Multiple sequence alignment - TraesCS2A01G437000

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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 TraesCS2A01G437000 chr2A 100.000 3111 0 0 1 3111 688774298 688777408 0.000000e+00 5746.0
1 TraesCS2A01G437000 chr2A 92.740 2865 120 32 279 3111 84021467 84024275 0.000000e+00 4058.0
2 TraesCS2A01G437000 chr2A 97.482 278 7 0 1 278 641490939 641490662 2.810000e-130 475.0
3 TraesCS2A01G437000 chr4A 97.074 2837 71 4 277 3111 640937559 640934733 0.000000e+00 4769.0
4 TraesCS2A01G437000 chr4A 97.122 278 8 0 1 278 289375070 289375347 1.310000e-128 470.0
5 TraesCS2A01G437000 chr4A 96.763 278 9 0 1 278 211171926 211172203 6.080000e-127 464.0
6 TraesCS2A01G437000 chr6D 93.436 2849 126 27 278 3111 472510962 472513764 0.000000e+00 4169.0
7 TraesCS2A01G437000 chr6D 92.965 2843 144 27 279 3111 367564537 367561741 0.000000e+00 4091.0
8 TraesCS2A01G437000 chr6D 92.330 2751 136 33 279 3007 306318199 306315502 0.000000e+00 3842.0
9 TraesCS2A01G437000 chr4D 93.256 2847 141 26 278 3111 398986368 398983560 0.000000e+00 4146.0
10 TraesCS2A01G437000 chr4D 92.886 2755 121 44 279 3006 428529859 428532565 0.000000e+00 3932.0
11 TraesCS2A01G437000 chr5D 93.223 2848 131 29 279 3111 480824254 480821454 0.000000e+00 4133.0
12 TraesCS2A01G437000 chr5D 92.545 1489 75 15 278 1756 10666869 10665407 0.000000e+00 2102.0
13 TraesCS2A01G437000 chr3D 92.975 2847 140 27 279 3111 574856805 574854005 0.000000e+00 4095.0
14 TraesCS2A01G437000 chr3D 92.844 2753 126 32 279 3007 359622499 359625204 0.000000e+00 3927.0
15 TraesCS2A01G437000 chr3D 92.442 2752 142 32 279 3007 85226134 85228842 0.000000e+00 3869.0
16 TraesCS2A01G437000 chr3D 93.602 1735 83 16 1289 3007 11274709 11276431 0.000000e+00 2564.0
17 TraesCS2A01G437000 chr5A 97.051 2374 60 3 596 2969 700612173 700614536 0.000000e+00 3988.0
18 TraesCS2A01G437000 chr5A 96.403 278 10 0 1 278 500598873 500599150 2.830000e-125 459.0
19 TraesCS2A01G437000 chr1D 92.909 2750 132 31 279 3007 475528296 475525589 0.000000e+00 3940.0
20 TraesCS2A01G437000 chr1D 90.487 2754 180 39 277 3006 110904253 110901558 0.000000e+00 3559.0
21 TraesCS2A01G437000 chr1D 89.522 878 54 19 2261 3111 37519621 37520487 0.000000e+00 1077.0
22 TraesCS2A01G437000 chr6A 95.162 1757 69 8 1360 3111 608439921 608438176 0.000000e+00 2760.0
23 TraesCS2A01G437000 chr6A 95.162 1757 69 8 1360 3111 608466207 608464462 0.000000e+00 2760.0
24 TraesCS2A01G437000 chr6A 93.760 1282 64 10 1730 3007 584382527 584381258 0.000000e+00 1910.0
25 TraesCS2A01G437000 chr6A 100.000 31 0 0 2630 2660 584381569 584381539 1.210000e-04 58.4
26 TraesCS2A01G437000 chr3B 96.126 1497 45 8 1467 2963 766033480 766034963 0.000000e+00 2431.0
27 TraesCS2A01G437000 chr3B 95.610 934 41 0 276 1209 766032543 766033476 0.000000e+00 1498.0
28 TraesCS2A01G437000 chr3A 97.482 278 7 0 1 278 223561003 223561280 2.810000e-130 475.0
29 TraesCS2A01G437000 chr3A 96.763 278 8 1 1 278 241887632 241887356 2.190000e-126 462.0
30 TraesCS2A01G437000 chr1A 96.763 278 9 0 1 278 41442788 41443065 6.080000e-127 464.0
31 TraesCS2A01G437000 chr1A 96.403 278 10 0 1 278 328785837 328786114 2.830000e-125 459.0
32 TraesCS2A01G437000 chr1A 96.403 278 10 0 1 278 369567513 369567790 2.830000e-125 459.0


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 TraesCS2A01G437000 chr2A 688774298 688777408 3110 False 5746.0 5746 100.000 1 3111 1 chr2A.!!$F2 3110
1 TraesCS2A01G437000 chr2A 84021467 84024275 2808 False 4058.0 4058 92.740 279 3111 1 chr2A.!!$F1 2832
2 TraesCS2A01G437000 chr4A 640934733 640937559 2826 True 4769.0 4769 97.074 277 3111 1 chr4A.!!$R1 2834
3 TraesCS2A01G437000 chr6D 472510962 472513764 2802 False 4169.0 4169 93.436 278 3111 1 chr6D.!!$F1 2833
4 TraesCS2A01G437000 chr6D 367561741 367564537 2796 True 4091.0 4091 92.965 279 3111 1 chr6D.!!$R2 2832
5 TraesCS2A01G437000 chr6D 306315502 306318199 2697 True 3842.0 3842 92.330 279 3007 1 chr6D.!!$R1 2728
6 TraesCS2A01G437000 chr4D 398983560 398986368 2808 True 4146.0 4146 93.256 278 3111 1 chr4D.!!$R1 2833
7 TraesCS2A01G437000 chr4D 428529859 428532565 2706 False 3932.0 3932 92.886 279 3006 1 chr4D.!!$F1 2727
8 TraesCS2A01G437000 chr5D 480821454 480824254 2800 True 4133.0 4133 93.223 279 3111 1 chr5D.!!$R2 2832
9 TraesCS2A01G437000 chr5D 10665407 10666869 1462 True 2102.0 2102 92.545 278 1756 1 chr5D.!!$R1 1478
10 TraesCS2A01G437000 chr3D 574854005 574856805 2800 True 4095.0 4095 92.975 279 3111 1 chr3D.!!$R1 2832
11 TraesCS2A01G437000 chr3D 359622499 359625204 2705 False 3927.0 3927 92.844 279 3007 1 chr3D.!!$F3 2728
