Multiple sequence alignment - TraesCS5D01G250700

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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 TraesCS5D01G250700 chr5D 100.000 2848 0 0 1 2848 356899987 356902834 0.000000e+00 5260.0
1 TraesCS5D01G250700 chr5A 95.285 1209 43 8 1298 2498 458213876 458215078 0.000000e+00 1905.0
2 TraesCS5D01G250700 chr5A 92.660 1267 35 16 3 1260 458212571 458213788 0.000000e+00 1772.0
3 TraesCS5D01G250700 chr5A 94.830 619 19 3 93 703 455999883 455999270 0.000000e+00 953.0
4 TraesCS5D01G250700 chr5B 93.100 1058 35 14 955 1989 421668356 421669398 0.000000e+00 1515.0
5 TraesCS5D01G250700 chr5B 92.657 926 31 11 1 926 421667468 421668356 0.000000e+00 1299.0
6 TraesCS5D01G250700 chr5B 90.295 237 14 1 2010 2246 421669742 421669969 4.610000e-78 302.0
7 TraesCS5D01G250700 chr5B 87.500 104 12 1 2260 2363 421670034 421670136 4.980000e-23 119.0
8 TraesCS5D01G250700 chr3D 87.541 305 35 2 1545 1849 277066713 277067014 1.620000e-92 350.0
9 TraesCS5D01G250700 chr3D 96.629 89 3 0 1312 1400 277066526 277066614 6.360000e-32 148.0
10 TraesCS5D01G250700 chr3B 86.731 309 35 5 1551 1858 373285471 373285168 3.510000e-89 339.0
11 TraesCS5D01G250700 chr3B 96.629 89 3 0 1318 1406 373285658 373285570 6.360000e-32 148.0
12 TraesCS5D01G250700 chr3A 87.000 300 34 4 1551 1849 362591279 362590984 1.640000e-87 333.0
13 TraesCS5D01G250700 chr3A 96.629 89 1 1 1318 1404 362591466 362591378 2.290000e-31 147.0
14 TraesCS5D01G250700 chr2B 86.275 306 39 2 1544 1849 432133603 432133301 2.120000e-86 329.0
15 TraesCS5D01G250700 chr2B 93.069 101 7 0 1313 1413 432133822 432133722 6.360000e-32 148.0
16 TraesCS5D01G250700 chr2D 85.621 306 41 2 1544 1849 363974676 363974374 4.580000e-83 318.0
17 TraesCS5D01G250700 chr2D 93.069 101 7 0 1313 1413 363974895 363974795 6.360000e-32 148.0
18 TraesCS5D01G250700 chr2A 85.294 306 42 2 1544 1849 489960501 489960199 2.130000e-81 313.0
19 TraesCS5D01G250700 chr2A 92.079 101 8 0 1313 1413 489960720 489960620 2.960000e-30 143.0
20 TraesCS5D01G250700 chr4B 79.931 289 44 12 2511 2791 364151310 364151592 1.730000e-47 200.0
21 TraesCS5D01G250700 chr6A 88.889 45 4 1 1584 1628 483593933 483593976 1.000000e-03 54.7
22 TraesCS5D01G250700 chr1A 100.000 28 0 0 2508 2535 566631995 566632022 5.000000e-03 52.8


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 TraesCS5D01G250700 chr5D 356899987 356902834 2847 False 5260.00 5260 100.0000 1 2848 1 chr5D.!!$F1 2847
1 TraesCS5D01G250700 chr5A 458212571 458215078 2507 False 1838.50 1905 93.9725 3 2498 2 chr5A.!!$F1 2495
2 TraesCS5D01G250700 chr5A 455999270 455999883 613 True 953.00 953 94.8300 93 703 1 chr5A.!!$R1 610
3 TraesCS5D01G250700 chr5B 421667468 421670136 2668 False 808.75 1515 90.8880 1 2363 4 chr5B.!!$F1 2362
4 TraesCS5D01G250700 chr2B 432133301 432133822 521 True 238.50 329 89.6720 1313 1849 2 chr2B.!!$R1 536
5 TraesCS5D01G250700 chr2D 363974374 363974895 521 True 233.00 318 89.3450 1313 1849 2 chr2D.!!$R1 536
6 TraesCS5D01G250700 chr2A 489960199 489960720 521 True 228.00 313 88.6865 1313 1849 2 chr2A.!!$R1 536

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
808 826 0.103208 CTGTGTCCTCCGGTAGCATC 59.897 60.0 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2722 3246 0.039527 GGCAACTTTTGTGTAGCGGG 60.04 55.0 0.0 0.0 0.0 6.13 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
75 76 8.993121 CCAGTTATCAATGTTATATGTCAGTCC 58.007 37.037 0.00 0.00 0.00 3.85
76 77 9.770097 CAGTTATCAATGTTATATGTCAGTCCT 57.230 33.333 0.00 0.00 0.00 3.85
249 250 5.221185 GCCATTCATGCATCTAGTGTTGAAT 60.221 40.000 0.00 0.00 40.37 2.57
358 359 3.576861 TGAGAGAAGTGGAGAACCTTGA 58.423 45.455 0.00 0.00 37.04 3.02
430 431 5.389098 GCAATCAACATCGTACTGTAACGTT 60.389 40.000 5.88 5.88 43.31 3.99
432 433 7.463648 GCAATCAACATCGTACTGTAACGTTAT 60.464 37.037 11.86 0.00 43.31 1.89
449 450 1.532604 TATAGACCCGGCGCATCAGG 61.533 60.000 10.83 6.18 0.00 3.86
795 813 3.368236 GGTTTAATCACTCTCGCTGTGTC 59.632 47.826 0.00 0.00 36.83 3.67
796 814 2.941453 TAATCACTCTCGCTGTGTCC 57.059 50.000 0.00 0.00 36.83 4.02
797 815 1.261480 AATCACTCTCGCTGTGTCCT 58.739 50.000 0.00 0.00 36.83 3.85
798 816 0.814457 ATCACTCTCGCTGTGTCCTC 59.186 55.000 0.00 0.00 36.83 3.71
799 817 1.214062 CACTCTCGCTGTGTCCTCC 59.786 63.158 0.00 0.00 0.00 4.30
800 818 2.336478 ACTCTCGCTGTGTCCTCCG 61.336 63.158 0.00 0.00 0.00 4.63
801 819 3.057547 CTCTCGCTGTGTCCTCCGG 62.058 68.421 0.00 0.00 0.00 5.14
802 820 3.374402 CTCGCTGTGTCCTCCGGT 61.374 66.667 0.00 0.00 0.00 5.28
803 821 2.034532 TCGCTGTGTCCTCCGGTA 59.965 61.111 0.00 0.00 0.00 4.02
804 822 1.994507 CTCGCTGTGTCCTCCGGTAG 61.995 65.000 0.00 0.00 0.00 3.18
805 823 2.184579 GCTGTGTCCTCCGGTAGC 59.815 66.667 0.00 0.00 0.00 3.58
806 824 2.646175 GCTGTGTCCTCCGGTAGCA 61.646 63.158 0.00 0.00 0.00 3.49
807 825 1.961180 GCTGTGTCCTCCGGTAGCAT 61.961 60.000 0.00 0.00 0.00 3.79
