Multiple sequence alignment - TraesCS5D01G170400

Loading Multiple Alignment...

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 TraesCS5D01G170400 chr5D 100.000 5371 0 0 1 5371 267084153 267078783 0.000000e+00 9919.0
1 TraesCS5D01G170400 chr5B 92.367 2987 139 33 1 2916 301205384 301202416 0.000000e+00 4170.0
2 TraesCS5D01G170400 chr5B 93.305 1180 30 9 3762 4930 301201702 301200561 0.000000e+00 1696.0
3 TraesCS5D01G170400 chr5B 95.645 643 15 3 2932 3574 301202432 301201803 0.000000e+00 1020.0
4 TraesCS5D01G170400 chr5B 92.995 414 16 6 4958 5371 301200566 301200166 4.630000e-165 592.0
5 TraesCS5D01G170400 chr5A 93.073 2411 84 27 819 3170 353598878 353601264 0.000000e+00 3450.0
6 TraesCS5D01G170400 chr5A 92.271 1656 48 19 3747 5371 353601798 353603404 0.000000e+00 2276.0
7 TraesCS5D01G170400 chr5A 97.375 381 9 1 3194 3574 353601332 353601711 0.000000e+00 647.0
8 TraesCS5D01G170400 chr5A 91.463 328 25 3 496 821 353597140 353597466 1.060000e-121 448.0
9 TraesCS5D01G170400 chr5A 85.870 184 26 0 2296 2479 626266914 626266731 4.240000e-46 196.0
10 TraesCS5D01G170400 chr3B 95.858 169 5 1 3586 3752 62969931 62970099 6.850000e-69 272.0
11 TraesCS5D01G170400 chr3B 94.737 171 7 1 3582 3750 655849417 655849587 1.150000e-66 265.0
12 TraesCS5D01G170400 chr3B 85.792 183 26 0 2293 2475 3244805 3244987 1.530000e-45 195.0
13 TraesCS5D01G170400 chr6B 95.322 171 7 1 3586 3755 423196051 423195881 2.470000e-68 270.0
14 TraesCS5D01G170400 chr6A 94.828 174 8 1 3580 3752 130354830 130355003 2.470000e-68 270.0
15 TraesCS5D01G170400 chr3D 95.833 168 5 1 3586 3751 355892353 355892520 2.470000e-68 270.0
16 TraesCS5D01G170400 chr3D 92.513 187 8 5 3581 3765 217587556 217587738 4.130000e-66 263.0
17 TraesCS5D01G170400 chr3D 85.870 184 24 2 2293 2475 578478117 578478299 1.530000e-45 195.0
18 TraesCS5D01G170400 chr3D 85.185 189 24 2 2291 2475 5509535 5509723 1.970000e-44 191.0
19 TraesCS5D01G170400 chr3D 84.043 188 25 3 2291 2475 300413871 300413686 5.530000e-40 176.0
20 TraesCS5D01G170400 chr6D 94.318 176 7 2 3580 3752 32865340 32865165 3.190000e-67 267.0
21 TraesCS5D01G170400 chr1B 94.767 172 8 1 3585 3755 606841318 606841147 3.190000e-67 267.0
22 TraesCS5D01G170400 chr7A 91.579 190 12 3 3563 3749 431989089 431989277 5.340000e-65 259.0
23 TraesCS5D01G170400 chr7A 86.264 182 25 0 2294 2475 373864885 373864704 1.180000e-46 198.0
24 TraesCS5D01G170400 chr3A 84.865 185 24 3 2295 2475 519234596 519234780 3.300000e-42 183.0
25 TraesCS5D01G170400 chr4B 77.824 239 48 5 2 238 645054362 645054597 5.610000e-30 143.0
26 TraesCS5D01G170400 chr4D 100.000 28 0 0 1772 1799 435644878 435644905 1.000000e-02 52.8


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 TraesCS5D01G170400 chr5D 267078783 267084153 5370 True 9919.00 9919 100.0000 1 5371 1 chr5D.!!$R1 5370
1 TraesCS5D01G170400 chr5B 301200166 301205384 5218 True 1869.50 4170 93.5780 1 5371 4 chr5B.!!$R1 5370
2 TraesCS5D01G170400 chr5A 353597140 353603404 6264 False 1705.25 3450 93.5455 496 5371 4 chr5A.!!$F1 4875

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
633 635 0.388391 ATTCGTTTTGCCATGCACCG 60.388 50.000 0.00 0.0 38.71 4.94 F
1042 2460 0.736325 GGTGATCACCCACGAAGACG 60.736 60.000 31.37 0.0 45.68 4.18 F
2670 4176 1.668751 TCAGGTCGTTTGAACAGCAAC 59.331 47.619 0.00 0.0 35.91 4.17 F
3330 4912 0.322187 CCCGTGAAGTGGGTTAAGGG 60.322 60.000 0.00 0.0 42.07 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2317 3808 1.001406 GCCAGCCTATCGAGCAACTAT 59.999 52.381 0.0 0.0 0.00 2.12 R
2776 4282 4.640201 ACAACAACTGAGCAACATAACAGT 59.360 37.500 0.0 0.0 43.92 3.55 R
3580 5162 0.175989 GGAACGGAGGGAGTAGCAAG 59.824 60.000 0.0 0.0 0.00 4.01 R
5115 6726 0.883814 CGATGCCCTCTCCATTGAGC 60.884 60.000 0.0 0.0 38.58 4.26 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
28 29 5.296035 CCTTGTCTTACCGAAAACCATATCC 59.704 44.000 0.00 0.00 0.00 2.59
52 53 6.751425 CCTGCATTAACGCAATCAATTCTTAA 59.249 34.615 0.00 0.00 42.45 1.85
102 103 9.656040 CAATGGAATCAAATCAAATCTTACCAA 57.344 29.630 0.00 0.00 0.00 3.67
