Multiple sequence alignment - TraesCS2A01G292700

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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 TraesCS2A01G292700 chr2A 100.000 3641 0 0 1 3641 504078778 504075138 0.000000e+00 6724.0
1 TraesCS2A01G292700 chr2D 93.503 2401 122 24 391 2777 372702473 372700093 0.000000e+00 3539.0
2 TraesCS2A01G292700 chr2D 83.551 766 64 35 2849 3589 372698283 372697555 0.000000e+00 660.0
3 TraesCS2A01G292700 chr2B 93.669 1232 60 13 1610 2831 442311213 442309990 0.000000e+00 1827.0
4 TraesCS2A01G292700 chr2B 86.381 1608 109 51 49 1612 442312914 442311373 0.000000e+00 1655.0
5 TraesCS2A01G292700 chr2B 82.689 647 66 25 2962 3589 442309957 442309338 1.920000e-147 532.0
6 TraesCS2A01G292700 chr2B 90.278 72 3 3 1 70 442312939 442312870 1.390000e-14 91.6
7 TraesCS2A01G292700 chr3B 87.097 62 8 0 19 80 571791874 571791813 1.810000e-08 71.3
8 TraesCS2A01G292700 chr4D 95.000 40 2 0 41 80 386552109 386552148 3.040000e-06 63.9
9 TraesCS2A01G292700 chr1B 97.222 36 1 0 41 76 422983832 422983797 1.090000e-05 62.1


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 TraesCS2A01G292700 chr2A 504075138 504078778 3640 True 6724.0 6724 100.00000 1 3641 1 chr2A.!!$R1 3640
1 TraesCS2A01G292700 chr2D 372697555 372702473 4918 True 2099.5 3539 88.52700 391 3589 2 chr2D.!!$R1 3198
2 TraesCS2A01G292700 chr2B 442309338 442312939 3601 True 1026.4 1827 88.25425 1 3589 4 chr2B.!!$R1 3588

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
652 697 0.034337 ATCACGTTTAGCACACGGGT 59.966 50.0 4.74 0.0 41.96 5.28 F
1220 1273 0.250124 TGCTTACTTGGTCACCGTGG 60.250 55.0 0.00 0.0 0.00 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2319 2547 0.771127 AGAAAAGCAGCAGGGTGGTA 59.229 50.0 3.43 0.0 0.00 3.25 R
2715 2947 0.099791 AAACGGCAACACAGGTTTCG 59.900 50.0 0.00 0.0 37.22 3.46 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
40 41 1.002576 CACAACTGTGCTTCATGCGAA 60.003 47.619 0.00 0.00 46.63 4.70
41 42 1.675483 ACAACTGTGCTTCATGCGAAA 59.325 42.857 0.00 0.00 46.63 3.46
42 43 2.287188 ACAACTGTGCTTCATGCGAAAG 60.287 45.455 0.00 0.00 46.63 2.62
56 57 2.712057 CGAAAGCAAATCTGTGCCTT 57.288 45.000 0.00 0.00 46.14 4.35
57 58 2.589014 CGAAAGCAAATCTGTGCCTTC 58.411 47.619 0.00 0.00 46.14 3.46
58 59 2.030893 CGAAAGCAAATCTGTGCCTTCA 60.031 45.455 8.70 0.00 46.14 3.02
59 60 3.366679 CGAAAGCAAATCTGTGCCTTCAT 60.367 43.478 8.70 0.00 46.14 2.57
60 61 3.587797 AAGCAAATCTGTGCCTTCATG 57.412 42.857 0.00 0.00 46.14 3.07
61 62 2.799017 AGCAAATCTGTGCCTTCATGA 58.201 42.857 0.00 0.00 46.14 3.07
62 63 2.753452 AGCAAATCTGTGCCTTCATGAG 59.247 45.455 0.00 0.00 46.14 2.90
82 83 4.214437 GAGAAGCAAATCTGTGTTTCACG 58.786 43.478 4.89 0.00 40.17 4.35
86 87 3.002656 AGCAAATCTGTGTTTCACGTGAG 59.997 43.478 19.11 6.11 37.14 3.51
87 88 3.291585 CAAATCTGTGTTTCACGTGAGC 58.708 45.455 19.11 15.67 37.14 4.26
115 116 4.404654 GCAAACCCGCGCCTCTTG 62.405 66.667 0.00 2.16 0.00 3.02
122 123 2.174349 CGCGCCTCTTGTGAAAGC 59.826 61.111 0.00 0.00 0.00 3.51
125 126 1.589716 GCGCCTCTTGTGAAAGCCAT 61.590 55.000 0.00 0.00 0.00 4.40
126 127 0.883833 CGCCTCTTGTGAAAGCCATT 59.116 50.000 0.00 0.00 0.00 3.16
127 128 1.270550 CGCCTCTTGTGAAAGCCATTT 59.729 47.619 0.00 0.00 0.00 2.32
169 181 4.675510 CACAACTGTGCTTCTTGTGAAAT 58.324 39.130 4.11 0.00 45.06 2.17
172 184 6.919662 CACAACTGTGCTTCTTGTGAAATAAT 59.080 34.615 4.11 0.00 45.06 1.28
173 185 7.436080 CACAACTGTGCTTCTTGTGAAATAATT 59.564 33.333 4.11 0.00 45.06 1.40
174 186 7.981225 ACAACTGTGCTTCTTGTGAAATAATTT 59.019 29.630 0.00 0.00 0.00 1.82
175 187 8.819974 CAACTGTGCTTCTTGTGAAATAATTTT 58.180 29.630 0.00 0.00 0.00 1.82
176 188 8.947055 ACTGTGCTTCTTGTGAAATAATTTTT 57.053 26.923 0.00 0.00 0.00 1.94
216 228 2.977914 GAGGCACAACTATGCTTCTCA 58.022 47.619 2.91 0.00 45.58 3.27
222 234 4.242475 CACAACTATGCTTCTCACGGTAA 58.758 43.478 0.00 0.00 0.00 2.85
223 235 4.091509 CACAACTATGCTTCTCACGGTAAC 59.908 45.833 0.00 0.00 0.00 2.50
227 239 5.488341 ACTATGCTTCTCACGGTAACAAAT 58.512 37.500 0.00 0.00 0.00 2.32
233 245 5.121768 GCTTCTCACGGTAACAAATATGTGT 59.878 40.000 0.00 0.00 40.46 3.72
