Multiple sequence alignment - TraesCS6B01G328900

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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 TraesCS6B01G328900 chr6B 100.000 7459 0 0 1 7459 578513445 578505987 0.000000e+00 13775.0
1 TraesCS6B01G328900 chr6B 91.429 245 11 1 45 289 578513157 578512923 2.010000e-85 327.0
2 TraesCS6B01G328900 chr6B 91.429 245 11 1 289 523 578513401 578513157 2.010000e-85 327.0
3 TraesCS6B01G328900 chr6D 94.602 7021 219 51 4 6951 387640074 387633141 0.000000e+00 10719.0
4 TraesCS6B01G328900 chr6D 90.545 275 19 4 25 296 387639790 387639520 2.560000e-94 357.0
5 TraesCS6B01G328900 chr6D 84.921 378 22 10 7096 7459 387631518 387631162 4.280000e-92 350.0
6 TraesCS6B01G328900 chr6D 89.558 249 12 2 289 523 387640033 387639785 3.380000e-78 303.0
7 TraesCS6B01G328900 chr6D 87.597 258 32 0 7202 7459 387401007 387400750 4.370000e-77 300.0
8 TraesCS6B01G328900 chr6D 89.256 242 23 2 6247 6488 387628411 387628173 4.370000e-77 300.0
9 TraesCS6B01G328900 chr6D 86.364 264 18 3 5544 5807 387629339 387629094 9.540000e-69 272.0
10 TraesCS6B01G328900 chr6D 89.091 220 17 2 7205 7424 387405621 387405409 4.440000e-67 267.0
11 TraesCS6B01G328900 chr6D 83.333 258 26 7 7202 7459 387627179 387626939 9.740000e-54 222.0
12 TraesCS6B01G328900 chr6D 84.615 130 18 1 5801 5930 387629062 387628935 2.180000e-25 128.0
13 TraesCS6B01G328900 chr6A 92.596 7563 318 80 4 7459 532647092 532639665 0.000000e+00 10641.0
14 TraesCS6B01G328900 chr6A 86.284 401 30 10 5409 5807 532633383 532633006 5.390000e-111 412.0
15 TraesCS6B01G328900 chr6A 91.429 245 11 1 289 523 532647051 532646807 2.010000e-85 327.0
16 TraesCS6B01G328900 chr6A 87.500 280 24 5 25 295 532646812 532646535 5.620000e-81 313.0
17 TraesCS6B01G328900 chr6A 87.108 287 22 9 7149 7433 532436345 532436072 2.020000e-80 311.0
18 TraesCS6B01G328900 chr6A 84.810 316 38 8 6245 6557 532543036 532542728 7.270000e-80 309.0
19 TraesCS6B01G328900 chr6A 86.822 258 34 0 7202 7459 532534312 532534055 9.470000e-74 289.0
20 TraesCS6B01G328900 chr6A 83.077 130 20 2 5801 5930 532632974 532632847 4.730000e-22 117.0
21 TraesCS6B01G328900 chr3D 83.660 153 19 4 3584 3733 250068360 250068509 1.010000e-28 139.0
22 TraesCS6B01G328900 chr3D 85.039 127 13 4 3613 3736 290717918 290717795 2.830000e-24 124.0
23 TraesCS6B01G328900 chr3D 85.039 127 13 4 3613 3736 511936680 511936557 2.830000e-24 124.0
24 TraesCS6B01G328900 chr3D 84.800 125 13 4 3615 3736 532139131 532139010 3.660000e-23 121.0
25 TraesCS6B01G328900 chr3D 74.818 274 29 21 4191 4457 250068835 250069075 3.710000e-13 87.9
26 TraesCS6B01G328900 chr7D 82.353 153 21 4 3584 3733 411628110 411628259 2.180000e-25 128.0
27 TraesCS6B01G328900 chr7D 85.039 127 13 4 3613 3736 328320064 328319941 2.830000e-24 124.0
28 TraesCS6B01G328900 chr7D 82.474 97 12 1 4179 4270 411887470 411887566 6.200000e-11 80.5
29 TraesCS6B01G328900 chr3A 82.677 127 16 4 3613 3736 451494275 451494398 2.850000e-19 108.0
30 TraesCS6B01G328900 chr3A 75.265 283 31 23 4191 4467 334008249 334008000 1.710000e-16 99.0
31 TraesCS6B01G328900 chr3A 80.882 136 11 9 4191 4320 334005202 334005076 7.970000e-15 93.5
32 TraesCS6B01G328900 chr3A 86.585 82 5 2 4195 4270 333958948 333958867 1.330000e-12 86.1


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 TraesCS6B01G328900 chr6B 578505987 578513445 7458 True 4809.666667 13775 94.286000 1 7459 3 chr6B.!!$R1 7458
1 TraesCS6B01G328900 chr6D 387626939 387640074 13135 True 1581.375000 10719 87.899250 4 7459 8 chr6D.!!$R3 7455
2 TraesCS6B01G328900 chr6A 532639665 532647092 7427 True 3760.333333 10641 90.508333 4 7459 3 chr6A.!!$R5 7455
3 TraesCS6B01G328900 chr6A 532632847 532633383 536 True 264.500000 412 84.680500 5409 5930 2 chr6A.!!$R4 521

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
572 609 0.174389 GAGAAGCATCAGAGACCGCA 59.826 55.000 0.00 0.00 0.00 5.69 F
1260 1336 0.178068 GCTTCTAGGGTGAATCCGCA 59.822 55.000 0.00 0.00 37.00 5.69 F
