Multiple sequence alignment - TraesCS1B01G053700

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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 TraesCS1B01G053700 chr1B 100.000 2731 0 0 1 2731 34169341 34166611 0.000000e+00 5044.0
1 TraesCS1B01G053700 chr1B 100.000 536 0 0 2959 3494 34166383 34165848 0.000000e+00 990.0
2 TraesCS1B01G053700 chr1D 94.039 2533 115 16 159 2677 20828551 20826041 0.000000e+00 3808.0
3 TraesCS1B01G053700 chr1D 89.385 537 52 3 2959 3494 20825816 20825284 0.000000e+00 671.0
4 TraesCS1B01G053700 chr1D 93.125 160 9 2 1 158 156639309 156639150 2.100000e-57 233.0
5 TraesCS1B01G053700 chr1D 90.667 150 13 1 3142 3290 22952823 22952674 7.650000e-47 198.0
6 TraesCS1B01G053700 chr1A 93.556 2157 112 15 533 2677 22534176 22536317 0.000000e+00 3188.0
7 TraesCS1B01G053700 chr1A 87.657 478 30 10 3020 3494 22536968 22537419 2.390000e-146 529.0
8 TraesCS1B01G053700 chr1A 93.548 62 2 2 2495 2556 428667948 428668007 1.340000e-14 91.6
9 TraesCS1B01G053700 chr7A 81.775 1701 270 28 809 2484 167987578 167985893 0.000000e+00 1387.0
10 TraesCS1B01G053700 chr7A 78.289 935 182 19 1496 2418 167904296 167903371 1.810000e-162 582.0
11 TraesCS1B01G053700 chr7B 81.307 1744 272 37 775 2484 130898641 130896918 0.000000e+00 1365.0
12 TraesCS1B01G053700 chr7B 92.500 160 5 6 1 155 369857841 369857998 4.540000e-54 222.0
13 TraesCS1B01G053700 chr7B 90.476 147 13 1 3142 3287 372324068 372323922 3.560000e-45 193.0
14 TraesCS1B01G053700 chr7D 81.587 1613 256 28 773 2358 166928298 166926700 0.000000e+00 1295.0
15 TraesCS1B01G053700 chr7D 84.202 1171 170 11 1320 2484 166887093 166885932 0.000000e+00 1123.0
16 TraesCS1B01G053700 chr7D 78.671 933 182 15 1496 2418 166513924 166512999 3.860000e-169 604.0
17 TraesCS1B01G053700 chr7D 78.508 563 92 19 773 1314 166888108 166887554 3.340000e-90 342.0
18 TraesCS1B01G053700 chr7D 94.231 156 8 1 1 155 424663184 424663339 1.620000e-58 237.0
19 TraesCS1B01G053700 chr7D 80.657 274 51 2 2146 2418 53809734 53810006 9.830000e-51 211.0
20 TraesCS1B01G053700 chr7D 83.420 193 25 7 3120 3309 629526941 629527129 4.640000e-39 172.0
21 TraesCS1B01G053700 chr6B 81.173 1381 243 13 1097 2473 21093074 21091707 0.000000e+00 1094.0
22 TraesCS1B01G053700 chr2B 93.210 162 4 6 1 157 158906954 158907113 7.540000e-57 231.0
23 TraesCS1B01G053700 chr2B 91.617 167 7 6 1 160 521815389 521815223 1.260000e-54 224.0
24 TraesCS1B01G053700 chr2B 92.453 159 6 6 1 154 141788388 141788545 4.540000e-54 222.0
25 TraesCS1B01G053700 chr2A 93.038 158 5 5 1 153 508117044 508116888 3.510000e-55 226.0
26 TraesCS1B01G053700 chr2A 87.324 71 6 2 2487 2557 65084911 65084844 1.040000e-10 78.7
27 TraesCS1B01G053700 chr3A 92.500 160 6 5 1 155 653223011 653223169 1.260000e-54 224.0
28 TraesCS1B01G053700 chr3A 83.908 87 10 3 2472 2557 657439809 657439726 2.890000e-11 80.5
29 TraesCS1B01G053700 chr3B 91.463 164 8 5 1 159 726382225 726382063 1.630000e-53 220.0
30 TraesCS1B01G053700 chr4D 89.017 173 14 5 3120 3290 298223258 298223427 3.530000e-50 209.0
31 TraesCS1B01G053700 chr4D 93.939 66 2 2 2493 2558 483109660 483109723 7.980000e-17 99.0
32 TraesCS1B01G053700 chr4A 89.474 152 13 3 3135 3283 109441636 109441485 4.600000e-44 189.0
33 TraesCS1B01G053700 chr4B 86.782 174 16 5 3120 3291 369550596 369550764 1.660000e-43 187.0
34 TraesCS1B01G053700 chr4B 92.308 65 3 2 2493 2557 613320093 613320155 1.340000e-14 91.6
35 TraesCS1B01G053700 chr2D 85.227 176 23 3 3117 3290 186862606 186862432 9.970000e-41 178.0
36 TraesCS1B01G053700 chrUn 92.308 65 3 2 2494 2558 37403237 37403299 1.340000e-14 91.6
37 TraesCS1B01G053700 chr6D 88.571 70 5 2 2487 2556 196358004 196357938 8.040000e-12 82.4
38 TraesCS1B01G053700 chr6A 87.324 71 6 2 2487 2557 508000957 508000890 1.040000e-10 78.7
39 TraesCS1B01G053700 chr5A 86.486 74 7 2 2484 2557 560883379 560883449 1.040000e-10 78.7


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 TraesCS1B01G053700 chr1B 34165848 34169341 3493 True 3017.0 5044 100.0000 1 3494 2 chr1B.!!$R1 3493
