Multiple sequence alignment - TraesCS7D01G074600

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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 TraesCS7D01G074600 chr7D 100.000 3199 0 0 1 3199 44298394 44295196 0.000000e+00 5908.0
1 TraesCS7D01G074600 chr7A 88.094 2209 120 50 193 2366 46716185 46714085 0.000000e+00 2490.0
2 TraesCS7D01G074600 chr7A 95.913 783 29 3 2419 3199 46714087 46713306 0.000000e+00 1266.0
3 TraesCS7D01G074600 chr7A 95.181 166 8 0 19 184 46720463 46720298 2.450000e-66 263.0
4 TraesCS7D01G074600 chr4A 85.891 1134 92 29 1275 2366 655256359 655255252 0.000000e+00 1146.0
5 TraesCS7D01G074600 chr4A 92.446 781 36 8 2428 3199 655255242 655254476 0.000000e+00 1094.0
6 TraesCS7D01G074600 chr4A 79.968 1233 140 59 83 1269 655258662 655257491 0.000000e+00 809.0
7 TraesCS7D01G074600 chr4A 100.000 30 0 0 1528 1557 395038718 395038747 4.460000e-04 56.5
8 TraesCS7D01G074600 chr1B 82.299 435 56 15 2735 3150 619420243 619419811 1.090000e-94 357.0
9 TraesCS7D01G074600 chr1B 100.000 31 0 0 1530 1560 221266460 221266490 1.240000e-04 58.4
10 TraesCS7D01G074600 chr1D 81.206 431 66 11 2735 3150 451132215 451131785 1.840000e-87 333.0
11 TraesCS7D01G074600 chr1A 81.682 333 39 15 2837 3150 545891277 545890948 1.140000e-64 257.0
12 TraesCS7D01G074600 chr2A 80.851 94 13 4 403 492 657520743 657520835 5.730000e-08 69.4
13 TraesCS7D01G074600 chr6D 95.122 41 2 0 463 503 88882961 88882921 7.410000e-07 65.8
14 TraesCS7D01G074600 chr6D 100.000 31 0 0 1530 1560 385231454 385231424 1.240000e-04 58.4
15 TraesCS7D01G074600 chr5A 80.000 90 16 2 403 491 622430777 622430865 7.410000e-07 65.8
16 TraesCS7D01G074600 chr5A 100.000 31 0 0 1527 1557 529183989 529184019 1.240000e-04 58.4
17 TraesCS7D01G074600 chr4B 91.667 48 0 4 463 507 586929477 586929523 2.660000e-06 63.9
18 TraesCS7D01G074600 chr4B 100.000 30 0 0 1531 1560 641813645 641813616 4.460000e-04 56.5
19 TraesCS7D01G074600 chr3D 92.683 41 3 0 451 491 157099405 157099445 3.450000e-05 60.2
20 TraesCS7D01G074600 chr3A 88.000 50 6 0 451 500 171176867 171176818 3.450000e-05 60.2
21 TraesCS7D01G074600 chr6A 87.273 55 2 5 450 502 85753685 85753736 1.240000e-04 58.4
22 TraesCS7D01G074600 chr4D 100.000 31 0 0 1530 1560 499228907 499228877 1.240000e-04 58.4
23 TraesCS7D01G074600 chr5D 96.774 31 1 0 1527 1557 61715011 61715041 6.000000e-03 52.8


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 TraesCS7D01G074600 chr7D 44295196 44298394 3198 True 5908.000000 5908 100.000000 1 3199 1 chr7D.!!$R1 3198
1 TraesCS7D01G074600 chr7A 46713306 46716185 2879 True 1878.000000 2490 92.003500 193 3199 2 chr7A.!!$R2 3006
2 TraesCS7D01G074600 chr4A 655254476 655258662 4186 True 1016.333333 1146 86.101667 83 3199 3 chr4A.!!$R1 3116

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
58 59 0.035630 ATCCAAGTGCTGAGCTGACC 60.036 55.0 5.83 0.00 0.00 4.02 F
75 76 0.044855 ACCCTAGGGCTCAGGATGTT 59.955 55.0 28.88 0.30 39.32 2.71 F
1487 2685 0.246635 GAGGTATGGCATACGCGGAT 59.753 55.0 26.53 3.58 39.92 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1950 3176 0.243907 CCCTGCGAGAGAGAAAACGA 59.756 55.0 0.0 0.0 0.00 3.85 R
1954 3180 0.894184 ACGTCCCTGCGAGAGAGAAA 60.894 55.0 0.0 0.0 35.59 2.52 R
2373 3606 0.038159 ACTGCGGTACTCTGCTTCAC 60.038 55.0 0.0 0.0 45.38 3.18 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
45 46 8.403606 GAAGCATTCTTATTCACAAATCCAAG 57.596 34.615 0.00 0.00 43.23 3.61
46 47 7.472334 AGCATTCTTATTCACAAATCCAAGT 57.528 32.000 0.00 0.00 0.00 3.16
47 48 7.318141 AGCATTCTTATTCACAAATCCAAGTG 58.682 34.615 0.00 0.00 37.10 3.16
48 49 6.035327 GCATTCTTATTCACAAATCCAAGTGC 59.965 38.462 0.00 0.00 35.76 4.40
49 50 6.899393 TTCTTATTCACAAATCCAAGTGCT 57.101 33.333 0.00 0.00 35.76 4.40
50 51 6.258230 TCTTATTCACAAATCCAAGTGCTG 57.742 37.500 0.00 0.00 35.76 4.41
51 52 6.003326 TCTTATTCACAAATCCAAGTGCTGA 58.997 36.000 0.00 0.00 35.76 4.26
52 53 4.778534 ATTCACAAATCCAAGTGCTGAG 57.221 40.909 0.00 0.00 35.76 3.35
53 54 1.881973 TCACAAATCCAAGTGCTGAGC 59.118 47.619 0.00 0.00 35.76 4.26
