Multiple sequence alignment - TraesCS4D01G296200

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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 TraesCS4D01G296200 chr4D 100.000 3758 0 0 1 3758 465761991 465758234 0.000000e+00 6940.0
1 TraesCS4D01G296200 chr4D 92.803 264 17 2 3496 3758 472923970 472924232 7.620000e-102 381.0
2 TraesCS4D01G296200 chr4D 87.755 196 18 3 2797 2990 472923434 472923625 1.360000e-54 224.0
3 TraesCS4D01G296200 chr4D 92.079 101 8 0 2985 3085 472923651 472923751 3.910000e-30 143.0
4 TraesCS4D01G296200 chr4B 88.206 2001 138 55 1 1933 582828469 582826499 0.000000e+00 2298.0
5 TraesCS4D01G296200 chr4B 93.054 1123 47 11 1981 3076 582826483 582825365 0.000000e+00 1613.0
6 TraesCS4D01G296200 chr4B 92.549 255 17 2 3505 3758 595270119 595270372 7.670000e-97 364.0
7 TraesCS4D01G296200 chr4B 83.904 292 36 9 3209 3495 595269701 595269986 6.190000e-68 268.0
8 TraesCS4D01G296200 chr4B 86.735 196 20 3 2797 2990 595269381 595269572 2.940000e-51 213.0
9 TraesCS4D01G296200 chr4B 94.074 135 6 1 3083 3215 406463700 406463834 1.770000e-48 204.0
10 TraesCS4D01G296200 chr4A 89.510 1144 49 17 1974 3085 4820613 4821717 0.000000e+00 1382.0
11 TraesCS4D01G296200 chr4A 91.480 939 52 21 1 931 4796940 4797858 0.000000e+00 1266.0
12 TraesCS4D01G296200 chr4A 92.462 650 31 8 1085 1720 4818058 4818703 0.000000e+00 913.0
13 TraesCS4D01G296200 chr4A 95.985 548 17 3 3212 3758 4821721 4822264 0.000000e+00 885.0
14 TraesCS4D01G296200 chr4A 92.664 259 15 4 3502 3758 679973317 679973573 1.650000e-98 370.0
15 TraesCS4D01G296200 chr1D 85.763 295 37 4 1110 1399 204024059 204024353 1.310000e-79 307.0
16 TraesCS4D01G296200 chr1D 93.793 145 4 5 3078 3218 112352026 112352169 2.940000e-51 213.0
17 TraesCS4D01G296200 chr1D 89.474 133 14 0 2010 2142 204027454 204027586 6.460000e-38 169.0
18 TraesCS4D01G296200 chr1A 85.085 295 39 4 1110 1399 259049416 259049710 2.840000e-76 296.0
19 TraesCS4D01G296200 chr1A 89.474 133 14 0 2010 2142 259050637 259050769 6.460000e-38 169.0
20 TraesCS4D01G296200 chr2D 93.617 141 5 2 3082 3218 476697537 476697677 1.370000e-49 207.0
21 TraesCS4D01G296200 chr2D 90.728 151 7 4 3074 3218 101884260 101884111 1.070000e-45 195.0
22 TraesCS4D01G296200 chr5D 93.525 139 5 2 3084 3218 410592126 410591988 1.770000e-48 204.0
23 TraesCS4D01G296200 chr5D 92.806 139 7 2 3083 3218 348748472 348748610 8.230000e-47 198.0
24 TraesCS4D01G296200 chr7D 91.781 146 7 5 3078 3218 452688199 452688054 8.230000e-47 198.0
25 TraesCS4D01G296200 chr7D 92.593 135 8 1 3083 3215 586882460 586882594 3.830000e-45 193.0
26 TraesCS4D01G296200 chr3B 91.216 148 8 4 3076 3218 335839122 335839269 2.960000e-46 196.0
27 TraesCS4D01G296200 chr1B 89.844 128 13 0 2010 2137 299439599 299439726 8.350000e-37 165.0
28 TraesCS4D01G296200 chr5B 82.927 82 12 2 3254 3334 692479483 692479403 5.210000e-09 73.1


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 TraesCS4D01G296200 chr4D 465758234 465761991 3757 True 6940.000000 6940 100.000000 1 3758 1 chr4D.!!$R1 3757
1 TraesCS4D01G296200 chr4D 472923434 472924232 798 False 249.333333 381 90.879000 2797 3758 3 chr4D.!!$F1 961
2 TraesCS4D01G296200 chr4B 582825365 582828469 3104 True 1955.500000 2298 90.630000 1 3076 2 chr4B.!!$R1 3075
3 TraesCS4D01G296200 chr4B 595269381 595270372 991 False 281.666667 364 87.729333 2797 3758 3 chr4B.!!$F2 961
4 TraesCS4D01G296200 chr4A 4796940 4797858 918 False 1266.000000 1266 91.480000 1 931 1 chr4A.!!$F1 930
5 TraesCS4D01G296200 chr4A 4818058 4822264 4206 False 1060.000000 1382 92.652333 1085 3758 3 chr4A.!!$F3 2673
6 TraesCS4D01G296200 chr1D 204024059 204027586 3527 False 238.000000 307 87.618500 1110 2142 2 chr1D.!!$F2 1032
7 TraesCS4D01G296200 chr1A 259049416 259050769 1353 False 232.500000 296 87.279500 1110 2142 2 chr1A.!!$F1 1032

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
729 730 0.251209 ACGAGAGTGGCCAGTACAGA 60.251 55.0 14.64 0.0 46.97 3.41 F
