Multiple sequence alignment - TraesCS1A01G236400

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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 TraesCS1A01G236400 chr1A 100.000 4583 0 0 1 4583 418937266 418932684 0.000000e+00 8464.0
1 TraesCS1A01G236400 chr1A 100.000 32 0 0 1726 1757 418935174 418935205 4.950000e-05 60.2
2 TraesCS1A01G236400 chr1A 100.000 32 0 0 2062 2093 418935510 418935541 4.950000e-05 60.2
3 TraesCS1A01G236400 chr1D 94.613 2005 53 25 1765 3768 325591786 325593736 0.000000e+00 3053.0
4 TraesCS1A01G236400 chr1D 92.558 1169 55 10 314 1464 325590427 325591581 0.000000e+00 1648.0
5 TraesCS1A01G236400 chr1D 89.238 446 31 8 3746 4179 325593857 325594297 4.030000e-150 542.0
6 TraesCS1A01G236400 chr1D 95.238 210 10 0 1520 1729 325591580 325591789 2.640000e-87 333.0
7 TraesCS1A01G236400 chr1D 91.339 127 11 0 187 313 325590270 325590396 1.690000e-39 174.0
8 TraesCS1A01G236400 chr1D 89.928 139 7 2 4194 4332 325594348 325594479 6.100000e-39 172.0
9 TraesCS1A01G236400 chr1D 93.860 114 4 1 4404 4517 325594824 325594934 7.890000e-38 169.0
10 TraesCS1A01G236400 chr1D 87.234 141 12 3 1387 1522 104466124 104466263 6.140000e-34 156.0
11 TraesCS1A01G236400 chr1D 92.135 89 5 2 2 90 325590163 325590249 1.730000e-24 124.0
12 TraesCS1A01G236400 chr1D 82.550 149 12 7 1387 1522 478766353 478766206 8.050000e-23 119.0
13 TraesCS1A01G236400 chr1D 100.000 32 0 0 1726 1757 325592106 325592075 4.950000e-05 60.2
14 TraesCS1A01G236400 chr1B 93.244 1569 65 22 2969 4517 438036152 438037699 0.000000e+00 2272.0
15 TraesCS1A01G236400 chr1B 97.388 957 23 2 1947 2902 438034919 438035874 0.000000e+00 1628.0
16 TraesCS1A01G236400 chr1B 91.003 1156 57 14 579 1729 438033665 438034778 0.000000e+00 1515.0
17 TraesCS1A01G236400 chr1B 92.500 160 6 3 1 154 438032709 438032868 1.660000e-54 224.0
18 TraesCS1A01G236400 chr1B 90.323 155 15 0 153 307 438032949 438033103 2.160000e-48 204.0
19 TraesCS1A01G236400 chr1B 99.038 104 1 0 314 417 438033140 438033243 2.180000e-43 187.0
20 TraesCS1A01G236400 chr1B 95.588 68 3 0 2924 2991 438036073 438036140 4.850000e-20 110.0
21 TraesCS1A01G236400 chr1B 100.000 32 0 0 1726 1757 438035064 438035033 4.950000e-05 60.2
22 TraesCS1A01G236400 chr2D 91.885 419 32 2 1311 1729 506282827 506283243 6.610000e-163 584.0
23 TraesCS1A01G236400 chr2D 87.234 141 12 3 1387 1522 53761885 53762024 6.140000e-34 156.0
24 TraesCS1A01G236400 chr2D 92.784 97 6 1 1765 1860 506283240 506283336 6.180000e-29 139.0
25 TraesCS1A01G236400 chr7B 88.067 419 47 3 1311 1729 29941786 29941371 1.150000e-135 494.0
26 TraesCS1A01G236400 chr7B 93.750 96 6 0 1765 1860 29941374 29941279 1.330000e-30 145.0
27 TraesCS1A01G236400 chr3B 91.111 135 11 1 1388 1522 199644937 199645070 1.010000e-41 182.0
28 TraesCS1A01G236400 chr3B 89.706 136 13 1 1387 1522 772757058 772756924 6.100000e-39 172.0
29 TraesCS1A01G236400 chr3D 92.623 122 9 0 1311 1432 488892499 488892620 4.710000e-40 176.0
30 TraesCS1A01G236400 chr7D 85.816 141 14 3 1387 1522 103803607 103803468 1.330000e-30 145.0


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 TraesCS1A01G236400 chr1A 418932684 418937266 4582 True 8464.000000 8464 100.000000 1 4583 1 chr1A.!!$R1 4582
1 TraesCS1A01G236400 chr1D 325590163 325594934 4771 False 776.875000 3053 92.363625 2 4517 8 chr1D.!!$F2 4515
2 TraesCS1A01G236400 chr1B 438032709 438037699 4990 False 877.142857 2272 94.154857 1 4517 7 chr1B.!!$F1 4516
3 TraesCS1A01G236400 chr2D 506282827 506283336 509 False 361.500000 584 92.334500 1311 1860 2 chr2D.!!$F2 549
4 TraesCS1A01G236400 chr7B 29941279 29941786 507 True 319.500000 494 90.908500 1311 1860 2 chr7B.!!$R1 549

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
801 1204 0.108992 TTAGGTGCTGGTTACGCTCG 60.109 55.0 0.0 0.0 0.00 5.03 F
891 1295 0.395724 ATCCGCCACAAAGAATCCCC 60.396 55.0 0.0 0.0 0.00 4.81 F
1895 2306 0.041090 CCAATAGGCACCCCAGGTTT 59.959 55.0 0.0 0.0 31.02 3.27 F
