Multiple sequence alignment - TraesCS6A01G310200

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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 TraesCS6A01G310200 chr6A 100.000 5760 0 0 1 5760 546552664 546546905 0.000000e+00 10637.0
1 TraesCS6A01G310200 chr6A 100.000 78 0 0 5683 5760 546508012 546507935 1.670000e-30 145.0
2 TraesCS6A01G310200 chr6A 98.718 78 1 0 5683 5760 320317599 320317676 7.780000e-29 139.0
3 TraesCS6A01G310200 chr6A 98.718 78 1 0 5683 5760 320332069 320332146 7.780000e-29 139.0
4 TraesCS6A01G310200 chr6D 93.153 5272 210 61 510 5683 400550536 400545318 0.000000e+00 7596.0
5 TraesCS6A01G310200 chr6B 93.708 3719 141 43 1441 5100 599445621 599441937 0.000000e+00 5485.0
6 TraesCS6A01G310200 chr6B 92.178 946 47 8 510 1444 599446652 599445723 0.000000e+00 1312.0
7 TraesCS6A01G310200 chr6B 87.625 598 28 12 5128 5683 599441936 599441343 0.000000e+00 652.0
8 TraesCS6A01G310200 chr4A 98.235 510 9 0 1 510 556631947 556632456 0.000000e+00 893.0
9 TraesCS6A01G310200 chr4A 97.847 511 10 1 1 510 679981016 679980506 0.000000e+00 881.0
10 TraesCS6A01G310200 chr4A 82.500 80 8 4 2846 2925 330087392 330087319 1.340000e-06 65.8
11 TraesCS6A01G310200 chr1B 97.843 510 10 1 1 510 592423231 592423739 0.000000e+00 880.0
12 TraesCS6A01G310200 chr2A 97.456 511 12 1 1 510 337555731 337555221 0.000000e+00 870.0
13 TraesCS6A01G310200 chr2A 93.210 486 28 3 1 481 574217851 574217366 0.000000e+00 710.0
14 TraesCS6A01G310200 chr2A 96.203 79 2 1 5683 5760 241008204 241008282 1.680000e-25 128.0
15 TraesCS6A01G310200 chr7B 87.059 510 41 9 2 510 348653839 348654324 2.350000e-153 553.0
16 TraesCS6A01G310200 chr7D 87.356 174 16 3 999 1172 152652776 152652609 1.640000e-45 195.0
17 TraesCS6A01G310200 chr7D 95.000 80 2 2 5683 5760 337165986 337166065 2.180000e-24 124.0
18 TraesCS6A01G310200 chr7D 97.297 37 1 0 2846 2882 311269417 311269453 4.820000e-06 63.9
19 TraesCS6A01G310200 chr7D 77.273 132 15 6 2840 2970 602905011 602904894 4.820000e-06 63.9
20 TraesCS6A01G310200 chr7A 86.207 174 18 3 999 1172 153381543 153381376 3.540000e-42 183.0
21 TraesCS6A01G310200 chr7A 76.974 152 18 9 2846 2993 360613214 360613352 2.880000e-08 71.3
22 TraesCS6A01G310200 chr2D 97.436 78 2 0 5683 5760 429294593 429294516 3.620000e-27 134.0
23 TraesCS6A01G310200 chr2D 96.154 78 3 0 5683 5760 429333816 429333893 1.680000e-25 128.0
24 TraesCS6A01G310200 chr1D 96.250 80 3 0 5681 5760 141990470 141990549 1.300000e-26 132.0
25 TraesCS6A01G310200 chr3D 96.203 79 2 1 5683 5760 183004505 183004583 1.680000e-25 128.0


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 TraesCS6A01G310200 chr6A 546546905 546552664 5759 True 10637 10637 100.000000 1 5760 1 chr6A.!!$R2 5759
1 TraesCS6A01G310200 chr6D 400545318 400550536 5218 True 7596 7596 93.153000 510 5683 1 chr6D.!!$R1 5173
2 TraesCS6A01G310200 chr6B 599441343 599446652 5309 True 2483 5485 91.170333 510 5683 3 chr6B.!!$R1 5173
3 TraesCS6A01G310200 chr4A 556631947 556632456 509 False 893 893 98.235000 1 510 1 chr4A.!!$F1 509
4 TraesCS6A01G310200 chr4A 679980506 679981016 510 True 881 881 97.847000 1 510 1 chr4A.!!$R2 509
5 TraesCS6A01G310200 chr1B 592423231 592423739 508 False 880 880 97.843000 1 510 1 chr1B.!!$F1 509
6 TraesCS6A01G310200 chr2A 337555221 337555731 510 True 870 870 97.456000 1 510 1 chr2A.!!$R1 509

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
269 270 0.692419 AGGATCATCCTTGCCTCCGT 60.692 55.000 0.00 0.0 46.91 4.69 F
1307 1322 0.107703 TTGCTCCTGCTATGGGAACG 60.108 55.000 0.00 0.0 40.48 3.95 F
1340 1355 1.745087 GGATGAATTTGCCGCTTCTCA 59.255 47.619 0.00 0.0 0.00 3.27 F
1349 1364 1.853319 CCGCTTCTCACAACGACAC 59.147 57.895 0.00 0.0 0.00 3.67 F
2977 3133 0.107848 GCTCGCTTTAGGCCTTACCA 60.108 55.000 12.58 0.0 43.14 3.25 F
3466 3630 0.178932 ACTCTGTAGGGACACCAGCA 60.179 55.000 0.00 0.0 40.13 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1319 1334 0.734889 AGAAGCGGCAAATTCATCCG 59.265 50.000 1.45 8.17 45.46 4.18 R
