Multiple sequence alignment - TraesCS4D01G141700

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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 TraesCS4D01G141700 chr4D 100.000 2657 0 0 1 2657 127116342 127118998 0.000000e+00 4907
1 TraesCS4D01G141700 chr4D 87.273 110 12 2 4 112 474686953 474686845 9.990000e-25 124
2 TraesCS4D01G141700 chr5B 90.215 1860 167 8 688 2535 521390189 521392045 0.000000e+00 2412
3 TraesCS4D01G141700 chr5B 78.777 556 113 5 594 1146 59785795 59785242 4.180000e-98 368
4 TraesCS4D01G141700 chr6A 89.804 1883 172 12 683 2550 371332672 371334549 0.000000e+00 2396
5 TraesCS4D01G141700 chr2A 87.624 1923 219 16 627 2538 742314159 742312245 0.000000e+00 2215
6 TraesCS4D01G141700 chr2A 89.216 102 10 1 8 108 118669227 118669126 2.780000e-25 126
7 TraesCS4D01G141700 chr2A 89.216 102 10 1 8 108 300683119 300683018 2.780000e-25 126
8 TraesCS4D01G141700 chr6D 91.672 1489 113 6 539 2024 338914756 338916236 0.000000e+00 2052
9 TraesCS4D01G141700 chr6D 95.325 385 16 2 164 546 338906387 338906771 6.290000e-171 610
10 TraesCS4D01G141700 chr6D 97.080 137 2 2 2522 2657 233819522 233819387 2.060000e-56 230
11 TraesCS4D01G141700 chr6D 96.377 138 4 1 2521 2657 178798336 178798473 2.660000e-55 226
12 TraesCS4D01G141700 chr3B 91.269 1466 120 7 1093 2553 562461524 562460062 0.000000e+00 1991
13 TraesCS4D01G141700 chr3B 86.943 628 77 3 1925 2550 17324738 17325362 0.000000e+00 701
14 TraesCS4D01G141700 chr3B 90.637 502 47 0 214 715 17317438 17317939 0.000000e+00 667
15 TraesCS4D01G141700 chr2D 92.324 1381 101 4 1161 2538 273013588 273014966 0.000000e+00 1958
16 TraesCS4D01G141700 chr2D 96.429 140 3 2 2519 2657 232799338 232799200 2.060000e-56 230
17 TraesCS4D01G141700 chr2D 98.473 131 1 1 2527 2657 591817975 591817846 2.060000e-56 230
18 TraesCS4D01G141700 chr2D 95.105 143 4 2 2517 2657 117379299 117379158 3.440000e-54 222
19 TraesCS4D01G141700 chr2D 87.500 112 11 3 8 117 25208816 25208706 2.780000e-25 126
20 TraesCS4D01G141700 chr2D 88.350 103 10 2 8 108 12390022 12389920 3.590000e-24 122
21 TraesCS4D01G141700 chr5A 90.950 1348 115 6 1195 2538 635798820 635797476 0.000000e+00 1807
22 TraesCS4D01G141700 chr4B 87.228 1519 184 8 1042 2553 182292191 182290676 0.000000e+00 1722
23 TraesCS4D01G141700 chr2B 86.848 1437 179 9 594 2024 629160390 629161822 0.000000e+00 1598
24 TraesCS4D01G141700 chr2B 91.176 102 8 1 8 108 18972066 18972167 1.280000e-28 137
25 TraesCS4D01G141700 chrUn 88.299 1111 125 4 170 1280 28019153 28020258 0.000000e+00 1327
26 TraesCS4D01G141700 chr6B 89.054 877 89 5 1677 2550 151674726 151675598 0.000000e+00 1081
27 TraesCS4D01G141700 chr7D 96.377 138 3 2 2521 2657 182131284 182131420 2.660000e-55 226
28 TraesCS4D01G141700 chr7D 95.139 144 4 3 2516 2657 242666486 242666344 9.570000e-55 224
29 TraesCS4D01G141700 chr7D 88.679 106 11 1 1 105 11024650 11024755 7.720000e-26 128
30 TraesCS4D01G141700 chr3D 96.377 138 3 2 2521 2657 129884323 129884459 2.660000e-55 226
31 TraesCS4D01G141700 chr3D 94.521 146 6 2 2513 2657 433680869 433680725 9.570000e-55 224
32 TraesCS4D01G141700 chr3D 72.966 381 92 10 667 1041 230760831 230760456 3.590000e-24 122
33 TraesCS4D01G141700 chr1D 89.109 101 10 1 8 107 8011774 8011674 9.990000e-25 124
34 TraesCS4D01G141700 chr5D 87.156 109 13 1 1 108 44681727 44681835 3.590000e-24 122
35 TraesCS4D01G141700 chr7A 81.119 143 25 2 683 824 198208489 198208630 2.160000e-21 113


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 TraesCS4D01G141700 chr4D 127116342 127118998 2656 False 4907 4907 100.000 1 2657 1 chr4D.!!$F1 2656
1 TraesCS4D01G141700 chr5B 521390189 521392045 1856 False 2412 2412 90.215 688 2535 1 chr5B.!!$F1 1847
2 TraesCS4D01G141700 chr5B 59785242 59785795 553 True 368 368 78.777 594 1146 1 chr5B.!!$R1 552
3 TraesCS4D01G141700 chr6A 371332672 371334549 1877 False 2396 2396 89.804 683 2550 1 chr6A.!!$F1 1867
4 TraesCS4D01G141700 chr2A 742312245 742314159 1914 True 2215 2215 87.624 627 2538 1 chr2A.!!$R3 1911
5 TraesCS4D01G141700 chr6D 338914756 338916236 1480 False 2052 2052 91.672 539 2024 1 chr6D.!!$F3 1485
6 TraesCS4D01G141700 chr3B 562460062 562461524 1462 True 1991 1991 91.269 1093 2553 1 chr3B.!!$R1 1460
