Multiple sequence alignment - TraesCS7A01G464400

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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 TraesCS7A01G464400 chr7A 100.000 3437 0 0 1 3437 660939127 660942563 0.000000e+00 6348.0
1 TraesCS7A01G464400 chr7A 84.068 295 24 11 1066 1359 577697494 577697222 2.630000e-66 263.0
2 TraesCS7A01G464400 chr7A 86.154 65 9 0 2939 3003 621504434 621504370 1.710000e-08 71.3
3 TraesCS7A01G464400 chr7B 91.484 2877 140 43 241 3095 628354562 628357355 0.000000e+00 3858.0
4 TraesCS7A01G464400 chr7B 90.885 384 15 6 1936 2307 644535033 644534658 6.620000e-137 497.0
5 TraesCS7A01G464400 chr7B 90.957 376 12 9 1936 2298 192092334 192091968 1.430000e-133 486.0
6 TraesCS7A01G464400 chr7B 92.511 227 17 0 1548 1774 434774604 434774830 3.310000e-85 326.0
7 TraesCS7A01G464400 chr7B 93.464 153 7 2 33 185 628352992 628353141 1.240000e-54 224.0
8 TraesCS7A01G464400 chr7B 79.259 135 24 4 2937 3070 49028305 49028436 1.310000e-14 91.6
9 TraesCS7A01G464400 chr7D 91.639 2691 121 45 372 3045 571812173 571814776 0.000000e+00 3627.0
10 TraesCS7A01G464400 chr7D 86.230 305 30 9 3137 3433 571814820 571815120 1.540000e-83 320.0
11 TraesCS7A01G464400 chr7D 91.099 191 9 7 33 220 571811988 571812173 5.690000e-63 252.0
12 TraesCS7A01G464400 chr7D 78.824 170 28 5 2935 3100 575898989 575899154 1.300000e-19 108.0
13 TraesCS7A01G464400 chr7D 80.000 145 14 5 2937 3081 429707773 429707902 3.650000e-15 93.5
14 TraesCS7A01G464400 chr7D 100.000 29 0 0 3124 3152 548055204 548055232 2.000000e-03 54.7
15 TraesCS7A01G464400 chr1B 93.671 395 24 1 1548 1942 542691827 542692220 1.060000e-164 590.0
16 TraesCS7A01G464400 chr1B 90.104 384 18 6 1936 2307 542692652 542693027 6.670000e-132 481.0
17 TraesCS7A01G464400 chr2B 91.899 395 32 0 1548 1942 791363054 791362660 1.390000e-153 553.0
18 TraesCS7A01G464400 chr2B 91.899 395 32 0 1548 1942 791376679 791376285 1.390000e-153 553.0
19 TraesCS7A01G464400 chr2B 91.829 257 21 0 1405 1661 704873005 704873261 3.260000e-95 359.0
20 TraesCS7A01G464400 chr2B 93.636 220 14 0 1549 1768 526417672 526417891 2.560000e-86 329.0
21 TraesCS7A01G464400 chr2B 79.784 371 52 6 1063 1410 704867589 704867959 7.370000e-62 248.0
22 TraesCS7A01G464400 chr2B 88.800 125 4 1 1936 2050 791375853 791375729 9.940000e-31 145.0
23 TraesCS7A01G464400 chr2B 88.000 125 5 1 1936 2050 791362229 791362105 4.630000e-29 139.0
24 TraesCS7A01G464400 chr2B 79.137 139 27 2 2937 3075 800200705 800200841 1.020000e-15 95.3
25 TraesCS7A01G464400 chr5A 92.573 377 27 1 1548 1924 598252865 598252490 1.090000e-149 540.0
26 TraesCS7A01G464400 chr5A 80.921 152 24 5 2934 3083 362159278 362159426 7.790000e-22 115.0
27 TraesCS7A01G464400 chr6A 91.146 384 14 6 1936 2307 479107890 479108265 1.420000e-138 503.0
28 TraesCS7A01G464400 chr5B 91.146 384 14 6 1936 2307 680713106 680712731 1.420000e-138 503.0
29 TraesCS7A01G464400 chr3B 90.981 377 28 3 1548 1924 744552460 744552090 1.420000e-138 503.0
30 TraesCS7A01G464400 chr3B 90.625 384 16 7 1936 2307 799005015 799004640 3.080000e-135 492.0
31 TraesCS7A01G464400 chrUn 84.880 291 23 9 1066 1356 13751056 13751325 1.220000e-69 274.0
32 TraesCS7A01G464400 chr2A 84.880 291 23 9 1066 1356 177839322 177839591 1.220000e-69 274.0
33 TraesCS7A01G464400 chr2A 84.880 291 23 9 1066 1356 177946378 177946647 1.220000e-69 274.0
34 TraesCS7A01G464400 chr1D 85.542 83 10 2 2935 3016 121770688 121770769 6.110000e-13 86.1


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 TraesCS7A01G464400 chr7A 660939127 660942563 3436 False 6348.000000 6348 100.0000 1 3437 1 chr7A.!!$F1 3436
1 TraesCS7A01G464400 chr7B 628352992 628357355 4363 False 2041.000000 3858 92.4740 33 3095 2 chr7B.!!$F3 3062
2 TraesCS7A01G464400 chr7D 571811988 571815120 3132 False 1399.666667 3627 89.6560 33 3433 3 chr7D.!!$F4 3400
3 TraesCS7A01G464400 chr1B 542691827 542693027 1200 False 535.500000 590 91.8875 1548 2307 2 chr1B.!!$F1 759
