Multiple sequence alignment - TraesCS1A01G212500

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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 TraesCS1A01G212500 chr1A 100.000 2357 0 0 1 2357 375465022 375467378 0.000000e+00 4353
1 TraesCS1A01G212500 chr1A 93.229 192 12 1 1571 1761 476908479 476908288 4.960000e-72 281
2 TraesCS1A01G212500 chr7D 83.432 1346 191 21 424 1761 577855283 577853962 0.000000e+00 1221
3 TraesCS1A01G212500 chr7D 77.456 621 104 26 1157 1763 158992803 158993401 2.900000e-89 339
4 TraesCS1A01G212500 chr2A 81.569 1351 221 24 424 1764 650491161 650492493 0.000000e+00 1090
5 TraesCS1A01G212500 chr2A 98.895 181 2 0 2177 2357 49232476 49232296 8.120000e-85 324
6 TraesCS1A01G212500 chr5B 80.681 1351 220 29 424 1762 17684358 17683037 0.000000e+00 1011
7 TraesCS1A01G212500 chr5B 95.855 193 5 3 2167 2357 433892775 433892584 2.280000e-80 309
8 TraesCS1A01G212500 chr7B 79.249 1359 226 43 424 1763 87119582 87120903 0.000000e+00 896
9 TraesCS1A01G212500 chr7B 97.826 184 2 2 2175 2357 503365307 503365489 1.360000e-82 316
10 TraesCS1A01G212500 chr1B 78.598 1355 234 40 424 1760 593051896 593053212 0.000000e+00 845
11 TraesCS1A01G212500 chr1B 93.187 411 21 4 1778 2184 406035274 406035681 4.340000e-167 597
12 TraesCS1A01G212500 chr1B 91.085 258 23 0 1 258 405987311 405987568 1.340000e-92 350
13 TraesCS1A01G212500 chr1B 90.683 161 15 0 254 414 406033609 406033769 5.100000e-52 215
14 TraesCS1A01G212500 chr6D 92.185 563 39 5 1200 1760 84476721 84476162 0.000000e+00 791
15 TraesCS1A01G212500 chr3A 81.772 790 139 5 424 1210 595278959 595279746 0.000000e+00 656
16 TraesCS1A01G212500 chr1D 91.971 411 23 8 1776 2184 300857880 300858282 3.400000e-158 568
17 TraesCS1A01G212500 chr1D 91.063 414 37 0 1 414 300855952 300856365 5.690000e-156 560
18 TraesCS1A01G212500 chr1D 80.669 269 37 14 1504 1761 270036579 270036843 6.650000e-46 195
19 TraesCS1A01G212500 chr1D 80.224 268 39 13 1504 1761 431797688 431797951 3.090000e-44 189
20 TraesCS1A01G212500 chr6B 78.954 784 159 6 569 1349 658638780 658638000 1.600000e-146 529
21 TraesCS1A01G212500 chr6B 98.343 181 3 0 2177 2357 544080898 544081078 3.780000e-83 318
22 TraesCS1A01G212500 chr2D 77.862 795 163 12 545 1332 55095124 55095912 4.560000e-132 481
23 TraesCS1A01G212500 chr7A 99.448 181 1 0 2177 2357 460109694 460109514 1.750000e-86 329
24 TraesCS1A01G212500 chr7A 99.438 178 1 0 2180 2357 580227320 580227143 8.120000e-85 324
25 TraesCS1A01G212500 chr5A 98.901 182 1 1 2177 2357 593498809 593498628 8.120000e-85 324
26 TraesCS1A01G212500 chr4B 97.340 188 3 2 2170 2357 396520527 396520342 3.780000e-83 318
27 TraesCS1A01G212500 chr4B 98.343 181 2 1 2177 2357 421581634 421581813 1.360000e-82 316
28 TraesCS1A01G212500 chr2B 74.596 681 156 16 653 1323 748211943 748212616 1.380000e-72 283


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 TraesCS1A01G212500 chr1A 375465022 375467378 2356 False 4353 4353 100.000 1 2357 1 chr1A.!!$F1 2356
1 TraesCS1A01G212500 chr7D 577853962 577855283 1321 True 1221 1221 83.432 424 1761 1 chr7D.!!$R1 1337
2 TraesCS1A01G212500 chr7D 158992803 158993401 598 False 339 339 77.456 1157 1763 1 chr7D.!!$F1 606
3 TraesCS1A01G212500 chr2A 650491161 650492493 1332 False 1090 1090 81.569 424 1764 1 chr2A.!!$F1 1340
4 TraesCS1A01G212500 chr5B 17683037 17684358 1321 True 1011 1011 80.681 424 1762 1 chr5B.!!$R1 1338
5 TraesCS1A01G212500 chr7B 87119582 87120903 1321 False 896 896 79.249 424 1763 1 chr7B.!!$F1 1339
6 TraesCS1A01G212500 chr1B 593051896 593053212 1316 False 845 845 78.598 424 1760 1 chr1B.!!$F2 1336
7 TraesCS1A01G212500 chr1B 406033609 406035681 2072 False 406 597 91.935 254 2184 2 chr1B.!!$F3 1930
8 TraesCS1A01G212500 chr6D 84476162 84476721 559 True 791 791 92.185 1200 1760 1 chr6D.!!$R1 560
9 TraesCS1A01G212500 chr3A 595278959 595279746 787 False 656 656 81.772 424 1210 1 chr3A.!!$F1 786
10 TraesCS1A01G212500 chr1D 300855952 300858282 2330 False 564 568 91.517 1 2184 2 chr1D.!!$F3 2183
11 TraesCS1A01G212500 chr6B 658638000 658638780 780 True 529 529 78.954 569 1349 1 chr6B.!!$R1 780
12 TraesCS1A01G212500 chr2D 55095124 55095912 788 False 481 481 77.862 545 1332 1 chr2D.!!$F1 787
