Multiple sequence alignment - TraesCS4B01G181700

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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 TraesCS4B01G181700 chr4B 100.000 9402 0 0 1 9402 398576305 398566904 0.000000e+00 17363.0
1 TraesCS4B01G181700 chr4B 79.459 185 35 3 77 260 124917061 124916879 2.760000e-25 128.0
2 TraesCS4B01G181700 chr4A 94.968 7134 207 45 426 7441 150310516 150303417 0.000000e+00 11045.0
3 TraesCS4B01G181700 chr4A 93.686 1552 52 13 7441 8949 150303378 150301830 0.000000e+00 2281.0
4 TraesCS4B01G181700 chr4A 89.429 350 37 0 9000 9349 150235788 150235439 8.670000e-120 442.0
5 TraesCS4B01G181700 chr4A 94.167 120 4 2 260 376 150310649 150310530 7.500000e-41 180.0
6 TraesCS4B01G181700 chr4D 95.757 2875 83 16 2733 5569 322657972 322660845 0.000000e+00 4597.0
7 TraesCS4B01G181700 chr4D 95.858 2173 48 12 520 2662 322655816 322657976 0.000000e+00 3476.0
8 TraesCS4B01G181700 chr4D 92.265 1254 47 14 7751 8982 322663864 322665089 0.000000e+00 1733.0
9 TraesCS4B01G181700 chr4D 95.920 1005 26 11 5567 6568 322661549 322662541 0.000000e+00 1615.0
10 TraesCS4B01G181700 chr4D 96.128 878 28 4 6565 7438 322662585 322663460 0.000000e+00 1428.0
11 TraesCS4B01G181700 chr4D 93.561 497 21 7 22 512 322654974 322655465 0.000000e+00 730.0
12 TraesCS4B01G181700 chr4D 97.444 313 8 0 7441 7753 322663502 322663814 1.390000e-147 534.0
13 TraesCS4B01G181700 chr4D 90.571 403 23 5 9000 9402 322665075 322665462 3.890000e-143 520.0
14 TraesCS4B01G181700 chr4D 83.019 212 34 2 51 260 115406406 115406195 3.470000e-44 191.0
15 TraesCS4B01G181700 chr4D 100.000 29 0 0 6534 6562 467443689 467443717 5.000000e-03 54.7
16 TraesCS4B01G181700 chr1B 92.149 1261 67 9 3443 4693 682075965 682074727 0.000000e+00 1751.0
17 TraesCS4B01G181700 chr1B 91.748 1030 64 7 3443 4468 681991682 681992694 0.000000e+00 1411.0
18 TraesCS4B01G181700 chr1B 91.054 626 46 2 4484 5106 681992756 681993374 0.000000e+00 837.0
19 TraesCS4B01G181700 chr1B 97.030 101 3 0 2886 2986 682076079 682075979 4.510000e-38 171.0
20 TraesCS4B01G181700 chr1B 93.333 105 7 0 5999 6103 681995348 681995452 1.260000e-33 156.0
21 TraesCS4B01G181700 chr1B 93.333 105 7 0 5999 6103 682072789 682072685 1.260000e-33 156.0
22 TraesCS4B01G181700 chr1B 94.059 101 6 0 2886 2986 681991568 681991668 4.550000e-33 154.0
23 TraesCS4B01G181700 chr1D 92.090 1024 56 10 3449 4468 489726890 489727892 0.000000e+00 1419.0
24 TraesCS4B01G181700 chr1D 92.892 408 25 2 4702 5106 489728238 489728644 2.920000e-164 590.0
25 TraesCS4B01G181700 chr1D 94.444 252 13 1 4466 4716 489727971 489728222 4.120000e-103 387.0
26 TraesCS4B01G181700 chr1D 88.444 225 23 3 6228 6452 490321166 490321387 1.560000e-67 268.0
27 TraesCS4B01G181700 chr1D 83.665 251 31 7 3 245 488958207 488957959 2.640000e-55 228.0
