Multiple sequence alignment - TraesCS7B01G264100

Loading Multiple Alignment...

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 TraesCS7B01G264100 chr7B 100.000 3863 0 0 1 3863 484595598 484591736 0.000000e+00 7134.0
1 TraesCS7B01G264100 chr7B 96.064 940 32 5 1 936 616777735 616776797 0.000000e+00 1526.0
2 TraesCS7B01G264100 chr7B 91.354 960 52 14 1 936 619479630 619478678 0.000000e+00 1284.0
3 TraesCS7B01G264100 chr7B 90.881 965 54 16 1 939 16520697 16519741 0.000000e+00 1264.0
4 TraesCS7B01G264100 chr7B 100.000 84 0 0 3348 3431 484592169 484592086 5.170000e-34 156.0
5 TraesCS7B01G264100 chr7B 100.000 84 0 0 3430 3513 484592251 484592168 5.170000e-34 156.0
6 TraesCS7B01G264100 chr7B 95.946 74 2 1 3685 3757 741645501 741645574 6.780000e-23 119.0
7 TraesCS7B01G264100 chr7B 82.474 97 12 5 843 937 608403719 608403812 3.200000e-11 80.5
8 TraesCS7B01G264100 chr7D 93.628 2417 88 25 1034 3431 461777934 461775565 0.000000e+00 3550.0
9 TraesCS7B01G264100 chr7D 97.926 434 9 0 3430 3863 461775648 461775215 0.000000e+00 752.0
10 TraesCS7B01G264100 chr7D 90.029 341 20 3 3430 3757 421324814 421325153 2.760000e-116 429.0
11 TraesCS7B01G264100 chr7D 85.849 212 11 6 3241 3433 421324688 421324899 1.410000e-49 207.0
12 TraesCS7B01G264100 chr7A 91.896 1962 128 19 1007 2955 538359740 538361683 0.000000e+00 2713.0
13 TraesCS7B01G264100 chr7A 84.633 436 45 13 3431 3863 538362233 538362649 7.720000e-112 414.0
14 TraesCS7B01G264100 chr7A 84.000 450 43 15 2989 3428 538361882 538362312 4.650000e-109 405.0
15 TraesCS7B01G264100 chr5B 96.706 941 24 7 1 936 544427817 544426879 0.000000e+00 1559.0
16 TraesCS7B01G264100 chr5B 95.749 941 35 5 1 936 31231553 31232493 0.000000e+00 1511.0
17 TraesCS7B01G264100 chr5B 95.426 940 38 5 1 936 31325146 31326084 0.000000e+00 1493.0
18 TraesCS7B01G264100 chr5B 95.161 744 30 6 1 740 692750989 692751730 0.000000e+00 1170.0
19 TraesCS7B01G264100 chr4B 91.979 960 43 13 1 936 236952797 236951848 0.000000e+00 1315.0
20 TraesCS7B01G264100 chr4B 91.617 334 22 3 3430 3757 670351063 670351396 1.260000e-124 457.0
21 TraesCS7B01G264100 chr4B 86.872 358 17 3 3430 3757 251468942 251469299 1.310000e-99 374.0
22 TraesCS7B01G264100 chr4B 85.437 206 6 10 3242 3428 670350943 670351143 3.940000e-45 193.0
23 TraesCS7B01G264100 chr2B 89.655 928 66 13 1 906 111077753 111076834 0.000000e+00 1155.0
24 TraesCS7B01G264100 chr3B 89.238 604 46 13 328 922 323358874 323358281 0.000000e+00 737.0
25 TraesCS7B01G264100 chr3B 92.793 444 28 3 1 442 323359243 323358802 1.170000e-179 640.0
26 TraesCS7B01G264100 chr3B 95.044 343 14 3 1 340 809867786 809868128 1.580000e-148 536.0
27 TraesCS7B01G264100 chr5A 91.592 333 23 2 3430 3757 53374631 53374299 4.550000e-124 455.0
28 TraesCS7B01G264100 chr5A 91.592 333 23 2 3430 3757 53455683 53455351 4.550000e-124 455.0
29 TraesCS7B01G264100 chr5A 86.603 209 9 6 3242 3431 53374756 53374548 3.020000e-51 213.0
30 TraesCS7B01G264100 chr5A 85.646 209 11 6 3242 3431 53455808 53455600 6.540000e-48 202.0
31 TraesCS7B01G264100 chr2D 93.814 194 10 2 3240 3431 445700271 445700078 1.360000e-74 291.0
32 TraesCS7B01G264100 chr2D 88.112 143 10 4 3246 3382 445629676 445629535 3.090000e-36 163.0
33 TraesCS7B01G264100 chr2D 96.591 88 3 0 3430 3517 445700161 445700074 3.110000e-31 147.0
34 TraesCS7B01G264100 chr6D 91.892 185 11 1 3430 3610 318448617 318448433 4.950000e-64 255.0
35 TraesCS7B01G264100 chr6D 86.829 205 8 6 3242 3427 318448742 318448538 1.090000e-50 211.0


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 TraesCS7B01G264100 chr7B 484591736 484595598 3862 True 2482.000000 7134 100.0000 1 3863 3 chr7B.!!$R4 3862
1 TraesCS7B01G264100 chr7B 616776797 616777735 938 True 1526.000000 1526 96.0640 1 936 1 chr7B.!!$R2 935
2 TraesCS7B01G264100 chr7B 619478678 619479630 952 True 1284.000000 1284 91.3540 1 936 1 chr7B.!!$R3 935
3 TraesCS7B01G264100 chr7B 16519741 16520697 956 True 1264.000000 1264 90.8810 1 939 1 chr7B.!!$R1 938
4 TraesCS7B01G264100 chr7D 461775215 461777934 2719 True 2151.000000 3550 95.7770 1034 3863 2 chr7D.!!$R1 2829
5 TraesCS7B01G264100 chr7A 538359740 538362649 2909 False 1177.333333 2713 86.8430 1007 3863 3 chr7A.!!$F1 2856
6 TraesCS7B01G264100 chr5B 544426879 544427817 938 True 1559.000000 1559 96.7060 1 936 1 chr5B.!!$R1 935
