Multiple sequence alignment - TraesCS3A01G449000

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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 TraesCS3A01G449000 chr3A 100.000 3246 0 0 1 3246 688679540 688676295 0.000000e+00 5995.0
1 TraesCS3A01G449000 chr3D 84.412 3368 252 131 30 3226 551987094 551983829 0.000000e+00 3059.0
2 TraesCS3A01G449000 chr3B 88.555 1363 85 28 921 2225 732432643 732431294 0.000000e+00 1587.0
3 TraesCS3A01G449000 chr3B 87.677 495 24 12 2778 3244 732430700 732430215 2.850000e-150 542.0
4 TraesCS3A01G449000 chr3B 82.671 554 54 18 2184 2700 732431279 732430731 1.370000e-123 453.0
5 TraesCS3A01G449000 chr3B 84.536 291 28 9 1291 1566 744330925 744330637 4.130000e-69 272.0
6 TraesCS3A01G449000 chr3B 87.654 243 17 7 30 263 732433199 732432961 1.480000e-68 270.0
7 TraesCS3A01G449000 chr3B 90.588 170 9 6 719 883 732432804 732432637 5.450000e-53 219.0
8 TraesCS3A01G449000 chr1D 85.213 399 42 9 1183 1566 88855983 88855587 8.440000e-106 394.0
9 TraesCS3A01G449000 chr1D 84.848 297 28 6 1267 1548 28342561 28342855 1.910000e-72 283.0
10 TraesCS3A01G449000 chr1D 95.294 85 4 0 991 1075 88856116 88856032 5.650000e-28 135.0
11 TraesCS3A01G449000 chr1D 91.071 56 4 1 1664 1718 28342886 28342941 1.250000e-09 75.0
12 TraesCS3A01G449000 chr1D 100.000 28 0 0 2215 2242 495006498 495006525 6.000000e-03 52.8
13 TraesCS3A01G449000 chr2B 81.562 461 67 10 2762 3218 793499893 793499447 6.620000e-97 364.0
14 TraesCS3A01G449000 chr2B 82.911 158 13 9 918 1075 402089008 402089151 2.630000e-26 130.0
15 TraesCS3A01G449000 chr2B 94.286 35 2 0 1668 1702 402089635 402089669 2.000000e-03 54.7
16 TraesCS3A01G449000 chr2B 100.000 28 0 0 2215 2242 388103238 388103211 6.000000e-03 52.8
17 TraesCS3A01G449000 chr2B 100.000 28 0 0 2216 2243 578137746 578137719 6.000000e-03 52.8
18 TraesCS3A01G449000 chr7D 84.950 299 28 7 1265 1548 497410914 497411210 1.470000e-73 287.0
19 TraesCS3A01G449000 chr7D 89.286 56 6 0 1663 1718 497411241 497411296 1.620000e-08 71.3
20 TraesCS3A01G449000 chr4A 84.880 291 27 7 1291 1566 608903384 608903672 8.870000e-71 278.0
21 TraesCS3A01G449000 chr4A 79.032 124 21 3 3079 3199 536795242 536795121 2.680000e-11 80.5
22 TraesCS3A01G449000 chr7B 84.536 291 28 11 1291 1566 55802141 55802429 4.130000e-69 272.0
23 TraesCS3A01G449000 chr5D 83.278 299 33 11 1265 1548 276009325 276009029 3.210000e-65 259.0
24 TraesCS3A01G449000 chr5D 91.071 56 5 0 1663 1718 276008998 276008943 3.470000e-10 76.8
25 TraesCS3A01G449000 chr4B 83.505 291 31 6 1291 1566 654833348 654833636 4.160000e-64 255.0
26 TraesCS3A01G449000 chr4B 83.103 290 32 8 1292 1566 445682441 445682154 6.950000e-62 248.0
27 TraesCS3A01G449000 chr4B 92.308 91 7 0 991 1081 668732006 668731916 2.630000e-26 130.0
28 TraesCS3A01G449000 chr4B 80.488 123 21 3 3079 3199 89001328 89001449 1.240000e-14 91.6
29 TraesCS3A01G449000 chr5A 82.818 291 33 11 1291 1566 631884330 631884618 9.000000e-61 244.0
30 TraesCS3A01G449000 chr2D 81.548 336 26 14 1265 1566 206768556 206768889 9.000000e-61 244.0
31 TraesCS3A01G449000 chrUn 84.746 177 18 2 1398 1566 359436461 359436286 5.570000e-38 169.0
32 TraesCS3A01G449000 chr4D 79.839 124 20 3 3079 3199 59622799 59622920 5.770000e-13 86.1
33 TraesCS3A01G449000 chr4D 100.000 28 0 0 2215 2242 64367054 64367081 6.000000e-03 52.8
34 TraesCS3A01G449000 chr4D 100.000 28 0 0 2215 2242 64367060 64367087 6.000000e-03 52.8
35 TraesCS3A01G449000 chr4D 100.000 28 0 0 2215 2242 64367066 64367093 6.000000e-03 52.8
36 TraesCS3A01G449000 chr4D 100.000 28 0 0 2215 2242 64367072 64367099 6.000000e-03 52.8
37 TraesCS3A01G449000 chr2A 93.617 47 3 0 1663 1709 743969746 743969700 1.620000e-08 71.3
38 TraesCS3A01G449000 chr2A 97.436 39 1 0 918 956 743969931 743969893 2.090000e-07 67.6
39 TraesCS3A01G449000 chr1B 100.000 28 0 0 2215 2242 518795893 518795866 6.000000e-03 52.8


