Multiple sequence alignment - TraesCS3D01G304500

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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 TraesCS3D01G304500 chr3D 100.000 4043 0 0 1 4043 418721560 418725602 0.000000e+00 7467.0
1 TraesCS3D01G304500 chr3D 93.509 570 35 2 296 864 418721627 418722195 0.000000e+00 846.0
2 TraesCS3D01G304500 chr3D 93.509 570 35 2 68 636 418721855 418722423 0.000000e+00 846.0
3 TraesCS3D01G304500 chr3D 92.941 340 23 1 524 862 418721627 418721966 1.010000e-135 494.0
4 TraesCS3D01G304500 chr3D 92.941 340 23 1 68 407 418722083 418722421 1.010000e-135 494.0
5 TraesCS3D01G304500 chr3D 92.982 114 8 0 751 864 418721627 418721740 2.500000e-37 167.0
6 TraesCS3D01G304500 chr3B 95.980 3209 71 25 867 4043 545061452 545064634 0.000000e+00 5158.0
7 TraesCS3D01G304500 chr3B 92.815 682 45 4 79 759 545060807 545061485 0.000000e+00 985.0
8 TraesCS3D01G304500 chr3B 94.633 559 26 4 307 864 545060807 545061362 0.000000e+00 863.0
9 TraesCS3D01G304500 chr3B 92.688 465 34 0 68 532 545061021 545061485 0.000000e+00 671.0
10 TraesCS3D01G304500 chr3B 93.656 331 17 3 535 864 545060807 545061134 3.630000e-135 492.0
11 TraesCS3D01G304500 chr3B 95.608 296 9 2 17 308 545060398 545060693 4.730000e-129 472.0
12 TraesCS3D01G304500 chr3B 94.043 235 14 0 70 304 545061251 545061485 1.380000e-94 357.0
13 TraesCS3D01G304500 chr3B 91.393 244 18 1 296 536 545060450 545060693 8.380000e-87 331.0
14 TraesCS3D01G304500 chr3B 92.241 116 6 1 751 863 545060450 545060565 1.160000e-35 161.0
15 TraesCS3D01G304500 chr3B 92.500 40 3 0 3137 3176 59958585 59958624 1.570000e-04 58.4
16 TraesCS3D01G304500 chr3A 95.413 3030 89 22 1006 4021 532454826 532451833 0.000000e+00 4780.0
17 TraesCS3D01G304500 chr3A 94.359 585 22 3 428 1011 532466902 532466328 0.000000e+00 887.0
18 TraesCS3D01G304500 chr3A 96.818 440 12 2 200 638 532466902 532466464 0.000000e+00 734.0
19 TraesCS3D01G304500 chr3A 94.477 344 19 0 68 411 532466807 532466464 7.690000e-147 531.0
20 TraesCS3D01G304500 chr3A 95.192 208 9 1 655 862 532466902 532466696 1.080000e-85 327.0
21 TraesCS3D01G304500 chr3A 96.410 195 6 1 1 194 532467134 532466940 1.810000e-83 320.0
22 TraesCS3D01G304500 chr3A 93.750 128 7 1 524 650 532467066 532466939 1.480000e-44 191.0
23 TraesCS3D01G304500 chr3A 94.737 114 6 0 751 864 532467066 532466953 1.150000e-40 178.0
24 TraesCS3D01G304500 chr3A 93.966 116 7 0 68 183 532466579 532466464 4.150000e-40 176.0
25 TraesCS3D01G304500 chr7A 73.154 1598 372 42 1111 2677 91647380 91648951 4.630000e-144 521.0
26 TraesCS3D01G304500 chr7A 76.336 524 98 15 2074 2574 320105 320625 1.440000e-64 257.0
27 TraesCS3D01G304500 chr2D 72.566 565 142 10 2099 2658 80834742 80835298 5.370000e-39 172.0
28 TraesCS3D01G304500 chr2D 71.056 691 185 12 2006 2690 80783156 80782475 1.950000e-33 154.0
29 TraesCS3D01G304500 chr2D 93.333 45 2 1 3206 3249 14895328 14895372 9.380000e-07 65.8
30 TraesCS3D01G304500 chr2B 71.449 704 184 14 1994 2690 132518320 132519013 1.930000e-38 171.0
31 TraesCS3D01G304500 chr2B 82.474 97 7 3 3142 3238 14834323 14834409 4.330000e-10 76.8
32 TraesCS3D01G304500 chr7D 80.189 106 11 5 3141 3246 23356812 23356907 2.020000e-08 71.3
33 TraesCS3D01G304500 chr6A 95.122 41 2 0 3206 3246 200454399 200454439 9.380000e-07 65.8
34 TraesCS3D01G304500 chr2A 80.412 97 9 6 3142 3238 410850398 410850312 9.380000e-07 65.8
35 TraesCS3D01G304500 chr7B 93.023 43 3 0 3141 3183 481311110 481311068 3.370000e-06 63.9
36 TraesCS3D01G304500 chr5D 89.796 49 4 1 3206 3254 411995084 411995131 1.210000e-05 62.1
37 TraesCS3D01G304500 chr5A 88.462 52 4 2 3205 3255 432087965 432088015 1.210000e-05 62.1
38 TraesCS3D01G304500 chr5A 89.362 47 5 0 3207 3253 472473806 472473852 4.360000e-05 60.2
39 TraesCS3D01G304500 chr1B 97.222 36 1 0 3141 3176 574864915 574864950 1.210000e-05 62.1
40 TraesCS3D01G304500 chr1A 100.000 33 0 0 3140 3172 9100475 9100507 1.210000e-05 62.1
