Multiple sequence alignment - TraesCS7B01G474300

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 TraesCS7B01G474300 chr7B 100.000 3737 0 0 1 3737 730400766 730397030 0.000000e+00 6902.0
1 TraesCS7B01G474300 chr7B 88.430 1115 87 17 2402 3496 730485294 730486386 0.000000e+00 1306.0
2 TraesCS7B01G474300 chr7B 89.583 384 40 0 1931 2314 730484910 730485293 4.340000e-134 488.0
3 TraesCS7B01G474300 chr7B 84.064 251 28 6 2779 3028 730508989 730509228 8.070000e-57 231.0
4 TraesCS7B01G474300 chr7B 80.315 127 16 8 3303 3428 730805884 730806002 1.850000e-13 87.9
5 TraesCS7B01G474300 chr7D 92.679 2814 159 22 643 3445 628522458 628519681 0.000000e+00 4012.0
6 TraesCS7B01G474300 chr7D 85.133 565 71 9 3 555 628523214 628522651 1.950000e-157 566.0
7 TraesCS7B01G474300 chr7D 88.961 462 34 7 3055 3515 628512935 628512490 4.220000e-154 555.0
8 TraesCS7B01G474300 chr7D 90.054 372 34 1 2337 2708 628517849 628517481 2.610000e-131 479.0
9 TraesCS7B01G474300 chr7D 90.640 203 11 4 2859 3059 628517466 628517270 2.860000e-66 263.0
10 TraesCS7B01G474300 chr7D 88.000 100 12 0 3526 3625 512735704 512735605 6.560000e-23 119.0
11 TraesCS7B01G474300 chr7A 91.422 2891 180 28 644 3506 724652571 724655421 0.000000e+00 3903.0
12 TraesCS7B01G474300 chr7A 85.981 642 78 9 1 636 724650957 724651592 0.000000e+00 676.0
13 TraesCS7B01G474300 chr7A 86.264 364 37 7 234 584 724652129 724652492 2.110000e-102 383.0
14 TraesCS7B01G474300 chr7A 87.500 168 19 2 4 170 724651952 724652118 3.810000e-45 193.0
15 TraesCS7B01G474300 chr7A 86.111 72 7 2 617 687 724651602 724651671 1.440000e-09 75.0
16 TraesCS7B01G474300 chr6B 76.630 1472 292 32 1255 2703 619032415 619030973 0.000000e+00 765.0
17 TraesCS7B01G474300 chr6A 76.351 1480 290 34 1252 2703 556558602 556557155 0.000000e+00 739.0
18 TraesCS7B01G474300 chr6A 87.264 212 26 1 3526 3737 515408721 515408931 1.340000e-59 241.0
19 TraesCS7B01G474300 chr6D 75.835 1407 278 37 1331 2703 411673735 411672357 0.000000e+00 658.0
20 TraesCS7B01G474300 chr6D 90.566 53 5 0 1586 1638 135110376 135110324 1.860000e-08 71.3
21 TraesCS7B01G474300 chr2A 86.792 212 28 0 3526 3737 199278498 199278709 1.730000e-58 237.0
22 TraesCS7B01G474300 chr2A 82.178 202 33 3 3522 3721 772231312 772231112 1.780000e-38 171.0
23 TraesCS7B01G474300 chr2A 85.882 85 10 2 3529 3612 437972240 437972157 5.140000e-14 89.8
24 TraesCS7B01G474300 chr5B 82.209 163 27 2 3528 3689 233240625 233240464 5.030000e-29 139.0
25 TraesCS7B01G474300 chr4B 80.952 126 22 2 3545 3669 387391312 387391188 8.540000e-17 99.0
26 TraesCS7B01G474300 chrUn 80.315 127 16 8 3303 3428 425700511 425700629 1.850000e-13 87.9
27 TraesCS7B01G474300 chr4D 84.270 89 10 2 3515 3603 97602935 97603019 2.390000e-12 84.2
28 TraesCS7B01G474300 chr4D 84.270 89 10 2 3515 3603 97716362 97716446 2.390000e-12 84.2
29 TraesCS7B01G474300 chr5D 94.340 53 3 0 1586 1638 137015499 137015447 8.600000e-12 82.4


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 TraesCS7B01G474300 chr7B 730397030 730400766 3736 True 6902 6902 100.0000 1 3737 1 chr7B.!!$R1 3736
1 TraesCS7B01G474300 chr7B 730484910 730486386 1476 False 897 1306 89.0065 1931 3496 2 chr7B.!!$F3 1565
2 TraesCS7B01G474300 chr7D 628517270 628523214 5944 True 1330 4012 89.6265 3 3445 4 chr7D.!!$R3 3442
3 TraesCS7B01G474300 chr7A 724650957 724655421 4464 False 1046 3903 87.4556 1 3506 5 chr7A.!!$F1 3505
4 TraesCS7B01G474300 chr6B 619030973 619032415 1442 True 765 765 76.6300 1255 2703 1 chr6B.!!$R1 1448
5 TraesCS7B01G474300 chr6A 556557155 556558602 1447 True 739 739 76.3510 1252 2703 1 chr6A.!!$R1 1451
6 TraesCS7B01G474300 chr6D 411672357 411673735 1378 True 658 658 75.8350 1331 2703 1 chr6D.!!$R2 1372

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
911 1990 0.040692 GACTCCGTTGGTTTTTCGCC 60.041 55.0 0.00 0.0 0.0 5.54 F
967 2046 0.314302 CGGCGATCGTCCCTTAATCT 59.686 55.0 15.14 0.0 0.0 2.40 F
1893 3008 0.385751 CGCCGGAGAAGAAGCTGATA 59.614 55.0 5.05 0.0 0.0 2.15 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2250 3365 1.003839 GCACCTCATTGACACCCGA 60.004 57.895 0.0 0.0 0.0 5.14 R
2406 3521 1.293924 GGAGCGTGAAGTGATGGATG 58.706 55.000 0.0 0.0 0.0 3.51 R
3525 5031 0.036732 AACTCCGAGCAATGCCTTCA 59.963 50.000 0.0 0.0 0.0 3.02 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
22 23 5.629079 CTGATTCAAACTACTTCAACCCC 57.371 43.478 0.00 0.00 0.00 4.95
26 27 1.804748 CAAACTACTTCAACCCCGAGC 59.195 52.381 0.00 0.00 0.00 5.03
35 36 2.877866 TCAACCCCGAGCCAAAATTAA 58.122 42.857 0.00 0.00 0.00 1.40
