Multiple sequence alignment - TraesCS3A01G236800

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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 TraesCS3A01G236800 chr3A 100.000 9121 0 0 1 9121 442769360 442760240 0.000000e+00 16844.0
1 TraesCS3A01G236800 chr3A 86.034 179 24 1 2991 3169 745507307 745507484 3.360000e-44 191.0
2 TraesCS3A01G236800 chr3D 96.434 7992 193 21 250 8192 328390574 328382626 0.000000e+00 13095.0
3 TraesCS3A01G236800 chr3D 94.398 714 34 4 8411 9121 328382596 328381886 0.000000e+00 1092.0
4 TraesCS3A01G236800 chr3D 96.450 169 4 2 1 169 328390774 328390608 2.510000e-70 278.0
5 TraesCS3A01G236800 chr3D 95.266 169 8 0 8244 8412 329681754 329681922 1.510000e-67 268.0
6 TraesCS3A01G236800 chr3D 94.706 170 9 0 8248 8417 250054184 250054015 1.950000e-66 265.0
7 TraesCS3A01G236800 chr3D 92.179 179 12 1 8234 8412 161713036 161713212 1.520000e-62 252.0
8 TraesCS3A01G236800 chr3B 96.196 5521 149 24 1 5492 421662283 421667771 0.000000e+00 8975.0
9 TraesCS3A01G236800 chr3B 97.438 2732 61 4 5521 8249 421667770 421670495 0.000000e+00 4649.0
10 TraesCS3A01G236800 chr3B 96.615 709 18 5 8417 9121 421670583 421671289 0.000000e+00 1171.0
11 TraesCS3A01G236800 chr3B 86.667 180 23 1 2991 3169 828415517 828415696 2.010000e-46 198.0
12 TraesCS3A01G236800 chr6A 95.152 165 8 0 8248 8412 115317249 115317413 2.530000e-65 261.0
13 TraesCS3A01G236800 chr4B 95.152 165 8 0 8248 8412 54367162 54366998 2.530000e-65 261.0
14 TraesCS3A01G236800 chr4A 95.152 165 8 0 8248 8412 554788035 554787871 2.530000e-65 261.0
15 TraesCS3A01G236800 chr4D 94.012 167 10 0 8248 8414 243613272 243613438 4.230000e-63 254.0
16 TraesCS3A01G236800 chr2D 89.500 200 16 5 8229 8424 11206008 11206206 1.970000e-61 248.0
17 TraesCS3A01G236800 chr2A 91.620 179 15 0 8238 8416 389220997 389221175 1.970000e-61 248.0
18 TraesCS3A01G236800 chr5A 87.943 141 15 2 8641 8780 267893441 267893580 2.040000e-36 165.0
19 TraesCS3A01G236800 chr1B 85.417 96 14 0 8044 8139 662667299 662667394 5.830000e-17 100.0
20 TraesCS3A01G236800 chr1D 92.857 42 2 1 8051 8091 460611408 460611367 9.890000e-05 60.2


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 TraesCS3A01G236800 chr3A 442760240 442769360 9120 True 16844.000000 16844 100.000000 1 9121 1 chr3A.!!$R1 9120
1 TraesCS3A01G236800 chr3D 328381886 328390774 8888 True 4821.666667 13095 95.760667 1 9121 3 chr3D.!!$R2 9120
2 TraesCS3A01G236800 chr3B 421662283 421671289 9006 False 4931.666667 8975 96.749667 1 9121 3 chr3B.!!$F2 9120

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
522 537 0.179100 ACCTGACGATGCGATCCTTG 60.179 55.000 0.00 0.00 0.00 3.61 F
552 567 0.837940 GTAGGAACCTGGATGGGGAC 59.162 60.000 0.00 0.00 41.11 4.46 F
1109 1136 0.970937 TCCGTCTCCTGCTGGTAAGG 60.971 60.000 9.73 10.64 36.02 2.69 F
2356 2418 1.203001 TCATCCGCCAAAAGGGAGTTT 60.203 47.619 0.00 0.00 40.01 2.66 F
2713 2775 1.568612 AATCAACCACTCAGCACGCG 61.569 55.000 3.53 3.53 0.00 6.01 F
3664 3726 5.536538 TGACCGAGACATCTAATAGCTGATT 59.463 40.000 0.00 0.00 0.00 2.57 F
4622 4684 1.851304 AATGTGGAAATGGATGGCGT 58.149 45.000 0.00 0.00 0.00 5.68 F
6359 6422 1.527380 TTGACGGCCGGAGCTTTTT 60.527 52.632 31.76 4.91 39.73 1.94 F
7142 7208 0.677731 CCGCCTTCTCAAGCAATGGA 60.678 55.000 0.00 0.00 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1608 1665 0.038310 TGGTGTGGTGTGTGGACAAA 59.962 50.000 0.00 0.0 32.49 2.83 R
1641 1698 1.022735 CATGCCAGATCTGCCAGAAC 58.977 55.000 17.76 0.0 0.00 3.01 R
2691 2753 1.069022 CGTGCTGAGTGGTTGATTTGG 60.069 52.381 0.00 0.0 0.00 3.28 R
3894 3956 0.473755 TGGAAGTGTGTGCAGATGGT 59.526 50.000 0.00 0.0 0.00 3.55 R
3895 3957 1.608055 TTGGAAGTGTGTGCAGATGG 58.392 50.000 0.00 0.0 0.00 3.51 R
5623 5686 0.036732 AGGCAGTCTCCAAAATCGCA 59.963 50.000 0.00 0.0 0.00 5.10 R
