Multiple sequence alignment - TraesCS2B01G136000

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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 TraesCS2B01G136000 chr2B 100.000 4346 0 0 1 4346 102979300 102983645 0.000000e+00 8026.0
1 TraesCS2B01G136000 chr2B 95.220 774 36 1 1 774 736387966 736388738 0.000000e+00 1223.0
2 TraesCS2B01G136000 chr2B 95.090 774 34 1 1 774 210266935 210267704 0.000000e+00 1216.0
3 TraesCS2B01G136000 chr2B 94.574 774 36 3 1 774 695442664 695443431 0.000000e+00 1192.0
4 TraesCS2B01G136000 chr2A 92.679 1721 80 20 2447 4132 66808186 66809895 0.000000e+00 2438.0
5 TraesCS2B01G136000 chr2A 91.287 1010 61 12 769 1771 66806518 66807507 0.000000e+00 1352.0
6 TraesCS2B01G136000 chr2A 94.844 640 32 1 1797 2435 66807506 66808145 0.000000e+00 998.0
7 TraesCS2B01G136000 chr2D 92.344 1685 79 14 775 2435 67555478 67553820 0.000000e+00 2351.0
8 TraesCS2B01G136000 chr2D 93.470 1118 43 11 2447 3544 67553779 67552672 0.000000e+00 1633.0
9 TraesCS2B01G136000 chr2D 87.329 513 28 16 3555 4031 67552690 67552179 1.770000e-153 553.0
10 TraesCS2B01G136000 chr7B 95.607 774 34 0 1 774 113207474 113206701 0.000000e+00 1242.0
11 TraesCS2B01G136000 chr7B 94.452 775 42 1 1 774 164083368 164084142 0.000000e+00 1192.0
12 TraesCS2B01G136000 chr7B 94.186 774 39 1 1 774 379409640 379408873 0.000000e+00 1175.0
13 TraesCS2B01G136000 chr7B 96.648 179 6 0 4168 4346 501587506 501587684 9.140000e-77 298.0
14 TraesCS2B01G136000 chr7B 88.889 63 6 1 4169 4231 610837984 610837923 4.660000e-10 76.8
15 TraesCS2B01G136000 chr6B 94.885 782 38 2 1 781 120822876 120822096 0.000000e+00 1221.0
16 TraesCS2B01G136000 chr6B 81.868 182 27 6 4169 4346 126751147 126751326 9.740000e-32 148.0
17 TraesCS2B01G136000 chr4B 95.103 776 34 4 1 775 481634625 481633853 0.000000e+00 1219.0
18 TraesCS2B01G136000 chr4B 82.258 186 25 7 4166 4346 552655074 552655256 2.090000e-33 154.0
19 TraesCS2B01G136000 chr3B 94.602 778 38 4 1 774 640077580 640076803 0.000000e+00 1201.0
20 TraesCS2B01G136000 chr1B 99.448 181 1 0 4166 4346 265654796 265654616 3.240000e-86 329.0
21 TraesCS2B01G136000 chr1A 99.448 181 1 0 4166 4346 362058502 362058322 3.240000e-86 329.0
22 TraesCS2B01G136000 chr1A 86.813 182 19 4 4167 4346 575233513 575233691 9.530000e-47 198.0
23 TraesCS2B01G136000 chrUn 98.895 181 2 0 4166 4346 269483451 269483631 1.510000e-84 324.0
24 TraesCS2B01G136000 chrUn 93.048 187 5 6 4166 4346 34355361 34355177 2.580000e-67 267.0


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 TraesCS2B01G136000 chr2B 102979300 102983645 4345 False 8026.000000 8026 100.000000 1 4346 1 chr2B.!!$F1 4345
1 TraesCS2B01G136000 chr2B 736387966 736388738 772 False 1223.000000 1223 95.220000 1 774 1 chr2B.!!$F4 773
2 TraesCS2B01G136000 chr2B 210266935 210267704 769 False 1216.000000 1216 95.090000 1 774 1 chr2B.!!$F2 773
3 TraesCS2B01G136000 chr2B 695442664 695443431 767 False 1192.000000 1192 94.574000 1 774 1 chr2B.!!$F3 773
4 TraesCS2B01G136000 chr2A 66806518 66809895 3377 False 1596.000000 2438 92.936667 769 4132 3 chr2A.!!$F1 3363
5 TraesCS2B01G136000 chr2D 67552179 67555478 3299 True 1512.333333 2351 91.047667 775 4031 3 chr2D.!!$R1 3256
6 TraesCS2B01G136000 chr7B 113206701 113207474 773 True 1242.000000 1242 95.607000 1 774 1 chr7B.!!$R1 773
7 TraesCS2B01G136000 chr7B 164083368 164084142 774 False 1192.000000 1192 94.452000 1 774 1 chr7B.!!$F1 773
8 TraesCS2B01G136000 chr7B 379408873 379409640 767 True 1175.000000 1175 94.186000 1 774 1 chr7B.!!$R2 773
9 TraesCS2B01G136000 chr6B 120822096 120822876 780 True 1221.000000 1221 94.885000 1 781 1 chr6B.!!$R1 780
10 TraesCS2B01G136000 chr4B 481633853 481634625 772 True 1219.000000 1219 95.103000 1 775 1 chr4B.!!$R1 774
11 TraesCS2B01G136000 chr3B 640076803 640077580 777 True 1201.000000 1201 94.602000 1 774 1 chr3B.!!$R1 773

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
223 226 0.180406 AACCAGTCAGTTCAAGCGGT 59.820 50.000 0.00 0.00 0.00 5.68 F
964 983 0.241481 GAACAGACGAGTCGCCTTCT 59.759 55.000 13.59 5.31 34.09 2.85 F
1304 1333 1.377690 TTTGGGGCTGTGGATTAGGA 58.622 50.000 0.00 0.00 0.00 2.94 F
3039 3110 1.202580 GCACTGTCACCTCTGTTCACT 60.203 52.381 0.00 0.00 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1286 1315 0.623723 GTCCTAATCCACAGCCCCAA 59.376 55.000 0.00 0.0 0.00 4.12 R
2640 2704 1.486726 GCCTCACCTACATTAGCAGGT 59.513 52.381 0.00 0.0 46.29 4.00 R
3157 3235 2.320681 TAGGTGGTAGTTGCCAGACT 57.679 50.000 0.00 0.0 39.53 3.24 R
