Multiple sequence alignment - TraesCS1A01G396700

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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 TraesCS1A01G396700 chr1A 100.000 2801 0 0 1 2801 562783653 562786453 0.000000e+00 5173.0
1 TraesCS1A01G396700 chr1D 89.431 1618 93 39 524 2089 469586415 469588006 0.000000e+00 1969.0
2 TraesCS1A01G396700 chr1D 89.377 273 21 4 2127 2395 469588011 469588279 1.240000e-88 337.0
3 TraesCS1A01G396700 chr1D 78.216 583 24 30 1 538 469585869 469586393 7.640000e-71 278.0
4 TraesCS1A01G396700 chr1D 82.727 220 11 10 2411 2608 469588263 469588477 1.330000e-38 171.0
5 TraesCS1A01G396700 chr1D 100.000 30 0 0 2593 2622 469588488 469588517 3.900000e-04 56.5
6 TraesCS1A01G396700 chr1B 88.774 1550 90 41 888 2395 649368479 649369986 0.000000e+00 1821.0
7 TraesCS1A01G396700 chr1B 80.499 682 47 39 1 623 649367622 649368276 7.120000e-121 444.0
8 TraesCS1A01G396700 chr1B 80.797 276 23 13 2411 2663 649369970 649370238 3.680000e-44 189.0
9 TraesCS1A01G396700 chr3B 79.800 500 80 15 1152 1639 439333721 439333231 7.430000e-91 344.0
10 TraesCS1A01G396700 chr3A 79.918 488 81 11 1152 1629 464319844 464320324 2.670000e-90 342.0
11 TraesCS1A01G396700 chr3D 78.947 494 84 14 1152 1633 340415715 340415230 4.500000e-83 318.0
12 TraesCS1A01G396700 chr7D 86.585 82 11 0 2704 2785 611047955 611048036 1.070000e-14 91.6
13 TraesCS1A01G396700 chr5A 83.000 100 16 1 2703 2801 550534116 550534215 3.840000e-14 89.8
14 TraesCS1A01G396700 chr7A 83.871 93 14 1 2710 2801 208528424 208528332 1.380000e-13 87.9
15 TraesCS1A01G396700 chr2D 81.522 92 16 1 2710 2800 82287632 82287723 1.080000e-09 75.0
16 TraesCS1A01G396700 chr6D 84.211 76 11 1 2710 2785 44257705 44257631 3.870000e-09 73.1
17 TraesCS1A01G396700 chr2A 93.750 48 2 1 2755 2801 19468806 19468759 1.390000e-08 71.3
18 TraesCS1A01G396700 chr2A 83.117 77 11 2 2710 2785 82986795 82986870 5.010000e-08 69.4


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 TraesCS1A01G396700 chr1A 562783653 562786453 2800 False 5173.0 5173 100.000000 1 2801 1 chr1A.!!$F1 2800
1 TraesCS1A01G396700 chr1D 469585869 469588517 2648 False 562.3 1969 87.950200 1 2622 5 chr1D.!!$F1 2621
2 TraesCS1A01G396700 chr1B 649367622 649370238 2616 False 818.0 1821 83.356667 1 2663 3 chr1B.!!$F1 2662

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
369 415 0.035317 TGACACAGTGTGATCCCTGC 59.965 55.0 29.58 9.56 36.96 4.85 F
497 573 0.102844 CACCACACCTGCAACCAAAG 59.897 55.0 0.00 0.00 0.00 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1180 1339 0.181824 AACTTGGTGTACTGCCCGTT 59.818 50.0 0.0 1.1 0.0 4.44 R
2137 2339 0.382873 GTTTTCACCACCGACAACCC 59.617 55.0 0.0 0.0 0.0 4.11 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
33 34 1.995484 ACAGTTTCGATGCAGATCACG 59.005 47.619 0.00 0.00 0.00 4.35
36 37 0.249120 TTTCGATGCAGATCACGGGT 59.751 50.000 0.00 0.00 0.00 5.28
59 65 7.275779 GGGTCTCTTTTTGTGTCTTTTCTTTTC 59.724 37.037 0.00 0.00 0.00 2.29
83 99 0.742635 GAAGCAGCTGGGCTACACTC 60.743 60.000 17.12 0.00 45.07 3.51
95 111 2.535331 GCTACACTCTACAGCTGCTTC 58.465 52.381 15.27 0.00 32.46 3.86
157 177 0.518636 CTGTCGGTAGAACGAACGGA 59.481 55.000 0.00 0.00 45.38 4.69
159 179 0.796113 GTCGGTAGAACGAACGGAGC 60.796 60.000 0.00 0.00 45.38 4.70
233 272 3.636764 TCCCTTTTCTTCTTCAGGTTTGC 59.363 43.478 0.00 0.00 0.00 3.68
270 313 3.063485 TCAGATCGTGCGAACAATTTCA 58.937 40.909 0.00 0.00 0.00 2.69
274 317 3.383546 TCGTGCGAACAATTTCATAGC 57.616 42.857 0.00 0.00 0.00 2.97
283 326 5.551760 AACAATTTCATAGCAAGAGACCG 57.448 39.130 0.00 0.00 0.00 4.79
302 345 3.128589 ACCGCAAACATGTTAGCAATAGG 59.871 43.478 12.39 10.77 0.00 2.57
326 372 1.239296 GCAGCAGCAGTCCATGTGAA 61.239 55.000 0.00 0.00 41.58 3.18
350 396 2.369860 ACACAGTGTGATCCATGTGAGT 59.630 45.455 29.58 0.00 44.56 3.41
351 397 2.740447 CACAGTGTGATCCATGTGAGTG 59.260 50.000 18.83 0.00 44.56 3.51
352 398 2.634453 ACAGTGTGATCCATGTGAGTGA 59.366 45.455 0.00 0.00 0.00 3.41
353 399 2.998670 CAGTGTGATCCATGTGAGTGAC 59.001 50.000 0.00 0.00 0.00 3.67
