Multiple sequence alignment - TraesCS2D01G200700

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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 TraesCS2D01G200700 chr2D 100.000 3329 0 0 1 3329 152629812 152626484 0.000000e+00 6148.0
1 TraesCS2D01G200700 chr2B 92.416 1846 61 41 666 2483 210653841 210652047 0.000000e+00 2560.0
2 TraesCS2D01G200700 chr2B 88.795 589 45 12 44 625 210654788 210654214 0.000000e+00 702.0
3 TraesCS2D01G200700 chr2B 97.872 47 1 0 1 47 210654991 210654945 7.650000e-12 82.4
4 TraesCS2D01G200700 chr2A 89.937 1590 99 36 1499 3057 148870164 148871723 0.000000e+00 1993.0
5 TraesCS2D01G200700 chr2A 92.727 770 21 7 666 1425 148869326 148870070 0.000000e+00 1079.0
6 TraesCS2D01G200700 chr2A 90.579 605 33 10 29 627 148868598 148869184 0.000000e+00 780.0
7 TraesCS2D01G200700 chr2A 90.609 575 53 1 2713 3286 148907754 148908328 0.000000e+00 761.0
8 TraesCS2D01G200700 chr2A 81.633 147 16 7 71 207 721830646 721830501 9.760000e-21 111.0
9 TraesCS2D01G200700 chr7A 95.455 44 2 0 2494 2537 644444799 644444842 1.660000e-08 71.3
10 TraesCS2D01G200700 chr1B 100.000 30 0 0 1987 2016 657507310 657507339 4.640000e-04 56.5
11 TraesCS2D01G200700 chr1A 100.000 30 0 0 1987 2016 566689423 566689452 4.640000e-04 56.5


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 TraesCS2D01G200700 chr2D 152626484 152629812 3328 True 6148.0 6148 100.000000 1 3329 1 chr2D.!!$R1 3328
1 TraesCS2D01G200700 chr2B 210652047 210654991 2944 True 1114.8 2560 93.027667 1 2483 3 chr2B.!!$R1 2482
2 TraesCS2D01G200700 chr2A 148868598 148871723 3125 False 1284.0 1993 91.081000 29 3057 3 chr2A.!!$F2 3028
3 TraesCS2D01G200700 chr2A 148907754 148908328 574 False 761.0 761 90.609000 2713 3286 1 chr2A.!!$F1 573

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
332 499 1.640917 ACTTGCGGGAACTAGGAAGA 58.359 50.0 3.85 0.0 37.64 2.87 F
1436 1948 0.033796 CCTGATCAACCCATGCTGGT 60.034 55.0 0.00 0.0 41.55 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1979 2533 0.250234 TCTTGATCTCCTTGGTGCGG 59.750 55.0 0.0 0.0 0.0 5.69 R
3307 3908 0.108585 ACACCGTCAACAATGCTCCT 59.891 50.0 0.0 0.0 0.0 3.69 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
69 231 9.771534 AGTATGTAGGAGCTTAAAAATCAGATC 57.228 33.333 0.00 0.00 0.00 2.75
112 274 7.848223 AAAAACCACGGGTATAATACTACAC 57.152 36.000 0.00 0.00 33.12 2.90
188 352 6.744112 AGTGAGTAGCTAGTATTGCATCTTC 58.256 40.000 0.00 0.00 0.00 2.87
226 391 7.908193 TTTATTTCGCAGAAAGAAGACAAAC 57.092 32.000 9.70 0.00 45.90 2.93
272 437 4.936891 AGCCTTGAACACAAGAAAATCAC 58.063 39.130 10.89 0.00 42.26 3.06
329 496 2.943036 AAAACTTGCGGGAACTAGGA 57.057 45.000 0.00 0.00 0.00 2.94
330 497 2.943036 AAACTTGCGGGAACTAGGAA 57.057 45.000 0.00 0.00 0.00 3.36
331 498 2.474410 AACTTGCGGGAACTAGGAAG 57.526 50.000 0.00 0.00 39.22 3.46
332 499 1.640917 ACTTGCGGGAACTAGGAAGA 58.359 50.000 3.85 0.00 37.64 2.87
333 500 1.975680 ACTTGCGGGAACTAGGAAGAA 59.024 47.619 3.85 0.00 37.64 2.52
334 501 2.572104 ACTTGCGGGAACTAGGAAGAAT 59.428 45.455 3.85 0.00 37.64 2.40
335 502 2.981859 TGCGGGAACTAGGAAGAATC 57.018 50.000 0.00 0.00 0.00 2.52
336 503 2.467880 TGCGGGAACTAGGAAGAATCT 58.532 47.619 0.00 0.00 0.00 2.40
337 504 3.638860 TGCGGGAACTAGGAAGAATCTA 58.361 45.455 0.00 0.00 0.00 1.98
475 645 9.959749 AATAGAAGATTCTAGAACGAATGAGAC 57.040 33.333 7.48 0.00 42.55 3.36
503 673 1.680338 ATTTCTATTGCGGAGGCCAC 58.320 50.000 5.01 0.00 38.85 5.01
514 684 2.029649 GCGGAGGCCACGAATACTATTA 60.030 50.000 21.98 0.00 0.00 0.98
646 1129 7.695869 ATATATTCAGTCTTTCGTCGGAAAC 57.304 36.000 0.00 0.00 37.24 2.78
650 1133 3.933955 TCAGTCTTTCGTCGGAAACAAAA 59.066 39.130 0.00 0.00 37.24 2.44
651 1134 4.573201 TCAGTCTTTCGTCGGAAACAAAAT 59.427 37.500 0.00 0.00 37.24 1.82
652 1135 5.065474 TCAGTCTTTCGTCGGAAACAAAATT 59.935 36.000 0.00 0.00 37.24 1.82
653 1136 5.395486 CAGTCTTTCGTCGGAAACAAAATTC 59.605 40.000 0.00 0.00 37.24 2.17
654 1137 5.065474 AGTCTTTCGTCGGAAACAAAATTCA 59.935 36.000 0.00 0.00 37.24 2.57
656 1139 6.416750 GTCTTTCGTCGGAAACAAAATTCATT 59.583 34.615 0.00 0.00 37.24 2.57
657 1140 7.588488 GTCTTTCGTCGGAAACAAAATTCATTA 59.412 33.333 0.00 0.00 37.24 1.90
