Multiple sequence alignment - TraesCS3B01G512100

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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 TraesCS3B01G512100 chr3B 100.000 4154 0 0 1 4154 755603220 755607373 0.000000e+00 7672.0
1 TraesCS3B01G512100 chr3B 91.346 1144 81 11 2773 3912 754722149 754723278 0.000000e+00 1548.0
2 TraesCS3B01G512100 chr3B 90.181 886 49 15 1734 2596 754719860 754720730 0.000000e+00 1120.0
3 TraesCS3B01G512100 chr3B 85.584 985 108 23 2853 3821 754771834 754772800 0.000000e+00 1002.0
4 TraesCS3B01G512100 chr3B 88.228 841 65 26 3325 4153 755771861 755772679 0.000000e+00 974.0
5 TraesCS3B01G512100 chr3B 82.783 999 86 29 776 1734 754718067 754719019 0.000000e+00 813.0
6 TraesCS3B01G512100 chr3B 85.257 719 78 23 2853 3562 755660342 755661041 0.000000e+00 715.0
7 TraesCS3B01G512100 chr3B 92.890 436 27 3 2827 3260 755771430 755771863 7.580000e-177 630.0
8 TraesCS3B01G512100 chr3B 86.195 565 44 13 2014 2562 755575223 755575769 7.740000e-162 580.0
9 TraesCS3B01G512100 chr3B 81.034 754 77 29 1738 2454 755709766 755710490 1.310000e-149 540.0
10 TraesCS3B01G512100 chr3B 86.947 475 43 9 1967 2432 754770980 754771444 2.210000e-142 516.0
11 TraesCS3B01G512100 chr3B 80.371 647 82 14 2842 3459 756082112 756081482 2.280000e-122 449.0
12 TraesCS3B01G512100 chr3B 91.445 339 10 7 1734 2053 755770643 755770981 8.190000e-122 448.0
13 TraesCS3B01G512100 chr3B 91.608 286 22 2 852 1136 755573643 755573927 1.080000e-105 394.0
14 TraesCS3B01G512100 chr3B 81.053 475 53 26 851 1300 755707982 755708444 1.110000e-90 344.0
15 TraesCS3B01G512100 chr3B 86.170 188 26 0 1373 1560 755574104 755574291 1.960000e-48 204.0
16 TraesCS3B01G512100 chr3B 100.000 30 0 0 140 169 811225916 811225945 5.800000e-04 56.5
17 TraesCS3B01G512100 chr3A 92.999 1757 66 25 853 2593 700952155 700953870 0.000000e+00 2510.0
18 TraesCS3B01G512100 chr3A 93.305 1389 71 15 2774 4152 700953914 700955290 0.000000e+00 2030.0
19 TraesCS3B01G512100 chr3A 91.404 570 17 15 586 1136 700907373 700907929 0.000000e+00 752.0
20 TraesCS3B01G512100 chr3A 90.057 523 26 9 1894 2397 701123274 701123789 0.000000e+00 654.0
21 TraesCS3B01G512100 chr3A 81.507 730 79 30 594 1308 701121901 701122589 2.180000e-152 549.0
22 TraesCS3B01G512100 chr3A 84.464 560 73 8 1 554 700901667 700902218 1.310000e-149 540.0
23 TraesCS3B01G512100 chr3A 87.859 453 36 9 2157 2595 700908749 700909196 7.960000e-142 514.0
24 TraesCS3B01G512100 chr3A 79.921 757 91 35 1737 2454 700944580 700945314 2.230000e-137 499.0
25 TraesCS3B01G512100 chr3A 81.308 642 79 13 2839 3455 701140477 701141102 2.250000e-132 483.0
26 TraesCS3B01G512100 chr3A 83.364 547 51 29 776 1301 700959156 700959683 1.750000e-128 470.0
27 TraesCS3B01G512100 chr3A 80.878 638 76 23 2827 3460 700945674 700946269 1.050000e-125 460.0
28 TraesCS3B01G512100 chr3A 89.510 286 18 5 857 1136 700891107 700891386 6.610000e-93 351.0
29 TraesCS3B01G512100 chr3A 92.025 163 7 1 2594 2750 224473410 224473572 1.500000e-54 224.0
30 TraesCS3B01G512100 chr3A 89.385 179 7 7 595 767 701137746 701137918 9.040000e-52 215.0
31 TraesCS3B01G512100 chr3A 86.932 176 23 0 1373 1548 700891563 700891738 9.110000e-47 198.0
32 TraesCS3B01G512100 chr3A 75.414 423 47 33 575 972 700943113 700943503 7.190000e-33 152.0
33 TraesCS3B01G512100 chr3D 91.545 887 38 16 1734 2596 566132150 566131277 0.000000e+00 1188.0
34 TraesCS3B01G512100 chr3D 93.617 611 33 4 2830 3437 566422455 566421848 0.000000e+00 907.0
35 TraesCS3B01G512100 chr3D 83.552 991 112 30 2853 3824 566392398 566391440 0.000000e+00 880.0
36 TraesCS3B01G512100 chr3D 87.710 773 68 11 3392 4153 566298890 566298134 0.000000e+00 876.0
37 TraesCS3B01G512100 chr3D 82.983 999 79 38 776 1734 566138758 566137811 0.000000e+00 819.0
38 TraesCS3B01G512100 chr3D 92.131 521 29 5 2830 3341 566299980 566299463 0.000000e+00 725.0
