Multiple sequence alignment - TraesCS2B01G389400

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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 TraesCS2B01G389400 chr2B 100.000 5319 0 0 1 5319 553164300 553169618 0.000000e+00 9823.0
1 TraesCS2B01G389400 chr2B 80.813 443 45 21 4 418 552436520 552436950 1.440000e-80 311.0
2 TraesCS2B01G389400 chr2B 89.076 119 11 2 1411 1528 748723222 748723339 4.290000e-31 147.0
3 TraesCS2B01G389400 chr2B 98.485 66 1 0 4760 4825 553169123 553169188 3.370000e-22 117.0
4 TraesCS2B01G389400 chr2A 97.147 1893 51 3 2595 4486 615261161 615263051 0.000000e+00 3193.0
5 TraesCS2B01G389400 chr2A 93.123 1556 63 21 229 1767 615258686 615260214 0.000000e+00 2241.0
6 TraesCS2B01G389400 chr2A 91.972 847 46 14 1762 2592 615260273 615261113 0.000000e+00 1168.0
7 TraesCS2B01G389400 chr2A 93.146 321 21 1 4824 5144 615265826 615266145 2.240000e-128 470.0
8 TraesCS2B01G389400 chr2A 91.273 275 23 1 4552 4825 615265617 615265891 1.810000e-99 374.0
9 TraesCS2B01G389400 chr2A 95.909 220 7 2 4300 4518 615263048 615263266 6.550000e-94 355.0
10 TraesCS2B01G389400 chr2A 94.924 197 7 3 4336 4531 615263283 615263477 6.690000e-79 305.0
11 TraesCS2B01G389400 chr2A 83.333 168 20 6 1411 1574 745014893 745015056 1.190000e-31 148.0
12 TraesCS2B01G389400 chr2A 95.122 41 1 1 5144 5183 367022989 367022949 4.450000e-06 63.9
13 TraesCS2B01G389400 chr2D 92.625 2183 124 19 2597 4766 473159417 473161575 0.000000e+00 3105.0
14 TraesCS2B01G389400 chr2D 93.856 1774 81 11 1 1767 473156724 473158476 0.000000e+00 2647.0
15 TraesCS2B01G389400 chr2D 90.647 834 59 12 1772 2598 473158546 473159367 0.000000e+00 1090.0
16 TraesCS2B01G389400 chr2D 78.070 456 56 22 1 418 473103547 473103996 1.140000e-61 248.0
17 TraesCS2B01G389400 chr2D 92.763 152 10 1 4993 5144 473161737 473161887 8.970000e-53 219.0
18 TraesCS2B01G389400 chr2D 78.992 238 39 8 1411 1641 613344493 613344726 9.230000e-33 152.0
19 TraesCS2B01G389400 chr2D 83.824 68 11 0 15 82 390412907 390412840 1.240000e-06 65.8
20 TraesCS2B01G389400 chr1D 88.050 318 37 1 4827 5144 97528274 97528590 5.030000e-100 375.0
21 TraesCS2B01G389400 chr1D 85.870 276 30 6 4555 4822 97528059 97528333 8.720000e-73 285.0
22 TraesCS2B01G389400 chr1D 95.349 43 1 1 5142 5183 76950510 76950468 3.440000e-07 67.6
23 TraesCS2B01G389400 chr1D 93.023 43 1 1 5144 5186 66597828 66597868 1.600000e-05 62.1
24 TraesCS2B01G389400 chr1D 95.000 40 1 1 5143 5181 335771237 335771198 1.600000e-05 62.1
25 TraesCS2B01G389400 chr4A 88.356 292 33 1 4825 5115 533846317 533846608 3.050000e-92 350.0
26 TraesCS2B01G389400 chr4A 83.883 273 36 4 4554 4824 533846114 533846380 2.460000e-63 254.0
27 TraesCS2B01G389400 chr4A 83.200 125 18 1 1411 1532 43233709 43233585 1.570000e-20 111.0
28 TraesCS2B01G389400 chr4A 88.710 62 6 1 10 71 685365863 685365803 2.050000e-09 75.0
29 TraesCS2B01G389400 chr4B 86.000 300 38 2 4821 5120 92948793 92948498 8.600000e-83 318.0
30 TraesCS2B01G389400 chr1A 83.438 320 46 7 4826 5144 92117632 92117945 1.870000e-74 291.0
31 TraesCS2B01G389400 chr1A 86.726 113 13 1 4705 4817 92117577 92117687 2.010000e-24 124.0
32 TraesCS2B01G389400 chr1A 87.838 74 7 2 1 73 575680125 575680197 9.490000e-13 86.1
33 TraesCS2B01G389400 chr5D 80.259 309 44 6 4825 5132 66302234 66302526 3.230000e-52 217.0
34 TraesCS2B01G389400 chr5D 79.208 303 50 11 4530 4825 66302002 66302298 1.170000e-46 198.0
35 TraesCS2B01G389400 chr5D 95.349 43 1 1 5142 5183 448495222 448495264 3.440000e-07 67.6
36 TraesCS2B01G389400 chr5A 79.688 320 46 8 4827 5144 58030987 58030685 4.170000e-51 213.0
37 TraesCS2B01G389400 chr5A 78.221 326 51 13 4821 5144 58103028 58102721 1.960000e-44 191.0
38 TraesCS2B01G389400 chr5A 78.548 303 52 10 4530 4825 58103257 58102961 2.530000e-43 187.0
39 TraesCS2B01G389400 chr5A 80.242 248 41 6 4580 4825 58031166 58030925 4.230000e-41 180.0
40 TraesCS2B01G389400 chr4D 88.953 172 17 1 4825 4996 62822443 62822274 1.500000e-50 211.0
41 TraesCS2B01G389400 chr4D 95.349 43 1 1 5142 5183 273977038 273977080 3.440000e-07 67.6
42 TraesCS2B01G389400 chr1B 80.319 188 33 3 4639 4823 621273545 621273359 7.180000e-29 139.0
43 TraesCS2B01G389400 chr3D 80.556 180 19 11 5143 5318 107220413 107220246 2.010000e-24 124.0
44 TraesCS2B01G389400 chr7B 83.333 84 12 2 1 83 586726957 586727039 5.710000e-10 76.8
