Multiple sequence alignment - TraesCS5D01G309900

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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 TraesCS5D01G309900 chr5D 100.000 6342 0 0 1 6342 406607158 406600817 0.000000e+00 11712.0
1 TraesCS5D01G309900 chr5D 91.667 72 1 2 5893 5964 406601194 406601128 1.880000e-15 95.3
2 TraesCS5D01G309900 chr5D 91.667 72 1 2 5965 6031 406601266 406601195 1.880000e-15 95.3
3 TraesCS5D01G309900 chr5B 94.798 4229 139 35 1 4193 487712852 487708669 0.000000e+00 6516.0
4 TraesCS5D01G309900 chr5B 94.746 1656 71 10 4289 5932 487708636 487706985 0.000000e+00 2562.0
5 TraesCS5D01G309900 chr5B 89.106 358 30 2 746 1102 696005526 696005875 2.710000e-118 436.0
6 TraesCS5D01G309900 chr5A 93.365 4220 187 39 1 4181 512258563 512254398 0.000000e+00 6156.0
7 TraesCS5D01G309900 chr5A 94.277 1590 69 9 4393 5964 512254085 512252500 0.000000e+00 2412.0
8 TraesCS5D01G309900 chr5A 94.624 279 11 2 6064 6342 512252178 512251904 4.540000e-116 429.0
9 TraesCS5D01G309900 chr7B 75.694 1008 214 21 979 1977 229097464 229096479 5.750000e-130 475.0
10 TraesCS5D01G309900 chr7B 76.000 900 159 44 4415 5292 229094440 229093576 4.580000e-111 412.0
11 TraesCS5D01G309900 chr7D 75.595 1008 215 19 979 1977 252267044 252266059 2.680000e-128 470.0
12 TraesCS5D01G309900 chr7D 76.360 901 154 45 4415 5292 252263936 252263072 4.540000e-116 429.0
13 TraesCS5D01G309900 chr7A 89.665 358 28 2 746 1102 33681037 33680688 1.250000e-121 448.0
14 TraesCS5D01G309900 chr7A 75.361 901 169 41 4415 5292 268857290 268858160 9.970000e-103 385.0
15 TraesCS5D01G309900 chr1B 89.385 358 29 2 746 1102 655555775 655556124 5.840000e-120 442.0
16 TraesCS5D01G309900 chr1B 88.827 358 31 2 746 1102 113972146 113972495 1.260000e-116 431.0
17 TraesCS5D01G309900 chr1B 94.643 56 3 0 1194 1249 586692672 586692617 3.150000e-13 87.9
18 TraesCS5D01G309900 chr6A 89.106 358 30 2 746 1102 77371540 77371889 2.710000e-118 436.0
19 TraesCS5D01G309900 chr3B 88.827 358 31 2 746 1102 753290204 753290553 1.260000e-116 431.0
20 TraesCS5D01G309900 chr2A 88.579 359 31 3 746 1102 664901247 664901597 1.630000e-115 427.0
21 TraesCS5D01G309900 chr4A 85.000 200 28 2 2672 2871 7124807 7125004 1.080000e-47 202.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G309900 chr5D 406600817 406607158 6341 True 11712.0 11712 100.000000 1 6342 1 chr5D.!!$R1 6341
1 TraesCS5D01G309900 chr5B 487706985 487712852 5867 True 4539.0 6516 94.772000 1 5932 2 chr5B.!!$R1 5931
2 TraesCS5D01G309900 chr5A 512251904 512258563 6659 True 2999.0 6156 94.088667 1 6342 3 chr5A.!!$R1 6341
3 TraesCS5D01G309900 chr7B 229093576 229097464 3888 True 443.5 475 75.847000 979 5292 2 chr7B.!!$R1 4313
4 TraesCS5D01G309900 chr7D 252263072 252267044 3972 True 449.5 470 75.977500 979 5292 2 chr7D.!!$R1 4313
5 TraesCS5D01G309900 chr7A 268857290 268858160 870 False 385.0 385 75.361000 4415 5292 1 chr7A.!!$F1 877

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
27 28 0.034616 GGAGCGCCATGAGCTAGATT 59.965 55.000 14.18 0.00 46.13 2.40 F
440 460 0.401738 CTTTCTCCTTCCCTGCACCA 59.598 55.000 0.00 0.00 0.00 4.17 F
463 483 0.613012 AATTGAGTTCCTGGCAGCCC 60.613 55.000 9.64 0.00 0.00 5.19 F
1335 1367 0.249120 CTGGCCGTCATCCTTGTGTA 59.751 55.000 0.00 0.00 0.00 2.90 F
2472 2513 0.534203 TCCTCCGTCACTTGCCAAAC 60.534 55.000 0.00 0.00 0.00 2.93 F
3101 3556 1.000607 CCAAGCATGCACAGATATGGC 60.001 52.381 21.98 0.00 0.00 4.40 F
3442 4059 2.491152 CCGTTCATGTGGCATGCC 59.509 61.111 30.54 30.54 0.00 4.40 F
4247 4882 1.962807 CCCTGCAGGAAAAATGTGACA 59.037 47.619 34.91 0.00 38.24 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1185 1217 1.062428 TCCTCGGGAAGGGTCACATAT 60.062 52.381 0.00 0.0 46.23 1.78 R
1335 1367 1.464198 AAGGTCCTCAGGGTTGCCT 60.464 57.895 0.00 0.0 34.12 4.75 R
