Multiple sequence alignment - TraesCS1A01G443200

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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 TraesCS1A01G443200 chr1A 100.000 5742 0 0 1 5742 591616395 591610654 0.000000e+00 10604.0
1 TraesCS1A01G443200 chr1B 95.495 2997 74 13 1909 4902 685648277 685645339 0.000000e+00 4730.0
2 TraesCS1A01G443200 chr1B 83.728 1690 101 69 1 1637 685650219 685648651 0.000000e+00 1437.0
3 TraesCS1A01G443200 chr1B 94.039 822 31 9 4928 5742 685645353 685644543 0.000000e+00 1230.0
4 TraesCS1A01G443200 chr1B 93.970 199 12 0 1636 1834 685648611 685648413 9.350000e-78 302.0
5 TraesCS1A01G443200 chr1D 96.779 1987 39 9 3139 5100 493486117 493484131 0.000000e+00 3291.0
6 TraesCS1A01G443200 chr1D 97.941 1311 21 2 1829 3139 493487726 493486422 0.000000e+00 2266.0
7 TraesCS1A01G443200 chr1D 84.906 1113 64 39 1 1089 493492000 493490968 0.000000e+00 1029.0
8 TraesCS1A01G443200 chr1D 97.128 383 10 1 5098 5480 493483825 493483444 0.000000e+00 645.0
9 TraesCS1A01G443200 chr1D 88.994 318 17 10 944 1260 493488644 493488344 1.510000e-100 377.0
10 TraesCS1A01G443200 chr1D 95.238 231 8 1 5515 5742 493483444 493483214 4.230000e-96 363.0
11 TraesCS1A01G443200 chr1D 90.146 274 12 5 1369 1637 493488319 493488056 5.510000e-90 342.0
12 TraesCS1A01G443200 chr1D 94.975 199 10 0 1636 1834 493488016 493487818 4.320000e-81 313.0
13 TraesCS1A01G443200 chr1D 82.544 401 17 17 559 935 493489297 493488926 2.600000e-78 303.0
14 TraesCS1A01G443200 chr2A 89.773 264 20 6 3148 3408 177658415 177658674 1.190000e-86 331.0
15 TraesCS1A01G443200 chr2B 88.636 264 21 8 3148 3408 225571375 225571632 4.320000e-81 313.0
16 TraesCS1A01G443200 chr2B 87.500 264 28 4 3148 3408 717484143 717484404 3.360000e-77 300.0
17 TraesCS1A01G443200 chr2D 88.258 264 21 9 3148 3408 172409660 172409404 2.010000e-79 307.0
18 TraesCS1A01G443200 chr7A 88.583 254 23 5 3160 3408 163129182 163128930 2.600000e-78 303.0
19 TraesCS1A01G443200 chr7A 87.594 266 26 6 3148 3408 163129620 163129357 9.350000e-78 302.0
20 TraesCS1A01G443200 chr5B 86.496 274 26 7 3149 3419 327083788 327083523 2.020000e-74 291.0
21 TraesCS1A01G443200 chr4A 93.023 43 2 1 3095 3137 597138346 597138305 1.730000e-05 62.1


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 TraesCS1A01G443200 chr1A 591610654 591616395 5741 True 10604.000000 10604 100.000000 1 5742 1 chr1A.!!$R1 5741
1 TraesCS1A01G443200 chr1B 685644543 685650219 5676 True 1924.750000 4730 91.808000 1 5742 4 chr1B.!!$R1 5741
2 TraesCS1A01G443200 chr1D 493483214 493492000 8786 True 992.111111 3291 92.072333 1 5742 9 chr1D.!!$R1 5741
3 TraesCS1A01G443200 chr7A 163128930 163129620 690 True 302.500000 303 88.088500 3148 3408 2 chr7A.!!$R1 260

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
618 659 0.179192 CAGCACACACACACACACAC 60.179 55.0 0.00 0.00 0.00 3.82 F
870 3097 0.253394 CCCTTTTCCCCTCCTCCTCT 60.253 60.0 0.00 0.00 0.00 3.69 F
1263 3775 0.398664 CCGGACAGGTATCCCTTCCT 60.399 60.0 0.00 0.00 39.89 3.36 F
2711 5389 0.167908 CATGCAACGGCGCTTCTAAA 59.832 50.0 6.90 0.00 45.35 1.85 F
3835 6839 0.810016 AGGCGGAGTACTCGAAAGAC 59.190 55.0 16.56 9.93 35.39 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2496 5174 1.004044 ACCCATTGTCTTCTCTGCAGG 59.996 52.381 15.13 4.77 0.00 4.85 R
2711 5389 1.550976 CTTAGGCCTTTCTCCGACAGT 59.449 52.381 12.58 0.00 0.00 3.55 R
3060 5738 1.859703 CATGCGTGTTTGTGTTTGCAT 59.140 42.857 0.00 0.00 43.26 3.96 R
4339 7343 0.035317 TCATGTTGCACGAGCTCCTT 59.965 50.000 8.47 0.00 42.74 3.36 R
4922 7932 0.032540 CAAGTCCTGCTTTGCCCAAC 59.967 55.000 0.00 0.00 34.69 3.77 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
48 49 4.885413 TCCTCATTGGTGAAATTTTGCAG 58.115 39.130 0.00 0.00 37.07 4.41
80 81 2.158971 GCACCCACCAACTTTTGAACAT 60.159 45.455 0.00 0.00 0.00 2.71
