Multiple sequence alignment - TraesCS5D01G251300

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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 TraesCS5D01G251300 chr5D 100.000 4112 0 0 1 4112 357066615 357062504 0.000000e+00 7594.0
1 TraesCS5D01G251300 chr5D 84.289 942 117 22 979 1893 357080691 357079754 0.000000e+00 891.0
2 TraesCS5D01G251300 chr5D 79.758 662 100 23 1190 1834 357396705 357396061 2.250000e-122 449.0
3 TraesCS5D01G251300 chr5D 85.153 229 28 3 2932 3156 357078621 357078395 3.200000e-56 230.0
4 TraesCS5D01G251300 chr5D 90.323 62 2 3 2626 2683 109571789 109571728 1.230000e-10 78.7
5 TraesCS5D01G251300 chr5A 93.079 2673 129 27 1 2629 458321545 458318885 0.000000e+00 3860.0
6 TraesCS5D01G251300 chr5A 81.872 1175 158 32 979 2113 458331499 458330340 0.000000e+00 939.0
7 TraesCS5D01G251300 chr5A 90.213 470 33 6 2960 3428 458318602 458318145 5.880000e-168 601.0
8 TraesCS5D01G251300 chr5A 84.877 529 75 4 1004 1531 458493655 458493131 2.810000e-146 529.0
9 TraesCS5D01G251300 chr5A 79.607 662 103 18 1190 1834 458562229 458561583 2.920000e-121 446.0
10 TraesCS5D01G251300 chr5A 80.291 619 96 17 1598 2196 458351867 458351255 1.050000e-120 444.0
11 TraesCS5D01G251300 chr5A 90.952 210 15 3 2694 2900 458318900 458318692 3.130000e-71 279.0
12 TraesCS5D01G251300 chr5A 86.321 212 23 3 2932 3139 458329425 458329216 4.140000e-55 226.0
13 TraesCS5D01G251300 chr5A 88.298 188 16 4 3472 3656 458318147 458317963 1.920000e-53 220.0
14 TraesCS5D01G251300 chr5B 92.950 1688 85 20 976 2629 421838206 421836519 0.000000e+00 2427.0
15 TraesCS5D01G251300 chr5B 82.818 1164 162 30 979 2113 421861840 421860686 0.000000e+00 1007.0
16 TraesCS5D01G251300 chr5B 88.330 497 40 12 2946 3441 421836241 421835762 7.660000e-162 580.0
17 TraesCS5D01G251300 chr5B 96.364 330 11 1 662 990 421839984 421839655 3.620000e-150 542.0
18 TraesCS5D01G251300 chr5B 89.116 441 28 11 3682 4109 421835319 421834886 7.830000e-147 531.0
19 TraesCS5D01G251300 chr5B 79.035 663 103 25 1190 1834 422040744 422040100 4.910000e-114 422.0
20 TraesCS5D01G251300 chr5B 83.582 402 38 12 270 660 421841172 421840788 6.540000e-93 351.0
21 TraesCS5D01G251300 chr5B 89.139 267 17 5 1 264 421841636 421841379 5.130000e-84 322.0
22 TraesCS5D01G251300 chr5B 91.429 210 13 4 2694 2900 421836534 421836327 2.420000e-72 283.0
23 TraesCS5D01G251300 chr5B 88.839 224 12 7 3438 3656 421835521 421835306 3.150000e-66 263.0
24 TraesCS5D01G251300 chr5B 84.553 246 29 5 2932 3173 421859742 421859502 6.870000e-58 235.0
25 TraesCS5D01G251300 chr5B 88.710 62 6 1 2623 2683 18678518 18678579 1.590000e-09 75.0
26 TraesCS5D01G251300 chr4A 92.063 63 5 0 2631 2693 621642203 621642265 5.660000e-14 89.8
27 TraesCS5D01G251300 chr3A 91.228 57 4 1 2630 2685 176157274 176157330 4.410000e-10 76.8
28 TraesCS5D01G251300 chr7D 88.710 62 6 1 2623 2683 629032563 629032624 1.590000e-09 75.0
29 TraesCS5D01G251300 chr6B 88.710 62 6 1 2623 2683 198160346 198160407 1.590000e-09 75.0
30 TraesCS5D01G251300 chr1B 87.302 63 7 1 2623 2684 624838415 624838353 2.050000e-08 71.3
31 TraesCS5D01G251300 chr4D 77.500 120 21 5 237 354 390907571 390907456 2.650000e-07 67.6
32 TraesCS5D01G251300 chr3D 87.931 58 5 1 2630 2685 153503503 153503446 2.650000e-07 67.6
33 TraesCS5D01G251300 chr2B 87.931 58 5 1 2630 2685 405272985 405273042 2.650000e-07 67.6


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 TraesCS5D01G251300 chr5D 357062504 357066615 4111 True 7594.000 7594 100.000000 1 4112 1 chr5D.!!$R2 4111
1 TraesCS5D01G251300 chr5D 357078395 357080691 2296 True 560.500 891 84.721000 979 3156 2 chr5D.!!$R4 2177
2 TraesCS5D01G251300 chr5D 357396061 357396705 644 True 449.000 449 79.758000 1190 1834 1 chr5D.!!$R3 644
3 TraesCS5D01G251300 chr5A 458317963 458321545 3582 True 1240.000 3860 90.635500 1 3656 4 chr5A.!!$R4 3655
4 TraesCS5D01G251300 chr5A 458329216 458331499 2283 True 582.500 939 84.096500 979 3139 2 chr5A.!!$R5 2160
