Multiple sequence alignment - TraesCS2A01G250700

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2A01G250700 chr2A 100.000 2600 0 0 1 2600 378803960 378806559 0.000000e+00 4802
1 TraesCS2A01G250700 chr2A 87.956 274 31 2 1136 1407 298857725 298857452 3.230000e-84 322
2 TraesCS2A01G250700 chr2A 85.185 297 39 5 1399 1692 298856448 298856154 1.510000e-77 300
3 TraesCS2A01G250700 chr2A 91.713 181 13 2 1136 1314 298891055 298890875 1.540000e-62 250
4 TraesCS2A01G250700 chr2A 87.500 128 12 3 1138 1263 406856020 406856145 7.500000e-31 145
5 TraesCS2A01G250700 chr7A 84.202 1171 135 38 1 1138 486852905 486851752 0.000000e+00 1092
6 TraesCS2A01G250700 chr7A 86.325 936 114 11 1 931 550351270 550352196 0.000000e+00 1007
7 TraesCS2A01G250700 chr7A 85.462 963 122 10 1 949 438922959 438923917 0.000000e+00 987
8 TraesCS2A01G250700 chr7A 85.200 973 121 15 1 957 438930108 438931073 0.000000e+00 977
9 TraesCS2A01G250700 chr7A 87.500 232 27 2 1136 1365 258732745 258732976 1.530000e-67 267
10 TraesCS2A01G250700 chr1D 86.742 973 104 20 1 957 367102342 367101379 0.000000e+00 1059
11 TraesCS2A01G250700 chr5A 88.331 857 88 10 1 852 436594811 436595660 0.000000e+00 1018
12 TraesCS2A01G250700 chr5A 86.754 921 93 24 1 900 530568019 530568931 0.000000e+00 998
13 TraesCS2A01G250700 chr3A 86.222 929 115 13 1 923 370414248 370415169 0.000000e+00 994
14 TraesCS2A01G250700 chr3A 86.465 761 85 13 1853 2600 673654737 673655492 0.000000e+00 819
15 TraesCS2A01G250700 chr3A 86.490 755 89 9 1853 2600 431348121 431347373 0.000000e+00 817
16 TraesCS2A01G250700 chr3A 85.771 752 95 9 1855 2600 431340379 431339634 0.000000e+00 785
17 TraesCS2A01G250700 chr1A 86.726 904 103 15 16 911 269293156 269294050 0.000000e+00 989
18 TraesCS2A01G250700 chr1A 85.790 753 93 10 1856 2600 241720639 241721385 0.000000e+00 785
19 TraesCS2A01G250700 chr1A 85.657 753 93 11 1856 2600 241730730 241731475 0.000000e+00 778
20 TraesCS2A01G250700 chr1A 85.353 751 96 10 1856 2598 175200126 175199382 0.000000e+00 765
21 TraesCS2A01G250700 chr1A 85.882 170 18 6 1526 1692 249040165 249040331 2.660000e-40 176
22 TraesCS2A01G250700 chr6A 85.836 939 113 20 1 929 110195095 110194167 0.000000e+00 979
23 TraesCS2A01G250700 chr6A 85.525 753 94 12 1856 2600 519065943 519066688 0.000000e+00 773
24 TraesCS2A01G250700 chr2D 85.928 938 103 23 1 918 139293478 139294406 0.000000e+00 974
25 TraesCS2A01G250700 chr2D 85.258 970 109 28 1 950 241509962 241509007 0.000000e+00 968
26 TraesCS2A01G250700 chr2D 82.817 1129 147 37 1 1096 532725134 532726248 0.000000e+00 966
27 TraesCS2A01G250700 chr2D 82.296 1141 149 42 1 1106 532717541 532718663 0.000000e+00 939
28 TraesCS2A01G250700 chr3D 81.459 1138 159 42 1 1102 222722086 222720965 0.000000e+00 885
29 TraesCS2A01G250700 chr3D 80.868 1129 143 40 1 1091 222713448 222712355 0.000000e+00 821
30 TraesCS2A01G250700 chr4A 87.020 755 84 10 1853 2600 541600249 541599502 0.000000e+00 839
31 TraesCS2A01G250700 chr4A 85.430 755 95 11 1853 2600 371234222 371234968 0.000000e+00 771
32 TraesCS2A01G250700 chr4A 84.488 303 38 7 1254 1549 375282774 375283074 9.100000e-75 291
33 TraesCS2A01G250700 chr4A 88.050 159 18 1 1663 1820 346929363 346929521 1.230000e-43 187
34 TraesCS2A01G250700 chr4A 89.189 148 14 2 993 1138 278103155 278103302 1.590000e-42 183
35 TraesCS2A01G250700 chr2B 80.000 985 144 44 6 956 382513927 382512962 0.000000e+00 678
36 TraesCS2A01G250700 chr3B 85.761 309 37 5 1248 1549 335778842 335779150 1.160000e-83 320
37 TraesCS2A01G250700 chr7B 85.714 301 36 5 1274 1570 260064271 260063974 6.990000e-81 311
38 TraesCS2A01G250700 chr6D 86.909 275 35 1 1297 1570 233694793 233695067 9.040000e-80 307
39 TraesCS2A01G250700 chr7D 78.458 506 76 27 1663 2157 317390421 317389938 1.510000e-77 300
40 TraesCS2A01G250700 chr7D 78.185 518 73 34 1663 2164 83785101 83784608 7.040000e-76 294
41 TraesCS2A01G250700 chr7D 78.020 505 80 24 1663 2157 317383141 317382658 3.270000e-74 289
42 TraesCS2A01G250700 chr7D 86.275 255 34 1 1297 1550 302974873 302975127 2.550000e-70 276
43 TraesCS2A01G250700 chr7D 92.073 164 12 1 1663 1825 83777666 83777503 2.010000e-56 230
44 TraesCS2A01G250700 chr5D 86.842 266 33 2 1306 1570 202968660 202968396 1.960000e-76 296
45 TraesCS2A01G250700 chr4D 86.397 272 35 2 1300 1570 361182241 361181971 1.960000e-76 296
46 TraesCS2A01G250700 chr4D 85.662 272 37 2 1300 1570 361174856 361174586 4.230000e-73 285
47 TraesCS2A01G250700 chr4D 77.220 518 74 35 1663 2164 470307272 470307761 1.980000e-66 263
48 TraesCS2A01G250700 chr4D 89.881 168 16 1 1663 1829 470291398 470291565 5.640000e-52 215
49 TraesCS2A01G250700 chr4B 77.336 503 76 30 1663 2151 279345635 279345157 1.980000e-66 263
