Multiple sequence alignment - TraesCS7D01G513700

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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 TraesCS7D01G513700 chr7D 100.000 5587 0 0 1 5587 614681162 614675576 0.000000e+00 10318.0
1 TraesCS7D01G513700 chr7D 90.476 63 3 3 1259 1318 614928562 614928624 4.640000e-11 80.5
2 TraesCS7D01G513700 chr7A 96.492 4703 112 20 357 5036 710836487 710831815 0.000000e+00 7721.0
3 TraesCS7D01G513700 chr7A 96.891 3088 61 11 1 3057 707110714 707113797 0.000000e+00 5138.0
4 TraesCS7D01G513700 chr7A 94.032 1374 27 17 3869 5238 707123418 707124740 0.000000e+00 2032.0
5 TraesCS7D01G513700 chr7A 99.022 818 8 0 3052 3869 707122441 707123258 0.000000e+00 1467.0
6 TraesCS7D01G513700 chr7A 97.191 356 5 2 5073 5428 710830100 710829750 1.040000e-166 597.0
7 TraesCS7D01G513700 chr7A 93.939 231 11 1 2 229 710836724 710836494 4.140000e-91 346.0
8 TraesCS7D01G513700 chr7A 99.371 159 1 0 5270 5428 707124738 707124896 7.080000e-74 289.0
9 TraesCS7D01G513700 chr4D 75.263 1904 343 76 2420 4269 323116913 323115084 0.000000e+00 789.0
10 TraesCS7D01G513700 chr4D 98.361 122 2 0 5466 5587 12277153 12277032 1.220000e-51 215.0
11 TraesCS7D01G513700 chr4D 73.709 426 88 15 911 1319 323118821 323118403 1.620000e-30 145.0
12 TraesCS7D01G513700 chr4A 76.596 1269 228 44 2420 3648 149029698 149030937 7.900000e-178 634.0
13 TraesCS7D01G513700 chr4A 73.474 426 89 15 911 1319 149027792 149028210 7.550000e-29 139.0
14 TraesCS7D01G513700 chr4A 97.143 35 1 0 5435 5469 200273159 200273193 6.040000e-05 60.2
15 TraesCS7D01G513700 chr4B 75.966 1398 234 55 2420 3763 403273135 403271786 1.320000e-175 627.0
16 TraesCS7D01G513700 chr4B 73.412 425 89 15 912 1319 403275077 403274660 2.710000e-28 137.0
17 TraesCS7D01G513700 chr4B 97.143 35 1 0 5435 5469 217277225 217277259 6.040000e-05 60.2
18 TraesCS7D01G513700 chr4B 97.143 35 1 0 5435 5469 572269588 572269554 6.040000e-05 60.2
19 TraesCS7D01G513700 chr4B 97.143 35 1 0 5435 5469 669600643 669600609 6.040000e-05 60.2
20 TraesCS7D01G513700 chr2A 97.619 126 3 0 5462 5587 721024700 721024575 3.390000e-52 217.0
21 TraesCS7D01G513700 chrUn 99.160 119 1 0 5466 5584 34261645 34261763 1.220000e-51 215.0
22 TraesCS7D01G513700 chrUn 98.361 122 2 0 5466 5587 307249882 307249761 1.220000e-51 215.0
23 TraesCS7D01G513700 chrUn 99.160 119 1 0 5466 5584 397599671 397599789 1.220000e-51 215.0
24 TraesCS7D01G513700 chrUn 99.160 119 1 0 5466 5584 430922704 430922822 1.220000e-51 215.0
25 TraesCS7D01G513700 chr3B 97.619 126 2 1 5462 5587 217775109 217774985 1.220000e-51 215.0
26 TraesCS7D01G513700 chr3A 98.374 123 1 1 5462 5584 712438814 712438935 1.220000e-51 215.0
27 TraesCS7D01G513700 chr2B 97.619 126 2 1 5462 5587 488647094 488646970 1.220000e-51 215.0
28 TraesCS7D01G513700 chr2B 97.143 35 1 0 5435 5469 362102655 362102621 6.040000e-05 60.2
29 TraesCS7D01G513700 chr6B 94.231 52 2 1 1251 1302 30354971 30355021 1.670000e-10 78.7
30 TraesCS7D01G513700 chr6B 97.674 43 1 0 1251 1293 30465064 30465106 2.160000e-09 75.0
31 TraesCS7D01G513700 chr6B 97.143 35 1 0 5435 5469 258667779 258667745 6.040000e-05 60.2
32 TraesCS7D01G513700 chr6A 95.349 43 2 0 1251 1293 18080916 18080958 1.000000e-07 69.4
33 TraesCS7D01G513700 chr6A 97.143 35 1 0 5435 5469 165368272 165368306 6.040000e-05 60.2
34 TraesCS7D01G513700 chr6A 97.143 35 1 0 5435 5469 502372776 502372810 6.040000e-05 60.2
35 TraesCS7D01G513700 chr7B 97.143 35 1 0 5435 5469 379114050 379114084 6.040000e-05 60.2


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 TraesCS7D01G513700 chr7D 614675576 614681162 5586 True 10318.000000 10318 100.000 1 5587 1 chr7D.!!$R1 5586
1 TraesCS7D01G513700 chr7A 707110714 707113797 3083 False 5138.000000 5138 96.891 1 3057 1 chr7A.!!$F1 3056
2 TraesCS7D01G513700 chr7A 710829750 710836724 6974 True 2888.000000 7721 95.874 2 5428 3 chr7A.!!$R1 5426
3 TraesCS7D01G513700 chr7A 707122441 707124896 2455 False 1262.666667 2032 97.475 3052 5428 3 chr7A.!!$F2 2376
4 TraesCS7D01G513700 chr4D 323115084 323118821 3737 True 467.000000 789 74.486 911 4269 2 chr4D.!!$R2 3358
5 TraesCS7D01G513700 chr4A 149027792 149030937 3145 False 386.500000 634 75.035 911 3648 2 chr4A.!!$F2 2737
6 TraesCS7D01G513700 chr4B 403271786 403275077 3291 True 382.000000 627 74.689 912 3763 2 chr4B.!!$R3 2851

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
