Multiple sequence alignment - TraesCS7B01G143200

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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 TraesCS7B01G143200 chr7B 100.000 4554 0 0 1 4554 183878326 183873773 0.000000e+00 8410.0
1 TraesCS7B01G143200 chr7B 100.000 2223 0 0 5097 7319 183873230 183871008 0.000000e+00 4106.0
2 TraesCS7B01G143200 chr7B 89.831 59 4 2 491 548 186820928 186820985 2.830000e-09 75.0
3 TraesCS7B01G143200 chr7D 91.392 2765 167 36 7 2715 216835965 216838714 0.000000e+00 3722.0
4 TraesCS7B01G143200 chr7D 91.457 1791 90 20 2822 4554 216838769 216840554 0.000000e+00 2401.0
5 TraesCS7B01G143200 chr7D 95.833 1224 35 8 5097 6311 216840852 216842068 0.000000e+00 1964.0
6 TraesCS7B01G143200 chr7D 95.415 1025 24 8 6307 7316 216842106 216843122 0.000000e+00 1611.0
7 TraesCS7B01G143200 chr7D 86.885 61 6 2 481 540 214347922 214347863 4.740000e-07 67.6
8 TraesCS7B01G143200 chr7A 91.706 2520 104 33 267 2716 229604046 229606530 0.000000e+00 3398.0
9 TraesCS7B01G143200 chr7A 92.975 1509 76 16 3072 4554 229606785 229608289 0.000000e+00 2172.0
10 TraesCS7B01G143200 chr7A 95.759 1226 32 11 5097 6313 229608579 229609793 0.000000e+00 1958.0
11 TraesCS7B01G143200 chr7A 94.634 1025 35 7 6307 7316 229609823 229610842 0.000000e+00 1570.0
12 TraesCS7B01G143200 chr7A 86.341 205 20 5 2822 3018 229606583 229606787 4.450000e-52 217.0
13 TraesCS7B01G143200 chr7A 92.929 99 6 1 2698 2796 581850895 581850992 7.650000e-30 143.0
14 TraesCS7B01G143200 chr7A 91.667 48 2 2 491 538 226752093 226752048 1.700000e-06 65.8
15 TraesCS7B01G143200 chr4D 95.699 93 4 0 2710 2802 64347447 64347355 4.570000e-32 150.0
16 TraesCS7B01G143200 chr2B 93.069 101 6 1 2707 2806 142869516 142869616 5.920000e-31 147.0
17 TraesCS7B01G143200 chr3B 94.681 94 4 1 2709 2801 200860679 200860772 2.130000e-30 145.0
18 TraesCS7B01G143200 chr2A 93.814 97 4 1 2711 2805 65084901 65084805 2.130000e-30 145.0
19 TraesCS7B01G143200 chr5A 92.929 99 6 1 2712 2809 32836511 32836413 7.650000e-30 143.0
20 TraesCS7B01G143200 chr6A 89.474 114 5 5 2708 2815 538048089 538047977 3.560000e-28 137.0
21 TraesCS7B01G143200 chr1D 87.395 119 9 5 2699 2813 351546604 351546488 1.660000e-26 132.0
22 TraesCS7B01G143200 chr1B 84.733 131 15 5 2684 2810 120992443 120992572 7.710000e-25 126.0


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 TraesCS7B01G143200 chr7B 183871008 183878326 7318 True 6258.0 8410 100.00000 1 7319 2 chr7B.!!$R1 7318
1 TraesCS7B01G143200 chr7D 216835965 216843122 7157 False 2424.5 3722 93.52425 7 7316 4 chr7D.!!$F1 7309
2 TraesCS7B01G143200 chr7A 229604046 229610842 6796 False 1863.0 3398 92.28300 267 7316 5 chr7A.!!$F2 7049

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
135 136 0.095762 CCAAACGGCCGAAACGATAC 59.904 55.000 35.90 0.0 34.93 2.24 F
1657 1721 0.250858 CCATTGACCCACTCACTGCA 60.251 55.000 0.00 0.0 29.90 4.41 F
1781 1856 0.736053 TTGAAACGCACACCCTTGTC 59.264 50.000 0.00 0.0 31.66 3.18 F
2619 2716 0.250234 GGGCAGGATTCAAAAAGGCC 59.750 55.000 0.00 0.0 39.18 5.19 F
3410 3571 0.108585 TGCTCAACTCAAGGGACACC 59.891 55.000 0.00 0.0 0.00 4.16 F
4001 4163 1.110518 GGAAACTGGCCGGAAACCAA 61.111 55.000 21.41 0.0 36.56 3.67 F
4141 4304 1.745489 CCAAGTGGTAGGAAGCGCC 60.745 63.158 2.29 0.0 34.08 6.53 F
5721 5924 2.224942 TGGTATCATCGTCTACCGGGAT 60.225 50.000 6.32 0.0 40.28 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2082 2157 0.106719 GGGGCTATAGCTTTGGCACA 60.107 55.000 23.53 0.00 41.70 4.57 R
2597 2694 0.602562 CTTTTTGAATCCTGCCCGCA 59.397 50.000 0.00 0.00 0.00 5.69 R
3266 3427 1.273838 TGGGGCAGTAGTTGATCCTCT 60.274 52.381 0.00 0.00 0.00 3.69 R
3786 3948 0.387565 AAAAACAATGGCGCTCCGTT 59.612 45.000 7.64 3.14 42.19 4.44 R
4491 4690 0.737219 GTGGCTGTGGAATGAGATGC 59.263 55.000 0.00 0.00 0.00 3.91 R
5773 5976 1.033746 TGGTACCCGACATCCTCGAC 61.034 60.000 10.07 0.00 46.14 4.20 R