1898 2309 0.335019 ATAGGCACCCCAGGTTTTCC 59.665 55.0 0.0 0.0 41.05 3.13 F
2297 2742 0.877071 AATTTGTGGAGAGCAGCACG 59.123 50.0 0.0 0.0 0.00 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1876 2287 0.041090 AAACCTGGGGTGCCTATTGG 59.959 55.000 0.00 0.0 35.34 3.16 R
1897 2308 0.182299 GAGGCCTCATGAAGGGAAGG 59.818 60.000 28.43 0.0 46.32 3.46 R
3154 3811 0.308993 GCAAGCTCACACACACCTTC 59.691 55.000 0.00 0.0 0.00 3.46 R
3553 4211 3.191581 TGTCAATTTGTCACCAACGTGTT 59.808 39.130 0.00 0.0 41.09 3.32 R
4262 5115 3.680937 TGAAATGCCGTAACCTTAACGAG 59.319 43.478 0.00 0.0 42.90 4.18 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
44 45 3.796717 GCGTTGAGTAATCGATCATGACA 59.203 43.478 0.00 0.00 0.00 3.58
97 98 2.189594 TTGCAGAGGATGACAAGGTG 57.810 50.000 0.00 0.00 0.00 4.00
100 105 1.446907 CAGAGGATGACAAGGTGTGC 58.553 55.000 0.00 0.00 0.00 4.57
104 109 1.133823 AGGATGACAAGGTGTGCACAA 60.134 47.619 23.59 3.99 0.00 3.33
138 145 5.437289 TTTTGGAGTTGAGCACATAACAG 57.563 39.130 0.00 0.00 0.00 3.16
154 161 7.066284 GCACATAACAGGAGTCAATCAAAGTAT 59.934 37.037 0.00 0.00 0.00 2.12
155 162 8.607459 CACATAACAGGAGTCAATCAAAGTATC 58.393 37.037 0.00 0.00 0.00 2.24
175 264 6.995686 AGTATCAAACAACATGTGGTGAACTA 59.004 34.615 6.65 0.00 35.97 2.24
180 269 4.127171 ACAACATGTGGTGAACTAGTGAC 58.873 43.478 4.67 0.00 35.97 3.67
183 272 3.244215 ACATGTGGTGAACTAGTGACCAG 60.244 47.826 21.92 15.03 40.46 4.00
189 278 3.069729 GGTGAACTAGTGACCAGACAACT 59.930 47.826 16.25 0.00 0.00 3.16
209 298 3.128589 ACTGCTGGTTAATAATGGCGTTG 59.871 43.478 1.27 0.00 0.00 4.10
213 302 4.788521 GCTGGTTAATAATGGCGTTGTAGC 60.789 45.833 1.27 0.00 0.00 3.58
224 313 2.117910 GCGTTGTAGCTCCTAATCGAC 58.882 52.381 0.00 0.00 0.00 4.20
227 316 3.064958 CGTTGTAGCTCCTAATCGACTCA 59.935 47.826 0.00 0.00 0.00 3.41
265 354 3.003173 CCCTGACCCGAGGCAAGA 61.003 66.667 0.00 0.00 0.00 3.02
277 366 0.321653 AGGCAAGACTAACCGGCAAG 60.322 55.000 0.00 0.63 0.00 4.01
458 592 2.983592 CCGAGCAAAACCGCCCTT 60.984 61.111 0.00 0.00 0.00 3.95
465 599 1.599797 AAAACCGCCCTTCAGACCG 60.600 57.895 0.00 0.00 0.00 4.79
479 613 2.125512 ACCGGATTCTGTCTGCGC 60.126 61.111 9.46 0.00 31.43 6.09
523 657 4.468689 GGAGAAACCTCGGCCCGG 62.469 72.222 1.90 0.00 35.41 5.73
560 694 4.729552 TCAATCAATGATTAGGGAGGGG 57.270 45.455 8.29 0.00 31.50 4.79
567 701 1.958359 ATTAGGGAGGGGAGGGGGT 60.958 63.158 0.00 0.00 0.00 4.95
631 1010 1.799258 AAGTGCAGGGCAAGCGAAAG 61.799 55.000 0.00 0.00 41.47 2.62
633 1012 1.072332 TGCAGGGCAAGCGAAAGTA 59.928 52.632 0.00 0.00 34.76 2.24
659 1039 9.263538 ACGAAAGAAAATACGTATATATGGCAA 57.736 29.630 8.83 0.00 37.22 4.52
692 1072 8.550280 AAGGGGGCGGTAAATAAAATAAAATA 57.450 30.769 0.00 0.00 0.00 1.40
693 1073 7.954835 AGGGGGCGGTAAATAAAATAAAATAC 58.045 34.615 0.00 0.00 0.00 1.89
694 1074 6.862608 GGGGGCGGTAAATAAAATAAAATACG 59.137 38.462 0.00 0.00 0.00 3.06
695 1075 6.862608 GGGGCGGTAAATAAAATAAAATACGG 59.137 38.462 0.00 0.00 0.00 4.02
696 1076 7.255416 GGGGCGGTAAATAAAATAAAATACGGA 60.255 37.037 0.00 0.00 0.00 4.69
697 1077 7.804600 GGGCGGTAAATAAAATAAAATACGGAG 59.195 37.037 0.00 0.00 0.00 4.63
794 1197 6.866248 CGTTTTAATTTGATTAGGTGCTGGTT 59.134 34.615 0.00 0.00 0.00 3.67
795 1198 8.024285 CGTTTTAATTTGATTAGGTGCTGGTTA 58.976 33.333 0.00 0.00 0.00 2.85
796 1199 9.135843 GTTTTAATTTGATTAGGTGCTGGTTAC 57.864 33.333 0.00 0.00 0.00 2.50
797 1200 5.560966 AATTTGATTAGGTGCTGGTTACG 57.439 39.130 0.00 0.00 0.00 3.18
798 1201 2.018542 TGATTAGGTGCTGGTTACGC 57.981 50.000 0.00 0.00 0.00 4.42
799 1202 1.553248 TGATTAGGTGCTGGTTACGCT 59.447 47.619 0.00 0.00 0.00 5.07
800 1203 2.202566 GATTAGGTGCTGGTTACGCTC 58.797 52.381 0.00 0.00 0.00 5.03
801 1204 0.108992 TTAGGTGCTGGTTACGCTCG 60.109 55.000 0.00 0.00 0.00 5.03
802 1205 1.246056 TAGGTGCTGGTTACGCTCGT 61.246 55.000 0.00 0.00 0.00 4.18
803 1206 2.380410 GGTGCTGGTTACGCTCGTG 61.380 63.158 5.05 0.00 0.00 4.35