5 TraesCS5D01G251300 chr5A 458493131 458493655 524 True 529.000 529 84.877000 1004 1531 1 chr5A.!!$R2 527
6 TraesCS5D01G251300 chr5A 458561583 458562229 646 True 446.000 446 79.607000 1190 1834 1 chr5A.!!$R3 644
7 TraesCS5D01G251300 chr5A 458351255 458351867 612 True 444.000 444 80.291000 1598 2196 1 chr5A.!!$R1 598
8 TraesCS5D01G251300 chr5B 421834886 421841636 6750 True 662.375 2427 89.968625 1 4109 8 chr5B.!!$R2 4108
9 TraesCS5D01G251300 chr5B 421859502 421861840 2338 True 621.000 1007 83.685500 979 3173 2 chr5B.!!$R3 2194
10 TraesCS5D01G251300 chr5B 422040100 422040744 644 True 422.000 422 79.035000 1190 1834 1 chr5B.!!$R1 644

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
378 585 0.106167 TGGTGAGTAGGGCGCTATCT 60.106 55.0 14.20 12.31 0.0 1.98 F
1081 3570 0.035881 CCTGTTGCTCCTTCTGCTGA 59.964 55.0 0.00 0.00 0.0 4.26 F
2365 5031 0.036105 TGGAGTACTACGTCGAGGCA 60.036 55.0 4.75 0.00 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2005 4554 0.261991 ACTCCAGATTCCCCTCGCTA 59.738 55.0 0.00 0.0 0.00 4.26 R
2651 5395 0.179020 TATTTGATGCAGAGGCCGGG 60.179 55.0 2.18 0.0 40.13 5.73 R
3715 6754 0.179108 CTGCCGTTGCTACTAGGGAC 60.179 60.0 0.00 0.0 38.71 4.46 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
32 33 0.799534 GATGACACCTTTGCGCATGC 60.800 55.000 12.75 7.91 43.20 4.06
117 118 0.400213 ATGGTGGTTCTTTGCGGAGA 59.600 50.000 0.00 0.00 0.00 3.71
126 127 2.960819 TCTTTGCGGAGAACTAGCTTC 58.039 47.619 0.00 0.00 0.00 3.86
127 128 2.003301 CTTTGCGGAGAACTAGCTTCC 58.997 52.381 0.00 0.00 0.00 3.46
130 131 1.511305 CGGAGAACTAGCTTCCGCA 59.489 57.895 10.65 0.00 39.10 5.69
131 132 0.108804 CGGAGAACTAGCTTCCGCAA 60.109 55.000 10.65 0.00 39.10 4.85
132 133 1.360820 GGAGAACTAGCTTCCGCAAC 58.639 55.000 0.00 0.00 39.10 4.17
133 134 1.066787 GGAGAACTAGCTTCCGCAACT 60.067 52.381 0.00 0.00 39.10 3.16
134 135 2.165845 GGAGAACTAGCTTCCGCAACTA 59.834 50.000 0.00 0.00 39.10 2.24
135 136 3.181474 GGAGAACTAGCTTCCGCAACTAT 60.181 47.826 0.00 0.00 39.10 2.12
136 137 4.037684 GGAGAACTAGCTTCCGCAACTATA 59.962 45.833 0.00 0.00 39.10 1.31
148 149 7.490962 TTCCGCAACTATAAACTATTGGATG 57.509 36.000 0.00 0.00 0.00 3.51
207 208 3.994392 TGTCCAGAGTGAAAACTAATCGC 59.006 43.478 0.00 0.00 0.00 4.58
271 477 2.242043 CCTTGTTGAAGGCACCATCTT 58.758 47.619 0.00 0.00 42.60 2.40
378 585 0.106167 TGGTGAGTAGGGCGCTATCT 60.106 55.000 14.20 12.31 0.00 1.98
418 625 3.369756 TGCGGCAGAAGTAAATTTAGTCG 59.630 43.478 6.01 5.21 0.00 4.18
539 756 6.470877 ACTTTAATAAATTATTGCCGTGTGCG 59.529 34.615 8.39 0.00 45.60 5.34
550 767 1.080501 CGTGTGCGTCTGAGGATGT 60.081 57.895 0.82 0.00 0.00 3.06
585 802 5.994668 AGATTGACACTTCCTTCTCAGAAAC 59.005 40.000 0.00 0.00 0.00 2.78
707 1728 0.606604 TAACCCACCGCTCAGAGTTC 59.393 55.000 0.00 0.00 0.00 3.01
726 1748 6.482641 AGAGTTCGCTATTATCGTCTCACTTA 59.517 38.462 12.86 0.00 34.49 2.24
883 1905 5.174943 GGTGTACTAATTGCAACAAACTTGC 59.825 40.000 0.00 0.00 45.11 4.01
909 1931 6.651086 AGTTTCTTAGTAACCATAAGCCTCC 58.349 40.000 0.00 0.00 31.57 4.30
1081 3570 0.035881 CCTGTTGCTCCTTCTGCTGA 59.964 55.000 0.00 0.00 0.00 4.26
1177 3667 0.911769 TGACAGGGCCAGTAATCCAG 59.088 55.000 6.18 0.00 0.00 3.86
1593 4111 5.984695 AAGCAGAGTAGATACACTGAACA 57.015 39.130 18.00 0.00 44.30 3.18
1877 4401 3.153919 GCACCACTTTCATAAACCTCCA 58.846 45.455 0.00 0.00 0.00 3.86
1923 4449 4.644044 TGCGACTTTGCAAAATTATTGC 57.356 36.364 13.84 13.77 43.02 3.56
1948 4494 2.928801 TTCCGTAGCCATGCATATGT 57.071 45.000 0.00 0.00 32.21 2.29
2005 4554 6.414732 TCCGATCCTTGACAATTACAAGAAT 58.585 36.000 19.47 9.85 44.92 2.40
2144 4693 2.270850 GGCAGGCGTCCCACATAA 59.729 61.111 0.00 0.00 0.00 1.90
2267 4831 7.816640 TCGAACTCTCTTTCCCAATAAAAATG 58.183 34.615 0.00 0.00 0.00 2.32
2269 4833 7.309194 CGAACTCTCTTTCCCAATAAAAATGGT 60.309 37.037 0.00 0.00 36.14 3.55
2283 4847 9.528018 CAATAAAAATGGTTCATTTATACGGCT 57.472 29.630 6.34 0.00 42.32 5.52