6025 6228 1.410882 CACTAGCTGGCTACTTCTCCC 59.589 57.143 0.00 0.00 0.00 4.30 R
6837 7139 0.179189 GGCTCTTTCGGCGTTCAATG 60.179 55.000 6.85 0.00 0.00 2.82 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
27 28 4.392047 TCACTTGTCATTGAGTGCAAGAT 58.608 39.130 17.58 4.60 42.27 2.40
32 33 3.253921 TGTCATTGAGTGCAAGATGTTGG 59.746 43.478 4.57 0.00 37.45 3.77
35 36 0.953727 TGAGTGCAAGATGTTGGCAC 59.046 50.000 16.81 16.81 39.24 5.01
49 50 5.181690 TGTTGGCACAGTTTATTGACTTC 57.818 39.130 0.00 0.00 42.39 3.01
70 71 9.216117 GACTTCCTTTTCTATAAGCACTAACAA 57.784 33.333 0.00 0.00 0.00 2.83
82 83 2.124903 CACTAACAAACTCGTGCGTCT 58.875 47.619 0.00 0.00 0.00 4.18
83 84 2.538449 CACTAACAAACTCGTGCGTCTT 59.462 45.455 0.00 0.00 0.00 3.01
84 85 2.538449 ACTAACAAACTCGTGCGTCTTG 59.462 45.455 0.00 0.00 0.00 3.02
93 94 0.235665 CGTGCGTCTTGAAACATGCT 59.764 50.000 0.00 0.00 0.00 3.79
96 97 2.468777 GTGCGTCTTGAAACATGCTTTG 59.531 45.455 0.00 0.00 0.00 2.77
97 98 2.098934 TGCGTCTTGAAACATGCTTTGT 59.901 40.909 0.00 0.00 41.53 2.83
99 100 3.791789 GCGTCTTGAAACATGCTTTGTCA 60.792 43.478 0.00 0.00 37.68 3.58
129 130 1.964552 TAAAGTCCAAACGGCCGAAA 58.035 45.000 35.90 8.97 0.00 3.46
135 136 0.095762 CCAAACGGCCGAAACGATAC 59.904 55.000 35.90 0.00 34.93 2.24
142 143 2.273557 GGCCGAAACGATACAAAGCTA 58.726 47.619 0.00 0.00 0.00 3.32
146 148 5.333111 GGCCGAAACGATACAAAGCTATAAG 60.333 44.000 0.00 0.00 0.00 1.73
150 152 8.385111 CCGAAACGATACAAAGCTATAAGAAAA 58.615 33.333 0.00 0.00 0.00 2.29
181 183 5.296748 ACACGCAAGCCAAAAGATAAAAAT 58.703 33.333 0.00 0.00 45.62 1.82
187 189 7.360269 CGCAAGCCAAAAGATAAAAATGACAAT 60.360 33.333 0.00 0.00 0.00 2.71
193 195 7.253420 CCAAAAGATAAAAATGACAATCGAGCG 60.253 37.037 0.00 0.00 0.00 5.03
199 201 3.255379 GACAATCGAGCGGTCGGC 61.255 66.667 33.60 15.92 46.80 5.54
212 214 1.080093 GTCGGCGAGAACATCACCA 60.080 57.895 11.20 0.00 29.81 4.17
223 225 1.434188 ACATCACCAGACCTGAACCA 58.566 50.000 0.00 0.00 0.00 3.67
230 232 0.524862 CAGACCTGAACCAAGCATGC 59.475 55.000 10.51 10.51 0.00 4.06
233 235 0.675633 ACCTGAACCAAGCATGCAAC 59.324 50.000 21.98 4.79 0.00 4.17
237 239 1.483827 TGAACCAAGCATGCAACCAAA 59.516 42.857 21.98 0.00 0.00 3.28
240 242 3.211718 ACCAAGCATGCAACCAAAAAT 57.788 38.095 21.98 0.00 0.00 1.82
242 244 3.952967 ACCAAGCATGCAACCAAAAATTT 59.047 34.783 21.98 0.00 0.00 1.82
246 248 4.400120 AGCATGCAACCAAAAATTTCCAT 58.600 34.783 21.98 0.00 0.00 3.41
247 249 4.456566 AGCATGCAACCAAAAATTTCCATC 59.543 37.500 21.98 0.00 0.00 3.51
260 262 7.524717 AAAATTTCCATCCCTAATACATCCG 57.475 36.000 0.00 0.00 0.00 4.18
261 263 5.843019 ATTTCCATCCCTAATACATCCGT 57.157 39.130 0.00 0.00 0.00 4.69
310 312 4.597404 TGCTAGCTCCAGATAATCACAG 57.403 45.455 17.23 0.00 0.00 3.66
311 313 3.323115 TGCTAGCTCCAGATAATCACAGG 59.677 47.826 17.23 0.00 0.00 4.00
312 314 2.926778 AGCTCCAGATAATCACAGGC 57.073 50.000 0.00 0.00 0.00 4.85
356 358 3.120060 GCAAGCACTTATGAAGACAGTGG 60.120 47.826 0.00 0.00 0.00 4.00
362 364 5.163405 GCACTTATGAAGACAGTGGATCCTA 60.163 44.000 14.23 0.00 0.00 2.94
393 395 1.196127 CGTTTCTACCCAGCCGAAAAC 59.804 52.381 0.00 0.00 0.00 2.43
398 400 2.158726 TCTACCCAGCCGAAAACTTTGT 60.159 45.455 0.00 0.00 0.00 2.83
427 433 2.145397 TCTACTCCCTGGCAGTAGTG 57.855 55.000 21.30 13.66 42.76 2.74
577 601 4.884668 ACTCCACATTCTTCTACCGAAA 57.115 40.909 0.00 0.00 0.00 3.46
644 669 3.297620 CACGCAAGCAAAGCCCCT 61.298 61.111 0.00 0.00 45.62 4.79
1227 1289 1.302285 CCAGGATCAGCAGCAGGTT 59.698 57.895 0.00 0.00 0.00 3.50
1243 1305 1.255667 GGTTCGCTGGAGGGAGTACA 61.256 60.000 0.00 0.00 38.26 2.90
1293 1355 2.353573 GGTAATGCGGTGGTGGGT 59.646 61.111 0.00 0.00 0.00 4.51
1570 1632 2.609984 CCATGAAAATTTGTCAGCGGCA 60.610 45.455 1.45 0.00 0.00 5.69
1571 1633 2.420628 TGAAAATTTGTCAGCGGCAG 57.579 45.000 1.45 0.00 0.00 4.85