6591 6657 1.065926 CCACATCTAACTGAGCAGCCA 60.066 52.381 0.00 0.0 0.00 4.75 R
7680 7746 2.248835 CGAGTTTGCCCGTTCGGTT 61.249 57.895 10.36 0.0 0.00 4.44 R
8394 8461 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.0 0.00 4.30 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
77 78 4.651778 AGCACTCCACTGTTTAGCAAATA 58.348 39.130 0.00 0.00 0.00 1.40
123 124 2.288030 GCAGTGCTTGAAGAACAGCATT 60.288 45.455 14.96 0.00 36.40 3.56
142 143 9.060347 ACAGCATTGTCAGGATTTACATAATAG 57.940 33.333 0.00 0.00 29.46 1.73
170 171 2.024414 GACAGCAAAGAAACCCACACT 58.976 47.619 0.00 0.00 0.00 3.55
183 184 1.336755 CCCACACTAGCACACCAAAAC 59.663 52.381 0.00 0.00 0.00 2.43
195 196 5.883673 AGCACACCAAAACTTCAGTACTAAA 59.116 36.000 0.00 0.00 0.00 1.85
212 213 2.405892 AAAGACACAAACATCAGCGC 57.594 45.000 0.00 0.00 0.00 5.92
229 230 6.761099 TCAGCGCCAGGTAATTTAAATAAA 57.239 33.333 2.29 0.00 0.00 1.40
230 231 6.791303 TCAGCGCCAGGTAATTTAAATAAAG 58.209 36.000 2.29 0.00 0.00 1.85
231 232 5.458779 CAGCGCCAGGTAATTTAAATAAAGC 59.541 40.000 2.29 3.15 0.00 3.51
232 233 4.743151 GCGCCAGGTAATTTAAATAAAGCC 59.257 41.667 0.01 2.20 0.00 4.35
322 335 1.000274 AGACAGCAAAACGAAATGGGC 60.000 47.619 0.00 0.00 0.00 5.36
334 347 2.613595 CGAAATGGGCATTCAGATTCGA 59.386 45.455 13.82 0.00 39.80 3.71
344 357 3.808466 TTCAGATTCGACAGGAGGATG 57.192 47.619 0.00 0.00 0.00 3.51
348 361 3.257873 CAGATTCGACAGGAGGATGCTAT 59.742 47.826 0.00 0.00 29.87 2.97
362 375 2.691409 TGCTATGCACTAACCTGGAC 57.309 50.000 0.00 0.00 31.71 4.02
512 527 0.249073 GCAGCGACATACCTGACGAT 60.249 55.000 0.00 0.00 41.98 3.73
522 537 0.179100 ACCTGACGATGCGATCCTTG 60.179 55.000 0.00 0.00 0.00 3.61
552 567 0.837940 GTAGGAACCTGGATGGGGAC 59.162 60.000 0.00 0.00 41.11 4.46
588 603 2.492567 CCTCTCCTATCCCTTCTCCTGG 60.493 59.091 0.00 0.00 0.00 4.45
826 848 1.926511 GAGCGGAGGTGCAAATGTGG 61.927 60.000 0.00 0.00 39.88 4.17
861 883 4.176271 GCTTCTTTGCAAAAACTGTCTGT 58.824 39.130 13.84 0.00 0.00 3.41
923 950 1.653115 GATGTAGATCCGACGGCGT 59.347 57.895 14.65 14.65 35.23 5.68
947 974 5.644636 TGCTAAGTACCCAACTATTTTTCCG 59.355 40.000 0.00 0.00 37.50 4.30
956 983 8.229253 ACCCAACTATTTTTCCGGAATAATAC 57.771 34.615 26.64 0.00 0.00 1.89
998 1025 2.973899 GGTGCTTCTCCGCTCTCA 59.026 61.111 0.00 0.00 0.00 3.27
1109 1136 0.970937 TCCGTCTCCTGCTGGTAAGG 60.971 60.000 9.73 10.64 36.02 2.69
1169 1196 3.335484 TCCCCAGCTAAACTTACCCAATT 59.665 43.478 0.00 0.00 0.00 2.32
1223 1250 5.970140 TCTGTTTCGTTGTCGTCATTTTA 57.030 34.783 0.00 0.00 38.33 1.52
1256 1283 4.003648 AGTACAGAAAGTGGCTGTTATGC 58.996 43.478 0.00 0.00 43.67 3.14
1271 1298 3.694072 TGTTATGCTCACTTATTGTGCCC 59.306 43.478 0.00 0.00 45.81 5.36
1294 1321 3.325870 TGCGAACTTCAGGTATTGTGAG 58.674 45.455 0.00 0.00 0.00 3.51
1296 1323 4.021807 TGCGAACTTCAGGTATTGTGAGTA 60.022 41.667 0.00 0.00 0.00 2.59
1369 1396 5.179533 GCTAGGTATGCTTTATCTTAGCCC 58.820 45.833 0.00 0.00 37.85 5.19
1418 1446 4.933505 TCTCATTTGTGCAAATTCCACA 57.066 36.364 7.36 7.56 38.84 4.17
1487 1544 5.772521 ACATTAACCAAGTCAAGTCATTGC 58.227 37.500 0.00 0.00 36.30 3.56
1578 1635 8.948631 ATCCACATGTGTAGATAAACAGTTAG 57.051 34.615 23.79 3.43 0.00 2.34
1580 1637 8.372459 TCCACATGTGTAGATAAACAGTTAGTT 58.628 33.333 23.79 0.00 43.89 2.24
1608 1665 7.729116 ACACATCAAGTCATTTTGGAAGAATT 58.271 30.769 0.00 0.00 0.00 2.17
1641 1698 7.708752 ACACACCACACCAAAAGTTAAAATATG 59.291 33.333 0.00 0.00 0.00 1.78
2059 2121 7.498239 CCTCTGTGTCATGAATCTCACAATATT 59.502 37.037 15.32 0.00 39.69 1.28
2295 2357 1.407656 TTGGCGCCTCCGATAATCCT 61.408 55.000 29.70 0.00 37.80 3.24
2356 2418 1.203001 TCATCCGCCAAAAGGGAGTTT 60.203 47.619 0.00 0.00 40.01 2.66
2691 2753 6.638468 AGACATGCTTCGTTCTTTCAATTTTC 59.362 34.615 0.00 0.00 0.00 2.29
2713 2775 1.568612 AATCAACCACTCAGCACGCG 61.569 55.000 3.53 3.53 0.00 6.01
2922 2984 7.893658 TCCGTTCTTTGATACTCTAAAACTCT 58.106 34.615 0.00 0.00 0.00 3.24
