Multiple sequence alignment - TraesCS5B01G282000

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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 TraesCS5B01G282000 chr5B 100.000 3889 0 0 1 3889 466967304 466971192 0.000000e+00 7182.0
1 TraesCS5B01G282000 chr5B 95.794 2520 71 16 311 2820 466948965 466951459 0.000000e+00 4034.0
2 TraesCS5B01G282000 chr5B 93.871 310 18 1 1 310 555211525 555211833 2.120000e-127 466.0
3 TraesCS5B01G282000 chr5B 84.375 416 50 5 1000 1403 466781663 466782075 1.010000e-105 394.0
4 TraesCS5B01G282000 chr5A 91.274 2819 141 30 311 3080 491312645 491315407 0.000000e+00 3746.0
5 TraesCS5B01G282000 chr5A 84.130 523 35 20 2963 3444 491319698 491320213 2.740000e-126 462.0
6 TraesCS5B01G282000 chr5A 92.565 269 14 2 3438 3706 491321206 491321468 7.880000e-102 381.0
7 TraesCS5B01G282000 chr5A 86.027 365 15 13 532 861 491319265 491319628 3.690000e-95 359.0
8 TraesCS5B01G282000 chr5A 87.190 242 17 4 3176 3403 491315482 491315723 2.980000e-66 263.0
9 TraesCS5B01G282000 chr5A 93.605 172 11 0 3718 3889 491321585 491321756 1.390000e-64 257.0
10 TraesCS5B01G282000 chr5A 87.383 214 16 3 3677 3889 491321857 491322060 6.500000e-58 235.0
11 TraesCS5B01G282000 chr1D 94.078 2094 95 15 823 2908 378869243 378867171 0.000000e+00 3153.0
12 TraesCS5B01G282000 chr1D 86.842 494 21 15 2957 3406 378867170 378866677 2.680000e-141 512.0
13 TraesCS5B01G282000 chr1D 92.812 320 20 3 3401 3717 378866596 378866277 9.850000e-126 460.0
14 TraesCS5B01G282000 chr1D 95.376 173 7 1 3718 3889 378866115 378865943 1.380000e-69 274.0
15 TraesCS5B01G282000 chr5D 92.495 1559 79 20 1139 2684 388426200 388427733 0.000000e+00 2196.0
16 TraesCS5B01G282000 chr5D 88.446 727 40 14 3176 3887 388327807 388328504 0.000000e+00 837.0
17 TraesCS5B01G282000 chr5D 78.956 1169 163 49 1857 2984 388414735 388415861 0.000000e+00 719.0
18 TraesCS5B01G282000 chr5D 86.749 649 39 19 532 1143 388423605 388424243 0.000000e+00 678.0
19 TraesCS5B01G282000 chr5D 91.468 504 28 5 2671 3174 388430221 388430709 0.000000e+00 678.0
20 TraesCS5B01G282000 chr5D 92.874 435 30 1 3456 3889 388431170 388431604 7.090000e-177 630.0
21 TraesCS5B01G282000 chr5D 95.527 313 13 1 1 313 10502766 10503077 2.090000e-137 499.0
22 TraesCS5B01G282000 chr5D 83.777 413 44 12 997 1386 388104287 388104699 1.710000e-98 370.0
23 TraesCS5B01G282000 chr5D 87.279 283 15 6 2892 3174 388327514 388327775 1.760000e-78 303.0
24 TraesCS5B01G282000 chr5D 88.066 243 13 6 3176 3404 388430808 388431048 1.380000e-69 274.0
25 TraesCS5B01G282000 chr5D 85.542 249 35 1 1533 1781 388414348 388414595 3.850000e-65 259.0
26 TraesCS5B01G282000 chr5D 82.266 203 25 7 3589 3788 388416295 388416489 8.640000e-37 165.0
27 TraesCS5B01G282000 chr1B 94.277 1293 57 11 823 2109 507472912 507471631 0.000000e+00 1962.0
28 TraesCS5B01G282000 chr1B 90.414 1304 63 25 2151 3406 507471633 507470344 0.000000e+00 1659.0
29 TraesCS5B01G282000 chr1B 95.223 314 14 1 1 314 520830551 520830863 2.700000e-136 496.0
30 TraesCS5B01G282000 chr1B 93.810 210 12 1 3509 3717 507454674 507454465 8.110000e-82 315.0
31 TraesCS5B01G282000 chr1B 94.253 174 10 0 3715 3888 507451574 507451401 2.300000e-67 267.0
32 TraesCS5B01G282000 chr1B 91.453 117 7 2 3401 3514 507470267 507470151 1.450000e-34 158.0
33 TraesCS5B01G282000 chr6D 89.827 521 33 13 3176 3680 106954073 106954589 0.000000e+00 651.0
34 TraesCS5B01G282000 chr6D 92.205 449 29 4 2696 3144 106953558 106954000 7.090000e-177 630.0
35 TraesCS5B01G282000 chr6D 82.609 391 45 7 1002 1392 106953093 106953460 1.350000e-84 324.0
36 TraesCS5B01G282000 chr6D 92.523 214 14 2 3677 3889 106954628 106954840 4.880000e-79 305.0
37 TraesCS5B01G282000 chr6D 92.000 50 3 1 2985 3034 106954003 106954051 6.970000e-08 69.4
38 TraesCS5B01G282000 chr6A 88.910 523 34 14 3176 3680 130414921 130415437 1.190000e-174 623.0
39 TraesCS5B01G282000 chr6A 90.353 425 28 5 2727 3144 130414430 130414848 2.640000e-151 545.0
40 TraesCS5B01G282000 chr6A 92.056 214 15 2 3677 3889 130415476 130415688 2.270000e-77 300.0
41 TraesCS5B01G282000 chr6A 92.000 50 3 1 2985 3034 130414851 130414899 6.970000e-08 69.4
42 TraesCS5B01G282000 chr1A 88.525 488 37 10 823 1306 479711145 479710673 1.210000e-159 573.0
43 TraesCS5B01G282000 chr6B 97.125 313 8 1 1 313 113786075 113785764 9.570000e-146 527.0
44 TraesCS5B01G282000 chr4B 94.822 309 16 0 1 309 52568291 52568599 2.100000e-132 483.0
45 TraesCS5B01G282000 chr2B 94.175 309 18 0 1 309 542250917 542250609 4.550000e-129 472.0
46 TraesCS5B01G282000 chr2B 92.557 309 23 0 1 309 542236345 542236037 9.920000e-121 444.0
47 TraesCS5B01G282000 chr2A 91.613 310 23 3 1 309 84188632 84188939 3.590000e-115 425.0
48 TraesCS5B01G282000 chr3B 88.026 309 36 1 1 309 808919066 808919373 7.940000e-97 364.0


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 TraesCS5B01G282000 chr5B 466967304 466971192 3888 False 7182.000000 7182 100.000000 1 3889 1 chr5B.!!$F3 3888
1 TraesCS5B01G282000 chr5B 466948965 466951459 2494 False 4034.000000 4034 95.794000 311 2820 1 chr5B.!!$F2 2509
