Multiple sequence alignment - TraesCS6D01G188700

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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 TraesCS6D01G188700 chr6D 100.000 3237 0 0 3577 6813 258040084 258036848 0.000000e+00 5978.0
1 TraesCS6D01G188700 chr6D 100.000 2817 0 0 541 3357 258043120 258040304 0.000000e+00 5203.0
2 TraesCS6D01G188700 chr6D 100.000 150 0 0 1 150 258043660 258043511 1.870000e-70 278.0
3 TraesCS6D01G188700 chr6D 90.370 135 7 2 6633 6765 257958432 257958302 9.080000e-39 172.0
4 TraesCS6D01G188700 chr6A 96.589 2932 62 22 3577 6482 351830675 351827756 0.000000e+00 4826.0
5 TraesCS6D01G188700 chr6A 94.675 2197 45 10 1192 3356 351832856 351830700 0.000000e+00 3343.0
6 TraesCS6D01G188700 chr6A 97.280 625 15 2 570 1193 351833506 351832883 0.000000e+00 1059.0
7 TraesCS6D01G188700 chr6A 100.000 121 0 0 1 121 351834033 351833913 2.470000e-54 224.0
8 TraesCS6D01G188700 chr6A 97.183 71 2 0 6468 6538 351827740 351827670 3.340000e-23 121.0
9 TraesCS6D01G188700 chr6A 96.296 54 2 0 6760 6813 10360529 10360582 9.410000e-14 89.8
10 TraesCS6D01G188700 chr6A 96.296 54 2 0 6760 6813 11121690 11121637 9.410000e-14 89.8
11 TraesCS6D01G188700 chr6A 96.296 54 2 0 6760 6813 112541326 112541379 9.410000e-14 89.8
12 TraesCS6D01G188700 chr6B 95.648 2803 76 18 3607 6386 336248321 336251100 0.000000e+00 4458.0
13 TraesCS6D01G188700 chr6B 96.793 1715 49 5 1647 3357 336246529 336248241 0.000000e+00 2857.0
14 TraesCS6D01G188700 chr6B 97.863 655 10 3 541 1193 336245449 336246101 0.000000e+00 1129.0
15 TraesCS6D01G188700 chr6B 94.776 402 14 3 1192 1593 336246128 336246522 2.700000e-173 619.0
16 TraesCS6D01G188700 chr6B 99.048 105 1 0 1 105 336245035 336245139 9.020000e-44 189.0
17 TraesCS6D01G188700 chr6B 86.713 143 9 6 6485 6627 336251245 336251377 4.260000e-32 150.0
18 TraesCS6D01G188700 chr6B 98.113 53 0 1 1592 1644 124638789 124638840 2.620000e-14 91.6
19 TraesCS6D01G188700 chr1A 92.424 132 4 2 6636 6765 58405029 58404902 4.200000e-42 183.0
20 TraesCS6D01G188700 chr1A 94.737 57 2 1 1589 1645 531877814 531877869 3.380000e-13 87.9
21 TraesCS6D01G188700 chr1A 90.385 52 2 3 6427 6477 23859471 23859422 1.590000e-06 65.8
22 TraesCS6D01G188700 chr1A 90.385 52 2 3 6427 6477 242063657 242063608 1.590000e-06 65.8
23 TraesCS6D01G188700 chr3D 92.035 113 6 2 4513 4624 100390402 100390512 9.150000e-34 156.0
24 TraesCS6D01G188700 chr3B 92.035 113 4 3 4513 4624 150850833 150850941 3.290000e-33 154.0
25 TraesCS6D01G188700 chr5A 89.516 124 7 2 6642 6763 308152372 308152253 1.180000e-32 152.0
26 TraesCS6D01G188700 chr3A 86.620 142 12 3 6627 6765 144535657 144535794 4.260000e-32 150.0
27 TraesCS6D01G188700 chr3A 95.238 42 2 0 6436 6477 342702881 342702922 4.410000e-07 67.6
28 TraesCS6D01G188700 chr5D 87.302 126 10 5 6642 6765 508528898 508528777 9.210000e-29 139.0
29 TraesCS6D01G188700 chr5D 94.444 54 3 0 6760 6813 508534771 508534718 4.380000e-12 84.2
30 TraesCS6D01G188700 chr4D 91.667 72 3 3 1575 1644 507997933 507997863 5.620000e-16 97.1
31 TraesCS6D01G188700 chr4D 96.296 54 2 0 6760 6813 70366303 70366356 9.410000e-14 89.8
32 TraesCS6D01G188700 chr7D 96.429 56 0 2 1593 1648 194712898 194712951 2.620000e-14 91.6
33 TraesCS6D01G188700 chr7D 96.364 55 0 2 1590 1644 170862994 170863046 9.410000e-14 89.8
34 TraesCS6D01G188700 chr4A 98.113 53 0 1 1592 1644 141393547 141393496 2.620000e-14 91.6
35 TraesCS6D01G188700 chr4A 89.474 57 2 4 6423 6477 465524254 465524308 1.230000e-07 69.4
36 TraesCS6D01G188700 chr2B 98.113 53 0 1 1592 1644 772648386 772648335 2.620000e-14 91.6
37 TraesCS6D01G188700 chr2B 83.516 91 15 0 3076 3166 478105295 478105385 1.220000e-12 86.1
38 TraesCS6D01G188700 chr2B 93.333 45 1 2 6434 6477 2619916 2619959 1.590000e-06 65.8
39 TraesCS6D01G188700 chr7B 96.296 54 2 0 6760 6813 59344618 59344671 9.410000e-14 89.8
40 TraesCS6D01G188700 chr1B 94.737 57 1 2 1593 1649 587035115 587035061 3.380000e-13 87.9
41 TraesCS6D01G188700 chr7A 94.444 54 3 0 6760 6813 692038130 692038077 4.380000e-12 84.2
42 TraesCS6D01G188700 chr4B 94.444 54 3 0 6760 6813 212146985 212146932 4.380000e-12 84.2
43 TraesCS6D01G188700 chr4B 92.593 54 4 0 6760 6813 212118327 212118274 2.040000e-10 78.7
44 TraesCS6D01G188700 chr4B 95.238 42 2 0 6436 6477 485557733 485557774 4.410000e-07 67.6
45 TraesCS6D01G188700 chr5B 90.196 51 2 3 6427 6476 637122446 637122494 5.700000e-06 63.9
46 TraesCS6D01G188700 chr2D 88.462 52 3 3 6427 6477 487497534 487497583 7.380000e-05 60.2
47 TraesCS6D01G188700 chr2A 100.000 29 0 0 6364 6392 724525749 724525777 3.000000e-03 54.7


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 TraesCS6D01G188700 chr6D 258036848 258043660 6812 True 3819.666667 5978 100.000000 1 6813 3 chr6D.!!$R2 6812
1 TraesCS6D01G188700 chr6A 351827670 351834033 6363 True 1914.600000 4826 97.145400 1 6538 5 chr6A.!!$R2 6537
2 TraesCS6D01G188700 chr6B 336245035 336251377 6342 False 1567.000000 4458 95.140167 1 6627 6 chr6B.!!$F2 6626

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
