Multiple sequence alignment - TraesCS6D01G227200

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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 TraesCS6D01G227200 chr6D 100.000 3626 0 0 1 3626 318452707 318456332 0.000000e+00 6697.0
1 TraesCS6D01G227200 chr6A 92.756 3175 71 52 1 3101 456010593 456013682 0.000000e+00 4442.0
2 TraesCS6D01G227200 chr6A 94.721 341 13 2 3246 3582 456013741 456014080 3.210000e-145 525.0
3 TraesCS6D01G227200 chr6B 94.544 2786 77 39 325 3101 505683827 505681108 0.000000e+00 4233.0
4 TraesCS6D01G227200 chr6B 93.194 382 19 4 3246 3626 505681054 505680679 4.090000e-154 555.0
5 TraesCS6D01G227200 chr6B 90.393 229 7 6 1 215 505684256 505684029 1.650000e-73 287.0
6 TraesCS6D01G227200 chr6B 100.000 30 0 0 245 274 505684025 505683996 5.060000e-04 56.5
7 TraesCS6D01G227200 chr2D 88.648 1568 163 8 997 2561 518969244 518970799 0.000000e+00 1895.0
8 TraesCS6D01G227200 chr2A 88.363 1564 167 8 1001 2561 663146775 663145224 0.000000e+00 1866.0
9 TraesCS6D01G227200 chr2A 90.986 355 31 1 1225 1579 10979571 10979924 9.110000e-131 477.0
10 TraesCS6D01G227200 chr2A 95.833 72 3 0 1112 1183 10979512 10979583 2.290000e-22 117.0
11 TraesCS6D01G227200 chr2B 87.625 1600 180 12 997 2587 611192213 611193803 0.000000e+00 1842.0
12 TraesCS6D01G227200 chr3A 76.912 693 132 25 1043 1718 617073452 617074133 5.720000e-98 368.0
13 TraesCS6D01G227200 chr3A 93.464 153 10 0 3095 3247 110381635 110381483 1.010000e-55 228.0
14 TraesCS6D01G227200 chr3A 94.828 116 6 0 3130 3245 697731795 697731910 8.000000e-42 182.0
15 TraesCS6D01G227200 chr3B 76.768 693 133 26 1043 1718 631048328 631049009 2.660000e-96 363.0
16 TraesCS6D01G227200 chr3D 76.335 693 124 29 1043 1718 474654761 474655430 5.800000e-88 335.0
17 TraesCS6D01G227200 chr1A 92.763 152 11 0 3095 3246 535893964 535893813 1.690000e-53 220.0
18 TraesCS6D01G227200 chr7A 78.947 152 30 2 3096 3245 683613614 683613765 6.410000e-18 102.0


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 TraesCS6D01G227200 chr6D 318452707 318456332 3625 False 6697.000 6697 100.00000 1 3626 1 chr6D.!!$F1 3625
1 TraesCS6D01G227200 chr6A 456010593 456014080 3487 False 2483.500 4442 93.73850 1 3582 2 chr6A.!!$F1 3581
2 TraesCS6D01G227200 chr6B 505680679 505684256 3577 True 1282.875 4233 94.53275 1 3626 4 chr6B.!!$R1 3625
3 TraesCS6D01G227200 chr2D 518969244 518970799 1555 False 1895.000 1895 88.64800 997 2561 1 chr2D.!!$F1 1564
4 TraesCS6D01G227200 chr2A 663145224 663146775 1551 True 1866.000 1866 88.36300 1001 2561 1 chr2A.!!$R1 1560
5 TraesCS6D01G227200 chr2B 611192213 611193803 1590 False 1842.000 1842 87.62500 997 2587 1 chr2B.!!$F1 1590
6 TraesCS6D01G227200 chr3A 617073452 617074133 681 False 368.000 368 76.91200 1043 1718 1 chr3A.!!$F1 675
7 TraesCS6D01G227200 chr3B 631048328 631049009 681 False 363.000 363 76.76800 1043 1718 1 chr3B.!!$F1 675
8 TraesCS6D01G227200 chr3D 474654761 474655430 669 False 335.000 335 76.33500 1043 1718 1 chr3D.!!$F1 675

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
305 333 0.034337 TTAAGCGTCTCCACACCACC 59.966 55.0 0.00 0.0 0.00 4.61 F
955 1127 0.167689 TACATACACGCACGCACGTA 59.832 50.0 2.78 0.0 46.34 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 2246 3.965258 AGCCACAATGCCGGGTCA 61.965 61.111 2.18 0.0 0.00 4.02 R
2856 3068 0.737367 CTCCGAGCAGACGCAAATCA 60.737 55.000 0.00 0.0 42.27 2.57 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
71 73 0.173481 CGACATCGCTCCTTCAAGGA 59.827 55.000 5.84 5.84 43.43 3.36
80 82 2.437359 CTTCAAGGAGGCCGGCTG 60.437 66.667 28.56 16.79 0.00 4.85
165 193 1.870055 GCACTCCACCCATGCACAAG 61.870 60.000 0.00 0.00 39.23 3.16
218 246 0.846870 ACAGGGAAGGGAAGGGAAGG 60.847 60.000 0.00 0.00 0.00 3.46
219 247 1.230314 AGGGAAGGGAAGGGAAGGG 60.230 63.158 0.00 0.00 0.00 3.95
220 248 1.230182 GGGAAGGGAAGGGAAGGGA 60.230 63.158 0.00 0.00 0.00 4.20
221 249 0.849540 GGGAAGGGAAGGGAAGGGAA 60.850 60.000 0.00 0.00 0.00 3.97
222 250 0.626382 GGAAGGGAAGGGAAGGGAAG 59.374 60.000 0.00 0.00 0.00 3.46
223 251 0.626382 GAAGGGAAGGGAAGGGAAGG 59.374 60.000 0.00 0.00 0.00 3.46
