Multiple sequence alignment - TraesCS2D01G353600

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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 TraesCS2D01G353600 chr2D 100.000 7521 0 0 1 7521 451978047 451970527 0.000000e+00 13889
1 TraesCS2D01G353600 chr2D 93.893 131 8 0 7391 7521 66151468 66151598 1.660000e-46 198
2 TraesCS2D01G353600 chr2B 96.024 5257 102 26 2127 7358 532095427 532090253 0.000000e+00 8451
3 TraesCS2D01G353600 chr2B 94.300 1614 64 9 586 2197 532097009 532095422 0.000000e+00 2446
4 TraesCS2D01G353600 chr2B 93.224 428 20 6 179 600 532097452 532097028 8.290000e-174 621
5 TraesCS2D01G353600 chr2B 95.187 187 6 2 1 184 532097716 532097530 7.380000e-75 292
6 TraesCS2D01G353600 chr2A 95.825 3353 103 19 3718 7058 597501535 597504862 0.000000e+00 5382
7 TraesCS2D01G353600 chr2A 93.866 1614 68 16 491 2081 597498248 597499853 0.000000e+00 2403
8 TraesCS2D01G353600 chr2A 91.554 959 36 17 2719 3665 597500614 597501539 0.000000e+00 1280
9 TraesCS2D01G353600 chr2A 93.097 565 30 5 2077 2635 597500049 597500610 0.000000e+00 819
10 TraesCS2D01G353600 chr2A 93.922 510 25 4 1 506 597497722 597498229 0.000000e+00 765
11 TraesCS2D01G353600 chr2A 93.496 123 8 0 7399 7521 652143411 652143533 4.640000e-42 183
12 TraesCS2D01G353600 chr6D 96.774 124 4 0 7398 7521 26259473 26259350 2.750000e-49 207
13 TraesCS2D01G353600 chr6D 95.122 123 6 0 7399 7521 293501906 293501784 2.140000e-45 195
14 TraesCS2D01G353600 chr6D 94.309 123 7 0 7399 7521 47174983 47174861 9.960000e-44 189
15 TraesCS2D01G353600 chr1D 94.309 123 6 1 7399 7521 463439275 463439396 3.580000e-43 187
16 TraesCS2D01G353600 chr1D 93.548 124 8 0 7398 7521 463845725 463845602 1.290000e-42 185
17 TraesCS2D01G353600 chr1D 96.250 80 1 2 3648 3726 28960996 28960918 6.120000e-26 130
18 TraesCS2D01G353600 chr3D 93.548 124 8 0 7398 7521 54815034 54815157 1.290000e-42 185
19 TraesCS2D01G353600 chr6A 91.667 132 10 1 7391 7521 528577284 528577153 1.670000e-41 182
20 TraesCS2D01G353600 chr6A 82.993 147 15 6 4297 4434 1877873 1877728 2.850000e-24 124
21 TraesCS2D01G353600 chr4D 79.839 248 36 8 1813 2047 423598332 423598578 1.300000e-37 169
22 TraesCS2D01G353600 chr4D 95.506 89 2 2 3639 3726 215459634 215459547 2.830000e-29 141
23 TraesCS2D01G353600 chr7D 97.561 82 2 0 3644 3725 135026247 135026328 2.830000e-29 141
24 TraesCS2D01G353600 chr4B 95.506 89 2 2 3639 3726 237272805 237272718 2.830000e-29 141
25 TraesCS2D01G353600 chr4B 94.382 89 3 2 3639 3726 237038977 237038890 1.320000e-27 135
26 TraesCS2D01G353600 chr7A 96.341 82 2 1 3644 3725 350571792 350571872 4.730000e-27 134
27 TraesCS2D01G353600 chr4A 98.667 75 1 0 3645 3719 598725659 598725733 4.730000e-27 134
28 TraesCS2D01G353600 chr1A 95.294 85 2 1 3641 3725 225509492 225509574 4.730000e-27 134


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 TraesCS2D01G353600 chr2D 451970527 451978047 7520 True 13889.0 13889 100.00000 1 7521 1 chr2D.!!$R1 7520
1 TraesCS2D01G353600 chr2B 532090253 532097716 7463 True 2952.5 8451 94.68375 1 7358 4 chr2B.!!$R1 7357
2 TraesCS2D01G353600 chr2A 597497722 597504862 7140 False 2129.8 5382 93.65280 1 7058 5 chr2A.!!$F2 7057

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
643 807 1.123928 CCGTAAATCCTCCAGCCTCT 58.876 55.000 0.00 0.00 0.00 3.69 F
1219 1392 0.377203 GATGCGGGTTCGATTGGTTC 59.623 55.000 0.00 0.00 39.00 3.62 F
1956 2137 0.833949 TGCCAGTAGTGTGTGGTTCA 59.166 50.000 0.00 0.00 36.10 3.18 F
2052 2233 1.137086 CGCATAGGCTGTGAAGTACCT 59.863 52.381 16.02 0.00 37.57 3.08 F
2107 2491 2.276201 GATGTATGCTGTTGCCGTGTA 58.724 47.619 0.00 0.00 38.71 2.90 F
3068 3523 3.181491 GCCACAAGTACAAGCTCAAAACA 60.181 43.478 0.00 0.00 0.00 2.83 F
4739 5211 1.708680 GAACACGTCGAAGCAATTTGC 59.291 47.619 13.55 13.55 45.46 3.68 F
5203 5697 0.804364 ATGCATTGTGTGTACTGGCG 59.196 50.000 0.00 0.00 0.00 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2001 2182 0.254747 TTGGCCGAAAGTATCCAGGG 59.745 55.000 0.00 0.0 0.00 4.45 R
2254 2708 0.257039 ACTCCCCCAGTTCATGATGC 59.743 55.000 0.00 0.0 26.56 3.91 R
3640 4108 0.257039 TGGGACGGAGGGAGTACTAC 59.743 60.000 0.00 0.0 0.00 2.73 R
3641 4109 1.002069 TTGGGACGGAGGGAGTACTA 58.998 55.000 0.00 0.0 0.00 1.82 R
4083 4553 1.865865 TCTCTGGCGTCAGTTTGTTC 58.134 50.000 18.04 0.0 41.59 3.18 R