1572 1634 1.063031 GAAAATTTGTCAGCGGCAGC 58.937 50.000 0.00 0.00 45.58 5.25
1598 1660 2.996395 CATGGCCAGTCCTCTGCT 59.004 61.111 13.05 0.00 40.09 4.24
1604 1666 2.183811 CAGTCCTCTGCTCCTGCG 59.816 66.667 0.00 0.00 43.34 5.18
1657 1721 0.250858 CCATTGACCCACTCACTGCA 60.251 55.000 0.00 0.00 29.90 4.41
1761 1833 1.980784 CTCTGGGTCTGGGCCTCATG 61.981 65.000 4.53 0.00 0.00 3.07
1781 1856 0.736053 TTGAAACGCACACCCTTGTC 59.264 50.000 0.00 0.00 31.66 3.18
1786 1861 3.948719 GCACACCCTTGTCCCGGA 61.949 66.667 0.73 0.00 31.66 5.14
1801 1876 2.269978 CGGAGGAGTTACCGGTGAA 58.730 57.895 19.93 4.79 44.59 3.18
1802 1877 0.822164 CGGAGGAGTTACCGGTGAAT 59.178 55.000 19.93 8.67 44.59 2.57
1935 2010 6.823689 GGCTTTCATCTAGAGGTTGACAAATA 59.176 38.462 4.02 0.00 0.00 1.40
1996 2071 2.202395 GCCCTGCCAAACTGCTTGA 61.202 57.895 0.00 0.00 37.17 3.02
2074 2149 7.716998 CCATTAGTGACCTATATGCTTGAGTTT 59.283 37.037 0.00 0.00 0.00 2.66
2082 2157 6.069963 ACCTATATGCTTGAGTTTCCAAGACT 60.070 38.462 7.72 0.00 44.66 3.24
2130 2207 4.468007 CCGTTCCCTTTGTCGGTT 57.532 55.556 0.00 0.00 38.45 4.44
2193 2272 4.322385 ACGGCGGCTGCGTTTTTC 62.322 61.111 13.24 0.00 44.10 2.29
2232 2313 2.867109 ACTGTTGATCCAGTTCAGGG 57.133 50.000 0.00 0.00 42.99 4.45
2333 2424 9.599866 CTTGGACATGACACTTAACTATATCAA 57.400 33.333 0.00 0.00 0.00 2.57
2367 2458 0.815734 CTGATTGCCCTTGCTCCAAG 59.184 55.000 0.00 0.00 40.75 3.61
2445 2536 7.265673 TCTCAACGGATAAAGTATCAAAGAGG 58.734 38.462 0.00 0.00 36.91 3.69
2476 2568 1.545841 GAACTAAGGGGCTGTTTGGG 58.454 55.000 0.00 0.00 0.00 4.12
2494 2586 5.570205 TTGGGTGGTAGTTCTGATTTGTA 57.430 39.130 0.00 0.00 0.00 2.41
2500 2592 5.642491 GTGGTAGTTCTGATTTGTAGGAACC 59.358 44.000 0.00 0.00 38.87 3.62
2526 2623 1.522668 CAGTTCTGATTTCACGCCCA 58.477 50.000 0.00 0.00 0.00 5.36
2594 2691 0.894835 CACCCCATTTTGGTACAGCC 59.105 55.000 0.00 0.00 42.39 4.85
2597 2694 1.684869 CCCCATTTTGGTACAGCCGAT 60.685 52.381 0.00 0.00 42.39 4.18
2619 2716 0.250234 GGGCAGGATTCAAAAAGGCC 59.750 55.000 0.00 0.00 39.18 5.19
2680 2777 2.239681 ACTAGCTCCTAAGTGGCACT 57.760 50.000 15.88 15.88 35.26 4.40
2722 2819 5.519808 TGAGTATCATTGTACTCCCTCTGT 58.480 41.667 16.74 0.00 46.41 3.41
2723 2820 6.669631 TGAGTATCATTGTACTCCCTCTGTA 58.330 40.000 16.74 0.00 46.41 2.74
2724 2821 7.123383 TGAGTATCATTGTACTCCCTCTGTAA 58.877 38.462 16.74 2.12 46.41 2.41
2725 2822 7.618117 TGAGTATCATTGTACTCCCTCTGTAAA 59.382 37.037 16.74 1.66 46.41 2.01
2726 2823 7.783042 AGTATCATTGTACTCCCTCTGTAAAC 58.217 38.462 0.00 0.00 28.99 2.01
2727 2824 6.620877 ATCATTGTACTCCCTCTGTAAACA 57.379 37.500 0.00 0.00 0.00 2.83
2728 2825 6.428083 TCATTGTACTCCCTCTGTAAACAA 57.572 37.500 0.00 0.00 0.00 2.83
2729 2826 6.833041 TCATTGTACTCCCTCTGTAAACAAA 58.167 36.000 0.00 0.00 0.00 2.83
2730 2827 7.458397 TCATTGTACTCCCTCTGTAAACAAAT 58.542 34.615 0.00 0.00 0.00 2.32
2731 2828 8.598916 TCATTGTACTCCCTCTGTAAACAAATA 58.401 33.333 0.00 0.00 0.00 1.40
2732 2829 9.396022 CATTGTACTCCCTCTGTAAACAAATAT 57.604 33.333 0.00 0.00 0.00 1.28
2738 2835 7.988028 ACTCCCTCTGTAAACAAATATAAGAGC 59.012 37.037 0.00 0.00 0.00 4.09
2739 2836 7.857456 TCCCTCTGTAAACAAATATAAGAGCA 58.143 34.615 0.00 0.00 0.00 4.26
2740 2837 8.494433 TCCCTCTGTAAACAAATATAAGAGCAT 58.506 33.333 0.00 0.00 0.00 3.79
2741 2838 9.125026 CCCTCTGTAAACAAATATAAGAGCATT 57.875 33.333 0.00 0.00 0.00 3.56
2772 2869 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
2773 2870 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
2774 2871 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
2775 2872 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
2787 2884 9.241317 TCTAAACGCTCTTATATTTCTTTACGG 57.759 33.333 0.00 0.00 0.00 4.02
2788 2885 9.241317 CTAAACGCTCTTATATTTCTTTACGGA 57.759 33.333 0.00 0.00 0.00 4.69
2789 2886 7.695869 AACGCTCTTATATTTCTTTACGGAG 57.304 36.000 0.00 0.00 0.00 4.63
2790 2887 6.214399 ACGCTCTTATATTTCTTTACGGAGG 58.786 40.000 0.00 0.00 0.00 4.30