7 TraesCS7B01G264100 chr5B 31231553 31232493 940 False 1511.000000 1511 95.7490 1 936 1 chr5B.!!$F1 935
8 TraesCS7B01G264100 chr5B 31325146 31326084 938 False 1493.000000 1493 95.4260 1 936 1 chr5B.!!$F2 935
9 TraesCS7B01G264100 chr5B 692750989 692751730 741 False 1170.000000 1170 95.1610 1 740 1 chr5B.!!$F3 739
10 TraesCS7B01G264100 chr4B 236951848 236952797 949 True 1315.000000 1315 91.9790 1 936 1 chr4B.!!$R1 935
11 TraesCS7B01G264100 chr2B 111076834 111077753 919 True 1155.000000 1155 89.6550 1 906 1 chr2B.!!$R1 905
12 TraesCS7B01G264100 chr3B 323358281 323359243 962 True 688.500000 737 91.0155 1 922 2 chr3B.!!$R1 921

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
964 1062 0.033503 GGGGGTCATTTACAGGGTGG 60.034 60.0 0.0 0.0 0.0 4.61 F
965 1063 0.033503 GGGGTCATTTACAGGGTGGG 60.034 60.0 0.0 0.0 0.0 4.61 F
2297 2408 0.036952 ACACCAAGCACCATCGAGAG 60.037 55.0 0.0 0.0 0.0 3.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2081 2192 0.439985 CTTGACAATCCGTGTGAGCG 59.560 55.0 0.00 0.0 41.96 5.03 R
2418 2529 0.525311 TTGTCTCAGCAGCTCTCTCG 59.475 55.0 0.00 0.0 0.00 4.04 R
3493 3799 0.784778 GCCGACTGCGCTAATGATAC 59.215 55.0 9.73 0.0 35.83 2.24 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
457 524 6.401955 AAAAAGTTGACCGTGTTTGATTTG 57.598 33.333 0.00 0.00 0.00 2.32
671 764 8.182227 ACTAAACGAAACTCTTCCAAGAAAAAG 58.818 33.333 0.00 0.00 34.03 2.27
682 776 8.047413 TCTTCCAAGAAAAAGTAGAAAAACGT 57.953 30.769 0.00 0.00 30.73 3.99
939 1037 1.381165 CCGTTTAGGAAATGCCCCGG 61.381 60.000 0.00 0.00 45.00 5.73
940 1038 0.393267 CGTTTAGGAAATGCCCCGGA 60.393 55.000 0.73 0.00 37.37 5.14
941 1039 1.100510 GTTTAGGAAATGCCCCGGAC 58.899 55.000 0.73 0.00 37.37 4.79
942 1040 0.393267 TTTAGGAAATGCCCCGGACG 60.393 55.000 0.73 0.00 37.37 4.79
943 1041 2.260088 TTAGGAAATGCCCCGGACGG 62.260 60.000 0.73 3.25 37.37 4.79
944 1042 4.104183 GGAAATGCCCCGGACGGA 62.104 66.667 13.13 0.00 37.50 4.69
945 1043 2.513897 GAAATGCCCCGGACGGAG 60.514 66.667 13.13 0.00 37.50 4.63
946 1044 4.109675 AAATGCCCCGGACGGAGG 62.110 66.667 13.13 12.55 37.50 4.30
954 1052 3.081409 CGGACGGAGGGGGTCATT 61.081 66.667 0.00 0.00 36.12 2.57
955 1053 2.666098 CGGACGGAGGGGGTCATTT 61.666 63.158 0.00 0.00 36.12 2.32
956 1054 1.332144 CGGACGGAGGGGGTCATTTA 61.332 60.000 0.00 0.00 36.12 1.40
957 1055 0.179702 GGACGGAGGGGGTCATTTAC 59.820 60.000 0.00 0.00 36.12 2.01
958 1056 0.906775 GACGGAGGGGGTCATTTACA 59.093 55.000 0.00 0.00 34.56 2.41
959 1057 0.909623 ACGGAGGGGGTCATTTACAG 59.090 55.000 0.00 0.00 0.00 2.74
960 1058 0.180406 CGGAGGGGGTCATTTACAGG 59.820 60.000 0.00 0.00 0.00 4.00
961 1059 0.551396 GGAGGGGGTCATTTACAGGG 59.449 60.000 0.00 0.00 0.00 4.45
962 1060 1.296002 GAGGGGGTCATTTACAGGGT 58.704 55.000 0.00 0.00 0.00 4.34
963 1061 0.999712 AGGGGGTCATTTACAGGGTG 59.000 55.000 0.00 0.00 0.00 4.61
964 1062 0.033503 GGGGGTCATTTACAGGGTGG 60.034 60.000 0.00 0.00 0.00 4.61
965 1063 0.033503 GGGGTCATTTACAGGGTGGG 60.034 60.000 0.00 0.00 0.00 4.61
966 1064 0.683179 GGGTCATTTACAGGGTGGGC 60.683 60.000 0.00 0.00 0.00 5.36
967 1065 0.331616 GGTCATTTACAGGGTGGGCT 59.668 55.000 0.00 0.00 0.00 5.19
968 1066 1.463674 GTCATTTACAGGGTGGGCTG 58.536 55.000 0.00 0.00 0.00 4.85
969 1067 1.004277 GTCATTTACAGGGTGGGCTGA 59.996 52.381 0.00 0.00 0.00 4.26
970 1068 1.707989 TCATTTACAGGGTGGGCTGAA 59.292 47.619 0.00 0.00 0.00 3.02
971 1069 1.818674 CATTTACAGGGTGGGCTGAAC 59.181 52.381 0.00 0.00 0.00 3.18
972 1070 1.145571 TTTACAGGGTGGGCTGAACT 58.854 50.000 0.00 0.00 0.00 3.01
973 1071 1.145571 TTACAGGGTGGGCTGAACTT 58.854 50.000 0.00 0.00 0.00 2.66
974 1072 0.400213 TACAGGGTGGGCTGAACTTG 59.600 55.000 0.00 0.00 0.00 3.16
975 1073 1.151450 CAGGGTGGGCTGAACTTGT 59.849 57.895 0.00 0.00 0.00 3.16
976 1074 0.890996 CAGGGTGGGCTGAACTTGTC 60.891 60.000 0.00 0.00 0.00 3.18
977 1075 1.603739 GGGTGGGCTGAACTTGTCC 60.604 63.158 0.00 0.00 0.00 4.02
978 1076 1.150536 GGTGGGCTGAACTTGTCCA 59.849 57.895 0.00 0.00 36.78 4.02
979 1077 4.898607 TGGGCTGAACTTGTCCAC 57.101 55.556 0.00 0.00 33.83 4.02
980 1078 1.919012 TGGGCTGAACTTGTCCACA 59.081 52.632 0.00 0.00 33.83 4.17
981 1079 0.257328 TGGGCTGAACTTGTCCACAA 59.743 50.000 0.00 0.00 33.83 3.33
989 1087 4.268720 TTGTCCACAAGGCCCAAC 57.731 55.556 0.00 0.00 33.74 3.77
990 1088 1.618030 TTGTCCACAAGGCCCAACT 59.382 52.632 0.00 0.00 33.74 3.16
991 1089 0.754957 TTGTCCACAAGGCCCAACTG 60.755 55.000 0.00 0.00 33.74 3.16
