Multiple sequence alignment - TraesCS6A01G043100

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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 TraesCS6A01G043100 chr6A 100.000 4197 0 0 1 4197 22641384 22645580 0.000000e+00 7751.0
1 TraesCS6A01G043100 chr6A 85.061 328 35 14 3723 4044 37779919 37780238 5.230000e-84 322.0
2 TraesCS6A01G043100 chr6A 77.662 479 93 14 2232 2703 22548125 22548596 3.200000e-71 279.0
3 TraesCS6A01G043100 chr6A 86.243 189 17 4 3254 3433 22630269 22630081 3.310000e-46 196.0
4 TraesCS6A01G043100 chr6A 91.096 146 9 3 3290 3433 22628456 22628313 1.190000e-45 195.0
5 TraesCS6A01G043100 chr6D 94.766 3554 98 35 18 3522 24201443 24197929 0.000000e+00 5452.0
6 TraesCS6A01G043100 chr6D 92.013 313 19 2 2895 3204 24197834 24197525 6.440000e-118 435.0
7 TraesCS6A01G043100 chr6D 87.302 189 15 4 3254 3433 24196174 24195986 1.530000e-49 207.0
8 TraesCS6A01G043100 chr6D 87.113 194 11 7 3254 3433 24197437 24197244 1.530000e-49 207.0
9 TraesCS6A01G043100 chr6D 96.875 96 3 0 3096 3191 24197931 24197836 1.210000e-35 161.0
10 TraesCS6A01G043100 chr6B 93.211 3550 159 34 472 3971 39064714 39061197 0.000000e+00 5145.0
11 TraesCS6A01G043100 chr6B 88.262 443 48 3 17 456 39149697 39149256 1.030000e-145 527.0
12 TraesCS6A01G043100 chr6B 88.547 358 39 2 44 400 39065566 39065210 2.320000e-117 433.0
13 TraesCS6A01G043100 chr6B 76.200 479 100 14 2232 2703 38926731 38927202 1.510000e-59 241.0
14 TraesCS6A01G043100 chr6B 80.682 352 25 24 3180 3522 39056635 39056318 2.520000e-57 233.0
15 TraesCS6A01G043100 chr6B 96.875 96 3 0 3095 3190 39056321 39056226 1.210000e-35 161.0
16 TraesCS6A01G043100 chr2D 76.552 725 135 25 2381 3089 477261199 477260494 8.580000e-97 364.0
17 TraesCS6A01G043100 chr2B 76.731 722 127 27 2381 3083 559189539 559188840 8.580000e-97 364.0
18 TraesCS6A01G043100 chr2B 70.479 376 97 10 2409 2777 581468932 581468564 2.710000e-07 67.6
19 TraesCS6A01G043100 chr2A 76.066 727 135 28 2381 3089 619625133 619624428 4.020000e-90 342.0
20 TraesCS6A01G043100 chr2A 83.036 112 15 4 3456 3564 759312730 759312840 9.600000e-17 99.0
21 TraesCS6A01G043100 chr7A 85.671 328 33 14 3723 4044 67003253 67003572 2.420000e-87 333.0
22 TraesCS6A01G043100 chr7A 85.366 328 34 14 3723 4044 66987454 66987773 1.130000e-85 327.0
23 TraesCS6A01G043100 chr7A 85.366 328 35 13 3723 4044 67266740 67267060 1.130000e-85 327.0
24 TraesCS6A01G043100 chr3A 85.366 328 35 13 3723 4044 709209462 709209782 1.130000e-85 327.0
25 TraesCS6A01G043100 chr3A 86.333 300 29 12 3752 4044 715593250 715592956 2.440000e-82 316.0
26 TraesCS6A01G043100 chr3A 83.891 329 36 16 3723 4044 93320189 93320507 8.820000e-77 298.0
27 TraesCS6A01G043100 chr3A 83.036 112 15 4 3456 3564 740871498 740871388 9.600000e-17 99.0
28 TraesCS6A01G043100 chr1A 85.410 329 33 15 3723 4044 21551259 21551579 1.130000e-85 327.0
29 TraesCS6A01G043100 chr4A 83.841 328 38 15 3723 4044 596079196 596079514 8.820000e-77 298.0
30 TraesCS6A01G043100 chr1B 86.111 72 10 0 3456 3527 17045660 17045589 1.250000e-10 78.7


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 TraesCS6A01G043100 chr6A 22641384 22645580 4196 False 7751.0 7751 100.0000 1 4197 1 chr6A.!!$F2 4196
1 TraesCS6A01G043100 chr6D 24195986 24201443 5457 True 1292.4 5452 91.6138 18 3522 5 chr6D.!!$R1 3504
2 TraesCS6A01G043100 chr6B 39061197 39065566 4369 True 2789.0 5145 90.8790 44 3971 2 chr6B.!!$R3 3927
3 TraesCS6A01G043100 chr2D 477260494 477261199 705 True 364.0 364 76.5520 2381 3089 1 chr2D.!!$R1 708
4 TraesCS6A01G043100 chr2B 559188840 559189539 699 True 364.0 364 76.7310 2381 3083 1 chr2B.!!$R1 702
5 TraesCS6A01G043100 chr2A 619624428 619625133 705 True 342.0 342 76.0660 2381 3089 1 chr2A.!!$R1 708

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
379 381 0.386838 AGAGACGCGATGATGATGCA 59.613 50.0 15.93 0.0 0.0 3.96 F
1653 2088 0.035439 CCATCCAGGCCAAGTACGTT 60.035 55.0 5.01 0.0 0.0 3.99 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1675 2132 0.249699 CTACATCCGCCATTGCCGTA 60.250 55.0 0.00 0.0 0.00 4.02 R
3648 4799 1.109323 GGATTGCCAAGGCCGCTTAT 61.109 55.0 8.89 0.0 41.09 1.73 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
122 123 5.221891 CGGATATAATTTTGGCTCATCCG 57.778 43.478 5.79 5.79 45.00 4.18
278 279 4.621068 TCATTGGCATCAGTCGATTTTC 57.379 40.909 0.00 0.00 0.00 2.29
352 353 2.751913 CGACGAGACCGAGTCAGGG 61.752 68.421 6.78 0.00 39.50 4.45
379 381 0.386838 AGAGACGCGATGATGATGCA 59.613 50.000 15.93 0.00 0.00 3.96
385 387 1.501337 GCGATGATGATGCAAGCGGA 61.501 55.000 0.00 0.00 0.00 5.54