236 248 6.460781 TCTCACGGTAACAAATATGTGTCTT 58.539 36.000 0.00 0.00 40.46 3.01
262 274 9.710979 TCACAAGAAGTAAATTTGTACTTTTCG 57.289 29.630 7.59 3.19 42.94 3.46
263 275 9.498307 CACAAGAAGTAAATTTGTACTTTTCGT 57.502 29.630 7.59 3.67 42.94 3.85
264 276 9.498307 ACAAGAAGTAAATTTGTACTTTTCGTG 57.502 29.630 7.59 7.22 42.94 4.35
265 277 9.710979 CAAGAAGTAAATTTGTACTTTTCGTGA 57.289 29.630 7.59 0.00 42.94 4.35
341 367 8.528917 AAAATCCATCTAAAACCTAAAAACGC 57.471 30.769 0.00 0.00 0.00 4.84
373 403 7.544804 AAATAAACAAAATCCTGAGGAAGCT 57.455 32.000 4.76 0.00 34.34 3.74
386 416 1.523758 GGAAGCTTCCAACACACGAT 58.476 50.000 35.71 0.00 46.76 3.73
389 419 1.710013 AGCTTCCAACACACGATACG 58.290 50.000 0.00 0.00 0.00 3.06
406 436 2.181021 GTGACGGTAGCTGGACGG 59.819 66.667 0.00 0.00 0.00 4.79
416 446 1.374758 GCTGGACGGACCACTTGAG 60.375 63.158 0.00 0.00 44.64 3.02
417 447 1.293498 CTGGACGGACCACTTGAGG 59.707 63.158 0.00 0.00 44.64 3.86
468 499 3.793888 CTCCCCAAGCGGTACCCC 61.794 72.222 6.25 0.00 0.00 4.95
569 601 2.830370 GGAAGCCTGGCCCGAATG 60.830 66.667 16.57 0.00 0.00 2.67
599 631 1.892468 CTGCAAAATGAAGCTCGAGC 58.108 50.000 30.01 30.01 42.49 5.03
649 694 3.830801 CGATCACGTTTAGCACACG 57.169 52.632 0.00 1.24 43.52 4.49
650 695 0.365523 CGATCACGTTTAGCACACGG 59.634 55.000 7.19 0.00 42.14 4.94
651 696 0.719465 GATCACGTTTAGCACACGGG 59.281 55.000 7.19 3.13 42.69 5.28
652 697 0.034337 ATCACGTTTAGCACACGGGT 59.966 50.000 4.74 0.00 41.96 5.28
708 753 4.760204 ACGGTCCAAACAAGATAAGAAAGG 59.240 41.667 0.00 0.00 0.00 3.11
709 754 4.379499 CGGTCCAAACAAGATAAGAAAGGC 60.379 45.833 0.00 0.00 0.00 4.35
713 758 5.181245 TCCAAACAAGATAAGAAAGGCGAAG 59.819 40.000 0.00 0.00 0.00 3.79
746 791 4.039703 GGCGTAGAAACTTCCAAACAAAC 58.960 43.478 0.00 0.00 0.00 2.93
881 926 2.901192 TGGAACCCACAGATCTTACGAA 59.099 45.455 0.00 0.00 0.00 3.85
914 959 4.109050 CGAAGAACTCCAGTGCTTATCTC 58.891 47.826 0.00 0.00 43.73 2.75
946 991 3.560882 CCTGGCCTAATCCATCCAATCTC 60.561 52.174 3.32 0.00 35.22 2.75
969 1014 2.660064 TTCAGAAGGCGAGGAGGGC 61.660 63.158 0.00 0.00 0.00 5.19
1060 1105 2.224314 CCGCCACTTCTTTCTTCTTCAC 59.776 50.000 0.00 0.00 0.00 3.18
1170 1215 1.105759 GCCACCCAGATCTGCCATTC 61.106 60.000 17.76 2.27 0.00 2.67
1210 1255 1.862201 TGAAACGACGGTGCTTACTTG 59.138 47.619 0.00 0.00 0.00 3.16
1219 1272 0.865769 GTGCTTACTTGGTCACCGTG 59.134 55.000 0.00 0.00 0.00 4.94
1220 1273 0.250124 TGCTTACTTGGTCACCGTGG 60.250 55.000 0.00 0.00 0.00 4.94
1387 1447 9.112725 CAACATATCATGGTTCTTCACAATAGA 57.887 33.333 0.00 0.00 33.60 1.98
1557 1618 1.568118 GCACCCCCTTACCTGGCTTA 61.568 60.000 0.00 0.00 0.00 3.09
1566 1627 2.953466 TACCTGGCTTATGTCACGAC 57.047 50.000 0.00 0.00 0.00 4.34
1622 1845 9.877178 ATACCATGTGTTTTACAAGTTTTTGAA 57.123 25.926 0.00 0.00 43.77 2.69
1630 1853 9.160496 TGTTTTACAAGTTTTTGAAATGATGCT 57.840 25.926 0.00 0.00 37.73 3.79
1631 1854 9.986833 GTTTTACAAGTTTTTGAAATGATGCTT 57.013 25.926 0.00 0.00 37.73 3.91
1677 1900 7.820386 TGCGAAAGGTAAATCATTTAGTGACTA 59.180 33.333 0.00 0.00 40.28 2.59
1678 1901 8.328864 GCGAAAGGTAAATCATTTAGTGACTAG 58.671 37.037 0.00 0.00 40.28 2.57
1679 1902 9.367444 CGAAAGGTAAATCATTTAGTGACTAGT 57.633 33.333 0.00 0.00 40.28 2.57
1769 1994 2.991190 CTGAAATTGACTGTTGGCATGC 59.009 45.455 9.90 9.90 0.00 4.06
1836 2061 4.825445 AGATAGATGTTCTGGATGTCCCT 58.175 43.478 0.00 0.00 35.38 4.20
1967 2194 2.807967 TGCTGTGAGTGTAGAAACATGC 59.192 45.455 0.00 0.00 38.08 4.06
2204 2432 7.620394 GCACTTACGTTTGTTTTGTTTTCACAT 60.620 33.333 0.00 0.00 31.06 3.21
2211 2439 9.828220 CGTTTGTTTTGTTTTCACATAAGTATG 57.172 29.630 0.00 0.00 39.55 2.39
2319 2547 0.764890 TAGTCCTGCTTGTGGTTGCT 59.235 50.000 0.00 0.00 0.00 3.91
2484 2712 4.615949 AGTGAAGAGATCCATCGATTTCG 58.384 43.478 0.00 0.00 35.31 3.46
2486 2714 2.057503 AGAGATCCATCGATTTCGCG 57.942 50.000 0.00 0.00 35.31 5.87
2560 2790 2.358003 GAGCTGCGGTGTTGAGCT 60.358 61.111 0.00 0.00 45.82 4.09
2576 2806 7.386848 GGTGTTGAGCTACTGTTTATGTAGAAA 59.613 37.037 5.25 0.00 39.61 2.52
2641 2871 8.788325 ATTTAAGCGAACTGATAAACCTTAGT 57.212 30.769 0.00 0.00 0.00 2.24