2365 5031 0.036105 TGGAGTACTACGTCGAGGCA 60.036 55.000 4.75 0.00 0.00 4.75
2407 5073 4.742201 GAAGCTCTGCACGCCCGA 62.742 66.667 0.00 0.00 0.00 5.14
2418 5084 1.749638 ACGCCCGAACCAACACAAA 60.750 52.632 0.00 0.00 0.00 2.83
2449 5115 4.202050 GCTTGCCCAAGAACAAGGTATATG 60.202 45.833 11.96 0.00 42.82 1.78
2485 5177 5.122239 TGCATAATGTTCTGCTGTTACACTC 59.878 40.000 5.00 0.00 39.16 3.51
2486 5178 5.122239 GCATAATGTTCTGCTGTTACACTCA 59.878 40.000 4.14 0.00 35.49 3.41
2548 5292 1.068741 CAGCGTCCCCTTCCACTATAC 59.931 57.143 0.00 0.00 0.00 1.47
2552 5296 1.061579 GTCCCCTTCCACTATACCCCT 60.062 57.143 0.00 0.00 0.00 4.79
2607 5351 0.390124 AGTCGAACGTGGGTTAAGCA 59.610 50.000 7.03 0.00 36.24 3.91
2661 5405 2.829592 GGATTACCCCGGCCTCTG 59.170 66.667 0.00 0.00 0.00 3.35
2662 5406 2.111251 GATTACCCCGGCCTCTGC 59.889 66.667 0.00 0.00 0.00 4.26
2663 5407 2.690881 ATTACCCCGGCCTCTGCA 60.691 61.111 0.00 0.00 40.13 4.41
2664 5408 2.056906 GATTACCCCGGCCTCTGCAT 62.057 60.000 0.00 0.00 40.13 3.96
2665 5409 2.056906 ATTACCCCGGCCTCTGCATC 62.057 60.000 0.00 0.00 40.13 3.91
2666 5410 3.993865 TACCCCGGCCTCTGCATCA 62.994 63.158 0.00 0.00 40.13 3.07
2667 5411 4.113815 CCCCGGCCTCTGCATCAA 62.114 66.667 0.00 0.00 40.13 2.57
2668 5412 2.045045 CCCGGCCTCTGCATCAAA 60.045 61.111 0.00 0.00 40.13 2.69
2669 5413 1.454479 CCCGGCCTCTGCATCAAAT 60.454 57.895 0.00 0.00 40.13 2.32
2670 5414 0.179020 CCCGGCCTCTGCATCAAATA 60.179 55.000 0.00 0.00 40.13 1.40
2671 5415 1.679139 CCGGCCTCTGCATCAAATAA 58.321 50.000 0.00 0.00 40.13 1.40
2672 5416 2.233271 CCGGCCTCTGCATCAAATAAT 58.767 47.619 0.00 0.00 40.13 1.28
2673 5417 2.030540 CCGGCCTCTGCATCAAATAATG 60.031 50.000 0.00 0.00 40.13 1.90
2681 5425 1.519758 GCATCAAATAATGCGCACAGC 59.480 47.619 14.90 2.48 42.33 4.40
2694 5438 4.749245 GCGCACAGCCATATTATTAAGT 57.251 40.909 0.30 0.00 40.81 2.24
2695 5439 4.712763 GCGCACAGCCATATTATTAAGTC 58.287 43.478 0.30 0.00 40.81 3.01
2696 5440 4.452455 GCGCACAGCCATATTATTAAGTCT 59.548 41.667 0.30 0.00 40.81 3.24
2697 5441 5.637810 GCGCACAGCCATATTATTAAGTCTA 59.362 40.000 0.30 0.00 40.81 2.59
2698 5442 6.313905 GCGCACAGCCATATTATTAAGTCTAT 59.686 38.462 0.30 0.00 40.81 1.98
2699 5443 7.491372 GCGCACAGCCATATTATTAAGTCTATA 59.509 37.037 0.30 0.00 40.81 1.31
2700 5444 9.025020 CGCACAGCCATATTATTAAGTCTATAG 57.975 37.037 0.00 0.00 0.00 1.31
2701 5445 9.319143 GCACAGCCATATTATTAAGTCTATAGG 57.681 37.037 0.00 0.00 0.00 2.57
2749 5494 6.344500 CATCAGCAGAACAAACTATCTAGGT 58.656 40.000 0.00 0.00 0.00 3.08
2754 5499 6.651225 AGCAGAACAAACTATCTAGGTTTCAC 59.349 38.462 0.00 0.00 35.09 3.18
2772 5517 7.225341 AGGTTTCACGTTTTTAACTAGAACGAT 59.775 33.333 17.46 2.98 46.47 3.73
2779 5524 8.645487 ACGTTTTTAACTAGAACGATCATCTTC 58.355 33.333 17.46 0.00 46.47 2.87
2793 5538 2.094494 TCATCTTCTCTTCAGTGGCGAC 60.094 50.000 0.00 0.00 0.00 5.19
2861 5606 1.507141 CTCAACTTGCCCGTCACCAC 61.507 60.000 0.00 0.00 0.00 4.16
2862 5607 1.821759 CAACTTGCCCGTCACCACA 60.822 57.895 0.00 0.00 0.00 4.17
2890 5635 2.590114 GCTTGGTACACCCCGGACT 61.590 63.158 0.73 0.00 39.29 3.85
2902 5659 0.822164 CCCGGACTTCGAGGTAACAT 59.178 55.000 0.73 0.00 42.43 2.71
2916 5673 6.379133 TCGAGGTAACATAAATAGACACCAGT 59.621 38.462 0.00 0.00 41.41 4.00
2924 5681 7.852263 ACATAAATAGACACCAGTAAGAGCTT 58.148 34.615 0.00 0.00 0.00 3.74
2925 5682 7.982354 ACATAAATAGACACCAGTAAGAGCTTC 59.018 37.037 0.00 0.00 0.00 3.86
2926 5683 6.360370 AAATAGACACCAGTAAGAGCTTCA 57.640 37.500 0.00 0.00 0.00 3.02
2927 5684 3.951775 AGACACCAGTAAGAGCTTCAG 57.048 47.619 0.00 0.00 0.00 3.02
2930 5687 5.265191 AGACACCAGTAAGAGCTTCAGATA 58.735 41.667 0.00 0.00 0.00 1.98
2963 5749 0.831711 AAATGGGGTTGTGGTGGCTC 60.832 55.000 0.00 0.00 0.00 4.70
2976 5762 1.204146 GTGGCTCATAGGTTGGAGGA 58.796 55.000 0.00 0.00 0.00 3.71
2991 5777 5.455326 GGTTGGAGGATATGTTCAGCAGTAT 60.455 44.000 0.00 0.00 0.00 2.12
3165 5951 4.162812 CCACATGTTAATTTACGGTGTGC 58.837 43.478 19.27 0.00 36.63 4.57
