Multiple sequence alignment - TraesCS4A01G246300

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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 TraesCS4A01G246300 chr4A 100.000 5350 0 0 1 5350 556825154 556830503 0 9880
1 TraesCS4A01G246300 chr4D 93.963 2021 100 16 1234 3248 43068183 43066179 0 3037
2 TraesCS4A01G246300 chr4D 94.611 1336 57 11 3289 4616 43066178 43064850 0 2054
3 TraesCS4A01G246300 chr4D 91.304 1173 39 16 1 1165 43069685 43068568 0 1543
4 TraesCS4A01G246300 chr4D 92.369 747 47 6 4605 5350 43064833 43064096 0 1055
5 TraesCS4A01G246300 chr4B 89.065 2268 132 39 1 2246 61311027 61308854 0 2708
6 TraesCS4A01G246300 chr4B 93.692 1189 58 10 3289 4466 61307910 61306728 0 1764
7 TraesCS4A01G246300 chr4B 94.342 919 43 9 2270 3183 61308861 61307947 0 1400
8 TraesCS4A01G246300 chr4B 87.879 759 50 21 4601 5350 61306518 61305793 0 854


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 TraesCS4A01G246300 chr4A 556825154 556830503 5349 False 9880.00 9880 100.00000 1 5350 1 chr4A.!!$F1 5349
1 TraesCS4A01G246300 chr4D 43064096 43069685 5589 True 1922.25 3037 93.06175 1 5350 4 chr4D.!!$R1 5349
2 TraesCS4A01G246300 chr4B 61305793 61311027 5234 True 1681.50 2708 91.24450 1 5350 4 chr4B.!!$R1 5349

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
257 263 0.033781 GGCAGCCATTCAGCAAACAA 59.966 50.000 6.55 0.00 34.23 2.83 F
278 284 0.303796 GGCTATAAAACAGGCGACGC 59.696 55.000 12.43 12.43 0.00 5.19 F
764 778 0.539051 CCATCGCTGGAAGGAACTCT 59.461 55.000 0.00 0.00 46.37 3.24 F
769 783 0.539518 GCTGGAAGGAACTCTCCCTC 59.460 60.000 0.00 0.00 43.64 4.30 F
772 786 0.983905 GGAAGGAACTCTCCCTCCCC 60.984 65.000 0.00 0.00 44.15 4.81 F
2674 3025 0.326264 ACCTGATCAGTTGGAGGTGC 59.674 55.000 21.11 0.00 37.44 5.01 F
3213 3566 1.267806 CCACTGCAGAAACTCGCATTT 59.732 47.619 23.35 0.00 37.54 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1590 1920 0.033503 TGCTCTCCACCGAGGTATCA 60.034 55.000 0.00 0.00 39.02 2.15 R
1644 1974 1.605058 TTAGCGAGCCACTCCTCCAC 61.605 60.000 0.00 0.00 0.00 4.02 R
2571 2922 1.669440 GTCACCTTCGCCAGTACCA 59.331 57.895 0.00 0.00 0.00 3.25 R
2590 2941 3.471680 ACTGTTCCTCTTCTGTTTGCTC 58.528 45.455 0.00 0.00 0.00 4.26 R
2725 3076 3.826729 ACCACAAATTAAGAAGGGCAGAC 59.173 43.478 0.00 0.00 0.00 3.51 R
3817 4178 0.606401 ACATTCAAGTGCACGAGGGG 60.606 55.000 12.01 3.61 0.00 4.79 R
4922 5369 1.187087 GGAAGTCCATCCACTCGACT 58.813 55.000 0.00 0.00 39.42 4.18 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
32 33 3.304659 GGATCTGCAAAACAACACGACAT 60.305 43.478 0.00 0.00 0.00 3.06
200 206 5.358160 GCCATAGGAGTCTGCAGTTAAAATT 59.642 40.000 14.67 0.00 0.00 1.82
201 207 6.458888 GCCATAGGAGTCTGCAGTTAAAATTC 60.459 42.308 14.67 0.00 0.00 2.17
202 208 6.599244 CCATAGGAGTCTGCAGTTAAAATTCA 59.401 38.462 14.67 0.00 0.00 2.57
203 209 7.284034 CCATAGGAGTCTGCAGTTAAAATTCAT 59.716 37.037 14.67 0.40 0.00 2.57
209 215 8.807667 AGTCTGCAGTTAAAATTCATCAAAAG 57.192 30.769 14.67 0.00 0.00 2.27
231 237 6.287107 AGTCAAACACACGAGAAATAACTG 57.713 37.500 0.00 0.00 0.00 3.16
234 240 6.627671 GTCAAACACACGAGAAATAACTGAAC 59.372 38.462 0.00 0.00 0.00 3.18
236 242 6.671614 AACACACGAGAAATAACTGAACAA 57.328 33.333 0.00 0.00 0.00 2.83
250 256 0.109597 GAACAACGGCAGCCATTCAG 60.110 55.000 13.30 0.00 0.00 3.02
251 257 2.146073 AACAACGGCAGCCATTCAGC 62.146 55.000 13.30 0.00 0.00 4.26
252 258 2.282391 AACGGCAGCCATTCAGCA 60.282 55.556 13.30 0.00 34.23 4.41
253 259 1.902918 AACGGCAGCCATTCAGCAA 60.903 52.632 13.30 0.00 34.23 3.91
254 260 1.462731 AACGGCAGCCATTCAGCAAA 61.463 50.000 13.30 0.00 34.23 3.68
255 261 1.444895 CGGCAGCCATTCAGCAAAC 60.445 57.895 13.30 0.00 34.23 2.93
256 262 1.667151 GGCAGCCATTCAGCAAACA 59.333 52.632 6.55 0.00 34.23 2.83