354 400 2.634453 AGTGTGATCCATGTGAGTGACA 59.366 45.455 0.00 0.00 39.53 3.58
365 411 2.820059 TGAGTGACACAGTGTGATCC 57.180 50.000 29.58 16.98 36.96 3.36
366 412 1.344438 TGAGTGACACAGTGTGATCCC 59.656 52.381 29.58 13.82 36.96 3.85
367 413 1.620819 GAGTGACACAGTGTGATCCCT 59.379 52.381 29.58 17.88 36.96 4.20
368 414 1.345741 AGTGACACAGTGTGATCCCTG 59.654 52.381 29.58 1.37 36.96 4.45
369 415 0.035317 TGACACAGTGTGATCCCTGC 59.965 55.000 29.58 9.56 36.96 4.85
370 416 0.035317 GACACAGTGTGATCCCTGCA 59.965 55.000 29.58 0.00 36.96 4.41
371 417 0.250467 ACACAGTGTGATCCCTGCAC 60.250 55.000 29.58 0.00 36.96 4.57
398 444 1.674651 GCCCTCTTTCACCCCGAAC 60.675 63.158 0.00 0.00 31.73 3.95
492 568 3.119193 CACCACCACACCTGCAAC 58.881 61.111 0.00 0.00 0.00 4.17
493 569 2.123897 ACCACCACACCTGCAACC 60.124 61.111 0.00 0.00 0.00 3.77
494 570 2.123939 CCACCACACCTGCAACCA 60.124 61.111 0.00 0.00 0.00 3.67
495 571 1.756172 CCACCACACCTGCAACCAA 60.756 57.895 0.00 0.00 0.00 3.67
496 572 1.326213 CCACCACACCTGCAACCAAA 61.326 55.000 0.00 0.00 0.00 3.28
497 573 0.102844 CACCACACCTGCAACCAAAG 59.897 55.000 0.00 0.00 0.00 2.77
538 614 1.364626 CGCCAGCATCTGAAGACACC 61.365 60.000 0.00 0.00 32.44 4.16
560 672 5.165676 CCCTTTTAAATTGGTTCGCTTACC 58.834 41.667 6.91 0.00 38.73 2.85
564 676 7.115805 CCTTTTAAATTGGTTCGCTTACCTTTC 59.884 37.037 5.80 0.00 39.04 2.62
574 686 5.326200 TCGCTTACCTTTCCTAAAGAGAG 57.674 43.478 0.99 0.00 41.02 3.20
610 722 4.449131 CTCATCTGGCATGTGTACTTCAT 58.551 43.478 0.00 0.00 0.00 2.57
618 730 9.407380 TCTGGCATGTGTACTTCATAATTATTT 57.593 29.630 0.00 0.00 0.00 1.40
619 731 9.454585 CTGGCATGTGTACTTCATAATTATTTG 57.545 33.333 0.00 0.00 0.00 2.32
620 732 7.920151 TGGCATGTGTACTTCATAATTATTTGC 59.080 33.333 0.00 0.00 0.00 3.68
621 733 7.382218 GGCATGTGTACTTCATAATTATTTGCC 59.618 37.037 0.00 0.00 0.00 4.52
622 734 7.920151 GCATGTGTACTTCATAATTATTTGCCA 59.080 33.333 0.00 0.00 0.00 4.92
623 735 9.970395 CATGTGTACTTCATAATTATTTGCCAT 57.030 29.630 0.00 0.00 0.00 4.40
625 737 9.183368 TGTGTACTTCATAATTATTTGCCATCA 57.817 29.630 0.00 0.00 0.00 3.07
659 771 4.546570 AGAAATTTACTTGCCAAAGTCGC 58.453 39.130 0.00 0.00 43.34 5.19
669 781 0.725686 CCAAAGTCGCTCTGCATCTG 59.274 55.000 0.00 0.00 0.00 2.90
705 822 2.187424 CTGAGCTGAGCTGAGGCC 59.813 66.667 13.71 0.00 39.88 5.19
714 831 0.905357 GAGCTGAGGCCTCTGGTTAA 59.095 55.000 35.57 15.64 38.94 2.01
722 854 5.930135 TGAGGCCTCTGGTTAATTAATCTC 58.070 41.667 32.28 1.86 0.00 2.75
739 871 3.197790 CAGGATCGCACGGCCAAG 61.198 66.667 2.24 0.00 0.00 3.61
779 912 2.343475 AATCCATGCGCCCCCACTAG 62.343 60.000 4.18 0.00 0.00 2.57
782 915 4.489771 ATGCGCCCCCACTAGCAC 62.490 66.667 4.18 0.00 42.73 4.40
807 946 1.003718 GGTAGCCATATCACCCGGC 60.004 63.158 0.00 0.00 46.62 6.13
810 949 4.250305 GCCATATCACCCGGCGGT 62.250 66.667 26.32 10.35 46.31 5.68
811 950 2.030562 CCATATCACCCGGCGGTC 59.969 66.667 26.32 0.00 42.04 4.79
812 951 2.802724 CCATATCACCCGGCGGTCA 61.803 63.158 26.32 8.28 42.04 4.02
813 952 1.371183 CATATCACCCGGCGGTCAT 59.629 57.895 26.32 15.28 42.04 3.06
814 953 0.950555 CATATCACCCGGCGGTCATG 60.951 60.000 26.32 19.35 42.04 3.07
815 954 2.111999 ATATCACCCGGCGGTCATGG 62.112 60.000 26.32 11.62 42.04 3.66
827 966 2.870435 GCGGTCATGGTCAACACTAACT 60.870 50.000 0.00 0.00 0.00 2.24
836 981 3.586892 GTCAACACTAACTAGCCAGTCC 58.413 50.000 0.00 0.00 32.29 3.85
846 991 1.068741 CTAGCCAGTCCGTTACCATCC 59.931 57.143 0.00 0.00 0.00 3.51
868 1013 1.745264 CTTCCCATCTCGCCTCCTC 59.255 63.158 0.00 0.00 0.00 3.71
869 1014 1.753368 CTTCCCATCTCGCCTCCTCC 61.753 65.000 0.00 0.00 0.00 4.30
870 1015 3.237741 CCCATCTCGCCTCCTCCC 61.238 72.222 0.00 0.00 0.00 4.30
871 1016 2.123077 CCATCTCGCCTCCTCCCT 60.123 66.667 0.00 0.00 0.00 4.20
884 1029 1.270414 CCTCCCTCACACAGCTCCAT 61.270 60.000 0.00 0.00 0.00 3.41
885 1030 0.177604 CTCCCTCACACAGCTCCATC 59.822 60.000 0.00 0.00 0.00 3.51
886 1031 1.222936 CCCTCACACAGCTCCATCC 59.777 63.158 0.00 0.00 0.00 3.51
894 1048 2.080536 CAGCTCCATCCCCATCCCA 61.081 63.158 0.00 0.00 0.00 4.37
945 1099 3.012560 GCTTTCAGCACTCCACACT 57.987 52.632 0.00 0.00 41.89 3.55