4316 4447 0.036294 CTCCAACTTCTTCCCGGACC 60.036 60.000 0.73 0.0 0.00 4.46 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
23 24 1.848932 CTTGGTCGTCGGTCGTGAGA 61.849 60.000 0.00 0.00 40.80 3.27
124 127 4.735132 TCTTGGCTTCGACGGCGG 62.735 66.667 12.58 0.00 38.28 6.13
202 205 5.022282 TCTATGCTCGGTGATGAATTTGA 57.978 39.130 0.00 0.00 0.00 2.69
212 215 4.761739 GGTGATGAATTTGAGAACCAGTCA 59.238 41.667 0.00 0.00 0.00 3.41
223 226 0.180406 AACCAGTCAGTTCAAGCGGT 59.820 50.000 0.00 0.00 0.00 5.68
301 304 2.955402 GACGACGTCTGCTCCAGT 59.045 61.111 20.52 1.48 32.61 4.00
304 307 1.007271 CGACGTCTGCTCCAGTGTT 60.007 57.895 14.70 0.00 32.61 3.32
335 338 2.783288 GGGAGGTAGTTCGGGAGCG 61.783 68.421 0.00 0.00 0.00 5.03
351 354 1.945394 GAGCGGATGCAGATTGTGATT 59.055 47.619 0.00 0.00 46.23 2.57
407 410 0.451783 GGTTCGTGGTTGATGGATGC 59.548 55.000 0.00 0.00 0.00 3.91
416 419 2.158623 GGTTGATGGATGCCAGGTATGA 60.159 50.000 0.00 0.00 36.75 2.15
434 437 1.197910 GATTTCCTACTTCGGCGTCG 58.802 55.000 1.15 1.15 37.82 5.12
715 722 5.120399 AGTTTTGTCATGTCGGTCTTTACA 58.880 37.500 0.00 0.00 0.00 2.41
858 875 3.846430 CCTAGCCCGACCGAACCC 61.846 72.222 0.00 0.00 0.00 4.11
859 876 3.846430 CTAGCCCGACCGAACCCC 61.846 72.222 0.00 0.00 0.00 4.95
860 877 4.700448 TAGCCCGACCGAACCCCA 62.700 66.667 0.00 0.00 0.00 4.96
902 919 2.423446 GCGGCATAGAGGGACAGG 59.577 66.667 0.00 0.00 0.00 4.00
964 983 0.241481 GAACAGACGAGTCGCCTTCT 59.759 55.000 13.59 5.31 34.09 2.85
977 996 1.681486 GCCTTCTTCCTCCTCCTCGG 61.681 65.000 0.00 0.00 0.00 4.63
982 1001 3.984186 TTCCTCCTCCTCGGCCCAG 62.984 68.421 0.00 0.00 0.00 4.45
1159 1185 4.444022 CCTCCAGATGCACTAATGTAGCTT 60.444 45.833 0.00 0.00 34.69 3.74
1227 1253 2.513897 GGGTTGGGGCTCGATTCG 60.514 66.667 0.00 0.00 0.00 3.34
1259 1285 2.459060 TGCTTAATTCGGTTCGGTGA 57.541 45.000 0.00 0.00 0.00 4.02
1260 1286 2.980568 TGCTTAATTCGGTTCGGTGAT 58.019 42.857 0.00 0.00 0.00 3.06
1283 1311 2.859273 ATTGGTCGAGCTCAAGGGCG 62.859 60.000 16.64 0.00 37.29 6.13
1286 1315 1.668151 GTCGAGCTCAAGGGCGTTT 60.668 57.895 15.40 0.00 37.29 3.60
1304 1333 1.377690 TTTGGGGCTGTGGATTAGGA 58.622 50.000 0.00 0.00 0.00 2.94
1312 1341 2.798680 CTGTGGATTAGGACTTCGTCG 58.201 52.381 0.00 0.00 32.65 5.12
1313 1342 2.163815 CTGTGGATTAGGACTTCGTCGT 59.836 50.000 0.00 0.00 34.91 4.34
1314 1343 2.163010 TGTGGATTAGGACTTCGTCGTC 59.837 50.000 0.00 0.00 32.77 4.20
1336 1365 2.314561 TTTGCTCGTTGATTGCTTCG 57.685 45.000 0.00 0.00 0.00 3.79
1363 1392 1.831389 CGGAGTGCGTGTGGTTGAAG 61.831 60.000 0.00 0.00 0.00 3.02
1412 1441 8.255206 TCCGATAAGCTGATTTCAAGTAGTTTA 58.745 33.333 0.00 0.00 0.00 2.01
1413 1442 8.879759 CCGATAAGCTGATTTCAAGTAGTTTAA 58.120 33.333 0.00 0.00 0.00 1.52
1428 1457 2.618709 AGTTTAACGCTGCTTGCTTCTT 59.381 40.909 0.00 0.00 40.11 2.52
1582 1612 2.355837 GCGAGTGGACTGCGTGAA 60.356 61.111 0.00 0.00 0.00 3.18
1600 1630 6.751425 TGCGTGAATCAAAATTTCATATCACC 59.249 34.615 15.57 11.37 35.68 4.02
1648 1678 5.291971 TCATGAGTGATTGGTGATGTATCG 58.708 41.667 0.00 0.00 0.00 2.92
1707 1738 2.615912 ACTTGCGTCCGTATAGTCCTAC 59.384 50.000 0.00 0.00 0.00 3.18
1716 1747 7.420800 CGTCCGTATAGTCCTACTTTTGTATT 58.579 38.462 0.00 0.00 33.96 1.89
1792 1826 8.499406 AGCAGGGTTTTACTTTGGTATGATATA 58.501 33.333 0.00 0.00 0.00 0.86
1883 1917 8.887717 AGAACATAGAATTTGCATGAGTACTTC 58.112 33.333 0.00 0.00 0.00 3.01
2031 2065 2.505819 TGGCTTGGACTCTCTAAATCCC 59.494 50.000 0.00 0.00 0.00 3.85
2049 2083 3.020984 TCCCGATCTTGTAAATTTGGCC 58.979 45.455 0.00 0.00 0.00 5.36
2093 2127 2.750237 GGCAAGCAAGGGTACGGG 60.750 66.667 0.00 0.00 0.00 5.28
2145 2180 4.035675 GTCTAGCCCTTGAATTGCATGTAC 59.964 45.833 0.00 0.00 0.00 2.90
2192 2227 7.480760 AGGTTTATGCATCAATTTTAGGTGT 57.519 32.000 0.19 0.00 0.00 4.16
2214 2249 5.409520 TGTCATTTGCTACTTCTAAGTGCAG 59.590 40.000 14.87 4.84 40.96 4.41
2281 2316 2.079925 CCAAGTCTTGCCTGCTTAGAC 58.920 52.381 7.09 13.51 38.82 2.59
2314 2349 4.164822 ACATCTCTTGTGATTTTTGCCG 57.835 40.909 0.00 0.00 37.11 5.69
2335 2370 3.363378 CGCAGAACATGACACAGAAGTTC 60.363 47.826 0.00 0.00 38.99 3.01
2336 2371 3.561310 GCAGAACATGACACAGAAGTTCA 59.439 43.478 5.50 0.00 40.63 3.18
2340 2375 7.198390 CAGAACATGACACAGAAGTTCAAAAT 58.802 34.615 5.50 0.00 40.63 1.82
2387 2422 6.077993 ACCATGCAGTCTCCAGTTATAGATA 58.922 40.000 0.00 0.00 0.00 1.98
2437 2472 8.749026 ACGATAACTTTAAGACTAGATCTCCA 57.251 34.615 0.00 0.00 36.27 3.86
2438 2473 8.842280 ACGATAACTTTAAGACTAGATCTCCAG 58.158 37.037 0.00 0.00 36.27 3.86
2535 2599 8.909708 TGATGTTGTCAACTTTACTCTTTTTG 57.090 30.769 16.45 0.00 32.78 2.44