54 55 1.884579 CACAAATCCAAGTGCTGAGCT 59.115 47.619 5.83 0.00 0.00 4.09
55 56 1.884579 ACAAATCCAAGTGCTGAGCTG 59.115 47.619 5.83 0.00 0.00 4.24
56 57 2.156917 CAAATCCAAGTGCTGAGCTGA 58.843 47.619 5.83 0.00 0.00 4.26
57 58 1.818642 AATCCAAGTGCTGAGCTGAC 58.181 50.000 5.83 0.00 0.00 3.51
58 59 0.035630 ATCCAAGTGCTGAGCTGACC 60.036 55.000 5.83 0.00 0.00 4.02
59 60 1.673665 CCAAGTGCTGAGCTGACCC 60.674 63.158 5.83 0.00 0.00 4.46
60 61 1.374190 CAAGTGCTGAGCTGACCCT 59.626 57.895 5.83 0.00 0.00 4.34
61 62 0.610174 CAAGTGCTGAGCTGACCCTA 59.390 55.000 5.83 0.00 0.00 3.53
62 63 0.901124 AAGTGCTGAGCTGACCCTAG 59.099 55.000 5.83 0.00 0.00 3.02
63 64 0.975040 AGTGCTGAGCTGACCCTAGG 60.975 60.000 5.83 0.06 0.00 3.02
64 65 1.687146 TGCTGAGCTGACCCTAGGG 60.687 63.158 27.36 27.36 42.03 3.53
65 66 3.100503 GCTGAGCTGACCCTAGGGC 62.101 68.421 28.88 20.22 39.32 5.19
66 67 1.382420 CTGAGCTGACCCTAGGGCT 60.382 63.158 28.88 18.72 39.32 5.19
67 68 3.544772 GAGCTGACCCTAGGGCTC 58.455 66.667 28.88 22.77 43.07 4.70
68 69 2.780693 AGCTGACCCTAGGGCTCA 59.219 61.111 28.88 25.59 39.32 4.26
69 70 1.382420 AGCTGACCCTAGGGCTCAG 60.382 63.158 34.05 34.05 41.70 3.35
70 71 2.439104 GCTGACCCTAGGGCTCAGG 61.439 68.421 36.11 26.26 40.46 3.86
71 72 1.311403 CTGACCCTAGGGCTCAGGA 59.689 63.158 32.43 15.47 38.53 3.86
72 73 0.105246 CTGACCCTAGGGCTCAGGAT 60.105 60.000 32.43 15.84 38.53 3.24
73 74 0.399091 TGACCCTAGGGCTCAGGATG 60.399 60.000 28.88 0.54 39.32 3.51
74 75 0.399233 GACCCTAGGGCTCAGGATGT 60.399 60.000 28.88 4.34 39.32 3.06
75 76 0.044855 ACCCTAGGGCTCAGGATGTT 59.955 55.000 28.88 0.30 39.32 2.71
76 77 1.216990 CCCTAGGGCTCAGGATGTTT 58.783 55.000 16.90 0.00 37.40 2.83
77 78 1.141858 CCCTAGGGCTCAGGATGTTTC 59.858 57.143 16.90 0.00 37.40 2.78
78 79 1.141858 CCTAGGGCTCAGGATGTTTCC 59.858 57.143 0.00 0.00 42.96 3.13
142 143 9.416794 GAATATGTACAGATGGAGATAACACTG 57.583 37.037 3.26 0.00 0.00 3.66
145 146 5.891551 TGTACAGATGGAGATAACACTGCTA 59.108 40.000 0.00 0.00 0.00 3.49
151 152 3.301274 GGAGATAACACTGCTACTCCCT 58.699 50.000 0.00 0.00 38.23 4.20
163 164 2.742589 GCTACTCCCTACAAAGTTGCAC 59.257 50.000 4.49 0.00 41.74 4.57
168 169 4.820173 ACTCCCTACAAAGTTGCACTAAAC 59.180 41.667 0.00 0.00 0.00 2.01
172 173 3.436700 ACAAAGTTGCACTAAACCAGC 57.563 42.857 0.00 0.00 0.00 4.85
179 180 4.082571 AGTTGCACTAAACCAGCATCAATC 60.083 41.667 0.00 0.00 38.19 2.67
185 186 6.639686 GCACTAAACCAGCATCAATCAATATG 59.360 38.462 0.00 0.00 0.00 1.78
187 188 7.013559 CACTAAACCAGCATCAATCAATATGGA 59.986 37.037 0.00 0.00 0.00 3.41
188 189 6.989155 AAACCAGCATCAATCAATATGGAT 57.011 33.333 0.00 0.00 0.00 3.41
189 190 9.234827 CTAAACCAGCATCAATCAATATGGATA 57.765 33.333 0.00 0.00 0.00 2.59
190 191 7.698506 AACCAGCATCAATCAATATGGATAG 57.301 36.000 0.00 0.00 0.00 2.08
191 192 6.185511 ACCAGCATCAATCAATATGGATAGG 58.814 40.000 0.00 0.00 0.00 2.57
192 193 6.012245 ACCAGCATCAATCAATATGGATAGGA 60.012 38.462 0.00 0.00 0.00 2.94
193 194 6.542735 CCAGCATCAATCAATATGGATAGGAG 59.457 42.308 0.00 0.00 0.00 3.69
194 195 6.542735 CAGCATCAATCAATATGGATAGGAGG 59.457 42.308 0.00 0.00 0.00 4.30
195 196 5.826737 GCATCAATCAATATGGATAGGAGGG 59.173 44.000 0.00 0.00 0.00 4.30
196 197 6.353342 GCATCAATCAATATGGATAGGAGGGA 60.353 42.308 0.00 0.00 0.00 4.20
197 198 6.881067 TCAATCAATATGGATAGGAGGGAG 57.119 41.667 0.00 0.00 0.00 4.30
198 199 6.334296 TCAATCAATATGGATAGGAGGGAGT 58.666 40.000 0.00 0.00 0.00 3.85
199 200 7.487338 TCAATCAATATGGATAGGAGGGAGTA 58.513 38.462 0.00 0.00 0.00 2.59
200 201 7.400339 TCAATCAATATGGATAGGAGGGAGTAC 59.600 40.741 0.00 0.00 0.00 2.73
203 204 7.644062 TCAATATGGATAGGAGGGAGTACTAG 58.356 42.308 0.00 0.00 0.00 2.57
306 308 2.555732 AATGGCATCCCTGGTTTCAT 57.444 45.000 0.00 0.00 0.00 2.57
311 313 1.952296 GCATCCCTGGTTTCATGCTAG 59.048 52.381 8.93 0.00 38.89 3.42
327 329 1.404035 GCTAGCCCCCACAAATAAACG 59.596 52.381 2.29 0.00 0.00 3.60
430 433 6.490721 TCCCCAAATAAGTGTCGTTGTTTTAT 59.509 34.615 0.00 0.00 0.00 1.40
492 495 1.502039 TGGGACGGAGGGAGTACATAT 59.498 52.381 0.00 0.00 0.00 1.78
493 496 2.090943 TGGGACGGAGGGAGTACATATT 60.091 50.000 0.00 0.00 0.00 1.28