112 113 4.761739 TCAAATCTTACCAAGCCTCAACTG 59.238 41.667 0.00 0.00 0.00 3.16
113 114 4.373156 AATCTTACCAAGCCTCAACTGT 57.627 40.909 0.00 0.00 0.00 3.55
116 117 4.638304 TCTTACCAAGCCTCAACTGTAAC 58.362 43.478 0.00 0.00 0.00 2.50
120 121 4.215109 ACCAAGCCTCAACTGTAACAAAT 58.785 39.130 0.00 0.00 0.00 2.32
121 122 5.381757 ACCAAGCCTCAACTGTAACAAATA 58.618 37.500 0.00 0.00 0.00 1.40
136 137 8.076910 TGTAACAAATATTTCCATGCAATCCT 57.923 30.769 0.00 0.00 0.00 3.24
145 146 3.812262 TCCATGCAATCCTCTACACATG 58.188 45.455 0.00 0.00 35.73 3.21
162 163 6.219417 ACACATGACCAAATCAACTCAAAA 57.781 33.333 0.00 0.00 41.93 2.44
168 169 9.132521 CATGACCAAATCAACTCAAAATCTTAC 57.867 33.333 0.00 0.00 41.93 2.34
177 178 6.609616 TCAACTCAAAATCTTACCAAAACCCT 59.390 34.615 0.00 0.00 0.00 4.34
190 191 9.908152 CTTACCAAAACCCTAACTAAATGAAAG 57.092 33.333 0.00 0.00 0.00 2.62
194 195 7.931407 CCAAAACCCTAACTAAATGAAAGCTTT 59.069 33.333 12.53 12.53 0.00 3.51
201 202 5.048153 ACTAAATGAAAGCTTTTCCTCGC 57.952 39.130 14.05 0.00 0.00 5.03
207 208 2.278332 AAGCTTTTCCTCGCCTTTCT 57.722 45.000 0.00 0.00 0.00 2.52
211 212 3.008049 AGCTTTTCCTCGCCTTTCTCTAA 59.992 43.478 0.00 0.00 0.00 2.10
212 213 3.942115 GCTTTTCCTCGCCTTTCTCTAAT 59.058 43.478 0.00 0.00 0.00 1.73
321 322 3.988525 GCCCCATTGCAACGCACA 61.989 61.111 0.00 0.00 38.71 4.57
371 372 4.280929 AGTTGGGCTGTTTTTCTTATCACC 59.719 41.667 0.00 0.00 0.00 4.02
388 389 9.952030 TCTTATCACCCATAATTTATATTGCGA 57.048 29.630 0.00 0.00 0.00 5.10
431 432 1.306296 TTGGACCCCAATAGCCAGC 59.694 57.895 0.00 0.00 38.75 4.85
435 436 1.077716 ACCCCAATAGCCAGCGAAC 60.078 57.895 0.00 0.00 0.00 3.95
441 442 1.196808 CAATAGCCAGCGAACGTTTGT 59.803 47.619 16.75 1.47 0.00 2.83
447 448 1.002900 CCAGCGAACGTTTGTTGTGAT 60.003 47.619 25.11 0.18 38.78 3.06
453 454 2.314561 ACGTTTGTTGTGATGCATCG 57.685 45.000 21.34 9.43 0.00 3.84
486 487 8.872845 CGAAAGCTTTTTATGGCAAATTATTCT 58.127 29.630 14.05 0.00 0.00 2.40
571 573 2.399396 AAAATTGTCGTGTTCGCTGG 57.601 45.000 0.00 0.00 36.96 4.85
575 577 2.023414 TTGTCGTGTTCGCTGGAGGT 62.023 55.000 0.00 0.00 36.96 3.85
581 583 0.613260 TGTTCGCTGGAGGTATTGCT 59.387 50.000 0.00 0.00 0.00 3.91
606 608 1.537638 TCGCAACACATAAATTGCCGT 59.462 42.857 3.55 0.00 46.87 5.68
633 635 0.388391 ATTCGTTTTGCCATGCACCG 60.388 50.000 0.00 0.00 38.71 4.94
660 662 6.670990 CGAACGTTCGCTCTATAACATAAT 57.329 37.500 34.54 0.00 44.26 1.28
667 669 9.517361 CGTTCGCTCTATAACATAATCATTTTC 57.483 33.333 0.00 0.00 0.00 2.29
686 688 1.550976 TCGTTTTTGCCCAACCACTTT 59.449 42.857 0.00 0.00 0.00 2.66
774 779 0.738412 ATCGTTTACAACCGCCGGAG 60.738 55.000 11.71 0.00 0.00 4.63
854 2272 2.826725 TCCTTTCTTCCCGAAGTCTCTC 59.173 50.000 4.45 0.00 39.38 3.20
922 2340 2.490718 CGAGATCCTCTTCTCCCTCCAT 60.491 54.545 0.00 0.00 39.19 3.41
1042 2460 0.736325 GGTGATCACCCACGAAGACG 60.736 60.000 31.37 0.00 45.68 4.18
1366 2818 2.345641 GGTGACGTGATTCTGATTCGTG 59.654 50.000 0.00 0.00 34.93 4.35
1433 2885 4.452733 GGAGTTCCTCCGTGCCCG 62.453 72.222 0.00 0.00 41.08 6.13
1589 3053 8.612619 GCTTATTCTTGATCCGAAGAAATGTAA 58.387 33.333 11.12 6.27 43.47 2.41
1596 3060 5.122239 TGATCCGAAGAAATGTAAGCAAGTG 59.878 40.000 0.00 0.00 0.00 3.16
1650 3114 7.968956 TCAACTCTAACTAGCTAAACTTCATCG 59.031 37.037 0.00 0.00 0.00 3.84
1694 3159 5.942236 TCTCTTTTTCTCACTTGCATATGCT 59.058 36.000 27.13 5.65 42.66 3.79
1767 3237 9.342308 GAAAGATGGGATCAAACATGTCTATTA 57.658 33.333 0.00 0.00 0.00 0.98
2004 3491 4.225942 TGTCCAAGTTGAGCTTCTCCATAT 59.774 41.667 3.87 0.00 34.69 1.78
2102 3589 3.322541 TGACTTGTATTTCTGACCCGACA 59.677 43.478 0.00 0.00 0.00 4.35
2163 3650 3.284617 ACTTGTTGGCTTAACGAAGGTT 58.715 40.909 0.00 0.00 42.34 3.50
2261 3749 7.367828 ACCCCTCTATTGTGTATTCCTAACTA 58.632 38.462 0.00 0.00 0.00 2.24
2262 3750 7.847848 ACCCCTCTATTGTGTATTCCTAACTAA 59.152 37.037 0.00 0.00 0.00 2.24
2263 3751 8.148999 CCCCTCTATTGTGTATTCCTAACTAAC 58.851 40.741 0.00 0.00 0.00 2.34
2264 3752 8.148999 CCCTCTATTGTGTATTCCTAACTAACC 58.851 40.741 0.00 0.00 0.00 2.85
2384 3887 5.587043 TCGGCAAGTTAATCAATTAATCGGT 59.413 36.000 0.00 0.00 35.02 4.69
