Multiple sequence alignment - TraesCS6A01G272500

Loading Multiple Alignment...

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 TraesCS6A01G272500 chr6A 100.000 4672 0 0 1 4672 499198306 499202977 0.000000e+00 8628.0
1 TraesCS6A01G272500 chr6A 88.742 151 14 2 2211 2361 499200369 499200516 1.030000e-41 182.0
2 TraesCS6A01G272500 chr6A 88.742 151 14 2 2064 2211 499200516 499200666 1.030000e-41 182.0
3 TraesCS6A01G272500 chr6B 91.814 2553 105 39 703 3204 538057901 538060400 0.000000e+00 3461.0
4 TraesCS6A01G272500 chr6B 89.959 727 53 7 3244 3957 538060399 538061118 0.000000e+00 920.0
5 TraesCS6A01G272500 chr6B 90.462 671 25 17 10 648 538057113 538057776 0.000000e+00 848.0
6 TraesCS6A01G272500 chr6B 89.200 500 45 4 4176 4672 538061423 538061916 2.390000e-172 616.0
7 TraesCS6A01G272500 chr6B 90.868 219 12 2 3971 4188 538061192 538061403 2.130000e-73 287.0
8 TraesCS6A01G272500 chr6B 90.066 151 15 0 2064 2214 538059413 538059563 3.690000e-46 196.0
9 TraesCS6A01G272500 chr6B 90.066 151 12 3 2211 2361 538059266 538059413 4.770000e-45 193.0
10 TraesCS6A01G272500 chr6B 96.078 51 2 0 649 699 538057824 538057874 3.000000e-12 84.2
11 TraesCS6A01G272500 chr6D 92.528 1994 73 22 1249 3204 356724375 356726330 0.000000e+00 2787.0
12 TraesCS6A01G272500 chr6D 90.110 728 52 10 3244 3957 356726329 356727050 0.000000e+00 928.0
13 TraesCS6A01G272500 chr6D 89.093 706 56 10 3971 4672 356727125 356727813 0.000000e+00 857.0
14 TraesCS6A01G272500 chr6D 92.982 456 18 7 5 450 356722622 356723073 0.000000e+00 652.0
15 TraesCS6A01G272500 chr6D 93.709 302 15 3 715 1015 356723640 356723938 2.560000e-122 449.0
16 TraesCS6A01G272500 chr6D 92.053 151 12 0 2064 2214 356725333 356725483 3.660000e-51 213.0
17 TraesCS6A01G272500 chr6D 96.154 130 4 1 520 648 356723399 356723528 1.320000e-50 211.0
18 TraesCS6A01G272500 chr6D 90.728 151 11 2 2211 2361 356725186 356725333 1.030000e-46 198.0
19 TraesCS6A01G272500 chr6D 91.000 100 9 0 428 527 356723111 356723210 8.150000e-28 135.0


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 TraesCS6A01G272500 chr6A 499198306 499202977 4671 False 2997.333333 8628 92.494667 1 4672 3 chr6A.!!$F1 4671
1 TraesCS6A01G272500 chr6B 538057113 538061916 4803 False 825.650000 3461 91.064125 10 4672 8 chr6B.!!$F1 4662
2 TraesCS6A01G272500 chr6D 356722622 356727813 5191 False 714.444444 2787 92.039667 5 4672 9 chr6D.!!$F1 4667

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
158 166 0.325296 ATCCACGAAGGGGTAGCTGA 60.325 55.0 0.0 0.0 38.24 4.26 F
1005 1386 0.188342 AGAGAGAGAGAGGGATGGGC 59.812 60.0 0.0 0.0 0.00 5.36 F
1485 2069 0.037017 TTGGATGGTGGGTTACGGTG 59.963 55.0 0.0 0.0 0.00 4.94 F
2744 3333 0.042431 AGCCCAGAGATGAGACAGGT 59.958 55.0 0.0 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1134 1515 0.036010 GGTAGCAGCAGAAGAAGCCA 60.036 55.0 0.0 0.0 0.00 4.75 R
2361 2950 0.106719 CCGCCCCATTCCATGTAACT 60.107 55.0 0.0 0.0 0.00 2.24 R
2974 3573 0.178950 ACAGCCCAGTCTCAGTCTCA 60.179 55.0 0.0 0.0 0.00 3.27 R
4601 5336 0.324645 AGGGCATTTGGACATCCCAC 60.325 55.0 0.0 0.0 46.62 4.61 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
56 64 6.366061 GGCTAAATTTTGTTTTACTCCAGCAG 59.634 38.462 0.00 0.00 0.00 4.24
142 150 1.344763 AGCGGTATAGCTTGTCCATCC 59.655 52.381 0.00 0.00 46.80 3.51
145 153 2.755650 GGTATAGCTTGTCCATCCACG 58.244 52.381 0.00 0.00 0.00 4.94
154 162 0.464452 GTCCATCCACGAAGGGGTAG 59.536 60.000 0.00 0.00 38.24 3.18
158 166 0.325296 ATCCACGAAGGGGTAGCTGA 60.325 55.000 0.00 0.00 38.24 4.26
214 222 7.713942 GCACATGCTAGGATCATCATCATAATA 59.286 37.037 0.00 0.00 38.21 0.98
253 261 4.344359 AGAAGACTTGAGAAGGGACAAC 57.656 45.455 0.00 0.00 0.00 3.32
254 262 2.821991 AGACTTGAGAAGGGACAACG 57.178 50.000 0.00 0.00 0.00 4.10
255 263 2.317040 AGACTTGAGAAGGGACAACGA 58.683 47.619 0.00 0.00 0.00 3.85