123 124 0.111446 CCCTATCCTCCTCTCTCGCA 59.889 60.000 0.00 0.00 0.00 5.10 F
129 130 1.012841 CCTCCTCTCTCGCAAATTGC 58.987 55.000 8.09 8.09 40.69 3.56 F
147 148 1.137282 TGCTTTTTGTTCGTTTCCCCC 59.863 47.619 0.00 0.00 0.00 5.40 F
804 805 1.266867 GGGTTTCGGTGGTAGCCCTA 61.267 60.000 0.00 0.00 33.58 3.53 F
2062 2124 2.380064 TGGTGAGAAAATTGGCAGGT 57.620 45.000 0.00 0.00 0.00 4.00 F
2496 2558 3.116900 AGGATAAGGAGAGGGAGAAGGAC 60.117 52.174 0.00 0.00 0.00 3.85 F
3195 3258 3.576078 TCTGCCTTTTGACCAGAAGAA 57.424 42.857 2.31 0.00 33.05 2.52 F
4412 4553 1.340248 TGACCTTGTTCTGTCCTCGAC 59.660 52.381 0.00 0.00 0.00 4.20 F
4851 5006 2.654079 CCTGCGAGTCCTCCAGCTT 61.654 63.158 0.00 0.00 31.16 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2062 2124 0.758310 TGCATGGTGGCCAAAACTCA 60.758 50.000 7.24 0.00 36.95 3.41 R
2173 2235 2.404459 CCCCCACCCCACATAAGAA 58.596 57.895 0.00 0.00 0.00 2.52 R
2281 2343 8.927675 TCTACTAGAATATCCAAGAGAAGACC 57.072 38.462 0.00 0.00 0.00 3.85 R
2651 2713 7.535139 GCCAACAGTATTGCTTTTAGATGTAA 58.465 34.615 0.00 0.00 0.00 2.41 R
4072 4210 1.833630 TCTGGCATCCTTCCACAGTAG 59.166 52.381 0.00 0.00 0.00 2.57 R
4121 4259 8.700439 AGAGTAGTGATAAATCCTTCTCTACC 57.300 38.462 11.96 2.66 38.67 3.18 R
4851 5006 0.539438 GGTTCCATGGAAGCCACACA 60.539 55.000 36.25 9.78 44.15 3.72 R
5282 5437 1.000955 CCGGATACCTGGAATCCTTCG 59.999 57.143 0.00 0.00 41.53 3.79 R
6759 6967 0.178767 CCAGAGATGATCGGTGGCAA 59.821 55.000 3.62 0.00 0.00 4.52 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
121 122 4.788925 ATATCCCTATCCTCCTCTCTCG 57.211 50.000 0.00 0.00 0.00 4.04
122 123 0.402504 TCCCTATCCTCCTCTCTCGC 59.597 60.000 0.00 0.00 0.00 5.03
123 124 0.111446 CCCTATCCTCCTCTCTCGCA 59.889 60.000 0.00 0.00 0.00 5.10
124 125 1.479573 CCCTATCCTCCTCTCTCGCAA 60.480 57.143 0.00 0.00 0.00 4.85
125 126 2.311463 CCTATCCTCCTCTCTCGCAAA 58.689 52.381 0.00 0.00 0.00 3.68
126 127 2.896685 CCTATCCTCCTCTCTCGCAAAT 59.103 50.000 0.00 0.00 0.00 2.32
127 128 3.323403 CCTATCCTCCTCTCTCGCAAATT 59.677 47.826 0.00 0.00 0.00 1.82
128 129 2.680312 TCCTCCTCTCTCGCAAATTG 57.320 50.000 0.00 0.00 0.00 2.32
129 130 1.012841 CCTCCTCTCTCGCAAATTGC 58.987 55.000 8.09 8.09 40.69 3.56
130 131 1.406614 CCTCCTCTCTCGCAAATTGCT 60.407 52.381 16.42 0.00 42.25 3.91
131 132 2.354259 CTCCTCTCTCGCAAATTGCTT 58.646 47.619 16.42 0.00 42.25 3.91
132 133 2.746362 CTCCTCTCTCGCAAATTGCTTT 59.254 45.455 16.42 0.00 42.25 3.51
133 134 3.149196 TCCTCTCTCGCAAATTGCTTTT 58.851 40.909 16.42 0.00 42.25 2.27
134 135 3.569701 TCCTCTCTCGCAAATTGCTTTTT 59.430 39.130 16.42 0.00 42.25 1.94
135 136 3.671928 CCTCTCTCGCAAATTGCTTTTTG 59.328 43.478 16.42 0.00 42.25 2.44
136 137 4.293415 CTCTCTCGCAAATTGCTTTTTGT 58.707 39.130 16.42 0.00 42.25 2.83
137 138 4.681744 TCTCTCGCAAATTGCTTTTTGTT 58.318 34.783 16.42 0.00 42.25 2.83
138 139 4.739716 TCTCTCGCAAATTGCTTTTTGTTC 59.260 37.500 16.42 0.00 42.25 3.18
139 140 3.485378 TCTCGCAAATTGCTTTTTGTTCG 59.515 39.130 16.42 8.68 42.25 3.95
140 141 3.182967 TCGCAAATTGCTTTTTGTTCGT 58.817 36.364 16.42 0.00 42.25 3.85
141 142 3.614616 TCGCAAATTGCTTTTTGTTCGTT 59.385 34.783 16.42 0.00 42.25 3.85
142 143 4.092091 TCGCAAATTGCTTTTTGTTCGTTT 59.908 33.333 16.42 0.00 42.25 3.60
143 144 4.429801 CGCAAATTGCTTTTTGTTCGTTTC 59.570 37.500 16.42 0.00 42.25 2.78
144 145 4.728131 GCAAATTGCTTTTTGTTCGTTTCC 59.272 37.500 11.19 0.00 40.96 3.13
145 146 5.262422 CAAATTGCTTTTTGTTCGTTTCCC 58.738 37.500 4.40 0.00 32.99 3.97
146 147 2.588027 TGCTTTTTGTTCGTTTCCCC 57.412 45.000 0.00 0.00 0.00 4.81
147 148 1.137282 TGCTTTTTGTTCGTTTCCCCC 59.863 47.619 0.00 0.00 0.00 5.40
148 149 1.411246 GCTTTTTGTTCGTTTCCCCCT 59.589 47.619 0.00 0.00 0.00 4.79
149 150 2.801699 GCTTTTTGTTCGTTTCCCCCTG 60.802 50.000 0.00 0.00 0.00 4.45
627 628 2.680965 GGGCCCTTCAATCGGGAA 59.319 61.111 17.04 0.00 44.90 3.97
655 656 4.546637 CGTGATACGATACGGGGC 57.453 61.111 0.00 0.00 46.05 5.80
656 657 1.655885 CGTGATACGATACGGGGCA 59.344 57.895 0.00 0.00 46.05 5.36
804 805 1.266867 GGGTTTCGGTGGTAGCCCTA 61.267 60.000 0.00 0.00 33.58 3.53
1148 1149 4.672587 TGTGTTTGCTACTCTCAGACTT 57.327 40.909 0.00 0.00 0.00 3.01
1537 1595 4.532276 TGCGTTGTGTTCATTACATGTTC 58.468 39.130 2.30 0.00 39.39 3.18
1640 1701 5.662211 GCGTCCGGCTTTAAATTAATAGA 57.338 39.130 0.00 0.00 39.11 1.98
1641 1702 6.051646 GCGTCCGGCTTTAAATTAATAGAA 57.948 37.500 0.00 0.00 39.11 2.10
1642 1703 6.134061 GCGTCCGGCTTTAAATTAATAGAAG 58.866 40.000 0.00 0.00 39.11 2.85
1643 1704 6.134061 CGTCCGGCTTTAAATTAATAGAAGC 58.866 40.000 16.21 16.21 41.37 3.86
1644 1705 6.134061 GTCCGGCTTTAAATTAATAGAAGCG 58.866 40.000 17.17 13.88 42.63 4.68
1645 1706 4.909880 CCGGCTTTAAATTAATAGAAGCGC 59.090 41.667 17.17 0.00 42.63 5.92
1994 2056 9.740710 AAAGATGAACTTAATAAGGTGCTAAGT 57.259 29.630 4.92 0.00 37.93 2.24
2035 2097 9.829507 CAAATAATTGGCAACCATCCTAAAATA 57.170 29.630 0.00 0.00 31.53 1.40
2062 2124 2.380064 TGGTGAGAAAATTGGCAGGT 57.620 45.000 0.00 0.00 0.00 4.00
2173 2235 6.822442 TGCAAATGCCATTATGAAGAATGAT 58.178 32.000 2.46 0.00 41.18 2.45
2496 2558 3.116900 AGGATAAGGAGAGGGAGAAGGAC 60.117 52.174 0.00 0.00 0.00 3.85