2404 3907 6.738114 TCGGTCGATTTATTAGTTTATCGGT 58.262 36.000 0.00 0.00 40.06 4.69
2410 3913 9.800433 TCGATTTATTAGTTTATCGGTTACACA 57.200 29.630 0.00 0.00 40.06 3.72
2438 3941 5.664457 ACCTTACAAGTAGGGATTAATCGGT 59.336 40.000 14.45 3.81 36.00 4.69
2593 4099 2.198827 TGAGTGGTCAATTCGGCAAT 57.801 45.000 0.00 0.00 0.00 3.56
2665 4171 3.559655 CACAGATTCAGGTCGTTTGAACA 59.440 43.478 2.17 0.00 37.38 3.18
2670 4176 1.668751 TCAGGTCGTTTGAACAGCAAC 59.331 47.619 0.00 0.00 35.91 4.17
2673 4179 2.159435 AGGTCGTTTGAACAGCAACAAC 60.159 45.455 0.00 0.00 35.91 3.32
2776 4282 4.163441 TGACAACCATCTGAAACCTTCA 57.837 40.909 0.00 0.00 38.17 3.02
2810 4316 4.262506 GCTCAGTTGTTGTAGTCCTTAGGT 60.263 45.833 0.00 0.00 0.00 3.08
2843 4349 7.655328 TGTTATACTTCTTTGGGTTGCATTTTG 59.345 33.333 0.00 0.00 0.00 2.44
2914 4452 9.358872 CTCAAAAGGCAAGTATTTTTATCTTCC 57.641 33.333 0.00 0.00 0.00 3.46
2915 4453 9.088987 TCAAAAGGCAAGTATTTTTATCTTCCT 57.911 29.630 0.00 0.00 0.00 3.36
2916 4454 9.710900 CAAAAGGCAAGTATTTTTATCTTCCTT 57.289 29.630 0.00 0.00 34.06 3.36
2917 4455 9.710900 AAAAGGCAAGTATTTTTATCTTCCTTG 57.289 29.630 0.00 0.00 33.54 3.61
2918 4456 8.422577 AAGGCAAGTATTTTTATCTTCCTTGT 57.577 30.769 0.00 0.00 32.84 3.16
2919 4457 8.056407 AGGCAAGTATTTTTATCTTCCTTGTC 57.944 34.615 0.00 0.00 34.26 3.18
2920 4458 7.890655 AGGCAAGTATTTTTATCTTCCTTGTCT 59.109 33.333 0.00 0.00 38.25 3.41
2921 4459 8.523658 GGCAAGTATTTTTATCTTCCTTGTCTT 58.476 33.333 0.00 0.00 32.05 3.01
2922 4460 9.914131 GCAAGTATTTTTATCTTCCTTGTCTTT 57.086 29.630 0.00 0.00 32.49 2.52
2928 4466 9.783081 ATTTTTATCTTCCTTGTCTTTTTGCAT 57.217 25.926 0.00 0.00 0.00 3.96
2929 4467 8.592105 TTTTATCTTCCTTGTCTTTTTGCATG 57.408 30.769 0.00 0.00 0.00 4.06
2930 4468 4.589216 TCTTCCTTGTCTTTTTGCATGG 57.411 40.909 0.00 0.00 0.00 3.66
2931 4469 4.214310 TCTTCCTTGTCTTTTTGCATGGA 58.786 39.130 0.00 0.00 37.22 3.41
2932 4470 4.279169 TCTTCCTTGTCTTTTTGCATGGAG 59.721 41.667 0.00 0.00 39.19 3.86
2933 4471 3.565307 TCCTTGTCTTTTTGCATGGAGT 58.435 40.909 0.00 0.00 35.07 3.85
2934 4472 4.724399 TCCTTGTCTTTTTGCATGGAGTA 58.276 39.130 0.00 0.00 35.07 2.59
2935 4473 5.324409 TCCTTGTCTTTTTGCATGGAGTAT 58.676 37.500 0.00 0.00 35.07 2.12
2936 4474 5.774690 TCCTTGTCTTTTTGCATGGAGTATT 59.225 36.000 0.00 0.00 35.07 1.89
2937 4475 6.267471 TCCTTGTCTTTTTGCATGGAGTATTT 59.733 34.615 0.00 0.00 35.07 1.40
2938 4476 6.930722 CCTTGTCTTTTTGCATGGAGTATTTT 59.069 34.615 0.00 0.00 33.35 1.82
2939 4477 7.442062 CCTTGTCTTTTTGCATGGAGTATTTTT 59.558 33.333 0.00 0.00 33.35 1.94
2940 4478 9.474920 CTTGTCTTTTTGCATGGAGTATTTTTA 57.525 29.630 0.00 0.00 0.00 1.52
2941 4479 9.995003 TTGTCTTTTTGCATGGAGTATTTTTAT 57.005 25.926 0.00 0.00 0.00 1.40
2942 4480 9.638239 TGTCTTTTTGCATGGAGTATTTTTATC 57.362 29.630 0.00 0.00 0.00 1.75
2943 4481 9.860898 GTCTTTTTGCATGGAGTATTTTTATCT 57.139 29.630 0.00 0.00 0.00 1.98
3261 4843 8.918202 ATAACTTGAGGTGTGTCTTTTTATCA 57.082 30.769 0.00 0.00 0.00 2.15
3330 4912 0.322187 CCCGTGAAGTGGGTTAAGGG 60.322 60.000 0.00 0.00 42.07 3.95
3356 4938 0.667993 AAAGGTGAACATGTGGCACG 59.332 50.000 19.74 1.69 33.48 5.34
3423 5005 1.164411 CACTTTGGCGATGCACCTTA 58.836 50.000 0.00 0.00 0.00 2.69
3445 5027 9.467258 CCTTAAAAATATTGCACGATTGATCAT 57.533 29.630 0.00 0.00 0.00 2.45
3570 5152 5.432645 ACCAGAATCTAGCTTCTAAAAGGC 58.567 41.667 8.47 0.00 33.73 4.35
3571 5153 5.045578 ACCAGAATCTAGCTTCTAAAAGGCA 60.046 40.000 8.47 0.00 33.73 4.75
3572 5154 5.295540 CCAGAATCTAGCTTCTAAAAGGCAC 59.704 44.000 8.47 0.00 33.73 5.01
3573 5155 6.112058 CAGAATCTAGCTTCTAAAAGGCACT 58.888 40.000 8.47 0.00 34.81 4.40
3574 5156 6.036953 CAGAATCTAGCTTCTAAAAGGCACTG 59.963 42.308 8.47 0.00 33.93 3.66
3575 5157 4.207891 TCTAGCTTCTAAAAGGCACTGG 57.792 45.455 0.00 0.00 40.86 4.00
3576 5158 2.206576 AGCTTCTAAAAGGCACTGGG 57.793 50.000 0.00 0.00 40.86 4.45
3577 5159 1.425448 AGCTTCTAAAAGGCACTGGGT 59.575 47.619 0.00 0.00 40.86 4.51
3578 5160 2.642807 AGCTTCTAAAAGGCACTGGGTA 59.357 45.455 0.00 0.00 40.86 3.69
3579 5161 3.073946 AGCTTCTAAAAGGCACTGGGTAA 59.926 43.478 0.00 0.00 40.86 2.85
3580 5162 3.190744 GCTTCTAAAAGGCACTGGGTAAC 59.809 47.826 0.00 0.00 40.86 2.50