45 TraesCS2B01G389400 chr7A 95.122 41 1 1 5142 5181 665816228 665816268 4.450000e-06 63.9
46 TraesCS2B01G389400 chr7A 94.872 39 1 1 5144 5181 588259289 588259327 5.750000e-05 60.2


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 TraesCS2B01G389400 chr2B 553164300 553169618 5318 False 4970.00 9823 99.242500 1 5319 2 chr2B.!!$F3 5318
1 TraesCS2B01G389400 chr2A 615258686 615266145 7459 False 1158.00 3193 93.927714 229 5144 7 chr2A.!!$F2 4915
2 TraesCS2B01G389400 chr2D 473156724 473161887 5163 False 1765.25 3105 92.472750 1 5144 4 chr2D.!!$F3 5143
3 TraesCS2B01G389400 chr1D 97528059 97528590 531 False 330.00 375 86.960000 4555 5144 2 chr1D.!!$F2 589
4 TraesCS2B01G389400 chr5D 66302002 66302526 524 False 207.50 217 79.733500 4530 5132 2 chr5D.!!$F2 602

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
31 32 0.037697 GGGTTTTCATCCGGCAAACC 60.038 55.0 20.67 20.67 46.03 3.27 F
958 972 0.108615 ACCTATATGATGGAGCGCGC 60.109 55.0 26.66 26.66 0.00 6.86 F
1040 1054 0.535553 ATACTCCTCCTCCTCGTCGC 60.536 60.0 0.00 0.00 0.00 5.19 F
2375 2475 1.028905 CGGTGCTTCCTTTTTGTCCA 58.971 50.0 0.00 0.00 0.00 4.02 F
3274 3432 0.820871 AAGCCTTTGTTCCGCAAACA 59.179 45.0 0.00 0.00 46.11 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1021 1035 0.535553 GCGACGAGGAGGAGGAGTAT 60.536 60.000 0.00 0.00 0.00 2.12 R
2356 2456 1.028905 TGGACAAAAAGGAAGCACCG 58.971 50.000 0.00 0.00 44.74 4.94 R
2387 2487 1.395954 CCACAGCGTCACAATCAGATG 59.604 52.381 0.00 0.00 0.00 2.90 R
3508 3666 0.036671 AAGAAACATCGACGGGACCC 60.037 55.000 0.00 0.00 0.00 4.46 R
4773 7440 0.036732 ATTGCTTGGAGCTCGTGGAA 59.963 50.000 7.83 8.03 42.97 3.53 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
31 32 0.037697 GGGTTTTCATCCGGCAAACC 60.038 55.000 20.67 20.67 46.03 3.27
47 48 0.611062 AACCCGAGACCGAGATGACA 60.611 55.000 0.00 0.00 38.22 3.58
72 73 3.691342 TGAAGGGGCTCCACGACG 61.691 66.667 4.79 0.00 34.83 5.12
87 88 0.589708 CGACGAAACCTCCAAAACCC 59.410 55.000 0.00 0.00 0.00 4.11
91 92 1.757699 CGAAACCTCCAAAACCCCAAA 59.242 47.619 0.00 0.00 0.00 3.28
109 110 3.595758 GTTGCGCACCAGCCAAGT 61.596 61.111 11.12 0.00 37.52 3.16
114 115 3.414700 GCACCAGCCAAGTCGACG 61.415 66.667 10.46 0.00 33.58 5.12
129 130 2.282674 ACGACACCGCCACCTAGA 60.283 61.111 0.00 0.00 39.95 2.43
144 145 4.648762 CCACCTAGATGACAAGAGATGACT 59.351 45.833 0.00 0.00 0.00 3.41
147 148 5.830991 ACCTAGATGACAAGAGATGACTACC 59.169 44.000 0.00 0.00 0.00 3.18
148 149 6.068010 CCTAGATGACAAGAGATGACTACCT 58.932 44.000 0.00 0.00 0.00 3.08
153 154 4.705507 TGACAAGAGATGACTACCTACCAC 59.294 45.833 0.00 0.00 0.00 4.16
176 177 0.322546 ACATGGTTTTCGGAGCCTCC 60.323 55.000 0.00 0.00 0.00 4.30
219 221 2.830370 GGCCATGCACCAGCCTAC 60.830 66.667 14.61 0.00 43.62 3.18
313 317 7.651998 CGCGAGATATAACGGTAAAAGAATAC 58.348 38.462 0.00 0.00 0.00 1.89
456 466 2.104298 GCATTTAGCAAACGAGACGCG 61.104 52.381 3.53 3.53 44.79 6.01
467 477 2.125512 AGACGCGGACATCAAGCC 60.126 61.111 12.47 0.00 0.00 4.35
495 505 1.804151 CCCGGCAACCATATGATAACG 59.196 52.381 3.65 2.34 0.00 3.18
600 611 7.816513 AGAAAAGAAGGAAAATTAAGCTGCATC 59.183 33.333 1.02 0.00 0.00 3.91
601 612 6.847421 AAGAAGGAAAATTAAGCTGCATCT 57.153 33.333 1.02 0.00 0.00 2.90
602 613 6.205101 AGAAGGAAAATTAAGCTGCATCTG 57.795 37.500 1.02 0.00 0.00 2.90
603 614 4.996788 AGGAAAATTAAGCTGCATCTGG 57.003 40.909 1.02 0.00 0.00 3.86
604 615 3.131755 AGGAAAATTAAGCTGCATCTGGC 59.868 43.478 1.02 0.00 45.13 4.85
750 761 2.719046 GCCAAGTGTTTGACGAAATTCG 59.281 45.455 14.35 14.35 46.93 3.34
762 773 1.656594 CGAAATTCGTCGCCATGTACA 59.343 47.619 7.29 0.00 34.72 2.90
765 776 0.461339 ATTCGTCGCCATGTACACCC 60.461 55.000 0.00 0.00 0.00 4.61
767 778 2.124860 GTCGCCATGTACACCCCC 60.125 66.667 0.00 0.00 0.00 5.40
768 779 2.285069 TCGCCATGTACACCCCCT 60.285 61.111 0.00 0.00 0.00 4.79
769 780 2.124736 CGCCATGTACACCCCCTG 60.125 66.667 0.00 0.00 0.00 4.45
770 781 2.440247 GCCATGTACACCCCCTGC 60.440 66.667 0.00 0.00 0.00 4.85
771 782 3.086143 CCATGTACACCCCCTGCA 58.914 61.111 0.00 0.00 0.00 4.41
881 895 2.186125 CGCTCATCAGCCTCAGCA 59.814 61.111 0.00 0.00 43.56 4.41
882 896 1.883544 CGCTCATCAGCCTCAGCAG 60.884 63.158 0.00 0.00 43.56 4.24
904 918 1.450312 GCAGTTCACCCGGGATCAG 60.450 63.158 32.02 14.16 0.00 2.90
908 922 2.966732 TTCACCCGGGATCAGCACC 61.967 63.158 32.02 0.00 0.00 5.01
