Multiple sequence alignment - TraesCS2B01G344200

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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 TraesCS2B01G344200 chr2B 100.000 4805 0 0 1 4805 490870323 490865519 0.000000e+00 8874.0
1 TraesCS2B01G344200 chr2B 95.895 609 21 2 4199 4805 262902530 262903136 0.000000e+00 983.0
2 TraesCS2B01G344200 chr2D 92.919 4152 179 38 101 4175 418778135 418774022 0.000000e+00 5932.0
3 TraesCS2B01G344200 chr2A 92.178 3784 200 35 243 3978 571463002 571466737 0.000000e+00 5260.0
4 TraesCS2B01G344200 chr2A 93.488 215 8 3 3966 4175 571466896 571467109 1.000000e-81 315.0
5 TraesCS2B01G344200 chr2A 90.909 165 14 1 88 251 571462063 571462227 2.250000e-53 220.0
6 TraesCS2B01G344200 chr2A 82.716 81 12 2 22 101 757977710 757977631 2.400000e-08 71.3
7 TraesCS2B01G344200 chr4A 95.738 610 21 3 4199 4805 137546899 137546292 0.000000e+00 977.0
8 TraesCS2B01G344200 chr5B 95.574 610 22 4 4199 4805 492404321 492404928 0.000000e+00 972.0
9 TraesCS2B01G344200 chr5B 79.688 128 20 5 3 127 74637637 74637761 2.380000e-13 87.9
10 TraesCS2B01G344200 chr5A 95.567 609 23 2 4199 4805 504755275 504754669 0.000000e+00 972.0
11 TraesCS2B01G344200 chr3A 95.567 609 23 2 4199 4805 606377594 606378200 0.000000e+00 972.0
12 TraesCS2B01G344200 chr3A 100.000 32 0 0 65 96 486594361 486594392 5.190000e-05 60.2
13 TraesCS2B01G344200 chr3A 100.000 31 0 0 66 96 484579166 484579136 1.870000e-04 58.4
14 TraesCS2B01G344200 chr7B 95.567 609 22 3 4199 4805 94807126 94806521 0.000000e+00 970.0
15 TraesCS2B01G344200 chr7B 94.231 624 32 4 4184 4805 668360611 668361232 0.000000e+00 950.0
16 TraesCS2B01G344200 chr4B 95.417 611 21 4 4199 4805 409748874 409748267 0.000000e+00 966.0
17 TraesCS2B01G344200 chr1B 95.074 609 26 2 4199 4805 685638609 685639215 0.000000e+00 955.0
18 TraesCS2B01G344200 chr5D 83.721 129 16 4 1 127 68697584 68697709 3.040000e-22 117.0


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 TraesCS2B01G344200 chr2B 490865519 490870323 4804 True 8874.000000 8874 100.000000 1 4805 1 chr2B.!!$R1 4804
1 TraesCS2B01G344200 chr2B 262902530 262903136 606 False 983.000000 983 95.895000 4199 4805 1 chr2B.!!$F1 606
2 TraesCS2B01G344200 chr2D 418774022 418778135 4113 True 5932.000000 5932 92.919000 101 4175 1 chr2D.!!$R1 4074
3 TraesCS2B01G344200 chr2A 571462063 571467109 5046 False 1931.666667 5260 92.191667 88 4175 3 chr2A.!!$F1 4087
4 TraesCS2B01G344200 chr4A 137546292 137546899 607 True 977.000000 977 95.738000 4199 4805 1 chr4A.!!$R1 606
5 TraesCS2B01G344200 chr5B 492404321 492404928 607 False 972.000000 972 95.574000 4199 4805 1 chr5B.!!$F2 606
6 TraesCS2B01G344200 chr5A 504754669 504755275 606 True 972.000000 972 95.567000 4199 4805 1 chr5A.!!$R1 606
7 TraesCS2B01G344200 chr3A 606377594 606378200 606 False 972.000000 972 95.567000 4199 4805 1 chr3A.!!$F2 606
8 TraesCS2B01G344200 chr7B 94806521 94807126 605 True 970.000000 970 95.567000 4199 4805 1 chr7B.!!$R1 606
9 TraesCS2B01G344200 chr7B 668360611 668361232 621 False 950.000000 950 94.231000 4184 4805 1 chr7B.!!$F1 621
10 TraesCS2B01G344200 chr4B 409748267 409748874 607 True 966.000000 966 95.417000 4199 4805 1 chr4B.!!$R1 606
11 TraesCS2B01G344200 chr1B 685638609 685639215 606 False 955.000000 955 95.074000 4199 4805 1 chr1B.!!$F1 606

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
30 31 0.034186 AGATTTGCCATGCTCGGGAA 60.034 50.000 0.00 0.0 34.11 3.97 F
37 38 0.036010 CCATGCTCGGGAACTGAACT 60.036 55.000 0.00 0.0 46.55 3.01 F
693 1488 0.036105 TGAATCTGACCGCACATGCT 60.036 50.000 1.82 0.0 39.32 3.79 F
1491 2322 0.105964 TCGTCCTTGTGGTGTTCCTG 59.894 55.000 0.00 0.0 34.23 3.86 F
1674 2505 0.108520 GGCCGAAAGATGACGTACCA 60.109 55.000 0.00 0.0 0.00 3.25 F
2624 3482 1.002134 CTCCCTCGGCAACCATGTT 60.002 57.895 0.00 0.0 0.00 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1121 1940 0.183492 AATGCCACCACCGCTATGAT 59.817 50.000 0.00 0.00 0.00 2.45 R
1866 2697 1.210967 TCCTTCATTTTATCCGCGGGT 59.789 47.619 27.83 23.47 0.00 5.28 R