13 TraesCS1A01G212500 chr2B 748211943 748212616 673 False 283 283 74.596 653 1323 1 chr2B.!!$F1 670


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
190 191 0.110486 AGGAGTTGAAATGGCCACGT 59.89 50.0 8.16 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2000 4169 0.979665 TAGGATGGATGGCTAGCTGC 59.02 55.0 15.72 1.06 41.94 5.25 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
17 18 3.490890 GCCCTGAGCTTTGCTACG 58.509 61.111 0.00 0.00 39.88 3.51
20 21 0.460987 CCCTGAGCTTTGCTACGAGG 60.461 60.000 0.00 0.00 39.88 4.63
31 32 1.517832 CTACGAGGGAGGCCAAGTG 59.482 63.158 5.01 0.00 0.00 3.16
32 33 0.970937 CTACGAGGGAGGCCAAGTGA 60.971 60.000 5.01 0.00 0.00 3.41
35 36 1.599576 GAGGGAGGCCAAGTGAGAC 59.400 63.158 5.01 0.00 0.00 3.36
37 38 2.224159 GGGAGGCCAAGTGAGACCA 61.224 63.158 5.01 0.00 0.00 4.02
45 46 1.339151 CCAAGTGAGACCAAGGCTACC 60.339 57.143 0.00 0.00 0.00 3.18
49 50 1.192146 TGAGACCAAGGCTACCGCTT 61.192 55.000 0.00 0.00 36.09 4.68
54 55 1.296715 CAAGGCTACCGCTTGGAGT 59.703 57.895 0.00 0.00 36.26 3.85
62 63 2.664851 CGCTTGGAGTGGACGCAA 60.665 61.111 0.00 0.00 0.00 4.85
79 80 2.159627 CGCAACAAGACACCCTCAATAC 59.840 50.000 0.00 0.00 0.00 1.89
89 90 1.623811 ACCCTCAATACAGCAAGACGT 59.376 47.619 0.00 0.00 0.00 4.34
119 120 4.570663 GTCGTCGAGGGGATGCCG 62.571 72.222 5.12 0.00 0.00 5.69
124 125 3.625897 CGAGGGGATGCCGCCATA 61.626 66.667 0.00 0.00 46.90 2.74
142 143 1.072266 TACCCACTGGACCAAGCAAT 58.928 50.000 0.00 0.00 34.81 3.56
144 145 0.540365 CCCACTGGACCAAGCAATGT 60.540 55.000 0.00 0.00 0.00 2.71
156 157 2.387445 GCAATGTGTCGCCGCTACA 61.387 57.895 0.00 0.00 0.00 2.74
158 159 1.014044 CAATGTGTCGCCGCTACACT 61.014 55.000 23.89 10.67 45.95 3.55
163 164 1.029681 TGTCGCCGCTACACTATGAT 58.970 50.000 0.00 0.00 0.00 2.45
190 191 0.110486 AGGAGTTGAAATGGCCACGT 59.890 50.000 8.16 0.00 0.00 4.49
230 231 2.031807 CGTAGAGGTCACGTGAATCGAT 59.968 50.000 21.95 11.58 42.86 3.59
339 340 1.535462 AGTTCATTTTCGCGGTCCAAG 59.465 47.619 6.13 0.00 0.00 3.61
350 351 2.223021 CGCGGTCCAAGAACATTGTATG 60.223 50.000 0.00 0.00 0.00 2.39
414 415 5.723355 AGGATTACACCCTATGCCTAACTA 58.277 41.667 0.00 0.00 30.92 2.24
415 416 6.148186 AGGATTACACCCTATGCCTAACTAA 58.852 40.000 0.00 0.00 30.92 2.24
416 417 6.270231 AGGATTACACCCTATGCCTAACTAAG 59.730 42.308 0.00 0.00 30.92 2.18
417 418 6.269307 GGATTACACCCTATGCCTAACTAAGA 59.731 42.308 0.00 0.00 0.00 2.10
418 419 7.038231 GGATTACACCCTATGCCTAACTAAGAT 60.038 40.741 0.00 0.00 0.00 2.40
419 420 5.552870 ACACCCTATGCCTAACTAAGATG 57.447 43.478 0.00 0.00 0.00 2.90
422 423 6.330250 ACACCCTATGCCTAACTAAGATGATT 59.670 38.462 0.00 0.00 0.00 2.57
453 515 8.160106 CCTATCTGGAAAGCTATTATGAAGGTT 58.840 37.037 0.00 0.00 38.35 3.50
459 521 8.333235 TGGAAAGCTATTATGAAGGTTAAGGAA 58.667 33.333 0.00 0.00 33.74 3.36
460 522 8.622157 GGAAAGCTATTATGAAGGTTAAGGAAC 58.378 37.037 0.00 0.00 33.74 3.62
477 539 9.490379 GTTAAGGAACACTATATGATTGGTAGG 57.510 37.037 0.00 0.00 35.48 3.18
582 777 2.031683 GGTGCTGTTCAGTGTGTGTAAC 59.968 50.000 1.78 0.00 37.35 2.50
605 800 7.798596 ACAATCAAGAGATAATTGTAGCCAG 57.201 36.000 0.00 0.00 40.76 4.85
624 819 1.912043 AGGTTCAGGGAGAATGTGGAG 59.088 52.381 0.00 0.00 38.76 3.86
626 821 0.620556 TTCAGGGAGAATGTGGAGGC 59.379 55.000 0.00 0.00 0.00 4.70
663 862 2.117865 AGGCTCAATCCTCCTCTTCTG 58.882 52.381 0.00 0.00 0.00 3.02
747 946 2.325484 GTTGTTTGGTCCCTGGGAAAT 58.675 47.619 19.06 0.00 31.38 2.17
793 995 9.440761 AATCTGTTTATAGTTACCTGGAGAGAT 57.559 33.333 0.00 0.00 0.00 2.75
999 1203 1.272313 ACCTGTCCGGTTGCTAGAGTA 60.272 52.381 0.00 0.00 46.37 2.59
1010 1214 4.101741 GGTTGCTAGAGTAATGTGGAGGAT 59.898 45.833 0.00 0.00 0.00 3.24
1017 1221 3.967987 GAGTAATGTGGAGGATAGTGGGT 59.032 47.826 0.00 0.00 0.00 4.51
1027 1231 1.883926 GGATAGTGGGTTGCGTTTTGT 59.116 47.619 0.00 0.00 0.00 2.83
1032 1236 1.132643 GTGGGTTGCGTTTTGTGTACA 59.867 47.619 0.00 0.00 0.00 2.90
1045 2099 3.861276 TGTGTACAGATAGTTGTCCGG 57.139 47.619 0.00 0.00 32.56 5.14
1066 2120 4.634004 CGGACAATCTGTGGCAATACTTTA 59.366 41.667 0.00 0.00 36.72 1.85
1067 2121 5.296780 CGGACAATCTGTGGCAATACTTTAT 59.703 40.000 0.00 0.00 36.72 1.40
1079 2133 7.602265 GTGGCAATACTTTATTTGGTGTCATTT 59.398 33.333 0.00 0.00 0.00 2.32
1137 2228 3.133464 GCTGCGTTATGCTGGGCA 61.133 61.111 5.51 0.00 46.63 5.36