89 90 7.235777 CACCAACTTTTGAACATGTTTTCTTG 58.764 34.615 13.36 8.51 0.00 3.02
116 117 9.944376 TTCTTAGAAGAGCTTTACACAACATAT 57.056 29.630 0.00 0.00 36.22 1.78
127 128 8.840321 GCTTTACACAACATATAAGATGGATGT 58.160 33.333 0.00 0.00 35.32 3.06
139 144 5.871396 AAGATGGATGTACGTATTCACCT 57.129 39.130 0.00 0.00 0.00 4.00
183 199 3.839654 GCTGGATGCGATGACAATG 57.160 52.632 0.00 0.00 0.00 2.82
190 206 0.652071 TGCGATGACAATGTCGATGC 59.348 50.000 9.00 11.90 40.11 3.91
191 207 0.652071 GCGATGACAATGTCGATGCA 59.348 50.000 15.33 0.00 40.11 3.96
193 209 2.476018 GCGATGACAATGTCGATGCAAA 60.476 45.455 15.33 0.00 40.11 3.68
194 210 3.789791 GCGATGACAATGTCGATGCAAAT 60.790 43.478 15.33 0.26 40.11 2.32
195 211 4.345288 CGATGACAATGTCGATGCAAATT 58.655 39.130 9.00 0.00 40.11 1.82
196 212 4.435554 CGATGACAATGTCGATGCAAATTC 59.564 41.667 9.00 0.00 40.11 2.17
197 213 3.746089 TGACAATGTCGATGCAAATTCG 58.254 40.909 9.00 1.75 34.95 3.34
198 214 3.434984 TGACAATGTCGATGCAAATTCGA 59.565 39.130 9.00 6.79 42.87 3.71
284 301 7.646526 TGATGTAGGTTTAGATATCGTCGTTTG 59.353 37.037 0.00 0.00 0.00 2.93
285 302 6.855836 TGTAGGTTTAGATATCGTCGTTTGT 58.144 36.000 0.00 0.00 0.00 2.83
287 304 7.814107 TGTAGGTTTAGATATCGTCGTTTGTTT 59.186 33.333 0.00 0.00 0.00 2.83
288 305 7.057149 AGGTTTAGATATCGTCGTTTGTTTG 57.943 36.000 0.00 0.00 0.00 2.93
289 306 6.647895 AGGTTTAGATATCGTCGTTTGTTTGT 59.352 34.615 0.00 0.00 0.00 2.83
292 309 8.615585 GTTTAGATATCGTCGTTTGTTTGTTTG 58.384 33.333 0.00 0.00 0.00 2.93
293 310 6.295039 AGATATCGTCGTTTGTTTGTTTGT 57.705 33.333 0.00 0.00 0.00 2.83
294 311 6.721321 AGATATCGTCGTTTGTTTGTTTGTT 58.279 32.000 0.00 0.00 0.00 2.83
295 312 7.190871 AGATATCGTCGTTTGTTTGTTTGTTT 58.809 30.769 0.00 0.00 0.00 2.83
296 313 4.870315 TCGTCGTTTGTTTGTTTGTTTG 57.130 36.364 0.00 0.00 0.00 2.93
297 314 4.288531 TCGTCGTTTGTTTGTTTGTTTGT 58.711 34.783 0.00 0.00 0.00 2.83
299 316 5.231568 TCGTCGTTTGTTTGTTTGTTTGTTT 59.768 32.000 0.00 0.00 0.00 2.83
300 317 5.332081 CGTCGTTTGTTTGTTTGTTTGTTTG 59.668 36.000 0.00 0.00 0.00 2.93
303 320 7.216505 GTCGTTTGTTTGTTTGTTTGTTTGTTT 59.783 29.630 0.00 0.00 0.00 2.83
364 381 3.094572 AGATGCAGGGAAAAGAACATGG 58.905 45.455 0.00 0.00 0.00 3.66
406 423 1.604278 AGCACAGAAAAGAAAGGCGAC 59.396 47.619 0.00 0.00 0.00 5.19
434 451 4.329545 TCAAGCCAGGGTGGACGC 62.330 66.667 0.00 0.00 40.96 5.19
490 519 5.130809 ACATTATGGTTTTGGGGATTGGATG 59.869 40.000 0.00 0.00 0.00 3.51
517 546 8.611654 TGGGTTCTAGTTGAAATTTGTACTAC 57.388 34.615 0.00 0.00 36.30 2.73
595 636 1.350351 GAGGATCCCATGTCATCCCAG 59.650 57.143 8.55 0.00 39.73 4.45
601 642 1.152819 CATGTCATCCCAGCCCCAG 60.153 63.158 0.00 0.00 0.00 4.45
603 644 3.731728 GTCATCCCAGCCCCAGCA 61.732 66.667 0.00 0.00 43.56 4.41
605 646 4.051167 CATCCCAGCCCCAGCACA 62.051 66.667 0.00 0.00 43.56 4.57
606 647 4.052518 ATCCCAGCCCCAGCACAC 62.053 66.667 0.00 0.00 43.56 3.82
609 650 4.584518 CCAGCCCCAGCACACACA 62.585 66.667 0.00 0.00 43.56 3.72
612 653 3.595758 GCCCCAGCACACACACAC 61.596 66.667 0.00 0.00 39.53 3.82
613 654 2.124362 CCCCAGCACACACACACA 60.124 61.111 0.00 0.00 0.00 3.72
614 655 2.480610 CCCCAGCACACACACACAC 61.481 63.158 0.00 0.00 0.00 3.82
615 656 1.748500 CCCAGCACACACACACACA 60.749 57.895 0.00 0.00 0.00 3.72
616 657 1.429021 CCAGCACACACACACACAC 59.571 57.895 0.00 0.00 0.00 3.82
617 658 1.304509 CCAGCACACACACACACACA 61.305 55.000 0.00 0.00 0.00 3.72
618 659 0.179192 CAGCACACACACACACACAC 60.179 55.000 0.00 0.00 0.00 3.82
619 660 0.605050 AGCACACACACACACACACA 60.605 50.000 0.00 0.00 0.00 3.72
620 661 0.454285 GCACACACACACACACACAC 60.454 55.000 0.00 0.00 0.00 3.82
621 662 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
622 663 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
623 664 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
633 674 1.155889 CACACACACACACACACACT 58.844 50.000 0.00 0.00 0.00 3.55
689 730 3.343788 GACGGACCTCACCAGAGCG 62.344 68.421 0.00 0.00 40.68 5.03
