Multiple sequence alignment - TraesCS3B01G465400

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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 TraesCS3B01G465400 chr3B 100.000 3617 0 0 1 3617 708368959 708365343 0.000000e+00 6680.0
1 TraesCS3B01G465400 chr3B 93.983 349 15 3 29 376 708383509 708383166 1.150000e-144 523.0
2 TraesCS3B01G465400 chr3B 77.806 392 79 8 1340 1728 708497501 708497887 6.040000e-58 235.0
3 TraesCS3B01G465400 chr3B 77.573 379 78 7 1340 1715 708503495 708503869 4.700000e-54 222.0
4 TraesCS3B01G465400 chr3B 77.461 386 76 10 1338 1718 708911489 708911110 1.690000e-53 220.0
5 TraesCS3B01G465400 chr3B 100.000 30 0 0 1 30 708383560 708383531 5.050000e-04 56.5
6 TraesCS3B01G465400 chr3D 87.124 2858 171 77 190 2960 536026627 536029374 0.000000e+00 3057.0
7 TraesCS3B01G465400 chr3D 89.507 629 56 7 2994 3617 536032807 536033430 0.000000e+00 787.0
8 TraesCS3B01G465400 chr3D 77.690 381 80 5 1340 1718 536338198 536337821 1.010000e-55 228.0
9 TraesCS3B01G465400 chr3D 76.000 325 64 8 1395 1715 536244043 536244357 4.840000e-34 156.0
10 TraesCS3B01G465400 chr3D 96.364 55 2 0 2994 3048 536032733 536032787 1.380000e-14 91.6
11 TraesCS3B01G465400 chr3D 92.857 56 2 2 113 168 536026472 536026525 2.990000e-11 80.5
12 TraesCS3B01G465400 chr3A 90.154 1300 59 26 593 1868 671698646 671697392 0.000000e+00 1628.0
13 TraesCS3B01G465400 chr3A 92.929 1089 56 9 1873 2960 671696323 671695255 0.000000e+00 1565.0
14 TraesCS3B01G465400 chr3A 91.901 568 36 6 2994 3558 671681668 671681108 0.000000e+00 785.0
15 TraesCS3B01G465400 chr3A 93.919 148 9 0 389 536 671698967 671698820 1.310000e-54 224.0
16 TraesCS3B01G465400 chr3A 77.215 395 83 7 1336 1728 671765582 671765193 1.310000e-54 224.0
17 TraesCS3B01G465400 chr3A 75.350 357 72 10 1364 1715 671722981 671723326 1.340000e-34 158.0
18 TraesCS3B01G465400 chr3A 87.597 129 13 3 2994 3119 671681718 671681590 2.910000e-31 147.0
19 TraesCS3B01G465400 chr4A 91.429 560 25 11 286 829 644121392 644121944 0.000000e+00 747.0
20 TraesCS3B01G465400 chr4A 91.429 560 25 11 286 829 644150410 644150962 0.000000e+00 747.0
21 TraesCS3B01G465400 chr4A 90.893 560 28 11 286 829 644053752 644054304 0.000000e+00 730.0
22 TraesCS3B01G465400 chr7D 77.524 307 54 12 3056 3353 501093396 501093096 1.730000e-38 171.0
23 TraesCS3B01G465400 chr7A 76.699 309 52 16 3056 3353 567581588 567581289 1.740000e-33 154.0
24 TraesCS3B01G465400 chrUn 84.921 126 16 2 3041 3163 103530926 103530801 1.360000e-24 124.0
25 TraesCS3B01G465400 chr7B 74.757 309 56 17 3058 3353 530377599 530377300 6.340000e-23 119.0
26 TraesCS3B01G465400 chr6B 80.745 161 24 6 3041 3197 54889653 54889496 6.340000e-23 119.0
27 TraesCS3B01G465400 chr5A 87.719 57 5 2 2460 2515 663415831 663415776 8.380000e-07 65.8
28 TraesCS3B01G465400 chr4D 87.719 57 5 2 2460 2515 483472755 483472700 8.380000e-07 65.8
29 TraesCS3B01G465400 chr4B 93.333 45 1 2 2460 2503 613701683 613701726 8.380000e-07 65.8


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 TraesCS3B01G465400 chr3B 708365343 708368959 3616 True 6680.000 6680 100.000 1 3617 1 chr3B.!!$R1 3616
1 TraesCS3B01G465400 chr3D 536026472 536033430 6958 False 1004.025 3057 91.463 113 3617 4 chr3D.!!$F2 3504
2 TraesCS3B01G465400 chr3A 671695255 671698967 3712 True 1139.000 1628 92.334 389 2960 3 chr3A.!!$R3 2571
3 TraesCS3B01G465400 chr3A 671681108 671681718 610 True 466.000 785 89.749 2994 3558 2 chr3A.!!$R2 564
4 TraesCS3B01G465400 chr4A 644121392 644121944 552 False 747.000 747 91.429 286 829 1 chr4A.!!$F2 543
5 TraesCS3B01G465400 chr4A 644150410 644150962 552 False 747.000 747 91.429 286 829 1 chr4A.!!$F3 543
6 TraesCS3B01G465400 chr4A 644053752 644054304 552 False 730.000 730 90.893 286 829 1 chr4A.!!$F1 543

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
81 82 0.107752 TGCACGCATCCAAGCTGATA 60.108 50.0 0.00 0.0 0.0 2.15 F
860 1109 0.250513 CAGTTTCCCTCCCCTTCTCG 59.749 60.0 0.00 0.0 0.0 4.04 F