946 1100 0.871057 GCTTTCAGCACTCCACACTC 59.129 55.000 0.00 0.00 41.89 3.51
947 1101 1.542108 GCTTTCAGCACTCCACACTCT 60.542 52.381 0.00 0.00 41.89 3.24
948 1102 2.411904 CTTTCAGCACTCCACACTCTC 58.588 52.381 0.00 0.00 0.00 3.20
949 1103 0.315251 TTCAGCACTCCACACTCTCG 59.685 55.000 0.00 0.00 0.00 4.04
950 1104 1.735920 CAGCACTCCACACTCTCGC 60.736 63.158 0.00 0.00 0.00 5.03
951 1105 2.433318 GCACTCCACACTCTCGCC 60.433 66.667 0.00 0.00 0.00 5.54
956 1110 2.743928 CCACACTCTCGCCAAGCC 60.744 66.667 0.00 0.00 0.00 4.35
958 1112 2.031163 ACACTCTCGCCAAGCCAC 59.969 61.111 0.00 0.00 0.00 5.01
959 1113 2.031012 CACTCTCGCCAAGCCACA 59.969 61.111 0.00 0.00 0.00 4.17
989 1145 1.227380 CGCCTCCATCTAGCACCAC 60.227 63.158 0.00 0.00 0.00 4.16
1003 1159 0.325933 CACCACTCCTCCAGCAATGA 59.674 55.000 0.00 0.00 0.00 2.57
1039 1195 4.783621 TCATCCTGCTGGCGGTGC 62.784 66.667 4.42 0.00 0.00 5.01
1180 1339 4.069232 CGGCGGTGCTGGAGAAGA 62.069 66.667 0.00 0.00 0.00 2.87
1181 1340 2.347490 GGCGGTGCTGGAGAAGAA 59.653 61.111 0.00 0.00 0.00 2.52
1375 1534 3.572447 CTGGTGCAGGCCCACATCA 62.572 63.158 13.34 10.84 37.46 3.07
1704 1863 2.385875 CGACGACGAGGACGAGGAA 61.386 63.158 0.00 0.00 42.66 3.36
1707 1866 0.392729 ACGACGAGGACGAGGAAGAT 60.393 55.000 0.00 0.00 42.66 2.40
1881 2064 3.130869 TGTTGTGCATGGATTTGGATAGC 59.869 43.478 0.00 0.00 0.00 2.97
1886 2069 3.814842 TGCATGGATTTGGATAGCTTACG 59.185 43.478 0.00 0.00 0.00 3.18
2003 2191 5.842907 AGAAAGTTTGGGCTAAAATGTGAC 58.157 37.500 0.00 0.00 0.00 3.67
2038 2231 0.953471 TGAATCAAGCCGTCGTTGGG 60.953 55.000 0.00 0.00 0.00 4.12
2108 2301 9.615295 GCCGTTATTAAGTTATCTTCTAGAGAG 57.385 37.037 0.00 0.00 37.93 3.20
2118 2311 9.914834 AGTTATCTTCTAGAGAGACTTACATGT 57.085 33.333 2.69 2.69 37.93 3.21
2122 2315 8.495361 TCTTCTAGAGAGACTTACATGTACAC 57.505 38.462 4.68 0.24 0.00 2.90
2124 2317 7.851387 TCTAGAGAGACTTACATGTACACTG 57.149 40.000 4.68 0.52 0.00 3.66
2125 2318 7.621796 TCTAGAGAGACTTACATGTACACTGA 58.378 38.462 4.68 0.00 0.00 3.41
2137 2339 5.578336 ACATGTACACTGAATGTCTGAATCG 59.422 40.000 0.00 0.00 42.09 3.34
2369 2575 3.980646 AGCTGACTGTATCGATCTGAC 57.019 47.619 0.00 0.00 0.00 3.51
2370 2576 3.550820 AGCTGACTGTATCGATCTGACT 58.449 45.455 0.00 0.00 0.00 3.41
2371 2577 4.709250 AGCTGACTGTATCGATCTGACTA 58.291 43.478 0.00 0.00 0.00 2.59
2372 2578 5.312895 AGCTGACTGTATCGATCTGACTAT 58.687 41.667 0.00 0.00 0.00 2.12
2373 2579 5.767665 AGCTGACTGTATCGATCTGACTATT 59.232 40.000 0.00 0.00 0.00 1.73
2374 2580 6.264292 AGCTGACTGTATCGATCTGACTATTT 59.736 38.462 0.00 0.00 0.00 1.40
2430 2636 8.965819 TGAGAATATCAATCTAGATAGTCCAGC 58.034 37.037 5.46 0.00 43.15 4.85
2431 2637 8.891985 AGAATATCAATCTAGATAGTCCAGCA 57.108 34.615 5.46 0.00 43.15 4.41
2449 2655 4.499183 CAGCAGGACTAGACAAACTAAGG 58.501 47.826 0.00 0.00 0.00 2.69
2510 2734 2.693074 GTGGTTGGATCCTGTGTTTGTT 59.307 45.455 14.23 0.00 0.00 2.83
2511 2735 3.132111 GTGGTTGGATCCTGTGTTTGTTT 59.868 43.478 14.23 0.00 0.00 2.83
2512 2736 3.131933 TGGTTGGATCCTGTGTTTGTTTG 59.868 43.478 14.23 0.00 0.00 2.93
2513 2737 3.132111 GGTTGGATCCTGTGTTTGTTTGT 59.868 43.478 14.23 0.00 0.00 2.83
2525 2749 5.053145 GTGTTTGTTTGTGGCCAATGAATA 58.947 37.500 7.24 0.00 0.00 1.75
2527 2751 3.567576 TGTTTGTGGCCAATGAATACG 57.432 42.857 7.24 0.00 0.00 3.06
2550 2774 2.025155 CACGGGCTAGCTCTCTTCTTA 58.975 52.381 13.91 0.00 0.00 2.10
2551 2775 2.025898 ACGGGCTAGCTCTCTTCTTAC 58.974 52.381 13.91 0.00 0.00 2.34
2581 2807 2.158943 GGGAAATAACGGCTAGCTCAGT 60.159 50.000 15.72 9.79 0.00 3.41
2625 2889 5.317733 AGCTACAGTACAGAGCTGTAAAG 57.682 43.478 11.59 9.67 46.33 1.85
2630 2894 4.021016 ACAGTACAGAGCTGTAAAGAAGGG 60.021 45.833 11.59 1.05 46.33 3.95
2634 2898 1.630878 AGAGCTGTAAAGAAGGGTGGG 59.369 52.381 0.00 0.00 0.00 4.61
2663 2927 4.532126 ACTGAATAGATGGACACACCTGAA 59.468 41.667 0.00 0.00 39.86 3.02
2664 2928 5.089970 TGAATAGATGGACACACCTGAAG 57.910 43.478 0.00 0.00 39.86 3.02
2665 2929 4.777366 TGAATAGATGGACACACCTGAAGA 59.223 41.667 0.00 0.00 39.86 2.87
2666 2930 5.105187 TGAATAGATGGACACACCTGAAGAG 60.105 44.000 0.00 0.00 39.86 2.85