2951 3100 1.241315 GCCTAAAGCGAGCACCCAAA 61.241 55.000 0.00 0.00 0.00 3.28 R
2952 3101 1.674322 GCCTAAAGCGAGCACCCAA 60.674 57.895 0.00 0.00 0.00 4.12 R
3074 3231 4.099573 TCAGTAAGAAGCGGAGATTTAGGG 59.900 45.833 0.00 0.00 34.67 3.53 R
3916 4109 1.511305 CAGCAGCAGCCTGGAAATG 59.489 57.895 0.00 0.00 43.56 2.32 R
5087 5285 0.324614 TTCAGGCTTCAGCGGATCAA 59.675 50.000 0.00 0.00 43.26 2.57 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
160 161 8.546083 ACCATATTGGGATTTATTACAGCAAA 57.454 30.769 0.00 0.00 43.37 3.68
250 251 2.125147 CGAAGGATCCGCTGCCAA 60.125 61.111 5.98 0.00 0.00 4.52
269 270 0.692419 AGGATCATCCTTGCCTCCGT 60.692 55.000 0.00 0.00 46.91 4.69
349 350 5.457140 CAAAACGCAGCTCCACTTTATTTA 58.543 37.500 0.00 0.00 0.00 1.40
395 396 4.579162 ACTAGACCTAGGATCCAGACCTA 58.421 47.826 17.98 11.59 38.76 3.08
736 741 0.758685 CATCCCTTCTCCGCTCCTCT 60.759 60.000 0.00 0.00 0.00 3.69
750 755 3.591835 CTCTCCTCGCCTCGCCTC 61.592 72.222 0.00 0.00 0.00 4.70
954 968 3.052082 CTTCTGCTGCCGTGTGGG 61.052 66.667 0.00 0.00 39.58 4.61
1258 1273 7.703621 CAGGATGATACCAACTGCTAAAATTTG 59.296 37.037 0.00 0.00 39.69 2.32
1275 1290 3.613494 TTTGTGCTGGGTATAGCGTAA 57.387 42.857 0.00 0.00 46.61 3.18
1307 1322 0.107703 TTGCTCCTGCTATGGGAACG 60.108 55.000 0.00 0.00 40.48 3.95
1319 1334 5.526111 TGCTATGGGAACGTTAGCTAATTTC 59.474 40.000 18.08 14.34 42.21 2.17
1340 1355 1.745087 GGATGAATTTGCCGCTTCTCA 59.255 47.619 0.00 0.00 0.00 3.27
1349 1364 1.853319 CCGCTTCTCACAACGACAC 59.147 57.895 0.00 0.00 0.00 3.67
1538 1660 2.128035 GATAAGAATGCAGACGACCCG 58.872 52.381 0.00 0.00 0.00 5.28
1598 1720 4.099633 ACAACATCCTCTCAGATCCTGAA 58.900 43.478 0.00 0.00 40.18 3.02
1638 1760 3.223435 TCCTCTGGATTCGAGGTGATAC 58.777 50.000 10.50 0.00 46.49 2.24
1847 1977 6.699575 ATTTGTCTGGTTATGAGGTTATGC 57.300 37.500 0.00 0.00 0.00 3.14
2138 2268 3.761752 CCAAATTGGGGTTAGTGTGTAGG 59.238 47.826 3.60 0.00 32.67 3.18
2142 2272 1.980036 TGGGGTTAGTGTGTAGGGTTC 59.020 52.381 0.00 0.00 0.00 3.62
2277 2407 5.522460 GCTTCGCCATCTGTTACTTGTATTA 59.478 40.000 0.00 0.00 0.00 0.98
2285 2415 8.338259 CCATCTGTTACTTGTATTATTGCACTC 58.662 37.037 0.00 0.00 0.00 3.51
2420 2561 2.708325 TGCCCAGGGTTAAAGCAAAAAT 59.292 40.909 7.55 0.00 0.00 1.82
2421 2562 3.904339 TGCCCAGGGTTAAAGCAAAAATA 59.096 39.130 7.55 0.00 0.00 1.40
2422 2563 4.348168 TGCCCAGGGTTAAAGCAAAAATAA 59.652 37.500 7.55 0.00 0.00 1.40
2457 2599 5.841237 AGTCCAGCCTACATAATGTACTGAT 59.159 40.000 0.00 0.00 32.08 2.90
2546 2689 3.250280 GCTGATATGTGCACCATCTCAAG 59.750 47.826 22.14 15.24 36.55 3.02
2585 2728 6.980978 GGTCGTTTCTCTTGAGATTATCATGA 59.019 38.462 0.00 0.00 39.18 3.07
2588 2731 7.489435 TCGTTTCTCTTGAGATTATCATGACAC 59.511 37.037 0.00 0.00 37.22 3.67
2600 2743 9.201127 AGATTATCATGACACTGAATAATCACG 57.799 33.333 18.39 0.00 33.63 4.35
2672 2815 3.106242 AGTTTGGCAAATTTTCGGGTC 57.894 42.857 16.74 0.00 0.00 4.46
2690 2833 2.838202 GGTCTCCTCCCATGAACAAGTA 59.162 50.000 0.00 0.00 0.00 2.24
2694 2837 4.597507 TCTCCTCCCATGAACAAGTACTTT 59.402 41.667 5.07 0.00 0.00 2.66
2842 2986 8.992835 AATTTCCAGCATTTTCTTCTATTCAC 57.007 30.769 0.00 0.00 0.00 3.18
2886 3031 2.179267 GCTTAGGCGGCAAAGCAC 59.821 61.111 25.31 5.65 45.89 4.40
2887 3032 2.480555 CTTAGGCGGCAAAGCACG 59.519 61.111 13.08 0.00 39.27 5.34
2977 3133 0.107848 GCTCGCTTTAGGCCTTACCA 60.108 55.000 12.58 0.00 43.14 3.25
2978 3134 1.677820 GCTCGCTTTAGGCCTTACCAA 60.678 52.381 12.58 0.00 43.14 3.67
2996 3152 7.970614 CCTTACCAAATAAGAACATTGCTTCTC 59.029 37.037 0.00 0.00 42.75 2.87
3011 3167 8.903820 ACATTGCTTCTCTTTGTAACTAGTTTT 58.096 29.630 14.49 0.00 0.00 2.43
3014 3170 7.927048 TGCTTCTCTTTGTAACTAGTTTTTCC 58.073 34.615 14.49 0.70 0.00 3.13
3015 3171 7.773690 TGCTTCTCTTTGTAACTAGTTTTTCCT 59.226 33.333 14.49 0.00 0.00 3.36
3074 3231 6.199937 TCTTGCCATCAGCTTTTTATCTTC 57.800 37.500 0.00 0.00 44.23 2.87
