Multiple sequence alignment - TraesCS1D01G303800

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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 TraesCS1D01G303800 chr1D 100.000 5245 0 0 1 5245 401677703 401672459 0.000000e+00 9686.0
1 TraesCS1D01G303800 chr1D 78.233 317 42 14 346 647 401195792 401195488 1.500000e-40 178.0
2 TraesCS1D01G303800 chr1A 90.893 2888 144 43 159 2994 497515212 497512392 0.000000e+00 3766.0
3 TraesCS1D01G303800 chr1A 91.425 793 48 15 3211 3996 497512013 497511234 0.000000e+00 1070.0
4 TraesCS1D01G303800 chr1A 81.663 998 111 42 4055 5017 497511208 497510248 0.000000e+00 763.0
5 TraesCS1D01G303800 chr1A 93.878 196 9 3 5052 5245 497509961 497509767 5.140000e-75 292.0
6 TraesCS1D01G303800 chr1A 92.982 171 10 2 3035 3204 497512239 497512070 1.130000e-61 248.0
7 TraesCS1D01G303800 chr1B 89.481 2985 171 59 2144 5068 539555870 539552969 0.000000e+00 3640.0
8 TraesCS1D01G303800 chr1B 89.594 2191 123 48 1 2150 539563434 539561308 0.000000e+00 2686.0
9 TraesCS1D01G303800 chr1B 83.333 282 33 6 365 642 539446025 539445754 1.130000e-61 248.0
10 TraesCS1D01G303800 chr1B 90.476 189 10 4 5060 5245 539552947 539552764 5.250000e-60 243.0
11 TraesCS1D01G303800 chr6D 98.077 52 1 0 1815 1866 100663298 100663349 2.010000e-14 91.6
12 TraesCS1D01G303800 chr5D 96.296 54 2 0 1966 2019 504792357 504792304 7.230000e-14 89.8
13 TraesCS1D01G303800 chr3D 94.231 52 3 0 1968 2019 155152163 155152112 4.350000e-11 80.5
14 TraesCS1D01G303800 chr3B 90.000 60 6 0 1960 2019 604670191 604670132 1.570000e-10 78.7
15 TraesCS1D01G303800 chr2B 90.000 60 6 0 1970 2029 426574897 426574956 1.570000e-10 78.7
16 TraesCS1D01G303800 chr2D 88.525 61 7 0 1959 2019 559209939 559209879 2.030000e-09 75.0
17 TraesCS1D01G303800 chrUn 88.525 61 5 2 1959 2019 47881188 47881130 7.290000e-09 73.1
18 TraesCS1D01G303800 chr6B 87.302 63 8 0 1970 2032 654238579 654238517 7.290000e-09 73.1


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 TraesCS1D01G303800 chr1D 401672459 401677703 5244 True 9686.0 9686 100.0000 1 5245 1 chr1D.!!$R2 5244
1 TraesCS1D01G303800 chr1A 497509767 497515212 5445 True 1227.8 3766 90.1682 159 5245 5 chr1A.!!$R1 5086
2 TraesCS1D01G303800 chr1B 539561308 539563434 2126 True 2686.0 2686 89.5940 1 2150 1 chr1B.!!$R2 2149
3 TraesCS1D01G303800 chr1B 539552764 539555870 3106 True 1941.5 3640 89.9785 2144 5245 2 chr1B.!!$R3 3101

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
527 529 0.512952 AAGCTACGCAGAAAAGCACG 59.487 50.0 0.00 0.00 38.75 5.34 F
1364 1389 0.102120 CTGGCTGTCGGAGATCTGTC 59.898 60.0 0.00 0.00 40.67 3.51 F
1601 1634 0.034670 AAGCCCTCTCACCTGATTGC 60.035 55.0 0.00 0.00 0.00 3.56 F
2402 2476 0.035056 AAAGCGGACCCTCATCAAGG 60.035 55.0 0.00 0.00 45.77 3.61 F
2994 3102 0.327591 AATGGGCCGGTACCGTAAAA 59.672 50.0 31.24 15.49 37.81 1.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1568 1601 0.039035 GGGCTTTATCCACCACCACA 59.961 55.000 0.00 0.00 0.00 4.17 R
3259 3541 1.967779 CTTTAGCTCCTCCCCTAGCTC 59.032 57.143 0.00 0.00 45.92 4.09 R
3566 3850 1.066716 GCATCATTGTGTTGGTGCCAT 60.067 47.619 0.00 0.00 45.94 4.40 R
3997 4295 0.324368 ATCCTATATGCCTCGCGGGA 60.324 55.000 8.08 1.63 37.23 5.14 R
4977 5336 0.179037 TCTATCCATCGTCCGTCCGT 60.179 55.000 0.00 0.00 0.00 4.69 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
23 24 6.401047 AATTAGGAGCATCACATGATTTGG 57.599 37.500 0.00 0.00 36.25 3.28
31 32 5.039333 GCATCACATGATTTGGCTAGTTTC 58.961 41.667 0.00 0.00 31.21 2.78
32 33 5.163581 GCATCACATGATTTGGCTAGTTTCT 60.164 40.000 0.00 0.00 31.21 2.52
51 52 8.785329 AGTTTCTTGTCAATCTTATCTCCTTC 57.215 34.615 0.00 0.00 0.00 3.46
54 55 9.877178 TTTCTTGTCAATCTTATCTCCTTCTAC 57.123 33.333 0.00 0.00 0.00 2.59
103 104 4.620723 TCTGAAATCTGAAGCTACCCCTA 58.379 43.478 0.00 0.00 0.00 3.53
