Multiple sequence alignment - TraesCS1A01G266500

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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 TraesCS1A01G266500 chr1A 100.000 5248 0 0 890 6137 461995982 462001229 0.000000e+00 9692.0
1 TraesCS1A01G266500 chr1A 100.000 625 0 0 1 625 461995093 461995717 0.000000e+00 1155.0
2 TraesCS1A01G266500 chr1A 90.751 346 25 6 13 357 461884292 461884631 7.250000e-124 455.0
3 TraesCS1A01G266500 chr1D 91.971 4210 205 55 890 5007 362483711 362487879 0.000000e+00 5779.0
4 TraesCS1A01G266500 chr1D 90.984 1220 55 24 4953 6137 362487880 362489079 0.000000e+00 1592.0
5 TraesCS1A01G266500 chr1D 90.759 606 36 14 38 625 362483014 362483617 0.000000e+00 791.0
6 TraesCS1A01G266500 chr1D 87.333 150 14 4 193 342 362331329 362331473 3.810000e-37 167.0
7 TraesCS1A01G266500 chr1B 91.236 4233 204 75 891 5004 485283365 485287549 0.000000e+00 5607.0
8 TraesCS1A01G266500 chr1B 88.669 706 36 17 5461 6137 485288109 485288799 0.000000e+00 821.0
9 TraesCS1A01G266500 chr1B 93.957 513 15 5 4950 5461 485287550 485288047 0.000000e+00 761.0
10 TraesCS1A01G266500 chr1B 90.081 494 30 10 1 482 485282593 485283079 1.880000e-174 623.0
11 TraesCS1A01G266500 chr1B 96.226 106 4 0 520 625 485283151 485283256 2.270000e-39 174.0
12 TraesCS1A01G266500 chr3D 77.186 789 151 23 1079 1842 517882310 517883094 3.400000e-117 433.0
13 TraesCS1A01G266500 chr3D 80.690 145 14 7 5998 6135 518152007 518152144 3.910000e-17 100.0
14 TraesCS1A01G266500 chr3A 76.777 788 156 19 1079 1842 653509712 653510496 3.420000e-112 416.0
15 TraesCS1A01G266500 chr3A 100.000 54 0 0 6082 6135 653852040 653852093 3.910000e-17 100.0
16 TraesCS1A01G266500 chr2A 82.759 116 16 3 3397 3512 690309431 690309542 3.910000e-17 100.0
17 TraesCS1A01G266500 chr3B 79.861 144 17 7 5998 6135 682786514 682786651 1.820000e-15 95.3


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 TraesCS1A01G266500 chr1A 461995093 462001229 6136 False 5423.500000 9692 100.0000 1 6137 2 chr1A.!!$F2 6136
1 TraesCS1A01G266500 chr1D 362483014 362489079 6065 False 2720.666667 5779 91.2380 38 6137 3 chr1D.!!$F2 6099
2 TraesCS1A01G266500 chr1B 485282593 485288799 6206 False 1597.200000 5607 92.0338 1 6137 5 chr1B.!!$F1 6136
3 TraesCS1A01G266500 chr3D 517882310 517883094 784 False 433.000000 433 77.1860 1079 1842 1 chr3D.!!$F1 763
4 TraesCS1A01G266500 chr3A 653509712 653510496 784 False 416.000000 416 76.7770 1079 1842 1 chr3A.!!$F1 763

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
20 21 0.039798 GTTGTGTGGCGTCTCGACTA 60.040 55.000 0.00 0.0 35.04 2.59 F
111 115 0.169672 CAGCAATGCACTGCCAGTAC 59.830 55.000 17.84 0.0 43.73 2.73 F
1335 1413 0.798771 CGCTCTACAACAGCTCCGAC 60.799 60.000 0.00 0.0 34.45 4.79 F
1964 2053 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.0 0.00 3.82 F
2682 2790 0.473755 TAGCCGTCCCATCATGCATT 59.526 50.000 0.00 0.0 0.00 3.56 F
3165 3282 1.209747 CTACTAGCACAACCCTTCCCC 59.790 57.143 0.00 0.0 0.00 4.81 F
4476 4663 0.950836 CTTGGTGATGTTGTGGCGAA 59.049 50.000 0.00 0.0 0.00 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1309 1387 0.179108 CTGTTGTAGAGCGGGTAGGC 60.179 60.000 0.0 0.0 0.0 3.93 R
1947 2036 0.871057 CACACACACACACACACACA 59.129 50.000 0.0 0.0 0.0 3.72 R
2524 2632 0.179100 TCGCACCTAAGCAGCATCTC 60.179 55.000 0.0 0.0 0.0 2.75 R
2891 3007 0.446222 CTTAACCAATGTCACGCCCG 59.554 55.000 0.0 0.0 0.0 6.13 R
3676 3817 2.423538 GGTGGTGTTTGGATGCAGATAC 59.576 50.000 0.0 0.0 0.0 2.24 R
4775 4965 0.482446 TGCAGTGGATGGAAAAGGGT 59.518 50.000 0.0 0.0 0.0 4.34 R
5837 6184 1.152030 TCTGAGCCTTGGAGGTGGT 60.152 57.895 0.0 0.0 37.8 4.16 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
20 21 0.039798 GTTGTGTGGCGTCTCGACTA 60.040 55.000 0.00 0.00 35.04 2.59