958 972 0.108615 ACCTATATGATGGAGCGCGC 60.109 55.000 26.66 26.66 0.00 6.86
1036 1050 1.546773 CCCTCATACTCCTCCTCCTCG 60.547 61.905 0.00 0.00 0.00 4.63
1038 1052 2.500229 CTCATACTCCTCCTCCTCGTC 58.500 57.143 0.00 0.00 0.00 4.20
1039 1053 1.202663 TCATACTCCTCCTCCTCGTCG 60.203 57.143 0.00 0.00 0.00 5.12
1040 1054 0.535553 ATACTCCTCCTCCTCGTCGC 60.536 60.000 0.00 0.00 0.00 5.19
1581 1595 1.386057 GGGCTTCCAGGGGGAGTAT 60.386 63.158 0.00 0.00 46.01 2.12
1596 1610 3.078196 TATGGCGACGGCAGGGAA 61.078 61.111 28.34 11.72 42.43 3.97
1709 1723 3.335579 AGGTGAAACGTTTGCTCCTATC 58.664 45.455 20.10 1.46 38.12 2.08
1763 1780 4.941263 AGCTCATTTTCGGTTATTGCACTA 59.059 37.500 0.00 0.00 0.00 2.74
1767 1784 8.076178 GCTCATTTTCGGTTATTGCACTATATT 58.924 33.333 0.00 0.00 0.00 1.28
1816 1899 2.094700 ACATCACACTAGCACACTACCG 60.095 50.000 0.00 0.00 0.00 4.02
1995 2088 2.091277 CGTGAAATCACAGAGTCGCTTC 59.909 50.000 13.51 0.00 46.75 3.86
2008 2101 6.128445 ACAGAGTCGCTTCTTTGAACAATATG 60.128 38.462 3.38 0.00 0.00 1.78
2156 2251 2.681976 GCCTCCTTTCAAGAGCTGCATA 60.682 50.000 1.02 0.00 0.00 3.14
2224 2319 4.600055 TGTGCCAGCATGTGCCCA 62.600 61.111 0.57 0.00 43.38 5.36
2249 2344 5.611128 AAGATCTGCTGCAGAAGATTAGA 57.389 39.130 33.38 17.81 44.04 2.10
2282 2377 4.096532 GGATTTAAAGGGTACTGCTTGCTC 59.903 45.833 0.00 0.00 0.00 4.26
2283 2378 4.367039 TTTAAAGGGTACTGCTTGCTCT 57.633 40.909 0.00 0.00 0.00 4.09
2284 2379 2.959465 AAAGGGTACTGCTTGCTCTT 57.041 45.000 0.00 0.00 0.00 2.85
2285 2380 2.481289 AAGGGTACTGCTTGCTCTTC 57.519 50.000 0.00 0.00 0.00 2.87
2286 2381 1.650528 AGGGTACTGCTTGCTCTTCT 58.349 50.000 0.00 0.00 0.00 2.85
2288 2383 2.373502 AGGGTACTGCTTGCTCTTCTTT 59.626 45.455 0.00 0.00 0.00 2.52
2289 2384 2.485814 GGGTACTGCTTGCTCTTCTTTG 59.514 50.000 0.00 0.00 0.00 2.77
2364 2464 7.815068 ACACTAATCTCATAATATCGGTGCTTC 59.185 37.037 0.00 0.00 0.00 3.86
2365 2465 7.276658 CACTAATCTCATAATATCGGTGCTTCC 59.723 40.741 0.00 0.00 0.00 3.46
2375 2475 1.028905 CGGTGCTTCCTTTTTGTCCA 58.971 50.000 0.00 0.00 0.00 4.02
2387 2487 3.907894 TTTTGTCCAAAGGTACATCGC 57.092 42.857 0.00 0.00 0.00 4.58
2448 2548 3.125487 AGACATACACGAGTTCAGACGAG 59.875 47.826 0.00 0.00 0.00 4.18
2583 2683 2.995939 TGCACTTCTCAGCTCAATAACG 59.004 45.455 0.00 0.00 0.00 3.18
2593 2693 8.131455 TCTCAGCTCAATAACGCTATAAAAAG 57.869 34.615 0.00 0.00 34.58 2.27
2613 2768 5.534207 AAGCAAATGTGAACTCCATTTCA 57.466 34.783 0.00 0.00 39.77 2.69
2614 2769 5.733620 AGCAAATGTGAACTCCATTTCAT 57.266 34.783 0.00 0.00 39.77 2.57
2661 2818 7.333423 AGCGTGACTGCTTAAAATATGAACTTA 59.667 33.333 0.00 0.00 44.46 2.24
2694 2851 6.039270 TGCCGGAATTAGAATGATTAAGGTTG 59.961 38.462 5.05 0.00 0.00 3.77
2771 2929 6.770746 AGCAGAATTTCTTGCTGAATATGT 57.229 33.333 17.11 0.00 32.45 2.29
3274 3432 0.820871 AAGCCTTTGTTCCGCAAACA 59.179 45.000 0.00 0.00 46.11 2.83
3460 3618 5.220710 AGCAGCAGGATCTCGTAAATATT 57.779 39.130 0.00 0.00 0.00 1.28
3496 3654 4.649218 ACAAAGAAGCCTATTGTGTTGGTT 59.351 37.500 0.00 0.00 36.03 3.67
3508 3666 2.110352 GTTGGTTATCACGGGCGGG 61.110 63.158 0.00 0.00 0.00 6.13
3529 3687 2.148768 GGTCCCGTCGATGTTTCTTTT 58.851 47.619 3.52 0.00 0.00 2.27
3577 3735 3.392616 GTGTCCTGTGGATTGGATATCCT 59.607 47.826 22.35 3.01 38.95 3.24
3592 3750 3.646715 CCTGGGGAAGTTGGCGGA 61.647 66.667 0.00 0.00 0.00 5.54
3595 3753 2.359975 GGGGAAGTTGGCGGACAG 60.360 66.667 0.00 0.00 0.00 3.51
3616 3774 5.899547 ACAGGTTCTCCCAGAAATTCTTTTT 59.100 36.000 0.00 0.00 35.75 1.94
3668 3826 1.466360 GCAGTTTAATGCGGCAGTCAG 60.466 52.381 6.07 0.00 36.28 3.51
3669 3827 2.076100 CAGTTTAATGCGGCAGTCAGA 58.924 47.619 6.07 0.00 0.00 3.27
3676 3834 3.819564 ATGCGGCAGTCAGATAAGTAA 57.180 42.857 9.25 0.00 0.00 2.24
3760 3921 0.179702 GGTACCCCGAATCCTTCACC 59.820 60.000 0.00 0.00 0.00 4.02
4114 4275 2.668556 GCTGTTCACGAGATCGAAGTCA 60.669 50.000 9.58 2.70 43.02 3.41
4171 4332 2.179517 GAGCGCGTCTACACTGCT 59.820 61.111 8.43 0.00 35.31 4.24
4476 5021 6.494893 AATAGAAGCAGTAAATTTGACGCA 57.505 33.333 0.00 0.00 0.00 5.24
4535 5080 2.031037 TTTTCGAGTGCACGCAAATC 57.969 45.000 20.77 7.17 0.00 2.17
4567 7229 9.525409 CCATATTTTTAGGCAGAGAGAAATTTG 57.475 33.333 0.00 0.00 0.00 2.32
4603 7265 0.107848 CCCAACAAGTAGGGCTACCG 60.108 60.000 0.00 0.00 43.47 4.02
4627 7289 1.767692 GATCCACACACCCACCCTT 59.232 57.895 0.00 0.00 0.00 3.95
4672 7334 6.959639 AAAGATTTGAAAACACCTAGCTCA 57.040 33.333 0.00 0.00 0.00 4.26
