Multiple sequence alignment - TraesCS1B01G058600

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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 TraesCS1B01G058600 chr1B 100.000 4956 0 0 1 4956 41089693 41084738 0.000000e+00 9153.0
1 TraesCS1B01G058600 chr1B 85.813 867 79 19 3625 4483 40943228 40942398 0.000000e+00 880.0
2 TraesCS1B01G058600 chr1B 80.093 1080 134 40 3437 4483 40962594 40961563 0.000000e+00 728.0
3 TraesCS1B01G058600 chr1B 88.649 370 31 5 2929 3289 40944001 40943634 1.640000e-119 440.0
4 TraesCS1B01G058600 chr1B 90.196 102 8 1 4606 4707 40942401 40942302 1.120000e-26 132.0
5 TraesCS1B01G058600 chr1B 98.305 59 1 0 3369 3427 40943619 40943561 2.440000e-18 104.0
6 TraesCS1B01G058600 chr1D 94.029 4505 163 60 52 4483 25733327 25728856 0.000000e+00 6732.0
7 TraesCS1B01G058600 chr1D 88.669 353 26 6 4606 4956 25720482 25720142 7.670000e-113 418.0
8 TraesCS1B01G058600 chr1D 88.669 353 26 4 4606 4956 25723264 25722924 7.670000e-113 418.0
9 TraesCS1B01G058600 chr1D 88.669 353 26 4 4606 4956 25726044 25725704 7.670000e-113 418.0
10 TraesCS1B01G058600 chr1D 94.071 253 15 0 4606 4858 25728859 25728607 7.780000e-103 385.0
11 TraesCS1B01G058600 chr1D 89.412 85 9 0 3931 4015 25675772 25675688 1.890000e-19 108.0
12 TraesCS1B01G058600 chr1A 92.690 3338 176 40 52 3342 26963361 26960045 0.000000e+00 4750.0
13 TraesCS1B01G058600 chr1A 91.218 854 42 15 3633 4483 26959653 26958830 0.000000e+00 1131.0
14 TraesCS1B01G058600 chr1A 85.599 868 70 21 3625 4483 26931517 26930696 0.000000e+00 859.0
15 TraesCS1B01G058600 chr1A 86.720 753 68 15 3625 4367 26195517 26194787 0.000000e+00 808.0
16 TraesCS1B01G058600 chr1A 89.577 355 28 5 4606 4956 26958833 26958484 4.550000e-120 442.0
17 TraesCS1B01G058600 chr1A 86.612 366 37 10 2929 3289 26932281 26931923 1.290000e-105 394.0
18 TraesCS1B01G058600 chr1A 87.240 337 34 5 4153 4483 26936360 26936027 4.680000e-100 375.0
19 TraesCS1B01G058600 chr1A 94.286 70 3 1 3360 3428 26960055 26959986 6.790000e-19 106.0
20 TraesCS1B01G058600 chr1A 94.915 59 3 0 3369 3427 26931908 26931850 5.280000e-15 93.5
21 TraesCS1B01G058600 chr3B 85.146 478 35 15 4007 4483 697145744 697145302 1.630000e-124 457.0
22 TraesCS1B01G058600 chr3B 93.103 145 8 2 4480 4624 106972584 106972726 1.400000e-50 211.0
23 TraesCS1B01G058600 chr3B 85.366 205 18 10 3787 3990 697146938 697146745 8.410000e-48 202.0
24 TraesCS1B01G058600 chr3B 88.889 126 11 3 3128 3251 697147618 697147494 8.590000e-33 152.0
25 TraesCS1B01G058600 chr4B 96.269 134 3 2 4475 4607 131706962 131706830 8.350000e-53 219.0
26 TraesCS1B01G058600 chr4B 96.183 131 4 1 4479 4609 82019249 82019120 3.890000e-51 213.0
27 TraesCS1B01G058600 chr4A 94.245 139 6 2 4473 4611 16485465 16485601 1.400000e-50 211.0
28 TraesCS1B01G058600 chr6B 94.815 135 6 1 4479 4613 18270633 18270500 5.030000e-50 209.0
29 TraesCS1B01G058600 chr6B 93.617 141 6 3 4480 4619 172239757 172239619 1.810000e-49 207.0
30 TraesCS1B01G058600 chr5B 91.503 153 10 3 4468 4618 96879082 96878931 1.810000e-49 207.0
31 TraesCS1B01G058600 chr5B 92.517 147 7 4 4472 4616 354511668 354511524 1.810000e-49 207.0
32 TraesCS1B01G058600 chr5B 98.039 51 1 0 1 51 269950916 269950866 6.830000e-14 89.8
33 TraesCS1B01G058600 chr6D 90.789 152 10 4 4480 4629 381531131 381530982 3.030000e-47 200.0
34 TraesCS1B01G058600 chr3A 96.078 51 2 0 1 51 176053769 176053719 3.180000e-12 84.2
35 TraesCS1B01G058600 chr2B 94.000 50 3 0 1 50 637774973 637774924 5.320000e-10 76.8


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 TraesCS1B01G058600 chr1B 41084738 41089693 4955 True 9153.000000 9153 100.00000 1 4956 1 chr1B.!!$R2 4955
1 TraesCS1B01G058600 chr1B 40961563 40962594 1031 True 728.000000 728 80.09300 3437 4483 1 chr1B.!!$R1 1046
2 TraesCS1B01G058600 chr1B 40942302 40944001 1699 True 389.000000 880 90.74075 2929 4707 4 chr1B.!!$R3 1778
3 TraesCS1B01G058600 chr1D 25720142 25733327 13185 True 1674.200000 6732 90.82140 52 4956 5 chr1D.!!$R2 4904
