Multiple sequence alignment - TraesCS7B01G215300

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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 TraesCS7B01G215300 chr7B 100.000 3448 0 0 1 3448 394824438 394827885 0.000000e+00 6368.0
1 TraesCS7B01G215300 chr7B 89.521 1212 95 19 974 2180 399803913 399802729 0.000000e+00 1506.0
2 TraesCS7B01G215300 chr7B 89.658 1199 90 18 948 2134 394864334 394865510 0.000000e+00 1496.0
3 TraesCS7B01G215300 chr7B 89.658 1199 90 18 948 2134 394912499 394913675 0.000000e+00 1496.0
4 TraesCS7B01G215300 chr7B 87.743 1183 109 15 974 2150 399872443 399871291 0.000000e+00 1349.0
5 TraesCS7B01G215300 chr7B 97.561 574 14 0 2483 3056 735986487 735987060 0.000000e+00 983.0
6 TraesCS7B01G215300 chr7B 97.396 576 15 0 2483 3058 608187128 608187703 0.000000e+00 981.0
7 TraesCS7B01G215300 chr7B 97.038 574 17 0 2483 3056 217303867 217303294 0.000000e+00 966.0
8 TraesCS7B01G215300 chr7B 83.832 334 28 9 3116 3448 731941718 731941410 9.360000e-76 294.0
9 TraesCS7B01G215300 chr7B 82.738 336 30 9 3116 3448 732066097 732065787 1.220000e-69 274.0
10 TraesCS7B01G215300 chr7B 89.266 177 10 6 1 176 687470621 687470789 2.700000e-51 213.0
11 TraesCS7B01G215300 chr7B 86.420 162 17 4 2324 2482 399876331 399876172 4.570000e-39 172.0
12 TraesCS7B01G215300 chr7B 89.781 137 10 1 196 328 547263894 547263758 4.570000e-39 172.0
13 TraesCS7B01G215300 chr7B 81.061 132 17 8 2189 2316 123441882 123442009 7.880000e-17 99.0
14 TraesCS7B01G215300 chr7B 95.122 41 1 1 3076 3115 15369805 15369845 2.870000e-06 63.9
15 TraesCS7B01G215300 chr7B 100.000 34 0 0 3082 3115 526717908 526717941 2.870000e-06 63.9
16 TraesCS7B01G215300 chr5B 95.321 1560 66 3 928 2482 58758036 58756479 0.000000e+00 2470.0
17 TraesCS7B01G215300 chr5B 97.222 576 15 1 2483 3058 637134155 637133581 0.000000e+00 974.0
18 TraesCS7B01G215300 chr5B 97.049 576 17 0 2483 3058 276898000 276897425 0.000000e+00 970.0
19 TraesCS7B01G215300 chr5B 96.707 577 19 0 2483 3059 445179041 445179617 0.000000e+00 961.0
20 TraesCS7B01G215300 chr5B 90.706 269 24 1 3180 3448 380231556 380231823 1.180000e-94 357.0
21 TraesCS7B01G215300 chr5B 100.000 34 0 0 3082 3115 624315 624282 2.870000e-06 63.9
22 TraesCS7B01G215300 chr7A 91.819 1479 96 14 974 2446 448473293 448474752 0.000000e+00 2037.0
23 TraesCS7B01G215300 chr7A 96.812 941 15 6 1 931 679416023 679415088 0.000000e+00 1557.0
24 TraesCS7B01G215300 chr7A 89.342 1201 96 14 947 2136 450092615 450091436 0.000000e+00 1480.0
25 TraesCS7B01G215300 chr7A 82.812 128 17 4 2324 2448 450286451 450286326 3.640000e-20 110.0
26 TraesCS7B01G215300 chr7D 93.605 1251 72 5 925 2173 395076418 395077662 0.000000e+00 1860.0
27 TraesCS7B01G215300 chr7D 88.809 1251 108 15 974 2215 396444961 396443734 0.000000e+00 1506.0
28 TraesCS7B01G215300 chr7D 91.021 1058 75 13 1081 2134 395295696 395296737 0.000000e+00 1410.0
29 TraesCS7B01G215300 chr7D 87.177 1201 113 18 945 2134 395188303 395189473 0.000000e+00 1327.0
30 TraesCS7B01G215300 chr7D 85.185 162 18 5 2324 2482 396446124 396445966 9.900000e-36 161.0
31 TraesCS7B01G215300 chr2B 98.820 932 7 3 1 930 118096017 118096946 0.000000e+00 1657.0
32 TraesCS7B01G215300 chr2B 93.667 300 14 2 3154 3448 158442691 158442392 8.780000e-121 444.0
33 TraesCS7B01G215300 chr2B 88.770 187 13 5 1 187 52111689 52111867 4.480000e-54 222.0
34 TraesCS7B01G215300 chr2B 88.398 181 13 3 10 190 58918123 58917951 9.700000e-51 211.0
35 TraesCS7B01G215300 chr2B 94.118 136 4 2 3115 3246 158442820 158442685 1.620000e-48 204.0
36 TraesCS7B01G215300 chr2B 79.891 184 18 10 3116 3299 250796609 250796445 2.170000e-22 117.0
37 TraesCS7B01G215300 chr2B 100.000 34 0 0 3082 3115 453860929 453860962 2.870000e-06 63.9
38 TraesCS7B01G215300 chr3B 96.324 925 21 5 1 916 328604059 328603139 0.000000e+00 1507.0
39 TraesCS7B01G215300 chr3B 91.953 932 33 20 1 923 71883040 71882142 0.000000e+00 1267.0
40 TraesCS7B01G215300 chr3B 96.870 575 18 0 2483 3057 758628286 758628860 0.000000e+00 963.0
41 TraesCS7B01G215300 chr3B 93.173 249 11 3 3114 3357 673176134 673176381 9.100000e-96 361.0
42 TraesCS7B01G215300 chr3B 83.058 242 34 4 334 568 727132092 727132333 2.700000e-51 213.0
43 TraesCS7B01G215300 chr3B 92.806 139 5 5 3106 3242 20021418 20021283 2.710000e-46 196.0
44 TraesCS7B01G215300 chr6D 94.403 929 39 5 1 920 374768102 374769026 0.000000e+00 1415.0
45 TraesCS7B01G215300 chr2A 91.640 945 36 21 1 936 74111323 74110413 0.000000e+00 1267.0
46 TraesCS7B01G215300 chr2A 83.636 110 17 1 816 924 22589693 22589584 6.090000e-18 102.0
47 TraesCS7B01G215300 chr2A 94.737 38 2 0 3078 3115 126651604 126651641 3.720000e-05 60.2
48 TraesCS7B01G215300 chr1B 97.213 574 15 1 2483 3056 352332519 352331947 0.000000e+00 970.0
49 TraesCS7B01G215300 chr6B 96.707 577 19 0 2483 3059 692559298 692558722 0.000000e+00 961.0
50 TraesCS7B01G215300 chr6B 83.871 124 15 4 2191 2310 635078384 635078506 2.810000e-21 113.0
51 TraesCS7B01G215300 chr1A 94.675 338 14 4 3112 3448 347245286 347244952 3.940000e-144 521.0
52 TraesCS7B01G215300 chr6A 90.560 339 24 4 3115 3448 542332943 542333278 3.160000e-120 442.0
53 TraesCS7B01G215300 chr6A 85.849 106 11 4 2185 2288 286423924 286424027 3.640000e-20 110.0
54 TraesCS7B01G215300 chr4A 94.531 256 11 3 3140 3394 585549142 585549395 3.230000e-105 392.0
55 TraesCS7B01G215300 chr4A 81.679 131 17 7 2183 2307 395037575 395037446 6.090000e-18 102.0
56 TraesCS7B01G215300 chr4A 81.061 132 17 8 2190 2317 454120005 454119878 7.880000e-17 99.0