992 1090 1.903404 GTCCACAAGGCCCAACTGG 60.903 63.158 0.00 0.00 33.74 4.00
1002 1100 4.697756 CCAACTGGCGCCTCGGAA 62.698 66.667 29.70 5.44 0.00 4.30
1003 1101 2.436646 CAACTGGCGCCTCGGAAT 60.437 61.111 29.70 4.89 0.00 3.01
1004 1102 1.153449 CAACTGGCGCCTCGGAATA 60.153 57.895 29.70 3.67 0.00 1.75
1005 1103 0.742990 CAACTGGCGCCTCGGAATAA 60.743 55.000 29.70 2.78 0.00 1.40
1051 1150 3.613432 GCTTCCAATTTGCAAGAGACCAG 60.613 47.826 4.22 0.00 0.00 4.00
1144 1243 4.785453 CCTCGAACAGCAGCCCCC 62.785 72.222 0.00 0.00 0.00 5.40
1188 1287 2.600731 CTCCGCCTCCTCCTCTCT 59.399 66.667 0.00 0.00 0.00 3.10
1245 1344 1.081092 CCTCTTCCAGACCCTCCCA 59.919 63.158 0.00 0.00 0.00 4.37
1269 1368 2.348998 CTTCAGTCCCAGGCGCTT 59.651 61.111 7.64 0.00 0.00 4.68
1299 1398 3.684628 TCCTCCGCCTCCCTCCTT 61.685 66.667 0.00 0.00 0.00 3.36
1344 1443 1.214062 CTCTCGCGTCCTTTCTGCT 59.786 57.895 5.77 0.00 0.00 4.24
1350 1449 2.815647 GTCCTTTCTGCTCCGCCG 60.816 66.667 0.00 0.00 0.00 6.46
1531 1630 2.188994 GGCTGCCTCTCGATTGCT 59.811 61.111 12.43 0.00 0.00 3.91
1578 1677 0.463833 CCAGCCGGGATGGTTTAGAC 60.464 60.000 23.14 0.00 41.21 2.59
1614 1722 1.845627 CTCTGGGGCTGGAGCAAGAA 61.846 60.000 0.20 0.00 44.36 2.52
1689 1800 4.455877 CCACTAGGAAATTCAGTTGTCCAC 59.544 45.833 0.00 0.00 36.89 4.02
1808 1919 2.202566 GAATGCTGAGGCGGTACTTAC 58.797 52.381 0.00 0.00 42.25 2.34
1872 1983 6.280643 GGTTCTGCTTTCAAATTTGGTACTT 58.719 36.000 17.90 0.00 0.00 2.24
1883 1994 5.904362 AATTTGGTACTTGAGGAAGATGC 57.096 39.130 0.00 0.00 32.98 3.91
2081 2192 1.094073 AATGCTCCTCAGTGCGATGC 61.094 55.000 0.00 0.00 35.20 3.91
2154 2265 3.327757 TCTGTCATAGGTTGCTTTCAGGT 59.672 43.478 0.00 0.00 0.00 4.00
2297 2408 0.036952 ACACCAAGCACCATCGAGAG 60.037 55.000 0.00 0.00 0.00 3.20
2393 2504 1.512926 GTCTCGAAGTGTTGGCATGT 58.487 50.000 0.00 0.00 0.00 3.21
2418 2529 7.923414 ATGTAAGATTCACAGGGTTTTACTC 57.077 36.000 0.00 0.00 0.00 2.59
2468 2579 8.125448 CACTTTCTTGACTAAAGCTATATTGGC 58.875 37.037 0.00 0.00 37.44 4.52
2509 2620 5.991328 TTGAAGTGATGTCTTGAGTGTTC 57.009 39.130 0.00 0.00 0.00 3.18
2560 2671 6.095300 TGCCATTCAGATTAACCAAGTATGTG 59.905 38.462 0.00 0.00 0.00 3.21
2566 2677 5.643348 CAGATTAACCAAGTATGTGACTGCA 59.357 40.000 0.00 0.00 38.87 4.41
2568 2679 6.886459 AGATTAACCAAGTATGTGACTGCATT 59.114 34.615 0.00 0.00 38.87 3.56
2619 2738 6.708949 AGCTTTTGTAGTTCGAGAAACCATTA 59.291 34.615 0.00 0.00 38.76 1.90
2780 2901 8.707449 TCTAGTAAGGGTTGTCTTTGACTTTTA 58.293 33.333 0.00 0.00 33.15 1.52
2825 2948 4.148696 CCAGAAACAATTGAACAACGATGC 59.851 41.667 13.59 0.00 0.00 3.91
2826 2949 4.739228 CAGAAACAATTGAACAACGATGCA 59.261 37.500 13.59 0.00 0.00 3.96
2827 2950 5.403166 CAGAAACAATTGAACAACGATGCAT 59.597 36.000 13.59 0.00 0.00 3.96
2828 2951 6.581919 CAGAAACAATTGAACAACGATGCATA 59.418 34.615 13.59 0.00 0.00 3.14
2829 2952 7.274033 CAGAAACAATTGAACAACGATGCATAT 59.726 33.333 13.59 0.00 0.00 1.78
2830 2953 8.458052 AGAAACAATTGAACAACGATGCATATA 58.542 29.630 13.59 0.00 0.00 0.86
2831 2954 8.619146 AAACAATTGAACAACGATGCATATAG 57.381 30.769 13.59 0.00 0.00 1.31
2832 2955 6.201517 ACAATTGAACAACGATGCATATAGC 58.798 36.000 13.59 0.00 45.96 2.97
2927 3051 2.232941 ACTCAAATGCAGCAAGATTGGG 59.767 45.455 14.22 14.22 0.00 4.12
2955 3079 2.009774 CGTGAAATCCAGGATGTCCAC 58.990 52.381 16.22 15.30 38.89 4.02
2956 3080 2.615240 CGTGAAATCCAGGATGTCCACA 60.615 50.000 16.22 4.16 38.89 4.17
2958 3082 3.191371 GTGAAATCCAGGATGTCCACAAC 59.809 47.826 16.22 4.83 38.89 3.32
2961 3085 2.270352 TCCAGGATGTCCACAACAAC 57.730 50.000 1.30 0.00 42.37 3.32
2964 3088 2.034558 CCAGGATGTCCACAACAACAAC 59.965 50.000 1.30 0.00 42.37 3.32
2966 3090 3.130164 CAGGATGTCCACAACAACAACAA 59.870 43.478 1.30 0.00 42.37 2.83
2967 3091 3.130340 AGGATGTCCACAACAACAACAAC 59.870 43.478 1.30 0.00 42.37 3.32
2970 3094 3.643763 TGTCCACAACAACAACAACAAC 58.356 40.909 0.00 0.00 34.03 3.32
2973 3097 4.051922 TCCACAACAACAACAACAACAAC 58.948 39.130 0.00 0.00 0.00 3.32
2974 3098 3.804325 CCACAACAACAACAACAACAACA 59.196 39.130 0.00 0.00 0.00 3.33
2975 3099 4.271049 CCACAACAACAACAACAACAACAA 59.729 37.500 0.00 0.00 0.00 2.83
2976 3100 5.193936 CACAACAACAACAACAACAACAAC 58.806 37.500 0.00 0.00 0.00 3.32
2977 3101 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
2978 3102 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
