Multiple sequence alignment - TraesCS2A01G128900

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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 TraesCS2A01G128900 chr2A 100.000 3611 0 0 1 3611 77240909 77237299 0.000000e+00 6669.0
1 TraesCS2A01G128900 chr2A 75.599 918 194 23 1693 2594 9937796 9936893 9.270000e-116 427.0
2 TraesCS2A01G128900 chr2A 90.909 44 3 1 2941 2984 77263008 77262966 1.400000e-04 58.4
3 TraesCS2A01G128900 chr2D 92.192 2587 152 25 1043 3611 76753118 76750564 0.000000e+00 3613.0
4 TraesCS2A01G128900 chr2D 92.169 945 74 0 1 945 76754075 76753131 0.000000e+00 1336.0
5 TraesCS2A01G128900 chr2D 75.628 915 196 20 1693 2592 9858170 9859072 2.580000e-116 429.0
6 TraesCS2A01G128900 chr2B 93.439 2332 126 15 1044 3357 117993342 117991020 0.000000e+00 3434.0
7 TraesCS2A01G128900 chr2B 93.016 945 63 1 1 945 117994297 117993356 0.000000e+00 1376.0
8 TraesCS2A01G128900 chr2B 74.218 799 193 9 1802 2592 13144730 13145523 4.500000e-84 322.0
9 TraesCS2A01G128900 chr2B 97.000 100 3 0 945 1044 725466856 725466757 6.200000e-38 169.0
10 TraesCS2A01G128900 chr7A 78.147 1565 306 28 1066 2611 625538900 625537353 0.000000e+00 963.0
11 TraesCS2A01G128900 chr7A 76.885 1432 289 28 1066 2468 617737675 617736257 0.000000e+00 773.0
12 TraesCS2A01G128900 chr7A 89.634 164 16 1 3446 3609 665428354 665428516 1.310000e-49 207.0
13 TraesCS2A01G128900 chr7A 97.980 99 2 0 946 1044 579564468 579564370 4.790000e-39 172.0
14 TraesCS2A01G128900 chr7B 76.722 1568 338 20 1060 2611 584029118 584030674 0.000000e+00 848.0
15 TraesCS2A01G128900 chr7B 81.890 254 34 6 3366 3609 636984603 636984854 1.700000e-48 204.0
16 TraesCS2A01G128900 chr3D 85.039 254 26 5 3366 3608 416497496 416497244 7.740000e-62 248.0
17 TraesCS2A01G128900 chr6B 91.566 166 14 0 3446 3611 703399009 703399174 2.800000e-56 230.0
18 TraesCS2A01G128900 chr6B 89.634 164 17 0 3446 3609 46393405 46393242 3.650000e-50 209.0
19 TraesCS2A01G128900 chr6B 98.000 100 2 0 945 1044 664459025 664459124 1.330000e-39 174.0
20 TraesCS2A01G128900 chr6B 97.030 101 3 0 944 1044 153602921 153603021 1.720000e-38 171.0
21 TraesCS2A01G128900 chr6B 80.952 126 12 5 3408 3529 245983177 245983060 4.970000e-14 89.8
22 TraesCS2A01G128900 chr7D 83.465 254 32 1 3366 3609 575442169 575442422 1.010000e-55 228.0
23 TraesCS2A01G128900 chrUn 82.692 260 29 4 3366 3609 324024235 324024494 2.180000e-52 217.0
24 TraesCS2A01G128900 chr6A 91.139 158 8 2 3458 3609 212317434 212317277 3.650000e-50 209.0
25 TraesCS2A01G128900 chr1B 98.039 102 2 0 943 1044 251157850 251157951 1.030000e-40 178.0
26 TraesCS2A01G128900 chr1B 95.192 104 4 1 941 1044 18688720 18688822 2.880000e-36 163.0
27 TraesCS2A01G128900 chr1B 76.754 228 36 9 3395 3608 596317203 596317427 1.060000e-20 111.0
28 TraesCS2A01G128900 chr4B 97.030 101 3 0 944 1044 660113526 660113626 1.720000e-38 171.0
29 TraesCS2A01G128900 chr3B 96.078 102 4 0 943 1044 817510370 817510471 2.230000e-37 167.0
30 TraesCS2A01G128900 chr3A 95.238 105 3 2 940 1044 545907486 545907384 8.020000e-37 165.0
31 TraesCS2A01G128900 chr3A 84.615 65 9 1 1816 1879 1897313 1897249 3.010000e-06 63.9


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 TraesCS2A01G128900 chr2A 77237299 77240909 3610 True 6669.0 6669 100.0000 1 3611 1 chr2A.!!$R2 3610
1 TraesCS2A01G128900 chr2A 9936893 9937796 903 True 427.0 427 75.5990 1693 2594 1 chr2A.!!$R1 901
2 TraesCS2A01G128900 chr2D 76750564 76754075 3511 True 2474.5 3613 92.1805 1 3611 2 chr2D.!!$R1 3610
3 TraesCS2A01G128900 chr2D 9858170 9859072 902 False 429.0 429 75.6280 1693 2592 1 chr2D.!!$F1 899
4 TraesCS2A01G128900 chr2B 117991020 117994297 3277 True 2405.0 3434 93.2275 1 3357 2 chr2B.!!$R2 3356
5 TraesCS2A01G128900 chr2B 13144730 13145523 793 False 322.0 322 74.2180 1802 2592 1 chr2B.!!$F1 790
6 TraesCS2A01G128900 chr7A 625537353 625538900 1547 True 963.0 963 78.1470 1066 2611 1 chr7A.!!$R3 1545