1040 1079 0.179018 GGGCCAGTTCACAGTTCACT 60.179 55.0 4.39 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2392 6947 1.065126 GGAACTAGGAACTGGCAGCAT 60.065 52.381 15.89 3.3 42.26 3.79 R
2815 7374 1.656095 GACGAGGAAAAGCATGTCGAG 59.344 52.381 6.63 0.0 34.72 4.04 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
73 74 1.878656 GCAGCCTGGTCACGTACTCT 61.879 60.000 0.00 0.00 0.00 3.24
76 77 1.154016 CCTGGTCACGTACTCTGCG 60.154 63.158 0.00 0.00 0.00 5.18
559 560 1.079127 CGCCGGAAAGGACACAGAT 60.079 57.895 5.05 0.00 45.00 2.90
560 561 1.361668 CGCCGGAAAGGACACAGATG 61.362 60.000 5.05 0.00 45.00 2.90
563 564 0.613260 CGGAAAGGACACAGATGGGA 59.387 55.000 0.00 0.00 0.00 4.37
582 583 3.808174 GGGAGTAAAACGATGGTATGAGC 59.192 47.826 0.00 0.00 0.00 4.26
585 586 4.360563 AGTAAAACGATGGTATGAGCTCG 58.639 43.478 9.64 0.00 37.17 5.03
587 588 0.595053 AACGATGGTATGAGCTCGCG 60.595 55.000 9.64 0.00 34.60 5.87
608 609 0.458669 GGCGGACGATTAGACCAAGA 59.541 55.000 0.00 0.00 34.24 3.02
620 621 3.636153 AGACCAAGATCCCAAGCTAAC 57.364 47.619 0.00 0.00 0.00 2.34
625 626 2.513897 ATCCCAAGCTAACGCGCC 60.514 61.111 5.73 0.00 42.32 6.53
663 664 4.779733 GGAGGTGGCGGAGGAGGA 62.780 72.222 0.00 0.00 0.00 3.71
665 666 2.444895 AGGTGGCGGAGGAGGATC 60.445 66.667 0.00 0.00 0.00 3.36
669 670 2.519780 GGCGGAGGAGGATCGAGT 60.520 66.667 0.00 0.00 34.37 4.18
683 684 2.427245 CGAGTGGCCGGAGAGGAAT 61.427 63.158 5.05 0.00 45.00 3.01
689 690 1.745264 GCCGGAGAGGAATGGAGAG 59.255 63.158 5.05 0.00 45.00 3.20
729 730 0.251209 ACGAGAGTGGCCAGTACAGA 60.251 55.000 14.64 0.00 46.97 3.41
730 731 0.888619 CGAGAGTGGCCAGTACAGAA 59.111 55.000 14.64 0.00 0.00 3.02
731 732 1.135257 CGAGAGTGGCCAGTACAGAAG 60.135 57.143 14.64 0.00 0.00 2.85
732 733 2.171840 GAGAGTGGCCAGTACAGAAGA 58.828 52.381 14.64 0.00 0.00 2.87
733 734 2.165437 GAGAGTGGCCAGTACAGAAGAG 59.835 54.545 14.64 0.00 0.00 2.85
734 735 2.171840 GAGTGGCCAGTACAGAAGAGA 58.828 52.381 14.64 0.00 0.00 3.10
735 736 2.563179 GAGTGGCCAGTACAGAAGAGAA 59.437 50.000 14.64 0.00 0.00 2.87
736 737 2.972713 AGTGGCCAGTACAGAAGAGAAA 59.027 45.455 12.69 0.00 0.00 2.52
738 739 4.134563 GTGGCCAGTACAGAAGAGAAAAA 58.865 43.478 5.11 0.00 0.00 1.94
808 820 0.251653 TAGAACTCAGCTGGACCGGT 60.252 55.000 15.13 6.92 0.00 5.28
821 833 0.879090 GACCGGTCCAATGAAACACC 59.121 55.000 24.75 0.00 0.00 4.16
822 834 0.538746 ACCGGTCCAATGAAACACCC 60.539 55.000 0.00 0.00 0.00 4.61
962 978 1.566018 GACACTTTCCCCGTCGCTTG 61.566 60.000 0.00 0.00 0.00 4.01
964 980 2.032071 CTTTCCCCGTCGCTTGGT 59.968 61.111 0.00 0.00 0.00 3.67
965 981 2.281208 TTTCCCCGTCGCTTGGTG 60.281 61.111 0.00 0.00 0.00 4.17
995 1034 2.361610 CCCCATGGCATATCCGGC 60.362 66.667 6.09 0.00 37.80 6.13
1033 1072 2.148052 TAACCGGGGCCAGTTCACA 61.148 57.895 13.77 0.00 0.00 3.58
1034 1073 2.119484 TAACCGGGGCCAGTTCACAG 62.119 60.000 13.77 0.00 0.00 3.66
1035 1074 3.953775 CCGGGGCCAGTTCACAGT 61.954 66.667 4.39 0.00 0.00 3.55
1036 1075 2.113139 CGGGGCCAGTTCACAGTT 59.887 61.111 4.39 0.00 0.00 3.16
1037 1076 1.966451 CGGGGCCAGTTCACAGTTC 60.966 63.158 4.39 0.00 0.00 3.01
1038 1077 1.150536 GGGGCCAGTTCACAGTTCA 59.849 57.895 4.39 0.00 0.00 3.18
1040 1079 0.179018 GGGCCAGTTCACAGTTCACT 60.179 55.000 4.39 0.00 0.00 3.41
1042 1081 1.475034 GGCCAGTTCACAGTTCACTCA 60.475 52.381 0.00 0.00 0.00 3.41
1044 1083 2.905075 CCAGTTCACAGTTCACTCACA 58.095 47.619 0.00 0.00 0.00 3.58
1045 1084 2.868583 CCAGTTCACAGTTCACTCACAG 59.131 50.000 0.00 0.00 0.00 3.66
1046 1085 2.286294 CAGTTCACAGTTCACTCACAGC 59.714 50.000 0.00 0.00 0.00 4.40
1049 1088 2.034878 TCACAGTTCACTCACAGCTCT 58.965 47.619 0.00 0.00 0.00 4.09
1050 1089 2.035193 TCACAGTTCACTCACAGCTCTC 59.965 50.000 0.00 0.00 0.00 3.20
1051 1090 2.035704 CACAGTTCACTCACAGCTCTCT 59.964 50.000 0.00 0.00 0.00 3.10
1052 1091 2.697751 ACAGTTCACTCACAGCTCTCTT 59.302 45.455 0.00 0.00 0.00 2.85
1062 1101 1.816224 ACAGCTCTCTTCTTCGTCCTC 59.184 52.381 0.00 0.00 0.00 3.71
1077 1116 2.664081 CCTCTGCACTCCCACTCCC 61.664 68.421 0.00 0.00 0.00 4.30
1080 1119 2.122413 TGCACTCCCACTCCCACT 60.122 61.111 0.00 0.00 0.00 4.00