3158 3315 2.088423 GGTGTCGGTGCATTATTCCAA 58.912 47.619 0.00 0.00 0.00 3.53
3161 3318 2.746904 TGTCGGTGCATTATTCCAAGTG 59.253 45.455 0.00 0.00 0.00 3.16
3163 3320 2.746904 TCGGTGCATTATTCCAAGTGTG 59.253 45.455 0.00 0.00 0.00 3.82
3164 3321 2.487762 CGGTGCATTATTCCAAGTGTGT 59.512 45.455 0.00 0.00 0.00 3.72
3165 3322 3.426159 CGGTGCATTATTCCAAGTGTGTC 60.426 47.826 0.00 0.00 0.00 3.67
3166 3323 3.505680 GGTGCATTATTCCAAGTGTGTCA 59.494 43.478 0.00 0.00 0.00 3.58
3167 3324 4.022416 GGTGCATTATTCCAAGTGTGTCAA 60.022 41.667 0.00 0.00 0.00 3.18
3168 3325 5.508825 GGTGCATTATTCCAAGTGTGTCAAA 60.509 40.000 0.00 0.00 0.00 2.69
3171 3328 7.485913 GTGCATTATTCCAAGTGTGTCAAATAG 59.514 37.037 0.00 0.00 0.00 1.73
3173 3330 7.698130 GCATTATTCCAAGTGTGTCAAATAGTC 59.302 37.037 0.00 0.00 0.00 2.59
3174 3331 7.681939 TTATTCCAAGTGTGTCAAATAGTCC 57.318 36.000 0.00 0.00 0.00 3.85
3175 3332 4.698201 TCCAAGTGTGTCAAATAGTCCA 57.302 40.909 0.00 0.00 0.00 4.02
3176 3333 4.641396 TCCAAGTGTGTCAAATAGTCCAG 58.359 43.478 0.00 0.00 0.00 3.86
3177 3334 4.346709 TCCAAGTGTGTCAAATAGTCCAGA 59.653 41.667 0.00 0.00 0.00 3.86
3178 3335 5.063204 CCAAGTGTGTCAAATAGTCCAGAA 58.937 41.667 0.00 0.00 0.00 3.02
3179 3336 5.180117 CCAAGTGTGTCAAATAGTCCAGAAG 59.820 44.000 0.00 0.00 0.00 2.85
3180 3337 5.808366 AGTGTGTCAAATAGTCCAGAAGA 57.192 39.130 0.00 0.00 0.00 2.87
3181 3338 5.542779 AGTGTGTCAAATAGTCCAGAAGAC 58.457 41.667 0.00 0.00 46.71 3.01
3214 3372 9.502145 ACATTTATTGCATACAACTATGTTTCG 57.498 29.630 0.00 0.00 41.05 3.46
3245 3403 5.278957 CCCTCCTTGTGTTAATGTTTCCTTG 60.279 44.000 0.00 0.00 0.00 3.61
3268 3426 6.397272 TGTGTGAATTTTTGAACTTGAGCTT 58.603 32.000 0.00 0.00 0.00 3.74
3269 3427 6.310956 TGTGTGAATTTTTGAACTTGAGCTTG 59.689 34.615 0.00 0.00 0.00 4.01
3365 3529 8.427276 ACCTCGGTATAATTAGGGAACTTAAAG 58.573 37.037 0.00 0.00 43.67 1.85
3410 3574 3.558931 AATGTCAGATATGTCCGCCAA 57.441 42.857 0.00 0.00 0.00 4.52
3421 3585 1.003003 TGTCCGCCAACATCATCTCAA 59.997 47.619 0.00 0.00 0.00 3.02
3448 3612 9.680315 GTTTAGATATGGACTGTATGTCTGTAC 57.320 37.037 1.45 0.00 44.74 2.90
3449 3613 9.642343 TTTAGATATGGACTGTATGTCTGTACT 57.358 33.333 0.00 0.00 44.74 2.73
3450 3614 7.753309 AGATATGGACTGTATGTCTGTACTC 57.247 40.000 0.00 0.00 44.74 2.59
3451 3615 7.522542 AGATATGGACTGTATGTCTGTACTCT 58.477 38.462 0.00 0.00 44.74 3.24
3452 3616 5.843673 ATGGACTGTATGTCTGTACTCTG 57.156 43.478 0.00 0.00 44.74 3.35
3453 3617 4.663334 TGGACTGTATGTCTGTACTCTGT 58.337 43.478 0.00 0.00 44.74 3.41
3454 3618 5.812286 TGGACTGTATGTCTGTACTCTGTA 58.188 41.667 0.00 0.00 44.74 2.74
3466 3630 0.178932 ACTCTGTAGGGACACCAGCA 60.179 55.000 0.00 0.00 40.13 4.41
3467 3631 1.198713 CTCTGTAGGGACACCAGCAT 58.801 55.000 0.00 0.00 40.13 3.79
3468 3632 2.292257 ACTCTGTAGGGACACCAGCATA 60.292 50.000 0.00 0.00 40.13 3.14
3470 3634 3.384168 TCTGTAGGGACACCAGCATAAT 58.616 45.455 0.00 0.00 40.13 1.28
3471 3635 3.388024 TCTGTAGGGACACCAGCATAATC 59.612 47.826 0.00 0.00 40.13 1.75
3472 3636 3.384168 TGTAGGGACACCAGCATAATCT 58.616 45.455 0.00 0.00 40.13 2.40
3474 3638 4.966168 TGTAGGGACACCAGCATAATCTTA 59.034 41.667 0.00 0.00 40.13 2.10
3476 3640 3.780294 AGGGACACCAGCATAATCTTACA 59.220 43.478 0.00 0.00 40.13 2.41
3477 3641 4.227300 AGGGACACCAGCATAATCTTACAA 59.773 41.667 0.00 0.00 40.13 2.41
3485 3653 8.292448 CACCAGCATAATCTTACAACATAATCC 58.708 37.037 0.00 0.00 0.00 3.01
3534 3702 5.894964 TGGCCTAAACCTTAACAAAGTCTTT 59.105 36.000 3.32 0.00 0.00 2.52
3645 3829 6.207417 AGTGTGATTGGAGTAGTCAAATTTGG 59.793 38.462 17.90 0.12 0.00 3.28
3663 3854 2.749600 TGGATTGCATAATGCCTTGGT 58.250 42.857 0.00 0.00 44.23 3.67
3738 3929 4.730035 GCTTTGAGCATTATGTCAGCTGAC 60.730 45.833 35.04 35.04 41.89 3.51
3739 3930 7.905859 GCTTTGAGCATTATGTCAGCTGACG 62.906 48.000 35.00 23.81 43.61 4.35
3766 3959 3.529533 CAGTCTTGCAGGAAGATAGTGG 58.470 50.000 7.74 0.00 42.82 4.00
3815 4008 3.829026 GGATGTTCTTTCTTGGCTTTCCT 59.171 43.478 0.00 0.00 0.00 3.36