1548 1580 3.378112 TCAAAGCCTGTTTTGACAGTGAG 59.622 43.478 5.23 0.0 40.95 3.51 R
2811 3256 2.646930 TGATCATCACATCACAAGGCC 58.353 47.619 0.00 0.0 0.00 5.19 R
3619 4240 1.377333 GCTAGGTTCCACCAGCACC 60.377 63.158 10.62 0.0 41.95 5.01 R
4215 4850 1.415659 CCTGCAGGGTAGGAGATCAAG 59.584 57.143 26.14 0.0 37.52 3.02 R
4294 4944 2.029649 ACAACTCGTATGGTAACTGCGT 60.030 45.455 0.00 0.0 37.61 5.24 R
6018 6827 0.397535 TCGGACCCGGTATTTAGGCT 60.398 55.000 8.73 0.0 40.25 4.58 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.006337 GAGGAGCGCCATGAGCTAG 60.006 63.158 9.88 0.00 46.13 3.42
26 27 0.831288 AGGAGCGCCATGAGCTAGAT 60.831 55.000 9.88 0.00 46.13 1.98
27 28 0.034616 GGAGCGCCATGAGCTAGATT 59.965 55.000 14.18 0.00 46.13 2.40
28 29 1.273606 GGAGCGCCATGAGCTAGATTA 59.726 52.381 14.18 0.00 46.13 1.75
426 446 0.535335 CAATGGCATGGCAGCTTTCT 59.465 50.000 27.02 6.54 34.17 2.52
439 459 0.962855 GCTTTCTCCTTCCCTGCACC 60.963 60.000 0.00 0.00 0.00 5.01
440 460 0.401738 CTTTCTCCTTCCCTGCACCA 59.598 55.000 0.00 0.00 0.00 4.17
463 483 0.613012 AATTGAGTTCCTGGCAGCCC 60.613 55.000 9.64 0.00 0.00 5.19
484 504 3.000727 CCAGTTCTCGCGTAATCCTTTT 58.999 45.455 5.77 0.00 0.00 2.27
487 507 5.220416 CCAGTTCTCGCGTAATCCTTTTAAG 60.220 44.000 5.77 0.00 0.00 1.85
488 508 5.347907 CAGTTCTCGCGTAATCCTTTTAAGT 59.652 40.000 5.77 0.00 0.00 2.24
489 509 5.347907 AGTTCTCGCGTAATCCTTTTAAGTG 59.652 40.000 5.77 0.00 0.00 3.16
490 510 5.063180 TCTCGCGTAATCCTTTTAAGTGA 57.937 39.130 5.77 0.00 0.00 3.41
492 512 6.103997 TCTCGCGTAATCCTTTTAAGTGATT 58.896 36.000 5.77 9.55 33.51 2.57
493 513 6.035650 TCTCGCGTAATCCTTTTAAGTGATTG 59.964 38.462 5.77 3.59 32.23 2.67
496 522 4.728608 CGTAATCCTTTTAAGTGATTGCGC 59.271 41.667 19.63 0.00 40.59 6.09
517 543 2.676076 GCTGTTTTGCCATGTTACTGG 58.324 47.619 0.00 0.00 39.45 4.00
532 558 4.081309 TGTTACTGGTACTGTTGGATAGGC 60.081 45.833 0.00 0.00 41.74 3.93
562 588 4.631234 TCATTTTCTCCCCTCCTTAGCTA 58.369 43.478 0.00 0.00 0.00 3.32
578 604 5.692204 CCTTAGCTATCGTTGTTATCACTGG 59.308 44.000 0.00 0.00 0.00 4.00
594 620 4.991776 TCACTGGAATTATTGGGTCACAA 58.008 39.130 0.00 0.00 44.54 3.33
679 706 2.794350 GGGTGTGATTTTTCACTTTGCG 59.206 45.455 7.55 0.00 40.97 4.85
684 711 4.560819 TGTGATTTTTCACTTTGCGTTGTC 59.439 37.500 7.55 0.00 40.97 3.18
695 722 4.943705 ACTTTGCGTTGTCAATCCATATCT 59.056 37.500 0.00 0.00 0.00 1.98
696 723 4.880886 TTGCGTTGTCAATCCATATCTG 57.119 40.909 0.00 0.00 0.00 2.90
697 724 4.135747 TGCGTTGTCAATCCATATCTGA 57.864 40.909 0.00 0.00 0.00 3.27
699 726 5.852827 TGCGTTGTCAATCCATATCTGATA 58.147 37.500 0.00 0.00 0.00 2.15
826 856 5.982890 AAAGTTGCAGCCATTACTGTAAT 57.017 34.783 7.22 7.22 42.88 1.89
955 987 6.815641 ACTTGTGTGATTATCTAACTGCTGAG 59.184 38.462 0.00 0.00 0.00 3.35
1185 1217 2.379634 CGATTCTTCGCACGCCACA 61.380 57.895 0.00 0.00 38.75 4.17
1260 1292 3.010584 AGTTAGGGCAGTTCATCCATGTT 59.989 43.478 0.00 0.00 0.00 2.71
1335 1367 0.249120 CTGGCCGTCATCCTTGTGTA 59.751 55.000 0.00 0.00 0.00 2.90
1344 1376 1.004745 CATCCTTGTGTAGGCAACCCT 59.995 52.381 0.00 0.00 44.37 4.34
1548 1580 3.588955 GGTGCTGACCAAATCAAAATCC 58.411 45.455 0.00 0.00 42.59 3.01
2194 2229 7.817418 AACTTTGCTAATCCTGTTGTTCTTA 57.183 32.000 0.00 0.00 0.00 2.10
2472 2513 0.534203 TCCTCCGTCACTTGCCAAAC 60.534 55.000 0.00 0.00 0.00 2.93
2503 2544 8.498054 AAGGTATGACTAAGTTCATTGACATG 57.502 34.615 0.00 0.00 37.42 3.21
2504 2545 7.851228 AGGTATGACTAAGTTCATTGACATGA 58.149 34.615 0.00 0.00 37.42 3.07
2505 2546 8.321353 AGGTATGACTAAGTTCATTGACATGAA 58.679 33.333 0.00 0.00 45.54 2.57
2659 2991 9.952341 GTGAGAAGTTTGTTGTAAAATGTTTTC 57.048 29.630 0.00 0.00 0.00 2.29
2811 3256 3.325135 AGGTACCTTTCTTCCAGACACTG 59.675 47.826 9.21 0.00 0.00 3.66
2827 3277 1.471287 CACTGGCCTTGTGATGTGATG 59.529 52.381 19.98 0.00 37.60 3.07
2876 3326 5.957842 TTCGTTGCTAAATGACTTCCATT 57.042 34.783 0.00 0.00 46.86 3.16