3010 3072 5.829391 TGGTATGTTCATTGCTCAATATGCT 59.171 36.000 0.00 0.00 0.00 3.79
3261 3323 7.017155 TGCCATGCTAAATTATAGAGACCCTTA 59.983 37.037 0.00 0.00 0.00 2.69
3633 3695 9.762381 ATGTCTATAGTAAACCATTGGGAAAAA 57.238 29.630 7.78 0.00 38.05 1.94
3654 3716 5.677319 AATTTCCTTGACCGAGACATCTA 57.323 39.130 0.00 0.00 0.00 1.98
3664 3726 5.536538 TGACCGAGACATCTAATAGCTGATT 59.463 40.000 0.00 0.00 0.00 2.57
3668 3730 6.146837 CCGAGACATCTAATAGCTGATTTTGG 59.853 42.308 0.00 0.00 0.00 3.28
3858 3920 9.481340 GAGCATTTAAGTACATGATGATACAGA 57.519 33.333 0.00 0.00 0.00 3.41
3888 3950 8.714906 AGGTGTACTGGATTATAAGCTTTGTAT 58.285 33.333 3.20 0.00 0.00 2.29
3889 3951 9.991906 GGTGTACTGGATTATAAGCTTTGTATA 57.008 33.333 3.20 0.00 0.00 1.47
3891 3953 9.991906 TGTACTGGATTATAAGCTTTGTATACC 57.008 33.333 3.20 2.90 0.00 2.73
3902 3964 5.368989 AGCTTTGTATACCTTACCATCTGC 58.631 41.667 0.00 0.00 0.00 4.26
3903 3965 5.104527 AGCTTTGTATACCTTACCATCTGCA 60.105 40.000 0.00 0.00 0.00 4.41
3904 3966 5.007724 GCTTTGTATACCTTACCATCTGCAC 59.992 44.000 0.00 0.00 0.00 4.57
4212 4274 2.746472 GCATAACAGGTCATGGGAGTCC 60.746 54.545 0.00 0.00 0.00 3.85
4260 4322 7.281774 GGTCATTGTCTGTTCATGATGTTATCT 59.718 37.037 0.00 0.00 0.00 1.98
4571 4633 6.828785 AGAAACAAACTGAGGACTTGTATTGT 59.171 34.615 0.00 0.00 33.05 2.71
4622 4684 1.851304 AATGTGGAAATGGATGGCGT 58.149 45.000 0.00 0.00 0.00 5.68
4784 4847 8.141268 CCTTTTTGTATGATTTACCAACTGTGT 58.859 33.333 0.00 0.00 0.00 3.72
4908 4971 9.803315 GAGTGTTTACAGAAAGAAGGAAATTTT 57.197 29.630 0.00 0.00 0.00 1.82
4950 5013 2.022934 GATAACTTCGGTCCGAGTCCT 58.977 52.381 14.79 3.47 37.14 3.85
5326 5389 8.574309 AGAAATCTAAGGAATTCAGGACCTAT 57.426 34.615 7.93 0.00 34.71 2.57
5503 5566 2.618442 ACTTTGGTCGTCCGGTTTTA 57.382 45.000 0.00 0.00 36.30 1.52
5623 5686 6.635021 ACAGGTATACTTTCTAGATGGGGAT 58.365 40.000 2.25 0.00 0.00 3.85
5736 5799 5.512060 CCGTCCTATCCATCATCATGTTCTT 60.512 44.000 0.00 0.00 0.00 2.52
5837 5900 9.941664 CCTTGCAAGAATTCATTAACATAGTAG 57.058 33.333 28.05 0.00 0.00 2.57
5945 6008 6.024563 TGATTCAATATGGCCCCTTAGAAA 57.975 37.500 0.00 0.00 0.00 2.52
6206 6269 5.319043 AGACCAAGTAAATCTGGTTTCCA 57.681 39.130 0.00 0.00 34.38 3.53
6220 6283 2.163613 GGTTTCCATTCATTCGGTCCAC 59.836 50.000 0.00 0.00 0.00 4.02
6357 6420 2.668550 GTTGACGGCCGGAGCTTT 60.669 61.111 31.76 6.78 39.73 3.51
6358 6421 2.112297 TTGACGGCCGGAGCTTTT 59.888 55.556 31.76 5.85 39.73 2.27
6359 6422 1.527380 TTGACGGCCGGAGCTTTTT 60.527 52.632 31.76 4.91 39.73 1.94
6591 6657 1.827315 CGAATGTTGTGTGACGCCGT 61.827 55.000 0.00 0.00 0.00 5.68
6647 6713 1.434555 CGTAGCATCCGTTCACCAAA 58.565 50.000 0.00 0.00 0.00 3.28
6678 6744 3.793775 TTCTTCGCGTGCCCGTTGA 62.794 57.895 5.77 0.00 36.15 3.18
6704 6770 0.963355 GTTTTATGGCCAGGACCGCA 60.963 55.000 13.05 0.00 0.00 5.69
6737 6803 2.172717 GTTGGTGCTATATCTGGGTGGT 59.827 50.000 0.00 0.00 0.00 4.16
6797 6863 0.824759 GCAGGTCTAGTTGTCCGGAT 59.175 55.000 7.81 0.00 0.00 4.18
6831 6897 1.202417 ACCCTGTGATCGTTAGATGCG 60.202 52.381 0.00 0.00 37.19 4.73
6878 6944 7.094205 ACACCCAAGATTAATCTCAATGAACAC 60.094 37.037 18.19 0.00 35.76 3.32
6906 6972 6.813649 GCTGTATCAAGATTAGAGTTGTGTGA 59.186 38.462 0.00 0.00 0.00 3.58
7069 7135 7.992180 AGATCAAAGCAACTGTTTTAACAAG 57.008 32.000 0.00 0.00 38.66 3.16
7142 7208 0.677731 CCGCCTTCTCAAGCAATGGA 60.678 55.000 0.00 0.00 0.00 3.41
7245 7311 2.172851 TCCGTGCCGTCAAATAGTTT 57.827 45.000 0.00 0.00 0.00 2.66
7254 7320 4.851558 GCCGTCAAATAGTTTCATGTGTTC 59.148 41.667 0.00 0.00 0.00 3.18
7410 7476 1.078143 AAGGAAGATGACCAGCGGC 60.078 57.895 0.00 0.00 0.00 6.53
7680 7746 5.179368 GCTATTTGCGCCATCTAGTTTCATA 59.821 40.000 4.18 0.00 0.00 2.15
7838 7904 4.988716 ACCGTCCGCACCCTGAGA 62.989 66.667 0.00 0.00 0.00 3.27
7905 7971 3.054875 TCATGGCAGTAGTCAAGAATGCT 60.055 43.478 0.00 0.00 37.08 3.79