258 262 0.250684 TCTTGCATTTGGTGGCGAGA 60.251 50.000 0.00 0.00 45.78 4.04 F
761 787 0.315251 CTCTCACTTCGAGTGTGCCA 59.685 55.000 13.57 4.36 46.03 4.92 F
902 939 2.091111 CCCAGGGGCTCTTAAATCCAAT 60.091 50.000 0.00 0.00 0.00 3.16 F
2451 3023 2.223044 GCTTCTTTTATCGAAGGGCACG 60.223 50.000 0.00 0.00 38.59 5.34 F
2528 3104 3.889196 TTTCCATTCGGTTTTGACTCG 57.111 42.857 0.00 0.00 0.00 4.18 F
4424 5210 1.960040 ATGGTGGAGCTGATCGCGAA 61.960 55.000 15.24 0.00 45.59 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1222 1276 6.363626 GCATAATCAAGTAGATGTACGTGAGG 59.636 42.308 20.09 12.30 46.53 3.86 R
2451 3023 0.107654 CAGGGAGGGAATTGGTCGAC 60.108 60.000 7.13 7.13 0.00 4.20 R
2528 3104 6.643770 TCCAAACTGAGATACACTACGAAAAC 59.356 38.462 0.00 0.00 0.00 2.43 R
4415 5201 1.666553 AGTTGCCGTTTCGCGATCA 60.667 52.632 10.88 0.00 44.77 2.92 R
4465 5251 1.008449 TCTCTAAGGGCTTAGGGCTGT 59.992 52.381 0.00 0.00 42.06 4.40 R
5526 8014 0.034670 GCTCAAAGCTGACCCCTGAT 60.035 55.000 0.00 0.00 38.45 2.90 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
60 64 2.897350 CCGCGCCCCTTGAATCTC 60.897 66.667 0.00 0.00 0.00 2.75
237 241 5.831997 TCTAGTTCCTTTTTGCTGCTTTTC 58.168 37.500 0.00 0.00 0.00 2.29
258 262 0.250684 TCTTGCATTTGGTGGCGAGA 60.251 50.000 0.00 0.00 45.78 4.04
275 279 2.938838 GAGATCTCGGGAGAAGAGGAA 58.061 52.381 7.04 0.00 41.36 3.36
407 411 4.082125 GGGTTCATTGTTGGAGTCTCATT 58.918 43.478 1.47 0.00 0.00 2.57
442 446 3.288092 TCTCTGTTCCTATGCGCTTCTA 58.712 45.455 9.73 0.00 0.00 2.10
466 470 2.090719 TCGGAACTGGATCCCCTTATCT 60.091 50.000 9.90 0.00 36.00 1.98
500 504 0.887387 GTTCGTGGCAAGGGCAACTA 60.887 55.000 0.00 0.00 42.11 2.24
570 594 2.416893 GGATTCGCACTCTCCTTTGTTC 59.583 50.000 0.00 0.00 0.00 3.18
761 787 0.315251 CTCTCACTTCGAGTGTGCCA 59.685 55.000 13.57 4.36 46.03 4.92
787 813 3.438781 TGAGTTATTTGGCGATGTTGACC 59.561 43.478 0.00 0.00 0.00 4.02
820 846 8.627403 CATGTATTAGTTTGATTCAGCTGGATT 58.373 33.333 15.13 0.00 0.00 3.01
902 939 2.091111 CCCAGGGGCTCTTAAATCCAAT 60.091 50.000 0.00 0.00 0.00 3.16
1677 1873 4.320608 TGATTCAACCCTTGTTTTCTGC 57.679 40.909 0.00 0.00 30.42 4.26
1914 2119 2.224113 GGGGAGTTTACGATATCGGCAA 60.224 50.000 27.58 18.03 44.95 4.52
2063 2273 9.766754 TTCACATAATTGGCACCCATATATATT 57.233 29.630 0.00 0.00 31.53 1.28
2285 2612 2.774809 AGGGACTTGGCTTATTCTCCTC 59.225 50.000 0.00 0.00 27.25 3.71
2451 3023 2.223044 GCTTCTTTTATCGAAGGGCACG 60.223 50.000 0.00 0.00 38.59 5.34
2528 3104 3.889196 TTTCCATTCGGTTTTGACTCG 57.111 42.857 0.00 0.00 0.00 4.18
3184 3790 4.848357 AGGTGTGGTCTTATGGAAATGAG 58.152 43.478 0.00 0.00 0.00 2.90
3248 3856 4.764679 TTTGTTATAGCAAGTGCAGGTG 57.235 40.909 6.00 0.00 45.16 4.00
3585 4203 7.463961 TTCCTAGGTTAACTAGTTCTCTGTG 57.536 40.000 12.39 6.15 46.39 3.66
3991 4777 4.143009 GCAATCGGTGAGTCTTCTTTCTTC 60.143 45.833 0.00 0.00 0.00 2.87
3992 4778 5.233988 CAATCGGTGAGTCTTCTTTCTTCT 58.766 41.667 0.00 0.00 0.00 2.85
3993 4779 4.939052 TCGGTGAGTCTTCTTTCTTCTT 57.061 40.909 0.00 0.00 0.00 2.52
4415 5201 4.101448 GTCGCCCATGGTGGAGCT 62.101 66.667 11.73 0.00 40.96 4.09
4424 5210 1.960040 ATGGTGGAGCTGATCGCGAA 61.960 55.000 15.24 0.00 45.59 4.70
4429 5215 3.144120 GAGCTGATCGCGAAACGGC 62.144 63.158 29.81 29.81 45.59 5.68
4552 5340 0.038166 CTTCAGCTGGGGTTGGCTAA 59.962 55.000 15.13 0.00 37.00 3.09
4553 5341 0.480690 TTCAGCTGGGGTTGGCTAAA 59.519 50.000 15.13 0.00 37.00 1.85
4594 5382 3.068024 GTGCCCACAGTTTGATCAAGAAA 59.932 43.478 8.41 0.00 0.00 2.52
4623 5411 1.283029 TCCTGAGCTGGGAAGGATTTG 59.717 52.381 0.00 0.00 35.14 2.32
4675 5465 4.389992 CAGAATTATGTGTTGACGCACTCT 59.610 41.667 0.00 0.00 39.39 3.24
4923 5717 5.585047 ACTGTTATTAATCGGCCTTGACTTC 59.415 40.000 0.00 0.00 0.00 3.01
5027 5821 3.143807 TGGCAAACGTTTCAGTTTCAG 57.856 42.857 11.37 0.00 41.84 3.02
5028 5822 2.490115 TGGCAAACGTTTCAGTTTCAGT 59.510 40.909 11.37 0.00 41.84 3.41
5029 5823 3.690139 TGGCAAACGTTTCAGTTTCAGTA 59.310 39.130 11.37 0.00 41.84 2.74
5030 5824 4.033019 GGCAAACGTTTCAGTTTCAGTAC 58.967 43.478 11.37 0.00 41.84 2.73
5031 5825 4.033019 GCAAACGTTTCAGTTTCAGTACC 58.967 43.478 11.37 0.00 41.84 3.34
5032 5826 4.437659 GCAAACGTTTCAGTTTCAGTACCA 60.438 41.667 11.37 0.00 41.84 3.25
5033 5827 5.732247 GCAAACGTTTCAGTTTCAGTACCAT 60.732 40.000 11.37 0.00 41.84 3.55
5034 5828 6.262601 CAAACGTTTCAGTTTCAGTACCATT 58.737 36.000 11.37 0.00 41.84 3.16
5035 5829 5.668558 ACGTTTCAGTTTCAGTACCATTC 57.331 39.130 0.00 0.00 0.00 2.67