224 252 0.851332 AAGGGAAGGGAAGGGAAGGG 60.851 60.000 0.00 0.00 0.00 3.95
225 253 1.230182 GGGAAGGGAAGGGAAGGGA 60.230 63.158 0.00 0.00 0.00 4.20
226 254 0.849540 GGGAAGGGAAGGGAAGGGAA 60.850 60.000 0.00 0.00 0.00 3.97
227 255 0.626382 GGAAGGGAAGGGAAGGGAAG 59.374 60.000 0.00 0.00 0.00 3.46
228 256 0.626382 GAAGGGAAGGGAAGGGAAGG 59.374 60.000 0.00 0.00 0.00 3.46
229 257 0.851332 AAGGGAAGGGAAGGGAAGGG 60.851 60.000 0.00 0.00 0.00 3.95
230 258 1.230182 GGGAAGGGAAGGGAAGGGA 60.230 63.158 0.00 0.00 0.00 4.20
231 259 0.849540 GGGAAGGGAAGGGAAGGGAA 60.850 60.000 0.00 0.00 0.00 3.97
232 260 0.626382 GGAAGGGAAGGGAAGGGAAG 59.374 60.000 0.00 0.00 0.00 3.46
300 328 2.565391 TCTCCATTTAAGCGTCTCCACA 59.435 45.455 0.00 0.00 0.00 4.17
302 330 1.737793 CCATTTAAGCGTCTCCACACC 59.262 52.381 0.00 0.00 0.00 4.16
303 331 2.422597 CATTTAAGCGTCTCCACACCA 58.577 47.619 0.00 0.00 0.00 4.17
304 332 1.873698 TTTAAGCGTCTCCACACCAC 58.126 50.000 0.00 0.00 0.00 4.16
305 333 0.034337 TTAAGCGTCTCCACACCACC 59.966 55.000 0.00 0.00 0.00 4.61
306 334 1.116536 TAAGCGTCTCCACACCACCA 61.117 55.000 0.00 0.00 0.00 4.17
307 335 2.660258 AAGCGTCTCCACACCACCAC 62.660 60.000 0.00 0.00 0.00 4.16
308 336 2.030562 CGTCTCCACACCACCACC 59.969 66.667 0.00 0.00 0.00 4.61
309 337 2.430367 GTCTCCACACCACCACCC 59.570 66.667 0.00 0.00 0.00 4.61
310 338 2.147387 GTCTCCACACCACCACCCT 61.147 63.158 0.00 0.00 0.00 4.34
311 339 1.841556 TCTCCACACCACCACCCTC 60.842 63.158 0.00 0.00 0.00 4.30
312 340 2.852075 TCCACACCACCACCCTCC 60.852 66.667 0.00 0.00 0.00 4.30
313 341 3.174987 CCACACCACCACCCTCCA 61.175 66.667 0.00 0.00 0.00 3.86
314 342 2.113139 CACACCACCACCCTCCAC 59.887 66.667 0.00 0.00 0.00 4.02
315 343 3.175710 ACACCACCACCCTCCACC 61.176 66.667 0.00 0.00 0.00 4.61
316 344 3.966543 CACCACCACCCTCCACCC 61.967 72.222 0.00 0.00 0.00 4.61
317 345 4.202030 ACCACCACCCTCCACCCT 62.202 66.667 0.00 0.00 0.00 4.34
323 469 2.125225 ACCCTCCACCCTCCCTTC 59.875 66.667 0.00 0.00 0.00 3.46
344 490 0.263765 ATGCATTCAATGGGCTCCCT 59.736 50.000 6.50 0.00 36.94 4.20
390 541 2.728817 GATCGATCGAAGCCGGGT 59.271 61.111 23.50 0.00 36.24 5.28
498 657 2.727544 CCGGCGGCAATTTATGGG 59.272 61.111 15.42 0.00 0.00 4.00
548 715 4.899239 CATCGGTCCAGAGCCCGC 62.899 72.222 0.00 0.00 43.87 6.13
589 761 6.811170 ACACGCAAAGAAATGAAAAGAAAAGA 59.189 30.769 0.00 0.00 0.00 2.52
603 775 7.331687 TGAAAAGAAAAGAAAAACTCAAGGCTG 59.668 33.333 0.00 0.00 0.00 4.85
608 780 0.954452 AAAAACTCAAGGCTGGCTCG 59.046 50.000 3.48 0.00 0.00 5.03
634 806 3.642901 GCCTTGCGAGTAGAATCGA 57.357 52.632 3.21 0.00 45.56 3.59
635 807 1.482278 GCCTTGCGAGTAGAATCGAG 58.518 55.000 3.21 0.00 45.56 4.04
636 808 1.065701 GCCTTGCGAGTAGAATCGAGA 59.934 52.381 3.21 0.00 45.56 4.04
637 809 2.722071 CCTTGCGAGTAGAATCGAGAC 58.278 52.381 3.21 0.00 45.56 3.36
672 844 4.073549 AGGTATCCTGCTGTAGATCGTAC 58.926 47.826 0.00 0.00 29.57 3.67
805 977 6.346896 CACCACTTCTATAAAACCCTAGTCC 58.653 44.000 0.00 0.00 0.00 3.85
946 1118 1.881252 CAGCGGGGTACATACACGC 60.881 63.158 17.36 17.36 46.84 5.34
947 1119 2.184836 GCGGGGTACATACACGCA 59.815 61.111 19.10 0.00 46.22 5.24
948 1120 2.169146 GCGGGGTACATACACGCAC 61.169 63.158 19.10 0.00 46.22 5.34
949 1121 1.874915 CGGGGTACATACACGCACG 60.875 63.158 0.00 0.00 33.26 5.34
950 1122 2.169146 GGGGTACATACACGCACGC 61.169 63.158 0.00 0.00 33.26 5.34
951 1123 1.446445 GGGTACATACACGCACGCA 60.446 57.895 0.00 0.00 0.00 5.24
952 1124 1.689352 GGGTACATACACGCACGCAC 61.689 60.000 0.00 0.00 0.00 5.34
953 1125 1.339134 GTACATACACGCACGCACG 59.661 57.895 0.00 0.00 39.50 5.34
955 1127 0.167689 TACATACACGCACGCACGTA 59.832 50.000 2.78 0.00 46.34 3.57
956 1128 1.339134 CATACACGCACGCACGTAC 59.661 57.895 2.78 0.00 46.34 3.67
957 1129 2.147749 ATACACGCACGCACGTACG 61.148 57.895 15.01 15.01 46.34 3.67
1071 1259 1.745489 GTGGTTCTGGCGGATGTCC 60.745 63.158 0.00 1.32 0.00 4.02
1362 1556 3.813596 GGCGACGGCATCTTCAAT 58.186 55.556 17.49 0.00 42.47 2.57
1698 1892 2.518112 TTCCTGTGGCGCTGCAAA 60.518 55.556 7.64 0.00 0.00 3.68
1869 2072 2.046314 CGGTTCATGCGGAAGGGT 60.046 61.111 0.00 0.00 35.82 4.34
