Multiple sequence alignment - TraesCS4D01G132700

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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 TraesCS4D01G132700 chr4D 100.000 3413 0 0 730 4142 119414743 119411331 0.000000e+00 6303.0
1 TraesCS4D01G132700 chr4D 100.000 364 0 0 1 364 119415472 119415109 0.000000e+00 673.0
2 TraesCS4D01G132700 chr4D 92.453 106 8 0 2677 2782 416450878 416450773 7.170000e-33 152.0
3 TraesCS4D01G132700 chr4B 95.402 1979 69 9 730 2694 181695551 181693581 0.000000e+00 3131.0
4 TraesCS4D01G132700 chr4B 95.272 698 30 3 2771 3468 181693588 181692894 0.000000e+00 1103.0
5 TraesCS4D01G132700 chr4B 92.264 530 18 5 3512 4030 181692873 181692356 0.000000e+00 730.0
6 TraesCS4D01G132700 chr4B 93.767 369 16 3 1 364 181696323 181695957 7.830000e-152 547.0
7 TraesCS4D01G132700 chr4A 94.150 1983 80 21 730 2691 449892447 449890480 0.000000e+00 2987.0
8 TraesCS4D01G132700 chr4A 91.063 649 39 10 2771 3413 449890483 449889848 0.000000e+00 859.0
9 TraesCS4D01G132700 chr4A 93.699 365 15 4 1 364 449893208 449892851 1.310000e-149 540.0
10 TraesCS4D01G132700 chr4A 80.503 318 22 14 3505 3818 449889839 449889558 1.510000e-49 207.0
11 TraesCS4D01G132700 chr4A 90.526 95 9 0 3922 4016 449889465 449889371 4.350000e-25 126.0
12 TraesCS4D01G132700 chr4A 88.158 76 2 5 3817 3892 449889526 449889458 2.650000e-12 84.2
13 TraesCS4D01G132700 chr7D 93.396 106 2 5 2690 2793 618321366 618321468 7.170000e-33 152.0
14 TraesCS4D01G132700 chr1A 94.898 98 3 2 2688 2784 550138442 550138346 7.170000e-33 152.0
15 TraesCS4D01G132700 chr5D 93.137 102 7 0 2686 2787 371800731 371800630 2.580000e-32 150.0
16 TraesCS4D01G132700 chr7A 91.150 113 4 4 2689 2796 422475153 422475042 9.280000e-32 148.0
17 TraesCS4D01G132700 chr7A 91.743 109 5 4 2681 2786 708611713 708611820 9.280000e-32 148.0
18 TraesCS4D01G132700 chr5A 91.589 107 9 0 2677 2783 328936572 328936678 9.280000e-32 148.0
19 TraesCS4D01G132700 chr2B 90.179 112 9 2 2675 2785 532097550 532097440 1.200000e-30 145.0
20 TraesCS4D01G132700 chr7B 89.474 114 10 2 2688 2800 333415889 333416001 4.320000e-30 143.0
21 TraesCS4D01G132700 chr6A 92.000 50 3 1 3441 3490 472952733 472952685 7.430000e-08 69.4


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 TraesCS4D01G132700 chr4D 119411331 119415472 4141 True 3488.000000 6303 100.000000 1 4142 2 chr4D.!!$R2 4141
1 TraesCS4D01G132700 chr4B 181692356 181696323 3967 True 1377.750000 3131 94.176250 1 4030 4 chr4B.!!$R1 4029
2 TraesCS4D01G132700 chr4A 449889371 449893208 3837 True 800.533333 2987 89.683167 1 4016 6 chr4A.!!$R1 4015

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
53 54 1.813753 GCACGCACCGGACATGTAT 60.814 57.895 9.46 0.0 0.00 2.29 F
1087 1164 0.959372 CAGGGTTCCAAGAGCAGCAG 60.959 60.000 0.00 0.0 0.00 4.24 F
2207 2305 0.179043 TACCAGTGCAAGAACGGCAA 60.179 50.000 0.00 0.0 43.91 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1498 1584 0.696501 TTGCAGGTAAAGGGGGAGAC 59.303 55.0 0.0 0.0 0.00 3.36 R
2300 2399 0.107945 GTGCATCGGCTTTCCTCTCT 60.108 55.0 0.0 0.0 41.91 3.10 R
3662 3772 0.108804 CTGAATTGCCTGCCTGCTTG 60.109 55.0 0.0 0.0 0.00 4.01 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
53 54 1.813753 GCACGCACCGGACATGTAT 60.814 57.895 9.46 0.00 0.00 2.29
55 56 1.929230 CACGCACCGGACATGTATTA 58.071 50.000 9.46 0.00 0.00 0.98
56 57 2.272678 CACGCACCGGACATGTATTAA 58.727 47.619 9.46 0.00 0.00 1.40
58 59 2.674357 ACGCACCGGACATGTATTAAAC 59.326 45.455 9.46 0.00 0.00 2.01
59 60 2.673862 CGCACCGGACATGTATTAAACA 59.326 45.455 9.46 0.00 43.86 2.83
201 207 5.355630 TGTGCTGCTTCAAGTTAAACTGTAA 59.644 36.000 0.00 0.00 0.00 2.41
755 817 5.704978 GGCTGTTTCTCTCTCTTTTTCTCAT 59.295 40.000 0.00 0.00 0.00 2.90
766 828 6.144854 TCTCTTTTTCTCATTGCAATTGACG 58.855 36.000 9.83 0.00 0.00 4.35
