Multiple sequence alignment - TraesCS4D01G293100

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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 TraesCS4D01G293100 chr4D 100.000 2455 0 0 1 2455 464081441 464078987 0.000000e+00 4534
1 TraesCS4D01G293100 chr4B 91.088 1728 95 26 592 2295 579469790 579468098 0.000000e+00 2283
2 TraesCS4D01G293100 chr4B 87.469 407 31 7 175 572 579470176 579469781 3.720000e-123 451
3 TraesCS4D01G293100 chr4B 80.235 425 79 4 2034 2455 661537694 661537272 5.100000e-82 315
4 TraesCS4D01G293100 chr4A 91.315 852 29 14 1152 1971 5972937 5973775 0.000000e+00 1122
5 TraesCS4D01G293100 chr4A 88.792 687 36 17 463 1141 5972196 5972849 0.000000e+00 804
6 TraesCS4D01G293100 chr4A 88.578 464 24 5 9 470 5971682 5972118 9.990000e-149 536
7 TraesCS4D01G293100 chr3B 88.889 459 43 3 1995 2446 640668532 640668989 2.130000e-155 558
8 TraesCS4D01G293100 chr3D 84.413 494 69 3 1970 2455 306264899 306265392 1.710000e-131 479
9 TraesCS4D01G293100 chr5D 81.978 455 75 2 1970 2417 87447661 87448115 1.780000e-101 379
10 TraesCS4D01G293100 chr2D 81.381 478 76 6 1987 2455 378155129 378155602 6.410000e-101 377
11 TraesCS4D01G293100 chr6B 81.450 469 75 6 1987 2448 113531358 113530895 8.290000e-100 374
12 TraesCS4D01G293100 chr1B 80.922 477 76 8 1989 2455 494569724 494569253 1.790000e-96 363
13 TraesCS4D01G293100 chr2B 81.609 435 73 2 1987 2414 158041387 158040953 1.080000e-93 353
14 TraesCS4D01G293100 chr3A 81.492 362 60 2 1987 2341 262401340 262400979 8.590000e-75 291


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 TraesCS4D01G293100 chr4D 464078987 464081441 2454 True 4534.000000 4534 100.000000 1 2455 1 chr4D.!!$R1 2454
1 TraesCS4D01G293100 chr4B 579468098 579470176 2078 True 1367.000000 2283 89.278500 175 2295 2 chr4B.!!$R2 2120
2 TraesCS4D01G293100 chr4A 5971682 5973775 2093 False 820.666667 1122 89.561667 9 1971 3 chr4A.!!$F1 1962

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
783 897 0.106708 GGATGGCGGCAGATGTTCTA 59.893 55.0 19.29 0.0 0.0 2.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2409 2648 0.100146 GGTACGAGTCCGCCTACTTG 59.9 60.0 0.0 0.0 39.95 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
42 43 1.270305 CGGAGCCGATGTGTATGGATT 60.270 52.381 2.00 0.00 42.83 3.01
73 74 6.183360 GGCACACCTGATCTTCTCTAAATTTC 60.183 42.308 0.00 0.00 0.00 2.17
157 159 4.282496 TGGGGTAAAATGTGTCACAAACT 58.718 39.130 10.28 0.00 0.00 2.66
169 171 4.744631 GTGTCACAAACTTGCCTAAATTGG 59.255 41.667 0.00 0.00 0.00 3.16
181 183 6.155475 TGCCTAAATTGGGTATAAATGTGC 57.845 37.500 0.00 0.00 0.00 4.57
220 222 8.699283 AAAATGGAATTCACTCTACTACGTAC 57.301 34.615 7.93 0.00 33.67 3.67
221 223 7.642082 AATGGAATTCACTCTACTACGTACT 57.358 36.000 7.93 0.00 0.00 2.73
222 224 6.674694 TGGAATTCACTCTACTACGTACTC 57.325 41.667 7.93 0.00 0.00 2.59
223 225 5.587844 TGGAATTCACTCTACTACGTACTCC 59.412 44.000 7.93 0.00 0.00 3.85
331 334 4.093556 CGGCTTCTGTTAGATTCCTGAAAC 59.906 45.833 0.00 0.00 0.00 2.78
337 340 6.403049 TCTGTTAGATTCCTGAAACGCATAA 58.597 36.000 0.00 0.00 0.00 1.90
388 391 7.322664 GTTGATTGGATTCCTGAATGCTTAAA 58.677 34.615 11.81 0.33 39.48 1.52
453 463 3.609853 GATCTTGGTCTTATGTGTGGCA 58.390 45.455 0.00 0.00 0.00 4.92
491 586 1.266718 TCAAAGCGATGTGAAACTGGC 59.733 47.619 0.00 0.00 38.04 4.85
492 587 0.238289 AAAGCGATGTGAAACTGGCG 59.762 50.000 0.00 0.00 38.04 5.69
499 594 4.472286 CGATGTGAAACTGGCGTTAAAAT 58.528 39.130 0.00 0.00 38.04 1.82
636 735 4.954970 ACTGCTTGGCACACCCCG 62.955 66.667 0.00 0.00 39.29 5.73
667 781 1.059838 CACACGTGATGCATCAGCG 59.940 57.895 31.66 31.66 46.23 5.18
668 782 2.022346 CACGTGATGCATCAGCGC 59.978 61.111 32.48 21.69 46.23 5.92
670 784 3.557479 CGTGATGCATCAGCGCGT 61.557 61.111 29.38 0.00 46.30 6.01
671 785 2.022346 GTGATGCATCAGCGCGTG 59.978 61.111 29.38 5.06 46.23 5.34
672 786 3.868123 TGATGCATCAGCGCGTGC 61.868 61.111 25.42 22.64 46.23 5.34
675 789 4.168710 TGCATCAGCGCGTGCATG 62.169 61.111 26.37 19.19 45.60 4.06
698 812 3.705502 TGGTCCTCTGAGCAGCTC 58.294 61.111 16.21 16.21 43.72 4.09
