 59.734 66.667 8.47 0.00 0.00 3.85
4005 10113 4.379243 AGCTCCACCAACTCCGCG 62.379 66.667 0.00 0.00 0.00 6.46
4021 10129 3.074999 GCGGAGTGGAGGAGCAGAG 62.075 68.421 0.00 0.00 0.00 3.35
4022 10130 1.379176 CGGAGTGGAGGAGCAGAGA 60.379 63.158 0.00 0.00 0.00 3.10
4024 10132 0.033601 GGAGTGGAGGAGCAGAGAGA 60.034 60.000 0.00 0.00 0.00 3.10
4025 10133 1.411501 GGAGTGGAGGAGCAGAGAGAT 60.412 57.143 0.00 0.00 0.00 2.75
4026 10134 2.387757 GAGTGGAGGAGCAGAGAGATT 58.612 52.381 0.00 0.00 0.00 2.40
4031 10139 2.952978 GGAGGAGCAGAGAGATTACGAA 59.047 50.000 0.00 0.00 0.00 3.85
4032 10140 3.243267 GGAGGAGCAGAGAGATTACGAAC 60.243 52.174 0.00 0.00 0.00 3.95
4034 10142 2.541999 GGAGCAGAGAGATTACGAACGG 60.542 54.545 0.00 0.00 0.00 4.44
4047 10424 1.017701 CGAACGGGGCCTTAACAGTC 61.018 60.000 0.84 0.00 0.00 3.51
4118 10533 2.036346 GCATGTTTGGTGAAGCCTTTCT 59.964 45.455 0.00 0.00 38.35 2.52
4173 10588 9.635520 TTTTATTTTGTACAACCGACTTTTTGA 57.364 25.926 8.07 0.00 0.00 2.69
4174 10589 9.635520 TTTATTTTGTACAACCGACTTTTTGAA 57.364 25.926 8.07 0.00 0.00 2.69
4196 10611 9.658799 TTGAAGACTAATGATTTTCTGTAGGAG 57.341 33.333 0.00 0.00 0.00 3.69
4198 10613 7.187824 AGACTAATGATTTTCTGTAGGAGCA 57.812 36.000 0.00 0.00 0.00 4.26
4214 10629 1.326245 GAGCACAATATACGCGCAACA 59.674 47.619 5.73 0.00 0.00 3.33
4218 11937 3.606846 GCACAATATACGCGCAACATCAT 60.607 43.478 5.73 0.00 0.00 2.45
4224 11943 0.179059 ACGCGCAACATCATATGGGA 60.179 50.000 5.73 0.00 33.60 4.37
4242 11961 0.253327 GAAGGTCCCTCCAAGCGAAT 59.747 55.000 0.00 0.00 39.02 3.34
4274 11993 1.213678 CAGGCAGGGAGGAATGAATGA 59.786 52.381 0.00 0.00 0.00 2.57
4340 12059 5.406649 TCACAGCAAAAGTTTTCGAATTGT 58.593 33.333 0.00 0.00 0.00 2.71
4364 12083 7.439655 TGTCATGTAAAAACCAGTAAAATTGCC 59.560 33.333 0.00 0.00 0.00 4.52
4368 12087 0.388006 AACCAGTAAAATTGCCGCGC 60.388 50.000 0.00 0.00 0.00 6.86
4370 12089 0.730265 CCAGTAAAATTGCCGCGCTA 59.270 50.000 5.56 0.00 0.00 4.26
4376 12095 0.179140 AAATTGCCGCGCTATTGTGG 60.179 50.000 5.56 0.00 42.55 4.17
4384 12103 2.869801 CCGCGCTATTGTGGAAGATTTA 59.130 45.455 5.56 0.00 42.25 1.40
4458 12178 0.676466 TCGACATCGCCCATGCTTTT 60.676 50.000 0.00 0.00 39.60 2.27
4485 12452 0.555769 TGTTGTGGCCTTTCCTCCTT 59.444 50.000 3.32 0.00 35.26 3.36
4503 12470 3.202151 TCCTTGAAACCCTCACTCACTTT 59.798 43.478 0.00 0.00 32.21 2.66
4544 12511 3.049344 AGGAGTGGATTTCTATCACCCC 58.951 50.000 0.00 0.00 32.09 4.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
