Multiple sequence alignment - TraesCS2B01G300400

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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 TraesCS2B01G300400 chr2B 100.000 6287 0 0 1 6287 422499398 422505684 0.000000e+00 11611.0
1 TraesCS2B01G300400 chr2A 96.727 3972 117 9 1563 5525 474786384 474790351 0.000000e+00 6602.0
2 TraesCS2B01G300400 chr2A 94.923 847 35 5 703 1547 474785501 474786341 0.000000e+00 1319.0
3 TraesCS2B01G300400 chr2A 91.258 755 44 3 5543 6287 474793222 474793964 0.000000e+00 1009.0
4 TraesCS2B01G300400 chr2A 85.336 566 63 14 72 625 474784271 474784828 9.150000e-158 568.0
5 TraesCS2B01G300400 chr2D 96.884 2471 61 9 1563 4021 354957712 354960178 0.000000e+00 4122.0
6 TraesCS2B01G300400 chr2D 96.855 1526 42 5 4002 5525 354960189 354961710 0.000000e+00 2547.0
7 TraesCS2B01G300400 chr2D 90.476 1218 69 24 366 1553 354956465 354957665 0.000000e+00 1563.0
8 TraesCS2B01G300400 chr2D 94.040 755 33 3 5543 6287 354965031 354965783 0.000000e+00 1134.0
9 TraesCS2B01G300400 chr4D 96.774 31 1 0 173 203 498195433 498195403 1.100000e-02 52.8


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 TraesCS2B01G300400 chr2B 422499398 422505684 6286 False 11611.0 11611 100.00000 1 6287 1 chr2B.!!$F1 6286
1 TraesCS2B01G300400 chr2A 474784271 474793964 9693 False 2374.5 6602 92.06100 72 6287 4 chr2A.!!$F1 6215
2 TraesCS2B01G300400 chr2D 354956465 354965783 9318 False 2341.5 4122 94.56375 366 6287 4 chr2D.!!$F1 5921

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
610 621 0.250381 TTGTCGGGTGGCGTACAATT 60.250 50.000 0.00 0.0 0.00 2.32 F
667 1283 0.309922 TCGCTTGTCGTTCTCGTTCT 59.690 50.000 0.00 0.0 39.67 3.01 F
2325 2996 0.951558 AGTTAAGCCAAGTTGCACGG 59.048 50.000 0.00 0.0 0.00 4.94 F
3478 4157 1.207089 TGGACTGCGACCATTAAGGAG 59.793 52.381 0.00 0.0 41.22 3.69 F
4332 5041 3.842732 TTGCTTCACTGATGCTGAATG 57.157 42.857 15.75 0.0 34.46 2.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2563 3238 0.706433 AATCCCAGTTGTCCAGCCAT 59.294 50.000 0.00 0.00 0.00 4.40 R
2573 3248 3.251484 TCTCCAGAGTTCAATCCCAGTT 58.749 45.455 0.00 0.00 0.00 3.16 R
3579 4258 2.729156 GCTTAACGCCTCAACAATCTGC 60.729 50.000 0.00 0.00 0.00 4.26 R
4544 5253 0.036388 CAACACCAGGTGTAGCGGAT 60.036 55.000 26.17 6.06 46.79 4.18 R
5438 6148 1.080501 TGAGCAGCACGTCTACAGC 60.081 57.895 0.00 0.00 0.00 4.40 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 2.554032 ACACAGAGCTTACAATGTTGGC 59.446 45.455 0.00 0.00 0.00 4.52
22 23 1.806542 ACAGAGCTTACAATGTTGGCG 59.193 47.619 0.00 0.00 0.00 5.69
23 24 0.804989 AGAGCTTACAATGTTGGCGC 59.195 50.000 0.00 0.00 0.00 6.53
24 25 0.804989 GAGCTTACAATGTTGGCGCT 59.195 50.000 7.64 0.00 33.78 5.92
25 26 0.804989 AGCTTACAATGTTGGCGCTC 59.195 50.000 7.64 0.00 0.00 5.03
26 27 0.521291 GCTTACAATGTTGGCGCTCA 59.479 50.000 7.64 5.07 0.00 4.26
27 28 1.729149 GCTTACAATGTTGGCGCTCAC 60.729 52.381 7.64 4.80 0.00 3.51
28 29 1.535028 CTTACAATGTTGGCGCTCACA 59.465 47.619 7.64 11.22 0.00 3.58
29 30 0.871722 TACAATGTTGGCGCTCACAC 59.128 50.000 7.64 5.92 0.00 3.82
30 31 1.100463 ACAATGTTGGCGCTCACACA 61.100 50.000 7.64 10.95 0.00 3.72
31 32 0.661187 CAATGTTGGCGCTCACACAC 60.661 55.000 7.64 0.00 0.00 3.82
32 33 2.116736 AATGTTGGCGCTCACACACG 62.117 55.000 7.64 0.00 0.00 4.49
38 39 3.755404 CGCTCACACACGCTAGAC 58.245 61.111 0.00 0.00 0.00 2.59
56 57 3.975246 GGGACGCGACCAATGAAA 58.025 55.556 27.87 0.00 0.00 2.69
57 58 1.500396 GGGACGCGACCAATGAAAC 59.500 57.895 27.87 6.01 0.00 2.78
58 59 1.500396 GGACGCGACCAATGAAACC 59.500 57.895 22.65 1.57 0.00 3.27
59 60 1.231958 GGACGCGACCAATGAAACCA 61.232 55.000 22.65 0.00 0.00 3.67
60 61 0.802494 GACGCGACCAATGAAACCAT 59.198 50.000 15.93 0.00 0.00 3.55
61 62 1.199097 GACGCGACCAATGAAACCATT 59.801 47.619 15.93 0.00 34.78 3.16