494 497 2.970640 GGGACGGAGGGAGTACATATTT 59.029 50.000 0.00 0.00 0.00 1.40
495 498 4.154942 GGGACGGAGGGAGTACATATTTA 58.845 47.826 0.00 0.00 0.00 1.40
496 499 4.590222 GGGACGGAGGGAGTACATATTTAA 59.410 45.833 0.00 0.00 0.00 1.52
497 500 5.070847 GGGACGGAGGGAGTACATATTTAAA 59.929 44.000 0.00 0.00 0.00 1.52
498 501 6.408434 GGGACGGAGGGAGTACATATTTAAAA 60.408 42.308 0.00 0.00 0.00 1.52
499 502 7.222161 GGACGGAGGGAGTACATATTTAAAAT 58.778 38.462 0.00 0.00 0.00 1.82
598 608 8.207252 CACATTCGTGAACATTTTCATAACAAC 58.793 33.333 0.00 0.00 46.80 3.32
656 675 8.250332 ACATACATGAAAACGAGCCATATTTTT 58.750 29.630 0.00 0.00 0.00 1.94
675 694 5.373812 TTTTTGGGCCAGGATTTTGTTTA 57.626 34.783 6.23 0.00 0.00 2.01
743 762 4.675565 CAGATCCGTCGTGAACATGTATAC 59.324 45.833 0.00 0.09 0.00 1.47
750 769 3.861113 TCGTGAACATGTATACGCTTTCC 59.139 43.478 22.66 1.03 36.56 3.13
903 936 2.669569 CTTGGCACTCCGGGTGTG 60.670 66.667 21.74 21.74 46.86 3.82
958 996 2.738013 AGTGTACTAGGGTTCGTTGC 57.262 50.000 0.00 0.00 0.00 4.17
960 998 2.029290 AGTGTACTAGGGTTCGTTGCTG 60.029 50.000 0.00 0.00 0.00 4.41
961 999 1.274167 TGTACTAGGGTTCGTTGCTGG 59.726 52.381 0.00 0.00 0.00 4.85
1123 1174 4.436998 CCTCGAAACCTCGCCGCT 62.437 66.667 0.00 0.00 45.04 5.52
1124 1175 2.881352 CTCGAAACCTCGCCGCTC 60.881 66.667 0.00 0.00 45.04 5.03
1167 1224 2.845752 TTTTATGCTCGCGGCTCCGT 62.846 55.000 18.14 4.18 42.39 4.69
1168 1225 3.768185 TTATGCTCGCGGCTCCGTC 62.768 63.158 18.14 1.81 42.39 4.79
1208 1265 0.647925 GCCGATTTCGCTCAAGAGAC 59.352 55.000 0.32 0.00 38.18 3.36
1217 1274 1.066908 CGCTCAAGAGACCTCTGATCC 59.933 57.143 0.32 0.00 40.36 3.36
1220 1277 3.181476 GCTCAAGAGACCTCTGATCCTTC 60.181 52.174 0.32 0.00 40.36 3.46
1269 1326 3.495001 GTGCATCGGAGGAATTAAGTAGC 59.505 47.826 0.00 0.00 0.00 3.58
1273 2456 4.386867 TCGGAGGAATTAAGTAGCACTG 57.613 45.455 0.00 0.00 0.00 3.66
1399 2597 0.469494 TCTTGTGCAGCCTGTGAAGA 59.531 50.000 0.00 0.00 0.00 2.87
1409 2607 2.079925 GCCTGTGAAGATGTTCAGGTC 58.920 52.381 5.37 0.00 43.55 3.85
1410 2608 2.550855 GCCTGTGAAGATGTTCAGGTCA 60.551 50.000 5.37 0.06 43.55 4.02
1416 2614 3.807622 TGAAGATGTTCAGGTCAAACGAC 59.192 43.478 0.23 0.00 37.79 4.34
1440 2638 2.417257 CGGGTGGGACGATTACGGA 61.417 63.158 0.00 0.00 44.46 4.69
1483 2681 0.388649 CCTCGAGGTATGGCATACGC 60.389 60.000 26.53 20.45 36.61 4.42
1484 2682 0.729478 CTCGAGGTATGGCATACGCG 60.729 60.000 29.63 29.63 39.92 6.01
1485 2683 1.733041 CGAGGTATGGCATACGCGG 60.733 63.158 28.66 18.62 39.92 6.46
1486 2684 1.663739 GAGGTATGGCATACGCGGA 59.336 57.895 26.53 0.00 39.92 5.54
1487 2685 0.246635 GAGGTATGGCATACGCGGAT 59.753 55.000 26.53 3.58 39.92 4.18
1488 2686 1.475280 GAGGTATGGCATACGCGGATA 59.525 52.381 26.53 0.00 39.92 2.59
1508 2706 1.072331 ACGCCTGTTCACCAGAGATTT 59.928 47.619 0.00 0.00 44.49 2.17
1512 2710 2.886523 CCTGTTCACCAGAGATTTGCAA 59.113 45.455 0.00 0.00 44.49 4.08
1515 2713 3.890756 TGTTCACCAGAGATTTGCAATGT 59.109 39.130 0.00 0.00 0.00 2.71
1525 2728 5.047519 AGAGATTTGCAATGTTTCCTTCCAG 60.048 40.000 0.00 0.00 0.00 3.86
1600 2803 9.552114 GCAGAACAGATTACATGATAATAATGC 57.448 33.333 0.00 2.57 0.00 3.56
1611 2814 5.241403 TGATAATAATGCCCCTTCATCGT 57.759 39.130 0.00 0.00 0.00 3.73
1614 2817 2.519377 TAATGCCCCTTCATCGTACG 57.481 50.000 9.53 9.53 0.00 3.67
1622 2825 1.078988 TTCATCGTACGTTGGGGGC 60.079 57.895 22.44 0.00 0.00 5.80
1626 2829 1.546589 ATCGTACGTTGGGGGCTTCA 61.547 55.000 16.05 0.00 0.00 3.02
1663 2869 0.984230 TCATGGCCTTCTTCGTTCCT 59.016 50.000 3.32 0.00 0.00 3.36
1681 2890 1.086696 CTGTATGTTTGTCGCAGGGG 58.913 55.000 0.00 0.00 0.00 4.79
1783 2992 0.892755 ACGACATTTACAGGAGGCGA 59.107 50.000 0.00 0.00 0.00 5.54
1785 2994 1.278238 GACATTTACAGGAGGCGACG 58.722 55.000 0.00 0.00 0.00 5.12
1800 3009 1.878656 CGACGAGGTGAAGAAGCCCT 61.879 60.000 0.00 0.00 0.00 5.19
1821 3030 1.145738 TCTCTTGCTTCCCCTGCTTTT 59.854 47.619 0.00 0.00 0.00 2.27
1827 3047 0.323816 CTTCCCCTGCTTTTCCCCTC 60.324 60.000 0.00 0.00 0.00 4.30
1870 3090 3.823716 GACAAAAAGTCAGCGCAAAAG 57.176 42.857 11.47 0.00 46.77 2.27
1923 3149 6.416750 GTGACACCTTTATTTTCTTTGTTCCG 59.583 38.462 0.00 0.00 0.00 4.30