4 TraesCS1B01G058600 chr1A 26958484 26963361 4877 True 1607.250000 4750 91.94275 52 4956 4 chr1A.!!$R3 4904
5 TraesCS1B01G058600 chr1A 26194787 26195517 730 True 808.000000 808 86.72000 3625 4367 1 chr1A.!!$R1 742
6 TraesCS1B01G058600 chr1A 26930696 26936360 5664 True 430.375000 859 88.59150 2929 4483 4 chr1A.!!$R2 1554
7 TraesCS1B01G058600 chr3B 697145302 697147618 2316 True 270.333333 457 86.46700 3128 4483 3 chr3B.!!$R1 1355

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
178 179 0.253610 TTTCCGAACACACACACCCT 59.746 50.0 0.0 0.0 0.00 4.34 F
750 764 0.846870 CCTCCTTCCACCTTCCCCTT 60.847 60.0 0.0 0.0 0.00 3.95 F
1873 1919 0.760567 TCACTCGCCCTATGCTCCAT 60.761 55.0 0.0 0.0 38.05 3.41 F
2538 2584 0.108138 CACCTTCAACTAGCTCCCCG 60.108 60.0 0.0 0.0 0.00 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1716 1762 0.310854 CGGCCTTCACAAACTGGAAC 59.689 55.0 0.00 0.0 0.00 3.62 R
2538 2584 0.586802 GTGAAAGACCAAGTGACGGC 59.413 55.0 0.00 0.0 0.00 5.68 R
2868 2914 0.590195 CTGAGTTGCTGTCAGTTGCC 59.410 55.0 0.93 0.0 37.29 4.52 R
4163 6506 2.136298 TGACACAAGCAAGTTTGGGA 57.864 45.0 5.90 0.0 35.04 4.37 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
36 37 2.681064 CCCAGGTTGGCACCCATG 60.681 66.667 3.15 0.00 45.63 3.66
37 38 2.440147 CCAGGTTGGCACCCATGA 59.560 61.111 3.15 0.00 45.63 3.07
38 39 1.228831 CCAGGTTGGCACCCATGAA 60.229 57.895 3.15 0.00 45.63 2.57
39 40 1.252904 CCAGGTTGGCACCCATGAAG 61.253 60.000 3.15 0.00 45.63 3.02
40 41 1.607467 AGGTTGGCACCCATGAAGC 60.607 57.895 3.15 0.00 45.63 3.86
41 42 1.607467 GGTTGGCACCCATGAAGCT 60.607 57.895 0.00 0.00 37.03 3.74
43 44 1.304381 TTGGCACCCATGAAGCTCC 60.304 57.895 0.00 0.00 31.53 4.70
45 46 3.512516 GCACCCATGAAGCTCCGC 61.513 66.667 0.00 0.00 0.00 5.54
46 47 2.825836 CACCCATGAAGCTCCGCC 60.826 66.667 0.00 0.00 0.00 6.13
48 49 2.825836 CCCATGAAGCTCCGCCAC 60.826 66.667 0.00 0.00 0.00 5.01
49 50 2.270205 CCATGAAGCTCCGCCACT 59.730 61.111 0.00 0.00 0.00 4.00
78 79 1.667724 CCATGTGAGGTCTTTGATCGC 59.332 52.381 0.00 0.00 0.00 4.58
144 145 8.794406 CATAACGTGGCAATACTTAATTTTGTC 58.206 33.333 0.00 0.00 0.00 3.18
167 168 3.316868 TGTTTTCATCCTGGTTTCCGAAC 59.683 43.478 0.00 0.00 34.96 3.95
174 175 1.374560 CTGGTTTCCGAACACACACA 58.625 50.000 0.00 0.00 37.51 3.72
178 179 0.253610 TTTCCGAACACACACACCCT 59.746 50.000 0.00 0.00 0.00 4.34
223 224 0.921347 CCAAATAACTCGAGTCGGCG 59.079 55.000 20.33 0.00 0.00 6.46
276 278 1.476488 CGCCCTTTCATCCCGATTTTT 59.524 47.619 0.00 0.00 0.00 1.94
280 282 2.529151 CTTTCATCCCGATTTTTGGCG 58.471 47.619 0.00 0.00 0.00 5.69
363 365 2.841215 TCCCGATTTATGGCTTTACGG 58.159 47.619 0.00 0.00 38.83 4.02
367 369 3.066203 CCGATTTATGGCTTTACGGCTTT 59.934 43.478 0.00 0.00 39.32 3.51
381 383 3.285484 ACGGCTTTCTCTCCTAATACGA 58.715 45.455 0.00 0.00 0.00 3.43
384 386 4.023107 CGGCTTTCTCTCCTAATACGATGA 60.023 45.833 0.00 0.00 0.00 2.92
415 429 1.150827 GTCCGTTTCGACCCGATTTT 58.849 50.000 4.58 0.00 35.23 1.82
564 578 1.602605 CAACTTGTCCCGTTCCCCC 60.603 63.158 0.00 0.00 0.00 5.40
595 609 2.251642 GCCAGTCAACACGACCACC 61.252 63.158 0.00 0.00 46.69 4.61
648 662 2.045634 ACCGTCCGATCGTCTCCA 60.046 61.111 15.09 0.00 0.00 3.86
661 675 2.278206 CTCCACGCACGGATCTCG 60.278 66.667 0.00 0.00 45.88 4.04
728 742 1.153469 CTGGCCTTCTTCTCTCGCC 60.153 63.158 3.32 0.00 40.16 5.54
729 743 2.188207 GGCCTTCTTCTCTCGCCC 59.812 66.667 0.00 0.00 33.30 6.13
730 744 2.363172 GGCCTTCTTCTCTCGCCCT 61.363 63.158 0.00 0.00 33.30 5.19
750 764 0.846870 CCTCCTTCCACCTTCCCCTT 60.847 60.000 0.00 0.00 0.00 3.95
758 772 3.408853 CCTTCCCCTTCCGTCCCC 61.409 72.222 0.00 0.00 0.00 4.81
759 773 2.285442 CTTCCCCTTCCGTCCCCT 60.285 66.667 0.00 0.00 0.00 4.79
763 777 4.416601 CCCTTCCGTCCCCTCCCT 62.417 72.222 0.00 0.00 0.00 4.20
764 778 2.285442 CCTTCCGTCCCCTCCCTT 60.285 66.667 0.00 0.00 0.00 3.95
804 834 2.485188 GATCTCCCGATCTGCTCGCC 62.485 65.000 0.00 0.00 46.25 5.54
883 914 2.418746 CCTGGATCAGGTACGGTTTCTG 60.419 54.545 5.82 4.65 45.82 3.02