41 TraesCS3D01G304500 chr4D 85.965 57 7 1 3206 3261 7759915 7759859 4.360000e-05 60.2
42 TraesCS3D01G304500 chr4D 85.965 57 6 2 3203 3258 398430865 398430920 4.360000e-05 60.2


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 TraesCS3D01G304500 chr3D 418721560 418725602 4042 False 1719.000000 7467 94.313667 1 4043 6 chr3D.!!$F1 4042
1 TraesCS3D01G304500 chr3B 545060398 545064634 4236 False 1054.444444 5158 93.673000 17 4043 9 chr3B.!!$F2 4026
2 TraesCS3D01G304500 chr3A 532451833 532454826 2993 True 4780.000000 4780 95.413000 1006 4021 1 chr3A.!!$R1 3015
3 TraesCS3D01G304500 chr3A 532466328 532467134 806 True 418.000000 887 94.963625 1 1011 8 chr3A.!!$R2 1010
4 TraesCS3D01G304500 chr7A 91647380 91648951 1571 False 521.000000 521 73.154000 1111 2677 1 chr7A.!!$F2 1566
5 TraesCS3D01G304500 chr7A 320105 320625 520 False 257.000000 257 76.336000 2074 2574 1 chr7A.!!$F1 500

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
723 1069 0.107831 ACGACTAAGGCCAACTTGCA 59.892 50.000 5.01 0.0 40.37 4.08 F
724 1070 1.234821 CGACTAAGGCCAACTTGCAA 58.765 50.000 5.01 0.0 40.37 4.08 F
756 1102 1.699083 TGGCTGAGTCAATTCCACTGA 59.301 47.619 0.00 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2386 2840 0.610232 AGGCCACATGCAACTCCTTC 60.610 55.0 5.01 0.0 43.89 3.46 R
2686 3146 0.940126 ACTCGATCGCCATTTGCATC 59.060 50.0 11.09 0.0 41.33 3.91 R
3080 3541 6.423776 AGGCCCCATGAAAAATATACAATG 57.576 37.5 0.00 0.0 0.00 2.82 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
266 612 4.932200 CCACAGATGACTAAGACCAACTTC 59.068 45.833 0.00 0.00 39.72 3.01
300 646 2.355108 GCTGGCTGAGTCAATTCCACTA 60.355 50.000 0.00 0.00 0.00 2.74
468 814 6.331572 TGGCCAATTTCTATTGATAGGGACTA 59.668 38.462 0.61 0.00 43.12 2.59
549 895 8.099537 CCACTGAAAGCTAGTATCATATTGGAT 58.900 37.037 0.00 0.00 37.60 3.41
550 896 9.499479 CACTGAAAGCTAGTATCATATTGGATT 57.501 33.333 0.00 0.00 37.60 3.01
558 904 9.959749 GCTAGTATCATATTGGATTACTCTAGC 57.040 37.037 0.00 0.00 35.22 3.42
561 907 9.760926 AGTATCATATTGGATTACTCTAGCAGA 57.239 33.333 0.00 0.00 0.00 4.26
562 908 9.796120 GTATCATATTGGATTACTCTAGCAGAC 57.204 37.037 0.00 0.00 0.00 3.51
563 909 7.839680 TCATATTGGATTACTCTAGCAGACA 57.160 36.000 0.00 0.00 0.00 3.41
564 910 8.250143 TCATATTGGATTACTCTAGCAGACAA 57.750 34.615 0.00 0.00 0.00 3.18
565 911 8.704668 TCATATTGGATTACTCTAGCAGACAAA 58.295 33.333 0.00 0.00 0.00 2.83
566 912 9.330063 CATATTGGATTACTCTAGCAGACAAAA 57.670 33.333 0.00 0.00 0.00 2.44
567 913 9.905713 ATATTGGATTACTCTAGCAGACAAAAA 57.094 29.630 0.00 0.00 0.00 1.94
597 943 5.727243 ACCCTGTGGTAATATTAAGCCTT 57.273 39.130 0.00 0.00 45.45 4.35
598 944 6.087276 ACCCTGTGGTAATATTAAGCCTTT 57.913 37.500 0.00 0.00 45.45 3.11
599 945 6.127101 ACCCTGTGGTAATATTAAGCCTTTC 58.873 40.000 0.00 0.00 45.45 2.62
600 946 6.126409 CCCTGTGGTAATATTAAGCCTTTCA 58.874 40.000 0.00 0.00 0.00 2.69
601 947 6.605594 CCCTGTGGTAATATTAAGCCTTTCAA 59.394 38.462 0.00 0.00 0.00 2.69
602 948 7.123547 CCCTGTGGTAATATTAAGCCTTTCAAA 59.876 37.037 0.00 0.00 0.00 2.69
603 949 8.190784 CCTGTGGTAATATTAAGCCTTTCAAAG 58.809 37.037 0.00 0.00 0.00 2.77
604 950 8.871629 TGTGGTAATATTAAGCCTTTCAAAGA 57.128 30.769 0.00 0.00 0.00 2.52
605 951 9.303116 TGTGGTAATATTAAGCCTTTCAAAGAA 57.697 29.630 0.00 0.00 0.00 2.52
614 960 9.764363 ATTAAGCCTTTCAAAGAAAGTTTTAGG 57.236 29.630 15.85 4.23 0.00 2.69
615 961 7.418337 AAGCCTTTCAAAGAAAGTTTTAGGA 57.582 32.000 15.85 0.00 0.00 2.94
616 962 7.418337 AGCCTTTCAAAGAAAGTTTTAGGAA 57.582 32.000 15.85 0.00 0.00 3.36
617 963 7.847096 AGCCTTTCAAAGAAAGTTTTAGGAAA 58.153 30.769 15.85 0.00 0.00 3.13
618 964 8.486210 AGCCTTTCAAAGAAAGTTTTAGGAAAT 58.514 29.630 15.85 0.00 0.00 2.17
619 965 8.765219 GCCTTTCAAAGAAAGTTTTAGGAAATC 58.235 33.333 15.85 0.00 0.00 2.17
620 966 9.816354 CCTTTCAAAGAAAGTTTTAGGAAATCA 57.184 29.630 15.85 0.00 0.00 2.57
625 971 9.415544 CAAAGAAAGTTTTAGGAAATCATCTGG 57.584 33.333 0.00 0.00 0.00 3.86
626 972 8.712228 AAGAAAGTTTTAGGAAATCATCTGGT 57.288 30.769 0.00 0.00 0.00 4.00