2217 3556 0.098376 CGTCGGACTTCTACTTCGGG 59.902 60.0 6.57 0.0 0.0 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1180 1431 0.108615 CTCGTGTGGTTAGCCTCCTG 60.109 60.0 0.0 0.0 35.27 3.86 R
2508 3847 0.252057 TCATCAGGTTCCCGAGGTCA 60.252 55.0 0.0 0.0 0.00 4.02 R
3423 8173 0.616891 GAGTCGGCCCCCTTTCTTTA 59.383 55.0 0.0 0.0 0.00 1.85 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
22 23 5.688348 GTGAGACGTGTATGATTCAGTTC 57.312 43.478 0.00 0.00 0.00 3.01
23 24 5.161358 GTGAGACGTGTATGATTCAGTTCA 58.839 41.667 0.00 0.00 0.00 3.18
24 25 5.633601 GTGAGACGTGTATGATTCAGTTCAA 59.366 40.000 0.00 0.00 0.00 2.69
25 26 5.863935 TGAGACGTGTATGATTCAGTTCAAG 59.136 40.000 0.00 0.00 0.00 3.02
26 27 5.171476 AGACGTGTATGATTCAGTTCAAGG 58.829 41.667 0.00 0.00 0.00 3.61
27 28 4.253685 ACGTGTATGATTCAGTTCAAGGG 58.746 43.478 0.00 0.00 0.00 3.95
28 29 3.623060 CGTGTATGATTCAGTTCAAGGGG 59.377 47.826 0.00 0.00 0.00 4.79
29 30 3.378427 GTGTATGATTCAGTTCAAGGGGC 59.622 47.826 0.00 0.00 0.00 5.80
30 31 1.755179 ATGATTCAGTTCAAGGGGCG 58.245 50.000 0.00 0.00 0.00 6.13
31 32 0.960364 TGATTCAGTTCAAGGGGCGC 60.960 55.000 0.00 0.00 0.00 6.53
32 33 0.960364 GATTCAGTTCAAGGGGCGCA 60.960 55.000 10.83 0.00 0.00 6.09
33 34 0.539438 ATTCAGTTCAAGGGGCGCAA 60.539 50.000 10.83 0.00 0.00 4.85
34 35 0.539438 TTCAGTTCAAGGGGCGCAAT 60.539 50.000 10.83 0.00 0.00 3.56
35 36 0.326595 TCAGTTCAAGGGGCGCAATA 59.673 50.000 10.83 0.00 0.00 1.90
36 37 0.451783 CAGTTCAAGGGGCGCAATAC 59.548 55.000 10.83 0.00 0.00 1.89
37 38 0.328258 AGTTCAAGGGGCGCAATACT 59.672 50.000 10.83 0.00 0.00 2.12
38 39 1.557832 AGTTCAAGGGGCGCAATACTA 59.442 47.619 10.83 0.00 0.00 1.82
39 40 2.026636 AGTTCAAGGGGCGCAATACTAA 60.027 45.455 10.83 0.00 0.00 2.24
40 41 2.750712 GTTCAAGGGGCGCAATACTAAA 59.249 45.455 10.83 0.00 0.00 1.85
41 42 3.290948 TCAAGGGGCGCAATACTAAAT 57.709 42.857 10.83 0.00 0.00 1.40
42 43 3.626930 TCAAGGGGCGCAATACTAAATT 58.373 40.909 10.83 0.00 0.00 1.82
43 44 3.380004 TCAAGGGGCGCAATACTAAATTG 59.620 43.478 10.83 0.79 0.00 2.32
54 55 7.083875 GCAATACTAAATTGCCACTAGTTCA 57.916 36.000 10.83 0.00 46.21 3.18
55 56 7.535139 GCAATACTAAATTGCCACTAGTTCAA 58.465 34.615 10.83 9.10 46.21 2.69
56 57 7.484959 GCAATACTAAATTGCCACTAGTTCAAC 59.515 37.037 10.83 0.00 46.21 3.18
57 58 8.511321 CAATACTAAATTGCCACTAGTTCAACA 58.489 33.333 8.92 0.00 0.00 3.33
58 59 8.807948 ATACTAAATTGCCACTAGTTCAACAT 57.192 30.769 8.92 5.01 0.00 2.71
59 60 7.524717 ACTAAATTGCCACTAGTTCAACATT 57.475 32.000 8.92 9.59 0.00 2.71
60 61 8.630054 ACTAAATTGCCACTAGTTCAACATTA 57.370 30.769 8.92 10.05 0.00 1.90
61 62 9.243105 ACTAAATTGCCACTAGTTCAACATTAT 57.757 29.630 8.92 0.00 0.00 1.28
63 64 8.761575 AAATTGCCACTAGTTCAACATTATTG 57.238 30.769 8.92 0.00 0.00 1.90
64 65 5.309323 TGCCACTAGTTCAACATTATTGC 57.691 39.130 0.00 0.00 0.00 3.56
65 66 4.764308 TGCCACTAGTTCAACATTATTGCA 59.236 37.500 0.00 0.00 0.00 4.08
66 67 5.095490 GCCACTAGTTCAACATTATTGCAC 58.905 41.667 0.00 0.00 0.00 4.57
67 68 5.323900 CCACTAGTTCAACATTATTGCACG 58.676 41.667 0.00 0.00 0.00 5.34
68 69 4.788100 CACTAGTTCAACATTATTGCACGC 59.212 41.667 0.00 0.00 0.00 5.34
69 70 3.913548 AGTTCAACATTATTGCACGCA 57.086 38.095 0.00 0.00 0.00 5.24
70 71 4.439305 AGTTCAACATTATTGCACGCAT 57.561 36.364 0.00 0.00 0.00 4.73
71 72 4.414852 AGTTCAACATTATTGCACGCATC 58.585 39.130 0.00 0.00 0.00 3.91
72 73 3.419264 TCAACATTATTGCACGCATCC 57.581 42.857 0.00 0.00 0.00 3.51
73 74 2.751806 TCAACATTATTGCACGCATCCA 59.248 40.909 0.00 0.00 0.00 3.41
74 75 3.192212 TCAACATTATTGCACGCATCCAA 59.808 39.130 0.00 0.00 0.00 3.53
75 76 3.425577 ACATTATTGCACGCATCCAAG 57.574 42.857 0.00 0.00 0.00 3.61
76 77 2.121786 CATTATTGCACGCATCCAAGC 58.878 47.619 0.00 0.00 0.00 4.01
77 78 1.462616 TTATTGCACGCATCCAAGCT 58.537 45.000 0.00 0.00 0.00 3.74
78 79 0.734309 TATTGCACGCATCCAAGCTG 59.266 50.000 0.00 0.00 0.00 4.24
79 80 0.961857 ATTGCACGCATCCAAGCTGA 60.962 50.000 0.00 0.00 0.00 4.26
80 81 0.961857 TTGCACGCATCCAAGCTGAT 60.962 50.000 0.00 0.00 0.00 2.90
81 82 0.107752 TGCACGCATCCAAGCTGATA 60.108 50.000 0.00 0.00 0.00 2.15
82 83 1.233019 GCACGCATCCAAGCTGATAT 58.767 50.000 0.00 0.00 0.00 1.63
