Multiple sequence alignment - TraesCS1B01G346200

Loading Multiple Alignment...

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 TraesCS1B01G346200 chr1B 100.000 3835 0 0 1 3835 574462307 574466141 0.000000e+00 7083.0
1 TraesCS1B01G346200 chr1D 88.198 3779 219 116 21 3665 425053160 425056845 0.000000e+00 4298.0
2 TraesCS1B01G346200 chr1A 85.610 1640 106 53 2008 3571 520821237 520822822 0.000000e+00 1602.0
3 TraesCS1B01G346200 chr1A 85.156 1509 96 66 522 1953 520819762 520821219 0.000000e+00 1428.0
4 TraesCS1B01G346200 chr1A 81.676 513 33 26 21 514 520818893 520819363 1.680000e-98 370.0
5 TraesCS1B01G346200 chr1A 100.000 35 0 0 3721 3755 520822923 520822957 8.890000e-07 65.8


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 TraesCS1B01G346200 chr1B 574462307 574466141 3834 False 7083.00 7083 100.0000 1 3835 1 chr1B.!!$F1 3834
1 TraesCS1B01G346200 chr1D 425053160 425056845 3685 False 4298.00 4298 88.1980 21 3665 1 chr1D.!!$F1 3644
2 TraesCS1B01G346200 chr1A 520818893 520822957 4064 False 866.45 1602 88.1105 21 3755 4 chr1A.!!$F1 3734

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
876 1313 0.242825 GACCGCACTGCACACTACTA 59.757 55.0 1.11 0.0 0.00 1.82 F
1659 2142 0.034477 CGCAAGGTTAACCCCCATCT 60.034 55.0 21.30 0.0 36.42 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2122 2648 0.172578 TCGTCTGTCATTAGTGGGCG 59.827 55.0 0.00 0.00 0.0 6.13 R
3197 3787 0.031314 ACCACGATCATGAGCTAGCG 59.969 55.0 9.55 6.32 0.0 4.26 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
52 53 4.023193 ACTGTAGTGCCTTTGTAAACATGC 60.023 41.667 0.00 0.00 0.00 4.06
56 57 4.398319 AGTGCCTTTGTAAACATGCTAGT 58.602 39.130 0.00 0.00 0.00 2.57
157 170 1.808945 CCATGAAGCAAGAGGACACAC 59.191 52.381 0.00 0.00 0.00 3.82
172 185 1.269936 ACACACGAAGAGGGTAAACGG 60.270 52.381 0.00 0.00 32.42 4.44
219 235 1.153489 CGACTCAGGCCATGTGAGG 60.153 63.158 21.04 4.40 44.96 3.86
250 266 1.170290 ACGGGGAAACAAAAGCGAGG 61.170 55.000 0.00 0.00 0.00 4.63
253 269 1.081442 GGAAACAAAAGCGAGGGCG 60.081 57.895 0.00 0.00 46.35 6.13
318 334 4.555348 GCGTAGTGCAGAATCTAGTACT 57.445 45.455 0.00 0.00 45.45 2.73
324 340 7.588123 CGTAGTGCAGAATCTAGTACTGTAATG 59.412 40.741 5.39 0.00 32.86 1.90
344 360 9.534565 TGTAATGAAAAGATGTATAGACAGAGC 57.465 33.333 0.00 0.00 39.50 4.09
345 361 9.534565 GTAATGAAAAGATGTATAGACAGAGCA 57.465 33.333 0.00 0.00 39.50 4.26
347 363 8.659925 ATGAAAAGATGTATAGACAGAGCAAG 57.340 34.615 0.00 0.00 39.50 4.01
348 364 7.044181 TGAAAAGATGTATAGACAGAGCAAGG 58.956 38.462 0.00 0.00 39.50 3.61
349 365 6.798427 AAAGATGTATAGACAGAGCAAGGA 57.202 37.500 0.00 0.00 39.50 3.36
392 410 1.196911 ACCATCCGACCGTTAATCCA 58.803 50.000 0.00 0.00 0.00 3.41
424 442 1.232621 GCCGTCACCACCCACTTTAC 61.233 60.000 0.00 0.00 0.00 2.01
442 460 4.481930 TTACATTTTTGACAGTGGCTCG 57.518 40.909 0.00 0.00 0.00 5.03
510 529 1.064979 TGGAGAAATAAAGCCGTCCCC 60.065 52.381 0.00 0.00 0.00 4.81
562 972 4.489771 CATCGGCCACTCCCACCC 62.490 72.222 2.24 0.00 0.00 4.61
565 975 4.802051 CGGCCACTCCCACCCATG 62.802 72.222 2.24 0.00 0.00 3.66
629 1039 3.345808 GCACGCCTTTGCACGAGA 61.346 61.111 1.06 0.00 42.49 4.04
781 1199 1.886585 CGTCCAGAGACACCTCCAG 59.113 63.158 0.00 0.00 43.73 3.86
782 1200 1.599606 CGTCCAGAGACACCTCCAGG 61.600 65.000 0.00 0.00 43.73 4.45
875 1312 1.006102 GACCGCACTGCACACTACT 60.006 57.895 1.11 0.00 0.00 2.57
876 1313 0.242825 GACCGCACTGCACACTACTA 59.757 55.000 1.11 0.00 0.00 1.82
883 1320 3.553096 GCACTGCACACTACTAACACTCT 60.553 47.826 0.00 0.00 0.00 3.24
922 1359 1.096416 CGACTAGCTTCCTCCGTTCT 58.904 55.000 0.00 0.00 0.00 3.01
930 1367 0.408309 TTCCTCCGTTCTCCTCCTCA 59.592 55.000 0.00 0.00 0.00 3.86
972 1412 4.897856 GCGTCGGCGAGAGAGCTC 62.898 72.222 16.53 5.27 41.33 4.09
1023 1463 2.191641 GCCCCTCTGGTGCTCATC 59.808 66.667 0.00 0.00 36.04 2.92
1066 1506 4.431131 CAGGTCAGCGGCCCCAAT 62.431 66.667 0.00 0.00 0.00 3.16
