Multiple sequence alignment - TraesCS4A01G167500

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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 TraesCS4A01G167500 chr4A 100.000 6940 0 0 1 6940 415677419 415684358 0.000000e+00 12816.0
1 TraesCS4A01G167500 chr4B 95.884 6876 179 51 15 6842 203853796 203846977 0.000000e+00 11034.0
2 TraesCS4A01G167500 chr4B 84.615 65 6 3 6569 6633 652268664 652268604 2.090000e-05 62.1
3 TraesCS4A01G167500 chr4D 97.040 6520 156 16 1 6511 172020024 172026515 0.000000e+00 10936.0
4 TraesCS4A01G167500 chr1A 86.579 2496 309 22 3456 5941 208212422 208209943 0.000000e+00 2730.0
5 TraesCS4A01G167500 chr1A 86.449 856 114 2 4357 5211 207986861 207986007 0.000000e+00 937.0
6 TraesCS4A01G167500 chr1A 79.635 712 120 23 2069 2772 208213873 208213179 8.090000e-134 488.0
7 TraesCS4A01G167500 chr1A 84.127 441 63 7 5210 5645 207957766 207957328 2.990000e-113 420.0
8 TraesCS4A01G167500 chr1A 84.615 65 6 2 6569 6633 506544517 506544457 2.090000e-05 62.1
9 TraesCS4A01G167500 chr1D 86.520 2500 309 24 3453 5941 153773325 153775807 0.000000e+00 2724.0
10 TraesCS4A01G167500 chr1D 79.190 716 121 24 2069 2772 153771932 153772631 8.150000e-129 472.0
11 TraesCS4A01G167500 chr1D 84.615 65 6 3 6569 6633 410499445 410499385 2.090000e-05 62.1
12 TraesCS4A01G167500 chr1B 85.914 2499 326 21 3453 5941 230946425 230948907 0.000000e+00 2641.0
13 TraesCS4A01G167500 chr1B 78.711 714 118 28 2069 2772 230945066 230945755 4.940000e-121 446.0
14 TraesCS4A01G167500 chr5D 80.600 1567 195 55 1038 2540 55546089 55544568 0.000000e+00 1109.0
15 TraesCS4A01G167500 chr5D 80.678 1092 133 56 1506 2540 55549413 55548343 0.000000e+00 776.0
16 TraesCS4A01G167500 chr5D 83.387 626 66 19 3086 3691 55543965 55543358 4.730000e-151 545.0
17 TraesCS4A01G167500 chr5D 87.799 418 37 10 3751 4167 55548071 55547667 1.750000e-130 477.0
18 TraesCS4A01G167500 chr5D 84.067 477 56 9 2549 3008 55544479 55544006 6.390000e-120 442.0
19 TraesCS4A01G167500 chr5D 86.126 382 42 9 1038 1416 55549836 55549463 1.080000e-107 401.0
20 TraesCS4A01G167500 chr5B 81.421 1098 122 45 1506 2540 57977874 57976796 0.000000e+00 822.0
21 TraesCS4A01G167500 chr5B 87.023 262 26 6 3291 3546 57975868 57975609 8.810000e-74 289.0
22 TraesCS4A01G167500 chr5B 85.816 282 25 11 1126 1405 57978257 57977989 1.140000e-72 285.0
23 TraesCS4A01G167500 chr5B 90.196 204 18 2 2549 2751 57976707 57976505 1.480000e-66 265.0
24 TraesCS4A01G167500 chr5B 80.000 290 37 13 2735 3008 57976487 57976203 1.980000e-45 195.0
25 TraesCS4A01G167500 chr5B 94.737 38 2 0 3767 3804 57975603 57975566 7.520000e-05 60.2
26 TraesCS4A01G167500 chr5A 80.897 1026 124 44 1572 2540 44287779 44286769 0.000000e+00 743.0
27 TraesCS4A01G167500 chr5A 81.250 672 77 32 3046 3691 44286204 44285556 1.340000e-136 497.0
28 TraesCS4A01G167500 chr5A 83.473 478 58 12 2549 3008 44286681 44286207 6.430000e-115 425.0
29 TraesCS4A01G167500 chr3B 84.058 69 1 3 6566 6633 707528781 707528840 2.700000e-04 58.4
30 TraesCS4A01G167500 chr2D 100.000 30 0 0 6569 6598 481454307 481454336 1.000000e-03 56.5
31 TraesCS4A01G167500 chr7B 82.609 69 4 6 6569 6633 128342670 128342734 3.000000e-03 54.7
32 TraesCS4A01G167500 chr6D 82.090 67 7 4 6569 6633 444891853 444891790 1.300000e-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 TraesCS4A01G167500 chr4A 415677419 415684358 6939 False 12816.000000 12816 100.000000 1 6940 1 chr4A.!!$F1 6939
1 TraesCS4A01G167500 chr4B 203846977 203853796 6819 True 11034.000000 11034 95.884000 15 6842 1 chr4B.!!$R1 6827
2 TraesCS4A01G167500 chr4D 172020024 172026515 6491 False 10936.000000 10936 97.040000 1 6511 1 chr4D.!!$F1 6510
3 TraesCS4A01G167500 chr1A 208209943 208213873 3930 True 1609.000000 2730 83.107000 2069 5941 2 chr1A.!!$R4 3872
4 TraesCS4A01G167500 chr1A 207986007 207986861 854 True 937.000000 937 86.449000 4357 5211 1 chr1A.!!$R2 854
5 TraesCS4A01G167500 chr1D 153771932 153775807 3875 False 1598.000000 2724 82.855000 2069 5941 2 chr1D.!!$F1 3872
6 TraesCS4A01G167500 chr1B 230945066 230948907 3841 False 1543.500000 2641 82.312500 2069 5941 2 chr1B.!!$F1 3872
7 TraesCS4A01G167500 chr5D 55543358 55549836 6478 True 625.000000 1109 83.776167 1038 4167 6 chr5D.!!$R1 3129
8 TraesCS4A01G167500 chr5B 57975566 57978257 2691 True 319.366667 822 86.532167 1126 3804 6 chr5B.!!$R1 2678