3903 4096 2.031120 TCTTTGTTGGGTTGCCTCTTG 58.969 47.619 0.00 0.00 0.00 3.02
3916 4109 1.742268 GCCTCTTGACAAGCTCCAATC 59.258 52.381 10.50 0.00 0.00 2.67
4109 4302 6.265422 ACAGGCTTATATAAAGCATTTGGTCC 59.735 38.462 11.47 0.00 44.71 4.46
4251 4444 4.021456 TCCGAGCTGTCTAAATTTGAGTCA 60.021 41.667 0.00 0.00 0.00 3.41
4287 4481 2.446435 TGCCCTACCTTTTGCAGATTC 58.554 47.619 0.00 0.00 0.00 2.52
4325 4519 8.637986 AGCCTTTTAAGTGAAAACACATCATTA 58.362 29.630 0.00 0.00 33.39 1.90
4363 4557 3.381045 GCAGGTTTTAGCAAAGTTCACC 58.619 45.455 0.00 0.00 0.00 4.02
4366 4560 3.949113 AGGTTTTAGCAAAGTTCACCGAA 59.051 39.130 0.00 0.00 0.00 4.30
4585 4779 4.072839 CCTCTAAAGGGTCCAAAAGTGAC 58.927 47.826 0.00 0.00 39.21 3.67
4629 4823 7.654022 AAGAGAAGAAATCTAAGAGTCCGAT 57.346 36.000 0.00 0.00 38.96 4.18
4647 4841 1.069823 GATGACGATGGAGGCATCAGT 59.930 52.381 7.84 0.00 37.62 3.41
4696 4890 6.694877 AAAGAAAAGAAACCTAAAGAGCGT 57.305 33.333 0.00 0.00 0.00 5.07
4820 5015 4.571984 CGATGATTCCACTTGCAGTATTCA 59.428 41.667 0.00 0.00 0.00 2.57
4842 5037 5.726308 TCACCTTCTCATATCTTTTCTCCCA 59.274 40.000 0.00 0.00 0.00 4.37
4845 5040 6.012508 ACCTTCTCATATCTTTTCTCCCAACA 60.013 38.462 0.00 0.00 0.00 3.33
5087 5285 4.903010 ACGCCAGCACGAACGGTT 62.903 61.111 0.00 0.00 36.70 4.44
5114 5312 2.487762 CGCTGAAGCCTGAAAATTACCA 59.512 45.455 0.00 0.00 37.91 3.25
5118 5316 3.751175 TGAAGCCTGAAAATTACCAGTCG 59.249 43.478 6.35 0.00 0.00 4.18
5217 5418 3.181476 CCTGCCAACCAATAATACTTGCC 60.181 47.826 0.00 0.00 0.00 4.52
5223 5424 5.126869 CCAACCAATAATACTTGCCACATGA 59.873 40.000 0.00 0.00 0.00 3.07
5224 5425 6.267817 CAACCAATAATACTTGCCACATGAG 58.732 40.000 0.00 0.00 0.00 2.90
5242 5443 7.307989 CCACATGAGGTAAACAGTAACTCAAAG 60.308 40.741 0.00 4.48 41.03 2.77
5253 5454 4.268884 CAGTAACTCAAAGATTAGCGAGCC 59.731 45.833 0.00 0.00 0.00 4.70
5313 5514 5.657474 TGTGACCTAATTGTCTTACGGATC 58.343 41.667 0.00 0.00 36.21 3.36
5416 5617 2.425668 TGCGAGTTCGTCAAGATGGATA 59.574 45.455 3.27 0.00 42.22 2.59
5449 5650 3.153919 TGCTGAACTGGGTTATGTTTCC 58.846 45.455 0.00 0.00 0.00 3.13
5473 5694 7.282224 TCCGCTAATTTGACTATTTGTTATGCT 59.718 33.333 0.00 0.00 0.00 3.79
5520 5741 4.567558 ACAAATGTCTGCAACAACAACATG 59.432 37.500 5.94 0.00 42.37 3.21
5524 5745 2.358898 GTCTGCAACAACAACATGACCT 59.641 45.455 0.00 0.00 0.00 3.85
5600 5821 7.568199 ACCATTATGCTTCACCTTACATTAC 57.432 36.000 0.00 0.00 0.00 1.89
5643 5885 4.947645 AGCACACAAGCATGTAAAACAAT 58.052 34.783 0.00 0.00 37.82 2.71
5684 5926 9.920946 AACAAGTATCATGGAATAAATAGGTGT 57.079 29.630 0.00 0.00 0.00 4.16
5685 5927 9.920946 ACAAGTATCATGGAATAAATAGGTGTT 57.079 29.630 0.00 0.00 0.00 3.32
5690 5932 8.821686 ATCATGGAATAAATAGGTGTTTGACA 57.178 30.769 0.00 0.00 0.00 3.58
5707 5949 9.530129 GTGTTTGACACGAGAAAAATCTTATAG 57.470 33.333 0.00 0.00 39.53 1.31
5708 5950 8.227791 TGTTTGACACGAGAAAAATCTTATAGC 58.772 33.333 0.00 0.00 0.00 2.97
5709 5951 7.899178 TTGACACGAGAAAAATCTTATAGCA 57.101 32.000 0.00 0.00 0.00 3.49
5710 5952 7.290857 TGACACGAGAAAAATCTTATAGCAC 57.709 36.000 0.00 0.00 0.00 4.40
5711 5953 7.097192 TGACACGAGAAAAATCTTATAGCACT 58.903 34.615 0.00 0.00 0.00 4.40
5712 5954 7.275779 TGACACGAGAAAAATCTTATAGCACTC 59.724 37.037 0.00 0.00 0.00 3.51
5713 5955 6.535508 ACACGAGAAAAATCTTATAGCACTCC 59.464 38.462 0.00 0.00 0.00 3.85
5714 5956 5.749109 ACGAGAAAAATCTTATAGCACTCCG 59.251 40.000 0.00 0.00 0.00 4.63
5715 5957 5.175856 CGAGAAAAATCTTATAGCACTCCGG 59.824 44.000 0.00 0.00 0.00 5.14
5716 5958 5.368989 AGAAAAATCTTATAGCACTCCGGG 58.631 41.667 0.00 0.00 0.00 5.73
5717 5959 5.130477 AGAAAAATCTTATAGCACTCCGGGA 59.870 40.000 0.00 0.00 0.00 5.14
5718 5960 4.608948 AAATCTTATAGCACTCCGGGAG 57.391 45.455 22.40 22.40 35.52 4.30
5719 5961 3.527507 ATCTTATAGCACTCCGGGAGA 57.472 47.619 30.13 8.39 33.32 3.71
5720 5962 3.308035 TCTTATAGCACTCCGGGAGAA 57.692 47.619 30.13 11.75 33.32 2.87
5721 5963 3.223435 TCTTATAGCACTCCGGGAGAAG 58.777 50.000 30.13 20.04 33.32 2.85