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 TraesCS3A01G449000 chr3A 688676295 688679540 3245 True 5995.0 5995 100.0000 1 3246 1 chr3A.!!$R1 3245
1 TraesCS3A01G449000 chr3D 551983829 551987094 3265 True 3059.0 3059 84.4120 30 3226 1 chr3D.!!$R1 3196
2 TraesCS3A01G449000 chr3B 732430215 732433199 2984 True 614.2 1587 87.4290 30 3244 5 chr3B.!!$R2 3214
3 TraesCS3A01G449000 chr1D 88855587 88856116 529 True 264.5 394 90.2535 991 1566 2 chr1D.!!$R1 575

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
201 209 0.102481 TTCGATAGCTGAAGTCGGGC 59.898 55.0 0.0 0.0 36.14 6.13 F
938 1052 0.105778 GCCCTCCTCCAAATCTCTCG 59.894 60.0 0.0 0.0 0.00 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2044 2219 0.179051 CCATCTTCTCCTGCTCCTGC 60.179 60.0 0.0 0.0 40.2 4.85 R
2534 2845 0.179215 GCTCAAAGATTGGACGCACG 60.179 55.0 0.0 0.0 0.0 5.34 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.982130 AGCACCGCTTGACCTAGG 59.018 61.111 7.41 7.41 33.89 3.02
18 19 2.820037 GCACCGCTTGACCTAGGC 60.820 66.667 9.30 2.11 0.00 3.93
19 20 2.125106 CACCGCTTGACCTAGGCC 60.125 66.667 9.30 0.00 0.00 5.19
20 21 3.771160 ACCGCTTGACCTAGGCCG 61.771 66.667 9.30 4.11 0.00 6.13
23 24 4.858680 GCTTGACCTAGGCCGCCC 62.859 72.222 9.30 0.00 0.00 6.13
24 25 3.083997 CTTGACCTAGGCCGCCCT 61.084 66.667 9.30 0.00 45.61 5.19
25 26 3.391665 CTTGACCTAGGCCGCCCTG 62.392 68.421 9.30 0.00 42.90 4.45
26 27 3.916438 TTGACCTAGGCCGCCCTGA 62.916 63.158 9.30 0.00 42.90 3.86
27 28 3.081409 GACCTAGGCCGCCCTGAA 61.081 66.667 9.30 0.00 42.90 3.02
28 29 3.083997 ACCTAGGCCGCCCTGAAG 61.084 66.667 9.30 0.00 42.90 3.02
45 46 4.887655 CCTGAAGTCCCTTTTGTACAGTTT 59.112 41.667 0.00 0.00 0.00 2.66
101 103 4.727507 TGCCTCTGTTTTTGTTTTGCTA 57.272 36.364 0.00 0.00 0.00 3.49
150 153 2.217750 CGAACAATGAACTGGACACCA 58.782 47.619 0.00 0.00 0.00 4.17
173 176 7.038729 ACCATAAGTTGTCTTGAGAAGAGATGA 60.039 37.037 0.00 0.00 38.41 2.92
174 177 7.986320 CCATAAGTTGTCTTGAGAAGAGATGAT 59.014 37.037 0.00 0.00 38.41 2.45
175 178 8.819015 CATAAGTTGTCTTGAGAAGAGATGATG 58.181 37.037 0.00 0.00 38.41 3.07
198 206 5.062183 TGTGAAATTTCGATAGCTGAAGTCG 59.938 40.000 13.34 1.14 36.75 4.18
201 209 0.102481 TTCGATAGCTGAAGTCGGGC 59.898 55.000 0.00 0.00 36.14 6.13
205 213 0.179000 ATAGCTGAAGTCGGGCTTGG 59.821 55.000 0.00 0.00 37.59 3.61
238 249 4.688879 TGTCGGCTTGTTATGTGTAAGAAG 59.311 41.667 0.00 1.92 41.60 2.85
265 276 4.451629 AGCTCTTTGAAATGAAGGCATG 57.548 40.909 0.00 0.00 34.26 4.06
298 338 1.538950 CCTCTTGCCTGCACTCTTTTC 59.461 52.381 0.00 0.00 0.00 2.29
305 345 2.982470 GCCTGCACTCTTTTCGAAAATG 59.018 45.455 22.73 18.53 0.00 2.32
314 354 5.470437 ACTCTTTTCGAAAATGGAAGTCTCC 59.530 40.000 22.73 0.00 42.81 3.71
385 425 3.262915 CCACCATTCTCTGAGGTTTCTCT 59.737 47.826 4.59 0.00 40.58 3.10
419 459 8.833231 TCGTGATCAATTTTCTTTCTAGAACT 57.167 30.769 4.18 0.00 40.04 3.01
434 474 5.437946 TCTAGAACTATCTCGTGATGGTGT 58.562 41.667 15.84 9.83 42.39 4.16
483 528 5.561993 TCCTTTTAAATTACCGAAATCGCG 58.438 37.500 0.00 0.00 38.18 5.87
488 533 3.651562 AATTACCGAAATCGCGTTGAG 57.348 42.857 5.77 0.00 38.18 3.02
504 549 3.369147 CGTTGAGATCGCTTCATTGTCTT 59.631 43.478 0.00 0.00 0.00 3.01
505 550 4.143030 CGTTGAGATCGCTTCATTGTCTTT 60.143 41.667 0.00 0.00 0.00 2.52
506 551 5.615544 CGTTGAGATCGCTTCATTGTCTTTT 60.616 40.000 0.00 0.00 0.00 2.27
508 553 4.393062 TGAGATCGCTTCATTGTCTTTTCC 59.607 41.667 0.00 0.00 0.00 3.13
509 554 4.326826 AGATCGCTTCATTGTCTTTTCCA 58.673 39.130 0.00 0.00 0.00 3.53
510 555 4.946157 AGATCGCTTCATTGTCTTTTCCAT 59.054 37.500 0.00 0.00 0.00 3.41
511 556 6.115446 AGATCGCTTCATTGTCTTTTCCATA 58.885 36.000 0.00 0.00 0.00 2.74
512 557 5.801350 TCGCTTCATTGTCTTTTCCATAG 57.199 39.130 0.00 0.00 0.00 2.23
513 558 5.487433 TCGCTTCATTGTCTTTTCCATAGA 58.513 37.500 0.00 0.00 0.00 1.98
514 559 6.115446 TCGCTTCATTGTCTTTTCCATAGAT 58.885 36.000 0.00 0.00 0.00 1.98