272 280 6.238022 GGACAACGAATACTACAAAGCATACC 60.238 42.308 0.00 0.00 0.00 2.73
392 400 7.413438 CGAAACTCTCCCTTTTTGATATGTGAG 60.413 40.741 0.00 0.00 0.00 3.51
416 424 3.699538 GAGAACCTCCACAACCTGTTTTT 59.300 43.478 0.00 0.00 0.00 1.94
462 531 4.520111 ACTGCAAGCATATTTGTGAGTCAA 59.480 37.500 0.00 0.00 37.60 3.18
480 549 4.023193 AGTCAACCGTGTTTCATTTCATCC 60.023 41.667 0.00 0.00 0.00 3.51
571 837 1.507140 CTGCCAGGTAGGTCCCATTA 58.493 55.000 0.00 0.00 40.61 1.90
593 859 9.398170 CATTAACAGAAGTCGATTTGTTTTCAT 57.602 29.630 0.00 0.00 35.55 2.57
618 884 1.463553 GCTTCCACCAAACCCCACAG 61.464 60.000 0.00 0.00 0.00 3.66
699 1012 1.880340 CGTCTGCCCATCTTCTCGC 60.880 63.158 0.00 0.00 0.00 5.03
749 1103 2.269241 GGACGAAGCCCAGGAAGG 59.731 66.667 0.00 0.00 37.03 3.46
772 1126 2.026262 GTCCAGCCCACAAAGAGGATTA 60.026 50.000 0.00 0.00 0.00 1.75
774 1128 2.239654 CCAGCCCACAAAGAGGATTAGA 59.760 50.000 0.00 0.00 0.00 2.10
827 1193 2.289756 GGGTCAAGTGAGGTTTCTCTCC 60.290 54.545 0.00 0.00 40.58 3.71
961 1328 1.099879 AAATCCGCATCAGGCTGCTC 61.100 55.000 10.34 0.00 40.06 4.26
962 1329 1.980784 AATCCGCATCAGGCTGCTCT 61.981 55.000 10.34 0.00 40.06 4.09
998 1379 4.222336 AGAGAGAGAGAGAGAGAGAGAGG 58.778 52.174 0.00 0.00 0.00 3.69
1005 1386 0.188342 AGAGAGAGAGAGGGATGGGC 59.812 60.000 0.00 0.00 0.00 5.36
1161 1542 2.759973 TGCTGCTACCTCCTCCGG 60.760 66.667 0.00 0.00 0.00 5.14
1234 1615 0.528466 GCCTCGTCTCGCATCAATCA 60.528 55.000 0.00 0.00 0.00 2.57
1276 1860 1.398390 GCACCTGATTGATTGACGGTC 59.602 52.381 0.00 0.00 0.00 4.79
1451 2035 0.482887 ACCAACCCTTCTTCCCCTTG 59.517 55.000 0.00 0.00 0.00 3.61
1485 2069 0.037017 TTGGATGGTGGGTTACGGTG 59.963 55.000 0.00 0.00 0.00 4.94
1493 2077 2.183555 GGTTACGGTGGCTCCTCG 59.816 66.667 3.83 0.00 0.00 4.63
1495 2079 2.283388 TTACGGTGGCTCCTCGGT 60.283 61.111 3.83 6.46 0.00 4.69
1523 2107 0.390735 CTTACTAAACGTGGCCGCCT 60.391 55.000 11.56 0.00 37.70 5.52
1525 2109 2.229690 TACTAAACGTGGCCGCCTCC 62.230 60.000 11.56 0.00 37.70 4.30
1865 2454 2.811431 CAAGAATACCAAGTTCACCGCA 59.189 45.455 0.00 0.00 0.00 5.69
1955 2544 2.732619 GGGCCTTTCGTCCGAGGAT 61.733 63.158 0.84 0.00 34.91 3.24
1990 2579 8.385033 GAGCCTAGAGAGGATGAAGAAGAACG 62.385 50.000 0.00 0.00 43.32 3.95
2037 2626 3.753815 TCTGATCATGGTTTGCAGACAA 58.246 40.909 9.87 0.00 31.24 3.18
2047 2636 3.328505 GTTTGCAGACAATGGATTTGGG 58.671 45.455 1.83 0.00 39.80 4.12
2125 2714 2.485814 GGAGTGAGGTCTTTGCATCAAC 59.514 50.000 0.00 0.00 30.75 3.18
2149 2738 1.523258 CAGAATCCTCTGCAGCCCG 60.523 63.158 9.47 0.00 42.66 6.13
2173 2762 4.322567 CCAGAGGAAGAAGAAACCAGAAG 58.677 47.826 0.00 0.00 0.00 2.85
2340 2929 5.944599 AGAATTGCTGACTCTGATGTTGAAT 59.055 36.000 0.00 0.00 0.00 2.57
2341 2930 7.108194 AGAATTGCTGACTCTGATGTTGAATA 58.892 34.615 0.00 0.00 0.00 1.75
2342 2931 7.774157 AGAATTGCTGACTCTGATGTTGAATAT 59.226 33.333 0.00 0.00 0.00 1.28
2361 2950 8.033178 TGAATATTATCCCACTGATGACTTCA 57.967 34.615 0.00 0.00 34.76 3.02
2459 3048 1.226491 GTGCAGCGATGATGTTGCC 60.226 57.895 4.02 0.00 44.37 4.52
2581 3170 1.606025 TTACACCAGTCGCCCGGTA 60.606 57.895 0.00 0.00 32.98 4.02
2744 3333 0.042431 AGCCCAGAGATGAGACAGGT 59.958 55.000 0.00 0.00 0.00 4.00
2752 3341 5.360999 CCAGAGATGAGACAGGTGTATACAA 59.639 44.000 7.25 0.00 0.00 2.41
2756 3345 8.221251 AGAGATGAGACAGGTGTATACAATAGA 58.779 37.037 7.25 0.00 0.00 1.98
2758 3347 6.373186 TGAGACAGGTGTATACAATAGACG 57.627 41.667 7.25 0.00 0.00 4.18
2761 3350 5.889853 AGACAGGTGTATACAATAGACGGAA 59.110 40.000 7.25 0.00 0.00 4.30
2775 3364 4.866508 AGACGGAATTGTACAAGACTGA 57.133 40.909 22.09 0.00 0.00 3.41
2859 3457 9.778993 ATTCTTGTCGTTTCATCAGAAATAATG 57.221 29.630 0.00 0.00 44.87 1.90
2935 3534 4.098349 TGCTCATTATCTTGGTTGGATTGC 59.902 41.667 0.00 0.00 0.00 3.56
2976 3575 9.621629 TTTTCTTTAACTGAGTTGAGGTTATGA 57.378 29.630 8.33 0.00 0.00 2.15