12 TraesCS2A01G437000 chr3D 85226134 85228842 2708 False 3869.0 3869 92.442 279 3007 1 chr3D.!!$F2 2728
13 TraesCS2A01G437000 chr3D 11274709 11276431 1722 False 2564.0 2564 93.602 1289 3007 1 chr3D.!!$F1 1718
14 TraesCS2A01G437000 chr5A 700612173 700614536 2363 False 3988.0 3988 97.051 596 2969 1 chr5A.!!$F2 2373
15 TraesCS2A01G437000 chr1D 475525589 475528296 2707 True 3940.0 3940 92.909 279 3007 1 chr1D.!!$R2 2728
16 TraesCS2A01G437000 chr1D 110901558 110904253 2695 True 3559.0 3559 90.487 277 3006 1 chr1D.!!$R1 2729
17 TraesCS2A01G437000 chr1D 37519621 37520487 866 False 1077.0 1077 89.522 2261 3111 1 chr1D.!!$F1 850
18 TraesCS2A01G437000 chr6A 608438176 608439921 1745 True 2760.0 2760 95.162 1360 3111 1 chr6A.!!$R1 1751
19 TraesCS2A01G437000 chr6A 608464462 608466207 1745 True 2760.0 2760 95.162 1360 3111 1 chr6A.!!$R2 1751
20 TraesCS2A01G437000 chr6A 584381258 584382527 1269 True 984.2 1910 96.880 1730 3007 2 chr6A.!!$R3 1277
21 TraesCS2A01G437000 chr3B 766032543 766034963 2420 False 1964.5 2431 95.868 276 2963 2 chr3B.!!$F1 2687

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
552 559 0.246635 GCTGCCTTAAGTCGTCTCCA 59.753 55.000 0.97 0.0 0.0 3.86 F
642 681 2.357517 CTGCTCTTTGACGCCGGT 60.358 61.111 1.90 0.0 0.0 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2034 2126 1.063616 CATTCAGCAGCTCATTCACCG 59.936 52.381 0.0 0.0 0.0 4.94 R
2608 2726 0.389817 TTTGCCTCCTCACATCGACG 60.390 55.000 0.0 0.0 0.0 5.12 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
24 25 7.113704 GTTAATGGTAATGAGCATACGGTAC 57.886 40.000 0.00 0.00 43.01 3.34
25 26 4.948341 ATGGTAATGAGCATACGGTACA 57.052 40.909 0.00 0.00 42.01 2.90
26 27 4.049546 TGGTAATGAGCATACGGTACAC 57.950 45.455 0.00 0.00 0.00 2.90
27 28 3.702548 TGGTAATGAGCATACGGTACACT 59.297 43.478 0.00 0.00 0.00 3.55
28 29 4.160814 TGGTAATGAGCATACGGTACACTT 59.839 41.667 0.00 0.00 0.00 3.16
29 30 5.114081 GGTAATGAGCATACGGTACACTTT 58.886 41.667 0.00 0.00 0.00 2.66
30 31 5.233689 GGTAATGAGCATACGGTACACTTTC 59.766 44.000 0.00 0.00 0.00 2.62
31 32 3.241067 TGAGCATACGGTACACTTTCC 57.759 47.619 0.00 0.00 0.00 3.13
40 41 3.116079 GGTACACTTTCCGAGGAAACA 57.884 47.619 12.85 0.00 38.95 2.83
41 42 3.469739 GGTACACTTTCCGAGGAAACAA 58.530 45.455 12.85 0.00 38.95 2.83
42 43 3.249320 GGTACACTTTCCGAGGAAACAAC 59.751 47.826 12.85 8.61 38.95 3.32
43 44 2.294979 ACACTTTCCGAGGAAACAACC 58.705 47.619 12.85 0.00 38.95 3.77
44 45 2.092592 ACACTTTCCGAGGAAACAACCT 60.093 45.455 12.85 0.00 43.64 3.50
53 54 3.884037 AGGAAACAACCTCAAGTCCAT 57.116 42.857 0.00 0.00 34.98 3.41
54 55 4.993705 AGGAAACAACCTCAAGTCCATA 57.006 40.909 0.00 0.00 34.98 2.74
55 56 4.911390 AGGAAACAACCTCAAGTCCATAG 58.089 43.478 0.00 0.00 34.98 2.23
56 57 4.351111 AGGAAACAACCTCAAGTCCATAGT 59.649 41.667 0.00 0.00 34.98 2.12
57 58 5.546499 AGGAAACAACCTCAAGTCCATAGTA 59.454 40.000 0.00 0.00 34.98 1.82
58 59 6.215636 AGGAAACAACCTCAAGTCCATAGTAT 59.784 38.462 0.00 0.00 34.98 2.12
59 60 6.884836 GGAAACAACCTCAAGTCCATAGTATT 59.115 38.462 0.00 0.00 0.00 1.89
60 61 8.044908 GGAAACAACCTCAAGTCCATAGTATTA 58.955 37.037 0.00 0.00 0.00 0.98
61 62 9.444600 GAAACAACCTCAAGTCCATAGTATTAA 57.555 33.333 0.00 0.00 0.00 1.40
62 63 9.975218 AAACAACCTCAAGTCCATAGTATTAAT 57.025 29.630 0.00 0.00 0.00 1.40
63 64 9.975218 AACAACCTCAAGTCCATAGTATTAATT 57.025 29.630 0.00 0.00 0.00 1.40
64 65 9.614792 ACAACCTCAAGTCCATAGTATTAATTC 57.385 33.333 0.00 0.00 0.00 2.17
65 66 9.838339 CAACCTCAAGTCCATAGTATTAATTCT 57.162 33.333 0.00 0.00 0.00 2.40
95 96 8.980143 GAAAAGTTCCATCGATTATTTTTGGA 57.020 30.769 0.00 0.00 34.74 3.53
96 97 8.986477 AAAAGTTCCATCGATTATTTTTGGAG 57.014 30.769 0.00 0.00 37.74 3.86
97 98 6.699575 AGTTCCATCGATTATTTTTGGAGG 57.300 37.500 0.00 0.00 37.74 4.30
98 99 6.187682 AGTTCCATCGATTATTTTTGGAGGT 58.812 36.000 0.00 0.00 37.74 3.85
99 100 6.663523 AGTTCCATCGATTATTTTTGGAGGTT 59.336 34.615 0.00 0.00 37.74 3.50
100 101 7.178451 AGTTCCATCGATTATTTTTGGAGGTTT 59.822 33.333 0.00 0.00 37.74 3.27
101 102 7.475137 TCCATCGATTATTTTTGGAGGTTTT 57.525 32.000 0.00 0.00 32.80 2.43
102 103 7.319646 TCCATCGATTATTTTTGGAGGTTTTG 58.680 34.615 0.00 0.00 32.80 2.44
103 104 7.177568 TCCATCGATTATTTTTGGAGGTTTTGA 59.822 33.333 0.00 0.00 32.80 2.69
104 105 7.816995 CCATCGATTATTTTTGGAGGTTTTGAA 59.183 33.333 0.00 0.00 0.00 2.69
105 106 9.369904 CATCGATTATTTTTGGAGGTTTTGAAT 57.630 29.630 0.00 0.00 0.00 2.57
106 107 9.942850 ATCGATTATTTTTGGAGGTTTTGAATT 57.057 25.926 0.00 0.00 0.00 2.17
107 108 9.771534 TCGATTATTTTTGGAGGTTTTGAATTT 57.228 25.926 0.00 0.00 0.00 1.82
111 112 9.554395 TTATTTTTGGAGGTTTTGAATTTCCTC 57.446 29.630 0.00 0.00 43.84 3.71
112 113 6.806668 TTTTGGAGGTTTTGAATTTCCTCT 57.193 33.333 9.43 0.00 43.97 3.69
