Multiple sequence alignment - TraesCS3A01G359700

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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 TraesCS3A01G359700 chr3A 100.000 2833 0 0 1 2833 607485770 607488602 0.000000e+00 5232.0
1 TraesCS3A01G359700 chr3A 79.983 1159 136 49 737 1861 607466811 607467907 0.000000e+00 767.0
2 TraesCS3A01G359700 chr3A 88.462 520 50 6 1347 1859 607461866 607462382 1.110000e-173 619.0
3 TraesCS3A01G359700 chr3A 92.941 85 5 1 1173 1256 607448086 607448170 3.830000e-24 122.0
4 TraesCS3A01G359700 chr3B 85.870 1557 116 38 461 1943 618001780 618003306 0.000000e+00 1561.0
5 TraesCS3A01G359700 chr3B 81.937 1146 134 46 737 1857 617886511 617887608 0.000000e+00 902.0
6 TraesCS3A01G359700 chr3B 80.000 980 110 48 804 1754 617988021 617988943 0.000000e+00 645.0
7 TraesCS3A01G359700 chr3B 93.182 44 3 0 1753 1796 617989040 617989083 6.550000e-07 65.8
8 TraesCS3A01G359700 chr3D 85.382 1546 126 41 568 2029 464330493 464332022 0.000000e+00 1511.0
9 TraesCS3A01G359700 chr3D 79.642 1174 141 61 737 1858 464316053 464317180 0.000000e+00 754.0
10 TraesCS3A01G359700 chr3D 81.335 809 118 20 971 1754 464323751 464324551 6.660000e-176 627.0
11 TraesCS3A01G359700 chr3D 87.500 488 49 6 1 483 464328994 464329474 1.150000e-153 553.0
12 TraesCS3A01G359700 chr3D 86.000 150 21 0 1605 1754 464311344 464311493 8.120000e-36 161.0
13 TraesCS3A01G359700 chr3D 88.506 87 10 0 1753 1839 464324639 464324725 3.860000e-19 106.0
14 TraesCS3A01G359700 chr3D 97.297 37 1 0 209 245 578749268 578749232 2.360000e-06 63.9
15 TraesCS3A01G359700 chr5B 82.836 536 58 24 2217 2722 20827878 20828409 1.550000e-122 449.0
16 TraesCS3A01G359700 chr5B 90.104 192 15 4 2027 2216 20827658 20827847 2.180000e-61 246.0
17 TraesCS3A01G359700 chr5B 93.750 80 5 0 1176 1255 206763538 206763459 1.380000e-23 121.0
18 TraesCS3A01G359700 chr5B 83.077 130 15 4 1143 1272 609877085 609876963 8.300000e-21 111.0
19 TraesCS3A01G359700 chr5B 100.000 29 0 0 210 238 598055445 598055473 1.000000e-03 54.7
20 TraesCS3A01G359700 chr6B 92.105 152 12 0 1349 1500 159093630 159093479 6.150000e-52 215.0
21 TraesCS3A01G359700 chr6D 84.677 124 17 1 1128 1251 58109614 58109493 3.830000e-24 122.0
22 TraesCS3A01G359700 chr5A 83.871 124 17 3 1128 1251 267897400 267897280 6.410000e-22 115.0
23 TraesCS3A01G359700 chrUn 88.889 45 5 0 2027 2071 53724310 53724354 3.940000e-04 56.5


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 TraesCS3A01G359700 chr3A 607485770 607488602 2832 False 5232.0 5232 100.0000 1 2833 1 chr3A.!!$F4 2832
1 TraesCS3A01G359700 chr3A 607466811 607467907 1096 False 767.0 767 79.9830 737 1861 1 chr3A.!!$F3 1124
2 TraesCS3A01G359700 chr3A 607461866 607462382 516 False 619.0 619 88.4620 1347 1859 1 chr3A.!!$F2 512
3 TraesCS3A01G359700 chr3B 618001780 618003306 1526 False 1561.0 1561 85.8700 461 1943 1 chr3B.!!$F2 1482
4 TraesCS3A01G359700 chr3B 617886511 617887608 1097 False 902.0 902 81.9370 737 1857 1 chr3B.!!$F1 1120
5 TraesCS3A01G359700 chr3B 617988021 617989083 1062 False 355.4 645 86.5910 804 1796 2 chr3B.!!$F3 992
6 TraesCS3A01G359700 chr3D 464328994 464332022 3028 False 1032.0 1511 86.4410 1 2029 2 chr3D.!!$F4 2028
7 TraesCS3A01G359700 chr3D 464316053 464317180 1127 False 754.0 754 79.6420 737 1858 1 chr3D.!!$F2 1121
8 TraesCS3A01G359700 chr3D 464323751 464324725 974 False 366.5 627 84.9205 971 1839 2 chr3D.!!$F3 868
9 TraesCS3A01G359700 chr5B 20827658 20828409 751 False 347.5 449 86.4700 2027 2722 2 chr5B.!!$F2 695

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
545 1458 0.729478 CTATGGATCTACGCACGCCG 60.729 60.0 0.0 0.0 44.21 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2075 3374 0.105039 CCAGCGAGAACTACATCCCC 59.895 60.0 0.0 0.0 0.0 4.81 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
30 31 4.727734 GCGGAGTACATAACAAGCACAATG 60.728 45.833 0.00 0.00 0.00 2.82
36 37 5.063180 ACATAACAAGCACAATGATGGTG 57.937 39.130 0.00 0.00 39.25 4.17
39 40 2.596346 ACAAGCACAATGATGGTGGAA 58.404 42.857 1.57 0.00 36.76 3.53
68 69 4.527816 ACAATGCATGAGTTTAACACCCAT 59.472 37.500 0.00 0.00 0.00 4.00
71 72 3.505680 TGCATGAGTTTAACACCCATGAC 59.494 43.478 20.49 14.68 37.41 3.06
72 73 3.758554 GCATGAGTTTAACACCCATGACT 59.241 43.478 20.49 0.00 37.41 3.41
80 81 7.231467 AGTTTAACACCCATGACTAAGTCAAT 58.769 34.615 0.00 0.00 45.96 2.57
81 82 7.724061 AGTTTAACACCCATGACTAAGTCAATT 59.276 33.333 0.00 0.00 45.96 2.32