7988 8054 0.964358 AGCACCTCCAAAGCATCAGC 60.964 55.000 0.00 0.00 42.56 4.26
8009 8075 3.007635 CGGTAGGTTCATGGAGGAAAAC 58.992 50.000 0.00 0.00 0.00 2.43
8192 8259 3.181474 CCCTACAGTTCTAAGGTAGCAGC 60.181 52.174 0.00 0.00 34.55 5.25
8253 8320 9.747293 GTATGTTACTCTTTGTAATCTACTCCC 57.253 37.037 0.00 0.00 42.36 4.30
8254 8321 8.611051 ATGTTACTCTTTGTAATCTACTCCCT 57.389 34.615 0.00 0.00 42.36 4.20
8255 8322 8.064336 TGTTACTCTTTGTAATCTACTCCCTC 57.936 38.462 0.00 0.00 42.36 4.30
8256 8323 7.123847 TGTTACTCTTTGTAATCTACTCCCTCC 59.876 40.741 0.00 0.00 42.36 4.30
8257 8324 4.645588 ACTCTTTGTAATCTACTCCCTCCG 59.354 45.833 0.00 0.00 0.00 4.63
8258 8325 4.607239 TCTTTGTAATCTACTCCCTCCGT 58.393 43.478 0.00 0.00 0.00 4.69
8259 8326 5.021458 TCTTTGTAATCTACTCCCTCCGTT 58.979 41.667 0.00 0.00 0.00 4.44
8260 8327 4.996788 TTGTAATCTACTCCCTCCGTTC 57.003 45.455 0.00 0.00 0.00 3.95
8261 8328 3.294214 TGTAATCTACTCCCTCCGTTCC 58.706 50.000 0.00 0.00 0.00 3.62
8262 8329 2.850695 AATCTACTCCCTCCGTTCCT 57.149 50.000 0.00 0.00 0.00 3.36
8263 8330 3.967467 AATCTACTCCCTCCGTTCCTA 57.033 47.619 0.00 0.00 0.00 2.94
8264 8331 3.967467 ATCTACTCCCTCCGTTCCTAA 57.033 47.619 0.00 0.00 0.00 2.69
8265 8332 3.744940 TCTACTCCCTCCGTTCCTAAA 57.255 47.619 0.00 0.00 0.00 1.85
8266 8333 4.261411 TCTACTCCCTCCGTTCCTAAAT 57.739 45.455 0.00 0.00 0.00 1.40
8267 8334 5.393068 TCTACTCCCTCCGTTCCTAAATA 57.607 43.478 0.00 0.00 0.00 1.40
8268 8335 5.961897 TCTACTCCCTCCGTTCCTAAATAT 58.038 41.667 0.00 0.00 0.00 1.28
8269 8336 7.095183 TCTACTCCCTCCGTTCCTAAATATA 57.905 40.000 0.00 0.00 0.00 0.86
8270 8337 7.529555 TCTACTCCCTCCGTTCCTAAATATAA 58.470 38.462 0.00 0.00 0.00 0.98
8271 8338 6.667558 ACTCCCTCCGTTCCTAAATATAAG 57.332 41.667 0.00 0.00 0.00 1.73
8272 8339 6.141790 ACTCCCTCCGTTCCTAAATATAAGT 58.858 40.000 0.00 0.00 0.00 2.24
8273 8340 6.267242 ACTCCCTCCGTTCCTAAATATAAGTC 59.733 42.308 0.00 0.00 0.00 3.01
8274 8341 5.541484 TCCCTCCGTTCCTAAATATAAGTCC 59.459 44.000 0.00 0.00 0.00 3.85
8275 8342 5.543020 CCCTCCGTTCCTAAATATAAGTCCT 59.457 44.000 0.00 0.00 0.00 3.85
8276 8343 6.042897 CCCTCCGTTCCTAAATATAAGTCCTT 59.957 42.308 0.00 0.00 0.00 3.36
8277 8344 7.419865 CCCTCCGTTCCTAAATATAAGTCCTTT 60.420 40.741 0.00 0.00 0.00 3.11
8278 8345 7.991460 CCTCCGTTCCTAAATATAAGTCCTTTT 59.009 37.037 0.00 0.00 0.00 2.27
8310 8377 9.566530 TTTCAAATGAAATACAACATACGGATG 57.433 29.630 5.94 5.94 38.94 3.51
8312 8379 9.384764 TCAAATGAAATACAACATACGGATGTA 57.615 29.630 15.10 0.00 45.93 2.29
8330 8397 9.261180 ACGGATGTATGTAGACATATTTTGAAG 57.739 33.333 5.69 0.00 40.18 3.02
8331 8398 9.261180 CGGATGTATGTAGACATATTTTGAAGT 57.739 33.333 5.69 0.00 40.18 3.01
8354 8421 8.425577 AGTGTAGATTCATTCATTTTACTCCG 57.574 34.615 0.00 0.00 0.00 4.63
8355 8422 8.041323 AGTGTAGATTCATTCATTTTACTCCGT 58.959 33.333 0.00 0.00 0.00 4.69
8356 8423 9.309516 GTGTAGATTCATTCATTTTACTCCGTA 57.690 33.333 0.00 0.00 0.00 4.02
8359 8426 8.964476 AGATTCATTCATTTTACTCCGTATGT 57.036 30.769 0.00 0.00 0.00 2.29
8362 8429 9.832445 ATTCATTCATTTTACTCCGTATGTAGT 57.168 29.630 0.00 0.00 0.00 2.73
8363 8430 9.661563 TTCATTCATTTTACTCCGTATGTAGTT 57.338 29.630 0.00 0.00 0.00 2.24
8368 8435 9.577110 TCATTTTACTCCGTATGTAGTTACTTG 57.423 33.333 0.00 0.00 0.00 3.16
8369 8436 8.814235 CATTTTACTCCGTATGTAGTTACTTGG 58.186 37.037 0.00 0.00 0.00 3.61
8370 8437 7.466746 TTTACTCCGTATGTAGTTACTTGGT 57.533 36.000 0.00 0.00 0.00 3.67
8371 8438 5.320549 ACTCCGTATGTAGTTACTTGGTG 57.679 43.478 0.00 0.00 0.00 4.17
8372 8439 4.159135 ACTCCGTATGTAGTTACTTGGTGG 59.841 45.833 0.00 0.00 0.00 4.61
8373 8440 4.343231 TCCGTATGTAGTTACTTGGTGGA 58.657 43.478 0.00 0.00 0.00 4.02
8374 8441 4.771577 TCCGTATGTAGTTACTTGGTGGAA 59.228 41.667 0.00 0.00 0.00 3.53
8375 8442 5.422970 TCCGTATGTAGTTACTTGGTGGAAT 59.577 40.000 0.00 0.00 0.00 3.01