257 263 0.033781 GGCAGCCATTCAGCAAACAA 59.966 50.000 6.55 0.00 34.23 2.83
258 264 1.425412 GCAGCCATTCAGCAAACAAG 58.575 50.000 0.00 0.00 34.23 3.16
259 265 1.938016 GCAGCCATTCAGCAAACAAGG 60.938 52.381 0.00 0.00 34.23 3.61
275 281 2.026636 ACAAGGGCTATAAAACAGGCGA 60.027 45.455 0.00 0.00 39.38 5.54
276 282 2.327200 AGGGCTATAAAACAGGCGAC 57.673 50.000 0.00 0.00 39.38 5.19
277 283 0.935196 GGGCTATAAAACAGGCGACG 59.065 55.000 0.00 0.00 39.38 5.12
278 284 0.303796 GGCTATAAAACAGGCGACGC 59.696 55.000 12.43 12.43 0.00 5.19
279 285 1.003851 GCTATAAAACAGGCGACGCA 58.996 50.000 23.09 0.00 0.00 5.24
280 286 1.004927 GCTATAAAACAGGCGACGCAG 60.005 52.381 23.09 15.74 0.00 5.18
281 287 1.003851 TATAAAACAGGCGACGCAGC 58.996 50.000 23.09 4.93 0.00 5.25
406 414 4.439968 CATAAGAAGGTACGGGAAGGAAC 58.560 47.826 0.00 0.00 0.00 3.62
527 535 1.141234 GAAGTTACCGGCGGAGGAG 59.859 63.158 35.78 5.59 34.73 3.69
528 536 2.294132 GAAGTTACCGGCGGAGGAGG 62.294 65.000 35.78 4.70 34.73 4.30
529 537 2.757099 GTTACCGGCGGAGGAGGA 60.757 66.667 35.78 8.24 34.73 3.71
614 622 2.675423 TCAGGCCACGAGTACGCT 60.675 61.111 5.01 0.00 43.96 5.07
763 777 3.071580 CCATCGCTGGAAGGAACTC 57.928 57.895 0.00 0.00 46.37 3.01
764 778 0.539051 CCATCGCTGGAAGGAACTCT 59.461 55.000 0.00 0.00 46.37 3.24
765 779 1.472376 CCATCGCTGGAAGGAACTCTC 60.472 57.143 0.00 0.00 46.37 3.20
766 780 0.827368 ATCGCTGGAAGGAACTCTCC 59.173 55.000 0.00 0.00 38.49 3.71
767 781 1.219393 CGCTGGAAGGAACTCTCCC 59.781 63.158 0.00 0.00 43.64 4.30
768 782 1.261238 CGCTGGAAGGAACTCTCCCT 61.261 60.000 0.00 0.00 43.64 4.20
769 783 0.539518 GCTGGAAGGAACTCTCCCTC 59.460 60.000 0.00 0.00 43.64 4.30
771 785 2.610282 GGAAGGAACTCTCCCTCCC 58.390 63.158 0.00 0.00 44.15 4.30
772 786 0.983905 GGAAGGAACTCTCCCTCCCC 60.984 65.000 0.00 0.00 44.15 4.81
773 787 0.983905 GAAGGAACTCTCCCTCCCCC 60.984 65.000 0.00 0.00 43.64 5.40
846 860 2.291043 GCCTGGGGTTTCTCGAGGA 61.291 63.158 13.56 0.00 32.75 3.71
892 906 4.796495 CTGGCCCGGTGTTAGCCC 62.796 72.222 15.10 0.00 46.55 5.19
1130 1144 4.069232 CAAGACGAGCAGGCCGGA 62.069 66.667 5.05 0.00 0.00 5.14
1179 1193 2.187493 TTCTCCGAGATCTCCCGCG 61.187 63.158 17.13 0.00 0.00 6.46
1199 1213 4.863925 GTGCGAGCTCTCTCCGGC 62.864 72.222 12.85 7.12 35.94 6.13
1380 1710 1.214673 GGGGGAGACAAGGGGAATAAC 59.785 57.143 0.00 0.00 0.00 1.89
1544 1874 2.358898 GGTCGATGGATTGGTGAAATGG 59.641 50.000 0.00 0.00 0.00 3.16
1552 1882 4.895889 TGGATTGGTGAAATGGTGTTTGTA 59.104 37.500 0.00 0.00 0.00 2.41
1555 1885 6.589907 GGATTGGTGAAATGGTGTTTGTAATC 59.410 38.462 0.00 0.00 0.00 1.75
1558 1888 5.596361 TGGTGAAATGGTGTTTGTAATCTGT 59.404 36.000 0.00 0.00 0.00 3.41
1587 1917 2.360852 CTGCAGGGGCTCAAGGTG 60.361 66.667 5.57 0.00 41.91 4.00
1590 1920 1.531602 GCAGGGGCTCAAGGTGTTT 60.532 57.895 0.00 0.00 36.96 2.83
1620 1950 2.415608 GGAGAGCATCACGACCGGA 61.416 63.158 9.46 0.00 37.82 5.14
1662 1992 2.052690 GTGGAGGAGTGGCTCGCTA 61.053 63.158 0.00 0.00 0.00 4.26
1692 2022 5.193728 TCAGAAGTATAGCCCCCTTTTGATT 59.806 40.000 0.00 0.00 28.03 2.57
1833 2171 7.551617 TGATCAAATCCTCCGATGATATGAATG 59.448 37.037 0.00 0.00 32.90 2.67
1877 2216 5.417580 TGCTGATTATGGTTACAAGTTTCCC 59.582 40.000 0.00 0.00 0.00 3.97
1920 2262 7.437565 TGAGAGAAAGCTGATCTATTCATTTCG 59.562 37.037 2.45 0.00 37.95 3.46
1939 2281 3.963665 TCGCTTTGTTGGTTCAAGAATG 58.036 40.909 0.00 0.00 0.00 2.67
1944 2287 5.915196 GCTTTGTTGGTTCAAGAATGAGTAC 59.085 40.000 7.32 0.00 36.78 2.73
1983 2326 6.403200 CCGTTGACAGGTTAATCCTTGTATTG 60.403 42.308 0.00 0.00 45.67 1.90
1984 2327 6.403200 CGTTGACAGGTTAATCCTTGTATTGG 60.403 42.308 0.00 0.00 45.67 3.16
2057 2400 6.367983 AGCATAGATGGGATTCTAAAAGCAA 58.632 36.000 0.00 0.00 32.20 3.91
2074 2418 4.370364 AGCAACACTTTCATCAAAACGT 57.630 36.364 0.00 0.00 0.00 3.99
2091 2435 8.912787 TCAAAACGTTGCTTTATTGTTCTTTA 57.087 26.923 0.00 0.00 34.50 1.85
