Multiple sequence alignment - TraesCS3D01G426200

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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 TraesCS3D01G426200 chr3D 100.000 2831 0 0 1 2831 538700615 538697785 0.000000e+00 5228.0
1 TraesCS3D01G426200 chr3D 87.553 1422 101 33 499 1859 538688021 538686615 0.000000e+00 1576.0
2 TraesCS3D01G426200 chr3D 78.664 1317 149 72 546 1792 538516249 538514995 0.000000e+00 754.0
3 TraesCS3D01G426200 chr3D 84.016 757 91 18 949 1682 538574187 538573438 0.000000e+00 701.0
4 TraesCS3D01G426200 chr3D 84.615 247 29 5 1 240 538688585 538688341 1.310000e-58 237.0
5 TraesCS3D01G426200 chr3B 91.324 1118 68 19 791 1882 713969054 713967940 0.000000e+00 1500.0
6 TraesCS3D01G426200 chr3B 90.095 838 59 14 796 1617 713988481 713987652 0.000000e+00 1066.0
7 TraesCS3D01G426200 chr3B 88.127 817 57 18 1 799 713969867 713969073 0.000000e+00 935.0
8 TraesCS3D01G426200 chr3B 90.309 712 47 12 1 706 713989273 713988578 0.000000e+00 913.0
9 TraesCS3D01G426200 chr3B 78.085 1337 156 64 546 1800 713392472 713391191 0.000000e+00 719.0
10 TraesCS3D01G426200 chr3B 82.853 764 77 24 949 1690 713492951 713492220 1.110000e-178 636.0
11 TraesCS3D01G426200 chr3A 94.310 949 35 4 948 1881 674061300 674060356 0.000000e+00 1435.0
12 TraesCS3D01G426200 chr3A 90.279 1039 79 13 791 1815 674025797 674024767 0.000000e+00 1339.0
13 TraesCS3D01G426200 chr3A 93.676 680 38 3 1880 2558 674053933 674053258 0.000000e+00 1013.0
14 TraesCS3D01G426200 chr3A 78.349 1284 145 77 611 1800 673923927 673922683 0.000000e+00 708.0
15 TraesCS3D01G426200 chr3A 80.742 431 53 22 395 799 674026247 674025821 2.740000e-80 309.0
16 TraesCS3D01G426200 chr3A 86.254 291 25 5 102 378 674068342 674068053 4.580000e-78 302.0
17 TraesCS3D01G426200 chr3A 81.250 304 40 11 1 295 674026788 674026493 2.190000e-56 230.0
18 TraesCS3D01G426200 chr3A 90.351 114 10 1 791 904 674061412 674061300 6.320000e-32 148.0
19 TraesCS3D01G426200 chr7B 77.368 190 25 12 1887 2065 366043148 366043330 2.320000e-16 97.1
20 TraesCS3D01G426200 chr4A 82.927 82 8 6 1988 2067 568196296 568196373 5.060000e-08 69.4
21 TraesCS3D01G426200 chr6A 83.824 68 10 1 1989 2056 5097089 5097023 2.350000e-06 63.9


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 TraesCS3D01G426200 chr3D 538697785 538700615 2830 True 5228.0 5228 100.000000 1 2831 1 chr3D.!!$R3 2830
1 TraesCS3D01G426200 chr3D 538686615 538688585 1970 True 906.5 1576 86.084000 1 1859 2 chr3D.!!$R4 1858
2 TraesCS3D01G426200 chr3D 538514995 538516249 1254 True 754.0 754 78.664000 546 1792 1 chr3D.!!$R1 1246
3 TraesCS3D01G426200 chr3D 538573438 538574187 749 True 701.0 701 84.016000 949 1682 1 chr3D.!!$R2 733
4 TraesCS3D01G426200 chr3B 713967940 713969867 1927 True 1217.5 1500 89.725500 1 1882 2 chr3B.!!$R3 1881
5 TraesCS3D01G426200 chr3B 713987652 713989273 1621 True 989.5 1066 90.202000 1 1617 2 chr3B.!!$R4 1616
6 TraesCS3D01G426200 chr3B 713391191 713392472 1281 True 719.0 719 78.085000 546 1800 1 chr3B.!!$R1 1254
7 TraesCS3D01G426200 chr3B 713492220 713492951 731 True 636.0 636 82.853000 949 1690 1 chr3B.!!$R2 741
8 TraesCS3D01G426200 chr3A 674053258 674053933 675 True 1013.0 1013 93.676000 1880 2558 1 chr3A.!!$R2 678
9 TraesCS3D01G426200 chr3A 674060356 674061412 1056 True 791.5 1435 92.330500 791 1881 2 chr3A.!!$R5 1090
10 TraesCS3D01G426200 chr3A 673922683 673923927 1244 True 708.0 708 78.349000 611 1800 1 chr3A.!!$R1 1189
11 TraesCS3D01G426200 chr3A 674024767 674026788 2021 True 626.0 1339 84.090333 1 1815 3 chr3A.!!$R4 1814

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
674 880 0.178961 GGGGAGGCAAAGAACCTTGT 60.179 55.0 0.0 0.0 37.77 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2650 3013 0.107214 ACCATACCCGCCATGAAGTG 60.107 55.0 0.0 0.0 0.0 3.16 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
76 77 7.608376 TGATTCCGTTTCCAAATAATACTCACA 59.392 33.333 0.00 0.00 0.00 3.58
152 154 2.888414 GGTTTCAGATTTTTGACCCGGA 59.112 45.455 0.73 0.00 0.00 5.14
177 179 4.471726 GCACGGCTGCATGCACTC 62.472 66.667 18.46 11.46 43.62 3.51
220 232 3.157932 AGCTCTATCGTCAGTTTCAGC 57.842 47.619 0.00 0.00 0.00 4.26
249 274 4.458989 TCTTGTTTCCTCATACATGCAACC 59.541 41.667 0.00 0.00 0.00 3.77
340 434 0.249155 TACAATACGCGGGCAGCTAC 60.249 55.000 12.47 0.00 45.59 3.58
342 436 1.227263 AATACGCGGGCAGCTACAG 60.227 57.895 12.47 0.00 45.59 2.74
343 437 3.792053 ATACGCGGGCAGCTACAGC 62.792 63.158 12.47 3.21 45.59 4.40
363 457 2.364002 GCCTTAGAGGTGATCAGACTCC 59.636 54.545 18.85 7.67 37.80 3.85
379 549 4.749099 CAGACTCCTCTGACTGAAAAACTG 59.251 45.833 0.00 0.00 46.32 3.16
380 550 4.407296 AGACTCCTCTGACTGAAAAACTGT 59.593 41.667 0.00 0.00 0.00 3.55
451 627 9.342308 CATATATTTCTTCCTTAGCCTCAACAA 57.658 33.333 0.00 0.00 0.00 2.83
455 631 5.755409 TCTTCCTTAGCCTCAACAACATA 57.245 39.130 0.00 0.00 0.00 2.29
473 677 6.126710 ACAACATATAGATTAACCGTCCCCAA 60.127 38.462 0.00 0.00 0.00 4.12
476 680 6.043938 ACATATAGATTAACCGTCCCCAATGT 59.956 38.462 0.00 0.00 0.00 2.71
480 684 2.785540 TAACCGTCCCCAATGTAACC 57.214 50.000 0.00 0.00 0.00 2.85
481 685 0.772384 AACCGTCCCCAATGTAACCA 59.228 50.000 0.00 0.00 0.00 3.67
484 688 1.065053 CCGTCCCCAATGTAACCATGA 60.065 52.381 0.00 0.00 0.00 3.07