9 TraesCS4A01G167500 chr5A 44285556 44287779 2223 True 555.000000 743 81.873333 1572 3691 3 chr5A.!!$R1 2119

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
662 666 0.968901 ACCCATGAAGGTGCTGCATG 60.969 55.0 5.27 0.00 44.78 4.06 F
1645 4390 0.759346 ACGAGCCAACAAGAGGTCTT 59.241 50.0 0.00 0.00 36.45 3.01 F
2858 5817 1.609208 TGTTGGAGCCTTGCTTTCTC 58.391 50.0 0.00 0.00 39.88 2.87 F
3199 6370 0.111061 CCATAGCAGCCTATTGCCCA 59.889 55.0 0.00 0.00 45.18 5.36 F
3833 7145 1.101635 ATGCATACAGCTGCTGGCAG 61.102 55.0 31.00 20.48 45.94 4.85 F
5740 9055 0.676151 ACTAGTGGACCGAGACCGAC 60.676 60.0 0.00 0.00 38.22 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2244 5042 2.037144 ACGCCTATCCACGGTTCTAAT 58.963 47.619 0.00 0.00 0.00 1.73 R
2897 5858 1.813513 ACTTTCAGAGTGGCGGATTG 58.186 50.000 0.00 0.00 37.17 2.67 R
4565 7877 1.002468 CAACACGGAACCTGCTTTCTG 60.002 52.381 0.00 0.00 37.80 3.02 R
5002 8314 2.114670 CATCGGGCAAGTTGGCGAT 61.115 57.895 21.73 21.87 44.78 4.58 R
5765 9080 1.837090 GGCCGTCATACCCATCCTT 59.163 57.895 0.00 0.00 0.00 3.36 R
6897 10249 0.179094 TATCCAACGCCACCATCGTC 60.179 55.000 0.00 0.00 39.48 4.20 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
30 31 2.766313 TGTTGTCGCTGATAGCTTTGT 58.234 42.857 0.00 0.00 39.60 2.83
36 37 4.935205 TGTCGCTGATAGCTTTGTTACAAT 59.065 37.500 0.00 0.00 39.60 2.71
219 220 5.848286 ACCTATCTTCCATATCCATTGCA 57.152 39.130 0.00 0.00 0.00 4.08
340 341 6.153340 CCAAATTATGGTGACCAATCTGTCTT 59.847 38.462 9.06 0.00 44.85 3.01
662 666 0.968901 ACCCATGAAGGTGCTGCATG 60.969 55.000 5.27 0.00 44.78 4.06
720 724 8.652290 GTTTGTATATCTTAGAATCCAGGACCT 58.348 37.037 0.00 0.00 0.00 3.85
737 741 3.323979 GGACCTGGACTGTTAGAACTCAA 59.676 47.826 0.00 0.00 0.00 3.02
774 778 2.106166 GAGAACAGGCTGATCCATCCAT 59.894 50.000 23.66 1.13 37.29 3.41
1049 3761 1.198713 CATGACCCCACAGAGCTAGT 58.801 55.000 0.00 0.00 0.00 2.57
1188 3900 8.380742 ACAATCCTCCAAAGAGATCTAAGTTA 57.619 34.615 0.00 0.00 43.39 2.24
1488 4233 7.171848 TGGTCAAAGAAAATGAATGCTGAAATG 59.828 33.333 0.00 0.00 0.00 2.32
1576 4321 1.966451 CAGTTCAAGGGCCGACCAC 60.966 63.158 0.00 0.00 43.89 4.16
1645 4390 0.759346 ACGAGCCAACAAGAGGTCTT 59.241 50.000 0.00 0.00 36.45 3.01
1675 4421 5.069516 TCCAAGAAAGAAGCTTCAGCAAATT 59.930 36.000 27.57 9.72 45.16 1.82
1835 4587 8.402798 TGAATACAGTTGCTTAATCTGGAAAA 57.597 30.769 0.00 0.00 34.02 2.29
2047 4835 4.201881 GGAAAGACTACTTTTGCACGTGTT 60.202 41.667 18.38 0.00 44.97 3.32
2204 5001 5.755861 GCTACACAGTTCTTATGAGGAATCC 59.244 44.000 0.00 0.00 0.00 3.01
2411 5237 8.437360 TTGTTCTACCAGCACATGAATATAAG 57.563 34.615 0.00 0.00 0.00 1.73
2589 5498 3.969117 TTTTAGCTGCACAGTCAAGTG 57.031 42.857 1.02 0.00 42.37 3.16
2685 5594 3.879295 GCGCCATATGCCTAATGATACAT 59.121 43.478 0.00 0.00 36.24 2.29
2795 5749 7.753309 TTATTTGTTTCTTAGCTGGCTAACA 57.247 32.000 10.53 7.56 35.06 2.41
2858 5817 1.609208 TGTTGGAGCCTTGCTTTCTC 58.391 50.000 0.00 0.00 39.88 2.87
2897 5858 8.922058 ATCATTGTGAATGCTCATTCTTTAAC 57.078 30.769 19.59 11.88 45.55 2.01
2899 5860 8.358895 TCATTGTGAATGCTCATTCTTTAACAA 58.641 29.630 19.59 19.45 45.55 2.83
2901 5862 8.746922 TTGTGAATGCTCATTCTTTAACAATC 57.253 30.769 19.59 0.00 45.55 2.67
2902 5863 7.315142 TGTGAATGCTCATTCTTTAACAATCC 58.685 34.615 19.59 0.00 45.55 3.01
2917 5878 2.301870 ACAATCCGCCACTCTGAAAGTA 59.698 45.455 0.00 0.00 36.07 2.24
2931 5892 8.407064 CACTCTGAAAGTAAATACTATCTCCGT 58.593 37.037 0.00 0.00 36.07 4.69
2977 5941 1.126890 CTGCTCTCGTCATACATGCG 58.873 55.000 0.00 0.00 0.00 4.73
3008 5972 9.455847 GTATCCACAATAAATGAGATTTTCTGC 57.544 33.333 0.00 0.00 33.82 4.26
3199 6370 0.111061 CCATAGCAGCCTATTGCCCA 59.889 55.000 0.00 0.00 45.18 5.36
3206 6378 2.818970 GCAGCCTATTGCCCAATGGATA 60.819 50.000 0.00 0.00 42.71 2.59
3242 6414 2.337583 GCAGCTAAACGTCACTCATCA 58.662 47.619 0.00 0.00 0.00 3.07
3284 6456 5.012975 AGGTTCATGGGCATATTTGTTTTGT 59.987 36.000 0.00 0.00 0.00 2.83
3833 7145 1.101635 ATGCATACAGCTGCTGGCAG 61.102 55.000 31.00 20.48 45.94 4.85
4565 7877 2.064762 GATGTCACGCCTGCTGATATC 58.935 52.381 0.00 0.00 31.57 1.63
4692 8004 2.076863 AGCAGTGGTCGCAAGTTATTC 58.923 47.619 0.00 0.00 39.48 1.75
4695 8007 2.673368 CAGTGGTCGCAAGTTATTCTCC 59.327 50.000 0.00 0.00 39.48 3.71
4848 8160 3.191162 CCACTGTTATTAGCAAAGCAGCA 59.809 43.478 0.00 0.00 36.85 4.41
5002 8314 4.441079 GCCGCCTTACAGATAGTGAAAGTA 60.441 45.833 0.00 0.00 0.00 2.24