2979 3103 5.396750 ACAACAACAACAACAACAACAAC 57.603 34.783 0.00 0.00 0.00 3.32
2980 3104 4.870426 ACAACAACAACAACAACAACAACA 59.130 33.333 0.00 0.00 0.00 3.33
2981 3105 5.351465 ACAACAACAACAACAACAACAACAA 59.649 32.000 0.00 0.00 0.00 2.83
2982 3106 5.649602 ACAACAACAACAACAACAACAAG 57.350 34.783 0.00 0.00 0.00 3.16
2983 3107 4.509600 ACAACAACAACAACAACAACAAGG 59.490 37.500 0.00 0.00 0.00 3.61
2984 3108 3.063485 ACAACAACAACAACAACAAGGC 58.937 40.909 0.00 0.00 0.00 4.35
2985 3109 2.378445 ACAACAACAACAACAAGGCC 57.622 45.000 0.00 0.00 0.00 5.19
2990 3114 4.385358 ACAACAACAACAAGGCCTTTAG 57.615 40.909 17.61 8.46 0.00 1.85
3004 3128 6.683312 AGGCCTTTAGTCTTAACTGTAGTT 57.317 37.500 0.00 2.51 41.73 2.24
3005 3129 7.787623 AGGCCTTTAGTCTTAACTGTAGTTA 57.212 36.000 0.00 0.50 39.31 2.24
3006 3130 8.198807 AGGCCTTTAGTCTTAACTGTAGTTAA 57.801 34.615 14.50 14.50 45.18 2.01
3007 3131 8.093307 AGGCCTTTAGTCTTAACTGTAGTTAAC 58.907 37.037 0.00 0.00 43.28 2.01
3009 3133 8.706936 GCCTTTAGTCTTAACTGTAGTTAACAC 58.293 37.037 11.98 12.13 43.28 3.32
3050 3347 5.072600 TGTCAATTTCAGTTGTACCTACCCT 59.927 40.000 0.00 0.00 0.00 4.34
3051 3348 6.270463 TGTCAATTTCAGTTGTACCTACCCTA 59.730 38.462 0.00 0.00 0.00 3.53
3052 3349 6.592994 GTCAATTTCAGTTGTACCTACCCTAC 59.407 42.308 0.00 0.00 0.00 3.18
3053 3350 5.688814 ATTTCAGTTGTACCTACCCTACC 57.311 43.478 0.00 0.00 0.00 3.18
3054 3351 3.105959 TCAGTTGTACCTACCCTACCC 57.894 52.381 0.00 0.00 0.00 3.69
3055 3352 2.382993 TCAGTTGTACCTACCCTACCCA 59.617 50.000 0.00 0.00 0.00 4.51
3056 3353 3.175594 CAGTTGTACCTACCCTACCCAA 58.824 50.000 0.00 0.00 0.00 4.12
3057 3354 3.197116 CAGTTGTACCTACCCTACCCAAG 59.803 52.174 0.00 0.00 0.00 3.61
3058 3355 3.078000 AGTTGTACCTACCCTACCCAAGA 59.922 47.826 0.00 0.00 0.00 3.02
3059 3356 3.393426 TGTACCTACCCTACCCAAGAG 57.607 52.381 0.00 0.00 0.00 2.85
3060 3357 2.023695 TGTACCTACCCTACCCAAGAGG 60.024 54.545 0.00 0.00 43.78 3.69
3061 3358 0.326332 ACCTACCCTACCCAAGAGGC 60.326 60.000 0.00 0.00 40.58 4.70
3062 3359 1.054978 CCTACCCTACCCAAGAGGCC 61.055 65.000 0.00 0.00 40.58 5.19
3078 3375 1.992557 AGGCCAAGACCATAGGTTTCA 59.007 47.619 5.01 0.00 35.25 2.69
3096 3393 7.879070 AGGTTTCAATGTGATATGTATGCATC 58.121 34.615 0.19 0.00 36.58 3.91
3315 3613 4.299155 CGAGTAGTTTCTGCTCTTGAACA 58.701 43.478 11.63 0.00 40.25 3.18
3331 3637 4.271696 TGAACAAATGAGTCGAGGATGT 57.728 40.909 0.00 0.00 0.00 3.06
3334 3640 4.271696 ACAAATGAGTCGAGGATGTGAA 57.728 40.909 0.00 0.00 0.00 3.18
3429 3735 1.053048 CGTATCATTAGCGCAGTCGG 58.947 55.000 11.47 0.00 35.95 4.79
3430 3736 0.784778 GTATCATTAGCGCAGTCGGC 59.215 55.000 11.47 0.00 39.90 5.54
3431 3737 0.387565 TATCATTAGCGCAGTCGGCA 59.612 50.000 11.47 0.00 45.17 5.69
3432 3738 0.250038 ATCATTAGCGCAGTCGGCAT 60.250 50.000 11.47 0.00 45.17 4.40
3433 3739 0.387565 TCATTAGCGCAGTCGGCATA 59.612 50.000 11.47 0.00 45.17 3.14
3434 3740 0.508641 CATTAGCGCAGTCGGCATAC 59.491 55.000 11.47 0.00 45.17 2.39
3435 3741 0.104120 ATTAGCGCAGTCGGCATACA 59.896 50.000 11.47 0.00 45.17 2.29
3436 3742 0.104120 TTAGCGCAGTCGGCATACAT 59.896 50.000 11.47 0.00 45.17 2.29
3437 3743 0.597377 TAGCGCAGTCGGCATACATG 60.597 55.000 11.47 0.00 45.17 3.21
3438 3744 2.173669 GCGCAGTCGGCATACATGT 61.174 57.895 0.30 2.69 45.17 3.21
3439 3745 1.705337 GCGCAGTCGGCATACATGTT 61.705 55.000 2.30 0.00 45.17 2.71
3440 3746 0.726827 CGCAGTCGGCATACATGTTT 59.273 50.000 2.30 0.00 45.17 2.83
3441 3747 1.267532 CGCAGTCGGCATACATGTTTC 60.268 52.381 2.30 0.00 45.17 2.78
3442 3748 1.064060 GCAGTCGGCATACATGTTTCC 59.936 52.381 2.30 2.00 43.97 3.13
3443 3749 2.632377 CAGTCGGCATACATGTTTCCT 58.368 47.619 2.30 0.00 0.00 3.36
3444 3750 2.352651 CAGTCGGCATACATGTTTCCTG 59.647 50.000 2.30 0.00 0.00 3.86
3445 3751 2.027192 AGTCGGCATACATGTTTCCTGT 60.027 45.455 2.30 0.00 0.00 4.00
3446 3752 2.747446 GTCGGCATACATGTTTCCTGTT 59.253 45.455 2.30 0.00 0.00 3.16
3447 3753 3.936453 GTCGGCATACATGTTTCCTGTTA 59.064 43.478 2.30 0.00 0.00 2.41
3448 3754 3.936453 TCGGCATACATGTTTCCTGTTAC 59.064 43.478 2.30 0.00 0.00 2.50
3449 3755 3.938963 CGGCATACATGTTTCCTGTTACT 59.061 43.478 2.30 0.00 0.00 2.24
3450 3756 4.201812 CGGCATACATGTTTCCTGTTACTG 60.202 45.833 2.30 0.00 0.00 2.74
3451 3757 4.700213 GGCATACATGTTTCCTGTTACTGT 59.300 41.667 2.30 0.00 0.00 3.55
3452 3758 5.183140 GGCATACATGTTTCCTGTTACTGTT 59.817 40.000 2.30 0.00 0.00 3.16
3453 3759 6.294508 GGCATACATGTTTCCTGTTACTGTTT 60.295 38.462 2.30 0.00 0.00 2.83