8376 8443 5.751990 CCGTATGTAGTTACTTGGTGGAATC 59.248 44.000 0.00 0.00 0.00 2.52
8377 8444 6.406624 CCGTATGTAGTTACTTGGTGGAATCT 60.407 42.308 0.00 0.00 0.00 2.40
8378 8445 6.696148 CGTATGTAGTTACTTGGTGGAATCTC 59.304 42.308 0.00 0.00 0.00 2.75
8379 8446 6.875972 ATGTAGTTACTTGGTGGAATCTCT 57.124 37.500 0.00 0.00 0.00 3.10
8380 8447 7.973048 ATGTAGTTACTTGGTGGAATCTCTA 57.027 36.000 0.00 0.00 0.00 2.43
8381 8448 7.406031 TGTAGTTACTTGGTGGAATCTCTAG 57.594 40.000 0.00 0.00 0.00 2.43
8382 8449 7.179966 TGTAGTTACTTGGTGGAATCTCTAGA 58.820 38.462 0.00 0.00 0.00 2.43
8383 8450 7.672660 TGTAGTTACTTGGTGGAATCTCTAGAA 59.327 37.037 0.00 0.00 0.00 2.10
8384 8451 7.554959 AGTTACTTGGTGGAATCTCTAGAAA 57.445 36.000 0.00 0.00 0.00 2.52
8385 8452 7.616313 AGTTACTTGGTGGAATCTCTAGAAAG 58.384 38.462 0.00 0.00 0.00 2.62
8386 8453 7.455008 AGTTACTTGGTGGAATCTCTAGAAAGA 59.545 37.037 0.00 0.00 0.00 2.52
8387 8454 6.043854 ACTTGGTGGAATCTCTAGAAAGAC 57.956 41.667 0.00 0.00 0.00 3.01
8388 8455 5.782845 ACTTGGTGGAATCTCTAGAAAGACT 59.217 40.000 0.00 0.00 0.00 3.24
8389 8456 6.271159 ACTTGGTGGAATCTCTAGAAAGACTT 59.729 38.462 0.00 0.00 0.00 3.01
8390 8457 7.455008 ACTTGGTGGAATCTCTAGAAAGACTTA 59.545 37.037 0.00 0.00 0.00 2.24
8391 8458 7.979786 TGGTGGAATCTCTAGAAAGACTTAT 57.020 36.000 0.00 0.00 0.00 1.73
8392 8459 9.488762 TTGGTGGAATCTCTAGAAAGACTTATA 57.511 33.333 0.00 0.00 0.00 0.98
8393 8460 9.661954 TGGTGGAATCTCTAGAAAGACTTATAT 57.338 33.333 0.00 0.00 0.00 0.86
8419 8486 3.119209 GGAACGGAGGGAGTAGTTTGTAG 60.119 52.174 0.00 0.00 0.00 2.74
8571 8723 9.716507 ATATATAGAAAACAAACGCAACATGAC 57.283 29.630 0.00 0.00 0.00 3.06
8609 8761 7.854916 CAGAAAAGTGTGAGCTAAAAAGAAGAG 59.145 37.037 0.00 0.00 0.00 2.85
8860 9014 9.042450 TGGTCCTATAGAAAGAATCAAGTGTAA 57.958 33.333 0.00 0.00 0.00 2.41
8931 9086 6.469782 AAGATTCAAGTTTGGAACACATGT 57.530 33.333 0.00 0.00 39.29 3.21
9013 9168 5.449041 CGTCATGGAGGTTCACAATATTTGG 60.449 44.000 0.00 0.00 34.12 3.28
9065 9220 2.057137 TGCCAGCAAGAGACAAAACT 57.943 45.000 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 2.638480 TGCTAAACAGTGGAGTGCTT 57.362 45.000 0.00 0.00 0.00 3.91
77 78 7.116805 GCAATTGCAAGCTGAAAGTAAAGTTAT 59.883 33.333 25.36 0.00 41.59 1.89
142 143 4.023107 GGGTTTCTTTGCTGTCTAACTTCC 60.023 45.833 0.00 0.00 0.00 3.46
170 171 5.031066 AGTACTGAAGTTTTGGTGTGCTA 57.969 39.130 0.00 0.00 0.00 3.49
183 184 8.365399 TGATGTTTGTGTCTTTAGTACTGAAG 57.635 34.615 18.82 18.82 0.00 3.02
195 196 0.534877 TGGCGCTGATGTTTGTGTCT 60.535 50.000 7.64 0.00 0.00 3.41
212 213 6.702716 TCCGGCTTTATTTAAATTACCTGG 57.297 37.500 5.91 5.92 0.00 4.45
232 233 0.028110 GCTAAAGAAGCCGCATTCCG 59.972 55.000 0.00 0.00 46.25 4.30
312 325 2.355756 CGAATCTGAATGCCCATTTCGT 59.644 45.455 0.00 0.00 32.12 3.85
322 335 3.808466 TCCTCCTGTCGAATCTGAATG 57.192 47.619 0.00 0.00 0.00 2.67
334 347 1.504912 AGTGCATAGCATCCTCCTGT 58.495 50.000 0.00 0.00 41.91 4.00
344 357 2.691409 TGTCCAGGTTAGTGCATAGC 57.309 50.000 0.00 0.00 0.00 2.97
348 361 3.118408 GGTATCATGTCCAGGTTAGTGCA 60.118 47.826 0.00 0.00 0.00 4.57
362 375 0.778223 CGACGATGTGCGGTATCATG 59.222 55.000 0.00 0.00 46.49 3.07
522 537 2.962421 CAGGTTCCTACTCCAGATCCTC 59.038 54.545 0.00 0.00 0.00 3.71
552 567 2.562298 GGAGAGGATGATACTGCTCCAG 59.438 54.545 14.51 0.00 41.14 3.86
608 623 1.607251 CGGTCATATTTCGGTAGGGGC 60.607 57.143 0.00 0.00 0.00 5.80
826 848 3.998156 GAAGCCCCTTCGGTTTCC 58.002 61.111 0.00 0.00 44.08 3.13
861 883 0.833409 TCAGTCTGAGGCTGAAGGCA 60.833 55.000 15.33 0.00 44.01 4.75
923 950 5.644636 CGGAAAAATAGTTGGGTACTTAGCA 59.355 40.000 0.00 0.00 38.33 3.49
1073 1100 4.127040 AGCTCTCAGTGCGGCTCG 62.127 66.667 0.00 0.00 35.28 5.03
1109 1136 2.045926 AGAGGCCGTGTGGATTGC 60.046 61.111 0.00 0.00 37.49 3.56
1169 1196 5.965922 TCAAAGCTGATTTAGATCGAGTGA 58.034 37.500 0.00 0.00 34.91 3.41
1201 1228 4.868450 AAAATGACGACAACGAAACAGA 57.132 36.364 0.00 0.00 42.66 3.41