2507 2710 1.649664 CTCACGCTCTTCATGAAGGG 58.350 55.000 30.33 29.20 41.78 3.95
2856 3068 1.840650 CCAGCCGGGGATCTGATCT 60.841 63.158 16.61 0.00 32.26 2.75
2872 3084 1.257415 GATCTGATTTGCGTCTGCTCG 59.743 52.381 0.00 0.00 43.34 5.03
2957 3170 0.687920 TGTGATTGTAGCCACGGGAA 59.312 50.000 0.00 0.00 36.15 3.97
3093 3314 8.229253 TCAAAGCCGTGTACTATTCTATTCTA 57.771 34.615 0.00 0.00 0.00 2.10
3094 3315 8.350722 TCAAAGCCGTGTACTATTCTATTCTAG 58.649 37.037 0.00 0.00 0.00 2.43
3095 3316 8.350722 CAAAGCCGTGTACTATTCTATTCTAGA 58.649 37.037 0.00 0.00 0.00 2.43
3096 3317 7.675962 AGCCGTGTACTATTCTATTCTAGAG 57.324 40.000 0.00 0.00 35.96 2.43
3097 3318 6.149807 AGCCGTGTACTATTCTATTCTAGAGC 59.850 42.308 0.00 0.00 35.96 4.09
3101 3322 8.012809 CGTGTACTATTCTATTCTAGAGCAGTG 58.987 40.741 0.00 0.00 35.96 3.66
3103 3324 7.721842 TGTACTATTCTATTCTAGAGCAGTGCT 59.278 37.037 19.86 19.86 43.88 4.40
3104 3325 9.221933 GTACTATTCTATTCTAGAGCAGTGCTA 57.778 37.037 19.77 1.47 39.88 3.49
3105 3326 8.106247 ACTATTCTATTCTAGAGCAGTGCTAC 57.894 38.462 19.77 11.83 39.88 3.58
3106 3327 5.425577 TTCTATTCTAGAGCAGTGCTACG 57.574 43.478 19.77 9.48 39.88 3.51
3108 3329 1.173913 TTCTAGAGCAGTGCTACGCA 58.826 50.000 19.77 2.38 39.88 5.24
3109 3330 0.735471 TCTAGAGCAGTGCTACGCAG 59.265 55.000 19.77 12.43 39.88 5.18
3111 3332 0.452184 TAGAGCAGTGCTACGCAGAC 59.548 55.000 19.77 3.33 39.88 3.51
3112 3333 2.126307 AGCAGTGCTACGCAGACG 60.126 61.111 18.11 0.00 40.08 4.18
3113 3334 2.126463 GCAGTGCTACGCAGACGA 60.126 61.111 8.18 0.00 43.93 4.20
3114 3335 2.437343 GCAGTGCTACGCAGACGAC 61.437 63.158 8.18 0.00 43.93 4.34
3116 3337 1.081376 AGTGCTACGCAGACGACAC 60.081 57.895 0.00 0.00 43.93 3.67
3117 3338 1.081376 GTGCTACGCAGACGACACT 60.081 57.895 0.00 0.00 43.93 3.55
3118 3339 0.663568 GTGCTACGCAGACGACACTT 60.664 55.000 0.00 0.00 43.93 3.16
3119 3340 0.663269 TGCTACGCAGACGACACTTG 60.663 55.000 0.00 0.00 43.93 3.16
3122 3343 0.876399 TACGCAGACGACACTTGCTA 59.124 50.000 0.00 0.00 43.93 3.49
3124 3345 1.678269 CGCAGACGACACTTGCTAGC 61.678 60.000 8.10 8.10 43.93 3.42
3125 3346 1.355066 GCAGACGACACTTGCTAGCC 61.355 60.000 13.29 0.00 0.00 3.93
3126 3347 1.073216 CAGACGACACTTGCTAGCCG 61.073 60.000 13.29 9.77 0.00 5.52
3127 3348 1.211969 GACGACACTTGCTAGCCGA 59.788 57.895 13.29 0.00 0.00 5.54
3128 3349 0.388134 GACGACACTTGCTAGCCGAA 60.388 55.000 13.29 0.00 0.00 4.30
3130 3351 1.337823 ACGACACTTGCTAGCCGAAAT 60.338 47.619 13.29 0.00 0.00 2.17
3131 3352 1.061131 CGACACTTGCTAGCCGAAATG 59.939 52.381 13.29 3.35 0.00 2.32
3132 3353 2.076863 GACACTTGCTAGCCGAAATGT 58.923 47.619 13.29 6.94 0.00 2.71
3134 3355 0.804989 ACTTGCTAGCCGAAATGTGC 59.195 50.000 13.29 0.00 0.00 4.57
3136 3357 0.521291 TTGCTAGCCGAAATGTGCAC 59.479 50.000 13.29 10.75 0.00 4.57
3137 3358 1.060937 GCTAGCCGAAATGTGCACG 59.939 57.895 13.13 0.00 0.00 5.34
3139 3360 0.370273 CTAGCCGAAATGTGCACGAC 59.630 55.000 13.13 2.48 0.00 4.34
3140 3361 1.348538 TAGCCGAAATGTGCACGACG 61.349 55.000 13.13 13.94 0.00 5.12
3141 3362 2.202171 CCGAAATGTGCACGACGC 60.202 61.111 13.13 0.84 42.89 5.19
3142 3363 2.667318 CCGAAATGTGCACGACGCT 61.667 57.895 13.13 0.00 43.06 5.07
3145 3366 1.068474 GAAATGTGCACGACGCTACT 58.932 50.000 13.13 0.00 43.06 2.57
3147 3368 1.068474 AATGTGCACGACGCTACTTC 58.932 50.000 13.13 0.00 43.06 3.01
3148 3369 0.038618 ATGTGCACGACGCTACTTCA 60.039 50.000 13.13 0.00 43.06 3.02
3149 3370 0.663269 TGTGCACGACGCTACTTCAG 60.663 55.000 13.13 0.00 43.06 3.02
3150 3371 1.080772 TGCACGACGCTACTTCAGG 60.081 57.895 0.00 0.00 43.06 3.86
3151 3372 1.805945 GCACGACGCTACTTCAGGG 60.806 63.158 0.00 0.00 42.80 4.45
3153 3374 0.456312 CACGACGCTACTTCAGGGAC 60.456 60.000 0.00 0.00 39.56 4.46
3154 3375 1.139095 CGACGCTACTTCAGGGACC 59.861 63.158 0.00 0.00 39.56 4.46
3155 3376 1.592400 CGACGCTACTTCAGGGACCA 61.592 60.000 0.00 0.00 39.56 4.02
3157 3378 0.824759 ACGCTACTTCAGGGACCATC 59.175 55.000 0.00 0.00 39.56 3.51
3158 3379 0.105039 CGCTACTTCAGGGACCATCC 59.895 60.000 0.00 0.00 39.56 3.51
3159 3380 1.204146 GCTACTTCAGGGACCATCCA 58.796 55.000 0.00 0.00 38.64 3.41
3160 3381 1.771255 GCTACTTCAGGGACCATCCAT 59.229 52.381 0.00 0.00 38.64 3.41