2517 3375 0.179062 ATCTGCTCGTCCAATCTGCC 60.179 55.000 0.00 0.00 0.00 4.85 R
2637 3495 0.330604 ATGGTGATGTTCTGCAGCCT 59.669 50.000 9.47 0.00 31.34 4.58 R
2657 3515 0.389817 CGTTCACCGCCTTCATGAGA 60.390 55.000 0.00 0.00 0.00 3.27 R
4182 5235 0.529992 GCAGTTAGCGGCGTCCTTAT 60.530 55.000 9.37 0.00 0.00 1.73 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
22 23 5.319140 TGAATTGAGTCAGATTTGCCATG 57.681 39.130 0.00 0.00 0.00 3.66
23 24 3.795623 ATTGAGTCAGATTTGCCATGC 57.204 42.857 0.00 0.00 0.00 4.06
24 25 2.502142 TGAGTCAGATTTGCCATGCT 57.498 45.000 0.00 0.00 0.00 3.79
25 26 2.362736 TGAGTCAGATTTGCCATGCTC 58.637 47.619 0.00 0.00 0.00 4.26
26 27 1.329906 GAGTCAGATTTGCCATGCTCG 59.670 52.381 0.00 0.00 0.00 5.03
27 28 0.379669 GTCAGATTTGCCATGCTCGG 59.620 55.000 0.00 0.00 0.00 4.63
28 29 0.749091 TCAGATTTGCCATGCTCGGG 60.749 55.000 0.00 0.00 0.00 5.14
29 30 0.749091 CAGATTTGCCATGCTCGGGA 60.749 55.000 0.00 0.00 0.00 5.14
30 31 0.034186 AGATTTGCCATGCTCGGGAA 60.034 50.000 0.00 0.00 34.11 3.97
31 32 0.101219 GATTTGCCATGCTCGGGAAC 59.899 55.000 0.00 0.00 35.92 3.62
32 33 0.323725 ATTTGCCATGCTCGGGAACT 60.324 50.000 0.00 0.00 35.92 3.01
33 34 1.243342 TTTGCCATGCTCGGGAACTG 61.243 55.000 0.00 0.00 35.92 3.16
34 35 2.123248 TTGCCATGCTCGGGAACTGA 62.123 55.000 0.00 0.00 44.24 3.41
35 36 1.377202 GCCATGCTCGGGAACTGAA 60.377 57.895 0.00 0.00 46.55 3.02
36 37 1.648467 GCCATGCTCGGGAACTGAAC 61.648 60.000 0.00 0.00 46.55 3.18
37 38 0.036010 CCATGCTCGGGAACTGAACT 60.036 55.000 0.00 0.00 46.55 3.01
38 39 1.611673 CCATGCTCGGGAACTGAACTT 60.612 52.381 0.00 0.00 46.55 2.66
39 40 1.466167 CATGCTCGGGAACTGAACTTG 59.534 52.381 0.00 0.00 46.55 3.16
40 41 0.884704 TGCTCGGGAACTGAACTTGC 60.885 55.000 0.00 0.00 46.55 4.01
41 42 1.578206 GCTCGGGAACTGAACTTGCC 61.578 60.000 0.00 0.00 46.55 4.52
42 43 0.250295 CTCGGGAACTGAACTTGCCA 60.250 55.000 0.00 0.00 46.55 4.92
43 44 0.400213 TCGGGAACTGAACTTGCCAT 59.600 50.000 0.00 0.00 43.00 4.40
44 45 0.804989 CGGGAACTGAACTTGCCATC 59.195 55.000 0.00 0.00 36.31 3.51
45 46 1.177401 GGGAACTGAACTTGCCATCC 58.823 55.000 0.00 0.00 32.00 3.51
46 47 1.272147 GGGAACTGAACTTGCCATCCT 60.272 52.381 0.00 0.00 32.00 3.24
47 48 2.087646 GGAACTGAACTTGCCATCCTC 58.912 52.381 0.00 0.00 0.00 3.71
48 49 1.734465 GAACTGAACTTGCCATCCTCG 59.266 52.381 0.00 0.00 0.00 4.63
49 50 0.036010 ACTGAACTTGCCATCCTCGG 60.036 55.000 0.00 0.00 0.00 4.63
58 59 3.853104 CCATCCTCGGCTAACACAA 57.147 52.632 0.00 0.00 0.00 3.33
59 60 1.369625 CCATCCTCGGCTAACACAAC 58.630 55.000 0.00 0.00 0.00 3.32
60 61 1.066143 CCATCCTCGGCTAACACAACT 60.066 52.381 0.00 0.00 0.00 3.16
61 62 2.615493 CCATCCTCGGCTAACACAACTT 60.615 50.000 0.00 0.00 0.00 2.66
62 63 2.163818 TCCTCGGCTAACACAACTTG 57.836 50.000 0.00 0.00 0.00 3.16
63 64 0.517316 CCTCGGCTAACACAACTTGC 59.483 55.000 0.00 0.00 0.00 4.01
64 65 0.517316 CTCGGCTAACACAACTTGCC 59.483 55.000 0.00 0.00 40.14 4.52
65 66 0.179043 TCGGCTAACACAACTTGCCA 60.179 50.000 0.00 0.00 43.38 4.92
66 67 0.881118 CGGCTAACACAACTTGCCAT 59.119 50.000 0.00 0.00 43.38 4.40
67 68 1.401409 CGGCTAACACAACTTGCCATG 60.401 52.381 0.00 0.00 43.38 3.66
68 69 1.885887 GGCTAACACAACTTGCCATGA 59.114 47.619 0.00 0.00 42.79 3.07
69 70 2.295909 GGCTAACACAACTTGCCATGAA 59.704 45.455 0.00 0.00 42.79 2.57
70 71 3.243704 GGCTAACACAACTTGCCATGAAA 60.244 43.478 0.00 0.00 42.79 2.69
71 72 4.367450 GCTAACACAACTTGCCATGAAAA 58.633 39.130 0.00 0.00 0.00 2.29
72 73 4.808364 GCTAACACAACTTGCCATGAAAAA 59.192 37.500 0.00 0.00 0.00 1.94
73 74 5.276820 GCTAACACAACTTGCCATGAAAAAC 60.277 40.000 0.00 0.00 0.00 2.43
74 75 3.186119 ACACAACTTGCCATGAAAAACG 58.814 40.909 0.00 0.00 0.00 3.60
75 76 3.186119 CACAACTTGCCATGAAAAACGT 58.814 40.909 0.00 0.00 0.00 3.99
76 77 3.616379 CACAACTTGCCATGAAAAACGTT 59.384 39.130 0.00 0.00 0.00 3.99
77 78 4.092675 CACAACTTGCCATGAAAAACGTTT 59.907 37.500 7.96 7.96 0.00 3.60
78 79 4.092675 ACAACTTGCCATGAAAAACGTTTG 59.907 37.500 15.46 1.72 0.00 2.93
79 80 4.116747 ACTTGCCATGAAAAACGTTTGA 57.883 36.364 15.46 2.09 0.00 2.69