62 63 1.611491 ACGCGACCAATGAAACCATTT 59.389 42.857 15.93 0.00 32.29 2.32
63 64 1.984990 CGCGACCAATGAAACCATTTG 59.015 47.619 0.00 0.00 32.29 2.32
64 65 2.606795 CGCGACCAATGAAACCATTTGT 60.607 45.455 0.00 0.00 34.02 2.83
65 66 2.986479 GCGACCAATGAAACCATTTGTC 59.014 45.455 10.50 10.50 40.47 3.18
66 67 3.574614 CGACCAATGAAACCATTTGTCC 58.425 45.455 13.29 1.86 40.63 4.02
67 68 3.005261 CGACCAATGAAACCATTTGTCCA 59.995 43.478 13.29 0.00 40.63 4.02
68 69 4.559153 GACCAATGAAACCATTTGTCCAG 58.441 43.478 9.77 0.00 39.15 3.86
69 70 3.966665 ACCAATGAAACCATTTGTCCAGT 59.033 39.130 0.00 0.00 32.29 4.00
70 71 5.144100 ACCAATGAAACCATTTGTCCAGTA 58.856 37.500 0.00 0.00 32.29 2.74
71 72 5.600484 ACCAATGAAACCATTTGTCCAGTAA 59.400 36.000 0.00 0.00 32.29 2.24
72 73 5.925969 CCAATGAAACCATTTGTCCAGTAAC 59.074 40.000 0.00 0.00 32.29 2.50
73 74 5.722021 ATGAAACCATTTGTCCAGTAACC 57.278 39.130 0.00 0.00 0.00 2.85
74 75 4.537751 TGAAACCATTTGTCCAGTAACCA 58.462 39.130 0.00 0.00 0.00 3.67
75 76 5.144100 TGAAACCATTTGTCCAGTAACCAT 58.856 37.500 0.00 0.00 0.00 3.55
205 207 9.435688 AAAAAGTTTGCTAATCTGAAACAAGTT 57.564 25.926 0.00 0.00 32.96 2.66
208 210 7.196331 AGTTTGCTAATCTGAAACAAGTTCAC 58.804 34.615 0.00 0.00 41.47 3.18
412 415 5.529581 AAAACTCATTCCCGAACAAACAT 57.470 34.783 0.00 0.00 0.00 2.71
490 493 4.449068 GTGCAGCGAAATATGCTAGTATGT 59.551 41.667 3.24 0.00 41.72 2.29
500 503 7.704578 AATATGCTAGTATGTGTCGGTCTAT 57.295 36.000 3.24 0.00 0.00 1.98
504 507 6.967135 TGCTAGTATGTGTCGGTCTATTTAG 58.033 40.000 0.00 0.00 0.00 1.85
520 524 6.424207 GTCTATTTAGAAACATAGCGAAGGGG 59.576 42.308 0.00 0.00 33.47 4.79
582 587 2.663826 TTGTTTGGTGTTGGTTCAGC 57.336 45.000 0.00 0.00 36.52 4.26
583 588 1.550327 TGTTTGGTGTTGGTTCAGCA 58.450 45.000 0.00 0.00 42.73 4.41
584 589 1.476085 TGTTTGGTGTTGGTTCAGCAG 59.524 47.619 0.00 0.00 44.57 4.24
585 590 1.476488 GTTTGGTGTTGGTTCAGCAGT 59.524 47.619 0.00 0.00 44.57 4.40
586 591 1.102154 TTGGTGTTGGTTCAGCAGTG 58.898 50.000 0.00 0.00 44.57 3.66
588 593 1.210722 TGGTGTTGGTTCAGCAGTGTA 59.789 47.619 0.00 0.00 40.20 2.90
589 594 2.294074 GGTGTTGGTTCAGCAGTGTAA 58.706 47.619 0.00 0.00 36.09 2.41
592 603 4.202111 GGTGTTGGTTCAGCAGTGTAATTT 60.202 41.667 0.00 0.00 36.09 1.82
594 605 4.400884 TGTTGGTTCAGCAGTGTAATTTGT 59.599 37.500 0.00 0.00 0.00 2.83
610 621 0.250381 TTGTCGGGTGGCGTACAATT 60.250 50.000 0.00 0.00 0.00 2.32
621 632 5.116882 GTGGCGTACAATTAGAGGAGAAAT 58.883 41.667 0.00 0.00 0.00 2.17
625 636 7.656137 TGGCGTACAATTAGAGGAGAAATAATC 59.344 37.037 0.00 0.00 0.00 1.75
662 1278 3.313274 TGTTTTTCGCTTGTCGTTCTC 57.687 42.857 0.00 0.00 39.67 2.87
663 1279 2.285371 TGTTTTTCGCTTGTCGTTCTCG 60.285 45.455 0.00 0.00 39.67 4.04
664 1280 1.563111 TTTTCGCTTGTCGTTCTCGT 58.437 45.000 0.00 0.00 39.67 4.18
667 1283 0.309922 TCGCTTGTCGTTCTCGTTCT 59.690 50.000 0.00 0.00 39.67 3.01
669 1285 1.642843 CGCTTGTCGTTCTCGTTCTAC 59.357 52.381 0.00 0.00 38.33 2.59
670 1286 1.642843 GCTTGTCGTTCTCGTTCTACG 59.357 52.381 0.00 0.00 44.19 3.51
671 1287 2.913613 CTTGTCGTTCTCGTTCTACGT 58.086 47.619 0.00 0.00 43.14 3.57
672 1288 2.584166 TGTCGTTCTCGTTCTACGTC 57.416 50.000 0.00 0.00 43.14 4.34
673 1289 2.138320 TGTCGTTCTCGTTCTACGTCT 58.862 47.619 0.00 0.00 43.14 4.18
676 1292 3.357240 GTCGTTCTCGTTCTACGTCTTTG 59.643 47.826 0.00 0.00 43.14 2.77
678 1294 3.117507 CGTTCTCGTTCTACGTCTTTGTG 59.882 47.826 0.00 0.00 43.14 3.33
680 1296 3.624900 TCTCGTTCTACGTCTTTGTGTG 58.375 45.455 0.00 0.00 43.14 3.82
684 1300 3.450578 GTTCTACGTCTTTGTGTGTCCA 58.549 45.455 0.00 0.00 0.00 4.02
695 1311 2.237643 TGTGTGTCCATTGGGTCATTG 58.762 47.619 2.09 0.00 34.72 2.82
696 1312 2.238521 GTGTGTCCATTGGGTCATTGT 58.761 47.619 2.09 0.00 34.72 2.71
697 1313 2.627699 GTGTGTCCATTGGGTCATTGTT 59.372 45.455 2.09 0.00 34.72 2.83
698 1314 3.069443 GTGTGTCCATTGGGTCATTGTTT 59.931 43.478 2.09 0.00 34.72 2.83