2977 3576 8.833231 TTCTTTAACTGAGTTGAGGTTATGAG 57.167 34.615 8.33 0.00 0.00 2.90
2978 3577 8.190326 TCTTTAACTGAGTTGAGGTTATGAGA 57.810 34.615 8.33 0.00 0.00 3.27
2998 3597 3.196685 AGACTGAGACTGGGCTGTAATTC 59.803 47.826 0.00 0.00 0.00 2.17
3007 3606 5.079643 ACTGGGCTGTAATTCTTTTGACAT 58.920 37.500 0.00 0.00 0.00 3.06
3010 3609 5.538053 TGGGCTGTAATTCTTTTGACATCAA 59.462 36.000 0.00 0.00 0.00 2.57
3022 3621 9.985730 TTCTTTTGACATCAAATTATGCTTTCT 57.014 25.926 7.83 0.00 44.30 2.52
3028 3627 4.454728 TCAAATTATGCTTTCTGTGGGC 57.545 40.909 0.00 0.00 0.00 5.36
3038 3647 0.106918 TTCTGTGGGCCGTTTGAAGT 60.107 50.000 0.00 0.00 0.00 3.01
3039 3648 0.817634 TCTGTGGGCCGTTTGAAGTG 60.818 55.000 0.00 0.00 0.00 3.16
3059 3671 2.890311 TGCCAACAAGGATGGTAGTTTG 59.110 45.455 0.00 0.00 41.22 2.93
3127 3749 2.307098 AGCAGACTGGCAATAACCTCTT 59.693 45.455 4.26 0.00 35.83 2.85
3158 3782 3.498774 AAAGTCATCAACTCCAGCAGT 57.501 42.857 0.00 0.00 37.17 4.40
3170 3795 0.037975 CCAGCAGTGACCCATTTTGC 60.038 55.000 0.00 0.00 35.09 3.68
3188 3813 2.700354 TGCTATGACATATGGGACCCA 58.300 47.619 17.73 17.73 38.19 4.51
3202 3827 1.211457 GGACCCAGCAGTCATCAATCT 59.789 52.381 4.27 0.00 38.59 2.40
3203 3828 2.356535 GGACCCAGCAGTCATCAATCTT 60.357 50.000 4.27 0.00 38.59 2.40
3204 3829 3.350833 GACCCAGCAGTCATCAATCTTT 58.649 45.455 0.00 0.00 36.73 2.52
3205 3830 3.760684 GACCCAGCAGTCATCAATCTTTT 59.239 43.478 0.00 0.00 36.73 2.27
3206 3831 4.154942 ACCCAGCAGTCATCAATCTTTTT 58.845 39.130 0.00 0.00 0.00 1.94
3232 3857 6.850752 TTGAAATGGTTTTCCCTATCTTCC 57.149 37.500 0.00 0.00 40.49 3.46
3233 3858 5.898120 TGAAATGGTTTTCCCTATCTTCCA 58.102 37.500 0.00 0.00 40.49 3.53
3234 3859 6.318913 TGAAATGGTTTTCCCTATCTTCCAA 58.681 36.000 0.00 0.00 40.49 3.53
3235 3860 6.784969 TGAAATGGTTTTCCCTATCTTCCAAA 59.215 34.615 0.00 0.00 40.49 3.28
3236 3861 7.457535 TGAAATGGTTTTCCCTATCTTCCAAAT 59.542 33.333 0.00 0.00 40.49 2.32
3237 3862 7.813087 AATGGTTTTCCCTATCTTCCAAATT 57.187 32.000 0.00 0.00 39.73 1.82
3238 3863 6.603940 TGGTTTTCCCTATCTTCCAAATTG 57.396 37.500 0.00 0.00 39.73 2.32
3239 3864 5.483583 TGGTTTTCCCTATCTTCCAAATTGG 59.516 40.000 5.48 5.48 39.73 3.16
3240 3865 5.719563 GGTTTTCCCTATCTTCCAAATTGGA 59.280 40.000 11.23 11.23 46.61 3.53
3241 3866 8.670549 TGGTTTTCCCTATCTTCCAAATTGGAC 61.671 40.741 15.24 0.00 42.46 4.02
3267 3892 1.134220 TGGTTCTCGGAACAAACTGCT 60.134 47.619 15.57 0.00 0.00 4.24
3285 3910 4.752101 ACTGCTGTGTTAGTGTTCAATCTC 59.248 41.667 0.00 0.00 0.00 2.75
3307 3932 8.885494 TCTCATTTCTGTGTTTTTAAATTGGG 57.115 30.769 0.00 0.00 0.00 4.12
3318 3943 7.811236 GTGTTTTTAAATTGGGGACTTAGCTAC 59.189 37.037 0.00 0.00 0.00 3.58
3320 3945 9.234827 GTTTTTAAATTGGGGACTTAGCTACTA 57.765 33.333 0.00 0.00 0.00 1.82
3372 3997 9.571810 TCACTGAAATTATGTAAAATCACATGC 57.428 29.630 0.00 0.00 39.46 4.06
3406 4042 1.003112 TGCGTACACACCCAATCCC 60.003 57.895 0.00 0.00 0.00 3.85
3408 4044 0.322187 GCGTACACACCCAATCCCTT 60.322 55.000 0.00 0.00 0.00 3.95
3411 4047 2.711542 GTACACACCCAATCCCTTGAG 58.288 52.381 0.00 0.00 34.04 3.02
3414 4050 1.073763 CACACCCAATCCCTTGAGTGA 59.926 52.381 6.94 0.00 42.04 3.41
3418 4054 2.225117 ACCCAATCCCTTGAGTGAAAGG 60.225 50.000 0.00 0.00 45.48 3.11
3464 4103 2.143122 CTCACGTGTATTTGGCACACT 58.857 47.619 16.51 0.00 43.32 3.55
3480 4119 6.404623 TTGGCACACTAATGCTAATAAGCTTG 60.405 38.462 9.86 0.00 44.84 4.01
3487 4126 1.827578 GCTAATAAGCTTGCAACGGC 58.172 50.000 9.86 0.00 45.85 5.68
3537 4176 7.294017 CCCATCTTGGCAAGTCATTATTATT 57.706 36.000 25.39 0.00 35.79 1.40
3545 4184 6.258287 TGGCAAGTCATTATTATTTTGCATGC 59.742 34.615 11.82 11.82 41.84 4.06
3561 4200 2.486727 GCATGCATCAGAGGAGGAATCA 60.487 50.000 14.21 0.00 0.00 2.57
3588 4227 5.247507 TCCATTTTATCAACCGCTGATTG 57.752 39.130 3.86 0.00 42.46 2.67
3634 4273 9.551734 CATCATAGAGAACAATAACTGGAATCA 57.448 33.333 0.00 0.00 0.00 2.57