7 TraesCS4D01G141700 chr3B 17324738 17325362 624 False 701 701 86.943 1925 2550 1 chr3B.!!$F2 625
8 TraesCS4D01G141700 chr3B 17317438 17317939 501 False 667 667 90.637 214 715 1 chr3B.!!$F1 501
9 TraesCS4D01G141700 chr2D 273013588 273014966 1378 False 1958 1958 92.324 1161 2538 1 chr2D.!!$F1 1377
10 TraesCS4D01G141700 chr5A 635797476 635798820 1344 True 1807 1807 90.950 1195 2538 1 chr5A.!!$R1 1343
11 TraesCS4D01G141700 chr4B 182290676 182292191 1515 True 1722 1722 87.228 1042 2553 1 chr4B.!!$R1 1511
12 TraesCS4D01G141700 chr2B 629160390 629161822 1432 False 1598 1598 86.848 594 2024 1 chr2B.!!$F2 1430
13 TraesCS4D01G141700 chrUn 28019153 28020258 1105 False 1327 1327 88.299 170 1280 1 chrUn.!!$F1 1110
14 TraesCS4D01G141700 chr6B 151674726 151675598 872 False 1081 1081 89.054 1677 2550 1 chr6B.!!$F1 873

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
289 290 0.325296 AGGGGAGGCGATTGACTACA 60.325 55.0 0.0 0.0 34.69 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2168 2186 0.034476 TCGCCAGCATCATCTCCATC 59.966 55.0 0.0 0.0 0.0 3.51 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
25 26 7.624360 TGTGGACTTATAGCCAAAACTATTG 57.376 36.000 0.00 0.00 35.63 1.90
26 27 7.172342 TGTGGACTTATAGCCAAAACTATTGT 58.828 34.615 0.00 0.00 35.63 2.71
27 28 8.322828 TGTGGACTTATAGCCAAAACTATTGTA 58.677 33.333 0.00 0.00 35.63 2.41
28 29 9.338622 GTGGACTTATAGCCAAAACTATTGTAT 57.661 33.333 0.00 0.00 35.63 2.29
29 30 9.337396 TGGACTTATAGCCAAAACTATTGTATG 57.663 33.333 0.00 0.00 34.66 2.39
30 31 9.555727 GGACTTATAGCCAAAACTATTGTATGA 57.444 33.333 0.00 0.00 34.66 2.15
38 39 9.461312 AGCCAAAACTATTGTATGAGTAATGAA 57.539 29.630 0.00 0.00 0.00 2.57
64 65 7.643569 ATTGTTAATACTTGATGACATGGCA 57.356 32.000 2.18 2.18 0.00 4.92
65 66 7.459795 TTGTTAATACTTGATGACATGGCAA 57.540 32.000 4.70 0.00 0.00 4.52
66 67 7.087409 TGTTAATACTTGATGACATGGCAAG 57.913 36.000 4.70 11.40 43.41 4.01
68 69 5.824904 AATACTTGATGACATGGCAAGTC 57.175 39.130 20.10 15.51 46.60 3.01
69 70 2.440409 ACTTGATGACATGGCAAGTCC 58.560 47.619 19.06 6.32 46.60 3.85
70 71 2.224843 ACTTGATGACATGGCAAGTCCA 60.225 45.455 19.06 8.78 46.60 4.02
79 80 2.110296 GGCAAGTCCAATAGCCAGC 58.890 57.895 0.00 0.00 46.26 4.85
80 81 0.680921 GGCAAGTCCAATAGCCAGCA 60.681 55.000 0.00 0.00 46.26 4.41
81 82 0.737219 GCAAGTCCAATAGCCAGCAG 59.263 55.000 0.00 0.00 0.00 4.24
82 83 0.737219 CAAGTCCAATAGCCAGCAGC 59.263 55.000 0.00 0.00 44.25 5.25
102 103 6.789262 GCAGCTGGCTATATTATTAACCATG 58.211 40.000 17.12 0.00 40.25 3.66
103 104 6.678900 GCAGCTGGCTATATTATTAACCATGC 60.679 42.308 17.12 0.00 40.25 4.06
104 105 6.600822 CAGCTGGCTATATTATTAACCATGCT 59.399 38.462 5.57 0.00 34.32 3.79
105 106 6.825721 AGCTGGCTATATTATTAACCATGCTC 59.174 38.462 0.00 0.00 30.87 4.26
106 107 6.825721 GCTGGCTATATTATTAACCATGCTCT 59.174 38.462 0.00 0.00 0.00 4.09
107 108 7.987458 GCTGGCTATATTATTAACCATGCTCTA 59.013 37.037 0.00 0.00 0.00 2.43
119 120 8.978874 TTAACCATGCTCTATATGAAACATGT 57.021 30.769 0.00 0.00 37.49 3.21
120 121 6.872628 ACCATGCTCTATATGAAACATGTG 57.127 37.500 0.00 0.00 37.49 3.21
121 122 6.359804 ACCATGCTCTATATGAAACATGTGT 58.640 36.000 0.00 0.00 37.49 3.72
122 123 6.830324 ACCATGCTCTATATGAAACATGTGTT 59.170 34.615 0.00 0.00 37.49 3.32
123 124 7.992608 ACCATGCTCTATATGAAACATGTGTTA 59.007 33.333 0.00 0.00 37.49 2.41
124 125 9.006839 CCATGCTCTATATGAAACATGTGTTAT 57.993 33.333 0.00 0.00 37.49 1.89
126 127 8.607441 TGCTCTATATGAAACATGTGTTATCC 57.393 34.615 0.00 0.00 37.25 2.59
127 128 8.432013 TGCTCTATATGAAACATGTGTTATCCT 58.568 33.333 0.00 0.00 37.25 3.24
128 129 9.277783 GCTCTATATGAAACATGTGTTATCCTT 57.722 33.333 0.00 0.00 37.25 3.36
140 141 9.851686 ACATGTGTTATCCTTTATATGTGATGT 57.148 29.630 0.00 0.00 0.00 3.06
150 151 6.633500 TTTATATGTGATGTAAAGGCTGCC 57.367 37.500 11.65 11.65 0.00 4.85
151 152 1.767759 ATGTGATGTAAAGGCTGCCC 58.232 50.000 16.57 0.00 0.00 5.36
152 153 0.698238 TGTGATGTAAAGGCTGCCCT 59.302 50.000 16.57 5.50 45.77 5.19
153 154 1.098050 GTGATGTAAAGGCTGCCCTG 58.902 55.000 16.57 0.00 41.90 4.45
154 155 0.680921 TGATGTAAAGGCTGCCCTGC 60.681 55.000 16.57 7.30 41.90 4.85
162 163 3.518003 GCTGCCCTGCCAATGTAG 58.482 61.111 0.00 0.00 0.00 2.74
163 164 2.779033 GCTGCCCTGCCAATGTAGC 61.779 63.158 0.00 0.00 0.00 3.58
