Multiple sequence alignment - TraesCS4D01G223700

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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 TraesCS4D01G223700 chr4D 100.000 3622 0 0 1992 5613 380456699 380460320 0.000000e+00 6689.0
1 TraesCS4D01G223700 chr4D 100.000 1659 0 0 1 1659 380454708 380456366 0.000000e+00 3064.0
2 TraesCS4D01G223700 chr4D 91.489 94 5 1 5402 5492 380460016 380460109 5.900000e-25 126.0
3 TraesCS4D01G223700 chr4D 91.489 94 5 1 5309 5402 380460109 380460199 5.900000e-25 126.0
4 TraesCS4D01G223700 chr4A 92.533 2223 113 26 3433 5613 83322467 83320256 0.000000e+00 3136.0
5 TraesCS4D01G223700 chr4A 91.508 1154 46 30 552 1658 83326080 83324932 0.000000e+00 1541.0
6 TraesCS4D01G223700 chr4A 89.500 1000 94 7 2226 3216 83324609 83323612 0.000000e+00 1254.0
7 TraesCS4D01G223700 chr4A 88.814 295 10 6 4 293 83326636 83326360 1.940000e-89 340.0
8 TraesCS4D01G223700 chr4A 94.972 179 7 2 1992 2169 83324804 83324627 4.280000e-71 279.0
9 TraesCS4D01G223700 chr4A 88.210 229 21 5 1392 1615 175693004 175692777 9.270000e-68 268.0
10 TraesCS4D01G223700 chr4A 90.323 93 6 1 5402 5491 83320560 83320468 9.880000e-23 119.0
11 TraesCS4D01G223700 chr4B 91.598 1452 80 18 3430 4841 467911353 467912802 0.000000e+00 1967.0
12 TraesCS4D01G223700 chr4B 92.087 1150 38 17 541 1658 467908734 467909862 0.000000e+00 1570.0
13 TraesCS4D01G223700 chr4B 94.452 703 29 2 4888 5590 467914779 467915471 0.000000e+00 1074.0
14 TraesCS4D01G223700 chr4B 91.093 494 40 3 2197 2688 467910455 467910946 0.000000e+00 665.0
15 TraesCS4D01G223700 chr4B 91.080 426 22 8 4 426 467907875 467908287 3.800000e-156 562.0
16 TraesCS4D01G223700 chr4B 92.893 394 17 7 2966 3353 467910961 467911349 3.800000e-156 562.0
17 TraesCS4D01G223700 chr4B 86.245 269 27 6 1351 1614 567696473 567696210 3.310000e-72 283.0
18 TraesCS4D01G223700 chr4B 93.289 149 9 1 1992 2140 467909990 467910137 9.470000e-53 219.0
19 TraesCS4D01G223700 chr4B 92.308 78 3 1 5325 5402 467915299 467915373 2.140000e-19 108.0
20 TraesCS4D01G223700 chr4B 89.333 75 6 1 3361 3433 59598669 59598595 5.990000e-15 93.5
21 TraesCS4D01G223700 chr4B 90.698 43 3 1 2168 2210 52864270 52864311 7.860000e-04 56.5
22 TraesCS4D01G223700 chr2A 90.838 764 53 12 4841 5590 14939324 14940084 0.000000e+00 1007.0
23 TraesCS4D01G223700 chr2A 84.713 157 23 1 274 429 549290431 549290275 7.530000e-34 156.0
24 TraesCS4D01G223700 chr2A 94.872 39 1 1 2168 2206 19133756 19133793 6.070000e-05 60.2
25 TraesCS4D01G223700 chr2A 90.476 42 3 1 2168 2209 379118979 379118939 3.000000e-03 54.7
26 TraesCS4D01G223700 chr7A 84.416 154 22 2 279 430 579808527 579808374 3.500000e-32 150.0
27 TraesCS4D01G223700 chr7A 89.333 75 7 1 3359 3433 195176609 195176536 5.990000e-15 93.5
28 TraesCS4D01G223700 chr7A 86.747 83 11 0 3359 3441 705217985 705217903 5.990000e-15 93.5
29 TraesCS4D01G223700 chr7A 88.158 76 9 0 3359 3434 31785764 31785839 2.150000e-14 91.6
30 TraesCS4D01G223700 chr5D 86.667 135 17 1 279 412 283009686 283009820 1.260000e-31 148.0
31 TraesCS4D01G223700 chr5D 85.417 144 16 4 274 415 213477865 213478005 1.630000e-30 145.0
32 TraesCS4D01G223700 chr5D 91.463 82 7 0 3359 3440 318879406 318879325 4.600000e-21 113.0
33 TraesCS4D01G223700 chr5D 92.500 40 2 1 2165 2203 556005497 556005458 7.860000e-04 56.5
34 TraesCS4D01G223700 chr3B 85.517 145 17 2 273 415 528176348 528176206 1.260000e-31 148.0
35 TraesCS4D01G223700 chr3B 97.143 35 1 0 2168 2202 200860713 200860679 6.070000e-05 60.2
36 TraesCS4D01G223700 chr2B 86.131 137 17 2 279 415 291587738 291587604 4.530000e-31 147.0
37 TraesCS4D01G223700 chr2B 82.635 167 25 4 269 432 712617515 712617680 1.630000e-30 145.0
38 TraesCS4D01G223700 chr2B 91.111 45 2 2 2165 2208 37551001 37550958 6.070000e-05 60.2