699 813 1.078166 TGGTCCTCTGAGCAGCTCT 59.922 57.895 23.15 0.00 43.72 4.09
701 815 1.063341 TGGTCCTCTGAGCAGCTCTAT 60.063 52.381 23.15 0.00 43.72 1.98
702 816 2.175715 TGGTCCTCTGAGCAGCTCTATA 59.824 50.000 23.15 7.73 43.72 1.31
703 817 3.181424 TGGTCCTCTGAGCAGCTCTATAT 60.181 47.826 23.15 0.00 43.72 0.86
704 818 3.831911 GGTCCTCTGAGCAGCTCTATATT 59.168 47.826 23.15 0.00 38.87 1.28
706 820 5.221621 GGTCCTCTGAGCAGCTCTATATTTT 60.222 44.000 23.15 0.00 38.87 1.82
707 821 5.695816 GTCCTCTGAGCAGCTCTATATTTTG 59.304 44.000 23.15 4.37 0.00 2.44
708 822 5.365025 TCCTCTGAGCAGCTCTATATTTTGT 59.635 40.000 23.15 0.00 0.00 2.83
709 823 6.551227 TCCTCTGAGCAGCTCTATATTTTGTA 59.449 38.462 23.15 0.00 0.00 2.41
710 824 6.644592 CCTCTGAGCAGCTCTATATTTTGTAC 59.355 42.308 23.15 0.00 0.00 2.90
711 825 7.353414 TCTGAGCAGCTCTATATTTTGTACT 57.647 36.000 23.15 0.00 0.00 2.73
712 826 8.465273 TCTGAGCAGCTCTATATTTTGTACTA 57.535 34.615 23.15 0.00 0.00 1.82
713 827 8.914011 TCTGAGCAGCTCTATATTTTGTACTAA 58.086 33.333 23.15 0.00 0.00 2.24
752 866 2.353323 CCTCGTAGGGCTTGTTAAACC 58.647 52.381 0.00 0.00 0.00 3.27
758 872 0.312729 GGGCTTGTTAAACCACACCG 59.687 55.000 0.00 0.00 0.00 4.94
759 873 0.312729 GGCTTGTTAAACCACACCGG 59.687 55.000 0.00 0.00 42.50 5.28
760 874 0.312729 GCTTGTTAAACCACACCGGG 59.687 55.000 6.32 0.00 40.22 5.73
761 875 1.682740 CTTGTTAAACCACACCGGGT 58.317 50.000 6.32 0.00 45.04 5.28
762 876 2.848691 CTTGTTAAACCACACCGGGTA 58.151 47.619 6.32 0.00 41.32 3.69
763 877 2.252976 TGTTAAACCACACCGGGTAC 57.747 50.000 6.32 0.00 41.32 3.34
764 878 1.147473 GTTAAACCACACCGGGTACG 58.853 55.000 6.32 0.00 41.32 3.67
783 897 0.106708 GGATGGCGGCAGATGTTCTA 59.893 55.000 19.29 0.00 0.00 2.10
789 903 3.060602 GGCGGCAGATGTTCTATACTTC 58.939 50.000 3.07 0.00 0.00 3.01
824 939 4.690748 TGTAAGAAATCTGAGCTTTGACCG 59.309 41.667 0.00 0.00 0.00 4.79
916 1031 1.676967 CCCAACAAGCCTCAGCCTC 60.677 63.158 0.00 0.00 41.25 4.70
930 1045 0.641601 AGCCTCCCTCCTCTCTTCAT 59.358 55.000 0.00 0.00 0.00 2.57
931 1046 1.047801 GCCTCCCTCCTCTCTTCATC 58.952 60.000 0.00 0.00 0.00 2.92
1068 1189 2.605299 GCCCTTGGCCATCATCCT 59.395 61.111 6.09 0.00 44.06 3.24
1105 1226 4.215613 GCCACGGTGAGTCTAATTTTTCTT 59.784 41.667 10.28 0.00 0.00 2.52
1107 1228 6.371389 CCACGGTGAGTCTAATTTTTCTTTC 58.629 40.000 10.28 0.00 0.00 2.62
1133 1255 7.914346 CCTTATTGCATTCTTCATCTCAAGTTC 59.086 37.037 0.00 0.00 0.00 3.01
1137 1259 5.348724 TGCATTCTTCATCTCAAGTTCGTAC 59.651 40.000 0.00 0.00 0.00 3.67
1271 1473 2.426842 AAGGATTACAGCAAGGGAGC 57.573 50.000 0.00 0.00 0.00 4.70
1345 1547 1.630878 GGAGACACCAAAGGGATCTGT 59.369 52.381 0.00 0.00 38.79 3.41
1519 1722 4.151867 CGGTACTTAGCTCAAAGTTGAACC 59.848 45.833 7.18 8.11 40.20 3.62
1554 1757 2.163010 CCTACAAGCTTTGCATCCAGTG 59.837 50.000 0.00 0.00 0.00 3.66
1555 1758 1.696063 ACAAGCTTTGCATCCAGTGT 58.304 45.000 0.00 0.00 0.00 3.55
1663 1866 4.636249 AGCAGTGGTAGTTCTCTTTCTTG 58.364 43.478 0.00 0.00 0.00 3.02
1789 2003 9.535878 TGTCAAATTAAATACCACACTTTTTCC 57.464 29.630 0.00 0.00 0.00 3.13
1853 2075 5.190330 AGGATGCATTAAGCCAAAGGAAATT 59.810 36.000 0.00 0.00 44.83 1.82
1861 2083 7.701809 TTAAGCCAAAGGAAATTTTAACACG 57.298 32.000 0.00 0.00 0.00 4.49
1869 2091 6.068473 AGGAAATTTTAACACGTGTTCCTC 57.932 37.500 35.40 21.43 39.27 3.71
2029 2263 2.616960 GACTGACACGGATTGCACATA 58.383 47.619 0.00 0.00 0.00 2.29
2045 2284 2.485426 CACATAGTGCAACCAACTCAGG 59.515 50.000 0.00 0.00 37.80 3.86
2057 2296 1.589716 AACTCAGGCGGCTTTCATGC 61.590 55.000 9.66 0.00 0.00 4.06
2080 2319 1.069358 GGCAGACACATACTAGAGGGC 59.931 57.143 0.00 0.00 0.00 5.19
2098 2337 1.670674 GGCGTTGTCGTCCTACATGAA 60.671 52.381 0.00 0.00 39.49 2.57
2099 2338 1.654105 GCGTTGTCGTCCTACATGAAG 59.346 52.381 0.00 0.00 39.49 3.02
2100 2339 1.654105 CGTTGTCGTCCTACATGAAGC 59.346 52.381 0.00 0.00 0.00 3.86
2101 2340 2.683968 GTTGTCGTCCTACATGAAGCA 58.316 47.619 0.00 0.00 0.00 3.91
2102 2341 2.363788 TGTCGTCCTACATGAAGCAC 57.636 50.000 0.00 0.00 0.00 4.40