164 165 1.378911 CTGCCCTGCCAATGTAGCA 60.379 57.895 0.00 0.00 38.82 3.49
165 166 1.660560 CTGCCCTGCCAATGTAGCAC 61.661 60.000 0.00 0.00 36.01 4.40
166 167 2.764314 GCCCTGCCAATGTAGCACG 61.764 63.158 0.00 0.00 36.01 5.34
167 168 1.078497 CCCTGCCAATGTAGCACGA 60.078 57.895 0.00 0.00 36.01 4.35
168 169 0.676466 CCCTGCCAATGTAGCACGAA 60.676 55.000 0.00 0.00 36.01 3.85
169 170 1.164411 CCTGCCAATGTAGCACGAAA 58.836 50.000 0.00 0.00 36.01 3.46
170 171 1.539388 CCTGCCAATGTAGCACGAAAA 59.461 47.619 0.00 0.00 36.01 2.29
171 172 2.030363 CCTGCCAATGTAGCACGAAAAA 60.030 45.455 0.00 0.00 36.01 1.94
204 205 2.491022 GCTCCCACGATCGCTAGGT 61.491 63.158 16.60 0.00 0.00 3.08
211 212 0.955178 ACGATCGCTAGGTGATCTGG 59.045 55.000 16.60 6.87 44.47 3.86
289 290 0.325296 AGGGGAGGCGATTGACTACA 60.325 55.000 0.00 0.00 34.69 2.74
296 297 2.029623 GGCGATTGACTACAGTAGGGA 58.970 52.381 12.42 0.00 0.00 4.20
324 325 4.154347 GGGCCTCTCCAGCGTGAG 62.154 72.222 0.84 0.00 36.21 3.51
386 387 3.155167 GATCGAAGGACCGGGCCT 61.155 66.667 28.33 28.33 40.93 5.19
390 391 2.131709 CGAAGGACCGGGCCTGATA 61.132 63.158 35.18 0.00 38.58 2.15
450 451 1.144708 TGTTTTGGCAGGTGAGATCCA 59.855 47.619 0.00 0.00 0.00 3.41
518 519 1.460305 CCCGATGGATCAGAGGGGT 60.460 63.158 0.00 0.00 38.44 4.95
567 568 1.296727 GTTCGGGTTATACAGGCAGC 58.703 55.000 0.00 0.00 0.00 5.25
607 608 8.421002 CCAATATGTTTATTCCTTCCGGATTTT 58.579 33.333 4.15 0.00 39.58 1.82
625 626 6.037500 CGGATTTTAGCATGAGAGATCAACAA 59.962 38.462 0.00 0.00 0.00 2.83
693 694 0.719015 TCAATCAGGGGAGAGGGAGT 59.281 55.000 0.00 0.00 0.00 3.85
783 793 9.362539 CAAATTCCTTTATGAGATTGTTTGGAG 57.637 33.333 0.00 0.00 0.00 3.86
790 800 2.445145 TGAGATTGTTTGGAGGGGAACA 59.555 45.455 0.00 0.00 34.22 3.18
819 829 2.159085 GCTATATCTATGGGCACGGGAC 60.159 54.545 0.00 0.00 0.00 4.46
880 891 6.730447 TCATTTGTTCTTTGATCCCTCCATA 58.270 36.000 0.00 0.00 0.00 2.74
883 894 3.202151 TGTTCTTTGATCCCTCCATACCC 59.798 47.826 0.00 0.00 0.00 3.69
997 1010 3.743636 TGACGGATGCAGCGACGA 61.744 61.111 7.61 0.00 0.00 4.20
1013 1026 1.929836 GACGAGAATGCGCTCTTCATT 59.070 47.619 20.33 7.68 34.40 2.57
1072 1085 3.519107 TCTTGTCATTGACATGGAGGCTA 59.481 43.478 24.39 7.77 42.40 3.93
1087 1100 1.592223 GCTACCCGCAAGACTGTCT 59.408 57.895 4.06 4.06 43.02 3.41
1140 1153 0.685097 CTTTCCAGGTCAACCCGAGA 59.315 55.000 0.00 0.00 38.74 4.04
1141 1154 1.279271 CTTTCCAGGTCAACCCGAGAT 59.721 52.381 0.00 0.00 38.74 2.75
1167 1180 3.371063 GACGACCTCCGGAGCACA 61.371 66.667 26.87 0.00 43.93 4.57
1270 1283 1.278637 GACCGTCGGTTTGTGCTTG 59.721 57.895 19.95 0.00 35.25 4.01
1274 1287 0.878523 CGTCGGTTTGTGCTTGAGGA 60.879 55.000 0.00 0.00 0.00 3.71
1406 1419 5.340439 AATCTCCCGTTCGAGTTTAAGAT 57.660 39.130 0.00 0.00 0.00 2.40
1495 1508 9.023962 ACCATGTAATTGTTGAGAAATACATGT 57.976 29.630 19.30 2.69 40.84 3.21
1633 1646 4.777896 ACTATGAGTGTTGTGGGATAGTGT 59.222 41.667 0.00 0.00 0.00 3.55
1689 1704 6.780522 AGAGAGGAGAGAGTAGTTTGTTTTCT 59.219 38.462 0.00 0.00 0.00 2.52
1772 1787 2.431260 GGAACTACGTTCGCGGCA 60.431 61.111 6.13 0.00 42.78 5.69
1795 1810 3.067106 CAACAACTCGACTACAGGCATT 58.933 45.455 0.00 0.00 0.00 3.56
1829 1844 2.425592 CCAAGGCCACAGACGTCA 59.574 61.111 19.50 0.00 0.00 4.35
1893 1908 2.202756 GGCCGCTACTTCCGTCAG 60.203 66.667 0.00 0.00 0.00 3.51
2140 2158 0.035152 TGGCCATGATTTCTCACGCT 60.035 50.000 0.00 0.00 33.22 5.07
2165 2183 1.272092 TGATGGCCAGGAAAACTCCAG 60.272 52.381 13.05 0.00 0.00 3.86
2166 2184 0.779997 ATGGCCAGGAAAACTCCAGT 59.220 50.000 13.05 0.00 0.00 4.00
2168 2186 0.895559 GGCCAGGAAAACTCCAGTGG 60.896 60.000 1.40 1.40 0.00 4.00
2219 2237 4.003788 CGGGAGTGTTGGAGGCGT 62.004 66.667 0.00 0.00 0.00 5.68
2257 2275 1.282875 GAAAATCGCTATGGCCGGC 59.717 57.895 21.18 21.18 34.44 6.13
2267 2285 1.476845 TATGGCCGGCGGTGATACAT 61.477 55.000 28.82 23.04 0.00 2.29
2268 2286 2.203153 GGCCGGCGGTGATACATT 60.203 61.111 28.82 0.00 0.00 2.71
2323 2343 1.111277 AAAATCCTATGCGGGGCAAC 58.889 50.000 0.00 0.00 43.62 4.17
2374 2394 2.352127 GGCAAACAGAGTTGAAGATGCC 60.352 50.000 6.74 6.74 44.44 4.40
2446 2466 2.354704 CCAACGGGCAATGACTTAGAGA 60.355 50.000 0.00 0.00 0.00 3.10
2484 2504 5.654209 AGAGATGGATAGTTATGAGCGCATA 59.346 40.000 11.47 6.00 35.94 3.14
2535 2555 1.374252 GGTGTGCACGGGTAGAGTG 60.374 63.158 13.13 0.00 42.15 3.51