658 1141 8.129840 TCTTTCGTCGGAAACAAAATTCATTAA 58.870 29.630 0.00 0.00 37.24 1.40
661 1163 8.221801 TCGTCGGAAACAAAATTCATTAATTG 57.778 30.769 0.00 0.00 35.46 2.32
664 1166 8.973378 GTCGGAAACAAAATTCATTAATTGTCA 58.027 29.630 0.00 0.00 35.46 3.58
677 1179 7.356680 TCATTAATTGTCATTTCTCCCTGGAT 58.643 34.615 0.00 0.00 0.00 3.41
680 1182 3.819564 TGTCATTTCTCCCTGGATACG 57.180 47.619 0.00 0.00 42.51 3.06
693 1195 5.301045 TCCCTGGATACGTACATTGTCTAAG 59.699 44.000 0.00 0.00 42.51 2.18
718 1220 3.769739 AAATCTGCGTGGATATAGGCA 57.230 42.857 0.00 0.00 38.93 4.75
742 1244 3.895232 ATCATCATGCCGATAGTACCC 57.105 47.619 0.00 0.00 31.20 3.69
881 1387 2.118233 GAGCCAGGGGATCGGATTCC 62.118 65.000 6.78 6.78 34.83 3.01
1158 1667 3.403558 GCCCGGAGCTCCTTCCTT 61.404 66.667 29.73 0.00 38.99 3.36
1278 1790 2.030562 CTCGACGGCAGGTTGGTT 59.969 61.111 0.00 0.00 0.00 3.67
1289 1801 1.069513 CAGGTTGGTTACTCGGACACA 59.930 52.381 0.00 0.00 0.00 3.72
1425 1937 3.263425 GGGTCTTGGTAAGTCCTGATCAA 59.737 47.826 0.00 0.00 36.98 2.57
1426 1938 4.254492 GGTCTTGGTAAGTCCTGATCAAC 58.746 47.826 0.00 0.00 34.43 3.18
1428 1940 3.263425 TCTTGGTAAGTCCTGATCAACCC 59.737 47.826 9.07 0.00 37.07 4.11
1429 1941 2.626785 TGGTAAGTCCTGATCAACCCA 58.373 47.619 9.07 0.91 37.07 4.51
1431 1943 3.054434 TGGTAAGTCCTGATCAACCCATG 60.054 47.826 9.07 0.00 37.07 3.66
1432 1944 2.134789 AAGTCCTGATCAACCCATGC 57.865 50.000 0.00 0.00 0.00 4.06
1433 1945 1.293062 AGTCCTGATCAACCCATGCT 58.707 50.000 0.00 0.00 0.00 3.79
1434 1946 1.064906 AGTCCTGATCAACCCATGCTG 60.065 52.381 0.00 0.00 0.00 4.41
1435 1947 0.256752 TCCTGATCAACCCATGCTGG 59.743 55.000 0.00 0.00 37.25 4.85
1436 1948 0.033796 CCTGATCAACCCATGCTGGT 60.034 55.000 0.00 0.00 41.55 4.00
1437 1949 1.100510 CTGATCAACCCATGCTGGTG 58.899 55.000 0.00 0.00 39.05 4.17
1438 1950 0.697658 TGATCAACCCATGCTGGTGA 59.302 50.000 3.98 3.98 39.05 4.02
1439 1951 1.285667 TGATCAACCCATGCTGGTGAT 59.714 47.619 12.30 12.30 39.05 3.06
1444 1986 2.564062 CAACCCATGCTGGTGATTCTTT 59.436 45.455 0.00 0.00 39.05 2.52
1453 1995 4.226761 GCTGGTGATTCTTTTTGGTAACG 58.773 43.478 0.00 0.00 42.51 3.18
1459 2005 3.839823 TTCTTTTTGGTAACGTCGACG 57.160 42.857 34.58 34.58 46.33 5.12
1469 2015 3.659291 CGTCGACGTGAACGATCC 58.341 61.111 29.08 0.00 43.02 3.36
1485 2031 1.398390 GATCCTTGATCGTGTTGTGCC 59.602 52.381 0.00 0.00 29.12 5.01
1486 2032 0.107643 TCCTTGATCGTGTTGTGCCA 59.892 50.000 0.00 0.00 0.00 4.92
1487 2033 0.238289 CCTTGATCGTGTTGTGCCAC 59.762 55.000 0.00 0.00 0.00 5.01
1497 2043 3.896122 GTGTTGTGCCACGAATATTTGT 58.104 40.909 2.21 2.21 0.00 2.83
1837 2383 4.864806 CACACATACGTGAAGCTAATCTGT 59.135 41.667 0.00 0.00 46.80 3.41
1842 2396 7.860872 CACATACGTGAAGCTAATCTGTACATA 59.139 37.037 0.00 0.00 46.80 2.29
1847 2401 6.697455 CGTGAAGCTAATCTGTACATACATGT 59.303 38.462 2.69 2.69 44.48 3.21
1856 2410 6.701145 TCTGTACATACATGTCTCTCCTTC 57.299 41.667 0.00 0.00 41.97 3.46
1858 2412 6.544197 TCTGTACATACATGTCTCTCCTTCTC 59.456 42.308 0.00 0.00 41.97 2.87
1861 2415 5.276440 ACATACATGTCTCTCCTTCTCCTT 58.724 41.667 0.00 0.00 35.87 3.36
1862 2416 5.128499 ACATACATGTCTCTCCTTCTCCTTG 59.872 44.000 0.00 0.00 35.87 3.61
1865 2419 1.620819 TGTCTCTCCTTCTCCTTGTGC 59.379 52.381 0.00 0.00 0.00 4.57
1866 2420 1.899142 GTCTCTCCTTCTCCTTGTGCT 59.101 52.381 0.00 0.00 0.00 4.40
1867 2421 1.898472 TCTCTCCTTCTCCTTGTGCTG 59.102 52.381 0.00 0.00 0.00 4.41
1868 2422 1.898472 CTCTCCTTCTCCTTGTGCTGA 59.102 52.381 0.00 0.00 0.00 4.26
1869 2423 2.500910 CTCTCCTTCTCCTTGTGCTGAT 59.499 50.000 0.00 0.00 0.00 2.90
1888 2442 5.614308 CTGATGGGCTAATCAAGTGATGTA 58.386 41.667 0.00 0.00 36.16 2.29
1894 2448 5.059161 GGCTAATCAAGTGATGTATCTGCA 58.941 41.667 0.00 0.00 34.49 4.41
1902 2456 4.194640 AGTGATGTATCTGCATGTTGGAC 58.805 43.478 0.00 0.00 0.00 4.02
2000 2554 2.636830 CGCACCAAGGAGATCAAGAAT 58.363 47.619 0.00 0.00 0.00 2.40
2075 2629 3.407967 ACCGGCCCCATCGACAAT 61.408 61.111 0.00 0.00 0.00 2.71
2132 2686 1.694844 TCTTCCGGGTACGCATATGA 58.305 50.000 6.97 2.46 39.22 2.15
2143 2698 7.197703 CGGGTACGCATATGATACACATTATA 58.802 38.462 6.97 0.00 40.07 0.98
2144 2699 7.865889 CGGGTACGCATATGATACACATTATAT 59.134 37.037 6.97 0.00 40.07 0.86