808 826 0.103208 CTGTGTCCTCCGGTAGCATC 59.897 60.000 0.00 0.00 0.00 3.91
809 827 0.613572 TGTGTCCTCCGGTAGCATCA 60.614 55.000 0.00 0.00 0.00 3.07
810 828 0.535335 GTGTCCTCCGGTAGCATCAA 59.465 55.000 0.00 0.00 0.00 2.57
811 829 0.535335 TGTCCTCCGGTAGCATCAAC 59.465 55.000 0.00 0.00 0.00 3.18
812 830 0.535335 GTCCTCCGGTAGCATCAACA 59.465 55.000 0.00 0.00 0.00 3.33
813 831 1.139058 GTCCTCCGGTAGCATCAACAT 59.861 52.381 0.00 0.00 0.00 2.71
814 832 1.138859 TCCTCCGGTAGCATCAACATG 59.861 52.381 0.00 0.00 0.00 3.21
815 833 1.586422 CTCCGGTAGCATCAACATGG 58.414 55.000 0.00 0.00 0.00 3.66
816 834 1.138859 CTCCGGTAGCATCAACATGGA 59.861 52.381 0.00 0.00 0.00 3.41
877 895 3.835395 TCCTTGTCTCTCTTCTTTCTCCC 59.165 47.826 0.00 0.00 0.00 4.30
896 914 1.982958 CCGGGTATATATATGGCCCCC 59.017 57.143 21.74 15.93 36.04 5.40
902 920 4.289672 GGTATATATATGGCCCCCTCCATG 59.710 50.000 0.00 0.00 45.84 3.66
934 952 1.337447 TGTACTTGGCCTTCGCAGTAC 60.337 52.381 3.32 12.53 36.38 2.73
976 994 2.727123 TCAGTGGTTCTTGCTGGAAA 57.273 45.000 0.00 0.00 0.00 3.13
1162 1181 0.031857 CATCGATCGGAAGCAGCTCT 59.968 55.000 16.41 0.00 0.00 4.09
1211 1243 8.421249 TCTTGTGAAGGGATCAATATGTTTTT 57.579 30.769 0.00 0.00 40.50 1.94
1276 1380 4.957296 ACGTGTGATTAACTGGAGTTTCT 58.043 39.130 0.00 0.00 39.31 2.52
1278 1382 5.465724 ACGTGTGATTAACTGGAGTTTCTTC 59.534 40.000 0.00 0.00 39.31 2.87
1281 1385 7.545965 CGTGTGATTAACTGGAGTTTCTTCTAT 59.454 37.037 0.00 0.00 39.31 1.98
1282 1386 8.874816 GTGTGATTAACTGGAGTTTCTTCTATC 58.125 37.037 0.00 0.00 39.31 2.08
1283 1387 8.816894 TGTGATTAACTGGAGTTTCTTCTATCT 58.183 33.333 0.00 0.00 39.31 1.98
1432 1546 3.243234 ACTGACCGATAGCGATCTCAAAG 60.243 47.826 0.00 0.00 40.82 2.77
1435 1549 3.906998 ACCGATAGCGATCTCAAAGATG 58.093 45.455 0.00 0.00 40.82 2.90
1854 1978 1.004610 GCACCGTCATGTGATTCGATG 60.005 52.381 0.00 0.00 38.55 3.84
1884 2022 2.113433 GCATCTGCACTCCAGCCAG 61.113 63.158 0.00 0.00 41.50 4.85
1972 2115 2.416547 AGATGAACTTGTGCATGTACGC 59.583 45.455 9.48 0.00 0.00 4.42
1973 2116 0.510790 TGAACTTGTGCATGTACGCG 59.489 50.000 3.53 3.53 33.35 6.01
2004 2153 9.387257 TGATGGATGATATATACTGTGCAAATC 57.613 33.333 0.00 0.00 0.00 2.17
2005 2154 8.743085 ATGGATGATATATACTGTGCAAATCC 57.257 34.615 0.00 0.00 0.00 3.01
2037 2509 4.081087 GTCCAAGGTGTAGATAAGCCTGAA 60.081 45.833 0.00 0.00 0.00 3.02
2165 2638 1.531739 TTGCAACGGGGGAAAGCATC 61.532 55.000 0.00 0.00 34.87 3.91
2309 2833 9.174166 GGTGAATCTAAGCTTATAAAGTGGAAA 57.826 33.333 6.64 0.00 0.00 3.13
2388 2912 4.421058 GGAAAACACCGCTTCATTAATCC 58.579 43.478 0.00 0.00 0.00 3.01
2409 2933 2.938451 CACACACCATAGCATACCTGTG 59.062 50.000 0.00 0.00 36.03 3.66
2460 2984 0.612732 CTGATGCAAAGGCCAGGGAA 60.613 55.000 5.01 0.00 40.13 3.97
2501 3025 8.726870 TCTAAAAATAACCTATTCTGAACGGG 57.273 34.615 11.02 9.71 0.00 5.28
2502 3026 8.323567 TCTAAAAATAACCTATTCTGAACGGGT 58.676 33.333 9.43 9.43 0.00 5.28
2503 3027 9.603921 CTAAAAATAACCTATTCTGAACGGGTA 57.396 33.333 13.91 10.80 0.00 3.69
2504 3028 8.866970 AAAAATAACCTATTCTGAACGGGTAA 57.133 30.769 13.91 0.97 0.00 2.85
2505 3029 8.866970 AAAATAACCTATTCTGAACGGGTAAA 57.133 30.769 13.91 8.10 0.00 2.01
2506 3030 7.854557 AATAACCTATTCTGAACGGGTAAAC 57.145 36.000 13.91 0.00 0.00 2.01
2507 3031 4.212143 ACCTATTCTGAACGGGTAAACC 57.788 45.455 12.49 0.00 0.00 3.27
2521 3045 4.859304 GGTAAACCCGGAAATTCACTTT 57.141 40.909 0.73 0.00 0.00 2.66
2522 3046 4.552355 GGTAAACCCGGAAATTCACTTTG 58.448 43.478 0.73 0.00 0.00 2.77
2523 3047 3.744238 AAACCCGGAAATTCACTTTGG 57.256 42.857 0.73 0.00 0.00 3.28
2524 3048 0.966179 ACCCGGAAATTCACTTTGGC 59.034 50.000 0.73 0.00 0.00 4.52
2525 3049 0.965439 CCCGGAAATTCACTTTGGCA 59.035 50.000 0.73 0.00 0.00 4.92
2526 3050 1.550072 CCCGGAAATTCACTTTGGCAT 59.450 47.619 0.73 0.00 0.00 4.40
2527 3051 2.757868 CCCGGAAATTCACTTTGGCATA 59.242 45.455 0.73 0.00 0.00 3.14
2528 3052 3.384467 CCCGGAAATTCACTTTGGCATAT 59.616 43.478 0.73 0.00 0.00 1.78
2529 3053 4.362279 CCGGAAATTCACTTTGGCATATG 58.638 43.478 0.00 0.00 0.00 1.78
2530 3054 4.362279 CGGAAATTCACTTTGGCATATGG 58.638 43.478 4.56 0.00 0.00 2.74
2531 3055 4.696455 GGAAATTCACTTTGGCATATGGG 58.304 43.478 4.56 0.00 0.00 4.00
2532 3056 4.405358 GGAAATTCACTTTGGCATATGGGA 59.595 41.667 4.56 0.00 0.00 4.37
2533 3057 5.070847 GGAAATTCACTTTGGCATATGGGAT 59.929 40.000 4.56 0.00 0.00 3.85
2534 3058 5.796424 AATTCACTTTGGCATATGGGATC 57.204 39.130 4.56 0.00 0.00 3.36
2535 3059 3.949586 TCACTTTGGCATATGGGATCA 57.050 42.857 4.56 0.00 0.00 2.92
2536 3060 4.458256 TCACTTTGGCATATGGGATCAT 57.542 40.909 4.56 0.00 37.40 2.45
2537 3061 5.581350 TCACTTTGGCATATGGGATCATA 57.419 39.130 4.56 0.00 39.85 2.15
2538 3062 5.316167 TCACTTTGGCATATGGGATCATAC 58.684 41.667 4.56 0.00 38.53 2.39
2539 3063 4.154737 CACTTTGGCATATGGGATCATACG 59.845 45.833 4.56 0.00 38.53 3.06
2540 3064 2.401583 TGGCATATGGGATCATACGC 57.598 50.000 4.56 0.00 42.38 4.42