2 TraesCS5B01G282000 chr5A 491312645 491322060 9415 False 814.714286 3746 88.882000 311 3889 7 chr5A.!!$F1 3578
3 TraesCS5B01G282000 chr1D 378865943 378869243 3300 True 1099.750000 3153 92.277000 823 3889 4 chr1D.!!$R1 3066
4 TraesCS5B01G282000 chr5D 388423605 388431604 7999 False 891.200000 2196 90.330400 532 3889 5 chr5D.!!$F5 3357
5 TraesCS5B01G282000 chr5D 388327514 388328504 990 False 570.000000 837 87.862500 2892 3887 2 chr5D.!!$F3 995
6 TraesCS5B01G282000 chr5D 388414348 388416489 2141 False 381.000000 719 82.254667 1533 3788 3 chr5D.!!$F4 2255
7 TraesCS5B01G282000 chr1B 507470151 507472912 2761 True 1259.666667 1962 92.048000 823 3514 3 chr1B.!!$R2 2691
8 TraesCS5B01G282000 chr1B 507451401 507454674 3273 True 291.000000 315 94.031500 3509 3888 2 chr1B.!!$R1 379
9 TraesCS5B01G282000 chr6D 106953093 106954840 1747 False 395.880000 651 89.832800 1002 3889 5 chr6D.!!$F1 2887
10 TraesCS5B01G282000 chr6A 130414430 130415688 1258 False 384.350000 623 90.829750 2727 3889 4 chr6A.!!$F1 1162

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
303 304 0.114954 AGCTCCCAAATTTCCCTGCA 59.885 50.0 0.00 0.00 0.00 4.41 F
988 1029 0.604578 GTACAACCGTGCAGGGAGTA 59.395 55.0 31.22 25.89 46.96 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1961 4040 0.340208 AGAACTAGGGACTCCTGGGG 59.660 60.000 0.0 0.0 44.91 4.96 R
2922 7594 1.282157 GGCTTTACAGGACCAGGACAT 59.718 52.381 0.0 0.0 0.00 3.06 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 6.314784 GTGGTTTTCGAGTCTGATAATTTGG 58.685 40.000 0.00 0.00 0.00 3.28
25 26 6.148811 GTGGTTTTCGAGTCTGATAATTTGGA 59.851 38.462 0.00 0.00 0.00 3.53
26 27 6.371548 TGGTTTTCGAGTCTGATAATTTGGAG 59.628 38.462 0.00 0.00 0.00 3.86
27 28 6.594159 GGTTTTCGAGTCTGATAATTTGGAGA 59.406 38.462 0.00 0.00 0.00 3.71
28 29 7.281100 GGTTTTCGAGTCTGATAATTTGGAGAT 59.719 37.037 0.00 0.00 0.00 2.75
29 30 8.669243 GTTTTCGAGTCTGATAATTTGGAGATT 58.331 33.333 0.00 0.00 0.00 2.40
30 31 7.776933 TTCGAGTCTGATAATTTGGAGATTG 57.223 36.000 0.00 0.00 0.00 2.67
31 32 6.878317 TCGAGTCTGATAATTTGGAGATTGT 58.122 36.000 0.00 0.00 0.00 2.71
32 33 6.758416 TCGAGTCTGATAATTTGGAGATTGTG 59.242 38.462 0.00 0.00 0.00 3.33
33 34 6.758416 CGAGTCTGATAATTTGGAGATTGTGA 59.242 38.462 0.00 0.00 0.00 3.58
34 35 7.278646 CGAGTCTGATAATTTGGAGATTGTGAA 59.721 37.037 0.00 0.00 0.00 3.18
35 36 9.118300 GAGTCTGATAATTTGGAGATTGTGAAT 57.882 33.333 0.00 0.00 0.00 2.57
36 37 9.118300 AGTCTGATAATTTGGAGATTGTGAATC 57.882 33.333 0.00 0.00 38.20 2.52
49 50 6.146216 AGATTGTGAATCTCTAGAATACGCG 58.854 40.000 3.53 3.53 44.79 6.01
50 51 4.895224 TGTGAATCTCTAGAATACGCGT 57.105 40.909 19.17 19.17 0.00 6.01
51 52 4.845387 TGTGAATCTCTAGAATACGCGTC 58.155 43.478 18.63 0.16 0.00 5.19
52 53 4.334481 TGTGAATCTCTAGAATACGCGTCA 59.666 41.667 18.63 2.34 0.00 4.35
53 54 4.671516 GTGAATCTCTAGAATACGCGTCAC 59.328 45.833 18.63 9.23 0.00 3.67
54 55 4.334481 TGAATCTCTAGAATACGCGTCACA 59.666 41.667 18.63 0.00 0.00 3.58
55 56 4.895224 ATCTCTAGAATACGCGTCACAA 57.105 40.909 18.63 0.00 0.00 3.33
56 57 4.895224 TCTCTAGAATACGCGTCACAAT 57.105 40.909 18.63 0.00 0.00 2.71
57 58 4.598062 TCTCTAGAATACGCGTCACAATG 58.402 43.478 18.63 3.72 0.00 2.82
58 59 3.113322 TCTAGAATACGCGTCACAATGC 58.887 45.455 18.63 1.26 0.00 3.56
59 60 2.010145 AGAATACGCGTCACAATGCT 57.990 45.000 18.63 4.31 35.11 3.79
60 61 1.927174 AGAATACGCGTCACAATGCTC 59.073 47.619 18.63 0.00 35.11 4.26
61 62 0.645355 AATACGCGTCACAATGCTCG 59.355 50.000 18.63 0.00 35.11 5.03
62 63 0.457853 ATACGCGTCACAATGCTCGT 60.458 50.000 18.63 0.00 35.11 4.18
63 64 1.341369 TACGCGTCACAATGCTCGTG 61.341 55.000 18.63 0.00 39.24 4.35
64 65 2.202222 GCGTCACAATGCTCGTGC 60.202 61.111 1.71 1.71 40.20 5.34
65 66 2.094539 CGTCACAATGCTCGTGCG 59.905 61.111 4.84 0.00 43.34 5.34
66 67 2.476051 GTCACAATGCTCGTGCGG 59.524 61.111 4.84 0.00 43.34 5.69
67 68 2.030412 TCACAATGCTCGTGCGGT 59.970 55.556 4.84 0.38 43.34 5.68
68 69 2.027073 TCACAATGCTCGTGCGGTC 61.027 57.895 4.84 0.00 43.34 4.79
69 70 3.112075 ACAATGCTCGTGCGGTCG 61.112 61.111 4.84 0.00 43.34 4.79
70 71 3.112075 CAATGCTCGTGCGGTCGT 61.112 61.111 4.84 0.00 43.34 4.34
71 72 3.112075 AATGCTCGTGCGGTCGTG 61.112 61.111 4.84 0.00 43.34 4.35
81 82 3.900892 CGGTCGTGGCGCCTATCT 61.901 66.667 29.70 0.00 0.00 1.98
82 83 2.499685 GGTCGTGGCGCCTATCTT 59.500 61.111 29.70 0.00 0.00 2.40
83 84 1.883084 GGTCGTGGCGCCTATCTTG 60.883 63.158 29.70 10.72 0.00 3.02
84 85 1.883084 GTCGTGGCGCCTATCTTGG 60.883 63.158 29.70 8.67 0.00 3.61
96 97 4.550076 CCTATCTTGGCAGAGATTAGGG 57.450 50.000 14.42 11.44 37.54 3.53
97 98 4.163427 CCTATCTTGGCAGAGATTAGGGA 58.837 47.826 14.42 0.59 37.54 4.20
98 99 4.222588 CCTATCTTGGCAGAGATTAGGGAG 59.777 50.000 14.42 7.83 37.54 4.30
99 100 1.765314 TCTTGGCAGAGATTAGGGAGC 59.235 52.381 0.00 0.00 0.00 4.70
100 101 1.487976 CTTGGCAGAGATTAGGGAGCA 59.512 52.381 0.00 0.00 0.00 4.26
101 102 1.811778 TGGCAGAGATTAGGGAGCAT 58.188 50.000 0.00 0.00 0.00 3.79
102 103 1.419012 TGGCAGAGATTAGGGAGCATG 59.581 52.381 0.00 0.00 0.00 4.06