2973 3428 7.446931 TCCAGAAAATAGTGTCTGCATGTTAAA 59.553 33.333 4.77 0.00 40.01 1.52
2974 3429 8.246180 CCAGAAAATAGTGTCTGCATGTTAAAT 58.754 33.333 4.77 0.00 40.01 1.40
3002 3457 1.547372 GATGGAACCACATGCTTTGCT 59.453 47.619 0.00 0.00 0.00 3.91
3098 3553 6.570672 CTTTATCCAAGCATGCACAGATAT 57.429 37.500 21.98 7.88 0.00 1.63
3101 3556 1.000607 CCAAGCATGCACAGATATGGC 60.001 52.381 21.98 0.00 0.00 4.40
3111 3566 3.316029 GCACAGATATGGCAGCAAATACA 59.684 43.478 0.00 0.00 0.00 2.29
3120 3575 9.918630 GATATGGCAGCAAATACAATTCTATTT 57.081 29.630 0.00 0.00 0.00 1.40
3122 3577 6.339730 TGGCAGCAAATACAATTCTATTTGG 58.660 36.000 20.82 10.94 41.50 3.28
3123 3578 5.754890 GGCAGCAAATACAATTCTATTTGGG 59.245 40.000 20.82 4.56 41.50 4.12
3126 3581 8.143835 GCAGCAAATACAATTCTATTTGGGTAT 58.856 33.333 20.82 2.71 41.50 2.73
3129 3584 9.607285 GCAAATACAATTCTATTTGGGTATACG 57.393 33.333 20.82 1.87 41.50 3.06
3130 3585 9.607285 CAAATACAATTCTATTTGGGTATACGC 57.393 33.333 14.90 12.77 39.17 4.42
3131 3586 9.569122 AAATACAATTCTATTTGGGTATACGCT 57.431 29.630 19.42 3.76 0.00 5.07
3132 3587 9.569122 AATACAATTCTATTTGGGTATACGCTT 57.431 29.630 19.42 8.25 0.00 4.68
3133 3588 7.492352 ACAATTCTATTTGGGTATACGCTTC 57.508 36.000 19.42 0.24 0.00 3.86
3134 3589 7.051623 ACAATTCTATTTGGGTATACGCTTCA 58.948 34.615 19.42 5.34 0.00 3.02
3135 3590 7.226720 ACAATTCTATTTGGGTATACGCTTCAG 59.773 37.037 19.42 11.57 0.00 3.02
3136 3591 4.628074 TCTATTTGGGTATACGCTTCAGC 58.372 43.478 19.42 0.00 37.78 4.26
3137 3592 3.560636 ATTTGGGTATACGCTTCAGCT 57.439 42.857 19.42 0.00 39.32 4.24
3138 3593 3.343941 TTTGGGTATACGCTTCAGCTT 57.656 42.857 19.42 0.00 39.32 3.74
3139 3594 4.475051 TTTGGGTATACGCTTCAGCTTA 57.525 40.909 19.42 0.00 39.32 3.09
3140 3595 4.682778 TTGGGTATACGCTTCAGCTTAT 57.317 40.909 19.42 3.55 38.70 1.73
3141 3596 5.794726 TTGGGTATACGCTTCAGCTTATA 57.205 39.130 19.42 1.81 36.90 0.98
3142 3597 5.995565 TGGGTATACGCTTCAGCTTATAT 57.004 39.130 19.42 1.80 39.08 0.86
3143 3598 6.354794 TGGGTATACGCTTCAGCTTATATT 57.645 37.500 19.42 0.00 39.08 1.28
3144 3599 7.470935 TGGGTATACGCTTCAGCTTATATTA 57.529 36.000 19.42 0.00 39.08 0.98
3145 3600 7.544622 TGGGTATACGCTTCAGCTTATATTAG 58.455 38.462 19.42 0.00 39.08 1.73
3146 3601 7.177921 TGGGTATACGCTTCAGCTTATATTAGT 59.822 37.037 19.42 0.00 39.08 2.24
3147 3602 8.033626 GGGTATACGCTTCAGCTTATATTAGTT 58.966 37.037 12.42 0.00 39.08 2.24
3148 3603 9.074443 GGTATACGCTTCAGCTTATATTAGTTC 57.926 37.037 7.95 0.00 39.08 3.01
3149 3604 9.622004 GTATACGCTTCAGCTTATATTAGTTCA 57.378 33.333 7.95 0.00 39.08 3.18
3436 4053 2.693762 CCTGCTGCCGTTCATGTGG 61.694 63.158 0.00 0.00 0.00 4.17
3442 4059 2.491152 CCGTTCATGTGGCATGCC 59.509 61.111 30.54 30.54 0.00 4.40
3537 4154 2.881539 TAGCTGTCCTGCATGCTGCC 62.882 60.000 20.33 11.76 44.23 4.85
3619 4240 4.125703 GCCATCTTTGTGTAGAGATCTGG 58.874 47.826 0.00 0.00 30.43 3.86
3674 4297 6.609616 ACCAAACCAGAATTAACTTCCAGAAA 59.390 34.615 0.00 0.00 34.11 2.52
3691 4314 9.658799 CTTCCAGAAATTTAAGTACATCTCTCA 57.341 33.333 0.00 0.00 0.00 3.27
3745 4368 6.595716 ACAGCTGAAGTTCATAACCATCTTAC 59.404 38.462 23.35 0.00 0.00 2.34
4207 4842 9.139174 CACAACTGTGTTTGAAAGTAAAATCTT 57.861 29.630 1.51 0.00 40.96 2.40
4225 4860 7.951347 AAATCTTAAATGCACTTGATCTCCT 57.049 32.000 0.00 0.00 0.00 3.69
4228 4863 6.349300 TCTTAAATGCACTTGATCTCCTACC 58.651 40.000 0.00 0.00 0.00 3.18
4241 4876 2.919602 TCTCCTACCCTGCAGGAAAAAT 59.080 45.455 34.91 15.45 41.66 1.82
4244 4879 2.493278 CCTACCCTGCAGGAAAAATGTG 59.507 50.000 34.91 16.70 39.89 3.21
4247 4882 1.962807 CCCTGCAGGAAAAATGTGACA 59.037 47.619 34.91 0.00 38.24 3.58
4248 4883 2.288395 CCCTGCAGGAAAAATGTGACAC 60.288 50.000 34.91 0.00 38.24 3.67
4249 4884 2.624838 CCTGCAGGAAAAATGTGACACT 59.375 45.455 29.88 0.00 37.39 3.55
4250 4885 3.820467 CCTGCAGGAAAAATGTGACACTA 59.180 43.478 29.88 0.00 37.39 2.74
