Multiple sequence alignment - TraesCS2A01G147100

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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 TraesCS2A01G147100 chr2A 100.000 5127 0 0 1 5127 93931152 93926026 0.000000e+00 9468.0
1 TraesCS2A01G147100 chr2A 91.379 58 4 1 1483 1539 93929589 93929532 1.530000e-10 78.7
2 TraesCS2A01G147100 chr2A 91.379 58 4 1 1564 1621 93929670 93929614 1.530000e-10 78.7
3 TraesCS2A01G147100 chr2D 91.502 4695 293 44 1 4645 95414491 95409853 0.000000e+00 6362.0
4 TraesCS2A01G147100 chr2D 93.978 2441 123 18 2501 4925 185187764 185190196 0.000000e+00 3672.0
5 TraesCS2A01G147100 chr2D 86.149 953 107 16 3694 4626 95274791 95273844 0.000000e+00 1005.0
6 TraesCS2A01G147100 chr2D 85.541 906 90 18 3737 4628 95407211 95406333 0.000000e+00 909.0
7 TraesCS2A01G147100 chr2D 86.047 559 73 4 3600 4156 95186131 95185576 3.420000e-166 595.0
8 TraesCS2A01G147100 chr2D 85.306 490 62 5 2867 3353 95194736 95194254 9.910000e-137 497.0
9 TraesCS2A01G147100 chr2D 87.781 401 37 5 529 923 185006102 185006496 4.680000e-125 459.0
10 TraesCS2A01G147100 chr2D 89.041 365 35 5 2125 2486 185187418 185187780 1.010000e-121 448.0
11 TraesCS2A01G147100 chr2D 93.237 207 10 3 4925 5127 55260473 55260267 8.340000e-78 302.0
12 TraesCS2A01G147100 chr2D 85.766 274 32 4 4144 4412 95185551 95185280 3.020000e-72 283.0
13 TraesCS2A01G147100 chr2B 91.873 2424 156 25 1 2408 146905456 146903058 0.000000e+00 3347.0
14 TraesCS2A01G147100 chr2B 82.838 2051 255 46 2586 4595 146902861 146900867 0.000000e+00 1748.0
15 TraesCS2A01G147100 chr2B 86.210 1008 106 19 3638 4625 146772934 146771940 0.000000e+00 1061.0
16 TraesCS2A01G147100 chr2B 87.931 232 23 1 3232 3458 146773480 146773249 8.460000e-68 268.0
17 TraesCS2A01G147100 chr2B 84.615 91 12 2 4539 4627 146900871 146900781 7.070000e-14 89.8
18 TraesCS2A01G147100 chr2B 96.154 52 2 0 1564 1615 146903980 146903929 9.150000e-13 86.1
19 TraesCS2A01G147100 chr1D 96.154 208 5 3 4923 5127 38548255 38548048 2.290000e-88 337.0
20 TraesCS2A01G147100 chr1D 92.453 212 12 4 4919 5127 438869309 438869519 3.000000e-77 300.0
21 TraesCS2A01G147100 chr1D 91.981 212 12 4 4919 5127 438935111 438935320 5.020000e-75 292.0
22 TraesCS2A01G147100 chr7D 94.175 206 8 4 4926 5127 197853163 197853368 1.390000e-80 311.0
23 TraesCS2A01G147100 chr4A 94.089 203 11 1 4926 5127 153667638 153667840 1.790000e-79 307.0
24 TraesCS2A01G147100 chr7B 93.659 205 10 3 4926 5127 596744122 596744326 2.320000e-78 303.0
25 TraesCS2A01G147100 chr7B 83.417 199 20 11 4660 4852 377009954 377010145 6.820000e-39 172.0
26 TraesCS2A01G147100 chr3B 93.659 205 9 4 4926 5127 555115349 555115552 2.320000e-78 303.0
27 TraesCS2A01G147100 chr4D 93.204 206 10 4 4925 5127 195053804 195053600 3.000000e-77 300.0
28 TraesCS2A01G147100 chr4D 82.941 170 24 5 4689 4854 401372801 401372969 1.150000e-31 148.0
29 TraesCS2A01G147100 chr6B 84.153 183 26 2 4676 4855 21353769 21353951 1.900000e-39 174.0
30 TraesCS2A01G147100 chr6B 87.273 110 12 1 4747 4854 639392054 639392163 1.940000e-24 124.0
31 TraesCS2A01G147100 chr6B 82.203 118 18 2 4676 4790 311551180 311551063 1.170000e-16 99.0
32 TraesCS2A01G147100 chr5A 83.889 180 26 2 4676 4852 463602121 463602300 8.830000e-38 169.0
33 TraesCS2A01G147100 chr5B 82.840 169 26 3 4689 4854 458630305 458630473 1.150000e-31 148.0
34 TraesCS2A01G147100 chr5B 83.871 155 16 7 4676 4823 304688272 304688424 6.920000e-29 139.0
35 TraesCS2A01G147100 chr7A 81.503 173 27 5 4689 4857 170075104 170075275 2.490000e-28 137.0


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 TraesCS2A01G147100 chr2A 93926026 93931152 5126 True 3208.466667 9468 94.252667 1 5127 3 chr2A.!!$R1 5126
1 TraesCS2A01G147100 chr2D 95406333 95414491 8158 True 3635.500000 6362 88.521500 1 4645 2 chr2D.!!$R5 4644
2 TraesCS2A01G147100 chr2D 185187418 185190196 2778 False 2060.000000 3672 91.509500 2125 4925 2 chr2D.!!$F2 2800
3 TraesCS2A01G147100 chr2D 95273844 95274791 947 True 1005.000000 1005 86.149000 3694 4626 1 chr2D.!!$R3 932
4 TraesCS2A01G147100 chr2D 95185280 95186131 851 True 439.000000 595 85.906500 3600 4412 2 chr2D.!!$R4 812
5 TraesCS2A01G147100 chr2B 146900781 146905456 4675 True 1317.725000 3347 88.870000 1 4627 4 chr2B.!!$R2 4626
6 TraesCS2A01G147100 chr2B 146771940 146773480 1540 True 664.500000 1061 87.070500 3232 4625 2 chr2B.!!$R1 1393

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