3636 4275 9.383519 TCATAGAGAACAATAACTGGAATCAAC 57.616 33.333 0.00 0.00 0.00 3.18
3656 4295 5.992829 TCAACAAATAAGCGTGTTAGGAAGA 59.007 36.000 0.00 0.00 35.81 2.87
3694 4333 3.969117 TTACAGAAAACAGCACTGCAG 57.031 42.857 13.48 13.48 35.38 4.41
3696 4335 2.579873 ACAGAAAACAGCACTGCAGAT 58.420 42.857 23.35 2.48 35.38 2.90
3701 4340 3.950869 ACAGCACTGCAGATGATGT 57.049 47.368 24.68 24.68 41.68 3.06
3702 4341 3.339253 AACAGCACTGCAGATGATGTA 57.661 42.857 28.00 0.00 45.52 2.29
3703 4342 3.339253 ACAGCACTGCAGATGATGTAA 57.661 42.857 27.21 0.00 44.49 2.41
3704 4343 3.268330 ACAGCACTGCAGATGATGTAAG 58.732 45.455 27.21 11.14 44.49 2.34
3705 4344 3.268330 CAGCACTGCAGATGATGTAAGT 58.732 45.455 23.35 0.00 0.00 2.24
3731 4370 2.869233 TTGAAGTTCTTGGTTGCAGC 57.131 45.000 4.17 0.00 0.00 5.25
3741 4380 3.769300 TCTTGGTTGCAGCTATCTCAGTA 59.231 43.478 0.00 0.00 0.00 2.74
3809 4448 3.920231 TCTAGCATGCTTGGATTGAGT 57.080 42.857 28.02 0.00 0.00 3.41
3825 4464 6.586344 GGATTGAGTCCTCATATTGAGTTCA 58.414 40.000 0.00 2.72 42.80 3.18
3828 4467 5.410924 TGAGTCCTCATATTGAGTTCAACG 58.589 41.667 4.00 0.00 42.80 4.10
3957 4596 9.173021 CCTCATGTGGTGTTCTTTTAATATACA 57.827 33.333 5.61 0.00 0.00 2.29
4039 4739 2.869101 TGCCACATGGTAAGCACTAA 57.131 45.000 0.00 0.00 37.57 2.24
4043 4743 5.028212 GCCACATGGTAAGCACTAAGCAG 62.028 52.174 0.00 0.00 41.26 4.24
4070 4770 5.976534 TGCACATGTTTAAATGTTGACTGTC 59.023 36.000 0.00 0.00 38.75 3.51
4132 4832 4.804868 TGTTGGGATGAAATGATGGTTG 57.195 40.909 0.00 0.00 0.00 3.77
4141 4841 7.279313 GGGATGAAATGATGGTTGAAATTTCAG 59.721 37.037 19.64 0.00 46.47 3.02
4144 4844 8.592105 TGAAATGATGGTTGAAATTTCAGTTC 57.408 30.769 19.64 12.64 41.62 3.01
4174 4874 5.965922 AGAAAACAAATATGCTAACCTGGC 58.034 37.500 0.00 0.00 0.00 4.85
4276 5008 5.296780 CACAAGACATGAACCACAAACTAGT 59.703 40.000 0.00 0.00 0.00 2.57
4277 5009 5.527582 ACAAGACATGAACCACAAACTAGTC 59.472 40.000 0.00 0.00 0.00 2.59
4299 5031 5.150715 TCCTCTATGGACTTACAGATGCAT 58.849 41.667 0.00 0.00 40.56 3.96
4321 5053 8.888716 TGCATTTTGACACGAAACTACATATAT 58.111 29.630 0.00 0.00 0.00 0.86
4327 5059 9.524106 TTGACACGAAACTACATATATAGTTGG 57.476 33.333 7.17 5.63 43.17 3.77
4391 5126 4.041075 TCAATACTTGCAGTGGTCCTTGTA 59.959 41.667 0.00 0.00 0.00 2.41
4401 5136 5.221244 GCAGTGGTCCTTGTAAATTGTTTCT 60.221 40.000 0.00 0.00 0.00 2.52
4426 5161 9.434420 CTCTATCCTTTAGCTAAAATGATGAGG 57.566 37.037 26.27 19.66 34.50 3.86
4427 5162 8.378565 TCTATCCTTTAGCTAAAATGATGAGGG 58.621 37.037 26.27 18.95 34.50 4.30
4440 5175 0.034670 ATGAGGGAGCAAGCAAGACC 60.035 55.000 0.00 0.00 0.00 3.85
4448 5183 0.039256 GCAAGCAAGACCGCATGAAA 60.039 50.000 0.00 0.00 32.42 2.69
4486 5221 6.968131 TTCGTCTTCCTTCAATGATACAAG 57.032 37.500 0.00 0.00 0.00 3.16
4490 5225 7.544566 TCGTCTTCCTTCAATGATACAAGTAAC 59.455 37.037 0.00 0.00 0.00 2.50
4511 5246 8.410912 AGTAACCTTTTACATTGTCTTCAAACC 58.589 33.333 0.00 0.00 40.25 3.27
4513 5248 6.569780 ACCTTTTACATTGTCTTCAAACCAC 58.430 36.000 0.00 0.00 37.11 4.16
4516 5251 7.547370 CCTTTTACATTGTCTTCAAACCACAAA 59.453 33.333 0.00 0.00 37.11 2.83
4526 5261 5.538053 TCTTCAAACCACAAAGCCATGATTA 59.462 36.000 0.00 0.00 0.00 1.75
4527 5262 5.132897 TCAAACCACAAAGCCATGATTAC 57.867 39.130 0.00 0.00 0.00 1.89
4528 5263 4.832266 TCAAACCACAAAGCCATGATTACT 59.168 37.500 0.00 0.00 0.00 2.24
4542 5277 6.570378 GCCATGATTACTTTGTGCAAACTACT 60.570 38.462 0.00 0.00 0.00 2.57
4544 5279 7.308529 CCATGATTACTTTGTGCAAACTACTGA 60.309 37.037 0.00 0.00 0.00 3.41
4545 5280 7.189693 TGATTACTTTGTGCAAACTACTGAG 57.810 36.000 0.00 0.00 0.00 3.35
4546 5281 6.989759 TGATTACTTTGTGCAAACTACTGAGA 59.010 34.615 0.00 0.00 0.00 3.27
4552 5287 5.422666 TGTGCAAACTACTGAGAACAATG 57.577 39.130 0.00 0.00 0.00 2.82
4553 5288 5.122519 TGTGCAAACTACTGAGAACAATGA 58.877 37.500 0.00 0.00 0.00 2.57
4579 5314 0.527113 TTGGCAGGAATGTTGCATCG 59.473 50.000 0.00 0.00 43.28 3.84