50 TraesCS2A01G250700 chr6B 89.286 168 17 1 1663 1829 405986163 405986330 2.620000e-50 209


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 TraesCS2A01G250700 chr2A 378803960 378806559 2599 False 4802 4802 100.0000 1 2600 1 chr2A.!!$F1 2599
1 TraesCS2A01G250700 chr2A 298856154 298857725 1571 True 311 322 86.5705 1136 1692 2 chr2A.!!$R2 556
2 TraesCS2A01G250700 chr7A 486851752 486852905 1153 True 1092 1092 84.2020 1 1138 1 chr7A.!!$R1 1137
3 TraesCS2A01G250700 chr7A 550351270 550352196 926 False 1007 1007 86.3250 1 931 1 chr7A.!!$F4 930
4 TraesCS2A01G250700 chr7A 438922959 438923917 958 False 987 987 85.4620 1 949 1 chr7A.!!$F2 948
5 TraesCS2A01G250700 chr7A 438930108 438931073 965 False 977 977 85.2000 1 957 1 chr7A.!!$F3 956
6 TraesCS2A01G250700 chr1D 367101379 367102342 963 True 1059 1059 86.7420 1 957 1 chr1D.!!$R1 956
7 TraesCS2A01G250700 chr5A 436594811 436595660 849 False 1018 1018 88.3310 1 852 1 chr5A.!!$F1 851
8 TraesCS2A01G250700 chr5A 530568019 530568931 912 False 998 998 86.7540 1 900 1 chr5A.!!$F2 899
9 TraesCS2A01G250700 chr3A 370414248 370415169 921 False 994 994 86.2220 1 923 1 chr3A.!!$F1 922
10 TraesCS2A01G250700 chr3A 673654737 673655492 755 False 819 819 86.4650 1853 2600 1 chr3A.!!$F2 747
11 TraesCS2A01G250700 chr3A 431347373 431348121 748 True 817 817 86.4900 1853 2600 1 chr3A.!!$R2 747
12 TraesCS2A01G250700 chr3A 431339634 431340379 745 True 785 785 85.7710 1855 2600 1 chr3A.!!$R1 745
13 TraesCS2A01G250700 chr1A 269293156 269294050 894 False 989 989 86.7260 16 911 1 chr1A.!!$F4 895
14 TraesCS2A01G250700 chr1A 241720639 241721385 746 False 785 785 85.7900 1856 2600 1 chr1A.!!$F1 744
15 TraesCS2A01G250700 chr1A 241730730 241731475 745 False 778 778 85.6570 1856 2600 1 chr1A.!!$F2 744
16 TraesCS2A01G250700 chr1A 175199382 175200126 744 True 765 765 85.3530 1856 2598 1 chr1A.!!$R1 742
17 TraesCS2A01G250700 chr6A 110194167 110195095 928 True 979 979 85.8360 1 929 1 chr6A.!!$R1 928
18 TraesCS2A01G250700 chr6A 519065943 519066688 745 False 773 773 85.5250 1856 2600 1 chr6A.!!$F1 744
19 TraesCS2A01G250700 chr2D 139293478 139294406 928 False 974 974 85.9280 1 918 1 chr2D.!!$F1 917
20 TraesCS2A01G250700 chr2D 241509007 241509962 955 True 968 968 85.2580 1 950 1 chr2D.!!$R1 949
21 TraesCS2A01G250700 chr2D 532725134 532726248 1114 False 966 966 82.8170 1 1096 1 chr2D.!!$F3 1095
22 TraesCS2A01G250700 chr2D 532717541 532718663 1122 False 939 939 82.2960 1 1106 1 chr2D.!!$F2 1105
23 TraesCS2A01G250700 chr3D 222720965 222722086 1121 True 885 885 81.4590 1 1102 1 chr3D.!!$R2 1101
24 TraesCS2A01G250700 chr3D 222712355 222713448 1093 True 821 821 80.8680 1 1091 1 chr3D.!!$R1 1090
25 TraesCS2A01G250700 chr4A 541599502 541600249 747 True 839 839 87.0200 1853 2600 1 chr4A.!!$R1 747
26 TraesCS2A01G250700 chr4A 371234222 371234968 746 False 771 771 85.4300 1853 2600 1 chr4A.!!$F3 747
27 TraesCS2A01G250700 chr2B 382512962 382513927 965 True 678 678 80.0000 6 956 1 chr2B.!!$R1 950

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
437 461 0.957395 ACATGGCAAGAGGTGAAGCG 60.957 55.0 0.0 0.0 0.0 4.68 F
1461 2552 0.457035 AACTTGTTGCAGCCACAGTG 59.543 50.0 0.0 0.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1584 2675 0.179142 GGTTCTACGCCTCTTCGACC 60.179 60.0 0.0 0.0 0.0 4.79 R
2500 3604 1.258676 GTCCGGGTCTCTCAGTTCTT 58.741 55.0 0.0 0.0 0.0 2.52 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
96 103 1.614996 TCTTGCCTGAAATCCGCAAA 58.385 45.000 6.51 0.00 41.63 3.68
115 122 5.179368 CGCAAAGAAGAAGAACAAGTCCATA 59.821 40.000 0.00 0.00 0.00 2.74
162 169 2.611971 CGAATCCTCACAACTCCGGAAA 60.612 50.000 5.23 0.00 0.00 3.13
163 170 2.474410 ATCCTCACAACTCCGGAAAC 57.526 50.000 5.23 0.00 0.00 2.78
244 256 5.771165 ACATCACATAAGCATGGCATGATAA 59.229 36.000 30.69 14.30 36.39 1.75
278 291 4.013050 TGATGCATGTCCGGTTTAATGAA 58.987 39.130 2.46 0.00 0.00 2.57
279 296 4.460731 TGATGCATGTCCGGTTTAATGAAA 59.539 37.500 2.46 0.00 0.00 2.69
357 379 5.323900 CAACGACTTGCATATTGACGAAAT 58.676 37.500 0.00 0.00 0.00 2.17
383 407 6.258947 GCCACATGACTTATTTAGTTCTCTCC 59.741 42.308 0.00 0.00 37.17 3.71
385 409 7.331026 CACATGACTTATTTAGTTCTCTCCCA 58.669 38.462 0.00 0.00 37.17 4.37
437 461 0.957395 ACATGGCAAGAGGTGAAGCG 60.957 55.000 0.00 0.00 0.00 4.68
531 558 7.201548 CCTCATGTGCATATTTTAAAAGTTGGC 60.202 37.037 6.79 7.96 0.00 4.52
540 567 9.260002 CATATTTTAAAAGTTGGCACTGTTCTT 57.740 29.630 6.79 0.00 32.23 2.52
596 623 6.209589 TGCAAAGTAATGCCACCAAGTTAATA 59.790 34.615 0.00 0.00 45.83 0.98
710 752 9.662545 GCAATTAAGCAAAATAAACACAAACAT 57.337 25.926 0.00 0.00 0.00 2.71
886 952 2.851195 AGCTAAAATCGCATGTAGGGG 58.149 47.619 0.00 0.00 0.00 4.79
900 969 3.547746 TGTAGGGGAAAAACGATATGGC 58.452 45.455 0.00 0.00 0.00 4.40
990 1066 1.751924 CGAACGAGGAAGAGAAGGGAT 59.248 52.381 0.00 0.00 0.00 3.85