83 84 1.605710 GCACGCATCCAAGCTGATATT 59.394 47.619 0.00 0.00 0.00 1.28
84 85 2.350197 GCACGCATCCAAGCTGATATTC 60.350 50.000 0.00 0.00 0.00 1.75
85 86 3.136763 CACGCATCCAAGCTGATATTCT 58.863 45.455 0.00 0.00 0.00 2.40
86 87 3.186001 CACGCATCCAAGCTGATATTCTC 59.814 47.826 0.00 0.00 0.00 2.87
87 88 2.740981 CGCATCCAAGCTGATATTCTCC 59.259 50.000 0.00 0.00 0.00 3.71
88 89 3.556633 CGCATCCAAGCTGATATTCTCCT 60.557 47.826 0.00 0.00 0.00 3.69
89 90 4.396522 GCATCCAAGCTGATATTCTCCTT 58.603 43.478 0.00 0.00 0.00 3.36
90 91 4.455190 GCATCCAAGCTGATATTCTCCTTC 59.545 45.833 0.00 0.00 0.00 3.46
91 92 4.696479 TCCAAGCTGATATTCTCCTTCC 57.304 45.455 0.00 0.00 0.00 3.46
92 93 3.392616 TCCAAGCTGATATTCTCCTTCCC 59.607 47.826 0.00 0.00 0.00 3.97
93 94 3.137176 CCAAGCTGATATTCTCCTTCCCA 59.863 47.826 0.00 0.00 0.00 4.37
94 95 4.385643 CCAAGCTGATATTCTCCTTCCCAA 60.386 45.833 0.00 0.00 0.00 4.12
95 96 5.195940 CAAGCTGATATTCTCCTTCCCAAA 58.804 41.667 0.00 0.00 0.00 3.28
96 97 5.456921 AGCTGATATTCTCCTTCCCAAAA 57.543 39.130 0.00 0.00 0.00 2.44
97 98 5.831103 AGCTGATATTCTCCTTCCCAAAAA 58.169 37.500 0.00 0.00 0.00 1.94
146 147 4.748277 TCCAACTGCCTAATGTACTACC 57.252 45.455 0.00 0.00 0.00 3.18
158 159 7.107542 CCTAATGTACTACCACCAAGCTTAAA 58.892 38.462 0.00 0.00 0.00 1.52
160 161 9.174166 CTAATGTACTACCACCAAGCTTAAATT 57.826 33.333 0.00 0.00 0.00 1.82
161 162 7.625828 ATGTACTACCACCAAGCTTAAATTC 57.374 36.000 0.00 0.00 0.00 2.17
162 163 6.775708 TGTACTACCACCAAGCTTAAATTCT 58.224 36.000 0.00 0.00 0.00 2.40
163 164 7.228590 TGTACTACCACCAAGCTTAAATTCTT 58.771 34.615 0.00 0.00 0.00 2.52
164 165 6.819397 ACTACCACCAAGCTTAAATTCTTC 57.181 37.500 0.00 0.00 0.00 2.87
165 166 6.303839 ACTACCACCAAGCTTAAATTCTTCA 58.696 36.000 0.00 0.00 0.00 3.02
166 167 5.712152 ACCACCAAGCTTAAATTCTTCAG 57.288 39.130 0.00 0.00 0.00 3.02
167 168 5.140454 ACCACCAAGCTTAAATTCTTCAGT 58.860 37.500 0.00 0.00 0.00 3.41
168 169 6.303839 ACCACCAAGCTTAAATTCTTCAGTA 58.696 36.000 0.00 0.00 0.00 2.74
169 170 6.775629 ACCACCAAGCTTAAATTCTTCAGTAA 59.224 34.615 0.00 0.00 0.00 2.24
170 171 7.040409 ACCACCAAGCTTAAATTCTTCAGTAAG 60.040 37.037 0.00 0.00 0.00 2.34
181 182 6.597832 ATTCTTCAGTAAGCAGTCAGTACT 57.402 37.500 0.00 0.00 35.91 2.73
187 188 4.920340 CAGTAAGCAGTCAGTACTCAGTTG 59.080 45.833 0.00 0.00 31.97 3.16
188 189 4.585162 AGTAAGCAGTCAGTACTCAGTTGT 59.415 41.667 0.00 0.00 31.97 3.32
189 190 5.768662 AGTAAGCAGTCAGTACTCAGTTGTA 59.231 40.000 0.00 0.00 31.97 2.41
191 192 5.730296 AGCAGTCAGTACTCAGTTGTATT 57.270 39.130 0.00 0.00 31.97 1.89
192 193 6.835819 AGCAGTCAGTACTCAGTTGTATTA 57.164 37.500 0.00 0.00 31.97 0.98
194 195 7.841956 AGCAGTCAGTACTCAGTTGTATTATT 58.158 34.615 0.00 0.00 31.97 1.40
195 196 7.761704 AGCAGTCAGTACTCAGTTGTATTATTG 59.238 37.037 0.00 0.00 31.97 1.90
196 197 7.545965 GCAGTCAGTACTCAGTTGTATTATTGT 59.454 37.037 0.00 0.00 31.97 2.71
197 198 9.077674 CAGTCAGTACTCAGTTGTATTATTGTC 57.922 37.037 0.00 0.00 31.97 3.18
200 287 9.639601 TCAGTACTCAGTTGTATTATTGTCAAG 57.360 33.333 0.00 0.00 0.00 3.02
215 302 6.793492 ATTGTCAAGAACAGTAGAAGAAGC 57.207 37.500 0.00 0.00 39.58 3.86
253 350 1.033746 AATTGCAGGCCCGTCTCATG 61.034 55.000 0.00 0.00 0.00 3.07
268 365 3.084039 TCTCATGCGAAAGAGCCATTTT 58.916 40.909 0.00 0.00 36.02 1.82
279 376 4.510038 AGAGCCATTTTTACTGTGCTTG 57.490 40.909 0.00 0.00 0.00 4.01
311 408 1.900245 ACAGCTGCACATGTGAATGA 58.100 45.000 29.80 8.41 0.00 2.57
312 409 2.232399 ACAGCTGCACATGTGAATGAA 58.768 42.857 29.80 7.62 0.00 2.57
313 410 2.823747 ACAGCTGCACATGTGAATGAAT 59.176 40.909 29.80 7.11 0.00 2.57
314 411 3.179048 CAGCTGCACATGTGAATGAATG 58.821 45.455 29.80 14.48 0.00 2.67
376 475 1.134098 CCAGTGGTGAGTTTCTGGTGT 60.134 52.381 0.00 0.00 41.51 4.16
384 483 5.003804 GGTGAGTTTCTGGTGTCATGTATT 58.996 41.667 0.00 0.00 0.00 1.89
385 484 6.170506 GGTGAGTTTCTGGTGTCATGTATTA 58.829 40.000 0.00 0.00 0.00 0.98
386 485 6.823689 GGTGAGTTTCTGGTGTCATGTATTAT 59.176 38.462 0.00 0.00 0.00 1.28
488 587 3.726557 TGAAGGTTCCTGATTGAGCAT 57.273 42.857 0.00 0.00 0.00 3.79