7 TraesCS2A01G128900 chr7A 617736257 617737675 1418 True 773.0 773 76.8850 1066 2468 1 chr7A.!!$R2 1402
8 TraesCS2A01G128900 chr7B 584029118 584030674 1556 False 848.0 848 76.7220 1060 2611 1 chr7B.!!$F1 1551

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
279 280 0.037975 CACAAGCAGCACCAAATCCC 60.038 55.0 0.0 0.0 0.00 3.85 F
468 469 0.038744 ATTCTGGTCCACCCAAGCAG 59.961 55.0 0.0 0.0 44.65 4.24 F
993 994 0.105039 CGGATTAGCAGGTGAGACCC 59.895 60.0 0.0 0.0 39.75 4.46 F
2282 2306 0.106519 AGCTATGGGATGGTGTTGCC 60.107 55.0 0.0 0.0 37.90 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 1907 1.080569 CGGACCATGGCAGCAAAAC 60.081 57.895 13.04 0.0 0.00 2.43 R
2083 2098 3.751698 AGAAGTATGTTTTCCGGCTTGAC 59.248 43.478 0.00 0.0 0.00 3.18 R
2484 2514 0.250553 TTGTTGGCCGGTCGAATTCT 60.251 50.000 0.00 0.0 0.00 2.40 R
3389 3437 0.036164 TGTAGCGGGAGTGCAATGTT 59.964 50.000 0.00 0.0 37.31 2.71 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
46 47 0.108615 ATATATGACCGCTCCGCAGC 60.109 55.000 0.00 0.00 42.96 5.25
72 73 2.284515 ATCCACCCCGAATTCCCAGC 62.285 60.000 0.00 0.00 0.00 4.85
93 94 0.532573 CAAAGCTCGCTCACTCCCTA 59.467 55.000 0.00 0.00 0.00 3.53
121 122 1.275856 CATGCCTCTCCTCCTCATAGC 59.724 57.143 0.00 0.00 0.00 2.97
260 261 2.476499 GCGCTCGGCTTCTTTGAC 59.524 61.111 0.00 0.00 39.11 3.18
279 280 0.037975 CACAAGCAGCACCAAATCCC 60.038 55.000 0.00 0.00 0.00 3.85
344 345 0.541764 TCCCCAAATTTGCTTCCGCT 60.542 50.000 12.92 0.00 36.97 5.52
349 350 0.320683 AAATTTGCTTCCGCTTGGGC 60.321 50.000 0.00 0.00 36.97 5.36
381 382 3.960102 AGAGAAGCCAATCAAAAACACCA 59.040 39.130 0.00 0.00 0.00 4.17
406 407 1.198637 GCTGCAACTCACAATCTCCAC 59.801 52.381 0.00 0.00 0.00 4.02
468 469 0.038744 ATTCTGGTCCACCCAAGCAG 59.961 55.000 0.00 0.00 44.65 4.24
473 474 1.961277 GTCCACCCAAGCAGACGTG 60.961 63.158 0.00 0.00 0.00 4.49
636 637 1.227263 CTAACCGGCCTGGATCGTG 60.227 63.158 18.74 0.00 42.00 4.35
647 648 1.001974 CTGGATCGTGGTCTGGTTTCA 59.998 52.381 0.00 0.00 0.00 2.69
660 661 3.993920 CTGGTTTCATGGAAAAACAGGG 58.006 45.455 14.31 0.00 45.88 4.45
664 665 4.501400 GGTTTCATGGAAAAACAGGGTCAG 60.501 45.833 9.83 0.00 38.16 3.51
758 759 4.040047 ACTCCTCCATGTCATATTGGTCA 58.960 43.478 0.00 0.00 34.48 4.02
777 778 4.612412 GCGGTGTGTGGAACGGGA 62.612 66.667 0.00 0.00 42.39 5.14
779 780 2.248835 CGGTGTGTGGAACGGGAAC 61.249 63.158 0.00 0.00 42.39 3.62
792 793 0.249741 CGGGAACTCCTTTGTGTCGT 60.250 55.000 0.00 0.00 35.95 4.34
793 794 1.000060 CGGGAACTCCTTTGTGTCGTA 60.000 52.381 0.00 0.00 35.95 3.43
797 798 3.056035 GGAACTCCTTTGTGTCGTATCCT 60.056 47.826 0.00 0.00 0.00 3.24
801 802 1.553248 CCTTTGTGTCGTATCCTGGGA 59.447 52.381 0.00 0.00 0.00 4.37
806 807 5.623956 TTGTGTCGTATCCTGGGAATAAT 57.376 39.130 0.00 0.00 0.00 1.28
808 809 6.092955 TGTGTCGTATCCTGGGAATAATAC 57.907 41.667 0.00 0.00 0.00 1.89
866 867 6.093404 TGACAATGAACGAGAGAAGTATGTC 58.907 40.000 0.00 0.00 35.89 3.06
945 946 1.974875 GCCAAGGGGTACGTTTGGG 60.975 63.158 15.80 5.72 36.17 4.12
946 947 1.303806 CCAAGGGGTACGTTTGGGG 60.304 63.158 7.89 0.00 0.00 4.96
947 948 1.762471 CAAGGGGTACGTTTGGGGA 59.238 57.895 0.00 0.00 0.00 4.81
948 949 0.110869 CAAGGGGTACGTTTGGGGAA 59.889 55.000 0.00 0.00 0.00 3.97
950 951 0.852155 AGGGGTACGTTTGGGGAAAA 59.148 50.000 0.00 0.00 0.00 2.29
951 952 1.217436 AGGGGTACGTTTGGGGAAAAA 59.783 47.619 0.00 0.00 0.00 1.94
974 975 7.454260 AAAATTCTATGAAACCAGGTCTCAC 57.546 36.000 0.00 0.00 0.00 3.51
975 976 3.868757 TCTATGAAACCAGGTCTCACG 57.131 47.619 0.00 0.00 0.00 4.35
976 977 2.496070 TCTATGAAACCAGGTCTCACGG 59.504 50.000 0.00 0.00 0.00 4.94
977 978 1.348064 ATGAAACCAGGTCTCACGGA 58.652 50.000 0.00 0.00 0.00 4.69
978 979 1.348064 TGAAACCAGGTCTCACGGAT 58.652 50.000 0.00 0.00 0.00 4.18
979 980 1.697432 TGAAACCAGGTCTCACGGATT 59.303 47.619 0.00 0.00 0.00 3.01
980 981 2.901192 TGAAACCAGGTCTCACGGATTA 59.099 45.455 0.00 0.00 0.00 1.75