1067 1507 4.115199 AGGTCAGCGGCCCCAATC 62.115 66.667 0.00 0.00 0.00 2.67
1143 1584 9.074576 GTTCCTAGGTTTCTTTCTTTTCCATTA 57.925 33.333 9.08 0.00 0.00 1.90
1151 1592 5.959512 TCTTTCTTTTCCATTAACTCCCCA 58.040 37.500 0.00 0.00 0.00 4.96
1153 1594 4.316025 TCTTTTCCATTAACTCCCCAGG 57.684 45.455 0.00 0.00 0.00 4.45
1162 1603 1.575447 AACTCCCCAGGCCTGAATCC 61.575 60.000 34.91 0.00 0.00 3.01
1165 1606 0.850883 TCCCCAGGCCTGAATCCTTT 60.851 55.000 34.91 0.00 0.00 3.11
1167 1608 1.188863 CCCAGGCCTGAATCCTTTTG 58.811 55.000 34.91 13.46 0.00 2.44
1168 1609 1.550869 CCCAGGCCTGAATCCTTTTGT 60.551 52.381 34.91 0.00 0.00 2.83
1169 1610 2.250924 CCAGGCCTGAATCCTTTTGTT 58.749 47.619 34.91 0.00 0.00 2.83
1170 1611 2.232208 CCAGGCCTGAATCCTTTTGTTC 59.768 50.000 34.91 0.00 0.00 3.18
1171 1612 3.160269 CAGGCCTGAATCCTTTTGTTCT 58.840 45.455 29.88 0.00 0.00 3.01
1185 1629 6.260936 TCCTTTTGTTCTAGCACTTCTTGAAG 59.739 38.462 8.65 8.65 37.25 3.02
1188 1632 4.380531 TGTTCTAGCACTTCTTGAAGGTG 58.619 43.478 13.97 10.50 37.25 4.00
1194 1638 3.360249 CACTTCTTGAAGGTGCTTTGG 57.640 47.619 13.97 0.00 0.00 3.28
1196 1640 2.952310 ACTTCTTGAAGGTGCTTTGGAC 59.048 45.455 13.97 0.00 0.00 4.02
1197 1641 2.727123 TCTTGAAGGTGCTTTGGACA 57.273 45.000 0.00 0.00 0.00 4.02
1200 1647 2.957402 TGAAGGTGCTTTGGACATCT 57.043 45.000 0.00 0.00 0.00 2.90
1219 1670 8.451748 GGACATCTAACAAACTTTCCTTGTATC 58.548 37.037 0.00 0.00 35.98 2.24
1229 1680 9.801873 CAAACTTTCCTTGTATCTTCTTGAAAA 57.198 29.630 0.00 0.00 0.00 2.29
1276 1737 3.921119 TGTTCTTGCTATTTGTGCCTG 57.079 42.857 0.00 0.00 0.00 4.85
1283 1744 3.230134 TGCTATTTGTGCCTGGTTTTCT 58.770 40.909 0.00 0.00 0.00 2.52
1288 1749 1.909700 TGTGCCTGGTTTTCTCCATC 58.090 50.000 0.00 0.00 36.84 3.51
1293 1754 1.635487 CCTGGTTTTCTCCATCCTCCA 59.365 52.381 0.00 0.00 36.84 3.86
1294 1755 2.356535 CCTGGTTTTCTCCATCCTCCAG 60.357 54.545 0.00 0.00 40.13 3.86
1312 1780 6.043243 TCCTCCAGAACTGTAGAACAAGAAAT 59.957 38.462 1.18 0.00 0.00 2.17
1340 1816 0.107993 CCTTGCTGCTGGATTCGAGA 60.108 55.000 0.00 0.00 0.00 4.04
1348 1824 3.461061 TGCTGGATTCGAGAGCTTATTG 58.539 45.455 0.00 0.00 33.66 1.90
1354 1830 5.705441 TGGATTCGAGAGCTTATTGTTGTTT 59.295 36.000 0.00 0.00 0.00 2.83
1355 1831 6.024049 GGATTCGAGAGCTTATTGTTGTTTG 58.976 40.000 0.00 0.00 0.00 2.93
1356 1832 5.356882 TTCGAGAGCTTATTGTTGTTTGG 57.643 39.130 0.00 0.00 0.00 3.28
1358 1834 4.819630 TCGAGAGCTTATTGTTGTTTGGTT 59.180 37.500 0.00 0.00 0.00 3.67
1359 1835 4.911610 CGAGAGCTTATTGTTGTTTGGTTG 59.088 41.667 0.00 0.00 0.00 3.77
1656 2139 2.282603 GCGCAAGGTTAACCCCCA 60.283 61.111 21.30 0.00 36.42 4.96
1657 2140 1.680989 GCGCAAGGTTAACCCCCAT 60.681 57.895 21.30 0.00 36.42 4.00
1658 2141 1.663379 GCGCAAGGTTAACCCCCATC 61.663 60.000 21.30 4.65 36.42 3.51
1659 2142 0.034477 CGCAAGGTTAACCCCCATCT 60.034 55.000 21.30 0.00 36.42 2.90
1660 2143 1.474330 GCAAGGTTAACCCCCATCTG 58.526 55.000 21.30 9.91 36.42 2.90
1686 2189 0.478072 TGCCTCCCTCACATGTTTGT 59.522 50.000 0.00 0.00 36.15 2.83
1692 2195 1.270252 CCCTCACATGTTTGTTTGGCC 60.270 52.381 0.00 0.00 32.34 5.36
1694 2197 2.288395 CCTCACATGTTTGTTTGGCCTC 60.288 50.000 3.32 0.00 32.34 4.70
1727 2230 9.111613 GCTTACTACTCTACTAGATCAGTGAAA 57.888 37.037 0.00 0.00 38.24 2.69
1800 2308 4.342359 AGTACGTGAATCTGGGAAGTAGT 58.658 43.478 0.00 0.00 0.00 2.73
1801 2309 5.503927 AGTACGTGAATCTGGGAAGTAGTA 58.496 41.667 0.00 0.00 0.00 1.82
1802 2310 6.127793 AGTACGTGAATCTGGGAAGTAGTAT 58.872 40.000 0.00 0.00 0.00 2.12
1826 2341 2.526304 TAACCGAGATGCAGTATGGC 57.474 50.000 0.00 0.00 35.86 4.40
1889 2413 8.943002 GCATAGTTTACTTGGTGTTATTAGTGT 58.057 33.333 0.00 0.00 0.00 3.55
1923 2447 3.313007 CTTCACACGGCCGCACATG 62.313 63.158 28.58 19.05 0.00 3.21
1924 2448 3.816367 TTCACACGGCCGCACATGA 62.816 57.895 28.58 20.40 0.00 3.07
1925 2449 3.792047 CACACGGCCGCACATGAG 61.792 66.667 28.58 11.03 0.00 2.90
1956 2480 7.667043 ACACACATGATAGTTAATTCAACGT 57.333 32.000 0.00 0.00 42.35 3.99