4 TraesCS7A01G464400 chr2B 791375729 791376679 950 True 349.000000 553 90.3495 1548 2050 2 chr2B.!!$R2 502
5 TraesCS7A01G464400 chr2B 791362105 791363054 949 True 346.000000 553 89.9495 1548 2050 2 chr2B.!!$R1 502

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
731 2115 0.029567 GGACGTAGCCATCTGTCGAG 59.970 60.0 0.0 0.0 32.17 4.04 F
732 2116 0.029567 GACGTAGCCATCTGTCGAGG 59.970 60.0 0.0 0.0 0.00 4.63 F
2019 3876 0.173481 TCAATGGCGTTCGGAGAGAG 59.827 55.0 0.0 0.0 38.43 3.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2019 3876 1.740025 GGATGTAGTTGGTTGCTCTGC 59.260 52.381 0.00 0.0 0.00 4.26 R
2119 3987 2.141535 GTCAGCTTCGTTGACTCACT 57.858 50.000 3.98 0.0 39.92 3.41 R
3092 4971 0.033504 TTGCGAGGAGGACAGTTGAC 59.966 55.000 0.00 0.0 0.00 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
24 25 2.410466 GCGTAGTCTGCCTCTAGCT 58.590 57.895 0.00 0.00 44.23 3.32
25 26 0.309612 GCGTAGTCTGCCTCTAGCTC 59.690 60.000 0.00 0.00 44.23 4.09
26 27 0.948678 CGTAGTCTGCCTCTAGCTCC 59.051 60.000 0.00 0.00 44.23 4.70
27 28 0.948678 GTAGTCTGCCTCTAGCTCCG 59.051 60.000 0.00 0.00 44.23 4.63
28 29 0.820074 TAGTCTGCCTCTAGCTCCGC 60.820 60.000 0.00 0.00 44.23 5.54
29 30 2.835431 TCTGCCTCTAGCTCCGCC 60.835 66.667 0.00 0.00 44.23 6.13
30 31 3.150335 CTGCCTCTAGCTCCGCCA 61.150 66.667 0.00 0.00 44.23 5.69
31 32 3.438017 CTGCCTCTAGCTCCGCCAC 62.438 68.421 0.00 0.00 44.23 5.01
152 153 6.890663 ATCAAACGCATCATTTGTTTATGG 57.109 33.333 0.00 0.00 38.08 2.74
154 155 3.799281 ACGCATCATTTGTTTATGGGG 57.201 42.857 0.00 0.00 37.74 4.96
173 174 4.664536 TGGGGTAGATGATGAATGGATGAA 59.335 41.667 0.00 0.00 0.00 2.57
174 175 5.314039 TGGGGTAGATGATGAATGGATGAAT 59.686 40.000 0.00 0.00 0.00 2.57
179 180 8.099537 GGTAGATGATGAATGGATGAATAGTGT 58.900 37.037 0.00 0.00 0.00 3.55
219 221 1.021390 GTGGTGATCAAGGCGTGGAG 61.021 60.000 0.00 0.00 0.00 3.86
230 232 4.147449 CGTGGAGCCGGATGAGCA 62.147 66.667 5.05 0.00 0.00 4.26
234 236 3.157252 GAGCCGGATGAGCAGGGA 61.157 66.667 5.05 0.00 31.80 4.20
236 238 4.899239 GCCGGATGAGCAGGGACG 62.899 72.222 5.05 0.00 31.80 4.79
237 239 3.461773 CCGGATGAGCAGGGACGT 61.462 66.667 0.00 0.00 0.00 4.34
238 240 2.105128 CGGATGAGCAGGGACGTC 59.895 66.667 7.13 7.13 0.00 4.34
239 241 2.105128 GGATGAGCAGGGACGTCG 59.895 66.667 9.92 0.00 0.00 5.12
276 1642 3.597728 GCTCGCCGAGTCCCTAGG 61.598 72.222 16.50 0.06 31.39 3.02
315 1681 2.940147 TGAAAAATGCGGGAATTCGTG 58.060 42.857 0.00 0.00 0.00 4.35
317 1683 1.253100 AAAATGCGGGAATTCGTGGT 58.747 45.000 0.00 0.00 0.00 4.16
318 1684 0.525761 AAATGCGGGAATTCGTGGTG 59.474 50.000 0.00 0.00 0.00 4.17
335 1701 1.436600 GTGTGCTCTGGTCTGTGATG 58.563 55.000 0.00 0.00 0.00 3.07
347 1713 0.392193 CTGTGATGGCGAAAGGAGCT 60.392 55.000 0.00 0.00 34.52 4.09
362 1728 3.626930 AGGAGCTATTCTTCTCGTCTGT 58.373 45.455 0.00 0.00 0.00 3.41
435 1808 1.874739 CGCAACTTTGGACCGGAACTA 60.875 52.381 9.46 0.00 0.00 2.24
476 1849 2.740714 GCGCCGCGAACATTCTTCT 61.741 57.895 18.91 0.00 0.00 2.85
477 1850 1.787847 CGCCGCGAACATTCTTCTT 59.212 52.632 8.23 0.00 0.00 2.52
478 1851 0.247301 CGCCGCGAACATTCTTCTTC 60.247 55.000 8.23 0.00 0.00 2.87
491 1864 5.707764 ACATTCTTCTTCACCTTTAAGCCTC 59.292 40.000 0.00 0.00 0.00 4.70
492 1865 3.926616 TCTTCTTCACCTTTAAGCCTCG 58.073 45.455 0.00 0.00 0.00 4.63
535 1910 4.771127 GTCTCACCAAGACGGCAA 57.229 55.556 0.00 0.00 44.79 4.52
536 1911 2.533318 GTCTCACCAAGACGGCAAG 58.467 57.895 0.00 0.00 44.79 4.01
537 1912 0.033504 GTCTCACCAAGACGGCAAGA 59.966 55.000 0.00 0.00 44.79 3.02
538 1913 0.033504 TCTCACCAAGACGGCAAGAC 59.966 55.000 0.00 0.00 39.03 3.01
539 1914 0.249868 CTCACCAAGACGGCAAGACA 60.250 55.000 0.00 0.00 39.03 3.41
552 1927 3.347216 GGCAAGACACATACATTGGTCT 58.653 45.455 0.00 0.00 37.42 3.85
556 1931 4.478206 AGACACATACATTGGTCTCTGG 57.522 45.455 0.00 0.00 33.30 3.86
616 1992 6.071560 TCGATTTTTAGACTAGTTGAGCTCCA 60.072 38.462 12.15 0.00 0.00 3.86
617 1993 6.035112 CGATTTTTAGACTAGTTGAGCTCCAC 59.965 42.308 12.15 10.94 0.00 4.02
624 2000 5.078411 ACTAGTTGAGCTCCACATTAGTG 57.922 43.478 19.22 5.75 45.47 2.74