138 139 7.241042 TGTGCTAAACTATGAACCTAACTCT 57.759 36.000 0.00 0.00 0.00 3.24
139 140 7.097192 TGTGCTAAACTATGAACCTAACTCTG 58.903 38.462 0.00 0.00 0.00 3.35
140 141 6.036191 GTGCTAAACTATGAACCTAACTCTGC 59.964 42.308 0.00 0.00 0.00 4.26
141 142 6.070767 TGCTAAACTATGAACCTAACTCTGCT 60.071 38.462 0.00 0.00 0.00 4.24
142 143 7.123697 TGCTAAACTATGAACCTAACTCTGCTA 59.876 37.037 0.00 0.00 0.00 3.49
143 144 7.650104 GCTAAACTATGAACCTAACTCTGCTAG 59.350 40.741 0.00 0.00 0.00 3.42
144 145 5.523438 ACTATGAACCTAACTCTGCTAGC 57.477 43.478 8.10 8.10 0.00 3.42
145 146 5.205056 ACTATGAACCTAACTCTGCTAGCT 58.795 41.667 17.23 0.00 0.00 3.32
146 147 5.659079 ACTATGAACCTAACTCTGCTAGCTT 59.341 40.000 17.23 4.12 0.00 3.74
147 148 4.457834 TGAACCTAACTCTGCTAGCTTC 57.542 45.455 17.23 8.33 0.00 3.86
148 149 3.832490 TGAACCTAACTCTGCTAGCTTCA 59.168 43.478 17.23 10.87 0.00 3.02
149 150 4.467795 TGAACCTAACTCTGCTAGCTTCAT 59.532 41.667 17.23 1.18 0.00 2.57
150 151 4.399004 ACCTAACTCTGCTAGCTTCATG 57.601 45.455 17.23 4.43 0.00 3.07
151 152 3.133721 ACCTAACTCTGCTAGCTTCATGG 59.866 47.826 17.23 11.41 0.00 3.66
152 153 3.133721 CCTAACTCTGCTAGCTTCATGGT 59.866 47.826 17.23 3.14 0.00 3.55
153 154 3.710209 AACTCTGCTAGCTTCATGGTT 57.290 42.857 17.23 9.27 0.00 3.67
154 155 2.983229 ACTCTGCTAGCTTCATGGTTG 58.017 47.619 17.23 0.00 0.00 3.77
155 156 1.669779 CTCTGCTAGCTTCATGGTTGC 59.330 52.381 17.23 0.00 43.25 4.17
228 229 4.488126 TGAGAGCAGAAATTTTGTTCCG 57.512 40.909 10.98 0.00 0.00 4.30
250 252 3.688185 GGCTACTTCGGGGAAAAAGTTAG 59.312 47.826 0.00 0.00 37.02 2.34
255 257 2.774687 TCGGGGAAAAAGTTAGCACTC 58.225 47.619 0.00 0.00 30.45 3.51
288 290 1.894756 CGACCGGCAAAAGGTTCCA 60.895 57.895 0.00 0.00 43.01 3.53
310 312 2.039216 TCCAGAAGAATTTACGGCCACA 59.961 45.455 2.24 0.00 0.00 4.17
311 313 2.817258 CCAGAAGAATTTACGGCCACAA 59.183 45.455 2.24 0.00 0.00 3.33
312 314 3.365969 CCAGAAGAATTTACGGCCACAAC 60.366 47.826 2.24 0.00 0.00 3.32
313 315 3.252215 CAGAAGAATTTACGGCCACAACA 59.748 43.478 2.24 0.00 0.00 3.33
314 316 3.886505 AGAAGAATTTACGGCCACAACAA 59.113 39.130 2.24 0.00 0.00 2.83
315 317 3.636282 AGAATTTACGGCCACAACAAC 57.364 42.857 2.24 0.00 0.00 3.32
316 318 2.952978 AGAATTTACGGCCACAACAACA 59.047 40.909 2.24 0.00 0.00 3.33
317 319 3.004315 AGAATTTACGGCCACAACAACAG 59.996 43.478 2.24 0.00 0.00 3.16
318 320 1.025812 TTTACGGCCACAACAACAGG 58.974 50.000 2.24 0.00 0.00 4.00
319 321 0.820074 TTACGGCCACAACAACAGGG 60.820 55.000 2.24 0.00 0.00 4.45
320 322 1.697082 TACGGCCACAACAACAGGGA 61.697 55.000 2.24 0.00 0.00 4.20
336 338 1.290009 GGACAACAGGGCAATGCAC 59.710 57.895 7.79 2.32 0.00 4.57
369 371 4.060900 CCGAAGCTAATATGTGACATGCT 58.939 43.478 8.61 5.29 0.00 3.79
504 506 5.537674 ACTCTCCAACAGATTGCTGAAAAAT 59.462 36.000 0.00 0.00 45.17 1.82
527 529 0.512952 AAGCTACGCAGAAAAGCACG 59.487 50.000 0.00 0.00 38.75 5.34
666 668 2.203280 CCCACAGCAAACCCACGA 60.203 61.111 0.00 0.00 0.00 4.35
671 673 1.890041 CAGCAAACCCACGACCGAA 60.890 57.895 0.00 0.00 0.00 4.30
711 713 2.883267 ATCCAGAAGCAAGCGAGCCC 62.883 60.000 0.00 0.00 34.23 5.19
712 714 3.130160 CAGAAGCAAGCGAGCCCC 61.130 66.667 0.00 0.00 34.23 5.80
713 715 4.767255 AGAAGCAAGCGAGCCCCG 62.767 66.667 0.00 0.00 42.21 5.73
793 796 0.719623 AGGGGAAGAGGGTTCTAGCT 59.280 55.000 0.00 0.00 31.96 3.32
807 810 2.461695 TCTAGCTGAAGGTTCTGGAGG 58.538 52.381 0.00 0.00 0.00 4.30
1057 1079 2.820479 CGCCCATACGCCCGAAAA 60.820 61.111 0.00 0.00 0.00 2.29
1077 1099 2.501610 GGTCCATCGGCCTCTGAC 59.498 66.667 0.00 1.92 0.00 3.51
1090 1112 2.432628 CTGACTCGTCGGCCCAAC 60.433 66.667 0.00 0.00 0.00 3.77
1219 1244 1.677633 CAAAACCCTACTGCCCCCG 60.678 63.158 0.00 0.00 0.00 5.73
1250 1275 2.091541 CCTCAGATCTCCGATCCTAGC 58.908 57.143 0.00 0.00 0.00 3.42