1309 2988 1.895798 TGAGGATCAACACTTCGAGCT 59.104 47.619 0.00 0.00 45.97 4.09
1325 3004 2.548875 GAGCTTGATGAGAATCTGCGT 58.451 47.619 0.00 0.00 34.92 5.24
1370 3090 0.105039 GGGTGAAGATGGAGTAGCGG 59.895 60.000 0.00 0.00 0.00 5.52
1385 3105 0.322456 AGCGGTGCAGATGGCTTTTA 60.322 50.000 0.00 0.00 45.15 1.52
1386 3106 0.525761 GCGGTGCAGATGGCTTTTAA 59.474 50.000 0.00 0.00 45.15 1.52
1422 3566 1.475403 TTCTTCCTCCTCGCGATCTT 58.525 50.000 10.36 0.00 0.00 2.40
1427 3571 0.741326 CCTCCTCGCGATCTTTCTGA 59.259 55.000 10.36 0.00 0.00 3.27
1428 3572 1.268999 CCTCCTCGCGATCTTTCTGAG 60.269 57.143 10.36 7.14 0.00 3.35
1430 3574 0.741326 CCTCGCGATCTTTCTGAGGA 59.259 55.000 10.36 0.00 41.33 3.71
1456 3600 2.154462 ACTTTTAGCTGTCGCATGCTT 58.846 42.857 17.13 0.00 40.35 3.91
1458 3602 3.751175 ACTTTTAGCTGTCGCATGCTTTA 59.249 39.130 17.13 0.00 40.35 1.85
1473 3617 6.268566 GCATGCTTTATTTTGCTAGCTTAGT 58.731 36.000 17.23 3.22 34.77 2.24
1550 3699 2.636830 CCTATCTGAACTGGCTTGTGG 58.363 52.381 0.00 0.00 0.00 4.17
1618 3777 0.327924 TTCGCCCCATGATGAACTGT 59.672 50.000 0.00 0.00 0.00 3.55
1620 3779 0.107508 CGCCCCATGATGAACTGTCT 60.108 55.000 0.00 0.00 0.00 3.41
1622 3781 1.340405 GCCCCATGATGAACTGTCTGT 60.340 52.381 0.00 0.00 0.00 3.41
1635 3794 0.528901 TGTCTGTTGACGGGTGTTCG 60.529 55.000 0.00 0.00 45.70 3.95
1642 3801 3.218470 ACGGGTGTTCGTCGTGGA 61.218 61.111 0.00 0.00 39.34 4.02
1810 3970 5.324409 AGCTGAAATGAAATGACCTTACCA 58.676 37.500 0.00 0.00 0.00 3.25
1840 4000 4.663334 GTTTTACTCCTGAAACCCTGGAT 58.337 43.478 0.00 0.00 41.31 3.41
1920 4080 2.035961 TGTTCCGCTATACTCTGCATCC 59.964 50.000 0.00 0.00 0.00 3.51
1940 4100 1.862806 GAGTCCTGTTGCGTTCTGC 59.137 57.895 0.00 0.00 46.70 4.26
1942 4102 0.679505 AGTCCTGTTGCGTTCTGCTA 59.320 50.000 0.00 0.00 46.63 3.49
1943 4103 1.071605 GTCCTGTTGCGTTCTGCTAG 58.928 55.000 0.00 0.00 46.63 3.42
1964 4124 5.344207 AGTATGCGTTTTTCTTCACTGAC 57.656 39.130 0.00 0.00 0.00 3.51
1996 4165 2.124529 GGCCTGACCTAAGCAGCC 60.125 66.667 0.00 0.00 34.51 4.85
1997 4166 2.671070 GCCTGACCTAAGCAGCCA 59.329 61.111 0.00 0.00 32.06 4.75
1998 4167 1.225704 GCCTGACCTAAGCAGCCAT 59.774 57.895 0.00 0.00 32.06 4.40
1999 4168 1.099879 GCCTGACCTAAGCAGCCATG 61.100 60.000 0.00 0.00 32.06 3.66
2000 4169 0.465097 CCTGACCTAAGCAGCCATGG 60.465 60.000 7.63 7.63 32.06 3.66
2001 4170 1.077501 TGACCTAAGCAGCCATGGC 60.078 57.895 30.12 30.12 42.33 4.40
2002 4171 1.077501 GACCTAAGCAGCCATGGCA 60.078 57.895 37.18 16.43 44.88 4.92
2003 4172 1.077212 ACCTAAGCAGCCATGGCAG 60.077 57.895 37.18 30.66 44.88 4.85
2061 4234 1.401905 CTGCCACCTTTAATTCGCTCC 59.598 52.381 0.00 0.00 0.00 4.70
2184 4358 2.280628 GAACCCATCTCGTTGCTTAGG 58.719 52.381 0.00 0.00 0.00 2.69
2185 4359 0.107654 ACCCATCTCGTTGCTTAGGC 60.108 55.000 0.00 0.00 39.26 3.93
2186 4360 0.179000 CCCATCTCGTTGCTTAGGCT 59.821 55.000 0.00 0.00 39.59 4.58
2187 4361 1.293924 CCATCTCGTTGCTTAGGCTG 58.706 55.000 0.00 0.00 39.59 4.85
2188 4362 1.293924 CATCTCGTTGCTTAGGCTGG 58.706 55.000 0.00 0.00 39.59 4.85
2189 4363 0.905357 ATCTCGTTGCTTAGGCTGGT 59.095 50.000 0.00 0.00 39.59 4.00
2190 4364 0.246635 TCTCGTTGCTTAGGCTGGTC 59.753 55.000 0.00 0.00 39.59 4.02
2191 4365 0.037326 CTCGTTGCTTAGGCTGGTCA 60.037 55.000 0.00 0.00 39.59 4.02
2192 4366 0.613260 TCGTTGCTTAGGCTGGTCAT 59.387 50.000 0.00 0.00 39.59 3.06
2193 4367 1.828595 TCGTTGCTTAGGCTGGTCATA 59.171 47.619 0.00 0.00 39.59 2.15
2194 4368 2.159099 TCGTTGCTTAGGCTGGTCATAG 60.159 50.000 0.00 0.00 39.59 2.23
2195 4369 2.418746 CGTTGCTTAGGCTGGTCATAGT 60.419 50.000 0.00 0.00 39.59 2.12
2196 4370 2.939103 GTTGCTTAGGCTGGTCATAGTG 59.061 50.000 0.00 0.00 39.59 2.74
2197 4371 1.486310 TGCTTAGGCTGGTCATAGTGG 59.514 52.381 0.00 0.00 39.59 4.00
2198 4372 1.202698 GCTTAGGCTGGTCATAGTGGG 60.203 57.143 0.00 0.00 35.22 4.61
2199 4373 2.398588 CTTAGGCTGGTCATAGTGGGA 58.601 52.381 0.00 0.00 0.00 4.37
2200 4374 2.088104 TAGGCTGGTCATAGTGGGAG 57.912 55.000 0.00 0.00 0.00 4.30
2201 4375 0.043334 AGGCTGGTCATAGTGGGAGT 59.957 55.000 0.00 0.00 0.00 3.85
2202 4376 1.291033 AGGCTGGTCATAGTGGGAGTA 59.709 52.381 0.00 0.00 0.00 2.59
2203 4377 2.116238 GGCTGGTCATAGTGGGAGTAA 58.884 52.381 0.00 0.00 0.00 2.24
2204 4378 2.706190 GGCTGGTCATAGTGGGAGTAAT 59.294 50.000 0.00 0.00 0.00 1.89
2205 4379 3.901844 GGCTGGTCATAGTGGGAGTAATA 59.098 47.826 0.00 0.00 0.00 0.98
