Multiple sequence alignment - TraesCS1D01G144200

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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 TraesCS1D01G144200 chr1D 100.000 3404 0 0 1 3404 199622927 199626330 0.000000e+00 6287.0
1 TraesCS1D01G144200 chr1B 95.185 2617 75 20 1 2589 280180943 280183536 0.000000e+00 4087.0
2 TraesCS1D01G144200 chr1B 83.333 252 28 7 2877 3128 280183675 280183912 1.590000e-53 220.0
3 TraesCS1D01G144200 chr1B 79.310 145 21 5 3260 3399 174338986 174338846 3.620000e-15 93.5
4 TraesCS1D01G144200 chr1A 95.514 1070 24 11 1530 2589 251376854 251377909 0.000000e+00 1688.0
5 TraesCS1D01G144200 chr1A 94.111 866 25 8 618 1464 251375973 251376831 0.000000e+00 1293.0
6 TraesCS1D01G144200 chr1A 86.869 594 39 15 2427 3007 251931229 251931796 2.230000e-176 628.0
7 TraesCS1D01G144200 chr1A 91.837 392 27 2 238 624 251367899 251368290 2.990000e-150 542.0
8 TraesCS1D01G144200 chr1A 96.685 181 6 0 1 181 251367712 251367892 5.520000e-78 302.0
9 TraesCS1D01G144200 chr1A 82.902 193 16 8 3067 3255 251931796 251931975 1.260000e-34 158.0
10 TraesCS1D01G144200 chr1A 82.162 185 21 6 3072 3255 251394701 251394874 7.610000e-32 148.0
11 TraesCS1D01G144200 chr1A 91.667 60 5 0 3260 3319 296241953 296242012 2.180000e-12 84.2
12 TraesCS1D01G144200 chr2A 80.797 979 121 47 869 1815 17954141 17955084 0.000000e+00 704.0
13 TraesCS1D01G144200 chr2A 86.740 543 65 3 1867 2409 17955843 17956378 6.290000e-167 597.0
14 TraesCS1D01G144200 chr2A 81.951 410 61 7 1936 2336 17988327 17988732 5.440000e-88 335.0
15 TraesCS1D01G144200 chr2A 78.175 252 50 5 1561 1809 607476694 607476943 4.550000e-34 156.0
16 TraesCS1D01G144200 chr2A 88.333 120 14 0 127 246 24137695 24137576 9.840000e-31 145.0
17 TraesCS1D01G144200 chr2A 95.455 66 3 0 3260 3325 155167639 155167574 4.650000e-19 106.0
18 TraesCS1D01G144200 chr2D 88.386 508 55 2 1903 2410 16058115 16058618 2.900000e-170 608.0
19 TraesCS1D01G144200 chr2D 81.759 614 55 32 886 1455 16056926 16057526 8.610000e-126 460.0
20 TraesCS1D01G144200 chr2D 91.968 249 20 0 1567 1815 16057605 16057853 1.940000e-92 350.0
21 TraesCS1D01G144200 chr2D 90.000 120 12 0 124 243 543164355 543164474 4.550000e-34 156.0
22 TraesCS1D01G144200 chr2D 77.912 249 51 4 1563 1809 462197947 462198193 5.880000e-33 152.0
23 TraesCS1D01G144200 chr2D 87.097 93 7 3 3259 3351 248247667 248247754 2.160000e-17 100.0
24 TraesCS1D01G144200 chr2D 80.690 145 13 11 3261 3399 469996792 469996657 7.770000e-17 99.0
25 TraesCS1D01G144200 chr2B 85.688 545 69 6 1867 2409 28324835 28325372 1.770000e-157 566.0
26 TraesCS1D01G144200 chr2B 85.450 378 33 9 886 1241 28323737 28324114 1.150000e-99 374.0
27 TraesCS1D01G144200 chr2B 89.960 249 25 0 1567 1815 28324395 28324643 4.240000e-84 322.0
28 TraesCS1D01G144200 chr2B 77.821 257 42 14 1561 1809 544982227 544982476 9.840000e-31 145.0
29 TraesCS1D01G144200 chr2B 94.737 57 3 0 3260 3316 245122446 245122390 4.680000e-14 89.8
30 TraesCS1D01G144200 chr5D 90.446 157 15 0 1080 1236 353762844 353763000 1.240000e-49 207.0
31 TraesCS1D01G144200 chr5D 82.308 130 21 2 1323 1451 353763002 353763130 9.990000e-21 111.0
32 TraesCS1D01G144200 chr5A 89.441 161 17 0 1076 1236 454720211 454720371 1.600000e-48 204.0
33 TraesCS1D01G144200 chr5A 82.308 130 21 2 1323 1451 454720373 454720501 9.990000e-21 111.0
34 TraesCS1D01G144200 chr5A 89.189 74 7 1 3260 3332 22221260 22221333 1.300000e-14 91.6
35 TraesCS1D01G144200 chr5A 92.308 65 4 1 3256 3320 566732380 566732317 1.300000e-14 91.6
36 TraesCS1D01G144200 chr4A 91.667 120 10 0 124 243 201593297 201593416 2.100000e-37 167.0
37 TraesCS1D01G144200 chr6D 83.908 174 23 4 1067 1237 457473216 457473045 9.780000e-36 161.0
38 TraesCS1D01G144200 chr3B 90.833 120 11 0 127 246 3244947 3244828 9.780000e-36 161.0
39 TraesCS1D01G144200 chr6A 86.207 145 19 1 1309 1453 430343110 430342967 4.550000e-34 156.0
40 TraesCS1D01G144200 chr6A 84.564 149 20 3 1067 1213 604384718 604384865 9.840000e-31 145.0
41 TraesCS1D01G144200 chr7A 89.744 117 12 0 124 240 391572824 391572940 2.120000e-32 150.0
42 TraesCS1D01G144200 chr7A 92.754 69 5 0 3256 3324 200241543 200241475 2.160000e-17 100.0
43 TraesCS1D01G144200 chr6B 76.895 277 56 7 1537 1809 455414309 455414581 2.120000e-32 150.0