1544 1626 0.598065 GAGGTTGGCGTTGAATTGCT 59.402 50.000 0.00 0.00 0.00 3.91 F
2894 2980 0.034960 AGAGGAGAGCACGCAGACTA 60.035 55.000 0.00 0.00 0.00 2.59 F
3395 3481 0.029300 CGTGTTTGAAGGGCAGTGTG 59.971 55.000 0.00 0.00 0.00 3.82 F
3746 3832 2.034812 GTCCTGTACATCTCATCCGTCC 59.965 54.545 0.00 0.00 0.00 4.79 F
4929 5031 3.442625 GCTTGTACCTGTAATTGGGGTTC 59.557 47.826 4.58 1.63 34.86 3.62 F
5951 6094 0.298707 GCGCTGTGTGTCGATACATG 59.701 55.000 18.34 14.48 38.08 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2119 2204 0.321996 AGGGAAGAAGAACCGCAGAC 59.678 55.000 0.00 0.00 0.00 3.51 R
2222 2307 1.330234 TCACTGGCATGCACAAACAT 58.670 45.000 21.36 0.00 0.00 2.71 R
3395 3481 0.535553 TTGGTGGTAACGAAGCCCAC 60.536 55.000 8.94 8.94 46.35 4.61 R
4071 4157 1.305219 TGACGCAATTGCTAGTGCCC 61.305 55.000 26.86 7.67 42.13 5.36 R
5072 5175 2.290641 AGCTGCTGGTTTTACTTTGACG 59.709 45.455 0.00 0.00 0.00 4.35 R
5646 5751 0.698238 AGTGACTTGGGCAGGCATTA 59.302 50.000 0.00 0.00 44.99 1.90 R
6199 6354 0.106519 CCTGGTTGAATAGGCAGGGG 60.107 60.000 0.00 0.00 0.00 4.79 R
6982 8604 0.953960 ACGGACACAGCGGAATTTCC 60.954 55.000 5.28 5.28 0.00 3.13 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 3.744426 CCTCCAATTTCTGCAGCTTTTTG 59.256 43.478 9.47 9.79 0.00 2.44
114 115 4.320788 GCATCTTCCTTGGTCTTGTTCTTG 60.321 45.833 0.00 0.00 0.00 3.02
171 176 6.044682 CACACAATCACATACTAGCATCTGA 58.955 40.000 0.00 0.00 0.00 3.27
218 223 3.460103 GGCAGATAAAATGCACCCATTG 58.540 45.455 0.00 0.00 45.68 2.82
257 262 1.804151 TCCCTTGCGATTTGTTCTTCG 59.196 47.619 0.00 0.00 38.37 3.79
358 381 4.320788 GCATCTTCCTTGGTCTTGTTCTTG 60.321 45.833 0.00 0.00 0.00 3.02
369 392 4.072131 GTCTTGTTCTTGTTGCCATCCTA 58.928 43.478 0.00 0.00 0.00 2.94
391 424 4.874970 AGCAATCCAGAAAACACAATCAC 58.125 39.130 0.00 0.00 0.00 3.06
449 485 1.484038 GGGCAGATAAAATGCACCCA 58.516 50.000 0.00 0.00 45.68 4.51
450 486 2.041701 GGGCAGATAAAATGCACCCAT 58.958 47.619 0.00 0.00 45.68 4.00
453 489 4.284234 GGGCAGATAAAATGCACCCATTAT 59.716 41.667 0.00 0.00 45.68 1.28
454 490 5.221702 GGGCAGATAAAATGCACCCATTATT 60.222 40.000 0.00 0.00 45.68 1.40
455 491 6.014669 GGGCAGATAAAATGCACCCATTATTA 60.015 38.462 0.00 0.00 45.68 0.98
456 492 7.310609 GGGCAGATAAAATGCACCCATTATTAT 60.311 37.037 0.00 0.00 45.68 1.28
457 493 7.546667 GGCAGATAAAATGCACCCATTATTATG 59.453 37.037 0.00 0.00 45.68 1.90
478 515 2.302587 TTACCTTGCCTTTCCCTTGG 57.697 50.000 0.00 0.00 0.00 3.61
480 517 2.285773 CCTTGCCTTTCCCTTGGGC 61.286 63.158 0.00 0.00 45.45 5.36
528 565 1.521681 GCGCGTTGCTATCCTCCTT 60.522 57.895 8.43 0.00 41.73 3.36
552 589 3.482783 GCTCGAACTGCGACCTGC 61.483 66.667 0.00 0.00 45.59 4.85
572 609 0.174389 GAGAAGCATCAGAGACCGCA 59.826 55.000 0.00 0.00 0.00 5.69
580 617 2.420058 TCAGAGACCGCAGATACAGA 57.580 50.000 0.00 0.00 0.00 3.41
587 624 1.519234 CGCAGATACAGAGCGCCAA 60.519 57.895 2.29 0.00 45.14 4.52
619 656 3.047877 CGGCCGGAAACTCACACC 61.048 66.667 20.10 0.00 0.00 4.16
620 657 3.047877 GGCCGGAAACTCACACCG 61.048 66.667 5.05 0.00 45.24 4.94
621 658 3.723348 GCCGGAAACTCACACCGC 61.723 66.667 5.05 0.00 44.45 5.68
622 659 2.280524 CCGGAAACTCACACCGCA 60.281 61.111 0.00 0.00 44.45 5.69
623 660 2.604174 CCGGAAACTCACACCGCAC 61.604 63.158 0.00 0.00 44.45 5.34
624 661 1.885388 CGGAAACTCACACCGCACA 60.885 57.895 0.00 0.00 40.19 4.57
625 662 1.647084 GGAAACTCACACCGCACAC 59.353 57.895 0.00 0.00 0.00 3.82
626 663 1.647084 GAAACTCACACCGCACACC 59.353 57.895 0.00 0.00 0.00 4.16
729 766 1.755008 GAGAGGGGTGACGGAGGAG 60.755 68.421 0.00 0.00 0.00 3.69
730 767 2.760385 GAGGGGTGACGGAGGAGG 60.760 72.222 0.00 0.00 0.00 4.30
731 768 4.400251 AGGGGTGACGGAGGAGGG 62.400 72.222 0.00 0.00 0.00 4.30
732 769 4.393778 GGGGTGACGGAGGAGGGA 62.394 72.222 0.00 0.00 0.00 4.20
733 770 2.760385 GGGTGACGGAGGAGGGAG 60.760 72.222 0.00 0.00 0.00 4.30
734 771 2.760385 GGTGACGGAGGAGGGAGG 60.760 72.222 0.00 0.00 0.00 4.30
735 772 2.760385 GTGACGGAGGAGGGAGGG 60.760 72.222 0.00 0.00 0.00 4.30