28 TraesCS4B01G181700 chr1D 94.215 121 2 5 3443 3560 489726598 489726716 7.500000e-41 180.0
29 TraesCS4B01G181700 chr1D 97.030 101 3 0 2886 2986 489726484 489726584 4.510000e-38 171.0
30 TraesCS4B01G181700 chr1D 91.000 100 9 0 9172 9271 291789640 291789541 1.650000e-27 135.0
31 TraesCS4B01G181700 chr1D 91.250 80 4 1 7221 7297 493965035 493965114 1.290000e-18 106.0
32 TraesCS4B01G181700 chr1D 91.429 70 6 0 6140 6209 490317991 490318060 7.770000e-16 97.1
33 TraesCS4B01G181700 chr5A 86.973 261 32 2 1 259 491322855 491322595 9.230000e-75 292.0
34 TraesCS4B01G181700 chr5A 81.416 113 9 8 5444 5546 590458044 590457934 2.180000e-11 82.4
35 TraesCS4B01G181700 chr3B 86.066 244 29 5 20 260 757936379 757936620 3.370000e-64 257.0
36 TraesCS4B01G181700 chr3B 80.921 152 26 2 9184 9332 629284513 629284664 5.970000e-22 117.0
37 TraesCS4B01G181700 chr3B 92.857 42 1 2 6520 6561 40942871 40942832 1.020000e-04 60.2
38 TraesCS4B01G181700 chr3B 97.143 35 1 0 6537 6571 803845446 803845480 1.020000e-04 60.2
39 TraesCS4B01G181700 chr5D 83.650 263 40 3 9 269 378127671 378127410 2.620000e-60 244.0
40 TraesCS4B01G181700 chr5D 89.855 69 7 0 1026 1094 17477590 17477522 1.300000e-13 89.8
41 TraesCS4B01G181700 chr5D 89.855 69 7 0 1026 1094 20760426 20760494 1.300000e-13 89.8
42 TraesCS4B01G181700 chr5D 81.731 104 11 5 5444 5541 460064331 460064230 7.830000e-11 80.5
43 TraesCS4B01G181700 chr6B 82.692 260 41 4 9 265 35632388 35632646 2.640000e-55 228.0
44 TraesCS4B01G181700 chr6B 77.160 162 20 7 9188 9333 637873010 637873170 2.810000e-10 78.7
45 TraesCS4B01G181700 chr6B 100.000 34 0 0 6535 6568 23292053 23292020 7.880000e-06 63.9
46 TraesCS4B01G181700 chr7B 81.743 241 39 5 1 238 155322977 155323215 7.450000e-46 196.0
47 TraesCS4B01G181700 chr1A 90.909 121 11 0 7221 7341 540664016 540663896 7.550000e-36 163.0
48 TraesCS4B01G181700 chr1A 88.776 98 11 0 9172 9269 363692934 363692837 4.610000e-23 121.0
49 TraesCS4B01G181700 chr1A 100.000 29 0 0 6815 6843 232330033 232330061 5.000000e-03 54.7
50 TraesCS4B01G181700 chr2D 94.505 91 5 0 9181 9271 378360281 378360191 3.540000e-29 141.0
51 TraesCS4B01G181700 chr2D 89.908 109 10 1 9163 9271 18206752 18206645 1.270000e-28 139.0
52 TraesCS4B01G181700 chr2D 87.963 108 13 0 9162 9269 627330498 627330391 2.760000e-25 128.0
53 TraesCS4B01G181700 chr7A 87.611 113 13 1 9160 9271 263716472 263716360 7.660000e-26 130.0
54 TraesCS4B01G181700 chr7A 79.310 116 16 5 5438 5547 48969000 48968887 3.640000e-09 75.0
55 TraesCS4B01G181700 chr7D 91.892 74 6 0 5471 5544 207135180 207135253 4.640000e-18 104.0
56 TraesCS4B01G181700 chr7D 87.838 74 9 0 5471 5544 127218103 127218030 4.680000e-13 87.9
57 TraesCS4B01G181700 chr7D 100.000 35 0 0 6534 6568 480400459 480400493 2.190000e-06 65.8