5055 5530 0.396435 CCAGTACCCAGCAACAGTCA 59.604 55.000 0.00 0.0 0.00 3.41 R
6335 6834 0.396435 AGGCCACACGACAGAATCAA 59.604 50.000 5.01 0.0 0.00 2.57 R
7193 7698 2.763448 ACTTGGCAAGCAAACAGGTTTA 59.237 40.909 26.45 0.0 35.33 2.01 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
182 270 7.422878 AACTAAGTTGCAAAAGTAGCTACTC 57.577 36.000 26.21 14.28 44.94 2.59
214 302 2.295629 TCAACGAAATTTGCATGGCTCA 59.704 40.909 0.00 0.00 0.00 4.26
221 309 2.222007 TTTGCATGGCTCACAACAAC 57.778 45.000 0.00 0.00 31.41 3.32
223 311 1.290009 GCATGGCTCACAACAACCC 59.710 57.895 0.00 0.00 0.00 4.11
246 334 5.633182 CCATTGGTGAATAAGGAACAAAACG 59.367 40.000 0.00 0.00 0.00 3.60
328 416 7.962918 GCTAACGAGACACATATGTTCATTTTT 59.037 33.333 5.37 0.00 39.95 1.94
458 546 3.738282 TGCGTTGCATCCAATTTTGTAAC 59.262 39.130 0.00 4.61 35.79 2.50
462 550 4.167554 TGCATCCAATTTTGTAACGACC 57.832 40.909 0.00 0.00 0.00 4.79
560 691 1.538047 CAAAGTCACATGTCCTGGGG 58.462 55.000 0.00 0.00 0.00 4.96
643 807 1.123928 CCGTAAATCCTCCAGCCTCT 58.876 55.000 0.00 0.00 0.00 3.69
680 844 1.945354 CTATCCACCACCGTCACGCT 61.945 60.000 0.00 0.00 0.00 5.07
989 1155 3.202706 GCCTTGGTCGGATTCGGC 61.203 66.667 0.00 0.00 40.80 5.54
1219 1392 0.377203 GATGCGGGTTCGATTGGTTC 59.623 55.000 0.00 0.00 39.00 3.62
1309 1482 3.016736 CTGGATGGAGCGTTTATTGGTT 58.983 45.455 0.00 0.00 0.00 3.67
1338 1511 4.030306 CGCTGTCTAATTAATCGATACGCC 59.970 45.833 0.00 0.00 0.00 5.68
1378 1551 2.991190 CGCTGCTTAACGAGGTTTTAGA 59.009 45.455 0.00 0.00 0.00 2.10
1410 1583 2.729156 GCGCAAGAAGGATGTGTTTAGC 60.729 50.000 0.30 0.00 43.02 3.09
1482 1663 3.515901 AGAGTATTCACTTCTGGGGTGAC 59.484 47.826 0.00 0.00 42.41 3.67
1485 1666 1.052124 TTCACTTCTGGGGTGACGGT 61.052 55.000 0.00 0.00 42.41 4.83
1506 1687 3.363844 GAGGGCTGTGCTCTCGACC 62.364 68.421 3.56 0.00 46.53 4.79
1518 1699 1.446272 CTCGACCGGGTTTCAGCTC 60.446 63.158 6.32 0.00 0.00 4.09
1561 1742 2.674380 GAGGTGGGCTGTTGGCAG 60.674 66.667 0.00 0.00 45.23 4.85
1604 1785 2.835764 TCCTGGGTTTATCGCTACTTGT 59.164 45.455 0.00 0.00 0.00 3.16
1619 1800 5.333339 CGCTACTTGTGCATATACCATGTTC 60.333 44.000 0.00 0.00 0.00 3.18
1649 1830 6.112734 TCAACACAATACTTACATGCCTAGG 58.887 40.000 3.67 3.67 0.00 3.02
1743 1924 2.320745 TGCTGACATGGATGCTACTG 57.679 50.000 0.00 0.00 0.00 2.74
1842 2023 4.499183 CAAGGTACATCTCTGACACTTCC 58.501 47.826 0.00 0.00 0.00 3.46
1852 2033 1.867233 CTGACACTTCCCACAAAGTCG 59.133 52.381 0.00 0.00 37.38 4.18
1956 2137 0.833949 TGCCAGTAGTGTGTGGTTCA 59.166 50.000 0.00 0.00 36.10 3.18
2001 2182 8.927721 GGAGAAGAACTATCAAGTTTGAGTAAC 58.072 37.037 0.74 0.00 46.09 2.50
2051 2232 1.571919 CGCATAGGCTGTGAAGTACC 58.428 55.000 16.02 0.00 37.57 3.34
2052 2233 1.137086 CGCATAGGCTGTGAAGTACCT 59.863 52.381 16.02 0.00 37.57 3.08
2053 2234 2.418746 CGCATAGGCTGTGAAGTACCTT 60.419 50.000 16.02 0.00 37.57 3.50
2054 2235 3.198872 GCATAGGCTGTGAAGTACCTTC 58.801 50.000 16.02 0.00 37.76 3.46
2107 2491 2.276201 GATGTATGCTGTTGCCGTGTA 58.724 47.619 0.00 0.00 38.71 2.90
2204 2658 6.542370 GTGTGTGCTGGTATATTGGAAATAGT 59.458 38.462 0.00 0.00 0.00 2.12
2214 2668 8.204836 GGTATATTGGAAATAGTCTGTCACTGT 58.795 37.037 0.00 0.00 36.43 3.55
2254 2708 6.743575 AAGGCAGTGCTATTTTGTAAGTAG 57.256 37.500 16.11 0.00 0.00 2.57
2299 2753 4.822350 GGCTCAAGGATGGAAGTAAATACC 59.178 45.833 0.00 0.00 0.00 2.73
2307 2761 5.456763 GGATGGAAGTAAATACCAGAGGCAT 60.457 44.000 0.00 0.00 37.12 4.40
2339 2793 4.065110 GGTGGAAGTGCACCTGTC 57.935 61.111 14.63 8.74 38.39 3.51
2480 2935 7.054751 GCCAAGTTTCTAACCTATTAGGATGT 58.945 38.462 16.80 4.00 37.67 3.06
2617 3072 4.339872 TGGTCCAGCGAACTTAAGTAAA 57.660 40.909 8.92 0.00 0.00 2.01
2802 3257 8.865327 TTCAGCAAGAAATTGAAGCAGAGCTTA 61.865 37.037 3.97 0.00 40.27 3.09
3019 3474 8.710239 ACCCTTATTGTTGTCCTTTTTGTTATT 58.290 29.630 0.00 0.00 0.00 1.40
3020 3475 9.554395 CCCTTATTGTTGTCCTTTTTGTTATTT 57.446 29.630 0.00 0.00 0.00 1.40
3068 3523 3.181491 GCCACAAGTACAAGCTCAAAACA 60.181 43.478 0.00 0.00 0.00 2.83
3378 3834 3.686241 GCTTCCTTTTTGGATTGAATGCC 59.314 43.478 0.00 0.00 45.68 4.40
3411 3867 6.162777 TCGACTAATCAATGTTGATGTGACA 58.837 36.000 8.86 0.00 46.60 3.58
3427 3883 3.244044 TGTGACACGACTCCATTCATCAA 60.244 43.478 0.22 0.00 0.00 2.57
3480 3936 3.684908 TGTCATACAGTCAATGTTGGGG 58.315 45.455 0.00 0.00 39.96 4.96
