Multiple sequence alignment - TraesCS7D01G402200

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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 TraesCS7D01G402200 chr7D 100.000 6708 0 0 1 6708 519261300 519268007 0.000000e+00 12388
1 TraesCS7D01G402200 chr7D 86.398 522 71 0 1 522 519271751 519271230 7.550000e-159 571
2 TraesCS7D01G402200 chr7D 78.320 512 79 19 2137 2623 519262673 519263177 1.090000e-77 302
3 TraesCS7D01G402200 chr7D 78.363 513 77 21 1374 1878 519263436 519263922 1.090000e-77 302
4 TraesCS7D01G402200 chr7D 93.750 176 11 0 6328 6503 519267453 519267628 1.430000e-66 265
5 TraesCS7D01G402200 chr7D 93.750 176 11 0 6154 6329 519267627 519267802 1.430000e-66 265
6 TraesCS7D01G402200 chr7D 97.059 102 1 2 3239 3339 141292080 141292180 3.220000e-38 171
7 TraesCS7D01G402200 chr7D 95.283 106 1 4 3235 3337 426558885 426558989 1.500000e-36 165
8 TraesCS7D01G402200 chr7D 85.915 142 18 2 5536 5676 519266700 519266840 4.190000e-32 150
9 TraesCS7D01G402200 chr7D 85.915 142 18 2 5401 5541 519266835 519266975 4.190000e-32 150
10 TraesCS7D01G402200 chr7A 93.978 3288 137 27 1 3260 595069174 595072428 0.000000e+00 4918
11 TraesCS7D01G402200 chr7A 97.055 2920 58 8 3318 6236 595072519 595075411 0.000000e+00 4891
12 TraesCS7D01G402200 chr7A 86.973 522 68 0 1 522 595199359 595198838 7.490000e-164 588
13 TraesCS7D01G402200 chr7A 95.339 236 9 1 6475 6708 595076290 595076525 2.280000e-99 374
14 TraesCS7D01G402200 chr7A 77.821 514 66 23 2135 2623 595070545 595071035 2.380000e-69 274
15 TraesCS7D01G402200 chr7A 76.321 511 91 17 1374 1878 595071294 595071780 5.200000e-61 246
16 TraesCS7D01G402200 chr7A 87.324 142 16 2 5536 5676 595074589 595074729 1.940000e-35 161
17 TraesCS7D01G402200 chr7A 87.234 141 18 0 5401 5541 595074724 595074864 1.940000e-35 161
18 TraesCS7D01G402200 chr7B 96.475 2014 68 2 4316 6329 552564814 552566824 0.000000e+00 3323
19 TraesCS7D01G402200 chr7B 92.764 2294 118 28 961 3236 552561701 552563964 0.000000e+00 3273
20 TraesCS7D01G402200 chr7B 98.822 849 10 0 3330 4178 552563981 552564829 0.000000e+00 1513
21 TraesCS7D01G402200 chr7B 94.203 966 45 5 1 960 552560342 552561302 0.000000e+00 1463
22 TraesCS7D01G402200 chr7B 93.963 381 22 1 6328 6708 552566649 552567028 5.830000e-160 575
23 TraesCS7D01G402200 chr7B 86.015 522 73 0 1 522 552666169 552665648 1.630000e-155 560
24 TraesCS7D01G402200 chr7B 77.778 513 80 19 1374 1878 552562869 552563355 1.100000e-72 285
25 TraesCS7D01G402200 chr7B 82.006 339 56 5 2288 2623 552562265 552562601 3.960000e-72 283
26 TraesCS7D01G402200 chr7B 86.620 142 17 2 5401 5541 552566034 552566174 9.010000e-34 156
27 TraesCS7D01G402200 chr1A 95.862 145 5 1 4179 4323 292062993 292063136 4.040000e-57 233
28 TraesCS7D01G402200 chr4B 96.429 140 5 0 4179 4318 350805612 350805751 1.450000e-56 231
29 TraesCS7D01G402200 chr4B 90.964 166 10 3 4152 4317 174695267 174695107 1.130000e-52 219
30 TraesCS7D01G402200 chr4B 91.150 113 7 2 3222 3334 484771841 484771732 4.190000e-32 150
31 TraesCS7D01G402200 chr2B 94.118 153 7 2 4176 4326 534709911 534709759 1.450000e-56 231
32 TraesCS7D01G402200 chr2B 95.238 105 5 0 3237 3341 387076178 387076282 4.160000e-37 167
33 TraesCS7D01G402200 chr5B 94.118 153 6 3 4179 4330 128675921 128676071 5.230000e-56 230
34 TraesCS7D01G402200 chr5D 93.082 159 6 4 4179 4334 182142350 182142194 1.880000e-55 228
35 TraesCS7D01G402200 chr5D 93.750 112 4 3 3239 3349 267846589 267846698 1.500000e-36 165
36 TraesCS7D01G402200 chr5D 97.895 95 2 0 3247 3341 294640319 294640225 1.500000e-36 165
37 TraesCS7D01G402200 chr4A 92.994 157 7 4 4179 4335 739032233 739032385 6.770000e-55 226
38 TraesCS7D01G402200 chr6B 90.964 166 12 3 4179 4343 54858599 54858762 3.150000e-53 220
39 TraesCS7D01G402200 chr2D 96.000 100 2 2 3237 3336 15682993 15682896 1.940000e-35 161
40 TraesCS7D01G402200 chr1B 94.231 104 5 1 3239 3342 436383758 436383656 2.500000e-34 158
41 TraesCS7D01G402200 chr1D 91.150 113 8 1 3223 3333 335991740 335991852 1.170000e-32 152
42 TraesCS7D01G402200 chr5A 86.719 128 10 6 3243 3366 215479590 215479466 1.170000e-27 135


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 TraesCS7D01G402200 chr7D 519261300 519268007 6707 False 12388.000 12388 100.000000 1 6708 1 chr7D.!!$F3 6707