44 TraesCS1D01G144200 chr3A 89.167 120 13 0 127 246 217786586 217786467 2.120000e-32 150.0
45 TraesCS1D01G144200 chr3D 87.402 127 16 0 123 249 8891179 8891053 2.740000e-31 147.0
46 TraesCS1D01G144200 chr3D 88.333 120 14 0 127 246 360400001 360399882 9.840000e-31 145.0
47 TraesCS1D01G144200 chr5B 81.538 130 22 2 1323 1451 417874738 417874866 4.650000e-19 106.0


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 TraesCS1D01G144200 chr1D 199622927 199626330 3403 False 6287.000000 6287 100.000000 1 3404 1 chr1D.!!$F1 3403
1 TraesCS1D01G144200 chr1B 280180943 280183912 2969 False 2153.500000 4087 89.259000 1 3128 2 chr1B.!!$F1 3127
2 TraesCS1D01G144200 chr1A 251375973 251377909 1936 False 1490.500000 1688 94.812500 618 2589 2 chr1A.!!$F4 1971
3 TraesCS1D01G144200 chr1A 251367712 251368290 578 False 422.000000 542 94.261000 1 624 2 chr1A.!!$F3 623
4 TraesCS1D01G144200 chr1A 251931229 251931975 746 False 393.000000 628 84.885500 2427 3255 2 chr1A.!!$F5 828
5 TraesCS1D01G144200 chr2A 17954141 17956378 2237 False 650.500000 704 83.768500 869 2409 2 chr2A.!!$F3 1540
6 TraesCS1D01G144200 chr2D 16056926 16058618 1692 False 472.666667 608 87.371000 886 2410 3 chr2D.!!$F4 1524
7 TraesCS1D01G144200 chr2B 28323737 28325372 1635 False 420.666667 566 87.032667 886 2409 3 chr2B.!!$F2 1523

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
870 876 0.030638 CGCTGCTAGCTCTTCCTCTC 59.969 60.0 17.23 0.0 39.6 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2804 3716 0.027194 CCGAATGCTGAACTCATGCG 59.973 55.0 0.0 0.0 41.43 4.73 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
125 126 8.049117 ACTAGCTTATGTTCAAGAATTCATCCA 58.951 33.333 8.44 0.00 0.00 3.41
134 135 9.258629 TGTTCAAGAATTCATCCAATTAATCCT 57.741 29.630 8.44 0.00 34.60 3.24
234 235 0.323999 TCCTACTCGCTAGCCAACCA 60.324 55.000 9.66 0.00 0.00 3.67
247 248 1.609208 CCAACCAAGCAGCTAACACT 58.391 50.000 0.00 0.00 0.00 3.55
407 413 3.302365 GCAAATCTGTTGCCTTGCTTA 57.698 42.857 0.00 0.00 40.76 3.09
449 455 8.567285 AATCCAAGGTGTAATCTAGTCTTTTG 57.433 34.615 0.00 0.00 0.00 2.44
497 503 5.864474 TGAGAACGCTTCTTTCTACATCTTC 59.136 40.000 2.51 0.00 40.87 2.87
515 521 1.302511 CTCCAGACCCCGTTTGGTG 60.303 63.158 1.72 0.00 38.68 4.17
567 573 1.533625 TTGAAATTCCGCTGTCTGGG 58.466 50.000 0.00 0.00 0.00 4.45
570 576 1.740025 GAAATTCCGCTGTCTGGGAAG 59.260 52.381 0.00 0.00 44.93 3.46
614 620 9.758651 AAACTATTGGTGTTTAACAATTCTTCC 57.241 29.630 0.00 0.00 38.24 3.46
789 795 3.628280 TACACATACGCGGCGCACA 62.628 57.895 32.61 18.93 0.00 4.57
823 829 3.132646 GTGGCCTGATAAATTCCATGCAA 59.867 43.478 3.32 0.00 0.00 4.08
837 843 3.064324 GCAACATTCTGCCGGGCT 61.064 61.111 21.46 0.00 36.25 5.19
838 844 1.748879 GCAACATTCTGCCGGGCTA 60.749 57.895 21.46 5.49 36.25 3.93
842 848 1.819632 CATTCTGCCGGGCTACACC 60.820 63.158 21.46 0.00 37.93 4.16
855 861 2.874010 CTACACCTGGACGAGCGCTG 62.874 65.000 18.48 10.31 0.00 5.18
858 864 3.826754 CCTGGACGAGCGCTGCTA 61.827 66.667 18.48 0.21 39.88 3.49
859 865 2.278466 CTGGACGAGCGCTGCTAG 60.278 66.667 18.48 7.63 39.88 3.42
860 866 4.498520 TGGACGAGCGCTGCTAGC 62.499 66.667 18.48 8.10 39.88 3.42
870 876 0.030638 CGCTGCTAGCTCTTCCTCTC 59.969 60.000 17.23 0.00 39.60 3.20
872 878 1.338020 GCTGCTAGCTCTTCCTCTCTC 59.662 57.143 17.23 0.00 38.45 3.20
874 880 3.747388 GCTGCTAGCTCTTCCTCTCTCTA 60.747 52.174 17.23 0.00 38.45 2.43
875 881 4.655963 CTGCTAGCTCTTCCTCTCTCTAT 58.344 47.826 17.23 0.00 0.00 1.98
876 882 5.803145 GCTGCTAGCTCTTCCTCTCTCTATA 60.803 48.000 17.23 0.00 38.45 1.31
877 883 6.387192 TGCTAGCTCTTCCTCTCTCTATAT 57.613 41.667 17.23 0.00 0.00 0.86
878 884 7.503492 TGCTAGCTCTTCCTCTCTCTATATA 57.497 40.000 17.23 0.00 0.00 0.86
879 885 8.101309 TGCTAGCTCTTCCTCTCTCTATATAT 57.899 38.462 17.23 0.00 0.00 0.86
880 886 9.219715 TGCTAGCTCTTCCTCTCTCTATATATA 57.780 37.037 17.23 0.00 0.00 0.86
1478 1546 3.181516 GGCACGAATTGACATCTTCAGTC 60.182 47.826 0.00 0.00 34.94 3.51
1489 1557 7.043961 TGACATCTTCAGTCTCGCTAATAAT 57.956 36.000 0.00 0.00 36.94 1.28
1789 1906 1.948145 CTACGTCCGCTACCTCATCTT 59.052 52.381 0.00 0.00 0.00 2.40
1859 2754 2.874457 GCAACACCACTAACCAGGTAGG 60.874 54.545 0.00 0.00 45.67 3.18
2376 3276 4.335647 AACCTCAGCACCGCCCTG 62.336 66.667 0.00 0.00 0.00 4.45