80 81 4.692228 ACTTGCCATGAAAAACGTTTGAT 58.308 34.783 15.46 6.81 0.00 2.57
81 82 5.115480 ACTTGCCATGAAAAACGTTTGATT 58.885 33.333 15.46 5.94 0.00 2.57
82 83 5.584251 ACTTGCCATGAAAAACGTTTGATTT 59.416 32.000 15.46 5.13 0.00 2.17
83 84 5.401033 TGCCATGAAAAACGTTTGATTTG 57.599 34.783 15.46 10.27 0.00 2.32
84 85 4.872691 TGCCATGAAAAACGTTTGATTTGT 59.127 33.333 15.46 0.00 0.00 2.83
85 86 5.006165 TGCCATGAAAAACGTTTGATTTGTC 59.994 36.000 15.46 6.27 0.00 3.18
86 87 5.006165 GCCATGAAAAACGTTTGATTTGTCA 59.994 36.000 15.46 11.32 0.00 3.58
87 88 6.292811 GCCATGAAAAACGTTTGATTTGTCAT 60.293 34.615 15.46 12.90 0.00 3.06
88 89 7.064674 CCATGAAAAACGTTTGATTTGTCATG 58.935 34.615 23.75 23.75 36.52 3.07
89 90 6.030379 TGAAAAACGTTTGATTTGTCATGC 57.970 33.333 15.46 0.00 0.00 4.06
90 91 5.006165 TGAAAAACGTTTGATTTGTCATGCC 59.994 36.000 15.46 0.00 0.00 4.40
91 92 4.320608 AAACGTTTGATTTGTCATGCCT 57.679 36.364 13.81 0.00 0.00 4.75
94 95 5.446143 ACGTTTGATTTGTCATGCCTAAA 57.554 34.783 0.00 0.00 0.00 1.85
122 123 6.662755 TCTAACATTTGCTGGATATTCAGGT 58.337 36.000 13.10 0.00 35.43 4.00
163 164 2.034532 CCAGTCTGCCACATGCCA 59.965 61.111 0.00 0.00 40.16 4.92
165 166 1.592400 CCAGTCTGCCACATGCCAAG 61.592 60.000 0.00 0.00 40.16 3.61
183 184 1.224039 GGCTCCTGCTTGATCTGCT 59.776 57.895 11.38 0.00 39.59 4.24
197 198 6.683610 GCTTGATCTGCTAATATTGGGCAAAA 60.684 38.462 15.35 9.42 35.49 2.44
223 224 3.555139 GTCTTGAGATGAATCCGAAGCTG 59.445 47.826 0.00 0.00 0.00 4.24
238 239 2.282462 CTGTGGGTTGGCACTCCC 60.282 66.667 17.12 17.12 41.76 4.30
253 1037 0.313987 CTCCCGTTTTCACCCTTTGC 59.686 55.000 0.00 0.00 0.00 3.68
302 1086 2.203070 CCACGCATCCCTGCTACC 60.203 66.667 0.00 0.00 46.65 3.18
326 1113 1.580942 CCACCAATCCAACAGCACG 59.419 57.895 0.00 0.00 0.00 5.34
329 1116 1.106351 ACCAATCCAACAGCACGCAA 61.106 50.000 0.00 0.00 0.00 4.85
343 1130 0.680921 ACGCAAGCTAGGGTACGGTA 60.681 55.000 0.00 0.00 45.62 4.02
344 1131 0.248784 CGCAAGCTAGGGTACGGTAC 60.249 60.000 9.82 9.82 0.00 3.34
358 1147 3.132863 GGTACGGTGCCTTACAGTG 57.867 57.895 8.11 0.00 38.21 3.66
391 1180 2.739704 CGCCTGGCATGTGTACGTG 61.740 63.158 20.29 0.00 36.01 4.49
409 1202 2.671070 CGTGCTAAGCCCAATTCAAACC 60.671 50.000 0.00 0.00 0.00 3.27
410 1203 1.899142 TGCTAAGCCCAATTCAAACCC 59.101 47.619 0.00 0.00 0.00 4.11
443 1236 3.179048 GGCATTGAATCGTTTTACAGGC 58.821 45.455 0.00 0.00 0.00 4.85
499 1292 5.128205 GGTTACCAGTAAAAGGCGGATAAT 58.872 41.667 0.00 0.00 0.00 1.28
512 1305 5.300752 AGGCGGATAATATTGTTGTCTGAG 58.699 41.667 0.00 0.00 0.00 3.35
513 1306 5.070446 AGGCGGATAATATTGTTGTCTGAGA 59.930 40.000 0.00 0.00 0.00 3.27
586 1379 1.959226 GAACTCGCAAAGGGACGCA 60.959 57.895 0.00 0.00 0.00 5.24
610 1403 0.100325 CAAAACCAACAGCAGCGACA 59.900 50.000 0.00 0.00 0.00 4.35
611 1404 0.381801 AAAACCAACAGCAGCGACAG 59.618 50.000 0.00 0.00 0.00 3.51
612 1405 1.447317 AAACCAACAGCAGCGACAGG 61.447 55.000 0.00 0.00 0.00 4.00
613 1406 3.052082 CCAACAGCAGCGACAGGG 61.052 66.667 0.00 0.00 0.00 4.45
614 1407 2.281070 CAACAGCAGCGACAGGGT 60.281 61.111 0.00 0.00 0.00 4.34
629 1424 2.812011 ACAGGGTGACGCAATAGAAAAC 59.188 45.455 1.61 0.00 0.00 2.43
663 1458 6.528537 TCCGTGCCTAACTGTTTTACTATA 57.471 37.500 0.00 0.00 0.00 1.31
664 1459 6.332630 TCCGTGCCTAACTGTTTTACTATAC 58.667 40.000 0.00 0.00 0.00 1.47
665 1460 6.153340 TCCGTGCCTAACTGTTTTACTATACT 59.847 38.462 0.00 0.00 0.00 2.12
666 1461 7.339212 TCCGTGCCTAACTGTTTTACTATACTA 59.661 37.037 0.00 0.00 0.00 1.82
667 1462 7.433425 CCGTGCCTAACTGTTTTACTATACTAC 59.567 40.741 0.00 0.00 0.00 2.73
668 1463 8.186821 CGTGCCTAACTGTTTTACTATACTACT 58.813 37.037 0.00 0.00 0.00 2.57
692 1487 0.804364 TTGAATCTGACCGCACATGC 59.196 50.000 0.00 0.00 37.78 4.06
693 1488 0.036105 TGAATCTGACCGCACATGCT 60.036 50.000 1.82 0.00 39.32 3.79
694 1489 0.376152 GAATCTGACCGCACATGCTG 59.624 55.000 1.82 0.00 39.32 4.41
695 1490 1.651240 AATCTGACCGCACATGCTGC 61.651 55.000 1.82 9.41 43.21 5.25
703 1498 1.665599 GCACATGCTGCCACAAACC 60.666 57.895 8.54 0.00 40.42 3.27