57 TraesCS7B01G215300 chr3A 91.775 231 18 1 693 923 545454537 545454308 1.540000e-83 320.0
58 TraesCS7B01G215300 chr3A 100.000 34 0 0 3082 3115 694944657 694944690 2.870000e-06 63.9
59 TraesCS7B01G215300 chr3A 97.059 34 1 0 3285 3318 684284220 684284253 1.340000e-04 58.4
60 TraesCS7B01G215300 chrUn 83.036 336 29 9 3116 3448 160361283 160360973 2.620000e-71 279.0
61 TraesCS7B01G215300 chrUn 82.353 340 28 10 3116 3448 362536579 362536265 2.040000e-67 267.0
62 TraesCS7B01G215300 chrUn 82.545 275 40 7 581 852 181245795 181245526 5.750000e-58 235.0
63 TraesCS7B01G215300 chrUn 97.143 35 1 0 3081 3115 225046740 225046706 3.720000e-05 60.2
64 TraesCS7B01G215300 chrUn 97.143 35 1 0 3081 3115 288115153 288115119 3.720000e-05 60.2
65 TraesCS7B01G215300 chr5A 95.402 174 8 0 3275 3448 689157808 689157981 9.420000e-71 278.0
66 TraesCS7B01G215300 chr5A 82.443 131 16 7 2183 2307 529182848 529182719 1.310000e-19 108.0
67 TraesCS7B01G215300 chr5A 100.000 33 0 0 3083 3115 524961197 524961165 1.030000e-05 62.1
68 TraesCS7B01G215300 chr2D 82.773 238 28 11 691 923 169055595 169055824 2.100000e-47 200.0
69 TraesCS7B01G215300 chr3D 90.370 135 9 3 193 323 549643196 549643062 1.270000e-39 174.0
70 TraesCS7B01G215300 chr4D 89.706 136 10 1 193 324 114277790 114277655 1.650000e-38 171.0
71 TraesCS7B01G215300 chr4B 81.022 137 17 9 2184 2316 652280970 652280839 2.190000e-17 100.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G215300 chr7B 394824438 394827885 3447 False 6368.0 6368 100.0000 1 3448 1 chr7B.!!$F3 3447
1 TraesCS7B01G215300 chr7B 399802729 399803913 1184 True 1506.0 1506 89.5210 974 2180 1 chr7B.!!$R2 1206
2 TraesCS7B01G215300 chr7B 394864334 394865510 1176 False 1496.0 1496 89.6580 948 2134 1 chr7B.!!$F4 1186
3 TraesCS7B01G215300 chr7B 394912499 394913675 1176 False 1496.0 1496 89.6580 948 2134 1 chr7B.!!$F5 1186
4 TraesCS7B01G215300 chr7B 735986487 735987060 573 False 983.0 983 97.5610 2483 3056 1 chr7B.!!$F9 573
5 TraesCS7B01G215300 chr7B 608187128 608187703 575 False 981.0 981 97.3960 2483 3058 1 chr7B.!!$F7 575
6 TraesCS7B01G215300 chr7B 217303294 217303867 573 True 966.0 966 97.0380 2483 3056 1 chr7B.!!$R1 573
7 TraesCS7B01G215300 chr7B 399871291 399876331 5040 True 760.5 1349 87.0815 974 2482 2 chr7B.!!$R6 1508
8 TraesCS7B01G215300 chr5B 58756479 58758036 1557 True 2470.0 2470 95.3210 928 2482 1 chr5B.!!$R2 1554
9 TraesCS7B01G215300 chr5B 637133581 637134155 574 True 974.0 974 97.2220 2483 3058 1 chr5B.!!$R4 575
10 TraesCS7B01G215300 chr5B 276897425 276898000 575 True 970.0 970 97.0490 2483 3058 1 chr5B.!!$R3 575
11 TraesCS7B01G215300 chr5B 445179041 445179617 576 False 961.0 961 96.7070 2483 3059 1 chr5B.!!$F2 576
12 TraesCS7B01G215300 chr7A 448473293 448474752 1459 False 2037.0 2037 91.8190 974 2446 1 chr7A.!!$F1 1472
13 TraesCS7B01G215300 chr7A 679415088 679416023 935 True 1557.0 1557 96.8120 1 931 1 chr7A.!!$R3 930
14 TraesCS7B01G215300 chr7A 450091436 450092615 1179 True 1480.0 1480 89.3420 947 2136 1 chr7A.!!$R1 1189
15 TraesCS7B01G215300 chr7D 395076418 395077662 1244 False 1860.0 1860 93.6050 925 2173 1 chr7D.!!$F1 1248
16 TraesCS7B01G215300 chr7D 395295696 395296737 1041 False 1410.0 1410 91.0210 1081 2134 1 chr7D.!!$F3 1053
17 TraesCS7B01G215300 chr7D 395188303 395189473 1170 False 1327.0 1327 87.1770 945 2134 1 chr7D.!!$F2 1189
18 TraesCS7B01G215300 chr7D 396443734 396446124 2390 True 833.5 1506 86.9970 974 2482 2 chr7D.!!$R1 1508
19 TraesCS7B01G215300 chr2B 118096017 118096946 929 False 1657.0 1657 98.8200 1 930 1 chr2B.!!$F2 929
20 TraesCS7B01G215300 chr3B 328603139 328604059 920 True 1507.0 1507 96.3240 1 916 1 chr3B.!!$R3 915
21 TraesCS7B01G215300 chr3B 71882142 71883040 898 True 1267.0 1267 91.9530 1 923 1 chr3B.!!$R2 922
22 TraesCS7B01G215300 chr3B 758628286 758628860 574 False 963.0 963 96.8700 2483 3057 1 chr3B.!!$F3 574
23 TraesCS7B01G215300 chr6D 374768102 374769026 924 False 1415.0 1415 94.4030 1 920 1 chr6D.!!$F1 919
24 TraesCS7B01G215300 chr2A 74110413 74111323 910 True 1267.0 1267 91.6400 1 936 1 chr2A.!!$R2 935
25 TraesCS7B01G215300 chr1B 352331947 352332519 572 True 970.0 970 97.2130 2483 3056 1 chr1B.!!$R1 573
26 TraesCS7B01G215300 chr6B 692558722 692559298 576 True 961.0 961 96.7070 2483 3059 1 chr6B.!!$R1 576

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
897 924 0.386352 CGACGTACGACCAGAAGCAA 60.386 55.0 24.41 0.0 45.77 3.91 F
1758 5002 0.178953 GGGGCTGGGATGCATAATGT 60.179 55.0 0.00 0.0 34.04 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2178 5442 2.164422 GGAGGGAGTACATTTTTGCAGC 59.836 50.0 0.0 0.0 0.0 5.25 R
3382 6651 0.172578 TCGTAATCAGGTCGTGGCTG 59.827 55.0 0.0 0.0 0.0 4.85 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
812 839 8.934507 TTTTTGTGAAAACGATTTTACCAGAT 57.065 26.923 9.95 0.00 34.94 2.90
813 840 8.934507 TTTTGTGAAAACGATTTTACCAGATT 57.065 26.923 9.95 0.00 34.94 2.40
814 841 8.568732 TTTGTGAAAACGATTTTACCAGATTC 57.431 30.769 9.95 0.00 34.94 2.52
815 842 7.265647 TGTGAAAACGATTTTACCAGATTCA 57.734 32.000 9.95 0.00 34.94 2.57
817 844 7.012894 TGTGAAAACGATTTTACCAGATTCACT 59.987 33.333 9.95 0.00 42.64 3.41
818 845 7.860872 GTGAAAACGATTTTACCAGATTCACTT 59.139 33.333 2.16 0.00 40.36 3.16
819 846 9.058174 TGAAAACGATTTTACCAGATTCACTTA 57.942 29.630 0.00 0.00 31.94 2.24
820 847 9.887406 GAAAACGATTTTACCAGATTCACTTAA 57.113 29.630 0.00 0.00 31.94 1.85
831 858 8.494016 ACCAGATTCACTTAAAATAGTACTGC 57.506 34.615 5.39 0.00 0.00 4.40