1958 2482 6.465781 CACACATGATAGTTAATTCAACGTGC 59.534 38.462 0.00 0.00 42.35 5.34
1962 2486 5.409211 TGATAGTTAATTCAACGTGCCGTA 58.591 37.500 0.00 0.00 39.99 4.02
1963 2487 5.868258 TGATAGTTAATTCAACGTGCCGTAA 59.132 36.000 0.00 0.00 39.99 3.18
2000 2524 2.880443 TGGTTACCAGAGTTACCGAGT 58.120 47.619 0.00 0.00 46.58 4.18
2001 2525 4.032960 TGGTTACCAGAGTTACCGAGTA 57.967 45.455 0.00 0.00 46.58 2.59
2002 2526 4.012374 TGGTTACCAGAGTTACCGAGTAG 58.988 47.826 0.00 0.00 46.58 2.57
2003 2527 4.013050 GGTTACCAGAGTTACCGAGTAGT 58.987 47.826 0.00 0.00 36.06 2.73
2004 2528 5.186198 GGTTACCAGAGTTACCGAGTAGTA 58.814 45.833 0.00 0.00 36.06 1.82
2012 2536 4.195416 AGTTACCGAGTAGTACTACCAGC 58.805 47.826 25.97 16.04 36.75 4.85
2015 2539 3.629087 ACCGAGTAGTACTACCAGCATT 58.371 45.455 25.97 9.38 36.75 3.56
2053 2579 6.528537 AACCATGTTTCAGCTTGCAATATA 57.471 33.333 0.00 0.00 0.00 0.86
2055 2581 5.163519 ACCATGTTTCAGCTTGCAATATACC 60.164 40.000 0.00 0.00 0.00 2.73
2065 2591 5.243730 AGCTTGCAATATACCAACACAAAGT 59.756 36.000 0.00 0.00 0.00 2.66
2083 2609 9.603921 ACACAAAGTTGATCTGAAAAATCATTT 57.396 25.926 0.00 0.00 33.36 2.32
2122 2648 0.944386 ATTCGTGGAATATGTGCCGC 59.056 50.000 0.00 0.00 29.72 6.53
2135 2661 3.573491 GCCGCGCCCACTAATGAC 61.573 66.667 0.00 0.00 0.00 3.06
2136 2662 2.125310 CCGCGCCCACTAATGACA 60.125 61.111 0.00 0.00 0.00 3.58
2137 2663 2.173669 CCGCGCCCACTAATGACAG 61.174 63.158 0.00 0.00 0.00 3.51
2181 2710 5.821995 TGCAGCTAAACAACATATGCATCTA 59.178 36.000 0.19 0.00 37.28 1.98
2261 2797 5.904362 ACTGTTCTTGAGTTCTTGCTTTT 57.096 34.783 0.00 0.00 0.00 2.27
2318 2855 2.105766 TCTAGTCCGACCTTAAAGGGC 58.894 52.381 0.00 0.00 41.17 5.19
2330 2867 2.891191 TAAAGGGCGGTCCATCTTTT 57.109 45.000 0.00 0.00 38.24 2.27
2437 2974 5.967088 AGATTCTAAGCAACTTTCTCGCTA 58.033 37.500 0.00 0.00 34.11 4.26
2467 3004 3.786368 TGGGACATGTGAGACATTTCA 57.214 42.857 1.15 0.00 37.10 2.69
2490 3036 0.599060 TGCAATGTACTGACCGACGA 59.401 50.000 0.00 0.00 0.00 4.20
2495 3041 3.687572 ATGTACTGACCGACGATGTAC 57.312 47.619 0.00 4.78 35.43 2.90
2522 3068 3.545426 GCGCTTTGTGTACGTTTCTTTCT 60.545 43.478 0.00 0.00 0.00 2.52
2525 3071 5.169032 CGCTTTGTGTACGTTTCTTTCTTTC 59.831 40.000 0.00 0.00 0.00 2.62
2616 3180 1.541310 TACAGGAACCAGCACCGGAG 61.541 60.000 9.46 0.00 0.00 4.63
2839 3406 0.935898 CTCCACTTCATCTGATGCGC 59.064 55.000 12.78 0.00 0.00 6.09
2843 3410 1.094073 ACTTCATCTGATGCGCTGGC 61.094 55.000 9.73 0.00 40.52 4.85
2935 3509 4.279043 GCCGCTTTTGTGCCCGTT 62.279 61.111 0.00 0.00 0.00 4.44
2936 3510 2.354539 CCGCTTTTGTGCCCGTTG 60.355 61.111 0.00 0.00 0.00 4.10
2937 3511 2.354539 CGCTTTTGTGCCCGTTGG 60.355 61.111 0.00 0.00 0.00 3.77
2990 3574 0.449388 GTTCGATCGGACGTACCAGT 59.551 55.000 16.41 0.00 38.90 4.00
2994 3578 0.310232 GATCGGACGTACCAGTAGCC 59.690 60.000 0.00 0.00 38.90 3.93
3001 3585 2.354199 GACGTACCAGTAGCCTAGTGTC 59.646 54.545 5.86 0.00 0.00 3.67
3005 3589 2.448453 ACCAGTAGCCTAGTGTCTGTC 58.552 52.381 5.86 0.00 0.00 3.51
3101 3691 4.078922 AGAGTTGATGAGATCTGGTAGGGA 60.079 45.833 0.00 0.00 0.00 4.20
3169 3759 7.681939 ATAATTATGTGTTGTCGTTCCAACT 57.318 32.000 13.52 1.25 44.01 3.16
3212 3802 1.006922 TGCCGCTAGCTCATGATCG 60.007 57.895 13.93 0.00 44.23 3.69
3213 3803 1.006805 GCCGCTAGCTCATGATCGT 60.007 57.895 13.93 0.00 38.99 3.73
3214 3804 1.280886 GCCGCTAGCTCATGATCGTG 61.281 60.000 13.93 8.74 38.99 4.35
3215 3805 0.665670 CCGCTAGCTCATGATCGTGG 60.666 60.000 13.93 7.01 0.00 4.94
3216 3806 0.031314 CGCTAGCTCATGATCGTGGT 59.969 55.000 13.93 3.24 0.00 4.16
3217 3807 1.495878 GCTAGCTCATGATCGTGGTG 58.504 55.000 14.91 9.31 0.00 4.17
3218 3808 1.871408 GCTAGCTCATGATCGTGGTGG 60.871 57.143 14.91 7.01 0.00 4.61
3221 3811 1.153568 CTCATGATCGTGGTGGCGT 60.154 57.895 14.91 0.00 0.00 5.68
3235 3826 1.299926 GGCGTGTCTCGTGTTGTCT 60.300 57.895 0.00 0.00 42.13 3.41
3276 3867 1.522355 CGGCTTCGCATCATCAGGT 60.522 57.895 0.00 0.00 0.00 4.00
