Multiple sequence alignment - TraesCS6A01G167600

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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 TraesCS6A01G167600 chr6A 100.000 3425 0 0 1 3425 171806677 171803253 0.000000e+00 6325.0
1 TraesCS6A01G167600 chr6A 100.000 683 0 0 3703 4385 171802975 171802293 0.000000e+00 1262.0
2 TraesCS6A01G167600 chr6B 96.736 1777 52 4 1566 3338 230765194 230763420 0.000000e+00 2955.0
3 TraesCS6A01G167600 chr6B 91.587 416 15 10 911 1310 230768293 230767882 1.380000e-154 556.0
4 TraesCS6A01G167600 chr6B 91.165 249 15 2 1315 1556 230767385 230767137 9.090000e-87 331.0
5 TraesCS6A01G167600 chr6B 80.859 256 13 4 3703 3939 230763382 230763144 7.540000e-38 169.0
6 TraesCS6A01G167600 chr6B 90.789 76 7 0 4173 4248 708188704 708188779 7.760000e-18 102.0
7 TraesCS6A01G167600 chr6B 100.000 30 0 0 4097 4126 708188676 708188705 6.130000e-04 56.5
8 TraesCS6A01G167600 chr6D 95.463 1102 36 5 2325 3425 132760372 132759284 0.000000e+00 1746.0
9 TraesCS6A01G167600 chr6D 94.286 1050 34 8 1315 2339 132761484 132760436 0.000000e+00 1583.0
10 TraesCS6A01G167600 chr6D 93.017 401 4 9 931 1310 132762366 132761969 8.230000e-157 564.0
11 TraesCS6A01G167600 chr6D 85.268 224 16 7 3730 3937 132759183 132758961 9.550000e-52 215.0
12 TraesCS6A01G167600 chr6D 100.000 39 0 0 3703 3741 132759233 132759195 6.080000e-09 73.1
13 TraesCS6A01G167600 chr1B 85.174 661 67 15 29 661 389094736 389095393 0.000000e+00 649.0
14 TraesCS6A01G167600 chr7B 83.384 662 87 11 22 661 666704467 666703807 3.780000e-165 592.0
15 TraesCS6A01G167600 chr7B 89.474 114 12 0 663 776 666695114 666695001 1.270000e-30 145.0
16 TraesCS6A01G167600 chr5D 85.818 550 57 7 132 660 491662773 491663322 8.230000e-157 564.0
17 TraesCS6A01G167600 chr7D 82.667 675 67 13 34 661 594202007 594201336 1.780000e-153 553.0
18 TraesCS6A01G167600 chr7D 85.118 551 61 7 132 661 133192659 133192109 1.070000e-150 544.0
19 TraesCS6A01G167600 chr7D 82.153 678 74 20 29 661 594915788 594916463 4.990000e-149 538.0
20 TraesCS6A01G167600 chr7D 88.415 164 14 3 3940 4098 127279556 127279393 4.480000e-45 193.0
21 TraesCS6A01G167600 chr7D 88.415 164 14 3 3940 4098 339001637 339001800 4.480000e-45 193.0
22 TraesCS6A01G167600 chr7D 89.565 115 12 0 664 778 594916527 594916641 3.530000e-31 147.0
23 TraesCS6A01G167600 chr1D 81.552 683 74 19 29 661 487202937 487202257 2.340000e-142 516.0
24 TraesCS6A01G167600 chr3B 99.142 233 0 2 4154 4385 502644609 502644840 6.780000e-113 418.0
25 TraesCS6A01G167600 chr3B 96.875 160 4 1 3940 4098 502644325 502644484 2.600000e-67 267.0
26 TraesCS6A01G167600 chr3B 100.000 65 0 0 4097 4161 502644585 502644649 2.140000e-23 121.0
27 TraesCS6A01G167600 chr3B 91.379 58 4 1 370 426 421657266 421657209 1.310000e-10 78.7
28 TraesCS6A01G167600 chr3A 100.000 226 0 0 4160 4385 17482961 17482736 6.780000e-113 418.0
29 TraesCS6A01G167600 chr3A 96.875 160 4 1 3940 4098 17483251 17483092 2.600000e-67 267.0
30 TraesCS6A01G167600 chr3A 92.262 168 12 1 4219 4385 33202870 33202703 2.040000e-58 237.0
31 TraesCS6A01G167600 chr3A 86.667 165 17 3 3939 4098 666123889 666123725 1.250000e-40 178.0
32 TraesCS6A01G167600 chr3A 98.571 70 1 0 4092 4161 17482996 17482927 1.660000e-24 124.0
33 TraesCS6A01G167600 chr3A 89.831 59 6 0 4092 4150 666123651 666123593 4.700000e-10 76.8
34 TraesCS6A01G167600 chr2A 100.000 226 0 0 4160 4385 360442993 360442768 6.780000e-113 418.0
35 TraesCS6A01G167600 chr2A 100.000 226 0 0 4160 4385 746931688 746931463 6.780000e-113 418.0
36 TraesCS6A01G167600 chr2A 98.500 200 3 0 4160 4359 360444288 360444089 1.940000e-93 353.0
37 TraesCS6A01G167600 chr2A 97.516 161 3 1 3939 4098 360443283 360443123 1.550000e-69 274.0
38 TraesCS6A01G167600 chr2A 96.250 160 5 1 3940 4098 746931978 746931819 1.210000e-65 261.0
39 TraesCS6A01G167600 chr2A 95.625 160 6 1 3940 4098 360444578 360444419 5.630000e-64 255.0
40 TraesCS6A01G167600 chr2A 98.571 70 1 0 4092 4161 360443028 360442959 1.660000e-24 124.0