5722 5964 1.996798 TATAGCACTCCGGGAGAAGG 58.003 55.000 30.13 18.46 33.32 3.46
5723 5965 0.760945 ATAGCACTCCGGGAGAAGGG 60.761 60.000 30.13 16.17 33.32 3.95
5724 5966 1.870941 TAGCACTCCGGGAGAAGGGA 61.871 60.000 30.13 8.48 33.32 4.20
5725 5967 2.291043 GCACTCCGGGAGAAGGGAA 61.291 63.158 30.13 0.00 33.32 3.97
5726 5968 1.901085 CACTCCGGGAGAAGGGAAG 59.099 63.158 30.13 2.40 33.32 3.46
5727 5969 0.614979 CACTCCGGGAGAAGGGAAGA 60.615 60.000 30.13 0.00 33.32 2.87
5728 5970 0.324830 ACTCCGGGAGAAGGGAAGAG 60.325 60.000 30.13 0.84 33.32 2.85
5729 5971 0.033011 CTCCGGGAGAAGGGAAGAGA 60.033 60.000 19.57 0.00 0.00 3.10
5730 5972 0.412244 TCCGGGAGAAGGGAAGAGAA 59.588 55.000 0.00 0.00 0.00 2.87
5731 5973 0.827368 CCGGGAGAAGGGAAGAGAAG 59.173 60.000 0.00 0.00 0.00 2.85
5732 5974 0.827368 CGGGAGAAGGGAAGAGAAGG 59.173 60.000 0.00 0.00 0.00 3.46
5733 5975 1.619977 CGGGAGAAGGGAAGAGAAGGA 60.620 57.143 0.00 0.00 0.00 3.36
5734 5976 2.115427 GGGAGAAGGGAAGAGAAGGAG 58.885 57.143 0.00 0.00 0.00 3.69
5735 5977 2.561069 GGGAGAAGGGAAGAGAAGGAGT 60.561 54.545 0.00 0.00 0.00 3.85
5736 5978 3.309994 GGGAGAAGGGAAGAGAAGGAGTA 60.310 52.174 0.00 0.00 0.00 2.59
5737 5979 4.552674 GGAGAAGGGAAGAGAAGGAGTAT 58.447 47.826 0.00 0.00 0.00 2.12
5738 5980 4.343814 GGAGAAGGGAAGAGAAGGAGTATG 59.656 50.000 0.00 0.00 0.00 2.39
5739 5981 4.954089 AGAAGGGAAGAGAAGGAGTATGT 58.046 43.478 0.00 0.00 0.00 2.29
5740 5982 6.093617 AGAAGGGAAGAGAAGGAGTATGTA 57.906 41.667 0.00 0.00 0.00 2.29
5741 5983 6.688554 AGAAGGGAAGAGAAGGAGTATGTAT 58.311 40.000 0.00 0.00 0.00 2.29
5742 5984 7.136203 AGAAGGGAAGAGAAGGAGTATGTATT 58.864 38.462 0.00 0.00 0.00 1.89
5743 5985 7.625682 AGAAGGGAAGAGAAGGAGTATGTATTT 59.374 37.037 0.00 0.00 0.00 1.40
5744 5986 7.368198 AGGGAAGAGAAGGAGTATGTATTTC 57.632 40.000 0.00 0.00 0.00 2.17
5745 5987 7.136203 AGGGAAGAGAAGGAGTATGTATTTCT 58.864 38.462 0.00 0.00 0.00 2.52
5746 5988 7.289084 AGGGAAGAGAAGGAGTATGTATTTCTC 59.711 40.741 4.77 4.77 42.42 2.87
5751 5993 8.859090 AGAGAAGGAGTATGTATTTCTCTCATG 58.141 37.037 8.75 0.00 46.69 3.07
5752 5994 8.546083 AGAAGGAGTATGTATTTCTCTCATGT 57.454 34.615 0.00 0.00 0.00 3.21
5753 5995 8.420222 AGAAGGAGTATGTATTTCTCTCATGTG 58.580 37.037 0.00 0.00 0.00 3.21
5754 5996 6.520272 AGGAGTATGTATTTCTCTCATGTGC 58.480 40.000 0.00 0.00 0.00 4.57
5755 5997 5.698545 GGAGTATGTATTTCTCTCATGTGCC 59.301 44.000 0.00 0.00 0.00 5.01
5756 5998 5.292765 AGTATGTATTTCTCTCATGTGCCG 58.707 41.667 0.00 0.00 0.00 5.69
5757 5999 2.905075 TGTATTTCTCTCATGTGCCGG 58.095 47.619 0.00 0.00 0.00 6.13
5758 6000 2.213499 GTATTTCTCTCATGTGCCGGG 58.787 52.381 2.18 0.00 0.00 5.73
5759 6001 0.107017 ATTTCTCTCATGTGCCGGGG 60.107 55.000 2.18 0.00 0.00 5.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
134 135 8.546083 TTGCTGTAATAAATCCCAATATGGTT 57.454 30.769 0.00 0.00 35.17 3.67
349 350 2.235016 GTGTGAGTGTCTCTCTCTGGT 58.765 52.381 3.71 0.00 43.13 4.00
709 714 1.066587 GAGAAGGGATGGCGACGAG 59.933 63.158 0.00 0.00 0.00 4.18
751 756 1.022451 TGCTAATTTGGGACGGCGAC 61.022 55.000 16.62 7.58 0.00 5.19
752 757 0.742990 CTGCTAATTTGGGACGGCGA 60.743 55.000 16.62 0.00 0.00 5.54
753 758 1.721487 CTGCTAATTTGGGACGGCG 59.279 57.895 4.80 4.80 0.00 6.46
754 759 1.032114 AGCTGCTAATTTGGGACGGC 61.032 55.000 0.00 0.00 0.00 5.68
954 968 2.044650 GAAACCCTAACCCCGGGC 60.045 66.667 17.73 0.00 46.04 6.13
1258 1273 3.724374 TGAATTACGCTATACCCAGCAC 58.276 45.455 0.00 0.00 41.88 4.40
1275 1290 6.726490 AGCAGGAGCAAATTTGATATGAAT 57.274 33.333 22.31 7.66 45.49 2.57
1307 1322 6.417930 GGCAAATTCATCCGAAATTAGCTAAC 59.582 38.462 8.70 0.00 34.01 2.34
1319 1334 0.734889 AGAAGCGGCAAATTCATCCG 59.265 50.000 1.45 8.17 45.46 4.18
1340 1355 4.411327 CAAGAAATTGTGTGTGTCGTTGT 58.589 39.130 0.00 0.00 0.00 3.32
1349 1364 4.670896 AAAGGTCCCAAGAAATTGTGTG 57.329 40.909 0.00 0.00 0.00 3.82
1475 1597 7.274250 GGCAAGCATTAACAGAAAATTACTCAG 59.726 37.037 0.00 0.00 0.00 3.35
1538 1660 1.072331 TGGAACTTCTCAGAGGCAACC 59.928 52.381 0.00 0.00 37.17 3.77