1 TraesCS1B01G053700 chr1D 20825284 20828551 3267 True 2239.5 3808 91.7120 159 3494 2 chr1D.!!$R3 3335
2 TraesCS1B01G053700 chr1A 22534176 22537419 3243 False 1858.5 3188 90.6065 533 3494 2 chr1A.!!$F2 2961
3 TraesCS1B01G053700 chr7A 167985893 167987578 1685 True 1387.0 1387 81.7750 809 2484 1 chr7A.!!$R2 1675
4 TraesCS1B01G053700 chr7A 167903371 167904296 925 True 582.0 582 78.2890 1496 2418 1 chr7A.!!$R1 922
5 TraesCS1B01G053700 chr7B 130896918 130898641 1723 True 1365.0 1365 81.3070 775 2484 1 chr7B.!!$R1 1709
6 TraesCS1B01G053700 chr7D 166926700 166928298 1598 True 1295.0 1295 81.5870 773 2358 1 chr7D.!!$R2 1585
7 TraesCS1B01G053700 chr7D 166885932 166888108 2176 True 732.5 1123 81.3550 773 2484 2 chr7D.!!$R3 1711
8 TraesCS1B01G053700 chr7D 166512999 166513924 925 True 604.0 604 78.6710 1496 2418 1 chr7D.!!$R1 922
9 TraesCS1B01G053700 chr6B 21091707 21093074 1367 True 1094.0 1094 81.1730 1097 2473 1 chr6B.!!$R1 1376

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
743 754 0.033405 TCGCCCTAGTGCTCCTAGTT 60.033 55.0 0.0 0.0 41.48 2.24 F
1043 1076 0.111253 AAGCACCTCAAACCCCTCAG 59.889 55.0 0.0 0.0 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1611 2121 0.762418 TGATGTCGGTGAAGGTTGGT 59.238 50.0 0.0 0.0 0.0 3.67 R
3017 3597 0.255890 GGCTTAGATGGGGCAGAACA 59.744 55.0 0.0 0.0 0.0 3.18 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
35 36 3.746045 TTTTACGTTGAGGCTCTCTGT 57.254 42.857 16.72 12.83 0.00 3.41
36 37 2.724977 TTACGTTGAGGCTCTCTGTG 57.275 50.000 16.72 3.86 0.00 3.66
37 38 1.905637 TACGTTGAGGCTCTCTGTGA 58.094 50.000 16.72 0.00 0.00 3.58
38 39 0.600557 ACGTTGAGGCTCTCTGTGAG 59.399 55.000 16.72 2.46 45.33 3.51
49 50 4.935352 CTCTCTGTGAGCTAGCCTTTAT 57.065 45.455 12.13 0.00 35.84 1.40
50 51 5.275067 CTCTCTGTGAGCTAGCCTTTATT 57.725 43.478 12.13 0.00 35.84 1.40
51 52 5.669477 CTCTCTGTGAGCTAGCCTTTATTT 58.331 41.667 12.13 0.00 35.84 1.40
52 53 6.054860 TCTCTGTGAGCTAGCCTTTATTTT 57.945 37.500 12.13 0.00 0.00 1.82
53 54 5.877012 TCTCTGTGAGCTAGCCTTTATTTTG 59.123 40.000 12.13 0.00 0.00 2.44
54 55 5.560724 TCTGTGAGCTAGCCTTTATTTTGT 58.439 37.500 12.13 0.00 0.00 2.83
55 56 6.003950 TCTGTGAGCTAGCCTTTATTTTGTT 58.996 36.000 12.13 0.00 0.00 2.83
56 57 6.490040 TCTGTGAGCTAGCCTTTATTTTGTTT 59.510 34.615 12.13 0.00 0.00 2.83
57 58 6.677913 TGTGAGCTAGCCTTTATTTTGTTTC 58.322 36.000 12.13 0.00 0.00 2.78
58 59 6.264292 TGTGAGCTAGCCTTTATTTTGTTTCA 59.736 34.615 12.13 0.37 0.00 2.69
59 60 6.582672 GTGAGCTAGCCTTTATTTTGTTTCAC 59.417 38.462 12.13 9.90 0.00 3.18
60 61 5.699839 AGCTAGCCTTTATTTTGTTTCACG 58.300 37.500 12.13 0.00 0.00 4.35
61 62 5.472137 AGCTAGCCTTTATTTTGTTTCACGA 59.528 36.000 12.13 0.00 0.00 4.35
62 63 5.567915 GCTAGCCTTTATTTTGTTTCACGAC 59.432 40.000 2.29 0.00 0.00 4.34
63 64 5.767816 AGCCTTTATTTTGTTTCACGACT 57.232 34.783 0.00 0.00 0.00 4.18
64 65 6.144078 AGCCTTTATTTTGTTTCACGACTT 57.856 33.333 0.00 0.00 0.00 3.01
65 66 6.569780 AGCCTTTATTTTGTTTCACGACTTT 58.430 32.000 0.00 0.00 0.00 2.66
66 67 7.708998 AGCCTTTATTTTGTTTCACGACTTTA 58.291 30.769 0.00 0.00 0.00 1.85
67 68 8.192110 AGCCTTTATTTTGTTTCACGACTTTAA 58.808 29.630 0.00 0.00 0.00 1.52
68 69 8.476925 GCCTTTATTTTGTTTCACGACTTTAAG 58.523 33.333 0.00 0.00 0.00 1.85
69 70 9.724839 CCTTTATTTTGTTTCACGACTTTAAGA 57.275 29.630 0.00 0.00 0.00 2.10
71 72 9.505995 TTTATTTTGTTTCACGACTTTAAGACC 57.494 29.630 0.00 0.00 0.00 3.85
72 73 6.746745 TTTTGTTTCACGACTTTAAGACCT 57.253 33.333 0.00 0.00 0.00 3.85
73 74 6.746745 TTTGTTTCACGACTTTAAGACCTT 57.253 33.333 0.00 0.00 0.00 3.50
74 75 5.728351 TGTTTCACGACTTTAAGACCTTG 57.272 39.130 0.00 0.00 0.00 3.61
75 76 5.180271 TGTTTCACGACTTTAAGACCTTGT 58.820 37.500 0.00 0.00 0.00 3.16
76 77 5.644636 TGTTTCACGACTTTAAGACCTTGTT 59.355 36.000 0.00 0.00 0.00 2.83
77 78 5.728351 TTCACGACTTTAAGACCTTGTTG 57.272 39.130 0.00 0.00 0.00 3.33
78 79 5.013568 TCACGACTTTAAGACCTTGTTGA 57.986 39.130 0.00 0.00 0.00 3.18