39 TraesCS4D01G223700 chr7D 82.390 159 27 1 275 432 623793589 623793431 2.730000e-28 137.0
40 TraesCS4D01G223700 chr7D 89.583 48 4 1 2152 2198 86887143 86887096 6.070000e-05 60.2
41 TraesCS4D01G223700 chr3A 84.397 141 20 2 275 415 72407177 72407039 2.730000e-28 137.0
42 TraesCS4D01G223700 chr1A 88.889 81 8 1 3359 3438 550334336 550334256 1.290000e-16 99.0
43 TraesCS4D01G223700 chr1A 88.158 76 9 0 3359 3434 49890861 49890786 2.150000e-14 91.6
44 TraesCS4D01G223700 chr1A 97.143 35 1 0 2168 2202 588664890 588664856 6.070000e-05 60.2
45 TraesCS4D01G223700 chr5A 89.610 77 7 1 3359 3435 44801068 44801143 4.630000e-16 97.1
46 TraesCS4D01G223700 chr7B 88.608 79 8 1 3359 3437 244755512 244755589 1.660000e-15 95.3
47 TraesCS4D01G223700 chr6B 94.444 36 2 0 2168 2203 164882051 164882086 7.860000e-04 56.5


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 TraesCS4D01G223700 chr4D 380454708 380460320 5612 False 2501.250 6689 95.7445 1 5613 4 chr4D.!!$F1 5612
1 TraesCS4D01G223700 chr4A 83320256 83326636 6380 True 1111.500 3136 91.2750 4 5613 6 chr4A.!!$R2 5609
2 TraesCS4D01G223700 chr4B 467907875 467915471 7596 False 840.875 1967 92.3500 4 5590 8 chr4B.!!$F2 5586
3 TraesCS4D01G223700 chr2A 14939324 14940084 760 False 1007.000 1007 90.8380 4841 5590 1 chr2A.!!$F1 749

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
21 22 0.250727 TCGCCCAAGGAAAACTCCAG 60.251 55.0 0.00 0.00 0.00 3.86 F
1390 1886 1.936767 TTGAGGGGCCATGATCCCAC 61.937 60.0 20.60 16.13 45.73 4.61 F
1497 2003 0.034896 ACATTCGGTGACACCTGACC 59.965 55.0 22.14 0.00 35.66 4.02 F
2711 3500 0.467804 TCCGAAATCGATGCCCATCA 59.532 50.0 0.00 0.00 43.02 3.07 F
2924 3714 0.178831 AAGTGGGAGGAGGGGTGAAT 60.179 55.0 0.00 0.00 0.00 2.57 F
3680 5508 0.321346 TCGCTGCCATCTTCTCACAA 59.679 50.0 0.00 0.00 0.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1449 1949 0.034059 AAACCTCGCTGTGGAGTCTG 59.966 55.0 4.13 0.0 31.98 3.51 R
2907 3697 0.034089 CAATTCACCCCTCCTCCCAC 60.034 60.0 0.00 0.0 0.00 4.61 R
2913 3703 0.548510 CTCTCCCAATTCACCCCTCC 59.451 60.0 0.00 0.0 0.00 4.30 R
4308 6147 0.102120 TGTGCCGGCTGAAACAAAAG 59.898 50.0 29.70 0.0 0.00 2.27 R
4459 6308 0.532573 CCTCCGTCAGCAGCTTCTTA 59.467 55.0 0.00 0.0 0.00 2.10 R
5554 9379 0.393077 ACTGAGGTCACCGGTCAAAG 59.607 55.0 2.59 0.0 0.00 2.77 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
21 22 0.250727 TCGCCCAAGGAAAACTCCAG 60.251 55.000 0.00 0.00 0.00 3.86
208 228 4.033709 TCTCCCATCGATCCTTTCTTTCT 58.966 43.478 0.00 0.00 0.00 2.52
284 305 7.333423 TCCCTTTCACATGAAAATACTACTTCG 59.667 37.037 8.33 0.00 42.72 3.79
293 314 5.630680 TGAAAATACTACTTCGTCCGTTCAC 59.369 40.000 0.00 0.00 0.00 3.18
294 315 4.771590 AATACTACTTCGTCCGTTCACA 57.228 40.909 0.00 0.00 0.00 3.58
295 316 2.701073 ACTACTTCGTCCGTTCACAG 57.299 50.000 0.00 0.00 0.00 3.66
311 332 7.279981 TCCGTTCACAGATATAAGATGTTTTGG 59.720 37.037 0.00 0.00 0.00 3.28
356 377 3.247648 CGGACTGAAACGAGTGAACAAAT 59.752 43.478 0.00 0.00 0.00 2.32
429 453 9.268268 CATGTTATATTTAAAGCGGAGGAAGTA 57.732 33.333 0.00 0.00 0.00 2.24
538 562 8.529476 TCTGGTTAAATCTAAGACAAGTACTCC 58.471 37.037 0.00 0.00 0.00 3.85
539 563 7.618137 TGGTTAAATCTAAGACAAGTACTCCC 58.382 38.462 0.00 0.00 0.00 4.30
613 1066 4.761739 CGTGACAGCCAATGGGAATATATT 59.238 41.667 0.00 0.00 35.59 1.28
615 1068 6.239008 CGTGACAGCCAATGGGAATATATTTT 60.239 38.462 0.00 0.00 35.59 1.82
617 1070 7.439056 GTGACAGCCAATGGGAATATATTTTTG 59.561 37.037 0.00 2.77 35.59 2.44
719 1184 2.182825 CGAGATTACGTTCGGGAAGTG 58.817 52.381 0.00 0.00 33.39 3.16
729 1194 3.744426 CGTTCGGGAAGTGAGTACAAAAT 59.256 43.478 0.00 0.00 0.00 1.82
856 1321 4.824515 CCTCCCGCGTCCCTCTCT 62.825 72.222 4.92 0.00 0.00 3.10
858 1323 3.997400 CTCCCGCGTCCCTCTCTCA 62.997 68.421 4.92 0.00 0.00 3.27