2423 3323 6.015918 ACTGATGATATGCTACTAGGAAGCT 58.984 40.000 17.24 8.09 40.73 3.74
2424 3324 7.178573 ACTGATGATATGCTACTAGGAAGCTA 58.821 38.462 17.24 9.57 40.73 3.32
2425 3325 7.122055 ACTGATGATATGCTACTAGGAAGCTAC 59.878 40.741 17.24 8.71 40.73 3.58
2514 3415 3.066064 TCTCGGTTTTGAATGTGGTGTTG 59.934 43.478 0.00 0.00 0.00 3.33
2528 3429 1.469079 GGTGTTGGTTGTGTGTTGCTC 60.469 52.381 0.00 0.00 0.00 4.26
2562 3463 9.072294 GTCAATAATTTGTGTAACCAGTAATGC 57.928 33.333 0.00 0.00 34.36 3.56
2566 3467 5.431420 TTTGTGTAACCAGTAATGCTGTG 57.569 39.130 0.00 0.00 43.55 3.66
2589 3490 3.120683 CGTGCAATGAACGTGTCATACTT 60.121 43.478 5.43 0.00 46.80 2.24
2590 3491 4.151070 GTGCAATGAACGTGTCATACTTG 58.849 43.478 11.79 9.46 46.80 3.16
2591 3492 3.163594 GCAATGAACGTGTCATACTTGC 58.836 45.455 15.22 15.22 46.80 4.01
2592 3493 3.747193 CAATGAACGTGTCATACTTGCC 58.253 45.455 11.79 0.00 46.80 4.52
2593 3494 1.424403 TGAACGTGTCATACTTGCCG 58.576 50.000 0.00 0.00 0.00 5.69
2594 3495 0.094730 GAACGTGTCATACTTGCCGC 59.905 55.000 0.00 0.00 0.00 6.53
2595 3496 0.601576 AACGTGTCATACTTGCCGCA 60.602 50.000 0.00 0.00 0.00 5.69
2596 3497 0.601576 ACGTGTCATACTTGCCGCAA 60.602 50.000 5.52 5.52 0.00 4.85
2597 3498 0.515127 CGTGTCATACTTGCCGCAAA 59.485 50.000 7.33 0.00 0.00 3.68
2598 3499 1.069568 CGTGTCATACTTGCCGCAAAA 60.070 47.619 7.33 0.00 0.00 2.44
2599 3500 2.603412 CGTGTCATACTTGCCGCAAAAA 60.603 45.455 7.33 0.00 0.00 1.94
2630 3531 7.924103 AAAAACTCGAAAACATAATGACCAC 57.076 32.000 0.00 0.00 0.00 4.16
2649 3551 3.971150 CACGAGATGTGGAGGAGTATTC 58.029 50.000 0.00 0.00 45.21 1.75
2665 3567 9.262358 GAGGAGTATTCTAAACATAATGACCAC 57.738 37.037 0.00 0.00 0.00 4.16
2693 3605 4.067972 TGGTGACCGATAAGGATAAAGC 57.932 45.455 0.00 0.00 45.00 3.51
2747 3659 6.519315 CACGTCTTTAACTAATACAACACGG 58.481 40.000 0.00 0.00 0.00 4.94
2749 3661 7.325821 CACGTCTTTAACTAATACAACACGGTA 59.674 37.037 0.00 0.00 0.00 4.02
2769 3681 9.828852 CACGGTAATAGCAAATTGTTAACTAAA 57.171 29.630 7.22 0.00 0.00 1.85
2798 3710 4.537135 AGAGAAGGTACAATTCAAGCGA 57.463 40.909 11.36 0.00 0.00 4.93
2801 3713 3.865745 AGAAGGTACAATTCAAGCGATCG 59.134 43.478 11.69 11.69 0.00 3.69
2802 3714 3.247006 AGGTACAATTCAAGCGATCGT 57.753 42.857 17.81 0.26 0.00 3.73
2804 3716 4.110482 AGGTACAATTCAAGCGATCGTAC 58.890 43.478 17.81 7.51 0.00 3.67
2823 3735 0.027194 CGCATGAGTTCAGCATTCGG 59.973 55.000 0.00 0.00 30.64 4.30
2866 3780 6.985117 TCAAATTTCTCCTGGATCAAAACAG 58.015 36.000 0.00 0.00 34.54 3.16
2882 3817 5.301551 TCAAAACAGGCATCACACATACTTT 59.698 36.000 0.00 0.00 0.00 2.66
2896 3831 7.040755 TCACACATACTTTGAACAATTTCGGAT 60.041 33.333 0.00 0.00 34.04 4.18
2913 3848 3.956199 TCGGATGTTCCTTCGTATAACCT 59.044 43.478 0.00 0.00 33.30 3.50
2916 3851 6.266103 TCGGATGTTCCTTCGTATAACCTATT 59.734 38.462 0.00 0.00 33.30 1.73
2944 3879 8.561738 TCCAGGTAGATGATTTAAAACTCAAC 57.438 34.615 0.00 0.00 0.00 3.18
2948 3883 9.099454 AGGTAGATGATTTAAAACTCAACGATC 57.901 33.333 0.00 0.00 0.00 3.69
2955 3890 6.548441 TTTAAAACTCAACGATCGGAATGT 57.452 33.333 20.98 9.92 0.00 2.71
3024 3959 5.477291 TGACAAACTCTTCTCGTATTCCTCT 59.523 40.000 0.00 0.00 0.00 3.69
3030 3965 3.381908 TCTTCTCGTATTCCTCTGCTTCC 59.618 47.826 0.00 0.00 0.00 3.46
3031 3966 2.032620 TCTCGTATTCCTCTGCTTCCC 58.967 52.381 0.00 0.00 0.00 3.97
3033 3968 2.032620 TCGTATTCCTCTGCTTCCCTC 58.967 52.381 0.00 0.00 0.00 4.30
3034 3969 2.035632 CGTATTCCTCTGCTTCCCTCT 58.964 52.381 0.00 0.00 0.00 3.69
3036 3971 0.545646 ATTCCTCTGCTTCCCTCTGC 59.454 55.000 0.00 0.00 0.00 4.26
3038 3973 0.546267 TCCTCTGCTTCCCTCTGCTT 60.546 55.000 0.00 0.00 0.00 3.91
3039 3974 0.107752 CCTCTGCTTCCCTCTGCTTC 60.108 60.000 0.00 0.00 0.00 3.86
3040 3975 0.903942 CTCTGCTTCCCTCTGCTTCT 59.096 55.000 0.00 0.00 0.00 2.85
3042 3977 1.701847 TCTGCTTCCCTCTGCTTCTTT 59.298 47.619 0.00 0.00 0.00 2.52
3044 3979 1.421268 TGCTTCCCTCTGCTTCTTTCA 59.579 47.619 0.00 0.00 0.00 2.69
3047 3982 3.749226 CTTCCCTCTGCTTCTTTCAGTT 58.251 45.455 0.00 0.00 33.48 3.16
3048 3983 4.804261 GCTTCCCTCTGCTTCTTTCAGTTA 60.804 45.833 0.00 0.00 33.48 2.24
3049 3984 4.974645 TCCCTCTGCTTCTTTCAGTTAA 57.025 40.909 0.00 0.00 33.48 2.01
3050 3985 5.304686 TCCCTCTGCTTCTTTCAGTTAAA 57.695 39.130 0.00 0.00 33.48 1.52
3053 3988 7.633789 TCCCTCTGCTTCTTTCAGTTAAATAT 58.366 34.615 0.00 0.00 33.48 1.28