2103 2342 1.893137 TGTCGTCCTACATGAAGCACT 59.107 47.619 0.00 0.00 0.00 4.40
2104 2343 3.086282 TGTCGTCCTACATGAAGCACTA 58.914 45.455 0.00 0.00 0.00 2.74
2105 2344 3.699538 TGTCGTCCTACATGAAGCACTAT 59.300 43.478 0.00 0.00 0.00 2.12
2106 2345 4.045104 GTCGTCCTACATGAAGCACTATG 58.955 47.826 0.00 0.00 0.00 2.23
2107 2346 3.951680 TCGTCCTACATGAAGCACTATGA 59.048 43.478 0.00 0.00 0.00 2.15
2117 2356 4.183865 TGAAGCACTATGAAATCCACTCG 58.816 43.478 0.00 0.00 0.00 4.18
2154 2393 5.407691 GGGGTAGTTTTCAAAGTAGACTTCG 59.592 44.000 0.00 0.00 34.61 3.79
2158 2397 7.650903 GGTAGTTTTCAAAGTAGACTTCGAGAA 59.349 37.037 0.00 0.00 34.61 2.87
2167 2406 2.846039 GACTTCGAGAAGGCGTATGA 57.154 50.000 16.16 0.00 42.53 2.15
2190 2429 6.447084 TGATAAGGTTAAATGACCCTTCCTCT 59.553 38.462 0.00 0.00 40.73 3.69
2203 2442 2.111384 CTTCCTCTAGCAGGCCTTACA 58.889 52.381 0.00 0.00 43.08 2.41
2213 2452 2.106511 GCAGGCCTTACATATGAAGGGA 59.893 50.000 23.79 3.42 43.28 4.20
2218 2457 4.262894 GGCCTTACATATGAAGGGATTCGA 60.263 45.833 23.79 0.00 43.28 3.71
2264 2503 2.032636 GTCATTTGTGCAAAAAGGCAGC 60.033 45.455 9.16 0.00 45.96 5.25
2265 2504 1.941294 CATTTGTGCAAAAAGGCAGCA 59.059 42.857 8.28 0.00 45.96 4.41
2286 2525 7.591165 CAGCATAGGGATTAAAGTGAATGATG 58.409 38.462 0.00 0.00 0.00 3.07
2288 2527 8.000709 AGCATAGGGATTAAAGTGAATGATGAA 58.999 33.333 0.00 0.00 0.00 2.57
2295 2534 9.643693 GGATTAAAGTGAATGATGAAACATGTT 57.356 29.630 4.92 4.92 0.00 2.71
2308 2547 8.196771 TGATGAAACATGTTATTATTTCCAGGC 58.803 33.333 12.39 0.00 31.39 4.85
2309 2548 6.559810 TGAAACATGTTATTATTTCCAGGCG 58.440 36.000 12.39 0.00 31.39 5.52
2310 2549 4.568152 ACATGTTATTATTTCCAGGCGC 57.432 40.909 0.00 0.00 0.00 6.53
2311 2550 3.951037 ACATGTTATTATTTCCAGGCGCA 59.049 39.130 10.83 0.00 0.00 6.09
2312 2551 4.400884 ACATGTTATTATTTCCAGGCGCAA 59.599 37.500 10.83 0.00 0.00 4.85
2313 2552 5.105554 ACATGTTATTATTTCCAGGCGCAAA 60.106 36.000 10.83 0.41 0.00 3.68
2314 2553 5.392767 TGTTATTATTTCCAGGCGCAAAA 57.607 34.783 10.83 4.25 0.00 2.44
2315 2554 5.406649 TGTTATTATTTCCAGGCGCAAAAG 58.593 37.500 10.83 0.00 0.00 2.27
2316 2555 3.525268 ATTATTTCCAGGCGCAAAAGG 57.475 42.857 10.83 4.88 0.00 3.11
2317 2556 2.208132 TATTTCCAGGCGCAAAAGGA 57.792 45.000 10.83 7.56 0.00 3.36
2318 2557 0.603065 ATTTCCAGGCGCAAAAGGAC 59.397 50.000 10.83 0.00 0.00 3.85
2319 2558 1.460273 TTTCCAGGCGCAAAAGGACC 61.460 55.000 10.83 0.00 0.00 4.46
2320 2559 2.282462 CCAGGCGCAAAAGGACCT 60.282 61.111 10.83 0.00 0.00 3.85
2321 2560 1.002624 CCAGGCGCAAAAGGACCTA 60.003 57.895 10.83 0.00 0.00 3.08
2322 2561 0.608035 CCAGGCGCAAAAGGACCTAA 60.608 55.000 10.83 0.00 0.00 2.69
2323 2562 0.804989 CAGGCGCAAAAGGACCTAAG 59.195 55.000 10.83 0.00 0.00 2.18
2324 2563 0.690762 AGGCGCAAAAGGACCTAAGA 59.309 50.000 10.83 0.00 0.00 2.10
2325 2564 0.803117 GGCGCAAAAGGACCTAAGAC 59.197 55.000 10.83 0.00 0.00 3.01
2326 2565 1.519408 GCGCAAAAGGACCTAAGACA 58.481 50.000 0.30 0.00 0.00 3.41
2327 2566 1.464997 GCGCAAAAGGACCTAAGACAG 59.535 52.381 0.30 0.00 0.00 3.51
2339 2578 4.399004 CCTAAGACAGGGAGACTCAATG 57.601 50.000 4.53 4.78 41.26 2.82
2340 2579 3.772025 CCTAAGACAGGGAGACTCAATGT 59.228 47.826 10.60 10.60 41.26 2.71
2341 2580 3.971245 AAGACAGGGAGACTCAATGTC 57.029 47.619 22.48 22.48 45.67 3.06
2355 2594 6.611613 ACTCAATGTCTCCTATCTTGTTCA 57.388 37.500 0.00 0.00 0.00 3.18
2356 2595 7.009179 ACTCAATGTCTCCTATCTTGTTCAA 57.991 36.000 0.00 0.00 0.00 2.69
2357 2596 6.876257 ACTCAATGTCTCCTATCTTGTTCAAC 59.124 38.462 0.00 0.00 0.00 3.18
2358 2597 6.768483 TCAATGTCTCCTATCTTGTTCAACA 58.232 36.000 0.00 0.00 0.00 3.33
2359 2598 7.397221 TCAATGTCTCCTATCTTGTTCAACAT 58.603 34.615 0.00 0.00 0.00 2.71
2360 2599 8.539544 TCAATGTCTCCTATCTTGTTCAACATA 58.460 33.333 0.00 0.00 0.00 2.29
2361 2600 8.824781 CAATGTCTCCTATCTTGTTCAACATAG 58.175 37.037 0.00 0.00 0.00 2.23
2362 2601 7.482169 TGTCTCCTATCTTGTTCAACATAGT 57.518 36.000 0.00 0.00 0.00 2.12
2363 2602 7.323420 TGTCTCCTATCTTGTTCAACATAGTG 58.677 38.462 0.00 0.00 0.00 2.74
2364 2603 6.758886 GTCTCCTATCTTGTTCAACATAGTGG 59.241 42.308 0.00 0.00 0.00 4.00