2206 4380 4.532521 GGCTGGTCATAGTGGGAGTAATAT 59.467 45.833 0.00 0.00 0.00 1.28
2207 4381 5.720041 GGCTGGTCATAGTGGGAGTAATATA 59.280 44.000 0.00 0.00 0.00 0.86
2208 4382 6.127310 GGCTGGTCATAGTGGGAGTAATATAG 60.127 46.154 0.00 0.00 0.00 1.31
2209 4383 6.663953 GCTGGTCATAGTGGGAGTAATATAGA 59.336 42.308 0.00 0.00 0.00 1.98
2210 4384 7.343316 GCTGGTCATAGTGGGAGTAATATAGAT 59.657 40.741 0.00 0.00 0.00 1.98
2211 4385 9.922477 CTGGTCATAGTGGGAGTAATATAGATA 57.078 37.037 0.00 0.00 0.00 1.98
2212 4386 9.922477 TGGTCATAGTGGGAGTAATATAGATAG 57.078 37.037 0.00 0.00 0.00 2.08
2213 4387 9.924010 GGTCATAGTGGGAGTAATATAGATAGT 57.076 37.037 0.00 0.00 0.00 2.12
2233 4407 8.037758 AGATAGTAACATAGATGCCACATAAGC 58.962 37.037 0.00 0.00 0.00 3.09
2234 4408 5.928976 AGTAACATAGATGCCACATAAGCA 58.071 37.500 0.00 0.00 45.94 3.91
2235 4409 6.356556 AGTAACATAGATGCCACATAAGCAA 58.643 36.000 0.00 0.00 44.83 3.91
2236 4410 6.828273 AGTAACATAGATGCCACATAAGCAAA 59.172 34.615 0.00 0.00 44.83 3.68
2237 4411 6.528537 AACATAGATGCCACATAAGCAAAA 57.471 33.333 0.00 0.00 44.83 2.44
2238 4412 6.528537 ACATAGATGCCACATAAGCAAAAA 57.471 33.333 0.00 0.00 44.83 1.94
2239 4413 7.116075 ACATAGATGCCACATAAGCAAAAAT 57.884 32.000 0.00 0.00 44.83 1.82
2240 4414 6.982141 ACATAGATGCCACATAAGCAAAAATG 59.018 34.615 0.00 0.00 44.83 2.32
2241 4415 5.664294 AGATGCCACATAAGCAAAAATGA 57.336 34.783 0.00 0.00 44.83 2.57
2242 4416 6.229936 AGATGCCACATAAGCAAAAATGAT 57.770 33.333 0.00 0.00 44.83 2.45
2243 4417 6.046593 AGATGCCACATAAGCAAAAATGATG 58.953 36.000 0.00 0.00 44.83 3.07
2244 4418 5.402997 TGCCACATAAGCAAAAATGATGA 57.597 34.783 0.00 0.00 37.28 2.92
2245 4419 5.979993 TGCCACATAAGCAAAAATGATGAT 58.020 33.333 0.00 0.00 37.28 2.45
2246 4420 5.813157 TGCCACATAAGCAAAAATGATGATG 59.187 36.000 0.00 0.00 37.28 3.07
2247 4421 5.813672 GCCACATAAGCAAAAATGATGATGT 59.186 36.000 0.00 0.00 0.00 3.06
2248 4422 6.237996 GCCACATAAGCAAAAATGATGATGTG 60.238 38.462 14.69 14.69 41.53 3.21
2249 4423 7.229228 CACATAAGCAAAAATGATGATGTGG 57.771 36.000 14.08 0.34 39.34 4.17
2250 4424 5.813672 ACATAAGCAAAAATGATGATGTGGC 59.186 36.000 0.00 0.00 0.00 5.01
2251 4425 3.965379 AGCAAAAATGATGATGTGGCA 57.035 38.095 0.00 0.00 0.00 4.92
2252 4426 4.274602 AGCAAAAATGATGATGTGGCAA 57.725 36.364 0.00 0.00 0.00 4.52
2253 4427 4.250464 AGCAAAAATGATGATGTGGCAAG 58.750 39.130 0.00 0.00 0.00 4.01
2254 4428 3.998341 GCAAAAATGATGATGTGGCAAGT 59.002 39.130 0.00 0.00 0.00 3.16
2255 4429 5.047164 AGCAAAAATGATGATGTGGCAAGTA 60.047 36.000 0.00 0.00 0.00 2.24
2256 4430 5.290158 GCAAAAATGATGATGTGGCAAGTAG 59.710 40.000 0.00 0.00 0.00 2.57
2257 4431 6.392354 CAAAAATGATGATGTGGCAAGTAGT 58.608 36.000 0.00 0.00 0.00 2.73
2258 4432 6.594788 AAAATGATGATGTGGCAAGTAGTT 57.405 33.333 0.00 0.00 0.00 2.24
2259 4433 7.701539 AAAATGATGATGTGGCAAGTAGTTA 57.298 32.000 0.00 0.00 0.00 2.24
2260 4434 7.701539 AAATGATGATGTGGCAAGTAGTTAA 57.298 32.000 0.00 0.00 0.00 2.01
2261 4435 7.886629 AATGATGATGTGGCAAGTAGTTAAT 57.113 32.000 0.00 0.00 0.00 1.40
2262 4436 6.682423 TGATGATGTGGCAAGTAGTTAATG 57.318 37.500 0.00 0.00 0.00 1.90
2263 4437 6.413892 TGATGATGTGGCAAGTAGTTAATGA 58.586 36.000 0.00 0.00 0.00 2.57
2264 4438 6.539826 TGATGATGTGGCAAGTAGTTAATGAG 59.460 38.462 0.00 0.00 0.00 2.90
2265 4439 5.185454 TGATGTGGCAAGTAGTTAATGAGG 58.815 41.667 0.00 0.00 0.00 3.86
2266 4440 4.901197 TGTGGCAAGTAGTTAATGAGGA 57.099 40.909 0.00 0.00 0.00 3.71
2267 4441 4.832248 TGTGGCAAGTAGTTAATGAGGAG 58.168 43.478 0.00 0.00 0.00 3.69
2268 4442 4.530553 TGTGGCAAGTAGTTAATGAGGAGA 59.469 41.667 0.00 0.00 0.00 3.71
2269 4443 5.112686 GTGGCAAGTAGTTAATGAGGAGAG 58.887 45.833 0.00 0.00 0.00 3.20
2270 4444 5.023452 TGGCAAGTAGTTAATGAGGAGAGA 58.977 41.667 0.00 0.00 0.00 3.10
2271 4445 5.127845 TGGCAAGTAGTTAATGAGGAGAGAG 59.872 44.000 0.00 0.00 0.00 3.20
2272 4446 5.452636 GGCAAGTAGTTAATGAGGAGAGAGG 60.453 48.000 0.00 0.00 0.00 3.69
2273 4447 5.596845 CAAGTAGTTAATGAGGAGAGAGGC 58.403 45.833 0.00 0.00 0.00 4.70
2274 4448 4.873010 AGTAGTTAATGAGGAGAGAGGCA 58.127 43.478 0.00 0.00 0.00 4.75
2275 4449 5.273208 AGTAGTTAATGAGGAGAGAGGCAA 58.727 41.667 0.00 0.00 0.00 4.52
2276 4450 5.721960 AGTAGTTAATGAGGAGAGAGGCAAA 59.278 40.000 0.00 0.00 0.00 3.68