1598 1720 2.427095 GGAATCATACTGCCGCCTTTTT 59.573 45.455 0.00 0.00 0.00 1.94
1638 1760 6.072286 ACTCAAACTACTCAAATCAAGCCATG 60.072 38.462 0.00 0.00 0.00 3.66
1847 1977 4.530388 CTGCACAAACACAACTATCACTG 58.470 43.478 0.00 0.00 0.00 3.66
2138 2268 4.547406 ACTTTTAGCAGTTGAACGAACC 57.453 40.909 0.00 0.00 34.80 3.62
2142 2272 8.555166 TTGAATTTACTTTTAGCAGTTGAACG 57.445 30.769 0.00 0.00 0.00 3.95
2277 2407 4.207891 AGTTGACTTATCCGAGTGCAAT 57.792 40.909 0.00 0.00 0.00 3.56
2399 2540 1.794714 TTTTGCTTTAACCCTGGGCA 58.205 45.000 14.08 0.00 0.00 5.36
2420 2561 7.398829 TGTAGGCTGGACTTCATGTAAAATTA 58.601 34.615 0.00 0.00 0.00 1.40
2421 2562 6.245408 TGTAGGCTGGACTTCATGTAAAATT 58.755 36.000 0.00 0.00 0.00 1.82
2422 2563 5.815581 TGTAGGCTGGACTTCATGTAAAAT 58.184 37.500 0.00 0.00 0.00 1.82
2457 2599 6.868622 ACAAACTGTGCTACCATGTTAAAAA 58.131 32.000 0.00 0.00 0.00 1.94
2464 2607 6.256539 CAGATAGTACAAACTGTGCTACCATG 59.743 42.308 6.74 3.64 45.69 3.66
2546 2689 7.259161 AGAGAAACGACCAGTTATATGTCTTC 58.741 38.462 0.00 0.00 43.37 2.87
2672 2815 4.559862 AAGTACTTGTTCATGGGAGGAG 57.440 45.455 7.48 0.00 0.00 3.69
2729 2872 6.975772 CACCGTTTTCTTCAGGTTCAAAATAA 59.024 34.615 0.00 0.00 34.25 1.40
2842 2986 5.163754 CCAAGGCAGGACGTCTTAAAAATAG 60.164 44.000 16.46 0.00 37.50 1.73
2951 3100 1.241315 GCCTAAAGCGAGCACCCAAA 61.241 55.000 0.00 0.00 0.00 3.28
2952 3101 1.674322 GCCTAAAGCGAGCACCCAA 60.674 57.895 0.00 0.00 0.00 4.12
2978 3134 9.899226 GTTACAAAGAGAAGCAATGTTCTTATT 57.101 29.630 0.00 0.00 36.89 1.40
2996 3152 9.946165 CTTGGTAAGGAAAAACTAGTTACAAAG 57.054 33.333 8.92 6.84 31.54 2.77
3011 3167 5.076182 TGACAATTCATGCTTGGTAAGGAA 58.924 37.500 11.14 0.00 30.69 3.36
3014 3170 7.622672 GCATTTTGACAATTCATGCTTGGTAAG 60.623 37.037 15.38 0.00 33.97 2.34
3015 3171 6.147492 GCATTTTGACAATTCATGCTTGGTAA 59.853 34.615 15.38 4.73 33.97 2.85
3074 3231 4.099573 TCAGTAAGAAGCGGAGATTTAGGG 59.900 45.833 0.00 0.00 34.67 3.53
3158 3315 5.542779 GTCTTCTGGACTATTTGACACACT 58.457 41.667 0.00 0.00 41.46 3.55
3171 3328 9.039870 CAATAAATGTCAGATAGTCTTCTGGAC 57.960 37.037 10.33 0.00 42.78 4.02
3173 3330 7.496920 TGCAATAAATGTCAGATAGTCTTCTGG 59.503 37.037 10.33 0.00 42.78 3.86
3174 3331 8.429493 TGCAATAAATGTCAGATAGTCTTCTG 57.571 34.615 0.00 5.96 43.70 3.02
3177 3334 9.836864 TGTATGCAATAAATGTCAGATAGTCTT 57.163 29.630 0.00 0.00 0.00 3.01
3178 3335 9.836864 TTGTATGCAATAAATGTCAGATAGTCT 57.163 29.630 0.00 0.00 0.00 3.24
3179 3336 9.869844 GTTGTATGCAATAAATGTCAGATAGTC 57.130 33.333 0.00 0.00 36.92 2.59
3180 3337 9.618890 AGTTGTATGCAATAAATGTCAGATAGT 57.381 29.630 0.00 0.00 36.92 2.12
3184 3341 9.394767 ACATAGTTGTATGCAATAAATGTCAGA 57.605 29.630 12.36 0.00 39.94 3.27
3188 3345 9.502145 CGAAACATAGTTGTATGCAATAAATGT 57.498 29.630 12.36 12.36 39.94 2.71
3189 3346 9.502145 ACGAAACATAGTTGTATGCAATAAATG 57.498 29.630 0.00 6.80 39.94 2.32
3214 3372 5.533528 ACATTAACACAAGGAGGGTTGTAAC 59.466 40.000 0.00 0.00 45.38 2.50
3245 3403 6.311200 ACAAGCTCAAGTTCAAAAATTCACAC 59.689 34.615 0.00 0.00 0.00 3.82
3268 3426 6.071447 ACAAGCTCCAATTATTACAATGCACA 60.071 34.615 0.00 0.00 0.00 4.57
3269 3427 6.254157 CACAAGCTCCAATTATTACAATGCAC 59.746 38.462 0.00 0.00 0.00 4.57
3410 3574 8.932610 AGTCCATATCTAAACTTGAGATGATGT 58.067 33.333 0.00 0.00 35.79 3.06
3448 3612 1.198713 ATGCTGGTGTCCCTACAGAG 58.801 55.000 0.00 0.00 35.91 3.35
3449 3613 2.543037 TATGCTGGTGTCCCTACAGA 57.457 50.000 0.00 0.00 35.91 3.41
3450 3614 3.389329 AGATTATGCTGGTGTCCCTACAG 59.611 47.826 0.00 0.00 35.91 2.74
3451 3615 3.384168 AGATTATGCTGGTGTCCCTACA 58.616 45.455 0.00 0.00 0.00 2.74
3452 3616 4.423625 AAGATTATGCTGGTGTCCCTAC 57.576 45.455 0.00 0.00 0.00 3.18
3453 3617 4.966168 TGTAAGATTATGCTGGTGTCCCTA 59.034 41.667 0.00 0.00 0.00 3.53
3454 3618 3.780294 TGTAAGATTATGCTGGTGTCCCT 59.220 43.478 0.00 0.00 0.00 4.20
3470 3634 8.198109 GCTTCTCAGTAGGATTATGTTGTAAGA 58.802 37.037 0.00 0.00 0.00 2.10