485 689 2.619332 CCGTCCCCAATGTAACCATGAA 60.619 50.000 0.00 0.00 0.00 2.57
488 692 4.159506 CGTCCCCAATGTAACCATGAATTT 59.840 41.667 0.00 0.00 0.00 1.82
525 729 3.973657 ACGTGTACAGAACCTACAACAG 58.026 45.455 0.00 0.00 0.00 3.16
527 731 3.724374 GTGTACAGAACCTACAACAGCA 58.276 45.455 0.00 0.00 0.00 4.41
532 736 2.942376 CAGAACCTACAACAGCAACACA 59.058 45.455 0.00 0.00 0.00 3.72
539 743 3.275617 ACAACAGCAACACAAGGAGTA 57.724 42.857 0.00 0.00 0.00 2.59
601 805 3.387699 TGATGAGGATAACATTCGGAGCA 59.612 43.478 0.00 0.00 0.00 4.26
655 861 0.179062 CTGATCTGGAAAGGGCGAGG 60.179 60.000 0.00 0.00 0.00 4.63
674 880 0.178961 GGGGAGGCAAAGAACCTTGT 60.179 55.000 0.00 0.00 37.77 3.16
708 914 2.635444 GTGCAACGTGTTGTATCACAC 58.365 47.619 13.73 9.03 43.23 3.82
709 915 2.031068 GTGCAACGTGTTGTATCACACA 59.969 45.455 13.73 0.00 46.45 3.72
710 916 2.678336 TGCAACGTGTTGTATCACACAA 59.322 40.909 13.73 0.00 46.45 3.33
721 927 4.265893 TGTATCACACAAACACAACACCT 58.734 39.130 0.00 0.00 32.95 4.00
733 939 7.331687 ACAAACACAACACCTACCGTATATTAC 59.668 37.037 0.00 0.00 0.00 1.89
744 950 2.409012 CGTATATTACCATGGCGCACA 58.591 47.619 13.04 5.20 0.00 4.57
764 981 6.051717 GCACAAGATACAATCATACAGACCT 58.948 40.000 0.00 0.00 0.00 3.85
769 986 8.824781 CAAGATACAATCATACAGACCTCAAAG 58.175 37.037 0.00 0.00 0.00 2.77
774 991 2.012673 CATACAGACCTCAAAGCAGCC 58.987 52.381 0.00 0.00 0.00 4.85
905 1153 9.417561 CATTATCCTATCCTATGGCATCAAAAT 57.582 33.333 1.65 0.00 0.00 1.82
946 1195 5.606348 ATGGAATAGTCTTCAGTCTGTCC 57.394 43.478 0.00 0.00 0.00 4.02
954 1210 3.017442 TCTTCAGTCTGTCCACCTATCG 58.983 50.000 0.00 0.00 0.00 2.92
968 1224 2.296692 CTATCGCACGCAGCAACCAC 62.297 60.000 0.00 0.00 46.13 4.16
1887 2249 6.118170 AGTCATCTAAAATGTGATCACAGGG 58.882 40.000 30.63 18.35 45.48 4.45
1900 2262 1.597854 ACAGGGTGTGCGTGACATG 60.598 57.895 0.00 0.00 36.78 3.21
1930 2292 6.370994 CAGGTCACATCATCAATCTTATAGGC 59.629 42.308 0.00 0.00 0.00 3.93
1933 2295 6.933521 GTCACATCATCAATCTTATAGGCAGT 59.066 38.462 0.00 0.00 0.00 4.40
1935 2297 5.704515 ACATCATCAATCTTATAGGCAGTGC 59.295 40.000 6.55 6.55 0.00 4.40
1948 2310 0.887387 GCAGTGCGAGGGTTTTGGTA 60.887 55.000 0.00 0.00 0.00 3.25
1949 2311 1.600023 CAGTGCGAGGGTTTTGGTAA 58.400 50.000 0.00 0.00 0.00 2.85
1950 2312 1.950909 CAGTGCGAGGGTTTTGGTAAA 59.049 47.619 0.00 0.00 0.00 2.01
1951 2313 2.359531 CAGTGCGAGGGTTTTGGTAAAA 59.640 45.455 0.00 0.00 0.00 1.52
2000 2363 7.489574 TTTTAAAACCCTTGTTGAATGATGC 57.510 32.000 0.00 0.00 34.13 3.91
2027 2390 4.558226 AGATGACTGTGTGCATTCCTTA 57.442 40.909 0.00 0.00 0.00 2.69
2058 2421 3.494573 GCTAGGGGTAATCCTCCTTTTCG 60.495 52.174 0.00 0.00 38.30 3.46
2091 2454 9.880157 AATGAAATGAAATAATTCTCCCAGTTG 57.120 29.630 0.00 0.00 36.48 3.16
2097 2460 7.010160 TGAAATAATTCTCCCAGTTGGAAAGT 58.990 34.615 0.00 0.00 44.57 2.66
2109 2472 7.469039 CCAGTTGGAAAGTCGTGGAAGACTA 62.469 48.000 0.00 0.00 43.44 2.59
2131 2494 0.179051 CGAGGAGTAGTCGTAGCCCT 60.179 60.000 0.00 0.00 32.62 5.19
2138 2501 0.806868 TAGTCGTAGCCCTTGTGTCG 59.193 55.000 0.00 0.00 0.00 4.35
2147 2510 2.046892 CTTGTGTCGCCCTCCCAG 60.047 66.667 0.00 0.00 0.00 4.45
2166 2529 1.379044 GGCATCCACCCACTCAAGG 60.379 63.158 0.00 0.00 0.00 3.61
2260 2623 2.202756 CGGCTGGGCTCTAACGTC 60.203 66.667 0.00 0.00 0.00 4.34
2263 2626 2.359967 GCTGGGCTCTAACGTCCCT 61.360 63.158 10.37 0.00 40.69 4.20
2316 2679 2.029288 CGGCAGACAACACGATGCT 61.029 57.895 0.00 0.00 38.71 3.79
2322 2685 0.037326 GACAACACGATGCTCCTCCA 60.037 55.000 0.00 0.00 0.00 3.86
2352 2715 3.782443 GTGCCTAGGGGTGTCGGG 61.782 72.222 11.72 0.00 34.45 5.14
2369 2732 2.577593 GAGGACGGTGGTGGCTAC 59.422 66.667 0.00 0.00 0.00 3.58
2382 2745 4.814294 GCTACGGCGGTGGAGGTG 62.814 72.222 13.24 0.00 0.00 4.00
2394 2757 4.666532 GAGGTGTTGCGCGTGTGC 62.667 66.667 8.43 0.00 37.91 4.57
2405 2768 2.124983 CGTGTGCTATGGCTGCCT 60.125 61.111 21.03 8.02 39.59 4.75
2429 2792 0.110056 CTCAGCGTGTTTGGTGCATC 60.110 55.000 0.00 0.00 37.28 3.91
2446 2809 4.849329 CGTGTAGAGGTCGGCGGC 62.849 72.222 7.21 4.32 0.00 6.53
2476 2839 4.069232 CGCGTGCCCTCTCCTCAA 62.069 66.667 0.00 0.00 0.00 3.02
2480 2843 2.203788 TGCCCTCTCCTCAACGGT 60.204 61.111 0.00 0.00 0.00 4.83
2490 2853 1.308069 CCTCAACGGTGAATGCAGGG 61.308 60.000 3.93 0.00 31.88 4.45
2511 2874 2.892640 CCTTGATCCGAGCGTGGA 59.107 61.111 2.29 2.29 43.58 4.02
2532 2895 0.532573 GGCTGATCGTGACTCCTTCA 59.467 55.000 0.00 0.00 0.00 3.02
2573 2936 3.964875 CACACCTTGTGCCCGTGC 61.965 66.667 0.00 0.00 41.89 5.34
2577 2940 4.988598 CCTTGTGCCCGTGCGACT 62.989 66.667 0.00 0.00 41.78 4.18
2578 2941 3.414700 CTTGTGCCCGTGCGACTC 61.415 66.667 0.00 0.00 41.78 3.36
2579 2942 3.865929 CTTGTGCCCGTGCGACTCT 62.866 63.158 0.00 0.00 41.78 3.24
2580 2943 3.858868 TTGTGCCCGTGCGACTCTC 62.859 63.158 0.00 0.00 41.78 3.20
2587 2950 4.194720 GTGCGACTCTCGGCCGAT 62.195 66.667 31.19 15.16 40.84 4.18
2588 2951 4.193334 TGCGACTCTCGGCCGATG 62.193 66.667 31.19 25.51 40.84 3.84
2590 2953 4.193334 CGACTCTCGGCCGATGCA 62.193 66.667 31.19 14.83 40.13 3.96
2591 2954 2.279120 GACTCTCGGCCGATGCAG 60.279 66.667 31.19 25.19 40.13 4.41
2592 2955 3.781770 GACTCTCGGCCGATGCAGG 62.782 68.421 31.19 17.18 40.13 4.85
2606 2969 2.496817 CAGGCTCTGCTACCCGAC 59.503 66.667 0.00 0.00 0.00 4.79