991 1067 2.950309 CGAACGAGGAAGAGAAGGGATA 59.050 50.000 0.00 0.00 0.00 2.59
1045 1122 2.111669 GACGGGGTCAAAACGGGT 59.888 61.111 0.00 0.00 32.09 5.28
1049 1126 1.149854 GGGGTCAAAACGGGTGAGT 59.850 57.895 0.00 0.00 0.00 3.41
1050 1127 0.887836 GGGGTCAAAACGGGTGAGTC 60.888 60.000 0.00 0.00 0.00 3.36
1092 1170 1.270305 CCTCTGTTCGACAGGAAGCAA 60.270 52.381 12.89 0.00 45.94 3.91
1099 1177 2.982744 GACAGGAAGCAAAGCCGCC 61.983 63.158 0.00 0.00 0.00 6.13
1115 1193 2.027625 GCCGCAGCGTAGAACTTGT 61.028 57.895 15.05 0.00 0.00 3.16
1128 1206 3.636231 CTTGTGGTGGAGGCCGGA 61.636 66.667 5.05 0.00 0.00 5.14
1172 1250 4.729918 AGGAGCTTGGCAAGGCGG 62.730 66.667 27.25 4.57 0.00 6.13
1173 1251 4.722700 GGAGCTTGGCAAGGCGGA 62.723 66.667 27.25 0.00 0.00 5.54
1224 1302 3.282745 TTGAGGACGACGCAGAGGC 62.283 63.158 0.00 0.00 0.00 4.70
1234 1312 4.819761 GCAGAGGCGATGCGGTCA 62.820 66.667 1.27 0.00 33.31 4.02
1235 1313 2.125552 CAGAGGCGATGCGGTCAA 60.126 61.111 0.00 0.00 0.00 3.18
1237 1315 2.125512 GAGGCGATGCGGTCAACT 60.126 61.111 0.00 0.00 0.00 3.16
1240 1318 2.809601 GCGATGCGGTCAACTCGT 60.810 61.111 0.00 0.00 33.80 4.18
1268 1346 4.500116 GACGAGGCGCTGGTCCTC 62.500 72.222 7.64 3.67 45.12 3.71
1286 1364 2.993008 GTGCAGAGGATCAGGGCA 59.007 61.111 0.00 0.00 37.82 5.36
1287 1365 1.153208 GTGCAGAGGATCAGGGCAG 60.153 63.158 0.00 0.00 39.06 4.85
1289 1367 2.509916 CAGAGGATCAGGGCAGGC 59.490 66.667 0.00 0.00 37.82 4.85
1290 1368 3.160047 AGAGGATCAGGGCAGGCG 61.160 66.667 0.00 0.00 37.82 5.52
1291 1369 4.247380 GAGGATCAGGGCAGGCGG 62.247 72.222 0.00 0.00 33.17 6.13
1292 1370 4.804420 AGGATCAGGGCAGGCGGA 62.804 66.667 0.00 0.00 0.00 5.54
1294 1372 2.203126 GATCAGGGCAGGCGGAAG 60.203 66.667 0.00 0.00 0.00 3.46
1295 1373 3.011517 ATCAGGGCAGGCGGAAGT 61.012 61.111 0.00 0.00 0.00 3.01
1311 1391 3.340789 GTGGAACTTGGTGCGGAC 58.659 61.111 0.00 0.00 0.00 4.79
1317 1397 2.805353 CTTGGTGCGGACGAGTCG 60.805 66.667 11.85 11.85 0.00 4.18
1318 1398 3.553437 CTTGGTGCGGACGAGTCGT 62.553 63.158 20.02 20.02 45.10 4.34
1376 1456 2.330372 CGGGAGGTCTTGACGACGA 61.330 63.158 0.00 0.00 43.79 4.20
1396 1476 0.685458 GGAGCCGGTTCCTGGTAGTA 60.685 60.000 28.61 0.00 34.27 1.82
1402 1482 0.745468 GGTTCCTGGTAGTAGGAGCG 59.255 60.000 0.00 0.00 46.94 5.03
1407 1487 3.603671 GGTAGTAGGAGCGCGGGG 61.604 72.222 8.83 0.00 0.00 5.73
1408 1488 4.281947 GTAGTAGGAGCGCGGGGC 62.282 72.222 8.83 9.26 44.05 5.80
1448 2539 3.660111 GGCGGCGCTTGAACTTGT 61.660 61.111 32.30 0.00 0.00 3.16
1451 2542 2.010817 CGGCGCTTGAACTTGTTGC 61.011 57.895 7.64 0.00 0.00 4.17
1452 2543 1.065600 GGCGCTTGAACTTGTTGCA 59.934 52.632 7.64 0.00 0.00 4.08
1458 2549 1.134753 CTTGAACTTGTTGCAGCCACA 59.865 47.619 0.00 0.00 0.00 4.17
1460 2551 0.740737 GAACTTGTTGCAGCCACAGT 59.259 50.000 0.00 0.00 0.00 3.55
1461 2552 0.457035 AACTTGTTGCAGCCACAGTG 59.543 50.000 0.00 0.00 0.00 3.66
1463 2554 0.956633 CTTGTTGCAGCCACAGTGAT 59.043 50.000 0.62 0.00 0.00 3.06
1466 2557 0.520404 GTTGCAGCCACAGTGATGAG 59.480 55.000 0.62 0.00 0.00 2.90
1468 2559 2.747822 GCAGCCACAGTGATGAGCG 61.748 63.158 0.62 0.00 0.00 5.03
1469 2560 2.104859 CAGCCACAGTGATGAGCGG 61.105 63.158 0.62 0.00 0.00 5.52
1470 2561 2.046892 GCCACAGTGATGAGCGGT 60.047 61.111 0.62 0.00 0.00 5.68
1487 2578 4.776322 TAGGCCGCATGCGCAAGT 62.776 61.111 34.00 19.29 42.61 3.16
1491 2582 2.404789 CCGCATGCGCAAGTAAGG 59.595 61.111 34.00 14.27 38.40 2.69
1517 2608 1.880340 GAGCACCAGATCCGAAGCG 60.880 63.158 0.00 0.00 0.00 4.68
1531 2622 3.962530 AAGCGGGGGAATGGGAGGA 62.963 63.158 0.00 0.00 0.00 3.71
1536 2627 2.444256 GGGGAATGGGAGGAGGTCG 61.444 68.421 0.00 0.00 0.00 4.79
1552 2643 4.847516 CGGATTCGTCGCGGCTCA 62.848 66.667 9.90 0.00 0.00 4.26
1561 2652 2.429907 CGCGGCTCATCGGATCTC 60.430 66.667 0.00 0.00 0.00 2.75
1584 2675 0.875059 GAAGACAGGGCAAAACCGAG 59.125 55.000 0.00 0.00 40.62 4.63
1587 2678 1.228154 ACAGGGCAAAACCGAGGTC 60.228 57.895 0.00 0.00 40.62 3.85
1590 2681 1.598685 GGGCAAAACCGAGGTCGAA 60.599 57.895 0.00 0.00 43.02 3.71
1597 2688 3.441290 CCGAGGTCGAAGAGGCGT 61.441 66.667 0.00 0.00 43.02 5.68
1612 2703 0.739561 GGCGTAGAACCACTCGATCT 59.260 55.000 0.00 0.00 0.00 2.75
1683 2776 1.383963 TGGTACAGAGAGGGAGAGGT 58.616 55.000 0.00 0.00 0.00 3.85
1684 2777 2.570098 TGGTACAGAGAGGGAGAGGTA 58.430 52.381 0.00 0.00 0.00 3.08
1692 2785 3.394606 AGAGAGGGAGAGGTATGAGAGAC 59.605 52.174 0.00 0.00 0.00 3.36
1693 2786 3.127250 AGAGGGAGAGGTATGAGAGACA 58.873 50.000 0.00 0.00 0.00 3.41
1694 2787 3.529734 AGAGGGAGAGGTATGAGAGACAA 59.470 47.826 0.00 0.00 0.00 3.18
1695 2788 3.888930 GAGGGAGAGGTATGAGAGACAAG 59.111 52.174 0.00 0.00 0.00 3.16
1696 2789 2.962421 GGGAGAGGTATGAGAGACAAGG 59.038 54.545 0.00 0.00 0.00 3.61
1697 2790 2.962421 GGAGAGGTATGAGAGACAAGGG 59.038 54.545 0.00 0.00 0.00 3.95