79 80 5.421277 TCACGACTTTAAGACCTTGTTGAA 58.579 37.500 0.00 0.00 0.00 2.69
80 81 5.292589 TCACGACTTTAAGACCTTGTTGAAC 59.707 40.000 0.00 0.00 0.00 3.18
81 82 4.573607 ACGACTTTAAGACCTTGTTGAACC 59.426 41.667 0.00 0.00 0.00 3.62
82 83 4.814771 CGACTTTAAGACCTTGTTGAACCT 59.185 41.667 0.00 0.00 0.00 3.50
83 84 5.987347 CGACTTTAAGACCTTGTTGAACCTA 59.013 40.000 0.00 0.00 0.00 3.08
84 85 6.649557 CGACTTTAAGACCTTGTTGAACCTAT 59.350 38.462 0.00 0.00 0.00 2.57
85 86 7.172703 CGACTTTAAGACCTTGTTGAACCTATT 59.827 37.037 0.00 0.00 0.00 1.73
86 87 8.762481 ACTTTAAGACCTTGTTGAACCTATTT 57.238 30.769 0.00 0.00 0.00 1.40
87 88 8.630037 ACTTTAAGACCTTGTTGAACCTATTTG 58.370 33.333 0.00 0.00 0.00 2.32
88 89 8.754991 TTTAAGACCTTGTTGAACCTATTTGA 57.245 30.769 0.00 0.00 0.00 2.69
89 90 8.934023 TTAAGACCTTGTTGAACCTATTTGAT 57.066 30.769 0.00 0.00 0.00 2.57
90 91 7.839680 AAGACCTTGTTGAACCTATTTGATT 57.160 32.000 0.00 0.00 0.00 2.57
91 92 7.839680 AGACCTTGTTGAACCTATTTGATTT 57.160 32.000 0.00 0.00 0.00 2.17
92 93 8.934023 AGACCTTGTTGAACCTATTTGATTTA 57.066 30.769 0.00 0.00 0.00 1.40
93 94 9.533831 AGACCTTGTTGAACCTATTTGATTTAT 57.466 29.630 0.00 0.00 0.00 1.40
105 106 9.403583 ACCTATTTGATTTATAAATGTGTCCGT 57.596 29.630 15.39 1.45 0.00 4.69
109 110 9.677567 ATTTGATTTATAAATGTGTCCGTATGC 57.322 29.630 15.39 0.00 0.00 3.14
110 111 7.793927 TGATTTATAAATGTGTCCGTATGCA 57.206 32.000 15.39 0.00 0.00 3.96
111 112 8.389779 TGATTTATAAATGTGTCCGTATGCAT 57.610 30.769 15.39 3.79 0.00 3.96
112 113 8.503196 TGATTTATAAATGTGTCCGTATGCATC 58.497 33.333 15.39 0.00 0.00 3.91
113 114 4.990543 ATAAATGTGTCCGTATGCATCG 57.009 40.909 0.19 7.03 0.00 3.84
114 115 2.309528 AATGTGTCCGTATGCATCGT 57.690 45.000 0.19 0.00 0.00 3.73
115 116 2.309528 ATGTGTCCGTATGCATCGTT 57.690 45.000 0.19 0.00 0.00 3.85
116 117 1.635844 TGTGTCCGTATGCATCGTTC 58.364 50.000 0.19 3.37 0.00 3.95
117 118 1.203758 TGTGTCCGTATGCATCGTTCT 59.796 47.619 0.19 0.00 0.00 3.01
118 119 1.588404 GTGTCCGTATGCATCGTTCTG 59.412 52.381 0.19 0.00 0.00 3.02
119 120 1.474879 TGTCCGTATGCATCGTTCTGA 59.525 47.619 0.19 0.00 0.00 3.27
120 121 2.100749 TGTCCGTATGCATCGTTCTGAT 59.899 45.455 0.19 0.00 38.01 2.90
128 129 3.376218 ATCGTTCTGATGCAGAGGC 57.624 52.632 0.00 0.00 41.75 4.70
129 130 0.179062 ATCGTTCTGATGCAGAGGCC 60.179 55.000 0.00 0.00 41.75 5.19
130 131 2.169789 CGTTCTGATGCAGAGGCCG 61.170 63.158 0.00 0.00 41.75 6.13
131 132 1.817099 GTTCTGATGCAGAGGCCGG 60.817 63.158 0.00 0.00 41.75 6.13
132 133 3.035173 TTCTGATGCAGAGGCCGGG 62.035 63.158 2.18 0.00 41.75 5.73
133 134 3.473647 CTGATGCAGAGGCCGGGA 61.474 66.667 2.18 0.00 40.13 5.14
134 135 3.457625 CTGATGCAGAGGCCGGGAG 62.458 68.421 2.18 0.00 40.13 4.30
135 136 3.474570 GATGCAGAGGCCGGGAGT 61.475 66.667 2.18 0.00 40.13 3.85
136 137 3.453070 GATGCAGAGGCCGGGAGTC 62.453 68.421 2.18 0.00 40.13 3.36
203 204 1.497286 AGTTAAGCAAGGGGGTGACAA 59.503 47.619 0.00 0.00 0.00 3.18
214 215 3.264450 AGGGGGTGACAATACAAGAGAAG 59.736 47.826 0.00 0.00 0.00 2.85
219 220 6.415573 GGGTGACAATACAAGAGAAGGTAAT 58.584 40.000 0.00 0.00 0.00 1.89
235 236 9.909644 GAGAAGGTAATACGAGCAAGATAAATA 57.090 33.333 0.00 0.00 0.00 1.40
284 285 4.436113 TGGATGGTTTCTATGCTATGCA 57.564 40.909 0.00 0.00 44.86 3.96
315 316 9.595357 CAGACGGAAAAGTATCTAAAAGAAAAC 57.405 33.333 0.00 0.00 0.00 2.43
354 355 1.199789 CGCAAGCCAGATTTGCTACAA 59.800 47.619 8.15 0.00 46.62 2.41
359 360 2.019984 GCCAGATTTGCTACAAGAGGG 58.980 52.381 0.00 0.00 0.00 4.30
407 408 4.813161 AGAGATGTTGAAAGGCGATATGTG 59.187 41.667 0.00 0.00 0.00 3.21
482 483 4.266976 ACCGAATTCGTTCAATCGTGATAC 59.733 41.667 25.10 0.00 37.74 2.24
516 517 5.001232 TCATGTGTGTTTTAAGGAGGCTAC 58.999 41.667 0.00 0.00 0.00 3.58
531 532 1.373570 GCTACAGTGAATGCTCCCAC 58.626 55.000 0.00 0.00 0.00 4.61
578 579 1.753073 GGGGACTCTTCCGATTAACGA 59.247 52.381 0.00 0.00 43.94 3.85
609 620 0.320683 CGTGATGGTTGGTGAGCTGA 60.321 55.000 0.00 0.00 0.00 4.26