788 853 7.549134 TGACGCTGATAATTCTCTTGTTTGTAT 59.451 33.333 0.00 0.00 0.00 2.29
1087 1164 0.959372 CAGGGTTCCAAGAGCAGCAG 60.959 60.000 0.00 0.00 0.00 4.24
1088 1165 2.338785 GGGTTCCAAGAGCAGCAGC 61.339 63.158 0.00 0.00 42.56 5.25
1089 1166 1.601759 GGTTCCAAGAGCAGCAGCA 60.602 57.895 3.17 0.00 45.49 4.41
1090 1167 1.584380 GGTTCCAAGAGCAGCAGCAG 61.584 60.000 3.17 0.00 45.49 4.24
1091 1168 1.970114 TTCCAAGAGCAGCAGCAGC 60.970 57.895 3.17 0.46 45.49 5.25
1092 1169 2.671963 CCAAGAGCAGCAGCAGCA 60.672 61.111 12.92 0.00 45.49 4.41
1111 1197 1.600916 GCACCCGTCAAGGAAGCTT 60.601 57.895 0.00 0.00 45.00 3.74
1315 1401 2.595463 TGCAGCTGCTCAACACCC 60.595 61.111 36.61 7.74 42.66 4.61
1433 1519 1.072331 GGTTCCATGTCACCACAGACT 59.928 52.381 5.80 0.00 39.27 3.24
1503 1589 8.287503 ACAAAAACTGAATTTATGTACGTCTCC 58.712 33.333 0.00 0.00 0.00 3.71
1521 1607 0.996583 CCCCCTTTACCTGCAACCTA 59.003 55.000 0.00 0.00 0.00 3.08
1545 1640 6.344500 ACTTTGATCTACATGAGATGTCCAC 58.656 40.000 0.00 0.00 45.48 4.02
1548 1643 4.036852 TGATCTACATGAGATGTCCACGTC 59.963 45.833 0.00 0.00 45.48 4.34
1598 1693 4.229876 GGCTAACAGACAGCAAATGTTTC 58.770 43.478 2.61 0.00 44.17 2.78
1607 1702 6.921857 CAGACAGCAAATGTTTCTTGATTCTT 59.078 34.615 0.00 0.00 44.17 2.52
1683 1778 1.073897 GAGCAAACCACAGCCTCCT 59.926 57.895 0.00 0.00 0.00 3.69
1778 1873 3.521308 CTCCGCAACGTGGCACAAC 62.521 63.158 16.68 2.30 44.16 3.32
1960 2056 1.472878 GAAACGGCCCTGGATCTTTTC 59.527 52.381 0.00 0.00 0.00 2.29
2072 2168 8.517878 CAATGGTCTCATTAACAAAGTTCAGAT 58.482 33.333 0.00 0.00 41.29 2.90
2073 2169 7.439157 TGGTCTCATTAACAAAGTTCAGATG 57.561 36.000 0.00 0.00 0.00 2.90
2168 2266 9.463443 GGTAATCAAGCAAACACAATTATATCC 57.537 33.333 0.00 0.00 0.00 2.59
2207 2305 0.179043 TACCAGTGCAAGAACGGCAA 60.179 50.000 0.00 0.00 43.91 4.52
2239 2337 2.976185 TGGTGAGGTGGTTACTGATCAA 59.024 45.455 0.00 0.00 0.00 2.57
2300 2399 0.106769 TGAAGCACTTCAGTTGGCCA 60.107 50.000 0.00 0.00 43.90 5.36
2336 2435 2.815647 CTCCGGGAAGCAGCGTTC 60.816 66.667 0.00 0.00 0.00 3.95
2363 2462 1.800586 CGGGATCTCAAGTGTGTTGTG 59.199 52.381 0.00 0.00 0.00 3.33
2378 2477 4.586421 TGTGTTGTGACAGAGATCTCTTCT 59.414 41.667 22.95 10.81 37.98 2.85
2493 2592 1.593196 CTGACACGTGATTTGGGTGT 58.407 50.000 25.01 0.00 46.74 4.16
2553 2653 3.883830 TGGAGAAGAGCATGAAGAGAC 57.116 47.619 0.00 0.00 0.00 3.36
2561 2661 6.380846 AGAAGAGCATGAAGAGACTAGTGAAT 59.619 38.462 0.00 0.00 0.00 2.57
2573 2673 3.951037 GACTAGTGAATCTGAGGAGCTCA 59.049 47.826 17.19 0.00 38.25 4.26
2689 2789 9.337396 TGTGTGTATTCAGTTGAGAAAAATAGT 57.663 29.630 0.00 0.00 0.00 2.12
2695 2795 8.794335 ATTCAGTTGAGAAAAATAGTACTCCC 57.206 34.615 0.00 0.00 0.00 4.30
2696 2796 7.554959 TCAGTTGAGAAAAATAGTACTCCCT 57.445 36.000 0.00 0.00 0.00 4.20
2697 2797 7.612677 TCAGTTGAGAAAAATAGTACTCCCTC 58.387 38.462 0.00 0.00 0.00 4.30
2698 2798 6.819146 CAGTTGAGAAAAATAGTACTCCCTCC 59.181 42.308 0.00 0.00 0.00 4.30
2699 2799 5.593679 TGAGAAAAATAGTACTCCCTCCG 57.406 43.478 0.00 0.00 0.00 4.63
2700 2800 5.021458 TGAGAAAAATAGTACTCCCTCCGT 58.979 41.667 0.00 0.00 0.00 4.69
2701 2801 6.189859 TGAGAAAAATAGTACTCCCTCCGTA 58.810 40.000 0.00 0.00 0.00 4.02
2702 2802 6.664816 TGAGAAAAATAGTACTCCCTCCGTAA 59.335 38.462 0.00 0.00 0.00 3.18
2703 2803 7.178983 TGAGAAAAATAGTACTCCCTCCGTAAA 59.821 37.037 0.00 0.00 0.00 2.01
2704 2804 7.326454 AGAAAAATAGTACTCCCTCCGTAAAC 58.674 38.462 0.00 0.00 0.00 2.01
2705 2805 6.864151 AAAATAGTACTCCCTCCGTAAACT 57.136 37.500 0.00 0.00 0.00 2.66
2706 2806 7.961326 AAAATAGTACTCCCTCCGTAAACTA 57.039 36.000 0.00 0.00 0.00 2.24
2707 2807 7.961326 AAATAGTACTCCCTCCGTAAACTAA 57.039 36.000 0.00 0.00 0.00 2.24
2708 2808 8.544687 AAATAGTACTCCCTCCGTAAACTAAT 57.455 34.615 0.00 0.00 0.00 1.73
2709 2809 9.646522 AAATAGTACTCCCTCCGTAAACTAATA 57.353 33.333 0.00 0.00 0.00 0.98
2710 2810 9.819754 AATAGTACTCCCTCCGTAAACTAATAT 57.180 33.333 0.00 0.00 0.00 1.28
