Multiple sequence alignment - TraesCS5D01G489300

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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 TraesCS5D01G489300 chr5D 100.000 3599 0 0 1 3599 524480023 524483621 0.000000e+00 6647.0
1 TraesCS5D01G489300 chr5D 90.099 101 4 3 1 95 173332709 173332809 3.770000e-25 126.0
2 TraesCS5D01G489300 chr5D 90.099 101 4 3 1 95 483012138 483012038 3.770000e-25 126.0
3 TraesCS5D01G489300 chr5A 88.833 3161 214 65 79 3173 650670079 650673166 0.000000e+00 3753.0
4 TraesCS5D01G489300 chr5A 79.646 678 78 30 2747 3386 650674747 650675402 1.980000e-117 433.0
5 TraesCS5D01G489300 chr5A 91.500 200 13 3 3281 3477 650673234 650673432 4.580000e-69 272.0
6 TraesCS5D01G489300 chr5A 97.222 36 1 0 3517 3552 650673448 650673483 1.080000e-05 62.1
7 TraesCS5D01G489300 chr5B 90.711 2573 149 43 79 2612 659028275 659030796 0.000000e+00 3345.0
8 TraesCS5D01G489300 chr5B 82.609 690 45 30 2908 3561 659031049 659031699 1.140000e-149 540.0
9 TraesCS5D01G489300 chr2B 85.556 1890 214 37 981 2851 635704931 635703082 0.000000e+00 1923.0
10 TraesCS5D01G489300 chr2A 85.403 1884 223 32 981 2849 678018400 678016554 0.000000e+00 1908.0
11 TraesCS5D01G489300 chr2D 85.750 1614 180 29 1252 2851 534492443 534490866 0.000000e+00 1661.0
12 TraesCS5D01G489300 chr4A 91.667 108 5 4 1463 1566 606729009 606729116 2.900000e-31 147.0
13 TraesCS5D01G489300 chr1D 78.067 269 31 15 1305 1566 452336674 452336427 1.040000e-30 145.0
14 TraesCS5D01G489300 chr1D 78.195 266 30 15 1305 1563 452351679 452351923 1.040000e-30 145.0
15 TraesCS5D01G489300 chr1D 91.089 101 3 3 1 95 401249049 401248949 8.110000e-27 132.0
16 TraesCS5D01G489300 chr1D 90.099 101 4 3 1 95 143510370 143510470 3.770000e-25 126.0
17 TraesCS5D01G489300 chr7D 90.099 101 4 3 1 95 283720136 283720036 3.770000e-25 126.0
18 TraesCS5D01G489300 chr7D 90.099 101 4 3 1 95 457678698 457678598 3.770000e-25 126.0
19 TraesCS5D01G489300 chr6D 90.099 101 4 3 1 95 184221807 184221707 3.770000e-25 126.0
20 TraesCS5D01G489300 chr4D 90.099 101 4 3 1 95 134951826 134951926 3.770000e-25 126.0
21 TraesCS5D01G489300 chr4D 90.099 101 4 3 1 95 181303750 181303850 3.770000e-25 126.0
22 TraesCS5D01G489300 chr6A 88.000 100 9 3 1470 1566 261507852 261507951 8.170000e-22 115.0


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 TraesCS5D01G489300 chr5D 524480023 524483621 3598 False 6647.000 6647 100.00000 1 3599 1 chr5D.!!$F2 3598
1 TraesCS5D01G489300 chr5A 650670079 650675402 5323 False 1130.025 3753 89.30025 79 3552 4 chr5A.!!$F1 3473
2 TraesCS5D01G489300 chr5B 659028275 659031699 3424 False 1942.500 3345 86.66000 79 3561 2 chr5B.!!$F1 3482
3 TraesCS5D01G489300 chr2B 635703082 635704931 1849 True 1923.000 1923 85.55600 981 2851 1 chr2B.!!$R1 1870
4 TraesCS5D01G489300 chr2A 678016554 678018400 1846 True 1908.000 1908 85.40300 981 2849 1 chr2A.!!$R1 1868
5 TraesCS5D01G489300 chr2D 534490866 534492443 1577 True 1661.000 1661 85.75000 1252 2851 1 chr2D.!!$R1 1599

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
324 349 0.802494 GGTGATTAGGTTGTGCGTGG 59.198 55.0 0.0 0.0 0.0 4.94 F
990 1047 0.804989 CCATTTTGTCTCCGCTCCAC 59.195 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1992 2057 0.951040 CCAGGAAGTCCTTGACGCAC 60.951 60.0 0.0 0.0 46.09 5.34 R
2924 3009 0.387878 GACAGTGACGGTGAGCAGAG 60.388 60.0 0.0 0.0 0.00 3.35 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
25 26 6.874134 ACGAAGGGAATATCATAACACATAGC 59.126 38.462 0.00 0.00 0.00 2.97
26 27 6.313905 CGAAGGGAATATCATAACACATAGCC 59.686 42.308 0.00 0.00 0.00 3.93
27 28 6.702449 AGGGAATATCATAACACATAGCCA 57.298 37.500 0.00 0.00 0.00 4.75
28 29 7.090319 AGGGAATATCATAACACATAGCCAA 57.910 36.000 0.00 0.00 0.00 4.52
29 30 7.526041 AGGGAATATCATAACACATAGCCAAA 58.474 34.615 0.00 0.00 0.00 3.28