5036 5830 5.120399 ACGTTTCAGTTTCAGTACCATTCA 58.880 37.500 0.00 0.00 0.00 2.57
5037 5831 5.236478 ACGTTTCAGTTTCAGTACCATTCAG 59.764 40.000 0.00 0.00 0.00 3.02
5038 5832 5.236478 CGTTTCAGTTTCAGTACCATTCAGT 59.764 40.000 0.00 0.00 0.00 3.41
5039 5833 6.238374 CGTTTCAGTTTCAGTACCATTCAGTT 60.238 38.462 0.00 0.00 0.00 3.16
5040 5834 7.480810 GTTTCAGTTTCAGTACCATTCAGTTT 58.519 34.615 0.00 0.00 0.00 2.66
5041 5835 6.861065 TCAGTTTCAGTACCATTCAGTTTC 57.139 37.500 0.00 0.00 0.00 2.78
5042 5836 6.353323 TCAGTTTCAGTACCATTCAGTTTCA 58.647 36.000 0.00 0.00 0.00 2.69
5063 5857 5.014858 TCAGTACCATTCTCTTACGAACCT 58.985 41.667 0.00 0.00 0.00 3.50
5131 7619 1.285078 GTATTGGGACTTGGGAGCCTT 59.715 52.381 0.00 0.00 0.00 4.35
5428 7916 4.452733 CCGCCGTCCAAGTCCCTC 62.453 72.222 0.00 0.00 0.00 4.30
5429 7917 3.382832 CGCCGTCCAAGTCCCTCT 61.383 66.667 0.00 0.00 0.00 3.69
5430 7918 2.943978 CGCCGTCCAAGTCCCTCTT 61.944 63.158 0.00 0.00 36.75 2.85
5431 7919 1.375326 GCCGTCCAAGTCCCTCTTT 59.625 57.895 0.00 0.00 33.63 2.52
5432 7920 0.955919 GCCGTCCAAGTCCCTCTTTG 60.956 60.000 0.00 0.00 33.63 2.77
5433 7921 0.685097 CCGTCCAAGTCCCTCTTTGA 59.315 55.000 0.00 0.00 33.63 2.69
5434 7922 1.338200 CCGTCCAAGTCCCTCTTTGAG 60.338 57.143 0.00 0.00 33.63 3.02
5435 7923 1.344763 CGTCCAAGTCCCTCTTTGAGT 59.655 52.381 0.00 0.00 33.63 3.41
5436 7924 2.610727 CGTCCAAGTCCCTCTTTGAGTC 60.611 54.545 0.00 0.00 33.63 3.36
5437 7925 1.978580 TCCAAGTCCCTCTTTGAGTCC 59.021 52.381 0.00 0.00 33.63 3.85
5438 7926 1.981495 CCAAGTCCCTCTTTGAGTCCT 59.019 52.381 0.00 0.00 33.63 3.85
5439 7927 2.027653 CCAAGTCCCTCTTTGAGTCCTC 60.028 54.545 0.00 0.00 33.63 3.71
5440 7928 2.903135 CAAGTCCCTCTTTGAGTCCTCT 59.097 50.000 0.00 0.00 33.63 3.69
5441 7929 3.268034 AGTCCCTCTTTGAGTCCTCTT 57.732 47.619 0.00 0.00 0.00 2.85
5442 7930 3.592865 AGTCCCTCTTTGAGTCCTCTTT 58.407 45.455 0.00 0.00 0.00 2.52
5443 7931 3.326297 AGTCCCTCTTTGAGTCCTCTTTG 59.674 47.826 0.00 0.00 0.00 2.77
5444 7932 3.325135 GTCCCTCTTTGAGTCCTCTTTGA 59.675 47.826 0.00 0.00 0.00 2.69
5445 7933 3.580458 TCCCTCTTTGAGTCCTCTTTGAG 59.420 47.826 0.00 1.25 0.00 3.02
5446 7934 3.333804 CCTCTTTGAGTCCTCTTTGAGC 58.666 50.000 0.00 0.00 0.00 4.26
5447 7935 3.333804 CTCTTTGAGTCCTCTTTGAGCC 58.666 50.000 0.00 0.00 0.00 4.70
5448 7936 2.039084 TCTTTGAGTCCTCTTTGAGCCC 59.961 50.000 0.00 0.00 0.00 5.19
5449 7937 1.734655 TTGAGTCCTCTTTGAGCCCT 58.265 50.000 0.00 0.00 0.00 5.19
5450 7938 1.734655 TGAGTCCTCTTTGAGCCCTT 58.265 50.000 0.00 0.00 0.00 3.95
5451 7939 2.902608 TGAGTCCTCTTTGAGCCCTTA 58.097 47.619 0.00 0.00 0.00 2.69
5452 7940 3.454858 TGAGTCCTCTTTGAGCCCTTAT 58.545 45.455 0.00 0.00 0.00 1.73
5453 7941 3.452627 TGAGTCCTCTTTGAGCCCTTATC 59.547 47.826 0.00 0.00 0.00 1.75
5454 7942 3.709141 GAGTCCTCTTTGAGCCCTTATCT 59.291 47.826 0.00 0.00 0.00 1.98
5455 7943 4.107820 AGTCCTCTTTGAGCCCTTATCTT 58.892 43.478 0.00 0.00 0.00 2.40
5456 7944 4.538089 AGTCCTCTTTGAGCCCTTATCTTT 59.462 41.667 0.00 0.00 0.00 2.52
5457 7945 5.014649 AGTCCTCTTTGAGCCCTTATCTTTT 59.985 40.000 0.00 0.00 0.00 2.27
5458 7946 5.712446 GTCCTCTTTGAGCCCTTATCTTTTT 59.288 40.000 0.00 0.00 0.00 1.94
5459 7947 5.711976 TCCTCTTTGAGCCCTTATCTTTTTG 59.288 40.000 0.00 0.00 0.00 2.44
5460 7948 5.391312 TCTTTGAGCCCTTATCTTTTTGC 57.609 39.130 0.00 0.00 0.00 3.68
5461 7949 4.832266 TCTTTGAGCCCTTATCTTTTTGCA 59.168 37.500 0.00 0.00 0.00 4.08
5462 7950 5.481473 TCTTTGAGCCCTTATCTTTTTGCAT 59.519 36.000 0.00 0.00 0.00 3.96
5463 7951 5.743636 TTGAGCCCTTATCTTTTTGCATT 57.256 34.783 0.00 0.00 0.00 3.56
5464 7952 5.075858 TGAGCCCTTATCTTTTTGCATTG 57.924 39.130 0.00 0.00 0.00 2.82
5465 7953 4.081531 TGAGCCCTTATCTTTTTGCATTGG 60.082 41.667 0.00 0.00 0.00 3.16
5466 7954 3.840078 AGCCCTTATCTTTTTGCATTGGT 59.160 39.130 0.00 0.00 0.00 3.67
5467 7955 3.934579 GCCCTTATCTTTTTGCATTGGTG 59.065 43.478 0.00 0.00 0.00 4.17
5468 7956 4.322650 GCCCTTATCTTTTTGCATTGGTGA 60.323 41.667 0.00 0.00 0.00 4.02
5469 7957 5.170748 CCCTTATCTTTTTGCATTGGTGAC 58.829 41.667 0.00 0.00 0.00 3.67
5470 7958 5.279406 CCCTTATCTTTTTGCATTGGTGACA 60.279 40.000 0.00 0.00 39.83 3.58
5482 7970 2.388310 TGGTGACAAGTGTTCGAACA 57.612 45.000 26.53 26.53 37.44 3.18
5483 7971 2.701107 TGGTGACAAGTGTTCGAACAA 58.299 42.857 31.20 13.10 37.92 2.83
5484 7972 2.675844 TGGTGACAAGTGTTCGAACAAG 59.324 45.455 31.20 24.21 37.92 3.16
5485 7973 2.676342 GGTGACAAGTGTTCGAACAAGT 59.324 45.455 31.20 26.90 41.21 3.16