515 560 6.258727 TCGCTTCATTGTCTTTTCCATAGATC 59.741 38.462 0.00 0.00 0.00 2.75
516 561 6.425504 GCTTCATTGTCTTTTCCATAGATCG 58.574 40.000 0.00 0.00 0.00 3.69
517 562 6.258727 GCTTCATTGTCTTTTCCATAGATCGA 59.741 38.462 0.00 0.00 0.00 3.59
518 563 7.201644 GCTTCATTGTCTTTTCCATAGATCGAA 60.202 37.037 0.00 0.00 0.00 3.71
519 564 7.776933 TCATTGTCTTTTCCATAGATCGAAG 57.223 36.000 0.00 0.00 0.00 3.79
520 565 7.331026 TCATTGTCTTTTCCATAGATCGAAGT 58.669 34.615 0.00 0.00 0.00 3.01
521 566 7.492669 TCATTGTCTTTTCCATAGATCGAAGTC 59.507 37.037 0.00 0.00 0.00 3.01
522 567 6.531503 TGTCTTTTCCATAGATCGAAGTCT 57.468 37.500 0.00 0.00 0.00 3.24
523 568 6.565234 TGTCTTTTCCATAGATCGAAGTCTC 58.435 40.000 0.00 0.00 0.00 3.36
526 571 6.378564 TCTTTTCCATAGATCGAAGTCTCAGT 59.621 38.462 0.00 0.00 0.00 3.41
534 579 3.627732 TCGAAGTCTCAGTCAAGTGAC 57.372 47.619 3.12 3.12 45.08 3.67
576 635 9.981114 ATGAAAGAAAATTTTACACGGATCTTT 57.019 25.926 2.75 6.67 38.26 2.52
586 645 7.766219 TTTACACGGATCTTTATGTAAGAGC 57.234 36.000 0.00 0.00 45.69 4.09
589 648 7.291411 ACACGGATCTTTATGTAAGAGCTAT 57.709 36.000 7.35 0.00 46.19 2.97
590 649 8.405418 ACACGGATCTTTATGTAAGAGCTATA 57.595 34.615 7.35 0.00 46.19 1.31
688 772 9.522804 CAGTAAATTAGGTACAGATCTCAAGAC 57.477 37.037 0.00 0.00 0.00 3.01
690 774 9.522804 GTAAATTAGGTACAGATCTCAAGACTG 57.477 37.037 0.00 0.00 37.62 3.51
710 803 8.800370 AGACTGAGATTTCCTTCCTATTTTTC 57.200 34.615 0.00 0.00 0.00 2.29
711 804 7.831690 AGACTGAGATTTCCTTCCTATTTTTCC 59.168 37.037 0.00 0.00 0.00 3.13
714 807 8.353423 TGAGATTTCCTTCCTATTTTTCCTTG 57.647 34.615 0.00 0.00 0.00 3.61
715 808 8.170061 TGAGATTTCCTTCCTATTTTTCCTTGA 58.830 33.333 0.00 0.00 0.00 3.02
717 810 6.569179 TTTCCTTCCTATTTTTCCTTGACG 57.431 37.500 0.00 0.00 0.00 4.35
742 851 1.134175 ACTTTTTGTCTGGCAACGGTG 59.866 47.619 0.00 0.00 45.94 4.94
765 874 0.319813 AAAGCAATCAAAGCCCGCAC 60.320 50.000 0.00 0.00 0.00 5.34
816 927 4.269844 GCCAGTTCGAATCTCAATCTCTTC 59.730 45.833 0.00 0.00 0.00 2.87
861 975 2.163613 CGCCTCCACATTTTAAACTCCC 59.836 50.000 0.00 0.00 0.00 4.30
883 997 2.983592 CGCCGCAAACCCTTCCTT 60.984 61.111 0.00 0.00 0.00 3.36
884 998 2.962569 GCCGCAAACCCTTCCTTC 59.037 61.111 0.00 0.00 0.00 3.46
885 999 2.636412 GCCGCAAACCCTTCCTTCC 61.636 63.158 0.00 0.00 0.00 3.46
895 1009 1.423161 CCCTTCCTTCCTCCATCCATC 59.577 57.143 0.00 0.00 0.00 3.51
903 1017 1.131970 TCCTCCATCCATCCCATCCAT 60.132 52.381 0.00 0.00 0.00 3.41
938 1052 0.105778 GCCCTCCTCCAAATCTCTCG 59.894 60.000 0.00 0.00 0.00 4.04
949 1063 0.105913 AATCTCTCGTCCTCCCTCCC 60.106 60.000 0.00 0.00 0.00 4.30
950 1064 2.014033 ATCTCTCGTCCTCCCTCCCC 62.014 65.000 0.00 0.00 0.00 4.81
963 1077 1.528542 CTCCCCATCTCGGCGTCTA 60.529 63.158 6.85 0.00 0.00 2.59
968 1082 0.955178 CCATCTCGGCGTCTACATCT 59.045 55.000 6.85 0.00 0.00 2.90
969 1083 1.068885 CCATCTCGGCGTCTACATCTC 60.069 57.143 6.85 0.00 0.00 2.75
970 1084 1.068885 CATCTCGGCGTCTACATCTCC 60.069 57.143 6.85 0.00 0.00 3.71
971 1085 0.107361 TCTCGGCGTCTACATCTCCA 60.107 55.000 6.85 0.00 0.00 3.86
972 1086 0.955178 CTCGGCGTCTACATCTCCAT 59.045 55.000 6.85 0.00 0.00 3.41
973 1087 0.952280 TCGGCGTCTACATCTCCATC 59.048 55.000 6.85 0.00 0.00 3.51
976 1090 1.620819 GGCGTCTACATCTCCATCCAT 59.379 52.381 0.00 0.00 0.00 3.41
977 1091 2.353208 GGCGTCTACATCTCCATCCATC 60.353 54.545 0.00 0.00 0.00 3.51
978 1092 2.669670 GCGTCTACATCTCCATCCATCG 60.670 54.545 0.00 0.00 0.00 3.84
987 1101 2.537560 CCATCCATCGGCAAGCGAC 61.538 63.158 0.00 0.00 0.00 5.19
1075 1189 3.497884 AAGAAGGCCGCCAAGCTGT 62.498 57.895 13.15 0.00 0.00 4.40
1147 1288 3.324099 GACGAGAACTCTGCGCCGA 62.324 63.158 4.18 2.10 0.00 5.54
1148 1289 2.876645 CGAGAACTCTGCGCCGAC 60.877 66.667 4.18 0.00 0.00 4.79
1362 1506 2.808206 CCTCGCCCCCATCCTGTAC 61.808 68.421 0.00 0.00 0.00 2.90
1369 1513 0.909623 CCCCATCCTGTACGTTCCTT 59.090 55.000 0.00 0.00 0.00 3.36
1372 1516 2.629051 CCATCCTGTACGTTCCTTTCC 58.371 52.381 0.00 0.00 0.00 3.13