113 114 6.806668 TTTGGAGGTTTTGAATTTCCTCTT 57.193 33.333 9.43 0.00 43.97 2.85
114 115 6.405278 TTGGAGGTTTTGAATTTCCTCTTC 57.595 37.500 9.43 0.00 43.97 2.87
115 116 4.832823 TGGAGGTTTTGAATTTCCTCTTCC 59.167 41.667 9.43 0.00 43.97 3.46
116 117 5.080337 GGAGGTTTTGAATTTCCTCTTCCT 58.920 41.667 9.43 0.00 43.97 3.36
117 118 6.183361 TGGAGGTTTTGAATTTCCTCTTCCTA 60.183 38.462 9.43 0.00 43.97 2.94
118 119 6.151312 GGAGGTTTTGAATTTCCTCTTCCTAC 59.849 42.308 9.43 0.00 43.97 3.18
119 120 6.853490 AGGTTTTGAATTTCCTCTTCCTACT 58.147 36.000 0.00 0.00 0.00 2.57
120 121 6.717084 AGGTTTTGAATTTCCTCTTCCTACTG 59.283 38.462 0.00 0.00 0.00 2.74
121 122 6.490381 GGTTTTGAATTTCCTCTTCCTACTGT 59.510 38.462 0.00 0.00 0.00 3.55
122 123 7.308649 GGTTTTGAATTTCCTCTTCCTACTGTC 60.309 40.741 0.00 0.00 0.00 3.51
123 124 6.433847 TTGAATTTCCTCTTCCTACTGTCA 57.566 37.500 0.00 0.00 0.00 3.58
124 125 6.433847 TGAATTTCCTCTTCCTACTGTCAA 57.566 37.500 0.00 0.00 0.00 3.18
125 126 6.467677 TGAATTTCCTCTTCCTACTGTCAAG 58.532 40.000 0.00 0.00 0.00 3.02
126 127 6.270000 TGAATTTCCTCTTCCTACTGTCAAGA 59.730 38.462 0.00 0.00 0.00 3.02
127 128 6.688073 ATTTCCTCTTCCTACTGTCAAGAA 57.312 37.500 0.00 0.00 0.00 2.52
128 129 5.730296 TTCCTCTTCCTACTGTCAAGAAG 57.270 43.478 7.64 7.64 37.63 2.85
129 130 4.999310 TCCTCTTCCTACTGTCAAGAAGA 58.001 43.478 13.24 13.24 41.74 2.87
130 131 5.394738 TCCTCTTCCTACTGTCAAGAAGAA 58.605 41.667 14.25 3.25 42.95 2.52
131 132 5.839063 TCCTCTTCCTACTGTCAAGAAGAAA 59.161 40.000 14.25 6.72 42.95 2.52
132 133 6.498651 TCCTCTTCCTACTGTCAAGAAGAAAT 59.501 38.462 14.25 0.00 42.95 2.17
133 134 7.674348 TCCTCTTCCTACTGTCAAGAAGAAATA 59.326 37.037 14.25 4.81 42.95 1.40
134 135 8.482128 CCTCTTCCTACTGTCAAGAAGAAATAT 58.518 37.037 14.25 0.00 42.95 1.28
135 136 9.311916 CTCTTCCTACTGTCAAGAAGAAATATG 57.688 37.037 14.25 3.87 42.95 1.78
136 137 9.035890 TCTTCCTACTGTCAAGAAGAAATATGA 57.964 33.333 12.12 0.00 41.21 2.15
137 138 9.829507 CTTCCTACTGTCAAGAAGAAATATGAT 57.170 33.333 8.05 0.00 38.38 2.45
159 160 8.579850 TGATATTCTAATTATTGGGGATGTGC 57.420 34.615 0.00 0.00 0.00 4.57
160 161 8.169393 TGATATTCTAATTATTGGGGATGTGCA 58.831 33.333 0.00 0.00 0.00 4.57
161 162 8.954834 ATATTCTAATTATTGGGGATGTGCAA 57.045 30.769 0.00 0.00 0.00 4.08
162 163 7.673641 ATTCTAATTATTGGGGATGTGCAAA 57.326 32.000 0.00 0.00 0.00 3.68
163 164 7.673641 TTCTAATTATTGGGGATGTGCAAAT 57.326 32.000 0.00 0.00 0.00 2.32
164 165 7.288810 TCTAATTATTGGGGATGTGCAAATC 57.711 36.000 8.50 8.50 0.00 2.17
165 166 4.961438 ATTATTGGGGATGTGCAAATCC 57.039 40.909 25.77 25.77 44.76 3.01
171 172 2.678471 GGATGTGCAAATCCCCTTTG 57.322 50.000 23.73 0.00 45.86 2.77
172 173 2.178580 GGATGTGCAAATCCCCTTTGA 58.821 47.619 23.73 0.00 45.96 2.69
173 174 2.767960 GGATGTGCAAATCCCCTTTGAT 59.232 45.455 23.73 0.00 45.96 2.57
174 175 3.431207 GGATGTGCAAATCCCCTTTGATG 60.431 47.826 23.73 0.00 45.96 3.07
175 176 2.607499 TGTGCAAATCCCCTTTGATGT 58.393 42.857 0.00 0.00 45.96 3.06
176 177 3.772387 TGTGCAAATCCCCTTTGATGTA 58.228 40.909 0.00 0.00 45.96 2.29
177 178 4.155709 TGTGCAAATCCCCTTTGATGTAA 58.844 39.130 0.00 0.00 45.96 2.41
178 179 4.021544 TGTGCAAATCCCCTTTGATGTAAC 60.022 41.667 0.00 0.00 45.96 2.50
179 180 4.021544 GTGCAAATCCCCTTTGATGTAACA 60.022 41.667 0.00 0.00 45.96 2.41
180 181 4.776837 TGCAAATCCCCTTTGATGTAACAT 59.223 37.500 2.05 0.00 45.96 2.71
181 182 5.954752 TGCAAATCCCCTTTGATGTAACATA 59.045 36.000 2.05 0.00 45.96 2.29
182 183 6.096705 TGCAAATCCCCTTTGATGTAACATAG 59.903 38.462 2.05 0.00 45.96 2.23
183 184 6.096846 GCAAATCCCCTTTGATGTAACATAGT 59.903 38.462 2.05 0.00 45.96 2.12
184 185 7.483307 CAAATCCCCTTTGATGTAACATAGTG 58.517 38.462 0.00 0.00 45.96 2.74
185 186 5.772393 TCCCCTTTGATGTAACATAGTGT 57.228 39.130 0.00 0.00 0.00 3.55
186 187 6.134535 TCCCCTTTGATGTAACATAGTGTT 57.865 37.500 0.67 0.67 43.88 3.32
187 188 7.260387 TCCCCTTTGATGTAACATAGTGTTA 57.740 36.000 0.00 0.00 41.45 2.41
188 189 7.867921 TCCCCTTTGATGTAACATAGTGTTAT 58.132 34.615 5.90 0.00 43.74 1.89
189 190 8.333235 TCCCCTTTGATGTAACATAGTGTTATT 58.667 33.333 5.90 0.00 43.74 1.40
190 191 8.621286 CCCCTTTGATGTAACATAGTGTTATTC 58.379 37.037 5.90 7.12 43.74 1.75
191 192 8.335356 CCCTTTGATGTAACATAGTGTTATTCG 58.665 37.037 5.90 0.00 43.74 3.34
192 193 9.093970 CCTTTGATGTAACATAGTGTTATTCGA 57.906 33.333 5.90 4.48 43.74 3.71
202 203 9.755064 AACATAGTGTTATTCGAAATTTCTTCG 57.245 29.630 15.92 4.19 39.09 3.79
203 204 8.388103 ACATAGTGTTATTCGAAATTTCTTCGG 58.612 33.333 15.92 0.86 41.78 4.30
204 205 6.796705 AGTGTTATTCGAAATTTCTTCGGT 57.203 33.333 15.92 1.12 41.78 4.69
205 206 7.198306 AGTGTTATTCGAAATTTCTTCGGTT 57.802 32.000 15.92 0.00 41.78 4.44