3581 5163 4.652822 CTTCTAAAAGGCACTGGGTAACT 58.347 43.478 0.00 0.00 40.86 2.24
3582 5164 4.717279 TCTAAAAGGCACTGGGTAACTT 57.283 40.909 0.00 0.00 40.86 2.66
3583 5165 4.394729 TCTAAAAGGCACTGGGTAACTTG 58.605 43.478 0.00 0.00 40.86 3.16
3584 5166 1.328279 AAAGGCACTGGGTAACTTGC 58.672 50.000 0.00 0.00 40.86 4.01
3594 5176 1.485480 GGGTAACTTGCTACTCCCTCC 59.515 57.143 0.00 0.00 32.89 4.30
3597 5179 1.349067 AACTTGCTACTCCCTCCGTT 58.651 50.000 0.00 0.00 0.00 4.44
3598 5180 0.896226 ACTTGCTACTCCCTCCGTTC 59.104 55.000 0.00 0.00 0.00 3.95
3599 5181 0.175989 CTTGCTACTCCCTCCGTTCC 59.824 60.000 0.00 0.00 0.00 3.62
3600 5182 0.252103 TTGCTACTCCCTCCGTTCCT 60.252 55.000 0.00 0.00 0.00 3.36
3607 5189 5.011840 GCTACTCCCTCCGTTCCTAAATATT 59.988 44.000 0.00 0.00 0.00 1.28
3608 5190 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
3610 5192 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
3611 5193 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
3613 5195 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
3615 5197 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
3618 5200 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
3619 5201 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
3634 5216 9.559732 TGTCTTTCTAGAGATTTCAACAAATGA 57.440 29.630 0.00 0.00 31.94 2.57
3635 5217 9.818796 GTCTTTCTAGAGATTTCAACAAATGAC 57.181 33.333 0.00 0.00 37.92 3.06
3636 5218 9.784531 TCTTTCTAGAGATTTCAACAAATGACT 57.215 29.630 0.00 0.00 37.92 3.41
3639 5221 9.996554 TTCTAGAGATTTCAACAAATGACTACA 57.003 29.630 0.00 0.00 37.92 2.74
3643 5225 8.873830 AGAGATTTCAACAAATGACTACATACG 58.126 33.333 0.00 0.00 37.92 3.06
3644 5226 7.974675 AGATTTCAACAAATGACTACATACGG 58.025 34.615 0.00 0.00 37.92 4.02
3645 5227 7.822334 AGATTTCAACAAATGACTACATACGGA 59.178 33.333 0.00 0.00 37.92 4.69
3646 5228 6.961359 TTCAACAAATGACTACATACGGAG 57.039 37.500 0.00 0.00 37.92 4.63
3647 5229 6.032956 TCAACAAATGACTACATACGGAGT 57.967 37.500 0.00 0.00 37.64 3.85
3648 5230 7.160547 TCAACAAATGACTACATACGGAGTA 57.839 36.000 0.00 0.00 39.62 2.59
3649 5231 7.604549 TCAACAAATGACTACATACGGAGTAA 58.395 34.615 0.00 0.00 39.00 2.24
3650 5232 8.089597 TCAACAAATGACTACATACGGAGTAAA 58.910 33.333 0.00 0.00 39.00 2.01
3666 5248 8.699283 ACGGAGTAAAATGAGTAAATCTACAC 57.301 34.615 0.00 0.00 41.94 2.90
3667 5249 8.529476 ACGGAGTAAAATGAGTAAATCTACACT 58.471 33.333 0.00 0.00 41.94 3.55
3668 5250 9.021863 CGGAGTAAAATGAGTAAATCTACACTC 57.978 37.037 0.00 0.00 41.31 3.51
3702 5284 9.511272 TGTCTATATACATTCGTATGTGGTAGT 57.489 33.333 16.91 2.71 44.56 2.73
3703 5285 9.985318 GTCTATATACATTCGTATGTGGTAGTC 57.015 37.037 16.91 9.92 44.56 2.59
3704 5286 9.170734 TCTATATACATTCGTATGTGGTAGTCC 57.829 37.037 16.91 0.00 44.56 3.85
3705 5287 7.770366 ATATACATTCGTATGTGGTAGTCCA 57.230 36.000 16.91 0.00 44.56 4.02
3706 5288 6.665992 ATACATTCGTATGTGGTAGTCCAT 57.334 37.500 16.91 0.00 44.56 3.41
3707 5289 5.353394 ACATTCGTATGTGGTAGTCCATT 57.647 39.130 6.89 0.00 46.20 3.16
3708 5290 5.741011 ACATTCGTATGTGGTAGTCCATTT 58.259 37.500 6.89 0.00 46.20 2.32
3709 5291 5.584649 ACATTCGTATGTGGTAGTCCATTTG 59.415 40.000 6.89 0.00 46.20 2.32
3710 5292 5.408880 TTCGTATGTGGTAGTCCATTTGA 57.591 39.130 0.00 0.00 46.20 2.69
3711 5293 5.408880 TCGTATGTGGTAGTCCATTTGAA 57.591 39.130 0.00 0.00 46.20 2.69
3719 5301 8.698973 TGTGGTAGTCCATTTGAAATCTAAAA 57.301 30.769 0.00 0.00 46.20 1.52
3720 5302 9.137459 TGTGGTAGTCCATTTGAAATCTAAAAA 57.863 29.630 0.00 0.00 46.20 1.94
3721 5303 9.626045 GTGGTAGTCCATTTGAAATCTAAAAAG 57.374 33.333 0.00 0.00 46.20 2.27
3722 5304 9.581289 TGGTAGTCCATTTGAAATCTAAAAAGA 57.419 29.630 0.00 0.00 39.03 2.52
3754 5336 4.277552 CGGAGGGAGTAGATGGCA 57.722 61.111 0.00 0.00 0.00 4.92
3755 5337 2.751991 CGGAGGGAGTAGATGGCAT 58.248 57.895 0.00 0.00 0.00 4.40
3756 5338 1.051812 CGGAGGGAGTAGATGGCATT 58.948 55.000 0.00 0.00 0.00 3.56
3757 5339 1.417890 CGGAGGGAGTAGATGGCATTT 59.582 52.381 0.00 0.00 0.00 2.32
3758 5340 2.632996 CGGAGGGAGTAGATGGCATTTA 59.367 50.000 0.00 0.00 0.00 1.40
3759 5341 3.555168 CGGAGGGAGTAGATGGCATTTAC 60.555 52.174 17.83 17.83 0.00 2.01