3207 5994 8.321716 GGATCTATAAATAAATCGCTGCTTACG 58.678 37.037 0.00 0.00 0.00 3.18
3219 6006 0.591488 TGCTTACGCGCGACTATGAG 60.591 55.000 39.36 20.71 39.65 2.90
3220 6007 0.316772 GCTTACGCGCGACTATGAGA 60.317 55.000 39.36 11.01 0.00 3.27
3221 6008 1.858798 GCTTACGCGCGACTATGAGAA 60.859 52.381 39.36 14.55 0.00 2.87
3223 6010 1.012086 TACGCGCGACTATGAGAAGT 58.988 50.000 39.36 12.01 0.00 3.01
3224 6011 1.012086 ACGCGCGACTATGAGAAGTA 58.988 50.000 39.36 0.00 0.00 2.24
3225 6012 1.267932 ACGCGCGACTATGAGAAGTAC 60.268 52.381 39.36 0.00 0.00 2.73
3227 6014 2.376956 GCGCGACTATGAGAAGTACAG 58.623 52.381 12.10 0.00 0.00 2.74
3228 6015 2.855187 GCGCGACTATGAGAAGTACAGG 60.855 54.545 12.10 0.00 0.00 4.00
3229 6016 2.355132 CGCGACTATGAGAAGTACAGGT 59.645 50.000 0.00 0.00 0.00 4.00
3230 6017 3.696898 GCGACTATGAGAAGTACAGGTG 58.303 50.000 0.00 0.00 0.00 4.00
3231 6018 3.377485 GCGACTATGAGAAGTACAGGTGA 59.623 47.826 0.00 0.00 0.00 4.02
3232 6019 4.731193 GCGACTATGAGAAGTACAGGTGAC 60.731 50.000 0.00 0.00 0.00 3.67
3233 6020 4.395231 CGACTATGAGAAGTACAGGTGACA 59.605 45.833 0.00 0.00 0.00 3.58
3253 6040 4.380531 ACAACATATTCAGGCCATAGTCG 58.619 43.478 5.01 0.00 0.00 4.18
3291 6078 3.317993 GTGTGCTGAAAAGGGTTGTATGT 59.682 43.478 0.00 0.00 0.00 2.29
3297 6084 5.221244 GCTGAAAAGGGTTGTATGTTGTTCT 60.221 40.000 0.00 0.00 0.00 3.01
3307 6094 6.863126 GGTTGTATGTTGTTCTCATGAAAAGG 59.137 38.462 0.00 0.00 33.52 3.11
3368 6155 9.195411 GAACATCTTTGAATTTTAATCACAGCA 57.805 29.630 0.00 0.00 0.00 4.41
3370 6157 9.146984 ACATCTTTGAATTTTAATCACAGCATG 57.853 29.630 0.00 0.00 46.00 4.06
3390 6178 6.767902 AGCATGTTTCCGTAATATCTTGTGAT 59.232 34.615 0.00 0.00 36.74 3.06
3407 6195 3.681417 TGTGATCACGAGCAGAATGAAAG 59.319 43.478 20.54 0.00 39.69 2.62
3435 6223 4.763073 CAATTCTCTCAGGACTGCATGTA 58.237 43.478 0.00 0.00 0.00 2.29
3441 6229 4.546674 TCTCAGGACTGCATGTAGGAATA 58.453 43.478 15.65 0.00 0.00 1.75
3442 6230 5.150715 TCTCAGGACTGCATGTAGGAATAT 58.849 41.667 15.65 0.00 0.00 1.28
3443 6231 5.244851 TCTCAGGACTGCATGTAGGAATATC 59.755 44.000 15.65 2.98 0.00 1.63
3445 6233 5.244851 TCAGGACTGCATGTAGGAATATCTC 59.755 44.000 15.65 1.57 0.00 2.75
3446 6234 4.530161 AGGACTGCATGTAGGAATATCTCC 59.470 45.833 15.65 10.46 45.81 3.71
3485 6517 7.907841 TGCTAGTTTATACAAGGACATAGGA 57.092 36.000 0.00 0.00 0.00 2.94
3531 6565 5.667626 AGATACAAGGACATGGGTAAGACAT 59.332 40.000 0.00 0.00 0.00 3.06
3625 6664 8.239314 TGCTAATTATTCGATAGTACTAACGGG 58.761 37.037 26.20 8.97 33.10 5.28
3656 6695 4.313277 TGTGATCATCGTTCTCATCCTC 57.687 45.455 0.00 0.00 0.00 3.71
3657 6696 3.701040 TGTGATCATCGTTCTCATCCTCA 59.299 43.478 0.00 0.00 0.00 3.86
3658 6697 4.047822 GTGATCATCGTTCTCATCCTCAC 58.952 47.826 0.00 0.00 0.00 3.51
3659 6698 3.701040 TGATCATCGTTCTCATCCTCACA 59.299 43.478 0.00 0.00 0.00 3.58
3660 6699 4.160252 TGATCATCGTTCTCATCCTCACAA 59.840 41.667 0.00 0.00 0.00 3.33
3661 6700 4.535526 TCATCGTTCTCATCCTCACAAA 57.464 40.909 0.00 0.00 0.00 2.83
3662 6701 4.893608 TCATCGTTCTCATCCTCACAAAA 58.106 39.130 0.00 0.00 0.00 2.44
3663 6702 5.304778 TCATCGTTCTCATCCTCACAAAAA 58.695 37.500 0.00 0.00 0.00 1.94
3715 6754 5.425539 TCCTCCCATCAAAAGTTAGGACTAG 59.574 44.000 0.00 0.00 34.21 2.57
3735 6774 0.613853 TCCCTAGTAGCAACGGCAGT 60.614 55.000 0.00 0.00 44.61 4.40
3773 6815 6.894339 AACCTTGGTAAAATACTGTTCTGG 57.106 37.500 0.00 0.00 0.00 3.86
3833 6875 9.212641 CATAGGGAAACTCATACAATCATACAG 57.787 37.037 0.00 0.00 0.00 2.74
3837 6879 6.316140 GGAAACTCATACAATCATACAGCACA 59.684 38.462 0.00 0.00 0.00 4.57
3838 6880 6.915544 AACTCATACAATCATACAGCACAG 57.084 37.500 0.00 0.00 0.00 3.66
3874 6916 1.895798 TGGTGCTCTCTCCTAACTGTG 59.104 52.381 0.00 0.00 0.00 3.66
3879 6921 2.159254 GCTCTCTCCTAACTGTGAGCTG 60.159 54.545 0.00 0.00 42.78 4.24
3899 6941 4.702392 CTGTTCTAAGCTTGCGTACAAAG 58.298 43.478 9.86 0.00 34.74 2.77
3907 6949 6.404712 AAGCTTGCGTACAAAGTATAACTC 57.595 37.500 0.00 0.00 34.74 3.01
3922 6964 4.737855 ATAACTCGACAACATACAGCCT 57.262 40.909 0.00 0.00 0.00 4.58