662 2038 9.334947 GGTAGTAAAAGTGGGAAAATATAGGAC 57.665 37.037 0.00 0.00 0.00 3.85
663 2039 9.038803 GTAGTAAAAGTGGGAAAATATAGGACG 57.961 37.037 0.00 0.00 0.00 4.79
664 2040 7.052248 AGTAAAAGTGGGAAAATATAGGACGG 58.948 38.462 0.00 0.00 0.00 4.79
665 2041 4.432980 AAGTGGGAAAATATAGGACGGG 57.567 45.455 0.00 0.00 0.00 5.28
666 2042 3.660959 AGTGGGAAAATATAGGACGGGA 58.339 45.455 0.00 0.00 0.00 5.14
667 2043 4.042174 AGTGGGAAAATATAGGACGGGAA 58.958 43.478 0.00 0.00 0.00 3.97
727 2111 2.494918 GCGGACGTAGCCATCTGT 59.505 61.111 4.31 0.00 0.00 3.41
728 2112 1.589196 GCGGACGTAGCCATCTGTC 60.589 63.158 4.31 0.00 0.00 3.51
729 2113 1.298413 CGGACGTAGCCATCTGTCG 60.298 63.158 0.00 0.00 32.17 4.35
730 2114 1.712018 CGGACGTAGCCATCTGTCGA 61.712 60.000 0.00 0.00 32.17 4.20
731 2115 0.029567 GGACGTAGCCATCTGTCGAG 59.970 60.000 0.00 0.00 32.17 4.04
732 2116 0.029567 GACGTAGCCATCTGTCGAGG 59.970 60.000 0.00 0.00 0.00 4.63
875 2263 3.636043 GACCGCCACACACACACG 61.636 66.667 0.00 0.00 0.00 4.49
879 2267 3.504273 GCCACACACACACGCACA 61.504 61.111 0.00 0.00 0.00 4.57
885 2273 2.021243 CACACACGCACACACACG 59.979 61.111 0.00 0.00 0.00 4.49
908 2296 2.680352 TCTGTCACTCCCGGCCTC 60.680 66.667 0.00 0.00 0.00 4.70
961 2349 2.222027 GGTGAAGCCAATTATCTCCGG 58.778 52.381 0.00 0.00 37.17 5.14
1200 2609 2.583593 GTGCTCTCCATCGACGGC 60.584 66.667 0.00 0.00 0.00 5.68
1479 2888 0.534203 TGTTCAGGAAGGTGTTCGGC 60.534 55.000 0.00 0.00 32.92 5.54
1899 3308 2.890474 CAGGCCGACATGGTACGC 60.890 66.667 0.00 0.00 41.21 4.42
2019 3876 0.173481 TCAATGGCGTTCGGAGAGAG 59.827 55.000 0.00 0.00 38.43 3.20
2061 3918 6.358178 TCCGCATCCAGGTAAATAATTTACA 58.642 36.000 0.00 0.00 45.63 2.41
2102 3968 3.623060 TCTTCACGGCTGCTGAATTATTC 59.377 43.478 16.72 0.00 0.00 1.75
2110 3978 4.036852 GGCTGCTGAATTATTCTTACCACC 59.963 45.833 6.50 0.00 0.00 4.61
2111 3979 4.640201 GCTGCTGAATTATTCTTACCACCA 59.360 41.667 6.50 0.00 0.00 4.17
2112 3980 5.449177 GCTGCTGAATTATTCTTACCACCAC 60.449 44.000 6.50 0.00 0.00 4.16
2113 3981 5.815581 TGCTGAATTATTCTTACCACCACT 58.184 37.500 6.50 0.00 0.00 4.00
2114 3982 5.647658 TGCTGAATTATTCTTACCACCACTG 59.352 40.000 6.50 0.00 0.00 3.66
2115 3983 5.648092 GCTGAATTATTCTTACCACCACTGT 59.352 40.000 6.50 0.00 0.00 3.55
2116 3984 6.403636 GCTGAATTATTCTTACCACCACTGTG 60.404 42.308 6.50 0.00 42.39 3.66
2119 3987 7.721842 TGAATTATTCTTACCACCACTGTGAAA 59.278 33.333 9.86 0.00 45.76 2.69
2590 4469 1.722636 GCGCCGGCACTAGTAGTAGT 61.723 60.000 28.98 4.29 40.38 2.73
2704 4583 2.352032 GGAGAGTGGTCGGAGTGGG 61.352 68.421 0.00 0.00 0.00 4.61
2705 4584 1.304217 GAGAGTGGTCGGAGTGGGA 60.304 63.158 0.00 0.00 0.00 4.37
2706 4585 0.898789 GAGAGTGGTCGGAGTGGGAA 60.899 60.000 0.00 0.00 0.00 3.97
2721 4600 5.928264 GGAGTGGGAAAATGTGAAAGATTTG 59.072 40.000 0.00 0.00 39.06 2.32
2734 4613 7.044181 TGTGAAAGATTTGTCTAGCTAGGATG 58.956 38.462 20.58 0.00 0.00 3.51
2813 4692 2.149803 TACGTAGCTTGTGCGGTGCT 62.150 55.000 0.00 0.00 45.42 4.40
2831 4710 4.201950 GGTGCTTGCAATGGAATACTACTG 60.202 45.833 0.00 0.00 0.00 2.74
2834 4713 5.355071 TGCTTGCAATGGAATACTACTGAAG 59.645 40.000 0.00 0.00 0.00 3.02
2875 4754 2.274437 AGCAGTGATAACTGTCATGCG 58.726 47.619 12.02 0.00 39.76 4.73
2876 4755 1.267732 GCAGTGATAACTGTCATGCGC 60.268 52.381 12.02 0.00 39.76 6.09
2881 4760 2.539688 TGATAACTGTCATGCGCGATTC 59.460 45.455 12.10 0.00 0.00 2.52
2935 4814 5.948162 TCTTCATTGCTTCCTTTGCTCTAAT 59.052 36.000 0.00 0.00 0.00 1.73
2950 4829 3.556004 GCTCTAATGGTGTGGCTAGATCC 60.556 52.174 0.00 0.00 0.00 3.36
2951 4830 3.900601 CTCTAATGGTGTGGCTAGATCCT 59.099 47.826 0.00 0.00 0.00 3.24
2953 4832 5.080337 TCTAATGGTGTGGCTAGATCCTAG 58.920 45.833 0.00 0.00 0.00 3.02
2954 4833 2.088104 TGGTGTGGCTAGATCCTAGG 57.912 55.000 0.82 0.82 0.00 3.02
2956 4835 1.414158 GTGTGGCTAGATCCTAGGCA 58.586 55.000 21.38 21.38 45.92 4.75
3050 4929 3.525537 ACTTTGCACGGATCTCTATGTG 58.474 45.455 0.00 0.00 35.48 3.21
3052 4931 2.871182 TGCACGGATCTCTATGTGAC 57.129 50.000 0.00 0.00 34.29 3.67
3075 4954 2.230508 TCCCACGAATATAGCATCGACC 59.769 50.000 11.05 0.00 41.43 4.79