860 1325 2.752238 CCGCGTCCCTCTCTCACT 60.752 66.667 4.92 0.00 0.00 3.41
862 1327 2.766400 CGCGTCCCTCTCTCACTCC 61.766 68.421 0.00 0.00 0.00 3.85
864 1329 2.115911 CGTCCCTCTCTCACTCCCG 61.116 68.421 0.00 0.00 0.00 5.14
866 1331 3.522731 CCCTCTCTCACTCCCGCG 61.523 72.222 0.00 0.00 0.00 6.46
867 1332 4.200283 CCTCTCTCACTCCCGCGC 62.200 72.222 0.00 0.00 0.00 6.86
868 1333 4.544689 CTCTCTCACTCCCGCGCG 62.545 72.222 25.67 25.67 0.00 6.86
1116 1593 4.675029 GTGGTGGTGGACGGGTCG 62.675 72.222 0.00 0.00 0.00 4.79
1169 1646 3.554692 CGGCATGTTCGCGGAGAC 61.555 66.667 6.13 3.57 34.36 3.36
1390 1886 1.936767 TTGAGGGGCCATGATCCCAC 61.937 60.000 20.60 16.13 45.73 4.61
1449 1949 3.430862 TTCGGCGCTTGGCACATC 61.431 61.111 7.64 0.00 46.16 3.06
1451 1951 4.170062 CGGCGCTTGGCACATCAG 62.170 66.667 7.64 0.00 46.16 2.90
1462 1963 1.357258 GCACATCAGACTCCACAGCG 61.357 60.000 0.00 0.00 0.00 5.18
1497 2003 0.034896 ACATTCGGTGACACCTGACC 59.965 55.000 22.14 0.00 35.66 4.02
1504 2010 3.626924 GACACCTGACCCACGCCT 61.627 66.667 0.00 0.00 0.00 5.52
1554 2060 4.497473 AATTTCAGCGAAATTCGAACCA 57.503 36.364 20.38 0.00 45.45 3.67
1658 2165 6.982141 TGTACTACGATGTGTTGAACTCTTTT 59.018 34.615 0.00 0.00 0.00 2.27
2027 2534 4.328712 GCGGGTGTATATTTTGCTTTTTGG 59.671 41.667 0.00 0.00 0.00 3.28
2188 2696 9.642327 TCTGTAACGCTCTTATATTTGTTTACA 57.358 29.630 0.00 0.00 0.00 2.41
2189 2697 9.901724 CTGTAACGCTCTTATATTTGTTTACAG 57.098 33.333 0.00 0.00 0.00 2.74
2192 2700 7.772332 ACGCTCTTATATTTGTTTACAGAGG 57.228 36.000 0.00 0.00 0.00 3.69
2195 2703 7.494625 CGCTCTTATATTTGTTTACAGAGGGAA 59.505 37.037 4.76 0.00 36.40 3.97
2212 2999 5.791141 AGAGGGAATAACAAGTTAAGGTCCT 59.209 40.000 14.84 11.12 31.06 3.85
2218 3005 9.682465 GGAATAACAAGTTAAGGTCCTATTTCT 57.318 33.333 0.00 0.00 0.00 2.52
2285 3072 6.954487 ATTTATGAGACACATCACATGCAT 57.046 33.333 0.00 0.00 36.86 3.96
2286 3073 9.729281 ATATTTATGAGACACATCACATGCATA 57.271 29.630 0.00 0.00 36.86 3.14
2291 3078 5.706833 TGAGACACATCACATGCATAAGTTT 59.293 36.000 0.00 0.00 0.00 2.66
2347 3134 3.864921 GCTGTACACCCTGAAAAGACGAT 60.865 47.826 0.00 0.00 0.00 3.73
2354 3141 3.244422 ACCCTGAAAAGACGATAGCAACA 60.244 43.478 0.00 0.00 42.67 3.33
2358 3145 5.447818 CCTGAAAAGACGATAGCAACATTCC 60.448 44.000 0.00 0.00 42.67 3.01
2388 3177 3.422417 ACAGACACAGGATATCGAACG 57.578 47.619 0.00 0.00 0.00 3.95
2389 3178 2.099263 ACAGACACAGGATATCGAACGG 59.901 50.000 0.00 0.00 0.00 4.44
2460 3249 4.682860 TGATCCTACGTTTGAAGTCGAAAC 59.317 41.667 0.00 0.00 0.00 2.78
2496 3285 7.490657 TCCAATCTCCTACACTAAAAGCTTA 57.509 36.000 0.00 0.00 0.00 3.09
2567 3356 2.887568 CGTGTCGAGATGCCCTGC 60.888 66.667 0.00 0.00 0.00 4.85
2568 3357 2.887568 GTGTCGAGATGCCCTGCG 60.888 66.667 0.00 0.00 0.00 5.18
2600 3389 4.963944 CCCCATTGGTGGTTTGGA 57.036 55.556 1.20 0.00 44.48 3.53
2625 3414 5.402398 GCAGAACCTAAAACATCACAATCC 58.598 41.667 0.00 0.00 0.00 3.01
2626 3415 5.622233 GCAGAACCTAAAACATCACAATCCC 60.622 44.000 0.00 0.00 0.00 3.85
2674 3463 3.949754 TCGTCACCTCGACCATTTACTAT 59.050 43.478 0.00 0.00 42.07 2.12
2708 3497 1.095228 GCTTCCGAAATCGATGCCCA 61.095 55.000 0.00 0.00 43.02 5.36
2709 3498 1.597742 CTTCCGAAATCGATGCCCAT 58.402 50.000 0.00 0.00 43.02 4.00
2711 3500 0.467804 TCCGAAATCGATGCCCATCA 59.532 50.000 0.00 0.00 43.02 3.07
2728 3517 5.512060 GCCCATCAATCTATCTGACTTAGCA 60.512 44.000 0.00 0.00 0.00 3.49
2729 3518 6.528321 CCCATCAATCTATCTGACTTAGCAA 58.472 40.000 0.00 0.00 0.00 3.91
2737 3526 3.878086 TCTGACTTAGCAACGCAAAAG 57.122 42.857 0.00 0.00 32.58 2.27
2738 3527 2.548057 TCTGACTTAGCAACGCAAAAGG 59.452 45.455 6.19 0.00 31.26 3.11
2748 3537 5.163513 AGCAACGCAAAAGGAAAATCTATG 58.836 37.500 0.00 0.00 0.00 2.23
2755 3544 7.754924 ACGCAAAAGGAAAATCTATGTAATGTG 59.245 33.333 0.00 0.00 0.00 3.21