699 1315 3.708631 TGTGTCCATTGGGTCATTGTTTT 59.291 39.130 2.09 0.00 34.72 2.43
700 1316 4.202202 TGTGTCCATTGGGTCATTGTTTTC 60.202 41.667 2.09 0.00 34.72 2.29
701 1317 3.323403 TGTCCATTGGGTCATTGTTTTCC 59.677 43.478 2.09 0.00 34.93 3.13
712 1328 8.527810 TGGGTCATTGTTTTCCTTGATATTAAC 58.472 33.333 0.00 0.00 0.00 2.01
779 1396 2.540973 GGGCGCCGATTAAATCTGTTTC 60.541 50.000 22.54 0.00 0.00 2.78
805 1422 8.899771 CCCTAAATGTATACGGAGTTGAAAATT 58.100 33.333 0.00 0.00 37.78 1.82
836 1453 4.742201 TCCGAAGCAGCTGACCGC 62.742 66.667 20.43 0.63 39.57 5.68
886 1503 2.381589 CGCCAAACTCGGAAGAAAAAC 58.618 47.619 0.00 0.00 41.32 2.43
948 1565 3.640967 AGAGAGAGAGAGAGAGAGAGAGC 59.359 52.174 0.00 0.00 0.00 4.09
949 1566 2.363680 AGAGAGAGAGAGAGAGAGAGCG 59.636 54.545 0.00 0.00 0.00 5.03
950 1567 2.362397 GAGAGAGAGAGAGAGAGAGCGA 59.638 54.545 0.00 0.00 0.00 4.93
952 1569 1.202580 AGAGAGAGAGAGAGAGCGAGC 60.203 57.143 0.00 0.00 0.00 5.03
1202 1827 1.147473 GGGCAATTTTTGGTTCGCTG 58.853 50.000 0.00 0.00 0.00 5.18
1301 1929 2.150051 GGGGATCTCGGATGGGCTT 61.150 63.158 0.00 0.00 0.00 4.35
1411 2039 8.245195 AGAAAGCTACATTTTTGGGAGTTTTA 57.755 30.769 0.00 0.00 0.00 1.52
1412 2040 8.360390 AGAAAGCTACATTTTTGGGAGTTTTAG 58.640 33.333 0.00 0.00 0.00 1.85
1423 2051 5.705609 TGGGAGTTTTAGTGCAGATTTTC 57.294 39.130 0.00 0.00 0.00 2.29
1467 2095 5.672629 TCAGTAAATCTTGCTGCGTGTAGC 61.673 45.833 2.78 2.78 42.25 3.58
1482 2110 1.751351 TGTAGCCCTCGATCTGAGTTG 59.249 52.381 11.76 5.78 43.64 3.16
1490 2118 4.100189 CCCTCGATCTGAGTTGGATTTAGT 59.900 45.833 11.76 0.00 43.64 2.24
1491 2119 5.395768 CCCTCGATCTGAGTTGGATTTAGTT 60.396 44.000 11.76 0.00 43.64 2.24
1517 2146 5.339990 ACGCATGGACAATTTATAAGTTGC 58.660 37.500 17.80 11.66 0.00 4.17
1536 2165 4.292186 TGCACTCAGGCTCTTTTAGATT 57.708 40.909 0.00 0.00 34.04 2.40
1537 2166 4.005650 TGCACTCAGGCTCTTTTAGATTG 58.994 43.478 0.00 0.00 34.04 2.67
1542 2172 4.592942 TCAGGCTCTTTTAGATTGCACAT 58.407 39.130 0.00 0.00 0.00 3.21
1553 2183 4.978083 AGATTGCACATGATGTTCCTTC 57.022 40.909 0.00 0.00 0.00 3.46
1556 2186 3.421919 TGCACATGATGTTCCTTCTGA 57.578 42.857 0.00 0.00 0.00 3.27
1558 2188 3.754850 TGCACATGATGTTCCTTCTGAAG 59.245 43.478 10.46 10.46 32.37 3.02
1559 2189 3.427233 GCACATGATGTTCCTTCTGAAGC 60.427 47.826 11.93 0.00 32.37 3.86
1560 2190 3.754850 CACATGATGTTCCTTCTGAAGCA 59.245 43.478 11.93 5.38 32.37 3.91
1561 2191 3.755378 ACATGATGTTCCTTCTGAAGCAC 59.245 43.478 11.93 10.66 32.37 4.40
1603 2270 3.679980 TGCAAGTGTTTCTTAGATCGAGC 59.320 43.478 0.00 0.00 34.66 5.03
1648 2315 7.431249 TGGTAAGTCTAGTTATGGATTTAGCG 58.569 38.462 0.00 0.00 38.55 4.26
1714 2381 8.435187 AGATATCTGAAGCCTTGTTATGAATGA 58.565 33.333 3.89 0.00 0.00 2.57
1761 2428 6.182627 TGAAATGTATGCTTCTCCTTGACAT 58.817 36.000 0.00 0.00 0.00 3.06
1829 2496 3.135530 AGCAGAGACTTTGAACAAGGACT 59.864 43.478 0.00 2.96 0.00 3.85
1873 2540 5.271625 CGTCTTGTATACTGCAGAACGTAT 58.728 41.667 23.35 11.08 0.00 3.06
1937 2604 3.245048 GTGGTTTGTTTCTGCGATTTTGG 59.755 43.478 0.00 0.00 0.00 3.28
1938 2605 2.220824 GGTTTGTTTCTGCGATTTTGGC 59.779 45.455 0.00 0.00 0.00 4.52
2197 2868 1.401761 ACAAAGCATTGCCACACTCA 58.598 45.000 4.70 0.00 40.34 3.41
2325 2996 0.951558 AGTTAAGCCAAGTTGCACGG 59.048 50.000 0.00 0.00 0.00 4.94
2445 3116 7.951530 ATTTGGATTTGTCACTGCTTTTAAG 57.048 32.000 0.00 0.00 0.00 1.85
2451 3122 9.129209 GGATTTGTCACTGCTTTTAAGTTATTC 57.871 33.333 0.00 0.00 0.00 1.75
2563 3238 8.496707 TCACGACTAGTTATGTACTGATACAA 57.503 34.615 0.00 0.00 44.47 2.41
2573 3248 3.517500 TGTACTGATACAATGGCTGGACA 59.482 43.478 0.00 0.00 38.40 4.02
2644 3319 4.460034 TGCATAGCATTGTGATGTGAAACT 59.540 37.500 0.00 0.00 32.51 2.66
2645 3320 5.047872 TGCATAGCATTGTGATGTGAAACTT 60.048 36.000 0.00 0.00 32.51 2.66
2679 3354 4.097741 TCAACCTTTGTCACCATTTGTCAG 59.902 41.667 0.00 0.00 0.00 3.51