730 1525 2.981859 ACCAGTTCAAACTCGAGTGT 57.018 45.000 20.85 11.54 37.08 3.55
746 1541 3.735208 CGAGTGTCATTGACGCCTATCTT 60.735 47.826 23.17 6.94 43.20 2.40
755 1550 4.244425 TGACGCCTATCTTAGCTGATTC 57.756 45.455 0.00 0.00 0.00 2.52
757 1552 4.342378 TGACGCCTATCTTAGCTGATTCTT 59.658 41.667 0.00 0.00 0.00 2.52
759 1554 4.586841 ACGCCTATCTTAGCTGATTCTTCT 59.413 41.667 0.00 0.00 0.00 2.85
760 1555 5.770663 ACGCCTATCTTAGCTGATTCTTCTA 59.229 40.000 0.00 0.00 0.00 2.10
920 1724 3.041940 GTGCGTACGTGCCTGCTT 61.042 61.111 17.90 0.00 0.00 3.91
970 1774 4.382470 GCAGCTCTTCTACCAAATCAGAGA 60.382 45.833 0.00 0.00 34.06 3.10
971 1775 5.108517 CAGCTCTTCTACCAAATCAGAGAC 58.891 45.833 0.00 0.00 34.06 3.36
977 1781 4.433615 TCTACCAAATCAGAGACGCATTC 58.566 43.478 0.00 0.00 0.00 2.67
982 1786 1.786937 ATCAGAGACGCATTCCCTCT 58.213 50.000 0.00 0.00 37.74 3.69
984 1788 1.478510 TCAGAGACGCATTCCCTCTTC 59.521 52.381 0.00 0.00 35.28 2.87
990 1794 1.147153 GCATTCCCTCTTCCCTCCG 59.853 63.158 0.00 0.00 0.00 4.63
1057 1876 1.096416 CGGTAGACGCCTCTTCTTCT 58.904 55.000 0.00 0.00 34.82 2.85
1065 1884 1.335964 CGCCTCTTCTTCTTCGTGTCA 60.336 52.381 0.00 0.00 0.00 3.58
1066 1885 2.062519 GCCTCTTCTTCTTCGTGTCAC 58.937 52.381 0.00 0.00 0.00 3.67
1115 1934 3.532155 CGGCGAGGAGAAGGGAGG 61.532 72.222 0.00 0.00 0.00 4.30
1121 1940 1.617263 CGAGGAGAAGGGAGGTCAAGA 60.617 57.143 0.00 0.00 0.00 3.02
1123 1942 2.698274 GAGGAGAAGGGAGGTCAAGATC 59.302 54.545 0.00 0.00 0.00 2.75
1126 1945 4.078336 AGGAGAAGGGAGGTCAAGATCATA 60.078 45.833 0.00 0.00 0.00 2.15
1128 1947 3.645687 AGAAGGGAGGTCAAGATCATAGC 59.354 47.826 0.00 0.00 0.00 2.97
1138 1957 1.146041 GATCATAGCGGTGGTGGCA 59.854 57.895 0.00 0.00 0.00 4.92
1311 2142 4.724697 CACAAGAACGCGCGCCTG 62.725 66.667 32.58 22.86 0.00 4.85
1491 2322 0.105964 TCGTCCTTGTGGTGTTCCTG 59.894 55.000 0.00 0.00 34.23 3.86
1617 2448 4.201679 CCGTACATCGAGGCCGCA 62.202 66.667 7.44 0.00 42.86 5.69
1621 2452 3.365291 TACATCGAGGCCGCACACC 62.365 63.158 7.44 0.00 35.37 4.16
1674 2505 0.108520 GGCCGAAAGATGACGTACCA 60.109 55.000 0.00 0.00 0.00 3.25
1680 2511 1.076332 AAGATGACGTACCAAAGCGC 58.924 50.000 0.00 0.00 0.00 5.92
1764 2595 1.023513 GCTGCTTCAACTCCTCGCAT 61.024 55.000 0.00 0.00 0.00 4.73
1866 2697 4.745116 AGCTCTGCTCCTACGACA 57.255 55.556 0.00 0.00 30.62 4.35
1886 2717 1.210967 ACCCGCGGATAAAATGAAGGA 59.789 47.619 30.73 0.00 0.00 3.36
2148 2979 1.864559 ACCACCTCCTCCTCCTCCT 60.865 63.158 0.00 0.00 0.00 3.69
2149 2980 1.075600 CCACCTCCTCCTCCTCCTC 60.076 68.421 0.00 0.00 0.00 3.71
2150 2981 1.454847 CACCTCCTCCTCCTCCTCG 60.455 68.421 0.00 0.00 0.00 4.63
2624 3482 1.002134 CTCCCTCGGCAACCATGTT 60.002 57.895 0.00 0.00 0.00 2.71
2657 3515 1.180029 GGCTGCAGAACATCACCATT 58.820 50.000 20.43 0.00 0.00 3.16
2699 3557 1.878522 CGCCGAGCAAATCTACGCT 60.879 57.895 0.00 0.00 42.42 5.07
2785 3648 2.374839 TGGTGGTGATCCTTGATTGACA 59.625 45.455 0.00 0.00 34.23 3.58
2818 3681 2.627699 GGTTTGGTTGCTGGATCTTTGA 59.372 45.455 0.00 0.00 0.00 2.69
2831 3694 3.118371 GGATCTTTGATACAGGGAACGGT 60.118 47.826 0.00 0.00 42.94 4.83
2832 3695 4.514401 GATCTTTGATACAGGGAACGGTT 58.486 43.478 0.00 0.00 40.14 4.44
2933 3796 1.377463 CGTCGAGAGTCTGGTCCCT 60.377 63.158 0.00 0.00 0.00 4.20
2990 3853 2.430244 GCCTTCGCACGAGTCGAA 60.430 61.111 21.50 1.46 42.74 3.71
3050 3913 0.317160 ACATCAGGAAGTCGTTCGCA 59.683 50.000 0.00 0.00 32.92 5.10
3073 3936 3.348151 TCGAGGTGAGAACTGAGCT 57.652 52.632 0.00 0.00 0.00 4.09
3074 3937 1.621992 TCGAGGTGAGAACTGAGCTT 58.378 50.000 0.00 0.00 0.00 3.74
3084 3952 1.467734 GAACTGAGCTTGACATGCCAG 59.532 52.381 20.40 20.40 35.97 4.85
3107 3975 2.280524 TACTGTTGCAACCGCGCT 60.281 55.556 26.14 7.41 42.97 5.92
3109 3977 1.011968 TACTGTTGCAACCGCGCTAG 61.012 55.000 26.14 17.39 42.97 3.42
3110 3978 2.280524 TGTTGCAACCGCGCTAGT 60.281 55.556 26.14 0.00 42.97 2.57
3111 3979 2.227968 CTGTTGCAACCGCGCTAGTC 62.228 60.000 26.14 0.00 42.97 2.59
3117 3985 1.731969 AACCGCGCTAGTCGTTCAC 60.732 57.895 5.56 0.00 41.07 3.18