2365 2604 5.428253 TCCTATCTTGTTCAACATAGTGGC 58.572 41.667 0.00 0.00 0.00 5.01
2366 2605 4.271049 CCTATCTTGTTCAACATAGTGGCG 59.729 45.833 0.00 0.00 0.00 5.69
2367 2606 2.422597 TCTTGTTCAACATAGTGGCGG 58.577 47.619 0.00 0.00 0.00 6.13
2368 2607 2.037902 TCTTGTTCAACATAGTGGCGGA 59.962 45.455 0.00 0.00 0.00 5.54
2369 2608 2.779755 TGTTCAACATAGTGGCGGAT 57.220 45.000 0.00 0.00 0.00 4.18
2370 2609 3.897141 TGTTCAACATAGTGGCGGATA 57.103 42.857 0.00 0.00 0.00 2.59
2371 2610 4.415881 TGTTCAACATAGTGGCGGATAT 57.584 40.909 0.00 0.00 0.00 1.63
2372 2611 4.126437 TGTTCAACATAGTGGCGGATATG 58.874 43.478 0.00 2.88 35.84 1.78
2373 2612 4.127171 GTTCAACATAGTGGCGGATATGT 58.873 43.478 3.94 3.94 42.88 2.29
2376 2615 4.415881 AACATAGTGGCGGATATGTTGA 57.584 40.909 16.28 0.00 45.98 3.18
2377 2616 3.728845 ACATAGTGGCGGATATGTTGAC 58.271 45.455 3.94 0.00 39.07 3.18
2378 2617 3.133901 ACATAGTGGCGGATATGTTGACA 59.866 43.478 3.94 0.00 39.07 3.58
2379 2618 2.779755 AGTGGCGGATATGTTGACAA 57.220 45.000 0.00 0.00 0.00 3.18
2380 2619 3.281727 AGTGGCGGATATGTTGACAAT 57.718 42.857 0.00 0.00 0.00 2.71
2381 2620 3.620488 AGTGGCGGATATGTTGACAATT 58.380 40.909 0.00 0.00 0.00 2.32
2382 2621 3.627577 AGTGGCGGATATGTTGACAATTC 59.372 43.478 0.00 0.00 0.00 2.17
2383 2622 3.627577 GTGGCGGATATGTTGACAATTCT 59.372 43.478 0.00 0.00 0.00 2.40
2384 2623 4.096382 GTGGCGGATATGTTGACAATTCTT 59.904 41.667 0.00 0.00 0.00 2.52
2385 2624 5.295787 GTGGCGGATATGTTGACAATTCTTA 59.704 40.000 0.00 0.00 0.00 2.10
2386 2625 6.017109 GTGGCGGATATGTTGACAATTCTTAT 60.017 38.462 0.00 0.00 0.00 1.73
2387 2626 6.545666 TGGCGGATATGTTGACAATTCTTATT 59.454 34.615 0.00 0.00 0.00 1.40
2388 2627 6.857964 GGCGGATATGTTGACAATTCTTATTG 59.142 38.462 0.00 0.00 45.39 1.90
2389 2628 6.857964 GCGGATATGTTGACAATTCTTATTGG 59.142 38.462 0.00 0.00 44.42 3.16
2390 2629 7.468631 GCGGATATGTTGACAATTCTTATTGGT 60.469 37.037 0.00 0.00 44.42 3.67
2391 2630 9.051679 CGGATATGTTGACAATTCTTATTGGTA 57.948 33.333 0.00 0.00 44.42 3.25
2394 2633 7.645058 ATGTTGACAATTCTTATTGGTAGGG 57.355 36.000 0.00 0.00 44.42 3.53
2395 2634 5.417580 TGTTGACAATTCTTATTGGTAGGGC 59.582 40.000 0.00 0.00 44.42 5.19
2396 2635 4.532834 TGACAATTCTTATTGGTAGGGCC 58.467 43.478 0.00 0.00 44.42 5.80
2405 2644 3.435682 TGGTAGGGCCAAAGAGGAT 57.564 52.632 6.18 0.00 45.94 3.24
2406 2645 0.918983 TGGTAGGGCCAAAGAGGATG 59.081 55.000 6.18 0.00 45.94 3.51
2407 2646 0.183731 GGTAGGGCCAAAGAGGATGG 59.816 60.000 6.18 0.00 41.22 3.51
2408 2647 0.183731 GTAGGGCCAAAGAGGATGGG 59.816 60.000 6.18 0.00 41.22 4.00
2411 2650 4.440145 GCCAAAGAGGATGGGCAA 57.560 55.556 0.00 0.00 45.70 4.52
2412 2651 2.196319 GCCAAAGAGGATGGGCAAG 58.804 57.895 0.00 0.00 45.70 4.01
2413 2652 0.613012 GCCAAAGAGGATGGGCAAGT 60.613 55.000 0.00 0.00 45.70 3.16
2414 2653 1.340991 GCCAAAGAGGATGGGCAAGTA 60.341 52.381 0.00 0.00 45.70 2.24
2415 2654 2.648059 CCAAAGAGGATGGGCAAGTAG 58.352 52.381 0.00 0.00 41.22 2.57
2416 2655 2.648059 CAAAGAGGATGGGCAAGTAGG 58.352 52.381 0.00 0.00 0.00 3.18
2417 2656 0.548510 AAGAGGATGGGCAAGTAGGC 59.451 55.000 0.00 0.00 43.27 3.93
2418 2657 1.227674 GAGGATGGGCAAGTAGGCG 60.228 63.158 0.00 0.00 45.36 5.52
2419 2658 2.203209 GGATGGGCAAGTAGGCGG 60.203 66.667 0.00 0.00 45.36 6.13
2420 2659 2.742116 GGATGGGCAAGTAGGCGGA 61.742 63.158 0.00 0.00 45.36 5.54
2421 2660 1.523938 GATGGGCAAGTAGGCGGAC 60.524 63.158 0.00 0.00 45.36 4.79
2422 2661 1.972660 GATGGGCAAGTAGGCGGACT 61.973 60.000 0.00 0.00 45.36 3.85
2423 2662 1.972660 ATGGGCAAGTAGGCGGACTC 61.973 60.000 0.00 0.00 45.36 3.36
2424 2663 2.202756 GGCAAGTAGGCGGACTCG 60.203 66.667 0.00 0.00 39.81 4.18
2425 2664 2.572284 GCAAGTAGGCGGACTCGT 59.428 61.111 0.00 0.00 38.89 4.18
2426 2665 1.660560 GGCAAGTAGGCGGACTCGTA 61.661 60.000 0.00 0.00 38.89 3.43
2427 2666 0.525029 GCAAGTAGGCGGACTCGTAC 60.525 60.000 0.00 0.00 38.89 3.67
2428 2667 0.100146 CAAGTAGGCGGACTCGTACC 59.900 60.000 0.00 0.00 38.89 3.34
2429 2668 1.034292 AAGTAGGCGGACTCGTACCC 61.034 60.000 0.00 0.00 38.89 3.69