5486 7974 3.485216 GGTGACAAGTGTTCGAACAAGTG 60.485 47.826 31.20 29.32 41.21 3.16
5487 7975 3.369756 GTGACAAGTGTTCGAACAAGTGA 59.630 43.478 32.89 23.43 41.21 3.41
5488 7976 4.034048 GTGACAAGTGTTCGAACAAGTGAT 59.966 41.667 32.89 22.61 41.21 3.06
5489 7977 4.033932 TGACAAGTGTTCGAACAAGTGATG 59.966 41.667 32.89 26.17 41.21 3.07
5490 7978 3.938963 ACAAGTGTTCGAACAAGTGATGT 59.061 39.130 32.89 26.63 46.82 3.06
5491 7979 4.034048 ACAAGTGTTCGAACAAGTGATGTC 59.966 41.667 32.89 20.46 42.99 3.06
5492 7980 2.794910 AGTGTTCGAACAAGTGATGTCG 59.205 45.455 31.20 0.00 42.99 4.35
5493 7981 2.792674 GTGTTCGAACAAGTGATGTCGA 59.207 45.455 31.20 2.38 42.99 4.20
5494 7982 2.792674 TGTTCGAACAAGTGATGTCGAC 59.207 45.455 27.94 9.11 42.99 4.20
5495 7983 2.785713 TCGAACAAGTGATGTCGACA 57.214 45.000 22.48 22.48 42.99 4.35
5496 7984 2.390938 TCGAACAAGTGATGTCGACAC 58.609 47.619 22.71 15.11 42.99 3.67
5498 7986 2.153817 CGAACAAGTGATGTCGACACTG 59.846 50.000 22.71 14.87 46.01 3.66
5499 7987 3.381045 GAACAAGTGATGTCGACACTGA 58.619 45.455 22.71 4.50 46.01 3.41
5500 7988 3.667497 ACAAGTGATGTCGACACTGAT 57.333 42.857 22.71 4.38 46.01 2.90
5501 7989 3.320626 ACAAGTGATGTCGACACTGATG 58.679 45.455 22.71 17.70 46.01 3.07
5502 7990 3.005791 ACAAGTGATGTCGACACTGATGA 59.994 43.478 22.71 0.00 46.01 2.92
5503 7991 3.223423 AGTGATGTCGACACTGATGAC 57.777 47.619 22.71 9.47 45.19 3.06
5504 7992 2.822561 AGTGATGTCGACACTGATGACT 59.177 45.455 22.71 11.84 45.19 3.41
5505 7993 3.256879 AGTGATGTCGACACTGATGACTT 59.743 43.478 22.71 0.35 45.19 3.01
5506 7994 3.610242 GTGATGTCGACACTGATGACTTC 59.390 47.826 22.71 11.60 37.33 3.01
5507 7995 2.724977 TGTCGACACTGATGACTTCC 57.275 50.000 15.76 0.00 33.81 3.46
5508 7996 1.272490 TGTCGACACTGATGACTTCCC 59.728 52.381 15.76 0.00 33.81 3.97
5509 7997 0.526211 TCGACACTGATGACTTCCCG 59.474 55.000 0.00 0.00 0.00 5.14
5510 7998 0.526211 CGACACTGATGACTTCCCGA 59.474 55.000 0.00 0.00 0.00 5.14
5511 7999 1.135139 CGACACTGATGACTTCCCGAT 59.865 52.381 0.00 0.00 0.00 4.18
5512 8000 2.417379 CGACACTGATGACTTCCCGATT 60.417 50.000 0.00 0.00 0.00 3.34
5513 8001 3.181490 CGACACTGATGACTTCCCGATTA 60.181 47.826 0.00 0.00 0.00 1.75
5514 8002 4.676986 CGACACTGATGACTTCCCGATTAA 60.677 45.833 0.00 0.00 0.00 1.40
5515 8003 4.759782 ACACTGATGACTTCCCGATTAAG 58.240 43.478 0.00 0.00 0.00 1.85
5516 8004 4.466370 ACACTGATGACTTCCCGATTAAGA 59.534 41.667 0.00 0.00 0.00 2.10
5517 8005 5.129485 ACACTGATGACTTCCCGATTAAGAT 59.871 40.000 0.00 0.00 0.00 2.40
5518 8006 6.323996 ACACTGATGACTTCCCGATTAAGATA 59.676 38.462 0.00 0.00 0.00 1.98
5519 8007 6.865726 CACTGATGACTTCCCGATTAAGATAG 59.134 42.308 0.00 0.00 0.00 2.08
5520 8008 6.015010 ACTGATGACTTCCCGATTAAGATAGG 60.015 42.308 0.00 0.00 0.00 2.57
5521 8009 5.246203 TGATGACTTCCCGATTAAGATAGGG 59.754 44.000 0.00 0.00 46.51 3.53
5522 8010 3.323979 TGACTTCCCGATTAAGATAGGGC 59.676 47.826 0.23 0.00 45.20 5.19
5523 8011 3.579151 GACTTCCCGATTAAGATAGGGCT 59.421 47.826 0.23 0.00 45.20 5.19
5524 8012 3.325135 ACTTCCCGATTAAGATAGGGCTG 59.675 47.826 0.23 0.00 45.20 4.85
5525 8013 1.623811 TCCCGATTAAGATAGGGCTGC 59.376 52.381 0.00 0.00 45.20 5.25
5526 8014 1.347707 CCCGATTAAGATAGGGCTGCA 59.652 52.381 0.50 0.00 40.70 4.41
5527 8015 2.026822 CCCGATTAAGATAGGGCTGCAT 60.027 50.000 0.50 0.00 40.70 3.96
5528 8016 3.265791 CCGATTAAGATAGGGCTGCATC 58.734 50.000 0.50 0.00 0.00 3.91
5529 8017 3.306989 CCGATTAAGATAGGGCTGCATCA 60.307 47.826 0.50 0.00 0.00 3.07
5530 8018 3.931468 CGATTAAGATAGGGCTGCATCAG 59.069 47.826 0.50 0.00 34.12 2.90
5531 8019 3.777106 TTAAGATAGGGCTGCATCAGG 57.223 47.619 0.50 0.00 31.21 3.86
5532 8020 0.769873 AAGATAGGGCTGCATCAGGG 59.230 55.000 0.50 0.00 31.21 4.45
5533 8021 1.132554 AGATAGGGCTGCATCAGGGG 61.133 60.000 0.50 0.00 31.21 4.79
5534 8022 1.386485 ATAGGGCTGCATCAGGGGT 60.386 57.895 0.50 0.00 31.21 4.95
5535 8023 1.422161 ATAGGGCTGCATCAGGGGTC 61.422 60.000 0.50 0.00 31.21 4.46
5536 8024 2.838436 TAGGGCTGCATCAGGGGTCA 62.838 60.000 0.50 0.00 31.21 4.02
5537 8025 2.124403 GGCTGCATCAGGGGTCAG 60.124 66.667 0.50 0.00 31.21 3.51
5538 8026 2.827642 GCTGCATCAGGGGTCAGC 60.828 66.667 0.00 0.00 43.95 4.26
5539 8027 2.996395 CTGCATCAGGGGTCAGCT 59.004 61.111 0.00 0.00 0.00 4.24
5540 8028 1.302285 CTGCATCAGGGGTCAGCTT 59.698 57.895 0.00 0.00 0.00 3.74
5541 8029 0.323178 CTGCATCAGGGGTCAGCTTT 60.323 55.000 0.00 0.00 0.00 3.51
5542 8030 0.609957 TGCATCAGGGGTCAGCTTTG 60.610 55.000 0.00 0.00 0.00 2.77