2775 3564 3.059665 GTGCGCATGAATGATCGTATCAA 60.060 43.478 15.91 0.00 43.50 2.57
2777 3566 4.146719 GCGCATGAATGATCGTATCAAAG 58.853 43.478 0.30 0.00 43.50 2.77
2779 3568 4.470462 GCATGAATGATCGTATCAAAGCC 58.530 43.478 0.00 0.00 43.50 4.35
2803 3592 2.613595 TGGTGAACAGCGATATTGATGC 59.386 45.455 8.16 0.00 0.00 3.91
2810 3599 1.781555 CGATATTGATGCGCCCGTC 59.218 57.895 4.18 0.59 0.00 4.79
2832 3621 1.282157 GGCCCTGAGTTAGTGGAATGT 59.718 52.381 0.00 0.00 0.00 2.71
2863 3652 5.756833 CCAACTAACAACGGAGACTAGTTTT 59.243 40.000 0.00 0.00 31.96 2.43
2864 3653 6.073927 CCAACTAACAACGGAGACTAGTTTTC 60.074 42.308 0.00 0.00 31.96 2.29
2873 3662 3.866327 GGAGACTAGTTTTCCTGAATCGC 59.134 47.826 16.24 0.00 0.00 4.58
2874 3663 3.512680 AGACTAGTTTTCCTGAATCGCG 58.487 45.455 0.00 0.00 0.00 5.87
2879 3669 2.875933 AGTTTTCCTGAATCGCGTTGAA 59.124 40.909 5.77 0.00 0.00 2.69
2907 3697 8.419076 AAGGCACATGTTAAAACAGTTTTAAG 57.581 30.769 25.28 18.05 43.49 1.85
2909 3699 7.491048 AGGCACATGTTAAAACAGTTTTAAGTG 59.509 33.333 26.66 26.66 43.49 3.16
2913 3703 8.194769 ACATGTTAAAACAGTTTTAAGTGGGAG 58.805 33.333 27.61 19.08 43.49 4.30
2924 3714 0.178831 AAGTGGGAGGAGGGGTGAAT 60.179 55.000 0.00 0.00 0.00 2.57
2937 3727 2.158608 GGGGTGAATTGGGAGAGGTATG 60.159 54.545 0.00 0.00 0.00 2.39
2939 3729 3.202151 GGGTGAATTGGGAGAGGTATGAA 59.798 47.826 0.00 0.00 0.00 2.57
2945 3735 3.845781 TGGGAGAGGTATGAATTCTGC 57.154 47.619 7.05 0.00 0.00 4.26
2953 3743 3.509575 AGGTATGAATTCTGCGCCAAAAA 59.490 39.130 4.18 0.00 0.00 1.94
3063 3860 2.609747 TCTCAGTTAGTTGCCAGGTCT 58.390 47.619 0.00 0.00 0.00 3.85
3066 3863 4.777896 TCTCAGTTAGTTGCCAGGTCTAAT 59.222 41.667 0.00 0.00 0.00 1.73
3070 3867 4.935808 AGTTAGTTGCCAGGTCTAATTTCG 59.064 41.667 0.00 0.00 0.00 3.46
3223 4020 7.125792 ACGATGAACTCCCATAATCTAAGTT 57.874 36.000 0.00 0.00 33.09 2.66
3224 4021 7.210873 ACGATGAACTCCCATAATCTAAGTTC 58.789 38.462 6.61 6.61 43.80 3.01
3228 4025 7.338710 TGAACTCCCATAATCTAAGTTCCAAG 58.661 38.462 10.15 0.00 43.20 3.61
3343 5167 6.994496 CACTCTAAAATGCCTGGATATCTTCA 59.006 38.462 0.00 0.00 0.00 3.02
3353 5177 5.744300 GCCTGGATATCTTCAGCTGTACATT 60.744 44.000 14.67 0.00 0.00 2.71
3354 5178 6.519043 GCCTGGATATCTTCAGCTGTACATTA 60.519 42.308 14.67 1.39 0.00 1.90
3355 5179 7.095910 CCTGGATATCTTCAGCTGTACATTAG 58.904 42.308 14.67 3.38 0.00 1.73
3356 5180 7.256119 CCTGGATATCTTCAGCTGTACATTAGT 60.256 40.741 14.67 0.00 0.00 2.24
3357 5181 8.706322 TGGATATCTTCAGCTGTACATTAGTA 57.294 34.615 14.67 0.00 0.00 1.82
3358 5182 8.797438 TGGATATCTTCAGCTGTACATTAGTAG 58.203 37.037 14.67 0.00 0.00 2.57
3359 5183 8.798402 GGATATCTTCAGCTGTACATTAGTAGT 58.202 37.037 14.67 0.00 0.00 2.73
3363 5187 9.804758 ATCTTCAGCTGTACATTAGTAGTAAAC 57.195 33.333 14.67 0.00 0.00 2.01
3364 5188 9.021807 TCTTCAGCTGTACATTAGTAGTAAACT 57.978 33.333 14.67 0.00 42.62 2.66
3396 5220 4.755411 TCGTTTAGATCACTGCTTTAGGG 58.245 43.478 0.00 0.00 0.00 3.53
3397 5221 4.464951 TCGTTTAGATCACTGCTTTAGGGA 59.535 41.667 0.00 0.00 44.55 4.20
3405 5229 5.798125 TCACTGCTTTAGGGATCTAGATG 57.202 43.478 10.74 0.00 32.64 2.90
3406 5230 5.458595 TCACTGCTTTAGGGATCTAGATGA 58.541 41.667 10.74 0.00 32.64 2.92
3407 5231 6.080682 TCACTGCTTTAGGGATCTAGATGAT 58.919 40.000 10.74 0.00 32.64 2.45
3408 5232 7.093377 ATCACTGCTTTAGGGATCTAGATGATC 60.093 40.741 10.74 0.00 46.78 2.92
3457 5281 5.638596 TTTCTGCTCTCTTACACGTATCA 57.361 39.130 0.00 0.00 0.00 2.15
3543 5371 0.907230 GGCAGAGTTCCAGGAGGTCT 60.907 60.000 0.00 0.00 35.89 3.85
3587 5415 2.592308 GCCGGGCTCAAGAAGGAT 59.408 61.111 12.87 0.00 0.00 3.24
3680 5508 0.321346 TCGCTGCCATCTTCTCACAA 59.679 50.000 0.00 0.00 0.00 3.33
3691 5519 3.038280 TCTTCTCACAAGTTGGGTCTGA 58.962 45.455 4.74 0.00 0.00 3.27
3814 5646 3.301274 ACACTCCTAGTCCTAGCCATTC 58.699 50.000 0.00 0.00 31.95 2.67