1698 2791 3.373220 GGAGAGGTATGAGAGACAAGGGA 60.373 52.174 0.00 0.00 0.00 4.20
1699 2792 3.888930 GAGAGGTATGAGAGACAAGGGAG 59.111 52.174 0.00 0.00 0.00 4.30
1700 2793 3.529734 AGAGGTATGAGAGACAAGGGAGA 59.470 47.826 0.00 0.00 0.00 3.71
1701 2794 3.888930 GAGGTATGAGAGACAAGGGAGAG 59.111 52.174 0.00 0.00 0.00 3.20
1702 2795 3.529734 AGGTATGAGAGACAAGGGAGAGA 59.470 47.826 0.00 0.00 0.00 3.10
1703 2796 4.169856 AGGTATGAGAGACAAGGGAGAGAT 59.830 45.833 0.00 0.00 0.00 2.75
1704 2797 5.374154 AGGTATGAGAGACAAGGGAGAGATA 59.626 44.000 0.00 0.00 0.00 1.98
1705 2798 5.710099 GGTATGAGAGACAAGGGAGAGATAG 59.290 48.000 0.00 0.00 0.00 2.08
1706 2799 5.661503 ATGAGAGACAAGGGAGAGATAGA 57.338 43.478 0.00 0.00 0.00 1.98
1707 2800 5.047566 TGAGAGACAAGGGAGAGATAGAG 57.952 47.826 0.00 0.00 0.00 2.43
1708 2801 4.724293 TGAGAGACAAGGGAGAGATAGAGA 59.276 45.833 0.00 0.00 0.00 3.10
1709 2802 5.163205 TGAGAGACAAGGGAGAGATAGAGAG 60.163 48.000 0.00 0.00 0.00 3.20
1710 2803 4.104738 AGAGACAAGGGAGAGATAGAGAGG 59.895 50.000 0.00 0.00 0.00 3.69
1711 2804 3.140144 AGACAAGGGAGAGATAGAGAGGG 59.860 52.174 0.00 0.00 0.00 4.30
1712 2805 3.135279 ACAAGGGAGAGATAGAGAGGGA 58.865 50.000 0.00 0.00 0.00 4.20
1713 2806 3.140144 ACAAGGGAGAGATAGAGAGGGAG 59.860 52.174 0.00 0.00 0.00 4.30
1714 2807 2.358258 AGGGAGAGATAGAGAGGGAGG 58.642 57.143 0.00 0.00 0.00 4.30
1715 2808 2.089059 AGGGAGAGATAGAGAGGGAGGA 60.089 54.545 0.00 0.00 0.00 3.71
1716 2809 2.308866 GGGAGAGATAGAGAGGGAGGAG 59.691 59.091 0.00 0.00 0.00 3.69
1717 2810 2.308866 GGAGAGATAGAGAGGGAGGAGG 59.691 59.091 0.00 0.00 0.00 4.30
1718 2811 2.308866 GAGAGATAGAGAGGGAGGAGGG 59.691 59.091 0.00 0.00 0.00 4.30
1719 2812 2.089059 AGAGATAGAGAGGGAGGAGGGA 60.089 54.545 0.00 0.00 0.00 4.20
1720 2813 2.041216 GAGATAGAGAGGGAGGAGGGAC 59.959 59.091 0.00 0.00 0.00 4.46
1721 2814 0.774908 ATAGAGAGGGAGGAGGGACG 59.225 60.000 0.00 0.00 0.00 4.79
1722 2815 1.354168 TAGAGAGGGAGGAGGGACGG 61.354 65.000 0.00 0.00 0.00 4.79
1723 2816 2.617538 AGAGGGAGGAGGGACGGA 60.618 66.667 0.00 0.00 0.00 4.69
1724 2817 2.123640 GAGGGAGGAGGGACGGAG 60.124 72.222 0.00 0.00 0.00 4.63
1725 2818 3.742248 GAGGGAGGAGGGACGGAGG 62.742 73.684 0.00 0.00 0.00 4.30
1726 2819 3.752167 GGGAGGAGGGACGGAGGA 61.752 72.222 0.00 0.00 0.00 3.71
1727 2820 2.123640 GGAGGAGGGACGGAGGAG 60.124 72.222 0.00 0.00 0.00 3.69
1728 2821 2.691779 GGAGGAGGGACGGAGGAGA 61.692 68.421 0.00 0.00 0.00 3.71
1729 2822 1.306970 GAGGAGGGACGGAGGAGAA 59.693 63.158 0.00 0.00 0.00 2.87
1730 2823 0.753848 GAGGAGGGACGGAGGAGAAG 60.754 65.000 0.00 0.00 0.00 2.85
1731 2824 1.215679 AGGAGGGACGGAGGAGAAGA 61.216 60.000 0.00 0.00 0.00 2.87
1732 2825 0.324460 GGAGGGACGGAGGAGAAGAA 60.324 60.000 0.00 0.00 0.00 2.52
1733 2826 1.107945 GAGGGACGGAGGAGAAGAAG 58.892 60.000 0.00 0.00 0.00 2.85
1734 2827 0.705253 AGGGACGGAGGAGAAGAAGA 59.295 55.000 0.00 0.00 0.00 2.87
1735 2828 1.107945 GGGACGGAGGAGAAGAAGAG 58.892 60.000 0.00 0.00 0.00 2.85
1736 2829 1.107945 GGACGGAGGAGAAGAAGAGG 58.892 60.000 0.00 0.00 0.00 3.69
1737 2830 1.107945 GACGGAGGAGAAGAAGAGGG 58.892 60.000 0.00 0.00 0.00 4.30
1738 2831 0.324830 ACGGAGGAGAAGAAGAGGGG 60.325 60.000 0.00 0.00 0.00 4.79
1739 2832 1.045911 CGGAGGAGAAGAAGAGGGGG 61.046 65.000 0.00 0.00 0.00 5.40
1740 2833 0.340208 GGAGGAGAAGAAGAGGGGGA 59.660 60.000 0.00 0.00 0.00 4.81
1741 2834 1.691163 GGAGGAGAAGAAGAGGGGGAG 60.691 61.905 0.00 0.00 0.00 4.30
1742 2835 0.341609 AGGAGAAGAAGAGGGGGAGG 59.658 60.000 0.00 0.00 0.00 4.30
1743 2836 0.340208 GGAGAAGAAGAGGGGGAGGA 59.660 60.000 0.00 0.00 0.00 3.71
1744 2837 1.691163 GGAGAAGAAGAGGGGGAGGAG 60.691 61.905 0.00 0.00 0.00 3.69
1745 2838 0.326143 AGAAGAAGAGGGGGAGGAGC 60.326 60.000 0.00 0.00 0.00 4.70
1746 2839 1.681486 GAAGAAGAGGGGGAGGAGCG 61.681 65.000 0.00 0.00 0.00 5.03
1747 2840 2.042843 GAAGAGGGGGAGGAGCGA 60.043 66.667 0.00 0.00 0.00 4.93
1748 2841 1.458588 GAAGAGGGGGAGGAGCGAT 60.459 63.158 0.00 0.00 0.00 4.58
1749 2842 1.753368 GAAGAGGGGGAGGAGCGATG 61.753 65.000 0.00 0.00 0.00 3.84
1750 2843 3.237741 GAGGGGGAGGAGCGATGG 61.238 72.222 0.00 0.00 0.00 3.51
1751 2844 4.888325 AGGGGGAGGAGCGATGGG 62.888 72.222 0.00 0.00 0.00 4.00
1753 2846 3.551407 GGGGAGGAGCGATGGGTC 61.551 72.222 0.00 0.00 39.95 4.46
1759 2852 4.899239 GAGCGATGGGTCCTGGCG 62.899 72.222 0.00 0.00 34.60 5.69
1762 2855 4.838152 CGATGGGTCCTGGCGGTG 62.838 72.222 0.00 0.00 0.00 4.94
1801 2894 2.107953 GAGCTGCTCGTGATCCCC 59.892 66.667 14.68 0.00 0.00 4.81
1802 2895 2.364842 AGCTGCTCGTGATCCCCT 60.365 61.111 0.00 0.00 0.00 4.79
1803 2896 2.107953 GCTGCTCGTGATCCCCTC 59.892 66.667 0.00 0.00 0.00 4.30
1804 2897 2.415010 CTGCTCGTGATCCCCTCG 59.585 66.667 0.00 0.00 0.00 4.63
1805 2898 3.144120 CTGCTCGTGATCCCCTCGG 62.144 68.421 0.00 0.00 33.07 4.63