3161 3382 2.173569 GCTACTTCAGGGACCATCCATT 59.826 50.000 0.00 0.00 38.64 3.16
3162 3383 2.814805 ACTTCAGGGACCATCCATTG 57.185 50.000 0.00 0.00 38.64 2.82
3170 3391 4.368003 CCATCCATTGGCAAGCCT 57.632 55.556 12.96 0.00 39.09 4.58
3171 3392 1.820581 CCATCCATTGGCAAGCCTG 59.179 57.895 12.96 2.98 39.09 4.85
3172 3393 1.682451 CCATCCATTGGCAAGCCTGG 61.682 60.000 12.96 12.41 39.09 4.45
3173 3394 0.685131 CATCCATTGGCAAGCCTGGA 60.685 55.000 20.12 20.12 42.31 3.86
3174 3395 0.685458 ATCCATTGGCAAGCCTGGAC 60.685 55.000 20.22 0.00 41.37 4.02
3175 3396 1.607178 CCATTGGCAAGCCTGGACA 60.607 57.895 12.05 0.00 34.41 4.02
3176 3397 1.601419 CCATTGGCAAGCCTGGACAG 61.601 60.000 12.05 0.00 34.41 3.51
3177 3398 1.980772 ATTGGCAAGCCTGGACAGC 60.981 57.895 12.96 0.00 36.94 4.40
3178 3399 4.666253 TGGCAAGCCTGGACAGCC 62.666 66.667 12.96 14.41 45.41 4.85
3180 3401 4.357279 GCAAGCCTGGACAGCCCT 62.357 66.667 0.00 0.00 35.38 5.19
3181 3402 2.971598 GCAAGCCTGGACAGCCCTA 61.972 63.158 0.00 0.00 35.38 3.53
3182 3403 1.222936 CAAGCCTGGACAGCCCTAG 59.777 63.158 0.00 0.00 35.38 3.02
3183 3404 1.997874 AAGCCTGGACAGCCCTAGG 60.998 63.158 0.06 0.06 36.73 3.02
3193 3414 3.346870 GCCCTAGGCCCTTGGATT 58.653 61.111 13.28 0.00 44.06 3.01
3194 3415 2.551996 GCCCTAGGCCCTTGGATTA 58.448 57.895 13.28 0.00 44.06 1.75
3195 3416 0.402121 GCCCTAGGCCCTTGGATTAG 59.598 60.000 13.28 0.00 44.06 1.73
3196 3417 0.402121 CCCTAGGCCCTTGGATTAGC 59.598 60.000 13.28 0.00 0.00 3.09
3197 3418 1.439543 CCTAGGCCCTTGGATTAGCT 58.560 55.000 5.12 0.00 0.00 3.32
3198 3419 2.621070 CCTAGGCCCTTGGATTAGCTA 58.379 52.381 5.12 0.00 0.00 3.32
3199 3420 3.185455 CCTAGGCCCTTGGATTAGCTAT 58.815 50.000 5.12 0.00 0.00 2.97
3200 3421 3.198853 CCTAGGCCCTTGGATTAGCTATC 59.801 52.174 5.12 0.00 0.00 2.08
3201 3422 1.625818 AGGCCCTTGGATTAGCTATCG 59.374 52.381 0.00 0.00 33.82 2.92
3202 3423 1.348036 GGCCCTTGGATTAGCTATCGT 59.652 52.381 0.00 0.00 33.82 3.73
3203 3424 2.417719 GCCCTTGGATTAGCTATCGTG 58.582 52.381 0.00 0.00 33.82 4.35
3204 3425 2.417719 CCCTTGGATTAGCTATCGTGC 58.582 52.381 0.00 0.00 33.82 5.34
3205 3426 2.224281 CCCTTGGATTAGCTATCGTGCA 60.224 50.000 0.00 0.00 33.82 4.57
3206 3427 3.557898 CCCTTGGATTAGCTATCGTGCAT 60.558 47.826 0.00 0.00 33.82 3.96
3207 3428 3.434641 CCTTGGATTAGCTATCGTGCATG 59.565 47.826 0.00 0.00 33.82 4.06
3208 3429 3.751479 TGGATTAGCTATCGTGCATGT 57.249 42.857 5.68 0.00 33.82 3.21
3209 3430 4.864704 TGGATTAGCTATCGTGCATGTA 57.135 40.909 5.68 0.00 33.82 2.29
3210 3431 5.405935 TGGATTAGCTATCGTGCATGTAT 57.594 39.130 5.68 1.24 33.82 2.29
3211 3432 5.410924 TGGATTAGCTATCGTGCATGTATC 58.589 41.667 5.68 0.00 33.82 2.24
3212 3433 4.500837 GGATTAGCTATCGTGCATGTATCG 59.499 45.833 5.68 0.00 33.82 2.92
3213 3434 4.499037 TTAGCTATCGTGCATGTATCGT 57.501 40.909 5.68 0.00 34.99 3.73
3214 3435 3.371102 AGCTATCGTGCATGTATCGTT 57.629 42.857 5.68 0.00 34.99 3.85
3215 3436 3.309388 AGCTATCGTGCATGTATCGTTC 58.691 45.455 5.68 0.00 34.99 3.95
3216 3437 3.049912 GCTATCGTGCATGTATCGTTCA 58.950 45.455 5.68 0.00 0.00 3.18
3217 3438 3.120286 GCTATCGTGCATGTATCGTTCAG 59.880 47.826 5.68 0.00 0.00 3.02
3218 3439 1.277326 TCGTGCATGTATCGTTCAGC 58.723 50.000 5.68 0.00 0.00 4.26
3219 3440 0.998669 CGTGCATGTATCGTTCAGCA 59.001 50.000 0.00 0.00 0.00 4.41
3220 3441 1.393196 CGTGCATGTATCGTTCAGCAA 59.607 47.619 0.00 0.00 33.37 3.91
3221 3442 2.159720 CGTGCATGTATCGTTCAGCAAA 60.160 45.455 0.00 0.00 33.37 3.68
3222 3443 3.666638 CGTGCATGTATCGTTCAGCAAAA 60.667 43.478 0.00 0.00 33.37 2.44
3223 3444 3.848019 GTGCATGTATCGTTCAGCAAAAG 59.152 43.478 0.00 0.00 33.37 2.27
3224 3445 3.750652 TGCATGTATCGTTCAGCAAAAGA 59.249 39.130 0.00 0.00 0.00 2.52
3225 3446 4.395854 TGCATGTATCGTTCAGCAAAAGAT 59.604 37.500 0.00 5.80 39.14 2.40
3226 3447 4.966366 GCATGTATCGTTCAGCAAAAGATC 59.034 41.667 0.00 0.00 37.31 2.75
3227 3448 4.840401 TGTATCGTTCAGCAAAAGATCG 57.160 40.909 4.11 0.00 37.31 3.69
3228 3449 4.242475 TGTATCGTTCAGCAAAAGATCGT 58.758 39.130 4.11 0.00 37.31 3.73
3229 3450 3.999229 ATCGTTCAGCAAAAGATCGTC 57.001 42.857 0.00 0.00 31.41 4.20