37 38 3.835395 TCAACCCCGAGCCAAAATTAAAT 59.165 39.130 0.00 0.00 0.00 1.40
44 45 6.215845 CCCGAGCCAAAATTAAATTGATAGG 58.784 40.000 6.06 4.74 0.00 2.57
63 64 9.905713 TTGATAGGTGATTAATTAAGCAACTCT 57.094 29.630 31.39 23.89 45.54 3.24
128 129 7.344913 TGTTGTTACTTTTAGGACACCCTTAA 58.655 34.615 0.00 0.00 40.78 1.85
129 130 8.000127 TGTTGTTACTTTTAGGACACCCTTAAT 59.000 33.333 0.00 0.00 40.78 1.40
143 144 2.030628 CCCTTAATTGGCGAACGTTTGT 60.031 45.455 16.75 0.00 0.00 2.83
156 157 1.844130 GTTTGTCAGGGAGGGTGGT 59.156 57.895 0.00 0.00 0.00 4.16
171 172 2.477189 GGGTGGTATTTGCGAACGATTG 60.477 50.000 0.00 0.00 0.00 2.67
180 181 1.696832 GCGAACGATTGCCTGGAGTC 61.697 60.000 0.00 0.00 0.00 3.36
181 182 1.413767 CGAACGATTGCCTGGAGTCG 61.414 60.000 0.00 6.07 39.78 4.18
192 193 1.887198 CCTGGAGTCGTAGTTGTGAGT 59.113 52.381 0.00 0.00 0.00 3.41
205 206 0.188587 TGTGAGTGAGTGGGGAGAGT 59.811 55.000 0.00 0.00 0.00 3.24
213 214 1.003233 GTGGGGAGAGTTGGCAGTC 60.003 63.158 0.00 0.00 0.00 3.51
229 230 2.407090 CAGTCTCAACAAGCGACATGA 58.593 47.619 0.00 0.00 34.40 3.07
231 232 4.176271 CAGTCTCAACAAGCGACATGATA 58.824 43.478 0.00 0.00 34.40 2.15
255 257 3.942130 CTTCCCGAGAAGGCAATTTTT 57.058 42.857 0.00 0.00 44.97 1.94
260 262 3.740832 CCCGAGAAGGCAATTTTTGTTTC 59.259 43.478 0.00 0.00 39.21 2.78
266 269 7.221838 CGAGAAGGCAATTTTTGTTTCAAACTA 59.778 33.333 1.10 0.00 32.51 2.24
294 297 8.251114 CGTCGTTTGATCTCGTTTTATAACTAG 58.749 37.037 0.00 0.00 31.89 2.57
324 327 2.666619 GCAAAGATGGTTCGCTTGACAG 60.667 50.000 0.00 0.00 0.00 3.51
330 333 1.295423 GTTCGCTTGACAGCCCCTA 59.705 57.895 0.00 0.00 44.06 3.53
386 392 9.912634 ATAGTTTTGATGTTACATCTTTTGTGG 57.087 29.630 23.48 0.00 39.48 4.17
411 417 6.219473 AGAGTCACTCAAAGACATGTGTTAG 58.781 40.000 8.88 6.33 38.46 2.34
414 420 4.511454 TCACTCAAAGACATGTGTTAGTGC 59.489 41.667 23.92 2.75 34.51 4.40
420 426 6.368791 TCAAAGACATGTGTTAGTGCACTATC 59.631 38.462 26.54 24.37 39.89 2.08
483 489 2.813779 GCGACAAAGCCAACATCTAG 57.186 50.000 0.00 0.00 0.00 2.43
486 499 3.242543 GCGACAAAGCCAACATCTAGATG 60.243 47.826 27.63 27.63 44.15 2.90
519 533 5.611374 TGATTGAAACGAGGAAGAAGAGTT 58.389 37.500 0.00 0.00 0.00 3.01
555 571 6.987403 TGTAAATTTAAAAAGCACTCCCCT 57.013 33.333 0.00 0.00 0.00 4.79
556 572 8.480133 TTGTAAATTTAAAAAGCACTCCCCTA 57.520 30.769 0.00 0.00 0.00 3.53
568 594 3.810743 GCACTCCCCTAGTCACACAAATT 60.811 47.826 0.00 0.00 35.76 1.82
610 690 5.627780 CCGTAAAAAGGTATGCAGTGAAAAC 59.372 40.000 0.00 0.00 0.00 2.43
620 700 5.799681 ATGCAGTGAAAACAACCTTTTTG 57.200 34.783 0.00 0.00 0.00 2.44
626 709 4.569162 GTGAAAACAACCTTTTTGTAGGGC 59.431 41.667 0.00 0.00 39.76 5.19
636 719 5.182487 CCTTTTTGTAGGGCAAAGTTTGTT 58.818 37.500 16.70 6.14 46.40 2.83
641 763 9.535878 TTTTTGTAGGGCAAAGTTTGTTAATAG 57.464 29.630 16.70 0.00 46.40 1.73
672 794 4.567959 ACTGCAATTTTCAAAACAGAGTGC 59.432 37.500 6.09 2.80 0.00 4.40
735 1805 7.172875 TCCTTTATCTACGTCTTATCTCTTCCG 59.827 40.741 0.00 0.00 0.00 4.30
740 1810 1.597445 CGTCTTATCTCTTCCGTCGCC 60.597 57.143 0.00 0.00 0.00 5.54
742 1812 0.661552 CTTATCTCTTCCGTCGCCGA 59.338 55.000 0.00 0.00 35.63 5.54
750 1820 1.216941 TTCCGTCGCCGAGTTTGTTC 61.217 55.000 0.00 0.00 35.63 3.18
763 1833 6.292008 GCCGAGTTTGTTCCTATAATTACGTC 60.292 42.308 0.00 0.00 0.00 4.34
768 1838 6.389830 TTGTTCCTATAATTACGTCGGCTA 57.610 37.500 0.00 0.00 0.00 3.93
769 1839 5.762045 TGTTCCTATAATTACGTCGGCTAC 58.238 41.667 0.00 0.00 0.00 3.58
792 1863 6.334202 ACTCGAGCTTTCCTAAACTAATCAG 58.666 40.000 13.61 0.00 0.00 2.90
880 1958 2.266055 GGGAACGGCCTCTGACTG 59.734 66.667 0.00 0.00 36.66 3.51
881 1959 2.435059 GGAACGGCCTCTGACTGC 60.435 66.667 0.00 0.00 0.00 4.40
908 1987 3.620929 GGAAGACTCCGTTGGTTTTTC 57.379 47.619 0.00 0.00 30.03 2.29
911 1990 0.040692 GACTCCGTTGGTTTTTCGCC 60.041 55.000 0.00 0.00 0.00 5.54
964 2043 1.753848 TCCGGCGATCGTCCCTTAA 60.754 57.895 15.14 0.00 37.11 1.85
965 2044 1.111116 TCCGGCGATCGTCCCTTAAT 61.111 55.000 15.14 0.00 37.11 1.40
967 2046 0.314302 CGGCGATCGTCCCTTAATCT 59.686 55.000 15.14 0.00 0.00 2.40
968 2047 1.269621 CGGCGATCGTCCCTTAATCTT 60.270 52.381 15.14 0.00 0.00 2.40
969 2048 2.030540 CGGCGATCGTCCCTTAATCTTA 60.031 50.000 15.14 0.00 0.00 2.10
971 2050 4.174762 GGCGATCGTCCCTTAATCTTATC 58.825 47.826 17.81 0.00 0.00 1.75
972 2051 4.174762 GCGATCGTCCCTTAATCTTATCC 58.825 47.826 17.81 0.00 0.00 2.59
973 2052 4.745649 CGATCGTCCCTTAATCTTATCCC 58.254 47.826 7.03 0.00 0.00 3.85
976 2055 2.612221 CGTCCCTTAATCTTATCCCCGC 60.612 54.545 0.00 0.00 0.00 6.13