2541 3065 1.908619 TGGCATATGGGATCATACGCT 59.091 47.619 4.56 0.00 42.62 5.07
2542 3066 2.093500 TGGCATATGGGATCATACGCTC 60.093 50.000 4.56 0.00 42.62 5.03
2543 3067 2.555199 GCATATGGGATCATACGCTCC 58.445 52.381 4.56 0.00 40.62 4.70
2547 3071 1.289380 GGGATCATACGCTCCCGTC 59.711 63.158 0.00 0.00 46.39 4.79
2548 3072 1.461091 GGGATCATACGCTCCCGTCA 61.461 60.000 0.00 0.00 46.39 4.35
2549 3073 0.603569 GGATCATACGCTCCCGTCAT 59.396 55.000 0.00 0.00 46.39 3.06
2550 3074 1.402984 GGATCATACGCTCCCGTCATC 60.403 57.143 0.00 0.00 46.39 2.92
2551 3075 0.241213 ATCATACGCTCCCGTCATCG 59.759 55.000 0.00 0.00 46.39 3.84
2584 3108 7.566858 CATTTCAAAATGTCTAAAGGTTCCG 57.433 36.000 7.20 0.00 40.61 4.30
2585 3109 6.945938 TTTCAAAATGTCTAAAGGTTCCGA 57.054 33.333 0.00 0.00 0.00 4.55
2586 3110 6.945938 TTCAAAATGTCTAAAGGTTCCGAA 57.054 33.333 0.00 0.00 0.00 4.30
2587 3111 6.308371 TCAAAATGTCTAAAGGTTCCGAAC 57.692 37.500 2.37 2.37 0.00 3.95
2588 3112 5.823570 TCAAAATGTCTAAAGGTTCCGAACA 59.176 36.000 13.23 0.00 0.00 3.18
2589 3113 6.319152 TCAAAATGTCTAAAGGTTCCGAACAA 59.681 34.615 13.23 0.00 0.00 2.83
2590 3114 6.702716 AAATGTCTAAAGGTTCCGAACAAA 57.297 33.333 13.23 0.00 0.00 2.83
2591 3115 6.702716 AATGTCTAAAGGTTCCGAACAAAA 57.297 33.333 13.23 0.00 0.00 2.44
2592 3116 6.702716 ATGTCTAAAGGTTCCGAACAAAAA 57.297 33.333 13.23 0.00 0.00 1.94
2621 3145 6.239217 TGCAGACATCTTCATATTGTAGGT 57.761 37.500 0.00 0.00 0.00 3.08
2622 3146 6.051074 TGCAGACATCTTCATATTGTAGGTG 58.949 40.000 0.00 0.00 32.92 4.00
2623 3147 5.049818 GCAGACATCTTCATATTGTAGGTGC 60.050 44.000 0.00 0.00 30.19 5.01
2624 3148 5.176406 CAGACATCTTCATATTGTAGGTGCG 59.824 44.000 0.00 0.00 30.19 5.34
2625 3149 3.809832 ACATCTTCATATTGTAGGTGCGC 59.190 43.478 0.00 0.00 30.19 6.09
2626 3150 3.535280 TCTTCATATTGTAGGTGCGCA 57.465 42.857 5.66 5.66 0.00 6.09
2627 3151 3.194861 TCTTCATATTGTAGGTGCGCAC 58.805 45.455 32.15 32.15 0.00 5.34
2628 3152 2.682155 TCATATTGTAGGTGCGCACA 57.318 45.000 38.60 20.86 0.00 4.57
2629 3153 3.192541 TCATATTGTAGGTGCGCACAT 57.807 42.857 38.60 35.18 0.00 3.21
2630 3154 3.130633 TCATATTGTAGGTGCGCACATC 58.869 45.455 38.60 26.94 0.00 3.06
2631 3155 2.682155 TATTGTAGGTGCGCACATCA 57.318 45.000 38.60 28.93 0.00 3.07
2632 3156 2.042686 ATTGTAGGTGCGCACATCAT 57.957 45.000 38.60 22.67 0.00 2.45
2633 3157 1.085893 TTGTAGGTGCGCACATCATG 58.914 50.000 38.60 0.00 0.00 3.07
2634 3158 0.744057 TGTAGGTGCGCACATCATGG 60.744 55.000 38.60 0.00 0.00 3.66
2635 3159 0.461870 GTAGGTGCGCACATCATGGA 60.462 55.000 38.60 16.69 0.00 3.41
2636 3160 0.251634 TAGGTGCGCACATCATGGAA 59.748 50.000 38.60 15.91 0.00 3.53
2637 3161 0.608856 AGGTGCGCACATCATGGAAA 60.609 50.000 38.60 0.00 0.00 3.13
2638 3162 0.243365 GGTGCGCACATCATGGAAAA 59.757 50.000 38.60 0.00 0.00 2.29
2639 3163 1.339711 GTGCGCACATCATGGAAAAC 58.660 50.000 34.52 2.48 0.00 2.43
2640 3164 0.957362 TGCGCACATCATGGAAAACA 59.043 45.000 5.66 0.00 0.00 2.83
2641 3165 1.339291 TGCGCACATCATGGAAAACAA 59.661 42.857 5.66 0.00 0.00 2.83
2642 3166 2.223900 TGCGCACATCATGGAAAACAAA 60.224 40.909 5.66 0.00 0.00 2.83
2643 3167 2.995258 GCGCACATCATGGAAAACAAAT 59.005 40.909 0.30 0.00 0.00 2.32
2644 3168 3.061161 GCGCACATCATGGAAAACAAATC 59.939 43.478 0.30 0.00 0.00 2.17
2645 3169 4.487948 CGCACATCATGGAAAACAAATCT 58.512 39.130 0.00 0.00 0.00 2.40
2646 3170 4.925054 CGCACATCATGGAAAACAAATCTT 59.075 37.500 0.00 0.00 0.00 2.40
2647 3171 5.406175 CGCACATCATGGAAAACAAATCTTT 59.594 36.000 0.00 0.00 0.00 2.52
2648 3172 6.073657 CGCACATCATGGAAAACAAATCTTTT 60.074 34.615 0.00 0.00 0.00 2.27
2649 3173 7.518689 CGCACATCATGGAAAACAAATCTTTTT 60.519 33.333 0.00 0.00 0.00 1.94
2671 3195 7.672983 TTTTGTGGCTTTTGTAAAAATGACA 57.327 28.000 0.00 0.00 0.00 3.58
2672 3196 7.672983 TTTGTGGCTTTTGTAAAAATGACAA 57.327 28.000 1.46 0.00 35.03 3.18
2673 3197 7.672983 TTGTGGCTTTTGTAAAAATGACAAA 57.327 28.000 1.46 0.00 43.29 2.83
2691 3215 7.467557 TGACAAAAGATGTTTCATGAAAAGC 57.532 32.000 22.07 14.53 44.12 3.51
2692 3216 6.479660 TGACAAAAGATGTTTCATGAAAAGCC 59.520 34.615 22.07 10.92 44.12 4.35
2693 3217 5.759763 ACAAAAGATGTTTCATGAAAAGCCC 59.240 36.000 22.07 10.57 40.06 5.19
2694 3218 4.541973 AAGATGTTTCATGAAAAGCCCC 57.458 40.909 22.07 10.22 31.33 5.80
2695 3219 3.782992 AGATGTTTCATGAAAAGCCCCT 58.217 40.909 22.07 11.90 31.33 4.79
2696 3220 4.162651 AGATGTTTCATGAAAAGCCCCTT 58.837 39.130 22.07 7.95 31.33 3.95
2697 3221 4.594491 AGATGTTTCATGAAAAGCCCCTTT 59.406 37.500 22.07 2.67 34.94 3.11
2698 3222 4.769345 TGTTTCATGAAAAGCCCCTTTT 57.231 36.364 22.07 2.84 44.92 2.27
2699 3223 5.878406 TGTTTCATGAAAAGCCCCTTTTA 57.122 34.783 22.07 0.00 42.72 1.52
2700 3224 6.240549 TGTTTCATGAAAAGCCCCTTTTAA 57.759 33.333 22.07 0.00 42.72 1.52
2701 3225 6.052360 TGTTTCATGAAAAGCCCCTTTTAAC 58.948 36.000 22.07 6.77 42.72 2.01
2702 3226 5.878406 TTCATGAAAAGCCCCTTTTAACA 57.122 34.783 5.45 0.00 42.72 2.41