3083 4962 5.455056 AATATAGCATCGACCGAGACTTT 57.545 39.130 0.00 0.00 0.00 2.66
3085 4964 0.108615 AGCATCGACCGAGACTTTGG 60.109 55.000 0.00 0.00 0.00 3.28
3086 4965 1.084370 GCATCGACCGAGACTTTGGG 61.084 60.000 0.00 0.00 31.40 4.12
3087 4966 0.246635 CATCGACCGAGACTTTGGGT 59.753 55.000 0.00 0.00 36.58 4.51
3088 4967 0.531200 ATCGACCGAGACTTTGGGTC 59.469 55.000 9.91 9.91 45.34 4.46
3098 4977 3.477210 GACTTTGGGTCTCAGTCAACT 57.523 47.619 0.00 0.00 41.46 3.16
3099 4978 3.134458 GACTTTGGGTCTCAGTCAACTG 58.866 50.000 3.69 3.69 41.46 3.16
3100 4979 2.505819 ACTTTGGGTCTCAGTCAACTGT 59.494 45.455 9.82 0.00 44.12 3.55
3101 4980 2.910688 TTGGGTCTCAGTCAACTGTC 57.089 50.000 9.82 3.03 44.12 3.51
3102 4981 1.048601 TGGGTCTCAGTCAACTGTCC 58.951 55.000 9.82 10.36 44.12 4.02
3103 4982 1.343069 GGGTCTCAGTCAACTGTCCT 58.657 55.000 9.82 0.00 44.12 3.85
3104 4983 1.273886 GGGTCTCAGTCAACTGTCCTC 59.726 57.143 9.82 0.00 44.12 3.71
3105 4984 1.273886 GGTCTCAGTCAACTGTCCTCC 59.726 57.143 9.82 5.65 44.12 4.30
3106 4985 2.243810 GTCTCAGTCAACTGTCCTCCT 58.756 52.381 9.82 0.00 44.12 3.69
3107 4986 2.230266 GTCTCAGTCAACTGTCCTCCTC 59.770 54.545 9.82 0.00 44.12 3.71
3108 4987 1.201181 CTCAGTCAACTGTCCTCCTCG 59.799 57.143 9.82 0.00 44.12 4.63
3109 4988 0.389166 CAGTCAACTGTCCTCCTCGC 60.389 60.000 1.88 0.00 39.09 5.03
3110 4989 0.827925 AGTCAACTGTCCTCCTCGCA 60.828 55.000 0.00 0.00 0.00 5.10
3111 4990 0.033504 GTCAACTGTCCTCCTCGCAA 59.966 55.000 0.00 0.00 0.00 4.85
3112 4991 0.033504 TCAACTGTCCTCCTCGCAAC 59.966 55.000 0.00 0.00 0.00 4.17
3113 4992 0.249868 CAACTGTCCTCCTCGCAACA 60.250 55.000 0.00 0.00 0.00 3.33
3114 4993 0.468226 AACTGTCCTCCTCGCAACAA 59.532 50.000 0.00 0.00 0.00 2.83
3115 4994 0.468226 ACTGTCCTCCTCGCAACAAA 59.532 50.000 0.00 0.00 0.00 2.83
3116 4995 1.134220 ACTGTCCTCCTCGCAACAAAA 60.134 47.619 0.00 0.00 0.00 2.44
3117 4996 2.154462 CTGTCCTCCTCGCAACAAAAT 58.846 47.619 0.00 0.00 0.00 1.82
3118 4997 3.244422 ACTGTCCTCCTCGCAACAAAATA 60.244 43.478 0.00 0.00 0.00 1.40
3119 4998 3.745799 TGTCCTCCTCGCAACAAAATAA 58.254 40.909 0.00 0.00 0.00 1.40
3120 4999 4.138290 TGTCCTCCTCGCAACAAAATAAA 58.862 39.130 0.00 0.00 0.00 1.40
3121 5000 4.580995 TGTCCTCCTCGCAACAAAATAAAA 59.419 37.500 0.00 0.00 0.00 1.52
3122 5001 5.154222 GTCCTCCTCGCAACAAAATAAAAG 58.846 41.667 0.00 0.00 0.00 2.27
3123 5002 5.048991 GTCCTCCTCGCAACAAAATAAAAGA 60.049 40.000 0.00 0.00 0.00 2.52
3124 5003 5.181245 TCCTCCTCGCAACAAAATAAAAGAG 59.819 40.000 0.00 0.00 0.00 2.85
3125 5004 5.048713 CCTCCTCGCAACAAAATAAAAGAGT 60.049 40.000 0.00 0.00 0.00 3.24
3126 5005 5.997385 TCCTCGCAACAAAATAAAAGAGTC 58.003 37.500 0.00 0.00 0.00 3.36
3127 5006 5.763204 TCCTCGCAACAAAATAAAAGAGTCT 59.237 36.000 0.00 0.00 0.00 3.24
3128 5007 6.073222 TCCTCGCAACAAAATAAAAGAGTCTC 60.073 38.462 0.00 0.00 0.00 3.36
3129 5008 5.675970 TCGCAACAAAATAAAAGAGTCTCG 58.324 37.500 0.00 0.00 0.00 4.04
3130 5009 4.846137 CGCAACAAAATAAAAGAGTCTCGG 59.154 41.667 0.00 0.00 0.00 4.63
3131 5010 5.560183 CGCAACAAAATAAAAGAGTCTCGGT 60.560 40.000 0.00 0.00 0.00 4.69
3133 5012 6.512741 GCAACAAAATAAAAGAGTCTCGGTCA 60.513 38.462 0.00 0.00 0.00 4.02
3135 5014 6.956047 ACAAAATAAAAGAGTCTCGGTCAAC 58.044 36.000 0.00 0.00 0.00 3.18
3149 5028 4.832248 TCGGTCAACTGAGATTTAGCAAT 58.168 39.130 0.00 0.00 0.00 3.56
3153 5032 4.943705 GTCAACTGAGATTTAGCAATCCCA 59.056 41.667 0.00 0.00 39.95 4.37
3167 5046 4.542662 CAATCCCATTGCTCTAAACTCG 57.457 45.455 0.00 0.00 32.92 4.18
3168 5047 4.191544 CAATCCCATTGCTCTAAACTCGA 58.808 43.478 0.00 0.00 32.92 4.04
3170 5049 2.832129 TCCCATTGCTCTAAACTCGAGT 59.168 45.455 13.58 13.58 0.00 4.18
3174 5053 4.142816 CCATTGCTCTAAACTCGAGTTTGG 60.143 45.833 40.39 37.90 46.56 3.28
3193 5072 6.996106 GTTTGGGCAAAACTTAGTTTTACAC 58.004 36.000 20.72 17.37 42.78 2.90
3200 5079 7.201758 GGCAAAACTTAGTTTTACACACTAGGT 60.202 37.037 20.72 0.00 42.78 3.08
3242 5121 4.522114 CTCCAAAACCCACCAAAACAATT 58.478 39.130 0.00 0.00 0.00 2.32
3266 5145 4.218417 AGCAAACTTGTGAACAAACAGAGT 59.782 37.500 0.00 0.00 35.15 3.24
