Multiple sequence alignment - TraesCS2D01G489700

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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 TraesCS2D01G489700 chr2D 100.000 3174 0 0 1 3174 588678585 588675412 0.000000e+00 5862.0
1 TraesCS2D01G489700 chr2D 81.154 260 39 6 2869 3127 352209369 352209619 1.930000e-47 200.0
2 TraesCS2D01G489700 chr2D 78.462 260 46 6 2872 3129 304714955 304715206 9.110000e-36 161.0
3 TraesCS2D01G489700 chr2A 92.241 2075 83 22 487 2535 723360560 723358538 0.000000e+00 2868.0
4 TraesCS2D01G489700 chr2A 87.273 385 40 6 3 380 723362191 723361809 6.290000e-117 431.0
5 TraesCS2D01G489700 chr2A 82.011 189 34 0 2941 3129 383594139 383594327 9.110000e-36 161.0
6 TraesCS2D01G489700 chr2A 86.207 145 20 0 3030 3174 723356821 723356677 1.180000e-34 158.0
7 TraesCS2D01G489700 chr2B 89.926 2035 120 49 402 2370 712317650 712319665 0.000000e+00 2543.0
8 TraesCS2D01G489700 chr2B 83.492 315 49 3 2862 3174 712320392 712320705 1.110000e-74 291.0
9 TraesCS2D01G489700 chr2B 78.894 199 33 6 2965 3155 286980418 286980221 3.320000e-25 126.0
10 TraesCS2D01G489700 chr7A 77.917 1277 143 79 1023 2191 495539785 495538540 0.000000e+00 667.0
11 TraesCS2D01G489700 chr7A 78.188 298 48 11 2871 3155 555929930 555930223 1.170000e-39 174.0
12 TraesCS2D01G489700 chr7A 81.188 202 35 2 2941 3139 271372674 271372875 3.280000e-35 159.0
13 TraesCS2D01G489700 chr7A 75.497 302 53 14 96 380 636898502 636898799 9.240000e-26 128.0
14 TraesCS2D01G489700 chr7B 77.105 1354 134 89 1025 2263 461207344 461206052 3.480000e-174 621.0
15 TraesCS2D01G489700 chr7B 76.667 390 70 13 3 380 66507732 66507352 2.500000e-46 196.0
16 TraesCS2D01G489700 chr7D 77.868 741 73 49 1570 2264 444352775 444352080 2.990000e-100 375.0
17 TraesCS2D01G489700 chr7D 79.008 524 57 24 1023 1508 444353393 444352885 3.070000e-80 309.0
18 TraesCS2D01G489700 chr7D 74.947 475 81 25 2730 3174 488140701 488141167 1.940000e-42 183.0
19 TraesCS2D01G489700 chr7D 82.609 184 28 2 2995 3174 464213521 464213704 3.280000e-35 159.0
20 TraesCS2D01G489700 chr7D 80.311 193 38 0 2941 3133 249794712 249794520 2.550000e-31 147.0
21 TraesCS2D01G489700 chr1A 77.644 331 59 10 62 384 326341431 326341108 1.500000e-43 187.0
22 TraesCS2D01G489700 chr6B 81.019 216 40 1 2941 3155 663540070 663539855 1.510000e-38 171.0
23 TraesCS2D01G489700 chr6B 74.439 223 39 9 2873 3093 704970065 704969859 2.620000e-11 80.5
24 TraesCS2D01G489700 chr3D 79.237 236 39 4 2871 3105 373330844 373330618 4.240000e-34 156.0
25 TraesCS2D01G489700 chr3A 74.843 318 58 12 2875 3174 654116649 654116336 1.200000e-24 124.0
26 TraesCS2D01G489700 chr6D 82.400 125 14 8 2872 2992 421875242 421875122 5.600000e-18 102.0
27 TraesCS2D01G489700 chr3B 77.273 132 23 2 255 379 817656464 817656595 1.580000e-08 71.3


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 TraesCS2D01G489700 chr2D 588675412 588678585 3173 True 5862.000000 5862 100.000000 1 3174 1 chr2D.!!$R1 3173
1 TraesCS2D01G489700 chr2A 723356677 723362191 5514 True 1152.333333 2868 88.573667 3 3174 3 chr2A.!!$R1 3171
2 TraesCS2D01G489700 chr2B 712317650 712320705 3055 False 1417.000000 2543 86.709000 402 3174 2 chr2B.!!$F1 2772
3 TraesCS2D01G489700 chr7A 495538540 495539785 1245 True 667.000000 667 77.917000 1023 2191 1 chr7A.!!$R1 1168
4 TraesCS2D01G489700 chr7B 461206052 461207344 1292 True 621.000000 621 77.105000 1025 2263 1 chr7B.!!$R2 1238
5 TraesCS2D01G489700 chr7D 444352080 444353393 1313 True 342.000000 375 78.438000 1023 2264 2 chr7D.!!$R2 1241

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
953 2109 0.108945 GTGGTAGACGGTAGTGGTGC 60.109 60.0 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2266 3704 0.364515 CTAAACCTACGACGCGCAAC 59.635 55.0 5.73 0.0 0.0 4.17 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
36 37 4.074970 CTCAAATGCCCACTAGTCAAGTT 58.925 43.478 0.00 0.00 35.76 2.66
45 46 4.360563 CCACTAGTCAAGTTACTATGGCG 58.639 47.826 0.00 0.00 35.76 5.69