21 22 0.885879 TTGTGTGGCGTCTCGACTAT 59.114 50.000 0.00 0.00 35.04 2.12
25 26 2.850647 GTGTGGCGTCTCGACTATTAAC 59.149 50.000 0.00 0.00 35.04 2.01
28 29 2.159338 TGGCGTCTCGACTATTAACACC 60.159 50.000 0.00 0.00 35.04 4.16
45 46 7.534085 TTAACACCGTGATCTCATGAAATAC 57.466 36.000 5.28 0.00 34.90 1.89
56 60 9.334947 TGATCTCATGAAATACAATCTCCTTTC 57.665 33.333 0.00 0.00 0.00 2.62
111 115 0.169672 CAGCAATGCACTGCCAGTAC 59.830 55.000 17.84 0.00 43.73 2.73
146 150 5.347907 CCGAAGTCCTACTTGACAACATTAC 59.652 44.000 0.00 0.00 38.80 1.89
169 173 2.758736 ATTCTATCCATCCAGCGAGC 57.241 50.000 0.00 0.00 0.00 5.03
188 193 4.531332 GAGCAAACACATCTCAGTTGTTC 58.469 43.478 0.00 0.00 0.00 3.18
227 236 2.027192 TCCTTTGCAGTATCACAGTCCC 60.027 50.000 0.00 0.00 0.00 4.46
257 268 6.601217 GTCTCCATTCTCTTTTCTTATGCCTT 59.399 38.462 0.00 0.00 0.00 4.35
264 275 6.231211 TCTCTTTTCTTATGCCTTTCTCGTT 58.769 36.000 0.00 0.00 0.00 3.85
344 357 2.751166 AGCGAGGAATGATAATCGGG 57.249 50.000 0.00 0.00 35.76 5.14
487 508 1.231221 GTATCCCGCACACAACACAA 58.769 50.000 0.00 0.00 0.00 3.33
494 515 1.933997 CACACAACACAACAGCGCG 60.934 57.895 0.00 0.00 0.00 6.86
495 516 3.018428 CACAACACAACAGCGCGC 61.018 61.111 26.66 26.66 0.00 6.86
1212 1284 1.011019 CGCGCTCTACCTCTACGTG 60.011 63.158 5.56 0.00 0.00 4.49
1224 1296 1.094073 TCTACGTGCTCCGCTACCTC 61.094 60.000 0.00 0.00 41.42 3.85
1335 1413 0.798771 CGCTCTACAACAGCTCCGAC 60.799 60.000 0.00 0.00 34.45 4.79
1957 2046 9.013229 AGAATCATATTTAATGTGTGTGTGTGT 57.987 29.630 1.85 0.00 0.00 3.72
1958 2047 8.969121 AATCATATTTAATGTGTGTGTGTGTG 57.031 30.769 1.85 0.00 0.00 3.82
1959 2048 7.503521 TCATATTTAATGTGTGTGTGTGTGT 57.496 32.000 1.85 0.00 0.00 3.72
1960 2049 7.358830 TCATATTTAATGTGTGTGTGTGTGTG 58.641 34.615 1.85 0.00 0.00 3.82
1961 2050 5.574891 ATTTAATGTGTGTGTGTGTGTGT 57.425 34.783 0.00 0.00 0.00 3.72
1962 2051 2.917701 AATGTGTGTGTGTGTGTGTG 57.082 45.000 0.00 0.00 0.00 3.82
1963 2052 1.819928 ATGTGTGTGTGTGTGTGTGT 58.180 45.000 0.00 0.00 0.00 3.72
1964 2053 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1965 2054 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1966 2055 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1967 2056 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1968 2057 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1969 2058 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1970 2059 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1971 2060 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1972 2061 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1995 2084 5.536538 TGTGTAATTAGTTGAATTGGGCACA 59.463 36.000 0.00 0.00 40.08 4.57
2032 2122 9.104965 TGAATAGGTAATACAAACTCCATTTCG 57.895 33.333 0.00 0.00 0.00 3.46
2041 2131 8.731275 ATACAAACTCCATTTCGATGATGTTA 57.269 30.769 8.07 0.00 0.00 2.41
2081 2171 1.063417 AGCTCCCAAGGATCCATTTGG 60.063 52.381 20.99 20.99 42.77 3.28
2097 2187 4.440525 CCATTTGGCATCACTGTGGATTAC 60.441 45.833 8.11 0.00 0.00 1.89
2113 2203 7.364200 TGTGGATTACGAATTTGGTTAAGTTG 58.636 34.615 0.00 0.00 0.00 3.16
2213 2304 9.932699 CTGAACATATGAGATGAAATTTGAGAC 57.067 33.333 10.38 0.00 0.00 3.36
2234 2325 9.445786 TGAGACGAAAAACATTTAATTCACTTC 57.554 29.630 0.00 0.00 0.00 3.01
2422 2530 9.821240 ACTCATATCCTATTCTAACAGTGAGAT 57.179 33.333 0.00 0.00 34.87 2.75
2434 2542 8.213518 TCTAACAGTGAGATGCCAATTATTTC 57.786 34.615 0.00 0.00 0.00 2.17
2455 2563 5.245584 TCCATATTCTAGCAATGCCATGA 57.754 39.130 0.00 0.00 0.00 3.07
2460 2568 5.707242 ATTCTAGCAATGCCATGATTCTG 57.293 39.130 0.00 0.00 0.00 3.02
2501 2609 5.603813 AGGAAAATAGCAATGCCATGGTTAT 59.396 36.000 14.67 5.69 32.43 1.89
2502 2610 6.782000 AGGAAAATAGCAATGCCATGGTTATA 59.218 34.615 14.67 0.00 32.43 0.98
2531 2639 9.926158 CATATTCTATTCTAACAGTGAGATGCT 57.074 33.333 0.00 0.00 0.00 3.79