3454 3760 6.801862 GCATACATGTTTCCTGTTACTGTTTC 59.198 38.462 2.30 0.00 0.00 2.78
3455 3761 5.418310 ACATGTTTCCTGTTACTGTTTCG 57.582 39.130 0.00 0.00 0.00 3.46
3456 3762 4.879545 ACATGTTTCCTGTTACTGTTTCGT 59.120 37.500 0.00 0.00 0.00 3.85
3457 3763 5.355910 ACATGTTTCCTGTTACTGTTTCGTT 59.644 36.000 0.00 0.00 0.00 3.85
3458 3764 5.224562 TGTTTCCTGTTACTGTTTCGTTG 57.775 39.130 0.00 0.00 0.00 4.10
3459 3765 3.955771 TTCCTGTTACTGTTTCGTTGC 57.044 42.857 0.00 0.00 0.00 4.17
3460 3766 3.188159 TCCTGTTACTGTTTCGTTGCT 57.812 42.857 0.00 0.00 0.00 3.91
3461 3767 4.325028 TCCTGTTACTGTTTCGTTGCTA 57.675 40.909 0.00 0.00 0.00 3.49
3462 3768 4.053295 TCCTGTTACTGTTTCGTTGCTAC 58.947 43.478 0.00 0.00 0.00 3.58
3463 3769 3.805422 CCTGTTACTGTTTCGTTGCTACA 59.195 43.478 0.00 0.00 0.00 2.74
3464 3770 4.318546 CCTGTTACTGTTTCGTTGCTACAC 60.319 45.833 0.00 0.00 0.00 2.90
3465 3771 4.182339 TGTTACTGTTTCGTTGCTACACA 58.818 39.130 0.00 0.00 0.00 3.72
3466 3772 4.630505 TGTTACTGTTTCGTTGCTACACAA 59.369 37.500 0.00 0.00 35.33 3.33
3479 3785 5.722021 TGCTACACAACTATTCTGAGTCA 57.278 39.130 0.00 0.00 0.00 3.41
3480 3786 6.286240 TGCTACACAACTATTCTGAGTCAT 57.714 37.500 0.00 0.00 0.00 3.06
3481 3787 7.404671 TGCTACACAACTATTCTGAGTCATA 57.595 36.000 0.00 0.00 0.00 2.15
3482 3788 8.011844 TGCTACACAACTATTCTGAGTCATAT 57.988 34.615 0.00 0.00 0.00 1.78
3483 3789 8.478066 TGCTACACAACTATTCTGAGTCATATT 58.522 33.333 0.00 0.00 0.00 1.28
3484 3790 9.319143 GCTACACAACTATTCTGAGTCATATTT 57.681 33.333 0.00 0.00 0.00 1.40
3487 3793 9.155975 ACACAACTATTCTGAGTCATATTTCAC 57.844 33.333 0.00 0.00 0.00 3.18
3488 3794 9.154847 CACAACTATTCTGAGTCATATTTCACA 57.845 33.333 0.00 0.00 0.00 3.58
3489 3795 9.896645 ACAACTATTCTGAGTCATATTTCACAT 57.103 29.630 0.00 0.00 0.00 3.21
3491 3797 8.899427 ACTATTCTGAGTCATATTTCACATGG 57.101 34.615 0.00 0.00 0.00 3.66
3492 3798 6.630444 ATTCTGAGTCATATTTCACATGGC 57.370 37.500 0.00 0.00 0.00 4.40
3493 3799 4.122046 TCTGAGTCATATTTCACATGGCG 58.878 43.478 0.00 0.00 33.18 5.69
3494 3800 3.872696 TGAGTCATATTTCACATGGCGT 58.127 40.909 0.00 0.00 33.18 5.68
3495 3801 5.017294 TGAGTCATATTTCACATGGCGTA 57.983 39.130 0.00 0.00 33.18 4.42
3496 3802 5.610398 TGAGTCATATTTCACATGGCGTAT 58.390 37.500 0.00 0.00 33.18 3.06
3497 3803 5.696270 TGAGTCATATTTCACATGGCGTATC 59.304 40.000 0.00 0.00 33.18 2.24
3498 3804 5.610398 AGTCATATTTCACATGGCGTATCA 58.390 37.500 0.00 0.00 33.18 2.15
3499 3805 6.233434 AGTCATATTTCACATGGCGTATCAT 58.767 36.000 0.00 0.00 33.18 2.45
3500 3806 6.712095 AGTCATATTTCACATGGCGTATCATT 59.288 34.615 0.00 0.00 33.18 2.57
3501 3807 7.877612 AGTCATATTTCACATGGCGTATCATTA 59.122 33.333 0.00 0.00 33.18 1.90
3502 3808 8.171196 GTCATATTTCACATGGCGTATCATTAG 58.829 37.037 0.00 0.00 0.00 1.73
3503 3809 4.811555 TTTCACATGGCGTATCATTAGC 57.188 40.909 0.00 0.00 0.00 3.09
3504 3810 2.403259 TCACATGGCGTATCATTAGCG 58.597 47.619 0.00 0.00 0.00 4.26
3575 3881 6.456795 AGTAAGCTCTGGGATAAATTTTGC 57.543 37.500 0.00 0.00 0.00 3.68
3599 3905 9.515226 TGCCTAAAGTGACTTTGTTATATTTCT 57.485 29.630 20.06 0.00 35.21 2.52
3634 3940 4.363138 GAACATTTTTATAGCCTGCAGCC 58.637 43.478 8.66 0.00 45.47 4.85
3783 4089 1.270732 CCACTTGTCTTGCTCAGAGCT 60.271 52.381 23.15 0.00 42.97 4.09
3796 4104 4.709886 TGCTCAGAGCTGGTACATAAAGTA 59.290 41.667 23.15 0.00 42.97 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
305 309 6.367421 TCACCGTATTGAAGAAAAATGTTCG 58.633 36.000 0.00 0.00 0.00 3.95
939 1037 0.906775 TGTAAATGACCCCCTCCGTC 59.093 55.000 0.00 0.00 0.00 4.79
940 1038 0.909623 CTGTAAATGACCCCCTCCGT 59.090 55.000 0.00 0.00 0.00 4.69
941 1039 0.180406 CCTGTAAATGACCCCCTCCG 59.820 60.000 0.00 0.00 0.00 4.63
942 1040 0.551396 CCCTGTAAATGACCCCCTCC 59.449 60.000 0.00 0.00 0.00 4.30
943 1041 1.064685 CACCCTGTAAATGACCCCCTC 60.065 57.143 0.00 0.00 0.00 4.30
944 1042 0.999712 CACCCTGTAAATGACCCCCT 59.000 55.000 0.00 0.00 0.00 4.79
945 1043 0.033503 CCACCCTGTAAATGACCCCC 60.034 60.000 0.00 0.00 0.00 5.40
946 1044 0.033503 CCCACCCTGTAAATGACCCC 60.034 60.000 0.00 0.00 0.00 4.95
947 1045 0.683179 GCCCACCCTGTAAATGACCC 60.683 60.000 0.00 0.00 0.00 4.46
948 1046 0.331616 AGCCCACCCTGTAAATGACC 59.668 55.000 0.00 0.00 0.00 4.02
949 1047 1.004277 TCAGCCCACCCTGTAAATGAC 59.996 52.381 0.00 0.00 34.47 3.06
950 1048 1.367346 TCAGCCCACCCTGTAAATGA 58.633 50.000 0.00 0.00 34.47 2.57