103 105 4.559906 CGGATAACACAGAACCACACTACA 60.560 45.833 0.00 0.00 0.00 2.74
105 107 3.615592 GCGGATAACACAGAACCACACTA 60.616 47.826 0.00 0.00 0.00 2.74
112 114 6.098017 AGTTAGTTAGCGGATAACACAGAAC 58.902 40.000 17.38 14.04 45.34 3.01
170 173 3.565482 AGCATCAAAATAGTACATGCGGG 59.435 43.478 0.00 0.00 43.82 6.13
172 175 6.285790 TGTAGCATCAAAATAGTACATGCG 57.714 37.500 0.00 0.00 43.82 4.73
218 221 1.376466 CACCCCTTCACCACTCAGG 59.624 63.158 0.00 0.00 45.67 3.86
221 224 1.600916 GCACACCCCTTCACCACTC 60.601 63.158 0.00 0.00 0.00 3.51
222 225 2.515901 GCACACCCCTTCACCACT 59.484 61.111 0.00 0.00 0.00 4.00
231 234 0.823356 ATATCAATGCCGCACACCCC 60.823 55.000 0.00 0.00 0.00 4.95
241 244 7.879070 ACCAATCTATGAACACATATCAATGC 58.121 34.615 0.00 0.00 36.50 3.56
242 245 9.673454 CAACCAATCTATGAACACATATCAATG 57.327 33.333 0.00 0.00 39.17 2.82
253 256 2.223340 CGGCAGCAACCAATCTATGAAC 60.223 50.000 0.00 0.00 0.00 3.18
256 259 1.667236 TCGGCAGCAACCAATCTATG 58.333 50.000 0.00 0.00 0.00 2.23
263 266 5.590530 ATTAAATTAATCGGCAGCAACCA 57.409 34.783 0.00 0.00 0.00 3.67
285 288 7.747155 TGATTTTAACCTGGTCAACGATTTA 57.253 32.000 0.00 0.00 0.00 1.40
298 301 9.844257 TTTGAATTTGGTTCATGATTTTAACCT 57.156 25.926 13.37 0.00 45.77 3.50
383 386 8.338986 CCCGATTCTTAAAAAGCTCTCTTATTC 58.661 37.037 0.00 0.00 31.02 1.75
389 392 4.935808 TCACCCGATTCTTAAAAAGCTCTC 59.064 41.667 0.00 0.00 0.00 3.20
424 951 7.040823 GCCTTATATTCAATTGAGGTCTCCAAG 60.041 40.741 8.41 7.10 0.00 3.61
444 971 9.740710 CTATGCTACCTAATTTTAAGGCCTTAT 57.259 33.333 25.70 13.39 37.67 1.73
446 973 7.502561 CACTATGCTACCTAATTTTAAGGCCTT 59.497 37.037 24.18 24.18 37.67 4.35
448 975 6.771267 ACACTATGCTACCTAATTTTAAGGCC 59.229 38.462 0.00 0.00 37.67 5.19
476 1248 5.463724 CCTAGCTGACCGAGTGAATTTATTC 59.536 44.000 0.00 0.00 37.31 1.75
490 1262 1.104630 ACTTACGAGCCTAGCTGACC 58.895 55.000 0.00 0.00 39.88 4.02
560 1865 1.165270 CCCACGAACAAGGCCTTAAG 58.835 55.000 20.00 9.74 0.00 1.85
574 1879 4.344865 CCCACTCCAACCCCCACG 62.345 72.222 0.00 0.00 0.00 4.94
581 1886 1.327303 TTTGTGATGCCCACTCCAAC 58.673 50.000 7.67 0.00 45.86 3.77
585 1890 3.065925 GCTATCTTTTGTGATGCCCACTC 59.934 47.826 7.67 0.00 45.86 3.51
603 1908 4.158764 GTCTTCTACCCATCGCTATGCTAT 59.841 45.833 0.00 0.00 0.00 2.97
616 2080 3.876320 ACGATAGAACGAGTCTTCTACCC 59.124 47.826 11.75 7.96 35.92 3.69
637 2101 2.789092 CGGTGTACGTAAGGATGTCGAC 60.789 54.545 9.11 9.11 46.39 4.20