860 1109 0.250513 CAGTTTCCCTCCCCTTCTCG 59.749 60.000 0.00 0.00 0.00 4.04
861 1110 1.078356 GTTTCCCTCCCCTTCTCGC 60.078 63.158 0.00 0.00 0.00 5.03
911 1162 0.526524 CTGCCGACGATCAGTTCTCC 60.527 60.000 0.00 0.00 0.00 3.71
938 1189 1.428448 CACTCCGCTTTTCGTCATCA 58.572 50.000 0.00 0.00 36.19 3.07
964 1215 1.185315 GTCTTCTCTCTGCTCCTGCT 58.815 55.000 0.00 0.00 40.48 4.24
978 1229 2.806856 CTGCTGGCGATTCTCGTGC 61.807 63.158 0.00 2.26 42.81 5.34
992 1243 3.333414 GTGCAGACACACACGCAT 58.667 55.556 0.00 0.00 46.61 4.73
993 1244 1.205064 GTGCAGACACACACGCATC 59.795 57.895 0.00 0.00 46.61 3.91
994 1245 2.309501 TGCAGACACACACGCATCG 61.310 57.895 0.00 0.00 0.00 3.84
997 1248 1.374631 AGACACACACGCATCGCAT 60.375 52.632 0.00 0.00 0.00 4.73
1104 1355 4.889112 TCCTCGGACGGGATCGGG 62.889 72.222 0.00 0.00 41.39 5.14
1157 1408 2.051518 TCAATGGAACCATGGCGGC 61.052 57.895 13.04 0.00 39.03 6.53
1263 1515 1.880027 CACAACACTAGCCAGGTTTCC 59.120 52.381 0.00 0.00 0.00 3.13
1296 1548 7.222805 TGCGATTCTTGCTAAGTTAGTTATCTG 59.777 37.037 11.51 5.92 0.00 2.90
1325 1587 8.862325 TTTTCCTTTAGCATCTCTGATGTTTA 57.138 30.769 8.98 0.00 0.00 2.01
1326 1588 8.862325 TTTCCTTTAGCATCTCTGATGTTTAA 57.138 30.769 8.98 3.38 0.00 1.52
1393 1655 2.970324 GTGGCGGACGAGCACAAA 60.970 61.111 0.00 0.00 39.27 2.83
1757 2022 2.976271 CACAGTTTGCCACTTTGCC 58.024 52.632 0.00 0.00 30.92 4.52
1758 2023 0.461135 CACAGTTTGCCACTTTGCCT 59.539 50.000 0.00 0.00 30.92 4.75
1759 2024 1.680735 CACAGTTTGCCACTTTGCCTA 59.319 47.619 0.00 0.00 30.92 3.93
1760 2025 2.100584 CACAGTTTGCCACTTTGCCTAA 59.899 45.455 0.00 0.00 30.92 2.69
1761 2026 2.763448 ACAGTTTGCCACTTTGCCTAAA 59.237 40.909 0.00 0.00 30.92 1.85
1762 2027 3.123050 CAGTTTGCCACTTTGCCTAAAC 58.877 45.455 0.00 0.00 30.92 2.01
1763 2028 2.763448 AGTTTGCCACTTTGCCTAAACA 59.237 40.909 0.00 0.00 32.17 2.83
1764 2029 3.196685 AGTTTGCCACTTTGCCTAAACAA 59.803 39.130 0.00 0.00 32.17 2.83
1765 2030 3.895232 TTGCCACTTTGCCTAAACAAA 57.105 38.095 0.00 0.00 37.20 2.83
1848 2123 1.348036 ACCCCTCTCACACTTGCTAAC 59.652 52.381 0.00 0.00 0.00 2.34
1887 3225 7.359347 GCTTATTAGCTTAGCATTTCGTACCTC 60.359 40.741 7.07 0.00 44.27 3.85
2078 3416 7.733773 TCTCAAACTTTCTGTATATCCTCCA 57.266 36.000 0.00 0.00 0.00 3.86
2079 3417 8.324191 TCTCAAACTTTCTGTATATCCTCCAT 57.676 34.615 0.00 0.00 0.00 3.41
2080 3418 8.772250 TCTCAAACTTTCTGTATATCCTCCATT 58.228 33.333 0.00 0.00 0.00 3.16
2217 3556 0.098376 CGTCGGACTTCTACTTCGGG 59.902 60.000 6.57 0.00 0.00 5.14
2508 3847 4.845580 CTCGCCGCCAAGCTCCAT 62.846 66.667 0.00 0.00 0.00 3.41
2540 3879 2.125512 GATGAAGGAGTGGCGCGT 60.126 61.111 8.43 0.00 0.00 6.01
2544 3883 1.153628 GAAGGAGTGGCGCGTGTAT 60.154 57.895 8.43 0.00 0.00 2.29
2632 3971 3.249320 CCACTGATGATTGGTTGATAGCG 59.751 47.826 0.00 0.00 0.00 4.26
2644 3991 3.559655 GGTTGATAGCGATGCACATGTAA 59.440 43.478 0.00 0.00 0.00 2.41
2656 4003 3.376859 TGCACATGTAATCGACCATTTCC 59.623 43.478 0.00 0.00 0.00 3.13
2657 4004 3.627577 GCACATGTAATCGACCATTTCCT 59.372 43.478 0.00 0.00 0.00 3.36
2719 4069 4.294416 AGATCGAGGTTTATGTCGTCAG 57.706 45.455 0.00 0.00 37.46 3.51
2722 4072 2.230508 TCGAGGTTTATGTCGTCAGCTT 59.769 45.455 0.00 0.00 37.46 3.74
2744 4094 3.882888 TGTAGTTTGCTCAGAAGGTTTGG 59.117 43.478 0.00 0.00 0.00 3.28
2758 4108 0.665835 GTTTGGGTGTTCATGTCGCA 59.334 50.000 0.00 0.00 0.00 5.10
2774 4124 3.103738 GTCGCATCATGAGAATGCAAAC 58.896 45.455 17.51 11.70 41.05 2.93
2779 4129 2.874014 TCATGAGAATGCAAACCCACA 58.126 42.857 0.00 0.00 0.00 4.17
2868 4218 1.590259 GAAGCTAGCCTTCCTCGCG 60.590 63.158 12.13 0.00 43.39 5.87
2963 7600 6.483640 AGAACAACAGTAACCTCAATCAACTC 59.516 38.462 0.00 0.00 0.00 3.01
2976 7613 2.542020 TCAACTCGTGAGGCAATTGA 57.458 45.000 10.34 0.00 0.00 2.57
3027 7702 6.074034 TGCATATTTTGGATGATACGTACGTG 60.074 38.462 30.25 8.93 0.00 4.49
3198 7946 7.820386 AGATATGTCACATACGGTTAAACAACA 59.180 33.333 0.00 0.00 0.00 3.33
3225 7973 5.682943 TCCATTTTAACCACTCGAAACAG 57.317 39.130 0.00 0.00 0.00 3.16
3241 7989 5.086058 CGAAACAGCTTAATTTGTGCGTAT 58.914 37.500 0.00 0.00 0.00 3.06