736 773 4.075793 TGACGGAGGAGGGAGGGG 62.076 72.222 0.00 0.00 0.00 4.79
737 774 4.862823 GACGGAGGAGGGAGGGGG 62.863 77.778 0.00 0.00 0.00 5.40
833 901 0.947180 GTTGGGCTTAAGTGTCGCGA 60.947 55.000 3.71 3.71 0.00 5.87
850 918 0.371645 CGAAGCCGCAAGAATGAGAC 59.628 55.000 0.00 0.00 43.02 3.36
852 920 1.021390 AAGCCGCAAGAATGAGACGG 61.021 55.000 0.00 0.00 46.50 4.79
899 969 2.494073 CACGAACCTTTCTCTCTAGCCT 59.506 50.000 0.00 0.00 0.00 4.58
900 970 2.494073 ACGAACCTTTCTCTCTAGCCTG 59.506 50.000 0.00 0.00 0.00 4.85
901 971 2.159170 CGAACCTTTCTCTCTAGCCTGG 60.159 54.545 0.00 0.00 0.00 4.45
902 972 2.632763 ACCTTTCTCTCTAGCCTGGT 57.367 50.000 0.00 0.00 0.00 4.00
903 973 2.183679 ACCTTTCTCTCTAGCCTGGTG 58.816 52.381 0.00 0.00 0.00 4.17
1121 1197 1.685765 GCCCCATCCAAAACCCTCC 60.686 63.158 0.00 0.00 0.00 4.30
1260 1336 0.178068 GCTTCTAGGGTGAATCCGCA 59.822 55.000 0.00 0.00 37.00 5.69
1262 1338 2.487934 CTTCTAGGGTGAATCCGCATG 58.512 52.381 0.00 0.00 37.00 4.06
1353 1429 2.356673 GGTTTGGCAAGCTGCTGC 60.357 61.111 13.83 7.62 44.28 5.25
1370 1446 4.264253 TGCTGCTGTGCTTATTAACTGAT 58.736 39.130 0.00 0.00 0.00 2.90
1371 1447 5.427378 TGCTGCTGTGCTTATTAACTGATA 58.573 37.500 0.00 0.00 0.00 2.15
1429 1508 5.518487 GCTTGTGCTATCTCAGTTCTAGAAC 59.482 44.000 25.24 25.24 37.62 3.01
1464 1546 2.897969 ACTACACTAGAACCACACCCAG 59.102 50.000 0.00 0.00 0.00 4.45
1477 1559 1.956477 ACACCCAGACTTCACATTTGC 59.044 47.619 0.00 0.00 0.00 3.68
1504 1586 2.742428 ATGCATCATGGTGCCTTACT 57.258 45.000 27.60 4.97 44.43 2.24
1505 1587 3.862877 ATGCATCATGGTGCCTTACTA 57.137 42.857 27.60 8.72 44.43 1.82
1506 1588 3.198409 TGCATCATGGTGCCTTACTAG 57.802 47.619 27.60 0.00 44.43 2.57
1507 1589 2.505407 TGCATCATGGTGCCTTACTAGT 59.495 45.455 27.60 0.00 44.43 2.57
1508 1590 3.054434 TGCATCATGGTGCCTTACTAGTT 60.054 43.478 27.60 0.00 44.43 2.24
1509 1591 4.163268 TGCATCATGGTGCCTTACTAGTTA 59.837 41.667 27.60 2.14 44.43 2.24
1510 1592 4.511826 GCATCATGGTGCCTTACTAGTTAC 59.488 45.833 20.73 0.00 39.18 2.50
1528 1610 6.780706 AGTTACAACTACGAATGTTTGAGG 57.219 37.500 0.00 0.00 37.52 3.86
1533 1615 2.812011 ACTACGAATGTTTGAGGTTGGC 59.188 45.455 0.00 0.00 0.00 4.52
1544 1626 0.598065 GAGGTTGGCGTTGAATTGCT 59.402 50.000 0.00 0.00 0.00 3.91
1548 1630 3.258123 AGGTTGGCGTTGAATTGCTTATT 59.742 39.130 0.00 0.00 0.00 1.40
1550 1632 3.502191 TGGCGTTGAATTGCTTATTCC 57.498 42.857 8.88 0.00 41.68 3.01
1570 1652 9.699410 TTATTCCAATTCTGATATTGAGTTGGT 57.301 29.630 21.67 13.06 45.53 3.67
1574 1656 6.039047 CCAATTCTGATATTGAGTTGGTGGAG 59.961 42.308 17.78 2.38 42.56 3.86
1690 1773 5.122082 GCTTGCATAGCTTGGAGATAGATTC 59.878 44.000 11.98 0.00 46.77 2.52
1732 1815 7.291566 AGTTCTGGCTTCTCTATAGCTAGTAA 58.708 38.462 0.00 0.50 44.65 2.24
1890 1975 1.228367 CCCTTGTGTCAGGCTGCTT 60.228 57.895 10.34 0.00 31.69 3.91
1965 2050 7.860918 ATGCTGTATGCTTATAGAATGGATG 57.139 36.000 7.46 0.00 43.37 3.51
1984 2069 4.813161 GGATGTGATGTTCTGTGACCATAG 59.187 45.833 0.00 0.00 0.00 2.23
2037 2122 6.146347 GTGTAATTGGTTCTCAGTGTCTCTTC 59.854 42.308 0.00 0.00 0.00 2.87
2119 2204 0.606401 ATGACCAGTTGGCTCAACCG 60.606 55.000 12.63 4.85 44.49 4.44
2125 2210 2.664851 TTGGCTCAACCGTCTGCG 60.665 61.111 0.00 0.00 43.94 5.18
2196 2281 7.093322 AGATCAGATTTGTTAAATCCTGTGC 57.907 36.000 9.89 5.98 46.65 4.57
2280 2365 7.490582 GTGTCTCTTCCTTGATGGGACAACT 62.491 48.000 12.57 0.00 44.70 3.16
2332 2417 3.788333 TTCTTTCATAGCTGCATTGCC 57.212 42.857 6.12 0.00 0.00 4.52
2471 2556 5.010719 TGACAAGTTACTAGGTCAGTGGAAG 59.989 44.000 13.41 0.00 38.24 3.46
2481 2566 3.532232 AGGTCAGTGGAAGTATCTCCCTA 59.468 47.826 0.00 0.00 34.22 3.53
2672 2758 5.125367 ACTACCACCCTTCAAGAGTTTTT 57.875 39.130 0.00 0.00 0.00 1.94
2708 2794 5.045140 TCGGAAAGGAGATTAACCCTTCAAT 60.045 40.000 6.21 0.00 41.61 2.57
2732 2818 4.154375 TGTTAAACGTGCTGTTCAGTTCAA 59.846 37.500 0.00 0.00 40.84 2.69
2733 2819 3.840890 AAACGTGCTGTTCAGTTCAAA 57.159 38.095 0.00 0.00 40.84 2.69