3230 3451 2.066262 TCGTTCAGCAAAAGATCGTCC 58.934 47.619 0.00 0.00 31.93 4.79
3231 3452 1.201812 CGTTCAGCAAAAGATCGTCCG 60.202 52.381 0.00 0.00 0.00 4.79
3232 3453 1.798813 GTTCAGCAAAAGATCGTCCGT 59.201 47.619 0.00 0.00 0.00 4.69
3233 3454 1.428448 TCAGCAAAAGATCGTCCGTG 58.572 50.000 0.00 0.00 0.00 4.94
3234 3455 1.000394 TCAGCAAAAGATCGTCCGTGA 60.000 47.619 0.00 0.00 0.00 4.35
3235 3456 1.798223 CAGCAAAAGATCGTCCGTGAA 59.202 47.619 0.00 0.00 0.00 3.18
3236 3457 2.069273 AGCAAAAGATCGTCCGTGAAG 58.931 47.619 0.00 0.00 0.00 3.02
3237 3458 1.798813 GCAAAAGATCGTCCGTGAAGT 59.201 47.619 0.00 0.00 0.00 3.01
3238 3459 2.991190 GCAAAAGATCGTCCGTGAAGTA 59.009 45.455 0.00 0.00 0.00 2.24
3239 3460 3.060895 GCAAAAGATCGTCCGTGAAGTAG 59.939 47.826 0.00 0.00 0.00 2.57
3240 3461 4.235360 CAAAAGATCGTCCGTGAAGTAGT 58.765 43.478 0.00 0.00 0.00 2.73
3241 3462 4.516365 AAAGATCGTCCGTGAAGTAGTT 57.484 40.909 0.00 0.00 0.00 2.24
3242 3463 3.761311 AGATCGTCCGTGAAGTAGTTC 57.239 47.619 3.15 3.15 0.00 3.01
3243 3464 2.422832 AGATCGTCCGTGAAGTAGTTCC 59.577 50.000 7.84 0.00 0.00 3.62
3244 3465 0.518636 TCGTCCGTGAAGTAGTTCCG 59.481 55.000 7.84 10.20 0.00 4.30
3294 3515 4.142038 TGACAAGTTTCTTCTTTAGGGGC 58.858 43.478 0.00 0.00 0.00 5.80
3369 3590 3.121092 CGATCTGCATGACGATGACATTC 60.121 47.826 0.00 0.00 0.00 2.67
3435 3656 2.577059 GCCGTCCGATCTGGTGAA 59.423 61.111 3.97 0.00 39.52 3.18
3500 3725 1.203038 TGGCTCCCAACATCAACATGT 60.203 47.619 0.00 0.00 45.89 3.21
3587 3812 0.604073 TTACGACAGCGATGTTCCCA 59.396 50.000 8.15 0.00 41.64 4.37
3588 3813 0.108992 TACGACAGCGATGTTCCCAC 60.109 55.000 8.15 0.00 41.64 4.61
3589 3814 2.100631 CGACAGCGATGTTCCCACC 61.101 63.158 8.15 0.00 40.82 4.61
3592 3817 1.746615 CAGCGATGTTCCCACCCTG 60.747 63.158 0.00 0.00 0.00 4.45
3609 3834 1.328439 CTGTAAGGATCGCGCGATAC 58.672 55.000 40.95 40.95 35.74 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
177 205 3.899296 ACAGCACTGTACGTACCAACGA 61.899 50.000 22.43 2.91 46.48 3.85
218 246 1.691823 CACCCTTCCCTTCCCTTCC 59.308 63.158 0.00 0.00 0.00 3.46
219 247 1.000771 GCACCCTTCCCTTCCCTTC 60.001 63.158 0.00 0.00 0.00 3.46
220 248 1.149133 ATGCACCCTTCCCTTCCCTT 61.149 55.000 0.00 0.00 0.00 3.95
221 249 1.544917 ATGCACCCTTCCCTTCCCT 60.545 57.895 0.00 0.00 0.00 4.20
222 250 1.380380 CATGCACCCTTCCCTTCCC 60.380 63.158 0.00 0.00 0.00 3.97
223 251 1.380380 CCATGCACCCTTCCCTTCC 60.380 63.158 0.00 0.00 0.00 3.46
224 252 0.967380 CACCATGCACCCTTCCCTTC 60.967 60.000 0.00 0.00 0.00 3.46
225 253 1.077265 CACCATGCACCCTTCCCTT 59.923 57.895 0.00 0.00 0.00 3.95
226 254 1.217057 ATCACCATGCACCCTTCCCT 61.217 55.000 0.00 0.00 0.00 4.20
227 255 1.039233 CATCACCATGCACCCTTCCC 61.039 60.000 0.00 0.00 0.00 3.97
228 256 1.039233 CCATCACCATGCACCCTTCC 61.039 60.000 0.00 0.00 0.00 3.46
229 257 0.323725 ACCATCACCATGCACCCTTC 60.324 55.000 0.00 0.00 0.00 3.46
230 258 0.612732 CACCATCACCATGCACCCTT 60.613 55.000 0.00 0.00 0.00 3.95
231 259 1.000521 CACCATCACCATGCACCCT 60.001 57.895 0.00 0.00 0.00 4.34
232 260 2.053865 CCACCATCACCATGCACCC 61.054 63.158 0.00 0.00 0.00 4.61
300 328 4.202030 AGGGTGGAGGGTGGTGGT 62.202 66.667 0.00 0.00 0.00 4.16
302 330 3.330720 GGAGGGTGGAGGGTGGTG 61.331 72.222 0.00 0.00 0.00 4.17
303 331 4.677151 GGGAGGGTGGAGGGTGGT 62.677 72.222 0.00 0.00 0.00 4.16
304 332 3.891432 AAGGGAGGGTGGAGGGTGG 62.891 68.421 0.00 0.00 0.00 4.61
305 333 2.204151 AAGGGAGGGTGGAGGGTG 60.204 66.667 0.00 0.00 0.00 4.61
306 334 2.125225 GAAGGGAGGGTGGAGGGT 59.875 66.667 0.00 0.00 0.00 4.34
307 335 0.921256 ATTGAAGGGAGGGTGGAGGG 60.921 60.000 0.00 0.00 0.00 4.30
308 336 0.257039 CATTGAAGGGAGGGTGGAGG 59.743 60.000 0.00 0.00 0.00 4.30
309 337 0.394899 GCATTGAAGGGAGGGTGGAG 60.395 60.000 0.00 0.00 0.00 3.86
310 338 1.139498 TGCATTGAAGGGAGGGTGGA 61.139 55.000 0.00 0.00 0.00 4.02
311 339 0.032813 ATGCATTGAAGGGAGGGTGG 60.033 55.000 0.00 0.00 0.00 4.61
312 340 1.753073 GAATGCATTGAAGGGAGGGTG 59.247 52.381 18.59 0.00 0.00 4.61
313 341 1.358787 TGAATGCATTGAAGGGAGGGT 59.641 47.619 18.59 0.00 0.00 4.34
314 342 2.148446 TGAATGCATTGAAGGGAGGG 57.852 50.000 18.59 0.00 0.00 4.30