610 621 1.676916 CGTGATGGTTGGTGAGCTGAT 60.677 52.381 0.00 0.00 0.00 2.90
611 622 2.012673 GTGATGGTTGGTGAGCTGATC 58.987 52.381 0.00 0.00 0.00 2.92
612 623 1.065199 TGATGGTTGGTGAGCTGATCC 60.065 52.381 0.00 0.00 0.00 3.36
613 624 1.211457 GATGGTTGGTGAGCTGATCCT 59.789 52.381 0.00 0.00 0.00 3.24
614 625 1.067295 TGGTTGGTGAGCTGATCCTT 58.933 50.000 0.00 0.00 0.00 3.36
615 626 1.425066 TGGTTGGTGAGCTGATCCTTT 59.575 47.619 0.00 0.00 0.00 3.11
616 627 2.642311 TGGTTGGTGAGCTGATCCTTTA 59.358 45.455 0.00 0.00 0.00 1.85
617 628 3.073798 TGGTTGGTGAGCTGATCCTTTAA 59.926 43.478 0.00 0.00 0.00 1.52
618 629 3.691609 GGTTGGTGAGCTGATCCTTTAAG 59.308 47.826 0.00 0.00 0.00 1.85
637 648 3.366440 AGTTTTAGCACGACGACTTCT 57.634 42.857 0.00 0.00 0.00 2.85
685 696 1.274167 ACGACAAGATTTGACCGGCTA 59.726 47.619 0.00 0.00 35.71 3.93
704 715 0.253347 ATGGTGATGGAGGGGTCAGT 60.253 55.000 0.00 0.00 0.00 3.41
728 739 4.736896 ACTCGCCTTCGGTTCGCC 62.737 66.667 0.00 0.00 36.13 5.54
743 754 0.033405 TCGCCCTAGTGCTCCTAGTT 60.033 55.000 0.00 0.00 41.48 2.24
751 762 5.128827 CCCTAGTGCTCCTAGTTGTTGAATA 59.871 44.000 9.28 0.00 41.48 1.75
764 775 6.748132 AGTTGTTGAATATTGGACCTTGTTG 58.252 36.000 0.00 0.00 0.00 3.33
765 776 6.549364 AGTTGTTGAATATTGGACCTTGTTGA 59.451 34.615 0.00 0.00 0.00 3.18
908 925 0.602905 GCTGTAAAGGCTGTGTCGGT 60.603 55.000 0.00 0.00 0.00 4.69
988 1007 3.140814 GGCCCAAGTTGGATCGGC 61.141 66.667 24.06 16.91 40.96 5.54
1026 1045 3.120041 CCAACCAACGCCTAAAAACAAG 58.880 45.455 0.00 0.00 0.00 3.16
1028 1061 1.751924 ACCAACGCCTAAAAACAAGCA 59.248 42.857 0.00 0.00 0.00 3.91
1029 1062 2.124122 CCAACGCCTAAAAACAAGCAC 58.876 47.619 0.00 0.00 0.00 4.40
1031 1064 1.687563 ACGCCTAAAAACAAGCACCT 58.312 45.000 0.00 0.00 0.00 4.00
1033 1066 1.606668 CGCCTAAAAACAAGCACCTCA 59.393 47.619 0.00 0.00 0.00 3.86
1034 1067 2.034053 CGCCTAAAAACAAGCACCTCAA 59.966 45.455 0.00 0.00 0.00 3.02
1035 1068 3.490078 CGCCTAAAAACAAGCACCTCAAA 60.490 43.478 0.00 0.00 0.00 2.69
1037 1070 4.368315 CCTAAAAACAAGCACCTCAAACC 58.632 43.478 0.00 0.00 0.00 3.27
1042 1075 0.178992 CAAGCACCTCAAACCCCTCA 60.179 55.000 0.00 0.00 0.00 3.86
1043 1076 0.111253 AAGCACCTCAAACCCCTCAG 59.889 55.000 0.00 0.00 0.00 3.35
1044 1077 1.973812 GCACCTCAAACCCCTCAGC 60.974 63.158 0.00 0.00 0.00 4.26
1045 1078 1.672356 CACCTCAAACCCCTCAGCG 60.672 63.158 0.00 0.00 0.00 5.18
1046 1079 2.747855 CCTCAAACCCCTCAGCGC 60.748 66.667 0.00 0.00 0.00 5.92
1047 1080 2.032528 CTCAAACCCCTCAGCGCA 59.967 61.111 11.47 0.00 0.00 6.09
1048 1081 2.281484 TCAAACCCCTCAGCGCAC 60.281 61.111 11.47 0.00 0.00 5.34
1049 1082 3.365265 CAAACCCCTCAGCGCACC 61.365 66.667 11.47 0.00 0.00 5.01
1050 1083 3.570212 AAACCCCTCAGCGCACCT 61.570 61.111 11.47 0.00 0.00 4.00
1227 1282 0.616111 AGGTCCATGTCTTCCTCGCT 60.616 55.000 0.00 0.00 0.00 4.93
1240 1295 1.030488 CCTCGCTGTCTTCCTACCGA 61.030 60.000 0.00 0.00 0.00 4.69
1368 1878 3.749064 GAGAGCGCCCGTCTGTCA 61.749 66.667 2.29 0.00 0.00 3.58
1402 1912 1.176527 CGGCACCTTCCATTTCATGT 58.823 50.000 0.00 0.00 0.00 3.21
1467 1977 1.078497 CCCTTCGCTGCACCACATA 60.078 57.895 0.00 0.00 0.00 2.29
1632 2142 1.739466 CCAACCTTCACCGACATCATG 59.261 52.381 0.00 0.00 0.00 3.07
1641 2151 2.857483 ACCGACATCATGGTGAACAAA 58.143 42.857 14.29 0.00 37.02 2.83
1722 2232 0.687427 TGATCTCCCTCGATGTGGCA 60.687 55.000 0.00 0.00 0.00 4.92
1953 2463 3.034635 CAAGGATAGAGCCTACCTGTGT 58.965 50.000 0.00 0.00 37.26 3.72
2370 2883 2.358247 GACCGCGTGTGGATGGTT 60.358 61.111 4.92 0.00 34.12 3.67
2418 2931 2.267642 GCCGTGTGGGAGTGCATA 59.732 61.111 0.00 0.00 38.47 3.14
2518 3031 9.322769 AGAAAGTACTCCCTCTGTAAAGAAATA 57.677 33.333 0.00 0.00 0.00 1.40
2594 3114 4.120589 AGTAATAAGCAGGCTAAAGCGAC 58.879 43.478 0.00 0.00 43.26 5.19
2606 3126 1.623081 AAAGCGACGGTGCATGTACG 61.623 55.000 7.89 6.11 37.31 3.67
2627 3147 0.945813 GAGTATGACTCGAGTCCCGG 59.054 60.000 36.01 4.23 44.15 5.73
2646 3166 4.281688 CCCGGCAATCATATCCTTTGATTT 59.718 41.667 0.00 0.00 40.84 2.17
2655 3175 9.760077 AATCATATCCTTTGATTTTTCATGCTC 57.240 29.630 0.00 0.00 40.08 4.26