2549 2657 1.069636 GCTGCTTAGGTGCGAATATGC 60.070 52.381 0.00 0.00 35.36 3.14
2562 2670 3.858812 GCGAATATGCACAGCAAATTTGA 59.141 39.130 22.31 0.00 43.62 2.69
2563 2671 4.259530 GCGAATATGCACAGCAAATTTGAC 60.260 41.667 22.31 12.64 43.62 3.18
2573 2681 3.256383 CAGCAAATTTGACACTGGGATGA 59.744 43.478 22.31 0.00 0.00 2.92
2579 2687 3.616956 TTGACACTGGGATGAGATGAC 57.383 47.619 0.00 0.00 0.00 3.06
2585 2693 2.909006 ACTGGGATGAGATGACTTGTGT 59.091 45.455 0.00 0.00 0.00 3.72
2586 2694 3.268330 CTGGGATGAGATGACTTGTGTG 58.732 50.000 0.00 0.00 0.00 3.82
2668 2776 5.163693 ACAGGGAAAAATTTACGATTAGCCG 60.164 40.000 0.00 0.00 0.00 5.52
2673 2781 3.547054 AATTTACGATTAGCCGTCCCA 57.453 42.857 0.00 0.00 43.20 4.37
2682 2790 0.473755 TAGCCGTCCCATCATGCATT 59.526 50.000 0.00 0.00 0.00 3.56
2702 2810 3.713826 TTCACATTACCCTTCCCAGTC 57.286 47.619 0.00 0.00 0.00 3.51
2725 2833 5.535406 TCGATCTACCTCATAAAGTTCCTCC 59.465 44.000 0.00 0.00 0.00 4.30
2749 2857 3.270877 CAAACCTTAGCGCTAGTTCCAT 58.729 45.455 17.98 2.14 0.00 3.41
2754 2862 3.430929 CCTTAGCGCTAGTTCCATCAGTT 60.431 47.826 17.98 0.00 0.00 3.16
2848 2961 2.286831 CCAAGCTGAGCATAAATCTGCG 60.287 50.000 7.39 0.00 46.86 5.18
2929 3045 2.656947 GCAGGGGCTAATGGTAATGA 57.343 50.000 0.00 0.00 36.96 2.57
3004 3120 4.875536 TGGATGTTATGTGTCTTCCATTCG 59.124 41.667 0.00 0.00 34.49 3.34
3009 3125 3.558931 ATGTGTCTTCCATTCGGCATA 57.441 42.857 0.00 0.00 0.00 3.14
3092 3209 6.262049 AGTTTTTGTGATATTTGGCCAAAACC 59.738 34.615 33.43 23.52 35.45 3.27
3105 3222 4.835615 TGGCCAAAACCAGTACACAATTAT 59.164 37.500 0.61 0.00 33.75 1.28
3159 3276 4.184629 CTCATTGACTACTAGCACAACCC 58.815 47.826 0.00 0.00 0.00 4.11
3162 3279 3.955650 TGACTACTAGCACAACCCTTC 57.044 47.619 0.00 0.00 0.00 3.46
3163 3280 2.565834 TGACTACTAGCACAACCCTTCC 59.434 50.000 0.00 0.00 0.00 3.46
3164 3281 1.907255 ACTACTAGCACAACCCTTCCC 59.093 52.381 0.00 0.00 0.00 3.97
3165 3282 1.209747 CTACTAGCACAACCCTTCCCC 59.790 57.143 0.00 0.00 0.00 4.81
3237 3356 9.702253 AAACTTAAGAGTATCCTAGTCTGATCA 57.298 33.333 10.09 0.00 38.44 2.92
3239 3358 9.875708 ACTTAAGAGTATCCTAGTCTGATCAAT 57.124 33.333 10.09 0.00 38.44 2.57
3247 3366 2.593346 AGTCTGATCAATGTCCGAGC 57.407 50.000 0.00 0.00 0.00 5.03
3564 3691 9.677567 GCAGTTTAATCATAAGAAACTTTGTGA 57.322 29.630 0.00 0.00 40.54 3.58
3622 3750 6.780457 AAAGGATACAGATCATTTTGGTGG 57.220 37.500 0.00 0.00 41.99 4.61
3623 3751 5.715439 AGGATACAGATCATTTTGGTGGA 57.285 39.130 0.00 0.00 41.41 4.02
3624 3752 5.688807 AGGATACAGATCATTTTGGTGGAG 58.311 41.667 0.00 0.00 41.41 3.86
3640 3772 6.327279 TGGTGGAGTATATGATAGTGAACG 57.673 41.667 0.00 0.00 0.00 3.95
3642 3774 5.336531 GGTGGAGTATATGATAGTGAACGGG 60.337 48.000 0.00 0.00 0.00 5.28
3787 3958 3.669949 AGGGAGGTAGATAATTGCACCT 58.330 45.455 0.00 0.00 44.11 4.00
3852 4027 8.218338 TGTCAATTTAACCAAAACATGCATTT 57.782 26.923 0.00 0.00 0.00 2.32
3871 4046 6.377712 TGCATTTCATATGTCATCTGTCCAAA 59.622 34.615 1.90 0.00 0.00 3.28
3945 4121 3.774766 TCCACCGAGGCATATATAGCAAT 59.225 43.478 8.68 0.00 37.29 3.56
3974 4151 2.618053 CCGAATCCCAACTCTGTGTAC 58.382 52.381 0.00 0.00 0.00 2.90
4025 4202 5.982890 AATGTTTGAGGGAACATGTAAGG 57.017 39.130 0.00 0.00 46.53 2.69
4033 4210 5.193099 AGGGAACATGTAAGGTTAGCAAT 57.807 39.130 0.00 0.00 43.10 3.56
4042 4219 9.860650 ACATGTAAGGTTAGCAATGGATATTAA 57.139 29.630 0.00 0.00 0.00 1.40
4099 4276 9.836076 CATACACTTCATTATATCAATTGCAGG 57.164 33.333 0.00 0.00 0.00 4.85
4134 4311 9.444600 GTTCTGGTAGTATGTTTTATTCTGGAA 57.555 33.333 0.00 0.00 0.00 3.53
4138 4315 9.575868 TGGTAGTATGTTTTATTCTGGAACAAA 57.424 29.630 0.00 0.00 38.70 2.83
4141 4318 8.934023 AGTATGTTTTATTCTGGAACAAAGGA 57.066 30.769 0.00 0.00 38.70 3.36
4142 4319 9.533831 AGTATGTTTTATTCTGGAACAAAGGAT 57.466 29.630 0.00 0.00 38.70 3.24
4219 4396 4.118168 AGGTTCCAGGATCAAATTGTGT 57.882 40.909 0.00 0.00 0.00 3.72