3283 3879 1.592669 GCATCATCAGGTCGACCCG 60.593 63.158 30.82 21.70 38.74 5.28
3298 3894 4.854924 CCGCCCACGATGCCATGA 62.855 66.667 0.00 0.00 43.93 3.07
3307 3919 0.530431 CGATGCCATGATCCGTGTGA 60.530 55.000 0.00 0.00 0.00 3.58
3335 3947 0.756294 GGTGGAGTTTTGGGGGTTTG 59.244 55.000 0.00 0.00 0.00 2.93
3389 4001 2.267642 CGGATGTCGGGCAAGGAA 59.732 61.111 0.00 0.00 34.75 3.36
3399 4011 1.269051 CGGGCAAGGAAAAATATCGCC 60.269 52.381 0.00 0.00 37.33 5.54
3471 4097 4.600576 TCTTGTCTGTGGCGCGCA 62.601 61.111 34.42 16.55 0.00 6.09
3473 4099 4.908687 TTGTCTGTGGCGCGCACT 62.909 61.111 34.42 0.00 0.00 4.40
3474 4100 3.507597 TTGTCTGTGGCGCGCACTA 62.508 57.895 34.42 15.88 0.00 2.74
3475 4101 3.479269 GTCTGTGGCGCGCACTAC 61.479 66.667 34.42 26.46 0.00 2.73
3477 4103 3.481903 CTGTGGCGCGCACTACTG 61.482 66.667 34.42 24.96 0.00 2.74
3479 4105 2.126228 GTGGCGCGCACTACTGTA 60.126 61.111 34.42 4.94 0.00 2.74
3494 4124 1.499688 CTGTATCTCGAGCGAGCGGA 61.500 60.000 14.61 0.00 41.71 5.54
3585 4218 1.745489 GGTTCATGACGGGACCAGC 60.745 63.158 9.07 0.00 32.41 4.85
3623 4256 3.413300 GGCACGGGATTGGGGGTA 61.413 66.667 0.00 0.00 0.00 3.69
3624 4257 2.124445 GCACGGGATTGGGGGTAC 60.124 66.667 0.00 0.00 0.00 3.34
3675 4308 1.596203 CGCATGGATCCACGAGCAT 60.596 57.895 26.14 6.92 0.00 3.79
3676 4309 1.838568 CGCATGGATCCACGAGCATG 61.839 60.000 26.14 17.75 0.00 4.06
3677 4310 1.512996 GCATGGATCCACGAGCATGG 61.513 60.000 18.99 0.57 41.57 3.66
3679 4312 0.548031 ATGGATCCACGAGCATGGTT 59.452 50.000 18.99 0.00 40.95 3.67
3680 4313 0.327924 TGGATCCACGAGCATGGTTT 59.672 50.000 11.44 0.00 40.95 3.27
3682 4315 0.734889 GATCCACGAGCATGGTTTGG 59.265 55.000 16.66 16.66 40.95 3.28
3683 4316 0.680921 ATCCACGAGCATGGTTTGGG 60.681 55.000 20.50 12.86 40.95 4.12
3684 4317 2.568090 CACGAGCATGGTTTGGGC 59.432 61.111 0.00 0.00 0.00 5.36
3688 4321 1.304381 GAGCATGGTTTGGGCCTCA 60.304 57.895 4.53 0.00 0.00 3.86
3689 4322 1.598701 GAGCATGGTTTGGGCCTCAC 61.599 60.000 4.53 0.38 0.00 3.51
3690 4323 2.993471 GCATGGTTTGGGCCTCACG 61.993 63.158 4.53 0.00 0.00 4.35
3691 4324 2.035626 ATGGTTTGGGCCTCACGG 59.964 61.111 4.53 0.00 0.00 4.94
3692 4325 3.583882 ATGGTTTGGGCCTCACGGG 62.584 63.158 4.53 0.00 38.36 5.28
3702 4335 4.335647 CTCACGGGCCCTTGTGCT 62.336 66.667 26.40 0.00 36.06 4.40
3703 4336 4.329545 TCACGGGCCCTTGTGCTC 62.330 66.667 26.40 0.00 36.06 4.26
3713 4346 4.961511 TTGTGCTCGCCGCTCGTT 62.962 61.111 0.00 0.00 40.11 3.85
3755 4388 1.474077 CTTGGAGGTGGCACATTTAGC 59.526 52.381 20.82 0.00 44.52 3.09
3756 4389 0.403655 TGGAGGTGGCACATTTAGCA 59.596 50.000 20.82 0.00 44.52 3.49
3757 4390 1.098050 GGAGGTGGCACATTTAGCAG 58.902 55.000 20.82 0.00 44.52 4.24
3758 4391 1.614317 GGAGGTGGCACATTTAGCAGT 60.614 52.381 20.82 0.00 44.52 4.40
3759 4392 2.162681 GAGGTGGCACATTTAGCAGTT 58.837 47.619 20.82 0.00 44.52 3.16
3760 4393 3.343617 GAGGTGGCACATTTAGCAGTTA 58.656 45.455 20.82 0.00 44.52 2.24
3761 4394 3.081804 AGGTGGCACATTTAGCAGTTAC 58.918 45.455 20.82 0.00 44.52 2.50
3762 4395 2.817258 GGTGGCACATTTAGCAGTTACA 59.183 45.455 20.82 0.00 44.52 2.41
3763 4396 3.443681 GGTGGCACATTTAGCAGTTACAT 59.556 43.478 20.82 0.00 44.52 2.29
3764 4397 4.438744 GGTGGCACATTTAGCAGTTACATC 60.439 45.833 20.82 0.00 44.52 3.06
3765 4398 4.396166 GTGGCACATTTAGCAGTTACATCT 59.604 41.667 13.86 0.00 44.52 2.90
3766 4399 5.009631 TGGCACATTTAGCAGTTACATCTT 58.990 37.500 0.00 0.00 0.00 2.40
3767 4400 5.123820 TGGCACATTTAGCAGTTACATCTTC 59.876 40.000 0.00 0.00 0.00 2.87
3768 4401 5.355350 GGCACATTTAGCAGTTACATCTTCT 59.645 40.000 0.00 0.00 0.00 2.85
3769 4402 6.457528 GGCACATTTAGCAGTTACATCTTCTC 60.458 42.308 0.00 0.00 0.00 2.87
3770 4403 6.314896 GCACATTTAGCAGTTACATCTTCTCT 59.685 38.462 0.00 0.00 0.00 3.10
3771 4404 7.148340 GCACATTTAGCAGTTACATCTTCTCTT 60.148 37.037 0.00 0.00 0.00 2.85
3772 4405 8.725148 CACATTTAGCAGTTACATCTTCTCTTT 58.275 33.333 0.00 0.00 0.00 2.52
3773 4406 8.940952 ACATTTAGCAGTTACATCTTCTCTTTC 58.059 33.333 0.00 0.00 0.00 2.62