3471 3635 8.200792 AGCTTCTCAGTAGGATTATGTTGTAAG 58.799 37.037 0.00 0.00 0.00 2.34
3472 3636 7.981789 CAGCTTCTCAGTAGGATTATGTTGTAA 59.018 37.037 0.00 0.00 0.00 2.41
3474 3638 6.344500 CAGCTTCTCAGTAGGATTATGTTGT 58.656 40.000 0.00 0.00 0.00 3.32
3476 3640 5.363939 GCAGCTTCTCAGTAGGATTATGTT 58.636 41.667 0.00 0.00 0.00 2.71
3477 3641 4.500545 CGCAGCTTCTCAGTAGGATTATGT 60.501 45.833 0.00 0.00 0.00 2.29
3485 3653 2.257894 CAGAACGCAGCTTCTCAGTAG 58.742 52.381 4.62 0.00 0.00 2.57
3489 3657 0.389025 TCACAGAACGCAGCTTCTCA 59.611 50.000 4.62 0.00 0.00 3.27
3491 3659 1.802960 CATTCACAGAACGCAGCTTCT 59.197 47.619 0.00 0.00 0.00 2.85
3534 3702 2.716424 GGATGGGGGATAGGATCACAAA 59.284 50.000 0.00 0.00 33.20 2.83
3601 3769 3.964031 CACTAGAAGATCTGGTTAGGCCT 59.036 47.826 11.78 11.78 35.96 5.19
3663 3854 9.899661 ATAAAATGGACTAACACAAGCATACTA 57.100 29.630 0.00 0.00 0.00 1.82
3738 3929 0.888619 TCCTGCAAGACTGGTAGACG 59.111 55.000 0.00 0.00 38.49 4.18
3739 3930 2.563179 TCTTCCTGCAAGACTGGTAGAC 59.437 50.000 0.00 0.00 38.38 2.59
3766 3959 4.451435 CAGAAGTAACTTTCCCGGTCTTTC 59.549 45.833 0.00 0.00 0.00 2.62
3815 4008 9.828852 GAATTATTATGTTCAAAACGGTACACA 57.171 29.630 0.00 0.00 0.00 3.72
3880 4073 3.308401 AGAGGCAACCCAACAAAGAAAT 58.692 40.909 0.00 0.00 37.17 2.17
3903 4096 3.129988 CCTGGAAATGATTGGAGCTTGTC 59.870 47.826 0.00 0.00 0.00 3.18
3916 4109 1.511305 CAGCAGCAGCCTGGAAATG 59.489 57.895 0.00 0.00 43.56 2.32
4085 4278 6.265196 TGGACCAAATGCTTTATATAAGCCTG 59.735 38.462 13.55 9.69 42.36 4.85
4287 4481 4.995487 ACTTAAAAGGCTGTTTCCGTAGAG 59.005 41.667 0.00 0.00 0.00 2.43
4325 4519 4.677182 ACCTGCCAATTCCAACTCTTAAT 58.323 39.130 0.00 0.00 0.00 1.40
4363 4557 3.532892 GCATATCTGCTGGTCATTTCG 57.467 47.619 0.00 0.00 45.32 3.46
4427 4621 2.687935 GTGAGAACAAGGCAAGGAACAA 59.312 45.455 0.00 0.00 0.00 2.83
4585 4779 6.423905 TCTCTTTTCTTACACTTTGGTCATCG 59.576 38.462 0.00 0.00 0.00 3.84
4647 4841 2.735772 GGGCCCTCTTCATCGCTCA 61.736 63.158 17.04 0.00 0.00 4.26
4820 5015 6.012508 TGTTGGGAGAAAAGATATGAGAAGGT 60.013 38.462 0.00 0.00 0.00 3.50
4842 5037 4.274950 CAGGAAACAAATCGGTACAGTGTT 59.725 41.667 0.00 0.00 33.97 3.32
4845 5040 4.345859 TCAGGAAACAAATCGGTACAGT 57.654 40.909 0.00 0.00 0.00 3.55
5087 5285 0.324614 TTCAGGCTTCAGCGGATCAA 59.675 50.000 0.00 0.00 43.26 2.57
5118 5316 1.776897 GAAAGTTGTTTACGCCAACGC 59.223 47.619 0.00 0.00 45.31 4.84
5217 5418 7.441157 TCTTTGAGTTACTGTTTACCTCATGTG 59.559 37.037 0.00 0.00 0.00 3.21
5223 5424 7.331193 CGCTAATCTTTGAGTTACTGTTTACCT 59.669 37.037 0.00 0.00 0.00 3.08
5224 5425 7.330208 TCGCTAATCTTTGAGTTACTGTTTACC 59.670 37.037 0.00 0.00 0.00 2.85
5242 5443 0.933796 GCAGAACAGGCTCGCTAATC 59.066 55.000 0.00 0.00 0.00 1.75
5397 5598 6.695713 TGTAATTATCCATCTTGACGAACTCG 59.304 38.462 0.00 0.00 46.33 4.18
5416 5617 6.367983 ACCCAGTTCAGCATCATATGTAATT 58.632 36.000 1.90 0.00 0.00 1.40
5430 5631 2.161609 GCGGAAACATAACCCAGTTCAG 59.838 50.000 0.00 0.00 0.00 3.02
5449 5650 8.841444 AAGCATAACAAATAGTCAAATTAGCG 57.159 30.769 0.00 0.00 0.00 4.26
5483 5704 9.539825 TGCAGACATTTGTTGTGTTTAATTTAT 57.460 25.926 0.00 0.00 39.18 1.40
5488 5709 6.159293 TGTTGCAGACATTTGTTGTGTTTAA 58.841 32.000 0.00 0.00 39.18 1.52
5520 5741 3.620488 TGATGCTTTGTGGGATAAGGTC 58.380 45.455 0.00 0.00 0.00 3.85
5524 5745 6.602410 TCATTTTGATGCTTTGTGGGATAA 57.398 33.333 0.00 0.00 0.00 1.75
5683 5925 8.227791 TGCTATAAGATTTTTCTCGTGTCAAAC 58.772 33.333 0.00 0.00 0.00 2.93
5684 5926 8.227791 GTGCTATAAGATTTTTCTCGTGTCAAA 58.772 33.333 0.00 0.00 0.00 2.69
5685 5927 7.602644 AGTGCTATAAGATTTTTCTCGTGTCAA 59.397 33.333 0.00 0.00 0.00 3.18
5686 5928 7.097192 AGTGCTATAAGATTTTTCTCGTGTCA 58.903 34.615 0.00 0.00 0.00 3.58
5687 5929 7.254151 GGAGTGCTATAAGATTTTTCTCGTGTC 60.254 40.741 0.00 0.00 0.00 3.67
5688 5930 6.535508 GGAGTGCTATAAGATTTTTCTCGTGT 59.464 38.462 0.00 0.00 0.00 4.49
5689 5931 6.291849 CGGAGTGCTATAAGATTTTTCTCGTG 60.292 42.308 0.00 0.00 0.00 4.35
5690 5932 5.749109 CGGAGTGCTATAAGATTTTTCTCGT 59.251 40.000 0.00 0.00 0.00 4.18