640 2104 1.135315 TGCGGTGTACGTAAGGATGTC 60.135 52.381 0.00 0.00 46.52 3.06
646 2110 0.388134 AGCACTGCGGTGTACGTAAG 60.388 55.000 26.00 0.00 46.52 2.34
731 2207 2.475466 CGTGGATCCTGTGCATGCC 61.475 63.158 16.68 7.25 0.00 4.40
779 2255 2.677902 CGGCACATCACTACATCAGGTT 60.678 50.000 0.00 0.00 0.00 3.50
781 2257 1.134699 ACGGCACATCACTACATCAGG 60.135 52.381 0.00 0.00 0.00 3.86
783 2259 1.548269 TGACGGCACATCACTACATCA 59.452 47.619 0.00 0.00 0.00 3.07
791 2267 2.048597 GGTCGTGACGGCACATCA 60.049 61.111 23.63 0.54 45.41 3.07
838 2574 4.154347 CTCTGGACCGCTGCCTCC 62.154 72.222 4.42 4.42 0.00 4.30
1283 3066 2.998949 CGGAAGGAGGAAAGGGGG 59.001 66.667 0.00 0.00 0.00 5.40
1284 3067 1.926426 ATGCGGAAGGAGGAAAGGGG 61.926 60.000 0.00 0.00 32.19 4.79
1285 3068 0.837272 TATGCGGAAGGAGGAAAGGG 59.163 55.000 0.00 0.00 32.19 3.95
1286 3069 2.938956 ATATGCGGAAGGAGGAAAGG 57.061 50.000 0.00 0.00 32.19 3.11
1287 3070 3.142174 GGAATATGCGGAAGGAGGAAAG 58.858 50.000 0.00 0.00 32.19 2.62
1357 3385 0.250640 CTGGATGCCTGGCTATCACC 60.251 60.000 21.03 14.96 0.00 4.02
1406 3525 0.457681 GACGAGCAGAGCAGAGGAAC 60.458 60.000 0.00 0.00 0.00 3.62
1438 3557 1.148310 GAACACACCATGACAGTCGG 58.852 55.000 0.00 0.00 0.00 4.79
1443 3562 1.133823 AGCCAAGAACACACCATGACA 60.134 47.619 0.00 0.00 0.00 3.58
1661 4356 0.536687 AGGAATCTGATGGCATGGCG 60.537 55.000 15.27 0.00 0.00 5.69
1714 4415 4.639310 ACTGTCGTTATCGGACTAGTTGAT 59.361 41.667 13.92 13.92 37.69 2.57
1743 4444 0.377203 CGGAATACTTTTCCTGCGGC 59.623 55.000 0.00 0.00 36.45 6.53
1779 4484 6.308282 CGGTTCTTCAGAATTGACTACAGTAC 59.692 42.308 0.00 0.00 36.33 2.73
1780 4485 6.015688 ACGGTTCTTCAGAATTGACTACAGTA 60.016 38.462 0.00 0.00 36.33 2.74
1781 4486 5.221461 ACGGTTCTTCAGAATTGACTACAGT 60.221 40.000 0.00 0.00 36.33 3.55
1782 4487 5.230942 ACGGTTCTTCAGAATTGACTACAG 58.769 41.667 0.00 0.00 36.33 2.74
1783 4488 5.209818 ACGGTTCTTCAGAATTGACTACA 57.790 39.130 0.00 0.00 36.33 2.74
1860 4569 1.485066 AGCGACCGTGGAGGAAATTAT 59.515 47.619 0.00 0.00 45.00 1.28
1893 4667 4.002982 TCAGTGACATACCAACTTGATGC 58.997 43.478 0.00 0.00 0.00 3.91
1902 4676 5.049749 CACGAATTTGTTCAGTGACATACCA 60.050 40.000 0.00 0.00 35.03 3.25
1908 4682 5.328691 TGTTTCACGAATTTGTTCAGTGAC 58.671 37.500 0.00 0.00 40.91 3.67
1910 4684 5.568482 TCTGTTTCACGAATTTGTTCAGTG 58.432 37.500 0.00 0.00 0.00 3.66
1917 4691 3.163594 GCCGATCTGTTTCACGAATTTG 58.836 45.455 0.00 0.00 0.00 2.32
2361 5139 1.854743 CTCGACATCACAATGTAGGCG 59.145 52.381 2.17 2.17 46.20 5.52