2145 2700 9.542462 GGGTACGCATATGATACACATTATATT 57.458 33.333 6.97 0.00 40.07 1.28
2307 2869 1.079503 GATCGCTGGTGGAACTTGAC 58.920 55.000 0.00 0.00 36.74 3.18
2450 3030 7.383629 AACCTTATGTTCGCATCGTCTACGA 62.384 44.000 7.77 7.77 42.68 3.43
2466 3046 3.607777 CGAGTCTACAAGTCTCGCC 57.392 57.895 9.86 0.00 44.07 5.54
2485 3065 0.806102 CACGTCGCCCAATGGTCTAG 60.806 60.000 0.00 0.00 0.00 2.43
2490 3070 0.664761 CGCCCAATGGTCTAGCATTG 59.335 55.000 22.07 22.07 38.23 2.82
2535 3115 1.338020 GCAAATCCGGCCTCCTAAATG 59.662 52.381 0.00 0.00 0.00 2.32
2539 3119 1.281419 TCCGGCCTCCTAAATGTTCA 58.719 50.000 0.00 0.00 0.00 3.18
2541 3121 1.339631 CCGGCCTCCTAAATGTTCACA 60.340 52.381 0.00 0.00 0.00 3.58
2542 3122 2.643551 CGGCCTCCTAAATGTTCACAT 58.356 47.619 0.00 0.00 38.41 3.21
2543 3123 2.355756 CGGCCTCCTAAATGTTCACATG 59.644 50.000 0.00 0.00 36.56 3.21
2553 3133 0.319469 TGTTCACATGCTCGCTTCGA 60.319 50.000 0.00 0.00 0.00 3.71
2562 3142 1.019278 GCTCGCTTCGAATGACCCAA 61.019 55.000 0.00 0.00 34.74 4.12
2568 3148 1.734465 CTTCGAATGACCCAAGACAGC 59.266 52.381 0.00 0.00 0.00 4.40
2571 3151 1.523758 GAATGACCCAAGACAGCGTT 58.476 50.000 0.00 0.00 0.00 4.84
2576 3156 2.317609 CCCAAGACAGCGTTGGACG 61.318 63.158 3.74 0.00 46.53 4.79
2581 3161 3.222354 GACAGCGTTGGACGACCCT 62.222 63.158 3.74 0.00 46.05 4.34
2582 3162 2.432628 CAGCGTTGGACGACCCTC 60.433 66.667 4.46 0.00 46.05 4.30
2583 3163 2.915659 AGCGTTGGACGACCCTCA 60.916 61.111 4.46 0.00 46.05 3.86
2585 3165 1.595929 GCGTTGGACGACCCTCAAA 60.596 57.895 4.46 0.00 46.05 2.69
2586 3166 0.953960 GCGTTGGACGACCCTCAAAT 60.954 55.000 4.46 0.00 46.05 2.32
2587 3167 1.076332 CGTTGGACGACCCTCAAATC 58.924 55.000 0.34 0.00 46.05 2.17
2588 3168 1.337823 CGTTGGACGACCCTCAAATCT 60.338 52.381 0.34 0.00 46.05 2.40
2589 3169 2.347731 GTTGGACGACCCTCAAATCTC 58.652 52.381 0.34 0.00 35.38 2.75
2590 3170 1.938585 TGGACGACCCTCAAATCTCT 58.061 50.000 0.34 0.00 35.38 3.10
2593 3173 3.263261 GGACGACCCTCAAATCTCTTTC 58.737 50.000 0.00 0.00 0.00 2.62
2604 3185 5.634118 TCAAATCTCTTTCCAGACAACCAT 58.366 37.500 0.00 0.00 0.00 3.55
2606 3187 7.405292 TCAAATCTCTTTCCAGACAACCATAT 58.595 34.615 0.00 0.00 0.00 1.78
2608 3189 8.526147 CAAATCTCTTTCCAGACAACCATATTT 58.474 33.333 0.00 0.00 0.00 1.40
2645 3226 8.777865 ATTCTCAAATTCTTACTCGTTCATCA 57.222 30.769 0.00 0.00 0.00 3.07
2646 3227 8.777865 TTCTCAAATTCTTACTCGTTCATCAT 57.222 30.769 0.00 0.00 0.00 2.45
2650 3231 8.869897 TCAAATTCTTACTCGTTCATCATACAC 58.130 33.333 0.00 0.00 0.00 2.90
2680 3261 8.820628 TTTCTCGAATATGCAAAAGATTTACG 57.179 30.769 0.00 0.00 0.00 3.18
2681 3262 7.534085 TCTCGAATATGCAAAAGATTTACGT 57.466 32.000 0.00 0.00 0.00 3.57
2682 3263 8.637281 TCTCGAATATGCAAAAGATTTACGTA 57.363 30.769 0.00 0.00 0.00 3.57
2683 3264 9.256477 TCTCGAATATGCAAAAGATTTACGTAT 57.744 29.630 0.00 0.00 0.00 3.06
2684 3265 9.517361 CTCGAATATGCAAAAGATTTACGTATC 57.483 33.333 0.00 0.00 0.00 2.24
2685 3266 9.036671 TCGAATATGCAAAAGATTTACGTATCA 57.963 29.630 0.00 0.00 0.00 2.15
2686 3267 9.092322 CGAATATGCAAAAGATTTACGTATCAC 57.908 33.333 0.00 0.00 0.00 3.06
2688 3269 9.935682 AATATGCAAAAGATTTACGTATCACTG 57.064 29.630 0.00 0.00 0.00 3.66
2689 3270 5.627172 TGCAAAAGATTTACGTATCACTGC 58.373 37.500 0.00 4.52 0.00 4.40
2690 3271 5.180304 TGCAAAAGATTTACGTATCACTGCA 59.820 36.000 13.54 13.54 35.31 4.41
2691 3272 6.128035 TGCAAAAGATTTACGTATCACTGCAT 60.128 34.615 13.54 0.00 34.03 3.96
2692 3273 6.747280 GCAAAAGATTTACGTATCACTGCATT 59.253 34.615 0.00 0.00 31.46 3.56
2693 3274 7.253420 GCAAAAGATTTACGTATCACTGCATTG 60.253 37.037 0.00 0.00 31.46 2.82
2694 3275 7.609760 AAAGATTTACGTATCACTGCATTGA 57.390 32.000 9.39 9.39 0.00 2.57
2695 3276 7.792374 AAGATTTACGTATCACTGCATTGAT 57.208 32.000 21.52 21.52 39.61 2.57
2696 3277 8.887036 AAGATTTACGTATCACTGCATTGATA 57.113 30.769 19.60 19.60 37.42 2.15
2697 3278 8.526218 AGATTTACGTATCACTGCATTGATAG 57.474 34.615 22.88 18.59 38.81 2.08
2709 3290 6.370994 CACTGCATTGATAGAAGAGAGTTGTT 59.629 38.462 0.00 0.00 0.00 2.83
2710 3291 7.547019 CACTGCATTGATAGAAGAGAGTTGTTA 59.453 37.037 0.00 0.00 0.00 2.41
2711 3292 7.547370 ACTGCATTGATAGAAGAGAGTTGTTAC 59.453 37.037 0.00 0.00 0.00 2.50