627 973 8.712228 AGAAAGTTTTAGGAAATCATCTGGTT 57.288 30.769 0.00 0.00 0.00 3.67
628 974 8.797438 AGAAAGTTTTAGGAAATCATCTGGTTC 58.203 33.333 0.00 0.00 0.00 3.62
629 975 8.477419 AAAGTTTTAGGAAATCATCTGGTTCA 57.523 30.769 0.00 0.00 0.00 3.18
630 976 8.477419 AAGTTTTAGGAAATCATCTGGTTCAA 57.523 30.769 0.00 0.00 0.00 2.69
631 977 7.886338 AGTTTTAGGAAATCATCTGGTTCAAC 58.114 34.615 0.00 0.00 0.00 3.18
632 978 7.505585 AGTTTTAGGAAATCATCTGGTTCAACA 59.494 33.333 0.00 0.00 0.00 3.33
633 979 8.306761 GTTTTAGGAAATCATCTGGTTCAACAT 58.693 33.333 0.00 0.00 0.00 2.71
634 980 5.909621 AGGAAATCATCTGGTTCAACATG 57.090 39.130 0.00 0.00 0.00 3.21
635 981 5.327732 AGGAAATCATCTGGTTCAACATGT 58.672 37.500 0.00 0.00 0.00 3.21
636 982 5.184479 AGGAAATCATCTGGTTCAACATGTG 59.816 40.000 0.00 0.00 0.00 3.21
637 983 5.047802 GGAAATCATCTGGTTCAACATGTGT 60.048 40.000 0.00 0.00 0.00 3.72
638 984 6.409524 AAATCATCTGGTTCAACATGTGTT 57.590 33.333 0.00 0.00 39.12 3.32
639 985 6.409524 AATCATCTGGTTCAACATGTGTTT 57.590 33.333 0.00 0.00 35.83 2.83
640 986 5.185668 TCATCTGGTTCAACATGTGTTTG 57.814 39.130 0.00 0.00 35.83 2.93
641 987 4.886489 TCATCTGGTTCAACATGTGTTTGA 59.114 37.500 0.00 0.00 35.83 2.69
642 988 5.359292 TCATCTGGTTCAACATGTGTTTGAA 59.641 36.000 0.00 2.88 35.83 2.69
643 989 5.651387 TCTGGTTCAACATGTGTTTGAAA 57.349 34.783 11.96 0.00 35.83 2.69
644 990 6.030548 TCTGGTTCAACATGTGTTTGAAAA 57.969 33.333 11.96 4.74 35.83 2.29
645 991 6.459066 TCTGGTTCAACATGTGTTTGAAAAA 58.541 32.000 11.96 4.45 35.83 1.94
672 1018 8.450578 TCAGAACTAGTAATTAATGCCATTGG 57.549 34.615 0.00 0.00 0.00 3.16
682 1028 4.016838 GCCATTGGCCAACTGCTA 57.983 55.556 23.27 0.00 44.06 3.49
683 1029 2.508361 GCCATTGGCCAACTGCTAT 58.492 52.632 23.27 0.00 44.06 2.97
684 1030 0.826062 GCCATTGGCCAACTGCTATT 59.174 50.000 23.27 0.00 44.06 1.73
685 1031 1.472026 GCCATTGGCCAACTGCTATTG 60.472 52.381 23.27 13.27 44.06 1.90
686 1032 2.101783 CCATTGGCCAACTGCTATTGA 58.898 47.619 23.27 0.00 40.92 2.57
687 1033 2.696707 CCATTGGCCAACTGCTATTGAT 59.303 45.455 23.27 0.00 40.92 2.57
688 1034 3.890756 CCATTGGCCAACTGCTATTGATA 59.109 43.478 23.27 0.00 40.92 2.15
689 1035 4.022589 CCATTGGCCAACTGCTATTGATAG 60.023 45.833 23.27 0.00 40.92 2.08
690 1036 3.213206 TGGCCAACTGCTATTGATAGG 57.787 47.619 0.61 0.00 40.92 2.57
691 1037 2.158623 TGGCCAACTGCTATTGATAGGG 60.159 50.000 0.61 0.00 40.92 3.53
692 1038 2.106511 GGCCAACTGCTATTGATAGGGA 59.893 50.000 0.00 0.00 40.92 4.20
693 1039 3.142174 GCCAACTGCTATTGATAGGGAC 58.858 50.000 2.48 0.00 36.87 4.46
694 1040 3.181450 GCCAACTGCTATTGATAGGGACT 60.181 47.826 2.48 0.00 39.02 3.85
695 1041 4.636249 CCAACTGCTATTGATAGGGACTC 58.364 47.826 2.48 0.00 41.75 3.36
696 1042 4.346418 CCAACTGCTATTGATAGGGACTCT 59.654 45.833 2.48 0.00 41.75 3.24
697 1043 5.510520 CCAACTGCTATTGATAGGGACTCTC 60.511 48.000 2.48 0.00 41.75 3.20
698 1044 4.156477 ACTGCTATTGATAGGGACTCTCC 58.844 47.826 0.59 0.00 41.75 3.71
707 1053 4.417641 GGACTCTCCCACAGACGA 57.582 61.111 0.00 0.00 0.00 4.20
708 1054 1.884444 GGACTCTCCCACAGACGAC 59.116 63.158 0.00 0.00 0.00 4.34
709 1055 0.609681 GGACTCTCCCACAGACGACT 60.610 60.000 0.00 0.00 0.00 4.18
710 1056 1.339824 GGACTCTCCCACAGACGACTA 60.340 57.143 0.00 0.00 0.00 2.59
711 1057 2.434428 GACTCTCCCACAGACGACTAA 58.566 52.381 0.00 0.00 0.00 2.24
712 1058 2.420722 GACTCTCCCACAGACGACTAAG 59.579 54.545 0.00 0.00 0.00 2.18
713 1059 1.746220 CTCTCCCACAGACGACTAAGG 59.254 57.143 0.00 0.00 0.00 2.69
714 1060 0.173708 CTCCCACAGACGACTAAGGC 59.826 60.000 0.00 0.00 0.00 4.35
715 1061 1.218316 CCCACAGACGACTAAGGCC 59.782 63.158 0.00 0.00 0.00 5.19
716 1062 1.541310 CCCACAGACGACTAAGGCCA 61.541 60.000 5.01 0.00 0.00 5.36
717 1063 0.320374 CCACAGACGACTAAGGCCAA 59.680 55.000 5.01 0.00 0.00 4.52
718 1064 1.429463 CACAGACGACTAAGGCCAAC 58.571 55.000 5.01 0.00 0.00 3.77
719 1065 1.000955 CACAGACGACTAAGGCCAACT 59.999 52.381 5.01 0.00 0.00 3.16
720 1066 1.692519 ACAGACGACTAAGGCCAACTT 59.307 47.619 5.01 0.00 43.28 2.66