58 TraesCS4B01G181700 chr2B 79.592 147 18 6 9215 9349 409400155 409400301 2.800000e-15 95.3
59 TraesCS4B01G181700 chr2B 83.495 103 12 5 5444 5545 683014684 683014782 3.620000e-14 91.6
60 TraesCS4B01G181700 chr2B 96.970 33 1 0 9281 9313 157258202 157258234 1.000000e-03 56.5
61 TraesCS4B01G181700 chr2A 86.301 73 7 3 9185 9256 738142743 738142813 1.010000e-09 76.8
62 TraesCS4B01G181700 chr3D 100.000 35 0 0 6534 6568 64483355 64483321 2.190000e-06 65.8
63 TraesCS4B01G181700 chr3A 82.895 76 9 1 7775 7850 430666250 430666321 2.190000e-06 65.8
64 TraesCS4B01G181700 chr5B 100.000 34 0 0 6535 6568 322860183 322860150 7.880000e-06 63.9


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 TraesCS4B01G181700 chr4B 398566904 398576305 9401 True 17363.000000 17363 100.000000 1 9402 1 chr4B.!!$R2 9401
1 TraesCS4B01G181700 chr4A 150301830 150310649 8819 True 4502.000000 11045 94.273667 260 8949 3 chr4A.!!$R2 8689
2 TraesCS4B01G181700 chr4D 322654974 322665462 10488 False 1829.125000 4597 94.688000 22 9402 8 chr4D.!!$F2 9380
3 TraesCS4B01G181700 chr1B 682072685 682076079 3394 True 692.666667 1751 94.170667 2886 6103 3 chr1B.!!$R1 3217
4 TraesCS4B01G181700 chr1B 681991568 681995452 3884 False 639.500000 1411 92.548500 2886 6103 4 chr1B.!!$F1 3217
5 TraesCS4B01G181700 chr1D 489726484 489728644 2160 False 549.400000 1419 94.134200 2886 5106 5 chr1D.!!$F2 2220

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
103 105 0.030638 CTGGTCGGTTTGCAACAAGG 59.969 55.000 0.00 0.00 0.00 3.61 F
796 1170 0.107848 CCGTCGCCATTACCCTTCTT 60.108 55.000 0.00 0.00 0.00 2.52 F
925 1302 0.320683 CACTGACCTCCACAATGCGA 60.321 55.000 0.00 0.00 0.00 5.10 F
1747 2144 1.374190 CTCTTGGCTGCCACTCACT 59.626 57.895 23.30 0.00 30.78 3.41 F
3660 4396 0.318445 GCGCATCCTTGATCCAATGC 60.318 55.000 0.30 8.03 40.81 3.56 F
4346 5118 0.040067 GCAGGCACTTGAGGAAAACG 60.040 55.000 0.00 0.00 34.60 3.60 F
4905 6007 1.198408 ACTGCATGCTGTTCATCGTTG 59.802 47.619 22.97 0.42 31.79 4.10 F
5449 6634 1.525619 GTTGCGATGTATTACCTCCGC 59.474 52.381 13.83 13.83 42.52 5.54 F
6722 9794 1.128507 CAGCAACGCATGTGTTCGTAT 59.871 47.619 21.44 5.50 38.03 3.06 F
7639 10753 0.986019 TGTCCTGGGTGTTGGTCAGT 60.986 55.000 0.00 0.00 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1729 2126 0.250640 AAGTGAGTGGCAGCCAAGAG 60.251 55.000 18.28 0.00 34.18 2.85 R
2415 2822 1.089920 CCTTTGATTCTCCACAGCCG 58.910 55.000 0.00 0.00 0.00 5.52 R
2817 3247 1.676746 CAGCAGTTCCATCCATCCTG 58.323 55.000 0.00 0.00 0.00 3.86 R
3686 4425 1.422161 ATCCATGCCTAGGAGCCCAC 61.422 60.000 14.75 0.00 38.83 4.61 R
5414 6599 0.249868 GCAACAAAACAAGGGCCCTC 60.250 55.000 28.84 4.01 0.00 4.30 R
5494 6679 1.595794 CGCCCAAACGGATGTATGTAC 59.404 52.381 0.00 0.00 0.00 2.90 R