1281 1306 1.475403 GTGAGGATCTCCGTTCTCCA 58.525 55.000 0.00 0.00 42.08 3.86
1285 1310 1.590259 GATCTCCGTTCTCCAGCGC 60.590 63.158 0.00 0.00 0.00 5.92
1316 1341 4.528206 AGGGTGATTTTGGTTCTTGGATTC 59.472 41.667 0.00 0.00 0.00 2.52
1363 1388 1.954362 GCTGGCTGTCGGAGATCTGT 61.954 60.000 0.00 0.00 40.67 3.41
1364 1389 0.102120 CTGGCTGTCGGAGATCTGTC 59.898 60.000 0.00 0.00 40.67 3.51
1407 1432 2.125391 TCCATGCTGCTGTCGCTC 60.125 61.111 0.00 0.00 36.97 5.03
1601 1634 0.034670 AAGCCCTCTCACCTGATTGC 60.035 55.000 0.00 0.00 0.00 3.56
1678 1718 1.682451 CTGGGAGCAAATGGGCATGG 61.682 60.000 0.00 0.00 35.83 3.66
1688 1728 0.542805 ATGGGCATGGGATTTGCAAC 59.457 50.000 0.00 0.00 41.95 4.17
1829 1877 8.312669 ACCTAGAGTAGCTTCACAAATAGAAT 57.687 34.615 0.00 0.00 0.00 2.40
1890 1942 5.709631 TCCCTTGATTCGAAATTCACATTGA 59.290 36.000 0.00 0.00 0.00 2.57
1949 2001 2.009051 TGTGAGCAATCATAAGTGGCG 58.991 47.619 0.00 0.00 0.00 5.69
1959 2011 1.134521 CATAAGTGGCGGCTAAGGTCA 60.135 52.381 11.43 0.00 0.00 4.02
2006 2058 8.576442 TGTCCCAAAATTCTTGTCTTAGATTTC 58.424 33.333 0.00 0.00 0.00 2.17
2021 2073 8.500773 GTCTTAGATTTCTCTAGATACAGACGG 58.499 40.741 0.00 0.00 35.43 4.79
2388 2440 8.336498 TCTATAACGAGAAAATAGTGAAAGCG 57.664 34.615 0.00 0.00 0.00 4.68
2394 2468 3.009143 AGAAAATAGTGAAAGCGGACCCT 59.991 43.478 0.00 0.00 0.00 4.34
2395 2469 2.693267 AATAGTGAAAGCGGACCCTC 57.307 50.000 0.00 0.00 0.00 4.30
2396 2470 1.568504 ATAGTGAAAGCGGACCCTCA 58.431 50.000 0.00 0.00 0.00 3.86
2397 2471 1.568504 TAGTGAAAGCGGACCCTCAT 58.431 50.000 0.00 0.00 0.00 2.90
2398 2472 0.250513 AGTGAAAGCGGACCCTCATC 59.749 55.000 0.00 0.00 0.00 2.92
2399 2473 0.036388 GTGAAAGCGGACCCTCATCA 60.036 55.000 0.00 0.00 0.00 3.07
2400 2474 0.690192 TGAAAGCGGACCCTCATCAA 59.310 50.000 0.00 0.00 0.00 2.57
2401 2475 1.339055 TGAAAGCGGACCCTCATCAAG 60.339 52.381 0.00 0.00 0.00 3.02
2402 2476 0.035056 AAAGCGGACCCTCATCAAGG 60.035 55.000 0.00 0.00 45.77 3.61
2459 2533 7.499232 GCTATATACATTTGACTGACACCCTTT 59.501 37.037 0.00 0.00 0.00 3.11
2543 2617 9.927668 AGCAAACAACAATTATTACTTTGCTAT 57.072 25.926 18.12 3.54 46.43 2.97
2691 2765 6.522625 TTTTGAACTTGAACCATCTGTCAA 57.477 33.333 0.00 0.00 0.00 3.18
2811 2885 7.414762 GCTTCCTTTAACATACTTCGCCAATTA 60.415 37.037 0.00 0.00 0.00 1.40
2865 2939 6.495181 TCCCATGATAGAACTGATAGACCTTC 59.505 42.308 0.00 0.00 0.00 3.46
2962 3070 9.367444 GTAGATGGGAATATAAGGTAACGAATG 57.633 37.037 0.00 0.00 46.39 2.67
2988 3096 2.133281 AAGTTTAATGGGCCGGTACC 57.867 50.000 1.90 6.87 0.00 3.34
2994 3102 0.327591 AATGGGCCGGTACCGTAAAA 59.672 50.000 31.24 15.49 37.81 1.52
2995 3103 0.327591 ATGGGCCGGTACCGTAAAAA 59.672 50.000 31.24 14.08 37.81 1.94
2999 3107 3.213506 GGGCCGGTACCGTAAAAATAAT 58.786 45.455 31.24 0.00 37.81 1.28
3008 3116 9.528018 CGGTACCGTAAAAATAATACCTTAAGA 57.472 33.333 26.39 0.00 31.69 2.10
3022 3130 4.568956 ACCTTAAGATTTTGCATGTTGCC 58.431 39.130 3.36 0.00 44.23 4.52
3077 3299 6.016024 CCATATAACAGCATTGCCAACTGTAT 60.016 38.462 4.70 1.76 43.63 2.29
3083 3305 4.078537 AGCATTGCCAACTGTATGTTACA 58.921 39.130 4.70 0.00 37.07 2.41
3088 3310 7.379529 GCATTGCCAACTGTATGTTACATATTC 59.620 37.037 8.39 0.00 38.15 1.75
3103 3325 9.500785 TGTTACATATTCTTTGATGTTGACAGA 57.499 29.630 0.00 0.00 37.47 3.41
3134 3356 0.592148 GCATGATTAGCAGCTGAGCC 59.408 55.000 20.43 0.00 34.23 4.70
3138 3360 2.794103 TGATTAGCAGCTGAGCCAAAA 58.206 42.857 20.43 1.59 34.23 2.44
3169 3393 6.656632 TTAGTGATCCTTCTATAGCCTGTG 57.343 41.667 0.00 0.00 0.00 3.66
3226 3508 5.950758 TGCAATAAAAGTTCCTTCGCTAA 57.049 34.783 0.00 0.00 0.00 3.09
3259 3541 6.990341 TTCTGTCACCTAACAATCATGATG 57.010 37.500 9.46 6.30 0.00 3.07
3267 3549 5.221803 ACCTAACAATCATGATGAGCTAGGG 60.222 44.000 26.08 17.96 0.00 3.53
3290 3573 6.409810 GGGGAGGAGCTAAAGTTATCTGAAAT 60.410 42.308 0.00 0.00 0.00 2.17