981 982 3.056107 TGAAACCAGGTCTCACGGATTAG 60.056 47.826 0.00 0.00 0.00 1.73
982 983 0.824759 ACCAGGTCTCACGGATTAGC 59.175 55.000 0.00 0.00 0.00 3.09
983 984 0.824109 CCAGGTCTCACGGATTAGCA 59.176 55.000 0.00 0.00 0.00 3.49
984 985 1.202463 CCAGGTCTCACGGATTAGCAG 60.202 57.143 0.00 0.00 0.00 4.24
985 986 1.115467 AGGTCTCACGGATTAGCAGG 58.885 55.000 0.00 0.00 0.00 4.85
986 987 0.824759 GGTCTCACGGATTAGCAGGT 59.175 55.000 0.00 0.00 0.00 4.00
987 988 1.471676 GGTCTCACGGATTAGCAGGTG 60.472 57.143 0.00 0.00 0.00 4.00
988 989 1.476891 GTCTCACGGATTAGCAGGTGA 59.523 52.381 0.00 0.00 37.77 4.02
990 991 1.847328 TCACGGATTAGCAGGTGAGA 58.153 50.000 0.00 0.00 34.71 3.27
991 992 1.476891 TCACGGATTAGCAGGTGAGAC 59.523 52.381 0.00 0.00 34.71 3.36
992 993 0.824759 ACGGATTAGCAGGTGAGACC 59.175 55.000 0.00 0.00 38.99 3.85
993 994 0.105039 CGGATTAGCAGGTGAGACCC 59.895 60.000 0.00 0.00 39.75 4.46
994 995 1.204146 GGATTAGCAGGTGAGACCCA 58.796 55.000 0.00 0.00 39.75 4.51
995 996 1.771255 GGATTAGCAGGTGAGACCCAT 59.229 52.381 0.00 0.00 39.75 4.00
996 997 2.224402 GGATTAGCAGGTGAGACCCATC 60.224 54.545 0.00 0.00 39.75 3.51
997 998 1.204146 TTAGCAGGTGAGACCCATCC 58.796 55.000 0.00 0.00 39.75 3.51
998 999 0.339859 TAGCAGGTGAGACCCATCCT 59.660 55.000 0.00 0.00 39.75 3.24
999 1000 1.222936 GCAGGTGAGACCCATCCTG 59.777 63.158 5.79 5.79 39.75 3.86
1000 1001 1.267574 GCAGGTGAGACCCATCCTGA 61.268 60.000 13.26 0.00 42.00 3.86
1001 1002 1.504912 CAGGTGAGACCCATCCTGAT 58.495 55.000 4.28 0.00 42.00 2.90
1002 1003 1.140452 CAGGTGAGACCCATCCTGATG 59.860 57.143 4.28 0.00 42.00 3.07
1014 1015 0.536724 TCCTGATGGATGACACGTGG 59.463 55.000 21.57 1.66 37.46 4.94
1015 1016 1.091771 CCTGATGGATGACACGTGGC 61.092 60.000 21.57 19.24 34.57 5.01
1016 1017 0.391528 CTGATGGATGACACGTGGCA 60.392 55.000 29.28 29.28 37.54 4.92
1018 1019 1.339920 TGATGGATGACACGTGGCATT 60.340 47.619 36.07 22.11 45.42 3.56
1019 1020 1.331756 GATGGATGACACGTGGCATTC 59.668 52.381 36.07 34.16 45.42 2.67
1020 1021 1.018752 TGGATGACACGTGGCATTCG 61.019 55.000 36.07 1.14 45.42 3.34
1021 1022 1.060937 GATGACACGTGGCATTCGC 59.939 57.895 36.07 20.92 45.42 4.70
1022 1023 1.634757 GATGACACGTGGCATTCGCA 61.635 55.000 36.07 9.07 45.42 5.10
1023 1024 1.233950 ATGACACGTGGCATTCGCAA 61.234 50.000 31.22 4.08 42.08 4.85
1024 1025 1.281353 GACACGTGGCATTCGCAAA 59.719 52.632 18.77 0.00 41.24 3.68
1025 1026 0.109781 GACACGTGGCATTCGCAAAT 60.110 50.000 18.77 0.00 41.24 2.32
1026 1027 0.109781 ACACGTGGCATTCGCAAATC 60.110 50.000 21.57 0.00 41.24 2.17
1027 1028 0.109827 CACGTGGCATTCGCAAATCA 60.110 50.000 7.95 0.00 41.24 2.57
1028 1029 0.109781 ACGTGGCATTCGCAAATCAC 60.110 50.000 0.00 0.00 41.24 3.06
1029 1030 0.109827 CGTGGCATTCGCAAATCACA 60.110 50.000 0.00 0.00 41.24 3.58
1030 1031 1.665448 CGTGGCATTCGCAAATCACAA 60.665 47.619 0.00 0.00 41.24 3.33
1031 1032 2.402305 GTGGCATTCGCAAATCACAAA 58.598 42.857 0.00 0.00 41.24 2.83
1032 1033 2.409378 GTGGCATTCGCAAATCACAAAG 59.591 45.455 0.00 0.00 41.24 2.77
1033 1034 1.391144 GGCATTCGCAAATCACAAAGC 59.609 47.619 0.00 0.00 41.24 3.51
1034 1035 2.060284 GCATTCGCAAATCACAAAGCA 58.940 42.857 0.00 0.00 38.36 3.91
1035 1036 2.669434 GCATTCGCAAATCACAAAGCAT 59.331 40.909 0.00 0.00 38.36 3.79
1036 1037 3.241868 GCATTCGCAAATCACAAAGCATC 60.242 43.478 0.00 0.00 38.36 3.91
1037 1038 2.634982 TCGCAAATCACAAAGCATCC 57.365 45.000 0.00 0.00 0.00 3.51
1038 1039 1.885233 TCGCAAATCACAAAGCATCCA 59.115 42.857 0.00 0.00 0.00 3.41
1039 1040 1.987770 CGCAAATCACAAAGCATCCAC 59.012 47.619 0.00 0.00 0.00 4.02
1040 1041 2.340337 GCAAATCACAAAGCATCCACC 58.660 47.619 0.00 0.00 0.00 4.61
1041 1042 2.932187 GCAAATCACAAAGCATCCACCC 60.932 50.000 0.00 0.00 0.00 4.61
1042 1043 1.560505 AATCACAAAGCATCCACCCC 58.439 50.000 0.00 0.00 0.00 4.95
1043 1044 0.409092 ATCACAAAGCATCCACCCCA 59.591 50.000 0.00 0.00 0.00 4.96
1044 1045 0.187117 TCACAAAGCATCCACCCCAA 59.813 50.000 0.00 0.00 0.00 4.12