3819 5651 4.475345 TCCTAGTCCTAGCCATTCTTCTC 58.525 47.826 0.00 0.00 31.95 2.87
3986 5818 4.641645 CTGGGCAGTGTGGCGGAA 62.642 66.667 0.00 0.00 44.78 4.30
4331 6170 1.299850 GTTTCAGCCGGCACAAACC 60.300 57.895 29.68 18.08 0.00 3.27
4336 6175 4.025401 GCCGGCACAAACCAGACG 62.025 66.667 24.80 0.00 0.00 4.18
4452 6301 1.377333 GGAAGGCGGTCCAAGAAGG 60.377 63.158 5.49 0.00 37.65 3.46
4459 6308 0.400594 CGGTCCAAGAAGGGGAGTTT 59.599 55.000 0.00 0.00 38.24 2.66
4537 6386 1.423584 TCTTCTTCTCCACCAGCACA 58.576 50.000 0.00 0.00 0.00 4.57
4636 6487 7.398834 GCAATATGCACATGAAAGGTAAATC 57.601 36.000 0.00 0.00 44.26 2.17
4640 6491 5.794687 TGCACATGAAAGGTAAATCGTAG 57.205 39.130 0.00 0.00 0.00 3.51
4642 6493 4.873827 GCACATGAAAGGTAAATCGTAGGA 59.126 41.667 0.00 0.00 0.00 2.94
4694 6546 3.059166 GCCTGTGGTTGTGCTTTTTATG 58.941 45.455 0.00 0.00 0.00 1.90
4741 6593 3.201353 TGTTTGATTGGAACCTGACGA 57.799 42.857 0.00 0.00 0.00 4.20
4835 6708 3.928375 GACACATTGTCAATGGGAAATGC 59.072 43.478 30.20 12.34 45.25 3.56
4849 6747 5.551233 TGGGAAATGCTACTGATGCTATAC 58.449 41.667 0.00 0.00 0.00 1.47
4850 6748 4.938226 GGGAAATGCTACTGATGCTATACC 59.062 45.833 0.00 0.00 0.00 2.73
4916 8722 7.949434 AGAAGAAACATTCAGCTTTCATTTCT 58.051 30.769 4.64 4.64 36.69 2.52
4979 8785 2.435372 TGCTCCAGTTTGTCAACCTT 57.565 45.000 0.00 0.00 32.70 3.50
4980 8786 2.023673 TGCTCCAGTTTGTCAACCTTG 58.976 47.619 0.00 0.00 32.70 3.61
4984 8790 4.398319 CTCCAGTTTGTCAACCTTGGTAT 58.602 43.478 8.33 0.00 32.40 2.73
5066 8872 3.604875 TTCCTAAGGTTCACGATGGAC 57.395 47.619 0.00 0.00 0.00 4.02
5081 8887 4.142249 ACGATGGACAACATGAATCTACGA 60.142 41.667 0.00 0.00 40.72 3.43
5127 8933 1.202110 GCATCGCTTCACACCTCAATG 60.202 52.381 0.00 0.00 0.00 2.82
5189 9001 3.363084 GCACGGAAGAAGAAAAAGTCTCG 60.363 47.826 0.00 0.00 34.56 4.04
5219 9031 6.491383 TCCTAAGGTTATACGGATCTAGCAT 58.509 40.000 0.00 0.00 0.00 3.79
5222 9034 8.189460 CCTAAGGTTATACGGATCTAGCATAAC 58.811 40.741 12.42 12.42 33.36 1.89
5554 9379 1.634702 CTTCTCTGTGTAGAAGGCGC 58.365 55.000 0.00 0.00 45.80 6.53
5601 9426 2.509964 ACCTGTTTCTGACCCTGTTTCT 59.490 45.455 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.250770 GGAGTTTTCCTTGGGCGAGT 60.251 55.000 0.00 0.00 40.58 4.18
1 2 0.250727 TGGAGTTTTCCTTGGGCGAG 60.251 55.000 0.00 0.00 44.36 5.03
2 3 0.250727 CTGGAGTTTTCCTTGGGCGA 60.251 55.000 0.00 0.00 44.36 5.54
75 76 2.732094 AAAAGCGACGACGACCGG 60.732 61.111 12.29 0.00 43.93 5.28
76 77 2.464189 CAAAAGCGACGACGACCG 59.536 61.111 12.29 5.93 42.66 4.79
258 278 7.333423 CGAAGTAGTATTTTCATGTGAAAGGGA 59.667 37.037 8.07 0.00 43.90 4.20
284 305 7.772332 AAACATCTTATATCTGTGAACGGAC 57.228 36.000 0.00 0.00 33.47 4.79
324 345 6.090358 CACTCGTTTCAGTCCGTATGTATTTT 59.910 38.462 0.00 0.00 0.00 1.82
327 348 4.397103 TCACTCGTTTCAGTCCGTATGTAT 59.603 41.667 0.00 0.00 0.00 2.29
338 359 9.658475 TTTAATGTATTTGTTCACTCGTTTCAG 57.342 29.630 0.00 0.00 0.00 3.02
515 539 7.849160 AGGGAGTACTTGTCTTAGATTTAACC 58.151 38.462 0.00 0.00 0.00 2.85
517 541 8.896722 AGAGGGAGTACTTGTCTTAGATTTAA 57.103 34.615 0.00 0.00 0.00 1.52
523 547 7.982354 CCATAAAAGAGGGAGTACTTGTCTTAG 59.018 40.741 12.96 6.62 0.00 2.18
613 1066 0.537600 TGGAATTCGCCGGGACAAAA 60.538 50.000 2.18 0.00 0.00 2.44
615 1068 1.073373 TTGGAATTCGCCGGGACAA 59.927 52.632 2.18 0.00 0.00 3.18
617 1070 2.404186 GGTTGGAATTCGCCGGGAC 61.404 63.158 2.18 0.00 0.00 4.46
719 1184 3.805971 CCCGGACGGATTATTTTGTACTC 59.194 47.826 13.13 0.00 37.50 2.59
729 1194 1.341285 TGTTCTCTCCCGGACGGATTA 60.341 52.381 13.13 0.00 41.00 1.75
866 1331 2.620112 TTTGGCTCTGCTTCTGCGC 61.620 57.895 0.00 0.00 43.34 6.09
867 1332 1.208614 GTTTGGCTCTGCTTCTGCG 59.791 57.895 0.00 0.00 43.34 5.18
868 1333 1.208614 CGTTTGGCTCTGCTTCTGC 59.791 57.895 0.00 0.00 40.20 4.26
