Multiple sequence alignment - TraesCS7A01G093300

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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 TraesCS7A01G093300 chr7A 100.000 2562 0 0 1 2562 56737619 56740180 0.000000e+00 4732
1 TraesCS7A01G093300 chr7A 91.610 584 47 2 1 583 56981473 56982055 0.000000e+00 806
2 TraesCS7A01G093300 chr7A 88.113 673 44 17 1199 1869 56658241 56658879 0.000000e+00 767
3 TraesCS7A01G093300 chr7A 88.079 453 40 6 2118 2562 56245881 56246327 2.260000e-145 525
4 TraesCS7A01G093300 chr7A 87.150 428 35 12 2148 2562 56449944 56450364 3.860000e-128 468
5 TraesCS7A01G093300 chr7A 86.682 428 37 12 2148 2562 56324944 56325364 8.350000e-125 457
6 TraesCS7A01G093300 chr7A 81.616 631 44 38 547 1143 56430396 56430988 8.350000e-125 457
7 TraesCS7A01G093300 chr7A 87.909 397 36 8 1199 1589 56430989 56431379 8.350000e-125 457
8 TraesCS7A01G093300 chr7A 90.584 308 16 7 837 1143 56657945 56658240 1.850000e-106 396
9 TraesCS7A01G093300 chr7A 86.885 305 8 14 1566 1869 56712593 56712866 1.910000e-81 313
10 TraesCS7A01G093300 chr7A 81.159 276 30 10 1 254 700066670 700066945 4.320000e-48 202
11 TraesCS7A01G093300 chr7A 87.730 163 17 3 2370 2532 674076623 674076464 1.210000e-43 187
12 TraesCS7A01G093300 chr7A 89.474 114 10 1 958 1069 55918354 55918467 2.660000e-30 143
13 TraesCS7A01G093300 chr7D 86.982 676 42 29 1206 1869 53705069 53705710 0.000000e+00 719
14 TraesCS7A01G093300 chr7D 86.134 613 36 25 1199 1790 53577839 53578423 1.300000e-172 616
15 TraesCS7A01G093300 chr7D 82.388 670 56 29 522 1143 53577183 53577838 6.280000e-146 527
16 TraesCS7A01G093300 chr7D 88.252 349 31 6 1227 1566 53558511 53558858 2.370000e-110 409
17 TraesCS7A01G093300 chr7D 89.860 286 20 7 830 1106 53703318 53703603 2.420000e-95 359
18 TraesCS7A01G093300 chr7D 82.866 321 26 13 1865 2167 53565506 53565815 7.030000e-66 261
19 TraesCS7A01G093300 chr7D 79.381 291 30 21 800 1069 53529620 53529901 7.280000e-41 178
20 TraesCS7A01G093300 chr7D 83.889 180 28 1 1 179 551606689 551606510 1.220000e-38 171
21 TraesCS7A01G093300 chr7D 80.769 234 28 14 851 1067 53564722 53564955 1.580000e-37 167
22 TraesCS7A01G093300 chr7D 78.909 275 36 16 800 1069 53606004 53606261 1.580000e-37 167
23 TraesCS7A01G093300 chr7D 85.821 134 15 3 2210 2339 53565817 53565950 3.440000e-29 139
24 TraesCS7A01G093300 chr7D 77.003 287 26 27 814 1069 53699670 53699947 7.440000e-26 128
25 TraesCS7A01G093300 chr7D 84.337 83 5 5 853 929 53707908 53707988 9.830000e-10 75
26 TraesCS7A01G093300 chr4A 89.433 388 31 8 1206 1589 668323757 668324138 4.960000e-132 481
27 TraesCS7A01G093300 chr4A 85.501 469 53 11 1865 2329 668306716 668307173 2.310000e-130 475
28 TraesCS7A01G093300 chr4A 89.577 355 28 6 791 1141 668323399 668323748 2.340000e-120 442
29 TraesCS7A01G093300 chr4A 87.404 389 41 7 1206 1589 668306290 668306675 8.410000e-120 440
30 TraesCS7A01G093300 chr4A 88.184 347 34 7 1222 1566 668337132 668337473 8.530000e-110 407
31 TraesCS7A01G093300 chr4A 86.207 377 32 14 1199 1566 668288182 668288547 8.590000e-105 390
32 TraesCS7A01G093300 chr4A 83.871 341 40 13 814 1143 668287845 668288181 6.880000e-81 311
33 TraesCS7A01G093300 chr4A 85.185 297 32 10 851 1141 668305991 668306281 6.930000e-76 294
34 TraesCS7A01G093300 chr4A 77.474 293 33 24 800 1069 668336756 668337038 7.390000e-31 145
35 TraesCS7A01G093300 chr4A 89.286 112 6 3 1685 1790 668324291 668324402 4.450000e-28 135
36 TraesCS7A01G093300 chr4A 98.214 56 1 0 1144 1199 105654858 105654803 5.830000e-17 99
37 TraesCS7A01G093300 chr6A 82.101 257 38 5 1 249 600371072 600370816 2.000000e-51 213
38 TraesCS7A01G093300 chr6A 80.364 275 25 16 1 251 284892380 284892111 5.630000e-42 182
39 TraesCS7A01G093300 chr6A 85.799 169 23 1 2373 2541 28248940 28248773 7.280000e-41 178
40 TraesCS7A01G093300 chr5A 80.812 271 30 10 1 249 415159717 415159447 2.600000e-45 193
41 TraesCS7A01G093300 chr3A 80.812 271 30 11 3 251 584952448 584952718 2.600000e-45 193
42 TraesCS7A01G093300 chr3A 86.145 166 18 4 2370 2532 272770097 272770260 9.420000e-40 174
43 TraesCS7A01G093300 chr2D 80.827 266 33 14 1 249 625589546 625589810 2.600000e-45 193
44 TraesCS7A01G093300 chr2D 98.214 56 1 0 1144 1199 39581757 39581702 5.830000e-17 99
45 TraesCS7A01G093300 chr2A 80.812 271 31 9 1 250 754046059 754046329 2.600000e-45 193