1806 2899 3.917760 GCTCGTGATCCCCTCGGG 61.918 72.222 0.00 0.00 46.11 5.14
1819 2912 2.595655 TCGGGATCGAGCAGAGGA 59.404 61.111 1.84 0.00 40.88 3.71
1820 2913 1.527148 TCGGGATCGAGCAGAGGAG 60.527 63.158 1.84 0.00 40.88 3.69
1821 2914 2.560119 CGGGATCGAGCAGAGGAGG 61.560 68.421 1.84 0.00 39.00 4.30
1822 2915 1.152652 GGGATCGAGCAGAGGAGGA 60.153 63.158 1.84 0.00 0.00 3.71
1823 2916 1.178534 GGGATCGAGCAGAGGAGGAG 61.179 65.000 1.84 0.00 0.00 3.69
1824 2917 1.659794 GATCGAGCAGAGGAGGAGC 59.340 63.158 0.00 0.00 0.00 4.70
1825 2918 1.076412 ATCGAGCAGAGGAGGAGCA 60.076 57.895 0.00 0.00 0.00 4.26
1826 2919 1.108727 ATCGAGCAGAGGAGGAGCAG 61.109 60.000 0.00 0.00 0.00 4.24
1827 2920 2.784356 CGAGCAGAGGAGGAGCAGG 61.784 68.421 0.00 0.00 0.00 4.85
1828 2921 1.685421 GAGCAGAGGAGGAGCAGGT 60.685 63.158 0.00 0.00 0.00 4.00
1829 2922 1.229464 AGCAGAGGAGGAGCAGGTT 60.229 57.895 0.00 0.00 0.00 3.50
1830 2923 1.220477 GCAGAGGAGGAGCAGGTTC 59.780 63.158 0.00 0.00 0.00 3.62
1831 2924 1.515020 CAGAGGAGGAGCAGGTTCG 59.485 63.158 0.00 0.00 0.00 3.95
1832 2925 1.077625 AGAGGAGGAGCAGGTTCGT 59.922 57.895 0.00 0.00 0.00 3.85
1833 2926 1.216710 GAGGAGGAGCAGGTTCGTG 59.783 63.158 0.00 0.00 0.00 4.35
1834 2927 2.435059 GGAGGAGCAGGTTCGTGC 60.435 66.667 9.08 9.08 44.35 5.34
1851 2944 2.512515 CGTGAGCTGCTAAGGGGC 60.513 66.667 0.15 0.00 0.00 5.80
1893 2990 0.670854 GAAACAGAGGAGGTGGCGAC 60.671 60.000 0.00 0.00 0.00 5.19
2045 3145 4.430007 TCAAAATCGGACGATCGAGAAAT 58.570 39.130 24.34 7.04 42.69 2.17
2048 3148 6.532302 TCAAAATCGGACGATCGAGAAATAAA 59.468 34.615 24.34 0.00 42.69 1.40
2054 3155 6.427853 TCGGACGATCGAGAAATAAATAGGTA 59.572 38.462 24.34 0.00 34.82 3.08
2059 3160 7.094291 ACGATCGAGAAATAAATAGGTAGGGAG 60.094 40.741 24.34 0.00 0.00 4.30
2060 3161 7.120873 CGATCGAGAAATAAATAGGTAGGGAGA 59.879 40.741 10.26 0.00 0.00 3.71
2061 3162 7.762588 TCGAGAAATAAATAGGTAGGGAGAG 57.237 40.000 0.00 0.00 0.00 3.20
2064 3165 7.309316 CGAGAAATAAATAGGTAGGGAGAGTCC 60.309 44.444 0.00 0.00 35.23 3.85
2067 3168 8.401955 AAATAAATAGGTAGGGAGAGTCCAAA 57.598 34.615 0.00 0.00 38.64 3.28
2068 3169 8.582891 AATAAATAGGTAGGGAGAGTCCAAAT 57.417 34.615 0.00 0.00 38.64 2.32
2070 3171 9.684702 ATAAATAGGTAGGGAGAGTCCAAATAA 57.315 33.333 0.00 0.00 38.64 1.40
2111 3212 3.490348 GATGTTTGGGGATGATTCGGAT 58.510 45.455 0.00 0.00 0.00 4.18
2115 3216 1.746157 TGGGGATGATTCGGATCCAT 58.254 50.000 13.41 0.00 41.23 3.41
2120 3221 2.496070 GGATGATTCGGATCCATCGGTA 59.504 50.000 13.41 0.00 39.49 4.02
2244 3345 2.965147 CTGAGAAGAGAGGGGAGGAATC 59.035 54.545 0.00 0.00 0.00 2.52
2257 3358 2.348104 GGAATCCAACCCGGCAACC 61.348 63.158 0.00 0.00 33.14 3.77
2297 3399 1.573436 CCGACGATAGACCGGCTAC 59.427 63.158 0.00 0.00 44.93 3.58
2334 3437 0.893270 TCTGTTGGGGCATCAAACGG 60.893 55.000 0.00 0.39 0.00 4.44
2350 3453 4.033894 GGACTCCGAATGCGATGG 57.966 61.111 0.00 0.00 40.82 3.51
2353 3456 1.541233 GGACTCCGAATGCGATGGAAT 60.541 52.381 0.00 0.00 40.82 3.01
2364 3467 1.086696 CGATGGAATTTGACAGGCGT 58.913 50.000 0.00 0.00 0.00 5.68
2392 3495 6.947644 TCTACACTATAATAAGACCGCACA 57.052 37.500 0.00 0.00 0.00 4.57
2412 3515 2.965147 CACCAACTTTCAACCCATTCCT 59.035 45.455 0.00 0.00 0.00 3.36
2426 3529 4.018779 ACCCATTCCTAGAACATTTTCCGA 60.019 41.667 0.00 0.00 31.28 4.55
2481 3585 2.180204 GCGTGCAAGTGTGTCTGGT 61.180 57.895 0.59 0.00 0.00 4.00
2484 3588 1.668419 GTGCAAGTGTGTCTGGTCTT 58.332 50.000 0.00 0.00 0.00 3.01
2508 3612 1.860676 CGGACAACGGAAAGAACTGA 58.139 50.000 0.00 0.00 39.42 3.41
2533 3638 1.000717 CCCGGACGAATGCAAGTTTTT 60.001 47.619 0.73 0.00 0.00 1.94
2561 3666 4.664150 TGATGATGCAATGCACATGATT 57.336 36.364 21.47 2.56 43.04 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
96 103 8.432805 TCTTCTTTATGGACTTGTTCTTCTTCT 58.567 33.333 0.00 0.00 0.00 2.85
115 122 4.047142 GACTACGTCCGTTTGTCTTCTTT 58.953 43.478 14.16 0.00 32.13 2.52
162 169 0.598158 TCGCGTTAGCTTCGGTTTGT 60.598 50.000 5.77 0.00 42.32 2.83
163 170 0.093026 CTCGCGTTAGCTTCGGTTTG 59.907 55.000 5.77 0.00 42.32 2.93
244 256 4.142315 GGACATGCATCATACTTGTTTGCT 60.142 41.667 0.00 0.00 35.50 3.91
278 291 0.320946 GCACTTTGCCATGCCATGTT 60.321 50.000 3.63 0.00 37.42 2.71
279 296 1.294138 GCACTTTGCCATGCCATGT 59.706 52.632 3.63 0.00 37.42 3.21
319 341 4.503910 AGTCGTTGCATATTGAGCTACAA 58.496 39.130 0.00 0.00 42.95 2.41
357 379 6.711277 AGAGAACTAAATAAGTCATGTGGCA 58.289 36.000 0.00 0.00 37.50 4.92
383 407 5.993748 AACCTTGTTGGGTACATAAATGG 57.006 39.130 0.00 0.00 38.87 3.16
385 409 9.095700 ACATTTAACCTTGTTGGGTACATAAAT 57.904 29.630 0.00 0.00 37.82 1.40
437 461 8.422566 ACTTGCCTAGATAGGTAGTTTTATCAC 58.577 37.037 7.71 0.00 45.42 3.06
525 552 0.846693 AGGGAAGAACAGTGCCAACT 59.153 50.000 0.00 0.00 36.98 3.16
526 553 2.561478 TAGGGAAGAACAGTGCCAAC 57.439 50.000 0.00 0.00 0.00 3.77