4254 4889 5.534278 TGCAGGAAAAATGTGACACTATCAA 59.466 36.000 7.20 0.00 39.72 2.57
4255 4890 5.858581 GCAGGAAAAATGTGACACTATCAAC 59.141 40.000 7.20 0.00 39.72 3.18
4256 4891 6.294176 GCAGGAAAAATGTGACACTATCAACT 60.294 38.462 7.20 0.00 39.72 3.16
4271 4921 7.126421 ACACTATCAACTATCAAGTCCTGGAAT 59.874 37.037 0.00 0.00 33.75 3.01
4272 4922 7.989741 CACTATCAACTATCAAGTCCTGGAATT 59.010 37.037 3.08 3.08 33.75 2.17
4273 4923 8.552296 ACTATCAACTATCAAGTCCTGGAATTT 58.448 33.333 6.66 0.00 33.75 1.82
4274 4924 9.401058 CTATCAACTATCAAGTCCTGGAATTTT 57.599 33.333 6.66 0.70 33.75 1.82
4275 4925 8.655935 ATCAACTATCAAGTCCTGGAATTTTT 57.344 30.769 6.66 0.34 33.75 1.94
4296 4946 3.728076 TGCTGATAGGCCTTTACTACG 57.272 47.619 12.58 0.00 0.00 3.51
4298 4948 2.223971 GCTGATAGGCCTTTACTACGCA 60.224 50.000 12.58 0.00 0.00 5.24
4307 4957 4.441913 GGCCTTTACTACGCAGTTACCATA 60.442 45.833 0.00 0.00 37.78 2.74
4308 4958 4.505556 GCCTTTACTACGCAGTTACCATAC 59.494 45.833 0.00 0.00 37.78 2.39
4312 4962 3.012518 ACTACGCAGTTACCATACGAGT 58.987 45.455 0.00 0.00 37.78 4.18
4319 5068 5.107133 GCAGTTACCATACGAGTTGTACAT 58.893 41.667 0.00 0.00 35.44 2.29
4322 5071 7.360607 GCAGTTACCATACGAGTTGTACATTTT 60.361 37.037 0.00 0.00 35.44 1.82
4330 5079 6.913873 ACGAGTTGTACATTTTTACAGTGT 57.086 33.333 0.00 0.00 33.50 3.55
4331 5080 7.311364 ACGAGTTGTACATTTTTACAGTGTT 57.689 32.000 0.00 0.00 33.50 3.32
4354 5103 5.662211 ATGTTTGTTCTGATTTTGCTTGC 57.338 34.783 0.00 0.00 0.00 4.01
4362 5111 6.985645 TGTTCTGATTTTGCTTGCATTTTAGT 59.014 30.769 0.00 0.00 0.00 2.24
4364 5113 7.642071 TCTGATTTTGCTTGCATTTTAGTTC 57.358 32.000 0.00 0.00 0.00 3.01
4381 5130 6.887376 TTAGTTCTACGTCATGATTTGAGC 57.113 37.500 0.00 0.00 34.17 4.26
4391 5140 1.246649 TGATTTGAGCAATGTGGCGT 58.753 45.000 0.00 0.00 39.27 5.68
4392 5141 1.068402 TGATTTGAGCAATGTGGCGTG 60.068 47.619 0.00 0.00 39.27 5.34
4560 5327 1.056700 ACCCTCACCAAGTCAGCAGT 61.057 55.000 0.00 0.00 0.00 4.40
5349 6146 0.314302 AAGAAGTCGTGACCCGTGAG 59.686 55.000 0.00 0.00 37.94 3.51
5510 6318 3.954258 CCTCTTCTCCTCTTCCTCTCTTC 59.046 52.174 0.00 0.00 0.00 2.87
5525 6333 4.214332 CCTCTCTTCCCGTTCAAGAAAAAG 59.786 45.833 0.00 0.00 29.36 2.27
5529 6337 6.376018 TCTCTTCCCGTTCAAGAAAAAGAAAA 59.624 34.615 0.00 0.00 29.36 2.29
5624 6432 8.618702 ATGTTGATTGGATAGCTTGAATCTAG 57.381 34.615 0.00 0.00 0.00 2.43
5725 6534 3.544285 GTGTCGTCTGATGATCGTTTCTC 59.456 47.826 2.42 0.00 0.00 2.87
5780 6589 5.189180 AGACTTATTTGGTTGGCATCTCTC 58.811 41.667 0.00 0.00 0.00 3.20
5849 6658 9.699703 TTAGGGCAAATAAAAATGTTACACTTC 57.300 29.630 0.00 0.00 0.00 3.01
5901 6710 3.199289 TCTGCATGGTGATCTCTTGTCAT 59.801 43.478 0.00 0.00 0.00 3.06
5902 6711 3.945921 CTGCATGGTGATCTCTTGTCATT 59.054 43.478 0.00 0.00 0.00 2.57
5954 6763 5.067805 CCCAACTCCATTTGTATAAGAAGCC 59.932 44.000 0.00 0.00 0.00 4.35
5955 6764 5.888161 CCAACTCCATTTGTATAAGAAGCCT 59.112 40.000 0.00 0.00 0.00 4.58
5956 6765 7.054124 CCAACTCCATTTGTATAAGAAGCCTA 58.946 38.462 0.00 0.00 0.00 3.93
5957 6766 7.556275 CCAACTCCATTTGTATAAGAAGCCTAA 59.444 37.037 0.00 0.00 0.00 2.69
5958 6767 8.956426 CAACTCCATTTGTATAAGAAGCCTAAA 58.044 33.333 0.00 0.00 0.00 1.85
5959 6768 9.700831 AACTCCATTTGTATAAGAAGCCTAAAT 57.299 29.630 0.00 0.00 0.00 1.40
5962 6771 9.569122 TCCATTTGTATAAGAAGCCTAAATACC 57.431 33.333 0.00 0.00 0.00 2.73
5963 6772 8.504005 CCATTTGTATAAGAAGCCTAAATACCG 58.496 37.037 0.00 0.00 0.00 4.02
5964 6773 7.486802 TTTGTATAAGAAGCCTAAATACCGC 57.513 36.000 0.00 0.00 0.00 5.68
5965 6774 6.415206 TGTATAAGAAGCCTAAATACCGCT 57.585 37.500 0.00 0.00 0.00 5.52
5966 6775 6.453092 TGTATAAGAAGCCTAAATACCGCTC 58.547 40.000 0.00 0.00 30.92 5.03
5967 6776 5.810080 ATAAGAAGCCTAAATACCGCTCT 57.190 39.130 0.00 0.00 30.92 4.09
5968 6777 4.489306 AAGAAGCCTAAATACCGCTCTT 57.511 40.909 0.00 0.00 30.92 2.85