938 977 1.272704 GGAGGGATGGGGAATAATGGC 60.273 57.143 0.00 0.00 0.00 4.40
1143 1183 4.760047 CTCACCCCGCGGTCCAAG 62.760 72.222 26.12 12.28 42.04 3.61
1713 1759 1.608717 AAGGGCAGAGCTTCGACGAT 61.609 55.000 0.00 0.00 0.00 3.73
1716 1762 2.854214 GCAGAGCTTCGACGATGCG 61.854 63.158 24.53 14.74 37.70 4.73
1812 1858 2.755064 CGGGTGCATGCCATTCCA 60.755 61.111 16.68 0.00 0.00 3.53
1813 1859 2.129146 CGGGTGCATGCCATTCCAT 61.129 57.895 16.68 0.00 0.00 3.41
1873 1919 0.760567 TCACTCGCCCTATGCTCCAT 60.761 55.000 0.00 0.00 38.05 3.41
1899 1945 2.819608 TCTAGTGCCCAAAATGCTGAAC 59.180 45.455 0.00 0.00 0.00 3.18
1986 2032 3.737850 TGTTTGGGTTGGAATCAAATGC 58.262 40.909 0.00 0.00 34.28 3.56
2169 2215 1.945387 GCAAGGAGCAGATCGATTCA 58.055 50.000 0.00 0.00 44.79 2.57
2484 2530 6.591062 GCTCTCTATCATCAGATTCAACCATC 59.409 42.308 0.00 0.00 35.67 3.51
2538 2584 0.108138 CACCTTCAACTAGCTCCCCG 60.108 60.000 0.00 0.00 0.00 5.73
2580 2626 4.098960 CCTGCTTCATCTAATTTGCCACAT 59.901 41.667 0.00 0.00 0.00 3.21
2700 2746 6.493115 TCTCATCTATAGCAGAAAGAAGAGGG 59.507 42.308 0.00 0.00 36.32 4.30
2789 2835 3.777106 TCACAAAGCAGAGGAAGTCAT 57.223 42.857 0.00 0.00 0.00 3.06
2844 2890 0.954452 CTGGTGTTTCTTGCCCAGAC 59.046 55.000 0.00 0.00 45.97 3.51
2868 2914 1.862201 TGCACCGAAACTAGTTCAACG 59.138 47.619 8.95 14.19 35.83 4.10
2897 2943 0.248843 AGCAACTCAGAGGCTACTGC 59.751 55.000 1.53 2.88 35.82 4.40
2914 2960 1.144057 GCCCACGGTGAGACCATAG 59.856 63.158 10.28 0.00 38.47 2.23
2938 4090 8.526667 AGTAATTGAGCATACTAACTCAGAGA 57.473 34.615 3.79 0.00 43.43 3.10
3088 4247 4.069304 AGAAGCAGTTAAAACGGTATGCA 58.931 39.130 0.00 0.00 36.15 3.96
3114 4273 3.244249 GGGTAGGAGGTGAATATGAGTGC 60.244 52.174 0.00 0.00 0.00 4.40
3171 4330 7.288810 AGTTGCTGGTGATTTTCTTAATCAA 57.711 32.000 2.06 0.00 38.27 2.57
3208 4367 2.895404 ACTCTTCCTGTTAAGGTGCGTA 59.105 45.455 0.00 0.00 44.82 4.42
3225 4392 6.921857 AGGTGCGTACATACTATACACATTTC 59.078 38.462 5.86 0.00 0.00 2.17
3251 4418 2.875296 TGTATTCTGGCCTGCTTGTTT 58.125 42.857 3.32 0.00 0.00 2.83
3284 4452 6.072175 TGTTTAGGTGCCACTTGATATTTGTC 60.072 38.462 0.00 0.00 0.00 3.18
3289 4457 6.095440 AGGTGCCACTTGATATTTGTCAATAC 59.905 38.462 0.00 0.00 37.47 1.89
3353 4524 3.904136 AGATGACTGCCAAACTTTTCG 57.096 42.857 0.00 0.00 0.00 3.46
3356 4527 1.202245 TGACTGCCAAACTTTTCGCAC 60.202 47.619 0.00 0.00 31.20 5.34
3358 4529 1.202290 ACTGCCAAACTTTTCGCACAG 60.202 47.619 0.00 0.00 31.20 3.66
3539 4811 5.471556 AATCATGTCATGGCACTTTGAAA 57.528 34.783 12.90 0.00 0.00 2.69
3622 4895 9.186837 CTCTTGGTAACTGGTAATACTTCTAGA 57.813 37.037 0.00 0.00 37.61 2.43
3623 4896 9.537852 TCTTGGTAACTGGTAATACTTCTAGAA 57.462 33.333 4.81 4.81 37.61 2.10
3667 4978 7.382898 AGCCAAACTGTTTTTCTTTCTGTAAA 58.617 30.769 2.41 0.00 0.00 2.01
3691 5002 6.474140 ACGAATACACCATGGTAATGACTA 57.526 37.500 19.28 0.78 35.67 2.59
3846 5178 0.166814 CAGTTTACTTCCGCAGCTGC 59.833 55.000 29.12 29.12 37.78 5.25
3873 5205 8.662781 ATGTGTAATTAGCAGGTATACACTTG 57.337 34.615 18.10 1.37 44.07 3.16
3887 5224 6.315393 GGTATACACTTGTAACCCTGTTGATG 59.685 42.308 5.01 0.00 33.76 3.07
4186 6529 3.370672 CCCAAACTTGCTTGTGTCAAAAC 59.629 43.478 0.00 0.00 0.00 2.43
4249 6597 1.247567 CAGAGATTGGGTTTTGGCGT 58.752 50.000 0.00 0.00 0.00 5.68
4252 6600 3.081804 AGAGATTGGGTTTTGGCGTAAG 58.918 45.455 0.00 0.00 43.44 2.34
4403 6756 3.246619 CGTCTCTGCTGGTCTTAACTTC 58.753 50.000 0.00 0.00 0.00 3.01
4411 6764 5.305585 TGCTGGTCTTAACTTCTTAACCTG 58.694 41.667 0.00 0.00 0.00 4.00
4416 6769 6.100714 TGGTCTTAACTTCTTAACCTGGAACT 59.899 38.462 0.00 0.00 0.00 3.01
4441 6794 1.471119 ATTTGCTGTCCTGCTCATGG 58.529 50.000 0.00 0.00 0.00 3.66
4452 6805 1.528586 CTGCTCATGGCGTATTAGCAC 59.471 52.381 6.50 0.00 40.22 4.40
4483 6837 7.517614 TCAGACTCTGGTCATATTCATACTC 57.482 40.000 6.20 0.00 44.36 2.59
4484 6838 6.491745 TCAGACTCTGGTCATATTCATACTCC 59.508 42.308 6.20 0.00 44.36 3.85
4485 6839 5.777732 AGACTCTGGTCATATTCATACTCCC 59.222 44.000 0.00 0.00 44.36 4.30
