Multiple sequence alignment - TraesCS7A01G335100

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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 TraesCS7A01G335100 chr7A 100.000 6745 0 0 1 6745 490172346 490165602 0.000000e+00 12456.0
1 TraesCS7A01G335100 chr7A 97.580 909 22 0 1 909 23150227 23149319 0.000000e+00 1557.0
2 TraesCS7A01G335100 chr7B 94.625 5358 193 34 914 6240 454724491 454729784 0.000000e+00 8211.0
3 TraesCS7A01G335100 chr7B 88.235 136 15 1 6610 6744 454789978 454790113 1.950000e-35 161.0
4 TraesCS7A01G335100 chr7B 92.105 38 2 1 6266 6302 485428360 485428323 1.200000e-02 52.8
5 TraesCS7A01G335100 chr7B 92.105 38 2 1 6266 6302 552786008 552786045 1.200000e-02 52.8
6 TraesCS7A01G335100 chr7D 97.494 2953 62 7 914 3860 438754769 438751823 0.000000e+00 5033.0
7 TraesCS7A01G335100 chr7D 93.963 2402 94 11 3864 6240 438751448 438749073 0.000000e+00 3585.0
8 TraesCS7A01G335100 chr7D 89.323 384 28 9 6371 6745 438749037 438748658 2.850000e-128 470.0
9 TraesCS7A01G335100 chr4A 97.720 921 18 3 1 920 552406846 552405928 0.000000e+00 1581.0
10 TraesCS7A01G335100 chr4A 80.723 83 13 3 6266 6346 22728155 22728074 2.030000e-05 62.1
11 TraesCS7A01G335100 chr4A 85.000 60 6 3 6266 6323 615367861 615367803 2.630000e-04 58.4
12 TraesCS7A01G335100 chr2A 96.162 912 29 4 1 911 775553841 775552935 0.000000e+00 1485.0
13 TraesCS7A01G335100 chr2D 88.654 379 40 2 2354 2732 95196556 95196931 6.160000e-125 459.0
14 TraesCS7A01G335100 chr5A 87.139 381 39 4 2352 2732 325195519 325195889 2.250000e-114 424.0
15 TraesCS7A01G335100 chr5B 89.157 332 34 2 2401 2731 589434761 589434431 4.870000e-111 412.0
16 TraesCS7A01G335100 chr5B 89.388 245 24 2 2401 2644 589445720 589445477 2.360000e-79 307.0
17 TraesCS7A01G335100 chr5B 87.500 72 9 0 6275 6346 538580818 538580747 4.330000e-12 84.2
18 TraesCS7A01G335100 chr3B 88.657 335 36 2 2398 2731 355509185 355509518 2.260000e-109 407.0
19 TraesCS7A01G335100 chr1B 87.952 332 37 3 2401 2731 647466219 647465890 8.200000e-104 388.0
20 TraesCS7A01G335100 chr1B 100.000 30 0 0 6275 6304 674052965 674052936 1.000000e-03 56.5
21 TraesCS7A01G335100 chr2B 80.660 424 61 6 1 403 139359753 139359330 6.570000e-80 309.0
22 TraesCS7A01G335100 chr3D 93.846 65 4 0 845 909 597277359 597277423 1.550000e-16 99.0
23 TraesCS7A01G335100 chr6B 94.340 53 2 1 858 910 41459813 41459864 5.610000e-11 80.5
24 TraesCS7A01G335100 chr6D 78.571 112 17 3 6239 6344 68660157 68660267 4.370000e-07 67.6
25 TraesCS7A01G335100 chr6A 96.970 33 1 0 6277 6309 617095774 617095806 1.000000e-03 56.5
26 TraesCS7A01G335100 chr4B 92.105 38 2 1 6266 6302 3549660 3549623 1.200000e-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 TraesCS7A01G335100 chr7A 490165602 490172346 6744 True 12456.000000 12456 100.000000 1 6745 1 chr7A.!!$R2 6744
1 TraesCS7A01G335100 chr7A 23149319 23150227 908 True 1557.000000 1557 97.580000 1 909 1 chr7A.!!$R1 908
2 TraesCS7A01G335100 chr7B 454724491 454729784 5293 False 8211.000000 8211 94.625000 914 6240 1 chr7B.!!$F1 5326
3 TraesCS7A01G335100 chr7D 438748658 438754769 6111 True 3029.333333 5033 93.593333 914 6745 3 chr7D.!!$R1 5831
4 TraesCS7A01G335100 chr4A 552405928 552406846 918 True 1581.000000 1581 97.720000 1 920 1 chr4A.!!$R2 919
5 TraesCS7A01G335100 chr2A 775552935 775553841 906 True 1485.000000 1485 96.162000 1 911 1 chr2A.!!$R1 910

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
69 70 1.069500 GCGGTTCGTTGCAGTATTGTT 60.069 47.619 0.00 0.00 0.00 2.83 F
1419 1425 0.321671 CCCAGAGAAGAAAGACCGCA 59.678 55.000 0.00 0.00 0.00 5.69 F
2163 2170 2.436417 CACTGTCCAAAGGTGTATGGG 58.564 52.381 0.00 0.00 37.31 4.00 F
3659 3674 0.038526 GAAACATGCTGCTGCTGCTT 60.039 50.000 27.67 20.51 40.48 3.91 F
3690 3705 2.046507 GCCCCTCTGTGCACTCTG 60.047 66.667 19.41 8.48 0.00 3.35 F
3760 3775 3.046374 GAGGGCCAGATAAGGGTAAAGA 58.954 50.000 6.18 0.00 0.00 2.52 F
5275 5666 3.181434 TGACCTGTTCTTGGTATTTGCCT 60.181 43.478 0.00 0.00 38.03 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1432 1438 0.320771 TTCTTCTCCTTCACGGCTGC 60.321 55.000 0.00 0.0 0.00 5.25 R
2626 2633 2.039879 AGTGTGTAGGCTTTGGTTAGGG 59.960 50.000 0.00 0.0 0.00 3.53 R
3737 3752 0.263765 TACCCTTATCTGGCCCTCGT 59.736 55.000 0.00 0.0 0.00 4.18 R
5424 5815 1.202200 CCGACAGTAGTAGCAGAGTGC 60.202 57.143 0.00 0.0 45.46 4.40 R