3058 3993 9.905713 TCTGCTTCTTTCAGTTAAATATATGGT 57.094 29.630 0.00 0.00 33.48 3.55
3059 3994 9.941664 CTGCTTCTTTCAGTTAAATATATGGTG 57.058 33.333 0.00 0.00 0.00 4.17
3060 3995 8.405531 TGCTTCTTTCAGTTAAATATATGGTGC 58.594 33.333 0.00 0.00 0.00 5.01
3061 3996 8.624776 GCTTCTTTCAGTTAAATATATGGTGCT 58.375 33.333 0.00 0.00 0.00 4.40
3128 4063 6.207417 CCATTCACTTTGTCAAGGTCAAGTAT 59.793 38.462 0.00 0.00 33.82 2.12
3130 4065 8.783093 CATTCACTTTGTCAAGGTCAAGTATAA 58.217 33.333 0.00 0.00 33.82 0.98
3131 4066 7.962964 TCACTTTGTCAAGGTCAAGTATAAG 57.037 36.000 0.00 0.00 33.82 1.73
3132 4067 7.732025 TCACTTTGTCAAGGTCAAGTATAAGA 58.268 34.615 0.00 0.00 33.82 2.10
3133 4068 7.872993 TCACTTTGTCAAGGTCAAGTATAAGAG 59.127 37.037 0.00 0.00 33.82 2.85
3134 4069 6.651225 ACTTTGTCAAGGTCAAGTATAAGAGC 59.349 38.462 0.00 0.00 33.82 4.09
3136 4071 4.219944 TGTCAAGGTCAAGTATAAGAGCGT 59.780 41.667 0.00 0.00 37.34 5.07
3137 4072 5.416639 TGTCAAGGTCAAGTATAAGAGCGTA 59.583 40.000 0.00 0.00 37.34 4.42
3138 4073 5.742926 GTCAAGGTCAAGTATAAGAGCGTAC 59.257 44.000 0.00 0.00 37.34 3.67
3140 4075 6.096423 TCAAGGTCAAGTATAAGAGCGTACAT 59.904 38.462 0.00 0.00 37.34 2.29
3141 4076 6.074544 AGGTCAAGTATAAGAGCGTACATC 57.925 41.667 0.00 0.00 37.34 3.06
3142 4077 5.593095 AGGTCAAGTATAAGAGCGTACATCA 59.407 40.000 0.00 0.00 37.34 3.07
3144 4079 6.924060 GGTCAAGTATAAGAGCGTACATCAAT 59.076 38.462 0.00 0.00 0.00 2.57
3189 4124 9.381033 CCAATAATTCATGCCAAATAACTTTGA 57.619 29.630 0.00 0.00 43.71 2.69
3210 4145 1.267574 ATCTCGCTCAAGCCTTCCCA 61.268 55.000 0.00 0.00 37.91 4.37
3225 4160 0.409092 TCCCATGGCTGTCACCAATT 59.591 50.000 6.09 0.00 44.65 2.32
3227 4162 2.244510 TCCCATGGCTGTCACCAATTAT 59.755 45.455 6.09 0.00 44.65 1.28
3238 4173 9.899226 GGCTGTCACCAATTATTCTTATATTTC 57.101 33.333 0.00 0.00 0.00 2.17
3255 4190 8.588290 TTATATTTCACATGCCCTTACACTTT 57.412 30.769 0.00 0.00 0.00 2.66
3256 4191 5.806654 ATTTCACATGCCCTTACACTTTT 57.193 34.783 0.00 0.00 0.00 2.27
3257 4192 6.909550 ATTTCACATGCCCTTACACTTTTA 57.090 33.333 0.00 0.00 0.00 1.52
3258 4193 6.909550 TTTCACATGCCCTTACACTTTTAT 57.090 33.333 0.00 0.00 0.00 1.40
3259 4194 6.909550 TTCACATGCCCTTACACTTTTATT 57.090 33.333 0.00 0.00 0.00 1.40
3260 4195 6.909550 TCACATGCCCTTACACTTTTATTT 57.090 33.333 0.00 0.00 0.00 1.40
3261 4196 7.296628 TCACATGCCCTTACACTTTTATTTT 57.703 32.000 0.00 0.00 0.00 1.82
3262 4197 7.731054 TCACATGCCCTTACACTTTTATTTTT 58.269 30.769 0.00 0.00 0.00 1.94
3296 4231 6.554334 GCATCAGCCCGACTTTATAAATAA 57.446 37.500 0.00 0.00 33.58 1.40
3297 4232 6.966021 GCATCAGCCCGACTTTATAAATAAA 58.034 36.000 0.00 0.00 33.58 1.40
3298 4233 7.078228 GCATCAGCCCGACTTTATAAATAAAG 58.922 38.462 17.11 17.11 43.34 1.85
3299 4234 8.255026 GCATCAGCCCGACTTTATAAATAAAGC 61.255 40.741 18.17 11.93 42.51 3.51
3317 4252 2.009108 CCATCAGGCATCGTTCACG 58.991 57.895 0.00 0.00 41.45 4.35
3330 4265 3.993547 TCGTTCACGACAAACAGAAAAC 58.006 40.909 0.00 0.00 44.22 2.43
3331 4266 3.095738 CGTTCACGACAAACAGAAAACC 58.904 45.455 0.00 0.00 43.02 3.27
3332 4267 3.425094 CGTTCACGACAAACAGAAAACCA 60.425 43.478 0.00 0.00 43.02 3.67
3333 4268 3.750639 TCACGACAAACAGAAAACCAC 57.249 42.857 0.00 0.00 0.00 4.16
3334 4269 3.075148 TCACGACAAACAGAAAACCACA 58.925 40.909 0.00 0.00 0.00 4.17
3335 4270 3.120130 TCACGACAAACAGAAAACCACAC 60.120 43.478 0.00 0.00 0.00 3.82
3336 4271 3.078837 ACGACAAACAGAAAACCACACT 58.921 40.909 0.00 0.00 0.00 3.55
3337 4272 3.126343 ACGACAAACAGAAAACCACACTC 59.874 43.478 0.00 0.00 0.00 3.51
3338 4273 3.126171 CGACAAACAGAAAACCACACTCA 59.874 43.478 0.00 0.00 0.00 3.41
3339 4274 4.412207 GACAAACAGAAAACCACACTCAC 58.588 43.478 0.00 0.00 0.00 3.51
3340 4275 3.823873 ACAAACAGAAAACCACACTCACA 59.176 39.130 0.00 0.00 0.00 3.58
3341 4276 4.082787 ACAAACAGAAAACCACACTCACAG 60.083 41.667 0.00 0.00 0.00 3.66
3342 4277 2.017049 ACAGAAAACCACACTCACAGC 58.983 47.619 0.00 0.00 0.00 4.40
3343 4278 2.016318 CAGAAAACCACACTCACAGCA 58.984 47.619 0.00 0.00 0.00 4.41
3344 4279 2.032550 CAGAAAACCACACTCACAGCAG 59.967 50.000 0.00 0.00 0.00 4.24
3345 4280 2.092968 AGAAAACCACACTCACAGCAGA 60.093 45.455 0.00 0.00 0.00 4.26
3346 4281 2.645838 AAACCACACTCACAGCAGAT 57.354 45.000 0.00 0.00 0.00 2.90
3347 4282 2.175878 AACCACACTCACAGCAGATC 57.824 50.000 0.00 0.00 0.00 2.75