206 207 7.295930 AGTGTTATTCGAAATTTCTTCGGTTC 58.704 34.615 15.92 2.75 41.78 3.62
207 208 6.522165 GTGTTATTCGAAATTTCTTCGGTTCC 59.478 38.462 15.92 0.00 41.78 3.62
208 209 6.205076 TGTTATTCGAAATTTCTTCGGTTCCA 59.795 34.615 15.92 1.42 41.78 3.53
209 210 5.897377 ATTCGAAATTTCTTCGGTTCCAT 57.103 34.783 15.92 0.00 41.78 3.41
210 211 4.678509 TCGAAATTTCTTCGGTTCCATG 57.321 40.909 15.92 0.00 41.78 3.66
211 212 4.069304 TCGAAATTTCTTCGGTTCCATGT 58.931 39.130 15.92 0.00 41.78 3.21
212 213 4.517453 TCGAAATTTCTTCGGTTCCATGTT 59.483 37.500 15.92 0.00 41.78 2.71
213 214 5.701750 TCGAAATTTCTTCGGTTCCATGTTA 59.298 36.000 15.92 0.00 41.78 2.41
214 215 6.373216 TCGAAATTTCTTCGGTTCCATGTTAT 59.627 34.615 15.92 0.00 41.78 1.89
215 216 7.027161 CGAAATTTCTTCGGTTCCATGTTATT 58.973 34.615 15.92 0.00 38.19 1.40
216 217 8.178964 CGAAATTTCTTCGGTTCCATGTTATTA 58.821 33.333 15.92 0.00 38.19 0.98
217 218 9.503427 GAAATTTCTTCGGTTCCATGTTATTAG 57.497 33.333 11.05 0.00 0.00 1.73
218 219 6.995511 TTTCTTCGGTTCCATGTTATTAGG 57.004 37.500 0.00 0.00 0.00 2.69
219 220 5.943349 TCTTCGGTTCCATGTTATTAGGA 57.057 39.130 0.00 0.00 0.00 2.94
220 221 6.302535 TCTTCGGTTCCATGTTATTAGGAA 57.697 37.500 0.00 0.00 39.01 3.36
221 222 6.895782 TCTTCGGTTCCATGTTATTAGGAAT 58.104 36.000 0.00 0.00 42.82 3.01
222 223 6.765989 TCTTCGGTTCCATGTTATTAGGAATG 59.234 38.462 0.00 0.00 42.82 2.67
223 224 6.241882 TCGGTTCCATGTTATTAGGAATGA 57.758 37.500 0.00 0.00 42.82 2.57
224 225 6.288294 TCGGTTCCATGTTATTAGGAATGAG 58.712 40.000 0.00 0.00 42.82 2.90
225 226 6.055588 CGGTTCCATGTTATTAGGAATGAGT 58.944 40.000 0.00 0.00 42.82 3.41
226 227 6.542370 CGGTTCCATGTTATTAGGAATGAGTT 59.458 38.462 0.00 0.00 42.82 3.01
227 228 7.067008 CGGTTCCATGTTATTAGGAATGAGTTT 59.933 37.037 0.00 0.00 42.82 2.66
228 229 8.190784 GGTTCCATGTTATTAGGAATGAGTTTG 58.809 37.037 0.00 0.00 42.82 2.93
229 230 8.739972 GTTCCATGTTATTAGGAATGAGTTTGT 58.260 33.333 0.00 0.00 42.82 2.83
230 231 8.877864 TCCATGTTATTAGGAATGAGTTTGTT 57.122 30.769 0.00 0.00 0.00 2.83
231 232 9.967451 TCCATGTTATTAGGAATGAGTTTGTTA 57.033 29.630 0.00 0.00 0.00 2.41
239 240 8.974060 TTAGGAATGAGTTTGTTAACAAGACT 57.026 30.769 23.94 23.94 37.15 3.24
240 241 7.881775 AGGAATGAGTTTGTTAACAAGACTT 57.118 32.000 24.25 15.51 37.15 3.01
241 242 7.707104 AGGAATGAGTTTGTTAACAAGACTTG 58.293 34.615 24.25 13.77 37.15 3.16
242 243 7.556275 AGGAATGAGTTTGTTAACAAGACTTGA 59.444 33.333 21.95 18.27 37.15 3.02
243 244 8.352942 GGAATGAGTTTGTTAACAAGACTTGAT 58.647 33.333 21.95 12.58 37.15 2.57
244 245 9.387123 GAATGAGTTTGTTAACAAGACTTGATC 57.613 33.333 21.95 19.79 37.15 2.92
245 246 7.857734 TGAGTTTGTTAACAAGACTTGATCA 57.142 32.000 21.95 18.48 37.15 2.92
246 247 8.275015 TGAGTTTGTTAACAAGACTTGATCAA 57.725 30.769 21.95 8.12 37.15 2.57
247 248 8.181573 TGAGTTTGTTAACAAGACTTGATCAAC 58.818 33.333 21.95 18.85 37.15 3.18
248 249 7.480810 AGTTTGTTAACAAGACTTGATCAACC 58.519 34.615 21.95 12.03 37.15 3.77
249 250 7.339466 AGTTTGTTAACAAGACTTGATCAACCT 59.661 33.333 21.95 13.69 37.15 3.50
250 251 7.639113 TTGTTAACAAGACTTGATCAACCTT 57.361 32.000 21.95 8.14 0.00 3.50
251 252 7.026631 TGTTAACAAGACTTGATCAACCTTG 57.973 36.000 27.60 27.60 39.84 3.61
252 253 6.601613 TGTTAACAAGACTTGATCAACCTTGT 59.398 34.615 28.46 28.46 46.31 3.16
256 257 7.823745 ACAAGACTTGATCAACCTTGTTAAT 57.176 32.000 28.46 16.36 43.14 1.40
257 258 7.651808 ACAAGACTTGATCAACCTTGTTAATG 58.348 34.615 28.46 17.25 43.14 1.90
258 259 6.824305 AGACTTGATCAACCTTGTTAATGG 57.176 37.500 3.38 0.00 0.00 3.16
259 260 6.542821 AGACTTGATCAACCTTGTTAATGGA 58.457 36.000 3.38 0.00 0.00 3.41
260 261 7.177878 AGACTTGATCAACCTTGTTAATGGAT 58.822 34.615 3.38 0.00 0.00 3.41
261 262 7.671398 AGACTTGATCAACCTTGTTAATGGATT 59.329 33.333 3.38 0.00 0.00 3.01
262 263 7.605449 ACTTGATCAACCTTGTTAATGGATTG 58.395 34.615 3.38 0.00 0.00 2.67
263 264 5.964758 TGATCAACCTTGTTAATGGATTGC 58.035 37.500 0.00 0.00 0.00 3.56
264 265 5.716228 TGATCAACCTTGTTAATGGATTGCT 59.284 36.000 0.00 0.00 0.00 3.91
265 266 6.211184 TGATCAACCTTGTTAATGGATTGCTT 59.789 34.615 0.00 0.00 0.00 3.91
266 267 6.418057 TCAACCTTGTTAATGGATTGCTTT 57.582 33.333 0.00 0.00 0.00 3.51
267 268 6.825610 TCAACCTTGTTAATGGATTGCTTTT 58.174 32.000 0.00 0.00 0.00 2.27
268 269 6.705381 TCAACCTTGTTAATGGATTGCTTTTG 59.295 34.615 0.00 0.00 0.00 2.44
269 270 6.418057 ACCTTGTTAATGGATTGCTTTTGA 57.582 33.333 0.00 0.00 0.00 2.69
270 271 7.008021 ACCTTGTTAATGGATTGCTTTTGAT 57.992 32.000 0.00 0.00 0.00 2.57
271 272 6.875195 ACCTTGTTAATGGATTGCTTTTGATG 59.125 34.615 0.00 0.00 0.00 3.07
272 273 7.098477 CCTTGTTAATGGATTGCTTTTGATGA 58.902 34.615 0.00 0.00 0.00 2.92
273 274 7.767198 CCTTGTTAATGGATTGCTTTTGATGAT 59.233 33.333 0.00 0.00 0.00 2.45