30 31 8.004215 AGGGAATATCATAACACATAGCCAAAA 58.996 33.333 0.00 0.00 0.00 2.44
31 32 8.637986 GGGAATATCATAACACATAGCCAAAAA 58.362 33.333 0.00 0.00 0.00 1.94
34 35 9.985730 AATATCATAACACATAGCCAAAAATGG 57.014 29.630 0.00 0.00 0.00 3.16
46 47 3.925379 CCAAAAATGGCAAGGGAGTTAC 58.075 45.455 0.00 0.00 0.00 2.50
47 48 3.323403 CCAAAAATGGCAAGGGAGTTACA 59.677 43.478 0.00 0.00 0.00 2.41
48 49 4.202305 CCAAAAATGGCAAGGGAGTTACAA 60.202 41.667 0.00 0.00 0.00 2.41
49 50 5.363939 CAAAAATGGCAAGGGAGTTACAAA 58.636 37.500 0.00 0.00 0.00 2.83
50 51 5.823861 AAAATGGCAAGGGAGTTACAAAT 57.176 34.783 0.00 0.00 0.00 2.32
51 52 6.926630 AAAATGGCAAGGGAGTTACAAATA 57.073 33.333 0.00 0.00 0.00 1.40
52 53 7.494922 AAAATGGCAAGGGAGTTACAAATAT 57.505 32.000 0.00 0.00 0.00 1.28
53 54 6.469782 AATGGCAAGGGAGTTACAAATATG 57.530 37.500 0.00 0.00 0.00 1.78
54 55 4.277476 TGGCAAGGGAGTTACAAATATGG 58.723 43.478 0.00 0.00 0.00 2.74
55 56 4.017958 TGGCAAGGGAGTTACAAATATGGA 60.018 41.667 0.00 0.00 0.00 3.41
56 57 4.953579 GGCAAGGGAGTTACAAATATGGAA 59.046 41.667 0.00 0.00 0.00 3.53
57 58 5.420739 GGCAAGGGAGTTACAAATATGGAAA 59.579 40.000 0.00 0.00 28.98 3.13
58 59 6.405842 GGCAAGGGAGTTACAAATATGGAAAG 60.406 42.308 0.00 0.00 28.98 2.62
59 60 6.152831 GCAAGGGAGTTACAAATATGGAAAGT 59.847 38.462 0.00 0.00 28.98 2.66
60 61 7.309805 GCAAGGGAGTTACAAATATGGAAAGTT 60.310 37.037 0.00 0.00 28.98 2.66
61 62 9.238368 CAAGGGAGTTACAAATATGGAAAGTTA 57.762 33.333 0.00 0.00 28.98 2.24
62 63 8.803397 AGGGAGTTACAAATATGGAAAGTTAC 57.197 34.615 0.00 0.00 28.98 2.50
63 64 8.387813 AGGGAGTTACAAATATGGAAAGTTACA 58.612 33.333 0.00 0.00 28.98 2.41
64 65 9.185680 GGGAGTTACAAATATGGAAAGTTACAT 57.814 33.333 0.00 0.00 35.48 2.29
67 68 8.889717 AGTTACAAATATGGAAAGTTACATCCG 58.110 33.333 0.00 0.00 38.63 4.18
68 69 6.693315 ACAAATATGGAAAGTTACATCCGG 57.307 37.500 0.00 0.00 38.63 5.14
69 70 5.592688 ACAAATATGGAAAGTTACATCCGGG 59.407 40.000 0.00 0.00 38.63 5.73
70 71 2.729028 ATGGAAAGTTACATCCGGGG 57.271 50.000 0.00 0.00 38.63 5.73
71 72 1.364269 TGGAAAGTTACATCCGGGGT 58.636 50.000 0.00 2.79 38.63 4.95
72 73 1.003812 TGGAAAGTTACATCCGGGGTG 59.996 52.381 5.55 5.55 38.63 4.61
73 74 1.003928 GGAAAGTTACATCCGGGGTGT 59.996 52.381 18.45 18.45 0.00 4.16
74 75 2.553685 GGAAAGTTACATCCGGGGTGTT 60.554 50.000 19.71 0.00 0.00 3.32
75 76 3.307621 GGAAAGTTACATCCGGGGTGTTA 60.308 47.826 19.71 6.65 0.00 2.41
76 77 3.339253 AAGTTACATCCGGGGTGTTAC 57.661 47.619 19.71 19.44 31.30 2.50
77 78 2.259012 AGTTACATCCGGGGTGTTACA 58.741 47.619 26.16 4.90 33.02 2.41
88 89 2.552373 GGGGTGTTACAAACTCTCCCAG 60.552 54.545 8.42 0.00 39.15 4.45
111 113 4.870221 TGAGATCAATGATTCACTTGCG 57.130 40.909 0.00 0.00 0.00 4.85
112 114 4.256110 TGAGATCAATGATTCACTTGCGT 58.744 39.130 0.00 0.00 0.00 5.24
233 235 4.809193 AGGAACTCATATGCTCCTCTGTA 58.191 43.478 12.58 0.00 32.68 2.74
244 246 2.769095 GCTCCTCTGTAAGAATGGGTCT 59.231 50.000 0.00 0.00 46.34 3.85
253 256 6.881065 TCTGTAAGAATGGGTCTGATTTTCAG 59.119 38.462 0.00 0.00 42.31 3.02
268 271 5.686841 TGATTTTCAGACAATCTTTGCAACG 59.313 36.000 0.00 0.00 32.63 4.10
297 301 5.955488 TCTTCGTTGTTGTCAAAATTTCCA 58.045 33.333 0.00 0.00 35.20 3.53
310 314 7.505585 TGTCAAAATTTCCACTTAAGAGGTGAT 59.494 33.333 17.25 10.33 36.89 3.06
320 345 5.122396 CACTTAAGAGGTGATTAGGTTGTGC 59.878 44.000 10.09 0.00 36.89 4.57
324 349 0.802494 GGTGATTAGGTTGTGCGTGG 59.198 55.000 0.00 0.00 0.00 4.94
363 388 5.491982 AGTTTTAGACCATAGCTCCTTGTG 58.508 41.667 0.00 0.00 0.00 3.33
381 408 8.927675 TCCTTGTGTTACCTTTTGTACATAAT 57.072 30.769 0.00 0.00 0.00 1.28
479 508 5.179368 GTGTCTAGTGAGCAACTTAAATGCA 59.821 40.000 13.58 0.00 46.22 3.96
480 509 5.762711 TGTCTAGTGAGCAACTTAAATGCAA 59.237 36.000 13.58 1.40 46.22 4.08
481 510 6.073058 TGTCTAGTGAGCAACTTAAATGCAAG 60.073 38.462 13.58 0.00 46.22 4.01
482 511 3.905784 AGTGAGCAACTTAAATGCAAGC 58.094 40.909 13.58 5.16 46.22 4.01