5047 8359 9.524496 AGGCATTCTATAAAGATGCATTAATGA 57.476 29.630 19.73 4.96 37.69 2.57
5097 8409 1.068250 GCGTGAGTCCCATAGAGGC 59.932 63.158 0.00 0.00 35.39 4.70
5394 8706 4.092383 GTCGGTTTTGTTGCAGATATACGT 59.908 41.667 0.00 0.00 0.00 3.57
5521 8836 4.023279 TGCTAGTTTTGTGCCATTGTACTG 60.023 41.667 0.00 0.00 0.00 2.74
5669 8984 5.971763 AGTGACTTCCTAGCTATGAACAAG 58.028 41.667 7.31 1.79 0.00 3.16
5740 9055 0.676151 ACTAGTGGACCGAGACCGAC 60.676 60.000 0.00 0.00 38.22 4.79
6041 9356 3.819564 TGCTACTAATCGGATGCTGTT 57.180 42.857 0.00 0.00 0.00 3.16
6050 9365 1.024271 CGGATGCTGTTGTATTGGGG 58.976 55.000 0.00 0.00 0.00 4.96
6055 9370 1.185315 GCTGTTGTATTGGGGCATGT 58.815 50.000 0.00 0.00 0.00 3.21
6150 9466 2.691409 ACGGAGTTACATGGACCATG 57.309 50.000 29.36 29.36 43.04 3.66
6186 9502 1.376424 AGCTGGACAGATGTTGCCG 60.376 57.895 3.00 0.00 0.00 5.69
6199 9515 0.037790 GTTGCCGGGCATTGCTTTAA 60.038 50.000 24.49 1.38 38.76 1.52
6248 9564 2.800736 GCGAGCGGGCATTTTCAT 59.199 55.556 0.00 0.00 0.00 2.57
6303 9619 3.426292 GGCTAGGTCATTTTGAAACGCTC 60.426 47.826 0.00 0.00 0.00 5.03
6304 9620 3.188460 GCTAGGTCATTTTGAAACGCTCA 59.812 43.478 0.00 0.00 0.00 4.26
6305 9621 4.142600 GCTAGGTCATTTTGAAACGCTCAT 60.143 41.667 0.00 0.00 32.78 2.90
6387 9703 1.680338 AGACCGCCTGCATAAATTCC 58.320 50.000 0.00 0.00 0.00 3.01
6424 9744 3.935203 ACAGAAATCCGCATGTAGAACAG 59.065 43.478 0.00 0.00 0.00 3.16
6440 9760 5.520748 AGAACAGGTCCATAATCTGGTTT 57.479 39.130 0.00 0.00 46.08 3.27
6441 9761 5.501156 AGAACAGGTCCATAATCTGGTTTC 58.499 41.667 0.00 0.00 46.08 2.78
6462 9782 2.102578 GGTATTCTGTTTGGCATGGCT 58.897 47.619 21.08 0.00 0.00 4.75
6465 9785 1.250328 TTCTGTTTGGCATGGCTGAG 58.750 50.000 21.08 10.37 0.00 3.35
6481 9801 0.035317 TGAGTCTTGGATGCTGCGTT 59.965 50.000 0.00 0.00 0.00 4.84
6504 9824 0.179197 CGATGCTTCTGTGCTTGCAG 60.179 55.000 0.00 0.00 38.87 4.41
6519 9839 6.652900 TGTGCTTGCAGTGTCTTAATATTGTA 59.347 34.615 0.00 0.00 0.00 2.41
6520 9840 7.174080 TGTGCTTGCAGTGTCTTAATATTGTAA 59.826 33.333 0.00 0.00 0.00 2.41
6521 9841 7.693951 GTGCTTGCAGTGTCTTAATATTGTAAG 59.306 37.037 0.00 0.00 32.32 2.34
6522 9842 7.390440 TGCTTGCAGTGTCTTAATATTGTAAGT 59.610 33.333 0.00 0.00 31.99 2.24
6523 9843 8.879759 GCTTGCAGTGTCTTAATATTGTAAGTA 58.120 33.333 0.00 0.00 31.99 2.24
6525 9845 9.938280 TTGCAGTGTCTTAATATTGTAAGTACT 57.062 29.630 0.00 0.00 33.74 2.73
6526 9846 9.582431 TGCAGTGTCTTAATATTGTAAGTACTC 57.418 33.333 0.00 0.00 32.48 2.59
6527 9847 9.032420 GCAGTGTCTTAATATTGTAAGTACTCC 57.968 37.037 0.00 0.00 32.48 3.85
6545 9865 3.833070 ACTCCTTCTGTAAACATCCGTCT 59.167 43.478 0.00 0.00 0.00 4.18
6557 9877 8.497554 TGTAAACATCCGTCTGTAAACAAATAC 58.502 33.333 0.00 0.00 0.00 1.89
6559 9879 7.739498 AACATCCGTCTGTAAACAAATACTT 57.261 32.000 0.00 0.00 0.00 2.24
6560 9880 7.129109 ACATCCGTCTGTAAACAAATACTTG 57.871 36.000 0.00 0.00 38.61 3.16
6561 9881 6.148811 ACATCCGTCTGTAAACAAATACTTGG 59.851 38.462 0.00 0.00 36.82 3.61
6563 9883 6.757237 TCCGTCTGTAAACAAATACTTGGTA 58.243 36.000 0.00 0.00 36.82 3.25
6564 9884 7.388437 TCCGTCTGTAAACAAATACTTGGTAT 58.612 34.615 0.00 0.00 36.82 2.73
6565 9885 8.530311 TCCGTCTGTAAACAAATACTTGGTATA 58.470 33.333 0.00 0.00 36.82 1.47
6602 9923 7.497925 AGAGCGTTTAAATCATTATTCCTCC 57.502 36.000 0.00 0.00 0.00 4.30
6603 9924 7.054124 AGAGCGTTTAAATCATTATTCCTCCA 58.946 34.615 0.00 0.00 0.00 3.86
6604 9925 7.227512 AGAGCGTTTAAATCATTATTCCTCCAG 59.772 37.037 0.00 0.00 0.00 3.86
6606 9927 6.912591 GCGTTTAAATCATTATTCCTCCAGTG 59.087 38.462 0.00 0.00 0.00 3.66
6616 9945 6.884472 TTATTCCTCCAGTGGATCTAAACA 57.116 37.500 13.56 0.00 35.83 2.83
6737 10078 1.275291 TCACAAGTGTACCTAGCTGCC 59.725 52.381 0.00 0.00 0.00 4.85
6742 10083 2.063979 TGTACCTAGCTGCCGGCAT 61.064 57.895 32.87 19.78 44.79 4.40
6770 10122 2.063378 CCTCTGGTGGCTCTCCTCC 61.063 68.421 0.00 0.00 44.43 4.30
6772 10124 2.363018 CTGGTGGCTCTCCTCCGA 60.363 66.667 0.00 0.00 46.56 4.55
6775 10127 2.750637 GTGGCTCTCCTCCGACGA 60.751 66.667 0.00 0.00 0.00 4.20
6776 10128 2.122167 GTGGCTCTCCTCCGACGAT 61.122 63.158 0.00 0.00 0.00 3.73
6779 10131 1.175983 GGCTCTCCTCCGACGATGAT 61.176 60.000 0.00 0.00 0.00 2.45
6786 10138 1.605753 CTCCGACGATGATCCTGGTA 58.394 55.000 0.00 0.00 0.00 3.25
6790 10142 1.947456 CGACGATGATCCTGGTAGTCA 59.053 52.381 0.00 0.00 0.00 3.41