3274 5153 5.670485 TGTGAACAAACAGAGTACACATCT 58.330 37.500 0.00 0.00 33.04 2.90
3276 5155 7.441836 TGTGAACAAACAGAGTACACATCTAT 58.558 34.615 0.00 0.00 33.04 1.98
3292 5171 7.242359 ACACATCTATATAAGGCACCTCTAGT 58.758 38.462 0.00 0.00 0.00 2.57
3327 5206 6.142320 GGCTACGAAAAAGTCAAGAAAACATG 59.858 38.462 0.00 0.00 0.00 3.21
3393 5276 7.047891 TCTTTTCATATGCTACTAGGTGGTTG 58.952 38.462 0.00 0.00 0.00 3.77
3395 5278 4.295201 TCATATGCTACTAGGTGGTTGGT 58.705 43.478 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.978824 GGCAGACTACGCCTGGAA 59.021 61.111 0.00 0.00 46.56 3.53
6 7 0.309612 GAGCTAGAGGCAGACTACGC 59.690 60.000 0.00 0.00 44.79 4.42
7 8 0.948678 GGAGCTAGAGGCAGACTACG 59.051 60.000 0.00 0.00 44.79 3.51
8 9 0.948678 CGGAGCTAGAGGCAGACTAC 59.051 60.000 0.00 0.00 44.79 2.73
9 10 3.405689 CGGAGCTAGAGGCAGACTA 57.594 57.895 0.00 0.00 44.79 2.59
10 11 4.251246 CGGAGCTAGAGGCAGACT 57.749 61.111 0.00 0.00 44.79 3.24
23 24 2.699073 CCAATCATCAGTGGCGGAG 58.301 57.895 0.00 0.00 29.06 4.63
24 25 4.961637 CCAATCATCAGTGGCGGA 57.038 55.556 0.00 0.00 29.06 5.54
28 29 1.442526 GGCTCGCCAATCATCAGTGG 61.443 60.000 2.41 0.00 41.05 4.00
29 30 1.442526 GGGCTCGCCAATCATCAGTG 61.443 60.000 10.51 0.00 37.98 3.66
30 31 1.153086 GGGCTCGCCAATCATCAGT 60.153 57.895 10.51 0.00 37.98 3.41
31 32 2.249535 CGGGCTCGCCAATCATCAG 61.250 63.158 10.51 0.00 37.98 2.90
152 153 7.551974 CACTATTCATCCATTCATCATCTACCC 59.448 40.741 0.00 0.00 0.00 3.69
154 155 8.933807 CACACTATTCATCCATTCATCATCTAC 58.066 37.037 0.00 0.00 0.00 2.59
173 174 0.183492 ATTCGCCCCATGCACACTAT 59.817 50.000 0.00 0.00 41.33 2.12
174 175 0.747644 CATTCGCCCCATGCACACTA 60.748 55.000 0.00 0.00 41.33 2.74
196 198 2.456119 CGCCTTGATCACCACTCGC 61.456 63.158 0.00 0.00 0.00 5.03
219 221 4.899239 CGTCCCTGCTCATCCGGC 62.899 72.222 0.00 0.00 0.00 6.13
220 222 3.432051 GACGTCCCTGCTCATCCGG 62.432 68.421 3.51 0.00 0.00 5.14
221 223 2.105128 GACGTCCCTGCTCATCCG 59.895 66.667 3.51 0.00 0.00 4.18
222 224 2.105128 CGACGTCCCTGCTCATCC 59.895 66.667 10.58 0.00 0.00 3.51
276 1642 3.901797 AAGCAGCTGTGGTACCCGC 62.902 63.158 16.64 9.58 32.75 6.13
280 1646 3.708563 TTTTCAAAGCAGCTGTGGTAC 57.291 42.857 16.64 0.00 32.75 3.34
282 1648 3.460103 CATTTTTCAAAGCAGCTGTGGT 58.540 40.909 16.64 0.00 35.30 4.16
283 1649 2.222445 GCATTTTTCAAAGCAGCTGTGG 59.778 45.455 16.64 2.67 0.00 4.17
284 1650 2.097104 CGCATTTTTCAAAGCAGCTGTG 60.097 45.455 16.64 6.19 0.00 3.66
285 1651 2.129607 CGCATTTTTCAAAGCAGCTGT 58.870 42.857 16.64 0.00 0.00 4.40
286 1652 1.458064 CCGCATTTTTCAAAGCAGCTG 59.542 47.619 10.11 10.11 0.00 4.24
291 1657 3.181531 CGAATTCCCGCATTTTTCAAAGC 60.182 43.478 0.00 0.00 0.00 3.51
315 1681 0.322975 ATCACAGACCAGAGCACACC 59.677 55.000 0.00 0.00 0.00 4.16
317 1683 0.322648 CCATCACAGACCAGAGCACA 59.677 55.000 0.00 0.00 0.00 4.57
318 1684 1.023513 GCCATCACAGACCAGAGCAC 61.024 60.000 0.00 0.00 0.00 4.40
335 1701 3.127589 GAGAAGAATAGCTCCTTTCGCC 58.872 50.000 0.00 0.00 0.00 5.54
347 1713 8.734218 ACAAGTATAGACAGACGAGAAGAATA 57.266 34.615 0.00 0.00 0.00 1.75
362 1728 7.226918 CACGTATCTCCTCAAGACAAGTATAGA 59.773 40.741 0.00 0.00 36.65 1.98
398 1771 1.956620 GCGTGCCTCGAACTAGCAAC 61.957 60.000 2.66 0.00 42.86 4.17
401 1774 1.736645 TTGCGTGCCTCGAACTAGC 60.737 57.895 2.66 0.00 42.86 3.42
435 1808 2.359981 TACCAGAACGATCGATCCCT 57.640 50.000 24.34 11.15 0.00 4.20
476 1849 0.322187 GGGCGAGGCTTAAAGGTGAA 60.322 55.000 0.00 0.00 0.00 3.18
477 1850 1.298667 GGGCGAGGCTTAAAGGTGA 59.701 57.895 0.00 0.00 0.00 4.02
478 1851 0.608035 TTGGGCGAGGCTTAAAGGTG 60.608 55.000 0.00 0.00 0.00 4.00
492 1865 1.592543 CTTGTGTTTTTCGCTTTGGGC 59.407 47.619 0.00 0.00 37.64 5.36
501 1874 6.866248 TGGTGAGACTTTTTCTTGTGTTTTTC 59.134 34.615 0.00 0.00 33.22 2.29
532 1907 4.093998 CAGAGACCAATGTATGTGTCTTGC 59.906 45.833 0.00 0.00 38.72 4.01
533 1908 4.633126 CCAGAGACCAATGTATGTGTCTTG 59.367 45.833 0.00 0.00 38.72 3.02
534 1909 4.287067 ACCAGAGACCAATGTATGTGTCTT 59.713 41.667 0.00 0.00 38.72 3.01