4486 6840 5.721225 ACTCTGGTCATATTCATACTCCCT 58.279 41.667 0.00 0.00 0.00 4.20
4487 6841 5.777732 ACTCTGGTCATATTCATACTCCCTC 59.222 44.000 0.00 0.00 0.00 4.30
4488 6842 5.087323 TCTGGTCATATTCATACTCCCTCC 58.913 45.833 0.00 0.00 0.00 4.30
4489 6843 3.832490 TGGTCATATTCATACTCCCTCCG 59.168 47.826 0.00 0.00 0.00 4.63
4490 6844 3.833070 GGTCATATTCATACTCCCTCCGT 59.167 47.826 0.00 0.00 0.00 4.69
4491 6845 4.082136 GGTCATATTCATACTCCCTCCGTC 60.082 50.000 0.00 0.00 0.00 4.79
4492 6846 4.082136 GTCATATTCATACTCCCTCCGTCC 60.082 50.000 0.00 0.00 0.00 4.79
4493 6847 1.329256 ATTCATACTCCCTCCGTCCG 58.671 55.000 0.00 0.00 0.00 4.79
4494 6848 0.256752 TTCATACTCCCTCCGTCCGA 59.743 55.000 0.00 0.00 0.00 4.55
4495 6849 0.256752 TCATACTCCCTCCGTCCGAA 59.743 55.000 0.00 0.00 0.00 4.30
4496 6850 1.108776 CATACTCCCTCCGTCCGAAA 58.891 55.000 0.00 0.00 0.00 3.46
4497 6851 1.479323 CATACTCCCTCCGTCCGAAAA 59.521 52.381 0.00 0.00 0.00 2.29
4498 6852 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
4499 6853 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
4500 6854 2.395619 ACTCCCTCCGTCCGAAAATAT 58.604 47.619 0.00 0.00 0.00 1.28
4501 6855 2.770232 ACTCCCTCCGTCCGAAAATATT 59.230 45.455 0.00 0.00 0.00 1.28
4502 6856 3.199289 ACTCCCTCCGTCCGAAAATATTT 59.801 43.478 0.00 0.00 0.00 1.40
4503 6857 3.537580 TCCCTCCGTCCGAAAATATTTG 58.462 45.455 0.39 0.00 0.00 2.32
4504 6858 3.054948 TCCCTCCGTCCGAAAATATTTGT 60.055 43.478 0.39 0.00 0.00 2.83
4505 6859 3.311596 CCCTCCGTCCGAAAATATTTGTC 59.688 47.826 0.39 1.54 0.00 3.18
4506 6860 3.936453 CCTCCGTCCGAAAATATTTGTCA 59.064 43.478 0.39 0.00 0.00 3.58
4507 6861 4.574828 CCTCCGTCCGAAAATATTTGTCAT 59.425 41.667 0.39 0.00 0.00 3.06
4508 6862 5.277345 CCTCCGTCCGAAAATATTTGTCATC 60.277 44.000 0.39 0.00 0.00 2.92
4509 6863 5.179533 TCCGTCCGAAAATATTTGTCATCA 58.820 37.500 0.39 0.00 0.00 3.07
4510 6864 5.644206 TCCGTCCGAAAATATTTGTCATCAA 59.356 36.000 0.39 0.00 0.00 2.57
4511 6865 6.149640 TCCGTCCGAAAATATTTGTCATCAAA 59.850 34.615 0.39 0.00 45.71 2.69
4512 6866 6.804295 CCGTCCGAAAATATTTGTCATCAAAA 59.196 34.615 0.39 0.00 44.97 2.44
4513 6867 7.487829 CCGTCCGAAAATATTTGTCATCAAAAT 59.512 33.333 0.39 0.00 44.97 1.82
4514 6868 8.313227 CGTCCGAAAATATTTGTCATCAAAATG 58.687 33.333 0.39 0.00 44.97 2.32
4515 6869 8.594687 GTCCGAAAATATTTGTCATCAAAATGG 58.405 33.333 0.39 0.00 44.97 3.16
4516 6870 8.526978 TCCGAAAATATTTGTCATCAAAATGGA 58.473 29.630 0.39 0.00 44.97 3.41
4517 6871 8.594687 CCGAAAATATTTGTCATCAAAATGGAC 58.405 33.333 0.39 0.00 44.97 4.02
4518 6872 9.138062 CGAAAATATTTGTCATCAAAATGGACA 57.862 29.630 0.39 0.00 44.97 4.02
4562 6916 9.220767 GAACTAAAATACATCCAGATACATCCC 57.779 37.037 0.00 0.00 0.00 3.85
4563 6917 7.690256 ACTAAAATACATCCAGATACATCCCC 58.310 38.462 0.00 0.00 0.00 4.81
4564 6918 6.786843 AAAATACATCCAGATACATCCCCT 57.213 37.500 0.00 0.00 0.00 4.79
4565 6919 6.786843 AAATACATCCAGATACATCCCCTT 57.213 37.500 0.00 0.00 0.00 3.95
4566 6920 6.786843 AATACATCCAGATACATCCCCTTT 57.213 37.500 0.00 0.00 0.00 3.11
4567 6921 6.786843 ATACATCCAGATACATCCCCTTTT 57.213 37.500 0.00 0.00 0.00 2.27
4568 6922 7.888514 ATACATCCAGATACATCCCCTTTTA 57.111 36.000 0.00 0.00 0.00 1.52
4569 6923 6.786843 ACATCCAGATACATCCCCTTTTAT 57.213 37.500 0.00 0.00 0.00 1.40
4570 6924 7.166758 ACATCCAGATACATCCCCTTTTATT 57.833 36.000 0.00 0.00 0.00 1.40
4571 6925 7.234355 ACATCCAGATACATCCCCTTTTATTC 58.766 38.462 0.00 0.00 0.00 1.75
4572 6926 6.840090 TCCAGATACATCCCCTTTTATTCA 57.160 37.500 0.00 0.00 0.00 2.57
4573 6927 7.406620 TCCAGATACATCCCCTTTTATTCAT 57.593 36.000 0.00 0.00 0.00 2.57
4574 6928 7.825709 TCCAGATACATCCCCTTTTATTCATT 58.174 34.615 0.00 0.00 0.00 2.57
4575 6929 8.288812 TCCAGATACATCCCCTTTTATTCATTT 58.711 33.333 0.00 0.00 0.00 2.32
4576 6930 8.927411 CCAGATACATCCCCTTTTATTCATTTT 58.073 33.333 0.00 0.00 0.00 1.82
4577 6931 9.754382 CAGATACATCCCCTTTTATTCATTTTG 57.246 33.333 0.00 0.00 0.00 2.44
4578 6932 9.713684 AGATACATCCCCTTTTATTCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