48 49 6.238953 CCACTAGTCAAGTTACTATGGCGTAT 60.239 42.308 0.00 0.00 35.76 3.06
63 64 3.181449 TGGCGTATATTACATGTGGCCTT 60.181 43.478 9.11 0.00 39.95 4.35
70 71 8.227791 CGTATATTACATGTGGCCTTTAATGTC 58.772 37.037 9.11 0.00 35.07 3.06
78 79 1.393603 GCCTTTAATGTCAGCCCTCC 58.606 55.000 0.00 0.00 0.00 4.30
102 103 5.574891 AATAGCATTGCCACGTTATTTGA 57.425 34.783 4.70 0.00 0.00 2.69
113 114 6.017026 TGCCACGTTATTTGAAACATGACTAA 60.017 34.615 0.00 0.00 0.00 2.24
116 117 8.849490 CCACGTTATTTGAAACATGACTAAATG 58.151 33.333 0.00 0.00 0.00 2.32
117 118 8.849490 CACGTTATTTGAAACATGACTAAATGG 58.151 33.333 0.00 0.00 31.46 3.16
138 139 4.101119 TGGGGTAGAGTCTAAAATAGCAGC 59.899 45.833 0.17 0.00 0.00 5.25
153 154 2.569059 AGCAGCGCATATTCAAGTCAT 58.431 42.857 11.47 0.00 0.00 3.06
185 186 5.523552 GCATTAATTTGGGCTACATGAAACC 59.476 40.000 0.00 0.00 0.00 3.27
188 189 1.816074 TTGGGCTACATGAAACCGTC 58.184 50.000 0.00 0.00 0.00 4.79
189 190 0.390603 TGGGCTACATGAAACCGTCG 60.391 55.000 0.00 0.00 0.00 5.12
190 191 1.087771 GGGCTACATGAAACCGTCGG 61.088 60.000 10.48 10.48 0.00 4.79
212 213 9.274065 GTCGGAATGATGTAATTTTTAACAGAC 57.726 33.333 0.00 0.00 0.00 3.51
214 215 9.619316 CGGAATGATGTAATTTTTAACAGACAA 57.381 29.630 0.00 0.00 0.00 3.18
233 234 6.757947 CAGACAAACCATCACAAATCTTTTGT 59.242 34.615 0.00 0.00 38.16 2.83
257 258 1.066430 TCATCTACCCGAACAACTGGC 60.066 52.381 0.00 0.00 0.00 4.85
275 276 1.271597 GGCTGGATCCATATGTGGTCC 60.272 57.143 16.63 17.51 46.16 4.46
279 280 2.705658 TGGATCCATATGTGGTCCTCAC 59.294 50.000 21.83 9.15 46.16 3.51
283 284 1.069204 CCATATGTGGTCCTCACTCCG 59.931 57.143 0.00 0.00 46.20 4.63
289 290 2.512515 GTCCTCACTCCGCCATGC 60.513 66.667 0.00 0.00 0.00 4.06
321 322 0.969917 GCACATGGGTTATGGGTGCA 60.970 55.000 9.90 0.00 42.43 4.57
346 354 4.186926 CGATGGCATCATGGGATACTTAG 58.813 47.826 25.88 2.33 32.98 2.18
349 357 5.645056 TGGCATCATGGGATACTTAGAAA 57.355 39.130 0.00 0.00 30.87 2.52
350 358 6.204852 TGGCATCATGGGATACTTAGAAAT 57.795 37.500 0.00 0.00 30.87 2.17
357 365 7.638444 TCATGGGATACTTAGAAATGGTTTGA 58.362 34.615 0.00 0.00 0.00 2.69
361 369 8.112822 TGGGATACTTAGAAATGGTTTGAATGA 58.887 33.333 0.00 0.00 0.00 2.57
375 383 5.390613 GTTTGAATGACGGTCCAACAATAG 58.609 41.667 5.55 0.00 0.00 1.73
380 388 4.665833 TGACGGTCCAACAATAGGATAG 57.334 45.455 5.55 0.00 37.52 2.08
381 389 3.181469 TGACGGTCCAACAATAGGATAGC 60.181 47.826 5.55 0.00 37.52 2.97
384 392 3.744660 GGTCCAACAATAGGATAGCTGG 58.255 50.000 0.00 0.00 37.52 4.85
385 393 3.496870 GGTCCAACAATAGGATAGCTGGG 60.497 52.174 0.00 0.00 37.52 4.45
387 395 3.136443 TCCAACAATAGGATAGCTGGGTG 59.864 47.826 0.00 0.00 0.00 4.61
388 396 3.117888 CCAACAATAGGATAGCTGGGTGT 60.118 47.826 0.00 0.00 0.00 4.16
389 397 4.102524 CCAACAATAGGATAGCTGGGTGTA 59.897 45.833 0.00 0.00 0.00 2.90
390 398 5.397447 CCAACAATAGGATAGCTGGGTGTAA 60.397 44.000 0.00 0.00 0.00 2.41
391 399 6.299141 CAACAATAGGATAGCTGGGTGTAAT 58.701 40.000 0.00 0.00 0.00 1.89
392 400 6.115448 ACAATAGGATAGCTGGGTGTAATC 57.885 41.667 0.00 0.00 0.00 1.75
394 402 3.060479 AGGATAGCTGGGTGTAATCCA 57.940 47.619 11.16 0.00 38.88 3.41
395 403 2.706190 AGGATAGCTGGGTGTAATCCAC 59.294 50.000 11.16 0.00 43.74 4.02
398 406 4.446311 GGATAGCTGGGTGTAATCCACATT 60.446 45.833 0.00 0.00 46.44 2.71
409 536 9.366216 GGGTGTAATCCACATTTTAAAGAAATC 57.634 33.333 0.00 0.00 46.44 2.17
446 576 7.433680 TCTTTCAGCCCTTTTAATCTTTCAAC 58.566 34.615 0.00 0.00 0.00 3.18
449 579 4.022329 CAGCCCTTTTAATCTTTCAACCGT 60.022 41.667 0.00 0.00 0.00 4.83
452 582 5.151389 CCCTTTTAATCTTTCAACCGTTCG 58.849 41.667 0.00 0.00 0.00 3.95
464 601 2.370281 ACCGTTCGTCTACTCGTCTA 57.630 50.000 0.00 0.00 0.00 2.59
465 602 2.688507 ACCGTTCGTCTACTCGTCTAA 58.311 47.619 0.00 0.00 0.00 2.10
482 619 9.715121 ACTCGTCTAACCTAAATTGTAAATTCA 57.285 29.630 0.00 0.00 0.00 2.57
484 621 9.715121 TCGTCTAACCTAAATTGTAAATTCAGT 57.285 29.630 0.00 0.00 0.00 3.41
485 622 9.755064 CGTCTAACCTAAATTGTAAATTCAGTG 57.245 33.333 0.00 0.00 0.00 3.66