3348 4283 1.051008 ACCACACTCACAGCAGATCA 58.949 50.000 0.00 0.00 0.00 2.92
3349 4284 1.417517 ACCACACTCACAGCAGATCAA 59.582 47.619 0.00 0.00 0.00 2.57
3350 4285 1.802960 CCACACTCACAGCAGATCAAC 59.197 52.381 0.00 0.00 0.00 3.18
3351 4286 1.458445 CACACTCACAGCAGATCAACG 59.542 52.381 0.00 0.00 0.00 4.10
3352 4287 1.073964 CACTCACAGCAGATCAACGG 58.926 55.000 0.00 0.00 0.00 4.44
3353 4288 0.671781 ACTCACAGCAGATCAACGGC 60.672 55.000 0.00 0.00 39.85 5.68
3354 4289 1.364626 CTCACAGCAGATCAACGGCC 61.365 60.000 0.00 0.00 40.39 6.13
3355 4290 1.672030 CACAGCAGATCAACGGCCA 60.672 57.895 2.24 0.00 40.39 5.36
3356 4291 1.672356 ACAGCAGATCAACGGCCAC 60.672 57.895 2.24 0.00 40.39 5.01
3357 4292 1.672030 CAGCAGATCAACGGCCACA 60.672 57.895 2.24 0.00 40.39 4.17
3358 4293 1.073025 AGCAGATCAACGGCCACAA 59.927 52.632 2.24 0.00 40.39 3.33
3359 4294 1.210155 GCAGATCAACGGCCACAAC 59.790 57.895 2.24 0.00 33.80 3.32
3360 4295 1.875963 CAGATCAACGGCCACAACC 59.124 57.895 2.24 0.00 0.00 3.77
3361 4296 0.888736 CAGATCAACGGCCACAACCA 60.889 55.000 2.24 0.00 0.00 3.67
3362 4297 0.179004 AGATCAACGGCCACAACCAA 60.179 50.000 2.24 0.00 0.00 3.67
3363 4298 0.671251 GATCAACGGCCACAACCAAA 59.329 50.000 2.24 0.00 0.00 3.28
3364 4299 1.067821 GATCAACGGCCACAACCAAAA 59.932 47.619 2.24 0.00 0.00 2.44
3365 4300 0.895530 TCAACGGCCACAACCAAAAA 59.104 45.000 2.24 0.00 0.00 1.94
3366 4301 1.134965 TCAACGGCCACAACCAAAAAG 60.135 47.619 2.24 0.00 0.00 2.27
3367 4302 0.899019 AACGGCCACAACCAAAAAGT 59.101 45.000 2.24 0.00 0.00 2.66
3368 4303 0.899019 ACGGCCACAACCAAAAAGTT 59.101 45.000 2.24 0.00 0.00 2.66
3369 4304 2.100989 ACGGCCACAACCAAAAAGTTA 58.899 42.857 2.24 0.00 0.00 2.24
3370 4305 2.496470 ACGGCCACAACCAAAAAGTTAA 59.504 40.909 2.24 0.00 0.00 2.01
3371 4306 3.120041 CGGCCACAACCAAAAAGTTAAG 58.880 45.455 2.24 0.00 0.00 1.85
3372 4307 3.181485 CGGCCACAACCAAAAAGTTAAGA 60.181 43.478 2.24 0.00 0.00 2.10
3373 4308 4.116961 GGCCACAACCAAAAAGTTAAGAC 58.883 43.478 0.00 0.00 0.00 3.01
3374 4309 4.382147 GGCCACAACCAAAAAGTTAAGACA 60.382 41.667 0.00 0.00 0.00 3.41
3375 4310 4.803613 GCCACAACCAAAAAGTTAAGACAG 59.196 41.667 0.00 0.00 0.00 3.51
3376 4311 5.393678 GCCACAACCAAAAAGTTAAGACAGA 60.394 40.000 0.00 0.00 0.00 3.41
3377 4312 6.265577 CCACAACCAAAAAGTTAAGACAGAG 58.734 40.000 0.00 0.00 0.00 3.35
3378 4313 6.265577 CACAACCAAAAAGTTAAGACAGAGG 58.734 40.000 0.00 0.00 0.00 3.69
3379 4314 5.949952 ACAACCAAAAAGTTAAGACAGAGGT 59.050 36.000 0.00 0.00 0.00 3.85
3380 4315 7.066525 CACAACCAAAAAGTTAAGACAGAGGTA 59.933 37.037 0.00 0.00 0.00 3.08
3381 4316 7.066645 ACAACCAAAAAGTTAAGACAGAGGTAC 59.933 37.037 0.00 0.00 0.00 3.34
3382 4317 6.655930 ACCAAAAAGTTAAGACAGAGGTACA 58.344 36.000 0.00 0.00 0.00 2.90
3383 4318 7.287810 ACCAAAAAGTTAAGACAGAGGTACAT 58.712 34.615 0.00 0.00 0.00 2.29
3384 4319 8.434392 ACCAAAAAGTTAAGACAGAGGTACATA 58.566 33.333 0.00 0.00 0.00 2.29
3385 4320 8.936864 CCAAAAAGTTAAGACAGAGGTACATAG 58.063 37.037 0.00 0.00 0.00 2.23
3386 4321 8.443937 CAAAAAGTTAAGACAGAGGTACATAGC 58.556 37.037 0.00 0.00 0.00 2.97
3387 4322 6.852420 AAGTTAAGACAGAGGTACATAGCA 57.148 37.500 0.00 0.00 0.00 3.49
3388 4323 6.210287 AGTTAAGACAGAGGTACATAGCAC 57.790 41.667 0.00 0.00 0.00 4.40
3389 4324 5.127356 AGTTAAGACAGAGGTACATAGCACC 59.873 44.000 0.00 0.00 36.22 5.01
3390 4325 2.389715 AGACAGAGGTACATAGCACCC 58.610 52.381 0.00 0.00 36.67 4.61
3391 4326 2.108168 GACAGAGGTACATAGCACCCA 58.892 52.381 0.00 0.00 36.67 4.51
3392 4327 2.101582 GACAGAGGTACATAGCACCCAG 59.898 54.545 0.00 0.00 36.67 4.45
3393 4328 1.414181 CAGAGGTACATAGCACCCAGG 59.586 57.143 0.00 0.00 36.67 4.45
3394 4329 0.106894 GAGGTACATAGCACCCAGGC 59.893 60.000 0.00 0.00 36.67 4.85
3395 4330 1.148498 GGTACATAGCACCCAGGCC 59.852 63.158 0.00 0.00 0.00 5.19
3396 4331 1.632018 GGTACATAGCACCCAGGCCA 61.632 60.000 5.01 0.00 0.00 5.36
3397 4332 0.254747 GTACATAGCACCCAGGCCAA 59.745 55.000 5.01 0.00 0.00 4.52
3398 4333 0.995803 TACATAGCACCCAGGCCAAA 59.004 50.000 5.01 0.00 0.00 3.28
3399 4334 0.114168 ACATAGCACCCAGGCCAAAA 59.886 50.000 5.01 0.00 0.00 2.44
3400 4335 0.532115 CATAGCACCCAGGCCAAAAC 59.468 55.000 5.01 0.00 0.00 2.43
3401 4336 0.965363 ATAGCACCCAGGCCAAAACG 60.965 55.000 5.01 0.00 0.00 3.60
3402 4337 2.058125 TAGCACCCAGGCCAAAACGA 62.058 55.000 5.01 0.00 0.00 3.85