2644 2874 5.411781 AGCGAACTGATAAACCTTAGTCTG 58.588 41.667 0.00 0.00 0.00 3.51
2663 2894 1.074405 TGAATTGAGCTGCTCCTGGTT 59.926 47.619 25.61 14.69 0.00 3.67
2673 2905 6.062258 AGCTGCTCCTGGTTATAGTTTTTA 57.938 37.500 0.00 0.00 0.00 1.52
2674 2906 6.663734 AGCTGCTCCTGGTTATAGTTTTTAT 58.336 36.000 0.00 0.00 0.00 1.40
2675 2907 7.802117 AGCTGCTCCTGGTTATAGTTTTTATA 58.198 34.615 0.00 0.00 0.00 0.98
2727 2959 2.874849 CAAACTTGCGAAACCTGTGTT 58.125 42.857 0.00 0.00 35.82 3.32
2769 3001 1.552337 TGTGTTGCATTGTGGTTTGGT 59.448 42.857 0.00 0.00 0.00 3.67
2777 3009 1.948104 TTGTGGTTTGGTGTCTCTCG 58.052 50.000 0.00 0.00 0.00 4.04
2779 3011 0.602905 GTGGTTTGGTGTCTCTCGGG 60.603 60.000 0.00 0.00 0.00 5.14
2780 3012 1.052124 TGGTTTGGTGTCTCTCGGGT 61.052 55.000 0.00 0.00 0.00 5.28
2781 3013 0.108019 GGTTTGGTGTCTCTCGGGTT 59.892 55.000 0.00 0.00 0.00 4.11
2822 3054 5.927281 ATTTCATGCTGCCAAAGATACTT 57.073 34.783 0.00 0.00 0.00 2.24
2826 3058 4.577693 TCATGCTGCCAAAGATACTTCATC 59.422 41.667 0.00 0.00 0.00 2.92
2828 3060 3.943381 TGCTGCCAAAGATACTTCATCAG 59.057 43.478 0.00 0.00 35.96 2.90
2829 3061 3.944015 GCTGCCAAAGATACTTCATCAGT 59.056 43.478 0.00 0.00 39.87 3.41
2831 3063 5.426504 CTGCCAAAGATACTTCATCAGTCT 58.573 41.667 0.00 0.00 36.88 3.24
2832 3064 5.181009 TGCCAAAGATACTTCATCAGTCTG 58.819 41.667 0.00 0.00 36.88 3.51
2835 3067 5.181009 CAAAGATACTTCATCAGTCTGCCA 58.819 41.667 0.00 0.00 36.88 4.92
2837 3069 5.426689 AGATACTTCATCAGTCTGCCAAA 57.573 39.130 0.00 0.00 36.88 3.28
2839 3071 6.421485 AGATACTTCATCAGTCTGCCAAATT 58.579 36.000 0.00 0.00 36.88 1.82
2842 3074 6.899393 ACTTCATCAGTCTGCCAAATTAAA 57.101 33.333 0.00 0.00 0.00 1.52
2844 3076 7.899973 ACTTCATCAGTCTGCCAAATTAAAAT 58.100 30.769 0.00 0.00 0.00 1.82
2847 3079 8.579850 TCATCAGTCTGCCAAATTAAAATAGT 57.420 30.769 0.00 0.00 0.00 2.12
2882 4852 4.613925 TTATGGCCTGTGCAAAATTGAA 57.386 36.364 3.32 0.00 40.13 2.69
2883 4853 3.706600 ATGGCCTGTGCAAAATTGAAT 57.293 38.095 3.32 0.00 40.13 2.57
2899 4870 9.656040 CAAAATTGAATGTCCTGGATTATTTGA 57.344 29.630 0.00 0.00 0.00 2.69
2930 4901 0.104120 GGCTTCGGGTTTTGCTTTGT 59.896 50.000 0.00 0.00 0.00 2.83
2940 4911 5.660460 GGGTTTTGCTTTGTTATATGGGAG 58.340 41.667 0.00 0.00 0.00 4.30
2958 4933 5.994250 TGGGAGATGAAGAGGTATTTCTTG 58.006 41.667 0.00 0.00 37.53 3.02
2984 4959 3.513515 TGAATGCAAAACAGGTAATCCCC 59.486 43.478 0.00 0.00 0.00 4.81
2986 4961 3.252554 TGCAAAACAGGTAATCCCCTT 57.747 42.857 0.00 0.00 30.33 3.95
2990 4965 4.709886 GCAAAACAGGTAATCCCCTTGTAT 59.290 41.667 0.00 0.00 30.33 2.29
2991 4966 5.394115 GCAAAACAGGTAATCCCCTTGTATG 60.394 44.000 0.00 0.00 30.33 2.39
2998 4973 2.598288 ATCCCCTTGTATGTACCCCA 57.402 50.000 0.00 0.00 0.00 4.96
3012 4987 1.186267 ACCCCACGAGTCCTCTCAAC 61.186 60.000 0.00 0.00 40.44 3.18
3013 4988 1.592223 CCCACGAGTCCTCTCAACC 59.408 63.158 0.00 0.00 40.44 3.77
3022 4997 4.439426 CGAGTCCTCTCAACCTATGAAGTG 60.439 50.000 0.00 0.00 40.44 3.16
3031 5006 8.250143 TCTCAACCTATGAAGTGCTCATAATA 57.750 34.615 0.00 0.00 44.66 0.98
3040 5015 5.580691 TGAAGTGCTCATAATACAAACTCCG 59.419 40.000 0.00 0.00 0.00 4.63
3043 5018 5.351465 AGTGCTCATAATACAAACTCCGTTG 59.649 40.000 0.00 0.00 34.52 4.10
3044 5019 5.121768 GTGCTCATAATACAAACTCCGTTGT 59.878 40.000 0.00 0.00 43.95 3.32
3045 5020 5.121611 TGCTCATAATACAAACTCCGTTGTG 59.878 40.000 0.92 0.00 41.75 3.33
3046 5021 5.539582 TCATAATACAAACTCCGTTGTGC 57.460 39.130 0.92 0.00 41.75 4.57
3057 5032 2.255252 GTTGTGCGCGCCTCAAAT 59.745 55.556 29.88 0.00 0.00 2.32
3090 5065 2.349155 GCTTTACAAACTGTTCGGTCCG 60.349 50.000 4.39 4.39 0.00 4.79
3099 5074 3.936203 TTCGGTCCGCACAGCCTT 61.936 61.111 6.34 0.00 0.00 4.35
3106 5081 0.749818 TCCGCACAGCCTTGTTTTGA 60.750 50.000 0.00 0.00 34.62 2.69
3111 5086 2.653890 CACAGCCTTGTTTTGATGACG 58.346 47.619 0.00 0.00 34.62 4.35
3115 5090 3.189080 CAGCCTTGTTTTGATGACGATCA 59.811 43.478 0.00 0.00 36.78 2.92
3116 5091 4.012374 AGCCTTGTTTTGATGACGATCAT 58.988 39.130 0.00 0.00 40.34 2.45
3117 5092 5.065090 CAGCCTTGTTTTGATGACGATCATA 59.935 40.000 0.00 0.00 37.20 2.15
3129 5104 9.762933 TTGATGACGATCATAATGTTTCTATGA 57.237 29.630 0.00 0.00 37.20 2.15