4749 7416 1.973281 CGTTGCTGGGCCACATTCT 60.973 57.895 0.00 0.00 0.00 2.40
4761 7428 0.888736 CACATTCTTGGACACCCGCA 60.889 55.000 0.00 0.00 34.29 5.69
4766 7433 0.179004 TCTTGGACACCCGCACATTT 60.179 50.000 0.00 0.00 34.29 2.32
4767 7434 0.240945 CTTGGACACCCGCACATTTC 59.759 55.000 0.00 0.00 34.29 2.17
4768 7435 0.179004 TTGGACACCCGCACATTTCT 60.179 50.000 0.00 0.00 34.29 2.52
4769 7436 0.179004 TGGACACCCGCACATTTCTT 60.179 50.000 0.00 0.00 34.29 2.52
4770 7437 0.958822 GGACACCCGCACATTTCTTT 59.041 50.000 0.00 0.00 0.00 2.52
4771 7438 1.335872 GGACACCCGCACATTTCTTTG 60.336 52.381 0.00 0.00 0.00 2.77
4772 7439 0.031994 ACACCCGCACATTTCTTTGC 59.968 50.000 0.00 0.00 35.26 3.68
4773 7440 0.314935 CACCCGCACATTTCTTTGCT 59.685 50.000 0.00 0.00 36.54 3.91
4774 7441 1.039856 ACCCGCACATTTCTTTGCTT 58.960 45.000 0.00 0.00 36.54 3.91
4775 7442 1.000274 ACCCGCACATTTCTTTGCTTC 60.000 47.619 0.00 0.00 36.54 3.86
4776 7443 1.669795 CCCGCACATTTCTTTGCTTCC 60.670 52.381 0.00 0.00 36.54 3.46
4777 7444 1.000385 CCGCACATTTCTTTGCTTCCA 60.000 47.619 0.00 0.00 36.54 3.53
4778 7445 2.053627 CGCACATTTCTTTGCTTCCAC 58.946 47.619 0.00 0.00 36.54 4.02
4779 7446 2.053627 GCACATTTCTTTGCTTCCACG 58.946 47.619 0.00 0.00 35.74 4.94
4780 7447 2.287547 GCACATTTCTTTGCTTCCACGA 60.288 45.455 0.00 0.00 35.74 4.35
4781 7448 3.558505 CACATTTCTTTGCTTCCACGAG 58.441 45.455 0.00 0.00 0.00 4.18
4782 7449 2.030805 ACATTTCTTTGCTTCCACGAGC 60.031 45.455 0.00 0.00 43.00 5.03
4783 7450 1.967319 TTTCTTTGCTTCCACGAGCT 58.033 45.000 0.00 0.00 43.11 4.09
4784 7451 1.512926 TTCTTTGCTTCCACGAGCTC 58.487 50.000 2.73 2.73 43.11 4.09
4785 7452 0.320771 TCTTTGCTTCCACGAGCTCC 60.321 55.000 8.47 0.00 43.11 4.70
4786 7453 0.603707 CTTTGCTTCCACGAGCTCCA 60.604 55.000 8.47 0.00 43.11 3.86
4787 7454 0.179032 TTTGCTTCCACGAGCTCCAA 60.179 50.000 8.47 1.49 43.11 3.53
4788 7455 0.603707 TTGCTTCCACGAGCTCCAAG 60.604 55.000 8.47 6.58 43.11 3.61
4789 7456 2.394563 GCTTCCACGAGCTCCAAGC 61.395 63.158 8.47 12.57 42.84 4.01
4790 7457 1.004560 CTTCCACGAGCTCCAAGCA 60.005 57.895 8.47 0.00 45.56 3.91
4791 7458 0.603707 CTTCCACGAGCTCCAAGCAA 60.604 55.000 8.47 0.00 45.56 3.91
4792 7459 0.036732 TTCCACGAGCTCCAAGCAAT 59.963 50.000 8.47 0.00 45.56 3.56
4793 7460 0.674581 TCCACGAGCTCCAAGCAATG 60.675 55.000 8.47 0.00 45.56 2.82
4843 7511 1.330306 CGCATTTCTTTGCTTCCACG 58.670 50.000 0.00 0.00 40.54 4.94
4921 7610 1.686052 CCTCCTTGCTCGATCTTAGCT 59.314 52.381 15.44 0.00 40.73 3.32
4936 7625 1.305886 TAGCTACCACTCCTCCAGGA 58.694 55.000 0.00 0.00 43.08 3.86
4992 7681 1.603802 AGTGAAGTGAAACATGCGTGG 59.396 47.619 11.36 0.00 41.43 4.94
5027 7716 4.084013 AGCGTAAACACACTGCATAAAGAC 60.084 41.667 0.00 0.00 0.00 3.01
5115 7804 3.315749 GTCGGAATCGTCTATCAGAGGTT 59.684 47.826 0.00 0.00 37.69 3.50
5144 7833 3.658709 GATACTGGAGAGCAAGCCATAC 58.341 50.000 0.00 0.00 32.89 2.39
5145 7834 1.577736 ACTGGAGAGCAAGCCATACT 58.422 50.000 0.00 0.00 32.89 2.12
5146 7835 2.752030 ACTGGAGAGCAAGCCATACTA 58.248 47.619 0.00 0.00 32.89 1.82
5147 7836 2.697751 ACTGGAGAGCAAGCCATACTAG 59.302 50.000 0.00 0.00 32.89 2.57
5148 7837 2.697751 CTGGAGAGCAAGCCATACTAGT 59.302 50.000 0.00 0.00 32.89 2.57
5149 7838 3.891977 CTGGAGAGCAAGCCATACTAGTA 59.108 47.826 4.77 4.77 32.89 1.82
5150 7839 3.891977 TGGAGAGCAAGCCATACTAGTAG 59.108 47.826 8.85 0.00 0.00 2.57
5151 7840 4.145807 GGAGAGCAAGCCATACTAGTAGA 58.854 47.826 8.85 0.00 0.00 2.59
5152 7841 4.217550 GGAGAGCAAGCCATACTAGTAGAG 59.782 50.000 8.85 3.35 0.00 2.43
5153 7842 4.798882 AGAGCAAGCCATACTAGTAGAGT 58.201 43.478 8.85 0.00 42.69 3.24
5154 7843 4.582656 AGAGCAAGCCATACTAGTAGAGTG 59.417 45.833 8.85 2.03 39.39 3.51
5155 7844 3.068873 AGCAAGCCATACTAGTAGAGTGC 59.931 47.826 8.85 12.25 39.39 4.40
5156 7845 3.800604 GCAAGCCATACTAGTAGAGTGCC 60.801 52.174 8.85 0.00 39.39 5.01
5157 7846 2.599677 AGCCATACTAGTAGAGTGCCC 58.400 52.381 8.85 0.00 39.39 5.36
5158 7847 1.269998 GCCATACTAGTAGAGTGCCCG 59.730 57.143 8.85 0.00 39.39 6.13
5159 7848 2.584236 CCATACTAGTAGAGTGCCCGT 58.416 52.381 8.85 0.00 39.39 5.28
5160 7849 2.293677 CCATACTAGTAGAGTGCCCGTG 59.706 54.545 8.85 0.00 39.39 4.94
5161 7850 1.386533 TACTAGTAGAGTGCCCGTGC 58.613 55.000 3.59 0.00 39.39 5.34
5203 7892 7.698836 AAAATGAGAACATTCCTTTTCGTTG 57.301 32.000 0.00 0.00 44.67 4.10
5204 7893 6.633500 AATGAGAACATTCCTTTTCGTTGA 57.367 33.333 0.00 0.00 42.20 3.18