415 417 3.434299 TGCGACTTCCGAAAATCCTAAAC 59.566 43.478 0.00 0.00 41.76 2.01
495 921 1.672356 ATTAGCGCATCGGATGGCC 60.672 57.895 18.96 0.00 0.00 5.36
535 967 1.776333 GCTCTAGATTTTCGACTCGCG 59.224 52.381 0.00 0.00 42.69 5.87
680 1114 2.551887 CACACGAAAATCCATCACACCA 59.448 45.455 0.00 0.00 0.00 4.17
691 1125 5.710513 TCCATCACACCAAATTTCTCTTG 57.289 39.130 0.00 0.00 0.00 3.02
874 1308 1.335496 TGCATCCATCACATCGCATTG 59.665 47.619 0.00 0.00 0.00 2.82
881 1315 3.619483 CCATCACATCGCATTGCAATTTT 59.381 39.130 9.83 0.00 0.00 1.82
895 1329 5.687770 TGCAATTTTCATCGAGAAGACAA 57.312 34.783 0.00 0.00 37.57 3.18
913 1347 0.665835 AACAAGAATTTGCGCGTCCA 59.334 45.000 8.43 0.00 37.85 4.02
914 1348 0.881118 ACAAGAATTTGCGCGTCCAT 59.119 45.000 8.43 0.00 37.85 3.41
915 1349 2.080693 ACAAGAATTTGCGCGTCCATA 58.919 42.857 8.43 0.00 37.85 2.74
916 1350 2.682856 ACAAGAATTTGCGCGTCCATAT 59.317 40.909 8.43 0.00 37.85 1.78
917 1351 3.874543 ACAAGAATTTGCGCGTCCATATA 59.125 39.130 8.43 0.00 37.85 0.86
918 1352 4.515191 ACAAGAATTTGCGCGTCCATATAT 59.485 37.500 8.43 0.00 37.85 0.86
930 1364 8.952278 TGCGCGTCCATATATACATATATATCA 58.048 33.333 8.43 1.47 38.92 2.15
997 1432 0.681243 GAAGGGCCGGAGCTGATTTT 60.681 55.000 5.05 0.00 39.73 1.82
1539 1974 1.219124 GCTCTTCTCCATCGTGCCA 59.781 57.895 0.00 0.00 0.00 4.92
1542 1977 0.247460 TCTTCTCCATCGTGCCACTG 59.753 55.000 0.00 0.00 0.00 3.66
1653 2088 0.035439 CCATCCAGGCCAAGTACGTT 60.035 55.000 5.01 0.00 0.00 3.99
1654 2089 1.369625 CATCCAGGCCAAGTACGTTC 58.630 55.000 5.01 0.00 0.00 3.95
1671 2128 0.246635 TTCCTTCTTCTTCTCCGGCG 59.753 55.000 0.00 0.00 0.00 6.46
1703 2184 5.008019 GCAATGGCGGATGTAGGAATATATG 59.992 44.000 0.00 0.00 0.00 1.78
3000 3502 5.595885 CTTGATACTCTACATGTGGTCCAG 58.404 45.833 9.11 1.50 0.00 3.86
3240 3745 9.936759 ACCATTTTTCTTCTTTTTCTTTACACA 57.063 25.926 0.00 0.00 0.00 3.72
3244 3749 7.678194 TTTCTTCTTTTTCTTTACACATGCG 57.322 32.000 0.00 0.00 0.00 4.73
3245 3750 6.371809 TCTTCTTTTTCTTTACACATGCGT 57.628 33.333 0.00 0.00 0.00 5.24
3300 3812 3.996921 ATGGATGGACATGATAGCTCC 57.003 47.619 0.00 0.00 0.00 4.70
3332 3844 4.957684 AGTACAGTGTTCTAGCCTTGTT 57.042 40.909 0.00 0.00 0.00 2.83
3333 3845 6.349944 GCTAGTACAGTGTTCTAGCCTTGTTA 60.350 42.308 34.63 6.80 46.46 2.41
3427 3939 9.490663 CTAATTTGTATTCTCACGGAATTTGAC 57.509 33.333 0.00 0.00 41.42 3.18
3446 3958 6.445357 TTGACTGGTTTTACTTGTTCTTCC 57.555 37.500 0.00 0.00 0.00 3.46
3537 4049 3.849911 CCGTCGGCATATTCATCTATGT 58.150 45.455 0.00 0.00 32.69 2.29
3539 4051 4.485163 CGTCGGCATATTCATCTATGTCA 58.515 43.478 0.00 0.00 34.12 3.58
3548 4060 4.746535 TTCATCTATGTCAACGGCCTAA 57.253 40.909 0.00 0.00 0.00 2.69
3557 4069 3.314080 TGTCAACGGCCTAAGAAAAACTG 59.686 43.478 0.00 0.00 0.00 3.16
3560 4072 2.140717 ACGGCCTAAGAAAAACTGTCG 58.859 47.619 0.00 0.00 0.00 4.35
3568 4080 1.531149 AGAAAAACTGTCGGCACATCG 59.469 47.619 0.00 0.00 0.00 3.84
3585 4298 1.099295 TCGCCATCTATGTCGACGGT 61.099 55.000 11.62 4.73 0.00 4.83
3587 4300 0.384309 GCCATCTATGTCGACGGTCA 59.616 55.000 11.62 0.00 0.00 4.02
3611 4762 3.675225 CGTCGGCATAGATTGATGTAAGG 59.325 47.826 0.00 0.00 0.00 2.69
3621 4772 0.319083 TGATGTAAGGCGACGGTTGT 59.681 50.000 0.00 0.00 0.00 3.32
3638 4789 4.427312 GGTTGTCGTCGGTATACAAAGAT 58.573 43.478 5.01 0.00 35.08 2.40
3640 4791 3.943958 TGTCGTCGGTATACAAAGATCG 58.056 45.455 5.01 7.68 0.00 3.69
3641 4792 3.374988 TGTCGTCGGTATACAAAGATCGT 59.625 43.478 5.01 0.00 0.00 3.73
3642 4793 3.964970 GTCGTCGGTATACAAAGATCGTC 59.035 47.826 5.01 0.00 0.00 4.20
3646 4797 2.542205 CGGTATACAAAGATCGTCGGCA 60.542 50.000 5.01 0.00 0.00 5.69
3647 4798 3.650139 GGTATACAAAGATCGTCGGCAT 58.350 45.455 5.01 0.00 0.00 4.40
3648 4799 4.614306 CGGTATACAAAGATCGTCGGCATA 60.614 45.833 5.01 0.00 0.00 3.14
3649 4800 5.408356 GGTATACAAAGATCGTCGGCATAT 58.592 41.667 5.01 0.00 0.00 1.78
3650 4801 6.558009 GGTATACAAAGATCGTCGGCATATA 58.442 40.000 5.01 0.00 0.00 0.86
3653 4804 3.741344 ACAAAGATCGTCGGCATATAAGC 59.259 43.478 0.00 0.00 0.00 3.09
3654 4805 2.264109 AGATCGTCGGCATATAAGCG 57.736 50.000 0.00 0.00 34.64 4.68
3655 4806 1.135373 AGATCGTCGGCATATAAGCGG 60.135 52.381 1.43 1.43 36.31 5.52
3656 4807 0.736325 ATCGTCGGCATATAAGCGGC 60.736 55.000 2.90 0.00 35.13 6.53
3660 4811 0.602638 TCGGCATATAAGCGGCCTTG 60.603 55.000 0.00 0.00 45.53 3.61
3661 4812 1.577328 CGGCATATAAGCGGCCTTGG 61.577 60.000 0.00 0.00 45.53 3.61
3662 4813 1.581447 GCATATAAGCGGCCTTGGC 59.419 57.895 0.00 2.49 32.47 4.52
3663 4814 1.172180 GCATATAAGCGGCCTTGGCA 61.172 55.000 14.04 0.00 32.47 4.92