1 TraesCS7D01G402200 chr7D 519271230 519271751 521 True 571.000 571 86.398000 1 522 1 chr7D.!!$R1 521
2 TraesCS7D01G402200 chr7D 519262673 519267802 5129 False 239.000 302 86.002167 1374 6503 6 chr7D.!!$F4 5129
3 TraesCS7D01G402200 chr7A 595069174 595076525 7351 False 1575.000 4918 87.867429 1 6708 7 chr7A.!!$F1 6707
4 TraesCS7D01G402200 chr7A 595198838 595199359 521 True 588.000 588 86.973000 1 522 1 chr7A.!!$R1 521
5 TraesCS7D01G402200 chr7B 552560342 552567028 6686 False 1358.875 3323 90.328875 1 6708 8 chr7B.!!$F1 6707
6 TraesCS7D01G402200 chr7B 552665648 552666169 521 True 560.000 560 86.015000 1 522 1 chr7B.!!$R1 521

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
709 710 0.768622 ACGGATTGGAGGTTGGTGAA 59.231 50.0 0.00 0.00 0.00 3.18 F
969 1382 1.039856 GCTGCTAGGGAAGAGAGAGG 58.960 60.0 0.00 0.00 0.00 3.69 F
3465 3944 0.038021 TATGTTTGCTGCAGGCCTGA 59.962 50.0 37.21 19.62 40.92 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3466 3945 3.074390 TCTTTTTCTTCTCTGGGCCATCA 59.926 43.478 6.72 0.0 0.0 3.07 R
3467 3946 3.690460 TCTTTTTCTTCTCTGGGCCATC 58.310 45.455 6.72 0.0 0.0 3.51 R
6212 6710 1.134788 CGGCGACATCTCTTAAACCCT 60.135 52.381 0.00 0.0 0.0 4.34 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
184 185 3.434319 CATGGGGTGCGTGCAGAC 61.434 66.667 0.00 0.00 0.00 3.51
350 351 4.296729 AGGAGGACCACGTCGGGT 62.297 66.667 5.24 5.24 46.02 5.28
709 710 0.768622 ACGGATTGGAGGTTGGTGAA 59.231 50.000 0.00 0.00 0.00 3.18
815 816 2.126071 CTGGTCGGTGCGGTACAG 60.126 66.667 0.00 0.00 0.00 2.74
953 968 1.452108 GGGAGACGGGGAATTGCTG 60.452 63.158 0.00 0.00 0.00 4.41
955 970 1.078143 GAGACGGGGAATTGCTGCT 60.078 57.895 0.00 0.00 0.00 4.24
969 1382 1.039856 GCTGCTAGGGAAGAGAGAGG 58.960 60.000 0.00 0.00 0.00 3.69
970 1383 1.687996 GCTGCTAGGGAAGAGAGAGGT 60.688 57.143 0.00 0.00 0.00 3.85
3465 3944 0.038021 TATGTTTGCTGCAGGCCTGA 59.962 50.000 37.21 19.62 40.92 3.86
3466 3945 0.613853 ATGTTTGCTGCAGGCCTGAT 60.614 50.000 37.21 15.19 40.92 2.90
3467 3946 1.214589 GTTTGCTGCAGGCCTGATG 59.785 57.895 37.21 26.16 40.92 3.07
5830 6326 0.836400 TCTGAAGGTCACTGGGGTCC 60.836 60.000 0.00 0.00 0.00 4.46
5831 6327 1.074090 TGAAGGTCACTGGGGTCCA 60.074 57.895 0.00 0.00 0.00 4.02
5832 6328 1.375326 GAAGGTCACTGGGGTCCAC 59.625 63.158 0.00 0.00 0.00 4.02
5833 6329 2.450479 GAAGGTCACTGGGGTCCACG 62.450 65.000 0.00 0.00 0.00 4.94
5834 6330 4.016706 GGTCACTGGGGTCCACGG 62.017 72.222 0.00 0.00 0.00 4.94
5835 6331 3.239253 GTCACTGGGGTCCACGGT 61.239 66.667 0.00 0.00 0.00 4.83
5836 6332 3.238497 TCACTGGGGTCCACGGTG 61.238 66.667 25.22 25.22 44.59 4.94
5837 6333 3.238497 CACTGGGGTCCACGGTGA 61.238 66.667 26.79 0.00 45.76 4.02
5838 6334 2.923035 ACTGGGGTCCACGGTGAG 60.923 66.667 4.24 0.00 0.00 3.51
5839 6335 2.923035 CTGGGGTCCACGGTGAGT 60.923 66.667 10.28 0.00 0.00 3.41
5840 6336 1.608336 CTGGGGTCCACGGTGAGTA 60.608 63.158 10.28 0.00 0.00 2.59
5841 6337 0.976073 CTGGGGTCCACGGTGAGTAT 60.976 60.000 10.28 0.00 0.00 2.12
5842 6338 0.545787 TGGGGTCCACGGTGAGTATT 60.546 55.000 10.28 0.00 0.00 1.89
5843 6339 0.177373 GGGGTCCACGGTGAGTATTC 59.823 60.000 10.28 0.00 0.00 1.75
6071 6568 2.746362 CCTGTTCTTCAGACATGCCTTC 59.254 50.000 0.00 0.00 46.27 3.46
6158 6656 2.705658 TGTCCTCCACTGACACAAATCT 59.294 45.455 0.00 0.00 37.80 2.40
6159 6657 3.136443 TGTCCTCCACTGACACAAATCTT 59.864 43.478 0.00 0.00 37.80 2.40
6160 6658 3.748568 GTCCTCCACTGACACAAATCTTC 59.251 47.826 0.00 0.00 32.91 2.87
6161 6659 3.648067 TCCTCCACTGACACAAATCTTCT 59.352 43.478 0.00 0.00 0.00 2.85
6162 6660 3.999663 CCTCCACTGACACAAATCTTCTC 59.000 47.826 0.00 0.00 0.00 2.87
6163 6661 4.262808 CCTCCACTGACACAAATCTTCTCT 60.263 45.833 0.00 0.00 0.00 3.10
6164 6662 5.047021 CCTCCACTGACACAAATCTTCTCTA 60.047 44.000 0.00 0.00 0.00 2.43
6165 6663 6.351711 CCTCCACTGACACAAATCTTCTCTAT 60.352 42.308 0.00 0.00 0.00 1.98
6166 6664 6.401394 TCCACTGACACAAATCTTCTCTATG 58.599 40.000 0.00 0.00 0.00 2.23
6167 6665 5.064452 CCACTGACACAAATCTTCTCTATGC 59.936 44.000 0.00 0.00 0.00 3.14
6168 6666 5.064452 CACTGACACAAATCTTCTCTATGCC 59.936 44.000 0.00 0.00 0.00 4.40
6169 6667 5.164620 TGACACAAATCTTCTCTATGCCA 57.835 39.130 0.00 0.00 0.00 4.92
6170 6668 4.937620 TGACACAAATCTTCTCTATGCCAC 59.062 41.667 0.00 0.00 0.00 5.01