3174 3237 6.712095 ACAAGCAAATCTTCTGTGAGTTATCA 59.288 34.615 0.00 0.00 31.27 2.15
3195 3258 3.576078 TCTGCCTTTTGACCAGAAGAA 57.424 42.857 2.31 0.00 33.05 2.52
3267 3330 3.678056 TGCTCTTACTTGTGGGTGTAG 57.322 47.619 0.00 0.00 0.00 2.74
3306 3369 3.920412 GCTGGCAGTTGCAGTAATAAAAC 59.080 43.478 17.16 0.00 44.36 2.43
3774 3909 7.222224 CGAACATTACTCAACTAATGGTACTCC 59.778 40.741 0.00 0.00 34.72 3.85
3940 4078 3.949132 TGCATGTGATACCTACTTTGCA 58.051 40.909 0.00 0.00 36.37 4.08
3944 4082 5.584649 GCATGTGATACCTACTTTGCACTTA 59.415 40.000 0.00 0.00 32.18 2.24
4238 4378 6.670233 TGAAACGATGTGTAAAATGGTAACC 58.330 36.000 0.00 0.00 0.00 2.85
4408 4549 2.039084 GGATGTGACCTTGTTCTGTCCT 59.961 50.000 0.00 0.00 0.00 3.85
4412 4553 1.340248 TGACCTTGTTCTGTCCTCGAC 59.660 52.381 0.00 0.00 0.00 4.20
4851 5006 2.654079 CCTGCGAGTCCTCCAGCTT 61.654 63.158 0.00 0.00 31.16 3.74
5196 5351 5.809001 AGAACAATTCATCCTTGCAGTCTA 58.191 37.500 0.00 0.00 0.00 2.59
5282 5437 2.139118 GAACTTGCTGACACAGGAGAC 58.861 52.381 0.00 0.00 32.58 3.36
5315 5470 0.249447 TATCCGGCTCAGACAATGCG 60.249 55.000 0.00 0.00 0.00 4.73
5855 6011 2.987821 GAGTACAGGAAACAGACGCTTC 59.012 50.000 0.00 0.00 0.00 3.86
5948 6105 5.185828 TGCTGAGAACTGATAGCAAAGAGTA 59.814 40.000 0.00 0.00 42.60 2.59
5989 6146 9.706691 TGTCTAGATTAACAAGTCGAGATTTTT 57.293 29.630 0.00 0.00 30.64 1.94
6025 6183 3.437213 TCTCGTCTATCAACTTGGGGAA 58.563 45.455 0.00 0.00 0.00 3.97
6160 6319 3.825908 AATAGGTTGCTTTTCCCCTCA 57.174 42.857 0.00 0.00 0.00 3.86
6261 6421 8.604890 CGTCTCAGAAAAAGTTTCTTTAACTCT 58.395 33.333 0.47 0.00 46.34 3.24
6341 6501 4.444388 TGTCGATTGACTCTGAAGAAAACG 59.556 41.667 14.27 0.00 45.70 3.60
6342 6502 3.428870 TCGATTGACTCTGAAGAAAACGC 59.571 43.478 0.00 0.00 0.00 4.84
6344 6504 4.433544 CGATTGACTCTGAAGAAAACGCTC 60.434 45.833 0.00 0.00 0.00 5.03
6359 6521 1.291184 CGCTCCGTGATTGACTGCAA 61.291 55.000 0.00 0.00 38.60 4.08
6360 6522 1.089920 GCTCCGTGATTGACTGCAAT 58.910 50.000 0.00 0.00 47.00 3.56
6372 6534 3.857052 TGACTGCAATAAAGTACTCCCG 58.143 45.455 0.00 0.00 0.00 5.14
6373 6535 3.512329 TGACTGCAATAAAGTACTCCCGA 59.488 43.478 0.00 0.00 0.00 5.14
6392 6554 9.364653 ACTCCCGATGTAAACTAATATAAGAGT 57.635 33.333 0.00 0.00 0.00 3.24
6526 6734 2.102420 TCCGTTGCTCTCACTGAAAAGA 59.898 45.455 0.00 0.00 0.00 2.52
6528 6736 3.124297 CCGTTGCTCTCACTGAAAAGATC 59.876 47.826 0.00 0.00 0.00 2.75
6542 6750 6.660949 ACTGAAAAGATCATTTCCCCTACTTG 59.339 38.462 18.11 4.16 38.30 3.16
6543 6751 6.552008 TGAAAAGATCATTTCCCCTACTTGT 58.448 36.000 18.11 0.00 38.30 3.16
6544 6752 7.010160 TGAAAAGATCATTTCCCCTACTTGTT 58.990 34.615 18.11 0.00 38.30 2.83
6545 6753 8.167392 TGAAAAGATCATTTCCCCTACTTGTTA 58.833 33.333 18.11 0.00 38.30 2.41
6546 6754 8.581253 AAAAGATCATTTCCCCTACTTGTTAG 57.419 34.615 0.00 0.00 0.00 2.34
6547 6755 6.253946 AGATCATTTCCCCTACTTGTTAGG 57.746 41.667 0.00 0.00 46.73 2.69
6548 6756 5.731678 AGATCATTTCCCCTACTTGTTAGGT 59.268 40.000 0.00 0.00 45.81 3.08
6549 6757 6.906901 AGATCATTTCCCCTACTTGTTAGGTA 59.093 38.462 0.00 0.00 45.81 3.08
6550 6758 7.572861 AGATCATTTCCCCTACTTGTTAGGTAT 59.427 37.037 0.00 0.00 45.81 2.73
6551 6759 8.808240 ATCATTTCCCCTACTTGTTAGGTATA 57.192 34.615 0.00 0.00 45.81 1.47
6598 6806 5.124457 CCCAATTAAGATTGCTATCATCGGG 59.876 44.000 10.78 7.17 41.06 5.14
6620 6828 6.016943 CGGGTTTGTTAACTTTGGATAACTGA 60.017 38.462 7.22 0.00 33.63 3.41
6623 6831 9.758651 GGTTTGTTAACTTTGGATAACTGAATT 57.241 29.630 7.22 0.00 33.63 2.17
6631 6839 7.590279 ACTTTGGATAACTGAATTGTAAACGG 58.410 34.615 0.00 0.00 0.00 4.44
6632 6840 6.503589 TTGGATAACTGAATTGTAAACGGG 57.496 37.500 0.00 0.00 0.00 5.28
6633 6841 5.806818 TGGATAACTGAATTGTAAACGGGA 58.193 37.500 0.00 0.00 0.00 5.14
6634 6842 5.878116 TGGATAACTGAATTGTAAACGGGAG 59.122 40.000 0.00 0.00 0.00 4.30
6635 6843 6.110707 GGATAACTGAATTGTAAACGGGAGA 58.889 40.000 0.00 0.00 0.00 3.71
6636 6844 6.036844 GGATAACTGAATTGTAAACGGGAGAC 59.963 42.308 0.00 0.00 0.00 3.36
6637 6845 4.345859 ACTGAATTGTAAACGGGAGACA 57.654 40.909 0.00 0.00 0.00 3.41
6638 6846 4.710324 ACTGAATTGTAAACGGGAGACAA 58.290 39.130 0.00 0.00 37.47 3.18
6639 6847 5.313712 ACTGAATTGTAAACGGGAGACAAT 58.686 37.500 0.00 0.00 43.81 2.71
6643 6851 6.642707 AATTGTAAACGGGAGACAATTGAA 57.357 33.333 13.59 0.00 46.69 2.69
6644 6852 6.834168 ATTGTAAACGGGAGACAATTGAAT 57.166 33.333 13.59 0.00 40.09 2.57
6645 6853 7.931578 ATTGTAAACGGGAGACAATTGAATA 57.068 32.000 13.59 0.00 40.09 1.75
6646 6854 7.747155 TTGTAAACGGGAGACAATTGAATAA 57.253 32.000 13.59 0.00 0.00 1.40
6647 6855 7.747155 TGTAAACGGGAGACAATTGAATAAA 57.253 32.000 13.59 0.00 0.00 1.40
6648 6856 8.343168 TGTAAACGGGAGACAATTGAATAAAT 57.657 30.769 13.59 0.00 0.00 1.40
6649 6857 8.240682 TGTAAACGGGAGACAATTGAATAAATG 58.759 33.333 13.59 0.00 0.00 2.32
6650 6858 7.461182 AAACGGGAGACAATTGAATAAATGA 57.539 32.000 13.59 0.00 0.00 2.57
6651 6859 7.645058 AACGGGAGACAATTGAATAAATGAT 57.355 32.000 13.59 0.00 0.00 2.45
6652 6860 7.645058 ACGGGAGACAATTGAATAAATGATT 57.355 32.000 13.59 0.00 0.00 2.57
6653 6861 7.483307 ACGGGAGACAATTGAATAAATGATTG 58.517 34.615 13.59 0.00 36.00 2.67