5712 6121 0.601558 ACCATTGCTTCTTGCTGCTG 59.398 50.000 0.00 0.0 43.37 4.41 R
5721 6130 3.124297 CAGTCTTCGAGAACCATTGCTTC 59.876 47.826 0.00 0.0 0.00 3.86 R
6262 6675 0.032017 ATCACTCTAGGCCGAGGGTT 60.032 55.000 16.82 0.0 35.88 4.11 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
69 70 1.069500 GCGGTTCGTTGCAGTATTGTT 60.069 47.619 0.00 0.00 0.00 2.83
161 163 1.754745 GAAGCACCCACTGTCCTCA 59.245 57.895 0.00 0.00 0.00 3.86
323 325 2.412870 CTACCAAAGCACACATCGTCA 58.587 47.619 0.00 0.00 0.00 4.35
328 330 1.795768 AAGCACACATCGTCATCGTT 58.204 45.000 0.00 0.00 38.33 3.85
409 411 1.302591 TCAAATTACACCGCGGCCA 60.303 52.632 28.58 7.59 0.00 5.36
443 445 1.296392 CCAACATCACCGAGGCAGA 59.704 57.895 0.00 0.00 0.00 4.26
467 469 1.730064 GTATTGTCGCAACATCACCGT 59.270 47.619 0.00 0.00 34.73 4.83
911 913 2.280660 CGCCTAGCATCTGCCCTG 60.281 66.667 0.00 0.00 43.38 4.45
912 914 2.800541 CGCCTAGCATCTGCCCTGA 61.801 63.158 0.00 0.00 43.38 3.86
942 944 3.433306 TCAAATTTCGATCCACCCACT 57.567 42.857 0.00 0.00 0.00 4.00
1154 1157 3.432051 CTCCTCGGGATGACGTGCC 62.432 68.421 0.00 0.00 34.94 5.01
1320 1326 2.434359 GGGAAGAACGTGAGGCGG 60.434 66.667 0.00 0.00 46.52 6.13
1419 1425 0.321671 CCCAGAGAAGAAAGACCGCA 59.678 55.000 0.00 0.00 0.00 5.69
1649 1655 4.853196 CGATATTGTTCTTGGTGTTGCAAG 59.147 41.667 0.00 0.00 0.00 4.01
1772 1778 4.224370 ACGTCCATGTATTTACTCTTGGGT 59.776 41.667 0.00 0.00 0.00 4.51
1971 1978 8.257306 AGTTTTTGATTGTGATGTTGGTAAAGT 58.743 29.630 0.00 0.00 0.00 2.66
2001 2008 6.321181 TGCCTCTTTTCACCATTAATCCATAC 59.679 38.462 0.00 0.00 0.00 2.39
2044 2051 5.827797 GGGTGTTGAATATGAGCCTCAAATA 59.172 40.000 0.00 0.00 31.21 1.40
2163 2170 2.436417 CACTGTCCAAAGGTGTATGGG 58.564 52.381 0.00 0.00 37.31 4.00
2199 2206 3.383505 CCGTAGACCACATGATAGTCCAA 59.616 47.826 0.00 0.00 0.00 3.53
2200 2207 4.499865 CCGTAGACCACATGATAGTCCAAG 60.500 50.000 0.00 0.00 0.00 3.61
2201 2208 4.098044 CGTAGACCACATGATAGTCCAAGT 59.902 45.833 0.00 0.00 0.00 3.16
2202 2209 4.744795 AGACCACATGATAGTCCAAGTC 57.255 45.455 0.00 0.00 0.00 3.01
2203 2210 3.452627 AGACCACATGATAGTCCAAGTCC 59.547 47.826 0.00 0.00 0.00 3.85
2204 2211 3.181329 ACCACATGATAGTCCAAGTCCA 58.819 45.455 0.00 0.00 0.00 4.02
2460 2467 7.956420 TTGTGTGTATTTATATCGGCCTAAG 57.044 36.000 0.00 0.00 0.00 2.18
2654 2661 4.184629 CCAAAGCCTACACACTATCTGAC 58.815 47.826 0.00 0.00 0.00 3.51
2875 2882 7.878036 TGATATGCATTTCTTGTGGTATGATG 58.122 34.615 16.62 0.00 0.00 3.07
2950 2958 2.906389 ACCAGGTGCAGAGAATGTAGAA 59.094 45.455 0.00 0.00 0.00 2.10
3271 3279 0.396435 TTGGCATCACAGAACCGTCT 59.604 50.000 0.00 0.00 32.85 4.18
3493 3501 7.713073 AGGTAAGAGCATAAGATCAAAGCTTAC 59.287 37.037 0.00 0.00 35.36 2.34
3573 3581 3.545703 GAGGAATCGGGTCACAATTGAT 58.454 45.455 13.59 0.00 33.11 2.57
3659 3674 0.038526 GAAACATGCTGCTGCTGCTT 60.039 50.000 27.67 20.51 40.48 3.91
3690 3705 2.046507 GCCCCTCTGTGCACTCTG 60.047 66.667 19.41 8.48 0.00 3.35
3760 3775 3.046374 GAGGGCCAGATAAGGGTAAAGA 58.954 50.000 6.18 0.00 0.00 2.52
3862 3877 7.234988 GGAAGTAGGAAGGCAAGGATAAGTATA 59.765 40.741 0.00 0.00 0.00 1.47
3919 4305 4.398549 AAACCATAACGACAATGTCACG 57.601 40.909 14.24 3.50 32.09 4.35
3931 4317 5.783654 CGACAATGTCACGTTTCACTATTTC 59.216 40.000 14.24 0.00 32.09 2.17
4400 4788 9.077885 TGAAAGTAAGCCTTACATTTTGATTCT 57.922 29.630 16.51 0.00 38.60 2.40
4971 5359 6.595326 TGCTTGACTGATTCTTATGTTGGTAG 59.405 38.462 0.00 0.00 0.00 3.18
5014 5403 4.980590 CTGTTAAACAGCACACTTGTTCA 58.019 39.130 0.00 0.00 39.62 3.18
5275 5666 3.181434 TGACCTGTTCTTGGTATTTGCCT 60.181 43.478 0.00 0.00 38.03 4.75
5331 5722 4.785301 TCATAAGGAGGAATTCAGCAAGG 58.215 43.478 7.93 0.00 0.00 3.61
5421 5812 4.168014 TGATGCATCGTTCTTTCAAATGC 58.832 39.130 21.34 0.00 42.32 3.56
5424 5815 4.973396 TGCATCGTTCTTTCAAATGCTAG 58.027 39.130 7.11 0.00 42.44 3.42
5702 6111 3.825328 CAGGAATTCAGAGGGGGTAATG 58.175 50.000 7.93 0.00 0.00 1.90
5712 6121 3.573491 GGGTAATGCGGCGACAGC 61.573 66.667 12.98 0.65 44.18 4.40
5788 6197 1.368641 GTGCCGACATATGTGAGCAA 58.631 50.000 23.89 10.93 33.61 3.91
5806 6215 2.472488 GCAATTCTGTGGTTTCAAAGCG 59.528 45.455 0.00 0.00 0.00 4.68
5927 6337 8.576442 CAATATGGTACTGTTGGGGAATATTTC 58.424 37.037 0.00 0.00 0.00 2.17
5980 6390 2.939103 GTGACTGCTTGACACCCATATC 59.061 50.000 0.00 0.00 35.79 1.63