2703 3227 5.208463 TCATGAAAAGCCCCTTTTAACAC 57.792 39.130 0.00 0.00 42.72 3.32
2704 3228 4.898861 TCATGAAAAGCCCCTTTTAACACT 59.101 37.500 0.00 0.00 42.72 3.55
2705 3229 4.664150 TGAAAAGCCCCTTTTAACACTG 57.336 40.909 3.19 0.00 42.72 3.66
2706 3230 4.282496 TGAAAAGCCCCTTTTAACACTGA 58.718 39.130 3.19 0.00 42.72 3.41
2707 3231 4.898861 TGAAAAGCCCCTTTTAACACTGAT 59.101 37.500 3.19 0.00 42.72 2.90
2708 3232 5.365314 TGAAAAGCCCCTTTTAACACTGATT 59.635 36.000 3.19 0.00 42.72 2.57
2709 3233 5.887214 AAAGCCCCTTTTAACACTGATTT 57.113 34.783 0.00 0.00 28.27 2.17
2710 3234 5.887214 AAGCCCCTTTTAACACTGATTTT 57.113 34.783 0.00 0.00 0.00 1.82
2711 3235 5.887214 AGCCCCTTTTAACACTGATTTTT 57.113 34.783 0.00 0.00 0.00 1.94
2712 3236 5.610398 AGCCCCTTTTAACACTGATTTTTG 58.390 37.500 0.00 0.00 0.00 2.44
2713 3237 5.130311 AGCCCCTTTTAACACTGATTTTTGT 59.870 36.000 0.00 0.00 0.00 2.83
2714 3238 5.465390 GCCCCTTTTAACACTGATTTTTGTC 59.535 40.000 0.00 0.00 0.00 3.18
2715 3239 6.685368 GCCCCTTTTAACACTGATTTTTGTCT 60.685 38.462 0.00 0.00 0.00 3.41
2716 3240 7.272244 CCCCTTTTAACACTGATTTTTGTCTT 58.728 34.615 0.00 0.00 0.00 3.01
2717 3241 7.768582 CCCCTTTTAACACTGATTTTTGTCTTT 59.231 33.333 0.00 0.00 0.00 2.52
2718 3242 9.161629 CCCTTTTAACACTGATTTTTGTCTTTT 57.838 29.630 0.00 0.00 0.00 2.27
2723 3247 9.581099 TTAACACTGATTTTTGTCTTTTTCTCC 57.419 29.630 0.00 0.00 0.00 3.71
2724 3248 6.573434 ACACTGATTTTTGTCTTTTTCTCCC 58.427 36.000 0.00 0.00 0.00 4.30
2725 3249 5.687285 CACTGATTTTTGTCTTTTTCTCCCG 59.313 40.000 0.00 0.00 0.00 5.14
2726 3250 4.616953 TGATTTTTGTCTTTTTCTCCCGC 58.383 39.130 0.00 0.00 0.00 6.13
2727 3251 4.340950 TGATTTTTGTCTTTTTCTCCCGCT 59.659 37.500 0.00 0.00 0.00 5.52
2728 3252 5.533154 TGATTTTTGTCTTTTTCTCCCGCTA 59.467 36.000 0.00 0.00 0.00 4.26
2729 3253 4.823790 TTTTGTCTTTTTCTCCCGCTAC 57.176 40.909 0.00 0.00 0.00 3.58
2730 3254 3.478857 TTGTCTTTTTCTCCCGCTACA 57.521 42.857 0.00 0.00 0.00 2.74
2731 3255 2.762745 TGTCTTTTTCTCCCGCTACAC 58.237 47.619 0.00 0.00 0.00 2.90
2732 3256 2.103432 TGTCTTTTTCTCCCGCTACACA 59.897 45.455 0.00 0.00 0.00 3.72
2733 3257 3.135994 GTCTTTTTCTCCCGCTACACAA 58.864 45.455 0.00 0.00 0.00 3.33
2734 3258 3.562557 GTCTTTTTCTCCCGCTACACAAA 59.437 43.478 0.00 0.00 0.00 2.83
2735 3259 4.035909 GTCTTTTTCTCCCGCTACACAAAA 59.964 41.667 0.00 0.00 0.00 2.44
2736 3260 4.274950 TCTTTTTCTCCCGCTACACAAAAG 59.725 41.667 0.00 0.00 33.12 2.27
2737 3261 2.922740 TTCTCCCGCTACACAAAAGT 57.077 45.000 0.00 0.00 0.00 2.66
2738 3262 2.922740 TCTCCCGCTACACAAAAGTT 57.077 45.000 0.00 0.00 0.00 2.66
2739 3263 2.489971 TCTCCCGCTACACAAAAGTTG 58.510 47.619 0.00 0.00 0.00 3.16
2740 3264 0.948678 TCCCGCTACACAAAAGTTGC 59.051 50.000 0.00 0.00 36.99 4.17
2741 3265 0.039527 CCCGCTACACAAAAGTTGCC 60.040 55.000 0.00 0.00 37.02 4.52
2742 3266 0.385473 CCGCTACACAAAAGTTGCCG 60.385 55.000 0.00 0.00 37.02 5.69
2743 3267 0.306533 CGCTACACAAAAGTTGCCGT 59.693 50.000 0.00 0.00 37.02 5.68
2744 3268 1.268335 CGCTACACAAAAGTTGCCGTT 60.268 47.619 0.00 0.00 37.02 4.44
2745 3269 2.793237 CGCTACACAAAAGTTGCCGTTT 60.793 45.455 0.00 0.00 37.02 3.60
2746 3270 3.183754 GCTACACAAAAGTTGCCGTTTT 58.816 40.909 0.00 0.00 34.82 2.43
2747 3271 3.615056 GCTACACAAAAGTTGCCGTTTTT 59.385 39.130 0.00 0.00 34.82 1.94
2771 3295 2.713976 GTGAAACGAATTTGTGAGCACG 59.286 45.455 0.00 0.00 0.00 5.34
2772 3296 2.353269 TGAAACGAATTTGTGAGCACGT 59.647 40.909 0.00 0.00 35.56 4.49
2773 3297 3.556365 TGAAACGAATTTGTGAGCACGTA 59.444 39.130 0.00 0.00 33.76 3.57
2774 3298 3.788434 AACGAATTTGTGAGCACGTAG 57.212 42.857 0.00 0.00 33.76 3.51
2775 3299 3.021269 ACGAATTTGTGAGCACGTAGA 57.979 42.857 0.00 0.00 32.42 2.59
2776 3300 3.386486 ACGAATTTGTGAGCACGTAGAA 58.614 40.909 0.00 0.00 32.42 2.10
2777 3301 3.994392 ACGAATTTGTGAGCACGTAGAAT 59.006 39.130 0.00 0.00 32.42 2.40
2778 3302 4.143115 ACGAATTTGTGAGCACGTAGAATG 60.143 41.667 0.00 0.00 32.42 2.67
2779 3303 4.143115 CGAATTTGTGAGCACGTAGAATGT 60.143 41.667 0.00 0.00 0.00 2.71
2780 3304 4.928661 ATTTGTGAGCACGTAGAATGTC 57.071 40.909 0.00 0.00 0.00 3.06
2781 3305 3.378911 TTGTGAGCACGTAGAATGTCA 57.621 42.857 0.00 0.00 0.00 3.58
2782 3306 3.378911 TGTGAGCACGTAGAATGTCAA 57.621 42.857 0.00 0.00 0.00 3.18
2783 3307 3.317150 TGTGAGCACGTAGAATGTCAAG 58.683 45.455 0.00 0.00 0.00 3.02
2784 3308 3.005367 TGTGAGCACGTAGAATGTCAAGA 59.995 43.478 0.00 0.00 0.00 3.02
2785 3309 4.177026 GTGAGCACGTAGAATGTCAAGAT 58.823 43.478 0.00 0.00 0.00 2.40
2786 3310 4.032217 GTGAGCACGTAGAATGTCAAGATG 59.968 45.833 0.00 0.00 0.00 2.90
2787 3311 4.177026 GAGCACGTAGAATGTCAAGATGT 58.823 43.478 0.00 0.00 0.00 3.06
2788 3312 5.105917 TGAGCACGTAGAATGTCAAGATGTA 60.106 40.000 0.00 0.00 0.00 2.29
2789 3313 5.103000 AGCACGTAGAATGTCAAGATGTAC 58.897 41.667 0.00 0.00 0.00 2.90
2790 3314 4.027621 GCACGTAGAATGTCAAGATGTACG 60.028 45.833 10.03 10.03 38.16 3.67
2791 3315 5.093457 CACGTAGAATGTCAAGATGTACGT 58.907 41.667 10.95 10.95 44.12 3.57