3126 3994 3.059570 CGCTAGTCGTTCACTGACATTTC 59.940 47.826 0.00 0.00 38.83 2.17
3130 3998 3.489785 AGTCGTTCACTGACATTTCGTTC 59.510 43.478 0.00 0.00 38.83 3.95
3131 3999 3.244345 GTCGTTCACTGACATTTCGTTCA 59.756 43.478 0.00 0.00 36.37 3.18
3198 4068 0.103755 TCATGAAGCTGCTAGAGGCG 59.896 55.000 0.90 0.00 45.43 5.52
3339 4209 1.374758 GCACTTCGTGGTCCAGGAG 60.375 63.158 13.73 10.76 33.64 3.69
3392 4262 2.105128 CGAGGGGACAGACATCGC 59.895 66.667 0.00 0.00 0.00 4.58
3642 4512 4.087892 CTGGGCCACGTCAGGGAG 62.088 72.222 0.00 0.00 0.00 4.30
3817 4688 7.492020 TGAATAATGTATGATGCTTGGTTTTGC 59.508 33.333 0.00 0.00 0.00 3.68
3823 4694 0.031994 ATGCTTGGTTTTGCGTGGTC 59.968 50.000 0.00 0.00 0.00 4.02
3919 4796 9.551734 TTGAAGATTGAGATGTATAGTTGATGG 57.448 33.333 0.00 0.00 0.00 3.51
3938 4815 1.561542 GGGTTGATCACTCACTGGGAT 59.438 52.381 0.00 0.00 42.46 3.85
3964 4841 3.058016 ACAAGATGATGTTTGAACTGGCG 60.058 43.478 0.00 0.00 0.00 5.69
4013 5060 4.342665 GTGTTTGTCCCCTTGTTTATTCCA 59.657 41.667 0.00 0.00 0.00 3.53
4047 5094 2.158711 TGCCCATATCTCTTTCTGCAGG 60.159 50.000 15.13 0.00 0.00 4.85
4107 5154 0.668706 CAGAGTCCCACGTGCAGAAG 60.669 60.000 10.91 0.00 0.00 2.85
4154 5202 0.037882 TGCCTCGTGCTCTTTCAGAG 60.038 55.000 0.00 0.00 45.04 3.35
4234 5287 2.027192 GTGTGATGCCTAAGAGGACCAA 60.027 50.000 0.00 0.00 37.67 3.67
4336 5389 3.192466 GTGTGGGCGAAATAGATAACGT 58.808 45.455 0.00 0.00 0.00 3.99
4387 5442 0.876777 CCACGTGACACTTTACCGCA 60.877 55.000 19.30 0.00 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.767673 AGCATGGCAAATCTGACTCAATT 59.232 39.130 0.00 0.00 0.00 2.32
3 4 3.362706 AGCATGGCAAATCTGACTCAAT 58.637 40.909 0.00 0.00 0.00 2.57
4 5 2.751259 GAGCATGGCAAATCTGACTCAA 59.249 45.455 0.00 0.00 0.00 3.02
6 7 1.329906 CGAGCATGGCAAATCTGACTC 59.670 52.381 0.00 0.00 0.00 3.36
7 8 1.376543 CGAGCATGGCAAATCTGACT 58.623 50.000 0.00 0.00 0.00 3.41
8 9 0.379669 CCGAGCATGGCAAATCTGAC 59.620 55.000 0.00 0.00 0.00 3.51
9 10 0.749091 CCCGAGCATGGCAAATCTGA 60.749 55.000 0.00 0.00 0.00 3.27
10 11 0.749091 TCCCGAGCATGGCAAATCTG 60.749 55.000 0.00 0.00 0.00 2.90
11 12 0.034186 TTCCCGAGCATGGCAAATCT 60.034 50.000 0.00 0.00 0.00 2.40
12 13 0.101219 GTTCCCGAGCATGGCAAATC 59.899 55.000 0.00 0.00 0.00 2.17
13 14 0.323725 AGTTCCCGAGCATGGCAAAT 60.324 50.000 0.00 0.00 0.00 2.32
14 15 1.074775 AGTTCCCGAGCATGGCAAA 59.925 52.632 0.00 0.00 0.00 3.68
15 16 1.675310 CAGTTCCCGAGCATGGCAA 60.675 57.895 0.00 0.00 0.00 4.52
16 17 2.046023 CAGTTCCCGAGCATGGCA 60.046 61.111 0.00 0.00 0.00 4.92
17 18 1.377202 TTCAGTTCCCGAGCATGGC 60.377 57.895 0.00 0.00 0.00 4.40
18 19 0.036010 AGTTCAGTTCCCGAGCATGG 60.036 55.000 0.00 0.00 0.00 3.66
19 20 1.466167 CAAGTTCAGTTCCCGAGCATG 59.534 52.381 0.00 0.00 0.00 4.06
20 21 1.813513 CAAGTTCAGTTCCCGAGCAT 58.186 50.000 0.00 0.00 0.00 3.79
21 22 0.884704 GCAAGTTCAGTTCCCGAGCA 60.885 55.000 0.00 0.00 0.00 4.26
22 23 1.578206 GGCAAGTTCAGTTCCCGAGC 61.578 60.000 0.00 0.00 0.00 5.03
23 24 0.250295 TGGCAAGTTCAGTTCCCGAG 60.250 55.000 0.00 0.00 0.00 4.63
24 25 0.400213 ATGGCAAGTTCAGTTCCCGA 59.600 50.000 0.00 0.00 0.00 5.14
25 26 0.804989 GATGGCAAGTTCAGTTCCCG 59.195 55.000 0.00 0.00 0.00 5.14
26 27 1.177401 GGATGGCAAGTTCAGTTCCC 58.823 55.000 0.00 0.00 0.00 3.97
27 28 2.087646 GAGGATGGCAAGTTCAGTTCC 58.912 52.381 0.00 0.00 0.00 3.62
28 29 1.734465 CGAGGATGGCAAGTTCAGTTC 59.266 52.381 0.00 0.00 0.00 3.01
29 30 1.611673 CCGAGGATGGCAAGTTCAGTT 60.612 52.381 0.00 0.00 0.00 3.16
30 31 0.036010 CCGAGGATGGCAAGTTCAGT 60.036 55.000 0.00 0.00 0.00 3.41
31 32 2.772739 CCGAGGATGGCAAGTTCAG 58.227 57.895 0.00 0.00 0.00 3.02
40 41 1.066143 AGTTGTGTTAGCCGAGGATGG 60.066 52.381 0.00 0.00 0.00 3.51
41 42 2.386661 AGTTGTGTTAGCCGAGGATG 57.613 50.000 0.00 0.00 0.00 3.51
42 43 2.699954 CAAGTTGTGTTAGCCGAGGAT 58.300 47.619 0.00 0.00 0.00 3.24
43 44 1.876416 GCAAGTTGTGTTAGCCGAGGA 60.876 52.381 4.48 0.00 0.00 3.71
44 45 0.517316 GCAAGTTGTGTTAGCCGAGG 59.483 55.000 4.48 0.00 0.00 4.63
45 46 0.517316 GGCAAGTTGTGTTAGCCGAG 59.483 55.000 4.48 0.00 35.42 4.63