1223 1250 8.759782 AGCCACTTTCTGTACTAATACTAACAT 58.240 33.333 0.00 0.00 32.00 2.71
1240 1267 3.077359 AGTGAGCATAACAGCCACTTTC 58.923 45.455 0.00 0.00 40.60 2.62
1271 1298 3.684305 TCACAATACCTGAAGTTCGCATG 59.316 43.478 0.00 0.00 0.00 4.06
1294 1321 8.996988 TGTCGTTGAAGACATAAATTTTGTAC 57.003 30.769 0.00 0.00 45.18 2.90
1418 1446 2.092429 TGCCAAGGAAAATCGGAGCTAT 60.092 45.455 0.00 0.00 0.00 2.97
1487 1544 5.610982 GCAAAAGAAATGTCGCAAACAGATG 60.611 40.000 0.00 0.00 42.37 2.90
1578 1635 4.911610 CCAAAATGACTTGATGTGTCGAAC 59.088 41.667 0.00 0.00 37.26 3.95
1580 1637 4.384940 TCCAAAATGACTTGATGTGTCGA 58.615 39.130 0.00 0.00 37.26 4.20
1608 1665 0.038310 TGGTGTGGTGTGTGGACAAA 59.962 50.000 0.00 0.00 32.49 2.83
1641 1698 1.022735 CATGCCAGATCTGCCAGAAC 58.977 55.000 17.76 0.00 0.00 3.01
2059 2121 6.462552 TTATTTAAGCAGCAACATGGCATA 57.537 33.333 0.00 0.00 35.83 3.14
2317 2379 7.307101 GCGGATGAAGAAAACAAAGCATTTTTA 60.307 33.333 0.00 0.00 35.03 1.52
2476 2538 7.989741 ACCAATGAACTAGGAAGATACAGATTG 59.010 37.037 0.00 0.00 0.00 2.67
2557 2619 9.755804 TGAAAATTGCAACAGAACAATATAACA 57.244 25.926 0.00 0.00 35.49 2.41
2691 2753 1.069022 CGTGCTGAGTGGTTGATTTGG 60.069 52.381 0.00 0.00 0.00 3.28
2713 2775 3.010420 GGGAGCCTACAATGAGTGAAAC 58.990 50.000 0.00 0.00 0.00 2.78
3010 3072 1.749063 CATCTGTACACCCTCGCTGTA 59.251 52.381 0.00 0.00 0.00 2.74
3203 3265 7.167968 CACATATTGAAAATAGATGTTTGCGGG 59.832 37.037 0.00 0.00 0.00 6.13
3261 3323 7.392673 ACATGTGATTCTTTTTATCTGAGCACT 59.607 33.333 0.00 0.00 0.00 4.40
3340 3402 4.710324 CACCAAGGGTCACTACAACTTAA 58.290 43.478 0.00 0.00 31.02 1.85
3633 3695 5.677319 TTAGATGTCTCGGTCAAGGAAAT 57.323 39.130 0.00 0.00 0.00 2.17
3668 3730 9.716531 ATGGTAAAACAACCTACTAGTAAAGAC 57.283 33.333 3.76 0.00 40.44 3.01
3858 3920 7.380423 AGCTTATAATCCAGTACACCTTGAT 57.620 36.000 0.00 0.00 0.00 2.57
3888 3950 2.903784 AGTGTGTGCAGATGGTAAGGTA 59.096 45.455 0.00 0.00 0.00 3.08
3889 3951 1.699634 AGTGTGTGCAGATGGTAAGGT 59.300 47.619 0.00 0.00 0.00 3.50
3890 3952 2.479566 AGTGTGTGCAGATGGTAAGG 57.520 50.000 0.00 0.00 0.00 2.69
3891 3953 2.744202 GGAAGTGTGTGCAGATGGTAAG 59.256 50.000 0.00 0.00 0.00 2.34
3892 3954 2.105649 TGGAAGTGTGTGCAGATGGTAA 59.894 45.455 0.00 0.00 0.00 2.85
3893 3955 1.696884 TGGAAGTGTGTGCAGATGGTA 59.303 47.619 0.00 0.00 0.00 3.25
3894 3956 0.473755 TGGAAGTGTGTGCAGATGGT 59.526 50.000 0.00 0.00 0.00 3.55
3895 3957 1.608055 TTGGAAGTGTGTGCAGATGG 58.392 50.000 0.00 0.00 0.00 3.51
3896 3958 3.079578 AGATTGGAAGTGTGTGCAGATG 58.920 45.455 0.00 0.00 0.00 2.90
3897 3959 3.430042 AGATTGGAAGTGTGTGCAGAT 57.570 42.857 0.00 0.00 0.00 2.90
3898 3960 2.936919 AGATTGGAAGTGTGTGCAGA 57.063 45.000 0.00 0.00 0.00 4.26
3899 3961 4.318332 TCTAAGATTGGAAGTGTGTGCAG 58.682 43.478 0.00 0.00 0.00 4.41
3900 3962 4.350368 TCTAAGATTGGAAGTGTGTGCA 57.650 40.909 0.00 0.00 0.00 4.57
3901 3963 4.697352 ACATCTAAGATTGGAAGTGTGTGC 59.303 41.667 0.00 0.00 0.00 4.57
3902 3964 5.122869 CCACATCTAAGATTGGAAGTGTGTG 59.877 44.000 11.59 7.94 36.19 3.82
3903 3965 5.248640 CCACATCTAAGATTGGAAGTGTGT 58.751 41.667 11.59 0.00 36.19 3.72
3904 3966 4.095483 GCCACATCTAAGATTGGAAGTGTG 59.905 45.833 11.59 8.75 36.19 3.82
3997 4059 5.574830 GCTACATCATTACGAGGCTTATGAG 59.425 44.000 0.00 0.00 31.20 2.90
4119 4181 8.837389 GTGAAAGGAAACAGACTTACAATAAGT 58.163 33.333 0.87 0.87 0.00 2.24
4167 4229 6.183360 GCAGCCATTTAGAATCTCAAGATTGT 60.183 38.462 9.90 8.58 44.14 2.71
4176 4238 5.533903 CCTGTTATGCAGCCATTTAGAATCT 59.466 40.000 0.00 0.00 43.71 2.40
4212 4274 4.634883 CCTTGACAGAGAAGATGATTGTGG 59.365 45.833 0.00 0.00 0.00 4.17
4260 4322 2.437651 TGTTCAGACCATCCACAGACAA 59.562 45.455 0.00 0.00 0.00 3.18
4571 4633 8.185505 AGTTTAACTACGTCTTTTGCAATCAAA 58.814 29.630 0.00 0.00 40.17 2.69
4622 4684 6.437477 AGTTACTGTCATCATCTTCTGTACCA 59.563 38.462 0.00 0.00 0.00 3.25