5691 5933 5.175856 CCGGAGTGCTATAAGATTTTTCTCG 59.824 44.000 0.00 0.00 0.00 4.04
5692 5934 5.467063 CCCGGAGTGCTATAAGATTTTTCTC 59.533 44.000 0.73 0.00 0.00 2.87
5693 5935 5.130477 TCCCGGAGTGCTATAAGATTTTTCT 59.870 40.000 0.73 0.00 0.00 2.52
5694 5936 5.365619 TCCCGGAGTGCTATAAGATTTTTC 58.634 41.667 0.73 0.00 0.00 2.29
5695 5937 5.130477 TCTCCCGGAGTGCTATAAGATTTTT 59.870 40.000 14.36 0.00 0.00 1.94
5696 5938 4.654262 TCTCCCGGAGTGCTATAAGATTTT 59.346 41.667 14.36 0.00 0.00 1.82
5697 5939 4.223953 TCTCCCGGAGTGCTATAAGATTT 58.776 43.478 14.36 0.00 0.00 2.17
5698 5940 3.845860 TCTCCCGGAGTGCTATAAGATT 58.154 45.455 14.36 0.00 0.00 2.40
5699 5941 3.527507 TCTCCCGGAGTGCTATAAGAT 57.472 47.619 14.36 0.00 0.00 2.40
5700 5942 3.223435 CTTCTCCCGGAGTGCTATAAGA 58.777 50.000 14.36 0.00 0.00 2.10
5701 5943 2.297597 CCTTCTCCCGGAGTGCTATAAG 59.702 54.545 14.36 8.96 0.00 1.73
5702 5944 2.317040 CCTTCTCCCGGAGTGCTATAA 58.683 52.381 14.36 0.00 0.00 0.98
5703 5945 1.480683 CCCTTCTCCCGGAGTGCTATA 60.481 57.143 14.36 0.00 0.00 1.31
5704 5946 0.760945 CCCTTCTCCCGGAGTGCTAT 60.761 60.000 14.36 0.00 0.00 2.97
5705 5947 1.381327 CCCTTCTCCCGGAGTGCTA 60.381 63.158 14.36 0.00 0.00 3.49
5706 5948 2.685380 CCCTTCTCCCGGAGTGCT 60.685 66.667 14.36 0.00 0.00 4.40
5707 5949 2.245438 CTTCCCTTCTCCCGGAGTGC 62.245 65.000 14.36 0.00 0.00 4.40
5708 5950 0.614979 TCTTCCCTTCTCCCGGAGTG 60.615 60.000 14.36 8.48 0.00 3.51
5709 5951 0.324830 CTCTTCCCTTCTCCCGGAGT 60.325 60.000 14.36 0.00 0.00 3.85
5710 5952 0.033011 TCTCTTCCCTTCTCCCGGAG 60.033 60.000 8.30 8.30 0.00 4.63
5711 5953 0.412244 TTCTCTTCCCTTCTCCCGGA 59.588 55.000 0.73 0.00 0.00 5.14
5712 5954 0.827368 CTTCTCTTCCCTTCTCCCGG 59.173 60.000 0.00 0.00 0.00 5.73
5713 5955 0.827368 CCTTCTCTTCCCTTCTCCCG 59.173 60.000 0.00 0.00 0.00 5.14
5714 5956 2.115427 CTCCTTCTCTTCCCTTCTCCC 58.885 57.143 0.00 0.00 0.00 4.30
5715 5957 2.827755 ACTCCTTCTCTTCCCTTCTCC 58.172 52.381 0.00 0.00 0.00 3.71
5716 5958 4.959839 ACATACTCCTTCTCTTCCCTTCTC 59.040 45.833 0.00 0.00 0.00 2.87
5717 5959 4.954089 ACATACTCCTTCTCTTCCCTTCT 58.046 43.478 0.00 0.00 0.00 2.85
5718 5960 6.987403 ATACATACTCCTTCTCTTCCCTTC 57.013 41.667 0.00 0.00 0.00 3.46
5719 5961 7.625682 AGAAATACATACTCCTTCTCTTCCCTT 59.374 37.037 0.00 0.00 0.00 3.95
5720 5962 7.136203 AGAAATACATACTCCTTCTCTTCCCT 58.864 38.462 0.00 0.00 0.00 4.20
5721 5963 7.289084 AGAGAAATACATACTCCTTCTCTTCCC 59.711 40.741 6.79 0.00 46.38 3.97
5722 5964 8.245195 AGAGAAATACATACTCCTTCTCTTCC 57.755 38.462 6.79 0.00 46.38 3.46
5726 5968 8.637986 ACATGAGAGAAATACATACTCCTTCTC 58.362 37.037 0.00 2.60 41.43 2.87
5727 5969 8.420222 CACATGAGAGAAATACATACTCCTTCT 58.580 37.037 0.00 0.00 0.00 2.85
5728 5970 7.170658 GCACATGAGAGAAATACATACTCCTTC 59.829 40.741 0.00 0.00 0.00 3.46
5729 5971 6.989169 GCACATGAGAGAAATACATACTCCTT 59.011 38.462 0.00 0.00 0.00 3.36
5730 5972 6.463614 GGCACATGAGAGAAATACATACTCCT 60.464 42.308 0.00 0.00 0.00 3.69
5731 5973 5.698545 GGCACATGAGAGAAATACATACTCC 59.301 44.000 0.00 0.00 0.00 3.85
5732 5974 5.403766 CGGCACATGAGAGAAATACATACTC 59.596 44.000 0.00 0.00 0.00 2.59
5733 5975 5.292765 CGGCACATGAGAGAAATACATACT 58.707 41.667 0.00 0.00 0.00 2.12
5734 5976 4.449068 CCGGCACATGAGAGAAATACATAC 59.551 45.833 0.00 0.00 0.00 2.39
5735 5977 4.503123 CCCGGCACATGAGAGAAATACATA 60.503 45.833 0.00 0.00 0.00 2.29
5736 5978 3.470709 CCGGCACATGAGAGAAATACAT 58.529 45.455 0.00 0.00 0.00 2.29
5737 5979 2.419990 CCCGGCACATGAGAGAAATACA 60.420 50.000 0.00 0.00 0.00 2.29
5738 5980 2.213499 CCCGGCACATGAGAGAAATAC 58.787 52.381 0.00 0.00 0.00 1.89
5739 5981 1.140852 CCCCGGCACATGAGAGAAATA 59.859 52.381 0.00 0.00 0.00 1.40
5740 5982 0.107017 CCCCGGCACATGAGAGAAAT 60.107 55.000 0.00 0.00 0.00 2.17
5741 5983 1.299648 CCCCGGCACATGAGAGAAA 59.700 57.895 0.00 0.00 0.00 2.52
5742 5984 2.989639 CCCCGGCACATGAGAGAA 59.010 61.111 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.