1082 1121 2.960688 GCACTCCCACTCCCACTCC 61.961 68.421 0.00 0.00 0.00 3.85
1091 1152 0.546267 ACTCCCACTCCTGCACATCT 60.546 55.000 0.00 0.00 0.00 2.90
1095 1156 1.607801 CCACTCCTGCACATCTCGGA 61.608 60.000 0.00 0.00 0.00 4.55
1097 1158 0.900182 ACTCCTGCACATCTCGGACA 60.900 55.000 0.00 0.00 0.00 4.02
1334 1398 1.527844 GGACCTCATGATGCAGCCC 60.528 63.158 0.00 0.00 0.00 5.19
1466 2494 5.852282 AAGCAAGATAACAACTTGTTGGT 57.148 34.783 16.09 13.00 41.30 3.67
1493 2522 0.394899 GGGAAGAGATTGTGGCTGGG 60.395 60.000 0.00 0.00 0.00 4.45
1558 2607 7.861176 TTTAACAAACATCAATCGGCTTAAC 57.139 32.000 0.00 0.00 0.00 2.01
1732 6232 9.817365 GGTGAATATTTGATATGAGACAAATCG 57.183 33.333 0.00 0.00 42.92 3.34
1746 6246 5.519722 AGACAAATCGTTGGTTGTTCAATC 58.480 37.500 0.00 0.00 38.07 2.67
1762 6262 8.853345 GTTGTTCAATCTATTTTGCATGTACAG 58.147 33.333 0.33 0.00 0.00 2.74
1795 6295 3.951680 ACCTGAAACTTAACAACTGTGGG 59.048 43.478 0.00 0.00 0.00 4.61
1824 6324 9.701098 TTCAGATGATTTGGATTCTTTCAAAAG 57.299 29.630 0.00 0.00 36.60 2.27
1825 6325 9.081204 TCAGATGATTTGGATTCTTTCAAAAGA 57.919 29.630 1.06 1.06 42.91 2.52
1826 6326 9.355215 CAGATGATTTGGATTCTTTCAAAAGAG 57.645 33.333 5.42 0.00 45.01 2.85
1827 6327 9.305555 AGATGATTTGGATTCTTTCAAAAGAGA 57.694 29.630 5.42 0.00 45.01 3.10
1828 6328 9.918630 GATGATTTGGATTCTTTCAAAAGAGAA 57.081 29.630 5.42 0.00 45.01 2.87
1843 6348 8.311650 TCAAAAGAGAAATTTCTAGAACCTCG 57.688 34.615 20.51 5.54 37.73 4.63
1858 6363 8.319146 TCTAGAACCTCGATAAACTTTCCAAAT 58.681 33.333 0.00 0.00 0.00 2.32
1859 6364 7.379098 AGAACCTCGATAAACTTTCCAAATC 57.621 36.000 0.00 0.00 0.00 2.17
1879 6384 2.877786 TCGTCTCACATGTGCACAATTT 59.122 40.909 25.72 4.24 0.00 1.82
1885 6390 7.096106 CGTCTCACATGTGCACAATTTTAAATT 60.096 33.333 25.72 0.00 0.00 1.82
1894 6399 8.127327 TGTGCACAATTTTAAATTCAAATGTGG 58.873 29.630 19.28 1.76 30.96 4.17
1906 6411 5.604758 TTCAAATGTGGTGTTCATTTCCA 57.395 34.783 0.00 0.00 41.58 3.53
1933 6438 9.491675 TGAAACTTTGTTGCATAATCAATGAAT 57.508 25.926 0.00 0.00 37.86 2.57
1934 6439 9.962759 GAAACTTTGTTGCATAATCAATGAATC 57.037 29.630 0.00 0.00 37.86 2.52
1935 6440 8.483307 AACTTTGTTGCATAATCAATGAATCC 57.517 30.769 0.00 0.00 37.86 3.01
1936 6441 7.043565 ACTTTGTTGCATAATCAATGAATCCC 58.956 34.615 0.00 0.00 37.86 3.85
1937 6442 6.541934 TTGTTGCATAATCAATGAATCCCA 57.458 33.333 0.00 0.00 37.86 4.37
1938 6443 6.151663 TGTTGCATAATCAATGAATCCCAG 57.848 37.500 0.00 0.00 37.86 4.45
1940 6445 6.551975 TGTTGCATAATCAATGAATCCCAGAT 59.448 34.615 0.00 0.00 37.86 2.90
1941 6446 7.724951 TGTTGCATAATCAATGAATCCCAGATA 59.275 33.333 0.00 0.00 37.86 1.98
1943 6448 8.888836 TGCATAATCAATGAATCCCAGATAAT 57.111 30.769 0.00 0.00 37.86 1.28
1944 6449 9.978336 TGCATAATCAATGAATCCCAGATAATA 57.022 29.630 0.00 0.00 37.86 0.98
1949 6454 7.406620 TCAATGAATCCCAGATAATAACCCT 57.593 36.000 0.00 0.00 0.00 4.34
1951 6456 7.725397 TCAATGAATCCCAGATAATAACCCTTG 59.275 37.037 0.00 0.00 0.00 3.61
1952 6457 5.385198 TGAATCCCAGATAATAACCCTTGC 58.615 41.667 0.00 0.00 0.00 4.01
1954 6459 4.871871 TCCCAGATAATAACCCTTGCAA 57.128 40.909 0.00 0.00 0.00 4.08
1955 6460 5.199982 TCCCAGATAATAACCCTTGCAAA 57.800 39.130 0.00 0.00 0.00 3.68
1956 6461 5.584913 TCCCAGATAATAACCCTTGCAAAA 58.415 37.500 0.00 0.00 0.00 2.44
1957 6462 6.019748 TCCCAGATAATAACCCTTGCAAAAA 58.980 36.000 0.00 0.00 0.00 1.94
2001 6506 5.356426 ACCCTTGCAAAATTCACTTGTTAC 58.644 37.500 0.00 0.00 0.00 2.50
2049 6599 4.987285 TCGGCTATAGACTTCTACTGTACG 59.013 45.833 3.21 0.00 0.00 3.67
2068 6618 2.102925 ACGGTCGACAAAGTTAAAGGGA 59.897 45.455 18.91 0.00 0.00 4.20
2154 6704 4.398549 TTGTAATTTCTTCAGGCGTTCG 57.601 40.909 0.00 0.00 0.00 3.95
2155 6705 3.395639 TGTAATTTCTTCAGGCGTTCGT 58.604 40.909 0.00 0.00 0.00 3.85
2254 6809 4.385199 CCAAATCTGAGGGCCATTGTAGTA 60.385 45.833 6.18 0.00 0.00 1.82
2255 6810 4.423625 AATCTGAGGGCCATTGTAGTAC 57.576 45.455 6.18 0.00 0.00 2.73
2351 6906 2.273449 CATGACCCCTGAGTGCCC 59.727 66.667 0.00 0.00 0.00 5.36
2372 6927 1.376553 GGCCTGCCTGTCTCAGAAC 60.377 63.158 0.00 0.00 32.44 3.01