2640 2704 3.322541 TGACCAAATTCGACCTACACTGA 59.677 43.478 0.00 0.00 0.00 3.41
2706 2770 3.181483 GGCATGTTCCATCATTTGAGGAC 60.181 47.826 0.00 0.00 0.00 3.85
2860 2924 7.469456 GCTGTTTTGGTATTCTGTTTGTCCTTA 60.469 37.037 0.00 0.00 0.00 2.69
2934 2998 4.786507 TGAAATGTCTTCAACAATGCTCG 58.213 39.130 0.00 0.00 42.37 5.03
2984 3055 2.487762 CCGTTATGCAGTTGTCATTGGT 59.512 45.455 0.00 0.00 0.00 3.67
3039 3110 1.202580 GCACTGTCACCTCTGTTCACT 60.203 52.381 0.00 0.00 0.00 3.41
3041 3112 1.202580 ACTGTCACCTCTGTTCACTGC 60.203 52.381 0.00 0.00 0.00 4.40
3043 3114 1.221414 GTCACCTCTGTTCACTGCAC 58.779 55.000 0.00 0.00 0.00 4.57
3157 3235 8.740123 TTCTGTTACTGGAATTTTACTTCACA 57.260 30.769 0.00 0.00 0.00 3.58
3280 3364 4.202192 TGTCTCTGATGGATGATTTCCTCG 60.202 45.833 0.00 0.00 45.68 4.63
3301 3385 1.776034 GCAGGCCGCTAAAGATTCCG 61.776 60.000 11.61 0.00 37.77 4.30
3385 3469 4.336280 GACCATGGAGTTAAAAGAAGGCT 58.664 43.478 21.47 0.00 0.00 4.58
3413 3497 5.065988 GTCCACACTTTTGCACTTCTTAGAA 59.934 40.000 0.00 0.00 0.00 2.10
3420 3504 5.424121 TTTGCACTTCTTAGAACTCTTGC 57.576 39.130 0.00 0.00 0.00 4.01
3499 3590 1.741145 ACCCGTCACAGTGAACAAAAC 59.259 47.619 4.32 0.00 0.00 2.43
3501 3592 2.477189 CCCGTCACAGTGAACAAAACAC 60.477 50.000 4.32 0.00 38.38 3.32
3503 3594 3.119990 CCGTCACAGTGAACAAAACACTT 60.120 43.478 4.32 0.00 44.69 3.16
3504 3595 3.845775 CGTCACAGTGAACAAAACACTTG 59.154 43.478 4.32 0.00 44.69 3.16
3505 3596 4.377943 CGTCACAGTGAACAAAACACTTGA 60.378 41.667 4.32 0.00 44.69 3.02
3506 3597 4.851558 GTCACAGTGAACAAAACACTTGAC 59.148 41.667 4.32 17.61 44.69 3.18
3508 3599 5.009110 TCACAGTGAACAAAACACTTGACAA 59.991 36.000 0.00 0.00 44.69 3.18
3542 3637 6.198966 GCAAAACTGAATGTAGTTGGTTCTTG 59.801 38.462 0.00 0.00 40.58 3.02
3636 3731 9.261180 TCTATGTATTCTGCACTTTATTACTGC 57.739 33.333 0.00 0.00 0.00 4.40
3720 3830 1.973812 GGGTTGCTTGAGGAGGTGC 60.974 63.158 0.00 0.00 0.00 5.01
3745 3855 2.494870 GGGAACTGAGAAATGCAATGCT 59.505 45.455 6.82 0.00 0.00 3.79
3813 3923 2.805099 GACGATGATGGATTGGAAGCTC 59.195 50.000 0.00 0.00 0.00 4.09
3816 3926 2.048444 TGATGGATTGGAAGCTCTGC 57.952 50.000 0.00 0.00 0.00 4.26
3818 3928 0.924823 ATGGATTGGAAGCTCTGCCT 59.075 50.000 0.00 0.00 0.00 4.75
3836 3956 3.342477 GGGCCCTTCCTCCTGCTT 61.342 66.667 17.04 0.00 34.39 3.91
3856 3976 2.862541 TGATGTGTCTTTTCCTGGGTG 58.137 47.619 0.00 0.00 0.00 4.61
3858 3978 0.550914 TGTGTCTTTTCCTGGGTGCT 59.449 50.000 0.00 0.00 0.00 4.40
3894 4014 1.146930 GCTGGCCCGATGAATCTGA 59.853 57.895 0.00 0.00 0.00 3.27
3902 4022 2.208431 CCGATGAATCTGACAGGCTTC 58.792 52.381 1.81 7.11 0.00 3.86
3975 4104 7.453439 TGCTAGTTGTATGATATGCCCTAGTTA 59.547 37.037 0.00 0.00 0.00 2.24
4051 4182 1.369983 ACCAGACCCCTATTTCTCCCT 59.630 52.381 0.00 0.00 0.00 4.20
4063 4194 4.618920 ATTTCTCCCTGTAAACGTCTGT 57.381 40.909 0.00 0.00 0.00 3.41
4064 4195 3.380479 TTCTCCCTGTAAACGTCTGTG 57.620 47.619 0.00 0.00 0.00 3.66
4071 4202 0.598158 GTAAACGTCTGTGCGGTCCA 60.598 55.000 0.00 0.00 35.98 4.02
4074 4205 4.293648 CGTCTGTGCGGTCCACCA 62.294 66.667 0.00 0.00 44.01 4.17
4080 4211 2.110213 TGCGGTCCACCAGAACAC 59.890 61.111 0.00 0.00 35.14 3.32
4124 4255 5.874810 TCATCCAATCAGACTTCTTAAACCG 59.125 40.000 0.00 0.00 0.00 4.44
4132 4263 2.483106 GACTTCTTAAACCGAGGCCAAC 59.517 50.000 5.01 0.00 0.00 3.77
4133 4264 2.105993 ACTTCTTAAACCGAGGCCAACT 59.894 45.455 5.01 0.00 0.00 3.16
4134 4265 2.943036 TCTTAAACCGAGGCCAACTT 57.057 45.000 5.01 0.00 0.00 2.66
4135 4266 4.202388 ACTTCTTAAACCGAGGCCAACTTA 60.202 41.667 5.01 0.00 0.00 2.24
4136 4267 3.934068 TCTTAAACCGAGGCCAACTTAG 58.066 45.455 5.01 0.00 0.00 2.18
4137 4268 3.325716 TCTTAAACCGAGGCCAACTTAGT 59.674 43.478 5.01 0.00 0.00 2.24
4138 4269 1.892209 AAACCGAGGCCAACTTAGTG 58.108 50.000 5.01 0.00 0.00 2.74
4139 4270 0.036306 AACCGAGGCCAACTTAGTGG 59.964 55.000 5.01 0.00 42.05 4.00
4151 4282 6.076981 CCAACTTAGTGGCAATAATGGATC 57.923 41.667 17.97 0.00 0.00 3.36
4152 4283 5.593909 CCAACTTAGTGGCAATAATGGATCA 59.406 40.000 17.97 0.00 0.00 2.92
4153 4284 6.460123 CCAACTTAGTGGCAATAATGGATCAC 60.460 42.308 17.97 0.00 0.00 3.06
4154 4285 5.133221 ACTTAGTGGCAATAATGGATCACC 58.867 41.667 7.95 0.00 0.00 4.02
4171 4302 8.964476 TGGATCACCAATTAAGAGATTTCTAC 57.036 34.615 0.00 0.00 43.91 2.59
4172 4303 7.993183 TGGATCACCAATTAAGAGATTTCTACC 59.007 37.037 0.00 0.00 43.91 3.18
4173 4304 7.445707 GGATCACCAATTAAGAGATTTCTACCC 59.554 40.741 0.00 0.00 35.97 3.69
4174 4305 7.510675 TCACCAATTAAGAGATTTCTACCCT 57.489 36.000 0.00 0.00 31.96 4.34
4175 4306 7.565680 TCACCAATTAAGAGATTTCTACCCTC 58.434 38.462 0.00 0.00 31.96 4.30