732 789 1.078143 CGCTTTTCCCCTCCTCCTG 60.078 63.158 0.00 0.00 0.00 3.86
868 3095 1.931180 GCCCTTTTCCCCTCCTCCT 60.931 63.158 0.00 0.00 0.00 3.69
869 3096 1.927569 GCCCTTTTCCCCTCCTCCTC 61.928 65.000 0.00 0.00 0.00 3.71
870 3097 0.253394 CCCTTTTCCCCTCCTCCTCT 60.253 60.000 0.00 0.00 0.00 3.69
871 3098 1.675007 CCTTTTCCCCTCCTCCTCTT 58.325 55.000 0.00 0.00 0.00 2.85
872 3099 1.562008 CCTTTTCCCCTCCTCCTCTTC 59.438 57.143 0.00 0.00 0.00 2.87
873 3100 2.556766 CTTTTCCCCTCCTCCTCTTCT 58.443 52.381 0.00 0.00 0.00 2.85
874 3101 2.743131 TTTCCCCTCCTCCTCTTCTT 57.257 50.000 0.00 0.00 0.00 2.52
875 3102 2.255770 TTCCCCTCCTCCTCTTCTTC 57.744 55.000 0.00 0.00 0.00 2.87
876 3103 1.398799 TCCCCTCCTCCTCTTCTTCT 58.601 55.000 0.00 0.00 0.00 2.85
877 3104 1.725182 TCCCCTCCTCCTCTTCTTCTT 59.275 52.381 0.00 0.00 0.00 2.52
878 3105 2.115427 CCCCTCCTCCTCTTCTTCTTC 58.885 57.143 0.00 0.00 0.00 2.87
879 3106 2.292851 CCCCTCCTCCTCTTCTTCTTCT 60.293 54.545 0.00 0.00 0.00 2.85
935 3167 3.368501 CTCCCTCCCTCCCTCCCA 61.369 72.222 0.00 0.00 0.00 4.37
937 3169 4.825679 CCCTCCCTCCCTCCCACC 62.826 77.778 0.00 0.00 0.00 4.61
940 3172 3.695825 TCCCTCCCTCCCACCCTC 61.696 72.222 0.00 0.00 0.00 4.30
941 3173 3.700350 CCCTCCCTCCCACCCTCT 61.700 72.222 0.00 0.00 0.00 3.69
942 3174 2.041405 CCTCCCTCCCACCCTCTC 60.041 72.222 0.00 0.00 0.00 3.20
947 3452 1.075600 CCTCCCACCCTCTCTCTCC 60.076 68.421 0.00 0.00 0.00 3.71
982 3494 1.135546 CGATGATGGCGTCCTAGCTAG 60.136 57.143 14.20 14.20 37.29 3.42
983 3495 1.889829 GATGATGGCGTCCTAGCTAGT 59.110 52.381 19.31 0.00 37.29 2.57
984 3496 1.776662 TGATGGCGTCCTAGCTAGTT 58.223 50.000 19.31 0.00 37.29 2.24
985 3497 1.409064 TGATGGCGTCCTAGCTAGTTG 59.591 52.381 19.31 9.48 37.29 3.16
986 3498 1.409427 GATGGCGTCCTAGCTAGTTGT 59.591 52.381 19.31 0.00 37.29 3.32
987 3499 0.815734 TGGCGTCCTAGCTAGTTGTC 59.184 55.000 19.31 10.34 37.29 3.18
988 3500 1.104630 GGCGTCCTAGCTAGTTGTCT 58.895 55.000 19.31 0.00 37.29 3.41
989 3501 2.295885 GGCGTCCTAGCTAGTTGTCTA 58.704 52.381 19.31 0.00 37.29 2.59
1260 3772 2.432300 CGCCGGACAGGTATCCCTT 61.432 63.158 5.05 0.00 39.89 3.95
1261 3773 1.446366 GCCGGACAGGTATCCCTTC 59.554 63.158 5.05 0.00 39.89 3.46
1262 3774 2.041206 GCCGGACAGGTATCCCTTCC 62.041 65.000 5.05 0.00 39.89 3.46
1263 3775 0.398664 CCGGACAGGTATCCCTTCCT 60.399 60.000 0.00 0.00 39.89 3.36
1264 3776 1.497161 CGGACAGGTATCCCTTCCTT 58.503 55.000 4.75 0.00 39.89 3.36
1265 3777 1.413077 CGGACAGGTATCCCTTCCTTC 59.587 57.143 4.75 0.00 39.89 3.46
1266 3778 1.769465 GGACAGGTATCCCTTCCTTCC 59.231 57.143 0.00 0.00 39.89 3.46
1267 3779 2.629909 GGACAGGTATCCCTTCCTTCCT 60.630 54.545 0.00 0.00 39.89 3.36
1268 3780 3.116174 GACAGGTATCCCTTCCTTCCTT 58.884 50.000 0.00 0.00 39.89 3.36
1269 3781 3.116174 ACAGGTATCCCTTCCTTCCTTC 58.884 50.000 0.00 0.00 39.89 3.46
1270 3782 2.439880 CAGGTATCCCTTCCTTCCTTCC 59.560 54.545 0.00 0.00 39.89 3.46
1271 3783 2.322543 AGGTATCCCTTCCTTCCTTCCT 59.677 50.000 0.00 0.00 38.13 3.36
1272 3784 2.706723 GGTATCCCTTCCTTCCTTCCTC 59.293 54.545 0.00 0.00 0.00 3.71
1273 3785 1.900254 ATCCCTTCCTTCCTTCCTCC 58.100 55.000 0.00 0.00 0.00 4.30
1323 3836 5.715434 TTGCCTCTATGTATGCACGTATA 57.285 39.130 0.00 0.00 32.63 1.47
1396 3910 2.917933 TGGATTGAAACCTAGATGCCG 58.082 47.619 0.00 0.00 0.00 5.69
1509 4023 2.125512 ATGTCGTCTCGCCTTGCC 60.126 61.111 0.00 0.00 0.00 4.52
1510 4024 3.989698 ATGTCGTCTCGCCTTGCCG 62.990 63.158 0.00 0.00 0.00 5.69
1549 4063 7.864686 TGCTCTTTTGATGTATGTATGTATGC 58.135 34.615 0.00 0.00 0.00 3.14
1550 4064 7.011773 GCTCTTTTGATGTATGTATGTATGCG 58.988 38.462 0.00 0.00 0.00 4.73
1553 4067 9.271828 TCTTTTGATGTATGTATGTATGCGAAT 57.728 29.630 0.00 0.00 0.00 3.34
1718 4291 1.344942 GAACGCTAGTGCAGTGACGG 61.345 60.000 18.49 3.35 38.21 4.79
1741 4314 4.250305 GGGCGCATCCGGGTACAT 62.250 66.667 10.83 0.00 34.94 2.29