2795 3471 5.545063 TCTGTGTTCTTCAAGGTATGTGA 57.455 39.130 0.00 0.00 0.00 3.58
2820 3496 9.660180 GAACAGTCTATCTTAGTTTGAAATCCT 57.340 33.333 0.00 0.00 0.00 3.24
2856 3532 5.890334 TGAGTTTTTGTTCCTGTGATTGAC 58.110 37.500 0.00 0.00 0.00 3.18
2995 3672 7.119699 GTCAGGTTTGATGTGAACATGAGAATA 59.880 37.037 0.00 0.00 45.04 1.75
3027 3704 6.609212 TCTTATTTGGTTAATGCCCATGCTAA 59.391 34.615 0.00 0.00 38.71 3.09
3203 3881 7.547370 GTGGTCTTGATATATGCTACCTGATTC 59.453 40.741 0.00 0.00 0.00 2.52
3334 4013 5.820131 TGAGTTTGTAGTTGTTTGCATGAG 58.180 37.500 0.00 0.00 0.00 2.90
3407 4086 2.359900 ACTTAGCACTTGTATGGCTGC 58.640 47.619 0.00 0.00 38.55 5.25
3478 4157 1.207089 TGGACTGCGACCATTAAGGAG 59.793 52.381 0.00 0.00 41.22 3.69
3530 4209 5.648092 AGTATAAGTGCACAATTCCCAGTTC 59.352 40.000 21.04 0.00 0.00 3.01
3672 4351 8.286800 TGTACTTTTCAACACATTATTTCCGAG 58.713 33.333 0.00 0.00 0.00 4.63
3699 4378 8.349983 GCTTCACTAAATTACTGAACCTTTTGA 58.650 33.333 0.00 0.00 0.00 2.69
3747 4426 5.295292 CCAAATGATGCTACTGAGATTTCGT 59.705 40.000 0.00 0.00 0.00 3.85
3794 4473 8.258708 GCTAGAACTTCTTTCCCTCTTTGTATA 58.741 37.037 0.00 0.00 34.32 1.47
4086 4795 4.290711 TGCTCTCACATTTTGGAGATCA 57.709 40.909 0.00 0.00 39.29 2.92
4140 4849 6.043590 TCCTGGTGAATATATGAATCTGCAGT 59.956 38.462 14.67 0.00 0.00 4.40
4142 4851 7.879677 CCTGGTGAATATATGAATCTGCAGTTA 59.120 37.037 14.67 0.00 0.00 2.24
4222 4931 5.927030 TCTCAGCGTTTTTATGATGTTGAC 58.073 37.500 0.00 0.00 0.00 3.18
4332 5041 3.842732 TTGCTTCACTGATGCTGAATG 57.157 42.857 15.75 0.00 34.46 2.67
4340 5049 4.082245 TCACTGATGCTGAATGTCTTACGA 60.082 41.667 0.00 0.00 0.00 3.43
4383 5092 7.693951 GCGATTTGACAAGGAATATGCATATAC 59.306 37.037 19.39 14.86 0.00 1.47
4424 5133 4.801147 AAAGAAGGAAAACGAACGGTAC 57.199 40.909 0.00 0.00 0.00 3.34
4451 5160 7.937394 GCCCCTTGTTCTATGTACATAACTTAT 59.063 37.037 16.17 0.00 0.00 1.73
4606 5315 8.296713 CCCTTATCGACATTTTGGGTATTATTG 58.703 37.037 0.00 0.00 0.00 1.90
4675 5385 7.784470 AAAGCCTATATTTTTGTGGTTACCA 57.216 32.000 0.00 0.00 0.00 3.25
4755 5465 5.337169 GGGCCTTGTATTCTGCATGTTAAAA 60.337 40.000 0.84 0.00 0.00 1.52
4912 5622 4.012374 CAGCTCTCAACAATATGGGTGTT 58.988 43.478 0.00 0.00 39.79 3.32
5006 5716 6.650807 TCCTTAGTTTCATTAGCAGTGTTCTG 59.349 38.462 0.00 0.00 43.87 3.02
5190 5900 3.426787 TGATTACCCATGAAACCGTGT 57.573 42.857 0.00 0.00 0.00 4.49
5265 5975 3.316029 TCATTCTGCAGAACCAAACAGTG 59.684 43.478 30.66 21.06 36.80 3.66
5432 6142 8.257830 TGTATAACATTTCTAATGTGCGACAA 57.742 30.769 5.86 0.00 31.80 3.18
5438 6148 6.363088 ACATTTCTAATGTGCGACAACAATTG 59.637 34.615 3.24 3.24 32.81 2.32
5565 9589 3.146218 ACATTGGTGTGCCATGGTT 57.854 47.368 14.67 0.00 45.56 3.67
5606 9630 2.203084 TTCCGTTGCAAGGCGTCA 60.203 55.556 13.63 0.00 0.00 4.35
5617 9641 2.030805 GCAAGGCGTCAAACTCTTTCAT 60.031 45.455 0.00 0.00 0.00 2.57
5720 9747 2.442212 TCGCCACGTCAACATTTCTA 57.558 45.000 0.00 0.00 0.00 2.10
5729 9756 7.540745 GCCACGTCAACATTTCTAAATATGTTT 59.459 33.333 0.00 0.00 41.65 2.83
5730 9757 9.405587 CCACGTCAACATTTCTAAATATGTTTT 57.594 29.630 0.00 0.00 41.65 2.43
5754 9781 2.248248 TCGTCCTGACCTCAATGACTT 58.752 47.619 0.00 0.00 0.00 3.01
5791 9818 8.523658 GTTTAGAAAACATATTTCTCCCTTGCT 58.476 33.333 6.71 0.00 39.30 3.91
5823 9850 4.700268 TCCAAATTTGTGATCACATCGG 57.300 40.909 28.32 21.58 41.52 4.18
5854 9881 2.180017 GTGCAAGCCATGAAGCCG 59.820 61.111 0.00 0.00 0.00 5.52
5976 10003 0.404812 ACGACCCCTACTCTGTCTGT 59.595 55.000 0.00 0.00 0.00 3.41
6064 10098 1.216064 CCAGGGTGATTCCTCCATCA 58.784 55.000 0.00 0.00 34.31 3.07
6156 10190 7.007116 ACATCTGCTCTAATACCATGTAGAGA 58.993 38.462 17.82 2.90 44.10 3.10
6157 10191 7.176515 ACATCTGCTCTAATACCATGTAGAGAG 59.823 40.741 17.82 12.90 44.10 3.20
6183 10217 2.086869 AGATTTGGGATGCAACTCACG 58.913 47.619 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.806542 CGCCAACATTGTAAGCTCTGT 59.193 47.619 8.74 0.00 0.00 3.41