2713 2813 9.294614 AGTACTCCCTCCGTAAACTAATATAAG 57.705 37.037 0.00 0.00 0.00 1.73
2714 2814 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
2715 2815 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
2716 2816 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
2717 2817 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
2718 2818 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
2719 2819 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
2720 2820 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
2721 2821 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
2722 2822 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
2723 2823 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
2735 2835 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
2736 2836 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
2750 2850 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
2751 2851 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
2752 2852 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
2753 2853 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
2768 2868 8.557869 AACGCTCTTATATTAGTTTACAGACG 57.442 34.615 0.00 0.00 0.00 4.18
2769 2869 7.137426 ACGCTCTTATATTAGTTTACAGACGG 58.863 38.462 0.00 0.00 0.00 4.79
2770 2870 7.012704 ACGCTCTTATATTAGTTTACAGACGGA 59.987 37.037 0.00 0.00 0.00 4.69
2771 2871 7.534578 CGCTCTTATATTAGTTTACAGACGGAG 59.465 40.741 0.00 0.00 0.00 4.63
2826 2926 4.219725 AGATTAACCGGTTGGGAATTGTTG 59.780 41.667 30.08 0.00 40.75 3.33
2936 3036 0.985490 GGAGGAGGGAATGAGGCTGT 60.985 60.000 0.00 0.00 0.00 4.40
3163 3263 5.094134 AGCTACTAGACGAAACGAAATGAC 58.906 41.667 0.00 0.00 0.00 3.06
3186 3286 3.865164 TGTCGATGAATGAGATGAAACGG 59.135 43.478 0.00 0.00 0.00 4.44
3209 3311 6.326375 GGTTGACGATATATAGCTTCTCAGG 58.674 44.000 6.12 0.00 0.00 3.86
3259 3361 6.783708 ATGGAGCATATAGGCTAGTAGTTC 57.216 41.667 12.63 0.00 45.99 3.01
3425 3530 4.706842 TTTGTGCTCTTAAGAACTCCCT 57.293 40.909 6.63 0.00 31.53 4.20
3439 3544 5.445964 AGAACTCCCTGTGTACACAAAAAT 58.554 37.500 27.66 13.03 41.33 1.82
3444 3549 6.603997 ACTCCCTGTGTACACAAAAATTGTAA 59.396 34.615 27.66 2.84 43.23 2.41
3453 3558 9.063739 TGTACACAAAAATTGTAAGACGTTTTC 57.936 29.630 0.00 0.00 43.23 2.29
3456 3561 5.052895 ACAAAAATTGTAAGACGTTTTCGCG 60.053 36.000 0.00 0.00 44.39 5.87
3470 3575 6.626363 ACGTTTTCGCGGTTTAAATTTAAAC 58.374 32.000 32.12 32.12 46.62 2.01
3471 3576 6.471841 ACGTTTTCGCGGTTTAAATTTAAACT 59.528 30.769 35.32 19.51 46.59 2.66
3481 3586 9.709600 CGGTTTAAATTTAAACTGCAAAAACAT 57.290 25.926 35.32 0.00 46.68 2.71
3493 3598 9.777297 AAACTGCAAAAACATCCTATATTTGTT 57.223 25.926 0.00 0.00 35.19 2.83
3497 3602 9.347934 TGCAAAAACATCCTATATTTGTTTACG 57.652 29.630 1.18 0.00 41.39 3.18
3501 3606 8.446599 AAACATCCTATATTTGTTTACGGAGG 57.553 34.615 0.00 0.00 40.68 4.30
3503 3608 5.556006 TCCTATATTTGTTTACGGAGGGG 57.444 43.478 0.00 0.00 0.00 4.79
3592 3702 3.988976 AGCTAGATTGGCAGAAAGTCA 57.011 42.857 0.00 0.00 0.00 3.41
3594 3704 4.260170 AGCTAGATTGGCAGAAAGTCAAG 58.740 43.478 0.00 0.00 46.51 3.02
3660 3770 3.119459 TCTGCCGCTAACAAACAAACAAA 60.119 39.130 0.00 0.00 0.00 2.83
3661 3771 3.585862 TGCCGCTAACAAACAAACAAAA 58.414 36.364 0.00 0.00 0.00 2.44
3662 3772 3.368236 TGCCGCTAACAAACAAACAAAAC 59.632 39.130 0.00 0.00 0.00 2.43
3663 3773 3.368236 GCCGCTAACAAACAAACAAAACA 59.632 39.130 0.00 0.00 0.00 2.83
3664 3774 4.143094 GCCGCTAACAAACAAACAAAACAA 60.143 37.500 0.00 0.00 0.00 2.83
3665 3775 5.546434 CCGCTAACAAACAAACAAAACAAG 58.454 37.500 0.00 0.00 0.00 3.16
3666 3776 5.012613 CGCTAACAAACAAACAAAACAAGC 58.987 37.500 0.00 0.00 0.00 4.01
3667 3777 5.388890 CGCTAACAAACAAACAAAACAAGCA 60.389 36.000 0.00 0.00 0.00 3.91
3668 3778 6.014898 GCTAACAAACAAACAAAACAAGCAG 58.985 36.000 0.00 0.00 0.00 4.24