483 512 3.318839 AGTGAGCAACTTAAATGCAAGCA 59.681 39.130 13.58 0.00 46.22 3.91
484 513 4.021719 AGTGAGCAACTTAAATGCAAGCAT 60.022 37.500 13.58 0.86 46.22 3.79
544 577 7.047271 AGCTTTCACTGAGATAATTCTTCTCC 58.953 38.462 13.13 0.14 39.10 3.71
558 591 2.373169 TCTTCTCCCTGACAAGTGCAAT 59.627 45.455 0.00 0.00 0.00 3.56
565 598 3.875727 CCCTGACAAGTGCAATCAGATAG 59.124 47.826 16.21 4.76 42.07 2.08
566 599 4.511527 CCTGACAAGTGCAATCAGATAGT 58.488 43.478 16.21 0.00 42.07 2.12
567 600 5.395657 CCCTGACAAGTGCAATCAGATAGTA 60.396 44.000 16.21 0.00 42.07 1.82
663 702 7.431668 CAGTAAATTACTAGTACCTCAACGAGC 59.568 40.741 5.23 0.00 37.23 5.03
746 787 1.806542 CCTTCATTCACTGGTTGGTCG 59.193 52.381 0.00 0.00 0.00 4.79
759 800 2.029290 GGTTGGTCGCTTCTCTCACTTA 60.029 50.000 0.00 0.00 0.00 2.24
798 839 1.416401 TCACCACTTGTCTCCCTTGTC 59.584 52.381 0.00 0.00 0.00 3.18
901 957 2.117156 CGGGCAGCCTTCCTTGATG 61.117 63.158 12.43 0.00 0.00 3.07
990 1047 0.804989 CCATTTTGTCTCCGCTCCAC 59.195 55.000 0.00 0.00 0.00 4.02
1159 1218 4.024984 CCTCCCTCTCCCACCCCA 62.025 72.222 0.00 0.00 0.00 4.96
1266 1325 2.651361 CTCCACACCGTCTCGCTT 59.349 61.111 0.00 0.00 0.00 4.68
1674 1739 3.295273 TGCGTCGCACTGGAGTCT 61.295 61.111 17.58 0.00 31.71 3.24
2612 2680 0.175531 ACATGACATGACGGCGATCA 59.824 50.000 22.19 14.34 0.00 2.92
2614 2682 1.004610 CATGACATGACGGCGATCAAC 60.005 52.381 16.62 10.02 30.82 3.18
2616 2684 0.460284 GACATGACGGCGATCAACCT 60.460 55.000 16.62 0.63 30.82 3.50
2618 2686 1.815421 ATGACGGCGATCAACCTGC 60.815 57.895 16.62 0.00 30.82 4.85
2619 2687 2.125512 GACGGCGATCAACCTGCT 60.126 61.111 16.62 0.00 0.00 4.24
2622 2690 3.512516 GGCGATCAACCTGCTGCC 61.513 66.667 0.00 0.00 35.04 4.85
2623 2691 2.437359 GCGATCAACCTGCTGCCT 60.437 61.111 0.00 0.00 0.00 4.75
2624 2692 2.042831 GCGATCAACCTGCTGCCTT 61.043 57.895 0.00 0.00 0.00 4.35
2625 2693 1.589716 GCGATCAACCTGCTGCCTTT 61.590 55.000 0.00 0.00 0.00 3.11
2626 2694 0.169672 CGATCAACCTGCTGCCTTTG 59.830 55.000 0.00 0.00 0.00 2.77
2627 2695 0.108945 GATCAACCTGCTGCCTTTGC 60.109 55.000 0.00 0.00 38.26 3.68
2638 2706 1.548081 TGCCTTTGCATGTATGTGCT 58.452 45.000 0.00 0.00 44.23 4.40
2648 2716 2.309528 TGTATGTGCTTCATCGACCC 57.690 50.000 0.00 0.00 37.91 4.46
2655 2723 1.092345 GCTTCATCGACCCTGCCTTC 61.092 60.000 0.00 0.00 0.00 3.46
2656 2724 0.462759 CTTCATCGACCCTGCCTTCC 60.463 60.000 0.00 0.00 0.00 3.46
2657 2725 0.909610 TTCATCGACCCTGCCTTCCT 60.910 55.000 0.00 0.00 0.00 3.36
2660 2728 0.909610 ATCGACCCTGCCTTCCTCAA 60.910 55.000 0.00 0.00 0.00 3.02
2678 2751 0.811616 AATCCACGGATTCAGCTCGC 60.812 55.000 5.44 0.00 40.44 5.03
2685 2763 0.105593 GGATTCAGCTCGCTCATCCA 59.894 55.000 16.56 0.00 34.94 3.41
2694 2772 2.941720 GCTCGCTCATCCATTTTCTCTT 59.058 45.455 0.00 0.00 0.00 2.85
2703 2781 7.553881 TCATCCATTTTCTCTTTACGAATCC 57.446 36.000 0.00 0.00 0.00 3.01
2710 2788 7.843490 TTTTCTCTTTACGAATCCCTGTATG 57.157 36.000 0.00 0.00 0.00 2.39
2712 2790 7.649533 TTCTCTTTACGAATCCCTGTATGTA 57.350 36.000 0.00 0.00 0.00 2.29
2713 2791 7.834881 TCTCTTTACGAATCCCTGTATGTAT 57.165 36.000 0.00 0.00 0.00 2.29
2714 2792 8.929260 TCTCTTTACGAATCCCTGTATGTATA 57.071 34.615 0.00 0.00 0.00 1.47
2832 2917 9.499479 AAGATTGTAATTAATCTCTGATGCGAT 57.501 29.630 4.33 0.00 44.43 4.58
2834 2919 8.837788 ATTGTAATTAATCTCTGATGCGATCA 57.162 30.769 0.00 0.00 37.76 2.92
2852 2937 6.094464 TGCGATCATGTGAAGAAATCAATCTT 59.906 34.615 0.00 0.00 42.24 2.40
2870 2955 1.726791 CTTCATTCACCGTCGAACCAG 59.273 52.381 0.00 0.00 0.00 4.00
2880 2965 2.544359 CGAACCAGTCGTTGTGCG 59.456 61.111 0.00 0.00 45.09 5.34
2881 2966 2.235016 CGAACCAGTCGTTGTGCGT 61.235 57.895 0.00 0.00 45.09 5.24
2882 2967 1.275657 GAACCAGTCGTTGTGCGTG 59.724 57.895 0.00 0.00 42.13 5.34
2883 2968 1.426041 GAACCAGTCGTTGTGCGTGT 61.426 55.000 0.00 0.00 42.13 4.49
2924 3009 3.133721 AGATGTTGAGAGTATGACCTGCC 59.866 47.826 0.00 0.00 0.00 4.85