103 104 1.419387 GGCAGAGATTAGGGAGCATGT 59.581 52.381 0.00 0.00 0.00 3.21
104 105 2.549778 GGCAGAGATTAGGGAGCATGTC 60.550 54.545 0.00 0.00 0.00 3.06
105 106 2.103771 GCAGAGATTAGGGAGCATGTCA 59.896 50.000 0.00 0.00 0.00 3.58
106 107 3.244491 GCAGAGATTAGGGAGCATGTCAT 60.244 47.826 0.00 0.00 0.00 3.06
107 108 4.746089 GCAGAGATTAGGGAGCATGTCATT 60.746 45.833 0.00 0.00 0.00 2.57
108 109 5.374921 CAGAGATTAGGGAGCATGTCATTT 58.625 41.667 0.00 0.00 0.00 2.32
109 110 6.528321 CAGAGATTAGGGAGCATGTCATTTA 58.472 40.000 0.00 0.00 0.00 1.40
110 111 7.166851 CAGAGATTAGGGAGCATGTCATTTAT 58.833 38.462 0.00 0.00 0.00 1.40
111 112 7.664731 CAGAGATTAGGGAGCATGTCATTTATT 59.335 37.037 0.00 0.00 0.00 1.40
112 113 8.223330 AGAGATTAGGGAGCATGTCATTTATTT 58.777 33.333 0.00 0.00 0.00 1.40
113 114 8.773033 AGATTAGGGAGCATGTCATTTATTTT 57.227 30.769 0.00 0.00 0.00 1.82
114 115 9.866655 AGATTAGGGAGCATGTCATTTATTTTA 57.133 29.630 0.00 0.00 0.00 1.52
117 118 7.961326 AGGGAGCATGTCATTTATTTTAAGT 57.039 32.000 0.00 0.00 0.00 2.24
118 119 8.000780 AGGGAGCATGTCATTTATTTTAAGTC 57.999 34.615 0.00 0.00 0.00 3.01
119 120 7.836183 AGGGAGCATGTCATTTATTTTAAGTCT 59.164 33.333 0.00 0.00 0.00 3.24
120 121 8.470002 GGGAGCATGTCATTTATTTTAAGTCTT 58.530 33.333 0.00 0.00 0.00 3.01
121 122 9.860898 GGAGCATGTCATTTATTTTAAGTCTTT 57.139 29.630 0.00 0.00 0.00 2.52
135 136 8.555166 TTTTAAGTCTTTTGTAATTCAGCACG 57.445 30.769 0.00 0.00 0.00 5.34
136 137 5.751243 AAGTCTTTTGTAATTCAGCACGT 57.249 34.783 0.00 0.00 0.00 4.49
137 138 6.854496 AAGTCTTTTGTAATTCAGCACGTA 57.146 33.333 0.00 0.00 0.00 3.57
138 139 6.467723 AGTCTTTTGTAATTCAGCACGTAG 57.532 37.500 0.00 0.00 0.00 3.51
139 140 5.408604 AGTCTTTTGTAATTCAGCACGTAGG 59.591 40.000 0.00 0.00 0.00 3.18
140 141 4.693566 TCTTTTGTAATTCAGCACGTAGGG 59.306 41.667 0.00 0.00 0.00 3.53
141 142 3.965379 TTGTAATTCAGCACGTAGGGA 57.035 42.857 0.00 0.00 0.00 4.20
142 143 3.520290 TGTAATTCAGCACGTAGGGAG 57.480 47.619 0.00 0.00 0.00 4.30
143 144 3.093814 TGTAATTCAGCACGTAGGGAGA 58.906 45.455 0.00 0.00 0.00 3.71
144 145 3.704566 TGTAATTCAGCACGTAGGGAGAT 59.295 43.478 0.00 0.00 0.00 2.75
145 146 3.460857 AATTCAGCACGTAGGGAGATC 57.539 47.619 0.00 0.00 0.00 2.75
146 147 1.847328 TTCAGCACGTAGGGAGATCA 58.153 50.000 0.00 0.00 0.00 2.92
147 148 1.393603 TCAGCACGTAGGGAGATCAG 58.606 55.000 0.00 0.00 0.00 2.90
148 149 0.249238 CAGCACGTAGGGAGATCAGC 60.249 60.000 0.00 0.00 0.00 4.26
149 150 0.396417 AGCACGTAGGGAGATCAGCT 60.396 55.000 0.00 0.00 0.00 4.24
150 151 1.133761 AGCACGTAGGGAGATCAGCTA 60.134 52.381 0.00 0.00 0.00 3.32
151 152 1.681793 GCACGTAGGGAGATCAGCTAA 59.318 52.381 0.00 0.00 0.00 3.09
152 153 2.297597 GCACGTAGGGAGATCAGCTAAT 59.702 50.000 0.00 0.00 0.00 1.73
153 154 3.858877 GCACGTAGGGAGATCAGCTAATG 60.859 52.174 0.00 0.00 0.00 1.90
154 155 3.319405 CACGTAGGGAGATCAGCTAATGT 59.681 47.826 0.00 0.00 0.00 2.71
155 156 3.961408 ACGTAGGGAGATCAGCTAATGTT 59.039 43.478 0.00 0.00 0.00 2.71
156 157 4.406003 ACGTAGGGAGATCAGCTAATGTTT 59.594 41.667 0.00 0.00 0.00 2.83
157 158 4.985409 CGTAGGGAGATCAGCTAATGTTTC 59.015 45.833 0.00 0.00 0.00 2.78
158 159 4.065321 AGGGAGATCAGCTAATGTTTCG 57.935 45.455 0.00 0.00 0.00 3.46
159 160 3.134458 GGGAGATCAGCTAATGTTTCGG 58.866 50.000 0.00 0.00 0.00 4.30
160 161 2.545946 GGAGATCAGCTAATGTTTCGGC 59.454 50.000 0.00 0.00 0.00 5.54
161 162 3.462021 GAGATCAGCTAATGTTTCGGCT 58.538 45.455 0.00 0.00 35.23 5.52
162 163 3.462021 AGATCAGCTAATGTTTCGGCTC 58.538 45.455 0.00 0.00 32.30 4.70
163 164 2.760634 TCAGCTAATGTTTCGGCTCA 57.239 45.000 0.00 0.00 32.30 4.26
164 165 2.346803 TCAGCTAATGTTTCGGCTCAC 58.653 47.619 0.00 0.00 32.30 3.51
165 166 2.076100 CAGCTAATGTTTCGGCTCACA 58.924 47.619 0.00 0.00 32.30 3.58
166 167 2.679837 CAGCTAATGTTTCGGCTCACAT 59.320 45.455 0.00 0.00 35.00 3.21
167 168 3.127548 CAGCTAATGTTTCGGCTCACATT 59.872 43.478 9.74 9.74 44.18 2.71
168 169 3.758554 AGCTAATGTTTCGGCTCACATTT 59.241 39.130 10.01 0.00 40.05 2.32
169 170 3.853671 GCTAATGTTTCGGCTCACATTTG 59.146 43.478 10.01 9.46 40.05 2.32
170 171 4.615912 GCTAATGTTTCGGCTCACATTTGT 60.616 41.667 10.01 0.00 40.05 2.83
171 172 2.772568 TGTTTCGGCTCACATTTGTG 57.227 45.000 4.29 4.29 46.91 3.33
172 173 1.268999 TGTTTCGGCTCACATTTGTGC 60.269 47.619 5.81 0.00 45.25 4.57
173 174 1.001378 GTTTCGGCTCACATTTGTGCT 60.001 47.619 5.81 0.00 45.25 4.40
174 175 2.177394 TTCGGCTCACATTTGTGCTA 57.823 45.000 5.81 0.00 45.25 3.49
175 176 2.177394 TCGGCTCACATTTGTGCTAA 57.823 45.000 5.81 0.00 45.25 3.09
176 177 2.499197 TCGGCTCACATTTGTGCTAAA 58.501 42.857 5.81 0.00 45.25 1.85
177 178 2.225491 TCGGCTCACATTTGTGCTAAAC 59.775 45.455 5.81 0.00 45.25 2.01
178 179 2.031245 CGGCTCACATTTGTGCTAAACA 60.031 45.455 5.81 0.00 45.25 2.83
193 194 2.656947 AAACAAGCTAGCACCTTGGA 57.343 45.000 18.83 0.00 42.98 3.53
194 195 2.887151 AACAAGCTAGCACCTTGGAT 57.113 45.000 18.83 3.96 42.98 3.41
195 196 2.119801 ACAAGCTAGCACCTTGGATG 57.880 50.000 18.83 5.06 42.98 3.51
196 197 1.352352 ACAAGCTAGCACCTTGGATGT 59.648 47.619 18.83 5.67 42.98 3.06
197 198 2.571653 ACAAGCTAGCACCTTGGATGTA 59.428 45.455 18.83 0.00 42.98 2.29