3373 3656 1.948834 TGTTGACATTGTGGTGCTCAG 59.051 47.619 0.00 0.00 0.00 3.35
3503 3787 1.836166 ACTCTGGTCACATGATGAGGG 59.164 52.381 0.00 0.00 38.28 4.30
3531 3815 4.592485 TTCCAAGTGTTTTGTGTGTTGT 57.408 36.364 0.00 0.00 0.00 3.32
3549 3833 4.040584 TGTTGTACACATAACAGGCTACCA 59.959 41.667 0.00 0.00 31.58 3.25
3566 3850 1.331214 CCAAGCAAAAGAAGCCTGGA 58.669 50.000 0.00 0.00 44.54 3.86
3590 3874 2.749076 GCACCAACACAATGATGCTAGA 59.251 45.455 0.00 0.00 0.00 2.43
3591 3875 3.426695 GCACCAACACAATGATGCTAGAC 60.427 47.826 0.00 0.00 0.00 2.59
3592 3876 4.005650 CACCAACACAATGATGCTAGACT 58.994 43.478 0.00 0.00 0.00 3.24
3593 3877 5.178061 CACCAACACAATGATGCTAGACTA 58.822 41.667 0.00 0.00 0.00 2.59
3594 3878 5.063944 CACCAACACAATGATGCTAGACTAC 59.936 44.000 0.00 0.00 0.00 2.73
3595 3879 4.572389 CCAACACAATGATGCTAGACTACC 59.428 45.833 0.00 0.00 0.00 3.18
3596 3880 5.178061 CAACACAATGATGCTAGACTACCA 58.822 41.667 0.00 0.00 0.00 3.25
3603 3888 3.052414 TGATGCTAGACTACCACCCCTTA 60.052 47.826 0.00 0.00 0.00 2.69
3662 3947 2.426842 AAATACCAAGAGCTCTGCCC 57.573 50.000 19.06 0.00 0.00 5.36
3663 3948 1.589414 AATACCAAGAGCTCTGCCCT 58.411 50.000 19.06 0.00 0.00 5.19
3674 3959 7.449704 CCAAGAGCTCTGCCCTATTTAAATAAT 59.550 37.037 19.06 0.00 0.00 1.28
3677 3962 9.426534 AGAGCTCTGCCCTATTTAAATAATTTT 57.573 29.630 17.42 0.00 0.00 1.82
3717 4003 0.386476 TGCTGCCTTTGCTGTTCTTG 59.614 50.000 0.00 0.00 38.57 3.02
3741 4028 5.355910 GCCTTTTTCCGATGATTACTTGGTA 59.644 40.000 0.00 0.00 0.00 3.25
3744 4031 6.730960 TTTTCCGATGATTACTTGGTACAC 57.269 37.500 0.00 0.00 39.29 2.90
3745 4032 5.408880 TTCCGATGATTACTTGGTACACA 57.591 39.130 0.00 0.00 39.29 3.72
3746 4033 5.006153 TCCGATGATTACTTGGTACACAG 57.994 43.478 0.00 0.00 39.29 3.66
3749 4038 4.499399 CGATGATTACTTGGTACACAGTCG 59.501 45.833 0.00 0.00 39.29 4.18
3751 4040 5.204409 TGATTACTTGGTACACAGTCGTT 57.796 39.130 0.00 0.00 39.29 3.85
3763 4052 7.553760 TGGTACACAGTCGTTATGAACTATCTA 59.446 37.037 0.00 0.00 0.00 1.98
3892 4187 3.138798 GCGAGGCGGTACTGAGGA 61.139 66.667 5.68 0.00 0.00 3.71
3894 4189 2.799371 GAGGCGGTACTGAGGACG 59.201 66.667 5.68 0.00 0.00 4.79
3951 4246 7.700322 TGTAGATCGAATCAGAAACTAATGC 57.300 36.000 0.00 0.00 0.00 3.56
3984 4282 3.339141 GTCAGACTTCTCAACCCAATCC 58.661 50.000 0.00 0.00 0.00 3.01
4158 4458 2.719798 GATTTGGGATGATTTCGCGTG 58.280 47.619 5.77 0.00 40.08 5.34
4221 4521 8.118893 CTTGGTTAGCATTGTGTATTATTTGC 57.881 34.615 0.00 0.00 0.00 3.68
4499 4822 0.108281 GGCGAAGGAAGTACACTCCC 60.108 60.000 9.75 0.00 0.00 4.30
4528 4851 2.014857 CGACCCACATCGAAGTCTCTA 58.985 52.381 0.00 0.00 45.13 2.43
4529 4852 2.032302 CGACCCACATCGAAGTCTCTAG 59.968 54.545 0.00 0.00 45.13 2.43
4531 4854 1.067821 CCCACATCGAAGTCTCTAGGC 59.932 57.143 0.00 0.00 0.00 3.93
4532 4855 2.028130 CCACATCGAAGTCTCTAGGCT 58.972 52.381 0.00 0.00 0.00 4.58
4533 4856 3.215151 CCACATCGAAGTCTCTAGGCTA 58.785 50.000 0.00 0.00 0.00 3.93
4534 4857 3.252215 CCACATCGAAGTCTCTAGGCTAG 59.748 52.174 15.56 15.56 0.00 3.42
4535 4858 2.882137 ACATCGAAGTCTCTAGGCTAGC 59.118 50.000 16.85 6.04 0.00 3.42
4536 4859 1.970092 TCGAAGTCTCTAGGCTAGCC 58.030 55.000 27.19 27.19 0.00 3.93
4537 4860 1.212195 TCGAAGTCTCTAGGCTAGCCA 59.788 52.381 34.70 19.43 38.92 4.75
4625 4961 4.480480 AGGCTAGGCTGGCTGTTA 57.520 55.556 22.53 0.00 41.44 2.41
4682 5018 3.991051 CCACTGTCCGTCCGCTGT 61.991 66.667 0.00 0.00 0.00 4.40
4753 5095 1.514553 CTCTGCCTCTGCGATGTGA 59.485 57.895 0.00 0.00 41.78 3.58
4757 5099 0.466963 TGCCTCTGCGATGTGATGAT 59.533 50.000 0.00 0.00 41.78 2.45
4779 5127 4.655762 AGACATACATGCACACGTAGAT 57.344 40.909 0.00 0.00 0.00 1.98
4807 5163 2.079158 CACATTCGATCCAGTTGCAGT 58.921 47.619 0.00 0.00 0.00 4.40
4841 5197 7.453393 TCAACTGTTCCAATCAATAAGAGACT 58.547 34.615 0.00 0.00 0.00 3.24