3760 5342 3.391296 GGAGGGAGTAGATGGCATTTACA 59.609 47.826 24.78 0.00 0.00 2.41
3941 5531 1.079503 GTGAGCATTCCCGAAGACAC 58.920 55.000 0.00 0.00 0.00 3.67
4108 5698 7.257722 CGTGGAAAGGTAAAAATAGCATGATT 58.742 34.615 0.00 0.00 0.00 2.57
4111 5701 9.249053 TGGAAAGGTAAAAATAGCATGATTACA 57.751 29.630 0.00 0.00 0.00 2.41
4329 5920 7.778083 TCTAAGGTTTATTGAGCTATTCGACA 58.222 34.615 0.00 0.00 0.00 4.35
4352 5943 6.434028 ACATCTCAAGCTTAAAGCATTTACCA 59.566 34.615 0.00 0.00 45.56 3.25
4380 5971 4.901579 CTTTCTCATGTTGAGCAAGAAGCG 60.902 45.833 10.22 0.00 46.09 4.68
4450 6045 6.665992 TCTAGTAACATGGCCGATAAGAAT 57.334 37.500 0.00 0.00 0.00 2.40
4451 6046 7.770366 TCTAGTAACATGGCCGATAAGAATA 57.230 36.000 0.00 0.00 0.00 1.75
4452 6047 8.185506 TCTAGTAACATGGCCGATAAGAATAA 57.814 34.615 0.00 0.00 0.00 1.40
4453 6048 8.086522 TCTAGTAACATGGCCGATAAGAATAAC 58.913 37.037 0.00 0.00 0.00 1.89
4454 6049 6.827727 AGTAACATGGCCGATAAGAATAACT 58.172 36.000 0.00 0.00 0.00 2.24
4455 6050 6.706270 AGTAACATGGCCGATAAGAATAACTG 59.294 38.462 0.00 0.00 0.00 3.16
4456 6051 5.036117 ACATGGCCGATAAGAATAACTGT 57.964 39.130 0.00 0.00 0.00 3.55
4457 6052 5.437060 ACATGGCCGATAAGAATAACTGTT 58.563 37.500 0.00 0.00 0.00 3.16
4458 6053 5.296780 ACATGGCCGATAAGAATAACTGTTG 59.703 40.000 2.69 0.00 0.00 3.33
4459 6054 5.092554 TGGCCGATAAGAATAACTGTTGA 57.907 39.130 2.69 0.00 0.00 3.18
4460 6055 5.680619 TGGCCGATAAGAATAACTGTTGAT 58.319 37.500 2.69 0.00 0.00 2.57
4461 6056 6.119536 TGGCCGATAAGAATAACTGTTGATT 58.880 36.000 2.69 0.00 0.00 2.57
4462 6057 6.260050 TGGCCGATAAGAATAACTGTTGATTC 59.740 38.462 2.69 8.49 33.11 2.52
4463 6058 6.483640 GGCCGATAAGAATAACTGTTGATTCT 59.516 38.462 2.69 10.36 42.83 2.40
4464 6059 7.307455 GGCCGATAAGAATAACTGTTGATTCTC 60.307 40.741 17.53 10.15 40.68 2.87
4465 6060 7.224753 GCCGATAAGAATAACTGTTGATTCTCA 59.775 37.037 17.53 9.83 40.68 3.27
4466 6061 9.098355 CCGATAAGAATAACTGTTGATTCTCAA 57.902 33.333 17.53 12.71 40.68 3.02
4511 6106 3.624326 TGATTCTGTTTTTGGCTCACG 57.376 42.857 0.00 0.00 0.00 4.35
4730 6337 9.116067 GCAAACCTTGTGTTATATCTGGTATTA 57.884 33.333 0.00 0.00 35.67 0.98
4790 6397 7.581476 TGTTGTAGCAAAGCTTTTGTAGATAC 58.419 34.615 9.53 11.76 40.44 2.24
4817 6424 3.688272 CTTAAAAGATGCCACTGATGCG 58.312 45.455 0.00 0.00 0.00 4.73
4839 6446 1.456923 GCAACTTCTTGCGAAAATGCC 59.543 47.619 0.00 0.00 43.42 4.40
4851 6458 3.242543 GCGAAAATGCCTGTCTACATCAG 60.243 47.826 0.00 0.00 0.00 2.90
4889 6496 6.754193 GCTCCTGCTTACATAGAGATAAAGT 58.246 40.000 0.00 0.00 36.03 2.66
4955 6563 7.783596 AGAGCTTTTGATGAATCCAATTCCTAT 59.216 33.333 0.00 0.00 38.50 2.57
4977 6585 0.831307 ATGGAACTAAGGGACGAGCC 59.169 55.000 0.00 0.00 0.00 4.70
5020 6628 3.256558 GCATCATGCAAAGTTTCCTTCC 58.743 45.455 4.20 0.00 44.26 3.46
5027 6635 4.787551 TGCAAAGTTTCCTTCCAGTCTTA 58.212 39.130 0.00 0.00 0.00 2.10
5028 6636 5.197451 TGCAAAGTTTCCTTCCAGTCTTAA 58.803 37.500 0.00 0.00 0.00 1.85
5029 6637 5.299279 TGCAAAGTTTCCTTCCAGTCTTAAG 59.701 40.000 0.00 0.00 0.00 1.85
5068 6679 3.221964 GATGTGAAGCATCCAAACACC 57.778 47.619 0.00 0.00 46.26 4.16
5086 6697 7.547370 CCAAACACCTTTCTTTAATCAACACAA 59.453 33.333 0.00 0.00 0.00 3.33
5088 6699 6.262601 ACACCTTTCTTTAATCAACACAACG 58.737 36.000 0.00 0.00 0.00 4.10
5115 6726 1.737793 GTGGTAAGTGAGATTTGCCCG 59.262 52.381 0.00 0.00 30.23 6.13
5254 6865 7.228507 ACTCAATACTAACATCACAAGCAACAA 59.771 33.333 0.00 0.00 0.00 2.83
5284 6895 8.844690 GCGATCAAAACAAAAACAAAAATCAAA 58.155 25.926 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 4.976116 GCGTTAATGCAGGATATGGTTTTC 59.024 41.667 14.86 0.00 34.15 2.29
52 53 9.979578 TTGAGTTATTGCAGAACATGTTTTTAT 57.020 25.926 13.36 5.40 0.00 1.40
102 103 6.719370 TGGAAATATTTGTTACAGTTGAGGCT 59.281 34.615 5.17 0.00 0.00 4.58
112 113 8.416329 AGAGGATTGCATGGAAATATTTGTTAC 58.584 33.333 5.17 0.00 0.00 2.50
113 114 8.537728 AGAGGATTGCATGGAAATATTTGTTA 57.462 30.769 5.17 0.00 0.00 2.41
116 117 7.864379 GTGTAGAGGATTGCATGGAAATATTTG 59.136 37.037 5.17 0.00 0.00 2.32
120 121 6.000246 TGTGTAGAGGATTGCATGGAAATA 58.000 37.500 2.94 0.00 0.00 1.40