6794 10146 2.035193 CGATGATCCTGGTAGTCAGTGG 59.965 54.545 0.00 0.00 41.83 4.00
6795 10147 1.195115 TGATCCTGGTAGTCAGTGGC 58.805 55.000 0.00 0.00 41.83 5.01
6800 10152 1.949847 CTGGTAGTCAGTGGCGAGGG 61.950 65.000 0.00 0.00 38.64 4.30
6821 10173 2.159142 GGGGTTCATCGAATCTACACGT 60.159 50.000 0.00 0.00 0.00 4.49
6842 10194 4.563061 GTGTGGATCGTGTAGTTTTAGGT 58.437 43.478 0.00 0.00 0.00 3.08
6843 10195 4.992951 GTGTGGATCGTGTAGTTTTAGGTT 59.007 41.667 0.00 0.00 0.00 3.50
6844 10196 6.158598 GTGTGGATCGTGTAGTTTTAGGTTA 58.841 40.000 0.00 0.00 0.00 2.85
6845 10197 6.309737 GTGTGGATCGTGTAGTTTTAGGTTAG 59.690 42.308 0.00 0.00 0.00 2.34
6846 10198 5.809051 GTGGATCGTGTAGTTTTAGGTTAGG 59.191 44.000 0.00 0.00 0.00 2.69
6847 10199 4.807834 GGATCGTGTAGTTTTAGGTTAGGC 59.192 45.833 0.00 0.00 0.00 3.93
6848 10200 4.870123 TCGTGTAGTTTTAGGTTAGGCA 57.130 40.909 0.00 0.00 0.00 4.75
6849 10201 4.813027 TCGTGTAGTTTTAGGTTAGGCAG 58.187 43.478 0.00 0.00 0.00 4.85
6850 10202 4.281688 TCGTGTAGTTTTAGGTTAGGCAGT 59.718 41.667 0.00 0.00 0.00 4.40
6851 10203 5.476599 TCGTGTAGTTTTAGGTTAGGCAGTA 59.523 40.000 0.00 0.00 0.00 2.74
6852 10204 5.803967 CGTGTAGTTTTAGGTTAGGCAGTAG 59.196 44.000 0.00 0.00 0.00 2.57
6853 10205 6.571150 CGTGTAGTTTTAGGTTAGGCAGTAGT 60.571 42.308 0.00 0.00 0.00 2.73
6854 10206 7.362056 CGTGTAGTTTTAGGTTAGGCAGTAGTA 60.362 40.741 0.00 0.00 0.00 1.82
6855 10207 7.972832 GTGTAGTTTTAGGTTAGGCAGTAGTAG 59.027 40.741 0.00 0.00 0.00 2.57
6856 10208 5.975282 AGTTTTAGGTTAGGCAGTAGTAGC 58.025 41.667 0.00 0.00 0.00 3.58
6857 10209 5.720520 AGTTTTAGGTTAGGCAGTAGTAGCT 59.279 40.000 0.00 0.00 0.00 3.32
6858 10210 6.212993 AGTTTTAGGTTAGGCAGTAGTAGCTT 59.787 38.462 0.00 0.00 0.00 3.74
6859 10211 7.398332 AGTTTTAGGTTAGGCAGTAGTAGCTTA 59.602 37.037 0.00 0.00 0.00 3.09
6860 10212 6.956202 TTAGGTTAGGCAGTAGTAGCTTAG 57.044 41.667 0.00 0.00 0.00 2.18
6861 10213 4.216708 AGGTTAGGCAGTAGTAGCTTAGG 58.783 47.826 0.00 0.00 0.00 2.69
6862 10214 3.243805 GGTTAGGCAGTAGTAGCTTAGGC 60.244 52.174 0.00 0.00 39.06 3.93
6863 10215 1.033574 AGGCAGTAGTAGCTTAGGCG 58.966 55.000 0.00 0.00 44.37 5.52
6864 10216 0.745468 GGCAGTAGTAGCTTAGGCGT 59.255 55.000 0.00 0.00 44.37 5.68
6865 10217 1.136500 GGCAGTAGTAGCTTAGGCGTT 59.864 52.381 0.00 0.00 44.37 4.84
6866 10218 2.418334 GGCAGTAGTAGCTTAGGCGTTT 60.418 50.000 0.00 0.00 44.37 3.60
6867 10219 3.259902 GCAGTAGTAGCTTAGGCGTTTT 58.740 45.455 0.00 0.00 44.37 2.43
6868 10220 3.062234 GCAGTAGTAGCTTAGGCGTTTTG 59.938 47.826 0.00 0.00 44.37 2.44
6869 10221 3.617263 CAGTAGTAGCTTAGGCGTTTTGG 59.383 47.826 0.00 0.00 44.37 3.28
6870 10222 2.853235 AGTAGCTTAGGCGTTTTGGT 57.147 45.000 0.00 0.00 44.37 3.67
6871 10223 3.136009 AGTAGCTTAGGCGTTTTGGTT 57.864 42.857 0.00 0.00 44.37 3.67
6872 10224 2.812011 AGTAGCTTAGGCGTTTTGGTTG 59.188 45.455 0.00 0.00 44.37 3.77
6873 10225 1.687563 AGCTTAGGCGTTTTGGTTGT 58.312 45.000 0.00 0.00 44.37 3.32
6874 10226 2.028876 AGCTTAGGCGTTTTGGTTGTT 58.971 42.857 0.00 0.00 44.37 2.83
6875 10227 2.034179 AGCTTAGGCGTTTTGGTTGTTC 59.966 45.455 0.00 0.00 44.37 3.18
6876 10228 2.223618 GCTTAGGCGTTTTGGTTGTTCA 60.224 45.455 0.00 0.00 0.00 3.18
6877 10229 3.552068 GCTTAGGCGTTTTGGTTGTTCAT 60.552 43.478 0.00 0.00 0.00 2.57
6878 10230 4.616953 CTTAGGCGTTTTGGTTGTTCATT 58.383 39.130 0.00 0.00 0.00 2.57
6879 10231 2.820330 AGGCGTTTTGGTTGTTCATTG 58.180 42.857 0.00 0.00 0.00 2.82
6880 10232 2.167487 AGGCGTTTTGGTTGTTCATTGT 59.833 40.909 0.00 0.00 0.00 2.71
6881 10233 2.538037 GGCGTTTTGGTTGTTCATTGTC 59.462 45.455 0.00 0.00 0.00 3.18
6882 10234 3.443976 GCGTTTTGGTTGTTCATTGTCT 58.556 40.909 0.00 0.00 0.00 3.41
6883 10235 3.862845 GCGTTTTGGTTGTTCATTGTCTT 59.137 39.130 0.00 0.00 0.00 3.01
6884 10236 4.328712 GCGTTTTGGTTGTTCATTGTCTTT 59.671 37.500 0.00 0.00 0.00 2.52
6885 10237 5.723678 GCGTTTTGGTTGTTCATTGTCTTTG 60.724 40.000 0.00 0.00 0.00 2.77
6886 10238 5.220378 CGTTTTGGTTGTTCATTGTCTTTGG 60.220 40.000 0.00 0.00 0.00 3.28
6887 10239 5.413309 TTTGGTTGTTCATTGTCTTTGGT 57.587 34.783 0.00 0.00 0.00 3.67
6888 10240 5.413309 TTGGTTGTTCATTGTCTTTGGTT 57.587 34.783 0.00 0.00 0.00 3.67
6889 10241 5.413309 TGGTTGTTCATTGTCTTTGGTTT 57.587 34.783 0.00 0.00 0.00 3.27
6890 10242 5.415221 TGGTTGTTCATTGTCTTTGGTTTC 58.585 37.500 0.00 0.00 0.00 2.78
6891 10243 5.047021 TGGTTGTTCATTGTCTTTGGTTTCA 60.047 36.000 0.00 0.00 0.00 2.69
6892 10244 5.872070 GGTTGTTCATTGTCTTTGGTTTCAA 59.128 36.000 0.00 0.00 0.00 2.69