198 199 3.009033 ACAAGCTAGCACCTTGGATGTAA 59.991 43.478 18.83 0.00 42.98 2.41
199 200 3.268023 AGCTAGCACCTTGGATGTAAC 57.732 47.619 18.83 0.00 0.00 2.50
200 201 2.092914 AGCTAGCACCTTGGATGTAACC 60.093 50.000 18.83 0.00 0.00 2.85
201 202 2.550978 CTAGCACCTTGGATGTAACCG 58.449 52.381 0.00 0.00 0.00 4.44
202 203 0.981183 AGCACCTTGGATGTAACCGA 59.019 50.000 0.00 0.00 0.00 4.69
203 204 1.349688 AGCACCTTGGATGTAACCGAA 59.650 47.619 0.00 0.00 0.00 4.30
204 205 2.026262 AGCACCTTGGATGTAACCGAAT 60.026 45.455 0.00 0.00 0.00 3.34
205 206 2.097466 GCACCTTGGATGTAACCGAATG 59.903 50.000 0.00 0.00 0.00 2.67
206 207 3.343617 CACCTTGGATGTAACCGAATGT 58.656 45.455 0.00 0.00 0.00 2.71
207 208 3.756434 CACCTTGGATGTAACCGAATGTT 59.244 43.478 0.00 0.00 41.11 2.71
208 209 3.756434 ACCTTGGATGTAACCGAATGTTG 59.244 43.478 0.00 0.00 37.83 3.33
209 210 3.128589 CCTTGGATGTAACCGAATGTTGG 59.871 47.826 0.00 0.00 37.83 3.77
210 211 3.704800 TGGATGTAACCGAATGTTGGA 57.295 42.857 0.00 0.00 37.83 3.53
211 212 4.229304 TGGATGTAACCGAATGTTGGAT 57.771 40.909 0.00 0.00 37.83 3.41
212 213 3.944650 TGGATGTAACCGAATGTTGGATG 59.055 43.478 0.00 0.00 37.83 3.51
213 214 3.315191 GGATGTAACCGAATGTTGGATGG 59.685 47.826 0.00 0.00 37.83 3.51
214 215 3.704800 TGTAACCGAATGTTGGATGGA 57.295 42.857 0.00 0.00 37.83 3.41
215 216 3.340034 TGTAACCGAATGTTGGATGGAC 58.660 45.455 0.00 0.00 37.83 4.02
216 217 2.879103 AACCGAATGTTGGATGGACT 57.121 45.000 0.00 0.00 35.31 3.85
217 218 2.403252 ACCGAATGTTGGATGGACTC 57.597 50.000 0.00 0.00 0.00 3.36
218 219 1.065418 ACCGAATGTTGGATGGACTCC 60.065 52.381 0.00 0.00 45.19 3.85
226 227 3.997672 GGATGGACTCCATTCCGAG 57.002 57.895 12.09 0.00 45.26 4.63
227 228 1.123928 GGATGGACTCCATTCCGAGT 58.876 55.000 12.09 0.00 45.26 4.18
234 235 3.601443 ACTCCATTCCGAGTCTTCTTG 57.399 47.619 0.00 0.00 38.83 3.02
235 236 2.900546 ACTCCATTCCGAGTCTTCTTGT 59.099 45.455 0.00 0.00 38.83 3.16
236 237 4.087182 ACTCCATTCCGAGTCTTCTTGTA 58.913 43.478 0.00 0.00 38.83 2.41
237 238 4.527038 ACTCCATTCCGAGTCTTCTTGTAA 59.473 41.667 0.00 0.00 38.83 2.41
238 239 4.817517 TCCATTCCGAGTCTTCTTGTAAC 58.182 43.478 0.00 0.00 0.00 2.50
239 240 3.933332 CCATTCCGAGTCTTCTTGTAACC 59.067 47.826 0.00 0.00 0.00 2.85
240 241 4.562757 CCATTCCGAGTCTTCTTGTAACCA 60.563 45.833 0.00 0.00 0.00 3.67
241 242 3.936372 TCCGAGTCTTCTTGTAACCAG 57.064 47.619 0.00 0.00 0.00 4.00
242 243 2.029290 TCCGAGTCTTCTTGTAACCAGC 60.029 50.000 0.00 0.00 0.00 4.85
243 244 2.338500 CGAGTCTTCTTGTAACCAGCC 58.662 52.381 0.00 0.00 0.00 4.85
244 245 2.028930 CGAGTCTTCTTGTAACCAGCCT 60.029 50.000 0.00 0.00 0.00 4.58
245 246 3.591023 GAGTCTTCTTGTAACCAGCCTC 58.409 50.000 0.00 0.00 0.00 4.70
246 247 3.243724 AGTCTTCTTGTAACCAGCCTCT 58.756 45.455 0.00 0.00 0.00 3.69
247 248 3.259625 AGTCTTCTTGTAACCAGCCTCTC 59.740 47.826 0.00 0.00 0.00 3.20
248 249 3.006967 GTCTTCTTGTAACCAGCCTCTCA 59.993 47.826 0.00 0.00 0.00 3.27
249 250 3.259374 TCTTCTTGTAACCAGCCTCTCAG 59.741 47.826 0.00 0.00 0.00 3.35
250 251 1.276421 TCTTGTAACCAGCCTCTCAGC 59.724 52.381 0.00 0.00 0.00 4.26
251 252 1.277557 CTTGTAACCAGCCTCTCAGCT 59.722 52.381 0.00 0.00 46.45 4.24
277 278 2.169832 GCTGGAGCTGTTAGTGTTGA 57.830 50.000 0.00 0.00 38.21 3.18
278 279 2.494059 GCTGGAGCTGTTAGTGTTGAA 58.506 47.619 0.00 0.00 38.21 2.69
279 280 3.077359 GCTGGAGCTGTTAGTGTTGAAT 58.923 45.455 0.00 0.00 38.21 2.57
280 281 4.253685 GCTGGAGCTGTTAGTGTTGAATA 58.746 43.478 0.00 0.00 38.21 1.75
281 282 4.695455 GCTGGAGCTGTTAGTGTTGAATAA 59.305 41.667 0.00 0.00 38.21 1.40
282 283 5.181245 GCTGGAGCTGTTAGTGTTGAATAAA 59.819 40.000 0.00 0.00 38.21 1.40
283 284 6.621596 GCTGGAGCTGTTAGTGTTGAATAAAG 60.622 42.308 0.00 0.00 38.21 1.85
284 285 6.530120 TGGAGCTGTTAGTGTTGAATAAAGA 58.470 36.000 0.00 0.00 0.00 2.52
285 286 6.650807 TGGAGCTGTTAGTGTTGAATAAAGAG 59.349 38.462 0.00 0.00 0.00 2.85
286 287 6.402658 GGAGCTGTTAGTGTTGAATAAAGAGC 60.403 42.308 0.00 0.00 0.00 4.09
287 288 6.234177 AGCTGTTAGTGTTGAATAAAGAGCT 58.766 36.000 0.00 0.00 30.04 4.09
288 289 6.370166 AGCTGTTAGTGTTGAATAAAGAGCTC 59.630 38.462 5.27 5.27 29.39 4.09
289 290 6.402658 GCTGTTAGTGTTGAATAAAGAGCTCC 60.403 42.308 10.93 0.00 0.00 4.70
290 291 5.938125 TGTTAGTGTTGAATAAAGAGCTCCC 59.062 40.000 10.93 0.00 0.00 4.30
291 292 4.640771 AGTGTTGAATAAAGAGCTCCCA 57.359 40.909 10.93 0.00 0.00 4.37
292 293 4.985538 AGTGTTGAATAAAGAGCTCCCAA 58.014 39.130 10.93 2.90 0.00 4.12
293 294 5.385198 AGTGTTGAATAAAGAGCTCCCAAA 58.615 37.500 10.93 0.00 0.00 3.28
294 295 6.012745 AGTGTTGAATAAAGAGCTCCCAAAT 58.987 36.000 10.93 0.00 0.00 2.32
295 296 6.494835 AGTGTTGAATAAAGAGCTCCCAAATT 59.505 34.615 10.93 5.52 0.00 1.82
296 297 7.015584 AGTGTTGAATAAAGAGCTCCCAAATTT 59.984 33.333 10.93 6.61 0.00 1.82
297 298 7.329471 GTGTTGAATAAAGAGCTCCCAAATTTC 59.671 37.037 10.93 7.35 0.00 2.17
298 299 6.530019 TGAATAAAGAGCTCCCAAATTTCC 57.470 37.500 10.93 0.00 0.00 3.13
299 300 5.422012 TGAATAAAGAGCTCCCAAATTTCCC 59.578 40.000 10.93 0.00 0.00 3.97
300 301 3.549898 AAAGAGCTCCCAAATTTCCCT 57.450 42.857 10.93 0.00 0.00 4.20
301 302 2.521547 AGAGCTCCCAAATTTCCCTG 57.478 50.000 10.93 0.00 0.00 4.45