110 111 1.535462 CAACAACGCCTACAAGAAGGG 59.465 52.381 0.00 0.00 37.11 3.95
116 117 2.167900 ACGCCTACAAGAAGGGATACAC 59.832 50.000 0.00 0.00 37.11 2.90
142 143 3.799755 GCCATCGTTGCCGTGTCC 61.800 66.667 0.00 0.00 35.01 4.02
148 149 4.980805 GTTGCCGTGTCCAGCCGA 62.981 66.667 0.00 0.00 0.00 5.54
177 178 7.362056 GCAGTAAGCACAAGGATTTTCATTCTA 60.362 37.037 0.00 0.00 44.79 2.10
181 182 7.530426 AGCACAAGGATTTTCATTCTAGTTT 57.470 32.000 0.00 0.00 0.00 2.66
182 183 8.635765 AGCACAAGGATTTTCATTCTAGTTTA 57.364 30.769 0.00 0.00 0.00 2.01
189 190 9.319143 AGGATTTTCATTCTAGTTTATGAGACG 57.681 33.333 0.00 0.00 32.76 4.18
192 193 9.667107 ATTTTCATTCTAGTTTATGAGACGGAA 57.333 29.630 0.00 0.00 32.76 4.30
197 198 7.827819 TTCTAGTTTATGAGACGGAACAATG 57.172 36.000 0.00 0.00 0.00 2.82
207 208 1.818674 ACGGAACAATGAAGGCCAATC 59.181 47.619 5.01 3.05 0.00 2.67
208 209 1.134946 CGGAACAATGAAGGCCAATCC 59.865 52.381 5.01 0.00 0.00 3.01
211 212 3.181472 GGAACAATGAAGGCCAATCCATC 60.181 47.826 5.01 0.00 37.29 3.51
226 227 1.699083 TCCATCAGCAAGGAGACAACA 59.301 47.619 0.00 0.00 0.00 3.33
245 246 3.845625 CCTTCAACAAGGCAACGAC 57.154 52.632 0.00 0.00 43.14 4.34
248 249 1.440938 TTCAACAAGGCAACGACGGG 61.441 55.000 0.00 0.00 46.39 5.28
274 275 4.884247 AGACCTGTTGTAAAGTAGACTGC 58.116 43.478 0.00 0.00 0.00 4.40
288 289 6.259550 AGTAGACTGCACCAAATCAAATTC 57.740 37.500 0.00 0.00 0.00 2.17
289 290 4.525912 AGACTGCACCAAATCAAATTCC 57.474 40.909 0.00 0.00 0.00 3.01
290 291 3.896888 AGACTGCACCAAATCAAATTCCA 59.103 39.130 0.00 0.00 0.00 3.53
327 328 4.332428 AAAACTAGTACACGTTCAGGCT 57.668 40.909 0.00 0.00 0.00 4.58
349 350 3.575256 TGGTAAAGTAGGCTTCTTGTCGA 59.425 43.478 7.17 0.00 33.01 4.20
358 359 5.262588 AGGCTTCTTGTCGATTTTGTTTT 57.737 34.783 0.00 0.00 0.00 2.43
359 360 5.281727 AGGCTTCTTGTCGATTTTGTTTTC 58.718 37.500 0.00 0.00 0.00 2.29
360 361 5.040635 GGCTTCTTGTCGATTTTGTTTTCA 58.959 37.500 0.00 0.00 0.00 2.69
376 377 4.030753 TGTTTTCACGCACGTTTGAATTTC 59.969 37.500 5.16 0.00 31.87 2.17
400 401 2.757868 TCCCCTGTGTTTCTTGTGTTTG 59.242 45.455 0.00 0.00 0.00 2.93
405 406 5.276270 CCTGTGTTTCTTGTGTTTGATGAG 58.724 41.667 0.00 0.00 0.00 2.90
409 410 5.750067 GTGTTTCTTGTGTTTGATGAGCAAT 59.250 36.000 0.00 0.00 36.15 3.56
444 450 3.961182 TCTTAGGCGCTTGTATAAGACG 58.039 45.455 7.64 7.42 35.92 4.18
537 1450 4.230657 CTGCTACGTTGCTATGGATCTAC 58.769 47.826 22.01 0.00 0.00 2.59
538 1451 3.235195 GCTACGTTGCTATGGATCTACG 58.765 50.000 14.88 0.00 37.43 3.51
539 1452 2.135664 ACGTTGCTATGGATCTACGC 57.864 50.000 0.00 0.00 35.49 4.42
545 1458 0.729478 CTATGGATCTACGCACGCCG 60.729 60.000 0.00 0.00 44.21 6.46
549 1462 0.874607 GGATCTACGCACGCCGATTT 60.875 55.000 2.93 0.00 41.02 2.17
587 1527 3.064931 CAACTCCAAGTACGTTTCTCCC 58.935 50.000 0.00 0.00 0.00 4.30
682 1622 1.080772 TCGACGTCAGTGATGGCAC 60.081 57.895 18.35 7.51 45.49 5.01
693 1633 4.740822 ATGGCACGTGAAGGGGGC 62.741 66.667 22.23 3.46 0.00 5.80
743 1702 1.293498 GCGAGCTTCCTCAACTCCA 59.707 57.895 0.00 0.00 38.00 3.86
854 1818 1.740296 ACCTCAATTCCGAACGCCG 60.740 57.895 0.00 0.00 38.18 6.46
883 1847 1.004440 AACAAGAGCGACAGGCCTC 60.004 57.895 0.00 0.00 45.17 4.70
884 1848 2.125350 CAAGAGCGACAGGCCTCC 60.125 66.667 0.00 0.00 45.17 4.30
885 1849 3.394836 AAGAGCGACAGGCCTCCC 61.395 66.667 0.00 0.00 45.17 4.30
966 1952 2.557490 GTGTCGGTGGGAGAGGATATAC 59.443 54.545 0.00 0.00 0.00 1.47
976 1962 6.270231 GTGGGAGAGGATATACATTGGTTAGT 59.730 42.308 0.00 0.00 0.00 2.24
1004 1996 1.938577 CAAGATCGACAGAGCAATGGG 59.061 52.381 0.00 0.00 34.73 4.00
1017 2009 3.268103 AATGGGGCGCGGTCTTCTT 62.268 57.895 8.83 0.00 0.00 2.52
1103 2131 0.245539 CGCCTTCCGTAGAACTTGGA 59.754 55.000 0.00 0.00 0.00 3.53
1107 2135 2.678336 CCTTCCGTAGAACTTGGATTGC 59.322 50.000 0.00 0.00 0.00 3.56
1113 2141 1.826385 AGAACTTGGATTGCCTTCGG 58.174 50.000 0.00 0.00 34.31 4.30
1125 2153 1.202710 TGCCTTCGGTTTGCTCTGTTA 60.203 47.619 0.00 0.00 0.00 2.41
1126 2154 2.084546 GCCTTCGGTTTGCTCTGTTAT 58.915 47.619 0.00 0.00 0.00 1.89
1127 2155 2.488153 GCCTTCGGTTTGCTCTGTTATT 59.512 45.455 0.00 0.00 0.00 1.40
1276 2348 0.601057 TTCCACAATCTCGCTCGACA 59.399 50.000 0.00 0.00 0.00 4.35
1291 2391 1.014044 CGACATGGTCCACCGTTGAG 61.014 60.000 0.00 0.00 39.43 3.02
1294 2394 1.156736 CATGGTCCACCGTTGAGTTC 58.843 55.000 0.00 0.00 39.43 3.01
1324 2446 4.908601 ACCTATGGATATGGCGATTTCA 57.091 40.909 1.97 0.00 0.00 2.69
1412 2543 1.144936 CCAGATCAACTCCTCCGCC 59.855 63.158 0.00 0.00 0.00 6.13