46 TraesCS7A01G093300 chr3D 86.391 169 22 1 2366 2534 528611522 528611689 1.570000e-42 183
47 TraesCS7A01G093300 chr3D 85.629 167 20 4 2370 2534 313908601 313908765 3.390000e-39 172
48 TraesCS7A01G093300 chr5B 85.965 171 20 4 2369 2537 341533896 341533728 2.030000e-41 180
49 TraesCS7A01G093300 chr5D 80.000 270 27 13 1 245 61051896 61051629 9.420000e-40 174
50 TraesCS7A01G093300 chr5D 77.682 233 25 15 49 256 487497625 487497395 1.610000e-22 117
51 TraesCS7A01G093300 chr4B 79.630 270 32 11 2 249 577031681 577031949 3.390000e-39 172
52 TraesCS7A01G093300 chr6D 82.796 186 24 5 1 179 11444145 11443961 2.640000e-35 159
53 TraesCS7A01G093300 chr1D 78.292 281 37 12 2 259 350297842 350297563 2.640000e-35 159
54 TraesCS7A01G093300 chr1B 77.860 271 38 10 1 249 520375835 520376105 5.710000e-32 148
55 TraesCS7A01G093300 chr1B 100.000 56 0 0 1144 1199 683695876 683695931 1.250000e-18 104
56 TraesCS7A01G093300 chr1B 98.214 56 1 0 1144 1199 339010876 339010931 5.830000e-17 99
57 TraesCS7A01G093300 chr3B 81.579 190 17 11 77 248 812467077 812466888 9.560000e-30 141
58 TraesCS7A01G093300 chr3B 100.000 56 0 0 1144 1199 92230225 92230170 1.250000e-18 104
59 TraesCS7A01G093300 chr2B 100.000 56 0 0 1144 1199 357734437 357734382 1.250000e-18 104
60 TraesCS7A01G093300 chr2B 98.214 56 1 0 1144 1199 683349616 683349671 5.830000e-17 99
61 TraesCS7A01G093300 chr6B 98.214 56 1 0 1144 1199 297423963 297424018 5.830000e-17 99
62 TraesCS7A01G093300 chr6B 98.214 56 1 0 1144 1199 388024286 388024341 5.830000e-17 99


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 TraesCS7A01G093300 chr7A 56737619 56740180 2561 False 4732.000000 4732 100.0000 1 2562 1 chr7A.!!$F6 2561
1 TraesCS7A01G093300 chr7A 56981473 56982055 582 False 806.000000 806 91.6100 1 583 1 chr7A.!!$F7 582
2 TraesCS7A01G093300 chr7A 56657945 56658879 934 False 581.500000 767 89.3485 837 1869 2 chr7A.!!$F10 1032
3 TraesCS7A01G093300 chr7A 56430396 56431379 983 False 457.000000 457 84.7625 547 1589 2 chr7A.!!$F9 1042
4 TraesCS7A01G093300 chr7D 53577183 53578423 1240 False 571.500000 616 84.2610 522 1790 2 chr7D.!!$F5 1268
5 TraesCS7A01G093300 chr7D 53699670 53707988 8318 False 320.250000 719 84.5455 814 1869 4 chr7D.!!$F6 1055
6 TraesCS7A01G093300 chr4A 668305991 668307173 1182 False 403.000000 475 86.0300 851 2329 3 chr4A.!!$F2 1478
7 TraesCS7A01G093300 chr4A 668323399 668324402 1003 False 352.666667 481 89.4320 791 1790 3 chr4A.!!$F3 999
8 TraesCS7A01G093300 chr4A 668287845 668288547 702 False 350.500000 390 85.0390 814 1566 2 chr4A.!!$F1 752
9 TraesCS7A01G093300 chr4A 668336756 668337473 717 False 276.000000 407 82.8290 800 1566 2 chr4A.!!$F4 766

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
625 627 0.031994 ACAGCCATCGCCAACAAAAC 59.968 50.0 0.0 0.0 34.57 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2156 7473 0.035317 TGGCATATGATCCTGACGCC 59.965 55.0 6.97 0.0 38.56 5.68 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
56 57 3.456277 AGAGGTTGAGAAAGTGTTGACCT 59.544 43.478 0.00 0.00 38.65 3.85
130 132 6.099125 GGGGCCTTAAAAATTAGGAAGCATAA 59.901 38.462 0.84 0.00 33.13 1.90
212 214 6.373005 TTGAAGACCTCAATTGACTATGGA 57.627 37.500 16.18 0.00 39.20 3.41
213 215 5.734720 TGAAGACCTCAATTGACTATGGAC 58.265 41.667 16.18 10.94 0.00 4.02
218 220 6.214412 AGACCTCAATTGACTATGGACTCTTT 59.786 38.462 16.18 0.00 0.00 2.52
268 270 9.343539 AGAGGATACATCATAAAAGGTTTTAGC 57.656 33.333 1.70 0.00 35.96 3.09
333 335 8.782339 ATCAAATTTATTTCCTTTCCTGCAAG 57.218 30.769 0.00 0.00 0.00 4.01
338 340 9.625747 AATTTATTTCCTTTCCTGCAAGAAAAA 57.374 25.926 11.48 4.25 35.41 1.94
339 341 8.432110 TTTATTTCCTTTCCTGCAAGAAAAAC 57.568 30.769 11.48 0.00 35.41 2.43
351 353 4.651503 TGCAAGAAAAACTATTTCCCCACA 59.348 37.500 0.00 0.00 0.00 4.17
400 402 7.033530 AGCGCTTATACATATACATCCTCTC 57.966 40.000 2.64 0.00 0.00 3.20
403 405 8.788806 GCGCTTATACATATACATCCTCTCTAT 58.211 37.037 0.00 0.00 0.00 1.98
497 499 5.779529 AAAGGTAGTGTAACGTTCAGAGA 57.220 39.130 2.82 0.00 45.86 3.10
498 500 5.979288 AAGGTAGTGTAACGTTCAGAGAT 57.021 39.130 2.82 0.00 45.86 2.75
590 592 2.281692 ACGGGTTGGCCGTAAACC 60.282 61.111 13.87 13.87 45.36 3.27
625 627 0.031994 ACAGCCATCGCCAACAAAAC 59.968 50.000 0.00 0.00 34.57 2.43