3664 4815 1.317613 CATATAAGCGGCCTTGGCAA 58.682 50.000 14.04 0.00 32.47 4.52
3665 4816 1.888512 CATATAAGCGGCCTTGGCAAT 59.111 47.619 14.04 0.00 32.47 3.56
3666 4817 1.604604 TATAAGCGGCCTTGGCAATC 58.395 50.000 14.04 0.00 32.47 2.67
3667 4818 1.109323 ATAAGCGGCCTTGGCAATCC 61.109 55.000 14.04 4.44 32.47 3.01
3673 4824 2.115291 GCCTTGGCAATCCGGTCTC 61.115 63.158 6.79 0.00 34.14 3.36
3675 4826 1.299648 CTTGGCAATCCGGTCTCCA 59.700 57.895 0.00 2.12 34.14 3.86
3689 4840 3.649277 CTCCAAGGGTCGGCTGACG 62.649 68.421 19.26 0.00 46.49 4.35
3704 4855 2.440501 CTGACGCCGTCAAATAAATGC 58.559 47.619 21.56 0.00 42.26 3.56
3712 4863 3.764885 GTCAAATAAATGCTGACGGCT 57.235 42.857 7.96 0.00 42.39 5.52
3830 5319 7.971455 ACTCTTCTAAACTTAAACACACACAC 58.029 34.615 0.00 0.00 0.00 3.82
3833 5322 8.784994 TCTTCTAAACTTAAACACACACACAAA 58.215 29.630 0.00 0.00 0.00 2.83
3834 5323 9.567848 CTTCTAAACTTAAACACACACACAAAT 57.432 29.630 0.00 0.00 0.00 2.32
3836 5325 9.347934 TCTAAACTTAAACACACACACAAATTG 57.652 29.630 0.00 0.00 0.00 2.32
3859 5799 8.441312 TTGTATATCGTTTGGGGTAGAATTTC 57.559 34.615 0.00 0.00 0.00 2.17
3916 5959 5.590104 TGAGTGTGTTACAAATGTGATCG 57.410 39.130 0.00 0.00 0.00 3.69
3918 5961 3.120683 AGTGTGTTACAAATGTGATCGCG 60.121 43.478 0.00 0.00 0.00 5.87
3938 5981 6.201517 TCGCGTGTACTTTTACATATAGGTC 58.798 40.000 5.77 0.00 40.40 3.85
4024 6067 9.933723 ATGGTTTTTAATCAGAATCTTGAAAGG 57.066 29.630 0.00 0.00 0.00 3.11
4025 6068 9.142014 TGGTTTTTAATCAGAATCTTGAAAGGA 57.858 29.630 0.00 0.00 0.00 3.36
4034 6077 8.868522 TCAGAATCTTGAAAGGATTATGTTGT 57.131 30.769 9.71 0.00 40.83 3.32
4035 6078 9.958180 TCAGAATCTTGAAAGGATTATGTTGTA 57.042 29.630 9.71 0.00 40.83 2.41
4046 6089 9.793259 AAAGGATTATGTTGTATACTATGTGGG 57.207 33.333 4.17 0.00 0.00 4.61
4047 6090 8.736097 AGGATTATGTTGTATACTATGTGGGA 57.264 34.615 4.17 0.00 0.00 4.37
4048 6091 9.166222 AGGATTATGTTGTATACTATGTGGGAA 57.834 33.333 4.17 0.00 0.00 3.97
4049 6092 9.959721 GGATTATGTTGTATACTATGTGGGAAT 57.040 33.333 4.17 0.00 0.00 3.01
4055 6098 8.094548 TGTTGTATACTATGTGGGAATCTATGC 58.905 37.037 4.17 0.00 0.00 3.14
4056 6099 7.790782 TGTATACTATGTGGGAATCTATGCA 57.209 36.000 4.17 0.00 0.00 3.96
4057 6100 8.201242 TGTATACTATGTGGGAATCTATGCAA 57.799 34.615 4.17 0.00 0.00 4.08
4058 6101 8.655901 TGTATACTATGTGGGAATCTATGCAAA 58.344 33.333 4.17 0.00 0.00 3.68
4059 6102 9.155975 GTATACTATGTGGGAATCTATGCAAAG 57.844 37.037 0.00 0.00 0.00 2.77
4060 6103 6.252599 ACTATGTGGGAATCTATGCAAAGA 57.747 37.500 0.00 0.00 0.00 2.52
4061 6104 6.294473 ACTATGTGGGAATCTATGCAAAGAG 58.706 40.000 0.00 0.00 0.00 2.85
4062 6105 3.282021 TGTGGGAATCTATGCAAAGAGC 58.718 45.455 0.00 0.00 45.96 4.09
4063 6106 2.620585 GTGGGAATCTATGCAAAGAGCC 59.379 50.000 0.00 0.00 44.83 4.70
4064 6107 2.511218 TGGGAATCTATGCAAAGAGCCT 59.489 45.455 0.00 0.00 44.83 4.58
4065 6108 2.883386 GGGAATCTATGCAAAGAGCCTG 59.117 50.000 0.00 0.00 44.83 4.85
4066 6109 2.883386 GGAATCTATGCAAAGAGCCTGG 59.117 50.000 0.00 0.00 44.83 4.45
4067 6110 1.978454 ATCTATGCAAAGAGCCTGGC 58.022 50.000 11.65 11.65 44.83 4.85
4068 6111 0.107017 TCTATGCAAAGAGCCTGGCC 60.107 55.000 16.57 7.08 44.83 5.36
4069 6112 1.442526 CTATGCAAAGAGCCTGGCCG 61.443 60.000 16.57 0.00 44.83 6.13
4070 6113 2.196997 TATGCAAAGAGCCTGGCCGT 62.197 55.000 16.57 0.00 44.83 5.68
4071 6114 3.435186 GCAAAGAGCCTGGCCGTC 61.435 66.667 16.57 7.51 37.23 4.79
4072 6115 2.032528 CAAAGAGCCTGGCCGTCA 59.967 61.111 16.57 0.00 0.00 4.35
4073 6116 2.037136 CAAAGAGCCTGGCCGTCAG 61.037 63.158 16.57 0.00 43.00 3.51
4074 6117 3.909086 AAAGAGCCTGGCCGTCAGC 62.909 63.158 16.57 0.00 42.05 4.26
4076 6119 4.479993 GAGCCTGGCCGTCAGCAT 62.480 66.667 16.57 0.00 46.50 3.79
4077 6120 3.083349 AGCCTGGCCGTCAGCATA 61.083 61.111 16.57 0.00 46.50 3.14
4078 6121 2.590007 GCCTGGCCGTCAGCATAG 60.590 66.667 7.66 0.00 46.50 2.23
4079 6122 2.903357 CCTGGCCGTCAGCATAGT 59.097 61.111 0.00 0.00 46.50 2.12
4080 6123 1.221840 CCTGGCCGTCAGCATAGTT 59.778 57.895 0.00 0.00 46.50 2.24
4081 6124 0.811616 CCTGGCCGTCAGCATAGTTC 60.812 60.000 0.00 0.00 46.50 3.01
4082 6125 0.811616 CTGGCCGTCAGCATAGTTCC 60.812 60.000 0.00 0.00 46.50 3.62
4083 6126 1.220749 GGCCGTCAGCATAGTTCCA 59.779 57.895 0.00 0.00 46.50 3.53
4084 6127 0.392461 GGCCGTCAGCATAGTTCCAA 60.392 55.000 0.00 0.00 46.50 3.53
4085 6128 1.009829 GCCGTCAGCATAGTTCCAAG 58.990 55.000 0.00 0.00 42.97 3.61
4086 6129 1.009829 CCGTCAGCATAGTTCCAAGC 58.990 55.000 0.00 0.00 0.00 4.01
4087 6130 1.009829 CGTCAGCATAGTTCCAAGCC 58.990 55.000 0.00 0.00 0.00 4.35
4088 6131 1.675714 CGTCAGCATAGTTCCAAGCCA 60.676 52.381 0.00 0.00 0.00 4.75