2430 2669 2.124151 TAGGCGGACTCGTACCCC 60.124 66.667 0.00 0.00 38.89 4.95
2431 2670 2.982643 TAGGCGGACTCGTACCCCA 61.983 63.158 0.00 0.00 38.89 4.96
2432 2671 2.288642 TAGGCGGACTCGTACCCCAT 62.289 60.000 0.00 0.00 38.89 4.00
2433 2672 2.416260 GCGGACTCGTACCCCATC 59.584 66.667 0.00 0.00 38.89 3.51
2434 2673 2.125961 GCGGACTCGTACCCCATCT 61.126 63.158 0.00 0.00 38.89 2.90
2435 2674 1.673808 GCGGACTCGTACCCCATCTT 61.674 60.000 0.00 0.00 38.89 2.40
2436 2675 0.102481 CGGACTCGTACCCCATCTTG 59.898 60.000 0.00 0.00 0.00 3.02
2437 2676 1.192428 GGACTCGTACCCCATCTTGT 58.808 55.000 0.00 0.00 0.00 3.16
2438 2677 1.134788 GGACTCGTACCCCATCTTGTG 60.135 57.143 0.00 0.00 0.00 3.33
2449 2688 1.477553 CATCTTGTGGATGGGGGTTG 58.522 55.000 0.00 0.00 45.85 3.77
2450 2689 1.084018 ATCTTGTGGATGGGGGTTGT 58.916 50.000 0.00 0.00 32.69 3.32
2451 2690 0.856982 TCTTGTGGATGGGGGTTGTT 59.143 50.000 0.00 0.00 0.00 2.83
2452 2691 1.203001 TCTTGTGGATGGGGGTTGTTC 60.203 52.381 0.00 0.00 0.00 3.18
2453 2692 0.558220 TTGTGGATGGGGGTTGTTCA 59.442 50.000 0.00 0.00 0.00 3.18
2454 2693 0.783206 TGTGGATGGGGGTTGTTCAT 59.217 50.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.001631 TCCCCTTCCTGCTCGATGA 59.998 57.895 0.00 0.00 0.00 2.92
1 2 1.445095 CTCCCCTTCCTGCTCGATG 59.555 63.158 0.00 0.00 0.00 3.84
2 3 2.439104 GCTCCCCTTCCTGCTCGAT 61.439 63.158 0.00 0.00 0.00 3.59
3 4 3.077556 GCTCCCCTTCCTGCTCGA 61.078 66.667 0.00 0.00 0.00 4.04
4 5 3.080121 AGCTCCCCTTCCTGCTCG 61.080 66.667 0.00 0.00 0.00 5.03
5 6 2.907236 GAGCTCCCCTTCCTGCTC 59.093 66.667 0.87 0.00 43.75 4.26
6 7 3.080121 CGAGCTCCCCTTCCTGCT 61.080 66.667 8.47 0.00 38.59 4.24
7 8 4.168291 CCGAGCTCCCCTTCCTGC 62.168 72.222 8.47 0.00 0.00 4.85
33 34 1.002544 TGTGCCACGTCAATCCATACA 59.997 47.619 0.00 0.00 0.00 2.29
42 43 1.005037 GATCAGGTGTGCCACGTCA 60.005 57.895 0.00 0.00 34.83 4.35
73 74 2.604914 CGACCGATGAGAAAATCCACAG 59.395 50.000 0.00 0.00 0.00 3.66
157 159 6.155221 TGCACATTTATACCCAATTTAGGCAA 59.845 34.615 0.00 0.00 0.00 4.52
169 171 3.573967 CCCCCAGAATGCACATTTATACC 59.426 47.826 0.00 0.00 31.97 2.73
218 220 5.105228 CGGTGGGTCATTTTTAGTAGGAGTA 60.105 44.000 0.00 0.00 0.00 2.59
219 221 4.323257 CGGTGGGTCATTTTTAGTAGGAGT 60.323 45.833 0.00 0.00 0.00 3.85
220 222 4.189231 CGGTGGGTCATTTTTAGTAGGAG 58.811 47.826 0.00 0.00 0.00 3.69
221 223 3.620472 GCGGTGGGTCATTTTTAGTAGGA 60.620 47.826 0.00 0.00 0.00 2.94
222 224 2.681344 GCGGTGGGTCATTTTTAGTAGG 59.319 50.000 0.00 0.00 0.00 3.18
223 225 2.681344 GGCGGTGGGTCATTTTTAGTAG 59.319 50.000 0.00 0.00 0.00 2.57
354 357 6.497954 TCAGGAATCCAATCAACCTTCAAATT 59.502 34.615 0.61 0.00 0.00 1.82
355 358 6.018469 TCAGGAATCCAATCAACCTTCAAAT 58.982 36.000 0.61 0.00 0.00 2.32
388 391 4.760204 CGACCCTCCAGTGAGTTTTAAAAT 59.240 41.667 3.52 0.00 36.86 1.82
403 406 3.056328 GGCAACTTGCGACCCTCC 61.056 66.667 7.67 0.00 46.21 4.30
453 463 0.251253 GATCTATCTCCCGGTCCCGT 60.251 60.000 0.00 0.00 37.81 5.28
491 586 0.722848 ACGGCGCCAGTATTTTAACG 59.277 50.000 28.98 10.10 0.00 3.18
492 587 1.202098 CCACGGCGCCAGTATTTTAAC 60.202 52.381 28.98 0.00 0.00 2.01
518 615 0.456221 ACAGGCGAGAAGGTATGACG 59.544 55.000 0.00 0.00 0.00 4.35
522 619 1.522569 GCCACAGGCGAGAAGGTAT 59.477 57.895 0.00 0.00 39.62 2.73
636 735 2.022129 CGTGTGGCTTCTGACCGTC 61.022 63.158 0.00 0.00 0.00 4.79
672 786 2.104859 CAGAGGACCACGCAGCATG 61.105 63.158 0.00 0.00 40.87 4.06
673 787 2.236223 CTCAGAGGACCACGCAGCAT 62.236 60.000 0.00 0.00 0.00 3.79
674 788 2.917227 TCAGAGGACCACGCAGCA 60.917 61.111 0.00 0.00 0.00 4.41
675 789 2.125753 CTCAGAGGACCACGCAGC 60.126 66.667 0.00 0.00 0.00 5.25
676 790 2.125753 GCTCAGAGGACCACGCAG 60.126 66.667 0.00 0.00 0.00 5.18
684 798 5.365025 ACAAAATATAGAGCTGCTCAGAGGA 59.635 40.000 29.49 11.53 32.06 3.71
713 827 4.998033 CGAGGGTAAGCTTTCTCTCTTTTT 59.002 41.667 25.10 0.00 0.00 1.94
732 846 2.289819 TGGTTTAACAAGCCCTACGAGG 60.290 50.000 0.00 0.00 34.30 4.63
742 856 1.682740 ACCCGGTGTGGTTTAACAAG 58.317 50.000 0.00 0.00 33.91 3.16
758 872 4.910585 CTGCCGCCATCCGTACCC 62.911 72.222 0.00 0.00 34.38 3.69