744 1896 3.075005 CATCCCCTGACGACCCGT 61.075 66.667 0.00 0.00 45.10 5.28
801 1953 0.180406 CCCCTTGGACAATACCTCCG 59.820 60.000 0.00 0.00 0.00 4.63
868 2020 3.983988 CGCCAGCCATCATATATACGATC 59.016 47.826 0.00 0.00 0.00 3.69
950 2106 0.815734 CTGGTGGTAGACGGTAGTGG 59.184 60.000 0.00 0.00 0.00 4.00
953 2109 0.108945 GTGGTAGACGGTAGTGGTGC 60.109 60.000 0.00 0.00 0.00 5.01
988 2147 1.762708 AGCTAGAGCAGGAGAGTGTC 58.237 55.000 4.01 0.00 45.16 3.67
1453 2721 3.316573 CTTGGAGGACGGGCAGACC 62.317 68.421 0.00 0.00 34.82 3.85
1535 2840 6.267471 TGCCCTCCAATCATTATCAATAAACC 59.733 38.462 0.00 0.00 0.00 3.27
1541 2854 8.783093 TCCAATCATTATCAATAAACCGCTAAG 58.217 33.333 0.00 0.00 0.00 2.18
1926 3323 3.103911 CAACCTGGTCGACGACGC 61.104 66.667 20.92 14.33 39.58 5.19
1927 3324 3.292936 AACCTGGTCGACGACGCT 61.293 61.111 20.92 1.06 39.58 5.07
2112 3524 4.659172 TGCCGGTGCCTTTGGAGG 62.659 66.667 1.90 0.00 46.50 4.30
2113 3525 4.344865 GCCGGTGCCTTTGGAGGA 62.345 66.667 1.90 0.00 46.74 3.71
2114 3526 2.045926 CCGGTGCCTTTGGAGGAG 60.046 66.667 0.00 0.00 46.74 3.69
2115 3527 2.045926 CGGTGCCTTTGGAGGAGG 60.046 66.667 0.00 0.00 46.74 4.30
2266 3704 0.039074 CGGATCTTCGATCTTCCCGG 60.039 60.000 0.00 0.00 32.64 5.73
2361 3805 2.098233 CCGTCCCATGTGTACGTGC 61.098 63.158 0.00 0.00 34.90 5.34
2452 3941 7.944729 ACTTTCAGTATATTTTGCACTCCAT 57.055 32.000 0.00 0.00 0.00 3.41
2480 3969 7.608308 ACCACTTGTGTAAAAAGTTACGTAA 57.392 32.000 3.29 3.29 43.31 3.18
2481 3970 8.212317 ACCACTTGTGTAAAAAGTTACGTAAT 57.788 30.769 11.86 0.00 43.31 1.89
2525 4187 6.180472 TCCAAAATAGACTCTCAAATGGTCC 58.820 40.000 0.00 0.00 0.00 4.46
2554 5485 3.878086 TCAAACTGAGTTGTTCGCATC 57.122 42.857 0.00 0.00 0.00 3.91
2557 5488 0.317160 ACTGAGTTGTTCGCATCCGA 59.683 50.000 0.00 0.00 42.66 4.55
2560 5491 0.992802 GAGTTGTTCGCATCCGAGAC 59.007 55.000 0.00 0.00 45.35 3.36
2562 5495 1.007336 GTTGTTCGCATCCGAGACGT 61.007 55.000 0.00 0.00 45.35 4.34
2563 5496 1.006825 TTGTTCGCATCCGAGACGTG 61.007 55.000 0.00 0.00 45.35 4.49
2568 5501 1.626654 CGCATCCGAGACGTGCTTTT 61.627 55.000 0.00 0.00 36.74 2.27
2576 5509 1.734465 GAGACGTGCTTTTCCATCCAG 59.266 52.381 0.00 0.00 0.00 3.86
2587 5520 2.890808 TCCATCCAGTATTGTCTCGC 57.109 50.000 0.00 0.00 0.00 5.03
2588 5521 2.107366 TCCATCCAGTATTGTCTCGCA 58.893 47.619 0.00 0.00 0.00 5.10
2589 5522 2.700371 TCCATCCAGTATTGTCTCGCAT 59.300 45.455 0.00 0.00 0.00 4.73
2594 5527 3.384467 TCCAGTATTGTCTCGCATCATCA 59.616 43.478 0.00 0.00 0.00 3.07
2644 5577 0.971386 TTTGTAGGAGTCCGGACCAC 59.029 55.000 30.82 22.86 0.00 4.16
2659 5592 2.026262 GGACCACCACCACATAGAACAT 60.026 50.000 0.00 0.00 35.97 2.71
2663 5596 2.930040 CACCACCACATAGAACATCGAC 59.070 50.000 0.00 0.00 0.00 4.20
2666 5599 3.108881 CACCACATAGAACATCGACGAG 58.891 50.000 3.01 0.00 0.00 4.18
2679 5612 1.457831 GACGAGACCCTAGGCCCAT 60.458 63.158 2.05 0.00 0.00 4.00
2692 5625 1.203162 AGGCCCATCCAAAATCACACA 60.203 47.619 0.00 0.00 37.29 3.72
2700 5647 4.497473 TCCAAAATCACACACGGATTTC 57.503 40.909 0.00 0.00 42.48 2.17
2704 5655 2.403252 ATCACACACGGATTTCCCTC 57.597 50.000 0.00 0.00 0.00 4.30
2713 5664 1.542108 CGGATTTCCCTCCTCTGCATC 60.542 57.143 0.00 0.00 32.77 3.91
2724 5675 1.457346 CTCTGCATCCGCCTTCTTTT 58.543 50.000 0.00 0.00 37.32 2.27
2728 5679 0.603065 GCATCCGCCTTCTTTTTGGT 59.397 50.000 0.00 0.00 0.00 3.67
2744 5695 2.325082 GGTGCCGCCACAGTTGTAG 61.325 63.158 0.00 0.00 43.88 2.74
2750 5701 1.568612 CGCCACAGTTGTAGCACCTG 61.569 60.000 3.75 0.00 32.16 4.00
2756 5707 3.636231 TTGTAGCACCTGGCCGCT 61.636 61.111 14.76 14.76 46.50 5.52
2809 5769 3.849953 GTCGCTTTGCCTACGCCG 61.850 66.667 0.00 0.00 0.00 6.46
2827 5787 0.798776 CGTTGTTCCACATCTCTGGC 59.201 55.000 0.00 0.00 0.00 4.85
2833 5793 1.649321 TCCACATCTCTGGCTTGTCT 58.351 50.000 0.00 0.00 0.00 3.41
2850 5810 1.336125 GTCTGCCGCGTAGGTACTATT 59.664 52.381 4.92 0.00 45.60 1.73
2860 5821 0.106318 AGGTACTATTCTCCCCGCGT 60.106 55.000 4.92 0.00 36.02 6.01
2866 5827 1.887198 CTATTCTCCCCGCGTATGTCT 59.113 52.381 4.92 0.00 0.00 3.41