721 1067 2.069273 CAGACGACTAAGGCCAACTTG 58.931 52.381 5.01 0.00 40.37 3.16
722 1068 0.796927 GACGACTAAGGCCAACTTGC 59.203 55.000 5.01 0.00 40.37 4.01
723 1069 0.107831 ACGACTAAGGCCAACTTGCA 59.892 50.000 5.01 0.00 40.37 4.08
724 1070 1.234821 CGACTAAGGCCAACTTGCAA 58.765 50.000 5.01 0.00 40.37 4.08
725 1071 1.812571 CGACTAAGGCCAACTTGCAAT 59.187 47.619 5.01 0.00 40.37 3.56
726 1072 2.228822 CGACTAAGGCCAACTTGCAATT 59.771 45.455 5.01 0.00 40.37 2.32
727 1073 3.670627 CGACTAAGGCCAACTTGCAATTC 60.671 47.826 5.01 0.00 40.37 2.17
728 1074 3.230134 ACTAAGGCCAACTTGCAATTCA 58.770 40.909 5.01 0.00 40.37 2.57
729 1075 3.834231 ACTAAGGCCAACTTGCAATTCAT 59.166 39.130 5.01 0.00 40.37 2.57
730 1076 2.754946 AGGCCAACTTGCAATTCATG 57.245 45.000 5.01 0.00 0.00 3.07
743 1089 4.288670 CAATTCATGCTAACTGGCTGAG 57.711 45.455 0.00 0.00 0.00 3.35
744 1090 3.641434 ATTCATGCTAACTGGCTGAGT 57.359 42.857 0.00 0.00 35.94 3.41
745 1091 2.680312 TCATGCTAACTGGCTGAGTC 57.320 50.000 0.00 0.00 31.73 3.36
746 1092 1.901833 TCATGCTAACTGGCTGAGTCA 59.098 47.619 0.00 0.00 31.73 3.41
747 1093 2.302733 TCATGCTAACTGGCTGAGTCAA 59.697 45.455 0.00 0.00 31.73 3.18
748 1094 3.054875 TCATGCTAACTGGCTGAGTCAAT 60.055 43.478 0.00 0.00 31.73 2.57
749 1095 3.423539 TGCTAACTGGCTGAGTCAATT 57.576 42.857 0.00 0.00 31.73 2.32
750 1096 3.338249 TGCTAACTGGCTGAGTCAATTC 58.662 45.455 0.00 0.00 31.73 2.17
751 1097 2.680339 GCTAACTGGCTGAGTCAATTCC 59.320 50.000 0.00 0.00 31.73 3.01
752 1098 2.957402 AACTGGCTGAGTCAATTCCA 57.043 45.000 0.00 7.84 31.73 3.53
753 1099 2.191128 ACTGGCTGAGTCAATTCCAC 57.809 50.000 0.00 0.00 0.00 4.02
754 1100 1.701847 ACTGGCTGAGTCAATTCCACT 59.298 47.619 0.00 0.00 0.00 4.00
755 1101 2.082231 CTGGCTGAGTCAATTCCACTG 58.918 52.381 0.00 0.00 0.00 3.66
756 1102 1.699083 TGGCTGAGTCAATTCCACTGA 59.301 47.619 0.00 0.00 0.00 3.41
757 1103 2.106338 TGGCTGAGTCAATTCCACTGAA 59.894 45.455 0.00 0.00 34.33 3.02
758 1104 3.149196 GGCTGAGTCAATTCCACTGAAA 58.851 45.455 0.00 0.00 33.32 2.69
759 1105 3.190118 GGCTGAGTCAATTCCACTGAAAG 59.810 47.826 0.00 0.00 42.29 2.62
760 1106 3.365767 GCTGAGTCAATTCCACTGAAAGC 60.366 47.826 0.00 0.00 37.60 3.51
761 1107 4.070716 CTGAGTCAATTCCACTGAAAGCT 58.929 43.478 0.00 0.00 37.60 3.74
762 1108 5.227569 TGAGTCAATTCCACTGAAAGCTA 57.772 39.130 0.00 0.00 37.60 3.32
763 1109 5.240891 TGAGTCAATTCCACTGAAAGCTAG 58.759 41.667 0.00 0.00 37.60 3.42
764 1110 5.221722 TGAGTCAATTCCACTGAAAGCTAGT 60.222 40.000 0.00 0.00 37.60 2.57
765 1111 6.014584 TGAGTCAATTCCACTGAAAGCTAGTA 60.015 38.462 0.00 0.00 37.60 1.82
766 1112 6.951971 AGTCAATTCCACTGAAAGCTAGTAT 58.048 36.000 0.00 0.00 37.60 2.12
767 1113 7.044798 AGTCAATTCCACTGAAAGCTAGTATC 58.955 38.462 0.00 0.00 37.60 2.24
768 1114 6.818644 GTCAATTCCACTGAAAGCTAGTATCA 59.181 38.462 0.00 0.00 37.60 2.15
769 1115 7.497249 GTCAATTCCACTGAAAGCTAGTATCAT 59.503 37.037 0.00 0.00 37.60 2.45
770 1116 8.704668 TCAATTCCACTGAAAGCTAGTATCATA 58.295 33.333 0.00 0.00 37.60 2.15
771 1117 9.499479 CAATTCCACTGAAAGCTAGTATCATAT 57.501 33.333 0.00 0.00 37.60 1.78
773 1119 8.893219 TTCCACTGAAAGCTAGTATCATATTG 57.107 34.615 0.00 0.00 37.60 1.90
774 1120 7.445121 TCCACTGAAAGCTAGTATCATATTGG 58.555 38.462 0.00 0.00 37.60 3.16
775 1121 7.290014 TCCACTGAAAGCTAGTATCATATTGGA 59.710 37.037 0.00 0.55 37.60 3.53
856 1202 9.147732 AGAAAGTTTTAGGAAATCATCTGGTTT 57.852 29.630 0.00 0.00 0.00 3.27
864 1210 7.396540 AGGAAATCATCTGGTTTAACATGTC 57.603 36.000 0.00 0.00 0.00 3.06
922 1355 3.511477 TGAAGAACAGGCTCCTAGAAGT 58.489 45.455 0.00 0.00 0.00 3.01
923 1356 3.511934 TGAAGAACAGGCTCCTAGAAGTC 59.488 47.826 0.00 0.00 0.00 3.01
924 1357 2.462723 AGAACAGGCTCCTAGAAGTCC 58.537 52.381 0.00 0.00 0.00 3.85
925 1358 2.043801 AGAACAGGCTCCTAGAAGTCCT 59.956 50.000 0.00 0.00 0.00 3.85
926 1359 3.269906 AGAACAGGCTCCTAGAAGTCCTA 59.730 47.826 0.00 0.00 0.00 2.94
927 1360 3.306472 ACAGGCTCCTAGAAGTCCTAG 57.694 52.381 0.00 0.00 43.56 3.02