2388 6943 8.390354 TGTCTCAGAACGATTATTTAATTGCTG 58.610 33.333 0.00 0.00 31.60 4.41
2392 6947 8.026026 TCAGAACGATTATTTAATTGCTGCAAA 58.974 29.630 20.06 2.73 31.60 3.68
2436 6994 7.120579 TCCTACAATTTGTCACATTGTATGACC 59.879 37.037 19.82 0.00 44.91 4.02
2442 7000 5.164620 TGTCACATTGTATGACCATCAGT 57.835 39.130 2.87 0.00 44.91 3.41
2455 7013 9.250624 GTATGACCATCAGTGAATCTTAGTTAC 57.749 37.037 0.00 0.00 0.00 2.50
2457 7015 7.676004 TGACCATCAGTGAATCTTAGTTACAA 58.324 34.615 0.00 0.00 0.00 2.41
2488 7046 7.038048 TGCTGAATGAAGAGACATAGTTACAG 58.962 38.462 0.00 0.00 0.00 2.74
2489 7047 7.093771 TGCTGAATGAAGAGACATAGTTACAGA 60.094 37.037 0.00 0.00 0.00 3.41
2490 7048 7.925483 GCTGAATGAAGAGACATAGTTACAGAT 59.075 37.037 0.00 0.00 0.00 2.90
2538 7096 3.053077 AGCCCATAAGGTTACCATGCTA 58.947 45.455 3.51 0.00 38.26 3.49
2846 7405 2.871182 TTCCTCGTCTGAATGATCGG 57.129 50.000 0.00 0.00 0.00 4.18
2890 7449 6.068670 AGTTTGTAATCCCTGCTTGTACTTT 58.931 36.000 0.00 0.00 0.00 2.66
2901 7460 5.992217 CCTGCTTGTACTTTAGACTTGAAGT 59.008 40.000 0.00 0.00 39.32 3.01
3014 7606 2.031560 TGCATTTTATCGACGGATGTGC 59.968 45.455 0.00 0.00 34.00 4.57
3042 7634 2.582728 CAAACTGTGCTGAAAAGGCA 57.417 45.000 0.00 0.00 37.36 4.75
3086 7680 9.594478 TTCTTTGAGCGAATCATAATACTTACA 57.406 29.630 0.00 0.00 37.89 2.41
3087 7681 9.249457 TCTTTGAGCGAATCATAATACTTACAG 57.751 33.333 0.00 0.00 37.89 2.74
3088 7682 8.942338 TTTGAGCGAATCATAATACTTACAGT 57.058 30.769 0.00 0.00 37.89 3.55
3089 7683 8.942338 TTGAGCGAATCATAATACTTACAGTT 57.058 30.769 0.00 0.00 37.89 3.16
3090 7684 8.942338 TGAGCGAATCATAATACTTACAGTTT 57.058 30.769 0.00 0.00 31.12 2.66
3091 7685 8.817100 TGAGCGAATCATAATACTTACAGTTTG 58.183 33.333 0.00 0.00 31.12 2.93
3092 7686 8.718102 AGCGAATCATAATACTTACAGTTTGT 57.282 30.769 0.00 0.00 0.00 2.83
3093 7687 8.818057 AGCGAATCATAATACTTACAGTTTGTC 58.182 33.333 0.00 0.00 0.00 3.18
3094 7688 8.818057 GCGAATCATAATACTTACAGTTTGTCT 58.182 33.333 0.00 0.00 0.00 3.41
3137 7731 7.849804 TTTTAAGGATGTCACATCTAAGCTC 57.150 36.000 17.46 0.00 0.00 4.09
3138 7732 4.414337 AAGGATGTCACATCTAAGCTCC 57.586 45.455 17.46 0.18 0.00 4.70
3139 7733 2.703007 AGGATGTCACATCTAAGCTCCC 59.297 50.000 17.46 0.00 0.00 4.30
3140 7734 2.435805 GGATGTCACATCTAAGCTCCCA 59.564 50.000 17.46 0.00 0.00 4.37
3141 7735 3.462021 GATGTCACATCTAAGCTCCCAC 58.538 50.000 10.81 0.00 0.00 4.61
3142 7736 2.256306 TGTCACATCTAAGCTCCCACA 58.744 47.619 0.00 0.00 0.00 4.17
3143 7737 2.637382 TGTCACATCTAAGCTCCCACAA 59.363 45.455 0.00 0.00 0.00 3.33
3144 7738 3.072330 TGTCACATCTAAGCTCCCACAAA 59.928 43.478 0.00 0.00 0.00 2.83
3145 7739 4.263462 TGTCACATCTAAGCTCCCACAAAT 60.263 41.667 0.00 0.00 0.00 2.32
3146 7740 5.045942 TGTCACATCTAAGCTCCCACAAATA 60.046 40.000 0.00 0.00 0.00 1.40
3147 7741 6.058183 GTCACATCTAAGCTCCCACAAATAT 58.942 40.000 0.00 0.00 0.00 1.28
3148 7742 7.147567 TGTCACATCTAAGCTCCCACAAATATA 60.148 37.037 0.00 0.00 0.00 0.86
3149 7743 7.880195 GTCACATCTAAGCTCCCACAAATATAT 59.120 37.037 0.00 0.00 0.00 0.86
3150 7744 9.100197 TCACATCTAAGCTCCCACAAATATATA 57.900 33.333 0.00 0.00 0.00 0.86
3151 7745 9.725019 CACATCTAAGCTCCCACAAATATATAA 57.275 33.333 0.00 0.00 0.00 0.98
3154 7748 8.792830 TCTAAGCTCCCACAAATATATAATGC 57.207 34.615 0.00 0.00 0.00 3.56
3155 7749 8.382405 TCTAAGCTCCCACAAATATATAATGCA 58.618 33.333 0.00 0.00 0.00 3.96
3156 7750 7.458409 AAGCTCCCACAAATATATAATGCAG 57.542 36.000 0.00 0.00 0.00 4.41
3157 7751 5.416952 AGCTCCCACAAATATATAATGCAGC 59.583 40.000 0.00 0.00 0.00 5.25
3158 7752 5.183713 GCTCCCACAAATATATAATGCAGCA 59.816 40.000 0.00 0.00 0.00 4.41
3159 7753 6.294675 GCTCCCACAAATATATAATGCAGCAA 60.295 38.462 0.00 0.00 0.00 3.91
3160 7754 6.980593 TCCCACAAATATATAATGCAGCAAC 58.019 36.000 0.00 0.00 0.00 4.17
3161 7755 6.548993 TCCCACAAATATATAATGCAGCAACA 59.451 34.615 0.00 0.00 0.00 3.33
3162 7756 7.069208 TCCCACAAATATATAATGCAGCAACAA 59.931 33.333 0.00 0.00 0.00 2.83
3163 7757 7.383029 CCCACAAATATATAATGCAGCAACAAG 59.617 37.037 0.00 0.00 0.00 3.16
3164 7758 8.136800 CCACAAATATATAATGCAGCAACAAGA 58.863 33.333 0.00 0.00 0.00 3.02