4089 6132 1.740025 GTCAGCATAGTTCCAAGCCAC 59.260 52.381 0.00 0.00 0.00 5.01
4090 6133 0.729116 CAGCATAGTTCCAAGCCACG 59.271 55.000 0.00 0.00 0.00 4.94
4091 6134 0.613260 AGCATAGTTCCAAGCCACGA 59.387 50.000 0.00 0.00 0.00 4.35
4092 6135 1.210478 AGCATAGTTCCAAGCCACGAT 59.790 47.619 0.00 0.00 0.00 3.73
4093 6136 1.331756 GCATAGTTCCAAGCCACGATG 59.668 52.381 0.00 0.00 0.00 3.84
4094 6137 1.331756 CATAGTTCCAAGCCACGATGC 59.668 52.381 0.00 0.00 0.00 3.91
4095 6138 0.323302 TAGTTCCAAGCCACGATGCA 59.677 50.000 0.00 0.00 0.00 3.96
4096 6139 1.210155 GTTCCAAGCCACGATGCAC 59.790 57.895 0.00 0.00 0.00 4.57
4097 6140 1.971167 TTCCAAGCCACGATGCACC 60.971 57.895 0.00 0.00 0.00 5.01
4098 6141 2.672651 CCAAGCCACGATGCACCA 60.673 61.111 0.00 0.00 0.00 4.17
4099 6142 2.693762 CCAAGCCACGATGCACCAG 61.694 63.158 0.00 0.00 0.00 4.00
4100 6143 2.360350 AAGCCACGATGCACCAGG 60.360 61.111 0.00 0.00 0.00 4.45
4101 6144 3.925630 AAGCCACGATGCACCAGGG 62.926 63.158 0.00 0.00 0.00 4.45
4115 6158 3.334891 AGGGGCCGCCATGTGTTA 61.335 61.111 17.56 0.00 0.00 2.41
4116 6159 2.828549 GGGGCCGCCATGTGTTAG 60.829 66.667 12.58 0.00 0.00 2.34
4117 6160 2.045340 GGGCCGCCATGTGTTAGT 60.045 61.111 12.58 0.00 0.00 2.24
4118 6161 1.677633 GGGCCGCCATGTGTTAGTT 60.678 57.895 12.58 0.00 0.00 2.24
4119 6162 1.248101 GGGCCGCCATGTGTTAGTTT 61.248 55.000 12.58 0.00 0.00 2.66
4120 6163 0.601057 GGCCGCCATGTGTTAGTTTT 59.399 50.000 3.91 0.00 0.00 2.43
4121 6164 1.402325 GGCCGCCATGTGTTAGTTTTC 60.402 52.381 3.91 0.00 0.00 2.29
4122 6165 1.402325 GCCGCCATGTGTTAGTTTTCC 60.402 52.381 0.00 0.00 0.00 3.13
4123 6166 1.135803 CCGCCATGTGTTAGTTTTCCG 60.136 52.381 0.00 0.00 0.00 4.30
4124 6167 1.727857 CGCCATGTGTTAGTTTTCCGC 60.728 52.381 0.00 0.00 0.00 5.54
4125 6168 1.268352 GCCATGTGTTAGTTTTCCGCA 59.732 47.619 0.00 0.00 0.00 5.69
4126 6169 2.668279 GCCATGTGTTAGTTTTCCGCAG 60.668 50.000 0.00 0.00 0.00 5.18
4127 6170 2.811431 CCATGTGTTAGTTTTCCGCAGA 59.189 45.455 0.00 0.00 0.00 4.26
4128 6171 3.364964 CCATGTGTTAGTTTTCCGCAGAC 60.365 47.826 0.00 0.00 0.00 3.51
4129 6172 2.907634 TGTGTTAGTTTTCCGCAGACA 58.092 42.857 0.00 0.00 0.00 3.41
4130 6173 2.869801 TGTGTTAGTTTTCCGCAGACAG 59.130 45.455 0.00 0.00 0.00 3.51
4131 6174 2.870411 GTGTTAGTTTTCCGCAGACAGT 59.130 45.455 0.00 0.00 0.00 3.55
4132 6175 3.059800 GTGTTAGTTTTCCGCAGACAGTC 60.060 47.826 0.00 0.00 0.00 3.51
4133 6176 2.060326 TAGTTTTCCGCAGACAGTCG 57.940 50.000 0.00 0.00 0.00 4.18
4134 6177 0.104304 AGTTTTCCGCAGACAGTCGT 59.896 50.000 0.00 0.00 0.00 4.34
4135 6178 0.507358 GTTTTCCGCAGACAGTCGTC 59.493 55.000 0.00 0.00 42.95 4.20
4136 6179 0.103390 TTTTCCGCAGACAGTCGTCA 59.897 50.000 0.00 0.00 45.23 4.35
4137 6180 0.318699 TTTCCGCAGACAGTCGTCAG 60.319 55.000 0.00 0.00 45.23 3.51
4142 6185 2.746997 CAGACAGTCGTCAGCATGG 58.253 57.895 0.00 0.00 45.23 3.66
4143 6186 0.738762 CAGACAGTCGTCAGCATGGG 60.739 60.000 0.00 0.00 45.23 4.00
4144 6187 1.188219 AGACAGTCGTCAGCATGGGT 61.188 55.000 0.00 0.00 45.23 4.51
4145 6188 1.004560 ACAGTCGTCAGCATGGGTG 60.005 57.895 0.00 0.00 36.16 4.61
4146 6189 1.742880 CAGTCGTCAGCATGGGTGG 60.743 63.158 0.00 0.00 36.16 4.61
4147 6190 2.436646 GTCGTCAGCATGGGTGGG 60.437 66.667 0.00 0.00 36.16 4.61
4148 6191 2.606213 TCGTCAGCATGGGTGGGA 60.606 61.111 0.00 0.00 36.16 4.37
4149 6192 2.220586 TCGTCAGCATGGGTGGGAA 61.221 57.895 0.00 0.00 36.16 3.97
4150 6193 1.077501 CGTCAGCATGGGTGGGAAT 60.078 57.895 0.00 0.00 36.16 3.01
4151 6194 1.097547 CGTCAGCATGGGTGGGAATC 61.098 60.000 0.00 0.00 36.16 2.52
4152 6195 0.257039 GTCAGCATGGGTGGGAATCT 59.743 55.000 0.00 0.00 36.16 2.40
4153 6196 1.490490 GTCAGCATGGGTGGGAATCTA 59.510 52.381 0.00 0.00 36.16 1.98
4154 6197 2.107204 GTCAGCATGGGTGGGAATCTAT 59.893 50.000 0.00 0.00 36.16 1.98
4155 6198 2.107031 TCAGCATGGGTGGGAATCTATG 59.893 50.000 0.00 0.00 36.16 2.23
4156 6199 1.202976 AGCATGGGTGGGAATCTATGC 60.203 52.381 0.00 0.00 40.74 3.14
4157 6200 1.202976 GCATGGGTGGGAATCTATGCT 60.203 52.381 0.00 0.00 38.23 3.79
4158 6201 2.511659 CATGGGTGGGAATCTATGCTG 58.488 52.381 0.00 0.00 0.00 4.41
4159 6202 1.891933 TGGGTGGGAATCTATGCTGA 58.108 50.000 0.00 0.00 0.00 4.26
4160 6203 2.421725 TGGGTGGGAATCTATGCTGAT 58.578 47.619 0.00 0.00 0.00 2.90
4161 6204 3.597182 TGGGTGGGAATCTATGCTGATA 58.403 45.455 0.00 0.00 0.00 2.15
4162 6205 3.584406 TGGGTGGGAATCTATGCTGATAG 59.416 47.826 0.00 0.00 33.90 2.08
4163 6206 3.604582 GGTGGGAATCTATGCTGATAGC 58.395 50.000 0.00 0.00 42.82 2.97
4172 6215 3.724494 GCTGATAGCAAGGCCGTC 58.276 61.111 0.00 0.00 41.89 4.79