2791 2888 5.634020 CGCTCTTATATTTCTTTACGGAGGG 59.366 44.000 0.00 0.00 0.00 4.30
2792 2889 5.408909 GCTCTTATATTTCTTTACGGAGGGC 59.591 44.000 0.00 0.00 0.00 5.19
2830 2927 9.521841 TGGAAATGTCATGTATTAAACTAACCA 57.478 29.630 0.00 0.00 0.00 3.67
2894 3029 2.396590 AGAAACAACCAGACACACGT 57.603 45.000 0.00 0.00 0.00 4.49
2996 3154 6.095300 TCGTCATGGCTTATTGAACAAATCAT 59.905 34.615 0.00 0.00 38.03 2.45
3016 3174 9.634163 AAATCATAATTTAAACCTTTGTCGGAC 57.366 29.630 0.00 0.00 33.27 4.79
3022 3180 8.980143 AATTTAAACCTTTGTCGGACATAATG 57.020 30.769 12.26 8.68 0.00 1.90
3052 3210 7.519008 CGAATAGCAGAAGATTTATGGGTCAAC 60.519 40.741 0.00 0.00 0.00 3.18
3283 3444 1.537135 GCGAGAGGATCAACTACTGCC 60.537 57.143 0.00 0.00 37.82 4.85
3338 3499 1.694696 GAGTCCATATGGTCCTGGTCC 59.305 57.143 21.28 2.75 36.34 4.46
3343 3504 2.242196 CCATATGGTCCTGGTCCTTGTT 59.758 50.000 14.09 0.00 0.00 2.83
3410 3571 0.108585 TGCTCAACTCAAGGGACACC 59.891 55.000 0.00 0.00 0.00 4.16
3871 4033 8.887036 ACGTATATGATATTCAGCTTTTGTCA 57.113 30.769 0.00 0.00 0.00 3.58
3981 4143 7.494298 AGTGTTTTTATTCCGTTCTGCAAAAAT 59.506 29.630 0.00 0.00 0.00 1.82
3992 4154 2.145536 CTGCAAAAATGGAAACTGGCC 58.854 47.619 0.00 0.00 0.00 5.36
4001 4163 1.110518 GGAAACTGGCCGGAAACCAA 61.111 55.000 21.41 0.00 36.56 3.67
4050 4213 9.819267 AAATTGATACCGTCCAAAAAGTTTTAA 57.181 25.926 0.24 0.00 0.00 1.52
4141 4304 1.745489 CCAAGTGGTAGGAAGCGCC 60.745 63.158 2.29 0.00 34.08 6.53
4156 4319 4.319177 GAAGCGCCACCTATCATTCTTAT 58.681 43.478 2.29 0.00 0.00 1.73
4178 4341 3.581332 TGTCTCAGGTTCGATTACCCTTT 59.419 43.478 2.56 0.00 39.08 3.11
4260 4424 3.187700 GTTAGGAAGTGATCGAACGCAT 58.812 45.455 9.02 0.00 0.00 4.73
4293 4457 2.531206 GTAAGTAAGCGAGCTGACCAG 58.469 52.381 8.88 0.00 0.00 4.00
4332 4496 5.585500 TCACGTTCTCGATTGGTTAAAAG 57.415 39.130 0.00 0.00 40.62 2.27
4484 4683 9.942850 TGTATGATCTTCTAACTTTTCATGTCA 57.057 29.630 0.00 0.00 0.00 3.58
4491 4690 8.840321 TCTTCTAACTTTTCATGTCAAGAAAGG 58.160 33.333 10.16 10.16 37.86 3.11
5183 5382 8.487313 TTTAAGTACATAACGCAGATGAACAT 57.513 30.769 0.00 0.00 0.00 2.71
5184 5383 6.985188 AAGTACATAACGCAGATGAACATT 57.015 33.333 0.00 0.00 0.00 2.71
5251 5450 4.619973 CATGTGCACTTGTATGTTGGTTT 58.380 39.130 21.36 0.00 0.00 3.27
5345 5544 3.965258 ACCAGCCCGCCATGTCAA 61.965 61.111 0.00 0.00 0.00 3.18
5346 5545 2.440796 CCAGCCCGCCATGTCAAT 60.441 61.111 0.00 0.00 0.00 2.57
5394 5595 5.949354 CCCAGTTGTAAATTATCACCTTCCA 59.051 40.000 0.00 0.00 0.00 3.53
5450 5651 6.979465 TGATTTTGAATTAGCATGACACACA 58.021 32.000 0.00 0.00 0.00 3.72
5523 5726 4.564782 ATGTGATGATCACCTGAGTTGT 57.435 40.909 21.68 0.00 46.40 3.32
5539 5742 6.127338 CCTGAGTTGTTCTATGGTGATCAGTA 60.127 42.308 0.00 0.00 31.83 2.74
5721 5924 2.224942 TGGTATCATCGTCTACCGGGAT 60.225 50.000 6.32 0.00 40.28 3.85
5773 5976 2.264794 GTAGTGAGCACACCCCCG 59.735 66.667 10.88 0.00 46.99 5.73
5985 6188 3.449737 TGGTCTCGAGGATTTCCGTTATT 59.550 43.478 13.56 0.00 42.08 1.40
6003 6206 7.122799 TCCGTTATTATCGATGGAGATGAAGAT 59.877 37.037 8.54 0.00 32.39 2.40
6025 6228 7.437748 AGATATCCGTTCTGAAAAGTAGATGG 58.562 38.462 0.00 0.00 0.00 3.51
6069 6272 0.533032 GTTAGCGAGGCTTGAGACCT 59.467 55.000 5.76 0.00 40.44 3.85
6071 6274 0.612174 TAGCGAGGCTTGAGACCTGT 60.612 55.000 5.76 0.00 40.44 4.00
6076 6279 1.280421 GAGGCTTGAGACCTGTGGATT 59.720 52.381 0.00 0.00 37.77 3.01
6117 6321 3.818210 TGTGTTGTGCCTATTGATTCGTT 59.182 39.130 0.00 0.00 0.00 3.85
6121 6325 5.918011 TGTTGTGCCTATTGATTCGTTTTTC 59.082 36.000 0.00 0.00 0.00 2.29
6137 6341 5.098893 CGTTTTTCTCCATGTTTTGTGTGA 58.901 37.500 0.00 0.00 0.00 3.58
6353 6641 0.971386 CTGATGGGGCAGCTTTTTGT 59.029 50.000 0.00 0.00 0.00 2.83
6362 6650 2.211806 GCAGCTTTTTGTTGGATTGCA 58.788 42.857 0.00 0.00 0.00 4.08
6363 6651 2.809696 GCAGCTTTTTGTTGGATTGCAT 59.190 40.909 0.00 0.00 0.00 3.96