46 47 2.624169 GGCAAGTTGTGTTAGCCGA 58.376 52.632 4.48 0.00 35.42 5.54
48 49 1.885887 TCATGGCAAGTTGTGTTAGCC 59.114 47.619 4.48 0.00 45.41 3.93
49 50 3.641437 TTCATGGCAAGTTGTGTTAGC 57.359 42.857 4.48 0.00 0.00 3.09
50 51 5.051774 CGTTTTTCATGGCAAGTTGTGTTAG 60.052 40.000 4.48 0.00 0.00 2.34
51 52 4.800993 CGTTTTTCATGGCAAGTTGTGTTA 59.199 37.500 4.48 0.00 0.00 2.41
52 53 3.616379 CGTTTTTCATGGCAAGTTGTGTT 59.384 39.130 4.48 0.00 0.00 3.32
53 54 3.186119 CGTTTTTCATGGCAAGTTGTGT 58.814 40.909 4.48 0.00 0.00 3.72
54 55 3.186119 ACGTTTTTCATGGCAAGTTGTG 58.814 40.909 4.48 0.00 0.00 3.33
55 56 3.518634 ACGTTTTTCATGGCAAGTTGT 57.481 38.095 4.48 0.00 0.00 3.32
56 57 4.328440 TCAAACGTTTTTCATGGCAAGTTG 59.672 37.500 11.66 0.00 0.00 3.16
57 58 4.499183 TCAAACGTTTTTCATGGCAAGTT 58.501 34.783 11.66 0.00 0.00 2.66
58 59 4.116747 TCAAACGTTTTTCATGGCAAGT 57.883 36.364 11.66 0.00 0.00 3.16
59 60 5.655893 AATCAAACGTTTTTCATGGCAAG 57.344 34.783 11.66 0.00 0.00 4.01
60 61 5.352569 ACAAATCAAACGTTTTTCATGGCAA 59.647 32.000 11.66 0.00 0.00 4.52
61 62 4.872691 ACAAATCAAACGTTTTTCATGGCA 59.127 33.333 11.66 0.00 0.00 4.92
62 63 5.006165 TGACAAATCAAACGTTTTTCATGGC 59.994 36.000 11.66 11.16 0.00 4.40
63 64 6.580963 TGACAAATCAAACGTTTTTCATGG 57.419 33.333 11.66 0.00 0.00 3.66
64 65 6.570789 GCATGACAAATCAAACGTTTTTCATG 59.429 34.615 22.68 22.68 46.39 3.07
65 66 6.292811 GGCATGACAAATCAAACGTTTTTCAT 60.293 34.615 11.66 9.41 38.69 2.57
66 67 5.006165 GGCATGACAAATCAAACGTTTTTCA 59.994 36.000 11.66 7.59 38.69 2.69
67 68 5.234116 AGGCATGACAAATCAAACGTTTTTC 59.766 36.000 11.66 2.16 38.69 2.29
68 69 5.115480 AGGCATGACAAATCAAACGTTTTT 58.885 33.333 11.66 0.93 38.69 1.94
69 70 4.692228 AGGCATGACAAATCAAACGTTTT 58.308 34.783 11.66 0.00 38.69 2.43
70 71 4.320608 AGGCATGACAAATCAAACGTTT 57.679 36.364 7.96 7.96 38.69 3.60
71 72 5.446143 TTAGGCATGACAAATCAAACGTT 57.554 34.783 0.00 0.00 38.69 3.99
72 73 5.446143 TTTAGGCATGACAAATCAAACGT 57.554 34.783 0.00 0.00 38.69 3.99
73 74 6.761731 TTTTTAGGCATGACAAATCAAACG 57.238 33.333 0.00 0.00 38.69 3.60
103 104 3.635373 AGCACCTGAATATCCAGCAAATG 59.365 43.478 0.00 0.00 32.97 2.32
122 123 3.706594 CCAGGTTCAGGTAAGATCTAGCA 59.293 47.826 0.00 0.00 0.00 3.49
163 164 0.394080 GCAGATCAAGCAGGAGCCTT 60.394 55.000 5.41 0.00 43.56 4.35
165 166 0.467384 TAGCAGATCAAGCAGGAGCC 59.533 55.000 11.97 0.00 43.56 4.70
183 184 7.395772 TCTCAAGACATGTTTTGCCCAATATTA 59.604 33.333 21.19 3.38 0.00 0.98
197 198 4.743057 TCGGATTCATCTCAAGACATGT 57.257 40.909 0.00 0.00 0.00 3.21
223 224 3.785122 AACGGGAGTGCCAACCCAC 62.785 63.158 0.08 0.00 46.69 4.61
238 239 4.626225 CCGCAAAGGGTGAAAACG 57.374 55.556 0.00 0.00 35.97 3.60
253 1037 1.595093 GGTTGGGAATTGAGTGCCCG 61.595 60.000 0.00 0.00 45.08 6.13
302 1086 1.475280 CTGTTGGATTGGTGGCATCTG 59.525 52.381 0.00 0.00 0.00 2.90
326 1113 0.248784 CGTACCGTACCCTAGCTTGC 60.249 60.000 3.04 0.00 0.00 4.01
329 1116 0.749454 CACCGTACCGTACCCTAGCT 60.749 60.000 3.04 0.00 0.00 3.32
343 1130 0.179468 AACACACTGTAAGGCACCGT 59.821 50.000 0.00 0.00 39.30 4.83
344 1131 1.305201 AAACACACTGTAAGGCACCG 58.695 50.000 0.00 0.00 39.30 4.94
345 1132 4.904253 TTAAAACACACTGTAAGGCACC 57.096 40.909 0.00 0.00 39.30 5.01
346 1133 5.642686 TGTTTAAAACACACTGTAAGGCAC 58.357 37.500 0.00 0.00 35.35 5.01
347 1134 5.899120 TGTTTAAAACACACTGTAAGGCA 57.101 34.783 0.00 0.00 35.35 4.75
374 1163 3.039202 GCACGTACACATGCCAGGC 62.039 63.158 3.66 3.66 35.73 4.85
391 1180 1.207089 GGGGTTTGAATTGGGCTTAGC 59.793 52.381 0.00 0.00 0.00 3.09
393 1182 2.110899 TCAGGGGTTTGAATTGGGCTTA 59.889 45.455 0.00 0.00 0.00 3.09
394 1183 1.132881 TCAGGGGTTTGAATTGGGCTT 60.133 47.619 0.00 0.00 0.00 4.35
396 1185 0.897621 CTCAGGGGTTTGAATTGGGC 59.102 55.000 0.00 0.00 0.00 5.36
397 1186 2.171003 GTCTCAGGGGTTTGAATTGGG 58.829 52.381 0.00 0.00 0.00 4.12
410 1203 2.110967 CAATGCCGCTGGTCTCAGG 61.111 63.158 0.00 0.00 41.19 3.86
443 1236 2.555199 GGTCTGGGACAATGATTCTCG 58.445 52.381 0.00 0.00 38.70 4.04
499 1292 5.163405 GGCTATCAGGTCTCAGACAACAATA 60.163 44.000 7.24 0.00 33.68 1.90