5205 7894 6.824305 ATGAGAACATTCCTTTTCGTTGAT 57.176 33.333 0.00 0.00 32.21 2.57
5206 7895 7.921786 ATGAGAACATTCCTTTTCGTTGATA 57.078 32.000 0.00 0.00 32.21 2.15
5207 7896 7.129109 TGAGAACATTCCTTTTCGTTGATAC 57.871 36.000 0.00 0.00 0.00 2.24
5208 7897 6.934645 TGAGAACATTCCTTTTCGTTGATACT 59.065 34.615 0.00 0.00 0.00 2.12
5209 7898 8.092068 TGAGAACATTCCTTTTCGTTGATACTA 58.908 33.333 0.00 0.00 0.00 1.82
5210 7899 9.099454 GAGAACATTCCTTTTCGTTGATACTAT 57.901 33.333 0.00 0.00 0.00 2.12
5211 7900 9.449719 AGAACATTCCTTTTCGTTGATACTATT 57.550 29.630 0.00 0.00 0.00 1.73
5214 7903 9.106070 ACATTCCTTTTCGTTGATACTATTACC 57.894 33.333 0.00 0.00 0.00 2.85
5215 7904 9.104965 CATTCCTTTTCGTTGATACTATTACCA 57.895 33.333 0.00 0.00 0.00 3.25
5216 7905 9.675464 ATTCCTTTTCGTTGATACTATTACCAA 57.325 29.630 0.00 0.00 0.00 3.67
5217 7906 9.675464 TTCCTTTTCGTTGATACTATTACCAAT 57.325 29.630 0.00 0.00 0.00 3.16
5244 7933 8.842358 TTCGATATTGGGTTATTCATACCTTC 57.158 34.615 0.00 0.00 35.92 3.46
5245 7934 7.391620 TCGATATTGGGTTATTCATACCTTCC 58.608 38.462 0.00 0.00 35.92 3.46
5246 7935 7.236847 TCGATATTGGGTTATTCATACCTTCCT 59.763 37.037 0.00 0.00 35.92 3.36
5247 7936 8.537016 CGATATTGGGTTATTCATACCTTCCTA 58.463 37.037 0.00 0.00 35.92 2.94
5262 7951 9.284968 CATACCTTCCTATTAATTGTAGGTTGG 57.715 37.037 18.79 15.10 39.76 3.77
5263 7952 7.280044 ACCTTCCTATTAATTGTAGGTTGGT 57.720 36.000 19.52 19.52 39.76 3.67
5264 7953 7.705700 ACCTTCCTATTAATTGTAGGTTGGTT 58.294 34.615 19.52 11.79 39.97 3.67
5265 7954 7.614192 ACCTTCCTATTAATTGTAGGTTGGTTG 59.386 37.037 19.52 9.54 39.97 3.77
5266 7955 7.614192 CCTTCCTATTAATTGTAGGTTGGTTGT 59.386 37.037 14.74 0.00 39.76 3.32
5267 7956 8.943594 TTCCTATTAATTGTAGGTTGGTTGTT 57.056 30.769 14.74 0.00 39.76 2.83
5269 7958 9.452287 TCCTATTAATTGTAGGTTGGTTGTTAC 57.548 33.333 14.74 0.00 39.76 2.50
5270 7959 9.233649 CCTATTAATTGTAGGTTGGTTGTTACA 57.766 33.333 9.47 0.00 35.12 2.41
5273 7962 6.969993 AATTGTAGGTTGGTTGTTACATGT 57.030 33.333 2.69 2.69 0.00 3.21
5274 7963 6.969993 ATTGTAGGTTGGTTGTTACATGTT 57.030 33.333 2.30 0.00 0.00 2.71
5275 7964 5.759506 TGTAGGTTGGTTGTTACATGTTG 57.240 39.130 2.30 0.00 0.00 3.33
5276 7965 3.726291 AGGTTGGTTGTTACATGTTGC 57.274 42.857 2.30 0.00 0.00 4.17
5277 7966 3.027412 AGGTTGGTTGTTACATGTTGCA 58.973 40.909 2.30 0.15 0.00 4.08
5278 7967 3.640967 AGGTTGGTTGTTACATGTTGCAT 59.359 39.130 2.30 0.00 0.00 3.96
5279 7968 4.830046 AGGTTGGTTGTTACATGTTGCATA 59.170 37.500 2.30 0.00 0.00 3.14
5280 7969 5.480073 AGGTTGGTTGTTACATGTTGCATAT 59.520 36.000 2.30 0.00 0.00 1.78
5281 7970 5.804979 GGTTGGTTGTTACATGTTGCATATC 59.195 40.000 2.30 0.00 0.00 1.63
5282 7971 6.385843 GTTGGTTGTTACATGTTGCATATCA 58.614 36.000 2.30 0.00 0.00 2.15
5283 7972 6.581171 TGGTTGTTACATGTTGCATATCAA 57.419 33.333 2.30 0.00 0.00 2.57
5284 7973 6.986250 TGGTTGTTACATGTTGCATATCAAA 58.014 32.000 2.30 0.00 36.26 2.69
5285 7974 7.609960 TGGTTGTTACATGTTGCATATCAAAT 58.390 30.769 2.30 0.00 36.26 2.32
5286 7975 8.093307 TGGTTGTTACATGTTGCATATCAAATT 58.907 29.630 2.30 0.00 36.26 1.82
5287 7976 8.934825 GGTTGTTACATGTTGCATATCAAATTT 58.065 29.630 2.30 0.00 36.26 1.82
5288 7977 9.956797 GTTGTTACATGTTGCATATCAAATTTC 57.043 29.630 2.30 0.00 36.26 2.17
5289 7978 9.702494 TTGTTACATGTTGCATATCAAATTTCA 57.298 25.926 2.30 0.00 36.26 2.69
5290 7979 9.138062 TGTTACATGTTGCATATCAAATTTCAC 57.862 29.630 2.30 0.00 36.26 3.18
5291 7980 9.138062 GTTACATGTTGCATATCAAATTTCACA 57.862 29.630 2.30 0.00 36.26 3.58
5292 7981 7.585286 ACATGTTGCATATCAAATTTCACAC 57.415 32.000 0.00 0.00 36.26 3.82
5293 7982 7.153315 ACATGTTGCATATCAAATTTCACACA 58.847 30.769 0.00 0.00 36.26 3.72
5294 7983 7.820386 ACATGTTGCATATCAAATTTCACACAT 59.180 29.630 0.00 0.00 36.26 3.21
5295 7984 9.303537 CATGTTGCATATCAAATTTCACACATA 57.696 29.630 0.00 0.00 36.26 2.29
5310 7999 9.851686 ATTTCACACATATAGAAAAGATAGCCA 57.148 29.630 0.00 0.00 35.20 4.75
5311 8000 9.679661 TTTCACACATATAGAAAAGATAGCCAA 57.320 29.630 0.00 0.00 0.00 4.52
5312 8001 9.851686 TTCACACATATAGAAAAGATAGCCAAT 57.148 29.630 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 1.376683 CTCGGGTTTGCCGGATGAA 60.377 57.895 5.05 0.00 42.19 2.57
31 32 0.101399 CCTTGTCATCTCGGTCTCGG 59.899 60.000 0.00 0.00 36.95 4.63
47 48 1.925972 GAGCCCCTTCACCTCCCTT 60.926 63.158 0.00 0.00 0.00 3.95
72 73 2.769663 ACTTTGGGGTTTTGGAGGTTTC 59.230 45.455 0.00 0.00 0.00 2.78