636 638 0.591236 CAACAAAACGGAGTGCACGG 60.591 55.000 12.01 7.62 45.00 4.94
655 657 1.939974 GTGACAGACACTGCACTCAA 58.060 50.000 14.14 0.00 45.13 3.02
747 767 0.321122 CCATGCCTCCTCTTATCCGC 60.321 60.000 0.00 0.00 0.00 5.54
753 775 0.033228 CTCCTCTTATCCGCTGCAGG 59.967 60.000 17.12 5.50 0.00 4.85
945 4617 1.831106 TCACATCCACGCTCCACTTAT 59.169 47.619 0.00 0.00 0.00 1.73
979 4710 0.173708 GCTTCCTTCGGATCTCGTGT 59.826 55.000 0.00 0.00 40.32 4.49
987 4718 2.371306 TCGGATCTCGTGTCACCAATA 58.629 47.619 0.00 0.00 40.32 1.90
1143 6318 5.997746 AGCTTTATGTGTCTGCTGAAACTTA 59.002 36.000 14.29 9.78 31.78 2.24
1144 6319 6.148480 AGCTTTATGTGTCTGCTGAAACTTAG 59.852 38.462 14.29 5.62 31.78 2.18
1145 6320 6.147821 GCTTTATGTGTCTGCTGAAACTTAGA 59.852 38.462 14.29 7.44 31.78 2.10
1146 6321 7.307989 GCTTTATGTGTCTGCTGAAACTTAGAA 60.308 37.037 14.29 8.76 31.78 2.10
1147 6322 5.931441 ATGTGTCTGCTGAAACTTAGAAC 57.069 39.130 14.29 0.00 31.78 3.01
1148 6323 3.802139 TGTGTCTGCTGAAACTTAGAACG 59.198 43.478 14.29 0.00 31.78 3.95
1149 6324 4.049186 GTGTCTGCTGAAACTTAGAACGA 58.951 43.478 6.66 0.00 0.00 3.85
1150 6325 4.506654 GTGTCTGCTGAAACTTAGAACGAA 59.493 41.667 6.66 0.00 0.00 3.85
1151 6326 4.506654 TGTCTGCTGAAACTTAGAACGAAC 59.493 41.667 0.00 0.00 0.00 3.95
1152 6327 4.506654 GTCTGCTGAAACTTAGAACGAACA 59.493 41.667 0.00 0.00 0.00 3.18
1153 6328 5.006358 GTCTGCTGAAACTTAGAACGAACAA 59.994 40.000 0.00 0.00 0.00 2.83
1154 6329 5.758296 TCTGCTGAAACTTAGAACGAACAAT 59.242 36.000 0.00 0.00 0.00 2.71
1155 6330 5.747565 TGCTGAAACTTAGAACGAACAATG 58.252 37.500 0.00 0.00 0.00 2.82
1156 6331 5.525745 TGCTGAAACTTAGAACGAACAATGA 59.474 36.000 0.00 0.00 0.00 2.57
1157 6332 6.037720 TGCTGAAACTTAGAACGAACAATGAA 59.962 34.615 0.00 0.00 0.00 2.57
1158 6333 7.078228 GCTGAAACTTAGAACGAACAATGAAT 58.922 34.615 0.00 0.00 0.00 2.57
1159 6334 7.059945 GCTGAAACTTAGAACGAACAATGAATG 59.940 37.037 0.00 0.00 0.00 2.67
1160 6335 6.855914 TGAAACTTAGAACGAACAATGAATGC 59.144 34.615 0.00 0.00 0.00 3.56
1161 6336 5.296813 ACTTAGAACGAACAATGAATGCC 57.703 39.130 0.00 0.00 0.00 4.40
1162 6337 5.003804 ACTTAGAACGAACAATGAATGCCT 58.996 37.500 0.00 0.00 0.00 4.75
1163 6338 5.473504 ACTTAGAACGAACAATGAATGCCTT 59.526 36.000 0.00 0.00 0.00 4.35
1164 6339 4.853924 AGAACGAACAATGAATGCCTTT 57.146 36.364 0.00 0.00 0.00 3.11
1165 6340 5.200368 AGAACGAACAATGAATGCCTTTT 57.800 34.783 0.00 0.00 0.00 2.27
1166 6341 5.222631 AGAACGAACAATGAATGCCTTTTC 58.777 37.500 0.00 0.00 0.00 2.29
1167 6342 3.564511 ACGAACAATGAATGCCTTTTCG 58.435 40.909 0.00 0.00 35.77 3.46
1168 6343 2.916716 CGAACAATGAATGCCTTTTCGG 59.083 45.455 0.00 0.00 0.00 4.30
1169 6344 3.253230 GAACAATGAATGCCTTTTCGGG 58.747 45.455 0.00 0.00 0.00 5.14
1170 6345 2.524306 ACAATGAATGCCTTTTCGGGA 58.476 42.857 0.00 0.00 37.60 5.14
1171 6346 2.896685 ACAATGAATGCCTTTTCGGGAA 59.103 40.909 0.00 0.00 36.36 3.97
1172 6347 3.323403 ACAATGAATGCCTTTTCGGGAAA 59.677 39.130 0.00 0.00 36.36 3.13
1173 6348 3.874392 ATGAATGCCTTTTCGGGAAAG 57.126 42.857 1.54 1.54 43.57 2.62
1174 6349 2.870175 TGAATGCCTTTTCGGGAAAGA 58.130 42.857 10.41 0.00 46.24 2.52
1175 6350 3.226777 TGAATGCCTTTTCGGGAAAGAA 58.773 40.909 10.41 0.00 46.24 2.52
1176 6351 3.639094 TGAATGCCTTTTCGGGAAAGAAA 59.361 39.130 10.41 0.00 46.24 2.52
1177 6352 4.100189 TGAATGCCTTTTCGGGAAAGAAAA 59.900 37.500 10.41 5.04 46.24 2.29
1182 6357 1.334160 TTTCGGGAAAGAAAAGGGCC 58.666 50.000 0.00 0.00 37.20 5.80
1183 6358 0.186386 TTCGGGAAAGAAAAGGGCCA 59.814 50.000 6.18 0.00 0.00 5.36
1184 6359 0.538746 TCGGGAAAGAAAAGGGCCAC 60.539 55.000 6.18 0.00 0.00 5.01
1185 6360 0.825840 CGGGAAAGAAAAGGGCCACA 60.826 55.000 6.18 0.00 0.00 4.17
1186 6361 1.644509 GGGAAAGAAAAGGGCCACAT 58.355 50.000 6.18 0.00 0.00 3.21
1187 6362 2.815158 GGGAAAGAAAAGGGCCACATA 58.185 47.619 6.18 0.00 0.00 2.29
1188 6363 3.374764 GGGAAAGAAAAGGGCCACATAT 58.625 45.455 6.18 0.00 0.00 1.78
1189 6364 3.774766 GGGAAAGAAAAGGGCCACATATT 59.225 43.478 6.18 0.00 0.00 1.28
1190 6365 4.225042 GGGAAAGAAAAGGGCCACATATTT 59.775 41.667 6.18 0.03 0.00 1.40
1191 6366 5.280470 GGGAAAGAAAAGGGCCACATATTTT 60.280 40.000 6.18 2.80 0.00 1.82
1192 6367 6.237901 GGAAAGAAAAGGGCCACATATTTTT 58.762 36.000 6.18 1.95 0.00 1.94
1256 6433 3.866582 GGCTGCTATGGCGGGAGT 61.867 66.667 12.28 0.00 44.48 3.85
1343 6523 3.931468 CAGTTCCAGAGTTCATAGCACAG 59.069 47.826 0.00 0.00 0.00 3.66