2731 3331 7.039270 TGTTACATCATTAGTACAAGCGACAT 58.961 34.615 0.00 0.00 0.00 3.06
2802 3402 1.074775 TCCTCAAACGCATGGCCTT 59.925 52.632 3.32 0.00 0.00 4.35
2830 3430 4.290985 TCAGGGATCATGTTTTCTAACCCA 59.709 41.667 0.00 0.00 38.62 4.51
2844 3444 4.496336 CCCAGTAGCCCCAGCAGC 62.496 72.222 0.00 0.00 43.56 5.25
2859 3459 4.400961 AGCTGCCCAAGTCCTCGC 62.401 66.667 0.00 0.00 0.00 5.03
2905 3505 2.755876 AGGATCGACGGCTGCTCA 60.756 61.111 0.00 0.00 0.00 4.26
2906 3506 2.279120 GGATCGACGGCTGCTCAG 60.279 66.667 0.00 0.00 0.00 3.35
2914 3514 1.664649 CGGCTGCTCAGTGTCGAAA 60.665 57.895 0.00 0.00 0.00 3.46
2955 3555 0.392193 CACAGGAGCCAGGATGTGAC 60.392 60.000 8.21 0.00 44.56 3.67
2977 3577 3.056322 CGATGATCAGTGAGGATATGCCA 60.056 47.826 0.09 0.00 40.02 4.92
2982 3582 2.171237 TCAGTGAGGATATGCCAACCTG 59.829 50.000 0.00 0.00 40.02 4.00
2988 3588 1.152963 ATATGCCAACCTGTCGCCC 60.153 57.895 0.00 0.00 0.00 6.13
3039 3639 4.763793 CCACCACTCAAGAAAGTCATCATT 59.236 41.667 0.00 0.00 0.00 2.57
3059 3659 4.329545 GCAACGGAGGGGCTGTCA 62.330 66.667 0.00 0.00 34.15 3.58
3067 3667 2.511600 GGGGCTGTCATCGTTCGG 60.512 66.667 0.00 0.00 0.00 4.30
3068 3668 3.195698 GGGCTGTCATCGTTCGGC 61.196 66.667 0.00 0.00 35.47 5.54
3069 3669 2.434185 GGCTGTCATCGTTCGGCA 60.434 61.111 0.00 0.00 37.65 5.69
3071 3671 2.740714 GCTGTCATCGTTCGGCACC 61.741 63.158 0.00 0.00 36.16 5.01
3074 3674 1.080093 GTCATCGTTCGGCACCAGA 60.080 57.895 0.00 0.00 0.00 3.86
3094 3694 3.011032 AGAAGAGGACCTCATGCCAAATT 59.989 43.478 23.60 6.18 32.06 1.82
3100 3700 2.228822 GACCTCATGCCAAATTTGTCGT 59.771 45.455 16.73 2.54 0.00 4.34
3108 3708 2.307049 CCAAATTTGTCGTGAGAACGC 58.693 47.619 16.73 0.00 45.01 4.84
3109 3709 2.286713 CCAAATTTGTCGTGAGAACGCA 60.287 45.455 16.73 0.00 45.01 5.24
3154 3754 2.997315 TCGGGCTCCTGGTCACAG 60.997 66.667 0.00 0.00 44.51 3.66
3198 3798 3.244249 GGCAATCCTCGCCTAATAAGTCT 60.244 47.826 0.00 0.00 46.56 3.24
3209 3809 2.674796 AATAAGTCTGTCGGCAGTCC 57.325 50.000 18.04 9.09 43.05 3.85
3214 3814 0.320771 GTCTGTCGGCAGTCCAACAT 60.321 55.000 18.04 0.00 43.05 2.71
3224 3824 2.486191 GCAGTCCAACATCTATCCTGGG 60.486 54.545 0.00 0.00 0.00 4.45
3227 3827 2.370189 GTCCAACATCTATCCTGGGGAG 59.630 54.545 0.00 0.00 34.05 4.30
3231 3831 0.982704 CATCTATCCTGGGGAGCCAG 59.017 60.000 0.00 0.00 34.05 4.85
3237 3837 4.106925 CTGGGGAGCCAGCCAGAC 62.107 72.222 6.07 0.00 30.23 3.51
3251 3852 2.147150 GCCAGACAAAGTCTTGACTCC 58.853 52.381 3.58 0.00 41.37 3.85
3266 3867 3.009115 TCCTAGTGGTGCCCAGGC 61.009 66.667 0.38 0.38 42.35 4.85
3286 3887 2.420372 GCCTTCCAGTTTAGTTGCTAGC 59.580 50.000 8.10 8.10 0.00 3.42
3287 3888 3.674997 CCTTCCAGTTTAGTTGCTAGCA 58.325 45.455 14.93 14.93 0.00 3.49
3288 3889 3.686726 CCTTCCAGTTTAGTTGCTAGCAG 59.313 47.826 18.45 3.35 0.00 4.24
3289 3890 2.699954 TCCAGTTTAGTTGCTAGCAGC 58.300 47.619 22.64 22.64 42.82 5.25
3290 3891 2.303022 TCCAGTTTAGTTGCTAGCAGCT 59.697 45.455 32.54 32.54 42.97 4.24
3291 3892 3.077359 CCAGTTTAGTTGCTAGCAGCTT 58.923 45.455 34.56 20.35 42.97 3.74
3292 3893 3.120060 CCAGTTTAGTTGCTAGCAGCTTG 60.120 47.826 34.56 25.88 42.97 4.01
3293 3894 2.485814 AGTTTAGTTGCTAGCAGCTTGC 59.514 45.455 34.56 24.03 42.97 4.01
3294 3895 1.453155 TTAGTTGCTAGCAGCTTGCC 58.547 50.000 34.56 12.63 46.52 4.52
3295 3896 0.740868 TAGTTGCTAGCAGCTTGCCG 60.741 55.000 34.56 1.81 46.52 5.69
3296 3897 2.747460 TTGCTAGCAGCTTGCCGG 60.747 61.111 23.71 0.00 46.52 6.13
3297 3898 3.252627 TTGCTAGCAGCTTGCCGGA 62.253 57.895 23.71 9.05 46.52 5.14
3298 3899 2.894387 GCTAGCAGCTTGCCGGAG 60.894 66.667 17.16 0.21 46.52 4.63
3299 3900 2.581354 CTAGCAGCTTGCCGGAGT 59.419 61.111 5.05 0.00 46.52 3.85
3300 3901 1.078848 CTAGCAGCTTGCCGGAGTT 60.079 57.895 5.05 0.00 46.52 3.01
3301 3902 1.364626 CTAGCAGCTTGCCGGAGTTG 61.365 60.000 5.05 3.74 46.52 3.16
3302 3903 1.826340 TAGCAGCTTGCCGGAGTTGA 61.826 55.000 5.05 0.00 46.52 3.18
3303 3904 2.042831 GCAGCTTGCCGGAGTTGAT 61.043 57.895 5.05 0.00 37.42 2.57
3304 3905 1.986575 GCAGCTTGCCGGAGTTGATC 61.987 60.000 5.05 0.00 37.42 2.92
3305 3906 1.078143 AGCTTGCCGGAGTTGATCC 60.078 57.895 5.05 0.00 45.64 3.36
3317 3918 3.350833 GAGTTGATCCAAGGAGCATTGT 58.649 45.455 8.00 0.00 40.37 2.71