87 88 2.355009 GCTGGTGCGCAACTTTGG 60.355 61.111 28.12 14.61 0.00 3.28
91 92 3.289834 CTTGGCTGGTGCGCAACT 61.290 61.111 28.12 0.00 40.82 3.16
114 115 0.179108 GTCATCTAGGTGGCGGTGTC 60.179 60.000 2.43 0.00 0.00 3.67
129 130 5.361285 GTGGTAGGTAGTCATCTCTTGTCAT 59.639 44.000 0.00 0.00 0.00 3.06
153 154 0.243636 GCTCCGAAAACCATGTTGGG 59.756 55.000 0.00 0.00 43.37 4.12
176 177 2.444624 CGTTGTGGATGTCGGAGCG 61.445 63.158 0.00 0.00 0.00 5.03
207 209 1.517361 CATCGAGTAGGCTGGTGCA 59.483 57.895 0.00 0.00 41.91 4.57
212 214 0.824109 TTGGACCATCGAGTAGGCTG 59.176 55.000 0.00 0.00 0.00 4.85
324 328 2.676839 GTCGTGAGAGTCGGACTATTCA 59.323 50.000 11.27 14.52 43.49 2.57
422 427 5.009631 TGCTAAATGCCAAGTAATGACAGT 58.990 37.500 0.00 0.00 42.00 3.55
448 458 2.508891 GCTTGATGTCCGCGTCTCG 61.509 63.158 4.92 0.00 38.08 4.04
449 459 2.167861 GGCTTGATGTCCGCGTCTC 61.168 63.158 4.92 0.00 0.00 3.36
456 466 0.250081 GATCGGGAGGCTTGATGTCC 60.250 60.000 3.05 0.00 0.00 4.02
495 505 4.067192 AGGTTCAAATTTTGGCTGATTGC 58.933 39.130 9.18 0.00 41.94 3.56
600 611 2.872557 CGTCATGCCAGTTGCCAG 59.127 61.111 0.00 0.00 40.16 4.85
601 612 3.364441 GCGTCATGCCAGTTGCCA 61.364 61.111 0.00 0.00 40.16 4.92
649 660 2.755952 TAGATAGGTGAGGCTGCTGA 57.244 50.000 0.00 0.00 0.00 4.26
750 761 2.124860 GGGGGTGTACATGGCGAC 60.125 66.667 0.00 0.00 0.00 5.19
762 773 2.943265 AAGCTGGATGCAGGGGGT 60.943 61.111 16.65 0.00 45.94 4.95
765 776 1.664321 GCTTCAAGCTGGATGCAGGG 61.664 60.000 21.11 0.00 45.94 4.45
881 895 2.743718 CCGGGTGAACTGCTGACT 59.256 61.111 0.00 0.00 0.00 3.41
882 896 2.185310 ATCCCGGGTGAACTGCTGAC 62.185 60.000 22.86 0.00 0.00 3.51
958 972 0.464735 TTGGTCGAACAGTTGGTGGG 60.465 55.000 2.09 0.00 0.00 4.61
1021 1035 0.535553 GCGACGAGGAGGAGGAGTAT 60.536 60.000 0.00 0.00 0.00 2.12
1023 1037 2.438795 GCGACGAGGAGGAGGAGT 60.439 66.667 0.00 0.00 0.00 3.85
1101 1115 2.978824 GCGTAGGAGTTGGCCTCA 59.021 61.111 3.32 0.00 42.40 3.86
1329 1343 1.153349 GACCTGCGGGAAGATGGTC 60.153 63.158 21.41 0.00 40.05 4.02
1596 1610 1.756408 CGGAGAGCATCATCCTGCCT 61.756 60.000 0.00 0.00 43.33 4.75
1671 1685 1.066143 ACCTCGGCATTGAAGGTGTAG 60.066 52.381 5.36 0.00 0.00 2.74
1763 1780 7.069331 TCCCGAAAAATCAGCATTGGTTAATAT 59.931 33.333 0.00 0.00 0.00 1.28
1767 1784 4.082845 TCCCGAAAAATCAGCATTGGTTA 58.917 39.130 0.00 0.00 0.00 2.85
1768 1785 2.896685 TCCCGAAAAATCAGCATTGGTT 59.103 40.909 0.00 0.00 0.00 3.67
1770 1787 3.056607 AGTTCCCGAAAAATCAGCATTGG 60.057 43.478 0.00 0.00 0.00 3.16
1869 1952 2.577700 AGAATCTGTACGCGATCCTCT 58.422 47.619 15.93 1.87 0.00 3.69
1909 1995 4.344968 TGATACATGATACACCCACTCTGG 59.655 45.833 0.00 0.00 37.25 3.86
2091 2186 5.574891 TGCGCATTTACCTATCAACAATT 57.425 34.783 5.66 0.00 0.00 2.32
2099 2194 4.814234 TCGAAATCTTGCGCATTTACCTAT 59.186 37.500 12.75 0.00 0.00 2.57
2156 2251 1.696097 AACTTGCACGACCCTCCTGT 61.696 55.000 0.00 0.00 0.00 4.00
2224 2319 7.733969 TCTAATCTTCTGCAGCAGATCTTTAT 58.266 34.615 25.93 14.33 40.39 1.40
2249 2344 5.487861 ACCCTTTAAATCCCCATTCATCT 57.512 39.130 0.00 0.00 0.00 2.90
2285 2380 9.822876 GCACATGCAGTAGAGAACAACTCAAAG 62.823 44.444 0.00 0.00 43.34 2.77
2286 2381 8.159645 GCACATGCAGTAGAGAACAACTCAAA 62.160 42.308 0.00 0.00 43.34 2.69
2288 2383 5.329948 GCACATGCAGTAGAGAACAACTCA 61.330 45.833 0.00 0.00 43.34 3.41
2289 2384 3.124297 GCACATGCAGTAGAGAACAACTC 59.876 47.826 0.00 0.00 42.27 3.01
2346 2446 6.867662 AAAAGGAAGCACCGATATTATGAG 57.132 37.500 0.00 0.00 44.74 2.90
2351 2451 4.157840 GGACAAAAAGGAAGCACCGATATT 59.842 41.667 0.00 0.00 44.74 1.28
2356 2456 1.028905 TGGACAAAAAGGAAGCACCG 58.971 50.000 0.00 0.00 44.74 4.94
2365 2465 4.226761 GCGATGTACCTTTGGACAAAAAG 58.773 43.478 0.00 0.00 36.99 2.27
2375 2475 4.333649 CACAATCAGATGCGATGTACCTTT 59.666 41.667 0.00 0.00 0.00 3.11
2387 2487 1.395954 CCACAGCGTCACAATCAGATG 59.604 52.381 0.00 0.00 0.00 2.90
2448 2548 6.018669 CCTTAAGAACAATCGCTACTGAATCC 60.019 42.308 3.36 0.00 0.00 3.01
2583 2683 7.090173 TGGAGTTCACATTTGCTTTTTATAGC 58.910 34.615 0.00 0.00 41.59 2.97
2593 2693 5.773239 CATGAAATGGAGTTCACATTTGC 57.227 39.130 7.98 2.16 45.60 3.68
2613 2768 6.566197 CTGAAAGCAGAAAGTAGAAACCAT 57.434 37.500 0.00 0.00 45.17 3.55
2661 2818 4.497291 TTCTAATTCCGGCAAGGTGTAT 57.503 40.909 0.00 0.00 41.99 2.29
2771 2929 6.099557 ACATCCATTCCTTGAAAAACAGGAAA 59.900 34.615 4.78 0.00 38.37 3.13
