Multiple sequence alignment - TraesCS1B01G072900

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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 TraesCS1B01G072900 chr1B 100.000 4622 0 0 1 4622 57129046 57133667 0.000000e+00 8536.0
1 TraesCS1B01G072900 chr1B 85.881 2479 339 7 1218 3693 56493582 56491112 0.000000e+00 2628.0
2 TraesCS1B01G072900 chr1B 84.984 2524 354 16 1186 3693 56620526 56618012 0.000000e+00 2538.0
3 TraesCS1B01G072900 chr1B 85.056 2496 352 18 1207 3693 56501777 56499294 0.000000e+00 2523.0
4 TraesCS1B01G072900 chr1B 85.239 1233 141 22 846 2057 57373614 57374826 0.000000e+00 1230.0
5 TraesCS1B01G072900 chr1B 81.359 515 82 10 4099 4608 57018447 57018952 1.550000e-109 407.0
6 TraesCS1B01G072900 chr1B 89.773 88 6 3 3843 3929 213905705 213905790 4.890000e-20 110.0
7 TraesCS1B01G072900 chr1B 90.476 84 5 2 3847 3929 364123506 364123425 1.760000e-19 108.0
8 TraesCS1B01G072900 chr1D 88.884 2492 268 8 1207 3693 36624586 36622099 0.000000e+00 3059.0
9 TraesCS1B01G072900 chr1D 87.055 2526 312 10 1158 3677 37423814 37426330 0.000000e+00 2839.0
10 TraesCS1B01G072900 chr1D 86.053 2488 337 6 1186 3665 36618201 36615716 0.000000e+00 2663.0
11 TraesCS1B01G072900 chr1D 84.606 2527 375 12 1193 3709 38259680 38257158 0.000000e+00 2499.0
12 TraesCS1B01G072900 chr1A 87.038 2600 309 22 1162 3745 36613156 36615743 0.000000e+00 2909.0
13 TraesCS1B01G072900 chr1A 86.648 2449 314 8 1167 3612 36635532 36637970 0.000000e+00 2699.0
14 TraesCS1B01G072900 chr1A 87.992 483 52 3 3929 4410 36615888 36616365 2.410000e-157 566.0
15 TraesCS1B01G072900 chr2D 85.236 2689 339 28 1193 3847 579327503 579330167 0.000000e+00 2713.0
16 TraesCS1B01G072900 chr2D 94.064 219 12 1 3963 4180 579350225 579350443 9.590000e-87 331.0
17 TraesCS1B01G072900 chr2A 93.868 848 46 5 3 848 550181555 550180712 0.000000e+00 1273.0
18 TraesCS1B01G072900 chr2A 91.844 846 64 3 3 848 348049710 348048870 0.000000e+00 1175.0
19 TraesCS1B01G072900 chr2A 90.449 691 57 4 3929 4617 717003598 717004281 0.000000e+00 902.0
20 TraesCS1B01G072900 chr2A 85.436 769 80 4 3108 3847 717002826 717003591 0.000000e+00 771.0
21 TraesCS1B01G072900 chr6A 92.671 846 61 1 3 848 155747584 155748428 0.000000e+00 1218.0
22 TraesCS1B01G072900 chr6A 84.534 847 127 4 3 848 180929619 180930462 0.000000e+00 835.0
23 TraesCS1B01G072900 chr6A 96.296 81 2 1 3849 3929 335763418 335763497 1.040000e-26 132.0
24 TraesCS1B01G072900 chr6A 92.500 80 6 0 3848 3927 219602722 219602643 1.050000e-21 115.0
25 TraesCS1B01G072900 chr2B 92.344 849 59 6 1 848 310851767 310850924 0.000000e+00 1203.0
26 TraesCS1B01G072900 chr2B 90.896 692 57 6 3929 4617 696661821 696662509 0.000000e+00 924.0
27 TraesCS1B01G072900 chr2B 86.187 847 112 4 4 848 338775834 338774991 0.000000e+00 911.0
28 TraesCS1B01G072900 chr2B 91.892 111 9 0 3737 3847 696661704 696661814 6.190000e-34 156.0
29 TraesCS1B01G072900 chr2B 95.455 66 3 0 3679 3744 696661621 696661686 6.320000e-19 106.0
30 TraesCS1B01G072900 chr5D 85.495 848 118 5 3 848 511890278 511891122 0.000000e+00 880.0
31 TraesCS1B01G072900 chr4B 84.754 833 122 5 3 833 591235097 591235926 0.000000e+00 830.0
32 TraesCS1B01G072900 chr4A 84.790 835 118 7 3 833 486299689 486300518 0.000000e+00 830.0
33 TraesCS1B01G072900 chr6B 95.122 82 3 1 3848 3929 333531793 333531713 1.350000e-25 128.0
34 TraesCS1B01G072900 chr3B 93.902 82 3 1 3848 3929 809849265 809849344 6.280000e-24 122.0
35 TraesCS1B01G072900 chr5B 93.671 79 4 1 3851 3929 582161148 582161225 2.920000e-22 117.0
36 TraesCS1B01G072900 chr6D 88.889 81 5 3 3849 3929 100520454 100520530 3.810000e-16 97.1
37 TraesCS1B01G072900 chr3A 88.750 80 5 3 3850 3929 675876766 675876841 1.370000e-15 95.3


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 TraesCS1B01G072900 chr1B 57129046 57133667 4621 False 8536.000000 8536 100.000000 1 4622 1 chr1B.!!$F2 4621
1 TraesCS1B01G072900 chr1B 56491112 56493582 2470 True 2628.000000 2628 85.881000 1218 3693 1 chr1B.!!$R1 2475
2 TraesCS1B01G072900 chr1B 56618012 56620526 2514 True 2538.000000 2538 84.984000 1186 3693 1 chr1B.!!$R3 2507