5969 6778 3.798202 AGAAGCCTAAATACCGCTCTTG 58.202 45.455 0.00 0.00 30.92 3.02
5970 6779 3.197983 AGAAGCCTAAATACCGCTCTTGT 59.802 43.478 0.00 0.00 30.92 3.16
5971 6780 3.180891 AGCCTAAATACCGCTCTTGTC 57.819 47.619 0.00 0.00 0.00 3.18
5972 6781 2.500098 AGCCTAAATACCGCTCTTGTCA 59.500 45.455 0.00 0.00 0.00 3.58
5973 6782 3.134804 AGCCTAAATACCGCTCTTGTCAT 59.865 43.478 0.00 0.00 0.00 3.06
5974 6783 3.877508 GCCTAAATACCGCTCTTGTCATT 59.122 43.478 0.00 0.00 0.00 2.57
5975 6784 4.335594 GCCTAAATACCGCTCTTGTCATTT 59.664 41.667 0.00 0.00 0.00 2.32
5976 6785 5.163652 GCCTAAATACCGCTCTTGTCATTTT 60.164 40.000 0.00 0.00 0.00 1.82
5977 6786 6.625081 GCCTAAATACCGCTCTTGTCATTTTT 60.625 38.462 0.00 0.00 0.00 1.94
6004 6813 2.835895 GGAGAGCTCCCCCGACTC 60.836 72.222 10.93 0.00 43.94 3.36
6005 6814 2.835895 GAGAGCTCCCCCGACTCC 60.836 72.222 10.93 0.00 0.00 3.85
6006 6815 3.663815 GAGAGCTCCCCCGACTCCA 62.664 68.421 10.93 0.00 0.00 3.86
6007 6816 2.444895 GAGCTCCCCCGACTCCAT 60.445 66.667 0.87 0.00 0.00 3.41
6008 6817 2.041265 AGCTCCCCCGACTCCATT 59.959 61.111 0.00 0.00 0.00 3.16
6009 6818 1.616628 AGCTCCCCCGACTCCATTT 60.617 57.895 0.00 0.00 0.00 2.32
6010 6819 1.452108 GCTCCCCCGACTCCATTTG 60.452 63.158 0.00 0.00 0.00 2.32
6011 6820 1.991230 CTCCCCCGACTCCATTTGT 59.009 57.895 0.00 0.00 0.00 2.83
6012 6821 1.200519 CTCCCCCGACTCCATTTGTA 58.799 55.000 0.00 0.00 0.00 2.41
6013 6822 1.768870 CTCCCCCGACTCCATTTGTAT 59.231 52.381 0.00 0.00 0.00 2.29
6014 6823 2.969950 CTCCCCCGACTCCATTTGTATA 59.030 50.000 0.00 0.00 0.00 1.47
6015 6824 3.386063 TCCCCCGACTCCATTTGTATAA 58.614 45.455 0.00 0.00 0.00 0.98
6016 6825 3.389983 TCCCCCGACTCCATTTGTATAAG 59.610 47.826 0.00 0.00 0.00 1.73
6017 6826 3.389983 CCCCCGACTCCATTTGTATAAGA 59.610 47.826 0.00 0.00 0.00 2.10
6018 6827 4.141574 CCCCCGACTCCATTTGTATAAGAA 60.142 45.833 0.00 0.00 0.00 2.52
6019 6828 5.057149 CCCCGACTCCATTTGTATAAGAAG 58.943 45.833 0.00 0.00 0.00 2.85
6020 6829 4.511826 CCCGACTCCATTTGTATAAGAAGC 59.488 45.833 0.00 0.00 0.00 3.86
6023 6832 6.462487 CCGACTCCATTTGTATAAGAAGCCTA 60.462 42.308 0.00 0.00 0.00 3.93
6035 6844 1.767088 AGAAGCCTAAATACCGGGTCC 59.233 52.381 6.32 0.00 0.00 4.46
6061 6870 3.824443 ACAAGGGTCCAAAAACCTTATCG 59.176 43.478 0.00 0.00 42.46 2.92
6062 6871 3.081710 AGGGTCCAAAAACCTTATCGG 57.918 47.619 0.00 0.00 39.42 4.18
6187 7285 4.637387 ATTCTCTAGGCCATCATCCTTG 57.363 45.455 5.01 0.00 35.21 3.61
6193 7291 0.548031 GGCCATCATCCTTGGAGTCA 59.452 55.000 0.00 0.00 36.26 3.41
6198 7296 1.198713 TCATCCTTGGAGTCAGAGGC 58.801 55.000 6.23 0.00 0.00 4.70
6225 7323 4.686972 CACTTCCATACGAGATGTCACAT 58.313 43.478 0.00 0.00 0.00 3.21
6266 7364 8.464404 CATGACTTGTGTTTTCATATCTCCAAT 58.536 33.333 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.583054 AGGCTCGAACGGCAATAATC 58.417 50.000 1.07 0.00 0.00 1.75
26 27 1.365699 GAAGGCTCGAACGGCAATAA 58.634 50.000 1.07 0.00 0.00 1.40
27 28 3.059603 GAAGGCTCGAACGGCAATA 57.940 52.632 1.07 0.00 0.00 1.90
28 29 3.890674 GAAGGCTCGAACGGCAAT 58.109 55.556 1.07 0.00 0.00 3.56
73 74 4.918201 CCAATCGGGAGCGGAGGC 62.918 72.222 0.00 0.00 40.01 4.70
74 75 4.918201 GCCAATCGGGAGCGGAGG 62.918 72.222 0.00 0.00 40.01 4.30
426 446 1.367346 TTATGTGGTGCAGGGAAGGA 58.633 50.000 0.00 0.00 0.00 3.36
439 459 3.181493 GCTGCCAGGAACTCAATTATGTG 60.181 47.826 0.00 0.00 34.60 3.21
440 460 3.019564 GCTGCCAGGAACTCAATTATGT 58.980 45.455 0.00 0.00 34.60 2.29
463 483 2.295253 AAGGATTACGCGAGAACTGG 57.705 50.000 15.93 0.00 0.00 4.00
474 494 4.728608 CGCGCAATCACTTAAAAGGATTAC 59.271 41.667 8.75 2.38 30.22 1.89
484 504 0.871722 AAACAGCGCGCAATCACTTA 59.128 45.000 35.10 0.00 0.00 2.24
487 507 1.768603 CAAAACAGCGCGCAATCAC 59.231 52.632 35.10 1.61 0.00 3.06
488 508 2.015627 GCAAAACAGCGCGCAATCA 61.016 52.632 35.10 0.00 0.00 2.57