4173 6216 2.240500 GCTGATAGCAAGGCCGTCG 61.241 63.158 0.00 0.00 41.89 5.12
4174 6217 1.437573 CTGATAGCAAGGCCGTCGA 59.562 57.895 0.00 0.00 0.00 4.20
4175 6218 0.872021 CTGATAGCAAGGCCGTCGAC 60.872 60.000 5.18 5.18 0.00 4.20
4176 6219 1.141019 GATAGCAAGGCCGTCGACA 59.859 57.895 17.16 0.00 0.00 4.35
4177 6220 0.249489 GATAGCAAGGCCGTCGACAT 60.249 55.000 17.16 0.00 0.00 3.06
4178 6221 1.000607 GATAGCAAGGCCGTCGACATA 60.001 52.381 17.16 0.00 0.00 2.29
4179 6222 0.101759 TAGCAAGGCCGTCGACATAC 59.898 55.000 17.16 4.27 0.00 2.39
4180 6223 1.153628 GCAAGGCCGTCGACATACT 60.154 57.895 17.16 6.71 0.00 2.12
4181 6224 0.101759 GCAAGGCCGTCGACATACTA 59.898 55.000 17.16 0.00 0.00 1.82
4182 6225 1.269621 GCAAGGCCGTCGACATACTAT 60.270 52.381 17.16 0.00 0.00 2.12
4183 6226 2.802057 GCAAGGCCGTCGACATACTATT 60.802 50.000 17.16 0.00 0.00 1.73
4184 6227 2.794910 CAAGGCCGTCGACATACTATTG 59.205 50.000 17.16 8.37 0.00 1.90
4185 6228 2.304092 AGGCCGTCGACATACTATTGA 58.696 47.619 17.16 0.00 0.00 2.57
4186 6229 2.034305 AGGCCGTCGACATACTATTGAC 59.966 50.000 17.16 0.00 0.00 3.18
4187 6230 2.223641 GGCCGTCGACATACTATTGACA 60.224 50.000 17.16 0.00 31.66 3.58
4188 6231 2.787680 GCCGTCGACATACTATTGACAC 59.212 50.000 17.16 0.00 31.66 3.67
4189 6232 3.732774 GCCGTCGACATACTATTGACACA 60.733 47.826 17.16 0.00 31.66 3.72
4190 6233 4.607955 CCGTCGACATACTATTGACACAT 58.392 43.478 17.16 0.00 31.66 3.21
4191 6234 4.441087 CCGTCGACATACTATTGACACATG 59.559 45.833 17.16 0.00 31.66 3.21
4192 6235 4.441087 CGTCGACATACTATTGACACATGG 59.559 45.833 17.16 0.00 31.66 3.66
4193 6236 4.209288 GTCGACATACTATTGACACATGGC 59.791 45.833 11.55 0.00 31.66 4.40
4194 6237 3.494626 CGACATACTATTGACACATGGCC 59.505 47.826 0.00 0.00 0.00 5.36
4195 6238 4.450976 GACATACTATTGACACATGGCCA 58.549 43.478 8.56 8.56 0.00 5.36
4196 6239 4.199310 ACATACTATTGACACATGGCCAC 58.801 43.478 8.16 0.00 0.00 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.494103 TCTCAGCCGAGATGGAACAAAGG 62.494 52.174 0.00 0.00 43.55 3.11
9 10 2.354103 TCTCAGCCGAGATGGAACAAAG 60.354 50.000 0.00 0.00 43.55 2.77
10 11 1.623311 TCTCAGCCGAGATGGAACAAA 59.377 47.619 0.00 0.00 43.55 2.83
11 12 1.266178 TCTCAGCCGAGATGGAACAA 58.734 50.000 0.00 0.00 43.55 2.83
12 13 2.976099 TCTCAGCCGAGATGGAACA 58.024 52.632 0.00 0.00 43.55 3.18
196 197 7.385205 AGAATGTGGTATTTCGACATACTATGC 59.615 37.037 18.50 10.92 42.94 3.14
197 198 8.818141 AGAATGTGGTATTTCGACATACTATG 57.182 34.615 18.50 0.00 42.94 2.23
299 300 1.809619 CCGGCGTTCGTCATGTCAT 60.810 57.895 6.01 0.00 37.11 3.06
367 368 0.939419 TTCCGCTTGCATCATCATCG 59.061 50.000 0.00 0.00 0.00 3.84
379 381 1.891919 TCGCAGCTTGTTTCCGCTT 60.892 52.632 0.00 0.00 33.45 4.68
385 387 0.531974 TCGGAAGTCGCAGCTTGTTT 60.532 50.000 0.00 0.00 39.05 2.83
495 921 1.060553 CGTCGGATCATCAAACCAACG 59.939 52.381 0.00 0.00 0.00 4.10
680 1114 5.292101 CCGATCGCTAAGACAAGAGAAATTT 59.708 40.000 10.32 0.00 0.00 1.82
691 1125 1.852942 TGATTGCCGATCGCTAAGAC 58.147 50.000 10.32 6.19 37.60 3.01
874 1308 5.451908 TGTTGTCTTCTCGATGAAAATTGC 58.548 37.500 0.00 0.00 33.79 3.56
881 1315 6.566564 GCAAATTCTTGTTGTCTTCTCGATGA 60.567 38.462 0.00 0.00 34.79 2.92
895 1329 0.881118 ATGGACGCGCAAATTCTTGT 59.119 45.000 5.73 0.00 34.79 3.16
943 1377 2.048603 GCCCACCTGCCTGATTGTC 61.049 63.158 0.00 0.00 0.00 3.18
990 1424 3.176708 CGCTTGCTCCATCAAAAATCAG 58.823 45.455 0.00 0.00 0.00 2.90
997 1432 1.078214 CCTCCGCTTGCTCCATCAA 60.078 57.895 0.00 0.00 0.00 2.57
1539 1974 6.270463 AGCTAATGATCATGATCTTCCTCAGT 59.730 38.462 30.65 16.33 38.60 3.41
1542 1977 7.041107 GGTAGCTAATGATCATGATCTTCCTC 58.959 42.308 30.65 18.72 38.60 3.71
1653 2088 0.611062 TCGCCGGAGAAGAAGAAGGA 60.611 55.000 5.05 0.00 0.00 3.36
1654 2089 0.458716 GTCGCCGGAGAAGAAGAAGG 60.459 60.000 10.32 0.00 0.00 3.46
1671 2128 3.560278 CCGCCATTGCCGTACGTC 61.560 66.667 15.21 0.71 0.00 4.34
1675 2132 0.249699 CTACATCCGCCATTGCCGTA 60.250 55.000 0.00 0.00 0.00 4.02
1676 2133 1.523711 CTACATCCGCCATTGCCGT 60.524 57.895 0.00 0.00 0.00 5.68
1679 2136 1.609208 ATTCCTACATCCGCCATTGC 58.391 50.000 0.00 0.00 0.00 3.56
1703 2184 6.347563 CCATTGCCAACATCAAACAAACATAC 60.348 38.462 0.00 0.00 0.00 2.39
1721 2202 4.143333 CTGCTGCCTGCCATTGCC 62.143 66.667 0.00 0.00 42.00 4.52
3239 3744 3.242252 TGAACATATAACGTGCACGCATG 60.242 43.478 37.35 31.44 44.43 4.06
3240 3745 2.933260 TGAACATATAACGTGCACGCAT 59.067 40.909 37.35 30.11 44.43 4.73
3241 3746 2.338500 TGAACATATAACGTGCACGCA 58.662 42.857 37.35 26.04 44.43 5.24
3243 3748 4.770351 TCATGAACATATAACGTGCACG 57.230 40.909 35.99 35.99 46.33 5.34