2870 5832 2.279252 CCCCGCGTATGTCTTCGG 60.279 66.667 4.92 0.00 41.41 4.30
2920 5882 4.666237 GTGAAATGCACCTGCTAGATTTC 58.334 43.478 11.76 11.76 41.78 2.17
2929 5891 5.105997 GCACCTGCTAGATTTCTGACAATTT 60.106 40.000 0.00 0.00 38.21 1.82
2936 5898 7.667219 TGCTAGATTTCTGACAATTTTTCTCCT 59.333 33.333 0.00 0.00 0.00 3.69
2937 5899 8.180920 GCTAGATTTCTGACAATTTTTCTCCTC 58.819 37.037 0.00 0.00 0.00 3.71
2938 5900 7.138692 AGATTTCTGACAATTTTTCTCCTCG 57.861 36.000 0.00 0.00 0.00 4.63
2939 5901 6.936900 AGATTTCTGACAATTTTTCTCCTCGA 59.063 34.615 0.00 0.00 0.00 4.04
2961 5924 5.971202 CGATTGAAGCAATGGGTTTATACAC 59.029 40.000 0.00 0.00 33.90 2.90
2963 5926 4.580868 TGAAGCAATGGGTTTATACACGA 58.419 39.130 0.00 0.00 34.25 4.35
2967 5930 5.736813 AGCAATGGGTTTATACACGAAGTA 58.263 37.500 0.00 0.00 41.61 2.24
2968 5931 5.583457 AGCAATGGGTTTATACACGAAGTAC 59.417 40.000 0.00 0.00 41.61 2.73
2969 5932 5.352016 GCAATGGGTTTATACACGAAGTACA 59.648 40.000 0.00 0.00 41.61 2.90
2970 5933 6.037830 GCAATGGGTTTATACACGAAGTACAT 59.962 38.462 0.00 0.00 41.61 2.29
2971 5934 7.627340 CAATGGGTTTATACACGAAGTACATC 58.373 38.462 0.00 0.00 41.61 3.06
2972 5935 6.534475 TGGGTTTATACACGAAGTACATCT 57.466 37.500 0.00 0.00 41.61 2.90
2973 5936 7.643569 TGGGTTTATACACGAAGTACATCTA 57.356 36.000 0.00 0.00 41.61 1.98
2974 5937 7.483307 TGGGTTTATACACGAAGTACATCTAC 58.517 38.462 0.00 0.00 41.61 2.59
2975 5938 6.634436 GGGTTTATACACGAAGTACATCTACG 59.366 42.308 0.00 0.00 41.61 3.51
2976 5939 7.409697 GGTTTATACACGAAGTACATCTACGA 58.590 38.462 0.00 0.00 41.61 3.43
2977 5940 7.585573 GGTTTATACACGAAGTACATCTACGAG 59.414 40.741 0.00 0.00 41.61 4.18
2978 5941 3.402058 ACACGAAGTACATCTACGAGC 57.598 47.619 0.00 0.00 41.61 5.03
2979 5942 2.745821 ACACGAAGTACATCTACGAGCA 59.254 45.455 0.00 0.00 41.61 4.26
2980 5943 3.099362 CACGAAGTACATCTACGAGCAC 58.901 50.000 0.00 0.00 41.61 4.40
2981 5944 3.008330 ACGAAGTACATCTACGAGCACT 58.992 45.455 0.00 0.00 41.94 4.40
2982 5945 4.033702 CACGAAGTACATCTACGAGCACTA 59.966 45.833 0.00 0.00 41.61 2.74
2983 5946 4.033817 ACGAAGTACATCTACGAGCACTAC 59.966 45.833 0.00 0.00 41.94 2.73
2984 5947 4.516359 GAAGTACATCTACGAGCACTACG 58.484 47.826 0.00 0.00 0.00 3.51
2985 5948 3.529533 AGTACATCTACGAGCACTACGT 58.470 45.455 0.00 0.00 45.75 3.57
2986 5949 3.937706 AGTACATCTACGAGCACTACGTT 59.062 43.478 0.00 0.00 43.62 3.99
2987 5950 3.132629 ACATCTACGAGCACTACGTTG 57.867 47.619 0.00 0.00 43.62 4.10
2988 5951 2.745821 ACATCTACGAGCACTACGTTGA 59.254 45.455 3.44 0.00 45.22 3.18
2989 5952 3.181509 ACATCTACGAGCACTACGTTGAG 60.182 47.826 3.44 0.00 44.67 3.02
2990 5953 2.420642 TCTACGAGCACTACGTTGAGT 58.579 47.619 3.44 0.00 43.62 3.41
2991 5954 2.414481 TCTACGAGCACTACGTTGAGTC 59.586 50.000 3.44 0.00 43.62 3.36
2992 5955 1.236628 ACGAGCACTACGTTGAGTCT 58.763 50.000 3.44 0.00 41.18 3.24
2993 5956 2.420642 ACGAGCACTACGTTGAGTCTA 58.579 47.619 3.44 0.00 41.18 2.59
2994 5957 2.159234 ACGAGCACTACGTTGAGTCTAC 59.841 50.000 3.44 0.00 41.18 2.59
2995 5958 2.475852 CGAGCACTACGTTGAGTCTACC 60.476 54.545 3.44 0.00 0.00 3.18
2996 5959 1.467734 AGCACTACGTTGAGTCTACCG 59.532 52.381 3.44 0.00 0.00 4.02
2997 5960 1.466167 GCACTACGTTGAGTCTACCGA 59.534 52.381 3.44 0.00 0.00 4.69
2998 5961 2.727298 GCACTACGTTGAGTCTACCGAC 60.727 54.545 3.44 0.00 40.54 4.79
2999 5962 1.728971 ACTACGTTGAGTCTACCGACG 59.271 52.381 3.44 0.00 44.93 5.12
3000 5963 1.995484 CTACGTTGAGTCTACCGACGA 59.005 52.381 14.34 3.03 44.93 4.20
3001 5964 0.795085 ACGTTGAGTCTACCGACGAG 59.205 55.000 14.34 0.00 44.93 4.18
3002 5965 0.096628 CGTTGAGTCTACCGACGAGG 59.903 60.000 0.00 0.00 44.93 4.63
3003 5966 1.446907 GTTGAGTCTACCGACGAGGA 58.553 55.000 8.56 0.00 44.93 3.71
3004 5967 1.397692 GTTGAGTCTACCGACGAGGAG 59.602 57.143 8.56 0.00 44.93 3.69
3005 5968 0.107800 TGAGTCTACCGACGAGGAGG 60.108 60.000 8.56 0.00 44.93 4.30
3006 5969 0.177604 GAGTCTACCGACGAGGAGGA 59.822 60.000 8.56 3.76 44.93 3.71
3007 5970 0.838608 AGTCTACCGACGAGGAGGAT 59.161 55.000 8.56 0.00 44.93 3.24