804 1207 2.048597 TGCTGGTTACGCTCGTGG 60.049 61.111 5.05 0.00 0.00 4.94
805 1208 3.488090 GCTGGTTACGCTCGTGGC 61.488 66.667 5.05 0.00 37.64 5.01
838 1241 3.192922 GGTCGCCGTCGGGAATTG 61.193 66.667 14.38 0.00 36.13 2.32
870 1274 4.477975 GAGGTGCGACCCGAGACG 62.478 72.222 2.18 0.00 39.75 4.18
882 1286 2.577059 GAGACGGATCCGCCACAA 59.423 61.111 33.62 0.00 44.19 3.33
891 1295 0.395724 ATCCGCCACAAAGAATCCCC 60.396 55.000 0.00 0.00 0.00 4.81
1002 1406 1.595794 CCGACACAAAGCAGTTACGTT 59.404 47.619 0.00 0.00 0.00 3.99
1149 1553 3.073735 CCAGGTGCGCCTCTCTCT 61.074 66.667 18.11 0.00 44.97 3.10
1152 1556 2.183046 GGTGCGCCTCTCTCTCAC 59.817 66.667 9.68 0.00 0.00 3.51
1165 1569 3.054287 TCTCTCTCACCGTTCCTCTGTAT 60.054 47.826 0.00 0.00 0.00 2.29
1167 1571 4.197750 TCTCTCACCGTTCCTCTGTATAC 58.802 47.826 0.00 0.00 0.00 1.47
1431 1835 1.430853 TCATGTCCATTTCCCCCAACA 59.569 47.619 0.00 0.00 0.00 3.33
1432 1836 1.826720 CATGTCCATTTCCCCCAACAG 59.173 52.381 0.00 0.00 0.00 3.16
1473 1877 2.505407 AGTTCATGTGGCCTGCATACTA 59.495 45.455 3.32 0.00 0.00 1.82
1482 1886 3.199727 TGGCCTGCATACTAGATTGAACA 59.800 43.478 3.32 0.00 0.00 3.18
1552 1959 6.262273 CACTTGGTAGTTGGTACTGTTTTCAT 59.738 38.462 0.00 0.00 35.78 2.57
1556 1963 8.385898 TGGTAGTTGGTACTGTTTTCATTTAG 57.614 34.615 0.00 0.00 35.78 1.85
1558 1965 8.287503 GGTAGTTGGTACTGTTTTCATTTAGTG 58.712 37.037 0.00 0.00 35.78 2.74
1648 2055 2.413837 ACTAAAGTCGGTGTGTCATGC 58.586 47.619 0.00 0.00 0.00 4.06
1675 2082 3.807553 TCTGTGCAGAAACTGATGTGAA 58.192 40.909 0.00 0.00 33.91 3.18
1723 2130 7.404139 ACTAGGAATTATTTTGTCGCGATAC 57.596 36.000 14.06 0.25 0.00 2.24
1725 2132 5.120399 AGGAATTATTTTGTCGCGATACCA 58.880 37.500 14.06 2.08 0.00 3.25
1726 2133 5.763204 AGGAATTATTTTGTCGCGATACCAT 59.237 36.000 14.06 6.64 0.00 3.55
1727 2134 6.932400 AGGAATTATTTTGTCGCGATACCATA 59.068 34.615 14.06 5.57 0.00 2.74
1728 2135 7.013529 GGAATTATTTTGTCGCGATACCATAC 58.986 38.462 14.06 0.00 0.00 2.39
1729 2136 7.307514 GGAATTATTTTGTCGCGATACCATACA 60.308 37.037 14.06 0.08 0.00 2.29
1730 2137 6.905544 TTATTTTGTCGCGATACCATACAA 57.094 33.333 14.06 7.73 0.00 2.41
1731 2138 4.587211 TTTTGTCGCGATACCATACAAC 57.413 40.909 14.06 0.00 30.28 3.32
1732 2139 2.943449 TGTCGCGATACCATACAACA 57.057 45.000 14.06 0.00 0.00 3.33
1733 2140 2.804647 TGTCGCGATACCATACAACAG 58.195 47.619 14.06 0.00 0.00 3.16
1734 2141 2.424246 TGTCGCGATACCATACAACAGA 59.576 45.455 14.06 0.00 0.00 3.41
1735 2142 2.787680 GTCGCGATACCATACAACAGAC 59.212 50.000 14.06 0.00 0.00 3.51
1736 2143 2.424246 TCGCGATACCATACAACAGACA 59.576 45.455 3.71 0.00 0.00 3.41
1737 2144 3.119424 TCGCGATACCATACAACAGACAA 60.119 43.478 3.71 0.00 0.00 3.18
1738 2145 3.242944 CGCGATACCATACAACAGACAAG 59.757 47.826 0.00 0.00 0.00 3.16
1739 2146 4.181578 GCGATACCATACAACAGACAAGT 58.818 43.478 0.00 0.00 0.00 3.16
1740 2147 4.032900 GCGATACCATACAACAGACAAGTG 59.967 45.833 0.00 0.00 0.00 3.16
1741 2148 5.407502 CGATACCATACAACAGACAAGTGA 58.592 41.667 0.00 0.00 0.00 3.41
1742 2149 5.867174 CGATACCATACAACAGACAAGTGAA 59.133 40.000 0.00 0.00 0.00 3.18
1743 2150 6.035005 CGATACCATACAACAGACAAGTGAAG 59.965 42.308 0.00 0.00 0.00 3.02
1744 2151 5.290493 ACCATACAACAGACAAGTGAAGA 57.710 39.130 0.00 0.00 0.00 2.87
1745 2152 5.057149 ACCATACAACAGACAAGTGAAGAC 58.943 41.667 0.00 0.00 0.00 3.01
1746 2153 4.452455 CCATACAACAGACAAGTGAAGACC 59.548 45.833 0.00 0.00 0.00 3.85
1747 2154 3.914426 ACAACAGACAAGTGAAGACCT 57.086 42.857 0.00 0.00 0.00 3.85
1748 2155 3.798202 ACAACAGACAAGTGAAGACCTC 58.202 45.455 0.00 0.00 0.00 3.85
1749 2156 3.197766 ACAACAGACAAGTGAAGACCTCA 59.802 43.478 0.00 0.00 0.00 3.86
1762 2169 5.470368 TGAAGACCTCACAAATAAGTCTCG 58.530 41.667 0.00 0.00 36.81 4.04
1763 2170 4.457834 AGACCTCACAAATAAGTCTCGG 57.542 45.455 0.00 0.00 32.42 4.63
1834 2245 2.484889 AGAGGAAAGACGCACTTGAAC 58.515 47.619 0.00 0.00 38.98 3.18
1876 2287 5.453567 AAGGTCCAATTTTTGTGTAGAGC 57.546 39.130 0.00 0.00 0.00 4.09