302 303 0.820226 GAGCTCCCAAATTTCCCTGC 59.180 55.000 0.87 0.00 0.00 4.85
303 304 0.114954 AGCTCCCAAATTTCCCTGCA 59.885 50.000 0.00 0.00 0.00 4.41
304 305 0.975887 GCTCCCAAATTTCCCTGCAA 59.024 50.000 0.00 0.00 0.00 4.08
305 306 1.347378 GCTCCCAAATTTCCCTGCAAA 59.653 47.619 0.00 0.00 0.00 3.68
306 307 2.224499 GCTCCCAAATTTCCCTGCAAAA 60.224 45.455 0.00 0.00 0.00 2.44
307 308 3.747069 GCTCCCAAATTTCCCTGCAAAAA 60.747 43.478 0.00 0.00 0.00 1.94
412 413 7.698506 ACAATCATCAGTGTGATCTTCATTT 57.301 32.000 8.15 0.00 37.85 2.32
734 772 3.929610 GGCTTTTGTGCAGTGTTGTTTTA 59.070 39.130 0.00 0.00 34.04 1.52
988 1029 0.604578 GTACAACCGTGCAGGGAGTA 59.395 55.000 31.22 25.89 46.96 2.59
1092 1134 3.706373 GACGGGGAGGAGCAGCAA 61.706 66.667 0.00 0.00 0.00 3.91
1217 3225 5.477637 TGGATCGTTCATCGGGTTGTATATA 59.522 40.000 0.00 0.00 40.32 0.86
1506 3521 2.288579 ACCAGTGCAACATCATTGCTTG 60.289 45.455 12.44 10.29 45.13 4.01
1570 3585 3.470645 ACTCCGACTTGCAGTTTAAGT 57.529 42.857 0.00 0.00 40.84 2.24
1961 4040 8.021396 ACCAAATAGCAAATTTAAGAAGTCGTC 58.979 33.333 0.00 0.00 0.00 4.20
1979 4059 0.338814 TCCCCAGGAGTCCCTAGTTC 59.661 60.000 5.25 0.00 42.02 3.01
2205 4294 8.276252 TCTGAAACTTTGGTATATTTAGGCAC 57.724 34.615 0.00 0.00 0.00 5.01
2430 4526 5.524284 AGCATAGTTATAGTCAGCTGAACG 58.476 41.667 20.19 1.45 31.31 3.95
2431 4527 4.149046 GCATAGTTATAGTCAGCTGAACGC 59.851 45.833 20.19 6.32 39.57 4.84
2432 4528 3.166489 AGTTATAGTCAGCTGAACGCC 57.834 47.619 20.19 5.90 40.39 5.68
2433 4529 2.761208 AGTTATAGTCAGCTGAACGCCT 59.239 45.455 20.19 13.80 40.39 5.52
2434 4530 2.860735 GTTATAGTCAGCTGAACGCCTG 59.139 50.000 20.19 0.00 40.39 4.85
2435 4531 1.186200 ATAGTCAGCTGAACGCCTGA 58.814 50.000 20.19 0.00 40.39 3.86
2436 4532 0.966179 TAGTCAGCTGAACGCCTGAA 59.034 50.000 20.19 0.00 40.39 3.02
2437 4533 0.601311 AGTCAGCTGAACGCCTGAAC 60.601 55.000 20.19 2.84 40.39 3.18
2674 4797 7.980662 CACAATATATGAATTTGGGCTCAACAA 59.019 33.333 0.00 0.00 31.78 2.83
2830 7455 8.571336 CATTCCTCTTAAATTCTGTCAAGTTGT 58.429 33.333 2.11 0.00 0.00 3.32
2859 7484 1.620819 GTGTCAGCTTCCTCTCCTTCA 59.379 52.381 0.00 0.00 0.00 3.02
2883 7508 9.841295 TCAATAAAGTTACACTTCCTAGTTTGT 57.159 29.630 0.00 0.00 37.47 2.83
2922 7594 3.572255 AGGAATGGTTTTTAGCTTTCGCA 59.428 39.130 0.00 0.00 39.10 5.10
2945 7617 1.281867 TCCTGGTCCTGTAAAGCCATG 59.718 52.381 0.00 0.00 0.00 3.66
2953 7625 0.676466 TGTAAAGCCATGAGCCCACG 60.676 55.000 0.00 0.00 45.47 4.94
3124 12219 4.035091 GTGCAACAGGAAAATTTGGGTTTC 59.965 41.667 0.00 0.00 36.32 2.78
3144 12239 1.640069 CGACTGCGATGAATGCCAG 59.360 57.895 0.00 0.00 40.82 4.85
3147 12242 0.036105 ACTGCGATGAATGCCAGTCA 60.036 50.000 0.00 0.00 0.00 3.41
3218 12414 9.573133 CATGAGTATTATTTTTCCTTTGGTGAC 57.427 33.333 0.00 0.00 0.00 3.67
3285 12481 3.778954 AACTTCTAGCTGGAACTTGCT 57.221 42.857 8.66 0.00 40.99 3.91
3297 12504 6.070194 AGCTGGAACTTGCTACCTCTAAATTA 60.070 38.462 0.00 0.00 37.13 1.40
3536 13841 6.607004 ACCTGTAATGTTACTTCAGCTAGT 57.393 37.500 4.71 0.00 34.77 2.57
3584 13890 1.522569 CATCACTTCCCGAGGTCCC 59.477 63.158 0.00 0.00 0.00 4.46
3640 13946 6.806751 TCGATCTTGGTCTAAACTTCTATGG 58.193 40.000 0.00 0.00 0.00 2.74
3675 13982 8.522542 TTAGCCTGGAAAAACAAGTAAACTAA 57.477 30.769 0.00 0.00 0.00 2.24
3706 14097 7.874940 TGATTTCGATTGTCAGTTGAAAGAAT 58.125 30.769 14.15 1.12 33.68 2.40
3707 14098 8.352201 TGATTTCGATTGTCAGTTGAAAGAATT 58.648 29.630 14.15 0.83 33.68 2.17
3709 14100 8.925161 TTTCGATTGTCAGTTGAAAGAATTTT 57.075 26.923 6.65 0.00 39.27 1.82
3778 17065 4.154347 GAGAGCCTGGCCGGACAG 62.154 72.222 31.71 31.71 38.21 3.51
3810 17098 5.221601 TGCCATTAGCCTTGTCAAATTTCAA 60.222 36.000 0.00 0.00 42.71 2.69
3832 17424 5.924475 ACTTGAACAGGTTGAAATAGACG 57.076 39.130 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.148811 TCCAAATTATCAGACTCGAAAACCAC 59.851 38.462 0.00 0.00 0.00 4.16
1 2 6.234920 TCCAAATTATCAGACTCGAAAACCA 58.765 36.000 0.00 0.00 0.00 3.67
3 4 7.596749 TCTCCAAATTATCAGACTCGAAAAC 57.403 36.000 0.00 0.00 0.00 2.43
5 6 7.824289 ACAATCTCCAAATTATCAGACTCGAAA 59.176 33.333 0.00 0.00 0.00 3.46
6 7 7.278646 CACAATCTCCAAATTATCAGACTCGAA 59.721 37.037 0.00 0.00 0.00 3.71
7 8 6.758416 CACAATCTCCAAATTATCAGACTCGA 59.242 38.462 0.00 0.00 0.00 4.04
8 9 6.758416 TCACAATCTCCAAATTATCAGACTCG 59.242 38.462 0.00 0.00 0.00 4.18
9 10 8.498054 TTCACAATCTCCAAATTATCAGACTC 57.502 34.615 0.00 0.00 0.00 3.36
10 11 9.118300 GATTCACAATCTCCAAATTATCAGACT 57.882 33.333 0.00 0.00 35.02 3.24
11 12 9.118300 AGATTCACAATCTCCAAATTATCAGAC 57.882 33.333 0.00 0.00 44.79 3.51
26 27 5.915758 ACGCGTATTCTAGAGATTCACAATC 59.084 40.000 11.67 0.00 38.20 2.67
27 28 5.833082 ACGCGTATTCTAGAGATTCACAAT 58.167 37.500 11.67 0.00 0.00 2.71
28 29 5.163693 TGACGCGTATTCTAGAGATTCACAA 60.164 40.000 13.97 0.00 0.00 3.33
29 30 4.334481 TGACGCGTATTCTAGAGATTCACA 59.666 41.667 13.97 0.00 0.00 3.58
30 31 4.671516 GTGACGCGTATTCTAGAGATTCAC 59.328 45.833 13.97 7.48 0.00 3.18
31 32 4.334481 TGTGACGCGTATTCTAGAGATTCA 59.666 41.667 13.97 0.00 0.00 2.57
32 33 4.845387 TGTGACGCGTATTCTAGAGATTC 58.155 43.478 13.97 0.00 0.00 2.52