2887 2973 2.750166 TCTACTTTCAGAGGAGAGCACG 59.250 50.000 0.00 0.00 40.56 5.34
2894 2980 0.034960 AGAGGAGAGCACGCAGACTA 60.035 55.000 0.00 0.00 0.00 2.59
2923 3009 8.190784 CGAAAGGTATTCCATCTGCTTTTATTT 58.809 33.333 0.00 0.00 35.89 1.40
2964 3050 9.965824 CAAAAGTTACAAGCCTATATAATTGGG 57.034 33.333 0.00 0.00 0.00 4.12
3097 3183 7.225734 GGCCATTTCTCTTTACTTCTATCAGTC 59.774 40.741 0.00 0.00 0.00 3.51
3287 3373 3.683802 GCATAAGGCATCCTGCTCTTAT 58.316 45.455 12.85 12.85 44.28 1.73
3297 3383 5.163581 GCATCCTGCTCTTATGTTCACAATT 60.164 40.000 0.00 0.00 40.96 2.32
3352 3438 7.440523 ACCTCACATGTTGTTTTATCTTCTC 57.559 36.000 0.00 0.00 0.00 2.87
3395 3481 0.029300 CGTGTTTGAAGGGCAGTGTG 59.971 55.000 0.00 0.00 0.00 3.82
3572 3658 8.500837 TGTCTTGTTTGTATTTCTTATTTGCG 57.499 30.769 0.00 0.00 0.00 4.85
3744 3830 2.427453 GTGTCCTGTACATCTCATCCGT 59.573 50.000 0.00 0.00 41.10 4.69
3746 3832 2.034812 GTCCTGTACATCTCATCCGTCC 59.965 54.545 0.00 0.00 0.00 4.79
3846 3932 7.879677 TCAGTAGATTCAATGTGTTTGACATCT 59.120 33.333 12.88 12.88 45.12 2.90
3921 4007 4.137116 TCTTGTTCCTAACATCATCCCG 57.863 45.455 0.00 0.00 41.79 5.14
3942 4028 5.334105 CCCGTATGTATTGCAGCTTGTATTC 60.334 44.000 0.00 0.00 0.00 1.75
4560 4662 6.372659 CGATATTTTAGCTCACCATATTGGCT 59.627 38.462 0.00 0.00 42.67 4.75
4635 4737 5.904362 AACTGGTTTTCTAGATTCATGGC 57.096 39.130 0.00 0.00 32.56 4.40
4680 4782 9.950680 ACTCATCTTGTAGTTGTTAAAATGTTG 57.049 29.630 0.00 0.00 0.00 3.33
4770 4872 5.118990 CCTGTGATCCTTGTACTGTATTGG 58.881 45.833 0.00 0.00 0.00 3.16
4929 5031 3.442625 GCTTGTACCTGTAATTGGGGTTC 59.557 47.826 4.58 1.63 34.86 3.62
4936 5038 7.612633 TGTACCTGTAATTGGGGTTCTATTTTC 59.387 37.037 4.58 0.00 34.86 2.29
5072 5175 5.064452 CAGTGATTCACTTGGCTCTGATAAC 59.936 44.000 16.64 0.00 42.59 1.89
5200 5303 9.794685 GGAATTTAACTTTCCAAATCTGATCTC 57.205 33.333 10.26 0.00 41.91 2.75
5593 5698 7.052873 AGAAGAATTGATTGGATGTCTACTGG 58.947 38.462 0.00 0.00 0.00 4.00
5646 5751 3.999663 CGAAGAGCTTCATTTCTCCAAGT 59.000 43.478 10.51 0.00 39.46 3.16
5670 5775 2.014068 GCCTGCCCAAGTCACTATGTC 61.014 57.143 0.00 0.00 0.00 3.06
5781 5886 4.829492 AGAACTTCTACTTTGGCAAGCAAT 59.171 37.500 0.00 0.00 32.57 3.56
5889 6032 9.113876 GTATCGACAACAAGGTAAAATTTTCTG 57.886 33.333 6.72 4.02 0.00 3.02
5943 6086 0.867746 TCAAATCAGCGCTGTGTGTC 59.132 50.000 34.70 0.00 0.00 3.67
5951 6094 0.298707 GCGCTGTGTGTCGATACATG 59.701 55.000 18.34 14.48 38.08 3.21
5973 6116 6.299805 TGAGCAGTTTAGTGATCATTAGGT 57.700 37.500 0.00 0.00 37.92 3.08
6001 6144 9.551734 AAAACTTATAAACTGACGAAGTAAGGT 57.448 29.630 0.00 0.00 43.92 3.50
6008 6151 5.312120 ACTGACGAAGTAAGGTGTCTATG 57.688 43.478 0.00 0.00 45.31 2.23
6046 6189 4.476410 CGTGCTCGGCTGCTACGA 62.476 66.667 9.49 0.00 38.62 3.43
6112 6255 3.788163 GTGTTAGTTATCGACCGTGTAGC 59.212 47.826 0.00 0.00 0.00 3.58
6113 6256 3.691118 TGTTAGTTATCGACCGTGTAGCT 59.309 43.478 0.00 0.00 0.00 3.32
6114 6257 4.875536 TGTTAGTTATCGACCGTGTAGCTA 59.124 41.667 0.00 0.00 0.00 3.32
6115 6258 5.007039 TGTTAGTTATCGACCGTGTAGCTAG 59.993 44.000 0.00 0.00 0.00 3.42
6116 6259 2.290093 AGTTATCGACCGTGTAGCTAGC 59.710 50.000 6.62 6.62 0.00 3.42
6199 6354 0.717784 GGTCGCTTGTTTAGGTACGC 59.282 55.000 0.00 0.00 0.00 4.42
6200 6355 0.717784 GTCGCTTGTTTAGGTACGCC 59.282 55.000 0.00 0.00 0.00 5.68
6452 6607 0.098905 TCTCGAAGATCACGAAGCGG 59.901 55.000 14.01 5.23 39.23 5.52
6578 6733 5.884232 CCACCAGAGCATATGCATATGTATT 59.116 40.000 35.50 25.37 45.16 1.89
6618 6774 0.802494 GCGGATGTTGTTGGTAGGTG 59.198 55.000 0.00 0.00 0.00 4.00
6648 6804 2.159517 GCTTTGGTAATGTGCTTCGAGG 60.160 50.000 0.00 0.00 0.00 4.63
6660 6816 0.532573 CTTCGAGGAGGCTACTTGCA 59.467 55.000 9.33 0.00 45.15 4.08
6737 6893 0.669318 TGCGACTAAGACTTTGCCCG 60.669 55.000 0.00 0.61 0.00 6.13
6803 6960 2.183478 ATCAAATGCCTCGTGTGTGA 57.817 45.000 0.00 0.00 0.00 3.58
6813 6970 3.746492 GCCTCGTGTGTGAAGTTCTTATT 59.254 43.478 4.17 0.00 0.00 1.40
6815 6972 5.230942 CCTCGTGTGTGAAGTTCTTATTCT 58.769 41.667 4.17 0.00 0.00 2.40