1742 4315 2.972505 GGCGCATCCGGGTACATG 60.973 66.667 10.83 0.00 34.32 3.21
1760 4333 3.216800 CATGGTTGATGATTCCCACGAT 58.783 45.455 0.00 0.00 33.31 3.73
1761 4334 4.141505 ACATGGTTGATGATTCCCACGATA 60.142 41.667 0.00 0.00 35.80 2.92
1810 4383 2.677836 TGTCTGTCACTTCTGTTTGCAC 59.322 45.455 0.00 0.00 0.00 4.57
1838 4516 5.628193 CACACAGCAAAGATGATGAGTTTTC 59.372 40.000 0.59 0.00 42.79 2.29
2152 4830 4.151689 GCGTAGAGACAATAACAGCAACAA 59.848 41.667 0.00 0.00 0.00 2.83
2193 4871 4.608948 TCTTCTGGGAAGAAGTTGACTC 57.391 45.455 13.60 0.00 44.06 3.36
2325 5003 1.335689 CGTATAAGAGTGGGCCTACGC 60.336 57.143 15.29 15.29 0.00 4.42
2496 5174 8.278729 AGAGAGGACTTCATCATTTCAATTTC 57.721 34.615 0.00 0.00 0.00 2.17
2688 5366 2.543037 TGGGCCATACTCTACTGACA 57.457 50.000 0.00 0.00 0.00 3.58
2711 5389 0.167908 CATGCAACGGCGCTTCTAAA 59.832 50.000 6.90 0.00 45.35 1.85
3022 5700 5.566826 CGAGCGGATTAGATCTTCCCATTTA 60.567 44.000 0.00 0.00 0.00 1.40
3060 5738 4.836175 TCTCAAATCACCCTACTGTACACA 59.164 41.667 0.00 0.00 0.00 3.72
3158 6141 5.427157 TGCTTAAATGTAGTACTCCCATCCA 59.573 40.000 0.00 0.00 0.00 3.41
3612 6616 7.275560 GCTTATTGATGTATTTTGTGTTGGGAC 59.724 37.037 0.00 0.00 0.00 4.46
3692 6696 6.058183 GCATCTCCACACCTACTTATTGAAT 58.942 40.000 0.00 0.00 0.00 2.57
3835 6839 0.810016 AGGCGGAGTACTCGAAAGAC 59.190 55.000 16.56 9.93 35.39 3.01
4186 7190 3.390183 TATGCCTCACCAGCCGCAG 62.390 63.158 0.00 0.00 34.15 5.18
4324 7328 2.742372 GCGCGACCCAACACTCAT 60.742 61.111 12.10 0.00 0.00 2.90
4339 7343 0.244721 CTCATGTCGAGCACCACTCA 59.755 55.000 0.00 0.00 46.63 3.41
4525 7529 3.207669 CCCCTCCCTACGTCGTCG 61.208 72.222 0.00 0.00 43.34 5.12
4846 7856 6.576442 GCATTCCTATATATTTGTCCCTCGGT 60.576 42.308 0.00 0.00 0.00 4.69
4887 7897 4.614555 TGGCGACTGTAAATATGCAAAG 57.385 40.909 0.00 0.00 0.00 2.77
4888 7898 3.181501 TGGCGACTGTAAATATGCAAAGC 60.182 43.478 0.00 0.00 0.00 3.51
4889 7899 3.181501 GGCGACTGTAAATATGCAAAGCA 60.182 43.478 0.00 0.00 44.86 3.91
4890 7900 4.411327 GCGACTGTAAATATGCAAAGCAA 58.589 39.130 0.00 0.00 43.62 3.91
4891 7901 4.856487 GCGACTGTAAATATGCAAAGCAAA 59.144 37.500 0.00 0.00 43.62 3.68
4892 7902 5.003778 GCGACTGTAAATATGCAAAGCAAAG 59.996 40.000 0.00 0.00 43.62 2.77
4893 7903 5.003778 CGACTGTAAATATGCAAAGCAAAGC 59.996 40.000 0.00 0.00 43.62 3.51
4894 7904 5.782047 ACTGTAAATATGCAAAGCAAAGCA 58.218 33.333 0.00 0.00 43.62 3.91
4895 7905 5.865552 ACTGTAAATATGCAAAGCAAAGCAG 59.134 36.000 0.00 0.00 44.94 4.24
4896 7906 5.170021 TGTAAATATGCAAAGCAAAGCAGG 58.830 37.500 0.00 0.00 44.94 4.85
4897 7907 4.540359 AAATATGCAAAGCAAAGCAGGA 57.460 36.364 0.00 0.00 44.94 3.86
4898 7908 3.515330 ATATGCAAAGCAAAGCAGGAC 57.485 42.857 0.00 0.00 44.94 3.85
4899 7909 1.335145 ATGCAAAGCAAAGCAGGACT 58.665 45.000 0.00 0.00 44.94 3.85
4900 7910 1.113788 TGCAAAGCAAAGCAGGACTT 58.886 45.000 0.00 0.00 41.70 3.01
4901 7911 1.202440 TGCAAAGCAAAGCAGGACTTG 60.202 47.619 0.00 0.00 39.09 3.16
4902 7912 4.982952 TGCAAAGCAAAGCAGGACTTGC 62.983 50.000 0.34 0.34 44.28 4.01
4912 7922 2.260844 CAGGACTTGCCAGAACAGAA 57.739 50.000 0.00 0.00 40.02 3.02
4913 7923 2.787994 CAGGACTTGCCAGAACAGAAT 58.212 47.619 0.00 0.00 40.02 2.40
4914 7924 2.486982 CAGGACTTGCCAGAACAGAATG 59.513 50.000 0.00 0.00 40.59 2.67
4915 7925 2.373169 AGGACTTGCCAGAACAGAATGA 59.627 45.455 0.00 0.00 38.47 2.57
4916 7926 2.746362 GGACTTGCCAGAACAGAATGAG 59.254 50.000 0.00 0.00 36.48 2.90
4917 7927 3.406764 GACTTGCCAGAACAGAATGAGT 58.593 45.455 0.00 0.00 39.69 3.41
4918 7928 3.144506 ACTTGCCAGAACAGAATGAGTG 58.855 45.455 0.00 0.00 39.69 3.51
4919 7929 1.527034 TGCCAGAACAGAATGAGTGC 58.473 50.000 0.00 0.00 39.69 4.40
4920 7930 1.072806 TGCCAGAACAGAATGAGTGCT 59.927 47.619 0.00 0.00 39.69 4.40
4921 7931 1.467734 GCCAGAACAGAATGAGTGCTG 59.532 52.381 0.00 0.00 39.69 4.41
4922 7932 2.082231 CCAGAACAGAATGAGTGCTGG 58.918 52.381 5.98 5.98 39.69 4.85