1551 2698 6.915544 TCAGCATCAGCAGATAACTAAAAG 57.084 37.500 0.00 0.00 45.49 2.27
1578 2728 7.041372 GGCAAATTAAAGAAAAAGGAAAGGTCC 60.041 37.037 0.00 0.00 45.35 4.46
1618 2774 0.749049 TCTCCGTGATGCAGGATCAG 59.251 55.000 4.55 0.11 42.00 2.90
1627 2783 0.322648 TGCAGGATCAGTGTGACTGG 59.677 55.000 3.96 0.00 45.94 4.00
1742 2898 2.489329 CAAAATCGGCATCACCTTCACT 59.511 45.455 0.00 0.00 35.61 3.41
1811 3065 3.695606 GGAGGCTGGACGCACAGA 61.696 66.667 10.76 0.00 40.97 3.41
1828 3082 1.135859 CAGATTTCGTGAGCACAAGGC 60.136 52.381 1.20 0.00 45.30 4.35
1861 3125 2.427812 TCGGTCGTGCATAATTAGTGGA 59.572 45.455 0.00 0.00 0.00 4.02
1862 3126 3.119065 TCGGTCGTGCATAATTAGTGGAA 60.119 43.478 0.00 0.00 0.00 3.53
1864 3128 4.986034 CGGTCGTGCATAATTAGTGGAATA 59.014 41.667 0.00 0.00 0.00 1.75
1866 3130 5.989777 GGTCGTGCATAATTAGTGGAATAGT 59.010 40.000 0.00 0.00 0.00 2.12
1867 3131 6.073765 GGTCGTGCATAATTAGTGGAATAGTG 60.074 42.308 0.00 0.00 0.00 2.74
1959 3239 4.629200 GTCAGAACAGCTTAAGATCACCAG 59.371 45.833 6.67 0.00 0.00 4.00
1964 3244 5.690464 ACAGCTTAAGATCACCAGATTCT 57.310 39.130 6.67 0.00 33.72 2.40
1968 3248 7.094463 ACAGCTTAAGATCACCAGATTCTTTTG 60.094 37.037 6.67 0.00 33.72 2.44
1969 3249 7.120285 CAGCTTAAGATCACCAGATTCTTTTGA 59.880 37.037 6.67 0.00 33.72 2.69
1970 3250 7.667219 AGCTTAAGATCACCAGATTCTTTTGAA 59.333 33.333 6.67 0.00 43.30 2.69
1972 3252 9.617975 CTTAAGATCACCAGATTCTTTTGAAAC 57.382 33.333 0.00 0.00 42.31 2.78
1973 3253 6.246420 AGATCACCAGATTCTTTTGAAACG 57.754 37.500 0.00 0.00 42.31 3.60
2061 3360 0.700564 AAGCTCCCAGGATTTGCAGA 59.299 50.000 0.00 0.00 0.00 4.26
2065 3364 1.380380 CCCAGGATTTGCAGACCCC 60.380 63.158 0.00 0.00 0.00 4.95
2066 3365 1.693640 CCAGGATTTGCAGACCCCT 59.306 57.895 0.00 0.00 0.00 4.79
2075 3374 1.450312 GCAGACCCCTGGTGAATCG 60.450 63.158 0.00 0.00 40.72 3.34
2084 3383 1.070758 CCTGGTGAATCGGGGATGTAG 59.929 57.143 0.00 0.00 0.00 2.74
2093 3392 0.249073 CGGGGATGTAGTTCTCGCTG 60.249 60.000 0.00 0.00 0.00 5.18
2094 3393 0.105039 GGGGATGTAGTTCTCGCTGG 59.895 60.000 0.00 0.00 0.00 4.85
2098 3397 0.461961 ATGTAGTTCTCGCTGGAGGC 59.538 55.000 0.00 0.00 40.85 4.70
2103 3402 4.804420 TCTCGCTGGAGGCCCCAT 62.804 66.667 12.75 0.00 45.57 4.00
2122 3421 0.618458 TCTGTAAGTGGGTGGATGGC 59.382 55.000 0.00 0.00 33.76 4.40
2124 3423 0.327924 TGTAAGTGGGTGGATGGCTG 59.672 55.000 0.00 0.00 0.00 4.85
2130 3429 1.228552 GGGTGGATGGCTGTGTGTT 60.229 57.895 0.00 0.00 0.00 3.32
2144 3443 4.680440 GCTGTGTGTTTTCTTTGGTCCATT 60.680 41.667 0.00 0.00 0.00 3.16
2171 3471 0.310232 GCCCGTAGACGATACAGACC 59.690 60.000 3.07 0.00 43.02 3.85
2174 3474 2.686915 CCCGTAGACGATACAGACCTTT 59.313 50.000 3.07 0.00 43.02 3.11
2189 3489 1.265568 CCTTTGGTCGTACGATCACG 58.734 55.000 29.85 22.05 43.28 4.35
2200 3500 1.792006 ACGATCACGGTGAAAAGACC 58.208 50.000 15.72 0.27 44.46 3.85
2280 3611 1.476891 TCTCGATTTCCACTTCCCTCG 59.523 52.381 0.00 0.00 0.00 4.63
2283 3614 1.743772 CGATTTCCACTTCCCTCGCAT 60.744 52.381 0.00 0.00 0.00 4.73
2361 3692 2.896443 CTCCACCGCTCCCTCTTC 59.104 66.667 0.00 0.00 0.00 2.87
2397 3728 2.039624 GCCTCCACCTCCTCCTCA 59.960 66.667 0.00 0.00 0.00 3.86
2398 3729 1.383803 GCCTCCACCTCCTCCTCAT 60.384 63.158 0.00 0.00 0.00 2.90
2417 3748 0.177141 TAGAACGGGCATGGCAGTAC 59.823 55.000 24.32 10.92 0.00 2.73
2489 3845 2.572284 GAGGTCGAGGTGGGAACG 59.428 66.667 0.00 0.00 0.00 3.95
2525 3881 2.759783 CTCATGTTGGGTGAGCTCG 58.240 57.895 9.64 0.00 36.95 5.03
2526 3882 0.742281 CTCATGTTGGGTGAGCTCGG 60.742 60.000 9.64 0.00 36.95 4.63
2527 3883 1.191489 TCATGTTGGGTGAGCTCGGA 61.191 55.000 9.64 0.00 0.00 4.55
2528 3884 0.742281 CATGTTGGGTGAGCTCGGAG 60.742 60.000 9.64 0.00 0.00 4.63
2529 3885 0.904865 ATGTTGGGTGAGCTCGGAGA 60.905 55.000 9.69 0.00 0.00 3.71
2530 3886 0.904865 TGTTGGGTGAGCTCGGAGAT 60.905 55.000 9.69 0.97 33.89 2.75
2531 3887 0.460987 GTTGGGTGAGCTCGGAGATG 60.461 60.000 9.69 0.00 33.89 2.90
2532 3888 1.617018 TTGGGTGAGCTCGGAGATGG 61.617 60.000 9.69 0.00 33.89 3.51
2533 3889 2.801631 GGGTGAGCTCGGAGATGGG 61.802 68.421 9.69 0.00 33.89 4.00
2534 3890 2.107953 GTGAGCTCGGAGATGGGC 59.892 66.667 9.69 0.00 33.89 5.36
2535 3891 3.531207 TGAGCTCGGAGATGGGCG 61.531 66.667 9.69 0.00 33.89 6.13
2536 3892 4.959596 GAGCTCGGAGATGGGCGC 62.960 72.222 9.69 0.00 33.89 6.53
2560 3916 2.687842 CTGGAAGCTCGATTCTGGC 58.312 57.895 0.00 0.00 0.00 4.85
2601 3957 2.014857 GAAAGCCTTCGGGATAACCAC 58.985 52.381 0.00 0.00 40.22 4.16
2620 3976 3.672867 CCACGAATGTGTACAAAAATGCC 59.327 43.478 0.00 0.00 44.92 4.40