3161 5136 3.067833 GTCTTTGCTGAAGTGGACCTAC 58.932 50.000 0.00 0.00 36.70 3.18
3313 5296 4.322801 CGTAGATCAGGTCTCCTTTGGTTT 60.323 45.833 0.00 0.00 38.42 3.27
3314 5297 4.731313 AGATCAGGTCTCCTTTGGTTTT 57.269 40.909 0.00 0.00 28.45 2.43
3315 5298 4.401925 AGATCAGGTCTCCTTTGGTTTTG 58.598 43.478 0.00 0.00 28.45 2.44
3316 5299 3.662759 TCAGGTCTCCTTTGGTTTTGT 57.337 42.857 0.00 0.00 0.00 2.83
3317 5300 3.976015 TCAGGTCTCCTTTGGTTTTGTT 58.024 40.909 0.00 0.00 0.00 2.83
3345 5328 8.317679 AGAGGAATTTCATAGGAATTCTATCGG 58.682 37.037 5.23 0.00 36.59 4.18
3346 5329 8.207350 AGGAATTTCATAGGAATTCTATCGGA 57.793 34.615 5.23 0.00 36.59 4.55
3347 5330 8.830741 AGGAATTTCATAGGAATTCTATCGGAT 58.169 33.333 5.23 0.00 36.59 4.18
3354 5343 9.494055 TCATAGGAATTCTATCGGATAGGATTT 57.506 33.333 25.31 16.43 40.37 2.17
3395 5386 8.023706 CCTTAGAGCTTTTTGGTTCATAGAAAC 58.976 37.037 0.00 0.00 0.00 2.78
3399 5390 5.300792 AGCTTTTTGGTTCATAGAAACGGAA 59.699 36.000 0.00 0.00 0.00 4.30
3407 5398 7.343357 TGGTTCATAGAAACGGAATCCTATTT 58.657 34.615 0.00 0.00 0.00 1.40
3412 5403 9.144298 TCATAGAAACGGAATCCTATTTCTACT 57.856 33.333 25.14 16.72 39.43 2.57
3443 5435 7.418408 GGATCGGTTTCTATCCTTCAAATTTC 58.582 38.462 0.00 0.00 38.92 2.17
3448 5440 8.082242 CGGTTTCTATCCTTCAAATTTCAAAGT 58.918 33.333 8.36 0.00 0.00 2.66
3502 5494 6.223120 ACAAAAATTCCTACCAAATGTCAGC 58.777 36.000 0.00 0.00 0.00 4.26
3512 5504 4.847198 ACCAAATGTCAGCTGATACATGA 58.153 39.130 21.47 0.39 36.47 3.07
3529 5521 7.817478 TGATACATGAAAATGGTACTATAGGCG 59.183 37.037 0.00 0.00 0.00 5.52
3558 5550 7.230108 CAGGATTTATCATGCTCATGGTTAACT 59.770 37.037 5.42 3.97 39.24 2.24
3559 5551 8.439971 AGGATTTATCATGCTCATGGTTAACTA 58.560 33.333 5.42 0.00 39.24 2.24
3561 5553 8.978874 ATTTATCATGCTCATGGTTAACTACA 57.021 30.769 5.42 0.00 39.24 2.74
3565 5559 7.967890 TCATGCTCATGGTTAACTACATATG 57.032 36.000 5.42 0.00 39.24 1.78
3579 5573 6.090483 ACTACATATGCATACACCAGAGAC 57.910 41.667 8.99 0.00 0.00 3.36
3581 5575 5.557576 ACATATGCATACACCAGAGACAT 57.442 39.130 8.99 0.00 0.00 3.06
3592 5586 4.823276 GAGACATCTCGCACCCTG 57.177 61.111 0.00 0.00 32.78 4.45
3593 5587 1.142748 GAGACATCTCGCACCCTGG 59.857 63.158 0.00 0.00 32.78 4.45
3594 5588 2.512515 GACATCTCGCACCCTGGC 60.513 66.667 0.00 0.00 0.00 4.85
3595 5589 3.005539 ACATCTCGCACCCTGGCT 61.006 61.111 0.00 0.00 0.00 4.75
3596 5590 2.270205 CATCTCGCACCCTGGCTT 59.730 61.111 0.00 0.00 0.00 4.35
3597 5591 1.817099 CATCTCGCACCCTGGCTTC 60.817 63.158 0.00 0.00 0.00 3.86
3598 5592 2.293318 ATCTCGCACCCTGGCTTCA 61.293 57.895 0.00 0.00 0.00 3.02
3599 5593 1.630126 ATCTCGCACCCTGGCTTCAT 61.630 55.000 0.00 0.00 0.00 2.57
3600 5594 1.377725 CTCGCACCCTGGCTTCATT 60.378 57.895 0.00 0.00 0.00 2.57
3601 5595 0.962356 CTCGCACCCTGGCTTCATTT 60.962 55.000 0.00 0.00 0.00 2.32
3602 5596 1.213537 CGCACCCTGGCTTCATTTG 59.786 57.895 0.00 0.00 0.00 2.32
3603 5597 1.593265 GCACCCTGGCTTCATTTGG 59.407 57.895 0.00 0.00 0.00 3.28
3604 5598 0.899717 GCACCCTGGCTTCATTTGGA 60.900 55.000 0.00 0.00 0.00 3.53
3605 5599 1.180029 CACCCTGGCTTCATTTGGAG 58.820 55.000 0.00 0.00 0.00 3.86
3606 5600 1.075601 ACCCTGGCTTCATTTGGAGA 58.924 50.000 0.00 0.00 0.00 3.71
3607 5601 1.642762 ACCCTGGCTTCATTTGGAGAT 59.357 47.619 0.00 0.00 0.00 2.75
3608 5602 2.029623 CCCTGGCTTCATTTGGAGATG 58.970 52.381 0.00 0.00 0.00 2.90
3609 5603 1.407979 CCTGGCTTCATTTGGAGATGC 59.592 52.381 0.00 0.00 35.96 3.91
3610 5604 1.065102 CTGGCTTCATTTGGAGATGCG 59.935 52.381 0.00 0.00 37.12 4.73
3611 5605 1.339920 TGGCTTCATTTGGAGATGCGA 60.340 47.619 0.00 0.00 37.12 5.10
3612 5606 1.064654 GGCTTCATTTGGAGATGCGAC 59.935 52.381 0.00 0.00 37.12 5.19
3613 5607 1.064654 GCTTCATTTGGAGATGCGACC 59.935 52.381 0.00 0.00 0.00 4.79
3614 5608 1.328680 CTTCATTTGGAGATGCGACCG 59.671 52.381 0.00 0.00 0.00 4.79
3615 5609 0.461870 TCATTTGGAGATGCGACCGG 60.462 55.000 0.00 0.00 0.00 5.28
3616 5610 0.744414 CATTTGGAGATGCGACCGGT 60.744 55.000 6.92 6.92 0.00 5.28
3617 5611 0.462047 ATTTGGAGATGCGACCGGTC 60.462 55.000 25.28 25.28 0.00 4.79
3618 5612 1.541310 TTTGGAGATGCGACCGGTCT 61.541 55.000 30.92 14.03 0.00 3.85