4234 4411 7.215789 TCAAATTGTGTTTCTATTGCATTGGT 58.784 30.769 0.00 0.00 0.00 3.67
4236 4413 8.986847 CAAATTGTGTTTCTATTGCATTGGTTA 58.013 29.630 0.00 0.00 0.00 2.85
4267 4454 8.859090 ACCAATTCATTTGAAGTAGTTGAATGA 58.141 29.630 11.78 11.78 37.17 2.57
4281 4468 9.182214 AGTAGTTGAATGATGTTTGCAGAATAT 57.818 29.630 0.00 0.00 0.00 1.28
4325 4512 3.822735 TCACAATTCTTTCCTTGCTCTGG 59.177 43.478 0.00 0.00 0.00 3.86
4375 4562 8.522830 CAAAAACTTATCCCATGTTACAGTGAT 58.477 33.333 0.00 0.00 0.00 3.06
4384 4571 5.335897 CCCATGTTACAGTGATTTGAACCAG 60.336 44.000 0.00 0.00 0.00 4.00
4476 4663 0.950836 CTTGGTGATGTTGTGGCGAA 59.049 50.000 0.00 0.00 0.00 4.70
4477 4664 1.541147 CTTGGTGATGTTGTGGCGAAT 59.459 47.619 0.00 0.00 0.00 3.34
4498 4685 8.223769 GCGAATATGAATGTTCCTATTACTGTG 58.776 37.037 4.10 0.00 31.18 3.66
4658 4845 6.783708 ACCTTTTTACAAATGGTGAGTTCA 57.216 33.333 6.10 0.00 0.00 3.18
4683 4873 9.577110 CACATTTATGCTGTGTATCTTCATTTT 57.423 29.630 0.00 0.00 39.30 1.82
4710 4900 5.700832 TGACTACTAGAAGCAAAATGGTGTG 59.299 40.000 0.00 0.00 0.00 3.82
4714 4904 6.743575 ACTAGAAGCAAAATGGTGTGTATC 57.256 37.500 0.00 0.00 0.00 2.24
4775 4965 9.208022 CTCTCATAATGACAGTGTTCAGTTTAA 57.792 33.333 0.00 0.00 0.00 1.52
4818 5008 7.596248 GCATCTGCAATGATATAAAATTTCCGT 59.404 33.333 11.52 0.00 41.59 4.69
4908 5098 8.798859 AGAATTCACACTTATACTCAAAGCAT 57.201 30.769 8.44 0.00 0.00 3.79
4924 5114 7.087409 TCAAAGCATATGGTGTAGAATGTTG 57.913 36.000 8.44 6.75 0.00 3.33
5059 5309 1.424403 TGTACCGATGCAGTTGAACG 58.576 50.000 0.00 0.00 0.00 3.95
5084 5334 6.694411 GTGTTCATTGTTATTGGATGATGAGC 59.306 38.462 0.00 0.00 30.59 4.26
5175 5425 2.335316 TTGCCCCATACGTACATTCC 57.665 50.000 0.00 0.00 0.00 3.01
5176 5426 0.470766 TGCCCCATACGTACATTCCC 59.529 55.000 0.00 0.00 0.00 3.97
5177 5427 0.250597 GCCCCATACGTACATTCCCC 60.251 60.000 0.00 0.00 0.00 4.81
5258 5508 3.264964 TGATAGGTGGTTTAACTGGACCC 59.735 47.826 0.00 0.00 34.99 4.46
5259 5509 0.775542 AGGTGGTTTAACTGGACCCC 59.224 55.000 0.00 0.00 34.99 4.95
5492 5804 1.123038 CGATGAGCGCAAAAAGTTTGC 59.877 47.619 11.47 14.28 41.71 3.68
5494 5806 2.222007 TGAGCGCAAAAAGTTTGCAT 57.778 40.000 21.73 11.87 45.14 3.96
5495 5807 2.548875 TGAGCGCAAAAAGTTTGCATT 58.451 38.095 21.73 11.25 45.14 3.56
5496 5808 2.284684 TGAGCGCAAAAAGTTTGCATTG 59.715 40.909 21.73 9.69 45.14 2.82
5498 5810 3.132925 AGCGCAAAAAGTTTGCATTGAT 58.867 36.364 21.73 5.51 45.14 2.57
5503 5815 6.592166 CGCAAAAAGTTTGCATTGATGTATT 58.408 32.000 21.73 0.00 45.14 1.89
5504 5816 6.517034 CGCAAAAAGTTTGCATTGATGTATTG 59.483 34.615 21.73 1.73 45.14 1.90
5505 5817 6.303733 GCAAAAAGTTTGCATTGATGTATTGC 59.696 34.615 18.31 2.72 44.34 3.56
5506 5818 6.484818 AAAAGTTTGCATTGATGTATTGCC 57.515 33.333 0.00 0.00 35.35 4.52
5507 5819 5.410355 AAGTTTGCATTGATGTATTGCCT 57.590 34.783 0.00 0.00 35.35 4.75
5508 5820 6.528537 AAGTTTGCATTGATGTATTGCCTA 57.471 33.333 0.00 0.00 35.35 3.93
5509 5821 5.894807 AGTTTGCATTGATGTATTGCCTAC 58.105 37.500 0.00 0.00 35.35 3.18
5510 5822 4.550577 TTGCATTGATGTATTGCCTACG 57.449 40.909 0.00 0.00 35.35 3.51
5511 5823 3.540617 TGCATTGATGTATTGCCTACGT 58.459 40.909 0.00 0.00 35.35 3.57
5512 5824 4.698575 TGCATTGATGTATTGCCTACGTA 58.301 39.130 0.00 0.00 35.35 3.57
5513 5825 5.304778 TGCATTGATGTATTGCCTACGTAT 58.695 37.500 0.00 0.00 35.35 3.06
5514 5826 5.179182 TGCATTGATGTATTGCCTACGTATG 59.821 40.000 0.00 0.00 35.35 2.39
5589 5908 1.067295 TGGTGCCCAGGGATATGATC 58.933 55.000 10.89 0.00 0.00 2.92
5625 5944 5.719563 ACCAAGTTAAATTTCTGGGTATGGG 59.280 40.000 4.48 0.00 36.35 4.00
5638 5957 3.527253 TGGGTATGGGATTCAGTTGATGT 59.473 43.478 0.00 0.00 0.00 3.06
5641 5960 1.452110 TGGGATTCAGTTGATGTGCG 58.548 50.000 0.00 0.00 0.00 5.34
5694 6013 6.079424 TGTATGAACTTGGGCAAACTTAAC 57.921 37.500 0.00 0.00 0.00 2.01