928 1361 2.853707 ACAGGCTCCTAGAAGTCCTAGA 59.146 50.000 0.00 0.00 46.17 2.43
929 1362 3.269906 ACAGGCTCCTAGAAGTCCTAGAA 59.730 47.826 0.00 0.00 46.17 2.10
930 1363 3.888930 CAGGCTCCTAGAAGTCCTAGAAG 59.111 52.174 0.00 0.00 46.17 2.85
2386 2840 3.228749 GCAATGCGGTTTCATATCATCG 58.771 45.455 0.00 0.00 0.00 3.84
3080 3541 4.156008 CCTTAGCACTGTTATGGGTGTTTC 59.844 45.833 0.00 0.00 36.03 2.78
3100 3561 9.097257 GTGTTTCATTGTATATTTTTCATGGGG 57.903 33.333 0.00 0.00 0.00 4.96
3449 3922 9.737427 TGTCGCTAGTTTTTATTCAATCAAAAA 57.263 25.926 0.00 0.00 32.67 1.94
3477 3953 2.575735 TGGGACACAAGCAATATCAGGA 59.424 45.455 0.00 0.00 0.00 3.86
3616 4092 0.459899 CCATAGCACTGCGGTACTCA 59.540 55.000 0.38 0.00 0.00 3.41
3652 4128 1.816224 ACAGTTGCCAAACAGTTCGTT 59.184 42.857 0.00 0.00 38.88 3.85
3660 4136 0.454196 AAACAGTTCGTTGCCACACC 59.546 50.000 0.00 0.00 38.07 4.16
3681 4157 5.864474 CACCGATCTTGCTAACATATAGGTC 59.136 44.000 0.00 0.00 30.24 3.85
3685 4161 5.449107 TCTTGCTAACATATAGGTCGTCC 57.551 43.478 0.00 0.00 0.00 4.79
3691 4167 1.269621 ACATATAGGTCGTCCGCAAGC 60.270 52.381 0.00 0.00 39.05 4.01
3692 4168 1.000163 CATATAGGTCGTCCGCAAGCT 60.000 52.381 0.00 0.00 39.05 3.74
3693 4169 0.666913 TATAGGTCGTCCGCAAGCTC 59.333 55.000 0.00 0.00 39.05 4.09
3694 4170 2.017559 ATAGGTCGTCCGCAAGCTCC 62.018 60.000 0.00 0.00 39.05 4.70
3697 4173 1.741770 GTCGTCCGCAAGCTCCATT 60.742 57.895 0.00 0.00 0.00 3.16
3698 4174 1.741401 TCGTCCGCAAGCTCCATTG 60.741 57.895 0.00 0.00 0.00 2.82
3713 4200 5.718607 AGCTCCATTGCCTCTTAAATTTCTT 59.281 36.000 0.00 0.00 0.00 2.52
3736 4223 3.869832 GCTCGGTTAAATCCTGTAGAACC 59.130 47.826 0.00 0.00 36.92 3.62
3766 4253 1.032114 CCAGATTGCCCGGAACTTCC 61.032 60.000 0.73 0.00 0.00 3.46
3767 4254 0.035056 CAGATTGCCCGGAACTTCCT 60.035 55.000 0.73 0.00 33.30 3.36
3770 4257 2.014857 GATTGCCCGGAACTTCCTAAC 58.985 52.381 0.73 0.00 33.30 2.34
3782 4269 3.170717 ACTTCCTAACTGGATCGGACAA 58.829 45.455 0.00 0.00 45.68 3.18
3817 4305 1.064463 TCATTCCCAGTCCAGATTGCC 60.064 52.381 0.00 0.00 0.00 4.52
3818 4306 1.064166 CATTCCCAGTCCAGATTGCCT 60.064 52.381 0.00 0.00 0.00 4.75
3819 4307 0.329261 TTCCCAGTCCAGATTGCCTG 59.671 55.000 0.00 0.00 42.55 4.85
3820 4308 1.751927 CCCAGTCCAGATTGCCTGC 60.752 63.158 0.00 0.00 41.57 4.85
3834 4322 4.101448 CTGCCCGGAACTCCCCAG 62.101 72.222 0.73 0.00 0.00 4.45
3835 4323 4.974438 TGCCCGGAACTCCCCAGT 62.974 66.667 0.73 0.00 0.00 4.00
3892 4380 3.385749 ATTACAGCGCCTCCGGGTG 62.386 63.158 2.29 0.00 45.33 4.61
3902 4390 4.329545 TCCGGGTGGTGCTTCTGC 62.330 66.667 0.00 0.00 40.20 4.26
4033 4525 1.445095 CAAGCCTCCAGATCCTCGG 59.555 63.158 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
117 122 8.980481 AAGGTTTAGTATTATCACAGGGATTG 57.020 34.615 0.00 0.00 37.44 2.67
266 612 0.107312 AGCCAGCTAGCATGACTTGG 60.107 55.000 18.83 15.38 34.23 3.61
468 814 0.824759 GTCTTAGTCGCCTGTGGGAT 59.175 55.000 0.00 0.00 35.70 3.85
477 823 1.508632 TGCAAGTTGGTCTTAGTCGC 58.491 50.000 4.75 0.00 34.66 5.19
576 922 6.126409 TGAAAGGCTTAATATTACCACAGGG 58.874 40.000 0.00 0.00 41.29 4.45
577 923 7.639113 TTGAAAGGCTTAATATTACCACAGG 57.361 36.000 0.00 0.00 0.00 4.00
578 924 8.956426 TCTTTGAAAGGCTTAATATTACCACAG 58.044 33.333 0.00 0.00 0.00 3.66
579 925 8.871629 TCTTTGAAAGGCTTAATATTACCACA 57.128 30.769 0.00 0.00 0.00 4.17
588 934 9.764363 CCTAAAACTTTCTTTGAAAGGCTTAAT 57.236 29.630 19.86 0.00 0.00 1.40
589 935 8.973182 TCCTAAAACTTTCTTTGAAAGGCTTAA 58.027 29.630 19.86 0.00 0.00 1.85
590 936 8.528044 TCCTAAAACTTTCTTTGAAAGGCTTA 57.472 30.769 19.86 15.26 0.00 3.09
591 937 7.418337 TCCTAAAACTTTCTTTGAAAGGCTT 57.582 32.000 19.86 15.03 0.00 4.35
592 938 7.418337 TTCCTAAAACTTTCTTTGAAAGGCT 57.582 32.000 19.86 7.67 0.00 4.58
593 939 8.662781 ATTTCCTAAAACTTTCTTTGAAAGGC 57.337 30.769 19.86 0.00 0.00 4.35
594 940 9.816354 TGATTTCCTAAAACTTTCTTTGAAAGG 57.184 29.630 19.86 6.19 0.00 3.11
599 945 9.415544 CCAGATGATTTCCTAAAACTTTCTTTG 57.584 33.333 0.00 0.00 0.00 2.77