3490 3946 5.185635 CAGTCAATGTTGGGGTTGTTGATAT 59.814 40.000 0.00 0.00 32.19 1.63
3525 3981 4.897509 AGTCTGATCATGGTTCTGTTGA 57.102 40.909 0.00 0.00 0.00 3.18
3639 4107 9.562583 GTTGTGTGTTTGAATAGAAGTAAACAA 57.437 29.630 0.00 0.00 42.52 2.83
3640 4108 9.781834 TTGTGTGTTTGAATAGAAGTAAACAAG 57.218 29.630 0.00 0.00 42.52 3.16
3641 4109 8.952278 TGTGTGTTTGAATAGAAGTAAACAAGT 58.048 29.630 0.00 0.00 42.52 3.16
3708 4176 6.635030 AAGTTGAGACACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
3729 4197 3.446516 ACGGAGGGAGTAATATATTCGGC 59.553 47.826 0.00 0.00 0.00 5.54
3759 4227 7.872163 TTGATTTCATGTGTTGTTATGCTTC 57.128 32.000 0.00 0.00 0.00 3.86
4146 4616 5.529060 CCAACTGCTAGATTCTGGAATTACC 59.471 44.000 0.55 0.00 39.54 2.85
4204 4674 7.078249 AGCTGTGTATTATAATCCCATGTCA 57.922 36.000 0.00 0.00 0.00 3.58
4343 4813 5.192927 TGTTCTGAACTCAATGACAACCTT 58.807 37.500 20.18 0.00 0.00 3.50
4715 5187 2.825532 TGATAAAAAGGCTTGCCCTGAC 59.174 45.455 8.17 0.00 45.62 3.51
4739 5211 1.708680 GAACACGTCGAAGCAATTTGC 59.291 47.619 13.55 13.55 45.46 3.68
4979 5454 3.461061 TCTACATGCAGTTGCTCATAGC 58.539 45.455 5.62 0.00 42.82 2.97
5003 5478 8.035394 AGCGATTTAATGGATCGATATTACTGT 58.965 33.333 11.29 0.00 46.93 3.55
5141 5616 7.067494 GGCATATCAACTTCATAGGAAAACTGT 59.933 37.037 0.00 0.00 31.35 3.55
5142 5617 8.462016 GCATATCAACTTCATAGGAAAACTGTT 58.538 33.333 0.00 0.00 31.35 3.16
5180 5674 9.643693 CCTAAAGGTTAACGTATTAGAAGAACA 57.356 33.333 20.01 0.00 0.00 3.18
5182 5676 8.891671 AAAGGTTAACGTATTAGAAGAACACA 57.108 30.769 0.43 0.00 0.00 3.72
5183 5677 7.880059 AGGTTAACGTATTAGAAGAACACAC 57.120 36.000 0.00 0.00 0.00 3.82
5184 5678 7.436118 AGGTTAACGTATTAGAAGAACACACA 58.564 34.615 0.00 0.00 0.00 3.72
5185 5679 8.092687 AGGTTAACGTATTAGAAGAACACACAT 58.907 33.333 0.00 0.00 0.00 3.21
5186 5680 8.166706 GGTTAACGTATTAGAAGAACACACATG 58.833 37.037 0.00 0.00 0.00 3.21
5187 5681 5.779806 ACGTATTAGAAGAACACACATGC 57.220 39.130 0.00 0.00 0.00 4.06
5188 5682 5.234752 ACGTATTAGAAGAACACACATGCA 58.765 37.500 0.00 0.00 0.00 3.96
5189 5683 5.874810 ACGTATTAGAAGAACACACATGCAT 59.125 36.000 0.00 0.00 0.00 3.96
5190 5684 6.371548 ACGTATTAGAAGAACACACATGCATT 59.628 34.615 0.00 0.00 0.00 3.56
5191 5685 6.684131 CGTATTAGAAGAACACACATGCATTG 59.316 38.462 0.00 1.69 0.00 2.82
5192 5686 6.579666 ATTAGAAGAACACACATGCATTGT 57.420 33.333 0.00 2.39 39.91 2.71
5203 5697 0.804364 ATGCATTGTGTGTACTGGCG 59.196 50.000 0.00 0.00 0.00 5.69
5256 5750 6.376978 CACATTTCTTGGAAATCAGTCAGAC 58.623 40.000 2.94 0.00 0.00 3.51
5324 5818 5.533528 AGTCAGTTAAAACCACCACATTACC 59.466 40.000 0.00 0.00 0.00 2.85
5338 5832 7.442364 CCACCACATTACCTGATTATACTGAAG 59.558 40.741 0.00 0.00 0.00 3.02
5339 5833 7.987458 CACCACATTACCTGATTATACTGAAGT 59.013 37.037 0.00 0.00 0.00 3.01
5340 5834 7.987458 ACCACATTACCTGATTATACTGAAGTG 59.013 37.037 0.00 0.00 0.00 3.16
5341 5835 7.041780 CCACATTACCTGATTATACTGAAGTGC 60.042 40.741 0.00 0.00 0.00 4.40
5403 5899 5.993748 TCAAACAGTTTTTCCCACTTCTT 57.006 34.783 0.00 0.00 0.00 2.52
5485 5981 7.702348 ACTTTTTGTGCTTGTAACTTTCAGATC 59.298 33.333 0.00 0.00 0.00 2.75
5767 6266 1.305930 GCAACCAGGGTCCGTTGATC 61.306 60.000 11.15 0.00 41.53 2.92
5777 6276 3.626217 GGGTCCGTTGATCAATAAGGTTC 59.374 47.826 12.12 12.06 0.00 3.62
6094 6593 5.981088 TGGATGAAGCACAACAATGTATT 57.019 34.783 0.00 0.00 37.82 1.89
6232 6731 5.324784 ACACCAAGAAAACTTTCAAGACC 57.675 39.130 5.07 0.00 39.61 3.85
6257 6756 4.154942 AGATCTGGAAAATGGTTGCTTGT 58.845 39.130 0.00 0.00 0.00 3.16
6335 6834 0.107410 TGGTGAAGTGGTTGCTCGTT 60.107 50.000 0.00 0.00 0.00 3.85
6369 6868 1.431036 GCCTGAGATTTGAAGCCGC 59.569 57.895 0.00 0.00 0.00 6.53
6444 6943 0.604578 TCCGTGACGAAAACCCTAGG 59.395 55.000 6.54 0.06 0.00 3.02
7059 7564 7.912250 CCTTCGATGAGGTTTTGAATCTATTTG 59.088 37.037 0.00 0.00 31.89 2.32
7062 7567 9.008965 TCGATGAGGTTTTGAATCTATTTGAAA 57.991 29.630 0.00 0.00 0.00 2.69
7095 7600 7.817478 TGTGTGTGTGAATAGATCGTTAGATTT 59.183 33.333 0.00 0.00 37.19 2.17
7108 7613 5.949735 TCGTTAGATTTTTGAATGCCCTTC 58.050 37.500 0.00 0.00 0.00 3.46
7110 7615 5.391523 CGTTAGATTTTTGAATGCCCTTCGA 60.392 40.000 0.00 0.00 36.60 3.71
7119 7624 3.826157 TGAATGCCCTTCGAAGAAATTGT 59.174 39.130 26.61 6.82 45.90 2.71
7188 7693 2.223711 GCCAAAAACATCAACCAGACGT 60.224 45.455 0.00 0.00 0.00 4.34
7189 7694 3.003897 GCCAAAAACATCAACCAGACGTA 59.996 43.478 0.00 0.00 0.00 3.57