41 TraesCS6A01G167600 chr2A 98.571 70 1 0 4092 4161 746931723 746931654 1.660000e-24 124.0
42 TraesCS6A01G167600 chr2A 100.000 65 0 0 4097 4161 360444318 360444254 2.140000e-23 121.0
43 TraesCS6A01G167600 chr5A 92.262 168 12 1 4219 4385 605563201 605563034 2.040000e-58 237.0
44 TraesCS6A01G167600 chr5A 87.195 164 16 4 3940 4098 605574321 605574158 9.690000e-42 182.0
45 TraesCS6A01G167600 chr3D 92.262 168 12 1 4219 4385 24584588 24584421 2.040000e-58 237.0
46 TraesCS6A01G167600 chr3D 91.860 86 7 0 4163 4248 24584687 24584602 2.140000e-23 121.0
47 TraesCS6A01G167600 chr3D 90.625 64 6 0 4093 4156 24584724 24584661 7.810000e-13 86.1
48 TraesCS6A01G167600 chr2B 92.262 168 12 1 4219 4385 67420349 67420182 2.040000e-58 237.0
49 TraesCS6A01G167600 chr4D 91.667 168 13 1 4219 4385 508895190 508895023 9.480000e-57 231.0
50 TraesCS6A01G167600 chr4D 91.860 86 7 0 4163 4248 508895289 508895204 2.140000e-23 121.0
51 TraesCS6A01G167600 chr7A 88.750 80 7 2 1359 1436 603354278 603354357 3.610000e-16 97.1
52 TraesCS6A01G167600 chr4B 91.379 58 4 1 370 426 508816009 508816066 1.310000e-10 78.7
53 TraesCS6A01G167600 chr4B 91.379 58 4 1 370 426 508821107 508821164 1.310000e-10 78.7


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 TraesCS6A01G167600 chr6A 171802293 171806677 4384 True 3793.500000 6325 100.000000 1 4385 2 chr6A.!!$R1 4384
1 TraesCS6A01G167600 chr6B 230763144 230768293 5149 True 1002.750000 2955 90.086750 911 3939 4 chr6B.!!$R1 3028
2 TraesCS6A01G167600 chr6D 132758961 132762366 3405 True 836.220000 1746 93.606800 931 3937 5 chr6D.!!$R1 3006
3 TraesCS6A01G167600 chr1B 389094736 389095393 657 False 649.000000 649 85.174000 29 661 1 chr1B.!!$F1 632
4 TraesCS6A01G167600 chr7B 666703807 666704467 660 True 592.000000 592 83.384000 22 661 1 chr7B.!!$R2 639
5 TraesCS6A01G167600 chr5D 491662773 491663322 549 False 564.000000 564 85.818000 132 660 1 chr5D.!!$F1 528
6 TraesCS6A01G167600 chr7D 594201336 594202007 671 True 553.000000 553 82.667000 34 661 1 chr7D.!!$R3 627
7 TraesCS6A01G167600 chr7D 133192109 133192659 550 True 544.000000 544 85.118000 132 661 1 chr7D.!!$R2 529
8 TraesCS6A01G167600 chr7D 594915788 594916641 853 False 342.500000 538 85.859000 29 778 2 chr7D.!!$F2 749
9 TraesCS6A01G167600 chr1D 487202257 487202937 680 True 516.000000 516 81.552000 29 661 1 chr1D.!!$R1 632
10 TraesCS6A01G167600 chr3B 502644325 502644840 515 False 268.666667 418 98.672333 3940 4385 3 chr3B.!!$F1 445
11 TraesCS6A01G167600 chr3A 17482736 17483251 515 True 269.666667 418 98.482000 3940 4385 3 chr3A.!!$R2 445
12 TraesCS6A01G167600 chr2A 746931463 746931978 515 True 267.666667 418 98.273667 3940 4385 3 chr2A.!!$R2 445
13 TraesCS6A01G167600 chr2A 360442768 360444578 1810 True 257.500000 418 98.368667 3939 4385 6 chr2A.!!$R1 446

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
364 398 0.179086 CGCCTTTTTGGGTTTGCTGT 60.179 50.0 0.00 0.0 36.00 4.40 F
796 913 0.179137 CGTCTAGCAGTCGCCATTCA 60.179 55.0 0.00 0.0 39.83 2.57 F
1240 1378 0.463654 GGCGCACCATTAGATCCACA 60.464 55.0 10.83 0.0 35.26 4.17 F
2833 5504 0.249657 CCGCATCTTCTGGAGCTACC 60.250 60.0 0.00 0.0 39.54 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1393 2030 0.966179 CAAACAAGTTGGGGTAGGCC 59.034 55.0 7.96 0.0 33.18 5.19 R
2464 5135 1.584724 AAGGGATGTACAGGTCTGGG 58.415 55.0 0.33 0.0 34.19 4.45 R
3205 5876 0.250295 TCACCTCCAGCAGAAAACGG 60.250 55.0 0.00 0.0 0.00 4.44 R
4155 6972 0.390735 GGTCGGCTGAATACACCGTT 60.391 55.0 0.00 0.0 46.92 4.44 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
20 21 3.069778 GGAGACCTGCCCGACTTT 58.930 61.111 0.00 0.00 0.00 2.66
27 28 0.455815 CCTGCCCGACTTTTTATGCC 59.544 55.000 0.00 0.00 0.00 4.40
74 77 3.945285 ACTCCGTTCAAGCTTTTTCTTCA 59.055 39.130 0.00 0.00 0.00 3.02
111 115 7.729116 TCTTTTGCATCTTTTTCCTGAAATCT 58.271 30.769 0.00 0.00 0.00 2.40
112 116 7.654520 TCTTTTGCATCTTTTTCCTGAAATCTG 59.345 33.333 0.00 0.00 0.00 2.90
114 118 4.834496 TGCATCTTTTTCCTGAAATCTGGT 59.166 37.500 6.28 0.00 36.48 4.00