2607 2970 3.141488 AGGCTCTGCTACCCGACG 61.141 66.667 0.00 0.00 0.00 5.12
2608 2971 3.138798 GGCTCTGCTACCCGACGA 61.139 66.667 0.00 0.00 0.00 4.20
2609 2972 2.102553 GCTCTGCTACCCGACGAC 59.897 66.667 0.00 0.00 0.00 4.34
2610 2973 2.408241 GCTCTGCTACCCGACGACT 61.408 63.158 0.00 0.00 0.00 4.18
2611 2974 1.429825 CTCTGCTACCCGACGACTG 59.570 63.158 0.00 0.00 0.00 3.51
2612 2975 1.303074 TCTGCTACCCGACGACTGT 60.303 57.895 0.00 0.00 0.00 3.55
2613 2976 1.154016 CTGCTACCCGACGACTGTG 60.154 63.158 0.00 0.00 0.00 3.66
2614 2977 2.181021 GCTACCCGACGACTGTGG 59.819 66.667 0.00 0.00 0.00 4.17
2615 2978 2.633509 GCTACCCGACGACTGTGGT 61.634 63.158 0.00 0.00 34.85 4.16
2616 2979 1.505353 CTACCCGACGACTGTGGTC 59.495 63.158 12.29 12.29 38.97 4.02
2617 2980 0.959372 CTACCCGACGACTGTGGTCT 60.959 60.000 18.61 5.17 40.10 3.85
2618 2981 0.538057 TACCCGACGACTGTGGTCTT 60.538 55.000 18.61 7.38 40.10 3.01
2619 2982 1.372997 CCCGACGACTGTGGTCTTG 60.373 63.158 18.61 10.66 40.10 3.02
2620 2983 1.372997 CCGACGACTGTGGTCTTGG 60.373 63.158 18.61 10.88 40.10 3.61
2621 2984 1.372997 CGACGACTGTGGTCTTGGG 60.373 63.158 18.61 2.03 40.10 4.12
2622 2985 1.668151 GACGACTGTGGTCTTGGGC 60.668 63.158 14.65 0.00 40.10 5.36
2623 2986 2.100879 GACGACTGTGGTCTTGGGCT 62.101 60.000 14.65 0.00 40.10 5.19
2624 2987 1.669115 CGACTGTGGTCTTGGGCTG 60.669 63.158 0.00 0.00 40.10 4.85
2625 2988 1.968540 GACTGTGGTCTTGGGCTGC 60.969 63.158 0.00 0.00 39.24 5.25
2626 2989 2.113774 CTGTGGTCTTGGGCTGCA 59.886 61.111 0.50 0.00 0.00 4.41
2627 2990 1.970114 CTGTGGTCTTGGGCTGCAG 60.970 63.158 10.11 10.11 0.00 4.41
2628 2991 2.674380 GTGGTCTTGGGCTGCAGG 60.674 66.667 17.12 0.00 0.00 4.85
2629 2992 4.666253 TGGTCTTGGGCTGCAGGC 62.666 66.667 30.97 30.97 40.90 4.85
2630 2993 4.666253 GGTCTTGGGCTGCAGGCA 62.666 66.667 37.36 22.60 44.01 4.75
2631 2994 3.368571 GTCTTGGGCTGCAGGCAC 61.369 66.667 37.36 27.01 46.29 5.01
2637 3000 4.030452 GGCTGCAGGCACAACGTC 62.030 66.667 33.31 4.47 44.01 4.34
2638 3001 4.374702 GCTGCAGGCACAACGTCG 62.375 66.667 17.12 0.00 41.35 5.12
2639 3002 4.374702 CTGCAGGCACAACGTCGC 62.375 66.667 5.57 0.00 0.00 5.19
2644 3007 4.980805 GGCACAACGTCGCCCAGA 62.981 66.667 11.51 0.00 42.82 3.86
2645 3008 2.742372 GCACAACGTCGCCCAGAT 60.742 61.111 0.00 0.00 0.00 2.90
2646 3009 2.740714 GCACAACGTCGCCCAGATC 61.741 63.158 0.00 0.00 0.00 2.75
2647 3010 1.079819 CACAACGTCGCCCAGATCT 60.080 57.895 0.00 0.00 0.00 2.75
2648 3011 1.079819 ACAACGTCGCCCAGATCTG 60.080 57.895 16.24 16.24 0.00 2.90
2659 3022 1.676746 CCAGATCTGGCACTTCATGG 58.323 55.000 28.45 2.18 44.73 3.66
2665 3028 2.270850 GGCACTTCATGGCGGGTA 59.729 61.111 0.00 0.00 45.10 3.69
2666 3029 1.152963 GGCACTTCATGGCGGGTAT 60.153 57.895 0.00 0.00 45.10 2.73
2667 3030 1.447317 GGCACTTCATGGCGGGTATG 61.447 60.000 0.00 0.00 45.10 2.39
2668 3031 1.447317 GCACTTCATGGCGGGTATGG 61.447 60.000 0.00 0.00 0.00 2.74
2669 3032 0.107214 CACTTCATGGCGGGTATGGT 60.107 55.000 0.00 0.00 0.00 3.55
2670 3033 0.623723 ACTTCATGGCGGGTATGGTT 59.376 50.000 0.00 0.00 0.00 3.67
2671 3034 1.005450 ACTTCATGGCGGGTATGGTTT 59.995 47.619 0.00 0.00 0.00 3.27
2672 3035 1.405105 CTTCATGGCGGGTATGGTTTG 59.595 52.381 0.00 0.00 0.00 2.93
2673 3036 0.329931 TCATGGCGGGTATGGTTTGT 59.670 50.000 0.00 0.00 0.00 2.83
2674 3037 0.738389 CATGGCGGGTATGGTTTGTC 59.262 55.000 0.00 0.00 0.00 3.18
2675 3038 0.623723 ATGGCGGGTATGGTTTGTCT 59.376 50.000 0.00 0.00 0.00 3.41
2676 3039 1.277579 TGGCGGGTATGGTTTGTCTA 58.722 50.000 0.00 0.00 0.00 2.59
2677 3040 1.208535 TGGCGGGTATGGTTTGTCTAG 59.791 52.381 0.00 0.00 0.00 2.43
2678 3041 1.474498 GGCGGGTATGGTTTGTCTAGG 60.474 57.143 0.00 0.00 0.00 3.02
2679 3042 1.483415 GCGGGTATGGTTTGTCTAGGA 59.517 52.381 0.00 0.00 0.00 2.94
2680 3043 2.104281 GCGGGTATGGTTTGTCTAGGAT 59.896 50.000 0.00 0.00 0.00 3.24
2681 3044 3.728845 CGGGTATGGTTTGTCTAGGATG 58.271 50.000 0.00 0.00 0.00 3.51
2682 3045 3.494398 CGGGTATGGTTTGTCTAGGATGG 60.494 52.174 0.00 0.00 0.00 3.51
2683 3046 3.477530 GGTATGGTTTGTCTAGGATGGC 58.522 50.000 0.00 0.00 0.00 4.40
2684 3047 2.736670 ATGGTTTGTCTAGGATGGCC 57.263 50.000 0.00 0.00 0.00 5.36
2685 3048 0.623723 TGGTTTGTCTAGGATGGCCC 59.376 55.000 0.00 0.00 33.31 5.80
2686 3049 0.623723 GGTTTGTCTAGGATGGCCCA 59.376 55.000 0.00 0.00 37.41 5.36
2687 3050 1.408822 GGTTTGTCTAGGATGGCCCAG 60.409 57.143 0.00 0.00 37.41 4.45
2688 3051 0.918983 TTTGTCTAGGATGGCCCAGG 59.081 55.000 0.00 0.00 37.41 4.45
2689 3052 1.635817 TTGTCTAGGATGGCCCAGGC 61.636 60.000 0.00 0.00 37.41 4.85
2690 3053 2.072487 GTCTAGGATGGCCCAGGCA 61.072 63.158 11.50 0.00 44.11 4.75
2708 3071 6.010294 CAGGCATGGAGATGATTATTCAAC 57.990 41.667 0.00 0.00 34.96 3.18
2709 3072 5.533528 CAGGCATGGAGATGATTATTCAACA 59.466 40.000 0.00 0.00 34.96 3.33
2710 3073 5.768662 AGGCATGGAGATGATTATTCAACAG 59.231 40.000 0.00 0.00 34.96 3.16
2711 3074 5.458891 GCATGGAGATGATTATTCAACAGC 58.541 41.667 0.00 0.00 34.96 4.40
2712 3075 5.686834 CATGGAGATGATTATTCAACAGCG 58.313 41.667 0.00 0.00 34.96 5.18
2713 3076 4.129380 TGGAGATGATTATTCAACAGCGG 58.871 43.478 0.00 0.00 34.96 5.52
2714 3077 3.499918 GGAGATGATTATTCAACAGCGGG 59.500 47.826 0.00 0.00 34.96 6.13
2715 3078 3.480470 AGATGATTATTCAACAGCGGGG 58.520 45.455 0.00 0.00 34.96 5.73