2667 2931 1.905215 AGATGGACACACCTGAAGAGG 59.095 52.381 0.00 0.00 46.21 3.69
2668 2932 0.987294 ATGGACACACCTGAAGAGGG 59.013 55.000 0.00 0.00 44.84 4.30
2669 2933 1.003233 GGACACACCTGAAGAGGGC 60.003 63.158 0.00 0.00 44.84 5.19
2670 2934 1.754745 GACACACCTGAAGAGGGCA 59.245 57.895 0.00 0.00 44.84 5.36
2671 2935 0.326264 GACACACCTGAAGAGGGCAT 59.674 55.000 0.00 0.00 44.84 4.40
2672 2936 0.037303 ACACACCTGAAGAGGGCATG 59.963 55.000 0.00 0.00 44.84 4.06
2673 2937 0.037303 CACACCTGAAGAGGGCATGT 59.963 55.000 0.00 0.00 44.84 3.21
2674 2938 0.773644 ACACCTGAAGAGGGCATGTT 59.226 50.000 0.00 0.00 44.84 2.71
2675 2939 1.145738 ACACCTGAAGAGGGCATGTTT 59.854 47.619 0.00 0.00 44.84 2.83
2676 2940 2.242043 CACCTGAAGAGGGCATGTTTT 58.758 47.619 0.00 0.00 44.84 2.43
2677 2941 2.229784 CACCTGAAGAGGGCATGTTTTC 59.770 50.000 0.00 0.00 44.84 2.29
2678 2942 1.821136 CCTGAAGAGGGCATGTTTTCC 59.179 52.381 0.00 0.00 35.40 3.13
2679 2943 2.556114 CCTGAAGAGGGCATGTTTTCCT 60.556 50.000 0.00 0.00 35.40 3.36
2680 2944 3.160269 CTGAAGAGGGCATGTTTTCCTT 58.840 45.455 0.00 0.00 0.00 3.36
2681 2945 4.335416 CTGAAGAGGGCATGTTTTCCTTA 58.665 43.478 0.00 0.00 0.00 2.69
2682 2946 4.735369 TGAAGAGGGCATGTTTTCCTTAA 58.265 39.130 0.00 0.00 0.00 1.85
2683 2947 5.144100 TGAAGAGGGCATGTTTTCCTTAAA 58.856 37.500 0.00 0.00 0.00 1.52
2684 2948 5.600484 TGAAGAGGGCATGTTTTCCTTAAAA 59.400 36.000 0.00 0.00 32.15 1.52
2685 2949 6.098982 TGAAGAGGGCATGTTTTCCTTAAAAA 59.901 34.615 0.00 0.00 36.37 1.94
2735 2999 6.481434 GTACAATGGTACTATCTTGGGAGT 57.519 41.667 2.90 0.00 45.19 3.85
2736 3000 5.359194 ACAATGGTACTATCTTGGGAGTG 57.641 43.478 0.00 0.00 0.00 3.51
2737 3001 5.030147 ACAATGGTACTATCTTGGGAGTGA 58.970 41.667 0.00 0.00 0.00 3.41
2738 3002 5.104900 ACAATGGTACTATCTTGGGAGTGAC 60.105 44.000 0.00 0.00 0.00 3.67
2739 3003 4.055710 TGGTACTATCTTGGGAGTGACA 57.944 45.455 0.00 0.00 0.00 3.58
2740 3004 3.767673 TGGTACTATCTTGGGAGTGACAC 59.232 47.826 0.00 0.00 0.00 3.67
2741 3005 3.767673 GGTACTATCTTGGGAGTGACACA 59.232 47.826 8.59 0.00 0.00 3.72
2742 3006 3.963428 ACTATCTTGGGAGTGACACAC 57.037 47.619 8.59 0.69 34.10 3.82
2743 3007 3.239449 ACTATCTTGGGAGTGACACACA 58.761 45.455 8.59 0.91 36.74 3.72
2744 3008 2.847327 ATCTTGGGAGTGACACACAG 57.153 50.000 8.59 0.00 36.74 3.66
2745 3009 0.758734 TCTTGGGAGTGACACACAGG 59.241 55.000 8.59 4.73 36.74 4.00
2746 3010 0.250467 CTTGGGAGTGACACACAGGG 60.250 60.000 8.59 0.00 36.74 4.45
2747 3011 0.692756 TTGGGAGTGACACACAGGGA 60.693 55.000 8.59 0.00 36.74 4.20
2748 3012 0.692756 TGGGAGTGACACACAGGGAA 60.693 55.000 8.59 0.00 36.74 3.97
2749 3013 0.472471 GGGAGTGACACACAGGGAAA 59.528 55.000 8.59 0.00 36.74 3.13
2750 3014 1.133915 GGGAGTGACACACAGGGAAAA 60.134 52.381 8.59 0.00 36.74 2.29
2751 3015 2.489073 GGGAGTGACACACAGGGAAAAT 60.489 50.000 8.59 0.00 36.74 1.82
2752 3016 3.244770 GGGAGTGACACACAGGGAAAATA 60.245 47.826 8.59 0.00 36.74 1.40
2753 3017 4.567747 GGGAGTGACACACAGGGAAAATAT 60.568 45.833 8.59 0.00 36.74 1.28
2754 3018 5.010282 GGAGTGACACACAGGGAAAATATT 58.990 41.667 8.59 0.00 36.74 1.28
2755 3019 5.106157 GGAGTGACACACAGGGAAAATATTG 60.106 44.000 8.59 0.00 36.74 1.90
2756 3020 5.630121 AGTGACACACAGGGAAAATATTGA 58.370 37.500 8.59 0.00 36.74 2.57
2757 3021 5.707298 AGTGACACACAGGGAAAATATTGAG 59.293 40.000 8.59 0.00 36.74 3.02
2758 3022 5.009631 TGACACACAGGGAAAATATTGAGG 58.990 41.667 0.00 0.00 0.00 3.86
2759 3023 4.998051 ACACACAGGGAAAATATTGAGGT 58.002 39.130 0.00 0.00 0.00 3.85
2760 3024 4.766891 ACACACAGGGAAAATATTGAGGTG 59.233 41.667 0.00 0.00 0.00 4.00
2761 3025 4.158394 CACACAGGGAAAATATTGAGGTGG 59.842 45.833 0.00 0.00 0.00 4.61
2762 3026 4.044065 ACACAGGGAAAATATTGAGGTGGA 59.956 41.667 0.00 0.00 0.00 4.02
2763 3027 4.641989 CACAGGGAAAATATTGAGGTGGAG 59.358 45.833 0.00 0.00 0.00 3.86
2764 3028 4.540099 ACAGGGAAAATATTGAGGTGGAGA 59.460 41.667 0.00 0.00 0.00 3.71
2765 3029 5.015178 ACAGGGAAAATATTGAGGTGGAGAA 59.985 40.000 0.00 0.00 0.00 2.87
2766 3030 5.591877 CAGGGAAAATATTGAGGTGGAGAAG 59.408 44.000 0.00 0.00 0.00 2.85
2767 3031 5.492524 AGGGAAAATATTGAGGTGGAGAAGA 59.507 40.000 0.00 0.00 0.00 2.87