1045 1046 0.604578 CACAAAGCATCCACCCCAAG 59.395 55.000 0.00 0.00 0.00 3.61
1046 1047 0.482446 ACAAAGCATCCACCCCAAGA 59.518 50.000 0.00 0.00 0.00 3.02
1047 1048 1.077663 ACAAAGCATCCACCCCAAGAT 59.922 47.619 0.00 0.00 0.00 2.40
1048 1049 2.181975 CAAAGCATCCACCCCAAGATT 58.818 47.619 0.00 0.00 0.00 2.40
1049 1050 2.149973 AAGCATCCACCCCAAGATTC 57.850 50.000 0.00 0.00 0.00 2.52
1050 1051 0.107017 AGCATCCACCCCAAGATTCG 60.107 55.000 0.00 0.00 0.00 3.34
1051 1052 0.107214 GCATCCACCCCAAGATTCGA 60.107 55.000 0.00 0.00 0.00 3.71
1052 1053 1.477558 GCATCCACCCCAAGATTCGAT 60.478 52.381 0.00 0.00 0.00 3.59
1053 1054 2.224523 GCATCCACCCCAAGATTCGATA 60.225 50.000 0.00 0.00 0.00 2.92
1054 1055 3.403038 CATCCACCCCAAGATTCGATAC 58.597 50.000 0.00 0.00 0.00 2.24
1057 1058 2.434336 CCACCCCAAGATTCGATACTGA 59.566 50.000 0.00 0.00 0.00 3.41
1095 1096 1.539341 CTCAGTGTGATGTCTACGCG 58.461 55.000 3.53 3.53 33.94 6.01
1347 1348 1.956170 CACAAGCGCCGAAGAGTGT 60.956 57.895 2.29 0.00 0.00 3.55
1540 1544 6.915843 TCAAAGTTCGAAAAATAACAGAAGGC 59.084 34.615 0.00 0.00 0.00 4.35
1649 1657 2.933260 GGAAGAGATCTCCTCGCAAAAC 59.067 50.000 19.30 0.00 46.49 2.43
1660 1668 2.410730 CCTCGCAAAACTTACGGTAGTG 59.589 50.000 0.00 0.00 0.00 2.74
1722 1733 5.402270 GCAACGAGCAACAAAATATTTCACT 59.598 36.000 0.10 0.00 44.79 3.41
1776 1790 5.070685 GTGTTCAAGGGGTTTCTAAGTGAT 58.929 41.667 0.00 0.00 0.00 3.06
1779 1793 5.843019 TCAAGGGGTTTCTAAGTGATTCT 57.157 39.130 0.00 0.00 0.00 2.40
1893 1907 2.403252 ATTTGGTCAAGCTAGTCGGG 57.597 50.000 0.00 0.00 0.00 5.14
1975 1990 6.524586 GCTTGACATCCATCTTTTTAAAGACG 59.475 38.462 7.05 0.00 46.80 4.18
2091 2106 3.622612 TCATACATTGTGATGTCAAGCCG 59.377 43.478 0.00 0.00 42.83 5.52
2244 2268 4.574421 TGGATTTATGGTGTTGCTATCACG 59.426 41.667 0.00 0.00 36.76 4.35
2282 2306 0.106519 AGCTATGGGATGGTGTTGCC 60.107 55.000 0.00 0.00 37.90 4.52
2334 2361 1.077501 ATCATGTTCCAGCGGTGGG 60.078 57.895 31.91 16.42 45.11 4.61
2484 2514 3.188254 CGTGTTGGTGCATACAAGATGAA 59.812 43.478 14.39 0.00 31.83 2.57
2711 2743 7.553881 ACAAATGTAGTGTACTTATCATGGC 57.446 36.000 0.00 0.00 0.00 4.40
2766 2801 7.984617 TGCATGTAACAGCTTCAATGTACTATA 59.015 33.333 0.00 0.00 0.00 1.31
2790 2825 6.244552 TCTGATTATCTGCAGTTCTCCAAT 57.755 37.500 14.67 1.92 33.90 3.16
2791 2826 7.365497 TCTGATTATCTGCAGTTCTCCAATA 57.635 36.000 14.67 0.00 33.90 1.90
2792 2827 7.971201 TCTGATTATCTGCAGTTCTCCAATAT 58.029 34.615 14.67 0.00 33.90 1.28
2793 2828 9.093458 TCTGATTATCTGCAGTTCTCCAATATA 57.907 33.333 14.67 0.00 33.90 0.86
2895 2932 4.012895 GTCACTGTGCCGCCGTTG 62.013 66.667 2.12 0.00 0.00 4.10
2918 2955 0.528017 TGAGATGTCGCTGGTGACTC 59.472 55.000 14.12 9.57 39.64 3.36
2949 2986 1.126488 TAGCTCCTCCAATGCTCTGG 58.874 55.000 0.00 0.00 38.15 3.86
2971 3010 6.840527 TGGATTTTCTGATGCTGGTATATGA 58.159 36.000 0.00 0.00 0.00 2.15
2984 3023 6.264518 TGCTGGTATATGAATGAGACTCGTAA 59.735 38.462 0.00 0.00 0.00 3.18
2987 3026 9.347934 CTGGTATATGAATGAGACTCGTAAATC 57.652 37.037 0.00 0.00 0.00 2.17
2992 3031 7.581213 ATGAATGAGACTCGTAAATCTCTCT 57.419 36.000 0.00 0.00 41.69 3.10
2998 3037 7.276658 TGAGACTCGTAAATCTCTCTATGTCT 58.723 38.462 0.00 0.00 41.69 3.41
3018 3057 3.053320 TCTGACTCTCCTCCAATGCTCTA 60.053 47.826 0.00 0.00 0.00 2.43
3021 3060 4.532126 TGACTCTCCTCCAATGCTCTAAAA 59.468 41.667 0.00 0.00 0.00 1.52
3028 3067 5.126061 TCCTCCAATGCTCTAAAATTTCTGC 59.874 40.000 0.00 0.00 0.00 4.26
3048 3089 3.181462 TGCTGCTGATACTTCATACCTGG 60.181 47.826 0.00 0.00 0.00 4.45
3092 3133 1.042229 ATGCAGCAGAAGTGGCAAAA 58.958 45.000 0.00 0.00 40.02 2.44
3227 3271 1.547372 CATTCAGCCCTCCTTTGGTTG 59.453 52.381 0.00 0.00 35.61 3.77
3303 3348 8.258007 TGATTTGTACGAACAGATTCCTATTCT 58.742 33.333 0.00 0.00 36.83 2.40
3369 3417 4.013728 ACACTAGCCTAGACTCAAGAGTG 58.986 47.826 7.57 5.45 42.66 3.51
3378 3426 3.798202 AGACTCAAGAGTGTGGTTGTTC 58.202 45.455 7.57 0.00 42.66 3.18
3380 3428 4.649674 AGACTCAAGAGTGTGGTTGTTCTA 59.350 41.667 7.57 0.00 42.66 2.10