3165 7759 9.518906 CACAAATATATAATGCAGCAACAAGAA 57.481 29.630 0.00 0.00 0.00 2.52
3171 7765 8.830201 ATATAATGCAGCAACAAGAAACAAAA 57.170 26.923 0.00 0.00 0.00 2.44
3172 7766 5.876612 AATGCAGCAACAAGAAACAAAAA 57.123 30.435 0.00 0.00 0.00 1.94
3173 7767 4.660352 TGCAGCAACAAGAAACAAAAAC 57.340 36.364 0.00 0.00 0.00 2.43
3174 7768 4.314121 TGCAGCAACAAGAAACAAAAACT 58.686 34.783 0.00 0.00 0.00 2.66
3175 7769 5.473931 TGCAGCAACAAGAAACAAAAACTA 58.526 33.333 0.00 0.00 0.00 2.24
3176 7770 5.576384 TGCAGCAACAAGAAACAAAAACTAG 59.424 36.000 0.00 0.00 0.00 2.57
3177 7771 5.005682 GCAGCAACAAGAAACAAAAACTAGG 59.994 40.000 0.00 0.00 0.00 3.02
3178 7772 6.329496 CAGCAACAAGAAACAAAAACTAGGA 58.671 36.000 0.00 0.00 0.00 2.94
3179 7773 6.253512 CAGCAACAAGAAACAAAAACTAGGAC 59.746 38.462 0.00 0.00 0.00 3.85
3180 7774 6.071616 AGCAACAAGAAACAAAAACTAGGACA 60.072 34.615 0.00 0.00 0.00 4.02
3181 7775 6.588373 GCAACAAGAAACAAAAACTAGGACAA 59.412 34.615 0.00 0.00 0.00 3.18
3182 7776 7.117092 GCAACAAGAAACAAAAACTAGGACAAA 59.883 33.333 0.00 0.00 0.00 2.83
3183 7777 8.983724 CAACAAGAAACAAAAACTAGGACAAAA 58.016 29.630 0.00 0.00 0.00 2.44
3184 7778 9.549078 AACAAGAAACAAAAACTAGGACAAAAA 57.451 25.926 0.00 0.00 0.00 1.94
3242 7837 3.954904 GAGAAATTTTAAGAGGCCCCTCC 59.045 47.826 10.64 0.00 43.70 4.30
3442 8042 9.758651 ATTTATACTACTATGCATGTTCGTTGA 57.241 29.630 10.16 0.00 0.00 3.18
3632 8359 5.592282 TGGTTAGCAACTCAAACTTGATGAA 59.408 36.000 0.00 0.00 36.46 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
319 320 1.302832 GGTGGTCTCCAAGGTGCTG 60.303 63.158 0.00 0.00 34.18 4.41
429 430 1.004758 TGCCCCTCCCAGCTATCTT 59.995 57.895 0.00 0.00 0.00 2.40
505 506 4.383602 GCCACGTGTTCGCGCAAT 62.384 61.111 15.65 0.00 41.18 3.56
543 544 0.392998 CCCATCTGTGTCCTTTCCGG 60.393 60.000 0.00 0.00 0.00 5.14
550 551 3.000727 CGTTTTACTCCCATCTGTGTCC 58.999 50.000 0.00 0.00 0.00 4.02
554 555 3.263425 ACCATCGTTTTACTCCCATCTGT 59.737 43.478 0.00 0.00 0.00 3.41
556 557 5.365605 TCATACCATCGTTTTACTCCCATCT 59.634 40.000 0.00 0.00 0.00 2.90
559 560 4.682320 GCTCATACCATCGTTTTACTCCCA 60.682 45.833 0.00 0.00 0.00 4.37
560 561 3.808174 GCTCATACCATCGTTTTACTCCC 59.192 47.826 0.00 0.00 0.00 4.30
563 564 4.360563 CGAGCTCATACCATCGTTTTACT 58.639 43.478 15.40 0.00 0.00 2.24
585 586 4.918129 TCTAATCGTCCGCCGCGC 62.918 66.667 7.42 0.00 36.19 6.86
587 588 2.657620 GGTCTAATCGTCCGCCGC 60.658 66.667 0.00 0.00 36.19 6.53
591 592 2.288273 GGGATCTTGGTCTAATCGTCCG 60.288 54.545 0.00 0.00 0.00 4.79
595 596 3.134458 GCTTGGGATCTTGGTCTAATCG 58.866 50.000 0.00 0.00 0.00 3.34
600 601 2.093447 CGTTAGCTTGGGATCTTGGTCT 60.093 50.000 0.00 0.00 0.00 3.85
602 603 1.679032 GCGTTAGCTTGGGATCTTGGT 60.679 52.381 0.00 0.00 41.01 3.67
603 604 1.017387 GCGTTAGCTTGGGATCTTGG 58.983 55.000 0.00 0.00 41.01 3.61
605 606 1.090052 GCGCGTTAGCTTGGGATCTT 61.090 55.000 8.43 0.00 42.32 2.40
608 609 2.513897 GGCGCGTTAGCTTGGGAT 60.514 61.111 8.43 0.00 42.32 3.85
663 664 2.835431 CCTCTCCGGCCACTCGAT 60.835 66.667 2.24 0.00 0.00 3.59
665 666 2.427245 ATTCCTCTCCGGCCACTCG 61.427 63.158 2.24 0.00 0.00 4.18
669 670 2.040442 TCCATTCCTCTCCGGCCA 59.960 61.111 2.24 0.00 0.00 5.36
707 708 0.171455 GTACTGGCCACTCTCGTCTG 59.829 60.000 0.00 0.00 0.00 3.51
711 712 0.888619 TTCTGTACTGGCCACTCTCG 59.111 55.000 0.00 0.00 0.00 4.04
715 716 2.310779 TCTCTTCTGTACTGGCCACT 57.689 50.000 0.00 0.00 0.00 4.00
717 718 4.431416 TTTTTCTCTTCTGTACTGGCCA 57.569 40.909 4.71 4.71 0.00 5.36
718 719 5.003804 TCATTTTTCTCTTCTGTACTGGCC 58.996 41.667 0.00 0.00 0.00 5.36
719 720 5.389935 CGTCATTTTTCTCTTCTGTACTGGC 60.390 44.000 0.00 0.00 0.00 4.85
721 722 5.120830 CCCGTCATTTTTCTCTTCTGTACTG 59.879 44.000 0.00 0.00 0.00 2.74
722 723 5.238583 CCCGTCATTTTTCTCTTCTGTACT 58.761 41.667 0.00 0.00 0.00 2.73
723 724 4.392138 CCCCGTCATTTTTCTCTTCTGTAC 59.608 45.833 0.00 0.00 0.00 2.90
724 725 4.041198 ACCCCGTCATTTTTCTCTTCTGTA 59.959 41.667 0.00 0.00 0.00 2.74
725 726 3.181443 ACCCCGTCATTTTTCTCTTCTGT 60.181 43.478 0.00 0.00 0.00 3.41