6496 6784 0.759959 CAGAGCCCATGATCTCTGCT 59.240 55.000 22.41 9.37 46.45 4.24
6497 6785 1.969208 CAGAGCCCATGATCTCTGCTA 59.031 52.381 22.41 0.00 46.45 3.49
6498 6786 2.028839 CAGAGCCCATGATCTCTGCTAG 60.029 54.545 22.41 7.59 46.45 3.42
6518 6806 0.038251 TAGCTTATCATGCCGGCGAG 60.038 55.000 23.90 17.13 0.00 5.03
6773 7067 1.225704 CACCAGGCCAAGATCCTCC 59.774 63.158 5.01 0.00 0.00 4.30
6781 7075 0.176680 CCAAGATCCTCCACGACCAG 59.823 60.000 0.00 0.00 0.00 4.00
6805 7099 3.003480 GTTCTTCCTTGAACCAGATCGG 58.997 50.000 2.55 2.55 40.10 4.18
6837 7139 2.093973 ACTGTAGCTAGCACATGGTGAC 60.094 50.000 18.83 2.23 35.23 3.67
6853 7155 1.529438 GTGACATTGAACGCCGAAAGA 59.471 47.619 0.00 0.00 0.00 2.52
6855 7157 0.517316 ACATTGAACGCCGAAAGAGC 59.483 50.000 0.00 0.00 0.00 4.09
6880 7182 3.577848 TGCACATATTTTTGCACCTCCTT 59.422 39.130 0.00 0.00 43.79 3.36
6944 7246 5.038033 GCTCGGAGATTACTAAACTGTCTG 58.962 45.833 9.69 0.00 33.89 3.51
7153 7455 2.035321 CCGGTGGCTCTTTTTGCTTTTA 59.965 45.455 0.00 0.00 0.00 1.52
7217 7519 2.190578 CGGCCTCATCTTGGTCCC 59.809 66.667 0.00 0.00 0.00 4.46
7218 7520 2.370445 CGGCCTCATCTTGGTCCCT 61.370 63.158 0.00 0.00 0.00 4.20
7219 7521 1.915078 CGGCCTCATCTTGGTCCCTT 61.915 60.000 0.00 0.00 0.00 3.95
7279 7584 1.478137 CAAGATCGATCGTCGGTTCC 58.522 55.000 19.33 0.00 40.88 3.62
7299 7604 2.843701 CTCCATGGAGGTATGTCTTGC 58.156 52.381 31.14 0.00 38.51 4.01
7316 7625 5.520288 TGTCTTGCTAATTAATCGCACTCTC 59.480 40.000 10.80 4.97 32.71 3.20
7317 7626 5.520288 GTCTTGCTAATTAATCGCACTCTCA 59.480 40.000 10.80 0.00 32.71 3.27
7318 7627 6.036083 GTCTTGCTAATTAATCGCACTCTCAA 59.964 38.462 10.80 0.00 32.71 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.999001 GCACTCAATGACAAGTGATCTGA 59.001 43.478 9.48 0.00 44.54 3.27
1 2 3.749609 TGCACTCAATGACAAGTGATCTG 59.250 43.478 9.48 2.78 44.54 2.90
2 3 4.011966 TGCACTCAATGACAAGTGATCT 57.988 40.909 9.48 0.00 44.54 2.75
3 4 4.453478 TCTTGCACTCAATGACAAGTGATC 59.547 41.667 9.48 0.00 44.54 2.92
4 5 4.392047 TCTTGCACTCAATGACAAGTGAT 58.608 39.130 9.48 0.00 44.54 3.06
5 6 3.807553 TCTTGCACTCAATGACAAGTGA 58.192 40.909 9.48 1.66 44.54 3.41
6 7 4.023450 ACATCTTGCACTCAATGACAAGTG 60.023 41.667 10.53 10.34 44.57 3.16
7 8 4.139786 ACATCTTGCACTCAATGACAAGT 58.860 39.130 10.53 0.00 40.45 3.16
8 9 4.761235 ACATCTTGCACTCAATGACAAG 57.239 40.909 5.92 5.92 40.71 3.16
11 12 3.829948 CCAACATCTTGCACTCAATGAC 58.170 45.455 0.00 0.00 0.00 3.06
12 13 2.229543 GCCAACATCTTGCACTCAATGA 59.770 45.455 0.00 0.00 0.00 2.57
13 14 2.029739 TGCCAACATCTTGCACTCAATG 60.030 45.455 0.00 0.00 0.00 2.82
14 15 2.029649 GTGCCAACATCTTGCACTCAAT 60.030 45.455 6.60 0.00 34.35 2.57
27 28 4.037446 GGAAGTCAATAAACTGTGCCAACA 59.963 41.667 0.00 0.00 34.34 3.33
32 33 6.739112 AGAAAAGGAAGTCAATAAACTGTGC 58.261 36.000 0.00 0.00 0.00 4.57
49 50 8.169268 CGAGTTTGTTAGTGCTTATAGAAAAGG 58.831 37.037 0.00 0.00 0.00 3.11
70 71 1.647346 TGTTTCAAGACGCACGAGTT 58.353 45.000 0.00 0.00 0.00 3.01
78 79 3.951306 TGACAAAGCATGTTTCAAGACG 58.049 40.909 0.00 0.00 44.12 4.18
99 100 7.174426 GGCCGTTTGGACTTTATATATAAAGCT 59.826 37.037 31.72 22.93 42.93 3.74
110 111 1.603326 GTTTCGGCCGTTTGGACTTTA 59.397 47.619 27.15 0.00 43.41 1.85
142 143 6.747280 GCTTGCGTGTATGTGAATTTTCTTAT 59.253 34.615 0.00 0.00 0.00 1.73
146 148 3.608073 GGCTTGCGTGTATGTGAATTTTC 59.392 43.478 0.00 0.00 0.00 2.29
150 152 1.819928 TGGCTTGCGTGTATGTGAAT 58.180 45.000 0.00 0.00 0.00 2.57
161 163 5.404968 TGTCATTTTTATCTTTTGGCTTGCG 59.595 36.000 0.00 0.00 0.00 4.85
181 183 2.180769 CCGACCGCTCGATTGTCA 59.819 61.111 0.71 0.00 43.06 3.58
193 195 1.810030 GGTGATGTTCTCGCCGACC 60.810 63.158 0.00 0.00 44.36 4.79
199 201 1.546029 TCAGGTCTGGTGATGTTCTCG 59.454 52.381 0.00 0.00 0.00 4.04
206 208 1.271597 GCTTGGTTCAGGTCTGGTGAT 60.272 52.381 0.00 0.00 0.00 3.06
212 214 0.111061 TGCATGCTTGGTTCAGGTCT 59.889 50.000 20.33 0.00 0.00 3.85