3389 3437 3.578978 TGTGGTTGTTCTACACCTAGGA 58.421 45.455 17.98 0.00 32.71 2.94
3390 3438 3.968649 TGTGGTTGTTCTACACCTAGGAA 59.031 43.478 17.98 0.00 32.71 3.36
3391 3439 4.202284 TGTGGTTGTTCTACACCTAGGAAC 60.202 45.833 17.98 9.59 39.54 3.62
3392 3440 3.968649 TGGTTGTTCTACACCTAGGAACA 59.031 43.478 17.98 12.33 44.69 3.18
3393 3441 4.595781 TGGTTGTTCTACACCTAGGAACAT 59.404 41.667 17.98 0.00 45.35 2.71
3394 3442 5.072600 TGGTTGTTCTACACCTAGGAACATT 59.927 40.000 17.98 0.00 45.35 2.71
3395 3443 5.411669 GGTTGTTCTACACCTAGGAACATTG 59.588 44.000 17.98 5.14 45.35 2.82
3396 3444 4.575885 TGTTCTACACCTAGGAACATTGC 58.424 43.478 17.98 1.28 42.56 3.56
3397 3445 4.041075 TGTTCTACACCTAGGAACATTGCA 59.959 41.667 17.98 4.04 42.56 4.08
3398 3446 4.202245 TCTACACCTAGGAACATTGCAC 57.798 45.455 17.98 0.00 0.00 4.57
3399 3447 3.838317 TCTACACCTAGGAACATTGCACT 59.162 43.478 17.98 0.00 0.00 4.40
3413 3461 3.031417 GCACTCCCGCTACACCCAT 62.031 63.158 0.00 0.00 0.00 4.00
3417 3465 1.338107 CTCCCGCTACACCCATGATA 58.662 55.000 0.00 0.00 0.00 2.15
3488 3545 7.044798 AGCAAATGTTTTAGGTGCTTACAAAA 58.955 30.769 0.00 0.00 42.77 2.44
3509 3566 3.399440 TTTTGTGGGCAAATGACATCC 57.601 42.857 0.00 0.00 43.26 3.51
3516 3573 0.659957 GCAAATGACATCCGAGGAGC 59.340 55.000 0.00 0.00 0.00 4.70
3518 3575 2.208431 CAAATGACATCCGAGGAGCTC 58.792 52.381 4.71 4.71 0.00 4.09
3520 3577 2.666272 ATGACATCCGAGGAGCTCTA 57.334 50.000 14.64 0.00 0.00 2.43
3561 3620 8.894409 TGTGCTCAAATATAAAATCTGAAACG 57.106 30.769 0.00 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 5.419542 GGAGCGGTCATATATAGCAAATCA 58.580 41.667 17.59 0.00 0.00 2.57
46 47 2.032860 ATTCGGGGTGGATGCTCTCG 62.033 60.000 0.00 0.00 0.00 4.04
58 59 4.794648 TGCGCTGGGAATTCGGGG 62.795 66.667 9.73 2.38 0.00 5.73
72 73 2.734673 GGAGTGAGCGAGCTTTGCG 61.735 63.158 0.00 0.00 37.44 4.85
93 94 2.106166 GGAGGAGAGGCATGATGAACAT 59.894 50.000 0.00 0.00 40.17 2.71
121 122 5.245075 AGGTAGAAGAAGAGTGAGGTGAAAG 59.755 44.000 0.00 0.00 0.00 2.62
178 179 2.192175 GGCCGGGTAAGATGGTGG 59.808 66.667 2.18 0.00 0.00 4.61
260 261 0.037975 GGGATTTGGTGCTGCTTGTG 60.038 55.000 0.00 0.00 0.00 3.33
279 280 1.992277 AGCTACTGGTGCTCTGGGG 60.992 63.158 0.00 0.00 35.67 4.96
300 301 3.627577 GTGTTGAACCATATGCCTAGGTG 59.372 47.826 11.31 0.00 35.42 4.00
344 345 1.004560 CTCTCTGTTCGCAGCCCAA 60.005 57.895 0.00 0.00 44.62 4.12
349 350 0.037882 TGGCTTCTCTCTGTTCGCAG 60.038 55.000 0.00 0.00 46.29 5.18
353 354 5.695851 TTTTGATTGGCTTCTCTCTGTTC 57.304 39.130 0.00 0.00 0.00 3.18
381 382 0.250467 ATTGTGAGTTGCAGCGAGGT 60.250 50.000 0.00 0.00 0.00 3.85
406 407 1.153369 ATGACGAGGTTGCCATCGG 60.153 57.895 2.33 0.00 43.12 4.18
468 469 1.596220 GGTGCCGTTTCTTTTCACGTC 60.596 52.381 0.00 0.00 34.47 4.34
473 474 1.792367 GCAATGGTGCCGTTTCTTTTC 59.208 47.619 0.00 0.00 45.68 2.29
563 564 0.533491 TATCCGTGGGGTCGTCAAAG 59.467 55.000 0.00 0.00 33.83 2.77
570 571 2.484742 AAAAGTGTATCCGTGGGGTC 57.515 50.000 0.00 0.00 33.83 4.46
630 631 2.009774 CCATGAAACCAGACCACGATC 58.990 52.381 0.00 0.00 0.00 3.69
636 637 4.501400 CCTGTTTTTCCATGAAACCAGACC 60.501 45.833 13.13 0.00 35.00 3.85
647 648 1.632589 GGCTGACCCTGTTTTTCCAT 58.367 50.000 0.00 0.00 0.00 3.41
660 661 3.391382 ACCACTAGCCGGGCTGAC 61.391 66.667 31.26 0.00 40.10 3.51
713 714 0.517316 GCCGTGTAAGCAAGAACTGG 59.483 55.000 0.00 0.00 0.00 4.00
758 759 2.590575 CCGTTCCACACACCGCTT 60.591 61.111 0.00 0.00 0.00 4.68
777 778 3.306780 CCAGGATACGACACAAAGGAGTT 60.307 47.826 0.00 0.00 46.39 3.01
779 780 2.418746 CCCAGGATACGACACAAAGGAG 60.419 54.545 0.00 0.00 46.39 3.69
801 802 4.016572 AGAAGCCTGGTTTGGGGTATTATT 60.017 41.667 0.00 0.00 33.87 1.40
806 807 1.154430 AAGAAGCCTGGTTTGGGGTA 58.846 50.000 0.00 0.00 33.87 3.69
808 809 1.203001 TGTAAGAAGCCTGGTTTGGGG 60.203 52.381 0.00 0.00 0.00 4.96
812 813 5.598417 AGTCAAATTGTAAGAAGCCTGGTTT 59.402 36.000 0.00 0.00 0.00 3.27