2716 3079 2.799126 TGATTATTCAACAGCGGGGT 57.201 45.000 0.00 0.00 0.00 4.95
2717 3080 3.916359 TGATTATTCAACAGCGGGGTA 57.084 42.857 0.00 0.00 0.00 3.69
2718 3081 3.804036 TGATTATTCAACAGCGGGGTAG 58.196 45.455 0.00 0.00 0.00 3.18
2719 3082 2.032680 TTATTCAACAGCGGGGTAGC 57.967 50.000 0.00 0.00 37.41 3.58
2720 3083 0.179094 TATTCAACAGCGGGGTAGCG 60.179 55.000 0.00 0.00 43.00 4.26
2721 3084 2.869503 ATTCAACAGCGGGGTAGCGG 62.870 60.000 0.00 0.00 43.00 5.52
2739 3102 4.834828 CTCGCTTTGAGTGCTTGC 57.165 55.556 0.00 0.00 40.03 4.01
2740 3103 1.208614 CTCGCTTTGAGTGCTTGCC 59.791 57.895 0.00 0.00 40.03 4.52
2741 3104 1.227943 TCGCTTTGAGTGCTTGCCT 60.228 52.632 0.00 0.00 0.00 4.75
2742 3105 1.081641 CGCTTTGAGTGCTTGCCTG 60.082 57.895 0.00 0.00 0.00 4.85
2743 3106 1.509644 CGCTTTGAGTGCTTGCCTGA 61.510 55.000 0.00 0.00 0.00 3.86
2744 3107 0.240411 GCTTTGAGTGCTTGCCTGAG 59.760 55.000 0.00 0.00 0.00 3.35
2745 3108 0.879765 CTTTGAGTGCTTGCCTGAGG 59.120 55.000 0.00 0.00 0.00 3.86
2746 3109 0.183492 TTTGAGTGCTTGCCTGAGGT 59.817 50.000 0.00 0.00 0.00 3.85
2747 3110 0.183492 TTGAGTGCTTGCCTGAGGTT 59.817 50.000 0.00 0.00 0.00 3.50
2748 3111 0.535780 TGAGTGCTTGCCTGAGGTTG 60.536 55.000 0.00 0.00 0.00 3.77
2749 3112 1.228367 AGTGCTTGCCTGAGGTTGG 60.228 57.895 0.00 0.00 0.00 3.77
2750 3113 1.529244 GTGCTTGCCTGAGGTTGGT 60.529 57.895 0.00 0.00 0.00 3.67
2751 3114 1.529010 TGCTTGCCTGAGGTTGGTG 60.529 57.895 0.00 0.00 0.00 4.17
2752 3115 2.270986 GCTTGCCTGAGGTTGGTGG 61.271 63.158 0.00 0.00 0.00 4.61
2753 3116 1.151450 CTTGCCTGAGGTTGGTGGT 59.849 57.895 0.00 0.00 0.00 4.16
2754 3117 1.152777 TTGCCTGAGGTTGGTGGTG 60.153 57.895 0.00 0.00 0.00 4.17
2755 3118 2.282462 GCCTGAGGTTGGTGGTGG 60.282 66.667 0.00 0.00 0.00 4.61
2756 3119 2.436109 CCTGAGGTTGGTGGTGGG 59.564 66.667 0.00 0.00 0.00 4.61
2757 3120 2.282462 CTGAGGTTGGTGGTGGGC 60.282 66.667 0.00 0.00 0.00 5.36
2758 3121 4.263572 TGAGGTTGGTGGTGGGCG 62.264 66.667 0.00 0.00 0.00 6.13
2762 3125 4.572571 GTTGGTGGTGGGCGGACA 62.573 66.667 0.00 0.00 0.00 4.02
2763 3126 3.575247 TTGGTGGTGGGCGGACAT 61.575 61.111 0.00 0.00 0.00 3.06
2764 3127 3.859118 TTGGTGGTGGGCGGACATG 62.859 63.158 0.00 0.00 0.00 3.21
2766 3129 4.344865 GTGGTGGGCGGACATGGT 62.345 66.667 0.00 0.00 0.00 3.55
2767 3130 4.343323 TGGTGGGCGGACATGGTG 62.343 66.667 0.00 0.00 0.00 4.17
2768 3131 4.344865 GGTGGGCGGACATGGTGT 62.345 66.667 0.00 0.00 0.00 4.16
2769 3132 2.282180 GTGGGCGGACATGGTGTT 60.282 61.111 0.00 0.00 0.00 3.32
2770 3133 2.282110 TGGGCGGACATGGTGTTG 60.282 61.111 0.00 0.00 0.00 3.33
2771 3134 3.747976 GGGCGGACATGGTGTTGC 61.748 66.667 0.00 0.00 33.21 4.17
2772 3135 2.983030 GGCGGACATGGTGTTGCA 60.983 61.111 0.00 0.00 34.89 4.08
2773 3136 2.562912 GCGGACATGGTGTTGCAG 59.437 61.111 0.00 0.00 33.87 4.41
2774 3137 2.562912 CGGACATGGTGTTGCAGC 59.437 61.111 0.00 0.00 0.00 5.25
2775 3138 2.260154 CGGACATGGTGTTGCAGCA 61.260 57.895 0.00 0.00 45.85 4.41
2776 3139 1.582968 GGACATGGTGTTGCAGCAG 59.417 57.895 2.40 0.00 45.01 4.24
2777 3140 1.080974 GACATGGTGTTGCAGCAGC 60.081 57.895 23.76 23.76 45.01 5.25
2787 3150 3.755434 GCAGCAGCAAGGTCTTGT 58.245 55.556 11.71 0.00 42.31 3.16
2788 3151 1.578423 GCAGCAGCAAGGTCTTGTC 59.422 57.895 11.71 5.17 42.31 3.18
2789 3152 0.888285 GCAGCAGCAAGGTCTTGTCT 60.888 55.000 11.71 7.08 42.31 3.41
2790 3153 1.155042 CAGCAGCAAGGTCTTGTCTC 58.845 55.000 11.71 2.51 42.31 3.36
2791 3154 0.036022 AGCAGCAAGGTCTTGTCTCC 59.964 55.000 11.71 1.52 42.31 3.71
2792 3155 0.957888 GCAGCAAGGTCTTGTCTCCC 60.958 60.000 11.71 0.00 42.31 4.30
2793 3156 0.322008 CAGCAAGGTCTTGTCTCCCC 60.322 60.000 11.71 0.00 42.31 4.81
2794 3157 0.768221 AGCAAGGTCTTGTCTCCCCA 60.768 55.000 11.71 0.00 42.31 4.96
2795 3158 0.606673 GCAAGGTCTTGTCTCCCCAC 60.607 60.000 11.71 0.00 42.31 4.61
2796 3159 0.036875 CAAGGTCTTGTCTCCCCACC 59.963 60.000 2.74 0.00 35.92 4.61
2797 3160 0.104409 AAGGTCTTGTCTCCCCACCT 60.104 55.000 0.00 0.00 39.26 4.00
2798 3161 0.545548 AGGTCTTGTCTCCCCACCTC 60.546 60.000 0.00 0.00 31.41 3.85
2799 3162 1.592223 GTCTTGTCTCCCCACCTCG 59.408 63.158 0.00 0.00 0.00 4.63
2800 3163 1.155390 TCTTGTCTCCCCACCTCGT 59.845 57.895 0.00 0.00 0.00 4.18
2801 3164 1.185618 TCTTGTCTCCCCACCTCGTG 61.186 60.000 0.00 0.00 0.00 4.35
2802 3165 1.458777 TTGTCTCCCCACCTCGTGT 60.459 57.895 0.00 0.00 0.00 4.49
2803 3166 1.469335 TTGTCTCCCCACCTCGTGTC 61.469 60.000 0.00 0.00 0.00 3.67
2804 3167 1.606889 GTCTCCCCACCTCGTGTCT 60.607 63.158 0.00 0.00 0.00 3.41
2805 3168 0.323178 GTCTCCCCACCTCGTGTCTA 60.323 60.000 0.00 0.00 0.00 2.59
2806 3169 0.629596 TCTCCCCACCTCGTGTCTAT 59.370 55.000 0.00 0.00 0.00 1.98
2807 3170 0.747255 CTCCCCACCTCGTGTCTATG 59.253 60.000 0.00 0.00 0.00 2.23
2808 3171 0.040646 TCCCCACCTCGTGTCTATGT 59.959 55.000 0.00 0.00 0.00 2.29
2809 3172 0.902531 CCCCACCTCGTGTCTATGTT 59.097 55.000 0.00 0.00 0.00 2.71
2810 3173 1.405526 CCCCACCTCGTGTCTATGTTG 60.406 57.143 0.00 0.00 0.00 3.33
2811 3174 1.275291 CCCACCTCGTGTCTATGTTGT 59.725 52.381 0.00 0.00 0.00 3.32
2812 3175 2.337583 CCACCTCGTGTCTATGTTGTG 58.662 52.381 0.00 0.00 0.00 3.33
2813 3176 2.337583 CACCTCGTGTCTATGTTGTGG 58.662 52.381 0.00 0.00 0.00 4.17
2814 3177 2.029380 CACCTCGTGTCTATGTTGTGGA 60.029 50.000 0.00 0.00 0.00 4.02