3 TraesCS1B01G072900 chr1B 56499294 56501777 2483 True 2523.000000 2523 85.056000 1207 3693 1 chr1B.!!$R2 2486
4 TraesCS1B01G072900 chr1B 57373614 57374826 1212 False 1230.000000 1230 85.239000 846 2057 1 chr1B.!!$F3 1211
5 TraesCS1B01G072900 chr1B 57018447 57018952 505 False 407.000000 407 81.359000 4099 4608 1 chr1B.!!$F1 509
6 TraesCS1B01G072900 chr1D 36615716 36624586 8870 True 2861.000000 3059 87.468500 1186 3693 2 chr1D.!!$R2 2507
7 TraesCS1B01G072900 chr1D 37423814 37426330 2516 False 2839.000000 2839 87.055000 1158 3677 1 chr1D.!!$F1 2519
8 TraesCS1B01G072900 chr1D 38257158 38259680 2522 True 2499.000000 2499 84.606000 1193 3709 1 chr1D.!!$R1 2516
9 TraesCS1B01G072900 chr1A 36635532 36637970 2438 False 2699.000000 2699 86.648000 1167 3612 1 chr1A.!!$F1 2445
10 TraesCS1B01G072900 chr1A 36613156 36616365 3209 False 1737.500000 2909 87.515000 1162 4410 2 chr1A.!!$F2 3248
11 TraesCS1B01G072900 chr2D 579327503 579330167 2664 False 2713.000000 2713 85.236000 1193 3847 1 chr2D.!!$F1 2654
12 TraesCS1B01G072900 chr2A 550180712 550181555 843 True 1273.000000 1273 93.868000 3 848 1 chr2A.!!$R2 845
13 TraesCS1B01G072900 chr2A 348048870 348049710 840 True 1175.000000 1175 91.844000 3 848 1 chr2A.!!$R1 845
14 TraesCS1B01G072900 chr2A 717002826 717004281 1455 False 836.500000 902 87.942500 3108 4617 2 chr2A.!!$F1 1509
15 TraesCS1B01G072900 chr6A 155747584 155748428 844 False 1218.000000 1218 92.671000 3 848 1 chr6A.!!$F1 845
16 TraesCS1B01G072900 chr6A 180929619 180930462 843 False 835.000000 835 84.534000 3 848 1 chr6A.!!$F2 845
17 TraesCS1B01G072900 chr2B 310850924 310851767 843 True 1203.000000 1203 92.344000 1 848 1 chr2B.!!$R1 847
18 TraesCS1B01G072900 chr2B 338774991 338775834 843 True 911.000000 911 86.187000 4 848 1 chr2B.!!$R2 844
19 TraesCS1B01G072900 chr2B 696661621 696662509 888 False 395.333333 924 92.747667 3679 4617 3 chr2B.!!$F1 938
20 TraesCS1B01G072900 chr5D 511890278 511891122 844 False 880.000000 880 85.495000 3 848 1 chr5D.!!$F1 845
21 TraesCS1B01G072900 chr4B 591235097 591235926 829 False 830.000000 830 84.754000 3 833 1 chr4B.!!$F1 830
22 TraesCS1B01G072900 chr4A 486299689 486300518 829 False 830.000000 830 84.790000 3 833 1 chr4A.!!$F1 830

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
235 237 0.107703 TTTCCACCCGCAGATAGCAG 60.108 55.0 0.0 0.0 46.13 4.24 F
1680 8128 0.671781 ATGAGGCTGTGAACGTGCTC 60.672 55.0 0.0 0.0 0.00 4.26 F
2445 8899 0.314935 CGGAAATGCAGCAACAAGGT 59.685 50.0 0.0 0.0 0.00 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1981 8429 0.610687 ACTAGCTCTGCCTTGTCCAC 59.389 55.0 0.0 0.0 0.0 4.02 R
2539 8993 0.960861 GGCTGTACTCCCAAGGCAAC 60.961 60.0 0.0 0.0 0.0 4.17 R
3896 10427 0.251033 GTAACCCAAACTCCCGCCTT 60.251 55.0 0.0 0.0 0.0 4.35 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
136 137 0.527600 TCGCGTCGATGATTCCCTTG 60.528 55.000 9.31 0.00 0.00 3.61
143 145 3.009723 TCGATGATTCCCTTGCAAGTTC 58.990 45.455 24.35 15.18 0.00 3.01
235 237 0.107703 TTTCCACCCGCAGATAGCAG 60.108 55.000 0.00 0.00 46.13 4.24
304 306 6.070824 AGGAATTGGAAACAGTCACTTTTGTT 60.071 34.615 0.00 0.00 44.54 2.83
353 357 7.117454 CCAAATACTTATCGTTAAGTGCTTCG 58.883 38.462 23.14 10.16 45.93 3.79
373 377 8.681806 TGCTTCGGTCATAATATTCAAAATTGA 58.318 29.630 0.00 0.00 34.92 2.57
632 642 4.421948 CGTTTTCTAATAGAGCGGTCAGT 58.578 43.478 18.15 4.91 0.00 3.41
634 644 5.652518 GTTTTCTAATAGAGCGGTCAGTCT 58.347 41.667 18.15 0.00 0.00 3.24
641 651 2.571212 AGAGCGGTCAGTCTCTCTATG 58.429 52.381 18.15 0.00 34.83 2.23
772 782 7.088589 AGGTTACACATTGCATAATCAAGTC 57.911 36.000 0.00 0.00 0.00 3.01
784 794 7.398829 TGCATAATCAAGTCTACCCAGTTTTA 58.601 34.615 0.00 0.00 0.00 1.52
800 810 7.898636 ACCCAGTTTTATTGAAATCCCAATCTA 59.101 33.333 0.00 0.00 37.81 1.98
805 815 9.087424 GTTTTATTGAAATCCCAATCTAAGCAC 57.913 33.333 0.00 0.00 37.81 4.40
812 822 4.842531 TCCCAATCTAAGCACAATCTCA 57.157 40.909 0.00 0.00 0.00 3.27
837 847 1.135053 GGAAAGACCACTCTACTCGGC 60.135 57.143 0.00 0.00 38.79 5.54
874 884 4.602340 ACACTAGTTGATTGGAGACGTT 57.398 40.909 0.00 0.00 0.00 3.99
945 961 1.423921 ACGGGACCCACTCAAAAGATT 59.576 47.619 12.15 0.00 0.00 2.40
949 965 3.498661 GGGACCCACTCAAAAGATTCACT 60.499 47.826 5.33 0.00 0.00 3.41