512 1305 1.383523 GGCTGTTTGGCTATCAGGTC 58.616 55.000 8.67 0.00 38.32 3.85
513 1306 3.577389 GGCTGTTTGGCTATCAGGT 57.423 52.632 8.67 0.00 38.32 4.00
586 1379 0.381801 CTGCTGTTGGTTTTGCTCGT 59.618 50.000 0.00 0.00 0.00 4.18
610 1403 2.073816 CGTTTTCTATTGCGTCACCCT 58.926 47.619 0.00 0.00 0.00 4.34
611 1404 2.070783 TCGTTTTCTATTGCGTCACCC 58.929 47.619 0.00 0.00 0.00 4.61
612 1405 4.336532 AATCGTTTTCTATTGCGTCACC 57.663 40.909 0.00 0.00 0.00 4.02
613 1406 5.379003 TCAAATCGTTTTCTATTGCGTCAC 58.621 37.500 0.00 0.00 0.00 3.67
614 1407 5.599359 TCAAATCGTTTTCTATTGCGTCA 57.401 34.783 0.00 0.00 0.00 4.35
616 1409 7.061789 GGAAATTCAAATCGTTTTCTATTGCGT 59.938 33.333 0.00 0.00 0.00 5.24
629 1424 2.919666 AGGCACGGAAATTCAAATCG 57.080 45.000 0.00 0.00 0.00 3.34
663 1458 4.730657 CGGTCAGATTCAAACGTAGTAGT 58.269 43.478 0.00 0.00 45.00 2.73
664 1459 3.546670 GCGGTCAGATTCAAACGTAGTAG 59.453 47.826 0.00 0.00 45.00 2.57
665 1460 3.057386 TGCGGTCAGATTCAAACGTAGTA 60.057 43.478 0.00 0.00 45.00 1.82
667 1462 2.092211 GTGCGGTCAGATTCAAACGTAG 59.908 50.000 0.00 0.00 0.00 3.51
668 1463 2.063266 GTGCGGTCAGATTCAAACGTA 58.937 47.619 0.00 0.00 0.00 3.57
669 1464 0.865769 GTGCGGTCAGATTCAAACGT 59.134 50.000 0.00 0.00 0.00 3.99
692 1487 2.223711 GGTTAACAGTGGTTTGTGGCAG 60.224 50.000 8.10 0.00 38.45 4.85
693 1488 1.751924 GGTTAACAGTGGTTTGTGGCA 59.248 47.619 8.10 0.00 38.45 4.92
694 1489 1.751924 TGGTTAACAGTGGTTTGTGGC 59.248 47.619 8.10 0.00 38.45 5.01
695 1490 3.708563 CTGGTTAACAGTGGTTTGTGG 57.291 47.619 8.10 0.00 42.42 4.17
724 1519 2.120232 GATAGGCGTCAATGACACTCG 58.880 52.381 14.24 0.22 32.09 4.18
730 1525 3.636764 TCAGCTAAGATAGGCGTCAATGA 59.363 43.478 0.00 0.00 0.00 2.57
746 1541 6.054860 AGTTTTGGCTAGAAGAATCAGCTA 57.945 37.500 0.00 0.00 35.60 3.32
892 1696 4.710695 TACGCACTCACGCACCGG 62.711 66.667 0.00 0.00 36.19 5.28
893 1697 3.467119 GTACGCACTCACGCACCG 61.467 66.667 0.00 0.00 36.19 4.94
894 1698 3.467119 CGTACGCACTCACGCACC 61.467 66.667 0.52 0.00 36.19 5.01
902 1706 3.515316 AAGCAGGCACGTACGCACT 62.515 57.895 16.72 8.19 0.00 4.40
920 1724 4.513519 GTGCGATCCACGGAATGA 57.486 55.556 0.00 0.00 44.90 2.57
970 1774 1.627297 GGAGGGAAGAGGGAATGCGT 61.627 60.000 0.00 0.00 0.00 5.24
971 1775 1.147153 GGAGGGAAGAGGGAATGCG 59.853 63.158 0.00 0.00 0.00 4.73
977 1781 3.787001 GGTGCGGAGGGAAGAGGG 61.787 72.222 0.00 0.00 0.00 4.30
982 1786 0.404040 ATTTCAAGGTGCGGAGGGAA 59.596 50.000 0.00 0.00 0.00 3.97
984 1788 1.315257 CCATTTCAAGGTGCGGAGGG 61.315 60.000 0.00 0.00 0.00 4.30
990 1794 2.340337 GCATCAACCATTTCAAGGTGC 58.660 47.619 0.00 0.00 39.86 5.01
1018 1822 2.547211 CGAGATTGGACATGATTGGAGC 59.453 50.000 0.00 0.00 0.00 4.70
1021 1825 2.923121 ACCGAGATTGGACATGATTGG 58.077 47.619 0.00 0.00 0.00 3.16
1065 1884 1.080434 GAAGAGAAGCACGGCGAGT 60.080 57.895 16.62 0.00 0.00 4.18
1066 1885 0.800300 GAGAAGAGAAGCACGGCGAG 60.800 60.000 16.62 7.03 0.00 5.03
1109 1928 1.967066 CGCTATGATCTTGACCTCCCT 59.033 52.381 0.00 0.00 0.00 4.20
1115 1934 2.205074 CACCACCGCTATGATCTTGAC 58.795 52.381 0.00 0.00 0.00 3.18
1121 1940 0.183492 AATGCCACCACCGCTATGAT 59.817 50.000 0.00 0.00 0.00 2.45
1123 1942 1.727511 CCAATGCCACCACCGCTATG 61.728 60.000 0.00 0.00 0.00 2.23
1128 1947 3.751246 CTGCCAATGCCACCACCG 61.751 66.667 0.00 0.00 36.33 4.94
1138 1957 1.848652 AGCAATCTGAAGCTGCCAAT 58.151 45.000 7.11 0.00 40.13 3.16
1389 2220 1.879380 CTTTTCTTGCCATCGTGGTCA 59.121 47.619 6.02 2.71 40.46 4.02
1491 2322 1.795286 CTCTGAAACTTCCTGCACGTC 59.205 52.381 0.00 0.00 0.00 4.34
1650 2481 3.399181 TCATCTTTCGGCCCGGCT 61.399 61.111 9.86 0.00 0.00 5.52
1656 2487 1.717194 TTGGTACGTCATCTTTCGGC 58.283 50.000 0.00 0.00 0.00 5.54
1674 2505 3.896648 TCAATTTCTTCTTCGCGCTTT 57.103 38.095 5.56 0.00 0.00 3.51
1680 2511 2.677836 TCCGGCATCAATTTCTTCTTCG 59.322 45.455 0.00 0.00 0.00 3.79
1764 2595 1.765230 GGAGCTCGGAGTAGGAGAAA 58.235 55.000 7.83 0.00 33.27 2.52
1866 2697 1.210967 TCCTTCATTTTATCCGCGGGT 59.789 47.619 27.83 23.47 0.00 5.28
2397 3231 1.409064 CTCGATCGGATTCTGTCCCAA 59.591 52.381 16.41 0.00 44.77 4.12