2815 3178 2.029290 ACCTCGTGTCTATGTTGTGGAC 60.029 50.000 0.00 0.00 38.68 4.02
2816 3179 2.251040 CTCGTGTCTATGTTGTGGACG 58.749 52.381 0.00 0.00 40.90 4.79
2817 3180 1.068125 TCGTGTCTATGTTGTGGACGG 60.068 52.381 0.00 0.00 40.90 4.79
2818 3181 1.336517 CGTGTCTATGTTGTGGACGGT 60.337 52.381 0.00 0.00 40.90 4.83
2819 3182 2.334838 GTGTCTATGTTGTGGACGGTC 58.665 52.381 0.00 0.00 40.90 4.79
2820 3183 1.274167 TGTCTATGTTGTGGACGGTCC 59.726 52.381 20.36 20.36 40.90 4.46
2821 3184 0.899720 TCTATGTTGTGGACGGTCCC 59.100 55.000 23.81 15.29 35.03 4.46
2822 3185 0.459585 CTATGTTGTGGACGGTCCCG 60.460 60.000 23.81 3.76 46.03 5.14
2823 3186 0.899253 TATGTTGTGGACGGTCCCGA 60.899 55.000 23.81 12.26 42.83 5.14
2824 3187 1.550130 ATGTTGTGGACGGTCCCGAT 61.550 55.000 23.81 6.24 42.83 4.18
2825 3188 1.447314 GTTGTGGACGGTCCCGATC 60.447 63.158 23.81 12.09 42.83 3.69
2826 3189 1.608336 TTGTGGACGGTCCCGATCT 60.608 57.895 23.81 0.00 42.83 2.75
2827 3190 1.884075 TTGTGGACGGTCCCGATCTG 61.884 60.000 23.81 0.00 42.83 2.90
2828 3191 2.758327 TGGACGGTCCCGATCTGG 60.758 66.667 23.81 0.00 42.83 3.86
2829 3192 2.758737 GGACGGTCCCGATCTGGT 60.759 66.667 16.55 0.00 42.83 4.00
2830 3193 2.494918 GACGGTCCCGATCTGGTG 59.505 66.667 13.54 0.00 42.83 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 77 1.132643 GTCTTATCCGACGCTGTGACT 59.867 52.381 0.00 0.00 0.00 3.41
340 434 3.030291 AGTCTGATCACCTCTAAGGCTG 58.970 50.000 0.00 0.00 39.63 4.85
342 436 2.364002 GGAGTCTGATCACCTCTAAGGC 59.636 54.545 14.31 0.00 39.63 4.35
343 437 3.888930 GAGGAGTCTGATCACCTCTAAGG 59.111 52.174 18.45 0.00 43.64 2.69
363 457 7.178712 ACGATTAACAGTTTTTCAGTCAGAG 57.821 36.000 0.00 0.00 0.00 3.35
379 549 6.620089 GCCTGAACCTGAAACTAACGATTAAC 60.620 42.308 0.00 0.00 0.00 2.01
380 550 5.410439 GCCTGAACCTGAAACTAACGATTAA 59.590 40.000 0.00 0.00 0.00 1.40
414 584 7.059156 AGGAAGAAATATATGTGCAAGAGCTT 58.941 34.615 0.00 0.00 42.74 3.74
424 594 8.494433 TGTTGAGGCTAAGGAAGAAATATATGT 58.506 33.333 0.00 0.00 0.00 2.29
425 595 8.908786 TGTTGAGGCTAAGGAAGAAATATATG 57.091 34.615 0.00 0.00 0.00 1.78
451 627 6.043938 ACATTGGGGACGGTTAATCTATATGT 59.956 38.462 0.00 0.00 0.00 2.29
455 631 6.293698 GTTACATTGGGGACGGTTAATCTAT 58.706 40.000 0.00 0.00 0.00 1.98
495 699 6.710597 AGGTTCTGTACACGTATGATGTAT 57.289 37.500 0.00 0.00 35.11 2.29
496 700 6.598850 TGTAGGTTCTGTACACGTATGATGTA 59.401 38.462 0.00 0.00 0.00 2.29
497 701 5.416639 TGTAGGTTCTGTACACGTATGATGT 59.583 40.000 0.00 0.00 0.00 3.06
506 710 3.724374 TGCTGTTGTAGGTTCTGTACAC 58.276 45.455 0.00 0.00 30.01 2.90
507 711 4.124238 GTTGCTGTTGTAGGTTCTGTACA 58.876 43.478 0.00 0.00 0.00 2.90
525 729 3.334583 TCCATCTACTCCTTGTGTTGC 57.665 47.619 0.00 0.00 0.00 4.17
527 731 5.965033 ATCATCCATCTACTCCTTGTGTT 57.035 39.130 0.00 0.00 0.00 3.32
532 736 5.071519 CCTGTGAATCATCCATCTACTCCTT 59.928 44.000 0.00 0.00 0.00 3.36
539 743 2.780414 TCCCCTGTGAATCATCCATCT 58.220 47.619 0.00 0.00 0.00 2.90
601 805 4.022242 CGTCCCTTCGGATATTCTGTATGT 60.022 45.833 0.00 0.00 41.40 2.29
655 861 0.178961 ACAAGGTTCTTTGCCTCCCC 60.179 55.000 0.00 0.00 34.81 4.81
700 906 4.893424 AGGTGTTGTGTTTGTGTGATAC 57.107 40.909 0.00 0.00 0.00 2.24
702 908 3.630312 GGTAGGTGTTGTGTTTGTGTGAT 59.370 43.478 0.00 0.00 0.00 3.06
704 910 2.223157 CGGTAGGTGTTGTGTTTGTGTG 60.223 50.000 0.00 0.00 0.00 3.82
705 911 2.011222 CGGTAGGTGTTGTGTTTGTGT 58.989 47.619 0.00 0.00 0.00 3.72
706 912 2.011222 ACGGTAGGTGTTGTGTTTGTG 58.989 47.619 0.00 0.00 0.00 3.33
707 913 2.406596 ACGGTAGGTGTTGTGTTTGT 57.593 45.000 0.00 0.00 0.00 2.83
708 914 6.730960 AATATACGGTAGGTGTTGTGTTTG 57.269 37.500 0.00 0.00 0.00 2.93
709 915 6.818142 GGTAATATACGGTAGGTGTTGTGTTT 59.182 38.462 0.00 0.00 0.00 2.83
710 916 6.070881 TGGTAATATACGGTAGGTGTTGTGTT 60.071 38.462 0.00 0.00 0.00 3.32
711 917 5.421693 TGGTAATATACGGTAGGTGTTGTGT 59.578 40.000 0.00 0.00 0.00 3.72
717 923 4.501071 GCCATGGTAATATACGGTAGGTG 58.499 47.826 14.67 0.00 0.00 4.00
721 927 2.561858 TGCGCCATGGTAATATACGGTA 59.438 45.455 14.67 0.00 0.00 4.02
733 939 1.093972 TTGTATCTTGTGCGCCATGG 58.906 50.000 7.63 7.63 0.00 3.66
744 950 7.497249 GCTTTGAGGTCTGTATGATTGTATCTT 59.503 37.037 0.00 0.00 0.00 2.40
764 981 1.071699 ACGAAACCTAGGCTGCTTTGA 59.928 47.619 9.30 0.00 0.00 2.69
769 986 1.305930 CCCAACGAAACCTAGGCTGC 61.306 60.000 9.30 0.00 0.00 5.25
774 991 2.140717 GTGTCACCCAACGAAACCTAG 58.859 52.381 0.00 0.00 0.00 3.02
819 1067 0.539051 GATCTGGGAGGTGTCACTGG 59.461 60.000 2.35 0.00 0.00 4.00
853 1101 0.030101 CGTGCACCCAACGAAATGTT 59.970 50.000 12.15 0.00 43.09 2.71
905 1153 0.107643 TTCCATGTCACGTCTTGGCA 59.892 50.000 4.74 0.00 46.29 4.92
913 1162 4.697514 AGACTATTCCATTCCATGTCACG 58.302 43.478 0.00 0.00 0.00 4.35
946 1195 2.100031 TTGCTGCGTGCGATAGGTG 61.100 57.895 0.00 0.00 46.63 4.00
954 1210 1.083489 TTATAGTGGTTGCTGCGTGC 58.917 50.000 0.00 0.00 43.25 5.34
968 1224 3.138468 AAGGGGTAGCTGCCCTTTTATAG 59.862 47.826 35.27 0.00 44.40 1.31
1180 1458 4.673298 TGGTAGGCGCGTGTGGTG 62.673 66.667 13.84 0.00 0.00 4.17
1887 2249 2.153913 GACCTCATGTCACGCACAC 58.846 57.895 0.00 0.00 43.85 3.82
1900 2262 3.616956 TTGATGATGTGACCTGACCTC 57.383 47.619 0.00 0.00 0.00 3.85
1930 2292 1.600023 TTACCAAAACCCTCGCACTG 58.400 50.000 0.00 0.00 0.00 3.66