3774 4407 7.582435 TTTAGCAGTTACATCTTCTCTTTCG 57.418 36.000 0.00 0.00 0.00 3.46
3775 4408 5.392767 AGCAGTTACATCTTCTCTTTCGA 57.607 39.130 0.00 0.00 0.00 3.71
3776 4409 5.971763 AGCAGTTACATCTTCTCTTTCGAT 58.028 37.500 0.00 0.00 0.00 3.59
3777 4410 5.809562 AGCAGTTACATCTTCTCTTTCGATG 59.190 40.000 0.00 0.00 40.18 3.84
3778 4411 5.501574 GCAGTTACATCTTCTCTTTCGATGC 60.502 44.000 0.00 0.00 38.42 3.91
3779 4412 5.809562 CAGTTACATCTTCTCTTTCGATGCT 59.190 40.000 0.00 0.00 38.42 3.79
3780 4413 6.975197 CAGTTACATCTTCTCTTTCGATGCTA 59.025 38.462 0.00 0.00 38.42 3.49
3781 4414 7.489435 CAGTTACATCTTCTCTTTCGATGCTAA 59.511 37.037 0.00 0.00 38.42 3.09
3782 4415 8.035394 AGTTACATCTTCTCTTTCGATGCTAAA 58.965 33.333 0.00 0.00 38.42 1.85
3783 4416 8.656849 GTTACATCTTCTCTTTCGATGCTAAAA 58.343 33.333 0.00 0.00 38.42 1.52
3784 4417 7.672983 ACATCTTCTCTTTCGATGCTAAAAA 57.327 32.000 0.00 0.00 38.42 1.94
3809 4442 7.665561 AAAAAGCAGTTACATCTTCTCTCTC 57.334 36.000 0.00 0.00 0.00 3.20
3810 4443 5.991933 AAGCAGTTACATCTTCTCTCTCA 57.008 39.130 0.00 0.00 0.00 3.27
3811 4444 5.991933 AGCAGTTACATCTTCTCTCTCAA 57.008 39.130 0.00 0.00 0.00 3.02
3812 4445 6.352016 AGCAGTTACATCTTCTCTCTCAAA 57.648 37.500 0.00 0.00 0.00 2.69
3813 4446 6.763355 AGCAGTTACATCTTCTCTCTCAAAA 58.237 36.000 0.00 0.00 0.00 2.44
3814 4447 7.220030 AGCAGTTACATCTTCTCTCTCAAAAA 58.780 34.615 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 9.448438 ACAGTTACTATGTTTATCAGCATTCAA 57.552 29.630 0.00 0.00 0.00 2.69
11 12 9.534565 CACTACAGTTACTATGTTTATCAGCAT 57.465 33.333 0.00 0.00 32.02 3.79
12 13 7.491372 GCACTACAGTTACTATGTTTATCAGCA 59.509 37.037 0.00 0.00 32.02 4.41
13 14 7.042658 GGCACTACAGTTACTATGTTTATCAGC 60.043 40.741 0.00 0.00 32.02 4.26
14 15 8.198109 AGGCACTACAGTTACTATGTTTATCAG 58.802 37.037 0.00 0.00 36.02 2.90
15 16 8.074613 AGGCACTACAGTTACTATGTTTATCA 57.925 34.615 0.00 0.00 36.02 2.15
16 17 8.943909 AAGGCACTACAGTTACTATGTTTATC 57.056 34.615 0.00 0.00 38.49 1.75
17 18 9.162764 CAAAGGCACTACAGTTACTATGTTTAT 57.837 33.333 0.00 0.00 38.49 1.40
18 19 8.152246 ACAAAGGCACTACAGTTACTATGTTTA 58.848 33.333 0.00 0.00 38.49 2.01
19 20 6.996282 ACAAAGGCACTACAGTTACTATGTTT 59.004 34.615 0.00 0.00 38.49 2.83
20 21 6.531021 ACAAAGGCACTACAGTTACTATGTT 58.469 36.000 0.00 0.00 38.49 2.71
21 22 6.110411 ACAAAGGCACTACAGTTACTATGT 57.890 37.500 0.00 0.00 38.49 2.29
22 23 8.440833 GTTTACAAAGGCACTACAGTTACTATG 58.559 37.037 0.00 0.00 38.49 2.23
23 24 8.152246 TGTTTACAAAGGCACTACAGTTACTAT 58.848 33.333 0.00 0.00 38.49 2.12
24 25 7.499292 TGTTTACAAAGGCACTACAGTTACTA 58.501 34.615 0.00 0.00 38.49 1.82
25 26 6.350906 TGTTTACAAAGGCACTACAGTTACT 58.649 36.000 0.00 0.00 38.49 2.24
26 27 6.607735 TGTTTACAAAGGCACTACAGTTAC 57.392 37.500 0.00 0.00 38.49 2.50
77 78 2.224257 TGGCAAAAATGGCTTGTTCCTC 60.224 45.455 4.01 0.00 35.21 3.71
157 170 1.449070 GGGCCGTTTACCCTCTTCG 60.449 63.158 0.00 0.00 44.68 3.79
250 266 1.578206 GGGAGTGAAGTGCTTTCGCC 61.578 60.000 10.22 5.78 45.43 5.54
253 269 1.528129 CTGGGGAGTGAAGTGCTTTC 58.472 55.000 0.00 0.00 36.29 2.62
298 314 5.487153 ACAGTACTAGATTCTGCACTACG 57.513 43.478 0.00 0.00 33.12 3.51
318 334 9.534565 GCTCTGTCTATACATCTTTTCATTACA 57.465 33.333 0.00 0.00 34.37 2.41
324 340 7.268586 TCCTTGCTCTGTCTATACATCTTTTC 58.731 38.462 0.00 0.00 34.37 2.29
332 348 7.907214 TTTTTCTTCCTTGCTCTGTCTATAC 57.093 36.000 0.00 0.00 0.00 1.47
424 442 1.666888 GGCGAGCCACTGTCAAAAATG 60.667 52.381 9.58 0.00 35.81 2.32
466 484 1.064296 CCAGTAGTACTGCGGCTCG 59.936 63.158 22.67 6.24 44.63 5.03
467 485 0.531200 AACCAGTAGTACTGCGGCTC 59.469 55.000 22.67 0.00 44.63 4.70
468 486 0.974383 AAACCAGTAGTACTGCGGCT 59.026 50.000 22.67 5.83 44.63 5.52
470 488 1.001633 ACCAAACCAGTAGTACTGCGG 59.998 52.381 22.67 19.79 44.63 5.69
471 489 2.066262 CACCAAACCAGTAGTACTGCG 58.934 52.381 22.67 17.76 44.63 5.18
472 490 2.038033 TCCACCAAACCAGTAGTACTGC 59.962 50.000 22.67 3.75 44.63 4.40