817 818 7.112452 ACAAAAGTCAAATTGTAAGAAGCCT 57.888 32.000 0.00 0.00 37.96 4.58
866 867 1.134530 CGTCGGCTAAGCTCTCAACG 61.135 60.000 0.00 0.00 0.00 4.10
950 951 6.149474 CGTGAGACCTGGTTTCATAGAATTTT 59.851 38.462 21.29 0.00 29.77 1.82
951 952 5.643777 CGTGAGACCTGGTTTCATAGAATTT 59.356 40.000 21.29 0.00 29.77 1.82
952 953 5.178797 CGTGAGACCTGGTTTCATAGAATT 58.821 41.667 21.29 0.00 29.77 2.17
953 954 4.383118 CCGTGAGACCTGGTTTCATAGAAT 60.383 45.833 21.29 0.00 29.77 2.40
956 957 2.496070 TCCGTGAGACCTGGTTTCATAG 59.504 50.000 21.29 17.42 29.77 2.23
957 958 2.531771 TCCGTGAGACCTGGTTTCATA 58.468 47.619 21.29 9.08 29.77 2.15
959 960 1.348064 ATCCGTGAGACCTGGTTTCA 58.652 50.000 15.44 15.44 0.00 2.69
962 963 1.207329 GCTAATCCGTGAGACCTGGTT 59.793 52.381 0.00 0.00 0.00 3.67
963 964 0.824759 GCTAATCCGTGAGACCTGGT 59.175 55.000 0.00 0.00 0.00 4.00
964 965 0.824109 TGCTAATCCGTGAGACCTGG 59.176 55.000 0.00 0.00 0.00 4.45
965 966 1.202463 CCTGCTAATCCGTGAGACCTG 60.202 57.143 0.00 0.00 0.00 4.00
967 968 0.824759 ACCTGCTAATCCGTGAGACC 59.175 55.000 0.00 0.00 0.00 3.85
968 969 1.476891 TCACCTGCTAATCCGTGAGAC 59.523 52.381 0.00 0.00 31.80 3.36
970 971 2.215907 CTCACCTGCTAATCCGTGAG 57.784 55.000 2.01 2.01 44.38 3.51
971 972 1.476891 GTCTCACCTGCTAATCCGTGA 59.523 52.381 0.00 0.00 34.26 4.35
972 973 1.471676 GGTCTCACCTGCTAATCCGTG 60.472 57.143 0.00 0.00 34.73 4.94
973 974 0.824759 GGTCTCACCTGCTAATCCGT 59.175 55.000 0.00 0.00 34.73 4.69
974 975 0.105039 GGGTCTCACCTGCTAATCCG 59.895 60.000 0.00 0.00 38.64 4.18
975 976 1.204146 TGGGTCTCACCTGCTAATCC 58.796 55.000 0.00 0.00 38.64 3.01
976 977 2.224402 GGATGGGTCTCACCTGCTAATC 60.224 54.545 0.00 0.00 38.64 1.75
977 978 1.771255 GGATGGGTCTCACCTGCTAAT 59.229 52.381 0.00 0.00 38.64 1.73
978 979 1.204146 GGATGGGTCTCACCTGCTAA 58.796 55.000 0.00 0.00 38.64 3.09
979 980 0.339859 AGGATGGGTCTCACCTGCTA 59.660 55.000 0.00 0.00 38.64 3.49
980 981 1.081833 AGGATGGGTCTCACCTGCT 59.918 57.895 0.00 0.00 38.64 4.24
981 982 1.222936 CAGGATGGGTCTCACCTGC 59.777 63.158 7.99 0.00 42.30 4.85
983 984 1.504912 CATCAGGATGGGTCTCACCT 58.495 55.000 1.25 0.00 38.64 4.00
996 997 1.091771 GCCACGTGTCATCCATCAGG 61.092 60.000 15.65 0.00 0.00 3.86
997 998 0.391528 TGCCACGTGTCATCCATCAG 60.392 55.000 15.65 0.00 0.00 2.90
998 999 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
999 1000 1.331756 GAATGCCACGTGTCATCCATC 59.668 52.381 13.12 3.25 0.00 3.51
1000 1001 1.382522 GAATGCCACGTGTCATCCAT 58.617 50.000 13.12 0.00 0.00 3.41
1001 1002 1.018752 CGAATGCCACGTGTCATCCA 61.019 55.000 13.12 2.78 0.00 3.41
1002 1003 1.715585 CGAATGCCACGTGTCATCC 59.284 57.895 13.12 0.00 0.00 3.51
1003 1004 1.060937 GCGAATGCCACGTGTCATC 59.939 57.895 13.12 5.83 33.98 2.92
1004 1005 1.233950 TTGCGAATGCCACGTGTCAT 61.234 50.000 15.65 11.07 41.78 3.06
1005 1006 1.440145 TTTGCGAATGCCACGTGTCA 61.440 50.000 15.65 8.63 41.78 3.58
1006 1007 0.109781 ATTTGCGAATGCCACGTGTC 60.110 50.000 15.65 0.98 41.78 3.67
1007 1008 0.109781 GATTTGCGAATGCCACGTGT 60.110 50.000 15.65 0.00 41.78 4.49
1008 1009 0.109827 TGATTTGCGAATGCCACGTG 60.110 50.000 9.08 9.08 41.78 4.49
1009 1010 0.109781 GTGATTTGCGAATGCCACGT 60.110 50.000 3.20 0.00 41.78 4.49
1010 1011 0.109827 TGTGATTTGCGAATGCCACG 60.110 50.000 3.20 0.00 41.78 4.94
1011 1012 2.063156 TTGTGATTTGCGAATGCCAC 57.937 45.000 3.20 7.66 41.78 5.01
1012 1013 2.674954 CTTTGTGATTTGCGAATGCCA 58.325 42.857 3.20 0.00 41.78 4.92
1013 1014 1.391144 GCTTTGTGATTTGCGAATGCC 59.609 47.619 3.20 0.00 41.78 4.40
1014 1015 2.060284 TGCTTTGTGATTTGCGAATGC 58.940 42.857 3.20 0.59 43.20 3.56
1015 1016 3.305094 GGATGCTTTGTGATTTGCGAATG 59.695 43.478 3.20 0.00 0.00 2.67
1016 1017 3.056678 TGGATGCTTTGTGATTTGCGAAT 60.057 39.130 0.00 0.00 0.00 3.34
1017 1018 2.295629 TGGATGCTTTGTGATTTGCGAA 59.704 40.909 0.00 0.00 0.00 4.70
1018 1019 1.885233 TGGATGCTTTGTGATTTGCGA 59.115 42.857 0.00 0.00 0.00 5.10