3672 3782 2.620242 ACAAACAAAACAAGCAGGCAG 58.380 42.857 0.00 0.00 0.00 4.85
3745 3859 5.509832 AAGGATTTAAGGGTTACCGTTCT 57.490 39.130 12.88 1.13 43.47 3.01
3746 3860 5.509832 AGGATTTAAGGGTTACCGTTCTT 57.490 39.130 12.88 4.71 43.47 2.52
3747 3861 5.494724 AGGATTTAAGGGTTACCGTTCTTC 58.505 41.667 12.88 8.42 43.47 2.87
3827 3974 2.281484 CCACCCTCCACCAACACG 60.281 66.667 0.00 0.00 0.00 4.49
3925 4072 1.751351 TGAAGCACTCCTCTATGTCCG 59.249 52.381 0.00 0.00 0.00 4.79
4041 4188 2.629763 GCGACGGCGTTCAGTTTT 59.370 55.556 16.19 0.00 40.36 2.43
4042 4189 1.010462 GCGACGGCGTTCAGTTTTT 60.010 52.632 16.19 0.00 40.36 1.94
4062 4209 4.563404 TTTTTGAGGGAACGGCGT 57.437 50.000 6.77 6.77 0.00 5.68
4063 4210 2.796500 TTTTTGAGGGAACGGCGTT 58.204 47.368 27.15 27.15 0.00 4.84
4064 4211 0.664224 TTTTTGAGGGAACGGCGTTC 59.336 50.000 37.30 37.30 41.32 3.95
4065 4212 0.464013 TTTTGAGGGAACGGCGTTCA 60.464 50.000 42.13 27.24 43.54 3.18
4066 4213 0.882927 TTTGAGGGAACGGCGTTCAG 60.883 55.000 42.13 4.88 43.54 3.02
4067 4214 2.434359 GAGGGAACGGCGTTCAGG 60.434 66.667 42.13 4.09 43.54 3.86
4068 4215 3.236003 GAGGGAACGGCGTTCAGGT 62.236 63.158 42.13 29.91 43.54 4.00
4069 4216 1.880819 GAGGGAACGGCGTTCAGGTA 61.881 60.000 42.13 0.00 43.54 3.08
4070 4217 1.004679 GGGAACGGCGTTCAGGTAA 60.005 57.895 42.13 0.00 43.54 2.85
4071 4218 1.293963 GGGAACGGCGTTCAGGTAAC 61.294 60.000 42.13 28.08 43.54 2.50
4087 4234 2.488153 GGTAACTGAAGACCACCAATGC 59.512 50.000 0.00 0.00 35.65 3.56
4088 4235 2.664402 AACTGAAGACCACCAATGCT 57.336 45.000 0.00 0.00 0.00 3.79
4089 4236 3.788227 AACTGAAGACCACCAATGCTA 57.212 42.857 0.00 0.00 0.00 3.49
4090 4237 3.788227 ACTGAAGACCACCAATGCTAA 57.212 42.857 0.00 0.00 0.00 3.09
4091 4238 4.307032 ACTGAAGACCACCAATGCTAAT 57.693 40.909 0.00 0.00 0.00 1.73
4092 4239 4.012374 ACTGAAGACCACCAATGCTAATG 58.988 43.478 0.00 0.00 0.00 1.90
4093 4240 2.754552 TGAAGACCACCAATGCTAATGC 59.245 45.455 0.00 0.00 40.20 3.56
4094 4241 2.814805 AGACCACCAATGCTAATGCT 57.185 45.000 0.00 0.00 40.48 3.79
4095 4242 2.372264 AGACCACCAATGCTAATGCTG 58.628 47.619 0.00 0.00 40.48 4.41
4096 4243 2.094675 GACCACCAATGCTAATGCTGT 58.905 47.619 0.00 0.00 40.48 4.40
4097 4244 1.820519 ACCACCAATGCTAATGCTGTG 59.179 47.619 0.00 0.00 40.48 3.66
4098 4245 1.470285 CCACCAATGCTAATGCTGTGC 60.470 52.381 0.00 0.00 40.48 4.57
4099 4246 1.475280 CACCAATGCTAATGCTGTGCT 59.525 47.619 0.00 0.00 40.48 4.40
4100 4247 1.475280 ACCAATGCTAATGCTGTGCTG 59.525 47.619 0.00 0.00 40.48 4.41
4101 4248 1.746787 CCAATGCTAATGCTGTGCTGA 59.253 47.619 0.00 0.00 40.48 4.26
4102 4249 2.164827 CCAATGCTAATGCTGTGCTGAA 59.835 45.455 0.00 0.00 40.48 3.02
4103 4250 3.435566 CAATGCTAATGCTGTGCTGAAG 58.564 45.455 0.00 0.00 40.48 3.02
4104 4251 2.477845 TGCTAATGCTGTGCTGAAGA 57.522 45.000 0.00 0.00 40.48 2.87
4105 4252 2.079158 TGCTAATGCTGTGCTGAAGAC 58.921 47.619 0.00 0.00 40.48 3.01
4106 4253 1.399791 GCTAATGCTGTGCTGAAGACC 59.600 52.381 0.00 0.00 36.03 3.85
4107 4254 2.703416 CTAATGCTGTGCTGAAGACCA 58.297 47.619 0.00 0.00 0.00 4.02
4108 4255 1.242076 AATGCTGTGCTGAAGACCAC 58.758 50.000 0.00 0.00 0.00 4.16
4109 4256 0.607489 ATGCTGTGCTGAAGACCACC 60.607 55.000 0.00 0.00 0.00 4.61
4110 4257 1.227943 GCTGTGCTGAAGACCACCA 60.228 57.895 0.00 0.00 0.00 4.17
4111 4258 0.607489 GCTGTGCTGAAGACCACCAT 60.607 55.000 0.00 0.00 0.00 3.55
4112 4259 1.901591 CTGTGCTGAAGACCACCATT 58.098 50.000 0.00 0.00 0.00 3.16
4113 4260 1.808945 CTGTGCTGAAGACCACCATTC 59.191 52.381 0.00 0.00 0.00 2.67
4114 4261 1.168714 GTGCTGAAGACCACCATTCC 58.831 55.000 0.00 0.00 0.00 3.01
4115 4262 0.038166 TGCTGAAGACCACCATTCCC 59.962 55.000 0.00 0.00 0.00 3.97
4116 4263 1.026718 GCTGAAGACCACCATTCCCG 61.027 60.000 0.00 0.00 0.00 5.14
4117 4264 1.002624 TGAAGACCACCATTCCCGC 60.003 57.895 0.00 0.00 0.00 6.13
4118 4265 1.002624 GAAGACCACCATTCCCGCA 60.003 57.895 0.00 0.00 0.00 5.69