6886 7049 4.457466 GTGGGTTGGTTAAGACTTGAGAA 58.543 43.478 0.00 0.00 0.00 2.87
6920 7093 3.684990 TCGAGCTGCTTGGCGAGT 61.685 61.111 16.59 0.00 37.29 4.18
6937 7110 3.437049 GCGAGTCAACTAGCCAGAAATTT 59.563 43.478 4.12 0.00 38.44 1.82
6938 7111 4.670221 GCGAGTCAACTAGCCAGAAATTTG 60.670 45.833 0.00 0.00 38.44 2.32
6982 8604 2.164422 TGAGCTGTTACCTGTCAGATCG 59.836 50.000 0.00 0.00 46.03 3.69
7010 8632 1.947146 CTGTGTCCGTTCGTTCGCA 60.947 57.895 0.00 0.00 0.00 5.10
7053 8675 1.258445 AACCAAGCTCTCGATCCGGT 61.258 55.000 0.00 0.00 0.00 5.28
7159 8828 3.785887 TCTATGCCCTACCCAATCAACTT 59.214 43.478 0.00 0.00 0.00 2.66
7168 8837 6.721208 CCCTACCCAATCAACTTGCATATTAT 59.279 38.462 0.00 0.00 33.20 1.28
7169 8838 7.233348 CCCTACCCAATCAACTTGCATATTATT 59.767 37.037 0.00 0.00 33.20 1.40
7170 8839 9.295825 CCTACCCAATCAACTTGCATATTATTA 57.704 33.333 0.00 0.00 33.20 0.98
7192 8861 7.918536 TTACTTTGTCAGATACTCGAGTACT 57.081 36.000 26.87 20.97 32.72 2.73
7193 8862 9.610705 ATTACTTTGTCAGATACTCGAGTACTA 57.389 33.333 26.87 11.08 32.72 1.82
7194 8863 7.918536 ACTTTGTCAGATACTCGAGTACTAA 57.081 36.000 26.87 17.28 32.72 2.24
7195 8864 8.508883 ACTTTGTCAGATACTCGAGTACTAAT 57.491 34.615 26.87 12.83 32.72 1.73
7196 8865 8.614346 ACTTTGTCAGATACTCGAGTACTAATC 58.386 37.037 26.87 20.42 32.72 1.75
7197 8866 8.502105 TTTGTCAGATACTCGAGTACTAATCA 57.498 34.615 26.87 18.94 32.72 2.57
7198 8867 8.502105 TTGTCAGATACTCGAGTACTAATCAA 57.498 34.615 26.87 22.68 32.72 2.57
7199 8868 8.144155 TGTCAGATACTCGAGTACTAATCAAG 57.856 38.462 26.87 16.69 32.72 3.02
7200 8869 7.073265 GTCAGATACTCGAGTACTAATCAAGC 58.927 42.308 26.87 7.64 32.72 4.01
7253 8923 2.820037 CCGGAAAAGCTCCTCGGC 60.820 66.667 0.00 0.00 42.85 5.54
7257 8927 4.410400 AAAAGCTCCTCGGCCCCG 62.410 66.667 0.00 0.00 41.35 5.73
7362 9032 2.441348 TAGGCCTCATCGTCGCCA 60.441 61.111 9.68 0.00 45.56 5.69
7451 9121 4.735132 GACACGCGGCAGCTACCA 62.735 66.667 12.47 0.00 42.32 3.25
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.415701 CCAGCTTTGGTGTTTGTATCAGTAT 59.584 40.000 0.00 0.00 0.00 2.12
1 2 4.759693 CCAGCTTTGGTGTTTGTATCAGTA 59.240 41.667 0.00 0.00 0.00 2.74
2 3 3.569701 CCAGCTTTGGTGTTTGTATCAGT 59.430 43.478 0.00 0.00 0.00 3.41
171 176 1.428912 TGCCTTGGTTTCCCTTCTGAT 59.571 47.619 0.00 0.00 0.00 2.90
218 223 7.489160 CAAGGGAAAGGCAAGGTAATAATAAC 58.511 38.462 0.00 0.00 0.00 1.89
369 392 4.341806 TGTGATTGTGTTTTCTGGATTGCT 59.658 37.500 0.00 0.00 0.00 3.91
391 424 4.262377 CCCTTCTGACCAGATGCTAGTATG 60.262 50.000 0.00 0.00 37.29 2.39
444 480 6.721208 AGGCAAGGTAATCATAATAATGGGTG 59.279 38.462 0.00 0.00 33.61 4.61
446 482 7.781324 AAGGCAAGGTAATCATAATAATGGG 57.219 36.000 0.00 0.00 33.61 4.00
447 483 8.306761 GGAAAGGCAAGGTAATCATAATAATGG 58.693 37.037 0.00 0.00 33.61 3.16
448 484 8.306761 GGGAAAGGCAAGGTAATCATAATAATG 58.693 37.037 0.00 0.00 0.00 1.90
449 485 8.234525 AGGGAAAGGCAAGGTAATCATAATAAT 58.765 33.333 0.00 0.00 0.00 1.28
450 486 7.591821 AGGGAAAGGCAAGGTAATCATAATAA 58.408 34.615 0.00 0.00 0.00 1.40
453 489 5.466127 AGGGAAAGGCAAGGTAATCATAA 57.534 39.130 0.00 0.00 0.00 1.90
454 490 5.200483 CAAGGGAAAGGCAAGGTAATCATA 58.800 41.667 0.00 0.00 0.00 2.15
455 491 4.026052 CAAGGGAAAGGCAAGGTAATCAT 58.974 43.478 0.00 0.00 0.00 2.45
456 492 3.430453 CAAGGGAAAGGCAAGGTAATCA 58.570 45.455 0.00 0.00 0.00 2.57
457 493 2.760650 CCAAGGGAAAGGCAAGGTAATC 59.239 50.000 0.00 0.00 0.00 1.75
478 515 1.956477 TGCAAGAGGAAGAACAAAGCC 59.044 47.619 0.00 0.00 0.00 4.35
480 517 2.555757 CCCTGCAAGAGGAAGAACAAAG 59.444 50.000 0.00 0.00 46.33 2.77
528 565 1.153765 CGCAGTTCGAGCATGGAGA 60.154 57.895 1.01 0.00 41.67 3.71
552 589 0.869454 GCGGTCTCTGATGCTTCTCG 60.869 60.000 0.88 0.00 0.00 4.04
555 592 0.174389 TCTGCGGTCTCTGATGCTTC 59.826 55.000 0.00 0.00 0.00 3.86
566 603 4.310672 CGCTCTGTATCTGCGGTC 57.689 61.111 0.00 0.00 45.07 4.79
572 609 2.546795 GCATACTTGGCGCTCTGTATCT 60.547 50.000 7.64 0.00 0.00 1.98
587 624 1.067582 GCCGCCTTACTCGCATACT 59.932 57.895 0.00 0.00 0.00 2.12