6171 6669 4.910195 ACACAAATCTTCTCTATGCCACA 58.090 39.130 0.00 0.00 0.00 4.17
6172 6670 5.503927 ACACAAATCTTCTCTATGCCACAT 58.496 37.500 0.00 0.00 0.00 3.21
6173 6671 5.948162 ACACAAATCTTCTCTATGCCACATT 59.052 36.000 0.00 0.00 0.00 2.71
6174 6672 7.112122 ACACAAATCTTCTCTATGCCACATTA 58.888 34.615 0.00 0.00 0.00 1.90
6175 6673 7.281774 ACACAAATCTTCTCTATGCCACATTAG 59.718 37.037 0.00 0.00 0.00 1.73
6176 6674 6.261826 ACAAATCTTCTCTATGCCACATTAGC 59.738 38.462 0.00 0.00 0.00 3.09
6177 6675 5.822132 ATCTTCTCTATGCCACATTAGCT 57.178 39.130 0.00 0.00 0.00 3.32
6178 6676 5.620738 TCTTCTCTATGCCACATTAGCTT 57.379 39.130 0.00 0.00 0.00 3.74
6179 6677 5.363101 TCTTCTCTATGCCACATTAGCTTG 58.637 41.667 0.00 0.00 0.00 4.01
6180 6678 4.077300 TCTCTATGCCACATTAGCTTGG 57.923 45.455 0.00 0.00 35.81 3.61
6181 6679 3.144506 CTCTATGCCACATTAGCTTGGG 58.855 50.000 4.36 0.00 33.01 4.12
6182 6680 1.610522 CTATGCCACATTAGCTTGGGC 59.389 52.381 4.36 7.44 44.82 5.36
6206 6704 7.658179 CTCTGTTAGCTTCTGTATGAAACAA 57.342 36.000 0.00 0.00 37.74 2.83
6207 6705 7.658179 TCTGTTAGCTTCTGTATGAAACAAG 57.342 36.000 0.00 0.00 37.74 3.16
6208 6706 7.441836 TCTGTTAGCTTCTGTATGAAACAAGA 58.558 34.615 0.00 0.00 37.74 3.02
6209 6707 7.385205 TCTGTTAGCTTCTGTATGAAACAAGAC 59.615 37.037 0.00 0.00 37.74 3.01
6210 6708 7.217200 TGTTAGCTTCTGTATGAAACAAGACT 58.783 34.615 0.00 0.00 37.74 3.24
6211 6709 7.715249 TGTTAGCTTCTGTATGAAACAAGACTT 59.285 33.333 0.00 0.00 37.74 3.01
6212 6710 9.204570 GTTAGCTTCTGTATGAAACAAGACTTA 57.795 33.333 0.00 0.00 37.74 2.24
6213 6711 7.897575 AGCTTCTGTATGAAACAAGACTTAG 57.102 36.000 0.00 0.00 37.74 2.18
6214 6712 6.876257 AGCTTCTGTATGAAACAAGACTTAGG 59.124 38.462 0.00 0.00 37.74 2.69
6215 6713 6.092807 GCTTCTGTATGAAACAAGACTTAGGG 59.907 42.308 0.00 0.00 37.74 3.53
6216 6714 6.681729 TCTGTATGAAACAAGACTTAGGGT 57.318 37.500 0.00 0.00 37.74 4.34
6217 6715 7.074653 TCTGTATGAAACAAGACTTAGGGTT 57.925 36.000 0.00 0.00 37.74 4.11
6218 6716 7.514721 TCTGTATGAAACAAGACTTAGGGTTT 58.485 34.615 2.67 2.67 37.74 3.27
6219 6717 8.653191 TCTGTATGAAACAAGACTTAGGGTTTA 58.347 33.333 2.98 0.00 37.74 2.01
6220 6718 9.280174 CTGTATGAAACAAGACTTAGGGTTTAA 57.720 33.333 2.98 0.00 37.74 1.52
6221 6719 9.280174 TGTATGAAACAAGACTTAGGGTTTAAG 57.720 33.333 2.98 0.00 34.29 1.85
6222 6720 9.498176 GTATGAAACAAGACTTAGGGTTTAAGA 57.502 33.333 2.98 0.00 33.92 2.10
6223 6721 8.622948 ATGAAACAAGACTTAGGGTTTAAGAG 57.377 34.615 2.98 0.00 33.92 2.85
6224 6722 7.798071 TGAAACAAGACTTAGGGTTTAAGAGA 58.202 34.615 2.98 0.00 33.92 3.10
6225 6723 8.437575 TGAAACAAGACTTAGGGTTTAAGAGAT 58.562 33.333 2.98 0.00 33.92 2.75
6226 6724 8.622948 AAACAAGACTTAGGGTTTAAGAGATG 57.377 34.615 1.41 0.54 32.15 2.90
6227 6725 7.317722 ACAAGACTTAGGGTTTAAGAGATGT 57.682 36.000 1.27 1.03 0.00 3.06
6228 6726 7.387643 ACAAGACTTAGGGTTTAAGAGATGTC 58.612 38.462 1.27 0.00 0.00 3.06
6229 6727 6.210287 AGACTTAGGGTTTAAGAGATGTCG 57.790 41.667 1.27 0.00 0.00 4.35
6230 6728 4.756502 ACTTAGGGTTTAAGAGATGTCGC 58.243 43.478 1.27 0.00 0.00 5.19
6231 6729 2.693267 AGGGTTTAAGAGATGTCGCC 57.307 50.000 0.00 0.00 0.00 5.54
6232 6730 1.134788 AGGGTTTAAGAGATGTCGCCG 60.135 52.381 0.00 0.00 0.00 6.46
6233 6731 1.405121 GGGTTTAAGAGATGTCGCCGT 60.405 52.381 0.00 0.00 0.00 5.68
6234 6732 2.344025 GGTTTAAGAGATGTCGCCGTT 58.656 47.619 0.00 0.00 0.00 4.44
6235 6733 2.740447 GGTTTAAGAGATGTCGCCGTTT 59.260 45.455 0.00 0.00 0.00 3.60
6236 6734 3.187842 GGTTTAAGAGATGTCGCCGTTTT 59.812 43.478 0.00 0.00 0.00 2.43
6237 6735 4.319984 GGTTTAAGAGATGTCGCCGTTTTT 60.320 41.667 0.00 0.00 0.00 1.94
6238 6736 2.969443 AAGAGATGTCGCCGTTTTTG 57.031 45.000 0.00 0.00 0.00 2.44
6239 6737 1.878953 AGAGATGTCGCCGTTTTTGT 58.121 45.000 0.00 0.00 0.00 2.83
6240 6738 3.034721 AGAGATGTCGCCGTTTTTGTA 57.965 42.857 0.00 0.00 0.00 2.41
6241 6739 3.395639 AGAGATGTCGCCGTTTTTGTAA 58.604 40.909 0.00 0.00 0.00 2.41
6242 6740 3.185797 AGAGATGTCGCCGTTTTTGTAAC 59.814 43.478 0.00 0.00 0.00 2.50
6243 6741 3.135994 AGATGTCGCCGTTTTTGTAACT 58.864 40.909 0.00 0.00 0.00 2.24
6244 6742 3.185797 AGATGTCGCCGTTTTTGTAACTC 59.814 43.478 0.00 0.00 0.00 3.01
6245 6743 2.553086 TGTCGCCGTTTTTGTAACTCT 58.447 42.857 0.00 0.00 0.00 3.24
6246 6744 2.540931 TGTCGCCGTTTTTGTAACTCTC 59.459 45.455 0.00 0.00 0.00 3.20