1877 2288 3.826729 AGGTCCAATTTTTGTGTAGAGCC 59.173 43.478 0.00 0.00 0.00 4.70
1878 2289 3.572255 GGTCCAATTTTTGTGTAGAGCCA 59.428 43.478 0.00 0.00 0.00 4.75
1879 2290 4.038642 GGTCCAATTTTTGTGTAGAGCCAA 59.961 41.667 0.00 0.00 0.00 4.52
1880 2291 5.279456 GGTCCAATTTTTGTGTAGAGCCAAT 60.279 40.000 0.00 0.00 0.00 3.16
1881 2292 6.071616 GGTCCAATTTTTGTGTAGAGCCAATA 60.072 38.462 0.00 0.00 0.00 1.90
1882 2293 7.029563 GTCCAATTTTTGTGTAGAGCCAATAG 58.970 38.462 0.00 0.00 0.00 1.73
1883 2294 6.152661 TCCAATTTTTGTGTAGAGCCAATAGG 59.847 38.462 0.00 0.00 38.23 2.57
1893 2304 3.426917 CCAATAGGCACCCCAGGT 58.573 61.111 0.00 0.00 35.62 4.00
1894 2305 1.697297 CCAATAGGCACCCCAGGTT 59.303 57.895 0.00 0.00 31.02 3.50
1895 2306 0.041090 CCAATAGGCACCCCAGGTTT 59.959 55.000 0.00 0.00 31.02 3.27
1896 2307 1.552254 CCAATAGGCACCCCAGGTTTT 60.552 52.381 0.00 0.00 31.02 2.43
1897 2308 1.824852 CAATAGGCACCCCAGGTTTTC 59.175 52.381 0.00 0.00 31.02 2.29
1898 2309 0.335019 ATAGGCACCCCAGGTTTTCC 59.665 55.000 0.00 0.00 41.05 3.13
1913 2348 2.493675 GTTTTCCTTCCCTTCATGAGGC 59.506 50.000 0.00 0.00 44.85 4.70
2016 2461 9.058174 TGTTTAAAATGTCTCGGATCAGTTTAA 57.942 29.630 16.67 16.67 40.05 1.52
2146 2591 5.977635 TCCAGATTGTATTTCTCGTCACAT 58.022 37.500 0.00 0.00 0.00 3.21
2153 2598 6.275494 TGTATTTCTCGTCACATTCACCTA 57.725 37.500 0.00 0.00 0.00 3.08
2154 2599 6.873997 TGTATTTCTCGTCACATTCACCTAT 58.126 36.000 0.00 0.00 0.00 2.57
2253 2698 4.895297 ACATCAACAACCATGGAAGAACTT 59.105 37.500 21.47 0.00 0.00 2.66
2297 2742 0.877071 AATTTGTGGAGAGCAGCACG 59.123 50.000 0.00 0.00 0.00 5.34
2538 2983 6.116126 GCTCTCTGTGACCCAATAAGTTTAT 58.884 40.000 0.00 0.00 0.00 1.40
2541 2986 8.375493 TCTCTGTGACCCAATAAGTTTATACT 57.625 34.615 0.00 0.00 35.68 2.12
2756 3202 3.244526 TGCACTGAGGTCAAGCTTCATTA 60.245 43.478 0.00 0.00 32.58 1.90
3132 3789 4.574674 ATGAGGTGGATAAAGCACTTCA 57.425 40.909 0.00 0.00 38.84 3.02
3136 3793 2.164422 GGTGGATAAAGCACTTCAAGCC 59.836 50.000 0.00 0.00 0.00 4.35
3211 3868 4.202631 TGGTTCTATGGTTTTAGGTTGCCT 60.203 41.667 0.00 0.00 37.71 4.75
3358 4015 9.106070 GTGGGTACAAATAACTGAACTTATAGG 57.894 37.037 0.00 0.00 0.00 2.57
3514 4171 7.900782 ACACTGTTGTTGTATAGTCCAATAC 57.099 36.000 0.00 0.00 28.43 1.89
3536 4193 8.677148 ATACAAATAATAAACTCGCCATGACT 57.323 30.769 0.00 0.00 0.00 3.41
3553 4211 5.937540 CCATGACTTGTGACTTGGTGTATAA 59.062 40.000 0.00 0.00 31.95 0.98
3925 4725 6.267014 TGGGTTTACGAATTTTGGGTCAAATA 59.733 34.615 0.00 0.00 33.19 1.40
4280 5133 1.826720 TCCTCGTTAAGGTTACGGCAT 59.173 47.619 0.00 0.00 46.32 4.40
4351 5317 9.653287 TTGTTACCAGTACATTCTAGAAATGAG 57.347 33.333 9.71 2.91 0.00 2.90
4372 5338 5.300034 TGAGAAACATGACACTGCAGAAAAT 59.700 36.000 23.35 5.43 0.00 1.82
4378 5344 7.928307 ACATGACACTGCAGAAAATTATACT 57.072 32.000 23.35 0.00 0.00 2.12
4423 5553 3.342269 CATGACGCACACTATAAAACGC 58.658 45.455 0.00 0.00 0.00 4.84
4435 5565 1.296056 TAAAACGCTTCTGGCTCCGC 61.296 55.000 0.00 0.00 39.13 5.54
4531 5661 4.147219 GGGAACGACAAAGAGACATTTG 57.853 45.455 0.00 0.00 44.14 2.32
4532 5662 3.555518 GGAACGACAAAGAGACATTTGC 58.444 45.455 0.00 0.00 42.68 3.68
4533 5663 3.003275 GGAACGACAAAGAGACATTTGCA 59.997 43.478 0.00 0.00 42.68 4.08
4534 5664 3.885484 ACGACAAAGAGACATTTGCAG 57.115 42.857 0.00 0.00 42.68 4.41
4535 5665 3.206150 ACGACAAAGAGACATTTGCAGT 58.794 40.909 0.00 0.00 42.68 4.40
4536 5666 3.627577 ACGACAAAGAGACATTTGCAGTT 59.372 39.130 0.00 0.00 42.68 3.16
4537 5667 3.970610 CGACAAAGAGACATTTGCAGTTG 59.029 43.478 0.00 0.00 42.68 3.16
4538 5668 3.709987 ACAAAGAGACATTTGCAGTTGC 58.290 40.909 0.00 0.00 42.68 4.17
4549 5679 2.632643 GCAGTTGCAGGTGATGACA 58.367 52.632 0.00 0.00 41.59 3.58
4550 5680 0.953727 GCAGTTGCAGGTGATGACAA 59.046 50.000 0.00 0.00 41.59 3.18
4551 5681 1.068748 GCAGTTGCAGGTGATGACAAG 60.069 52.381 0.00 0.00 41.59 3.16
4552 5682 1.068748 CAGTTGCAGGTGATGACAAGC 60.069 52.381 0.00 0.00 0.00 4.01
4553 5683 1.202855 AGTTGCAGGTGATGACAAGCT 60.203 47.619 0.61 0.00 0.00 3.74