3008 5971 1.212441 AGTCTACCGACGAGGAGGATT 59.788 52.381 8.56 1.39 44.93 3.01
3009 5972 2.437281 AGTCTACCGACGAGGAGGATTA 59.563 50.000 8.56 0.00 44.93 1.75
3010 5973 3.072768 AGTCTACCGACGAGGAGGATTAT 59.927 47.826 8.56 0.00 44.93 1.28
3011 5974 3.188873 GTCTACCGACGAGGAGGATTATG 59.811 52.174 8.56 0.00 45.00 1.90
3012 5975 2.068834 ACCGACGAGGAGGATTATGT 57.931 50.000 8.56 0.00 45.00 2.29
3013 5976 1.681793 ACCGACGAGGAGGATTATGTG 59.318 52.381 8.56 0.00 45.00 3.21
3014 5977 1.000163 CCGACGAGGAGGATTATGTGG 60.000 57.143 0.00 0.00 45.00 4.17
3015 5978 1.954382 CGACGAGGAGGATTATGTGGA 59.046 52.381 0.00 0.00 0.00 4.02
3016 5979 2.558795 CGACGAGGAGGATTATGTGGAT 59.441 50.000 0.00 0.00 0.00 3.41
3017 5980 3.612717 CGACGAGGAGGATTATGTGGATG 60.613 52.174 0.00 0.00 0.00 3.51
3018 5981 3.574396 GACGAGGAGGATTATGTGGATGA 59.426 47.826 0.00 0.00 0.00 2.92
3019 5982 3.967326 ACGAGGAGGATTATGTGGATGAA 59.033 43.478 0.00 0.00 0.00 2.57
3020 5983 4.408921 ACGAGGAGGATTATGTGGATGAAA 59.591 41.667 0.00 0.00 0.00 2.69
3021 5984 5.072329 ACGAGGAGGATTATGTGGATGAAAT 59.928 40.000 0.00 0.00 0.00 2.17
3022 5985 5.410746 CGAGGAGGATTATGTGGATGAAATG 59.589 44.000 0.00 0.00 0.00 2.32
3023 5986 6.520021 AGGAGGATTATGTGGATGAAATGA 57.480 37.500 0.00 0.00 0.00 2.57
3024 5987 6.302269 AGGAGGATTATGTGGATGAAATGAC 58.698 40.000 0.00 0.00 0.00 3.06
3025 5988 5.180117 GGAGGATTATGTGGATGAAATGACG 59.820 44.000 0.00 0.00 0.00 4.35
3028 6050 7.679783 AGGATTATGTGGATGAAATGACGATA 58.320 34.615 0.00 0.00 0.00 2.92
3055 6077 3.876300 GTCTTTGCAGACGCGGAT 58.124 55.556 12.47 0.00 40.30 4.18
3093 6115 4.083324 TGTTCTCAATTTCAAGGCATCGAC 60.083 41.667 0.00 0.00 0.00 4.20
3139 6161 2.683211 ACATGGCATAGGGGGATTTC 57.317 50.000 0.00 0.00 0.00 2.17
3151 6173 2.222027 GGGGATTTCACGATGATGGAC 58.778 52.381 0.00 0.00 0.00 4.02
3155 6177 1.624487 TTTCACGATGATGGACGACG 58.376 50.000 0.00 0.00 0.00 5.12
3161 6183 2.298158 GATGATGGACGACGTGCCCT 62.298 60.000 17.21 4.17 0.00 5.19
3162 6184 2.202756 GATGGACGACGTGCCCTC 60.203 66.667 17.21 9.89 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.818930 GTGGGCATTTGAGAAAAAGATATTGAA 59.181 33.333 0.00 0.00 0.00 2.69
1 2 7.178983 AGTGGGCATTTGAGAAAAAGATATTGA 59.821 33.333 0.00 0.00 0.00 2.57
5 6 7.175104 ACTAGTGGGCATTTGAGAAAAAGATA 58.825 34.615 0.00 0.00 0.00 1.98
17 18 5.242795 AGTAACTTGACTAGTGGGCATTT 57.757 39.130 0.00 0.00 37.12 2.32
23 24 4.142227 ACGCCATAGTAACTTGACTAGTGG 60.142 45.833 0.00 0.00 37.12 4.00
36 37 6.334989 GCCACATGTAATATACGCCATAGTA 58.665 40.000 0.00 0.00 0.00 1.82
45 46 9.062524 TGACATTAAAGGCCACATGTAATATAC 57.937 33.333 5.01 0.00 29.81 1.47
48 49 6.039270 GCTGACATTAAAGGCCACATGTAATA 59.961 38.462 5.01 0.00 29.81 0.98
63 64 4.658435 TGCTATTAGGAGGGCTGACATTAA 59.342 41.667 0.00 0.00 0.00 1.40
70 71 2.157738 GCAATGCTATTAGGAGGGCTG 58.842 52.381 0.00 0.00 0.00 4.85
78 79 6.724263 TCAAATAACGTGGCAATGCTATTAG 58.276 36.000 4.82 0.00 0.00 1.73
102 103 6.215636 AGACTCTACCCCATTTAGTCATGTTT 59.784 38.462 0.00 0.00 39.20 2.83
113 114 6.689177 GCTGCTATTTTAGACTCTACCCCATT 60.689 42.308 0.00 0.00 0.00 3.16
116 117 4.633175 GCTGCTATTTTAGACTCTACCCC 58.367 47.826 0.00 0.00 0.00 4.95
117 118 4.299978 CGCTGCTATTTTAGACTCTACCC 58.700 47.826 0.00 0.00 0.00 3.69
153 154 2.159310 GCCCAAATTAATGCACGCACTA 60.159 45.455 0.00 0.00 0.00 2.74
185 186 8.172484 TCTGTTAAAAATTACATCATTCCGACG 58.828 33.333 0.00 0.00 0.00 5.12
188 189 9.619316 TTGTCTGTTAAAAATTACATCATTCCG 57.381 29.630 0.00 0.00 0.00 4.30
212 213 7.209475 ACCTACAAAAGATTTGTGATGGTTTG 58.791 34.615 16.47 0.00 32.36 2.93
214 215 6.549364 TGACCTACAAAAGATTTGTGATGGTT 59.451 34.615 16.47 8.15 34.54 3.67
246 247 0.321564 TGGATCCAGCCAGTTGTTCG 60.322 55.000 11.44 0.00 33.10 3.95
248 249 3.053395 ACATATGGATCCAGCCAGTTGTT 60.053 43.478 21.33 2.02 42.15 2.83
283 284 4.543084 GCTTCGCTTCCGCATGGC 62.543 66.667 0.00 0.00 35.30 4.40
289 290 2.393768 ATGTGCTGCTTCGCTTCCG 61.394 57.895 0.00 0.00 0.00 4.30