1203 2285 2.671963 GCCGTCAAAGGGACCACC 60.672 66.667 0.00 0.00 43.95 4.61
1516 2604 1.755380 AGATTAGTACCGCCACCAGTC 59.245 52.381 0.00 0.00 0.00 3.51
1517 2605 1.479323 GATTAGTACCGCCACCAGTCA 59.521 52.381 0.00 0.00 0.00 3.41
1893 3008 0.385751 CGCCGGAGAAGAAGCTGATA 59.614 55.000 5.05 0.00 0.00 2.15
2188 3303 2.069775 TCTCCCCAAGATGGAACCAAA 58.930 47.619 0.00 0.00 40.96 3.28
2223 3338 1.910580 AATCCATGCTCCGGTCGGTT 61.911 55.000 9.36 0.00 36.47 4.44
2232 3347 1.407618 CTCCGGTCGGTTGTATCATCA 59.592 52.381 9.36 0.00 36.47 3.07
2234 3349 1.209128 CGGTCGGTTGTATCATCAGC 58.791 55.000 0.00 0.00 0.00 4.26
2406 3521 1.803519 CGACTCGCTGCTCAACTCC 60.804 63.158 0.00 0.00 0.00 3.85
2466 3582 4.681978 AGCAAGCGGGTCCGTGTC 62.682 66.667 11.25 0.00 42.09 3.67
2662 3783 1.834188 TGATACTCTGCTCCACGACA 58.166 50.000 0.00 0.00 0.00 4.35
2708 3829 3.522553 GGTTCGGGAACAATCTCACTAG 58.477 50.000 13.08 0.00 42.85 2.57
2778 3904 9.444600 GTACAAACCAAGAAGATTAGGATACAA 57.555 33.333 0.00 0.00 41.41 2.41
2943 4082 0.916358 ATCTGGGCAAGGCAGGTACT 60.916 55.000 0.00 0.00 43.88 2.73
2944 4083 1.133809 TCTGGGCAAGGCAGGTACTT 61.134 55.000 0.00 0.00 34.60 2.24
2945 4084 0.678048 CTGGGCAAGGCAGGTACTTC 60.678 60.000 0.00 0.00 34.60 3.01
2946 4085 1.133809 TGGGCAAGGCAGGTACTTCT 61.134 55.000 0.00 0.00 34.60 2.85
2947 4086 0.038310 GGGCAAGGCAGGTACTTCTT 59.962 55.000 0.00 0.00 34.60 2.52
2948 4087 1.547901 GGGCAAGGCAGGTACTTCTTT 60.548 52.381 0.00 0.00 34.60 2.52
2987 4127 0.105964 TTGCTTGGGTGGGCAGTTTA 60.106 50.000 0.00 0.00 39.68 2.01
3016 4156 3.737559 AATGGTCATAGGTTGCTCCAA 57.262 42.857 1.79 0.00 39.02 3.53
3030 4170 2.669364 GCTCCAACAAGCAATTGTCAG 58.331 47.619 7.40 0.00 42.05 3.51
3032 4172 3.611057 GCTCCAACAAGCAATTGTCAGAG 60.611 47.826 7.40 12.50 42.05 3.35
3164 4313 3.731652 TTTCTTGGCAAGATTGTGGTG 57.268 42.857 28.98 0.69 37.38 4.17
3167 4316 2.158623 TCTTGGCAAGATTGTGGTGACT 60.159 45.455 25.38 0.00 31.20 3.41
3293 4442 5.874261 TCCAAAAGGAAACTGCTTTTCAAAG 59.126 36.000 11.84 0.00 43.04 2.77
3405 4554 0.818040 ACAAGTTGTGCTTCGGGACC 60.818 55.000 7.96 0.00 34.69 4.46
3429 4578 3.244526 CCCATTTGCTGCTTAAAAGGGTT 60.245 43.478 14.31 0.00 39.82 4.11
3431 4580 4.502950 CCATTTGCTGCTTAAAAGGGTTGA 60.503 41.667 0.00 0.00 0.00 3.18
3434 4583 3.027412 TGCTGCTTAAAAGGGTTGAACA 58.973 40.909 0.00 0.00 0.00 3.18
3435 4584 3.640967 TGCTGCTTAAAAGGGTTGAACAT 59.359 39.130 0.00 0.00 0.00 2.71
3445 4594 1.546773 GGGTTGAACATGTGCCAGGTA 60.547 52.381 0.00 0.00 0.00 3.08
3446 4595 2.235016 GGTTGAACATGTGCCAGGTAA 58.765 47.619 0.00 0.00 0.00 2.85
3496 5002 6.183360 ACGAAAGAAAGCAACCTTTATTGACA 60.183 34.615 0.00 0.00 40.51 3.58
3498 5004 7.061094 CGAAAGAAAGCAACCTTTATTGACATC 59.939 37.037 0.00 0.00 40.51 3.06
3504 5010 6.245408 AGCAACCTTTATTGACATCCACTTA 58.755 36.000 0.00 0.00 0.00 2.24
3505 5011 6.891908 AGCAACCTTTATTGACATCCACTTAT 59.108 34.615 0.00 0.00 0.00 1.73
3506 5012 6.974622 GCAACCTTTATTGACATCCACTTATG 59.025 38.462 0.00 0.00 0.00 1.90
3507 5013 6.699575 ACCTTTATTGACATCCACTTATGC 57.300 37.500 0.00 0.00 0.00 3.14
3509 5015 5.527214 CCTTTATTGACATCCACTTATGCGA 59.473 40.000 0.00 0.00 0.00 5.10
3511 5017 4.882671 ATTGACATCCACTTATGCGAAC 57.117 40.909 0.00 0.00 0.00 3.95
3512 5018 3.326836 TGACATCCACTTATGCGAACA 57.673 42.857 0.00 0.00 0.00 3.18
3513 5019 3.000041 TGACATCCACTTATGCGAACAC 59.000 45.455 0.00 0.00 0.00 3.32
3514 5020 3.262420 GACATCCACTTATGCGAACACT 58.738 45.455 0.00 0.00 0.00 3.55
3515 5021 3.674997 ACATCCACTTATGCGAACACTT 58.325 40.909 0.00 0.00 0.00 3.16
3516 5022 4.827692 ACATCCACTTATGCGAACACTTA 58.172 39.130 0.00 0.00 0.00 2.24
3518 5024 5.523916 ACATCCACTTATGCGAACACTTATC 59.476 40.000 0.00 0.00 0.00 1.75
3519 5025 5.339008 TCCACTTATGCGAACACTTATCT 57.661 39.130 0.00 0.00 0.00 1.98
3521 5027 5.810587 TCCACTTATGCGAACACTTATCTTC 59.189 40.000 0.00 0.00 0.00 2.87
3522 5028 5.812642 CCACTTATGCGAACACTTATCTTCT 59.187 40.000 0.00 0.00 0.00 2.85
3523 5029 6.978659 CCACTTATGCGAACACTTATCTTCTA 59.021 38.462 0.00 0.00 0.00 2.10
3524 5030 7.491372 CCACTTATGCGAACACTTATCTTCTAA 59.509 37.037 0.00 0.00 0.00 2.10
3525 5031 9.035607 CACTTATGCGAACACTTATCTTCTAAT 57.964 33.333 0.00 0.00 0.00 1.73
3526 5032 9.035607 ACTTATGCGAACACTTATCTTCTAATG 57.964 33.333 0.00 0.00 0.00 1.90
3527 5033 9.249457 CTTATGCGAACACTTATCTTCTAATGA 57.751 33.333 0.00 0.00 0.00 2.57
3528 5034 9.594478 TTATGCGAACACTTATCTTCTAATGAA 57.406 29.630 0.00 0.00 0.00 2.57
3539 5045 4.206698 CTTCTAATGAAGGCATTGCTCG 57.793 45.455 8.82 0.00 44.18 5.03
3540 5046 2.564771 TCTAATGAAGGCATTGCTCGG 58.435 47.619 8.82 0.00 44.18 4.63