686 695 0.037697 TCTTACAAGCGCGATGGTGT 60.038 50.0 16.04 11.06 0.00 4.16 F
1246 1268 0.179215 CGATTTCCACAAGCTCGTGC 60.179 55.0 0.00 0.07 35.47 5.34 F
1739 1763 0.935898 CATGGAAGATGACTCGCTGC 59.064 55.0 0.00 0.00 0.00 5.25 F
2936 3022 0.940833 TGACGAGAATGCGCAAACAA 59.059 45.0 17.11 0.00 33.86 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2249 2273 1.271271 GCTCCATTCATGAGGCTAGGG 60.271 57.143 0.00 0.0 0.00 3.53 R
2401 2426 1.585267 TTTATGCGCAGTGTGCCTGG 61.585 55.000 25.10 0.0 41.12 4.45 R
3055 3141 5.008331 AGCATGGATTCATACAATAGGCAG 58.992 41.667 0.00 0.0 31.33 4.85 R
4162 4461 0.604578 CTCCGACGGTGGAAAAGGTA 59.395 55.000 14.79 0.0 37.64 3.08 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
39 40 6.458751 CCATACCAACATCTGAACTATTGCAC 60.459 42.308 0.00 0.00 0.00 4.57
59 63 4.696455 CACATAGTGTGCATACCAGATCA 58.304 43.478 10.29 0.00 41.89 2.92
60 64 5.303165 CACATAGTGTGCATACCAGATCAT 58.697 41.667 10.29 0.00 41.89 2.45
78 82 2.241941 TCATATGCAGTCACCACCCAAT 59.758 45.455 0.00 0.00 0.00 3.16
87 91 5.622233 GCAGTCACCACCCAATAATTCTTTC 60.622 44.000 0.00 0.00 0.00 2.62
93 97 4.081142 CCACCCAATAATTCTTTCCAACCC 60.081 45.833 0.00 0.00 0.00 4.11
156 164 0.598065 CAAACCTTTTCTCCCAGCGG 59.402 55.000 0.00 0.00 0.00 5.52
210 218 4.299547 AGCTGCGACTCGTTGGCA 62.300 61.111 0.00 0.00 35.07 4.92
402 410 2.022129 GCCGTTATCCATCCTCGCG 61.022 63.158 0.00 0.00 0.00 5.87
544 553 1.065345 GGTTAAGGGGAGCTTCAGTCC 60.065 57.143 0.00 0.00 0.00 3.85
616 625 0.108615 AGTCATGCACAGGCGAGTAC 60.109 55.000 0.00 0.00 45.35 2.73
650 659 1.833630 CCCTCTATCAGTGCTGTTCCA 59.166 52.381 0.00 0.00 0.00 3.53
652 661 2.158986 CCTCTATCAGTGCTGTTCCAGG 60.159 54.545 0.00 0.00 31.21 4.45
681 690 3.053455 GCTCTATTCTTACAAGCGCGAT 58.947 45.455 12.10 0.00 0.00 4.58
684 693 2.024176 ATTCTTACAAGCGCGATGGT 57.976 45.000 12.10 11.10 0.00 3.55
686 695 0.037697 TCTTACAAGCGCGATGGTGT 60.038 50.000 16.04 11.06 0.00 4.16
690 699 2.434884 AAGCGCGATGGTGTGGAG 60.435 61.111 12.10 0.00 0.00 3.86
993 1006 0.762418 TCCCTCGACCAAGAAGCAAA 59.238 50.000 0.00 0.00 0.00 3.68
1083 1096 0.464013 ACGAGGACGACGAGGATGAT 60.464 55.000 0.00 0.00 42.66 2.45
1246 1268 0.179215 CGATTTCCACAAGCTCGTGC 60.179 55.000 0.00 0.07 35.47 5.34
1272 1294 0.974010 TCGGGCTGGATTTCTACGGT 60.974 55.000 0.00 0.00 0.00 4.83
1345 1367 4.812476 CTTCCATGACCGCGCCGA 62.812 66.667 0.00 0.00 0.00 5.54
1346 1368 4.812476 TTCCATGACCGCGCCGAG 62.812 66.667 0.00 0.00 0.00 4.63
1370 1392 2.738846 GCTTCTCAGCTCGATTGTTTCA 59.261 45.455 0.00 0.00 43.51 2.69
1372 1394 3.667497 TCTCAGCTCGATTGTTTCACT 57.333 42.857 0.00 0.00 0.00 3.41
1388 1410 2.727777 TCACTATCGATTACGCACAGC 58.272 47.619 1.71 0.00 39.58 4.40
1555 1577 6.841601 TGGGCCTTATGATTGATATATAGGC 58.158 40.000 4.53 9.51 37.93 3.93
1562 1584 5.921962 TGATTGATATATAGGCTGCGTCT 57.078 39.130 0.00 0.00 0.00 4.18
1567 1589 6.561737 TGATATATAGGCTGCGTCTATAGC 57.438 41.667 12.93 12.93 36.37 2.97
1582 1605 7.812191 TGCGTCTATAGCAATTTTGTTGAATTT 59.188 29.630 0.00 0.00 42.18 1.82
1658 1682 2.680339 GAGAATAAGTGTTGGAGCTGCC 59.320 50.000 1.53 0.00 37.10 4.85
1705 1729 3.083349 CCATGGGCGGAGGACTCA 61.083 66.667 2.85 0.00 0.00 3.41
1714 1738 1.067821 GCGGAGGACTCATACCTGAAG 59.932 57.143 1.32 0.00 37.93 3.02
1739 1763 0.935898 CATGGAAGATGACTCGCTGC 59.064 55.000 0.00 0.00 0.00 5.25
2065 2089 9.288576 TCTTATAGTTCATTTGGCATTCATAGG 57.711 33.333 0.00 0.00 0.00 2.57
2132 2156 9.066892 TGATTAATAGGTTCCTTCAACATATGC 57.933 33.333 1.58 0.00 40.35 3.14
2174 2198 8.963725 CACATATGGGCTATTATGATTCACAAT 58.036 33.333 7.80 0.00 0.00 2.71
2249 2273 2.229784 CAGAGATGCCCTTTTGGACAAC 59.770 50.000 0.00 0.00 44.07 3.32
2401 2426 2.435059 GCAGTCTCGGGTTCAGCC 60.435 66.667 0.00 0.00 0.00 4.85
2411 2436 2.113986 GTTCAGCCCAGGCACACT 59.886 61.111 12.03 0.00 44.88 3.55
2562 2598 5.736951 AGCTTGTTAGTGAGAGTTCTGAT 57.263 39.130 0.00 0.00 0.00 2.90
2574 2610 9.136323 AGTGAGAGTTCTGATTTGGTTTAAATT 57.864 29.630 0.00 0.00 39.06 1.82
2662 2745 6.506538 AGGCTGGTCTTTAACTGATATCAT 57.493 37.500 5.72 0.00 0.00 2.45
2693 2776 8.506168 TTAATAGTGAATTGTCATTCTGTCCC 57.494 34.615 0.00 0.00 39.81 4.46
2839 2925 6.371595 TTTCCCAATCATAATGCCAAACTT 57.628 33.333 0.00 0.00 0.00 2.66
2894 2980 6.149308 CACAGTTATAGAACAAATGCAGGTGA 59.851 38.462 2.62 0.00 38.10 4.02
2930 3016 6.128661 TGGTTTATTATATGACGAGAATGCGC 60.129 38.462 0.00 0.00 33.86 6.09
2936 3022 0.940833 TGACGAGAATGCGCAAACAA 59.059 45.000 17.11 0.00 33.86 2.83
2993 3079 3.726607 CATACCAAGGCTGAAGAGCTAG 58.273 50.000 0.00 0.00 45.44 3.42