3318 3919 3.760684 GAGTTGATCCAAGGAGCATTGTT 59.239 43.478 8.00 0.00 40.37 2.83
3319 3920 3.508793 AGTTGATCCAAGGAGCATTGTTG 59.491 43.478 8.00 0.00 40.37 3.33
3320 3921 3.438216 TGATCCAAGGAGCATTGTTGA 57.562 42.857 2.37 0.00 35.47 3.18
3321 3922 3.084039 TGATCCAAGGAGCATTGTTGAC 58.916 45.455 2.37 0.00 35.47 3.18
3322 3923 1.522668 TCCAAGGAGCATTGTTGACG 58.477 50.000 0.00 0.00 0.00 4.35
3323 3924 0.523072 CCAAGGAGCATTGTTGACGG 59.477 55.000 0.00 0.00 0.00 4.79
3324 3925 1.238439 CAAGGAGCATTGTTGACGGT 58.762 50.000 0.00 0.00 0.00 4.83
3325 3926 1.069022 CAAGGAGCATTGTTGACGGTG 60.069 52.381 0.00 0.00 0.00 4.94
3326 3927 0.108585 AGGAGCATTGTTGACGGTGT 59.891 50.000 0.00 0.00 0.00 4.16
3327 3928 0.951558 GGAGCATTGTTGACGGTGTT 59.048 50.000 0.00 0.00 0.00 3.32
3328 3929 1.069227 GGAGCATTGTTGACGGTGTTC 60.069 52.381 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
95 257 6.318648 TGAGTTTCGTGTAGTATTATACCCGT 59.681 38.462 0.00 0.00 30.05 5.28
112 274 8.603181 TGTGATGTGTATATTTCATGAGTTTCG 58.397 33.333 0.00 0.00 0.00 3.46
130 294 8.498054 AGATACCTAAAGACAATTGTGATGTG 57.502 34.615 17.58 3.33 0.00 3.21
196 361 8.630840 GTCTTCTTTCTGCGAAATAAATTTCAC 58.369 33.333 14.12 6.42 44.83 3.18
203 368 6.018588 TCGTTTGTCTTCTTTCTGCGAAATAA 60.019 34.615 4.60 3.90 0.00 1.40
217 382 7.860872 ACACCTTCATAAATTTCGTTTGTCTTC 59.139 33.333 0.00 0.00 0.00 2.87
226 391 7.429340 GCTATGACAACACCTTCATAAATTTCG 59.571 37.037 0.00 0.00 34.93 3.46
312 479 1.975680 TCTTCCTAGTTCCCGCAAGTT 59.024 47.619 0.00 0.00 0.00 2.66
313 480 1.640917 TCTTCCTAGTTCCCGCAAGT 58.359 50.000 0.00 0.00 0.00 3.16
318 485 4.650131 ACCTTAGATTCTTCCTAGTTCCCG 59.350 45.833 0.00 0.00 0.00 5.14
327 494 8.655901 AGATTCTTCCATACCTTAGATTCTTCC 58.344 37.037 0.00 0.00 28.31 3.46
449 619 9.959749 GTCTCATTCGTTCTAGAATCTTCTATT 57.040 33.333 8.75 0.00 38.66 1.73
470 640 6.019881 CGCAATAGAAATACAATCACGTCTCA 60.020 38.462 0.00 0.00 0.00 3.27
475 645 5.333339 CCTCCGCAATAGAAATACAATCACG 60.333 44.000 0.00 0.00 0.00 4.35
503 673 9.713740 GTTATCATCCCGTAGTAATAGTATTCG 57.286 37.037 0.00 0.00 0.00 3.34
514 684 7.215085 GGTATTTTCAGTTATCATCCCGTAGT 58.785 38.462 0.00 0.00 0.00 2.73
530 700 2.093075 TGGTTATCGGGCGGTATTTTCA 60.093 45.455 0.00 0.00 0.00 2.69
531 701 2.563702 TGGTTATCGGGCGGTATTTTC 58.436 47.619 0.00 0.00 0.00 2.29
638 1121 8.973378 TGACAATTAATGAATTTTGTTTCCGAC 58.027 29.630 0.00 0.00 32.73 4.79
650 1133 7.840716 TCCAGGGAGAAATGACAATTAATGAAT 59.159 33.333 0.00 0.00 0.00 2.57
651 1134 7.181361 TCCAGGGAGAAATGACAATTAATGAA 58.819 34.615 0.00 0.00 0.00 2.57
652 1135 6.730447 TCCAGGGAGAAATGACAATTAATGA 58.270 36.000 0.00 0.00 0.00 2.57
653 1136 7.592885 ATCCAGGGAGAAATGACAATTAATG 57.407 36.000 0.00 0.00 0.00 1.90
654 1137 7.445402 CGTATCCAGGGAGAAATGACAATTAAT 59.555 37.037 0.00 0.00 0.00 1.40
656 1139 6.126883 ACGTATCCAGGGAGAAATGACAATTA 60.127 38.462 0.00 0.00 0.00 1.40
657 1140 5.126067 CGTATCCAGGGAGAAATGACAATT 58.874 41.667 0.00 0.00 0.00 2.32
658 1141 4.164221 ACGTATCCAGGGAGAAATGACAAT 59.836 41.667 0.00 0.00 0.00 2.71
661 1163 3.821421 ACGTATCCAGGGAGAAATGAC 57.179 47.619 0.00 0.00 0.00 3.06
664 1166 5.130477 ACAATGTACGTATCCAGGGAGAAAT 59.870 40.000 0.00 0.00 0.00 2.17
672 1174 5.588240 TGCTTAGACAATGTACGTATCCAG 58.412 41.667 0.00 0.00 0.00 3.86
677 1179 8.033038 AGATTTTCTGCTTAGACAATGTACGTA 58.967 33.333 0.00 0.00 0.00 3.57
718 1220 5.163405 GGGTACTATCGGCATGATGATATGT 60.163 44.000 0.00 6.07 37.99 2.29
742 1244 2.960170 GCCAGTTGCAGCCTTCAG 59.040 61.111 0.00 0.00 40.77 3.02
989 1495 2.079925 GTGTGAGAGTGGAATTGAGCC 58.920 52.381 0.00 0.00 0.00 4.70
1068 1574 1.447140 GACCAGCGCCATCGTTGTA 60.447 57.895 2.29 0.00 43.92 2.41
1278 1790 2.257371 GCGCAGTGTGTCCGAGTA 59.743 61.111 0.30 0.00 0.00 2.59
1428 1940 4.261578 ACCAAAAAGAATCACCAGCATG 57.738 40.909 0.00 0.00 0.00 4.06
1429 1941 5.564651 CGTTACCAAAAAGAATCACCAGCAT 60.565 40.000 0.00 0.00 0.00 3.79
1431 1943 4.226761 CGTTACCAAAAAGAATCACCAGC 58.773 43.478 0.00 0.00 0.00 4.85
1432 1944 5.432885 ACGTTACCAAAAAGAATCACCAG 57.567 39.130 0.00 0.00 0.00 4.00
1433 1945 4.024725 CGACGTTACCAAAAAGAATCACCA 60.025 41.667 0.00 0.00 0.00 4.17