489 509 2.719774 GGCAAAACAGCGCGCAATC 61.720 57.895 35.10 13.84 34.64 2.67
490 510 2.734346 GGCAAAACAGCGCGCAAT 60.734 55.556 35.10 18.42 34.64 3.56
492 512 3.976000 ATGGCAAAACAGCGCGCA 61.976 55.556 35.10 9.50 34.64 6.09
493 513 3.472298 CATGGCAAAACAGCGCGC 61.472 61.111 26.66 26.66 34.64 6.86
496 522 2.318578 CAGTAACATGGCAAAACAGCG 58.681 47.619 0.00 0.00 34.64 5.18
517 543 2.190981 CGAACGCCTATCCAACAGTAC 58.809 52.381 0.00 0.00 0.00 2.73
532 558 1.064060 GGGGAGAAAATGATGCGAACG 59.936 52.381 0.00 0.00 0.00 3.95
562 588 7.013274 CCCAATAATTCCAGTGATAACAACGAT 59.987 37.037 0.00 0.00 0.00 3.73
578 604 3.509575 TGGTGCTTGTGACCCAATAATTC 59.490 43.478 0.00 0.00 31.84 2.17
594 620 0.327924 TCCACGGAATCATTGGTGCT 59.672 50.000 0.13 0.00 0.00 4.40
695 722 9.309516 GTACCATCGTTCAGAGTTTAATTATCA 57.690 33.333 0.00 0.00 0.00 2.15
696 723 9.530633 AGTACCATCGTTCAGAGTTTAATTATC 57.469 33.333 0.00 0.00 0.00 1.75
699 726 7.763071 GGTAGTACCATCGTTCAGAGTTTAATT 59.237 37.037 14.82 0.00 38.42 1.40
713 740 1.671979 TCTCCACGGTAGTACCATCG 58.328 55.000 19.41 7.91 38.47 3.84
826 856 5.126869 TCAAAAGTGAAAGCAATGAACCTGA 59.873 36.000 0.00 0.00 0.00 3.86
955 987 3.321497 ACTCTGCGATGTTCAAAGAGAC 58.679 45.455 5.07 0.00 38.19 3.36
1185 1217 1.062428 TCCTCGGGAAGGGTCACATAT 60.062 52.381 0.00 0.00 46.23 1.78
1335 1367 1.464198 AAGGTCCTCAGGGTTGCCT 60.464 57.895 0.00 0.00 34.12 4.75
1344 1376 3.901844 AGCTAGTTAACACAAGGTCCTCA 59.098 43.478 8.61 0.00 0.00 3.86
1548 1580 3.378112 TCAAAGCCTGTTTTGACAGTGAG 59.622 43.478 5.23 0.00 40.95 3.51
2194 2229 5.221621 GGCTTTCTTCTAGGAGTCTGCATAT 60.222 44.000 0.00 0.00 0.00 1.78
2472 2513 9.319143 CAATGAACTTAGTCATACCTTTCCTAG 57.681 37.037 0.00 0.00 37.25 3.02
2507 2548 9.679661 TGTACAATAAAACCATACTGATCATGT 57.320 29.630 0.00 0.00 0.00 3.21
2508 2549 9.935682 GTGTACAATAAAACCATACTGATCATG 57.064 33.333 0.00 0.00 0.00 3.07
2509 2550 9.905713 AGTGTACAATAAAACCATACTGATCAT 57.094 29.630 0.00 0.00 0.00 2.45
2640 2971 8.315341 CAGGTACGAAAACATTTTACAACAAAC 58.685 33.333 0.00 0.00 0.00 2.93
2811 3256 2.646930 TGATCATCACATCACAAGGCC 58.353 47.619 0.00 0.00 0.00 5.19
2973 3428 6.367983 AGCATGTGGTTCCATCAAAGTATAT 58.632 36.000 0.00 0.00 0.00 0.86
2974 3429 5.754782 AGCATGTGGTTCCATCAAAGTATA 58.245 37.500 0.00 0.00 0.00 1.47
3098 3553 6.339730 CCAAATAGAATTGTATTTGCTGCCA 58.660 36.000 29.45 0.00 44.16 4.92
3111 3566 6.204882 GCTGAAGCGTATACCCAAATAGAATT 59.795 38.462 0.00 0.00 0.00 2.17
3120 3575 5.995565 ATATAAGCTGAAGCGTATACCCA 57.004 39.130 16.72 1.72 45.60 4.51
3122 3577 8.983307 AACTAATATAAGCTGAAGCGTATACC 57.017 34.615 16.72 0.00 45.60 2.73
3123 3578 9.622004 TGAACTAATATAAGCTGAAGCGTATAC 57.378 33.333 16.72 7.05 45.60 1.47
3150 3605 9.504708 TGAATCCATCACAAAATTTGCTAATTT 57.495 25.926 12.26 12.26 38.06 1.82
3436 4053 3.407046 GAGCGCAAAGGAGGCATGC 62.407 63.158 11.47 9.90 36.74 4.06
3471 4088 3.204382 ACCAACGGGGAATTAATGATCCT 59.796 43.478 6.21 0.00 41.15 3.24
3472 4089 3.562182 ACCAACGGGGAATTAATGATCC 58.438 45.455 2.06 0.00 41.15 3.36
3537 4154 3.434641 CGAGCTGGGTTGATAGCATTATG 59.565 47.826 0.00 0.00 42.29 1.90
3619 4240 1.377333 GCTAGGTTCCACCAGCACC 60.377 63.158 10.62 0.00 41.95 5.01
3691 4314 8.169977 TCAGCTTTCACAATCTTTCAGTTTAT 57.830 30.769 0.00 0.00 0.00 1.40
3759 4382 5.102953 TCTAGCACAGCCTAATTGACAAT 57.897 39.130 0.00 0.00 0.00 2.71
4202 4837 7.500559 GGTAGGAGATCAAGTGCATTTAAGATT 59.499 37.037 0.00 0.00 0.00 2.40
4204 4839 6.349300 GGTAGGAGATCAAGTGCATTTAAGA 58.651 40.000 0.00 0.00 0.00 2.10
4207 4842 4.721776 AGGGTAGGAGATCAAGTGCATTTA 59.278 41.667 0.00 0.00 0.00 1.40
4208 4843 3.525199 AGGGTAGGAGATCAAGTGCATTT 59.475 43.478 0.00 0.00 0.00 2.32
4210 4845 2.437281 CAGGGTAGGAGATCAAGTGCAT 59.563 50.000 0.00 0.00 0.00 3.96
4215 4850 1.415659 CCTGCAGGGTAGGAGATCAAG 59.584 57.143 26.14 0.00 37.52 3.02