759 873 3.165160 ATCTGCCGCCATCCGTACC 62.165 63.158 0.00 0.00 34.38 3.34
760 874 1.956170 CATCTGCCGCCATCCGTAC 60.956 63.158 0.00 0.00 34.38 3.67
761 875 1.966901 AACATCTGCCGCCATCCGTA 61.967 55.000 0.00 0.00 34.38 4.02
762 876 3.329542 AACATCTGCCGCCATCCGT 62.330 57.895 0.00 0.00 34.38 4.69
763 877 2.514592 AACATCTGCCGCCATCCG 60.515 61.111 0.00 0.00 0.00 4.18
764 878 0.106708 TAGAACATCTGCCGCCATCC 59.893 55.000 0.00 0.00 0.00 3.51
765 879 2.175878 ATAGAACATCTGCCGCCATC 57.824 50.000 0.00 0.00 0.00 3.51
766 880 2.634940 AGTATAGAACATCTGCCGCCAT 59.365 45.455 0.00 0.00 0.00 4.40
767 881 2.039418 AGTATAGAACATCTGCCGCCA 58.961 47.619 0.00 0.00 0.00 5.69
768 882 2.821991 AGTATAGAACATCTGCCGCC 57.178 50.000 0.00 0.00 0.00 6.13
916 1031 0.267356 AGGGGATGAAGAGAGGAGGG 59.733 60.000 0.00 0.00 0.00 4.30
930 1045 3.346734 GGGGTGATGGCAAGGGGA 61.347 66.667 0.00 0.00 0.00 4.81
931 1046 2.861271 GAAGGGGTGATGGCAAGGGG 62.861 65.000 0.00 0.00 0.00 4.79
1105 1226 7.613022 ACTTGAGATGAAGAATGCAATAAGGAA 59.387 33.333 0.00 0.00 0.00 3.36
1107 1228 7.330900 ACTTGAGATGAAGAATGCAATAAGG 57.669 36.000 0.00 0.00 0.00 2.69
1119 1241 5.950883 TGGTAGTACGAACTTGAGATGAAG 58.049 41.667 0.00 0.00 37.15 3.02
1133 1255 7.544566 ACTTGTGACTGAATAAATGGTAGTACG 59.455 37.037 0.00 0.00 0.00 3.67
1271 1473 0.027194 CGGCATCGAGCTTCATGTTG 59.973 55.000 7.47 0.00 44.79 3.33
1317 1519 1.974236 CTTTGGTGTCTCCTCCACTCT 59.026 52.381 0.00 0.00 34.07 3.24
1460 1662 2.595750 AAATTCACCCATTCCGGACA 57.404 45.000 1.83 0.00 36.56 4.02
1497 1700 5.061179 TGGTTCAACTTTGAGCTAAGTACC 58.939 41.667 10.87 10.87 37.37 3.34
1519 1722 1.259609 TGTAGGGTCACCGGTAGTTG 58.740 55.000 6.87 0.00 43.47 3.16
1554 1757 2.766828 ACATACTTAGGGACTGCTGGAC 59.233 50.000 0.00 0.00 41.52 4.02
1555 1758 2.766263 CACATACTTAGGGACTGCTGGA 59.234 50.000 0.00 0.00 41.52 3.86
1643 1846 4.380531 TGCAAGAAAGAGAACTACCACTG 58.619 43.478 0.00 0.00 0.00 3.66
1663 1866 3.076916 GGGGCAGGGGAAACATGC 61.077 66.667 0.00 0.00 42.14 4.06
1991 2225 4.050553 CAGTCGGTTCGTACCAACTTTAA 58.949 43.478 12.05 0.00 38.58 1.52
1993 2227 2.101249 TCAGTCGGTTCGTACCAACTTT 59.899 45.455 12.05 0.00 38.58 2.66
2012 2246 2.345876 CACTATGTGCAATCCGTGTCA 58.654 47.619 0.00 0.00 0.00 3.58
2029 2263 1.893808 CGCCTGAGTTGGTTGCACT 60.894 57.895 0.00 0.00 0.00 4.40
2057 2296 1.338337 CTCTAGTATGTGTCTGCCCGG 59.662 57.143 0.00 0.00 0.00 5.73
2080 2319 1.654105 GCTTCATGTAGGACGACAACG 59.346 52.381 1.21 0.00 45.75 4.10
2098 2337 4.471904 TTCGAGTGGATTTCATAGTGCT 57.528 40.909 0.00 0.00 0.00 4.40
2099 2338 5.545658 TTTTCGAGTGGATTTCATAGTGC 57.454 39.130 0.00 0.00 0.00 4.40
2135 2374 6.702282 CCTTCTCGAAGTCTACTTTGAAAACT 59.298 38.462 12.68 0.00 43.62 2.66
2154 2393 7.656137 TCATTTAACCTTATCATACGCCTTCTC 59.344 37.037 0.00 0.00 0.00 2.87
2158 2397 5.995897 GGTCATTTAACCTTATCATACGCCT 59.004 40.000 0.00 0.00 36.32 5.52
2162 2401 8.218488 AGGAAGGGTCATTTAACCTTATCATAC 58.782 37.037 0.00 0.00 44.25 2.39
2167 2406 6.910259 AGAGGAAGGGTCATTTAACCTTAT 57.090 37.500 0.00 0.00 44.25 1.73
2190 2429 3.327757 CCCTTCATATGTAAGGCCTGCTA 59.672 47.826 5.69 0.00 41.91 3.49
2203 2442 6.000219 CAGGAATTGTCGAATCCCTTCATAT 59.000 40.000 0.00 0.00 0.00 1.78
2237 2476 5.111293 CCTTTTTGCACAAATGACTTGACT 58.889 37.500 0.00 0.00 38.50 3.41
2238 2477 4.260334 GCCTTTTTGCACAAATGACTTGAC 60.260 41.667 4.98 0.00 38.50 3.18
2241 2480 3.871485 TGCCTTTTTGCACAAATGACTT 58.129 36.364 4.98 0.00 36.04 3.01
2264 2503 9.956720 GTTTCATCATTCACTTTAATCCCTATG 57.043 33.333 0.00 0.00 0.00 2.23
2265 2504 9.699410 TGTTTCATCATTCACTTTAATCCCTAT 57.301 29.630 0.00 0.00 0.00 2.57
2286 2525 5.458779 GCGCCTGGAAATAATAACATGTTTC 59.541 40.000 17.78 6.78 0.00 2.78
2288 2527 4.400884 TGCGCCTGGAAATAATAACATGTT 59.599 37.500 16.68 16.68 0.00 2.71
2295 2534 4.097286 GTCCTTTTGCGCCTGGAAATAATA 59.903 41.667 4.18 0.00 35.22 0.98
2296 2535 3.096092 TCCTTTTGCGCCTGGAAATAAT 58.904 40.909 4.18 0.00 35.22 1.28
2297 2536 2.230266 GTCCTTTTGCGCCTGGAAATAA 59.770 45.455 4.18 0.00 35.22 1.40