1344 6524 2.675348 GTTCCAGAGTTCATAGCACAGC 59.325 50.000 0.00 0.00 0.00 4.40
1347 6527 2.093816 CCAGAGTTCATAGCACAGCTCA 60.094 50.000 0.00 0.00 40.44 4.26
1348 6528 3.431905 CCAGAGTTCATAGCACAGCTCAT 60.432 47.826 0.00 0.00 40.44 2.90
1349 6529 3.556365 CAGAGTTCATAGCACAGCTCATG 59.444 47.826 0.00 0.00 40.44 3.07
1350 6530 3.450096 AGAGTTCATAGCACAGCTCATGA 59.550 43.478 0.00 0.00 40.44 3.07
1353 6533 4.815308 AGTTCATAGCACAGCTCATGAATC 59.185 41.667 17.98 14.05 38.93 2.52
1364 6553 3.940852 AGCTCATGAATCAATGCGTTACA 59.059 39.130 0.00 0.00 0.00 2.41
1404 6593 4.101448 GAGGATGCTGCCGTGGGT 62.101 66.667 0.00 0.00 0.00 4.51
1426 6615 4.947147 GCGCACCTGAACCCCACA 62.947 66.667 0.30 0.00 0.00 4.17
1517 6712 3.984193 ATGGCCAGGAAGCACTCGC 62.984 63.158 13.05 0.00 38.99 5.03
1524 6719 1.153745 GGAAGCACTCGCACGAGAT 60.154 57.895 25.53 8.89 44.53 2.75
1540 6735 4.790962 ATGGCGCCAGAGCACCTG 62.791 66.667 35.36 0.00 42.08 4.00
1640 6865 6.949352 AGCCTGAAAGATGGTATAATGTTG 57.051 37.500 0.00 0.00 34.07 3.33
1679 6954 5.305902 TCAGGCGAGGTGATGGTATAATTAA 59.694 40.000 0.00 0.00 0.00 1.40
1704 6990 9.851686 AACTGATGATGTATGTAATAATGTGGT 57.148 29.630 0.00 0.00 0.00 4.16
1790 7088 4.309933 TGCTTCAAGTACACTCACTCATG 58.690 43.478 0.00 0.00 0.00 3.07
1791 7089 4.039124 TGCTTCAAGTACACTCACTCATGA 59.961 41.667 0.00 0.00 0.00 3.07
1792 7090 4.387256 GCTTCAAGTACACTCACTCATGAC 59.613 45.833 0.00 0.00 0.00 3.06
1793 7091 5.777802 CTTCAAGTACACTCACTCATGACT 58.222 41.667 0.00 0.00 0.00 3.41
1794 7092 5.378292 TCAAGTACACTCACTCATGACTC 57.622 43.478 0.00 0.00 0.00 3.36
1795 7093 4.827284 TCAAGTACACTCACTCATGACTCA 59.173 41.667 0.00 0.00 0.00 3.41
1796 7094 5.478332 TCAAGTACACTCACTCATGACTCAT 59.522 40.000 0.00 0.00 0.00 2.90
1855 7153 2.047844 ACGCGTCAGAGCATTGCT 60.048 55.556 11.79 11.79 43.88 3.91
1893 7192 3.009033 ACTGTAATGTTCAGGCAGCCTTA 59.991 43.478 12.86 0.00 37.25 2.69
1899 7198 2.093288 TGTTCAGGCAGCCTTATCTGAG 60.093 50.000 12.86 0.00 37.52 3.35
1911 7210 1.252175 TATCTGAGATCAGGCGAGGC 58.748 55.000 9.87 0.00 43.91 4.70
1912 7211 0.469705 ATCTGAGATCAGGCGAGGCT 60.470 55.000 9.87 0.00 43.91 4.58
1913 7212 0.685785 TCTGAGATCAGGCGAGGCTT 60.686 55.000 9.87 0.00 43.91 4.35
1914 7213 0.530211 CTGAGATCAGGCGAGGCTTG 60.530 60.000 1.70 0.00 40.20 4.01
1917 7216 2.124819 ATCAGGCGAGGCTTGCAG 60.125 61.111 27.17 18.66 35.58 4.41
1920 7219 3.630013 AGGCGAGGCTTGCAGACA 61.630 61.111 27.17 0.00 0.00 3.41
1921 7220 3.123620 GGCGAGGCTTGCAGACAG 61.124 66.667 27.17 0.00 0.00 3.51
1922 7221 3.797546 GCGAGGCTTGCAGACAGC 61.798 66.667 21.86 0.00 45.96 4.40
1923 7222 2.047465 CGAGGCTTGCAGACAGCT 60.047 61.111 8.68 0.00 45.94 4.24
1924 7223 2.099431 CGAGGCTTGCAGACAGCTC 61.099 63.158 8.68 4.16 45.94 4.09
1925 7224 1.004080 GAGGCTTGCAGACAGCTCA 60.004 57.895 8.68 0.00 45.94 4.26
1926 7225 1.003597 AGGCTTGCAGACAGCTCAG 60.004 57.895 8.68 0.00 45.94 3.35
1927 7226 1.302351 GGCTTGCAGACAGCTCAGT 60.302 57.895 8.68 0.00 45.94 3.41
1928 7227 0.888285 GGCTTGCAGACAGCTCAGTT 60.888 55.000 8.68 0.00 45.94 3.16
1929 7228 0.516439 GCTTGCAGACAGCTCAGTTC 59.484 55.000 1.51 0.00 45.94 3.01
1930 7229 1.875009 CTTGCAGACAGCTCAGTTCA 58.125 50.000 0.00 0.00 45.94 3.18
1977 7294 2.827800 AGTGATCATGTATCCAGCCG 57.172 50.000 0.00 0.00 33.22 5.52
1982 7299 3.582647 TGATCATGTATCCAGCCGGTAAT 59.417 43.478 1.90 0.00 33.22 1.89
2017 7334 6.639632 AATGACTTGCATTTGTACAACTCT 57.360 33.333 8.07 0.00 44.68 3.24
2019 7336 4.222114 GACTTGCATTTGTACAACTCTGC 58.778 43.478 21.50 21.50 0.00 4.26
2020 7337 3.885297 ACTTGCATTTGTACAACTCTGCT 59.115 39.130 25.39 11.95 0.00 4.24
2029 7346 0.181114 ACAACTCTGCTTCACCTGCA 59.819 50.000 0.00 0.00 38.81 4.41
2037 7354 0.445436 GCTTCACCTGCAATCACTCG 59.555 55.000 0.00 0.00 0.00 4.18
2048 7365 5.580691 CCTGCAATCACTCGTCTTACATTTA 59.419 40.000 0.00 0.00 0.00 1.40
2049 7366 6.092122 CCTGCAATCACTCGTCTTACATTTAA 59.908 38.462 0.00 0.00 0.00 1.52
2050 7367 7.360861 CCTGCAATCACTCGTCTTACATTTAAA 60.361 37.037 0.00 0.00 0.00 1.52
2051 7368 8.039603 TGCAATCACTCGTCTTACATTTAAAT 57.960 30.769 0.00 0.00 0.00 1.40
2052 7369 7.962373 TGCAATCACTCGTCTTACATTTAAATG 59.038 33.333 23.60 23.60 42.10 2.32
2059 7376 9.445786 ACTCGTCTTACATTTAAATGTTTGTTG 57.554 29.630 32.58 21.32 46.95 3.33
2081 7398 4.400884 TGGTGATTATCGTTTGAAATGGGG 59.599 41.667 0.00 0.00 0.00 4.96