2132 2476 6.774354 AATGAATCATTTTGCAGTGTCAAC 57.226 33.333 2.07 0.00 28.76 3.18
2139 2483 4.652421 TTTTGCAGTGTCAACATGTCAT 57.348 36.364 0.00 0.00 0.00 3.06
2156 2500 7.195646 ACATGTCATGTTCACTTTTGTGTTAG 58.804 34.615 12.87 0.00 42.20 2.34
2238 2588 9.313118 GCTTGAAAAAGGAACTCTTCAATTTAA 57.687 29.630 6.83 0.00 38.49 1.52
2250 2600 9.744468 AACTCTTCAATTTAATGTGTTTGTACC 57.256 29.630 0.00 0.00 0.00 3.34
2435 2786 8.842358 TCTACTGTTCTACCCATTTGTAAAAG 57.158 34.615 0.00 0.00 0.00 2.27
2439 2790 9.227777 ACTGTTCTACCCATTTGTAAAAGTATC 57.772 33.333 0.00 0.00 0.00 2.24
2568 2919 7.693969 AGAGACTGGTATGGAAATTGAAAAG 57.306 36.000 0.00 0.00 0.00 2.27
2571 2922 5.402630 ACTGGTATGGAAATTGAAAAGGGT 58.597 37.500 0.00 0.00 0.00 4.34
2590 2941 1.445582 GGTACTGGCGAAGGTGACG 60.446 63.158 0.00 0.00 0.00 4.35
2674 3025 0.326264 ACCTGATCAGTTGGAGGTGC 59.674 55.000 21.11 0.00 37.44 5.01
2699 3050 6.042143 GGCTTCTGTTTTCACATTTTCTTCA 58.958 36.000 0.00 0.00 30.39 3.02
2725 3076 3.803021 GCTGGATTATCAGTCTCTGGCTG 60.803 52.174 0.00 0.00 37.12 4.85
2729 3082 4.501229 GGATTATCAGTCTCTGGCTGTCTG 60.501 50.000 0.00 0.00 35.60 3.51
2908 3261 5.032846 AGTACCAAGATTGAGGAAGATGGA 58.967 41.667 0.00 0.00 0.00 3.41
2992 3345 4.799678 AGAAGTTATGTGACTCGAGTGTG 58.200 43.478 25.58 0.00 0.00 3.82
3102 3455 7.816995 GGTTTTGTCAGGTTATGATGCAATTAA 59.183 33.333 0.00 0.00 40.92 1.40
3119 3472 6.930164 TGCAATTAATGGGATATTGTTCATGC 59.070 34.615 0.00 0.00 33.04 4.06
3121 3474 7.117236 GCAATTAATGGGATATTGTTCATGCAG 59.883 37.037 0.00 0.00 33.04 4.41
3147 3500 4.402829 AACCCATGTTAGCATGTGTTACA 58.597 39.130 16.51 0.00 46.57 2.41
3149 3502 5.747545 AACCCATGTTAGCATGTGTTACAGA 60.748 40.000 16.51 0.00 46.57 3.41
3153 3506 6.902341 CATGTTAGCATGTGTTACAGAAACT 58.098 36.000 11.13 0.00 45.48 2.66
3172 3525 8.116136 CAGAAACTTTAAAAAGGCAATGAACAC 58.884 33.333 7.34 0.00 40.31 3.32
3173 3526 8.040727 AGAAACTTTAAAAAGGCAATGAACACT 58.959 29.630 7.34 0.00 40.31 3.55
3189 3542 5.195185 TGAACACTATTGCACATCATCCAT 58.805 37.500 0.00 0.00 0.00 3.41
3208 3561 3.310774 CCATTATCCACTGCAGAAACTCG 59.689 47.826 23.35 1.33 0.00 4.18
3213 3566 1.267806 CCACTGCAGAAACTCGCATTT 59.732 47.619 23.35 0.00 37.54 2.32
3216 3569 2.287788 ACTGCAGAAACTCGCATTTTGG 60.288 45.455 23.35 0.00 37.54 3.28
3248 3601 9.132923 CTGACAGTGATATAAAACTACTAGGGA 57.867 37.037 0.00 0.00 0.00 4.20
3249 3602 8.910944 TGACAGTGATATAAAACTACTAGGGAC 58.089 37.037 0.00 0.00 0.00 4.46
3250 3603 9.134055 GACAGTGATATAAAACTACTAGGGACT 57.866 37.037 0.00 0.00 46.37 3.85
3251 3604 8.915036 ACAGTGATATAAAACTACTAGGGACTG 58.085 37.037 0.00 0.00 41.52 3.51
3252 3605 7.868415 CAGTGATATAAAACTACTAGGGACTGC 59.132 40.741 0.00 0.00 41.52 4.40
3253 3606 7.785506 AGTGATATAAAACTACTAGGGACTGCT 59.214 37.037 0.00 0.00 41.52 4.24
3254 3607 8.422566 GTGATATAAAACTACTAGGGACTGCTT 58.577 37.037 0.00 0.00 41.52 3.91
3255 3608 9.650714 TGATATAAAACTACTAGGGACTGCTTA 57.349 33.333 0.00 0.00 41.52 3.09
3260 3613 7.923414 AAACTACTAGGGACTGCTTAAAATG 57.077 36.000 0.00 0.00 41.52 2.32
3261 3614 6.622427 ACTACTAGGGACTGCTTAAAATGT 57.378 37.500 0.00 0.00 41.52 2.71
3262 3615 6.641474 ACTACTAGGGACTGCTTAAAATGTC 58.359 40.000 0.00 0.00 41.52 3.06
3263 3616 5.763876 ACTAGGGACTGCTTAAAATGTCT 57.236 39.130 0.00 0.00 41.52 3.41
3264 3617 6.869206 ACTAGGGACTGCTTAAAATGTCTA 57.131 37.500 0.00 0.00 41.52 2.59
3265 3618 6.879400 ACTAGGGACTGCTTAAAATGTCTAG 58.121 40.000 0.00 0.00 41.52 2.43
3266 3619 5.763876 AGGGACTGCTTAAAATGTCTAGT 57.236 39.130 0.00 0.00 37.18 2.57
3267 3620 6.869206 AGGGACTGCTTAAAATGTCTAGTA 57.131 37.500 0.00 0.00 37.18 1.82
3268 3621 7.253905 AGGGACTGCTTAAAATGTCTAGTAA 57.746 36.000 0.00 0.00 37.18 2.24
3269 3622 7.104290 AGGGACTGCTTAAAATGTCTAGTAAC 58.896 38.462 0.00 0.00 37.18 2.50