600 946 9.147732 ACCAGATGATTTCCTAAAACTTTCTTT 57.852 29.630 0.00 0.00 0.00 2.52
601 947 8.712228 ACCAGATGATTTCCTAAAACTTTCTT 57.288 30.769 0.00 0.00 0.00 2.52
602 948 8.712228 AACCAGATGATTTCCTAAAACTTTCT 57.288 30.769 0.00 0.00 0.00 2.52
603 949 8.576442 TGAACCAGATGATTTCCTAAAACTTTC 58.424 33.333 0.00 0.00 0.00 2.62
604 950 8.477419 TGAACCAGATGATTTCCTAAAACTTT 57.523 30.769 0.00 0.00 0.00 2.66
605 951 8.360390 GTTGAACCAGATGATTTCCTAAAACTT 58.640 33.333 0.00 0.00 0.00 2.66
606 952 7.505585 TGTTGAACCAGATGATTTCCTAAAACT 59.494 33.333 0.00 0.00 0.00 2.66
607 953 7.657336 TGTTGAACCAGATGATTTCCTAAAAC 58.343 34.615 0.00 0.00 0.00 2.43
608 954 7.831691 TGTTGAACCAGATGATTTCCTAAAA 57.168 32.000 0.00 0.00 0.00 1.52
609 955 7.451255 ACATGTTGAACCAGATGATTTCCTAAA 59.549 33.333 0.00 0.00 0.00 1.85
610 956 6.947733 ACATGTTGAACCAGATGATTTCCTAA 59.052 34.615 0.00 0.00 0.00 2.69
611 957 6.375174 CACATGTTGAACCAGATGATTTCCTA 59.625 38.462 0.00 0.00 0.00 2.94
612 958 5.184479 CACATGTTGAACCAGATGATTTCCT 59.816 40.000 0.00 0.00 0.00 3.36
613 959 5.047802 ACACATGTTGAACCAGATGATTTCC 60.048 40.000 0.00 0.00 0.00 3.13
614 960 6.017400 ACACATGTTGAACCAGATGATTTC 57.983 37.500 0.00 0.00 0.00 2.17
615 961 6.409524 AACACATGTTGAACCAGATGATTT 57.590 33.333 0.00 0.00 36.80 2.17
616 962 6.040729 TCAAACACATGTTGAACCAGATGATT 59.959 34.615 0.00 0.00 38.44 2.57
617 963 5.535783 TCAAACACATGTTGAACCAGATGAT 59.464 36.000 0.00 0.00 38.44 2.45
618 964 4.886489 TCAAACACATGTTGAACCAGATGA 59.114 37.500 0.00 0.00 38.44 2.92
619 965 5.185668 TCAAACACATGTTGAACCAGATG 57.814 39.130 0.00 0.00 38.44 2.90
620 966 5.850557 TTCAAACACATGTTGAACCAGAT 57.149 34.783 7.25 0.00 38.44 2.90
621 967 5.651387 TTTCAAACACATGTTGAACCAGA 57.349 34.783 10.30 0.00 38.44 3.86
622 968 6.718454 TTTTTCAAACACATGTTGAACCAG 57.282 33.333 10.30 0.00 38.44 4.00
646 992 9.071276 CCAATGGCATTAATTACTAGTTCTGAT 57.929 33.333 13.23 0.00 0.00 2.90
647 993 8.450578 CCAATGGCATTAATTACTAGTTCTGA 57.549 34.615 13.23 0.00 0.00 3.27
666 1012 2.101783 TCAATAGCAGTTGGCCAATGG 58.898 47.619 23.66 17.64 46.50 3.16
667 1013 4.022589 CCTATCAATAGCAGTTGGCCAATG 60.023 45.833 23.66 20.28 46.50 2.82
668 1014 4.147321 CCTATCAATAGCAGTTGGCCAAT 58.853 43.478 23.66 8.15 46.50 3.16
669 1015 3.554934 CCTATCAATAGCAGTTGGCCAA 58.445 45.455 16.05 16.05 46.50 4.52
670 1016 2.158623 CCCTATCAATAGCAGTTGGCCA 60.159 50.000 0.00 0.00 46.50 5.36
671 1017 2.106511 TCCCTATCAATAGCAGTTGGCC 59.893 50.000 0.00 0.00 46.50 5.36
672 1018 3.142174 GTCCCTATCAATAGCAGTTGGC 58.858 50.000 1.89 0.00 45.30 4.52
673 1019 4.346418 AGAGTCCCTATCAATAGCAGTTGG 59.654 45.833 1.89 0.00 0.00 3.77
674 1020 5.510520 GGAGAGTCCCTATCAATAGCAGTTG 60.511 48.000 0.00 0.00 0.00 3.16
675 1021 4.591072 GGAGAGTCCCTATCAATAGCAGTT 59.409 45.833 0.00 0.00 0.00 3.16
676 1022 4.156477 GGAGAGTCCCTATCAATAGCAGT 58.844 47.826 0.00 0.00 0.00 4.40
677 1023 4.799564 GGAGAGTCCCTATCAATAGCAG 57.200 50.000 0.00 0.00 0.00 4.24
690 1036 0.609681 AGTCGTCTGTGGGAGAGTCC 60.610 60.000 0.00 0.00 35.23 3.85
691 1037 2.110901 TAGTCGTCTGTGGGAGAGTC 57.889 55.000 0.00 0.00 0.00 3.36
692 1038 2.438411 CTTAGTCGTCTGTGGGAGAGT 58.562 52.381 0.00 0.00 0.00 3.24
693 1039 1.746220 CCTTAGTCGTCTGTGGGAGAG 59.254 57.143 0.00 0.00 0.00 3.20
694 1040 1.835494 CCTTAGTCGTCTGTGGGAGA 58.165 55.000 0.00 0.00 0.00 3.71
695 1041 0.173708 GCCTTAGTCGTCTGTGGGAG 59.826 60.000 0.00 0.00 0.00 4.30
696 1042 1.255667 GGCCTTAGTCGTCTGTGGGA 61.256 60.000 0.00 0.00 0.00 4.37
697 1043 1.218316 GGCCTTAGTCGTCTGTGGG 59.782 63.158 0.00 0.00 0.00 4.61
698 1044 0.320374 TTGGCCTTAGTCGTCTGTGG 59.680 55.000 3.32 0.00 0.00 4.17
699 1045 1.000955 AGTTGGCCTTAGTCGTCTGTG 59.999 52.381 3.32 0.00 0.00 3.66
700 1046 1.339097 AGTTGGCCTTAGTCGTCTGT 58.661 50.000 3.32 0.00 0.00 3.41
701 1047 2.069273 CAAGTTGGCCTTAGTCGTCTG 58.931 52.381 3.32 0.00 0.00 3.51
702 1048 1.608283 GCAAGTTGGCCTTAGTCGTCT 60.608 52.381 3.32 0.00 0.00 4.18
703 1049 0.796927 GCAAGTTGGCCTTAGTCGTC 59.203 55.000 3.32 0.00 0.00 4.20