6247 6745 2.798847 GTCGCCGTTTTTGTAACTCTCT 59.201 45.455 0.00 0.00 0.00 3.10
6248 6746 3.054878 TCGCCGTTTTTGTAACTCTCTC 58.945 45.455 0.00 0.00 0.00 3.20
6249 6747 3.057734 CGCCGTTTTTGTAACTCTCTCT 58.942 45.455 0.00 0.00 0.00 3.10
6250 6748 3.493503 CGCCGTTTTTGTAACTCTCTCTT 59.506 43.478 0.00 0.00 0.00 2.85
6251 6749 4.608445 CGCCGTTTTTGTAACTCTCTCTTG 60.608 45.833 0.00 0.00 0.00 3.02
6252 6750 4.773510 CCGTTTTTGTAACTCTCTCTTGC 58.226 43.478 0.00 0.00 0.00 4.01
6253 6751 4.511826 CCGTTTTTGTAACTCTCTCTTGCT 59.488 41.667 0.00 0.00 0.00 3.91
6254 6752 5.007724 CCGTTTTTGTAACTCTCTCTTGCTT 59.992 40.000 0.00 0.00 0.00 3.91
6255 6753 6.202188 CCGTTTTTGTAACTCTCTCTTGCTTA 59.798 38.462 0.00 0.00 0.00 3.09
6256 6754 7.064064 CGTTTTTGTAACTCTCTCTTGCTTAC 58.936 38.462 0.00 0.00 0.00 2.34
6257 6755 7.042658 CGTTTTTGTAACTCTCTCTTGCTTACT 60.043 37.037 0.00 0.00 0.00 2.24
6258 6756 8.613482 GTTTTTGTAACTCTCTCTTGCTTACTT 58.387 33.333 0.00 0.00 0.00 2.24
6259 6757 8.732746 TTTTGTAACTCTCTCTTGCTTACTTT 57.267 30.769 0.00 0.00 0.00 2.66
6260 6758 7.715265 TTGTAACTCTCTCTTGCTTACTTTG 57.285 36.000 0.00 0.00 0.00 2.77
6261 6759 7.050970 TGTAACTCTCTCTTGCTTACTTTGA 57.949 36.000 0.00 0.00 0.00 2.69
6262 6760 7.671302 TGTAACTCTCTCTTGCTTACTTTGAT 58.329 34.615 0.00 0.00 0.00 2.57
6263 6761 7.815068 TGTAACTCTCTCTTGCTTACTTTGATC 59.185 37.037 0.00 0.00 0.00 2.92
6264 6762 6.603940 ACTCTCTCTTGCTTACTTTGATCT 57.396 37.500 0.00 0.00 0.00 2.75
6265 6763 6.397272 ACTCTCTCTTGCTTACTTTGATCTG 58.603 40.000 0.00 0.00 0.00 2.90
6266 6764 6.014669 ACTCTCTCTTGCTTACTTTGATCTGT 60.015 38.462 0.00 0.00 0.00 3.41
6267 6765 6.763355 TCTCTCTTGCTTACTTTGATCTGTT 58.237 36.000 0.00 0.00 0.00 3.16
6268 6766 7.220030 TCTCTCTTGCTTACTTTGATCTGTTT 58.780 34.615 0.00 0.00 0.00 2.83
6269 6767 8.367911 TCTCTCTTGCTTACTTTGATCTGTTTA 58.632 33.333 0.00 0.00 0.00 2.01
6270 6768 8.902540 TCTCTTGCTTACTTTGATCTGTTTAA 57.097 30.769 0.00 0.00 0.00 1.52
6271 6769 8.774586 TCTCTTGCTTACTTTGATCTGTTTAAC 58.225 33.333 0.00 0.00 0.00 2.01
6272 6770 8.677148 TCTTGCTTACTTTGATCTGTTTAACT 57.323 30.769 0.00 0.00 0.00 2.24
6273 6771 9.120538 TCTTGCTTACTTTGATCTGTTTAACTT 57.879 29.630 0.00 0.00 0.00 2.66
6274 6772 9.387123 CTTGCTTACTTTGATCTGTTTAACTTC 57.613 33.333 0.00 0.00 0.00 3.01
6275 6773 8.677148 TGCTTACTTTGATCTGTTTAACTTCT 57.323 30.769 0.00 0.00 0.00 2.85
6276 6774 9.120538 TGCTTACTTTGATCTGTTTAACTTCTT 57.879 29.630 0.00 0.00 0.00 2.52
6277 6775 9.952188 GCTTACTTTGATCTGTTTAACTTCTTT 57.048 29.630 0.00 0.00 0.00 2.52
6280 6778 8.293699 ACTTTGATCTGTTTAACTTCTTTGGT 57.706 30.769 0.00 0.00 0.00 3.67
6281 6779 8.406297 ACTTTGATCTGTTTAACTTCTTTGGTC 58.594 33.333 0.00 0.00 0.00 4.02
6282 6780 8.519799 TTTGATCTGTTTAACTTCTTTGGTCT 57.480 30.769 0.00 0.00 0.00 3.85
6283 6781 7.496529 TGATCTGTTTAACTTCTTTGGTCTG 57.503 36.000 0.00 0.00 0.00 3.51
6284 6782 5.751243 TCTGTTTAACTTCTTTGGTCTGC 57.249 39.130 0.00 0.00 0.00 4.26
6285 6783 5.437060 TCTGTTTAACTTCTTTGGTCTGCT 58.563 37.500 0.00 0.00 0.00 4.24
6286 6784 5.885912 TCTGTTTAACTTCTTTGGTCTGCTT 59.114 36.000 0.00 0.00 0.00 3.91
6287 6785 6.038271 TCTGTTTAACTTCTTTGGTCTGCTTC 59.962 38.462 0.00 0.00 0.00 3.86
6288 6786 5.885912 TGTTTAACTTCTTTGGTCTGCTTCT 59.114 36.000 0.00 0.00 0.00 2.85
6289 6787 6.183360 TGTTTAACTTCTTTGGTCTGCTTCTG 60.183 38.462 0.00 0.00 0.00 3.02
6290 6788 3.567478 ACTTCTTTGGTCTGCTTCTGT 57.433 42.857 0.00 0.00 0.00 3.41
6291 6789 4.689612 ACTTCTTTGGTCTGCTTCTGTA 57.310 40.909 0.00 0.00 0.00 2.74
6292 6790 5.234466 ACTTCTTTGGTCTGCTTCTGTAT 57.766 39.130 0.00 0.00 0.00 2.29
6293 6791 4.999950 ACTTCTTTGGTCTGCTTCTGTATG 59.000 41.667 0.00 0.00 0.00 2.39
6294 6792 4.623932 TCTTTGGTCTGCTTCTGTATGT 57.376 40.909 0.00 0.00 0.00 2.29
6295 6793 5.738619 TCTTTGGTCTGCTTCTGTATGTA 57.261 39.130 0.00 0.00 0.00 2.29
6296 6794 6.299805 TCTTTGGTCTGCTTCTGTATGTAT 57.700 37.500 0.00 0.00 0.00 2.29
6297 6795 7.418337 TCTTTGGTCTGCTTCTGTATGTATA 57.582 36.000 0.00 0.00 0.00 1.47
6298 6796 7.847096 TCTTTGGTCTGCTTCTGTATGTATAA 58.153 34.615 0.00 0.00 0.00 0.98
6299 6797 7.764443 TCTTTGGTCTGCTTCTGTATGTATAAC 59.236 37.037 0.00 0.00 0.00 1.89
6300 6798 5.914033 TGGTCTGCTTCTGTATGTATAACC 58.086 41.667 0.00 0.00 0.00 2.85
6301 6799 5.423931 TGGTCTGCTTCTGTATGTATAACCA 59.576 40.000 0.00 0.00 0.00 3.67