5991 6401 1.846439 CACCCATATCTGTTGAGGGGT 59.154 52.381 0.00 0.00 43.96 4.95
6016 6426 7.012704 GTCCTATATGTTGATGCTGTGTTCATT 59.987 37.037 0.00 0.00 0.00 2.57
6040 6450 0.742281 GCTCGATGTGCCTGTGATGT 60.742 55.000 0.00 0.00 0.00 3.06
6062 6472 0.030101 TTTGCTGGTGTGTAAAGCGC 59.970 50.000 0.00 0.00 39.88 5.92
6063 6473 1.791103 TTGCTGGTGTGTAAAGCGCC 61.791 55.000 2.29 0.00 39.88 6.53
6064 6474 2.258013 GCTGGTGTGTAAAGCGCCA 61.258 57.895 2.29 0.00 43.38 5.69
6065 6475 1.791103 GCTGGTGTGTAAAGCGCCAA 61.791 55.000 2.29 0.00 44.67 4.52
6066 6476 0.040425 CTGGTGTGTAAAGCGCCAAC 60.040 55.000 2.29 0.00 44.67 3.77
6067 6477 0.464735 TGGTGTGTAAAGCGCCAACT 60.465 50.000 2.29 0.00 42.74 3.16
6068 6478 0.237498 GGTGTGTAAAGCGCCAACTC 59.763 55.000 2.29 1.41 36.58 3.01
6069 6479 1.226746 GTGTGTAAAGCGCCAACTCT 58.773 50.000 2.29 0.00 0.00 3.24
6084 6494 4.677779 GCCAACTCTTTTTGTGCTTTGAGA 60.678 41.667 0.00 0.00 0.00 3.27
6096 6506 3.990469 GTGCTTTGAGAATCTCGTCTGAA 59.010 43.478 5.73 0.00 34.92 3.02
6113 6523 0.935196 GAACGACGGGGTGAATATGC 59.065 55.000 0.00 0.00 0.00 3.14
6117 6527 4.481195 CGGGGTGAATATGCCCTG 57.519 61.111 9.34 7.27 44.25 4.45
6166 6576 1.270550 AGAAACGCCTTCATTTGCAGG 59.729 47.619 1.17 0.00 36.40 4.85
6208 6621 9.160496 GTCACTCTTGAGAATTGTAATCTGATT 57.840 33.333 8.14 8.14 30.10 2.57
6230 6643 1.496060 AGGGCACTATGATCGTTGGA 58.504 50.000 0.00 0.00 0.00 3.53
6231 6644 1.414181 AGGGCACTATGATCGTTGGAG 59.586 52.381 0.00 0.00 0.00 3.86
6240 6653 3.912496 TGATCGTTGGAGGTCATCATT 57.088 42.857 0.00 0.00 0.00 2.57
6241 6654 4.220693 TGATCGTTGGAGGTCATCATTT 57.779 40.909 0.00 0.00 0.00 2.32
6243 6656 5.009631 TGATCGTTGGAGGTCATCATTTTT 58.990 37.500 0.00 0.00 0.00 1.94
6245 6658 6.828273 TGATCGTTGGAGGTCATCATTTTTAT 59.172 34.615 0.00 0.00 0.00 1.40
6247 6660 7.461182 TCGTTGGAGGTCATCATTTTTATTT 57.539 32.000 0.00 0.00 0.00 1.40
6248 6661 7.891561 TCGTTGGAGGTCATCATTTTTATTTT 58.108 30.769 0.00 0.00 0.00 1.82
6249 6662 8.364142 TCGTTGGAGGTCATCATTTTTATTTTT 58.636 29.630 0.00 0.00 0.00 1.94
6271 6684 3.991242 GAGGAGAATAACCCTCGGC 57.009 57.895 0.00 0.00 39.49 5.54
6272 6685 0.393448 GAGGAGAATAACCCTCGGCC 59.607 60.000 0.00 0.00 39.49 6.13
6273 6686 0.031010 AGGAGAATAACCCTCGGCCT 60.031 55.000 0.00 0.00 0.00 5.19
6276 6689 2.595238 GAGAATAACCCTCGGCCTAGA 58.405 52.381 5.70 0.00 0.00 2.43
6277 6690 2.559231 GAGAATAACCCTCGGCCTAGAG 59.441 54.545 5.70 3.01 37.97 2.43
6278 6691 2.091222 AGAATAACCCTCGGCCTAGAGT 60.091 50.000 5.70 0.00 36.56 3.24
6279 6692 1.705873 ATAACCCTCGGCCTAGAGTG 58.294 55.000 5.70 0.00 36.56 3.51
6280 6693 0.627451 TAACCCTCGGCCTAGAGTGA 59.373 55.000 5.70 0.00 36.56 3.41
6281 6694 0.032017 AACCCTCGGCCTAGAGTGAT 60.032 55.000 5.70 0.00 36.56 3.06
6282 6695 0.757188 ACCCTCGGCCTAGAGTGATG 60.757 60.000 5.70 0.00 36.56 3.07
6283 6696 1.365633 CCTCGGCCTAGAGTGATGC 59.634 63.158 5.70 0.00 36.56 3.91
6284 6697 1.395045 CCTCGGCCTAGAGTGATGCA 61.395 60.000 5.70 0.00 36.56 3.96
6285 6698 0.678395 CTCGGCCTAGAGTGATGCAT 59.322 55.000 0.00 0.00 33.75 3.96
6286 6699 0.390492 TCGGCCTAGAGTGATGCATG 59.610 55.000 2.46 0.00 0.00 4.06
6287 6700 1.226686 CGGCCTAGAGTGATGCATGC 61.227 60.000 11.82 11.82 0.00 4.06
6288 6701 0.179037 GGCCTAGAGTGATGCATGCA 60.179 55.000 25.04 25.04 0.00 3.96
6289 6702 1.227639 GCCTAGAGTGATGCATGCAG 58.772 55.000 26.69 9.90 0.00 4.41
6290 6703 1.227639 CCTAGAGTGATGCATGCAGC 58.772 55.000 28.44 28.44 45.96 5.25
6291 6704 1.227639 CTAGAGTGATGCATGCAGCC 58.772 55.000 31.30 22.08 44.83 4.85
6292 6705 0.542805 TAGAGTGATGCATGCAGCCA 59.457 50.000 31.30 24.21 44.83 4.75
6293 6706 0.106669 AGAGTGATGCATGCAGCCAT 60.107 50.000 31.30 20.40 44.83 4.40
6294 6707 1.142262 AGAGTGATGCATGCAGCCATA 59.858 47.619 31.30 12.00 44.83 2.74
6295 6708 2.160205 GAGTGATGCATGCAGCCATAT 58.840 47.619 31.30 19.42 44.83 1.78
6296 6709 2.557056 GAGTGATGCATGCAGCCATATT 59.443 45.455 31.30 11.36 44.83 1.28
6297 6710 3.754850 GAGTGATGCATGCAGCCATATTA 59.245 43.478 31.30 10.43 44.83 0.98
6298 6711 4.341487 AGTGATGCATGCAGCCATATTAT 58.659 39.130 31.30 9.02 44.83 1.28
6299 6712 4.770531 AGTGATGCATGCAGCCATATTATT 59.229 37.500 31.30 8.21 44.83 1.40
6300 6713 5.947566 AGTGATGCATGCAGCCATATTATTA 59.052 36.000 31.30 8.11 44.83 0.98
6301 6714 6.434965 AGTGATGCATGCAGCCATATTATTAA 59.565 34.615 31.30 7.33 44.83 1.40