5695 6014 5.830991 TGTATGAACTTGGGCAAACTTAACT 59.169 36.000 0.00 0.00 0.00 2.24
5718 6065 9.981114 AACTAAAATAATTTGGAACAGAGGTTG 57.019 29.630 0.00 0.00 42.39 3.77
5720 6067 6.358974 AAATAATTTGGAACAGAGGTTGGG 57.641 37.500 0.00 0.00 42.39 4.12
5722 6069 3.611025 ATTTGGAACAGAGGTTGGGAA 57.389 42.857 0.00 0.00 42.39 3.97
5723 6070 3.390175 TTTGGAACAGAGGTTGGGAAA 57.610 42.857 0.00 0.00 42.39 3.13
5724 6071 2.358322 TGGAACAGAGGTTGGGAAAC 57.642 50.000 0.00 0.00 37.36 2.78
5725 6072 1.566703 TGGAACAGAGGTTGGGAAACA 59.433 47.619 0.00 0.00 37.36 2.83
5726 6073 2.176798 TGGAACAGAGGTTGGGAAACAT 59.823 45.455 0.00 0.00 37.36 2.71
5727 6074 3.230976 GGAACAGAGGTTGGGAAACATT 58.769 45.455 0.00 0.00 37.36 2.71
5728 6075 3.641436 GGAACAGAGGTTGGGAAACATTT 59.359 43.478 0.00 0.00 37.36 2.32
5729 6076 4.100963 GGAACAGAGGTTGGGAAACATTTT 59.899 41.667 0.00 0.00 37.36 1.82
5747 6094 5.010922 ACATTTTCACTGCCATTAGCTTTCA 59.989 36.000 0.00 0.00 44.23 2.69
5801 6148 7.602517 AGTAAGAGAATTTACATGCACAGAC 57.397 36.000 0.00 0.00 36.27 3.51
5837 6184 5.428184 AACCAACCCAAAAGAATTGTTGA 57.572 34.783 0.00 0.00 38.81 3.18
5843 6190 3.387699 CCCAAAAGAATTGTTGACCACCT 59.612 43.478 0.00 0.00 0.00 4.00
5893 6247 0.954452 GCAACAGAGGAGGGTTTGTG 59.046 55.000 0.00 0.00 0.00 3.33
5966 6320 4.082408 TGCAGGTACGGTGCTATACATATC 60.082 45.833 17.05 0.00 41.78 1.63
6035 6389 1.081108 AGCTCGACGACAAGCTCAC 60.081 57.895 4.40 0.00 45.57 3.51
6071 6425 4.735132 CGCGGGGTTGCTCTTCGA 62.735 66.667 0.00 0.00 0.00 3.71
6081 6435 2.154854 TGCTCTTCGACTGGTTCTTG 57.845 50.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 7.768582 TGTATTTCATGAGATCACGGTGTTAAT 59.231 33.333 8.17 0.00 0.00 1.40
21 22 7.100409 TGTATTTCATGAGATCACGGTGTTAA 58.900 34.615 8.17 0.00 0.00 2.01
25 26 6.481313 AGATTGTATTTCATGAGATCACGGTG 59.519 38.462 1.29 0.56 0.00 4.94
28 29 6.927936 AGGAGATTGTATTTCATGAGATCACG 59.072 38.462 1.29 0.00 0.00 4.35
45 46 4.307032 TTCTTCAGGGGAAAGGAGATTG 57.693 45.455 0.00 0.00 31.35 2.67
72 76 3.626930 TGGCTACCTTTTTGTTCACAGT 58.373 40.909 0.00 0.00 0.00 3.55
88 92 3.594568 GCAGTGCATTGCTGGCTA 58.405 55.556 25.31 0.00 40.89 3.93
146 150 4.569966 GCTCGCTGGATGGATAGAATATTG 59.430 45.833 0.00 0.00 0.00 1.90
153 157 1.869767 GTTTGCTCGCTGGATGGATAG 59.130 52.381 0.00 0.00 0.00 2.08
169 173 3.002656 AGCGAACAACTGAGATGTGTTTG 59.997 43.478 0.00 4.12 0.00 2.93
188 193 1.416813 GATTCTCCGTGACAGCAGCG 61.417 60.000 0.00 0.00 0.00 5.18
227 236 5.331876 AGAAAAGAGAATGGAGACTACCG 57.668 43.478 0.00 0.00 0.00 4.02
257 268 1.340211 ACAACCACCCACAAACGAGAA 60.340 47.619 0.00 0.00 0.00 2.87
264 275 0.179051 GTACGGACAACCACCCACAA 60.179 55.000 0.00 0.00 35.59 3.33
317 328 7.923344 CCGATTATCATTCCTCGCTTCTAATAT 59.077 37.037 0.00 0.00 0.00 1.28
318 329 7.258441 CCGATTATCATTCCTCGCTTCTAATA 58.742 38.462 0.00 0.00 0.00 0.98
319 330 6.102663 CCGATTATCATTCCTCGCTTCTAAT 58.897 40.000 0.00 0.00 0.00 1.73
465 484 1.079681 GTTGTGTGCGGGATACGGA 60.080 57.895 0.00 0.00 44.51 4.69
499 520 2.190578 GAAGTGGGAGATGCGGGG 59.809 66.667 0.00 0.00 0.00 5.73
500 521 2.202932 CGAAGTGGGAGATGCGGG 60.203 66.667 0.00 0.00 0.00 6.13
503 524 1.522580 GGAGCGAAGTGGGAGATGC 60.523 63.158 0.00 0.00 0.00 3.91
505 526 2.427245 CGGGAGCGAAGTGGGAGAT 61.427 63.158 0.00 0.00 0.00 2.75
506 527 3.068691 CGGGAGCGAAGTGGGAGA 61.069 66.667 0.00 0.00 0.00 3.71
507 528 4.148825 CCGGGAGCGAAGTGGGAG 62.149 72.222 0.00 0.00 0.00 4.30
541 596 0.883370 GACGTGTGGGGTTTGGAGTC 60.883 60.000 0.00 0.00 0.00 3.36
967 1027 0.769873 CCAGATCTCCCATCCCTTGG 59.230 60.000 0.00 0.00 46.00 3.61
995 1055 2.685017 TGGCGCTCACCATCTCCT 60.685 61.111 7.64 0.00 33.75 3.69
1309 1387 0.179108 CTGTTGTAGAGCGGGTAGGC 60.179 60.000 0.00 0.00 0.00 3.93
1932 2021 9.064804 CACACACACACACATTAAATATGATTC 57.935 33.333 0.00 0.00 0.00 2.52