296 297 1.406539 CCATAACCCATGTGCTGCTTC 59.593 52.381 0.00 0.00 32.21 3.86
302 303 0.969917 TGCACCCATAACCCATGTGC 60.970 55.000 6.01 6.01 37.23 4.57
305 306 0.823460 GGTTGCACCCATAACCCATG 59.177 55.000 0.00 0.00 40.31 3.66
309 310 0.738389 CATCGGTTGCACCCATAACC 59.262 55.000 0.00 0.00 42.25 2.85
310 311 0.738389 CCATCGGTTGCACCCATAAC 59.262 55.000 0.00 0.00 33.75 1.89
321 322 0.479815 ATCCCATGATGCCATCGGTT 59.520 50.000 0.00 0.00 33.44 4.44
326 327 5.848286 TTCTAAGTATCCCATGATGCCAT 57.152 39.130 0.00 0.00 34.44 4.40
328 329 5.416952 CCATTTCTAAGTATCCCATGATGCC 59.583 44.000 0.00 0.00 34.44 4.40
330 331 8.355169 CAAACCATTTCTAAGTATCCCATGATG 58.645 37.037 0.00 0.00 32.18 3.07
342 350 6.254281 ACCGTCATTCAAACCATTTCTAAG 57.746 37.500 0.00 0.00 0.00 2.18
346 354 3.254657 TGGACCGTCATTCAAACCATTTC 59.745 43.478 0.00 0.00 0.00 2.17
349 357 2.556622 GTTGGACCGTCATTCAAACCAT 59.443 45.455 0.00 0.00 0.00 3.55
350 358 1.950909 GTTGGACCGTCATTCAAACCA 59.049 47.619 0.00 0.00 0.00 3.67
357 365 3.992943 TCCTATTGTTGGACCGTCATT 57.007 42.857 0.00 0.00 0.00 2.57
361 369 3.039011 AGCTATCCTATTGTTGGACCGT 58.961 45.455 0.00 0.00 36.30 4.83
375 383 3.127425 GTGGATTACACCCAGCTATCC 57.873 52.381 2.92 2.92 44.49 2.59
431 558 6.656003 AGACGAACGGTTGAAAGATTAAAAG 58.344 36.000 0.00 0.00 0.00 2.27
446 576 2.222908 GGTTAGACGAGTAGACGAACGG 60.223 54.545 0.00 0.00 32.93 4.44
449 579 6.992063 ATTTAGGTTAGACGAGTAGACGAA 57.008 37.500 0.00 0.00 37.03 3.85
452 582 9.846248 TTTACAATTTAGGTTAGACGAGTAGAC 57.154 33.333 0.00 0.00 0.00 2.59
801 1953 0.238553 GAAACGAGCTTCCTTGGTGC 59.761 55.000 0.00 0.00 0.00 5.01
850 2002 5.899547 TGGAAGGATCGTATATATGATGGCT 59.100 40.000 19.94 5.77 32.36 4.75
856 2008 6.834451 AGGTAGGTGGAAGGATCGTATATATG 59.166 42.308 0.00 0.00 0.00 1.78
868 2020 1.952621 TGAGGAAGGTAGGTGGAAGG 58.047 55.000 0.00 0.00 0.00 3.46
935 2088 1.588824 CGCACCACTACCGTCTACCA 61.589 60.000 0.00 0.00 0.00 3.25
936 2089 1.138247 CGCACCACTACCGTCTACC 59.862 63.158 0.00 0.00 0.00 3.18
961 2117 0.821711 CCTGCTCTAGCTACCTCGCT 60.822 60.000 3.26 0.00 43.83 4.93
967 2126 2.616842 GACACTCTCCTGCTCTAGCTAC 59.383 54.545 3.26 0.00 42.66 3.58
988 2147 2.482664 CCATGGACATCTCTGAACTCGG 60.483 54.545 5.56 0.00 0.00 4.63
1021 2196 0.257039 GCCAGGTCATCCATCACCTT 59.743 55.000 0.00 0.00 41.41 3.50
1330 2595 8.249638 CCAGTTCATTATCACGATCTATCATCT 58.750 37.037 0.00 0.00 0.00 2.90
1331 2596 8.246871 TCCAGTTCATTATCACGATCTATCATC 58.753 37.037 0.00 0.00 0.00 2.92
1332 2597 8.127150 TCCAGTTCATTATCACGATCTATCAT 57.873 34.615 0.00 0.00 0.00 2.45
1333 2598 7.524717 TCCAGTTCATTATCACGATCTATCA 57.475 36.000 0.00 0.00 0.00 2.15
1334 2599 8.994429 ATTCCAGTTCATTATCACGATCTATC 57.006 34.615 0.00 0.00 0.00 2.08
1336 2601 9.860898 CATATTCCAGTTCATTATCACGATCTA 57.139 33.333 0.00 0.00 0.00 1.98
1337 2602 8.370940 ACATATTCCAGTTCATTATCACGATCT 58.629 33.333 0.00 0.00 0.00 2.75
1338 2603 8.539770 ACATATTCCAGTTCATTATCACGATC 57.460 34.615 0.00 0.00 0.00 3.69
1535 2840 4.035017 CACACTTGGTGTTTTTCTTAGCG 58.965 43.478 0.19 0.00 45.08 4.26
1952 3349 1.904865 CAAGCTTCAGGCCAGGCAA 60.905 57.895 15.19 0.00 43.05 4.52
2112 3524 2.644676 GGTAACCATCAAAGAGCCCTC 58.355 52.381 0.00 0.00 0.00 4.30
2113 3525 2.808906 GGTAACCATCAAAGAGCCCT 57.191 50.000 0.00 0.00 0.00 5.19
2266 3704 0.364515 CTAAACCTACGACGCGCAAC 59.635 55.000 5.73 0.00 0.00 4.17
2302 3740 4.023792 CAGCTTCAAAGTGACACTATGCAA 60.024 41.667 8.91 0.00 0.00 4.08
2361 3805 6.433766 GCTCAGCTAAAAGGCTAACATAATG 58.566 40.000 0.00 0.00 41.00 1.90
2403 3869 1.265365 GTTCACTTCTCAGCCACTTGC 59.735 52.381 0.00 0.00 41.71 4.01
2452 3941 6.479660 CGTAACTTTTTACACAAGTGGTAGGA 59.520 38.462 5.08 0.00 37.99 2.94
2480 3969 2.158295 AGGATGCCCTAACCGAGTAGAT 60.158 50.000 0.00 0.00 42.15 1.98
2481 3970 1.217183 AGGATGCCCTAACCGAGTAGA 59.783 52.381 0.00 0.00 42.15 2.59
2525 4187 2.452006 ACTCAGTTTGAACGTTTGCG 57.548 45.000 0.46 0.00 44.93 4.85
2554 5485 0.721718 GATGGAAAAGCACGTCTCGG 59.278 55.000 0.00 0.00 0.00 4.63
2557 5488 1.072331 ACTGGATGGAAAAGCACGTCT 59.928 47.619 0.00 0.00 0.00 4.18