315 343 3.181469 CCATTGAATGCATTGAAGGGAGG 60.181 47.826 30.62 18.15 37.06 4.30
316 344 3.181469 CCCATTGAATGCATTGAAGGGAG 60.181 47.826 34.21 23.15 37.06 4.30
317 345 2.767394 CCCATTGAATGCATTGAAGGGA 59.233 45.455 34.21 7.14 37.06 4.20
323 469 1.202604 GGGAGCCCATTGAATGCATTG 60.203 52.381 18.59 2.44 35.81 2.82
385 536 3.451894 GCCAAGCCAATCACCCGG 61.452 66.667 0.00 0.00 0.00 5.73
390 541 0.609957 CTGGTCAGCCAAGCCAATCA 60.610 55.000 0.00 0.00 45.51 2.57
476 635 3.999297 TAAATTGCCGCCGGGGGTC 62.999 63.158 35.32 27.14 35.78 4.46
477 636 3.367907 ATAAATTGCCGCCGGGGGT 62.368 57.895 35.32 19.78 35.78 4.95
478 637 2.520741 ATAAATTGCCGCCGGGGG 60.521 61.111 32.37 32.37 35.78 5.40
507 666 4.382320 CGAAGAAACGGGGCGGGA 62.382 66.667 0.00 0.00 0.00 5.14
548 715 0.599204 GTGTGTGTGTAGTGACCGGG 60.599 60.000 6.32 0.00 0.00 5.73
549 716 0.937699 CGTGTGTGTGTAGTGACCGG 60.938 60.000 0.00 0.00 0.00 5.28
551 718 0.528901 TGCGTGTGTGTGTAGTGACC 60.529 55.000 0.00 0.00 0.00 4.02
552 719 1.282817 TTGCGTGTGTGTGTAGTGAC 58.717 50.000 0.00 0.00 0.00 3.67
554 721 1.930503 TCTTTGCGTGTGTGTGTAGTG 59.069 47.619 0.00 0.00 0.00 2.74
557 724 3.623510 TCATTTCTTTGCGTGTGTGTGTA 59.376 39.130 0.00 0.00 0.00 2.90
558 725 2.421775 TCATTTCTTTGCGTGTGTGTGT 59.578 40.909 0.00 0.00 0.00 3.72
559 726 3.063670 TCATTTCTTTGCGTGTGTGTG 57.936 42.857 0.00 0.00 0.00 3.82
589 761 0.954452 CGAGCCAGCCTTGAGTTTTT 59.046 50.000 0.00 0.00 0.00 1.94
595 767 4.087892 GGAGCGAGCCAGCCTTGA 62.088 66.667 0.00 0.00 38.01 3.02
617 789 2.722071 GTCTCGATTCTACTCGCAAGG 58.278 52.381 0.00 0.00 38.52 3.61
618 790 2.223066 ACGTCTCGATTCTACTCGCAAG 60.223 50.000 0.00 0.00 38.52 4.01
619 791 1.736126 ACGTCTCGATTCTACTCGCAA 59.264 47.619 0.00 0.00 38.52 4.85
620 792 1.366679 ACGTCTCGATTCTACTCGCA 58.633 50.000 0.00 0.00 38.52 5.10
621 793 2.656104 CGTACGTCTCGATTCTACTCGC 60.656 54.545 7.22 0.00 38.52 5.03
622 794 2.533535 ACGTACGTCTCGATTCTACTCG 59.466 50.000 16.72 0.00 39.99 4.18
623 795 5.820926 ATACGTACGTCTCGATTCTACTC 57.179 43.478 26.53 0.00 0.00 2.59
624 796 6.183360 GCATATACGTACGTCTCGATTCTACT 60.183 42.308 26.53 0.00 0.00 2.57
625 797 5.950924 GCATATACGTACGTCTCGATTCTAC 59.049 44.000 26.53 1.72 0.00 2.59
626 798 5.634859 TGCATATACGTACGTCTCGATTCTA 59.365 40.000 26.53 3.89 0.00 2.10
627 799 4.450080 TGCATATACGTACGTCTCGATTCT 59.550 41.667 26.53 0.00 0.00 2.40
628 800 4.705492 TGCATATACGTACGTCTCGATTC 58.295 43.478 26.53 9.00 0.00 2.52
629 801 4.378149 CCTGCATATACGTACGTCTCGATT 60.378 45.833 26.53 6.65 0.00 3.34
630 802 3.124806 CCTGCATATACGTACGTCTCGAT 59.875 47.826 26.53 15.21 0.00 3.59
631 803 2.477754 CCTGCATATACGTACGTCTCGA 59.522 50.000 26.53 7.76 0.00 4.04
632 804 2.222678 ACCTGCATATACGTACGTCTCG 59.777 50.000 26.53 12.98 0.00 4.04
633 805 3.892918 ACCTGCATATACGTACGTCTC 57.107 47.619 26.53 10.80 0.00 3.36
634 806 4.394300 GGATACCTGCATATACGTACGTCT 59.606 45.833 26.53 18.19 0.00 4.18
635 807 4.394300 AGGATACCTGCATATACGTACGTC 59.606 45.833 26.53 10.78 29.57 4.34
636 808 4.155462 CAGGATACCTGCATATACGTACGT 59.845 45.833 25.98 25.98 45.13 3.57
637 809 4.659088 CAGGATACCTGCATATACGTACG 58.341 47.826 15.01 15.01 45.13 3.67
672 844 4.547406 TGCATGCAGTACTACGTACTAG 57.453 45.455 18.46 0.00 46.08 2.57
680 852 3.550842 CGCTGTAGATGCATGCAGTACTA 60.551 47.826 29.33 25.04 35.56 1.82
681 853 2.800985 CGCTGTAGATGCATGCAGTACT 60.801 50.000 29.33 25.79 35.56 2.73
682 854 1.524355 CGCTGTAGATGCATGCAGTAC 59.476 52.381 26.69 26.09 35.56 2.73
683 855 1.408702 TCGCTGTAGATGCATGCAGTA 59.591 47.619 26.69 16.67 35.56 2.74
684 856 0.176449 TCGCTGTAGATGCATGCAGT 59.824 50.000 26.69 17.74 35.56 4.40
954 1126 1.058748 GAGTGTACGTACGCGCGTA 59.941 57.895 36.55 36.55 45.06 4.42
1362 1556 4.351938 CAGGTGTCGCCGTCGGAA 62.352 66.667 17.49 0.00 43.70 4.30
2043 2246 3.965258 AGCCACAATGCCGGGTCA 61.965 61.111 2.18 0.00 0.00 4.02
2507 2710 4.301027 CCTCCATCCGTAGCCCGC 62.301 72.222 0.00 0.00 34.38 6.13
2765 2977 4.392138 GTCGTAAATTCTGGAAAGGAGTGG 59.608 45.833 0.00 0.00 0.00 4.00
2856 3068 0.737367 CTCCGAGCAGACGCAAATCA 60.737 55.000 0.00 0.00 42.27 2.57
3057 3275 5.200368 ACACGGCTTTGAAAAATCATCTT 57.800 34.783 0.00 0.00 0.00 2.40