3948 6990 6.504398 CATCTGCAGTATTCAATTGAGCAAT 58.496 36.000 14.67 8.18 0.00 3.56
3949 6991 5.886992 TCTGCAGTATTCAATTGAGCAATG 58.113 37.500 14.67 14.46 0.00 2.82
3950 6992 5.001237 TGCAGTATTCAATTGAGCAATGG 57.999 39.130 14.79 4.37 0.00 3.16
3951 6993 3.800506 GCAGTATTCAATTGAGCAATGGC 59.199 43.478 8.41 6.32 41.61 4.40
3952 6994 4.678574 GCAGTATTCAATTGAGCAATGGCA 60.679 41.667 8.41 0.00 44.61 4.92
3980 7032 9.586435 CAGACATGTAGTTTTTCTTTCCTTTTT 57.414 29.630 0.00 0.00 0.00 1.94
4002 7054 4.617959 TCTTTTTGTCTCAGTACGGTCAG 58.382 43.478 0.00 0.00 0.00 3.51
4020 7072 4.339530 GGTCAGAAGAACTTTTCAAGGCTT 59.660 41.667 0.00 0.00 32.37 4.35
4023 7075 5.652014 TCAGAAGAACTTTTCAAGGCTTCAA 59.348 36.000 16.83 0.00 41.98 2.69
4030 7082 4.142381 ACTTTTCAAGGCTTCAACACTGAC 60.142 41.667 0.00 0.00 0.00 3.51
4068 7120 7.383300 GTCAAAACTTTCTCCTTCCAATCATTG 59.617 37.037 0.00 0.00 0.00 2.82
4071 7123 5.634118 ACTTTCTCCTTCCAATCATTGTCA 58.366 37.500 0.00 0.00 0.00 3.58
4076 7128 6.962182 TCTCCTTCCAATCATTGTCACTTAT 58.038 36.000 0.00 0.00 0.00 1.73
4109 7161 0.180406 AAGCACCTCGAAACACCACT 59.820 50.000 0.00 0.00 0.00 4.00
4110 7162 0.532862 AGCACCTCGAAACACCACTG 60.533 55.000 0.00 0.00 0.00 3.66
4111 7163 0.531974 GCACCTCGAAACACCACTGA 60.532 55.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 1.722464 CAACCATGCACAAATGAAGCG 59.278 47.619 0.00 0.00 0.00 4.68
41 42 1.379916 CTCCTCCCAACCATGCACA 59.620 57.895 0.00 0.00 0.00 4.57
126 127 7.148407 GGATCATCCAATAGTTTATAGTTGCGG 60.148 40.741 0.00 0.00 36.28 5.69
127 128 7.411912 CGGATCATCCAATAGTTTATAGTTGCG 60.412 40.741 4.06 0.00 35.91 4.85
130 131 9.847224 AAACGGATCATCCAATAGTTTATAGTT 57.153 29.630 4.06 0.00 35.91 2.24
131 132 9.273016 CAAACGGATCATCCAATAGTTTATAGT 57.727 33.333 4.06 0.00 35.91 2.12
132 133 8.721478 CCAAACGGATCATCCAATAGTTTATAG 58.279 37.037 4.06 0.00 35.91 1.31
133 134 8.433599 TCCAAACGGATCATCCAATAGTTTATA 58.566 33.333 4.06 0.00 35.91 0.98
134 135 7.287061 TCCAAACGGATCATCCAATAGTTTAT 58.713 34.615 4.06 0.00 35.91 1.40
135 136 6.654959 TCCAAACGGATCATCCAATAGTTTA 58.345 36.000 4.06 0.00 35.91 2.01
136 137 5.505780 TCCAAACGGATCATCCAATAGTTT 58.494 37.500 4.06 3.11 35.91 2.66
148 149 2.749621 AGCAACATCTTCCAAACGGATC 59.250 45.455 0.00 0.00 30.78 3.36
207 208 2.036958 TGTGACAACCAGTGAAGGTG 57.963 50.000 0.00 0.00 42.25 4.00
346 552 2.896854 CACCATCGCCCATGTCCG 60.897 66.667 0.00 0.00 0.00 4.79
378 585 1.945819 GCATCCACGCCTTCAAGAAGA 60.946 52.381 11.25 0.00 40.79 2.87
418 625 4.950050 AGTACAAGATATGCAGCACCTAC 58.050 43.478 0.00 0.00 0.00 3.18
459 670 9.809096 CTAACAGACATAGTACAAGACAATCAT 57.191 33.333 0.00 0.00 0.00 2.45
539 756 0.671251 CGGCCTCTACATCCTCAGAC 59.329 60.000 0.00 0.00 0.00 3.51
550 767 0.032515 TGTCAATCTCCCGGCCTCTA 60.033 55.000 0.00 0.00 0.00 2.43
598 815 8.659527 ACAGATGGATTGTACATGAATGGTATA 58.340 33.333 0.00 0.00 0.00 1.47
707 1728 5.516996 TGGTTAAGTGAGACGATAATAGCG 58.483 41.667 0.00 0.00 0.00 4.26
726 1748 3.686016 AGTTTACATGGAGCGAATGGTT 58.314 40.909 0.00 0.00 0.00 3.67
883 1905 7.927092 GGAGGCTTATGGTTACTAAGAAACTAG 59.073 40.741 0.00 0.00 0.00 2.57
1081 3570 1.450848 CATCTGTGGGTGATGCGCT 60.451 57.895 9.73 0.00 35.53 5.92
1091 3580 0.107800 CTCCTGTGAGGCATCTGTGG 60.108 60.000 0.00 0.00 34.61 4.17
1177 3667 2.888111 GGGTCCCTCGGTTACGTC 59.112 66.667 0.00 0.00 41.85 4.34
1593 4111 2.026915 TGCCACTGCACACATCTAATCT 60.027 45.455 0.00 0.00 44.23 2.40
1877 4401 4.515404 GGCTTACGAAGATGCCGT 57.485 55.556 0.00 0.00 43.26 5.68
1931 4457 3.599343 ACATACATATGCATGGCTACGG 58.401 45.455 18.17 0.00 37.19 4.02
2005 4554 0.261991 ACTCCAGATTCCCCTCGCTA 59.738 55.000 0.00 0.00 0.00 4.26
2144 4693 1.407656 TTTCGGGGATAGATGCCGCT 61.408 55.000 0.00 0.00 39.48 5.52
2193 4742 1.950973 TACATAGCCTTCGCGTGCCA 61.951 55.000 5.77 0.00 41.18 4.92
2267 4831 5.690857 GTCTGACTAGCCGTATAAATGAACC 59.309 44.000 0.00 0.00 0.00 3.62
2269 4833 6.096423 ACTGTCTGACTAGCCGTATAAATGAA 59.904 38.462 9.51 0.00 0.00 2.57