223 225 4.205587 TGGAAATTTTTGGTTGCATGCTT 58.794 34.783 20.33 0.00 0.00 3.91
230 232 8.317679 TGTATTAGGGATGGAAATTTTTGGTTG 58.682 33.333 0.00 0.00 0.00 3.77
233 235 8.150296 GGATGTATTAGGGATGGAAATTTTTGG 58.850 37.037 0.00 0.00 0.00 3.28
237 239 6.490040 CACGGATGTATTAGGGATGGAAATTT 59.510 38.462 0.00 0.00 0.00 1.82
240 242 4.410883 ACACGGATGTATTAGGGATGGAAA 59.589 41.667 0.00 0.00 37.26 3.13
242 244 3.323691 CACACGGATGTATTAGGGATGGA 59.676 47.826 0.00 0.00 36.72 3.41
246 248 5.936187 TTTACACACGGATGTATTAGGGA 57.064 39.130 2.31 0.00 36.72 4.20
247 249 5.875910 TGTTTTACACACGGATGTATTAGGG 59.124 40.000 2.31 0.00 36.72 3.53
284 286 1.111277 TATCTGGAGCTAGCAACGCA 58.889 50.000 18.83 9.52 0.00 5.24
286 288 3.738282 GTGATTATCTGGAGCTAGCAACG 59.262 47.826 18.83 2.17 0.00 4.10
310 312 1.080974 CGGGATATCGTACACCGCC 60.081 63.158 4.71 0.00 37.93 6.13
311 313 4.546637 CGGGATATCGTACACCGC 57.453 61.111 4.71 0.00 37.93 5.68
312 314 3.310774 CCTATACGGGATATCGTACACCG 59.689 52.174 13.72 13.72 46.36 4.94
319 321 2.165641 TGCTTGCCTATACGGGATATCG 59.834 50.000 0.00 0.00 30.88 2.92
322 324 2.605257 AGTGCTTGCCTATACGGGATA 58.395 47.619 0.00 0.00 30.88 2.59
323 325 1.424638 AGTGCTTGCCTATACGGGAT 58.575 50.000 0.00 0.00 30.88 3.85
362 364 2.423577 GGTAGAAACGCATGTCCAGTT 58.576 47.619 0.00 0.00 0.00 3.16
372 374 0.952010 TTTCGGCTGGGTAGAAACGC 60.952 55.000 0.00 0.00 38.96 4.84
393 395 6.593382 CAGGGAGTAGAAGAGAAATGACAAAG 59.407 42.308 0.00 0.00 0.00 2.77
398 400 3.452627 GCCAGGGAGTAGAAGAGAAATGA 59.547 47.826 0.00 0.00 0.00 2.57
453 461 2.103042 GTCCGTCTGCCTGTCATGC 61.103 63.158 0.00 0.00 0.00 4.06
577 601 0.603975 GGCTCGTGAACTGCTTCCTT 60.604 55.000 0.00 0.00 0.00 3.36
679 704 4.223964 GCGATGCGAGCGGTTTCC 62.224 66.667 0.00 0.00 0.00 3.13
783 813 2.363018 CGAGAGGGGTCTGAGGCA 60.363 66.667 0.00 0.00 0.00 4.75
867 913 3.954904 TGTTTGAATCAAAAGACGGGGAA 59.045 39.130 10.27 0.00 35.03 3.97
1206 1268 2.611800 TGCTGCTGATCCTGGGGT 60.612 61.111 0.00 0.00 0.00 4.95
1227 1289 1.681327 GGTGTACTCCCTCCAGCGA 60.681 63.158 2.33 0.00 0.00 4.93
1234 1296 0.252742 CCCAGGAAGGTGTACTCCCT 60.253 60.000 10.36 4.67 34.66 4.20
1580 1642 2.827642 GCAGAGGACTGGCCATGC 60.828 66.667 5.51 8.77 43.62 4.06
1582 1644 2.373707 GGAGCAGAGGACTGGCCAT 61.374 63.158 5.51 0.00 43.62 4.40
1583 1645 3.005539 GGAGCAGAGGACTGGCCA 61.006 66.667 4.71 4.71 43.62 5.36
1585 1647 2.583520 CAGGAGCAGAGGACTGGC 59.416 66.667 0.00 0.00 43.62 4.85
1586 1648 2.583520 GCAGGAGCAGAGGACTGG 59.416 66.667 0.00 0.00 43.62 4.00
1607 1669 2.447959 CTGGGGTAGGGGTAGGCC 60.448 72.222 0.00 0.00 0.00 5.19
1610 1672 1.280998 CAAACACTGGGGTAGGGGTAG 59.719 57.143 0.00 0.00 32.57 3.18
1611 1673 1.364269 CAAACACTGGGGTAGGGGTA 58.636 55.000 0.00 0.00 32.57 3.69
1612 1674 0.699922 ACAAACACTGGGGTAGGGGT 60.700 55.000 0.00 0.00 32.57 4.95
1613 1675 0.481128 AACAAACACTGGGGTAGGGG 59.519 55.000 0.00 0.00 32.57 4.79
1749 1821 1.881925 CGTTTCAACATGAGGCCCAGA 60.882 52.381 0.00 0.00 0.00 3.86
1761 1833 0.454196 ACAAGGGTGTGCGTTTCAAC 59.546 50.000 0.00 0.00 36.31 3.18
1786 1861 3.132467 GCTTAGATTCACCGGTAACTCCT 59.868 47.826 6.87 3.75 0.00 3.69
1935 2010 1.553706 ACCGGAAGATCACGTAAGGT 58.446 50.000 9.46 0.00 46.39 3.50
1996 2071 2.840974 GCTGTGGCGTTAGTGATGT 58.159 52.632 0.00 0.00 0.00 3.06
2019 2094 0.321919 TCAGAGCACTGCAATCCACC 60.322 55.000 6.24 0.00 43.17 4.61
2074 2149 0.183492 AGCTTTGGCACAGTCTTGGA 59.817 50.000 2.18 0.00 42.39 3.53
2082 2157 0.106719 GGGGCTATAGCTTTGGCACA 60.107 55.000 23.53 0.00 41.70 4.57
2130 2207 1.616930 TGGAAACCCCCTATCGGCA 60.617 57.895 0.00 0.00 0.00 5.69
2186 2265 0.042535 TCGTGCAAGCTCGAAAAACG 60.043 50.000 15.63 4.83 38.67 3.60
2193 2272 3.767230 CCACGTCGTGCAAGCTCG 61.767 66.667 20.01 9.94 31.34 5.03
2232 2313 1.970917 CTCAACGTCATCTTGGGCGC 61.971 60.000 0.00 0.00 0.00 6.53
2333 2424 6.842807 AGGGCAATCAGATGGAATTAAGAATT 59.157 34.615 0.00 0.00 0.00 2.17