4581 6935 8.378115 ACATCCCCTTTTATTCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
4582 6936 8.260114 ACATCCCCTTTTATTCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
4583 6937 7.789202 TCCCCTTTTATTCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
4584 6938 8.200024 TCCCCTTTTATTCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
4585 6939 8.313292 TCCCCTTTTATTCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
4586 6940 8.096414 CCCCTTTTATTCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
4593 6947 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
4594 6948 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
4595 6949 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
4596 6950 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
4597 6951 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
4598 6952 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
4599 6953 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
4600 6954 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
4601 6955 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
4602 6956 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
4603 6957 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
4604 6958 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
4605 6959 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
4606 6960 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
4607 6961 0.967380 TTTCCGGACGGAGGGAGTAC 60.967 60.000 13.64 0.00 46.06 2.73
4608 6962 1.856539 TTCCGGACGGAGGGAGTACT 61.857 60.000 13.64 0.00 46.06 2.73
4609 6963 0.982852 TCCGGACGGAGGGAGTACTA 60.983 60.000 9.76 0.00 39.76 1.82
4648 7002 4.962362 AGTTCCCAGTTTCCAAGAAATTGT 59.038 37.500 10.45 0.00 0.00 2.71
4720 7074 1.473258 AAGGAACACTTGCACAGCAA 58.527 45.000 4.22 4.22 46.80 3.91
4737 7091 2.872370 GCAATTGTGTGCTGATCCTTC 58.128 47.619 7.40 0.00 41.51 3.46
4744 7098 2.821969 GTGTGCTGATCCTTCCAATTGT 59.178 45.455 4.43 0.00 0.00 2.71
4745 7099 3.084039 TGTGCTGATCCTTCCAATTGTC 58.916 45.455 4.43 0.00 0.00 3.18
4816 7173 3.118542 GTTTGTGCTTTTCAGAAGCCTG 58.881 45.455 8.15 0.00 42.36 4.85
4832 7189 0.798776 CCTGCTTCTGCGTGGTAAAG 59.201 55.000 0.00 0.00 43.34 1.85
4835 7192 0.110192 GCTTCTGCGTGGTAAAGTGC 60.110 55.000 0.00 0.00 0.00 4.40
4894 12839 1.824230 AGCAAAGCAAACACTGGTTCA 59.176 42.857 0.00 0.00 45.00 3.18
4912 12857 8.793592 ACTGGTTCAGGAACATTTTTAGTATTC 58.206 33.333 13.62 0.00 42.85 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 2.681064 CATGGGTGCCAACCTGGG 60.681 66.667 0.00 0.00 46.70 4.45
21 22 1.880819 GCTTCATGGGTGCCAACCTG 61.881 60.000 0.00 0.00 46.70 4.00
22 23 1.607467 GCTTCATGGGTGCCAACCT 60.607 57.895 0.00 0.00 46.70 3.50
24 25 1.598701 GGAGCTTCATGGGTGCCAAC 61.599 60.000 0.00 0.00 36.95 3.77
25 26 1.304381 GGAGCTTCATGGGTGCCAA 60.304 57.895 0.00 0.00 36.95 4.52
27 28 2.825836 CGGAGCTTCATGGGTGCC 60.826 66.667 0.00 0.00 0.00 5.01
40 41 3.625897 TGTGGACCAGTGGCGGAG 61.626 66.667 9.78 0.00 0.00 4.63
41 42 3.936203 GTGTGGACCAGTGGCGGA 61.936 66.667 9.78 0.00 0.00 5.54
78 79 3.004734 GGAAAACACACATGGAGGTTCAG 59.995 47.826 0.00 0.00 0.00 3.02
144 145 3.146066 TCGGAAACCAGGATGAAAACAG 58.854 45.455 0.00 0.00 39.69 3.16
156 157 1.088306 GTGTGTGTGTTCGGAAACCA 58.912 50.000 0.00 0.00 34.28 3.67
167 168 3.703001 ATAGAAAGGAGGGTGTGTGTG 57.297 47.619 0.00 0.00 0.00 3.82
174 175 3.376555 CCCCCTAGAATAGAAAGGAGGGT 60.377 52.174 4.16 0.00 42.77 4.34
178 179 4.637288 TGTCCCCCTAGAATAGAAAGGA 57.363 45.455 0.00 0.00 42.77 3.36
227 228 1.675714 CGGTGAGATTAAGTGCTGGCA 60.676 52.381 0.00 0.00 0.00 4.92
280 282 2.065906 CTAGGAGAGGAAGGCGCGAC 62.066 65.000 12.10 7.34 0.00 5.19
363 365 5.688176 GTGTCATCGTATTAGGAGAGAAAGC 59.312 44.000 0.00 0.00 0.00 3.51
367 369 8.693120 ATTAAGTGTCATCGTATTAGGAGAGA 57.307 34.615 0.00 0.00 0.00 3.10
381 383 5.389098 CGAAACGGACGAAATTAAGTGTCAT 60.389 40.000 0.00 0.00 33.04 3.06