2938 3039 2.917227 TGCCTCTGCTCACCGTCA 60.917 61.111 0.00 0.00 38.71 4.35
2939 3040 2.433318 GCCTCTGCTCACCGTCAC 60.433 66.667 0.00 0.00 33.53 3.67
2973 3075 2.816689 TCGCATCGACCGAAATGTATT 58.183 42.857 7.46 0.00 0.00 1.89
2974 3076 3.967401 TCGCATCGACCGAAATGTATTA 58.033 40.909 7.46 0.00 0.00 0.98
2975 3077 4.361420 TCGCATCGACCGAAATGTATTAA 58.639 39.130 7.46 0.00 0.00 1.40
3002 3104 0.793861 GGCAACTGCGACATTACGAA 59.206 50.000 0.00 0.00 43.26 3.85
3004 3106 2.536928 GGCAACTGCGACATTACGAATC 60.537 50.000 0.00 0.00 43.26 2.52
3010 3113 6.453643 ACTGCGACATTACGAATCATTATC 57.546 37.500 0.00 0.00 35.09 1.75
3013 3116 4.384846 GCGACATTACGAATCATTATCGGT 59.615 41.667 0.00 0.00 44.32 4.69
3019 3122 7.602644 ACATTACGAATCATTATCGGTTGCTAT 59.397 33.333 0.00 0.00 44.32 2.97
3033 3139 3.248602 GGTTGCTATCGATTGTGGCTAAG 59.751 47.826 1.71 0.00 0.00 2.18
3043 3149 4.212847 CGATTGTGGCTAAGATCATCTTGG 59.787 45.833 10.42 8.34 37.29 3.61
3044 3150 4.842531 TTGTGGCTAAGATCATCTTGGA 57.157 40.909 14.70 0.00 37.16 3.53
3046 3152 3.776969 TGTGGCTAAGATCATCTTGGAGT 59.223 43.478 14.70 0.00 37.16 3.85
3047 3153 4.225942 TGTGGCTAAGATCATCTTGGAGTT 59.774 41.667 14.70 0.00 37.16 3.01
3048 3154 5.425217 TGTGGCTAAGATCATCTTGGAGTTA 59.575 40.000 14.70 0.00 37.16 2.24
3051 3157 5.071115 GGCTAAGATCATCTTGGAGTTAGGT 59.929 44.000 14.70 0.00 37.16 3.08
3052 3158 5.988561 GCTAAGATCATCTTGGAGTTAGGTG 59.011 44.000 14.70 0.00 37.16 4.00
3057 3171 0.690762 TCTTGGAGTTAGGTGGGCAC 59.309 55.000 0.00 0.00 0.00 5.01
3062 3176 0.178301 GAGTTAGGTGGGCACTAGGC 59.822 60.000 0.00 0.00 43.74 3.93
3072 3186 1.502190 GCACTAGGCTGTTTTCCGC 59.498 57.895 0.00 0.00 40.25 5.54
3076 3190 1.359459 CTAGGCTGTTTTCCGCGGTC 61.359 60.000 27.15 14.43 0.00 4.79
3085 3199 4.819761 TCCGCGGTCATGAGCTGC 62.820 66.667 27.15 22.42 0.00 5.25
3101 3215 1.414181 GCTGCTTGCTATGTAGGGAGA 59.586 52.381 0.00 0.00 38.95 3.71
3102 3216 2.804933 GCTGCTTGCTATGTAGGGAGAC 60.805 54.545 0.00 0.00 38.95 3.36
3103 3217 2.432146 CTGCTTGCTATGTAGGGAGACA 59.568 50.000 0.00 0.00 0.00 3.41
3105 3219 2.224161 GCTTGCTATGTAGGGAGACAGG 60.224 54.545 0.00 0.00 31.51 4.00
3106 3220 1.414158 TGCTATGTAGGGAGACAGGC 58.586 55.000 0.00 0.00 34.57 4.85
3107 3221 1.062886 TGCTATGTAGGGAGACAGGCT 60.063 52.381 0.00 0.00 34.86 4.58
3108 3222 2.043227 GCTATGTAGGGAGACAGGCTT 58.957 52.381 0.00 0.00 32.62 4.35
3109 3223 2.224161 GCTATGTAGGGAGACAGGCTTG 60.224 54.545 0.00 0.00 32.62 4.01
3110 3224 0.543749 ATGTAGGGAGACAGGCTTGC 59.456 55.000 0.00 0.00 31.51 4.01
3111 3225 0.835971 TGTAGGGAGACAGGCTTGCA 60.836 55.000 0.00 0.00 0.00 4.08
3112 3226 0.107945 GTAGGGAGACAGGCTTGCAG 60.108 60.000 0.00 0.00 0.00 4.41
3113 3227 1.267574 TAGGGAGACAGGCTTGCAGG 61.268 60.000 0.00 0.00 0.00 4.85
3114 3228 2.045536 GGAGACAGGCTTGCAGGG 60.046 66.667 0.00 0.00 0.00 4.45
3115 3229 2.045536 GAGACAGGCTTGCAGGGG 60.046 66.667 0.00 0.00 0.00 4.79
3116 3230 2.530151 AGACAGGCTTGCAGGGGA 60.530 61.111 0.00 0.00 0.00 4.81
3152 3266 2.094545 GGAAATGCTACAGGTTGGCAAG 60.095 50.000 0.00 0.00 39.46 4.01
3169 3283 2.823152 GCAAGGATTTCCAAAGAGGGGT 60.823 50.000 0.00 0.00 38.89 4.95
3193 3307 1.237285 ATGCGTGCAGGGTTCTTCAC 61.237 55.000 8.72 0.00 34.54 3.18
3194 3308 1.598130 GCGTGCAGGGTTCTTCACT 60.598 57.895 8.72 0.00 35.48 3.41
3197 3311 0.890996 GTGCAGGGTTCTTCACTGGG 60.891 60.000 0.00 0.00 46.81 4.45
3198 3312 1.059584 TGCAGGGTTCTTCACTGGGA 61.060 55.000 0.00 0.00 46.81 4.37
3199 3313 0.322008 GCAGGGTTCTTCACTGGGAG 60.322 60.000 0.00 0.00 46.81 4.30
3200 3314 1.059913 CAGGGTTCTTCACTGGGAGT 58.940 55.000 0.00 0.00 43.35 3.85
3201 3315 2.257207 CAGGGTTCTTCACTGGGAGTA 58.743 52.381 0.00 0.00 43.35 2.59
3203 3317 1.975680 GGGTTCTTCACTGGGAGTACA 59.024 52.381 0.00 0.00 0.00 2.90
3204 3318 2.289506 GGGTTCTTCACTGGGAGTACAC 60.290 54.545 0.00 0.00 0.00 2.90