2536 2556 1.366366 GTGTGCACGGGTAGAGTGT 59.634 57.895 13.13 0.00 41.36 3.55
2537 2557 0.599558 GTGTGCACGGGTAGAGTGTA 59.400 55.000 13.13 0.00 41.36 2.90
2539 2559 1.000060 TGTGCACGGGTAGAGTGTAAC 60.000 52.381 13.13 0.00 41.36 2.50
2540 2560 0.241749 TGCACGGGTAGAGTGTAACG 59.758 55.000 0.00 0.00 45.86 3.18
2541 2561 1.074872 GCACGGGTAGAGTGTAACGC 61.075 60.000 0.00 0.00 45.86 4.84
2542 2562 0.457337 CACGGGTAGAGTGTAACGCC 60.457 60.000 0.00 0.00 45.86 5.68
2543 2563 1.140375 CGGGTAGAGTGTAACGCCC 59.860 63.158 0.00 0.00 45.86 6.13
2544 2564 1.597797 CGGGTAGAGTGTAACGCCCA 61.598 60.000 0.00 0.00 45.86 5.36
2546 2566 0.457337 GGTAGAGTGTAACGCCCACG 60.457 60.000 0.00 0.00 45.86 4.94
2547 2567 0.523072 GTAGAGTGTAACGCCCACGA 59.477 55.000 0.00 0.00 45.86 4.35
2548 2568 1.133790 GTAGAGTGTAACGCCCACGAT 59.866 52.381 0.00 0.00 45.86 3.73
2549 2569 0.108804 AGAGTGTAACGCCCACGATG 60.109 55.000 0.00 0.00 45.86 3.84
2550 2570 1.693083 GAGTGTAACGCCCACGATGC 61.693 60.000 0.00 0.00 45.86 3.91
2557 2577 2.342279 GCCCACGATGCGGCTATA 59.658 61.111 0.00 0.00 42.21 1.31
2558 2578 1.079127 GCCCACGATGCGGCTATAT 60.079 57.895 0.00 0.00 42.21 0.86
2559 2579 1.084370 GCCCACGATGCGGCTATATC 61.084 60.000 0.00 0.00 42.21 1.63
2560 2580 0.532573 CCCACGATGCGGCTATATCT 59.467 55.000 0.00 0.00 0.00 1.98
2561 2581 1.469940 CCCACGATGCGGCTATATCTC 60.470 57.143 0.00 0.00 0.00 2.75
2562 2582 1.469940 CCACGATGCGGCTATATCTCC 60.470 57.143 0.00 0.00 0.00 3.71
2563 2583 0.818296 ACGATGCGGCTATATCTCCC 59.182 55.000 0.00 0.00 0.00 4.30
2564 2584 0.817654 CGATGCGGCTATATCTCCCA 59.182 55.000 0.00 0.00 0.00 4.37
2565 2585 1.469940 CGATGCGGCTATATCTCCCAC 60.470 57.143 0.00 0.00 0.00 4.61
2566 2586 0.532573 ATGCGGCTATATCTCCCACG 59.467 55.000 0.00 0.00 0.00 4.94
2567 2587 0.826256 TGCGGCTATATCTCCCACGT 60.826 55.000 0.00 0.00 0.00 4.49
2568 2588 0.388649 GCGGCTATATCTCCCACGTG 60.389 60.000 9.08 9.08 0.00 4.49
2569 2589 0.959553 CGGCTATATCTCCCACGTGT 59.040 55.000 15.65 0.00 0.00 4.49
2570 2590 1.068472 CGGCTATATCTCCCACGTGTC 60.068 57.143 15.65 0.00 0.00 3.67
2571 2591 1.068472 GGCTATATCTCCCACGTGTCG 60.068 57.143 15.65 4.04 0.00 4.35
2572 2592 1.878088 GCTATATCTCCCACGTGTCGA 59.122 52.381 15.65 8.55 0.00 4.20
2573 2593 2.095668 GCTATATCTCCCACGTGTCGAG 60.096 54.545 15.65 17.66 0.00 4.04
2574 2594 1.319541 ATATCTCCCACGTGTCGAGG 58.680 55.000 22.62 14.20 37.35 4.63
2575 2595 1.381928 TATCTCCCACGTGTCGAGGC 61.382 60.000 22.62 0.00 36.35 4.70
2576 2596 3.680786 CTCCCACGTGTCGAGGCA 61.681 66.667 15.65 0.00 36.35 4.75
2577 2597 3.916392 CTCCCACGTGTCGAGGCAC 62.916 68.421 15.65 0.00 36.35 5.01
2587 2607 2.478989 TCGAGGCACGACTTAGAGG 58.521 57.895 2.07 0.00 46.45 3.69
2588 2608 1.226717 CGAGGCACGACTTAGAGGC 60.227 63.158 0.00 0.00 45.77 4.70
2589 2609 1.890894 GAGGCACGACTTAGAGGCA 59.109 57.895 0.00 0.00 0.00 4.75
2590 2610 0.461961 GAGGCACGACTTAGAGGCAT 59.538 55.000 0.00 0.00 0.00 4.40
2591 2611 1.681793 GAGGCACGACTTAGAGGCATA 59.318 52.381 0.00 0.00 0.00 3.14
2592 2612 2.100916 GAGGCACGACTTAGAGGCATAA 59.899 50.000 0.00 0.00 0.00 1.90
2593 2613 2.159085 AGGCACGACTTAGAGGCATAAC 60.159 50.000 0.00 0.00 0.00 1.89
2594 2614 2.202566 GCACGACTTAGAGGCATAACC 58.797 52.381 0.00 0.00 39.61 2.85
2595 2615 2.460918 CACGACTTAGAGGCATAACCG 58.539 52.381 0.00 0.00 46.52 4.44
2596 2616 1.202382 ACGACTTAGAGGCATAACCGC 60.202 52.381 0.00 0.00 46.52 5.68
2597 2617 1.202371 CGACTTAGAGGCATAACCGCA 60.202 52.381 0.00 0.00 46.52 5.69
2598 2618 2.545952 CGACTTAGAGGCATAACCGCAT 60.546 50.000 0.00 0.00 46.52 4.73
2599 2619 3.467803 GACTTAGAGGCATAACCGCATT 58.532 45.455 0.00 0.00 46.52 3.56
2600 2620 3.206150 ACTTAGAGGCATAACCGCATTG 58.794 45.455 0.00 0.00 46.52 2.82
2601 2621 3.206150 CTTAGAGGCATAACCGCATTGT 58.794 45.455 0.00 0.00 46.52 2.71
2602 2622 1.382522 AGAGGCATAACCGCATTGTG 58.617 50.000 0.00 0.00 46.52 3.33
2603 2623 0.381801 GAGGCATAACCGCATTGTGG 59.618 55.000 14.72 14.72 46.52 4.17
2610 2630 3.957383 ACCGCATTGTGGTTTTGTC 57.043 47.368 16.17 0.00 44.78 3.18
2611 2631 0.030101 ACCGCATTGTGGTTTTGTCG 59.970 50.000 16.17 0.00 44.78 4.35
2612 2632 1.274798 CCGCATTGTGGTTTTGTCGC 61.275 55.000 8.14 0.00 0.00 5.19
2613 2633 0.593518 CGCATTGTGGTTTTGTCGCA 60.594 50.000 0.00 0.00 0.00 5.10