869 1334 1.208614 GCGTTTGGCTCTGCTTCTG 59.791 57.895 0.00 0.00 39.11 3.02
872 1337 1.799258 CTTGGCGTTTGGCTCTGCTT 61.799 55.000 0.00 0.00 42.94 3.91
879 1344 2.945398 TTTGCGTCTTGGCGTTTGGC 62.945 55.000 0.00 0.00 42.51 4.52
950 1418 0.890996 CCGAGGAAAAGTTGCAGCCT 60.891 55.000 0.00 0.00 0.00 4.58
980 1449 4.506654 CCATTTGCTATATATACGCGGACC 59.493 45.833 12.47 0.00 0.00 4.46
985 1454 6.806751 TCCTCTCCATTTGCTATATATACGC 58.193 40.000 7.04 7.04 0.00 4.42
986 1455 6.920758 GCTCCTCTCCATTTGCTATATATACG 59.079 42.308 0.00 0.00 0.00 3.06
987 1456 7.925483 CAGCTCCTCTCCATTTGCTATATATAC 59.075 40.741 0.00 0.00 0.00 1.47
1076 1553 1.841103 GCCTGATCCTCCTCCTCCC 60.841 68.421 0.00 0.00 0.00 4.30
1077 1554 1.841103 GGCCTGATCCTCCTCCTCC 60.841 68.421 0.00 0.00 0.00 4.30
1078 1555 0.692419 TTGGCCTGATCCTCCTCCTC 60.692 60.000 3.32 0.00 0.00 3.71
1116 1593 2.446036 ACCAGCTCCCGTATCCCC 60.446 66.667 0.00 0.00 0.00 4.81
1169 1646 3.121030 CGAGCTGCCGGAACTTGG 61.121 66.667 5.05 0.00 0.00 3.61
1390 1886 2.995939 TCAGAAACTCGTATGCTTGCTG 59.004 45.455 0.00 0.00 0.00 4.41
1449 1949 0.034059 AAACCTCGCTGTGGAGTCTG 59.966 55.000 4.13 0.00 31.98 3.51
1451 1951 0.318762 AGAAACCTCGCTGTGGAGTC 59.681 55.000 4.13 0.00 31.98 3.36
1497 2003 2.762459 TACTGGGGCTAGGCGTGG 60.762 66.667 10.58 4.96 0.00 4.94
1504 2010 5.975988 AAATCTGAATTCTACTGGGGCTA 57.024 39.130 7.05 0.00 0.00 3.93
1554 2060 7.963532 TCAGTTAGACAAAGGACAGAAATAGT 58.036 34.615 0.00 0.00 0.00 2.12
1607 2114 7.714813 ACTTACTGCAAAGTGGCAAATAAAAAT 59.285 29.630 2.97 0.00 44.40 1.82
2005 2512 5.474825 ACCAAAAAGCAAAATATACACCCG 58.525 37.500 0.00 0.00 0.00 5.28
2027 2534 5.399892 CCGAAGAGCTATTACATCTTTCGAC 59.600 44.000 0.00 0.00 33.53 4.20
2141 2649 5.479375 CAGAGGGAGTACTTGTTAGGTGTTA 59.521 44.000 0.00 0.00 0.00 2.41
2159 2667 6.281405 ACAAATATAAGAGCGTTACAGAGGG 58.719 40.000 0.00 0.00 0.00 4.30
2187 2695 5.880887 GGACCTTAACTTGTTATTCCCTCTG 59.119 44.000 0.00 0.00 0.00 3.35
2188 2696 5.791141 AGGACCTTAACTTGTTATTCCCTCT 59.209 40.000 0.00 0.00 0.00 3.69
2189 2697 6.063496 AGGACCTTAACTTGTTATTCCCTC 57.937 41.667 0.00 0.00 0.00 4.30
2191 2699 8.818622 AAATAGGACCTTAACTTGTTATTCCC 57.181 34.615 0.00 0.00 0.00 3.97
2192 2700 9.682465 AGAAATAGGACCTTAACTTGTTATTCC 57.318 33.333 0.00 2.29 0.00 3.01
2218 3005 9.360901 TGCAAATATTTGTAGGGAAGCATATTA 57.639 29.630 25.15 0.00 40.24 0.98
2316 3103 2.027745 CAGGGTGTACAGCTGAAGTCAT 60.028 50.000 23.35 0.00 0.00 3.06
2326 3113 3.380479 TCGTCTTTTCAGGGTGTACAG 57.620 47.619 0.00 0.00 0.00 2.74
2329 3116 3.512329 TGCTATCGTCTTTTCAGGGTGTA 59.488 43.478 0.00 0.00 0.00 2.90
2331 3118 2.972625 TGCTATCGTCTTTTCAGGGTG 58.027 47.619 0.00 0.00 0.00 4.61
2347 3134 0.334335 TGGCCCATGGAATGTTGCTA 59.666 50.000 15.22 1.20 44.81 3.49
2354 3141 1.852309 TGTCTGTATGGCCCATGGAAT 59.148 47.619 15.22 6.54 0.00 3.01
2358 3145 1.671979 CTGTGTCTGTATGGCCCATG 58.328 55.000 6.46 0.00 0.00 3.66
2388 3177 5.167303 ACCACAACTTTTCTATCCTCTCC 57.833 43.478 0.00 0.00 0.00 3.71
2389 3178 5.106515 GCAACCACAACTTTTCTATCCTCTC 60.107 44.000 0.00 0.00 0.00 3.20
2421 3210 0.723414 ATCATCGTCTGCAAAGCACG 59.277 50.000 0.00 0.00 33.79 5.34
2422 3211 1.063174 GGATCATCGTCTGCAAAGCAC 59.937 52.381 0.00 0.00 33.79 4.40
2424 3213 1.661341 AGGATCATCGTCTGCAAAGC 58.339 50.000 0.00 0.00 0.00 3.51
2428 3217 1.389555 ACGTAGGATCATCGTCTGCA 58.610 50.000 0.00 0.00 32.26 4.41
2460 3249 3.142174 GGAGATTGGATAGCGAAAAGGG 58.858 50.000 0.00 0.00 0.00 3.95
2571 3360 1.075374 CCAATGGGGTTCCTGAACTCA 59.925 52.381 11.73 9.75 43.44 3.41
2625 3414 4.766891 TGAGGAAAAACTGATAAAGGCTGG 59.233 41.667 0.00 0.00 0.00 4.85
2626 3415 5.964958 TGAGGAAAAACTGATAAAGGCTG 57.035 39.130 0.00 0.00 0.00 4.85
2674 3463 4.470602 TCGGAAGCTATTGACAGGATCTA 58.529 43.478 0.00 0.00 0.00 1.98