4119 4266 0.608035 GAAGACCACCATTCCCGCAA 60.608 55.000 0.00 0.00 0.00 4.85
4120 4267 0.178975 AAGACCACCATTCCCGCAAA 60.179 50.000 0.00 0.00 0.00 3.68
4121 4268 0.893727 AGACCACCATTCCCGCAAAC 60.894 55.000 0.00 0.00 0.00 2.93
4122 4269 1.873270 GACCACCATTCCCGCAAACC 61.873 60.000 0.00 0.00 0.00 3.27
4123 4270 2.566010 CACCATTCCCGCAAACCG 59.434 61.111 0.00 0.00 0.00 4.44
4124 4271 2.114411 ACCATTCCCGCAAACCGT 59.886 55.556 0.00 0.00 34.38 4.83
4125 4272 2.265182 ACCATTCCCGCAAACCGTG 61.265 57.895 0.00 0.00 34.38 4.94
4136 4283 2.331809 CAAACCGTGCTTTTAGGAGC 57.668 50.000 0.00 0.00 43.00 4.70
4137 4284 1.068541 CAAACCGTGCTTTTAGGAGCC 60.069 52.381 0.00 0.00 42.01 4.70
4138 4285 0.608308 AACCGTGCTTTTAGGAGCCC 60.608 55.000 0.00 0.00 42.01 5.19
4139 4286 1.002624 CCGTGCTTTTAGGAGCCCA 60.003 57.895 0.00 0.00 42.01 5.36
4140 4287 1.026718 CCGTGCTTTTAGGAGCCCAG 61.027 60.000 0.00 0.00 42.01 4.45
4141 4288 1.648467 CGTGCTTTTAGGAGCCCAGC 61.648 60.000 0.00 0.00 42.01 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 4.688511 TTGTTTAATACATGTCCGGTGC 57.311 40.909 0.00 0.00 36.44 5.01
53 54 9.213799 ACAGACTTTGCTTTTCATTTTGTTTAA 57.786 25.926 0.00 0.00 0.00 1.52
55 56 7.603784 AGACAGACTTTGCTTTTCATTTTGTTT 59.396 29.630 0.00 0.00 0.00 2.83
56 57 7.099120 AGACAGACTTTGCTTTTCATTTTGTT 58.901 30.769 0.00 0.00 0.00 2.83
58 59 7.529880 AAGACAGACTTTGCTTTTCATTTTG 57.470 32.000 0.00 0.00 34.94 2.44
59 60 9.651913 TTTAAGACAGACTTTGCTTTTCATTTT 57.348 25.926 0.00 0.00 39.72 1.82
105 111 4.651778 TCACTAACAATTGGTCCCTCTTG 58.348 43.478 10.83 0.00 0.00 3.02
173 179 1.473258 AACTTGAAGCAGCACACCAA 58.527 45.000 0.00 0.00 0.00 3.67
201 207 5.769662 TGTGAGAACCATTTAGCTGAATGTT 59.230 36.000 24.68 19.13 35.68 2.71
738 798 7.446319 TCAATTGCAATGAGAAAAAGAGAGAGA 59.554 33.333 13.82 0.00 0.00 3.10
755 817 5.355071 AGAGAATTATCAGCGTCAATTGCAA 59.645 36.000 0.00 0.00 33.85 4.08
1087 1164 3.730761 CTTGACGGGTGCTGCTGC 61.731 66.667 8.89 8.89 40.20 5.25
1088 1165 3.052082 CCTTGACGGGTGCTGCTG 61.052 66.667 0.00 0.00 0.00 4.41
1089 1166 2.738213 CTTCCTTGACGGGTGCTGCT 62.738 60.000 0.00 0.00 0.00 4.24
1090 1167 2.281484 TTCCTTGACGGGTGCTGC 60.281 61.111 0.00 0.00 0.00 5.25
1091 1168 2.328099 GCTTCCTTGACGGGTGCTG 61.328 63.158 0.00 0.00 0.00 4.41
1092 1169 2.032681 GCTTCCTTGACGGGTGCT 59.967 61.111 0.00 0.00 0.00 4.40
1111 1197 2.046864 CCGGAGCTGGAGACGAAGA 61.047 63.158 0.00 0.00 0.00 2.87
1315 1401 0.725686 CTCTTGTCGCATTCCAGCTG 59.274 55.000 6.78 6.78 0.00 4.24
1433 1519 3.243168 GCAACTGCACAGTGATCAAAGAA 60.243 43.478 4.15 0.00 41.58 2.52
1498 1584 0.696501 TTGCAGGTAAAGGGGGAGAC 59.303 55.000 0.00 0.00 0.00 3.36
1503 1589 1.633945 AGTAGGTTGCAGGTAAAGGGG 59.366 52.381 0.00 0.00 0.00 4.79
1521 1607 6.344500 GTGGACATCTCATGTAGATCAAAGT 58.656 40.000 0.00 1.95 43.42 2.66
1545 1640 3.127589 TGTGTACAGTTGTGAATGGACG 58.872 45.455 0.00 0.00 32.59 4.79
1548 1643 2.877786 TGCTGTGTACAGTTGTGAATGG 59.122 45.455 13.08 0.00 45.45 3.16
1595 1690 6.623549 CGCCTGCTGAATTAAGAATCAAGAAA 60.624 38.462 0.00 0.00 0.00 2.52
1598 1693 4.595116 CGCCTGCTGAATTAAGAATCAAG 58.405 43.478 0.00 0.00 0.00 3.02
1778 1873 1.102809 TGCCTTGTTCACTGTGCCTG 61.103 55.000 2.12 0.00 0.00 4.85
1960 2056 9.409312 CATCTAGTAAGAAATCATGTCTAGCAG 57.591 37.037 0.00 0.00 34.73 4.24
2072 2168 3.423749 TCCACATCGGTGTAAGTAGTCA 58.576 45.455 0.00 0.00 43.71 3.41
2073 2169 3.734293 GCTCCACATCGGTGTAAGTAGTC 60.734 52.174 0.00 0.00 43.71 2.59
2200 2298 1.152830 AACCATCCCAGTTGCCGTT 59.847 52.632 0.00 0.00 0.00 4.44
2207 2305 0.772124 ACCTCACCAACCATCCCAGT 60.772 55.000 0.00 0.00 0.00 4.00
2239 2337 8.345565 CAGACTGAATTTTACAGCAACTAAGTT 58.654 33.333 0.00 0.00 38.74 2.66
2300 2399 0.107945 GTGCATCGGCTTTCCTCTCT 60.108 55.000 0.00 0.00 41.91 3.10
2336 2435 2.100916 ACACTTGAGATCCCGGTATTCG 59.899 50.000 0.00 0.00 38.88 3.34