2626 3982 2.894126 TGTGTACAAAAATGCCCGGATT 59.106 40.909 0.73 0.00 0.00 3.01
2628 3984 4.156922 TGTGTACAAAAATGCCCGGATTAG 59.843 41.667 0.73 0.00 0.00 1.73
2631 3987 3.426615 ACAAAAATGCCCGGATTAGTGA 58.573 40.909 0.73 0.00 0.00 3.41
2672 4046 0.254178 TCCTCTACTAGCGGTTCGGT 59.746 55.000 0.00 0.00 41.50 4.69
2682 4056 3.329929 AGCGGTTCGGTAATTCTCTTT 57.670 42.857 0.00 0.00 35.27 2.52
2703 4077 5.407407 TTTGTCCTCCTGATAACTCTCAC 57.593 43.478 0.00 0.00 0.00 3.51
2708 4082 1.132453 TCCTGATAACTCTCACGTGCG 59.868 52.381 11.67 4.52 0.00 5.34
2725 4099 2.743538 GCTGTGATGCGCAGACCA 60.744 61.111 18.32 11.13 43.78 4.02
2726 4100 2.327343 GCTGTGATGCGCAGACCAA 61.327 57.895 18.32 0.00 43.78 3.67
2727 4101 1.792301 CTGTGATGCGCAGACCAAG 59.208 57.895 18.32 5.85 43.78 3.61
2728 4102 2.249557 CTGTGATGCGCAGACCAAGC 62.250 60.000 18.32 3.79 43.78 4.01
2729 4103 2.037136 GTGATGCGCAGACCAAGCT 61.037 57.895 18.32 0.00 0.00 3.74
2730 4104 1.742880 TGATGCGCAGACCAAGCTC 60.743 57.895 18.32 6.31 0.00 4.09
2731 4105 2.437359 ATGCGCAGACCAAGCTCC 60.437 61.111 18.32 0.00 0.00 4.70
2732 4106 3.984193 ATGCGCAGACCAAGCTCCC 62.984 63.158 18.32 0.00 0.00 4.30
2733 4107 4.400961 GCGCAGACCAAGCTCCCT 62.401 66.667 0.30 0.00 0.00 4.20
2734 4108 3.019003 GCGCAGACCAAGCTCCCTA 62.019 63.158 0.30 0.00 0.00 3.53
2735 4109 1.826024 CGCAGACCAAGCTCCCTAT 59.174 57.895 0.00 0.00 0.00 2.57
2736 4110 1.040646 CGCAGACCAAGCTCCCTATA 58.959 55.000 0.00 0.00 0.00 1.31
2737 4111 1.620819 CGCAGACCAAGCTCCCTATAT 59.379 52.381 0.00 0.00 0.00 0.86
2738 4112 2.826128 CGCAGACCAAGCTCCCTATATA 59.174 50.000 0.00 0.00 0.00 0.86
2739 4113 3.449018 CGCAGACCAAGCTCCCTATATAT 59.551 47.826 0.00 0.00 0.00 0.86
2740 4114 4.081420 CGCAGACCAAGCTCCCTATATATT 60.081 45.833 0.00 0.00 0.00 1.28
2741 4115 5.181748 GCAGACCAAGCTCCCTATATATTG 58.818 45.833 0.00 0.00 0.00 1.90
2742 4116 5.181748 CAGACCAAGCTCCCTATATATTGC 58.818 45.833 0.00 0.00 0.00 3.56
2743 4117 4.846367 AGACCAAGCTCCCTATATATTGCA 59.154 41.667 0.00 0.00 0.00 4.08
2744 4118 4.911390 ACCAAGCTCCCTATATATTGCAC 58.089 43.478 0.00 0.00 0.00 4.57
2745 4119 4.599241 ACCAAGCTCCCTATATATTGCACT 59.401 41.667 0.00 0.00 0.00 4.40
2746 4120 4.940046 CCAAGCTCCCTATATATTGCACTG 59.060 45.833 0.00 0.00 0.00 3.66
2747 4121 5.280164 CCAAGCTCCCTATATATTGCACTGA 60.280 44.000 0.00 0.00 0.00 3.41
2748 4122 5.413309 AGCTCCCTATATATTGCACTGAC 57.587 43.478 0.00 0.00 0.00 3.51
2749 4123 4.081972 AGCTCCCTATATATTGCACTGACG 60.082 45.833 0.00 0.00 0.00 4.35
2750 4124 4.082190 GCTCCCTATATATTGCACTGACGA 60.082 45.833 0.00 0.00 0.00 4.20
2751 4125 5.386958 TCCCTATATATTGCACTGACGAC 57.613 43.478 0.00 0.00 0.00 4.34
2752 4126 4.082949 TCCCTATATATTGCACTGACGACG 60.083 45.833 0.00 0.00 0.00 5.12
2753 4127 3.608506 CCTATATATTGCACTGACGACGC 59.391 47.826 0.00 0.00 0.00 5.19
2754 4128 1.847818 TATATTGCACTGACGACGCC 58.152 50.000 0.00 0.00 0.00 5.68
2755 4129 0.175760 ATATTGCACTGACGACGCCT 59.824 50.000 0.00 0.00 0.00 5.52
2756 4130 0.735978 TATTGCACTGACGACGCCTG 60.736 55.000 0.00 0.00 0.00 4.85
2757 4131 2.434658 ATTGCACTGACGACGCCTGA 62.435 55.000 0.00 0.00 0.00 3.86
2758 4132 2.125912 GCACTGACGACGCCTGAT 60.126 61.111 0.00 0.00 0.00 2.90
2759 4133 2.447887 GCACTGACGACGCCTGATG 61.448 63.158 0.00 0.00 0.00 3.07
2760 4134 1.080501 CACTGACGACGCCTGATGT 60.081 57.895 0.00 0.00 0.00 3.06
2761 4135 1.073216 CACTGACGACGCCTGATGTC 61.073 60.000 0.00 0.00 0.00 3.06
2762 4136 1.517257 CTGACGACGCCTGATGTCC 60.517 63.158 0.00 0.00 32.68 4.02
2763 4137 2.202756 GACGACGCCTGATGTCCC 60.203 66.667 0.00 0.00 32.68 4.46
2764 4138 2.994995 ACGACGCCTGATGTCCCA 60.995 61.111 0.00 0.00 32.68 4.37
2765 4139 2.202797 CGACGCCTGATGTCCCAG 60.203 66.667 0.00 0.00 32.68 4.45
2766 4140 2.982130 GACGCCTGATGTCCCAGT 59.018 61.111 0.00 0.00 32.43 4.00
2767 4141 1.448540 GACGCCTGATGTCCCAGTG 60.449 63.158 0.00 0.00 32.43 3.66
2768 4142 2.124983 CGCCTGATGTCCCAGTGG 60.125 66.667 0.63 0.63 32.43 4.00
2769 4143 2.959484 CGCCTGATGTCCCAGTGGT 61.959 63.158 8.74 0.00 32.43 4.16
2770 4144 1.078143 GCCTGATGTCCCAGTGGTC 60.078 63.158 8.74 0.00 32.43 4.02
2771 4145 1.219124 CCTGATGTCCCAGTGGTCG 59.781 63.158 8.74 0.00 32.43 4.79
2772 4146 1.219124 CTGATGTCCCAGTGGTCGG 59.781 63.158 8.74 0.00 0.00 4.79
2773 4147 2.125106 GATGTCCCAGTGGTCGGC 60.125 66.667 8.74 0.00 0.00 5.54
2774 4148 2.607750 ATGTCCCAGTGGTCGGCT 60.608 61.111 8.74 0.00 0.00 5.52
2775 4149 2.859273 GATGTCCCAGTGGTCGGCTG 62.859 65.000 8.74 0.00 0.00 4.85