832 859 7.277981 ACCAGATTCACTTAAAATAGTACTGCG 59.722 37.037 5.39 0.00 0.00 5.18
833 860 7.254455 CCAGATTCACTTAAAATAGTACTGCGG 60.254 40.741 5.39 0.00 0.00 5.69
834 861 6.761714 AGATTCACTTAAAATAGTACTGCGGG 59.238 38.462 5.39 0.00 0.00 6.13
835 862 5.410355 TCACTTAAAATAGTACTGCGGGT 57.590 39.130 5.39 0.00 0.00 5.28
836 863 5.797051 TCACTTAAAATAGTACTGCGGGTT 58.203 37.500 5.39 0.00 0.00 4.11
837 864 6.232692 TCACTTAAAATAGTACTGCGGGTTT 58.767 36.000 5.39 1.53 0.00 3.27
838 865 7.385267 TCACTTAAAATAGTACTGCGGGTTTA 58.615 34.615 5.39 0.63 0.00 2.01
839 866 7.877097 TCACTTAAAATAGTACTGCGGGTTTAA 59.123 33.333 5.39 7.90 0.00 1.52
843 870 6.833342 AAATAGTACTGCGGGTTTAATACG 57.167 37.500 5.39 0.00 0.00 3.06
844 871 3.874392 AGTACTGCGGGTTTAATACGT 57.126 42.857 0.00 0.00 0.00 3.57
845 872 4.981806 AGTACTGCGGGTTTAATACGTA 57.018 40.909 0.00 0.00 0.00 3.57
846 873 5.323371 AGTACTGCGGGTTTAATACGTAA 57.677 39.130 0.00 0.00 0.00 3.18
847 874 5.719173 AGTACTGCGGGTTTAATACGTAAA 58.281 37.500 0.00 0.00 0.00 2.01
857 884 6.826893 GTTTAATACGTAAACGCATAGGGA 57.173 37.500 0.00 0.00 41.59 4.20
859 886 4.660789 AATACGTAAACGCATAGGGACT 57.339 40.909 0.00 0.00 44.43 3.85
860 887 4.660789 ATACGTAAACGCATAGGGACTT 57.339 40.909 0.00 0.00 44.43 3.01
861 888 3.323751 ACGTAAACGCATAGGGACTTT 57.676 42.857 1.74 0.00 44.43 2.66
862 889 3.667360 ACGTAAACGCATAGGGACTTTT 58.333 40.909 1.74 0.00 44.43 2.27
863 890 4.067192 ACGTAAACGCATAGGGACTTTTT 58.933 39.130 1.74 0.00 44.43 1.94
890 917 2.557805 GTCAGCGACGTACGACCA 59.442 61.111 24.41 0.00 45.77 4.02
891 918 1.511464 GTCAGCGACGTACGACCAG 60.511 63.158 24.41 10.64 45.77 4.00
892 919 1.668793 TCAGCGACGTACGACCAGA 60.669 57.895 24.41 9.58 45.77 3.86
893 920 1.208358 CAGCGACGTACGACCAGAA 59.792 57.895 24.41 0.00 45.77 3.02
895 922 2.150837 GCGACGTACGACCAGAAGC 61.151 63.158 24.41 10.42 45.77 3.86
897 924 0.386352 CGACGTACGACCAGAAGCAA 60.386 55.000 24.41 0.00 45.77 3.91
898 925 1.731424 CGACGTACGACCAGAAGCAAT 60.731 52.381 24.41 0.00 45.77 3.56
899 926 1.918609 GACGTACGACCAGAAGCAATC 59.081 52.381 24.41 0.00 0.00 2.67
901 928 0.645868 GTACGACCAGAAGCAATCGC 59.354 55.000 0.00 0.00 38.12 4.58
916 943 5.344207 GCAATCGCTGGTTTATTAGTAGG 57.656 43.478 0.00 0.00 34.30 3.18
917 944 4.213482 GCAATCGCTGGTTTATTAGTAGGG 59.787 45.833 0.00 0.00 34.30 3.53
918 945 5.607477 CAATCGCTGGTTTATTAGTAGGGA 58.393 41.667 0.00 0.00 35.31 4.20
919 946 5.881923 ATCGCTGGTTTATTAGTAGGGAA 57.118 39.130 0.00 0.00 34.66 3.97
920 947 5.680594 TCGCTGGTTTATTAGTAGGGAAA 57.319 39.130 0.00 0.00 0.00 3.13
921 948 5.667466 TCGCTGGTTTATTAGTAGGGAAAG 58.333 41.667 0.00 0.00 0.00 2.62
922 949 5.422970 TCGCTGGTTTATTAGTAGGGAAAGA 59.577 40.000 0.00 0.00 0.00 2.52
923 950 5.522824 CGCTGGTTTATTAGTAGGGAAAGAC 59.477 44.000 0.00 0.00 0.00 3.01
924 951 6.629739 CGCTGGTTTATTAGTAGGGAAAGACT 60.630 42.308 0.00 0.00 0.00 3.24
926 953 7.927092 GCTGGTTTATTAGTAGGGAAAGACTAG 59.073 40.741 0.00 0.00 30.10 2.57
936 963 3.908103 AGGGAAAGACTAGTAGCAACCAA 59.092 43.478 0.00 0.00 0.00 3.67
1367 4608 4.124351 CGCCTCAACCTACGCGGA 62.124 66.667 12.47 0.00 40.91 5.54
1412 4653 1.303398 TCGTCCGTTCTCTGAGGCT 60.303 57.895 4.59 0.00 0.00 4.58
1535 4776 2.737376 GGCACGGAGGACACGAAC 60.737 66.667 0.00 0.00 34.93 3.95
1593 4837 4.070552 GCGAGGTCAAGGGCGACT 62.071 66.667 0.00 0.00 36.12 4.18
1643 4887 2.614013 TCCCAGAAGAAGGGGCCC 60.614 66.667 17.12 17.12 46.77 5.80
1758 5002 0.178953 GGGGCTGGGATGCATAATGT 60.179 55.000 0.00 0.00 34.04 2.71
1820 5064 4.379394 GGCGAGTCAGACATAGAGATCATC 60.379 50.000 2.66 0.00 0.00 2.92
2260 5527 3.493129 TCGACACACAACTTTGACTATGC 59.507 43.478 0.00 0.00 0.00 3.14
2271 5538 8.850156 ACAACTTTGACTATGCTTTCACTTATT 58.150 29.630 0.00 0.00 0.00 1.40
2377 5644 7.149202 TGGTTGGCCATAAGAGTTATTAGAT 57.851 36.000 6.09 0.00 40.46 1.98
2434 5703 7.014230 TGCTAGGCCTCCATCATTTTAATAAAC 59.986 37.037 9.68 0.00 0.00 2.01
2801 6070 9.658799 TCTTTCTGATCTTCGTTATTCTTCATT 57.341 29.630 0.00 0.00 0.00 2.57
3080 6349 9.515226 AAAATAGTGACAATACTGTACAATGGT 57.485 29.630 0.00 0.00 35.30 3.55
3081 6350 8.492673 AATAGTGACAATACTGTACAATGGTG 57.507 34.615 0.00 0.00 35.30 4.17
3082 6351 6.109156 AGTGACAATACTGTACAATGGTGA 57.891 37.500 0.00 0.00 35.30 4.02
3083 6352 6.166279 AGTGACAATACTGTACAATGGTGAG 58.834 40.000 0.00 0.00 35.30 3.51
3084 6353 5.932303 GTGACAATACTGTACAATGGTGAGT 59.068 40.000 0.00 0.00 35.30 3.41
3085 6354 5.931724 TGACAATACTGTACAATGGTGAGTG 59.068 40.000 0.00 0.00 35.30 3.51
3086 6355 5.865085 ACAATACTGTACAATGGTGAGTGT 58.135 37.500 0.00 0.00 32.54 3.55
3087 6356 5.700832 ACAATACTGTACAATGGTGAGTGTG 59.299 40.000 0.00 0.00 32.54 3.82
3088 6357 3.126001 ACTGTACAATGGTGAGTGTGG 57.874 47.619 0.00 0.00 31.51 4.17
3089 6358 1.806542 CTGTACAATGGTGAGTGTGGC 59.193 52.381 0.00 0.00 31.51 5.01
3090 6359 0.796312 GTACAATGGTGAGTGTGGCG 59.204 55.000 0.00 0.00 31.51 5.69
3091 6360 0.394938 TACAATGGTGAGTGTGGCGT 59.605 50.000 0.00 0.00 31.51 5.68
3092 6361 0.465460 ACAATGGTGAGTGTGGCGTT 60.465 50.000 0.00 0.00 0.00 4.84
3093 6362 0.667993 CAATGGTGAGTGTGGCGTTT 59.332 50.000 0.00 0.00 0.00 3.60
3094 6363 1.066908 CAATGGTGAGTGTGGCGTTTT 59.933 47.619 0.00 0.00 0.00 2.43
3095 6364 0.667993 ATGGTGAGTGTGGCGTTTTG 59.332 50.000 0.00 0.00 0.00 2.44
3096 6365 1.358759 GGTGAGTGTGGCGTTTTGG 59.641 57.895 0.00 0.00 0.00 3.28
3097 6366 1.381165 GGTGAGTGTGGCGTTTTGGT 61.381 55.000 0.00 0.00 0.00 3.67
3098 6367 0.248458 GTGAGTGTGGCGTTTTGGTG 60.248 55.000 0.00 0.00 0.00 4.17