1392 1543 3.578716 TCCGTCTCCTCTGATTTTGTCTT 59.421 43.478 0.00 0.00 0.00 3.01
1478 1646 1.379044 GAAGGTGGTGCTGGGGATG 60.379 63.158 0.00 0.00 0.00 3.51
1502 1670 2.125673 ACGATGAAGAACCCGCGG 60.126 61.111 21.04 21.04 0.00 6.46
1577 1745 1.227089 CAACCTCATCTCCTCGGCG 60.227 63.158 0.00 0.00 0.00 6.46
1746 1914 3.948719 TCCACCACGCCAACCTCC 61.949 66.667 0.00 0.00 0.00 4.30
1823 1991 1.425428 CGCTTGCCGACTCAAATCC 59.575 57.895 0.00 0.00 40.02 3.01
1824 1992 1.298157 CGCTTGCCGACTCAAATCCA 61.298 55.000 0.00 0.00 40.02 3.41
1825 1993 0.449388 GCTTGCCGACTCAAATCCAG 59.551 55.000 0.00 0.00 0.00 3.86
1826 1994 1.089920 CTTGCCGACTCAAATCCAGG 58.910 55.000 0.00 0.00 0.00 4.45
1845 2017 1.142778 GCAGCGGAACTCGATCTGTC 61.143 60.000 0.00 0.00 42.43 3.51
1866 2038 3.244345 TCTGTTTCGTTTTACTGACGCAG 59.756 43.478 5.47 5.47 40.16 5.18
1879 2051 3.748863 ACGCAGGAGATCATGTGTC 57.251 52.632 7.79 0.00 46.59 3.67
1880 2052 0.179127 ACGCAGGAGATCATGTGTCG 60.179 55.000 7.79 0.43 46.59 4.35
2044 2219 4.214327 GAGGCCGCCGAGAAGGAG 62.214 72.222 3.05 0.00 45.00 3.69
2061 2236 1.122227 GAGCAGGAGCAGGAGAAGAT 58.878 55.000 0.00 0.00 45.49 2.40
2110 2318 4.171234 AGGTGAAGGAGAATGAGGAAGAA 58.829 43.478 0.00 0.00 0.00 2.52
2111 2319 4.599241 AGGTGAAGGAGAATGAGGAAGAAA 59.401 41.667 0.00 0.00 0.00 2.52
2112 2320 5.252630 AGGTGAAGGAGAATGAGGAAGAAAT 59.747 40.000 0.00 0.00 0.00 2.17
2114 2322 6.176183 GTGAAGGAGAATGAGGAAGAAATGA 58.824 40.000 0.00 0.00 0.00 2.57
2125 2345 6.234177 TGAGGAAGAAATGAAGAAGAAGGAC 58.766 40.000 0.00 0.00 0.00 3.85
2130 2350 3.971245 AATGAAGAAGAAGGACGAGCT 57.029 42.857 0.00 0.00 0.00 4.09
2219 2495 2.520904 GCCAAGATCGTCTCGCAGC 61.521 63.158 0.00 0.00 0.00 5.25
2220 2496 1.880340 CCAAGATCGTCTCGCAGCC 60.880 63.158 0.00 0.00 0.00 4.85
2248 2524 0.817634 AGCCGCAGCCGCAATAATTA 60.818 50.000 8.51 0.00 41.25 1.40
2249 2525 0.030101 GCCGCAGCCGCAATAATTAA 59.970 50.000 0.27 0.00 38.40 1.40
2250 2526 1.335872 GCCGCAGCCGCAATAATTAAT 60.336 47.619 0.27 0.00 38.40 1.40
2253 2529 3.425193 CCGCAGCCGCAATAATTAATTTC 59.575 43.478 5.91 0.00 38.40 2.17
2277 2554 2.006772 GCGATTCTGTCCGCGATTT 58.993 52.632 8.23 0.00 42.02 2.17
2278 2555 0.373716 GCGATTCTGTCCGCGATTTT 59.626 50.000 8.23 0.00 42.02 1.82
2321 2602 2.627515 TGATCTGCCCATGTTCTAGC 57.372 50.000 0.00 0.00 0.00 3.42
2342 2623 4.082026 AGCAGGCTCAAATTATTGGTGTTC 60.082 41.667 0.00 0.00 37.15 3.18
2353 2634 0.996762 TTGGTGTTCCCAGTTCCCCT 60.997 55.000 0.00 0.00 46.31 4.79
2359 2641 3.053619 GTGTTCCCAGTTCCCCTGATAAT 60.054 47.826 0.00 0.00 44.49 1.28
2361 2643 4.791334 TGTTCCCAGTTCCCCTGATAATAA 59.209 41.667 0.00 0.00 44.49 1.40
2362 2644 5.254267 TGTTCCCAGTTCCCCTGATAATAAA 59.746 40.000 0.00 0.00 44.49 1.40
2363 2645 6.068498 TGTTCCCAGTTCCCCTGATAATAAAT 60.068 38.462 0.00 0.00 44.49 1.40
2365 2647 7.715267 TCCCAGTTCCCCTGATAATAAATTA 57.285 36.000 0.00 0.00 44.49 1.40
2367 2649 8.742437 TCCCAGTTCCCCTGATAATAAATTATT 58.258 33.333 3.56 3.56 44.49 1.40
2389 2690 2.871096 TTACATGGTTCCCAGTCACC 57.129 50.000 0.00 0.00 36.75 4.02
2463 2764 3.589654 TTTCACTGCCTCGCCGGAG 62.590 63.158 5.05 0.00 40.14 4.63
2477 2778 0.872388 CCGGAGAAAACTTTGACCCG 59.128 55.000 0.00 0.00 35.68 5.28
2478 2779 1.589803 CGGAGAAAACTTTGACCCGT 58.410 50.000 0.00 0.00 0.00 5.28
2479 2780 2.548493 CCGGAGAAAACTTTGACCCGTA 60.548 50.000 0.00 0.00 34.25 4.02
2525 2836 1.970092 ACGACGAGGAGGGATAAGAG 58.030 55.000 0.00 0.00 0.00 2.85
2526 2837 0.594110 CGACGAGGAGGGATAAGAGC 59.406 60.000 0.00 0.00 0.00 4.09
2534 2845 1.301322 GGGATAAGAGCAGCTCCGC 60.301 63.158 19.40 8.15 0.00 5.54
2550 2861 1.509787 CGCGTGCGTCCAATCTTTG 60.510 57.895 6.00 0.00 34.35 2.77
2577 2888 4.204891 CGATCCAAACGCGTCGCC 62.205 66.667 14.44 0.00 0.00 5.54
2645 2961 1.449601 GCTTGCTTCCGGGAATCGA 60.450 57.895 10.44 5.12 42.43 3.59
2656 2972 1.412710 CGGGAATCGAAATCCTCCTCA 59.587 52.381 17.27 0.00 42.43 3.86