6893 10245 6.370166 GGTTGTTCATTGTCTTTGGTTTCAAA 59.630 34.615 0.00 0.00 40.23 2.69
6894 10246 7.095017 GGTTGTTCATTGTCTTTGGTTTCAAAA 60.095 33.333 0.00 0.00 41.70 2.44
6895 10247 7.593875 TGTTCATTGTCTTTGGTTTCAAAAG 57.406 32.000 0.00 0.00 41.70 2.27
6896 10248 6.091986 TGTTCATTGTCTTTGGTTTCAAAAGC 59.908 34.615 0.00 0.00 41.70 3.51
6897 10249 4.803088 TCATTGTCTTTGGTTTCAAAAGCG 59.197 37.500 0.78 0.00 41.70 4.68
6898 10250 4.442375 TTGTCTTTGGTTTCAAAAGCGA 57.558 36.364 0.00 0.00 41.70 4.93
6899 10251 3.765026 TGTCTTTGGTTTCAAAAGCGAC 58.235 40.909 0.00 3.22 41.70 5.19
6900 10252 2.781646 GTCTTTGGTTTCAAAAGCGACG 59.218 45.455 0.00 0.00 41.70 5.12
6901 10253 2.678836 TCTTTGGTTTCAAAAGCGACGA 59.321 40.909 0.00 0.00 41.70 4.20
6902 10254 3.314080 TCTTTGGTTTCAAAAGCGACGAT 59.686 39.130 0.00 0.00 41.70 3.73
6903 10255 2.679355 TGGTTTCAAAAGCGACGATG 57.321 45.000 0.00 0.00 39.16 3.84
6904 10256 1.265635 TGGTTTCAAAAGCGACGATGG 59.734 47.619 0.00 0.00 39.16 3.51
6905 10257 1.265905 GGTTTCAAAAGCGACGATGGT 59.734 47.619 0.00 0.00 0.00 3.55
6906 10258 2.307049 GTTTCAAAAGCGACGATGGTG 58.693 47.619 0.00 0.00 0.00 4.17
6907 10259 0.871722 TTCAAAAGCGACGATGGTGG 59.128 50.000 0.00 0.00 0.00 4.61
6908 10260 1.154225 CAAAAGCGACGATGGTGGC 60.154 57.895 6.75 6.75 46.90 5.01
6912 10264 4.147322 GCGACGATGGTGGCGTTG 62.147 66.667 0.00 0.00 42.77 4.10
6913 10265 3.487202 CGACGATGGTGGCGTTGG 61.487 66.667 0.00 0.00 42.77 3.77
6914 10266 2.047655 GACGATGGTGGCGTTGGA 60.048 61.111 0.00 0.00 42.77 3.53
6915 10267 1.449601 GACGATGGTGGCGTTGGAT 60.450 57.895 0.00 0.00 42.77 3.41
6916 10268 0.179094 GACGATGGTGGCGTTGGATA 60.179 55.000 0.00 0.00 42.77 2.59
6917 10269 0.250793 ACGATGGTGGCGTTGGATAA 59.749 50.000 0.00 0.00 39.18 1.75
6918 10270 1.339247 ACGATGGTGGCGTTGGATAAA 60.339 47.619 0.00 0.00 39.18 1.40
6919 10271 1.330521 CGATGGTGGCGTTGGATAAAG 59.669 52.381 0.00 0.00 0.00 1.85
6920 10272 2.639065 GATGGTGGCGTTGGATAAAGA 58.361 47.619 0.00 0.00 0.00 2.52
6921 10273 2.570415 TGGTGGCGTTGGATAAAGAA 57.430 45.000 0.00 0.00 0.00 2.52
6922 10274 2.432444 TGGTGGCGTTGGATAAAGAAG 58.568 47.619 0.00 0.00 0.00 2.85
6923 10275 1.132453 GGTGGCGTTGGATAAAGAAGC 59.868 52.381 0.00 0.00 0.00 3.86
6924 10276 2.084546 GTGGCGTTGGATAAAGAAGCT 58.915 47.619 0.00 0.00 0.00 3.74
6925 10277 2.488153 GTGGCGTTGGATAAAGAAGCTT 59.512 45.455 0.00 0.00 0.00 3.74
6926 10278 2.747446 TGGCGTTGGATAAAGAAGCTTC 59.253 45.455 19.11 19.11 0.00 3.86
6927 10279 2.747446 GGCGTTGGATAAAGAAGCTTCA 59.253 45.455 27.57 8.36 0.00 3.02
6928 10280 3.378427 GGCGTTGGATAAAGAAGCTTCAT 59.622 43.478 27.57 14.17 0.00 2.57
6929 10281 4.574828 GGCGTTGGATAAAGAAGCTTCATA 59.425 41.667 27.57 19.39 0.00 2.15
6930 10282 5.239525 GGCGTTGGATAAAGAAGCTTCATAT 59.760 40.000 27.57 22.74 0.00 1.78
6931 10283 6.366630 GCGTTGGATAAAGAAGCTTCATATC 58.633 40.000 27.67 27.67 32.26 1.63
6932 10284 6.203723 GCGTTGGATAAAGAAGCTTCATATCT 59.796 38.462 30.75 13.41 32.96 1.98
6933 10285 7.570324 GCGTTGGATAAAGAAGCTTCATATCTC 60.570 40.741 30.75 25.00 32.96 2.75
6934 10286 7.655328 CGTTGGATAAAGAAGCTTCATATCTCT 59.345 37.037 30.75 12.25 32.96 3.10
6935 10287 9.336171 GTTGGATAAAGAAGCTTCATATCTCTT 57.664 33.333 30.75 16.32 32.96 2.85
6936 10288 9.553064 TTGGATAAAGAAGCTTCATATCTCTTC 57.447 33.333 30.75 22.08 36.19 2.87
6937 10289 8.153550 TGGATAAAGAAGCTTCATATCTCTTCC 58.846 37.037 30.75 23.30 36.50 3.46
6938 10290 7.606073 GGATAAAGAAGCTTCATATCTCTTCCC 59.394 40.741 30.75 20.20 36.50 3.97
6939 10291 4.599047 AGAAGCTTCATATCTCTTCCCG 57.401 45.455 27.57 0.00 36.50 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 8.653338 GTCGTTAGTTTGCTATCTTCATTGTAA 58.347 33.333 0.00 0.00 0.00 2.41
36 37 5.185249 AGAGGTCGTTAGTTTGCTATCTTCA 59.815 40.000 0.00 0.00 0.00 3.02
168 169 9.982651 TGTAACAGATGGTTAAGAGAATATAGC 57.017 33.333 0.00 0.00 43.30 2.97
219 220 5.591877 GTCTCTTTATTTCCCATGCAGATGT 59.408 40.000 0.00 0.00 0.00 3.06
486 490 4.024133 TGACCATTGTCACAAAAGATCACG 60.024 41.667 0.00 0.00 46.40 4.35
662 666 8.488764 GGTTGAGTAATCTTCGTATAAATCAGC 58.511 37.037 0.00 0.00 0.00 4.26
720 724 6.411376 TCAAGTTTTGAGTTCTAACAGTCCA 58.589 36.000 0.00 0.00 34.08 4.02
737 741 7.068716 AGCCTGTTCTCAGTTAAATTCAAGTTT 59.931 33.333 0.00 0.00 39.82 2.66
774 778 4.998671 TGAATTGCTTGTGAAACCTGAA 57.001 36.364 0.00 0.00 34.36 3.02