2768 3032 5.825151 GGGAAAATATTGAGGTGGAGAAGAG 59.175 44.000 0.00 0.00 0.00 2.85
2769 3033 6.353082 GGGAAAATATTGAGGTGGAGAAGAGA 60.353 42.308 0.00 0.00 0.00 3.10
2770 3034 6.765512 GGAAAATATTGAGGTGGAGAAGAGAG 59.234 42.308 0.00 0.00 0.00 3.20
2771 3035 7.365117 GGAAAATATTGAGGTGGAGAAGAGAGA 60.365 40.741 0.00 0.00 0.00 3.10
2772 3036 7.502060 AAATATTGAGGTGGAGAAGAGAGAA 57.498 36.000 0.00 0.00 0.00 2.87
2773 3037 7.502060 AATATTGAGGTGGAGAAGAGAGAAA 57.498 36.000 0.00 0.00 0.00 2.52
2774 3038 7.688918 ATATTGAGGTGGAGAAGAGAGAAAT 57.311 36.000 0.00 0.00 0.00 2.17
2775 3039 5.413309 TTGAGGTGGAGAAGAGAGAAATC 57.587 43.478 0.00 0.00 0.00 2.17
2776 3040 4.420206 TGAGGTGGAGAAGAGAGAAATCA 58.580 43.478 0.00 0.00 0.00 2.57
2777 3041 5.028802 TGAGGTGGAGAAGAGAGAAATCAT 58.971 41.667 0.00 0.00 0.00 2.45
2778 3042 6.197903 TGAGGTGGAGAAGAGAGAAATCATA 58.802 40.000 0.00 0.00 0.00 2.15
2779 3043 6.669591 TGAGGTGGAGAAGAGAGAAATCATAA 59.330 38.462 0.00 0.00 0.00 1.90
2780 3044 7.123355 AGGTGGAGAAGAGAGAAATCATAAG 57.877 40.000 0.00 0.00 0.00 1.73
2781 3045 6.900186 AGGTGGAGAAGAGAGAAATCATAAGA 59.100 38.462 0.00 0.00 0.00 2.10
2782 3046 7.401493 AGGTGGAGAAGAGAGAAATCATAAGAA 59.599 37.037 0.00 0.00 0.00 2.52
2783 3047 8.043710 GGTGGAGAAGAGAGAAATCATAAGAAA 58.956 37.037 0.00 0.00 0.00 2.52
2784 3048 9.442047 GTGGAGAAGAGAGAAATCATAAGAAAA 57.558 33.333 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 5.836821 AGAAAAGACACAAAAAGAGACCC 57.163 39.130 0.00 0.00 0.00 4.46
36 37 7.027161 CGGAAAAGAAAAGACACAAAAAGAGA 58.973 34.615 0.00 0.00 0.00 3.10
233 272 2.897350 GAAATCGCCAGCGGAGGG 60.897 66.667 12.71 0.00 40.25 4.30
270 313 2.472695 TGTTTGCGGTCTCTTGCTAT 57.527 45.000 0.00 0.00 0.00 2.97
274 317 3.667960 GCTAACATGTTTGCGGTCTCTTG 60.668 47.826 25.20 0.00 32.39 3.02
283 326 4.142403 TGCTCCTATTGCTAACATGTTTGC 60.142 41.667 30.16 30.16 40.73 3.68
302 345 3.126225 GGACTGCTGCTGCTGCTC 61.126 66.667 27.67 19.03 41.07 4.26
326 372 3.008266 TCACATGGATCACACTGTGTCAT 59.992 43.478 11.12 3.07 38.55 3.06
356 402 1.681666 CAGGTGCAGGGATCACACT 59.318 57.895 0.00 0.00 36.22 3.55
357 403 2.042831 GCAGGTGCAGGGATCACAC 61.043 63.158 0.00 0.00 41.59 3.82
358 404 2.352422 GCAGGTGCAGGGATCACA 59.648 61.111 0.00 0.00 41.59 3.58
371 417 4.729918 AAAGAGGGCCGCTGCAGG 62.730 66.667 17.12 0.81 40.13 4.85
381 427 1.375523 CGTTCGGGGTGAAAGAGGG 60.376 63.158 0.00 0.00 38.19 4.30
398 444 1.469703 TGGCATGTGAAGAAATGCTCG 59.530 47.619 7.49 0.00 46.72 5.03
492 568 0.108804 CAATCTGCTGCAGCCTTTGG 60.109 55.000 34.64 18.03 41.18 3.28
493 569 0.108804 CCAATCTGCTGCAGCCTTTG 60.109 55.000 34.64 29.53 41.18 2.77
494 570 0.251474 TCCAATCTGCTGCAGCCTTT 60.251 50.000 34.64 21.75 41.18 3.11
495 571 0.033405 ATCCAATCTGCTGCAGCCTT 60.033 50.000 34.64 21.95 41.18 4.35
496 572 0.033405 AATCCAATCTGCTGCAGCCT 60.033 50.000 34.64 17.34 41.18 4.58
497 573 0.384669 GAATCCAATCTGCTGCAGCC 59.615 55.000 34.64 17.82 41.18 4.85
538 614 6.020971 AGGTAAGCGAACCAATTTAAAAGG 57.979 37.500 12.33 8.15 42.40 3.11
564 676 5.584251 GCTTCAAGTTGATCCTCTCTTTAGG 59.416 44.000 6.36 0.00 38.06 2.69
574 686 3.626670 CCAGATGAGCTTCAAGTTGATCC 59.373 47.826 6.36 0.85 0.00 3.36
633 745 7.465379 GCGACTTTGGCAAGTAAATTTCTTTTT 60.465 33.333 0.00 0.00 43.79 1.94
634 746 6.019075 GCGACTTTGGCAAGTAAATTTCTTTT 60.019 34.615 0.00 0.00 43.79 2.27
635 747 5.462068 GCGACTTTGGCAAGTAAATTTCTTT 59.538 36.000 0.00 0.00 43.79 2.52
636 748 4.982295 GCGACTTTGGCAAGTAAATTTCTT 59.018 37.500 0.00 0.00 43.79 2.52
637 749 4.278419 AGCGACTTTGGCAAGTAAATTTCT 59.722 37.500 0.00 0.00 43.79 2.52
638 750 4.546570 AGCGACTTTGGCAAGTAAATTTC 58.453 39.130 0.00 0.00 43.79 2.17
639 751 4.278419 AGAGCGACTTTGGCAAGTAAATTT 59.722 37.500 0.00 0.00 43.79 1.82
640 752 3.821033 AGAGCGACTTTGGCAAGTAAATT 59.179 39.130 0.00 0.00 43.79 1.82
641 753 3.189287 CAGAGCGACTTTGGCAAGTAAAT 59.811 43.478 0.00 0.00 43.79 1.40
642 754 2.548057 CAGAGCGACTTTGGCAAGTAAA 59.452 45.455 0.00 0.00 43.79 2.01
643 755 2.143122 CAGAGCGACTTTGGCAAGTAA 58.857 47.619 0.00 0.00 43.79 2.24