4923 7933 2.551721 CCAGAACAGAATGAGTGCTGGT 60.552 50.000 11.42 0.00 39.69 4.00
4924 7934 3.144506 CAGAACAGAATGAGTGCTGGTT 58.855 45.455 0.00 0.00 39.69 3.67
4925 7935 3.058432 CAGAACAGAATGAGTGCTGGTTG 60.058 47.826 0.00 0.00 39.69 3.77
4926 7936 1.901591 ACAGAATGAGTGCTGGTTGG 58.098 50.000 0.00 0.00 39.69 3.77
4950 8008 5.118990 GCAAAGCAGGACTTGTATCTATCA 58.881 41.667 0.00 0.00 39.09 2.15
4956 8014 7.891561 AGCAGGACTTGTATCTATCAATCTAC 58.108 38.462 0.00 0.00 0.00 2.59
5003 8072 7.781548 AAACTGTAACTGTTAGTGTTAGGTG 57.218 36.000 14.36 0.00 31.54 4.00
5004 8073 6.475596 ACTGTAACTGTTAGTGTTAGGTGT 57.524 37.500 0.00 0.00 31.54 4.16
5005 8074 7.587037 ACTGTAACTGTTAGTGTTAGGTGTA 57.413 36.000 0.00 0.00 31.54 2.90
5006 8075 8.186709 ACTGTAACTGTTAGTGTTAGGTGTAT 57.813 34.615 0.00 0.00 31.54 2.29
5055 8128 0.325577 TGGGAGTGATGGCTCTGCTA 60.326 55.000 0.00 0.00 35.89 3.49
5147 8529 5.384063 TTTGCCCATTGTGTACTGTATTG 57.616 39.130 0.00 0.00 0.00 1.90
5232 8618 8.785946 GCCAATACCTTACTGTTACAGTTTTAA 58.214 33.333 23.52 10.81 42.59 1.52
5584 8972 4.019174 GGAAGATCTGCTCCCATCAAAAA 58.981 43.478 0.00 0.00 0.00 1.94
5664 9059 0.806241 AATAAAACATTCGCCGCCGT 59.194 45.000 0.00 0.00 35.54 5.68
5732 9127 2.427453 ACTGGCACTCTATTCTGTACCG 59.573 50.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.502051 AGGGGTATAGTTGAGGGAACA 57.498 47.619 0.00 0.00 36.98 3.18
48 49 3.402681 TGGGTGCAGCTAGGCTCC 61.403 66.667 16.65 8.28 44.61 4.70
80 81 7.865706 AAGCTCTTCTAAGAACAAGAAAACA 57.134 32.000 0.00 0.00 34.03 2.83
89 90 7.478520 TGTTGTGTAAAGCTCTTCTAAGAAC 57.521 36.000 0.00 0.00 34.03 3.01
116 117 6.971726 AGGTGAATACGTACATCCATCTTA 57.028 37.500 0.00 0.00 0.00 2.10
118 119 8.824756 ATATAGGTGAATACGTACATCCATCT 57.175 34.615 0.00 2.11 30.74 2.90
127 128 9.365906 TGACCCTTTTATATAGGTGAATACGTA 57.634 33.333 0.00 0.00 31.10 3.57
134 135 9.400208 TCCAATATGACCCTTTTATATAGGTGA 57.600 33.333 0.00 0.00 31.10 4.02
190 206 3.361644 CGCCACAAAAGTCATCGAATTTG 59.638 43.478 0.00 0.00 38.42 2.32
191 207 3.564511 CGCCACAAAAGTCATCGAATTT 58.435 40.909 0.00 0.00 31.06 1.82
193 209 1.135689 GCGCCACAAAAGTCATCGAAT 60.136 47.619 0.00 0.00 0.00 3.34
194 210 0.237235 GCGCCACAAAAGTCATCGAA 59.763 50.000 0.00 0.00 0.00 3.71
195 211 1.866237 GCGCCACAAAAGTCATCGA 59.134 52.632 0.00 0.00 0.00 3.59
196 212 1.509787 CGCGCCACAAAAGTCATCG 60.510 57.895 0.00 0.00 0.00 3.84
197 213 1.797537 GCGCGCCACAAAAGTCATC 60.798 57.895 23.24 0.00 0.00 2.92
198 214 1.795170 AAGCGCGCCACAAAAGTCAT 61.795 50.000 30.33 0.13 0.00 3.06
232 249 1.483004 TGATTTTGGCCGTATCTCCGA 59.517 47.619 0.00 0.00 0.00 4.55
270 287 6.295039 ACAAACAAACAAACGACGATATCT 57.705 33.333 0.00 0.00 0.00 1.98
284 301 7.905493 TCTCAACAAACAAACAAACAAACAAAC 59.095 29.630 0.00 0.00 0.00 2.93
285 302 7.974675 TCTCAACAAACAAACAAACAAACAAA 58.025 26.923 0.00 0.00 0.00 2.83
287 304 7.721286 ATCTCAACAAACAAACAAACAAACA 57.279 28.000 0.00 0.00 0.00 2.83
288 305 9.687717 CATATCTCAACAAACAAACAAACAAAC 57.312 29.630 0.00 0.00 0.00 2.93
289 306 9.645059 TCATATCTCAACAAACAAACAAACAAA 57.355 25.926 0.00 0.00 0.00 2.83
292 309 8.268738 GCTTCATATCTCAACAAACAAACAAAC 58.731 33.333 0.00 0.00 0.00 2.93
293 310 7.978414 TGCTTCATATCTCAACAAACAAACAAA 59.022 29.630 0.00 0.00 0.00 2.83
294 311 7.487484 TGCTTCATATCTCAACAAACAAACAA 58.513 30.769 0.00 0.00 0.00 2.83
295 312 7.036996 TGCTTCATATCTCAACAAACAAACA 57.963 32.000 0.00 0.00 0.00 2.83
296 313 7.596248 ACATGCTTCATATCTCAACAAACAAAC 59.404 33.333 0.00 0.00 0.00 2.93
297 314 7.660112 ACATGCTTCATATCTCAACAAACAAA 58.340 30.769 0.00 0.00 0.00 2.83
299 316 6.656270 AGACATGCTTCATATCTCAACAAACA 59.344 34.615 0.00 0.00 0.00 2.83
300 317 7.081526 AGACATGCTTCATATCTCAACAAAC 57.918 36.000 0.00 0.00 0.00 2.93
303 320 7.147846 TGTCTAGACATGCTTCATATCTCAACA 60.148 37.037 21.74 0.00 36.21 3.33
364 381 6.183360 TGCTGAAGATTCATTCATCATGTGTC 60.183 38.462 0.00 0.00 38.47 3.67