3619 5613 1.541310 TTGGAGATGCGACCGGTCTT 61.541 55.000 30.92 16.34 0.00 3.01
3620 5614 0.681887 TGGAGATGCGACCGGTCTTA 60.682 55.000 30.92 20.00 0.00 2.10
3621 5615 0.674534 GGAGATGCGACCGGTCTTAT 59.325 55.000 30.92 23.53 0.00 1.73
3622 5616 1.336056 GGAGATGCGACCGGTCTTATC 60.336 57.143 30.92 28.82 0.00 1.75
3623 5617 1.337071 GAGATGCGACCGGTCTTATCA 59.663 52.381 31.98 24.31 0.00 2.15
3624 5618 1.754803 AGATGCGACCGGTCTTATCAA 59.245 47.619 31.98 16.12 0.00 2.57
3625 5619 1.859080 GATGCGACCGGTCTTATCAAC 59.141 52.381 30.92 17.28 0.00 3.18
3626 5620 0.604073 TGCGACCGGTCTTATCAACA 59.396 50.000 30.92 14.54 0.00 3.33
3627 5621 1.001068 TGCGACCGGTCTTATCAACAA 59.999 47.619 30.92 4.23 0.00 2.83
3628 5622 1.392510 GCGACCGGTCTTATCAACAAC 59.607 52.381 30.92 2.05 0.00 3.32
3629 5623 2.929592 GCGACCGGTCTTATCAACAACT 60.930 50.000 30.92 0.00 0.00 3.16
3630 5624 2.666508 CGACCGGTCTTATCAACAACTG 59.333 50.000 30.92 7.91 0.00 3.16
3631 5625 3.660865 GACCGGTCTTATCAACAACTGT 58.339 45.455 27.64 0.00 0.00 3.55
3632 5626 3.399330 ACCGGTCTTATCAACAACTGTG 58.601 45.455 0.00 0.00 0.00 3.66
3633 5627 2.159627 CCGGTCTTATCAACAACTGTGC 59.840 50.000 0.00 0.00 0.00 4.57
3634 5628 3.067106 CGGTCTTATCAACAACTGTGCT 58.933 45.455 0.00 0.00 0.00 4.40
3635 5629 4.242475 CGGTCTTATCAACAACTGTGCTA 58.758 43.478 0.00 0.00 0.00 3.49
3636 5630 4.688879 CGGTCTTATCAACAACTGTGCTAA 59.311 41.667 0.00 0.00 0.00 3.09
3637 5631 5.178623 CGGTCTTATCAACAACTGTGCTAAA 59.821 40.000 0.00 0.00 0.00 1.85
3638 5632 6.293190 CGGTCTTATCAACAACTGTGCTAAAA 60.293 38.462 0.00 0.00 0.00 1.52
3639 5633 7.078228 GGTCTTATCAACAACTGTGCTAAAAG 58.922 38.462 0.00 0.00 0.00 2.27
3640 5634 7.255139 GGTCTTATCAACAACTGTGCTAAAAGT 60.255 37.037 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 3.159472 TCATGAAGGCACAGATTTGCTT 58.841 40.909 0.00 0.00 42.56 3.91
41 42 2.753452 CTCATGAAGGCACAGATTTGCT 59.247 45.455 0.00 0.00 42.56 3.91
42 43 2.751259 TCTCATGAAGGCACAGATTTGC 59.249 45.455 0.00 0.00 42.18 3.68
43 44 4.982999 CTTCTCATGAAGGCACAGATTTG 58.017 43.478 0.00 0.00 44.33 2.32
55 56 6.039605 TGAAACACAGATTTGCTTCTCATGAA 59.960 34.615 0.00 0.00 0.00 2.57
56 57 5.532032 TGAAACACAGATTTGCTTCTCATGA 59.468 36.000 0.00 0.00 0.00 3.07
57 58 5.628193 GTGAAACACAGATTTGCTTCTCATG 59.372 40.000 0.00 0.00 36.32 3.07
58 59 5.561532 CGTGAAACACAGATTTGCTTCTCAT 60.562 40.000 0.00 0.00 35.74 2.90
59 60 4.260743 CGTGAAACACAGATTTGCTTCTCA 60.261 41.667 0.00 0.00 35.74 3.27
60 61 4.214437 CGTGAAACACAGATTTGCTTCTC 58.786 43.478 0.00 0.00 35.74 2.87
61 62 3.627577 ACGTGAAACACAGATTTGCTTCT 59.372 39.130 0.00 0.00 35.74 2.85
62 63 3.725740 CACGTGAAACACAGATTTGCTTC 59.274 43.478 10.90 0.00 35.74 3.86
103 104 2.668212 TTTCACAAGAGGCGCGGG 60.668 61.111 8.83 0.00 0.00 6.13
106 107 1.589716 ATGGCTTTCACAAGAGGCGC 61.590 55.000 0.00 0.00 40.97 6.53
133 145 1.412710 AGTTGTGCCTCTCGTGAAAGA 59.587 47.619 0.00 0.00 0.00 2.52
138 150 2.229039 CACAGTTGTGCCTCTCGTG 58.771 57.895 0.00 0.00 39.39 4.35
139 151 4.758692 CACAGTTGTGCCTCTCGT 57.241 55.556 0.00 0.00 39.39 4.18
183 195 6.538945 AGTTGTGCCTCTTAAAAGGAAAAA 57.461 33.333 0.00 0.00 38.87 1.94
184 196 7.657336 CATAGTTGTGCCTCTTAAAAGGAAAA 58.343 34.615 0.00 0.00 38.87 2.29
185 197 6.294508 GCATAGTTGTGCCTCTTAAAAGGAAA 60.295 38.462 0.00 0.00 38.87 3.13
186 198 5.183140 GCATAGTTGTGCCTCTTAAAAGGAA 59.817 40.000 0.00 0.00 38.87 3.36
187 199 4.700213 GCATAGTTGTGCCTCTTAAAAGGA 59.300 41.667 0.00 0.00 38.87 3.36
188 200 4.702131 AGCATAGTTGTGCCTCTTAAAAGG 59.298 41.667 0.00 0.00 46.19 3.11
189 201 5.886960 AGCATAGTTGTGCCTCTTAAAAG 57.113 39.130 0.00 0.00 46.19 2.27
190 202 6.003950 AGAAGCATAGTTGTGCCTCTTAAAA 58.996 36.000 0.00 0.00 41.80 1.52
191 203 5.560724 AGAAGCATAGTTGTGCCTCTTAAA 58.439 37.500 0.00 0.00 41.80 1.52
192 204 5.165961 AGAAGCATAGTTGTGCCTCTTAA 57.834 39.130 0.00 0.00 41.80 1.85
193 205 4.222810 TGAGAAGCATAGTTGTGCCTCTTA 59.777 41.667 3.91 0.00 43.87 2.10
199 211 1.394917 CCGTGAGAAGCATAGTTGTGC 59.605 52.381 0.00 0.00 45.38 4.57
216 228 6.476243 GTGAAGACACATATTTGTTACCGT 57.524 37.500 0.00 0.00 45.32 4.83