644 756 1.795768 CAGAGCGACTTTGGCAAGTA 58.204 50.000 0.00 0.00 43.79 2.24
645 757 1.510480 GCAGAGCGACTTTGGCAAGT 61.510 55.000 0.00 0.77 46.64 3.16
646 758 1.208614 GCAGAGCGACTTTGGCAAG 59.791 57.895 0.00 0.00 35.92 4.01
653 765 1.719600 GTTCAGATGCAGAGCGACTT 58.280 50.000 0.00 0.00 0.00 3.01
659 771 2.284684 GCAGAATCGTTCAGATGCAGAG 59.715 50.000 0.00 0.00 40.02 3.35
669 781 0.373024 GCTCAGCTGCAGAATCGTTC 59.627 55.000 20.43 0.00 0.00 3.95
705 822 6.367422 GCGATCCTGAGATTAATTAACCAGAG 59.633 42.308 18.29 11.95 30.90 3.35
714 831 2.868044 GCCGTGCGATCCTGAGATTAAT 60.868 50.000 0.00 0.00 30.90 1.40
722 854 3.197790 CTTGGCCGTGCGATCCTG 61.198 66.667 0.00 0.00 0.00 3.86
739 871 2.025321 TGGGGAGAAGATTAAGGCCAAC 60.025 50.000 5.01 0.00 0.00 3.77
807 946 3.040147 AGTTAGTGTTGACCATGACCG 57.960 47.619 0.00 0.00 0.00 4.79
808 947 3.933332 GCTAGTTAGTGTTGACCATGACC 59.067 47.826 0.00 0.00 0.00 4.02
809 948 3.933332 GGCTAGTTAGTGTTGACCATGAC 59.067 47.826 0.00 0.00 0.00 3.06
810 949 3.580895 TGGCTAGTTAGTGTTGACCATGA 59.419 43.478 0.00 0.00 0.00 3.07
811 950 3.935203 CTGGCTAGTTAGTGTTGACCATG 59.065 47.826 0.00 0.00 0.00 3.66
812 951 3.583086 ACTGGCTAGTTAGTGTTGACCAT 59.417 43.478 0.00 0.00 31.66 3.55
813 952 2.969950 ACTGGCTAGTTAGTGTTGACCA 59.030 45.455 0.00 0.00 31.66 4.02
814 953 3.586892 GACTGGCTAGTTAGTGTTGACC 58.413 50.000 3.47 0.00 37.25 4.02
815 954 3.586892 GGACTGGCTAGTTAGTGTTGAC 58.413 50.000 3.47 0.00 37.25 3.18
827 966 1.117150 GGATGGTAACGGACTGGCTA 58.883 55.000 0.00 0.00 42.51 3.93
836 981 0.468648 GGGAAGGGAGGATGGTAACG 59.531 60.000 0.00 0.00 42.51 3.18
846 991 1.753368 GAGGCGAGATGGGAAGGGAG 61.753 65.000 0.00 0.00 0.00 4.30
868 1013 1.222936 GGATGGAGCTGTGTGAGGG 59.777 63.158 0.00 0.00 0.00 4.30
869 1014 1.222936 GGGATGGAGCTGTGTGAGG 59.777 63.158 0.00 0.00 0.00 3.86
870 1015 1.222936 GGGGATGGAGCTGTGTGAG 59.777 63.158 0.00 0.00 0.00 3.51
871 1016 0.915872 ATGGGGATGGAGCTGTGTGA 60.916 55.000 0.00 0.00 0.00 3.58
884 1029 1.701024 CTGGGGATTGGGATGGGGA 60.701 63.158 0.00 0.00 0.00 4.81
885 1030 1.593166 AACTGGGGATTGGGATGGGG 61.593 60.000 0.00 0.00 0.00 4.96
886 1031 1.231018 TAACTGGGGATTGGGATGGG 58.769 55.000 0.00 0.00 0.00 4.00
894 1048 7.462328 AGGTGATGTGATATATAACTGGGGATT 59.538 37.037 1.81 0.00 0.00 3.01
941 1095 2.031163 GTGGCTTGGCGAGAGTGT 59.969 61.111 5.76 0.00 0.00 3.55
943 1097 2.031163 GTGTGGCTTGGCGAGAGT 59.969 61.111 5.76 0.00 0.00 3.24
944 1098 2.031012 TGTGTGGCTTGGCGAGAG 59.969 61.111 5.76 0.00 0.00 3.20
945 1099 2.031012 CTGTGTGGCTTGGCGAGA 59.969 61.111 5.76 0.00 0.00 4.04
946 1100 3.730761 GCTGTGTGGCTTGGCGAG 61.731 66.667 0.00 0.00 0.00 5.03
949 1103 3.677648 CTGGCTGTGTGGCTTGGC 61.678 66.667 0.00 0.00 42.34 4.52
950 1104 3.677648 GCTGGCTGTGTGGCTTGG 61.678 66.667 0.00 0.00 42.34 3.61
951 1105 3.677648 GGCTGGCTGTGTGGCTTG 61.678 66.667 0.00 0.00 42.34 4.01
964 1120 2.712325 CTAGATGGAGGCGCTGGCTG 62.712 65.000 7.64 0.00 38.98 4.85
972 1128 0.105778 GAGTGGTGCTAGATGGAGGC 59.894 60.000 0.00 0.00 0.00 4.70
977 1133 1.411977 CTGGAGGAGTGGTGCTAGATG 59.588 57.143 0.00 0.00 0.00 2.90
989 1145 0.803768 CGACGTCATTGCTGGAGGAG 60.804 60.000 17.16 0.00 0.00 3.69
1003 1159 3.063084 GGCTCTCCTGGACGACGT 61.063 66.667 0.00 0.00 0.00 4.34
1180 1339 0.181824 AACTTGGTGTACTGCCCGTT 59.818 50.000 0.00 1.10 0.00 4.44
1181 1340 0.250166 GAACTTGGTGTACTGCCCGT 60.250 55.000 0.00 0.00 0.00 5.28
1375 1534 2.412591 CATGGAGTAGAAGGTGGGGAT 58.587 52.381 0.00 0.00 0.00 3.85
1746 1905 3.474570 GCGACCAGGCTCCTCCAT 61.475 66.667 0.00 0.00 37.29 3.41
1881 2064 3.056749 AGCCACCAAGAACTACTCGTAAG 60.057 47.826 0.00 0.00 0.00 2.34
1886 2069 1.002544 AGCAGCCACCAAGAACTACTC 59.997 52.381 0.00 0.00 0.00 2.59
2003 2191 6.345250 GCTTGATTCAACAGTGAAACATTTCG 60.345 38.462 0.00 0.00 46.66 3.46
2038 2231 7.539712 TGCAGTGCTAGTAGAATTTAATCAC 57.460 36.000 17.60 0.00 0.00 3.06
2104 2297 7.316640 ACATTCAGTGTACATGTAAGTCTCTC 58.683 38.462 7.25 0.00 39.91 3.20
2106 2299 7.274468 CAGACATTCAGTGTACATGTAAGTCTC 59.726 40.741 7.25 0.00 42.36 3.36
2108 2301 7.090808 TCAGACATTCAGTGTACATGTAAGTC 58.909 38.462 7.25 4.19 42.36 3.01