2000 2363 6.032094 GGAATGCACACAGTCATCTTTATTG 58.968 40.000 0.00 0.00 42.66 1.90
2027 2390 1.893315 TTACCCCTAGCCTCTGCATT 58.107 50.000 0.00 0.00 41.13 3.56
2091 2454 3.670091 CGACTAGTCTTCCACGACTTTCC 60.670 52.174 20.34 0.00 41.27 3.13
2097 2460 1.277273 TCCTCGACTAGTCTTCCACGA 59.723 52.381 20.34 11.07 0.00 4.35
2109 2472 1.473080 GGCTACGACTACTCCTCGACT 60.473 57.143 0.00 0.00 35.08 4.18
2131 2494 3.636231 CCTGGGAGGGCGACACAA 61.636 66.667 0.00 0.00 0.00 3.33
2166 2529 1.148048 GGAAGCATGGAGAGGAGGC 59.852 63.158 0.00 0.00 0.00 4.70
2260 2623 4.489771 CAACTAGCCGCCCCAGGG 62.490 72.222 0.00 0.00 38.57 4.45
2263 2626 4.077184 CGACAACTAGCCGCCCCA 62.077 66.667 0.00 0.00 0.00 4.96
2298 2661 1.959899 GAGCATCGTGTTGTCTGCCG 61.960 60.000 0.00 0.00 35.21 5.69
2352 2715 2.577593 GTAGCCACCACCGTCCTC 59.422 66.667 0.00 0.00 0.00 3.71
2382 2745 2.098298 CCATAGCACACGCGCAAC 59.902 61.111 5.73 0.00 45.49 4.17
2390 2753 1.377594 CACAGGCAGCCATAGCACA 60.378 57.895 15.80 0.00 43.56 4.57
2405 2768 2.186160 CCAAACACGCTGAGCCACA 61.186 57.895 0.00 0.00 0.00 4.17
2414 2777 1.725625 CACGATGCACCAAACACGC 60.726 57.895 0.00 0.00 0.00 5.34
2429 2792 4.849329 GCCGCCGACCTCTACACG 62.849 72.222 0.00 0.00 0.00 4.49
2470 2833 0.321564 CCTGCATTCACCGTTGAGGA 60.322 55.000 0.00 0.00 45.00 3.71
2476 2839 2.034066 CACCCCTGCATTCACCGT 59.966 61.111 0.00 0.00 0.00 4.83
2480 2843 1.607178 CAAGGCACCCCTGCATTCA 60.607 57.895 0.00 0.00 43.94 2.57
2490 2853 2.892425 CGCTCGGATCAAGGCACC 60.892 66.667 0.00 0.00 0.00 5.01
2511 2874 1.205893 GAAGGAGTCACGATCAGCCTT 59.794 52.381 0.00 0.00 38.37 4.35
2560 2923 4.988598 AGTCGCACGGGCACAAGG 62.989 66.667 11.77 0.00 41.24 3.61
2561 2924 3.414700 GAGTCGCACGGGCACAAG 61.415 66.667 11.77 0.00 41.24 3.16
2562 2925 3.858868 GAGAGTCGCACGGGCACAA 62.859 63.158 11.77 0.00 41.24 3.33
2563 2926 4.357947 GAGAGTCGCACGGGCACA 62.358 66.667 11.77 0.00 41.24 4.57
2570 2933 4.194720 ATCGGCCGAGAGTCGCAC 62.195 66.667 33.87 0.00 38.82 5.34
2571 2934 4.193334 CATCGGCCGAGAGTCGCA 62.193 66.667 33.87 7.83 38.82 5.10
2573 2936 4.193334 TGCATCGGCCGAGAGTCG 62.193 66.667 33.87 18.82 40.13 4.18
2574 2937 2.279120 CTGCATCGGCCGAGAGTC 60.279 66.667 33.87 21.63 40.13 3.36
2575 2938 3.842923 CCTGCATCGGCCGAGAGT 61.843 66.667 33.87 14.74 40.13 3.24
2589 2952 2.496817 GTCGGGTAGCAGAGCCTG 59.503 66.667 0.00 0.00 44.22 4.85
2590 2953 3.141488 CGTCGGGTAGCAGAGCCT 61.141 66.667 0.00 0.00 44.22 4.58
2591 2954 3.138798 TCGTCGGGTAGCAGAGCC 61.139 66.667 0.00 0.00 42.83 4.70
2592 2955 2.102553 GTCGTCGGGTAGCAGAGC 59.897 66.667 0.00 0.00 0.00 4.09
2593 2956 1.306642 ACAGTCGTCGGGTAGCAGAG 61.307 60.000 0.00 0.00 0.00 3.35
2594 2957 1.303074 ACAGTCGTCGGGTAGCAGA 60.303 57.895 0.00 0.00 0.00 4.26
2595 2958 1.154016 CACAGTCGTCGGGTAGCAG 60.154 63.158 0.00 0.00 0.00 4.24
2596 2959 2.632544 CCACAGTCGTCGGGTAGCA 61.633 63.158 0.00 0.00 0.00 3.49
2597 2960 2.181021 CCACAGTCGTCGGGTAGC 59.819 66.667 0.00 0.00 0.00 3.58
2598 2961 1.505353 GACCACAGTCGTCGGGTAG 59.495 63.158 0.00 0.00 32.77 3.18
2599 2962 3.672293 GACCACAGTCGTCGGGTA 58.328 61.111 0.00 0.00 32.77 3.69
2607 2970 1.968540 GCAGCCCAAGACCACAGTC 60.969 63.158 0.00 0.00 43.89 3.51
2608 2971 2.113986 GCAGCCCAAGACCACAGT 59.886 61.111 0.00 0.00 0.00 3.55
2609 2972 1.970114 CTGCAGCCCAAGACCACAG 60.970 63.158 0.00 0.00 0.00 3.66
2610 2973 2.113774 CTGCAGCCCAAGACCACA 59.886 61.111 0.00 0.00 0.00 4.17
2611 2974 2.674380 CCTGCAGCCCAAGACCAC 60.674 66.667 8.66 0.00 0.00 4.16
2612 2975 4.666253 GCCTGCAGCCCAAGACCA 62.666 66.667 8.66 0.00 34.35 4.02
2613 2976 4.666253 TGCCTGCAGCCCAAGACC 62.666 66.667 8.66 0.00 42.71 3.85
2614 2977 3.368571 GTGCCTGCAGCCCAAGAC 61.369 66.667 8.66 0.00 42.71 3.01
2615 2978 3.433984 TTGTGCCTGCAGCCCAAGA 62.434 57.895 8.66 0.00 42.71 3.02
2616 2979 2.913578 TTGTGCCTGCAGCCCAAG 60.914 61.111 8.66 0.00 42.71 3.61
2617 2980 3.225798 GTTGTGCCTGCAGCCCAA 61.226 61.111 8.66 7.49 42.71 4.12
2620 2983 4.030452 GACGTTGTGCCTGCAGCC 62.030 66.667 8.66 0.00 42.71 4.85
2621 2984 4.374702 CGACGTTGTGCCTGCAGC 62.375 66.667 8.66 4.57 44.14 5.25
2622 2985 4.374702 GCGACGTTGTGCCTGCAG 62.375 66.667 6.78 6.78 0.00 4.41
2628 2991 2.740714 GATCTGGGCGACGTTGTGC 61.741 63.158 4.37 2.12 0.00 4.57
2629 2992 1.079819 AGATCTGGGCGACGTTGTG 60.080 57.895 4.37 0.00 0.00 3.33
2630 2993 1.079819 CAGATCTGGGCGACGTTGT 60.080 57.895 15.38 0.00 0.00 3.32
2631 2994 1.811266 CCAGATCTGGGCGACGTTG 60.811 63.158 31.14 4.72 46.81 4.10
2632 2995 2.579201 CCAGATCTGGGCGACGTT 59.421 61.111 31.14 0.00 46.81 3.99
2641 3004 1.022735 GCCATGAAGTGCCAGATCTG 58.977 55.000 16.24 16.24 0.00 2.90
2642 3005 0.463295 CGCCATGAAGTGCCAGATCT 60.463 55.000 0.00 0.00 0.00 2.75
2643 3006 1.442526 CCGCCATGAAGTGCCAGATC 61.443 60.000 0.00 0.00 0.00 2.75
2644 3007 1.452651 CCGCCATGAAGTGCCAGAT 60.453 57.895 0.00 0.00 0.00 2.90
2645 3008 2.046023 CCGCCATGAAGTGCCAGA 60.046 61.111 0.00 0.00 0.00 3.86
2646 3009 2.535485 TACCCGCCATGAAGTGCCAG 62.535 60.000 0.00 0.00 0.00 4.85
2647 3010 1.920734 ATACCCGCCATGAAGTGCCA 61.921 55.000 0.00 0.00 0.00 4.92
2648 3011 1.152963 ATACCCGCCATGAAGTGCC 60.153 57.895 0.00 0.00 0.00 5.01
2649 3012 1.447317 CCATACCCGCCATGAAGTGC 61.447 60.000 0.00 0.00 0.00 4.40
2650 3013 0.107214 ACCATACCCGCCATGAAGTG 60.107 55.000 0.00 0.00 0.00 3.16