7190 7695 4.498345 GCCAAAAACATCAACCAGACGTAA 60.498 41.667 0.00 0.00 0.00 3.18
7191 7696 5.583495 CCAAAAACATCAACCAGACGTAAA 58.417 37.500 0.00 0.00 0.00 2.01
7192 7697 6.212955 CCAAAAACATCAACCAGACGTAAAT 58.787 36.000 0.00 0.00 0.00 1.40
7193 7698 6.699642 CCAAAAACATCAACCAGACGTAAATT 59.300 34.615 0.00 0.00 0.00 1.82
7259 7764 9.574458 TTGTTGTTTTTGATAAAGACGAATTGA 57.426 25.926 0.00 0.00 0.00 2.57
7260 7765 9.574458 TGTTGTTTTTGATAAAGACGAATTGAA 57.426 25.926 0.00 0.00 0.00 2.69
7261 7766 9.829637 GTTGTTTTTGATAAAGACGAATTGAAC 57.170 29.630 0.00 0.00 0.00 3.18
7262 7767 8.264022 TGTTTTTGATAAAGACGAATTGAACG 57.736 30.769 0.00 0.00 0.00 3.95
7263 7768 7.911205 TGTTTTTGATAAAGACGAATTGAACGT 59.089 29.630 0.00 0.00 46.58 3.99
7264 7769 8.739461 GTTTTTGATAAAGACGAATTGAACGTT 58.261 29.630 0.00 0.00 43.97 3.99
7265 7770 9.932699 TTTTTGATAAAGACGAATTGAACGTTA 57.067 25.926 0.00 0.00 43.97 3.18
7266 7771 8.922738 TTTGATAAAGACGAATTGAACGTTAC 57.077 30.769 0.00 0.00 43.97 2.50
7267 7772 7.640616 TGATAAAGACGAATTGAACGTTACA 57.359 32.000 0.00 0.00 43.97 2.41
7268 7773 7.503991 TGATAAAGACGAATTGAACGTTACAC 58.496 34.615 0.00 0.00 43.97 2.90
7269 7774 5.721876 AAAGACGAATTGAACGTTACACA 57.278 34.783 0.00 0.00 43.97 3.72
7270 7775 5.917541 AAGACGAATTGAACGTTACACAT 57.082 34.783 0.00 0.00 43.97 3.21
7271 7776 5.264060 AGACGAATTGAACGTTACACATG 57.736 39.130 0.00 0.00 43.97 3.21
7284 7789 6.435428 ACGTTACACATGAAGTTTTGAATCC 58.565 36.000 0.00 0.00 0.00 3.01
7288 7793 5.846203 ACACATGAAGTTTTGAATCCCTTG 58.154 37.500 0.00 0.00 0.00 3.61
7293 7798 2.676748 AGTTTTGAATCCCTTGTGGCA 58.323 42.857 0.00 0.00 0.00 4.92
7312 7817 6.068300 GTGGCAAAAATAACGCAAATGTAAC 58.932 36.000 0.00 0.00 0.00 2.50
7323 7828 4.142988 ACGCAAATGTAACAATCTGGTACG 60.143 41.667 0.00 0.00 43.25 3.67
7352 7857 9.140874 AGTAGTACTACCTCCATACCAAAATAC 57.859 37.037 25.97 0.91 36.75 1.89
7354 7859 7.789026 AGTACTACCTCCATACCAAAATACAC 58.211 38.462 0.00 0.00 0.00 2.90
7358 7863 6.134535 ACCTCCATACCAAAATACACAAGA 57.865 37.500 0.00 0.00 0.00 3.02
7359 7864 5.944007 ACCTCCATACCAAAATACACAAGAC 59.056 40.000 0.00 0.00 0.00 3.01
7360 7865 5.064707 CCTCCATACCAAAATACACAAGACG 59.935 44.000 0.00 0.00 0.00 4.18
7361 7866 5.553123 TCCATACCAAAATACACAAGACGT 58.447 37.500 0.00 0.00 0.00 4.34
7362 7867 5.998981 TCCATACCAAAATACACAAGACGTT 59.001 36.000 0.00 0.00 0.00 3.99
7363 7868 6.487331 TCCATACCAAAATACACAAGACGTTT 59.513 34.615 0.00 0.00 0.00 3.60
7364 7869 7.013464 TCCATACCAAAATACACAAGACGTTTT 59.987 33.333 0.00 0.00 0.00 2.43
7365 7870 7.650104 CCATACCAAAATACACAAGACGTTTTT 59.350 33.333 0.00 0.00 0.00 1.94
7406 7911 5.813080 AAAGTCTTATATTTGGACGTGGC 57.187 39.130 0.00 0.00 35.42 5.01
7407 7912 4.755266 AGTCTTATATTTGGACGTGGCT 57.245 40.909 0.00 0.00 35.42 4.75
7408 7913 5.864418 AGTCTTATATTTGGACGTGGCTA 57.136 39.130 0.00 0.00 35.42 3.93
7409 7914 5.844004 AGTCTTATATTTGGACGTGGCTAG 58.156 41.667 0.00 0.00 35.42 3.42
7410 7915 4.448060 GTCTTATATTTGGACGTGGCTAGC 59.552 45.833 6.04 6.04 0.00 3.42
7411 7916 4.100344 TCTTATATTTGGACGTGGCTAGCA 59.900 41.667 18.24 0.00 0.00 3.49
7412 7917 2.309528 TATTTGGACGTGGCTAGCAG 57.690 50.000 18.24 9.73 0.00 4.24
7413 7918 0.392998 ATTTGGACGTGGCTAGCAGG 60.393 55.000 18.24 10.71 0.00 4.85
7414 7919 3.605749 TTGGACGTGGCTAGCAGGC 62.606 63.158 18.24 9.25 41.77 4.85
7442 7947 4.225497 CCTTTGGTGGGATCGAGC 57.775 61.111 0.00 0.00 0.00 5.03
7443 7948 1.815421 CCTTTGGTGGGATCGAGCG 60.815 63.158 0.00 0.00 0.00 5.03
7444 7949 2.435938 TTTGGTGGGATCGAGCGC 60.436 61.111 11.20 11.20 0.00 5.92
7445 7950 2.859273 CTTTGGTGGGATCGAGCGCT 62.859 60.000 11.27 11.27 0.00 5.92
7446 7951 2.852495 TTTGGTGGGATCGAGCGCTC 62.852 60.000 27.64 27.64 0.00 5.03
7447 7952 3.532155 GGTGGGATCGAGCGCTCT 61.532 66.667 32.88 17.47 0.00 4.09
7448 7953 2.496817 GTGGGATCGAGCGCTCTT 59.503 61.111 32.88 21.19 0.00 2.85
7449 7954 1.153549 GTGGGATCGAGCGCTCTTT 60.154 57.895 32.88 20.82 0.00 2.52
7450 7955 1.141881 TGGGATCGAGCGCTCTTTC 59.858 57.895 32.88 26.56 0.00 2.62
7451 7956 1.141881 GGGATCGAGCGCTCTTTCA 59.858 57.895 32.88 15.66 0.00 2.69
7452 7957 0.460284 GGGATCGAGCGCTCTTTCAA 60.460 55.000 32.88 14.57 0.00 2.69
7453 7958 1.359848 GGATCGAGCGCTCTTTCAAA 58.640 50.000 32.88 12.87 0.00 2.69
7454 7959 1.936547 GGATCGAGCGCTCTTTCAAAT 59.063 47.619 32.88 16.64 0.00 2.32