2298 2537 1.816224 GTCCTTTTGCGCCTGGAAATA 59.184 47.619 4.18 0.00 35.22 1.40
2299 2538 0.603065 GTCCTTTTGCGCCTGGAAAT 59.397 50.000 4.18 0.00 35.22 2.17
2300 2539 1.460273 GGTCCTTTTGCGCCTGGAAA 61.460 55.000 4.18 0.00 33.21 3.13
2301 2540 1.901464 GGTCCTTTTGCGCCTGGAA 60.901 57.895 4.18 0.00 0.00 3.53
2302 2541 1.485294 TAGGTCCTTTTGCGCCTGGA 61.485 55.000 4.18 4.13 32.90 3.86
2303 2542 0.608035 TTAGGTCCTTTTGCGCCTGG 60.608 55.000 4.18 1.35 32.90 4.45
2304 2543 0.804989 CTTAGGTCCTTTTGCGCCTG 59.195 55.000 4.18 0.00 32.90 4.85
2305 2544 0.690762 TCTTAGGTCCTTTTGCGCCT 59.309 50.000 4.18 0.00 35.28 5.52
2306 2545 0.803117 GTCTTAGGTCCTTTTGCGCC 59.197 55.000 4.18 0.00 0.00 6.53
2307 2546 1.464997 CTGTCTTAGGTCCTTTTGCGC 59.535 52.381 0.00 0.00 0.00 6.09
2308 2547 2.076863 CCTGTCTTAGGTCCTTTTGCG 58.923 52.381 0.00 0.00 42.00 4.85
2309 2548 2.039879 TCCCTGTCTTAGGTCCTTTTGC 59.960 50.000 0.00 0.00 45.80 3.68
2310 2549 3.583086 TCTCCCTGTCTTAGGTCCTTTTG 59.417 47.826 0.00 0.00 45.80 2.44
2311 2550 3.583526 GTCTCCCTGTCTTAGGTCCTTTT 59.416 47.826 0.00 0.00 45.80 2.27
2312 2551 3.174779 GTCTCCCTGTCTTAGGTCCTTT 58.825 50.000 0.00 0.00 45.80 3.11
2313 2552 2.384029 AGTCTCCCTGTCTTAGGTCCTT 59.616 50.000 0.00 0.00 45.80 3.36
2314 2553 2.004589 AGTCTCCCTGTCTTAGGTCCT 58.995 52.381 0.00 0.00 45.80 3.85
2315 2554 2.291670 TGAGTCTCCCTGTCTTAGGTCC 60.292 54.545 0.00 0.00 45.80 4.46
2316 2555 3.088789 TGAGTCTCCCTGTCTTAGGTC 57.911 52.381 0.00 0.00 45.80 3.85
2317 2556 3.544698 TTGAGTCTCCCTGTCTTAGGT 57.455 47.619 0.00 0.00 45.80 3.08
2318 2557 3.772025 ACATTGAGTCTCCCTGTCTTAGG 59.228 47.826 0.00 0.00 46.88 2.69
2319 2558 5.004922 GACATTGAGTCTCCCTGTCTTAG 57.995 47.826 18.11 0.00 44.09 2.18
2321 2560 3.971245 GACATTGAGTCTCCCTGTCTT 57.029 47.619 18.11 0.00 44.09 3.01
2332 2571 6.611613 TGAACAAGATAGGAGACATTGAGT 57.388 37.500 0.00 0.00 0.00 3.41
2333 2572 6.875726 TGTTGAACAAGATAGGAGACATTGAG 59.124 38.462 0.00 0.00 0.00 3.02
2334 2573 6.768483 TGTTGAACAAGATAGGAGACATTGA 58.232 36.000 0.00 0.00 0.00 2.57
2335 2574 7.621428 ATGTTGAACAAGATAGGAGACATTG 57.379 36.000 0.62 0.00 0.00 2.82
2336 2575 8.543774 ACTATGTTGAACAAGATAGGAGACATT 58.456 33.333 24.76 8.69 44.36 2.71
2337 2576 7.984050 CACTATGTTGAACAAGATAGGAGACAT 59.016 37.037 24.76 10.55 44.36 3.06
2338 2577 7.323420 CACTATGTTGAACAAGATAGGAGACA 58.677 38.462 24.76 5.14 44.36 3.41
2339 2578 6.758886 CCACTATGTTGAACAAGATAGGAGAC 59.241 42.308 24.76 0.42 44.36 3.36
2340 2579 6.630413 GCCACTATGTTGAACAAGATAGGAGA 60.630 42.308 24.76 1.98 44.36 3.71
2341 2580 5.525378 GCCACTATGTTGAACAAGATAGGAG 59.475 44.000 24.76 18.91 44.36 3.69
2342 2581 5.428253 GCCACTATGTTGAACAAGATAGGA 58.572 41.667 24.76 2.54 44.36 2.94
2343 2582 4.271049 CGCCACTATGTTGAACAAGATAGG 59.729 45.833 24.76 15.67 44.36 2.57
2344 2583 4.271049 CCGCCACTATGTTGAACAAGATAG 59.729 45.833 21.71 21.71 45.10 2.08
2345 2584 4.081365 TCCGCCACTATGTTGAACAAGATA 60.081 41.667 0.62 4.75 0.00 1.98
2346 2585 3.009723 CCGCCACTATGTTGAACAAGAT 58.990 45.455 0.62 2.99 0.00 2.40
2347 2586 2.037902 TCCGCCACTATGTTGAACAAGA 59.962 45.455 0.62 0.00 0.00 3.02
2348 2587 2.422597 TCCGCCACTATGTTGAACAAG 58.577 47.619 0.62 4.18 0.00 3.16
2349 2588 2.552599 TCCGCCACTATGTTGAACAA 57.447 45.000 0.62 0.00 0.00 2.83
2350 2589 2.779755 ATCCGCCACTATGTTGAACA 57.220 45.000 0.00 0.00 0.00 3.18
2351 2590 4.127171 ACATATCCGCCACTATGTTGAAC 58.873 43.478 0.00 0.00 35.55 3.18
2352 2591 4.415881 ACATATCCGCCACTATGTTGAA 57.584 40.909 0.00 0.00 35.55 2.69
2353 2592 4.415881 AACATATCCGCCACTATGTTGA 57.584 40.909 10.13 0.00 43.44 3.18
2355 2594 4.127171 GTCAACATATCCGCCACTATGTT 58.873 43.478 6.62 6.62 45.05 2.71
2356 2595 3.133901 TGTCAACATATCCGCCACTATGT 59.866 43.478 0.00 0.00 39.61 2.29
2357 2596 3.727726 TGTCAACATATCCGCCACTATG 58.272 45.455 0.00 0.00 0.00 2.23
2358 2597 4.415881 TTGTCAACATATCCGCCACTAT 57.584 40.909 0.00 0.00 0.00 2.12
2359 2598 3.897141 TTGTCAACATATCCGCCACTA 57.103 42.857 0.00 0.00 0.00 2.74
2360 2599 2.779755 TTGTCAACATATCCGCCACT 57.220 45.000 0.00 0.00 0.00 4.00