6654 6862 7.339212 ACGGGAGACAATTGAATAAATGATTGA 59.661 33.333 13.59 0.00 34.47 2.57
6655 6863 8.190122 CGGGAGACAATTGAATAAATGATTGAA 58.810 33.333 13.59 0.00 34.47 2.69
6656 6864 9.305925 GGGAGACAATTGAATAAATGATTGAAC 57.694 33.333 13.59 0.00 34.47 3.18
6661 6869 9.345517 ACAATTGAATAAATGATTGAACTGTCG 57.654 29.630 13.59 0.00 26.73 4.35
6662 6870 9.558648 CAATTGAATAAATGATTGAACTGTCGA 57.441 29.630 0.00 0.00 32.61 4.20
6665 6873 9.773328 TTGAATAAATGATTGAACTGTCGATTC 57.227 29.630 0.00 0.00 0.00 2.52
6666 6874 8.397906 TGAATAAATGATTGAACTGTCGATTCC 58.602 33.333 0.00 0.00 0.00 3.01
6667 6875 7.864108 ATAAATGATTGAACTGTCGATTCCA 57.136 32.000 0.00 0.00 0.00 3.53
6668 6876 6.764308 AAATGATTGAACTGTCGATTCCAT 57.236 33.333 0.00 0.00 0.00 3.41
6669 6877 6.764308 AATGATTGAACTGTCGATTCCATT 57.236 33.333 0.00 0.00 0.00 3.16
6670 6878 5.550232 TGATTGAACTGTCGATTCCATTG 57.450 39.130 0.00 0.00 0.00 2.82
6671 6879 5.244755 TGATTGAACTGTCGATTCCATTGA 58.755 37.500 0.00 0.00 0.00 2.57
6672 6880 5.882000 TGATTGAACTGTCGATTCCATTGAT 59.118 36.000 0.00 0.00 0.00 2.57
6673 6881 6.375174 TGATTGAACTGTCGATTCCATTGATT 59.625 34.615 0.00 0.00 0.00 2.57
6674 6882 5.550232 TGAACTGTCGATTCCATTGATTG 57.450 39.130 0.00 0.00 0.00 2.67
6675 6883 5.244755 TGAACTGTCGATTCCATTGATTGA 58.755 37.500 0.00 0.00 0.00 2.57
6676 6884 5.882000 TGAACTGTCGATTCCATTGATTGAT 59.118 36.000 0.00 0.00 0.00 2.57
6677 6885 6.375174 TGAACTGTCGATTCCATTGATTGATT 59.625 34.615 0.00 0.00 0.00 2.57
6678 6886 6.369059 ACTGTCGATTCCATTGATTGATTC 57.631 37.500 0.00 0.00 0.00 2.52
6679 6887 6.118170 ACTGTCGATTCCATTGATTGATTCT 58.882 36.000 0.00 0.00 0.00 2.40
6680 6888 6.259608 ACTGTCGATTCCATTGATTGATTCTC 59.740 38.462 0.00 0.00 0.00 2.87
6681 6889 5.234972 TGTCGATTCCATTGATTGATTCTCG 59.765 40.000 0.00 0.00 0.00 4.04
6682 6890 4.751600 TCGATTCCATTGATTGATTCTCGG 59.248 41.667 0.00 0.00 0.00 4.63
6683 6891 4.512944 CGATTCCATTGATTGATTCTCGGT 59.487 41.667 0.00 0.00 0.00 4.69
6684 6892 5.696270 CGATTCCATTGATTGATTCTCGGTA 59.304 40.000 0.00 0.00 0.00 4.02
6685 6893 6.369890 CGATTCCATTGATTGATTCTCGGTAT 59.630 38.462 0.00 0.00 0.00 2.73
6686 6894 7.545615 CGATTCCATTGATTGATTCTCGGTATA 59.454 37.037 0.00 0.00 0.00 1.47
6687 6895 9.388506 GATTCCATTGATTGATTCTCGGTATAT 57.611 33.333 0.00 0.00 0.00 0.86
6695 6903 8.924303 TGATTGATTCTCGGTATATATAAGGGG 58.076 37.037 0.00 0.00 0.00 4.79
6696 6904 9.144298 GATTGATTCTCGGTATATATAAGGGGA 57.856 37.037 0.00 0.00 0.00 4.81
6697 6905 8.904648 TTGATTCTCGGTATATATAAGGGGAA 57.095 34.615 8.34 8.34 0.00 3.97
6698 6906 8.302515 TGATTCTCGGTATATATAAGGGGAAC 57.697 38.462 8.16 5.08 0.00 3.62
6699 6907 7.897030 TGATTCTCGGTATATATAAGGGGAACA 59.103 37.037 8.16 6.80 0.00 3.18
6700 6908 7.713734 TTCTCGGTATATATAAGGGGAACAG 57.286 40.000 0.00 0.00 0.00 3.16
6701 6909 7.036154 TCTCGGTATATATAAGGGGAACAGA 57.964 40.000 0.00 0.00 0.00 3.41
6702 6910 6.888632 TCTCGGTATATATAAGGGGAACAGAC 59.111 42.308 0.00 0.00 0.00 3.51
6703 6911 6.554784 TCGGTATATATAAGGGGAACAGACA 58.445 40.000 0.00 0.00 0.00 3.41
6704 6912 6.435277 TCGGTATATATAAGGGGAACAGACAC 59.565 42.308 0.00 0.00 0.00 3.67
6705 6913 6.624423 CGGTATATATAAGGGGAACAGACACG 60.624 46.154 0.00 0.00 0.00 4.49
6706 6914 6.435277 GGTATATATAAGGGGAACAGACACGA 59.565 42.308 0.00 0.00 0.00 4.35
6707 6915 7.123847 GGTATATATAAGGGGAACAGACACGAT 59.876 40.741 0.00 0.00 0.00 3.73
6708 6916 3.821421 ATAAGGGGAACAGACACGATC 57.179 47.619 0.00 0.00 0.00 3.69
6709 6917 0.246635 AAGGGGAACAGACACGATCG 59.753 55.000 14.88 14.88 0.00 3.69
6710 6918 0.611062 AGGGGAACAGACACGATCGA 60.611 55.000 24.34 0.00 0.00 3.59
6711 6919 0.179134 GGGGAACAGACACGATCGAG 60.179 60.000 24.34 17.42 0.00 4.04
6712 6920 0.809385 GGGAACAGACACGATCGAGA 59.191 55.000 24.34 0.00 0.00 4.04
6713 6921 1.202200 GGGAACAGACACGATCGAGAG 60.202 57.143 24.34 13.38 0.00 3.20
6724 6932 4.717988 TCGAGAGATGCATGCGAC 57.282 55.556 14.09 9.49 33.31 5.19
6725 6933 2.110296 TCGAGAGATGCATGCGACT 58.890 52.632 14.09 14.41 33.31 4.18
6726 6934 0.248784 TCGAGAGATGCATGCGACTG 60.249 55.000 18.58 7.14 33.31 3.51
6727 6935 0.527169 CGAGAGATGCATGCGACTGT 60.527 55.000 18.58 15.25 0.00 3.55
6728 6936 1.649664 GAGAGATGCATGCGACTGTT 58.350 50.000 18.58 8.61 0.00 3.16
6729 6937 2.005451 GAGAGATGCATGCGACTGTTT 58.995 47.619 18.58 6.56 0.00 2.83
6730 6938 1.736126 AGAGATGCATGCGACTGTTTG 59.264 47.619 18.58 0.00 0.00 2.93
6731 6939 1.466167 GAGATGCATGCGACTGTTTGT 59.534 47.619 18.58 0.00 0.00 2.83
6732 6940 2.672874 GAGATGCATGCGACTGTTTGTA 59.327 45.455 18.58 0.00 0.00 2.41
6733 6941 2.674852 AGATGCATGCGACTGTTTGTAG 59.325 45.455 14.09 0.00 0.00 2.74
6734 6942 2.162319 TGCATGCGACTGTTTGTAGA 57.838 45.000 14.09 0.00 0.00 2.59
6735 6943 2.068519 TGCATGCGACTGTTTGTAGAG 58.931 47.619 14.09 0.00 0.00 2.43
6736 6944 1.394917 GCATGCGACTGTTTGTAGAGG 59.605 52.381 0.00 0.00 0.00 3.69
6737 6945 2.688507 CATGCGACTGTTTGTAGAGGT 58.311 47.619 0.00 0.00 0.00 3.85
6738 6946 2.148916 TGCGACTGTTTGTAGAGGTG 57.851 50.000 0.00 0.00 0.00 4.00
6739 6947 0.790814 GCGACTGTTTGTAGAGGTGC 59.209 55.000 0.00 0.00 0.00 5.01
6740 6948 1.872237 GCGACTGTTTGTAGAGGTGCA 60.872 52.381 0.00 0.00 0.00 4.57