3270 3623 7.038231 AGGGACTGCTTAAAATGTCTAGTAACT 60.038 37.037 0.00 0.00 37.18 2.24
3271 3624 7.064728 GGGACTGCTTAAAATGTCTAGTAACTG 59.935 40.741 0.00 0.00 0.00 3.16
3272 3625 7.817962 GGACTGCTTAAAATGTCTAGTAACTGA 59.182 37.037 0.00 0.00 0.00 3.41
3273 3626 8.535690 ACTGCTTAAAATGTCTAGTAACTGAC 57.464 34.615 0.00 0.00 0.00 3.51
3274 3627 8.148351 ACTGCTTAAAATGTCTAGTAACTGACA 58.852 33.333 0.00 0.00 45.56 3.58
3275 3628 8.896320 TGCTTAAAATGTCTAGTAACTGACAA 57.104 30.769 7.22 0.00 44.81 3.18
3276 3629 8.988934 TGCTTAAAATGTCTAGTAACTGACAAG 58.011 33.333 7.22 2.78 44.81 3.16
3277 3630 9.204570 GCTTAAAATGTCTAGTAACTGACAAGA 57.795 33.333 7.22 0.00 44.81 3.02
3282 3635 9.915629 AAATGTCTAGTAACTGACAAGACTAAG 57.084 33.333 7.22 0.00 44.81 2.18
3283 3636 8.638629 ATGTCTAGTAACTGACAAGACTAAGT 57.361 34.615 7.22 0.00 44.81 2.24
3284 3637 7.872881 TGTCTAGTAACTGACAAGACTAAGTG 58.127 38.462 4.75 0.00 39.82 3.16
3285 3638 7.718314 TGTCTAGTAACTGACAAGACTAAGTGA 59.282 37.037 4.75 0.00 39.82 3.41
3286 3639 8.566260 GTCTAGTAACTGACAAGACTAAGTGAA 58.434 37.037 0.00 0.00 33.75 3.18
3287 3640 9.128404 TCTAGTAACTGACAAGACTAAGTGAAA 57.872 33.333 0.00 0.00 0.00 2.69
3303 3656 6.739331 AAGTGAAATTACCCCACATTTTCA 57.261 33.333 0.00 0.00 34.80 2.69
3306 3659 6.326323 AGTGAAATTACCCCACATTTTCAGTT 59.674 34.615 0.00 0.00 36.88 3.16
3309 3662 6.933514 AATTACCCCACATTTTCAGTTCAT 57.066 33.333 0.00 0.00 0.00 2.57
3320 3673 7.217636 CACATTTTCAGTTCATCAATAAGCTCG 59.782 37.037 0.00 0.00 0.00 5.03
3322 3675 6.408858 TTTCAGTTCATCAATAAGCTCGTC 57.591 37.500 0.00 0.00 0.00 4.20
3339 3692 2.036733 TCGTCCCAGTTTTACTCCTGTG 59.963 50.000 0.00 0.00 0.00 3.66
3357 3710 4.633565 CCTGTGGAGTTTCTTAGAGCATTC 59.366 45.833 0.00 0.00 0.00 2.67
3414 3771 6.538742 ACATCTTACATGGTTTCACTAATCGG 59.461 38.462 0.00 0.00 0.00 4.18
3745 4104 2.781757 AGAAATCATCAGATGGAGGGCA 59.218 45.455 10.67 0.00 33.90 5.36
3801 4162 3.881089 ACAAGTTTTGCTACAGGTACCAC 59.119 43.478 15.94 0.00 0.00 4.16
3817 4178 7.094933 ACAGGTACCACGAAAACAATCTATTTC 60.095 37.037 15.94 0.00 33.28 2.17
3844 4208 0.310543 GCACTTGAATGTTGGACGCA 59.689 50.000 0.00 0.00 0.00 5.24
3845 4209 1.268999 GCACTTGAATGTTGGACGCAA 60.269 47.619 0.00 0.00 0.00 4.85
3980 4344 0.700564 TGCAGGAGAAAGCCAAGGAT 59.299 50.000 0.00 0.00 0.00 3.24
4017 4381 3.680786 CCGACCAGACGAGTGCCA 61.681 66.667 0.00 0.00 35.09 4.92
4156 4523 1.167155 ACATTTTGTGTGCGCGGGTA 61.167 50.000 8.83 0.00 40.28 3.69
4202 4569 5.003804 AGTTATGAAAGCTACACTGGTTGG 58.996 41.667 0.00 0.00 0.00 3.77
4358 4725 4.404715 AGATAGAAGTTTACCTAAGCGCCA 59.595 41.667 2.29 0.00 0.00 5.69
4365 4732 5.433526 AGTTTACCTAAGCGCCATCATTTA 58.566 37.500 2.29 0.00 0.00 1.40
4369 4736 4.632153 ACCTAAGCGCCATCATTTAGTAG 58.368 43.478 2.29 0.00 0.00 2.57
4370 4737 4.344102 ACCTAAGCGCCATCATTTAGTAGA 59.656 41.667 2.29 0.00 0.00 2.59
4371 4738 4.686554 CCTAAGCGCCATCATTTAGTAGAC 59.313 45.833 2.29 0.00 0.00 2.59
4372 4739 3.819564 AGCGCCATCATTTAGTAGACA 57.180 42.857 2.29 0.00 0.00 3.41
4373 4740 4.342862 AGCGCCATCATTTAGTAGACAT 57.657 40.909 2.29 0.00 0.00 3.06
4374 4741 5.468540 AGCGCCATCATTTAGTAGACATA 57.531 39.130 2.29 0.00 0.00 2.29
4375 4742 6.042638 AGCGCCATCATTTAGTAGACATAT 57.957 37.500 2.29 0.00 0.00 1.78
4376 4743 7.170393 AGCGCCATCATTTAGTAGACATATA 57.830 36.000 2.29 0.00 0.00 0.86
4377 4744 7.261325 AGCGCCATCATTTAGTAGACATATAG 58.739 38.462 2.29 0.00 0.00 1.31
4466 4833 6.672147 AGGAGAACATATTATTGCGATTTGC 58.328 36.000 0.00 0.00 46.70 3.68
4518 4932 5.573219 TGACCTGGAATGATGATTTCTTGT 58.427 37.500 0.00 0.00 0.00 3.16
4524 4938 6.855836 TGGAATGATGATTTCTTGTAAGTGC 58.144 36.000 0.00 0.00 0.00 4.40
4564 4978 5.523916 AGCAACTATGTGTTATTAAGAGCCG 59.476 40.000 0.00 0.00 37.07 5.52
4569 4983 6.924060 ACTATGTGTTATTAAGAGCCGATGAC 59.076 38.462 0.00 0.00 0.00 3.06