3403 4338 3.039134 CACCCAGGCCAAAACGAC 58.961 61.111 5.01 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
125 126 6.183360 GGTGACCCTACGAGTAAGGATTAATT 60.183 42.308 5.01 0.00 28.70 1.40
134 135 1.742761 CTCGGTGACCCTACGAGTAA 58.257 55.000 0.00 0.00 46.43 2.24
339 340 7.769044 AGTTTAATACATGAGACATAAAGCGGT 59.231 33.333 0.00 0.00 0.00 5.68
431 437 8.098912 TCCCTAAACAAAAGACTAGATTACACC 58.901 37.037 0.00 0.00 0.00 4.16
449 455 8.529476 TCAAAGACTAGATTACACTCCCTAAAC 58.471 37.037 0.00 0.00 0.00 2.01
497 503 1.302511 CACCAAACGGGGTCTGGAG 60.303 63.158 0.00 0.00 39.79 3.86
515 521 6.540914 TGTCTAAAAATACGGGAATCCATGAC 59.459 38.462 0.09 0.00 0.00 3.06
567 573 1.471684 CTGAGTTCTGGCCATTGCTTC 59.528 52.381 5.51 1.39 37.74 3.86
570 576 1.538047 TTCTGAGTTCTGGCCATTGC 58.462 50.000 5.51 0.00 0.00 3.56
614 620 2.156917 TGCAAAAGTCTCCATCAGCAG 58.843 47.619 0.00 0.00 0.00 4.24
789 795 6.702449 TTATCAGGCCACCATGTTAGATAT 57.298 37.500 5.01 0.00 0.00 1.63
823 829 1.078426 GTGTAGCCCGGCAGAATGT 60.078 57.895 13.15 0.00 39.31 2.71
837 843 2.675423 AGCGCTCGTCCAGGTGTA 60.675 61.111 2.64 0.00 0.00 2.90
838 844 4.363990 CAGCGCTCGTCCAGGTGT 62.364 66.667 7.13 0.00 0.00 4.16
842 848 2.278466 CTAGCAGCGCTCGTCCAG 60.278 66.667 7.13 0.00 40.44 3.86
870 876 8.802267 GGCTCAAGAGGCCTATTATATATAGAG 58.198 40.741 13.35 13.78 46.99 2.43
892 898 0.744771 GTTTGGATGGACTCGGGCTC 60.745 60.000 0.00 0.00 0.00 4.70
1478 1546 9.632807 AGCTTGTCTAATCTAATTATTAGCGAG 57.367 33.333 7.08 4.70 38.69 5.03
1489 1557 3.773119 ACGGGGAAGCTTGTCTAATCTAA 59.227 43.478 2.10 0.00 0.00 2.10
1789 1906 4.339530 CCATGAGGATCTTCTTGTACTCGA 59.660 45.833 16.39 0.00 36.89 4.04
1859 2754 2.099831 CGGTGCTCGTCGGTCTAC 59.900 66.667 0.00 0.00 0.00 2.59
1860 2755 3.129502 CCGGTGCTCGTCGGTCTA 61.130 66.667 0.00 0.00 41.23 2.59
2514 3415 1.680735 TCCAATGAGCAACACACAACC 59.319 47.619 0.00 0.00 0.00 3.77
2528 3429 7.759433 GGTTACACAAATTATTGACCTCCAATG 59.241 37.037 0.00 0.00 44.67 2.82
2562 3463 0.993251 CACGTTCATTGCACGCACAG 60.993 55.000 8.75 0.00 41.53 3.66
2566 3467 0.110238 ATGACACGTTCATTGCACGC 60.110 50.000 8.75 0.00 42.87 5.34
2606 3507 6.635239 CGTGGTCATTATGTTTTCGAGTTTTT 59.365 34.615 0.00 0.00 0.00 1.94
2607 3508 6.017770 TCGTGGTCATTATGTTTTCGAGTTTT 60.018 34.615 0.00 0.00 0.00 2.43
2608 3509 5.467399 TCGTGGTCATTATGTTTTCGAGTTT 59.533 36.000 0.00 0.00 0.00 2.66
2609 3510 4.992319 TCGTGGTCATTATGTTTTCGAGTT 59.008 37.500 0.00 0.00 0.00 3.01
2610 3511 4.562082 TCGTGGTCATTATGTTTTCGAGT 58.438 39.130 0.00 0.00 0.00 4.18
2630 3531 6.183360 TGTTTAGAATACTCCTCCACATCTCG 60.183 42.308 0.00 0.00 0.00 4.04
2642 3544 8.867112 TCGTGGTCATTATGTTTAGAATACTC 57.133 34.615 0.00 0.00 0.00 2.59
2649 3551 7.494625 ACCATTACTCGTGGTCATTATGTTTAG 59.505 37.037 0.00 0.00 46.79 1.85
2665 3567 3.317149 TCCTTATCGGTCACCATTACTCG 59.683 47.826 0.00 0.00 0.00 4.18
2679 3591 3.679980 CCACATCCGCTTTATCCTTATCG 59.320 47.826 0.00 0.00 0.00 2.92
2693 3605 3.181367 GCACTCTTGCCACATCCG 58.819 61.111 0.00 0.00 43.66 4.18
2769 3681 7.016153 TGAATTGTACCTTCTCTTGGTGTAT 57.984 36.000 6.78 0.00 38.42 2.29
2798 3710 1.135112 TGCTGAACTCATGCGTACGAT 60.135 47.619 21.65 6.92 0.00 3.73
2801 3713 2.285256 CGAATGCTGAACTCATGCGTAC 60.285 50.000 0.00 0.00 38.00 3.67
2802 3714 1.926510 CGAATGCTGAACTCATGCGTA 59.073 47.619 0.00 0.00 38.00 4.42
2804 3716 0.027194 CCGAATGCTGAACTCATGCG 59.973 55.000 0.00 0.00 41.43 4.73
2809 3721 5.046910 TCATTTTTCCGAATGCTGAACTC 57.953 39.130 0.00 0.00 37.03 3.01
2814 3726 7.760131 ACATTATTCATTTTTCCGAATGCTG 57.240 32.000 0.00 0.00 37.03 4.41
2866 3780 4.764679 TGTTCAAAGTATGTGTGATGCC 57.235 40.909 0.00 0.00 0.00 4.40
2896 3831 6.229936 AGCAATAGGTTATACGAAGGAACA 57.770 37.500 0.00 0.00 0.00 3.18
2913 3848 9.120538 GTTTTAAATCATCTACCTGGAGCAATA 57.879 33.333 0.00 0.00 0.00 1.90
2916 3851 6.721318 AGTTTTAAATCATCTACCTGGAGCA 58.279 36.000 0.00 0.00 0.00 4.26
3024 3959 1.421268 TGAAAGAAGCAGAGGGAAGCA 59.579 47.619 0.00 0.00 0.00 3.91
3033 3968 9.941664 CACCATATATTTAACTGAAAGAAGCAG 57.058 33.333 0.00 0.00 37.43 4.24
3034 3969 8.405531 GCACCATATATTTAACTGAAAGAAGCA 58.594 33.333 0.00 0.00 37.43 3.91
3053 3988 7.493320 CCAGACGTTAAAATAACTAGCACCATA 59.507 37.037 0.00 0.00 0.00 2.74
3056 3991 5.870978 TCCAGACGTTAAAATAACTAGCACC 59.129 40.000 0.00 0.00 0.00 5.01