958 974 5.888161 ACTCAAAAGATTCACTCCAAACACT 59.112 36.000 0.00 0.00 0.00 3.55
960 976 5.299279 TCAAAAGATTCACTCCAAACACTCC 59.701 40.000 0.00 0.00 0.00 3.85
961 977 3.045601 AGATTCACTCCAAACACTCCG 57.954 47.619 0.00 0.00 0.00 4.63
1004 1024 2.202756 GTCCCCGACGCTGATGTC 60.203 66.667 0.00 0.00 35.49 3.06
1072 1102 1.296715 CTGCGCCACTCCTTTACCT 59.703 57.895 4.18 0.00 0.00 3.08
1078 1108 1.590147 CACTCCTTTACCTCGCCGT 59.410 57.895 0.00 0.00 0.00 5.68
1085 1115 0.950071 TTTACCTCGCCGTTTTCCCG 60.950 55.000 0.00 0.00 0.00 5.14
1086 1116 3.938019 TACCTCGCCGTTTTCCCGC 62.938 63.158 0.00 0.00 0.00 6.13
1135 1165 4.933064 CGCCGATGTCTCGCCTCC 62.933 72.222 0.00 0.00 43.66 4.30
1136 1166 4.933064 GCCGATGTCTCGCCTCCG 62.933 72.222 0.00 0.00 43.66 4.63
1137 1167 3.518998 CCGATGTCTCGCCTCCGT 61.519 66.667 0.00 0.00 43.66 4.69
1138 1168 2.024871 CGATGTCTCGCCTCCGTC 59.975 66.667 0.00 0.00 38.20 4.79
1139 1169 2.473760 CGATGTCTCGCCTCCGTCT 61.474 63.158 0.00 0.00 38.20 4.18
1320 1356 0.884704 GCCTGGAAGACGCTCACAAA 60.885 55.000 0.00 0.00 34.07 2.83
1680 8128 0.671781 ATGAGGCTGTGAACGTGCTC 60.672 55.000 0.00 0.00 0.00 4.26
1683 8131 2.029844 GGCTGTGAACGTGCTCCTC 61.030 63.158 0.00 0.00 0.00 3.71
1720 8168 2.793946 GCTGTGTGCCTAATGCCG 59.206 61.111 0.00 0.00 40.16 5.69
1722 8170 1.586154 GCTGTGTGCCTAATGCCGTT 61.586 55.000 0.00 0.00 40.16 4.44
1744 8192 3.713288 TCGTACAACACTGTTCTGAAGG 58.287 45.455 0.00 0.00 36.96 3.46
1881 8329 3.518992 TTTAAGGAGGGTGAAACAGGG 57.481 47.619 0.00 0.00 39.98 4.45
1981 8429 1.528586 CGTTGTGCAAGGTCAGAGAAG 59.471 52.381 0.00 0.00 0.00 2.85
2184 8632 2.653115 GCCTCCCTTTGCAAGCAC 59.347 61.111 0.00 0.00 0.00 4.40
2185 8633 2.935740 GCCTCCCTTTGCAAGCACC 61.936 63.158 0.00 0.00 0.00 5.01
2190 8638 1.455383 CCCTTTGCAAGCACCGAAGT 61.455 55.000 0.00 0.00 0.00 3.01
2259 8707 6.428159 GCCAAAAACCTGATATCATCTCGTAT 59.572 38.462 5.72 0.00 0.00 3.06
2264 8712 9.477484 AAAACCTGATATCATCTCGTATTGTAC 57.523 33.333 5.72 0.00 0.00 2.90
2278 8726 3.874392 ATTGTACTTTGCTTCATGGGC 57.126 42.857 0.00 0.00 0.00 5.36
2286 8734 1.755395 GCTTCATGGGCATGCCAGA 60.755 57.895 36.56 26.72 38.65 3.86
2299 8747 3.548770 CATGCCAGAGAAGGATGCTTTA 58.451 45.455 0.00 0.00 0.00 1.85
2380 8834 9.979578 GCCATGTTTTCACCATATTAATTGATA 57.020 29.630 0.00 0.00 0.00 2.15
2409 8863 2.260844 AACGCGGAATGATGGATGAT 57.739 45.000 12.47 0.00 0.00 2.45
2412 8866 1.241165 GCGGAATGATGGATGATGCA 58.759 50.000 0.00 0.00 0.00 3.96
2417 8871 3.006430 GGAATGATGGATGATGCAATGCA 59.994 43.478 11.44 11.44 44.86 3.96
2445 8899 0.314935 CGGAAATGCAGCAACAAGGT 59.685 50.000 0.00 0.00 0.00 3.50
2460 8914 3.631250 ACAAGGTGTGAGTCCAAATGTT 58.369 40.909 0.00 0.00 0.00 2.71
2539 8993 9.991906 ATGCTATGGAAAAATTTAATCAGATGG 57.008 29.630 0.00 0.00 0.00 3.51
2562 9016 1.338136 CCTTGGGAGTACAGCCGGAT 61.338 60.000 5.05 0.00 0.00 4.18
2569 9023 2.552591 GGAGTACAGCCGGATAGAGCTA 60.553 54.545 5.05 0.00 37.18 3.32
2638 9092 6.072618 GGTTAAAGCTAAGGAGTTGGTTTCTC 60.073 42.308 0.00 0.00 34.09 2.87
2663 9117 9.527157 TCAAATGATAAACAAAGGTATTCCTCA 57.473 29.630 0.00 0.00 44.35 3.86
2766 9221 7.914427 TGACTTGGTTATAGACATAGGTGAT 57.086 36.000 0.00 0.00 0.00 3.06
2777 9232 3.834813 GACATAGGTGATAGGCCTGATGA 59.165 47.826 17.99 0.00 37.54 2.92
2780 9235 1.765314 AGGTGATAGGCCTGATGACAC 59.235 52.381 17.99 16.57 34.56 3.67
2974 9429 3.618351 AGAGAAATGATGTGCAAGGGAG 58.382 45.455 0.00 0.00 0.00 4.30
2984 9439 3.746940 TGTGCAAGGGAGTTAAACCTAC 58.253 45.455 0.00 0.00 35.64 3.18
2985 9440 3.136809 TGTGCAAGGGAGTTAAACCTACA 59.863 43.478 0.00 0.00 35.64 2.74
3061 9516 4.247258 TGCTGCAATGAAAATGTTCCATC 58.753 39.130 0.00 0.00 32.28 3.51
3099 9554 1.946768 ACAACAGTGACCATTTCCACG 59.053 47.619 0.00 0.00 38.26 4.94
3155 9610 0.599991 TGTGCAGACGAAGCGATTGT 60.600 50.000 0.00 0.00 33.85 2.71
3261 9717 7.736447 TCAAAGAAAAGAAGAAGCTAAGGAG 57.264 36.000 0.00 0.00 0.00 3.69
3267 9723 6.869315 AAAGAAGAAGCTAAGGAGTTGTTC 57.131 37.500 0.00 0.00 0.00 3.18
3269 9725 3.320673 AGAAGCTAAGGAGTTGTTCGG 57.679 47.619 0.00 0.00 0.00 4.30
3305 9761 2.166254 GTGGGTTGGTGCCTAATGAATG 59.834 50.000 0.00 0.00 0.00 2.67