118 124 4.518970 TCTTTTTCCTGAAATCTGGTTCCG 59.481 41.667 6.28 0.00 36.48 4.30
221 252 2.554370 ACAGCCGTAGCCTGTTTTTA 57.446 45.000 0.00 0.00 41.25 1.52
297 330 0.446222 GCGATGCCTTTTCGTTGCTA 59.554 50.000 0.00 0.00 38.81 3.49
325 359 0.181587 TTGGAGTTTGCTGGAACCGA 59.818 50.000 0.00 0.00 0.00 4.69
364 398 0.179086 CGCCTTTTTGGGTTTGCTGT 60.179 50.000 0.00 0.00 36.00 4.40
410 444 3.556843 CCGGATTTGGTTTTTGCTGGAAT 60.557 43.478 0.00 0.00 0.00 3.01
474 511 3.039202 GCCGTCGTCTGCCATTTGG 62.039 63.158 0.00 0.00 38.53 3.28
484 521 1.368579 GCCATTTGGTGCTGCAACT 59.631 52.632 19.68 0.00 37.57 3.16
512 549 2.202878 CGATCGCCGTCCATGGTT 60.203 61.111 12.58 0.00 0.00 3.67
528 565 1.887854 TGGTTCGACGAGATACAACCA 59.112 47.619 11.77 11.77 43.37 3.67
540 577 0.320374 TACAACCAAGGGTCTGCGAG 59.680 55.000 0.00 0.00 33.12 5.03
618 674 0.886490 CAACCAGCAAGGCGTCTTCT 60.886 55.000 0.00 0.00 43.14 2.85
703 820 0.317352 GTCGTACGGAAGGGATACGC 60.317 60.000 16.52 0.00 39.78 4.42
712 829 0.858369 AAGGGATACGCTAGGGAGGA 59.142 55.000 14.59 0.00 37.60 3.71
717 834 3.166679 GGATACGCTAGGGAGGAAAGAT 58.833 50.000 14.59 0.00 0.00 2.40
725 842 1.065854 AGGGAGGAAAGATGCGTTGAG 60.066 52.381 0.00 0.00 0.00 3.02
756 873 1.466529 CGATACCTGGAGATCGCATCG 60.467 57.143 17.95 0.41 38.60 3.84
771 888 4.833495 TCGGATGGATGGGGGCCA 62.833 66.667 4.39 0.00 40.24 5.36
793 910 2.105128 GCGTCTAGCAGTCGCCAT 59.895 61.111 13.52 0.00 44.64 4.40
794 911 1.519455 GCGTCTAGCAGTCGCCATT 60.519 57.895 13.52 0.00 44.64 3.16
795 912 1.483424 GCGTCTAGCAGTCGCCATTC 61.483 60.000 13.52 0.00 44.64 2.67
796 913 0.179137 CGTCTAGCAGTCGCCATTCA 60.179 55.000 0.00 0.00 39.83 2.57
797 914 1.536922 CGTCTAGCAGTCGCCATTCAT 60.537 52.381 0.00 0.00 39.83 2.57
798 915 2.555199 GTCTAGCAGTCGCCATTCATT 58.445 47.619 0.00 0.00 39.83 2.57
799 916 3.717707 GTCTAGCAGTCGCCATTCATTA 58.282 45.455 0.00 0.00 39.83 1.90
800 917 4.119862 GTCTAGCAGTCGCCATTCATTAA 58.880 43.478 0.00 0.00 39.83 1.40
801 918 4.752101 GTCTAGCAGTCGCCATTCATTAAT 59.248 41.667 0.00 0.00 39.83 1.40
804 921 3.812053 AGCAGTCGCCATTCATTAATCTC 59.188 43.478 0.00 0.00 39.83 2.75
805 922 3.561310 GCAGTCGCCATTCATTAATCTCA 59.439 43.478 0.00 0.00 0.00 3.27
806 923 4.035558 GCAGTCGCCATTCATTAATCTCAA 59.964 41.667 0.00 0.00 0.00 3.02
807 924 5.278169 GCAGTCGCCATTCATTAATCTCAAT 60.278 40.000 0.00 0.00 0.00 2.57
808 925 6.073058 GCAGTCGCCATTCATTAATCTCAATA 60.073 38.462 0.00 0.00 0.00 1.90
809 926 7.361542 GCAGTCGCCATTCATTAATCTCAATAT 60.362 37.037 0.00 0.00 0.00 1.28
810 927 9.154847 CAGTCGCCATTCATTAATCTCAATATA 57.845 33.333 0.00 0.00 0.00 0.86
834 951 4.669206 ATGTTATGGCTCAGTCTCTCAG 57.331 45.455 0.00 0.00 0.00 3.35
835 952 3.701664 TGTTATGGCTCAGTCTCTCAGA 58.298 45.455 0.00 0.00 0.00 3.27
836 953 4.285020 TGTTATGGCTCAGTCTCTCAGAT 58.715 43.478 0.00 0.00 0.00 2.90
837 954 4.099113 TGTTATGGCTCAGTCTCTCAGATG 59.901 45.833 0.00 0.00 0.00 2.90
838 955 2.228545 TGGCTCAGTCTCTCAGATGT 57.771 50.000 0.00 0.00 0.00 3.06
839 956 1.823610 TGGCTCAGTCTCTCAGATGTG 59.176 52.381 0.00 0.00 0.00 3.21
840 957 1.471327 GGCTCAGTCTCTCAGATGTGC 60.471 57.143 0.00 0.00 0.00 4.57
843 960 3.130164 GCTCAGTCTCTCAGATGTGCTTA 59.870 47.826 0.00 0.00 31.36 3.09
846 963 4.036144 TCAGTCTCTCAGATGTGCTTATCG 59.964 45.833 0.00 0.00 32.33 2.92
848 965 4.400884 AGTCTCTCAGATGTGCTTATCGTT 59.599 41.667 0.00 0.00 32.33 3.85
849 966 5.105554 AGTCTCTCAGATGTGCTTATCGTTT 60.106 40.000 0.00 0.00 32.33 3.60
850 967 5.578727 GTCTCTCAGATGTGCTTATCGTTTT 59.421 40.000 0.00 0.00 32.33 2.43
851 968 6.091441 GTCTCTCAGATGTGCTTATCGTTTTT 59.909 38.462 0.00 0.00 32.33 1.94
852 969 7.275779 GTCTCTCAGATGTGCTTATCGTTTTTA 59.724 37.037 0.00 0.00 32.33 1.52
853 970 7.981789 TCTCTCAGATGTGCTTATCGTTTTTAT 59.018 33.333 0.00 0.00 32.33 1.40
854 971 7.909267 TCTCAGATGTGCTTATCGTTTTTATG 58.091 34.615 0.00 0.00 32.33 1.90
855 972 7.549134 TCTCAGATGTGCTTATCGTTTTTATGT 59.451 33.333 0.00 0.00 32.33 2.29
856 973 8.039603 TCAGATGTGCTTATCGTTTTTATGTT 57.960 30.769 0.00 0.00 32.33 2.71
857 974 8.175069 TCAGATGTGCTTATCGTTTTTATGTTC 58.825 33.333 0.00 0.00 32.33 3.18