3205 3319 2.367567 GGTTCTTCACTGGGAGTACACA 59.632 50.000 0.00 0.00 0.00 3.72
3236 3358 7.044181 TCATGTCATGTTACTCTTTCCTGATC 58.956 38.462 12.54 0.00 0.00 2.92
3294 3416 2.051518 GGGCCGCATTCATGAACCA 61.052 57.895 11.07 0.00 0.00 3.67
3299 3421 1.535226 CCGCATTCATGAACCAGCATG 60.535 52.381 21.83 12.92 45.41 4.06
3367 3492 3.244181 TGTGTAGCAGCATCTGAAGAACA 60.244 43.478 0.00 0.00 32.44 3.18
3436 3561 2.032924 GCATTGTTATCCGTAACCCTGC 59.967 50.000 6.51 6.51 39.55 4.85
3441 3566 1.991121 TATCCGTAACCCTGCTCGAT 58.009 50.000 0.00 0.00 0.00 3.59
3458 3583 0.741221 GATCTCCGTGCTGGTCAACC 60.741 60.000 0.00 0.00 39.52 3.77
3491 3623 3.766151 TGTACTCGTATTGCTTCTTCCG 58.234 45.455 0.00 0.00 0.00 4.30
3492 3624 3.441222 TGTACTCGTATTGCTTCTTCCGA 59.559 43.478 0.00 0.00 0.00 4.55
3562 3694 4.264253 CAGGTAGAAATGCAGAATGGTCA 58.736 43.478 0.00 0.00 35.86 4.02
3563 3695 4.095483 CAGGTAGAAATGCAGAATGGTCAC 59.905 45.833 0.00 0.00 35.86 3.67
3564 3696 4.018960 AGGTAGAAATGCAGAATGGTCACT 60.019 41.667 0.00 0.00 35.86 3.41
3565 3697 4.333926 GGTAGAAATGCAGAATGGTCACTC 59.666 45.833 0.00 0.00 35.86 3.51
3566 3698 3.005554 AGAAATGCAGAATGGTCACTCG 58.994 45.455 0.00 0.00 35.86 4.18
3568 3700 0.036105 ATGCAGAATGGTCACTCGCA 60.036 50.000 0.00 0.00 35.86 5.10
3569 3701 0.250252 TGCAGAATGGTCACTCGCAA 60.250 50.000 0.00 0.00 35.86 4.85
3571 3703 1.266718 GCAGAATGGTCACTCGCAAAA 59.733 47.619 0.00 0.00 35.86 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.874134 GCTATGTGTTATGATATTCCCTTCGT 59.126 38.462 0.00 0.00 0.00 3.85
1 2 6.313905 GGCTATGTGTTATGATATTCCCTTCG 59.686 42.308 0.00 0.00 0.00 3.79
2 3 7.168219 TGGCTATGTGTTATGATATTCCCTTC 58.832 38.462 0.00 0.00 0.00 3.46
3 4 7.090319 TGGCTATGTGTTATGATATTCCCTT 57.910 36.000 0.00 0.00 0.00 3.95
4 5 6.702449 TGGCTATGTGTTATGATATTCCCT 57.298 37.500 0.00 0.00 0.00 4.20
5 6 7.759489 TTTGGCTATGTGTTATGATATTCCC 57.241 36.000 0.00 0.00 0.00 3.97
8 9 9.985730 CCATTTTTGGCTATGTGTTATGATATT 57.014 29.630 0.00 0.00 0.00 1.28
25 26 3.323403 TGTAACTCCCTTGCCATTTTTGG 59.677 43.478 0.00 0.00 0.00 3.28
26 27 4.599047 TGTAACTCCCTTGCCATTTTTG 57.401 40.909 0.00 0.00 0.00 2.44
27 28 5.622346 TTTGTAACTCCCTTGCCATTTTT 57.378 34.783 0.00 0.00 0.00 1.94
28 29 5.823861 ATTTGTAACTCCCTTGCCATTTT 57.176 34.783 0.00 0.00 0.00 1.82
29 30 6.127083 CCATATTTGTAACTCCCTTGCCATTT 60.127 38.462 0.00 0.00 0.00 2.32
30 31 5.363580 CCATATTTGTAACTCCCTTGCCATT 59.636 40.000 0.00 0.00 0.00 3.16
31 32 4.895297 CCATATTTGTAACTCCCTTGCCAT 59.105 41.667 0.00 0.00 0.00 4.40
32 33 4.017958 TCCATATTTGTAACTCCCTTGCCA 60.018 41.667 0.00 0.00 0.00 4.92
33 34 4.532834 TCCATATTTGTAACTCCCTTGCC 58.467 43.478 0.00 0.00 0.00 4.52
34 35 6.152831 ACTTTCCATATTTGTAACTCCCTTGC 59.847 38.462 0.00 0.00 0.00 4.01
35 36 7.703058 ACTTTCCATATTTGTAACTCCCTTG 57.297 36.000 0.00 0.00 0.00 3.61
36 37 9.239551 GTAACTTTCCATATTTGTAACTCCCTT 57.760 33.333 0.00 0.00 0.00 3.95
37 38 8.387813 TGTAACTTTCCATATTTGTAACTCCCT 58.612 33.333 0.00 0.00 0.00 4.20
38 39 8.570068 TGTAACTTTCCATATTTGTAACTCCC 57.430 34.615 0.00 0.00 0.00 4.30
41 42 8.889717 CGGATGTAACTTTCCATATTTGTAACT 58.110 33.333 0.00 0.00 31.99 2.24
42 43 8.126700 CCGGATGTAACTTTCCATATTTGTAAC 58.873 37.037 0.00 0.00 31.99 2.50
43 44 7.283580 CCCGGATGTAACTTTCCATATTTGTAA 59.716 37.037 0.73 0.00 31.99 2.41
44 45 6.768861 CCCGGATGTAACTTTCCATATTTGTA 59.231 38.462 0.73 0.00 31.99 2.41
45 46 5.592688 CCCGGATGTAACTTTCCATATTTGT 59.407 40.000 0.73 0.00 31.99 2.83
46 47 5.009610 CCCCGGATGTAACTTTCCATATTTG 59.990 44.000 0.73 0.00 31.99 2.32
47 48 5.137551 CCCCGGATGTAACTTTCCATATTT 58.862 41.667 0.73 0.00 31.99 1.40
48 49 4.167307 ACCCCGGATGTAACTTTCCATATT 59.833 41.667 0.73 0.00 31.99 1.28
49 50 3.720002 ACCCCGGATGTAACTTTCCATAT 59.280 43.478 0.73 0.00 31.99 1.78
50 51 3.116959 ACCCCGGATGTAACTTTCCATA 58.883 45.455 0.73 0.00 31.99 2.74
51 52 1.920351 ACCCCGGATGTAACTTTCCAT 59.080 47.619 0.73 0.00 31.99 3.41