531 558 7.703058 AAATATGGTTTAGGGAAGAACAGTG 57.297 36.000 0.00 0.00 0.00 3.66
567 594 2.230992 TGGTGGCATTACTTTGCATGTC 59.769 45.455 0.00 0.00 44.59 3.06
702 734 9.205719 TCATCCATGTTTAAAATGATGTTTGTG 57.794 29.630 0.00 4.34 0.00 3.33
710 752 7.930325 TGCAACTTTCATCCATGTTTAAAATGA 59.070 29.630 0.00 4.38 0.00 2.57
824 876 7.010091 CAGTTTTGTAGAAAAACCCATGTTGAC 59.990 37.037 9.45 0.00 40.10 3.18
831 884 5.669164 AAGCAGTTTTGTAGAAAAACCCA 57.331 34.783 9.45 0.00 40.10 4.51
879 942 3.547746 GCCATATCGTTTTTCCCCTACA 58.452 45.455 0.00 0.00 0.00 2.74
886 952 0.736053 TGCGGGCCATATCGTTTTTC 59.264 50.000 4.39 0.00 0.00 2.29
990 1066 1.559682 GTCAACTCCATCCTTGGGCTA 59.440 52.381 0.00 0.00 43.81 3.93
991 1067 0.329596 GTCAACTCCATCCTTGGGCT 59.670 55.000 0.00 0.00 43.81 5.19
997 1073 1.265454 GGACCGGTCAACTCCATCCT 61.265 60.000 34.40 0.00 32.65 3.24
1045 1122 2.031012 CAACCGCTGCCTGACTCA 59.969 61.111 0.00 0.00 0.00 3.41
1099 1177 0.944311 ACCACAAGTTCTACGCTGCG 60.944 55.000 21.91 21.91 0.00 5.18
1128 1206 1.071471 CGAAGTCTGCCAACACCCT 59.929 57.895 0.00 0.00 0.00 4.34
1132 1210 2.664851 CGCCGAAGTCTGCCAACA 60.665 61.111 0.00 0.00 0.00 3.33
1194 1272 2.046892 CCTCAACACCCGCTGGAG 60.047 66.667 0.00 0.00 34.81 3.86
1204 1282 1.285950 CTCTGCGTCGTCCTCAACA 59.714 57.895 0.00 0.00 0.00 3.33
1205 1283 1.444553 CCTCTGCGTCGTCCTCAAC 60.445 63.158 0.00 0.00 0.00 3.18
1224 1302 1.733041 ACACGAGTTGACCGCATCG 60.733 57.895 0.00 0.00 40.86 3.84
1268 1346 2.202987 GCCCTGATCCTCTGCACG 60.203 66.667 0.00 0.00 0.00 5.34
1279 1357 4.020617 CACTTCCGCCTGCCCTGA 62.021 66.667 0.00 0.00 0.00 3.86
1286 1364 1.073199 CCAAGTTCCACTTCCGCCT 59.927 57.895 0.00 0.00 36.03 5.52
1287 1365 1.228154 ACCAAGTTCCACTTCCGCC 60.228 57.895 0.00 0.00 36.03 6.13
1289 1367 1.841663 CGCACCAAGTTCCACTTCCG 61.842 60.000 0.00 0.00 36.03 4.30
1290 1368 1.515521 CCGCACCAAGTTCCACTTCC 61.516 60.000 0.00 0.00 36.03 3.46
1291 1369 0.534203 TCCGCACCAAGTTCCACTTC 60.534 55.000 0.00 0.00 36.03 3.01
1292 1370 0.818040 GTCCGCACCAAGTTCCACTT 60.818 55.000 0.00 0.00 39.39 3.16
1294 1372 2.604174 CGTCCGCACCAAGTTCCAC 61.604 63.158 0.00 0.00 0.00 4.02
1295 1373 2.280524 CGTCCGCACCAAGTTCCA 60.281 61.111 0.00 0.00 0.00 3.53
1307 1387 3.054503 AGTCCCACGACTCGTCCG 61.055 66.667 0.00 0.00 46.90 4.79
1341 1421 4.570663 GGATCCGTCCGTCTGCCG 62.571 72.222 0.00 0.00 34.13 5.69
1357 1437 2.572284 GTCGTCAAGACCTCCCGG 59.428 66.667 0.00 0.00 43.95 5.73
1371 1451 4.493747 GGAACCGGCTCCTCGTCG 62.494 72.222 17.02 0.00 41.29 5.12
1389 1469 2.831742 CCCGCGCTCCTACTACCA 60.832 66.667 5.56 0.00 0.00 3.25
1407 1487 1.154150 GTGCTGTTCATTGAGCCGC 60.154 57.895 9.43 9.43 34.04 6.53
1408 1488 1.503542 GGTGCTGTTCATTGAGCCG 59.496 57.895 0.00 0.00 34.04 5.52
1411 1491 0.606401 ACCCGGTGCTGTTCATTGAG 60.606 55.000 0.00 0.00 0.00 3.02
1414 2505 1.603455 CCACCCGGTGCTGTTCATT 60.603 57.895 12.54 0.00 31.34 2.57
1438 2529 1.134753 TGTGGCTGCAACAAGTTCAAG 59.865 47.619 7.55 0.00 0.00 3.02
1439 2530 1.134753 CTGTGGCTGCAACAAGTTCAA 59.865 47.619 11.60 0.00 0.00 2.69
1448 2539 1.239296 GCTCATCACTGTGGCTGCAA 61.239 55.000 8.11 0.00 0.00 4.08
1451 2542 2.104859 CCGCTCATCACTGTGGCTG 61.105 63.158 8.11 6.46 0.00 4.85
1452 2543 1.257750 TACCGCTCATCACTGTGGCT 61.258 55.000 8.11 0.00 37.35 4.75
1458 2549 3.221222 GGCCTACCGCTCATCACT 58.779 61.111 0.00 0.00 37.74 3.41
1479 2570 0.602638 CACACCTCCTTACTTGCGCA 60.603 55.000 5.66 5.66 0.00 6.09
1512 2603 2.193248 CTCCCATTCCCCCGCTTC 59.807 66.667 0.00 0.00 0.00 3.86
1517 2608 2.044620 ACCTCCTCCCATTCCCCC 59.955 66.667 0.00 0.00 0.00 5.40
1524 2615 1.756950 CGAATCCGACCTCCTCCCA 60.757 63.158 0.00 0.00 38.22 4.37
1531 2622 4.189188 CCGCGACGAATCCGACCT 62.189 66.667 8.23 0.00 39.50 3.85
1536 2627 2.279517 ATGAGCCGCGACGAATCC 60.280 61.111 8.23 0.00 0.00 3.01
1566 2657 0.537371 CCTCGGTTTTGCCCTGTCTT 60.537 55.000 0.00 0.00 0.00 3.01
1571 2662 2.032071 CGACCTCGGTTTTGCCCT 59.968 61.111 0.00 0.00 35.37 5.19
1576 2667 0.320508 GCCTCTTCGACCTCGGTTTT 60.321 55.000 0.00 0.00 40.29 2.43
1584 2675 0.179142 GGTTCTACGCCTCTTCGACC 60.179 60.000 0.00 0.00 0.00 4.79
1587 2678 0.526662 AGTGGTTCTACGCCTCTTCG 59.473 55.000 0.00 0.00 0.00 3.79
1590 2681 0.322277 TCGAGTGGTTCTACGCCTCT 60.322 55.000 0.00 0.00 33.11 3.69
1597 2688 2.100197 CCACCAGATCGAGTGGTTCTA 58.900 52.381 22.35 0.00 46.73 2.10
1612 2703 3.240134 GAAGCTCGCCTCACCACCA 62.240 63.158 0.00 0.00 0.00 4.17
1618 2709 4.116328 CCGACGAAGCTCGCCTCA 62.116 66.667 0.00 0.00 45.12 3.86
1638 2729 1.616921 CCAAGACCCTGCCATGGAT 59.383 57.895 18.40 0.00 32.82 3.41
1671 2762 3.137544 TGTCTCTCATACCTCTCCCTCTC 59.862 52.174 0.00 0.00 0.00 3.20
1674 2767 3.373658 CCTTGTCTCTCATACCTCTCCCT 60.374 52.174 0.00 0.00 0.00 4.20
1676 2769 2.962421 CCCTTGTCTCTCATACCTCTCC 59.038 54.545 0.00 0.00 0.00 3.71