236 248 9.710979 CGAAAAGTACAAATTTACTTCTTGTGA 57.289 29.630 6.78 0.00 40.69 3.58
320 346 4.996122 TCGCGTTTTTAGGTTTTAGATGGA 59.004 37.500 5.77 0.00 0.00 3.41
339 365 9.459276 CAGGATTTTGTTTATTTATTTTTCGCG 57.541 29.630 0.00 0.00 0.00 5.87
368 398 2.092211 CGTATCGTGTGTTGGAAGCTTC 59.908 50.000 18.54 18.54 0.00 3.86
369 399 2.066262 CGTATCGTGTGTTGGAAGCTT 58.934 47.619 0.00 0.00 0.00 3.74
382 412 0.376152 CAGCTACCGTCACGTATCGT 59.624 55.000 0.00 0.00 42.36 3.73
386 416 1.638388 CGTCCAGCTACCGTCACGTA 61.638 60.000 0.00 0.00 0.00 3.57
389 419 2.181021 CCGTCCAGCTACCGTCAC 59.819 66.667 0.00 0.00 0.00 3.67
406 436 3.523806 GAGAGTGCCTCAAGTGGTC 57.476 57.895 5.21 0.00 41.58 4.02
416 446 1.876156 CTTTGGTGAGTTGAGAGTGCC 59.124 52.381 0.00 0.00 0.00 5.01
417 447 2.289002 CACTTTGGTGAGTTGAGAGTGC 59.711 50.000 0.00 0.00 45.61 4.40
526 558 3.923461 TGTCCGCAAAACAAAAACTTCAG 59.077 39.130 0.00 0.00 0.00 3.02
537 569 0.316689 CTTCCACGTGTCCGCAAAAC 60.317 55.000 15.65 0.00 37.70 2.43
576 608 0.457337 GAGCTTCATTTTGCAGCCCG 60.457 55.000 0.00 0.00 37.34 6.13
637 682 1.595929 ACCACCCGTGTGCTAAACG 60.596 57.895 0.00 0.29 41.35 3.60
647 692 2.043852 TTTGTTGCCACCACCCGT 60.044 55.556 0.00 0.00 0.00 5.28
648 693 1.671901 AAGTTTGTTGCCACCACCCG 61.672 55.000 0.00 0.00 0.00 5.28
649 694 1.404843 TAAGTTTGTTGCCACCACCC 58.595 50.000 0.00 0.00 0.00 4.61
650 695 2.166664 TGTTAAGTTTGTTGCCACCACC 59.833 45.455 0.00 0.00 0.00 4.61
651 696 3.443976 CTGTTAAGTTTGTTGCCACCAC 58.556 45.455 0.00 0.00 0.00 4.16
652 697 2.159170 GCTGTTAAGTTTGTTGCCACCA 60.159 45.455 0.00 0.00 0.00 4.17
666 711 4.336993 ACCGTGACAAAATTCTGCTGTTAA 59.663 37.500 0.00 0.00 0.00 2.01
708 753 1.797537 GCCACGTCAATTGCTTCGC 60.798 57.895 0.00 0.00 0.00 4.70
709 754 1.509787 CGCCACGTCAATTGCTTCG 60.510 57.895 0.00 8.10 0.00 3.79
713 758 0.793861 TTCTACGCCACGTCAATTGC 59.206 50.000 0.00 0.00 41.54 3.56
746 791 1.448893 CGTGGGTCGTATGGGTTGG 60.449 63.158 0.00 0.00 34.52 3.77
803 848 0.319083 TTCTGCGGCCTTCTTACGAA 59.681 50.000 0.00 0.00 0.00 3.85
881 926 2.104170 GAGTTCTTCGAGGAGGATGGT 58.896 52.381 0.00 0.00 0.00 3.55
946 991 1.153745 CCTCGCCTTCTGAACCGAG 60.154 63.158 20.30 20.30 44.81 4.63
1060 1105 1.195448 AGCGATCTTGAAACAACGCAG 59.805 47.619 15.86 0.00 46.65 5.18
1098 1143 7.560368 TCATCTCGCTCTCTCACATCTATATA 58.440 38.462 0.00 0.00 0.00 0.86
1099 1144 6.413892 TCATCTCGCTCTCTCACATCTATAT 58.586 40.000 0.00 0.00 0.00 0.86
1195 1240 0.319211 TGACCAAGTAAGCACCGTCG 60.319 55.000 0.00 0.00 0.00 5.12
1512 1573 7.693951 CGCCACAAATTAAACAATGAAAACAAA 59.306 29.630 0.00 0.00 0.00 2.83
1521 1582 3.063485 GGTGCGCCACAAATTAAACAAT 58.937 40.909 12.58 0.00 35.86 2.71
1557 1618 2.509166 TCCTCAGGTAGTCGTGACAT 57.491 50.000 2.44 0.00 35.16 3.06
1566 1627 8.407064 CAGTTACACTAAACTATCCTCAGGTAG 58.593 40.741 0.00 0.00 37.61 3.18
1627 1850 6.371548 CAGGCAGATAAGTGTAAAACTAAGCA 59.628 38.462 0.00 0.00 38.56 3.91
1630 1853 5.350365 CGCAGGCAGATAAGTGTAAAACTAA 59.650 40.000 0.00 0.00 38.56 2.24
1631 1854 4.868171 CGCAGGCAGATAAGTGTAAAACTA 59.132 41.667 0.00 0.00 38.56 2.24
1677 1900 7.011950 TGTCGAATTAATCACAGAACAACAACT 59.988 33.333 0.00 0.00 0.00 3.16
1678 1901 7.129622 TGTCGAATTAATCACAGAACAACAAC 58.870 34.615 0.00 0.00 0.00 3.32
1679 1902 7.252965 TGTCGAATTAATCACAGAACAACAA 57.747 32.000 0.00 0.00 0.00 2.83
1680 1903 6.852858 TGTCGAATTAATCACAGAACAACA 57.147 33.333 0.00 0.00 0.00 3.33
1681 1904 6.961554 GGATGTCGAATTAATCACAGAACAAC 59.038 38.462 0.00 0.00 0.00 3.32
1740 1965 5.149273 CAACAGTCAATTTCAGTGGATTCG 58.851 41.667 0.00 0.00 0.00 3.34
1769 1994 9.719279 ACATTCATTTAAAACAACAAAGCAATG 57.281 25.926 0.00 0.00 0.00 2.82
2084 2312 6.425210 TCAGATTATCAATGATCGTTCCCT 57.575 37.500 0.00 0.00 0.00 4.20
2095 2323 5.530171 AGTTTCGCATGCTCAGATTATCAAT 59.470 36.000 17.13 0.00 0.00 2.57
2158 2386 3.817084 TGCATAGAGCTTGCATGGATAAC 59.183 43.478 7.47 0.00 44.73 1.89
2160 2388 3.775261 TGCATAGAGCTTGCATGGATA 57.225 42.857 7.47 0.00 44.73 2.59
2182 2410 9.408069 ACTTATGTGAAAACAAAACAAACGTAA 57.592 25.926 0.00 0.00 0.00 3.18
2319 2547 0.771127 AGAAAAGCAGCAGGGTGGTA 59.229 50.000 3.43 0.00 0.00 3.25