6302 6715 7.039574 AGTGATGCATGCAGCCATATTATTAAA 60.040 33.333 31.30 6.79 44.83 1.52
6303 6716 7.599621 GTGATGCATGCAGCCATATTATTAAAA 59.400 33.333 31.30 6.57 44.83 1.52
6304 6717 7.599621 TGATGCATGCAGCCATATTATTAAAAC 59.400 33.333 31.30 0.00 44.83 2.43
6305 6718 6.814043 TGCATGCAGCCATATTATTAAAACA 58.186 32.000 18.46 0.00 44.83 2.83
6306 6719 7.270779 TGCATGCAGCCATATTATTAAAACAA 58.729 30.769 18.46 0.00 44.83 2.83
6307 6720 7.438757 TGCATGCAGCCATATTATTAAAACAAG 59.561 33.333 18.46 0.00 44.83 3.16
6308 6721 7.439056 GCATGCAGCCATATTATTAAAACAAGT 59.561 33.333 14.21 0.00 37.23 3.16
6309 6722 8.757789 CATGCAGCCATATTATTAAAACAAGTG 58.242 33.333 0.00 0.00 0.00 3.16
6310 6723 6.756074 TGCAGCCATATTATTAAAACAAGTGC 59.244 34.615 0.00 0.00 0.00 4.40
6311 6724 6.756074 GCAGCCATATTATTAAAACAAGTGCA 59.244 34.615 0.00 0.00 0.00 4.57
6312 6725 7.277539 GCAGCCATATTATTAAAACAAGTGCAA 59.722 33.333 0.00 0.00 0.00 4.08
6313 6726 9.149225 CAGCCATATTATTAAAACAAGTGCAAA 57.851 29.630 0.00 0.00 0.00 3.68
6314 6727 9.369904 AGCCATATTATTAAAACAAGTGCAAAG 57.630 29.630 0.00 0.00 0.00 2.77
6315 6728 9.364989 GCCATATTATTAAAACAAGTGCAAAGA 57.635 29.630 0.00 0.00 0.00 2.52
6320 6733 9.816354 ATTATTAAAACAAGTGCAAAGACAAGT 57.184 25.926 0.00 0.00 0.00 3.16
6321 6734 7.755582 ATTAAAACAAGTGCAAAGACAAGTC 57.244 32.000 0.00 0.00 0.00 3.01
6322 6735 5.391312 AAAACAAGTGCAAAGACAAGTCT 57.609 34.783 0.00 0.00 42.75 3.24
6323 6736 4.622701 AACAAGTGCAAAGACAAGTCTC 57.377 40.909 2.78 0.00 39.39 3.36
6324 6737 3.609853 ACAAGTGCAAAGACAAGTCTCA 58.390 40.909 2.78 0.00 39.39 3.27
6325 6738 4.009675 ACAAGTGCAAAGACAAGTCTCAA 58.990 39.130 2.78 0.00 39.39 3.02
6326 6739 4.095483 ACAAGTGCAAAGACAAGTCTCAAG 59.905 41.667 2.78 0.00 39.39 3.02
6327 6740 3.878778 AGTGCAAAGACAAGTCTCAAGT 58.121 40.909 2.78 0.00 39.39 3.16
6328 6741 3.624861 AGTGCAAAGACAAGTCTCAAGTG 59.375 43.478 2.78 1.81 39.39 3.16
6329 6742 3.375299 GTGCAAAGACAAGTCTCAAGTGT 59.625 43.478 2.78 0.00 39.39 3.55
6330 6743 4.570772 GTGCAAAGACAAGTCTCAAGTGTA 59.429 41.667 2.78 0.00 39.39 2.90
6331 6744 5.064707 GTGCAAAGACAAGTCTCAAGTGTAA 59.935 40.000 2.78 0.00 39.39 2.41
6332 6745 5.294306 TGCAAAGACAAGTCTCAAGTGTAAG 59.706 40.000 2.78 0.00 39.39 2.34
6333 6746 5.294552 GCAAAGACAAGTCTCAAGTGTAAGT 59.705 40.000 2.78 0.00 39.39 2.24
6334 6747 6.510317 GCAAAGACAAGTCTCAAGTGTAAGTC 60.510 42.308 2.78 0.00 39.39 3.01
6335 6748 6.472686 AAGACAAGTCTCAAGTGTAAGTCT 57.527 37.500 2.78 0.00 39.39 3.24
6336 6749 5.837437 AGACAAGTCTCAAGTGTAAGTCTG 58.163 41.667 0.00 0.00 34.17 3.51
6337 6750 4.950050 ACAAGTCTCAAGTGTAAGTCTGG 58.050 43.478 0.00 0.00 0.00 3.86
6338 6751 3.669251 AGTCTCAAGTGTAAGTCTGGC 57.331 47.619 0.00 0.00 0.00 4.85
6339 6752 3.235200 AGTCTCAAGTGTAAGTCTGGCT 58.765 45.455 0.00 0.00 0.00 4.75
6340 6753 3.257127 AGTCTCAAGTGTAAGTCTGGCTC 59.743 47.826 0.00 0.00 0.00 4.70
6341 6754 3.005897 GTCTCAAGTGTAAGTCTGGCTCA 59.994 47.826 0.00 0.00 0.00 4.26
6342 6755 3.005897 TCTCAAGTGTAAGTCTGGCTCAC 59.994 47.826 0.00 0.00 0.00 3.51
6343 6756 2.698274 TCAAGTGTAAGTCTGGCTCACA 59.302 45.455 4.26 0.00 0.00 3.58
6344 6757 3.133901 TCAAGTGTAAGTCTGGCTCACAA 59.866 43.478 4.26 0.00 0.00 3.33
6345 6758 3.838244 AGTGTAAGTCTGGCTCACAAA 57.162 42.857 4.26 0.00 0.00 2.83
6346 6759 4.150897 AGTGTAAGTCTGGCTCACAAAA 57.849 40.909 4.26 0.00 0.00 2.44
6347 6760 4.130118 AGTGTAAGTCTGGCTCACAAAAG 58.870 43.478 4.26 0.00 0.00 2.27
6348 6761 2.878406 TGTAAGTCTGGCTCACAAAAGC 59.122 45.455 0.00 0.00 41.73 3.51
6349 6762 2.355010 AAGTCTGGCTCACAAAAGCT 57.645 45.000 0.00 0.00 42.13 3.74
6350 6763 1.602311 AGTCTGGCTCACAAAAGCTG 58.398 50.000 0.00 0.00 42.13 4.24
6351 6764 1.141657 AGTCTGGCTCACAAAAGCTGA 59.858 47.619 0.00 0.00 42.13 4.26
6352 6765 1.265365 GTCTGGCTCACAAAAGCTGAC 59.735 52.381 0.00 0.00 42.13 3.51
6353 6766 0.595095 CTGGCTCACAAAAGCTGACC 59.405 55.000 0.00 0.00 42.13 4.02
6354 6767 1.165907 TGGCTCACAAAAGCTGACCG 61.166 55.000 0.00 0.00 42.13 4.79
6355 6768 1.166531 GGCTCACAAAAGCTGACCGT 61.167 55.000 0.00 0.00 42.13 4.83
6356 6769 0.235926 GCTCACAAAAGCTGACCGTC 59.764 55.000 0.00 0.00 39.27 4.79
6357 6770 1.581934 CTCACAAAAGCTGACCGTCA 58.418 50.000 0.29 0.29 0.00 4.35
6358 6771 2.146342 CTCACAAAAGCTGACCGTCAT 58.854 47.619 0.62 0.00 0.00 3.06
6359 6772 2.143122 TCACAAAAGCTGACCGTCATC 58.857 47.619 0.62 0.00 0.00 2.92