2560 5491 3.440173 ACAATACTGGATGGAAAAGCACG 59.560 43.478 0.00 0.00 0.00 5.34
2562 5495 4.922206 AGACAATACTGGATGGAAAAGCA 58.078 39.130 0.00 0.00 0.00 3.91
2563 5496 4.034510 CGAGACAATACTGGATGGAAAAGC 59.965 45.833 0.00 0.00 0.00 3.51
2568 5501 2.107366 TGCGAGACAATACTGGATGGA 58.893 47.619 0.00 0.00 0.00 3.41
2576 5509 4.681942 GGTACTGATGATGCGAGACAATAC 59.318 45.833 0.00 0.00 0.00 1.89
2587 5520 1.327460 CGGTTTGCGGTACTGATGATG 59.673 52.381 5.68 0.00 0.00 3.07
2588 5521 1.651987 CGGTTTGCGGTACTGATGAT 58.348 50.000 5.68 0.00 0.00 2.45
2589 5522 0.390603 CCGGTTTGCGGTACTGATGA 60.391 55.000 5.68 0.00 0.00 2.92
2594 5527 2.660802 CCTCCGGTTTGCGGTACT 59.339 61.111 0.00 0.00 0.00 2.73
2644 5577 2.159296 TCGTCGATGTTCTATGTGGTGG 60.159 50.000 4.21 0.00 0.00 4.61
2659 5592 2.124403 GGCCTAGGGTCTCGTCGA 60.124 66.667 11.72 0.00 0.00 4.20
2663 5596 2.210711 GGATGGGCCTAGGGTCTCG 61.211 68.421 11.72 0.00 0.00 4.04
2666 5599 0.629058 TTTTGGATGGGCCTAGGGTC 59.371 55.000 11.72 0.00 37.63 4.46
2679 5612 3.254657 GGAAATCCGTGTGTGATTTTGGA 59.745 43.478 0.00 0.00 41.29 3.53
2692 5625 0.909610 TGCAGAGGAGGGAAATCCGT 60.910 55.000 0.00 0.00 44.65 4.69
2700 5647 4.247380 GGCGGATGCAGAGGAGGG 62.247 72.222 0.00 0.00 45.35 4.30
2704 5655 0.393537 AAAGAAGGCGGATGCAGAGG 60.394 55.000 0.00 0.00 45.35 3.69
2713 5664 1.006220 GGCACCAAAAAGAAGGCGG 60.006 57.895 0.00 0.00 0.00 6.13
2728 5679 2.668212 GCTACAACTGTGGCGGCA 60.668 61.111 7.97 7.97 42.42 5.69
2738 5689 3.431725 GCGGCCAGGTGCTACAAC 61.432 66.667 2.24 0.00 40.92 3.32
2739 5690 3.605749 GAGCGGCCAGGTGCTACAA 62.606 63.158 2.24 0.00 42.60 2.41
2790 5750 3.849953 GCGTAGGCAAAGCGACGG 61.850 66.667 14.12 1.01 38.42 4.79
2827 5787 0.801067 GTACCTACGCGGCAGACAAG 60.801 60.000 12.47 0.00 35.61 3.16
2833 5793 1.605710 GAGAATAGTACCTACGCGGCA 59.394 52.381 12.47 0.00 35.61 5.69
2837 5797 1.538950 CGGGGAGAATAGTACCTACGC 59.461 57.143 0.00 0.00 0.00 4.42
2840 5800 1.143684 ACGCGGGGAGAATAGTACCTA 59.856 52.381 12.47 0.00 0.00 3.08
2850 5810 1.721664 CGAAGACATACGCGGGGAGA 61.722 60.000 12.47 0.00 0.00 3.71
2909 5871 7.967303 GGAGAAAAATTGTCAGAAATCTAGCAG 59.033 37.037 0.00 0.00 0.00 4.24
2920 5882 6.486253 TCAATCGAGGAGAAAAATTGTCAG 57.514 37.500 0.00 0.00 0.00 3.51
2929 5891 3.691118 CCATTGCTTCAATCGAGGAGAAA 59.309 43.478 0.00 0.00 31.05 2.52
2936 5898 5.883115 TGTATAAACCCATTGCTTCAATCGA 59.117 36.000 0.00 0.00 31.05 3.59
2937 5899 5.971202 GTGTATAAACCCATTGCTTCAATCG 59.029 40.000 0.00 0.00 31.05 3.34
2938 5900 5.971202 CGTGTATAAACCCATTGCTTCAATC 59.029 40.000 0.00 0.00 31.05 2.67
2939 5901 5.650266 TCGTGTATAAACCCATTGCTTCAAT 59.350 36.000 0.00 0.00 34.04 2.57
2961 5924 3.677190 AGTGCTCGTAGATGTACTTCG 57.323 47.619 3.32 0.00 39.98 3.79
2963 5926 3.937706 ACGTAGTGCTCGTAGATGTACTT 59.062 43.478 0.00 0.00 42.51 2.24
2967 5930 2.745821 TCAACGTAGTGCTCGTAGATGT 59.254 45.455 0.00 0.00 45.00 3.06
2968 5931 3.181509 ACTCAACGTAGTGCTCGTAGATG 60.182 47.826 0.00 0.00 45.00 2.90
2969 5932 3.008330 ACTCAACGTAGTGCTCGTAGAT 58.992 45.455 0.00 0.00 45.00 1.98
2970 5933 2.414481 GACTCAACGTAGTGCTCGTAGA 59.586 50.000 0.00 0.00 45.00 2.59
2971 5934 2.415857 AGACTCAACGTAGTGCTCGTAG 59.584 50.000 0.00 0.00 45.00 3.51
2972 5935 2.420642 AGACTCAACGTAGTGCTCGTA 58.579 47.619 0.00 0.00 45.00 3.43
2973 5936 1.236628 AGACTCAACGTAGTGCTCGT 58.763 50.000 0.00 0.00 45.00 4.18
2974 5937 2.475852 GGTAGACTCAACGTAGTGCTCG 60.476 54.545 0.00 0.00 45.00 5.03
2975 5938 2.475852 CGGTAGACTCAACGTAGTGCTC 60.476 54.545 0.00 0.00 45.00 4.26
2976 5939 1.467734 CGGTAGACTCAACGTAGTGCT 59.532 52.381 0.00 0.00 45.00 4.40
2977 5940 1.466167 TCGGTAGACTCAACGTAGTGC 59.534 52.381 0.00 0.00 45.00 4.40
2978 5941 2.473540 CGTCGGTAGACTCAACGTAGTG 60.474 54.545 0.00 0.00 43.01 2.74
2979 5942 1.728971 CGTCGGTAGACTCAACGTAGT 59.271 52.381 0.00 0.00 44.95 2.73
2980 5943 1.995484 TCGTCGGTAGACTCAACGTAG 59.005 52.381 0.00 0.00 44.93 3.51
2981 5944 1.995484 CTCGTCGGTAGACTCAACGTA 59.005 52.381 0.00 0.00 44.93 3.57