704 1050 0.107831 TGCAAGTTGGCCTTAGTCGT 59.892 50.000 3.32 0.00 0.00 4.34
705 1051 1.234821 TTGCAAGTTGGCCTTAGTCG 58.765 50.000 3.32 0.00 0.00 4.18
706 1052 3.255642 TGAATTGCAAGTTGGCCTTAGTC 59.744 43.478 3.32 0.00 0.00 2.59
707 1053 3.230134 TGAATTGCAAGTTGGCCTTAGT 58.770 40.909 3.32 0.00 0.00 2.24
708 1054 3.940209 TGAATTGCAAGTTGGCCTTAG 57.060 42.857 3.32 0.00 0.00 2.18
709 1055 4.191033 CATGAATTGCAAGTTGGCCTTA 57.809 40.909 3.32 0.00 0.00 2.69
710 1056 3.048337 CATGAATTGCAAGTTGGCCTT 57.952 42.857 3.32 0.00 0.00 4.35
711 1057 2.754946 CATGAATTGCAAGTTGGCCT 57.245 45.000 3.32 0.00 0.00 5.19
721 1067 5.932351 ACTCAGCCAGTTAGCATGAATTGC 61.932 45.833 0.00 0.00 41.79 3.56
722 1068 3.693085 ACTCAGCCAGTTAGCATGAATTG 59.307 43.478 0.00 0.00 34.23 2.32
723 1069 3.944015 GACTCAGCCAGTTAGCATGAATT 59.056 43.478 0.00 0.00 34.41 2.17
724 1070 3.054875 TGACTCAGCCAGTTAGCATGAAT 60.055 43.478 0.00 0.00 34.41 2.57
725 1071 2.302733 TGACTCAGCCAGTTAGCATGAA 59.697 45.455 0.00 0.00 34.41 2.57
726 1072 1.901833 TGACTCAGCCAGTTAGCATGA 59.098 47.619 0.00 0.00 34.41 3.07
727 1073 2.391616 TGACTCAGCCAGTTAGCATG 57.608 50.000 0.00 0.00 34.41 4.06
728 1074 3.641434 ATTGACTCAGCCAGTTAGCAT 57.359 42.857 0.00 0.00 34.41 3.79
729 1075 3.338249 GAATTGACTCAGCCAGTTAGCA 58.662 45.455 0.00 0.00 34.41 3.49
730 1076 2.680339 GGAATTGACTCAGCCAGTTAGC 59.320 50.000 0.00 0.00 34.41 3.09
731 1077 3.686726 GTGGAATTGACTCAGCCAGTTAG 59.313 47.826 0.00 0.00 34.41 2.34
732 1078 3.327757 AGTGGAATTGACTCAGCCAGTTA 59.672 43.478 0.00 0.00 34.41 2.24
733 1079 2.107204 AGTGGAATTGACTCAGCCAGTT 59.893 45.455 0.00 0.00 34.41 3.16
734 1080 1.701847 AGTGGAATTGACTCAGCCAGT 59.298 47.619 0.00 0.00 38.45 4.00
735 1081 2.082231 CAGTGGAATTGACTCAGCCAG 58.918 52.381 0.00 0.00 0.00 4.85
736 1082 1.699083 TCAGTGGAATTGACTCAGCCA 59.301 47.619 0.00 0.00 0.00 4.75
737 1083 2.479566 TCAGTGGAATTGACTCAGCC 57.520 50.000 0.00 0.00 0.00 4.85
738 1084 3.365767 GCTTTCAGTGGAATTGACTCAGC 60.366 47.826 0.00 0.00 29.78 4.26
739 1085 4.070716 AGCTTTCAGTGGAATTGACTCAG 58.929 43.478 0.00 0.00 29.78 3.35
740 1086 4.090761 AGCTTTCAGTGGAATTGACTCA 57.909 40.909 0.00 0.00 29.78 3.41
741 1087 5.241662 ACTAGCTTTCAGTGGAATTGACTC 58.758 41.667 0.00 0.00 29.78 3.36
742 1088 5.234466 ACTAGCTTTCAGTGGAATTGACT 57.766 39.130 0.00 0.00 29.78 3.41
743 1089 6.818644 TGATACTAGCTTTCAGTGGAATTGAC 59.181 38.462 0.00 0.00 29.78 3.18
744 1090 6.946340 TGATACTAGCTTTCAGTGGAATTGA 58.054 36.000 0.00 0.00 31.93 2.57
745 1091 7.798596 ATGATACTAGCTTTCAGTGGAATTG 57.201 36.000 0.00 0.00 31.93 2.32
747 1093 9.499479 CAATATGATACTAGCTTTCAGTGGAAT 57.501 33.333 0.00 0.00 31.93 3.01
748 1094 7.933577 CCAATATGATACTAGCTTTCAGTGGAA 59.066 37.037 0.00 0.00 0.00 3.53
749 1095 7.290014 TCCAATATGATACTAGCTTTCAGTGGA 59.710 37.037 0.00 3.49 31.56 4.02
750 1096 7.445121 TCCAATATGATACTAGCTTTCAGTGG 58.555 38.462 0.00 1.28 0.00 4.00
751 1097 9.499479 AATCCAATATGATACTAGCTTTCAGTG 57.501 33.333 0.00 0.00 0.00 3.66
759 1105 9.959749 GCTAGAGTAATCCAATATGATACTAGC 57.040 37.037 0.00 0.00 0.00 3.42
762 1108 9.760926 TCTGCTAGAGTAATCCAATATGATACT 57.239 33.333 0.00 0.00 0.00 2.12
763 1109 9.796120 GTCTGCTAGAGTAATCCAATATGATAC 57.204 37.037 0.00 0.00 0.00 2.24
764 1110 9.533831 TGTCTGCTAGAGTAATCCAATATGATA 57.466 33.333 0.00 0.00 0.00 2.15
765 1111 8.427902 TGTCTGCTAGAGTAATCCAATATGAT 57.572 34.615 0.00 0.00 0.00 2.45
766 1112 7.839680 TGTCTGCTAGAGTAATCCAATATGA 57.160 36.000 0.00 0.00 0.00 2.15
767 1113 8.893219 TTTGTCTGCTAGAGTAATCCAATATG 57.107 34.615 0.00 0.00 0.00 1.78
768 1114 9.905713 TTTTTGTCTGCTAGAGTAATCCAATAT 57.094 29.630 0.00 0.00 0.00 1.28
864 1210 2.125229 AGCCAGCGAGCATGACAG 60.125 61.111 0.00 0.00 34.23 3.51
874 1307 1.699656 CGGAATTGACTCAGCCAGCG 61.700 60.000 0.00 0.00 0.00 5.18
922 1355 3.366396 CAGTTGCCCTCTACTTCTAGGA 58.634 50.000 0.00 0.00 34.58 2.94
923 1356 2.432510 CCAGTTGCCCTCTACTTCTAGG 59.567 54.545 0.00 0.00 0.00 3.02
924 1357 3.366396 TCCAGTTGCCCTCTACTTCTAG 58.634 50.000 0.00 0.00 0.00 2.43