3099 6368 1.358759 GAGTGTGGCGTTTTGGTGG 59.641 57.895 0.00 0.00 0.00 4.61
3100 6369 2.279186 GTGTGGCGTTTTGGTGGC 60.279 61.111 0.00 0.00 0.00 5.01
3104 6373 4.038080 GGCGTTTTGGTGGCCGAG 62.038 66.667 0.00 0.00 37.06 4.63
3105 6374 4.700365 GCGTTTTGGTGGCCGAGC 62.700 66.667 0.00 0.00 0.00 5.03
3106 6375 3.283684 CGTTTTGGTGGCCGAGCA 61.284 61.111 0.00 0.00 0.00 4.26
3107 6376 2.335011 GTTTTGGTGGCCGAGCAC 59.665 61.111 0.00 0.00 0.00 4.40
3108 6377 2.909965 TTTTGGTGGCCGAGCACC 60.910 61.111 2.95 2.95 41.64 5.01
3126 6395 2.512515 GTGCAGCAGGGACGGATC 60.513 66.667 0.00 0.00 0.00 3.36
3127 6396 2.685017 TGCAGCAGGGACGGATCT 60.685 61.111 0.00 0.00 0.00 2.75
3128 6397 1.381191 TGCAGCAGGGACGGATCTA 60.381 57.895 0.00 0.00 0.00 1.98
3129 6398 0.975556 TGCAGCAGGGACGGATCTAA 60.976 55.000 0.00 0.00 0.00 2.10
3130 6399 0.249657 GCAGCAGGGACGGATCTAAG 60.250 60.000 0.00 0.00 0.00 2.18
3131 6400 0.390860 CAGCAGGGACGGATCTAAGG 59.609 60.000 0.00 0.00 0.00 2.69
3132 6401 0.760945 AGCAGGGACGGATCTAAGGG 60.761 60.000 0.00 0.00 0.00 3.95
3133 6402 1.759459 GCAGGGACGGATCTAAGGGG 61.759 65.000 0.00 0.00 0.00 4.79
3134 6403 1.122019 CAGGGACGGATCTAAGGGGG 61.122 65.000 0.00 0.00 0.00 5.40
3170 6439 4.515404 CCCCCAAACGATCGTCTC 57.485 61.111 22.98 0.00 0.00 3.36
3178 6447 2.627004 CGATCGTCTCGTCCCTCG 59.373 66.667 7.03 0.00 42.56 4.63
3179 6448 1.881709 CGATCGTCTCGTCCCTCGA 60.882 63.158 7.03 0.00 46.83 4.04
3186 6455 4.794199 TCGTCCCTCGATAGCGAT 57.206 55.556 2.40 0.00 46.80 4.58
3187 6456 2.541288 TCGTCCCTCGATAGCGATC 58.459 57.895 2.40 0.00 46.80 3.69
3188 6457 0.250166 TCGTCCCTCGATAGCGATCA 60.250 55.000 2.40 0.00 46.80 2.92
3189 6458 0.591659 CGTCCCTCGATAGCGATCAA 59.408 55.000 2.40 0.00 46.80 2.57
3190 6459 1.663445 CGTCCCTCGATAGCGATCAAC 60.663 57.143 2.40 1.31 46.80 3.18
3191 6460 1.609555 GTCCCTCGATAGCGATCAACT 59.390 52.381 2.40 0.00 46.80 3.16
3192 6461 2.812591 GTCCCTCGATAGCGATCAACTA 59.187 50.000 2.40 0.00 46.80 2.24
3193 6462 3.252701 GTCCCTCGATAGCGATCAACTAA 59.747 47.826 2.40 0.00 46.80 2.24
3194 6463 4.079970 TCCCTCGATAGCGATCAACTAAT 58.920 43.478 2.40 0.00 46.80 1.73
3195 6464 4.156190 TCCCTCGATAGCGATCAACTAATC 59.844 45.833 2.40 0.00 46.80 1.75
3219 6488 4.286447 TTTTTCCCTTGCCCGCTT 57.714 50.000 0.00 0.00 0.00 4.68
3220 6489 1.745264 TTTTTCCCTTGCCCGCTTG 59.255 52.632 0.00 0.00 0.00 4.01
3221 6490 1.045911 TTTTTCCCTTGCCCGCTTGT 61.046 50.000 0.00 0.00 0.00 3.16
3222 6491 1.045911 TTTTCCCTTGCCCGCTTGTT 61.046 50.000 0.00 0.00 0.00 2.83
3223 6492 1.460273 TTTCCCTTGCCCGCTTGTTC 61.460 55.000 0.00 0.00 0.00 3.18
3224 6493 3.373565 CCCTTGCCCGCTTGTTCC 61.374 66.667 0.00 0.00 0.00 3.62
3225 6494 3.737172 CCTTGCCCGCTTGTTCCG 61.737 66.667 0.00 0.00 0.00 4.30
3226 6495 2.978010 CTTGCCCGCTTGTTCCGT 60.978 61.111 0.00 0.00 0.00 4.69
3227 6496 3.254014 CTTGCCCGCTTGTTCCGTG 62.254 63.158 0.00 0.00 0.00 4.94
3230 6499 2.978010 CCCGCTTGTTCCGTGCTT 60.978 61.111 0.00 0.00 0.00 3.91
3231 6500 2.252260 CCGCTTGTTCCGTGCTTG 59.748 61.111 0.00 0.00 0.00 4.01
3232 6501 2.427410 CGCTTGTTCCGTGCTTGC 60.427 61.111 0.00 0.00 0.00 4.01
3233 6502 2.896801 CGCTTGTTCCGTGCTTGCT 61.897 57.895 0.00 0.00 0.00 3.91
3234 6503 1.360192 GCTTGTTCCGTGCTTGCTT 59.640 52.632 0.00 0.00 0.00 3.91
3235 6504 0.661483 GCTTGTTCCGTGCTTGCTTC 60.661 55.000 0.00 0.00 0.00 3.86
3236 6505 0.384725 CTTGTTCCGTGCTTGCTTCG 60.385 55.000 0.00 0.00 0.00 3.79
3237 6506 2.127232 GTTCCGTGCTTGCTTCGC 60.127 61.111 0.00 0.00 0.00 4.70
3238 6507 3.353836 TTCCGTGCTTGCTTCGCC 61.354 61.111 0.00 0.00 0.00 5.54
3274 6543 7.886191 TTTTTCACGTCTTTTCTCATTAACG 57.114 32.000 0.00 0.00 36.29 3.18
3275 6544 6.592798 TTTCACGTCTTTTCTCATTAACGT 57.407 33.333 0.00 0.00 43.37 3.99
3279 6548 5.970879 ACGTCTTTTCTCATTAACGTGAAC 58.029 37.500 0.00 0.00 41.29 3.18
3280 6549 5.064367 CGTCTTTTCTCATTAACGTGAACG 58.936 41.667 0.40 0.40 46.33 3.95
3281 6550 5.371629 GTCTTTTCTCATTAACGTGAACGG 58.628 41.667 7.86 0.00 44.95 4.44
3282 6551 4.449743 TCTTTTCTCATTAACGTGAACGGG 59.550 41.667 7.86 0.00 44.95 5.28
3283 6552 3.389925 TTCTCATTAACGTGAACGGGT 57.610 42.857 7.86 0.00 44.95 5.28
3284 6553 2.950433 TCTCATTAACGTGAACGGGTC 58.050 47.619 7.86 0.00 44.95 4.46
3285 6554 2.296752 TCTCATTAACGTGAACGGGTCA 59.703 45.455 7.86 0.00 44.95 4.02
3286 6555 2.666508 CTCATTAACGTGAACGGGTCAG 59.333 50.000 7.86 0.00 44.95 3.51
3287 6556 1.127951 CATTAACGTGAACGGGTCAGC 59.872 52.381 7.86 0.00 44.95 4.26
3288 6557 0.600782 TTAACGTGAACGGGTCAGCC 60.601 55.000 7.86 0.00 44.95 4.85
3298 6567 4.225497 GGTCAGCCCATGTACAGC 57.775 61.111 0.33 0.00 0.00 4.40
3299 6568 1.452108 GGTCAGCCCATGTACAGCC 60.452 63.158 0.33 0.00 0.00 4.85
3300 6569 1.452108 GTCAGCCCATGTACAGCCC 60.452 63.158 0.33 0.00 0.00 5.19
3301 6570 1.922881 TCAGCCCATGTACAGCCCA 60.923 57.895 0.33 0.00 0.00 5.36
3302 6571 1.228228 CAGCCCATGTACAGCCCAT 59.772 57.895 0.33 0.00 0.00 4.00
3303 6572 0.396139 CAGCCCATGTACAGCCCATT 60.396 55.000 0.33 0.00 0.00 3.16
3304 6573 0.396139 AGCCCATGTACAGCCCATTG 60.396 55.000 0.33 0.00 0.00 2.82
3305 6574 2.019897 GCCCATGTACAGCCCATTGC 62.020 60.000 0.33 0.00 41.71 3.56
3306 6575 0.683828 CCCATGTACAGCCCATTGCA 60.684 55.000 0.33 0.00 44.83 4.08
3307 6576 0.742505 CCATGTACAGCCCATTGCAG 59.257 55.000 0.33 0.00 44.83 4.41
3308 6577 0.742505 CATGTACAGCCCATTGCAGG 59.257 55.000 0.33 0.00 44.83 4.85
3316 6585 3.746900 CCCATTGCAGGCTAAAAGC 57.253 52.632 0.00 0.00 41.46 3.51
3317 6586 0.896923 CCCATTGCAGGCTAAAAGCA 59.103 50.000 0.78 0.00 44.75 3.91