2088 7405 0.320683 GTTTGAAATGGGGCACTGGC 60.321 55.000 0.00 0.00 40.13 4.85
2108 7425 0.035317 AGAGCATGCACAAGACCGAA 59.965 50.000 21.98 0.00 0.00 4.30
2110 7427 1.470098 GAGCATGCACAAGACCGAAAT 59.530 47.619 21.98 0.00 0.00 2.17
2112 7429 2.679837 AGCATGCACAAGACCGAAATAG 59.320 45.455 21.98 0.00 0.00 1.73
2116 7433 2.076863 GCACAAGACCGAAATAGCACT 58.923 47.619 0.00 0.00 0.00 4.40
2122 7439 1.599542 GACCGAAATAGCACTGCATCC 59.400 52.381 3.30 0.00 0.00 3.51
2128 7445 4.666237 GAAATAGCACTGCATCCTTTGAC 58.334 43.478 3.30 0.00 0.00 3.18
2134 7451 0.682209 CTGCATCCTTTGACCCCCTG 60.682 60.000 0.00 0.00 0.00 4.45
2141 7458 2.203549 CTTTGACCCCCTGCTCCTCC 62.204 65.000 0.00 0.00 0.00 4.30
2142 7459 4.741239 TGACCCCCTGCTCCTCCC 62.741 72.222 0.00 0.00 0.00 4.30
2151 7468 1.152030 TGCTCCTCCCCTGTTCTGT 60.152 57.895 0.00 0.00 0.00 3.41
2153 7470 1.194781 GCTCCTCCCCTGTTCTGTGA 61.195 60.000 0.00 0.00 0.00 3.58
2156 7473 0.254178 CCTCCCCTGTTCTGTGATGG 59.746 60.000 0.00 0.00 0.00 3.51
2157 7474 0.254178 CTCCCCTGTTCTGTGATGGG 59.746 60.000 0.00 0.00 37.68 4.00
2168 7485 1.264045 TGTGATGGGCGTCAGGATCA 61.264 55.000 0.00 0.00 0.00 2.92
2169 7486 0.107456 GTGATGGGCGTCAGGATCAT 59.893 55.000 0.00 0.00 0.00 2.45
2239 7556 4.778143 GGCTGTGTAGGGTGGCCG 62.778 72.222 0.00 0.00 33.30 6.13
2240 7557 4.778143 GCTGTGTAGGGTGGCCGG 62.778 72.222 0.00 0.00 0.00 6.13
2271 7588 6.989759 TCTTTCACTTCAAATGCTGTGTACTA 59.010 34.615 0.00 0.00 0.00 1.82
2274 7591 6.288294 TCACTTCAAATGCTGTGTACTACTT 58.712 36.000 0.00 0.00 0.00 2.24
2320 7637 3.500680 TGTGAGTTTAAATCGCCACTTCC 59.499 43.478 3.54 0.00 0.00 3.46
2321 7638 3.500680 GTGAGTTTAAATCGCCACTTCCA 59.499 43.478 0.00 0.00 0.00 3.53
2322 7639 4.156008 GTGAGTTTAAATCGCCACTTCCAT 59.844 41.667 0.00 0.00 0.00 3.41
2326 7643 7.441157 TGAGTTTAAATCGCCACTTCCATATAG 59.559 37.037 0.00 0.00 0.00 1.31
2328 7645 8.426489 AGTTTAAATCGCCACTTCCATATAGTA 58.574 33.333 0.00 0.00 0.00 1.82
2330 7647 8.597662 TTAAATCGCCACTTCCATATAGTAAC 57.402 34.615 0.00 0.00 0.00 2.50
2332 7649 4.220724 TCGCCACTTCCATATAGTAACCT 58.779 43.478 0.00 0.00 0.00 3.50
2333 7650 5.387788 TCGCCACTTCCATATAGTAACCTA 58.612 41.667 0.00 0.00 0.00 3.08
2334 7651 5.242393 TCGCCACTTCCATATAGTAACCTAC 59.758 44.000 0.00 0.00 0.00 3.18
2335 7652 5.010314 CGCCACTTCCATATAGTAACCTACA 59.990 44.000 0.00 0.00 0.00 2.74
2336 7653 6.295123 CGCCACTTCCATATAGTAACCTACAT 60.295 42.308 0.00 0.00 0.00 2.29
2337 7654 7.450903 GCCACTTCCATATAGTAACCTACATT 58.549 38.462 0.00 0.00 0.00 2.71
2338 7655 7.937394 GCCACTTCCATATAGTAACCTACATTT 59.063 37.037 0.00 0.00 0.00 2.32
2351 7668 9.281371 AGTAACCTACATTTAGTGTTTTCTTCC 57.719 33.333 0.00 0.00 42.29 3.46
2353 7670 7.506328 ACCTACATTTAGTGTTTTCTTCCAC 57.494 36.000 0.00 0.00 42.29 4.02
2354 7671 7.287810 ACCTACATTTAGTGTTTTCTTCCACT 58.712 34.615 0.00 0.00 43.90 4.00
2355 7672 7.778382 ACCTACATTTAGTGTTTTCTTCCACTT 59.222 33.333 0.00 0.00 41.85 3.16
2356 7673 8.630037 CCTACATTTAGTGTTTTCTTCCACTTT 58.370 33.333 0.00 0.00 41.85 2.66
2363 7680 9.849166 TTAGTGTTTTCTTCCACTTTTTAGTTG 57.151 29.630 0.00 0.00 41.85 3.16
2364 7681 8.117813 AGTGTTTTCTTCCACTTTTTAGTTGA 57.882 30.769 0.00 0.00 38.76 3.18
2365 7682 8.581578 AGTGTTTTCTTCCACTTTTTAGTTGAA 58.418 29.630 0.00 0.00 38.76 2.69
2366 7683 9.198837 GTGTTTTCTTCCACTTTTTAGTTGAAA 57.801 29.630 0.00 0.00 0.00 2.69
2375 8081 8.347035 TCCACTTTTTAGTTGAAAAATACTCCG 58.653 33.333 0.00 0.00 44.17 4.63
2381 8087 4.383173 AGTTGAAAAATACTCCGTCCGTT 58.617 39.130 0.00 0.00 0.00 4.44
2382 8088 4.818005 AGTTGAAAAATACTCCGTCCGTTT 59.182 37.500 0.00 0.00 0.00 3.60
2383 8089 4.996062 TGAAAAATACTCCGTCCGTTTC 57.004 40.909 0.00 0.00 0.00 2.78
2384 8090 4.634199 TGAAAAATACTCCGTCCGTTTCT 58.366 39.130 0.00 0.00 0.00 2.52
2385 8091 5.782047 TGAAAAATACTCCGTCCGTTTCTA 58.218 37.500 0.00 0.00 0.00 2.10
2394 8100 5.981915 ACTCCGTCCGTTTCTAAATATAAGC 59.018 40.000 0.00 0.00 0.00 3.09
2395 8101 6.152932 TCCGTCCGTTTCTAAATATAAGCT 57.847 37.500 0.00 0.00 0.00 3.74
2397 8103 6.040166 TCCGTCCGTTTCTAAATATAAGCTCT 59.960 38.462 0.00 0.00 0.00 4.09
2416 8122 8.940768 AAGCTCTTTTAGAGATCTCAATACAC 57.059 34.615 24.39 6.96 40.58 2.90
2417 8123 8.072321 AGCTCTTTTAGAGATCTCAATACACA 57.928 34.615 24.39 2.22 45.07 3.72
2418 8124 8.196771 AGCTCTTTTAGAGATCTCAATACACAG 58.803 37.037 24.39 12.05 45.07 3.66