3378 9834 6.970484 AGAAGCTGACAATATGTTTTCGTTT 58.030 32.000 0.00 0.00 0.00 3.60
3417 9873 2.503061 CCCAGCTCCCGTCTCATG 59.497 66.667 0.00 0.00 0.00 3.07
3475 9931 2.489938 TGCCAAGGCCGGATATTATC 57.510 50.000 5.05 0.00 41.09 1.75
3553 10009 8.748412 TGATGTTTTCTCTCTTTTCAAGGAAAA 58.252 29.630 4.31 4.31 38.90 2.29
3612 10070 7.694784 GCAAAGTATCAAATTTTCGACGGATTA 59.305 33.333 0.00 0.00 0.00 1.75
3614 10072 8.488651 AAGTATCAAATTTTCGACGGATTAGT 57.511 30.769 0.00 0.00 0.00 2.24
3616 10074 8.388103 AGTATCAAATTTTCGACGGATTAGTTG 58.612 33.333 0.00 0.00 0.00 3.16
3617 10075 6.548441 TCAAATTTTCGACGGATTAGTTGT 57.452 33.333 0.00 0.00 0.00 3.32
3618 10076 6.595794 TCAAATTTTCGACGGATTAGTTGTC 58.404 36.000 0.00 0.00 0.00 3.18
3619 10077 6.425721 TCAAATTTTCGACGGATTAGTTGTCT 59.574 34.615 0.00 0.00 0.00 3.41
3620 10078 7.599621 TCAAATTTTCGACGGATTAGTTGTCTA 59.400 33.333 0.00 0.00 0.00 2.59
3621 10079 7.521509 AATTTTCGACGGATTAGTTGTCTAG 57.478 36.000 0.00 0.00 0.00 2.43
3622 10080 3.687572 TCGACGGATTAGTTGTCTAGC 57.312 47.619 0.00 0.00 0.00 3.42
3625 10092 3.707793 GACGGATTAGTTGTCTAGCTGG 58.292 50.000 0.00 0.00 0.00 4.85
3642 10109 5.238624 AGCTGGTATGTTGCATATGAGAT 57.761 39.130 6.97 0.00 0.00 2.75
3767 10283 7.406031 AGATTGAGTGACTTCGAAATACCTA 57.594 36.000 0.00 0.00 0.00 3.08
3768 10284 7.484975 AGATTGAGTGACTTCGAAATACCTAG 58.515 38.462 0.00 0.00 0.00 3.02
3788 10319 2.604914 AGCGACGCTTATTTCAGACATG 59.395 45.455 18.46 0.00 33.89 3.21
3873 10404 6.963017 TTTTCTCGAGAAAACGCAAAATAC 57.037 33.333 37.30 0.00 45.76 1.89
3874 10405 4.657075 TCTCGAGAAAACGCAAAATACC 57.343 40.909 14.01 0.00 0.00 2.73
3875 10406 4.312443 TCTCGAGAAAACGCAAAATACCT 58.688 39.130 14.01 0.00 0.00 3.08
3876 10407 4.753107 TCTCGAGAAAACGCAAAATACCTT 59.247 37.500 14.01 0.00 0.00 3.50
3877 10408 5.237779 TCTCGAGAAAACGCAAAATACCTTT 59.762 36.000 14.01 0.00 0.00 3.11
3878 10409 5.209240 TCGAGAAAACGCAAAATACCTTTG 58.791 37.500 0.00 0.00 46.20 2.77
3890 10421 7.171447 CAAAATACCTTTGCGTTTCATTTCA 57.829 32.000 0.00 0.00 38.17 2.69
3891 10422 7.795859 CAAAATACCTTTGCGTTTCATTTCAT 58.204 30.769 0.00 0.00 38.17 2.57
3892 10423 7.961325 AAATACCTTTGCGTTTCATTTCATT 57.039 28.000 0.00 0.00 0.00 2.57
3893 10424 6.949578 ATACCTTTGCGTTTCATTTCATTG 57.050 33.333 0.00 0.00 0.00 2.82
3894 10425 4.942852 ACCTTTGCGTTTCATTTCATTGA 58.057 34.783 0.00 0.00 0.00 2.57
3895 10426 5.355596 ACCTTTGCGTTTCATTTCATTGAA 58.644 33.333 0.00 0.00 33.89 2.69
3896 10427 5.814705 ACCTTTGCGTTTCATTTCATTGAAA 59.185 32.000 13.88 13.88 41.92 2.69
3897 10428 6.314896 ACCTTTGCGTTTCATTTCATTGAAAA 59.685 30.769 15.34 0.00 44.71 2.29
3898 10429 6.847289 CCTTTGCGTTTCATTTCATTGAAAAG 59.153 34.615 15.34 11.41 44.71 2.27
3899 10430 5.903764 TGCGTTTCATTTCATTGAAAAGG 57.096 34.783 15.34 10.89 44.71 3.11
3900 10431 4.210955 TGCGTTTCATTTCATTGAAAAGGC 59.789 37.500 15.34 14.94 44.71 4.35
3901 10432 4.663889 GCGTTTCATTTCATTGAAAAGGCG 60.664 41.667 15.34 15.34 44.71 5.52
3902 10433 4.143347 CGTTTCATTTCATTGAAAAGGCGG 60.143 41.667 15.34 4.41 44.71 6.13
3903 10434 3.591196 TCATTTCATTGAAAAGGCGGG 57.409 42.857 15.34 2.91 35.11 6.13
3904 10435 3.161067 TCATTTCATTGAAAAGGCGGGA 58.839 40.909 15.34 4.89 35.11 5.14
3905 10436 3.193267 TCATTTCATTGAAAAGGCGGGAG 59.807 43.478 15.34 0.59 35.11 4.30
3906 10437 2.286365 TTCATTGAAAAGGCGGGAGT 57.714 45.000 0.00 0.00 0.00 3.85
3907 10438 2.286365 TCATTGAAAAGGCGGGAGTT 57.714 45.000 0.00 0.00 0.00 3.01
3908 10439 2.593026 TCATTGAAAAGGCGGGAGTTT 58.407 42.857 0.00 0.00 0.00 2.66
3909 10440 2.295909 TCATTGAAAAGGCGGGAGTTTG 59.704 45.455 0.00 0.00 0.00 2.93
3910 10441 1.036707 TTGAAAAGGCGGGAGTTTGG 58.963 50.000 0.00 0.00 0.00 3.28
3911 10442 0.825840 TGAAAAGGCGGGAGTTTGGG 60.826 55.000 0.00 0.00 0.00 4.12
3912 10443 0.826256 GAAAAGGCGGGAGTTTGGGT 60.826 55.000 0.00 0.00 0.00 4.51
3913 10444 0.397957 AAAAGGCGGGAGTTTGGGTT 60.398 50.000 0.00 0.00 0.00 4.11
3914 10445 0.479378 AAAGGCGGGAGTTTGGGTTA 59.521 50.000 0.00 0.00 0.00 2.85
3915 10446 0.251033 AAGGCGGGAGTTTGGGTTAC 60.251 55.000 0.00 0.00 0.00 2.50
3916 10447 1.073548 GGCGGGAGTTTGGGTTACA 59.926 57.895 0.00 0.00 0.00 2.41
3917 10448 0.537828 GGCGGGAGTTTGGGTTACAA 60.538 55.000 0.00 0.00 37.28 2.41