3325 6594 6.966435 TTGCAGGCTAAAAGCAATAAAATC 57.034 33.333 5.93 0.00 44.75 2.17
3326 6595 6.035368 TGCAGGCTAAAAGCAATAAAATCA 57.965 33.333 0.78 0.00 44.75 2.57
3327 6596 6.642430 TGCAGGCTAAAAGCAATAAAATCAT 58.358 32.000 0.78 0.00 44.75 2.45
3328 6597 7.780064 TGCAGGCTAAAAGCAATAAAATCATA 58.220 30.769 0.78 0.00 44.75 2.15
3329 6598 8.256605 TGCAGGCTAAAAGCAATAAAATCATAA 58.743 29.630 0.78 0.00 44.75 1.90
3330 6599 9.097257 GCAGGCTAAAAGCAATAAAATCATAAA 57.903 29.630 0.78 0.00 44.75 1.40
3332 6601 9.822185 AGGCTAAAAGCAATAAAATCATAAAGG 57.178 29.630 0.78 0.00 44.75 3.11
3333 6602 9.816354 GGCTAAAAGCAATAAAATCATAAAGGA 57.184 29.630 0.78 0.00 44.75 3.36
3340 6609 9.538508 AGCAATAAAATCATAAAGGAGAATTGC 57.461 29.630 0.00 0.00 43.46 3.56
3341 6610 8.768019 GCAATAAAATCATAAAGGAGAATTGCC 58.232 33.333 0.00 0.00 39.50 4.52
3345 6614 6.890979 AATCATAAAGGAGAATTGCCTAGC 57.109 37.500 0.00 0.00 33.76 3.42
3346 6615 5.372343 TCATAAAGGAGAATTGCCTAGCA 57.628 39.130 0.00 0.00 33.76 3.49
3347 6616 5.371526 TCATAAAGGAGAATTGCCTAGCAG 58.628 41.667 0.00 0.00 40.61 4.24
3348 6617 2.725221 AAGGAGAATTGCCTAGCAGG 57.275 50.000 0.00 0.00 40.61 4.85
3357 6626 2.273449 CCTAGCAGGCCACCTTGG 59.727 66.667 5.01 7.16 41.55 3.61
3358 6627 2.300967 CCTAGCAGGCCACCTTGGA 61.301 63.158 14.93 0.00 40.96 3.53
3359 6628 1.685224 CTAGCAGGCCACCTTGGAA 59.315 57.895 5.01 0.00 40.96 3.53
3360 6629 0.393537 CTAGCAGGCCACCTTGGAAG 60.394 60.000 5.01 0.00 40.96 3.46
3381 6650 3.131240 GCAAATAGGCCTGTTAACACG 57.869 47.619 17.99 1.93 0.00 4.49
3382 6651 2.731027 GCAAATAGGCCTGTTAACACGC 60.731 50.000 17.99 18.00 0.00 5.34
3383 6652 2.483014 AATAGGCCTGTTAACACGCA 57.517 45.000 24.60 10.73 31.02 5.24
3384 6653 2.024176 ATAGGCCTGTTAACACGCAG 57.976 50.000 24.60 8.39 31.02 5.18
3385 6654 0.672401 TAGGCCTGTTAACACGCAGC 60.672 55.000 24.60 15.77 31.02 5.25
3386 6655 2.561373 GCCTGTTAACACGCAGCC 59.439 61.111 20.38 0.00 0.00 4.85
3387 6656 2.258013 GCCTGTTAACACGCAGCCA 61.258 57.895 20.38 0.00 0.00 4.75
3388 6657 1.574428 CCTGTTAACACGCAGCCAC 59.426 57.895 3.59 0.00 0.00 5.01
3389 6658 1.204062 CTGTTAACACGCAGCCACG 59.796 57.895 3.59 0.00 39.50 4.94
3390 6659 1.218875 CTGTTAACACGCAGCCACGA 61.219 55.000 3.59 0.00 36.70 4.35
3391 6660 1.203313 GTTAACACGCAGCCACGAC 59.797 57.895 0.00 0.00 36.70 4.34
3392 6661 1.957186 TTAACACGCAGCCACGACC 60.957 57.895 2.63 0.00 36.70 4.79
3393 6662 2.372040 TTAACACGCAGCCACGACCT 62.372 55.000 2.63 0.00 36.70 3.85
3394 6663 4.969196 ACACGCAGCCACGACCTG 62.969 66.667 2.63 0.00 36.70 4.00
3395 6664 4.662961 CACGCAGCCACGACCTGA 62.663 66.667 2.63 0.00 36.70 3.86
3396 6665 3.695606 ACGCAGCCACGACCTGAT 61.696 61.111 2.63 0.00 36.70 2.90
3397 6666 2.434884 CGCAGCCACGACCTGATT 60.435 61.111 0.00 0.00 34.06 2.57
3398 6667 1.153647 CGCAGCCACGACCTGATTA 60.154 57.895 0.00 0.00 34.06 1.75
3399 6668 1.421410 CGCAGCCACGACCTGATTAC 61.421 60.000 0.00 0.00 34.06 1.89
3400 6669 1.421410 GCAGCCACGACCTGATTACG 61.421 60.000 0.00 0.00 32.03 3.18
3401 6670 0.172578 CAGCCACGACCTGATTACGA 59.827 55.000 0.00 0.00 32.03 3.43
3402 6671 0.892755 AGCCACGACCTGATTACGAA 59.107 50.000 0.00 0.00 0.00 3.85
3403 6672 0.997196 GCCACGACCTGATTACGAAC 59.003 55.000 0.00 0.00 0.00 3.95
3404 6673 1.265568 CCACGACCTGATTACGAACG 58.734 55.000 0.00 0.00 0.00 3.95
3405 6674 0.638746 CACGACCTGATTACGAACGC 59.361 55.000 0.00 0.00 0.00 4.84
3406 6675 0.241749 ACGACCTGATTACGAACGCA 59.758 50.000 0.00 0.00 0.00 5.24
3407 6676 0.638746 CGACCTGATTACGAACGCAC 59.361 55.000 0.00 0.00 0.00 5.34
3408 6677 1.705256 GACCTGATTACGAACGCACA 58.295 50.000 0.00 0.00 0.00 4.57
3409 6678 2.268298 GACCTGATTACGAACGCACAT 58.732 47.619 0.00 0.00 0.00 3.21
3410 6679 3.441163 GACCTGATTACGAACGCACATA 58.559 45.455 0.00 0.00 0.00 2.29
3411 6680 4.049186 GACCTGATTACGAACGCACATAT 58.951 43.478 0.00 0.00 0.00 1.78
3412 6681 4.439057 ACCTGATTACGAACGCACATATT 58.561 39.130 0.00 0.00 0.00 1.28
3413 6682 4.270084 ACCTGATTACGAACGCACATATTG 59.730 41.667 0.00 0.00 0.00 1.90
3426 6695 4.837896 CACATATTGCTACTCTCTCCGA 57.162 45.455 0.00 0.00 0.00 4.55
3427 6696 4.793071 CACATATTGCTACTCTCTCCGAG 58.207 47.826 0.00 0.00 45.56 4.63
3428 6697 3.254657 ACATATTGCTACTCTCTCCGAGC 59.745 47.826 0.00 0.00 43.85 5.03
3429 6698 2.065899 ATTGCTACTCTCTCCGAGCT 57.934 50.000 0.00 0.00 43.85 4.09
3430 6699 1.098869 TTGCTACTCTCTCCGAGCTG 58.901 55.000 0.00 0.00 43.85 4.24
3431 6700 1.358759 GCTACTCTCTCCGAGCTGC 59.641 63.158 0.00 0.00 43.85 5.25
3432 6701 2.029743 CTACTCTCTCCGAGCTGCC 58.970 63.158 0.00 0.00 43.85 4.85
3433 6702 1.781025 CTACTCTCTCCGAGCTGCCG 61.781 65.000 0.00 0.00 43.85 5.69
3434 6703 4.567385 CTCTCTCCGAGCTGCCGC 62.567 72.222 0.00 0.00 31.99 6.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
806 833 7.277981 CGCAGTACTATTTTAAGTGAATCTGGT 59.722 37.037 0.00 0.00 0.00 4.00
807 834 7.254455 CCGCAGTACTATTTTAAGTGAATCTGG 60.254 40.741 0.00 0.00 0.00 3.86
808 835 7.254455 CCCGCAGTACTATTTTAAGTGAATCTG 60.254 40.741 0.00 0.00 0.00 2.90
809 836 6.761714 CCCGCAGTACTATTTTAAGTGAATCT 59.238 38.462 0.00 0.00 0.00 2.40
810 837 6.537660 ACCCGCAGTACTATTTTAAGTGAATC 59.462 38.462 0.00 0.00 0.00 2.52
812 839 5.797051 ACCCGCAGTACTATTTTAAGTGAA 58.203 37.500 0.00 0.00 0.00 3.18
813 840 5.410355 ACCCGCAGTACTATTTTAAGTGA 57.590 39.130 0.00 0.00 0.00 3.41
814 841 6.490566 AAACCCGCAGTACTATTTTAAGTG 57.509 37.500 0.00 0.00 0.00 3.16
815 842 8.797350 ATTAAACCCGCAGTACTATTTTAAGT 57.203 30.769 0.00 0.00 0.00 2.24
817 844 8.816144 CGTATTAAACCCGCAGTACTATTTTAA 58.184 33.333 0.00 2.49 0.00 1.52