1434 1946 4.211794 TCGACGTTACCAAAAAGAATCACC 59.788 41.667 0.00 0.00 0.00 4.02
1435 1947 5.135330 GTCGACGTTACCAAAAAGAATCAC 58.865 41.667 0.00 0.00 0.00 3.06
1436 1948 4.084952 CGTCGACGTTACCAAAAAGAATCA 60.085 41.667 29.08 0.00 34.11 2.57
1437 1949 4.380290 CGTCGACGTTACCAAAAAGAATC 58.620 43.478 29.08 0.00 34.11 2.52
1438 1950 4.379374 CGTCGACGTTACCAAAAAGAAT 57.621 40.909 29.08 0.00 34.11 2.40
1439 1951 3.839823 CGTCGACGTTACCAAAAAGAA 57.160 42.857 29.08 0.00 34.11 2.52
1453 1995 0.982673 CAAGGATCGTTCACGTCGAC 59.017 55.000 5.18 5.18 40.07 4.20
1465 2011 1.398390 GGCACAACACGATCAAGGATC 59.602 52.381 0.00 0.00 35.88 3.36
1469 2015 3.753774 GTGGCACAACACGATCAAG 57.246 52.632 13.86 0.00 44.16 3.02
1477 2023 4.202060 ACAACAAATATTCGTGGCACAACA 60.202 37.500 19.09 0.15 44.16 3.33
1478 2024 4.295051 ACAACAAATATTCGTGGCACAAC 58.705 39.130 19.09 0.00 44.16 3.32
1481 2027 4.393680 TCCTACAACAAATATTCGTGGCAC 59.606 41.667 7.79 7.79 0.00 5.01
1482 2028 4.580868 TCCTACAACAAATATTCGTGGCA 58.419 39.130 0.00 0.00 0.00 4.92
1483 2029 5.277828 GGATCCTACAACAAATATTCGTGGC 60.278 44.000 3.84 0.00 0.00 5.01
1485 2031 5.751509 TCGGATCCTACAACAAATATTCGTG 59.248 40.000 10.75 0.00 0.00 4.35
1486 2032 5.751990 GTCGGATCCTACAACAAATATTCGT 59.248 40.000 11.43 0.00 0.00 3.85
1487 2033 5.176958 GGTCGGATCCTACAACAAATATTCG 59.823 44.000 17.51 0.00 0.00 3.34
1488 2034 5.469084 GGGTCGGATCCTACAACAAATATTC 59.531 44.000 17.51 0.00 0.00 1.75
1489 2035 5.374071 GGGTCGGATCCTACAACAAATATT 58.626 41.667 17.51 0.00 0.00 1.28
1490 2036 4.502604 CGGGTCGGATCCTACAACAAATAT 60.503 45.833 17.51 0.00 0.00 1.28
1491 2037 3.181473 CGGGTCGGATCCTACAACAAATA 60.181 47.826 17.51 0.00 0.00 1.40
1492 2038 2.419574 CGGGTCGGATCCTACAACAAAT 60.420 50.000 17.51 0.00 0.00 2.32
1493 2039 1.066716 CGGGTCGGATCCTACAACAAA 60.067 52.381 17.51 0.00 0.00 2.83
1494 2040 0.533491 CGGGTCGGATCCTACAACAA 59.467 55.000 17.51 0.00 0.00 2.83
1495 2041 2.195389 CGGGTCGGATCCTACAACA 58.805 57.895 17.51 0.00 0.00 3.33
1837 2383 6.019656 AGGAGAAGGAGAGACATGTATGTA 57.980 41.667 0.00 0.00 41.95 2.29
1842 2396 3.260380 CACAAGGAGAAGGAGAGACATGT 59.740 47.826 0.00 0.00 0.00 3.21
1847 2401 1.898472 CAGCACAAGGAGAAGGAGAGA 59.102 52.381 0.00 0.00 0.00 3.10
1856 2410 0.543277 TAGCCCATCAGCACAAGGAG 59.457 55.000 0.00 0.00 34.23 3.69
1858 2412 1.952296 GATTAGCCCATCAGCACAAGG 59.048 52.381 0.00 0.00 34.23 3.61
1861 2415 2.025981 ACTTGATTAGCCCATCAGCACA 60.026 45.455 0.00 0.00 34.59 4.57
1862 2416 2.357009 CACTTGATTAGCCCATCAGCAC 59.643 50.000 0.00 0.00 34.59 4.40
1865 2419 4.458397 ACATCACTTGATTAGCCCATCAG 58.542 43.478 0.00 0.00 34.59 2.90
1866 2420 4.508551 ACATCACTTGATTAGCCCATCA 57.491 40.909 0.00 0.00 31.21 3.07
1867 2421 6.370994 CAGATACATCACTTGATTAGCCCATC 59.629 42.308 0.00 0.00 31.21 3.51
1868 2422 6.236409 CAGATACATCACTTGATTAGCCCAT 58.764 40.000 0.00 0.00 31.21 4.00
1869 2423 5.614308 CAGATACATCACTTGATTAGCCCA 58.386 41.667 0.00 0.00 31.21 5.36
1888 2442 2.760634 TACGTGTCCAACATGCAGAT 57.239 45.000 0.00 0.00 38.65 2.90
1894 2448 3.323751 GGTACCTTACGTGTCCAACAT 57.676 47.619 4.06 0.00 0.00 2.71
1979 2533 0.250234 TCTTGATCTCCTTGGTGCGG 59.750 55.000 0.00 0.00 0.00 5.69
2075 2629 2.701780 GGCGAGGTGAGCGAAGAGA 61.702 63.158 0.00 0.00 35.00 3.10
2165 2720 8.377799 TCATACATCAGTAGCCAAATCATACAT 58.622 33.333 0.00 0.00 32.86 2.29
2172 2727 4.413520 AGGGTCATACATCAGTAGCCAAAT 59.586 41.667 0.00 0.00 32.86 2.32
2178 2740 6.094048 CACCAAAAAGGGTCATACATCAGTAG 59.906 42.308 0.00 0.00 43.89 2.57
2320 2897 3.277142 ACCATCATCCGGTTTACTTCC 57.723 47.619 0.00 0.00 30.53 3.46
2321 2898 5.365619 ACATACCATCATCCGGTTTACTTC 58.634 41.667 0.00 0.00 37.99 3.01
2322 2899 5.367945 ACATACCATCATCCGGTTTACTT 57.632 39.130 0.00 0.00 37.99 2.24
2323 2900 6.488769 TTACATACCATCATCCGGTTTACT 57.511 37.500 0.00 0.00 37.99 2.24
2324 2901 7.227910 ACAATTACATACCATCATCCGGTTTAC 59.772 37.037 0.00 0.00 37.99 2.01
2325 2902 7.227711 CACAATTACATACCATCATCCGGTTTA 59.772 37.037 0.00 0.00 37.99 2.01
2326 2903 6.039270 CACAATTACATACCATCATCCGGTTT 59.961 38.462 0.00 0.00 37.99 3.27
2327 2904 5.530915 CACAATTACATACCATCATCCGGTT 59.469 40.000 0.00 0.00 37.99 4.44