4595 5009 6.749923 AAATAAGTTGAGCAGAATCAGTCC 57.250 37.500 0.00 0.00 0.00 3.85
4627 5072 6.638610 TCTTTTTCCAAGACATTTCTTTGCA 58.361 32.000 0.00 0.00 40.34 4.08
4633 5078 2.949447 AGACATTTCTTTGCAGGTGGT 58.051 42.857 0.00 0.00 0.00 4.16
4635 5080 3.821033 AGACATTTCTTTGCAGGTGGTAC 59.179 43.478 0.00 0.00 0.00 3.34
4636 5081 3.821033 GACATTTCTTTGCAGGTGGTACT 59.179 43.478 0.00 0.00 0.00 2.73
4652 5097 3.758023 TGGTACTGAATGTTGATGCCTTG 59.242 43.478 0.00 0.00 0.00 3.61
4695 5140 6.215121 CACATTACTGCATCTCAAAACCAAA 58.785 36.000 0.00 0.00 0.00 3.28
4707 5152 4.623002 TCAAAACCAAAAATTACTCCGGC 58.377 39.130 0.00 0.00 0.00 6.13
4730 5175 5.545588 CTGTATCATCTTCCTGGGTACATG 58.454 45.833 0.00 0.00 0.00 3.21
4740 5185 4.968259 TCCTGGGTACATGTACATATTGC 58.032 43.478 31.52 16.28 37.78 3.56
4748 5193 3.633525 ACATGTACATATTGCAGGCCAAG 59.366 43.478 8.32 0.00 36.76 3.61
4762 5209 5.109210 GCAGGCCAAGATTGTTAAAATACC 58.891 41.667 5.01 0.00 0.00 2.73
4941 5388 1.187087 AGTCGAGTGGATGGACTTCC 58.813 55.000 0.00 0.00 43.76 3.46
4948 5395 2.100916 AGTGGATGGACTTCCGTAATCG 59.899 50.000 0.00 0.00 38.74 3.34
4952 5399 2.857592 TGGACTTCCGTAATCGTAGC 57.142 50.000 0.00 0.00 39.43 3.58
4977 5424 5.138125 TCAGGCTGCCAATAAAGAAAAAG 57.862 39.130 22.65 0.00 0.00 2.27
4978 5425 4.588528 TCAGGCTGCCAATAAAGAAAAAGT 59.411 37.500 22.65 0.00 0.00 2.66
5004 5451 2.928116 GTCATTAAGCTCCCACGTGTAC 59.072 50.000 15.65 0.36 0.00 2.90
5016 5463 4.464951 TCCCACGTGTACTATCAAGTCAAT 59.535 41.667 15.65 0.00 37.15 2.57
5018 5465 5.977725 CCCACGTGTACTATCAAGTCAATAG 59.022 44.000 15.65 0.00 37.15 1.73
5027 5476 9.929180 GTACTATCAAGTCAATAGCATATTGGA 57.071 33.333 9.10 0.83 37.15 3.53
5038 5487 8.169393 TCAATAGCATATTGGAATGGGATACAA 58.831 33.333 9.10 0.00 39.74 2.41
5045 5494 4.734398 TGGAATGGGATACAATTTGTGC 57.266 40.909 12.30 4.26 39.74 4.57
5046 5495 4.092279 TGGAATGGGATACAATTTGTGCA 58.908 39.130 12.30 0.00 39.74 4.57
5050 5499 7.070946 TGGAATGGGATACAATTTGTGCAATAT 59.929 33.333 12.30 0.00 39.74 1.28
5156 5610 9.630098 CTCAATTAAATGCATAACACAGTTCTT 57.370 29.630 0.00 0.00 0.00 2.52
5229 5683 7.601073 GTCAAGACTCATGACAATACAATGA 57.399 36.000 9.12 0.00 45.13 2.57
5240 5694 6.244654 TGACAATACAATGACAGAATGGGAA 58.755 36.000 0.00 0.00 43.62 3.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 4.870123 ACAGCTTTGGTGAATGCAAATA 57.130 36.364 3.70 0.00 35.23 1.40
200 206 4.873259 TCTCGTGTGTTTGACTTTTGATGA 59.127 37.500 0.00 0.00 0.00 2.92
201 207 5.155509 TCTCGTGTGTTTGACTTTTGATG 57.844 39.130 0.00 0.00 0.00 3.07
202 208 5.811399 TTCTCGTGTGTTTGACTTTTGAT 57.189 34.783 0.00 0.00 0.00 2.57
203 209 5.614923 TTTCTCGTGTGTTTGACTTTTGA 57.385 34.783 0.00 0.00 0.00 2.69
209 215 6.281848 TCAGTTATTTCTCGTGTGTTTGAC 57.718 37.500 0.00 0.00 0.00 3.18
219 225 3.185594 TGCCGTTGTTCAGTTATTTCTCG 59.814 43.478 0.00 0.00 0.00 4.04
231 237 0.109597 CTGAATGGCTGCCGTTGTTC 60.110 55.000 29.60 20.94 32.23 3.18
234 240 2.144833 TTGCTGAATGGCTGCCGTTG 62.145 55.000 29.60 17.29 40.39 4.10
236 242 1.902918 TTTGCTGAATGGCTGCCGT 60.903 52.632 14.98 11.57 40.39 5.68
250 256 4.494484 CCTGTTTTATAGCCCTTGTTTGC 58.506 43.478 0.00 0.00 0.00 3.68
251 257 4.494484 GCCTGTTTTATAGCCCTTGTTTG 58.506 43.478 0.00 0.00 0.00 2.93
252 258 3.192633 CGCCTGTTTTATAGCCCTTGTTT 59.807 43.478 0.00 0.00 0.00 2.83
253 259 2.752903 CGCCTGTTTTATAGCCCTTGTT 59.247 45.455 0.00 0.00 0.00 2.83
254 260 2.026636 TCGCCTGTTTTATAGCCCTTGT 60.027 45.455 0.00 0.00 0.00 3.16
255 261 2.354821 GTCGCCTGTTTTATAGCCCTTG 59.645 50.000 0.00 0.00 0.00 3.61
256 262 2.640184 GTCGCCTGTTTTATAGCCCTT 58.360 47.619 0.00 0.00 0.00 3.95
257 263 1.472728 CGTCGCCTGTTTTATAGCCCT 60.473 52.381 0.00 0.00 0.00 5.19
258 264 0.935196 CGTCGCCTGTTTTATAGCCC 59.065 55.000 0.00 0.00 0.00 5.19