3242 7990 5.225129 CGAAACAGCTTAATTTGTGCGTATC 59.775 40.000 0.00 0.00 0.00 2.24
3340 8090 6.266558 TCCAACAATATGGTAAGCAAACAACT 59.733 34.615 0.00 0.00 41.46 3.16
3371 8121 5.652452 TGATTCTCGAGAATTCACACCTAGA 59.348 40.000 34.71 9.39 44.14 2.43
3383 8133 3.005472 TCACACCTAGAAACTGGTTCTCG 59.995 47.826 11.93 5.57 43.49 4.04
3409 8159 6.994496 GGAATCCATAGTCACAATGATTCTCA 59.006 38.462 0.00 0.00 0.00 3.27
3470 8220 7.728532 AGTTAGATTTTGGGTGATAGGTGTTTT 59.271 33.333 0.00 0.00 0.00 2.43
3471 8221 6.345096 AGATTTTGGGTGATAGGTGTTTTG 57.655 37.500 0.00 0.00 0.00 2.44
3473 8223 5.941555 TTTTGGGTGATAGGTGTTTTGTT 57.058 34.783 0.00 0.00 0.00 2.83
3482 8232 5.886474 TGATAGGTGTTTTGTTACAACCACA 59.114 36.000 20.98 14.17 36.36 4.17
3491 8241 4.967084 TGTTACAACCACAGTCCTACAT 57.033 40.909 0.00 0.00 0.00 2.29
3585 8335 1.235724 AAGGGAGCACAACTTTACGC 58.764 50.000 0.00 0.00 0.00 4.42
3587 8337 1.226030 GGGAGCACAACTTTACGCGT 61.226 55.000 19.17 19.17 0.00 6.01
3588 8338 0.110823 GGAGCACAACTTTACGCGTG 60.111 55.000 24.59 7.93 0.00 5.34
3591 8341 1.004292 AGCACAACTTTACGCGTGAAC 60.004 47.619 24.59 6.85 0.00 3.18
3597 8347 0.160182 CTTTACGCGTGAACGACACC 59.840 55.000 24.59 4.75 45.73 4.16
3598 8348 0.527169 TTTACGCGTGAACGACACCA 60.527 50.000 24.59 0.00 45.73 4.17
3604 8354 1.919839 GCGTGAACGACACCAAACATG 60.920 52.381 7.10 0.00 45.73 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.161358 TGAACTGAATCATACACGTCTCAC 58.839 41.667 0.00 0.00 0.00 3.51
1 2 5.385509 TGAACTGAATCATACACGTCTCA 57.614 39.130 0.00 0.00 0.00 3.27
2 3 5.289675 CCTTGAACTGAATCATACACGTCTC 59.710 44.000 0.00 0.00 0.00 3.36
3 4 5.171476 CCTTGAACTGAATCATACACGTCT 58.829 41.667 0.00 0.00 0.00 4.18
4 5 4.330074 CCCTTGAACTGAATCATACACGTC 59.670 45.833 0.00 0.00 0.00 4.34
5 6 4.253685 CCCTTGAACTGAATCATACACGT 58.746 43.478 0.00 0.00 0.00 4.49
6 7 3.623060 CCCCTTGAACTGAATCATACACG 59.377 47.826 0.00 0.00 0.00 4.49
7 8 3.378427 GCCCCTTGAACTGAATCATACAC 59.622 47.826 0.00 0.00 0.00 2.90
8 9 3.620488 GCCCCTTGAACTGAATCATACA 58.380 45.455 0.00 0.00 0.00 2.29
9 10 2.614057 CGCCCCTTGAACTGAATCATAC 59.386 50.000 0.00 0.00 0.00 2.39
10 11 2.917933 CGCCCCTTGAACTGAATCATA 58.082 47.619 0.00 0.00 0.00 2.15
11 12 1.755179 CGCCCCTTGAACTGAATCAT 58.245 50.000 0.00 0.00 0.00 2.45
12 13 0.960364 GCGCCCCTTGAACTGAATCA 60.960 55.000 0.00 0.00 0.00 2.57
13 14 0.960364 TGCGCCCCTTGAACTGAATC 60.960 55.000 4.18 0.00 0.00 2.52
14 15 0.539438 TTGCGCCCCTTGAACTGAAT 60.539 50.000 4.18 0.00 0.00 2.57
15 16 0.539438 ATTGCGCCCCTTGAACTGAA 60.539 50.000 4.18 0.00 0.00 3.02
16 17 0.326595 TATTGCGCCCCTTGAACTGA 59.673 50.000 4.18 0.00 0.00 3.41
17 18 0.451783 GTATTGCGCCCCTTGAACTG 59.548 55.000 4.18 0.00 0.00 3.16
18 19 0.328258 AGTATTGCGCCCCTTGAACT 59.672 50.000 4.18 0.00 0.00 3.01
19 20 2.032680 TAGTATTGCGCCCCTTGAAC 57.967 50.000 4.18 0.00 0.00 3.18
20 21 2.791347 TTAGTATTGCGCCCCTTGAA 57.209 45.000 4.18 0.00 0.00 2.69
21 22 2.791347 TTTAGTATTGCGCCCCTTGA 57.209 45.000 4.18 0.00 0.00 3.02
22 23 3.705604 CAATTTAGTATTGCGCCCCTTG 58.294 45.455 4.18 0.00 0.00 3.61
23 24 2.100749 GCAATTTAGTATTGCGCCCCTT 59.899 45.455 4.18 0.00 43.80 3.95
24 25 1.681264 GCAATTTAGTATTGCGCCCCT 59.319 47.619 4.18 0.00 43.80 4.79
25 26 2.134201 GCAATTTAGTATTGCGCCCC 57.866 50.000 4.18 0.00 43.80 5.80
31 32 8.511321 TGTTGAACTAGTGGCAATTTAGTATTG 58.489 33.333 12.81 0.00 0.00 1.90
32 33 8.630054 TGTTGAACTAGTGGCAATTTAGTATT 57.370 30.769 12.81 0.00 0.00 1.89
33 34 8.807948 ATGTTGAACTAGTGGCAATTTAGTAT 57.192 30.769 12.81 0.00 0.00 2.12
34 35 8.630054 AATGTTGAACTAGTGGCAATTTAGTA 57.370 30.769 12.81 0.00 0.00 1.82
35 36 7.524717 AATGTTGAACTAGTGGCAATTTAGT 57.475 32.000 12.81 0.00 0.00 2.24
37 38 9.853555 CAATAATGTTGAACTAGTGGCAATTTA 57.146 29.630 12.81 13.16 0.00 1.40
38 39 7.331687 GCAATAATGTTGAACTAGTGGCAATTT 59.668 33.333 12.81 11.91 0.00 1.82
39 40 6.813152 GCAATAATGTTGAACTAGTGGCAATT 59.187 34.615 12.81 8.11 0.00 2.32
40 41 6.071447 TGCAATAATGTTGAACTAGTGGCAAT 60.071 34.615 12.81 0.00 0.00 3.56
41 42 5.242615 TGCAATAATGTTGAACTAGTGGCAA 59.757 36.000 0.00 1.39 0.00 4.52