39 TraesCS3B01G512100 chr3D 87.884 619 61 11 3538 4150 566397976 566397366 0.000000e+00 715.0
40 TraesCS3B01G512100 chr3D 86.923 650 32 22 1894 2521 566300776 566300158 0.000000e+00 680.0
41 TraesCS3B01G512100 chr3D 91.892 481 33 5 2773 3251 566129692 566129216 0.000000e+00 667.0
42 TraesCS3B01G512100 chr3D 85.479 606 58 13 2005 2595 566423160 566422570 4.590000e-169 604.0
43 TraesCS3B01G512100 chr3D 82.914 556 53 22 776 1302 566395018 566394476 2.930000e-126 462.0
44 TraesCS3B01G512100 chr3D 80.159 630 63 39 576 1189 566104002 566103419 8.310000e-112 414.0
45 TraesCS3B01G512100 chr3D 89.086 339 27 4 3375 3712 566112546 566112217 2.990000e-111 412.0
46 TraesCS3B01G512100 chr3D 87.097 310 16 10 857 1150 566302054 566301753 3.100000e-86 329.0
47 TraesCS3B01G512100 chr3D 87.586 290 17 8 852 1136 566423833 566423558 6.700000e-83 318.0
48 TraesCS3B01G512100 chr3D 91.195 159 13 1 2594 2751 101292386 101292228 9.040000e-52 215.0
49 TraesCS3B01G512100 chr3D 85.427 199 20 4 3260 3457 566100785 566100595 9.110000e-47 198.0
50 TraesCS3B01G512100 chr3D 86.364 176 23 1 1373 1548 566423386 566423212 1.520000e-44 191.0
51 TraesCS3B01G512100 chr3D 90.164 122 9 2 3706 3824 566112160 566112039 5.560000e-34 156.0
52 TraesCS3B01G512100 chr5D 93.631 157 10 0 2594 2750 400318889 400318733 6.940000e-58 235.0
53 TraesCS3B01G512100 chr5D 91.304 161 9 2 2591 2750 281171210 281171366 9.040000e-52 215.0
54 TraesCS3B01G512100 chr1B 92.453 159 10 2 2594 2751 145361531 145361688 4.180000e-55 226.0
55 TraesCS3B01G512100 chr2A 92.857 154 9 1 2597 2750 762748135 762747984 5.410000e-54 222.0
56 TraesCS3B01G512100 chr2A 83.471 121 19 1 1812 1932 718878387 718878506 1.220000e-20 111.0
57 TraesCS3B01G512100 chr5A 91.925 161 8 4 2594 2750 659839324 659839165 1.940000e-53 220.0
58 TraesCS3B01G512100 chr2B 91.720 157 12 1 2594 2750 448154919 448154764 2.510000e-52 217.0
59 TraesCS3B01G512100 chr1A 90.964 166 6 3 2593 2750 49976742 49976906 9.040000e-52 215.0
60 TraesCS3B01G512100 chr4A 86.709 158 16 3 3647 3800 658223033 658223189 1.990000e-38 171.0
61 TraesCS3B01G512100 chr2D 85.124 121 16 2 1812 1932 584625580 584625698 5.640000e-24 122.0
62 TraesCS3B01G512100 chr2D 77.344 128 20 5 3822 3944 592357765 592357888 2.680000e-07 67.6
63 TraesCS3B01G512100 chr7B 80.189 106 16 5 3822 3925 674467843 674467945 1.600000e-09 75.0
64 TraesCS3B01G512100 chr7B 90.196 51 3 2 3828 3878 636649848 636649896 9.640000e-07 65.8
65 TraesCS3B01G512100 chr6A 94.872 39 2 0 132 170 615818716 615818754 1.250000e-05 62.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G512100 chr3B 755603220 755607373 4153 False 7672.000000 7672 100.000000 1 4154 1 chr3B.!!$F1 4153
1 TraesCS3B01G512100 chr3B 754718067 754723278 5211 False 1160.333333 1548 88.103333 776 3912 3 chr3B.!!$F4 3136
2 TraesCS3B01G512100 chr3B 754770980 754772800 1820 False 759.000000 1002 86.265500 1967 3821 2 chr3B.!!$F5 1854
3 TraesCS3B01G512100 chr3B 755660342 755661041 699 False 715.000000 715 85.257000 2853 3562 1 chr3B.!!$F2 709
4 TraesCS3B01G512100 chr3B 755770643 755772679 2036 False 684.000000 974 90.854333 1734 4153 3 chr3B.!!$F8 2419
5 TraesCS3B01G512100 chr3B 756081482 756082112 630 True 449.000000 449 80.371000 2842 3459 1 chr3B.!!$R1 617
6 TraesCS3B01G512100 chr3B 755707982 755710490 2508 False 442.000000 540 81.043500 851 2454 2 chr3B.!!$F7 1603
7 TraesCS3B01G512100 chr3B 755573643 755575769 2126 False 392.666667 580 87.991000 852 2562 3 chr3B.!!$F6 1710
8 TraesCS3B01G512100 chr3A 700952155 700959683 7528 False 1670.000000 2510 89.889333 776 4152 3 chr3A.!!$F6 3376
9 TraesCS3B01G512100 chr3A 700907373 700909196 1823 False 633.000000 752 89.631500 586 2595 2 chr3A.!!$F4 2009
10 TraesCS3B01G512100 chr3A 701121901 701123789 1888 False 601.500000 654 85.782000 594 2397 2 chr3A.!!$F7 1803
11 TraesCS3B01G512100 chr3A 700901667 700902218 551 False 540.000000 540 84.464000 1 554 1 chr3A.!!$F2 553