2697 3276 5.499004 TTGTAGACTTCCATTTGCCTAGT 57.501 39.130 0.00 0.00 0.00 2.57
3004 3584 0.972471 CATTTGCAACCCCTCCTCCC 60.972 60.000 0.00 0.00 0.00 4.30
3007 3587 2.936032 GCAACCCCTCCTCCCTGT 60.936 66.667 0.00 0.00 0.00 4.00
3011 3591 4.024984 CCCCTCCTCCCTGTCCCA 62.025 72.222 0.00 0.00 0.00 4.37
3012 3592 2.124996 CCCTCCTCCCTGTCCCAA 59.875 66.667 0.00 0.00 0.00 4.12
3013 3593 1.541368 CCCTCCTCCCTGTCCCAAA 60.541 63.158 0.00 0.00 0.00 3.28
3015 3595 1.685820 CTCCTCCCTGTCCCAAACC 59.314 63.158 0.00 0.00 0.00 3.27
3016 3596 1.073319 TCCTCCCTGTCCCAAACCA 60.073 57.895 0.00 0.00 0.00 3.67
3017 3597 0.477597 TCCTCCCTGTCCCAAACCAT 60.478 55.000 0.00 0.00 0.00 3.55
3018 3598 0.323725 CCTCCCTGTCCCAAACCATG 60.324 60.000 0.00 0.00 0.00 3.66
3071 4124 9.476928 ACTTACTTTGAGCTCCTAGATTTACTA 57.523 33.333 12.15 0.00 0.00 1.82
3088 4141 8.671921 AGATTTACTAAGATGAACACAATGCAG 58.328 33.333 0.00 0.00 0.00 4.41
3095 4148 7.647907 AAGATGAACACAATGCAGAATTTTC 57.352 32.000 0.00 0.00 0.00 2.29
3096 4149 6.989659 AGATGAACACAATGCAGAATTTTCT 58.010 32.000 0.00 0.00 38.25 2.52
3097 4150 8.114331 AGATGAACACAATGCAGAATTTTCTA 57.886 30.769 0.00 0.00 35.34 2.10
3098 4151 8.746530 AGATGAACACAATGCAGAATTTTCTAT 58.253 29.630 0.00 0.00 35.34 1.98
3099 4152 8.922058 ATGAACACAATGCAGAATTTTCTATC 57.078 30.769 0.00 0.00 35.34 2.08
3100 4153 8.114331 TGAACACAATGCAGAATTTTCTATCT 57.886 30.769 0.00 0.00 35.34 1.98
3103 4156 8.752766 ACACAATGCAGAATTTTCTATCTTTG 57.247 30.769 0.00 13.08 35.34 2.77
3104 4157 7.330208 ACACAATGCAGAATTTTCTATCTTTGC 59.670 33.333 0.00 6.63 35.34 3.68
3106 4159 6.786967 ATGCAGAATTTTCTATCTTTGCCT 57.213 33.333 0.00 0.00 35.34 4.75
3147 4201 5.335348 GGATAGAGAGAAGATAACTGGCGTC 60.335 48.000 0.00 0.00 0.00 5.19
3164 4218 2.223249 GCGTCATGCGTTGGATGTATTT 60.223 45.455 10.44 0.00 43.66 1.40
3166 4220 4.028383 CGTCATGCGTTGGATGTATTTTC 58.972 43.478 0.00 0.00 35.54 2.29
3177 4231 6.280855 TGGATGTATTTTCGAGTCTCAAGA 57.719 37.500 0.00 0.00 0.00 3.02
3199 4253 9.847706 CAAGAGCGAGTATATATTGAGTACAAT 57.152 33.333 0.00 0.00 46.64 2.71
3398 4453 1.546323 CCTTGCCTTGGCTTCTTCTCA 60.546 52.381 13.18 0.00 0.00 3.27
3400 4455 2.119801 TGCCTTGGCTTCTTCTCATC 57.880 50.000 13.18 0.00 0.00 2.92
3402 4457 1.012841 CCTTGGCTTCTTCTCATCGC 58.987 55.000 0.00 0.00 0.00 4.58
3420 4475 0.371645 GCTGATGTCGCTGTTACTGC 59.628 55.000 4.09 4.09 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 3.807622 CACAGAGAGCCTCAACGTAAAAA 59.192 43.478 0.00 0.00 32.06 1.94
15 16 3.069016 TCACAGAGAGCCTCAACGTAAAA 59.931 43.478 0.00 0.00 32.06 1.52
16 17 2.626266 TCACAGAGAGCCTCAACGTAAA 59.374 45.455 0.00 0.00 32.06 2.01
17 18 2.229062 CTCACAGAGAGCCTCAACGTAA 59.771 50.000 0.00 0.00 37.59 3.18
18 19 1.813178 CTCACAGAGAGCCTCAACGTA 59.187 52.381 0.00 0.00 37.59 3.57
19 20 0.600557 CTCACAGAGAGCCTCAACGT 59.399 55.000 0.00 0.00 37.59 3.99
20 21 3.415237 CTCACAGAGAGCCTCAACG 57.585 57.895 0.00 0.00 37.59 4.10
29 30 5.683876 AAATAAAGGCTAGCTCACAGAGA 57.316 39.130 15.72 0.00 0.00 3.10
30 31 5.645497 ACAAAATAAAGGCTAGCTCACAGAG 59.355 40.000 15.72 0.48 0.00 3.35
31 32 5.560724 ACAAAATAAAGGCTAGCTCACAGA 58.439 37.500 15.72 0.00 0.00 3.41
32 33 5.886960 ACAAAATAAAGGCTAGCTCACAG 57.113 39.130 15.72 0.00 0.00 3.66
33 34 6.264292 TGAAACAAAATAAAGGCTAGCTCACA 59.736 34.615 15.72 0.00 0.00 3.58
34 35 6.582672 GTGAAACAAAATAAAGGCTAGCTCAC 59.417 38.462 15.72 11.41 36.32 3.51
35 36 6.567701 CGTGAAACAAAATAAAGGCTAGCTCA 60.568 38.462 15.72 2.43 35.74 4.26
36 37 5.795441 CGTGAAACAAAATAAAGGCTAGCTC 59.205 40.000 15.72 4.82 35.74 4.09
37 38 5.472137 TCGTGAAACAAAATAAAGGCTAGCT 59.528 36.000 15.72 0.00 35.74 3.32
38 39 5.567915 GTCGTGAAACAAAATAAAGGCTAGC 59.432 40.000 6.04 6.04 35.74 3.42
39 40 6.899114 AGTCGTGAAACAAAATAAAGGCTAG 58.101 36.000 0.00 0.00 35.74 3.42
40 41 6.870971 AGTCGTGAAACAAAATAAAGGCTA 57.129 33.333 0.00 0.00 35.74 3.93
41 42 5.767816 AGTCGTGAAACAAAATAAAGGCT 57.232 34.783 0.00 0.00 35.74 4.58