7455 7960 3.123804 GGATCGAGCGCTCTTTCAAATA 58.876 45.455 32.88 9.88 0.00 1.40
7456 7961 3.743396 GGATCGAGCGCTCTTTCAAATAT 59.257 43.478 32.88 13.77 0.00 1.28
7457 7962 4.376819 GGATCGAGCGCTCTTTCAAATATG 60.377 45.833 32.88 14.70 0.00 1.78
7458 7963 2.866156 TCGAGCGCTCTTTCAAATATGG 59.134 45.455 32.88 14.19 0.00 2.74
7459 7964 2.866156 CGAGCGCTCTTTCAAATATGGA 59.134 45.455 32.88 0.00 0.00 3.41
7460 7965 3.309682 CGAGCGCTCTTTCAAATATGGAA 59.690 43.478 32.88 0.00 0.00 3.53
7461 7966 4.201812 CGAGCGCTCTTTCAAATATGGAAA 60.202 41.667 32.88 3.59 33.52 3.13
7471 7976 7.938140 TTTCAAATATGGAAAGACCTACTGG 57.062 36.000 0.05 0.00 39.86 4.00
7472 7977 7.466804 TTTCAAATATGGAAAGACCTACTGGT 58.533 34.615 0.00 0.00 38.05 4.00
7473 7978 7.393234 TTTCAAATATGGAAAGACCTACTGGTG 59.607 37.037 0.00 0.00 36.69 4.17
7480 7985 2.603473 ACCTACTGGTGCGCCTGA 60.603 61.111 27.70 11.63 46.51 3.86
7481 7986 2.125512 CCTACTGGTGCGCCTGAC 60.126 66.667 27.70 0.00 37.43 3.51
7483 7988 3.282745 CTACTGGTGCGCCTGACGT 62.283 63.158 27.70 16.07 46.11 4.34
7484 7989 1.929806 CTACTGGTGCGCCTGACGTA 61.930 60.000 27.70 16.31 46.11 3.57
7485 7990 1.929806 TACTGGTGCGCCTGACGTAG 61.930 60.000 27.70 13.33 46.11 3.51
7491 7996 4.814294 CGCCTGACGTAGCCCACC 62.814 72.222 0.00 0.00 36.87 4.61
7492 7997 3.702048 GCCTGACGTAGCCCACCA 61.702 66.667 0.00 0.00 0.00 4.17
7493 7998 3.065306 CCTGACGTAGCCCACCAA 58.935 61.111 0.00 0.00 0.00 3.67
7494 7999 1.373435 CCTGACGTAGCCCACCAAA 59.627 57.895 0.00 0.00 0.00 3.28
7495 8000 0.250553 CCTGACGTAGCCCACCAAAA 60.251 55.000 0.00 0.00 0.00 2.44
7496 8001 1.600023 CTGACGTAGCCCACCAAAAA 58.400 50.000 0.00 0.00 0.00 1.94
7516 8021 5.382618 AAAAGGAATCTTGTCTCACATGC 57.617 39.130 0.00 0.00 32.75 4.06
7517 8022 3.708403 AGGAATCTTGTCTCACATGCA 57.292 42.857 0.00 0.00 0.00 3.96
7518 8023 4.232188 AGGAATCTTGTCTCACATGCAT 57.768 40.909 0.00 0.00 0.00 3.96
7519 8024 4.597004 AGGAATCTTGTCTCACATGCATT 58.403 39.130 0.00 0.00 0.00 3.56
7520 8025 5.014858 AGGAATCTTGTCTCACATGCATTT 58.985 37.500 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
182 270 8.909708 TGCAAATTTCGTTGAATAAATAGAGG 57.090 30.769 0.00 0.00 0.00 3.69
221 309 5.736951 TTTGTTCCTTATTCACCAATGGG 57.263 39.130 3.55 0.00 41.29 4.00
223 311 6.442952 TCGTTTTGTTCCTTATTCACCAATG 58.557 36.000 0.00 0.00 0.00 2.82
246 334 7.757624 TGTTTTACACCAACAAGATTCACTTTC 59.242 33.333 0.00 0.00 36.61 2.62
253 341 8.608844 TGTTTTTGTTTTACACCAACAAGATT 57.391 26.923 0.00 0.00 43.31 2.40
328 416 6.709018 TCATACACGAATCAGGTATGAAGA 57.291 37.500 16.57 1.43 46.08 2.87
374 462 8.212995 ACCTCATTATGTATGATGACATGTCAA 58.787 33.333 31.00 17.17 42.26 3.18
399 487 6.779115 TGCAACGATCAATGGTGTATATAC 57.221 37.500 5.89 5.89 0.00 1.47
458 546 9.486857 CGTAAGAGTATGTGTATAATATGGTCG 57.513 37.037 0.00 0.00 43.02 4.79
513 638 8.536175 ACGGGTATTTCATTTGTATTTTCCAAT 58.464 29.630 0.00 0.00 0.00 3.16
560 691 0.811616 CTCGCAGGCTGTAATGGACC 60.812 60.000 17.16 0.00 0.00 4.46
643 807 2.871096 AGTTACGATTTTGGGCAGGA 57.129 45.000 0.00 0.00 0.00 3.86
718 882 4.954970 CAAGGGCAGGTGCGTGGT 62.955 66.667 0.00 0.00 43.26 4.16
729 893 2.067013 GTCTCGTACTTTCACAAGGGC 58.933 52.381 0.00 0.00 33.82 5.19
989 1155 1.448540 GTCGTCATGGCTGAGGGTG 60.449 63.158 0.00 0.00 37.75 4.61
1239 1412 3.196685 CCGATATTTCCCCTCTGGATCTC 59.803 52.174 0.00 0.00 44.66 2.75
1248 1421 2.040412 GCCAAGATCCGATATTTCCCCT 59.960 50.000 0.00 0.00 0.00 4.79
1309 1482 4.337274 TCGATTAATTAGACAGCGTCCTCA 59.663 41.667 5.29 0.00 32.18 3.86
1338 1511 4.868067 AGCGTACTGACTAATAAATCCCG 58.132 43.478 0.00 0.00 0.00 5.14
1410 1583 2.667318 AACGTCAATCCGCACGCAG 61.667 57.895 0.00 0.00 39.73 5.18
1482 1663 4.320456 AGCACAGCCCTCACACCG 62.320 66.667 0.00 0.00 0.00 4.94
1485 1666 2.935740 CGAGAGCACAGCCCTCACA 61.936 63.158 1.59 0.00 0.00 3.58
1506 1687 1.372087 GCCATGAGAGCTGAAACCCG 61.372 60.000 0.00 0.00 0.00 5.28
1561 1742 2.838736 TCTGCTTGAAGTCACTGGTTC 58.161 47.619 0.00 0.00 0.00 3.62
1572 1753 2.978156 AACCCAGGAATCTGCTTGAA 57.022 45.000 0.00 0.00 39.61 2.69
1604 1785 6.339587 TGAGTATCGAACATGGTATATGCA 57.660 37.500 0.00 0.00 38.61 3.96
1619 1800 7.337718 GCATGTAAGTATTGTGTTGAGTATCG 58.662 38.462 0.00 0.00 38.61 2.92
1649 1830 6.677781 TGTATAACAGCTTATTTGGTCTGC 57.322 37.500 0.00 0.00 0.00 4.26