384 386 4.050553 TCGAAACGGACGAAATTAAGTGT 58.949 39.130 0.00 0.00 36.84 3.55
424 438 2.321719 CCTAGAGTAGAAAGGAGGGCC 58.678 57.143 0.00 0.00 31.64 5.80
471 485 0.450184 CGGGGAACGGCTAATTTGTG 59.550 55.000 0.00 0.00 39.42 3.33
624 638 1.586564 CGATCGGACGGTGAAGAGC 60.587 63.158 7.38 0.00 0.00 4.09
628 642 1.651240 GGAGACGATCGGACGGTGAA 61.651 60.000 20.98 0.00 37.61 3.18
648 662 4.194720 GCCTCGAGATCCGTGCGT 62.195 66.667 15.71 0.00 39.75 5.24
728 742 1.275421 GGGAAGGTGGAAGGAGGAGG 61.275 65.000 0.00 0.00 0.00 4.30
729 743 1.275421 GGGGAAGGTGGAAGGAGGAG 61.275 65.000 0.00 0.00 0.00 3.69
730 744 1.229853 GGGGAAGGTGGAAGGAGGA 60.230 63.158 0.00 0.00 0.00 3.71
750 764 4.410033 GGGAAGGGAGGGGACGGA 62.410 72.222 0.00 0.00 0.00 4.69
758 772 3.148279 CGGTCTCGGGGAAGGGAG 61.148 72.222 0.00 0.00 0.00 4.30
883 914 4.320129 CCAAAATTTCCCAAACAAATCCGC 60.320 41.667 0.00 0.00 0.00 5.54
938 977 4.040445 ACCAAACCACAAGATTCAAACG 57.960 40.909 0.00 0.00 0.00 3.60
1668 1714 3.058224 TCCACATCAGATACGCTATGACG 60.058 47.826 0.00 0.00 39.50 4.35
1681 1727 1.225704 GCCCTTCCCTCCACATCAG 59.774 63.158 0.00 0.00 0.00 2.90
1713 1759 1.021202 CCTTCACAAACTGGAACGCA 58.979 50.000 0.00 0.00 0.00 5.24
1716 1762 0.310854 CGGCCTTCACAAACTGGAAC 59.689 55.000 0.00 0.00 0.00 3.62
1860 1906 4.585070 TGCAATGGAGCATAGGGC 57.415 55.556 0.00 0.00 40.11 5.19
1986 2032 4.926238 GCATCCTTCTCCATTACTGTATCG 59.074 45.833 0.00 0.00 0.00 2.92
2094 2140 0.747852 TGGAAAAGGCGTCCCAAAAC 59.252 50.000 3.00 0.00 33.89 2.43
2184 2230 2.203788 ACTCTCCGGCTTCCCACA 60.204 61.111 0.00 0.00 0.00 4.17
2373 2419 4.906747 ATCCCTTATCAGAGCAGAATCC 57.093 45.455 0.00 0.00 0.00 3.01
2484 2530 6.019479 GTGAGTCTGAACTGTACTTTGAACTG 60.019 42.308 0.00 0.00 35.28 3.16
2538 2584 0.586802 GTGAAAGACCAAGTGACGGC 59.413 55.000 0.00 0.00 0.00 5.68
2580 2626 2.646930 CTAGATGATGGCACCAAAGCA 58.353 47.619 0.00 0.00 35.83 3.91
2789 2835 7.126573 TCACACCATTGGTATTAGTCTTATCCA 59.873 37.037 8.31 0.00 32.11 3.41
2844 2890 4.481930 TGAACTAGTTTCGGTGCATTTG 57.518 40.909 10.02 0.00 36.97 2.32
2868 2914 0.590195 CTGAGTTGCTGTCAGTTGCC 59.410 55.000 0.93 0.00 37.29 4.52
2897 2943 1.771565 TACTATGGTCTCACCGTGGG 58.228 55.000 0.00 0.00 42.58 4.61
2914 2960 7.650104 GGTCTCTGAGTTAGTATGCTCAATTAC 59.350 40.741 4.32 5.09 40.68 1.89
3088 4247 6.441924 CACTCATATTCACCTCCTACCCATAT 59.558 42.308 0.00 0.00 0.00 1.78
3114 4273 1.225855 TACTGTCAACGCCTTTGCTG 58.774 50.000 0.00 0.00 34.88 4.41
3171 4330 4.336280 GAAGAGTATTGCTGAACCCCTTT 58.664 43.478 0.00 0.00 0.00 3.11
3230 4397 2.584835 ACAAGCAGGCCAGAATACAA 57.415 45.000 5.01 0.00 0.00 2.41
3251 4418 5.492855 AGTGGCACCTAAACATACAAGTA 57.507 39.130 15.27 0.00 0.00 2.24
3284 4452 8.848182 AGTAGTTTTCTATCTCCTACGGTATTG 58.152 37.037 0.00 0.00 34.58 1.90
3289 4457 7.545489 ACAAAGTAGTTTTCTATCTCCTACGG 58.455 38.462 0.00 0.00 34.58 4.02
3317 4485 7.040686 GGCAGTCATCTAAAAACTAGGACAAAA 60.041 37.037 0.00 0.00 0.00 2.44
3321 4489 5.488341 TGGCAGTCATCTAAAAACTAGGAC 58.512 41.667 0.00 0.00 0.00 3.85
3323 4491 6.431234 AGTTTGGCAGTCATCTAAAAACTAGG 59.569 38.462 0.00 0.00 35.30 3.02
3324 4492 7.440523 AGTTTGGCAGTCATCTAAAAACTAG 57.559 36.000 0.00 0.00 35.30 2.57
3325 4493 7.817418 AAGTTTGGCAGTCATCTAAAAACTA 57.183 32.000 0.00 0.00 35.84 2.24
3326 4494 6.715347 AAGTTTGGCAGTCATCTAAAAACT 57.285 33.333 0.00 0.00 37.84 2.66
3327 4495 7.305993 CGAAAAGTTTGGCAGTCATCTAAAAAC 60.306 37.037 0.00 0.00 0.00 2.43
3328 4496 6.695278 CGAAAAGTTTGGCAGTCATCTAAAAA 59.305 34.615 0.00 0.00 0.00 1.94
3353 4524 7.010552 CACTAAATACAGGTCATCTAACTGTGC 59.989 40.741 5.97 0.00 44.48 4.57
3356 4527 8.251026 TGTCACTAAATACAGGTCATCTAACTG 58.749 37.037 0.00 0.00 38.19 3.16
3358 4529 8.870879 GTTGTCACTAAATACAGGTCATCTAAC 58.129 37.037 0.00 0.00 0.00 2.34
3493 4765 3.250744 CCTGTGTACAATCGTACCACAG 58.749 50.000 15.26 15.26 46.33 3.66
3622 4895 6.996509 TGGCTTTCTGATTCAGCTAATTTTT 58.003 32.000 8.89 0.00 33.76 1.94
3623 4896 6.594788 TGGCTTTCTGATTCAGCTAATTTT 57.405 33.333 8.89 0.00 33.76 1.82