12 TraesCS3B01G512100 chr3A 700943113 700946269 3156 False 370.333333 499 78.737667 575 3460 3 chr3A.!!$F5 2885
13 TraesCS3B01G512100 chr3A 701137746 701141102 3356 False 349.000000 483 85.346500 595 3455 2 chr3A.!!$F8 2860
14 TraesCS3B01G512100 chr3A 700891107 700891738 631 False 274.500000 351 88.221000 857 1548 2 chr3A.!!$F3 691
15 TraesCS3B01G512100 chr3D 566129216 566132150 2934 True 927.500000 1188 91.718500 1734 3251 2 chr3D.!!$R5 1517
16 TraesCS3B01G512100 chr3D 566137811 566138758 947 True 819.000000 819 82.983000 776 1734 1 chr3D.!!$R2 958
17 TraesCS3B01G512100 chr3D 566391440 566397976 6536 True 685.666667 880 84.783333 776 4150 3 chr3D.!!$R7 3374
18 TraesCS3B01G512100 chr3D 566298134 566302054 3920 True 652.500000 876 88.465250 857 4153 4 chr3D.!!$R6 3296
19 TraesCS3B01G512100 chr3D 566421848 566423833 1985 True 505.000000 907 88.261500 852 3437 4 chr3D.!!$R8 2585
20 TraesCS3B01G512100 chr3D 566100595 566104002 3407 True 306.000000 414 82.793000 576 3457 2 chr3D.!!$R3 2881
21 TraesCS3B01G512100 chr3D 566112039 566112546 507 True 284.000000 412 89.625000 3375 3824 2 chr3D.!!$R4 449

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
578 584 0.113580 ACCCGTACCCTTGCCAAAAT 59.886 50.000 0.0 0.0 0.00 1.82 F
767 799 0.252197 GTACCCCACCACCATCTCAC 59.748 60.000 0.0 0.0 0.00 3.51 F
2705 10472 1.277842 ACATCCGTATGTGGCAGTTCA 59.722 47.619 0.0 0.0 44.79 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2124 9123 0.538057 TGCCCAAGCAGTTCTGAAGG 60.538 55.000 3.84 2.05 46.52 3.46 R
2736 10503 0.323957 GGCTGTTACTCCCTCCGTTT 59.676 55.000 0.00 0.00 0.00 3.60 R
3746 13102 1.268896 GGCGATGAACTGAATGCATGG 60.269 52.381 0.00 0.00 0.00 3.66 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
29 30 8.397906 TGTCTTGCCGATCATAAGATTAAAAAG 58.602 33.333 6.58 0.00 33.72 2.27
121 122 6.115448 AGATTTAATGGAGAATAGACCCGG 57.885 41.667 0.00 0.00 0.00 5.73
134 135 1.416401 AGACCCGGTAGCCATATGTTG 59.584 52.381 0.00 0.00 0.00 3.33
135 136 0.179029 ACCCGGTAGCCATATGTTGC 60.179 55.000 0.00 0.00 0.00 4.17
138 139 1.227999 CGGTAGCCATATGTTGCGGG 61.228 60.000 1.24 0.00 0.00 6.13
155 156 1.002502 GGCGGTTTAAGGGTCTGCT 60.003 57.895 0.00 0.00 34.37 4.24
158 159 1.068541 GCGGTTTAAGGGTCTGCTTTG 60.069 52.381 0.00 0.00 0.00 2.77
191 192 7.339212 CCCTAAAGATGACAAACCAATGTATCA 59.661 37.037 0.00 0.00 32.57 2.15
199 200 7.394016 TGACAAACCAATGTATCATACACTCT 58.606 34.615 0.00 0.00 42.23 3.24
238 239 2.823747 AGGAACCTACCGCAAAATTTCC 59.176 45.455 0.00 0.00 34.73 3.13
241 242 3.653539 ACCTACCGCAAAATTTCCAAC 57.346 42.857 0.00 0.00 0.00 3.77
283 284 6.094464 CACACCACATGTCAAGATGATGTAAT 59.906 38.462 0.00 0.00 40.64 1.89
286 287 8.287503 CACCACATGTCAAGATGATGTAATATG 58.712 37.037 0.00 0.00 0.00 1.78
289 290 9.048446 CACATGTCAAGATGATGTAATATGTGA 57.952 33.333 0.00 0.00 42.36 3.58
312 313 9.416794 GTGATATCGATGAGTTGAGATAAATGT 57.583 33.333 8.54 0.00 0.00 2.71
321 322 6.920210 TGAGTTGAGATAAATGTGCTATCGAG 59.080 38.462 0.00 0.00 32.09 4.04
324 325 6.405278 TGAGATAAATGTGCTATCGAGGAA 57.595 37.500 0.00 0.00 32.09 3.36
329 330 7.933577 AGATAAATGTGCTATCGAGGAATTGAA 59.066 33.333 0.00 0.00 32.09 2.69
333 334 8.450578 AATGTGCTATCGAGGAATTGAAATAA 57.549 30.769 0.00 0.00 0.00 1.40
338 339 8.993121 TGCTATCGAGGAATTGAAATAATTCTC 58.007 33.333 10.96 6.90 36.97 2.87
388 389 6.741992 AAAGATTTGTCGAATGTGCTATCA 57.258 33.333 0.00 0.00 0.00 2.15
466 472 5.997746 CCAATGAGTATGGGTACTTGTATGG 59.002 44.000 0.00 0.00 41.19 2.74
471 477 6.014584 TGAGTATGGGTACTTGTATGGCTATG 60.015 42.308 0.00 0.00 41.19 2.23
478 484 6.358991 GGTACTTGTATGGCTATGGGTAAAA 58.641 40.000 0.00 0.00 0.00 1.52
515 521 6.164176 GGGTACCGATATGGATAGAGTTTTG 58.836 44.000 5.65 0.00 40.86 2.44
533 539 7.715265 AGTTTTGTACTCATTGACTACACTG 57.285 36.000 5.87 0.00 28.23 3.66
539 545 6.661805 TGTACTCATTGACTACACTGGTATGA 59.338 38.462 0.00 0.00 0.00 2.15
540 546 6.214191 ACTCATTGACTACACTGGTATGAG 57.786 41.667 0.00 0.00 39.88 2.90