259 265 0.303796 GCGTCGCCTGTTTTATAGCC 59.696 55.000 5.75 0.00 0.00 3.93
527 535 4.168291 CGCTCCCCTTGCTCCTCC 62.168 72.222 0.00 0.00 0.00 4.30
528 536 4.168291 CCGCTCCCCTTGCTCCTC 62.168 72.222 0.00 0.00 0.00 3.71
529 537 4.722535 TCCGCTCCCCTTGCTCCT 62.723 66.667 0.00 0.00 0.00 3.69
661 672 4.862823 GGACGGAGGGGGAGGAGG 62.863 77.778 0.00 0.00 0.00 4.30
662 673 4.862823 GGGACGGAGGGGGAGGAG 62.863 77.778 0.00 0.00 0.00 3.69
770 784 2.520741 GAGAGAGAGCGGAGGGGG 60.521 72.222 0.00 0.00 0.00 5.40
771 785 1.528309 GAGAGAGAGAGCGGAGGGG 60.528 68.421 0.00 0.00 0.00 4.79
772 786 1.528309 GGAGAGAGAGAGCGGAGGG 60.528 68.421 0.00 0.00 0.00 4.30
773 787 0.535102 GAGGAGAGAGAGAGCGGAGG 60.535 65.000 0.00 0.00 0.00 4.30
774 788 0.469917 AGAGGAGAGAGAGAGCGGAG 59.530 60.000 0.00 0.00 0.00 4.63
775 789 0.468226 GAGAGGAGAGAGAGAGCGGA 59.532 60.000 0.00 0.00 0.00 5.54
776 790 0.535102 GGAGAGGAGAGAGAGAGCGG 60.535 65.000 0.00 0.00 0.00 5.52
777 791 0.880278 CGGAGAGGAGAGAGAGAGCG 60.880 65.000 0.00 0.00 0.00 5.03
778 792 0.535102 CCGGAGAGGAGAGAGAGAGC 60.535 65.000 0.00 0.00 45.00 4.09
779 793 0.535102 GCCGGAGAGGAGAGAGAGAG 60.535 65.000 5.05 0.00 45.00 3.20
780 794 1.275421 TGCCGGAGAGGAGAGAGAGA 61.275 60.000 5.05 0.00 45.00 3.10
846 860 2.690778 GCACGAGCCGCTCCAAAAT 61.691 57.895 14.85 0.00 33.58 1.82
1102 1116 0.390472 CTCGTCTTGCTGGGTCTTCC 60.390 60.000 0.00 0.00 0.00 3.46
1103 1117 1.016653 GCTCGTCTTGCTGGGTCTTC 61.017 60.000 0.00 0.00 0.00 2.87
1130 1144 4.748798 CAGCCTCCCCACCCTCCT 62.749 72.222 0.00 0.00 0.00 3.69
1179 1193 4.863925 GGAGAGAGCTCGCACGCC 62.864 72.222 20.08 15.99 42.25 5.68
1228 1242 1.451567 TCCCGCCGACAAACAAACA 60.452 52.632 0.00 0.00 0.00 2.83
1376 1706 2.842936 CCCCCTCCGGCTCGTTAT 60.843 66.667 0.00 0.00 0.00 1.89
1438 1768 4.838486 CGAGTCCTCGCTGGCGTC 62.838 72.222 14.55 3.94 46.50 5.19
1488 1818 2.746277 CGAAAACAGCGGGAGGGG 60.746 66.667 0.00 0.00 0.00 4.79
1544 1874 4.023193 CCCCAAGACACAGATTACAAACAC 60.023 45.833 0.00 0.00 0.00 3.32
1552 1882 2.815589 GCAGAACCCCAAGACACAGATT 60.816 50.000 0.00 0.00 0.00 2.40
1555 1885 0.179020 TGCAGAACCCCAAGACACAG 60.179 55.000 0.00 0.00 0.00 3.66
1558 1888 1.455849 CCTGCAGAACCCCAAGACA 59.544 57.895 17.39 0.00 0.00 3.41
1587 1917 2.738964 GCTCTCCACCGAGGTATCAAAC 60.739 54.545 0.00 0.00 39.02 2.93
1590 1920 0.033503 TGCTCTCCACCGAGGTATCA 60.034 55.000 0.00 0.00 39.02 2.15
1644 1974 1.605058 TTAGCGAGCCACTCCTCCAC 61.605 60.000 0.00 0.00 0.00 4.02
1662 1992 4.478686 AGGGGGCTATACTTCTGAACAATT 59.521 41.667 0.00 0.00 0.00 2.32
1709 2039 3.795688 AGCAACTCAGGGAATCAAAGA 57.204 42.857 0.00 0.00 0.00 2.52
1833 2171 3.559242 GCATTCTGAGTGGACAGCTAATC 59.441 47.826 2.24 0.00 37.75 1.75
1903 2244 5.814783 ACAAAGCGAAATGAATAGATCAGC 58.185 37.500 0.00 0.00 42.53 4.26
1920 2262 4.936891 ACTCATTCTTGAACCAACAAAGC 58.063 39.130 0.00 0.00 0.00 3.51
1939 2281 2.614057 CGGGCAAGAAATCCATGTACTC 59.386 50.000 0.00 0.00 0.00 2.59
1944 2287 1.818060 TCAACGGGCAAGAAATCCATG 59.182 47.619 0.00 0.00 0.00 3.66
2057 2400 4.370364 AGCAACGTTTTGATGAAAGTGT 57.630 36.364 0.00 0.00 34.24 3.55
2117 2461 4.652421 TGACATGTTGACACTGCAAAAT 57.348 36.364 0.00 0.00 0.00 1.82
2132 2476 7.195646 ACTAACACAAAAGTGAACATGACATG 58.804 34.615 14.02 14.02 0.00 3.21
2156 2500 9.685828 TTGGCACTCAAAACATTATTAAACTAC 57.314 29.630 0.00 0.00 31.46 2.73
2238 2588 8.554490 AGATAGAAGGATAGGTACAAACACAT 57.446 34.615 0.00 0.00 0.00 3.21
2276 2626 6.072230 AGCAGAAGTTTCCAATCTAAGAAAGC 60.072 38.462 0.00 0.00 32.86 3.51
2568 2919 2.267961 CCTTCGCCAGTACCACCC 59.732 66.667 0.00 0.00 0.00 4.61
2571 2922 1.669440 GTCACCTTCGCCAGTACCA 59.331 57.895 0.00 0.00 0.00 3.25
2590 2941 3.471680 ACTGTTCCTCTTCTGTTTGCTC 58.528 45.455 0.00 0.00 0.00 4.26
2674 3025 4.610945 AGAAAATGTGAAAACAGAAGCCG 58.389 39.130 0.00 0.00 0.00 5.52