4554 5684 1.610522 GTTGCAGGTGATGACAAGCTT 59.389 47.619 0.00 0.00 0.00 3.74
4555 5685 1.241165 TGCAGGTGATGACAAGCTTG 58.759 50.000 24.84 24.84 0.00 4.01
4556 5686 1.202794 TGCAGGTGATGACAAGCTTGA 60.203 47.619 32.50 12.08 0.00 3.02
4557 5687 2.089980 GCAGGTGATGACAAGCTTGAT 58.910 47.619 32.50 16.62 0.00 2.57
4558 5688 3.273434 GCAGGTGATGACAAGCTTGATA 58.727 45.455 32.50 19.78 0.00 2.15
4559 5689 3.064545 GCAGGTGATGACAAGCTTGATAC 59.935 47.826 32.50 21.06 0.00 2.24
4560 5690 4.511527 CAGGTGATGACAAGCTTGATACT 58.488 43.478 32.50 10.45 0.00 2.12
4561 5691 4.569966 CAGGTGATGACAAGCTTGATACTC 59.430 45.833 32.50 19.14 0.00 2.59
4562 5692 4.469227 AGGTGATGACAAGCTTGATACTCT 59.531 41.667 32.50 16.14 0.00 3.24
4563 5693 4.808364 GGTGATGACAAGCTTGATACTCTC 59.192 45.833 32.50 18.07 0.00 3.20
4564 5694 5.414360 GTGATGACAAGCTTGATACTCTCA 58.586 41.667 32.50 22.83 0.00 3.27
4565 5695 5.290643 GTGATGACAAGCTTGATACTCTCAC 59.709 44.000 32.50 25.23 32.17 3.51
4566 5696 4.193826 TGACAAGCTTGATACTCTCACC 57.806 45.455 32.50 8.36 32.17 4.02
4567 5697 3.834813 TGACAAGCTTGATACTCTCACCT 59.165 43.478 32.50 5.43 32.17 4.00
4568 5698 4.284490 TGACAAGCTTGATACTCTCACCTT 59.716 41.667 32.50 5.21 32.17 3.50
4569 5699 4.573900 ACAAGCTTGATACTCTCACCTTG 58.426 43.478 32.50 1.03 43.02 3.61
4570 5700 4.284490 ACAAGCTTGATACTCTCACCTTGA 59.716 41.667 32.50 0.00 41.53 3.02
4571 5701 5.046014 ACAAGCTTGATACTCTCACCTTGAT 60.046 40.000 32.50 0.70 41.53 2.57
4572 5702 5.275067 AGCTTGATACTCTCACCTTGATC 57.725 43.478 0.00 0.00 32.17 2.92
4573 5703 4.961730 AGCTTGATACTCTCACCTTGATCT 59.038 41.667 0.00 0.00 32.17 2.75
4574 5704 5.424895 AGCTTGATACTCTCACCTTGATCTT 59.575 40.000 0.00 0.00 32.17 2.40
4575 5705 5.523188 GCTTGATACTCTCACCTTGATCTTG 59.477 44.000 0.00 0.00 32.17 3.02
4576 5706 6.629068 GCTTGATACTCTCACCTTGATCTTGA 60.629 42.308 0.00 0.00 32.17 3.02
4577 5707 6.857437 TGATACTCTCACCTTGATCTTGAA 57.143 37.500 0.00 0.00 0.00 2.69
4578 5708 6.634805 TGATACTCTCACCTTGATCTTGAAC 58.365 40.000 0.00 0.00 0.00 3.18
4579 5709 6.438741 TGATACTCTCACCTTGATCTTGAACT 59.561 38.462 0.00 0.00 0.00 3.01
4580 5710 4.892433 ACTCTCACCTTGATCTTGAACTG 58.108 43.478 0.00 0.00 0.00 3.16
4581 5711 4.590647 ACTCTCACCTTGATCTTGAACTGA 59.409 41.667 0.00 0.00 0.00 3.41
4582 5712 5.070981 ACTCTCACCTTGATCTTGAACTGAA 59.929 40.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
120 125 3.265791 CTCCTGTTATGTGCTCAACTCC 58.734 50.000 0.00 0.00 0.00 3.85
122 127 3.324846 TGACTCCTGTTATGTGCTCAACT 59.675 43.478 0.00 0.00 0.00 3.16
123 128 3.664107 TGACTCCTGTTATGTGCTCAAC 58.336 45.455 0.00 0.00 0.00 3.18
138 145 7.648142 TGTTGTTTGATACTTTGATTGACTCC 58.352 34.615 0.00 0.00 0.00 3.85
154 161 5.065859 CACTAGTTCACCACATGTTGTTTGA 59.934 40.000 0.00 0.00 0.00 2.69
155 162 5.065859 TCACTAGTTCACCACATGTTGTTTG 59.934 40.000 0.00 0.00 0.00 2.93
183 272 4.672409 GCCATTATTAACCAGCAGTTGTC 58.328 43.478 2.63 0.00 39.67 3.18
189 278 3.085533 ACAACGCCATTATTAACCAGCA 58.914 40.909 0.00 0.00 0.00 4.41
197 286 3.560636 AGGAGCTACAACGCCATTATT 57.439 42.857 0.00 0.00 30.84 1.40
209 298 5.216648 GTTCATGAGTCGATTAGGAGCTAC 58.783 45.833 0.00 0.00 0.00 3.58
213 302 5.861251 GCTATGTTCATGAGTCGATTAGGAG 59.139 44.000 0.00 0.00 0.00 3.69
224 313 5.337554 CAATGTTGTGGCTATGTTCATGAG 58.662 41.667 0.00 0.00 0.00 2.90
227 316 3.119029 GGCAATGTTGTGGCTATGTTCAT 60.119 43.478 0.00 0.00 40.77 2.57
265 354 2.351276 CCCTGCTTGCCGGTTAGT 59.649 61.111 1.90 0.00 0.00 2.24
442 576 2.187599 CTGAAGGGCGGTTTTGCTCG 62.188 60.000 0.00 0.00 41.40 5.03
465 599 3.918220 CGCGCGCAGACAGAATCC 61.918 66.667 32.61 0.00 0.00 3.01
523 657 2.586357 GATTGCCCCTCGCTCGAC 60.586 66.667 0.00 0.00 38.78 4.20
633 1012 8.821147 TGCCATATATACGTATTTTCTTTCGT 57.179 30.769 14.33 0.00 39.74 3.85
659 1039 0.479378 TACCGCCCCCTTCAACTTTT 59.521 50.000 0.00 0.00 0.00 2.27
692 1072 5.527033 GCGGATTATTTTACTCTACTCCGT 58.473 41.667 9.13 0.00 40.39 4.69