52 53 1.003812 CACCCCGGATGTAACTTTCCA 59.996 52.381 0.73 0.00 31.99 3.53
53 54 1.003928 ACACCCCGGATGTAACTTTCC 59.996 52.381 0.73 0.00 0.00 3.13
54 55 2.484742 ACACCCCGGATGTAACTTTC 57.515 50.000 0.73 0.00 0.00 2.62
55 56 2.963599 AACACCCCGGATGTAACTTT 57.036 45.000 0.73 0.00 0.00 2.66
56 57 2.638855 TGTAACACCCCGGATGTAACTT 59.361 45.455 0.73 0.00 0.00 2.66
57 58 2.259012 TGTAACACCCCGGATGTAACT 58.741 47.619 0.73 0.00 0.00 2.24
58 59 2.766345 TGTAACACCCCGGATGTAAC 57.234 50.000 0.73 0.05 0.00 2.50
59 60 3.072768 AGTTTGTAACACCCCGGATGTAA 59.927 43.478 0.73 0.00 0.00 2.41
60 61 2.638855 AGTTTGTAACACCCCGGATGTA 59.361 45.455 0.73 0.00 0.00 2.29
61 62 1.422402 AGTTTGTAACACCCCGGATGT 59.578 47.619 0.73 3.79 0.00 3.06
62 63 2.081462 GAGTTTGTAACACCCCGGATG 58.919 52.381 0.73 2.98 0.00 3.51
63 64 1.982958 AGAGTTTGTAACACCCCGGAT 59.017 47.619 0.73 0.00 0.00 4.18
64 65 1.345415 GAGAGTTTGTAACACCCCGGA 59.655 52.381 0.73 0.00 0.00 5.14
65 66 1.609841 GGAGAGTTTGTAACACCCCGG 60.610 57.143 0.00 0.00 0.00 5.73
66 67 1.609841 GGGAGAGTTTGTAACACCCCG 60.610 57.143 0.00 0.00 36.34 5.73
67 68 1.422402 TGGGAGAGTTTGTAACACCCC 59.578 52.381 0.00 0.00 39.23 4.95
68 69 2.105993 ACTGGGAGAGTTTGTAACACCC 59.894 50.000 0.00 0.00 39.87 4.61
69 70 3.487120 ACTGGGAGAGTTTGTAACACC 57.513 47.619 0.00 0.00 0.00 4.16
70 71 4.448210 TCAACTGGGAGAGTTTGTAACAC 58.552 43.478 0.00 0.00 42.70 3.32
71 72 4.407621 TCTCAACTGGGAGAGTTTGTAACA 59.592 41.667 0.00 0.00 42.70 2.41
72 73 4.957296 TCTCAACTGGGAGAGTTTGTAAC 58.043 43.478 0.00 0.00 42.70 2.50
73 74 5.306937 TGATCTCAACTGGGAGAGTTTGTAA 59.693 40.000 7.27 0.00 46.36 2.41
74 75 4.838423 TGATCTCAACTGGGAGAGTTTGTA 59.162 41.667 7.27 0.00 46.36 2.41
75 76 3.648067 TGATCTCAACTGGGAGAGTTTGT 59.352 43.478 7.27 0.00 46.36 2.83
76 77 4.277515 TGATCTCAACTGGGAGAGTTTG 57.722 45.455 7.27 0.00 46.36 2.93
77 78 4.982241 TTGATCTCAACTGGGAGAGTTT 57.018 40.909 7.27 0.00 46.36 2.66
88 89 5.026462 CGCAAGTGAATCATTGATCTCAAC 58.974 41.667 0.00 0.00 38.86 3.18
111 113 8.143193 TCAATATGATAATGTCCATGGCAAAAC 58.857 33.333 6.96 0.00 0.00 2.43
112 114 8.247666 TCAATATGATAATGTCCATGGCAAAA 57.752 30.769 6.96 1.90 0.00 2.44
244 246 5.686841 CGTTGCAAAGATTGTCTGAAAATCA 59.313 36.000 19.88 0.00 36.65 2.57
253 256 2.481952 AGCTCTCGTTGCAAAGATTGTC 59.518 45.455 15.52 5.89 0.00 3.18
256 259 3.051081 AGAGCTCTCGTTGCAAAGATT 57.949 42.857 15.52 2.50 34.09 2.40
268 271 2.743938 TGACAACAACGAAGAGCTCTC 58.256 47.619 18.55 9.76 0.00 3.20
297 301 5.246307 GCACAACCTAATCACCTCTTAAGT 58.754 41.667 1.63 0.00 0.00 2.24
310 314 3.688694 ATTACTCCACGCACAACCTAA 57.311 42.857 0.00 0.00 0.00 2.69
320 345 7.772332 AAACTATGAGCTAAATTACTCCACG 57.228 36.000 0.00 0.00 31.65 4.94
479 508 6.011122 AGACCTTCTTTGATGGATATGCTT 57.989 37.500 6.51 0.00 32.18 3.91
480 509 5.643421 AGACCTTCTTTGATGGATATGCT 57.357 39.130 6.51 0.00 32.18 3.79
481 510 6.705863 AAAGACCTTCTTTGATGGATATGC 57.294 37.500 0.32 0.00 44.34 3.14
482 511 8.348507 GCTAAAAGACCTTCTTTGATGGATATG 58.651 37.037 1.98 0.00 45.19 1.78
483 512 7.503902 GGCTAAAAGACCTTCTTTGATGGATAT 59.496 37.037 1.98 0.00 45.19 1.63
484 513 6.828785 GGCTAAAAGACCTTCTTTGATGGATA 59.171 38.462 1.98 0.00 45.19 2.59
544 577 4.511527 ACTATCTGATTGCACTTGTCAGG 58.488 43.478 14.15 5.05 39.77 3.86
565 598 6.750501 TGTTAATCAGCTAATCAGACACGTAC 59.249 38.462 0.00 0.00 0.00 3.67
566 599 6.859017 TGTTAATCAGCTAATCAGACACGTA 58.141 36.000 0.00 0.00 0.00 3.57
567 600 5.720202 TGTTAATCAGCTAATCAGACACGT 58.280 37.500 0.00 0.00 0.00 4.49
580 613 6.523201 CGGTTTGTAAGACATTGTTAATCAGC 59.477 38.462 0.00 0.00 0.00 4.26
623 657 8.110860 AGTAATTTACTGATTCCAACTTGTGG 57.889 34.615 8.27 0.00 42.70 4.17
650 684 0.172803 ATGGACGCTCGTTGAGGTAC 59.827 55.000 0.00 0.00 0.00 3.34
663 702 3.068165 TGGAAGTAGCTATGACATGGACG 59.932 47.826 2.48 0.00 0.00 4.79