951 1049 1.818674 GTTCAGCCCACCCTGTAAATG 59.181 52.381 0.00 0.00 34.47 2.32
952 1050 1.710809 AGTTCAGCCCACCCTGTAAAT 59.289 47.619 0.00 0.00 34.47 1.40
953 1051 1.145571 AGTTCAGCCCACCCTGTAAA 58.854 50.000 0.00 0.00 34.47 2.01
954 1052 1.145571 AAGTTCAGCCCACCCTGTAA 58.854 50.000 0.00 0.00 34.47 2.41
955 1053 0.400213 CAAGTTCAGCCCACCCTGTA 59.600 55.000 0.00 0.00 34.47 2.74
956 1054 1.151450 CAAGTTCAGCCCACCCTGT 59.849 57.895 0.00 0.00 34.47 4.00
957 1055 0.890996 GACAAGTTCAGCCCACCCTG 60.891 60.000 0.00 0.00 0.00 4.45
958 1056 1.456287 GACAAGTTCAGCCCACCCT 59.544 57.895 0.00 0.00 0.00 4.34
959 1057 1.603739 GGACAAGTTCAGCCCACCC 60.604 63.158 0.00 0.00 0.00 4.61
960 1058 1.150536 TGGACAAGTTCAGCCCACC 59.849 57.895 0.00 0.00 0.00 4.61
961 1059 0.465460 TGTGGACAAGTTCAGCCCAC 60.465 55.000 0.00 0.00 45.47 4.61
962 1060 0.257328 TTGTGGACAAGTTCAGCCCA 59.743 50.000 0.00 0.00 0.00 5.36
963 1061 0.954452 CTTGTGGACAAGTTCAGCCC 59.046 55.000 10.80 0.00 46.11 5.19
972 1070 0.754957 CAGTTGGGCCTTGTGGACAA 60.755 55.000 4.53 0.00 45.45 3.18
973 1071 1.152777 CAGTTGGGCCTTGTGGACA 60.153 57.895 4.53 0.00 45.45 4.02
974 1072 1.903404 CCAGTTGGGCCTTGTGGAC 60.903 63.158 4.53 0.00 41.93 4.02
975 1073 2.520458 CCAGTTGGGCCTTGTGGA 59.480 61.111 4.53 0.00 34.57 4.02
985 1083 2.587322 TATTCCGAGGCGCCAGTTGG 62.587 60.000 31.54 22.17 38.53 3.77
986 1084 0.742990 TTATTCCGAGGCGCCAGTTG 60.743 55.000 31.54 12.99 0.00 3.16
987 1085 0.035820 TTTATTCCGAGGCGCCAGTT 60.036 50.000 31.54 8.11 0.00 3.16
988 1086 0.035820 TTTTATTCCGAGGCGCCAGT 60.036 50.000 31.54 9.09 0.00 4.00
989 1087 1.091537 TTTTTATTCCGAGGCGCCAG 58.908 50.000 31.54 21.94 0.00 4.85
990 1088 3.251332 TTTTTATTCCGAGGCGCCA 57.749 47.368 31.54 7.75 0.00 5.69
1025 1123 1.001181 TCTTGCAAATTGGAAGCAGCC 59.999 47.619 20.21 0.00 44.16 4.85
1029 1127 2.297033 TGGTCTCTTGCAAATTGGAAGC 59.703 45.455 20.21 8.59 44.16 3.86
1031 1129 3.565307 ACTGGTCTCTTGCAAATTGGAA 58.435 40.909 0.00 0.00 0.00 3.53
1032 1130 3.228188 ACTGGTCTCTTGCAAATTGGA 57.772 42.857 0.00 0.00 0.00 3.53
1051 1150 2.438434 CCACGGCTCCATGGGAAC 60.438 66.667 13.02 1.12 31.83 3.62
1177 1276 2.124693 GCACCGGAGAGAGGAGGAG 61.125 68.421 9.46 0.00 0.00 3.69
1245 1344 1.763770 CTGGGACTGAAGCAAGGGT 59.236 57.895 0.00 0.00 0.00 4.34
1269 1368 0.614979 CGGAGGAGGACAGGAAGGAA 60.615 60.000 0.00 0.00 0.00 3.36
1350 1449 2.359478 AATTCGTCACACCGGCCC 60.359 61.111 0.00 0.00 0.00 5.80
1362 1461 2.890474 CGGCGGACCCAGAATTCG 60.890 66.667 0.00 0.00 0.00 3.34
1531 1630 3.410628 ACCCGGCATCATGCTCCA 61.411 61.111 10.11 0.00 44.28 3.86
1561 1660 1.520666 CGTCTAAACCATCCCGGCT 59.479 57.895 0.00 0.00 39.03 5.52
1578 1677 1.344763 AGAGACTCCAACCAAACTCCG 59.655 52.381 0.00 0.00 0.00 4.63
1585 1684 2.224159 GCCCCAGAGACTCCAACCA 61.224 63.158 0.00 0.00 0.00 3.67
1614 1722 3.181471 CCTCCTGCATGAACGAATACTCT 60.181 47.826 0.00 0.00 0.00 3.24
1683 1794 0.972983 GAGCTAGAGCCCTGTGGACA 60.973 60.000 0.00 0.00 43.38 4.02
1689 1800 1.774110 TCTTCAGAGCTAGAGCCCTG 58.226 55.000 6.70 6.70 46.55 4.45
1808 1919 2.681097 GCTTCCCAAGGCTGTACTAAGG 60.681 54.545 0.00 0.00 0.00 2.69
1821 1932 2.040145 TGTGTCATCATCAGCTTCCCAA 59.960 45.455 0.00 0.00 0.00 4.12
1883 1994 1.438814 GGGCCTTTTCCATGCATCG 59.561 57.895 0.84 0.00 0.00 3.84
2081 2192 0.439985 CTTGACAATCCGTGTGAGCG 59.560 55.000 0.00 0.00 41.96 5.03
2154 2265 1.178276 GTTTCCGCTCTCTCTCCTCA 58.822 55.000 0.00 0.00 0.00 3.86
2297 2408 4.077300 TCATCAATCATGGACACTAGCC 57.923 45.455 0.00 0.00 32.64 3.93
2393 2504 7.762615 CGAGTAAAACCCTGTGAATCTTACATA 59.237 37.037 0.00 0.00 0.00 2.29
2418 2529 0.525311 TTGTCTCAGCAGCTCTCTCG 59.475 55.000 0.00 0.00 0.00 4.04
2468 2579 1.315257 ATTAGCAGGCCGCAGTTTGG 61.315 55.000 19.30 0.00 46.13 3.28
2509 2620 2.648059 CCCACCAGGAGCTTATCTTTG 58.352 52.381 0.00 0.00 38.24 2.77
2560 2671 8.538409 AAACAAAATAATCCTTCAATGCAGTC 57.462 30.769 0.00 0.00 0.00 3.51
2619 2738 5.842907 TGATTGCTACGCTGTATATGAAGT 58.157 37.500 0.00 0.00 0.00 3.01
2746 2867 7.472334 AGACAACCCTTACTAGAAATCGTAA 57.528 36.000 0.00 0.00 0.00 3.18
2749 2870 6.872020 TCAAAGACAACCCTTACTAGAAATCG 59.128 38.462 0.00 0.00 0.00 3.34
2780 2901 4.760204 GGTACTACACAAGCTGTCCATTTT 59.240 41.667 0.00 0.00 33.91 1.82
2825 2948 6.756542 TGCTACTTTGCGTATATGGCTATATG 59.243 38.462 12.50 0.93 35.36 1.78
2826 2949 6.873997 TGCTACTTTGCGTATATGGCTATAT 58.126 36.000 7.78 7.78 35.36 0.86