535 1910 3.840666 ACCAGAGACCAATGTATGTGTCT 59.159 43.478 0.00 0.00 40.23 3.41
536 1911 4.207891 ACCAGAGACCAATGTATGTGTC 57.792 45.455 0.00 0.00 32.53 3.67
537 1912 4.640771 AACCAGAGACCAATGTATGTGT 57.359 40.909 0.00 0.00 0.00 3.72
538 1913 6.823182 TGAATAACCAGAGACCAATGTATGTG 59.177 38.462 0.00 0.00 0.00 3.21
539 1914 6.957631 TGAATAACCAGAGACCAATGTATGT 58.042 36.000 0.00 0.00 0.00 2.29
552 1927 2.427453 GAGCGGACTCTGAATAACCAGA 59.573 50.000 0.00 0.00 40.03 3.86
556 1931 2.094182 TGGTGAGCGGACTCTGAATAAC 60.094 50.000 0.00 0.00 43.85 1.89
569 1944 3.625897 TCCCTGGTGTGGTGAGCG 61.626 66.667 0.00 0.00 0.00 5.03
642 2018 5.044698 TCCCGTCCTATATTTTCCCACTTTT 60.045 40.000 0.00 0.00 0.00 2.27
659 2035 1.397343 GCGATTTTTCTCTTCCCGTCC 59.603 52.381 0.00 0.00 0.00 4.79
662 2038 2.094417 GTCAGCGATTTTTCTCTTCCCG 59.906 50.000 0.00 0.00 0.00 5.14
663 2039 2.420372 GGTCAGCGATTTTTCTCTTCCC 59.580 50.000 0.00 0.00 0.00 3.97
664 2040 3.074412 TGGTCAGCGATTTTTCTCTTCC 58.926 45.455 0.00 0.00 0.00 3.46
665 2041 4.467735 GTTGGTCAGCGATTTTTCTCTTC 58.532 43.478 0.00 0.00 0.00 2.87
666 2042 3.253432 GGTTGGTCAGCGATTTTTCTCTT 59.747 43.478 0.00 0.00 0.00 2.85
667 2043 2.814336 GGTTGGTCAGCGATTTTTCTCT 59.186 45.455 0.00 0.00 0.00 3.10
718 2102 0.036732 TTTTGCCTCGACAGATGGCT 59.963 50.000 13.16 0.00 46.23 4.75
719 2103 0.169009 GTTTTGCCTCGACAGATGGC 59.831 55.000 5.71 5.71 46.26 4.40
720 2104 0.443869 CGTTTTGCCTCGACAGATGG 59.556 55.000 0.00 0.00 0.00 3.51
721 2105 1.428448 TCGTTTTGCCTCGACAGATG 58.572 50.000 0.00 0.00 0.00 2.90
722 2106 3.906660 TCGTTTTGCCTCGACAGAT 57.093 47.368 0.00 0.00 0.00 2.90
727 2111 1.952133 CCGTGTCGTTTTGCCTCGA 60.952 57.895 0.00 0.00 0.00 4.04
728 2112 2.549282 CCGTGTCGTTTTGCCTCG 59.451 61.111 0.00 0.00 0.00 4.63
729 2113 1.595929 TCCCGTGTCGTTTTGCCTC 60.596 57.895 0.00 0.00 0.00 4.70
730 2114 1.890510 GTCCCGTGTCGTTTTGCCT 60.891 57.895 0.00 0.00 0.00 4.75
731 2115 2.181521 TGTCCCGTGTCGTTTTGCC 61.182 57.895 0.00 0.00 0.00 4.52
732 2116 1.010462 GTGTCCCGTGTCGTTTTGC 60.010 57.895 0.00 0.00 0.00 3.68
733 2117 1.274476 CGTGTCCCGTGTCGTTTTG 59.726 57.895 0.00 0.00 0.00 2.44
734 2118 2.527867 GCGTGTCCCGTGTCGTTTT 61.528 57.895 0.00 0.00 39.32 2.43
861 2249 4.589700 GTGCGTGTGTGTGTGGCG 62.590 66.667 0.00 0.00 0.00 5.69
862 2250 3.504273 TGTGCGTGTGTGTGTGGC 61.504 61.111 0.00 0.00 0.00 5.01
863 2251 2.394563 TGTGTGCGTGTGTGTGTGG 61.395 57.895 0.00 0.00 0.00 4.17
864 2252 1.225991 GTGTGTGCGTGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
865 2253 1.669437 TGTGTGTGCGTGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
866 2254 1.225991 GTGTGTGTGCGTGTGTGTG 60.226 57.895 0.00 0.00 0.00 3.82
875 2263 2.051882 GAGCAAGCGTGTGTGTGC 60.052 61.111 0.59 0.00 37.26 4.57
879 2267 1.143838 TGACAGAGCAAGCGTGTGT 59.856 52.632 7.66 0.00 0.00 3.72
885 2273 1.739562 CGGGAGTGACAGAGCAAGC 60.740 63.158 0.00 0.00 0.00 4.01
908 2296 3.984193 CTGGGAAGGCGAGGCTTGG 62.984 68.421 16.67 1.15 0.00 3.61
919 2307 0.939577 CGTGTGTCGTGACTGGGAAG 60.940 60.000 1.23 0.00 34.52 3.46
961 2349 1.740664 GGTTTTCGGTCTCGGAGGC 60.741 63.158 4.96 2.44 36.95 4.70
967 2355 1.878953 TGCTCTTGGTTTTCGGTCTC 58.121 50.000 0.00 0.00 0.00 3.36
1113 2522 1.608283 CCGAACAGGAAGTTGGACTCC 60.608 57.143 0.00 0.00 45.00 3.85
1899 3308 2.042686 TGCTCAAGAATCAATCGGGG 57.957 50.000 0.00 0.00 0.00 5.73
2019 3876 1.740025 GGATGTAGTTGGTTGCTCTGC 59.260 52.381 0.00 0.00 0.00 4.26
2061 3918 8.177663 CGTGAAGAAAATTACAGCACAAGATAT 58.822 33.333 0.00 0.00 0.00 1.63
2070 3927 3.492313 CAGCCGTGAAGAAAATTACAGC 58.508 45.455 0.00 0.00 0.00 4.40
2111 3979 3.520290 TCGTTGACTCACTTTCACAGT 57.480 42.857 0.00 0.00 35.35 3.55
2112 3980 3.302740 GCTTCGTTGACTCACTTTCACAG 60.303 47.826 0.00 0.00 0.00 3.66
2113 3981 2.607635 GCTTCGTTGACTCACTTTCACA 59.392 45.455 0.00 0.00 0.00 3.58
2114 3982 2.866762 AGCTTCGTTGACTCACTTTCAC 59.133 45.455 0.00 0.00 0.00 3.18
2115 3983 2.866156 CAGCTTCGTTGACTCACTTTCA 59.134 45.455 0.00 0.00 0.00 2.69
2116 3984 3.060205 GTCAGCTTCGTTGACTCACTTTC 60.060 47.826 3.98 0.00 39.92 2.62