2614 2634 1.565305 GCATTGTGGTTTTGTCGCAA 58.435 45.000 0.00 0.00 38.69 4.85
2615 2635 1.929836 GCATTGTGGTTTTGTCGCAAA 59.070 42.857 1.63 1.63 38.00 3.68
2616 2636 2.349886 GCATTGTGGTTTTGTCGCAAAA 59.650 40.909 11.87 11.87 38.00 2.44
2617 2637 3.181516 GCATTGTGGTTTTGTCGCAAAAA 60.182 39.130 15.85 5.42 38.00 1.94
2618 2638 4.576678 CATTGTGGTTTTGTCGCAAAAAG 58.423 39.130 15.85 2.32 38.00 2.27
2619 2639 2.611518 TGTGGTTTTGTCGCAAAAAGG 58.388 42.857 15.85 0.00 29.93 3.11
2620 2640 1.930503 GTGGTTTTGTCGCAAAAAGGG 59.069 47.619 15.85 0.00 29.93 3.95
2621 2641 1.550976 TGGTTTTGTCGCAAAAAGGGT 59.449 42.857 15.85 0.00 29.93 4.34
2622 2642 2.198406 GGTTTTGTCGCAAAAAGGGTC 58.802 47.619 15.85 6.66 29.93 4.46
2623 2643 2.417515 GGTTTTGTCGCAAAAAGGGTCA 60.418 45.455 15.85 0.00 29.93 4.02
2624 2644 3.453424 GTTTTGTCGCAAAAAGGGTCAT 58.547 40.909 15.85 0.00 29.93 3.06
2625 2645 3.363341 TTTGTCGCAAAAAGGGTCATC 57.637 42.857 3.08 0.00 0.00 2.92
2626 2646 2.270352 TGTCGCAAAAAGGGTCATCT 57.730 45.000 0.00 0.00 0.00 2.90
2627 2647 2.582052 TGTCGCAAAAAGGGTCATCTT 58.418 42.857 0.00 0.00 0.00 2.40
2628 2648 2.552315 TGTCGCAAAAAGGGTCATCTTC 59.448 45.455 0.00 0.00 0.00 2.87
2629 2649 2.552315 GTCGCAAAAAGGGTCATCTTCA 59.448 45.455 0.00 0.00 0.00 3.02
2630 2650 2.552315 TCGCAAAAAGGGTCATCTTCAC 59.448 45.455 0.00 0.00 0.00 3.18
2631 2651 2.293122 CGCAAAAAGGGTCATCTTCACA 59.707 45.455 0.00 0.00 0.00 3.58
2632 2652 3.642705 GCAAAAAGGGTCATCTTCACAC 58.357 45.455 0.00 0.00 0.00 3.82
2633 2653 3.068024 GCAAAAAGGGTCATCTTCACACA 59.932 43.478 0.00 0.00 0.00 3.72
2634 2654 4.441356 GCAAAAAGGGTCATCTTCACACAA 60.441 41.667 0.00 0.00 0.00 3.33
2635 2655 5.739935 GCAAAAAGGGTCATCTTCACACAAT 60.740 40.000 0.00 0.00 0.00 2.71
2636 2656 5.712152 AAAAGGGTCATCTTCACACAATC 57.288 39.130 0.00 0.00 0.00 2.67
2637 2657 3.356529 AGGGTCATCTTCACACAATCC 57.643 47.619 0.00 0.00 0.00 3.01
2638 2658 2.025887 AGGGTCATCTTCACACAATCCC 60.026 50.000 0.00 0.00 0.00 3.85
2639 2659 2.290896 GGGTCATCTTCACACAATCCCA 60.291 50.000 0.00 0.00 33.33 4.37
2640 2660 3.624777 GGTCATCTTCACACAATCCCAT 58.375 45.455 0.00 0.00 0.00 4.00
2641 2661 3.379372 GGTCATCTTCACACAATCCCATG 59.621 47.826 0.00 0.00 0.00 3.66
2642 2662 4.012374 GTCATCTTCACACAATCCCATGT 58.988 43.478 0.00 0.00 0.00 3.21
2643 2663 5.185454 GTCATCTTCACACAATCCCATGTA 58.815 41.667 0.00 0.00 30.84 2.29
2644 2664 5.647658 GTCATCTTCACACAATCCCATGTAA 59.352 40.000 0.00 0.00 30.84 2.41
2645 2665 6.319658 GTCATCTTCACACAATCCCATGTAAT 59.680 38.462 0.00 0.00 30.84 1.89
2646 2666 6.319405 TCATCTTCACACAATCCCATGTAATG 59.681 38.462 0.00 0.00 46.21 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.668052 ACAATAGTTTTGGCTATAAGTCCACAA 59.332 33.333 0.00 0.00 31.94 3.33
1 2 7.172342 ACAATAGTTTTGGCTATAAGTCCACA 58.828 34.615 0.00 0.00 31.94 4.17
2 3 7.625828 ACAATAGTTTTGGCTATAAGTCCAC 57.374 36.000 0.00 0.00 31.94 4.02
4 5 9.555727 TCATACAATAGTTTTGGCTATAAGTCC 57.444 33.333 0.00 0.00 31.94 3.85
12 13 9.461312 TTCATTACTCATACAATAGTTTTGGCT 57.539 29.630 0.00 0.00 0.00 4.75
38 39 9.353431 TGCCATGTCATCAAGTATTAACAATAT 57.647 29.630 0.00 0.00 0.00 1.28
39 40 8.744568 TGCCATGTCATCAAGTATTAACAATA 57.255 30.769 0.00 0.00 0.00 1.90
40 41 7.643569 TGCCATGTCATCAAGTATTAACAAT 57.356 32.000 0.00 0.00 0.00 2.71
41 42 7.176515 ACTTGCCATGTCATCAAGTATTAACAA 59.823 33.333 14.99 0.00 45.82 2.83
42 43 6.658816 ACTTGCCATGTCATCAAGTATTAACA 59.341 34.615 14.99 0.00 45.82 2.41
43 44 7.088589 ACTTGCCATGTCATCAAGTATTAAC 57.911 36.000 14.99 0.00 45.82 2.01
50 51 2.439409 TGGACTTGCCATGTCATCAAG 58.561 47.619 12.19 11.05 43.33 3.02
51 52 2.583024 TGGACTTGCCATGTCATCAA 57.417 45.000 12.19 0.00 43.33 2.57
61 62 0.680921 TGCTGGCTATTGGACTTGCC 60.681 55.000 0.00 0.00 45.10 4.52
62 63 0.737219 CTGCTGGCTATTGGACTTGC 59.263 55.000 0.00 0.00 0.00 4.01
63 64 0.737219 GCTGCTGGCTATTGGACTTG 59.263 55.000 0.00 0.00 38.06 3.16
64 65 3.181526 GCTGCTGGCTATTGGACTT 57.818 52.632 0.00 0.00 38.06 3.01
65 66 4.972875 GCTGCTGGCTATTGGACT 57.027 55.556 0.00 0.00 38.06 3.85
78 79 6.678900 GCATGGTTAATAATATAGCCAGCTGC 60.679 42.308 8.66 3.91 39.18 5.25
79 80 6.600822 AGCATGGTTAATAATATAGCCAGCTG 59.399 38.462 6.78 6.78 39.18 4.24
80 81 6.725364 AGCATGGTTAATAATATAGCCAGCT 58.275 36.000 0.00 0.00 39.18 4.24
81 82 6.825721 AGAGCATGGTTAATAATATAGCCAGC 59.174 38.462 0.00 0.00 39.18 4.85