798 839 1.475280 CAACACCATGGAGATGCAAGG 59.525 52.381 21.47 0.00 0.00 3.61
990 1047 1.922135 GCGGTTGCATGGTGTGGTAG 61.922 60.000 0.00 0.00 42.15 3.18
1110 1169 1.762460 GAGGGAGGCGGAGATGGAA 60.762 63.158 0.00 0.00 0.00 3.53
1339 1398 3.368571 GTCGGACTCGGACCCGTT 61.369 66.667 8.42 0.00 45.48 4.44
1665 1730 1.979693 GGCGGTGAGAGACTCCAGT 60.980 63.158 0.00 0.00 32.94 4.00
1672 1737 3.125573 CGACGAGGCGGTGAGAGA 61.126 66.667 0.00 0.00 0.00 3.10
1737 1802 4.687215 GCTGCACAGGCCACGAGA 62.687 66.667 5.01 0.00 40.13 4.04
1950 2015 2.572733 CTCGACCTTGAGGCTCTGA 58.427 57.895 16.72 3.53 39.32 3.27
1989 2054 2.665185 AAGTCCTTGACGCACGCC 60.665 61.111 0.00 0.00 37.67 5.68
1991 2056 1.006102 AGGAAGTCCTTGACGCACG 60.006 57.895 0.00 0.00 46.09 5.34
1992 2057 0.951040 CCAGGAAGTCCTTGACGCAC 60.951 60.000 0.00 0.00 46.09 5.34
2626 2694 2.032549 GGTCGATGAAGCACATACATGC 60.033 50.000 0.00 0.00 46.50 4.06
2627 2695 2.545526 GGGTCGATGAAGCACATACATG 59.454 50.000 0.00 0.00 39.56 3.21
2628 2696 2.435805 AGGGTCGATGAAGCACATACAT 59.564 45.455 0.00 0.00 39.56 2.29
2629 2697 1.831106 AGGGTCGATGAAGCACATACA 59.169 47.619 0.00 0.00 39.56 2.29
2630 2698 2.205074 CAGGGTCGATGAAGCACATAC 58.795 52.381 0.00 0.00 39.56 2.39
2631 2699 1.473257 GCAGGGTCGATGAAGCACATA 60.473 52.381 0.00 0.00 39.56 2.29
2632 2700 0.745845 GCAGGGTCGATGAAGCACAT 60.746 55.000 0.00 0.00 42.47 3.21
2633 2701 1.375908 GCAGGGTCGATGAAGCACA 60.376 57.895 0.00 0.00 0.00 4.57
2634 2702 2.109126 GGCAGGGTCGATGAAGCAC 61.109 63.158 0.00 0.00 0.00 4.40
2637 2705 0.462759 GGAAGGCAGGGTCGATGAAG 60.463 60.000 0.00 0.00 0.00 3.02
2638 2706 0.909610 AGGAAGGCAGGGTCGATGAA 60.910 55.000 0.00 0.00 0.00 2.57
2648 2716 0.745845 CCGTGGATTGAGGAAGGCAG 60.746 60.000 0.00 0.00 0.00 4.85
2655 2723 1.134280 AGCTGAATCCGTGGATTGAGG 60.134 52.381 23.63 12.81 43.03 3.86
2656 2724 2.208431 GAGCTGAATCCGTGGATTGAG 58.792 52.381 19.85 19.85 44.71 3.02
2657 2725 1.471501 CGAGCTGAATCCGTGGATTGA 60.472 52.381 18.49 9.62 43.98 2.57
2660 2728 1.227380 GCGAGCTGAATCCGTGGAT 60.227 57.895 0.00 0.00 36.23 3.41
2678 2751 7.254932 GGGATTCGTAAAGAGAAAATGGATGAG 60.255 40.741 0.00 0.00 0.00 2.90
2685 2763 8.047310 ACATACAGGGATTCGTAAAGAGAAAAT 58.953 33.333 0.00 0.00 0.00 1.82
2694 2772 9.483916 CAACAATATACATACAGGGATTCGTAA 57.516 33.333 0.00 0.00 0.00 3.18
2710 2788 9.485591 CACTCGTATGAAAAACCAACAATATAC 57.514 33.333 0.00 0.00 0.00 1.47
2712 2790 7.175990 ACCACTCGTATGAAAAACCAACAATAT 59.824 33.333 0.00 0.00 0.00 1.28
2713 2791 6.487331 ACCACTCGTATGAAAAACCAACAATA 59.513 34.615 0.00 0.00 0.00 1.90
2714 2792 5.300792 ACCACTCGTATGAAAAACCAACAAT 59.699 36.000 0.00 0.00 0.00 2.71
2852 2937 0.677288 ACTGGTTCGACGGTGAATGA 59.323 50.000 0.00 0.00 0.00 2.57
2875 2960 0.527600 GTCAGACAGACACACGCACA 60.528 55.000 0.00 0.00 46.77 4.57
2876 2961 2.217112 GTCAGACAGACACACGCAC 58.783 57.895 0.00 0.00 46.77 5.34
2877 2962 4.730081 GTCAGACAGACACACGCA 57.270 55.556 0.00 0.00 46.77 5.24
2924 3009 0.387878 GACAGTGACGGTGAGCAGAG 60.388 60.000 0.00 0.00 0.00 3.35
2960 3061 6.311723 CCGGCATTATTAATACATTTCGGTC 58.688 40.000 0.00 0.00 0.00 4.79
2973 3075 0.660488 CGCAGTTGCCGGCATTATTA 59.340 50.000 33.25 12.81 37.91 0.98
2974 3076 1.029408 TCGCAGTTGCCGGCATTATT 61.029 50.000 33.25 10.68 37.91 1.40
2975 3077 1.451207 TCGCAGTTGCCGGCATTAT 60.451 52.632 33.25 16.72 37.91 1.28
3002 3104 6.091305 CACAATCGATAGCAACCGATAATGAT 59.909 38.462 0.00 0.00 43.72 2.45
3004 3106 5.389830 CCACAATCGATAGCAACCGATAATG 60.390 44.000 0.00 8.45 43.72 1.90
3010 3113 0.304705 GCCACAATCGATAGCAACCG 59.695 55.000 0.00 0.00 0.00 4.44
3013 3116 4.400529 TCTTAGCCACAATCGATAGCAA 57.599 40.909 0.00 0.00 0.00 3.91
3019 3122 4.944619 AGATGATCTTAGCCACAATCGA 57.055 40.909 0.00 0.00 0.00 3.59
3033 3139 3.745797 GCCCACCTAACTCCAAGATGATC 60.746 52.174 0.00 0.00 0.00 2.92
3043 3149 0.178301 GCCTAGTGCCCACCTAACTC 59.822 60.000 0.00 0.00 0.00 3.01