2419 8125 7.978975 GCTCTTTTAGAGATCTCAATACACAGT 59.021 37.037 24.39 3.15 45.07 3.55
2474 8180 8.947055 AGTGTAAATTCACTCATTTTGCTTTT 57.053 26.923 0.00 0.00 44.07 2.27
2532 8238 8.648693 GCTTATATTTAGGAACAGAGGGAGTAA 58.351 37.037 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 8.160106 ACACTTTCTCAACCTCTCTCATTAAAT 58.840 33.333 0.00 0.00 0.00 1.40
106 108 5.614324 ATGCTTCCTAATTTTTAAGGCCC 57.386 39.130 0.00 0.00 32.55 5.80
190 192 5.485353 AGTCCATAGTCAATTGAGGTCTTCA 59.515 40.000 8.80 0.00 0.00 3.02
212 214 7.016366 ACACTAAGCTCCCTAGTTTTAAAGAGT 59.984 37.037 0.00 0.00 0.00 3.24
213 215 7.387643 ACACTAAGCTCCCTAGTTTTAAAGAG 58.612 38.462 0.00 0.00 0.00 2.85
218 220 9.705103 TCTATAACACTAAGCTCCCTAGTTTTA 57.295 33.333 5.54 5.54 0.00 1.52
225 227 5.405063 TCCTCTATAACACTAAGCTCCCT 57.595 43.478 0.00 0.00 0.00 4.20
294 296 9.844257 AAATAAATTTGATCACCTGGTCAAAAA 57.156 25.926 15.84 7.04 44.62 1.94
301 303 7.765819 GGAAAGGAAATAAATTTGATCACCTGG 59.234 37.037 0.00 0.00 0.00 4.45
302 304 8.534496 AGGAAAGGAAATAAATTTGATCACCTG 58.466 33.333 0.00 0.00 0.00 4.00
478 480 3.858238 GCATCTCTGAACGTTACACTACC 59.142 47.826 0.00 0.00 0.00 3.18
482 484 1.059264 GCGCATCTCTGAACGTTACAC 59.941 52.381 0.30 0.00 0.00 2.90
497 499 3.200593 GTGCTAGCTGCTGCGCAT 61.201 61.111 24.28 0.00 45.42 4.73
524 526 1.805428 CTTTGTTTGGCCAGGTCGGG 61.805 60.000 5.11 0.00 34.06 5.14
532 534 0.247460 GCCTCATCCTTTGTTTGGCC 59.753 55.000 0.00 0.00 34.04 5.36
609 611 1.732683 CCGTTTTGTTGGCGATGGC 60.733 57.895 0.00 0.00 38.90 4.40
610 612 0.109781 CTCCGTTTTGTTGGCGATGG 60.110 55.000 0.00 0.00 0.00 3.51
625 627 2.734723 CTGTCACCGTGCACTCCG 60.735 66.667 16.19 1.09 0.00 4.63
636 638 1.863454 CTTGAGTGCAGTGTCTGTCAC 59.137 52.381 0.00 12.61 46.46 3.67
655 657 4.142681 CGTAGACGTAGGAGCATGTGCT 62.143 54.545 7.31 7.31 44.00 4.40
670 672 3.680642 TGCGTAGGATAACACGTAGAC 57.319 47.619 0.00 0.00 40.25 2.59
722 742 4.383989 GGATAAGAGGAGGCATGGATCATC 60.384 50.000 0.00 0.00 0.00 2.92
723 743 3.522750 GGATAAGAGGAGGCATGGATCAT 59.477 47.826 0.00 0.00 0.00 2.45
724 744 2.909006 GGATAAGAGGAGGCATGGATCA 59.091 50.000 0.00 0.00 0.00 2.92
781 809 2.281692 GGTTTTGGTACCGGCGGT 60.282 61.111 35.91 35.91 40.16 5.68
979 4710 1.068588 CTTCGCCGGAGATATTGGTGA 59.931 52.381 9.30 0.00 40.34 4.02
987 4718 1.360551 CGACATCTTCGCCGGAGAT 59.639 57.895 9.30 0.95 41.87 2.75
1088 4830 2.094957 GGGATATACGAGCAGAGCTGTC 60.095 54.545 0.00 0.00 39.88 3.51
1091 4834 2.294449 TGGGATATACGAGCAGAGCT 57.706 50.000 0.00 0.00 43.88 4.09
1143 6318 4.853924 AAAGGCATTCATTGTTCGTTCT 57.146 36.364 0.00 0.00 0.00 3.01
1144 6319 4.088496 CGAAAAGGCATTCATTGTTCGTTC 59.912 41.667 6.69 0.00 33.55 3.95
1145 6320 3.980775 CGAAAAGGCATTCATTGTTCGTT 59.019 39.130 6.69 0.00 33.55 3.85
1146 6321 3.564511 CGAAAAGGCATTCATTGTTCGT 58.435 40.909 6.69 0.00 33.55 3.85
1147 6322 2.916716 CCGAAAAGGCATTCATTGTTCG 59.083 45.455 7.65 7.65 36.91 3.95
1148 6323 3.056891 TCCCGAAAAGGCATTCATTGTTC 60.057 43.478 4.32 0.00 39.21 3.18
1149 6324 2.896685 TCCCGAAAAGGCATTCATTGTT 59.103 40.909 4.32 0.00 39.21 2.83
1150 6325 2.524306 TCCCGAAAAGGCATTCATTGT 58.476 42.857 4.32 0.00 39.21 2.71
1151 6326 3.591196 TTCCCGAAAAGGCATTCATTG 57.409 42.857 4.32 0.00 39.21 2.82
1152 6327 3.831911 TCTTTCCCGAAAAGGCATTCATT 59.168 39.130 9.47 0.00 43.88 2.57
1153 6328 3.430453 TCTTTCCCGAAAAGGCATTCAT 58.570 40.909 9.47 0.00 43.88 2.57
1154 6329 2.870175 TCTTTCCCGAAAAGGCATTCA 58.130 42.857 9.47 0.00 43.88 2.57
1155 6330 3.934457 TTCTTTCCCGAAAAGGCATTC 57.066 42.857 9.47 0.00 43.88 2.67
1156 6331 4.681074 TTTTCTTTCCCGAAAAGGCATT 57.319 36.364 9.47 0.00 43.88 3.56
1162 6337 1.689813 GGCCCTTTTCTTTCCCGAAAA 59.310 47.619 0.00 0.00 39.74 2.29
1163 6338 1.334160 GGCCCTTTTCTTTCCCGAAA 58.666 50.000 0.00 0.00 0.00 3.46
1164 6339 0.186386 TGGCCCTTTTCTTTCCCGAA 59.814 50.000 0.00 0.00 0.00 4.30
1165 6340 0.538746 GTGGCCCTTTTCTTTCCCGA 60.539 55.000 0.00 0.00 0.00 5.14
1166 6341 0.825840 TGTGGCCCTTTTCTTTCCCG 60.826 55.000 0.00 0.00 0.00 5.14
1167 6342 1.644509 ATGTGGCCCTTTTCTTTCCC 58.355 50.000 0.00 0.00 0.00 3.97
1168 6343 5.420725 AAATATGTGGCCCTTTTCTTTCC 57.579 39.130 0.00 0.00 0.00 3.13
1191 6366 9.681062 AGGAATGTTAATCGAAGATCCTAAAAA 57.319 29.630 0.00 0.00 45.12 1.94
1192 6367 9.109393 CAGGAATGTTAATCGAAGATCCTAAAA 57.891 33.333 0.00 0.00 45.12 1.52