389 406 0.586802 GCGTCGCCTTTCTTTTCTGT 59.413 50.000 5.75 0.00 0.00 3.41
459 488 5.246429 TCCCCAAAACCATAATGTAACCAAC 59.754 40.000 0.00 0.00 0.00 3.77
462 491 6.345298 CAATCCCCAAAACCATAATGTAACC 58.655 40.000 0.00 0.00 0.00 2.85
471 500 3.488355 TCATCCAATCCCCAAAACCAT 57.512 42.857 0.00 0.00 0.00 3.55
473 502 2.435437 CCATCATCCAATCCCCAAAACC 59.565 50.000 0.00 0.00 0.00 3.27
490 519 8.336801 AGTACAAATTTCAACTAGAACCCATC 57.663 34.615 0.00 0.00 35.56 3.51
517 546 5.320549 ACAAACATACTACTACTCCCACG 57.679 43.478 0.00 0.00 0.00 4.94
595 636 3.595758 GTGTGTGTGTGCTGGGGC 61.596 66.667 0.00 0.00 39.26 5.80
601 642 0.454285 GTGTGTGTGTGTGTGTGTGC 60.454 55.000 0.00 0.00 0.00 4.57
603 644 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
605 646 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
606 647 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
609 650 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
612 653 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
613 654 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
614 655 1.128507 GAGTGTGTGTGTGTGTGTGTG 59.871 52.381 0.00 0.00 0.00 3.82
615 656 1.001974 AGAGTGTGTGTGTGTGTGTGT 59.998 47.619 0.00 0.00 0.00 3.72
616 657 1.394572 CAGAGTGTGTGTGTGTGTGTG 59.605 52.381 0.00 0.00 0.00 3.82
617 658 1.001974 ACAGAGTGTGTGTGTGTGTGT 59.998 47.619 0.00 0.00 38.28 3.72
618 659 1.725641 ACAGAGTGTGTGTGTGTGTG 58.274 50.000 0.00 0.00 38.28 3.82
619 660 2.076100 CAACAGAGTGTGTGTGTGTGT 58.924 47.619 0.00 0.00 40.26 3.72
620 661 1.398041 CCAACAGAGTGTGTGTGTGTG 59.602 52.381 0.00 0.00 40.26 3.82
621 662 1.003118 ACCAACAGAGTGTGTGTGTGT 59.997 47.619 0.00 0.00 40.26 3.72
622 663 1.398041 CACCAACAGAGTGTGTGTGTG 59.602 52.381 7.80 7.80 40.26 3.82
623 664 1.678728 CCACCAACAGAGTGTGTGTGT 60.679 52.381 9.23 0.89 40.26 3.72
633 674 2.923035 CCCACCACCACCAACAGA 59.077 61.111 0.00 0.00 0.00 3.41
696 738 0.827368 CGGAGGAGGAAGAAAGGGAG 59.173 60.000 0.00 0.00 0.00 4.30
697 739 1.265454 GCGGAGGAGGAAGAAAGGGA 61.265 60.000 0.00 0.00 0.00 4.20
698 740 1.222113 GCGGAGGAGGAAGAAAGGG 59.778 63.158 0.00 0.00 0.00 3.95
701 743 2.552373 GGAAAAGCGGAGGAGGAAGAAA 60.552 50.000 0.00 0.00 0.00 2.52
705 759 1.683441 GGGAAAAGCGGAGGAGGAA 59.317 57.895 0.00 0.00 0.00 3.36
868 3095 6.870965 CCGAATCAAGAAGAAGAAGAAGAAGA 59.129 38.462 0.00 0.00 0.00 2.87
869 3096 6.870965 TCCGAATCAAGAAGAAGAAGAAGAAG 59.129 38.462 0.00 0.00 0.00 2.85
870 3097 6.759272 TCCGAATCAAGAAGAAGAAGAAGAA 58.241 36.000 0.00 0.00 0.00 2.52
871 3098 6.209589 TCTCCGAATCAAGAAGAAGAAGAAGA 59.790 38.462 0.00 0.00 0.00 2.87
872 3099 6.393990 TCTCCGAATCAAGAAGAAGAAGAAG 58.606 40.000 0.00 0.00 0.00 2.85
873 3100 6.346477 TCTCCGAATCAAGAAGAAGAAGAA 57.654 37.500 0.00 0.00 0.00 2.52
874 3101 5.984695 TCTCCGAATCAAGAAGAAGAAGA 57.015 39.130 0.00 0.00 0.00 2.87
875 3102 6.572519 AGATCTCCGAATCAAGAAGAAGAAG 58.427 40.000 0.00 0.00 0.00 2.85
876 3103 6.406400 GGAGATCTCCGAATCAAGAAGAAGAA 60.406 42.308 25.78 0.00 40.36 2.52
877 3104 5.068460 GGAGATCTCCGAATCAAGAAGAAGA 59.932 44.000 25.78 0.00 40.36 2.87
878 3105 5.288804 GGAGATCTCCGAATCAAGAAGAAG 58.711 45.833 25.78 0.00 40.36 2.85
879 3106 5.269505 GGAGATCTCCGAATCAAGAAGAA 57.730 43.478 25.78 0.00 40.36 2.52
935 3167 2.329399 GGGGAGGGAGAGAGAGGGT 61.329 68.421 0.00 0.00 0.00 4.34
937 3169 2.612251 GGGGGAGGGAGAGAGAGG 59.388 72.222 0.00 0.00 0.00 3.69
982 3494 2.907897 ATCGCGGCCAGCTAGACAAC 62.908 60.000 6.13 0.00 45.59 3.32
983 3495 2.721167 ATCGCGGCCAGCTAGACAA 61.721 57.895 6.13 0.00 45.59 3.18
984 3496 3.147595 ATCGCGGCCAGCTAGACA 61.148 61.111 6.13 0.00 45.59 3.41
985 3497 2.659897 CATCGCGGCCAGCTAGAC 60.660 66.667 6.13 0.00 45.59 2.59
986 3498 2.833121 TCATCGCGGCCAGCTAGA 60.833 61.111 6.13 8.34 45.59 2.43
987 3499 2.355599 CTCATCGCGGCCAGCTAG 60.356 66.667 6.13 7.07 45.59 3.42
988 3500 3.916544 CCTCATCGCGGCCAGCTA 61.917 66.667 6.13 7.06 45.59 3.32