549 555 7.783119 TGACTACACTGGTATGAGTATGGTATT 59.217 37.037 0.00 0.00 0.00 1.89
554 560 5.841237 ACTGGTATGAGTATGGTATTGCTCT 59.159 40.000 0.00 0.00 0.00 4.09
556 562 7.039644 ACTGGTATGAGTATGGTATTGCTCTAC 60.040 40.741 0.00 0.00 0.00 2.59
557 563 6.072119 TGGTATGAGTATGGTATTGCTCTACG 60.072 42.308 0.00 0.00 0.00 3.51
558 564 4.238761 TGAGTATGGTATTGCTCTACGC 57.761 45.455 0.00 0.00 39.77 4.42
574 580 4.338710 GCACCCGTACCCTTGCCA 62.339 66.667 0.00 0.00 0.00 4.92
578 584 0.113580 ACCCGTACCCTTGCCAAAAT 59.886 50.000 0.00 0.00 0.00 1.82
579 585 1.262417 CCCGTACCCTTGCCAAAATT 58.738 50.000 0.00 0.00 0.00 1.82
580 586 1.203758 CCCGTACCCTTGCCAAAATTC 59.796 52.381 0.00 0.00 0.00 2.17
629 636 3.374367 GGAAGGAAGCTACCACGAAATTC 59.626 47.826 0.00 0.00 0.00 2.17
642 649 2.171448 ACGAAATTCCCAGATGCTAGCT 59.829 45.455 17.23 0.83 0.00 3.32
643 650 3.388024 ACGAAATTCCCAGATGCTAGCTA 59.612 43.478 17.23 2.58 0.00 3.32
767 799 0.252197 GTACCCCACCACCATCTCAC 59.748 60.000 0.00 0.00 0.00 3.51
824 3033 4.702274 CCCCCAACCCCAAGCCAG 62.702 72.222 0.00 0.00 0.00 4.85
863 3077 4.329545 GCCACCTCCCGCTCACAA 62.330 66.667 0.00 0.00 0.00 3.33
986 3256 4.790861 CGCAGCGAGCAGAGCAGA 62.791 66.667 9.98 0.00 46.13 4.26
987 3257 2.886604 GCAGCGAGCAGAGCAGAG 60.887 66.667 0.00 0.00 44.79 3.35
988 3258 2.202770 CAGCGAGCAGAGCAGAGG 60.203 66.667 0.00 0.00 37.01 3.69
989 3259 4.146075 AGCGAGCAGAGCAGAGGC 62.146 66.667 0.00 0.00 41.61 4.70
1008 3287 2.203126 GAGCAGGGGATGAAGCGG 60.203 66.667 0.00 0.00 0.00 5.52
1145 3436 2.552367 CTTCTTGTACTCCCTCCCCTT 58.448 52.381 0.00 0.00 0.00 3.95
1197 4132 4.762289 TCTCTTTCTTCCCTAGAATGCC 57.238 45.455 0.00 0.00 42.32 4.40
1198 4133 3.133003 TCTCTTTCTTCCCTAGAATGCCG 59.867 47.826 0.00 0.00 42.32 5.69
1199 4134 2.170607 TCTTTCTTCCCTAGAATGCCGG 59.829 50.000 0.00 0.00 42.32 6.13
1223 4158 5.561993 CCTTTGTGTGTTTTCTTGCAAATG 58.438 37.500 0.00 0.00 0.00 2.32
1357 4662 7.956328 AAACTTAGAATCCTACAATTTCCCC 57.044 36.000 0.00 0.00 0.00 4.81
1358 4663 6.014771 ACTTAGAATCCTACAATTTCCCCC 57.985 41.667 0.00 0.00 0.00 5.40
1457 4785 2.158813 TCTGGAGTGAAAACCTGGTCAC 60.159 50.000 0.00 4.28 43.70 3.67
1605 4952 8.184192 ACAGATTAAAGCATTTTTGATACCTCG 58.816 33.333 0.00 0.00 40.09 4.63
1641 4988 3.571401 CCATAAATCTTAGCAGCCCCTTG 59.429 47.826 0.00 0.00 0.00 3.61
1686 5034 4.655963 TGATCTGGAAAGGAAAGGAACAG 58.344 43.478 0.00 0.00 0.00 3.16
1960 8838 4.595986 AGCCATACGTTTTTCATAACCCT 58.404 39.130 0.00 0.00 0.00 4.34
2109 9108 7.750229 TGAACTGCATAAAGTCTTCAATTCT 57.250 32.000 0.00 0.00 0.00 2.40
2111 9110 8.077991 TGAACTGCATAAAGTCTTCAATTCTTG 58.922 33.333 0.00 0.00 0.00 3.02
2112 9111 7.750229 ACTGCATAAAGTCTTCAATTCTTGA 57.250 32.000 0.00 0.00 38.04 3.02
2119 9118 9.784531 ATAAAGTCTTCAATTCTTGAGTCTTGA 57.215 29.630 0.00 0.00 41.38 3.02
2124 9123 7.117092 GTCTTCAATTCTTGAGTCTTGACTACC 59.883 40.741 3.00 0.00 41.38 3.18
2133 9132 4.281182 TGAGTCTTGACTACCCTTCAGAAC 59.719 45.833 3.00 0.00 0.00 3.01
2152 9151 1.529010 TGCTTGGGCAGGAACACAG 60.529 57.895 0.00 0.00 44.28 3.66
2341 9344 7.715266 TTCATCATTGTTATGGTTGATTGGA 57.285 32.000 0.00 0.00 32.40 3.53
2373 9376 6.672266 TCACTTTGTCTCTTCTATTGTCCT 57.328 37.500 0.00 0.00 0.00 3.85
2453 9623 8.850454 TTTTCTCATTGGTTCTTACGAAAAAG 57.150 30.769 0.00 0.00 0.00 2.27
2497 9682 6.704310 ACTCATGCTTTTCTATTTGCCAAAT 58.296 32.000 7.93 7.93 34.90 2.32
2596 9797 9.995003 TTGTCCATTTGAGCAATAAATTTTACT 57.005 25.926 0.00 0.00 0.00 2.24
2598 9799 9.087424 GTCCATTTGAGCAATAAATTTTACTCC 57.913 33.333 0.00 0.00 0.00 3.85
2599 9800 8.257306 TCCATTTGAGCAATAAATTTTACTCCC 58.743 33.333 0.00 0.00 0.00 4.30
2600 9801 8.260114 CCATTTGAGCAATAAATTTTACTCCCT 58.740 33.333 0.00 0.00 0.00 4.20
2601 9802 9.305925 CATTTGAGCAATAAATTTTACTCCCTC 57.694 33.333 0.00 0.00 0.00 4.30
2602 9803 7.404671 TTGAGCAATAAATTTTACTCCCTCC 57.595 36.000 0.00 0.00 0.00 4.30
2603 9804 6.489603 TGAGCAATAAATTTTACTCCCTCCA 58.510 36.000 0.00 0.00 0.00 3.86