2666 2982 5.010516 TCGAAATCCTCCTCATCATCTTCTC 59.989 44.000 0.00 0.00 0.00 2.87
2668 2984 3.989600 TCCTCCTCATCATCTTCTCCT 57.010 47.619 0.00 0.00 0.00 3.69
2669 2985 3.843422 TCCTCCTCATCATCTTCTCCTC 58.157 50.000 0.00 0.00 0.00 3.71
2670 2986 3.466723 TCCTCCTCATCATCTTCTCCTCT 59.533 47.826 0.00 0.00 0.00 3.69
2671 2987 3.828451 CCTCCTCATCATCTTCTCCTCTC 59.172 52.174 0.00 0.00 0.00 3.20
2688 3004 2.111613 CTCTCCCCCATATCTCCTGTCT 59.888 54.545 0.00 0.00 0.00 3.41
2697 3013 2.230189 ATCTCCTGTCTCCCTCCGCA 62.230 60.000 0.00 0.00 0.00 5.69
2743 3059 2.743752 CGACGCATGTCCCTGCTTG 61.744 63.158 0.00 0.00 42.37 4.01
2744 3060 3.044059 GACGCATGTCCCTGCTTGC 62.044 63.158 0.00 0.00 40.06 4.01
2746 3062 3.058160 GCATGTCCCTGCTTGCGT 61.058 61.111 0.00 0.00 39.12 5.24
2747 3063 2.629656 GCATGTCCCTGCTTGCGTT 61.630 57.895 0.00 0.00 39.12 4.84
2748 3064 1.210931 CATGTCCCTGCTTGCGTTG 59.789 57.895 0.00 0.00 0.00 4.10
2767 3083 3.033764 GCGTCGCGTCCTTGTTCA 61.034 61.111 5.77 0.00 0.00 3.18
2770 3086 0.093026 CGTCGCGTCCTTGTTCATTC 59.907 55.000 5.77 0.00 0.00 2.67
2771 3087 1.429463 GTCGCGTCCTTGTTCATTCT 58.571 50.000 5.77 0.00 0.00 2.40
2772 3088 1.798813 GTCGCGTCCTTGTTCATTCTT 59.201 47.619 5.77 0.00 0.00 2.52
2773 3089 1.798223 TCGCGTCCTTGTTCATTCTTG 59.202 47.619 5.77 0.00 0.00 3.02
2774 3090 1.798223 CGCGTCCTTGTTCATTCTTGA 59.202 47.619 0.00 0.00 0.00 3.02
2870 3192 4.680237 CGGCACCGTGCTCCTTCA 62.680 66.667 22.41 0.00 44.28 3.02
2988 3310 1.796355 CTCACCGTCGCAGTACGTG 60.796 63.158 0.00 0.00 44.19 4.49
3040 3386 0.736053 TGCCACAAAGTTTCGTGTCC 59.264 50.000 13.52 7.63 0.00 4.02
3042 3388 1.011333 CCACAAAGTTTCGTGTCCGT 58.989 50.000 13.52 0.00 35.01 4.69
3075 3424 0.521659 CAACCGTGCGTGTTCGTTTT 60.522 50.000 0.00 0.00 39.49 2.43
3180 3533 1.079127 CCGACTTCGTCATGCCCTT 60.079 57.895 0.00 0.00 37.74 3.95
3227 3580 2.674220 CCCCTCTCCCTCAAGGTGC 61.674 68.421 0.00 0.00 36.75 5.01
3234 3587 1.005215 CTCCCTCAAGGTGCTCCATTT 59.995 52.381 7.70 0.00 36.75 2.32
3236 3589 2.647299 TCCCTCAAGGTGCTCCATTTTA 59.353 45.455 7.70 0.00 36.75 1.52
3237 3590 2.755103 CCCTCAAGGTGCTCCATTTTAC 59.245 50.000 7.70 0.00 35.89 2.01
3238 3591 3.562176 CCCTCAAGGTGCTCCATTTTACT 60.562 47.826 7.70 0.00 35.89 2.24
3239 3592 3.691609 CCTCAAGGTGCTCCATTTTACTC 59.308 47.826 7.70 0.00 35.89 2.59
3240 3593 4.566488 CCTCAAGGTGCTCCATTTTACTCT 60.566 45.833 7.70 0.00 35.89 3.24
3241 3594 4.579869 TCAAGGTGCTCCATTTTACTCTC 58.420 43.478 7.70 0.00 35.89 3.20
3242 3595 4.041567 TCAAGGTGCTCCATTTTACTCTCA 59.958 41.667 7.70 0.00 35.89 3.27
3244 3597 5.184892 AGGTGCTCCATTTTACTCTCAAT 57.815 39.130 7.70 0.00 35.89 2.57
3245 3598 5.574188 AGGTGCTCCATTTTACTCTCAATT 58.426 37.500 7.70 0.00 35.89 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.982130 CCTAGGTCAAGCGGTGCT 59.018 61.111 0.00 0.00 42.56 4.40
1 2 2.820037 GCCTAGGTCAAGCGGTGC 60.820 66.667 11.31 0.00 0.00 5.01
2 3 2.125106 GGCCTAGGTCAAGCGGTG 60.125 66.667 9.01 0.00 0.00 4.94
3 4 3.771160 CGGCCTAGGTCAAGCGGT 61.771 66.667 15.12 0.00 0.00 5.68
6 7 4.858680 GGGCGGCCTAGGTCAAGC 62.859 72.222 22.87 9.55 0.00 4.01
7 8 3.083997 AGGGCGGCCTAGGTCAAG 61.084 66.667 31.90 0.00 0.00 3.02
8 9 3.399181 CAGGGCGGCCTAGGTCAA 61.399 66.667 32.31 0.00 0.00 3.18
9 10 3.916438 TTCAGGGCGGCCTAGGTCA 62.916 63.158 32.31 9.94 0.00 4.02
10 11 3.081409 TTCAGGGCGGCCTAGGTC 61.081 66.667 32.31 7.06 0.00 3.85
11 12 3.083997 CTTCAGGGCGGCCTAGGT 61.084 66.667 32.31 5.79 0.00 3.08
12 13 3.083997 ACTTCAGGGCGGCCTAGG 61.084 66.667 32.31 23.63 0.00 3.02
13 14 2.501610 GACTTCAGGGCGGCCTAG 59.498 66.667 32.31 26.81 0.00 3.02
14 15 3.081409 GGACTTCAGGGCGGCCTA 61.081 66.667 32.31 15.89 0.00 3.93
28 29 3.878699 TCGGAAAACTGTACAAAAGGGAC 59.121 43.478 0.00 0.00 0.00 4.46
45 46 3.296836 TCGGCGTCCTTGTCGGAA 61.297 61.111 6.85 0.00 45.32 4.30
101 103 0.319405 GCTCCAAAACTGCCAGCAAT 59.681 50.000 0.00 0.00 0.00 3.56