3630 4941 3.005155 ACAGTTTGGCTTTCTGATTCAGC 59.995 43.478 8.89 0.00 33.93 4.26
3667 4978 5.741011 AGTCATTACCATGGTGTATTCGTT 58.259 37.500 28.17 3.35 0.00 3.85
3776 5087 6.291377 TCAACATTCTGTTCCTATATGAGGC 58.709 40.000 0.00 0.00 46.25 4.70
3846 5178 9.982651 AAGTGTATACCTGCTAATTACACATAG 57.017 33.333 12.44 0.00 38.85 2.23
3873 5205 7.095816 GCATTGTTTAAACATCAACAGGGTTAC 60.096 37.037 21.17 0.00 38.95 2.50
3887 5224 6.536941 TCCTTGAAAACCTGCATTGTTTAAAC 59.463 34.615 11.54 11.54 34.97 2.01
4162 6505 2.451490 TGACACAAGCAAGTTTGGGAA 58.549 42.857 5.90 0.00 35.04 3.97
4163 6506 2.136298 TGACACAAGCAAGTTTGGGA 57.864 45.000 5.90 0.00 35.04 4.37
4164 6507 2.957491 TTGACACAAGCAAGTTTGGG 57.043 45.000 0.00 0.00 37.49 4.12
4165 6508 3.060628 CGTTTTGACACAAGCAAGTTTGG 59.939 43.478 1.86 0.00 32.32 3.28
4166 6509 3.060628 CCGTTTTGACACAAGCAAGTTTG 59.939 43.478 0.00 0.00 0.00 2.93
4167 6510 3.249917 CCGTTTTGACACAAGCAAGTTT 58.750 40.909 0.00 0.00 0.00 2.66
4249 6597 5.995565 AGCAGATAATATACACCCGCTTA 57.004 39.130 0.00 0.00 0.00 3.09
4252 6600 4.389077 GTGAAGCAGATAATATACACCCGC 59.611 45.833 0.00 0.00 0.00 6.13
4403 6756 5.622233 GCAAATAGCCAAGTTCCAGGTTAAG 60.622 44.000 0.00 0.00 37.23 1.85
4441 6794 4.499758 GTCTGAAGTACAGTGCTAATACGC 59.500 45.833 0.00 0.00 45.86 4.42
4452 6805 6.707440 ATATGACCAGAGTCTGAAGTACAG 57.293 41.667 22.09 5.28 46.97 2.74
4483 6837 3.275999 ACAAATATTTTCGGACGGAGGG 58.724 45.455 0.00 0.00 0.00 4.30
4484 6838 3.936453 TGACAAATATTTTCGGACGGAGG 59.064 43.478 0.00 0.00 0.00 4.30
4485 6839 5.293324 TGATGACAAATATTTTCGGACGGAG 59.707 40.000 0.00 0.00 0.00 4.63
4486 6840 5.179533 TGATGACAAATATTTTCGGACGGA 58.820 37.500 0.00 0.00 0.00 4.69
4487 6841 5.478233 TGATGACAAATATTTTCGGACGG 57.522 39.130 0.00 0.00 0.00 4.79
4488 6842 7.789341 TTTTGATGACAAATATTTTCGGACG 57.211 32.000 0.00 0.00 43.99 4.79
4489 6843 8.594687 CCATTTTGATGACAAATATTTTCGGAC 58.405 33.333 0.00 0.00 43.99 4.79
4490 6844 8.526978 TCCATTTTGATGACAAATATTTTCGGA 58.473 29.630 0.00 0.00 43.99 4.55
4491 6845 8.594687 GTCCATTTTGATGACAAATATTTTCGG 58.405 33.333 0.00 0.00 43.99 4.30
4492 6846 9.138062 TGTCCATTTTGATGACAAATATTTTCG 57.862 29.630 0.00 0.00 43.99 3.46
4536 6890 9.220767 GGGATGTATCTGGATGTATTTTAGTTC 57.779 37.037 0.00 0.00 0.00 3.01
4537 6891 8.164070 GGGGATGTATCTGGATGTATTTTAGTT 58.836 37.037 0.00 0.00 0.00 2.24
4538 6892 7.517604 AGGGGATGTATCTGGATGTATTTTAGT 59.482 37.037 0.00 0.00 0.00 2.24
4539 6893 7.922382 AGGGGATGTATCTGGATGTATTTTAG 58.078 38.462 0.00 0.00 0.00 1.85
4540 6894 7.888514 AGGGGATGTATCTGGATGTATTTTA 57.111 36.000 0.00 0.00 0.00 1.52
4541 6895 6.786843 AGGGGATGTATCTGGATGTATTTT 57.213 37.500 0.00 0.00 0.00 1.82
4542 6896 6.786843 AAGGGGATGTATCTGGATGTATTT 57.213 37.500 0.00 0.00 0.00 1.40
4543 6897 6.786843 AAAGGGGATGTATCTGGATGTATT 57.213 37.500 0.00 0.00 0.00 1.89
4544 6898 6.786843 AAAAGGGGATGTATCTGGATGTAT 57.213 37.500 0.00 0.00 0.00 2.29
4545 6899 7.888514 ATAAAAGGGGATGTATCTGGATGTA 57.111 36.000 0.00 0.00 0.00 2.29
4546 6900 6.786843 ATAAAAGGGGATGTATCTGGATGT 57.213 37.500 0.00 0.00 0.00 3.06
4547 6901 7.233632 TGAATAAAAGGGGATGTATCTGGATG 58.766 38.462 0.00 0.00 0.00 3.51
4548 6902 7.406620 TGAATAAAAGGGGATGTATCTGGAT 57.593 36.000 0.00 0.00 0.00 3.41
4549 6903 6.840090 TGAATAAAAGGGGATGTATCTGGA 57.160 37.500 0.00 0.00 0.00 3.86
4550 6904 8.482852 AAATGAATAAAAGGGGATGTATCTGG 57.517 34.615 0.00 0.00 0.00 3.86
4551 6905 9.754382 CAAAATGAATAAAAGGGGATGTATCTG 57.246 33.333 0.00 0.00 0.00 2.90
4552 6906 9.713684 TCAAAATGAATAAAAGGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
4555 6909 9.486123 TCATCAAAATGAATAAAAGGGGATGTA 57.514 29.630 0.00 0.00 38.97 2.29
4556 6910 8.260114 GTCATCAAAATGAATAAAAGGGGATGT 58.740 33.333 0.00 0.00 43.42 3.06
4557 6911 8.259411 TGTCATCAAAATGAATAAAAGGGGATG 58.741 33.333 0.00 0.00 43.42 3.51
4558 6912 8.378115 TGTCATCAAAATGAATAAAAGGGGAT 57.622 30.769 0.00 0.00 43.42 3.85
4559 6913 7.789202 TGTCATCAAAATGAATAAAAGGGGA 57.211 32.000 0.00 0.00 43.42 4.81