2378 2477 2.180769 CCATCGTCGGCGTTCAGA 59.819 61.111 10.18 2.72 39.49 3.27
2573 2673 3.198068 CTGTTTATAGCACGGCATCACT 58.802 45.455 0.00 0.00 0.00 3.41
2670 2770 8.606830 AGGGAGTACTATTTTTCTCAACTGAAT 58.393 33.333 0.00 0.00 0.00 2.57
2689 2789 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
2690 2790 7.039853 GCTCTTATATTAGTTTACGGAGGGAGT 60.040 40.741 0.00 0.00 0.00 3.85
2691 2791 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
2692 2792 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
2693 2793 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
2694 2794 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
2695 2795 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
2696 2796 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
2697 2797 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
2709 2809 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
2710 2810 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
2711 2811 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
2712 2812 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
2726 2826 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
2727 2827 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
2742 2842 9.017669 CGTCTGTAAACTAATATAAGAGCGTTT 57.982 33.333 0.00 0.00 0.00 3.60
2743 2843 7.646922 CCGTCTGTAAACTAATATAAGAGCGTT 59.353 37.037 0.00 0.00 0.00 4.84
2744 2844 7.012704 TCCGTCTGTAAACTAATATAAGAGCGT 59.987 37.037 0.00 0.00 0.00 5.07
2745 2845 7.358066 TCCGTCTGTAAACTAATATAAGAGCG 58.642 38.462 0.00 0.00 0.00 5.03
2746 2846 8.351461 ACTCCGTCTGTAAACTAATATAAGAGC 58.649 37.037 0.00 0.00 0.00 4.09
2752 2852 9.796180 AGAGATACTCCGTCTGTAAACTAATAT 57.204 33.333 0.00 0.00 0.00 1.28
2753 2853 9.053840 CAGAGATACTCCGTCTGTAAACTAATA 57.946 37.037 0.00 0.00 34.24 0.98
2754 2854 7.932335 CAGAGATACTCCGTCTGTAAACTAAT 58.068 38.462 0.00 0.00 34.24 1.73
2755 2855 7.317842 CAGAGATACTCCGTCTGTAAACTAA 57.682 40.000 0.00 0.00 34.24 2.24
2756 2856 6.922247 CAGAGATACTCCGTCTGTAAACTA 57.078 41.667 0.00 0.00 34.24 2.24
2757 2857 5.821516 CAGAGATACTCCGTCTGTAAACT 57.178 43.478 0.00 0.00 34.24 2.66
2763 2863 6.378710 TCAAATACAGAGATACTCCGTCTG 57.621 41.667 0.00 0.00 42.91 3.51
2764 2864 8.871629 ATATCAAATACAGAGATACTCCGTCT 57.128 34.615 0.00 0.00 0.00 4.18
2765 2865 9.915629 AAATATCAAATACAGAGATACTCCGTC 57.084 33.333 0.00 0.00 0.00 4.79
2766 2866 9.698309 CAAATATCAAATACAGAGATACTCCGT 57.302 33.333 0.00 0.00 0.00 4.69
2767 2867 8.651588 GCAAATATCAAATACAGAGATACTCCG 58.348 37.037 0.00 0.00 0.00 4.63
2768 2868 9.494271 TGCAAATATCAAATACAGAGATACTCC 57.506 33.333 0.00 0.00 0.00 3.85
2801 2901 4.013728 CAATTCCCAACCGGTTAATCTCA 58.986 43.478 21.79 2.40 0.00 3.27
2826 2926 5.125100 TCATCTGCAAATTCAAACAGACC 57.875 39.130 0.00 0.00 41.63 3.85
2992 3092 4.009675 CCTTGATTCATTTGAAGGACGGA 58.990 43.478 0.00 0.00 37.74 4.69
3150 3250 3.363724 TCATCGACAGTCATTTCGTTTCG 59.636 43.478 0.41 0.00 36.60 3.46
3163 3263 4.026228 CCGTTTCATCTCATTCATCGACAG 60.026 45.833 0.00 0.00 0.00 3.51
3186 3286 6.071840 ACCCTGAGAAGCTATATATCGTCAAC 60.072 42.308 3.02 0.00 0.00 3.18
3209 3311 5.632244 AACCCACGACATTAATTTGTACC 57.368 39.130 0.00 0.00 0.00 3.34
3359 3464 9.090103 CCCAAGTATATATACTCCAGTCTTCAA 57.910 37.037 22.69 0.00 42.47 2.69
3418 3523 5.420739 ACAATTTTTGTGTACACAGGGAGTT 59.579 36.000 26.52 16.34 43.48 3.01
3425 3530 7.074507 ACGTCTTACAATTTTTGTGTACACA 57.925 32.000 24.62 24.62 45.03 3.72
3439 3544 1.569708 ACCGCGAAAACGTCTTACAA 58.430 45.000 8.23 0.00 0.00 2.41
3444 3549 3.883631 ATTTAAACCGCGAAAACGTCT 57.116 38.095 8.23 0.00 0.00 4.18
3467 3572 9.777297 AACAAATATAGGATGTTTTTGCAGTTT 57.223 25.926 0.00 0.00 33.73 2.66
3468 3573 9.777297 AAACAAATATAGGATGTTTTTGCAGTT 57.223 25.926 7.23 0.00 42.82 3.16
3471 3576 9.347934 CGTAAACAAATATAGGATGTTTTTGCA 57.652 29.630 14.64 0.00 42.82 4.08