2782 4156 4.735132 GTGGTCGGCTGCAGCGTA 62.735 66.667 31.19 19.33 43.26 4.42
2783 4157 4.435436 TGGTCGGCTGCAGCGTAG 62.435 66.667 31.19 23.77 43.26 3.51
2797 4171 3.723554 CGTAGCCTCTTCACAGGTC 57.276 57.895 0.00 0.00 35.72 3.85
2798 4172 0.173708 CGTAGCCTCTTCACAGGTCC 59.826 60.000 0.00 0.00 35.72 4.46
2799 4173 0.537653 GTAGCCTCTTCACAGGTCCC 59.462 60.000 0.00 0.00 35.72 4.46
2800 4174 0.617820 TAGCCTCTTCACAGGTCCCC 60.618 60.000 0.00 0.00 35.72 4.81
2801 4175 1.920835 GCCTCTTCACAGGTCCCCT 60.921 63.158 0.00 0.00 35.72 4.79
2811 4185 0.753262 CAGGTCCCCTGTCCTATTCG 59.247 60.000 1.99 0.00 45.82 3.34
2812 4186 1.049289 AGGTCCCCTGTCCTATTCGC 61.049 60.000 0.00 0.00 29.57 4.70
2813 4187 1.446366 GTCCCCTGTCCTATTCGCC 59.554 63.158 0.00 0.00 0.00 5.54
2814 4188 2.131709 TCCCCTGTCCTATTCGCCG 61.132 63.158 0.00 0.00 0.00 6.46
2815 4189 2.131709 CCCCTGTCCTATTCGCCGA 61.132 63.158 0.00 0.00 0.00 5.54
2816 4190 1.472662 CCCCTGTCCTATTCGCCGAT 61.473 60.000 0.00 0.00 0.00 4.18
2817 4191 0.393077 CCCTGTCCTATTCGCCGATT 59.607 55.000 0.00 0.00 0.00 3.34
2818 4192 1.202651 CCCTGTCCTATTCGCCGATTT 60.203 52.381 0.00 0.00 0.00 2.17
2819 4193 2.135933 CCTGTCCTATTCGCCGATTTC 58.864 52.381 0.00 0.00 0.00 2.17
2820 4194 2.224066 CCTGTCCTATTCGCCGATTTCT 60.224 50.000 0.00 0.00 0.00 2.52
2821 4195 3.005472 CCTGTCCTATTCGCCGATTTCTA 59.995 47.826 0.00 0.00 0.00 2.10
2822 4196 3.973657 TGTCCTATTCGCCGATTTCTAC 58.026 45.455 0.00 0.00 0.00 2.59
2823 4197 3.243636 TGTCCTATTCGCCGATTTCTACC 60.244 47.826 0.00 0.00 0.00 3.18
2824 4198 3.005578 GTCCTATTCGCCGATTTCTACCT 59.994 47.826 0.00 0.00 0.00 3.08
2825 4199 3.640029 TCCTATTCGCCGATTTCTACCTT 59.360 43.478 0.00 0.00 0.00 3.50
2826 4200 3.741344 CCTATTCGCCGATTTCTACCTTG 59.259 47.826 0.00 0.00 0.00 3.61
2827 4201 3.536956 ATTCGCCGATTTCTACCTTGA 57.463 42.857 0.00 0.00 0.00 3.02
2828 4202 3.536956 TTCGCCGATTTCTACCTTGAT 57.463 42.857 0.00 0.00 0.00 2.57
2829 4203 3.536956 TCGCCGATTTCTACCTTGATT 57.463 42.857 0.00 0.00 0.00 2.57
2830 4204 4.659111 TCGCCGATTTCTACCTTGATTA 57.341 40.909 0.00 0.00 0.00 1.75
2831 4205 4.617959 TCGCCGATTTCTACCTTGATTAG 58.382 43.478 0.00 0.00 0.00 1.73
2832 4206 4.098960 TCGCCGATTTCTACCTTGATTAGT 59.901 41.667 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.343101 TGTGCTTGTTATGTACTCCGC 58.657 47.619 0.00 0.00 0.00 5.54
8 9 4.629634 TCATTGTGCTTGTTATGTACTCCG 59.370 41.667 0.00 0.00 0.00 4.63
36 37 4.989279 ACTCATGCATTGTAATGGTTCC 57.011 40.909 0.00 0.00 36.90 3.62
39 40 7.090173 GTGTTAAACTCATGCATTGTAATGGT 58.910 34.615 0.00 0.00 36.90 3.55
97 98 2.822764 CGTGTATCCCTTCTTGTAGGC 58.177 52.381 0.00 0.00 33.73 3.93
110 111 2.585247 GGCGTGAGGGCGTGTATC 60.585 66.667 0.00 0.00 0.00 2.24
148 149 2.887151 ATCCTTGTGCTTACTGCCTT 57.113 45.000 0.00 0.00 42.00 4.35
151 152 4.503741 TGAAAATCCTTGTGCTTACTGC 57.496 40.909 0.00 0.00 43.25 4.40
153 154 7.885399 ACTAGAATGAAAATCCTTGTGCTTACT 59.115 33.333 0.00 0.00 0.00 2.24
177 178 5.643777 CCTTCATTGTTCCGTCTCATAAACT 59.356 40.000 0.00 0.00 0.00 2.66
181 182 3.531538 GCCTTCATTGTTCCGTCTCATA 58.468 45.455 0.00 0.00 0.00 2.15
182 183 2.359900 GCCTTCATTGTTCCGTCTCAT 58.640 47.619 0.00 0.00 0.00 2.90
189 190 2.178580 TGGATTGGCCTTCATTGTTCC 58.821 47.619 3.32 0.00 37.63 3.62
192 193 3.028850 CTGATGGATTGGCCTTCATTGT 58.971 45.455 3.32 0.00 46.29 2.71
197 198 1.407979 CTTGCTGATGGATTGGCCTTC 59.592 52.381 3.32 0.19 40.38 3.46
207 208 1.808945 GTGTTGTCTCCTTGCTGATGG 59.191 52.381 0.00 0.00 0.00 3.51
208 209 1.808945 GGTGTTGTCTCCTTGCTGATG 59.191 52.381 0.00 0.00 0.00 3.07
211 212 1.876156 GAAGGTGTTGTCTCCTTGCTG 59.124 52.381 6.35 0.00 44.41 4.41
238 239 1.153881 GGTCTACTCCCGTCGTTGC 60.154 63.158 0.00 0.00 0.00 4.17
245 246 3.257624 ACTTTACAACAGGTCTACTCCCG 59.742 47.826 0.00 0.00 0.00 5.14
248 249 7.306953 CAGTCTACTTTACAACAGGTCTACTC 58.693 42.308 0.00 0.00 0.00 2.59
251 252 5.537295 TGCAGTCTACTTTACAACAGGTCTA 59.463 40.000 0.00 0.00 0.00 2.59
274 275 9.717942 TTTATAACCTTGGAATTTGATTTGGTG 57.282 29.630 0.00 0.00 0.00 4.17
305 306 5.224888 CAGCCTGAACGTGTACTAGTTTTA 58.775 41.667 0.00 0.00 0.00 1.52
307 308 3.554337 CCAGCCTGAACGTGTACTAGTTT 60.554 47.826 0.00 0.00 0.00 2.66
308 309 2.029290 CCAGCCTGAACGTGTACTAGTT 60.029 50.000 0.00 6.30 0.00 2.24
309 310 1.544691 CCAGCCTGAACGTGTACTAGT 59.455 52.381 0.00 0.00 0.00 2.57
310 311 1.544691 ACCAGCCTGAACGTGTACTAG 59.455 52.381 0.00 0.00 0.00 2.57
313 314 2.443887 TTACCAGCCTGAACGTGTAC 57.556 50.000 0.00 0.00 0.00 2.90