93 94 9.578576 ACATGTTTCATATAGAGCATGGTTAAT 57.421 29.630 14.52 0.00 41.56 1.40
94 95 8.839343 CACATGTTTCATATAGAGCATGGTTAA 58.161 33.333 14.52 0.00 41.56 2.01
95 96 7.992608 ACACATGTTTCATATAGAGCATGGTTA 59.007 33.333 14.52 0.00 41.56 2.85
96 97 6.830324 ACACATGTTTCATATAGAGCATGGTT 59.170 34.615 14.52 0.00 41.56 3.67
97 98 6.359804 ACACATGTTTCATATAGAGCATGGT 58.640 36.000 0.00 0.00 41.56 3.55
98 99 6.872628 ACACATGTTTCATATAGAGCATGG 57.127 37.500 14.52 8.77 41.56 3.66
100 101 9.224267 GGATAACACATGTTTCATATAGAGCAT 57.776 33.333 1.98 0.00 39.31 3.79
101 102 8.432013 AGGATAACACATGTTTCATATAGAGCA 58.568 33.333 1.98 0.00 39.31 4.26
102 103 8.839310 AGGATAACACATGTTTCATATAGAGC 57.161 34.615 1.98 0.00 39.31 4.09
114 115 9.851686 ACATCACATATAAAGGATAACACATGT 57.148 29.630 0.00 0.00 0.00 3.21
126 127 6.294176 GGGCAGCCTTTACATCACATATAAAG 60.294 42.308 12.43 0.00 36.22 1.85
127 128 5.534654 GGGCAGCCTTTACATCACATATAAA 59.465 40.000 12.43 0.00 0.00 1.40
128 129 5.070001 GGGCAGCCTTTACATCACATATAA 58.930 41.667 12.43 0.00 0.00 0.98
129 130 4.350816 AGGGCAGCCTTTACATCACATATA 59.649 41.667 12.43 0.00 0.00 0.86
130 131 3.139025 AGGGCAGCCTTTACATCACATAT 59.861 43.478 12.43 0.00 0.00 1.78
131 132 2.509548 AGGGCAGCCTTTACATCACATA 59.490 45.455 12.43 0.00 0.00 2.29
132 133 1.285962 AGGGCAGCCTTTACATCACAT 59.714 47.619 12.43 0.00 0.00 3.21
133 134 0.698238 AGGGCAGCCTTTACATCACA 59.302 50.000 12.43 0.00 0.00 3.58
134 135 1.098050 CAGGGCAGCCTTTACATCAC 58.902 55.000 12.43 0.00 0.00 3.06
135 136 0.680921 GCAGGGCAGCCTTTACATCA 60.681 55.000 12.43 0.00 0.00 3.07
136 137 2.110296 GCAGGGCAGCCTTTACATC 58.890 57.895 12.43 0.00 0.00 3.06
137 138 4.344237 GCAGGGCAGCCTTTACAT 57.656 55.556 12.43 0.00 0.00 2.29
145 146 2.779033 GCTACATTGGCAGGGCAGC 61.779 63.158 0.00 0.00 0.00 5.25
146 147 1.378911 TGCTACATTGGCAGGGCAG 60.379 57.895 0.00 0.00 34.56 4.85
147 148 1.678635 GTGCTACATTGGCAGGGCA 60.679 57.895 0.00 0.00 40.54 5.36
148 149 2.764314 CGTGCTACATTGGCAGGGC 61.764 63.158 0.00 0.00 40.54 5.19
149 150 0.676466 TTCGTGCTACATTGGCAGGG 60.676 55.000 8.19 0.00 43.15 4.45
150 151 1.164411 TTTCGTGCTACATTGGCAGG 58.836 50.000 0.00 0.00 43.94 4.85
151 152 2.987413 TTTTCGTGCTACATTGGCAG 57.013 45.000 0.00 0.00 40.54 4.85
185 186 2.490148 CCTAGCGATCGTGGGAGCA 61.490 63.158 17.81 0.00 0.00 4.26
278 279 2.034812 GGCTCCCTACTGTAGTCAATCG 59.965 54.545 13.42 0.00 0.00 3.34
289 290 1.002274 CACCTCCTGGCTCCCTACT 59.998 63.158 0.00 0.00 36.63 2.57
315 316 4.087892 CCCACTCCCTCACGCTGG 62.088 72.222 0.00 0.00 0.00 4.85
324 325 0.762461 CCTGATCTCCTCCCACTCCC 60.762 65.000 0.00 0.00 0.00 4.30
386 387 2.101750 TCTGCGCCCGAATTAAGTATCA 59.898 45.455 4.18 0.00 0.00 2.15
390 391 0.462047 CCTCTGCGCCCGAATTAAGT 60.462 55.000 4.18 0.00 0.00 2.24
450 451 0.193574 TTCCCTCCCAGGAGACAACT 59.806 55.000 15.53 0.00 44.53 3.16
465 466 1.545651 CCAATCCTATCCCGCTTTCCC 60.546 57.143 0.00 0.00 0.00 3.97
518 519 1.420138 GCCCTTTCCCTTCGATCCATA 59.580 52.381 0.00 0.00 0.00 2.74
567 568 5.818136 ACATATTGGTGAATCAACCGAAG 57.182 39.130 0.00 0.00 43.73 3.79
607 608 7.333323 TCAAATCTTGTTGATCTCTCATGCTA 58.667 34.615 0.00 0.00 32.56 3.49
625 626 5.428184 AAATCGACTCCTCCTTCAAATCT 57.572 39.130 0.00 0.00 0.00 2.40
693 694 9.738832 GTTTCCTAATAACTACAGCAAAAACAA 57.261 29.630 0.00 0.00 0.00 2.83
783 793 0.106015 ATAGCAGGCCAATGTTCCCC 60.106 55.000 5.01 0.00 0.00 4.81
790 800 3.117738 GCCCATAGATATAGCAGGCCAAT 60.118 47.826 5.01 0.00 32.68 3.16
883 894 2.279120 CTCTCTAAGCCGCCGCAG 60.279 66.667 0.00 0.00 37.52 5.18
922 933 2.271944 AAGCACTACTCACAAACCCC 57.728 50.000 0.00 0.00 0.00 4.95
997 1010 0.737219 GCCAATGAAGAGCGCATTCT 59.263 50.000 21.32 9.77 33.93 2.40
1013 1026 2.046023 CAGCTTGGTCGATGGCCA 60.046 61.111 8.56 8.56 0.00 5.36
1072 1085 2.031163 GCAGACAGTCTTGCGGGT 59.969 61.111 0.00 0.00 0.00 5.28
1140 1153 1.602851 CGGAGGTCGTCGACTATGAAT 59.397 52.381 23.69 4.70 32.47 2.57
1141 1154 1.012086 CGGAGGTCGTCGACTATGAA 58.988 55.000 23.69 0.00 32.47 2.57
1167 1180 0.111253 CACCCTGGTTCTTCCAAGCT 59.889 55.000 0.00 0.00 46.59 3.74
1270 1283 2.827642 GTGCCATGGCTGCTCCTC 60.828 66.667 35.53 13.98 42.51 3.71
1274 1287 1.228644 TTGAAGTGCCATGGCTGCT 60.229 52.632 35.53 28.48 42.51 4.24