2361 2600 3.627577 AGAATTGTCAACATATCCGCCAC 59.372 43.478 0.00 0.00 0.00 5.01
2362 2601 3.884895 AGAATTGTCAACATATCCGCCA 58.115 40.909 0.00 0.00 0.00 5.69
2363 2602 4.900635 AAGAATTGTCAACATATCCGCC 57.099 40.909 0.00 0.00 0.00 6.13
2364 2603 6.857964 CCAATAAGAATTGTCAACATATCCGC 59.142 38.462 0.00 0.00 40.84 5.54
2365 2604 7.930217 ACCAATAAGAATTGTCAACATATCCG 58.070 34.615 0.00 0.00 40.84 4.18
2368 2607 9.354673 CCCTACCAATAAGAATTGTCAACATAT 57.645 33.333 0.00 0.00 40.84 1.78
2369 2608 7.284489 GCCCTACCAATAAGAATTGTCAACATA 59.716 37.037 0.00 0.00 40.84 2.29
2370 2609 6.096846 GCCCTACCAATAAGAATTGTCAACAT 59.903 38.462 0.00 0.00 40.84 2.71
2371 2610 5.417580 GCCCTACCAATAAGAATTGTCAACA 59.582 40.000 0.00 0.00 40.84 3.33
2372 2611 5.163550 GGCCCTACCAATAAGAATTGTCAAC 60.164 44.000 0.00 0.00 40.84 3.18
2373 2612 4.953579 GGCCCTACCAATAAGAATTGTCAA 59.046 41.667 0.00 0.00 40.84 3.18
2374 2613 4.532834 GGCCCTACCAATAAGAATTGTCA 58.467 43.478 0.00 0.00 40.84 3.58
2388 2627 0.183731 CCATCCTCTTTGGCCCTACC 59.816 60.000 0.00 0.00 39.84 3.18
2389 2628 0.183731 CCCATCCTCTTTGGCCCTAC 59.816 60.000 0.00 0.00 35.26 3.18
2390 2629 1.645402 GCCCATCCTCTTTGGCCCTA 61.645 60.000 0.00 0.00 37.94 3.53
2391 2630 3.001358 GCCCATCCTCTTTGGCCCT 62.001 63.158 0.00 0.00 37.94 5.19
2392 2631 2.442830 GCCCATCCTCTTTGGCCC 60.443 66.667 0.00 0.00 37.94 5.80
2393 2632 1.305213 TTGCCCATCCTCTTTGGCC 60.305 57.895 0.00 0.00 43.35 5.36
2394 2633 0.613012 ACTTGCCCATCCTCTTTGGC 60.613 55.000 0.00 0.00 44.27 4.52
2395 2634 2.648059 CTACTTGCCCATCCTCTTTGG 58.352 52.381 0.00 0.00 37.10 3.28
2396 2635 2.648059 CCTACTTGCCCATCCTCTTTG 58.352 52.381 0.00 0.00 0.00 2.77
2397 2636 1.064389 GCCTACTTGCCCATCCTCTTT 60.064 52.381 0.00 0.00 0.00 2.52
2398 2637 0.548510 GCCTACTTGCCCATCCTCTT 59.451 55.000 0.00 0.00 0.00 2.85
2399 2638 1.690219 CGCCTACTTGCCCATCCTCT 61.690 60.000 0.00 0.00 0.00 3.69
2400 2639 1.227674 CGCCTACTTGCCCATCCTC 60.228 63.158 0.00 0.00 0.00 3.71
2401 2640 2.746375 CCGCCTACTTGCCCATCCT 61.746 63.158 0.00 0.00 0.00 3.24
2402 2641 2.203209 CCGCCTACTTGCCCATCC 60.203 66.667 0.00 0.00 0.00 3.51
2403 2642 1.523938 GTCCGCCTACTTGCCCATC 60.524 63.158 0.00 0.00 0.00 3.51
2404 2643 1.972660 GAGTCCGCCTACTTGCCCAT 61.973 60.000 0.00 0.00 0.00 4.00
2405 2644 2.606519 AGTCCGCCTACTTGCCCA 60.607 61.111 0.00 0.00 0.00 5.36
2406 2645 2.187163 GAGTCCGCCTACTTGCCC 59.813 66.667 0.00 0.00 0.00 5.36
2407 2646 1.660560 TACGAGTCCGCCTACTTGCC 61.661 60.000 0.00 0.00 39.95 4.52
2408 2647 0.525029 GTACGAGTCCGCCTACTTGC 60.525 60.000 0.00 0.00 39.95 4.01
2409 2648 0.100146 GGTACGAGTCCGCCTACTTG 59.900 60.000 0.00 0.00 39.95 3.16
2410 2649 1.034292 GGGTACGAGTCCGCCTACTT 61.034 60.000 0.00 0.00 39.95 2.24
2411 2650 1.452833 GGGTACGAGTCCGCCTACT 60.453 63.158 0.00 0.00 39.95 2.57
2412 2651 2.484928 GGGGTACGAGTCCGCCTAC 61.485 68.421 0.00 0.00 39.95 3.18
2413 2652 2.124151 GGGGTACGAGTCCGCCTA 60.124 66.667 0.00 0.00 39.95 3.93
2414 2653 3.674050 ATGGGGTACGAGTCCGCCT 62.674 63.158 3.82 0.00 39.95 5.52
2415 2654 3.148031 GATGGGGTACGAGTCCGCC 62.148 68.421 0.00 0.00 39.95 6.13
2416 2655 1.673808 AAGATGGGGTACGAGTCCGC 61.674 60.000 0.00 0.00 39.95 5.54
2417 2656 0.102481 CAAGATGGGGTACGAGTCCG 59.898 60.000 0.00 0.00 42.50 4.79
2418 2657 1.134788 CACAAGATGGGGTACGAGTCC 60.135 57.143 0.00 0.00 0.00 3.85
2419 2658 1.134788 CCACAAGATGGGGTACGAGTC 60.135 57.143 0.00 0.00 45.95 3.36
2420 2659 0.902531 CCACAAGATGGGGTACGAGT 59.097 55.000 0.00 0.00 45.95 4.18
2421 2660 3.760693 CCACAAGATGGGGTACGAG 57.239 57.895 0.00 0.00 45.95 4.18
2431 2670 1.084018 ACAACCCCCATCCACAAGAT 58.916 50.000 0.00 0.00 34.66 2.40
2432 2671 0.856982 AACAACCCCCATCCACAAGA 59.143 50.000 0.00 0.00 0.00 3.02
2433 2672 1.256812 GAACAACCCCCATCCACAAG 58.743 55.000 0.00 0.00 0.00 3.16
2434 2673 0.558220 TGAACAACCCCCATCCACAA 59.442 50.000 0.00 0.00 0.00 3.33
2435 2674 0.783206 ATGAACAACCCCCATCCACA 59.217 50.000 0.00 0.00 0.00 4.17
2436 2675 3.689832 ATGAACAACCCCCATCCAC 57.310 52.632 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.