1049 3761 9.364989 CTTCACATTCAAAAGTTTTCAGGTTTA 57.635 29.630 0.00 0.00 0.00 2.01
1188 3900 4.763793 AGCATTGCTACTTTGTGTTCATCT 59.236 37.500 10.00 0.00 36.99 2.90
1544 4289 4.096984 CCTTGAACTGCTTGGAATCCATAC 59.903 45.833 1.39 0.00 31.53 2.39
1545 4290 4.272489 CCTTGAACTGCTTGGAATCCATA 58.728 43.478 1.39 0.00 31.53 2.74
1645 4390 7.121084 GCTGAAGCTTCTTTCTTGGAAACAAA 61.121 38.462 26.09 0.18 43.72 2.83
1835 4587 8.913487 TTCATTCTCATCACACAGCATATAAT 57.087 30.769 0.00 0.00 0.00 1.28
1972 4730 7.833285 AAGAAAAGGTGCCAGAGTATAAAAA 57.167 32.000 0.00 0.00 0.00 1.94
1976 4734 5.183140 GCAAAAGAAAAGGTGCCAGAGTATA 59.817 40.000 0.00 0.00 0.00 1.47
1989 4747 7.643764 TGAAATAGTGAAGACGCAAAAGAAAAG 59.356 33.333 0.00 0.00 0.00 2.27
2244 5042 2.037144 ACGCCTATCCACGGTTCTAAT 58.963 47.619 0.00 0.00 0.00 1.73
2411 5237 7.418408 CAACTTCTCCTTCTTTAAAAGTCCAC 58.582 38.462 0.00 0.00 0.00 4.02
2589 5498 8.041323 TGAACCAACAGTCTTCCTATTAGAATC 58.959 37.037 0.00 0.00 0.00 2.52
2685 5594 2.832643 ATTGCTCCAATGGGATCACA 57.167 45.000 0.00 0.00 43.91 3.58
2729 5638 7.070447 ACATCAGATTACCAGCTAGAATCAGAA 59.930 37.037 13.80 3.21 31.49 3.02
2795 5749 8.297470 ACTAGTTCAAATGCATCCAATATGTT 57.703 30.769 0.00 0.00 0.00 2.71
2858 5817 8.547894 CATTCACAATGATAAATCCATTTGCAG 58.452 33.333 0.00 0.00 41.46 4.41
2897 5858 1.813513 ACTTTCAGAGTGGCGGATTG 58.186 50.000 0.00 0.00 37.17 2.67
2899 5860 3.695830 TTTACTTTCAGAGTGGCGGAT 57.304 42.857 0.00 0.00 39.48 4.18
2901 5862 4.504858 AGTATTTACTTTCAGAGTGGCGG 58.495 43.478 0.00 0.00 39.48 6.13
2902 5863 7.203910 AGATAGTATTTACTTTCAGAGTGGCG 58.796 38.462 9.77 0.00 39.48 5.69
2917 5878 6.430000 AGCAAACAACAACGGAGATAGTATTT 59.570 34.615 0.00 0.00 0.00 1.40
2931 5892 6.972328 GTGAAGTCTTAATGAGCAAACAACAA 59.028 34.615 0.00 0.00 0.00 2.83
3149 6308 7.224949 CAGCATCAGGTATGATATATGAAGCTG 59.775 40.741 21.43 21.43 44.58 4.24
3199 6370 5.701290 GCGGTGTAGCTTAAATCTATCCATT 59.299 40.000 0.00 0.00 0.00 3.16
3206 6378 2.280628 GCTGCGGTGTAGCTTAAATCT 58.719 47.619 0.00 0.00 38.22 2.40
3242 6414 3.740115 ACCTTACGACAAAGCATGTTCT 58.260 40.909 0.00 0.00 44.12 3.01
3284 6456 6.177610 CCTATCAACCTAACAGCTAAAACCA 58.822 40.000 0.00 0.00 0.00 3.67
3833 7145 3.895232 TCTTCACTACTCCATTGCCTC 57.105 47.619 0.00 0.00 0.00 4.70
4384 7696 1.428869 AGTTCCCTCTGCAGAAGTGT 58.571 50.000 18.85 0.00 0.00 3.55
4565 7877 1.002468 CAACACGGAACCTGCTTTCTG 60.002 52.381 0.00 0.00 37.80 3.02
4692 8004 2.633860 GCCATGATTAAGGGCGGAG 58.366 57.895 0.00 0.00 38.04 4.63
4848 8160 4.417437 TCCTGCTGTAGAGTAAAGTTCCT 58.583 43.478 0.00 0.00 0.00 3.36
5002 8314 2.114670 CATCGGGCAAGTTGGCGAT 61.115 57.895 21.73 21.87 44.78 4.58
5047 8359 7.492669 CGAGATGTCATAGAAAATGTAAGGTGT 59.507 37.037 0.00 0.00 0.00 4.16
5097 8409 3.819564 TTCTGGTATGAAGATGACCCG 57.180 47.619 0.00 0.00 31.80 5.28
5394 8706 5.034797 CGAGTAAGAGCAACATTCATACGA 58.965 41.667 0.00 0.00 0.00 3.43
5669 8984 2.337170 CCCCGGGCGTTTGAAAAC 59.663 61.111 17.73 0.00 35.59 2.43
5765 9080 1.837090 GGCCGTCATACCCATCCTT 59.163 57.895 0.00 0.00 0.00 3.36
5804 9119 4.002906 ACTACCATTTCTCGCAACAGAA 57.997 40.909 0.00 0.00 0.00 3.02
6041 9356 2.585330 CATAGCACATGCCCCAATACA 58.415 47.619 0.00 0.00 43.38 2.29
6157 9473 3.027419 GTCCAGCTGACAGCCTTTT 57.973 52.632 23.74 2.10 43.77 2.27
6158 9474 4.809070 GTCCAGCTGACAGCCTTT 57.191 55.556 23.74 2.50 43.77 3.11
6186 9502 3.531934 AAGCAGATTAAAGCAATGCCC 57.468 42.857 0.00 0.00 37.61 5.36
6248 9564 7.946381 ACCCCCTATAGATCAGGTTTTAAAAA 58.054 34.615 1.31 0.00 0.00 1.94
6269 9585 1.420514 GACCTAGCCCAGATTTACCCC 59.579 57.143 0.00 0.00 0.00 4.95
6270 9586 2.124411 TGACCTAGCCCAGATTTACCC 58.876 52.381 0.00 0.00 0.00 3.69
6303 9619 4.315803 CTTTAGCCCTAACCCGTCATATG 58.684 47.826 0.00 0.00 0.00 1.78
6304 9620 3.326880 CCTTTAGCCCTAACCCGTCATAT 59.673 47.826 0.00 0.00 0.00 1.78
6305 9621 2.701951 CCTTTAGCCCTAACCCGTCATA 59.298 50.000 0.00 0.00 0.00 2.15
6440 9760 2.364632 CCATGCCAAACAGAATACCGA 58.635 47.619 0.00 0.00 0.00 4.69
6441 9761 1.202290 GCCATGCCAAACAGAATACCG 60.202 52.381 0.00 0.00 0.00 4.02
6462 9782 0.035317 AACGCAGCATCCAAGACTCA 59.965 50.000 0.00 0.00 0.00 3.41
6465 9785 1.237285 ACCAACGCAGCATCCAAGAC 61.237 55.000 0.00 0.00 0.00 3.01
6481 9801 0.035317 AAGCACAGAAGCATCGACCA 59.965 50.000 0.00 0.00 36.85 4.02
6519 9839 5.245526 ACGGATGTTTACAGAAGGAGTACTT 59.754 40.000 0.00 0.00 43.65 2.24