2699 3050 4.202336 CCAGAGACTGATAATCCAGCACAT 60.202 45.833 0.00 0.00 37.68 3.21
2725 3076 3.826729 ACCACAAATTAAGAAGGGCAGAC 59.173 43.478 0.00 0.00 0.00 3.51
2729 3082 5.468540 AAAGACCACAAATTAAGAAGGGC 57.531 39.130 0.00 0.00 0.00 5.19
2824 3177 5.175127 TCATAATACGTTTTCTGCTCAGCA 58.825 37.500 0.00 0.00 36.92 4.41
2908 3261 2.103153 TCCCTTTGTCAGAGTCTGGT 57.897 50.000 19.99 0.00 31.51 4.00
3102 3455 6.795144 TTTTCTGCATGAACAATATCCCAT 57.205 33.333 0.00 0.00 33.88 4.00
3143 3496 9.877178 TTCATTGCCTTTTTAAAGTTTCTGTAA 57.123 25.926 0.00 0.00 34.20 2.41
3145 3498 7.821846 TGTTCATTGCCTTTTTAAAGTTTCTGT 59.178 29.630 0.00 0.00 34.20 3.41
3146 3499 8.116136 GTGTTCATTGCCTTTTTAAAGTTTCTG 58.884 33.333 0.00 0.00 34.20 3.02
3147 3500 8.040727 AGTGTTCATTGCCTTTTTAAAGTTTCT 58.959 29.630 0.00 0.00 34.20 2.52
3149 3502 9.830975 ATAGTGTTCATTGCCTTTTTAAAGTTT 57.169 25.926 0.00 0.00 34.20 2.66
3172 3525 6.657966 AGTGGATAATGGATGATGTGCAATAG 59.342 38.462 0.00 0.00 0.00 1.73
3173 3526 6.431852 CAGTGGATAATGGATGATGTGCAATA 59.568 38.462 0.00 0.00 0.00 1.90
3189 3542 2.289382 TGCGAGTTTCTGCAGTGGATAA 60.289 45.455 14.67 0.00 35.90 1.75
3208 3561 1.270550 CTGTCAGGTCACCCAAAATGC 59.729 52.381 0.00 0.00 0.00 3.56
3213 3566 1.434188 ATCACTGTCAGGTCACCCAA 58.566 50.000 4.53 0.00 0.00 4.12
3216 3569 6.407202 AGTTTTATATCACTGTCAGGTCACC 58.593 40.000 4.53 0.00 0.00 4.02
3229 3582 8.548880 AAGCAGTCCCTAGTAGTTTTATATCA 57.451 34.615 0.00 0.00 0.00 2.15
3235 3588 7.942894 ACATTTTAAGCAGTCCCTAGTAGTTTT 59.057 33.333 0.00 0.00 0.00 2.43
3248 3601 8.148351 TGTCAGTTACTAGACATTTTAAGCAGT 58.852 33.333 11.54 0.00 39.65 4.40
3249 3602 8.534333 TGTCAGTTACTAGACATTTTAAGCAG 57.466 34.615 11.54 0.00 39.65 4.24
3250 3603 8.896320 TTGTCAGTTACTAGACATTTTAAGCA 57.104 30.769 14.72 0.63 43.57 3.91
3251 3604 9.204570 TCTTGTCAGTTACTAGACATTTTAAGC 57.795 33.333 14.72 0.00 43.57 3.09
3261 3614 8.687292 TTCACTTAGTCTTGTCAGTTACTAGA 57.313 34.615 0.00 0.00 37.58 2.43
3262 3615 9.915629 ATTTCACTTAGTCTTGTCAGTTACTAG 57.084 33.333 0.00 0.00 32.84 2.57
3266 3619 9.485206 GGTAATTTCACTTAGTCTTGTCAGTTA 57.515 33.333 0.00 0.00 0.00 2.24
3267 3620 7.444487 GGGTAATTTCACTTAGTCTTGTCAGTT 59.556 37.037 0.00 0.00 0.00 3.16
3268 3621 6.935208 GGGTAATTTCACTTAGTCTTGTCAGT 59.065 38.462 0.00 0.00 0.00 3.41
3269 3622 6.371825 GGGGTAATTTCACTTAGTCTTGTCAG 59.628 42.308 0.00 0.00 0.00 3.51
3270 3623 6.183361 TGGGGTAATTTCACTTAGTCTTGTCA 60.183 38.462 0.00 0.00 0.00 3.58
3271 3624 6.148976 GTGGGGTAATTTCACTTAGTCTTGTC 59.851 42.308 0.00 0.00 0.00 3.18
3272 3625 6.002082 GTGGGGTAATTTCACTTAGTCTTGT 58.998 40.000 0.00 0.00 0.00 3.16
3273 3626 6.001460 TGTGGGGTAATTTCACTTAGTCTTG 58.999 40.000 0.00 0.00 33.04 3.02
3274 3627 6.195600 TGTGGGGTAATTTCACTTAGTCTT 57.804 37.500 0.00 0.00 33.04 3.01
3275 3628 5.836024 TGTGGGGTAATTTCACTTAGTCT 57.164 39.130 0.00 0.00 33.04 3.24
3276 3629 7.462571 AAATGTGGGGTAATTTCACTTAGTC 57.537 36.000 0.00 0.00 33.04 2.59
3277 3630 7.507616 TGAAAATGTGGGGTAATTTCACTTAGT 59.492 33.333 0.00 0.00 35.67 2.24
3278 3631 7.891561 TGAAAATGTGGGGTAATTTCACTTAG 58.108 34.615 0.00 0.00 35.67 2.18
3279 3632 7.507616 ACTGAAAATGTGGGGTAATTTCACTTA 59.492 33.333 0.00 0.00 35.67 2.24
3280 3633 6.326323 ACTGAAAATGTGGGGTAATTTCACTT 59.674 34.615 0.00 0.00 35.67 3.16
3281 3634 5.838521 ACTGAAAATGTGGGGTAATTTCACT 59.161 36.000 0.00 0.00 35.67 3.41
3282 3635 6.096673 ACTGAAAATGTGGGGTAATTTCAC 57.903 37.500 0.00 0.00 35.67 3.18
3283 3636 6.325028 TGAACTGAAAATGTGGGGTAATTTCA 59.675 34.615 0.00 0.00 37.59 2.69
3284 3637 6.754193 TGAACTGAAAATGTGGGGTAATTTC 58.246 36.000 0.00 0.00 0.00 2.17
3285 3638 6.739331 TGAACTGAAAATGTGGGGTAATTT 57.261 33.333 0.00 0.00 0.00 1.82
3286 3639 6.496565 TGATGAACTGAAAATGTGGGGTAATT 59.503 34.615 0.00 0.00 0.00 1.40