2466 5244 5.928976 TCAAGTGGTTACCATATCATGAGG 58.071 41.667 7.58 0.00 35.28 3.86
2601 5399 1.417890 AGCCCCGACATGAGAATAAGG 59.582 52.381 0.00 0.00 0.00 2.69
2670 5472 7.413000 CCACGTAAAACTGAGATCATTTGGTAG 60.413 40.741 0.00 0.00 0.00 3.18
2671 5473 6.370442 CCACGTAAAACTGAGATCATTTGGTA 59.630 38.462 0.00 0.00 0.00 3.25
2672 5474 5.181245 CCACGTAAAACTGAGATCATTTGGT 59.819 40.000 0.00 0.00 0.00 3.67
2673 5475 5.391950 CCCACGTAAAACTGAGATCATTTGG 60.392 44.000 0.00 0.00 0.00 3.28
2674 5476 5.181245 ACCCACGTAAAACTGAGATCATTTG 59.819 40.000 0.00 0.00 0.00 2.32
2675 5477 5.313712 ACCCACGTAAAACTGAGATCATTT 58.686 37.500 0.00 0.00 0.00 2.32
2680 5482 7.166167 AGATTTAACCCACGTAAAACTGAGAT 58.834 34.615 0.00 0.00 0.00 2.75
2683 5485 6.993902 AGAAGATTTAACCCACGTAAAACTGA 59.006 34.615 0.00 0.00 0.00 3.41
2685 5487 7.812690 AAGAAGATTTAACCCACGTAAAACT 57.187 32.000 0.00 0.00 0.00 2.66
2692 5494 6.548441 TTGTGTAAGAAGATTTAACCCACG 57.452 37.500 0.00 0.00 0.00 4.94
2706 5508 3.990092 AGTTCAGCGTCATTGTGTAAGA 58.010 40.909 0.00 0.00 0.00 2.10
2711 5516 4.668576 ATGTAAGTTCAGCGTCATTGTG 57.331 40.909 0.00 0.00 0.00 3.33
2755 5563 2.679837 CAATGTGATGCTCGTAAGGCTT 59.320 45.455 4.58 4.58 35.07 4.35
2991 5803 4.057428 GCCTCTGTCACCGCGACT 62.057 66.667 8.23 0.00 45.60 4.18
3111 5923 1.005037 GACCACGGTGATGCAGACA 60.005 57.895 10.28 0.00 0.00 3.41
3169 5981 6.016777 ACAACTTGAAAGGTTATGCAGAAGAG 60.017 38.462 0.00 0.00 0.00 2.85
3254 6092 9.136952 GAAGAACGTACAGATGTTAGTAACAAT 57.863 33.333 19.19 8.79 45.86 2.71
3369 6219 3.210227 TGAGCACAAAACCGAGAATCAA 58.790 40.909 0.00 0.00 33.17 2.57
3372 6222 3.476552 TCTTGAGCACAAAACCGAGAAT 58.523 40.909 0.00 0.00 35.49 2.40
3428 6278 1.006805 GGTCTGCGAGATGGATCCG 60.007 63.158 7.39 0.00 0.00 4.18
3484 6334 4.021102 TCAGAGGAACAAACCATCTTCC 57.979 45.455 0.00 0.00 34.69 3.46
3566 6434 3.560826 AAAAATGCAACGGACCGTG 57.439 47.368 22.53 15.51 39.99 4.94
3763 8500 5.739959 AGTAAAGATGGAGAAAAGGAGAGC 58.260 41.667 0.00 0.00 0.00 4.09
3778 8515 4.274950 CGTGGACACCAAACAAGTAAAGAT 59.725 41.667 0.00 0.00 34.18 2.40
3799 8536 0.591170 CTTCACCAACATTTCGCCGT 59.409 50.000 0.00 0.00 0.00 5.68
3823 8561 3.068873 CGTGAACCAGGGGATTTCAAAAA 59.931 43.478 0.00 0.00 31.21 1.94
3846 8584 4.561105 AGTCGAGCAAAACTAAGAGGAAG 58.439 43.478 0.00 0.00 0.00 3.46
3851 8589 2.555325 TCCGAGTCGAGCAAAACTAAGA 59.445 45.455 15.64 0.00 0.00 2.10
3913 8652 1.292541 GGAGAGGAACCGAACGCTT 59.707 57.895 0.00 0.00 0.00 4.68