33 34 4.895224 TGTGACGCGTATTCTAGAGATT 57.105 40.909 13.97 0.00 0.00 2.40
34 35 4.895224 TTGTGACGCGTATTCTAGAGAT 57.105 40.909 13.97 0.00 0.00 2.75
35 36 4.598062 CATTGTGACGCGTATTCTAGAGA 58.402 43.478 13.97 0.00 0.00 3.10
36 37 3.180584 GCATTGTGACGCGTATTCTAGAG 59.819 47.826 13.97 0.00 0.00 2.43
37 38 3.113322 GCATTGTGACGCGTATTCTAGA 58.887 45.455 13.97 0.00 0.00 2.43
38 39 3.116300 AGCATTGTGACGCGTATTCTAG 58.884 45.455 13.97 2.37 0.00 2.43
39 40 3.113322 GAGCATTGTGACGCGTATTCTA 58.887 45.455 13.97 2.91 0.00 2.10
40 41 1.927174 GAGCATTGTGACGCGTATTCT 59.073 47.619 13.97 0.65 0.00 2.40
41 42 1.331161 CGAGCATTGTGACGCGTATTC 60.331 52.381 13.97 6.27 0.00 1.75
42 43 0.645355 CGAGCATTGTGACGCGTATT 59.355 50.000 13.97 0.00 0.00 1.89
43 44 0.457853 ACGAGCATTGTGACGCGTAT 60.458 50.000 13.97 0.00 0.00 3.06
44 45 1.081041 ACGAGCATTGTGACGCGTA 60.081 52.632 13.97 0.00 0.00 4.42
45 46 2.355837 ACGAGCATTGTGACGCGT 60.356 55.556 13.85 13.85 0.00 6.01
52 53 3.112075 CGACCGCACGAGCATTGT 61.112 61.111 5.50 0.00 42.27 2.71
53 54 3.112075 ACGACCGCACGAGCATTG 61.112 61.111 5.50 0.00 42.27 2.82
54 55 3.112075 CACGACCGCACGAGCATT 61.112 61.111 5.50 0.00 42.27 3.56
64 65 3.426117 AAGATAGGCGCCACGACCG 62.426 63.158 31.54 0.00 34.11 4.79
65 66 1.883084 CAAGATAGGCGCCACGACC 60.883 63.158 31.54 12.61 34.11 4.79
66 67 1.883084 CCAAGATAGGCGCCACGAC 60.883 63.158 31.54 16.55 33.59 4.34
67 68 2.499205 CCAAGATAGGCGCCACGA 59.501 61.111 31.54 14.28 0.00 4.35
68 69 3.272334 GCCAAGATAGGCGCCACG 61.272 66.667 31.54 9.49 46.12 4.94
75 76 4.163427 TCCCTAATCTCTGCCAAGATAGG 58.837 47.826 0.00 6.30 34.90 2.57
76 77 4.322650 GCTCCCTAATCTCTGCCAAGATAG 60.323 50.000 0.00 0.00 34.90 2.08
77 78 3.580458 GCTCCCTAATCTCTGCCAAGATA 59.420 47.826 0.00 0.00 34.90 1.98
78 79 2.371510 GCTCCCTAATCTCTGCCAAGAT 59.628 50.000 0.00 0.00 37.61 2.40
79 80 1.765314 GCTCCCTAATCTCTGCCAAGA 59.235 52.381 0.00 0.00 0.00 3.02
80 81 1.487976 TGCTCCCTAATCTCTGCCAAG 59.512 52.381 0.00 0.00 0.00 3.61
81 82 1.583556 TGCTCCCTAATCTCTGCCAA 58.416 50.000 0.00 0.00 0.00 4.52
82 83 1.419012 CATGCTCCCTAATCTCTGCCA 59.581 52.381 0.00 0.00 0.00 4.92
83 84 1.419387 ACATGCTCCCTAATCTCTGCC 59.581 52.381 0.00 0.00 0.00 4.85
84 85 2.103771 TGACATGCTCCCTAATCTCTGC 59.896 50.000 0.00 0.00 0.00 4.26
85 86 4.620589 ATGACATGCTCCCTAATCTCTG 57.379 45.455 0.00 0.00 0.00 3.35
86 87 5.643421 AAATGACATGCTCCCTAATCTCT 57.357 39.130 0.00 0.00 0.00 3.10
87 88 7.992754 AATAAATGACATGCTCCCTAATCTC 57.007 36.000 0.00 0.00 0.00 2.75
88 89 8.773033 AAAATAAATGACATGCTCCCTAATCT 57.227 30.769 0.00 0.00 0.00 2.40
91 92 9.474313 ACTTAAAATAAATGACATGCTCCCTAA 57.526 29.630 0.00 0.00 0.00 2.69
92 93 9.120538 GACTTAAAATAAATGACATGCTCCCTA 57.879 33.333 0.00 0.00 0.00 3.53
93 94 7.836183 AGACTTAAAATAAATGACATGCTCCCT 59.164 33.333 0.00 0.00 0.00 4.20
94 95 8.000780 AGACTTAAAATAAATGACATGCTCCC 57.999 34.615 0.00 0.00 0.00 4.30
95 96 9.860898 AAAGACTTAAAATAAATGACATGCTCC 57.139 29.630 0.00 0.00 0.00 4.70
109 110 9.180678 CGTGCTGAATTACAAAAGACTTAAAAT 57.819 29.630 0.00 0.00 0.00 1.82
110 111 8.185505 ACGTGCTGAATTACAAAAGACTTAAAA 58.814 29.630 0.00 0.00 0.00 1.52
111 112 7.699566 ACGTGCTGAATTACAAAAGACTTAAA 58.300 30.769 0.00 0.00 0.00 1.52
112 113 7.254227 ACGTGCTGAATTACAAAAGACTTAA 57.746 32.000 0.00 0.00 0.00 1.85
113 114 6.854496 ACGTGCTGAATTACAAAAGACTTA 57.146 33.333 0.00 0.00 0.00 2.24
114 115 5.751243 ACGTGCTGAATTACAAAAGACTT 57.249 34.783 0.00 0.00 0.00 3.01
115 116 5.408604 CCTACGTGCTGAATTACAAAAGACT 59.591 40.000 0.00 0.00 0.00 3.24
116 117 5.390567 CCCTACGTGCTGAATTACAAAAGAC 60.391 44.000 0.00 0.00 0.00 3.01
117 118 4.693566 CCCTACGTGCTGAATTACAAAAGA 59.306 41.667 0.00 0.00 0.00 2.52
118 119 4.693566 TCCCTACGTGCTGAATTACAAAAG 59.306 41.667 0.00 0.00 0.00 2.27
119 120 4.643463 TCCCTACGTGCTGAATTACAAAA 58.357 39.130 0.00 0.00 0.00 2.44
120 121 4.020928 TCTCCCTACGTGCTGAATTACAAA 60.021 41.667 0.00 0.00 0.00 2.83
121 122 3.512329 TCTCCCTACGTGCTGAATTACAA 59.488 43.478 0.00 0.00 0.00 2.41
122 123 3.093814 TCTCCCTACGTGCTGAATTACA 58.906 45.455 0.00 0.00 0.00 2.41
123 124 3.795623 TCTCCCTACGTGCTGAATTAC 57.204 47.619 0.00 0.00 0.00 1.89
124 125 3.958147 TGATCTCCCTACGTGCTGAATTA 59.042 43.478 0.00 0.00 0.00 1.40
125 126 2.766263 TGATCTCCCTACGTGCTGAATT 59.234 45.455 0.00 0.00 0.00 2.17
126 127 2.363680 CTGATCTCCCTACGTGCTGAAT 59.636 50.000 0.00 0.00 0.00 2.57
127 128 1.751351 CTGATCTCCCTACGTGCTGAA 59.249 52.381 0.00 0.00 0.00 3.02
128 129 1.393603 CTGATCTCCCTACGTGCTGA 58.606 55.000 0.00 0.00 0.00 4.26
129 130 0.249238 GCTGATCTCCCTACGTGCTG 60.249 60.000 0.00 0.00 0.00 4.41
130 131 0.396417 AGCTGATCTCCCTACGTGCT 60.396 55.000 0.00 0.00 0.00 4.40
131 132 1.319541 TAGCTGATCTCCCTACGTGC 58.680 55.000 0.00 0.00 0.00 5.34
132 133 3.319405 ACATTAGCTGATCTCCCTACGTG 59.681 47.826 0.00 0.00 0.00 4.49
133 134 3.567397 ACATTAGCTGATCTCCCTACGT 58.433 45.455 0.00 0.00 0.00 3.57
134 135 4.592485 AACATTAGCTGATCTCCCTACG 57.408 45.455 0.00 0.00 0.00 3.51
135 136 4.985409 CGAAACATTAGCTGATCTCCCTAC 59.015 45.833 0.00 0.00 0.00 3.18