3287 3640 6.015918 TGATGAACTGAAAATGTGGGGTAAT 58.984 36.000 0.00 0.00 0.00 1.89
3303 3656 3.197766 TGGGACGAGCTTATTGATGAACT 59.802 43.478 0.00 0.00 0.00 3.01
3306 3659 2.766263 ACTGGGACGAGCTTATTGATGA 59.234 45.455 0.00 0.00 0.00 2.92
3309 3662 3.695830 AAACTGGGACGAGCTTATTGA 57.304 42.857 0.00 0.00 0.00 2.57
3320 3673 2.370849 TCCACAGGAGTAAAACTGGGAC 59.629 50.000 0.00 0.00 40.55 4.46
3322 3675 3.059352 CTCCACAGGAGTAAAACTGGG 57.941 52.381 4.89 0.00 44.25 4.45
3339 3692 3.553917 GCTCGAATGCTCTAAGAAACTCC 59.446 47.826 0.00 0.00 0.00 3.85
3349 3702 5.008415 CCAAAATATGAAGCTCGAATGCTCT 59.992 40.000 0.00 0.00 43.24 4.09
3357 3710 3.374988 TGAGTGCCAAAATATGAAGCTCG 59.625 43.478 0.00 0.00 0.00 5.03
3404 3757 1.003118 ACCTGCAAAGCCGATTAGTGA 59.997 47.619 0.00 0.00 0.00 3.41
3778 4137 3.880490 TGGTACCTGTAGCAAAACTTGTG 59.120 43.478 14.36 0.00 40.17 3.33
3801 4162 4.634443 ACGAGGGGAAATAGATTGTTTTCG 59.366 41.667 0.00 0.00 33.58 3.46
3817 4178 0.606401 ACATTCAAGTGCACGAGGGG 60.606 55.000 12.01 3.61 0.00 4.79
3866 4230 5.950023 ACATCTGAGATGCCTATGGATTTT 58.050 37.500 21.62 0.00 0.00 1.82
3980 4344 4.777366 TCGGATTTCAGATGGCTGGATATA 59.223 41.667 0.00 0.00 42.53 0.86
4017 4381 2.076863 GGCGTCTTGTAACTTGCTGAT 58.923 47.619 0.00 0.00 0.00 2.90
4202 4569 2.645730 TGAACAAACACACCACAAGC 57.354 45.000 0.00 0.00 0.00 4.01
4419 4786 6.978659 CCTTTCTCAATAGTATCTTACGTGCA 59.021 38.462 0.00 0.00 0.00 4.57
4466 4833 5.810525 ACGAGTTTTGATCAAAGAACACAG 58.189 37.500 19.64 14.66 0.00 3.66
4564 4978 6.500684 TCTGCTCAACTTATTTTGGTCATC 57.499 37.500 0.00 0.00 0.00 2.92
4569 4983 6.917533 ACTGATTCTGCTCAACTTATTTTGG 58.082 36.000 0.00 0.00 0.00 3.28
4595 5009 9.136952 GAAATGTCTTGGAAAAAGAGATGATTG 57.863 33.333 0.00 0.00 31.63 2.67
4627 5072 3.347216 GCATCAACATTCAGTACCACCT 58.653 45.455 0.00 0.00 0.00 4.00
4633 5078 6.348132 CGTAAACAAGGCATCAACATTCAGTA 60.348 38.462 0.00 0.00 0.00 2.74
4635 5080 4.853196 CGTAAACAAGGCATCAACATTCAG 59.147 41.667 0.00 0.00 0.00 3.02
4636 5081 4.793071 CGTAAACAAGGCATCAACATTCA 58.207 39.130 0.00 0.00 0.00 2.57
4652 5097 4.506758 TGTGGGGAAGTATAAGCGTAAAC 58.493 43.478 0.00 0.00 0.00 2.01
4695 5140 5.552870 AGATGATACAGCCGGAGTAATTT 57.447 39.130 5.05 0.00 0.00 1.82
4707 5152 5.070981 ACATGTACCCAGGAAGATGATACAG 59.929 44.000 0.00 0.00 0.00 2.74
4730 5175 4.339247 ACAATCTTGGCCTGCAATATGTAC 59.661 41.667 3.32 0.00 0.00 2.90
4740 5185 5.395214 GGGGTATTTTAACAATCTTGGCCTG 60.395 44.000 3.32 0.00 0.00 4.85
4748 5193 8.584063 TTTACAGAGGGGGTATTTTAACAATC 57.416 34.615 0.00 0.00 0.00 2.67
4795 5242 3.056891 ACCATTTGCGTTTCCCAACTATG 60.057 43.478 0.00 0.00 0.00 2.23
4845 5292 3.605486 GTCTTGATTGTGATTTTCGCTGC 59.395 43.478 0.00 0.00 0.00 5.25
4914 5361 2.379972 CATCCACTCGACTACCCTCTT 58.620 52.381 0.00 0.00 0.00 2.85
4922 5369 1.187087 GGAAGTCCATCCACTCGACT 58.813 55.000 0.00 0.00 39.42 4.18
4941 5388 2.472861 CAGCCTGATTGCTACGATTACG 59.527 50.000 0.00 0.00 40.32 3.18
4948 5395 1.396653 ATTGGCAGCCTGATTGCTAC 58.603 50.000 14.15 0.00 40.32 3.58
4952 5399 4.724074 TTCTTTATTGGCAGCCTGATTG 57.276 40.909 14.15 0.00 0.00 2.67
4977 5424 3.555956 CGTGGGAGCTTAATGACATACAC 59.444 47.826 0.00 0.00 0.00 2.90
4978 5425 3.196901 ACGTGGGAGCTTAATGACATACA 59.803 43.478 0.00 0.00 0.00 2.29
5016 5463 8.805175 CAAATTGTATCCCATTCCAATATGCTA 58.195 33.333 0.00 0.00 0.00 3.49
5018 5465 7.385752 CACAAATTGTATCCCATTCCAATATGC 59.614 37.037 0.00 0.00 0.00 3.14
5050 5499 5.815740 GCTCGTGGAGAAATTATGAGGTAAA 59.184 40.000 0.00 0.00 0.00 2.01
5229 5683 2.641815 AGCTCTCAGTTTCCCATTCTGT 59.358 45.455 0.00 0.00 0.00 3.41
5240 5694 6.842437 TGTATACTTCTTGAGCTCTCAGTT 57.158 37.500 16.19 3.45 41.13 3.16


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

AutoCloner maintained by Alex Coulton.