3016 3102 6.896883 AGACCATAAAATAGTAGTTCCACCC 58.103 40.000 0.00 0.00 0.00 4.61
3055 3141 6.097839 TGTTAGTAAGTGAGTGGATGGGATAC 59.902 42.308 0.00 0.00 0.00 2.24
3191 3278 4.640201 GCTTGCCTATATTGTTTGTCTCCA 59.360 41.667 0.00 0.00 0.00 3.86
3265 3352 1.624391 GGGAGGGGTGGAACTAGCTTA 60.624 57.143 0.00 0.00 36.74 3.09
3829 4078 0.307760 GGTTTGACACTGGCTTCACG 59.692 55.000 0.00 0.00 0.00 4.35
3926 4183 3.322514 TTCACCTTTGAAGAGCCCG 57.677 52.632 0.00 0.00 36.79 6.13
4089 4348 0.182061 GGAATCAGCTCAGATGGCCA 59.818 55.000 8.56 8.56 0.00 5.36
4095 4354 1.077930 GCTCAGATGGCCAGAAGCA 60.078 57.895 13.05 0.00 46.50 3.91
4158 4457 3.071312 TGCCCTTGTGATGAAATTTTGCT 59.929 39.130 0.00 0.00 0.00 3.91
4162 4461 5.993441 CCCTTGTGATGAAATTTTGCTCTTT 59.007 36.000 0.00 0.00 0.00 2.52
4163 4462 7.153985 CCCTTGTGATGAAATTTTGCTCTTTA 58.846 34.615 0.00 0.00 0.00 1.85
4352 8189 2.826128 TCCTGTGAGATGTGTGTACCTC 59.174 50.000 0.00 0.00 0.00 3.85
4382 8219 3.370104 ACCCGGGCAAATTTGAATATCA 58.630 40.909 24.08 0.00 0.00 2.15
4695 8599 3.221771 TCTTGTACAATGCAAGGTGCTT 58.778 40.909 9.13 0.00 45.31 3.91
4712 8616 4.706962 GGTGCTTGGAGAAATAAATCAGGT 59.293 41.667 0.00 0.00 0.00 4.00
4742 8649 4.624015 ACACCGTGTTTATATGTATCGGG 58.376 43.478 0.00 0.00 40.60 5.14
4758 8665 1.752498 TCGGGCAGACGCTTAATTAGA 59.248 47.619 0.00 0.00 38.60 2.10
4762 8669 2.928116 GGCAGACGCTTAATTAGACGTT 59.072 45.455 13.84 4.64 36.96 3.99
4786 8693 7.406031 TTCTCTTGTAGAAATAGACATCGGT 57.594 36.000 0.00 0.00 41.35 4.69
4787 8694 6.796426 TCTCTTGTAGAAATAGACATCGGTG 58.204 40.000 0.00 0.00 0.00 4.94
4788 8695 5.348986 TCTTGTAGAAATAGACATCGGTGC 58.651 41.667 0.00 0.00 0.00 5.01
4793 8700 7.497595 TGTAGAAATAGACATCGGTGCTTTAT 58.502 34.615 0.00 0.00 0.00 1.40
4837 8744 4.664150 AACACCTCTCTAAGCATCTAGC 57.336 45.455 0.00 0.00 46.19 3.42
4851 8758 4.583871 GCATCTAGCATTGTATAAGGCCT 58.416 43.478 0.00 0.00 44.22 5.19
4855 8762 7.615403 CATCTAGCATTGTATAAGGCCTAAGA 58.385 38.462 5.16 6.88 44.22 2.10
4862 8769 7.283354 GCATTGTATAAGGCCTAAGAAAGAAGT 59.717 37.037 5.16 0.00 37.62 3.01
4906 8813 3.003793 GGAAGAAGTGGTTTGAAGCAGTC 59.996 47.826 3.97 2.10 38.99 3.51
4918 8825 0.037232 AAGCAGTCGTAGCCCTCAAC 60.037 55.000 0.00 0.00 0.00 3.18
4934 8841 3.839293 CTCAACGAGGAGTGTTAGAAGG 58.161 50.000 0.00 0.00 0.00 3.46
4935 8842 3.493334 TCAACGAGGAGTGTTAGAAGGA 58.507 45.455 0.00 0.00 0.00 3.36
4936 8843 3.506455 TCAACGAGGAGTGTTAGAAGGAG 59.494 47.826 0.00 0.00 0.00 3.69
4937 8844 3.436577 ACGAGGAGTGTTAGAAGGAGA 57.563 47.619 0.00 0.00 0.00 3.71
4938 8845 3.349022 ACGAGGAGTGTTAGAAGGAGAG 58.651 50.000 0.00 0.00 0.00 3.20
4939 8846 3.009253 ACGAGGAGTGTTAGAAGGAGAGA 59.991 47.826 0.00 0.00 0.00 3.10
4940 8847 3.625764 CGAGGAGTGTTAGAAGGAGAGAG 59.374 52.174 0.00 0.00 0.00 3.20
4941 8848 3.951680 GAGGAGTGTTAGAAGGAGAGAGG 59.048 52.174 0.00 0.00 0.00 3.69
4942 8849 3.028130 GGAGTGTTAGAAGGAGAGAGGG 58.972 54.545 0.00 0.00 0.00 4.30
4943 8850 3.309265 GGAGTGTTAGAAGGAGAGAGGGA 60.309 52.174 0.00 0.00 0.00 4.20
4944 8851 4.542697 GAGTGTTAGAAGGAGAGAGGGAT 58.457 47.826 0.00 0.00 0.00 3.85
4945 8852 4.954089 AGTGTTAGAAGGAGAGAGGGATT 58.046 43.478 0.00 0.00 0.00 3.01
4946 8853 4.714308 AGTGTTAGAAGGAGAGAGGGATTG 59.286 45.833 0.00 0.00 0.00 2.67
4947 8854 4.033709 TGTTAGAAGGAGAGAGGGATTGG 58.966 47.826 0.00 0.00 0.00 3.16
4948 8855 2.959421 AGAAGGAGAGAGGGATTGGT 57.041 50.000 0.00 0.00 0.00 3.67
4949 8856 2.476199 AGAAGGAGAGAGGGATTGGTG 58.524 52.381 0.00 0.00 0.00 4.17
4950 8857 1.488393 GAAGGAGAGAGGGATTGGTGG 59.512 57.143 0.00 0.00 0.00 4.61
4951 8858 0.719015 AGGAGAGAGGGATTGGTGGA 59.281 55.000 0.00 0.00 0.00 4.02
4952 8859 1.081174 AGGAGAGAGGGATTGGTGGAA 59.919 52.381 0.00 0.00 0.00 3.53
4953 8860 2.131023 GGAGAGAGGGATTGGTGGAAT 58.869 52.381 0.00 0.00 0.00 3.01
4954 8861 2.511637 GGAGAGAGGGATTGGTGGAATT 59.488 50.000 0.00 0.00 0.00 2.17
4955 8862 3.549794 GAGAGAGGGATTGGTGGAATTG 58.450 50.000 0.00 0.00 0.00 2.32
4956 8863 2.922283 AGAGAGGGATTGGTGGAATTGT 59.078 45.455 0.00 0.00 0.00 2.71
4957 8864 3.334881 AGAGAGGGATTGGTGGAATTGTT 59.665 43.478 0.00 0.00 0.00 2.83
4958 8865 3.434309 AGAGGGATTGGTGGAATTGTTG 58.566 45.455 0.00 0.00 0.00 3.33
4959 8866 3.165071 GAGGGATTGGTGGAATTGTTGT 58.835 45.455 0.00 0.00 0.00 3.32
4960 8867 3.578282 GAGGGATTGGTGGAATTGTTGTT 59.422 43.478 0.00 0.00 0.00 2.83
4961 8868 3.324556 AGGGATTGGTGGAATTGTTGTTG 59.675 43.478 0.00 0.00 0.00 3.33
4962 8869 3.070878 GGGATTGGTGGAATTGTTGTTGT 59.929 43.478 0.00 0.00 0.00 3.32