925 1358 3.468071 TCCAGTTGCCCTCTACTTCTA 57.532 47.619 0.00 0.00 0.00 2.10
926 1359 2.327325 TCCAGTTGCCCTCTACTTCT 57.673 50.000 0.00 0.00 0.00 2.85
927 1360 3.075148 GTTTCCAGTTGCCCTCTACTTC 58.925 50.000 0.00 0.00 0.00 3.01
928 1361 2.224793 GGTTTCCAGTTGCCCTCTACTT 60.225 50.000 0.00 0.00 0.00 2.24
929 1362 1.351350 GGTTTCCAGTTGCCCTCTACT 59.649 52.381 0.00 0.00 0.00 2.57
930 1363 1.073284 TGGTTTCCAGTTGCCCTCTAC 59.927 52.381 0.00 0.00 0.00 2.59
2367 2821 4.214119 CCTTCGATGATATGAAACCGCATT 59.786 41.667 0.00 0.00 0.00 3.56
2386 2840 0.610232 AGGCCACATGCAACTCCTTC 60.610 55.000 5.01 0.00 43.89 3.46
2614 3074 2.488153 AGGCAAAAACATCCGTAAGAGC 59.512 45.455 0.00 0.00 43.02 4.09
2686 3146 0.940126 ACTCGATCGCCATTTGCATC 59.060 50.000 11.09 0.00 41.33 3.91
3080 3541 6.423776 AGGCCCCATGAAAAATATACAATG 57.576 37.500 0.00 0.00 0.00 2.82
3100 3561 8.272173 TGTATTTCCCCATATATAGCTAAAGGC 58.728 37.037 0.00 0.00 42.19 4.35
3137 3598 0.614134 GGACGGAGGGAGTACAACCT 60.614 60.000 7.98 7.98 40.54 3.50
3323 3788 7.602753 TCCATGAGACCGTAGAACAATATATG 58.397 38.462 0.00 0.00 0.00 1.78
3379 3844 0.673644 GGATCACGTGTGGTGGGAAG 60.674 60.000 16.51 0.00 46.96 3.46
3381 3846 2.589157 GGGATCACGTGTGGTGGGA 61.589 63.158 16.51 0.00 46.96 4.37
3385 3850 0.541998 TCTGAGGGATCACGTGTGGT 60.542 55.000 16.51 2.85 0.00 4.16
3449 3922 4.961438 ATTGCTTGTGTCCCAAAATCTT 57.039 36.364 0.00 0.00 31.20 2.40
3477 3953 3.074412 CCGTGTGTGGCTTCTAAATCTT 58.926 45.455 0.00 0.00 0.00 2.40
3616 4092 7.112122 TGGCAACTGTAAATCATCTACAAGAT 58.888 34.615 0.00 0.00 33.82 2.40
3652 4128 0.323302 TTAGCAAGATCGGTGTGGCA 59.677 50.000 0.00 0.00 0.00 4.92
3660 4136 5.700846 ACGACCTATATGTTAGCAAGATCG 58.299 41.667 0.00 0.00 0.00 3.69
3681 4157 2.787249 CAATGGAGCTTGCGGACG 59.213 61.111 0.00 0.00 0.00 4.79
3691 4167 5.809051 GCAAGAAATTTAAGAGGCAATGGAG 59.191 40.000 0.00 0.00 0.00 3.86
3692 4168 5.481473 AGCAAGAAATTTAAGAGGCAATGGA 59.519 36.000 0.00 0.00 0.00 3.41
3693 4169 5.727434 AGCAAGAAATTTAAGAGGCAATGG 58.273 37.500 0.00 0.00 0.00 3.16
3694 4170 5.514204 CGAGCAAGAAATTTAAGAGGCAATG 59.486 40.000 0.00 0.00 0.00 2.82
3697 4173 3.440173 CCGAGCAAGAAATTTAAGAGGCA 59.560 43.478 0.00 0.00 0.00 4.75
3698 4174 3.440522 ACCGAGCAAGAAATTTAAGAGGC 59.559 43.478 0.00 0.00 0.00 4.70
3699 4175 5.629079 AACCGAGCAAGAAATTTAAGAGG 57.371 39.130 0.00 0.00 0.00 3.69
3701 4177 8.241367 GGATTTAACCGAGCAAGAAATTTAAGA 58.759 33.333 0.00 0.00 0.00 2.10
3703 4179 8.026607 CAGGATTTAACCGAGCAAGAAATTTAA 58.973 33.333 0.00 0.00 34.73 1.52
3704 4180 7.175990 ACAGGATTTAACCGAGCAAGAAATTTA 59.824 33.333 0.00 0.00 34.73 1.40
3713 4200 4.501071 GTTCTACAGGATTTAACCGAGCA 58.499 43.478 0.00 0.00 34.73 4.26
3736 4223 1.746615 CAATCTGGACGGGGCAGTG 60.747 63.158 0.00 0.00 0.00 3.66
3766 4253 5.011090 TCTTCATTGTCCGATCCAGTTAG 57.989 43.478 0.00 0.00 0.00 2.34
3767 4254 5.414789 TTCTTCATTGTCCGATCCAGTTA 57.585 39.130 0.00 0.00 0.00 2.24
3770 4257 5.121811 AGAATTCTTCATTGTCCGATCCAG 58.878 41.667 0.88 0.00 0.00 3.86
3782 4269 6.159398 ACTGGGAATGAGGTAGAATTCTTCAT 59.841 38.462 14.36 13.65 34.04 2.57
3794 4282 2.240667 CAATCTGGACTGGGAATGAGGT 59.759 50.000 0.00 0.00 0.00 3.85
3799 4287 1.064166 CAGGCAATCTGGACTGGGAAT 60.064 52.381 0.00 0.00 40.37 3.01
3817 4305 4.101448 CTGGGGAGTTCCGGGCAG 62.101 72.222 0.00 0.00 36.71 4.85
3818 4306 4.974438 ACTGGGGAGTTCCGGGCA 62.974 66.667 0.00 0.00 37.50 5.36
3819 4307 3.647771 AACTGGGGAGTTCCGGGC 61.648 66.667 0.00 0.00 37.50 6.13
3820 4308 2.351276 CAACTGGGGAGTTCCGGG 59.649 66.667 0.00 0.00 37.50 5.73
3834 4322 1.103398 CCAATCGGGCCAGATCCAAC 61.103 60.000 19.25 0.00 0.00 3.77
3835 4323 1.227102 CCAATCGGGCCAGATCCAA 59.773 57.895 19.25 0.00 0.00 3.53
3861 4349 0.107214 CTGTAATGTGGACGGGGCAT 60.107 55.000 0.00 0.00 0.00 4.40
4017 4509 1.760086 CACCGAGGATCTGGAGGCT 60.760 63.158 0.00 0.00 33.87 4.58


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

AutoCloner maintained by Alex Coulton.