6741 6949 2.479837 CGACTGTTTGTAGAGGTGCAA 58.520 47.619 0.00 0.00 0.00 4.08
6742 6950 2.476619 CGACTGTTTGTAGAGGTGCAAG 59.523 50.000 0.00 0.00 29.18 4.01
6743 6951 2.808543 GACTGTTTGTAGAGGTGCAAGG 59.191 50.000 0.00 0.00 29.18 3.61
6744 6952 2.154462 CTGTTTGTAGAGGTGCAAGGG 58.846 52.381 0.00 0.00 29.18 3.95
6745 6953 1.202879 TGTTTGTAGAGGTGCAAGGGG 60.203 52.381 0.00 0.00 29.18 4.79
6746 6954 1.073284 GTTTGTAGAGGTGCAAGGGGA 59.927 52.381 0.00 0.00 29.18 4.81
6747 6955 0.984230 TTGTAGAGGTGCAAGGGGAG 59.016 55.000 0.00 0.00 0.00 4.30
6748 6956 1.222113 GTAGAGGTGCAAGGGGAGC 59.778 63.158 0.00 0.00 0.00 4.70
6749 6957 2.359169 TAGAGGTGCAAGGGGAGCG 61.359 63.158 0.00 0.00 37.97 5.03
6750 6958 4.785453 GAGGTGCAAGGGGAGCGG 62.785 72.222 0.00 0.00 37.97 5.52
6774 6982 4.963878 GGTTGCCACCGATCATCT 57.036 55.556 0.00 0.00 31.60 2.90
6775 6983 2.695314 GGTTGCCACCGATCATCTC 58.305 57.895 0.00 0.00 31.60 2.75
6776 6984 0.179000 GGTTGCCACCGATCATCTCT 59.821 55.000 0.00 0.00 31.60 3.10
6777 6985 1.293924 GTTGCCACCGATCATCTCTG 58.706 55.000 0.00 0.00 0.00 3.35
6778 6986 0.178767 TTGCCACCGATCATCTCTGG 59.821 55.000 0.00 0.00 0.00 3.86
6779 6987 0.687427 TGCCACCGATCATCTCTGGA 60.687 55.000 2.24 0.00 0.00 3.86
6780 6988 0.465705 GCCACCGATCATCTCTGGAA 59.534 55.000 2.24 0.00 0.00 3.53
6781 6989 1.071385 GCCACCGATCATCTCTGGAAT 59.929 52.381 2.24 0.00 0.00 3.01
6782 6990 2.869636 GCCACCGATCATCTCTGGAATC 60.870 54.545 2.24 0.00 0.00 2.52
6783 6991 2.366590 CCACCGATCATCTCTGGAATCA 59.633 50.000 0.00 0.00 0.00 2.57
6784 6992 3.388308 CACCGATCATCTCTGGAATCAC 58.612 50.000 0.00 0.00 0.00 3.06
6785 6993 2.366916 ACCGATCATCTCTGGAATCACC 59.633 50.000 0.00 0.00 39.54 4.02
6786 6994 2.289320 CCGATCATCTCTGGAATCACCC 60.289 54.545 0.00 0.00 38.00 4.61
6787 6995 2.632028 CGATCATCTCTGGAATCACCCT 59.368 50.000 0.00 0.00 38.00 4.34
6788 6996 3.070734 CGATCATCTCTGGAATCACCCTT 59.929 47.826 0.00 0.00 38.00 3.95
6789 6997 3.920231 TCATCTCTGGAATCACCCTTG 57.080 47.619 0.00 0.00 38.00 3.61
6790 6998 3.453868 TCATCTCTGGAATCACCCTTGA 58.546 45.455 0.00 0.00 38.00 3.02
6791 6999 3.845992 TCATCTCTGGAATCACCCTTGAA 59.154 43.478 0.00 0.00 34.61 2.69
6792 7000 4.476113 TCATCTCTGGAATCACCCTTGAAT 59.524 41.667 0.00 0.00 34.61 2.57
6793 7001 4.934797 TCTCTGGAATCACCCTTGAATT 57.065 40.909 0.00 0.00 34.61 2.17
6794 7002 6.158520 TCATCTCTGGAATCACCCTTGAATTA 59.841 38.462 0.00 0.00 34.61 1.40
6795 7003 6.387192 TCTCTGGAATCACCCTTGAATTAA 57.613 37.500 0.00 0.00 34.61 1.40
6796 7004 6.180472 TCTCTGGAATCACCCTTGAATTAAC 58.820 40.000 0.00 0.00 34.61 2.01
6797 7005 6.012508 TCTCTGGAATCACCCTTGAATTAACT 60.013 38.462 0.00 0.00 34.61 2.24
6798 7006 6.180472 TCTGGAATCACCCTTGAATTAACTC 58.820 40.000 0.00 0.00 34.61 3.01
6799 7007 6.012508 TCTGGAATCACCCTTGAATTAACTCT 60.013 38.462 0.00 0.00 34.61 3.24
6800 7008 6.552008 TGGAATCACCCTTGAATTAACTCTT 58.448 36.000 0.00 0.00 34.61 2.85
6801 7009 6.659242 TGGAATCACCCTTGAATTAACTCTTC 59.341 38.462 0.00 0.00 34.61 2.87
6802 7010 6.887002 GGAATCACCCTTGAATTAACTCTTCT 59.113 38.462 0.00 0.00 34.61 2.85
6803 7011 7.066404 GGAATCACCCTTGAATTAACTCTTCTC 59.934 40.741 0.00 0.00 34.61 2.87
6804 7012 5.805728 TCACCCTTGAATTAACTCTTCTCC 58.194 41.667 0.00 0.00 0.00 3.71
6805 7013 5.309543 TCACCCTTGAATTAACTCTTCTCCA 59.690 40.000 0.00 0.00 0.00 3.86
6806 7014 6.003950 CACCCTTGAATTAACTCTTCTCCAA 58.996 40.000 0.00 0.00 0.00 3.53
6807 7015 6.490040 CACCCTTGAATTAACTCTTCTCCAAA 59.510 38.462 0.00 0.00 0.00 3.28
6808 7016 7.014230 CACCCTTGAATTAACTCTTCTCCAAAA 59.986 37.037 0.00 0.00 0.00 2.44
6809 7017 7.563556 ACCCTTGAATTAACTCTTCTCCAAAAA 59.436 33.333 0.00 0.00 0.00 1.94
6810 7018 7.867909 CCCTTGAATTAACTCTTCTCCAAAAAC 59.132 37.037 0.00 0.00 0.00 2.43
6811 7019 7.867909 CCTTGAATTAACTCTTCTCCAAAAACC 59.132 37.037 0.00 0.00 0.00 3.27
6812 7020 7.284919 TGAATTAACTCTTCTCCAAAAACCC 57.715 36.000 0.00 0.00 0.00 4.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
121 122 4.728131 GGAAACGAACAAAAAGCAATTTGC 59.272 37.500 13.55 13.55 42.68 3.68
122 123 5.262422 GGGAAACGAACAAAAAGCAATTTG 58.738 37.500 11.37 11.37 44.11 2.32
123 124 4.334203 GGGGAAACGAACAAAAAGCAATTT 59.666 37.500 0.00 0.00 0.00 1.82
124 125 3.874543 GGGGAAACGAACAAAAAGCAATT 59.125 39.130 0.00 0.00 0.00 2.32
125 126 3.462982 GGGGAAACGAACAAAAAGCAAT 58.537 40.909 0.00 0.00 0.00 3.56
126 127 2.418884 GGGGGAAACGAACAAAAAGCAA 60.419 45.455 0.00 0.00 0.00 3.91
127 128 1.137282 GGGGGAAACGAACAAAAAGCA 59.863 47.619 0.00 0.00 0.00 3.91
128 129 1.411246 AGGGGGAAACGAACAAAAAGC 59.589 47.619 0.00 0.00 0.00 3.51
129 130 3.092334 CAGGGGGAAACGAACAAAAAG 57.908 47.619 0.00 0.00 0.00 2.27
627 628 2.762459 TATCACGGGGCGCCTCTT 60.762 61.111 26.87 13.67 0.00 2.85
655 656 4.496927 GCCGCCGCCTCCAATTTG 62.497 66.667 0.00 0.00 0.00 2.32
692 693 1.094785 ATCAGCCCCGAAAAATCACG 58.905 50.000 0.00 0.00 0.00 4.35
693 694 4.918810 ATAATCAGCCCCGAAAAATCAC 57.081 40.909 0.00 0.00 0.00 3.06
694 695 5.070001 CCTATAATCAGCCCCGAAAAATCA 58.930 41.667 0.00 0.00 0.00 2.57
695 696 4.459337 CCCTATAATCAGCCCCGAAAAATC 59.541 45.833 0.00 0.00 0.00 2.17