2688 3477 0.815615 GGGCATCGATTTCGGAAGCT 60.816 55.000 0.00 0.00 40.29 3.74
2689 3478 1.095228 TGGGCATCGATTTCGGAAGC 61.095 55.000 0.00 0.00 40.29 3.86
2708 3497 5.694006 GCGTTGCTAAGTCAGATAGATTGAT 59.306 40.000 0.00 0.00 0.00 2.57
2709 3498 5.043903 GCGTTGCTAAGTCAGATAGATTGA 58.956 41.667 0.00 0.00 0.00 2.57
2711 3500 5.011090 TGCGTTGCTAAGTCAGATAGATT 57.989 39.130 0.00 0.00 0.00 2.40
2728 3517 8.303876 ACATTACATAGATTTTCCTTTTGCGTT 58.696 29.630 0.00 0.00 0.00 4.84
2729 3518 7.754924 CACATTACATAGATTTTCCTTTTGCGT 59.245 33.333 0.00 0.00 0.00 5.24
2737 3526 5.168526 TGCGCACATTACATAGATTTTCC 57.831 39.130 5.66 0.00 0.00 3.13
2738 3527 6.429624 TCATGCGCACATTACATAGATTTTC 58.570 36.000 14.90 0.00 32.87 2.29
2748 3537 3.220773 CGATCATTCATGCGCACATTAC 58.779 45.455 14.90 0.00 32.87 1.89
2755 3544 3.793776 TTGATACGATCATTCATGCGC 57.206 42.857 0.00 0.00 39.39 6.09
2810 3599 0.984230 TTCCACTAACTCAGGGCCTG 59.016 55.000 28.01 28.01 0.00 4.85
2863 3652 0.606096 TCCTTCAACGCGATTCAGGA 59.394 50.000 15.93 15.23 0.00 3.86
2864 3653 1.394917 CTTCCTTCAACGCGATTCAGG 59.605 52.381 15.93 12.96 0.00 3.86
2873 3662 1.238439 ACATGTGCCTTCCTTCAACG 58.762 50.000 0.00 0.00 0.00 4.10
2874 3663 4.846779 TTAACATGTGCCTTCCTTCAAC 57.153 40.909 0.00 0.00 0.00 3.18
2879 3669 4.215109 ACTGTTTTAACATGTGCCTTCCT 58.785 39.130 0.00 0.00 38.41 3.36
2907 3697 0.034089 CAATTCACCCCTCCTCCCAC 60.034 60.000 0.00 0.00 0.00 4.61
2909 3699 1.615262 CCAATTCACCCCTCCTCCC 59.385 63.158 0.00 0.00 0.00 4.30
2913 3703 0.548510 CTCTCCCAATTCACCCCTCC 59.451 60.000 0.00 0.00 0.00 4.30
2924 3714 3.432186 CGCAGAATTCATACCTCTCCCAA 60.432 47.826 8.44 0.00 0.00 4.12
2959 3749 8.639761 TGCTGGACTAATTAATCTTACTCCTAC 58.360 37.037 0.00 0.00 0.00 3.18
2960 3750 8.777578 TGCTGGACTAATTAATCTTACTCCTA 57.222 34.615 0.00 0.00 0.00 2.94
2961 3751 7.202047 CCTGCTGGACTAATTAATCTTACTCCT 60.202 40.741 2.92 0.00 34.57 3.69
2962 3752 6.931840 CCTGCTGGACTAATTAATCTTACTCC 59.068 42.308 2.92 0.00 34.57 3.85
2964 3754 7.439108 ACCTGCTGGACTAATTAATCTTACT 57.561 36.000 17.64 0.00 37.04 2.24
3063 3860 6.338146 CAAGTGTCTATCCTGTCCGAAATTA 58.662 40.000 0.00 0.00 0.00 1.40
3066 3863 3.056107 CCAAGTGTCTATCCTGTCCGAAA 60.056 47.826 0.00 0.00 0.00 3.46
3070 3867 2.832129 TGTCCAAGTGTCTATCCTGTCC 59.168 50.000 0.00 0.00 0.00 4.02
3223 4020 3.584406 TCCTCTCTGAATTTGAGCTTGGA 59.416 43.478 0.00 8.48 0.00 3.53
3224 4021 3.947868 TCCTCTCTGAATTTGAGCTTGG 58.052 45.455 0.00 6.90 0.00 3.61
3228 4025 4.141756 TGAGGATCCTCTCTGAATTTGAGC 60.142 45.833 35.84 11.24 43.12 4.26
3373 5197 5.128827 TCCCTAAAGCAGTGATCTAAACGAT 59.871 40.000 0.00 0.00 34.25 3.73
3374 5198 4.464951 TCCCTAAAGCAGTGATCTAAACGA 59.535 41.667 0.00 0.00 0.00 3.85
3375 5199 4.755411 TCCCTAAAGCAGTGATCTAAACG 58.245 43.478 0.00 0.00 0.00 3.60
3376 5200 6.587273 AGATCCCTAAAGCAGTGATCTAAAC 58.413 40.000 0.00 0.00 40.14 2.01
3377 5201 6.814954 AGATCCCTAAAGCAGTGATCTAAA 57.185 37.500 0.00 0.00 40.14 1.85
3378 5202 7.298374 TCTAGATCCCTAAAGCAGTGATCTAA 58.702 38.462 0.00 0.00 41.79 2.10
3379 5203 6.853490 TCTAGATCCCTAAAGCAGTGATCTA 58.147 40.000 0.00 0.00 41.62 1.98
3380 5204 5.710646 TCTAGATCCCTAAAGCAGTGATCT 58.289 41.667 0.00 0.00 43.31 2.75
3381 5205 6.210385 TCATCTAGATCCCTAAAGCAGTGATC 59.790 42.308 1.03 0.00 33.63 2.92
3382 5206 6.080682 TCATCTAGATCCCTAAAGCAGTGAT 58.919 40.000 1.03 0.00 0.00 3.06
3383 5207 5.458595 TCATCTAGATCCCTAAAGCAGTGA 58.541 41.667 1.03 0.00 0.00 3.41
3384 5208 5.798125 TCATCTAGATCCCTAAAGCAGTG 57.202 43.478 1.03 0.00 0.00 3.66
3385 5209 6.603940 GATCATCTAGATCCCTAAAGCAGT 57.396 41.667 1.03 0.00 46.10 4.40
3415 5239 9.162764 GCAGAAATGTACTCCTTCTGTAAATTA 57.837 33.333 22.15 0.00 45.13 1.40
3416 5240 7.885399 AGCAGAAATGTACTCCTTCTGTAAATT 59.115 33.333 22.15 9.45 45.13 1.82