6360 6773 1.872952 CACAAAAGCTGACCGTCATCA 59.127 47.619 0.62 0.00 0.00 3.07
6361 6774 1.873591 ACAAAAGCTGACCGTCATCAC 59.126 47.619 0.62 0.00 0.00 3.06
6362 6775 1.136252 CAAAAGCTGACCGTCATCACG 60.136 52.381 0.62 0.00 46.29 4.35
6363 6776 1.291877 AAAGCTGACCGTCATCACGC 61.292 55.000 0.62 1.99 45.29 5.34
6364 6777 2.125912 GCTGACCGTCATCACGCT 60.126 61.111 0.62 0.00 45.29 5.07
6365 6778 2.447887 GCTGACCGTCATCACGCTG 61.448 63.158 0.62 0.00 45.29 5.18
6366 6779 1.212751 CTGACCGTCATCACGCTGA 59.787 57.895 0.62 0.00 45.29 4.26
6367 6780 0.799917 CTGACCGTCATCACGCTGAG 60.800 60.000 0.62 0.00 45.29 3.35
6368 6781 2.125912 ACCGTCATCACGCTGAGC 60.126 61.111 0.00 0.00 45.29 4.26
6380 6793 2.928416 GCTGAGCGGGTGTTTAACT 58.072 52.632 0.00 0.00 0.00 2.24
6396 6809 9.758651 GGTGTTTAACTCAAATCTGGTTAATTT 57.241 29.630 0.00 0.00 36.00 1.82
6411 6824 9.643735 TCTGGTTAATTTAAGTTGGGAACTAAA 57.356 29.630 0.00 0.00 41.91 1.85
6417 6830 8.541899 AATTTAAGTTGGGAACTAAAACTCCA 57.458 30.769 0.00 0.00 41.91 3.86
6418 6831 7.576861 TTTAAGTTGGGAACTAAAACTCCAG 57.423 36.000 0.00 0.00 41.91 3.86
6419 6832 4.790718 AGTTGGGAACTAAAACTCCAGT 57.209 40.909 0.00 0.00 40.69 4.00
6482 6895 5.863935 GTGTGATCCTTTCATTTTTAGTGCC 59.136 40.000 0.00 0.00 36.54 5.01
6491 6904 8.253113 CCTTTCATTTTTAGTGCCAACTCATAT 58.747 33.333 0.00 0.00 37.88 1.78
6492 6905 8.984891 TTTCATTTTTAGTGCCAACTCATATG 57.015 30.769 0.00 0.00 37.88 1.78
6493 6906 6.563422 TCATTTTTAGTGCCAACTCATATGC 58.437 36.000 0.00 0.00 37.88 3.14
6494 6907 5.973899 TTTTTAGTGCCAACTCATATGCA 57.026 34.783 0.00 0.00 37.88 3.96
6497 6910 1.755179 GTGCCAACTCATATGCACCT 58.245 50.000 0.00 0.00 46.33 4.00
6498 6911 2.917933 GTGCCAACTCATATGCACCTA 58.082 47.619 0.00 0.00 46.33 3.08
6499 6912 3.278574 GTGCCAACTCATATGCACCTAA 58.721 45.455 0.00 0.00 46.33 2.69
6500 6913 3.694072 GTGCCAACTCATATGCACCTAAA 59.306 43.478 0.00 0.00 46.33 1.85
6501 6914 4.157656 GTGCCAACTCATATGCACCTAAAA 59.842 41.667 0.00 0.00 46.33 1.52
6502 6915 4.398988 TGCCAACTCATATGCACCTAAAAG 59.601 41.667 0.00 0.00 0.00 2.27
6505 6918 6.350110 GCCAACTCATATGCACCTAAAAGAAA 60.350 38.462 0.00 0.00 0.00 2.52
6537 6952 6.838198 TTCATACAAGGATTTACGAATCGG 57.162 37.500 7.80 0.00 42.12 4.18
6548 6963 5.789710 TTTACGAATCGGAACAAGGAATC 57.210 39.130 7.80 0.00 25.49 2.52
6589 7008 7.066525 TCAGTTTATTTCGAGTTCAAGTTGGTT 59.933 33.333 2.34 0.00 0.00 3.67
6593 7012 3.254470 TCGAGTTCAAGTTGGTTGTCA 57.746 42.857 2.34 0.00 37.43 3.58
6599 7018 5.192927 AGTTCAAGTTGGTTGTCAAGATCA 58.807 37.500 2.34 0.00 37.43 2.92
6602 7021 4.136796 CAAGTTGGTTGTCAAGATCAGGA 58.863 43.478 0.00 0.00 35.80 3.86
6608 7027 4.580167 TGGTTGTCAAGATCAGGAAACAAG 59.420 41.667 0.00 0.00 0.00 3.16
6609 7028 4.580580 GGTTGTCAAGATCAGGAAACAAGT 59.419 41.667 0.00 0.00 0.00 3.16
6642 7062 1.147153 GCTTTAGCCATCGGGAGCT 59.853 57.895 0.00 0.00 43.20 4.09
6668 7088 3.922910 TGCAAATTTTCGCATCCATGAA 58.077 36.364 0.00 0.00 31.95 2.57
6687 7107 5.471556 TGAAATCAAAATGCAGGACATGT 57.528 34.783 0.00 0.00 39.60 3.21
6690 7110 3.940209 TCAAAATGCAGGACATGTTCC 57.060 42.857 0.00 2.84 46.33 3.62
6725 7145 8.534333 AATACACACACAAGTTACAGATAGTG 57.466 34.615 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 91 5.041287 CAGATGCTTCGATGATTTTGCAAT 58.959 37.500 0.00 0.00 34.07 3.56
96 98 2.947652 CAACCCAGATGCTTCGATGATT 59.052 45.455 1.89 0.00 0.00 2.57
161 163 0.179171 CTGCGACCACGTACTTCGAT 60.179 55.000 14.71 0.00 42.86 3.59
186 188 0.110238 CATGCTTTGAACGGTCACGG 60.110 55.000 0.44 0.00 46.48 4.94
315 317 2.930040 CCTGCTTTAACGATGACGATGT 59.070 45.455 0.00 0.00 42.66 3.06
323 325 0.036765 TGACGGCCTGCTTTAACGAT 60.037 50.000 0.00 0.00 0.00 3.73
328 330 0.179043 TGTTGTGACGGCCTGCTTTA 60.179 50.000 0.00 0.00 0.00 1.85
409 411 3.499338 TGTTGGGATGACAAGCTTTGAT 58.501 40.909 0.00 0.00 0.00 2.57
443 445 1.338294 TGATGTTGCGACAATACCCGT 60.338 47.619 11.67 0.00 39.66 5.28
911 913 7.741652 GTGGATCGAAATTTGAAGCAATTTTTC 59.258 33.333 0.00 0.00 30.49 2.29
912 914 7.307930 GGTGGATCGAAATTTGAAGCAATTTTT 60.308 33.333 0.00 0.00 30.49 1.94
942 944 1.523154 GGTTTTGGCGATGTCCAGCA 61.523 55.000 0.00 0.00 37.44 4.41
1432 1438 0.320771 TTCTTCTCCTTCACGGCTGC 60.321 55.000 0.00 0.00 0.00 5.25
1649 1655 7.816945 ACTTGTGCATAAATAGAATTGCAAC 57.183 32.000 0.00 0.00 45.74 4.17
1772 1778 8.578151 ACTTTCTACAACCACAAACTTGTAAAA 58.422 29.630 0.00 0.00 39.91 1.52