3103 3324 0.876399 TAGCAAGTGTCGTCTGCGTA 59.124 50.000 0.00 0.00 39.49 4.42
3104 3325 0.387367 CTAGCAAGTGTCGTCTGCGT 60.387 55.000 0.00 0.00 39.49 5.24
3105 3326 1.678269 GCTAGCAAGTGTCGTCTGCG 61.678 60.000 10.63 0.00 39.92 5.18
3106 3327 1.355066 GGCTAGCAAGTGTCGTCTGC 61.355 60.000 18.24 0.00 0.00 4.26
3108 3329 1.213013 CGGCTAGCAAGTGTCGTCT 59.787 57.895 18.24 0.00 0.00 4.18
3109 3330 0.388134 TTCGGCTAGCAAGTGTCGTC 60.388 55.000 18.24 0.00 0.00 4.20
3111 3332 1.061131 CATTTCGGCTAGCAAGTGTCG 59.939 52.381 18.24 9.77 0.00 4.35
3112 3333 2.076863 ACATTTCGGCTAGCAAGTGTC 58.923 47.619 18.24 0.00 0.00 3.67
3113 3334 1.806542 CACATTTCGGCTAGCAAGTGT 59.193 47.619 18.24 12.99 0.00 3.55
3114 3335 1.466360 GCACATTTCGGCTAGCAAGTG 60.466 52.381 18.24 12.34 0.00 3.16
3116 3337 0.804364 TGCACATTTCGGCTAGCAAG 59.196 50.000 18.24 10.13 0.00 4.01
3117 3338 0.521291 GTGCACATTTCGGCTAGCAA 59.479 50.000 18.24 2.31 33.37 3.91
3118 3339 1.634757 CGTGCACATTTCGGCTAGCA 61.635 55.000 18.64 0.00 0.00 3.49
3119 3340 1.060937 CGTGCACATTTCGGCTAGC 59.939 57.895 18.64 6.04 0.00 3.42
3122 3343 2.667318 CGTCGTGCACATTTCGGCT 61.667 57.895 18.64 0.00 0.00 5.52
3124 3345 2.202171 GCGTCGTGCACATTTCGG 60.202 61.111 18.64 0.00 45.45 4.30
3134 3355 0.456312 GTCCCTGAAGTAGCGTCGTG 60.456 60.000 0.00 0.00 0.00 4.35
3136 3357 1.139095 GGTCCCTGAAGTAGCGTCG 59.861 63.158 0.00 0.00 0.00 5.12
3137 3358 0.824759 ATGGTCCCTGAAGTAGCGTC 59.175 55.000 0.00 0.00 0.00 5.19
3139 3360 0.105039 GGATGGTCCCTGAAGTAGCG 59.895 60.000 0.00 0.00 0.00 4.26
3140 3361 1.204146 TGGATGGTCCCTGAAGTAGC 58.796 55.000 0.00 0.00 35.03 3.58
3141 3362 3.434167 CCAATGGATGGTCCCTGAAGTAG 60.434 52.174 0.00 0.00 44.85 2.57
3142 3363 2.509548 CCAATGGATGGTCCCTGAAGTA 59.490 50.000 0.00 0.00 44.85 2.24
3154 3375 0.685131 TCCAGGCTTGCCAATGGATG 60.685 55.000 15.83 4.38 36.92 3.51
3155 3376 0.685458 GTCCAGGCTTGCCAATGGAT 60.685 55.000 20.66 0.00 43.42 3.41
3157 3378 1.601419 CTGTCCAGGCTTGCCAATGG 61.601 60.000 14.54 13.23 0.00 3.16
3158 3379 1.888018 CTGTCCAGGCTTGCCAATG 59.112 57.895 14.54 4.25 0.00 2.82
3159 3380 1.980772 GCTGTCCAGGCTTGCCAAT 60.981 57.895 14.54 0.00 0.00 3.16
3160 3381 2.598394 GCTGTCCAGGCTTGCCAA 60.598 61.111 14.54 0.00 0.00 4.52
3177 3398 0.402121 GCTAATCCAAGGGCCTAGGG 59.598 60.000 6.41 12.63 0.00 3.53
3178 3399 1.439543 AGCTAATCCAAGGGCCTAGG 58.560 55.000 6.41 3.67 0.00 3.02
3179 3400 3.118956 CGATAGCTAATCCAAGGGCCTAG 60.119 52.174 6.41 0.75 0.00 3.02
3180 3401 2.832129 CGATAGCTAATCCAAGGGCCTA 59.168 50.000 6.41 0.00 0.00 3.93
3181 3402 1.625818 CGATAGCTAATCCAAGGGCCT 59.374 52.381 0.00 0.00 0.00 5.19
3182 3403 1.348036 ACGATAGCTAATCCAAGGGCC 59.652 52.381 0.00 0.00 42.67 5.80
3183 3404 2.417719 CACGATAGCTAATCCAAGGGC 58.582 52.381 0.00 0.00 42.67 5.19
3184 3405 2.224281 TGCACGATAGCTAATCCAAGGG 60.224 50.000 0.00 0.00 42.67 3.95
3185 3406 3.111853 TGCACGATAGCTAATCCAAGG 57.888 47.619 0.00 0.00 42.67 3.61
3186 3407 4.060900 ACATGCACGATAGCTAATCCAAG 58.939 43.478 0.00 0.00 42.67 3.61
3187 3408 4.071961 ACATGCACGATAGCTAATCCAA 57.928 40.909 0.00 0.00 42.67 3.53
3188 3409 3.751479 ACATGCACGATAGCTAATCCA 57.249 42.857 0.00 0.00 42.67 3.41
3189 3410 4.500837 CGATACATGCACGATAGCTAATCC 59.499 45.833 0.00 0.00 42.67 3.01
3190 3411 5.096169 ACGATACATGCACGATAGCTAATC 58.904 41.667 12.34 0.00 42.67 1.75
3191 3412 5.060662 ACGATACATGCACGATAGCTAAT 57.939 39.130 12.34 0.00 42.67 1.73
3192 3413 4.499037 ACGATACATGCACGATAGCTAA 57.501 40.909 12.34 0.00 42.67 3.09
3193 3414 4.023536 TGAACGATACATGCACGATAGCTA 60.024 41.667 12.34 0.00 42.67 3.32
3194 3415 3.243401 TGAACGATACATGCACGATAGCT 60.243 43.478 12.34 0.00 42.67 3.32
3195 3416 3.049912 TGAACGATACATGCACGATAGC 58.950 45.455 12.34 0.00 42.67 2.97
3196 3417 3.120286 GCTGAACGATACATGCACGATAG 59.880 47.826 12.34 8.55 46.19 2.08
3197 3418 3.049912 GCTGAACGATACATGCACGATA 58.950 45.455 12.34 0.00 0.00 2.92
3198 3419 1.860950 GCTGAACGATACATGCACGAT 59.139 47.619 12.34 2.29 0.00 3.73
3199 3420 1.277326 GCTGAACGATACATGCACGA 58.723 50.000 12.34 0.00 0.00 4.35
3200 3421 0.998669 TGCTGAACGATACATGCACG 59.001 50.000 0.00 0.00 0.00 5.34