5543 8031 0.322816 GCATCAGGGGTCAGCTTTGA 60.323 55.000 0.00 0.00 0.00 2.69
5544 8032 1.747709 CATCAGGGGTCAGCTTTGAG 58.252 55.000 0.00 0.00 0.00 3.02
5545 8033 0.034670 ATCAGGGGTCAGCTTTGAGC 60.035 55.000 0.00 0.00 42.84 4.26
5549 8037 4.830573 GGTCAGCTTTGAGCCCTT 57.169 55.556 0.00 0.00 43.77 3.95
5550 8038 3.957288 GGTCAGCTTTGAGCCCTTA 57.043 52.632 0.00 0.00 43.77 2.69
5551 8039 2.426842 GGTCAGCTTTGAGCCCTTAT 57.573 50.000 0.00 0.00 43.77 1.73
5552 8040 2.293170 GGTCAGCTTTGAGCCCTTATC 58.707 52.381 0.00 0.00 43.77 1.75
5553 8041 2.092699 GGTCAGCTTTGAGCCCTTATCT 60.093 50.000 0.00 0.00 43.77 1.98
5554 8042 3.615155 GTCAGCTTTGAGCCCTTATCTT 58.385 45.455 0.00 0.00 43.77 2.40
5555 8043 4.013050 GTCAGCTTTGAGCCCTTATCTTT 58.987 43.478 0.00 0.00 43.77 2.52
5556 8044 4.460731 GTCAGCTTTGAGCCCTTATCTTTT 59.539 41.667 0.00 0.00 43.77 2.27
5557 8045 5.047731 GTCAGCTTTGAGCCCTTATCTTTTT 60.048 40.000 0.00 0.00 43.77 1.94
5558 8046 5.047802 TCAGCTTTGAGCCCTTATCTTTTTG 60.048 40.000 0.00 0.00 43.77 2.44
5559 8047 3.928992 GCTTTGAGCCCTTATCTTTTTGC 59.071 43.478 0.00 0.00 34.48 3.68
5560 8048 4.561326 GCTTTGAGCCCTTATCTTTTTGCA 60.561 41.667 0.00 0.00 34.48 4.08
5561 8049 5.727434 CTTTGAGCCCTTATCTTTTTGCAT 58.273 37.500 0.00 0.00 0.00 3.96
5562 8050 5.743636 TTGAGCCCTTATCTTTTTGCATT 57.256 34.783 0.00 0.00 0.00 3.56
5563 8051 5.075858 TGAGCCCTTATCTTTTTGCATTG 57.924 39.130 0.00 0.00 0.00 2.82
5564 8052 4.081531 TGAGCCCTTATCTTTTTGCATTGG 60.082 41.667 0.00 0.00 0.00 3.16
5565 8053 3.840078 AGCCCTTATCTTTTTGCATTGGT 59.160 39.130 0.00 0.00 0.00 3.67
5566 8054 3.934579 GCCCTTATCTTTTTGCATTGGTG 59.065 43.478 0.00 0.00 0.00 4.17
5567 8055 4.322650 GCCCTTATCTTTTTGCATTGGTGA 60.323 41.667 0.00 0.00 0.00 4.02
5568 8056 5.627503 GCCCTTATCTTTTTGCATTGGTGAT 60.628 40.000 0.00 0.00 0.00 3.06
5569 8057 5.813672 CCCTTATCTTTTTGCATTGGTGATG 59.186 40.000 0.00 0.00 38.85 3.07
5570 8058 5.813672 CCTTATCTTTTTGCATTGGTGATGG 59.186 40.000 0.00 0.00 36.21 3.51
5571 8059 6.351202 CCTTATCTTTTTGCATTGGTGATGGA 60.351 38.462 0.00 0.00 36.21 3.41
5572 8060 5.687166 ATCTTTTTGCATTGGTGATGGAT 57.313 34.783 0.00 0.00 35.89 3.41
5573 8061 4.823157 TCTTTTTGCATTGGTGATGGATG 58.177 39.130 0.00 0.00 35.89 3.51
5574 8062 4.527427 TCTTTTTGCATTGGTGATGGATGA 59.473 37.500 0.00 0.00 35.89 2.92
5575 8063 4.459390 TTTTGCATTGGTGATGGATGAG 57.541 40.909 0.00 0.00 35.89 2.90
5576 8064 2.061509 TGCATTGGTGATGGATGAGG 57.938 50.000 0.00 0.00 36.21 3.86
5577 8065 1.285667 TGCATTGGTGATGGATGAGGT 59.714 47.619 0.00 0.00 36.21 3.85
5578 8066 1.952296 GCATTGGTGATGGATGAGGTC 59.048 52.381 0.00 0.00 36.21 3.85
5579 8067 2.684630 GCATTGGTGATGGATGAGGTCA 60.685 50.000 0.00 0.00 36.21 4.02
5580 8068 2.787473 TTGGTGATGGATGAGGTCAC 57.213 50.000 0.00 0.00 41.07 3.67
5581 8069 1.655372 TGGTGATGGATGAGGTCACA 58.345 50.000 7.00 0.00 43.01 3.58
5582 8070 1.984424 TGGTGATGGATGAGGTCACAA 59.016 47.619 7.00 0.00 43.01 3.33
5583 8071 2.026915 TGGTGATGGATGAGGTCACAAG 60.027 50.000 7.00 0.00 43.01 3.16
5584 8072 2.237143 GGTGATGGATGAGGTCACAAGA 59.763 50.000 7.00 0.00 43.01 3.02
5585 8073 3.529533 GTGATGGATGAGGTCACAAGAG 58.470 50.000 0.00 0.00 41.35 2.85
5586 8074 3.196469 GTGATGGATGAGGTCACAAGAGA 59.804 47.826 0.00 0.00 41.35 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 64 5.681105 TGAGCGAAAAAGAAAACAAGAATCG 59.319 36.000 0.00 0.00 0.00 3.34
237 241 1.442520 CGCCACCAAATGCAAGACG 60.443 57.895 0.00 0.00 0.00 4.18
258 262 1.063266 AGCTTCCTCTTCTCCCGAGAT 60.063 52.381 0.00 0.00 37.29 2.75
407 411 0.824109 CAGAGATCCCCGTTGTGCTA 59.176 55.000 0.00 0.00 0.00 3.49
442 446 0.326618 AGGGGATCCAGTTCCGATGT 60.327 55.000 15.23 0.00 36.58 3.06
466 470 0.878523 CGAACAACGGCAACAGGAGA 60.879 55.000 0.00 0.00 38.46 3.71
500 504 6.038271 GCGATTTTTGGACACCATAATAGTCT 59.962 38.462 0.00 0.00 31.53 3.24
646 670 6.060136 TCAGGCATATTGAAGATCAAGGAAG 58.940 40.000 0.00 0.00 40.05 3.46
761 787 2.292267 CATCGCCAAATAACTCAGGCT 58.708 47.619 0.00 0.00 44.85 4.58
820 846 4.764050 TTCAGGGCTTTCACCGAATATA 57.236 40.909 0.00 0.00 0.00 0.86
868 894 2.025887 GCCCCTGGGTGGATATAATCAG 60.026 54.545 12.71 0.00 38.35 2.90
869 895 1.992557 GCCCCTGGGTGGATATAATCA 59.007 52.381 12.71 0.00 38.35 2.57
870 896 2.239907 GAGCCCCTGGGTGGATATAATC 59.760 54.545 12.71 0.00 38.35 1.75
871 897 2.157786 AGAGCCCCTGGGTGGATATAAT 60.158 50.000 12.71 0.00 38.35 1.28
873 899 0.874594 AGAGCCCCTGGGTGGATATA 59.125 55.000 12.71 0.00 38.35 0.86