1860 1867 7.876582 TCCATAAAAATGTCACAAATCAATGCA 59.123 29.630 0.00 0.00 0.00 3.96
1971 1978 0.473755 TGGTGAAAAGAGGCAGCAGA 59.526 50.000 0.00 0.00 37.57 4.26
2001 2008 3.199946 ACCCTACTGTACCACCATTCATG 59.800 47.826 0.00 0.00 0.00 3.07
2044 2051 4.938226 GGTTGTAGCTAGCAAGTGAGAATT 59.062 41.667 18.83 0.00 0.00 2.17
2460 2467 6.035435 CCATCGTGATGTGCTAAATCTATAGC 59.965 42.308 8.89 0.00 40.82 2.97
2623 2630 3.332485 TGTGTAGGCTTTGGTTAGGGATT 59.668 43.478 0.00 0.00 0.00 3.01
2626 2633 2.039879 AGTGTGTAGGCTTTGGTTAGGG 59.960 50.000 0.00 0.00 0.00 3.53
2654 2661 4.763793 AGAAATGGATGTGGACACTTTGAG 59.236 41.667 3.91 0.00 0.00 3.02
2875 2882 6.537660 GGGAAGACACATATGTAACTTACACC 59.462 42.308 24.78 20.38 42.23 4.16
2950 2958 3.884037 AGACCTTCCCAATCAAACTGT 57.116 42.857 0.00 0.00 0.00 3.55
3737 3752 0.263765 TACCCTTATCTGGCCCTCGT 59.736 55.000 0.00 0.00 0.00 4.18
3760 3775 2.551721 CCCAAGCTCTGTCATGAACTGT 60.552 50.000 0.00 0.00 0.00 3.55
3919 4305 5.701290 AGCATATAGGCCGAAATAGTGAAAC 59.299 40.000 5.61 0.00 0.00 2.78
3931 4317 1.478510 CTAGGGACAGCATATAGGCCG 59.521 57.143 5.61 0.00 0.00 6.13
4971 5359 3.319122 AGCATCCGATTGGCCTTAATTTC 59.681 43.478 3.32 0.00 34.14 2.17
5275 5666 3.196901 TCCGACTAATTTAGCCAGCTTCA 59.803 43.478 0.00 0.00 0.00 3.02
5424 5815 1.202200 CCGACAGTAGTAGCAGAGTGC 60.202 57.143 0.00 0.00 45.46 4.40
5712 6121 0.601558 ACCATTGCTTCTTGCTGCTG 59.398 50.000 0.00 0.00 43.37 4.41
5721 6130 3.124297 CAGTCTTCGAGAACCATTGCTTC 59.876 47.826 0.00 0.00 0.00 3.86
5788 6197 4.610945 CTTTCGCTTTGAAACCACAGAAT 58.389 39.130 0.00 0.00 41.59 2.40
5927 6337 4.216472 CCAGATCATCTCATGCTTGATTGG 59.784 45.833 2.33 10.26 30.48 3.16
5942 6352 1.375908 ACGCGTGCAACCAGATCAT 60.376 52.632 12.93 0.00 0.00 2.45
5943 6353 2.030412 ACGCGTGCAACCAGATCA 59.970 55.556 12.93 0.00 0.00 2.92
5980 6390 4.408921 TCAACATATAGGACCCCTCAACAG 59.591 45.833 0.00 0.00 34.61 3.16
5991 6401 5.988287 TGAACACAGCATCAACATATAGGA 58.012 37.500 0.00 0.00 0.00 2.94
6016 6426 0.035317 ACAGGCACATCGAGCTTGAA 59.965 50.000 7.99 0.00 41.07 2.69
6040 6450 2.478709 CGCTTTACACACCAGCAAAACA 60.479 45.455 0.00 0.00 32.71 2.83
6062 6472 4.997565 TCTCAAAGCACAAAAAGAGTTGG 58.002 39.130 0.00 0.00 32.50 3.77
6063 6473 6.976925 AGATTCTCAAAGCACAAAAAGAGTTG 59.023 34.615 0.00 0.00 34.52 3.16
6064 6474 7.105241 AGATTCTCAAAGCACAAAAAGAGTT 57.895 32.000 0.00 0.00 0.00 3.01
6065 6475 6.512415 CGAGATTCTCAAAGCACAAAAAGAGT 60.512 38.462 13.88 0.00 0.00 3.24
6066 6476 5.850128 CGAGATTCTCAAAGCACAAAAAGAG 59.150 40.000 13.88 0.00 0.00 2.85
6067 6477 5.296780 ACGAGATTCTCAAAGCACAAAAAGA 59.703 36.000 13.88 0.00 0.00 2.52
6068 6478 5.514279 ACGAGATTCTCAAAGCACAAAAAG 58.486 37.500 13.88 0.00 0.00 2.27
6069 6479 5.296780 AGACGAGATTCTCAAAGCACAAAAA 59.703 36.000 13.88 0.00 0.00 1.94
6096 6506 1.145377 GGCATATTCACCCCGTCGT 59.855 57.895 0.00 0.00 0.00 4.34
6103 6513 4.520492 CCATTTAGACAGGGCATATTCACC 59.480 45.833 0.00 0.00 0.00 4.02
6113 6523 0.106519 CCTGGCCCATTTAGACAGGG 60.107 60.000 4.65 0.00 43.80 4.45
6117 6527 1.559682 TCTCACCTGGCCCATTTAGAC 59.440 52.381 0.00 0.00 0.00 2.59
6166 6576 1.068541 GTGACGGGCCATGAAAGTTTC 60.069 52.381 4.39 8.75 0.00 2.78
6208 6621 2.419990 CCAACGATCATAGTGCCCTTCA 60.420 50.000 0.00 0.00 0.00 3.02
6253 6666 0.393448 GGCCGAGGGTTATTCTCCTC 59.607 60.000 0.00 0.00 44.50 3.71
6255 6668 1.619332 CTAGGCCGAGGGTTATTCTCC 59.381 57.143 4.68 0.00 0.00 3.71
6256 6669 2.559231 CTCTAGGCCGAGGGTTATTCTC 59.441 54.545 13.44 0.00 0.00 2.87
6257 6670 2.091222 ACTCTAGGCCGAGGGTTATTCT 60.091 50.000 13.42 0.00 35.33 2.40
6258 6671 2.036089 CACTCTAGGCCGAGGGTTATTC 59.964 54.545 16.82 0.00 35.33 1.75
6261 6674 0.627451 TCACTCTAGGCCGAGGGTTA 59.373 55.000 16.82 5.53 35.88 2.85
6262 6675 0.032017 ATCACTCTAGGCCGAGGGTT 60.032 55.000 16.82 0.00 35.88 4.11
6263 6676 0.757188 CATCACTCTAGGCCGAGGGT 60.757 60.000 13.42 13.42 35.88 4.34
6264 6677 2.045280 CATCACTCTAGGCCGAGGG 58.955 63.158 11.81 11.81 35.74 4.30
6265 6678 1.365633 GCATCACTCTAGGCCGAGG 59.634 63.158 13.44 6.43 35.33 4.63
6267 6680 0.390492 CATGCATCACTCTAGGCCGA 59.610 55.000 0.00 0.00 0.00 5.54
6268 6681 1.226686 GCATGCATCACTCTAGGCCG 61.227 60.000 14.21 0.00 0.00 6.13
6269 6682 0.179037 TGCATGCATCACTCTAGGCC 60.179 55.000 18.46 0.00 0.00 5.19