4844 5200 7.628234 ACTGTTCCAATCAATAAGAGACTGAT 58.372 34.615 0.00 0.00 0.00 2.90
4847 5203 5.371526 TCCAATCAATAAGAGACTGATGCC 58.628 41.667 0.00 0.00 30.28 4.40
4848 5204 4.212847 CCAATCAATAAGAGACTGATGCCG 59.787 45.833 0.00 0.00 30.28 5.69
4849 5205 4.944619 ATCAATAAGAGACTGATGCCGA 57.055 40.909 0.00 0.00 0.00 5.54
4854 5210 5.637006 ATAAGAGACTGATGCCGAGATAC 57.363 43.478 0.00 0.00 0.00 2.24
4856 5212 3.495331 AGAGACTGATGCCGAGATACAT 58.505 45.455 0.00 0.00 0.00 2.29
4920 5279 2.363220 GACGCTCGCATTAAAAATCGG 58.637 47.619 0.00 0.00 0.00 4.18
5040 5399 4.413928 CAACCGATTGGGCCTCAA 57.586 55.556 4.53 5.84 40.62 3.02
5054 5413 1.171308 CCTCAACCCAGTTGCATCAG 58.829 55.000 2.56 0.00 42.55 2.90
5055 5414 1.271543 CCTCAACCCAGTTGCATCAGA 60.272 52.381 2.56 0.00 42.55 3.27
5056 5415 2.619849 CCTCAACCCAGTTGCATCAGAT 60.620 50.000 2.56 0.00 42.55 2.90
5057 5416 2.422479 CTCAACCCAGTTGCATCAGATG 59.578 50.000 5.98 5.98 42.55 2.90
5127 5746 0.813184 ACTAATCTCCGCGAACCGAA 59.187 50.000 8.23 0.00 40.02 4.30
5128 5747 1.202268 ACTAATCTCCGCGAACCGAAG 60.202 52.381 8.23 0.23 40.02 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 7.984617 AGGAGATAAGATTGACAAGAAACTAGC 59.015 37.037 0.00 0.00 0.00 3.42
31 32 9.311916 CTTGTAGAAGGAGATAAGATTGACAAG 57.688 37.037 0.00 0.00 34.74 3.16
32 33 7.766278 GCTTGTAGAAGGAGATAAGATTGACAA 59.234 37.037 1.31 0.00 0.00 3.18
65 66 8.242053 CAGATTTCAGATAGTTGTGCAGAAATT 58.758 33.333 0.66 0.00 35.20 1.82
83 84 5.975988 AATAGGGGTAGCTTCAGATTTCA 57.024 39.130 0.00 0.00 0.00 2.69
84 85 6.603599 ACAAAATAGGGGTAGCTTCAGATTTC 59.396 38.462 0.00 0.00 0.00 2.17
138 139 1.271543 ACTGCAACCATGAAGCTAGCA 60.272 47.619 18.83 0.00 35.36 3.49
139 140 1.457346 ACTGCAACCATGAAGCTAGC 58.543 50.000 6.62 6.62 35.36 3.42
140 141 5.237344 GGTATTACTGCAACCATGAAGCTAG 59.763 44.000 0.00 0.00 35.36 3.42
141 142 5.123227 GGTATTACTGCAACCATGAAGCTA 58.877 41.667 0.00 0.00 35.36 3.32
142 143 3.947834 GGTATTACTGCAACCATGAAGCT 59.052 43.478 0.00 0.00 35.36 3.74
143 144 3.694072 TGGTATTACTGCAACCATGAAGC 59.306 43.478 3.00 0.00 38.36 3.86
144 145 5.895636 TTGGTATTACTGCAACCATGAAG 57.104 39.130 8.00 0.00 42.65 3.02
145 146 6.451393 GTTTTGGTATTACTGCAACCATGAA 58.549 36.000 8.00 4.36 42.65 2.57
146 147 5.047660 GGTTTTGGTATTACTGCAACCATGA 60.048 40.000 8.00 0.00 42.65 3.07
147 148 5.167845 GGTTTTGGTATTACTGCAACCATG 58.832 41.667 8.00 0.00 42.65 3.66
148 149 4.082463 CGGTTTTGGTATTACTGCAACCAT 60.082 41.667 8.00 0.00 42.65 3.55
149 150 3.253677 CGGTTTTGGTATTACTGCAACCA 59.746 43.478 3.00 3.00 41.47 3.67
150 151 3.502979 TCGGTTTTGGTATTACTGCAACC 59.497 43.478 0.00 0.00 0.00 3.77
151 152 4.469552 GTCGGTTTTGGTATTACTGCAAC 58.530 43.478 0.00 0.00 0.00 4.17
152 153 3.186817 CGTCGGTTTTGGTATTACTGCAA 59.813 43.478 0.00 0.00 0.00 4.08
153 154 2.737783 CGTCGGTTTTGGTATTACTGCA 59.262 45.455 0.00 0.00 0.00 4.41
154 155 2.995258 TCGTCGGTTTTGGTATTACTGC 59.005 45.455 0.00 0.00 0.00 4.40
155 156 3.989167 TGTCGTCGGTTTTGGTATTACTG 59.011 43.478 0.00 0.00 0.00 2.74
201 202 8.031277 GGAACAAAATTTCTGCTCTCAATGTAT 58.969 33.333 0.00 0.00 0.00 2.29
228 229 2.195741 ACTTTTTCCCCGAAGTAGCC 57.804 50.000 0.00 0.00 34.52 3.93
250 252 2.216898 GGAGCATCATAACCAGAGTGC 58.783 52.381 0.00 0.00 36.25 4.40
255 257 1.869754 CGGTCGGAGCATCATAACCAG 60.870 57.143 8.06 0.00 36.25 4.00
288 290 3.279434 GTGGCCGTAAATTCTTCTGGAT 58.721 45.455 0.00 0.00 0.00 3.41
310 312 0.755327 GCCCTGTTGTCCCTGTTGTT 60.755 55.000 0.00 0.00 0.00 2.83
311 313 1.152756 GCCCTGTTGTCCCTGTTGT 60.153 57.895 0.00 0.00 0.00 3.32
312 314 0.754957 TTGCCCTGTTGTCCCTGTTG 60.755 55.000 0.00 0.00 0.00 3.33
313 315 0.188342 ATTGCCCTGTTGTCCCTGTT 59.812 50.000 0.00 0.00 0.00 3.16
314 316 0.540365 CATTGCCCTGTTGTCCCTGT 60.540 55.000 0.00 0.00 0.00 4.00
315 317 1.880819 GCATTGCCCTGTTGTCCCTG 61.881 60.000 0.00 0.00 0.00 4.45