6520 9840 4.771054 ACGGATGTTTACAGAAGGAGTACT 59.229 41.667 0.00 0.00 0.00 2.73
6521 9841 5.069501 ACGGATGTTTACAGAAGGAGTAC 57.930 43.478 0.00 0.00 0.00 2.73
6522 9842 5.014858 AGACGGATGTTTACAGAAGGAGTA 58.985 41.667 0.00 0.00 0.00 2.59
6523 9843 3.833070 AGACGGATGTTTACAGAAGGAGT 59.167 43.478 0.00 0.00 0.00 3.85
6525 9845 3.576982 ACAGACGGATGTTTACAGAAGGA 59.423 43.478 0.00 0.00 0.00 3.36
6526 9846 3.926616 ACAGACGGATGTTTACAGAAGG 58.073 45.455 0.00 0.00 0.00 3.46
6527 9847 6.422701 TGTTTACAGACGGATGTTTACAGAAG 59.577 38.462 0.00 0.00 34.56 2.85
6528 9848 6.282167 TGTTTACAGACGGATGTTTACAGAA 58.718 36.000 0.00 0.00 34.56 3.02
6529 9849 5.845103 TGTTTACAGACGGATGTTTACAGA 58.155 37.500 0.00 0.00 34.56 3.41
6530 9850 6.533819 TTGTTTACAGACGGATGTTTACAG 57.466 37.500 0.00 0.00 34.56 2.74
6531 9851 6.922247 TTTGTTTACAGACGGATGTTTACA 57.078 33.333 0.00 3.36 34.56 2.41
6532 9852 8.715088 AGTATTTGTTTACAGACGGATGTTTAC 58.285 33.333 0.00 1.09 34.56 2.01
6533 9853 8.836268 AGTATTTGTTTACAGACGGATGTTTA 57.164 30.769 0.00 0.00 34.56 2.01
6534 9854 7.739498 AGTATTTGTTTACAGACGGATGTTT 57.261 32.000 0.00 0.00 34.56 2.83
6535 9855 7.308348 CCAAGTATTTGTTTACAGACGGATGTT 60.308 37.037 0.00 0.00 32.08 2.71
6536 9856 6.148811 CCAAGTATTTGTTTACAGACGGATGT 59.851 38.462 0.00 0.32 33.42 3.06
6537 9857 6.148811 ACCAAGTATTTGTTTACAGACGGATG 59.851 38.462 0.00 0.00 32.21 3.51
6538 9858 6.235664 ACCAAGTATTTGTTTACAGACGGAT 58.764 36.000 0.00 0.00 32.21 4.18
6539 9859 5.613329 ACCAAGTATTTGTTTACAGACGGA 58.387 37.500 0.00 0.00 32.21 4.69
6588 9909 6.776887 AGATCCACTGGAGGAATAATGATT 57.223 37.500 3.62 0.00 41.92 2.57
6593 9914 6.443849 ACTGTTTAGATCCACTGGAGGAATAA 59.556 38.462 3.62 0.00 41.92 1.40
6596 9917 4.168101 ACTGTTTAGATCCACTGGAGGAA 58.832 43.478 3.62 0.00 41.92 3.36
6600 9921 8.783660 ATATAAGACTGTTTAGATCCACTGGA 57.216 34.615 0.00 0.00 35.55 3.86
6601 9922 9.838339 AAATATAAGACTGTTTAGATCCACTGG 57.162 33.333 0.00 0.00 0.00 4.00
6670 10010 9.886132 CTGGTACTTCCTATGTAAACAAATACT 57.114 33.333 0.00 0.00 37.07 2.12
6742 10083 2.604686 ACCAGAGGAAGGCTGCGA 60.605 61.111 0.00 0.00 32.06 5.10
6770 10122 1.947456 TGACTACCAGGATCATCGTCG 59.053 52.381 0.00 0.00 0.00 5.12
6800 10152 2.159142 ACGTGTAGATTCGATGAACCCC 60.159 50.000 0.00 0.00 0.00 4.95
6807 10159 3.548214 CGATCCACACGTGTAGATTCGAT 60.548 47.826 26.59 17.02 0.00 3.59
6808 10160 2.223180 CGATCCACACGTGTAGATTCGA 60.223 50.000 26.59 13.63 0.00 3.71
6821 10173 4.877378 ACCTAAAACTACACGATCCACA 57.123 40.909 0.00 0.00 0.00 4.17
6842 10194 2.621998 CGCCTAAGCTACTACTGCCTAA 59.378 50.000 0.00 0.00 36.60 2.69
6843 10195 2.228059 CGCCTAAGCTACTACTGCCTA 58.772 52.381 0.00 0.00 36.60 3.93
6844 10196 1.033574 CGCCTAAGCTACTACTGCCT 58.966 55.000 0.00 0.00 36.60 4.75
6845 10197 0.745468 ACGCCTAAGCTACTACTGCC 59.255 55.000 0.00 0.00 36.60 4.85
6846 10198 2.580966 AACGCCTAAGCTACTACTGC 57.419 50.000 0.00 0.00 36.60 4.40
6847 10199 3.617263 CCAAAACGCCTAAGCTACTACTG 59.383 47.826 0.00 0.00 36.60 2.74
6848 10200 3.260128 ACCAAAACGCCTAAGCTACTACT 59.740 43.478 0.00 0.00 36.60 2.57
6849 10201 3.593096 ACCAAAACGCCTAAGCTACTAC 58.407 45.455 0.00 0.00 36.60 2.73
6850 10202 3.967332 ACCAAAACGCCTAAGCTACTA 57.033 42.857 0.00 0.00 36.60 1.82
6851 10203 2.812011 CAACCAAAACGCCTAAGCTACT 59.188 45.455 0.00 0.00 36.60 2.57
6852 10204 2.551032 ACAACCAAAACGCCTAAGCTAC 59.449 45.455 0.00 0.00 36.60 3.58
6853 10205 2.853705 ACAACCAAAACGCCTAAGCTA 58.146 42.857 0.00 0.00 36.60 3.32
6854 10206 1.687563 ACAACCAAAACGCCTAAGCT 58.312 45.000 0.00 0.00 36.60 3.74
6855 10207 2.223618 TGAACAACCAAAACGCCTAAGC 60.224 45.455 0.00 0.00 0.00 3.09
6856 10208 3.701532 TGAACAACCAAAACGCCTAAG 57.298 42.857 0.00 0.00 0.00 2.18
6857 10209 4.142138 ACAATGAACAACCAAAACGCCTAA 60.142 37.500 0.00 0.00 0.00 2.69
6858 10210 3.381908 ACAATGAACAACCAAAACGCCTA 59.618 39.130 0.00 0.00 0.00 3.93
6859 10211 2.167487 ACAATGAACAACCAAAACGCCT 59.833 40.909 0.00 0.00 0.00 5.52
6860 10212 2.538037 GACAATGAACAACCAAAACGCC 59.462 45.455 0.00 0.00 0.00 5.68
6861 10213 3.443976 AGACAATGAACAACCAAAACGC 58.556 40.909 0.00 0.00 0.00 4.84
6862 10214 5.220378 CCAAAGACAATGAACAACCAAAACG 60.220 40.000 0.00 0.00 0.00 3.60
6863 10215 5.641636 ACCAAAGACAATGAACAACCAAAAC 59.358 36.000 0.00 0.00 0.00 2.43
6864 10216 5.799213 ACCAAAGACAATGAACAACCAAAA 58.201 33.333 0.00 0.00 0.00 2.44
6865 10217 5.413309 ACCAAAGACAATGAACAACCAAA 57.587 34.783 0.00 0.00 0.00 3.28