2792 3316 5.571741 CACGTAGAATGTCAAGATGTACGTT 59.428 40.000 12.95 0.00 42.10 3.99
2793 3317 5.571741 ACGTAGAATGTCAAGATGTACGTTG 59.428 40.000 0.00 0.00 41.46 4.10
2794 3318 4.928661 AGAATGTCAAGATGTACGTTGC 57.071 40.909 0.00 0.00 0.00 4.17
2795 3319 4.314961 AGAATGTCAAGATGTACGTTGCA 58.685 39.130 0.00 0.00 0.00 4.08
2796 3320 4.937620 AGAATGTCAAGATGTACGTTGCAT 59.062 37.500 0.00 0.00 0.00 3.96
2797 3321 6.106003 AGAATGTCAAGATGTACGTTGCATA 58.894 36.000 0.00 0.00 0.00 3.14
2798 3322 5.718649 ATGTCAAGATGTACGTTGCATAC 57.281 39.130 0.00 0.00 0.00 2.39
2808 3332 3.290098 GTTGCATACGACGCCTTTG 57.710 52.632 0.00 0.00 0.00 2.77
2809 3333 0.179200 GTTGCATACGACGCCTTTGG 60.179 55.000 0.00 0.00 0.00 3.28
2810 3334 1.917782 TTGCATACGACGCCTTTGGC 61.918 55.000 0.00 0.00 46.75 4.52
2821 3345 3.998560 CCTTTGGCACCCTTATGGA 57.001 52.632 0.00 0.00 38.00 3.41
2822 3346 2.230130 CCTTTGGCACCCTTATGGAA 57.770 50.000 0.00 0.00 38.00 3.53
2823 3347 2.534990 CCTTTGGCACCCTTATGGAAA 58.465 47.619 0.00 0.00 38.00 3.13
2824 3348 2.497273 CCTTTGGCACCCTTATGGAAAG 59.503 50.000 0.00 0.00 38.00 2.62
2825 3349 2.990740 TTGGCACCCTTATGGAAAGT 57.009 45.000 0.00 0.00 38.00 2.66
2826 3350 2.214376 TGGCACCCTTATGGAAAGTG 57.786 50.000 0.00 0.00 38.00 3.16
2827 3351 1.427368 TGGCACCCTTATGGAAAGTGT 59.573 47.619 0.00 0.00 38.00 3.55
2828 3352 2.158385 TGGCACCCTTATGGAAAGTGTT 60.158 45.455 0.00 0.00 38.00 3.32
2829 3353 2.492088 GGCACCCTTATGGAAAGTGTTC 59.508 50.000 0.00 0.00 38.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 5.543507 AATGAAGCATCCTAGGACAGTAG 57.456 43.478 15.42 3.16 0.00 2.57
76 77 6.136857 ACTAATGAAGCATCCTAGGACAGTA 58.863 40.000 15.42 9.76 0.00 2.74
77 78 4.965532 ACTAATGAAGCATCCTAGGACAGT 59.034 41.667 15.42 9.06 0.00 3.55
78 79 5.543507 ACTAATGAAGCATCCTAGGACAG 57.456 43.478 15.42 11.25 0.00 3.51
79 80 5.957771 AACTAATGAAGCATCCTAGGACA 57.042 39.130 15.42 7.62 0.00 4.02
167 168 2.037641 CTGCCTTTTGGAAAAAGAGGGG 59.962 50.000 12.83 0.31 44.07 4.79
168 169 2.548707 GCTGCCTTTTGGAAAAAGAGGG 60.549 50.000 12.83 0.62 44.07 4.30
171 172 1.068434 CGGCTGCCTTTTGGAAAAAGA 59.932 47.619 17.92 0.00 44.07 2.52
174 175 1.068921 GCGGCTGCCTTTTGGAAAA 59.931 52.632 17.92 0.00 44.07 2.29
249 250 1.238439 CCTTCGCTGCTCCTTTCAAA 58.762 50.000 0.00 0.00 0.00 2.69
358 359 2.552743 GCCGTAGTTTTCAGCCTCTTTT 59.447 45.455 0.00 0.00 0.00 2.27
430 431 1.532604 CCTGATGCGCCGGGTCTATA 61.533 60.000 4.18 0.00 0.00 1.31
432 433 3.536917 CCTGATGCGCCGGGTCTA 61.537 66.667 4.18 0.00 0.00 2.59
449 450 6.807789 AGCTAGGTTAGTAGTATGTTCTTGC 58.192 40.000 0.00 0.00 0.00 4.01
796 814 1.138859 TCCATGTTGATGCTACCGGAG 59.861 52.381 9.46 1.84 0.00 4.63
797 815 1.134521 GTCCATGTTGATGCTACCGGA 60.135 52.381 9.46 0.00 0.00 5.14
798 816 1.134401 AGTCCATGTTGATGCTACCGG 60.134 52.381 0.00 0.00 0.00 5.28
799 817 2.315925 AGTCCATGTTGATGCTACCG 57.684 50.000 0.00 0.00 0.00 4.02
800 818 2.098117 GCAAGTCCATGTTGATGCTACC 59.902 50.000 0.00 0.00 0.00 3.18
801 819 2.749076 TGCAAGTCCATGTTGATGCTAC 59.251 45.455 10.74 0.00 34.97 3.58
802 820 2.749076 GTGCAAGTCCATGTTGATGCTA 59.251 45.455 10.74 0.00 34.97 3.49
803 821 1.542915 GTGCAAGTCCATGTTGATGCT 59.457 47.619 10.74 0.00 34.97 3.79
804 822 1.403249 GGTGCAAGTCCATGTTGATGC 60.403 52.381 0.00 1.97 0.00 3.91
805 823 1.887854 TGGTGCAAGTCCATGTTGATG 59.112 47.619 0.00 0.00 0.00 3.07
806 824 2.291209 TGGTGCAAGTCCATGTTGAT 57.709 45.000 0.00 0.00 0.00 2.57
807 825 1.680735 GTTGGTGCAAGTCCATGTTGA 59.319 47.619 0.00 0.00 34.75 3.18
808 826 1.269726 GGTTGGTGCAAGTCCATGTTG 60.270 52.381 0.00 0.00 34.75 3.33
809 827 1.039856 GGTTGGTGCAAGTCCATGTT 58.960 50.000 0.00 0.00 34.75 2.71
810 828 0.827507 GGGTTGGTGCAAGTCCATGT 60.828 55.000 0.00 0.00 34.75 3.21
811 829 0.540365 AGGGTTGGTGCAAGTCCATG 60.540 55.000 0.00 0.00 34.75 3.66
812 830 1.072266 TAGGGTTGGTGCAAGTCCAT 58.928 50.000 0.00 0.00 34.75 3.41
813 831 0.847373 TTAGGGTTGGTGCAAGTCCA 59.153 50.000 0.00 0.00 0.00 4.02
814 832 1.244816 GTTAGGGTTGGTGCAAGTCC 58.755 55.000 0.00 0.00 0.00 3.85
815 833 1.244816 GGTTAGGGTTGGTGCAAGTC 58.755 55.000 0.00 0.00 0.00 3.01
816 834 0.553819 TGGTTAGGGTTGGTGCAAGT 59.446 50.000 0.00 0.00 0.00 3.16
877 895 2.904434 GAGGGGGCCATATATATACCCG 59.096 54.545 19.68 0.43 41.83 5.28
896 914 1.561542 ACAGAACCTTAGGCCATGGAG 59.438 52.381 18.40 3.14 0.00 3.86
902 920 2.940083 GCCAAGTACAGAACCTTAGGCC 60.940 54.545 0.00 0.00 33.68 5.19
934 952 1.205064 CCGTTCTTGCGCTTGTCTG 59.795 57.895 9.73 0.00 0.00 3.51
976 994 8.944029 CATGATCTGATCTAACTCAACTTTTGT 58.056 33.333 17.82 0.00 0.00 2.83
1132 1151 4.459390 TCCGATCGATGAACAAACCTAA 57.541 40.909 18.66 0.00 0.00 2.69
1162 1181 4.474651 TCAGAAGGCCATCTTTGGAAGATA 59.525 41.667 8.02 0.00 46.20 1.98
1170 1189 4.015084 CACAAGATCAGAAGGCCATCTTT 58.985 43.478 8.02 0.00 35.16 2.52
1432 1546 5.112686 AGAGTTAGATCGCTTGGTTTCATC 58.887 41.667 0.00 0.00 0.00 2.92