2604 9805 7.125391 TGAGCAATAAATTTTACTCCCTCCAT 58.875 34.615 0.00 0.00 0.00 3.41
2605 9806 7.619302 TGAGCAATAAATTTTACTCCCTCCATT 59.381 33.333 0.00 0.00 0.00 3.16
2606 9807 8.011844 AGCAATAAATTTTACTCCCTCCATTC 57.988 34.615 0.00 0.00 0.00 2.67
2607 9808 7.069950 AGCAATAAATTTTACTCCCTCCATTCC 59.930 37.037 0.00 0.00 0.00 3.01
2609 9810 9.640952 CAATAAATTTTACTCCCTCCATTCCTA 57.359 33.333 0.00 0.00 0.00 2.94
2617 9818 9.640952 TTTACTCCCTCCATTCCTAAATATTTG 57.359 33.333 11.05 1.40 0.00 2.32
2619 9820 8.344939 ACTCCCTCCATTCCTAAATATTTGTA 57.655 34.615 11.05 0.00 0.00 2.41
2620 9821 8.960064 ACTCCCTCCATTCCTAAATATTTGTAT 58.040 33.333 11.05 0.00 0.00 2.29
2644 9845 6.721571 ATTTCAACAAGTGACTACATACGG 57.278 37.500 0.00 0.00 35.39 4.02
2646 9847 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
2650 9851 4.242475 CAAGTGACTACATACGGAGCAAA 58.758 43.478 0.00 0.00 0.00 3.68
2651 9852 4.530710 AGTGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
2652 9853 5.086104 AGTGACTACATACGGAGCAAAAT 57.914 39.130 0.00 0.00 0.00 1.82
2653 9854 4.870426 AGTGACTACATACGGAGCAAAATG 59.130 41.667 0.00 0.00 0.00 2.32
2655 9856 5.005779 GTGACTACATACGGAGCAAAATGAG 59.994 44.000 0.00 0.00 0.00 2.90
2656 9857 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
2657 9858 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
2658 9859 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
2659 9860 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
2660 9861 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
2662 9863 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
2663 9864 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
2702 10469 3.111853 CATACATCCGTATGTGGCAGT 57.888 47.619 3.56 0.00 46.70 4.40
2703 10470 3.466836 CATACATCCGTATGTGGCAGTT 58.533 45.455 3.56 0.00 46.70 3.16
2704 10471 2.024176 ACATCCGTATGTGGCAGTTC 57.976 50.000 0.00 0.00 44.79 3.01
2705 10472 1.277842 ACATCCGTATGTGGCAGTTCA 59.722 47.619 0.00 0.00 44.79 3.18
2706 10473 2.092968 ACATCCGTATGTGGCAGTTCAT 60.093 45.455 0.00 0.00 44.79 2.57
2707 10474 2.779755 TCCGTATGTGGCAGTTCATT 57.220 45.000 0.00 0.00 0.00 2.57
2708 10475 3.066291 TCCGTATGTGGCAGTTCATTT 57.934 42.857 0.00 0.00 0.00 2.32
2709 10476 2.746904 TCCGTATGTGGCAGTTCATTTG 59.253 45.455 0.00 0.00 0.00 2.32
2710 10477 2.746904 CCGTATGTGGCAGTTCATTTGA 59.253 45.455 0.00 0.00 0.00 2.69
2712 10479 4.320861 CCGTATGTGGCAGTTCATTTGAAA 60.321 41.667 0.00 0.00 35.58 2.69
2713 10480 5.401550 CGTATGTGGCAGTTCATTTGAAAT 58.598 37.500 0.00 0.00 35.58 2.17
2745 10512 7.625828 AAGACAAATATTTAGAAACGGAGGG 57.374 36.000 0.00 0.00 0.00 4.30
2746 10513 6.954232 AGACAAATATTTAGAAACGGAGGGA 58.046 36.000 0.00 0.00 0.00 4.20
2747 10514 7.048512 AGACAAATATTTAGAAACGGAGGGAG 58.951 38.462 0.00 0.00 0.00 4.30
2845 11527 0.594602 TTGCATCTCACAAGCACAGC 59.405 50.000 0.00 0.00 38.11 4.40
2866 11594 3.624707 GCCCAGATACCCTGTGAAATCAA 60.625 47.826 0.00 0.00 41.33 2.57
2868 11596 5.203528 CCCAGATACCCTGTGAAATCAATT 58.796 41.667 0.00 0.00 41.33 2.32
2970 11705 2.351350 GGTCGTGGCGATTTTCATGTTT 60.351 45.455 0.00 0.00 38.42 2.83
2988 11723 2.099141 TTTCAGGAGCATGTTCCTCG 57.901 50.000 26.71 20.76 45.86 4.63
3460 12742 9.455847 GTGCAATGGAATTTTATATCTCTTCAC 57.544 33.333 0.00 0.00 31.22 3.18
3461 12743 8.632679 TGCAATGGAATTTTATATCTCTTCACC 58.367 33.333 0.00 0.00 31.22 4.02
3462 12744 8.632679 GCAATGGAATTTTATATCTCTTCACCA 58.367 33.333 0.00 0.00 31.22 4.17
3499 12787 4.275936 AGTCGAACACATTTTTGGAAGGAG 59.724 41.667 0.00 0.00 0.00 3.69
3518 12806 3.186613 GGAGGTTCAGTTTAGTCTTTGCG 59.813 47.826 0.00 0.00 0.00 4.85
3557 12845 7.004086 TCAACCTGGTTCATAAATTCAGAAGT 58.996 34.615 9.62 0.00 0.00 3.01
3606 12899 6.854496 AGTTTAGATCGTAGTTTGCAACAA 57.146 33.333 0.00 0.00 0.00 2.83
3623 12916 6.344500 TGCAACAACATCCATTAAAAACAGT 58.656 32.000 0.00 0.00 0.00 3.55
3698 12991 7.362056 GCCTGCACAATCTTAAACTGATAAAGA 60.362 37.037 0.00 0.00 34.00 2.52