6270 6683 1.227639 CTGCATGCATCACTCTAGGC 58.772 55.000 22.97 0.00 0.00 3.93
6271 6684 1.227639 GCTGCATGCATCACTCTAGG 58.772 55.000 22.97 7.15 42.31 3.02
6272 6685 1.227639 GGCTGCATGCATCACTCTAG 58.772 55.000 22.97 7.95 45.15 2.43
6273 6686 0.542805 TGGCTGCATGCATCACTCTA 59.457 50.000 22.97 3.57 45.15 2.43
6276 6689 2.287977 ATATGGCTGCATGCATCACT 57.712 45.000 22.97 10.38 45.15 3.41
6277 6690 4.713824 ATAATATGGCTGCATGCATCAC 57.286 40.909 22.97 14.61 45.15 3.06
6278 6691 6.837471 TTAATAATATGGCTGCATGCATCA 57.163 33.333 22.97 21.78 45.15 3.07
6279 6692 7.599621 TGTTTTAATAATATGGCTGCATGCATC 59.400 33.333 22.97 17.75 45.15 3.91
6280 6693 7.443477 TGTTTTAATAATATGGCTGCATGCAT 58.557 30.769 22.97 9.00 45.15 3.96
6281 6694 6.814043 TGTTTTAATAATATGGCTGCATGCA 58.186 32.000 21.29 21.29 45.15 3.96
6282 6695 7.439056 ACTTGTTTTAATAATATGGCTGCATGC 59.561 33.333 11.82 11.82 41.94 4.06
6283 6696 8.757789 CACTTGTTTTAATAATATGGCTGCATG 58.242 33.333 0.50 0.00 0.00 4.06
6284 6697 7.439056 GCACTTGTTTTAATAATATGGCTGCAT 59.561 33.333 0.50 0.00 0.00 3.96
6285 6698 6.756074 GCACTTGTTTTAATAATATGGCTGCA 59.244 34.615 0.50 0.00 0.00 4.41
6286 6699 6.756074 TGCACTTGTTTTAATAATATGGCTGC 59.244 34.615 0.00 0.00 0.00 5.25
6287 6700 8.700722 TTGCACTTGTTTTAATAATATGGCTG 57.299 30.769 0.00 0.00 0.00 4.85
6288 6701 9.369904 CTTTGCACTTGTTTTAATAATATGGCT 57.630 29.630 0.00 0.00 0.00 4.75
6289 6702 9.364989 TCTTTGCACTTGTTTTAATAATATGGC 57.635 29.630 0.00 0.00 0.00 4.40
6294 6707 9.816354 ACTTGTCTTTGCACTTGTTTTAATAAT 57.184 25.926 0.00 0.00 0.00 1.28
6295 6708 9.296400 GACTTGTCTTTGCACTTGTTTTAATAA 57.704 29.630 0.00 0.00 0.00 1.40
6296 6709 8.682710 AGACTTGTCTTTGCACTTGTTTTAATA 58.317 29.630 0.00 0.00 0.00 0.98
6297 6710 7.547227 AGACTTGTCTTTGCACTTGTTTTAAT 58.453 30.769 0.00 0.00 0.00 1.40
6298 6711 6.919721 AGACTTGTCTTTGCACTTGTTTTAA 58.080 32.000 0.00 0.00 0.00 1.52
6299 6712 6.150307 TGAGACTTGTCTTTGCACTTGTTTTA 59.850 34.615 4.67 0.00 0.00 1.52
6300 6713 5.048083 TGAGACTTGTCTTTGCACTTGTTTT 60.048 36.000 4.67 0.00 0.00 2.43
6301 6714 4.458989 TGAGACTTGTCTTTGCACTTGTTT 59.541 37.500 4.67 0.00 0.00 2.83
6302 6715 4.009675 TGAGACTTGTCTTTGCACTTGTT 58.990 39.130 4.67 0.00 0.00 2.83
6303 6716 3.609853 TGAGACTTGTCTTTGCACTTGT 58.390 40.909 4.67 0.00 0.00 3.16
6304 6717 4.095483 ACTTGAGACTTGTCTTTGCACTTG 59.905 41.667 4.67 0.00 0.00 3.16
6305 6718 4.095483 CACTTGAGACTTGTCTTTGCACTT 59.905 41.667 4.67 0.00 0.00 3.16
6306 6719 3.624861 CACTTGAGACTTGTCTTTGCACT 59.375 43.478 4.67 0.00 0.00 4.40
6307 6720 3.375299 ACACTTGAGACTTGTCTTTGCAC 59.625 43.478 4.67 0.00 0.00 4.57
6308 6721 3.609853 ACACTTGAGACTTGTCTTTGCA 58.390 40.909 4.67 0.00 0.00 4.08
6309 6722 5.294552 ACTTACACTTGAGACTTGTCTTTGC 59.705 40.000 4.67 0.00 0.00 3.68
6310 6723 6.758886 AGACTTACACTTGAGACTTGTCTTTG 59.241 38.462 4.67 3.64 0.00 2.77
6311 6724 6.758886 CAGACTTACACTTGAGACTTGTCTTT 59.241 38.462 4.67 0.00 31.02 2.52
6312 6725 6.276847 CAGACTTACACTTGAGACTTGTCTT 58.723 40.000 4.67 0.00 31.02 3.01
6313 6726 5.221342 CCAGACTTACACTTGAGACTTGTCT 60.221 44.000 2.59 2.59 33.26 3.41
6314 6727 4.985409 CCAGACTTACACTTGAGACTTGTC 59.015 45.833 0.00 0.00 0.00 3.18
6315 6728 4.740934 GCCAGACTTACACTTGAGACTTGT 60.741 45.833 0.00 0.00 0.00 3.16
6316 6729 3.743396 GCCAGACTTACACTTGAGACTTG 59.257 47.826 0.00 0.00 0.00 3.16
6317 6730 3.643792 AGCCAGACTTACACTTGAGACTT 59.356 43.478 0.00 0.00 0.00 3.01
6318 6731 3.235200 AGCCAGACTTACACTTGAGACT 58.765 45.455 0.00 0.00 0.00 3.24
6319 6732 3.005897 TGAGCCAGACTTACACTTGAGAC 59.994 47.826 0.00 0.00 0.00 3.36
6320 6733 3.005897 GTGAGCCAGACTTACACTTGAGA 59.994 47.826 0.00 0.00 35.03 3.27
6321 6734 3.243873 TGTGAGCCAGACTTACACTTGAG 60.244 47.826 0.00 0.00 39.77 3.02
6322 6735 2.698274 TGTGAGCCAGACTTACACTTGA 59.302 45.455 0.00 0.00 39.77 3.02
6323 6736 3.111853 TGTGAGCCAGACTTACACTTG 57.888 47.619 0.00 0.00 39.77 3.16
6324 6737 3.838244 TTGTGAGCCAGACTTACACTT 57.162 42.857 0.00 0.00 43.94 3.16
6325 6738 3.838244 TTTGTGAGCCAGACTTACACT 57.162 42.857 0.00 0.00 43.94 3.55
6326 6739 3.304057 GCTTTTGTGAGCCAGACTTACAC 60.304 47.826 0.00 0.00 43.94 2.90
6327 6740 2.878406 GCTTTTGTGAGCCAGACTTACA 59.122 45.455 0.00 0.00 42.69 2.41
6328 6741 3.058639 CAGCTTTTGTGAGCCAGACTTAC 60.059 47.826 0.00 0.00 43.74 2.34
6329 6742 3.141398 CAGCTTTTGTGAGCCAGACTTA 58.859 45.455 0.00 0.00 43.74 2.24