2276 4840 2.683867 GTGACTGTCTGACTAGCCGTAT 59.316 50.000 9.51 0.00 0.00 3.06
2279 4843 0.881796 TGTGACTGTCTGACTAGCCG 59.118 55.000 9.51 0.00 0.00 5.52
2283 4847 3.003378 CGAACACTGTGACTGTCTGACTA 59.997 47.826 15.86 0.00 0.00 2.59
2324 4990 2.134287 ACGGATCGTAGCCAGCCAT 61.134 57.895 0.00 0.00 38.73 4.40
2365 5031 1.515954 CTCGCCGGTGTTGAGGTAT 59.484 57.895 16.01 0.00 0.00 2.73
2377 5043 3.793144 GCTTCTTGCACCTCGCCG 61.793 66.667 0.00 0.00 41.33 6.46
2418 5084 2.562738 GTTCTTGGGCAAGCTAACCAAT 59.437 45.455 14.71 0.00 42.82 3.16
2423 5089 2.238521 CCTTGTTCTTGGGCAAGCTAA 58.761 47.619 0.00 0.00 40.34 3.09
2449 5115 7.010367 GCAGAACATTATGCAGATAGATAGAGC 59.990 40.741 6.36 0.00 44.32 4.09
2503 5203 0.877071 AATGAAGGTGTTGCGCTCAG 59.123 50.000 9.73 0.00 0.00 3.35
2548 5292 4.740822 CGGAAACTGGGCCAGGGG 62.741 72.222 35.34 14.21 35.51 4.79
2552 5296 3.494254 ACCACGGAAACTGGGCCA 61.494 61.111 5.85 5.85 34.22 5.36
2644 5388 2.829592 CAGAGGCCGGGGTAATCC 59.170 66.667 2.18 0.00 0.00 3.01
2645 5389 2.056906 ATGCAGAGGCCGGGGTAATC 62.057 60.000 2.18 0.00 40.13 1.75
2646 5390 2.056906 GATGCAGAGGCCGGGGTAAT 62.057 60.000 2.18 0.00 40.13 1.89
2647 5391 2.690881 ATGCAGAGGCCGGGGTAA 60.691 61.111 2.18 0.00 40.13 2.85
2648 5392 3.161450 GATGCAGAGGCCGGGGTA 61.161 66.667 2.18 0.00 40.13 3.69
2650 5394 2.916527 ATTTGATGCAGAGGCCGGGG 62.917 60.000 2.18 0.00 40.13 5.73
2651 5395 0.179020 TATTTGATGCAGAGGCCGGG 60.179 55.000 2.18 0.00 40.13 5.73
2652 5396 1.679139 TTATTTGATGCAGAGGCCGG 58.321 50.000 0.00 0.00 40.13 6.13
2653 5397 3.278367 CATTATTTGATGCAGAGGCCG 57.722 47.619 0.00 0.00 40.13 6.13
2661 5405 1.519758 GCTGTGCGCATTATTTGATGC 59.480 47.619 15.91 4.14 46.90 3.91
2662 5406 2.121786 GGCTGTGCGCATTATTTGATG 58.878 47.619 15.91 0.00 41.67 3.07
2663 5407 1.750206 TGGCTGTGCGCATTATTTGAT 59.250 42.857 15.91 0.00 41.67 2.57
2664 5408 1.172175 TGGCTGTGCGCATTATTTGA 58.828 45.000 15.91 0.00 41.67 2.69
2665 5409 2.212869 ATGGCTGTGCGCATTATTTG 57.787 45.000 15.91 1.49 41.67 2.32
2666 5410 4.589216 AATATGGCTGTGCGCATTATTT 57.411 36.364 15.91 0.00 41.67 1.40
2667 5411 5.902613 ATAATATGGCTGTGCGCATTATT 57.097 34.783 15.91 12.44 41.67 1.40
2668 5412 5.902613 AATAATATGGCTGTGCGCATTAT 57.097 34.783 15.91 8.14 41.67 1.28
2669 5413 6.429692 ACTTAATAATATGGCTGTGCGCATTA 59.570 34.615 15.91 5.75 41.67 1.90
2670 5414 5.241506 ACTTAATAATATGGCTGTGCGCATT 59.758 36.000 15.91 3.14 41.67 3.56
2671 5415 4.761739 ACTTAATAATATGGCTGTGCGCAT 59.238 37.500 15.91 0.00 41.67 4.73
2672 5416 4.133820 ACTTAATAATATGGCTGTGCGCA 58.866 39.130 5.66 5.66 41.67 6.09
2673 5417 4.452455 AGACTTAATAATATGGCTGTGCGC 59.548 41.667 0.00 0.00 38.13 6.09
2674 5418 7.834068 ATAGACTTAATAATATGGCTGTGCG 57.166 36.000 0.00 0.00 0.00 5.34
2675 5419 9.319143 CCTATAGACTTAATAATATGGCTGTGC 57.681 37.037 0.00 0.00 0.00 4.57
2690 5434 9.175312 GCATGCATAGTAGTACCTATAGACTTA 57.825 37.037 14.21 0.00 0.00 2.24
2691 5435 7.670140 TGCATGCATAGTAGTACCTATAGACTT 59.330 37.037 18.46 0.00 0.00 3.01
2692 5436 7.121463 GTGCATGCATAGTAGTACCTATAGACT 59.879 40.741 25.64 0.09 0.00 3.24
2693 5437 7.094334 TGTGCATGCATAGTAGTACCTATAGAC 60.094 40.741 25.64 4.45 0.00 2.59
2694 5438 6.946009 TGTGCATGCATAGTAGTACCTATAGA 59.054 38.462 25.64 0.00 0.00 1.98
2695 5439 7.158099 TGTGCATGCATAGTAGTACCTATAG 57.842 40.000 25.64 0.00 0.00 1.31
2696 5440 7.533289 TTGTGCATGCATAGTAGTACCTATA 57.467 36.000 25.64 0.00 0.00 1.31
2697 5441 6.419484 TTGTGCATGCATAGTAGTACCTAT 57.581 37.500 25.64 0.00 0.00 2.57
2698 5442 5.862678 TTGTGCATGCATAGTAGTACCTA 57.137 39.130 25.64 0.00 0.00 3.08
2699 5443 4.753516 TTGTGCATGCATAGTAGTACCT 57.246 40.909 25.64 0.00 0.00 3.08
2700 5444 5.056480 TCATTGTGCATGCATAGTAGTACC 58.944 41.667 25.64 7.97 32.13 3.34
2701 5445 5.333645 GCTCATTGTGCATGCATAGTAGTAC 60.334 44.000 25.64 8.75 32.13 2.73
2702 5446 4.751600 GCTCATTGTGCATGCATAGTAGTA 59.248 41.667 25.64 5.89 32.13 1.82
2703 5447 3.562973 GCTCATTGTGCATGCATAGTAGT 59.437 43.478 25.64 5.81 32.13 2.73