3417 5241 7.398024 AGCAGAAATGTACTCCTTCTGTAAAT 58.602 34.615 22.15 11.18 45.13 1.40
3418 5242 6.769512 AGCAGAAATGTACTCCTTCTGTAAA 58.230 36.000 22.15 0.00 45.13 2.01
3419 5243 6.211584 AGAGCAGAAATGTACTCCTTCTGTAA 59.788 38.462 22.15 0.00 45.13 2.41
3420 5244 5.717178 AGAGCAGAAATGTACTCCTTCTGTA 59.283 40.000 22.15 0.00 45.13 2.74
3421 5245 4.530161 AGAGCAGAAATGTACTCCTTCTGT 59.470 41.667 22.15 14.41 45.13 3.41
3422 5246 5.083533 AGAGCAGAAATGTACTCCTTCTG 57.916 43.478 19.42 19.42 45.78 3.02
3423 5247 5.022787 AGAGAGCAGAAATGTACTCCTTCT 58.977 41.667 0.00 0.00 0.00 2.85
3424 5248 5.337578 AGAGAGCAGAAATGTACTCCTTC 57.662 43.478 0.00 0.00 0.00 3.46
3425 5249 5.753721 AAGAGAGCAGAAATGTACTCCTT 57.246 39.130 0.00 0.00 0.00 3.36
3426 5250 5.717178 TGTAAGAGAGCAGAAATGTACTCCT 59.283 40.000 0.00 0.00 0.00 3.69
3427 5251 5.808030 GTGTAAGAGAGCAGAAATGTACTCC 59.192 44.000 0.00 0.00 0.00 3.85
3428 5252 5.513495 CGTGTAAGAGAGCAGAAATGTACTC 59.487 44.000 0.00 0.00 0.00 2.59
3441 5265 5.573282 CAGGTTTGTGATACGTGTAAGAGAG 59.427 44.000 0.00 0.00 0.00 3.20
3587 5415 1.008881 GCGCAGTATCACGATCGGA 60.009 57.895 20.98 13.98 0.00 4.55
3680 5508 0.329596 GGGCATCTTCAGACCCAACT 59.670 55.000 0.00 0.00 42.33 3.16
3814 5646 2.095212 TGTTCAGACATCCGACGAGAAG 60.095 50.000 0.00 0.00 0.00 2.85
3819 5651 3.692791 TCTATGTTCAGACATCCGACG 57.307 47.619 0.00 0.00 42.83 5.12
3977 5809 1.597854 CTGAAGCTGTTCCGCCACA 60.598 57.895 0.00 0.00 0.00 4.17
4124 5956 2.945008 CCATCAGTGTTGCCGATAACAT 59.055 45.455 7.52 0.00 42.02 2.71
4201 6040 2.224159 TCCTTGGGCGCCTTCTTCT 61.224 57.895 28.56 0.00 0.00 2.85
4308 6147 0.102120 TGTGCCGGCTGAAACAAAAG 59.898 50.000 29.70 0.00 0.00 2.27
4331 6170 3.883489 TCTCCAGTATACATCACCGTCTG 59.117 47.826 5.50 0.00 0.00 3.51
4336 6175 6.582636 TGTTCATTCTCCAGTATACATCACC 58.417 40.000 5.50 0.00 0.00 4.02
4344 6183 6.947733 TCAAAACCATGTTCATTCTCCAGTAT 59.052 34.615 0.00 0.00 0.00 2.12
4445 6294 4.457257 CAGCTTCTTAAACTCCCCTTCTTG 59.543 45.833 0.00 0.00 0.00 3.02
4452 6301 2.744741 GTCAGCAGCTTCTTAAACTCCC 59.255 50.000 0.00 0.00 0.00 4.30
4459 6308 0.532573 CCTCCGTCAGCAGCTTCTTA 59.467 55.000 0.00 0.00 0.00 2.10
4636 6487 1.341531 CCTTATGCCCACTCTCCTACG 59.658 57.143 0.00 0.00 0.00 3.51
4640 6491 4.887615 GCCTTATGCCCACTCTCC 57.112 61.111 0.00 0.00 0.00 3.71
4694 6546 0.654683 GCAGGAATGCTCGTGATCAC 59.345 55.000 16.21 16.21 39.36 3.06
4723 6575 4.558496 GCATTTCGTCAGGTTCCAATCAAA 60.558 41.667 0.00 0.00 0.00 2.69
4835 6708 5.943706 ACGTAGTGGTATAGCATCAGTAG 57.056 43.478 8.06 1.43 42.51 2.57
4944 8750 4.016444 TGGAGCATCATTTTCTACCCAAC 58.984 43.478 0.00 0.00 36.25 3.77
4979 8785 6.971527 TTCTTTTCGCTTCGAATTATACCA 57.028 33.333 0.00 0.00 45.28 3.25
4980 8786 8.572976 GTTTTTCTTTTCGCTTCGAATTATACC 58.427 33.333 0.00 0.00 45.28 2.73
4984 8790 7.858382 TCATGTTTTTCTTTTCGCTTCGAATTA 59.142 29.630 0.00 0.00 45.28 1.40
5038 8844 5.484715 TCGTGAACCTTAGGAAACTATTGG 58.515 41.667 4.77 0.00 43.94 3.16
5066 8872 5.319139 CAGTGCTTTCGTAGATTCATGTTG 58.681 41.667 0.00 0.00 35.04 3.33
5081 8887 2.107204 ACTCCATGTCTTCCAGTGCTTT 59.893 45.455 0.00 0.00 0.00 3.51
5127 8933 5.912955 CGTATGAACTTTCTGGAACAAAACC 59.087 40.000 0.00 0.00 38.70 3.27
5140 8946 3.747099 GCTGTGATGCGTATGAACTTT 57.253 42.857 0.00 0.00 0.00 2.66
5189 9001 3.316308 TCCGTATAACCTTAGGAAGCGAC 59.684 47.826 4.77 0.00 0.00 5.19
5219 9031 5.236911 GTCCTTTGTGTTACCATTGACGTTA 59.763 40.000 0.00 0.00 0.00 3.18
5222 9034 3.562141 TGTCCTTTGTGTTACCATTGACG 59.438 43.478 0.00 0.00 0.00 4.35
5271 9083 6.091437 CCAAGAAGCAAAAGATTTCTAGCTG 58.909 40.000 0.00 0.00 31.91 4.24
5554 9379 0.393077 ACTGAGGTCACCGGTCAAAG 59.607 55.000 2.59 0.00 0.00 2.77


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

AutoCloner maintained by Alex Coulton.