121 122 4.858850 TGTGTAGAGGATTGCATGGAAAT 58.141 39.130 2.94 0.00 0.00 2.17
136 137 5.863965 TGAGTTGATTTGGTCATGTGTAGA 58.136 37.500 0.00 0.00 36.54 2.59
145 146 7.657336 TGGTAAGATTTTGAGTTGATTTGGTC 58.343 34.615 0.00 0.00 0.00 4.02
162 163 9.816787 TTCATTTAGTTAGGGTTTTGGTAAGAT 57.183 29.630 0.00 0.00 0.00 2.40
168 169 6.993079 AGCTTTCATTTAGTTAGGGTTTTGG 58.007 36.000 0.00 0.00 0.00 3.28
177 178 6.349033 GGCGAGGAAAAGCTTTCATTTAGTTA 60.349 38.462 13.10 0.00 0.00 2.24
190 191 1.814793 AGAGAAAGGCGAGGAAAAGC 58.185 50.000 0.00 0.00 0.00 3.51
194 195 5.359194 AATGATTAGAGAAAGGCGAGGAA 57.641 39.130 0.00 0.00 0.00 3.36
250 251 4.817318 TGTGTCTGACATATACCTTGCA 57.183 40.909 14.37 0.88 0.00 4.08
252 253 8.820933 CACTAATTGTGTCTGACATATACCTTG 58.179 37.037 14.37 3.96 41.53 3.61
285 286 2.159841 GGCGTGCGTGCATATTATAGTG 60.160 50.000 0.00 0.00 36.28 2.74
289 290 1.234615 GGGGCGTGCGTGCATATTAT 61.235 55.000 0.00 0.00 36.28 1.28
321 322 7.092399 ACCAACTCCCTATTTAGCTAATTGTCT 60.092 37.037 7.08 0.00 0.00 3.41
428 429 2.036217 CATCACAACAAACGTTCGCTG 58.964 47.619 0.00 0.00 0.00 5.18
431 432 2.098215 TGCATCACAACAAACGTTCG 57.902 45.000 0.00 0.00 0.00 3.95
435 436 0.976963 GCGATGCATCACAACAAACG 59.023 50.000 25.70 10.56 0.00 3.60
441 442 1.631284 GCAATTGCGATGCATCACAA 58.369 45.000 27.27 27.27 43.29 3.33
453 454 4.640956 CCATAAAAAGCTTTCGCAATTGC 58.359 39.130 20.76 20.76 39.10 3.56
525 526 6.510638 GCAGAAAATTCTTTGTTTTGCCAGAG 60.511 38.462 0.00 0.00 34.74 3.35
660 662 3.198872 GGTTGGGCAAAAACGAAAATGA 58.801 40.909 0.00 0.00 0.00 2.57
667 669 1.663135 CAAAGTGGTTGGGCAAAAACG 59.337 47.619 0.00 0.00 33.18 3.60
686 688 1.346197 GTCGCTCGTCGTCGTATCA 59.654 57.895 1.33 0.00 39.67 2.15
774 779 2.568623 ATTCGGTGCATATTCCCTCC 57.431 50.000 0.00 0.00 0.00 4.30
811 816 1.959226 GGAGCGACAGGTTTTGCGA 60.959 57.895 0.00 0.00 0.00 5.10
854 2272 1.144936 GGGCTGACGATCCAGAAGG 59.855 63.158 3.41 0.00 36.29 3.46
922 2340 1.359130 TCTCTGTGGATGGAGTGGAGA 59.641 52.381 0.00 0.00 0.00 3.71
964 2382 4.771356 ATCGACGGTGGTGACGCG 62.771 66.667 3.53 3.53 43.50 6.01
965 2383 2.879462 GATCGACGGTGGTGACGC 60.879 66.667 0.00 0.00 41.20 5.19
966 2384 2.202570 GGATCGACGGTGGTGACG 60.203 66.667 0.00 0.00 37.36 4.35
967 2385 2.183555 GGGATCGACGGTGGTGAC 59.816 66.667 0.00 0.00 0.00 3.67
968 2386 3.072468 GGGGATCGACGGTGGTGA 61.072 66.667 0.00 0.00 0.00 4.02
969 2387 4.157120 GGGGGATCGACGGTGGTG 62.157 72.222 0.00 0.00 0.00 4.17
1027 2445 1.590147 GGTCGTCTTCGTGGGTGAT 59.410 57.895 0.00 0.00 38.33 3.06
1034 2452 4.719369 GCTGCCGGTCGTCTTCGT 62.719 66.667 1.90 0.00 38.33 3.85
1212 2654 3.717294 ACGCCCTGGTCCACCATC 61.717 66.667 0.00 0.00 46.46 3.51
1366 2818 2.087646 GAGGCACCTGGAGAAATCAAC 58.912 52.381 0.00 0.00 0.00 3.18
1433 2885 2.110006 GGAAGAGCCTGATCCCGC 59.890 66.667 0.00 0.00 0.00 6.13
1589 3053 1.074566 CCCCCTCTTTTCTCACTTGCT 59.925 52.381 0.00 0.00 0.00 3.91
1650 3114 1.332195 AGACCAAAGGGCAAAGCTTC 58.668 50.000 0.00 0.00 37.90 3.86
1694 3159 6.627395 TTATTTCTTCGGACAAGCAAGAAA 57.373 33.333 8.17 8.17 45.55 2.52
2119 3606 4.957296 ACTCGACAGTGGACATTTAAACT 58.043 39.130 0.00 0.00 0.00 2.66
2292 3783 5.399013 GGTTAACGATTTCCTCAACAATGG 58.601 41.667 0.00 0.00 0.00 3.16
2317 3808 1.001406 GCCAGCCTATCGAGCAACTAT 59.999 52.381 0.00 0.00 0.00 2.12
2384 3887 9.800433 TGTGTAACCGATAAACTAATAAATCGA 57.200 29.630 5.22 0.00 40.74 3.59
2404 3907 5.011329 CCCTACTTGTAAGGTCACTGTGTAA 59.989 44.000 7.79 0.00 31.70 2.41
2410 3913 7.417570 CGATTAATCCCTACTTGTAAGGTCACT 60.418 40.741 9.87 0.00 31.70 3.41
2438 3941 7.925043 TTTAGCCGATTAACCAGTTAAATGA 57.075 32.000 4.10 0.00 38.38 2.57
2593 4099 7.867305 TTTCAAGTGTTATTTGTGTGTCCTA 57.133 32.000 0.00 0.00 0.00 2.94
2776 4282 4.640201 ACAACAACTGAGCAACATAACAGT 59.360 37.500 0.00 0.00 43.92 3.55
2914 4452 7.951530 AAAATACTCCATGCAAAAAGACAAG 57.048 32.000 0.00 0.00 0.00 3.16
2915 4453 9.995003 ATAAAAATACTCCATGCAAAAAGACAA 57.005 25.926 0.00 0.00 0.00 3.18
2916 4454 9.638239 GATAAAAATACTCCATGCAAAAAGACA 57.362 29.630 0.00 0.00 0.00 3.41
2917 4455 9.860898 AGATAAAAATACTCCATGCAAAAAGAC 57.139 29.630 0.00 0.00 0.00 3.01