1193 6368 7.226720 GCAGGAATGTTAATCGAAGATCCTAAA 59.773 37.037 0.00 0.00 45.12 1.85
1194 6369 6.706270 GCAGGAATGTTAATCGAAGATCCTAA 59.294 38.462 0.00 0.00 45.12 2.69
1195 6370 6.223852 GCAGGAATGTTAATCGAAGATCCTA 58.776 40.000 0.00 0.00 45.12 2.94
1196 6371 5.059833 GCAGGAATGTTAATCGAAGATCCT 58.940 41.667 0.00 0.00 45.12 3.24
1197 6372 4.084328 CGCAGGAATGTTAATCGAAGATCC 60.084 45.833 0.00 0.00 45.12 3.36
1204 6379 4.271049 AGATCAACGCAGGAATGTTAATCG 59.729 41.667 0.00 0.00 29.77 3.34
1245 6422 2.742116 GGCCTTGACTCCCGCCATA 61.742 63.158 0.00 0.00 41.25 2.74
1343 6523 4.277257 TGTAACGCATTGATTCATGAGC 57.723 40.909 0.00 0.00 0.00 4.26
1344 6524 5.813717 ACATGTAACGCATTGATTCATGAG 58.186 37.500 0.00 0.00 35.19 2.90
1347 6527 5.816449 TGACATGTAACGCATTGATTCAT 57.184 34.783 0.00 0.00 35.19 2.57
1348 6528 5.816449 ATGACATGTAACGCATTGATTCA 57.184 34.783 0.00 0.00 35.19 2.57
1349 6529 6.746822 TGAAATGACATGTAACGCATTGATTC 59.253 34.615 10.31 6.34 35.19 2.52
1350 6530 6.619744 TGAAATGACATGTAACGCATTGATT 58.380 32.000 10.31 0.00 35.19 2.57
1353 6533 4.263677 GCTGAAATGACATGTAACGCATTG 59.736 41.667 10.31 1.92 35.19 2.82
1364 6553 1.376543 CTCGCCAGCTGAAATGACAT 58.623 50.000 17.39 0.00 0.00 3.06
1404 6593 4.329545 GGTTCAGGTGCGCCCTCA 62.330 66.667 14.07 0.00 43.86 3.86
1426 6615 1.047596 AGATGATGAGCGCCTGTCCT 61.048 55.000 2.29 0.00 0.00 3.85
1429 6618 1.332889 TGGAGATGATGAGCGCCTGT 61.333 55.000 2.29 0.00 0.00 4.00
1517 6712 2.584418 CTCTGGCGCCATCTCGTG 60.584 66.667 32.87 17.79 0.00 4.35
1540 6735 4.618920 TTAGTGGAAGGAGGTGTTCTTC 57.381 45.455 0.00 0.00 38.79 2.87
1584 6782 9.787532 GACACGGTTTATTACACACTATACTAA 57.212 33.333 0.00 0.00 0.00 2.24
1589 6789 5.579511 GCAGACACGGTTTATTACACACTAT 59.420 40.000 0.00 0.00 0.00 2.12
1590 6790 4.925054 GCAGACACGGTTTATTACACACTA 59.075 41.667 0.00 0.00 0.00 2.74
1591 6791 3.744426 GCAGACACGGTTTATTACACACT 59.256 43.478 0.00 0.00 0.00 3.55
1592 6792 3.744426 AGCAGACACGGTTTATTACACAC 59.256 43.478 0.00 0.00 0.00 3.82
1593 6793 3.743911 CAGCAGACACGGTTTATTACACA 59.256 43.478 0.00 0.00 0.00 3.72
1594 6794 3.991773 TCAGCAGACACGGTTTATTACAC 59.008 43.478 0.00 0.00 0.00 2.90
1595 6795 4.260139 TCAGCAGACACGGTTTATTACA 57.740 40.909 0.00 0.00 0.00 2.41
1640 6865 3.206211 CTGATCGCCCCTCTCGCTC 62.206 68.421 0.00 0.00 0.00 5.03
1679 6954 9.494271 GACCACATTATTACATACATCATCAGT 57.506 33.333 0.00 0.00 0.00 3.41
1704 6990 5.688814 AGATGACAAGATGGAGAACATGA 57.311 39.130 0.00 0.00 40.72 3.07
1855 7153 8.743085 ACATTACAGTACTATCTCGGTCTTTA 57.257 34.615 0.00 0.00 0.00 1.85
1893 7192 0.469705 AGCCTCGCCTGATCTCAGAT 60.470 55.000 8.78 0.00 46.59 2.90
1899 7198 2.124983 TGCAAGCCTCGCCTGATC 60.125 61.111 0.00 0.00 0.00 2.92
1911 7210 1.875009 TGAACTGAGCTGTCTGCAAG 58.125 50.000 0.00 4.03 45.94 4.01
1912 7211 2.148768 CATGAACTGAGCTGTCTGCAA 58.851 47.619 0.00 0.00 45.94 4.08
1913 7212 1.609841 CCATGAACTGAGCTGTCTGCA 60.610 52.381 0.00 0.00 45.94 4.41
1914 7213 1.085091 CCATGAACTGAGCTGTCTGC 58.915 55.000 0.00 0.00 43.29 4.26
1917 7216 2.175878 ACACCATGAACTGAGCTGTC 57.824 50.000 0.00 0.00 0.00 3.51
1920 7219 4.081972 CAGTACTACACCATGAACTGAGCT 60.082 45.833 0.00 0.00 37.18 4.09
1921 7220 4.177026 CAGTACTACACCATGAACTGAGC 58.823 47.826 0.00 0.00 37.18 4.26
1922 7221 4.177026 GCAGTACTACACCATGAACTGAG 58.823 47.826 0.00 0.00 37.18 3.35
1923 7222 3.366985 CGCAGTACTACACCATGAACTGA 60.367 47.826 0.00 0.00 37.18 3.41
1924 7223 2.923655 CGCAGTACTACACCATGAACTG 59.076 50.000 0.00 0.00 37.87 3.16
1925 7224 2.674177 GCGCAGTACTACACCATGAACT 60.674 50.000 0.30 0.00 0.00 3.01
1926 7225 1.659098 GCGCAGTACTACACCATGAAC 59.341 52.381 0.30 0.00 0.00 3.18
1927 7226 1.548719 AGCGCAGTACTACACCATGAA 59.451 47.619 11.47 0.00 0.00 2.57
1928 7227 1.182667 AGCGCAGTACTACACCATGA 58.817 50.000 11.47 0.00 0.00 3.07
1929 7228 2.010145 AAGCGCAGTACTACACCATG 57.990 50.000 11.47 0.00 0.00 3.66
1930 7229 3.637229 AGATAAGCGCAGTACTACACCAT 59.363 43.478 11.47 0.00 0.00 3.55
1974 7291 8.784043 AGTCATTATTAATTCAAGATTACCGGC 58.216 33.333 0.00 0.00 0.00 6.13
2017 7334 1.527034 GAGTGATTGCAGGTGAAGCA 58.473 50.000 0.00 0.00 40.85 3.91
2019 7336 1.728971 GACGAGTGATTGCAGGTGAAG 59.271 52.381 0.00 0.00 0.00 3.02
2020 7337 1.344438 AGACGAGTGATTGCAGGTGAA 59.656 47.619 0.00 0.00 0.00 3.18
2048 7365 7.923344 TCAAACGATAATCACCAACAAACATTT 59.077 29.630 0.00 0.00 0.00 2.32