729 730 3.308188 CCCTACCCCGTCATTTTTCTCTT 60.308 47.826 0.00 0.00 0.00 2.85
730 731 2.238898 CCCTACCCCGTCATTTTTCTCT 59.761 50.000 0.00 0.00 0.00 3.10
731 732 2.640184 CCCTACCCCGTCATTTTTCTC 58.360 52.381 0.00 0.00 0.00 2.87
732 733 1.340697 GCCCTACCCCGTCATTTTTCT 60.341 52.381 0.00 0.00 0.00 2.52
733 734 1.100510 GCCCTACCCCGTCATTTTTC 58.899 55.000 0.00 0.00 0.00 2.29
734 735 0.406361 TGCCCTACCCCGTCATTTTT 59.594 50.000 0.00 0.00 0.00 1.94
735 736 0.406361 TTGCCCTACCCCGTCATTTT 59.594 50.000 0.00 0.00 0.00 1.82
736 737 0.034477 CTTGCCCTACCCCGTCATTT 60.034 55.000 0.00 0.00 0.00 2.32
738 739 0.694444 ATCTTGCCCTACCCCGTCAT 60.694 55.000 0.00 0.00 0.00 3.06
808 820 1.543802 GCGAATGGGTGTTTCATTGGA 59.456 47.619 0.00 0.00 35.26 3.53
866 878 2.434359 GCTACAGTCACCGGCACC 60.434 66.667 0.00 0.00 0.00 5.01
981 1020 3.792047 CGCGCCGGATATGCCATG 61.792 66.667 5.05 0.00 35.94 3.66
1015 1054 2.119484 CTGTGAACTGGCCCCGGTTA 62.119 60.000 11.33 0.00 44.62 2.85
1033 1072 3.230134 AGAAGAGAGCTGTGAGTGAACT 58.770 45.455 0.00 0.00 0.00 3.01
1034 1073 3.658757 AGAAGAGAGCTGTGAGTGAAC 57.341 47.619 0.00 0.00 0.00 3.18
1035 1074 3.304996 CGAAGAAGAGAGCTGTGAGTGAA 60.305 47.826 0.00 0.00 0.00 3.18
1036 1075 2.227626 CGAAGAAGAGAGCTGTGAGTGA 59.772 50.000 0.00 0.00 0.00 3.41
1037 1076 2.030363 ACGAAGAAGAGAGCTGTGAGTG 60.030 50.000 0.00 0.00 0.00 3.51
1038 1077 2.227865 GACGAAGAAGAGAGCTGTGAGT 59.772 50.000 0.00 0.00 0.00 3.41
1040 1079 1.542030 GGACGAAGAAGAGAGCTGTGA 59.458 52.381 0.00 0.00 0.00 3.58
1042 1081 1.816224 GAGGACGAAGAAGAGAGCTGT 59.184 52.381 0.00 0.00 0.00 4.40
1044 1083 2.091541 CAGAGGACGAAGAAGAGAGCT 58.908 52.381 0.00 0.00 0.00 4.09
1045 1084 1.469079 GCAGAGGACGAAGAAGAGAGC 60.469 57.143 0.00 0.00 0.00 4.09
1046 1085 1.815613 TGCAGAGGACGAAGAAGAGAG 59.184 52.381 0.00 0.00 0.00 3.20
1049 1088 1.542030 GAGTGCAGAGGACGAAGAAGA 59.458 52.381 0.00 0.00 0.00 2.87
1050 1089 1.403514 GGAGTGCAGAGGACGAAGAAG 60.404 57.143 0.00 0.00 0.00 2.85
1051 1090 0.603569 GGAGTGCAGAGGACGAAGAA 59.396 55.000 0.00 0.00 0.00 2.52
1052 1091 1.251527 GGGAGTGCAGAGGACGAAGA 61.252 60.000 0.00 0.00 0.00 2.87
1062 1101 2.177594 GAGTGGGAGTGGGAGTGCAG 62.178 65.000 0.00 0.00 0.00 4.41
1077 1116 0.459237 GTCCGAGATGTGCAGGAGTG 60.459 60.000 0.00 0.00 32.82 3.51
1080 1119 0.037326 GTTGTCCGAGATGTGCAGGA 60.037 55.000 0.00 0.00 0.00 3.86
1082 1121 1.959899 GCGTTGTCCGAGATGTGCAG 61.960 60.000 0.00 0.00 39.56 4.41
1319 1383 2.203451 GGGGGCTGCATCATGAGG 60.203 66.667 2.22 2.22 0.00 3.86
1466 2494 3.138304 CACAATCTCTTCCCGTTTGACA 58.862 45.455 0.00 0.00 0.00 3.58
1473 2501 0.745845 CCAGCCACAATCTCTTCCCG 60.746 60.000 0.00 0.00 0.00 5.14
1493 2522 3.498018 GGCAATTTCCCATTTGACACAAC 59.502 43.478 0.00 0.00 30.93 3.32
1558 2607 5.323371 TGAAACAACCAGTGAAGAAAAGG 57.677 39.130 0.00 0.00 0.00 3.11
1732 6232 7.171337 ACATGCAAAATAGATTGAACAACCAAC 59.829 33.333 0.00 0.00 31.84 3.77
1795 6295 9.865321 TTGAAAGAATCCAAATCATCTGAAATC 57.135 29.630 0.00 0.00 0.00 2.17
1824 6324 9.589111 AGTTTATCGAGGTTCTAGAAATTTCTC 57.411 33.333 23.70 9.75 38.70 2.87
1825 6325 9.945904 AAGTTTATCGAGGTTCTAGAAATTTCT 57.054 29.630 23.53 23.53 41.24 2.52
1828 6328 9.163899 GGAAAGTTTATCGAGGTTCTAGAAATT 57.836 33.333 6.78 0.00 0.00 1.82
1829 6329 8.319146 TGGAAAGTTTATCGAGGTTCTAGAAAT 58.681 33.333 6.78 0.00 0.00 2.17
1843 6348 7.129109 TGTGAGACGATTTGGAAAGTTTATC 57.871 36.000 0.00 0.00 0.00 1.75
1858 6363 2.168326 ATTGTGCACATGTGAGACGA 57.832 45.000 29.80 22.06 0.00 4.20
1859 6364 2.975410 AATTGTGCACATGTGAGACG 57.025 45.000 29.80 2.54 0.00 4.18
1879 6384 9.050601 GGAAATGAACACCACATTTGAATTTAA 57.949 29.630 9.97 0.00 44.46 1.52
1885 6390 5.303845 TCATGGAAATGAACACCACATTTGA 59.696 36.000 9.97 1.07 44.46 2.69
1894 6399 7.401080 CAACAAAGTTTCATGGAAATGAACAC 58.599 34.615 0.73 4.00 39.95 3.32
1906 6411 9.491675 TTCATTGATTATGCAACAAAGTTTCAT 57.508 25.926 0.00 1.14 34.06 2.57
1933 6438 4.871871 TTGCAAGGGTTATTATCTGGGA 57.128 40.909 0.00 0.00 0.00 4.37
1934 6439 5.930837 TTTTGCAAGGGTTATTATCTGGG 57.069 39.130 0.00 0.00 0.00 4.45