2109 2302 6.993079 TCAGACATTCAGTGTACATGTAAGT 58.007 36.000 7.25 0.00 42.36 2.24
2111 2304 7.275560 CGATTCAGACATTCAGTGTACATGTAA 59.724 37.037 7.25 0.00 42.36 2.41
2113 2306 5.578336 CGATTCAGACATTCAGTGTACATGT 59.422 40.000 2.69 2.69 42.36 3.21
2114 2307 5.006068 CCGATTCAGACATTCAGTGTACATG 59.994 44.000 0.00 0.00 42.36 3.21
2115 2308 5.111989 CCGATTCAGACATTCAGTGTACAT 58.888 41.667 0.00 0.00 42.36 2.29
2116 2309 4.494484 CCGATTCAGACATTCAGTGTACA 58.506 43.478 0.00 0.00 42.36 2.90
2117 2310 3.865745 CCCGATTCAGACATTCAGTGTAC 59.134 47.826 0.00 0.00 42.36 2.90
2118 2311 3.513912 ACCCGATTCAGACATTCAGTGTA 59.486 43.478 0.00 0.00 42.36 2.90
2119 2312 2.303022 ACCCGATTCAGACATTCAGTGT 59.697 45.455 0.00 0.00 45.83 3.55
2120 2313 2.977914 ACCCGATTCAGACATTCAGTG 58.022 47.619 0.00 0.00 0.00 3.66
2121 2314 3.244561 ACAACCCGATTCAGACATTCAGT 60.245 43.478 0.00 0.00 0.00 3.41
2122 2315 3.338249 ACAACCCGATTCAGACATTCAG 58.662 45.455 0.00 0.00 0.00 3.02
2124 2317 2.348666 CGACAACCCGATTCAGACATTC 59.651 50.000 0.00 0.00 0.00 2.67
2125 2318 2.346803 CGACAACCCGATTCAGACATT 58.653 47.619 0.00 0.00 0.00 2.71
2137 2339 0.382873 GTTTTCACCACCGACAACCC 59.617 55.000 0.00 0.00 0.00 4.11
2199 2401 5.703130 AGATCTACTTGTGGCTTCACTTTTC 59.297 40.000 0.00 0.00 41.73 2.29
2248 2450 3.575256 AGCAGCACCAAATCTCATTTTCA 59.425 39.130 0.00 0.00 0.00 2.69
2288 2494 4.963628 ACCAAGTTGCCCTAAAAAGGTTTA 59.036 37.500 0.00 0.00 0.00 2.01
2293 2499 3.383185 TGACACCAAGTTGCCCTAAAAAG 59.617 43.478 0.00 0.00 0.00 2.27
2329 2535 1.959042 ACTGACACCAAGTTGCTCTG 58.041 50.000 0.00 0.00 0.00 3.35
2404 2610 8.965819 GCTGGACTATCTAGATTGATATTCTCA 58.034 37.037 19.21 7.12 32.58 3.27
2405 2611 8.965819 TGCTGGACTATCTAGATTGATATTCTC 58.034 37.037 19.21 6.46 32.58 2.87
2406 2612 8.891985 TGCTGGACTATCTAGATTGATATTCT 57.108 34.615 19.21 0.00 32.58 2.40
2407 2613 8.196771 CCTGCTGGACTATCTAGATTGATATTC 58.803 40.741 19.21 7.39 34.57 1.75
2408 2614 7.898100 TCCTGCTGGACTATCTAGATTGATATT 59.102 37.037 19.21 0.00 37.46 1.28
2409 2615 7.417554 TCCTGCTGGACTATCTAGATTGATAT 58.582 38.462 19.21 0.00 37.46 1.63
2410 2616 6.794534 TCCTGCTGGACTATCTAGATTGATA 58.205 40.000 19.21 5.67 37.46 2.15
2411 2617 5.649265 TCCTGCTGGACTATCTAGATTGAT 58.351 41.667 19.21 5.33 37.46 2.57
2412 2618 5.066913 TCCTGCTGGACTATCTAGATTGA 57.933 43.478 19.21 0.00 37.46 2.57
2425 2631 2.609747 AGTTTGTCTAGTCCTGCTGGA 58.390 47.619 8.48 8.48 40.69 3.86
2426 2632 4.499183 CTTAGTTTGTCTAGTCCTGCTGG 58.501 47.826 2.58 2.58 0.00 4.85
2427 2633 4.021016 ACCTTAGTTTGTCTAGTCCTGCTG 60.021 45.833 0.00 0.00 0.00 4.41
2428 2634 4.021016 CACCTTAGTTTGTCTAGTCCTGCT 60.021 45.833 0.00 0.00 0.00 4.24
2429 2635 4.246458 CACCTTAGTTTGTCTAGTCCTGC 58.754 47.826 0.00 0.00 0.00 4.85
2430 2636 4.527038 TCCACCTTAGTTTGTCTAGTCCTG 59.473 45.833 0.00 0.00 0.00 3.86
2431 2637 4.748701 TCCACCTTAGTTTGTCTAGTCCT 58.251 43.478 0.00 0.00 0.00 3.85
2437 2643 5.544176 TCTTCTGATCCACCTTAGTTTGTCT 59.456 40.000 0.00 0.00 0.00 3.41
2449 2655 2.295885 CAAGCCCATCTTCTGATCCAC 58.704 52.381 0.00 0.00 31.27 4.02
2510 2734 3.376859 GTGATCGTATTCATTGGCCACAA 59.623 43.478 3.88 0.00 41.59 3.33
2511 2735 2.942376 GTGATCGTATTCATTGGCCACA 59.058 45.455 3.88 0.00 0.00 4.17
2512 2736 2.032894 CGTGATCGTATTCATTGGCCAC 60.033 50.000 3.88 0.00 0.00 5.01
2513 2737 2.209273 CGTGATCGTATTCATTGGCCA 58.791 47.619 0.00 0.00 0.00 5.36
2525 2749 1.448922 GAGAGCTAGCCCGTGATCGT 61.449 60.000 12.13 0.00 35.01 3.73
2527 2751 1.000717 GAAGAGAGCTAGCCCGTGATC 60.001 57.143 12.13 0.60 0.00 2.92
2560 2786 2.158943 ACTGAGCTAGCCGTTATTTCCC 60.159 50.000 12.13 0.00 0.00 3.97
2562 2788 3.782046 TGACTGAGCTAGCCGTTATTTC 58.218 45.455 12.13 0.53 0.00 2.17
2565 2791 1.683917 CCTGACTGAGCTAGCCGTTAT 59.316 52.381 12.13 0.00 0.00 1.89
2566 2792 1.103803 CCTGACTGAGCTAGCCGTTA 58.896 55.000 12.13 2.52 0.00 3.18
2568 2794 2.716017 GCCTGACTGAGCTAGCCGT 61.716 63.158 12.13 6.35 0.00 5.68
2569 2795 2.105930 GCCTGACTGAGCTAGCCG 59.894 66.667 12.13 2.69 0.00 5.52
2581 2807 2.170607 GCATTTACACTAGGAGGCCTGA 59.829 50.000 12.00 0.00 34.61 3.86