2513 3371 1.970917 GCTCGTCCAATCTGCCAACG 61.971 60.000 0.00 0.00 34.80 4.10
2517 3375 0.179062 ATCTGCTCGTCCAATCTGCC 60.179 55.000 0.00 0.00 0.00 4.85
2544 3402 1.602165 CGAGTTGTACAGGAACAGCGT 60.602 52.381 0.00 0.00 35.91 5.07
2624 3482 1.920325 CAGCCTCTTGGGGTCCAGA 60.920 63.158 0.00 0.00 45.10 3.86
2637 3495 0.330604 ATGGTGATGTTCTGCAGCCT 59.669 50.000 9.47 0.00 31.34 4.58
2657 3515 0.389817 CGTTCACCGCCTTCATGAGA 60.390 55.000 0.00 0.00 0.00 3.27
2785 3648 3.181466 GCAACCAAACCAAGAAACTCCAT 60.181 43.478 0.00 0.00 0.00 3.41
2791 3654 2.461695 TCCAGCAACCAAACCAAGAAA 58.538 42.857 0.00 0.00 0.00 2.52
2818 3681 1.338389 CCGACAAACCGTTCCCTGTAT 60.338 52.381 0.00 0.00 0.00 2.29
2831 3694 0.453793 CCAGTTGTTGCACCGACAAA 59.546 50.000 4.26 0.00 39.15 2.83
2832 3695 0.393132 TCCAGTTGTTGCACCGACAA 60.393 50.000 4.26 1.17 35.64 3.18
2990 3853 3.758088 CTCGCGGTACAGCATCGCT 62.758 63.158 18.16 0.00 46.23 4.93
3017 3880 2.994995 ATGTGGCCGACCTCGTCA 60.995 61.111 0.00 0.00 37.74 4.35
3050 3913 1.895798 TCAGTTCTCACCTCGAGCATT 59.104 47.619 6.99 0.00 41.98 3.56
3065 3928 1.202855 ACTGGCATGTCAAGCTCAGTT 60.203 47.619 14.49 4.33 39.07 3.16
3066 3929 0.399454 ACTGGCATGTCAAGCTCAGT 59.601 50.000 14.49 14.49 38.10 3.41
3073 3936 1.977854 AGTACAGGACTGGCATGTCAA 59.022 47.619 3.11 0.00 41.25 3.18
3074 3937 1.644509 AGTACAGGACTGGCATGTCA 58.355 50.000 3.11 0.00 41.25 3.58
3084 3952 0.865769 CGGTTGCAACAGTACAGGAC 59.134 55.000 29.55 9.03 0.00 3.85
3107 3975 4.233123 ACGAAATGTCAGTGAACGACTA 57.767 40.909 0.00 0.00 34.37 2.59
3109 3977 3.244345 TGAACGAAATGTCAGTGAACGAC 59.756 43.478 0.00 0.00 0.00 4.34
3110 3978 3.449632 TGAACGAAATGTCAGTGAACGA 58.550 40.909 0.00 0.00 0.00 3.85
3111 3979 3.852471 TGAACGAAATGTCAGTGAACG 57.148 42.857 0.00 0.00 0.00 3.95
3117 3985 3.120546 AGACGCAATGAACGAAATGTCAG 60.121 43.478 0.00 0.00 0.00 3.51
3126 3994 1.798223 TCCTTTCAGACGCAATGAACG 59.202 47.619 0.00 0.00 36.44 3.95
3192 4062 2.164865 CTGTCTTGAGCACCGCCTCT 62.165 60.000 0.00 0.00 33.02 3.69
3198 4068 0.606673 GGTTCCCTGTCTTGAGCACC 60.607 60.000 0.00 0.00 0.00 5.01
3339 4209 2.506217 TTCTGCGACCGCGTCATC 60.506 61.111 4.92 0.00 45.51 2.92
3574 4444 4.436998 CACCTCCTCGGCGTGGAC 62.437 72.222 25.28 0.00 35.61 4.02
3575 4445 3.957435 ATCACCTCCTCGGCGTGGA 62.957 63.158 26.86 26.86 35.61 4.02
3642 4512 1.332997 CCGTGGTAGTACTCGGTGATC 59.667 57.143 20.77 0.00 38.45 2.92
3817 4688 2.693591 TCTAATCTAGCCAAGGACCACG 59.306 50.000 0.00 0.00 0.00 4.94
3823 4694 5.994668 GGATTCTGTTCTAATCTAGCCAAGG 59.005 44.000 0.00 0.00 34.43 3.61
3919 4796 2.237143 TCATCCCAGTGAGTGATCAACC 59.763 50.000 0.00 0.00 0.00 3.77
3938 4815 5.471116 CCAGTTCAAACATCATCTTGTCTCA 59.529 40.000 0.00 0.00 0.00 3.27
3964 4841 4.668941 GCCAACTTGTTTGTTTCAAACAGC 60.669 41.667 21.41 18.11 43.27 4.40
4013 5060 2.683211 ATGGGCAAGGAGACAAAAGT 57.317 45.000 0.00 0.00 0.00 2.66
4047 5094 9.191995 ACACTAACCGATTCAAAATTTCAAATC 57.808 29.630 12.32 12.32 0.00 2.17
4107 5154 3.853671 CGTGGCAGAGAAAATAAACATGC 59.146 43.478 0.00 0.00 0.00 4.06
4175 5228 6.471519 CAGTTAGCGGCGTCCTTATATTATAC 59.528 42.308 9.37 0.00 0.00 1.47
4176 5229 6.558009 CAGTTAGCGGCGTCCTTATATTATA 58.442 40.000 9.37 0.00 0.00 0.98
4177 5230 5.408356 CAGTTAGCGGCGTCCTTATATTAT 58.592 41.667 9.37 0.00 0.00 1.28
4178 5231 4.801891 CAGTTAGCGGCGTCCTTATATTA 58.198 43.478 9.37 0.00 0.00 0.98
4179 5232 3.650139 CAGTTAGCGGCGTCCTTATATT 58.350 45.455 9.37 0.00 0.00 1.28
4180 5233 2.609737 GCAGTTAGCGGCGTCCTTATAT 60.610 50.000 9.37 0.00 0.00 0.86
4181 5234 1.269413 GCAGTTAGCGGCGTCCTTATA 60.269 52.381 9.37 0.00 0.00 0.98
4182 5235 0.529992 GCAGTTAGCGGCGTCCTTAT 60.530 55.000 9.37 0.00 0.00 1.73
4218 5271 0.919710 GGGTTGGTCCTCTTAGGCAT 59.080 55.000 0.00 0.00 34.61 4.40
4252 5305 1.657556 GGCGCTAGTTGTTTTGCCA 59.342 52.632 7.64 0.00 42.03 4.92
4427 5482 2.692557 ACATGGCAACTGCACTTAAACA 59.307 40.909 3.76 0.00 44.36 2.83


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

AutoCloner maintained by Alex Coulton.