4963 8870 4.282195 GGGATTGGTGGAATTGTTGTTGTA 59.718 41.667 0.00 0.00 0.00 2.41
4964 8871 5.046663 GGGATTGGTGGAATTGTTGTTGTAT 60.047 40.000 0.00 0.00 0.00 2.29
4965 8872 6.463360 GGATTGGTGGAATTGTTGTTGTATT 58.537 36.000 0.00 0.00 0.00 1.89
4966 8873 6.368516 GGATTGGTGGAATTGTTGTTGTATTG 59.631 38.462 0.00 0.00 0.00 1.90
4967 8874 4.626042 TGGTGGAATTGTTGTTGTATTGC 58.374 39.130 0.00 0.00 0.00 3.56
4968 8875 4.343526 TGGTGGAATTGTTGTTGTATTGCT 59.656 37.500 0.00 0.00 0.00 3.91
4969 8876 5.163364 TGGTGGAATTGTTGTTGTATTGCTT 60.163 36.000 0.00 0.00 0.00 3.91
4970 8877 5.177327 GGTGGAATTGTTGTTGTATTGCTTG 59.823 40.000 0.00 0.00 0.00 4.01
4971 8878 5.982516 GTGGAATTGTTGTTGTATTGCTTGA 59.017 36.000 0.00 0.00 0.00 3.02
4972 8879 6.144402 GTGGAATTGTTGTTGTATTGCTTGAG 59.856 38.462 0.00 0.00 0.00 3.02
4973 8880 5.119125 GGAATTGTTGTTGTATTGCTTGAGC 59.881 40.000 0.00 0.00 42.50 4.26
4974 8881 3.641437 TGTTGTTGTATTGCTTGAGCC 57.359 42.857 0.00 0.00 41.18 4.70
4975 8882 3.221771 TGTTGTTGTATTGCTTGAGCCT 58.778 40.909 0.00 0.00 41.18 4.58
4976 8883 3.253188 TGTTGTTGTATTGCTTGAGCCTC 59.747 43.478 0.00 0.00 41.18 4.70
4977 8884 3.138884 TGTTGTATTGCTTGAGCCTCA 57.861 42.857 0.00 0.00 41.18 3.86
4978 8885 3.689347 TGTTGTATTGCTTGAGCCTCAT 58.311 40.909 0.00 0.00 41.18 2.90
4979 8886 3.441222 TGTTGTATTGCTTGAGCCTCATG 59.559 43.478 0.00 0.00 41.18 3.07
4980 8887 2.646930 TGTATTGCTTGAGCCTCATGG 58.353 47.619 9.39 0.96 41.18 3.66
4981 8888 1.952296 GTATTGCTTGAGCCTCATGGG 59.048 52.381 9.39 0.00 41.18 4.00
4998 8905 8.128322 CCTCATGGGCATATATATAGGAGTAC 57.872 42.308 8.56 0.00 0.00 2.73
4999 8906 7.730332 CCTCATGGGCATATATATAGGAGTACA 59.270 40.741 8.56 1.88 0.00 2.90
5000 8907 9.147732 CTCATGGGCATATATATAGGAGTACAA 57.852 37.037 8.56 0.00 0.00 2.41
5001 8908 9.674705 TCATGGGCATATATATAGGAGTACAAT 57.325 33.333 8.56 0.00 0.00 2.71
5002 8909 9.716531 CATGGGCATATATATAGGAGTACAATG 57.283 37.037 8.56 1.57 0.00 2.82
5003 8910 9.674705 ATGGGCATATATATAGGAGTACAATGA 57.325 33.333 8.56 0.00 0.00 2.57
5004 8911 8.924303 TGGGCATATATATAGGAGTACAATGAC 58.076 37.037 8.56 0.00 0.00 3.06
5005 8912 8.368668 GGGCATATATATAGGAGTACAATGACC 58.631 40.741 8.56 2.41 33.14 4.02
5006 8913 8.924303 GGCATATATATAGGAGTACAATGACCA 58.076 37.037 8.56 0.00 0.00 4.02
5012 8919 8.924511 ATATAGGAGTACAATGACCAATTTGG 57.075 34.615 14.02 14.02 45.02 3.28
5013 8920 5.255397 AGGAGTACAATGACCAATTTGGA 57.745 39.130 22.19 0.51 40.96 3.53
5014 8921 5.256474 AGGAGTACAATGACCAATTTGGAG 58.744 41.667 22.19 8.36 40.96 3.86
5015 8922 5.010282 GGAGTACAATGACCAATTTGGAGT 58.990 41.667 22.19 13.03 40.96 3.85
5016 8923 6.012858 AGGAGTACAATGACCAATTTGGAGTA 60.013 38.462 22.19 12.18 40.96 2.59
5017 8924 6.093633 GGAGTACAATGACCAATTTGGAGTAC 59.906 42.308 22.19 20.48 40.96 2.73
5018 8925 6.539173 AGTACAATGACCAATTTGGAGTACA 58.461 36.000 22.19 14.78 40.96 2.90
5019 8926 7.001674 AGTACAATGACCAATTTGGAGTACAA 58.998 34.615 22.19 1.38 40.96 2.41
5020 8927 6.331369 ACAATGACCAATTTGGAGTACAAG 57.669 37.500 22.19 13.39 40.96 3.16
5021 8928 6.068010 ACAATGACCAATTTGGAGTACAAGA 58.932 36.000 22.19 0.00 40.96 3.02
5022 8929 6.016276 ACAATGACCAATTTGGAGTACAAGAC 60.016 38.462 22.19 2.94 40.96 3.01
5023 8930 5.042463 TGACCAATTTGGAGTACAAGACA 57.958 39.130 22.19 5.12 40.96 3.41
5024 8931 5.441500 TGACCAATTTGGAGTACAAGACAA 58.558 37.500 22.19 0.00 40.96 3.18
5025 8932 5.530915 TGACCAATTTGGAGTACAAGACAAG 59.469 40.000 22.19 0.00 40.96 3.16
5026 8933 4.827284 ACCAATTTGGAGTACAAGACAAGG 59.173 41.667 22.19 0.00 40.96 3.61
5027 8934 4.321230 CCAATTTGGAGTACAAGACAAGGC 60.321 45.833 10.03 0.00 40.96 4.35
5028 8935 3.569194 TTTGGAGTACAAGACAAGGCA 57.431 42.857 0.00 0.00 40.82 4.75
5029 8936 2.839486 TGGAGTACAAGACAAGGCAG 57.161 50.000 0.00 0.00 0.00 4.85
5030 8937 1.347707 TGGAGTACAAGACAAGGCAGG 59.652 52.381 0.00 0.00 0.00 4.85
5031 8938 1.623811 GGAGTACAAGACAAGGCAGGA 59.376 52.381 0.00 0.00 0.00 3.86
5032 8939 2.038557 GGAGTACAAGACAAGGCAGGAA 59.961 50.000 0.00 0.00 0.00 3.36
5033 8940 3.067833 GAGTACAAGACAAGGCAGGAAC 58.932 50.000 0.00 0.00 0.00 3.62
5034 8941 2.438021 AGTACAAGACAAGGCAGGAACA 59.562 45.455 0.00 0.00 0.00 3.18
5035 8942 2.435372 ACAAGACAAGGCAGGAACAA 57.565 45.000 0.00 0.00 0.00 2.83
5036 8943 2.733956 ACAAGACAAGGCAGGAACAAA 58.266 42.857 0.00 0.00 0.00 2.83
5037 8944 3.299503 ACAAGACAAGGCAGGAACAAAT 58.700 40.909 0.00 0.00 0.00 2.32
5038 8945 3.319122 ACAAGACAAGGCAGGAACAAATC 59.681 43.478 0.00 0.00 0.00 2.17