3541 5047 2.170397 TCTAATGAAGGCATTGCTCGGA 59.830 45.455 8.82 0.00 44.18 4.55
3542 5048 1.386533 AATGAAGGCATTGCTCGGAG 58.613 50.000 8.82 0.00 42.91 4.63
3543 5049 0.254178 ATGAAGGCATTGCTCGGAGT 59.746 50.000 8.82 0.00 0.00 3.85
3544 5050 0.036732 TGAAGGCATTGCTCGGAGTT 59.963 50.000 8.82 0.00 0.00 3.01
3545 5051 1.168714 GAAGGCATTGCTCGGAGTTT 58.831 50.000 8.82 0.00 0.00 2.66
3546 5052 0.883833 AAGGCATTGCTCGGAGTTTG 59.116 50.000 8.82 3.60 0.00 2.93
3547 5053 1.153958 GGCATTGCTCGGAGTTTGC 60.154 57.895 8.82 15.78 0.00 3.68
3548 5054 1.589716 GGCATTGCTCGGAGTTTGCT 61.590 55.000 20.28 0.00 0.00 3.91
3549 5055 0.179179 GCATTGCTCGGAGTTTGCTC 60.179 55.000 16.42 0.00 40.93 4.26
3550 5056 1.159285 CATTGCTCGGAGTTTGCTCA 58.841 50.000 6.90 0.00 43.37 4.26
3551 5057 1.129998 CATTGCTCGGAGTTTGCTCAG 59.870 52.381 6.90 0.00 43.37 3.35
3552 5058 0.392706 TTGCTCGGAGTTTGCTCAGA 59.607 50.000 6.90 0.00 43.37 3.27
3553 5059 0.319900 TGCTCGGAGTTTGCTCAGAC 60.320 55.000 6.90 0.00 43.37 3.51
3554 5060 0.037790 GCTCGGAGTTTGCTCAGACT 60.038 55.000 6.90 0.00 43.37 3.24
3555 5061 1.606737 GCTCGGAGTTTGCTCAGACTT 60.607 52.381 6.90 0.00 43.37 3.01
3556 5062 2.064762 CTCGGAGTTTGCTCAGACTTG 58.935 52.381 0.00 0.00 43.37 3.16
3557 5063 1.686587 TCGGAGTTTGCTCAGACTTGA 59.313 47.619 0.00 0.00 43.37 3.02
3558 5064 2.300152 TCGGAGTTTGCTCAGACTTGAT 59.700 45.455 0.00 0.00 43.37 2.57
3559 5065 2.670414 CGGAGTTTGCTCAGACTTGATC 59.330 50.000 0.00 0.00 43.37 2.92
3560 5066 3.616076 CGGAGTTTGCTCAGACTTGATCT 60.616 47.826 0.00 0.00 43.37 2.75
3561 5067 4.322567 GGAGTTTGCTCAGACTTGATCTT 58.677 43.478 0.00 0.00 43.37 2.40
3562 5068 4.391523 GGAGTTTGCTCAGACTTGATCTTC 59.608 45.833 0.00 0.00 43.37 2.87
3563 5069 4.965814 AGTTTGCTCAGACTTGATCTTCA 58.034 39.130 0.00 0.00 34.41 3.02
3564 5070 4.996122 AGTTTGCTCAGACTTGATCTTCAG 59.004 41.667 0.00 0.00 34.41 3.02
3565 5071 3.606595 TGCTCAGACTTGATCTTCAGG 57.393 47.619 0.00 0.00 34.41 3.86
3566 5072 2.235650 TGCTCAGACTTGATCTTCAGGG 59.764 50.000 0.00 0.00 34.41 4.45
3567 5073 2.235898 GCTCAGACTTGATCTTCAGGGT 59.764 50.000 0.00 0.00 34.41 4.34
3568 5074 3.859443 CTCAGACTTGATCTTCAGGGTG 58.141 50.000 0.00 0.00 34.41 4.61
3569 5075 3.510459 TCAGACTTGATCTTCAGGGTGA 58.490 45.455 0.00 0.00 34.41 4.02
3570 5076 3.903714 TCAGACTTGATCTTCAGGGTGAA 59.096 43.478 0.00 0.00 34.41 3.18
3571 5077 4.347876 TCAGACTTGATCTTCAGGGTGAAA 59.652 41.667 0.00 0.00 35.73 2.69
3572 5078 5.065914 CAGACTTGATCTTCAGGGTGAAAA 58.934 41.667 0.00 0.00 35.73 2.29
3573 5079 5.709164 CAGACTTGATCTTCAGGGTGAAAAT 59.291 40.000 0.00 0.00 35.73 1.82
3574 5080 5.942826 AGACTTGATCTTCAGGGTGAAAATC 59.057 40.000 0.00 0.00 35.10 2.17
3575 5081 5.012893 ACTTGATCTTCAGGGTGAAAATCC 58.987 41.667 1.49 0.00 33.94 3.01
3576 5082 4.656100 TGATCTTCAGGGTGAAAATCCA 57.344 40.909 1.49 0.00 33.94 3.41
3577 5083 5.197224 TGATCTTCAGGGTGAAAATCCAT 57.803 39.130 1.49 0.00 33.94 3.41
3578 5084 4.951715 TGATCTTCAGGGTGAAAATCCATG 59.048 41.667 1.49 0.00 33.94 3.66
3579 5085 4.656100 TCTTCAGGGTGAAAATCCATGA 57.344 40.909 0.00 0.00 42.68 3.07
3580 5086 5.197224 TCTTCAGGGTGAAAATCCATGAT 57.803 39.130 0.00 0.00 43.57 2.45
3581 5087 5.195940 TCTTCAGGGTGAAAATCCATGATC 58.804 41.667 0.00 0.00 43.57 2.92
3584 5090 4.227982 TCAGGGTGAAAATCCATGATCTGA 59.772 41.667 0.00 0.00 40.16 3.27
3585 5091 4.337555 CAGGGTGAAAATCCATGATCTGAC 59.662 45.833 0.00 0.00 38.79 3.51
3592 5098 3.589951 ATCCATGATCTGACCTTTGGG 57.410 47.619 0.00 0.00 38.88 4.12
3607 5113 1.585895 TTGGGTATTGGATCCGGTGA 58.414 50.000 7.39 0.00 0.00 4.02
3625 5131 1.014352 GACGGCTTCACTTGTGTGTT 58.986 50.000 0.46 0.00 44.14 3.32
3628 5134 1.603802 CGGCTTCACTTGTGTGTTGAT 59.396 47.619 0.46 0.00 44.14 2.57
3629 5135 2.033299 CGGCTTCACTTGTGTGTTGATT 59.967 45.455 0.46 0.00 44.14 2.57
3631 5137 4.044426 GGCTTCACTTGTGTGTTGATTTC 58.956 43.478 0.46 0.00 44.14 2.17
3632 5138 4.202050 GGCTTCACTTGTGTGTTGATTTCT 60.202 41.667 0.46 0.00 44.14 2.52
3633 5139 5.343249 GCTTCACTTGTGTGTTGATTTCTT 58.657 37.500 0.46 0.00 44.14 2.52
3634 5140 5.807011 GCTTCACTTGTGTGTTGATTTCTTT 59.193 36.000 0.46 0.00 44.14 2.52
3636 5142 5.890334 TCACTTGTGTGTTGATTTCTTTCC 58.110 37.500 0.46 0.00 44.14 3.13
3637 5143 4.734854 CACTTGTGTGTTGATTTCTTTCCG 59.265 41.667 0.00 0.00 39.24 4.30
3638 5144 3.980646 TGTGTGTTGATTTCTTTCCGG 57.019 42.857 0.00 0.00 0.00 5.14
3639 5145 3.546724 TGTGTGTTGATTTCTTTCCGGA 58.453 40.909 0.00 0.00 0.00 5.14
3640 5146 3.563808 TGTGTGTTGATTTCTTTCCGGAG 59.436 43.478 3.34 0.00 0.00 4.63