1260 3772 1.229853 GGGTGGGAGGAAGGAAGGA 60.230 63.158 0.00 0.00 0.00 3.36
1261 3773 0.921256 ATGGGTGGGAGGAAGGAAGG 60.921 60.000 0.00 0.00 0.00 3.46
1262 3774 0.548510 GATGGGTGGGAGGAAGGAAG 59.451 60.000 0.00 0.00 0.00 3.46
1263 3775 0.121197 AGATGGGTGGGAGGAAGGAA 59.879 55.000 0.00 0.00 0.00 3.36
1264 3776 0.121197 AAGATGGGTGGGAGGAAGGA 59.879 55.000 0.00 0.00 0.00 3.36
1265 3777 0.548510 GAAGATGGGTGGGAGGAAGG 59.451 60.000 0.00 0.00 0.00 3.46
1266 3778 1.488393 GAGAAGATGGGTGGGAGGAAG 59.512 57.143 0.00 0.00 0.00 3.46
1267 3779 1.584724 GAGAAGATGGGTGGGAGGAA 58.415 55.000 0.00 0.00 0.00 3.36
1268 3780 0.326618 GGAGAAGATGGGTGGGAGGA 60.327 60.000 0.00 0.00 0.00 3.71
1269 3781 0.327000 AGGAGAAGATGGGTGGGAGG 60.327 60.000 0.00 0.00 0.00 4.30
1270 3782 1.589414 AAGGAGAAGATGGGTGGGAG 58.411 55.000 0.00 0.00 0.00 4.30
1271 3783 2.059756 AAAGGAGAAGATGGGTGGGA 57.940 50.000 0.00 0.00 0.00 4.37
1272 3784 2.310052 AGAAAAGGAGAAGATGGGTGGG 59.690 50.000 0.00 0.00 0.00 4.61
1273 3785 3.728385 AGAAAAGGAGAAGATGGGTGG 57.272 47.619 0.00 0.00 0.00 4.61
1316 3829 6.400727 GCGGACAGGCTAAAAATATATACGTG 60.401 42.308 0.00 0.00 0.00 4.49
1318 3831 5.867716 AGCGGACAGGCTAAAAATATATACG 59.132 40.000 0.00 0.00 42.62 3.06
1323 3836 4.150897 TCAGCGGACAGGCTAAAAATAT 57.849 40.909 0.00 0.00 42.53 1.28
1490 4004 3.084579 CAAGGCGAGACGACATGC 58.915 61.111 0.00 0.00 37.34 4.06
1509 4023 1.059173 GAGCATCAATAGAGCGAGCG 58.941 55.000 0.00 0.00 33.17 5.03
1510 4024 2.437200 AGAGCATCAATAGAGCGAGC 57.563 50.000 0.00 0.00 37.82 5.03
1511 4025 4.807834 TCAAAAGAGCATCAATAGAGCGAG 59.192 41.667 0.00 0.00 37.82 5.03
1512 4026 4.758688 TCAAAAGAGCATCAATAGAGCGA 58.241 39.130 0.00 0.00 37.82 4.93
1718 4291 2.978010 CCGGATGCGCCCCATAAC 60.978 66.667 4.18 0.00 33.29 1.89
1737 4310 3.198853 TCGTGGGAATCATCAACCATGTA 59.801 43.478 0.00 0.00 40.17 2.29
1741 4314 3.181455 CCTATCGTGGGAATCATCAACCA 60.181 47.826 0.00 0.00 0.00 3.67
1742 4315 3.403038 CCTATCGTGGGAATCATCAACC 58.597 50.000 0.00 0.00 0.00 3.77
1760 4333 1.891933 TTCCACATCCCTGATGCCTA 58.108 50.000 4.05 0.00 43.15 3.93
1761 4334 1.229131 ATTCCACATCCCTGATGCCT 58.771 50.000 4.05 0.00 43.15 4.75
1820 4393 6.005583 TCACTGAAAACTCATCATCTTTGC 57.994 37.500 0.00 0.00 0.00 3.68
1838 4516 1.373497 GCCCAGTCGTGTCTCACTG 60.373 63.158 0.00 0.00 39.90 3.66
1901 4579 7.424001 AGGCGCAAGTTAGTAATAAGTAGTAG 58.576 38.462 10.83 0.00 41.68 2.57
1906 4584 6.812879 AAAAGGCGCAAGTTAGTAATAAGT 57.187 33.333 10.83 0.00 41.68 2.24
1907 4585 7.527457 AGAAAAAGGCGCAAGTTAGTAATAAG 58.473 34.615 10.83 0.00 41.68 1.73
1908 4586 7.443259 AGAAAAAGGCGCAAGTTAGTAATAA 57.557 32.000 10.83 0.00 41.68 1.40
1922 4600 4.475944 CACCAATCTACAAGAAAAAGGCG 58.524 43.478 0.00 0.00 0.00 5.52
2152 4830 5.560966 AGAATTCTTCGTGTTGTTGTTGT 57.439 34.783 0.88 0.00 34.02 3.32
2193 4871 4.570772 AGGAACCGTAAAATCATCATCGTG 59.429 41.667 0.00 0.00 0.00 4.35
2246 4924 2.355513 CCTCACTTCCTCATGGTTGGAG 60.356 54.545 0.00 0.00 33.46 3.86
2325 5003 2.957491 TTTGCAGTTGGTTTGGACAG 57.043 45.000 0.00 0.00 0.00 3.51
2496 5174 1.004044 ACCCATTGTCTTCTCTGCAGG 59.996 52.381 15.13 4.77 0.00 4.85
2711 5389 1.550976 CTTAGGCCTTTCTCCGACAGT 59.449 52.381 12.58 0.00 0.00 3.55
3060 5738 1.859703 CATGCGTGTTTGTGTTTGCAT 59.140 42.857 0.00 0.00 43.26 3.96
3580 6584 8.181573 ACACAAAATACATCAATAAGCTAACCG 58.818 33.333 0.00 0.00 0.00 4.44
3692 6696 4.424711 GCCAAGGCACGGATCCCA 62.425 66.667 6.06 0.00 41.49 4.37
3835 6839 1.338020 GCCTGGTTTCCTTCAGTGTTG 59.662 52.381 0.00 0.00 0.00 3.33
4219 7223 1.968050 AAGGCGGGAAGTACATCGGG 61.968 60.000 0.00 0.00 0.00 5.14
4339 7343 0.035317 TCATGTTGCACGAGCTCCTT 59.965 50.000 8.47 0.00 42.74 3.36
4507 7511 3.525545 GACGACGTAGGGAGGGGC 61.526 72.222 0.00 0.00 0.00 5.80
4719 7723 4.514585 TTGTGCCGGCCAACCACT 62.515 61.111 26.77 0.00 34.57 4.00
4846 7856 4.291783 CCAAAAATTCGCTTTTACCGACA 58.708 39.130 0.00 0.00 36.01 4.35