1937 2026 7.138081 CACACACACACACACACATTAAATAT 58.862 34.615 0.00 0.00 0.00 1.28
1947 2036 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
1954 2043 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
1956 2045 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
1957 2046 2.457366 TACACACACACACACACACA 57.543 45.000 0.00 0.00 0.00 3.72
1958 2047 4.349663 AATTACACACACACACACACAC 57.650 40.909 0.00 0.00 0.00 3.82
1959 2048 5.179533 ACTAATTACACACACACACACACA 58.820 37.500 0.00 0.00 0.00 3.72
1960 2049 5.728351 ACTAATTACACACACACACACAC 57.272 39.130 0.00 0.00 0.00 3.82
1961 2050 5.875359 TCAACTAATTACACACACACACACA 59.125 36.000 0.00 0.00 0.00 3.72
1962 2051 6.352682 TCAACTAATTACACACACACACAC 57.647 37.500 0.00 0.00 0.00 3.82
1963 2052 6.986904 TTCAACTAATTACACACACACACA 57.013 33.333 0.00 0.00 0.00 3.72
1964 2053 7.378461 CCAATTCAACTAATTACACACACACAC 59.622 37.037 0.00 0.00 35.54 3.82
1965 2054 7.421599 CCAATTCAACTAATTACACACACACA 58.578 34.615 0.00 0.00 35.54 3.72
1966 2055 6.861055 CCCAATTCAACTAATTACACACACAC 59.139 38.462 0.00 0.00 35.54 3.82
1967 2056 6.515862 GCCCAATTCAACTAATTACACACACA 60.516 38.462 0.00 0.00 35.54 3.72
1968 2057 5.861787 GCCCAATTCAACTAATTACACACAC 59.138 40.000 0.00 0.00 35.54 3.82
1969 2058 5.536538 TGCCCAATTCAACTAATTACACACA 59.463 36.000 0.00 0.00 35.54 3.72
1970 2059 5.861787 GTGCCCAATTCAACTAATTACACAC 59.138 40.000 0.00 0.00 35.54 3.82
1971 2060 5.536538 TGTGCCCAATTCAACTAATTACACA 59.463 36.000 0.00 0.00 39.84 3.72
1972 2061 6.019779 TGTGCCCAATTCAACTAATTACAC 57.980 37.500 0.00 0.00 35.54 2.90
2041 2131 8.045507 GGGAGCTTACAAATACTTAAAGTAGGT 58.954 37.037 0.00 0.00 33.66 3.08
2061 2151 1.063417 CCAAATGGATCCTTGGGAGCT 60.063 52.381 20.42 0.00 38.31 4.09
2062 2152 1.406903 CCAAATGGATCCTTGGGAGC 58.593 55.000 20.42 0.00 38.77 4.70
2063 2153 1.342275 TGCCAAATGGATCCTTGGGAG 60.342 52.381 26.25 8.75 42.08 4.30
2081 2171 4.882671 AATTCGTAATCCACAGTGATGC 57.117 40.909 0.62 0.00 0.00 3.91
2097 2187 7.204604 ACCTAAAACCAACTTAACCAAATTCG 58.795 34.615 0.00 0.00 0.00 3.34
2113 2203 4.038282 CCAAACACCCAGTTACCTAAAACC 59.962 45.833 0.00 0.00 40.26 3.27
2155 2246 8.853345 CAGATACATATTTGTTTGCAACTTGAC 58.147 33.333 0.00 0.00 37.28 3.18
2296 2396 1.267365 CTTGCGGTTGTTGTGTTGTG 58.733 50.000 0.00 0.00 0.00 3.33
2331 2431 4.973168 TGAGGTGCATAGAAACAAGAAGT 58.027 39.130 0.00 0.00 0.00 3.01
2334 2434 6.003326 TGATTTGAGGTGCATAGAAACAAGA 58.997 36.000 0.00 0.00 0.00 3.02
2335 2435 6.258230 TGATTTGAGGTGCATAGAAACAAG 57.742 37.500 0.00 0.00 0.00 3.16
2337 2437 6.647334 TTTGATTTGAGGTGCATAGAAACA 57.353 33.333 0.00 0.00 0.00 2.83
2338 2438 7.092716 ACATTTGATTTGAGGTGCATAGAAAC 58.907 34.615 0.00 0.00 0.00 2.78
2339 2439 7.230849 ACATTTGATTTGAGGTGCATAGAAA 57.769 32.000 0.00 0.00 0.00 2.52
2407 2515 8.757982 AATAATTGGCATCTCACTGTTAGAAT 57.242 30.769 0.00 0.00 0.00 2.40
2422 2530 8.476064 TTGCTAGAATATGGAAATAATTGGCA 57.524 30.769 0.00 0.00 0.00 4.92
2423 2531 9.362539 CATTGCTAGAATATGGAAATAATTGGC 57.637 33.333 0.00 0.00 0.00 4.52
2434 2542 6.377429 AGAATCATGGCATTGCTAGAATATGG 59.623 38.462 8.82 0.00 0.00 2.74
2455 2563 5.587844 CCTCTCGTTTCCATGATTTCAGAAT 59.412 40.000 0.00 0.00 0.00 2.40
2460 2568 5.880054 TTTCCTCTCGTTTCCATGATTTC 57.120 39.130 0.00 0.00 0.00 2.17
2523 2631 0.460811 CGCACCTAAGCAGCATCTCA 60.461 55.000 0.00 0.00 0.00 3.27
2524 2632 0.179100 TCGCACCTAAGCAGCATCTC 60.179 55.000 0.00 0.00 0.00 2.75
2531 2639 2.323968 TGCATATTCGCACCTAAGCA 57.676 45.000 0.00 0.00 36.86 3.91
2549 2657 2.361757 TCCCAGTGTCAAATTTGCTGTG 59.638 45.455 13.54 6.83 0.00 3.66
2562 2670 2.909006 ACAAGTCATCTCATCCCAGTGT 59.091 45.455 0.00 0.00 0.00 3.55
2563 2671 3.268330 CACAAGTCATCTCATCCCAGTG 58.732 50.000 0.00 0.00 0.00 3.66
2579 2687 4.020218 TCCCCTCTGACTTATTCACACAAG 60.020 45.833 0.00 0.00 0.00 3.16