2277 4451 5.707066 AGTTAATGAGGAGAGAGGCAAAT 57.293 39.130 0.00 0.00 0.00 2.32
2278 4452 6.814954 AGTTAATGAGGAGAGAGGCAAATA 57.185 37.500 0.00 0.00 0.00 1.40
2279 4453 6.825610 AGTTAATGAGGAGAGAGGCAAATAG 58.174 40.000 0.00 0.00 0.00 1.73
2280 4454 6.613271 AGTTAATGAGGAGAGAGGCAAATAGA 59.387 38.462 0.00 0.00 0.00 1.98
2281 4455 5.549742 AATGAGGAGAGAGGCAAATAGAG 57.450 43.478 0.00 0.00 0.00 2.43
2282 4456 3.987745 TGAGGAGAGAGGCAAATAGAGT 58.012 45.455 0.00 0.00 0.00 3.24
2283 4457 5.130705 TGAGGAGAGAGGCAAATAGAGTA 57.869 43.478 0.00 0.00 0.00 2.59
2284 4458 5.519808 TGAGGAGAGAGGCAAATAGAGTAA 58.480 41.667 0.00 0.00 0.00 2.24
2285 4459 5.361285 TGAGGAGAGAGGCAAATAGAGTAAC 59.639 44.000 0.00 0.00 0.00 2.50
2286 4460 5.273208 AGGAGAGAGGCAAATAGAGTAACA 58.727 41.667 0.00 0.00 0.00 2.41
2287 4461 5.902431 AGGAGAGAGGCAAATAGAGTAACAT 59.098 40.000 0.00 0.00 0.00 2.71
2288 4462 7.069986 AGGAGAGAGGCAAATAGAGTAACATA 58.930 38.462 0.00 0.00 0.00 2.29
2289 4463 7.565398 AGGAGAGAGGCAAATAGAGTAACATAA 59.435 37.037 0.00 0.00 0.00 1.90
2290 4464 8.371699 GGAGAGAGGCAAATAGAGTAACATAAT 58.628 37.037 0.00 0.00 0.00 1.28
2309 4483 8.479313 ACATAATATGTTACCATCACATAGCG 57.521 34.615 0.00 0.00 41.63 4.26
2310 4484 7.549134 ACATAATATGTTACCATCACATAGCGG 59.451 37.037 0.00 0.00 41.63 5.52
2311 4485 3.838244 ATGTTACCATCACATAGCGGT 57.162 42.857 0.00 0.00 32.88 5.68
2312 4486 3.620427 TGTTACCATCACATAGCGGTT 57.380 42.857 0.00 0.00 32.81 4.44
2313 4487 3.945346 TGTTACCATCACATAGCGGTTT 58.055 40.909 0.00 0.00 32.81 3.27
2314 4488 3.936453 TGTTACCATCACATAGCGGTTTC 59.064 43.478 0.00 0.00 32.81 2.78
2315 4489 2.038387 ACCATCACATAGCGGTTTCC 57.962 50.000 0.00 0.00 0.00 3.13
2316 4490 1.280710 ACCATCACATAGCGGTTTCCA 59.719 47.619 0.00 0.00 0.00 3.53
2317 4491 2.290641 ACCATCACATAGCGGTTTCCAA 60.291 45.455 0.00 0.00 0.00 3.53
2318 4492 2.951642 CCATCACATAGCGGTTTCCAAT 59.048 45.455 0.00 0.00 0.00 3.16
2319 4493 3.243168 CCATCACATAGCGGTTTCCAATG 60.243 47.826 0.00 0.00 0.00 2.82
2320 4494 1.742831 TCACATAGCGGTTTCCAATGC 59.257 47.619 0.00 0.00 0.00 3.56
2321 4495 1.472082 CACATAGCGGTTTCCAATGCA 59.528 47.619 0.00 0.00 0.00 3.96
2322 4496 2.099592 CACATAGCGGTTTCCAATGCAT 59.900 45.455 0.00 0.00 0.00 3.96
2323 4497 3.314913 CACATAGCGGTTTCCAATGCATA 59.685 43.478 0.00 0.00 0.00 3.14
2324 4498 3.951037 ACATAGCGGTTTCCAATGCATAA 59.049 39.130 0.00 0.00 0.00 1.90
2325 4499 4.584325 ACATAGCGGTTTCCAATGCATAAT 59.416 37.500 0.00 0.00 0.00 1.28
2326 4500 3.441496 AGCGGTTTCCAATGCATAATG 57.559 42.857 0.00 0.00 0.00 1.90
2327 4501 3.023119 AGCGGTTTCCAATGCATAATGA 58.977 40.909 0.00 0.00 0.00 2.57
2328 4502 3.067180 AGCGGTTTCCAATGCATAATGAG 59.933 43.478 0.00 0.00 0.00 2.90
2329 4503 3.181487 GCGGTTTCCAATGCATAATGAGT 60.181 43.478 0.00 0.00 0.00 3.41
2330 4504 4.601019 CGGTTTCCAATGCATAATGAGTC 58.399 43.478 0.00 0.00 0.00 3.36
2331 4505 4.336433 CGGTTTCCAATGCATAATGAGTCT 59.664 41.667 0.00 0.00 0.00 3.24
2332 4506 5.527214 CGGTTTCCAATGCATAATGAGTCTA 59.473 40.000 0.00 0.00 0.00 2.59
2333 4507 6.511767 CGGTTTCCAATGCATAATGAGTCTAC 60.512 42.308 0.00 0.00 0.00 2.59
2334 4508 6.318648 GGTTTCCAATGCATAATGAGTCTACA 59.681 38.462 0.00 0.00 0.00 2.74
2335 4509 7.148086 GGTTTCCAATGCATAATGAGTCTACAA 60.148 37.037 0.00 0.00 0.00 2.41
2336 4510 7.936496 TTCCAATGCATAATGAGTCTACAAA 57.064 32.000 0.00 0.00 0.00 2.83
2337 4511 7.558161 TCCAATGCATAATGAGTCTACAAAG 57.442 36.000 0.00 0.00 0.00 2.77
2338 4512 7.112122 TCCAATGCATAATGAGTCTACAAAGT 58.888 34.615 0.00 0.00 0.00 2.66
2339 4513 8.264347 TCCAATGCATAATGAGTCTACAAAGTA 58.736 33.333 0.00 0.00 0.00 2.24
2340 4514 8.892723 CCAATGCATAATGAGTCTACAAAGTAA 58.107 33.333 0.00 0.00 0.00 2.24
2351 4525 9.162764 TGAGTCTACAAAGTAATAAATGAAGGC 57.837 33.333 0.00 0.00 0.00 4.35
2352 4526 9.162764 GAGTCTACAAAGTAATAAATGAAGGCA 57.837 33.333 0.00 0.00 0.00 4.75
2353 4527 9.515226 AGTCTACAAAGTAATAAATGAAGGCAA 57.485 29.630 0.00 0.00 0.00 4.52
2354 4528 9.556030 GTCTACAAAGTAATAAATGAAGGCAAC 57.444 33.333 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.815840 GCCTCCCTCGTAGCAAAGC 60.816 63.158 0.00 0.00 0.00 3.51
17 18 1.599576 GTCTCACTTGGCCTCCCTC 59.400 63.158 3.32 0.00 0.00 4.30
20 21 0.322008 CTTGGTCTCACTTGGCCTCC 60.322 60.000 3.32 0.00 0.00 4.30
31 32 0.741221 CAAGCGGTAGCCTTGGTCTC 60.741 60.000 12.59 0.00 46.67 3.36