3 4 1.466360 GCGCCAACATTGTAAGCTCTG 60.466 52.381 0.00 0.00 0.00 3.35
5 6 0.804989 AGCGCCAACATTGTAAGCTC 59.195 50.000 2.29 2.21 0.00 4.09
6 7 0.804989 GAGCGCCAACATTGTAAGCT 59.195 50.000 2.29 8.16 34.58 3.74
7 8 0.521291 TGAGCGCCAACATTGTAAGC 59.479 50.000 2.29 0.00 0.00 3.09
8 9 1.535028 TGTGAGCGCCAACATTGTAAG 59.465 47.619 2.29 0.00 0.00 2.34
9 10 1.265635 GTGTGAGCGCCAACATTGTAA 59.734 47.619 14.98 0.00 0.00 2.41
10 11 0.871722 GTGTGAGCGCCAACATTGTA 59.128 50.000 14.98 0.00 0.00 2.41
11 12 1.100463 TGTGTGAGCGCCAACATTGT 61.100 50.000 14.98 0.00 0.00 2.71
12 13 0.661187 GTGTGTGAGCGCCAACATTG 60.661 55.000 14.98 0.00 0.00 2.82
13 14 1.654220 GTGTGTGAGCGCCAACATT 59.346 52.632 14.98 0.00 0.00 2.71
14 15 2.606961 CGTGTGTGAGCGCCAACAT 61.607 57.895 14.98 0.00 0.00 2.71
15 16 3.268603 CGTGTGTGAGCGCCAACA 61.269 61.111 2.29 6.15 0.00 3.33
16 17 4.666532 GCGTGTGTGAGCGCCAAC 62.667 66.667 2.29 2.85 46.93 3.77
21 22 2.146519 CGTCTAGCGTGTGTGAGCG 61.147 63.158 0.00 0.00 38.61 5.03
22 23 1.801913 CCGTCTAGCGTGTGTGAGC 60.802 63.158 5.97 0.00 39.32 4.26
23 24 1.154016 CCCGTCTAGCGTGTGTGAG 60.154 63.158 5.97 0.00 39.32 3.51
24 25 1.601477 TCCCGTCTAGCGTGTGTGA 60.601 57.895 5.97 0.00 39.32 3.58
25 26 1.443872 GTCCCGTCTAGCGTGTGTG 60.444 63.158 5.97 0.00 39.32 3.82
26 27 2.960170 GTCCCGTCTAGCGTGTGT 59.040 61.111 5.97 0.00 39.32 3.72
27 28 2.202440 CGTCCCGTCTAGCGTGTG 60.202 66.667 5.97 0.00 39.32 3.82
28 29 4.112341 GCGTCCCGTCTAGCGTGT 62.112 66.667 5.97 0.00 39.32 4.49
32 33 4.549516 GGTCGCGTCCCGTCTAGC 62.550 72.222 11.60 0.00 38.35 3.42
33 34 2.001361 ATTGGTCGCGTCCCGTCTAG 62.001 60.000 19.65 0.00 38.35 2.43
34 35 2.048023 ATTGGTCGCGTCCCGTCTA 61.048 57.895 19.65 0.00 38.35 2.59
35 36 3.379445 ATTGGTCGCGTCCCGTCT 61.379 61.111 19.65 0.00 38.35 4.18
36 37 3.186047 CATTGGTCGCGTCCCGTC 61.186 66.667 19.65 0.00 38.35 4.79
37 38 2.718747 TTTCATTGGTCGCGTCCCGT 62.719 55.000 19.65 5.40 38.35 5.28
38 39 2.030401 TTTCATTGGTCGCGTCCCG 61.030 57.895 19.65 8.40 38.61 5.14
39 40 1.500396 GTTTCATTGGTCGCGTCCC 59.500 57.895 19.65 14.56 0.00 4.46
40 41 1.231958 TGGTTTCATTGGTCGCGTCC 61.232 55.000 15.82 15.82 0.00 4.79
41 42 0.802494 ATGGTTTCATTGGTCGCGTC 59.198 50.000 5.77 0.00 0.00 5.19
42 43 1.243902 AATGGTTTCATTGGTCGCGT 58.756 45.000 5.77 0.00 41.62 6.01
43 44 1.984990 CAAATGGTTTCATTGGTCGCG 59.015 47.619 0.00 0.00 42.29 5.87
44 45 3.025287 ACAAATGGTTTCATTGGTCGC 57.975 42.857 0.00 0.00 42.26 5.19
47 48 3.966665 ACTGGACAAATGGTTTCATTGGT 59.033 39.130 0.00 0.00 46.98 3.67
48 49 4.605640 ACTGGACAAATGGTTTCATTGG 57.394 40.909 0.00 0.00 42.29 3.16
49 50 5.925969 GGTTACTGGACAAATGGTTTCATTG 59.074 40.000 0.00 0.00 42.29 2.82
50 51 5.600484 TGGTTACTGGACAAATGGTTTCATT 59.400 36.000 0.00 0.00 44.77 2.57
51 52 5.144100 TGGTTACTGGACAAATGGTTTCAT 58.856 37.500 0.00 0.00 34.56 2.57
52 53 4.537751 TGGTTACTGGACAAATGGTTTCA 58.462 39.130 0.00 0.00 0.00 2.69
53 54 5.722021 ATGGTTACTGGACAAATGGTTTC 57.278 39.130 0.00 0.00 0.00 2.78
54 55 5.600484 TCAATGGTTACTGGACAAATGGTTT 59.400 36.000 0.00 0.00 0.00 3.27
55 56 5.010617 GTCAATGGTTACTGGACAAATGGTT 59.989 40.000 0.00 0.00 0.00 3.67
56 57 4.522789 GTCAATGGTTACTGGACAAATGGT 59.477 41.667 0.00 0.00 0.00 3.55
57 58 4.766891 AGTCAATGGTTACTGGACAAATGG 59.233 41.667 0.00 0.00 0.00 3.16
58 59 5.964958 AGTCAATGGTTACTGGACAAATG 57.035 39.130 0.00 0.00 0.00 2.32
59 60 6.976934 AAAGTCAATGGTTACTGGACAAAT 57.023 33.333 0.00 0.00 0.00 2.32
60 61 6.783708 AAAAGTCAATGGTTACTGGACAAA 57.216 33.333 0.00 0.00 0.00 2.83
61 62 6.783708 AAAAAGTCAATGGTTACTGGACAA 57.216 33.333 0.00 0.00 0.00 3.18
62 63 7.883391 TTAAAAAGTCAATGGTTACTGGACA 57.117 32.000 0.00 0.00 0.00 4.02
63 64 9.589111 TTTTTAAAAAGTCAATGGTTACTGGAC 57.411 29.630 9.31 0.00 0.00 4.02
64 65 9.810545 CTTTTTAAAAAGTCAATGGTTACTGGA 57.189 29.630 25.95 0.00 40.31 3.86