1931 3157 3.691049 TTTCTTTGTTCCGCTCTGTTG 57.309 42.857 0.00 0.00 0.00 3.33
1932 3158 0.944386 TCTTTGTTCCGCTCTGTTGC 59.056 50.000 0.00 0.00 0.00 4.17
1954 3180 2.997980 TGGCACCATGATTATGTCGTT 58.002 42.857 0.00 0.00 32.21 3.85
2026 3256 1.836166 TCCATCTCCTTGAGCTTCCTG 59.164 52.381 0.00 0.00 0.00 3.86
2055 3285 2.094659 CGTGCTCCGATGTGTGGTC 61.095 63.158 0.00 0.00 39.56 4.02
2088 3318 5.646467 GCAATGAAAATGCTAATGCGAAT 57.354 34.783 0.00 0.00 43.34 3.34
2089 3319 5.428770 GCAATGAAAATGCTAATGCGAATG 58.571 37.500 0.00 0.00 43.34 2.67
2199 3429 0.912486 GAGGCCTGATGGTTGGTAGT 59.088 55.000 12.00 0.00 35.27 2.73
2200 3430 2.116238 GAGGCCTGATGGTTGGTAGTA 58.884 52.381 12.00 0.00 35.27 1.82
2203 3433 1.141053 GCCTGATGGTTGGTAGTAGGG 59.859 57.143 0.00 0.00 35.27 3.53
2205 3435 3.318313 CCTGATGGTTGGTAGTAGGGAT 58.682 50.000 0.00 0.00 0.00 3.85
2206 3436 3.071602 CCTGATGGTTGGTAGTAGGGATG 59.928 52.174 0.00 0.00 0.00 3.51
2208 3438 1.209621 TGGTTGGTAGTAGGGATGGC 58.790 55.000 0.00 0.00 0.00 4.40
2280 3510 6.789268 TCTTTCACCCCAAAGATAAGAATGA 58.211 36.000 0.00 0.00 37.45 2.57
2287 3517 5.009410 CCCCAAAGATAAGAATGATCAGCAC 59.991 44.000 0.09 0.00 0.00 4.40
2295 3527 9.186837 AGATAAGAATGATCAGCACAGATTTTT 57.813 29.630 0.09 0.00 0.00 1.94
2311 3543 6.037391 ACAGATTTTTCATTGTTTTGTGCAGG 59.963 34.615 0.00 0.00 0.00 4.85
2354 3587 5.879223 CCTATGAAGTGAAGCTGATGAGTTT 59.121 40.000 0.00 0.00 0.00 2.66
2363 3596 7.231317 AGTGAAGCTGATGAGTTTGGAAATTTA 59.769 33.333 0.00 0.00 0.00 1.40
2364 3597 7.327032 GTGAAGCTGATGAGTTTGGAAATTTAC 59.673 37.037 0.00 0.00 0.00 2.01
2365 3598 6.272822 AGCTGATGAGTTTGGAAATTTACC 57.727 37.500 0.00 0.00 0.00 2.85
2366 3599 5.185828 AGCTGATGAGTTTGGAAATTTACCC 59.814 40.000 0.00 0.00 0.00 3.69
2367 3600 5.185828 GCTGATGAGTTTGGAAATTTACCCT 59.814 40.000 0.00 0.00 0.00 4.34
2368 3601 6.377146 GCTGATGAGTTTGGAAATTTACCCTA 59.623 38.462 0.00 0.00 0.00 3.53
2369 3602 7.068716 GCTGATGAGTTTGGAAATTTACCCTAT 59.931 37.037 0.00 0.00 0.00 2.57
2370 3603 8.292444 TGATGAGTTTGGAAATTTACCCTATG 57.708 34.615 0.00 0.00 0.00 2.23
2371 3604 8.112822 TGATGAGTTTGGAAATTTACCCTATGA 58.887 33.333 0.00 0.00 0.00 2.15
2372 3605 7.938140 TGAGTTTGGAAATTTACCCTATGAG 57.062 36.000 0.00 0.00 0.00 2.90
2373 3606 6.889722 TGAGTTTGGAAATTTACCCTATGAGG 59.110 38.462 0.00 0.00 34.30 3.86
2374 3607 6.800890 AGTTTGGAAATTTACCCTATGAGGT 58.199 36.000 0.00 0.00 44.37 3.85
2375 3608 6.663523 AGTTTGGAAATTTACCCTATGAGGTG 59.336 38.462 0.00 0.00 41.42 4.00
2376 3609 6.395780 TTGGAAATTTACCCTATGAGGTGA 57.604 37.500 0.00 0.00 41.42 4.02
2377 3610 6.395780 TGGAAATTTACCCTATGAGGTGAA 57.604 37.500 0.00 0.00 41.42 3.18
2378 3611 6.423182 TGGAAATTTACCCTATGAGGTGAAG 58.577 40.000 0.00 0.00 38.63 3.02
2379 3612 5.299531 GGAAATTTACCCTATGAGGTGAAGC 59.700 44.000 0.00 0.00 38.63 3.86
2380 3613 5.450818 AATTTACCCTATGAGGTGAAGCA 57.549 39.130 0.00 0.00 38.63 3.91
2381 3614 4.487714 TTTACCCTATGAGGTGAAGCAG 57.512 45.455 0.00 0.00 41.42 4.24
2382 3615 2.254152 ACCCTATGAGGTGAAGCAGA 57.746 50.000 0.00 0.00 39.24 4.26
2383 3616 2.114616 ACCCTATGAGGTGAAGCAGAG 58.885 52.381 0.00 0.00 39.24 3.35
2384 3617 2.114616 CCCTATGAGGTGAAGCAGAGT 58.885 52.381 0.00 0.00 31.93 3.24
2385 3618 3.300388 CCCTATGAGGTGAAGCAGAGTA 58.700 50.000 0.00 0.00 31.93 2.59
2386 3619 3.068873 CCCTATGAGGTGAAGCAGAGTAC 59.931 52.174 0.00 0.00 31.93 2.73
2387 3620 3.068873 CCTATGAGGTGAAGCAGAGTACC 59.931 52.174 0.00 0.00 0.00 3.34
2388 3621 0.888619 TGAGGTGAAGCAGAGTACCG 59.111 55.000 0.00 0.00 38.24 4.02
2389 3622 0.458716 GAGGTGAAGCAGAGTACCGC 60.459 60.000 0.00 0.00 38.24 5.68
2390 3623 1.185618 AGGTGAAGCAGAGTACCGCA 61.186 55.000 2.77 0.00 38.24 5.69
2391 3624 0.737715 GGTGAAGCAGAGTACCGCAG 60.738 60.000 2.77 0.00 0.00 5.18
2392 3625 0.038159 GTGAAGCAGAGTACCGCAGT 60.038 55.000 2.77 0.00 0.00 4.40
2393 3626 0.038251 TGAAGCAGAGTACCGCAGTG 60.038 55.000 2.77 0.00 0.00 3.66
2394 3627 0.737715 GAAGCAGAGTACCGCAGTGG 60.738 60.000 0.00 0.00 46.41 4.00
2395 3628 2.788191 AAGCAGAGTACCGCAGTGGC 62.788 60.000 0.00 0.00 43.94 5.01
2396 3629 2.125512 CAGAGTACCGCAGTGGCC 60.126 66.667 0.00 0.00 43.94 5.36