2982 5945 0.795085 CTCGTCGGTAGACTCAACGT 59.205 55.000 0.00 0.00 44.93 3.99
2983 5946 0.096628 CCTCGTCGGTAGACTCAACG 59.903 60.000 0.00 0.00 44.93 4.10
2984 5947 1.397692 CTCCTCGTCGGTAGACTCAAC 59.602 57.143 0.00 0.00 44.93 3.18
2985 5948 1.678123 CCTCCTCGTCGGTAGACTCAA 60.678 57.143 0.00 0.00 44.93 3.02
2986 5949 0.107800 CCTCCTCGTCGGTAGACTCA 60.108 60.000 0.00 0.00 44.93 3.41
2987 5950 0.177604 TCCTCCTCGTCGGTAGACTC 59.822 60.000 0.00 0.00 44.93 3.36
2988 5951 0.838608 ATCCTCCTCGTCGGTAGACT 59.161 55.000 0.00 0.00 44.93 3.24
2989 5952 1.677942 AATCCTCCTCGTCGGTAGAC 58.322 55.000 0.00 0.00 43.72 2.59
2990 5953 3.181447 ACATAATCCTCCTCGTCGGTAGA 60.181 47.826 0.00 0.00 0.00 2.59
2991 5954 3.058155 CACATAATCCTCCTCGTCGGTAG 60.058 52.174 0.00 0.00 0.00 3.18
2992 5955 2.882761 CACATAATCCTCCTCGTCGGTA 59.117 50.000 0.00 0.00 0.00 4.02
2993 5956 1.681793 CACATAATCCTCCTCGTCGGT 59.318 52.381 0.00 0.00 0.00 4.69
2994 5957 1.000163 CCACATAATCCTCCTCGTCGG 60.000 57.143 0.00 0.00 0.00 4.79
2995 5958 1.954382 TCCACATAATCCTCCTCGTCG 59.046 52.381 0.00 0.00 0.00 5.12
2996 5959 3.574396 TCATCCACATAATCCTCCTCGTC 59.426 47.826 0.00 0.00 0.00 4.20
2997 5960 3.576861 TCATCCACATAATCCTCCTCGT 58.423 45.455 0.00 0.00 0.00 4.18
2998 5961 4.607293 TTCATCCACATAATCCTCCTCG 57.393 45.455 0.00 0.00 0.00 4.63
2999 5962 6.429385 GTCATTTCATCCACATAATCCTCCTC 59.571 42.308 0.00 0.00 0.00 3.71
3000 5963 6.302269 GTCATTTCATCCACATAATCCTCCT 58.698 40.000 0.00 0.00 0.00 3.69
3001 5964 5.180117 CGTCATTTCATCCACATAATCCTCC 59.820 44.000 0.00 0.00 0.00 4.30
3002 5965 5.991606 TCGTCATTTCATCCACATAATCCTC 59.008 40.000 0.00 0.00 0.00 3.71
3003 5966 5.928976 TCGTCATTTCATCCACATAATCCT 58.071 37.500 0.00 0.00 0.00 3.24
3004 5967 6.808008 ATCGTCATTTCATCCACATAATCC 57.192 37.500 0.00 0.00 0.00 3.01
3005 5968 9.764870 CATTATCGTCATTTCATCCACATAATC 57.235 33.333 0.00 0.00 0.00 1.75
3006 5969 8.239314 GCATTATCGTCATTTCATCCACATAAT 58.761 33.333 0.00 0.00 0.00 1.28
3007 5970 7.228308 TGCATTATCGTCATTTCATCCACATAA 59.772 33.333 0.00 0.00 0.00 1.90
3008 5971 6.709846 TGCATTATCGTCATTTCATCCACATA 59.290 34.615 0.00 0.00 0.00 2.29
3009 5972 5.532032 TGCATTATCGTCATTTCATCCACAT 59.468 36.000 0.00 0.00 0.00 3.21
3010 5973 4.880696 TGCATTATCGTCATTTCATCCACA 59.119 37.500 0.00 0.00 0.00 4.17
3011 5974 5.422666 TGCATTATCGTCATTTCATCCAC 57.577 39.130 0.00 0.00 0.00 4.02
3012 5975 4.516321 CCTGCATTATCGTCATTTCATCCA 59.484 41.667 0.00 0.00 0.00 3.41
3013 5976 4.614535 GCCTGCATTATCGTCATTTCATCC 60.615 45.833 0.00 0.00 0.00 3.51
3014 5977 4.023792 TGCCTGCATTATCGTCATTTCATC 60.024 41.667 0.00 0.00 0.00 2.92
3015 5978 3.884693 TGCCTGCATTATCGTCATTTCAT 59.115 39.130 0.00 0.00 0.00 2.57
3016 5979 3.277715 TGCCTGCATTATCGTCATTTCA 58.722 40.909 0.00 0.00 0.00 2.69
3017 5980 3.313526 ACTGCCTGCATTATCGTCATTTC 59.686 43.478 0.00 0.00 0.00 2.17
3018 5981 3.282021 ACTGCCTGCATTATCGTCATTT 58.718 40.909 0.00 0.00 0.00 2.32
3019 5982 2.874701 GACTGCCTGCATTATCGTCATT 59.125 45.455 0.00 0.00 0.00 2.57
3020 5983 2.103771 AGACTGCCTGCATTATCGTCAT 59.896 45.455 10.01 0.00 0.00 3.06
3021 5984 1.482182 AGACTGCCTGCATTATCGTCA 59.518 47.619 10.01 0.00 0.00 4.35
3022 5985 2.231215 AGACTGCCTGCATTATCGTC 57.769 50.000 0.00 0.00 0.00 4.20
3023 5986 2.679837 CAAAGACTGCCTGCATTATCGT 59.320 45.455 0.00 0.00 0.00 3.73
3024 5987 2.540361 GCAAAGACTGCCTGCATTATCG 60.540 50.000 0.00 0.00 46.13 2.92
3025 5988 3.075866 GCAAAGACTGCCTGCATTATC 57.924 47.619 0.00 0.00 46.13 1.75
3055 6077 1.001293 AGAACATGCTCTTCTGCACGA 59.999 47.619 0.00 0.00 46.33 4.35
3062 6084 6.091437 CCTTGAAATTGAGAACATGCTCTTC 58.909 40.000 0.00 0.00 35.91 2.87
3093 6115 0.742281 CAGCACTCGATGACCCTTGG 60.742 60.000 0.00 0.00 0.00 3.61
3139 6161 2.278525 CACGTCGTCCATCATCGTG 58.721 57.895 0.00 0.00 43.77 4.35
3155 6177 1.451936 AATAGGGCATCGAGGGCAC 59.548 57.895 25.23 15.73 34.52 5.01


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

AutoCloner maintained by Alex Coulton.