42 43 6.822073 AAAGTCGTGAAACAAAATAAAGGC 57.178 33.333 0.00 0.00 35.74 4.35
43 44 9.724839 TCTTAAAGTCGTGAAACAAAATAAAGG 57.275 29.630 0.00 0.00 35.74 3.11
45 46 9.505995 GGTCTTAAAGTCGTGAAACAAAATAAA 57.494 29.630 0.00 0.00 35.74 1.40
46 47 8.895737 AGGTCTTAAAGTCGTGAAACAAAATAA 58.104 29.630 0.00 0.00 35.74 1.40
47 48 8.441312 AGGTCTTAAAGTCGTGAAACAAAATA 57.559 30.769 0.00 0.00 35.74 1.40
48 49 7.329588 AGGTCTTAAAGTCGTGAAACAAAAT 57.670 32.000 0.00 0.00 35.74 1.82
49 50 6.746745 AGGTCTTAAAGTCGTGAAACAAAA 57.253 33.333 0.00 0.00 35.74 2.44
50 51 6.149807 ACAAGGTCTTAAAGTCGTGAAACAAA 59.850 34.615 0.00 0.00 35.74 2.83
51 52 5.644636 ACAAGGTCTTAAAGTCGTGAAACAA 59.355 36.000 0.00 0.00 35.74 2.83
52 53 5.180271 ACAAGGTCTTAAAGTCGTGAAACA 58.820 37.500 0.00 0.00 35.74 2.83
53 54 5.729974 ACAAGGTCTTAAAGTCGTGAAAC 57.270 39.130 0.00 0.00 0.00 2.78
54 55 5.875910 TCAACAAGGTCTTAAAGTCGTGAAA 59.124 36.000 0.00 0.00 0.00 2.69
55 56 5.421277 TCAACAAGGTCTTAAAGTCGTGAA 58.579 37.500 0.00 0.00 0.00 3.18
56 57 5.013568 TCAACAAGGTCTTAAAGTCGTGA 57.986 39.130 0.00 0.00 0.00 4.35
57 58 5.499047 GTTCAACAAGGTCTTAAAGTCGTG 58.501 41.667 0.00 0.00 0.00 4.35
58 59 4.573607 GGTTCAACAAGGTCTTAAAGTCGT 59.426 41.667 0.00 0.00 0.00 4.34
59 60 4.814771 AGGTTCAACAAGGTCTTAAAGTCG 59.185 41.667 0.00 0.00 0.00 4.18
60 61 7.981102 ATAGGTTCAACAAGGTCTTAAAGTC 57.019 36.000 0.00 0.00 0.00 3.01
61 62 8.630037 CAAATAGGTTCAACAAGGTCTTAAAGT 58.370 33.333 0.00 0.00 0.00 2.66
62 63 8.846211 TCAAATAGGTTCAACAAGGTCTTAAAG 58.154 33.333 0.00 0.00 0.00 1.85
63 64 8.754991 TCAAATAGGTTCAACAAGGTCTTAAA 57.245 30.769 0.00 0.00 0.00 1.52
64 65 8.934023 ATCAAATAGGTTCAACAAGGTCTTAA 57.066 30.769 0.00 0.00 0.00 1.85
65 66 8.934023 AATCAAATAGGTTCAACAAGGTCTTA 57.066 30.769 0.00 0.00 0.00 2.10
66 67 7.839680 AATCAAATAGGTTCAACAAGGTCTT 57.160 32.000 0.00 0.00 0.00 3.01
67 68 7.839680 AAATCAAATAGGTTCAACAAGGTCT 57.160 32.000 0.00 0.00 0.00 3.85
79 80 9.403583 ACGGACACATTTATAAATCAAATAGGT 57.596 29.630 7.76 0.00 0.00 3.08
83 84 9.677567 GCATACGGACACATTTATAAATCAAAT 57.322 29.630 7.76 0.00 0.00 2.32
84 85 8.678199 TGCATACGGACACATTTATAAATCAAA 58.322 29.630 7.76 0.00 0.00 2.69
85 86 8.214721 TGCATACGGACACATTTATAAATCAA 57.785 30.769 7.76 0.00 0.00 2.57
86 87 7.793927 TGCATACGGACACATTTATAAATCA 57.206 32.000 7.76 0.00 0.00 2.57
87 88 7.688167 CGATGCATACGGACACATTTATAAATC 59.312 37.037 7.76 0.00 0.00 2.17
88 89 7.172532 ACGATGCATACGGACACATTTATAAAT 59.827 33.333 18.34 4.81 34.93 1.40
89 90 6.480651 ACGATGCATACGGACACATTTATAAA 59.519 34.615 18.34 0.00 34.93 1.40
90 91 5.986741 ACGATGCATACGGACACATTTATAA 59.013 36.000 18.34 0.00 34.93 0.98
91 92 5.534407 ACGATGCATACGGACACATTTATA 58.466 37.500 18.34 0.00 34.93 0.98
92 93 4.377021 ACGATGCATACGGACACATTTAT 58.623 39.130 18.34 0.00 34.93 1.40
93 94 3.787785 ACGATGCATACGGACACATTTA 58.212 40.909 18.34 0.00 34.93 1.40
94 95 2.627945 ACGATGCATACGGACACATTT 58.372 42.857 18.34 0.00 34.93 2.32
95 96 2.309528 ACGATGCATACGGACACATT 57.690 45.000 18.34 0.00 34.93 2.71
96 97 2.159099 AGAACGATGCATACGGACACAT 60.159 45.455 18.34 0.00 34.93 3.21
97 98 1.203758 AGAACGATGCATACGGACACA 59.796 47.619 18.34 0.00 34.93 3.72
98 99 1.588404 CAGAACGATGCATACGGACAC 59.412 52.381 18.34 9.37 34.93 3.67
99 100 1.474879 TCAGAACGATGCATACGGACA 59.525 47.619 18.34 1.01 34.93 4.02
100 101 2.203800 TCAGAACGATGCATACGGAC 57.796 50.000 18.34 12.84 34.93 4.79
101 102 2.742774 CATCAGAACGATGCATACGGA 58.257 47.619 18.34 9.54 44.95 4.69
110 111 0.179062 GGCCTCTGCATCAGAACGAT 60.179 55.000 0.00 0.00 40.18 3.73
111 112 1.219124 GGCCTCTGCATCAGAACGA 59.781 57.895 0.00 0.00 40.18 3.85
112 113 2.169789 CGGCCTCTGCATCAGAACG 61.170 63.158 0.00 0.63 40.18 3.95
113 114 1.817099 CCGGCCTCTGCATCAGAAC 60.817 63.158 0.00 0.00 40.18 3.01
114 115 2.586245 CCGGCCTCTGCATCAGAA 59.414 61.111 0.00 0.00 40.18 3.02
115 116 3.473647 CCCGGCCTCTGCATCAGA 61.474 66.667 0.00 0.00 38.25 3.27
116 117 3.457625 CTCCCGGCCTCTGCATCAG 62.458 68.421 0.00 0.00 40.13 2.90