3654 5369 1.533625 CCGGAGGCATCACTTTTGAA 58.466 50.000 0.00 0.00 46.14 2.69
3655 5370 1.470098 CCGGAGGCATCACTTTTGAAG 59.530 52.381 0.00 0.00 46.14 3.02
3658 5373 3.365364 CGGAGGCATCACTTTTGAAGAAC 60.365 47.826 0.00 0.00 34.61 3.01
3661 5376 3.823304 AGGCATCACTTTTGAAGAACCTC 59.177 43.478 0.00 0.00 34.61 3.85
3664 5379 4.759183 GCATCACTTTTGAAGAACCTCTCT 59.241 41.667 0.00 0.00 34.61 3.10
3667 5382 4.099573 TCACTTTTGAAGAACCTCTCTCGT 59.900 41.667 0.00 0.00 31.02 4.18
3668 5383 5.301045 TCACTTTTGAAGAACCTCTCTCGTA 59.699 40.000 0.00 0.00 31.02 3.43
3669 5384 5.631512 CACTTTTGAAGAACCTCTCTCGTAG 59.368 44.000 0.00 0.00 31.02 3.51
3670 5385 5.302313 ACTTTTGAAGAACCTCTCTCGTAGT 59.698 40.000 0.00 0.00 31.02 2.73
3679 5394 7.668492 AGAACCTCTCTCGTAGTTTTTATGTT 58.332 34.615 0.00 0.00 0.00 2.71
3680 5395 7.599245 AGAACCTCTCTCGTAGTTTTTATGTTG 59.401 37.037 0.00 0.00 0.00 3.33
3682 5397 6.867293 ACCTCTCTCGTAGTTTTTATGTTGTC 59.133 38.462 0.00 0.00 0.00 3.18
3684 5399 7.545965 CCTCTCTCGTAGTTTTTATGTTGTCAT 59.454 37.037 0.00 0.00 38.00 3.06
3685 5400 8.239681 TCTCTCGTAGTTTTTATGTTGTCATG 57.760 34.615 0.00 0.00 35.70 3.07
3687 5402 8.239681 TCTCGTAGTTTTTATGTTGTCATGAG 57.760 34.615 0.00 0.00 35.70 2.90
3689 5404 8.771920 TCGTAGTTTTTATGTTGTCATGAGAT 57.228 30.769 0.00 0.00 35.70 2.75
3690 5405 9.863845 TCGTAGTTTTTATGTTGTCATGAGATA 57.136 29.630 0.00 0.00 35.70 1.98
3695 5410 9.559958 GTTTTTATGTTGTCATGAGATAGTTGG 57.440 33.333 0.00 0.00 35.70 3.77
3697 5412 8.722480 TTTATGTTGTCATGAGATAGTTGGAG 57.278 34.615 0.00 0.00 35.70 3.86
3698 5413 4.507710 TGTTGTCATGAGATAGTTGGAGC 58.492 43.478 0.00 0.00 0.00 4.70
3699 5414 3.827008 TGTCATGAGATAGTTGGAGCC 57.173 47.619 0.00 0.00 0.00 4.70
3700 5415 2.101415 TGTCATGAGATAGTTGGAGCCG 59.899 50.000 0.00 0.00 0.00 5.52
3701 5416 2.362397 GTCATGAGATAGTTGGAGCCGA 59.638 50.000 0.00 0.00 0.00 5.54
3710 6127 2.306847 AGTTGGAGCCGATGTTTGTTT 58.693 42.857 0.00 0.00 0.00 2.83
3716 6133 3.978855 GGAGCCGATGTTTGTTTTTGTAC 59.021 43.478 0.00 0.00 0.00 2.90
3717 6134 4.498345 GGAGCCGATGTTTGTTTTTGTACA 60.498 41.667 0.00 0.00 0.00 2.90
3719 6136 5.219633 AGCCGATGTTTGTTTTTGTACATC 58.780 37.500 0.00 0.00 42.03 3.06
3720 6137 4.979197 GCCGATGTTTGTTTTTGTACATCA 59.021 37.500 12.77 0.00 44.37 3.07
3721 6138 5.116983 GCCGATGTTTGTTTTTGTACATCAG 59.883 40.000 12.77 4.48 44.37 2.90
3723 6140 6.142161 CCGATGTTTGTTTTTGTACATCAGTG 59.858 38.462 12.77 0.00 44.37 3.66
3724 6141 6.909895 CGATGTTTGTTTTTGTACATCAGTGA 59.090 34.615 12.77 0.00 44.37 3.41
3726 6143 8.801715 ATGTTTGTTTTTGTACATCAGTGATC 57.198 30.769 1.56 0.00 0.00 2.92
3727 6144 7.766283 TGTTTGTTTTTGTACATCAGTGATCA 58.234 30.769 1.56 0.00 0.00 2.92
3728 6145 7.700234 TGTTTGTTTTTGTACATCAGTGATCAC 59.300 33.333 18.47 18.47 0.00 3.06
3730 6147 8.669946 TTGTTTTTGTACATCAGTGATCACTA 57.330 30.769 27.44 16.03 40.20 2.74
3731 6148 8.846943 TGTTTTTGTACATCAGTGATCACTAT 57.153 30.769 27.44 17.42 40.20 2.12
3732 6149 9.283768 TGTTTTTGTACATCAGTGATCACTATT 57.716 29.630 27.44 15.06 40.20 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 7.479980 TCACCTATCAATTTAATTTTGGCTCG 58.520 34.615 0.00 0.00 0.00 5.03
37 38 9.905713 AGAGTTGCTTAATTAATCACCTATCAA 57.094 29.630 1.28 0.00 0.00 2.57
65 66 9.698309 CCCATCACCGATATATTGAGAATATAC 57.302 37.037 1.10 0.00 38.70 1.47
66 67 9.654919 TCCCATCACCGATATATTGAGAATATA 57.345 33.333 1.10 0.00 39.81 0.86
74 75 4.206477 TGCTCCCATCACCGATATATTG 57.794 45.455 0.00 0.00 0.00 1.90
128 129 0.591170 CCTGACAAACGTTCGCCAAT 59.409 50.000 0.00 0.00 0.00 3.16
129 130 1.440938 CCCTGACAAACGTTCGCCAA 61.441 55.000 0.00 0.00 0.00 4.52
143 144 0.623723 GCAAATACCACCCTCCCTGA 59.376 55.000 0.00 0.00 0.00 3.86
156 157 1.400142 CCAGGCAATCGTTCGCAAATA 59.600 47.619 0.00 0.00 0.00 1.40
171 172 0.601558 TCACAACTACGACTCCAGGC 59.398 55.000 0.00 0.00 0.00 4.85
180 181 1.336887 CCCCACTCACTCACAACTACG 60.337 57.143 0.00 0.00 0.00 3.51
181 182 1.968493 TCCCCACTCACTCACAACTAC 59.032 52.381 0.00 0.00 0.00 2.73
192 193 1.461268 TGCCAACTCTCCCCACTCA 60.461 57.895 0.00 0.00 0.00 3.41
205 206 0.179059 TCGCTTGTTGAGACTGCCAA 60.179 50.000 0.00 0.00 0.00 4.52
213 214 4.867047 AGAACTATCATGTCGCTTGTTGAG 59.133 41.667 0.00 0.00 0.00 3.02
216 217 4.631813 GGAAGAACTATCATGTCGCTTGTT 59.368 41.667 0.00 0.00 0.00 2.83
217 218 4.184629 GGAAGAACTATCATGTCGCTTGT 58.815 43.478 0.00 0.00 0.00 3.16
229 230 3.456277 ATTGCCTTCTCGGGAAGAACTAT 59.544 43.478 26.78 16.03 46.96 2.12
231 232 1.630878 ATTGCCTTCTCGGGAAGAACT 59.369 47.619 26.78 5.72 46.96 3.01
266 269 2.144482 AAACGAGATCAAACGACGGT 57.856 45.000 12.38 0.00 0.00 4.83