6302 6800 6.099701 TGGTCTGCTTCTGTATGTATAACCAT 59.900 38.462 0.00 0.00 0.00 3.55
6303 6801 6.425114 GGTCTGCTTCTGTATGTATAACCATG 59.575 42.308 0.00 0.00 0.00 3.66
6304 6802 5.991606 TCTGCTTCTGTATGTATAACCATGC 59.008 40.000 0.00 0.00 0.00 4.06
6305 6803 5.928976 TGCTTCTGTATGTATAACCATGCT 58.071 37.500 0.00 0.00 0.00 3.79
6306 6804 5.991606 TGCTTCTGTATGTATAACCATGCTC 59.008 40.000 0.00 0.00 0.00 4.26
6307 6805 5.991606 GCTTCTGTATGTATAACCATGCTCA 59.008 40.000 0.00 0.00 0.00 4.26
6308 6806 6.652481 GCTTCTGTATGTATAACCATGCTCAT 59.348 38.462 0.00 0.00 0.00 2.90
6309 6807 7.173907 GCTTCTGTATGTATAACCATGCTCATT 59.826 37.037 0.00 0.00 0.00 2.57
6310 6808 9.710900 CTTCTGTATGTATAACCATGCTCATTA 57.289 33.333 0.00 0.00 0.00 1.90
6311 6809 9.489084 TTCTGTATGTATAACCATGCTCATTAC 57.511 33.333 0.00 0.00 0.00 1.89
6312 6810 8.646900 TCTGTATGTATAACCATGCTCATTACA 58.353 33.333 0.00 0.00 0.00 2.41
6313 6811 8.831715 TGTATGTATAACCATGCTCATTACAG 57.168 34.615 0.00 0.00 0.00 2.74
6314 6812 8.428852 TGTATGTATAACCATGCTCATTACAGT 58.571 33.333 0.00 0.00 0.00 3.55
6315 6813 7.734924 ATGTATAACCATGCTCATTACAGTG 57.265 36.000 0.00 0.00 0.00 3.66
6316 6814 6.883744 TGTATAACCATGCTCATTACAGTGA 58.116 36.000 0.00 0.00 0.00 3.41
6317 6815 7.508687 TGTATAACCATGCTCATTACAGTGAT 58.491 34.615 0.00 0.00 0.00 3.06
6318 6816 7.992608 TGTATAACCATGCTCATTACAGTGATT 59.007 33.333 0.00 0.00 0.00 2.57
6319 6817 5.571784 AACCATGCTCATTACAGTGATTG 57.428 39.130 0.00 0.00 0.00 2.67
6320 6818 3.379372 ACCATGCTCATTACAGTGATTGC 59.621 43.478 0.00 0.00 0.00 3.56
6321 6819 3.379057 CCATGCTCATTACAGTGATTGCA 59.621 43.478 0.00 5.56 34.92 4.08
6322 6820 4.348656 CATGCTCATTACAGTGATTGCAC 58.651 43.478 0.00 0.00 45.49 4.57
6396 6894 9.281371 GTATGAAACAAGTCTTAGGGTTTAAGT 57.719 33.333 0.81 0.00 33.92 2.24
6579 7910 0.456824 ACTCTGCATACGACAGTGCG 60.457 55.000 5.58 5.58 44.11 5.34
6602 7933 1.886886 ACGAATTTTGTACGGTGCCT 58.113 45.000 0.00 0.00 0.00 4.75
6613 7944 2.436109 GGTGCCTGCTTGAAGGGA 59.564 61.111 0.00 0.00 37.84 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
311 312 1.680522 CCACCTCCATCCTCTCCACG 61.681 65.000 0.00 0.00 0.00 4.94
350 351 2.343758 GACCTCTGCGAGTGCCAA 59.656 61.111 0.00 0.00 41.78 4.52
737 738 4.742201 CCCGCACGACTCCACCTG 62.742 72.222 0.00 0.00 0.00 4.00
815 816 5.886960 AGATCCGCTCCAAATATAAATGC 57.113 39.130 0.00 0.00 0.00 3.56
820 829 6.464222 CAAACCTAGATCCGCTCCAAATATA 58.536 40.000 0.00 0.00 0.00 0.86
821 830 5.308825 CAAACCTAGATCCGCTCCAAATAT 58.691 41.667 0.00 0.00 0.00 1.28
934 948 1.923395 AGCAATTCCCCGTCTCCCA 60.923 57.895 0.00 0.00 0.00 4.37
938 952 0.179000 CTAGCAGCAATTCCCCGTCT 59.821 55.000 0.00 0.00 0.00 4.18
953 968 1.408969 CCACCTCTCTCTTCCCTAGC 58.591 60.000 0.00 0.00 0.00 3.42
955 970 1.695065 TCCCACCTCTCTCTTCCCTA 58.305 55.000 0.00 0.00 0.00 3.53
969 1382 2.046285 CCCACAATCCGCTTCCCAC 61.046 63.158 0.00 0.00 0.00 4.61
970 1383 2.354729 CCCACAATCCGCTTCCCA 59.645 61.111 0.00 0.00 0.00 4.37
1372 1785 1.400242 GCGATCACAACAGTTCAAGCC 60.400 52.381 0.00 0.00 0.00 4.35
3465 3944 3.744940 TTTTCTTCTCTGGGCCATCAT 57.255 42.857 6.72 0.00 0.00 2.45
3466 3945 3.074390 TCTTTTTCTTCTCTGGGCCATCA 59.926 43.478 6.72 0.00 0.00 3.07
3467 3946 3.690460 TCTTTTTCTTCTCTGGGCCATC 58.310 45.455 6.72 0.00 0.00 3.51
5830 6326 2.168521 ACCTGATGGAATACTCACCGTG 59.831 50.000 0.00 0.00 37.04 4.94
5831 6327 2.467880 ACCTGATGGAATACTCACCGT 58.532 47.619 0.00 0.00 37.04 4.83
5832 6328 4.665833 TTACCTGATGGAATACTCACCG 57.334 45.455 0.00 0.00 37.04 4.94
5833 6329 7.054124 TGAATTTACCTGATGGAATACTCACC 58.946 38.462 0.00 0.00 37.04 4.02
5834 6330 7.254932 GCTGAATTTACCTGATGGAATACTCAC 60.255 40.741 0.00 0.00 37.04 3.51
5835 6331 6.767902 GCTGAATTTACCTGATGGAATACTCA 59.232 38.462 0.00 0.00 37.04 3.41
5836 6332 6.995091 AGCTGAATTTACCTGATGGAATACTC 59.005 38.462 0.00 0.00 37.04 2.59
5837 6333 6.769822 CAGCTGAATTTACCTGATGGAATACT 59.230 38.462 8.42 0.00 37.04 2.12
5838 6334 6.514048 GCAGCTGAATTTACCTGATGGAATAC 60.514 42.308 20.43 0.00 37.04 1.89
5839 6335 5.532406 GCAGCTGAATTTACCTGATGGAATA 59.468 40.000 20.43 0.00 37.04 1.75
5840 6336 4.340381 GCAGCTGAATTTACCTGATGGAAT 59.660 41.667 20.43 0.00 37.04 3.01
5841 6337 3.696051 GCAGCTGAATTTACCTGATGGAA 59.304 43.478 20.43 0.00 37.04 3.53
5842 6338 3.054139 AGCAGCTGAATTTACCTGATGGA 60.054 43.478 20.43 0.00 37.04 3.41