169 170 9.836864 AGATTAGCAAACTTTTTCCAAATTCTT 57.163 25.926 0.00 0.00 0.00 2.52
171 172 9.260002 TCAGATTAGCAAACTTTTTCCAAATTC 57.740 29.630 0.00 0.00 0.00 2.17
174 175 8.878769 GTTTCAGATTAGCAAACTTTTTCCAAA 58.121 29.630 0.00 0.00 0.00 3.28
187 189 8.621532 ATTAGTGAACTTGTTTCAGATTAGCA 57.378 30.769 0.00 0.00 45.23 3.49
194 196 9.520204 ACATTCAAATTAGTGAACTTGTTTCAG 57.480 29.630 0.00 0.00 45.23 3.02
365 368 7.214467 TCTCTGCTTTTTATTTCCGTTTCAT 57.786 32.000 0.00 0.00 0.00 2.57
366 369 6.627395 TCTCTGCTTTTTATTTCCGTTTCA 57.373 33.333 0.00 0.00 0.00 2.69
367 370 7.924103 TTTCTCTGCTTTTTATTTCCGTTTC 57.076 32.000 0.00 0.00 0.00 2.78
368 371 8.600625 GTTTTTCTCTGCTTTTTATTTCCGTTT 58.399 29.630 0.00 0.00 0.00 3.60
371 374 7.647715 TGAGTTTTTCTCTGCTTTTTATTTCCG 59.352 33.333 0.00 0.00 43.13 4.30
372 375 8.871686 TGAGTTTTTCTCTGCTTTTTATTTCC 57.128 30.769 0.00 0.00 43.13 3.13
377 380 7.433680 GGGAATGAGTTTTTCTCTGCTTTTTA 58.566 34.615 0.00 0.00 43.13 1.52
398 401 9.250624 CTGTTTTATTTTATGTTTGTTCGGGAA 57.749 29.630 0.00 0.00 0.00 3.97
490 493 5.975344 CGCTATGTTTCTAAATAGACCGACA 59.025 40.000 0.00 0.00 30.81 4.35
500 503 3.275999 GCCCCTTCGCTATGTTTCTAAA 58.724 45.455 0.00 0.00 0.00 1.85
504 507 0.107165 AGGCCCCTTCGCTATGTTTC 60.107 55.000 0.00 0.00 0.00 2.78
520 524 0.601311 CTAATACAGGGCGCTCAGGC 60.601 60.000 11.40 0.00 45.91 4.85
553 557 9.320352 GAACCAACACCAAACAAAAATAGTATT 57.680 29.630 0.00 0.00 0.00 1.89
565 570 1.476488 ACTGCTGAACCAACACCAAAC 59.524 47.619 0.00 0.00 0.00 2.93
568 573 0.034574 ACACTGCTGAACCAACACCA 60.035 50.000 0.00 0.00 0.00 4.17
569 574 1.961793 TACACTGCTGAACCAACACC 58.038 50.000 0.00 0.00 0.00 4.16
570 575 4.568152 AATTACACTGCTGAACCAACAC 57.432 40.909 0.00 0.00 0.00 3.32
582 587 1.199097 GCCACCCGACAAATTACACTG 59.801 52.381 0.00 0.00 0.00 3.66
583 588 1.530323 GCCACCCGACAAATTACACT 58.470 50.000 0.00 0.00 0.00 3.55
584 589 0.167251 CGCCACCCGACAAATTACAC 59.833 55.000 0.00 0.00 40.02 2.90
585 590 0.250381 ACGCCACCCGACAAATTACA 60.250 50.000 0.00 0.00 41.02 2.41
586 591 1.394572 GTACGCCACCCGACAAATTAC 59.605 52.381 0.00 0.00 41.02 1.89
588 593 0.250381 TGTACGCCACCCGACAAATT 60.250 50.000 0.00 0.00 41.02 1.82
589 594 0.250381 TTGTACGCCACCCGACAAAT 60.250 50.000 0.00 0.00 41.02 2.32
592 603 0.607112 TAATTGTACGCCACCCGACA 59.393 50.000 0.00 0.00 41.02 4.35
594 605 1.135527 CTCTAATTGTACGCCACCCGA 59.864 52.381 0.00 0.00 41.02 5.14
649 1265 3.824115 CGTAGAACGAGAACGACAAGCG 61.824 54.545 0.00 0.00 46.05 4.68
650 1266 1.642843 CGTAGAACGAGAACGACAAGC 59.357 52.381 0.00 0.00 46.05 4.01
653 1269 2.138320 AGACGTAGAACGAGAACGACA 58.862 47.619 6.44 0.00 46.05 4.35
663 1279 3.450578 TGGACACACAAAGACGTAGAAC 58.549 45.455 0.00 0.00 0.00 3.01
664 1280 3.804786 TGGACACACAAAGACGTAGAA 57.195 42.857 0.00 0.00 0.00 2.10
667 1283 3.135225 CCAATGGACACACAAAGACGTA 58.865 45.455 0.00 0.00 0.00 3.57
669 1285 1.266718 CCCAATGGACACACAAAGACG 59.733 52.381 0.00 0.00 0.00 4.18
670 1286 2.293399 GACCCAATGGACACACAAAGAC 59.707 50.000 0.00 0.00 34.81 3.01
671 1287 2.092158 TGACCCAATGGACACACAAAGA 60.092 45.455 0.00 0.00 31.12 2.52
672 1288 2.305928 TGACCCAATGGACACACAAAG 58.694 47.619 0.00 0.00 31.12 2.77
673 1289 2.443958 TGACCCAATGGACACACAAA 57.556 45.000 0.00 0.00 31.12 2.83
676 1292 2.238521 ACAATGACCCAATGGACACAC 58.761 47.619 0.00 0.00 39.13 3.82
678 1294 4.306600 GAAAACAATGACCCAATGGACAC 58.693 43.478 0.00 0.00 39.13 3.67
680 1296 3.578282 AGGAAAACAATGACCCAATGGAC 59.422 43.478 0.00 0.00 34.81 4.02
684 1300 7.738437 ATATCAAGGAAAACAATGACCCAAT 57.262 32.000 0.00 0.00 0.00 3.16
774 1391 6.549433 ACTCCGTATACATTTAGGGAAACA 57.451 37.500 3.32 0.00 36.11 2.83
779 1396 7.852971 TTTTCAACTCCGTATACATTTAGGG 57.147 36.000 3.32 0.00 0.00 3.53
886 1503 2.593681 TAGGGGAAGGGGATTGGGGG 62.594 65.000 0.00 0.00 0.00 5.40