473 491 3.576982 TCTCCACCAAACCAGTAGTACTG 59.423 47.826 21.39 21.39 45.53 2.74
478 496 6.349363 GCTTTATTTCTCCACCAAACCAGTAG 60.349 42.308 0.00 0.00 0.00 2.57
510 529 2.664851 TGTGTTCTCGCTTGGCCG 60.665 61.111 0.00 0.00 0.00 6.13
514 533 1.571460 GGCACTGTGTTCTCGCTTG 59.429 57.895 9.86 0.00 0.00 4.01
516 535 2.356313 CGGCACTGTGTTCTCGCT 60.356 61.111 9.86 0.00 0.00 4.93
517 536 4.077188 GCGGCACTGTGTTCTCGC 62.077 66.667 17.84 17.84 36.51 5.03
518 537 2.029288 ATGCGGCACTGTGTTCTCG 61.029 57.895 4.03 9.54 0.00 4.04
519 538 1.499056 CATGCGGCACTGTGTTCTC 59.501 57.895 4.03 0.00 0.00 2.87
629 1039 1.141881 GATGGATCGTCCTGTGCGT 59.858 57.895 5.77 0.00 37.46 5.24
804 1238 4.130554 ACCGGCCACACAAACCCA 62.131 61.111 0.00 0.00 0.00 4.51
875 1312 2.526432 GTGGGAGAGTGGAGAGTGTTA 58.474 52.381 0.00 0.00 0.00 2.41
876 1313 1.343069 GTGGGAGAGTGGAGAGTGTT 58.657 55.000 0.00 0.00 0.00 3.32
883 1320 3.311110 GTGGCGTGGGAGAGTGGA 61.311 66.667 0.00 0.00 0.00 4.02
922 1359 0.323725 GGGCAAGCAAATGAGGAGGA 60.324 55.000 0.00 0.00 0.00 3.71
930 1367 1.678970 GAGGTCCGGGCAAGCAAAT 60.679 57.895 9.07 0.00 0.00 2.32
971 1411 1.258445 GGAAGGGAGCTTGAGGTCGA 61.258 60.000 4.32 0.00 43.03 4.20
972 1412 1.219393 GGAAGGGAGCTTGAGGTCG 59.781 63.158 4.32 0.00 43.03 4.79
975 1415 2.124942 GCGGAAGGGAGCTTGAGG 60.125 66.667 0.00 0.00 0.00 3.86
977 1417 2.665000 CAGCGGAAGGGAGCTTGA 59.335 61.111 0.00 0.00 42.52 3.02
978 1418 3.130160 GCAGCGGAAGGGAGCTTG 61.130 66.667 0.00 0.00 42.52 4.01
1007 1447 1.692042 AGGATGAGCACCAGAGGGG 60.692 63.158 0.00 0.00 44.81 4.79
1008 1448 0.690411 AGAGGATGAGCACCAGAGGG 60.690 60.000 0.00 0.00 41.29 4.30
1023 1463 0.321564 TGAACATGGCGACCAAGAGG 60.322 55.000 7.87 0.00 36.95 3.69
1064 1504 1.992277 AGAGCGAGCTGTGGGGATT 60.992 57.895 0.84 0.00 0.00 3.01
1066 1506 3.385384 CAGAGCGAGCTGTGGGGA 61.385 66.667 13.60 0.00 34.21 4.81
1143 1584 1.575447 GGATTCAGGCCTGGGGAGTT 61.575 60.000 32.23 10.92 0.00 3.01
1151 1592 3.532641 AGAACAAAAGGATTCAGGCCT 57.467 42.857 0.00 0.00 37.35 5.19
1153 1594 3.758554 TGCTAGAACAAAAGGATTCAGGC 59.241 43.478 0.00 0.00 0.00 4.85
1162 1603 6.038714 ACCTTCAAGAAGTGCTAGAACAAAAG 59.961 38.462 3.00 0.00 36.72 2.27
1165 1606 4.816385 CACCTTCAAGAAGTGCTAGAACAA 59.184 41.667 3.00 0.00 36.72 2.83
1167 1608 3.187432 GCACCTTCAAGAAGTGCTAGAAC 59.813 47.826 20.18 0.00 39.75 3.01
1168 1609 3.071602 AGCACCTTCAAGAAGTGCTAGAA 59.928 43.478 24.73 0.00 45.13 2.10
1169 1610 2.634940 AGCACCTTCAAGAAGTGCTAGA 59.365 45.455 24.73 0.00 45.13 2.43
1170 1611 3.051081 AGCACCTTCAAGAAGTGCTAG 57.949 47.619 24.73 8.83 45.13 3.42
1171 1612 3.492102 AAGCACCTTCAAGAAGTGCTA 57.508 42.857 25.50 0.00 45.64 3.49
1185 1629 4.278419 AGTTTGTTAGATGTCCAAAGCACC 59.722 41.667 0.00 0.00 0.00 5.01
1188 1632 5.920840 GGAAAGTTTGTTAGATGTCCAAAGC 59.079 40.000 0.00 0.00 0.00 3.51
1191 1635 6.605594 ACAAGGAAAGTTTGTTAGATGTCCAA 59.394 34.615 0.00 0.00 35.32 3.53
1194 1638 9.220767 AGATACAAGGAAAGTTTGTTAGATGTC 57.779 33.333 0.00 0.00 39.36 3.06
1200 1647 9.621629 TCAAGAAGATACAAGGAAAGTTTGTTA 57.378 29.630 0.00 0.00 39.36 2.41
1276 1737 3.009584 AGTTCTGGAGGATGGAGAAAACC 59.990 47.826 0.00 0.00 0.00 3.27
1283 1744 3.757947 TCTACAGTTCTGGAGGATGGA 57.242 47.619 11.55 0.00 0.00 3.41
1288 1749 4.873746 TCTTGTTCTACAGTTCTGGAGG 57.126 45.455 11.55 0.00 0.00 4.30
1312 1780 6.238731 CGAATCCAGCAGCAAGGAAATAAATA 60.239 38.462 10.34 0.00 37.48 1.40
1328 1796 3.462021 ACAATAAGCTCTCGAATCCAGC 58.538 45.455 0.00 0.00 0.00 4.85
1329 1797 4.872691 ACAACAATAAGCTCTCGAATCCAG 59.127 41.667 0.00 0.00 0.00 3.86
1330 1798 4.832248 ACAACAATAAGCTCTCGAATCCA 58.168 39.130 0.00 0.00 0.00 3.41
1331 1799 5.803020 AACAACAATAAGCTCTCGAATCC 57.197 39.130 0.00 0.00 0.00 3.01
1340 1816 4.404073 TCACCAACCAAACAACAATAAGCT 59.596 37.500 0.00 0.00 0.00 3.74
1354 1830 4.580356 GCATCTGCTAGGTCACCAACCA 62.580 54.545 0.00 0.00 43.81 3.67