6330 6743 1.952296 CAGCTTTTGTGAGCCAGACTT 59.048 47.619 0.00 0.00 43.74 3.01
6331 6744 1.141657 TCAGCTTTTGTGAGCCAGACT 59.858 47.619 0.00 0.00 43.74 3.24
6332 6745 1.265365 GTCAGCTTTTGTGAGCCAGAC 59.735 52.381 0.00 4.92 43.74 3.51
6333 6746 1.597742 GTCAGCTTTTGTGAGCCAGA 58.402 50.000 0.00 0.00 43.74 3.86
6334 6747 0.595095 GGTCAGCTTTTGTGAGCCAG 59.405 55.000 0.00 0.00 43.74 4.85
6335 6748 1.165907 CGGTCAGCTTTTGTGAGCCA 61.166 55.000 0.00 0.00 43.74 4.75
6336 6749 1.166531 ACGGTCAGCTTTTGTGAGCC 61.167 55.000 0.00 0.00 43.74 4.70
6337 6750 0.235926 GACGGTCAGCTTTTGTGAGC 59.764 55.000 2.62 0.00 43.02 4.26
6338 6751 1.581934 TGACGGTCAGCTTTTGTGAG 58.418 50.000 6.76 0.00 0.00 3.51
6339 6752 2.143122 GATGACGGTCAGCTTTTGTGA 58.857 47.619 18.45 0.00 28.67 3.58
6340 6753 1.872952 TGATGACGGTCAGCTTTTGTG 59.127 47.619 24.77 0.00 33.24 3.33
6341 6754 1.873591 GTGATGACGGTCAGCTTTTGT 59.126 47.619 24.77 2.93 33.24 2.83
6342 6755 1.136252 CGTGATGACGGTCAGCTTTTG 60.136 52.381 24.77 9.88 42.18 2.44
6343 6756 1.148310 CGTGATGACGGTCAGCTTTT 58.852 50.000 24.77 4.42 42.18 2.27
6344 6757 1.291877 GCGTGATGACGGTCAGCTTT 61.292 55.000 24.77 4.81 46.20 3.51
6345 6758 1.738099 GCGTGATGACGGTCAGCTT 60.738 57.895 24.77 5.19 46.20 3.74
6346 6759 2.125912 GCGTGATGACGGTCAGCT 60.126 61.111 24.77 5.95 46.20 4.24
6362 6775 0.796927 GAGTTAAACACCCGCTCAGC 59.203 55.000 0.00 0.00 0.00 4.26
6363 6776 2.163818 TGAGTTAAACACCCGCTCAG 57.836 50.000 0.00 0.00 33.05 3.35
6364 6777 2.623878 TTGAGTTAAACACCCGCTCA 57.376 45.000 0.00 0.00 34.80 4.26
6365 6778 3.751698 AGATTTGAGTTAAACACCCGCTC 59.248 43.478 0.00 0.00 0.00 5.03
6366 6779 3.502211 CAGATTTGAGTTAAACACCCGCT 59.498 43.478 0.00 0.00 0.00 5.52
6367 6780 3.365969 CCAGATTTGAGTTAAACACCCGC 60.366 47.826 0.00 0.00 0.00 6.13
6368 6781 3.818773 ACCAGATTTGAGTTAAACACCCG 59.181 43.478 0.00 0.00 0.00 5.28
6369 6782 5.784578 AACCAGATTTGAGTTAAACACCC 57.215 39.130 0.00 0.00 0.00 4.61
6370 6783 9.758651 AAATTAACCAGATTTGAGTTAAACACC 57.241 29.630 11.39 0.00 38.90 4.16
6380 6793 8.713708 TCCCAACTTAAATTAACCAGATTTGA 57.286 30.769 0.00 0.00 0.00 2.69
6396 6809 6.256643 ACTGGAGTTTTAGTTCCCAACTTA 57.743 37.500 0.00 0.00 42.81 2.24
6399 6812 5.434352 GAACTGGAGTTTTAGTTCCCAAC 57.566 43.478 0.00 0.00 44.30 3.77
6411 6824 8.697507 ATAAAGATTCAAACTGAACTGGAGTT 57.302 30.769 0.00 0.00 39.45 3.01
6413 6826 9.442047 ACTATAAAGATTCAAACTGAACTGGAG 57.558 33.333 0.00 0.00 39.45 3.86
6414 6827 9.793259 AACTATAAAGATTCAAACTGAACTGGA 57.207 29.630 0.00 0.00 39.45 3.86
6458 6871 5.863935 GGCACTAAAAATGAAAGGATCACAC 59.136 40.000 0.00 0.00 41.93 3.82
6480 6893 4.640201 TCTTTTAGGTGCATATGAGTTGGC 59.360 41.667 6.97 0.00 0.00 4.52
6482 6895 8.915654 GTTTTTCTTTTAGGTGCATATGAGTTG 58.084 33.333 6.97 0.00 0.00 3.16
6491 6904 8.908903 TGAATTAGAGTTTTTCTTTTAGGTGCA 58.091 29.630 0.00 0.00 37.36 4.57
6492 6905 9.914131 ATGAATTAGAGTTTTTCTTTTAGGTGC 57.086 29.630 0.00 0.00 37.36 5.01
6514 6929 6.575267 TCCGATTCGTAAATCCTTGTATGAA 58.425 36.000 5.20 0.00 38.46 2.57
6521 6936 4.634443 CCTTGTTCCGATTCGTAAATCCTT 59.366 41.667 5.20 0.00 38.46 3.36
6531 6946 5.674820 GCTTGAAGATTCCTTGTTCCGATTC 60.675 44.000 0.00 0.00 31.62 2.52
6533 6948 3.691609 GCTTGAAGATTCCTTGTTCCGAT 59.308 43.478 0.00 0.00 31.62 4.18
6535 6950 2.162408 GGCTTGAAGATTCCTTGTTCCG 59.838 50.000 0.00 0.00 31.62 4.30
6537 6952 4.802999 CAAGGCTTGAAGATTCCTTGTTC 58.197 43.478 22.64 0.00 46.34 3.18
6548 6963 8.822652 AAATAAACTGAAATCAAGGCTTGAAG 57.177 30.769 31.57 25.08 43.95 3.02
6589 7008 5.034852 TCACTTGTTTCCTGATCTTGACA 57.965 39.130 0.00 0.00 0.00 3.58
6593 7012 6.773976 TTTGTTCACTTGTTTCCTGATCTT 57.226 33.333 0.00 0.00 0.00 2.40
6599 7018 4.220602 AGCACTTTTGTTCACTTGTTTCCT 59.779 37.500 0.00 0.00 0.00 3.36
6602 7021 4.244862 CCAGCACTTTTGTTCACTTGTTT 58.755 39.130 0.00 0.00 0.00 2.83
6608 7027 2.584492 AAGCCAGCACTTTTGTTCAC 57.416 45.000 0.00 0.00 0.00 3.18
6609 7028 3.490761 GCTAAAGCCAGCACTTTTGTTCA 60.491 43.478 4.95 0.00 40.32 3.18
6668 7088 4.824289 GGAACATGTCCTGCATTTTGATT 58.176 39.130 0.00 0.00 43.98 2.57
6687 7107 6.828788 TGTGTGTGTATTACTACCAAAGGAA 58.171 36.000 0.00 0.00 30.60 3.36
6690 7110 7.724305 ACTTGTGTGTGTATTACTACCAAAG 57.276 36.000 0.00 4.55 0.00 2.77


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

AutoCloner maintained by Alex Coulton.