4176 4307 7.403231 TCACCAATTAAGAGATTTCTACCCTCT 59.597 37.037 0.00 0.00 38.79 3.69
4177 4308 8.705594 CACCAATTAAGAGATTTCTACCCTCTA 58.294 37.037 0.00 0.00 36.36 2.43
4178 4309 8.929487 ACCAATTAAGAGATTTCTACCCTCTAG 58.071 37.037 0.00 0.00 36.36 2.43
4179 4310 8.929487 CCAATTAAGAGATTTCTACCCTCTAGT 58.071 37.037 0.00 0.00 36.36 2.57
4184 4315 8.541899 AAGAGATTTCTACCCTCTAGTTTAGG 57.458 38.462 0.00 0.00 36.36 2.69
4185 4316 7.565768 AAGAGATTTCTACCCTCTAGTTTAGGG 59.434 40.741 12.50 12.50 45.46 3.53
4195 4326 6.712179 CCTCTAGTTTAGGGTTTATCGTCT 57.288 41.667 0.00 0.00 0.00 4.18
4196 4327 6.737118 CCTCTAGTTTAGGGTTTATCGTCTC 58.263 44.000 0.00 0.00 0.00 3.36
4197 4328 6.546772 CCTCTAGTTTAGGGTTTATCGTCTCT 59.453 42.308 0.00 0.00 0.00 3.10
4198 4329 7.330900 TCTAGTTTAGGGTTTATCGTCTCTG 57.669 40.000 0.00 0.00 0.00 3.35
4199 4330 5.340439 AGTTTAGGGTTTATCGTCTCTGG 57.660 43.478 0.00 0.00 0.00 3.86
4200 4331 3.814005 TTAGGGTTTATCGTCTCTGGC 57.186 47.619 0.00 0.00 0.00 4.85
4201 4332 0.460311 AGGGTTTATCGTCTCTGGCG 59.540 55.000 0.00 0.00 0.00 5.69
4202 4333 0.529992 GGGTTTATCGTCTCTGGCGG 60.530 60.000 0.00 0.00 0.00 6.13
4203 4334 1.152383 GGTTTATCGTCTCTGGCGGC 61.152 60.000 0.00 0.00 0.00 6.53
4204 4335 1.226859 TTTATCGTCTCTGGCGGCG 60.227 57.895 0.51 0.51 0.00 6.46
4205 4336 1.659622 TTTATCGTCTCTGGCGGCGA 61.660 55.000 12.98 3.82 37.76 5.54
4206 4337 2.332362 TTATCGTCTCTGGCGGCGAC 62.332 60.000 12.98 9.31 36.16 5.19
4223 4354 4.914420 CTGCGCCGCCGTCTAGAG 62.914 72.222 6.63 0.00 36.67 2.43
4226 4357 4.194720 CGCCGCCGTCTAGAGCTT 62.195 66.667 0.00 0.00 0.00 3.74
4227 4358 2.184579 GCCGCCGTCTAGAGCTTT 59.815 61.111 0.00 0.00 0.00 3.51
4228 4359 1.448013 GCCGCCGTCTAGAGCTTTT 60.448 57.895 0.00 0.00 0.00 2.27
4229 4360 1.422179 GCCGCCGTCTAGAGCTTTTC 61.422 60.000 0.00 0.00 0.00 2.29
4230 4361 0.806492 CCGCCGTCTAGAGCTTTTCC 60.806 60.000 0.00 0.00 0.00 3.13
4231 4362 0.173708 CGCCGTCTAGAGCTTTTCCT 59.826 55.000 0.00 0.00 0.00 3.36
4232 4363 1.799548 CGCCGTCTAGAGCTTTTCCTC 60.800 57.143 0.00 0.00 0.00 3.71
4233 4364 1.471851 GCCGTCTAGAGCTTTTCCTCC 60.472 57.143 0.00 0.00 32.17 4.30
4234 4365 1.202313 CCGTCTAGAGCTTTTCCTCCG 60.202 57.143 0.00 0.00 32.17 4.63
4235 4366 1.202313 CGTCTAGAGCTTTTCCTCCGG 60.202 57.143 0.00 0.00 32.17 5.14
4236 4367 0.824759 TCTAGAGCTTTTCCTCCGGC 59.175 55.000 0.00 0.00 32.17 6.13
4237 4368 0.179070 CTAGAGCTTTTCCTCCGGCC 60.179 60.000 0.00 0.00 32.17 6.13
4238 4369 1.956629 TAGAGCTTTTCCTCCGGCCG 61.957 60.000 21.04 21.04 32.17 6.13
4239 4370 3.310860 GAGCTTTTCCTCCGGCCGA 62.311 63.158 30.73 12.25 0.00 5.54
4240 4371 3.125573 GCTTTTCCTCCGGCCGAC 61.126 66.667 30.73 0.00 0.00 4.79
4241 4372 2.436115 CTTTTCCTCCGGCCGACC 60.436 66.667 30.73 0.00 0.00 4.79
4261 4392 4.735132 CGGACGCCTTTCCTCGCA 62.735 66.667 0.00 0.00 32.88 5.10
4262 4393 3.119096 GGACGCCTTTCCTCGCAC 61.119 66.667 0.00 0.00 32.24 5.34
4263 4394 3.119096 GACGCCTTTCCTCGCACC 61.119 66.667 0.00 0.00 0.00 5.01
4283 4414 3.481903 CGCGCGAGTGTGAAGCAT 61.482 61.111 28.94 0.00 36.71 3.79
4284 4415 2.097160 GCGCGAGTGTGAAGCATG 59.903 61.111 12.10 0.00 0.00 4.06
4285 4416 2.780643 CGCGAGTGTGAAGCATGG 59.219 61.111 0.00 0.00 0.00 3.66
4286 4417 2.482374 GCGAGTGTGAAGCATGGC 59.518 61.111 0.00 0.00 0.00 4.40
4287 4418 2.780643 CGAGTGTGAAGCATGGCG 59.219 61.111 0.00 0.00 0.00 5.69
4288 4419 1.737735 CGAGTGTGAAGCATGGCGA 60.738 57.895 0.00 0.00 0.00 5.54
4289 4420 1.790387 GAGTGTGAAGCATGGCGAC 59.210 57.895 0.00 0.00 0.00 5.19
4300 4431 2.685017 TGGCGACAGGAGCAGGAT 60.685 61.111 0.00 0.00 36.08 3.24
4301 4432 2.107953 GGCGACAGGAGCAGGATC 59.892 66.667 0.00 0.00 36.08 3.36
4302 4433 2.279120 GCGACAGGAGCAGGATCG 60.279 66.667 0.00 0.00 35.91 3.69
4303 4434 3.069980 GCGACAGGAGCAGGATCGT 62.070 63.158 0.00 0.00 35.27 3.73
4304 4435 1.064946 CGACAGGAGCAGGATCGTC 59.935 63.158 0.00 0.00 0.00 4.20
4305 4436 1.439644 GACAGGAGCAGGATCGTCC 59.560 63.158 0.00 0.00 36.58 4.79
4307 4438 1.040339 ACAGGAGCAGGATCGTCCTC 61.040 60.000 0.00 0.00 45.66 3.71
4308 4439 1.826054 AGGAGCAGGATCGTCCTCG 60.826 63.158 0.42 2.69 45.66 4.63
4309 4440 2.725008 GAGCAGGATCGTCCTCGG 59.275 66.667 3.87 0.00 45.66 4.63
4310 4441 1.824329 GAGCAGGATCGTCCTCGGA 60.824 63.158 3.87 0.00 45.66 4.55
4311 4442 1.791103 GAGCAGGATCGTCCTCGGAG 61.791 65.000 0.00 0.00 45.66 4.63
4312 4443 2.851071 GCAGGATCGTCCTCGGAGG 61.851 68.421 18.25 18.25 45.66 4.30
4313 4444 2.196229 AGGATCGTCCTCGGAGGG 59.804 66.667 23.39 8.98 45.66 4.30
4314 4445 3.607661 GGATCGTCCTCGGAGGGC 61.608 72.222 23.39 21.15 36.39 5.19