858 975 7.962373 CAGATGTGCTTATCGTTTTTATGTTCA 59.038 33.333 0.00 0.00 32.33 3.18
859 976 8.677300 AGATGTGCTTATCGTTTTTATGTTCAT 58.323 29.630 0.00 0.00 32.33 2.57
862 979 9.767684 TGTGCTTATCGTTTTTATGTTCATAAG 57.232 29.630 5.58 0.00 0.00 1.73
863 980 9.982291 GTGCTTATCGTTTTTATGTTCATAAGA 57.018 29.630 5.58 0.00 0.00 2.10
877 994 6.405538 TGTTCATAAGATGAGTGTACATGCA 58.594 36.000 0.00 0.43 40.94 3.96
878 995 7.049754 TGTTCATAAGATGAGTGTACATGCAT 58.950 34.615 11.72 11.72 40.94 3.96
879 996 8.203485 TGTTCATAAGATGAGTGTACATGCATA 58.797 33.333 11.83 0.64 40.94 3.14
880 997 9.212641 GTTCATAAGATGAGTGTACATGCATAT 57.787 33.333 11.83 7.54 40.94 1.78
881 998 8.767478 TCATAAGATGAGTGTACATGCATATG 57.233 34.615 11.83 11.84 35.94 1.78
882 999 8.370182 TCATAAGATGAGTGTACATGCATATGT 58.630 33.333 11.83 0.00 41.41 2.29
883 1000 9.643693 CATAAGATGAGTGTACATGCATATGTA 57.356 33.333 11.83 0.00 45.45 2.29
896 1013 8.037382 ACATGCATATGTACTATCAGATTTGC 57.963 34.615 0.00 0.00 45.45 3.68
898 1015 6.223120 TGCATATGTACTATCAGATTTGCGT 58.777 36.000 4.29 0.00 0.00 5.24
899 1016 6.705825 TGCATATGTACTATCAGATTTGCGTT 59.294 34.615 4.29 0.00 0.00 4.84
900 1017 7.011773 GCATATGTACTATCAGATTTGCGTTG 58.988 38.462 4.29 0.00 0.00 4.10
901 1018 7.307396 GCATATGTACTATCAGATTTGCGTTGT 60.307 37.037 4.29 0.00 0.00 3.32
902 1019 9.191995 CATATGTACTATCAGATTTGCGTTGTA 57.808 33.333 0.00 0.00 0.00 2.41
903 1020 6.880822 TGTACTATCAGATTTGCGTTGTAC 57.119 37.500 0.00 0.00 0.00 2.90
904 1021 6.627243 TGTACTATCAGATTTGCGTTGTACT 58.373 36.000 0.00 0.00 30.46 2.73
905 1022 6.530181 TGTACTATCAGATTTGCGTTGTACTG 59.470 38.462 0.00 0.00 30.46 2.74
907 1024 1.459209 TCAGATTTGCGTTGTACTGCG 59.541 47.619 0.00 0.00 0.00 5.18
908 1025 1.194547 CAGATTTGCGTTGTACTGCGT 59.805 47.619 10.34 0.00 0.00 5.24
909 1026 1.871039 AGATTTGCGTTGTACTGCGTT 59.129 42.857 10.34 0.00 0.00 4.84
914 1031 3.670311 TGCGTTGTACTGCGTTAAAAA 57.330 38.095 10.34 0.00 0.00 1.94
1032 1149 2.889617 CCGCATCCTACGACACCA 59.110 61.111 0.00 0.00 0.00 4.17
1198 1335 5.545063 AACTAACCTCCACAAATTTTGGG 57.455 39.130 13.42 9.17 34.56 4.12
1199 1336 4.552674 ACTAACCTCCACAAATTTTGGGT 58.447 39.130 13.42 7.81 34.56 4.51
1240 1378 0.463654 GGCGCACCATTAGATCCACA 60.464 55.000 10.83 0.00 35.26 4.17
1261 1399 1.414181 CCTGTCTGCGATGAACCCTAT 59.586 52.381 0.00 0.00 0.00 2.57
1308 1446 5.585500 TTGTATTGTACGAGTTGTCTTGC 57.415 39.130 0.00 0.00 0.00 4.01
1309 1447 4.878439 TGTATTGTACGAGTTGTCTTGCT 58.122 39.130 0.00 0.00 0.00 3.91
1312 1450 2.479837 TGTACGAGTTGTCTTGCTTGG 58.520 47.619 0.00 0.00 0.00 3.61
1313 1451 2.101750 TGTACGAGTTGTCTTGCTTGGA 59.898 45.455 0.00 0.00 0.00 3.53
1393 2030 2.223805 GGTGTTTTGGGTTTCAGCTCTG 60.224 50.000 0.00 0.00 0.00 3.35
1436 2089 5.515270 GGACTAAAGACTTTGTTGTTGTTGC 59.485 40.000 10.80 0.00 0.00 4.17
1466 2119 2.905736 TGGAATGACCACAGATCAGTGA 59.094 45.455 18.95 0.00 44.64 3.41
1483 2136 4.571984 TCAGTGAAATGATAACCTGATGCG 59.428 41.667 0.00 0.00 0.00 4.73
1547 2200 2.717580 TAGGCCGTCATATTACTGCG 57.282 50.000 0.00 0.00 31.09 5.18
1580 4166 3.818773 TGTTAAACTAAGGCAACAGGCTC 59.181 43.478 0.00 0.00 44.01 4.70
1660 4246 7.533900 CCGTCAAAGTAGTTTTATGACACATTG 59.466 37.037 12.06 0.00 0.00 2.82
1728 4314 9.395707 GTCATGAAATTCATTGAGCTATGATTC 57.604 33.333 5.63 3.65 34.28 2.52
1832 4418 7.601130 ACTGTTTGTTGATCATCAATTGGATTG 59.399 33.333 17.66 1.86 38.79 2.67
1878 4464 8.950403 ACTTCAACTTATCGCAAAATACTTTC 57.050 30.769 0.00 0.00 0.00 2.62
2048 4634 1.136329 ATGGTGCTGGACCTGGACTT 61.136 55.000 19.43 7.79 46.32 3.01
2301 4887 2.623416 GTTCCCTTTCTTTCACAGGGTG 59.377 50.000 3.38 0.00 46.82 4.61
2305 4891 2.487986 CCTTTCTTTCACAGGGTGAGCT 60.488 50.000 0.00 0.00 43.69 4.09
2367 5037 5.729732 GCTGTGAAGTCTCATAACATGCATG 60.730 44.000 25.09 25.09 33.05 4.06
2392 5063 5.887754 TGCTTTATTGTCTTCCTTAAGGGT 58.112 37.500 21.53 2.48 36.25 4.34
2434 5105 2.252714 CCTGTAGGAGGAAGGCTATCC 58.747 57.143 5.43 5.43 46.33 2.59
2464 5135 4.461781 CCTCCAATTCAGGATATCAATGCC 59.538 45.833 4.83 0.00 36.99 4.40