1355 1831 2.014068 GCATCTGCTAGGTCACCAACC 61.014 57.143 0.00 0.00 42.60 3.77
1356 1832 1.373570 GCATCTGCTAGGTCACCAAC 58.626 55.000 0.00 0.00 38.21 3.77
1358 1834 0.970427 TCGCATCTGCTAGGTCACCA 60.970 55.000 0.00 0.00 39.32 4.17
1359 1835 0.390860 ATCGCATCTGCTAGGTCACC 59.609 55.000 0.09 0.00 39.32 4.02
1365 1841 2.057316 GCAGTACATCGCATCTGCTAG 58.943 52.381 8.46 0.00 46.35 3.42
1643 2126 0.335019 GGCAGATGGGGGTTAACCTT 59.665 55.000 23.69 7.07 40.03 3.50
1652 2135 2.836360 GCATGTGGGCAGATGGGG 60.836 66.667 0.00 0.00 33.20 4.96
1653 2136 2.836360 GGCATGTGGGCAGATGGG 60.836 66.667 0.00 0.00 42.77 4.00
1656 2139 2.599597 GGAGGCATGTGGGCAGAT 59.400 61.111 0.00 0.00 46.44 2.90
1657 2140 3.731728 GGGAGGCATGTGGGCAGA 61.732 66.667 0.00 0.00 46.44 4.26
1658 2141 3.711059 GAGGGAGGCATGTGGGCAG 62.711 68.421 0.00 0.00 46.44 4.85
1659 2142 3.731728 GAGGGAGGCATGTGGGCA 61.732 66.667 0.00 0.00 46.44 5.36
1660 2143 3.731728 TGAGGGAGGCATGTGGGC 61.732 66.667 0.00 0.00 43.80 5.36
1682 2185 1.269517 GCATGTTCGAGGCCAAACAAA 60.270 47.619 18.52 1.53 38.74 2.83
1686 2189 1.810151 GTAAGCATGTTCGAGGCCAAA 59.190 47.619 5.01 0.00 28.84 3.28
1692 2195 6.366315 AGTAGAGTAGTAAGCATGTTCGAG 57.634 41.667 0.00 0.00 0.00 4.04
1694 2197 7.479897 TCTAGTAGAGTAGTAAGCATGTTCG 57.520 40.000 0.00 0.00 0.00 3.95
1727 2230 8.967664 TGCCCGTAAATCTATTATTAAACAGT 57.032 30.769 0.00 0.00 0.00 3.55
1800 2308 7.630728 GCCATACTGCATCTCGGTTAAGATATA 60.631 40.741 0.00 0.00 34.21 0.86
1801 2309 6.634805 CCATACTGCATCTCGGTTAAGATAT 58.365 40.000 0.00 0.00 34.21 1.63
1802 2310 5.566826 GCCATACTGCATCTCGGTTAAGATA 60.567 44.000 0.00 0.00 34.21 1.98
1810 2325 0.320247 GAGGCCATACTGCATCTCGG 60.320 60.000 5.01 0.00 38.90 4.63
1826 2341 1.611851 AGTCAGGGGCAGTCAGAGG 60.612 63.158 0.00 0.00 0.00 3.69
1854 2373 1.134491 AGTAAACTATGCCCAGCGACC 60.134 52.381 0.00 0.00 0.00 4.79
1889 2413 5.348986 GTGTGAAGAATCTAGATTACGGCA 58.651 41.667 17.94 10.89 0.00 5.69
1923 2447 2.010145 ATCATGTGTGTACGTGGCTC 57.990 50.000 0.00 0.00 42.76 4.70
1924 2448 2.496070 ACTATCATGTGTGTACGTGGCT 59.504 45.455 0.00 0.00 42.76 4.75
1925 2449 2.888594 ACTATCATGTGTGTACGTGGC 58.111 47.619 0.00 0.00 42.76 5.01
1956 2480 2.463752 ACCCTGAACTAGATTACGGCA 58.536 47.619 0.00 0.00 0.00 5.69
1958 2482 4.730949 TGAACCCTGAACTAGATTACGG 57.269 45.455 0.00 0.00 0.00 4.02
1962 2486 5.520748 AACCATGAACCCTGAACTAGATT 57.479 39.130 0.00 0.00 0.00 2.40
1963 2487 5.104485 GGTAACCATGAACCCTGAACTAGAT 60.104 44.000 0.00 0.00 0.00 1.98
2000 2524 5.715279 ACACTTCAGAATGCTGGTAGTACTA 59.285 40.000 0.00 0.00 42.53 1.82
2001 2525 4.528596 ACACTTCAGAATGCTGGTAGTACT 59.471 41.667 0.00 0.00 42.53 2.73
2002 2526 4.627467 CACACTTCAGAATGCTGGTAGTAC 59.373 45.833 0.00 0.00 42.53 2.73
2003 2527 4.283467 ACACACTTCAGAATGCTGGTAGTA 59.717 41.667 0.00 0.00 42.53 1.82
2004 2528 3.071602 ACACACTTCAGAATGCTGGTAGT 59.928 43.478 0.00 2.25 42.53 2.73
2012 2536 6.650807 ACATGGTTACTACACACTTCAGAATG 59.349 38.462 0.00 0.00 37.54 2.67
2015 2539 5.801531 ACATGGTTACTACACACTTCAGA 57.198 39.130 0.00 0.00 0.00 3.27
2065 2591 8.071368 GCTTTTGCAAATGATTTTTCAGATCAA 58.929 29.630 24.70 0.00 46.58 2.57
2100 2626 2.221749 CGGCACATATTCCACGAATCTG 59.778 50.000 0.00 0.00 33.95 2.90
2108 2634 2.899838 GGCGCGGCACATATTCCA 60.900 61.111 29.32 0.00 0.00 3.53
2122 2648 0.172578 TCGTCTGTCATTAGTGGGCG 59.827 55.000 0.00 0.00 0.00 6.13
2261 2797 0.680618 CCTTTTGCTTCACATGGGCA 59.319 50.000 0.00 0.00 0.00 5.36
2318 2855 1.094785 ATTCGGCAAAAGATGGACCG 58.905 50.000 0.00 0.00 45.15 4.79
2420 2957 6.795098 TCAAAATAGCGAGAAAGTTGCTTA 57.205 33.333 0.00 0.00 44.38 3.09
2437 2974 5.416952 GTCTCACATGTCCCATCTTCAAAAT 59.583 40.000 0.00 0.00 0.00 1.82
2453 2990 1.806542 GCACGGTGAAATGTCTCACAT 59.193 47.619 13.29 0.00 46.31 3.21
2467 3004 0.669318 CGGTCAGTACATTGCACGGT 60.669 55.000 0.00 0.00 0.00 4.83
2490 3036 0.234625 CACAAAGCGCACACGTACAT 59.765 50.000 11.47 0.00 42.83 2.29