4315 4446 2.519780 GATCGTCCTCGGAGGGCT 60.520 66.667 25.04 8.62 38.01 5.19
4316 4447 2.835431 ATCGTCCTCGGAGGGCTG 60.835 66.667 25.04 18.13 38.01 4.85
4319 4450 3.462678 GTCCTCGGAGGGCTGGTC 61.463 72.222 21.25 3.51 36.93 4.02
4320 4451 4.779733 TCCTCGGAGGGCTGGTCC 62.780 72.222 23.39 0.00 35.59 4.46
4326 4457 3.787001 GAGGGCTGGTCCGGGAAG 61.787 72.222 0.00 0.00 34.94 3.46
4327 4458 4.332543 AGGGCTGGTCCGGGAAGA 62.333 66.667 0.00 0.00 34.94 2.87
4328 4459 3.327404 GGGCTGGTCCGGGAAGAA 61.327 66.667 0.00 0.00 34.94 2.52
4329 4460 2.269241 GGCTGGTCCGGGAAGAAG 59.731 66.667 0.00 0.00 0.00 2.85
4330 4461 2.593956 GGCTGGTCCGGGAAGAAGT 61.594 63.158 0.00 0.00 0.00 3.01
4331 4462 1.375326 GCTGGTCCGGGAAGAAGTT 59.625 57.895 0.00 0.00 0.00 2.66
4332 4463 0.955919 GCTGGTCCGGGAAGAAGTTG 60.956 60.000 0.00 0.00 0.00 3.16
4333 4464 0.321653 CTGGTCCGGGAAGAAGTTGG 60.322 60.000 0.00 0.00 0.00 3.77
4334 4465 0.765135 TGGTCCGGGAAGAAGTTGGA 60.765 55.000 0.00 0.00 0.00 3.53
4335 4466 0.036294 GGTCCGGGAAGAAGTTGGAG 60.036 60.000 0.00 0.00 0.00 3.86
4336 4467 0.036294 GTCCGGGAAGAAGTTGGAGG 60.036 60.000 0.00 0.00 0.00 4.30
4337 4468 0.178915 TCCGGGAAGAAGTTGGAGGA 60.179 55.000 0.00 0.00 0.00 3.71
4338 4469 0.250513 CCGGGAAGAAGTTGGAGGAG 59.749 60.000 0.00 0.00 0.00 3.69
4339 4470 1.267121 CGGGAAGAAGTTGGAGGAGA 58.733 55.000 0.00 0.00 0.00 3.71
4340 4471 1.834263 CGGGAAGAAGTTGGAGGAGAT 59.166 52.381 0.00 0.00 0.00 2.75
4341 4472 2.419297 CGGGAAGAAGTTGGAGGAGATG 60.419 54.545 0.00 0.00 0.00 2.90
4342 4473 2.637947 GGAAGAAGTTGGAGGAGATGC 58.362 52.381 0.00 0.00 0.00 3.91
4343 4474 2.238395 GGAAGAAGTTGGAGGAGATGCT 59.762 50.000 0.00 0.00 0.00 3.79
4344 4475 3.269178 GAAGAAGTTGGAGGAGATGCTG 58.731 50.000 0.00 0.00 0.00 4.41
4345 4476 1.065564 AGAAGTTGGAGGAGATGCTGC 60.066 52.381 0.00 0.00 0.00 5.25
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
124 127 1.436195 TTATTCAGCATCGCCGCCAC 61.436 55.000 0.00 0.00 0.00 5.01
125 128 0.746204 TTTATTCAGCATCGCCGCCA 60.746 50.000 0.00 0.00 0.00 5.69
126 129 0.040958 CTTTATTCAGCATCGCCGCC 60.041 55.000 0.00 0.00 0.00 6.13
127 130 0.937304 TCTTTATTCAGCATCGCCGC 59.063 50.000 0.00 0.00 0.00 6.53
183 186 3.877559 TCTCAAATTCATCACCGAGCAT 58.122 40.909 0.00 0.00 0.00 3.79
202 205 1.541233 CCGCTTGAACTGACTGGTTCT 60.541 52.381 8.47 0.00 44.02 3.01
212 215 2.540515 CACGATATCACCGCTTGAACT 58.459 47.619 3.12 0.00 37.92 3.01
223 226 2.027024 GTCGCCGCCACGATATCA 59.973 61.111 3.12 0.00 45.06 2.15
243 246 2.708861 ACACAAGTCCACCACAAGGATA 59.291 45.455 0.00 0.00 37.52 2.59
335 338 3.513680 TGCAAATCACAATCTGCATCC 57.486 42.857 0.00 0.00 39.77 3.51
351 354 3.317993 TCTTCCAGATATCGTCGATGCAA 59.682 43.478 17.98 0.00 0.00 4.08
407 410 4.632153 CCGAAGTAGGAAATCATACCTGG 58.368 47.826 1.91 0.00 37.68 4.45
416 419 0.529378 ACGACGCCGAAGTAGGAAAT 59.471 50.000 0.00 0.00 39.50 2.17
434 437 0.963962 TGAGACCCCACAACGACTAC 59.036 55.000 0.00 0.00 0.00 2.73
610 613 1.202405 CCACAACAGCCACCAAAGAAC 60.202 52.381 0.00 0.00 0.00 3.01
645 652 1.952635 GACACCAACGTCCGTCACC 60.953 63.158 0.00 0.00 0.00 4.02
691 698 6.282167 TGTAAAGACCGACATGACAAAACTA 58.718 36.000 0.00 0.00 0.00 2.24
742 749 4.085055 GCATGGTAATACGTGTCTCATTCG 60.085 45.833 0.00 0.00 0.00 3.34
808 825 1.215647 GGACCGTGCAATCGAGTCT 59.784 57.895 13.75 0.00 34.27 3.24
829 846 3.595819 GCTAGGTTTGCAGCCTGG 58.404 61.111 18.65 16.93 37.54 4.45
964 983 3.984186 CTGGGCCGAGGAGGAGGAA 62.984 68.421 6.92 0.00 45.00 3.36
1159 1185 3.986006 GTGGACCGTCAGACCGCA 61.986 66.667 0.00 0.00 34.76 5.69
1227 1253 6.024049 CCGAATTAAGCAAAATCTCACACTC 58.976 40.000 0.00 0.00 0.00 3.51
1230 1256 5.957842 ACCGAATTAAGCAAAATCTCACA 57.042 34.783 0.00 0.00 0.00 3.58
1234 1260 4.457949 ACCGAACCGAATTAAGCAAAATCT 59.542 37.500 0.00 0.00 0.00 2.40
1236 1262 4.216687 TCACCGAACCGAATTAAGCAAAAT 59.783 37.500 0.00 0.00 0.00 1.82
1259 1285 2.636830 CTTGAGCTCGACCAATTCCAT 58.363 47.619 9.64 0.00 0.00 3.41
1260 1286 1.339055 CCTTGAGCTCGACCAATTCCA 60.339 52.381 9.64 0.00 0.00 3.53
1283 1311 1.824852 CCTAATCCACAGCCCCAAAAC 59.175 52.381 0.00 0.00 0.00 2.43
1286 1315 0.623723 GTCCTAATCCACAGCCCCAA 59.376 55.000 0.00 0.00 0.00 4.12
1312 1341 3.568538 AGCAATCAACGAGCAAAATGAC 58.431 40.909 0.00 0.00 0.00 3.06
1313 1342 3.921119 AGCAATCAACGAGCAAAATGA 57.079 38.095 0.00 0.00 0.00 2.57
1314 1343 3.058520 CGAAGCAATCAACGAGCAAAATG 59.941 43.478 0.00 0.00 0.00 2.32
1336 1365 1.082756 CACGCACTCCGCTTCAAAC 60.083 57.895 0.00 0.00 41.76 2.93
1356 1385 2.639065 TCACACAACCTGACTTCAACC 58.361 47.619 0.00 0.00 0.00 3.77