316 318 1.607467 GCATTGCCCTGTTGTCCCT 60.607 57.895 0.00 0.00 0.00 4.20
317 319 1.907807 TGCATTGCCCTGTTGTCCC 60.908 57.895 6.12 0.00 0.00 4.46
318 320 1.290009 GTGCATTGCCCTGTTGTCC 59.710 57.895 6.12 0.00 0.00 4.02
319 321 0.318955 GTGTGCATTGCCCTGTTGTC 60.319 55.000 6.12 0.00 0.00 3.18
320 322 1.741525 GTGTGCATTGCCCTGTTGT 59.258 52.632 6.12 0.00 0.00 3.32
527 529 1.712977 CTGAGCTGCCGATTGCTTCC 61.713 60.000 0.00 0.00 39.91 3.46
604 606 0.100503 GATTCGATTTTGGCGGTGGG 59.899 55.000 0.00 0.00 0.00 4.61
657 659 2.281276 GCCTTCGGTCGTGGGTTT 60.281 61.111 7.10 0.00 0.00 3.27
666 668 0.673644 CATTTGGTCTCGCCTTCGGT 60.674 55.000 0.00 0.00 38.35 4.69
671 673 2.436646 CGCCATTTGGTCTCGCCT 60.437 61.111 0.00 0.00 38.35 5.52
755 757 4.609018 CCCGTGGGCAGGATAGCG 62.609 72.222 0.00 0.00 34.64 4.26
756 758 2.666596 CTTCCCGTGGGCAGGATAGC 62.667 65.000 0.00 0.00 34.68 2.97
757 759 1.447643 CTTCCCGTGGGCAGGATAG 59.552 63.158 0.00 0.00 34.68 2.08
758 760 3.642078 CTTCCCGTGGGCAGGATA 58.358 61.111 0.00 0.00 34.68 2.59
778 781 2.835156 ACCTTCAGCTAGAACCCTCTTC 59.165 50.000 0.00 0.00 32.70 2.87
793 796 0.547712 CTCCCCCTCCAGAACCTTCA 60.548 60.000 0.00 0.00 0.00 3.02
807 810 0.612453 ACTTCGTCAGGTCTCTCCCC 60.612 60.000 0.00 0.00 36.75 4.81
903 915 3.619767 ACTCGTGCTGCTGCTCCA 61.620 61.111 17.00 0.88 40.48 3.86
1015 1031 3.300388 TGGTTGGAATGTTTGCTTACCA 58.700 40.909 0.00 0.00 35.39 3.25
1057 1079 4.095400 AGAGGCCGATGGACCCCT 62.095 66.667 0.00 0.00 0.00 4.79
1090 1112 4.101790 GACAATGTGCGGGCCGTG 62.102 66.667 28.82 19.49 0.00 4.94
1285 1310 0.734889 CAAAATCACCCTAGCAGCGG 59.265 55.000 0.00 0.00 0.00 5.52
1291 1316 4.662278 TCCAAGAACCAAAATCACCCTAG 58.338 43.478 0.00 0.00 0.00 3.02
1292 1317 4.733077 TCCAAGAACCAAAATCACCCTA 57.267 40.909 0.00 0.00 0.00 3.53
1294 1319 4.618227 CGAATCCAAGAACCAAAATCACCC 60.618 45.833 0.00 0.00 0.00 4.61
1295 1320 4.485163 CGAATCCAAGAACCAAAATCACC 58.515 43.478 0.00 0.00 0.00 4.02
1296 1321 4.022329 ACCGAATCCAAGAACCAAAATCAC 60.022 41.667 0.00 0.00 0.00 3.06
1316 1341 0.591170 AAATCAACAACCTCGCACCG 59.409 50.000 0.00 0.00 0.00 4.94
1536 1561 4.219264 AGCAGAAAGAAGAAGAGATGGG 57.781 45.455 0.00 0.00 0.00 4.00
1568 1601 0.039035 GGGCTTTATCCACCACCACA 59.961 55.000 0.00 0.00 0.00 4.17
1601 1634 7.596749 AAAATCACAACCTACGAATGTCTAG 57.403 36.000 0.00 0.00 0.00 2.43
1653 1693 1.410648 CCCATTTGCTCCCAGTGCTAT 60.411 52.381 0.00 0.00 0.00 2.97
1657 1697 0.974010 ATGCCCATTTGCTCCCAGTG 60.974 55.000 0.00 0.00 0.00 3.66
1678 1718 2.793278 ACAAGAACCGTTGCAAATCC 57.207 45.000 0.00 0.00 0.00 3.01
1717 1765 2.205074 AGATTTCTATCTTGCACCGCG 58.795 47.619 0.00 0.00 37.90 6.46
1829 1877 7.618019 AGAAGAGCAATGTGATAGGGTATTA 57.382 36.000 0.00 0.00 0.00 0.98
1875 1927 8.267620 ACATAACAGATCAATGTGAATTTCGA 57.732 30.769 0.00 0.00 32.74 3.71
1890 1942 4.446371 GCAACTGAGCCTACATAACAGAT 58.554 43.478 0.00 0.00 33.53 2.90
1949 2001 4.833390 ACTAGACAAACATGACCTTAGCC 58.167 43.478 0.00 0.00 0.00 3.93
1959 2011 7.147707 GGGACAGAGGTAATACTAGACAAACAT 60.148 40.741 0.00 0.00 0.00 2.71
2006 2058 7.972832 ATACTTTCTCCGTCTGTATCTAGAG 57.027 40.000 0.00 0.00 0.00 2.43
2021 2073 4.633565 CCAGCTGGAGACAAATACTTTCTC 59.366 45.833 29.88 0.00 42.06 2.87
2179 2231 7.172342 ACTACCACAATTAAGGCTTGTCATTA 58.828 34.615 10.69 0.00 34.69 1.90
2261 2313 2.158900 AGCCAGAGTGGATTCCAATACG 60.159 50.000 7.05 0.63 40.96 3.06
2402 2476 2.508300 TCCTAGTTGCTACATTTCCCCC 59.492 50.000 0.13 0.00 0.00 5.40
2403 2477 3.926058 TCCTAGTTGCTACATTTCCCC 57.074 47.619 0.13 0.00 0.00 4.81
2404 2478 3.628032 GCTTCCTAGTTGCTACATTTCCC 59.372 47.826 0.13 0.00 0.00 3.97
2405 2479 4.261801 TGCTTCCTAGTTGCTACATTTCC 58.738 43.478 0.13 0.00 0.00 3.13
2406 2480 5.355350 ACATGCTTCCTAGTTGCTACATTTC 59.645 40.000 0.13 0.00 0.00 2.17