2119 3987 2.141535 GTCAGCTTCGTTGACTCACT 57.858 50.000 3.98 0.00 39.92 3.41
2590 4469 2.439104 GGCAGGCAACCAAAACCCA 61.439 57.895 0.00 0.00 37.17 4.51
2704 4583 9.766277 CTAGCTAGACAAATCTTTCACATTTTC 57.234 33.333 16.15 0.00 36.29 2.29
2705 4584 8.734386 CCTAGCTAGACAAATCTTTCACATTTT 58.266 33.333 22.70 0.00 36.29 1.82
2706 4585 8.103305 TCCTAGCTAGACAAATCTTTCACATTT 58.897 33.333 22.70 0.00 36.29 2.32
2721 4600 2.694109 ACCGTTTCCATCCTAGCTAGAC 59.306 50.000 22.70 9.17 0.00 2.59
2734 4613 0.313043 TCGTCACTCTCACCGTTTCC 59.687 55.000 0.00 0.00 0.00 3.13
2813 4692 5.580691 CGACTTCAGTAGTATTCCATTGCAA 59.419 40.000 0.00 0.00 37.17 4.08
2831 4710 1.166531 AGCAAAGCCACACCGACTTC 61.167 55.000 0.00 0.00 0.00 3.01
2834 4713 2.639286 CAGCAAAGCCACACCGAC 59.361 61.111 0.00 0.00 0.00 4.79
2868 4747 0.094558 TTTGTCGAATCGCGCATGAC 59.905 50.000 8.75 7.45 40.61 3.06
2875 4754 1.255600 GACGATCCTTTGTCGAATCGC 59.744 52.381 13.31 4.79 41.40 4.58
2876 4755 2.784380 GAGACGATCCTTTGTCGAATCG 59.216 50.000 12.13 12.13 40.65 3.34
2881 4760 3.318017 AGTTTGAGACGATCCTTTGTCG 58.682 45.455 0.00 0.00 40.65 4.35
2935 4814 2.034799 GCCTAGGATCTAGCCACACCA 61.035 57.143 14.75 0.00 0.00 4.17
2950 4829 7.337942 AGACTTGGTTAAATCTCAATTGCCTAG 59.662 37.037 0.00 2.85 0.00 3.02
2951 4830 7.175104 AGACTTGGTTAAATCTCAATTGCCTA 58.825 34.615 0.00 0.00 0.00 3.93
2953 4832 6.272822 AGACTTGGTTAAATCTCAATTGCC 57.727 37.500 0.00 0.00 0.00 4.52
2954 4833 8.515414 ACTAAGACTTGGTTAAATCTCAATTGC 58.485 33.333 0.00 0.00 0.00 3.56
2956 4835 9.793259 TGACTAAGACTTGGTTAAATCTCAATT 57.207 29.630 5.60 0.00 0.00 2.32
3020 4899 5.222631 AGATCCGTGCAAAGTTTTCATTTC 58.777 37.500 0.00 0.00 0.00 2.17
3050 4929 3.859961 CGATGCTATATTCGTGGGATGTC 59.140 47.826 0.00 0.00 0.00 3.06
3052 4931 3.859961 GTCGATGCTATATTCGTGGGATG 59.140 47.826 0.00 0.00 36.74 3.51
3083 4962 1.048601 GGACAGTTGACTGAGACCCA 58.951 55.000 17.42 0.00 46.59 4.51
3085 4964 1.273886 GGAGGACAGTTGACTGAGACC 59.726 57.143 17.42 15.29 46.59 3.85
3086 4965 2.230266 GAGGAGGACAGTTGACTGAGAC 59.770 54.545 17.42 7.14 46.59 3.36
3087 4966 2.520069 GAGGAGGACAGTTGACTGAGA 58.480 52.381 17.42 0.00 46.59 3.27
3088 4967 1.201181 CGAGGAGGACAGTTGACTGAG 59.799 57.143 17.42 0.00 46.59 3.35
3089 4968 1.248486 CGAGGAGGACAGTTGACTGA 58.752 55.000 17.42 0.00 46.59 3.41
3091 4970 0.827925 TGCGAGGAGGACAGTTGACT 60.828 55.000 0.00 0.00 0.00 3.41
3092 4971 0.033504 TTGCGAGGAGGACAGTTGAC 59.966 55.000 0.00 0.00 0.00 3.18
3093 4972 0.033504 GTTGCGAGGAGGACAGTTGA 59.966 55.000 0.00 0.00 0.00 3.18
3094 4973 0.249868 TGTTGCGAGGAGGACAGTTG 60.250 55.000 0.00 0.00 0.00 3.16
3095 4974 0.468226 TTGTTGCGAGGAGGACAGTT 59.532 50.000 0.00 0.00 0.00 3.16
3096 4975 0.468226 TTTGTTGCGAGGAGGACAGT 59.532 50.000 0.00 0.00 0.00 3.55
3098 4977 2.270352 ATTTTGTTGCGAGGAGGACA 57.730 45.000 0.00 0.00 0.00 4.02
3099 4978 4.759516 TTTATTTTGTTGCGAGGAGGAC 57.240 40.909 0.00 0.00 0.00 3.85
3100 4979 5.067273 TCTTTTATTTTGTTGCGAGGAGGA 58.933 37.500 0.00 0.00 0.00 3.71
3101 4980 5.048713 ACTCTTTTATTTTGTTGCGAGGAGG 60.049 40.000 0.00 0.00 0.00 4.30
3102 4981 6.002062 ACTCTTTTATTTTGTTGCGAGGAG 57.998 37.500 0.00 0.00 0.00 3.69
3103 4982 5.763204 AGACTCTTTTATTTTGTTGCGAGGA 59.237 36.000 0.00 0.00 0.00 3.71
3104 4983 6.002062 AGACTCTTTTATTTTGTTGCGAGG 57.998 37.500 0.00 0.00 0.00 4.63
3105 4984 5.785599 CGAGACTCTTTTATTTTGTTGCGAG 59.214 40.000 0.03 0.00 0.00 5.03
3106 4985 5.333798 CCGAGACTCTTTTATTTTGTTGCGA 60.334 40.000 0.03 0.00 0.00 5.10
3107 4986 4.846137 CCGAGACTCTTTTATTTTGTTGCG 59.154 41.667 0.03 0.00 0.00 4.85
3108 4987 5.758924 ACCGAGACTCTTTTATTTTGTTGC 58.241 37.500 0.03 0.00 0.00 4.17
3109 4988 6.954944 TGACCGAGACTCTTTTATTTTGTTG 58.045 36.000 0.03 0.00 0.00 3.33
3110 4989 7.282450 AGTTGACCGAGACTCTTTTATTTTGTT 59.718 33.333 0.03 0.00 0.00 2.83
3111 4990 6.766467 AGTTGACCGAGACTCTTTTATTTTGT 59.234 34.615 0.03 0.00 0.00 2.83
3112 4991 7.042051 TCAGTTGACCGAGACTCTTTTATTTTG 60.042 37.037 0.03 0.00 0.00 2.44