1363 1392 4.130118 AGACTTCAATCACACAACCTGAC 58.870 43.478 0.00 0.00 0.00 3.51
1525 1555 2.947938 AAGCAGCAGACGCACCACTT 62.948 55.000 0.00 0.00 42.27 3.16
1526 1556 3.466791 AAGCAGCAGACGCACCACT 62.467 57.895 0.00 0.00 42.27 4.00
1582 1612 6.517194 GCATCCCGGTGATATGAAATTTTGAT 60.517 38.462 0.00 0.00 30.56 2.57
1600 1630 3.510719 CCACAAAATGTAAAGCATCCCG 58.489 45.455 0.00 0.00 36.67 5.14
1648 1678 5.755409 AACCCCAACTTAATCCAAAATCC 57.245 39.130 0.00 0.00 0.00 3.01
1792 1826 6.237901 TGGTTATTTGTGCATGAGACTAACT 58.762 36.000 0.00 0.00 0.00 2.24
1883 1917 5.661458 ACAGTCATATCCGTAACCAAAGAG 58.339 41.667 0.00 0.00 0.00 2.85
2031 2065 3.126171 TCACGGCCAAATTTACAAGATCG 59.874 43.478 2.24 0.00 0.00 3.69
2049 2083 3.868077 TGGTTTCCTTTGCATTTTTCACG 59.132 39.130 0.00 0.00 0.00 4.35
2093 2127 9.965902 ATGAATATAGGATAGGTGGAATGAAAC 57.034 33.333 0.00 0.00 0.00 2.78
2136 2171 7.734942 TGATATAACTCATCCAGTACATGCAA 58.265 34.615 0.00 0.00 32.30 4.08
2169 2204 7.319646 TGACACCTAAAATTGATGCATAAACC 58.680 34.615 0.00 0.00 0.00 3.27
2192 2227 5.551233 ACTGCACTTAGAAGTAGCAAATGA 58.449 37.500 15.48 0.55 40.14 2.57
2281 2316 6.159293 TCACAAGAGATGTAGTAACAAGCAG 58.841 40.000 0.00 0.00 41.46 4.24
2314 2349 3.561310 TGAACTTCTGTGTCATGTTCTGC 59.439 43.478 0.00 0.00 38.17 4.26
2335 2370 7.437793 AAAACAAATGGCATCCACTATTTTG 57.562 32.000 0.00 2.26 36.45 2.44
2336 2371 7.823799 CCTAAAACAAATGGCATCCACTATTTT 59.176 33.333 0.00 5.45 35.80 1.82
2340 2375 5.417580 GTCCTAAAACAAATGGCATCCACTA 59.582 40.000 0.00 0.00 35.80 2.74
2387 2422 2.300152 TGATTCAGGTGTTTCTCGCTCT 59.700 45.455 0.00 0.00 0.00 4.09
2435 2470 6.825721 AGAAATCAGGCAAAGTCTATAACTGG 59.174 38.462 0.00 0.00 38.58 4.00
2436 2471 7.201679 CCAGAAATCAGGCAAAGTCTATAACTG 60.202 40.741 0.00 0.00 38.58 3.16
2437 2472 6.825721 CCAGAAATCAGGCAAAGTCTATAACT 59.174 38.462 0.00 0.00 41.10 2.24
2438 2473 6.823689 TCCAGAAATCAGGCAAAGTCTATAAC 59.176 38.462 0.00 0.00 0.00 1.89
2441 2476 5.045286 AGTCCAGAAATCAGGCAAAGTCTAT 60.045 40.000 0.00 0.00 0.00 1.98
2442 2477 4.287067 AGTCCAGAAATCAGGCAAAGTCTA 59.713 41.667 0.00 0.00 0.00 2.59
2443 2478 3.073650 AGTCCAGAAATCAGGCAAAGTCT 59.926 43.478 0.00 0.00 0.00 3.24
2640 2704 1.486726 GCCTCACCTACATTAGCAGGT 59.513 52.381 0.00 0.00 46.29 4.00
2706 2770 3.988976 TGATTGGAAACCTCAGAGGAG 57.011 47.619 24.45 0.91 37.67 3.69
2829 2893 4.980573 ACAGAATACCAAAACAGCCACTA 58.019 39.130 0.00 0.00 0.00 2.74
2934 2998 6.578944 AGTTTCCAAAACCCACTTTATGAAC 58.421 36.000 0.00 0.00 0.00 3.18
3039 3110 5.468540 ACTATAAATATCAGGCTCGTGCA 57.531 39.130 12.07 0.00 41.91 4.57
3041 3112 5.864474 GTGGACTATAAATATCAGGCTCGTG 59.136 44.000 0.00 0.00 0.00 4.35
3043 3114 6.025749 TGTGGACTATAAATATCAGGCTCG 57.974 41.667 0.00 0.00 0.00 5.03
3089 3160 3.243168 CGTTTCATATGGCACCATCCAAG 60.243 47.826 5.20 0.00 39.96 3.61
3157 3235 2.320681 TAGGTGGTAGTTGCCAGACT 57.679 50.000 0.00 0.00 39.53 3.24
3208 3290 7.589958 ACACAGATAAGATACTGTTAGAGGG 57.410 40.000 0.00 0.00 43.52 4.30
3239 3323 4.036518 AGACATAGGAAGGCTGATGACTT 58.963 43.478 0.00 0.00 45.81 3.01
3301 3385 5.877012 TCTTCTTTGATGTATTGTGGAGCTC 59.123 40.000 4.71 4.71 0.00 4.09
3385 3469 1.750780 TGCAAAAGTGTGGACGGCA 60.751 52.632 0.00 0.00 0.00 5.69
3413 3497 4.202398 TGAGGTTCAGATGAAAGCAAGAGT 60.202 41.667 0.00 0.00 35.58 3.24
3420 3504 6.206243 AGTGTTGATTGAGGTTCAGATGAAAG 59.794 38.462 0.00 0.00 35.58 2.62
3499 3590 0.947244 GCACTCTGGGTTGTCAAGTG 59.053 55.000 0.00 0.00 40.19 3.16
3501 3592 1.679139 TTGCACTCTGGGTTGTCAAG 58.321 50.000 0.00 0.00 0.00 3.02
3502 3593 2.136298 TTTGCACTCTGGGTTGTCAA 57.864 45.000 0.00 0.00 0.00 3.18
3503 3594 1.748493 GTTTTGCACTCTGGGTTGTCA 59.252 47.619 0.00 0.00 0.00 3.58
3504 3595 2.024414 AGTTTTGCACTCTGGGTTGTC 58.976 47.619 0.00 0.00 0.00 3.18
3505 3596 1.750778 CAGTTTTGCACTCTGGGTTGT 59.249 47.619 0.00 0.00 30.92 3.32
3506 3597 2.023673 TCAGTTTTGCACTCTGGGTTG 58.976 47.619 10.65 0.00 30.92 3.77
3508 3599 2.435372 TTCAGTTTTGCACTCTGGGT 57.565 45.000 10.65 0.00 30.92 4.51
3542 3637 4.226761 CAACTACATTCGCCCTCAAAAAC 58.773 43.478 0.00 0.00 0.00 2.43
3636 3731 4.825546 AACTCAGAACAGCATTCAACAG 57.174 40.909 3.83 0.00 0.00 3.16
3701 3810 1.303643 CACCTCCTCAAGCAACCCC 60.304 63.158 0.00 0.00 0.00 4.95
3720 3830 2.507484 TGCATTTCTCAGTTCCCACAG 58.493 47.619 0.00 0.00 0.00 3.66
3745 3855 1.757682 AACCGAAAAAGGACACAGCA 58.242 45.000 0.00 0.00 34.73 4.41
3813 3923 4.120755 GAGGAAGGGCCCAGGCAG 62.121 72.222 27.56 0.00 44.11 4.85
3816 3926 3.415087 CAGGAGGAAGGGCCCAGG 61.415 72.222 27.56 0.00 37.37 4.45
3818 3928 4.682714 AGCAGGAGGAAGGGCCCA 62.683 66.667 27.56 0.00 37.37 5.36