2397 3630 2.603473 AGAGTACCGCAGTGGCCA 60.603 61.111 0.00 0.00 43.94 5.36
2398 3631 1.990060 AGAGTACCGCAGTGGCCAT 60.990 57.895 9.72 0.00 43.94 4.40
2399 3632 1.521681 GAGTACCGCAGTGGCCATC 60.522 63.158 9.72 2.38 43.94 3.51
2400 3633 2.238847 GAGTACCGCAGTGGCCATCA 62.239 60.000 9.72 0.00 43.94 3.07
2401 3634 1.376683 GTACCGCAGTGGCCATCAA 60.377 57.895 9.72 0.00 43.94 2.57
2402 3635 1.078497 TACCGCAGTGGCCATCAAG 60.078 57.895 9.72 0.88 43.94 3.02
2403 3636 2.535485 TACCGCAGTGGCCATCAAGG 62.535 60.000 9.72 13.72 43.94 3.61
2415 3648 3.555527 CCATCAAGGCTCAAGATCTGA 57.444 47.619 0.00 0.00 0.00 3.27
2416 3649 3.882444 CCATCAAGGCTCAAGATCTGAA 58.118 45.455 0.00 0.00 32.17 3.02
2417 3650 4.267536 CCATCAAGGCTCAAGATCTGAAA 58.732 43.478 0.00 0.00 32.17 2.69
2424 3657 4.704057 AGGCTCAAGATCTGAAAACCAATC 59.296 41.667 0.00 0.00 32.17 2.67
2451 3687 4.200092 ACCTCTGTTGTTTTCTTCAGGAC 58.800 43.478 0.00 0.00 0.00 3.85
2455 3691 6.017852 CCTCTGTTGTTTTCTTCAGGACTTAC 60.018 42.308 0.00 0.00 0.00 2.34
2571 3811 2.941064 GAGCTGCATCAACATTGCTCTA 59.059 45.455 11.77 0.00 42.28 2.43
2591 3832 7.444183 TGCTCTATATTTAACATAGGTGGCAAC 59.556 37.037 0.00 0.00 31.00 4.17
2660 3902 7.279536 GCAGATTCATGTCCATATATACACTGG 59.720 40.741 0.00 0.00 0.00 4.00
2751 3995 2.104963 GGGCTATCTCCTGATCCGTTTT 59.895 50.000 0.00 0.00 34.32 2.43
2802 4046 3.073446 CGCTTCCTCTTCGCGTTC 58.927 61.111 5.77 0.00 41.78 3.95
2927 4171 1.135689 GCACAGGAAGCATGGTTAACG 60.136 52.381 10.70 4.24 0.00 3.18
2932 4176 3.980775 CAGGAAGCATGGTTAACGTTTTG 59.019 43.478 10.70 0.00 0.00 2.44
3122 4366 2.102420 TGCACCGAGTTTTCTCTTCTCA 59.898 45.455 0.00 0.00 44.16 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 9.412460 TGGATTTGTGAATAAGAATGCTTCTAT 57.588 29.630 0.00 0.00 39.61 1.98
18 19 8.806429 TGGATTTGTGAATAAGAATGCTTCTA 57.194 30.769 0.00 0.00 39.61 2.10
19 20 7.707624 TGGATTTGTGAATAAGAATGCTTCT 57.292 32.000 0.00 0.00 43.15 2.85
20 21 8.031277 ACTTGGATTTGTGAATAAGAATGCTTC 58.969 33.333 0.00 0.00 35.56 3.86
21 22 7.816031 CACTTGGATTTGTGAATAAGAATGCTT 59.184 33.333 0.00 0.00 36.38 3.91
22 23 7.318141 CACTTGGATTTGTGAATAAGAATGCT 58.682 34.615 0.00 0.00 36.38 3.79
23 24 6.035327 GCACTTGGATTTGTGAATAAGAATGC 59.965 38.462 0.00 0.00 36.38 3.56
24 25 7.274904 CAGCACTTGGATTTGTGAATAAGAATG 59.725 37.037 0.00 0.00 36.38 2.67
25 26 7.177216 TCAGCACTTGGATTTGTGAATAAGAAT 59.823 33.333 0.00 0.00 36.38 2.40
26 27 6.489700 TCAGCACTTGGATTTGTGAATAAGAA 59.510 34.615 0.00 0.00 36.38 2.52
27 28 6.003326 TCAGCACTTGGATTTGTGAATAAGA 58.997 36.000 0.00 0.00 36.38 2.10
28 29 6.258230 TCAGCACTTGGATTTGTGAATAAG 57.742 37.500 0.00 0.00 36.38 1.73
29 30 5.335897 GCTCAGCACTTGGATTTGTGAATAA 60.336 40.000 0.00 0.00 36.38 1.40
30 31 4.156556 GCTCAGCACTTGGATTTGTGAATA 59.843 41.667 0.00 0.00 36.38 1.75
31 32 3.057033 GCTCAGCACTTGGATTTGTGAAT 60.057 43.478 0.00 0.00 36.38 2.57
32 33 2.294233 GCTCAGCACTTGGATTTGTGAA 59.706 45.455 0.00 0.00 36.38 3.18
33 34 1.881973 GCTCAGCACTTGGATTTGTGA 59.118 47.619 0.00 0.00 36.38 3.58
34 35 1.884579 AGCTCAGCACTTGGATTTGTG 59.115 47.619 0.00 0.00 37.26 3.33
35 36 1.884579 CAGCTCAGCACTTGGATTTGT 59.115 47.619 0.00 0.00 0.00 2.83
36 37 2.095364 GTCAGCTCAGCACTTGGATTTG 60.095 50.000 0.00 0.00 0.00 2.32
37 38 2.157738 GTCAGCTCAGCACTTGGATTT 58.842 47.619 0.00 0.00 0.00 2.17
38 39 1.612726 GGTCAGCTCAGCACTTGGATT 60.613 52.381 0.00 0.00 0.00 3.01
39 40 0.035630 GGTCAGCTCAGCACTTGGAT 60.036 55.000 0.00 0.00 0.00 3.41
40 41 1.372683 GGTCAGCTCAGCACTTGGA 59.627 57.895 0.00 0.00 0.00 3.53
41 42 1.673665 GGGTCAGCTCAGCACTTGG 60.674 63.158 0.00 0.00 0.00 3.61
42 43 0.610174 TAGGGTCAGCTCAGCACTTG 59.390 55.000 0.00 0.00 0.00 3.16
43 44 0.901124 CTAGGGTCAGCTCAGCACTT 59.099 55.000 0.00 0.00 0.00 3.16
44 45 0.975040 CCTAGGGTCAGCTCAGCACT 60.975 60.000 0.00 0.00 0.00 4.40
45 46 1.519719 CCTAGGGTCAGCTCAGCAC 59.480 63.158 0.00 0.00 0.00 4.40
46 47 1.687146 CCCTAGGGTCAGCTCAGCA 60.687 63.158 20.88 0.00 0.00 4.41
47 48 3.100503 GCCCTAGGGTCAGCTCAGC 62.101 68.421 28.96 7.40 37.65 4.26
48 49 1.382420 AGCCCTAGGGTCAGCTCAG 60.382 63.158 28.96 0.27 37.65 3.35