2704 5448 3.562557 TGCTCATTGTGCATGCATAGTAG 59.437 43.478 25.64 18.56 35.31 2.57
2705 5449 3.543665 TGCTCATTGTGCATGCATAGTA 58.456 40.909 25.64 7.55 35.31 1.82
2706 5450 2.371306 TGCTCATTGTGCATGCATAGT 58.629 42.857 25.64 15.73 35.31 2.12
2728 5472 6.650807 TGAAACCTAGATAGTTTGTTCTGCTG 59.349 38.462 0.96 0.00 37.55 4.41
2749 5494 8.129161 TGATCGTTCTAGTTAAAAACGTGAAA 57.871 30.769 11.86 0.00 44.45 2.69
2754 5499 8.861101 AGAAGATGATCGTTCTAGTTAAAAACG 58.139 33.333 7.19 7.19 45.24 3.60
2772 5517 2.094494 GTCGCCACTGAAGAGAAGATGA 60.094 50.000 0.00 0.00 0.00 2.92
2779 5524 0.318441 TCCAAGTCGCCACTGAAGAG 59.682 55.000 0.00 0.00 31.06 2.85
2793 5538 2.028420 TCGAGCATGTGGAATCCAAG 57.972 50.000 2.31 0.00 34.18 3.61
2890 5635 7.093640 ACTGGTGTCTATTTATGTTACCTCGAA 60.094 37.037 0.00 0.00 0.00 3.71
2902 5659 7.396339 TCTGAAGCTCTTACTGGTGTCTATTTA 59.604 37.037 0.00 0.00 0.00 1.40
2916 5673 6.779539 TCACAGGATCATATCTGAAGCTCTTA 59.220 38.462 4.00 0.00 34.37 2.10
2924 5681 7.166167 CCATTTCATCACAGGATCATATCTGA 58.834 38.462 4.00 0.00 35.20 3.27
2925 5682 6.374613 CCCATTTCATCACAGGATCATATCTG 59.625 42.308 0.00 0.00 37.07 2.90
2926 5683 6.482524 CCCATTTCATCACAGGATCATATCT 58.517 40.000 0.00 0.00 0.00 1.98
2927 5684 5.651139 CCCCATTTCATCACAGGATCATATC 59.349 44.000 0.00 0.00 0.00 1.63
2930 5687 3.205959 ACCCCATTTCATCACAGGATCAT 59.794 43.478 0.00 0.00 0.00 2.45
2963 5749 4.999950 GCTGAACATATCCTCCAACCTATG 59.000 45.833 0.00 0.00 0.00 2.23
2976 5762 4.285517 CCTCCCTCATACTGCTGAACATAT 59.714 45.833 0.00 0.00 0.00 1.78
2991 5777 0.250295 CAAACGTGAAGCCTCCCTCA 60.250 55.000 0.00 0.00 0.00 3.86
3207 5994 2.376956 CTGTACTTCTCATAGTCGCGC 58.623 52.381 0.00 0.00 0.00 6.86
3209 5996 3.377485 TCACCTGTACTTCTCATAGTCGC 59.623 47.826 0.00 0.00 0.00 5.19
3219 6006 6.313905 CCTGAATATGTTGTCACCTGTACTTC 59.686 42.308 0.00 0.00 0.00 3.01
3220 6007 6.173339 CCTGAATATGTTGTCACCTGTACTT 58.827 40.000 0.00 0.00 0.00 2.24
3221 6008 5.734720 CCTGAATATGTTGTCACCTGTACT 58.265 41.667 0.00 0.00 0.00 2.73
3223 6010 4.513442 GCCTGAATATGTTGTCACCTGTA 58.487 43.478 0.00 0.00 0.00 2.74
3224 6011 3.347216 GCCTGAATATGTTGTCACCTGT 58.653 45.455 0.00 0.00 0.00 4.00
3225 6012 2.684881 GGCCTGAATATGTTGTCACCTG 59.315 50.000 0.00 0.00 0.00 4.00
3227 6014 2.722094 TGGCCTGAATATGTTGTCACC 58.278 47.619 3.32 0.00 0.00 4.02
3228 6015 5.126067 ACTATGGCCTGAATATGTTGTCAC 58.874 41.667 3.32 0.00 0.00 3.67
3229 6016 5.368145 GACTATGGCCTGAATATGTTGTCA 58.632 41.667 3.32 0.00 0.00 3.58
3230 6017 4.449068 CGACTATGGCCTGAATATGTTGTC 59.551 45.833 3.32 0.00 0.00 3.18
3231 6018 4.141711 ACGACTATGGCCTGAATATGTTGT 60.142 41.667 3.32 0.77 0.00 3.32
3232 6019 4.380531 ACGACTATGGCCTGAATATGTTG 58.619 43.478 3.32 0.15 0.00 3.33
3233 6020 4.689612 ACGACTATGGCCTGAATATGTT 57.310 40.909 3.32 0.00 0.00 2.71
3291 6078 7.679783 TCACTCTATCCTTTTCATGAGAACAA 58.320 34.615 0.00 0.00 32.39 2.83
3297 6084 7.712639 GTGCTATTCACTCTATCCTTTTCATGA 59.287 37.037 0.00 0.00 42.38 3.07
3307 6094 6.095432 ACCAGATGTGCTATTCACTCTATC 57.905 41.667 0.00 0.00 45.81 2.08
3368 6155 7.042725 CGTGATCACAAGATATTACGGAAACAT 60.043 37.037 24.93 0.00 34.90 2.71
3370 6157 6.474427 TCGTGATCACAAGATATTACGGAAAC 59.526 38.462 24.93 0.00 37.07 2.78
3374 6161 4.383052 GCTCGTGATCACAAGATATTACGG 59.617 45.833 24.93 4.79 37.07 4.02
3380 6168 4.718940 TTCTGCTCGTGATCACAAGATA 57.281 40.909 24.93 8.57 34.46 1.98
3390 6178 2.168326 TGCTTTCATTCTGCTCGTGA 57.832 45.000 0.00 0.00 0.00 4.35
3407 6195 1.742268 GTCCTGAGAGAATTGCCTTGC 59.258 52.381 0.00 0.00 0.00 4.01
3441 6229 8.162085 ACTAGCATATGATGAACATTTGGAGAT 58.838 33.333 6.97 0.00 40.07 2.75
3442 6230 7.512130 ACTAGCATATGATGAACATTTGGAGA 58.488 34.615 6.97 0.00 40.07 3.71
3443 6231 7.741027 ACTAGCATATGATGAACATTTGGAG 57.259 36.000 6.97 0.00 40.07 3.86
3499 6531 7.967908 ACCCATGTCCTTGTATCTTTATAGAG 58.032 38.462 0.00 0.00 32.92 2.43
3589 6628 9.306280 CTATCGAATAATTAGCAACACAAATCG 57.694 33.333 0.00 0.00 0.00 3.34