1374 1387 3.181497 CGAACGGGAGATTTCGTACCTTA 60.181 47.826 0.00 0.00 39.79 2.69
1375 1388 2.416431 CGAACGGGAGATTTCGTACCTT 60.416 50.000 0.00 0.00 39.79 3.50
1383 1396 5.143376 TCTTAAACTCGAACGGGAGATTT 57.857 39.130 0.00 6.74 37.49 2.17
1384 1397 4.796038 TCTTAAACTCGAACGGGAGATT 57.204 40.909 0.00 4.74 37.49 2.40
1406 1419 0.784495 AGACCACCCTACACTCTCCA 59.216 55.000 0.00 0.00 0.00 3.86
1492 1505 7.812690 ATAATATCTTCACATGCACACACAT 57.187 32.000 0.00 0.00 0.00 3.21
1495 1508 6.095160 TGCAATAATATCTTCACATGCACACA 59.905 34.615 0.00 0.00 37.61 3.72
1613 1626 3.327757 ACACACTATCCCACAACACTCAT 59.672 43.478 0.00 0.00 0.00 2.90
1633 1646 8.684386 TTTTACAAAACCTCTGATGTATGACA 57.316 30.769 6.03 0.00 0.00 3.58
1689 1704 4.349930 AGGGCTCAACACTAAGGTTTCTTA 59.650 41.667 0.00 0.00 34.59 2.10
1772 1787 1.605712 GCCTGTAGTCGAGTTGTTGCT 60.606 52.381 0.00 0.00 0.00 3.91
1795 1810 1.383523 TGGCGATGTTGTTGTTGACA 58.616 45.000 0.00 0.00 36.19 3.58
2003 2018 3.086600 CTGGACCTCCTGGCCTCC 61.087 72.222 3.32 1.03 36.63 4.30
2023 2038 4.314440 TCCAGCCTGGTCACGCAC 62.314 66.667 11.27 0.00 39.03 5.34
2074 2092 5.459762 GGCATGTACAACATCATAACAATGC 59.540 40.000 0.00 0.00 36.53 3.56
2076 2094 5.655974 TGGGCATGTACAACATCATAACAAT 59.344 36.000 0.00 0.00 36.53 2.71
2140 2158 2.158475 AGTTTTCCTGGCCATCACTTGA 60.158 45.455 5.51 0.00 0.00 3.02
2150 2168 0.110486 TCCACTGGAGTTTTCCTGGC 59.890 55.000 0.00 0.00 44.38 4.85
2165 2183 1.893544 CCAGCATCATCTCCATCCAC 58.106 55.000 0.00 0.00 0.00 4.02
2166 2184 0.109913 GCCAGCATCATCTCCATCCA 59.890 55.000 0.00 0.00 0.00 3.41
2168 2186 0.034476 TCGCCAGCATCATCTCCATC 59.966 55.000 0.00 0.00 0.00 3.51
2206 2224 1.000955 CTAGACAACGCCTCCAACACT 59.999 52.381 0.00 0.00 0.00 3.55
2219 2237 2.532186 CTGCAACAGCGCTAGACAA 58.468 52.632 10.99 0.00 0.00 3.18
2257 2275 6.791887 AGAGCATTATTCAATGTATCACCG 57.208 37.500 0.00 0.00 43.03 4.94
2268 2286 9.693739 TGAATTTAAAGGGTAGAGCATTATTCA 57.306 29.630 0.00 0.00 0.00 2.57
2374 2394 0.107703 TCCCTATCACTTGCTTGCGG 60.108 55.000 0.00 0.00 0.00 5.69
2484 2504 9.424319 GATGAGACGTTTACATCACCATATAAT 57.576 33.333 18.55 0.00 39.77 1.28
2541 2561 0.532573 AGATATAGCCGCATCGTGGG 59.467 55.000 0.00 0.00 33.18 4.61
2542 2562 1.469940 GGAGATATAGCCGCATCGTGG 60.470 57.143 0.00 0.00 36.10 4.94
2543 2563 1.469940 GGGAGATATAGCCGCATCGTG 60.470 57.143 0.00 0.00 0.00 4.35
2544 2564 0.818296 GGGAGATATAGCCGCATCGT 59.182 55.000 0.00 0.00 0.00 3.73
2546 2566 1.469940 CGTGGGAGATATAGCCGCATC 60.470 57.143 0.00 0.00 0.00 3.91
2547 2567 0.532573 CGTGGGAGATATAGCCGCAT 59.467 55.000 0.00 0.00 0.00 4.73
2548 2568 0.826256 ACGTGGGAGATATAGCCGCA 60.826 55.000 0.00 0.00 0.00 5.69
2549 2569 0.388649 CACGTGGGAGATATAGCCGC 60.389 60.000 7.95 0.00 0.00 6.53
2550 2570 0.959553 ACACGTGGGAGATATAGCCG 59.040 55.000 21.57 0.00 0.00 5.52
2552 2572 1.878088 TCGACACGTGGGAGATATAGC 59.122 52.381 21.57 0.00 0.00 2.97
2553 2573 2.484651 CCTCGACACGTGGGAGATATAG 59.515 54.545 29.41 15.13 36.95 1.31
2554 2574 2.501261 CCTCGACACGTGGGAGATATA 58.499 52.381 29.41 5.30 36.95 0.86
2555 2575 1.319541 CCTCGACACGTGGGAGATAT 58.680 55.000 29.41 6.39 36.95 1.63
2556 2576 1.381928 GCCTCGACACGTGGGAGATA 61.382 60.000 29.41 7.54 40.31 1.98
2557 2577 2.711922 GCCTCGACACGTGGGAGAT 61.712 63.158 29.41 7.79 40.31 2.75
2558 2578 3.371063 GCCTCGACACGTGGGAGA 61.371 66.667 29.41 19.95 40.31 3.71
2559 2579 3.680786 TGCCTCGACACGTGGGAG 61.681 66.667 24.04 24.04 40.31 4.30
2560 2580 3.986006 GTGCCTCGACACGTGGGA 61.986 66.667 21.57 15.34 40.31 4.37
2569 2589 1.654954 GCCTCTAAGTCGTGCCTCGA 61.655 60.000 0.00 0.00 46.83 4.04
2570 2590 1.226717 GCCTCTAAGTCGTGCCTCG 60.227 63.158 0.00 0.00 41.41 4.63
2571 2591 0.461961 ATGCCTCTAAGTCGTGCCTC 59.538 55.000 0.00 0.00 0.00 4.70
2572 2592 1.776662 TATGCCTCTAAGTCGTGCCT 58.223 50.000 0.00 0.00 0.00 4.75
2573 2593 2.202566 GTTATGCCTCTAAGTCGTGCC 58.797 52.381 0.00 0.00 0.00 5.01
2574 2594 2.202566 GGTTATGCCTCTAAGTCGTGC 58.797 52.381 0.00 0.00 0.00 5.34
2575 2595 2.460918 CGGTTATGCCTCTAAGTCGTG 58.539 52.381 0.00 0.00 34.25 4.35
2576 2596 1.202382 GCGGTTATGCCTCTAAGTCGT 60.202 52.381 0.00 0.00 34.25 4.34
2577 2597 1.202371 TGCGGTTATGCCTCTAAGTCG 60.202 52.381 0.00 0.00 34.25 4.18
2578 2598 2.596904 TGCGGTTATGCCTCTAAGTC 57.403 50.000 0.00 0.00 34.25 3.01