3746 13102 5.971895 TTGCAAAAATCAAACAGCTCTTC 57.028 34.783 0.00 0.00 0.00 2.87
3826 13192 1.868498 CTCGGTCCAGCAAACGTTAAA 59.132 47.619 0.00 0.00 0.00 1.52
3868 13234 7.352719 TGTTGAACACAAATTACAAAACACC 57.647 32.000 0.00 0.00 29.87 4.16
3874 13240 6.259638 ACACAAATTACAAAACACCGTACTG 58.740 36.000 0.00 0.00 0.00 2.74
3882 13248 9.852091 ATTACAAAACACCGTACTGTTTAAAAA 57.148 25.926 12.17 8.11 42.36 1.94
3918 13284 9.535878 AACCTTTTTGAAACGCAAATATTTCTA 57.464 25.926 0.00 0.00 45.30 2.10
4135 13513 8.470657 AAGAAGAAGAAGAAAAATGCTTAGGT 57.529 30.769 0.00 0.00 0.00 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
115 116 1.878953 CAACATATGGCTACCGGGTC 58.121 55.000 6.32 0.00 0.00 4.46
117 118 1.227999 CGCAACATATGGCTACCGGG 61.228 60.000 6.32 0.00 0.00 5.73
121 122 1.841663 CGCCCGCAACATATGGCTAC 61.842 60.000 7.80 0.00 41.80 3.58
134 135 3.129502 GACCCTTAAACCGCCCGC 61.130 66.667 0.00 0.00 0.00 6.13
135 136 1.743995 CAGACCCTTAAACCGCCCG 60.744 63.158 0.00 0.00 0.00 6.13
138 139 1.068541 CAAAGCAGACCCTTAAACCGC 60.069 52.381 0.00 0.00 0.00 5.68
155 156 4.018506 TGTCATCTTTAGGGCATCTCCAAA 60.019 41.667 0.00 0.00 36.21 3.28
158 159 3.845781 TGTCATCTTTAGGGCATCTCC 57.154 47.619 0.00 0.00 0.00 3.71
191 192 4.937201 TGACGGCATCATAAGAGTGTAT 57.063 40.909 0.00 0.00 29.99 2.29
199 200 2.437651 TCCTTCCATGACGGCATCATAA 59.562 45.455 0.00 0.00 46.96 1.90
238 239 2.301577 GGTACCTCTGCTAGCAGTTG 57.698 55.000 36.99 30.26 43.96 3.16
286 287 9.416794 ACATTTATCTCAACTCATCGATATCAC 57.583 33.333 0.00 0.00 0.00 3.06
289 290 8.093307 AGCACATTTATCTCAACTCATCGATAT 58.907 33.333 0.00 0.00 0.00 1.63
299 300 6.216569 TCCTCGATAGCACATTTATCTCAAC 58.783 40.000 0.00 0.00 0.00 3.18
312 313 8.908786 AGAATTATTTCAATTCCTCGATAGCA 57.091 30.769 6.19 0.00 37.36 3.49
367 368 6.539826 TCATTGATAGCACATTCGACAAATCT 59.460 34.615 0.00 0.00 0.00 2.40
368 369 6.718388 TCATTGATAGCACATTCGACAAATC 58.282 36.000 0.00 0.00 0.00 2.17
369 370 6.682423 TCATTGATAGCACATTCGACAAAT 57.318 33.333 0.00 0.00 0.00 2.32
442 443 5.997746 CCATACAAGTACCCATACTCATTGG 59.002 44.000 0.00 0.00 41.00 3.16
444 445 5.369699 AGCCATACAAGTACCCATACTCATT 59.630 40.000 0.00 0.00 41.00 2.57
459 460 6.486056 TGAACTTTTACCCATAGCCATACAA 58.514 36.000 0.00 0.00 0.00 2.41
460 461 6.068461 TGAACTTTTACCCATAGCCATACA 57.932 37.500 0.00 0.00 0.00 2.29
493 499 8.574737 AGTACAAAACTCTATCCATATCGGTAC 58.425 37.037 0.00 0.00 30.33 3.34
510 516 6.482308 ACCAGTGTAGTCAATGAGTACAAAAC 59.518 38.462 26.80 17.16 45.96 2.43
515 521 7.096884 TCATACCAGTGTAGTCAATGAGTAC 57.903 40.000 18.62 18.62 41.41 2.73
532 538 6.072119 CGTAGAGCAATACCATACTCATACCA 60.072 42.308 0.00 0.00 0.00 3.25
533 539 6.323266 CGTAGAGCAATACCATACTCATACC 58.677 44.000 0.00 0.00 0.00 2.73
554 560 2.972267 CAAGGGTACGGGTGCGTA 59.028 61.111 0.00 0.00 0.00 4.42
557 563 3.853698 TTGGCAAGGGTACGGGTGC 62.854 63.158 0.00 5.06 36.24 5.01
558 564 0.824182 TTTTGGCAAGGGTACGGGTG 60.824 55.000 0.00 0.00 0.00 4.61
560 566 1.203758 GAATTTTGGCAAGGGTACGGG 59.796 52.381 0.00 0.00 0.00 5.28
561 567 1.889829 TGAATTTTGGCAAGGGTACGG 59.110 47.619 0.00 0.00 0.00 4.02
562 568 3.510719 CATGAATTTTGGCAAGGGTACG 58.489 45.455 0.00 0.00 0.00 3.67
563 569 3.260632 ACCATGAATTTTGGCAAGGGTAC 59.739 43.478 0.00 0.00 37.81 3.34
564 570 3.515562 ACCATGAATTTTGGCAAGGGTA 58.484 40.909 0.00 0.00 37.81 3.69
566 572 4.758773 ATACCATGAATTTTGGCAAGGG 57.241 40.909 0.00 0.00 37.81 3.95
567 573 6.469782 AGTATACCATGAATTTTGGCAAGG 57.530 37.500 0.00 0.00 37.81 3.61
568 574 8.902806 TCTTAGTATACCATGAATTTTGGCAAG 58.097 33.333 0.00 0.00 37.81 4.01
569 575 8.815565 TCTTAGTATACCATGAATTTTGGCAA 57.184 30.769 0.00 0.00 37.81 4.52
570 576 8.849168 CATCTTAGTATACCATGAATTTTGGCA 58.151 33.333 0.00 0.00 37.81 4.92
578 584 8.262601 ACCACATCATCTTAGTATACCATGAA 57.737 34.615 0.00 0.00 0.00 2.57
579 585 7.508977 TGACCACATCATCTTAGTATACCATGA 59.491 37.037 0.00 3.41 29.99 3.07