2585 2693 6.884472 TTATGTTCCCCTCTGACTTATTCA 57.116 37.500 0.00 0.00 0.00 2.57
2586 2694 7.227512 CACATTATGTTCCCCTCTGACTTATTC 59.772 40.741 0.00 0.00 0.00 1.75
2639 2747 9.338622 CTAATCGTAAATTTTTCCCTGTCCTAT 57.661 33.333 0.00 0.00 0.00 2.57
2642 2750 6.263344 GCTAATCGTAAATTTTTCCCTGTCC 58.737 40.000 0.00 0.00 0.00 4.02
2668 2776 4.395959 AATGTGAAATGCATGATGGGAC 57.604 40.909 0.00 0.00 0.00 4.46
2673 2781 5.069516 GGAAGGGTAATGTGAAATGCATGAT 59.930 40.000 0.00 0.00 0.00 2.45
2682 2790 2.027561 CGACTGGGAAGGGTAATGTGAA 60.028 50.000 0.00 0.00 0.00 3.18
2702 2810 5.279056 GGGAGGAACTTTATGAGGTAGATCG 60.279 48.000 0.00 0.00 41.55 3.69
2725 2833 2.094762 ACTAGCGCTAAGGTTTGTGG 57.905 50.000 19.37 5.80 0.00 4.17
2749 2857 1.839994 GAGGGGATGGATCACAACTGA 59.160 52.381 0.00 0.00 0.00 3.41
2754 2862 0.988145 GGGTGAGGGGATGGATCACA 60.988 60.000 6.86 0.00 44.08 3.58
2848 2961 0.960861 GGCTAGGGGCACACTGTTTC 60.961 60.000 0.00 0.00 44.01 2.78
2891 3007 0.446222 CTTAACCAATGTCACGCCCG 59.554 55.000 0.00 0.00 0.00 6.13
2929 3045 8.192774 CCTGTTCATATTGTCAATTAGCAATGT 58.807 33.333 2.79 7.06 36.75 2.71
3030 3146 6.773685 CCACTATTACCAGAGACTAGCTAACT 59.226 42.308 0.00 0.00 0.00 2.24
3131 3248 7.404671 TGTGCTAGTAGTCAATGAGTTGATA 57.595 36.000 0.00 0.00 45.46 2.15
3231 3350 2.897436 TCAAGCTCGGACATTGATCAG 58.103 47.619 0.00 0.00 0.00 2.90
3237 3356 2.499289 AGTCAGATCAAGCTCGGACATT 59.501 45.455 6.71 0.00 41.17 2.71
3239 3358 1.550327 AGTCAGATCAAGCTCGGACA 58.450 50.000 6.71 0.00 41.17 4.02
3247 3366 4.645535 TGGGAAGAACAAGTCAGATCAAG 58.354 43.478 0.00 0.00 0.00 3.02
3518 3645 4.900684 TGCCTGCACAGTATACTAAAACA 58.099 39.130 4.74 1.38 0.00 2.83
3617 3745 5.243060 CCGTTCACTATCATATACTCCACCA 59.757 44.000 0.00 0.00 0.00 4.17
3618 3746 5.336531 CCCGTTCACTATCATATACTCCACC 60.337 48.000 0.00 0.00 0.00 4.61
3620 3748 5.637127 TCCCGTTCACTATCATATACTCCA 58.363 41.667 0.00 0.00 0.00 3.86
3621 3749 6.585695 TTCCCGTTCACTATCATATACTCC 57.414 41.667 0.00 0.00 0.00 3.85
3622 3750 9.953697 GATATTCCCGTTCACTATCATATACTC 57.046 37.037 0.00 0.00 0.00 2.59
3623 3751 9.702253 AGATATTCCCGTTCACTATCATATACT 57.298 33.333 0.00 0.00 0.00 2.12
3676 3817 2.423538 GGTGGTGTTTGGATGCAGATAC 59.576 50.000 0.00 0.00 0.00 2.24
3712 3859 7.027874 AGGATTTTAGTTTAGATGGGTGTCA 57.972 36.000 0.00 0.00 0.00 3.58
3751 3898 8.110743 TCTACCTCCCTACTATTCAAGTTAGA 57.889 38.462 0.00 0.00 39.80 2.10
3813 3988 7.283127 GGTTAAATTGACAGAGATATCAGCCAA 59.717 37.037 5.32 0.17 0.00 4.52
3852 4027 6.581712 TCGAATTTGGACAGATGACATATGA 58.418 36.000 16.71 0.00 0.00 2.15
3945 4121 3.761752 GAGTTGGGATTCGGGAAATCAAA 59.238 43.478 0.72 0.00 44.81 2.69
4025 4202 7.522374 GCTGTAGCTTAATATCCATTGCTAAC 58.478 38.462 0.00 0.00 38.21 2.34
4111 4288 8.786826 TGTTCCAGAATAAAACATACTACCAG 57.213 34.615 0.00 0.00 0.00 4.00
4134 4311 4.038271 ACATGTGATGTCCATCCTTTGT 57.962 40.909 0.00 3.35 39.92 2.83
4175 4352 9.227777 ACCTTAAGGAATATACAAACACAAGAC 57.772 33.333 28.52 0.00 38.94 3.01
4234 4411 6.723298 ACTTCAAATGAATTGGTGGTGTAA 57.277 33.333 0.00 0.00 39.62 2.41
4236 4413 5.833131 ACTACTTCAAATGAATTGGTGGTGT 59.167 36.000 2.50 0.00 39.62 4.16
4281 4468 8.208224 TGTGAGAACAGGAGAAATGTAAGTTAA 58.792 33.333 0.00 0.00 0.00 2.01
4288 4475 6.302269 AGAATTGTGAGAACAGGAGAAATGT 58.698 36.000 0.00 0.00 0.00 2.71
4358 4545 5.418840 GGTTCAAATCACTGTAACATGGGAT 59.581 40.000 0.00 0.00 0.00 3.85
4375 4562 5.547465 ACTTCACATATCGTCTGGTTCAAA 58.453 37.500 0.00 0.00 0.00 2.69
4384 4571 7.174082 GCTTTTCTGTTACTTCACATATCGTC 58.826 38.462 0.00 0.00 0.00 4.20
4498 4685 5.450550 GGCTCCCATCAAAGTTACATTTAGC 60.451 44.000 0.00 0.00 0.00 3.09
4683 4873 6.650807 CACCATTTTGCTTCTAGTAGTCAGAA 59.349 38.462 0.00 0.17 0.00 3.02
4710 4900 6.740110 TGGATTTTTCTCTCTCTAGCGATAC 58.260 40.000 0.00 0.00 0.00 2.24