2328 2905 5.063204 CACAATTACATACCATCATCCGGT 58.937 41.667 0.00 0.00 40.73 5.28
2329 2906 4.455533 CCACAATTACATACCATCATCCGG 59.544 45.833 0.00 0.00 0.00 5.14
2330 2907 5.304778 TCCACAATTACATACCATCATCCG 58.695 41.667 0.00 0.00 0.00 4.18
2450 3030 0.522180 CGTGGCGAGACTTGTAGACT 59.478 55.000 0.00 0.00 0.00 3.24
2451 3031 0.240411 ACGTGGCGAGACTTGTAGAC 59.760 55.000 0.00 0.00 0.00 2.59
2452 3032 0.520404 GACGTGGCGAGACTTGTAGA 59.480 55.000 0.00 0.00 0.00 2.59
2453 3033 0.793478 CGACGTGGCGAGACTTGTAG 60.793 60.000 0.00 0.00 0.00 2.74
2454 3034 1.208358 CGACGTGGCGAGACTTGTA 59.792 57.895 0.00 0.00 0.00 2.41
2455 3035 2.050351 CGACGTGGCGAGACTTGT 60.050 61.111 0.00 0.00 0.00 3.16
2456 3036 3.470567 GCGACGTGGCGAGACTTG 61.471 66.667 6.84 0.00 0.00 3.16
2457 3037 4.719369 GGCGACGTGGCGAGACTT 62.719 66.667 16.58 0.00 0.00 3.01
2466 3046 0.806102 CTAGACCATTGGGCGACGTG 60.806 60.000 7.78 0.00 34.63 4.49
2490 3070 1.712977 CCGGCTGAAGATGCTCTTGC 61.713 60.000 0.00 2.63 36.73 4.01
2527 3107 2.677836 GCGAGCATGTGAACATTTAGGA 59.322 45.455 0.00 0.00 33.61 2.94
2528 3108 2.679837 AGCGAGCATGTGAACATTTAGG 59.320 45.455 0.00 0.00 33.61 2.69
2529 3109 4.337763 GAAGCGAGCATGTGAACATTTAG 58.662 43.478 0.00 0.00 33.61 1.85
2535 3115 0.790207 TTCGAAGCGAGCATGTGAAC 59.210 50.000 0.00 0.00 37.14 3.18
2539 3119 1.002366 GTCATTCGAAGCGAGCATGT 58.998 50.000 3.35 0.00 37.14 3.21
2541 3121 0.811616 GGGTCATTCGAAGCGAGCAT 60.812 55.000 23.13 0.00 37.14 3.79
2542 3122 1.447838 GGGTCATTCGAAGCGAGCA 60.448 57.895 23.13 0.00 37.14 4.26
2543 3123 1.019278 TTGGGTCATTCGAAGCGAGC 61.019 55.000 16.97 16.97 37.14 5.03
2553 3133 1.238439 CAACGCTGTCTTGGGTCATT 58.762 50.000 0.00 0.00 32.56 2.57
2562 3142 2.338984 GGTCGTCCAACGCTGTCT 59.661 61.111 0.00 0.00 42.21 3.41
2568 3148 1.076332 GATTTGAGGGTCGTCCAACG 58.924 55.000 0.04 0.00 44.19 4.10
2571 3151 1.938585 AGAGATTTGAGGGTCGTCCA 58.061 50.000 0.04 0.00 38.24 4.02
2576 3156 4.257731 GTCTGGAAAGAGATTTGAGGGTC 58.742 47.826 0.00 0.00 0.00 4.46
2581 3161 5.047566 TGGTTGTCTGGAAAGAGATTTGA 57.952 39.130 0.00 0.00 0.00 2.69
2582 3162 5.972107 ATGGTTGTCTGGAAAGAGATTTG 57.028 39.130 0.00 0.00 0.00 2.32
2583 3163 8.655935 AAATATGGTTGTCTGGAAAGAGATTT 57.344 30.769 0.00 0.00 0.00 2.17
2585 3165 7.637511 AGAAATATGGTTGTCTGGAAAGAGAT 58.362 34.615 0.00 0.00 0.00 2.75
2586 3166 7.020827 AGAAATATGGTTGTCTGGAAAGAGA 57.979 36.000 0.00 0.00 0.00 3.10
2587 3167 6.881065 TGAGAAATATGGTTGTCTGGAAAGAG 59.119 38.462 0.00 0.00 0.00 2.85
2588 3168 6.778821 TGAGAAATATGGTTGTCTGGAAAGA 58.221 36.000 0.00 0.00 0.00 2.52
2589 3169 7.636150 ATGAGAAATATGGTTGTCTGGAAAG 57.364 36.000 0.00 0.00 0.00 2.62
2590 3170 9.342308 GATATGAGAAATATGGTTGTCTGGAAA 57.658 33.333 0.00 0.00 0.00 3.13
2630 3211 8.827177 AAAAAGTGTATGATGAACGAGTAAGA 57.173 30.769 0.00 0.00 0.00 2.10
2666 3247 5.180304 TGCAGTGATACGTAAATCTTTTGCA 59.820 36.000 14.89 14.89 36.15 4.08
2667 3248 5.627172 TGCAGTGATACGTAAATCTTTTGC 58.373 37.500 0.00 7.22 32.66 3.68
2675 3256 8.194769 TCTTCTATCAATGCAGTGATACGTAAA 58.805 33.333 27.98 18.76 39.07 2.01
2676 3257 7.712797 TCTTCTATCAATGCAGTGATACGTAA 58.287 34.615 27.98 20.68 39.07 3.18
2677 3258 7.228706 TCTCTTCTATCAATGCAGTGATACGTA 59.771 37.037 27.98 15.96 39.07 3.57
2678 3259 6.039829 TCTCTTCTATCAATGCAGTGATACGT 59.960 38.462 27.98 12.34 39.07 3.57
2679 3260 6.442112 TCTCTTCTATCAATGCAGTGATACG 58.558 40.000 27.98 22.80 39.07 3.06
2680 3261 7.432869 ACTCTCTTCTATCAATGCAGTGATAC 58.567 38.462 27.98 0.00 39.07 2.24
2681 3262 7.594351 ACTCTCTTCTATCAATGCAGTGATA 57.406 36.000 29.15 29.15 39.07 2.15
2682 3263 6.482898 ACTCTCTTCTATCAATGCAGTGAT 57.517 37.500 30.02 30.02 41.21 3.06
2683 3264 5.929058 ACTCTCTTCTATCAATGCAGTGA 57.071 39.130 20.36 20.36 0.00 3.41
2684 3265 5.873712 ACAACTCTCTTCTATCAATGCAGTG 59.126 40.000 8.08 8.08 0.00 3.66
2685 3266 6.047511 ACAACTCTCTTCTATCAATGCAGT 57.952 37.500 0.00 0.00 0.00 4.40
2686 3267 6.981762 AACAACTCTCTTCTATCAATGCAG 57.018 37.500 0.00 0.00 0.00 4.41
2687 3268 7.386059 TGTAACAACTCTCTTCTATCAATGCA 58.614 34.615 0.00 0.00 0.00 3.96
2688 3269 7.834068 TGTAACAACTCTCTTCTATCAATGC 57.166 36.000 0.00 0.00 0.00 3.56
2689 3270 9.591792 TGATGTAACAACTCTCTTCTATCAATG 57.408 33.333 0.00 0.00 0.00 2.82