4893 7903 2.260844 TTCTGTTCTGGCAAGTCCTG 57.739 50.000 0.00 0.00 35.26 3.86
4894 7904 2.373169 TCATTCTGTTCTGGCAAGTCCT 59.627 45.455 0.00 0.00 35.26 3.85
4895 7905 2.746362 CTCATTCTGTTCTGGCAAGTCC 59.254 50.000 0.00 0.00 0.00 3.85
4896 7906 3.188048 CACTCATTCTGTTCTGGCAAGTC 59.812 47.826 0.00 0.00 0.00 3.01
4897 7907 3.144506 CACTCATTCTGTTCTGGCAAGT 58.855 45.455 0.00 0.00 0.00 3.16
4898 7908 2.095364 GCACTCATTCTGTTCTGGCAAG 60.095 50.000 0.00 0.00 0.00 4.01
4899 7909 1.881973 GCACTCATTCTGTTCTGGCAA 59.118 47.619 0.00 0.00 0.00 4.52
4900 7910 1.072806 AGCACTCATTCTGTTCTGGCA 59.927 47.619 0.00 0.00 0.00 4.92
4901 7911 1.467734 CAGCACTCATTCTGTTCTGGC 59.532 52.381 0.00 0.00 0.00 4.85
4902 7912 2.082231 CCAGCACTCATTCTGTTCTGG 58.918 52.381 0.00 0.00 41.00 3.86
4903 7913 2.775890 ACCAGCACTCATTCTGTTCTG 58.224 47.619 0.00 0.00 0.00 3.02
4904 7914 3.144506 CAACCAGCACTCATTCTGTTCT 58.855 45.455 0.00 0.00 0.00 3.01
4905 7915 2.227388 CCAACCAGCACTCATTCTGTTC 59.773 50.000 0.00 0.00 0.00 3.18
4906 7916 2.233271 CCAACCAGCACTCATTCTGTT 58.767 47.619 0.00 0.00 0.00 3.16
4907 7917 1.546323 CCCAACCAGCACTCATTCTGT 60.546 52.381 0.00 0.00 0.00 3.41
4908 7918 1.171308 CCCAACCAGCACTCATTCTG 58.829 55.000 0.00 0.00 0.00 3.02
4909 7919 0.610232 GCCCAACCAGCACTCATTCT 60.610 55.000 0.00 0.00 0.00 2.40
4910 7920 0.895100 TGCCCAACCAGCACTCATTC 60.895 55.000 0.00 0.00 34.69 2.67
4911 7921 0.469705 TTGCCCAACCAGCACTCATT 60.470 50.000 0.00 0.00 40.69 2.57
4912 7922 0.469705 TTTGCCCAACCAGCACTCAT 60.470 50.000 0.00 0.00 40.69 2.90
4913 7923 1.076412 TTTGCCCAACCAGCACTCA 60.076 52.632 0.00 0.00 40.69 3.41
4914 7924 1.662044 CTTTGCCCAACCAGCACTC 59.338 57.895 0.00 0.00 40.69 3.51
4915 7925 2.501602 GCTTTGCCCAACCAGCACT 61.502 57.895 1.02 0.00 40.69 4.40
4916 7926 2.029518 GCTTTGCCCAACCAGCAC 59.970 61.111 1.02 0.00 40.69 4.40
4917 7927 2.443577 TGCTTTGCCCAACCAGCA 60.444 55.556 3.88 3.88 39.98 4.41
4918 7928 2.341176 CTGCTTTGCCCAACCAGC 59.659 61.111 0.00 0.00 0.00 4.85
4919 7929 1.531365 TCCTGCTTTGCCCAACCAG 60.531 57.895 0.00 2.53 0.00 4.00
4920 7930 1.832167 GTCCTGCTTTGCCCAACCA 60.832 57.895 0.00 0.00 0.00 3.67
4921 7931 1.115326 AAGTCCTGCTTTGCCCAACC 61.115 55.000 0.00 0.00 32.57 3.77
4922 7932 0.032540 CAAGTCCTGCTTTGCCCAAC 59.967 55.000 0.00 0.00 34.69 3.77
4923 7933 0.396974 ACAAGTCCTGCTTTGCCCAA 60.397 50.000 0.00 0.00 34.69 4.12
4924 7934 0.476338 TACAAGTCCTGCTTTGCCCA 59.524 50.000 0.00 0.00 34.69 5.36
4925 7935 1.745653 GATACAAGTCCTGCTTTGCCC 59.254 52.381 0.00 0.00 34.69 5.36
4926 7936 2.716217 AGATACAAGTCCTGCTTTGCC 58.284 47.619 0.00 0.00 34.69 4.52
4965 8023 7.230510 ACAGTTACAGTTTTCATTCTGGCATAA 59.769 33.333 0.00 0.00 36.17 1.90
5003 8072 6.985188 TCTTTTTGCCTGAGACATACATAC 57.015 37.500 0.00 0.00 0.00 2.39
5004 8073 7.119699 CACTTCTTTTTGCCTGAGACATACATA 59.880 37.037 0.00 0.00 0.00 2.29
5005 8074 6.006449 ACTTCTTTTTGCCTGAGACATACAT 58.994 36.000 0.00 0.00 0.00 2.29
5006 8075 5.239306 CACTTCTTTTTGCCTGAGACATACA 59.761 40.000 0.00 0.00 0.00 2.29
5081 8154 7.969536 TCTTTTATAAGATATCAGCAGGCAC 57.030 36.000 5.32 0.00 35.49 5.01
5147 8529 8.044309 AGGTTGGCCCAATATACAAAAATAAAC 58.956 33.333 0.00 0.00 34.66 2.01
5232 8618 6.373774 TGCAAATCCAAGTTCAAACACAAATT 59.626 30.769 0.00 0.00 0.00 1.82
5295 8681 5.354792 GTGGTAACTGTGTTTGGAAGTTGTA 59.645 40.000 0.00 0.00 35.77 2.41
5396 8782 5.492895 TGTTAGGTTGGAATAAGAATCGCA 58.507 37.500 0.00 0.00 0.00 5.10
5591 8979 4.021632 GCAGATGCTCCTTTCTTTTCCTTT 60.022 41.667 0.00 0.00 38.21 3.11
5654 9049 4.893601 TTGTGTCACGGCGGCGAA 62.894 61.111 38.93 22.13 0.00 4.70
5664 9059 2.316867 CGCACATCGCCTTGTGTCA 61.317 57.895 13.44 0.00 46.93 3.58
5717 9112 6.585695 TGAGTTTTCGGTACAGAATAGAGT 57.414 37.500 9.31 2.53 0.00 3.24


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

AutoCloner maintained by Alex Coulton.