1743 1924 1.267806 CAAGTCACCAATCTGCACCAC 59.732 52.381 0.00 0.00 0.00 4.16
1842 2023 4.994852 TCTATGAAGAAACCGACTTTGTGG 59.005 41.667 0.00 0.00 0.00 4.17
1923 2104 4.768968 ACTACTGGCATCTTTCAGCAAAAT 59.231 37.500 0.00 0.00 34.57 1.82
1956 2137 4.466370 TCTCCGATACATCTCAAACCTGTT 59.534 41.667 0.00 0.00 0.00 3.16
2001 2182 0.254747 TTGGCCGAAAGTATCCAGGG 59.745 55.000 0.00 0.00 0.00 4.45
2051 2232 4.366684 GCAGGTGGGTGGGGGAAG 62.367 72.222 0.00 0.00 0.00 3.46
2107 2491 8.588290 TCATTATTGGTTAAGTTTGGCTGTAT 57.412 30.769 0.00 0.00 0.00 2.29
2204 2658 9.462606 TCTAGATATAACTTTCACAGTGACAGA 57.537 33.333 21.33 2.51 35.12 3.41
2214 2668 7.495934 GCACTGCCTTTCTAGATATAACTTTCA 59.504 37.037 0.00 0.00 0.00 2.69
2254 2708 0.257039 ACTCCCCCAGTTCATGATGC 59.743 55.000 0.00 0.00 26.56 3.91
2299 2753 2.426024 CTGTTTCATGGGAATGCCTCTG 59.574 50.000 0.00 0.00 31.93 3.35
2307 2761 2.061848 TCCACCTCTGTTTCATGGGAA 58.938 47.619 0.00 0.00 0.00 3.97
2339 2793 1.879380 TGCCTCCTCAAATTGACAACG 59.121 47.619 0.00 0.00 0.00 4.10
2691 3146 1.503542 CGTCTGCATTGCCAGGAAC 59.496 57.895 6.12 0.00 33.64 3.62
2802 3257 1.134580 CCAGCTCTGATCGTCACCATT 60.135 52.381 0.00 0.00 0.00 3.16
3068 3523 4.771054 ACGGTTATCTGTCTCAGTAAACCT 59.229 41.667 21.03 12.66 40.99 3.50
3378 3834 5.741425 ACATTGATTAGTCGATGCAAATCG 58.259 37.500 13.89 3.28 46.16 3.34
3411 3867 5.089970 TGAGATTTGATGAATGGAGTCGT 57.910 39.130 0.00 0.00 0.00 4.34
3427 3883 4.357918 ACCAAGCAACTGTACTGAGATT 57.642 40.909 6.77 1.25 0.00 2.40
3490 3946 6.894339 TGATCAGACTACACTGTTGAGTTA 57.106 37.500 0.00 0.00 38.79 2.24
3608 4076 8.281212 ACTTCTATTCAAACACACAACTTCTT 57.719 30.769 0.00 0.00 0.00 2.52
3639 4107 0.550432 GGGACGGAGGGAGTACTACT 59.450 60.000 4.77 1.85 0.00 2.57
3640 4108 0.257039 TGGGACGGAGGGAGTACTAC 59.743 60.000 0.00 0.00 0.00 2.73
3641 4109 1.002069 TTGGGACGGAGGGAGTACTA 58.998 55.000 0.00 0.00 0.00 1.82
3708 4176 3.488721 CGCCGAATATATTACTCCCTCCG 60.489 52.174 0.00 0.00 0.00 4.63
3729 4197 4.797471 ACAACACATGAAATCAATCACCG 58.203 39.130 0.00 0.00 30.82 4.94
3964 4432 4.981806 TCAACAGGAACAAACAAGAAGG 57.018 40.909 0.00 0.00 0.00 3.46
4083 4553 1.865865 TCTCTGGCGTCAGTTTGTTC 58.134 50.000 18.04 0.00 41.59 3.18
4146 4616 6.680810 TCAAACCTTCAAAATATCAGCAGTG 58.319 36.000 0.00 0.00 0.00 3.66
4204 4674 4.647564 AATCACCAGGAACAGTCAAGAT 57.352 40.909 0.00 0.00 0.00 2.40
4343 4813 2.536066 TCTTCAGAAGGGAATGTCGGA 58.464 47.619 10.42 0.00 0.00 4.55
4385 4855 2.823196 TCAACAGCACACGTTTGAAG 57.177 45.000 5.75 0.00 0.00 3.02
4715 5187 0.937699 TTGCTTCGACGTGTTCCTCG 60.938 55.000 0.00 0.00 0.00 4.63
4739 5211 6.978343 TTACCAATCGTATTGAAGAACTGG 57.022 37.500 8.56 0.00 32.72 4.00
4996 5471 8.739039 TCAACATAATAGCAGCAAAACAGTAAT 58.261 29.630 0.00 0.00 0.00 1.89
5048 5523 3.412386 ACCCAGCAACAGTCATTAACTC 58.588 45.455 0.00 0.00 35.45 3.01
5055 5530 0.396435 CCAGTACCCAGCAACAGTCA 59.604 55.000 0.00 0.00 0.00 3.41
5142 5617 9.247861 ACGTTAACCTTTAGGATCTTAGAACTA 57.752 33.333 2.06 0.00 38.94 2.24
5182 5676 1.541147 GCCAGTACACACAATGCATGT 59.459 47.619 0.00 0.00 45.34 3.21
5183 5677 1.466192 CGCCAGTACACACAATGCATG 60.466 52.381 0.00 0.00 0.00 4.06
5184 5678 0.804364 CGCCAGTACACACAATGCAT 59.196 50.000 0.00 0.00 0.00 3.96
5185 5679 0.250081 TCGCCAGTACACACAATGCA 60.250 50.000 0.00 0.00 0.00 3.96
5186 5680 0.871722 TTCGCCAGTACACACAATGC 59.128 50.000 0.00 0.00 0.00 3.56
5187 5681 1.196808 GGTTCGCCAGTACACACAATG 59.803 52.381 0.00 0.00 37.19 2.82
5188 5682 1.202710 TGGTTCGCCAGTACACACAAT 60.203 47.619 0.00 0.00 43.56 2.71
5189 5683 0.178301 TGGTTCGCCAGTACACACAA 59.822 50.000 0.00 0.00 43.56 3.33
5190 5684 1.823976 TGGTTCGCCAGTACACACA 59.176 52.632 0.00 0.00 43.56 3.72
5191 5685 4.762825 TGGTTCGCCAGTACACAC 57.237 55.556 0.00 0.00 43.56 3.82
5196 5690 8.975827 ATGCTAATCATTTTTGGTTCGCCAGTA 61.976 37.037 0.00 0.00 39.53 2.74
5197 5691 8.245446 ATGCTAATCATTTTTGGTTCGCCAGT 62.245 38.462 0.00 0.00 39.53 4.00
5198 5692 5.908333 ATGCTAATCATTTTTGGTTCGCCAG 60.908 40.000 0.00 0.00 39.53 4.85
5230 5724 4.161333 GACTGATTTCCAAGAAATGTGCG 58.839 43.478 7.27 0.00 0.00 5.34
5324 5818 8.508062 AGACTATACGCACTTCAGTATAATCAG 58.492 37.037 6.78 0.00 35.64 2.90
5338 5832 5.634020 AGTTTTGAGAACAGACTATACGCAC 59.366 40.000 0.00 0.00 0.00 5.34
5339 5833 5.779922 AGTTTTGAGAACAGACTATACGCA 58.220 37.500 0.00 0.00 0.00 5.24