32 33 1.296715 CAAGCGGTAGCCTTGGTCT 59.703 57.895 12.59 0.00 46.67 3.85
35 36 1.450312 CTCCAAGCGGTAGCCTTGG 60.450 63.158 24.70 24.70 46.67 3.61
37 38 1.296715 CACTCCAAGCGGTAGCCTT 59.703 57.895 0.00 0.00 46.67 4.35
45 46 2.664851 TTGCGTCCACTCCAAGCG 60.665 61.111 0.00 0.00 0.00 4.68
49 50 0.531974 GTCTTGTTGCGTCCACTCCA 60.532 55.000 0.00 0.00 0.00 3.86
54 55 1.525077 GGGTGTCTTGTTGCGTCCA 60.525 57.895 0.00 0.00 0.00 4.02
62 63 2.371841 TGCTGTATTGAGGGTGTCTTGT 59.628 45.455 0.00 0.00 0.00 3.16
79 80 1.413767 CGATTCCCGACGTCTTGCTG 61.414 60.000 14.70 0.00 41.76 4.41
102 103 4.570663 CGGCATCCCCTCGACGAC 62.571 72.222 0.00 0.00 0.00 4.34
119 120 0.394352 CTTGGTCCAGTGGGTATGGC 60.394 60.000 9.92 0.00 37.76 4.40
124 125 0.540365 CATTGCTTGGTCCAGTGGGT 60.540 55.000 9.92 0.00 34.93 4.51
144 145 1.029681 ATCATAGTGTAGCGGCGACA 58.970 50.000 12.98 12.00 0.00 4.35
156 157 4.078922 TCAACTCCTCTCCTCCATCATAGT 60.079 45.833 0.00 0.00 0.00 2.12
158 159 4.542906 TCAACTCCTCTCCTCCATCATA 57.457 45.455 0.00 0.00 0.00 2.15
163 164 2.573462 CCATTTCAACTCCTCTCCTCCA 59.427 50.000 0.00 0.00 0.00 3.86
230 231 0.036164 ATGCGTTGTGGCTCTTACCA 59.964 50.000 0.00 0.00 37.38 3.25
259 260 4.688419 TCGAACGACGGTGGCGAC 62.688 66.667 0.00 0.00 42.82 5.19
260 261 4.688419 GTCGAACGACGGTGGCGA 62.688 66.667 11.38 0.00 42.82 5.54
279 280 4.141937 ACATCATAAAGAGCTAAGCACGGA 60.142 41.667 0.00 0.00 0.00 4.69
283 284 6.179756 TCCAAACATCATAAAGAGCTAAGCA 58.820 36.000 0.00 0.00 0.00 3.91
319 320 1.535462 CTTGGACCGCGAAAATGAACT 59.465 47.619 8.23 0.00 0.00 3.01
339 340 7.609760 TGGATAATATCGCCATACAATGTTC 57.390 36.000 0.00 0.00 0.00 3.18
350 351 4.051922 CCTCGCTAATGGATAATATCGCC 58.948 47.826 0.00 0.00 0.00 5.54
414 415 6.596869 TTCCAGATAGGGGAAAATCATCTT 57.403 37.500 0.00 0.00 41.30 2.40
453 515 9.442062 TTCCTACCAATCATATAGTGTTCCTTA 57.558 33.333 0.00 0.00 0.00 2.69
477 539 8.465201 AGATTGCCAGAATTCAGAATAACTTTC 58.535 33.333 8.44 0.00 0.00 2.62
582 777 6.769822 ACCTGGCTACAATTATCTCTTGATTG 59.230 38.462 0.00 0.00 36.95 2.67
600 795 0.622665 CATTCTCCCTGAACCTGGCT 59.377 55.000 0.00 0.00 37.52 4.75
605 800 1.065126 CCTCCACATTCTCCCTGAACC 60.065 57.143 0.00 0.00 37.52 3.62
624 819 2.674796 TTCTCCTAAAGAAGCTCGCC 57.325 50.000 0.00 0.00 39.12 5.54
663 862 1.893919 GCACCTCTCTCCACTGGTCC 61.894 65.000 0.00 0.00 0.00 4.46
779 981 2.158885 GCAAGGGATCTCTCCAGGTAAC 60.159 54.545 0.00 0.00 44.08 2.50
793 995 2.025793 TGAAATTACATCCGGCAAGGGA 60.026 45.455 0.00 0.00 41.52 4.20
999 1203 2.357154 GCAACCCACTATCCTCCACATT 60.357 50.000 0.00 0.00 0.00 2.71
1010 1214 1.752683 ACACAAAACGCAACCCACTA 58.247 45.000 0.00 0.00 0.00 2.74
1017 1221 5.294799 ACAACTATCTGTACACAAAACGCAA 59.705 36.000 0.00 0.00 0.00 4.85
1027 1231 3.423749 TGTCCGGACAACTATCTGTACA 58.576 45.455 34.60 7.29 38.56 2.90
1045 2099 7.489113 CCAAATAAAGTATTGCCACAGATTGTC 59.511 37.037 0.00 0.00 0.00 3.18
1066 2120 7.405292 TCAGGAAGATAGAAATGACACCAAAT 58.595 34.615 0.00 0.00 0.00 2.32
1067 2121 6.778821 TCAGGAAGATAGAAATGACACCAAA 58.221 36.000 0.00 0.00 0.00 3.28
1079 2133 3.181413 CCTCTCCCCATCAGGAAGATAGA 60.181 52.174 0.00 0.00 38.24 1.98
1195 2434 3.141398 CACAAGCAGAGTACACCACATT 58.859 45.455 0.00 0.00 0.00 2.71
1300 2979 4.431809 CAGATTCTCATCAAGCTCGAAGT 58.568 43.478 0.00 0.00 0.00 3.01
1309 2988 2.160219 GTGCAACGCAGATTCTCATCAA 59.840 45.455 0.00 0.00 40.08 2.57
1325 3004 4.733371 TCGCATCGCTCGGTGCAA 62.733 61.111 24.43 6.18 41.32 4.08
1370 3090 1.135402 CCCGTTAAAAGCCATCTGCAC 60.135 52.381 0.00 0.00 44.83 4.57
1402 3128 1.475403 AGATCGCGAGGAGGAAGAAA 58.525 50.000 16.66 0.00 0.00 2.52
1422 3566 5.702670 CAGCTAAAAGTCATTGTCCTCAGAA 59.297 40.000 0.00 0.00 0.00 3.02
1427 3571 3.997021 CGACAGCTAAAAGTCATTGTCCT 59.003 43.478 3.18 0.00 34.48 3.85
1428 3572 3.424962 GCGACAGCTAAAAGTCATTGTCC 60.425 47.826 3.18 0.00 41.01 4.02
1430 3574 3.138304 TGCGACAGCTAAAAGTCATTGT 58.862 40.909 3.18 0.00 45.42 2.71
1473 3617 5.997843 TCACAGACAGCCATACTACTAGTA 58.002 41.667 1.89 1.89 34.82 1.82
1550 3699 5.856455 CCAACATCTAAACCGTTCAAATCAC 59.144 40.000 0.00 0.00 0.00 3.06
1618 3777 1.817881 ACGAACACCCGTCAACAGA 59.182 52.632 0.00 0.00 38.56 3.41
1635 3794 2.159517 GCATCACTGGAAAATCCACGAC 60.160 50.000 0.00 0.00 42.67 4.34