4908 4971 4.934602 TCATTTGTAGCATGTGATGACGAA 59.065 37.500 0.00 0.00 0.00 3.85
4950 5013 2.255770 AAACAAAGGTTCCCCCACAA 57.744 45.000 0.00 0.00 35.82 3.33
4962 5025 6.969366 TGACAGATCACCAACATAAACAAAG 58.031 36.000 0.00 0.00 0.00 2.77
5503 5566 6.488006 AGTTCAAACTGAAGACATGCAACTAT 59.512 34.615 0.00 0.00 37.00 2.12
5623 5686 0.036732 AGGCAGTCTCCAAAATCGCA 59.963 50.000 0.00 0.00 0.00 5.10
5945 6008 9.251440 TGGAATGTAGTGAAGTACTTGTACTAT 57.749 33.333 22.44 12.98 40.89 2.12
6086 6149 8.962884 ATTTCCAATAAATTGCACTAAATCCC 57.037 30.769 0.00 0.00 36.48 3.85
6206 6269 3.981071 TCTTCAGTGGACCGAATGAAT 57.019 42.857 6.36 0.00 31.69 2.57
6220 6283 7.038154 TCCCAAAACTGTTTTGTATCTTCAG 57.962 36.000 32.26 19.78 46.53 3.02
6459 6522 4.260579 GGGTGTTTTAAGTGTTTTGCATGC 60.261 41.667 11.82 11.82 0.00 4.06
6551 6617 2.099141 TTCTGCTGCTTTGCTCGTAT 57.901 45.000 0.00 0.00 0.00 3.06
6591 6657 1.065926 CCACATCTAACTGAGCAGCCA 60.066 52.381 0.00 0.00 0.00 4.75
6647 6713 0.034059 CGAAGAAGGCACTCACCAGT 59.966 55.000 0.00 0.00 38.49 4.00
6678 6744 2.923629 TCCTGGCCATAAAACCTTACCT 59.076 45.455 5.51 0.00 0.00 3.08
6737 6803 2.400399 GTCATCAGTTCGAAACCGACA 58.600 47.619 0.00 0.00 35.58 4.35
6831 6897 7.244192 GGTGTCTGCATTTTCTGAATACTAAC 58.756 38.462 0.00 0.00 0.00 2.34
6878 6944 5.807520 ACAACTCTAATCTTGATACAGCACG 59.192 40.000 0.00 0.00 0.00 5.34
6906 6972 4.743955 GCCATCTCCGCTTTTCTTAGGTAT 60.744 45.833 0.00 0.00 0.00 2.73
7069 7135 6.096423 TGGAAGACGCATGGAGGTATATATAC 59.904 42.308 13.60 13.60 0.00 1.47
7245 7311 7.365497 ACATAGATATGAGGTGAACACATGA 57.635 36.000 0.00 0.00 37.15 3.07
7254 7320 6.507958 AGACATCGACATAGATATGAGGTG 57.492 41.667 6.84 8.68 37.15 4.00
7410 7476 3.725740 CGCAAAGCTGTAAGAAAACACTG 59.274 43.478 0.00 0.00 34.07 3.66
7545 7611 5.188555 TGTCCTTCTCTGTTAAGCATCAGAT 59.811 40.000 0.00 0.00 39.48 2.90
7680 7746 2.248835 CGAGTTTGCCCGTTCGGTT 61.249 57.895 10.36 0.00 0.00 4.44
7838 7904 8.370940 TGTTGAGTCATCTGAAGAAAACTCTAT 58.629 33.333 18.60 0.00 38.95 1.98
7905 7971 7.241042 AGACTACTGAAGGTTAGCACATTTA 57.759 36.000 0.00 0.00 0.00 1.40
7988 8054 3.007635 GTTTTCCTCCATGAACCTACCG 58.992 50.000 0.00 0.00 0.00 4.02
8192 8259 3.264450 ACAAATAGGTCCCTTCAGTCCTG 59.736 47.826 0.00 0.00 0.00 3.86
8237 8304 5.340439 AACGGAGGGAGTAGATTACAAAG 57.660 43.478 0.00 0.00 0.00 2.77
8249 8316 6.295180 GGACTTATATTTAGGAACGGAGGGAG 60.295 46.154 0.00 0.00 0.00 4.30
8250 8317 5.541484 GGACTTATATTTAGGAACGGAGGGA 59.459 44.000 0.00 0.00 0.00 4.20
8251 8318 5.543020 AGGACTTATATTTAGGAACGGAGGG 59.457 44.000 0.00 0.00 0.00 4.30
8252 8319 6.667558 AGGACTTATATTTAGGAACGGAGG 57.332 41.667 0.00 0.00 0.00 4.30
8253 8320 8.959705 AAAAGGACTTATATTTAGGAACGGAG 57.040 34.615 0.00 0.00 0.00 4.63
8284 8351 9.566530 CATCCGTATGTTGTATTTCATTTGAAA 57.433 29.630 8.09 8.09 46.60 2.69
8285 8352 8.735315 ACATCCGTATGTTGTATTTCATTTGAA 58.265 29.630 0.00 0.00 44.07 2.69
8286 8353 8.275015 ACATCCGTATGTTGTATTTCATTTGA 57.725 30.769 0.00 0.00 44.07 2.69
8304 8371 9.261180 CTTCAAAATATGTCTACATACATCCGT 57.739 33.333 4.98 0.00 41.15 4.69
8305 8372 9.261180 ACTTCAAAATATGTCTACATACATCCG 57.739 33.333 4.98 0.00 41.15 4.18
8328 8395 8.883731 CGGAGTAAAATGAATGAATCTACACTT 58.116 33.333 0.00 0.00 0.00 3.16
8329 8396 8.041323 ACGGAGTAAAATGAATGAATCTACACT 58.959 33.333 0.00 0.00 41.94 3.55
8330 8397 8.197988 ACGGAGTAAAATGAATGAATCTACAC 57.802 34.615 0.00 0.00 41.94 2.90
8350 8417 4.400251 TCCACCAAGTAACTACATACGGAG 59.600 45.833 0.00 0.00 0.00 4.63
8351 8418 4.343231 TCCACCAAGTAACTACATACGGA 58.657 43.478 0.00 0.00 0.00 4.69
8352 8419 4.724074 TCCACCAAGTAACTACATACGG 57.276 45.455 0.00 0.00 0.00 4.02
8353 8420 6.570692 AGATTCCACCAAGTAACTACATACG 58.429 40.000 0.00 0.00 0.00 3.06
8354 8421 7.783042 AGAGATTCCACCAAGTAACTACATAC 58.217 38.462 0.00 0.00 0.00 2.39