5085 8992 8.706322 AATAAACATTATACTCAACATCCCCC 57.294 34.615 0.00 0.00 0.00 5.40
5100 9007 4.619227 CCCCGCAGTCACAACGGT 62.619 66.667 7.64 0.00 45.49 4.83
5101 9008 2.340809 CCCGCAGTCACAACGGTA 59.659 61.111 7.64 0.00 45.49 4.02
5102 9009 1.736645 CCCGCAGTCACAACGGTAG 60.737 63.158 7.64 0.00 45.49 3.18
5103 9010 2.380410 CCGCAGTCACAACGGTAGC 61.380 63.158 0.43 0.00 42.01 3.58
5104 9011 2.716828 CGCAGTCACAACGGTAGCG 61.717 63.158 13.69 13.69 37.68 4.26
5105 9012 1.372499 GCAGTCACAACGGTAGCGA 60.372 57.895 22.88 0.00 0.00 4.93
5106 9013 1.615107 GCAGTCACAACGGTAGCGAC 61.615 60.000 22.88 8.20 0.00 5.19
5107 9014 1.081641 AGTCACAACGGTAGCGACG 60.082 57.895 22.88 13.36 37.36 5.12
5108 9015 2.429571 TCACAACGGTAGCGACGC 60.430 61.111 22.88 13.03 34.00 5.19
5109 9016 2.731721 CACAACGGTAGCGACGCA 60.732 61.111 23.70 5.17 34.00 5.24
5110 9017 2.430244 ACAACGGTAGCGACGCAG 60.430 61.111 23.70 12.40 34.00 5.18
5111 9018 2.126618 CAACGGTAGCGACGCAGA 60.127 61.111 23.70 6.47 34.00 4.26
5112 9019 2.126580 AACGGTAGCGACGCAGAC 60.127 61.111 23.70 18.49 34.00 3.51
5122 9029 2.937026 GACGCAGACGATGAGACTG 58.063 57.895 0.00 0.00 43.93 3.51
5123 9030 0.524392 GACGCAGACGATGAGACTGG 60.524 60.000 0.00 0.00 43.93 4.00
5124 9031 0.960861 ACGCAGACGATGAGACTGGA 60.961 55.000 0.00 0.00 43.93 3.86
5125 9032 0.248417 CGCAGACGATGAGACTGGAG 60.248 60.000 0.00 0.00 43.93 3.86
5126 9033 1.098869 GCAGACGATGAGACTGGAGA 58.901 55.000 0.00 0.00 41.73 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 7.148356 ACACTATGTGCAATAGTTCAGATGTTG 60.148 37.037 14.86 7.05 36.98 3.33
21 22 6.881065 ACACTATGTGCAATAGTTCAGATGTT 59.119 34.615 14.86 0.00 36.98 2.71
39 40 7.535489 CATATGATCTGGTATGCACACTATG 57.465 40.000 0.00 0.00 0.00 2.23
50 51 3.966665 TGGTGACTGCATATGATCTGGTA 59.033 43.478 6.97 0.00 0.00 3.25
53 57 3.136763 GGTGGTGACTGCATATGATCTG 58.863 50.000 6.97 0.00 0.00 2.90
55 59 2.158769 TGGGTGGTGACTGCATATGATC 60.159 50.000 6.97 1.01 0.00 2.92
57 61 1.284313 TGGGTGGTGACTGCATATGA 58.716 50.000 6.97 0.00 0.00 2.15
58 62 2.127271 TTGGGTGGTGACTGCATATG 57.873 50.000 0.00 0.00 0.00 1.78
59 63 4.518278 TTATTGGGTGGTGACTGCATAT 57.482 40.909 0.00 0.00 0.00 1.78
60 64 4.518278 ATTATTGGGTGGTGACTGCATA 57.482 40.909 0.00 0.00 0.00 3.14
78 82 5.566469 AGTGATTCGGGTTGGAAAGAATTA 58.434 37.500 0.00 0.00 33.95 1.40
87 91 3.819564 TCTGATAGTGATTCGGGTTGG 57.180 47.619 0.00 0.00 0.00 3.77
93 97 4.567959 TGTGTGCAATCTGATAGTGATTCG 59.432 41.667 0.00 0.00 32.47 3.34
156 164 2.578495 CATTTGCTCTTCAGTGCGAAC 58.422 47.619 5.82 0.00 39.72 3.95
162 170 3.350833 GACCATCCATTTGCTCTTCAGT 58.649 45.455 0.00 0.00 0.00 3.41
210 218 1.693627 AGATGATCTCCGCGTACCTT 58.306 50.000 4.92 0.00 0.00 3.50
333 341 3.811702 CTGGAAGGGCTGGACAGA 58.188 61.111 3.00 0.00 0.00 3.41
390 398 3.933722 CAGGGCGCGAGGATGGAT 61.934 66.667 12.10 0.00 0.00 3.41
616 625 1.067582 GAGGGCGGAATCGTAGGTG 59.932 63.158 0.00 0.00 38.89 4.00
650 659 0.466555 AGAATAGAGCGTCGAGGCCT 60.467 55.000 25.27 22.07 0.00 5.19
652 661 2.033049 TGTAAGAATAGAGCGTCGAGGC 59.967 50.000 21.96 21.96 0.00 4.70
677 686 4.489771 CCCCCTCCACACCATCGC 62.490 72.222 0.00 0.00 0.00 4.58
696 705 5.408079 AGATCTCCTCTCATCTCCTCTTT 57.592 43.478 0.00 0.00 0.00 2.52
863 876 0.463620 ATCCGAAAGAGAGAGGCTGC 59.536 55.000 0.00 0.00 0.00 5.25
899 912 2.225467 GAATGAGGCTAGTGATTGGGC 58.775 52.381 0.00 0.00 0.00 5.36
900 913 2.158900 ACGAATGAGGCTAGTGATTGGG 60.159 50.000 0.00 0.00 0.00 4.12
901 914 3.126831 GACGAATGAGGCTAGTGATTGG 58.873 50.000 0.00 0.00 0.00 3.16
902 915 3.126831 GGACGAATGAGGCTAGTGATTG 58.873 50.000 0.00 0.00 0.00 2.67
903 916 2.766263 TGGACGAATGAGGCTAGTGATT 59.234 45.455 0.00 0.00 0.00 2.57
904 917 2.363680 CTGGACGAATGAGGCTAGTGAT 59.636 50.000 0.00 0.00 0.00 3.06
973 986 0.321671 TTGCTTCTTGGTCGAGGGAG 59.678 55.000 0.00 0.00 0.00 4.30
980 993 1.344114 TGGCCAATTTGCTTCTTGGTC 59.656 47.619 0.61 8.74 45.39 4.02
993 1006 4.059304 TGGGTCGCCATGGCCAAT 62.059 61.111 30.79 0.00 37.98 3.16
1051 1064 2.477845 CTCGTAGTCGTCGCCGTT 59.522 61.111 0.00 0.00 38.33 4.44
1083 1096 2.780693 CACCCCTCCTCCTCCTCA 59.219 66.667 0.00 0.00 0.00 3.86
1272 1294 5.407084 CACAAAATTGATGAGCTTGATGCAA 59.593 36.000 0.00 0.00 45.94 4.08
1346 1368 0.651551 CAATCGAGCTGAGAAGCTGC 59.348 55.000 4.69 0.00 46.36 5.25
1347 1369 2.007360 ACAATCGAGCTGAGAAGCTG 57.993 50.000 4.69 0.00 46.36 4.24
1366 1388 3.550275 GCTGTGCGTAATCGATAGTGAAA 59.450 43.478 0.00 0.00 39.71 2.69
1388 1410 1.135972 AGCACAGCAATTAACTTCGCG 60.136 47.619 0.00 0.00 0.00 5.87