2920 4458 9.651913 GGAAGATAAAAATACTCCATGCAAAAA 57.348 29.630 0.00 0.00 0.00 1.94
2921 4459 9.034800 AGGAAGATAAAAATACTCCATGCAAAA 57.965 29.630 0.00 0.00 0.00 2.44
2922 4460 8.593945 AGGAAGATAAAAATACTCCATGCAAA 57.406 30.769 0.00 0.00 0.00 3.68
2923 4461 9.693739 TTAGGAAGATAAAAATACTCCATGCAA 57.306 29.630 0.00 0.00 0.00 4.08
2924 4462 9.866655 ATTAGGAAGATAAAAATACTCCATGCA 57.133 29.630 0.00 0.00 0.00 3.96
2937 4475 9.729281 AGTCGTTTGGTTAATTAGGAAGATAAA 57.271 29.630 0.00 0.00 0.00 1.40
2938 4476 9.729281 AAGTCGTTTGGTTAATTAGGAAGATAA 57.271 29.630 0.00 0.00 0.00 1.75
2939 4477 9.158233 CAAGTCGTTTGGTTAATTAGGAAGATA 57.842 33.333 0.00 0.00 32.95 1.98
2940 4478 7.664318 ACAAGTCGTTTGGTTAATTAGGAAGAT 59.336 33.333 7.20 0.00 41.25 2.40
2941 4479 6.993902 ACAAGTCGTTTGGTTAATTAGGAAGA 59.006 34.615 7.20 0.00 41.25 2.87
2942 4480 7.075741 CACAAGTCGTTTGGTTAATTAGGAAG 58.924 38.462 7.20 0.00 41.25 3.46
2943 4481 6.543100 ACACAAGTCGTTTGGTTAATTAGGAA 59.457 34.615 7.20 0.00 41.25 3.36
2944 4482 6.056884 ACACAAGTCGTTTGGTTAATTAGGA 58.943 36.000 7.20 0.00 41.25 2.94
2945 4483 6.308371 ACACAAGTCGTTTGGTTAATTAGG 57.692 37.500 7.20 0.00 41.25 2.69
3330 4912 3.648339 ACATGTTCACCTTTCATGTGC 57.352 42.857 8.82 0.00 46.49 4.57
3356 4938 9.249457 GATAAAAGAATCCGATTCCATTTTTCC 57.751 33.333 18.74 11.39 40.13 3.13
3445 5027 7.767250 TCAGTCTGATCTGAACTTTCTCTAA 57.233 36.000 3.59 0.00 40.82 2.10
3570 5152 2.354805 GGGAGTAGCAAGTTACCCAGTG 60.355 54.545 0.00 0.00 37.50 3.66
3571 5153 1.907255 GGGAGTAGCAAGTTACCCAGT 59.093 52.381 0.00 0.00 37.50 4.00
3572 5154 2.168728 GAGGGAGTAGCAAGTTACCCAG 59.831 54.545 0.00 0.00 39.73 4.45
3573 5155 2.185387 GAGGGAGTAGCAAGTTACCCA 58.815 52.381 0.00 0.00 39.73 4.51
3574 5156 1.485480 GGAGGGAGTAGCAAGTTACCC 59.515 57.143 0.00 0.00 37.79 3.69
3575 5157 1.136500 CGGAGGGAGTAGCAAGTTACC 59.864 57.143 0.00 0.00 0.00 2.85
3576 5158 1.823610 ACGGAGGGAGTAGCAAGTTAC 59.176 52.381 0.00 0.00 0.00 2.50
3577 5159 2.226962 ACGGAGGGAGTAGCAAGTTA 57.773 50.000 0.00 0.00 0.00 2.24
3578 5160 1.275573 GAACGGAGGGAGTAGCAAGTT 59.724 52.381 0.00 0.00 0.00 2.66
3579 5161 0.896226 GAACGGAGGGAGTAGCAAGT 59.104 55.000 0.00 0.00 0.00 3.16
3580 5162 0.175989 GGAACGGAGGGAGTAGCAAG 59.824 60.000 0.00 0.00 0.00 4.01
3581 5163 0.252103 AGGAACGGAGGGAGTAGCAA 60.252 55.000 0.00 0.00 0.00 3.91
3582 5164 0.627451 TAGGAACGGAGGGAGTAGCA 59.373 55.000 0.00 0.00 0.00 3.49
3583 5165 1.772836 TTAGGAACGGAGGGAGTAGC 58.227 55.000 0.00 0.00 0.00 3.58
3584 5166 6.667558 AATATTTAGGAACGGAGGGAGTAG 57.332 41.667 0.00 0.00 0.00 2.57
3608 5190 9.559732 TCATTTGTTGAAATCTCTAGAAAGACA 57.440 29.630 0.00 0.00 28.65 3.41
3610 5192 9.784531 AGTCATTTGTTGAAATCTCTAGAAAGA 57.215 29.630 0.00 0.00 35.70 2.52
3613 5195 9.996554 TGTAGTCATTTGTTGAAATCTCTAGAA 57.003 29.630 0.00 0.00 35.70 2.10
3618 5200 8.116753 CCGTATGTAGTCATTTGTTGAAATCTC 58.883 37.037 0.00 0.00 35.70 2.75
3619 5201 7.822334 TCCGTATGTAGTCATTTGTTGAAATCT 59.178 33.333 0.00 0.00 35.70 2.40
3620 5202 7.970384 TCCGTATGTAGTCATTTGTTGAAATC 58.030 34.615 0.00 0.00 35.70 2.17
3621 5203 7.606456 ACTCCGTATGTAGTCATTTGTTGAAAT 59.394 33.333 0.00 0.00 35.70 2.17
3622 5204 6.932400 ACTCCGTATGTAGTCATTTGTTGAAA 59.068 34.615 0.00 0.00 35.70 2.69
3624 5206 6.032956 ACTCCGTATGTAGTCATTTGTTGA 57.967 37.500 0.00 0.00 35.70 3.18
3625 5207 7.821595 TTACTCCGTATGTAGTCATTTGTTG 57.178 36.000 0.00 0.00 35.70 3.33
3626 5208 8.836268 TTTTACTCCGTATGTAGTCATTTGTT 57.164 30.769 0.00 0.00 35.70 2.83
3627 5209 8.879759 CATTTTACTCCGTATGTAGTCATTTGT 58.120 33.333 0.00 0.00 35.70 2.83
3628 5210 9.093970 TCATTTTACTCCGTATGTAGTCATTTG 57.906 33.333 0.00 0.00 35.70 2.32
3631 5213 8.008513 ACTCATTTTACTCCGTATGTAGTCAT 57.991 34.615 0.00 0.00 38.00 3.06
3633 5215 9.793252 TTTACTCATTTTACTCCGTATGTAGTC 57.207 33.333 0.00 0.00 0.00 2.59
3640 5222 9.793252 GTGTAGATTTACTCATTTTACTCCGTA 57.207 33.333 0.00 0.00 0.00 4.02
3641 5223 8.529476 AGTGTAGATTTACTCATTTTACTCCGT 58.471 33.333 0.00 0.00 0.00 4.69
3642 5224 8.928270 AGTGTAGATTTACTCATTTTACTCCG 57.072 34.615 0.00 0.00 0.00 4.63