2484 2712 1.456732 GCATAAAGCAATCGACACGC 58.543 50.000 0.00 0.00 44.79 5.34
2560 2790 9.268268 CAAGACAAGGTTTCTACATAAACAGTA 57.732 33.333 0.00 0.00 40.42 2.74
2576 2806 3.306088 CGATGTACCACTCAAGACAAGGT 60.306 47.826 0.00 0.00 36.40 3.50
2641 2871 1.065636 CCAGGAGCAGCTCAATTCAGA 60.066 52.381 24.09 0.00 31.08 3.27
2644 2874 1.831580 AACCAGGAGCAGCTCAATTC 58.168 50.000 24.09 6.52 31.08 2.17
2673 2905 8.601546 TGATCCCCAGCAAAGTTTTAAATTTAT 58.398 29.630 0.00 0.00 0.00 1.40
2674 2906 7.967908 TGATCCCCAGCAAAGTTTTAAATTTA 58.032 30.769 0.00 0.00 0.00 1.40
2675 2907 6.836242 TGATCCCCAGCAAAGTTTTAAATTT 58.164 32.000 0.00 0.00 0.00 1.82
2715 2947 0.099791 AAACGGCAACACAGGTTTCG 59.900 50.000 0.00 0.00 37.22 3.46
2789 3021 5.589452 TGGCAGCATGAAATTTTGAAAACTT 59.411 32.000 0.00 0.00 39.69 2.66
2792 3024 6.318144 TCTTTGGCAGCATGAAATTTTGAAAA 59.682 30.769 0.00 0.00 39.69 2.29
2793 3025 5.821470 TCTTTGGCAGCATGAAATTTTGAAA 59.179 32.000 0.00 0.00 39.69 2.69
2794 3026 5.366460 TCTTTGGCAGCATGAAATTTTGAA 58.634 33.333 0.00 0.00 39.69 2.69
2800 3032 5.419788 TGAAGTATCTTTGGCAGCATGAAAT 59.580 36.000 0.00 0.00 39.69 2.17
2822 3054 8.579850 ACTATTTTAATTTGGCAGACTGATGA 57.420 30.769 6.65 0.00 0.00 2.92
2842 3074 8.850156 GGCCATAAAAGTGATCAACATACTATT 58.150 33.333 0.00 0.00 0.00 1.73
2844 3076 7.498900 CAGGCCATAAAAGTGATCAACATACTA 59.501 37.037 5.01 0.00 0.00 1.82
2847 3079 6.095300 CACAGGCCATAAAAGTGATCAACATA 59.905 38.462 5.01 0.00 32.14 2.29
2882 4852 6.600822 CAGACAAGTCAAATAATCCAGGACAT 59.399 38.462 2.72 0.00 0.00 3.06
2883 4853 5.939883 CAGACAAGTCAAATAATCCAGGACA 59.060 40.000 2.72 0.00 0.00 4.02
2916 4887 4.158764 TCCCATATAACAAAGCAAAACCCG 59.841 41.667 0.00 0.00 0.00 5.28
2930 4901 9.621239 AGAAATACCTCTTCATCTCCCATATAA 57.379 33.333 0.00 0.00 0.00 0.98
2940 4911 7.672983 TCAACACAAGAAATACCTCTTCATC 57.327 36.000 0.00 0.00 33.25 2.92
2958 4933 5.405269 GGATTACCTGTTTTGCATTCAACAC 59.595 40.000 3.20 0.00 34.39 3.32
2984 4959 2.159142 GGACTCGTGGGGTACATACAAG 60.159 54.545 0.00 0.00 0.00 3.16
2986 4961 1.006281 AGGACTCGTGGGGTACATACA 59.994 52.381 0.00 0.00 0.00 2.29
2990 4965 0.323178 GAGAGGACTCGTGGGGTACA 60.323 60.000 0.00 0.00 33.32 2.90
2991 4966 0.323178 TGAGAGGACTCGTGGGGTAC 60.323 60.000 0.00 0.00 45.25 3.34
2998 4973 3.367646 TCATAGGTTGAGAGGACTCGT 57.632 47.619 0.00 0.00 45.25 4.18
3012 4987 8.668510 AGTTTGTATTATGAGCACTTCATAGG 57.331 34.615 0.00 0.00 46.59 2.57
3013 4988 8.768955 GGAGTTTGTATTATGAGCACTTCATAG 58.231 37.037 0.00 0.00 46.59 2.23
3040 5015 1.337110 GAATTTGAGGCGCGCACAAC 61.337 55.000 34.42 20.17 0.00 3.32
3043 5018 2.507322 TTCGAATTTGAGGCGCGCAC 62.507 55.000 34.42 25.26 0.00 5.34
3044 5019 2.239341 CTTCGAATTTGAGGCGCGCA 62.239 55.000 34.42 12.78 0.00 6.09
3045 5020 1.581147 CTTCGAATTTGAGGCGCGC 60.581 57.895 25.94 25.94 0.00 6.86
3046 5021 1.581147 GCTTCGAATTTGAGGCGCG 60.581 57.895 13.48 0.00 31.02 6.86
3076 5051 1.153329 TGTGCGGACCGAACAGTTT 60.153 52.632 24.31 0.00 40.80 2.66
3090 5065 2.397549 GTCATCAAAACAAGGCTGTGC 58.602 47.619 0.00 0.00 35.37 4.57
3099 5074 8.729756 AGAAACATTATGATCGTCATCAAAACA 58.270 29.630 0.00 0.00 42.53 2.83
3106 5081 8.082242 TCGTCATAGAAACATTATGATCGTCAT 58.918 33.333 0.00 5.92 39.12 3.06
3111 5086 6.369065 GGGGTCGTCATAGAAACATTATGATC 59.631 42.308 0.00 0.00 39.12 2.92
3115 5090 4.628074 CGGGGTCGTCATAGAAACATTAT 58.372 43.478 0.00 0.00 0.00 1.28
3116 5091 4.049546 CGGGGTCGTCATAGAAACATTA 57.950 45.455 0.00 0.00 0.00 1.90
3117 5092 2.901249 CGGGGTCGTCATAGAAACATT 58.099 47.619 0.00 0.00 0.00 2.71
3161 5136 0.103208 GGCACCTCCGTGTCATCTAG 59.897 60.000 0.00 0.00 44.40 2.43
3206 5186 5.647658 TCATTGCCTTTAGTCCATGTACAAG 59.352 40.000 0.00 0.00 0.00 3.16
3368 5357 7.016153 TCTATGAACCAAAAAGCTCTAAGGA 57.984 36.000 0.00 0.00 0.00 3.36
3379 5370 6.007703 AGGATTCCGTTTCTATGAACCAAAA 58.992 36.000 0.00 0.00 0.00 2.44
3422 5414 8.082242 ACTTTGAAATTTGAAGGATAGAAACCG 58.918 33.333 6.51 0.00 0.00 4.44
3462 5454 8.650714 GGAATTTTTGTATCAGCTGACATTTTC 58.349 33.333 20.97 13.11 0.00 2.29
3463 5455 8.370182 AGGAATTTTTGTATCAGCTGACATTTT 58.630 29.630 20.97 5.12 0.00 1.82