42 43 4.764308 TGCAATAATGTTGAACTAGTGGCA 59.236 37.500 0.00 0.00 0.00 4.92
43 44 5.095490 GTGCAATAATGTTGAACTAGTGGC 58.905 41.667 0.00 0.00 0.00 5.01
44 45 5.323900 CGTGCAATAATGTTGAACTAGTGG 58.676 41.667 0.00 0.00 0.00 4.00
45 46 4.788100 GCGTGCAATAATGTTGAACTAGTG 59.212 41.667 0.00 0.00 0.00 2.74
46 47 4.454161 TGCGTGCAATAATGTTGAACTAGT 59.546 37.500 0.00 0.00 0.00 2.57
47 48 4.968626 TGCGTGCAATAATGTTGAACTAG 58.031 39.130 0.00 0.00 0.00 2.57
48 49 5.448496 GGATGCGTGCAATAATGTTGAACTA 60.448 40.000 0.00 0.00 0.00 2.24
49 50 3.913548 TGCGTGCAATAATGTTGAACT 57.086 38.095 0.00 0.00 0.00 3.01
50 51 3.547468 GGATGCGTGCAATAATGTTGAAC 59.453 43.478 0.00 0.00 0.00 3.18
51 52 3.192212 TGGATGCGTGCAATAATGTTGAA 59.808 39.130 0.00 0.00 0.00 2.69
52 53 2.751806 TGGATGCGTGCAATAATGTTGA 59.248 40.909 0.00 0.00 0.00 3.18
53 54 3.148026 TGGATGCGTGCAATAATGTTG 57.852 42.857 0.00 0.00 0.00 3.33
54 55 3.772932 CTTGGATGCGTGCAATAATGTT 58.227 40.909 13.64 0.00 35.02 2.71
55 56 2.480073 GCTTGGATGCGTGCAATAATGT 60.480 45.455 13.64 0.00 35.02 2.71
56 57 2.121786 GCTTGGATGCGTGCAATAATG 58.878 47.619 13.64 3.16 35.02 1.90
57 58 2.026641 AGCTTGGATGCGTGCAATAAT 58.973 42.857 13.64 0.00 35.02 1.28
58 59 1.132834 CAGCTTGGATGCGTGCAATAA 59.867 47.619 13.64 0.00 35.02 1.40
59 60 0.734309 CAGCTTGGATGCGTGCAATA 59.266 50.000 13.64 0.00 35.02 1.90
60 61 0.961857 TCAGCTTGGATGCGTGCAAT 60.962 50.000 13.64 0.00 35.02 3.56
61 62 0.961857 ATCAGCTTGGATGCGTGCAA 60.962 50.000 12.62 12.62 38.13 4.08
62 63 0.107752 TATCAGCTTGGATGCGTGCA 60.108 50.000 0.00 0.00 38.13 4.57
63 64 1.233019 ATATCAGCTTGGATGCGTGC 58.767 50.000 0.00 0.00 38.13 5.34
64 65 3.136763 AGAATATCAGCTTGGATGCGTG 58.863 45.455 0.00 0.00 38.13 5.34
65 66 3.397482 GAGAATATCAGCTTGGATGCGT 58.603 45.455 0.00 0.00 38.13 5.24
66 67 2.740981 GGAGAATATCAGCTTGGATGCG 59.259 50.000 0.00 0.00 38.13 4.73
67 68 4.018484 AGGAGAATATCAGCTTGGATGC 57.982 45.455 0.00 0.00 0.00 3.91
68 69 5.002516 GGAAGGAGAATATCAGCTTGGATG 58.997 45.833 0.00 0.00 0.00 3.51
69 70 4.042684 GGGAAGGAGAATATCAGCTTGGAT 59.957 45.833 0.00 0.00 0.00 3.41
70 71 3.392616 GGGAAGGAGAATATCAGCTTGGA 59.607 47.826 0.00 0.00 0.00 3.53
71 72 3.137176 TGGGAAGGAGAATATCAGCTTGG 59.863 47.826 0.00 0.00 0.00 3.61
72 73 4.428294 TGGGAAGGAGAATATCAGCTTG 57.572 45.455 0.00 0.00 0.00 4.01
73 74 5.456921 TTTGGGAAGGAGAATATCAGCTT 57.543 39.130 0.00 0.00 0.00 3.74
74 75 5.456921 TTTTGGGAAGGAGAATATCAGCT 57.543 39.130 0.00 0.00 0.00 4.24
108 109 1.090052 GGATCTCTTGCCCCGTTTCG 61.090 60.000 0.00 0.00 0.00 3.46
109 110 0.035439 TGGATCTCTTGCCCCGTTTC 60.035 55.000 0.00 0.00 0.00 2.78
110 111 0.404040 TTGGATCTCTTGCCCCGTTT 59.596 50.000 0.00 0.00 0.00 3.60
111 112 0.322546 GTTGGATCTCTTGCCCCGTT 60.323 55.000 0.00 0.00 0.00 4.44
112 113 1.201429 AGTTGGATCTCTTGCCCCGT 61.201 55.000 0.00 0.00 0.00 5.28
113 114 0.745845 CAGTTGGATCTCTTGCCCCG 60.746 60.000 0.00 0.00 0.00 5.73
114 115 1.034292 GCAGTTGGATCTCTTGCCCC 61.034 60.000 0.00 0.00 0.00 5.80
146 147 6.803807 GCTTACTGAAGAATTTAAGCTTGGTG 59.196 38.462 9.86 0.00 42.06 4.17
158 159 6.209589 TGAGTACTGACTGCTTACTGAAGAAT 59.790 38.462 0.00 0.00 35.45 2.40
160 161 5.070685 TGAGTACTGACTGCTTACTGAAGA 58.929 41.667 0.00 0.00 35.45 2.87
161 162 5.048364 ACTGAGTACTGACTGCTTACTGAAG 60.048 44.000 0.00 0.00 35.45 3.02
162 163 4.827835 ACTGAGTACTGACTGCTTACTGAA 59.172 41.667 0.00 0.00 35.45 3.02
163 164 4.399219 ACTGAGTACTGACTGCTTACTGA 58.601 43.478 0.00 0.00 35.45 3.41
164 165 4.775058 ACTGAGTACTGACTGCTTACTG 57.225 45.455 0.00 0.00 35.45 2.74
165 166 4.585162 ACAACTGAGTACTGACTGCTTACT 59.415 41.667 0.00 0.00 35.45 2.24
166 167 4.872664 ACAACTGAGTACTGACTGCTTAC 58.127 43.478 0.00 0.00 35.45 2.34
167 168 6.835819 ATACAACTGAGTACTGACTGCTTA 57.164 37.500 0.00 0.00 35.45 3.09
168 169 5.730296 ATACAACTGAGTACTGACTGCTT 57.270 39.130 0.00 0.00 35.45 3.91
169 170 5.730296 AATACAACTGAGTACTGACTGCT 57.270 39.130 0.00 0.00 35.45 4.24
170 171 7.545965 ACAATAATACAACTGAGTACTGACTGC 59.454 37.037 0.00 0.00 35.45 4.40