3836 3956 2.862541 CACCCAGGAAAAGACACATCA 58.137 47.619 0.00 0.00 0.00 3.07
3894 4014 5.013599 ACTCCTCTGAAAATAAGAAGCCTGT 59.986 40.000 0.00 0.00 0.00 4.00
3902 4022 7.605691 AGACATGTTGACTCCTCTGAAAATAAG 59.394 37.037 0.00 0.00 0.00 1.73
3975 4104 1.487558 GGAGCATTTTGGCCCATCATT 59.512 47.619 0.00 0.00 0.00 2.57
4031 4162 1.369983 AGGGAGAAATAGGGGTCTGGT 59.630 52.381 0.00 0.00 0.00 4.00
4034 4165 2.972153 ACAGGGAGAAATAGGGGTCT 57.028 50.000 0.00 0.00 0.00 3.85
4051 4182 0.598158 GGACCGCACAGACGTTTACA 60.598 55.000 0.00 0.00 0.00 2.41
4063 4194 2.110213 GTGTTCTGGTGGACCGCA 59.890 61.111 7.48 0.00 39.43 5.69
4064 4195 3.041940 CGTGTTCTGGTGGACCGC 61.042 66.667 0.00 0.00 39.43 5.68
4097 4228 6.627087 TTAAGAAGTCTGATTGGATGACCT 57.373 37.500 0.00 0.00 37.04 3.85
4099 4230 6.183360 CGGTTTAAGAAGTCTGATTGGATGAC 60.183 42.308 0.00 0.00 0.00 3.06
4100 4231 5.874810 CGGTTTAAGAAGTCTGATTGGATGA 59.125 40.000 0.00 0.00 0.00 2.92
4101 4232 5.874810 TCGGTTTAAGAAGTCTGATTGGATG 59.125 40.000 0.00 0.00 0.00 3.51
4102 4233 6.049955 TCGGTTTAAGAAGTCTGATTGGAT 57.950 37.500 0.00 0.00 0.00 3.41
4103 4234 5.477607 TCGGTTTAAGAAGTCTGATTGGA 57.522 39.130 0.00 0.00 0.00 3.53
4105 4236 4.093556 GCCTCGGTTTAAGAAGTCTGATTG 59.906 45.833 0.00 0.00 0.00 2.67
4107 4238 3.369576 GGCCTCGGTTTAAGAAGTCTGAT 60.370 47.826 0.00 0.00 0.00 2.90
4108 4239 2.028385 GGCCTCGGTTTAAGAAGTCTGA 60.028 50.000 0.00 0.00 0.00 3.27
4109 4240 2.289444 TGGCCTCGGTTTAAGAAGTCTG 60.289 50.000 3.32 0.00 0.00 3.51
4110 4241 1.975680 TGGCCTCGGTTTAAGAAGTCT 59.024 47.619 3.32 0.00 0.00 3.24
4111 4242 2.467566 TGGCCTCGGTTTAAGAAGTC 57.532 50.000 3.32 0.00 0.00 3.01
4115 4246 2.943036 AAGTTGGCCTCGGTTTAAGA 57.057 45.000 3.32 0.00 0.00 2.10
4132 4263 5.132502 TGGTGATCCATTATTGCCACTAAG 58.867 41.667 0.00 0.00 39.03 2.18
4133 4264 5.122707 TGGTGATCCATTATTGCCACTAA 57.877 39.130 0.00 0.00 39.03 2.24
4134 4265 4.787135 TGGTGATCCATTATTGCCACTA 57.213 40.909 0.00 0.00 39.03 2.74
4135 4266 3.668141 TGGTGATCCATTATTGCCACT 57.332 42.857 0.00 0.00 39.03 4.00
4136 4267 4.942761 ATTGGTGATCCATTATTGCCAC 57.057 40.909 0.00 0.00 43.91 5.01
4137 4268 6.838090 TCTTAATTGGTGATCCATTATTGCCA 59.162 34.615 0.00 0.00 43.91 4.92
4138 4269 7.231317 TCTCTTAATTGGTGATCCATTATTGCC 59.769 37.037 0.00 0.00 43.91 4.52
4139 4270 8.169977 TCTCTTAATTGGTGATCCATTATTGC 57.830 34.615 0.00 0.00 43.91 3.56
4145 4276 9.566432 GTAGAAATCTCTTAATTGGTGATCCAT 57.434 33.333 0.00 0.00 37.03 3.41
4146 4277 7.993183 GGTAGAAATCTCTTAATTGGTGATCCA 59.007 37.037 0.00 0.00 36.11 3.41
4147 4278 7.445707 GGGTAGAAATCTCTTAATTGGTGATCC 59.554 40.741 0.00 0.00 32.70 3.36
4148 4279 8.214364 AGGGTAGAAATCTCTTAATTGGTGATC 58.786 37.037 0.00 0.00 32.70 2.92
4149 4280 8.107196 AGGGTAGAAATCTCTTAATTGGTGAT 57.893 34.615 0.00 0.00 32.70 3.06
4150 4281 7.403231 AGAGGGTAGAAATCTCTTAATTGGTGA 59.597 37.037 0.00 0.00 34.55 4.02
4151 4282 7.569240 AGAGGGTAGAAATCTCTTAATTGGTG 58.431 38.462 0.00 0.00 34.55 4.17
4152 4283 7.757242 AGAGGGTAGAAATCTCTTAATTGGT 57.243 36.000 0.00 0.00 34.55 3.67
4153 4284 8.929487 ACTAGAGGGTAGAAATCTCTTAATTGG 58.071 37.037 0.00 0.00 38.62 3.16
4158 4289 9.643735 CCTAAACTAGAGGGTAGAAATCTCTTA 57.356 37.037 0.00 0.00 38.62 2.10
4159 4290 8.541899 CCTAAACTAGAGGGTAGAAATCTCTT 57.458 38.462 0.00 0.00 38.62 2.85
4172 4303 6.546772 AGAGACGATAAACCCTAAACTAGAGG 59.453 42.308 0.00 0.00 0.00 3.69
4173 4304 7.419204 CAGAGACGATAAACCCTAAACTAGAG 58.581 42.308 0.00 0.00 0.00 2.43
4174 4305 6.320672 CCAGAGACGATAAACCCTAAACTAGA 59.679 42.308 0.00 0.00 0.00 2.43
4175 4306 6.505272 CCAGAGACGATAAACCCTAAACTAG 58.495 44.000 0.00 0.00 0.00 2.57
4176 4307 5.163478 GCCAGAGACGATAAACCCTAAACTA 60.163 44.000 0.00 0.00 0.00 2.24
4177 4308 4.382793 GCCAGAGACGATAAACCCTAAACT 60.383 45.833 0.00 0.00 0.00 2.66
4178 4309 3.869832 GCCAGAGACGATAAACCCTAAAC 59.130 47.826 0.00 0.00 0.00 2.01
4179 4310 3.429822 CGCCAGAGACGATAAACCCTAAA 60.430 47.826 0.00 0.00 0.00 1.85
4180 4311 2.100252 CGCCAGAGACGATAAACCCTAA 59.900 50.000 0.00 0.00 0.00 2.69
4181 4312 1.679680 CGCCAGAGACGATAAACCCTA 59.320 52.381 0.00 0.00 0.00 3.53
4182 4313 0.460311 CGCCAGAGACGATAAACCCT 59.540 55.000 0.00 0.00 0.00 4.34
4183 4314 0.529992 CCGCCAGAGACGATAAACCC 60.530 60.000 0.00 0.00 0.00 4.11
4184 4315 1.152383 GCCGCCAGAGACGATAAACC 61.152 60.000 0.00 0.00 0.00 3.27
4185 4316 1.480219 CGCCGCCAGAGACGATAAAC 61.480 60.000 0.00 0.00 0.00 2.01
4186 4317 1.226859 CGCCGCCAGAGACGATAAA 60.227 57.895 0.00 0.00 0.00 1.40
4187 4318 2.116533 TCGCCGCCAGAGACGATAA 61.117 57.895 0.00 0.00 0.00 1.75