2495 3041 1.436446 CGTACACAAAGCGCACACG 60.436 57.895 11.47 4.08 44.07 4.49
2522 3068 2.434185 CCTACGCCGCTGCAGAAA 60.434 61.111 20.43 0.00 37.32 2.52
2576 3140 4.476752 GTTCCCATGCCGCCGGTA 62.477 66.667 4.45 0.00 0.00 4.02
2597 3161 1.534476 TCCGGTGCTGGTTCCTGTA 60.534 57.895 0.00 0.00 0.00 2.74
2732 3296 2.171448 GCTGTAGTCCTGGTTCATGGAT 59.829 50.000 0.00 0.00 34.58 3.41
2839 3406 2.669569 CCAACCAGTGGTCGCCAG 60.670 66.667 17.06 3.59 43.20 4.85
2990 3574 3.244946 ACAGACAGACAGACACTAGGCTA 60.245 47.826 0.00 0.00 0.00 3.93
2994 3578 3.149981 TGGACAGACAGACAGACACTAG 58.850 50.000 0.00 0.00 0.00 2.57
3001 3585 3.761218 AGTACTCATGGACAGACAGACAG 59.239 47.826 0.00 0.00 0.00 3.51
3005 3589 5.493133 GAGTAGTACTCATGGACAGACAG 57.507 47.826 22.85 0.00 44.45 3.51
3101 3691 4.865365 CGCTACGAGAAGGAAGAAAGAATT 59.135 41.667 0.00 0.00 0.00 2.17
3197 3787 0.031314 ACCACGATCATGAGCTAGCG 59.969 55.000 9.55 6.32 0.00 4.26
3212 3802 3.036084 CACGAGACACGCCACCAC 61.036 66.667 0.00 0.00 46.94 4.16
3213 3803 3.083848 AACACGAGACACGCCACCA 62.084 57.895 0.00 0.00 46.94 4.17
3214 3804 2.279918 AACACGAGACACGCCACC 60.280 61.111 0.00 0.00 46.94 4.61
3215 3805 1.818221 GACAACACGAGACACGCCAC 61.818 60.000 0.00 0.00 46.94 5.01
3216 3806 1.590525 GACAACACGAGACACGCCA 60.591 57.895 0.00 0.00 46.94 5.69
3217 3807 0.874607 AAGACAACACGAGACACGCC 60.875 55.000 0.00 0.00 46.94 5.68
3218 3808 0.928229 AAAGACAACACGAGACACGC 59.072 50.000 0.00 0.00 46.94 5.34
3221 3811 1.295792 GCCAAAGACAACACGAGACA 58.704 50.000 0.00 0.00 0.00 3.41
3262 3853 0.179111 GGTCGACCTGATGATGCGAA 60.179 55.000 27.64 0.00 32.39 4.70
3283 3879 2.263741 GGATCATGGCATCGTGGGC 61.264 63.158 0.00 0.00 0.00 5.36
3298 3894 3.895025 GTGCATGCTCACACGGAT 58.105 55.556 20.33 0.00 36.97 4.18
3307 3919 0.823356 AAAACTCCACCGTGCATGCT 60.823 50.000 20.33 0.00 0.00 3.79
3389 4001 1.060713 CTCGATCGCGGCGATATTTT 58.939 50.000 34.71 16.51 47.00 1.82
3399 4011 2.278206 CACCAGACCTCGATCGCG 60.278 66.667 11.09 3.62 39.35 5.87
3471 4097 1.868498 GCTCGCTCGAGATACAGTAGT 59.132 52.381 18.75 0.00 44.53 2.73
3473 4099 0.859882 CGCTCGCTCGAGATACAGTA 59.140 55.000 18.75 0.00 44.53 2.74
3474 4100 1.644372 CGCTCGCTCGAGATACAGT 59.356 57.895 18.75 0.00 44.53 3.55
3475 4101 1.082431 CCGCTCGCTCGAGATACAG 60.082 63.158 18.75 6.31 44.53 2.74
3477 4103 0.657951 GTTCCGCTCGCTCGAGATAC 60.658 60.000 18.75 9.73 44.53 2.24
3479 4105 2.407428 TGTTCCGCTCGCTCGAGAT 61.407 57.895 18.75 0.00 44.53 2.75
3494 4124 4.210093 TGTCGGTGTCGGCGTGTT 62.210 61.111 6.85 0.00 45.11 3.32
3667 4300 2.568090 GCCCAAACCATGCTCGTG 59.432 61.111 0.00 0.00 0.00 4.35
3669 4302 2.361610 AGGCCCAAACCATGCTCG 60.362 61.111 0.00 0.00 0.00 5.03
3708 4341 3.114616 CAGCCCACGCTCAACGAG 61.115 66.667 0.00 0.00 43.95 4.18
3709 4342 4.680237 CCAGCCCACGCTCAACGA 62.680 66.667 0.00 0.00 43.95 3.85
3710 4343 4.988598 ACCAGCCCACGCTCAACG 62.989 66.667 0.00 0.00 43.95 4.10
3711 4344 3.357079 CACCAGCCCACGCTCAAC 61.357 66.667 0.00 0.00 43.95 3.18
3712 4345 3.414136 AACACCAGCCCACGCTCAA 62.414 57.895 0.00 0.00 43.95 3.02
3713 4346 3.872603 AACACCAGCCCACGCTCA 61.873 61.111 0.00 0.00 43.95 4.26
3714 4347 3.357079 CAACACCAGCCCACGCTC 61.357 66.667 0.00 0.00 43.95 5.03
3716 4349 3.964875 CACAACACCAGCCCACGC 61.965 66.667 0.00 0.00 0.00 5.34
3717 4350 3.964875 GCACAACACCAGCCCACG 61.965 66.667 0.00 0.00 0.00 4.94
3718 4351 3.605664 GGCACAACACCAGCCCAC 61.606 66.667 0.00 0.00 42.58 4.61
3785 4418 7.220030 TGAGAGAGAAGATGTAACTGCTTTTT 58.780 34.615 0.00 0.00 0.00 1.94
3786 4419 6.763355 TGAGAGAGAAGATGTAACTGCTTTT 58.237 36.000 0.00 0.00 0.00 2.27
3787 4420 6.352016 TGAGAGAGAAGATGTAACTGCTTT 57.648 37.500 0.00 0.00 0.00 3.51
3788 4421 5.991933 TGAGAGAGAAGATGTAACTGCTT 57.008 39.130 0.00 0.00 0.00 3.91
3789 4422 5.991933 TTGAGAGAGAAGATGTAACTGCT 57.008 39.130 0.00 0.00 0.00 4.24
3790 4423 7.426929 TTTTTGAGAGAGAAGATGTAACTGC 57.573 36.000 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.