693 1073 4.615961 CGCGGATTATTTTACTCTACTCCG 59.384 45.833 0.00 3.43 40.89 4.63
694 1074 4.922103 CCGCGGATTATTTTACTCTACTCC 59.078 45.833 24.07 0.00 0.00 3.85
695 1075 5.527033 ACCGCGGATTATTTTACTCTACTC 58.473 41.667 35.90 0.00 0.00 2.59
696 1076 5.301298 AGACCGCGGATTATTTTACTCTACT 59.699 40.000 35.90 1.36 0.00 2.57
697 1077 5.527033 AGACCGCGGATTATTTTACTCTAC 58.473 41.667 35.90 0.00 0.00 2.59
698 1078 5.278660 GGAGACCGCGGATTATTTTACTCTA 60.279 44.000 35.90 0.00 0.00 2.43
752 1135 7.475137 TTAAAACGCCCCTAGTAGTAGTAAA 57.525 36.000 3.91 0.00 0.00 2.01
753 1136 7.660030 ATTAAAACGCCCCTAGTAGTAGTAA 57.340 36.000 3.91 0.00 0.00 2.24
754 1137 7.660030 AATTAAAACGCCCCTAGTAGTAGTA 57.340 36.000 3.91 0.00 0.00 1.82
755 1138 6.550938 AATTAAAACGCCCCTAGTAGTAGT 57.449 37.500 3.91 0.00 0.00 2.73
756 1139 7.043565 TCAAATTAAAACGCCCCTAGTAGTAG 58.956 38.462 0.00 0.00 0.00 2.57
757 1140 6.945218 TCAAATTAAAACGCCCCTAGTAGTA 58.055 36.000 0.00 0.00 0.00 1.82
758 1141 5.807909 TCAAATTAAAACGCCCCTAGTAGT 58.192 37.500 0.00 0.00 0.00 2.73
805 1208 4.742201 CCGAGGTGGACCAGCACG 62.742 72.222 29.24 29.24 43.16 5.34
806 1209 3.591254 GACCGAGGTGGACCAGCAC 62.591 68.421 24.98 17.84 42.00 4.40
807 1210 3.311110 GACCGAGGTGGACCAGCA 61.311 66.667 24.98 0.00 42.00 4.41
808 1211 4.436998 CGACCGAGGTGGACCAGC 62.437 72.222 16.14 16.14 42.00 4.85
809 1212 4.436998 GCGACCGAGGTGGACCAG 62.437 72.222 8.49 0.00 42.00 4.00
838 1241 0.030603 ACCTCTCCCCCTCCTCAATC 60.031 60.000 0.00 0.00 0.00 2.67
870 1274 1.025041 GGATTCTTTGTGGCGGATCC 58.975 55.000 0.00 0.00 0.00 3.36
882 1286 2.738938 GCGTACCCCGGGGATTCTT 61.739 63.158 46.68 26.04 38.96 2.52
1002 1406 2.610433 CGATTCTGCAGTGTCAAGCTA 58.390 47.619 14.67 0.00 0.00 3.32
1096 1500 1.792118 CGATGGCTATGTCGTCGGGA 61.792 60.000 5.96 0.00 42.06 5.14
1149 1553 1.402968 GCGTATACAGAGGAACGGTGA 59.597 52.381 3.32 0.00 35.93 4.02
1152 1556 0.379669 ACGCGTATACAGAGGAACGG 59.620 55.000 11.67 0.00 35.93 4.44
1180 1584 3.053455 GAGCGAGCCACATACATACTTC 58.947 50.000 0.00 0.00 0.00 3.01
1413 1817 1.715931 TCTGTTGGGGGAAATGGACAT 59.284 47.619 0.00 0.00 0.00 3.06
1431 1835 5.449553 ACTGTGAACCCAAGAGAAAAATCT 58.550 37.500 0.00 0.00 0.00 2.40
1432 1836 5.774498 ACTGTGAACCCAAGAGAAAAATC 57.226 39.130 0.00 0.00 0.00 2.17
1524 1931 2.051692 AGTACCAACTACCAAGTGCCA 58.948 47.619 0.00 0.00 35.62 4.92
1552 1959 7.094377 ACTGAACTTGAAGAAGCAAACACTAAA 60.094 33.333 0.00 0.00 31.68 1.85
1556 1963 4.986622 ACTGAACTTGAAGAAGCAAACAC 58.013 39.130 0.00 0.00 31.68 3.32
1558 1965 8.634475 ATTAAACTGAACTTGAAGAAGCAAAC 57.366 30.769 0.00 0.00 31.68 2.93
1648 2055 5.873712 ACATCAGTTTCTGCACAGAATCTAG 59.126 40.000 18.77 14.88 45.78 2.43
1675 2082 4.164294 GACGTACGACAGTGAAATTAGCT 58.836 43.478 24.41 0.00 0.00 3.32
1723 2130 4.452455 GGTCTTCACTTGTCTGTTGTATGG 59.548 45.833 0.00 0.00 0.00 2.74
1725 2132 5.070446 TGAGGTCTTCACTTGTCTGTTGTAT 59.930 40.000 0.00 0.00 0.00 2.29
1726 2133 4.404394 TGAGGTCTTCACTTGTCTGTTGTA 59.596 41.667 0.00 0.00 0.00 2.41
1727 2134 3.197766 TGAGGTCTTCACTTGTCTGTTGT 59.802 43.478 0.00 0.00 0.00 3.32
1728 2135 3.797039 TGAGGTCTTCACTTGTCTGTTG 58.203 45.455 0.00 0.00 0.00 3.33
1739 2146 5.470368 CGAGACTTATTTGTGAGGTCTTCA 58.530 41.667 0.00 0.00 37.38 3.02
1740 2147 4.865365 CCGAGACTTATTTGTGAGGTCTTC 59.135 45.833 0.00 0.00 37.38 2.87
1741 2148 4.527038 TCCGAGACTTATTTGTGAGGTCTT 59.473 41.667 0.00 0.00 37.38 3.01
1742 2149 4.087182 TCCGAGACTTATTTGTGAGGTCT 58.913 43.478 0.00 0.00 39.54 3.85
1743 2150 4.451629 TCCGAGACTTATTTGTGAGGTC 57.548 45.455 0.00 0.00 0.00 3.85
1744 2151 5.657302 AGTATCCGAGACTTATTTGTGAGGT 59.343 40.000 0.00 0.00 0.00 3.85
1745 2152 6.150396 AGTATCCGAGACTTATTTGTGAGG 57.850 41.667 0.00 0.00 0.00 3.86
1746 2153 7.228906 TCCTAGTATCCGAGACTTATTTGTGAG 59.771 40.741 0.05 0.00 0.00 3.51
1747 2154 7.013083 GTCCTAGTATCCGAGACTTATTTGTGA 59.987 40.741 0.05 0.00 0.00 3.58
1748 2155 7.140048 GTCCTAGTATCCGAGACTTATTTGTG 58.860 42.308 0.05 0.00 0.00 3.33