4714 4904 7.328249 GTGATATGGATTTTTCTCTCTCTAGCG 59.672 40.741 0.00 0.00 0.00 4.26
4775 4965 0.482446 TGCAGTGGATGGAAAAGGGT 59.518 50.000 0.00 0.00 0.00 4.34
4881 5071 7.063426 TGCTTTGAGTATAAGTGTGAATTCTCG 59.937 37.037 7.05 0.00 0.00 4.04
4908 5098 8.042515 GGGTTAACTACAACATTCTACACCATA 58.957 37.037 5.42 0.00 0.00 2.74
4924 5114 7.070322 TCACTAGGTTATCATGGGGTTAACTAC 59.930 40.741 5.42 0.00 33.87 2.73
4962 5211 7.633193 AGATACAGTCGATAAGAGTCACTTT 57.367 36.000 0.00 0.00 39.72 2.66
5059 5309 6.694411 GCTCATCATCCAATAACAATGAACAC 59.306 38.462 0.00 0.00 33.44 3.32
5084 5334 6.128063 GGATTTCAGACATGAAGAAAGGTCAG 60.128 42.308 0.00 0.00 45.89 3.51
5175 5425 1.173913 GACAAAACCGAAGATGGGGG 58.826 55.000 0.00 0.00 0.00 5.40
5176 5426 1.812571 CTGACAAAACCGAAGATGGGG 59.187 52.381 0.00 0.00 0.00 4.96
5177 5427 1.200020 GCTGACAAAACCGAAGATGGG 59.800 52.381 0.00 0.00 0.00 4.00
5258 5508 5.002516 ACAAGAGAGAAAAGAATGCAGAGG 58.997 41.667 0.00 0.00 0.00 3.69
5259 5509 6.648310 TGTACAAGAGAGAAAAGAATGCAGAG 59.352 38.462 0.00 0.00 0.00 3.35
5403 5653 4.098055 AGTACATACAGACTGAAGCACG 57.902 45.455 10.08 0.00 0.00 5.34
5492 5804 6.785488 ACATACGTAGGCAATACATCAATG 57.215 37.500 7.23 0.00 33.65 2.82
5494 5806 7.618502 AAAACATACGTAGGCAATACATCAA 57.381 32.000 7.23 0.00 33.65 2.57
5495 5807 7.618502 AAAAACATACGTAGGCAATACATCA 57.381 32.000 7.23 0.00 33.65 3.07
5530 5842 8.836413 CCGTGTCCAGAATTTAATTATGTACAT 58.164 33.333 13.93 13.93 33.88 2.29
5539 5851 9.793259 ATCATTATACCGTGTCCAGAATTTAAT 57.207 29.630 0.00 0.00 0.00 1.40
5589 5908 6.575162 ATTTAACTTGGTAGTTTGGAGCAG 57.425 37.500 0.00 0.00 41.85 4.24
5625 5944 1.737838 TCCCGCACATCAACTGAATC 58.262 50.000 0.00 0.00 0.00 2.52
5638 5957 3.351740 ACATGTTTGACATATTCCCGCA 58.648 40.909 0.00 0.00 36.53 5.69
5694 6013 8.034804 CCCAACCTCTGTTCCAAATTATTTTAG 58.965 37.037 0.00 0.00 30.42 1.85
5695 6014 7.730784 TCCCAACCTCTGTTCCAAATTATTTTA 59.269 33.333 0.00 0.00 30.42 1.52
5711 6058 4.342092 CAGTGAAAATGTTTCCCAACCTCT 59.658 41.667 0.00 0.00 31.02 3.69
5713 6060 3.181466 GCAGTGAAAATGTTTCCCAACCT 60.181 43.478 0.00 0.00 32.28 3.50
5714 6061 3.130633 GCAGTGAAAATGTTTCCCAACC 58.869 45.455 0.00 0.00 32.28 3.77
5716 6063 2.768527 TGGCAGTGAAAATGTTTCCCAA 59.231 40.909 0.00 0.00 32.28 4.12
5717 6064 2.392662 TGGCAGTGAAAATGTTTCCCA 58.607 42.857 0.00 0.00 32.28 4.37
5718 6065 3.683365 ATGGCAGTGAAAATGTTTCCC 57.317 42.857 0.00 0.00 32.28 3.97
5720 6067 5.473039 AGCTAATGGCAGTGAAAATGTTTC 58.527 37.500 0.00 0.00 44.79 2.78
5722 6069 5.473066 AAGCTAATGGCAGTGAAAATGTT 57.527 34.783 0.00 0.00 44.79 2.71
5723 6070 5.010922 TGAAAGCTAATGGCAGTGAAAATGT 59.989 36.000 0.00 0.00 44.79 2.71
5724 6071 5.472148 TGAAAGCTAATGGCAGTGAAAATG 58.528 37.500 0.00 0.00 44.79 2.32
5725 6072 5.726980 TGAAAGCTAATGGCAGTGAAAAT 57.273 34.783 0.00 0.00 44.79 1.82
5726 6073 5.726980 ATGAAAGCTAATGGCAGTGAAAA 57.273 34.783 0.00 0.00 44.79 2.29
5727 6074 5.010922 ACAATGAAAGCTAATGGCAGTGAAA 59.989 36.000 0.00 0.00 44.79 2.69
5728 6075 4.523943 ACAATGAAAGCTAATGGCAGTGAA 59.476 37.500 0.00 0.00 44.79 3.18
5729 6076 4.081406 ACAATGAAAGCTAATGGCAGTGA 58.919 39.130 0.00 0.00 44.79 3.41
5794 6141 6.148811 TGGTTTAGCTAATAAGTTGTCTGTGC 59.851 38.462 7.08 0.00 0.00 4.57
5801 6148 6.827586 TGGGTTGGTTTAGCTAATAAGTTG 57.172 37.500 7.08 0.00 0.00 3.16
5837 6184 1.152030 TCTGAGCCTTGGAGGTGGT 60.152 57.895 0.00 0.00 37.80 4.16
5893 6247 3.455152 GGCCTTCCCCACACAAAC 58.545 61.111 0.00 0.00 0.00 2.93
5912 6266 5.636965 CAGCTTGTATAGGTAGCTATGCTTG 59.363 44.000 24.36 18.58 43.04 4.01
6021 6375 2.050351 ACGGTGAGCTTGTCGTCG 60.050 61.111 0.00 0.00 0.00 5.12
6022 6376 3.843985 GACGGTGAGCTTGTCGTC 58.156 61.111 16.57 16.57 43.62 4.20
6071 6425 2.032681 GCGAGGCCAAGAACCAGT 59.967 61.111 5.01 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.