4222 4857 2.378547 ACATTTTTCCTGCAGGGTAGGA 59.621 45.455 32.23 15.06 42.43 2.94
4223 4858 2.493278 CACATTTTTCCTGCAGGGTAGG 59.507 50.000 32.23 18.44 36.63 3.18
4225 4860 3.153919 GTCACATTTTTCCTGCAGGGTA 58.846 45.455 32.23 17.97 36.25 3.69
4228 4863 2.624838 AGTGTCACATTTTTCCTGCAGG 59.375 45.455 27.87 27.87 0.00 4.85
4241 4876 6.437477 AGGACTTGATAGTTGATAGTGTCACA 59.563 38.462 5.62 0.00 36.32 3.58
4244 4879 6.096987 TCCAGGACTTGATAGTTGATAGTGTC 59.903 42.308 0.00 0.00 33.84 3.67
4247 4882 7.682787 ATTCCAGGACTTGATAGTTGATAGT 57.317 36.000 0.00 0.00 33.84 2.12
4248 4883 8.970859 AAATTCCAGGACTTGATAGTTGATAG 57.029 34.615 0.00 0.00 33.84 2.08
4249 4884 9.753674 AAAAATTCCAGGACTTGATAGTTGATA 57.246 29.630 0.00 0.00 33.84 2.15
4250 4885 8.655935 AAAAATTCCAGGACTTGATAGTTGAT 57.344 30.769 0.00 0.00 33.84 2.57
4272 4922 5.353123 CGTAGTAAAGGCCTATCAGCAAAAA 59.647 40.000 5.16 0.00 0.00 1.94
4273 4923 4.873827 CGTAGTAAAGGCCTATCAGCAAAA 59.126 41.667 5.16 0.00 0.00 2.44
4274 4924 4.439057 CGTAGTAAAGGCCTATCAGCAAA 58.561 43.478 5.16 0.00 0.00 3.68
4275 4925 3.740141 GCGTAGTAAAGGCCTATCAGCAA 60.740 47.826 5.16 0.00 32.71 3.91
4276 4926 2.223971 GCGTAGTAAAGGCCTATCAGCA 60.224 50.000 5.16 0.00 32.71 4.41
4277 4927 2.223971 TGCGTAGTAAAGGCCTATCAGC 60.224 50.000 5.16 6.59 38.23 4.26
4280 4930 3.729862 ACTGCGTAGTAAAGGCCTATC 57.270 47.619 5.16 0.00 38.23 2.08
4282 4932 3.131046 GGTAACTGCGTAGTAAAGGCCTA 59.869 47.826 5.16 0.00 38.23 3.93
4286 4936 4.736793 CGTATGGTAACTGCGTAGTAAAGG 59.263 45.833 6.58 0.00 35.69 3.11
4287 4937 5.572211 TCGTATGGTAACTGCGTAGTAAAG 58.428 41.667 6.58 0.00 35.69 1.85
4294 4944 2.029649 ACAACTCGTATGGTAACTGCGT 60.030 45.455 0.00 0.00 37.61 5.24
4296 4946 4.487948 TGTACAACTCGTATGGTAACTGC 58.512 43.478 0.00 0.00 31.20 4.40
4298 4948 8.611654 AAAAATGTACAACTCGTATGGTAACT 57.388 30.769 0.00 0.00 31.20 2.24
4307 4957 6.913873 ACACTGTAAAAATGTACAACTCGT 57.086 33.333 0.00 0.00 33.66 4.18
4308 4958 9.313323 CATAACACTGTAAAAATGTACAACTCG 57.687 33.333 0.00 0.00 33.66 4.18
4330 5079 6.760298 TGCAAGCAAAATCAGAACAAACATAA 59.240 30.769 0.00 0.00 0.00 1.90
4331 5080 6.279123 TGCAAGCAAAATCAGAACAAACATA 58.721 32.000 0.00 0.00 0.00 2.29
4338 5087 7.412137 ACTAAAATGCAAGCAAAATCAGAAC 57.588 32.000 0.00 0.00 0.00 3.01
4341 5090 7.647907 AGAACTAAAATGCAAGCAAAATCAG 57.352 32.000 0.00 0.00 0.00 2.90
4354 5103 9.694520 CTCAAATCATGACGTAGAACTAAAATG 57.305 33.333 0.00 0.00 33.47 2.32
4362 5111 5.643348 ACATTGCTCAAATCATGACGTAGAA 59.357 36.000 0.00 0.00 33.47 2.10
4364 5113 5.260900 CACATTGCTCAAATCATGACGTAG 58.739 41.667 0.00 0.00 33.47 3.51
4381 5130 3.770263 AGAATCAATCACGCCACATTG 57.230 42.857 0.00 0.00 0.00 2.82
4391 5140 5.012239 AGCAAGCCAAGTAAGAATCAATCA 58.988 37.500 0.00 0.00 0.00 2.57
4392 5141 5.573337 AGCAAGCCAAGTAAGAATCAATC 57.427 39.130 0.00 0.00 0.00 2.67
4560 5327 4.161295 CTGAGCATTCCGGCGGGA 62.161 66.667 27.98 20.48 41.83 5.14
4849 5616 2.751837 CTCGGCTTCCCCTTTGCC 60.752 66.667 0.00 0.00 42.94 4.52
5510 6318 5.646606 TCACTTTTCTTTTTCTTGAACGGG 58.353 37.500 0.00 0.00 0.00 5.28
5525 6333 7.432252 ACAAGTCAATTCGTCAAATCACTTTTC 59.568 33.333 0.00 0.00 0.00 2.29
5529 6337 7.672983 ATACAAGTCAATTCGTCAAATCACT 57.327 32.000 0.00 0.00 0.00 3.41
5624 6432 0.516524 GAACGACATCGCTCGCAAAC 60.517 55.000 0.14 0.00 44.43 2.93
5725 6534 5.443185 TTTCTGGAATGTTTTCAGCTCAG 57.557 39.130 0.00 0.00 33.23 3.35
5780 6589 7.176690 ACACTTCCAAATAGACCAAAACATAGG 59.823 37.037 0.00 0.00 0.00 2.57
5875 6684 6.268387 TGACAAGAGATCACCATGCAGATATA 59.732 38.462 0.00 0.00 0.00 0.86
5877 6686 4.406649 TGACAAGAGATCACCATGCAGATA 59.593 41.667 0.00 0.00 0.00 1.98
5933 6742 9.700831 ATTTAGGCTTCTTATACAAATGGAGTT 57.299 29.630 0.00 0.00 0.00 3.01
5988 6797 2.835895 GGAGTCGGGGGAGCTCTC 60.836 72.222 14.64 10.01 0.00 3.20
5989 6798 2.537714 AATGGAGTCGGGGGAGCTCT 62.538 60.000 14.64 0.00 0.00 4.09