3914 8653 2.971452 GGAGAGGAACCGAACGCT 59.029 61.111 0.00 0.00 0.00 5.07
3921 8660 1.765230 TAAGAGAGCGGAGAGGAACC 58.235 55.000 0.00 0.00 0.00 3.62
3923 8662 3.018149 GAGTTAAGAGAGCGGAGAGGAA 58.982 50.000 0.00 0.00 0.00 3.36
3924 8663 2.240160 AGAGTTAAGAGAGCGGAGAGGA 59.760 50.000 0.00 0.00 0.00 3.71
3925 8664 2.357637 CAGAGTTAAGAGAGCGGAGAGG 59.642 54.545 0.00 0.00 0.00 3.69
3927 8666 1.746220 GCAGAGTTAAGAGAGCGGAGA 59.254 52.381 0.00 0.00 0.00 3.71
3929 8668 1.746220 GAGCAGAGTTAAGAGAGCGGA 59.254 52.381 0.00 0.00 0.00 5.54
3932 8671 1.202359 CGGGAGCAGAGTTAAGAGAGC 60.202 57.143 0.00 0.00 0.00 4.09
3933 8672 1.407258 CCGGGAGCAGAGTTAAGAGAG 59.593 57.143 0.00 0.00 0.00 3.20
3934 8673 1.005569 TCCGGGAGCAGAGTTAAGAGA 59.994 52.381 0.00 0.00 0.00 3.10
3936 8675 1.475403 CTCCGGGAGCAGAGTTAAGA 58.525 55.000 11.83 0.00 0.00 2.10
3951 8690 0.245539 TTAAAGTGAGGTCCGCTCCG 59.754 55.000 0.00 0.00 33.81 4.63
3952 8691 2.280628 CATTAAAGTGAGGTCCGCTCC 58.719 52.381 0.00 0.00 33.81 4.70
3953 8692 2.093658 TCCATTAAAGTGAGGTCCGCTC 60.094 50.000 0.00 0.00 33.81 5.03
3954 8693 1.906574 TCCATTAAAGTGAGGTCCGCT 59.093 47.619 0.00 0.00 37.17 5.52
3955 8694 2.280628 CTCCATTAAAGTGAGGTCCGC 58.719 52.381 0.00 0.00 0.00 5.54
3956 8695 2.093447 AGCTCCATTAAAGTGAGGTCCG 60.093 50.000 0.00 0.00 31.64 4.79
3957 8696 3.274288 CAGCTCCATTAAAGTGAGGTCC 58.726 50.000 0.00 0.00 34.83 4.46
3962 8701 4.216257 GTCTTTGCAGCTCCATTAAAGTGA 59.784 41.667 0.00 0.00 31.95 3.41
3964 8703 3.507622 GGTCTTTGCAGCTCCATTAAAGT 59.492 43.478 0.00 0.00 31.95 2.66
3965 8704 3.426695 CGGTCTTTGCAGCTCCATTAAAG 60.427 47.826 0.00 0.00 0.00 1.85
3966 8705 2.487762 CGGTCTTTGCAGCTCCATTAAA 59.512 45.455 0.00 0.00 0.00 1.52
3968 8707 1.277842 TCGGTCTTTGCAGCTCCATTA 59.722 47.619 0.00 0.00 0.00 1.90
3969 8708 0.036732 TCGGTCTTTGCAGCTCCATT 59.963 50.000 0.00 0.00 0.00 3.16
3970 8709 0.392193 CTCGGTCTTTGCAGCTCCAT 60.392 55.000 0.00 0.00 0.00 3.41
3971 8710 1.004560 CTCGGTCTTTGCAGCTCCA 60.005 57.895 0.00 0.00 0.00 3.86
3972 8711 2.394563 GCTCGGTCTTTGCAGCTCC 61.395 63.158 0.00 0.00 0.00 4.70
3973 8712 1.375268 AGCTCGGTCTTTGCAGCTC 60.375 57.895 0.00 0.00 37.72 4.09
3977 9427 1.301716 GTGGAGCTCGGTCTTTGCA 60.302 57.895 7.83 0.00 0.00 4.08
3982 9432 1.534235 AGTTGGTGGAGCTCGGTCT 60.534 57.895 7.83 0.00 0.00 3.85
3984 9434 2.584391 GGAGTTGGTGGAGCTCGGT 61.584 63.158 7.83 0.00 0.00 4.69
3986 9436 2.125912 CGGAGTTGGTGGAGCTCG 60.126 66.667 7.83 0.00 0.00 5.03