3464 5456 7.899973 AGGAATTTTTGTATCAGCTGACATTT 58.100 30.769 20.97 5.56 0.00 2.32
3465 5457 7.472334 AGGAATTTTTGTATCAGCTGACATT 57.528 32.000 20.97 5.98 0.00 2.71
3467 5459 6.374333 GGTAGGAATTTTTGTATCAGCTGACA 59.626 38.462 20.97 11.71 0.00 3.58
3468 5460 6.374333 TGGTAGGAATTTTTGTATCAGCTGAC 59.626 38.462 20.97 8.76 0.00 3.51
3469 5461 6.480763 TGGTAGGAATTTTTGTATCAGCTGA 58.519 36.000 20.79 20.79 0.00 4.26
3470 5462 6.757897 TGGTAGGAATTTTTGTATCAGCTG 57.242 37.500 7.63 7.63 0.00 4.24
3471 5463 7.775053 TTTGGTAGGAATTTTTGTATCAGCT 57.225 32.000 0.00 0.00 0.00 4.24
3472 5464 8.034804 ACATTTGGTAGGAATTTTTGTATCAGC 58.965 33.333 0.00 0.00 0.00 4.26
3473 5465 9.573133 GACATTTGGTAGGAATTTTTGTATCAG 57.427 33.333 0.00 0.00 0.00 2.90
3476 5468 8.034804 GCTGACATTTGGTAGGAATTTTTGTAT 58.965 33.333 0.00 0.00 0.00 2.29
3477 5469 7.232534 AGCTGACATTTGGTAGGAATTTTTGTA 59.767 33.333 0.00 0.00 0.00 2.41
3478 5470 6.041979 AGCTGACATTTGGTAGGAATTTTTGT 59.958 34.615 0.00 0.00 0.00 2.83
3484 5476 4.574674 TCAGCTGACATTTGGTAGGAAT 57.425 40.909 13.74 0.00 0.00 3.01
3502 5494 9.155975 GCCTATAGTACCATTTTCATGTATCAG 57.844 37.037 0.00 0.00 0.00 2.90
3512 5504 2.440253 TGCCCGCCTATAGTACCATTTT 59.560 45.455 0.00 0.00 0.00 1.82
3529 5521 2.867624 TGAGCATGATAAATCCTGCCC 58.132 47.619 14.24 5.87 45.67 5.36
3558 5550 6.494835 AGATGTCTCTGGTGTATGCATATGTA 59.505 38.462 10.16 0.00 0.00 2.29
3559 5551 5.306419 AGATGTCTCTGGTGTATGCATATGT 59.694 40.000 10.16 0.00 0.00 2.29
3561 5553 5.336293 CGAGATGTCTCTGGTGTATGCATAT 60.336 44.000 10.16 0.00 40.75 1.78
3565 5559 2.736978 CGAGATGTCTCTGGTGTATGC 58.263 52.381 8.28 0.00 40.75 3.14
3579 5573 1.817099 GAAGCCAGGGTGCGAGATG 60.817 63.158 0.00 0.00 36.02 2.90
3581 5575 1.841302 AATGAAGCCAGGGTGCGAGA 61.841 55.000 0.00 0.00 36.02 4.04
3589 5583 1.407979 GCATCTCCAAATGAAGCCAGG 59.592 52.381 0.00 0.00 0.00 4.45
3590 5584 1.065102 CGCATCTCCAAATGAAGCCAG 59.935 52.381 0.00 0.00 0.00 4.85
3591 5585 1.097232 CGCATCTCCAAATGAAGCCA 58.903 50.000 0.00 0.00 0.00 4.75
3592 5586 1.064654 GTCGCATCTCCAAATGAAGCC 59.935 52.381 0.00 0.00 0.00 4.35
3593 5587 1.064654 GGTCGCATCTCCAAATGAAGC 59.935 52.381 0.00 0.00 0.00 3.86
3594 5588 1.328680 CGGTCGCATCTCCAAATGAAG 59.671 52.381 0.00 0.00 0.00 3.02
3595 5589 1.368641 CGGTCGCATCTCCAAATGAA 58.631 50.000 0.00 0.00 0.00 2.57
3596 5590 0.461870 CCGGTCGCATCTCCAAATGA 60.462 55.000 0.00 0.00 0.00 2.57
3597 5591 0.744414 ACCGGTCGCATCTCCAAATG 60.744 55.000 0.00 0.00 0.00 2.32
3598 5592 0.462047 GACCGGTCGCATCTCCAAAT 60.462 55.000 20.85 0.00 0.00 2.32
3599 5593 1.079405 GACCGGTCGCATCTCCAAA 60.079 57.895 20.85 0.00 0.00 3.28
3600 5594 1.541310 AAGACCGGTCGCATCTCCAA 61.541 55.000 28.26 0.00 34.09 3.53
3601 5595 0.681887 TAAGACCGGTCGCATCTCCA 60.682 55.000 28.26 6.21 34.09 3.86
3602 5596 0.674534 ATAAGACCGGTCGCATCTCC 59.325 55.000 28.26 2.95 34.09 3.71
3603 5597 1.337071 TGATAAGACCGGTCGCATCTC 59.663 52.381 32.98 24.53 34.09 2.75
3604 5598 1.399714 TGATAAGACCGGTCGCATCT 58.600 50.000 32.98 19.56 34.09 2.90
3605 5599 1.859080 GTTGATAAGACCGGTCGCATC 59.141 52.381 29.82 29.82 34.09 3.91
3606 5600 1.206132 TGTTGATAAGACCGGTCGCAT 59.794 47.619 28.26 23.67 34.09 4.73
3607 5601 0.604073 TGTTGATAAGACCGGTCGCA 59.396 50.000 28.26 20.86 34.09 5.10
3608 5602 1.392510 GTTGTTGATAAGACCGGTCGC 59.607 52.381 28.26 18.66 34.09 5.19
3609 5603 2.666508 CAGTTGTTGATAAGACCGGTCG 59.333 50.000 28.26 5.92 34.09 4.79
3610 5604 3.432252 CACAGTTGTTGATAAGACCGGTC 59.568 47.826 27.67 27.67 0.00 4.79
3611 5605 3.399330 CACAGTTGTTGATAAGACCGGT 58.601 45.455 6.92 6.92 0.00 5.28
3612 5606 2.159627 GCACAGTTGTTGATAAGACCGG 59.840 50.000 0.00 0.00 0.00 5.28
3613 5607 3.067106 AGCACAGTTGTTGATAAGACCG 58.933 45.455 0.00 0.00 0.00 4.79
3614 5608 6.554334 TTTAGCACAGTTGTTGATAAGACC 57.446 37.500 0.00 0.00 0.00 3.85
3615 5609 7.639945 ACTTTTAGCACAGTTGTTGATAAGAC 58.360 34.615 0.00 0.00 0.00 3.01
3616 5610 7.801716 ACTTTTAGCACAGTTGTTGATAAGA 57.198 32.000 0.00 0.00 0.00 2.10


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

AutoCloner maintained by Alex Coulton.