4599 5334 4.175516 TCGGCATCAAAATGAATTCAAGC 58.824 39.130 13.09 7.88 34.61 4.01
4601 5336 4.032445 CGGCATCAAAATGAATTCAAGCTG 59.968 41.667 13.09 9.60 34.61 4.24
4602 5337 4.933400 GGCATCAAAATGAATTCAAGCTGT 59.067 37.500 13.09 0.00 34.61 4.40
4621 5356 0.413037 TGGGATGTCCAAATGCCCTT 59.587 50.000 0.00 0.00 43.84 3.95
4637 5372 5.132897 TGCCCTTAAGTGCATAAAACAAG 57.867 39.130 8.68 0.00 31.31 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 4.584325 TGTTTTCATTGTCCTTCTCCTTGG 59.416 41.667 0.00 0.00 0.00 3.61
3 4 5.772825 TGTTTTCATTGTCCTTCTCCTTG 57.227 39.130 0.00 0.00 0.00 3.61
56 64 4.018870 AGAAGATCCTTCTCCCAAAAGGTC 60.019 45.833 3.56 0.63 43.22 3.85
142 150 2.307768 TCTATCAGCTACCCCTTCGTG 58.692 52.381 0.00 0.00 0.00 4.35
145 153 5.512232 CCTTTGATCTATCAGCTACCCCTTC 60.512 48.000 0.00 0.00 38.19 3.46
154 162 6.322201 TCCATTTTTCCCTTTGATCTATCAGC 59.678 38.462 0.00 0.00 38.19 4.26
158 166 7.895429 TCACTTCCATTTTTCCCTTTGATCTAT 59.105 33.333 0.00 0.00 0.00 1.98
214 222 6.771267 AGTCTTCTTATTTCCTTCGGTTTTGT 59.229 34.615 0.00 0.00 0.00 2.83
253 261 6.903883 AACAGGTATGCTTTGTAGTATTCG 57.096 37.500 0.00 0.00 0.00 3.34
254 262 7.711339 AGCTAACAGGTATGCTTTGTAGTATTC 59.289 37.037 0.00 0.00 30.96 1.75
255 263 7.565680 AGCTAACAGGTATGCTTTGTAGTATT 58.434 34.615 0.00 0.00 30.96 1.89
272 280 1.297664 GAGGCATGCAGAGCTAACAG 58.702 55.000 21.36 0.00 0.00 3.16
376 384 6.656693 AGGTTCTCACTCACATATCAAAAAGG 59.343 38.462 0.00 0.00 0.00 3.11
392 400 1.141053 ACAGGTTGTGGAGGTTCTCAC 59.859 52.381 0.00 0.00 31.08 3.51
462 531 3.750371 TCTGGATGAAATGAAACACGGT 58.250 40.909 0.00 0.00 0.00 4.83
480 549 4.335594 GGGATTGAGGTTCCGTTTTATCTG 59.664 45.833 0.00 0.00 33.82 2.90
516 585 2.730524 GGAGGGGCTCTGAGAGTGC 61.731 68.421 11.64 0.00 34.23 4.40
571 837 6.692681 CACATGAAAACAAATCGACTTCTGTT 59.307 34.615 0.00 0.00 33.51 3.16
711 1047 4.864334 GCCTCCGTCATGGGCCTG 62.864 72.222 4.53 0.24 39.96 4.85
838 1204 2.993937 TCAACCGATGGATTTACACCC 58.006 47.619 0.00 0.00 0.00 4.61
839 1205 5.379732 TTTTCAACCGATGGATTTACACC 57.620 39.130 0.00 0.00 0.00 4.16
853 1219 2.029380 AGGCAACGGCTATTTTTCAACC 60.029 45.455 0.00 0.00 46.39 3.77
854 1220 3.297830 AGGCAACGGCTATTTTTCAAC 57.702 42.857 0.00 0.00 46.39 3.18
961 1328 4.892345 TCTCTCTCTCTCTCTCTCTCTCAG 59.108 50.000 0.00 0.00 0.00 3.35
962 1329 4.871822 TCTCTCTCTCTCTCTCTCTCTCA 58.128 47.826 0.00 0.00 0.00 3.27
998 1379 1.755783 CTTCTTGCCCTGCCCATCC 60.756 63.158 0.00 0.00 0.00 3.51
1005 1386 1.675641 CGTTCCCCTTCTTGCCCTG 60.676 63.158 0.00 0.00 0.00 4.45
1086 1467 2.105821 TCCATCTTTGGTTTCCTCGTGT 59.894 45.455 0.00 0.00 44.06 4.49
1134 1515 0.036010 GGTAGCAGCAGAAGAAGCCA 60.036 55.000 0.00 0.00 0.00 4.75
1135 1516 0.251634 AGGTAGCAGCAGAAGAAGCC 59.748 55.000 0.00 0.00 0.00 4.35
1215 1596 0.528466 TGATTGATGCGAGACGAGGC 60.528 55.000 0.00 0.00 0.00 4.70
1451 2035 3.485877 CCATCCAACGAAGCGAATCTTTC 60.486 47.826 0.00 0.00 34.56 2.62
1501 2085 1.799994 GCGGCCACGTTTAGTAAGAAA 59.200 47.619 2.24 0.00 43.45 2.52
1523 2107 1.600636 CTGCAGGCCAAGAAACGGA 60.601 57.895 5.01 0.00 0.00 4.69
1525 2109 0.040067 GAACTGCAGGCCAAGAAACG 60.040 55.000 19.93 0.00 0.00 3.60
1955 2544 6.408770 TCCTCTCTAGGCTCCATAATATCA 57.591 41.667 0.00 0.00 43.31 2.15
1990 2579 3.869272 CGCCAACAGCCGCATCTC 61.869 66.667 0.00 0.00 38.78 2.75
2009 2598 3.503363 GCAAACCATGATCAGAAGTGTCA 59.497 43.478 0.09 0.00 0.00 3.58
2013 2602 3.755378 GTCTGCAAACCATGATCAGAAGT 59.245 43.478 0.09 0.00 35.81 3.01
2037 2626 2.765699 CAATTCCGGTTCCCAAATCCAT 59.234 45.455 0.00 0.00 0.00 3.41
2047 2636 2.390427 CCGCCTACAATTCCGGTTC 58.610 57.895 0.00 0.00 36.18 3.62
2149 2738 1.073923 TGGTTTCTTCTTCCTCTGGCC 59.926 52.381 0.00 0.00 0.00 5.36
2155 2744 3.137360 AGCACTTCTGGTTTCTTCTTCCT 59.863 43.478 0.00 0.00 0.00 3.36
2173 2762 5.808042 ATATTCAACATCACAGTCAGCAC 57.192 39.130 0.00 0.00 0.00 4.40