49 50 2.780693 AGCCCTAGGGTCAGCTCA 59.219 61.111 28.96 0.00 37.65 4.26
56 57 0.044855 AACATCCTGAGCCCTAGGGT 59.955 55.000 28.96 15.71 35.96 4.34
57 58 1.141858 GAAACATCCTGAGCCCTAGGG 59.858 57.143 24.89 24.89 35.96 3.53
58 59 1.141858 GGAAACATCCTGAGCCCTAGG 59.858 57.143 0.06 0.06 36.63 3.02
59 60 2.122768 AGGAAACATCCTGAGCCCTAG 58.877 52.381 0.00 0.00 38.98 3.02
60 61 2.270434 AGGAAACATCCTGAGCCCTA 57.730 50.000 0.00 0.00 38.98 3.53
61 62 3.111265 AGGAAACATCCTGAGCCCT 57.889 52.632 0.00 0.00 38.98 5.19
73 74 8.272060 GAATTCCATTCAATTCCCACAGGAAAC 61.272 40.741 0.00 0.00 45.59 2.78
74 75 6.295802 GAATTCCATTCAATTCCCACAGGAAA 60.296 38.462 0.00 0.00 45.59 3.13
75 76 5.187576 GAATTCCATTCAATTCCCACAGGAA 59.812 40.000 0.00 0.00 46.03 3.36
76 77 3.824001 TTCCATTCAATTCCCACAGGA 57.176 42.857 0.00 0.00 41.88 3.86
77 78 4.713321 AGAATTCCATTCAATTCCCACAGG 59.287 41.667 0.65 0.00 41.82 4.00
78 79 5.927281 AGAATTCCATTCAATTCCCACAG 57.073 39.130 0.65 0.00 41.82 3.66
79 80 5.543405 ACAAGAATTCCATTCAATTCCCACA 59.457 36.000 0.65 0.00 41.82 4.17
80 81 6.041423 ACAAGAATTCCATTCAATTCCCAC 57.959 37.500 0.65 0.00 41.82 4.61
81 82 7.789202 TTACAAGAATTCCATTCAATTCCCA 57.211 32.000 0.65 0.00 41.82 4.37
122 123 5.269505 AGCAGTGTTATCTCCATCTGTAC 57.730 43.478 0.00 0.00 0.00 2.90
142 143 2.742589 GTGCAACTTTGTAGGGAGTAGC 59.257 50.000 0.00 0.00 0.00 3.58
163 164 7.514784 TCCATATTGATTGATGCTGGTTTAG 57.485 36.000 0.00 0.00 0.00 1.85
168 169 6.420638 TCCTATCCATATTGATTGATGCTGG 58.579 40.000 0.00 0.00 0.00 4.85
172 173 7.092533 ACTCCCTCCTATCCATATTGATTGATG 60.093 40.741 0.00 0.00 0.00 3.07
179 180 7.415086 ACTAGTACTCCCTCCTATCCATATTG 58.585 42.308 0.00 0.00 0.00 1.90
185 186 5.839517 TGTACTAGTACTCCCTCCTATCC 57.160 47.826 28.56 3.45 37.00 2.59
187 188 7.651229 AAGATGTACTAGTACTCCCTCCTAT 57.349 40.000 28.56 14.36 37.00 2.57
188 189 7.463054 AAAGATGTACTAGTACTCCCTCCTA 57.537 40.000 28.56 10.53 37.00 2.94
189 190 5.998128 AAGATGTACTAGTACTCCCTCCT 57.002 43.478 28.56 15.34 37.00 3.69
190 191 6.683360 GCAAAAGATGTACTAGTACTCCCTCC 60.683 46.154 28.56 13.76 37.00 4.30
191 192 6.127423 TGCAAAAGATGTACTAGTACTCCCTC 60.127 42.308 28.56 19.88 37.00 4.30
192 193 5.720041 TGCAAAAGATGTACTAGTACTCCCT 59.280 40.000 28.56 20.10 37.00 4.20
193 194 5.974108 TGCAAAAGATGTACTAGTACTCCC 58.026 41.667 28.56 18.56 37.00 4.30
194 195 7.466050 GCATTGCAAAAGATGTACTAGTACTCC 60.466 40.741 28.56 20.59 37.00 3.85
195 196 7.064609 TGCATTGCAAAAGATGTACTAGTACTC 59.935 37.037 28.56 22.51 34.76 2.59
196 197 6.878923 TGCATTGCAAAAGATGTACTAGTACT 59.121 34.615 28.56 16.82 34.76 2.73
197 198 7.072177 TGCATTGCAAAAGATGTACTAGTAC 57.928 36.000 23.58 23.58 34.76 2.73
198 199 7.864108 ATGCATTGCAAAAGATGTACTAGTA 57.136 32.000 16.46 0.00 43.62 1.82
199 200 6.764308 ATGCATTGCAAAAGATGTACTAGT 57.236 33.333 16.46 0.00 43.62 2.57
283 285 4.360889 TGAAACCAGGGATGCCATTTAAT 58.639 39.130 5.86 0.00 0.00 1.40
306 308 2.452505 GTTTATTTGTGGGGGCTAGCA 58.547 47.619 18.24 0.00 0.00 3.49
311 313 1.153920 CGCGTTTATTTGTGGGGGC 60.154 57.895 0.00 0.00 0.00 5.80
327 329 3.175929 CCAATATTTTGTTCCCGTTCGC 58.824 45.455 0.00 0.00 0.00 4.70
574 584 8.279695 TGTTGTTATGAAAATGTTCACGAATG 57.720 30.769 0.00 0.00 46.40 2.67
625 642 6.550843 TGGCTCGTTTTCATGTATGTATTTG 58.449 36.000 0.00 0.00 0.00 2.32
656 675 3.582164 AGTAAACAAAATCCTGGCCCAA 58.418 40.909 0.00 0.00 0.00 4.12
657 676 3.252554 AGTAAACAAAATCCTGGCCCA 57.747 42.857 0.00 0.00 0.00 5.36
832 851 9.381027 GCCCTTTTATTTGAAAATTCGAAAAAG 57.619 29.630 0.00 3.40 34.45 2.27
930 968 6.183360 ACGAACCCTAGTACACTTTGTTTTTG 60.183 38.462 0.00 0.00 0.00 2.44
958 996 0.179100 AACGATCGATGAGTGGCCAG 60.179 55.000 24.34 0.00 0.00 4.85
960 998 0.876342 GGAACGATCGATGAGTGGCC 60.876 60.000 24.34 2.14 0.00 5.36
961 999 0.876342 GGGAACGATCGATGAGTGGC 60.876 60.000 24.34 0.00 0.00 5.01
1144 1201 1.727467 GCCGCGAGCATAAAACCAT 59.273 52.632 8.23 0.00 42.97 3.55
1173 1230 4.266070 GCTGGCTGCGCATCCATG 62.266 66.667 31.32 24.22 0.00 3.66
1243 1300 2.787473 AATTCCTCCGATGCACAGAA 57.213 45.000 0.00 0.00 0.00 3.02