2407 2481 5.256474 ACATGCTTCCTAGTTGCTACATTT 58.744 37.500 0.13 0.00 0.00 2.32
2408 2482 4.848357 ACATGCTTCCTAGTTGCTACATT 58.152 39.130 0.13 0.00 0.00 2.71
2409 2483 4.494091 ACATGCTTCCTAGTTGCTACAT 57.506 40.909 0.13 0.00 0.00 2.29
2410 2484 3.981071 ACATGCTTCCTAGTTGCTACA 57.019 42.857 0.13 0.00 0.00 2.74
2411 2485 5.914085 CATACATGCTTCCTAGTTGCTAC 57.086 43.478 0.00 0.00 0.00 3.58
2502 2576 7.669427 TGTTGTTTGCTCATAAAGGAAATGAT 58.331 30.769 0.00 0.00 45.57 2.45
2691 2765 6.152932 ACTGCATGAAAAGAACAGAAATGT 57.847 33.333 0.00 0.00 32.67 2.71
2865 2939 4.083110 AGCATTTCTGAACAAGGAATCGTG 60.083 41.667 0.00 0.00 30.99 4.35
2962 3070 3.443976 CGGCCCATTAAACTTTGTATGC 58.556 45.455 0.00 0.00 0.00 3.14
2995 3103 9.533253 GCAACATGCAAAATCTTAAGGTATTAT 57.467 29.630 1.85 0.00 44.26 1.28
3054 3276 6.547141 ACATACAGTTGGCAATGCTGTTATAT 59.453 34.615 23.27 11.91 42.60 0.86
3077 3299 9.500785 TCTGTCAACATCAAAGAATATGTAACA 57.499 29.630 0.00 0.00 35.30 2.41
3088 3310 8.777865 TCCTATAACTTCTGTCAACATCAAAG 57.222 34.615 0.00 0.00 0.00 2.77
3103 3325 6.373774 GCTGCTAATCATGCATCCTATAACTT 59.626 38.462 0.00 0.00 39.86 2.66
3169 3393 7.290857 TGCAACAATAACTCGTTCTAATCTC 57.709 36.000 0.00 0.00 0.00 2.75
3220 3502 4.932799 TGACAGAATTTTTCCGATTAGCGA 59.067 37.500 0.00 0.00 44.57 4.93
3221 3503 5.022021 GTGACAGAATTTTTCCGATTAGCG 58.978 41.667 0.00 0.00 40.47 4.26
3226 3508 6.001460 TGTTAGGTGACAGAATTTTTCCGAT 58.999 36.000 0.00 0.00 0.00 4.18
3259 3541 1.967779 CTTTAGCTCCTCCCCTAGCTC 59.032 57.143 0.00 0.00 45.92 4.09
3267 3549 9.785982 ATAATTTCAGATAACTTTAGCTCCTCC 57.214 33.333 0.00 0.00 0.00 4.30
3314 3597 5.523552 GCAAATAATTTCAGCCCACATAACC 59.476 40.000 0.00 0.00 0.00 2.85
3503 3787 4.869861 ACACAAAACACTTGGAAAATGCTC 59.130 37.500 0.00 0.00 0.00 4.26
3531 3815 3.869065 GCTTGGTAGCCTGTTATGTGTA 58.131 45.455 0.00 0.00 41.74 2.90
3549 3833 1.897802 CCATCCAGGCTTCTTTTGCTT 59.102 47.619 0.00 0.00 0.00 3.91
3566 3850 1.066716 GCATCATTGTGTTGGTGCCAT 60.067 47.619 0.00 0.00 45.94 4.40
3590 3874 4.090027 AGATCCTTTAAGGGGTGGTAGT 57.910 45.455 11.50 0.00 35.59 2.73
3591 3875 4.040584 GCTAGATCCTTTAAGGGGTGGTAG 59.959 50.000 11.50 6.76 35.59 3.18
3592 3876 3.971971 GCTAGATCCTTTAAGGGGTGGTA 59.028 47.826 11.50 0.00 35.59 3.25
3593 3877 2.778270 GCTAGATCCTTTAAGGGGTGGT 59.222 50.000 11.50 0.00 35.59 4.16
3594 3878 2.777692 TGCTAGATCCTTTAAGGGGTGG 59.222 50.000 11.50 0.00 35.59 4.61
3595 3879 4.455606 CTTGCTAGATCCTTTAAGGGGTG 58.544 47.826 11.50 0.00 35.59 4.61
3596 3880 3.459969 CCTTGCTAGATCCTTTAAGGGGT 59.540 47.826 11.50 0.00 35.59 4.95
3603 3888 2.511637 CCCTTCCCTTGCTAGATCCTTT 59.488 50.000 0.00 0.00 0.00 3.11
3641 3926 3.523564 AGGGCAGAGCTCTTGGTATTTTA 59.476 43.478 15.27 0.00 34.72 1.52
3648 3933 2.725221 AAATAGGGCAGAGCTCTTGG 57.275 50.000 15.27 4.92 34.72 3.61
3690 3976 3.181467 ACAGCAAAGGCAGCAAAATACAA 60.181 39.130 0.00 0.00 44.61 2.41
3717 4003 4.157840 ACCAAGTAATCATCGGAAAAAGGC 59.842 41.667 0.00 0.00 0.00 4.35
3892 4187 5.009210 ACCTTACATAAAACATGTGTTGCGT 59.991 36.000 11.74 10.24 38.44 5.24
3894 4189 6.920758 TCAACCTTACATAAAACATGTGTTGC 59.079 34.615 11.74 0.00 38.44 4.17
3934 4229 3.689161 TGTGGGCATTAGTTTCTGATTCG 59.311 43.478 0.00 0.00 0.00 3.34
3951 4246 2.603473 TCTGACGGAGGGTGTGGG 60.603 66.667 0.00 0.00 0.00 4.61
3997 4295 0.324368 ATCCTATATGCCTCGCGGGA 60.324 55.000 8.08 1.63 37.23 5.14
3998 4296 0.537188 AATCCTATATGCCTCGCGGG 59.463 55.000 6.13 0.59 38.36 6.13
3999 4297 1.645034 CAATCCTATATGCCTCGCGG 58.355 55.000 6.13 0.00 0.00 6.46
4000 4298 1.204704 TCCAATCCTATATGCCTCGCG 59.795 52.381 0.00 0.00 0.00 5.87
4001 4299 3.003480 GTTCCAATCCTATATGCCTCGC 58.997 50.000 0.00 0.00 0.00 5.03
4002 4300 4.221703 AGAGTTCCAATCCTATATGCCTCG 59.778 45.833 0.00 0.00 0.00 4.63