3676 5258 9.511272 ACTACCACATACGAATGTATATAGACA 57.489 33.333 2.07 2.07 44.70 3.41
3677 5259 9.985318 GACTACCACATACGAATGTATATAGAC 57.015 37.037 0.00 0.00 44.70 2.59
3678 5260 9.170734 GGACTACCACATACGAATGTATATAGA 57.829 37.037 0.00 0.00 44.70 1.98
3679 5261 8.953313 TGGACTACCACATACGAATGTATATAG 58.047 37.037 0.00 0.00 44.70 1.31
3680 5262 8.866970 TGGACTACCACATACGAATGTATATA 57.133 34.615 0.00 0.00 44.70 0.86
3681 5263 7.770366 TGGACTACCACATACGAATGTATAT 57.230 36.000 0.00 0.00 44.70 0.86
3697 5279 9.841880 GTCTTTTTAGATTTCAAATGGACTACC 57.158 33.333 0.00 0.00 0.00 3.18
3719 5301 5.397559 CCCTCCGGTCCTAAATATTTGTCTT 60.398 44.000 11.05 0.00 0.00 3.01
3720 5302 4.102681 CCCTCCGGTCCTAAATATTTGTCT 59.897 45.833 11.05 0.00 0.00 3.41
3721 5303 4.102054 TCCCTCCGGTCCTAAATATTTGTC 59.898 45.833 11.05 0.00 0.00 3.18
3722 5304 4.042174 TCCCTCCGGTCCTAAATATTTGT 58.958 43.478 11.05 0.00 0.00 2.83
3724 5306 4.304659 ACTCCCTCCGGTCCTAAATATTT 58.695 43.478 0.00 5.89 0.00 1.40
3725 5307 3.937751 ACTCCCTCCGGTCCTAAATATT 58.062 45.455 0.00 0.00 0.00 1.28
3732 5314 0.186386 CATCTACTCCCTCCGGTCCT 59.814 60.000 0.00 0.00 0.00 3.85
3733 5315 0.828343 CCATCTACTCCCTCCGGTCC 60.828 65.000 0.00 0.00 0.00 4.46
3734 5316 1.465200 GCCATCTACTCCCTCCGGTC 61.465 65.000 0.00 0.00 0.00 4.79
3735 5317 1.457831 GCCATCTACTCCCTCCGGT 60.458 63.158 0.00 0.00 0.00 5.28
3736 5318 0.833834 ATGCCATCTACTCCCTCCGG 60.834 60.000 0.00 0.00 0.00 5.14
3748 5330 7.930217 TGCTTTCTTATACTGTAAATGCCATC 58.070 34.615 0.00 0.00 0.00 3.51
3749 5331 7.469181 GCTGCTTTCTTATACTGTAAATGCCAT 60.469 37.037 0.00 0.00 0.00 4.40
3751 5333 6.038714 AGCTGCTTTCTTATACTGTAAATGCC 59.961 38.462 0.00 0.00 0.00 4.40
3754 5336 8.792830 TCAAGCTGCTTTCTTATACTGTAAAT 57.207 30.769 13.10 0.00 0.00 1.40
3755 5337 8.615878 TTCAAGCTGCTTTCTTATACTGTAAA 57.384 30.769 13.10 0.00 0.00 2.01
3756 5338 7.878127 ACTTCAAGCTGCTTTCTTATACTGTAA 59.122 33.333 13.10 0.00 0.00 2.41
3757 5339 7.386851 ACTTCAAGCTGCTTTCTTATACTGTA 58.613 34.615 13.10 0.00 0.00 2.74
3758 5340 6.234177 ACTTCAAGCTGCTTTCTTATACTGT 58.766 36.000 13.10 0.00 0.00 3.55
3759 5341 6.734104 ACTTCAAGCTGCTTTCTTATACTG 57.266 37.500 13.10 0.00 0.00 2.74
3760 5342 6.150140 CCAACTTCAAGCTGCTTTCTTATACT 59.850 38.462 13.10 0.00 0.00 2.12
3941 5531 0.740868 TTTCAGAGCCTCGCGGATTG 60.741 55.000 6.13 0.00 0.00 2.67
3999 5589 6.360618 GTCAGGGGAAGAAATGACTCATAAT 58.639 40.000 0.00 0.00 39.15 1.28
4111 5701 9.206870 CCAAACAAACAGCAATGTAGATAAAAT 57.793 29.630 0.00 0.00 0.00 1.82
4117 5707 3.243704 GGCCAAACAAACAGCAATGTAGA 60.244 43.478 0.00 0.00 0.00 2.59
4122 5712 1.485895 ACAGGCCAAACAAACAGCAAT 59.514 42.857 5.01 0.00 0.00 3.56
4171 5761 4.905295 GCTGCACATTTTTATGTTTGCAAC 59.095 37.500 0.00 0.00 34.50 4.17
4259 5850 1.195900 GCAAAACGCTGGTATTCGTCA 59.804 47.619 0.00 0.00 38.03 4.35
4329 5920 6.405176 GCTGGTAAATGCTTTAAGCTTGAGAT 60.405 38.462 18.20 0.00 42.97 2.75
4380 5971 1.227380 CCAGAGGCCGCTGATGTAC 60.227 63.158 35.07 2.32 38.14 2.90
4511 6106 4.326826 TGTCAGGGTCAACTTCATGATTC 58.673 43.478 0.00 0.00 0.00 2.52
4565 6160 4.606210 TGCGGCCTATCTAATATCTACCA 58.394 43.478 0.00 0.00 0.00 3.25
4722 6329 7.678947 GGACAGATCCAATTGATAATACCAG 57.321 40.000 7.12 0.00 45.47 4.00
4790 6397 4.937620 TCAGTGGCATCTTTTAAGCAGTAG 59.062 41.667 0.00 0.00 0.00 2.57
4889 6496 4.344102 AGCATACCCTTTAGTCTCGCATTA 59.656 41.667 0.00 0.00 0.00 1.90
4955 6563 2.093658 GCTCGTCCCTTAGTTCCATTGA 60.094 50.000 0.00 0.00 0.00 2.57
4977 6585 3.366273 CCGTTTTCACAGGAATCATGTGG 60.366 47.826 24.86 10.49 46.43 4.17
5068 6679 6.804534 TTGCGTTGTGTTGATTAAAGAAAG 57.195 33.333 0.00 0.00 0.00 2.62
5086 6697 2.158871 TCTCACTTACCACCTTTTGCGT 60.159 45.455 0.00 0.00 0.00 5.24
5088 6699 5.222631 CAAATCTCACTTACCACCTTTTGC 58.777 41.667 0.00 0.00 0.00 3.68
5115 6726 0.883814 CGATGCCCTCTCCATTGAGC 60.884 60.000 0.00 0.00 38.58 4.26
5159 6770 6.096001 GTGATCAATTACCAGCCTTTCTCATT 59.904 38.462 0.00 0.00 0.00 2.57
5254 6865 4.116747 TGTTTTTGTTTTGATCGCCTGT 57.883 36.364 0.00 0.00 0.00 4.00
5284 6895 1.047801 GTGGGGTTTTGGTGCTGATT 58.952 50.000 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.