117 118 3.473647 CTCCCGGCCTCTGCATCA 61.474 66.667 0.00 0.00 40.13 3.07
118 119 3.453070 GACTCCCGGCCTCTGCATC 62.453 68.421 0.00 0.00 40.13 3.91
119 120 3.474570 GACTCCCGGCCTCTGCAT 61.475 66.667 0.00 0.00 40.13 3.96
174 175 4.226620 CCCCCTTGCTTAACTCTAAACCTA 59.773 45.833 0.00 0.00 0.00 3.08
184 185 1.989706 TTGTCACCCCCTTGCTTAAC 58.010 50.000 0.00 0.00 0.00 2.01
203 204 6.710597 TGCTCGTATTACCTTCTCTTGTAT 57.289 37.500 0.00 0.00 0.00 2.29
245 246 6.208599 ACCATCCAAATGTAAGTTACCAGTTG 59.791 38.462 10.51 12.54 0.00 3.16
259 260 6.154445 GCATAGCATAGAAACCATCCAAATG 58.846 40.000 0.00 0.00 0.00 2.32
284 285 2.904434 AGATACTTTTCCGTCTGTGGGT 59.096 45.455 0.00 0.00 0.00 4.51
315 316 6.237097 GCTTGCGGTAAACATATGTTTTTACG 60.237 38.462 32.58 30.09 45.07 3.18
324 325 3.275617 TCTGGCTTGCGGTAAACATAT 57.724 42.857 0.00 0.00 0.00 1.78
327 328 1.904287 AATCTGGCTTGCGGTAAACA 58.096 45.000 0.00 0.00 0.00 2.83
354 355 3.716353 TGTTGACCATATACATGCCCTCT 59.284 43.478 0.00 0.00 0.00 3.69
359 360 6.851609 TCAAAAGTGTTGACCATATACATGC 58.148 36.000 0.00 0.00 0.00 4.06
407 408 2.280628 CATCTTTGCCGAGTTAGGTCC 58.719 52.381 0.00 0.00 0.00 4.46
438 439 5.592688 CGGTGGGATAACACTTCCAAAATAT 59.407 40.000 0.00 0.00 41.09 1.28
440 441 3.761752 CGGTGGGATAACACTTCCAAAAT 59.238 43.478 0.00 0.00 41.09 1.82
506 507 1.912043 AGCATTCACTGTAGCCTCCTT 59.088 47.619 0.00 0.00 0.00 3.36
508 509 1.474143 GGAGCATTCACTGTAGCCTCC 60.474 57.143 0.00 0.00 0.00 4.30
516 517 2.768253 TAGTGTGGGAGCATTCACTG 57.232 50.000 6.88 0.00 40.61 3.66
531 532 8.577296 TCCTAGATGAAACTCGGAATATTAGTG 58.423 37.037 0.00 0.00 30.56 2.74
609 620 5.119743 GTCGTCGTGCTAAAACTTAAAGGAT 59.880 40.000 0.00 0.00 0.00 3.24
610 621 4.445385 GTCGTCGTGCTAAAACTTAAAGGA 59.555 41.667 0.00 0.00 0.00 3.36
611 622 4.446719 AGTCGTCGTGCTAAAACTTAAAGG 59.553 41.667 0.00 0.00 0.00 3.11
612 623 5.571778 AGTCGTCGTGCTAAAACTTAAAG 57.428 39.130 0.00 0.00 0.00 1.85
613 624 5.750067 AGAAGTCGTCGTGCTAAAACTTAAA 59.250 36.000 0.00 0.00 0.00 1.52
614 625 5.284079 AGAAGTCGTCGTGCTAAAACTTAA 58.716 37.500 0.00 0.00 0.00 1.85
615 626 4.863491 AGAAGTCGTCGTGCTAAAACTTA 58.137 39.130 0.00 0.00 0.00 2.24
616 627 3.714391 AGAAGTCGTCGTGCTAAAACTT 58.286 40.909 0.00 0.00 0.00 2.66
617 628 3.243301 TGAGAAGTCGTCGTGCTAAAACT 60.243 43.478 0.00 0.00 0.00 2.66
618 629 3.047796 TGAGAAGTCGTCGTGCTAAAAC 58.952 45.455 0.00 0.00 0.00 2.43
685 696 0.253347 ACTGACCCCTCCATCACCAT 60.253 55.000 0.00 0.00 0.00 3.55
743 754 6.968263 TTCAACAAGGTCCAATATTCAACA 57.032 33.333 0.00 0.00 0.00 3.33
988 1007 1.979855 TGGTTCATGTGTTGAGGTGG 58.020 50.000 0.00 0.00 35.27 4.61
1026 1045 1.973812 GCTGAGGGGTTTGAGGTGC 60.974 63.158 0.00 0.00 0.00 5.01
1028 1061 2.750350 CGCTGAGGGGTTTGAGGT 59.250 61.111 0.00 0.00 0.00 3.85
1029 1062 2.747855 GCGCTGAGGGGTTTGAGG 60.748 66.667 0.00 0.00 0.00 3.86
1031 1064 2.281484 GTGCGCTGAGGGGTTTGA 60.281 61.111 9.73 0.00 0.00 2.69
1033 1066 2.185310 CTAGGTGCGCTGAGGGGTTT 62.185 60.000 9.73 0.00 0.00 3.27
1034 1067 2.606519 TAGGTGCGCTGAGGGGTT 60.607 61.111 9.73 0.00 0.00 4.11
1035 1068 3.077556 CTAGGTGCGCTGAGGGGT 61.078 66.667 9.73 0.00 0.00 4.95
1037 1070 3.315142 TTGCTAGGTGCGCTGAGGG 62.315 63.158 9.73 0.00 46.63 4.30
1042 1075 1.746615 CCATGTTGCTAGGTGCGCT 60.747 57.895 9.73 0.00 46.63 5.92
1043 1076 2.040544 ACCATGTTGCTAGGTGCGC 61.041 57.895 0.00 0.00 46.63 6.09
1044 1077 1.796151 CACCATGTTGCTAGGTGCG 59.204 57.895 0.00 0.00 45.39 5.34
1047 1080 0.692476 TGCTCACCATGTTGCTAGGT 59.308 50.000 0.00 0.00 35.65 3.08
1048 1081 1.741706 CTTGCTCACCATGTTGCTAGG 59.258 52.381 0.00 0.00 0.00 3.02
1049 1082 1.131883 GCTTGCTCACCATGTTGCTAG 59.868 52.381 0.00 0.00 0.00 3.42
1050 1083 1.167851 GCTTGCTCACCATGTTGCTA 58.832 50.000 0.00 0.00 0.00 3.49
1227 1282 0.681887 TGGCGATCGGTAGGAAGACA 60.682 55.000 18.30 0.00 0.00 3.41
1240 1295 0.178932 TAGAGGGTGGCTATGGCGAT 60.179 55.000 0.00 0.00 39.81 4.58
1611 2121 0.762418 TGATGTCGGTGAAGGTTGGT 59.238 50.000 0.00 0.00 0.00 3.67