2533 5204 1.747206 GCTGGATACGCATTGGGAGTT 60.747 52.381 7.82 0.00 42.51 3.01
2536 5207 2.213499 GGATACGCATTGGGAGTTCTG 58.787 52.381 7.82 0.00 0.00 3.02
2552 5223 4.844884 AGTTCTGGGAAGGTAAATACAGC 58.155 43.478 0.00 0.00 0.00 4.40
2555 5226 3.118884 TCTGGGAAGGTAAATACAGCGTC 60.119 47.826 0.00 0.00 0.00 5.19
2556 5227 2.835764 TGGGAAGGTAAATACAGCGTCT 59.164 45.455 0.00 0.00 0.00 4.18
2611 5282 5.062528 TGCACACTTTACATGACTGAATCA 58.937 37.500 0.00 0.00 43.13 2.57
2636 5307 8.611757 CATCTAAATGTGATTTGTTCGGTGATA 58.388 33.333 0.00 0.00 33.82 2.15
2667 5338 0.534412 CTGAGGCACTGACCCTACAG 59.466 60.000 0.00 0.00 41.55 2.74
2833 5504 0.249657 CCGCATCTTCTGGAGCTACC 60.250 60.000 0.00 0.00 39.54 3.18
3036 5707 4.120589 GTGGTTGATCTTCCCGTCTTATC 58.879 47.826 0.00 0.00 0.00 1.75
3071 5742 4.778534 ACGTGAATCGAACTTTAGGAGA 57.221 40.909 0.00 0.00 42.86 3.71
3200 5871 4.568359 CAGATGAAAGCGCATGTAACTACT 59.432 41.667 11.47 0.00 0.00 2.57
3205 5876 4.663636 AAGCGCATGTAACTACTGTTTC 57.336 40.909 11.47 0.00 37.59 2.78
3272 5943 3.261580 TGGAGATGAATTGCTACACGTG 58.738 45.455 15.48 15.48 0.00 4.49
3282 5953 1.001924 TGCTACACGTGTGCATTTTGG 60.002 47.619 30.83 5.24 30.98 3.28
3361 6032 4.580167 TCCTGGAACTGTTTCACTTGAATG 59.420 41.667 0.00 0.00 33.54 2.67
3390 6061 2.581216 ACGTTCCTGTCTCCAGTCTA 57.419 50.000 0.00 0.00 36.95 2.59
3410 6081 1.751924 ACTGAAGACGCCACTATCTCC 59.248 52.381 0.00 0.00 0.00 3.71
3421 6092 4.321304 CGCCACTATCTCCGATTATGTTCT 60.321 45.833 0.00 0.00 0.00 3.01
3820 6515 4.393680 GGGTCGCATTGTAAACATGAGTTA 59.606 41.667 0.00 0.00 36.84 2.24
3840 6535 0.815734 GTACTAGGTGGAAGCGCAGA 59.184 55.000 11.47 0.00 40.95 4.26
3853 6548 4.142600 GGAAGCGCAGATTAGTTCATGTTT 60.143 41.667 11.47 0.00 34.67 2.83
3899 6613 2.699954 CGGGAGCACAAGTTAGTTCAT 58.300 47.619 0.00 0.00 0.00 2.57
3922 6636 5.661458 TCTGGAAGCATAAGTTACTACAGC 58.339 41.667 0.00 0.00 0.00 4.40
4067 6782 2.679132 AAACGCAGCAGAGTCGTCGT 62.679 55.000 0.00 0.00 35.18 4.34
4130 6947 2.280254 CCAACCGGCACACGTGTA 60.280 61.111 22.90 0.00 42.24 2.90
4131 6948 1.669760 CCAACCGGCACACGTGTAT 60.670 57.895 22.90 0.00 42.24 2.29
4132 6949 1.231958 CCAACCGGCACACGTGTATT 61.232 55.000 22.90 8.09 42.24 1.89
4133 6950 0.165079 CAACCGGCACACGTGTATTC 59.835 55.000 22.90 13.11 42.24 1.75
4134 6951 0.249953 AACCGGCACACGTGTATTCA 60.250 50.000 22.90 0.00 42.24 2.57
4135 6952 0.669318 ACCGGCACACGTGTATTCAG 60.669 55.000 22.90 9.88 42.24 3.02
4136 6953 1.419922 CGGCACACGTGTATTCAGC 59.580 57.895 22.90 19.48 37.93 4.26
4137 6954 1.794222 GGCACACGTGTATTCAGCC 59.206 57.895 25.43 25.43 0.00 4.85
4138 6955 1.419922 GCACACGTGTATTCAGCCG 59.580 57.895 22.90 7.48 0.00 5.52
4139 6956 1.011968 GCACACGTGTATTCAGCCGA 61.012 55.000 22.90 0.00 0.00 5.54
4140 6957 0.713883 CACACGTGTATTCAGCCGAC 59.286 55.000 22.90 0.00 0.00 4.79
4141 6958 0.389426 ACACGTGTATTCAGCCGACC 60.389 55.000 21.98 0.00 0.00 4.79
4142 6959 1.082117 CACGTGTATTCAGCCGACCC 61.082 60.000 7.58 0.00 0.00 4.46
4143 6960 1.216977 CGTGTATTCAGCCGACCCA 59.783 57.895 0.00 0.00 0.00 4.51
4144 6961 1.082117 CGTGTATTCAGCCGACCCAC 61.082 60.000 0.00 0.00 0.00 4.61
4145 6962 1.082117 GTGTATTCAGCCGACCCACG 61.082 60.000 0.00 0.00 42.18 4.94
4146 6963 2.171725 GTATTCAGCCGACCCACGC 61.172 63.158 0.00 0.00 41.07 5.34
4147 6964 3.709880 TATTCAGCCGACCCACGCG 62.710 63.158 3.53 3.53 41.07 6.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.083862 GTCGGGCAGGTCTCCCAC 62.084 72.222 0.00 0.00 44.11 4.61
1 2 3.846405 AAGTCGGGCAGGTCTCCCA 62.846 63.158 0.00 0.00 44.11 4.37
2 3 2.125766 AAAAGTCGGGCAGGTCTCCC 62.126 60.000 0.00 0.00 40.43 4.30
3 4 0.250770 AAAAAGTCGGGCAGGTCTCC 60.251 55.000 0.00 0.00 0.00 3.71
5 6 2.711542 CATAAAAAGTCGGGCAGGTCT 58.288 47.619 0.00 0.00 0.00 3.85
6 7 1.132453 GCATAAAAAGTCGGGCAGGTC 59.868 52.381 0.00 0.00 0.00 3.85
7 8 1.173913 GCATAAAAAGTCGGGCAGGT 58.826 50.000 0.00 0.00 0.00 4.00
8 9 0.455815 GGCATAAAAAGTCGGGCAGG 59.544 55.000 0.00 0.00 0.00 4.85
9 10 1.173043 TGGCATAAAAAGTCGGGCAG 58.827 50.000 0.00 0.00 0.00 4.85