3244 3749 5.236263 TGGATCATGAACATATAACGTGCAC 59.764 40.000 6.82 6.82 0.00 4.57
3245 3750 5.363939 TGGATCATGAACATATAACGTGCA 58.636 37.500 0.00 0.00 0.00 4.57
3246 3751 5.922739 TGGATCATGAACATATAACGTGC 57.077 39.130 0.00 0.00 0.00 5.34
3300 3812 6.026947 AGAACACTGTACTAGCTAACCTTG 57.973 41.667 0.00 0.00 0.00 3.61
3427 3939 3.564225 AGCGGAAGAACAAGTAAAACCAG 59.436 43.478 0.00 0.00 0.00 4.00
3446 3958 2.050350 TCCGGTAGTGGAGGAAGCG 61.050 63.158 0.00 0.00 33.05 4.68
3528 4040 3.958147 TCTTAGGCCGTTGACATAGATGA 59.042 43.478 0.00 0.00 0.00 2.92
3537 4049 3.547746 ACAGTTTTTCTTAGGCCGTTGA 58.452 40.909 0.00 0.00 0.00 3.18
3539 4051 2.546789 CGACAGTTTTTCTTAGGCCGTT 59.453 45.455 0.00 0.00 0.00 4.44
3548 4060 1.531149 CGATGTGCCGACAGTTTTTCT 59.469 47.619 0.00 0.00 34.87 2.52
3585 4298 3.005791 ACATCAATCTATGCCGACGATGA 59.994 43.478 0.00 0.00 33.58 2.92
3587 4300 3.667497 ACATCAATCTATGCCGACGAT 57.333 42.857 0.00 0.00 0.00 3.73
3621 4772 3.302675 CGACGATCTTTGTATACCGACGA 60.303 47.826 13.18 1.87 37.37 4.20
3632 4783 3.181540 CGCTTATATGCCGACGATCTTTG 60.182 47.826 0.00 0.00 0.00 2.77
3638 4789 1.372499 GCCGCTTATATGCCGACGA 60.372 57.895 0.00 0.00 0.00 4.20
3640 4791 3.562635 GGCCGCTTATATGCCGAC 58.437 61.111 5.11 0.00 35.08 4.79
3646 4797 2.162681 GATTGCCAAGGCCGCTTATAT 58.837 47.619 8.89 0.00 41.09 0.86
3647 4798 1.604604 GATTGCCAAGGCCGCTTATA 58.395 50.000 8.89 0.00 41.09 0.98
3648 4799 1.109323 GGATTGCCAAGGCCGCTTAT 61.109 55.000 8.89 0.00 41.09 1.73
3649 4800 1.752694 GGATTGCCAAGGCCGCTTA 60.753 57.895 8.89 0.00 41.09 3.09
3650 4801 3.070576 GGATTGCCAAGGCCGCTT 61.071 61.111 8.89 0.00 41.09 4.68
3654 4805 3.140814 GACCGGATTGCCAAGGCC 61.141 66.667 9.46 0.00 41.09 5.19
3655 4806 2.044946 AGACCGGATTGCCAAGGC 60.045 61.111 9.46 3.61 42.35 4.35
3656 4807 1.452108 GGAGACCGGATTGCCAAGG 60.452 63.158 9.46 0.00 0.00 3.61
3660 4811 1.452108 CCTTGGAGACCGGATTGCC 60.452 63.158 9.46 4.26 0.00 4.52
3661 4812 1.452108 CCCTTGGAGACCGGATTGC 60.452 63.158 9.46 0.63 0.00 3.56
3662 4813 0.107654 GACCCTTGGAGACCGGATTG 60.108 60.000 9.46 0.00 0.00 2.67
3663 4814 1.614241 CGACCCTTGGAGACCGGATT 61.614 60.000 9.46 0.00 0.00 3.01
3664 4815 2.058595 CGACCCTTGGAGACCGGAT 61.059 63.158 9.46 0.00 0.00 4.18
3665 4816 2.678934 CGACCCTTGGAGACCGGA 60.679 66.667 9.46 0.00 0.00 5.14
3666 4817 3.771160 CCGACCCTTGGAGACCGG 61.771 72.222 0.00 0.00 0.00 5.28
3667 4818 4.452733 GCCGACCCTTGGAGACCG 62.453 72.222 0.00 0.00 0.00 4.79
3668 4819 3.003763 AGCCGACCCTTGGAGACC 61.004 66.667 0.00 0.00 0.00 3.85
3669 4820 2.266055 CAGCCGACCCTTGGAGAC 59.734 66.667 0.00 0.00 0.00 3.36
3704 4855 1.521010 CTGCCATCAGAGCCGTCAG 60.521 63.158 0.00 0.00 42.95 3.51
3710 4861 2.894387 GACGGCTGCCATCAGAGC 60.894 66.667 20.29 0.00 42.95 4.09
3712 4863 4.147449 CCGACGGCTGCCATCAGA 62.147 66.667 20.29 0.00 42.95 3.27
3808 5297 8.958175 TTTGTGTGTGTGTTTAAGTTTAGAAG 57.042 30.769 0.00 0.00 0.00 2.85
3809 5298 9.915629 AATTTGTGTGTGTGTTTAAGTTTAGAA 57.084 25.926 0.00 0.00 0.00 2.10
3819 5308 7.644490 ACGATATACAATTTGTGTGTGTGTTT 58.356 30.769 12.30 0.00 41.89 2.83
3824 5313 6.526325 CCCAAACGATATACAATTTGTGTGTG 59.474 38.462 12.30 6.28 41.89 3.82
3830 5319 7.795482 TCTACCCCAAACGATATACAATTTG 57.205 36.000 0.00 0.00 32.89 2.32
3833 5322 8.990163 AAATTCTACCCCAAACGATATACAAT 57.010 30.769 0.00 0.00 0.00 2.71
3834 5323 7.499895 GGAAATTCTACCCCAAACGATATACAA 59.500 37.037 0.00 0.00 0.00 2.41
3836 5325 6.993902 TGGAAATTCTACCCCAAACGATATAC 59.006 38.462 0.00 0.00 0.00 1.47
3897 5940 3.152983 CGCGATCACATTTGTAACACAC 58.847 45.455 0.00 0.00 0.00 3.82
3905 5948 3.722555 AAGTACACGCGATCACATTTG 57.277 42.857 15.93 0.00 0.00 2.32
3916 5959 6.510536 AGGACCTATATGTAAAAGTACACGC 58.489 40.000 0.00 0.00 42.99 5.34
3998 6041 9.933723 CCTTTCAAGATTCTGATTAAAAACCAT 57.066 29.630 0.00 0.00 0.00 3.55
3999 6042 9.142014 TCCTTTCAAGATTCTGATTAAAAACCA 57.858 29.630 0.00 0.00 0.00 3.67
4008 6051 9.471702 ACAACATAATCCTTTCAAGATTCTGAT 57.528 29.630 6.05 0.00 35.59 2.90
4009 6052 8.868522 ACAACATAATCCTTTCAAGATTCTGA 57.131 30.769 6.05 0.00 35.59 3.27
4020 6063 9.793259 CCCACATAGTATACAACATAATCCTTT 57.207 33.333 5.50 0.00 0.00 3.11
4021 6064 9.166222 TCCCACATAGTATACAACATAATCCTT 57.834 33.333 5.50 0.00 0.00 3.36
4022 6065 8.736097 TCCCACATAGTATACAACATAATCCT 57.264 34.615 5.50 0.00 0.00 3.24
4023 6066 9.959721 ATTCCCACATAGTATACAACATAATCC 57.040 33.333 5.50 0.00 0.00 3.01
4029 6072 8.094548 GCATAGATTCCCACATAGTATACAACA 58.905 37.037 5.50 0.00 0.00 3.33
4030 6073 8.094548 TGCATAGATTCCCACATAGTATACAAC 58.905 37.037 5.50 0.00 0.00 3.32