818 845 7.978975 ACGTATTAAACCCGCAGTACTATTTTA 59.021 33.333 0.00 0.00 0.00 1.52
819 846 6.818142 ACGTATTAAACCCGCAGTACTATTTT 59.182 34.615 0.00 0.00 0.00 1.82
820 847 6.340522 ACGTATTAAACCCGCAGTACTATTT 58.659 36.000 0.00 0.00 0.00 1.40
821 848 5.906073 ACGTATTAAACCCGCAGTACTATT 58.094 37.500 0.00 0.00 0.00 1.73
822 849 5.520376 ACGTATTAAACCCGCAGTACTAT 57.480 39.130 0.00 0.00 0.00 2.12
824 851 3.874392 ACGTATTAAACCCGCAGTACT 57.126 42.857 0.00 0.00 0.00 2.73
825 852 5.498542 CGTTTACGTATTAAACCCGCAGTAC 60.499 44.000 0.00 0.00 44.77 2.73
826 853 4.560819 CGTTTACGTATTAAACCCGCAGTA 59.439 41.667 0.00 0.00 44.77 2.74
828 855 3.781926 GCGTTTACGTATTAAACCCGCAG 60.782 47.826 10.56 0.00 44.77 5.18
829 856 2.093467 GCGTTTACGTATTAAACCCGCA 59.907 45.455 10.56 0.00 44.77 5.69
830 857 2.093467 TGCGTTTACGTATTAAACCCGC 59.907 45.455 0.00 3.41 44.77 6.13
831 858 3.987807 TGCGTTTACGTATTAAACCCG 57.012 42.857 0.00 0.00 44.77 5.28
832 859 5.050159 CCCTATGCGTTTACGTATTAAACCC 60.050 44.000 10.91 0.00 44.77 4.11
833 860 5.752955 TCCCTATGCGTTTACGTATTAAACC 59.247 40.000 10.91 0.00 44.77 3.27
834 861 6.476706 AGTCCCTATGCGTTTACGTATTAAAC 59.523 38.462 10.91 0.00 41.74 2.01
835 862 6.572519 AGTCCCTATGCGTTTACGTATTAAA 58.427 36.000 10.91 0.00 41.74 1.52
836 863 6.147864 AGTCCCTATGCGTTTACGTATTAA 57.852 37.500 10.91 0.00 41.74 1.40
837 864 5.772825 AGTCCCTATGCGTTTACGTATTA 57.227 39.130 10.91 0.00 41.74 0.98
838 865 4.660789 AGTCCCTATGCGTTTACGTATT 57.339 40.909 10.91 0.00 41.74 1.89
839 866 4.660789 AAGTCCCTATGCGTTTACGTAT 57.339 40.909 10.51 10.51 45.96 3.06
842 869 4.673534 AAAAAGTCCCTATGCGTTTACG 57.326 40.909 0.00 0.00 43.27 3.18
873 900 1.511464 CTGGTCGTACGTCGCTGAC 60.511 63.158 16.05 4.50 39.67 3.51
874 901 1.229975 TTCTGGTCGTACGTCGCTGA 61.230 55.000 16.05 10.05 39.67 4.26
876 903 1.500844 CTTCTGGTCGTACGTCGCT 59.499 57.895 16.05 0.00 39.67 4.93
877 904 2.150837 GCTTCTGGTCGTACGTCGC 61.151 63.158 16.05 4.44 39.67 5.19
878 905 0.386352 TTGCTTCTGGTCGTACGTCG 60.386 55.000 16.05 0.00 41.41 5.12
879 906 1.918609 GATTGCTTCTGGTCGTACGTC 59.081 52.381 16.05 9.80 0.00 4.34
881 908 0.914551 CGATTGCTTCTGGTCGTACG 59.085 55.000 9.53 9.53 0.00 3.67
882 909 0.645868 GCGATTGCTTCTGGTCGTAC 59.354 55.000 0.00 0.00 38.39 3.67
883 910 3.044809 GCGATTGCTTCTGGTCGTA 57.955 52.632 0.00 0.00 38.39 3.43
895 922 5.607477 TCCCTACTAATAAACCAGCGATTG 58.393 41.667 0.00 0.00 0.00 2.67
897 924 5.881923 TTCCCTACTAATAAACCAGCGAT 57.118 39.130 0.00 0.00 0.00 4.58
898 925 5.422970 TCTTTCCCTACTAATAAACCAGCGA 59.577 40.000 0.00 0.00 0.00 4.93
899 926 5.522824 GTCTTTCCCTACTAATAAACCAGCG 59.477 44.000 0.00 0.00 0.00 5.18
901 928 8.979534 ACTAGTCTTTCCCTACTAATAAACCAG 58.020 37.037 0.00 0.00 0.00 4.00
904 931 9.964303 GCTACTAGTCTTTCCCTACTAATAAAC 57.036 37.037 0.00 0.00 0.00 2.01
906 933 9.705103 TTGCTACTAGTCTTTCCCTACTAATAA 57.295 33.333 0.00 0.00 0.00 1.40
907 934 9.129532 GTTGCTACTAGTCTTTCCCTACTAATA 57.870 37.037 0.00 0.00 0.00 0.98
908 935 7.069702 GGTTGCTACTAGTCTTTCCCTACTAAT 59.930 40.741 0.00 0.00 0.00 1.73
911 938 4.710865 GGTTGCTACTAGTCTTTCCCTACT 59.289 45.833 0.00 0.00 0.00 2.57
912 939 4.465305 TGGTTGCTACTAGTCTTTCCCTAC 59.535 45.833 0.00 0.00 0.00 3.18
913 940 4.680407 TGGTTGCTACTAGTCTTTCCCTA 58.320 43.478 0.00 0.00 0.00 3.53
914 941 3.517612 TGGTTGCTACTAGTCTTTCCCT 58.482 45.455 0.00 0.00 0.00 4.20
915 942 3.975168 TGGTTGCTACTAGTCTTTCCC 57.025 47.619 0.00 0.00 0.00 3.97
916 943 4.895961 AGTTGGTTGCTACTAGTCTTTCC 58.104 43.478 0.00 0.00 0.00 3.13
917 944 5.868258 GGTAGTTGGTTGCTACTAGTCTTTC 59.132 44.000 0.00 0.00 38.92 2.62
918 945 5.543020 AGGTAGTTGGTTGCTACTAGTCTTT 59.457 40.000 0.00 0.00 38.92 2.52
919 946 5.085219 AGGTAGTTGGTTGCTACTAGTCTT 58.915 41.667 0.00 0.00 38.92 3.01
920 947 4.675038 AGGTAGTTGGTTGCTACTAGTCT 58.325 43.478 0.00 0.00 38.92 3.24
921 948 5.169295 CAAGGTAGTTGGTTGCTACTAGTC 58.831 45.833 0.00 0.00 38.92 2.59
922 949 4.562963 GCAAGGTAGTTGGTTGCTACTAGT 60.563 45.833 0.00 0.00 42.70 2.57
923 950 3.933332 GCAAGGTAGTTGGTTGCTACTAG 59.067 47.826 0.00 0.00 42.70 2.57
924 951 3.325425 TGCAAGGTAGTTGGTTGCTACTA 59.675 43.478 7.70 0.00 45.56 1.82
926 953 2.484264 CTGCAAGGTAGTTGGTTGCTAC 59.516 50.000 7.70 0.00 45.56 3.58
1045 4286 3.282271 GCCAAGCAGCCTCTTTCC 58.718 61.111 0.00 0.00 0.00 3.13
1076 4317 2.675423 TCCAGCTGCTCGTACCGT 60.675 61.111 8.66 0.00 0.00 4.83
1367 4608 4.175337 ACCCGGCGCTGCATGTAT 62.175 61.111 11.81 0.00 0.00 2.29
1412 4653 3.469970 ATGATCCGGCGCACCTCA 61.470 61.111 10.83 6.70 0.00 3.86
1531 4772 0.737715 CTTCTTGGGCCTCTCGTTCG 60.738 60.000 4.53 0.00 0.00 3.95
1593 4837 2.096980 CGCCGATCTTGTAGACTACACA 59.903 50.000 14.96 5.45 38.63 3.72
1653 4897 0.395311 AGAATAGTCACCTCCGGCGA 60.395 55.000 9.30 0.00 0.00 5.54
1779 5023 2.338984 GTCGAACGTGGAGGTGCT 59.661 61.111 0.00 0.00 0.00 4.40
1782 5026 4.353437 GCCGTCGAACGTGGAGGT 62.353 66.667 10.96 0.00 40.58 3.85
1895 5157 2.358737 CCCGGCAGCTTCGACTTT 60.359 61.111 0.00 0.00 0.00 2.66
2178 5442 2.164422 GGAGGGAGTACATTTTTGCAGC 59.836 50.000 0.00 0.00 0.00 5.25
2377 5644 9.950680 CTTTCTTTTCTAAAGCTATGTTTGTCA 57.049 29.630 0.00 0.00 0.00 3.58
2434 5703 5.703978 TGTTTGGATGTTCATGTACAAGG 57.296 39.130 9.35 0.00 0.00 3.61
2469 5738 3.949113 GGCCACCGGATTTTACTTATGAA 59.051 43.478 9.46 0.00 0.00 2.57
2542 5811 6.651755 ACTGAAAGAAACGACTAAAAACGA 57.348 33.333 0.00 0.00 37.43 3.85
2787 6056 2.222931 CGCCGCAAATGAAGAATAACGA 60.223 45.455 0.00 0.00 0.00 3.85
2801 6070 3.959975 GAACAGCAACCGCCGCAA 61.960 61.111 0.00 0.00 39.83 4.85