1251 1308 4.202264 CCAGTGCTACTTAATTCCTCCGAT 60.202 45.833 0.00 0.00 0.00 4.18
1253 1310 3.118738 ACCAGTGCTACTTAATTCCTCCG 60.119 47.826 0.00 0.00 0.00 4.63
1269 1326 6.867550 TCAGAGATGTACAAAGATACCAGTG 58.132 40.000 0.00 0.00 0.00 3.66
1273 2456 7.540400 CGATCATCAGAGATGTACAAAGATACC 59.460 40.741 0.00 0.00 0.00 2.73
1399 2597 1.508632 CCGTCGTTTGACCTGAACAT 58.491 50.000 0.00 0.00 42.37 2.71
1422 2620 2.105528 CCGTAATCGTCCCACCCG 59.894 66.667 0.00 0.00 35.01 5.28
1483 2681 0.806102 CTGGTGAACAGGCGTATCCG 60.806 60.000 0.00 0.00 43.70 4.18
1484 2682 3.065575 CTGGTGAACAGGCGTATCC 57.934 57.895 0.00 0.00 43.70 2.59
1508 2706 1.340889 GTGCTGGAAGGAAACATTGCA 59.659 47.619 0.00 0.00 34.45 4.08
1512 2710 7.118723 TCTTATATTGTGCTGGAAGGAAACAT 58.881 34.615 0.00 0.00 34.45 2.71
1515 2713 7.118723 ACATCTTATATTGTGCTGGAAGGAAA 58.881 34.615 0.00 0.00 34.45 3.13
1525 2728 9.594038 CGGTTGTAATAACATCTTATATTGTGC 57.406 33.333 0.00 0.00 34.97 4.57
1600 2803 0.461339 CCCAACGTACGATGAAGGGG 60.461 60.000 25.00 18.18 0.00 4.79
1611 2814 1.122632 TCAGTGAAGCCCCCAACGTA 61.123 55.000 0.00 0.00 0.00 3.57
1614 2817 0.329596 AGATCAGTGAAGCCCCCAAC 59.670 55.000 0.00 0.00 0.00 3.77
1622 2825 5.047731 TGAGTGACAACCTAGATCAGTGAAG 60.048 44.000 0.00 0.00 0.00 3.02
1626 2829 4.161189 CCATGAGTGACAACCTAGATCAGT 59.839 45.833 0.00 0.00 0.00 3.41
1663 2869 0.398696 ACCCCTGCGACAAACATACA 59.601 50.000 0.00 0.00 0.00 2.29
1681 2890 1.380524 TCTCCTTCTCCGATGTCGAC 58.619 55.000 9.11 9.11 43.02 4.20
1783 2992 2.453242 AAGGGCTTCTTCACCTCGT 58.547 52.632 0.00 0.00 32.29 4.18
1800 3009 0.773644 AAGCAGGGGAAGCAAGAGAA 59.226 50.000 0.00 0.00 0.00 2.87
1821 3030 3.520696 TGAATGTTGAGAGAAGAGGGGA 58.479 45.455 0.00 0.00 0.00 4.81
1827 3047 5.871524 TCGGAGATTTGAATGTTGAGAGAAG 59.128 40.000 0.00 0.00 0.00 2.85
1862 3082 2.997485 AACTTCCATCTCTTTTGCGC 57.003 45.000 0.00 0.00 0.00 6.09
1901 3127 5.068591 AGCGGAACAAAGAAAATAAAGGTGT 59.931 36.000 0.00 0.00 0.00 4.16
1903 3129 5.535030 AGAGCGGAACAAAGAAAATAAAGGT 59.465 36.000 0.00 0.00 0.00 3.50
1914 3140 0.662619 TGCAACAGAGCGGAACAAAG 59.337 50.000 0.00 0.00 37.31 2.77
1923 3149 2.570181 GGTGCCATGCAACAGAGC 59.430 61.111 0.00 0.00 46.68 4.09
1950 3176 0.243907 CCCTGCGAGAGAGAAAACGA 59.756 55.000 0.00 0.00 0.00 3.85
1952 3178 1.715993 GTCCCTGCGAGAGAGAAAAC 58.284 55.000 0.00 0.00 0.00 2.43
1954 3180 0.894184 ACGTCCCTGCGAGAGAGAAA 60.894 55.000 0.00 0.00 35.59 2.52
2066 3296 5.005971 ACATTCGCATTAGCATTTTCATTGC 59.994 36.000 0.00 0.00 42.27 3.56
2088 3318 7.636259 GCTTAAAGCATAATGAAACAACACA 57.364 32.000 0.00 0.00 41.89 3.72
2199 3429 4.175337 GCGCCACTGCCATCCCTA 62.175 66.667 0.00 0.00 0.00 3.53
2208 3438 2.586079 CTACCATCGGCGCCACTG 60.586 66.667 28.98 21.86 0.00 3.66
2234 3464 3.683365 ACATCAAAGGGGTTTGATTGC 57.317 42.857 10.03 0.00 46.24 3.56
2280 3510 7.496591 ACAAAACAATGAAAAATCTGTGCTGAT 59.503 29.630 0.00 0.00 0.00 2.90
2287 3517 6.037391 ACCTGCACAAAACAATGAAAAATCTG 59.963 34.615 0.00 0.00 0.00 2.90
2295 3527 2.622942 GAGGACCTGCACAAAACAATGA 59.377 45.455 0.00 0.00 0.00 2.57
2311 3543 4.353383 AGGGTAAACTGTTCTTGAGGAC 57.647 45.455 0.00 0.00 0.00 3.85
2354 3587 6.395780 TTCACCTCATAGGGTAAATTTCCA 57.604 37.500 0.00 0.00 40.58 3.53
2363 3596 2.114616 CTCTGCTTCACCTCATAGGGT 58.885 52.381 0.00 0.00 40.58 4.34
2364 3597 2.114616 ACTCTGCTTCACCTCATAGGG 58.885 52.381 0.00 0.00 40.58 3.53
2365 3598 3.068873 GGTACTCTGCTTCACCTCATAGG 59.931 52.174 0.00 0.00 42.49 2.57
2366 3599 3.243234 CGGTACTCTGCTTCACCTCATAG 60.243 52.174 0.00 0.00 0.00 2.23
2367 3600 2.688446 CGGTACTCTGCTTCACCTCATA 59.312 50.000 0.00 0.00 0.00 2.15
2368 3601 1.478510 CGGTACTCTGCTTCACCTCAT 59.521 52.381 0.00 0.00 0.00 2.90
2369 3602 0.888619 CGGTACTCTGCTTCACCTCA 59.111 55.000 0.00 0.00 0.00 3.86
2370 3603 0.458716 GCGGTACTCTGCTTCACCTC 60.459 60.000 0.00 0.00 42.20 3.85
2371 3604 1.185618 TGCGGTACTCTGCTTCACCT 61.186 55.000 0.00 0.00 45.38 4.00
2372 3605 0.737715 CTGCGGTACTCTGCTTCACC 60.738 60.000 0.00 0.00 45.38 4.02
2373 3606 0.038159 ACTGCGGTACTCTGCTTCAC 60.038 55.000 0.00 0.00 45.38 3.18
2374 3607 0.038251 CACTGCGGTACTCTGCTTCA 60.038 55.000 0.00 0.00 45.38 3.02