580 586 7.670364 TGACCACATCATCTTAGTATACCATG 58.330 38.462 0.00 0.00 29.99 3.66
767 799 2.045536 GCAGAGCAGGAACCAGGG 60.046 66.667 0.00 0.00 0.00 4.45
863 3077 0.631212 GGGATGGGAAAGGTGATGGT 59.369 55.000 0.00 0.00 0.00 3.55
984 3254 2.071262 CATCCCCTGCTCTGCCTCT 61.071 63.158 0.00 0.00 0.00 3.69
986 3256 1.617536 TTCATCCCCTGCTCTGCCT 60.618 57.895 0.00 0.00 0.00 4.75
987 3257 1.153005 CTTCATCCCCTGCTCTGCC 60.153 63.158 0.00 0.00 0.00 4.85
988 3258 1.823041 GCTTCATCCCCTGCTCTGC 60.823 63.158 0.00 0.00 0.00 4.26
989 3259 1.523258 CGCTTCATCCCCTGCTCTG 60.523 63.158 0.00 0.00 0.00 3.35
1145 3436 1.133606 GCGGGGGAATGAAATTAGGGA 60.134 52.381 0.00 0.00 36.07 4.20
1197 4132 2.192624 CAAGAAAACACACAAAGGCCG 58.807 47.619 0.00 0.00 0.00 6.13
1198 4133 1.933181 GCAAGAAAACACACAAAGGCC 59.067 47.619 0.00 0.00 0.00 5.19
1199 4134 2.615869 TGCAAGAAAACACACAAAGGC 58.384 42.857 0.00 0.00 0.00 4.35
1251 4197 1.197430 AACAGACCCAGAGCCCAGAG 61.197 60.000 0.00 0.00 0.00 3.35
1357 4662 5.385509 ACAAGGGTTGATAATGTTTTCGG 57.614 39.130 0.00 0.00 0.00 4.30
1358 4663 8.804688 TTAAACAAGGGTTGATAATGTTTTCG 57.195 30.769 7.40 0.00 42.39 3.46
1457 4785 8.610896 CAGAATCCTTTGCAGATAAAAGAGTAG 58.389 37.037 0.00 0.00 36.88 2.57
1605 4952 4.344390 AGATTTATGGTTCTCCCCGTAGTC 59.656 45.833 0.00 0.00 0.00 2.59
1616 4963 3.570125 GGGGCTGCTAAGATTTATGGTTC 59.430 47.826 0.00 0.00 0.00 3.62
1641 4988 1.419374 AAGAACACGACGATGACTGC 58.581 50.000 0.00 0.00 0.00 4.40
1686 5034 5.183904 ACTTCCAAGCACATCATAAGGTTTC 59.816 40.000 0.00 0.00 0.00 2.78
2109 9108 4.480115 TCTGAAGGGTAGTCAAGACTCAA 58.520 43.478 5.91 0.00 42.54 3.02
2111 9110 4.525100 AGTTCTGAAGGGTAGTCAAGACTC 59.475 45.833 5.91 0.00 42.54 3.36
2112 9111 4.282195 CAGTTCTGAAGGGTAGTCAAGACT 59.718 45.833 7.96 7.96 45.02 3.24
2119 9118 2.039084 CCAAGCAGTTCTGAAGGGTAGT 59.961 50.000 3.84 0.00 0.00 2.73
2124 9123 0.538057 TGCCCAAGCAGTTCTGAAGG 60.538 55.000 3.84 2.05 46.52 3.46
2149 9148 3.687212 TGATGTCGACAAAACACAACTGT 59.313 39.130 24.13 0.14 0.00 3.55
2152 9151 5.095691 AGATGATGTCGACAAAACACAAC 57.904 39.130 24.13 14.97 0.00 3.32
2341 9344 4.273148 AGAGACAAAGTGAACGGCTTAT 57.727 40.909 0.00 0.00 0.00 1.73
2373 9376 6.335471 TCAGTTAATTCAGACGTACCTCAA 57.665 37.500 0.00 0.00 0.00 3.02
2453 9623 3.694566 AGTTGCACTTATCCGGAATTTCC 59.305 43.478 9.01 5.28 0.00 3.13
2490 9675 2.699846 AGGCAGAACAAGAAATTTGGCA 59.300 40.909 0.00 0.00 34.03 4.92
2497 9682 2.057922 AGAGGGAGGCAGAACAAGAAA 58.942 47.619 0.00 0.00 0.00 2.52
2619 9820 8.255206 TCCGTATGTAGTCACTTGTTGAAATAT 58.745 33.333 0.00 0.00 35.39 1.28
2620 9821 7.604549 TCCGTATGTAGTCACTTGTTGAAATA 58.395 34.615 0.00 0.00 35.39 1.40
2621 9822 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
2622 9823 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
2624 9825 4.617530 GCTCCGTATGTAGTCACTTGTTGA 60.618 45.833 0.00 0.00 0.00 3.18
2625 9826 3.612860 GCTCCGTATGTAGTCACTTGTTG 59.387 47.826 0.00 0.00 0.00 3.33
2628 9829 3.503827 TGCTCCGTATGTAGTCACTTG 57.496 47.619 0.00 0.00 0.00 3.16
2629 9830 4.530710 TTTGCTCCGTATGTAGTCACTT 57.469 40.909 0.00 0.00 0.00 3.16
2630 9831 4.530710 TTTTGCTCCGTATGTAGTCACT 57.469 40.909 0.00 0.00 0.00 3.41
2631 9832 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
2632 9833 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
2633 9834 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
2634 9835 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
2635 9836 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
2637 9838 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
2638 9839 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
2640 9841 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
2641 9842 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
2642 9843 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
2643 9844 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
2644 9845 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