3044 3150 0.252742 AGCCTAGTGCCCACCTAACT 60.253 55.000 0.00 0.00 42.71 2.24
3046 3152 0.546747 ACAGCCTAGTGCCCACCTAA 60.547 55.000 0.00 0.00 42.71 2.69
3047 3153 0.546747 AACAGCCTAGTGCCCACCTA 60.547 55.000 0.00 0.00 42.71 3.08
3048 3154 1.427072 AAACAGCCTAGTGCCCACCT 61.427 55.000 0.00 0.00 42.71 4.00
3051 3157 0.251165 GGAAAACAGCCTAGTGCCCA 60.251 55.000 0.21 0.00 42.71 5.36
3052 3158 1.305930 CGGAAAACAGCCTAGTGCCC 61.306 60.000 0.21 0.00 42.71 5.36
3057 3171 1.359459 GACCGCGGAAAACAGCCTAG 61.359 60.000 35.90 0.00 0.00 3.02
3062 3176 0.443869 CTCATGACCGCGGAAAACAG 59.556 55.000 35.90 17.47 0.00 3.16
3072 3186 2.789917 GCAAGCAGCTCATGACCG 59.210 61.111 0.00 0.00 41.15 4.79
3085 3199 2.224161 GCCTGTCTCCCTACATAGCAAG 60.224 54.545 0.00 0.00 31.96 4.01
3092 3206 0.835971 TGCAAGCCTGTCTCCCTACA 60.836 55.000 0.00 0.00 0.00 2.74
3094 3208 1.267574 CCTGCAAGCCTGTCTCCCTA 61.268 60.000 0.00 0.00 0.00 3.53
3098 3212 2.045536 CCCCTGCAAGCCTGTCTC 60.046 66.667 0.00 0.00 0.00 3.36
3101 3215 3.177884 TGTCCCCTGCAAGCCTGT 61.178 61.111 0.00 0.00 0.00 4.00
3102 3216 2.674380 GTGTCCCCTGCAAGCCTG 60.674 66.667 0.00 0.00 0.00 4.85
3103 3217 2.011617 AAAGTGTCCCCTGCAAGCCT 62.012 55.000 0.00 0.00 0.00 4.58
3105 3219 0.538287 AGAAAGTGTCCCCTGCAAGC 60.538 55.000 0.00 0.00 0.00 4.01
3106 3220 1.072965 AGAGAAAGTGTCCCCTGCAAG 59.927 52.381 0.00 0.00 0.00 4.01
3107 3221 1.140312 AGAGAAAGTGTCCCCTGCAA 58.860 50.000 0.00 0.00 0.00 4.08
3108 3222 0.397941 CAGAGAAAGTGTCCCCTGCA 59.602 55.000 0.00 0.00 0.00 4.41
3109 3223 0.687354 TCAGAGAAAGTGTCCCCTGC 59.313 55.000 0.00 0.00 31.11 4.85
3110 3224 3.406764 CTTTCAGAGAAAGTGTCCCCTG 58.593 50.000 10.52 0.00 0.00 4.45
3111 3225 2.373502 CCTTTCAGAGAAAGTGTCCCCT 59.626 50.000 15.85 0.00 0.00 4.79
3112 3226 2.372172 TCCTTTCAGAGAAAGTGTCCCC 59.628 50.000 15.85 0.00 0.00 4.81
3113 3227 3.771577 TCCTTTCAGAGAAAGTGTCCC 57.228 47.619 15.85 0.00 0.00 4.46
3114 3228 5.563671 GCATTTCCTTTCAGAGAAAGTGTCC 60.564 44.000 15.85 0.00 35.57 4.02
3115 3229 5.240403 AGCATTTCCTTTCAGAGAAAGTGTC 59.760 40.000 15.85 6.50 35.57 3.67
3116 3230 5.136105 AGCATTTCCTTTCAGAGAAAGTGT 58.864 37.500 15.85 0.12 35.57 3.55
3152 3266 5.906772 TCTATACCCCTCTTTGGAAATCC 57.093 43.478 0.00 0.00 38.35 3.01
3169 3283 2.039418 AGAACCCTGCACGCATCTATA 58.961 47.619 0.00 0.00 0.00 1.31
3193 3307 2.803956 TGAGGTAGTGTGTACTCCCAG 58.196 52.381 0.00 0.00 35.48 4.45
3194 3308 2.984435 TGAGGTAGTGTGTACTCCCA 57.016 50.000 0.00 0.00 35.48 4.37
3197 3311 5.105716 ACATGACATGAGGTAGTGTGTACTC 60.106 44.000 22.19 0.00 38.36 2.59
3198 3312 4.772624 ACATGACATGAGGTAGTGTGTACT 59.227 41.667 22.19 0.00 40.99 2.73
3199 3313 5.073311 ACATGACATGAGGTAGTGTGTAC 57.927 43.478 22.19 0.00 0.00 2.90
3200 3314 5.738619 AACATGACATGAGGTAGTGTGTA 57.261 39.130 22.19 0.00 30.32 2.90
3201 3315 4.623932 AACATGACATGAGGTAGTGTGT 57.376 40.909 22.19 0.00 30.32 3.72
3203 3317 5.717178 AGAGTAACATGACATGAGGTAGTGT 59.283 40.000 22.19 9.13 0.00 3.55
3204 3318 6.214191 AGAGTAACATGACATGAGGTAGTG 57.786 41.667 22.19 0.00 0.00 2.74
3205 3319 6.859112 AAGAGTAACATGACATGAGGTAGT 57.141 37.500 22.19 12.51 0.00 2.73
3277 3399 1.434696 CTGGTTCATGAATGCGGCC 59.565 57.895 12.12 8.21 0.00 6.13
3294 3416 0.324923 ATGCCCACACCATTCATGCT 60.325 50.000 0.00 0.00 0.00 3.79
3299 3421 1.386525 ATGCGATGCCCACACCATTC 61.387 55.000 0.00 0.00 0.00 2.67
3367 3492 5.277634 GCAAGAAAAGAAAAATGCATGCAGT 60.278 36.000 26.69 21.79 34.10 4.40
3436 3561 1.064946 GACCAGCACGGAGATCGAG 59.935 63.158 0.00 0.00 42.43 4.04
3441 3566 2.741092 GGTTGACCAGCACGGAGA 59.259 61.111 0.00 0.00 38.63 3.71
3458 3583 7.114953 AGCAATACGAGTACATGATTATCAACG 59.885 37.037 0.00 0.00 0.00 4.10
3515 3647 2.421739 GTCAGTGGCCACGTGACT 59.578 61.111 36.00 20.28 36.95 3.41
3576 3708 3.542969 ACCCCTACCATTCTGCTTTTT 57.457 42.857 0.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.