644 681 3.665675 AATCTCCACGCGGCAGACC 62.666 63.158 12.47 0.00 0.00 3.85
719 756 4.075793 CCCCTCCCTCCTCCGTCA 62.076 72.222 0.00 0.00 0.00 4.35
739 776 4.821589 CTCTCCTCCGTTGGCGCC 62.822 72.222 22.73 22.73 36.67 6.53
741 778 3.589654 TTGCTCTCCTCCGTTGGCG 62.590 63.158 0.00 0.00 37.95 5.69
742 779 2.035442 GTTGCTCTCCTCCGTTGGC 61.035 63.158 0.00 0.00 0.00 4.52
743 780 0.671781 CTGTTGCTCTCCTCCGTTGG 60.672 60.000 0.00 0.00 0.00 3.77
744 781 0.671781 CCTGTTGCTCTCCTCCGTTG 60.672 60.000 0.00 0.00 0.00 4.10
745 782 1.674057 CCTGTTGCTCTCCTCCGTT 59.326 57.895 0.00 0.00 0.00 4.44
746 783 2.286523 CCCTGTTGCTCTCCTCCGT 61.287 63.158 0.00 0.00 0.00 4.69
747 784 2.581354 CCCTGTTGCTCTCCTCCG 59.419 66.667 0.00 0.00 0.00 4.63
748 785 0.985490 ATCCCCTGTTGCTCTCCTCC 60.985 60.000 0.00 0.00 0.00 4.30
749 786 0.179936 CATCCCCTGTTGCTCTCCTC 59.820 60.000 0.00 0.00 0.00 3.71
750 787 1.277580 CCATCCCCTGTTGCTCTCCT 61.278 60.000 0.00 0.00 0.00 3.69
751 788 1.225704 CCATCCCCTGTTGCTCTCC 59.774 63.158 0.00 0.00 0.00 3.71
752 789 1.452833 GCCATCCCCTGTTGCTCTC 60.453 63.158 0.00 0.00 0.00 3.20
753 790 2.679716 GCCATCCCCTGTTGCTCT 59.320 61.111 0.00 0.00 0.00 4.09
833 901 1.021390 CCGTCTCATTCTTGCGGCTT 61.021 55.000 0.00 0.00 35.90 4.35
846 914 1.287425 CTTATGGCCGTTTCCGTCTC 58.713 55.000 0.77 0.00 0.00 3.36
850 918 3.821995 CCCTTATGGCCGTTTCCG 58.178 61.111 0.77 0.00 0.00 4.30
899 969 3.636231 CGGAAGAGGCCACCACCA 61.636 66.667 5.01 0.00 0.00 4.17
1215 1291 2.097038 CAGCGAACGGAAGGCTCTG 61.097 63.158 0.00 0.00 34.13 3.35
1216 1292 2.262915 CAGCGAACGGAAGGCTCT 59.737 61.111 0.00 0.00 34.13 4.09
1235 1311 3.495276 GGATTCACCCTAGAAGCTTAGCC 60.495 52.174 0.00 0.00 34.50 3.93
1260 1336 0.398098 ACGGACGACCTAATCCCCAT 60.398 55.000 1.72 0.00 0.00 4.00
1262 1338 0.754587 AGACGGACGACCTAATCCCC 60.755 60.000 1.72 0.00 0.00 4.81
1353 1429 9.888878 CAATCCATTATCAGTTAATAAGCACAG 57.111 33.333 0.00 0.00 0.00 3.66
1370 1446 5.092554 TCGAAGCAACTACCAATCCATTA 57.907 39.130 0.00 0.00 0.00 1.90
1371 1447 3.950397 TCGAAGCAACTACCAATCCATT 58.050 40.909 0.00 0.00 0.00 3.16
1441 1521 2.895404 GGGTGTGGTTCTAGTGTAGTCA 59.105 50.000 0.00 0.00 0.00 3.41
1464 1546 6.131389 GCATTTTTCTTGCAAATGTGAAGTC 58.869 36.000 0.00 0.00 41.72 3.01
1477 1559 4.593597 GCACCATGATGCATTTTTCTTG 57.406 40.909 7.34 0.00 45.39 3.02
1504 1586 7.436118 ACCTCAAACATTCGTAGTTGTAACTA 58.564 34.615 0.50 0.50 40.37 2.24
1505 1587 6.285990 ACCTCAAACATTCGTAGTTGTAACT 58.714 36.000 2.51 2.51 42.91 2.24
1506 1588 6.535274 ACCTCAAACATTCGTAGTTGTAAC 57.465 37.500 0.00 0.00 0.00 2.50
1507 1589 6.017770 CCAACCTCAAACATTCGTAGTTGTAA 60.018 38.462 0.00 0.00 33.27 2.41
1508 1590 5.467399 CCAACCTCAAACATTCGTAGTTGTA 59.533 40.000 0.00 0.00 33.27 2.41
1509 1591 4.274950 CCAACCTCAAACATTCGTAGTTGT 59.725 41.667 0.00 0.00 33.27 3.32
1510 1592 4.783242 CCAACCTCAAACATTCGTAGTTG 58.217 43.478 0.00 0.00 34.55 3.16
1528 1610 3.612423 GGAATAAGCAATTCAACGCCAAC 59.388 43.478 12.28 0.00 45.05 3.77
1533 1615 7.028962 TCAGAATTGGAATAAGCAATTCAACG 58.971 34.615 8.08 0.00 45.05 4.10
1544 1626 9.699410 ACCAACTCAATATCAGAATTGGAATAA 57.301 29.630 19.27 0.00 43.16 1.40
1548 1630 5.887598 CCACCAACTCAATATCAGAATTGGA 59.112 40.000 19.27 0.00 43.16 3.53
1550 1632 6.600822 ACTCCACCAACTCAATATCAGAATTG 59.399 38.462 0.00 0.00 38.05 2.32
1570 1652 1.417517 ACAGCACACAATCTCACTCCA 59.582 47.619 0.00 0.00 0.00 3.86
1574 1656 4.452114 TGTCATAACAGCACACAATCTCAC 59.548 41.667 0.00 0.00 0.00 3.51
1620 1702 3.123959 GCAAGCATGTAAAAGCAACCATG 59.876 43.478 0.00 0.00 38.14 3.66
1690 1773 2.542766 ACTTGTGACACTGTTTTGCG 57.457 45.000 7.20 0.00 0.00 4.85
1745 1828 7.227156 ACAGTACATCAAGTGAGGAGAAAAAT 58.773 34.615 0.00 0.00 0.00 1.82
1890 1975 4.635765 CAGCCGATTTCACCAGAAAGATTA 59.364 41.667 0.00 0.00 46.13 1.75
1965 2050 3.599343 TGCTATGGTCACAGAACATCAC 58.401 45.455 0.06 0.00 39.42 3.06
1984 2069 4.558538 ACACAGACTTGTTGAAGATTGC 57.441 40.909 0.00 0.00 34.62 3.56