314 315 2.366266 ACTTTACCAGCCTGAACGTGTA 59.634 45.455 0.00 0.00 0.00 2.90
316 317 1.878953 ACTTTACCAGCCTGAACGTG 58.121 50.000 0.00 0.00 0.00 4.49
317 318 2.028385 CCTACTTTACCAGCCTGAACGT 60.028 50.000 0.00 0.00 0.00 3.99
318 319 2.618053 CCTACTTTACCAGCCTGAACG 58.382 52.381 0.00 0.00 0.00 3.95
327 328 3.575256 TCGACAAGAAGCCTACTTTACCA 59.425 43.478 0.00 0.00 35.82 3.25
349 350 3.921021 TCAAACGTGCGTGAAAACAAAAT 59.079 34.783 0.00 0.00 0.00 1.82
358 359 3.684103 AAGAAATTCAAACGTGCGTGA 57.316 38.095 0.00 0.00 0.00 4.35
359 360 3.179599 GGAAAGAAATTCAAACGTGCGTG 59.820 43.478 0.00 0.00 39.98 5.34
360 361 3.368495 GGAAAGAAATTCAAACGTGCGT 58.632 40.909 0.00 0.00 39.98 5.24
376 377 3.023832 ACACAAGAAACACAGGGGAAAG 58.976 45.455 0.00 0.00 0.00 2.62
400 401 5.131784 AGAGGATGAAAAGGATTGCTCATC 58.868 41.667 2.92 2.92 42.81 2.92
405 406 6.616774 CTAAGAGAGGATGAAAAGGATTGC 57.383 41.667 0.00 0.00 0.00 3.56
449 455 2.025155 CTCTGACCTCGGCTAAGCTTA 58.975 52.381 5.94 5.94 0.00 3.09
453 459 1.439644 GCCTCTGACCTCGGCTAAG 59.560 63.158 0.00 0.00 40.62 2.18
558 1471 0.034337 TACTTGGAGTTGGACCGTGC 59.966 55.000 0.00 0.00 0.00 5.34
587 1527 2.202797 CCACGCGGTGAGATGGAG 60.203 66.667 12.47 0.00 35.23 3.86
682 1622 0.955919 GTTCAAGAGCCCCCTTCACG 60.956 60.000 0.00 0.00 0.00 4.35
693 1633 1.235724 GGTTTGGACCGGTTCAAGAG 58.764 55.000 26.87 0.00 35.91 2.85
743 1702 4.710324 TGTACGGGTCAATTCAAAACTCT 58.290 39.130 0.00 0.00 0.00 3.24
790 1752 8.919661 GGCGTATTTATATAGTACAACTTGGTC 58.080 37.037 0.00 0.00 0.00 4.02
854 1818 1.743252 CTCTTGTTCTCCTGCGGCC 60.743 63.158 0.00 0.00 0.00 6.13
883 1847 0.320771 CTGTTTCGTCTGGGACTGGG 60.321 60.000 0.00 0.00 0.00 4.45
884 1848 0.679505 TCTGTTTCGTCTGGGACTGG 59.320 55.000 0.00 0.00 0.00 4.00
885 1849 1.937108 GCTCTGTTTCGTCTGGGACTG 60.937 57.143 0.00 0.00 0.00 3.51
944 1924 0.333652 TATCCTCTCCCACCGACACA 59.666 55.000 0.00 0.00 0.00 3.72
950 1930 3.910627 ACCAATGTATATCCTCTCCCACC 59.089 47.826 0.00 0.00 0.00 4.61
966 1952 5.452078 TCTTGCTGGAAAACTAACCAATG 57.548 39.130 0.00 0.00 35.67 2.82
976 1962 3.329386 CTCTGTCGATCTTGCTGGAAAA 58.671 45.455 0.00 0.00 0.00 2.29
1004 1996 2.815647 CCTCAAGAAGACCGCGCC 60.816 66.667 0.00 0.00 0.00 6.53
1017 2009 1.591703 GTCGACCAGATGCACCTCA 59.408 57.895 3.51 0.00 0.00 3.86
1083 2111 1.359459 CCAAGTTCTACGGAAGGCGC 61.359 60.000 0.00 0.00 31.46 6.53
1092 2120 2.678336 CCGAAGGCAATCCAAGTTCTAC 59.322 50.000 0.00 0.00 46.14 2.59
1094 2122 1.826385 CCGAAGGCAATCCAAGTTCT 58.174 50.000 0.00 0.00 46.14 3.01
1113 2141 3.357823 CGAACGCAAATAACAGAGCAAAC 59.642 43.478 0.00 0.00 0.00 2.93
1125 2153 0.960364 ATCCACAGCCGAACGCAAAT 60.960 50.000 0.00 0.00 41.38 2.32
1126 2154 1.599518 ATCCACAGCCGAACGCAAA 60.600 52.632 0.00 0.00 41.38 3.68
1127 2155 2.031919 ATCCACAGCCGAACGCAA 59.968 55.556 0.00 0.00 41.38 4.85
1276 2348 0.320421 CGAACTCAACGGTGGACCAT 60.320 55.000 0.00 0.00 35.14 3.55
1291 2391 3.728076 TCCATAGGTATGCTGTCGAAC 57.272 47.619 0.00 0.00 32.40 3.95
1294 2394 4.686972 CCATATCCATAGGTATGCTGTCG 58.313 47.826 0.00 0.00 32.40 4.35
1324 2446 1.614996 TGGCAACGTGGTTCATTCAT 58.385 45.000 0.00 0.00 42.51 2.57
1499 2630 3.855858 CAGCTGGGAGTAAGAAGAGTTC 58.144 50.000 5.57 0.00 0.00 3.01
1551 2698 6.770785 ACCTTTCCTTTTTCTTTAATTTGCCC 59.229 34.615 0.00 0.00 0.00 5.36
1583 2733 7.107639 TCACGGAGACATATTCAGTAATTGA 57.892 36.000 0.00 0.00 0.00 2.57
1598 2754 0.461548 TGATCCTGCATCACGGAGAC 59.538 55.000 0.00 0.00 36.51 3.36
1603 2759 1.004595 CACACTGATCCTGCATCACG 58.995 55.000 0.00 0.00 36.51 4.35
1618 2774 1.023513 GCTGATCAGGCCAGTCACAC 61.024 60.000 23.89 0.00 34.29 3.82
1627 2783 1.530891 ATGCCCATGCTGATCAGGC 60.531 57.895 23.89 18.85 44.13 4.85
1663 2819 2.221299 TACTTGGCCGGGTTCAGCT 61.221 57.895 2.18 0.00 0.00 4.24
1742 2898 2.650196 GCATCAACCTTTGCGGCA 59.350 55.556 0.00 0.00 35.61 5.69
1811 3065 0.250901 AGGCCTTGTGCTCACGAAAT 60.251 50.000 0.00 0.00 40.92 2.17
1861 3125 2.446435 GCCACATCCAACACCACTATT 58.554 47.619 0.00 0.00 0.00 1.73
1862 3126 1.340991 GGCCACATCCAACACCACTAT 60.341 52.381 0.00 0.00 0.00 2.12
1864 3128 1.228552 GGCCACATCCAACACCACT 60.229 57.895 0.00 0.00 0.00 4.00
1866 3130 0.998928 ATAGGCCACATCCAACACCA 59.001 50.000 5.01 0.00 0.00 4.17
1867 3131 1.064758 TCATAGGCCACATCCAACACC 60.065 52.381 5.01 0.00 0.00 4.16
1959 3239 9.690434 GAGTATGTATGTCGTTTCAAAAGAATC 57.310 33.333 0.00 0.00 0.00 2.52
1964 3244 5.927689 ACGGAGTATGTATGTCGTTTCAAAA 59.072 36.000 0.00 0.00 41.94 2.44