136 137 4.039245 CCGAAACATTAGCTGATCTCCCTA 59.961 45.833 0.00 0.00 0.00 3.53
137 138 3.181461 CCGAAACATTAGCTGATCTCCCT 60.181 47.826 0.00 0.00 0.00 4.20
138 139 3.134458 CCGAAACATTAGCTGATCTCCC 58.866 50.000 0.00 0.00 0.00 4.30
139 140 2.545946 GCCGAAACATTAGCTGATCTCC 59.454 50.000 0.00 0.00 0.00 3.71
140 141 3.462021 AGCCGAAACATTAGCTGATCTC 58.538 45.455 0.00 0.00 33.41 2.75
141 142 3.118629 TGAGCCGAAACATTAGCTGATCT 60.119 43.478 0.00 0.00 35.23 2.75
142 143 3.001736 GTGAGCCGAAACATTAGCTGATC 59.998 47.826 0.00 0.00 35.23 2.92
143 144 2.939103 GTGAGCCGAAACATTAGCTGAT 59.061 45.455 0.00 0.00 35.23 2.90
144 145 2.289382 TGTGAGCCGAAACATTAGCTGA 60.289 45.455 0.00 0.00 35.23 4.26
145 146 2.076100 TGTGAGCCGAAACATTAGCTG 58.924 47.619 0.00 0.00 35.23 4.24
146 147 2.472695 TGTGAGCCGAAACATTAGCT 57.527 45.000 0.00 0.00 38.56 3.32
147 148 3.764885 AATGTGAGCCGAAACATTAGC 57.235 42.857 0.00 0.00 43.43 3.09
148 149 5.046910 ACAAATGTGAGCCGAAACATTAG 57.953 39.130 1.78 0.00 44.24 1.73
178 179 3.610911 GTTACATCCAAGGTGCTAGCTT 58.389 45.455 17.23 0.00 36.17 3.74
179 180 2.092914 GGTTACATCCAAGGTGCTAGCT 60.093 50.000 17.23 0.00 0.00 3.32
180 181 2.289565 GGTTACATCCAAGGTGCTAGC 58.710 52.381 8.10 8.10 0.00 3.42
181 182 2.167693 TCGGTTACATCCAAGGTGCTAG 59.832 50.000 0.00 0.00 0.00 3.42
182 183 2.181125 TCGGTTACATCCAAGGTGCTA 58.819 47.619 0.00 0.00 0.00 3.49
183 184 0.981183 TCGGTTACATCCAAGGTGCT 59.019 50.000 0.00 0.00 0.00 4.40
184 185 1.816074 TTCGGTTACATCCAAGGTGC 58.184 50.000 0.00 0.00 0.00 5.01
185 186 3.343617 ACATTCGGTTACATCCAAGGTG 58.656 45.455 0.00 0.00 0.00 4.00
186 187 3.713826 ACATTCGGTTACATCCAAGGT 57.286 42.857 0.00 0.00 0.00 3.50
187 188 3.128589 CCAACATTCGGTTACATCCAAGG 59.871 47.826 0.00 0.00 37.72 3.61
188 189 4.006989 TCCAACATTCGGTTACATCCAAG 58.993 43.478 0.00 0.00 37.72 3.61
189 190 4.022413 TCCAACATTCGGTTACATCCAA 57.978 40.909 0.00 0.00 37.72 3.53
190 191 3.704800 TCCAACATTCGGTTACATCCA 57.295 42.857 0.00 0.00 37.72 3.41
191 192 3.315191 CCATCCAACATTCGGTTACATCC 59.685 47.826 0.00 0.00 37.72 3.51
192 193 4.035208 GTCCATCCAACATTCGGTTACATC 59.965 45.833 0.00 0.00 37.72 3.06
193 194 3.945285 GTCCATCCAACATTCGGTTACAT 59.055 43.478 0.00 0.00 37.72 2.29
194 195 3.008594 AGTCCATCCAACATTCGGTTACA 59.991 43.478 0.00 0.00 37.72 2.41
195 196 3.606687 AGTCCATCCAACATTCGGTTAC 58.393 45.455 0.00 0.00 37.72 2.50
196 197 3.869065 GAGTCCATCCAACATTCGGTTA 58.131 45.455 0.00 0.00 37.72 2.85
197 198 2.711542 GAGTCCATCCAACATTCGGTT 58.288 47.619 0.00 0.00 41.47 4.44
198 199 2.403252 GAGTCCATCCAACATTCGGT 57.597 50.000 0.00 0.00 0.00 4.69
208 209 1.123928 ACTCGGAATGGAGTCCATCC 58.876 55.000 25.01 23.01 44.40 3.51
215 216 3.601443 ACAAGAAGACTCGGAATGGAG 57.399 47.619 0.00 0.00 39.97 3.86
216 217 4.322499 GGTTACAAGAAGACTCGGAATGGA 60.322 45.833 0.00 0.00 0.00 3.41
217 218 3.933332 GGTTACAAGAAGACTCGGAATGG 59.067 47.826 0.00 0.00 0.00 3.16
218 219 4.566004 TGGTTACAAGAAGACTCGGAATG 58.434 43.478 0.00 0.00 0.00 2.67
219 220 4.822026 CTGGTTACAAGAAGACTCGGAAT 58.178 43.478 0.00 0.00 0.00 3.01
220 221 3.554337 GCTGGTTACAAGAAGACTCGGAA 60.554 47.826 0.00 0.00 0.00 4.30
221 222 2.029290 GCTGGTTACAAGAAGACTCGGA 60.029 50.000 0.00 0.00 0.00 4.55
222 223 2.338500 GCTGGTTACAAGAAGACTCGG 58.662 52.381 0.00 0.00 0.00 4.63
223 224 2.028930 AGGCTGGTTACAAGAAGACTCG 60.029 50.000 0.00 0.00 0.00 4.18
224 225 3.259625 AGAGGCTGGTTACAAGAAGACTC 59.740 47.826 0.00 0.00 43.88 3.36
225 226 3.243724 AGAGGCTGGTTACAAGAAGACT 58.756 45.455 0.00 0.00 0.00 3.24
226 227 3.006967 TGAGAGGCTGGTTACAAGAAGAC 59.993 47.826 0.00 0.00 0.00 3.01
227 228 3.239449 TGAGAGGCTGGTTACAAGAAGA 58.761 45.455 0.00 0.00 0.00 2.87
228 229 3.594134 CTGAGAGGCTGGTTACAAGAAG 58.406 50.000 0.00 0.00 0.00 2.85
229 230 2.289694 GCTGAGAGGCTGGTTACAAGAA 60.290 50.000 0.00 0.00 0.00 2.52
230 231 1.276421 GCTGAGAGGCTGGTTACAAGA 59.724 52.381 0.00 0.00 0.00 3.02
231 232 1.277557 AGCTGAGAGGCTGGTTACAAG 59.722 52.381 0.00 0.00 41.43 3.16
232 233 1.352083 AGCTGAGAGGCTGGTTACAA 58.648 50.000 0.00 0.00 41.43 2.41
233 234 3.073228 AGCTGAGAGGCTGGTTACA 57.927 52.632 0.00 0.00 41.43 2.41
258 259 2.169832 TCAACACTAACAGCTCCAGC 57.830 50.000 0.00 0.00 42.49 4.85
259 260 6.650807 TCTTTATTCAACACTAACAGCTCCAG 59.349 38.462 0.00 0.00 0.00 3.86
260 261 6.530120 TCTTTATTCAACACTAACAGCTCCA 58.470 36.000 0.00 0.00 0.00 3.86
261 262 6.402658 GCTCTTTATTCAACACTAACAGCTCC 60.403 42.308 0.00 0.00 0.00 4.70
262 263 6.370166 AGCTCTTTATTCAACACTAACAGCTC 59.630 38.462 0.00 0.00 0.00 4.09
263 264 6.234177 AGCTCTTTATTCAACACTAACAGCT 58.766 36.000 0.00 0.00 0.00 4.24
264 265 6.402658 GGAGCTCTTTATTCAACACTAACAGC 60.403 42.308 14.64 0.00 0.00 4.40
265 266 6.092807 GGGAGCTCTTTATTCAACACTAACAG 59.907 42.308 14.64 0.00 0.00 3.16
266 267 5.938125 GGGAGCTCTTTATTCAACACTAACA 59.062 40.000 14.64 0.00 0.00 2.41
267 268 5.938125 TGGGAGCTCTTTATTCAACACTAAC 59.062 40.000 14.64 0.00 0.00 2.34
268 269 6.121776 TGGGAGCTCTTTATTCAACACTAA 57.878 37.500 14.64 0.00 0.00 2.24
269 270 5.755409 TGGGAGCTCTTTATTCAACACTA 57.245 39.130 14.64 0.00 0.00 2.74