2037 2122 4.692625 CGTGCCCAGGATCTGATTAAATAG 59.307 45.833 0.00 0.00 32.44 1.73
2119 2204 0.321996 AGGGAAGAAGAACCGCAGAC 59.678 55.000 0.00 0.00 0.00 3.51
2125 2210 3.264450 TCTGATCCAAGGGAAGAAGAACC 59.736 47.826 0.00 0.00 34.34 3.62
2182 2267 8.405531 GCAATTATCTAAGCACAGGATTTAACA 58.594 33.333 0.00 0.00 0.00 2.41
2183 2268 8.405531 TGCAATTATCTAAGCACAGGATTTAAC 58.594 33.333 0.00 0.00 31.05 2.01
2185 2270 7.992608 TCTGCAATTATCTAAGCACAGGATTTA 59.007 33.333 0.00 0.00 32.87 1.40
2222 2307 1.330234 TCACTGGCATGCACAAACAT 58.670 45.000 21.36 0.00 0.00 2.71
2312 2397 2.428171 GGGCAATGCAGCTATGAAAGAA 59.572 45.455 7.79 0.00 34.17 2.52
2332 2417 2.289072 ACCATCTCTCAACGTGTCAAGG 60.289 50.000 0.00 0.00 0.00 3.61
2367 2452 3.957497 ACCCTGCACAAGAACATACAAAA 59.043 39.130 0.00 0.00 0.00 2.44
2368 2453 3.561143 ACCCTGCACAAGAACATACAAA 58.439 40.909 0.00 0.00 0.00 2.83
2471 2556 5.116882 AGCACACGAAAAATAGGGAGATAC 58.883 41.667 0.00 0.00 0.00 2.24
2481 2566 6.017109 AGACATACAAAGAGCACACGAAAAAT 60.017 34.615 0.00 0.00 0.00 1.82
2650 2736 4.790718 AAAACTCTTGAAGGGTGGTAGT 57.209 40.909 0.00 0.00 0.00 2.73
2687 2773 7.468141 ACAATTGAAGGGTTAATCTCCTTTC 57.532 36.000 13.59 4.49 42.85 2.62
2692 2778 8.294577 ACGTTTAACAATTGAAGGGTTAATCTC 58.705 33.333 13.59 0.76 36.99 2.75
2708 2794 4.154375 TGAACTGAACAGCACGTTTAACAA 59.846 37.500 1.46 0.00 38.19 2.83
2887 2973 4.977985 TGGAATACCTTTCGCATAGTCTGC 60.978 45.833 0.00 0.00 41.29 4.26
2894 2980 2.880890 GCAGATGGAATACCTTTCGCAT 59.119 45.455 0.00 0.00 37.04 4.73
3352 3438 7.063074 ACGAGGATCATAAGTTGACGTAAAAAG 59.937 37.037 0.00 0.00 37.11 2.27
3395 3481 0.535553 TTGGTGGTAACGAAGCCCAC 60.536 55.000 8.94 8.94 46.35 4.61
3691 3777 7.480760 AACATGGAACCAACTAATAAAGCAT 57.519 32.000 0.00 0.00 0.00 3.79
3846 3932 6.968263 TCACCACAAATTTGTTCCTAATCA 57.032 33.333 21.10 0.00 39.91 2.57
3921 4007 5.050091 AGCGAATACAAGCTGCAATACATAC 60.050 40.000 1.02 0.00 42.82 2.39
3942 4028 1.973138 CTTCACCATCAAAAGCAGCG 58.027 50.000 0.00 0.00 0.00 5.18
4071 4157 1.305219 TGACGCAATTGCTAGTGCCC 61.305 55.000 26.86 7.67 42.13 5.36
4424 4524 2.583472 GCTTATGCCCTTGCCAACT 58.417 52.632 0.00 0.00 36.33 3.16
4635 4737 4.571580 TGAGTTTTTACCACTACAACACCG 59.428 41.667 0.00 0.00 0.00 4.94
4680 4782 6.924111 TCTCAAAAGAGGCATTTGTTTATCC 58.076 36.000 9.30 0.00 38.57 2.59
4688 4790 7.114754 TCTCATGTATCTCAAAAGAGGCATTT 58.885 34.615 0.00 0.00 34.24 2.32
4929 5031 5.130350 TCTAGCCCCCAAATTCGAAAATAG 58.870 41.667 0.00 0.00 0.00 1.73
4936 5038 2.442413 TGTTTCTAGCCCCCAAATTCG 58.558 47.619 0.00 0.00 0.00 3.34
5072 5175 2.290641 AGCTGCTGGTTTTACTTTGACG 59.709 45.455 0.00 0.00 0.00 4.35
5159 5262 8.134202 AGTTAAATTCCCAGGGTTTAATGAAG 57.866 34.615 14.37 0.00 32.08 3.02
5226 5330 4.258702 ACAGACTATGACACAACAGTCC 57.741 45.455 0.00 0.00 38.53 3.85
5593 5698 1.280421 AGAAAGACCAGGATCACAGGC 59.720 52.381 0.00 0.00 0.00 4.85
5646 5751 0.698238 AGTGACTTGGGCAGGCATTA 59.302 50.000 0.00 0.00 44.99 1.90
5670 5775 1.226746 GTGAGTCCTGGAAAACACCG 58.773 55.000 14.19 0.00 0.00 4.94
5781 5886 3.901844 ACTTCCCAGTACAAGAGCTTACA 59.098 43.478 0.00 0.00 0.00 2.41
5943 6086 5.979517 TGATCACTAAACTGCTCATGTATCG 59.020 40.000 0.00 0.00 0.00 2.92
5951 6094 6.341316 TCACCTAATGATCACTAAACTGCTC 58.659 40.000 0.00 0.00 29.99 4.26
5991 6134 4.504461 GTGCATCATAGACACCTTACTTCG 59.496 45.833 0.00 0.00 0.00 3.79
6001 6144 5.643348 CACAAAACTAGGTGCATCATAGACA 59.357 40.000 0.00 0.00 34.88 3.41
6027 6170 2.881352 GTAGCAGCCGAGCACGAC 60.881 66.667 4.70 0.00 42.66 4.34
6046 6189 7.865706 AATTCGGTATCATAGCTTGTTCTTT 57.134 32.000 0.00 0.00 0.00 2.52
6112 6255 7.856145 AAGAATGACATAAGGTTGAAGCTAG 57.144 36.000 0.00 0.00 0.00 3.42
6113 6256 9.905713 AATAAGAATGACATAAGGTTGAAGCTA 57.094 29.630 0.00 0.00 0.00 3.32
6114 6257 8.814038 AATAAGAATGACATAAGGTTGAAGCT 57.186 30.769 0.00 0.00 0.00 3.74
6115 6258 9.294030 CAAATAAGAATGACATAAGGTTGAAGC 57.706 33.333 0.00 0.00 0.00 3.86
6116 6259 9.793252 CCAAATAAGAATGACATAAGGTTGAAG 57.207 33.333 0.00 0.00 0.00 3.02