2251 2840 2.612285 TGATCCACAGACCTCACTCT 57.388 50.000 0.00 0.00 0.00 3.24
2290 2879 2.283173 CTTCCACTGGTTGGGCCC 60.283 66.667 17.59 17.59 46.92 5.80
2361 2950 0.106719 CCGCCCCATTCCATGTAACT 60.107 55.000 0.00 0.00 0.00 2.24
2459 3048 4.386049 GTCACACAGTTTACTGATCTTCCG 59.614 45.833 16.31 0.00 46.59 4.30
2581 3170 3.377485 CACTTTGCTGCAATCTCTAGCAT 59.623 43.478 16.77 0.00 45.76 3.79
2744 3333 9.524106 CTTGTACAATTCCGTCTATTGTATACA 57.476 33.333 9.13 0.08 45.20 2.29
2752 3341 6.153000 ACTCAGTCTTGTACAATTCCGTCTAT 59.847 38.462 9.13 0.00 0.00 1.98
2756 3345 4.202223 ACACTCAGTCTTGTACAATTCCGT 60.202 41.667 9.13 0.00 0.00 4.69
2758 3347 5.758296 TCAACACTCAGTCTTGTACAATTCC 59.242 40.000 9.13 0.09 0.00 3.01
2761 3350 5.986135 GTCTCAACACTCAGTCTTGTACAAT 59.014 40.000 9.13 0.00 0.00 2.71
2775 3364 2.226912 GAGTACTGCGAGTCTCAACACT 59.773 50.000 0.00 0.00 0.00 3.55
2828 3426 7.962964 TCTGATGAAACGACAAGAATACTTT 57.037 32.000 0.00 0.00 33.70 2.66
2841 3439 7.862372 CCCCAATACATTATTTCTGATGAAACG 59.138 37.037 0.00 0.00 43.90 3.60
2846 3444 8.469309 AGAACCCCAATACATTATTTCTGATG 57.531 34.615 0.00 0.00 0.00 3.07
2904 3503 7.542130 CCAACCAAGATAATGAGCAGTTAAAAC 59.458 37.037 0.00 0.00 0.00 2.43
2905 3504 7.450014 TCCAACCAAGATAATGAGCAGTTAAAA 59.550 33.333 0.00 0.00 0.00 1.52
2906 3505 6.945435 TCCAACCAAGATAATGAGCAGTTAAA 59.055 34.615 0.00 0.00 0.00 1.52
2907 3506 6.480763 TCCAACCAAGATAATGAGCAGTTAA 58.519 36.000 0.00 0.00 0.00 2.01
2908 3507 6.061022 TCCAACCAAGATAATGAGCAGTTA 57.939 37.500 0.00 0.00 0.00 2.24
2909 3508 4.922206 TCCAACCAAGATAATGAGCAGTT 58.078 39.130 0.00 0.00 0.00 3.16
2910 3509 4.574674 TCCAACCAAGATAATGAGCAGT 57.425 40.909 0.00 0.00 0.00 4.40
2951 3550 9.273016 CTCATAACCTCAACTCAGTTAAAGAAA 57.727 33.333 0.00 0.00 30.33 2.52
2963 3562 5.184864 CAGTCTCAGTCTCATAACCTCAACT 59.815 44.000 0.00 0.00 0.00 3.16
2973 3572 1.193323 CAGCCCAGTCTCAGTCTCAT 58.807 55.000 0.00 0.00 0.00 2.90
2974 3573 0.178950 ACAGCCCAGTCTCAGTCTCA 60.179 55.000 0.00 0.00 0.00 3.27
2975 3574 1.840737 TACAGCCCAGTCTCAGTCTC 58.159 55.000 0.00 0.00 0.00 3.36
2976 3575 2.310779 TTACAGCCCAGTCTCAGTCT 57.689 50.000 0.00 0.00 0.00 3.24
2977 3576 3.196685 AGAATTACAGCCCAGTCTCAGTC 59.803 47.826 0.00 0.00 0.00 3.51
2978 3577 3.177228 AGAATTACAGCCCAGTCTCAGT 58.823 45.455 0.00 0.00 0.00 3.41
3007 3606 3.195396 GGCCCACAGAAAGCATAATTTGA 59.805 43.478 0.00 0.00 0.00 2.69
3010 3609 1.750778 CGGCCCACAGAAAGCATAATT 59.249 47.619 0.00 0.00 0.00 1.40
3022 3621 2.485795 GCACTTCAAACGGCCCACA 61.486 57.895 0.00 0.00 0.00 4.17
3028 3627 1.535860 CCTTGTTGGCACTTCAAACGG 60.536 52.381 0.00 0.00 0.00 4.44
3038 3647 2.890311 CAAACTACCATCCTTGTTGGCA 59.110 45.455 0.00 0.00 37.81 4.92
3039 3648 2.352715 GCAAACTACCATCCTTGTTGGC 60.353 50.000 0.00 0.00 37.81 4.52
3059 3671 1.946283 GCCACTCTTGTAAGACTGGGC 60.946 57.143 16.79 13.16 38.61 5.36
3098 3720 0.463204 TGCCAGTCTGCTAGAGATGC 59.537 55.000 0.00 0.22 31.63 3.91
3139 3763 2.369860 TCACTGCTGGAGTTGATGACTT 59.630 45.455 0.00 0.00 39.19 3.01
3147 3771 0.773644 AATGGGTCACTGCTGGAGTT 59.226 50.000 0.00 0.00 29.75 3.01
3158 3782 5.535783 CCATATGTCATAGCAAAATGGGTCA 59.464 40.000 1.24 0.00 34.75 4.02
3170 3795 2.639347 TGCTGGGTCCCATATGTCATAG 59.361 50.000 12.23 0.00 30.82 2.23
3206 3831 8.977412 GGAAGATAGGGAAAACCATTTCAATAA 58.023 33.333 3.97 0.00 45.53 1.40
3207 3832 8.119246 TGGAAGATAGGGAAAACCATTTCAATA 58.881 33.333 3.97 0.00 45.53 1.90
3208 3833 6.959366 TGGAAGATAGGGAAAACCATTTCAAT 59.041 34.615 3.97 0.00 45.53 2.57
3209 3834 6.318913 TGGAAGATAGGGAAAACCATTTCAA 58.681 36.000 3.97 0.00 45.53 2.69
3210 3835 5.898120 TGGAAGATAGGGAAAACCATTTCA 58.102 37.500 3.97 0.00 45.53 2.69
3211 3836 6.850752 TTGGAAGATAGGGAAAACCATTTC 57.149 37.500 0.00 0.00 43.89 2.17
3212 3837 7.813087 ATTTGGAAGATAGGGAAAACCATTT 57.187 32.000 0.00 0.00 43.89 2.32