5843 6339 3.285484 AGCAGCTGAATTTACCTGATGG 58.715 45.455 20.43 0.00 39.83 3.51
6071 6568 1.995484 CATAGGCGATTCCAGTATGCG 59.005 52.381 0.00 0.00 37.29 4.73
6158 6656 4.454678 CCAAGCTAATGTGGCATAGAGAA 58.545 43.478 0.00 0.00 0.00 2.87
6159 6657 3.181451 CCCAAGCTAATGTGGCATAGAGA 60.181 47.826 0.00 0.00 33.21 3.10
6160 6658 3.144506 CCCAAGCTAATGTGGCATAGAG 58.855 50.000 0.00 0.00 33.21 2.43
6161 6659 2.749466 GCCCAAGCTAATGTGGCATAGA 60.749 50.000 11.06 0.00 41.76 1.98
6162 6660 1.610522 GCCCAAGCTAATGTGGCATAG 59.389 52.381 11.06 0.00 41.76 2.23
6163 6661 1.691196 GCCCAAGCTAATGTGGCATA 58.309 50.000 11.06 0.00 41.76 3.14
6164 6662 2.508361 GCCCAAGCTAATGTGGCAT 58.492 52.632 11.06 0.00 41.76 4.40
6165 6663 4.016838 GCCCAAGCTAATGTGGCA 57.983 55.556 11.06 0.00 41.76 4.92
6180 6678 7.291516 TGTTTCATACAGAAGCTAACAGAGCC 61.292 42.308 0.00 0.00 41.24 4.70
6181 6679 5.639506 TGTTTCATACAGAAGCTAACAGAGC 59.360 40.000 0.00 0.00 40.90 4.09
6182 6680 7.600375 TCTTGTTTCATACAGAAGCTAACAGAG 59.400 37.037 0.00 0.00 38.19 3.35
6183 6681 7.385205 GTCTTGTTTCATACAGAAGCTAACAGA 59.615 37.037 0.00 0.00 38.19 3.41
6184 6682 7.386299 AGTCTTGTTTCATACAGAAGCTAACAG 59.614 37.037 0.00 0.00 38.19 3.16
6185 6683 7.217200 AGTCTTGTTTCATACAGAAGCTAACA 58.783 34.615 0.00 0.00 38.19 2.41
6186 6684 7.659652 AGTCTTGTTTCATACAGAAGCTAAC 57.340 36.000 0.00 0.00 38.19 2.34
6187 6685 9.424319 CTAAGTCTTGTTTCATACAGAAGCTAA 57.576 33.333 0.00 0.00 38.19 3.09
6188 6686 8.035394 CCTAAGTCTTGTTTCATACAGAAGCTA 58.965 37.037 0.00 0.00 38.19 3.32
6189 6687 6.876257 CCTAAGTCTTGTTTCATACAGAAGCT 59.124 38.462 0.00 0.00 38.19 3.74
6190 6688 6.092807 CCCTAAGTCTTGTTTCATACAGAAGC 59.907 42.308 0.00 0.00 38.19 3.86
6191 6689 7.162082 ACCCTAAGTCTTGTTTCATACAGAAG 58.838 38.462 0.00 0.00 38.19 2.85
6192 6690 7.074653 ACCCTAAGTCTTGTTTCATACAGAA 57.925 36.000 0.00 0.00 38.19 3.02
6193 6691 6.681729 ACCCTAAGTCTTGTTTCATACAGA 57.318 37.500 0.00 0.00 38.19 3.41
6194 6692 7.745620 AAACCCTAAGTCTTGTTTCATACAG 57.254 36.000 0.00 0.00 38.19 2.74
6195 6693 9.280174 CTTAAACCCTAAGTCTTGTTTCATACA 57.720 33.333 3.50 0.00 33.36 2.29
6196 6694 9.498176 TCTTAAACCCTAAGTCTTGTTTCATAC 57.502 33.333 3.50 0.00 33.36 2.39
6197 6695 9.720769 CTCTTAAACCCTAAGTCTTGTTTCATA 57.279 33.333 3.50 0.00 33.36 2.15
6198 6696 8.437575 TCTCTTAAACCCTAAGTCTTGTTTCAT 58.562 33.333 3.50 0.00 33.36 2.57
6199 6697 7.798071 TCTCTTAAACCCTAAGTCTTGTTTCA 58.202 34.615 3.50 0.00 33.36 2.69
6200 6698 8.722394 CATCTCTTAAACCCTAAGTCTTGTTTC 58.278 37.037 3.50 0.00 33.36 2.78
6201 6699 8.218488 ACATCTCTTAAACCCTAAGTCTTGTTT 58.782 33.333 0.00 0.44 35.32 2.83
6202 6700 7.746703 ACATCTCTTAAACCCTAAGTCTTGTT 58.253 34.615 0.00 0.00 0.00 2.83
6203 6701 7.317722 ACATCTCTTAAACCCTAAGTCTTGT 57.682 36.000 0.00 0.00 0.00 3.16
6204 6702 6.531948 CGACATCTCTTAAACCCTAAGTCTTG 59.468 42.308 0.00 0.00 0.00 3.02
6205 6703 6.631962 CGACATCTCTTAAACCCTAAGTCTT 58.368 40.000 0.00 0.00 0.00 3.01
6206 6704 5.394333 GCGACATCTCTTAAACCCTAAGTCT 60.394 44.000 0.00 0.00 0.00 3.24
6207 6705 4.804665 GCGACATCTCTTAAACCCTAAGTC 59.195 45.833 0.00 0.00 0.00 3.01
6208 6706 4.382793 GGCGACATCTCTTAAACCCTAAGT 60.383 45.833 0.00 0.00 0.00 2.24
6209 6707 4.120589 GGCGACATCTCTTAAACCCTAAG 58.879 47.826 0.00 0.00 0.00 2.18
6210 6708 3.429822 CGGCGACATCTCTTAAACCCTAA 60.430 47.826 0.00 0.00 0.00 2.69
6211 6709 2.100252 CGGCGACATCTCTTAAACCCTA 59.900 50.000 0.00 0.00 0.00 3.53
6212 6710 1.134788 CGGCGACATCTCTTAAACCCT 60.135 52.381 0.00 0.00 0.00 4.34
6213 6711 1.287425 CGGCGACATCTCTTAAACCC 58.713 55.000 0.00 0.00 0.00 4.11
6214 6712 2.005971 ACGGCGACATCTCTTAAACC 57.994 50.000 16.62 0.00 0.00 3.27
6215 6713 4.400036 AAAACGGCGACATCTCTTAAAC 57.600 40.909 16.62 0.00 0.00 2.01
6216 6714 4.273969 ACAAAAACGGCGACATCTCTTAAA 59.726 37.500 16.62 0.00 0.00 1.52
6217 6715 3.810941 ACAAAAACGGCGACATCTCTTAA 59.189 39.130 16.62 0.00 0.00 1.85
6218 6716 3.395639 ACAAAAACGGCGACATCTCTTA 58.604 40.909 16.62 0.00 0.00 2.10
6219 6717 2.218603 ACAAAAACGGCGACATCTCTT 58.781 42.857 16.62 0.00 0.00 2.85
6220 6718 1.878953 ACAAAAACGGCGACATCTCT 58.121 45.000 16.62 0.00 0.00 3.10
6221 6719 3.185797 AGTTACAAAAACGGCGACATCTC 59.814 43.478 16.62 0.00 0.00 2.75
6222 6720 3.135994 AGTTACAAAAACGGCGACATCT 58.864 40.909 16.62 0.00 0.00 2.90