1389 1411 2.619013 AGCACAGCAATTAACTTCGC 57.381 45.000 0.00 0.00 0.00 4.70
1395 1417 7.010923 CCACAAAAGTTTTAGCACAGCAATTAA 59.989 33.333 0.00 0.00 0.00 1.40
1491 1513 4.494526 GCAAACAAGCACAAAATTCACCAG 60.495 41.667 0.00 0.00 0.00 4.00
1534 1556 6.146837 CGCAGCCTATATATCAATCATAAGGC 59.853 42.308 9.87 9.87 38.83 4.35
1550 1572 4.543590 AATTGCTATAGACGCAGCCTAT 57.456 40.909 3.21 0.00 38.80 2.57
1555 1577 5.868257 TCAACAAAATTGCTATAGACGCAG 58.132 37.500 3.21 0.00 38.80 5.18
1562 1584 9.270640 AGCACAAAATTCAACAAAATTGCTATA 57.729 25.926 0.00 0.00 30.86 1.31
1567 1589 8.450385 AACAAGCACAAAATTCAACAAAATTG 57.550 26.923 0.00 0.00 0.00 2.32
1582 1605 2.203401 GAATGCAGCAAACAAGCACAA 58.797 42.857 0.00 0.00 41.60 3.33
1615 1639 3.681593 TGCAACCTACATACCAAAGGAC 58.318 45.455 0.00 0.00 34.34 3.85
1623 1647 7.042335 ACACTTATTCTCTGCAACCTACATAC 58.958 38.462 0.00 0.00 0.00 2.39
1658 1682 3.350833 CCTCAAGTTGGGAAATCTCTGG 58.649 50.000 3.66 0.00 0.00 3.86
2065 2089 1.372087 CTTTGTCGCCCAGCATCTCC 61.372 60.000 0.00 0.00 0.00 3.71
2132 2156 5.286797 CCATATGTGAAATCAAAGCAACACG 59.713 40.000 1.24 0.00 0.00 4.49
2174 2198 4.342378 GCACAGTGGGAGAGTTAGATGATA 59.658 45.833 0.00 0.00 0.00 2.15
2249 2273 1.271271 GCTCCATTCATGAGGCTAGGG 60.271 57.143 0.00 0.00 0.00 3.53
2401 2426 1.585267 TTTATGCGCAGTGTGCCTGG 61.585 55.000 25.10 0.00 41.12 4.45
2411 2436 4.816392 TCTTTCTCAGTAGTTTATGCGCA 58.184 39.130 14.96 14.96 0.00 6.09
2412 2437 5.779806 TTCTTTCTCAGTAGTTTATGCGC 57.220 39.130 0.00 0.00 0.00 6.09
2414 2439 9.170584 GTGTTTTTCTTTCTCAGTAGTTTATGC 57.829 33.333 0.00 0.00 0.00 3.14
2930 3016 5.478233 GGGCTACCTTTTTGTTTTGTTTG 57.522 39.130 0.00 0.00 0.00 2.93
2993 3079 6.655930 TGGGTGGAACTACTATTTTATGGTC 58.344 40.000 0.00 0.00 36.74 4.02
3016 3102 6.803320 CACTTACTAACACATCAAAGCCATTG 59.197 38.462 0.00 0.00 40.58 2.82
3055 3141 5.008331 AGCATGGATTCATACAATAGGCAG 58.992 41.667 0.00 0.00 31.33 4.85
3191 3278 6.699575 AACAAGTTATCAACTGCAGAAACT 57.300 33.333 23.35 16.85 41.91 2.66
3760 4009 3.121030 GGTACAGCAGCTGCACCG 61.121 66.667 38.24 27.36 38.03 4.94
3829 4078 2.479566 TGTCCTTGCAGAATCTGTCC 57.520 50.000 12.29 0.00 33.43 4.02
3926 4183 7.910304 ACTGATTTCTCATTTGTAATCGCTAC 58.090 34.615 0.00 0.00 31.29 3.58
4089 4348 2.033757 CTGGCCAGCTGTGCTTCT 59.966 61.111 22.33 0.00 36.40 2.85
4158 4457 2.548493 CCGACGGTGGAAAAGGTAAAGA 60.548 50.000 5.48 0.00 0.00 2.52
4162 4461 0.604578 CTCCGACGGTGGAAAAGGTA 59.395 55.000 14.79 0.00 37.64 3.08
4163 4462 1.370064 CTCCGACGGTGGAAAAGGT 59.630 57.895 14.79 0.00 37.64 3.50
4237 8070 1.794714 AGTGCTCCCTACCACCATAG 58.205 55.000 0.00 0.00 32.48 2.23
4245 8078 0.690762 TTGGACCAAGTGCTCCCTAC 59.309 55.000 1.69 0.00 0.00 3.18
4246 8079 0.690762 GTTGGACCAAGTGCTCCCTA 59.309 55.000 7.31 0.00 0.00 3.53
4352 8189 0.965439 TTTGCCCGGGTTCATTTCAG 59.035 50.000 24.63 0.00 0.00 3.02
4382 8219 6.009589 TGTGAACATCTTACATTGGTGGATT 58.990 36.000 0.00 0.00 0.00 3.01
4672 8576 3.504863 GCACCTTGCATTGTACAAGATG 58.495 45.455 14.65 9.47 45.99 2.90
4673 8577 3.855689 GCACCTTGCATTGTACAAGAT 57.144 42.857 14.65 0.00 45.99 2.40
4726 8632 4.552355 CGTCTGCCCGATACATATAAACA 58.448 43.478 0.00 0.00 0.00 2.83
4727 8633 3.367025 GCGTCTGCCCGATACATATAAAC 59.633 47.826 0.00 0.00 33.98 2.01
4728 8634 3.257375 AGCGTCTGCCCGATACATATAAA 59.743 43.478 0.00 0.00 44.31 1.40
4729 8635 2.823747 AGCGTCTGCCCGATACATATAA 59.176 45.455 0.00 0.00 44.31 0.98
4731 8637 1.257743 AGCGTCTGCCCGATACATAT 58.742 50.000 0.00 0.00 44.31 1.78
4732 8638 1.037493 AAGCGTCTGCCCGATACATA 58.963 50.000 0.00 0.00 44.31 2.29
4733 8639 1.037493 TAAGCGTCTGCCCGATACAT 58.963 50.000 0.00 0.00 44.31 2.29
4735 8641 2.150397 ATTAAGCGTCTGCCCGATAC 57.850 50.000 0.00 0.00 44.31 2.24
4736 8642 2.902705 AATTAAGCGTCTGCCCGATA 57.097 45.000 0.00 0.00 44.31 2.92
4737 8643 2.364324 TCTAATTAAGCGTCTGCCCGAT 59.636 45.455 0.00 0.00 44.31 4.18
4738 8644 1.752498 TCTAATTAAGCGTCTGCCCGA 59.248 47.619 0.00 0.00 44.31 5.14
4742 8649 4.326548 AGAAACGTCTAATTAAGCGTCTGC 59.673 41.667 12.40 7.03 37.10 4.26
4762 8669 7.258441 CACCGATGTCTATTTCTACAAGAGAA 58.742 38.462 0.00 0.00 42.69 2.87
4779 8686 5.220970 CCGGATTTTTATAAAGCACCGATGT 60.221 40.000 25.70 1.29 38.96 3.06
4782 8689 4.263435 ACCGGATTTTTATAAAGCACCGA 58.737 39.130 25.70 2.02 38.96 4.69
4783 8690 4.625972 ACCGGATTTTTATAAAGCACCG 57.374 40.909 9.46 21.17 37.73 4.94
4813 8720 6.154534 TGCTAGATGCTTAGAGAGGTGTTTTA 59.845 38.462 0.00 0.00 43.37 1.52
4814 8721 5.046304 TGCTAGATGCTTAGAGAGGTGTTTT 60.046 40.000 0.00 0.00 43.37 2.43