1682 2775 6.539173 TCTATCTCTCCCTTGTCTCTCATAC 58.461 44.000 0.00 0.00 0.00 2.39
1683 2776 6.560687 TCTCTATCTCTCCCTTGTCTCTCATA 59.439 42.308 0.00 0.00 0.00 2.15
1684 2777 5.372363 TCTCTATCTCTCCCTTGTCTCTCAT 59.628 44.000 0.00 0.00 0.00 2.90
1692 2785 3.500289 CCTCCCTCTCTATCTCTCCCTTG 60.500 56.522 0.00 0.00 0.00 3.61
1693 2786 2.721906 CCTCCCTCTCTATCTCTCCCTT 59.278 54.545 0.00 0.00 0.00 3.95
1694 2787 2.089059 TCCTCCCTCTCTATCTCTCCCT 60.089 54.545 0.00 0.00 0.00 4.20
1695 2788 2.308866 CTCCTCCCTCTCTATCTCTCCC 59.691 59.091 0.00 0.00 0.00 4.30
1696 2789 2.308866 CCTCCTCCCTCTCTATCTCTCC 59.691 59.091 0.00 0.00 0.00 3.71
1697 2790 2.308866 CCCTCCTCCCTCTCTATCTCTC 59.691 59.091 0.00 0.00 0.00 3.20
1698 2791 2.089059 TCCCTCCTCCCTCTCTATCTCT 60.089 54.545 0.00 0.00 0.00 3.10
1699 2792 2.041216 GTCCCTCCTCCCTCTCTATCTC 59.959 59.091 0.00 0.00 0.00 2.75
1700 2793 2.070573 GTCCCTCCTCCCTCTCTATCT 58.929 57.143 0.00 0.00 0.00 1.98
1701 2794 1.271707 CGTCCCTCCTCCCTCTCTATC 60.272 61.905 0.00 0.00 0.00 2.08
1702 2795 0.774908 CGTCCCTCCTCCCTCTCTAT 59.225 60.000 0.00 0.00 0.00 1.98
1703 2796 1.354168 CCGTCCCTCCTCCCTCTCTA 61.354 65.000 0.00 0.00 0.00 2.43
1704 2797 2.695970 CCGTCCCTCCTCCCTCTCT 61.696 68.421 0.00 0.00 0.00 3.10
1705 2798 2.123640 CCGTCCCTCCTCCCTCTC 60.124 72.222 0.00 0.00 0.00 3.20
1706 2799 2.617538 TCCGTCCCTCCTCCCTCT 60.618 66.667 0.00 0.00 0.00 3.69
1707 2800 2.123640 CTCCGTCCCTCCTCCCTC 60.124 72.222 0.00 0.00 0.00 4.30
1708 2801 3.756783 CCTCCGTCCCTCCTCCCT 61.757 72.222 0.00 0.00 0.00 4.20
1709 2802 3.742248 CTCCTCCGTCCCTCCTCCC 62.742 73.684 0.00 0.00 0.00 4.30
1710 2803 2.123640 CTCCTCCGTCCCTCCTCC 60.124 72.222 0.00 0.00 0.00 4.30
1711 2804 0.753848 CTTCTCCTCCGTCCCTCCTC 60.754 65.000 0.00 0.00 0.00 3.71
1712 2805 1.215679 TCTTCTCCTCCGTCCCTCCT 61.216 60.000 0.00 0.00 0.00 3.69
1713 2806 0.324460 TTCTTCTCCTCCGTCCCTCC 60.324 60.000 0.00 0.00 0.00 4.30
1714 2807 1.107945 CTTCTTCTCCTCCGTCCCTC 58.892 60.000 0.00 0.00 0.00 4.30
1715 2808 0.705253 TCTTCTTCTCCTCCGTCCCT 59.295 55.000 0.00 0.00 0.00 4.20
1716 2809 1.107945 CTCTTCTTCTCCTCCGTCCC 58.892 60.000 0.00 0.00 0.00 4.46
1717 2810 1.107945 CCTCTTCTTCTCCTCCGTCC 58.892 60.000 0.00 0.00 0.00 4.79
1718 2811 1.107945 CCCTCTTCTTCTCCTCCGTC 58.892 60.000 0.00 0.00 0.00 4.79
1719 2812 0.324830 CCCCTCTTCTTCTCCTCCGT 60.325 60.000 0.00 0.00 0.00 4.69
1720 2813 1.045911 CCCCCTCTTCTTCTCCTCCG 61.046 65.000 0.00 0.00 0.00 4.63
1721 2814 0.340208 TCCCCCTCTTCTTCTCCTCC 59.660 60.000 0.00 0.00 0.00 4.30
1722 2815 1.691163 CCTCCCCCTCTTCTTCTCCTC 60.691 61.905 0.00 0.00 0.00 3.71
1723 2816 0.341609 CCTCCCCCTCTTCTTCTCCT 59.658 60.000 0.00 0.00 0.00 3.69
1724 2817 0.340208 TCCTCCCCCTCTTCTTCTCC 59.660 60.000 0.00 0.00 0.00 3.71
1725 2818 1.788229 CTCCTCCCCCTCTTCTTCTC 58.212 60.000 0.00 0.00 0.00 2.87
1726 2819 0.326143 GCTCCTCCCCCTCTTCTTCT 60.326 60.000 0.00 0.00 0.00 2.85
1727 2820 1.681486 CGCTCCTCCCCCTCTTCTTC 61.681 65.000 0.00 0.00 0.00 2.87
1728 2821 1.687493 CGCTCCTCCCCCTCTTCTT 60.687 63.158 0.00 0.00 0.00 2.52
1729 2822 1.955458 ATCGCTCCTCCCCCTCTTCT 61.955 60.000 0.00 0.00 0.00 2.85
1730 2823 1.458588 ATCGCTCCTCCCCCTCTTC 60.459 63.158 0.00 0.00 0.00 2.87
1731 2824 1.764054 CATCGCTCCTCCCCCTCTT 60.764 63.158 0.00 0.00 0.00 2.85
1732 2825 2.123077 CATCGCTCCTCCCCCTCT 60.123 66.667 0.00 0.00 0.00 3.69
1733 2826 3.237741 CCATCGCTCCTCCCCCTC 61.238 72.222 0.00 0.00 0.00 4.30
1734 2827 4.888325 CCCATCGCTCCTCCCCCT 62.888 72.222 0.00 0.00 0.00 4.79
1736 2829 3.551407 GACCCATCGCTCCTCCCC 61.551 72.222 0.00 0.00 0.00 4.81
1737 2830 3.551407 GGACCCATCGCTCCTCCC 61.551 72.222 0.00 0.00 0.00 4.30
1738 2831 2.444895 AGGACCCATCGCTCCTCC 60.445 66.667 0.00 0.00 30.37 4.30
1739 2832 2.801631 CCAGGACCCATCGCTCCTC 61.802 68.421 0.00 0.00 34.40 3.71
1740 2833 2.765807 CCAGGACCCATCGCTCCT 60.766 66.667 0.00 0.00 37.38 3.69
1741 2834 4.554036 GCCAGGACCCATCGCTCC 62.554 72.222 0.00 0.00 0.00 4.70
1742 2835 4.899239 CGCCAGGACCCATCGCTC 62.899 72.222 0.00 0.00 0.00 5.03
1745 2838 4.838152 CACCGCCAGGACCCATCG 62.838 72.222 0.00 0.00 41.02 3.84
1784 2877 2.107953 GGGGATCACGAGCAGCTC 59.892 66.667 12.94 12.94 0.00 4.09
1785 2878 2.364842 AGGGGATCACGAGCAGCT 60.365 61.111 0.00 0.00 0.00 4.24
1786 2879 2.107953 GAGGGGATCACGAGCAGC 59.892 66.667 0.00 0.00 0.00 5.25
1787 2880 2.415010 CGAGGGGATCACGAGCAG 59.585 66.667 0.00 0.00 0.00 4.24
1788 2881 3.147595 CCGAGGGGATCACGAGCA 61.148 66.667 0.00 0.00 34.06 4.26
1802 2895 1.527148 CTCCTCTGCTCGATCCCGA 60.527 63.158 0.00 0.00 43.35 5.14
1803 2896 2.560119 CCTCCTCTGCTCGATCCCG 61.560 68.421 0.00 0.00 37.07 5.14
1804 2897 1.152652 TCCTCCTCTGCTCGATCCC 60.153 63.158 0.00 0.00 0.00 3.85
1805 2898 1.805428 GCTCCTCCTCTGCTCGATCC 61.805 65.000 0.00 0.00 0.00 3.36