294 297 1.251251 ACCATCTTTGCTGGCAGTTC 58.749 50.000 17.16 0.20 37.27 3.01
324 327 1.632948 GAACGTTCGCTGTTAGGGGC 61.633 60.000 13.36 0.00 0.00 5.80
363 366 8.134895 TCTCCACAAAAGATGTAACATCAAAAC 58.865 33.333 0.00 0.00 41.46 2.43
375 378 4.635223 TGAGTGACTCTCCACAAAAGATG 58.365 43.478 14.42 0.00 42.12 2.90
386 392 4.626042 ACACATGTCTTTGAGTGACTCTC 58.374 43.478 14.42 0.00 43.03 3.20
411 417 9.197694 CACCATTTAGAGTATAAGATAGTGCAC 57.802 37.037 9.40 9.40 0.00 4.57
420 426 9.469807 GATCACTCACACCATTTAGAGTATAAG 57.530 37.037 0.00 0.00 39.17 1.73
483 489 7.065216 TCGTTTCAATCATTCTCAACTCATC 57.935 36.000 0.00 0.00 0.00 2.92
486 499 5.639506 TCCTCGTTTCAATCATTCTCAACTC 59.360 40.000 0.00 0.00 0.00 3.01
519 533 6.892658 TTAAATTTACAAGCTGCCTCTTGA 57.107 33.333 18.28 1.11 44.61 3.02
586 612 5.365403 TTTCACTGCATACCTTTTTACGG 57.635 39.130 0.00 0.00 0.00 4.02
620 700 8.837389 CCTATCTATTAACAAACTTTGCCCTAC 58.163 37.037 1.14 0.00 0.00 3.18
626 709 9.559958 CAGTTGCCTATCTATTAACAAACTTTG 57.440 33.333 0.00 0.00 0.00 2.77
636 719 8.518430 TGAAAATTGCAGTTGCCTATCTATTA 57.482 30.769 0.00 0.00 41.18 0.98
641 763 6.202570 TGTTTTGAAAATTGCAGTTGCCTATC 59.797 34.615 0.00 0.00 41.18 2.08
672 794 1.587043 TTGAGAGTCCTCCGCGACTG 61.587 60.000 8.23 0.00 43.22 3.51
735 1805 2.005971 ATAGGAACAAACTCGGCGAC 57.994 50.000 4.99 0.00 0.00 5.19
740 1810 6.075205 CCGACGTAATTATAGGAACAAACTCG 60.075 42.308 0.00 0.00 0.00 4.18
742 1812 5.521372 GCCGACGTAATTATAGGAACAAACT 59.479 40.000 0.00 0.00 0.00 2.66
750 1820 4.389992 TCGAGTAGCCGACGTAATTATAGG 59.610 45.833 0.00 0.00 33.14 2.57
768 1838 6.282199 TGATTAGTTTAGGAAAGCTCGAGT 57.718 37.500 15.13 0.00 0.00 4.18
769 1839 5.233263 GCTGATTAGTTTAGGAAAGCTCGAG 59.767 44.000 8.45 8.45 0.00 4.04
792 1863 0.238553 GAGTTTGAGTTGGAAGCGGC 59.761 55.000 0.00 0.00 0.00 6.53
828 1901 1.446272 GGCGTTGACTCTTCCGGAG 60.446 63.158 3.34 0.00 46.87 4.63
829 1902 2.204461 TGGCGTTGACTCTTCCGGA 61.204 57.895 0.00 0.00 0.00 5.14
830 1903 2.027625 GTGGCGTTGACTCTTCCGG 61.028 63.158 0.00 0.00 0.00 5.14
894 1973 1.170290 AGGGCGAAAAACCAACGGAG 61.170 55.000 0.00 0.00 0.00 4.63
950 2029 4.174762 GGATAAGATTAAGGGACGATCGC 58.825 47.826 16.60 8.04 0.00 4.58
964 2043 4.003788 CGGCGGCGGGGATAAGAT 62.004 66.667 25.36 0.00 0.00 2.40
1083 2165 3.385384 CTGAGGCAGAGGACCGCA 61.385 66.667 0.00 0.00 35.55 5.69
1314 2399 2.282958 TTCCCTCCAGCGTCGTCT 60.283 61.111 0.00 0.00 0.00 4.18
1638 2726 4.899239 CGGACATCAGAGGCCGCC 62.899 72.222 1.49 0.00 37.08 6.13
1651 2739 1.153958 GGTAGTACACGCACCGGAC 60.154 63.158 9.46 0.00 0.00 4.79
1827 2918 3.315949 GGGGTGTACACGGCCAGA 61.316 66.667 19.41 0.00 0.00 3.86
2109 3224 1.805539 CGAATCTCGAAGCACCGCA 60.806 57.895 0.00 0.00 43.74 5.69
2223 3338 2.107366 TCTGGTTCGGCTGATGATACA 58.893 47.619 0.00 0.00 0.00 2.29
2232 3347 4.722193 CCAATGTCTGGTTCGGCT 57.278 55.556 0.00 0.00 40.78 5.52
2250 3365 1.003839 GCACCTCATTGACACCCGA 60.004 57.895 0.00 0.00 0.00 5.14
2259 3374 1.705337 CGAAATCGGCGCACCTCATT 61.705 55.000 10.83 0.00 35.37 2.57
2406 3521 1.293924 GGAGCGTGAAGTGATGGATG 58.706 55.000 0.00 0.00 0.00 3.51
2463 3578 4.699637 CTTGGTACTTGTAGTGGTTGACA 58.300 43.478 0.00 0.00 0.00 3.58
2466 3582 3.740115 AGCTTGGTACTTGTAGTGGTTG 58.260 45.455 0.00 0.00 0.00 3.77
2662 3783 3.295800 GAACCATCTCCGGGTCGT 58.704 61.111 0.00 0.00 37.77 4.34
2778 3904 6.757897 TGTCTTGAAAGAATCAGTGTTTGT 57.242 33.333 0.00 0.00 39.77 2.83
2821 3955 4.167697 ACCCTCTCCTATACTTCCTAACGT 59.832 45.833 0.00 0.00 0.00 3.99
2822 3956 4.727677 ACCCTCTCCTATACTTCCTAACG 58.272 47.826 0.00 0.00 0.00 3.18
2831 3965 4.201894 AGAAAGGGACCCTCTCCTATAC 57.798 50.000 15.27 0.00 39.39 1.47
2987 4127 5.765182 GCAACCTATGACCATTAGCTGTTAT 59.235 40.000 0.00 0.00 0.00 1.89
3030 4170 4.566759 GGAGCAACCTTTTGTTTTTGTCTC 59.433 41.667 0.00 0.00 34.00 3.36
3032 4172 4.092821 GTGGAGCAACCTTTTGTTTTTGTC 59.907 41.667 1.91 0.00 39.86 3.18
3192 4341 7.010645 GCACTCTCTAAGTAGCTAAATTTCACC 59.989 40.741 0.00 0.00 36.07 4.02
3207 4356 6.536941 GGAAAGTTAAGGATGCACTCTCTAAG 59.463 42.308 0.00 0.00 0.00 2.18
3276 4425 2.158971 TGCCCTTTGAAAAGCAGTTTCC 60.159 45.455 9.61 0.00 44.41 3.13
3405 4554 1.994779 CTTTTAAGCAGCAAATGGGCG 59.005 47.619 0.00 0.00 39.27 6.13
3429 4578 5.172687 TCTTATTACCTGGCACATGTTCA 57.827 39.130 0.00 0.00 38.37 3.18
3431 4580 9.860650 TTATATTCTTATTACCTGGCACATGTT 57.139 29.630 0.00 0.00 38.37 2.71
3434 4583 7.606456 CCGTTATATTCTTATTACCTGGCACAT 59.394 37.037 0.00 0.00 38.20 3.21
3435 4584 6.932400 CCGTTATATTCTTATTACCTGGCACA 59.068 38.462 0.00 0.00 0.00 4.57