1148 1190 9.382244 GGCAAACAAAATCGATAATACATAGAC 57.618 33.333 0.00 0.00 0.00 2.59
1222 1276 6.363626 GCATAATCAAGTAGATGTACGTGAGG 59.636 42.308 20.09 12.30 46.53 3.86
2063 2273 8.792633 CACCTTTCAATATTGTAAAGGAAGTGA 58.207 33.333 35.55 11.65 42.05 3.41
2285 2612 6.038356 GCCACCTTATCAAATTTCTGATGTG 58.962 40.000 3.34 3.52 36.69 3.21
2451 3023 0.107654 CAGGGAGGGAATTGGTCGAC 60.108 60.000 7.13 7.13 0.00 4.20
2528 3104 6.643770 TCCAAACTGAGATACACTACGAAAAC 59.356 38.462 0.00 0.00 0.00 2.43
3184 3790 3.049912 CGGCACCTAGAAAAACAAAAGC 58.950 45.455 0.00 0.00 0.00 3.51
3248 3856 8.657729 GTTATTTTTAGCTCAGACTTACCAGAC 58.342 37.037 0.00 0.00 0.00 3.51
4415 5201 1.666553 AGTTGCCGTTTCGCGATCA 60.667 52.632 10.88 0.00 44.77 2.92
4424 5210 3.068165 TCTCGATATCATCAGTTGCCGTT 59.932 43.478 3.12 0.00 0.00 4.44
4429 5215 5.177142 CCTTTGCTCTCGATATCATCAGTTG 59.823 44.000 3.12 0.00 0.00 3.16
4465 5251 1.008449 TCTCTAAGGGCTTAGGGCTGT 59.992 52.381 0.00 0.00 42.06 4.40
4594 5382 1.558756 CCCAGCTCAGGATCAACTCTT 59.441 52.381 0.00 0.00 0.00 2.85
4923 5717 4.260784 GGCATTCAAAGCTAACTGATACGG 60.261 45.833 0.00 0.00 0.00 4.02
4960 5754 1.528076 TGGACTTGCGGTGCATTGT 60.528 52.632 0.00 0.00 41.27 2.71
4968 5762 1.533625 TTTCTTCCATGGACTTGCGG 58.466 50.000 15.91 0.98 0.00 5.69
5027 5821 6.879458 AGAATGGTACTGAAACTGAATGGTAC 59.121 38.462 0.00 0.00 0.00 3.34
5028 5822 7.016153 AGAATGGTACTGAAACTGAATGGTA 57.984 36.000 0.00 0.00 0.00 3.25
5029 5823 5.880901 AGAATGGTACTGAAACTGAATGGT 58.119 37.500 0.00 0.00 0.00 3.55
5030 5824 6.176183 AGAGAATGGTACTGAAACTGAATGG 58.824 40.000 0.00 0.00 0.00 3.16
5031 5825 7.678947 AAGAGAATGGTACTGAAACTGAATG 57.321 36.000 0.00 0.00 0.00 2.67
5032 5826 7.545965 CGTAAGAGAATGGTACTGAAACTGAAT 59.454 37.037 0.00 0.00 43.02 2.57
5033 5827 6.866770 CGTAAGAGAATGGTACTGAAACTGAA 59.133 38.462 0.00 0.00 43.02 3.02
5034 5828 6.208007 TCGTAAGAGAATGGTACTGAAACTGA 59.792 38.462 0.00 0.00 45.01 3.41
5035 5829 6.387465 TCGTAAGAGAATGGTACTGAAACTG 58.613 40.000 0.00 0.00 45.01 3.16
5036 5830 6.585695 TCGTAAGAGAATGGTACTGAAACT 57.414 37.500 0.00 0.00 45.01 2.66
5063 5857 7.411486 TTTGGGAGTTCAATTTTAGTGTTCA 57.589 32.000 0.00 0.00 0.00 3.18
5131 7619 8.690884 TCAGATTTTGAGGATTGTTTACAAACA 58.309 29.630 3.44 3.44 46.35 2.83
5163 7651 8.971321 AGATCGAGTTTGAAATTGTGATTTTTG 58.029 29.630 0.00 0.00 35.65 2.44
5428 7916 2.039613 AGGGCTCAAAGAGGACTCAAAG 59.960 50.000 1.75 0.00 0.00 2.77
5429 7917 2.057922 AGGGCTCAAAGAGGACTCAAA 58.942 47.619 1.75 0.00 0.00 2.69
5430 7918 1.734655 AGGGCTCAAAGAGGACTCAA 58.265 50.000 1.75 0.00 0.00 3.02
5431 7919 1.734655 AAGGGCTCAAAGAGGACTCA 58.265 50.000 1.75 0.00 0.00 3.41
5432 7920 3.709141 AGATAAGGGCTCAAAGAGGACTC 59.291 47.826 0.00 0.00 0.00 3.36
5433 7921 3.730269 AGATAAGGGCTCAAAGAGGACT 58.270 45.455 0.00 0.00 0.00 3.85
5434 7922 4.495690 AAGATAAGGGCTCAAAGAGGAC 57.504 45.455 0.00 0.00 0.00 3.85
5435 7923 5.520748 AAAAGATAAGGGCTCAAAGAGGA 57.479 39.130 0.00 0.00 0.00 3.71
5436 7924 5.623141 GCAAAAAGATAAGGGCTCAAAGAGG 60.623 44.000 0.00 0.00 0.00 3.69
5437 7925 5.047802 TGCAAAAAGATAAGGGCTCAAAGAG 60.048 40.000 0.00 0.00 0.00 2.85
5438 7926 4.832266 TGCAAAAAGATAAGGGCTCAAAGA 59.168 37.500 0.00 0.00 0.00 2.52
5439 7927 5.138125 TGCAAAAAGATAAGGGCTCAAAG 57.862 39.130 0.00 0.00 0.00 2.77
5440 7928 5.743636 ATGCAAAAAGATAAGGGCTCAAA 57.256 34.783 0.00 0.00 0.00 2.69
5441 7929 5.481105 CAATGCAAAAAGATAAGGGCTCAA 58.519 37.500 0.00 0.00 0.00 3.02
5442 7930 4.081531 CCAATGCAAAAAGATAAGGGCTCA 60.082 41.667 0.00 0.00 0.00 4.26
5443 7931 4.081476 ACCAATGCAAAAAGATAAGGGCTC 60.081 41.667 0.00 0.00 0.00 4.70
5444 7932 3.840078 ACCAATGCAAAAAGATAAGGGCT 59.160 39.130 0.00 0.00 0.00 5.19
5445 7933 3.934579 CACCAATGCAAAAAGATAAGGGC 59.065 43.478 0.00 0.00 0.00 5.19
5446 7934 5.170748 GTCACCAATGCAAAAAGATAAGGG 58.829 41.667 0.00 0.00 0.00 3.95
5447 7935 5.782047 TGTCACCAATGCAAAAAGATAAGG 58.218 37.500 0.00 0.00 0.00 2.69
5448 7936 6.925165 ACTTGTCACCAATGCAAAAAGATAAG 59.075 34.615 0.00 2.66 0.00 1.73
5449 7937 6.700960 CACTTGTCACCAATGCAAAAAGATAA 59.299 34.615 0.00 0.00 0.00 1.75
5450 7938 6.183360 ACACTTGTCACCAATGCAAAAAGATA 60.183 34.615 0.00 0.00 0.00 1.98
5451 7939 5.051816 CACTTGTCACCAATGCAAAAAGAT 58.948 37.500 0.00 0.00 0.00 2.40
5452 7940 4.081752 ACACTTGTCACCAATGCAAAAAGA 60.082 37.500 0.00 0.00 0.00 2.52
5453 7941 4.183101 ACACTTGTCACCAATGCAAAAAG 58.817 39.130 0.00 0.00 0.00 2.27