1749 2156 6.832384 TGTCCTAGTATCCGAGACTTATTTGT 59.168 38.462 0.05 0.00 0.00 2.83
1750 2157 7.273320 TGTCCTAGTATCCGAGACTTATTTG 57.727 40.000 0.05 0.00 0.00 2.32
1751 2158 7.893124 TTGTCCTAGTATCCGAGACTTATTT 57.107 36.000 0.05 0.00 0.00 1.40
1752 2159 8.480133 AATTGTCCTAGTATCCGAGACTTATT 57.520 34.615 0.05 0.00 0.00 1.40
1753 2160 7.724506 TGAATTGTCCTAGTATCCGAGACTTAT 59.275 37.037 0.05 0.00 0.00 1.73
1754 2161 7.058525 TGAATTGTCCTAGTATCCGAGACTTA 58.941 38.462 0.05 0.00 0.00 2.24
1755 2162 5.892119 TGAATTGTCCTAGTATCCGAGACTT 59.108 40.000 0.05 0.00 0.00 3.01
1756 2163 5.446860 TGAATTGTCCTAGTATCCGAGACT 58.553 41.667 0.57 0.57 0.00 3.24
1757 2164 5.769484 TGAATTGTCCTAGTATCCGAGAC 57.231 43.478 0.00 0.00 0.00 3.36
1758 2165 6.068670 TCATGAATTGTCCTAGTATCCGAGA 58.931 40.000 0.00 0.00 0.00 4.04
1759 2166 6.015856 ACTCATGAATTGTCCTAGTATCCGAG 60.016 42.308 0.00 0.00 0.00 4.63
1760 2167 5.833667 ACTCATGAATTGTCCTAGTATCCGA 59.166 40.000 0.00 0.00 0.00 4.55
1761 2168 6.090483 ACTCATGAATTGTCCTAGTATCCG 57.910 41.667 0.00 0.00 0.00 4.18
1762 2169 8.207545 AGAAACTCATGAATTGTCCTAGTATCC 58.792 37.037 0.00 0.00 0.00 2.59
1763 2170 9.606631 AAGAAACTCATGAATTGTCCTAGTATC 57.393 33.333 0.00 0.00 0.00 2.24
1805 2215 2.159827 GCGTCTTTCCTCTACAAAAGCG 60.160 50.000 0.00 0.00 36.27 4.68
1812 2222 3.299340 TCAAGTGCGTCTTTCCTCTAC 57.701 47.619 0.00 0.00 33.63 2.59
1834 2245 5.246429 ACCTTAGACTGAACTAGAACCCAAG 59.754 44.000 0.00 0.00 0.00 3.61
1876 2287 0.041090 AAACCTGGGGTGCCTATTGG 59.959 55.000 0.00 0.00 35.34 3.16
1877 2288 1.824852 GAAAACCTGGGGTGCCTATTG 59.175 52.381 0.00 0.00 35.34 1.90
1878 2289 1.273041 GGAAAACCTGGGGTGCCTATT 60.273 52.381 0.00 0.00 35.34 1.73
1879 2290 0.335019 GGAAAACCTGGGGTGCCTAT 59.665 55.000 0.00 0.00 35.34 2.57
1880 2291 0.774491 AGGAAAACCTGGGGTGCCTA 60.774 55.000 0.00 0.00 35.34 3.93
1881 2292 1.664956 AAGGAAAACCTGGGGTGCCT 61.665 55.000 0.00 0.00 35.34 4.75
1882 2293 1.152333 AAGGAAAACCTGGGGTGCC 60.152 57.895 0.00 0.00 35.34 5.01
1883 2294 1.185618 GGAAGGAAAACCTGGGGTGC 61.186 60.000 0.00 0.00 35.34 5.01
1884 2295 0.541998 GGGAAGGAAAACCTGGGGTG 60.542 60.000 0.00 0.00 35.34 4.61
1885 2296 0.704813 AGGGAAGGAAAACCTGGGGT 60.705 55.000 0.00 0.00 37.65 4.95
1886 2297 0.487325 AAGGGAAGGAAAACCTGGGG 59.513 55.000 0.00 0.00 34.17 4.96
1887 2298 1.146982 TGAAGGGAAGGAAAACCTGGG 59.853 52.381 0.00 0.00 34.17 4.45
1888 2299 2.675658 TGAAGGGAAGGAAAACCTGG 57.324 50.000 0.00 0.00 34.17 4.45
1889 2300 3.760684 CTCATGAAGGGAAGGAAAACCTG 59.239 47.826 0.00 0.00 34.17 4.00
1890 2301 3.245407 CCTCATGAAGGGAAGGAAAACCT 60.245 47.826 0.00 0.00 42.03 3.50
1891 2302 3.092301 CCTCATGAAGGGAAGGAAAACC 58.908 50.000 0.00 0.00 42.03 3.27
1892 2303 2.493675 GCCTCATGAAGGGAAGGAAAAC 59.506 50.000 5.19 0.00 46.32 2.43
1893 2304 2.557452 GGCCTCATGAAGGGAAGGAAAA 60.557 50.000 5.19 0.00 46.32 2.29
1894 2305 1.005924 GGCCTCATGAAGGGAAGGAAA 59.994 52.381 5.19 0.00 46.32 3.13
1895 2306 0.625849 GGCCTCATGAAGGGAAGGAA 59.374 55.000 5.19 0.00 46.32 3.36
1896 2307 0.253347 AGGCCTCATGAAGGGAAGGA 60.253 55.000 0.00 0.00 46.32 3.36
1897 2308 0.182299 GAGGCCTCATGAAGGGAAGG 59.818 60.000 28.43 0.00 46.32 3.46
1898 2309 1.211456 AGAGGCCTCATGAAGGGAAG 58.789 55.000 33.90 0.00 46.32 3.46
1899 2310 1.673767 AAGAGGCCTCATGAAGGGAA 58.326 50.000 33.90 0.00 46.32 3.97
1900 2311 2.402564 CTAAGAGGCCTCATGAAGGGA 58.597 52.381 33.90 5.60 46.32 4.20
1913 2348 1.808411 TTTGCGAACTGGCTAAGAGG 58.192 50.000 0.00 0.00 0.00 3.69
2016 2461 8.041323 CCTACACCTATGAAGAACACTACATTT 58.959 37.037 0.00 0.00 0.00 2.32
2146 2591 1.340991 GGGCAGCAAGGAATAGGTGAA 60.341 52.381 0.00 0.00 35.37 3.18
2153 2598 1.977685 GCTTTGGGCAGCAAGGAAT 59.022 52.632 0.00 0.00 39.83 3.01
2154 2599 3.458653 GCTTTGGGCAGCAAGGAA 58.541 55.556 0.00 0.00 39.83 3.36
2253 2698 3.203263 ACCACTCTAGAGATAGCCACAGA 59.797 47.826 26.57 0.00 0.00 3.41
2297 2742 1.790481 GCTTCAAGCGAACCGTTATGC 60.790 52.381 0.00 0.71 0.00 3.14