1964 6469 3.634448 TGCAAGGGTTCATTCTCGAAAAA 59.366 39.130 0.00 0.00 0.00 1.94
1965 6470 3.218453 TGCAAGGGTTCATTCTCGAAAA 58.782 40.909 0.00 0.00 0.00 2.29
1966 6471 2.857483 TGCAAGGGTTCATTCTCGAAA 58.143 42.857 0.00 0.00 0.00 3.46
1967 6472 2.559698 TGCAAGGGTTCATTCTCGAA 57.440 45.000 0.00 0.00 0.00 3.71
1968 6473 2.559698 TTGCAAGGGTTCATTCTCGA 57.440 45.000 0.00 0.00 0.00 4.04
1969 6474 3.641437 TTTTGCAAGGGTTCATTCTCG 57.359 42.857 0.00 0.00 0.00 4.04
1970 6475 5.406477 GTGAATTTTGCAAGGGTTCATTCTC 59.594 40.000 19.38 10.63 32.19 2.87
1971 6476 5.070847 AGTGAATTTTGCAAGGGTTCATTCT 59.929 36.000 19.38 13.11 32.19 2.40
1972 6477 5.299949 AGTGAATTTTGCAAGGGTTCATTC 58.700 37.500 19.38 12.88 32.19 2.67
1973 6478 5.294734 AGTGAATTTTGCAAGGGTTCATT 57.705 34.783 19.38 14.98 32.19 2.57
1974 6479 4.961438 AGTGAATTTTGCAAGGGTTCAT 57.039 36.364 19.38 10.50 32.19 2.57
1975 6480 4.081198 ACAAGTGAATTTTGCAAGGGTTCA 60.081 37.500 15.08 15.08 0.00 3.18
1976 6481 4.441792 ACAAGTGAATTTTGCAAGGGTTC 58.558 39.130 0.00 6.43 0.00 3.62
1977 6482 4.486125 ACAAGTGAATTTTGCAAGGGTT 57.514 36.364 0.00 0.00 0.00 4.11
1978 6483 4.486125 AACAAGTGAATTTTGCAAGGGT 57.514 36.364 0.00 0.00 0.00 4.34
1979 6484 4.749598 GGTAACAAGTGAATTTTGCAAGGG 59.250 41.667 0.00 0.00 0.00 3.95
1980 6485 5.600696 AGGTAACAAGTGAATTTTGCAAGG 58.399 37.500 0.00 0.00 41.41 3.61
1981 6486 8.816640 ATAAGGTAACAAGTGAATTTTGCAAG 57.183 30.769 0.00 0.00 41.41 4.01
2001 6506 5.063180 TGCTGCAATTGAAAGTGATAAGG 57.937 39.130 10.34 0.00 0.00 2.69
2049 6599 3.497262 CAGTCCCTTTAACTTTGTCGACC 59.503 47.826 14.12 0.00 0.00 4.79
2068 6618 2.494059 CACACGGTCTTTTCCATCAGT 58.506 47.619 0.00 0.00 0.00 3.41
2154 6704 8.308207 GGTTATCAGGAACAGAGAATAGGATAC 58.692 40.741 0.00 0.00 26.10 2.24
2155 6705 7.455008 GGGTTATCAGGAACAGAGAATAGGATA 59.545 40.741 0.00 0.00 26.10 2.59
2254 6809 6.706716 GGTGTTTTAACTTAGCTTCTCTCTGT 59.293 38.462 0.00 0.00 0.00 3.41
2255 6810 6.147985 GGGTGTTTTAACTTAGCTTCTCTCTG 59.852 42.308 0.00 0.00 0.00 3.35
2319 6874 7.961431 TCAGGGGTCATGGAAATCTTATCTATA 59.039 37.037 0.00 0.00 0.00 1.31
2321 6876 6.150332 TCAGGGGTCATGGAAATCTTATCTA 58.850 40.000 0.00 0.00 0.00 1.98
2372 6927 7.061027 CAGCATTTGCAGCAATTAAATAATCG 58.939 34.615 9.12 0.00 45.16 3.34
2388 6943 1.133790 CTAGGAACTGGCAGCATTTGC 59.866 52.381 15.89 7.09 46.77 3.68
2392 6947 1.065126 GGAACTAGGAACTGGCAGCAT 60.065 52.381 15.89 3.30 42.26 3.79
2442 7000 9.719355 TCAGCAGTTATTTGTAACTAAGATTCA 57.281 29.630 0.95 0.00 38.14 2.57
2455 7013 7.137490 TGTCTCTTCATTCAGCAGTTATTTG 57.863 36.000 0.00 0.00 0.00 2.32
2457 7015 8.263640 ACTATGTCTCTTCATTCAGCAGTTATT 58.736 33.333 0.00 0.00 0.00 1.40
2488 7046 9.643693 ACATAGGACAATTGTTTGAATTTGATC 57.356 29.630 13.36 0.00 36.64 2.92
2490 7048 9.829507 AAACATAGGACAATTGTTTGAATTTGA 57.170 25.926 13.36 0.00 40.88 2.69
2500 7058 4.929479 TGGGCTAAACATAGGACAATTGT 58.071 39.130 11.78 11.78 0.00 2.71
2503 7061 6.126185 ACCTTATGGGCTAAACATAGGACAAT 60.126 38.462 0.00 0.00 39.10 2.71
2538 7096 3.777106 TCTGTCAAATTCAGAGCCAGT 57.223 42.857 0.00 0.00 37.07 4.00
2647 7206 2.486191 CCCAGTACCAGCCATCTCATTC 60.486 54.545 0.00 0.00 0.00 2.67
2815 7374 1.656095 GACGAGGAAAAGCATGTCGAG 59.344 52.381 6.63 0.00 34.72 4.04
2890 7449 5.784578 TGCTGAGTTACACTTCAAGTCTA 57.215 39.130 0.00 0.00 0.00 2.59
2901 7460 7.928167 CCAGACTATAAATCATGCTGAGTTACA 59.072 37.037 7.78 0.00 39.32 2.41
3014 7606 2.903284 GCACAGTTTGCCACATTGG 58.097 52.632 0.00 0.00 46.63 3.16
3112 7706 7.336931 GGAGCTTAGATGTGACATCCTTAAAAA 59.663 37.037 21.05 6.46 0.00 1.94
3113 7707 6.823689 GGAGCTTAGATGTGACATCCTTAAAA 59.176 38.462 21.05 8.00 0.00 1.52
3114 7708 6.349300 GGAGCTTAGATGTGACATCCTTAAA 58.651 40.000 21.05 10.18 0.00 1.52
3115 7709 5.163301 GGGAGCTTAGATGTGACATCCTTAA 60.163 44.000 21.05 13.11 0.00 1.85
3116 7710 4.345257 GGGAGCTTAGATGTGACATCCTTA 59.655 45.833 21.05 6.22 0.00 2.69
3117 7711 3.135530 GGGAGCTTAGATGTGACATCCTT 59.864 47.826 21.05 7.22 0.00 3.36
3118 7712 2.703007 GGGAGCTTAGATGTGACATCCT 59.297 50.000 21.05 11.37 0.00 3.24