6223 6721 3.185797 AGAGTTACAAAAACGGCGACATC 59.814 43.478 16.62 0.00 0.00 3.06
6224 6722 3.135994 AGAGTTACAAAAACGGCGACAT 58.864 40.909 16.62 0.00 0.00 3.06
6225 6723 2.540931 GAGAGTTACAAAAACGGCGACA 59.459 45.455 16.62 0.00 0.00 4.35
6226 6724 2.798847 AGAGAGTTACAAAAACGGCGAC 59.201 45.455 16.62 0.00 0.00 5.19
6227 6725 3.054878 GAGAGAGTTACAAAAACGGCGA 58.945 45.455 16.62 0.00 0.00 5.54
6228 6726 3.057734 AGAGAGAGTTACAAAAACGGCG 58.942 45.455 4.80 4.80 0.00 6.46
6229 6727 4.773510 CAAGAGAGAGTTACAAAAACGGC 58.226 43.478 0.00 0.00 0.00 5.68
6230 6728 4.511826 AGCAAGAGAGAGTTACAAAAACGG 59.488 41.667 0.00 0.00 0.00 4.44
6231 6729 5.659048 AGCAAGAGAGAGTTACAAAAACG 57.341 39.130 0.00 0.00 0.00 3.60
6232 6730 8.144155 AGTAAGCAAGAGAGAGTTACAAAAAC 57.856 34.615 0.00 0.00 0.00 2.43
6233 6731 8.732746 AAGTAAGCAAGAGAGAGTTACAAAAA 57.267 30.769 0.00 0.00 0.00 1.94
6234 6732 8.612619 CAAAGTAAGCAAGAGAGAGTTACAAAA 58.387 33.333 0.00 0.00 0.00 2.44
6235 6733 7.985184 TCAAAGTAAGCAAGAGAGAGTTACAAA 59.015 33.333 0.00 0.00 0.00 2.83
6236 6734 7.497595 TCAAAGTAAGCAAGAGAGAGTTACAA 58.502 34.615 0.00 0.00 0.00 2.41
6237 6735 7.050970 TCAAAGTAAGCAAGAGAGAGTTACA 57.949 36.000 0.00 0.00 0.00 2.41
6238 6736 8.032451 AGATCAAAGTAAGCAAGAGAGAGTTAC 58.968 37.037 0.00 0.00 0.00 2.50
6239 6737 8.031864 CAGATCAAAGTAAGCAAGAGAGAGTTA 58.968 37.037 0.00 0.00 0.00 2.24
6240 6738 6.873076 CAGATCAAAGTAAGCAAGAGAGAGTT 59.127 38.462 0.00 0.00 0.00 3.01
6241 6739 6.014669 ACAGATCAAAGTAAGCAAGAGAGAGT 60.015 38.462 0.00 0.00 0.00 3.24
6242 6740 6.397272 ACAGATCAAAGTAAGCAAGAGAGAG 58.603 40.000 0.00 0.00 0.00 3.20
6243 6741 6.352016 ACAGATCAAAGTAAGCAAGAGAGA 57.648 37.500 0.00 0.00 0.00 3.10
6244 6742 7.432350 AAACAGATCAAAGTAAGCAAGAGAG 57.568 36.000 0.00 0.00 0.00 3.20
6245 6743 8.774586 GTTAAACAGATCAAAGTAAGCAAGAGA 58.225 33.333 0.00 0.00 0.00 3.10
6246 6744 8.778358 AGTTAAACAGATCAAAGTAAGCAAGAG 58.222 33.333 0.00 0.00 0.00 2.85
6247 6745 8.677148 AGTTAAACAGATCAAAGTAAGCAAGA 57.323 30.769 0.00 0.00 0.00 3.02
6248 6746 9.387123 GAAGTTAAACAGATCAAAGTAAGCAAG 57.613 33.333 0.00 0.00 0.00 4.01
6249 6747 9.120538 AGAAGTTAAACAGATCAAAGTAAGCAA 57.879 29.630 0.00 0.00 0.00 3.91
6250 6748 8.677148 AGAAGTTAAACAGATCAAAGTAAGCA 57.323 30.769 0.00 0.00 0.00 3.91
6251 6749 9.952188 AAAGAAGTTAAACAGATCAAAGTAAGC 57.048 29.630 0.00 0.00 0.00 3.09
6254 6752 9.403583 ACCAAAGAAGTTAAACAGATCAAAGTA 57.596 29.630 0.00 0.00 0.00 2.24
6255 6753 8.293699 ACCAAAGAAGTTAAACAGATCAAAGT 57.706 30.769 0.00 0.00 0.00 2.66
6256 6754 8.624776 AGACCAAAGAAGTTAAACAGATCAAAG 58.375 33.333 0.00 0.00 0.00 2.77
6257 6755 8.405531 CAGACCAAAGAAGTTAAACAGATCAAA 58.594 33.333 0.00 0.00 0.00 2.69
6258 6756 7.468631 GCAGACCAAAGAAGTTAAACAGATCAA 60.469 37.037 0.00 0.00 0.00 2.57
6259 6757 6.017109 GCAGACCAAAGAAGTTAAACAGATCA 60.017 38.462 0.00 0.00 0.00 2.92
6260 6758 6.205658 AGCAGACCAAAGAAGTTAAACAGATC 59.794 38.462 0.00 0.00 0.00 2.75
6261 6759 6.064717 AGCAGACCAAAGAAGTTAAACAGAT 58.935 36.000 0.00 0.00 0.00 2.90
6262 6760 5.437060 AGCAGACCAAAGAAGTTAAACAGA 58.563 37.500 0.00 0.00 0.00 3.41
6263 6761 5.757850 AGCAGACCAAAGAAGTTAAACAG 57.242 39.130 0.00 0.00 0.00 3.16
6264 6762 5.885912 AGAAGCAGACCAAAGAAGTTAAACA 59.114 36.000 0.00 0.00 0.00 2.83
6265 6763 6.183360 ACAGAAGCAGACCAAAGAAGTTAAAC 60.183 38.462 0.00 0.00 0.00 2.01
6266 6764 5.885912 ACAGAAGCAGACCAAAGAAGTTAAA 59.114 36.000 0.00 0.00 0.00 1.52
6267 6765 5.437060 ACAGAAGCAGACCAAAGAAGTTAA 58.563 37.500 0.00 0.00 0.00 2.01
6268 6766 5.036117 ACAGAAGCAGACCAAAGAAGTTA 57.964 39.130 0.00 0.00 0.00 2.24
6269 6767 3.891049 ACAGAAGCAGACCAAAGAAGTT 58.109 40.909 0.00 0.00 0.00 2.66
6270 6768 3.567478 ACAGAAGCAGACCAAAGAAGT 57.433 42.857 0.00 0.00 0.00 3.01
6271 6769 4.999950 ACATACAGAAGCAGACCAAAGAAG 59.000 41.667 0.00 0.00 0.00 2.85
6272 6770 4.973168 ACATACAGAAGCAGACCAAAGAA 58.027 39.130 0.00 0.00 0.00 2.52
6273 6771 4.623932 ACATACAGAAGCAGACCAAAGA 57.376 40.909 0.00 0.00 0.00 2.52
6274 6772 7.011482 GGTTATACATACAGAAGCAGACCAAAG 59.989 40.741 0.00 0.00 0.00 2.77
6275 6773 6.821665 GGTTATACATACAGAAGCAGACCAAA 59.178 38.462 0.00 0.00 0.00 3.28
6276 6774 6.070481 TGGTTATACATACAGAAGCAGACCAA 60.070 38.462 0.00 0.00 30.10 3.67
6277 6775 5.423931 TGGTTATACATACAGAAGCAGACCA 59.576 40.000 0.00 0.00 0.00 4.02