1019 1020 1.987770 GTGGATGCTTTGTGATTTGCG 59.012 47.619 0.00 0.00 0.00 4.85
1020 1021 2.340337 GGTGGATGCTTTGTGATTTGC 58.660 47.619 0.00 0.00 0.00 3.68
1021 1022 2.354003 GGGGTGGATGCTTTGTGATTTG 60.354 50.000 0.00 0.00 0.00 2.32
1022 1023 1.901833 GGGGTGGATGCTTTGTGATTT 59.098 47.619 0.00 0.00 0.00 2.17
1023 1024 1.203162 TGGGGTGGATGCTTTGTGATT 60.203 47.619 0.00 0.00 0.00 2.57
1024 1025 0.409092 TGGGGTGGATGCTTTGTGAT 59.591 50.000 0.00 0.00 0.00 3.06
1025 1026 0.187117 TTGGGGTGGATGCTTTGTGA 59.813 50.000 0.00 0.00 0.00 3.58
1026 1027 0.604578 CTTGGGGTGGATGCTTTGTG 59.395 55.000 0.00 0.00 0.00 3.33
1027 1028 0.482446 TCTTGGGGTGGATGCTTTGT 59.518 50.000 0.00 0.00 0.00 2.83
1028 1029 1.856629 ATCTTGGGGTGGATGCTTTG 58.143 50.000 0.00 0.00 0.00 2.77
1029 1030 2.460669 GAATCTTGGGGTGGATGCTTT 58.539 47.619 0.00 0.00 0.00 3.51
1030 1031 1.683011 CGAATCTTGGGGTGGATGCTT 60.683 52.381 0.00 0.00 0.00 3.91
1031 1032 0.107017 CGAATCTTGGGGTGGATGCT 60.107 55.000 0.00 0.00 0.00 3.79
1032 1033 0.107214 TCGAATCTTGGGGTGGATGC 60.107 55.000 0.00 0.00 0.00 3.91
1033 1034 2.645838 ATCGAATCTTGGGGTGGATG 57.354 50.000 0.00 0.00 0.00 3.51
1034 1035 3.071602 CAGTATCGAATCTTGGGGTGGAT 59.928 47.826 0.00 0.00 0.00 3.41
1035 1036 2.434336 CAGTATCGAATCTTGGGGTGGA 59.566 50.000 0.00 0.00 0.00 4.02
1036 1037 2.434336 TCAGTATCGAATCTTGGGGTGG 59.566 50.000 0.00 0.00 0.00 4.61
1037 1038 3.458189 GTCAGTATCGAATCTTGGGGTG 58.542 50.000 0.00 0.00 0.00 4.61
1038 1039 2.434702 GGTCAGTATCGAATCTTGGGGT 59.565 50.000 0.00 0.00 0.00 4.95
1039 1040 2.700897 AGGTCAGTATCGAATCTTGGGG 59.299 50.000 0.00 0.00 0.00 4.96
1040 1041 4.341235 TGTAGGTCAGTATCGAATCTTGGG 59.659 45.833 0.00 0.00 0.00 4.12
1041 1042 5.515797 TGTAGGTCAGTATCGAATCTTGG 57.484 43.478 0.00 0.00 0.00 3.61
1042 1043 5.749109 GGTTGTAGGTCAGTATCGAATCTTG 59.251 44.000 0.00 0.00 0.00 3.02
1043 1044 5.421056 TGGTTGTAGGTCAGTATCGAATCTT 59.579 40.000 0.00 0.00 0.00 2.40
1044 1045 4.954202 TGGTTGTAGGTCAGTATCGAATCT 59.046 41.667 0.00 0.00 0.00 2.40
1045 1046 5.258456 TGGTTGTAGGTCAGTATCGAATC 57.742 43.478 0.00 0.00 0.00 2.52
1046 1047 5.416947 GTTGGTTGTAGGTCAGTATCGAAT 58.583 41.667 0.00 0.00 0.00 3.34
1047 1048 4.322198 GGTTGGTTGTAGGTCAGTATCGAA 60.322 45.833 0.00 0.00 0.00 3.71
1048 1049 3.194116 GGTTGGTTGTAGGTCAGTATCGA 59.806 47.826 0.00 0.00 0.00 3.59
1049 1050 3.056393 TGGTTGGTTGTAGGTCAGTATCG 60.056 47.826 0.00 0.00 0.00 2.92
1050 1051 4.546829 TGGTTGGTTGTAGGTCAGTATC 57.453 45.455 0.00 0.00 0.00 2.24
1051 1052 4.986054 TTGGTTGGTTGTAGGTCAGTAT 57.014 40.909 0.00 0.00 0.00 2.12
1052 1053 4.774660 TTTGGTTGGTTGTAGGTCAGTA 57.225 40.909 0.00 0.00 0.00 2.74
1053 1054 3.655615 TTTGGTTGGTTGTAGGTCAGT 57.344 42.857 0.00 0.00 0.00 3.41
1054 1055 3.243401 GCTTTTGGTTGGTTGTAGGTCAG 60.243 47.826 0.00 0.00 0.00 3.51
1057 1058 2.956333 GAGCTTTTGGTTGGTTGTAGGT 59.044 45.455 0.00 0.00 0.00 3.08
1173 1174 1.575788 TCTAGCTCCCAATCCAGAGGA 59.424 52.381 0.00 0.00 35.55 3.71
1214 1215 3.953612 ACAGTGCAATGGAGTTTTTCTCA 59.046 39.130 19.57 0.00 44.40 3.27
1347 1348 5.106634 GCAATTATTCAGGCAAATTTGTGCA 60.107 36.000 19.03 2.08 46.81 4.57
1540 1544 2.332063 ACCACAACTCCAACAGTCTG 57.668 50.000 0.00 0.00 32.30 3.51
1806 1820 3.181456 GCTTCTCTCCTTGATATGCACCT 60.181 47.826 0.00 0.00 0.00 4.00
1893 1907 1.080569 CGGACCATGGCAGCAAAAC 60.081 57.895 13.04 0.00 0.00 2.43
1975 1990 6.867662 AGTCCAATTCAATATCGTGGAATC 57.132 37.500 0.00 0.00 39.99 2.52
2083 2098 3.751698 AGAAGTATGTTTTCCGGCTTGAC 59.248 43.478 0.00 0.00 0.00 3.18
2091 2106 5.803020 AAGCATCGAGAAGTATGTTTTCC 57.197 39.130 0.00 0.00 0.00 3.13
2214 2238 4.441913 GCAACACCATAAATCCATTCAGGG 60.442 45.833 0.00 0.00 38.24 4.45
2244 2268 7.649306 CCATAGCTATAAACATCAACTTTTGCC 59.351 37.037 5.77 0.00 0.00 4.52
2463 2493 4.455533 TCTTCATCTTGTATGCACCAACAC 59.544 41.667 0.00 0.00 0.00 3.32
2484 2514 0.250553 TTGTTGGCCGGTCGAATTCT 60.251 50.000 0.00 0.00 0.00 2.40