948 1565 1.165907 ATGAGGCTCTCTCTCGCTCG 61.166 60.000 16.72 0.00 42.86 5.03
949 1566 1.001378 GAATGAGGCTCTCTCTCGCTC 60.001 57.143 16.72 0.00 42.86 5.03
950 1567 1.032014 GAATGAGGCTCTCTCTCGCT 58.968 55.000 16.72 0.00 42.86 4.93
952 1569 0.310543 CGGAATGAGGCTCTCTCTCG 59.689 60.000 16.72 12.62 42.86 4.04
1411 2039 2.484264 GCTTGTACCGAAAATCTGCACT 59.516 45.455 0.00 0.00 0.00 4.40
1412 2040 2.225491 TGCTTGTACCGAAAATCTGCAC 59.775 45.455 0.00 0.00 0.00 4.57
1423 2051 1.878953 ACTTTCACCTGCTTGTACCG 58.121 50.000 0.00 0.00 0.00 4.02
1467 2095 3.550437 AAATCCAACTCAGATCGAGGG 57.450 47.619 15.68 9.93 46.98 4.30
1482 2110 4.439057 TGTCCATGCGTCTAACTAAATCC 58.561 43.478 0.00 0.00 0.00 3.01
1490 2118 8.394877 CAACTTATAAATTGTCCATGCGTCTAA 58.605 33.333 0.00 0.00 0.00 2.10
1491 2119 7.466725 GCAACTTATAAATTGTCCATGCGTCTA 60.467 37.037 8.33 0.00 0.00 2.59
1517 2146 4.005650 TGCAATCTAAAAGAGCCTGAGTG 58.994 43.478 0.00 0.00 0.00 3.51
1536 2165 3.421919 TCAGAAGGAACATCATGTGCA 57.578 42.857 0.00 0.00 0.00 4.57
1537 2166 3.427233 GCTTCAGAAGGAACATCATGTGC 60.427 47.826 12.30 0.00 0.00 4.57
1542 2172 3.490439 TGTGCTTCAGAAGGAACATCA 57.510 42.857 12.30 0.66 0.00 3.07
1553 2183 6.671190 TGAATTTAGAACACATGTGCTTCAG 58.329 36.000 25.68 0.99 35.12 3.02
1556 2186 7.042797 ACTTGAATTTAGAACACATGTGCTT 57.957 32.000 25.68 17.80 35.12 3.91
1558 2188 6.346040 GCAACTTGAATTTAGAACACATGTGC 60.346 38.462 25.68 10.49 0.00 4.57
1559 2189 6.696583 TGCAACTTGAATTTAGAACACATGTG 59.303 34.615 24.25 24.25 0.00 3.21
1560 2190 6.804677 TGCAACTTGAATTTAGAACACATGT 58.195 32.000 0.00 0.00 0.00 3.21
1561 2191 7.436080 ACTTGCAACTTGAATTTAGAACACATG 59.564 33.333 0.00 0.00 0.00 3.21
1648 2315 6.071108 TGCCTAGATATCAAGGAGAAGCATAC 60.071 42.308 5.32 0.00 0.00 2.39
1733 2400 6.372659 TCAAGGAGAAGCATACATTTCAGTTC 59.627 38.462 0.00 0.00 0.00 3.01
1761 2428 4.698304 CCTTCCACAATTCGCTTACCTAAA 59.302 41.667 0.00 0.00 0.00 1.85
1829 2496 5.730550 ACGGAGCACAAAGTGAGATATTAA 58.269 37.500 0.58 0.00 35.23 1.40
1890 2557 7.342799 ACCAGCCTGATGAATACAAAATGTAAT 59.657 33.333 0.00 0.00 36.31 1.89
1901 2568 3.245229 ACAAACCACCAGCCTGATGAATA 60.245 43.478 0.00 0.00 0.00 1.75
1937 2604 5.681179 ACAAACAGTGTTCCAATAAGTTGGC 60.681 40.000 9.40 0.00 42.53 4.52
1938 2605 5.901552 ACAAACAGTGTTCCAATAAGTTGG 58.098 37.500 9.40 0.76 42.84 3.77
2109 2780 6.267496 AGGACAAGCATGGTTAAAACATAC 57.733 37.500 10.31 0.00 0.00 2.39
2197 2868 8.651589 TGTCCATAATCTATACCTCGAATTCT 57.348 34.615 3.52 0.00 0.00 2.40
2325 2996 0.742990 TTGCCGATTGACCGATGGAC 60.743 55.000 0.00 0.00 0.00 4.02
2445 3116 7.283127 TGGAATAGAAATCTGCACCTGAATAAC 59.717 37.037 0.00 0.00 0.00 1.89
2451 3122 4.337555 CCTTGGAATAGAAATCTGCACCTG 59.662 45.833 0.00 0.00 0.00 4.00
2563 3238 0.706433 AATCCCAGTTGTCCAGCCAT 59.294 50.000 0.00 0.00 0.00 4.40
2573 3248 3.251484 TCTCCAGAGTTCAATCCCAGTT 58.749 45.455 0.00 0.00 0.00 3.16
2645 3320 7.393796 TGGTGACAAAGGTTGAAGTACTAAAAA 59.606 33.333 0.00 0.00 37.44 1.94
2679 3354 4.913924 CACTTGAACAGCATAAAGAGCAAC 59.086 41.667 0.00 0.00 0.00 4.17
2831 3507 6.473455 GTCAATCACAGGAACAAAAACTCAAG 59.527 38.462 0.00 0.00 0.00 3.02
2834 3510 5.163561 TGGTCAATCACAGGAACAAAAACTC 60.164 40.000 0.00 0.00 0.00 3.01
2856 3532 8.410912 GGGTTTAAGCATTATTAGTTAGGTTGG 58.589 37.037 0.00 0.00 0.00 3.77
2995 3672 7.158697 GGGCATTAACCAAATAAGAAGTTTGT 58.841 34.615 0.00 0.00 35.35 2.83
3307 3986 6.745159 TGCAAACAACTACAAACTCAAGTA 57.255 33.333 0.00 0.00 0.00 2.24
3334 4013 6.951643 AGTTCAAAGTAATGAAACGGTGTAC 58.048 36.000 0.00 0.00 40.76 2.90
3433 4112 3.953612 TCCTGTGCTTGAATTGTTTCAGT 59.046 39.130 0.00 0.00 42.60 3.41
3478 4157 2.952310 AGTCAACCTGTCCTTTTCTTGC 59.048 45.455 0.00 0.00 0.00 4.01
3530 4209 9.308318 GTTACTAGAAGATAAGCCTGAGAAAAG 57.692 37.037 0.00 0.00 0.00 2.27
3579 4258 2.729156 GCTTAACGCCTCAACAATCTGC 60.729 50.000 0.00 0.00 0.00 4.26