2375 3608 0.737715 CCACTGCGGTACTCTGCTTC 60.738 60.000 0.00 0.00 45.38 3.86
2376 3609 1.293498 CCACTGCGGTACTCTGCTT 59.707 57.895 0.00 0.00 45.38 3.91
2377 3610 2.973899 CCACTGCGGTACTCTGCT 59.026 61.111 0.00 0.00 45.38 4.24
2378 3611 2.815647 GCCACTGCGGTACTCTGC 60.816 66.667 0.00 0.00 45.37 4.26
2379 3612 2.125512 GGCCACTGCGGTACTCTG 60.126 66.667 0.00 0.00 38.85 3.35
2380 3613 1.961180 GATGGCCACTGCGGTACTCT 61.961 60.000 8.16 0.00 38.85 3.24
2381 3614 1.521681 GATGGCCACTGCGGTACTC 60.522 63.158 8.16 0.00 38.85 2.59
2382 3615 1.836999 TTGATGGCCACTGCGGTACT 61.837 55.000 8.16 0.00 38.85 2.73
2383 3616 1.369091 CTTGATGGCCACTGCGGTAC 61.369 60.000 8.16 0.00 38.85 3.34
2384 3617 1.078497 CTTGATGGCCACTGCGGTA 60.078 57.895 8.16 0.00 38.85 4.02
2385 3618 2.360350 CTTGATGGCCACTGCGGT 60.360 61.111 8.16 0.00 38.85 5.68
2386 3619 3.136123 CCTTGATGGCCACTGCGG 61.136 66.667 8.16 2.50 38.85 5.69
2395 3628 3.555527 TCAGATCTTGAGCCTTGATGG 57.444 47.619 0.00 0.00 39.35 3.51
2396 3629 5.392811 GGTTTTCAGATCTTGAGCCTTGATG 60.393 44.000 0.00 0.00 37.07 3.07
2397 3630 4.704057 GGTTTTCAGATCTTGAGCCTTGAT 59.296 41.667 0.00 0.00 37.07 2.57
2398 3631 4.074970 GGTTTTCAGATCTTGAGCCTTGA 58.925 43.478 0.00 0.00 37.07 3.02
2399 3632 3.822735 TGGTTTTCAGATCTTGAGCCTTG 59.177 43.478 0.00 0.00 37.07 3.61
2400 3633 4.104383 TGGTTTTCAGATCTTGAGCCTT 57.896 40.909 0.00 0.00 37.07 4.35
2401 3634 3.795688 TGGTTTTCAGATCTTGAGCCT 57.204 42.857 0.00 0.00 37.07 4.58
2402 3635 4.460382 TGATTGGTTTTCAGATCTTGAGCC 59.540 41.667 0.00 0.00 37.07 4.70
2403 3636 5.633830 TGATTGGTTTTCAGATCTTGAGC 57.366 39.130 0.00 0.00 37.07 4.26
2404 3637 9.565213 GTTATTGATTGGTTTTCAGATCTTGAG 57.435 33.333 0.00 0.00 37.07 3.02
2405 3638 8.522830 GGTTATTGATTGGTTTTCAGATCTTGA 58.477 33.333 0.00 0.00 0.00 3.02
2406 3639 8.526147 AGGTTATTGATTGGTTTTCAGATCTTG 58.474 33.333 0.00 0.00 0.00 3.02
2407 3640 8.655935 AGGTTATTGATTGGTTTTCAGATCTT 57.344 30.769 0.00 0.00 0.00 2.40
2408 3641 8.112183 AGAGGTTATTGATTGGTTTTCAGATCT 58.888 33.333 0.00 0.00 0.00 2.75
2409 3642 8.186821 CAGAGGTTATTGATTGGTTTTCAGATC 58.813 37.037 0.00 0.00 0.00 2.75
2410 3643 7.671398 ACAGAGGTTATTGATTGGTTTTCAGAT 59.329 33.333 0.00 0.00 0.00 2.90
2411 3644 7.004086 ACAGAGGTTATTGATTGGTTTTCAGA 58.996 34.615 0.00 0.00 0.00 3.27
2412 3645 7.219484 ACAGAGGTTATTGATTGGTTTTCAG 57.781 36.000 0.00 0.00 0.00 3.02
2413 3646 7.069331 ACAACAGAGGTTATTGATTGGTTTTCA 59.931 33.333 0.00 0.00 34.87 2.69
2414 3647 7.433680 ACAACAGAGGTTATTGATTGGTTTTC 58.566 34.615 0.00 0.00 34.87 2.29
2415 3648 7.360113 ACAACAGAGGTTATTGATTGGTTTT 57.640 32.000 0.00 0.00 34.87 2.43
2416 3649 6.976934 ACAACAGAGGTTATTGATTGGTTT 57.023 33.333 0.00 0.00 34.87 3.27
2417 3650 6.976934 AACAACAGAGGTTATTGATTGGTT 57.023 33.333 0.00 0.00 34.87 3.67
2424 3657 7.013274 TCCTGAAGAAAACAACAGAGGTTATTG 59.987 37.037 0.00 0.00 34.87 1.90
2451 3687 7.410120 AAAAAGGGCATCCTAATTCAGTAAG 57.590 36.000 0.00 0.00 44.07 2.34
2455 3691 4.734695 GCGAAAAAGGGCATCCTAATTCAG 60.735 45.833 0.00 0.00 44.07 3.02
2571 3811 7.710676 TGTTGTTGCCACCTATGTTAAATAT 57.289 32.000 0.00 0.00 0.00 1.28
2591 3832 4.333649 CCTGGTCTAATGTGTAGCATGTTG 59.666 45.833 0.00 0.00 37.96 3.33
2646 3888 5.308014 ACATGTGTGCCAGTGTATATATGG 58.692 41.667 0.00 0.00 37.15 2.74
2660 3902 3.303990 CCTTGTGTGTAAGACATGTGTGC 60.304 47.826 1.15 0.00 41.01 4.57
2751 3995 1.304962 TCTAGCCAAGACCGCCTCA 60.305 57.895 0.00 0.00 0.00 3.86
2802 4046 2.125912 CCTGGCAAGACCGACGAG 60.126 66.667 0.00 0.00 43.94 4.18
2909 4153 2.561478 ACGTTAACCATGCTTCCTGT 57.439 45.000 0.00 0.00 0.00 4.00
2927 4171 3.738282 TGCGCCACATTGTTTATCAAAAC 59.262 39.130 4.18 0.00 44.40 2.43
2932 4176 2.098934 TCCATGCGCCACATTGTTTATC 59.901 45.455 4.18 0.00 36.64 1.75
3122 4366 6.126863 TCTTGTAGGAAAATGACCACAGAT 57.873 37.500 0.00 0.00 0.00 2.90
3156 4400 4.242475 GTGCCAAGCCTAAAAACATTACC 58.758 43.478 0.00 0.00 0.00 2.85
3161 4406 1.044611 GGGTGCCAAGCCTAAAAACA 58.955 50.000 0.00 0.00 41.05 2.83


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

AutoCloner maintained by Alex Coulton.