150 153 8.538701 ACATCATCTCTTCTCAAGACAACTTAT 58.461 33.333 0.00 0.00 34.70 1.73
173 176 6.237942 CGACTTCAGCTATCGAAATTTCACAT 60.238 38.462 17.99 11.06 38.10 3.21
174 177 5.062183 CGACTTCAGCTATCGAAATTTCACA 59.938 40.000 17.99 4.26 38.10 3.58
175 178 5.484958 CGACTTCAGCTATCGAAATTTCAC 58.515 41.667 17.99 2.16 38.10 3.18
201 209 1.135689 GCCGACATTGCTTACACCAAG 60.136 52.381 0.00 0.00 37.31 3.61
205 213 1.535462 ACAAGCCGACATTGCTTACAC 59.465 47.619 0.00 0.00 46.85 2.90
238 249 5.065346 GCCTTCATTTCAAAGAGCTACCTAC 59.935 44.000 0.00 0.00 0.00 3.18
314 354 0.959372 CTGCCTCACTGCCTCCAAAG 60.959 60.000 0.00 0.00 0.00 2.77
385 425 6.338146 AGAAAATTGATCACGAGATAACCGA 58.662 36.000 0.00 0.00 33.72 4.69
419 459 3.315470 GCTACTGACACCATCACGAGATA 59.685 47.826 0.00 0.00 32.37 1.98
434 474 3.407424 AACAGATGCAACTGCTACTGA 57.593 42.857 22.56 0.00 42.45 3.41
483 528 4.935885 AAGACAATGAAGCGATCTCAAC 57.064 40.909 0.00 0.00 0.00 3.18
488 533 4.685169 TGGAAAAGACAATGAAGCGATC 57.315 40.909 0.00 0.00 0.00 3.69
500 545 6.565234 TGAGACTTCGATCTATGGAAAAGAC 58.435 40.000 6.33 1.78 0.00 3.01
504 549 5.652452 TGACTGAGACTTCGATCTATGGAAA 59.348 40.000 0.00 0.00 0.00 3.13
505 550 5.193679 TGACTGAGACTTCGATCTATGGAA 58.806 41.667 0.00 0.00 0.00 3.53
506 551 4.781934 TGACTGAGACTTCGATCTATGGA 58.218 43.478 0.00 0.00 0.00 3.41
508 553 5.970612 CACTTGACTGAGACTTCGATCTATG 59.029 44.000 0.00 0.00 0.00 2.23
509 554 5.883115 TCACTTGACTGAGACTTCGATCTAT 59.117 40.000 0.00 0.00 0.00 1.98
510 555 5.122554 GTCACTTGACTGAGACTTCGATCTA 59.877 44.000 1.92 0.00 41.65 1.98
511 556 4.075682 TCACTTGACTGAGACTTCGATCT 58.924 43.478 0.00 0.00 0.00 2.75
512 557 4.162812 GTCACTTGACTGAGACTTCGATC 58.837 47.826 1.92 0.00 41.65 3.69
513 558 4.167554 GTCACTTGACTGAGACTTCGAT 57.832 45.455 1.92 0.00 41.65 3.59
514 559 3.627732 GTCACTTGACTGAGACTTCGA 57.372 47.619 1.92 0.00 41.65 3.71
595 654 8.129840 GCTAAATCTCAGTCTTAGTCGATGTAA 58.870 37.037 0.00 0.00 0.00 2.41
598 657 6.499172 TGCTAAATCTCAGTCTTAGTCGATG 58.501 40.000 0.00 0.00 0.00 3.84
601 660 7.388290 GATTGCTAAATCTCAGTCTTAGTCG 57.612 40.000 0.00 0.00 39.36 4.18
647 720 9.695155 CCTAATTTACTGAATTCCCCTAAAAGA 57.305 33.333 2.27 0.00 38.80 2.52
648 721 9.475620 ACCTAATTTACTGAATTCCCCTAAAAG 57.524 33.333 2.27 0.00 38.80 2.27
688 772 8.465201 CAAGGAAAAATAGGAAGGAAATCTCAG 58.535 37.037 0.00 0.00 0.00 3.35
690 774 8.462811 GTCAAGGAAAAATAGGAAGGAAATCTC 58.537 37.037 0.00 0.00 0.00 2.75
694 787 5.048294 GCGTCAAGGAAAAATAGGAAGGAAA 60.048 40.000 0.00 0.00 0.00 3.13
710 803 2.781646 GACAAAAAGTTTCGCGTCAAGG 59.218 45.455 5.77 0.00 0.00 3.61
711 804 3.478516 CAGACAAAAAGTTTCGCGTCAAG 59.521 43.478 5.77 3.87 0.00 3.02
714 807 2.372350 CCAGACAAAAAGTTTCGCGTC 58.628 47.619 5.77 0.00 0.00 5.19
715 808 1.533129 GCCAGACAAAAAGTTTCGCGT 60.533 47.619 5.77 0.00 0.00 6.01
717 810 2.202295 TGCCAGACAAAAAGTTTCGC 57.798 45.000 0.00 0.00 0.00 4.70
742 851 1.195222 CGGGCTTTGATTGCTTTTTGC 59.805 47.619 0.00 0.00 43.25 3.68
750 859 2.179018 CGGTGCGGGCTTTGATTG 59.821 61.111 0.00 0.00 0.00 2.67
816 927 2.764314 GGTGGCTGCAACGGCTATG 61.764 63.158 0.50 0.00 41.91 2.23
839 950 3.078837 GGAGTTTAAAATGTGGAGGCGA 58.921 45.455 0.00 0.00 0.00 5.54
841 952 3.056821 GTGGGAGTTTAAAATGTGGAGGC 60.057 47.826 0.00 0.00 0.00 4.70
882 996 1.346360 TGGATGGGATGGATGGAGGAA 60.346 52.381 0.00 0.00 0.00 3.36
883 997 0.271619 TGGATGGGATGGATGGAGGA 59.728 55.000 0.00 0.00 0.00 3.71
884 998 1.379776 ATGGATGGGATGGATGGAGG 58.620 55.000 0.00 0.00 0.00 4.30
885 999 2.093288 CGTATGGATGGGATGGATGGAG 60.093 54.545 0.00 0.00 0.00 3.86
895 1009 2.666190 CTGCGGCGTATGGATGGG 60.666 66.667 9.37 0.00 0.00 4.00
918 1032 1.506025 GAGAGATTTGGAGGAGGGCT 58.494 55.000 0.00 0.00 0.00 5.19
938 1052 1.834822 CGAGATGGGGAGGGAGGAC 60.835 68.421 0.00 0.00 0.00 3.85
949 1063 0.955178 AGATGTAGACGCCGAGATGG 59.045 55.000 0.00 0.00 42.50 3.51
950 1064 1.068885 GGAGATGTAGACGCCGAGATG 60.069 57.143 0.00 0.00 0.00 2.90