5454 7942 4.199432 ACACTTGTCACCAATGCAAAAA 57.801 36.364 0.00 0.00 0.00 1.94
5455 7943 3.883830 ACACTTGTCACCAATGCAAAA 57.116 38.095 0.00 0.00 0.00 2.44
5456 7944 3.733380 CGAACACTTGTCACCAATGCAAA 60.733 43.478 0.00 0.00 0.00 3.68
5457 7945 2.223456 CGAACACTTGTCACCAATGCAA 60.223 45.455 0.00 0.00 0.00 4.08
5458 7946 1.333308 CGAACACTTGTCACCAATGCA 59.667 47.619 0.00 0.00 0.00 3.96
5459 7947 1.601903 TCGAACACTTGTCACCAATGC 59.398 47.619 0.00 0.00 0.00 3.56
5460 7948 3.064682 TGTTCGAACACTTGTCACCAATG 59.935 43.478 26.53 0.00 33.17 2.82
5461 7949 3.275143 TGTTCGAACACTTGTCACCAAT 58.725 40.909 26.53 0.00 33.17 3.16
5462 7950 2.701107 TGTTCGAACACTTGTCACCAA 58.299 42.857 26.53 0.00 33.17 3.67
5463 7951 2.388310 TGTTCGAACACTTGTCACCA 57.612 45.000 26.53 0.00 33.17 4.17
5464 7952 2.676342 ACTTGTTCGAACACTTGTCACC 59.324 45.455 29.74 0.00 38.92 4.02
5465 7953 3.369756 TCACTTGTTCGAACACTTGTCAC 59.630 43.478 29.74 0.29 38.92 3.67
5466 7954 3.591023 TCACTTGTTCGAACACTTGTCA 58.409 40.909 29.74 13.28 38.92 3.58
5467 7955 4.034048 ACATCACTTGTTCGAACACTTGTC 59.966 41.667 29.74 1.29 38.92 3.18
5468 7956 3.938963 ACATCACTTGTTCGAACACTTGT 59.061 39.130 29.74 23.34 38.92 3.16
5469 7957 4.518217 GACATCACTTGTTCGAACACTTG 58.482 43.478 29.74 26.06 39.18 3.16
5470 7958 3.245284 CGACATCACTTGTTCGAACACTT 59.755 43.478 29.74 16.81 39.18 3.16
5471 7959 2.794910 CGACATCACTTGTTCGAACACT 59.205 45.455 29.74 15.41 39.18 3.55
5472 7960 2.792674 TCGACATCACTTGTTCGAACAC 59.207 45.455 29.74 14.77 39.18 3.32
5473 7961 2.792674 GTCGACATCACTTGTTCGAACA 59.207 45.455 26.53 26.53 39.18 3.18
5474 7962 2.792674 TGTCGACATCACTTGTTCGAAC 59.207 45.455 21.42 21.42 39.18 3.95
5475 7963 2.792674 GTGTCGACATCACTTGTTCGAA 59.207 45.455 23.12 0.00 39.18 3.71
5476 7964 2.034179 AGTGTCGACATCACTTGTTCGA 59.966 45.455 23.12 0.00 42.50 3.71
5477 7965 2.153817 CAGTGTCGACATCACTTGTTCG 59.846 50.000 23.12 0.00 43.14 3.95
5478 7966 3.381045 TCAGTGTCGACATCACTTGTTC 58.619 45.455 23.12 5.17 43.14 3.18
5479 7967 3.452755 TCAGTGTCGACATCACTTGTT 57.547 42.857 23.12 0.00 43.14 2.83
5480 7968 3.005791 TCATCAGTGTCGACATCACTTGT 59.994 43.478 23.12 2.42 43.14 3.16
5481 7969 3.366121 GTCATCAGTGTCGACATCACTTG 59.634 47.826 23.12 15.27 43.14 3.16
5482 7970 3.256879 AGTCATCAGTGTCGACATCACTT 59.743 43.478 23.12 3.36 43.14 3.16
5483 7971 2.822561 AGTCATCAGTGTCGACATCACT 59.177 45.455 23.12 11.58 45.43 3.41
5484 7972 3.223423 AGTCATCAGTGTCGACATCAC 57.777 47.619 23.12 9.16 36.22 3.06
5485 7973 3.367395 GGAAGTCATCAGTGTCGACATCA 60.367 47.826 23.12 9.01 30.88 3.07
5486 7974 3.182967 GGAAGTCATCAGTGTCGACATC 58.817 50.000 23.12 15.04 31.92 3.06
5487 7975 2.093973 GGGAAGTCATCAGTGTCGACAT 60.094 50.000 23.12 8.09 31.92 3.06
5488 7976 1.272490 GGGAAGTCATCAGTGTCGACA 59.728 52.381 15.76 15.76 31.92 4.35
5489 7977 1.732732 CGGGAAGTCATCAGTGTCGAC 60.733 57.143 9.11 9.11 0.00 4.20
5490 7978 0.526211 CGGGAAGTCATCAGTGTCGA 59.474 55.000 0.00 0.00 0.00 4.20
5491 7979 0.526211 TCGGGAAGTCATCAGTGTCG 59.474 55.000 0.00 0.00 0.00 4.35
5492 7980 2.969628 ATCGGGAAGTCATCAGTGTC 57.030 50.000 0.00 0.00 0.00 3.67
5493 7981 4.466370 TCTTAATCGGGAAGTCATCAGTGT 59.534 41.667 0.00 0.00 0.00 3.55
5494 7982 5.011090 TCTTAATCGGGAAGTCATCAGTG 57.989 43.478 0.00 0.00 0.00 3.66
5495 7983 5.878406 ATCTTAATCGGGAAGTCATCAGT 57.122 39.130 0.00 0.00 0.00 3.41
5496 7984 6.393990 CCTATCTTAATCGGGAAGTCATCAG 58.606 44.000 0.00 0.00 0.00 2.90
5497 7985 5.246203 CCCTATCTTAATCGGGAAGTCATCA 59.754 44.000 0.00 0.00 39.76 3.07
5498 7986 5.725362 CCCTATCTTAATCGGGAAGTCATC 58.275 45.833 0.00 0.00 39.76 2.92
5499 7987 4.020128 GCCCTATCTTAATCGGGAAGTCAT 60.020 45.833 0.00 0.00 39.76 3.06
5500 7988 3.323979 GCCCTATCTTAATCGGGAAGTCA 59.676 47.826 0.00 0.00 39.76 3.41
5501 7989 3.579151 AGCCCTATCTTAATCGGGAAGTC 59.421 47.826 0.00 0.00 39.76 3.01
5502 7990 3.325135 CAGCCCTATCTTAATCGGGAAGT 59.675 47.826 0.00 0.00 39.76 3.01
5503 7991 3.866449 GCAGCCCTATCTTAATCGGGAAG 60.866 52.174 0.00 0.00 39.76 3.46
5504 7992 2.038557 GCAGCCCTATCTTAATCGGGAA 59.961 50.000 0.00 0.00 39.76 3.97
5505 7993 1.623811 GCAGCCCTATCTTAATCGGGA 59.376 52.381 0.00 0.00 39.76 5.14
5506 7994 1.347707 TGCAGCCCTATCTTAATCGGG 59.652 52.381 0.00 0.00 40.24 5.14
5507 7995 2.839486 TGCAGCCCTATCTTAATCGG 57.161 50.000 0.00 0.00 0.00 4.18
5508 7996 3.930336 TGATGCAGCCCTATCTTAATCG 58.070 45.455 0.00 0.00 0.00 3.34
5509 7997 4.260170 CCTGATGCAGCCCTATCTTAATC 58.740 47.826 0.00 0.00 0.00 1.75