3059 6328 6.109156 TCACCATTGTACAGTATTGTCACT 57.891 37.500 0.00 0.00 38.76 3.41
3060 6329 5.932303 ACTCACCATTGTACAGTATTGTCAC 59.068 40.000 0.00 0.00 38.76 3.67
3061 6330 5.931724 CACTCACCATTGTACAGTATTGTCA 59.068 40.000 0.00 0.00 38.76 3.58
3062 6331 5.932303 ACACTCACCATTGTACAGTATTGTC 59.068 40.000 0.00 0.00 38.76 3.18
3063 6332 5.700832 CACACTCACCATTGTACAGTATTGT 59.299 40.000 0.00 0.00 41.39 2.71
3064 6333 5.122239 CCACACTCACCATTGTACAGTATTG 59.878 44.000 0.00 0.00 0.00 1.90
3065 6334 5.245531 CCACACTCACCATTGTACAGTATT 58.754 41.667 0.00 0.00 0.00 1.89
3066 6335 4.832248 CCACACTCACCATTGTACAGTAT 58.168 43.478 0.00 0.00 0.00 2.12
3067 6336 3.556213 GCCACACTCACCATTGTACAGTA 60.556 47.826 0.00 0.00 0.00 2.74
3068 6337 2.810400 GCCACACTCACCATTGTACAGT 60.810 50.000 0.00 0.00 0.00 3.55
3069 6338 1.806542 GCCACACTCACCATTGTACAG 59.193 52.381 0.00 0.00 0.00 2.74
3070 6339 1.875996 CGCCACACTCACCATTGTACA 60.876 52.381 0.00 0.00 0.00 2.90
3071 6340 0.796312 CGCCACACTCACCATTGTAC 59.204 55.000 0.00 0.00 0.00 2.90
3072 6341 0.394938 ACGCCACACTCACCATTGTA 59.605 50.000 0.00 0.00 0.00 2.41
3073 6342 0.465460 AACGCCACACTCACCATTGT 60.465 50.000 0.00 0.00 0.00 2.71
3074 6343 0.667993 AAACGCCACACTCACCATTG 59.332 50.000 0.00 0.00 0.00 2.82
3075 6344 1.066908 CAAAACGCCACACTCACCATT 59.933 47.619 0.00 0.00 0.00 3.16
3076 6345 0.667993 CAAAACGCCACACTCACCAT 59.332 50.000 0.00 0.00 0.00 3.55
3077 6346 1.380403 CCAAAACGCCACACTCACCA 61.380 55.000 0.00 0.00 0.00 4.17
3078 6347 1.358759 CCAAAACGCCACACTCACC 59.641 57.895 0.00 0.00 0.00 4.02
3079 6348 0.248458 CACCAAAACGCCACACTCAC 60.248 55.000 0.00 0.00 0.00 3.51
3080 6349 1.380403 CCACCAAAACGCCACACTCA 61.380 55.000 0.00 0.00 0.00 3.41
3081 6350 1.358759 CCACCAAAACGCCACACTC 59.641 57.895 0.00 0.00 0.00 3.51
3082 6351 2.781158 GCCACCAAAACGCCACACT 61.781 57.895 0.00 0.00 0.00 3.55
3083 6352 2.279186 GCCACCAAAACGCCACAC 60.279 61.111 0.00 0.00 0.00 3.82
3084 6353 3.532155 GGCCACCAAAACGCCACA 61.532 61.111 0.00 0.00 42.52 4.17
3085 6354 4.639171 CGGCCACCAAAACGCCAC 62.639 66.667 2.24 0.00 43.17 5.01
3086 6355 4.877619 TCGGCCACCAAAACGCCA 62.878 61.111 2.24 0.00 43.17 5.69
3087 6356 4.038080 CTCGGCCACCAAAACGCC 62.038 66.667 2.24 0.00 39.41 5.68
3088 6357 4.700365 GCTCGGCCACCAAAACGC 62.700 66.667 2.24 0.00 0.00 4.84
3089 6358 3.283684 TGCTCGGCCACCAAAACG 61.284 61.111 2.24 0.00 0.00 3.60
3090 6359 2.335011 GTGCTCGGCCACCAAAAC 59.665 61.111 2.24 0.00 0.00 2.43
3108 6377 4.457496 ATCCGTCCCTGCTGCACG 62.457 66.667 0.00 0.06 0.00 5.34
3109 6378 1.676678 TAGATCCGTCCCTGCTGCAC 61.677 60.000 0.00 0.00 0.00 4.57
3110 6379 0.975556 TTAGATCCGTCCCTGCTGCA 60.976 55.000 0.88 0.88 0.00 4.41
3111 6380 0.249657 CTTAGATCCGTCCCTGCTGC 60.250 60.000 0.00 0.00 0.00 5.25
3112 6381 0.390860 CCTTAGATCCGTCCCTGCTG 59.609 60.000 0.00 0.00 0.00 4.41
3113 6382 0.760945 CCCTTAGATCCGTCCCTGCT 60.761 60.000 0.00 0.00 0.00 4.24
3114 6383 1.749033 CCCTTAGATCCGTCCCTGC 59.251 63.158 0.00 0.00 0.00 4.85
3115 6384 1.122019 CCCCCTTAGATCCGTCCCTG 61.122 65.000 0.00 0.00 0.00 4.45
3116 6385 1.236282 CCCCCTTAGATCCGTCCCT 59.764 63.158 0.00 0.00 0.00 4.20
3117 6386 3.887311 CCCCCTTAGATCCGTCCC 58.113 66.667 0.00 0.00 0.00 4.46
3153 6422 1.518572 CGAGACGATCGTTTGGGGG 60.519 63.158 23.63 5.33 46.62 5.40
3154 6423 4.088421 CGAGACGATCGTTTGGGG 57.912 61.111 23.63 6.76 46.62 4.96
3162 6431 4.121691 TCGAGGGACGAGACGATC 57.878 61.111 0.00 0.00 46.45 3.69
3202 6471 1.045911 ACAAGCGGGCAAGGGAAAAA 61.046 50.000 0.00 0.00 0.00 1.94
3203 6472 1.045911 AACAAGCGGGCAAGGGAAAA 61.046 50.000 0.00 0.00 0.00 2.29
3204 6473 1.456705 AACAAGCGGGCAAGGGAAA 60.457 52.632 0.00 0.00 0.00 3.13
3205 6474 1.901464 GAACAAGCGGGCAAGGGAA 60.901 57.895 0.00 0.00 0.00 3.97
3206 6475 2.282180 GAACAAGCGGGCAAGGGA 60.282 61.111 0.00 0.00 0.00 4.20
3207 6476 3.373565 GGAACAAGCGGGCAAGGG 61.374 66.667 0.00 0.00 0.00 3.95
3208 6477 3.737172 CGGAACAAGCGGGCAAGG 61.737 66.667 0.00 0.00 0.00 3.61
3209 6478 2.978010 ACGGAACAAGCGGGCAAG 60.978 61.111 0.00 0.00 0.00 4.01
3210 6479 3.283684 CACGGAACAAGCGGGCAA 61.284 61.111 0.00 0.00 0.00 4.52
3213 6482 2.978010 AAGCACGGAACAAGCGGG 60.978 61.111 0.00 0.00 32.88 6.13
3214 6483 2.252260 CAAGCACGGAACAAGCGG 59.748 61.111 0.00 0.00 32.88 5.52
3215 6484 2.392613 AAGCAAGCACGGAACAAGCG 62.393 55.000 0.00 0.00 32.88 4.68
3216 6485 0.661483 GAAGCAAGCACGGAACAAGC 60.661 55.000 0.00 0.00 0.00 4.01
3217 6486 0.384725 CGAAGCAAGCACGGAACAAG 60.385 55.000 0.00 0.00 0.00 3.16
3218 6487 1.646540 CGAAGCAAGCACGGAACAA 59.353 52.632 0.00 0.00 0.00 2.83
3219 6488 3.329231 CGAAGCAAGCACGGAACA 58.671 55.556 0.00 0.00 0.00 3.18
3250 6519 7.465989 ACGTTAATGAGAAAAGACGTGAAAAA 58.534 30.769 0.58 0.00 41.49 1.94
3251 6520 7.007313 ACGTTAATGAGAAAAGACGTGAAAA 57.993 32.000 0.58 0.00 41.49 2.29
3252 6521 6.592798 ACGTTAATGAGAAAAGACGTGAAA 57.407 33.333 0.58 0.00 41.49 2.69
3256 6525 5.332055 CGTTCACGTTAATGAGAAAAGACGT 60.332 40.000 8.83 0.00 43.52 4.34
3257 6526 5.064367 CGTTCACGTTAATGAGAAAAGACG 58.936 41.667 8.83 6.04 36.65 4.18
3258 6527 5.371629 CCGTTCACGTTAATGAGAAAAGAC 58.628 41.667 8.83 0.00 37.74 3.01
3259 6528 4.449743 CCCGTTCACGTTAATGAGAAAAGA 59.550 41.667 8.83 0.00 37.74 2.52
3260 6529 4.212636 ACCCGTTCACGTTAATGAGAAAAG 59.787 41.667 8.83 6.80 37.74 2.27
3261 6530 4.128643 ACCCGTTCACGTTAATGAGAAAA 58.871 39.130 8.83 0.00 37.74 2.29
3262 6531 3.731089 ACCCGTTCACGTTAATGAGAAA 58.269 40.909 8.83 0.00 37.74 2.52
3263 6532 3.243805 TGACCCGTTCACGTTAATGAGAA 60.244 43.478 0.58 2.38 37.74 2.87