1642 3801 3.056322 GGCTCAAAGCATCACTGGAAAAT 60.056 43.478 0.86 0.00 44.75 1.82
1657 3816 2.366153 AAAGGGGAAGCGGGCTCAAA 62.366 55.000 0.00 0.00 0.00 2.69
1805 3965 3.502979 GGAGTAAAACGCACCATTGGTAA 59.497 43.478 8.31 0.00 32.11 2.85
1806 3966 3.075884 GGAGTAAAACGCACCATTGGTA 58.924 45.455 8.31 0.00 32.11 3.25
1807 3967 1.883926 GGAGTAAAACGCACCATTGGT 59.116 47.619 1.37 1.37 35.62 3.67
1810 3970 3.134574 TCAGGAGTAAAACGCACCATT 57.865 42.857 0.00 0.00 0.00 3.16
1885 4045 1.128692 CGGAACAGAAATGTCGGCTTC 59.871 52.381 0.00 0.00 0.00 3.86
1887 4047 1.298859 GCGGAACAGAAATGTCGGCT 61.299 55.000 0.00 0.00 0.00 5.52
1920 4080 1.006102 AGAACGCAACAGGACTCGG 60.006 57.895 0.00 0.00 0.00 4.63
1940 4100 6.401153 GGTCAGTGAAGAAAAACGCATACTAG 60.401 42.308 0.00 0.00 0.00 2.57
1942 4102 4.213482 GGTCAGTGAAGAAAAACGCATACT 59.787 41.667 0.00 0.00 0.00 2.12
1943 4103 4.464112 GGTCAGTGAAGAAAAACGCATAC 58.536 43.478 0.00 0.00 0.00 2.39
2000 4169 0.979665 TAGGATGGATGGCTAGCTGC 59.020 55.000 15.72 1.06 41.94 5.25
2001 4170 3.106054 AGATAGGATGGATGGCTAGCTG 58.894 50.000 15.72 0.00 0.00 4.24
2002 4171 3.488355 AGATAGGATGGATGGCTAGCT 57.512 47.619 15.72 0.00 0.00 3.32
2003 4172 3.386402 GGTAGATAGGATGGATGGCTAGC 59.614 52.174 6.04 6.04 0.00 3.42
2004 4173 3.964031 GGGTAGATAGGATGGATGGCTAG 59.036 52.174 0.00 0.00 0.00 3.42
2184 4358 5.746990 ATATTACTCCCACTATGACCAGC 57.253 43.478 0.00 0.00 0.00 4.85
2185 4359 8.830915 ATCTATATTACTCCCACTATGACCAG 57.169 38.462 0.00 0.00 0.00 4.00
2186 4360 9.922477 CTATCTATATTACTCCCACTATGACCA 57.078 37.037 0.00 0.00 0.00 4.02
2187 4361 9.924010 ACTATCTATATTACTCCCACTATGACC 57.076 37.037 0.00 0.00 0.00 4.02
2207 4381 8.037758 GCTTATGTGGCATCTATGTTACTATCT 58.962 37.037 0.00 0.00 0.00 1.98
2208 4382 7.819415 TGCTTATGTGGCATCTATGTTACTATC 59.181 37.037 0.00 0.00 34.56 2.08
2209 4383 7.679783 TGCTTATGTGGCATCTATGTTACTAT 58.320 34.615 0.00 0.00 34.56 2.12
2210 4384 7.061566 TGCTTATGTGGCATCTATGTTACTA 57.938 36.000 0.00 0.00 34.56 1.82
2211 4385 5.928976 TGCTTATGTGGCATCTATGTTACT 58.071 37.500 0.00 0.00 34.56 2.24
2212 4386 6.618287 TTGCTTATGTGGCATCTATGTTAC 57.382 37.500 0.00 0.00 39.54 2.50
2213 4387 7.637631 TTTTGCTTATGTGGCATCTATGTTA 57.362 32.000 0.00 0.00 39.54 2.41
2214 4388 6.528537 TTTTGCTTATGTGGCATCTATGTT 57.471 33.333 0.00 0.00 39.54 2.71
2215 4389 6.528537 TTTTTGCTTATGTGGCATCTATGT 57.471 33.333 0.00 0.00 39.54 2.29
2216 4390 7.204604 TCATTTTTGCTTATGTGGCATCTATG 58.795 34.615 0.00 0.00 39.54 2.23
2217 4391 7.350744 TCATTTTTGCTTATGTGGCATCTAT 57.649 32.000 0.00 0.00 39.54 1.98
2218 4392 6.772360 TCATTTTTGCTTATGTGGCATCTA 57.228 33.333 0.00 0.00 39.54 1.98
2219 4393 5.664294 TCATTTTTGCTTATGTGGCATCT 57.336 34.783 0.00 0.00 39.54 2.90
2220 4394 6.044046 TCATCATTTTTGCTTATGTGGCATC 58.956 36.000 0.00 0.00 39.54 3.91
2221 4395 5.979993 TCATCATTTTTGCTTATGTGGCAT 58.020 33.333 0.00 0.00 39.54 4.40
2222 4396 5.402997 TCATCATTTTTGCTTATGTGGCA 57.597 34.783 0.00 0.00 37.97 4.92
2223 4397 5.813672 ACATCATCATTTTTGCTTATGTGGC 59.186 36.000 0.00 0.00 0.00 5.01
2224 4398 7.229228 CACATCATCATTTTTGCTTATGTGG 57.771 36.000 0.00 0.00 39.34 4.17
2225 4399 6.237996 GCCACATCATCATTTTTGCTTATGTG 60.238 38.462 0.00 0.00 41.50 3.21
2226 4400 5.813672 GCCACATCATCATTTTTGCTTATGT 59.186 36.000 0.00 0.00 0.00 2.29
2227 4401 5.813157 TGCCACATCATCATTTTTGCTTATG 59.187 36.000 0.00 0.00 0.00 1.90
2228 4402 5.979993 TGCCACATCATCATTTTTGCTTAT 58.020 33.333 0.00 0.00 0.00 1.73
2229 4403 5.402997 TGCCACATCATCATTTTTGCTTA 57.597 34.783 0.00 0.00 0.00 3.09
2230 4404 4.274602 TGCCACATCATCATTTTTGCTT 57.725 36.364 0.00 0.00 0.00 3.91
2231 4405 3.965379 TGCCACATCATCATTTTTGCT 57.035 38.095 0.00 0.00 0.00 3.91
2232 4406 3.998341 ACTTGCCACATCATCATTTTTGC 59.002 39.130 0.00 0.00 0.00 3.68
2233 4407 6.392354 ACTACTTGCCACATCATCATTTTTG 58.608 36.000 0.00 0.00 0.00 2.44
2234 4408 6.594788 ACTACTTGCCACATCATCATTTTT 57.405 33.333 0.00 0.00 0.00 1.94
2235 4409 6.594788 AACTACTTGCCACATCATCATTTT 57.405 33.333 0.00 0.00 0.00 1.82
2236 4410 7.701539 TTAACTACTTGCCACATCATCATTT 57.298 32.000 0.00 0.00 0.00 2.32
2237 4411 7.557358 TCATTAACTACTTGCCACATCATCATT 59.443 33.333 0.00 0.00 0.00 2.57
2238 4412 7.056006 TCATTAACTACTTGCCACATCATCAT 58.944 34.615 0.00 0.00 0.00 2.45
2239 4413 6.413892 TCATTAACTACTTGCCACATCATCA 58.586 36.000 0.00 0.00 0.00 3.07