3213 3838 7.311234 CCAATTTGGAAGATAGGGAAAACCATT 60.311 37.037 10.03 0.00 40.96 3.16
3214 3839 6.156775 CCAATTTGGAAGATAGGGAAAACCAT 59.843 38.462 10.03 0.00 40.96 3.55
3215 3840 5.483583 CCAATTTGGAAGATAGGGAAAACCA 59.516 40.000 10.03 0.00 40.96 3.67
3216 3841 5.719563 TCCAATTTGGAAGATAGGGAAAACC 59.280 40.000 15.83 0.00 45.00 3.27
3217 3842 6.850752 TCCAATTTGGAAGATAGGGAAAAC 57.149 37.500 15.83 0.00 45.00 2.43
3230 3855 6.072175 CGAGAACCATTAAAGTCCAATTTGGA 60.072 38.462 14.24 14.24 45.98 3.53
3231 3856 6.092748 CGAGAACCATTAAAGTCCAATTTGG 58.907 40.000 9.28 9.28 39.43 3.28
3232 3857 6.072175 TCCGAGAACCATTAAAGTCCAATTTG 60.072 38.462 0.00 0.00 0.00 2.32
3233 3858 6.007703 TCCGAGAACCATTAAAGTCCAATTT 58.992 36.000 0.00 0.00 0.00 1.82
3234 3859 5.566469 TCCGAGAACCATTAAAGTCCAATT 58.434 37.500 0.00 0.00 0.00 2.32
3235 3860 5.174037 TCCGAGAACCATTAAAGTCCAAT 57.826 39.130 0.00 0.00 0.00 3.16
3236 3861 4.627284 TCCGAGAACCATTAAAGTCCAA 57.373 40.909 0.00 0.00 0.00 3.53
3237 3862 4.202377 TGTTCCGAGAACCATTAAAGTCCA 60.202 41.667 12.35 0.00 0.00 4.02
3238 3863 4.320870 TGTTCCGAGAACCATTAAAGTCC 58.679 43.478 12.35 0.00 0.00 3.85
3239 3864 5.934935 TTGTTCCGAGAACCATTAAAGTC 57.065 39.130 12.35 0.00 0.00 3.01
3240 3865 5.826208 AGTTTGTTCCGAGAACCATTAAAGT 59.174 36.000 12.35 7.57 0.00 2.66
3241 3866 6.142817 CAGTTTGTTCCGAGAACCATTAAAG 58.857 40.000 12.35 0.00 0.00 1.85
3242 3867 5.506649 GCAGTTTGTTCCGAGAACCATTAAA 60.507 40.000 12.35 5.56 0.00 1.52
3267 3892 7.498900 ACAGAAATGAGATTGAACACTAACACA 59.501 33.333 0.00 0.00 0.00 3.72
3285 3910 7.714813 AGTCCCCAATTTAAAAACACAGAAATG 59.285 33.333 0.00 0.00 0.00 2.32
3307 3932 7.643569 AACTTCTTACCTAGTAGCTAAGTCC 57.356 40.000 10.66 0.00 0.00 3.85
3352 3977 9.709495 ACAAGTGCATGTGATTTTACATAATTT 57.291 25.926 6.59 0.00 39.17 1.82
3357 3982 6.864685 CAGAACAAGTGCATGTGATTTTACAT 59.135 34.615 6.59 0.00 41.77 2.29
3372 3997 1.265095 ACGCAGATTGCAGAACAAGTG 59.735 47.619 1.69 0.00 45.36 3.16
3391 4027 2.039879 ACTCAAGGGATTGGGTGTGTAC 59.960 50.000 0.00 0.00 33.69 2.90
3464 4103 4.497340 GCCGTTGCAAGCTTATTAGCATTA 60.497 41.667 9.70 0.00 43.12 1.90
3480 4119 4.875544 TGATTCTATTACAAGCCGTTGC 57.124 40.909 0.00 0.00 37.14 4.17
3487 4126 8.348507 GCCCAATCTTCTTGATTCTATTACAAG 58.651 37.037 0.00 0.00 43.00 3.16
3537 4176 1.282738 TCCTCCTCTGATGCATGCAAA 59.717 47.619 26.68 15.23 0.00 3.68
3545 4184 6.776744 TGGATAATTGATTCCTCCTCTGATG 58.223 40.000 5.75 0.00 32.95 3.07
3561 4200 7.581213 TCAGCGGTTGATAAAATGGATAATT 57.419 32.000 0.00 0.00 0.00 1.40
3579 4218 3.589988 AGTTAGTGAGAACAATCAGCGG 58.410 45.455 0.00 0.00 0.00 5.52
3588 4227 7.246674 TGATGTTGACAAAGTTAGTGAGAAC 57.753 36.000 0.00 0.00 0.00 3.01
3634 4273 7.448748 AATCTTCCTAACACGCTTATTTGTT 57.551 32.000 0.00 0.00 39.31 2.83
3636 4275 7.526608 TGAAATCTTCCTAACACGCTTATTTG 58.473 34.615 0.00 0.00 0.00 2.32
3674 4313 3.540617 TCTGCAGTGCTGTTTTCTGTAA 58.459 40.909 17.60 0.00 0.00 2.41
3676 4315 2.042686 TCTGCAGTGCTGTTTTCTGT 57.957 45.000 17.60 0.00 0.00 3.41
3677 4316 2.551032 TCATCTGCAGTGCTGTTTTCTG 59.449 45.455 17.60 9.91 0.00 3.02
3679 4318 3.057736 ACATCATCTGCAGTGCTGTTTTC 60.058 43.478 17.60 0.00 0.00 2.29
3701 4340 9.280174 CAACCAAGAACTTCAAAGGTATACTTA 57.720 33.333 2.25 0.00 38.85 2.24
3702 4341 7.255486 GCAACCAAGAACTTCAAAGGTATACTT 60.255 37.037 2.25 0.00 42.52 2.24
3703 4342 6.206829 GCAACCAAGAACTTCAAAGGTATACT 59.793 38.462 2.25 0.00 0.00 2.12
3704 4343 6.016610 TGCAACCAAGAACTTCAAAGGTATAC 60.017 38.462 0.00 0.00 0.00 1.47
3705 4344 6.065374 TGCAACCAAGAACTTCAAAGGTATA 58.935 36.000 0.00 0.00 0.00 1.47
3723 4362 6.442513 AAAATTACTGAGATAGCTGCAACC 57.557 37.500 1.02 0.00 0.00 3.77
3754 4393 4.039488 AGCTCTGGCAAATGAAATGTCAAA 59.961 37.500 0.00 0.00 41.70 2.69
3828 4467 5.240183 CCCATTATCATCAAGTGATCACCAC 59.760 44.000 22.21 0.00 44.23 4.16