3201 3422 3.469899 TTTGCTGAACGATACATGCAC 57.530 42.857 0.00 0.00 0.00 4.57
3202 3423 3.750652 TCTTTTGCTGAACGATACATGCA 59.249 39.130 0.00 0.00 0.00 3.96
3203 3424 4.340894 TCTTTTGCTGAACGATACATGC 57.659 40.909 0.00 0.00 0.00 4.06
3204 3425 5.193216 CGATCTTTTGCTGAACGATACATG 58.807 41.667 0.00 0.00 32.70 3.21
3205 3426 4.870426 ACGATCTTTTGCTGAACGATACAT 59.130 37.500 0.00 0.00 34.58 2.29
3206 3427 4.242475 ACGATCTTTTGCTGAACGATACA 58.758 39.130 0.00 0.00 34.58 2.29
3207 3428 4.259850 GGACGATCTTTTGCTGAACGATAC 60.260 45.833 0.00 0.00 34.58 2.24
3208 3429 3.863424 GGACGATCTTTTGCTGAACGATA 59.137 43.478 0.00 0.00 34.58 2.92
3209 3430 2.673368 GGACGATCTTTTGCTGAACGAT 59.327 45.455 0.00 0.84 34.58 3.73
3210 3431 2.066262 GGACGATCTTTTGCTGAACGA 58.934 47.619 0.00 0.00 34.58 3.85
3211 3432 1.201812 CGGACGATCTTTTGCTGAACG 60.202 52.381 0.00 0.00 36.14 3.95
3212 3433 1.798813 ACGGACGATCTTTTGCTGAAC 59.201 47.619 0.00 0.00 0.00 3.18
3213 3434 1.798223 CACGGACGATCTTTTGCTGAA 59.202 47.619 0.00 0.00 0.00 3.02
3214 3435 1.000394 TCACGGACGATCTTTTGCTGA 60.000 47.619 0.00 0.00 0.00 4.26
3215 3436 1.428448 TCACGGACGATCTTTTGCTG 58.572 50.000 0.00 0.00 0.00 4.41
3216 3437 2.069273 CTTCACGGACGATCTTTTGCT 58.931 47.619 0.00 0.00 0.00 3.91
3217 3438 1.798813 ACTTCACGGACGATCTTTTGC 59.201 47.619 0.00 0.00 0.00 3.68
3218 3439 4.235360 ACTACTTCACGGACGATCTTTTG 58.765 43.478 0.00 0.00 0.00 2.44
3219 3440 4.516365 ACTACTTCACGGACGATCTTTT 57.484 40.909 0.00 0.00 0.00 2.27
3220 3441 4.483311 GAACTACTTCACGGACGATCTTT 58.517 43.478 0.00 0.00 0.00 2.52
3221 3442 3.119566 GGAACTACTTCACGGACGATCTT 60.120 47.826 0.00 0.00 0.00 2.40
3222 3443 2.422832 GGAACTACTTCACGGACGATCT 59.577 50.000 0.00 0.00 0.00 2.75
3223 3444 2.790468 CGGAACTACTTCACGGACGATC 60.790 54.545 0.00 0.00 0.00 3.69
3224 3445 1.131883 CGGAACTACTTCACGGACGAT 59.868 52.381 0.00 0.00 0.00 3.73
3225 3446 0.518636 CGGAACTACTTCACGGACGA 59.481 55.000 0.00 0.00 0.00 4.20
3226 3447 0.239347 ACGGAACTACTTCACGGACG 59.761 55.000 0.00 0.00 0.00 4.79
3227 3448 2.056577 CAACGGAACTACTTCACGGAC 58.943 52.381 0.00 0.00 0.00 4.79
3228 3449 1.603678 GCAACGGAACTACTTCACGGA 60.604 52.381 0.00 0.00 0.00 4.69
3229 3450 0.788391 GCAACGGAACTACTTCACGG 59.212 55.000 0.00 0.00 0.00 4.94
3230 3451 1.779569 AGCAACGGAACTACTTCACG 58.220 50.000 0.00 0.00 0.00 4.35
3231 3452 3.391049 AGAAGCAACGGAACTACTTCAC 58.609 45.455 0.00 0.00 39.33 3.18
3232 3453 3.746045 AGAAGCAACGGAACTACTTCA 57.254 42.857 0.00 0.00 39.33 3.02
3233 3454 4.510340 TCAAAGAAGCAACGGAACTACTTC 59.490 41.667 0.00 0.00 37.58 3.01
3234 3455 4.272748 GTCAAAGAAGCAACGGAACTACTT 59.727 41.667 0.00 0.00 0.00 2.24
3235 3456 3.808174 GTCAAAGAAGCAACGGAACTACT 59.192 43.478 0.00 0.00 0.00 2.57
3236 3457 3.558418 TGTCAAAGAAGCAACGGAACTAC 59.442 43.478 0.00 0.00 0.00 2.73
3237 3458 3.799366 TGTCAAAGAAGCAACGGAACTA 58.201 40.909 0.00 0.00 0.00 2.24
3238 3459 2.639065 TGTCAAAGAAGCAACGGAACT 58.361 42.857 0.00 0.00 0.00 3.01
3239 3460 3.003275 TGATGTCAAAGAAGCAACGGAAC 59.997 43.478 0.00 0.00 0.00 3.62
3240 3461 3.210227 TGATGTCAAAGAAGCAACGGAA 58.790 40.909 0.00 0.00 0.00 4.30
3241 3462 2.844946 TGATGTCAAAGAAGCAACGGA 58.155 42.857 0.00 0.00 0.00 4.69
3242 3463 3.058016 ACATGATGTCAAAGAAGCAACGG 60.058 43.478 0.00 0.00 0.00 4.44
3243 3464 4.151258 ACATGATGTCAAAGAAGCAACG 57.849 40.909 0.00 0.00 0.00 4.10
3244 3465 5.522456 TGAACATGATGTCAAAGAAGCAAC 58.478 37.500 0.00 0.00 0.00 4.17
3294 3515 2.230940 CGTACGGCAGCGAATCAGG 61.231 63.158 7.57 0.00 0.00 3.86
3435 3656 4.141528 CCTGAGATTCTTGGTTGCTATCCT 60.142 45.833 0.00 0.00 0.00 3.24
3500 3725 5.102953 AGAGAACAGCTGCCAAATATGTA 57.897 39.130 15.27 0.00 0.00 2.29
3587 3812 2.499685 GCGCGATCCTTACAGGGT 59.500 61.111 12.10 0.00 35.59 4.34
3588 3813 2.421877 ATCGCGCGATCCTTACAGGG 62.422 60.000 37.68 1.02 35.59 4.45
3589 3814 0.240145 TATCGCGCGATCCTTACAGG 59.760 55.000 44.72 6.35 36.17 4.00
3592 3817 0.110509 TCGTATCGCGCGATCCTTAC 60.111 55.000 44.72 34.21 41.07 2.34


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

AutoCloner maintained by Alex Coulton.