6199 6354 0.106519 CCTGGTTGAATAGGCAGGGG 60.107 60.000 0.00 0.00 0.00 4.79
6200 6355 3.502164 CCTGGTTGAATAGGCAGGG 57.498 57.895 0.00 0.00 0.00 4.45
6291 6446 2.108425 TCCAGTAGCTCTCGGTCCATAT 59.892 50.000 0.00 0.00 0.00 1.78
6452 6607 1.873591 ACGCTGTCATGTTTTCAGTCC 59.126 47.619 0.00 0.00 0.00 3.85
6578 6733 4.932105 GCAACCCACCCAGGCCAA 62.932 66.667 5.01 0.00 35.39 4.52
6618 6774 4.731773 GCACATTACCAAAGCATCTACAGC 60.732 45.833 0.00 0.00 0.00 4.40
6660 6816 2.028112 ACTTGTCGTCCACTATGCACAT 60.028 45.455 0.00 0.00 0.00 3.21
6737 6893 4.738124 TCTCACGAGACAAGACAATGATC 58.262 43.478 0.00 0.00 31.41 2.92
6803 6960 3.335579 GGTCGGTGCAGAATAAGAACTT 58.664 45.455 0.00 0.00 0.00 2.66
6886 7049 3.842820 CTCGACTCCGCATGATTATCAT 58.157 45.455 1.25 1.25 34.06 2.45
6920 7093 5.241506 CAGGTTCAAATTTCTGGCTAGTTGA 59.758 40.000 0.00 0.00 0.00 3.18
6937 7110 1.606668 CGCTGCTTAAAACCAGGTTCA 59.393 47.619 4.93 0.00 0.00 3.18
6938 7111 1.877443 TCGCTGCTTAAAACCAGGTTC 59.123 47.619 4.93 0.00 0.00 3.62
6966 8588 4.819105 ATTTCCGATCTGACAGGTAACA 57.181 40.909 1.81 0.00 41.41 2.41
6982 8604 0.953960 ACGGACACAGCGGAATTTCC 60.954 55.000 5.28 5.28 0.00 3.13
6996 8618 2.851104 CCTTGCGAACGAACGGAC 59.149 61.111 0.00 0.00 32.82 4.79
6997 8619 3.039588 GCCTTGCGAACGAACGGA 61.040 61.111 1.85 0.00 0.00 4.69
7053 8675 1.019805 TTTGTTGTGGACGCGTCACA 61.020 50.000 37.26 32.16 42.57 3.58
7168 8837 7.918536 AGTACTCGAGTATCTGACAAAGTAA 57.081 36.000 27.02 0.00 32.54 2.24
7169 8838 9.610705 ATTAGTACTCGAGTATCTGACAAAGTA 57.389 33.333 27.02 8.84 32.54 2.24
7170 8839 7.918536 TTAGTACTCGAGTATCTGACAAAGT 57.081 36.000 27.02 9.81 32.54 2.66
7174 8843 7.254829 GCTTGATTAGTACTCGAGTATCTGACA 60.255 40.741 27.02 20.04 32.54 3.58
7175 8844 7.073265 GCTTGATTAGTACTCGAGTATCTGAC 58.927 42.308 27.02 16.90 32.54 3.51
7176 8845 6.766467 TGCTTGATTAGTACTCGAGTATCTGA 59.234 38.462 27.02 20.54 32.54 3.27
7178 8847 6.293735 GCTGCTTGATTAGTACTCGAGTATCT 60.294 42.308 27.02 24.30 32.54 1.98
7179 8848 5.854338 GCTGCTTGATTAGTACTCGAGTATC 59.146 44.000 27.02 20.91 32.54 2.24
7180 8849 5.299531 TGCTGCTTGATTAGTACTCGAGTAT 59.700 40.000 27.02 17.73 32.54 2.12
7181 8850 4.638865 TGCTGCTTGATTAGTACTCGAGTA 59.361 41.667 21.25 21.25 0.00 2.59
7182 8851 3.444034 TGCTGCTTGATTAGTACTCGAGT 59.556 43.478 23.66 23.66 0.00 4.18
7183 8852 4.033990 TGCTGCTTGATTAGTACTCGAG 57.966 45.455 11.84 11.84 0.00 4.04
7184 8853 3.735208 GCTGCTGCTTGATTAGTACTCGA 60.735 47.826 8.53 0.00 36.03 4.04
7185 8854 2.537625 GCTGCTGCTTGATTAGTACTCG 59.462 50.000 8.53 0.00 36.03 4.18
7186 8855 3.525537 TGCTGCTGCTTGATTAGTACTC 58.474 45.455 17.00 0.00 40.48 2.59
7187 8856 3.616956 TGCTGCTGCTTGATTAGTACT 57.383 42.857 17.00 0.00 40.48 2.73
7188 8857 5.292765 TCTATGCTGCTGCTTGATTAGTAC 58.707 41.667 17.00 0.00 40.48 2.73
7189 8858 5.535753 TCTATGCTGCTGCTTGATTAGTA 57.464 39.130 17.00 0.00 40.48 1.82
7190 8859 4.412796 TCTATGCTGCTGCTTGATTAGT 57.587 40.909 17.00 0.00 40.48 2.24
7191 8860 6.396450 TCTATCTATGCTGCTGCTTGATTAG 58.604 40.000 17.00 11.65 40.48 1.73
7192 8861 6.350629 TCTATCTATGCTGCTGCTTGATTA 57.649 37.500 17.00 6.82 40.48 1.75
7193 8862 5.224821 TCTATCTATGCTGCTGCTTGATT 57.775 39.130 17.00 2.15 40.48 2.57
7194 8863 4.886496 TCTATCTATGCTGCTGCTTGAT 57.114 40.909 17.00 16.96 40.48 2.57
7195 8864 4.562963 CCATCTATCTATGCTGCTGCTTGA 60.563 45.833 17.00 11.67 40.48 3.02
7196 8865 3.685272 CCATCTATCTATGCTGCTGCTTG 59.315 47.826 17.00 6.88 40.48 4.01
7197 8866 3.869140 GCCATCTATCTATGCTGCTGCTT 60.869 47.826 17.00 12.79 40.48 3.91
7198 8867 2.354906 GCCATCTATCTATGCTGCTGCT 60.355 50.000 17.00 5.09 40.48 4.24
7199 8868 2.008329 GCCATCTATCTATGCTGCTGC 58.992 52.381 8.89 8.89 40.20 5.25
7200 8869 3.329929 TGCCATCTATCTATGCTGCTG 57.670 47.619 0.00 0.00 0.00 4.41
7439 9109 4.489771 ACCCATGGTAGCTGCCGC 62.490 66.667 16.65 0.00 32.11 6.53


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

AutoCloner maintained by Alex Coulton.