963 1077 0.839277 TTGCCGATGGATGGAGATGT 59.161 50.000 0.00 0.00 0.00 3.06
968 1082 2.203056 CGCTTGCCGATGGATGGA 60.203 61.111 0.00 0.00 40.02 3.41
969 1083 2.203056 TCGCTTGCCGATGGATGG 60.203 61.111 0.00 0.00 41.89 3.51
976 1090 4.467084 GATGGGGTCGCTTGCCGA 62.467 66.667 0.00 0.00 45.15 5.54
987 1101 4.545076 GCCATGGGTGGGATGGGG 62.545 72.222 15.13 0.00 46.14 4.96
1120 1255 1.276145 GAGTTCTCGTCGTTGCGCTT 61.276 55.000 9.73 0.00 0.00 4.68
1362 1506 0.889306 AGAGGAGACGGAAAGGAACG 59.111 55.000 0.00 0.00 0.00 3.95
1369 1513 3.578716 AGACAAAATCAGAGGAGACGGAA 59.421 43.478 0.00 0.00 0.00 4.30
1372 1516 5.931441 AAAAGACAAAATCAGAGGAGACG 57.069 39.130 0.00 0.00 0.00 4.18
1392 1543 7.295201 CAGAACGGAATTCGACAGAAATTAAA 58.705 34.615 0.00 0.00 42.69 1.52
1443 1611 2.295885 CTTCTCCCTGCCAATCATCAC 58.704 52.381 0.00 0.00 0.00 3.06
1446 1614 1.064166 CACCTTCTCCCTGCCAATCAT 60.064 52.381 0.00 0.00 0.00 2.45
1478 1646 2.347731 GGGTTCTTCATCGTCTTCACC 58.652 52.381 0.00 0.00 0.00 4.02
1707 1875 5.520649 GGACGTAGGATTTAAGCTTCTTCAG 59.479 44.000 0.00 0.00 0.00 3.02
1811 1979 1.372087 GCTGCCTGGATTTGAGTCGG 61.372 60.000 0.00 0.00 0.00 4.79
1823 1991 1.880340 GATCGAGTTCCGCTGCCTG 60.880 63.158 0.00 0.00 38.37 4.85
1824 1992 2.055042 AGATCGAGTTCCGCTGCCT 61.055 57.895 0.00 0.00 38.37 4.75
1825 1993 1.880340 CAGATCGAGTTCCGCTGCC 60.880 63.158 0.00 0.00 38.37 4.85
1826 1994 1.142778 GACAGATCGAGTTCCGCTGC 61.143 60.000 0.00 0.00 38.37 5.25
1845 2017 3.531982 CTGCGTCAGTAAAACGAAACAG 58.468 45.455 0.00 0.00 42.62 3.16
1866 2038 1.869767 GCCAATCGACACATGATCTCC 59.130 52.381 0.00 0.00 0.00 3.71
1879 2051 1.811266 CTCCACGTCCTGCCAATCG 60.811 63.158 0.00 0.00 0.00 3.34
1880 2052 0.741221 GTCTCCACGTCCTGCCAATC 60.741 60.000 0.00 0.00 0.00 2.67
1942 2114 3.175240 CGGTCGTTCAGCAGCTCG 61.175 66.667 0.00 0.00 0.00 5.03
2042 2217 1.122227 ATCTTCTCCTGCTCCTGCTC 58.878 55.000 0.00 0.00 40.48 4.26
2043 2218 0.831966 CATCTTCTCCTGCTCCTGCT 59.168 55.000 0.00 0.00 40.48 4.24
2044 2219 0.179051 CCATCTTCTCCTGCTCCTGC 60.179 60.000 0.00 0.00 40.20 4.85
2045 2220 1.413445 CTCCATCTTCTCCTGCTCCTG 59.587 57.143 0.00 0.00 0.00 3.86
2046 2221 1.290431 TCTCCATCTTCTCCTGCTCCT 59.710 52.381 0.00 0.00 0.00 3.69
2047 2222 1.786937 TCTCCATCTTCTCCTGCTCC 58.213 55.000 0.00 0.00 0.00 4.70
2075 2250 0.906756 TTCACCTCCTCCTGCTCCTG 60.907 60.000 0.00 0.00 0.00 3.86
2110 2318 3.007398 ACAGCTCGTCCTTCTTCTTCATT 59.993 43.478 0.00 0.00 0.00 2.57
2111 2319 2.564947 ACAGCTCGTCCTTCTTCTTCAT 59.435 45.455 0.00 0.00 0.00 2.57
2112 2320 1.964223 ACAGCTCGTCCTTCTTCTTCA 59.036 47.619 0.00 0.00 0.00 3.02
2114 2322 2.029470 CAGACAGCTCGTCCTTCTTCTT 60.029 50.000 11.24 0.00 46.69 2.52
2146 2366 4.007644 CACAGGCTCTCCCACGCA 62.008 66.667 0.00 0.00 35.39 5.24
2200 2476 2.202610 TGCGAGACGATCTTGGCG 60.203 61.111 0.00 0.00 31.53 5.69
2233 2509 4.379793 CGAGAAATTAATTATTGCGGCTGC 59.620 41.667 11.65 11.65 43.20 5.25
2234 2510 5.510671 ACGAGAAATTAATTATTGCGGCTG 58.489 37.500 0.01 0.00 0.00 4.85
2235 2511 5.558273 CGACGAGAAATTAATTATTGCGGCT 60.558 40.000 0.01 0.00 0.00 5.52
2236 2512 4.607235 CGACGAGAAATTAATTATTGCGGC 59.393 41.667 0.01 5.00 0.00 6.53
2237 2513 4.607235 GCGACGAGAAATTAATTATTGCGG 59.393 41.667 0.01 0.00 0.00 5.69
2239 2515 5.428770 TCGCGACGAGAAATTAATTATTGC 58.571 37.500 3.71 0.87 0.00 3.56
2240 2516 8.004344 AGAATCGCGACGAGAAATTAATTATTG 58.996 33.333 12.93 0.58 39.91 1.90
2241 2517 8.004344 CAGAATCGCGACGAGAAATTAATTATT 58.996 33.333 12.93 0.00 39.91 1.40
2242 2518 7.169308 ACAGAATCGCGACGAGAAATTAATTAT 59.831 33.333 12.93 0.00 39.91 1.28
2243 2519 6.474427 ACAGAATCGCGACGAGAAATTAATTA 59.526 34.615 12.93 0.00 39.91 1.40
2244 2520 5.291128 ACAGAATCGCGACGAGAAATTAATT 59.709 36.000 12.93 0.00 39.91 1.40
2248 2524 2.599082 GACAGAATCGCGACGAGAAATT 59.401 45.455 12.93 0.00 39.91 1.82
2249 2525 2.186076 GACAGAATCGCGACGAGAAAT 58.814 47.619 12.93 0.00 39.91 2.17