270 271 4.640771 TGGGAGCTCTTTATTCAACACT 57.359 40.909 14.64 0.00 0.00 3.55
271 272 5.705609 TTTGGGAGCTCTTTATTCAACAC 57.294 39.130 14.64 0.00 0.00 3.32
272 273 6.916360 AATTTGGGAGCTCTTTATTCAACA 57.084 33.333 14.64 0.00 0.00 3.33
273 274 6.813649 GGAAATTTGGGAGCTCTTTATTCAAC 59.186 38.462 14.64 0.00 0.00 3.18
274 275 6.070824 GGGAAATTTGGGAGCTCTTTATTCAA 60.071 38.462 14.64 6.40 0.00 2.69
275 276 5.422012 GGGAAATTTGGGAGCTCTTTATTCA 59.578 40.000 14.64 0.45 0.00 2.57
276 277 5.658634 AGGGAAATTTGGGAGCTCTTTATTC 59.341 40.000 14.64 10.54 0.00 1.75
277 278 5.423290 CAGGGAAATTTGGGAGCTCTTTATT 59.577 40.000 14.64 5.95 0.00 1.40
278 279 4.958581 CAGGGAAATTTGGGAGCTCTTTAT 59.041 41.667 14.64 0.00 0.00 1.40
279 280 4.344104 CAGGGAAATTTGGGAGCTCTTTA 58.656 43.478 14.64 0.00 0.00 1.85
280 281 3.168292 CAGGGAAATTTGGGAGCTCTTT 58.832 45.455 14.64 5.60 0.00 2.52
281 282 2.812658 CAGGGAAATTTGGGAGCTCTT 58.187 47.619 14.64 0.00 0.00 2.85
282 283 1.618074 GCAGGGAAATTTGGGAGCTCT 60.618 52.381 14.64 0.00 0.00 4.09
283 284 0.820226 GCAGGGAAATTTGGGAGCTC 59.180 55.000 4.71 4.71 0.00 4.09
284 285 0.114954 TGCAGGGAAATTTGGGAGCT 59.885 50.000 0.00 0.00 0.00 4.09
285 286 0.975887 TTGCAGGGAAATTTGGGAGC 59.024 50.000 0.00 0.00 0.00 4.70
286 287 3.767902 TTTTGCAGGGAAATTTGGGAG 57.232 42.857 0.00 0.00 0.00 4.30
304 305 6.396829 AGCTAGAGCACACATTTTCTTTTT 57.603 33.333 4.01 0.00 45.16 1.94
305 306 5.048434 GGAGCTAGAGCACACATTTTCTTTT 60.048 40.000 4.01 0.00 45.16 2.27
306 307 4.457257 GGAGCTAGAGCACACATTTTCTTT 59.543 41.667 4.01 0.00 45.16 2.52
307 308 4.006319 GGAGCTAGAGCACACATTTTCTT 58.994 43.478 4.01 0.00 45.16 2.52
308 309 3.604582 GGAGCTAGAGCACACATTTTCT 58.395 45.455 4.01 0.00 45.16 2.52
309 310 2.680339 GGGAGCTAGAGCACACATTTTC 59.320 50.000 4.01 0.00 45.16 2.29
314 315 1.315981 CGAGGGAGCTAGAGCACACA 61.316 60.000 4.01 0.00 45.16 3.72
412 413 0.698818 GGGGAGGAGGAAAGAAAGCA 59.301 55.000 0.00 0.00 0.00 3.91
681 719 1.593006 GCTGTGACGATAAATCCACCG 59.407 52.381 0.00 0.00 0.00 4.94
988 1029 1.077501 CCGCCATGACCCATGAACT 60.078 57.895 8.38 0.00 43.81 3.01
1023 1064 2.190578 GCACATCCCCTTCTCCGG 59.809 66.667 0.00 0.00 0.00 5.14
1092 1134 1.068121 CCAAGAGGAAGGGGTTGAGT 58.932 55.000 0.00 0.00 36.89 3.41
1217 3225 1.227999 CGACGTTCCTGCACCACAAT 61.228 55.000 0.00 0.00 0.00 2.71
1570 3585 4.378356 GCGTAGTTTGATCATGCAACAAGA 60.378 41.667 10.56 0.00 0.00 3.02
1961 4040 0.340208 AGAACTAGGGACTCCTGGGG 59.660 60.000 0.00 0.00 44.91 4.96
1979 4059 8.091449 AGAGAAACCTTAACAGACATACAAGAG 58.909 37.037 0.00 0.00 0.00 2.85
2026 4111 2.795329 AGTTTCAAAGCGTGGATCCAT 58.205 42.857 19.62 0.00 0.00 3.41
2365 4454 7.338449 TCCATCACCTTTGTTATTAGGCTTAAC 59.662 37.037 0.00 0.00 34.79 2.01
2399 4491 9.132923 AGCTGACTATAACTATGCTTAGTAACA 57.867 33.333 12.28 2.66 37.70 2.41
2430 4526 1.597742 TTGCAAGACAGAGTTCAGGC 58.402 50.000 0.00 0.00 0.00 4.85
2431 4527 3.405831 TGATTGCAAGACAGAGTTCAGG 58.594 45.455 4.94 0.00 0.00 3.86
2432 4528 5.210715 GTTTGATTGCAAGACAGAGTTCAG 58.789 41.667 4.94 0.00 35.04 3.02
2433 4529 4.639755 TGTTTGATTGCAAGACAGAGTTCA 59.360 37.500 4.94 0.00 35.04 3.18
2434 4530 5.173774 TGTTTGATTGCAAGACAGAGTTC 57.826 39.130 4.94 0.00 35.04 3.01
2435 4531 5.779529 ATGTTTGATTGCAAGACAGAGTT 57.220 34.783 4.94 0.00 35.04 3.01
2436 4532 5.300034 TCAATGTTTGATTGCAAGACAGAGT 59.700 36.000 4.94 0.00 35.04 3.24
2437 4533 5.765176 TCAATGTTTGATTGCAAGACAGAG 58.235 37.500 4.94 4.68 35.04 3.35
2485 4595 3.118445 TGACAAGTCACAACTGATGGACA 60.118 43.478 0.00 0.00 35.36 4.02
2644 4767 7.724951 TGAGCCCAAATTCATATATTGTGATCA 59.275 33.333 0.00 0.00 0.00 2.92
2674 4797 7.599998 GCAGGTTGTATGAAATCAACTGAAAAT 59.400 33.333 7.72 0.00 42.15 1.82
2830 7455 1.448985 GAAGCTGACACGCCCATTAA 58.551 50.000 0.00 0.00 0.00 1.40
2883 7508 3.532641 TCCTGCAGCTATCTATCAGGA 57.467 47.619 8.66 10.86 43.20 3.86
2922 7594 1.282157 GGCTTTACAGGACCAGGACAT 59.718 52.381 0.00 0.00 0.00 3.06
2945 7617 2.512515 GATGCAGTCCGTGGGCTC 60.513 66.667 0.00 0.00 0.00 4.70
2953 7625 1.950828 CAGACATCCTGATGCAGTCC 58.049 55.000 7.04 0.00 45.78 3.85
3124 12219 2.537560 GGCATTCATCGCAGTCGGG 61.538 63.158 0.00 0.00 36.13 5.14
3144 12239 2.026822 TCAAGGCAGAGAGGGAAATGAC 60.027 50.000 0.00 0.00 0.00 3.06
3147 12242 1.563410 CCTCAAGGCAGAGAGGGAAAT 59.437 52.381 10.87 0.00 46.11 2.17
3218 12414 3.376234 ACCTCATGAAAATGATGCACTCG 59.624 43.478 0.00 0.00 0.00 4.18
3297 12504 8.000709 TGCAAATCTGATATACCTTCCTTTCAT 58.999 33.333 0.00 0.00 0.00 2.57
3536 13841 2.190313 GTGGAGATGCGGCATCCA 59.810 61.111 33.01 26.05 41.36 3.41
3640 13946 5.897377 TTTTCCAGGCTAATAAAGAGCAC 57.103 39.130 0.00 0.00 41.98 4.40
3675 13982 8.322906 TCAACTGACAATCGAAATCAAAGTAT 57.677 30.769 0.00 0.00 0.00 2.12
3778 17065 7.038154 TGACAAGGCTAATGGCAAATTATAC 57.962 36.000 0.00 0.00 44.01 1.47
3810 17098 5.607477 TCGTCTATTTCAACCTGTTCAAGT 58.393 37.500 0.00 0.00 0.00 3.16
3832 17424 2.354199 GCTGTAGCTCCTTGATTTGCTC 59.646 50.000 0.00 0.00 37.02 4.26


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

AutoCloner maintained by Alex Coulton.