1632 2142 3.071479 TCGGAGCTTGTATTTGTTCACC 58.929 45.455 0.00 0.00 0.00 4.02
1641 2151 1.320344 TGTCGCCTCGGAGCTTGTAT 61.320 55.000 0.00 0.00 0.00 2.29
1722 2232 2.354343 GCTTGCAGGAGGCTCCTT 59.646 61.111 33.30 16.03 46.91 3.36
1764 2274 1.278985 GTGATCTCCATGGACACCACA 59.721 52.381 18.80 9.54 35.80 4.17
1857 2367 4.996434 GTGGACAGCAGCACCGCT 62.996 66.667 0.00 0.00 45.21 5.52
1953 2463 2.989253 TCCTCCTTGAGCGACGCA 60.989 61.111 23.70 0.00 0.00 5.24
2050 2560 2.040544 GGACGACGGACCCTAACGA 61.041 63.158 0.00 0.00 0.00 3.85
2370 2883 3.612247 GAAGCCAGAGCCGAAGCCA 62.612 63.158 0.00 0.00 41.25 4.75
2560 3080 6.650120 CCTGCTTATTACTCCCTCTGTAAAA 58.350 40.000 0.00 0.00 34.20 1.52
2566 3086 3.053359 AGCCTGCTTATTACTCCCTCT 57.947 47.619 0.00 0.00 0.00 3.69
2594 3114 2.032924 TCATACTCTCGTACATGCACCG 59.967 50.000 0.00 0.00 0.00 4.94
2606 3126 1.868498 CGGGACTCGAGTCATACTCTC 59.132 57.143 38.52 23.00 46.47 3.20
2617 3137 1.272490 GATATGATTGCCGGGACTCGA 59.728 52.381 2.18 0.00 42.43 4.04
2625 3145 6.979817 TGAAAAATCAAAGGATATGATTGCCG 59.020 34.615 2.81 0.00 44.53 5.69
2626 3146 8.770828 CATGAAAAATCAAAGGATATGATTGCC 58.229 33.333 2.81 0.00 44.53 4.52
2627 3147 8.280497 GCATGAAAAATCAAAGGATATGATTGC 58.720 33.333 0.00 0.00 44.53 3.56
2685 3264 2.755103 GGGAAGAACACTAGGCAAATGG 59.245 50.000 0.00 0.00 0.00 3.16
2697 3276 6.497259 AGAGTTACAACATCTAGGGAAGAACA 59.503 38.462 0.00 0.00 37.89 3.18
2984 3564 0.972471 GGAGGAGGGGTTGCAAATGG 60.972 60.000 0.00 0.00 0.00 3.16
3004 3584 1.270550 GCAGAACATGGTTTGGGACAG 59.729 52.381 3.12 0.00 42.39 3.51
3007 3587 0.541764 GGGCAGAACATGGTTTGGGA 60.542 55.000 3.12 0.00 0.00 4.37
3011 3591 1.077663 AGATGGGGCAGAACATGGTTT 59.922 47.619 0.00 0.00 0.00 3.27
3012 3592 0.706433 AGATGGGGCAGAACATGGTT 59.294 50.000 0.00 0.00 0.00 3.67
3013 3593 1.595311 TAGATGGGGCAGAACATGGT 58.405 50.000 0.00 0.00 0.00 3.55
3015 3595 1.952296 GCTTAGATGGGGCAGAACATG 59.048 52.381 0.00 0.00 0.00 3.21
3016 3596 1.133668 GGCTTAGATGGGGCAGAACAT 60.134 52.381 0.00 0.00 0.00 2.71
3017 3597 0.255890 GGCTTAGATGGGGCAGAACA 59.744 55.000 0.00 0.00 0.00 3.18
3018 3598 0.466372 GGGCTTAGATGGGGCAGAAC 60.466 60.000 0.00 0.00 0.00 3.01
3071 4124 7.439381 AGAAAATTCTGCATTGTGTTCATCTT 58.561 30.769 0.00 0.00 35.89 2.40
3088 4141 8.951243 ACTTCACTAGGCAAAGATAGAAAATTC 58.049 33.333 7.71 0.00 0.00 2.17
3095 4148 9.469807 CTTACATACTTCACTAGGCAAAGATAG 57.530 37.037 7.71 0.00 0.00 2.08
3096 4149 9.197306 TCTTACATACTTCACTAGGCAAAGATA 57.803 33.333 7.71 0.00 0.00 1.98
3097 4150 8.079211 TCTTACATACTTCACTAGGCAAAGAT 57.921 34.615 7.71 0.00 0.00 2.40
3098 4151 7.363880 CCTCTTACATACTTCACTAGGCAAAGA 60.364 40.741 7.71 0.00 0.00 2.52
3099 4152 6.758886 CCTCTTACATACTTCACTAGGCAAAG 59.241 42.308 0.00 0.00 0.00 2.77
3100 4153 6.439375 TCCTCTTACATACTTCACTAGGCAAA 59.561 38.462 0.00 0.00 0.00 3.68
3103 4156 6.658188 ATCCTCTTACATACTTCACTAGGC 57.342 41.667 0.00 0.00 0.00 3.93
3104 4157 9.226606 CTCTATCCTCTTACATACTTCACTAGG 57.773 40.741 0.00 0.00 0.00 3.02
3147 4201 4.201812 ACTCGAAAATACATCCAACGCATG 60.202 41.667 0.00 0.00 0.00 4.06
3164 4218 1.524848 ACTCGCTCTTGAGACTCGAA 58.475 50.000 1.30 0.00 39.35 3.71
3166 4220 6.656314 ATATATACTCGCTCTTGAGACTCG 57.344 41.667 1.30 0.00 39.35 4.18
3209 4263 5.263968 TCTTATCTTTAGGAGGCGTCTTG 57.736 43.478 6.34 0.00 0.00 3.02
3331 4386 2.029380 TGGTCGTGTTGGTCTACATCAG 60.029 50.000 0.00 0.00 29.82 2.90
3398 4453 1.135139 AGTAACAGCGACATCAGCGAT 59.865 47.619 0.00 0.00 40.04 4.58
3400 4455 0.642291 CAGTAACAGCGACATCAGCG 59.358 55.000 0.00 0.00 40.04 5.18
3402 4457 1.002366 GGCAGTAACAGCGACATCAG 58.998 55.000 0.00 0.00 0.00 2.90
3435 4490 3.511934 TCTGAGTCCTAGAAGAGGCAAAC 59.488 47.826 0.00 0.00 46.25 2.93
3437 4492 3.458044 TCTGAGTCCTAGAAGAGGCAA 57.542 47.619 0.00 0.00 46.25 4.52
3475 4530 2.964911 GGCTGAGTATGCTCGTGTC 58.035 57.895 6.32 0.00 44.48 3.67


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

AutoCloner maintained by Alex Coulton.