3472 3577 8.803799 CCGTAAACAAATATAGGATGTTTTTGC 58.196 33.333 14.64 8.09 42.82 3.68
3475 3580 8.899771 CCTCCGTAAACAAATATAGGATGTTTT 58.100 33.333 14.64 4.54 42.82 2.43
3476 3581 7.501225 CCCTCCGTAAACAAATATAGGATGTTT 59.499 37.037 14.15 14.15 46.01 2.83
3477 3582 6.996282 CCCTCCGTAAACAAATATAGGATGTT 59.004 38.462 0.00 0.00 38.85 2.71
3478 3583 6.465321 CCCCTCCGTAAACAAATATAGGATGT 60.465 42.308 0.00 0.00 0.00 3.06
3479 3584 5.938125 CCCCTCCGTAAACAAATATAGGATG 59.062 44.000 0.00 0.00 0.00 3.51
3480 3585 5.013808 CCCCCTCCGTAAACAAATATAGGAT 59.986 44.000 0.00 0.00 0.00 3.24
3481 3586 4.348754 CCCCCTCCGTAAACAAATATAGGA 59.651 45.833 0.00 0.00 0.00 2.94
3482 3587 4.103627 ACCCCCTCCGTAAACAAATATAGG 59.896 45.833 0.00 0.00 0.00 2.57
3483 3588 5.300411 ACCCCCTCCGTAAACAAATATAG 57.700 43.478 0.00 0.00 0.00 1.31
3484 3589 5.071653 GGTACCCCCTCCGTAAACAAATATA 59.928 44.000 0.00 0.00 0.00 0.86
3485 3590 4.141413 GGTACCCCCTCCGTAAACAAATAT 60.141 45.833 0.00 0.00 0.00 1.28
3486 3591 3.199727 GGTACCCCCTCCGTAAACAAATA 59.800 47.826 0.00 0.00 0.00 1.40
3487 3592 2.025981 GGTACCCCCTCCGTAAACAAAT 60.026 50.000 0.00 0.00 0.00 2.32
3488 3593 1.350684 GGTACCCCCTCCGTAAACAAA 59.649 52.381 0.00 0.00 0.00 2.83
3489 3594 0.983467 GGTACCCCCTCCGTAAACAA 59.017 55.000 0.00 0.00 0.00 2.83
3490 3595 0.178909 TGGTACCCCCTCCGTAAACA 60.179 55.000 10.07 0.00 0.00 2.83
3491 3596 1.206878 ATGGTACCCCCTCCGTAAAC 58.793 55.000 10.07 0.00 0.00 2.01
3492 3597 2.864885 TATGGTACCCCCTCCGTAAA 57.135 50.000 10.07 0.00 0.00 2.01
3493 3598 4.045718 TCATATATGGTACCCCCTCCGTAA 59.954 45.833 10.07 0.00 0.00 3.18
3497 3602 4.788617 ACATTCATATATGGTACCCCCTCC 59.211 45.833 10.07 0.00 0.00 4.30
3501 3606 6.704310 ACGTTACATTCATATATGGTACCCC 58.296 40.000 10.07 0.00 0.00 4.95
3503 3608 8.597662 ACAACGTTACATTCATATATGGTACC 57.402 34.615 12.78 4.43 0.00 3.34
3585 3695 6.151648 TGAATCATGATCAACCCTTGACTTTC 59.848 38.462 9.06 1.52 43.48 2.62
3660 3770 0.319405 GAATTGCCTGCCTGCTTGTT 59.681 50.000 0.00 0.00 0.00 2.83
3661 3771 0.828762 TGAATTGCCTGCCTGCTTGT 60.829 50.000 0.00 0.00 0.00 3.16
3662 3772 0.108804 CTGAATTGCCTGCCTGCTTG 60.109 55.000 0.00 0.00 0.00 4.01
3663 3773 0.541296 ACTGAATTGCCTGCCTGCTT 60.541 50.000 0.00 0.00 0.00 3.91
3664 3774 0.541296 AACTGAATTGCCTGCCTGCT 60.541 50.000 0.00 0.00 0.00 4.24
3665 3775 0.319405 AAACTGAATTGCCTGCCTGC 59.681 50.000 0.00 0.00 0.00 4.85
3666 3776 1.401931 CGAAACTGAATTGCCTGCCTG 60.402 52.381 0.00 0.00 0.00 4.85
3667 3777 0.883833 CGAAACTGAATTGCCTGCCT 59.116 50.000 0.00 0.00 0.00 4.75
3668 3778 0.598065 ACGAAACTGAATTGCCTGCC 59.402 50.000 0.00 0.00 0.00 4.85
3672 3782 3.049912 GTCCAAACGAAACTGAATTGCC 58.950 45.455 0.00 0.00 0.00 4.52
3718 3828 4.397103 CGGTAACCCTTAAATCCTTTGACC 59.603 45.833 0.00 0.00 0.00 4.02
3827 3974 1.076044 AGGAGAGGAGGAGAGCTGC 60.076 63.158 0.00 0.00 0.00 5.25
3948 4095 2.825836 GGGCTCTGATTGGTGCCG 60.826 66.667 0.00 0.00 45.75 5.69
4045 4192 0.664224 GAACGCCGTTCCCTCAAAAA 59.336 50.000 18.88 0.00 36.65 1.94
4046 4193 0.464013 TGAACGCCGTTCCCTCAAAA 60.464 50.000 25.56 3.70 41.35 2.44
4047 4194 0.882927 CTGAACGCCGTTCCCTCAAA 60.883 55.000 25.56 6.40 41.35 2.69
4048 4195 1.301401 CTGAACGCCGTTCCCTCAA 60.301 57.895 25.56 7.12 41.35 3.02
4049 4196 2.342279 CTGAACGCCGTTCCCTCA 59.658 61.111 25.56 8.30 41.35 3.86
4050 4197 1.880819 TACCTGAACGCCGTTCCCTC 61.881 60.000 25.56 3.50 41.35 4.30
4051 4198 1.474332 TTACCTGAACGCCGTTCCCT 61.474 55.000 25.56 11.19 41.35 4.20
4052 4199 1.004679 TTACCTGAACGCCGTTCCC 60.005 57.895 25.56 4.60 41.35 3.97
4053 4200 0.320160 AGTTACCTGAACGCCGTTCC 60.320 55.000 25.56 10.16 43.37 3.62
4054 4201 0.788391 CAGTTACCTGAACGCCGTTC 59.212 55.000 22.39 22.39 43.37 3.95
4055 4202 0.390124 TCAGTTACCTGAACGCCGTT 59.610 50.000 0.16 0.16 44.67 4.44