2250 2526 1.614385 GACAGAATCGCGACGAGAAA 58.386 50.000 12.93 0.00 39.91 2.52
2253 2529 1.934956 CGGACAGAATCGCGACGAG 60.935 63.158 12.93 4.32 39.91 4.18
2277 2554 4.301628 CGAGATAGCATGCATCACTACAA 58.698 43.478 21.98 0.00 0.00 2.41
2278 2555 3.858503 GCGAGATAGCATGCATCACTACA 60.859 47.826 21.98 0.00 37.05 2.74
2321 2602 4.381932 GGGAACACCAATAATTTGAGCCTG 60.382 45.833 0.00 0.00 39.85 4.85
2383 2682 1.207329 GAAATGGCTACTCCGGTGACT 59.793 52.381 11.17 0.00 37.80 3.41
2389 2690 1.227556 CCGGGAAATGGCTACTCCG 60.228 63.158 0.00 0.00 37.80 4.63
2417 2718 4.183865 CTGAATTTCCTGAGCGACACATA 58.816 43.478 0.00 0.00 0.00 2.29
2463 2764 3.999001 CCTACCTACGGGTCAAAGTTTTC 59.001 47.826 0.00 0.00 45.98 2.29
2477 2778 1.732417 AAGCTACGCCGCCTACCTAC 61.732 60.000 0.00 0.00 0.00 3.18
2478 2779 1.450531 GAAGCTACGCCGCCTACCTA 61.451 60.000 0.00 0.00 0.00 3.08
2479 2780 2.758737 AAGCTACGCCGCCTACCT 60.759 61.111 0.00 0.00 0.00 3.08
2483 2784 3.447025 GATGGAAGCTACGCCGCCT 62.447 63.158 0.00 0.00 0.00 5.52
2484 2785 2.967615 GATGGAAGCTACGCCGCC 60.968 66.667 0.00 0.00 0.00 6.13
2485 2786 3.330853 CGATGGAAGCTACGCCGC 61.331 66.667 0.00 0.00 0.00 6.53
2486 2787 0.804544 TTTCGATGGAAGCTACGCCG 60.805 55.000 0.00 0.00 32.80 6.46
2534 2845 0.179215 GCTCAAAGATTGGACGCACG 60.179 55.000 0.00 0.00 0.00 5.34
2550 2861 1.092345 GTTTGGATCGGAGCTGGCTC 61.092 60.000 13.56 13.56 42.04 4.70
2577 2888 4.394078 TCGCTCGTTCACCGGACG 62.394 66.667 9.46 8.45 41.62 4.79
2587 2898 2.485582 CGTGGATCACTCGCTCGT 59.514 61.111 0.00 0.00 31.34 4.18
2592 2903 1.297967 CTCTCGCGTGGATCACTCG 60.298 63.158 5.77 4.34 42.77 4.18
2594 2905 0.960861 TCACTCTCGCGTGGATCACT 60.961 55.000 5.77 0.00 35.63 3.41
2645 2961 5.226015 AGGAGAAGATGATGAGGAGGATTT 58.774 41.667 0.00 0.00 0.00 2.17
2656 2972 1.582624 TGGGGGAGAGGAGAAGATGAT 59.417 52.381 0.00 0.00 0.00 2.45
2666 2982 1.150986 ACAGGAGATATGGGGGAGAGG 59.849 57.143 0.00 0.00 0.00 3.69
2668 2984 2.110899 GAGACAGGAGATATGGGGGAGA 59.889 54.545 0.00 0.00 0.00 3.71
2669 2985 2.534990 GAGACAGGAGATATGGGGGAG 58.465 57.143 0.00 0.00 0.00 4.30
2670 2986 1.150135 GGAGACAGGAGATATGGGGGA 59.850 57.143 0.00 0.00 0.00 4.81
2671 2987 1.650528 GGAGACAGGAGATATGGGGG 58.349 60.000 0.00 0.00 0.00 5.40
2688 3004 3.664025 CTGCGTGAATGCGGAGGGA 62.664 63.158 0.00 0.00 44.63 4.20
2732 3048 2.186160 CACAACGCAAGCAGGGACA 61.186 57.895 0.32 0.00 45.62 4.02
2746 3062 3.334751 CAAGGACGCGACGCACAA 61.335 61.111 21.35 0.00 0.00 3.33
2747 3063 4.578898 ACAAGGACGCGACGCACA 62.579 61.111 21.35 0.00 0.00 4.57
2748 3064 3.277742 GAACAAGGACGCGACGCAC 62.278 63.158 21.35 12.76 0.00 5.34
2756 3072 5.869753 AGAATCAAGAATGAACAAGGACG 57.130 39.130 0.00 0.00 39.49 4.79
2767 3083 4.202441 CCCGTCCATCAAGAATCAAGAAT 58.798 43.478 0.00 0.00 0.00 2.40
2770 3086 2.292267 CCCCGTCCATCAAGAATCAAG 58.708 52.381 0.00 0.00 0.00 3.02
2771 3087 1.064758 CCCCCGTCCATCAAGAATCAA 60.065 52.381 0.00 0.00 0.00 2.57
2772 3088 0.546122 CCCCCGTCCATCAAGAATCA 59.454 55.000 0.00 0.00 0.00 2.57
2773 3089 3.403936 CCCCCGTCCATCAAGAATC 57.596 57.895 0.00 0.00 0.00 2.52
2879 3201 4.284860 TGATCATCCGCCGCCTCG 62.285 66.667 0.00 0.00 0.00 4.63
2998 3320 0.393808 GAATTAAGCAGGCGGTGGGA 60.394 55.000 0.00 0.00 0.00 4.37
2999 3321 1.384222 GGAATTAAGCAGGCGGTGGG 61.384 60.000 0.00 0.00 0.00 4.61
3000 3322 0.394352 AGGAATTAAGCAGGCGGTGG 60.394 55.000 0.00 0.00 0.00 4.61
3002 3324 0.912486 AGAGGAATTAAGCAGGCGGT 59.088 50.000 0.00 0.00 0.00 5.68
3005 3327 1.028130 GGCAGAGGAATTAAGCAGGC 58.972 55.000 0.00 0.00 0.00 4.85
3040 3386 2.076863 GGTTGGAACTTGGATCAGACG 58.923 52.381 0.00 0.00 0.00 4.18
3042 3388 1.697432 ACGGTTGGAACTTGGATCAGA 59.303 47.619 0.00 0.00 0.00 3.27
3075 3424 0.542805 TATCATCAGCTGCAGCACCA 59.457 50.000 38.24 22.43 45.16 4.17
3180 3533 0.456221 GCCGACGATGAAGAGGAAGA 59.544 55.000 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.