2635 2665 7.766283 ACATAGACATAGGTATGATCATGACG 58.234 38.462 18.72 3.55 37.15 4.35
2711 2743 9.923143 TTGAAATACATGGATAGAACTATACGG 57.077 33.333 0.00 0.00 0.00 4.02
2766 2801 5.883685 TGGAGAACTGCAGATAATCAGAT 57.116 39.130 23.35 0.00 34.57 2.90
2791 2826 9.688091 CTCTACCACATCAGTACCACTATATAT 57.312 37.037 0.00 0.00 0.00 0.86
2792 2827 7.610692 GCTCTACCACATCAGTACCACTATATA 59.389 40.741 0.00 0.00 0.00 0.86
2793 2828 6.434652 GCTCTACCACATCAGTACCACTATAT 59.565 42.308 0.00 0.00 0.00 0.86
2895 2932 1.016130 CACCAGCGACATCTCACCAC 61.016 60.000 0.00 0.00 0.00 4.16
2918 2955 3.197766 TGGAGGAGCTACACCATTTACAG 59.802 47.826 11.62 0.00 0.00 2.74
2949 2986 9.006839 TCATTCATATACCAGCATCAGAAAATC 57.993 33.333 0.00 0.00 0.00 2.17
2971 3010 8.458573 ACATAGAGAGATTTACGAGTCTCATT 57.541 34.615 0.00 0.00 42.57 2.57
2984 3023 6.266131 AGGAGAGTCAGACATAGAGAGATT 57.734 41.667 2.66 0.00 0.00 2.40
2987 3026 4.141505 TGGAGGAGAGTCAGACATAGAGAG 60.142 50.000 2.66 0.00 0.00 3.20
2991 3030 4.501229 GCATTGGAGGAGAGTCAGACATAG 60.501 50.000 2.66 0.00 0.00 2.23
2992 3031 3.386078 GCATTGGAGGAGAGTCAGACATA 59.614 47.826 2.66 0.00 0.00 2.29
2998 3037 2.244486 AGAGCATTGGAGGAGAGTCA 57.756 50.000 0.00 0.00 0.00 3.41
3018 3057 6.579666 TGAAGTATCAGCAGCAGAAATTTT 57.420 33.333 0.00 0.00 0.00 1.82
3021 3060 5.762218 GGTATGAAGTATCAGCAGCAGAAAT 59.238 40.000 0.00 0.00 39.39 2.17
3028 3067 3.643320 TCCCAGGTATGAAGTATCAGCAG 59.357 47.826 0.00 0.00 39.39 4.24
3073 3114 1.042229 TTTTGCCACTTCTGCTGCAT 58.958 45.000 1.31 0.00 33.08 3.96
3092 3133 5.615925 AGACAACTTTCAGTAGGTTCAGT 57.384 39.130 0.00 0.00 0.00 3.41
3150 3192 8.421784 GTGTCCCAATAACTCATTATCTCTGTA 58.578 37.037 0.00 0.00 30.27 2.74
3362 3410 3.560068 GGTGTAGAACAACCACACTCTTG 59.440 47.826 4.31 0.00 41.78 3.02
3369 3417 4.202284 TGTTCCTAGGTGTAGAACAACCAC 60.202 45.833 9.08 0.00 36.16 4.16
3378 3426 4.184629 GAGTGCAATGTTCCTAGGTGTAG 58.815 47.826 9.08 0.00 0.00 2.74
3380 3428 2.290323 GGAGTGCAATGTTCCTAGGTGT 60.290 50.000 9.08 0.00 0.00 4.16
3385 3433 0.392461 GCGGGAGTGCAATGTTCCTA 60.392 55.000 0.00 0.00 34.15 2.94
3386 3434 1.675641 GCGGGAGTGCAATGTTCCT 60.676 57.895 0.00 0.00 34.15 3.36
3387 3435 0.392461 TAGCGGGAGTGCAATGTTCC 60.392 55.000 0.00 0.00 37.31 3.62
3388 3436 0.727398 GTAGCGGGAGTGCAATGTTC 59.273 55.000 0.00 0.00 37.31 3.18
3389 3437 0.036164 TGTAGCGGGAGTGCAATGTT 59.964 50.000 0.00 0.00 37.31 2.71
3390 3438 0.673644 GTGTAGCGGGAGTGCAATGT 60.674 55.000 0.00 0.00 37.31 2.71
3391 3439 1.369091 GGTGTAGCGGGAGTGCAATG 61.369 60.000 0.00 0.00 37.31 2.82
3392 3440 1.078426 GGTGTAGCGGGAGTGCAAT 60.078 57.895 0.00 0.00 37.31 3.56
3393 3441 2.345991 GGTGTAGCGGGAGTGCAA 59.654 61.111 0.00 0.00 37.31 4.08
3394 3442 3.702048 GGGTGTAGCGGGAGTGCA 61.702 66.667 0.00 0.00 37.31 4.57
3395 3443 3.031417 ATGGGTGTAGCGGGAGTGC 62.031 63.158 0.00 0.00 0.00 4.40
3396 3444 1.153369 CATGGGTGTAGCGGGAGTG 60.153 63.158 0.00 0.00 0.00 3.51
3397 3445 0.691078 ATCATGGGTGTAGCGGGAGT 60.691 55.000 0.00 0.00 0.00 3.85
3398 3446 1.338107 TATCATGGGTGTAGCGGGAG 58.662 55.000 0.00 0.00 0.00 4.30
3399 3447 1.796017 TTATCATGGGTGTAGCGGGA 58.204 50.000 0.00 0.00 0.00 5.14
3443 3491 6.283544 TGCTCATAATGGAATCTGCAAAAA 57.716 33.333 0.00 0.00 0.00 1.94
3444 3492 5.918426 TGCTCATAATGGAATCTGCAAAA 57.082 34.783 0.00 0.00 0.00 2.44
3456 3513 7.037438 AGCACCTAAAACATTTGCTCATAATG 58.963 34.615 0.00 0.00 39.32 1.90
3491 3548 0.887247 CGGATGTCATTTGCCCACAA 59.113 50.000 0.00 0.00 0.00 3.33
3493 3550 0.734889 CTCGGATGTCATTTGCCCAC 59.265 55.000 0.00 0.00 0.00 4.61
3497 3554 0.659957 GCTCCTCGGATGTCATTTGC 59.340 55.000 0.00 0.00 0.00 3.68
3542 3601 8.745837 GCATCCACGTTTCAGATTTTATATTTG 58.254 33.333 0.00 0.00 0.00 2.32
3544 3603 7.995289 TGCATCCACGTTTCAGATTTTATATT 58.005 30.769 0.00 0.00 0.00 1.28
3561 3620 1.818642 AACTCTTGCTCTGCATCCAC 58.181 50.000 0.00 0.00 38.76 4.02


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

AutoCloner maintained by Alex Coulton.