3186 3344 8.863872 ACAAAGTGAGGCTTACATTAGTTTAT 57.136 30.769 12.29 0.00 36.17 1.40
3460 3618 4.217550 GGCTTCTTTGTTACACTGGCAATA 59.782 41.667 0.00 0.00 0.00 1.90
3508 3666 0.036671 AAGAAACATCGACGGGACCC 60.037 55.000 0.00 0.00 0.00 4.46
3514 3672 2.570468 TCGCAAAAGAAACATCGACG 57.430 45.000 0.00 0.00 0.00 5.12
3529 3687 2.183478 TTCTTGGATCTTGCTTCGCA 57.817 45.000 0.00 0.00 36.47 5.10
3577 3735 3.172106 TGTCCGCCAACTTCCCCA 61.172 61.111 0.00 0.00 0.00 4.96
3592 3750 4.731313 AAGAATTTCTGGGAGAACCTGT 57.269 40.909 0.00 0.00 41.11 4.00
3595 3753 5.304357 TCCAAAAAGAATTTCTGGGAGAACC 59.696 40.000 0.00 0.00 37.28 3.62
3616 3774 3.099905 CTCACCTGGATTGTACTCTCCA 58.900 50.000 13.98 13.98 39.23 3.86
3682 3840 7.275123 GTGTACCAGATTAGCTAACAGTACAAC 59.725 40.741 25.68 19.74 40.13 3.32
3760 3921 0.528901 TATCGGTCATTGGAACCGCG 60.529 55.000 11.09 0.00 45.66 6.46
3805 3966 1.668826 ATGTTCTTCCAGGGTAGCCA 58.331 50.000 14.62 0.00 0.00 4.75
4114 4275 3.181282 GGGAAGCCAGGAACCCTT 58.819 61.111 8.32 0.00 39.28 3.95
4171 4332 1.971167 GTTGGTTGATCTGCCGGCA 60.971 57.895 30.59 30.59 0.00 5.69
4455 5000 4.994852 ACTGCGTCAAATTTACTGCTTCTA 59.005 37.500 8.55 0.00 0.00 2.10
4518 5063 1.491127 CGATTTGCGTGCACTCGAA 59.509 52.632 17.64 14.89 34.97 3.71
4519 5064 3.010585 GCGATTTGCGTGCACTCGA 62.011 57.895 24.37 10.98 43.41 4.04
4520 5065 2.571611 GCGATTTGCGTGCACTCG 60.572 61.111 18.06 18.06 43.41 4.18
4535 5080 3.805422 TCTGCCTAAAAATATGGTACGCG 59.195 43.478 3.53 3.53 0.00 6.01
4567 7229 1.308783 GGGCTTACAGCACTTCCTGC 61.309 60.000 0.00 0.00 42.59 4.85
4603 7265 1.271840 TGGGTGTGTGGATCCTAGCC 61.272 60.000 14.23 15.06 0.00 3.93
4672 7334 2.568623 ACAAACTTGAAGATCGGCCT 57.431 45.000 0.00 0.00 0.00 5.19
4749 7416 0.179004 AGAAATGTGCGGGTGTCCAA 60.179 50.000 0.00 0.00 0.00 3.53
4761 7428 2.030805 GCTCGTGGAAGCAAAGAAATGT 60.031 45.455 0.00 0.00 42.05 2.71
4766 7433 0.320771 GGAGCTCGTGGAAGCAAAGA 60.321 55.000 7.83 0.00 45.00 2.52
4767 7434 0.603707 TGGAGCTCGTGGAAGCAAAG 60.604 55.000 7.83 0.00 45.00 2.77
4768 7435 0.179032 TTGGAGCTCGTGGAAGCAAA 60.179 50.000 7.83 0.00 45.00 3.68
4769 7436 0.603707 CTTGGAGCTCGTGGAAGCAA 60.604 55.000 7.83 3.47 45.00 3.91
4770 7437 1.004560 CTTGGAGCTCGTGGAAGCA 60.005 57.895 7.83 0.00 45.00 3.91
4771 7438 2.394563 GCTTGGAGCTCGTGGAAGC 61.395 63.158 17.35 17.35 42.82 3.86
4772 7439 0.603707 TTGCTTGGAGCTCGTGGAAG 60.604 55.000 7.83 8.16 42.97 3.46
4773 7440 0.036732 ATTGCTTGGAGCTCGTGGAA 59.963 50.000 7.83 8.03 42.97 3.53
4774 7441 0.674581 CATTGCTTGGAGCTCGTGGA 60.675 55.000 7.83 0.00 42.97 4.02
4775 7442 0.674581 TCATTGCTTGGAGCTCGTGG 60.675 55.000 7.83 0.82 42.97 4.94
4776 7443 0.725686 CTCATTGCTTGGAGCTCGTG 59.274 55.000 7.83 1.17 42.97 4.35
4777 7444 0.610174 TCTCATTGCTTGGAGCTCGT 59.390 50.000 7.83 0.00 42.97 4.18
4778 7445 1.730501 TTCTCATTGCTTGGAGCTCG 58.269 50.000 7.83 0.00 42.97 5.03
4779 7446 3.065095 GTCATTCTCATTGCTTGGAGCTC 59.935 47.826 4.71 4.71 42.97 4.09
4780 7447 3.015327 GTCATTCTCATTGCTTGGAGCT 58.985 45.455 1.29 0.00 42.97 4.09
4781 7448 3.015327 AGTCATTCTCATTGCTTGGAGC 58.985 45.455 0.00 0.00 42.82 4.70
4782 7449 4.272991 GCTAGTCATTCTCATTGCTTGGAG 59.727 45.833 0.00 0.00 0.00 3.86
4783 7450 4.194640 GCTAGTCATTCTCATTGCTTGGA 58.805 43.478 0.00 0.00 0.00 3.53
4784 7451 3.002042 CGCTAGTCATTCTCATTGCTTGG 59.998 47.826 0.00 0.00 0.00 3.61
4785 7452 3.867493 TCGCTAGTCATTCTCATTGCTTG 59.133 43.478 0.00 0.00 0.00 4.01
4786 7453 4.128925 TCGCTAGTCATTCTCATTGCTT 57.871 40.909 0.00 0.00 0.00 3.91
4787 7454 3.808466 TCGCTAGTCATTCTCATTGCT 57.192 42.857 0.00 0.00 0.00 3.91
4788 7455 4.509230 TGATTCGCTAGTCATTCTCATTGC 59.491 41.667 0.00 0.00 0.00 3.56
4789 7456 6.594284 TTGATTCGCTAGTCATTCTCATTG 57.406 37.500 0.00 0.00 0.00 2.82
4790 7457 6.238320 GCTTTGATTCGCTAGTCATTCTCATT 60.238 38.462 0.00 0.00 0.00 2.57
4791 7458 5.236047 GCTTTGATTCGCTAGTCATTCTCAT 59.764 40.000 0.00 0.00 0.00 2.90
4792 7459 4.568359 GCTTTGATTCGCTAGTCATTCTCA 59.432 41.667 0.00 0.00 0.00 3.27
4793 7460 4.808364 AGCTTTGATTCGCTAGTCATTCTC 59.192 41.667 0.00 0.00 34.11 2.87
4843 7511 3.065095 GTCATTCTCATTGCTTGGAGCTC 59.935 47.826 4.71 4.71 42.97 4.09
4992 7681 1.327764 GTTTACGCTAGACAGGCATGC 59.672 52.381 9.90 9.90 0.00 4.06
5027 7716 3.498676 GAGGACACTCTTGACCACG 57.501 57.895 0.00 0.00 39.79 4.94
5077 7766 2.201732 CCGACATGGATTACAAGACGG 58.798 52.381 0.92 0.92 45.88 4.79