274 275 8.706492 TTGTTAATGGATTGCTTTTGATGATC 57.294 30.769 0.00 0.00 0.00 2.92
275 276 7.838884 TGTTAATGGATTGCTTTTGATGATCA 58.161 30.769 0.00 0.00 0.00 2.92
375 376 0.963962 ACCACTTTTCTCGTCGGCTA 59.036 50.000 0.00 0.00 0.00 3.93
422 423 3.311871 TGCTAGCGTTTTGAACCGTTTTA 59.688 39.130 10.77 0.00 0.00 1.52
495 496 1.418373 GCCGTTAACGACCGTTACTT 58.582 50.000 28.79 0.00 39.90 2.24
552 559 0.246635 GCTGCCTTAAGTCGTCTCCA 59.753 55.000 0.97 0.00 0.00 3.86
642 681 2.357517 CTGCTCTTTGACGCCGGT 60.358 61.111 1.90 0.00 0.00 5.28
961 1001 6.303054 TGGGGAAATAATTTGCGATCTATGA 58.697 36.000 0.00 0.00 0.00 2.15
964 1004 7.606456 GGGGAAATAATTTGCGATCTATGACTA 59.394 37.037 0.00 0.00 0.00 2.59
1148 1190 3.335579 GAAGGCGTTTCTATGGTTGTCT 58.664 45.455 0.00 0.00 32.83 3.41
1211 1253 6.971527 TCTAAACCCACACATGTATTTACG 57.028 37.500 0.00 0.00 0.00 3.18
1428 1518 3.662759 ACAAGAAGGTTGGGTTTCAGA 57.337 42.857 0.00 0.00 0.00 3.27
1444 1534 9.832445 TGGGTTTCAGATATAGTTTGAGTTATC 57.168 33.333 0.00 0.00 0.00 1.75
1568 1660 4.365514 TTCCAAATGCAGACTGAAGGTA 57.634 40.909 6.65 0.00 0.00 3.08
1921 2013 2.799562 GCTCAAACTTGCCAAGGAACAC 60.800 50.000 9.64 0.00 0.00 3.32
1990 2082 3.565307 AGCAATGAAGGAGGTTGAACAA 58.435 40.909 0.00 0.00 0.00 2.83
2034 2126 1.885163 AAGGCCAAGCTTGAGCATGC 61.885 55.000 28.05 20.29 45.16 4.06
2115 2207 3.490419 GCCATCCTTGATTCATGAAGTGC 60.490 47.826 14.54 6.55 0.00 4.40
2175 2270 4.406456 AGTATGTGGCCAAACAATCTGAA 58.594 39.130 7.24 0.00 32.81 3.02
2400 2510 8.046708 TGTATTTGAACCTCTTATGCTATGTGT 58.953 33.333 0.00 0.00 0.00 3.72
2546 2663 0.831711 GCCACACCCCACCTCAAAAT 60.832 55.000 0.00 0.00 0.00 1.82
2784 2911 1.010046 AGGGAAGATCATCAGGTGGGA 59.990 52.381 0.00 0.00 0.00 4.37
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.702723 TGTACCGTATGCTCATTACCATTAAC 59.297 38.462 0.00 0.00 0.00 2.01
4 5 4.344102 AGTGTACCGTATGCTCATTACCAT 59.656 41.667 0.00 0.00 0.00 3.55
6 7 4.317671 AGTGTACCGTATGCTCATTACC 57.682 45.455 0.00 0.00 0.00 2.85
7 8 5.233689 GGAAAGTGTACCGTATGCTCATTAC 59.766 44.000 0.00 0.00 0.00 1.89
8 9 5.353938 GGAAAGTGTACCGTATGCTCATTA 58.646 41.667 0.00 0.00 0.00 1.90
9 10 4.189231 GGAAAGTGTACCGTATGCTCATT 58.811 43.478 0.00 0.00 0.00 2.57
10 11 3.737047 CGGAAAGTGTACCGTATGCTCAT 60.737 47.826 0.00 0.00 43.53 2.90
11 12 2.416296 CGGAAAGTGTACCGTATGCTCA 60.416 50.000 0.00 0.00 43.53 4.26
12 13 2.190981 CGGAAAGTGTACCGTATGCTC 58.809 52.381 0.00 0.00 43.53 4.26
13 14 2.288961 CGGAAAGTGTACCGTATGCT 57.711 50.000 0.00 0.00 43.53 3.79
20 21 3.116079 TGTTTCCTCGGAAAGTGTACC 57.884 47.619 11.21 0.29 43.66 3.34
21 22 3.249320 GGTTGTTTCCTCGGAAAGTGTAC 59.751 47.826 11.21 7.28 43.66 2.90
22 23 3.135167 AGGTTGTTTCCTCGGAAAGTGTA 59.865 43.478 11.21 0.00 43.66 2.90
23 24 2.092592 AGGTTGTTTCCTCGGAAAGTGT 60.093 45.455 11.21 0.00 43.66 3.55
24 25 2.548480 GAGGTTGTTTCCTCGGAAAGTG 59.452 50.000 11.21 0.00 43.66 3.16
25 26 2.847441 GAGGTTGTTTCCTCGGAAAGT 58.153 47.619 11.21 0.00 43.66 2.66
33 34 3.884037 ATGGACTTGAGGTTGTTTCCT 57.116 42.857 0.00 0.00 40.97 3.36
34 35 4.652822 ACTATGGACTTGAGGTTGTTTCC 58.347 43.478 0.00 0.00 0.00 3.13
35 36 7.923414 AATACTATGGACTTGAGGTTGTTTC 57.077 36.000 0.00 0.00 0.00 2.78
36 37 9.975218 ATTAATACTATGGACTTGAGGTTGTTT 57.025 29.630 0.00 0.00 0.00 2.83
37 38 9.975218 AATTAATACTATGGACTTGAGGTTGTT 57.025 29.630 0.00 0.00 0.00 2.83
38 39 9.614792 GAATTAATACTATGGACTTGAGGTTGT 57.385 33.333 0.00 0.00 0.00 3.32
39 40 9.838339 AGAATTAATACTATGGACTTGAGGTTG 57.162 33.333 0.00 0.00 0.00 3.77
70 71 8.980143 TCCAAAAATAATCGATGGAACTTTTC 57.020 30.769 0.00 0.00 37.24 2.29
71 72 8.034804 CCTCCAAAAATAATCGATGGAACTTTT 58.965 33.333 0.00 0.00 39.54 2.27
72 73 7.178451 ACCTCCAAAAATAATCGATGGAACTTT 59.822 33.333 0.00 0.00 39.54 2.66
73 74 6.663523 ACCTCCAAAAATAATCGATGGAACTT 59.336 34.615 0.00 0.00 39.54 2.66
74 75 6.187682 ACCTCCAAAAATAATCGATGGAACT 58.812 36.000 0.00 0.00 39.54 3.01
75 76 6.451064 ACCTCCAAAAATAATCGATGGAAC 57.549 37.500 0.00 0.00 39.54 3.62
76 77 7.475137 AAACCTCCAAAAATAATCGATGGAA 57.525 32.000 0.00 0.00 39.54 3.53
77 78 7.177568 TCAAAACCTCCAAAAATAATCGATGGA 59.822 33.333 0.00 0.00 37.83 3.41
78 79 7.319646 TCAAAACCTCCAAAAATAATCGATGG 58.680 34.615 0.00 0.00 0.00 3.51
79 80 8.755696 TTCAAAACCTCCAAAAATAATCGATG 57.244 30.769 0.00 0.00 0.00 3.84
80 81 9.942850 AATTCAAAACCTCCAAAAATAATCGAT 57.057 25.926 0.00 0.00 0.00 3.59
81 82 9.771534 AAATTCAAAACCTCCAAAAATAATCGA 57.228 25.926 0.00 0.00 0.00 3.59
85 86 9.554395 GAGGAAATTCAAAACCTCCAAAAATAA 57.446 29.630 0.00 0.00 41.89 1.40
86 87 8.933653 AGAGGAAATTCAAAACCTCCAAAAATA 58.066 29.630 0.00 0.00 46.88 1.40
87 88 7.805163 AGAGGAAATTCAAAACCTCCAAAAAT 58.195 30.769 0.00 0.00 46.88 1.82