5340 5834 7.249147 TCTAGTTTTGAGAACAGACTATACGC 58.751 38.462 0.00 0.00 31.37 4.42
5341 5835 9.790389 ATTCTAGTTTTGAGAACAGACTATACG 57.210 33.333 0.00 0.00 35.80 3.06
5403 5899 6.759272 ACTCAGTTGCTATAAGAACAGTCAA 58.241 36.000 0.00 0.00 0.00 3.18
5485 5981 0.095935 CGCTGATTGTCTTCGCCTTG 59.904 55.000 0.00 0.00 0.00 3.61
5767 6266 8.352942 GGCTTGTTAATAGATGGAACCTTATTG 58.647 37.037 0.00 0.00 0.00 1.90
5777 6276 4.520492 GGGTGATGGCTTGTTAATAGATGG 59.480 45.833 0.00 0.00 0.00 3.51
6094 6593 1.078166 AGGACTCTGCAGCTCCTCA 59.922 57.895 21.37 0.00 29.06 3.86
6232 6731 3.441572 AGCAACCATTTTCCAGATCTTCG 59.558 43.478 0.00 0.00 0.00 3.79
6257 6756 3.452990 TCTTCCAACAGCGACCCATATAA 59.547 43.478 0.00 0.00 0.00 0.98
6335 6834 0.396435 AGGCCACACGACAGAATCAA 59.604 50.000 5.01 0.00 0.00 2.57
6369 6868 3.652057 TTGCCTTTAGAATCCCCTCTG 57.348 47.619 0.00 0.00 0.00 3.35
6444 6943 4.792804 GGCCTGCTGGGTCTGCTC 62.793 72.222 12.06 0.00 36.61 4.26
6986 7486 4.731961 GCATCTAATGATCAAAGCAACACG 59.268 41.667 0.00 0.00 0.00 4.49
7059 7564 4.530094 TTCACACACACATCGAACTTTC 57.470 40.909 0.00 0.00 0.00 2.62
7062 7567 5.134202 TCTATTCACACACACATCGAACT 57.866 39.130 0.00 0.00 0.00 3.01
7095 7600 5.221422 ACAATTTCTTCGAAGGGCATTCAAA 60.221 36.000 24.37 15.29 37.83 2.69
7108 7613 7.360361 AGCAAACTAACCTTACAATTTCTTCG 58.640 34.615 0.00 0.00 0.00 3.79
7110 7615 8.691797 TGAAGCAAACTAACCTTACAATTTCTT 58.308 29.630 0.00 0.00 0.00 2.52
7119 7624 7.719633 AGAGAAACATGAAGCAAACTAACCTTA 59.280 33.333 0.00 0.00 0.00 2.69
7188 7693 5.918608 TGGCAAGCAAACAGGTTTAATTTA 58.081 33.333 0.00 0.00 35.33 1.40
7189 7694 4.775236 TGGCAAGCAAACAGGTTTAATTT 58.225 34.783 0.00 0.00 35.33 1.82
7190 7695 4.414337 TGGCAAGCAAACAGGTTTAATT 57.586 36.364 0.00 0.00 35.33 1.40
7191 7696 4.141733 ACTTGGCAAGCAAACAGGTTTAAT 60.142 37.500 26.45 0.00 35.33 1.40
7192 7697 3.196685 ACTTGGCAAGCAAACAGGTTTAA 59.803 39.130 26.45 0.00 35.33 1.52
7193 7698 2.763448 ACTTGGCAAGCAAACAGGTTTA 59.237 40.909 26.45 0.00 35.33 2.01
7239 7744 8.844441 AACGTTCAATTCGTCTTTATCAAAAA 57.156 26.923 0.00 0.00 40.69 1.94
7241 7746 8.549548 TGTAACGTTCAATTCGTCTTTATCAAA 58.450 29.630 2.82 0.00 40.69 2.69
7244 7749 7.503991 TGTGTAACGTTCAATTCGTCTTTATC 58.496 34.615 2.82 0.00 42.39 1.75
7245 7750 7.410800 TGTGTAACGTTCAATTCGTCTTTAT 57.589 32.000 2.82 0.00 42.39 1.40
7246 7751 6.825284 TGTGTAACGTTCAATTCGTCTTTA 57.175 33.333 2.82 0.00 42.39 1.85
7247 7752 5.721876 TGTGTAACGTTCAATTCGTCTTT 57.278 34.783 2.82 0.00 42.39 2.52
7249 7754 4.986034 TCATGTGTAACGTTCAATTCGTCT 59.014 37.500 2.82 0.00 42.39 4.18
7250 7755 5.258685 TCATGTGTAACGTTCAATTCGTC 57.741 39.130 2.82 0.00 42.39 4.20
7251 7756 5.235616 ACTTCATGTGTAACGTTCAATTCGT 59.764 36.000 2.82 0.00 42.39 3.85
7252 7757 5.675970 ACTTCATGTGTAACGTTCAATTCG 58.324 37.500 2.82 0.00 42.39 3.34
7253 7758 7.908193 AAACTTCATGTGTAACGTTCAATTC 57.092 32.000 2.82 0.00 42.39 2.17
7254 7759 7.971168 TCAAAACTTCATGTGTAACGTTCAATT 59.029 29.630 2.82 0.00 42.39 2.32
7255 7760 7.476667 TCAAAACTTCATGTGTAACGTTCAAT 58.523 30.769 2.82 0.00 42.39 2.57
7256 7761 6.843208 TCAAAACTTCATGTGTAACGTTCAA 58.157 32.000 2.82 0.00 42.39 2.69
7257 7762 6.424176 TCAAAACTTCATGTGTAACGTTCA 57.576 33.333 2.82 0.00 42.39 3.18
7258 7763 7.112984 GGATTCAAAACTTCATGTGTAACGTTC 59.887 37.037 2.82 0.00 42.39 3.95
7259 7764 6.915843 GGATTCAAAACTTCATGTGTAACGTT 59.084 34.615 5.88 5.88 42.39 3.99
7260 7765 6.435428 GGATTCAAAACTTCATGTGTAACGT 58.565 36.000 0.00 0.00 42.39 3.99
7261 7766 5.856455 GGGATTCAAAACTTCATGTGTAACG 59.144 40.000 0.00 0.00 42.39 3.18
7262 7767 6.981722 AGGGATTCAAAACTTCATGTGTAAC 58.018 36.000 0.00 0.00 37.35 2.50
7263 7768 7.069331 ACAAGGGATTCAAAACTTCATGTGTAA 59.931 33.333 0.00 0.00 0.00 2.41
7264 7769 6.549364 ACAAGGGATTCAAAACTTCATGTGTA 59.451 34.615 0.00 0.00 0.00 2.90
7265 7770 5.363580 ACAAGGGATTCAAAACTTCATGTGT 59.636 36.000 0.00 0.00 0.00 3.72
7266 7771 5.693104 CACAAGGGATTCAAAACTTCATGTG 59.307 40.000 0.00 0.00 0.00 3.21
7267 7772 5.221501 CCACAAGGGATTCAAAACTTCATGT 60.222 40.000 0.00 0.00 40.01 3.21
7268 7773 5.232463 CCACAAGGGATTCAAAACTTCATG 58.768 41.667 0.00 0.00 40.01 3.07
7269 7774 4.262592 GCCACAAGGGATTCAAAACTTCAT 60.263 41.667 0.00 0.00 40.01 2.57
7270 7775 3.069443 GCCACAAGGGATTCAAAACTTCA 59.931 43.478 0.00 0.00 40.01 3.02