5510 7998 3.009916 CCCTGATGCAGCCCTATCTTAAT 59.990 47.826 0.00 0.00 0.00 1.40
5511 7999 2.373169 CCCTGATGCAGCCCTATCTTAA 59.627 50.000 0.00 0.00 0.00 1.85
5512 8000 1.980765 CCCTGATGCAGCCCTATCTTA 59.019 52.381 0.00 0.00 0.00 2.10
5513 8001 0.769873 CCCTGATGCAGCCCTATCTT 59.230 55.000 0.00 0.00 0.00 2.40
5514 8002 1.132554 CCCCTGATGCAGCCCTATCT 61.133 60.000 0.00 0.00 0.00 1.98
5515 8003 1.377994 CCCCTGATGCAGCCCTATC 59.622 63.158 0.00 0.00 0.00 2.08
5516 8004 1.386485 ACCCCTGATGCAGCCCTAT 60.386 57.895 0.00 0.00 0.00 2.57
5517 8005 2.042762 ACCCCTGATGCAGCCCTA 59.957 61.111 0.00 0.00 0.00 3.53
5518 8006 3.415087 GACCCCTGATGCAGCCCT 61.415 66.667 0.00 0.00 0.00 5.19
5519 8007 3.711059 CTGACCCCTGATGCAGCCC 62.711 68.421 0.00 0.00 0.00 5.19
5520 8008 2.124403 CTGACCCCTGATGCAGCC 60.124 66.667 0.00 0.00 0.00 4.85
5521 8009 2.827642 GCTGACCCCTGATGCAGC 60.828 66.667 0.00 0.00 45.64 5.25
5522 8010 0.323178 AAAGCTGACCCCTGATGCAG 60.323 55.000 0.00 0.00 0.00 4.41
5523 8011 0.609957 CAAAGCTGACCCCTGATGCA 60.610 55.000 0.00 0.00 0.00 3.96
5524 8012 0.322816 TCAAAGCTGACCCCTGATGC 60.323 55.000 0.00 0.00 0.00 3.91
5525 8013 1.747709 CTCAAAGCTGACCCCTGATG 58.252 55.000 0.00 0.00 0.00 3.07
5526 8014 0.034670 GCTCAAAGCTGACCCCTGAT 60.035 55.000 0.00 0.00 38.45 2.90
5527 8015 1.376466 GCTCAAAGCTGACCCCTGA 59.624 57.895 0.00 0.00 38.45 3.86
5528 8016 1.676967 GGCTCAAAGCTGACCCCTG 60.677 63.158 0.00 0.00 41.99 4.45
5529 8017 2.759795 GGCTCAAAGCTGACCCCT 59.240 61.111 0.00 0.00 41.99 4.79
5530 8018 2.361737 GGGCTCAAAGCTGACCCC 60.362 66.667 0.00 0.00 39.76 4.95
5531 8019 0.328258 TAAGGGCTCAAAGCTGACCC 59.672 55.000 0.00 0.00 41.99 4.46
5532 8020 2.092699 AGATAAGGGCTCAAAGCTGACC 60.093 50.000 0.00 0.00 41.99 4.02
5533 8021 3.274095 AGATAAGGGCTCAAAGCTGAC 57.726 47.619 0.00 0.00 41.99 3.51
5534 8022 4.307032 AAAGATAAGGGCTCAAAGCTGA 57.693 40.909 0.00 0.00 41.99 4.26
5535 8023 5.166398 CAAAAAGATAAGGGCTCAAAGCTG 58.834 41.667 0.00 0.00 41.99 4.24
5536 8024 4.322273 GCAAAAAGATAAGGGCTCAAAGCT 60.322 41.667 0.00 0.00 41.99 3.74
5537 8025 3.928992 GCAAAAAGATAAGGGCTCAAAGC 59.071 43.478 0.00 0.00 41.46 3.51
5538 8026 5.138125 TGCAAAAAGATAAGGGCTCAAAG 57.862 39.130 0.00 0.00 0.00 2.77
5539 8027 5.743636 ATGCAAAAAGATAAGGGCTCAAA 57.256 34.783 0.00 0.00 0.00 2.69
5540 8028 5.481105 CAATGCAAAAAGATAAGGGCTCAA 58.519 37.500 0.00 0.00 0.00 3.02
5541 8029 4.081531 CCAATGCAAAAAGATAAGGGCTCA 60.082 41.667 0.00 0.00 0.00 4.26
5542 8030 4.081476 ACCAATGCAAAAAGATAAGGGCTC 60.081 41.667 0.00 0.00 0.00 4.70
5543 8031 3.840078 ACCAATGCAAAAAGATAAGGGCT 59.160 39.130 0.00 0.00 0.00 5.19
5544 8032 3.934579 CACCAATGCAAAAAGATAAGGGC 59.065 43.478 0.00 0.00 0.00 5.19
5545 8033 5.404466 TCACCAATGCAAAAAGATAAGGG 57.596 39.130 0.00 0.00 0.00 3.95
5546 8034 5.813672 CCATCACCAATGCAAAAAGATAAGG 59.186 40.000 0.00 0.00 33.71 2.69
5547 8035 6.632909 TCCATCACCAATGCAAAAAGATAAG 58.367 36.000 0.00 0.00 33.71 1.73
5548 8036 6.602410 TCCATCACCAATGCAAAAAGATAA 57.398 33.333 0.00 0.00 33.71 1.75
5549 8037 6.380560 TCATCCATCACCAATGCAAAAAGATA 59.619 34.615 0.00 0.00 33.71 1.98
5550 8038 5.188163 TCATCCATCACCAATGCAAAAAGAT 59.812 36.000 0.00 0.00 33.71 2.40
5551 8039 4.527427 TCATCCATCACCAATGCAAAAAGA 59.473 37.500 0.00 0.00 33.71 2.52
5552 8040 4.823157 TCATCCATCACCAATGCAAAAAG 58.177 39.130 0.00 0.00 33.71 2.27
5553 8041 4.322877 CCTCATCCATCACCAATGCAAAAA 60.323 41.667 0.00 0.00 33.71 1.94
5554 8042 3.196039 CCTCATCCATCACCAATGCAAAA 59.804 43.478 0.00 0.00 33.71 2.44
5555 8043 2.761767 CCTCATCCATCACCAATGCAAA 59.238 45.455 0.00 0.00 33.71 3.68
5556 8044 2.291735 ACCTCATCCATCACCAATGCAA 60.292 45.455 0.00 0.00 33.71 4.08
5557 8045 1.285667 ACCTCATCCATCACCAATGCA 59.714 47.619 0.00 0.00 33.71 3.96
5558 8046 1.952296 GACCTCATCCATCACCAATGC 59.048 52.381 0.00 0.00 33.71 3.56
5559 8047 2.947652 GTGACCTCATCCATCACCAATG 59.052 50.000 0.00 0.00 37.39 2.82
5560 8048 2.577563 TGTGACCTCATCCATCACCAAT 59.422 45.455 1.45 0.00 41.71 3.16
5561 8049 1.984424 TGTGACCTCATCCATCACCAA 59.016 47.619 1.45 0.00 41.71 3.67
5562 8050 1.655372 TGTGACCTCATCCATCACCA 58.345 50.000 1.45 0.00 41.71 4.17
5563 8051 2.237143 TCTTGTGACCTCATCCATCACC 59.763 50.000 1.45 0.00 41.71 4.02
5564 8052 3.196469 TCTCTTGTGACCTCATCCATCAC 59.804 47.826 0.00 0.00 42.54 3.06
5565 8053 3.444029 TCTCTTGTGACCTCATCCATCA 58.556 45.455 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.