3119 7713 2.435805 TGGGAGCTTAGATGTGACATCC 59.564 50.000 21.05 6.28 0.00 3.51
3120 7714 3.118629 TGTGGGAGCTTAGATGTGACATC 60.119 47.826 17.46 17.46 0.00 3.06
3121 7715 2.840038 TGTGGGAGCTTAGATGTGACAT 59.160 45.455 0.00 0.00 0.00 3.06
3122 7716 2.256306 TGTGGGAGCTTAGATGTGACA 58.744 47.619 0.00 0.00 0.00 3.58
3123 7717 3.334583 TTGTGGGAGCTTAGATGTGAC 57.665 47.619 0.00 0.00 0.00 3.67
3124 7718 4.574674 ATTTGTGGGAGCTTAGATGTGA 57.425 40.909 0.00 0.00 0.00 3.58
3125 7719 9.725019 TTATATATTTGTGGGAGCTTAGATGTG 57.275 33.333 0.00 0.00 0.00 3.21
3128 7722 9.401058 GCATTATATATTTGTGGGAGCTTAGAT 57.599 33.333 0.00 0.00 0.00 1.98
3129 7723 8.382405 TGCATTATATATTTGTGGGAGCTTAGA 58.618 33.333 0.00 0.00 0.00 2.10
3130 7724 8.565896 TGCATTATATATTTGTGGGAGCTTAG 57.434 34.615 0.00 0.00 0.00 2.18
3131 7725 7.121168 GCTGCATTATATATTTGTGGGAGCTTA 59.879 37.037 0.00 0.00 0.00 3.09
3132 7726 6.071728 GCTGCATTATATATTTGTGGGAGCTT 60.072 38.462 0.00 0.00 0.00 3.74
3133 7727 5.416952 GCTGCATTATATATTTGTGGGAGCT 59.583 40.000 0.00 0.00 0.00 4.09
3134 7728 5.183713 TGCTGCATTATATATTTGTGGGAGC 59.816 40.000 0.00 0.00 0.00 4.70
3135 7729 6.822667 TGCTGCATTATATATTTGTGGGAG 57.177 37.500 0.00 0.00 0.00 4.30
3136 7730 6.548993 TGTTGCTGCATTATATATTTGTGGGA 59.451 34.615 1.84 0.00 0.00 4.37
3137 7731 6.747125 TGTTGCTGCATTATATATTTGTGGG 58.253 36.000 1.84 0.00 0.00 4.61
3138 7732 8.136800 TCTTGTTGCTGCATTATATATTTGTGG 58.863 33.333 1.84 0.00 0.00 4.17
3139 7733 9.518906 TTCTTGTTGCTGCATTATATATTTGTG 57.481 29.630 1.84 0.00 0.00 3.33
3145 7739 9.920133 TTTTGTTTCTTGTTGCTGCATTATATA 57.080 25.926 1.84 0.00 0.00 0.86
3146 7740 8.830201 TTTTGTTTCTTGTTGCTGCATTATAT 57.170 26.923 1.84 0.00 0.00 0.86
3147 7741 8.547069 GTTTTTGTTTCTTGTTGCTGCATTATA 58.453 29.630 1.84 0.00 0.00 0.98
3148 7742 7.280652 AGTTTTTGTTTCTTGTTGCTGCATTAT 59.719 29.630 1.84 0.00 0.00 1.28
3149 7743 6.593382 AGTTTTTGTTTCTTGTTGCTGCATTA 59.407 30.769 1.84 0.00 0.00 1.90
3150 7744 5.412286 AGTTTTTGTTTCTTGTTGCTGCATT 59.588 32.000 1.84 0.00 0.00 3.56
3151 7745 4.937015 AGTTTTTGTTTCTTGTTGCTGCAT 59.063 33.333 1.84 0.00 0.00 3.96
3152 7746 4.314121 AGTTTTTGTTTCTTGTTGCTGCA 58.686 34.783 0.00 0.00 0.00 4.41
3153 7747 4.926860 AGTTTTTGTTTCTTGTTGCTGC 57.073 36.364 0.00 0.00 0.00 5.25
3154 7748 6.253512 GTCCTAGTTTTTGTTTCTTGTTGCTG 59.746 38.462 0.00 0.00 0.00 4.41
3155 7749 6.071616 TGTCCTAGTTTTTGTTTCTTGTTGCT 60.072 34.615 0.00 0.00 0.00 3.91
3156 7750 6.096695 TGTCCTAGTTTTTGTTTCTTGTTGC 58.903 36.000 0.00 0.00 0.00 4.17
3157 7751 8.527567 TTTGTCCTAGTTTTTGTTTCTTGTTG 57.472 30.769 0.00 0.00 0.00 3.33
3158 7752 9.549078 TTTTTGTCCTAGTTTTTGTTTCTTGTT 57.451 25.926 0.00 0.00 0.00 2.83
3192 7786 2.225019 GCTCATGTCCACTCAGTTTGTG 59.775 50.000 0.00 0.00 35.39 3.33
3193 7787 2.105477 AGCTCATGTCCACTCAGTTTGT 59.895 45.455 0.00 0.00 0.00 2.83
3194 7788 2.775890 AGCTCATGTCCACTCAGTTTG 58.224 47.619 0.00 0.00 0.00 2.93
3195 7789 3.834813 TCTAGCTCATGTCCACTCAGTTT 59.165 43.478 0.00 0.00 0.00 2.66
3196 7790 3.435275 TCTAGCTCATGTCCACTCAGTT 58.565 45.455 0.00 0.00 0.00 3.16
3197 7791 3.093057 TCTAGCTCATGTCCACTCAGT 57.907 47.619 0.00 0.00 0.00 3.41
3198 7792 4.099113 TCATTCTAGCTCATGTCCACTCAG 59.901 45.833 0.00 0.00 0.00 3.35
3199 7793 4.026052 TCATTCTAGCTCATGTCCACTCA 58.974 43.478 0.00 0.00 0.00 3.41
3200 7794 4.340666 TCTCATTCTAGCTCATGTCCACTC 59.659 45.833 0.00 0.00 0.00 3.51
3201 7795 4.285020 TCTCATTCTAGCTCATGTCCACT 58.715 43.478 0.00 0.00 0.00 4.00
3202 7796 4.662468 TCTCATTCTAGCTCATGTCCAC 57.338 45.455 0.00 0.00 0.00 4.02
3203 7797 5.682234 TTTCTCATTCTAGCTCATGTCCA 57.318 39.130 0.00 0.00 0.00 4.02
3204 7798 7.565323 AAATTTCTCATTCTAGCTCATGTCC 57.435 36.000 0.00 0.00 0.00 4.02
3210 7804 8.341903 GCCTCTTAAAATTTCTCATTCTAGCTC 58.658 37.037 0.00 0.00 0.00 4.09
3421 8019 7.892778 TTTTCAACGAACATGCATAGTAGTA 57.107 32.000 0.00 0.00 0.00 1.82
3422 8020 6.795098 TTTTCAACGAACATGCATAGTAGT 57.205 33.333 0.00 2.21 0.00 2.73


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

AutoCloner maintained by Alex Coulton.