4188 4319 2.515290 TCGCCGCCAGAGACGATA 60.515 61.111 0.00 0.00 0.00 2.92
4189 4320 4.194720 GTCGCCGCCAGAGACGAT 62.195 66.667 0.00 0.00 36.85 3.73
4206 4337 4.914420 CTCTAGACGGCGGCGCAG 62.914 72.222 34.36 31.85 0.00 5.18
4209 4340 3.701604 AAAGCTCTAGACGGCGGCG 62.702 63.158 31.06 31.06 0.00 6.46
4210 4341 1.422179 GAAAAGCTCTAGACGGCGGC 61.422 60.000 13.24 8.92 0.00 6.53
4211 4342 0.806492 GGAAAAGCTCTAGACGGCGG 60.806 60.000 13.24 0.00 0.00 6.13
4212 4343 0.173708 AGGAAAAGCTCTAGACGGCG 59.826 55.000 4.80 4.80 0.00 6.46
4213 4344 1.471851 GGAGGAAAAGCTCTAGACGGC 60.472 57.143 0.00 0.00 0.00 5.68
4214 4345 1.202313 CGGAGGAAAAGCTCTAGACGG 60.202 57.143 0.00 0.00 0.00 4.79
4215 4346 2.196295 CGGAGGAAAAGCTCTAGACG 57.804 55.000 0.00 0.00 0.00 4.18
4244 4375 4.735132 TGCGAGGAAAGGCGTCCG 62.735 66.667 4.84 0.00 43.03 4.79
4245 4376 3.119096 GTGCGAGGAAAGGCGTCC 61.119 66.667 2.32 2.32 38.03 4.79
4246 4377 3.119096 GGTGCGAGGAAAGGCGTC 61.119 66.667 0.00 0.00 0.00 5.19
4266 4397 3.481903 ATGCTTCACACTCGCGCG 61.482 61.111 26.76 26.76 0.00 6.86
4267 4398 2.097160 CATGCTTCACACTCGCGC 59.903 61.111 0.00 0.00 0.00 6.86
4268 4399 2.780643 CCATGCTTCACACTCGCG 59.219 61.111 0.00 0.00 0.00 5.87
4269 4400 2.482374 GCCATGCTTCACACTCGC 59.518 61.111 0.00 0.00 0.00 5.03
4270 4401 1.737735 TCGCCATGCTTCACACTCG 60.738 57.895 0.00 0.00 0.00 4.18
4271 4402 0.950555 TGTCGCCATGCTTCACACTC 60.951 55.000 0.00 0.00 0.00 3.51
4272 4403 0.952497 CTGTCGCCATGCTTCACACT 60.952 55.000 0.00 0.00 0.00 3.55
4273 4404 1.499056 CTGTCGCCATGCTTCACAC 59.501 57.895 0.00 0.00 0.00 3.82
4274 4405 1.672030 CCTGTCGCCATGCTTCACA 60.672 57.895 0.00 0.00 0.00 3.58
4275 4406 1.364626 CTCCTGTCGCCATGCTTCAC 61.365 60.000 0.00 0.00 0.00 3.18
4276 4407 1.078918 CTCCTGTCGCCATGCTTCA 60.079 57.895 0.00 0.00 0.00 3.02
4277 4408 2.467826 GCTCCTGTCGCCATGCTTC 61.468 63.158 0.00 0.00 0.00 3.86
4278 4409 2.437359 GCTCCTGTCGCCATGCTT 60.437 61.111 0.00 0.00 0.00 3.91
4279 4410 3.677284 CTGCTCCTGTCGCCATGCT 62.677 63.158 0.00 0.00 0.00 3.79
4280 4411 3.200593 CTGCTCCTGTCGCCATGC 61.201 66.667 0.00 0.00 0.00 4.06
4281 4412 2.321263 ATCCTGCTCCTGTCGCCATG 62.321 60.000 0.00 0.00 0.00 3.66
4282 4413 2.037620 GATCCTGCTCCTGTCGCCAT 62.038 60.000 0.00 0.00 0.00 4.40
4283 4414 2.685017 ATCCTGCTCCTGTCGCCA 60.685 61.111 0.00 0.00 0.00 5.69
4284 4415 2.107953 GATCCTGCTCCTGTCGCC 59.892 66.667 0.00 0.00 0.00 5.54
4285 4416 2.279120 CGATCCTGCTCCTGTCGC 60.279 66.667 0.00 0.00 0.00 5.19
4286 4417 1.064946 GACGATCCTGCTCCTGTCG 59.935 63.158 0.00 0.00 38.21 4.35
4287 4418 1.439644 GGACGATCCTGCTCCTGTC 59.560 63.158 0.00 0.00 32.53 3.51
4288 4419 3.622514 GGACGATCCTGCTCCTGT 58.377 61.111 0.00 0.00 32.53 4.00
4297 4428 3.607661 GCCCTCCGAGGACGATCC 61.608 72.222 16.69 0.00 37.67 3.36
4298 4429 2.519780 AGCCCTCCGAGGACGATC 60.520 66.667 16.69 0.00 37.67 3.69
4299 4430 2.835431 CAGCCCTCCGAGGACGAT 60.835 66.667 16.69 0.00 37.67 3.73
4302 4433 3.462678 GACCAGCCCTCCGAGGAC 61.463 72.222 16.69 3.96 37.67 3.85
4303 4434 4.779733 GGACCAGCCCTCCGAGGA 62.780 72.222 16.69 0.00 37.67 3.71
4309 4440 3.787001 CTTCCCGGACCAGCCCTC 61.787 72.222 0.73 0.00 0.00 4.30
4310 4441 3.864983 TTCTTCCCGGACCAGCCCT 62.865 63.158 0.73 0.00 0.00 5.19
4311 4442 3.327404 TTCTTCCCGGACCAGCCC 61.327 66.667 0.73 0.00 0.00 5.19
4312 4443 2.125766 AACTTCTTCCCGGACCAGCC 62.126 60.000 0.73 0.00 0.00 4.85
4313 4444 0.955919 CAACTTCTTCCCGGACCAGC 60.956 60.000 0.73 0.00 0.00 4.85
4314 4445 0.321653 CCAACTTCTTCCCGGACCAG 60.322 60.000 0.73 0.00 0.00 4.00
4315 4446 0.765135 TCCAACTTCTTCCCGGACCA 60.765 55.000 0.73 0.00 0.00 4.02
4316 4447 0.036294 CTCCAACTTCTTCCCGGACC 60.036 60.000 0.73 0.00 0.00 4.46
4317 4448 0.036294 CCTCCAACTTCTTCCCGGAC 60.036 60.000 0.73 0.00 0.00 4.79
4318 4449 0.178915 TCCTCCAACTTCTTCCCGGA 60.179 55.000 0.73 0.00 0.00 5.14
4319 4450 0.250513 CTCCTCCAACTTCTTCCCGG 59.749 60.000 0.00 0.00 0.00 5.73
4320 4451 1.267121 TCTCCTCCAACTTCTTCCCG 58.733 55.000 0.00 0.00 0.00 5.14
4321 4452 2.682269 GCATCTCCTCCAACTTCTTCCC 60.682 54.545 0.00 0.00 0.00 3.97
4322 4453 2.238395 AGCATCTCCTCCAACTTCTTCC 59.762 50.000 0.00 0.00 0.00 3.46
4323 4454 3.269178 CAGCATCTCCTCCAACTTCTTC 58.731 50.000 0.00 0.00 0.00 2.87
4324 4455 2.617532 GCAGCATCTCCTCCAACTTCTT 60.618 50.000 0.00 0.00 0.00 2.52
4325 4456 1.065564 GCAGCATCTCCTCCAACTTCT 60.066 52.381 0.00 0.00 0.00 2.85
4326 4457 1.377536 GCAGCATCTCCTCCAACTTC 58.622 55.000 0.00 0.00 0.00 3.01
4327 4458 3.566130 GCAGCATCTCCTCCAACTT 57.434 52.632 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.