4560 6914 8.096414 ACTTGTCATCAAAATGAATAAAAGGGG 58.904 33.333 0.00 0.00 43.42 4.79
4568 6922 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
4569 6923 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
4570 6924 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
4571 6925 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
4572 6926 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
4573 6927 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
4574 6928 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
4575 6929 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
4576 6930 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
4577 6931 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
4578 6932 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
4579 6933 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
4580 6934 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
4581 6935 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
4582 6936 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
4583 6937 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
4584 6938 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
4585 6939 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
4586 6940 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
4587 6941 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
4588 6942 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
4589 6943 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
4590 6944 0.982852 TAGTACTCCCTCCGTCCGGA 60.983 60.000 0.00 0.00 42.90 5.14
4591 6945 0.534652 CTAGTACTCCCTCCGTCCGG 60.535 65.000 0.00 0.00 0.00 5.14
4592 6946 1.165284 GCTAGTACTCCCTCCGTCCG 61.165 65.000 0.00 0.00 0.00 4.79
4593 6947 0.183252 AGCTAGTACTCCCTCCGTCC 59.817 60.000 0.00 0.00 0.00 4.79
4594 6948 2.926778 TAGCTAGTACTCCCTCCGTC 57.073 55.000 0.00 0.00 0.00 4.79
4595 6949 2.709934 TGATAGCTAGTACTCCCTCCGT 59.290 50.000 0.00 0.00 0.00 4.69
4596 6950 3.420300 TGATAGCTAGTACTCCCTCCG 57.580 52.381 0.00 0.00 0.00 4.63
4597 6951 4.924625 TGATGATAGCTAGTACTCCCTCC 58.075 47.826 0.00 0.00 0.00 4.30
4598 6952 7.113437 TGTATGATGATAGCTAGTACTCCCTC 58.887 42.308 0.00 0.00 0.00 4.30
4599 6953 7.033782 TGTATGATGATAGCTAGTACTCCCT 57.966 40.000 0.00 0.00 0.00 4.20
4600 6954 7.704578 TTGTATGATGATAGCTAGTACTCCC 57.295 40.000 0.00 0.00 0.00 4.30
4601 6955 8.798402 ACTTTGTATGATGATAGCTAGTACTCC 58.202 37.037 0.00 0.00 0.00 3.85
4604 6958 9.413048 GGAACTTTGTATGATGATAGCTAGTAC 57.587 37.037 0.00 0.00 0.00 2.73
4605 6959 8.585881 GGGAACTTTGTATGATGATAGCTAGTA 58.414 37.037 0.00 0.00 0.00 1.82
4606 6960 7.071196 TGGGAACTTTGTATGATGATAGCTAGT 59.929 37.037 0.00 0.00 0.00 2.57
4607 6961 7.445121 TGGGAACTTTGTATGATGATAGCTAG 58.555 38.462 0.00 0.00 0.00 3.42
4608 6962 7.071196 ACTGGGAACTTTGTATGATGATAGCTA 59.929 37.037 0.00 0.00 0.00 3.32
4609 6963 6.126652 ACTGGGAACTTTGTATGATGATAGCT 60.127 38.462 0.00 0.00 0.00 3.32
4648 7002 6.419413 GGACAAGCAACAACGAAATTAAATGA 59.581 34.615 0.00 0.00 0.00 2.57
4659 7013 1.400142 TGACAAGGACAAGCAACAACG 59.600 47.619 0.00 0.00 0.00 4.10
4663 7017 4.681744 TGAATTTGACAAGGACAAGCAAC 58.318 39.130 0.00 0.00 0.00 4.17
4718 7072 2.821378 TGGAAGGATCAGCACACAATTG 59.179 45.455 3.24 3.24 0.00 2.32
4720 7074 2.885135 TGGAAGGATCAGCACACAAT 57.115 45.000 0.00 0.00 0.00 2.71
4737 7091 8.652810 AAGAAGAAAAACTGAATGACAATTGG 57.347 30.769 10.83 0.00 0.00 3.16
4744 7098 9.874205 ACAAATTGAAGAAGAAAAACTGAATGA 57.126 25.926 0.00 0.00 0.00 2.57
4816 7173 0.110192 GCACTTTACCACGCAGAAGC 60.110 55.000 0.00 0.00 37.42 3.86
4821 7178 1.067425 ACTATCGCACTTTACCACGCA 60.067 47.619 0.00 0.00 0.00 5.24
4823 7180 2.344441 CACACTATCGCACTTTACCACG 59.656 50.000 0.00 0.00 0.00 4.94
4832 7189 2.159099 TCCAATCTCCACACTATCGCAC 60.159 50.000 0.00 0.00 0.00 5.34
4835 7192 3.549019 CGTCTCCAATCTCCACACTATCG 60.549 52.174 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.