3057 3992 6.956299 TCCAGACGTTAAAATAACTAGCAC 57.044 37.500 0.00 0.00 0.00 4.40
3058 3993 9.472361 GATATCCAGACGTTAAAATAACTAGCA 57.528 33.333 0.00 0.00 0.00 3.49
3059 3994 9.472361 TGATATCCAGACGTTAAAATAACTAGC 57.528 33.333 0.00 0.00 0.00 3.42
3064 3999 9.268268 GGTGATGATATCCAGACGTTAAAATAA 57.732 33.333 0.00 0.00 0.00 1.40
3065 4000 8.425703 TGGTGATGATATCCAGACGTTAAAATA 58.574 33.333 0.00 0.00 0.00 1.40
3066 4001 7.279615 TGGTGATGATATCCAGACGTTAAAAT 58.720 34.615 0.00 0.00 0.00 1.82
3067 4002 6.645306 TGGTGATGATATCCAGACGTTAAAA 58.355 36.000 0.00 0.00 0.00 1.52
3068 4003 6.228616 TGGTGATGATATCCAGACGTTAAA 57.771 37.500 0.00 0.00 0.00 1.52
3069 4004 5.862678 TGGTGATGATATCCAGACGTTAA 57.137 39.130 0.00 0.00 0.00 2.01
3070 4005 5.862678 TTGGTGATGATATCCAGACGTTA 57.137 39.130 0.00 0.00 32.63 3.18
3151 4086 9.979578 GGCATGAATTATTGGTTGTGAAATATA 57.020 29.630 0.00 0.00 0.00 0.86
3152 4087 8.484575 TGGCATGAATTATTGGTTGTGAAATAT 58.515 29.630 0.00 0.00 0.00 1.28
3153 4088 7.845037 TGGCATGAATTATTGGTTGTGAAATA 58.155 30.769 0.00 0.00 0.00 1.40
3154 4089 6.709281 TGGCATGAATTATTGGTTGTGAAAT 58.291 32.000 0.00 0.00 0.00 2.17
3155 4090 6.106648 TGGCATGAATTATTGGTTGTGAAA 57.893 33.333 0.00 0.00 0.00 2.69
3156 4091 5.735285 TGGCATGAATTATTGGTTGTGAA 57.265 34.783 0.00 0.00 0.00 3.18
3157 4092 5.735285 TTGGCATGAATTATTGGTTGTGA 57.265 34.783 0.00 0.00 0.00 3.58
3158 4093 6.988622 ATTTGGCATGAATTATTGGTTGTG 57.011 33.333 0.00 0.00 0.00 3.33
3174 4109 5.822519 AGCGAGATATCAAAGTTATTTGGCA 59.177 36.000 5.32 0.00 44.93 4.92
3189 4124 1.346068 GGGAAGGCTTGAGCGAGATAT 59.654 52.381 3.46 0.00 43.26 1.63
3193 4128 1.094073 CATGGGAAGGCTTGAGCGAG 61.094 60.000 3.46 0.00 43.26 5.03
3210 4145 9.592196 AATATAAGAATAATTGGTGACAGCCAT 57.408 29.630 1.47 0.00 44.54 4.40
3227 4162 8.052748 AGTGTAAGGGCATGTGAAATATAAGAA 58.947 33.333 0.00 0.00 0.00 2.52
3238 4173 7.961325 AAAAATAAAAGTGTAAGGGCATGTG 57.039 32.000 0.00 0.00 0.00 3.21
3273 4208 6.554334 TTATTTATAAAGTCGGGCTGATGC 57.446 37.500 0.00 0.00 38.76 3.91
3274 4209 7.078228 GCTTTATTTATAAAGTCGGGCTGATG 58.922 38.462 18.51 0.00 46.78 3.07
3275 4210 6.206829 GGCTTTATTTATAAAGTCGGGCTGAT 59.793 38.462 18.51 0.00 46.78 2.90
3276 4211 5.529800 GGCTTTATTTATAAAGTCGGGCTGA 59.470 40.000 18.51 0.00 46.78 4.26
3277 4212 5.758924 GGCTTTATTTATAAAGTCGGGCTG 58.241 41.667 18.51 0.00 46.78 4.85
3299 4234 0.460109 TCGTGAACGATGCCTGATGG 60.460 55.000 0.50 0.00 44.22 3.51
3300 4235 3.049227 TCGTGAACGATGCCTGATG 57.951 52.632 0.50 0.00 44.22 3.07
3310 4245 3.095738 GGTTTTCTGTTTGTCGTGAACG 58.904 45.455 0.00 0.00 41.45 3.95
3311 4246 3.849708 GTGGTTTTCTGTTTGTCGTGAAC 59.150 43.478 0.00 0.00 0.00 3.18
3312 4247 3.502595 TGTGGTTTTCTGTTTGTCGTGAA 59.497 39.130 0.00 0.00 0.00 3.18
3313 4248 3.075148 TGTGGTTTTCTGTTTGTCGTGA 58.925 40.909 0.00 0.00 0.00 4.35
3314 4249 3.119990 AGTGTGGTTTTCTGTTTGTCGTG 60.120 43.478 0.00 0.00 0.00 4.35
3315 4250 3.078837 AGTGTGGTTTTCTGTTTGTCGT 58.921 40.909 0.00 0.00 0.00 4.34
3316 4251 3.126171 TGAGTGTGGTTTTCTGTTTGTCG 59.874 43.478 0.00 0.00 0.00 4.35
3317 4252 4.083003 TGTGAGTGTGGTTTTCTGTTTGTC 60.083 41.667 0.00 0.00 0.00 3.18
3318 4253 3.823873 TGTGAGTGTGGTTTTCTGTTTGT 59.176 39.130 0.00 0.00 0.00 2.83
3319 4254 4.414852 CTGTGAGTGTGGTTTTCTGTTTG 58.585 43.478 0.00 0.00 0.00 2.93
3320 4255 3.119495 GCTGTGAGTGTGGTTTTCTGTTT 60.119 43.478 0.00 0.00 0.00 2.83
3321 4256 2.423538 GCTGTGAGTGTGGTTTTCTGTT 59.576 45.455 0.00 0.00 0.00 3.16
3322 4257 2.017049 GCTGTGAGTGTGGTTTTCTGT 58.983 47.619 0.00 0.00 0.00 3.41
3323 4258 2.016318 TGCTGTGAGTGTGGTTTTCTG 58.984 47.619 0.00 0.00 0.00 3.02
3324 4259 2.092968 TCTGCTGTGAGTGTGGTTTTCT 60.093 45.455 0.00 0.00 0.00 2.52
3325 4260 2.288666 TCTGCTGTGAGTGTGGTTTTC 58.711 47.619 0.00 0.00 0.00 2.29
3326 4261 2.418368 TCTGCTGTGAGTGTGGTTTT 57.582 45.000 0.00 0.00 0.00 2.43
3327 4262 2.158769 TGATCTGCTGTGAGTGTGGTTT 60.159 45.455 0.00 0.00 0.00 3.27
3328 4263 1.417517 TGATCTGCTGTGAGTGTGGTT 59.582 47.619 0.00 0.00 0.00 3.67
3329 4264 1.051008 TGATCTGCTGTGAGTGTGGT 58.949 50.000 0.00 0.00 0.00 4.16
3330 4265 1.802960 GTTGATCTGCTGTGAGTGTGG 59.197 52.381 0.00 0.00 0.00 4.17
3331 4266 1.458445 CGTTGATCTGCTGTGAGTGTG 59.542 52.381 0.00 0.00 0.00 3.82