2343 2434 0.627451 AGCAAGGGCAATCAGATGGA 59.373 50.000 0.00 0.00 44.61 3.41
2445 2536 3.306710 CCCCTTAGTTCCCACAATTTTGC 60.307 47.826 0.00 0.00 0.00 3.68
2476 2568 5.642491 GGTTCCTACAAATCAGAACTACCAC 59.358 44.000 0.00 0.00 38.87 4.16
2494 2586 1.068352 AGAACTGCCCCTTGGTTCCT 61.068 55.000 0.00 0.00 39.82 3.36
2500 2592 2.229784 GTGAAATCAGAACTGCCCCTTG 59.770 50.000 0.00 0.00 0.00 3.61
2526 2623 1.088306 CTTCCGTCTCGCTAGTGAGT 58.912 55.000 27.99 0.00 37.28 3.41
2594 2691 1.375853 TTTGAATCCTGCCCGCATCG 61.376 55.000 0.00 0.00 0.00 3.84
2597 2694 0.602562 CTTTTTGAATCCTGCCCGCA 59.397 50.000 0.00 0.00 0.00 5.69
2606 2703 6.521162 TCTTGTTTTAGGGCCTTTTTGAATC 58.479 36.000 13.45 0.00 0.00 2.52
2609 2706 5.659079 TCTTCTTGTTTTAGGGCCTTTTTGA 59.341 36.000 13.45 0.00 0.00 2.69
2712 2809 7.988028 GCTCTTATATTTGTTTACAGAGGGAGT 59.012 37.037 0.00 0.00 0.00 3.85
2713 2810 7.987458 TGCTCTTATATTTGTTTACAGAGGGAG 59.013 37.037 0.00 0.00 0.00 4.30
2714 2811 7.857456 TGCTCTTATATTTGTTTACAGAGGGA 58.143 34.615 0.00 0.00 0.00 4.20
2715 2812 8.682936 ATGCTCTTATATTTGTTTACAGAGGG 57.317 34.615 0.00 0.00 0.00 4.30
2748 2845 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
2749 2846 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
2761 2858 9.241317 CCGTAAAGAAATATAAGAGCGTTTAGA 57.759 33.333 0.00 0.00 0.00 2.10
2762 2859 9.241317 TCCGTAAAGAAATATAAGAGCGTTTAG 57.759 33.333 0.00 0.00 0.00 1.85
2763 2860 9.241317 CTCCGTAAAGAAATATAAGAGCGTTTA 57.759 33.333 0.00 0.00 0.00 2.01
2764 2861 7.224167 CCTCCGTAAAGAAATATAAGAGCGTTT 59.776 37.037 0.00 0.00 0.00 3.60
2765 2862 6.700520 CCTCCGTAAAGAAATATAAGAGCGTT 59.299 38.462 0.00 0.00 0.00 4.84
2766 2863 6.214399 CCTCCGTAAAGAAATATAAGAGCGT 58.786 40.000 0.00 0.00 0.00 5.07
2767 2864 5.634020 CCCTCCGTAAAGAAATATAAGAGCG 59.366 44.000 0.00 0.00 0.00 5.03
2768 2865 5.408909 GCCCTCCGTAAAGAAATATAAGAGC 59.591 44.000 0.00 0.00 0.00 4.09
2769 2866 5.634020 CGCCCTCCGTAAAGAAATATAAGAG 59.366 44.000 0.00 0.00 0.00 2.85
2770 2867 5.535333 CGCCCTCCGTAAAGAAATATAAGA 58.465 41.667 0.00 0.00 0.00 2.10
2771 2868 5.840940 CGCCCTCCGTAAAGAAATATAAG 57.159 43.478 0.00 0.00 0.00 1.73
3221 3382 9.765795 AAATTGGTACGATGTTTATTCCAAAAA 57.234 25.926 0.00 0.00 37.11 1.94
3222 3383 9.197694 CAAATTGGTACGATGTTTATTCCAAAA 57.802 29.630 0.00 0.00 37.11 2.44
3225 3386 7.689446 TCAAATTGGTACGATGTTTATTCCA 57.311 32.000 0.00 0.00 0.00 3.53
3234 3395 8.558700 TGATACATTGATCAAATTGGTACGATG 58.441 33.333 13.09 4.59 32.84 3.84
3265 3426 1.414550 GGGGCAGTAGTTGATCCTCTC 59.585 57.143 0.00 0.00 0.00 3.20
3266 3427 1.273838 TGGGGCAGTAGTTGATCCTCT 60.274 52.381 0.00 0.00 0.00 3.69
3283 3444 2.566833 TCAGTGAGGTGATTGTTGGG 57.433 50.000 0.00 0.00 0.00 4.12
3338 3499 4.466567 TTAACTCATGTGCACGAACAAG 57.533 40.909 13.13 7.58 32.81 3.16
3343 3504 4.314961 ACTCAATTAACTCATGTGCACGA 58.685 39.130 13.13 3.12 0.00 4.35
3558 3719 8.872845 ACAAAGCATAAAAACAAGAAACTTCAG 58.127 29.630 0.00 0.00 0.00 3.02
3564 3725 8.690680 AACGTACAAAGCATAAAAACAAGAAA 57.309 26.923 0.00 0.00 0.00 2.52
3768 3930 7.291567 GCTCCGTTGATCTTATATTTAGTTGC 58.708 38.462 0.00 0.00 0.00 4.17
3786 3948 0.387565 AAAAACAATGGCGCTCCGTT 59.612 45.000 7.64 3.14 42.19 4.44
3981 4143 1.529713 GGTTTCCGGCCAGTTTCCA 60.530 57.895 2.24 0.00 0.00 3.53
3992 4154 3.004002 GTCACCTAGGTTTTTGGTTTCCG 59.996 47.826 13.15 0.00 30.72 4.30
4001 4163 2.019807 TCGGAGGTCACCTAGGTTTT 57.980 50.000 13.15 0.00 31.76 2.43
4027 4189 9.819267 AAATTAAAACTTTTTGGACGGTATCAA 57.181 25.926 0.00 0.00 0.00 2.57
4028 4190 9.819267 AAAATTAAAACTTTTTGGACGGTATCA 57.181 25.926 0.00 0.00 0.00 2.15
4141 4304 7.060383 ACCTGAGACATAAGAATGATAGGTG 57.940 40.000 0.00 0.00 35.85 4.00
4156 4319 2.816411 AGGGTAATCGAACCTGAGACA 58.184 47.619 6.26 0.00 39.65 3.41
4197 4361 6.909550 TTAGGAAGCTTGAATAAGGCAAAA 57.090 33.333 2.10 0.00 34.40 2.44