2049 7366 7.429633 TCAAACGATAATCACCAACAAACATT 58.570 30.769 0.00 0.00 0.00 2.71
2050 7367 6.976088 TCAAACGATAATCACCAACAAACAT 58.024 32.000 0.00 0.00 0.00 2.71
2051 7368 6.378710 TCAAACGATAATCACCAACAAACA 57.621 33.333 0.00 0.00 0.00 2.83
2052 7369 7.687005 TTTCAAACGATAATCACCAACAAAC 57.313 32.000 0.00 0.00 0.00 2.93
2053 7370 7.383572 CCATTTCAAACGATAATCACCAACAAA 59.616 33.333 0.00 0.00 0.00 2.83
2059 7376 4.736464 GCCCCATTTCAAACGATAATCACC 60.736 45.833 0.00 0.00 0.00 4.02
2088 7405 0.671472 TCGGTCTTGTGCATGCTCTG 60.671 55.000 20.33 12.30 0.00 3.35
2101 7418 2.555199 GATGCAGTGCTATTTCGGTCT 58.445 47.619 17.60 0.00 0.00 3.85
2103 7420 1.210478 AGGATGCAGTGCTATTTCGGT 59.790 47.619 17.60 0.00 0.00 4.69
2108 7425 3.019564 GGTCAAAGGATGCAGTGCTATT 58.980 45.455 17.60 0.67 0.00 1.73
2110 7427 1.340017 GGGTCAAAGGATGCAGTGCTA 60.340 52.381 17.60 3.01 0.00 3.49
2112 7429 1.598701 GGGGTCAAAGGATGCAGTGC 61.599 60.000 8.58 8.58 0.00 4.40
2116 7433 1.383799 CAGGGGGTCAAAGGATGCA 59.616 57.895 0.00 0.00 0.00 3.96
2122 7439 1.301293 GAGGAGCAGGGGGTCAAAG 59.699 63.158 0.00 0.00 43.32 2.77
2134 7451 1.194781 TCACAGAACAGGGGAGGAGC 61.195 60.000 0.00 0.00 0.00 4.70
2141 7458 1.746615 CGCCCATCACAGAACAGGG 60.747 63.158 0.00 0.00 42.55 4.45
2142 7459 1.003355 ACGCCCATCACAGAACAGG 60.003 57.895 0.00 0.00 0.00 4.00
2151 7468 1.715785 TATGATCCTGACGCCCATCA 58.284 50.000 0.00 0.00 0.00 3.07
2153 7470 1.339438 GCATATGATCCTGACGCCCAT 60.339 52.381 6.97 0.00 0.00 4.00
2156 7473 0.035317 TGGCATATGATCCTGACGCC 59.965 55.000 6.97 0.00 38.56 5.68
2157 7474 1.151668 GTGGCATATGATCCTGACGC 58.848 55.000 6.97 0.00 0.00 5.19
2168 7485 2.621556 AACAAAGTGGGGTGGCATAT 57.378 45.000 0.00 0.00 0.00 1.78
2169 7486 3.527507 TTAACAAAGTGGGGTGGCATA 57.472 42.857 0.00 0.00 0.00 3.14
2226 7543 1.259840 TTACTCCGGCCACCCTACAC 61.260 60.000 2.24 0.00 0.00 2.90
2239 7556 7.025963 CAGCATTTGAAGTGAAAGATTACTCC 58.974 38.462 0.00 0.00 0.00 3.85
2240 7557 7.536622 CACAGCATTTGAAGTGAAAGATTACTC 59.463 37.037 0.00 0.00 33.99 2.59
2326 7643 9.059260 TGGAAGAAAACACTAAATGTAGGTTAC 57.941 33.333 0.00 0.00 42.31 2.50
2328 7645 7.778382 AGTGGAAGAAAACACTAAATGTAGGTT 59.222 33.333 0.00 0.00 45.45 3.50
2330 7647 7.745620 AGTGGAAGAAAACACTAAATGTAGG 57.254 36.000 0.00 0.00 45.45 3.18
2337 7654 9.849166 CAACTAAAAAGTGGAAGAAAACACTAA 57.151 29.630 0.00 0.00 46.49 2.24
2338 7655 9.233649 TCAACTAAAAAGTGGAAGAAAACACTA 57.766 29.630 0.00 0.00 46.49 2.74
2340 7657 8.751302 TTCAACTAAAAAGTGGAAGAAAACAC 57.249 30.769 0.00 0.00 37.86 3.32
2341 7658 9.765795 TTTTCAACTAAAAAGTGGAAGAAAACA 57.234 25.926 0.00 0.00 33.73 2.83
2351 7668 9.166126 GACGGAGTATTTTTCAACTAAAAAGTG 57.834 33.333 0.00 0.00 45.56 3.16
2353 7670 7.532884 CGGACGGAGTATTTTTCAACTAAAAAG 59.467 37.037 0.00 0.00 45.56 2.27
2404 8110 6.967135 TCCGTACATACTGTGTATTGAGATC 58.033 40.000 0.00 0.00 44.65 2.75
2405 8111 6.954487 TCCGTACATACTGTGTATTGAGAT 57.046 37.500 0.00 0.00 44.65 2.75
2406 8112 6.320418 ACATCCGTACATACTGTGTATTGAGA 59.680 38.462 0.00 0.00 44.65 3.27
2407 8113 6.504398 ACATCCGTACATACTGTGTATTGAG 58.496 40.000 0.00 0.00 44.65 3.02
2413 8119 8.944029 GTCTATATACATCCGTACATACTGTGT 58.056 37.037 0.00 0.00 44.95 3.72
2414 8120 8.943002 TGTCTATATACATCCGTACATACTGTG 58.057 37.037 0.00 0.00 0.00 3.66
2415 8121 9.682465 ATGTCTATATACATCCGTACATACTGT 57.318 33.333 0.00 0.00 35.08 3.55
2481 8187 8.470002 GCCCTTTTTGATATTTCAATACTGACT 58.530 33.333 0.00 0.00 41.38 3.41
2482 8188 8.470002 AGCCCTTTTTGATATTTCAATACTGAC 58.530 33.333 0.00 0.00 41.38 3.51
2483 8189 8.593945 AGCCCTTTTTGATATTTCAATACTGA 57.406 30.769 0.00 0.00 41.38 3.41
2496 8202 9.487442 TGTTCCTAAATATAAGCCCTTTTTGAT 57.513 29.630 0.00 0.00 0.00 2.57
2498 8204 8.966868 TCTGTTCCTAAATATAAGCCCTTTTTG 58.033 33.333 0.00 0.00 0.00 2.44
2499 8205 9.190317 CTCTGTTCCTAAATATAAGCCCTTTTT 57.810 33.333 0.00 0.00 0.00 1.94
2503 8209 5.310857 CCCTCTGTTCCTAAATATAAGCCCT 59.689 44.000 0.00 0.00 0.00 5.19
2504 8210 5.309806 TCCCTCTGTTCCTAAATATAAGCCC 59.690 44.000 0.00 0.00 0.00 5.19
2505 8211 6.043358 ACTCCCTCTGTTCCTAAATATAAGCC 59.957 42.308 0.00 0.00 0.00 4.35
2506 8212 7.068686 ACTCCCTCTGTTCCTAAATATAAGC 57.931 40.000 0.00 0.00 0.00 3.09


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

AutoCloner maintained by Alex Coulton.