6866 10218 5.413309 AACCAAAGACAATGAACAACCAA 57.587 34.783 0.00 0.00 0.00 3.67
6867 10219 5.047021 TGAAACCAAAGACAATGAACAACCA 60.047 36.000 0.00 0.00 0.00 3.67
6868 10220 5.415221 TGAAACCAAAGACAATGAACAACC 58.585 37.500 0.00 0.00 0.00 3.77
6869 10221 6.959671 TTGAAACCAAAGACAATGAACAAC 57.040 33.333 0.00 0.00 0.00 3.32
6870 10222 7.360776 GCTTTTGAAACCAAAGACAATGAACAA 60.361 33.333 0.00 0.00 35.26 2.83
6871 10223 6.091986 GCTTTTGAAACCAAAGACAATGAACA 59.908 34.615 0.00 0.00 35.26 3.18
6872 10224 6.477742 GCTTTTGAAACCAAAGACAATGAAC 58.522 36.000 0.00 0.00 35.26 3.18
6873 10225 5.290643 CGCTTTTGAAACCAAAGACAATGAA 59.709 36.000 0.00 0.00 35.26 2.57
6874 10226 4.803088 CGCTTTTGAAACCAAAGACAATGA 59.197 37.500 0.00 0.00 35.26 2.57
6875 10227 4.803088 TCGCTTTTGAAACCAAAGACAATG 59.197 37.500 0.00 0.00 35.26 2.82
6876 10228 4.803613 GTCGCTTTTGAAACCAAAGACAAT 59.196 37.500 0.00 0.00 35.26 2.71
6877 10229 4.170256 GTCGCTTTTGAAACCAAAGACAA 58.830 39.130 0.00 0.00 35.26 3.18
6878 10230 3.729462 CGTCGCTTTTGAAACCAAAGACA 60.729 43.478 0.00 0.00 35.26 3.41
6879 10231 2.781646 CGTCGCTTTTGAAACCAAAGAC 59.218 45.455 0.00 0.00 35.26 3.01
6880 10232 2.678836 TCGTCGCTTTTGAAACCAAAGA 59.321 40.909 0.00 0.00 35.26 2.52
6881 10233 3.059634 TCGTCGCTTTTGAAACCAAAG 57.940 42.857 0.00 0.00 35.26 2.77
6882 10234 3.367607 CATCGTCGCTTTTGAAACCAAA 58.632 40.909 0.00 0.00 0.00 3.28
6883 10235 2.287308 CCATCGTCGCTTTTGAAACCAA 60.287 45.455 0.00 0.00 0.00 3.67
6884 10236 1.265635 CCATCGTCGCTTTTGAAACCA 59.734 47.619 0.00 0.00 0.00 3.67
6885 10237 1.265905 ACCATCGTCGCTTTTGAAACC 59.734 47.619 0.00 0.00 0.00 3.27
6886 10238 2.307049 CACCATCGTCGCTTTTGAAAC 58.693 47.619 0.00 0.00 0.00 2.78
6887 10239 1.265635 CCACCATCGTCGCTTTTGAAA 59.734 47.619 0.00 0.00 0.00 2.69
6888 10240 0.871722 CCACCATCGTCGCTTTTGAA 59.128 50.000 0.00 0.00 0.00 2.69
6889 10241 1.573829 GCCACCATCGTCGCTTTTGA 61.574 55.000 0.00 0.00 0.00 2.69
6890 10242 1.154225 GCCACCATCGTCGCTTTTG 60.154 57.895 0.00 0.00 0.00 2.44
6891 10243 2.677003 CGCCACCATCGTCGCTTTT 61.677 57.895 0.00 0.00 0.00 2.27
6892 10244 3.118454 CGCCACCATCGTCGCTTT 61.118 61.111 0.00 0.00 0.00 3.51
6893 10245 3.876589 AACGCCACCATCGTCGCTT 62.877 57.895 0.00 0.00 39.48 4.68
6894 10246 4.373116 AACGCCACCATCGTCGCT 62.373 61.111 0.00 0.00 39.48 4.93
6895 10247 4.147322 CAACGCCACCATCGTCGC 62.147 66.667 0.00 0.00 39.48 5.19
6896 10248 3.487202 CCAACGCCACCATCGTCG 61.487 66.667 0.00 0.00 39.48 5.12
6897 10249 0.179094 TATCCAACGCCACCATCGTC 60.179 55.000 0.00 0.00 39.48 4.20
6898 10250 0.250793 TTATCCAACGCCACCATCGT 59.749 50.000 0.00 0.00 42.54 3.73
6899 10251 1.330521 CTTTATCCAACGCCACCATCG 59.669 52.381 0.00 0.00 0.00 3.84
6900 10252 2.639065 TCTTTATCCAACGCCACCATC 58.361 47.619 0.00 0.00 0.00 3.51
6901 10253 2.799126 TCTTTATCCAACGCCACCAT 57.201 45.000 0.00 0.00 0.00 3.55
6902 10254 2.432444 CTTCTTTATCCAACGCCACCA 58.568 47.619 0.00 0.00 0.00 4.17
6903 10255 1.132453 GCTTCTTTATCCAACGCCACC 59.868 52.381 0.00 0.00 0.00 4.61
6904 10256 2.084546 AGCTTCTTTATCCAACGCCAC 58.915 47.619 0.00 0.00 0.00 5.01
6905 10257 2.489938 AGCTTCTTTATCCAACGCCA 57.510 45.000 0.00 0.00 0.00 5.69
6906 10258 2.747446 TGAAGCTTCTTTATCCAACGCC 59.253 45.455 26.09 0.00 0.00 5.68
6907 10259 4.622701 ATGAAGCTTCTTTATCCAACGC 57.377 40.909 26.09 0.00 0.00 4.84
6908 10260 7.655328 AGAGATATGAAGCTTCTTTATCCAACG 59.345 37.037 27.99 0.00 0.00 4.10
6909 10261 8.900983 AGAGATATGAAGCTTCTTTATCCAAC 57.099 34.615 27.99 22.65 0.00 3.77
6910 10262 9.553064 GAAGAGATATGAAGCTTCTTTATCCAA 57.447 33.333 27.99 11.82 35.18 3.53
6911 10263 8.153550 GGAAGAGATATGAAGCTTCTTTATCCA 58.846 37.037 27.99 12.87 37.49 3.41
6912 10264 7.606073 GGGAAGAGATATGAAGCTTCTTTATCC 59.394 40.741 27.99 22.73 37.49 2.59
6913 10265 7.330700 CGGGAAGAGATATGAAGCTTCTTTATC 59.669 40.741 26.09 26.18 37.49 1.75
6914 10266 7.158021 CGGGAAGAGATATGAAGCTTCTTTAT 58.842 38.462 26.09 20.99 37.49 1.40
6915 10267 6.516718 CGGGAAGAGATATGAAGCTTCTTTA 58.483 40.000 26.09 17.63 37.49 1.85
6916 10268 5.363939 CGGGAAGAGATATGAAGCTTCTTT 58.636 41.667 26.09 16.13 37.49 2.52
6917 10269 4.954875 CGGGAAGAGATATGAAGCTTCTT 58.045 43.478 26.09 21.81 37.49 2.52
6918 10270 4.599047 CGGGAAGAGATATGAAGCTTCT 57.401 45.455 26.09 14.44 37.49 2.85


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

AutoCloner maintained by Alex Coulton.