5990 6799 1.627297 AAATGGAGTCGGGGGAGCTC 61.627 60.000 4.71 4.71 0.00 4.09
5991 6800 1.616628 AAATGGAGTCGGGGGAGCT 60.617 57.895 0.00 0.00 0.00 4.09
5992 6801 1.452108 CAAATGGAGTCGGGGGAGC 60.452 63.158 0.00 0.00 0.00 4.70
5993 6802 1.200519 TACAAATGGAGTCGGGGGAG 58.799 55.000 0.00 0.00 0.00 4.30
5994 6803 1.887797 ATACAAATGGAGTCGGGGGA 58.112 50.000 0.00 0.00 0.00 4.81
5995 6804 3.389983 TCTTATACAAATGGAGTCGGGGG 59.610 47.826 0.00 0.00 0.00 5.40
5996 6805 4.682778 TCTTATACAAATGGAGTCGGGG 57.317 45.455 0.00 0.00 0.00 5.73
5997 6806 4.511826 GCTTCTTATACAAATGGAGTCGGG 59.488 45.833 0.00 0.00 0.00 5.14
5998 6807 4.511826 GGCTTCTTATACAAATGGAGTCGG 59.488 45.833 0.00 0.00 0.00 4.79
5999 6808 5.360591 AGGCTTCTTATACAAATGGAGTCG 58.639 41.667 0.00 0.00 0.00 4.18
6000 6809 8.732746 TTTAGGCTTCTTATACAAATGGAGTC 57.267 34.615 0.00 0.00 0.00 3.36
6003 6812 9.569122 GGTATTTAGGCTTCTTATACAAATGGA 57.431 33.333 0.00 0.00 0.00 3.41
6004 6813 8.504005 CGGTATTTAGGCTTCTTATACAAATGG 58.496 37.037 0.00 0.00 0.00 3.16
6005 6814 8.504005 CCGGTATTTAGGCTTCTTATACAAATG 58.496 37.037 0.00 0.00 0.00 2.32
6006 6815 7.664318 CCCGGTATTTAGGCTTCTTATACAAAT 59.336 37.037 0.00 0.00 0.00 2.32
6007 6816 6.993902 CCCGGTATTTAGGCTTCTTATACAAA 59.006 38.462 0.00 0.00 0.00 2.83
6008 6817 6.100134 ACCCGGTATTTAGGCTTCTTATACAA 59.900 38.462 0.00 0.00 0.00 2.41
6009 6818 5.603813 ACCCGGTATTTAGGCTTCTTATACA 59.396 40.000 0.00 0.00 0.00 2.29
6010 6819 6.106648 ACCCGGTATTTAGGCTTCTTATAC 57.893 41.667 0.00 0.00 0.00 1.47
6011 6820 5.246883 GGACCCGGTATTTAGGCTTCTTATA 59.753 44.000 0.00 0.00 0.00 0.98
6012 6821 4.041321 GGACCCGGTATTTAGGCTTCTTAT 59.959 45.833 0.00 0.00 0.00 1.73
6013 6822 3.389002 GGACCCGGTATTTAGGCTTCTTA 59.611 47.826 0.00 0.00 0.00 2.10
6014 6823 2.172082 GGACCCGGTATTTAGGCTTCTT 59.828 50.000 0.00 0.00 0.00 2.52
6015 6824 1.767088 GGACCCGGTATTTAGGCTTCT 59.233 52.381 0.00 0.00 0.00 2.85
6016 6825 1.539712 CGGACCCGGTATTTAGGCTTC 60.540 57.143 0.00 0.00 35.56 3.86
6017 6826 0.466963 CGGACCCGGTATTTAGGCTT 59.533 55.000 0.00 0.00 35.56 4.35
6018 6827 0.397535 TCGGACCCGGTATTTAGGCT 60.398 55.000 8.73 0.00 40.25 4.58
6019 6828 0.683412 ATCGGACCCGGTATTTAGGC 59.317 55.000 8.73 0.00 40.25 3.93
6020 6829 2.892852 TGTATCGGACCCGGTATTTAGG 59.107 50.000 8.73 0.00 37.37 2.69
6023 6832 2.103601 CCTTGTATCGGACCCGGTATTT 59.896 50.000 8.73 0.00 37.37 1.40
6035 6844 3.418047 AGGTTTTTGGACCCTTGTATCG 58.582 45.455 0.00 0.00 40.73 2.92
6061 6870 3.118261 TGTTCCATGATCTTAGCCTCACC 60.118 47.826 0.00 0.00 0.00 4.02
6062 6871 4.142609 TGTTCCATGATCTTAGCCTCAC 57.857 45.455 0.00 0.00 0.00 3.51
6072 7170 6.820152 TCATCGGATATCATTGTTCCATGATC 59.180 38.462 4.83 0.00 38.37 2.92
6091 7189 2.102588 ACTTTTAGGTCGGGATCATCGG 59.897 50.000 7.65 0.00 0.00 4.18
6172 7270 2.050144 GACTCCAAGGATGATGGCCTA 58.950 52.381 3.32 0.00 37.88 3.93
6187 7285 1.451028 GTGCCATGCCTCTGACTCC 60.451 63.158 0.00 0.00 0.00 3.85
6193 7291 3.499406 TGGAAGTGCCATGCCTCT 58.501 55.556 0.00 0.00 43.33 3.69
6225 7323 0.697658 TCATGGTGCAGGACATGGAA 59.302 50.000 19.81 5.20 43.49 3.53
6294 7392 6.611236 TGATGTAGATGGTGATAACTTGGAGA 59.389 38.462 0.00 0.00 0.00 3.71
6295 7393 6.703607 GTGATGTAGATGGTGATAACTTGGAG 59.296 42.308 0.00 0.00 0.00 3.86
6296 7394 6.408092 GGTGATGTAGATGGTGATAACTTGGA 60.408 42.308 0.00 0.00 0.00 3.53
6298 7396 6.348498 TGGTGATGTAGATGGTGATAACTTG 58.652 40.000 0.00 0.00 0.00 3.16
6300 7398 5.453903 GCTGGTGATGTAGATGGTGATAACT 60.454 44.000 0.00 0.00 0.00 2.24
6301 7399 4.752101 GCTGGTGATGTAGATGGTGATAAC 59.248 45.833 0.00 0.00 0.00 1.89
6302 7400 4.202357 GGCTGGTGATGTAGATGGTGATAA 60.202 45.833 0.00 0.00 0.00 1.75
6303 7401 3.324846 GGCTGGTGATGTAGATGGTGATA 59.675 47.826 0.00 0.00 0.00 2.15
6309 7407 0.109342 GGGGGCTGGTGATGTAGATG 59.891 60.000 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.