4293 4457 4.117685 ACGTGAAGTACTTTCTGGTGAAC 58.882 43.478 10.02 0.00 36.71 3.18
4484 4683 4.015084 CTGTGGAATGAGATGCCTTTCTT 58.985 43.478 0.00 0.00 0.00 2.52
4491 4690 0.737219 GTGGCTGTGGAATGAGATGC 59.263 55.000 0.00 0.00 0.00 3.91
5422 5623 7.756272 TGTGTCATGCTAATTCAAAATCATGTC 59.244 33.333 0.00 0.00 34.56 3.06
5450 5651 9.933723 CAGATTTGAAAGGAAAATAACAGGAAT 57.066 29.630 0.00 0.00 0.00 3.01
5523 5726 9.396022 GAAAAGGAAATACTGATCACCATAGAA 57.604 33.333 0.00 0.00 0.00 2.10
5539 5742 3.582647 GGAACACATGGGGAAAAGGAAAT 59.417 43.478 0.00 0.00 0.00 2.17
5617 5820 1.225426 GCATGCATCTGAGGGGACA 59.775 57.895 14.21 0.00 0.00 4.02
5721 5924 2.281484 GCTTCGTCAAGGGTGCCA 60.281 61.111 0.00 0.00 0.00 4.92
5773 5976 1.033746 TGGTACCCGACATCCTCGAC 61.034 60.000 10.07 0.00 46.14 4.20
5985 6188 6.122964 ACGGATATCTTCATCTCCATCGATA 58.877 40.000 0.00 0.00 0.00 2.92
6003 6206 5.163343 CCCCATCTACTTTTCAGAACGGATA 60.163 44.000 0.00 0.00 0.00 2.59
6025 6228 1.410882 CACTAGCTGGCTACTTCTCCC 59.589 57.143 0.00 0.00 0.00 4.30
6069 6272 4.601420 AGCCACCACCATATATAATCCACA 59.399 41.667 0.00 0.00 0.00 4.17
6071 6274 4.601420 ACAGCCACCACCATATATAATCCA 59.399 41.667 0.00 0.00 0.00 3.41
6076 6279 4.165180 ACACAACAGCCACCACCATATATA 59.835 41.667 0.00 0.00 0.00 0.86
6117 6321 6.506147 CAGATCACACAAAACATGGAGAAAA 58.494 36.000 0.00 0.00 0.00 2.29
6121 6325 3.504906 AGCAGATCACACAAAACATGGAG 59.495 43.478 0.00 0.00 0.00 3.86
6281 6491 9.730705 TGATCAGAGATAAACACAGAAGAATTT 57.269 29.630 0.00 0.00 0.00 1.82
6353 6641 6.982160 AAAGGCTAATGATATGCAATCCAA 57.018 33.333 0.00 0.00 0.00 3.53
6362 6650 7.718753 CCACTTCAGAGAAAAGGCTAATGATAT 59.281 37.037 0.00 0.00 0.00 1.63
6363 6651 7.050377 CCACTTCAGAGAAAAGGCTAATGATA 58.950 38.462 0.00 0.00 0.00 2.15
6496 6784 1.067846 CGCCGGCATGATAAGCTACTA 60.068 52.381 28.98 0.00 0.00 1.82
6497 6785 0.319900 CGCCGGCATGATAAGCTACT 60.320 55.000 28.98 0.00 0.00 2.57
6498 6786 0.319555 TCGCCGGCATGATAAGCTAC 60.320 55.000 28.98 0.00 0.00 3.58
6518 6806 1.555967 TGGTATTTCTTGCCTTGGCC 58.444 50.000 9.35 0.00 0.00 5.36
6773 7067 0.393077 AGGAAGAACCACTGGTCGTG 59.607 55.000 0.00 0.00 43.41 4.35
6785 7079 3.334583 CCGATCTGGTTCAAGGAAGAA 57.665 47.619 0.00 0.00 0.00 2.52
6802 7096 2.071540 CTACAGTCACGTACAGACCGA 58.928 52.381 10.81 0.00 36.68 4.69
6804 7098 1.811359 AGCTACAGTCACGTACAGACC 59.189 52.381 10.81 0.00 36.68 3.85
6805 7099 3.485546 GCTAGCTACAGTCACGTACAGAC 60.486 52.174 7.70 7.23 36.26 3.51
6806 7100 2.676839 GCTAGCTACAGTCACGTACAGA 59.323 50.000 7.70 0.00 0.00 3.41
6807 7101 2.418976 TGCTAGCTACAGTCACGTACAG 59.581 50.000 17.23 0.00 0.00 2.74
6809 7103 2.161012 TGTGCTAGCTACAGTCACGTAC 59.839 50.000 17.23 1.26 0.00 3.67
6810 7104 2.429478 TGTGCTAGCTACAGTCACGTA 58.571 47.619 17.23 0.00 0.00 3.57
6812 7106 2.188524 CATGTGCTAGCTACAGTCACG 58.811 52.381 17.23 3.50 0.00 4.35
6837 7139 0.179189 GGCTCTTTCGGCGTTCAATG 60.179 55.000 6.85 0.00 0.00 2.82
6840 7142 1.003839 ATGGCTCTTTCGGCGTTCA 60.004 52.632 6.85 0.00 0.00 3.18
6841 7143 1.425428 CATGGCTCTTTCGGCGTTC 59.575 57.895 6.85 0.00 0.00 3.95
6853 7155 3.613494 TGCAAAAATATGTGCATGGCT 57.387 38.095 5.18 0.00 45.52 4.75
6880 7182 2.089201 CAGCCTTGATCAGTTGCATCA 58.911 47.619 13.48 0.00 0.00 3.07
6944 7246 1.355066 GCGTCTCACTAACTGCTGCC 61.355 60.000 0.00 0.00 0.00 4.85
7153 7455 1.750778 CAGCAGGTGAACAAGTTTGGT 59.249 47.619 0.00 0.00 0.00 3.67
7217 7519 4.899352 TGGGAAGAAGAGGAAGAAGAAG 57.101 45.455 0.00 0.00 0.00 2.85
7218 7520 4.081420 CGATGGGAAGAAGAGGAAGAAGAA 60.081 45.833 0.00 0.00 0.00 2.52
7219 7521 3.449018 CGATGGGAAGAAGAGGAAGAAGA 59.551 47.826 0.00 0.00 0.00 2.87
7279 7584 2.437281 AGCAAGACATACCTCCATGGAG 59.563 50.000 31.69 31.69 41.63 3.86
7294 7599 5.660460 TGAGAGTGCGATTAATTAGCAAGA 58.340 37.500 17.38 0.00 42.93 3.02


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

AutoCloner maintained by Alex Coulton.