3606 4285 7.778470 CTGAGAGTAATCAGGTCCAAAATAC 57.222 40.000 0.00 0.00 42.52 1.89
3644 4323 8.286800 CGGAAATAATGTGTTGAAAAGTACAGA 58.713 33.333 0.00 0.00 29.26 3.41
3668 4347 4.755411 TCAGTAATTTAGTGAAGCCTCGG 58.245 43.478 10.81 0.00 35.31 4.63
3747 4426 4.101585 AGCCAGTTGATCAATATCCTTCGA 59.898 41.667 12.12 0.00 0.00 3.71
4086 4795 5.337788 ACAGGTACCTTCTGAGAGAATTCT 58.662 41.667 13.15 7.95 33.13 2.40
4222 4931 5.514914 ACAAAAAGTATTGCTTGACACAACG 59.485 36.000 0.00 0.00 37.52 4.10
4298 5007 9.678260 ATCAGTGAAGCAATAGAAACTAGAAAT 57.322 29.630 0.00 0.00 0.00 2.17
4340 5049 1.555075 TCGCTCAGAGCCAACCTTATT 59.445 47.619 17.16 0.00 38.18 1.40
4424 5133 2.684001 TGTACATAGAACAAGGGGCG 57.316 50.000 0.00 0.00 0.00 6.13
4544 5253 0.036388 CAACACCAGGTGTAGCGGAT 60.036 55.000 26.17 6.06 46.79 4.18
4675 5385 7.201617 GGCAATTAACGCTAGTAGAAAGTTCAT 60.202 37.037 0.00 0.00 0.00 2.57
4755 5465 3.490348 CCATTCAGGTCAGTCCAAAACT 58.510 45.455 0.00 0.00 39.44 2.66
4801 5511 6.327386 AGGAGCAATCCAGTAAATTTCCTA 57.673 37.500 0.00 0.00 31.11 2.94
4855 5565 7.827701 TCTCTTCACTACGAATAGAACACAAT 58.172 34.615 0.00 0.00 34.78 2.71
4863 5573 6.316640 TCTCAGGTTCTCTTCACTACGAATAG 59.683 42.308 0.00 0.00 31.69 1.73
4912 5622 1.969923 CCTTCCAAAGCATTTCCACCA 59.030 47.619 0.00 0.00 35.03 4.17
5006 5716 8.594881 ATCAGATGATTTGGTTAGTCGATAAC 57.405 34.615 0.00 0.00 42.68 1.89
5205 5915 9.489084 TGTCAATTCGAATTCCTTATATACTGG 57.511 33.333 20.31 5.20 0.00 4.00
5265 5975 4.096682 ACTTAGGTCGATAACTGACTCTGC 59.903 45.833 0.00 0.00 36.58 4.26
5380 6090 6.700960 TGGACAAAATGCAGTTAACATTCAAG 59.299 34.615 8.61 0.00 36.74 3.02
5432 6142 1.800586 CAGCACGTCTACAGCAATTGT 59.199 47.619 7.40 0.00 43.96 2.71
5438 6148 1.080501 TGAGCAGCACGTCTACAGC 60.081 57.895 0.00 0.00 0.00 4.40
5480 6191 3.812053 ACTCGAATGGCAGCAGAAATATC 59.188 43.478 0.00 0.00 0.00 1.63
5525 6236 9.519432 AATGTGATCATGGCAATTCATGCATGA 62.519 37.037 25.42 25.42 46.58 3.07
5526 6237 7.455836 AATGTGATCATGGCAATTCATGCATG 61.456 38.462 21.07 21.07 44.42 4.06
5527 6238 5.454613 AATGTGATCATGGCAATTCATGCAT 60.455 36.000 0.00 0.00 44.42 3.96
5528 6239 4.141824 AATGTGATCATGGCAATTCATGCA 60.142 37.500 0.00 0.00 44.42 3.96
5529 6240 4.211164 CAATGTGATCATGGCAATTCATGC 59.789 41.667 0.00 0.00 43.04 4.06
5530 6241 4.749598 CCAATGTGATCATGGCAATTCATG 59.250 41.667 0.00 1.56 44.20 3.07
5531 6242 4.407621 ACCAATGTGATCATGGCAATTCAT 59.592 37.500 12.81 0.13 34.19 2.57
5532 6243 3.770388 ACCAATGTGATCATGGCAATTCA 59.230 39.130 12.81 0.00 34.19 2.57
5534 6245 3.516300 ACACCAATGTGATCATGGCAATT 59.484 39.130 12.81 0.48 45.76 2.32
5535 6246 3.101437 ACACCAATGTGATCATGGCAAT 58.899 40.909 12.81 0.00 45.76 3.56
5565 9589 1.302431 CATGGCAACTCGTCCCACA 60.302 57.895 0.00 0.00 37.61 4.17
5617 9641 3.265221 ACAGAGGAAGGAGAATTCATGCA 59.735 43.478 8.44 0.00 0.00 3.96
5720 9747 6.659242 AGGTCAGGACGAATCAAAACATATTT 59.341 34.615 0.00 0.00 0.00 1.40
5729 9756 3.260632 TCATTGAGGTCAGGACGAATCAA 59.739 43.478 12.58 12.58 35.21 2.57
5730 9757 2.831526 TCATTGAGGTCAGGACGAATCA 59.168 45.455 0.00 0.00 0.00 2.57
5791 9818 2.962421 ACAAATTTGGAAGGAGCGGAAA 59.038 40.909 21.74 0.00 0.00 3.13
5823 9850 4.030452 GCACGCCAACAGACCAGC 62.030 66.667 0.00 0.00 0.00 4.85
5854 9881 2.154462 CCAGTCATGGTCAACCTTCAC 58.846 52.381 0.10 0.00 42.17 3.18
5976 10003 4.397832 GGGGCCGCAACCTTCGTA 62.398 66.667 16.21 0.00 0.00 3.43
6133 10167 6.663093 CCTCTCTACATGGTATTAGAGCAGAT 59.337 42.308 11.46 0.00 40.78 2.90
6136 10170 5.953571 TCCTCTCTACATGGTATTAGAGCA 58.046 41.667 11.46 3.25 40.78 4.26
6156 10190 3.744940 TGCATCCCAAATCTTCTTCCT 57.255 42.857 0.00 0.00 0.00 3.36
6157 10191 3.766051 AGTTGCATCCCAAATCTTCTTCC 59.234 43.478 0.00 0.00 34.68 3.46
6259 10293 6.484977 CCTAAATCCTCTCAACTAATGGCTTC 59.515 42.308 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.