1968 3248 4.418392 ACACGGAGTATGTATGTCGTTTC 58.582 43.478 0.00 0.00 41.61 2.78
1969 3249 4.418392 GACACGGAGTATGTATGTCGTTT 58.582 43.478 0.00 0.00 41.61 3.60
1970 3250 4.025015 GACACGGAGTATGTATGTCGTT 57.975 45.455 0.00 0.00 41.61 3.85
1973 3253 3.957671 TCGACACGGAGTATGTATGTC 57.042 47.619 0.00 0.00 41.61 3.06
2065 3364 1.762957 ACTACATCCCCGATTCACCAG 59.237 52.381 0.00 0.00 0.00 4.00
2066 3365 1.874129 ACTACATCCCCGATTCACCA 58.126 50.000 0.00 0.00 0.00 4.17
2075 3374 0.105039 CCAGCGAGAACTACATCCCC 59.895 60.000 0.00 0.00 0.00 4.81
2084 3383 4.475135 GGGGCCTCCAGCGAGAAC 62.475 72.222 0.84 0.00 45.17 3.01
2093 3392 0.181350 CACTTACAGATGGGGCCTCC 59.819 60.000 0.00 0.72 0.00 4.30
2094 3393 0.181350 CCACTTACAGATGGGGCCTC 59.819 60.000 0.84 0.00 31.83 4.70
2103 3402 0.618458 GCCATCCACCCACTTACAGA 59.382 55.000 0.00 0.00 0.00 3.41
2122 3421 4.654091 ATGGACCAAAGAAAACACACAG 57.346 40.909 0.00 0.00 0.00 3.66
2124 3423 4.973663 CGTAATGGACCAAAGAAAACACAC 59.026 41.667 0.00 0.00 0.00 3.82
2144 3443 3.814268 GTCTACGGGCGCCACGTA 61.814 66.667 33.15 33.15 44.93 3.57
2154 3454 3.488721 CCAAAGGTCTGTATCGTCTACGG 60.489 52.174 2.24 1.74 40.29 4.02
2171 3471 1.265568 CCGTGATCGTACGACCAAAG 58.734 55.000 22.14 14.35 46.46 2.77
2174 3474 0.954938 TCACCGTGATCGTACGACCA 60.955 55.000 22.14 15.68 46.46 4.02
2181 3481 1.069513 TGGTCTTTTCACCGTGATCGT 59.930 47.619 1.09 0.00 39.62 3.73
2189 3489 2.031157 CGGTTGTGATGGTCTTTTCACC 60.031 50.000 0.00 0.00 41.22 4.02
2200 3500 1.911293 CTTGTCGGGCGGTTGTGATG 61.911 60.000 0.00 0.00 0.00 3.07
2226 3556 0.875059 GCGGCTGCAGAAGTAGTTTT 59.125 50.000 20.43 0.00 42.15 2.43
2343 3674 3.378399 GAAGAGGGAGCGGTGGAGC 62.378 68.421 0.00 0.00 37.41 4.70
2361 3692 2.112815 GGCGAGGGAATGGAAACGG 61.113 63.158 0.00 0.00 0.00 4.44
2397 3728 1.128200 TACTGCCATGCCCGTTCTAT 58.872 50.000 0.00 0.00 0.00 1.98
2398 3729 0.177141 GTACTGCCATGCCCGTTCTA 59.823 55.000 0.00 0.00 0.00 2.10
2442 3773 4.753662 TCCCCACCTCGACCTCCG 62.754 72.222 0.00 0.00 40.25 4.63
2495 3851 3.790437 CATGAGCTCCGCCACCCT 61.790 66.667 12.15 0.00 0.00 4.34
2499 3855 2.046023 CCAACATGAGCTCCGCCA 60.046 61.111 12.15 0.00 0.00 5.69
2503 3859 3.165606 CTCACCCAACATGAGCTCC 57.834 57.895 12.15 0.00 37.38 4.70
2508 3864 1.191489 TCCGAGCTCACCCAACATGA 61.191 55.000 15.40 0.00 0.00 3.07
2536 3892 2.859273 AATCGAGCTTCCAGCACCGG 62.859 60.000 0.00 0.00 45.56 5.28
2537 3893 1.424493 GAATCGAGCTTCCAGCACCG 61.424 60.000 0.00 1.74 45.56 4.94
2538 3894 0.107945 AGAATCGAGCTTCCAGCACC 60.108 55.000 0.00 0.00 45.56 5.01
2539 3895 1.005340 CAGAATCGAGCTTCCAGCAC 58.995 55.000 0.00 0.00 45.56 4.40
2540 3896 0.107993 CCAGAATCGAGCTTCCAGCA 60.108 55.000 0.00 0.00 45.56 4.41
2541 3897 1.435408 GCCAGAATCGAGCTTCCAGC 61.435 60.000 0.00 0.00 42.84 4.85
2542 3898 1.150567 CGCCAGAATCGAGCTTCCAG 61.151 60.000 0.00 0.00 0.00 3.86
2543 3899 1.153568 CGCCAGAATCGAGCTTCCA 60.154 57.895 0.00 0.00 0.00 3.53
2544 3900 2.529619 GCGCCAGAATCGAGCTTCC 61.530 63.158 0.00 0.00 0.00 3.46
2588 3944 2.623535 CACATTCGTGGTTATCCCGAA 58.376 47.619 14.47 14.47 44.09 4.30
2601 3957 2.914214 CGGGCATTTTTGTACACATTCG 59.086 45.455 0.00 0.00 0.00 3.34
2620 3976 3.192633 CCCCTTGTTTTTCACTAATCCGG 59.807 47.826 0.00 0.00 0.00 5.14
2626 3982 2.445525 AGGAGCCCCTTGTTTTTCACTA 59.554 45.455 0.00 0.00 40.78 2.74
2628 3984 1.613925 GAGGAGCCCCTTGTTTTTCAC 59.386 52.381 0.00 0.00 44.53 3.18
2631 3987 1.704641 GTGAGGAGCCCCTTGTTTTT 58.295 50.000 0.00 0.00 44.53 1.94
2672 4046 8.826765 AGTTATCAGGAGGACAAAAGAGAATTA 58.173 33.333 0.00 0.00 0.00 1.40
2682 4056 3.444034 CGTGAGAGTTATCAGGAGGACAA 59.556 47.826 0.00 0.00 37.27 3.18
2708 4082 2.249557 CTTGGTCTGCGCATCACAGC 62.250 60.000 12.24 5.77 35.04 4.40
2718 4092 5.181748 CAATATATAGGGAGCTTGGTCTGC 58.818 45.833 0.00 0.00 0.00 4.26
2722 4096 4.599241 AGTGCAATATATAGGGAGCTTGGT 59.401 41.667 0.00 0.00 0.00 3.67
2723 4097 4.940046 CAGTGCAATATATAGGGAGCTTGG 59.060 45.833 0.00 0.00 0.00 3.61
2724 4098 5.641209 GTCAGTGCAATATATAGGGAGCTTG 59.359 44.000 0.00 0.00 0.00 4.01
2725 4099 5.567623 CGTCAGTGCAATATATAGGGAGCTT 60.568 44.000 0.00 0.00 0.00 3.74
2726 4100 4.081972 CGTCAGTGCAATATATAGGGAGCT 60.082 45.833 0.00 0.00 0.00 4.09
2727 4101 4.082190 TCGTCAGTGCAATATATAGGGAGC 60.082 45.833 0.00 0.00 0.00 4.70
2728 4102 5.403246 GTCGTCAGTGCAATATATAGGGAG 58.597 45.833 0.00 0.00 0.00 4.30
2729 4103 4.082949 CGTCGTCAGTGCAATATATAGGGA 60.083 45.833 0.00 0.00 0.00 4.20
2730 4104 4.166523 CGTCGTCAGTGCAATATATAGGG 58.833 47.826 0.00 0.00 0.00 3.53