1435 1549 5.864628 AAAGAGTTAGATCGCTTGGTTTC 57.135 39.130 0.00 0.00 0.00 2.78
1854 1978 5.811613 GGAGTGCAGATGCTAATATGAGATC 59.188 44.000 6.35 0.00 42.66 2.75
1884 2022 6.842437 TCTAGTAATCTAGGCATCATGTCC 57.158 41.667 0.00 0.00 42.66 4.02
1972 2115 8.131731 CACAGTATATATCATCCATCAGTACCG 58.868 40.741 0.00 0.00 0.00 4.02
1973 2116 7.923344 GCACAGTATATATCATCCATCAGTACC 59.077 40.741 0.00 0.00 0.00 3.34
2004 2153 0.944311 CACCTTGGACGTGAACGAGG 60.944 60.000 10.26 13.57 43.02 4.63
2005 2154 0.249322 ACACCTTGGACGTGAACGAG 60.249 55.000 10.26 0.00 43.02 4.18
2083 2555 1.542030 GAGAAGGCTCGAGACTGACAA 59.458 52.381 24.53 0.00 30.66 3.18
2141 2614 1.138069 CTTTCCCCCGTTGCAAAAAGT 59.862 47.619 0.00 0.00 0.00 2.66
2165 2638 7.436118 TCAAGAGTTGGAAGATTCAATTTTGG 58.564 34.615 0.00 0.00 0.00 3.28
2325 2849 6.309712 TCGATTACTACCTAGAACATTCCG 57.690 41.667 0.00 0.00 0.00 4.30
2369 2893 3.823873 TGTGGATTAATGAAGCGGTGTTT 59.176 39.130 0.00 0.00 0.00 2.83
2388 2912 2.938451 CACAGGTATGCTATGGTGTGTG 59.062 50.000 0.00 0.00 32.44 3.82
2409 2933 8.145122 AGCCATATTTACTAAGTTCAGAGTAGC 58.855 37.037 0.00 0.00 30.10 3.58
2477 3001 8.502105 ACCCGTTCAGAATAGGTTATTTTTAG 57.498 34.615 1.94 0.00 0.00 1.85
2478 3002 9.956640 TTACCCGTTCAGAATAGGTTATTTTTA 57.043 29.630 11.30 0.00 31.89 1.52
2479 3003 8.866970 TTACCCGTTCAGAATAGGTTATTTTT 57.133 30.769 11.30 0.00 31.89 1.94
2483 3007 6.351711 GGTTTACCCGTTCAGAATAGGTTAT 58.648 40.000 11.30 0.00 31.89 1.89
2485 3009 4.582869 GGTTTACCCGTTCAGAATAGGTT 58.417 43.478 11.30 0.00 31.89 3.50
2500 3024 4.552355 CAAAGTGAATTTCCGGGTTTACC 58.448 43.478 0.00 0.00 0.00 2.85
2501 3025 4.552355 CCAAAGTGAATTTCCGGGTTTAC 58.448 43.478 0.00 1.78 0.00 2.01
2502 3026 3.006003 GCCAAAGTGAATTTCCGGGTTTA 59.994 43.478 0.00 0.00 0.00 2.01
2503 3027 2.224185 GCCAAAGTGAATTTCCGGGTTT 60.224 45.455 0.00 0.00 0.00 3.27
2504 3028 1.343142 GCCAAAGTGAATTTCCGGGTT 59.657 47.619 0.00 0.00 0.00 4.11
2505 3029 0.966179 GCCAAAGTGAATTTCCGGGT 59.034 50.000 0.00 0.00 0.00 5.28
2506 3030 0.965439 TGCCAAAGTGAATTTCCGGG 59.035 50.000 0.00 0.00 0.00 5.73
2507 3031 4.362279 CATATGCCAAAGTGAATTTCCGG 58.638 43.478 0.00 0.00 0.00 5.14
2508 3032 4.362279 CCATATGCCAAAGTGAATTTCCG 58.638 43.478 0.00 0.00 0.00 4.30
2509 3033 4.405358 TCCCATATGCCAAAGTGAATTTCC 59.595 41.667 0.00 0.00 0.00 3.13
2510 3034 5.596836 TCCCATATGCCAAAGTGAATTTC 57.403 39.130 0.00 0.00 0.00 2.17
2511 3035 5.662208 TGATCCCATATGCCAAAGTGAATTT 59.338 36.000 0.00 0.00 0.00 1.82
2512 3036 5.210430 TGATCCCATATGCCAAAGTGAATT 58.790 37.500 0.00 0.00 0.00 2.17
2513 3037 4.806892 TGATCCCATATGCCAAAGTGAAT 58.193 39.130 0.00 0.00 0.00 2.57
2514 3038 4.248174 TGATCCCATATGCCAAAGTGAA 57.752 40.909 0.00 0.00 0.00 3.18
2515 3039 3.949586 TGATCCCATATGCCAAAGTGA 57.050 42.857 0.00 0.00 0.00 3.41
2516 3040 4.154737 CGTATGATCCCATATGCCAAAGTG 59.845 45.833 0.00 0.00 37.56 3.16
2517 3041 4.326826 CGTATGATCCCATATGCCAAAGT 58.673 43.478 0.00 0.00 37.56 2.66
2518 3042 4.952262 CGTATGATCCCATATGCCAAAG 57.048 45.455 0.00 0.00 37.56 2.77
2531 3055 1.729472 CGATGACGGGAGCGTATGATC 60.729 57.143 0.00 0.00 35.72 2.92
2532 3056 0.241213 CGATGACGGGAGCGTATGAT 59.759 55.000 0.00 0.00 35.72 2.45
2533 3057 1.652563 CGATGACGGGAGCGTATGA 59.347 57.895 0.00 0.00 35.72 2.15
2534 3058 4.228451 CGATGACGGGAGCGTATG 57.772 61.111 0.00 0.00 35.72 2.39
2561 3085 7.519032 TCGGAACCTTTAGACATTTTGAAAT 57.481 32.000 0.00 0.00 0.00 2.17
2562 3086 6.945938 TCGGAACCTTTAGACATTTTGAAA 57.054 33.333 0.00 0.00 0.00 2.69
2563 3087 6.319152 TGTTCGGAACCTTTAGACATTTTGAA 59.681 34.615 17.62 0.00 0.00 2.69
2564 3088 5.823570 TGTTCGGAACCTTTAGACATTTTGA 59.176 36.000 17.62 0.00 0.00 2.69
2565 3089 6.067263 TGTTCGGAACCTTTAGACATTTTG 57.933 37.500 17.62 0.00 0.00 2.44
2566 3090 6.702716 TTGTTCGGAACCTTTAGACATTTT 57.297 33.333 17.62 0.00 0.00 1.82
2567 3091 6.702716 TTTGTTCGGAACCTTTAGACATTT 57.297 33.333 17.62 0.00 0.00 2.32
2568 3092 6.702716 TTTTGTTCGGAACCTTTAGACATT 57.297 33.333 17.62 0.00 0.00 2.71
2569 3093 6.702716 TTTTTGTTCGGAACCTTTAGACAT 57.297 33.333 17.62 0.00 0.00 3.06
2597 3121 6.709397 CACCTACAATATGAAGATGTCTGCAT 59.291 38.462 8.49 8.49 44.29 3.96
2598 3122 6.051074 CACCTACAATATGAAGATGTCTGCA 58.949 40.000 0.00 0.00 35.64 4.41
2599 3123 5.049818 GCACCTACAATATGAAGATGTCTGC 60.050 44.000 0.00 0.00 0.00 4.26
2600 3124 5.176406 CGCACCTACAATATGAAGATGTCTG 59.824 44.000 0.00 0.00 0.00 3.51
2601 3125 5.292765 CGCACCTACAATATGAAGATGTCT 58.707 41.667 0.00 0.00 0.00 3.41
2602 3126 4.084328 GCGCACCTACAATATGAAGATGTC 60.084 45.833 0.30 0.00 0.00 3.06
2603 3127 3.809832 GCGCACCTACAATATGAAGATGT 59.190 43.478 0.30 0.00 0.00 3.06
2604 3128 3.809279 TGCGCACCTACAATATGAAGATG 59.191 43.478 5.66 0.00 0.00 2.90
2605 3129 3.809832 GTGCGCACCTACAATATGAAGAT 59.190 43.478 30.12 0.00 0.00 2.40
2606 3130 3.194861 GTGCGCACCTACAATATGAAGA 58.805 45.455 30.12 0.00 0.00 2.87