88 89 7.194112 AGAGGAAATTCAAAACCTCCAAAAA 57.806 32.000 0.00 0.00 46.88 1.94
89 90 6.806668 AGAGGAAATTCAAAACCTCCAAAA 57.193 33.333 0.00 0.00 46.88 2.44
90 91 6.183360 GGAAGAGGAAATTCAAAACCTCCAAA 60.183 38.462 0.00 0.00 46.88 3.28
91 92 5.304357 GGAAGAGGAAATTCAAAACCTCCAA 59.696 40.000 0.00 0.00 46.88 3.53
92 93 4.832823 GGAAGAGGAAATTCAAAACCTCCA 59.167 41.667 0.00 0.00 46.88 3.86
93 94 5.080337 AGGAAGAGGAAATTCAAAACCTCC 58.920 41.667 0.00 0.00 46.88 4.30
94 95 6.943146 AGTAGGAAGAGGAAATTCAAAACCTC 59.057 38.462 0.00 0.00 46.28 3.85
95 96 6.717084 CAGTAGGAAGAGGAAATTCAAAACCT 59.283 38.462 0.00 0.00 35.29 3.50
96 97 6.490381 ACAGTAGGAAGAGGAAATTCAAAACC 59.510 38.462 0.00 0.00 0.00 3.27
97 98 7.228706 TGACAGTAGGAAGAGGAAATTCAAAAC 59.771 37.037 0.00 0.00 0.00 2.43
98 99 7.287061 TGACAGTAGGAAGAGGAAATTCAAAA 58.713 34.615 0.00 0.00 0.00 2.44
99 100 6.837312 TGACAGTAGGAAGAGGAAATTCAAA 58.163 36.000 0.00 0.00 0.00 2.69
100 101 6.433847 TGACAGTAGGAAGAGGAAATTCAA 57.566 37.500 0.00 0.00 0.00 2.69
101 102 6.270000 TCTTGACAGTAGGAAGAGGAAATTCA 59.730 38.462 0.00 0.00 0.00 2.57
102 103 6.702329 TCTTGACAGTAGGAAGAGGAAATTC 58.298 40.000 0.00 0.00 0.00 2.17
103 104 6.688073 TCTTGACAGTAGGAAGAGGAAATT 57.312 37.500 0.00 0.00 0.00 1.82
104 105 6.498651 TCTTCTTGACAGTAGGAAGAGGAAAT 59.501 38.462 0.00 0.00 39.10 2.17
105 106 5.839063 TCTTCTTGACAGTAGGAAGAGGAAA 59.161 40.000 0.00 0.00 39.10 3.13
106 107 5.394738 TCTTCTTGACAGTAGGAAGAGGAA 58.605 41.667 0.00 0.00 39.10 3.36
107 108 4.999310 TCTTCTTGACAGTAGGAAGAGGA 58.001 43.478 0.00 0.00 39.10 3.71
108 109 5.730296 TTCTTCTTGACAGTAGGAAGAGG 57.270 43.478 10.36 0.00 42.95 3.69
109 110 9.311916 CATATTTCTTCTTGACAGTAGGAAGAG 57.688 37.037 10.36 0.35 42.95 2.85
110 111 9.035890 TCATATTTCTTCTTGACAGTAGGAAGA 57.964 33.333 0.00 0.00 41.26 2.87
111 112 9.829507 ATCATATTTCTTCTTGACAGTAGGAAG 57.170 33.333 0.00 0.00 37.21 3.46
133 134 9.193806 GCACATCCCCAATAATTAGAATATCAT 57.806 33.333 0.00 0.00 0.00 2.45
134 135 8.169393 TGCACATCCCCAATAATTAGAATATCA 58.831 33.333 0.00 0.00 0.00 2.15
135 136 8.579850 TGCACATCCCCAATAATTAGAATATC 57.420 34.615 0.00 0.00 0.00 1.63
136 137 8.954834 TTGCACATCCCCAATAATTAGAATAT 57.045 30.769 0.00 0.00 0.00 1.28
137 138 8.774546 TTTGCACATCCCCAATAATTAGAATA 57.225 30.769 0.00 0.00 0.00 1.75
138 139 7.673641 TTTGCACATCCCCAATAATTAGAAT 57.326 32.000 0.00 0.00 0.00 2.40
139 140 7.201992 GGATTTGCACATCCCCAATAATTAGAA 60.202 37.037 19.47 0.00 37.36 2.10
140 141 6.267471 GGATTTGCACATCCCCAATAATTAGA 59.733 38.462 19.47 0.00 37.36 2.10
141 142 6.458210 GGATTTGCACATCCCCAATAATTAG 58.542 40.000 19.47 0.00 37.36 1.73
142 143 6.418057 GGATTTGCACATCCCCAATAATTA 57.582 37.500 19.47 0.00 37.36 1.40
143 144 5.294734 GGATTTGCACATCCCCAATAATT 57.705 39.130 19.47 0.00 37.36 1.40
144 145 4.961438 GGATTTGCACATCCCCAATAAT 57.039 40.909 19.47 0.00 37.36 1.28
152 153 2.178580 TCAAAGGGGATTTGCACATCC 58.821 47.619 21.56 21.56 46.61 3.51
153 154 3.196254 ACATCAAAGGGGATTTGCACATC 59.804 43.478 4.16 4.16 46.61 3.06
154 155 3.175594 ACATCAAAGGGGATTTGCACAT 58.824 40.909 0.00 0.00 46.61 3.21
155 156 2.607499 ACATCAAAGGGGATTTGCACA 58.393 42.857 0.00 0.00 46.61 4.57
156 157 4.021544 TGTTACATCAAAGGGGATTTGCAC 60.022 41.667 0.00 0.00 46.61 4.57
157 158 4.155709 TGTTACATCAAAGGGGATTTGCA 58.844 39.130 0.00 0.00 46.61 4.08
158 159 4.799564 TGTTACATCAAAGGGGATTTGC 57.200 40.909 0.00 0.00 46.61 3.68
160 161 7.182060 ACACTATGTTACATCAAAGGGGATTT 58.818 34.615 0.00 0.00 0.00 2.17
161 162 6.731467 ACACTATGTTACATCAAAGGGGATT 58.269 36.000 0.00 0.00 0.00 3.01
162 163 6.327386 ACACTATGTTACATCAAAGGGGAT 57.673 37.500 0.00 0.00 0.00 3.85
163 164 5.772393 ACACTATGTTACATCAAAGGGGA 57.228 39.130 0.00 0.00 0.00 4.81
164 165 8.519799 AATAACACTATGTTACATCAAAGGGG 57.480 34.615 0.00 0.00 44.54 4.79
165 166 8.335356 CGAATAACACTATGTTACATCAAAGGG 58.665 37.037 0.00 0.00 44.54 3.95
166 167 9.093970 TCGAATAACACTATGTTACATCAAAGG 57.906 33.333 0.00 0.00 44.54 3.11
176 177 9.755064 CGAAGAAATTTCGAATAACACTATGTT 57.245 29.630 12.42 0.00 43.97 2.71
177 178 8.388103 CCGAAGAAATTTCGAATAACACTATGT 58.612 33.333 12.42 0.00 43.97 2.29
178 179 8.388103 ACCGAAGAAATTTCGAATAACACTATG 58.612 33.333 12.42 0.00 43.97 2.23
179 180 8.488651 ACCGAAGAAATTTCGAATAACACTAT 57.511 30.769 12.42 0.00 43.97 2.12
180 181 7.894376 ACCGAAGAAATTTCGAATAACACTA 57.106 32.000 12.42 0.00 43.97 2.74
181 182 6.796705 ACCGAAGAAATTTCGAATAACACT 57.203 33.333 12.42 0.00 43.97 3.55
182 183 6.522165 GGAACCGAAGAAATTTCGAATAACAC 59.478 38.462 12.42 3.17 43.97 3.32
183 184 6.205076 TGGAACCGAAGAAATTTCGAATAACA 59.795 34.615 12.42 4.41 43.97 2.41