3623 6662 5.357257 ACGATGATCACATAGTTACAACCC 58.643 41.667 0.00 0.00 38.76 4.11
3625 6664 7.488150 TGAGAACGATGATCACATAGTTACAAC 59.512 37.037 0.00 0.00 46.53 3.32
3677 6716 4.301072 TGGGAGGATGAGAACGATTTTT 57.699 40.909 0.00 0.00 0.00 1.94
3678 6717 4.080356 TGATGGGAGGATGAGAACGATTTT 60.080 41.667 0.00 0.00 0.00 1.82
3679 6718 3.455910 TGATGGGAGGATGAGAACGATTT 59.544 43.478 0.00 0.00 0.00 2.17
3680 6719 3.041211 TGATGGGAGGATGAGAACGATT 58.959 45.455 0.00 0.00 0.00 3.34
3681 6720 2.682594 TGATGGGAGGATGAGAACGAT 58.317 47.619 0.00 0.00 0.00 3.73
3682 6721 2.159179 TGATGGGAGGATGAGAACGA 57.841 50.000 0.00 0.00 0.00 3.85
3683 6722 2.988010 TTGATGGGAGGATGAGAACG 57.012 50.000 0.00 0.00 0.00 3.95
3684 6723 4.593956 ACTTTTGATGGGAGGATGAGAAC 58.406 43.478 0.00 0.00 0.00 3.01
3685 6724 4.934797 ACTTTTGATGGGAGGATGAGAA 57.065 40.909 0.00 0.00 0.00 2.87
3686 6725 4.934797 AACTTTTGATGGGAGGATGAGA 57.065 40.909 0.00 0.00 0.00 3.27
3687 6726 5.104360 TCCTAACTTTTGATGGGAGGATGAG 60.104 44.000 0.00 0.00 0.00 2.90
3688 6727 4.788075 TCCTAACTTTTGATGGGAGGATGA 59.212 41.667 0.00 0.00 0.00 2.92
3689 6728 4.884164 GTCCTAACTTTTGATGGGAGGATG 59.116 45.833 0.00 0.00 34.29 3.51
3690 6729 4.790790 AGTCCTAACTTTTGATGGGAGGAT 59.209 41.667 0.00 0.00 34.29 3.24
3691 6730 4.175962 AGTCCTAACTTTTGATGGGAGGA 58.824 43.478 0.00 0.00 28.74 3.71
3692 6731 4.576330 AGTCCTAACTTTTGATGGGAGG 57.424 45.455 0.00 0.00 28.74 4.30
3693 6732 6.301169 ACTAGTCCTAACTTTTGATGGGAG 57.699 41.667 0.00 0.00 36.92 4.30
3694 6733 5.189145 GGACTAGTCCTAACTTTTGATGGGA 59.811 44.000 31.12 0.00 46.16 4.37
3695 6734 5.429130 GGACTAGTCCTAACTTTTGATGGG 58.571 45.833 31.12 0.00 46.16 4.00
3715 6754 0.179108 CTGCCGTTGCTACTAGGGAC 60.179 60.000 0.00 0.00 38.71 4.46
3735 6774 2.483014 AGGTTACACTTTGGCGCATA 57.517 45.000 10.83 0.00 0.00 3.14
3773 6815 2.675844 TGTCATTATACGTTGCCAGTGC 59.324 45.455 0.00 0.00 38.26 4.40
3803 6845 6.617784 TGATTGTATGAGTTTCCCTATGGGTA 59.382 38.462 2.25 0.00 44.74 3.69
3820 6862 3.748668 GCCCCTGTGCTGTATGATTGTAT 60.749 47.826 0.00 0.00 0.00 2.29
3821 6863 2.421388 GCCCCTGTGCTGTATGATTGTA 60.421 50.000 0.00 0.00 0.00 2.41
3822 6864 1.683011 GCCCCTGTGCTGTATGATTGT 60.683 52.381 0.00 0.00 0.00 2.71
3823 6865 1.027357 GCCCCTGTGCTGTATGATTG 58.973 55.000 0.00 0.00 0.00 2.67
3824 6866 0.625316 TGCCCCTGTGCTGTATGATT 59.375 50.000 0.00 0.00 0.00 2.57
3825 6867 0.182061 CTGCCCCTGTGCTGTATGAT 59.818 55.000 0.00 0.00 0.00 2.45
3853 6895 2.499289 CACAGTTAGGAGAGAGCACCAT 59.501 50.000 0.00 0.00 0.00 3.55
3879 6921 4.727235 ACTTTGTACGCAAGCTTAGAAC 57.273 40.909 0.00 0.00 45.62 3.01
3891 6933 6.916401 TGTTGTCGAGTTATACTTTGTACG 57.084 37.500 0.00 0.00 0.00 3.67
3899 6941 5.459107 CAGGCTGTATGTTGTCGAGTTATAC 59.541 44.000 6.28 0.00 0.00 1.47
3907 6949 1.328680 GATGCAGGCTGTATGTTGTCG 59.671 52.381 23.08 0.00 0.00 4.35
3948 6990 4.887071 AGAAAAACTACATGTCTGTTGCCA 59.113 37.500 15.06 0.00 36.79 4.92
3949 6991 5.438761 AGAAAAACTACATGTCTGTTGCC 57.561 39.130 15.06 9.15 36.79 4.52
3950 6992 6.417930 GGAAAGAAAAACTACATGTCTGTTGC 59.582 38.462 15.06 9.58 36.79 4.17
3951 6993 7.707104 AGGAAAGAAAAACTACATGTCTGTTG 58.293 34.615 15.06 0.95 36.79 3.33
3952 6994 7.881775 AGGAAAGAAAAACTACATGTCTGTT 57.118 32.000 0.00 6.47 36.79 3.16
3980 7032 4.340097 TCTGACCGTACTGAGACAAAAAGA 59.660 41.667 0.00 0.00 0.00 2.52
4002 7054 5.516696 GTGTTGAAGCCTTGAAAAGTTCTTC 59.483 40.000 10.09 10.09 44.25 2.87
4020 7072 2.995939 GCGATCAATCAGTCAGTGTTGA 59.004 45.455 0.00 3.26 33.52 3.18
4023 7075 1.067565 ACGCGATCAATCAGTCAGTGT 60.068 47.619 15.93 0.00 0.00 3.55
4030 7082 3.729526 AGTTTTGACGCGATCAATCAG 57.270 42.857 15.93 0.00 46.80 2.90
4050 7102 5.634118 AGTGACAATGATTGGAAGGAGAAA 58.366 37.500 10.27 0.00 34.12 2.52
4076 7128 8.640063 TTCGAGGTGCTTATATAGGTGTAATA 57.360 34.615 0.00 0.00 0.00 0.98


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

AutoCloner maintained by Alex Coulton.