4824 8731 7.099764 GCCTTATACAATGCTAGATGCTTAGA 58.900 38.462 0.00 0.00 43.37 2.10
4837 8744 8.738645 ACTTCTTTCTTAGGCCTTATACAATG 57.261 34.615 12.58 0.00 0.00 2.82
4841 8748 6.289834 GGGACTTCTTTCTTAGGCCTTATAC 58.710 44.000 12.58 0.00 39.67 1.47
4844 8751 3.522343 GGGGACTTCTTTCTTAGGCCTTA 59.478 47.826 12.58 0.00 39.67 2.69
4876 8783 1.068352 ACCACTTCTTCCTTGGGCCT 61.068 55.000 4.53 0.00 34.41 5.19
4881 8788 3.381272 TGCTTCAAACCACTTCTTCCTTG 59.619 43.478 0.00 0.00 0.00 3.61
4918 8825 3.611970 TCTCTCCTTCTAACACTCCTCG 58.388 50.000 0.00 0.00 0.00 4.63
4925 8832 4.033709 CCAATCCCTCTCTCCTTCTAACA 58.966 47.826 0.00 0.00 0.00 2.41
4926 8833 4.034410 ACCAATCCCTCTCTCCTTCTAAC 58.966 47.826 0.00 0.00 0.00 2.34
4927 8834 4.033709 CACCAATCCCTCTCTCCTTCTAA 58.966 47.826 0.00 0.00 0.00 2.10
4928 8835 3.631087 CCACCAATCCCTCTCTCCTTCTA 60.631 52.174 0.00 0.00 0.00 2.10
4929 8836 2.476199 CACCAATCCCTCTCTCCTTCT 58.524 52.381 0.00 0.00 0.00 2.85
4930 8837 1.488393 CCACCAATCCCTCTCTCCTTC 59.512 57.143 0.00 0.00 0.00 3.46
4931 8838 1.081174 TCCACCAATCCCTCTCTCCTT 59.919 52.381 0.00 0.00 0.00 3.36
4932 8839 0.719015 TCCACCAATCCCTCTCTCCT 59.281 55.000 0.00 0.00 0.00 3.69
4933 8840 1.584724 TTCCACCAATCCCTCTCTCC 58.415 55.000 0.00 0.00 0.00 3.71
4934 8841 3.054065 ACAATTCCACCAATCCCTCTCTC 60.054 47.826 0.00 0.00 0.00 3.20
4935 8842 2.922283 ACAATTCCACCAATCCCTCTCT 59.078 45.455 0.00 0.00 0.00 3.10
4936 8843 3.372440 ACAATTCCACCAATCCCTCTC 57.628 47.619 0.00 0.00 0.00 3.20
4937 8844 3.181418 ACAACAATTCCACCAATCCCTCT 60.181 43.478 0.00 0.00 0.00 3.69
4938 8845 3.165071 ACAACAATTCCACCAATCCCTC 58.835 45.455 0.00 0.00 0.00 4.30
4939 8846 3.258722 ACAACAATTCCACCAATCCCT 57.741 42.857 0.00 0.00 0.00 4.20
4940 8847 3.070878 ACAACAACAATTCCACCAATCCC 59.929 43.478 0.00 0.00 0.00 3.85
4941 8848 4.335400 ACAACAACAATTCCACCAATCC 57.665 40.909 0.00 0.00 0.00 3.01
4942 8849 6.128580 GCAATACAACAACAATTCCACCAATC 60.129 38.462 0.00 0.00 0.00 2.67
4943 8850 5.700373 GCAATACAACAACAATTCCACCAAT 59.300 36.000 0.00 0.00 0.00 3.16
4944 8851 5.053145 GCAATACAACAACAATTCCACCAA 58.947 37.500 0.00 0.00 0.00 3.67
4945 8852 4.343526 AGCAATACAACAACAATTCCACCA 59.656 37.500 0.00 0.00 0.00 4.17
4946 8853 4.881920 AGCAATACAACAACAATTCCACC 58.118 39.130 0.00 0.00 0.00 4.61
4947 8854 5.982516 TCAAGCAATACAACAACAATTCCAC 59.017 36.000 0.00 0.00 0.00 4.02
4948 8855 6.154203 TCAAGCAATACAACAACAATTCCA 57.846 33.333 0.00 0.00 0.00 3.53
4949 8856 5.119125 GCTCAAGCAATACAACAACAATTCC 59.881 40.000 0.00 0.00 41.59 3.01
4950 8857 5.119125 GGCTCAAGCAATACAACAACAATTC 59.881 40.000 4.13 0.00 44.36 2.17
4951 8858 4.990426 GGCTCAAGCAATACAACAACAATT 59.010 37.500 4.13 0.00 44.36 2.32
4952 8859 4.281688 AGGCTCAAGCAATACAACAACAAT 59.718 37.500 4.13 0.00 44.36 2.71
4953 8860 3.636300 AGGCTCAAGCAATACAACAACAA 59.364 39.130 4.13 0.00 44.36 2.83
4954 8861 3.221771 AGGCTCAAGCAATACAACAACA 58.778 40.909 4.13 0.00 44.36 3.33
4955 8862 3.253188 TGAGGCTCAAGCAATACAACAAC 59.747 43.478 16.28 0.00 44.36 3.32
4956 8863 3.485394 TGAGGCTCAAGCAATACAACAA 58.515 40.909 16.28 0.00 44.36 2.83
4957 8864 3.138884 TGAGGCTCAAGCAATACAACA 57.861 42.857 16.28 0.00 44.36 3.33
4958 8865 3.181493 CCATGAGGCTCAAGCAATACAAC 60.181 47.826 22.84 0.00 44.36 3.32
4959 8866 3.018856 CCATGAGGCTCAAGCAATACAA 58.981 45.455 22.84 0.00 44.36 2.41
4960 8867 2.646930 CCATGAGGCTCAAGCAATACA 58.353 47.619 22.84 0.00 44.36 2.29
4961 8868 1.952296 CCCATGAGGCTCAAGCAATAC 59.048 52.381 22.84 0.00 44.36 1.89
4962 8869 2.353357 CCCATGAGGCTCAAGCAATA 57.647 50.000 22.84 0.00 44.36 1.90
4963 8870 3.202548 CCCATGAGGCTCAAGCAAT 57.797 52.632 22.84 0.66 44.36 3.56
4964 8871 4.749323 CCCATGAGGCTCAAGCAA 57.251 55.556 22.84 0.00 44.36 3.91
4973 8880 7.730332 TGTACTCCTATATATATGCCCATGAGG 59.270 40.741 5.44 2.71 39.47 3.86
4974 8881 8.712228 TGTACTCCTATATATATGCCCATGAG 57.288 38.462 5.44 4.97 0.00 2.90
4975 8882 9.674705 ATTGTACTCCTATATATATGCCCATGA 57.325 33.333 5.44 0.00 0.00 3.07
4976 8883 9.716531 CATTGTACTCCTATATATATGCCCATG 57.283 37.037 5.44 0.00 0.00 3.66
4977 8884 9.674705 TCATTGTACTCCTATATATATGCCCAT 57.325 33.333 5.44 0.00 0.00 4.00
4978 8885 8.924303 GTCATTGTACTCCTATATATATGCCCA 58.076 37.037 5.44 0.00 0.00 5.36
4979 8886 8.368668 GGTCATTGTACTCCTATATATATGCCC 58.631 40.741 5.44 0.00 0.00 5.36
4980 8887 8.924303 TGGTCATTGTACTCCTATATATATGCC 58.076 37.037 5.44 0.00 0.00 4.40
4987 8894 8.723365 TCCAAATTGGTCATTGTACTCCTATAT 58.277 33.333 12.28 0.00 39.03 0.86