4056 4203 2.043625 TCAGTTACCTGAACGCCGT 58.956 52.632 0.00 0.00 44.67 5.68
4057 4204 4.979204 TCAGTTACCTGAACGCCG 57.021 55.556 0.00 0.00 44.67 6.46
4063 4210 2.684943 TGGTGGTCTTCAGTTACCTGA 58.315 47.619 0.00 0.00 45.95 3.86
4064 4211 3.485463 TTGGTGGTCTTCAGTTACCTG 57.515 47.619 0.00 0.00 40.25 4.00
4065 4212 3.810743 GCATTGGTGGTCTTCAGTTACCT 60.811 47.826 0.00 0.00 36.67 3.08
4066 4213 2.488153 GCATTGGTGGTCTTCAGTTACC 59.512 50.000 0.00 0.00 36.24 2.85
4067 4214 3.412386 AGCATTGGTGGTCTTCAGTTAC 58.588 45.455 0.00 0.00 0.00 2.50
4068 4215 3.788227 AGCATTGGTGGTCTTCAGTTA 57.212 42.857 0.00 0.00 0.00 2.24
4069 4216 2.664402 AGCATTGGTGGTCTTCAGTT 57.336 45.000 0.00 0.00 0.00 3.16
4070 4217 3.788227 TTAGCATTGGTGGTCTTCAGT 57.212 42.857 0.00 0.00 37.28 3.41
4071 4218 3.181493 GCATTAGCATTGGTGGTCTTCAG 60.181 47.826 0.00 0.00 41.58 3.02
4072 4219 2.754552 GCATTAGCATTGGTGGTCTTCA 59.245 45.455 0.00 0.00 41.58 3.02
4073 4220 3.019564 AGCATTAGCATTGGTGGTCTTC 58.980 45.455 0.00 0.00 45.49 2.87
4074 4221 2.756760 CAGCATTAGCATTGGTGGTCTT 59.243 45.455 0.00 0.00 45.49 3.01
4075 4222 2.291153 ACAGCATTAGCATTGGTGGTCT 60.291 45.455 14.48 0.00 44.70 3.85
4076 4223 2.094675 ACAGCATTAGCATTGGTGGTC 58.905 47.619 14.48 0.00 44.70 4.02
4077 4224 1.820519 CACAGCATTAGCATTGGTGGT 59.179 47.619 14.48 0.00 44.70 4.16
4078 4225 1.470285 GCACAGCATTAGCATTGGTGG 60.470 52.381 14.48 7.06 44.70 4.61
4079 4226 1.475280 AGCACAGCATTAGCATTGGTG 59.525 47.619 10.11 10.11 45.62 4.17
4080 4227 1.475280 CAGCACAGCATTAGCATTGGT 59.525 47.619 0.00 0.00 45.49 3.67
4081 4228 1.746787 TCAGCACAGCATTAGCATTGG 59.253 47.619 0.00 0.00 45.49 3.16
4082 4229 3.128068 TCTTCAGCACAGCATTAGCATTG 59.872 43.478 0.00 0.00 45.49 2.82
4083 4230 3.128242 GTCTTCAGCACAGCATTAGCATT 59.872 43.478 0.00 0.00 45.49 3.56
4084 4231 2.681848 GTCTTCAGCACAGCATTAGCAT 59.318 45.455 0.00 0.00 45.49 3.79
4085 4232 2.079158 GTCTTCAGCACAGCATTAGCA 58.921 47.619 0.00 0.00 45.49 3.49
4086 4233 1.399791 GGTCTTCAGCACAGCATTAGC 59.600 52.381 0.00 0.00 42.56 3.09
4087 4234 2.703416 TGGTCTTCAGCACAGCATTAG 58.297 47.619 0.00 0.00 0.00 1.73
4088 4235 2.857186 TGGTCTTCAGCACAGCATTA 57.143 45.000 0.00 0.00 0.00 1.90
4089 4236 3.731716 TGGTCTTCAGCACAGCATT 57.268 47.368 0.00 0.00 0.00 3.56
4097 4244 1.026718 CGGGAATGGTGGTCTTCAGC 61.027 60.000 0.00 0.00 43.68 4.26
4098 4245 1.026718 GCGGGAATGGTGGTCTTCAG 61.027 60.000 0.00 0.00 0.00 3.02
4099 4246 1.002624 GCGGGAATGGTGGTCTTCA 60.003 57.895 0.00 0.00 0.00 3.02
4100 4247 0.608035 TTGCGGGAATGGTGGTCTTC 60.608 55.000 0.00 0.00 0.00 2.87
4101 4248 0.178975 TTTGCGGGAATGGTGGTCTT 60.179 50.000 0.00 0.00 0.00 3.01
4102 4249 0.893727 GTTTGCGGGAATGGTGGTCT 60.894 55.000 0.00 0.00 0.00 3.85
4103 4250 1.584495 GTTTGCGGGAATGGTGGTC 59.416 57.895 0.00 0.00 0.00 4.02
4104 4251 1.906333 GGTTTGCGGGAATGGTGGT 60.906 57.895 0.00 0.00 0.00 4.16
4105 4252 2.969827 GGTTTGCGGGAATGGTGG 59.030 61.111 0.00 0.00 0.00 4.61
4106 4253 2.265182 ACGGTTTGCGGGAATGGTG 61.265 57.895 0.00 0.00 0.00 4.17
4107 4254 2.114411 ACGGTTTGCGGGAATGGT 59.886 55.556 0.00 0.00 0.00 3.55
4108 4255 2.566010 CACGGTTTGCGGGAATGG 59.434 61.111 0.00 0.00 0.00 3.16
4109 4256 2.126502 GCACGGTTTGCGGGAATG 60.127 61.111 0.00 0.00 42.79 2.67
4117 4264 1.068541 GGCTCCTAAAAGCACGGTTTG 60.069 52.381 0.00 0.00 44.35 2.93
4118 4265 1.244816 GGCTCCTAAAAGCACGGTTT 58.755 50.000 0.00 0.00 44.35 3.27
4119 4266 0.608308 GGGCTCCTAAAAGCACGGTT 60.608 55.000 0.00 0.00 44.35 4.44
4120 4267 1.002502 GGGCTCCTAAAAGCACGGT 60.003 57.895 0.00 0.00 44.35 4.83
4121 4268 3.905249 GGGCTCCTAAAAGCACGG 58.095 61.111 0.00 0.00 44.35 4.94
4123 4270 2.184323 GCTGGGCTCCTAAAAGCAC 58.816 57.895 0.00 0.00 46.26 4.40
4124 4271 4.743018 GCTGGGCTCCTAAAAGCA 57.257 55.556 0.00 0.00 44.35 3.91


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

AutoCloner maintained by Alex Coulton.