181 182 8.902540 ACTGTTCTTGACAATAATACAACTGA 57.097 30.769 0.00 0.00 37.93 3.41
189 190 8.940952 GCTTCTTCTACTGTTCTTGACAATAAT 58.059 33.333 0.00 0.00 37.93 1.28
191 192 7.441836 TGCTTCTTCTACTGTTCTTGACAATA 58.558 34.615 0.00 0.00 37.93 1.90
192 193 6.291377 TGCTTCTTCTACTGTTCTTGACAAT 58.709 36.000 0.00 0.00 37.93 2.71
194 195 5.276461 TGCTTCTTCTACTGTTCTTGACA 57.724 39.130 0.00 0.00 36.65 3.58
195 196 4.151512 GCTGCTTCTTCTACTGTTCTTGAC 59.848 45.833 0.00 0.00 0.00 3.18
196 197 4.202253 TGCTGCTTCTTCTACTGTTCTTGA 60.202 41.667 0.00 0.00 0.00 3.02
197 198 4.060900 TGCTGCTTCTTCTACTGTTCTTG 58.939 43.478 0.00 0.00 0.00 3.02
200 287 2.414825 GCTGCTGCTTCTTCTACTGTTC 59.585 50.000 8.53 0.00 36.03 3.18
233 330 0.749454 ATGAGACGGGCCTGCAATTC 60.749 55.000 12.89 0.83 0.00 2.17
253 350 3.914364 CACAGTAAAAATGGCTCTTTCGC 59.086 43.478 0.00 0.00 0.00 4.70
279 376 2.056577 GCAGCTGTTCATTCTTTGTGC 58.943 47.619 16.64 0.00 0.00 4.57
311 408 1.077212 AGCTGCGCATTCCTCCATT 60.077 52.632 12.24 0.00 0.00 3.16
312 409 1.822613 CAGCTGCGCATTCCTCCAT 60.823 57.895 12.24 0.00 0.00 3.41
313 410 2.437180 CAGCTGCGCATTCCTCCA 60.437 61.111 12.24 0.00 0.00 3.86
314 411 2.124983 TCAGCTGCGCATTCCTCC 60.125 61.111 12.24 0.00 0.00 4.30
384 483 3.181479 GGAACTGTCGCTCCATGTGTATA 60.181 47.826 0.00 0.00 0.00 1.47
385 484 2.418746 GGAACTGTCGCTCCATGTGTAT 60.419 50.000 0.00 0.00 0.00 2.29
386 485 1.067142 GGAACTGTCGCTCCATGTGTA 60.067 52.381 0.00 0.00 0.00 2.90
398 497 0.109412 CGGTACTCGGTGGAACTGTC 60.109 60.000 0.00 0.00 45.64 3.51
488 587 5.298777 GCTCTTCGGTACTAGTTGGATCTAA 59.701 44.000 0.00 0.00 0.00 2.10
649 874 4.525874 TCATGTGATGTGAGAAGTCAGAGT 59.474 41.667 0.00 0.00 31.53 3.24
812 1047 2.428890 GCTCATGCTGTGTCTACCTACT 59.571 50.000 0.00 0.00 36.03 2.57
813 1048 2.815478 GCTCATGCTGTGTCTACCTAC 58.185 52.381 0.00 0.00 36.03 3.18
860 1109 6.209589 GGAAAATAAATAATCAGGAGGAGGGC 59.790 42.308 0.00 0.00 0.00 5.19
861 1110 6.721668 GGGAAAATAAATAATCAGGAGGAGGG 59.278 42.308 0.00 0.00 0.00 4.30
925 1176 1.594862 CTCGGGATGATGACGAAAAGC 59.405 52.381 0.00 0.00 36.08 3.51
938 1189 1.064017 AGCAGAGAGAAGACTCGGGAT 60.064 52.381 0.00 0.00 46.64 3.85
978 1229 1.629345 ATGCGATGCGTGTGTGTCTG 61.629 55.000 0.00 0.00 0.00 3.51
992 1243 1.278985 GGATCCCCATCATGTATGCGA 59.721 52.381 0.00 0.00 33.92 5.10
993 1244 1.003464 TGGATCCCCATCATGTATGCG 59.997 52.381 9.90 0.00 37.58 4.73
994 1245 2.719739 CTGGATCCCCATCATGTATGC 58.280 52.381 9.90 0.00 42.59 3.14
997 1248 1.067295 GGCTGGATCCCCATCATGTA 58.933 55.000 9.90 0.00 42.59 2.29
1035 1286 4.180946 CCGAGGAGGAGCGACACG 62.181 72.222 0.00 0.00 45.00 4.49
1179 1430 1.741770 CGTGTGGTTAGCCTCCTGC 60.742 63.158 0.00 0.00 41.71 4.85
1180 1431 0.108615 CTCGTGTGGTTAGCCTCCTG 60.109 60.000 0.00 0.00 35.27 3.86
1181 1432 1.889530 GCTCGTGTGGTTAGCCTCCT 61.890 60.000 0.00 0.00 35.27 3.69
1182 1433 1.448013 GCTCGTGTGGTTAGCCTCC 60.448 63.158 0.00 0.00 35.27 4.30
1230 1481 2.853542 TTGTGGCTGGCCTCCTGA 60.854 61.111 13.05 0.00 36.94 3.86
1263 1515 2.342910 AGCAAGAATCGCAAGCTTTG 57.657 45.000 0.00 0.00 29.98 2.77
1296 1548 7.550906 ACATCAGAGATGCTAAAGGAAAAGTAC 59.449 37.037 6.90 0.00 0.00 2.73
1312 1568 5.590259 CCGGACCAAATTAAACATCAGAGAT 59.410 40.000 0.00 0.00 0.00 2.75
1325 1587 3.061848 CGCCTGCCGGACCAAATT 61.062 61.111 5.05 0.00 0.00 1.82
1393 1655 0.457853 CCGACGTCATGATCACCGTT 60.458 55.000 17.16 3.35 33.03 4.44
1501 1763 3.371063 GCCACGACGAGGAGGTGA 61.371 66.667 15.98 0.00 33.58 4.02
1752 2017 7.551585 TGATTTGTCTTCTTTGTTTAGGCAAA 58.448 30.769 0.00 0.00 44.59 3.68
1753 2018 7.106439 TGATTTGTCTTCTTTGTTTAGGCAA 57.894 32.000 0.00 0.00 32.16 4.52
1754 2019 6.707440 TGATTTGTCTTCTTTGTTTAGGCA 57.293 33.333 0.00 0.00 0.00 4.75
1755 2020 8.419076 TTTTGATTTGTCTTCTTTGTTTAGGC 57.581 30.769 0.00 0.00 0.00 3.93
1790 2060 2.554032 GGTCACATTGGACTGGTTCTTG 59.446 50.000 0.00 0.00 37.91 3.02
1869 2144 3.782046 TGAGAGGTACGAAATGCTAAGC 58.218 45.455 0.00 0.00 0.00 3.09
1870 2145 6.910536 ATTTGAGAGGTACGAAATGCTAAG 57.089 37.500 0.00 0.00 0.00 2.18
1906 3244 7.028962 CACACATGTTGTATTTTGGTAGGATG 58.971 38.462 0.00 0.00 35.67 3.51