2579 2599 3.206150 CAATGCGGTTATGCCTCTAAGT 58.794 45.455 0.00 0.00 34.25 2.24
2580 2600 3.002656 CACAATGCGGTTATGCCTCTAAG 59.997 47.826 0.00 0.00 34.25 2.18
2581 2601 2.942376 CACAATGCGGTTATGCCTCTAA 59.058 45.455 0.00 0.00 34.25 2.10
2582 2602 2.560504 CACAATGCGGTTATGCCTCTA 58.439 47.619 0.00 0.00 34.25 2.43
2583 2603 1.382522 CACAATGCGGTTATGCCTCT 58.617 50.000 0.00 0.00 34.25 3.69
2584 2604 0.381801 CCACAATGCGGTTATGCCTC 59.618 55.000 0.00 0.00 34.25 4.70
2585 2605 0.323360 ACCACAATGCGGTTATGCCT 60.323 50.000 0.00 0.00 30.53 4.75
2586 2606 0.530288 AACCACAATGCGGTTATGCC 59.470 50.000 3.53 0.00 45.00 4.40
2587 2607 2.362169 AAACCACAATGCGGTTATGC 57.638 45.000 6.07 0.00 46.12 3.14
2588 2608 3.648009 ACAAAACCACAATGCGGTTATG 58.352 40.909 6.07 0.00 46.12 1.90
2589 2609 3.610585 CGACAAAACCACAATGCGGTTAT 60.611 43.478 6.07 0.00 46.12 1.89
2590 2610 2.287069 CGACAAAACCACAATGCGGTTA 60.287 45.455 6.07 0.00 46.12 2.85
2592 2612 0.030101 CGACAAAACCACAATGCGGT 59.970 50.000 0.00 0.00 38.85 5.68
2593 2613 1.274798 GCGACAAAACCACAATGCGG 61.275 55.000 0.00 0.00 0.00 5.69
2594 2614 0.593518 TGCGACAAAACCACAATGCG 60.594 50.000 0.00 0.00 0.00 4.73
2595 2615 1.565305 TTGCGACAAAACCACAATGC 58.435 45.000 0.00 0.00 0.00 3.56
2596 2616 4.493872 CCTTTTTGCGACAAAACCACAATG 60.494 41.667 14.48 0.00 0.00 2.82
2597 2617 3.620821 CCTTTTTGCGACAAAACCACAAT 59.379 39.130 14.48 0.00 0.00 2.71
2598 2618 2.996621 CCTTTTTGCGACAAAACCACAA 59.003 40.909 14.48 3.09 0.00 3.33
2599 2619 2.611518 CCTTTTTGCGACAAAACCACA 58.388 42.857 14.48 3.37 0.00 4.17
2600 2620 1.930503 CCCTTTTTGCGACAAAACCAC 59.069 47.619 14.48 0.00 0.00 4.16
2601 2621 1.550976 ACCCTTTTTGCGACAAAACCA 59.449 42.857 14.48 4.19 0.00 3.67
2602 2622 2.198406 GACCCTTTTTGCGACAAAACC 58.802 47.619 14.48 2.94 0.00 3.27
2603 2623 2.882324 TGACCCTTTTTGCGACAAAAC 58.118 42.857 14.48 6.50 0.00 2.43
2604 2624 3.383185 AGATGACCCTTTTTGCGACAAAA 59.617 39.130 11.87 11.87 0.00 2.44
2605 2625 2.955660 AGATGACCCTTTTTGCGACAAA 59.044 40.909 1.63 1.63 0.00 2.83
2606 2626 2.582052 AGATGACCCTTTTTGCGACAA 58.418 42.857 0.00 0.00 0.00 3.18
2607 2627 2.270352 AGATGACCCTTTTTGCGACA 57.730 45.000 0.00 0.00 0.00 4.35
2608 2628 2.552315 TGAAGATGACCCTTTTTGCGAC 59.448 45.455 0.00 0.00 0.00 5.19
2609 2629 2.552315 GTGAAGATGACCCTTTTTGCGA 59.448 45.455 0.00 0.00 0.00 5.10
2610 2630 2.293122 TGTGAAGATGACCCTTTTTGCG 59.707 45.455 0.00 0.00 0.00 4.85
2611 2631 3.068024 TGTGTGAAGATGACCCTTTTTGC 59.932 43.478 0.00 0.00 0.00 3.68
2612 2632 4.916983 TGTGTGAAGATGACCCTTTTTG 57.083 40.909 0.00 0.00 0.00 2.44
2613 2633 5.011023 GGATTGTGTGAAGATGACCCTTTTT 59.989 40.000 0.00 0.00 0.00 1.94
2614 2634 4.524328 GGATTGTGTGAAGATGACCCTTTT 59.476 41.667 0.00 0.00 0.00 2.27
2615 2635 4.082125 GGATTGTGTGAAGATGACCCTTT 58.918 43.478 0.00 0.00 0.00 3.11
2616 2636 3.562176 GGGATTGTGTGAAGATGACCCTT 60.562 47.826 0.00 0.00 32.93 3.95
2617 2637 2.025887 GGGATTGTGTGAAGATGACCCT 60.026 50.000 0.00 0.00 32.93 4.34
2618 2638 2.290896 TGGGATTGTGTGAAGATGACCC 60.291 50.000 0.00 0.00 35.82 4.46
2619 2639 3.071874 TGGGATTGTGTGAAGATGACC 57.928 47.619 0.00 0.00 0.00 4.02
2620 2640 4.012374 ACATGGGATTGTGTGAAGATGAC 58.988 43.478 0.00 0.00 0.00 3.06
2621 2641 4.305539 ACATGGGATTGTGTGAAGATGA 57.694 40.909 0.00 0.00 0.00 2.92
2622 2642 6.319405 TCATTACATGGGATTGTGTGAAGATG 59.681 38.462 0.00 0.00 0.00 2.90
2623 2643 6.425735 TCATTACATGGGATTGTGTGAAGAT 58.574 36.000 0.00 0.00 0.00 2.40
2624 2644 5.814481 TCATTACATGGGATTGTGTGAAGA 58.186 37.500 0.00 0.00 0.00 2.87
2625 2645 6.072008 TGTTCATTACATGGGATTGTGTGAAG 60.072 38.462 0.00 0.00 36.80 3.02
2626 2646 5.772169 TGTTCATTACATGGGATTGTGTGAA 59.228 36.000 0.00 0.00 35.28 3.18
2627 2647 5.320277 TGTTCATTACATGGGATTGTGTGA 58.680 37.500 0.00 0.00 0.00 3.58
2628 2648 5.641783 TGTTCATTACATGGGATTGTGTG 57.358 39.130 0.00 0.00 0.00 3.82
2629 2649 6.009589 TCTTGTTCATTACATGGGATTGTGT 58.990 36.000 0.00 0.00 36.44 3.72
2630 2650 6.513806 TCTTGTTCATTACATGGGATTGTG 57.486 37.500 0.00 0.00 36.44 3.33
2631 2651 7.549839 CATTCTTGTTCATTACATGGGATTGT 58.450 34.615 0.00 0.00 36.44 2.71
2632 2652 7.997107 CATTCTTGTTCATTACATGGGATTG 57.003 36.000 0.00 0.00 36.44 2.67


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

AutoCloner maintained by Alex Coulton.