3918 10449 1.541379 GCGGGAGTTTGGGTTACAAT 58.459 50.000 0.00 0.00 39.21 2.71
3919 10450 1.471287 GCGGGAGTTTGGGTTACAATC 59.529 52.381 0.00 0.00 39.21 2.67
3920 10451 2.089201 CGGGAGTTTGGGTTACAATCC 58.911 52.381 0.00 0.00 39.21 3.01
3921 10452 2.290705 CGGGAGTTTGGGTTACAATCCT 60.291 50.000 0.00 0.00 38.02 3.24
3922 10453 3.353557 GGGAGTTTGGGTTACAATCCTC 58.646 50.000 0.00 0.00 38.02 3.71
3923 10454 3.353557 GGAGTTTGGGTTACAATCCTCC 58.646 50.000 9.23 9.23 43.94 4.30
3924 10455 3.010250 GGAGTTTGGGTTACAATCCTCCT 59.990 47.826 14.22 0.00 45.27 3.69
3925 10456 4.226620 GGAGTTTGGGTTACAATCCTCCTA 59.773 45.833 14.22 0.00 45.27 2.94
3926 10457 5.429130 GAGTTTGGGTTACAATCCTCCTAG 58.571 45.833 0.00 0.00 39.21 3.02
3927 10458 4.227527 AGTTTGGGTTACAATCCTCCTAGG 59.772 45.833 0.82 0.82 39.21 3.02
3956 10487 6.538742 GCAGCATTTATCAAAGTACACCTCTA 59.461 38.462 0.00 0.00 0.00 2.43
3960 10491 7.227512 GCATTTATCAAAGTACACCTCTATGCT 59.772 37.037 0.00 0.00 31.91 3.79
3961 10492 9.113838 CATTTATCAAAGTACACCTCTATGCTT 57.886 33.333 0.00 0.00 0.00 3.91
3969 10500 7.425224 AGTACACCTCTATGCTTGAATTACT 57.575 36.000 0.00 0.00 0.00 2.24
4062 10593 1.540267 CATGGATGGCTATGCTGCTTC 59.460 52.381 2.75 0.00 0.00 3.86
4096 10628 1.135527 CGGCAATGATTGTTGAGCCAT 59.864 47.619 7.05 0.00 42.10 4.40
4322 10856 9.449719 TCCAGTATGATTTCTTTCTTCTTTACC 57.550 33.333 0.00 0.00 39.69 2.85
4352 10886 9.581289 TTTAGGATTCAACTGTTTTTCCTCATA 57.419 29.630 15.25 4.71 35.33 2.15
4465 10999 4.044426 GCATTTGCTTGACGAAAGTTTCT 58.956 39.130 13.56 1.10 41.08 2.52
4481 11015 5.023533 AGTTTCTTGCTCTTGTACACTGA 57.976 39.130 0.00 0.00 0.00 3.41
4483 11017 6.058183 AGTTTCTTGCTCTTGTACACTGAAT 58.942 36.000 0.00 0.00 0.00 2.57
4485 11019 6.942532 TTCTTGCTCTTGTACACTGAATTT 57.057 33.333 0.00 0.00 0.00 1.82
4488 11022 6.318648 TCTTGCTCTTGTACACTGAATTTTGT 59.681 34.615 0.00 0.00 0.00 2.83
4489 11023 5.820131 TGCTCTTGTACACTGAATTTTGTG 58.180 37.500 0.00 9.33 39.80 3.33
4497 11031 5.173774 ACACTGAATTTTGTGTACTGCTG 57.826 39.130 13.40 0.00 44.40 4.41
4513 11047 3.612247 CTGCAGTTCCGGTCCCCTG 62.612 68.421 5.25 4.73 0.00 4.45
4519 11053 1.173913 GTTCCGGTCCCCTGAATTTG 58.826 55.000 0.00 0.00 30.10 2.32
4559 11094 3.328535 AAGGGTTCCAACAATCCAACT 57.671 42.857 0.00 0.00 0.00 3.16
4594 11129 4.100189 CCTTCTCCGTTCATATCTTGGTCT 59.900 45.833 0.00 0.00 0.00 3.85
4596 11131 4.537751 TCTCCGTTCATATCTTGGTCTCT 58.462 43.478 0.00 0.00 0.00 3.10
4601 11138 4.979197 CGTTCATATCTTGGTCTCTGCTAC 59.021 45.833 0.00 0.00 0.00 3.58
4617 11154 0.459899 CTACCCTGACATGTGCGCTA 59.540 55.000 9.73 0.00 0.00 4.26
4618 11155 1.069204 CTACCCTGACATGTGCGCTAT 59.931 52.381 9.73 0.00 0.00 2.97
4619 11156 0.179073 ACCCTGACATGTGCGCTATC 60.179 55.000 9.73 0.00 0.00 2.08
4620 11157 0.105593 CCCTGACATGTGCGCTATCT 59.894 55.000 9.73 0.00 0.00 1.98
4621 11158 1.215244 CCTGACATGTGCGCTATCTG 58.785 55.000 9.73 3.53 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
143 145 9.908152 ATGTCCGTCTTTAAAATTCCTAAAAAG 57.092 29.630 0.00 0.00 0.00 2.27
196 198 9.260002 GTGGAAAGAAAATTTTGCTCAAATCTA 57.740 29.630 8.47 0.00 33.60 1.98
214 216 0.178068 GCTATCTGCGGGTGGAAAGA 59.822 55.000 0.00 0.00 0.00 2.52
235 237 7.710475 TGAAAATCAGTGGATGGAAAGAAAAAC 59.290 33.333 0.00 0.00 32.92 2.43
304 306 1.272369 TGCCTGCAAATGTGGGTATGA 60.272 47.619 0.00 0.00 0.00 2.15
373 377 6.603599 GGTAGAAGATAAAGGGCAAATCTGTT 59.396 38.462 0.00 0.00 30.50 3.16
384 388 6.998673 CCCAATACCAAGGTAGAAGATAAAGG 59.001 42.308 5.10 0.00 33.77 3.11
466 470 4.913345 CGTTGAAATCGGTTTTAAACTCCC 59.087 41.667 14.82 0.00 0.00 4.30
676 686 3.850173 ACCCACTAAAGGATTAAGGCAGA 59.150 43.478 0.00 0.00 0.00 4.26
742 752 3.483808 TGCAATGTGTAACCTCAGTGA 57.516 42.857 0.00 0.00 33.33 3.41
772 782 7.475137 TTGGGATTTCAATAAAACTGGGTAG 57.525 36.000 0.00 0.00 0.00 3.18
784 794 6.855763 TTGTGCTTAGATTGGGATTTCAAT 57.144 33.333 0.00 0.00 39.76 2.57
800 810 5.182760 GTCTTTCCTCAATGAGATTGTGCTT 59.817 40.000 12.53 0.00 41.02 3.91
805 815 5.251764 AGTGGTCTTTCCTCAATGAGATTG 58.748 41.667 12.53 0.00 41.57 2.67
812 822 4.158764 CGAGTAGAGTGGTCTTTCCTCAAT 59.841 45.833 0.00 0.00 37.07 2.57
850 860 6.092955 ACGTCTCCAATCAACTAGTGTTAA 57.907 37.500 0.00 0.00 34.60 2.01