3332 4267 1.606480 CCGTTGATCTGCTGTGAGTGT 60.606 52.381 0.00 0.00 0.00 3.55
3333 4268 1.073964 CCGTTGATCTGCTGTGAGTG 58.926 55.000 0.00 0.00 0.00 3.51
3334 4269 0.671781 GCCGTTGATCTGCTGTGAGT 60.672 55.000 0.00 0.00 0.00 3.41
3335 4270 1.364626 GGCCGTTGATCTGCTGTGAG 61.365 60.000 0.00 0.00 0.00 3.51
3336 4271 1.375908 GGCCGTTGATCTGCTGTGA 60.376 57.895 0.00 0.00 0.00 3.58
3337 4272 1.672030 TGGCCGTTGATCTGCTGTG 60.672 57.895 0.00 0.00 0.00 3.66
3338 4273 1.672356 GTGGCCGTTGATCTGCTGT 60.672 57.895 0.00 0.00 0.00 4.40
3339 4274 1.236616 TTGTGGCCGTTGATCTGCTG 61.237 55.000 0.00 0.00 0.00 4.41
3340 4275 1.073025 TTGTGGCCGTTGATCTGCT 59.927 52.632 0.00 0.00 0.00 4.24
3341 4276 1.210155 GTTGTGGCCGTTGATCTGC 59.790 57.895 0.00 0.00 0.00 4.26
3342 4277 0.888736 TGGTTGTGGCCGTTGATCTG 60.889 55.000 0.00 0.00 0.00 2.90
3343 4278 0.179004 TTGGTTGTGGCCGTTGATCT 60.179 50.000 0.00 0.00 0.00 2.75
3344 4279 0.671251 TTTGGTTGTGGCCGTTGATC 59.329 50.000 0.00 0.00 0.00 2.92
3345 4280 1.115467 TTTTGGTTGTGGCCGTTGAT 58.885 45.000 0.00 0.00 0.00 2.57
3346 4281 0.895530 TTTTTGGTTGTGGCCGTTGA 59.104 45.000 0.00 0.00 0.00 3.18
3347 4282 1.285578 CTTTTTGGTTGTGGCCGTTG 58.714 50.000 0.00 0.00 0.00 4.10
3348 4283 0.899019 ACTTTTTGGTTGTGGCCGTT 59.101 45.000 0.00 0.00 0.00 4.44
3349 4284 0.899019 AACTTTTTGGTTGTGGCCGT 59.101 45.000 0.00 0.00 0.00 5.68
3350 4285 2.873133 TAACTTTTTGGTTGTGGCCG 57.127 45.000 0.00 0.00 0.00 6.13
3351 4286 4.116961 GTCTTAACTTTTTGGTTGTGGCC 58.883 43.478 0.00 0.00 0.00 5.36
3352 4287 4.749976 TGTCTTAACTTTTTGGTTGTGGC 58.250 39.130 0.00 0.00 0.00 5.01
3353 4288 6.202516 TCTGTCTTAACTTTTTGGTTGTGG 57.797 37.500 0.00 0.00 0.00 4.17
3354 4289 6.127730 ACCTCTGTCTTAACTTTTTGGTTGTG 60.128 38.462 0.00 0.00 0.00 3.33
3355 4290 5.949952 ACCTCTGTCTTAACTTTTTGGTTGT 59.050 36.000 0.00 0.00 0.00 3.32
3356 4291 6.451064 ACCTCTGTCTTAACTTTTTGGTTG 57.549 37.500 0.00 0.00 0.00 3.77
3357 4292 7.114095 TGTACCTCTGTCTTAACTTTTTGGTT 58.886 34.615 0.00 0.00 0.00 3.67
3358 4293 6.655930 TGTACCTCTGTCTTAACTTTTTGGT 58.344 36.000 0.00 0.00 0.00 3.67
3359 4294 7.745620 ATGTACCTCTGTCTTAACTTTTTGG 57.254 36.000 0.00 0.00 0.00 3.28
3360 4295 8.443937 GCTATGTACCTCTGTCTTAACTTTTTG 58.556 37.037 0.00 0.00 0.00 2.44
3361 4296 8.154856 TGCTATGTACCTCTGTCTTAACTTTTT 58.845 33.333 0.00 0.00 0.00 1.94
3362 4297 7.603024 GTGCTATGTACCTCTGTCTTAACTTTT 59.397 37.037 0.00 0.00 0.00 2.27
3363 4298 7.097834 GTGCTATGTACCTCTGTCTTAACTTT 58.902 38.462 0.00 0.00 0.00 2.66
3364 4299 6.351117 GGTGCTATGTACCTCTGTCTTAACTT 60.351 42.308 0.00 0.00 35.44 2.66
3365 4300 5.127356 GGTGCTATGTACCTCTGTCTTAACT 59.873 44.000 0.00 0.00 35.44 2.24
3366 4301 5.349809 GGTGCTATGTACCTCTGTCTTAAC 58.650 45.833 0.00 0.00 35.44 2.01
3367 4302 4.404715 GGGTGCTATGTACCTCTGTCTTAA 59.595 45.833 4.95 0.00 38.37 1.85
3368 4303 3.958798 GGGTGCTATGTACCTCTGTCTTA 59.041 47.826 4.95 0.00 38.37 2.10
3369 4304 2.766828 GGGTGCTATGTACCTCTGTCTT 59.233 50.000 4.95 0.00 38.37 3.01
3370 4305 2.292257 TGGGTGCTATGTACCTCTGTCT 60.292 50.000 4.95 0.00 38.37 3.41
3371 4306 2.101582 CTGGGTGCTATGTACCTCTGTC 59.898 54.545 4.95 0.00 38.37 3.51
3372 4307 2.111384 CTGGGTGCTATGTACCTCTGT 58.889 52.381 4.95 0.00 38.37 3.41
3373 4308 1.414181 CCTGGGTGCTATGTACCTCTG 59.586 57.143 4.95 0.84 38.37 3.35
3374 4309 1.794714 CCTGGGTGCTATGTACCTCT 58.205 55.000 4.95 0.00 38.37 3.69
3375 4310 0.106894 GCCTGGGTGCTATGTACCTC 59.893 60.000 4.95 0.00 38.37 3.85
3376 4311 1.345715 GGCCTGGGTGCTATGTACCT 61.346 60.000 0.00 0.00 38.37 3.08
3377 4312 1.148498 GGCCTGGGTGCTATGTACC 59.852 63.158 0.00 0.00 37.58 3.34
3378 4313 0.254747 TTGGCCTGGGTGCTATGTAC 59.745 55.000 3.32 0.00 0.00 2.90
3379 4314 0.995803 TTTGGCCTGGGTGCTATGTA 59.004 50.000 3.32 0.00 0.00 2.29
3380 4315 0.114168 TTTTGGCCTGGGTGCTATGT 59.886 50.000 3.32 0.00 0.00 2.29
3381 4316 0.532115 GTTTTGGCCTGGGTGCTATG 59.468 55.000 3.32 0.00 0.00 2.23
3382 4317 0.965363 CGTTTTGGCCTGGGTGCTAT 60.965 55.000 3.32 0.00 0.00 2.97
3383 4318 1.602323 CGTTTTGGCCTGGGTGCTA 60.602 57.895 3.32 0.00 0.00 3.49
3384 4319 2.912025 CGTTTTGGCCTGGGTGCT 60.912 61.111 3.32 0.00 0.00 4.40
3385 4320 2.909965 TCGTTTTGGCCTGGGTGC 60.910 61.111 3.32 0.00 0.00 5.01
3386 4321 3.039134 GTCGTTTTGGCCTGGGTG 58.961 61.111 3.32 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.