2651 3014 0.623723 AACCATACCCGCCATGAAGT 59.376 50.000 0.00 0.00 0.00 3.01
2652 3015 1.405105 CAAACCATACCCGCCATGAAG 59.595 52.381 0.00 0.00 0.00 3.02
2653 3016 1.272203 ACAAACCATACCCGCCATGAA 60.272 47.619 0.00 0.00 0.00 2.57
2654 3017 0.329931 ACAAACCATACCCGCCATGA 59.670 50.000 0.00 0.00 0.00 3.07
2655 3018 0.738389 GACAAACCATACCCGCCATG 59.262 55.000 0.00 0.00 0.00 3.66
2656 3019 0.623723 AGACAAACCATACCCGCCAT 59.376 50.000 0.00 0.00 0.00 4.40
2657 3020 1.208535 CTAGACAAACCATACCCGCCA 59.791 52.381 0.00 0.00 0.00 5.69
2658 3021 1.474498 CCTAGACAAACCATACCCGCC 60.474 57.143 0.00 0.00 0.00 6.13
2659 3022 1.483415 TCCTAGACAAACCATACCCGC 59.517 52.381 0.00 0.00 0.00 6.13
2660 3023 3.494398 CCATCCTAGACAAACCATACCCG 60.494 52.174 0.00 0.00 0.00 5.28
2661 3024 3.747708 GCCATCCTAGACAAACCATACCC 60.748 52.174 0.00 0.00 0.00 3.69
2662 3025 3.477530 GCCATCCTAGACAAACCATACC 58.522 50.000 0.00 0.00 0.00 2.73
2663 3026 3.477530 GGCCATCCTAGACAAACCATAC 58.522 50.000 0.00 0.00 0.00 2.39
2664 3027 2.441750 GGGCCATCCTAGACAAACCATA 59.558 50.000 4.39 0.00 0.00 2.74
2665 3028 1.215423 GGGCCATCCTAGACAAACCAT 59.785 52.381 4.39 0.00 0.00 3.55
2666 3029 0.623723 GGGCCATCCTAGACAAACCA 59.376 55.000 4.39 0.00 0.00 3.67
2667 3030 0.623723 TGGGCCATCCTAGACAAACC 59.376 55.000 0.00 0.00 36.20 3.27
2668 3031 1.408822 CCTGGGCCATCCTAGACAAAC 60.409 57.143 6.72 0.00 43.05 2.93
2669 3032 0.918983 CCTGGGCCATCCTAGACAAA 59.081 55.000 6.72 0.00 43.05 2.83
2670 3033 1.635817 GCCTGGGCCATCCTAGACAA 61.636 60.000 6.72 0.00 43.05 3.18
2671 3034 2.072487 GCCTGGGCCATCCTAGACA 61.072 63.158 6.72 0.00 43.05 3.41
2672 3035 1.422161 ATGCCTGGGCCATCCTAGAC 61.422 60.000 6.72 0.00 43.05 2.59
2673 3036 1.073474 ATGCCTGGGCCATCCTAGA 60.073 57.895 6.72 0.00 43.05 2.43
2674 3037 1.074423 CATGCCTGGGCCATCCTAG 59.926 63.158 6.72 0.00 40.36 3.02
2675 3038 2.463514 CCATGCCTGGGCCATCCTA 61.464 63.158 6.72 0.00 39.04 2.94
2676 3039 3.829226 CCATGCCTGGGCCATCCT 61.829 66.667 6.72 0.00 39.04 3.24
2677 3040 3.804638 CTCCATGCCTGGGCCATCC 62.805 68.421 6.72 0.88 43.34 3.51
2678 3041 2.077842 ATCTCCATGCCTGGGCCATC 62.078 60.000 6.72 2.30 43.34 3.51
2679 3042 2.089368 ATCTCCATGCCTGGGCCAT 61.089 57.895 6.72 0.00 43.34 4.40
2680 3043 2.697263 ATCTCCATGCCTGGGCCA 60.697 61.111 5.85 5.85 43.34 5.36
2681 3044 2.077842 ATCATCTCCATGCCTGGGCC 62.078 60.000 8.28 0.00 43.34 5.80
2682 3045 0.178970 AATCATCTCCATGCCTGGGC 60.179 55.000 8.28 4.43 43.34 5.36
2683 3046 3.733883 ATAATCATCTCCATGCCTGGG 57.266 47.619 8.28 0.00 43.34 4.45
2684 3047 4.659115 TGAATAATCATCTCCATGCCTGG 58.341 43.478 0.78 0.78 44.64 4.45
2685 3048 5.533528 TGTTGAATAATCATCTCCATGCCTG 59.466 40.000 0.00 0.00 34.96 4.85
2686 3049 5.698104 TGTTGAATAATCATCTCCATGCCT 58.302 37.500 0.00 0.00 34.96 4.75
2687 3050 5.564259 GCTGTTGAATAATCATCTCCATGCC 60.564 44.000 0.00 0.00 34.96 4.40
2688 3051 5.458891 GCTGTTGAATAATCATCTCCATGC 58.541 41.667 0.00 0.00 34.96 4.06
2689 3052 5.334646 CCGCTGTTGAATAATCATCTCCATG 60.335 44.000 0.00 0.00 34.96 3.66
2690 3053 4.758674 CCGCTGTTGAATAATCATCTCCAT 59.241 41.667 0.00 0.00 34.96 3.41
2691 3054 4.129380 CCGCTGTTGAATAATCATCTCCA 58.871 43.478 0.00 0.00 34.96 3.86
2692 3055 3.499918 CCCGCTGTTGAATAATCATCTCC 59.500 47.826 0.00 0.00 34.96 3.71
2693 3056 3.499918 CCCCGCTGTTGAATAATCATCTC 59.500 47.826 0.00 0.00 34.96 2.75
2694 3057 3.117888 ACCCCGCTGTTGAATAATCATCT 60.118 43.478 0.00 0.00 34.96 2.90
2695 3058 3.214328 ACCCCGCTGTTGAATAATCATC 58.786 45.455 0.00 0.00 34.96 2.92
2696 3059 3.297134 ACCCCGCTGTTGAATAATCAT 57.703 42.857 0.00 0.00 34.96 2.45
2697 3060 2.799126 ACCCCGCTGTTGAATAATCA 57.201 45.000 0.00 0.00 0.00 2.57
2698 3061 2.548480 GCTACCCCGCTGTTGAATAATC 59.452 50.000 0.00 0.00 0.00 1.75
2699 3062 2.572290 GCTACCCCGCTGTTGAATAAT 58.428 47.619 0.00 0.00 0.00 1.28
2700 3063 1.741055 CGCTACCCCGCTGTTGAATAA 60.741 52.381 0.00 0.00 0.00 1.40
2701 3064 0.179094 CGCTACCCCGCTGTTGAATA 60.179 55.000 0.00 0.00 0.00 1.75
2702 3065 1.449601 CGCTACCCCGCTGTTGAAT 60.450 57.895 0.00 0.00 0.00 2.57
2703 3066 2.047655 CGCTACCCCGCTGTTGAA 60.048 61.111 0.00 0.00 0.00 2.69
2704 3067 4.077184 CCGCTACCCCGCTGTTGA 62.077 66.667 0.00 0.00 0.00 3.18
2719 3082 2.320587 AAGCACTCAAAGCGAGCCG 61.321 57.895 0.00 0.00 46.63 5.52
2720 3083 1.208614 CAAGCACTCAAAGCGAGCC 59.791 57.895 0.00 0.00 46.63 4.70
2721 3084 1.441682 GCAAGCACTCAAAGCGAGC 60.442 57.895 0.00 0.00 46.63 5.03
2723 3086 1.227943 AGGCAAGCACTCAAAGCGA 60.228 52.632 0.00 0.00 37.01 4.93
2724 3087 1.081641 CAGGCAAGCACTCAAAGCG 60.082 57.895 0.00 0.00 37.01 4.68
2725 3088 0.240411 CTCAGGCAAGCACTCAAAGC 59.760 55.000 0.00 0.00 0.00 3.51
2726 3089 0.879765 CCTCAGGCAAGCACTCAAAG 59.120 55.000 0.00 0.00 0.00 2.77
2727 3090 0.183492 ACCTCAGGCAAGCACTCAAA 59.817 50.000 0.00 0.00 0.00 2.69
2728 3091 0.183492 AACCTCAGGCAAGCACTCAA 59.817 50.000 0.00 0.00 0.00 3.02
2729 3092 0.535780 CAACCTCAGGCAAGCACTCA 60.536 55.000 0.00 0.00 0.00 3.41
2730 3093 1.239968 CCAACCTCAGGCAAGCACTC 61.240 60.000 0.00 0.00 0.00 3.51
2731 3094 1.228367 CCAACCTCAGGCAAGCACT 60.228 57.895 0.00 0.00 0.00 4.40
2732 3095 1.529244 ACCAACCTCAGGCAAGCAC 60.529 57.895 0.00 0.00 0.00 4.40