3846 4485 1.205893 GCGCCCATTTTTGTCCCATTA 59.794 47.619 0.00 0.00 0.00 1.90
3864 4503 2.513204 CAGGGACCTGCATCTGCG 60.513 66.667 5.27 0.00 45.83 5.18
3894 4533 5.970640 AGGAATCTTAAGTGAGGATGGGTTA 59.029 40.000 1.63 0.00 0.00 2.85
3981 4681 3.735237 ACACATCGATGTATCCCTCAC 57.265 47.619 29.52 0.00 39.39 3.51
4036 4736 7.970061 ACATTTAAACATGTGCATACTGCTTAG 59.030 33.333 0.00 0.00 45.31 2.18
4039 4739 6.271488 ACATTTAAACATGTGCATACTGCT 57.729 33.333 0.00 0.00 45.31 4.24
4043 4743 7.594758 ACAGTCAACATTTAAACATGTGCATAC 59.405 33.333 0.00 0.00 37.46 2.39
4044 4744 7.656412 ACAGTCAACATTTAAACATGTGCATA 58.344 30.769 0.00 0.00 37.46 3.14
4045 4745 6.514947 ACAGTCAACATTTAAACATGTGCAT 58.485 32.000 0.00 0.00 37.46 3.96
4046 4746 5.900425 ACAGTCAACATTTAAACATGTGCA 58.100 33.333 0.00 0.00 37.46 4.57
4047 4747 5.115472 CGACAGTCAACATTTAAACATGTGC 59.885 40.000 0.00 0.00 37.46 4.57
4048 4748 6.426327 TCGACAGTCAACATTTAAACATGTG 58.574 36.000 0.00 0.00 37.46 3.21
4049 4749 6.612247 TCGACAGTCAACATTTAAACATGT 57.388 33.333 0.41 0.00 39.17 3.21
4050 4750 5.565259 GCTCGACAGTCAACATTTAAACATG 59.435 40.000 0.41 0.00 0.00 3.21
4051 4751 5.238432 TGCTCGACAGTCAACATTTAAACAT 59.762 36.000 0.41 0.00 0.00 2.71
4052 4752 4.572795 TGCTCGACAGTCAACATTTAAACA 59.427 37.500 0.41 0.00 0.00 2.83
4053 4753 5.090652 TGCTCGACAGTCAACATTTAAAC 57.909 39.130 0.41 0.00 0.00 2.01
4102 4802 5.130145 TCATTTCATCCCAACAACTTTTGGT 59.870 36.000 1.40 0.00 44.16 3.67
4132 4832 8.616076 TGTTTTCTCTGAGAGAACTGAAATTTC 58.384 33.333 29.69 11.41 46.54 2.17
4141 4841 8.038492 AGCATATTTGTTTTCTCTGAGAGAAC 57.962 34.615 23.49 25.80 46.54 3.01
4144 4844 8.394121 GGTTAGCATATTTGTTTTCTCTGAGAG 58.606 37.037 7.52 2.28 0.00 3.20
4174 4874 7.492020 CAGTCTCTTTTCTAACTCATCTCCATG 59.508 40.741 0.00 0.00 0.00 3.66
4276 5008 4.546674 TGCATCTGTAAGTCCATAGAGGA 58.453 43.478 0.00 0.00 46.75 3.71
4277 5009 4.944619 TGCATCTGTAAGTCCATAGAGG 57.055 45.455 0.00 0.00 39.47 3.69
4401 5136 8.378565 CCCTCATCATTTTAGCTAAAGGATAGA 58.621 37.037 23.79 21.25 43.34 1.98
4419 5154 0.986527 TCTTGCTTGCTCCCTCATCA 59.013 50.000 0.00 0.00 0.00 3.07
4426 5161 2.042831 ATGCGGTCTTGCTTGCTCC 61.043 57.895 0.00 0.00 35.36 4.70
4427 5162 1.136147 CATGCGGTCTTGCTTGCTC 59.864 57.895 0.00 0.00 33.95 4.26
4440 5175 7.460120 CGAAATTGCTTTACTTAGTTTCATGCG 60.460 37.037 0.00 0.00 0.00 4.73
4448 5183 6.935208 AGGAAGACGAAATTGCTTTACTTAGT 59.065 34.615 0.00 0.00 0.00 2.24
4486 5221 8.192110 TGGTTTGAAGACAATGTAAAAGGTTAC 58.808 33.333 0.00 0.00 40.15 2.50
4490 5225 6.568869 TGTGGTTTGAAGACAATGTAAAAGG 58.431 36.000 0.00 0.00 35.85 3.11
4516 5251 4.281688 AGTTTGCACAAAGTAATCATGGCT 59.718 37.500 1.62 0.00 32.58 4.75
4526 5261 4.941263 TGTTCTCAGTAGTTTGCACAAAGT 59.059 37.500 8.41 8.41 37.65 2.66
4527 5262 5.484173 TGTTCTCAGTAGTTTGCACAAAG 57.516 39.130 0.00 0.00 0.00 2.77
4528 5263 5.888691 TTGTTCTCAGTAGTTTGCACAAA 57.111 34.783 0.00 0.00 0.00 2.83
4531 5266 5.673337 TCATTGTTCTCAGTAGTTTGCAC 57.327 39.130 0.00 0.00 0.00 4.57
4542 5277 4.247258 GCCAATTGCAATCATTGTTCTCA 58.753 39.130 13.38 0.00 40.77 3.27
4579 5314 4.933400 ACAGCTTGAATTCATTTTGATGCC 59.067 37.500 9.40 0.00 0.00 4.40
4592 5327 1.355381 TGGACATCCCACAGCTTGAAT 59.645 47.619 0.00 0.00 40.82 2.57
4593 5328 0.770499 TGGACATCCCACAGCTTGAA 59.230 50.000 0.00 0.00 40.82 2.69
4599 5334 0.819582 GGCATTTGGACATCCCACAG 59.180 55.000 0.00 0.00 46.62 3.66
4601 5336 0.324645 AGGGCATTTGGACATCCCAC 60.325 55.000 0.00 0.00 46.62 4.61
4602 5337 0.413037 AAGGGCATTTGGACATCCCA 59.587 50.000 0.00 0.00 44.93 4.37
4616 5351 5.134202 ACTTGTTTTATGCACTTAAGGGC 57.866 39.130 23.17 23.17 0.00 5.19
4645 5380 4.762765 AGTTCTGTCACAGACGAGTAGAAT 59.237 41.667 7.12 0.00 40.46 2.40
4646 5381 4.135306 AGTTCTGTCACAGACGAGTAGAA 58.865 43.478 7.12 0.00 40.46 2.10


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

AutoCloner maintained by Alex Coulton.