10 11 1.271102 GTTGGCATAAAAAGTCGGGCA 59.729 47.619 0.00 0.00 0.00 5.36
11 12 1.544246 AGTTGGCATAAAAAGTCGGGC 59.456 47.619 0.00 0.00 0.00 6.13
12 13 2.094752 CCAGTTGGCATAAAAAGTCGGG 60.095 50.000 0.00 0.00 0.00 5.14
13 14 2.556622 ACCAGTTGGCATAAAAAGTCGG 59.443 45.455 0.00 0.00 39.32 4.79
16 17 3.133721 TGCAACCAGTTGGCATAAAAAGT 59.866 39.130 12.20 0.00 40.74 2.66
18 19 3.827008 TGCAACCAGTTGGCATAAAAA 57.173 38.095 12.20 0.00 40.74 1.94
19 20 3.577848 AGATGCAACCAGTTGGCATAAAA 59.422 39.130 12.20 0.00 40.74 1.52
20 21 3.164268 AGATGCAACCAGTTGGCATAAA 58.836 40.909 12.20 0.00 40.74 1.40
53 56 4.552166 TGAAGAAAAAGCTTGAACGGAG 57.448 40.909 0.00 0.00 0.00 4.63
83 86 8.735692 TTTCAGGAAAAAGATGCAAAAGAAAT 57.264 26.923 0.00 0.00 0.00 2.17
111 115 1.813786 CGATTTTAAAGGCCGGAACCA 59.186 47.619 5.05 0.00 0.00 3.67
112 116 1.468565 GCGATTTTAAAGGCCGGAACC 60.469 52.381 5.05 0.00 0.00 3.62
114 118 1.470890 CAGCGATTTTAAAGGCCGGAA 59.529 47.619 5.05 0.00 0.00 4.30
118 124 2.029380 ACAACCAGCGATTTTAAAGGCC 60.029 45.455 0.00 0.00 0.00 5.19
163 193 2.345760 GGCAGGACGAACTCCGGTA 61.346 63.158 0.00 0.00 45.10 4.02
205 236 1.135774 GCAGTAAAAACAGGCTACGGC 60.136 52.381 0.00 0.00 37.82 5.68
221 252 0.395173 AAAAAGTCACCGGTGGCAGT 60.395 50.000 38.48 24.31 37.73 4.40
258 291 4.657824 CCGTCGACCAGCACCGTT 62.658 66.667 10.58 0.00 0.00 4.44
290 323 1.331138 TCCAAAACGGTTGTAGCAACG 59.669 47.619 0.00 4.68 35.57 4.10
297 330 1.822371 AGCAAACTCCAAAACGGTTGT 59.178 42.857 0.00 0.00 35.57 3.32
325 359 2.491693 CGATGGTAGCAAATTTGGGTGT 59.508 45.455 19.47 0.00 0.00 4.16
364 398 0.111639 AGCTTTTGGGCGGTTCCTTA 59.888 50.000 0.00 0.00 37.29 2.69
449 486 3.190849 CAGACGACGGCATGGCTG 61.191 66.667 18.09 13.01 41.29 4.85
512 549 1.475280 CCCTTGGTTGTATCTCGTCGA 59.525 52.381 0.00 0.00 0.00 4.20
528 565 3.222603 ACAAAAATTCTCGCAGACCCTT 58.777 40.909 0.00 0.00 0.00 3.95
540 577 8.711457 CATCAAGGATGGTTGTAACAAAAATTC 58.289 33.333 0.00 0.00 36.51 2.17
618 674 2.264480 CTCACCGTCGCCATGGAA 59.736 61.111 18.40 0.00 32.18 3.53
661 717 4.574674 AATCACAGAGGAAACATGGCTA 57.425 40.909 0.00 0.00 0.00 3.93
662 718 3.446442 AATCACAGAGGAAACATGGCT 57.554 42.857 0.00 0.00 0.00 4.75
665 721 4.214119 ACGACAAATCACAGAGGAAACATG 59.786 41.667 0.00 0.00 0.00 3.21
666 722 4.389374 ACGACAAATCACAGAGGAAACAT 58.611 39.130 0.00 0.00 0.00 2.71
667 723 3.804036 ACGACAAATCACAGAGGAAACA 58.196 40.909 0.00 0.00 0.00 2.83
669 725 3.985279 CGTACGACAAATCACAGAGGAAA 59.015 43.478 10.44 0.00 0.00 3.13
670 726 3.571571 CGTACGACAAATCACAGAGGAA 58.428 45.455 10.44 0.00 0.00 3.36
703 820 2.168521 TCAACGCATCTTTCCTCCCTAG 59.831 50.000 0.00 0.00 0.00 3.02
712 829 3.265791 GGATCTGACTCAACGCATCTTT 58.734 45.455 0.00 0.00 0.00 2.52
717 834 1.795768 GTTGGATCTGACTCAACGCA 58.204 50.000 8.50 0.00 32.78 5.24
725 842 2.693591 TCCAGGTATCGTTGGATCTGAC 59.306 50.000 0.00 0.00 38.53 3.51
738 855 0.891373 CCGATGCGATCTCCAGGTAT 59.109 55.000 0.00 0.00 0.00 2.73
756 873 2.123295 GTTGGCCCCCATCCATCC 60.123 66.667 0.00 0.00 31.53 3.51
771 888 2.572284 GACTGCTAGACGCCGGTT 59.428 61.111 1.90 0.00 38.05 4.44
778 895 2.231215 ATGAATGGCGACTGCTAGAC 57.769 50.000 0.00 0.00 42.25 2.59
779 896 2.988010 AATGAATGGCGACTGCTAGA 57.012 45.000 0.00 0.00 42.25 2.43
782 899 3.812053 GAGATTAATGAATGGCGACTGCT 59.188 43.478 0.00 0.00 42.25 4.24
783 900 3.561310 TGAGATTAATGAATGGCGACTGC 59.439 43.478 0.00 0.00 41.71 4.40
784 901 5.739752 TTGAGATTAATGAATGGCGACTG 57.260 39.130 0.00 0.00 0.00 3.51
785 902 9.725019 TTATATTGAGATTAATGAATGGCGACT 57.275 29.630 0.00 0.00 0.00 4.18
807 924 9.533831 TGAGAGACTGAGCCATAACATATTATA 57.466 33.333 0.00 0.00 29.44 0.98
808 925 8.427902 TGAGAGACTGAGCCATAACATATTAT 57.572 34.615 0.00 0.00 0.00 1.28
809 926 7.725844 TCTGAGAGACTGAGCCATAACATATTA 59.274 37.037 0.00 0.00 0.00 0.98
810 927 6.552725 TCTGAGAGACTGAGCCATAACATATT 59.447 38.462 0.00 0.00 0.00 1.28
812 929 5.449553 TCTGAGAGACTGAGCCATAACATA 58.550 41.667 0.00 0.00 0.00 2.29
813 930 4.285020 TCTGAGAGACTGAGCCATAACAT 58.715 43.478 0.00 0.00 0.00 2.71
814 931 3.701664 TCTGAGAGACTGAGCCATAACA 58.298 45.455 0.00 0.00 0.00 2.41