2607 3131 2.935849 TGTGCGCACCTACAATATGAAG 59.064 45.455 35.72 0.00 0.00 3.02
2608 3132 2.979240 TGTGCGCACCTACAATATGAA 58.021 42.857 35.72 11.40 0.00 2.57
2609 3133 2.682155 TGTGCGCACCTACAATATGA 57.318 45.000 35.72 11.96 0.00 2.15
2610 3134 2.871633 TGATGTGCGCACCTACAATATG 59.128 45.455 35.72 0.00 0.00 1.78
2611 3135 3.192541 TGATGTGCGCACCTACAATAT 57.807 42.857 35.72 21.32 0.00 1.28
2612 3136 2.682155 TGATGTGCGCACCTACAATA 57.318 45.000 35.72 17.31 0.00 1.90
2613 3137 1.672363 CATGATGTGCGCACCTACAAT 59.328 47.619 35.72 22.80 0.00 2.71
2614 3138 1.085893 CATGATGTGCGCACCTACAA 58.914 50.000 35.72 18.87 0.00 2.41
2615 3139 0.744057 CCATGATGTGCGCACCTACA 60.744 55.000 35.72 29.48 0.00 2.74
2616 3140 0.461870 TCCATGATGTGCGCACCTAC 60.462 55.000 35.72 25.40 0.00 3.18
2617 3141 0.251634 TTCCATGATGTGCGCACCTA 59.748 50.000 35.72 22.39 0.00 3.08
2618 3142 0.608856 TTTCCATGATGTGCGCACCT 60.609 50.000 35.72 27.70 0.00 4.00
2619 3143 0.243365 TTTTCCATGATGTGCGCACC 59.757 50.000 35.72 22.50 0.00 5.01
2620 3144 1.335780 TGTTTTCCATGATGTGCGCAC 60.336 47.619 33.11 33.11 0.00 5.34
2621 3145 0.957362 TGTTTTCCATGATGTGCGCA 59.043 45.000 5.66 5.66 0.00 6.09
2622 3146 2.063156 TTGTTTTCCATGATGTGCGC 57.937 45.000 0.00 0.00 0.00 6.09
2623 3147 4.487948 AGATTTGTTTTCCATGATGTGCG 58.512 39.130 0.00 0.00 0.00 5.34
2624 3148 6.790285 AAAGATTTGTTTTCCATGATGTGC 57.210 33.333 0.00 0.00 0.00 4.57
2646 3170 8.099364 TGTCATTTTTACAAAAGCCACAAAAA 57.901 26.923 0.00 0.00 33.90 1.94
2647 3171 7.672983 TGTCATTTTTACAAAAGCCACAAAA 57.327 28.000 0.00 0.00 0.00 2.44
2648 3172 7.672983 TTGTCATTTTTACAAAAGCCACAAA 57.327 28.000 0.00 0.00 34.04 2.83
2649 3173 7.672983 TTTGTCATTTTTACAAAAGCCACAA 57.327 28.000 0.00 0.00 42.28 3.33
2650 3174 7.672983 TTTTGTCATTTTTACAAAAGCCACA 57.327 28.000 9.40 0.00 46.46 4.17
2665 3189 8.553696 GCTTTTCATGAAACATCTTTTGTCATT 58.446 29.630 20.35 0.00 37.68 2.57
2666 3190 7.172019 GGCTTTTCATGAAACATCTTTTGTCAT 59.828 33.333 20.35 0.00 37.68 3.06
2667 3191 6.479660 GGCTTTTCATGAAACATCTTTTGTCA 59.520 34.615 20.35 0.81 37.68 3.58
2668 3192 6.073602 GGGCTTTTCATGAAACATCTTTTGTC 60.074 38.462 20.35 5.35 37.68 3.18
2669 3193 5.759763 GGGCTTTTCATGAAACATCTTTTGT 59.240 36.000 20.35 0.00 41.53 2.83
2670 3194 5.179929 GGGGCTTTTCATGAAACATCTTTTG 59.820 40.000 20.35 5.19 0.00 2.44
2671 3195 5.072193 AGGGGCTTTTCATGAAACATCTTTT 59.928 36.000 20.35 1.92 0.00 2.27
2672 3196 4.594491 AGGGGCTTTTCATGAAACATCTTT 59.406 37.500 20.35 3.34 0.00 2.52
2673 3197 4.162651 AGGGGCTTTTCATGAAACATCTT 58.837 39.130 20.35 4.89 0.00 2.40
2674 3198 3.782992 AGGGGCTTTTCATGAAACATCT 58.217 40.909 20.35 10.67 0.00 2.90
2675 3199 4.541973 AAGGGGCTTTTCATGAAACATC 57.458 40.909 20.35 11.68 0.00 3.06
2676 3200 4.980339 AAAGGGGCTTTTCATGAAACAT 57.020 36.364 20.35 4.20 28.27 2.71
2677 3201 4.769345 AAAAGGGGCTTTTCATGAAACA 57.231 36.364 20.35 10.79 39.10 2.83
2678 3202 6.018262 GTGTTAAAAGGGGCTTTTCATGAAAC 60.018 38.462 20.35 10.03 41.88 2.78
2679 3203 6.052360 GTGTTAAAAGGGGCTTTTCATGAAA 58.948 36.000 16.91 16.91 41.88 2.69
2680 3204 5.365314 AGTGTTAAAAGGGGCTTTTCATGAA 59.635 36.000 3.38 3.38 41.88 2.57
2681 3205 4.898861 AGTGTTAAAAGGGGCTTTTCATGA 59.101 37.500 0.00 0.00 41.88 3.07
2682 3206 4.990426 CAGTGTTAAAAGGGGCTTTTCATG 59.010 41.667 0.00 0.00 41.88 3.07
2683 3207 4.898861 TCAGTGTTAAAAGGGGCTTTTCAT 59.101 37.500 0.00 0.00 41.88 2.57
2684 3208 4.282496 TCAGTGTTAAAAGGGGCTTTTCA 58.718 39.130 0.00 0.00 41.88 2.69
2685 3209 4.929819 TCAGTGTTAAAAGGGGCTTTTC 57.070 40.909 0.00 0.00 41.88 2.29
2686 3210 5.887214 AATCAGTGTTAAAAGGGGCTTTT 57.113 34.783 0.00 0.00 44.46 2.27
2687 3211 5.887214 AAATCAGTGTTAAAAGGGGCTTT 57.113 34.783 0.00 0.00 34.94 3.51
2688 3212 5.887214 AAAATCAGTGTTAAAAGGGGCTT 57.113 34.783 0.00 0.00 0.00 4.35
2689 3213 5.130311 ACAAAAATCAGTGTTAAAAGGGGCT 59.870 36.000 0.00 0.00 0.00 5.19
2690 3214 5.364778 ACAAAAATCAGTGTTAAAAGGGGC 58.635 37.500 0.00 0.00 0.00 5.80
2691 3215 6.816136 AGACAAAAATCAGTGTTAAAAGGGG 58.184 36.000 0.00 0.00 0.00 4.79
2692 3216 8.716646 AAAGACAAAAATCAGTGTTAAAAGGG 57.283 30.769 0.00 0.00 0.00 3.95
2697 3221 9.581099 GGAGAAAAAGACAAAAATCAGTGTTAA 57.419 29.630 0.00 0.00 0.00 2.01
2698 3222 8.194769 GGGAGAAAAAGACAAAAATCAGTGTTA 58.805 33.333 0.00 0.00 0.00 2.41
2699 3223 7.041721 GGGAGAAAAAGACAAAAATCAGTGTT 58.958 34.615 0.00 0.00 0.00 3.32
2700 3224 6.573434 GGGAGAAAAAGACAAAAATCAGTGT 58.427 36.000 0.00 0.00 0.00 3.55
2701 3225 5.687285 CGGGAGAAAAAGACAAAAATCAGTG 59.313 40.000 0.00 0.00 0.00 3.66
2702 3226 5.736207 GCGGGAGAAAAAGACAAAAATCAGT 60.736 40.000 0.00 0.00 0.00 3.41
2703 3227 4.681483 GCGGGAGAAAAAGACAAAAATCAG 59.319 41.667 0.00 0.00 0.00 2.90
2704 3228 4.340950 AGCGGGAGAAAAAGACAAAAATCA 59.659 37.500 0.00 0.00 0.00 2.57
2705 3229 4.871513 AGCGGGAGAAAAAGACAAAAATC 58.128 39.130 0.00 0.00 0.00 2.17
2706 3230 4.937201 AGCGGGAGAAAAAGACAAAAAT 57.063 36.364 0.00 0.00 0.00 1.82