851 861 5.717078 ACGTCTCCAATCAACTAGTGTTA 57.283 39.130 0.00 0.00 34.60 2.41
874 884 2.301583 TCGATTGTCTGTGGTTGATCCA 59.698 45.455 0.00 0.00 45.01 3.41
945 961 1.070786 GGCGGAGTGTTTGGAGTGA 59.929 57.895 0.00 0.00 0.00 3.41
998 1018 4.545706 GGATGCGGCGGGACATCA 62.546 66.667 21.65 6.69 43.64 3.07
1027 1047 4.577246 CAGCCGGAGTAGGAGCGC 62.577 72.222 5.05 0.00 0.00 5.92
1053 1083 1.745489 GGTAAAGGAGTGGCGCAGG 60.745 63.158 10.83 0.00 0.00 4.85
1055 1085 1.295423 GAGGTAAAGGAGTGGCGCA 59.705 57.895 10.83 0.00 0.00 6.09
1078 1108 2.437716 GATGCGGAGGCGGGAAAA 60.438 61.111 0.00 0.00 44.10 2.29
1165 1195 1.607612 GGGGTATCAGTGTGGTGGG 59.392 63.158 0.00 0.00 0.00 4.61
1304 1338 1.134521 ACAGTTTGTGAGCGTCTTCCA 60.135 47.619 0.00 0.00 0.00 3.53
1320 1356 1.060713 CGAGCAATTCGTCGAACAGT 58.939 50.000 10.39 0.00 44.27 3.55
1551 1587 3.081409 GCAAGCCCTAGGTCCGGA 61.081 66.667 8.29 0.00 0.00 5.14
1680 8128 1.819229 CTCGGACATCCTGTGGAGG 59.181 63.158 0.00 0.00 39.63 4.30
1683 8131 1.142748 GAGCTCGGACATCCTGTGG 59.857 63.158 0.00 0.00 0.00 4.17
1720 8168 5.459110 TTCAGAACAGTGTTGTACGAAAC 57.541 39.130 14.57 0.00 36.23 2.78
1722 8170 4.116961 CCTTCAGAACAGTGTTGTACGAA 58.883 43.478 14.57 9.23 36.23 3.85
1744 8192 2.807967 TCATGCTATTGTCGCATAAGCC 59.192 45.455 0.00 0.00 45.65 4.35
1802 8250 0.884514 GAAGCAGCCACCTCCTTTTC 59.115 55.000 0.00 0.00 0.00 2.29
1804 8252 1.075659 GGAAGCAGCCACCTCCTTT 59.924 57.895 0.00 0.00 0.00 3.11
1881 8329 2.923121 TGGAATAGACTGCATGCCTTC 58.077 47.619 16.68 11.39 0.00 3.46
1973 8421 1.345741 CTGCCTTGTCCACTTCTCTGA 59.654 52.381 0.00 0.00 0.00 3.27
1981 8429 0.610687 ACTAGCTCTGCCTTGTCCAC 59.389 55.000 0.00 0.00 0.00 4.02
2184 8632 1.129437 GCAGCTTCTTTGCTACTTCGG 59.871 52.381 0.00 0.00 41.98 4.30
2185 8633 1.800586 TGCAGCTTCTTTGCTACTTCG 59.199 47.619 0.00 0.00 41.98 3.79
2190 8638 5.458041 AAAATTCTGCAGCTTCTTTGCTA 57.542 34.783 9.47 0.00 41.98 3.49
2238 8686 9.477484 GTACAATACGAGATGATATCAGGTTTT 57.523 33.333 11.78 5.49 0.00 2.43
2259 8707 2.591923 TGCCCATGAAGCAAAGTACAA 58.408 42.857 7.80 0.00 37.28 2.41
2264 8712 0.461339 GGCATGCCCATGAAGCAAAG 60.461 55.000 27.24 10.49 44.83 2.77
2278 8726 2.054232 AAGCATCCTTCTCTGGCATG 57.946 50.000 0.00 0.00 0.00 4.06
2286 8734 8.435187 TCAATCATATCAGTAAAGCATCCTTCT 58.565 33.333 0.00 0.00 0.00 2.85
2394 8848 3.833442 CATTGCATCATCCATCATTCCG 58.167 45.455 0.00 0.00 0.00 4.30
2409 8863 4.972514 TTCCGTAAATATGTGCATTGCA 57.027 36.364 7.38 7.38 35.60 4.08
2412 8866 5.900425 TGCATTTCCGTAAATATGTGCATT 58.100 33.333 0.00 0.00 33.91 3.56
2417 8871 5.105957 TGTTGCTGCATTTCCGTAAATATGT 60.106 36.000 1.84 0.00 33.45 2.29
2445 8899 3.615155 TGTGACAACATTTGGACTCACA 58.385 40.909 6.70 6.70 40.00 3.58
2460 8914 9.045223 GCTGATATTACAGTTGAATATGTGACA 57.955 33.333 0.00 0.00 39.73 3.58
2482 8936 4.162320 CCTACCCATTCTAGAAAGTGCTGA 59.838 45.833 9.71 0.00 0.00 4.26
2484 8938 4.104831 ACCTACCCATTCTAGAAAGTGCT 58.895 43.478 9.71 0.00 0.00 4.40
2539 8993 0.960861 GGCTGTACTCCCAAGGCAAC 60.961 60.000 0.00 0.00 0.00 4.17
2562 9016 9.601810 TGAATTAGGGACTGATAAATAGCTCTA 57.398 33.333 0.00 0.00 41.52 2.43
2663 9117 8.408043 TGAATTGAAGAACACAATGTTAGGAT 57.592 30.769 0.00 0.00 41.28 3.24
2701 9156 1.304713 CCCTGCCTTCCTTGCACAT 60.305 57.895 0.00 0.00 34.46 3.21
2709 9164 1.986882 CATCCATAACCCTGCCTTCC 58.013 55.000 0.00 0.00 0.00 3.46
2715 9170 2.934887 TCATGTGCATCCATAACCCTG 58.065 47.619 0.00 0.00 0.00 4.45
2766 9221 4.574674 AAATGAAGTGTCATCAGGCCTA 57.425 40.909 3.98 0.00 44.02 3.93
2777 9232 9.850628 CATCAATCAGTGAATTAAATGAAGTGT 57.149 29.630 0.00 0.00 40.50 3.55
2963 9418 3.136809 TGTAGGTTTAACTCCCTTGCACA 59.863 43.478 0.00 0.00 32.08 4.57
2974 9429 7.625606 GCCATATGTCACAGTTGTAGGTTTAAC 60.626 40.741 1.24 0.00 0.00 2.01
2984 9439 5.761726 AGTATGATGCCATATGTCACAGTTG 59.238 40.000 1.24 0.00 37.56 3.16
2985 9440 5.761726 CAGTATGATGCCATATGTCACAGTT 59.238 40.000 1.24 0.00 39.69 3.16
3061 9516 6.075762 TGTTGTTCCACTTTCAATCATCTG 57.924 37.500 0.00 0.00 0.00 2.90
3099 9554 9.530633 CAAAGACCTCCAAGTATTATACTGTAC 57.469 37.037 5.58 0.00 39.39 2.90
3267 9723 2.483876 CCACTGGCTGATATTGTACCG 58.516 52.381 0.00 0.00 0.00 4.02