3264 6533 2.296752 TGACCCGTTCACGTTAATGAGA 59.703 45.455 0.58 0.00 37.74 3.27
3265 6534 2.666508 CTGACCCGTTCACGTTAATGAG 59.333 50.000 0.58 0.00 37.74 2.90
3266 6535 2.679450 CTGACCCGTTCACGTTAATGA 58.321 47.619 0.58 0.00 37.74 2.57
3267 6536 1.127951 GCTGACCCGTTCACGTTAATG 59.872 52.381 0.00 0.00 37.74 1.90
3268 6537 1.435577 GCTGACCCGTTCACGTTAAT 58.564 50.000 0.00 0.00 37.74 1.40
3269 6538 0.600782 GGCTGACCCGTTCACGTTAA 60.601 55.000 0.00 0.00 37.74 2.01
3270 6539 1.005867 GGCTGACCCGTTCACGTTA 60.006 57.895 0.00 0.00 37.74 3.18
3271 6540 2.280592 GGCTGACCCGTTCACGTT 60.281 61.111 0.00 0.00 37.74 3.99
3281 6550 1.452108 GGCTGTACATGGGCTGACC 60.452 63.158 0.00 0.00 40.81 4.02
3282 6551 1.452108 GGGCTGTACATGGGCTGAC 60.452 63.158 8.32 0.00 0.00 3.51
3283 6552 1.281199 ATGGGCTGTACATGGGCTGA 61.281 55.000 8.32 0.00 0.00 4.26
3284 6553 0.396139 AATGGGCTGTACATGGGCTG 60.396 55.000 8.32 0.00 0.00 4.85
3285 6554 0.396139 CAATGGGCTGTACATGGGCT 60.396 55.000 8.32 0.00 0.00 5.19
3286 6555 2.019897 GCAATGGGCTGTACATGGGC 62.020 60.000 0.00 0.00 40.25 5.36
3287 6556 0.683828 TGCAATGGGCTGTACATGGG 60.684 55.000 0.00 0.00 45.15 4.00
3288 6557 0.742505 CTGCAATGGGCTGTACATGG 59.257 55.000 0.00 0.00 45.15 3.66
3289 6558 0.742505 CCTGCAATGGGCTGTACATG 59.257 55.000 0.00 0.00 45.15 3.21
3290 6559 1.039233 GCCTGCAATGGGCTGTACAT 61.039 55.000 8.16 0.00 45.57 2.29
3291 6560 1.678635 GCCTGCAATGGGCTGTACA 60.679 57.895 8.16 0.00 45.57 2.90
3292 6561 3.200522 GCCTGCAATGGGCTGTAC 58.799 61.111 8.16 0.00 45.57 2.90
3298 6567 0.896923 TGCTTTTAGCCTGCAATGGG 59.103 50.000 0.00 0.00 41.51 4.00
3299 6568 2.747396 TTGCTTTTAGCCTGCAATGG 57.253 45.000 0.00 0.00 41.51 3.16
3303 6572 6.035368 TGATTTTATTGCTTTTAGCCTGCA 57.965 33.333 0.00 0.00 41.51 4.41
3304 6573 8.647143 TTATGATTTTATTGCTTTTAGCCTGC 57.353 30.769 0.00 0.00 41.51 4.85
3306 6575 9.822185 CCTTTATGATTTTATTGCTTTTAGCCT 57.178 29.630 0.00 0.00 41.51 4.58
3307 6576 9.816354 TCCTTTATGATTTTATTGCTTTTAGCC 57.184 29.630 0.00 0.00 41.51 3.93
3314 6583 9.538508 GCAATTCTCCTTTATGATTTTATTGCT 57.461 29.630 0.00 0.00 40.33 3.91
3315 6584 8.768019 GGCAATTCTCCTTTATGATTTTATTGC 58.232 33.333 0.00 0.00 41.84 3.56
3319 6588 8.850156 GCTAGGCAATTCTCCTTTATGATTTTA 58.150 33.333 1.44 0.00 35.21 1.52
3320 6589 7.342799 TGCTAGGCAATTCTCCTTTATGATTTT 59.657 33.333 1.44 0.00 34.76 1.82
3321 6590 6.835488 TGCTAGGCAATTCTCCTTTATGATTT 59.165 34.615 1.44 0.00 34.76 2.17
3322 6591 6.367983 TGCTAGGCAATTCTCCTTTATGATT 58.632 36.000 1.44 0.00 34.76 2.57
3323 6592 5.945310 TGCTAGGCAATTCTCCTTTATGAT 58.055 37.500 1.44 0.00 34.76 2.45
3324 6593 5.371526 CTGCTAGGCAATTCTCCTTTATGA 58.628 41.667 1.44 0.00 38.41 2.15
3325 6594 4.518211 CCTGCTAGGCAATTCTCCTTTATG 59.482 45.833 1.44 0.00 38.41 1.90
3326 6595 4.723309 CCTGCTAGGCAATTCTCCTTTAT 58.277 43.478 1.44 0.00 38.41 1.40
3327 6596 4.156455 CCTGCTAGGCAATTCTCCTTTA 57.844 45.455 1.44 0.00 38.41 1.85
3328 6597 3.010200 CCTGCTAGGCAATTCTCCTTT 57.990 47.619 1.44 0.00 38.41 3.11
3329 6598 2.725221 CCTGCTAGGCAATTCTCCTT 57.275 50.000 1.44 0.00 38.41 3.36
3340 6609 1.852157 TTCCAAGGTGGCCTGCTAGG 61.852 60.000 3.32 0.42 37.47 3.02
3341 6610 0.393537 CTTCCAAGGTGGCCTGCTAG 60.394 60.000 3.32 0.00 37.47 3.42
3342 6611 1.685224 CTTCCAAGGTGGCCTGCTA 59.315 57.895 3.32 0.00 37.47 3.49
3343 6612 2.437897 CTTCCAAGGTGGCCTGCT 59.562 61.111 3.32 0.00 37.47 4.24
3344 6613 2.677875 CCTTCCAAGGTGGCCTGC 60.678 66.667 3.32 0.00 41.41 4.85
3361 6630 3.131240 CGTGTTAACAGGCCTATTTGC 57.869 47.619 14.76 0.00 0.00 3.68
3370 6639 1.574428 GTGGCTGCGTGTTAACAGG 59.426 57.895 21.14 21.14 34.38 4.00
3371 6640 1.204062 CGTGGCTGCGTGTTAACAG 59.796 57.895 8.98 4.70 36.96 3.16
3372 6641 1.227292 TCGTGGCTGCGTGTTAACA 60.227 52.632 3.59 3.59 0.00 2.41
3373 6642 1.203313 GTCGTGGCTGCGTGTTAAC 59.797 57.895 0.00 0.00 0.00 2.01
3374 6643 1.957186 GGTCGTGGCTGCGTGTTAA 60.957 57.895 0.00 0.00 0.00 2.01
3375 6644 2.356553 GGTCGTGGCTGCGTGTTA 60.357 61.111 0.00 0.00 0.00 2.41
3376 6645 4.235762 AGGTCGTGGCTGCGTGTT 62.236 61.111 0.00 0.00 0.00 3.32
3377 6646 4.969196 CAGGTCGTGGCTGCGTGT 62.969 66.667 0.00 0.00 0.00 4.49
3378 6647 3.939837 ATCAGGTCGTGGCTGCGTG 62.940 63.158 0.00 0.00 0.00 5.34
3379 6648 1.884075 TAATCAGGTCGTGGCTGCGT 61.884 55.000 0.00 0.00 0.00 5.24
3380 6649 1.153647 TAATCAGGTCGTGGCTGCG 60.154 57.895 0.00 0.00 0.00 5.18
3381 6650 1.421410 CGTAATCAGGTCGTGGCTGC 61.421 60.000 0.00 0.00 0.00 5.25
3382 6651 0.172578 TCGTAATCAGGTCGTGGCTG 59.827 55.000 0.00 0.00 0.00 4.85
3383 6652 0.892755 TTCGTAATCAGGTCGTGGCT 59.107 50.000 0.00 0.00 0.00 4.75
3384 6653 0.997196 GTTCGTAATCAGGTCGTGGC 59.003 55.000 0.00 0.00 0.00 5.01
3385 6654 1.265568 CGTTCGTAATCAGGTCGTGG 58.734 55.000 0.00 0.00 0.00 4.94
3386 6655 0.638746 GCGTTCGTAATCAGGTCGTG 59.361 55.000 0.00 0.00 0.00 4.35
3387 6656 0.241749 TGCGTTCGTAATCAGGTCGT 59.758 50.000 0.00 0.00 0.00 4.34
3388 6657 0.638746 GTGCGTTCGTAATCAGGTCG 59.361 55.000 0.00 0.00 0.00 4.79
3389 6658 1.705256 TGTGCGTTCGTAATCAGGTC 58.295 50.000 0.00 0.00 0.00 3.85
3390 6659 2.380084 ATGTGCGTTCGTAATCAGGT 57.620 45.000 0.00 0.00 0.00 4.00
3391 6660 4.761745 CAATATGTGCGTTCGTAATCAGG 58.238 43.478 0.00 0.00 0.00 3.86
3392 6661 4.203828 GCAATATGTGCGTTCGTAATCAG 58.796 43.478 0.00 0.00 45.10 2.90
3393 6662 4.190304 GCAATATGTGCGTTCGTAATCA 57.810 40.909 0.00 0.00 45.10 2.57
3405 6674 4.837896 TCGGAGAGAGTAGCAATATGTG 57.162 45.455 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.