2731 4105 3.608506 GCGTCGTCAGTGCAATATATAGG 59.391 47.826 0.00 0.00 0.00 2.57
2732 4106 3.608506 GGCGTCGTCAGTGCAATATATAG 59.391 47.826 0.00 0.00 0.00 1.31
2733 4107 3.254903 AGGCGTCGTCAGTGCAATATATA 59.745 43.478 0.00 0.00 0.00 0.86
2734 4108 2.035961 AGGCGTCGTCAGTGCAATATAT 59.964 45.455 0.00 0.00 0.00 0.86
2735 4109 1.407618 AGGCGTCGTCAGTGCAATATA 59.592 47.619 0.00 0.00 0.00 0.86
2736 4110 0.175760 AGGCGTCGTCAGTGCAATAT 59.824 50.000 0.00 0.00 0.00 1.28
2737 4111 0.735978 CAGGCGTCGTCAGTGCAATA 60.736 55.000 0.00 0.00 0.00 1.90
2738 4112 2.029288 CAGGCGTCGTCAGTGCAAT 61.029 57.895 0.00 0.00 0.00 3.56
2739 4113 2.434658 ATCAGGCGTCGTCAGTGCAA 62.435 55.000 0.00 0.00 0.00 4.08
2740 4114 2.931068 ATCAGGCGTCGTCAGTGCA 61.931 57.895 0.00 0.00 0.00 4.57
2741 4115 2.125912 ATCAGGCGTCGTCAGTGC 60.126 61.111 0.00 0.00 0.00 4.40
2742 4116 1.073216 GACATCAGGCGTCGTCAGTG 61.073 60.000 0.00 0.00 0.00 3.66
2743 4117 1.213013 GACATCAGGCGTCGTCAGT 59.787 57.895 0.00 0.00 0.00 3.41
2744 4118 1.517257 GGACATCAGGCGTCGTCAG 60.517 63.158 0.00 0.00 34.04 3.51
2745 4119 2.571757 GGACATCAGGCGTCGTCA 59.428 61.111 0.00 0.00 34.04 4.35
2746 4120 2.202756 GGGACATCAGGCGTCGTC 60.203 66.667 0.00 0.00 34.04 4.20
2747 4121 2.994995 TGGGACATCAGGCGTCGT 60.995 61.111 0.00 0.00 34.04 4.34
2748 4122 2.202797 CTGGGACATCAGGCGTCG 60.203 66.667 0.00 0.00 38.20 5.12
2749 4123 1.448540 CACTGGGACATCAGGCGTC 60.449 63.158 0.00 0.00 38.20 5.19
2750 4124 2.665000 CACTGGGACATCAGGCGT 59.335 61.111 0.00 0.00 38.20 5.68
2751 4125 2.124983 CCACTGGGACATCAGGCG 60.125 66.667 0.00 0.00 38.20 5.52
2752 4126 1.078143 GACCACTGGGACATCAGGC 60.078 63.158 0.00 0.00 38.20 4.85
2753 4127 1.219124 CGACCACTGGGACATCAGG 59.781 63.158 0.00 0.00 38.20 3.86
2754 4128 1.219124 CCGACCACTGGGACATCAG 59.781 63.158 0.00 0.00 38.20 2.90
2755 4129 2.954684 GCCGACCACTGGGACATCA 61.955 63.158 0.00 0.00 38.20 3.07
2756 4130 2.125106 GCCGACCACTGGGACATC 60.125 66.667 0.00 0.00 38.20 3.06
2757 4131 2.607750 AGCCGACCACTGGGACAT 60.608 61.111 0.00 0.00 38.20 3.06
2758 4132 3.625897 CAGCCGACCACTGGGACA 61.626 66.667 0.00 0.00 38.05 4.02
2765 4139 4.735132 TACGCTGCAGCCGACCAC 62.735 66.667 32.07 4.04 37.91 4.16
2766 4140 4.435436 CTACGCTGCAGCCGACCA 62.435 66.667 32.07 12.05 37.91 4.02
2772 4146 2.125350 AAGAGGCTACGCTGCAGC 60.125 61.111 29.12 29.12 38.35 5.25
2773 4147 1.080995 GTGAAGAGGCTACGCTGCAG 61.081 60.000 10.11 10.11 32.22 4.41
2774 4148 1.079819 GTGAAGAGGCTACGCTGCA 60.080 57.895 0.00 0.00 28.54 4.41
2775 4149 1.079819 TGTGAAGAGGCTACGCTGC 60.080 57.895 0.00 0.00 0.00 5.25
2776 4150 0.459237 CCTGTGAAGAGGCTACGCTG 60.459 60.000 0.00 0.00 0.00 5.18
2777 4151 0.900647 ACCTGTGAAGAGGCTACGCT 60.901 55.000 0.00 0.00 36.46 5.07
2778 4152 0.458716 GACCTGTGAAGAGGCTACGC 60.459 60.000 0.00 0.00 36.46 4.42
2779 4153 0.173708 GGACCTGTGAAGAGGCTACG 59.826 60.000 0.00 0.00 36.46 3.51
2780 4154 0.537653 GGGACCTGTGAAGAGGCTAC 59.462 60.000 0.00 0.00 36.46 3.58
2781 4155 2.992476 GGGACCTGTGAAGAGGCTA 58.008 57.895 0.00 0.00 36.46 3.93
2782 4156 3.813150 GGGACCTGTGAAGAGGCT 58.187 61.111 0.00 0.00 36.46 4.58
2795 4169 1.446366 GGCGAATAGGACAGGGGAC 59.554 63.158 0.00 0.00 0.00 4.46
2796 4170 2.131709 CGGCGAATAGGACAGGGGA 61.132 63.158 0.00 0.00 0.00 4.81
2797 4171 1.472662 ATCGGCGAATAGGACAGGGG 61.473 60.000 15.93 0.00 0.00 4.79
2798 4172 0.393077 AATCGGCGAATAGGACAGGG 59.607 55.000 15.93 0.00 0.00 4.45
2799 4173 2.135933 GAAATCGGCGAATAGGACAGG 58.864 52.381 15.93 0.00 0.00 4.00
2800 4174 3.099267 AGAAATCGGCGAATAGGACAG 57.901 47.619 15.93 0.00 0.00 3.51
2801 4175 3.243636 GGTAGAAATCGGCGAATAGGACA 60.244 47.826 15.93 0.00 0.00 4.02
2802 4176 3.005578 AGGTAGAAATCGGCGAATAGGAC 59.994 47.826 15.93 9.82 0.00 3.85
2803 4177 3.228453 AGGTAGAAATCGGCGAATAGGA 58.772 45.455 15.93 0.00 0.00 2.94
2804 4178 3.662247 AGGTAGAAATCGGCGAATAGG 57.338 47.619 15.93 0.00 0.00 2.57
2805 4179 4.617959 TCAAGGTAGAAATCGGCGAATAG 58.382 43.478 15.93 0.00 0.00 1.73
2806 4180 4.659111 TCAAGGTAGAAATCGGCGAATA 57.341 40.909 15.93 1.77 0.00 1.75
2807 4181 3.536956 TCAAGGTAGAAATCGGCGAAT 57.463 42.857 15.93 1.06 0.00 3.34
2808 4182 3.536956 ATCAAGGTAGAAATCGGCGAA 57.463 42.857 15.93 0.00 0.00 4.70
2809 4183 3.536956 AATCAAGGTAGAAATCGGCGA 57.463 42.857 13.87 13.87 0.00 5.54
2810 4184 4.369182 ACTAATCAAGGTAGAAATCGGCG 58.631 43.478 0.00 0.00 0.00 6.46


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

AutoCloner maintained by Alex Coulton.