184 185 6.604930 TGGAACCGAAGAAATTTCGAATAAC 58.395 36.000 12.42 3.74 43.97 1.89
185 186 6.804770 TGGAACCGAAGAAATTTCGAATAA 57.195 33.333 12.42 0.00 43.97 1.40
186 187 6.373216 ACATGGAACCGAAGAAATTTCGAATA 59.627 34.615 12.42 0.00 43.97 1.75
187 188 5.183140 ACATGGAACCGAAGAAATTTCGAAT 59.817 36.000 12.42 3.44 43.97 3.34
188 189 4.517453 ACATGGAACCGAAGAAATTTCGAA 59.483 37.500 12.42 0.00 43.97 3.71
189 190 4.069304 ACATGGAACCGAAGAAATTTCGA 58.931 39.130 12.42 0.00 43.97 3.71
190 191 4.419522 ACATGGAACCGAAGAAATTTCG 57.580 40.909 12.42 1.77 41.21 3.46
191 192 9.503427 CTAATAACATGGAACCGAAGAAATTTC 57.497 33.333 10.33 10.33 0.00 2.17
192 193 8.466798 CCTAATAACATGGAACCGAAGAAATTT 58.533 33.333 0.00 0.00 0.00 1.82
193 194 7.832187 TCCTAATAACATGGAACCGAAGAAATT 59.168 33.333 0.00 0.00 0.00 1.82
194 195 7.343357 TCCTAATAACATGGAACCGAAGAAAT 58.657 34.615 0.00 0.00 0.00 2.17
195 196 6.713276 TCCTAATAACATGGAACCGAAGAAA 58.287 36.000 0.00 0.00 0.00 2.52
196 197 6.302535 TCCTAATAACATGGAACCGAAGAA 57.697 37.500 0.00 0.00 0.00 2.52
197 198 5.943349 TCCTAATAACATGGAACCGAAGA 57.057 39.130 0.00 0.00 0.00 2.87
198 199 6.765989 TCATTCCTAATAACATGGAACCGAAG 59.234 38.462 0.00 0.00 41.87 3.79
199 200 6.654959 TCATTCCTAATAACATGGAACCGAA 58.345 36.000 0.00 0.00 41.87 4.30
200 201 6.126883 ACTCATTCCTAATAACATGGAACCGA 60.127 38.462 0.00 0.00 41.87 4.69
201 202 6.055588 ACTCATTCCTAATAACATGGAACCG 58.944 40.000 0.00 0.00 41.87 4.44
202 203 7.881775 AACTCATTCCTAATAACATGGAACC 57.118 36.000 0.00 0.00 41.87 3.62
203 204 8.739972 ACAAACTCATTCCTAATAACATGGAAC 58.260 33.333 0.00 0.00 41.87 3.62
204 205 8.877864 ACAAACTCATTCCTAATAACATGGAA 57.122 30.769 0.00 0.00 43.02 3.53
205 206 8.877864 AACAAACTCATTCCTAATAACATGGA 57.122 30.769 0.00 0.00 0.00 3.41
213 214 9.574516 AGTCTTGTTAACAAACTCATTCCTAAT 57.425 29.630 20.89 2.18 35.15 1.73
214 215 8.974060 AGTCTTGTTAACAAACTCATTCCTAA 57.026 30.769 20.89 0.00 35.15 2.69
215 216 8.836413 CAAGTCTTGTTAACAAACTCATTCCTA 58.164 33.333 23.92 3.39 35.15 2.94
216 217 7.556275 TCAAGTCTTGTTAACAAACTCATTCCT 59.444 33.333 23.92 12.76 35.15 3.36
217 218 7.703328 TCAAGTCTTGTTAACAAACTCATTCC 58.297 34.615 23.92 9.31 35.15 3.01
218 219 9.387123 GATCAAGTCTTGTTAACAAACTCATTC 57.613 33.333 23.92 18.75 35.15 2.67
219 220 8.902806 TGATCAAGTCTTGTTAACAAACTCATT 58.097 29.630 23.92 16.25 35.15 2.57
220 221 8.450578 TGATCAAGTCTTGTTAACAAACTCAT 57.549 30.769 23.92 20.18 35.15 2.90
221 222 7.857734 TGATCAAGTCTTGTTAACAAACTCA 57.142 32.000 23.92 18.29 35.15 3.41
222 223 7.644157 GGTTGATCAAGTCTTGTTAACAAACTC 59.356 37.037 23.92 16.71 35.15 3.01
223 224 7.339466 AGGTTGATCAAGTCTTGTTAACAAACT 59.661 33.333 20.89 20.82 35.15 2.66
224 225 7.480810 AGGTTGATCAAGTCTTGTTAACAAAC 58.519 34.615 20.89 19.29 35.15 2.93
225 226 7.639113 AGGTTGATCAAGTCTTGTTAACAAA 57.361 32.000 20.89 10.09 35.15 2.83
226 227 7.122055 ACAAGGTTGATCAAGTCTTGTTAACAA 59.878 33.333 31.18 19.53 40.14 2.83
227 228 6.601613 ACAAGGTTGATCAAGTCTTGTTAACA 59.398 34.615 31.18 3.59 40.14 2.41
228 229 7.027778 ACAAGGTTGATCAAGTCTTGTTAAC 57.972 36.000 31.18 12.52 40.14 2.01
229 230 7.639113 AACAAGGTTGATCAAGTCTTGTTAA 57.361 32.000 37.05 9.33 44.54 2.01
230 231 8.740123 TTAACAAGGTTGATCAAGTCTTGTTA 57.260 30.769 36.80 36.80 44.54 2.41
231 232 7.639113 TTAACAAGGTTGATCAAGTCTTGTT 57.361 32.000 38.00 38.00 46.05 2.83
232 233 7.255590 CCATTAACAAGGTTGATCAAGTCTTGT 60.256 37.037 31.18 31.18 42.44 3.16
233 234 7.040478 TCCATTAACAAGGTTGATCAAGTCTTG 60.040 37.037 30.33 30.33 38.06 3.02
234 235 7.004086 TCCATTAACAAGGTTGATCAAGTCTT 58.996 34.615 8.80 12.57 0.00 3.01
235 236 6.542821 TCCATTAACAAGGTTGATCAAGTCT 58.457 36.000 8.80 6.90 0.00 3.24
236 237 6.817765 TCCATTAACAAGGTTGATCAAGTC 57.182 37.500 8.80 4.50 0.00 3.01
237 238 7.605449 CAATCCATTAACAAGGTTGATCAAGT 58.395 34.615 8.80 0.00 0.00 3.16
238 239 6.532657 GCAATCCATTAACAAGGTTGATCAAG 59.467 38.462 8.80 0.00 0.00 3.02
239 240 6.211184 AGCAATCCATTAACAAGGTTGATCAA 59.789 34.615 3.38 3.38 0.00 2.57
240 241 5.716228 AGCAATCCATTAACAAGGTTGATCA 59.284 36.000 0.00 0.00 0.00 2.92
241 242 6.212888 AGCAATCCATTAACAAGGTTGATC 57.787 37.500 0.00 0.00 0.00 2.92
242 243 6.610075 AAGCAATCCATTAACAAGGTTGAT 57.390 33.333 0.00 0.00 0.00 2.57
243 244 6.418057 AAAGCAATCCATTAACAAGGTTGA 57.582 33.333 0.00 0.00 0.00 3.18
244 245 6.705381 TCAAAAGCAATCCATTAACAAGGTTG 59.295 34.615 0.00 0.00 0.00 3.77
245 246 6.825610 TCAAAAGCAATCCATTAACAAGGTT 58.174 32.000 0.00 0.00 0.00 3.50
246 247 6.418057 TCAAAAGCAATCCATTAACAAGGT 57.582 33.333 0.00 0.00 0.00 3.50
247 248 7.098477 TCATCAAAAGCAATCCATTAACAAGG 58.902 34.615 0.00 0.00 0.00 3.61
248 249 8.712285 ATCATCAAAAGCAATCCATTAACAAG 57.288 30.769 0.00 0.00 0.00 3.16