4031 6074 8.201242 TGCATAGATTCCCACATAGTATACAA 57.799 34.615 5.50 0.00 0.00 2.41
4032 6075 7.790782 TGCATAGATTCCCACATAGTATACA 57.209 36.000 5.50 0.00 0.00 2.29
4033 6076 9.155975 CTTTGCATAGATTCCCACATAGTATAC 57.844 37.037 0.00 0.00 0.00 1.47
4034 6077 9.100197 TCTTTGCATAGATTCCCACATAGTATA 57.900 33.333 2.39 0.00 0.00 1.47
4035 6078 7.977818 TCTTTGCATAGATTCCCACATAGTAT 58.022 34.615 2.39 0.00 0.00 2.12
4036 6079 7.373617 TCTTTGCATAGATTCCCACATAGTA 57.626 36.000 2.39 0.00 0.00 1.82
4037 6080 6.252599 TCTTTGCATAGATTCCCACATAGT 57.747 37.500 2.39 0.00 0.00 2.12
4038 6081 5.180868 GCTCTTTGCATAGATTCCCACATAG 59.819 44.000 7.35 0.00 42.31 2.23
4039 6082 5.065914 GCTCTTTGCATAGATTCCCACATA 58.934 41.667 7.35 0.00 42.31 2.29
4040 6083 3.887716 GCTCTTTGCATAGATTCCCACAT 59.112 43.478 7.35 0.00 42.31 3.21
4041 6084 3.282021 GCTCTTTGCATAGATTCCCACA 58.718 45.455 7.35 0.00 42.31 4.17
4042 6085 2.620585 GGCTCTTTGCATAGATTCCCAC 59.379 50.000 7.35 0.00 45.15 4.61
4043 6086 2.511218 AGGCTCTTTGCATAGATTCCCA 59.489 45.455 16.47 0.00 45.15 4.37
4044 6087 2.883386 CAGGCTCTTTGCATAGATTCCC 59.117 50.000 16.47 12.94 45.15 3.97
4045 6088 2.883386 CCAGGCTCTTTGCATAGATTCC 59.117 50.000 7.35 11.32 45.15 3.01
4046 6089 2.292845 GCCAGGCTCTTTGCATAGATTC 59.707 50.000 3.29 3.53 45.15 2.52
4047 6090 2.305009 GCCAGGCTCTTTGCATAGATT 58.695 47.619 3.29 0.00 45.15 2.40
4048 6091 1.478288 GGCCAGGCTCTTTGCATAGAT 60.478 52.381 12.43 0.00 45.15 1.98
4049 6092 0.107017 GGCCAGGCTCTTTGCATAGA 60.107 55.000 12.43 6.69 45.15 1.98
4050 6093 1.442526 CGGCCAGGCTCTTTGCATAG 61.443 60.000 12.43 0.00 45.15 2.23
4051 6094 1.451927 CGGCCAGGCTCTTTGCATA 60.452 57.895 12.43 0.00 45.15 3.14
4052 6095 2.753043 CGGCCAGGCTCTTTGCAT 60.753 61.111 12.43 0.00 45.15 3.96
4053 6096 4.269523 ACGGCCAGGCTCTTTGCA 62.270 61.111 12.43 0.00 45.15 4.08
4054 6097 3.435186 GACGGCCAGGCTCTTTGC 61.435 66.667 12.43 0.00 41.94 3.68
4055 6098 2.032528 TGACGGCCAGGCTCTTTG 59.967 61.111 12.43 0.00 0.00 2.77
4056 6099 2.348998 CTGACGGCCAGGCTCTTT 59.651 61.111 12.43 0.00 39.23 2.52
4057 6100 4.400961 GCTGACGGCCAGGCTCTT 62.401 66.667 12.43 0.00 43.13 2.85
4059 6102 2.985512 CTATGCTGACGGCCAGGCTC 62.986 65.000 12.43 2.02 43.13 4.70
4060 6103 3.083349 TATGCTGACGGCCAGGCT 61.083 61.111 12.43 0.00 43.13 4.58
4061 6104 2.590007 CTATGCTGACGGCCAGGC 60.590 66.667 1.26 1.26 43.13 4.85
4062 6105 0.811616 GAACTATGCTGACGGCCAGG 60.812 60.000 2.24 0.00 43.13 4.45
4063 6106 0.811616 GGAACTATGCTGACGGCCAG 60.812 60.000 2.24 3.65 45.67 4.85
4064 6107 1.220749 GGAACTATGCTGACGGCCA 59.779 57.895 2.24 0.00 40.92 5.36
4065 6108 0.392461 TTGGAACTATGCTGACGGCC 60.392 55.000 3.22 0.00 40.92 6.13
4066 6109 1.009829 CTTGGAACTATGCTGACGGC 58.990 55.000 0.00 0.00 42.22 5.68
4067 6110 1.009829 GCTTGGAACTATGCTGACGG 58.990 55.000 0.00 0.00 0.00 4.79
4068 6111 1.009829 GGCTTGGAACTATGCTGACG 58.990 55.000 0.00 0.00 0.00 4.35
4069 6112 1.740025 GTGGCTTGGAACTATGCTGAC 59.260 52.381 0.00 0.00 0.00 3.51
4070 6113 1.675714 CGTGGCTTGGAACTATGCTGA 60.676 52.381 0.00 0.00 0.00 4.26
4071 6114 0.729116 CGTGGCTTGGAACTATGCTG 59.271 55.000 0.00 0.00 0.00 4.41
4072 6115 0.613260 TCGTGGCTTGGAACTATGCT 59.387 50.000 0.00 0.00 0.00 3.79
4073 6116 1.331756 CATCGTGGCTTGGAACTATGC 59.668 52.381 0.00 0.00 0.00 3.14
4074 6117 1.331756 GCATCGTGGCTTGGAACTATG 59.668 52.381 0.00 0.00 0.00 2.23
4075 6118 1.065491 TGCATCGTGGCTTGGAACTAT 60.065 47.619 3.04 0.00 34.04 2.12
4076 6119 0.323302 TGCATCGTGGCTTGGAACTA 59.677 50.000 3.04 0.00 34.04 2.24
4077 6120 1.073025 TGCATCGTGGCTTGGAACT 59.927 52.632 3.04 0.00 34.04 3.01
4078 6121 1.210155 GTGCATCGTGGCTTGGAAC 59.790 57.895 0.00 0.00 34.04 3.62
4079 6122 1.971167 GGTGCATCGTGGCTTGGAA 60.971 57.895 0.00 0.00 34.04 3.53
4080 6123 2.359850 GGTGCATCGTGGCTTGGA 60.360 61.111 0.00 0.00 34.04 3.53
4081 6124 2.672651 TGGTGCATCGTGGCTTGG 60.673 61.111 0.00 0.00 34.04 3.61
4082 6125 2.693762 CCTGGTGCATCGTGGCTTG 61.694 63.158 0.00 0.00 34.04 4.01
4083 6126 2.360350 CCTGGTGCATCGTGGCTT 60.360 61.111 0.00 0.00 34.04 4.35
4084 6127 4.415150 CCCTGGTGCATCGTGGCT 62.415 66.667 3.52 0.00 34.04 4.75
4097 6140 3.636929 TAACACATGGCGGCCCCTG 62.637 63.158 17.97 16.19 33.44 4.45
4098 6141 3.334891 TAACACATGGCGGCCCCT 61.335 61.111 17.97 0.11 0.00 4.79
4099 6142 2.828549 CTAACACATGGCGGCCCC 60.829 66.667 17.97 0.00 0.00 5.80
4100 6143 1.248101 AAACTAACACATGGCGGCCC 61.248 55.000 17.97 0.00 0.00 5.80
4101 6144 0.601057 AAAACTAACACATGGCGGCC 59.399 50.000 13.32 13.32 0.00 6.13
4102 6145 1.402325 GGAAAACTAACACATGGCGGC 60.402 52.381 0.00 0.00 0.00 6.53