2623 2887 4.018195 TGGAAGCCCACCCTTCTT 57.982 55.556 2.42 0.00 40.76 2.52
2634 2898 3.873952 GTGTCCATCTATTCAGTGGAAGC 59.126 47.826 0.00 0.00 43.19 3.86
2643 2907 5.344743 TCTTCAGGTGTGTCCATCTATTC 57.655 43.478 0.00 0.00 39.02 1.75
2650 2914 1.768684 GCCCTCTTCAGGTGTGTCCA 61.769 60.000 0.00 0.00 38.30 4.02
2712 2976 6.097839 TCACTCCCAAGATAGTACCATTGTAC 59.902 42.308 0.00 0.00 46.36 2.90
2713 2977 6.097839 GTCACTCCCAAGATAGTACCATTGTA 59.902 42.308 0.00 0.00 0.00 2.41
2714 2978 5.030147 TCACTCCCAAGATAGTACCATTGT 58.970 41.667 0.00 0.00 0.00 2.71
2715 2979 5.104941 TGTCACTCCCAAGATAGTACCATTG 60.105 44.000 0.00 0.00 0.00 2.82
2716 2980 5.030147 TGTCACTCCCAAGATAGTACCATT 58.970 41.667 0.00 0.00 0.00 3.16
2717 2981 4.406003 GTGTCACTCCCAAGATAGTACCAT 59.594 45.833 0.00 0.00 0.00 3.55
2718 2982 3.767673 GTGTCACTCCCAAGATAGTACCA 59.232 47.826 0.00 0.00 0.00 3.25
2719 2983 3.767673 TGTGTCACTCCCAAGATAGTACC 59.232 47.826 4.27 0.00 0.00 3.34
2720 2984 4.219944 TGTGTGTCACTCCCAAGATAGTAC 59.780 45.833 4.27 0.00 35.11 2.73
2721 2985 4.412843 TGTGTGTCACTCCCAAGATAGTA 58.587 43.478 4.27 0.00 35.11 1.82
2722 2986 3.239449 TGTGTGTCACTCCCAAGATAGT 58.761 45.455 4.27 0.00 35.11 2.12
2723 2987 3.368843 CCTGTGTGTCACTCCCAAGATAG 60.369 52.174 4.27 0.00 35.11 2.08
2724 2988 2.567169 CCTGTGTGTCACTCCCAAGATA 59.433 50.000 4.27 0.00 35.11 1.98
2725 2989 1.349026 CCTGTGTGTCACTCCCAAGAT 59.651 52.381 4.27 0.00 35.11 2.40
2726 2990 0.758734 CCTGTGTGTCACTCCCAAGA 59.241 55.000 4.27 0.00 35.11 3.02
2727 2991 0.250467 CCCTGTGTGTCACTCCCAAG 60.250 60.000 4.27 0.00 35.11 3.61
2728 2992 0.692756 TCCCTGTGTGTCACTCCCAA 60.693 55.000 4.27 0.00 35.11 4.12
2729 2993 0.692756 TTCCCTGTGTGTCACTCCCA 60.693 55.000 4.27 0.00 35.11 4.37
2730 2994 0.472471 TTTCCCTGTGTGTCACTCCC 59.528 55.000 4.27 0.00 35.11 4.30
2731 2995 2.341846 TTTTCCCTGTGTGTCACTCC 57.658 50.000 4.27 0.00 35.11 3.85
2732 2996 5.705441 TCAATATTTTCCCTGTGTGTCACTC 59.295 40.000 4.27 0.91 35.11 3.51
2733 2997 5.630121 TCAATATTTTCCCTGTGTGTCACT 58.370 37.500 4.27 0.00 35.11 3.41
2734 2998 5.106157 CCTCAATATTTTCCCTGTGTGTCAC 60.106 44.000 0.00 0.00 34.56 3.67
2735 2999 5.009631 CCTCAATATTTTCCCTGTGTGTCA 58.990 41.667 0.00 0.00 0.00 3.58
2736 3000 5.010282 ACCTCAATATTTTCCCTGTGTGTC 58.990 41.667 0.00 0.00 0.00 3.67
2737 3001 4.766891 CACCTCAATATTTTCCCTGTGTGT 59.233 41.667 0.00 0.00 0.00 3.72
2738 3002 4.158394 CCACCTCAATATTTTCCCTGTGTG 59.842 45.833 0.00 0.00 0.00 3.82
2739 3003 4.044065 TCCACCTCAATATTTTCCCTGTGT 59.956 41.667 0.00 0.00 0.00 3.72
2740 3004 4.599041 TCCACCTCAATATTTTCCCTGTG 58.401 43.478 0.00 0.00 0.00 3.66
2741 3005 4.540099 TCTCCACCTCAATATTTTCCCTGT 59.460 41.667 0.00 0.00 0.00 4.00
2742 3006 5.116084 TCTCCACCTCAATATTTTCCCTG 57.884 43.478 0.00 0.00 0.00 4.45
2743 3007 5.492524 TCTTCTCCACCTCAATATTTTCCCT 59.507 40.000 0.00 0.00 0.00 4.20
2744 3008 5.755849 TCTTCTCCACCTCAATATTTTCCC 58.244 41.667 0.00 0.00 0.00 3.97
2745 3009 6.653989 TCTCTTCTCCACCTCAATATTTTCC 58.346 40.000 0.00 0.00 0.00 3.13
2746 3010 7.560368 TCTCTCTTCTCCACCTCAATATTTTC 58.440 38.462 0.00 0.00 0.00 2.29
2747 3011 7.502060 TCTCTCTTCTCCACCTCAATATTTT 57.498 36.000 0.00 0.00 0.00 1.82
2748 3012 7.502060 TTCTCTCTTCTCCACCTCAATATTT 57.498 36.000 0.00 0.00 0.00 1.40
2749 3013 7.502060 TTTCTCTCTTCTCCACCTCAATATT 57.498 36.000 0.00 0.00 0.00 1.28
2750 3014 7.346698 TGATTTCTCTCTTCTCCACCTCAATAT 59.653 37.037 0.00 0.00 0.00 1.28
2751 3015 6.669591 TGATTTCTCTCTTCTCCACCTCAATA 59.330 38.462 0.00 0.00 0.00 1.90
2752 3016 5.486775 TGATTTCTCTCTTCTCCACCTCAAT 59.513 40.000 0.00 0.00 0.00 2.57
2753 3017 4.840680 TGATTTCTCTCTTCTCCACCTCAA 59.159 41.667 0.00 0.00 0.00 3.02
2754 3018 4.420206 TGATTTCTCTCTTCTCCACCTCA 58.580 43.478 0.00 0.00 0.00 3.86
2755 3019 5.612725 ATGATTTCTCTCTTCTCCACCTC 57.387 43.478 0.00 0.00 0.00 3.85
2756 3020 6.900186 TCTTATGATTTCTCTCTTCTCCACCT 59.100 38.462 0.00 0.00 0.00 4.00
2757 3021 7.118496 TCTTATGATTTCTCTCTTCTCCACC 57.882 40.000 0.00 0.00 0.00 4.61
2758 3022 9.442047 TTTTCTTATGATTTCTCTCTTCTCCAC 57.558 33.333 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.