3269 9725 3.560636 ACCCACTGGCTGATATTGTAC 57.439 47.619 0.00 0.00 33.59 2.90
3378 9834 4.448787 GGGACTATACCACTCCTGTCCATA 60.449 50.000 11.34 0.00 43.94 2.74
3417 9873 8.843262 TCCAACAACATTCTGATGATATCATTC 58.157 33.333 19.11 12.51 38.85 2.67
3475 9931 5.702670 TGCTCTTTCCATCAACTTTAGACAG 59.297 40.000 0.00 0.00 0.00 3.51
3492 9948 5.942236 TGAAGCTTCAAGTGATATGCTCTTT 59.058 36.000 26.61 0.00 33.55 2.52
3553 10009 9.021807 CAATTTCATATCCTCCTGATATTTGCT 57.978 33.333 0.00 0.00 42.81 3.91
3612 10070 3.007940 TGCAACATACCAGCTAGACAACT 59.992 43.478 0.00 0.00 0.00 3.16
3614 10072 3.694043 TGCAACATACCAGCTAGACAA 57.306 42.857 0.00 0.00 0.00 3.18
3616 10074 5.541845 TCATATGCAACATACCAGCTAGAC 58.458 41.667 0.00 0.00 0.00 2.59
3617 10075 5.539955 TCTCATATGCAACATACCAGCTAGA 59.460 40.000 0.00 0.00 0.00 2.43
3618 10076 5.787380 TCTCATATGCAACATACCAGCTAG 58.213 41.667 0.00 0.00 0.00 3.42
3619 10077 5.806654 TCTCATATGCAACATACCAGCTA 57.193 39.130 0.00 0.00 0.00 3.32
3620 10078 4.694760 TCTCATATGCAACATACCAGCT 57.305 40.909 0.00 0.00 0.00 4.24
3621 10079 5.954296 AATCTCATATGCAACATACCAGC 57.046 39.130 0.00 0.00 0.00 4.85
3622 10080 8.613060 AGTTAATCTCATATGCAACATACCAG 57.387 34.615 0.00 0.00 0.00 4.00
3625 10092 8.839310 AGGAGTTAATCTCATATGCAACATAC 57.161 34.615 0.00 0.00 44.40 2.39
3642 10109 3.478857 TTGTGCTTTCCGAGGAGTTAA 57.521 42.857 0.00 0.00 0.00 2.01
3767 10283 2.363788 TGTCTGAAATAAGCGTCGCT 57.636 45.000 15.47 15.47 42.56 4.93
3768 10284 2.847254 GCATGTCTGAAATAAGCGTCGC 60.847 50.000 9.80 9.80 0.00 5.19
3805 10336 9.810231 CATATTATTGTTTGCTGGTTTCAAAAC 57.190 29.630 0.00 0.00 35.49 2.43
3852 10383 4.753107 AGGTATTTTGCGTTTTCTCGAGAA 59.247 37.500 23.74 23.74 0.00 2.87
3853 10384 4.312443 AGGTATTTTGCGTTTTCTCGAGA 58.688 39.130 12.08 12.08 0.00 4.04
3854 10385 4.663636 AGGTATTTTGCGTTTTCTCGAG 57.336 40.909 5.93 5.93 0.00 4.04
3855 10386 5.209240 CAAAGGTATTTTGCGTTTTCTCGA 58.791 37.500 0.00 0.00 39.71 4.04
3856 10387 5.480281 CAAAGGTATTTTGCGTTTTCTCG 57.520 39.130 0.00 0.00 39.71 4.04
3867 10398 7.961325 ATGAAATGAAACGCAAAGGTATTTT 57.039 28.000 0.00 0.00 0.00 1.82
3868 10399 7.655328 TCAATGAAATGAAACGCAAAGGTATTT 59.345 29.630 0.00 0.00 0.00 1.40
3869 10400 7.151308 TCAATGAAATGAAACGCAAAGGTATT 58.849 30.769 0.00 0.00 0.00 1.89
3870 10401 6.686630 TCAATGAAATGAAACGCAAAGGTAT 58.313 32.000 0.00 0.00 0.00 2.73
3871 10402 6.078202 TCAATGAAATGAAACGCAAAGGTA 57.922 33.333 0.00 0.00 0.00 3.08
3872 10403 4.942852 TCAATGAAATGAAACGCAAAGGT 58.057 34.783 0.00 0.00 0.00 3.50
3873 10404 5.903764 TTCAATGAAATGAAACGCAAAGG 57.096 34.783 0.00 0.00 36.42 3.11
3874 10405 6.847289 CCTTTTCAATGAAATGAAACGCAAAG 59.153 34.615 19.20 6.50 46.06 2.77
3875 10406 6.713520 CCTTTTCAATGAAATGAAACGCAAA 58.286 32.000 19.20 0.00 46.06 3.68
3876 10407 5.277250 GCCTTTTCAATGAAATGAAACGCAA 60.277 36.000 19.20 0.00 46.06 4.85
3877 10408 4.210955 GCCTTTTCAATGAAATGAAACGCA 59.789 37.500 19.20 0.00 46.06 5.24
3878 10409 4.663889 CGCCTTTTCAATGAAATGAAACGC 60.664 41.667 19.20 13.67 46.06 4.84
3879 10410 4.143347 CCGCCTTTTCAATGAAATGAAACG 60.143 41.667 19.20 17.67 46.06 3.60
3880 10411 4.152223 CCCGCCTTTTCAATGAAATGAAAC 59.848 41.667 19.20 9.77 46.06 2.78
3881 10412 4.039730 TCCCGCCTTTTCAATGAAATGAAA 59.960 37.500 19.20 1.20 45.07 2.69
3882 10413 3.576118 TCCCGCCTTTTCAATGAAATGAA 59.424 39.130 19.20 1.52 37.53 2.57
3883 10414 3.161067 TCCCGCCTTTTCAATGAAATGA 58.839 40.909 19.20 2.18 31.34 2.57
3884 10415 3.056607 ACTCCCGCCTTTTCAATGAAATG 60.057 43.478 9.41 11.40 31.34 2.32
3885 10416 3.165071 ACTCCCGCCTTTTCAATGAAAT 58.835 40.909 9.41 0.00 31.34 2.17
3886 10417 2.593026 ACTCCCGCCTTTTCAATGAAA 58.407 42.857 4.03 4.03 0.00 2.69
3887 10418 2.286365 ACTCCCGCCTTTTCAATGAA 57.714 45.000 0.00 0.00 0.00 2.57
3888 10419 2.286365 AACTCCCGCCTTTTCAATGA 57.714 45.000 0.00 0.00 0.00 2.57
3889 10420 2.610232 CCAAACTCCCGCCTTTTCAATG 60.610 50.000 0.00 0.00 0.00 2.82
3890 10421 1.618343 CCAAACTCCCGCCTTTTCAAT 59.382 47.619 0.00 0.00 0.00 2.57
3891 10422 1.036707 CCAAACTCCCGCCTTTTCAA 58.963 50.000 0.00 0.00 0.00 2.69
3892 10423 0.825840 CCCAAACTCCCGCCTTTTCA 60.826 55.000 0.00 0.00 0.00 2.69