4988 8895 8.096621 TCCAAATTGGTCATTGTACTCCTATA 57.903 34.615 12.28 0.00 39.03 1.31
4989 8896 6.969043 TCCAAATTGGTCATTGTACTCCTAT 58.031 36.000 12.28 0.00 39.03 2.57
4990 8897 6.012858 ACTCCAAATTGGTCATTGTACTCCTA 60.013 38.462 12.28 0.00 39.03 2.94
4991 8898 5.222130 ACTCCAAATTGGTCATTGTACTCCT 60.222 40.000 12.28 0.00 39.03 3.69
4992 8899 5.010282 ACTCCAAATTGGTCATTGTACTCC 58.990 41.667 12.28 0.00 39.03 3.85
4993 8900 6.653320 TGTACTCCAAATTGGTCATTGTACTC 59.347 38.462 12.28 0.72 39.03 2.59
4994 8901 6.539173 TGTACTCCAAATTGGTCATTGTACT 58.461 36.000 12.28 0.00 39.03 2.73
4995 8902 6.811253 TGTACTCCAAATTGGTCATTGTAC 57.189 37.500 12.28 16.03 39.03 2.90
4996 8903 7.174253 GTCTTGTACTCCAAATTGGTCATTGTA 59.826 37.037 12.28 6.28 39.03 2.41
4997 8904 6.016276 GTCTTGTACTCCAAATTGGTCATTGT 60.016 38.462 12.28 7.14 39.03 2.71
4998 8905 6.016360 TGTCTTGTACTCCAAATTGGTCATTG 60.016 38.462 12.28 1.76 39.03 2.82
4999 8906 6.068010 TGTCTTGTACTCCAAATTGGTCATT 58.932 36.000 12.28 0.00 39.03 2.57
5000 8907 5.630121 TGTCTTGTACTCCAAATTGGTCAT 58.370 37.500 12.28 1.57 39.03 3.06
5001 8908 5.042463 TGTCTTGTACTCCAAATTGGTCA 57.958 39.130 12.28 5.11 39.03 4.02
5002 8909 5.048713 CCTTGTCTTGTACTCCAAATTGGTC 60.049 44.000 12.28 2.67 39.03 4.02
5003 8910 4.827284 CCTTGTCTTGTACTCCAAATTGGT 59.173 41.667 12.28 0.00 39.03 3.67
5004 8911 4.321230 GCCTTGTCTTGTACTCCAAATTGG 60.321 45.833 5.48 5.48 39.43 3.16
5005 8912 4.278170 TGCCTTGTCTTGTACTCCAAATTG 59.722 41.667 0.00 0.00 31.20 2.32
5006 8913 4.469657 TGCCTTGTCTTGTACTCCAAATT 58.530 39.130 0.00 0.00 31.20 1.82
5007 8914 4.074970 CTGCCTTGTCTTGTACTCCAAAT 58.925 43.478 0.00 0.00 31.20 2.32
5008 8915 3.476552 CTGCCTTGTCTTGTACTCCAAA 58.523 45.455 0.00 0.00 31.20 3.28
5009 8916 2.224523 CCTGCCTTGTCTTGTACTCCAA 60.225 50.000 0.00 0.00 0.00 3.53
5010 8917 1.347707 CCTGCCTTGTCTTGTACTCCA 59.652 52.381 0.00 0.00 0.00 3.86
5011 8918 1.623811 TCCTGCCTTGTCTTGTACTCC 59.376 52.381 0.00 0.00 0.00 3.85
5012 8919 3.067833 GTTCCTGCCTTGTCTTGTACTC 58.932 50.000 0.00 0.00 0.00 2.59
5013 8920 2.438021 TGTTCCTGCCTTGTCTTGTACT 59.562 45.455 0.00 0.00 0.00 2.73
5014 8921 2.846193 TGTTCCTGCCTTGTCTTGTAC 58.154 47.619 0.00 0.00 0.00 2.90
5015 8922 3.569194 TTGTTCCTGCCTTGTCTTGTA 57.431 42.857 0.00 0.00 0.00 2.41
5016 8923 2.435372 TTGTTCCTGCCTTGTCTTGT 57.565 45.000 0.00 0.00 0.00 3.16
5017 8924 3.305608 GGATTTGTTCCTGCCTTGTCTTG 60.306 47.826 0.00 0.00 41.78 3.02
5018 8925 2.893489 GGATTTGTTCCTGCCTTGTCTT 59.107 45.455 0.00 0.00 41.78 3.01
5019 8926 2.519013 GGATTTGTTCCTGCCTTGTCT 58.481 47.619 0.00 0.00 41.78 3.41
5059 8966 9.802039 GGGGGATGTTGAGTATAATGTTTATTA 57.198 33.333 0.00 0.00 33.54 0.98
5060 8967 8.706322 GGGGGATGTTGAGTATAATGTTTATT 57.294 34.615 0.00 0.00 0.00 1.40
5086 8993 2.716828 CGCTACCGTTGTGACTGCG 61.717 63.158 0.00 0.00 36.19 5.18
5087 8994 1.372499 TCGCTACCGTTGTGACTGC 60.372 57.895 0.00 0.00 35.54 4.40
5088 8995 1.334992 CGTCGCTACCGTTGTGACTG 61.335 60.000 19.68 12.04 41.26 3.51
5089 8996 1.081641 CGTCGCTACCGTTGTGACT 60.082 57.895 19.68 0.00 41.26 3.41
5090 8997 2.713894 GCGTCGCTACCGTTGTGAC 61.714 63.158 10.68 14.36 40.38 3.67
5091 8998 2.429571 GCGTCGCTACCGTTGTGA 60.430 61.111 10.68 0.00 35.54 3.58
5092 8999 2.716828 CTGCGTCGCTACCGTTGTG 61.717 63.158 19.50 0.00 35.54 3.33
5093 9000 2.430244 CTGCGTCGCTACCGTTGT 60.430 61.111 19.50 0.00 35.54 3.32
5094 9001 2.126618 TCTGCGTCGCTACCGTTG 60.127 61.111 19.50 0.42 35.54 4.10
5095 9002 2.126580 GTCTGCGTCGCTACCGTT 60.127 61.111 19.50 0.00 35.54 4.44
5096 9003 4.456253 CGTCTGCGTCGCTACCGT 62.456 66.667 19.50 0.00 35.54 4.83
5097 9004 3.450559 ATCGTCTGCGTCGCTACCG 62.451 63.158 19.50 16.23 39.49 4.02
5098 9005 1.939785 CATCGTCTGCGTCGCTACC 60.940 63.158 19.50 4.72 39.49 3.18
5099 9006 0.926174 CTCATCGTCTGCGTCGCTAC 60.926 60.000 19.50 15.00 39.49 3.58
5100 9007 1.087771 TCTCATCGTCTGCGTCGCTA 61.088 55.000 19.50 3.59 39.49 4.26
5101 9008 2.101185 CTCATCGTCTGCGTCGCT 59.899 61.111 19.50 0.00 39.49 4.93
5102 9009 2.100410 TCTCATCGTCTGCGTCGC 59.900 61.111 11.10 11.10 39.49 5.19
5103 9010 0.859374 CAGTCTCATCGTCTGCGTCG 60.859 60.000 0.00 0.00 39.49 5.12
5104 9011 0.524392 CCAGTCTCATCGTCTGCGTC 60.524 60.000 0.00 0.00 39.49 5.19
5105 9012 0.960861 TCCAGTCTCATCGTCTGCGT 60.961 55.000 0.00 0.00 39.49 5.24
5106 9013 0.248417 CTCCAGTCTCATCGTCTGCG 60.248 60.000 0.00 0.00 39.92 5.18
5107 9014 1.098869 TCTCCAGTCTCATCGTCTGC 58.901 55.000 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.