1952 3290 2.295909 ACAAACTTACACGTACGGCCTA 59.704 45.455 21.06 2.46 0.00 3.93
2067 3405 9.640963 GGTGCGATAATATAATGGAGGATATAC 57.359 37.037 0.00 0.00 0.00 1.47
2069 3407 7.256691 GGGGTGCGATAATATAATGGAGGATAT 60.257 40.741 0.00 0.00 0.00 1.63
2070 3408 6.042781 GGGGTGCGATAATATAATGGAGGATA 59.957 42.308 0.00 0.00 0.00 2.59
2071 3409 5.163195 GGGGTGCGATAATATAATGGAGGAT 60.163 44.000 0.00 0.00 0.00 3.24
2074 3412 5.359194 AGGGGTGCGATAATATAATGGAG 57.641 43.478 0.00 0.00 0.00 3.86
2075 3413 6.877668 TTAGGGGTGCGATAATATAATGGA 57.122 37.500 0.00 0.00 0.00 3.41
2076 3414 7.610305 AGTTTTAGGGGTGCGATAATATAATGG 59.390 37.037 0.00 0.00 0.00 3.16
2077 3415 8.561738 AGTTTTAGGGGTGCGATAATATAATG 57.438 34.615 0.00 0.00 0.00 1.90
2078 3416 9.582648 AAAGTTTTAGGGGTGCGATAATATAAT 57.417 29.630 0.00 0.00 0.00 1.28
2079 3417 8.983702 AAAGTTTTAGGGGTGCGATAATATAA 57.016 30.769 0.00 0.00 0.00 0.98
2080 3418 8.842280 CAAAAGTTTTAGGGGTGCGATAATATA 58.158 33.333 0.00 0.00 0.00 0.86
2081 3419 7.340999 ACAAAAGTTTTAGGGGTGCGATAATAT 59.659 33.333 0.00 0.00 0.00 1.28
2082 3420 6.660094 ACAAAAGTTTTAGGGGTGCGATAATA 59.340 34.615 0.00 0.00 0.00 0.98
2184 3523 1.289066 CGACGAGGTCACCATGTGT 59.711 57.895 0.00 0.00 34.79 3.72
2279 3618 2.225791 CTCGAAGACGCCCACCATGA 62.226 60.000 0.00 0.00 39.58 3.07
2508 3847 0.252057 TCATCAGGTTCCCGAGGTCA 60.252 55.000 0.00 0.00 0.00 4.02
2540 3879 1.820483 CGTCGTCCATCCCCCTATACA 60.820 57.143 0.00 0.00 0.00 2.29
2544 3883 2.836360 GCGTCGTCCATCCCCCTA 60.836 66.667 0.00 0.00 0.00 3.53
2632 3971 4.818534 AATGGTCGATTACATGTGCATC 57.181 40.909 9.11 9.03 0.00 3.91
2644 3991 5.256474 ACATCTCAAAAGGAAATGGTCGAT 58.744 37.500 0.00 0.00 0.00 3.59
2656 4003 6.580041 GCAGACACATTTGTACATCTCAAAAG 59.420 38.462 0.00 0.00 38.11 2.27
2657 4004 6.039159 TGCAGACACATTTGTACATCTCAAAA 59.961 34.615 0.00 0.00 38.11 2.44
2719 4069 3.142174 ACCTTCTGAGCAAACTACAAGC 58.858 45.455 0.00 0.00 0.00 4.01
2722 4072 3.882888 CCAAACCTTCTGAGCAAACTACA 59.117 43.478 0.00 0.00 0.00 2.74
2758 4108 3.433343 TGTGGGTTTGCATTCTCATGAT 58.567 40.909 0.00 0.00 31.07 2.45
2868 4218 3.055819 TGTCACAAAGGTCATAGAGCTCC 60.056 47.826 10.93 0.00 39.62 4.70
2875 4225 3.947196 GCCATCATGTCACAAAGGTCATA 59.053 43.478 0.00 0.00 0.00 2.15
2963 7600 5.163723 ACAAGACATTATCAATTGCCTCACG 60.164 40.000 0.00 0.00 0.00 4.35
2976 7613 2.951642 CCATCCGCCAACAAGACATTAT 59.048 45.455 0.00 0.00 0.00 1.28
3027 7702 6.205464 CACCAACCATCATTCCTACATATGAC 59.795 42.308 10.38 0.00 33.90 3.06
3037 7712 6.282930 CAAAATATCCACCAACCATCATTCC 58.717 40.000 0.00 0.00 0.00 3.01
3181 7928 7.490000 TGGAAAATTGTTGTTTAACCGTATGT 58.510 30.769 0.00 0.00 35.92 2.29
3198 7946 7.982354 TGTTTCGAGTGGTTAAAATGGAAAATT 59.018 29.630 0.00 0.00 0.00 1.82
3225 7973 4.014847 TGCTGATACGCACAAATTAAGC 57.985 40.909 0.00 0.00 34.44 3.09
3241 7989 9.797642 AAGTTGGATATGATGTTTATATGCTGA 57.202 29.630 0.00 0.00 32.19 4.26
3294 8043 2.445525 ACAGGTGTAGGAATTGTTGGGT 59.554 45.455 0.00 0.00 0.00 4.51
3340 8090 5.349817 GTGAATTCTCGAGAATCAGAAGCAA 59.650 40.000 34.45 15.02 43.41 3.91
3371 8121 1.702957 TGGATTCCCGAGAACCAGTTT 59.297 47.619 0.00 0.00 33.97 2.66
3383 8133 6.302269 AGAATCATTGTGACTATGGATTCCC 58.698 40.000 18.23 0.00 0.00 3.97
3409 8159 5.104318 CCCTTTCTTTAGGCTACAGATTCCT 60.104 44.000 10.98 0.00 33.73 3.36
3418 8168 0.924090 GGCCCCCTTTCTTTAGGCTA 59.076 55.000 0.00 0.00 43.36 3.93
3423 8173 0.616891 GAGTCGGCCCCCTTTCTTTA 59.383 55.000 0.00 0.00 0.00 1.85
3470 8220 4.967084 ATGTAGGACTGTGGTTGTAACA 57.033 40.909 0.00 0.00 0.00 2.41
3471 8221 4.694037 GGAATGTAGGACTGTGGTTGTAAC 59.306 45.833 0.00 0.00 0.00 2.50
3473 8223 3.904965 TGGAATGTAGGACTGTGGTTGTA 59.095 43.478 0.00 0.00 0.00 2.41
3587 8337 1.674359 AGCATGTTTGGTGTCGTTCA 58.326 45.000 0.00 0.00 30.87 3.18
3588 8338 2.774439 AAGCATGTTTGGTGTCGTTC 57.226 45.000 0.00 0.00 32.86 3.95
3591 8341 2.033299 AGACAAAGCATGTTTGGTGTCG 59.967 45.455 16.59 0.00 44.12 4.35


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

AutoCloner maintained by Alex Coulton.