8355 8422 7.973048 AGAGATTCCACCAAGTAACTACATA 57.027 36.000 0.00 0.00 0.00 2.29
8356 8423 6.875972 AGAGATTCCACCAAGTAACTACAT 57.124 37.500 0.00 0.00 0.00 2.29
8357 8424 7.179966 TCTAGAGATTCCACCAAGTAACTACA 58.820 38.462 0.00 0.00 0.00 2.74
8358 8425 7.642082 TCTAGAGATTCCACCAAGTAACTAC 57.358 40.000 0.00 0.00 0.00 2.73
8359 8426 8.660295 TTTCTAGAGATTCCACCAAGTAACTA 57.340 34.615 0.00 0.00 0.00 2.24
8360 8427 7.455008 TCTTTCTAGAGATTCCACCAAGTAACT 59.545 37.037 0.00 0.00 0.00 2.24
8361 8428 7.546316 GTCTTTCTAGAGATTCCACCAAGTAAC 59.454 40.741 0.00 0.00 0.00 2.50
8362 8429 7.455008 AGTCTTTCTAGAGATTCCACCAAGTAA 59.545 37.037 0.00 0.00 0.00 2.24
8363 8430 6.954684 AGTCTTTCTAGAGATTCCACCAAGTA 59.045 38.462 0.00 0.00 0.00 2.24
8364 8431 5.782845 AGTCTTTCTAGAGATTCCACCAAGT 59.217 40.000 0.00 0.00 0.00 3.16
8365 8432 6.293004 AGTCTTTCTAGAGATTCCACCAAG 57.707 41.667 0.00 0.00 0.00 3.61
8366 8433 6.688073 AAGTCTTTCTAGAGATTCCACCAA 57.312 37.500 0.00 0.00 0.00 3.67
8367 8434 7.979786 ATAAGTCTTTCTAGAGATTCCACCA 57.020 36.000 0.00 0.00 0.00 4.17
8376 8443 9.171701 CGTTCCGAAATATAAGTCTTTCTAGAG 57.828 37.037 0.00 0.00 30.80 2.43
8377 8444 8.133627 CCGTTCCGAAATATAAGTCTTTCTAGA 58.866 37.037 0.00 0.00 30.80 2.43
8378 8445 8.133627 TCCGTTCCGAAATATAAGTCTTTCTAG 58.866 37.037 0.00 0.00 30.80 2.43
8379 8446 7.999679 TCCGTTCCGAAATATAAGTCTTTCTA 58.000 34.615 0.00 0.00 30.80 2.10
8380 8447 6.870769 TCCGTTCCGAAATATAAGTCTTTCT 58.129 36.000 0.00 0.00 30.80 2.52
8381 8448 6.200475 CCTCCGTTCCGAAATATAAGTCTTTC 59.800 42.308 0.00 0.00 0.00 2.62
8382 8449 6.047231 CCTCCGTTCCGAAATATAAGTCTTT 58.953 40.000 0.00 0.00 0.00 2.52
8383 8450 5.452917 CCCTCCGTTCCGAAATATAAGTCTT 60.453 44.000 0.00 0.00 0.00 3.01
8384 8451 4.038883 CCCTCCGTTCCGAAATATAAGTCT 59.961 45.833 0.00 0.00 0.00 3.24
8385 8452 4.038402 TCCCTCCGTTCCGAAATATAAGTC 59.962 45.833 0.00 0.00 0.00 3.01
8386 8453 3.962718 TCCCTCCGTTCCGAAATATAAGT 59.037 43.478 0.00 0.00 0.00 2.24
8387 8454 4.038883 ACTCCCTCCGTTCCGAAATATAAG 59.961 45.833 0.00 0.00 0.00 1.73
8388 8455 3.962718 ACTCCCTCCGTTCCGAAATATAA 59.037 43.478 0.00 0.00 0.00 0.98
8389 8456 3.569491 ACTCCCTCCGTTCCGAAATATA 58.431 45.455 0.00 0.00 0.00 0.86
8390 8457 2.395619 ACTCCCTCCGTTCCGAAATAT 58.604 47.619 0.00 0.00 0.00 1.28
8391 8458 1.856629 ACTCCCTCCGTTCCGAAATA 58.143 50.000 0.00 0.00 0.00 1.40
8392 8459 1.755380 CTACTCCCTCCGTTCCGAAAT 59.245 52.381 0.00 0.00 0.00 2.17
8393 8460 1.180029 CTACTCCCTCCGTTCCGAAA 58.820 55.000 0.00 0.00 0.00 3.46
8394 8461 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
8395 8462 0.038744 AACTACTCCCTCCGTTCCGA 59.961 55.000 0.00 0.00 0.00 4.55
8396 8463 0.893447 AAACTACTCCCTCCGTTCCG 59.107 55.000 0.00 0.00 0.00 4.30
8397 8464 1.622312 ACAAACTACTCCCTCCGTTCC 59.378 52.381 0.00 0.00 0.00 3.62
8398 8465 3.509184 ACTACAAACTACTCCCTCCGTTC 59.491 47.826 0.00 0.00 0.00 3.95
8399 8466 3.504375 ACTACAAACTACTCCCTCCGTT 58.496 45.455 0.00 0.00 0.00 4.44
8400 8467 3.166560 ACTACAAACTACTCCCTCCGT 57.833 47.619 0.00 0.00 0.00 4.69
8401 8468 5.848833 AATACTACAAACTACTCCCTCCG 57.151 43.478 0.00 0.00 0.00 4.63
8557 8709 0.383590 TGGGTGTCATGTTGCGTTTG 59.616 50.000 0.00 0.00 0.00 2.93
8561 8713 0.168788 GTGATGGGTGTCATGTTGCG 59.831 55.000 0.00 0.00 35.97 4.85
8571 8723 3.381272 ACACTTTTCTGTTGTGATGGGTG 59.619 43.478 0.00 0.00 35.83 4.61
8860 9014 4.202419 GGAACTGCCCCTTTTTAACCAATT 60.202 41.667 0.00 0.00 0.00 2.32
8931 9086 9.753674 AAGGGTATGATGAGTTTCTTTGAAATA 57.246 29.630 0.00 0.00 0.00 1.40
8972 9127 4.576216 TGACGTTACAAACATTTGGCAT 57.424 36.364 9.09 0.00 42.34 4.40
9013 9168 5.126061 ACAATGACCTATTTGTTGCAGATCC 59.874 40.000 0.00 0.00 0.00 3.36
9087 9242 3.379057 TCTGCAATGTGCCAGTAATGATG 59.621 43.478 0.00 0.00 44.23 3.07


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

AutoCloner maintained by Alex Coulton.