3893 10424 0.826256 ACCCAAACTCCCGCCTTTTC 60.826 55.000 0.00 0.00 0.00 2.29
3894 10425 0.397957 AACCCAAACTCCCGCCTTTT 60.398 50.000 0.00 0.00 0.00 2.27
3895 10426 0.479378 TAACCCAAACTCCCGCCTTT 59.521 50.000 0.00 0.00 0.00 3.11
3896 10427 0.251033 GTAACCCAAACTCCCGCCTT 60.251 55.000 0.00 0.00 0.00 4.35
3897 10428 1.377612 GTAACCCAAACTCCCGCCT 59.622 57.895 0.00 0.00 0.00 5.52
3898 10429 0.537828 TTGTAACCCAAACTCCCGCC 60.538 55.000 0.00 0.00 0.00 6.13
3899 10430 1.471287 GATTGTAACCCAAACTCCCGC 59.529 52.381 0.00 0.00 36.44 6.13
3900 10431 2.089201 GGATTGTAACCCAAACTCCCG 58.911 52.381 0.00 0.00 36.44 5.14
3901 10432 3.353557 GAGGATTGTAACCCAAACTCCC 58.646 50.000 0.00 0.00 34.14 4.30
3902 10433 3.353557 GGAGGATTGTAACCCAAACTCC 58.646 50.000 11.08 11.08 45.74 3.85
3903 10434 4.302559 AGGAGGATTGTAACCCAAACTC 57.697 45.455 0.00 0.00 38.98 3.01
3904 10435 4.227527 CCTAGGAGGATTGTAACCCAAACT 59.772 45.833 1.05 0.00 37.67 2.66
3905 10436 4.226620 TCCTAGGAGGATTGTAACCCAAAC 59.773 45.833 7.62 0.00 40.06 2.93
3906 10437 4.440808 TCCTAGGAGGATTGTAACCCAAA 58.559 43.478 7.62 0.00 40.06 3.28
3907 10438 4.083080 TCCTAGGAGGATTGTAACCCAA 57.917 45.455 7.62 0.00 40.06 4.12
3908 10439 3.788116 TCCTAGGAGGATTGTAACCCA 57.212 47.619 7.62 0.00 40.06 4.51
3919 10450 2.653234 AATGCTGCAATCCTAGGAGG 57.347 50.000 18.34 12.89 36.46 4.30
3920 10451 5.311265 TGATAAATGCTGCAATCCTAGGAG 58.689 41.667 18.34 5.59 0.00 3.69
3921 10452 5.308976 TGATAAATGCTGCAATCCTAGGA 57.691 39.130 15.46 15.46 0.00 2.94
3922 10453 6.040166 ACTTTGATAAATGCTGCAATCCTAGG 59.960 38.462 6.36 0.82 0.00 3.02
3923 10454 7.035840 ACTTTGATAAATGCTGCAATCCTAG 57.964 36.000 6.36 7.84 0.00 3.02
3924 10455 7.555914 TGTACTTTGATAAATGCTGCAATCCTA 59.444 33.333 6.36 0.00 0.00 2.94
3925 10456 5.927281 ACTTTGATAAATGCTGCAATCCT 57.073 34.783 6.36 0.00 0.00 3.24
3926 10457 6.473455 GTGTACTTTGATAAATGCTGCAATCC 59.527 38.462 6.36 0.00 0.00 3.01
3927 10458 6.473455 GGTGTACTTTGATAAATGCTGCAATC 59.527 38.462 6.36 6.12 0.00 2.67
3956 10487 6.093219 CACTTACAGAGCAGTAATTCAAGCAT 59.907 38.462 0.00 0.00 33.82 3.79
3960 10491 6.109156 TCCACTTACAGAGCAGTAATTCAA 57.891 37.500 0.00 0.00 33.82 2.69
3961 10492 5.724328 CTCCACTTACAGAGCAGTAATTCA 58.276 41.667 0.00 0.00 33.82 2.57
4062 10593 4.038080 GCCGTTTTCCACAGCGGG 62.038 66.667 0.00 0.00 43.90 6.13
4084 10616 5.475719 CAAAATCACAGATGGCTCAACAAT 58.524 37.500 0.00 0.00 0.00 2.71
4096 10628 9.624697 GTTTTACATAGATTGCAAAATCACAGA 57.375 29.630 1.71 0.00 34.06 3.41
4126 10658 7.790823 AAATACATGCAAATAAAGGAATGGC 57.209 32.000 0.00 0.00 0.00 4.40
4315 10849 8.383175 ACAGTTGAATCCTAAATGAGGTAAAGA 58.617 33.333 0.00 0.00 46.76 2.52
4322 10856 8.579863 AGGAAAAACAGTTGAATCCTAAATGAG 58.420 33.333 11.37 0.00 35.59 2.90
4330 10864 8.306761 ACATTATGAGGAAAAACAGTTGAATCC 58.693 33.333 0.00 4.72 0.00 3.01
4340 10874 9.185680 ACCATTACCTACATTATGAGGAAAAAC 57.814 33.333 14.49 0.00 36.61 2.43
4374 10908 5.680619 AGTTCAGTCACACCAGTAAATTCA 58.319 37.500 0.00 0.00 0.00 2.57
4460 10994 5.734855 TTCAGTGTACAAGAGCAAGAAAC 57.265 39.130 0.00 0.00 0.00 2.78
4465 10999 6.127758 ACACAAAATTCAGTGTACAAGAGCAA 60.128 34.615 12.58 0.00 46.32 3.91
4481 11015 4.499696 GGAACTGCAGCAGTACACAAAATT 60.500 41.667 28.48 9.44 44.62 1.82
4483 11017 2.357637 GGAACTGCAGCAGTACACAAAA 59.642 45.455 28.48 0.00 44.62 2.44
4485 11019 1.593196 GGAACTGCAGCAGTACACAA 58.407 50.000 28.48 0.00 44.62 3.33
4488 11022 1.005037 CCGGAACTGCAGCAGTACA 60.005 57.895 28.48 0.00 44.62 2.90
4489 11023 1.004918 ACCGGAACTGCAGCAGTAC 60.005 57.895 28.48 21.61 44.62 2.73
4493 11027 4.329545 GGGACCGGAACTGCAGCA 62.330 66.667 15.27 0.00 0.00 4.41
4513 11047 2.736721 TCGCAGAGCAGTACACAAATTC 59.263 45.455 0.00 0.00 0.00 2.17
4519 11053 0.039074 ACTGTCGCAGAGCAGTACAC 60.039 55.000 12.77 0.00 43.28 2.90
4559 11094 1.610624 CGGAGAAGGTAAAGGCTGCAA 60.611 52.381 0.50 0.00 0.00 4.08
4594 11129 0.250234 GCACATGTCAGGGTAGCAGA 59.750 55.000 0.00 0.00 0.00 4.26
4596 11131 1.079197 CGCACATGTCAGGGTAGCA 60.079 57.895 0.00 0.00 0.00 3.49
4601 11138 0.105593 AGATAGCGCACATGTCAGGG 59.894 55.000 11.47 0.00 0.00 4.45


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

AutoCloner maintained by Alex Coulton.