2240 4414 6.017605 CCTCATTAACTACTTGCCACATCATC 60.018 42.308 0.00 0.00 0.00 2.92
2241 4415 5.824624 CCTCATTAACTACTTGCCACATCAT 59.175 40.000 0.00 0.00 0.00 2.45
2242 4416 5.045942 TCCTCATTAACTACTTGCCACATCA 60.046 40.000 0.00 0.00 0.00 3.07
2243 4417 5.428253 TCCTCATTAACTACTTGCCACATC 58.572 41.667 0.00 0.00 0.00 3.06
2244 4418 5.189736 TCTCCTCATTAACTACTTGCCACAT 59.810 40.000 0.00 0.00 0.00 3.21
2245 4419 4.530553 TCTCCTCATTAACTACTTGCCACA 59.469 41.667 0.00 0.00 0.00 4.17
2246 4420 5.086104 TCTCCTCATTAACTACTTGCCAC 57.914 43.478 0.00 0.00 0.00 5.01
2247 4421 5.023452 TCTCTCCTCATTAACTACTTGCCA 58.977 41.667 0.00 0.00 0.00 4.92
2248 4422 5.452636 CCTCTCTCCTCATTAACTACTTGCC 60.453 48.000 0.00 0.00 0.00 4.52
2249 4423 5.596845 CCTCTCTCCTCATTAACTACTTGC 58.403 45.833 0.00 0.00 0.00 4.01
2250 4424 5.127845 TGCCTCTCTCCTCATTAACTACTTG 59.872 44.000 0.00 0.00 0.00 3.16
2251 4425 5.273208 TGCCTCTCTCCTCATTAACTACTT 58.727 41.667 0.00 0.00 0.00 2.24
2252 4426 4.873010 TGCCTCTCTCCTCATTAACTACT 58.127 43.478 0.00 0.00 0.00 2.57
2253 4427 5.599999 TTGCCTCTCTCCTCATTAACTAC 57.400 43.478 0.00 0.00 0.00 2.73
2254 4428 6.814954 ATTTGCCTCTCTCCTCATTAACTA 57.185 37.500 0.00 0.00 0.00 2.24
2255 4429 5.707066 ATTTGCCTCTCTCCTCATTAACT 57.293 39.130 0.00 0.00 0.00 2.24
2256 4430 6.821388 TCTATTTGCCTCTCTCCTCATTAAC 58.179 40.000 0.00 0.00 0.00 2.01
2257 4431 6.613271 ACTCTATTTGCCTCTCTCCTCATTAA 59.387 38.462 0.00 0.00 0.00 1.40
2258 4432 6.139671 ACTCTATTTGCCTCTCTCCTCATTA 58.860 40.000 0.00 0.00 0.00 1.90
2259 4433 4.968080 ACTCTATTTGCCTCTCTCCTCATT 59.032 41.667 0.00 0.00 0.00 2.57
2260 4434 4.555689 ACTCTATTTGCCTCTCTCCTCAT 58.444 43.478 0.00 0.00 0.00 2.90
2261 4435 3.987745 ACTCTATTTGCCTCTCTCCTCA 58.012 45.455 0.00 0.00 0.00 3.86
2262 4436 5.361285 TGTTACTCTATTTGCCTCTCTCCTC 59.639 44.000 0.00 0.00 0.00 3.71
2263 4437 5.273208 TGTTACTCTATTTGCCTCTCTCCT 58.727 41.667 0.00 0.00 0.00 3.69
2264 4438 5.599999 TGTTACTCTATTTGCCTCTCTCC 57.400 43.478 0.00 0.00 0.00 3.71
2293 4467 3.311596 GGAAACCGCTATGTGATGGTAAC 59.688 47.826 0.00 0.00 33.45 2.50
2294 4468 3.055021 TGGAAACCGCTATGTGATGGTAA 60.055 43.478 0.00 0.00 33.45 2.85
2295 4469 2.502130 TGGAAACCGCTATGTGATGGTA 59.498 45.455 0.00 0.00 33.45 3.25
2296 4470 1.280710 TGGAAACCGCTATGTGATGGT 59.719 47.619 0.00 0.00 35.90 3.55
2297 4471 2.036958 TGGAAACCGCTATGTGATGG 57.963 50.000 0.00 0.00 0.00 3.51
2298 4472 3.793129 GCATTGGAAACCGCTATGTGATG 60.793 47.826 0.00 0.00 0.00 3.07
2299 4473 2.358898 GCATTGGAAACCGCTATGTGAT 59.641 45.455 0.00 0.00 0.00 3.06
2300 4474 1.742831 GCATTGGAAACCGCTATGTGA 59.257 47.619 0.00 0.00 0.00 3.58
2301 4475 1.472082 TGCATTGGAAACCGCTATGTG 59.528 47.619 0.00 0.00 0.00 3.21
2302 4476 1.832883 TGCATTGGAAACCGCTATGT 58.167 45.000 0.00 0.00 0.00 2.29
2303 4477 4.566545 TTATGCATTGGAAACCGCTATG 57.433 40.909 3.54 0.00 0.00 2.23
2304 4478 4.826733 TCATTATGCATTGGAAACCGCTAT 59.173 37.500 3.54 0.00 0.00 2.97
2305 4479 4.203226 TCATTATGCATTGGAAACCGCTA 58.797 39.130 3.54 0.00 0.00 4.26
2306 4480 3.023119 TCATTATGCATTGGAAACCGCT 58.977 40.909 3.54 0.00 0.00 5.52
2307 4481 3.181487 ACTCATTATGCATTGGAAACCGC 60.181 43.478 3.54 0.00 0.00 5.68
2308 4482 4.336433 AGACTCATTATGCATTGGAAACCG 59.664 41.667 3.54 0.00 0.00 4.44
2309 4483 5.841957 AGACTCATTATGCATTGGAAACC 57.158 39.130 3.54 0.00 0.00 3.27
2310 4484 7.320443 TGTAGACTCATTATGCATTGGAAAC 57.680 36.000 3.54 0.00 0.00 2.78
2311 4485 7.936496 TTGTAGACTCATTATGCATTGGAAA 57.064 32.000 3.54 0.00 0.00 3.13
2312 4486 7.611467 ACTTTGTAGACTCATTATGCATTGGAA 59.389 33.333 3.54 0.00 0.00 3.53
2313 4487 7.112122 ACTTTGTAGACTCATTATGCATTGGA 58.888 34.615 3.54 0.00 0.00 3.53
2314 4488 7.325660 ACTTTGTAGACTCATTATGCATTGG 57.674 36.000 3.54 0.00 0.00 3.16
2325 4499 9.162764 GCCTTCATTTATTACTTTGTAGACTCA 57.837 33.333 0.00 0.00 0.00 3.41
2326 4500 9.162764 TGCCTTCATTTATTACTTTGTAGACTC 57.837 33.333 0.00 0.00 0.00 3.36
2327 4501 9.515226 TTGCCTTCATTTATTACTTTGTAGACT 57.485 29.630 0.00 0.00 0.00 3.24
2328 4502 9.556030 GTTGCCTTCATTTATTACTTTGTAGAC 57.444 33.333 0.00 0.00 0.00 2.59
2329 4503 9.515226 AGTTGCCTTCATTTATTACTTTGTAGA 57.485 29.630 0.00 0.00 0.00 2.59



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

AutoCloner maintained by Alex Coulton.