5115 7804 2.017782 GCTCTCCAGTATCGTGTCTGA 58.982 52.381 0.00 0.00 34.02 3.27
5178 7867 7.978975 TCAACGAAAAGGAATGTTCTCATTTTT 59.021 29.630 0.00 0.00 43.33 1.94
5179 7868 7.488322 TCAACGAAAAGGAATGTTCTCATTTT 58.512 30.769 0.00 0.00 43.33 1.82
5180 7869 7.038154 TCAACGAAAAGGAATGTTCTCATTT 57.962 32.000 0.00 0.00 43.33 2.32
5181 7870 6.633500 TCAACGAAAAGGAATGTTCTCATT 57.367 33.333 0.00 0.00 45.57 2.57
5182 7871 6.824305 ATCAACGAAAAGGAATGTTCTCAT 57.176 33.333 0.00 0.00 35.59 2.90
5183 7872 6.934645 AGTATCAACGAAAAGGAATGTTCTCA 59.065 34.615 0.00 0.00 0.00 3.27
5184 7873 7.365840 AGTATCAACGAAAAGGAATGTTCTC 57.634 36.000 0.00 0.00 0.00 2.87
5185 7874 9.449719 AATAGTATCAACGAAAAGGAATGTTCT 57.550 29.630 0.00 0.00 0.00 3.01
5188 7877 9.106070 GGTAATAGTATCAACGAAAAGGAATGT 57.894 33.333 0.00 0.00 0.00 2.71
5189 7878 9.104965 TGGTAATAGTATCAACGAAAAGGAATG 57.895 33.333 0.00 0.00 0.00 2.67
5190 7879 9.675464 TTGGTAATAGTATCAACGAAAAGGAAT 57.325 29.630 0.00 0.00 0.00 3.01
5191 7880 9.675464 ATTGGTAATAGTATCAACGAAAAGGAA 57.325 29.630 0.00 0.00 33.12 3.36
5218 7907 9.449719 GAAGGTATGAATAACCCAATATCGAAT 57.550 33.333 0.00 0.00 37.77 3.34
5219 7908 7.881232 GGAAGGTATGAATAACCCAATATCGAA 59.119 37.037 0.00 0.00 37.77 3.71
5220 7909 7.236847 AGGAAGGTATGAATAACCCAATATCGA 59.763 37.037 0.00 0.00 37.77 3.59
5221 7910 7.394816 AGGAAGGTATGAATAACCCAATATCG 58.605 38.462 0.00 0.00 37.77 2.92
5236 7925 9.284968 CCAACCTACAATTAATAGGAAGGTATG 57.715 37.037 17.85 10.02 41.70 2.39
5237 7926 9.010767 ACCAACCTACAATTAATAGGAAGGTAT 57.989 33.333 21.25 9.05 42.89 2.73
5238 7927 8.396619 ACCAACCTACAATTAATAGGAAGGTA 57.603 34.615 21.25 2.18 42.89 3.08
5239 7928 7.280044 ACCAACCTACAATTAATAGGAAGGT 57.720 36.000 17.85 18.61 41.70 3.50
5240 7929 7.614192 ACAACCAACCTACAATTAATAGGAAGG 59.386 37.037 17.85 18.16 41.70 3.46
5241 7930 8.575649 ACAACCAACCTACAATTAATAGGAAG 57.424 34.615 17.85 10.93 41.70 3.46
5242 7931 8.943594 AACAACCAACCTACAATTAATAGGAA 57.056 30.769 17.85 0.00 41.70 3.36
5243 7932 9.452287 GTAACAACCAACCTACAATTAATAGGA 57.548 33.333 17.85 0.00 41.70 2.94
5244 7933 9.233649 TGTAACAACCAACCTACAATTAATAGG 57.766 33.333 11.71 11.71 44.29 2.57
5247 7936 9.084533 ACATGTAACAACCAACCTACAATTAAT 57.915 29.630 0.00 0.00 0.00 1.40
5248 7937 8.466617 ACATGTAACAACCAACCTACAATTAA 57.533 30.769 0.00 0.00 0.00 1.40
5249 7938 8.353684 CAACATGTAACAACCAACCTACAATTA 58.646 33.333 0.00 0.00 0.00 1.40
5250 7939 6.969993 ACATGTAACAACCAACCTACAATT 57.030 33.333 0.00 0.00 0.00 2.32
5251 7940 6.737346 GCAACATGTAACAACCAACCTACAAT 60.737 38.462 0.00 0.00 0.00 2.71
5252 7941 5.450688 GCAACATGTAACAACCAACCTACAA 60.451 40.000 0.00 0.00 0.00 2.41
5253 7942 4.036971 GCAACATGTAACAACCAACCTACA 59.963 41.667 0.00 0.00 0.00 2.74
5254 7943 4.036971 TGCAACATGTAACAACCAACCTAC 59.963 41.667 0.00 0.00 0.00 3.18
5255 7944 4.207955 TGCAACATGTAACAACCAACCTA 58.792 39.130 0.00 0.00 0.00 3.08
5256 7945 3.027412 TGCAACATGTAACAACCAACCT 58.973 40.909 0.00 0.00 0.00 3.50
5257 7946 3.444703 TGCAACATGTAACAACCAACC 57.555 42.857 0.00 0.00 0.00 3.77
5258 7947 6.385843 TGATATGCAACATGTAACAACCAAC 58.614 36.000 0.00 0.00 0.00 3.77
5259 7948 6.581171 TGATATGCAACATGTAACAACCAA 57.419 33.333 0.00 0.00 0.00 3.67
5260 7949 6.581171 TTGATATGCAACATGTAACAACCA 57.419 33.333 0.00 0.00 0.00 3.67
5261 7950 8.477984 AATTTGATATGCAACATGTAACAACC 57.522 30.769 0.00 0.00 35.91 3.77
5262 7951 9.956797 GAAATTTGATATGCAACATGTAACAAC 57.043 29.630 0.00 0.00 35.91 3.32
5263 7952 9.702494 TGAAATTTGATATGCAACATGTAACAA 57.298 25.926 0.00 0.00 35.91 2.83
5264 7953 9.138062 GTGAAATTTGATATGCAACATGTAACA 57.862 29.630 0.00 0.13 35.91 2.41
5265 7954 9.138062 TGTGAAATTTGATATGCAACATGTAAC 57.862 29.630 0.00 0.00 35.91 2.50
5266 7955 9.138062 GTGTGAAATTTGATATGCAACATGTAA 57.862 29.630 0.00 0.00 35.91 2.41
5267 7956 8.302438 TGTGTGAAATTTGATATGCAACATGTA 58.698 29.630 0.00 0.00 35.91 2.29
5268 7957 7.153315 TGTGTGAAATTTGATATGCAACATGT 58.847 30.769 0.00 0.00 35.91 3.21
5269 7958 7.583860 TGTGTGAAATTTGATATGCAACATG 57.416 32.000 0.00 0.00 35.91 3.21
5284 7973 9.851686 TGGCTATCTTTTCTATATGTGTGAAAT 57.148 29.630 0.00 0.00 31.08 2.17
5285 7974 9.679661 TTGGCTATCTTTTCTATATGTGTGAAA 57.320 29.630 0.00 0.00 0.00 2.69
5286 7975 9.851686 ATTGGCTATCTTTTCTATATGTGTGAA 57.148 29.630 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.