2733 3096 1.529010 CACCAACCTCAGGCAAGCA 60.529 57.895 0.00 0.00 0.00 3.91
2734 3097 2.270986 CCACCAACCTCAGGCAAGC 61.271 63.158 0.00 0.00 0.00 4.01
2735 3098 1.151450 ACCACCAACCTCAGGCAAG 59.849 57.895 0.00 0.00 0.00 4.01
2736 3099 1.152777 CACCACCAACCTCAGGCAA 60.153 57.895 0.00 0.00 0.00 4.52
2737 3100 2.515398 CACCACCAACCTCAGGCA 59.485 61.111 0.00 0.00 0.00 4.75
2738 3101 2.282462 CCACCACCAACCTCAGGC 60.282 66.667 0.00 0.00 0.00 4.85
2739 3102 2.436109 CCCACCACCAACCTCAGG 59.564 66.667 0.00 0.00 0.00 3.86
2740 3103 2.282462 GCCCACCACCAACCTCAG 60.282 66.667 0.00 0.00 0.00 3.35
2741 3104 4.263572 CGCCCACCACCAACCTCA 62.264 66.667 0.00 0.00 0.00 3.86
2745 3108 3.860930 ATGTCCGCCCACCACCAAC 62.861 63.158 0.00 0.00 0.00 3.77
2746 3109 3.575247 ATGTCCGCCCACCACCAA 61.575 61.111 0.00 0.00 0.00 3.67
2747 3110 4.343323 CATGTCCGCCCACCACCA 62.343 66.667 0.00 0.00 0.00 4.17
2749 3112 4.344865 ACCATGTCCGCCCACCAC 62.345 66.667 0.00 0.00 0.00 4.16
2750 3113 4.343323 CACCATGTCCGCCCACCA 62.343 66.667 0.00 0.00 0.00 4.17
2751 3114 3.860930 AACACCATGTCCGCCCACC 62.861 63.158 0.00 0.00 0.00 4.61
2752 3115 2.282180 AACACCATGTCCGCCCAC 60.282 61.111 0.00 0.00 0.00 4.61
2753 3116 2.282110 CAACACCATGTCCGCCCA 60.282 61.111 0.00 0.00 0.00 5.36
2754 3117 3.747976 GCAACACCATGTCCGCCC 61.748 66.667 0.00 0.00 0.00 6.13
2755 3118 2.981560 CTGCAACACCATGTCCGCC 61.982 63.158 0.00 0.00 30.38 6.13
2756 3119 2.562912 CTGCAACACCATGTCCGC 59.437 61.111 0.00 0.00 31.63 5.54
2757 3120 2.191354 CTGCTGCAACACCATGTCCG 62.191 60.000 3.02 0.00 0.00 4.79
2758 3121 1.582968 CTGCTGCAACACCATGTCC 59.417 57.895 3.02 0.00 0.00 4.02
2759 3122 1.080974 GCTGCTGCAACACCATGTC 60.081 57.895 11.11 0.00 39.41 3.06
2760 3123 3.045142 GCTGCTGCAACACCATGT 58.955 55.556 11.11 0.00 39.41 3.21
2770 3133 0.888285 AGACAAGACCTTGCTGCTGC 60.888 55.000 8.89 8.89 44.03 5.25
2771 3134 1.155042 GAGACAAGACCTTGCTGCTG 58.845 55.000 9.48 0.00 44.03 4.41
2772 3135 0.036022 GGAGACAAGACCTTGCTGCT 59.964 55.000 9.48 5.17 44.03 4.24
2773 3136 0.957888 GGGAGACAAGACCTTGCTGC 60.958 60.000 9.48 11.66 44.03 5.25
2774 3137 0.322008 GGGGAGACAAGACCTTGCTG 60.322 60.000 9.48 0.00 44.03 4.41
2775 3138 0.768221 TGGGGAGACAAGACCTTGCT 60.768 55.000 9.48 7.78 44.03 3.91
2776 3139 0.606673 GTGGGGAGACAAGACCTTGC 60.607 60.000 9.48 3.49 44.03 4.01
2777 3140 0.036875 GGTGGGGAGACAAGACCTTG 59.963 60.000 8.11 8.11 45.58 3.61
2778 3141 0.104409 AGGTGGGGAGACAAGACCTT 60.104 55.000 0.00 0.00 32.49 3.50
2779 3142 0.545548 GAGGTGGGGAGACAAGACCT 60.546 60.000 0.00 0.00 37.41 3.85
2780 3143 1.889530 CGAGGTGGGGAGACAAGACC 61.890 65.000 0.00 0.00 0.00 3.85
2781 3144 1.186267 ACGAGGTGGGGAGACAAGAC 61.186 60.000 0.00 0.00 0.00 3.01
2782 3145 1.155390 ACGAGGTGGGGAGACAAGA 59.845 57.895 0.00 0.00 0.00 3.02
2783 3146 1.293498 CACGAGGTGGGGAGACAAG 59.707 63.158 0.00 0.00 0.00 3.16
2784 3147 1.458777 ACACGAGGTGGGGAGACAA 60.459 57.895 0.42 0.00 37.94 3.18
2785 3148 1.906824 GACACGAGGTGGGGAGACA 60.907 63.158 0.42 0.00 37.94 3.41
2786 3149 0.323178 TAGACACGAGGTGGGGAGAC 60.323 60.000 0.42 0.00 37.94 3.36
2787 3150 0.629596 ATAGACACGAGGTGGGGAGA 59.370 55.000 0.42 0.00 37.94 3.71
2788 3151 0.747255 CATAGACACGAGGTGGGGAG 59.253 60.000 0.42 0.00 37.94 4.30
2789 3152 0.040646 ACATAGACACGAGGTGGGGA 59.959 55.000 0.42 0.00 37.94 4.81
2790 3153 0.902531 AACATAGACACGAGGTGGGG 59.097 55.000 0.42 0.00 37.94 4.96
2791 3154 1.275291 ACAACATAGACACGAGGTGGG 59.725 52.381 0.42 0.00 37.94 4.61
2792 3155 2.337583 CACAACATAGACACGAGGTGG 58.662 52.381 0.42 0.00 37.94 4.61
2793 3156 2.029380 TCCACAACATAGACACGAGGTG 60.029 50.000 0.00 0.00 39.75 4.00
2794 3157 2.029290 GTCCACAACATAGACACGAGGT 60.029 50.000 0.00 0.00 0.00 3.85
2795 3158 2.607187 GTCCACAACATAGACACGAGG 58.393 52.381 0.00 0.00 0.00 4.63
2796 3159 2.251040 CGTCCACAACATAGACACGAG 58.749 52.381 0.00 0.00 0.00 4.18
2797 3160 1.068125 CCGTCCACAACATAGACACGA 60.068 52.381 0.00 0.00 0.00 4.35
2798 3161 1.336517 ACCGTCCACAACATAGACACG 60.337 52.381 0.00 0.00 0.00 4.49
2799 3162 2.334838 GACCGTCCACAACATAGACAC 58.665 52.381 0.00 0.00 0.00 3.67
2800 3163 1.274167 GGACCGTCCACAACATAGACA 59.726 52.381 13.05 0.00 36.28 3.41
2801 3164 1.405121 GGGACCGTCCACAACATAGAC 60.405 57.143 19.43 0.00 38.64 2.59
2802 3165 0.899720 GGGACCGTCCACAACATAGA 59.100 55.000 19.43 0.00 38.64 1.98
2803 3166 0.459585 CGGGACCGTCCACAACATAG 60.460 60.000 19.43 0.00 38.64 2.23
2804 3167 0.899253 TCGGGACCGTCCACAACATA 60.899 55.000 19.43 0.00 38.64 2.29
2805 3168 1.550130 ATCGGGACCGTCCACAACAT 61.550 55.000 19.43 0.64 38.64 2.71
2806 3169 2.162338 GATCGGGACCGTCCACAACA 62.162 60.000 19.43 0.00 38.64 3.33
2807 3170 1.447314 GATCGGGACCGTCCACAAC 60.447 63.158 19.43 4.38 38.64 3.32
2808 3171 1.608336 AGATCGGGACCGTCCACAA 60.608 57.895 19.43 4.20 38.64 3.33
2809 3172 2.036731 AGATCGGGACCGTCCACA 59.963 61.111 19.43 5.06 38.64 4.17
2810 3173 2.494918 CAGATCGGGACCGTCCAC 59.505 66.667 19.43 7.80 38.64 4.02
2811 3174 2.758327 CCAGATCGGGACCGTCCA 60.758 66.667 19.43 0.00 38.64 4.02
2812 3175 2.758737 ACCAGATCGGGACCGTCC 60.759 66.667 19.55 9.30 40.22 4.79
2813 3176 2.494918 CACCAGATCGGGACCGTC 59.505 66.667 19.55 7.78 40.22 4.79


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

AutoCloner maintained by Alex Coulton.