815 932 4.099266 ACATCTGAGAGACTGAGCCATAAC 59.901 45.833 0.00 0.00 0.00 1.89
817 934 3.635836 CACATCTGAGAGACTGAGCCATA 59.364 47.826 0.00 0.00 0.00 2.74
819 936 1.823610 CACATCTGAGAGACTGAGCCA 59.176 52.381 0.00 0.00 0.00 4.75
820 937 1.471327 GCACATCTGAGAGACTGAGCC 60.471 57.143 0.00 0.00 0.00 4.70
823 940 4.036144 CGATAAGCACATCTGAGAGACTGA 59.964 45.833 0.00 0.00 0.00 3.41
824 941 4.202000 ACGATAAGCACATCTGAGAGACTG 60.202 45.833 0.00 0.00 0.00 3.51
825 942 3.951037 ACGATAAGCACATCTGAGAGACT 59.049 43.478 0.00 0.00 0.00 3.24
827 944 4.991153 AACGATAAGCACATCTGAGAGA 57.009 40.909 0.00 0.00 0.00 3.10
828 945 6.414408 AAAAACGATAAGCACATCTGAGAG 57.586 37.500 0.00 0.00 0.00 3.20
830 947 7.688372 ACATAAAAACGATAAGCACATCTGAG 58.312 34.615 0.00 0.00 0.00 3.35
834 951 8.841444 ATGAACATAAAAACGATAAGCACATC 57.159 30.769 0.00 0.00 0.00 3.06
836 953 9.767684 CTTATGAACATAAAAACGATAAGCACA 57.232 29.630 8.31 0.00 33.34 4.57
837 954 9.982291 TCTTATGAACATAAAAACGATAAGCAC 57.018 29.630 8.31 0.00 33.34 4.40
850 967 9.045223 GCATGTACACTCATCTTATGAACATAA 57.955 33.333 0.00 6.99 35.79 1.90
851 968 8.203485 TGCATGTACACTCATCTTATGAACATA 58.797 33.333 0.00 0.00 35.79 2.29
852 969 7.049754 TGCATGTACACTCATCTTATGAACAT 58.950 34.615 0.00 0.00 37.44 2.71
853 970 6.405538 TGCATGTACACTCATCTTATGAACA 58.594 36.000 0.00 0.00 39.11 3.18
854 971 6.908870 TGCATGTACACTCATCTTATGAAC 57.091 37.500 0.00 0.00 39.11 3.18
855 972 9.211485 CATATGCATGTACACTCATCTTATGAA 57.789 33.333 10.16 0.00 39.11 2.57
856 973 8.370182 ACATATGCATGTACACTCATCTTATGA 58.630 33.333 10.16 0.00 43.74 2.15
857 974 8.543862 ACATATGCATGTACACTCATCTTATG 57.456 34.615 10.16 13.34 43.74 1.90
872 989 7.148523 ACGCAAATCTGATAGTACATATGCATG 60.149 37.037 10.16 0.00 38.21 4.06
873 990 6.875726 ACGCAAATCTGATAGTACATATGCAT 59.124 34.615 3.79 3.79 0.00 3.96
874 991 6.223120 ACGCAAATCTGATAGTACATATGCA 58.777 36.000 1.58 0.00 0.00 3.96
877 994 9.193133 GTACAACGCAAATCTGATAGTACATAT 57.807 33.333 0.00 0.00 32.02 1.78
878 995 8.410912 AGTACAACGCAAATCTGATAGTACATA 58.589 33.333 0.00 0.00 33.62 2.29
879 996 7.222805 CAGTACAACGCAAATCTGATAGTACAT 59.777 37.037 0.00 0.00 33.62 2.29
880 997 6.530181 CAGTACAACGCAAATCTGATAGTACA 59.470 38.462 0.00 0.00 33.62 2.90
881 998 6.508088 GCAGTACAACGCAAATCTGATAGTAC 60.508 42.308 0.00 0.00 0.00 2.73
882 999 5.518847 GCAGTACAACGCAAATCTGATAGTA 59.481 40.000 0.00 0.00 0.00 1.82
883 1000 4.330074 GCAGTACAACGCAAATCTGATAGT 59.670 41.667 0.00 0.00 0.00 2.12
885 1002 3.305897 CGCAGTACAACGCAAATCTGATA 59.694 43.478 0.00 0.00 0.00 2.15
886 1003 2.094258 CGCAGTACAACGCAAATCTGAT 59.906 45.455 0.00 0.00 0.00 2.90
888 1005 1.194547 ACGCAGTACAACGCAAATCTG 59.805 47.619 7.38 0.00 41.94 2.90
889 1006 1.508632 ACGCAGTACAACGCAAATCT 58.491 45.000 7.38 0.00 41.94 2.40
890 1007 2.309898 AACGCAGTACAACGCAAATC 57.690 45.000 7.38 0.00 45.00 2.17
891 1008 3.881780 TTAACGCAGTACAACGCAAAT 57.118 38.095 7.38 0.00 45.00 2.32
892 1009 3.670311 TTTAACGCAGTACAACGCAAA 57.330 38.095 7.38 5.86 45.00 3.68
894 1011 3.670311 TTTTTAACGCAGTACAACGCA 57.330 38.095 7.38 0.00 45.00 5.24
1240 1378 1.194781 AGGGTTCATCGCAGACAGGT 61.195 55.000 0.00 0.00 42.51 4.00
1261 1399 4.356405 TCTCAGAACAATCCAAGCAAGA 57.644 40.909 0.00 0.00 0.00 3.02
1332 1963 3.018856 TGGCACATCAAGCTTCCATTAG 58.981 45.455 0.00 0.00 0.00 1.73
1373 2010 2.223805 CCAGAGCTGAAACCCAAAACAC 60.224 50.000 0.00 0.00 0.00 3.32
1393 2030 0.966179 CAAACAAGTTGGGGTAGGCC 59.034 55.000 7.96 0.00 33.18 5.19
1421 2059 7.011295 CCATAATCTTTGCAACAACAACAAAGT 59.989 33.333 0.00 0.43 46.55 2.66
1455 2108 6.950842 TCAGGTTATCATTTCACTGATCTGT 58.049 36.000 0.00 0.00 37.13 3.41
1466 2119 6.924111 AGAAAAACGCATCAGGTTATCATTT 58.076 32.000 0.00 0.00 0.00 2.32
1547 2200 7.878036 TGCCTTAGTTTAACAACTAACATTCC 58.122 34.615 3.88 0.00 46.32 3.01
1580 4166 2.094390 CACATCTCATTTTGGCTGGTGG 60.094 50.000 0.00 0.00 0.00 4.61
1660 4246 2.683968 TGAAGTGGTGATGCTAACGAC 58.316 47.619 0.00 0.00 0.00 4.34
1728 4314 3.561725 AGAAGGAAAGAACAGCAGAAACG 59.438 43.478 0.00 0.00 0.00 3.60