7271 7776 3.069443 TGCCACAAGGGATTCAAAACTTC 59.931 43.478 0.00 0.00 40.01 3.01
7284 7789 2.748605 TGCGTTATTTTTGCCACAAGG 58.251 42.857 0.00 0.00 38.23 3.61
7288 7793 4.723879 ACATTTGCGTTATTTTTGCCAC 57.276 36.364 0.00 0.00 0.00 5.01
7293 7798 8.707839 CCAGATTGTTACATTTGCGTTATTTTT 58.292 29.630 0.00 0.00 0.00 1.94
7312 7817 7.066766 AGGTAGTACTACTTTCGTACCAGATTG 59.933 40.741 27.71 0.00 38.34 2.67
7323 7828 7.651027 TTGGTATGGAGGTAGTACTACTTTC 57.349 40.000 27.71 21.56 36.36 2.62
7337 7842 5.642063 ACGTCTTGTGTATTTTGGTATGGAG 59.358 40.000 0.00 0.00 0.00 3.86
7382 7887 6.433093 AGCCACGTCCAAATATAAGACTTTTT 59.567 34.615 0.00 0.00 0.00 1.94
7383 7888 5.944007 AGCCACGTCCAAATATAAGACTTTT 59.056 36.000 0.00 0.00 0.00 2.27
7384 7889 5.497474 AGCCACGTCCAAATATAAGACTTT 58.503 37.500 0.00 0.00 0.00 2.66
7385 7890 5.099042 AGCCACGTCCAAATATAAGACTT 57.901 39.130 0.00 0.00 0.00 3.01
7386 7891 4.755266 AGCCACGTCCAAATATAAGACT 57.245 40.909 0.00 0.00 0.00 3.24
7387 7892 4.448060 GCTAGCCACGTCCAAATATAAGAC 59.552 45.833 2.29 0.00 0.00 3.01
7388 7893 4.100344 TGCTAGCCACGTCCAAATATAAGA 59.900 41.667 13.29 0.00 0.00 2.10
7389 7894 4.377021 TGCTAGCCACGTCCAAATATAAG 58.623 43.478 13.29 0.00 0.00 1.73
7390 7895 4.377021 CTGCTAGCCACGTCCAAATATAA 58.623 43.478 13.29 0.00 0.00 0.98
7391 7896 3.244078 CCTGCTAGCCACGTCCAAATATA 60.244 47.826 13.29 0.00 0.00 0.86
7392 7897 2.485479 CCTGCTAGCCACGTCCAAATAT 60.485 50.000 13.29 0.00 0.00 1.28
7393 7898 1.134521 CCTGCTAGCCACGTCCAAATA 60.135 52.381 13.29 0.00 0.00 1.40
7394 7899 0.392998 CCTGCTAGCCACGTCCAAAT 60.393 55.000 13.29 0.00 0.00 2.32
7395 7900 1.003839 CCTGCTAGCCACGTCCAAA 60.004 57.895 13.29 0.00 0.00 3.28
7396 7901 2.662596 CCTGCTAGCCACGTCCAA 59.337 61.111 13.29 0.00 0.00 3.53
7397 7902 4.082523 GCCTGCTAGCCACGTCCA 62.083 66.667 13.29 0.00 0.00 4.02
7425 7930 1.815421 CGCTCGATCCCACCAAAGG 60.815 63.158 0.00 0.00 0.00 3.11
7426 7931 2.464459 GCGCTCGATCCCACCAAAG 61.464 63.158 0.00 0.00 0.00 2.77
7427 7932 2.435938 GCGCTCGATCCCACCAAA 60.436 61.111 0.00 0.00 0.00 3.28
7428 7933 3.371097 GAGCGCTCGATCCCACCAA 62.371 63.158 23.61 0.00 0.00 3.67
7429 7934 3.838271 GAGCGCTCGATCCCACCA 61.838 66.667 23.61 0.00 0.00 4.17
7430 7935 2.579684 AAAGAGCGCTCGATCCCACC 62.580 60.000 30.39 5.23 34.09 4.61
7431 7936 1.148759 GAAAGAGCGCTCGATCCCAC 61.149 60.000 30.39 15.05 34.09 4.61
7432 7937 1.141881 GAAAGAGCGCTCGATCCCA 59.858 57.895 30.39 0.00 34.09 4.37
7433 7938 0.460284 TTGAAAGAGCGCTCGATCCC 60.460 55.000 30.39 18.77 34.09 3.85
7434 7939 1.359848 TTTGAAAGAGCGCTCGATCC 58.640 50.000 30.39 20.39 34.09 3.36
7435 7940 4.376819 CCATATTTGAAAGAGCGCTCGATC 60.377 45.833 30.39 28.95 34.09 3.69
7436 7941 3.496130 CCATATTTGAAAGAGCGCTCGAT 59.504 43.478 30.39 23.09 34.09 3.59
7437 7942 2.866156 CCATATTTGAAAGAGCGCTCGA 59.134 45.455 30.39 13.92 34.09 4.04
7438 7943 2.866156 TCCATATTTGAAAGAGCGCTCG 59.134 45.455 30.39 12.68 34.09 5.03
7439 7944 4.882671 TTCCATATTTGAAAGAGCGCTC 57.117 40.909 30.01 30.01 0.00 5.03
7446 7951 7.989826 CCAGTAGGTCTTTCCATATTTGAAAG 58.010 38.462 14.38 14.38 46.43 2.62
7447 7952 7.938140 CCAGTAGGTCTTTCCATATTTGAAA 57.062 36.000 0.00 0.00 39.02 2.69
7464 7969 2.125512 GTCAGGCGCACCAGTAGG 60.126 66.667 10.83 0.00 39.06 3.18
7465 7970 1.929806 TACGTCAGGCGCACCAGTAG 61.930 60.000 10.83 0.00 46.11 2.57
7466 7971 1.929806 CTACGTCAGGCGCACCAGTA 61.930 60.000 10.83 5.79 46.11 2.74
7467 7972 3.282745 CTACGTCAGGCGCACCAGT 62.283 63.158 10.83 4.79 46.11 4.00
7468 7973 2.507102 CTACGTCAGGCGCACCAG 60.507 66.667 10.83 0.00 46.11 4.00
7469 7974 4.735132 GCTACGTCAGGCGCACCA 62.735 66.667 10.83 0.00 46.11 4.17
7476 7981 0.250553 TTTTGGTGGGCTACGTCAGG 60.251 55.000 0.00 0.00 0.00 3.86
7477 7982 1.600023 TTTTTGGTGGGCTACGTCAG 58.400 50.000 0.00 0.00 0.00 3.51
7478 7983 3.802862 TTTTTGGTGGGCTACGTCA 57.197 47.368 0.00 0.00 0.00 4.35
7493 7998 5.302568 TGCATGTGAGACAAGATTCCTTTTT 59.697 36.000 0.00 0.00 0.00 1.94
7494 7999 4.828939 TGCATGTGAGACAAGATTCCTTTT 59.171 37.500 0.00 0.00 0.00 2.27
7495 8000 4.401022 TGCATGTGAGACAAGATTCCTTT 58.599 39.130 0.00 0.00 0.00 3.11
7496 8001 4.025040 TGCATGTGAGACAAGATTCCTT 57.975 40.909 0.00 0.00 0.00 3.36
7497 8002 3.708403 TGCATGTGAGACAAGATTCCT 57.292 42.857 0.00 0.00 0.00 3.36
7498 8003 4.978083 AATGCATGTGAGACAAGATTCC 57.022 40.909 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.