1806 2899 1.106351 TGCTCCTCCTCTGCTCGATC 61.106 60.000 0.00 0.00 0.00 3.69
1807 2900 1.076412 TGCTCCTCCTCTGCTCGAT 60.076 57.895 0.00 0.00 0.00 3.59
1808 2901 1.752310 CTGCTCCTCCTCTGCTCGA 60.752 63.158 0.00 0.00 0.00 4.04
1809 2902 2.784356 CCTGCTCCTCCTCTGCTCG 61.784 68.421 0.00 0.00 0.00 5.03
1810 2903 1.264045 AACCTGCTCCTCCTCTGCTC 61.264 60.000 0.00 0.00 0.00 4.26
1811 2904 1.229464 AACCTGCTCCTCCTCTGCT 60.229 57.895 0.00 0.00 0.00 4.24
1812 2905 1.220477 GAACCTGCTCCTCCTCTGC 59.780 63.158 0.00 0.00 0.00 4.26
1813 2906 1.254284 ACGAACCTGCTCCTCCTCTG 61.254 60.000 0.00 0.00 0.00 3.35
1814 2907 1.077625 ACGAACCTGCTCCTCCTCT 59.922 57.895 0.00 0.00 0.00 3.69
1815 2908 1.216710 CACGAACCTGCTCCTCCTC 59.783 63.158 0.00 0.00 0.00 3.71
1816 2909 2.948720 GCACGAACCTGCTCCTCCT 61.949 63.158 0.00 0.00 34.06 3.69
1817 2910 2.435059 GCACGAACCTGCTCCTCC 60.435 66.667 0.00 0.00 34.06 4.30
1818 2911 2.811317 CGCACGAACCTGCTCCTC 60.811 66.667 0.00 0.00 34.77 3.71
1819 2912 3.616721 ACGCACGAACCTGCTCCT 61.617 61.111 0.00 0.00 34.77 3.69
1820 2913 3.414700 CACGCACGAACCTGCTCC 61.415 66.667 0.00 0.00 34.77 4.70
1821 2914 2.355837 TCACGCACGAACCTGCTC 60.356 61.111 0.00 0.00 34.77 4.26
1822 2915 2.356313 CTCACGCACGAACCTGCT 60.356 61.111 0.00 0.00 34.77 4.24
1823 2916 4.077188 GCTCACGCACGAACCTGC 62.077 66.667 0.00 0.00 35.78 4.85
1824 2917 2.356313 AGCTCACGCACGAACCTG 60.356 61.111 0.00 0.00 39.10 4.00
1825 2918 2.356313 CAGCTCACGCACGAACCT 60.356 61.111 0.00 0.00 39.10 3.50
1826 2919 4.077188 GCAGCTCACGCACGAACC 62.077 66.667 0.00 0.00 39.10 3.62
1827 2920 1.282248 TTAGCAGCTCACGCACGAAC 61.282 55.000 0.00 0.00 39.10 3.95
1828 2921 1.006688 TTAGCAGCTCACGCACGAA 60.007 52.632 0.00 0.00 39.10 3.85
1829 2922 1.444383 CTTAGCAGCTCACGCACGA 60.444 57.895 0.00 0.00 39.10 4.35
1830 2923 2.447887 CCTTAGCAGCTCACGCACG 61.448 63.158 0.00 0.00 39.10 5.34
1831 2924 2.103042 CCCTTAGCAGCTCACGCAC 61.103 63.158 0.00 0.00 39.10 5.34
1832 2925 2.265739 CCCTTAGCAGCTCACGCA 59.734 61.111 0.00 0.00 39.10 5.24
1833 2926 2.512515 CCCCTTAGCAGCTCACGC 60.513 66.667 0.00 0.00 0.00 5.34
1834 2927 2.512515 GCCCCTTAGCAGCTCACG 60.513 66.667 0.00 0.00 0.00 4.35
1835 2928 2.512515 CGCCCCTTAGCAGCTCAC 60.513 66.667 0.00 0.00 0.00 3.51
1836 2929 4.473520 GCGCCCCTTAGCAGCTCA 62.474 66.667 0.00 0.00 32.19 4.26
1837 2930 4.168291 AGCGCCCCTTAGCAGCTC 62.168 66.667 2.29 0.00 37.86 4.09
1838 2931 4.479993 CAGCGCCCCTTAGCAGCT 62.480 66.667 2.29 0.00 41.17 4.24
1850 2943 2.822255 TAACCAATCCCGCAGCGC 60.822 61.111 10.07 0.00 0.00 5.92
1851 2944 2.180204 CCTAACCAATCCCGCAGCG 61.180 63.158 8.18 8.18 0.00 5.18
1866 2959 1.902508 CCTCCTCTGTTTCTGTGCCTA 59.097 52.381 0.00 0.00 0.00 3.93
1907 3004 1.226974 CGCCACTACACTCCATCCG 60.227 63.158 0.00 0.00 0.00 4.18
1948 3046 7.803131 AGTCTATTTTGGACCTAACCCTATTC 58.197 38.462 0.00 0.00 34.56 1.75
2036 3136 7.951245 ACTCTCCCTACCTATTTATTTCTCGAT 59.049 37.037 0.00 0.00 0.00 3.59
2045 3145 9.510062 TTTATTTGGACTCTCCCTACCTATTTA 57.490 33.333 0.00 0.00 35.03 1.40
2048 3148 8.401955 TTTTTATTTGGACTCTCCCTACCTAT 57.598 34.615 0.00 0.00 35.03 2.57
2075 3176 6.412024 CCCCAAACATCCCTAAAATATCTCCT 60.412 42.308 0.00 0.00 0.00 3.69
2087 3188 2.423373 CGAATCATCCCCAAACATCCCT 60.423 50.000 0.00 0.00 0.00 4.20
2088 3189 1.956477 CGAATCATCCCCAAACATCCC 59.044 52.381 0.00 0.00 0.00 3.85
2089 3190 1.956477 CCGAATCATCCCCAAACATCC 59.044 52.381 0.00 0.00 0.00 3.51
2111 3212 0.247185 GGGTTGTCGTTACCGATGGA 59.753 55.000 0.00 0.00 46.30 3.41
2145 3246 2.366584 CGCGCGTGTCCGAAACTTA 61.367 57.895 24.19 0.00 35.63 2.24
2297 3399 7.201644 CCCAACAGATAAATATAGCGGCAATAG 60.202 40.741 1.45 0.00 0.00 1.73
2311 3413 3.192422 CGTTTGATGCCCCAACAGATAAA 59.808 43.478 0.00 0.00 0.00 1.40
2334 3437 1.871080 ATTCCATCGCATTCGGAGTC 58.129 50.000 0.00 0.00 36.13 3.36
2350 3453 5.810587 TGTAGATAGAACGCCTGTCAAATTC 59.189 40.000 5.29 0.00 35.69 2.17
2353 3456 4.219944 AGTGTAGATAGAACGCCTGTCAAA 59.780 41.667 5.29 0.00 35.69 2.69
2364 3467 9.511272 TGCGGTCTTATTATAGTGTAGATAGAA 57.489 33.333 0.00 0.00 0.00 2.10
2392 3495 3.328535 AGGAATGGGTTGAAAGTTGGT 57.671 42.857 0.00 0.00 0.00 3.67
2412 3515 9.504708 TTTTATAAGTGGTCGGAAAATGTTCTA 57.495 29.630 0.00 0.00 33.92 2.10
2481 3585 3.318839 TCTTTCCGTTGTCCGTTCTAAGA 59.681 43.478 0.00 0.00 33.66 2.10
2484 3588 3.068590 AGTTCTTTCCGTTGTCCGTTCTA 59.931 43.478 0.00 0.00 33.66 2.10
2500 3604 1.258676 GTCCGGGTCTCTCAGTTCTT 58.741 55.000 0.00 0.00 0.00 2.52
2508 3612 1.541310 TTGCATTCGTCCGGGTCTCT 61.541 55.000 0.00 0.00 0.00 3.10
2533 3638 5.721232 TGTGCATTGCATCATCATGTTTTA 58.279 33.333 15.49 0.00 41.91 1.52
2561 3666 1.368641 GTGTCGCATCTTGCCATGTA 58.631 50.000 0.00 0.00 41.12 2.29


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

AutoCloner maintained by Alex Coulton.