1832 4418 7.984050 TGAAGTCAAGAATCATAAGATGGTCTC 59.016 37.037 0.00 0.00 33.90 3.36
1844 4430 5.931724 TGCGATAAGTTGAAGTCAAGAATCA 59.068 36.000 0.00 0.00 36.39 2.57
1863 4449 3.435327 TGTGCTCGAAAGTATTTTGCGAT 59.565 39.130 0.00 0.00 39.27 4.58
1878 4464 7.321271 CAGTATAACAAAAGAAAACTGTGCTCG 59.679 37.037 0.00 0.00 0.00 5.03
2301 4887 3.676291 AAGGAGAGTGAAACAGAGCTC 57.324 47.619 5.27 5.27 41.43 4.09
2343 5013 3.686241 TGCATGTTATGAGACTTCACAGC 59.314 43.478 0.00 0.00 35.83 4.40
2346 5016 5.808042 ACATGCATGTTATGAGACTTCAC 57.192 39.130 26.61 0.00 37.90 3.18
2367 5037 6.208797 ACCCTTAAGGAAGACAATAAAGCAAC 59.791 38.462 23.74 0.00 39.89 4.17
2392 5063 5.046591 AGGTTCAGTTATTCTCGTCCAATGA 60.047 40.000 0.00 0.00 0.00 2.57
2434 5105 7.282585 TGATATCCTGAATTGGAGGTTTGTAG 58.717 38.462 0.00 0.00 39.78 2.74
2464 5135 1.584724 AAGGGATGTACAGGTCTGGG 58.415 55.000 0.33 0.00 34.19 4.45
2491 5162 4.621274 GCAATGACAATGTAGGTGCCAAAT 60.621 41.667 3.99 0.00 0.00 2.32
2533 5204 2.835764 ACGCTGTATTTACCTTCCCAGA 59.164 45.455 0.00 0.00 0.00 3.86
2536 5207 3.538634 AGACGCTGTATTTACCTTCCC 57.461 47.619 0.00 0.00 0.00 3.97
2552 5223 6.649141 AGATAGAAGATACAGAGTGCTAGACG 59.351 42.308 0.00 0.00 0.00 4.18
2555 5226 6.939730 TCCAGATAGAAGATACAGAGTGCTAG 59.060 42.308 0.00 0.00 0.00 3.42
2556 5227 6.842676 TCCAGATAGAAGATACAGAGTGCTA 58.157 40.000 0.00 0.00 0.00 3.49
2566 5237 5.303078 GCAGTGGTTCTCCAGATAGAAGATA 59.697 44.000 0.00 0.00 45.24 1.98
2611 5282 7.630242 ATCACCGAACAAATCACATTTAGAT 57.370 32.000 0.00 0.00 0.00 1.98
2667 5338 3.067833 GCCAACTAGACCTCTTGTGAAC 58.932 50.000 0.00 0.00 32.55 3.18
2673 5344 2.031495 ACCAGCCAACTAGACCTCTT 57.969 50.000 0.00 0.00 0.00 2.85
2833 5504 6.705302 ACCATGGCATGATGAAGTAGTATAG 58.295 40.000 28.43 8.84 0.00 1.31
3071 5742 2.636830 GAGTGTATCCTGCACAGCATT 58.363 47.619 0.00 0.00 38.13 3.56
3200 5871 1.946768 CTCCAGCAGAAAACGGAAACA 59.053 47.619 0.00 0.00 0.00 2.83
3205 5876 0.250295 TCACCTCCAGCAGAAAACGG 60.250 55.000 0.00 0.00 0.00 4.44
3361 6032 5.044558 GGAGACAGGAACGTAATCTTCATC 58.955 45.833 0.00 0.00 0.00 2.92
3390 6061 1.751924 GGAGATAGTGGCGTCTTCAGT 59.248 52.381 0.00 0.00 0.00 3.41
3795 6490 4.188462 CTCATGTTTACAATGCGACCCTA 58.812 43.478 0.00 0.00 0.00 3.53
3796 6491 3.009723 CTCATGTTTACAATGCGACCCT 58.990 45.455 0.00 0.00 0.00 4.34
3820 6515 0.818296 CTGCGCTTCCACCTAGTACT 59.182 55.000 9.73 0.00 0.00 2.73
3840 6535 4.615912 GCCGTGCTTCAAACATGAACTAAT 60.616 41.667 0.00 0.00 0.00 1.73
3853 6548 1.301322 TGAATCACGCCGTGCTTCA 60.301 52.632 26.87 26.87 43.32 3.02
3899 6613 5.422331 AGCTGTAGTAACTTATGCTTCCAGA 59.578 40.000 0.00 0.00 0.00 3.86
4067 6782 1.206849 TGCATCGCTGTGAATCCTACA 59.793 47.619 0.00 0.00 0.00 2.74
4128 6945 2.171725 GCGTGGGTCGGCTGAATAC 61.172 63.158 0.00 0.00 40.26 1.89
4129 6946 2.185867 GCGTGGGTCGGCTGAATA 59.814 61.111 0.00 0.00 40.26 1.75
4146 6963 0.509499 AATACACCGTTGCGTTGTCG 59.491 50.000 0.00 0.00 40.37 4.35
4147 6964 1.527736 TGAATACACCGTTGCGTTGTC 59.472 47.619 0.00 0.00 0.00 3.18
4148 6965 1.529438 CTGAATACACCGTTGCGTTGT 59.471 47.619 0.00 0.00 0.00 3.32
4149 6966 1.724654 GCTGAATACACCGTTGCGTTG 60.725 52.381 0.00 0.00 0.00 4.10
4150 6967 0.515564 GCTGAATACACCGTTGCGTT 59.484 50.000 0.00 0.00 0.00 4.84
4151 6968 1.296056 GGCTGAATACACCGTTGCGT 61.296 55.000 0.00 0.00 0.00 5.24
4152 6969 1.423845 GGCTGAATACACCGTTGCG 59.576 57.895 0.00 0.00 0.00 4.85
4153 6970 1.017177 TCGGCTGAATACACCGTTGC 61.017 55.000 0.00 0.00 46.92 4.17
4154 6971 0.719465 GTCGGCTGAATACACCGTTG 59.281 55.000 0.00 0.00 46.92 4.10
4155 6972 0.390735 GGTCGGCTGAATACACCGTT 60.391 55.000 0.00 0.00 46.92 4.44
4156 6973 1.217244 GGTCGGCTGAATACACCGT 59.783 57.895 0.00 0.00 46.92 4.83
4158 6975 0.743345 GTGGGTCGGCTGAATACACC 60.743 60.000 12.21 3.52 0.00 4.16
4159 6976 1.082117 CGTGGGTCGGCTGAATACAC 61.082 60.000 12.91 12.91 35.71 2.90
4160 6977 1.216977 CGTGGGTCGGCTGAATACA 59.783 57.895 0.00 0.00 35.71 2.29


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

AutoCloner maintained by Alex Coulton.