3988 9438 4.379243 CGCGGAGTTGGTGGAGCT 62.379 66.667 0.00 0.00 0.00 4.09
3990 9440 3.691342 TCCGCGGAGTTGGTGGAG 61.691 66.667 27.28 0.00 39.06 3.86
4002 9452 4.504916 CTGCTCCTCCACTCCGCG 62.505 72.222 0.00 0.00 0.00 6.46
4005 10113 0.033601 TCTCTCTGCTCCTCCACTCC 60.034 60.000 0.00 0.00 0.00 3.85
4010 10118 2.577700 TCGTAATCTCTCTGCTCCTCC 58.422 52.381 0.00 0.00 0.00 4.30
4011 10119 3.547214 CGTTCGTAATCTCTCTGCTCCTC 60.547 52.174 0.00 0.00 0.00 3.71
4017 10125 1.536284 GCCCCGTTCGTAATCTCTCTG 60.536 57.143 0.00 0.00 0.00 3.35
4021 10129 0.177373 AAGGCCCCGTTCGTAATCTC 59.823 55.000 0.00 0.00 0.00 2.75
4022 10130 1.488390 TAAGGCCCCGTTCGTAATCT 58.512 50.000 0.00 0.00 0.00 2.40
4024 10132 1.278699 TGTTAAGGCCCCGTTCGTAAT 59.721 47.619 0.00 0.00 0.00 1.89
4025 10133 0.683973 TGTTAAGGCCCCGTTCGTAA 59.316 50.000 0.00 0.00 0.00 3.18
4026 10134 0.247185 CTGTTAAGGCCCCGTTCGTA 59.753 55.000 0.00 0.00 0.00 3.43
4031 10139 2.660802 CGACTGTTAAGGCCCCGT 59.339 61.111 0.00 0.00 0.00 5.28
4032 10140 2.818274 GCGACTGTTAAGGCCCCG 60.818 66.667 0.00 0.00 0.00 5.73
4034 10142 0.107654 AGATGCGACTGTTAAGGCCC 60.108 55.000 0.00 0.00 0.00 5.80
4118 10533 7.416213 CGGAAAGCAACAAATAATAGATGGGAA 60.416 37.037 0.00 0.00 0.00 3.97
4150 10565 8.675504 TCTTCAAAAAGTCGGTTGTACAAAATA 58.324 29.630 10.51 0.00 33.95 1.40
4173 10588 7.550906 GTGCTCCTACAGAAAATCATTAGTCTT 59.449 37.037 0.00 0.00 0.00 3.01
4174 10589 7.044798 GTGCTCCTACAGAAAATCATTAGTCT 58.955 38.462 0.00 0.00 0.00 3.24
4196 10611 2.286125 TGATGTTGCGCGTATATTGTGC 60.286 45.455 8.43 6.54 42.99 4.57
4198 10613 5.163864 CCATATGATGTTGCGCGTATATTGT 60.164 40.000 8.43 0.00 0.00 2.71
4224 11943 0.035056 CATTCGCTTGGAGGGACCTT 60.035 55.000 0.00 0.00 36.88 3.50
4242 11961 1.699054 CCTGCCTGGGGATCGAATCA 61.699 60.000 0.00 0.00 0.00 2.57
4274 11993 5.432885 AAAATGTTCGTTCATTCCTCGTT 57.567 34.783 7.87 0.00 37.09 3.85
4340 12059 6.642950 CGGCAATTTTACTGGTTTTTACATGA 59.357 34.615 0.00 0.00 0.00 3.07
4364 12083 4.211164 TGATAAATCTTCCACAATAGCGCG 59.789 41.667 0.00 0.00 0.00 6.86
4458 12178 0.033601 AAGGCCACAACACCAAGTCA 60.034 50.000 5.01 0.00 0.00 3.41
4485 12452 2.241176 ACCAAAGTGAGTGAGGGTTTCA 59.759 45.455 0.00 0.00 0.00 2.69
4503 12470 3.276091 CAACGTGCGCCAGAACCA 61.276 61.111 4.18 0.00 0.00 3.67
4544 12511 2.821366 GTGTGGAGGCGGATGCAG 60.821 66.667 0.00 0.00 45.35 4.41


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

AutoCloner maintained by Alex Coulton.