3113 4992 6.990349 TCAGTTGACCGAGACTCTTTTATTTT 59.010 34.615 0.03 0.00 0.00 1.82
3114 4993 6.522054 TCAGTTGACCGAGACTCTTTTATTT 58.478 36.000 0.03 0.00 0.00 1.40
3115 4994 6.015350 TCTCAGTTGACCGAGACTCTTTTATT 60.015 38.462 0.03 0.00 33.37 1.40
3116 4995 5.477291 TCTCAGTTGACCGAGACTCTTTTAT 59.523 40.000 0.03 0.00 33.37 1.40
3117 4996 4.825634 TCTCAGTTGACCGAGACTCTTTTA 59.174 41.667 0.03 0.00 33.37 1.52
3118 4997 3.637229 TCTCAGTTGACCGAGACTCTTTT 59.363 43.478 0.03 0.00 33.37 2.27
3119 4998 3.223435 TCTCAGTTGACCGAGACTCTTT 58.777 45.455 0.03 0.00 33.37 2.52
3120 4999 2.865079 TCTCAGTTGACCGAGACTCTT 58.135 47.619 0.03 0.00 33.37 2.85
3121 5000 2.570415 TCTCAGTTGACCGAGACTCT 57.430 50.000 0.03 0.00 33.37 3.24
3122 5001 3.859411 AATCTCAGTTGACCGAGACTC 57.141 47.619 0.00 0.00 40.92 3.36
3123 5002 4.381079 GCTAAATCTCAGTTGACCGAGACT 60.381 45.833 0.00 0.00 40.92 3.24
3124 5003 3.860536 GCTAAATCTCAGTTGACCGAGAC 59.139 47.826 0.00 0.00 40.92 3.36
3125 5004 3.509967 TGCTAAATCTCAGTTGACCGAGA 59.490 43.478 0.00 0.00 42.25 4.04
3126 5005 3.849911 TGCTAAATCTCAGTTGACCGAG 58.150 45.455 0.00 0.00 0.00 4.63
3127 5006 3.953712 TGCTAAATCTCAGTTGACCGA 57.046 42.857 0.00 0.00 0.00 4.69
3128 5007 4.034510 GGATTGCTAAATCTCAGTTGACCG 59.965 45.833 0.00 0.00 41.74 4.79
3129 5008 4.336713 GGGATTGCTAAATCTCAGTTGACC 59.663 45.833 0.00 0.00 42.13 4.02
3130 5009 4.943705 TGGGATTGCTAAATCTCAGTTGAC 59.056 41.667 0.00 0.00 46.30 3.18
3131 5010 5.178096 TGGGATTGCTAAATCTCAGTTGA 57.822 39.130 0.00 0.00 46.30 3.18
3149 5028 2.832129 ACTCGAGTTTAGAGCAATGGGA 59.168 45.455 13.58 0.00 39.23 4.37
3153 5032 4.003648 CCCAAACTCGAGTTTAGAGCAAT 58.996 43.478 35.97 15.09 45.54 3.56
3159 5038 4.287720 GTTTTGCCCAAACTCGAGTTTAG 58.712 43.478 35.97 29.92 45.54 1.85
3160 5039 4.295857 GTTTTGCCCAAACTCGAGTTTA 57.704 40.909 35.97 21.96 45.54 2.01
3162 5041 2.863401 GTTTTGCCCAAACTCGAGTT 57.137 45.000 24.93 24.93 41.58 3.01
3170 5049 6.590677 GTGTGTAAAACTAAGTTTTGCCCAAA 59.409 34.615 0.00 0.00 43.71 3.28
3174 5053 7.136772 CCTAGTGTGTAAAACTAAGTTTTGCC 58.863 38.462 0.00 0.00 43.71 4.52
3193 5072 4.759693 TGGAGCAAACAAATACACCTAGTG 59.240 41.667 0.00 0.00 39.75 2.74
3200 5079 3.230134 AGCCTTGGAGCAAACAAATACA 58.770 40.909 0.00 0.00 34.23 2.29
3207 5086 1.039856 TTTGGAGCCTTGGAGCAAAC 58.960 50.000 0.00 0.00 34.23 2.93
3242 5121 5.414454 ACTCTGTTTGTTCACAAGTTTGCTA 59.586 36.000 0.00 0.00 37.15 3.49
3266 5145 8.391699 ACTAGAGGTGCCTTATATAGATGTGTA 58.608 37.037 0.00 0.00 0.00 2.90
3276 5155 8.355169 CGTACAAAATACTAGAGGTGCCTTATA 58.645 37.037 0.00 0.00 0.00 0.98
3292 5171 6.423302 TGACTTTTTCGTAGCCGTACAAAATA 59.577 34.615 0.00 0.00 35.01 1.40
3364 5243 8.956426 CCACCTAGTAGCATATGAAAAGAAAAA 58.044 33.333 6.97 0.00 0.00 1.94
3365 5244 8.107095 ACCACCTAGTAGCATATGAAAAGAAAA 58.893 33.333 6.97 0.00 0.00 2.29
3366 5245 7.630082 ACCACCTAGTAGCATATGAAAAGAAA 58.370 34.615 6.97 0.00 0.00 2.52
3367 5246 7.195374 ACCACCTAGTAGCATATGAAAAGAA 57.805 36.000 6.97 0.00 0.00 2.52
3368 5247 6.808321 ACCACCTAGTAGCATATGAAAAGA 57.192 37.500 6.97 0.00 0.00 2.52
3369 5248 6.260936 CCAACCACCTAGTAGCATATGAAAAG 59.739 42.308 6.97 0.00 0.00 2.27
3370 5249 6.119536 CCAACCACCTAGTAGCATATGAAAA 58.880 40.000 6.97 0.00 0.00 2.29
3372 5251 4.719773 ACCAACCACCTAGTAGCATATGAA 59.280 41.667 6.97 0.00 0.00 2.57
3374 5253 4.141711 ACACCAACCACCTAGTAGCATATG 60.142 45.833 0.00 0.00 0.00 1.78
3375 5254 4.037927 ACACCAACCACCTAGTAGCATAT 58.962 43.478 0.00 0.00 0.00 1.78
3376 5255 3.196901 CACACCAACCACCTAGTAGCATA 59.803 47.826 0.00 0.00 0.00 3.14
3377 5256 2.027192 CACACCAACCACCTAGTAGCAT 60.027 50.000 0.00 0.00 0.00 3.79
3379 5258 1.621814 TCACACCAACCACCTAGTAGC 59.378 52.381 0.00 0.00 0.00 3.58
3380 5259 4.553330 AATCACACCAACCACCTAGTAG 57.447 45.455 0.00 0.00 0.00 2.57
3393 5276 7.047891 TGAGTAGATTACATCCAAATCACACC 58.952 38.462 0.00 0.00 36.09 4.16
3395 5278 7.716560 CCATGAGTAGATTACATCCAAATCACA 59.283 37.037 0.00 0.00 36.09 3.58


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

AutoCloner maintained by Alex Coulton.