4003 4301 5.486526 CAGAGTTCCAATCCTATATGCCTC 58.513 45.833 0.00 0.00 0.00 4.70
4004 4302 4.288105 CCAGAGTTCCAATCCTATATGCCT 59.712 45.833 0.00 0.00 0.00 4.75
4006 4304 4.583871 CCCAGAGTTCCAATCCTATATGC 58.416 47.826 0.00 0.00 0.00 3.14
4007 4305 4.042062 TGCCCAGAGTTCCAATCCTATATG 59.958 45.833 0.00 0.00 0.00 1.78
4014 4313 1.743996 GAGTGCCCAGAGTTCCAATC 58.256 55.000 0.00 0.00 0.00 2.67
4016 4315 1.371183 CGAGTGCCCAGAGTTCCAA 59.629 57.895 0.00 0.00 0.00 3.53
4040 4339 1.665916 GTCTCAGCGAGCAAGCACA 60.666 57.895 6.21 0.00 40.15 4.57
4044 4343 1.081175 TGACGTCTCAGCGAGCAAG 60.081 57.895 17.92 0.00 35.59 4.01
4050 4349 1.792367 TCAAAATGTGACGTCTCAGCG 59.208 47.619 23.01 12.40 37.94 5.18
4272 4591 2.405892 AAACTTGCATCGTGCTTCAC 57.594 45.000 10.54 0.00 45.31 3.18
4467 4790 3.649277 TTCGCCTTCCGCAGCTCTC 62.649 63.158 0.00 0.00 37.30 3.20
4528 4851 1.234529 CTCCCCTAGTGGCTAGCCT 59.765 63.158 33.07 17.68 33.12 4.58
4529 4852 0.830023 CTCTCCCCTAGTGGCTAGCC 60.830 65.000 27.71 27.71 33.12 3.93
4531 4854 1.821666 GCTCTCTCCCCTAGTGGCTAG 60.822 61.905 0.00 0.00 34.16 3.42
4532 4855 0.186386 GCTCTCTCCCCTAGTGGCTA 59.814 60.000 0.00 0.00 0.00 3.93
4533 4856 1.075600 GCTCTCTCCCCTAGTGGCT 60.076 63.158 0.00 0.00 0.00 4.75
4534 4857 2.494530 CGCTCTCTCCCCTAGTGGC 61.495 68.421 0.00 0.00 0.00 5.01
4535 4858 0.821711 CTCGCTCTCTCCCCTAGTGG 60.822 65.000 0.00 0.00 0.00 4.00
4536 4859 0.821711 CCTCGCTCTCTCCCCTAGTG 60.822 65.000 0.00 0.00 0.00 2.74
4537 4860 1.534697 CCTCGCTCTCTCCCCTAGT 59.465 63.158 0.00 0.00 0.00 2.57
4612 4943 3.133003 GTCAGAGAATAACAGCCAGCCTA 59.867 47.826 0.00 0.00 0.00 3.93
4625 4961 1.202330 CCTGCTCCTGGTCAGAGAAT 58.798 55.000 16.35 0.00 32.26 2.40
4657 4993 2.258591 CGGACAGTGGACGTGAGG 59.741 66.667 0.00 0.00 0.00 3.86
4753 5095 4.948847 ACGTGTGCATGTATGTCTATCAT 58.051 39.130 0.00 0.00 40.25 2.45
4757 5099 5.298276 TCATCTACGTGTGCATGTATGTCTA 59.702 40.000 0.00 0.00 32.87 2.59
4779 5127 1.067213 TGGATCGAATGTGCGTCTTCA 60.067 47.619 0.00 0.00 0.00 3.02
4807 5163 3.842925 GAACAGTTGAGGCCGGGCA 62.843 63.158 31.59 7.51 0.00 5.36
4841 5197 4.546570 CGACTTTATGTATCTCGGCATCA 58.453 43.478 0.00 0.00 0.00 3.07
4844 5200 2.545113 GGCGACTTTATGTATCTCGGCA 60.545 50.000 7.00 0.00 42.69 5.69
4847 5203 2.971915 GACGGCGACTTTATGTATCTCG 59.028 50.000 16.62 0.00 0.00 4.04
4848 5204 2.971915 CGACGGCGACTTTATGTATCTC 59.028 50.000 16.62 0.00 40.82 2.75
4849 5205 2.857489 GCGACGGCGACTTTATGTATCT 60.857 50.000 18.90 0.00 40.82 1.98
4854 5210 3.003478 GGCGACGGCGACTTTATG 58.997 61.111 18.90 0.00 43.91 1.90
4920 5279 0.948678 TTGTTTAGCTCGTGGGTTGC 59.051 50.000 0.00 0.00 0.00 4.17
4973 5332 3.807538 CATCGTCCGTCCGTCCGT 61.808 66.667 0.00 0.00 0.00 4.69
4974 5333 4.547905 CCATCGTCCGTCCGTCCG 62.548 72.222 0.00 0.00 0.00 4.79
4975 5334 1.168407 TATCCATCGTCCGTCCGTCC 61.168 60.000 0.00 0.00 0.00 4.79
4976 5335 0.237761 CTATCCATCGTCCGTCCGTC 59.762 60.000 0.00 0.00 0.00 4.79
4977 5336 0.179037 TCTATCCATCGTCCGTCCGT 60.179 55.000 0.00 0.00 0.00 4.69
5034 5393 0.895100 TGATGCAACTGGGTTGAGGC 60.895 55.000 13.63 0.33 45.28 4.70
5054 5413 4.757594 TGACAATTAAAAGGGCATGCATC 58.242 39.130 21.36 11.12 0.00 3.91
5055 5414 4.822685 TGACAATTAAAAGGGCATGCAT 57.177 36.364 21.36 4.13 0.00 3.96
5056 5415 4.314121 GTTGACAATTAAAAGGGCATGCA 58.686 39.130 21.36 0.00 0.00 3.96
5057 5416 3.684305 GGTTGACAATTAAAAGGGCATGC 59.316 43.478 9.90 9.90 0.00 4.06
5058 5417 4.690280 GTGGTTGACAATTAAAAGGGCATG 59.310 41.667 0.00 0.00 0.00 4.06
5127 5746 0.320771 AGCCTTTGATTGCGTCGTCT 60.321 50.000 0.00 0.00 0.00 4.18
5128 5747 0.179215 CAGCCTTTGATTGCGTCGTC 60.179 55.000 0.00 0.00 0.00 4.20
5191 5810 2.953284 ATCCGTGGCTAGCTAGTAGA 57.047 50.000 21.62 11.59 0.00 2.59


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

AutoCloner maintained by Alex Coulton.