2827 2950 6.275494 TGCTACTTTGCGTATATGGCTATA 57.725 37.500 0.00 0.00 35.36 1.31
2828 2951 5.147330 TGCTACTTTGCGTATATGGCTAT 57.853 39.130 0.00 0.00 35.36 2.97
2829 2952 4.594123 TGCTACTTTGCGTATATGGCTA 57.406 40.909 0.00 0.00 35.36 3.93
2830 2953 3.469008 TGCTACTTTGCGTATATGGCT 57.531 42.857 0.00 0.00 35.36 4.75
2831 2954 3.560068 ACTTGCTACTTTGCGTATATGGC 59.440 43.478 0.00 0.00 35.36 4.40
2832 2955 6.838198 TTACTTGCTACTTTGCGTATATGG 57.162 37.500 0.00 0.00 35.36 2.74
2927 3051 3.861840 TCCTGGATTTCACGACAATCTC 58.138 45.455 0.00 0.00 32.13 2.75
2955 3079 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
2956 3080 5.351465 TGTTGTTGTTGTTGTTGTTGTTGTT 59.649 32.000 0.00 0.00 0.00 2.83
2958 3082 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
2961 3085 4.610231 GCCTTGTTGTTGTTGTTGTTGTTG 60.610 41.667 0.00 0.00 0.00 3.33
2964 3088 2.414825 GGCCTTGTTGTTGTTGTTGTTG 59.585 45.455 0.00 0.00 0.00 3.33
2966 3090 1.899142 AGGCCTTGTTGTTGTTGTTGT 59.101 42.857 0.00 0.00 0.00 3.32
2967 3091 2.671130 AGGCCTTGTTGTTGTTGTTG 57.329 45.000 0.00 0.00 0.00 3.33
2970 3094 4.097892 AGACTAAAGGCCTTGTTGTTGTTG 59.902 41.667 21.33 4.83 0.00 3.33
2973 3097 4.918810 AAGACTAAAGGCCTTGTTGTTG 57.081 40.909 21.33 6.79 0.00 3.33
2974 3098 6.039382 CAGTTAAGACTAAAGGCCTTGTTGTT 59.961 38.462 21.33 13.14 33.90 2.83
2975 3099 5.531287 CAGTTAAGACTAAAGGCCTTGTTGT 59.469 40.000 21.33 17.67 33.90 3.32
2976 3100 5.531287 ACAGTTAAGACTAAAGGCCTTGTTG 59.469 40.000 21.33 14.45 33.90 3.33
2977 3101 5.691896 ACAGTTAAGACTAAAGGCCTTGTT 58.308 37.500 21.33 6.88 33.90 2.83
2978 3102 5.306114 ACAGTTAAGACTAAAGGCCTTGT 57.694 39.130 21.33 14.08 33.90 3.16
2979 3103 6.465084 ACTACAGTTAAGACTAAAGGCCTTG 58.535 40.000 21.33 10.33 33.90 3.61
2980 3104 6.683312 ACTACAGTTAAGACTAAAGGCCTT 57.317 37.500 13.78 13.78 33.90 4.35
2981 3105 6.683312 AACTACAGTTAAGACTAAAGGCCT 57.317 37.500 0.00 0.00 36.32 5.19
3004 3128 9.562408 TGACAACTGGATAATTGTTAAGTGTTA 57.438 29.630 0.00 0.00 39.13 2.41
3005 3129 8.458573 TGACAACTGGATAATTGTTAAGTGTT 57.541 30.769 0.00 0.00 39.13 3.32
3006 3130 8.458573 TTGACAACTGGATAATTGTTAAGTGT 57.541 30.769 0.00 0.00 39.13 3.55
3007 3131 9.912634 AATTGACAACTGGATAATTGTTAAGTG 57.087 29.630 0.00 0.00 39.13 3.16
3026 3323 5.072600 AGGGTAGGTACAACTGAAATTGACA 59.927 40.000 0.00 0.00 33.57 3.58
3050 3347 0.474854 TGGTCTTGGCCTCTTGGGTA 60.475 55.000 3.32 0.00 37.43 3.69
3051 3348 1.142688 ATGGTCTTGGCCTCTTGGGT 61.143 55.000 3.32 0.00 37.43 4.51
3052 3349 0.918983 TATGGTCTTGGCCTCTTGGG 59.081 55.000 3.32 0.00 38.36 4.12
3053 3350 1.133976 CCTATGGTCTTGGCCTCTTGG 60.134 57.143 3.32 0.00 0.00 3.61
3054 3351 1.561542 ACCTATGGTCTTGGCCTCTTG 59.438 52.381 3.32 0.00 0.00 3.02
3055 3352 1.972588 ACCTATGGTCTTGGCCTCTT 58.027 50.000 3.32 0.00 0.00 2.85
3056 3353 1.972588 AACCTATGGTCTTGGCCTCT 58.027 50.000 3.32 0.00 33.12 3.69
3057 3354 2.026262 TGAAACCTATGGTCTTGGCCTC 60.026 50.000 3.32 0.00 33.12 4.70
3058 3355 1.992557 TGAAACCTATGGTCTTGGCCT 59.007 47.619 3.32 0.00 33.12 5.19
3059 3356 2.507407 TGAAACCTATGGTCTTGGCC 57.493 50.000 0.00 0.00 33.12 5.36
3060 3357 3.763897 ACATTGAAACCTATGGTCTTGGC 59.236 43.478 0.00 0.00 33.12 4.52
3061 3358 5.009631 TCACATTGAAACCTATGGTCTTGG 58.990 41.667 0.00 0.00 33.12 3.61
3062 3359 6.764308 ATCACATTGAAACCTATGGTCTTG 57.236 37.500 0.00 0.00 33.12 3.02
3078 3375 6.673154 CATCGGATGCATACATATCACATT 57.327 37.500 10.18 0.00 36.35 2.71
3096 3393 3.440173 ACAAACTAACATGAAGGCATCGG 59.560 43.478 0.00 0.00 30.68 4.18
3288 3586 2.891580 AGAGCAGAAACTACTCGGTTCA 59.108 45.455 0.00 0.00 35.56 3.18
3315 3613 5.248640 ACATTTCACATCCTCGACTCATTT 58.751 37.500 0.00 0.00 0.00 2.32
3331 3637 8.109705 ACATGTATGCACTAGAAAACATTTCA 57.890 30.769 0.00 0.00 0.00 2.69
3334 3640 8.028938 GGAAACATGTATGCACTAGAAAACATT 58.971 33.333 0.00 0.00 0.00 2.71
3424 3730 2.027192 ACAGGAAACATGTATGCCGACT 60.027 45.455 0.00 0.00 0.00 4.18
3425 3731 2.356135 ACAGGAAACATGTATGCCGAC 58.644 47.619 0.00 0.00 0.00 4.79
3426 3732 2.779755 ACAGGAAACATGTATGCCGA 57.220 45.000 0.00 0.00 0.00 5.54
3427 3733 3.938963 AGTAACAGGAAACATGTATGCCG 59.061 43.478 0.00 1.01 0.00 5.69
3428 3734 4.700213 ACAGTAACAGGAAACATGTATGCC 59.300 41.667 0.00 0.65 0.00 4.40
3429 3735 5.880054 ACAGTAACAGGAAACATGTATGC 57.120 39.130 0.00 0.00 0.00 3.14
3430 3736 7.015289 CGAAACAGTAACAGGAAACATGTATG 58.985 38.462 0.00 0.00 0.00 2.39