696 697 4.407365 CCCTATAATCAGCCCCGAAAAAT 58.593 43.478 0.00 0.00 0.00 1.82
1119 1120 5.359576 TGAGAGTAGCAAACACAAAATTGGT 59.640 36.000 0.00 0.00 40.14 3.67
1254 1284 3.255725 CTCTTAAACAATACCCGCACGA 58.744 45.455 0.00 0.00 0.00 4.35
1387 1445 7.606135 ATTCTTCAATGATGCCCATAATTGA 57.394 32.000 14.33 14.33 43.51 2.57
1427 1485 6.541934 AACTACAGGAACCCTTGATACTAC 57.458 41.667 0.00 0.00 0.00 2.73
1624 1685 5.220381 GGGCGCTTCTATTAATTTAAAGCC 58.780 41.667 7.64 15.38 39.26 4.35
1625 1686 5.009710 AGGGGCGCTTCTATTAATTTAAAGC 59.990 40.000 7.64 14.44 39.10 3.51
1626 1687 6.486993 AGAGGGGCGCTTCTATTAATTTAAAG 59.513 38.462 14.03 0.00 0.00 1.85
1627 1688 6.262273 CAGAGGGGCGCTTCTATTAATTTAAA 59.738 38.462 15.20 0.00 0.00 1.52
1628 1689 5.763204 CAGAGGGGCGCTTCTATTAATTTAA 59.237 40.000 15.20 0.00 0.00 1.52
1629 1690 5.305585 CAGAGGGGCGCTTCTATTAATTTA 58.694 41.667 15.20 0.00 0.00 1.40
1630 1691 4.137543 CAGAGGGGCGCTTCTATTAATTT 58.862 43.478 15.20 0.00 0.00 1.82
1631 1692 3.496870 CCAGAGGGGCGCTTCTATTAATT 60.497 47.826 15.20 0.00 0.00 1.40
1632 1693 2.039084 CCAGAGGGGCGCTTCTATTAAT 59.961 50.000 15.20 0.00 0.00 1.40
1633 1694 1.416401 CCAGAGGGGCGCTTCTATTAA 59.584 52.381 15.20 0.00 0.00 1.40
1634 1695 1.048601 CCAGAGGGGCGCTTCTATTA 58.951 55.000 15.20 0.00 0.00 0.98
1635 1696 0.983378 ACCAGAGGGGCGCTTCTATT 60.983 55.000 15.20 2.54 42.05 1.73
1636 1697 0.983378 AACCAGAGGGGCGCTTCTAT 60.983 55.000 15.20 4.19 42.05 1.98
1637 1698 1.198759 AAACCAGAGGGGCGCTTCTA 61.199 55.000 15.20 0.00 42.05 2.10
1638 1699 1.198759 TAAACCAGAGGGGCGCTTCT 61.199 55.000 9.78 9.78 42.05 2.85
1639 1700 1.025113 GTAAACCAGAGGGGCGCTTC 61.025 60.000 7.64 4.57 42.05 3.86
1640 1701 1.002502 GTAAACCAGAGGGGCGCTT 60.003 57.895 7.64 0.00 42.05 4.68
1641 1702 2.185310 CTGTAAACCAGAGGGGCGCT 62.185 60.000 7.64 2.69 44.49 5.92
1642 1703 1.745489 CTGTAAACCAGAGGGGCGC 60.745 63.158 0.00 0.00 44.49 6.53
1643 1704 1.980052 TCTGTAAACCAGAGGGGCG 59.020 57.895 0.00 0.00 45.34 6.13
1660 1721 8.502387 GTTGATGGCTTGATCAAATATCTACTC 58.498 37.037 20.47 9.25 42.58 2.59
1779 1841 4.819630 TGTCGTTTAGCTGTTCAAGGAAAT 59.180 37.500 0.00 0.00 0.00 2.17
2035 2097 4.219288 GCCAATTTTCTCACCAAGATCACT 59.781 41.667 0.00 0.00 32.82 3.41
2062 2124 0.758310 TGCATGGTGGCCAAAACTCA 60.758 50.000 7.24 0.00 36.95 3.41
2173 2235 2.404459 CCCCCACCCCACATAAGAA 58.596 57.895 0.00 0.00 0.00 2.52
2281 2343 8.927675 TCTACTAGAATATCCAAGAGAAGACC 57.072 38.462 0.00 0.00 0.00 3.85
2650 2712 8.026607 GCCAACAGTATTGCTTTTAGATGTAAA 58.973 33.333 0.00 0.00 0.00 2.01
2651 2713 7.535139 GCCAACAGTATTGCTTTTAGATGTAA 58.465 34.615 0.00 0.00 0.00 2.41
3174 3237 3.795688 TCTTCTGGTCAAAAGGCAGAT 57.204 42.857 0.00 0.00 0.00 2.90
3216 3279 4.032960 TCACAACCATTCTTGCAGGTAT 57.967 40.909 0.00 0.00 34.63 2.73
3267 3330 3.005155 GCCAGCAAATATGGGAAGTGATC 59.995 47.826 0.00 0.00 38.33 2.92
3669 3804 6.429078 GCATATATCAGAGGCAAATGAAGTGA 59.571 38.462 0.00 0.00 0.00 3.41
3774 3909 3.997021 AGCGAAATATAAAGCATCTCCCG 59.003 43.478 0.00 0.00 0.00 5.14
3940 4078 7.849804 ATCGCATTAGAGTGAAACATTAAGT 57.150 32.000 0.00 0.00 41.43 2.24
3944 4082 9.906660 TTTTAAATCGCATTAGAGTGAAACATT 57.093 25.926 0.00 0.00 41.43 2.71
3977 4115 3.847671 AGCCCTTAGGAATACTTCAGC 57.152 47.619 0.00 0.00 33.47 4.26
4072 4210 1.833630 TCTGGCATCCTTCCACAGTAG 59.166 52.381 0.00 0.00 0.00 2.57
4121 4259 8.700439 AGAGTAGTGATAAATCCTTCTCTACC 57.300 38.462 11.96 2.66 38.67 3.18
4851 5006 0.539438 GGTTCCATGGAAGCCACACA 60.539 55.000 36.25 9.78 44.15 3.72
5138 5293 2.364186 TGCCGCTGAGATCCCTCA 60.364 61.111 0.00 0.00 46.48 3.86
5196 5351 1.380785 CCCCAGCTGCCATGTCAAT 60.381 57.895 8.66 0.00 0.00 2.57
5282 5437 1.000955 CCGGATACCTGGAATCCTTCG 59.999 57.143 0.00 0.00 41.53 3.79
5315 5470 1.337118 CTGAGGAGGAGCTACCATCC 58.663 60.000 0.00 0.00 42.04 3.51
5689 5845 5.803461 CACAAGATTGCAATTGGTGTCATAG 59.197 40.000 14.33 3.25 0.00 2.23
5855 6011 2.572104 AGTCCCTAGTACCTGCCTTTTG 59.428 50.000 0.00 0.00 0.00 2.44
5948 6105 4.973168 TCTAGACAAAACTCATGCCAAGT 58.027 39.130 0.00 0.00 0.00 3.16
6025 6183 3.709653 TCAGAACTACTTGTGAACCACCT 59.290 43.478 0.00 0.00 32.73 4.00
6261 6421 7.287061 TCTCACAGGAAATAAAAGAGGACAAA 58.713 34.615 0.00 0.00 0.00 2.83
6262 6422 6.837312 TCTCACAGGAAATAAAAGAGGACAA 58.163 36.000 0.00 0.00 0.00 3.18
6341 6501 1.089920 ATTGCAGTCAATCACGGAGC 58.910 50.000 0.00 0.00 38.47 4.70
6342 6502 4.393062 ACTTTATTGCAGTCAATCACGGAG 59.607 41.667 0.00 0.00 41.68 4.63
6344 6504 4.685169 ACTTTATTGCAGTCAATCACGG 57.315 40.909 0.00 0.00 41.68 4.94
6392 6554 3.762288 ACCTCAGTGCGTTTAGATCACTA 59.238 43.478 0.00 0.00 38.85 2.74
6393 6555 2.563179 ACCTCAGTGCGTTTAGATCACT 59.437 45.455 0.00 0.00 41.29 3.41
6396 6558 4.373348 ACTACCTCAGTGCGTTTAGATC 57.627 45.455 0.00 0.00 35.62 2.75
6426 6588 9.469807 AGAGCGATTAAATCACTAATAAGAGTG 57.530 33.333 0.00 0.00 46.90 3.51
6448 6610 7.224522 TCCCTCCGTAAACTAATATAAGAGC 57.775 40.000 0.00 0.00 0.00 4.09
6572 6780 6.207417 CCGATGATAGCAATCTTAATTGGGTT 59.793 38.462 0.00 0.00 42.18 4.11
6582 6790 4.156455 ACAAACCCGATGATAGCAATCT 57.844 40.909 0.00 0.00 32.93 2.40