2658 3104 5.604650 AGATCAAAGATTCGAGGGGACTAAT 59.395 40.000 0.00 0.00 44.43 1.73
2756 3202 5.656416 TGACCTTGTTTGAGGAAAAAGACAT 59.344 36.000 0.00 0.00 39.25 3.06
3154 3811 0.308993 GCAAGCTCACACACACCTTC 59.691 55.000 0.00 0.00 0.00 3.46
3211 3868 7.375834 AGTTTTTGTACGACTCATAGTCATCA 58.624 34.615 7.75 1.09 45.30 3.07
3514 4171 7.218773 CACAAGTCATGGCGAGTTTATTATTTG 59.781 37.037 0.00 0.00 34.92 2.32
3553 4211 3.191581 TGTCAATTTGTCACCAACGTGTT 59.808 39.130 0.00 0.00 41.09 3.32
3766 4566 8.490355 GCCTACTTGAAATTCAAAATTGACAAG 58.510 33.333 9.85 16.44 40.49 3.16
3807 4607 8.175716 CACTTTTTCTTCTTCTTCTTACAACGT 58.824 33.333 0.00 0.00 0.00 3.99
3825 4625 8.655092 TGTTGTTTGTTTCATCATCACTTTTTC 58.345 29.630 0.00 0.00 0.00 2.29
3827 4627 8.034215 TCTGTTGTTTGTTTCATCATCACTTTT 58.966 29.630 0.00 0.00 0.00 2.27
3828 4628 7.546358 TCTGTTGTTTGTTTCATCATCACTTT 58.454 30.769 0.00 0.00 0.00 2.66
4026 4830 9.138596 ACTTCTGTCTATTAGACCCTATCTTTC 57.861 37.037 18.81 0.00 44.44 2.62
4044 4848 7.755822 CCATGTAACAAGTCTACTACTTCTGTC 59.244 40.741 0.00 0.00 45.64 3.51
4182 4997 9.725019 ATAGTTTGATATGGTGGTATACATGTG 57.275 33.333 9.11 0.00 0.00 3.21
4262 5115 3.680937 TGAAATGCCGTAACCTTAACGAG 59.319 43.478 0.00 0.00 42.90 4.18
4347 5313 4.011966 TCTGCAGTGTCATGTTTCTCAT 57.988 40.909 14.67 0.00 37.22 2.90
4350 5316 5.779529 ATTTTCTGCAGTGTCATGTTTCT 57.220 34.783 14.67 0.00 0.00 2.52
4351 5317 9.065871 GTATAATTTTCTGCAGTGTCATGTTTC 57.934 33.333 14.67 0.00 0.00 2.78
4517 5647 3.709987 GCAACTGCAAATGTCTCTTTGT 58.290 40.909 0.00 0.00 41.59 2.83
4531 5661 0.953727 TTGTCATCACCTGCAACTGC 59.046 50.000 0.00 0.00 42.50 4.40
4532 5662 1.068748 GCTTGTCATCACCTGCAACTG 60.069 52.381 0.00 0.00 0.00 3.16
4533 5663 1.202855 AGCTTGTCATCACCTGCAACT 60.203 47.619 0.00 0.00 0.00 3.16
4534 5664 1.242076 AGCTTGTCATCACCTGCAAC 58.758 50.000 0.00 0.00 0.00 4.17
4535 5665 1.610038 CAAGCTTGTCATCACCTGCAA 59.390 47.619 18.65 0.00 0.00 4.08
4536 5666 1.202794 TCAAGCTTGTCATCACCTGCA 60.203 47.619 25.19 0.00 0.00 4.41
4537 5667 1.527034 TCAAGCTTGTCATCACCTGC 58.473 50.000 25.19 0.00 0.00 4.85
4538 5668 4.511527 AGTATCAAGCTTGTCATCACCTG 58.488 43.478 25.19 0.00 0.00 4.00
4539 5669 4.469227 AGAGTATCAAGCTTGTCATCACCT 59.531 41.667 25.19 12.41 37.82 4.00
4540 5670 4.764172 AGAGTATCAAGCTTGTCATCACC 58.236 43.478 25.19 10.28 37.82 4.02
4541 5671 5.290643 GTGAGAGTATCAAGCTTGTCATCAC 59.709 44.000 25.19 22.93 40.43 3.06
4542 5672 5.414360 GTGAGAGTATCAAGCTTGTCATCA 58.586 41.667 25.19 17.40 40.43 3.07
4543 5673 4.808364 GGTGAGAGTATCAAGCTTGTCATC 59.192 45.833 25.19 16.48 40.43 2.92
4544 5674 4.469227 AGGTGAGAGTATCAAGCTTGTCAT 59.531 41.667 25.19 15.10 40.43 3.06
4545 5675 3.834813 AGGTGAGAGTATCAAGCTTGTCA 59.165 43.478 25.19 17.15 40.43 3.58
4546 5676 4.464069 AGGTGAGAGTATCAAGCTTGTC 57.536 45.455 25.19 15.48 40.43 3.18
4547 5677 4.573900 CAAGGTGAGAGTATCAAGCTTGT 58.426 43.478 25.19 15.13 45.94 3.16
4549 5679 5.424895 AGATCAAGGTGAGAGTATCAAGCTT 59.575 40.000 0.00 0.00 40.76 3.74
4550 5680 4.961730 AGATCAAGGTGAGAGTATCAAGCT 59.038 41.667 0.00 0.00 40.43 3.74
4551 5681 5.275067 AGATCAAGGTGAGAGTATCAAGC 57.725 43.478 0.00 0.00 40.43 4.01
4552 5682 6.871844 TCAAGATCAAGGTGAGAGTATCAAG 58.128 40.000 0.00 0.00 40.43 3.02
4553 5683 6.857437 TCAAGATCAAGGTGAGAGTATCAA 57.143 37.500 0.00 0.00 40.43 2.57
4554 5684 6.438741 AGTTCAAGATCAAGGTGAGAGTATCA 59.561 38.462 0.00 0.00 37.82 2.15
4555 5685 6.756074 CAGTTCAAGATCAAGGTGAGAGTATC 59.244 42.308 0.00 0.00 0.00 2.24
4556 5686 6.438741 TCAGTTCAAGATCAAGGTGAGAGTAT 59.561 38.462 0.00 0.00 0.00 2.12
4557 5687 5.775195 TCAGTTCAAGATCAAGGTGAGAGTA 59.225 40.000 0.00 0.00 0.00 2.59
4558 5688 4.590647 TCAGTTCAAGATCAAGGTGAGAGT 59.409 41.667 0.00 0.00 0.00 3.24
4559 5689 5.144692 TCAGTTCAAGATCAAGGTGAGAG 57.855 43.478 0.00 0.00 0.00 3.20
4560 5690 5.551305 TTCAGTTCAAGATCAAGGTGAGA 57.449 39.130 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.