3472 4978 6.205784 TGTCAATAAAGGTTGCTTTCTTTCG 58.794 36.000 0.00 0.00 35.22 3.46
3496 5002 5.918608 AGATAAGTGTTCGCATAAGTGGAT 58.081 37.500 0.00 0.00 0.00 3.41
3498 5004 5.812642 AGAAGATAAGTGTTCGCATAAGTGG 59.187 40.000 0.00 0.00 33.14 4.00
3519 5025 2.945008 CCGAGCAATGCCTTCATTAGAA 59.055 45.455 0.00 0.00 40.74 2.10
3521 5027 2.547211 CTCCGAGCAATGCCTTCATTAG 59.453 50.000 0.00 0.00 40.74 1.73
3522 5028 2.092968 ACTCCGAGCAATGCCTTCATTA 60.093 45.455 0.00 0.00 40.74 1.90
3523 5029 1.340405 ACTCCGAGCAATGCCTTCATT 60.340 47.619 0.00 0.00 43.31 2.57
3524 5030 0.254178 ACTCCGAGCAATGCCTTCAT 59.746 50.000 0.00 0.00 33.53 2.57
3525 5031 0.036732 AACTCCGAGCAATGCCTTCA 59.963 50.000 0.00 0.00 0.00 3.02
3526 5032 1.135575 CAAACTCCGAGCAATGCCTTC 60.136 52.381 0.00 0.00 0.00 3.46
3527 5033 0.883833 CAAACTCCGAGCAATGCCTT 59.116 50.000 0.00 0.00 0.00 4.35
3528 5034 1.589716 GCAAACTCCGAGCAATGCCT 61.590 55.000 0.00 0.00 0.00 4.75
3529 5035 1.153958 GCAAACTCCGAGCAATGCC 60.154 57.895 0.00 0.00 0.00 4.40
3530 5036 0.179179 GAGCAAACTCCGAGCAATGC 60.179 55.000 0.00 0.00 36.90 3.56
3531 5037 1.129998 CTGAGCAAACTCCGAGCAATG 59.870 52.381 0.00 0.00 42.74 2.82
3532 5038 1.002430 TCTGAGCAAACTCCGAGCAAT 59.998 47.619 0.00 0.00 42.74 3.56
3533 5039 0.392706 TCTGAGCAAACTCCGAGCAA 59.607 50.000 0.00 0.00 42.74 3.91
3534 5040 0.319900 GTCTGAGCAAACTCCGAGCA 60.320 55.000 0.00 0.00 42.74 4.26
3535 5041 0.037790 AGTCTGAGCAAACTCCGAGC 60.038 55.000 0.00 0.00 42.74 5.03
3536 5042 2.064762 CAAGTCTGAGCAAACTCCGAG 58.935 52.381 0.00 0.00 42.74 4.63
3537 5043 1.686587 TCAAGTCTGAGCAAACTCCGA 59.313 47.619 0.00 0.00 42.74 4.55
3538 5044 2.154854 TCAAGTCTGAGCAAACTCCG 57.845 50.000 0.00 0.00 42.74 4.63
3539 5045 3.936564 AGATCAAGTCTGAGCAAACTCC 58.063 45.455 0.00 0.00 40.59 3.85
3540 5046 4.993584 TGAAGATCAAGTCTGAGCAAACTC 59.006 41.667 0.00 0.00 40.59 3.01
3541 5047 4.965814 TGAAGATCAAGTCTGAGCAAACT 58.034 39.130 0.00 0.00 40.59 2.66
3542 5048 4.153835 CCTGAAGATCAAGTCTGAGCAAAC 59.846 45.833 0.00 0.00 40.59 2.93
3543 5049 4.321718 CCTGAAGATCAAGTCTGAGCAAA 58.678 43.478 0.00 0.00 40.59 3.68
3544 5050 3.307269 CCCTGAAGATCAAGTCTGAGCAA 60.307 47.826 0.00 0.00 40.59 3.91
3545 5051 2.235650 CCCTGAAGATCAAGTCTGAGCA 59.764 50.000 0.00 0.00 40.59 4.26
3546 5052 2.235898 ACCCTGAAGATCAAGTCTGAGC 59.764 50.000 0.00 0.00 38.30 4.26
3547 5053 3.513119 TCACCCTGAAGATCAAGTCTGAG 59.487 47.826 0.00 0.00 37.23 3.35
3548 5054 3.510459 TCACCCTGAAGATCAAGTCTGA 58.490 45.455 0.00 0.00 37.23 3.27
3549 5055 3.969287 TCACCCTGAAGATCAAGTCTG 57.031 47.619 0.00 0.00 37.23 3.51
3550 5056 4.982241 TTTCACCCTGAAGATCAAGTCT 57.018 40.909 0.00 0.00 37.70 3.24
3551 5057 5.124617 GGATTTTCACCCTGAAGATCAAGTC 59.875 44.000 14.21 0.00 44.85 3.01
3552 5058 5.012893 GGATTTTCACCCTGAAGATCAAGT 58.987 41.667 14.21 0.00 44.85 3.16
3553 5059 5.012239 TGGATTTTCACCCTGAAGATCAAG 58.988 41.667 14.21 0.00 44.85 3.02
3554 5060 4.996793 TGGATTTTCACCCTGAAGATCAA 58.003 39.130 14.21 3.98 44.85 2.57
3555 5061 4.656100 TGGATTTTCACCCTGAAGATCA 57.344 40.909 14.21 2.62 44.85 2.92
3556 5062 5.195940 TCATGGATTTTCACCCTGAAGATC 58.804 41.667 6.87 6.87 43.33 2.75
3557 5063 5.197224 TCATGGATTTTCACCCTGAAGAT 57.803 39.130 0.00 0.00 37.70 2.40
3558 5064 4.656100 TCATGGATTTTCACCCTGAAGA 57.344 40.909 0.00 0.00 37.70 2.87
3559 5065 5.067413 CAGATCATGGATTTTCACCCTGAAG 59.933 44.000 0.00 0.00 37.70 3.02
3560 5066 4.951715 CAGATCATGGATTTTCACCCTGAA 59.048 41.667 0.00 0.00 36.14 3.02
3561 5067 4.227982 TCAGATCATGGATTTTCACCCTGA 59.772 41.667 0.00 0.00 36.73 3.86
3562 5068 4.337555 GTCAGATCATGGATTTTCACCCTG 59.662 45.833 0.00 0.00 0.00 4.45
3563 5069 4.530875 GTCAGATCATGGATTTTCACCCT 58.469 43.478 0.00 0.00 0.00 4.34
3564 5070 3.633986 GGTCAGATCATGGATTTTCACCC 59.366 47.826 0.00 0.00 0.00 4.61
3565 5071 4.530875 AGGTCAGATCATGGATTTTCACC 58.469 43.478 0.00 0.00 0.00 4.02
3566 5072 6.327934 CAAAGGTCAGATCATGGATTTTCAC 58.672 40.000 0.00 0.00 0.00 3.18
3567 5073 5.419788 CCAAAGGTCAGATCATGGATTTTCA 59.580 40.000 0.00 0.00 0.00 2.69
3568 5074 5.163478 CCCAAAGGTCAGATCATGGATTTTC 60.163 44.000 7.03 0.00 0.00 2.29
3569 5075 4.713321 CCCAAAGGTCAGATCATGGATTTT 59.287 41.667 7.03 0.00 0.00 1.82
3570 5076 4.264532 ACCCAAAGGTCAGATCATGGATTT 60.265 41.667 7.03 0.00 46.45 2.17
3571 5077 3.270433 ACCCAAAGGTCAGATCATGGATT 59.730 43.478 7.03 0.00 46.45 3.01
3572 5078 2.854967 ACCCAAAGGTCAGATCATGGAT 59.145 45.455 7.03 0.00 46.45 3.41
3573 5079 2.278245 ACCCAAAGGTCAGATCATGGA 58.722 47.619 7.03 0.00 46.45 3.41