6589 6797 6.239396 TCCAAAGTTAACAAACCCGATGATA 58.761 36.000 8.61 0.00 0.00 2.15
6623 6831 7.747155 TTTATTCAATTGTCTCCCGTTTACA 57.253 32.000 5.13 0.00 0.00 2.41
6627 6835 7.645058 ATCATTTATTCAATTGTCTCCCGTT 57.355 32.000 5.13 0.00 0.00 4.44
6628 6836 7.339212 TCAATCATTTATTCAATTGTCTCCCGT 59.661 33.333 5.13 0.00 32.31 5.28
6629 6837 7.706159 TCAATCATTTATTCAATTGTCTCCCG 58.294 34.615 5.13 0.00 32.31 5.14
6630 6838 9.305925 GTTCAATCATTTATTCAATTGTCTCCC 57.694 33.333 5.13 0.00 32.31 4.30
6635 6843 9.345517 CGACAGTTCAATCATTTATTCAATTGT 57.654 29.630 5.13 0.00 32.31 2.71
6636 6844 9.558648 TCGACAGTTCAATCATTTATTCAATTG 57.441 29.630 0.00 0.00 0.00 2.32
6639 6847 9.773328 GAATCGACAGTTCAATCATTTATTCAA 57.227 29.630 0.00 0.00 0.00 2.69
6640 6848 8.397906 GGAATCGACAGTTCAATCATTTATTCA 58.602 33.333 0.00 0.00 0.00 2.57
6641 6849 8.397906 TGGAATCGACAGTTCAATCATTTATTC 58.602 33.333 0.00 0.00 0.00 1.75
6642 6850 8.279970 TGGAATCGACAGTTCAATCATTTATT 57.720 30.769 0.00 0.00 0.00 1.40
6643 6851 7.864108 TGGAATCGACAGTTCAATCATTTAT 57.136 32.000 0.00 0.00 0.00 1.40
6644 6852 7.864108 ATGGAATCGACAGTTCAATCATTTA 57.136 32.000 0.00 0.00 0.00 1.40
6645 6853 6.764308 ATGGAATCGACAGTTCAATCATTT 57.236 33.333 0.00 0.00 0.00 2.32
6646 6854 6.375174 TCAATGGAATCGACAGTTCAATCATT 59.625 34.615 0.00 0.00 0.00 2.57
6647 6855 5.882000 TCAATGGAATCGACAGTTCAATCAT 59.118 36.000 0.00 0.00 0.00 2.45
6648 6856 5.244755 TCAATGGAATCGACAGTTCAATCA 58.755 37.500 0.00 0.00 0.00 2.57
6649 6857 5.801350 TCAATGGAATCGACAGTTCAATC 57.199 39.130 0.00 0.00 0.00 2.67
6650 6858 6.375174 TCAATCAATGGAATCGACAGTTCAAT 59.625 34.615 0.00 0.00 0.00 2.57
6651 6859 5.704978 TCAATCAATGGAATCGACAGTTCAA 59.295 36.000 0.00 0.00 0.00 2.69
6652 6860 5.244755 TCAATCAATGGAATCGACAGTTCA 58.755 37.500 0.00 0.00 0.00 3.18
6653 6861 5.801350 TCAATCAATGGAATCGACAGTTC 57.199 39.130 0.00 0.00 0.00 3.01
6654 6862 6.600822 AGAATCAATCAATGGAATCGACAGTT 59.399 34.615 0.00 0.00 0.00 3.16
6655 6863 6.118170 AGAATCAATCAATGGAATCGACAGT 58.882 36.000 0.00 0.00 0.00 3.55
6656 6864 6.563567 CGAGAATCAATCAATGGAATCGACAG 60.564 42.308 0.00 0.00 33.17 3.51
6657 6865 5.234972 CGAGAATCAATCAATGGAATCGACA 59.765 40.000 0.00 0.00 33.17 4.35
6658 6866 5.333645 CCGAGAATCAATCAATGGAATCGAC 60.334 44.000 0.00 0.00 33.17 4.20
6659 6867 4.751600 CCGAGAATCAATCAATGGAATCGA 59.248 41.667 0.00 0.00 33.17 3.59
6660 6868 4.512944 ACCGAGAATCAATCAATGGAATCG 59.487 41.667 0.00 0.00 33.17 3.34
6661 6869 7.678947 ATACCGAGAATCAATCAATGGAATC 57.321 36.000 0.00 0.00 33.17 2.52
6669 6877 8.924303 CCCCTTATATATACCGAGAATCAATCA 58.076 37.037 0.00 0.00 33.17 2.57
6670 6878 9.144298 TCCCCTTATATATACCGAGAATCAATC 57.856 37.037 0.00 0.00 33.17 2.67
6671 6879 9.502035 TTCCCCTTATATATACCGAGAATCAAT 57.498 33.333 0.00 0.00 33.17 2.57
6672 6880 8.755977 GTTCCCCTTATATATACCGAGAATCAA 58.244 37.037 0.00 0.00 33.17 2.57
6673 6881 7.897030 TGTTCCCCTTATATATACCGAGAATCA 59.103 37.037 0.00 0.00 33.17 2.57
6674 6882 8.302515 TGTTCCCCTTATATATACCGAGAATC 57.697 38.462 0.00 0.00 0.00 2.52
6675 6883 8.120538 TCTGTTCCCCTTATATATACCGAGAAT 58.879 37.037 0.00 0.00 0.00 2.40
6676 6884 7.395489 GTCTGTTCCCCTTATATATACCGAGAA 59.605 40.741 0.00 0.00 0.00 2.87
6677 6885 6.888632 GTCTGTTCCCCTTATATATACCGAGA 59.111 42.308 0.00 0.00 0.00 4.04
6678 6886 6.662234 TGTCTGTTCCCCTTATATATACCGAG 59.338 42.308 0.00 0.00 0.00 4.63
6679 6887 6.435277 GTGTCTGTTCCCCTTATATATACCGA 59.565 42.308 0.00 0.00 0.00 4.69
6680 6888 6.624423 CGTGTCTGTTCCCCTTATATATACCG 60.624 46.154 0.00 0.00 0.00 4.02
6681 6889 6.435277 TCGTGTCTGTTCCCCTTATATATACC 59.565 42.308 0.00 0.00 0.00 2.73
6682 6890 7.458409 TCGTGTCTGTTCCCCTTATATATAC 57.542 40.000 0.00 0.00 0.00 1.47
6683 6891 7.066645 CGATCGTGTCTGTTCCCCTTATATATA 59.933 40.741 7.03 0.00 0.00 0.86
6684 6892 6.127703 CGATCGTGTCTGTTCCCCTTATATAT 60.128 42.308 7.03 0.00 0.00 0.86
6685 6893 5.182570 CGATCGTGTCTGTTCCCCTTATATA 59.817 44.000 7.03 0.00 0.00 0.86
6686 6894 4.022242 CGATCGTGTCTGTTCCCCTTATAT 60.022 45.833 7.03 0.00 0.00 0.86
6687 6895 3.317149 CGATCGTGTCTGTTCCCCTTATA 59.683 47.826 7.03 0.00 0.00 0.98
6688 6896 2.100916 CGATCGTGTCTGTTCCCCTTAT 59.899 50.000 7.03 0.00 0.00 1.73
6689 6897 1.475280 CGATCGTGTCTGTTCCCCTTA 59.525 52.381 7.03 0.00 0.00 2.69
6690 6898 0.246635 CGATCGTGTCTGTTCCCCTT 59.753 55.000 7.03 0.00 0.00 3.95
6691 6899 0.611062 TCGATCGTGTCTGTTCCCCT 60.611 55.000 15.94 0.00 0.00 4.79
6692 6900 0.179134 CTCGATCGTGTCTGTTCCCC 60.179 60.000 15.94 0.00 0.00 4.81
6693 6901 0.809385 TCTCGATCGTGTCTGTTCCC 59.191 55.000 15.94 0.00 0.00 3.97
6694 6902 1.738350 TCTCTCGATCGTGTCTGTTCC 59.262 52.381 15.94 0.00 0.00 3.62
6695 6903 3.358775 CATCTCTCGATCGTGTCTGTTC 58.641 50.000 15.94 0.00 0.00 3.18
6696 6904 2.478709 GCATCTCTCGATCGTGTCTGTT 60.479 50.000 15.94 1.16 0.00 3.16
6697 6905 1.064803 GCATCTCTCGATCGTGTCTGT 59.935 52.381 15.94 0.00 0.00 3.41
6698 6906 1.064654 TGCATCTCTCGATCGTGTCTG 59.935 52.381 15.94 12.18 0.00 3.51
6699 6907 1.383523 TGCATCTCTCGATCGTGTCT 58.616 50.000 15.94 0.00 0.00 3.41
6700 6908 2.049959 CATGCATCTCTCGATCGTGTC 58.950 52.381 15.94 3.05 0.00 3.67