2686 10453 2.022764 TGAACTGCCACATACGGATG 57.977 50.000 5.94 5.94 39.16 3.51
2688 10455 2.746904 CAAATGAACTGCCACATACGGA 59.253 45.455 0.00 0.00 0.00 4.69
2693 10460 5.011329 AGACATTTCAAATGAACTGCCACAT 59.989 36.000 17.30 0.00 37.98 3.21
2694 10461 4.341806 AGACATTTCAAATGAACTGCCACA 59.658 37.500 17.30 0.00 37.98 4.17
2695 10462 4.874970 AGACATTTCAAATGAACTGCCAC 58.125 39.130 17.30 5.92 37.98 5.01
2696 10463 6.003326 TCTAGACATTTCAAATGAACTGCCA 58.997 36.000 17.30 1.27 37.98 4.92
2697 10464 6.500684 TCTAGACATTTCAAATGAACTGCC 57.499 37.500 17.30 3.26 37.98 4.85
2698 10465 8.292448 TCTTTCTAGACATTTCAAATGAACTGC 58.708 33.333 17.30 6.61 37.98 4.40
2718 10485 8.947115 CCTCCGTTTCTAAATATTTGTCTTTCT 58.053 33.333 11.05 0.00 0.00 2.52
2719 10486 8.182227 CCCTCCGTTTCTAAATATTTGTCTTTC 58.818 37.037 11.05 0.00 0.00 2.62
2720 10487 7.886446 TCCCTCCGTTTCTAAATATTTGTCTTT 59.114 33.333 11.05 0.00 0.00 2.52
2721 10488 7.399634 TCCCTCCGTTTCTAAATATTTGTCTT 58.600 34.615 11.05 0.00 0.00 3.01
2722 10489 6.954232 TCCCTCCGTTTCTAAATATTTGTCT 58.046 36.000 11.05 0.00 0.00 3.41
2723 10490 6.822170 ACTCCCTCCGTTTCTAAATATTTGTC 59.178 38.462 11.05 0.00 0.00 3.18
2724 10491 6.718294 ACTCCCTCCGTTTCTAAATATTTGT 58.282 36.000 11.05 0.00 0.00 2.83
2726 10493 8.323567 TGTTACTCCCTCCGTTTCTAAATATTT 58.676 33.333 5.89 5.89 0.00 1.40
2727 10494 7.854337 TGTTACTCCCTCCGTTTCTAAATATT 58.146 34.615 0.00 0.00 0.00 1.28
2728 10495 7.427989 TGTTACTCCCTCCGTTTCTAAATAT 57.572 36.000 0.00 0.00 0.00 1.28
2729 10496 6.628844 GCTGTTACTCCCTCCGTTTCTAAATA 60.629 42.308 0.00 0.00 0.00 1.40
2730 10497 5.731591 CTGTTACTCCCTCCGTTTCTAAAT 58.268 41.667 0.00 0.00 0.00 1.40
2731 10498 4.562143 GCTGTTACTCCCTCCGTTTCTAAA 60.562 45.833 0.00 0.00 0.00 1.85
2732 10499 3.056322 GCTGTTACTCCCTCCGTTTCTAA 60.056 47.826 0.00 0.00 0.00 2.10
2733 10500 2.494870 GCTGTTACTCCCTCCGTTTCTA 59.505 50.000 0.00 0.00 0.00 2.10
2734 10501 1.275573 GCTGTTACTCCCTCCGTTTCT 59.724 52.381 0.00 0.00 0.00 2.52
2736 10503 0.323957 GGCTGTTACTCCCTCCGTTT 59.676 55.000 0.00 0.00 0.00 3.60
2737 10504 0.834687 TGGCTGTTACTCCCTCCGTT 60.835 55.000 0.00 0.00 0.00 4.44
2738 10505 0.834687 TTGGCTGTTACTCCCTCCGT 60.835 55.000 0.00 0.00 0.00 4.69
2739 10506 0.541863 ATTGGCTGTTACTCCCTCCG 59.458 55.000 0.00 0.00 0.00 4.63
2740 10507 3.744660 CATATTGGCTGTTACTCCCTCC 58.255 50.000 0.00 0.00 0.00 4.30
2743 10510 3.214696 AGCATATTGGCTGTTACTCCC 57.785 47.619 0.00 0.00 43.89 4.30
2745 10512 4.142403 TGCAAAGCATATTGGCTGTTACTC 60.142 41.667 0.00 0.00 45.07 2.59
2746 10513 3.763360 TGCAAAGCATATTGGCTGTTACT 59.237 39.130 0.00 0.00 45.07 2.24
2747 10514 4.108699 TGCAAAGCATATTGGCTGTTAC 57.891 40.909 0.00 0.00 45.07 2.50
2804 11446 7.555914 TGCAATGACAGCCATTAGTTCTTAATA 59.444 33.333 0.00 0.00 43.27 0.98
2878 11607 3.679389 TCAAGATTCCAAGAACTGCTCC 58.321 45.455 0.00 0.00 0.00 4.70
2946 11681 0.953471 TGAAAATCGCCACGACCTGG 60.953 55.000 0.00 0.00 44.08 4.45
2970 11705 0.250234 CCGAGGAACATGCTCCTGAA 59.750 55.000 22.38 0.00 46.33 3.02
2988 11723 1.168714 AGAAAATTGTCAGGCTCGCC 58.831 50.000 0.00 0.00 0.00 5.54
3270 12029 5.352284 AGCTACTATCAAACAGACAATCCG 58.648 41.667 0.00 0.00 0.00 4.18
3373 12186 9.549078 CGAGTTATCTCCATATATGCTACTCTA 57.451 37.037 7.24 0.00 37.40 2.43
3499 12787 2.548480 AGCGCAAAGACTAAACTGAACC 59.452 45.455 11.47 0.00 0.00 3.62
3518 12806 3.873952 CCAGGTTGAAACTATAGAGCAGC 59.126 47.826 6.78 3.54 0.00 5.25
3579 12867 8.236084 GTTGCAAACTACGATCTAAACTTAGA 57.764 34.615 0.00 1.77 45.32 2.10
3735 13091 3.159472 TGAATGCATGGAAGAGCTGTTT 58.841 40.909 0.00 0.00 0.00 2.83
3746 13102 1.268896 GGCGATGAACTGAATGCATGG 60.269 52.381 0.00 0.00 0.00 3.66
3886 13252 4.612943 TGCGTTTCAAAAAGGTTGATACC 58.387 39.130 4.72 0.00 45.39 2.73
3887 13253 6.576551 TTTGCGTTTCAAAAAGGTTGATAC 57.423 33.333 0.00 0.00 41.36 2.24
4029 13400 6.913170 TCTGAAACCTGCTCAAAAATATGAC 58.087 36.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.