3574 5080 2.814805 ACCCAAAGGTCAGATCATGG 57.185 50.000 0.00 0.00 46.45 3.66
3575 5081 4.581824 CCAATACCCAAAGGTCAGATCATG 59.418 45.833 0.00 0.00 46.45 3.07
3576 5082 4.478317 TCCAATACCCAAAGGTCAGATCAT 59.522 41.667 0.00 0.00 46.45 2.45
3577 5083 3.849574 TCCAATACCCAAAGGTCAGATCA 59.150 43.478 0.00 0.00 46.45 2.92
3578 5084 4.503714 TCCAATACCCAAAGGTCAGATC 57.496 45.455 0.00 0.00 46.45 2.75
3579 5085 4.141158 GGATCCAATACCCAAAGGTCAGAT 60.141 45.833 6.95 0.00 46.45 2.90
3580 5086 3.202151 GGATCCAATACCCAAAGGTCAGA 59.798 47.826 6.95 0.00 46.45 3.27
3581 5087 3.555966 GGATCCAATACCCAAAGGTCAG 58.444 50.000 6.95 0.00 46.45 3.51
3585 5091 1.214424 ACCGGATCCAATACCCAAAGG 59.786 52.381 9.46 2.91 40.04 3.11
3615 5121 4.202010 CCGGAAAGAAATCAACACACAAGT 60.202 41.667 0.00 0.00 0.00 3.16
3616 5122 4.036262 TCCGGAAAGAAATCAACACACAAG 59.964 41.667 0.00 0.00 0.00 3.16
3617 5123 3.948473 TCCGGAAAGAAATCAACACACAA 59.052 39.130 0.00 0.00 0.00 3.33
3618 5124 3.546724 TCCGGAAAGAAATCAACACACA 58.453 40.909 0.00 0.00 0.00 3.72
3619 5125 3.058224 CCTCCGGAAAGAAATCAACACAC 60.058 47.826 5.23 0.00 0.00 3.82
3620 5126 3.146066 CCTCCGGAAAGAAATCAACACA 58.854 45.455 5.23 0.00 0.00 3.72
3621 5127 2.095212 GCCTCCGGAAAGAAATCAACAC 60.095 50.000 5.23 0.00 0.00 3.32
3625 5131 2.026356 TGATGCCTCCGGAAAGAAATCA 60.026 45.455 5.23 10.15 0.00 2.57
3628 5134 1.351017 AGTGATGCCTCCGGAAAGAAA 59.649 47.619 5.23 0.00 0.00 2.52
3629 5135 0.984230 AGTGATGCCTCCGGAAAGAA 59.016 50.000 5.23 0.00 0.00 2.52
3631 5137 1.826385 AAAGTGATGCCTCCGGAAAG 58.174 50.000 5.23 0.21 0.00 2.62
3632 5138 1.885887 CAAAAGTGATGCCTCCGGAAA 59.114 47.619 5.23 0.00 0.00 3.13
3633 5139 1.073125 TCAAAAGTGATGCCTCCGGAA 59.927 47.619 5.23 0.00 0.00 4.30
3634 5140 0.690192 TCAAAAGTGATGCCTCCGGA 59.310 50.000 2.93 2.93 0.00 5.14
3636 5142 2.426522 TCTTCAAAAGTGATGCCTCCG 58.573 47.619 0.00 0.00 32.48 4.63
3637 5143 3.057245 GGTTCTTCAAAAGTGATGCCTCC 60.057 47.826 0.00 0.00 32.48 4.30
3638 5144 3.823304 AGGTTCTTCAAAAGTGATGCCTC 59.177 43.478 0.00 0.00 32.48 4.70
3639 5145 3.823304 GAGGTTCTTCAAAAGTGATGCCT 59.177 43.478 0.00 0.00 32.48 4.75
3640 5146 3.823304 AGAGGTTCTTCAAAAGTGATGCC 59.177 43.478 0.00 0.00 32.48 4.40
3641 5147 4.759183 AGAGAGGTTCTTCAAAAGTGATGC 59.241 41.667 0.00 0.00 32.48 3.91
3642 5148 5.119898 CGAGAGAGGTTCTTCAAAAGTGATG 59.880 44.000 0.00 0.00 35.87 3.07
3643 5149 5.221541 ACGAGAGAGGTTCTTCAAAAGTGAT 60.222 40.000 0.00 0.00 35.87 3.06
3644 5150 4.099573 ACGAGAGAGGTTCTTCAAAAGTGA 59.900 41.667 0.00 0.00 35.87 3.41
3645 5151 4.372656 ACGAGAGAGGTTCTTCAAAAGTG 58.627 43.478 0.00 0.00 35.87 3.16
3648 5363 5.786264 ACTACGAGAGAGGTTCTTCAAAA 57.214 39.130 0.00 0.00 35.87 2.44
3654 5369 7.229581 ACATAAAAACTACGAGAGAGGTTCT 57.770 36.000 0.00 0.00 39.43 3.01
3655 5370 7.384387 ACAACATAAAAACTACGAGAGAGGTTC 59.616 37.037 0.00 0.00 0.00 3.62
3658 5373 6.866770 TGACAACATAAAAACTACGAGAGAGG 59.133 38.462 0.00 0.00 0.00 3.69
3661 5376 8.239681 TCATGACAACATAAAAACTACGAGAG 57.760 34.615 0.00 0.00 35.09 3.20
3664 5379 8.771920 ATCTCATGACAACATAAAAACTACGA 57.228 30.769 0.00 0.00 35.09 3.43
3669 5384 9.559958 CCAACTATCTCATGACAACATAAAAAC 57.440 33.333 0.00 0.00 35.09 2.43
3670 5385 9.513906 TCCAACTATCTCATGACAACATAAAAA 57.486 29.630 0.00 0.00 35.09 1.94
3679 5394 2.101415 CGGCTCCAACTATCTCATGACA 59.899 50.000 0.00 0.00 0.00 3.58
3680 5395 2.362397 TCGGCTCCAACTATCTCATGAC 59.638 50.000 0.00 0.00 0.00 3.06
3682 5397 3.244009 ACATCGGCTCCAACTATCTCATG 60.244 47.826 0.00 0.00 0.00 3.07
3684 5399 2.388735 ACATCGGCTCCAACTATCTCA 58.611 47.619 0.00 0.00 0.00 3.27
3685 5400 3.460857 AACATCGGCTCCAACTATCTC 57.539 47.619 0.00 0.00 0.00 2.75
3687 5402 3.270877 ACAAACATCGGCTCCAACTATC 58.729 45.455 0.00 0.00 0.00 2.08
3689 5404 2.851263 ACAAACATCGGCTCCAACTA 57.149 45.000 0.00 0.00 0.00 2.24
3690 5405 1.981256 AACAAACATCGGCTCCAACT 58.019 45.000 0.00 0.00 0.00 3.16
3691 5406 2.793278 AAACAAACATCGGCTCCAAC 57.207 45.000 0.00 0.00 0.00 3.77
3693 5408 2.428890 ACAAAAACAAACATCGGCTCCA 59.571 40.909 0.00 0.00 0.00 3.86
3694 5409 3.092334 ACAAAAACAAACATCGGCTCC 57.908 42.857 0.00 0.00 0.00 4.70
3695 5410 4.602995 TGTACAAAAACAAACATCGGCTC 58.397 39.130 0.00 0.00 0.00 4.70
3697 5412 5.494863 GATGTACAAAAACAAACATCGGC 57.505 39.130 0.00 0.00 38.98 5.54
3700 5415 8.801715 ATCACTGATGTACAAAAACAAACATC 57.198 30.769 0.00 7.23 45.40 3.06
3701 5416 8.412456 TGATCACTGATGTACAAAAACAAACAT 58.588 29.630 0.00 0.00 35.34 2.71


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

AutoCloner maintained by Alex Coulton.