249 250 8.312564 TGATCATCAAAAGCAATCCATTAACAA 58.687 29.630 0.00 0.00 0.00 2.83
250 251 7.838884 TGATCATCAAAAGCAATCCATTAACA 58.161 30.769 0.00 0.00 0.00 2.41
251 252 8.761497 CATGATCATCAAAAGCAATCCATTAAC 58.239 33.333 4.86 0.00 0.00 2.01
252 253 7.929245 CCATGATCATCAAAAGCAATCCATTAA 59.071 33.333 4.86 0.00 0.00 1.40
253 254 7.288158 TCCATGATCATCAAAAGCAATCCATTA 59.712 33.333 4.86 0.00 0.00 1.90
254 255 6.099125 TCCATGATCATCAAAAGCAATCCATT 59.901 34.615 4.86 0.00 0.00 3.16
255 256 5.600898 TCCATGATCATCAAAAGCAATCCAT 59.399 36.000 4.86 0.00 0.00 3.41
256 257 4.957327 TCCATGATCATCAAAAGCAATCCA 59.043 37.500 4.86 0.00 0.00 3.41
257 258 5.068723 ACTCCATGATCATCAAAAGCAATCC 59.931 40.000 4.86 0.00 0.00 3.01
258 259 6.145338 ACTCCATGATCATCAAAAGCAATC 57.855 37.500 4.86 0.00 0.00 2.67
259 260 7.649533 TTACTCCATGATCATCAAAAGCAAT 57.350 32.000 4.86 0.00 0.00 3.56
260 261 7.465353 TTTACTCCATGATCATCAAAAGCAA 57.535 32.000 4.86 0.00 0.00 3.91
261 262 7.649533 ATTTACTCCATGATCATCAAAAGCA 57.350 32.000 4.86 0.00 0.00 3.91
262 263 7.806960 GCTATTTACTCCATGATCATCAAAAGC 59.193 37.037 4.86 8.89 0.00 3.51
263 264 8.843262 TGCTATTTACTCCATGATCATCAAAAG 58.157 33.333 4.86 3.66 0.00 2.27
264 265 8.750515 TGCTATTTACTCCATGATCATCAAAA 57.249 30.769 4.86 3.00 0.00 2.44
265 266 8.929260 ATGCTATTTACTCCATGATCATCAAA 57.071 30.769 4.86 2.33 0.00 2.69
270 271 9.851686 AGTTTTATGCTATTTACTCCATGATCA 57.148 29.630 0.00 0.00 0.00 2.92
273 274 9.555727 GGTAGTTTTATGCTATTTACTCCATGA 57.444 33.333 0.00 0.00 0.00 3.07
274 275 9.337396 TGGTAGTTTTATGCTATTTACTCCATG 57.663 33.333 0.00 0.00 0.00 3.66
275 276 9.338622 GTGGTAGTTTTATGCTATTTACTCCAT 57.661 33.333 0.00 0.00 0.00 3.41
349 350 4.336433 CCGACGAGAAAAGTGGTAGGTATA 59.664 45.833 0.00 0.00 0.00 1.47
552 559 1.570501 AGTGAGAGCAGAGAGAGGGAT 59.429 52.381 0.00 0.00 0.00 3.85
642 681 2.591429 CCACAGTGCAAGTCGCCA 60.591 61.111 0.00 0.00 41.33 5.69
761 801 4.219115 CCTAACCCTAGCTGAGAAGATCA 58.781 47.826 0.00 0.00 36.21 2.92
767 807 2.043939 TGAACCCTAACCCTAGCTGAGA 59.956 50.000 0.00 0.00 0.00 3.27
770 810 3.041946 AGATGAACCCTAACCCTAGCTG 58.958 50.000 0.00 0.00 0.00 4.24
805 845 4.065088 GCTCACCAAGATGAACACTAACA 58.935 43.478 0.00 0.00 0.00 2.41
961 1001 3.895656 TCACCTTAGCTCACACAACTAGT 59.104 43.478 0.00 0.00 0.00 2.57
964 1004 4.357918 AATCACCTTAGCTCACACAACT 57.642 40.909 0.00 0.00 0.00 3.16
1148 1190 2.233271 GGTACTATACCTGCGGCACTA 58.767 52.381 0.00 0.00 45.52 2.74
1191 1233 4.698304 CCTCGTAAATACATGTGTGGGTTT 59.302 41.667 9.11 4.69 0.00 3.27
1211 1253 7.498900 TCAACATAATATTGTGTGGTCATCCTC 59.501 37.037 17.35 0.00 32.63 3.71
1394 1484 7.228706 CCAACCTTCTTGTACAAGTACTTTCAT 59.771 37.037 29.83 11.27 39.38 2.57
1413 1503 7.466804 TCAAACTATATCTGAAACCCAACCTT 58.533 34.615 0.00 0.00 0.00 3.50
1568 1660 5.305585 CCACTCAGTAACACCACAGTTAAT 58.694 41.667 0.00 0.00 35.88 1.40
1921 2013 4.614535 GCTTGACTCTGTAAAATGCACCTG 60.615 45.833 0.00 0.00 0.00 4.00
1990 2082 8.995027 TCTCTATCTTAAGCAAATCTCTCTCT 57.005 34.615 0.00 0.00 0.00 3.10
2034 2126 1.063616 CATTCAGCAGCTCATTCACCG 59.936 52.381 0.00 0.00 0.00 4.94
2115 2207 1.800805 ACTTCACCATCTGCAGAACG 58.199 50.000 22.50 15.76 0.00 3.95
2164 2259 6.604795 CCCCATATCTTCACTTCAGATTGTTT 59.395 38.462 0.00 0.00 32.94 2.83
2175 2270 5.975988 AATGTACACCCCATATCTTCACT 57.024 39.130 0.00 0.00 0.00 3.41
2360 2457 6.992715 GGTTCAAATACATAGCATAGTCCAGT 59.007 38.462 0.00 0.00 0.00 4.00
2546 2663 3.142977 AGCTCTGGATCCATCTAGGGTTA 59.857 47.826 16.63 0.00 38.08 2.85
2608 2726 0.389817 TTTGCCTCCTCACATCGACG 60.390 55.000 0.00 0.00 0.00 5.12
2661 2788 0.671781 CTTGAACTCCAGCTCCCACG 60.672 60.000 0.00 0.00 0.00 4.94
2784 2911 1.070758 CGATTACTGCCTGTGCCCTAT 59.929 52.381 0.00 0.00 36.33 2.57
2884 3014 7.980662 CAGACTCTCATTCTGTCATTCATACTT 59.019 37.037 0.00 0.00 36.50 2.24
2886 3016 7.487484 TCAGACTCTCATTCTGTCATTCATAC 58.513 38.462 0.00 0.00 41.22 2.39
2889 3019 5.624052 GCTCAGACTCTCATTCTGTCATTCA 60.624 44.000 0.00 0.00 41.22 2.57
2890 3020 4.805192 GCTCAGACTCTCATTCTGTCATTC 59.195 45.833 0.00 0.00 41.22 2.67
2891 3021 4.467082 AGCTCAGACTCTCATTCTGTCATT 59.533 41.667 0.00 0.00 41.22 2.57
2892 3022 4.025360 AGCTCAGACTCTCATTCTGTCAT 58.975 43.478 0.00 0.00 41.22 3.06
2893 3023 3.429492 AGCTCAGACTCTCATTCTGTCA 58.571 45.455 0.00 0.00 41.22 3.58
2894 3024 5.067674 ACATAGCTCAGACTCTCATTCTGTC 59.932 44.000 0.00 0.00 41.22 3.51
2895 3025 4.955450 ACATAGCTCAGACTCTCATTCTGT 59.045 41.667 0.00 0.00 41.22 3.41
2896 3026 5.518848 ACATAGCTCAGACTCTCATTCTG 57.481 43.478 0.00 0.00 41.72 3.02
2897 3027 6.434028 GGATACATAGCTCAGACTCTCATTCT 59.566 42.308 0.00 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.