4103 6146 1.135803 CGGAAAACTAACACATGGCGG 60.136 52.381 0.00 0.00 0.00 6.13
4104 6147 1.727857 GCGGAAAACTAACACATGGCG 60.728 52.381 0.00 0.00 0.00 5.69
4105 6148 1.268352 TGCGGAAAACTAACACATGGC 59.732 47.619 0.00 0.00 0.00 4.40
4106 6149 2.811431 TCTGCGGAAAACTAACACATGG 59.189 45.455 0.00 0.00 0.00 3.66
4107 6150 3.249799 TGTCTGCGGAAAACTAACACATG 59.750 43.478 0.00 0.00 0.00 3.21
4108 6151 3.472652 TGTCTGCGGAAAACTAACACAT 58.527 40.909 0.00 0.00 0.00 3.21
4109 6152 2.869801 CTGTCTGCGGAAAACTAACACA 59.130 45.455 0.00 0.00 0.00 3.72
4110 6153 2.870411 ACTGTCTGCGGAAAACTAACAC 59.130 45.455 0.00 0.00 0.00 3.32
4111 6154 3.128349 GACTGTCTGCGGAAAACTAACA 58.872 45.455 0.00 0.00 0.00 2.41
4112 6155 2.155155 CGACTGTCTGCGGAAAACTAAC 59.845 50.000 6.21 0.00 0.00 2.34
4113 6156 2.223876 ACGACTGTCTGCGGAAAACTAA 60.224 45.455 6.21 0.00 0.00 2.24
4114 6157 1.338973 ACGACTGTCTGCGGAAAACTA 59.661 47.619 6.21 0.00 0.00 2.24
4115 6158 0.104304 ACGACTGTCTGCGGAAAACT 59.896 50.000 6.21 0.00 0.00 2.66
4116 6159 0.507358 GACGACTGTCTGCGGAAAAC 59.493 55.000 6.21 0.00 42.08 2.43
4117 6160 0.103390 TGACGACTGTCTGCGGAAAA 59.897 50.000 6.21 0.00 45.70 2.29
4118 6161 0.318699 CTGACGACTGTCTGCGGAAA 60.319 55.000 6.21 0.00 45.70 3.13
4119 6162 1.285950 CTGACGACTGTCTGCGGAA 59.714 57.895 6.21 0.00 45.70 4.30
4120 6163 2.954611 CTGACGACTGTCTGCGGA 59.045 61.111 6.21 0.00 45.70 5.54
4124 6167 0.738762 CCCATGCTGACGACTGTCTG 60.739 60.000 6.21 2.43 45.70 3.51
4125 6168 1.188219 ACCCATGCTGACGACTGTCT 61.188 55.000 6.21 0.00 45.70 3.41
4126 6169 1.016130 CACCCATGCTGACGACTGTC 61.016 60.000 0.00 0.00 45.71 3.51
4127 6170 1.004560 CACCCATGCTGACGACTGT 60.005 57.895 0.00 0.00 0.00 3.55
4128 6171 1.742880 CCACCCATGCTGACGACTG 60.743 63.158 0.00 0.00 0.00 3.51
4129 6172 2.665000 CCACCCATGCTGACGACT 59.335 61.111 0.00 0.00 0.00 4.18
4130 6173 2.436646 CCCACCCATGCTGACGAC 60.437 66.667 0.00 0.00 0.00 4.34
4131 6174 1.561769 ATTCCCACCCATGCTGACGA 61.562 55.000 0.00 0.00 0.00 4.20
4132 6175 1.077501 ATTCCCACCCATGCTGACG 60.078 57.895 0.00 0.00 0.00 4.35
4133 6176 0.257039 AGATTCCCACCCATGCTGAC 59.743 55.000 0.00 0.00 0.00 3.51
4134 6177 1.891933 TAGATTCCCACCCATGCTGA 58.108 50.000 0.00 0.00 0.00 4.26
4135 6178 2.511659 CATAGATTCCCACCCATGCTG 58.488 52.381 0.00 0.00 0.00 4.41
4136 6179 1.202976 GCATAGATTCCCACCCATGCT 60.203 52.381 0.00 0.00 36.66 3.79
4137 6180 1.202976 AGCATAGATTCCCACCCATGC 60.203 52.381 0.00 0.00 39.19 4.06
4138 6181 2.107031 TCAGCATAGATTCCCACCCATG 59.893 50.000 0.00 0.00 0.00 3.66
4139 6182 2.421725 TCAGCATAGATTCCCACCCAT 58.578 47.619 0.00 0.00 0.00 4.00
4140 6183 1.891933 TCAGCATAGATTCCCACCCA 58.108 50.000 0.00 0.00 0.00 4.51
4141 6184 3.620966 GCTATCAGCATAGATTCCCACCC 60.621 52.174 0.00 0.00 41.89 4.61
4142 6185 3.604582 GCTATCAGCATAGATTCCCACC 58.395 50.000 0.00 0.00 41.89 4.61
4155 6198 2.240500 CGACGGCCTTGCTATCAGC 61.241 63.158 0.00 0.00 42.82 4.26
4156 6199 0.872021 GTCGACGGCCTTGCTATCAG 60.872 60.000 0.00 0.00 0.00 2.90
4157 6200 1.141019 GTCGACGGCCTTGCTATCA 59.859 57.895 0.00 0.00 0.00 2.15
4158 6201 0.249489 ATGTCGACGGCCTTGCTATC 60.249 55.000 11.62 0.00 0.00 2.08
4159 6202 1.037493 TATGTCGACGGCCTTGCTAT 58.963 50.000 11.62 0.00 0.00 2.97
4160 6203 0.101759 GTATGTCGACGGCCTTGCTA 59.898 55.000 11.62 0.00 0.00 3.49
4161 6204 1.153628 GTATGTCGACGGCCTTGCT 60.154 57.895 11.62 0.00 0.00 3.91
4162 6205 0.101759 TAGTATGTCGACGGCCTTGC 59.898 55.000 11.62 0.00 0.00 4.01
4163 6206 2.794910 CAATAGTATGTCGACGGCCTTG 59.205 50.000 11.62 6.10 0.00 3.61
4164 6207 2.691526 TCAATAGTATGTCGACGGCCTT 59.308 45.455 11.62 0.00 0.00 4.35
4165 6208 2.034305 GTCAATAGTATGTCGACGGCCT 59.966 50.000 11.62 8.37 0.00 5.19
4166 6209 2.223641 TGTCAATAGTATGTCGACGGCC 60.224 50.000 11.62 0.00 0.00 6.13
4167 6210 2.787680 GTGTCAATAGTATGTCGACGGC 59.212 50.000 11.62 3.38 0.00 5.68
4168 6211 4.023739 TGTGTCAATAGTATGTCGACGG 57.976 45.455 11.62 0.00 0.00 4.79
4169 6212 4.441087 CCATGTGTCAATAGTATGTCGACG 59.559 45.833 11.62 0.00 0.00 5.12
4170 6213 4.209288 GCCATGTGTCAATAGTATGTCGAC 59.791 45.833 9.11 9.11 0.00 4.20
4171 6214 4.368315 GCCATGTGTCAATAGTATGTCGA 58.632 43.478 0.00 0.00 0.00 4.20
4172 6215 3.494626 GGCCATGTGTCAATAGTATGTCG 59.505 47.826 0.00 0.00 0.00 4.35
4173 6216 4.273480 GTGGCCATGTGTCAATAGTATGTC 59.727 45.833 9.72 0.00 0.00 3.06
4174 6217 4.199310 GTGGCCATGTGTCAATAGTATGT 58.801 43.478 9.72 0.00 0.00 2.29
4175 6218 4.818534 GTGGCCATGTGTCAATAGTATG 57.181 45.455 9.72 0.00 0.00 2.39


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

AutoCloner maintained by Alex Coulton.