6701 6909 1.867289 GCATGCATCTCTCGATCGTGT 60.867 52.381 14.21 0.00 0.00 4.49
6702 6910 0.782981 GCATGCATCTCTCGATCGTG 59.217 55.000 14.21 13.26 0.00 4.35
6703 6911 0.662672 CGCATGCATCTCTCGATCGT 60.663 55.000 19.57 0.00 0.00 3.73
6704 6912 0.386478 TCGCATGCATCTCTCGATCG 60.386 55.000 19.57 9.36 0.00 3.69
6705 6913 1.059173 GTCGCATGCATCTCTCGATC 58.941 55.000 19.57 0.00 0.00 3.69
6706 6914 0.672889 AGTCGCATGCATCTCTCGAT 59.327 50.000 19.57 0.00 0.00 3.59
6707 6915 0.248784 CAGTCGCATGCATCTCTCGA 60.249 55.000 19.57 1.37 0.00 4.04
6708 6916 0.527169 ACAGTCGCATGCATCTCTCG 60.527 55.000 19.57 6.03 0.00 4.04
6709 6917 1.649664 AACAGTCGCATGCATCTCTC 58.350 50.000 19.57 0.81 0.00 3.20
6710 6918 1.736126 CAAACAGTCGCATGCATCTCT 59.264 47.619 19.57 6.79 0.00 3.10
6711 6919 1.466167 ACAAACAGTCGCATGCATCTC 59.534 47.619 19.57 4.45 0.00 2.75
6712 6920 1.527034 ACAAACAGTCGCATGCATCT 58.473 45.000 19.57 12.01 0.00 2.90
6713 6921 2.672874 TCTACAAACAGTCGCATGCATC 59.327 45.455 19.57 9.73 0.00 3.91
6714 6922 2.674852 CTCTACAAACAGTCGCATGCAT 59.325 45.455 19.57 0.00 0.00 3.96
6715 6923 2.068519 CTCTACAAACAGTCGCATGCA 58.931 47.619 19.57 1.73 0.00 3.96
6716 6924 1.394917 CCTCTACAAACAGTCGCATGC 59.605 52.381 7.91 7.91 0.00 4.06
6717 6925 2.413112 CACCTCTACAAACAGTCGCATG 59.587 50.000 0.00 0.00 0.00 4.06
6718 6926 2.688507 CACCTCTACAAACAGTCGCAT 58.311 47.619 0.00 0.00 0.00 4.73
6719 6927 1.872237 GCACCTCTACAAACAGTCGCA 60.872 52.381 0.00 0.00 0.00 5.10
6720 6928 0.790814 GCACCTCTACAAACAGTCGC 59.209 55.000 0.00 0.00 0.00 5.19
6721 6929 2.148916 TGCACCTCTACAAACAGTCG 57.851 50.000 0.00 0.00 0.00 4.18
6722 6930 2.808543 CCTTGCACCTCTACAAACAGTC 59.191 50.000 0.00 0.00 0.00 3.51
6723 6931 2.487265 CCCTTGCACCTCTACAAACAGT 60.487 50.000 0.00 0.00 0.00 3.55
6724 6932 2.154462 CCCTTGCACCTCTACAAACAG 58.846 52.381 0.00 0.00 0.00 3.16
6725 6933 1.202879 CCCCTTGCACCTCTACAAACA 60.203 52.381 0.00 0.00 0.00 2.83
6726 6934 1.073284 TCCCCTTGCACCTCTACAAAC 59.927 52.381 0.00 0.00 0.00 2.93
6727 6935 1.351017 CTCCCCTTGCACCTCTACAAA 59.649 52.381 0.00 0.00 0.00 2.83
6728 6936 0.984230 CTCCCCTTGCACCTCTACAA 59.016 55.000 0.00 0.00 0.00 2.41
6729 6937 1.553690 GCTCCCCTTGCACCTCTACA 61.554 60.000 0.00 0.00 0.00 2.74
6730 6938 1.222113 GCTCCCCTTGCACCTCTAC 59.778 63.158 0.00 0.00 0.00 2.59
6731 6939 2.359169 CGCTCCCCTTGCACCTCTA 61.359 63.158 0.00 0.00 0.00 2.43
6732 6940 3.710722 CGCTCCCCTTGCACCTCT 61.711 66.667 0.00 0.00 0.00 3.69
6733 6941 4.785453 CCGCTCCCCTTGCACCTC 62.785 72.222 0.00 0.00 0.00 3.85
6757 6965 0.179000 AGAGATGATCGGTGGCAACC 59.821 55.000 0.00 0.00 43.76 3.77
6758 6966 1.293924 CAGAGATGATCGGTGGCAAC 58.706 55.000 0.00 0.00 0.00 4.17
6759 6967 0.178767 CCAGAGATGATCGGTGGCAA 59.821 55.000 3.62 0.00 0.00 4.52
6760 6968 0.687427 TCCAGAGATGATCGGTGGCA 60.687 55.000 10.28 0.00 0.00 4.92
6761 6969 0.465705 TTCCAGAGATGATCGGTGGC 59.534 55.000 10.28 0.00 0.00 5.01
6762 6970 2.366590 TGATTCCAGAGATGATCGGTGG 59.633 50.000 9.16 9.16 0.00 4.61
6763 6971 3.388308 GTGATTCCAGAGATGATCGGTG 58.612 50.000 0.00 0.00 0.00 4.94
6764 6972 2.366916 GGTGATTCCAGAGATGATCGGT 59.633 50.000 0.00 0.00 35.97 4.69
6765 6973 2.289320 GGGTGATTCCAGAGATGATCGG 60.289 54.545 0.00 0.00 38.11 4.18
6766 6974 2.632028 AGGGTGATTCCAGAGATGATCG 59.368 50.000 0.00 0.00 38.11 3.69
6767 6975 4.102210 TCAAGGGTGATTCCAGAGATGATC 59.898 45.833 0.00 0.00 38.11 2.92
6768 6976 4.042884 TCAAGGGTGATTCCAGAGATGAT 58.957 43.478 0.00 0.00 38.11 2.45
6769 6977 3.453868 TCAAGGGTGATTCCAGAGATGA 58.546 45.455 0.00 0.00 38.11 2.92
6770 6978 3.920231 TCAAGGGTGATTCCAGAGATG 57.080 47.619 0.00 0.00 38.11 2.90
6771 6979 5.463051 AATTCAAGGGTGATTCCAGAGAT 57.537 39.130 0.00 0.00 38.11 2.75
6772 6980 4.934797 AATTCAAGGGTGATTCCAGAGA 57.065 40.909 0.00 0.00 38.11 3.10
6773 6981 6.183347 AGTTAATTCAAGGGTGATTCCAGAG 58.817 40.000 0.00 0.00 38.11 3.35
6774 6982 6.012508 AGAGTTAATTCAAGGGTGATTCCAGA 60.013 38.462 0.44 0.00 38.11 3.86
6775 6983 6.183347 AGAGTTAATTCAAGGGTGATTCCAG 58.817 40.000 0.44 0.00 38.11 3.86
6776 6984 6.139679 AGAGTTAATTCAAGGGTGATTCCA 57.860 37.500 0.44 0.00 38.11 3.53
6777 6985 6.887002 AGAAGAGTTAATTCAAGGGTGATTCC 59.113 38.462 0.44 0.00 32.48 3.01
6778 6986 7.066404 GGAGAAGAGTTAATTCAAGGGTGATTC 59.934 40.741 0.44 0.00 32.48 2.52
6779 6987 6.887002 GGAGAAGAGTTAATTCAAGGGTGATT 59.113 38.462 0.44 0.00 32.48 2.57
6780 6988 6.012508 TGGAGAAGAGTTAATTCAAGGGTGAT 60.013 38.462 0.44 0.00 32.48 3.06
6781 6989 5.309543 TGGAGAAGAGTTAATTCAAGGGTGA 59.690 40.000 0.44 0.00 0.00 4.02
6782 6990 5.560724 TGGAGAAGAGTTAATTCAAGGGTG 58.439 41.667 0.44 0.00 0.00 4.61
6783 6991 5.843019 TGGAGAAGAGTTAATTCAAGGGT 57.157 39.130 0.44 0.00 0.00 4.34
6784 6992 7.524717 TTTTGGAGAAGAGTTAATTCAAGGG 57.475 36.000 0.44 0.00 0.00 3.95
6785 6993 7.867909 GGTTTTTGGAGAAGAGTTAATTCAAGG 59.132 37.037 0.44 0.00 0.00 3.61
6786 6994 7.867909 GGGTTTTTGGAGAAGAGTTAATTCAAG 59.132 37.037 0.44 0.00 0.00 3.02
6787 6995 7.722363 GGGTTTTTGGAGAAGAGTTAATTCAA 58.278 34.615 0.44 0.00 0.00 2.69
6788 6996 7.284919 GGGTTTTTGGAGAAGAGTTAATTCA 57.715 36.000 0.44 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.