3431 3737 6.708949 ACGAAACAGTAACAGGAAACATGTAT 59.291 34.615 0.00 0.00 0.00 2.29
3432 3738 6.050432 ACGAAACAGTAACAGGAAACATGTA 58.950 36.000 0.00 0.00 0.00 2.29
3433 3739 4.879545 ACGAAACAGTAACAGGAAACATGT 59.120 37.500 0.00 0.00 0.00 3.21
3434 3740 5.418310 ACGAAACAGTAACAGGAAACATG 57.582 39.130 0.00 0.00 0.00 3.21
3435 3741 5.732247 GCAACGAAACAGTAACAGGAAACAT 60.732 40.000 0.00 0.00 0.00 2.71
3436 3742 4.437659 GCAACGAAACAGTAACAGGAAACA 60.438 41.667 0.00 0.00 0.00 2.83
3437 3743 4.033019 GCAACGAAACAGTAACAGGAAAC 58.967 43.478 0.00 0.00 0.00 2.78
3438 3744 3.942748 AGCAACGAAACAGTAACAGGAAA 59.057 39.130 0.00 0.00 0.00 3.13
3439 3745 3.537580 AGCAACGAAACAGTAACAGGAA 58.462 40.909 0.00 0.00 0.00 3.36
3440 3746 3.188159 AGCAACGAAACAGTAACAGGA 57.812 42.857 0.00 0.00 0.00 3.86
3441 3747 3.805422 TGTAGCAACGAAACAGTAACAGG 59.195 43.478 0.00 0.00 0.00 4.00
3442 3748 4.269123 TGTGTAGCAACGAAACAGTAACAG 59.731 41.667 0.00 0.00 0.00 3.16
3443 3749 4.182339 TGTGTAGCAACGAAACAGTAACA 58.818 39.130 0.00 0.00 0.00 2.41
3444 3750 4.782252 TGTGTAGCAACGAAACAGTAAC 57.218 40.909 0.00 0.00 0.00 2.50
3445 3751 5.146482 GTTGTGTAGCAACGAAACAGTAA 57.854 39.130 0.00 0.00 46.52 2.24
3446 3752 4.782252 GTTGTGTAGCAACGAAACAGTA 57.218 40.909 0.00 0.00 46.52 2.74
3447 3753 3.668596 GTTGTGTAGCAACGAAACAGT 57.331 42.857 0.00 0.00 46.52 3.55
3456 3762 6.096673 TGACTCAGAATAGTTGTGTAGCAA 57.903 37.500 0.00 0.00 34.16 3.91
3457 3763 5.722021 TGACTCAGAATAGTTGTGTAGCA 57.278 39.130 0.00 0.00 0.00 3.49
3458 3764 8.879342 AATATGACTCAGAATAGTTGTGTAGC 57.121 34.615 0.00 0.00 0.00 3.58
3461 3767 9.155975 GTGAAATATGACTCAGAATAGTTGTGT 57.844 33.333 0.00 0.00 0.00 3.72
3462 3768 9.154847 TGTGAAATATGACTCAGAATAGTTGTG 57.845 33.333 0.00 0.00 0.00 3.33
3463 3769 9.896645 ATGTGAAATATGACTCAGAATAGTTGT 57.103 29.630 0.00 0.00 0.00 3.32
3465 3771 9.334947 CCATGTGAAATATGACTCAGAATAGTT 57.665 33.333 0.00 0.00 37.69 2.24
3466 3772 7.443575 GCCATGTGAAATATGACTCAGAATAGT 59.556 37.037 0.00 0.00 37.69 2.12
3467 3773 7.359849 CGCCATGTGAAATATGACTCAGAATAG 60.360 40.741 0.00 0.00 37.69 1.73
3468 3774 6.424812 CGCCATGTGAAATATGACTCAGAATA 59.575 38.462 0.00 0.00 37.69 1.75
3469 3775 5.237996 CGCCATGTGAAATATGACTCAGAAT 59.762 40.000 0.00 0.00 37.69 2.40
3470 3776 4.571984 CGCCATGTGAAATATGACTCAGAA 59.428 41.667 0.00 0.00 37.69 3.02
3471 3777 4.122046 CGCCATGTGAAATATGACTCAGA 58.878 43.478 0.00 0.00 37.69 3.27
3472 3778 3.873361 ACGCCATGTGAAATATGACTCAG 59.127 43.478 0.00 0.00 37.69 3.35
3473 3779 3.872696 ACGCCATGTGAAATATGACTCA 58.127 40.909 0.00 0.00 37.69 3.41
3474 3780 5.696270 TGATACGCCATGTGAAATATGACTC 59.304 40.000 0.00 0.00 37.69 3.36
3475 3781 5.610398 TGATACGCCATGTGAAATATGACT 58.390 37.500 0.00 0.00 37.69 3.41
3476 3782 5.922739 TGATACGCCATGTGAAATATGAC 57.077 39.130 0.00 0.00 37.69 3.06
3477 3783 7.148423 GCTAATGATACGCCATGTGAAATATGA 60.148 37.037 0.00 0.00 37.69 2.15
3478 3784 6.963242 GCTAATGATACGCCATGTGAAATATG 59.037 38.462 0.00 0.00 34.92 1.78
3479 3785 6.183360 CGCTAATGATACGCCATGTGAAATAT 60.183 38.462 0.00 0.00 0.00 1.28
3480 3786 5.120053 CGCTAATGATACGCCATGTGAAATA 59.880 40.000 0.00 0.00 0.00 1.40
3481 3787 4.083855 CGCTAATGATACGCCATGTGAAAT 60.084 41.667 0.00 0.00 0.00 2.17
3482 3788 3.247411 CGCTAATGATACGCCATGTGAAA 59.753 43.478 0.00 0.00 0.00 2.69
3483 3789 2.799978 CGCTAATGATACGCCATGTGAA 59.200 45.455 0.00 0.00 0.00 3.18
3484 3790 2.403259 CGCTAATGATACGCCATGTGA 58.597 47.619 0.00 0.00 0.00 3.58
3485 3791 1.136252 GCGCTAATGATACGCCATGTG 60.136 52.381 0.00 0.00 46.63 3.21
3486 3792 1.148310 GCGCTAATGATACGCCATGT 58.852 50.000 0.00 0.00 46.63 3.21
3487 3793 3.955429 GCGCTAATGATACGCCATG 57.045 52.632 0.00 0.00 46.63 3.66
3492 3798 1.053048 CCGACTGCGCTAATGATACG 58.947 55.000 9.73 3.33 35.83 3.06
3493 3799 0.784778 GCCGACTGCGCTAATGATAC 59.215 55.000 9.73 0.00 35.83 2.24
3494 3800 3.195041 GCCGACTGCGCTAATGATA 57.805 52.632 9.73 0.00 35.83 2.15
3495 3801 4.033894 GCCGACTGCGCTAATGAT 57.966 55.556 9.73 0.00 35.83 2.45
3550 3856 7.255277 GGCAAAATTTATCCCAGAGCTTACTAG 60.255 40.741 0.00 0.00 0.00 2.57
3634 3940 9.443283 GTGTTAAATGATAGCTGCTAAAGAATG 57.557 33.333 14.13 0.00 0.00 2.67
3783 4089 7.446769 TGAGTCAAAAGCTACTTTATGTACCA 58.553 34.615 0.00 0.00 31.99 3.25


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

AutoCloner maintained by Alex Coulton.