2707 3231 4.641094 TGTAGCGGGAGAAAAAGACAAAAA 59.359 37.500 0.00 0.00 0.00 1.94
2708 3232 4.035909 GTGTAGCGGGAGAAAAAGACAAAA 59.964 41.667 0.00 0.00 0.00 2.44
2709 3233 3.562557 GTGTAGCGGGAGAAAAAGACAAA 59.437 43.478 0.00 0.00 0.00 2.83
2710 3234 3.135994 GTGTAGCGGGAGAAAAAGACAA 58.864 45.455 0.00 0.00 0.00 3.18
2711 3235 2.103432 TGTGTAGCGGGAGAAAAAGACA 59.897 45.455 0.00 0.00 0.00 3.41
2712 3236 2.762745 TGTGTAGCGGGAGAAAAAGAC 58.237 47.619 0.00 0.00 0.00 3.01
2713 3237 3.478857 TTGTGTAGCGGGAGAAAAAGA 57.521 42.857 0.00 0.00 0.00 2.52
2714 3238 4.036380 ACTTTTGTGTAGCGGGAGAAAAAG 59.964 41.667 0.00 0.00 38.49 2.27
2715 3239 3.949113 ACTTTTGTGTAGCGGGAGAAAAA 59.051 39.130 0.00 0.00 0.00 1.94
2716 3240 3.547746 ACTTTTGTGTAGCGGGAGAAAA 58.452 40.909 0.00 0.00 0.00 2.29
2717 3241 3.202829 ACTTTTGTGTAGCGGGAGAAA 57.797 42.857 0.00 0.00 0.00 2.52
2718 3242 2.875933 CAACTTTTGTGTAGCGGGAGAA 59.124 45.455 0.00 0.00 0.00 2.87
2719 3243 2.489971 CAACTTTTGTGTAGCGGGAGA 58.510 47.619 0.00 0.00 0.00 3.71
2720 3244 1.069227 GCAACTTTTGTGTAGCGGGAG 60.069 52.381 0.00 0.00 0.00 4.30
2721 3245 0.948678 GCAACTTTTGTGTAGCGGGA 59.051 50.000 0.00 0.00 0.00 5.14
2722 3246 0.039527 GGCAACTTTTGTGTAGCGGG 60.040 55.000 0.00 0.00 0.00 6.13
2723 3247 0.385473 CGGCAACTTTTGTGTAGCGG 60.385 55.000 0.00 0.00 0.00 5.52
2724 3248 0.306533 ACGGCAACTTTTGTGTAGCG 59.693 50.000 0.00 0.00 0.00 4.26
2725 3249 2.485266 AACGGCAACTTTTGTGTAGC 57.515 45.000 0.00 0.00 0.00 3.58
2749 3273 2.713976 GTGCTCACAAATTCGTTTCACG 59.286 45.455 0.00 0.00 44.19 4.35
2750 3274 2.713976 CGTGCTCACAAATTCGTTTCAC 59.286 45.455 0.69 0.00 0.00 3.18
2751 3275 2.353269 ACGTGCTCACAAATTCGTTTCA 59.647 40.909 0.00 0.00 0.00 2.69
2752 3276 2.981875 ACGTGCTCACAAATTCGTTTC 58.018 42.857 0.00 0.00 0.00 2.78
2753 3277 3.805422 TCTACGTGCTCACAAATTCGTTT 59.195 39.130 0.00 0.00 33.70 3.60
2754 3278 3.386486 TCTACGTGCTCACAAATTCGTT 58.614 40.909 0.00 0.00 33.70 3.85
2755 3279 3.021269 TCTACGTGCTCACAAATTCGT 57.979 42.857 0.00 0.00 35.73 3.85
2756 3280 4.143115 ACATTCTACGTGCTCACAAATTCG 60.143 41.667 0.00 0.00 0.00 3.34
2757 3281 5.107104 TGACATTCTACGTGCTCACAAATTC 60.107 40.000 0.00 0.00 0.00 2.17
2758 3282 4.754618 TGACATTCTACGTGCTCACAAATT 59.245 37.500 0.00 0.00 0.00 1.82
2759 3283 4.314961 TGACATTCTACGTGCTCACAAAT 58.685 39.130 0.00 0.00 0.00 2.32
2760 3284 3.723260 TGACATTCTACGTGCTCACAAA 58.277 40.909 0.00 0.00 0.00 2.83
2761 3285 3.378911 TGACATTCTACGTGCTCACAA 57.621 42.857 0.00 0.00 0.00 3.33
2762 3286 3.005367 TCTTGACATTCTACGTGCTCACA 59.995 43.478 0.00 0.00 0.00 3.58
2763 3287 3.575630 TCTTGACATTCTACGTGCTCAC 58.424 45.455 0.00 0.00 0.00 3.51
2764 3288 3.934457 TCTTGACATTCTACGTGCTCA 57.066 42.857 0.00 0.00 0.00 4.26
2765 3289 4.177026 ACATCTTGACATTCTACGTGCTC 58.823 43.478 0.00 0.00 0.00 4.26
2766 3290 4.193826 ACATCTTGACATTCTACGTGCT 57.806 40.909 0.00 0.00 0.00 4.40
2767 3291 4.027621 CGTACATCTTGACATTCTACGTGC 60.028 45.833 0.00 0.00 0.00 5.34
2768 3292 5.093457 ACGTACATCTTGACATTCTACGTG 58.907 41.667 0.00 0.00 37.80 4.49
2769 3293 5.306532 ACGTACATCTTGACATTCTACGT 57.693 39.130 0.00 0.00 35.21 3.57
2770 3294 5.498700 GCAACGTACATCTTGACATTCTACG 60.499 44.000 0.00 0.00 33.44 3.51
2771 3295 5.347635 TGCAACGTACATCTTGACATTCTAC 59.652 40.000 0.00 0.00 0.00 2.59
2772 3296 5.474825 TGCAACGTACATCTTGACATTCTA 58.525 37.500 0.00 0.00 0.00 2.10
2773 3297 4.314961 TGCAACGTACATCTTGACATTCT 58.685 39.130 0.00 0.00 0.00 2.40
2774 3298 4.661993 TGCAACGTACATCTTGACATTC 57.338 40.909 0.00 0.00 0.00 2.67
2775 3299 5.220397 CGTATGCAACGTACATCTTGACATT 60.220 40.000 7.22 0.00 46.72 2.71
2776 3300 4.267690 CGTATGCAACGTACATCTTGACAT 59.732 41.667 7.22 3.42 46.72 3.06
2777 3301 3.610677 CGTATGCAACGTACATCTTGACA 59.389 43.478 7.22 0.00 46.72 3.58
2778 3302 4.164802 CGTATGCAACGTACATCTTGAC 57.835 45.455 7.22 0.87 46.72 3.18
2790 3314 0.179200 CCAAAGGCGTCGTATGCAAC 60.179 55.000 0.00 0.00 0.00 4.17
2791 3315 1.917782 GCCAAAGGCGTCGTATGCAA 61.918 55.000 0.00 0.00 39.62 4.08
2792 3316 2.395360 GCCAAAGGCGTCGTATGCA 61.395 57.895 0.00 0.00 39.62 3.96
2793 3317 2.403586 GCCAAAGGCGTCGTATGC 59.596 61.111 0.00 0.00 39.62 3.14
2802 3326 0.324275 TCCATAAGGGTGCCAAAGGC 60.324 55.000 0.00 0.00 41.97 4.35
2803 3327 2.230130 TTCCATAAGGGTGCCAAAGG 57.770 50.000 0.00 0.00 38.11 3.11
2804 3328 3.056607 CACTTTCCATAAGGGTGCCAAAG 60.057 47.826 0.00 0.00 38.11 2.77
2805 3329 2.896685 CACTTTCCATAAGGGTGCCAAA 59.103 45.455 0.00 0.00 38.11 3.28
2806 3330 2.158385 ACACTTTCCATAAGGGTGCCAA 60.158 45.455 0.00 0.00 38.11 4.52
2807 3331 1.427368 ACACTTTCCATAAGGGTGCCA 59.573 47.619 0.00 0.00 38.11 4.92
2808 3332 2.215942 ACACTTTCCATAAGGGTGCC 57.784 50.000 0.00 0.00 38.11 5.01
2809 3333 3.850122 GAACACTTTCCATAAGGGTGC 57.150 47.619 0.00 0.00 33.51 5.01


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

AutoCloner maintained by Alex Coulton.