6278 6776 5.914033 TGGTTATACATACAGAAGCAGACC 58.086 41.667 0.00 0.00 0.00 3.85
6279 6777 6.073548 GCATGGTTATACATACAGAAGCAGAC 60.074 42.308 0.00 0.00 33.26 3.51
6280 6778 5.991606 GCATGGTTATACATACAGAAGCAGA 59.008 40.000 0.00 0.00 33.26 4.26
6281 6779 5.994054 AGCATGGTTATACATACAGAAGCAG 59.006 40.000 0.00 0.00 33.26 4.24
6282 6780 5.928976 AGCATGGTTATACATACAGAAGCA 58.071 37.500 0.00 0.00 34.17 3.91
6283 6781 5.991606 TGAGCATGGTTATACATACAGAAGC 59.008 40.000 0.00 0.00 0.00 3.86
6284 6782 8.613060 AATGAGCATGGTTATACATACAGAAG 57.387 34.615 2.26 0.00 0.00 2.85
6285 6783 9.489084 GTAATGAGCATGGTTATACATACAGAA 57.511 33.333 2.26 0.00 0.00 3.02
6286 6784 8.646900 TGTAATGAGCATGGTTATACATACAGA 58.353 33.333 2.26 0.00 0.00 3.41
6287 6785 8.831715 TGTAATGAGCATGGTTATACATACAG 57.168 34.615 2.26 0.00 0.00 2.74
6288 6786 8.428852 ACTGTAATGAGCATGGTTATACATACA 58.571 33.333 14.60 12.53 0.00 2.29
6289 6787 8.712363 CACTGTAATGAGCATGGTTATACATAC 58.288 37.037 14.60 9.57 0.00 2.39
6290 6788 8.646900 TCACTGTAATGAGCATGGTTATACATA 58.353 33.333 14.60 0.00 0.00 2.29
6291 6789 7.508687 TCACTGTAATGAGCATGGTTATACAT 58.491 34.615 14.60 5.29 0.00 2.29
6292 6790 6.883744 TCACTGTAATGAGCATGGTTATACA 58.116 36.000 2.26 9.63 0.00 2.29
6293 6791 7.969536 ATCACTGTAATGAGCATGGTTATAC 57.030 36.000 2.26 5.82 30.46 1.47
6294 6792 7.041167 GCAATCACTGTAATGAGCATGGTTATA 60.041 37.037 2.26 0.00 30.46 0.98
6295 6793 6.238842 GCAATCACTGTAATGAGCATGGTTAT 60.239 38.462 0.00 0.00 30.46 1.89
6296 6794 5.066375 GCAATCACTGTAATGAGCATGGTTA 59.934 40.000 0.00 0.00 30.46 2.85
6297 6795 4.142315 GCAATCACTGTAATGAGCATGGTT 60.142 41.667 0.00 0.00 30.46 3.67
6298 6796 3.379372 GCAATCACTGTAATGAGCATGGT 59.621 43.478 0.00 0.00 30.46 3.55
6299 6797 3.379057 TGCAATCACTGTAATGAGCATGG 59.621 43.478 0.00 0.00 28.05 3.66
6300 6798 4.142556 TGTGCAATCACTGTAATGAGCATG 60.143 41.667 0.00 0.00 43.49 4.06
6301 6799 4.011698 TGTGCAATCACTGTAATGAGCAT 58.988 39.130 0.00 0.00 43.49 3.79
6302 6800 3.410508 TGTGCAATCACTGTAATGAGCA 58.589 40.909 0.00 0.00 43.49 4.26
6303 6801 4.424061 TTGTGCAATCACTGTAATGAGC 57.576 40.909 0.00 0.00 43.49 4.26
6304 6802 8.969121 TTTAATTGTGCAATCACTGTAATGAG 57.031 30.769 0.00 0.00 43.49 2.90
6305 6803 9.571810 GATTTAATTGTGCAATCACTGTAATGA 57.428 29.630 0.00 0.00 43.49 2.57
6306 6804 9.577110 AGATTTAATTGTGCAATCACTGTAATG 57.423 29.630 0.00 0.00 43.49 1.90
6308 6806 9.624697 GAAGATTTAATTGTGCAATCACTGTAA 57.375 29.630 0.00 0.00 43.49 2.41
6309 6807 9.013229 AGAAGATTTAATTGTGCAATCACTGTA 57.987 29.630 0.00 0.00 43.49 2.74
6310 6808 7.889469 AGAAGATTTAATTGTGCAATCACTGT 58.111 30.769 0.00 0.00 43.49 3.55
6311 6809 8.242053 AGAGAAGATTTAATTGTGCAATCACTG 58.758 33.333 0.00 0.00 43.49 3.66
6312 6810 8.345724 AGAGAAGATTTAATTGTGCAATCACT 57.654 30.769 0.00 0.00 43.49 3.41
6315 6813 9.178427 GCATAGAGAAGATTTAATTGTGCAATC 57.822 33.333 0.00 0.00 0.00 2.67
6316 6814 8.689061 TGCATAGAGAAGATTTAATTGTGCAAT 58.311 29.630 0.00 0.00 35.12 3.56
6317 6815 8.054152 TGCATAGAGAAGATTTAATTGTGCAA 57.946 30.769 0.00 0.00 35.12 4.08
6318 6816 7.628769 TGCATAGAGAAGATTTAATTGTGCA 57.371 32.000 0.00 0.00 35.60 4.57
6319 6817 7.970061 TGTTGCATAGAGAAGATTTAATTGTGC 59.030 33.333 0.00 0.00 0.00 4.57
6325 6823 9.618890 AGCTAATGTTGCATAGAGAAGATTTAA 57.381 29.630 0.00 0.00 0.00 1.52
6326 6824 9.618890 AAGCTAATGTTGCATAGAGAAGATTTA 57.381 29.630 0.00 0.00 0.00 1.40
6327 6825 8.404000 CAAGCTAATGTTGCATAGAGAAGATTT 58.596 33.333 0.00 0.00 0.00 2.17
6328 6826 7.013083 CCAAGCTAATGTTGCATAGAGAAGATT 59.987 37.037 0.00 0.00 0.00 2.40
6329 6827 6.485984 CCAAGCTAATGTTGCATAGAGAAGAT 59.514 38.462 0.00 0.00 0.00 2.40
6330 6828 5.819379 CCAAGCTAATGTTGCATAGAGAAGA 59.181 40.000 0.00 0.00 0.00 2.87
6331 6829 5.008415 CCCAAGCTAATGTTGCATAGAGAAG 59.992 44.000 0.00 0.00 0.00 2.85
6396 6894 0.882484 TTGCAGAAACGGCGACATCA 60.882 50.000 16.62 0.17 0.00 3.07
6508 7839 2.906354 CAGGTCTGAAAATACTCCCCG 58.094 52.381 0.00 0.00 0.00 5.73
6568 7899 2.169033 TTCGTACGCGCACTGTCGTA 62.169 55.000 11.24 0.00 39.79 3.43
6602 7933 2.165167 CAAATCAGCTCCCTTCAAGCA 58.835 47.619 0.00 0.00 42.35 3.91
6613 7944 2.927477 CGCATCATTTTGCAAATCAGCT 59.073 40.909 13.65 0.00 42.91 4.24


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

AutoCloner maintained by Alex Coulton.