2697 3278 9.856488 TGTACTAATGATGTAACAACTCTCTTC 57.144 33.333 0.00 0.00 0.00 2.87
2709 3290 6.801575 TCATGTCGCTTGTACTAATGATGTA 58.198 36.000 0.00 0.00 0.00 2.29
2710 3291 5.660460 TCATGTCGCTTGTACTAATGATGT 58.340 37.500 0.00 0.00 0.00 3.06
2711 3292 6.399354 CGATCATGTCGCTTGTACTAATGATG 60.399 42.308 6.27 0.00 44.33 3.07
2731 3331 1.360931 CGCCATGTTCTGTGCGATCA 61.361 55.000 5.96 0.00 43.10 2.92
2766 3366 2.642139 GACGGTCAATTAGGTCGTCA 57.358 50.000 2.62 0.00 46.23 4.35
2802 3402 3.515502 AGAAAACATGATCCCTGAGACGA 59.484 43.478 0.00 0.00 0.00 4.20
2830 3430 4.106925 GCAGCTGCTGGGGCTACT 62.107 66.667 31.33 0.00 38.03 2.57
2844 3444 1.690219 ATAGGCGAGGACTTGGGCAG 61.690 60.000 0.00 0.00 0.00 4.85
2859 3459 4.658713 CTCAATAGCATTCGCACATAGG 57.341 45.455 0.00 0.00 42.27 2.57
2898 3498 0.937304 TGTTTTCGACACTGAGCAGC 59.063 50.000 0.00 0.00 32.00 5.25
2914 3514 1.538047 AGGCTCGAAATGCATGTGTT 58.462 45.000 0.00 0.00 0.00 3.32
2926 3526 2.650116 GCTCCTGTGGAAGGCTCGA 61.650 63.158 0.00 0.00 46.92 4.04
2955 3555 3.056322 TGGCATATCCTCACTGATCATCG 60.056 47.826 0.00 0.00 35.26 3.84
2988 3588 4.838152 ATGGTGCTACGCCGGCAG 62.838 66.667 28.98 21.29 40.54 4.85
2998 3598 4.457496 CCGGCGTCTCATGGTGCT 62.457 66.667 6.01 0.00 0.00 4.40
3057 3657 0.389817 CTTCTGGTGCCGAACGATGA 60.390 55.000 0.00 0.00 0.00 2.92
3059 3659 0.108615 CTCTTCTGGTGCCGAACGAT 60.109 55.000 0.00 0.00 0.00 3.73
3067 3667 0.908198 ATGAGGTCCTCTTCTGGTGC 59.092 55.000 19.82 0.00 0.00 5.01
3068 3668 1.406614 GCATGAGGTCCTCTTCTGGTG 60.407 57.143 19.82 9.66 0.00 4.17
3069 3669 0.908198 GCATGAGGTCCTCTTCTGGT 59.092 55.000 19.82 0.00 0.00 4.00
3071 3671 0.907486 TGGCATGAGGTCCTCTTCTG 59.093 55.000 19.82 14.48 0.00 3.02
3074 3674 3.463048 AATTTGGCATGAGGTCCTCTT 57.537 42.857 19.82 10.90 0.00 2.85
3100 3700 1.872952 CTTGTTGGATGTGCGTTCTCA 59.127 47.619 0.00 0.00 0.00 3.27
3108 3708 1.682854 ACCACTTGCTTGTTGGATGTG 59.317 47.619 0.00 0.00 40.25 3.21
3109 3709 1.682854 CACCACTTGCTTGTTGGATGT 59.317 47.619 0.00 0.00 0.00 3.06
3134 3734 2.060980 GTGACCAGGAGCCCGAGAT 61.061 63.158 0.00 0.00 0.00 2.75
3139 3739 1.003233 GTTCTGTGACCAGGAGCCC 60.003 63.158 0.00 0.00 39.31 5.19
3154 3754 2.939103 GCATCCACCTAGATGTGTGTTC 59.061 50.000 3.69 0.00 44.58 3.18
3209 3809 1.072965 GGCTCCCCAGGATAGATGTTG 59.927 57.143 0.00 0.00 0.00 3.33
3224 3824 0.957888 GACTTTGTCTGGCTGGCTCC 60.958 60.000 2.00 0.00 0.00 4.70
3227 3827 0.595095 CAAGACTTTGTCTGGCTGGC 59.405 55.000 0.67 0.00 42.59 4.85
3231 3831 2.147150 GGAGTCAAGACTTTGTCTGGC 58.853 52.381 3.96 0.00 42.59 4.85
3237 3837 4.310769 CACCACTAGGAGTCAAGACTTTG 58.689 47.826 3.96 0.00 42.66 2.77
3266 3867 3.674997 TGCTAGCAACTAAACTGGAAGG 58.325 45.455 16.84 0.00 39.30 3.46
3286 3887 1.372087 GGATCAACTCCGGCAAGCTG 61.372 60.000 0.00 0.00 33.29 4.24
3287 3888 1.078143 GGATCAACTCCGGCAAGCT 60.078 57.895 0.00 0.00 33.29 3.74
3288 3889 3.502572 GGATCAACTCCGGCAAGC 58.497 61.111 0.00 0.00 33.29 4.01
3295 3896 2.686915 CAATGCTCCTTGGATCAACTCC 59.313 50.000 0.00 0.00 45.19 3.85
3296 3897 3.350833 ACAATGCTCCTTGGATCAACTC 58.649 45.455 0.00 0.00 0.00 3.01
3297 3898 3.446442 ACAATGCTCCTTGGATCAACT 57.554 42.857 0.00 0.00 0.00 3.16
3298 3899 3.507233 TCAACAATGCTCCTTGGATCAAC 59.493 43.478 0.00 0.00 0.00 3.18
3299 3900 3.507233 GTCAACAATGCTCCTTGGATCAA 59.493 43.478 0.00 0.00 0.00 2.57
3300 3901 3.084039 GTCAACAATGCTCCTTGGATCA 58.916 45.455 0.00 0.00 0.00 2.92
3301 3902 2.096496 CGTCAACAATGCTCCTTGGATC 59.904 50.000 0.00 0.00 0.00 3.36
3302 3903 2.086869 CGTCAACAATGCTCCTTGGAT 58.913 47.619 0.00 0.00 0.00 3.41
3303 3904 1.522668 CGTCAACAATGCTCCTTGGA 58.477 50.000 0.00 0.00 0.00 3.53
3304 3905 0.523072 CCGTCAACAATGCTCCTTGG 59.477 55.000 0.00 0.00 0.00 3.61
3305 3906 1.069022 CACCGTCAACAATGCTCCTTG 60.069 52.381 0.00 0.00 0.00 3.61
3306 3907 1.238439 CACCGTCAACAATGCTCCTT 58.762 50.000 0.00 0.00 0.00 3.36
3307 3908 0.108585 ACACCGTCAACAATGCTCCT 59.891 50.000 0.00 0.00 0.00 3.69
3308 3909 0.951558 AACACCGTCAACAATGCTCC 59.048 50.000 0.00 0.00 0.00 4.70
3309 3910 2.316119 GAACACCGTCAACAATGCTC 57.684 50.000 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.