6542 9557 2.070783 GCGACACTTATTTTGGGACGA 58.929 47.619 0.00 0.00 0.00 4.20 R
7267 10342 1.447489 CTGTGAGCTCCTTCGCCAG 60.447 63.158 12.15 3.99 0.00 4.85 R
8030 11196 0.179054 GGGGAGGTAGAAACGGATGC 60.179 60.000 0.00 0.00 0.00 3.91 R
8972 12182 0.179468 TTTGAGGGGTAGCCGTATGC 59.821 55.000 6.07 0.00 41.71 3.14 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
69 70 1.762460 CCTCCATAGTCCCAGCCGT 60.762 63.158 0.00 0.00 0.00 5.68
83 84 0.905357 AGCCGTTGCAGGATCTAACT 59.095 50.000 0.00 0.00 41.13 2.24
86 88 2.544685 CCGTTGCAGGATCTAACTCTG 58.455 52.381 0.00 0.00 0.00 3.35
91 93 1.067821 GCAGGATCTAACTCTGGTCGG 59.932 57.143 0.00 0.00 0.00 4.79
103 105 0.030638 CTGGTCGGTTTGCAACAAGG 59.969 55.000 0.00 0.00 0.00 3.61
126 129 4.278419 GGGCTAGTTGCATAACCCTTTATG 59.722 45.833 0.00 0.81 45.25 1.90
129 132 6.238759 GGCTAGTTGCATAACCCTTTATGAAG 60.239 42.308 8.29 0.00 45.29 3.02
159 162 1.665679 AGTTGCAGAACGTTGACACAG 59.334 47.619 5.00 0.00 37.15 3.66
165 168 1.227853 AACGTTGACACAGAGGGGC 60.228 57.895 0.00 0.00 0.00 5.80
174 177 2.673523 CAGAGGGGCTGGTTCCTG 59.326 66.667 0.00 0.00 41.07 3.86
238 241 4.193334 CTCGCGCAGGATCGGTCA 62.193 66.667 8.75 0.00 0.00 4.02
245 248 1.808411 GCAGGATCGGTCAGTTGAAA 58.192 50.000 0.00 0.00 0.00 2.69
251 254 5.182001 CAGGATCGGTCAGTTGAAAAGAATT 59.818 40.000 0.00 0.00 0.00 2.17
279 282 5.286221 TCCACTTAAATAAGGCTAGTCCCT 58.714 41.667 5.27 0.00 37.62 4.20
489 496 0.678950 AAATCCAAACCCAACGCCTG 59.321 50.000 0.00 0.00 0.00 4.85
490 497 1.815817 AATCCAAACCCAACGCCTGC 61.816 55.000 0.00 0.00 0.00 4.85
491 498 3.989787 CCAAACCCAACGCCTGCC 61.990 66.667 0.00 0.00 0.00 4.85
492 499 2.912025 CAAACCCAACGCCTGCCT 60.912 61.111 0.00 0.00 0.00 4.75
593 950 0.884514 GGAGAAAAGGCTGCTCCAAC 59.115 55.000 20.27 3.10 45.89 3.77
707 1071 3.842923 CTCGTCTCCGCCATGCCT 61.843 66.667 0.00 0.00 0.00 4.75
762 1136 3.787001 CAACCCCTCCGCCTCTCC 61.787 72.222 0.00 0.00 0.00 3.71
763 1137 4.012721 AACCCCTCCGCCTCTCCT 62.013 66.667 0.00 0.00 0.00 3.69
796 1170 0.107848 CCGTCGCCATTACCCTTCTT 60.108 55.000 0.00 0.00 0.00 2.52
851 1225 1.454295 AACCTCCGCCCGTTTGTTT 60.454 52.632 0.00 0.00 0.00 2.83
900 1277 2.100252 TCCGTCCAGCGATTAGTTAAGG 59.900 50.000 0.00 0.00 44.77 2.69
925 1302 0.320683 CACTGACCTCCACAATGCGA 60.321 55.000 0.00 0.00 0.00 5.10
1149 1533 1.687494 CGCCTGTAAGTGCTCGCTTC 61.687 60.000 0.00 0.00 0.00 3.86
1377 1774 8.368668 ACATACTTGATACTTCAGTATTAGGGC 58.631 37.037 0.97 0.00 40.99 5.19
1396 1793 3.006537 GGGCCGTATAGTTGCTCATAGAA 59.993 47.826 0.00 0.00 0.00 2.10
1717 2114 6.946340 TCTTCATTTGTAAGGAGCAGATGTA 58.054 36.000 0.00 0.00 32.42 2.29
1729 2126 5.703130 AGGAGCAGATGTAAGTTTCTGAAAC 59.297 40.000 22.40 22.40 41.53 2.78
1747 2144 1.374190 CTCTTGGCTGCCACTCACT 59.626 57.895 23.30 0.00 30.78 3.41
1923 2320 4.724399 TCCTTGGATGTCAAACTTTAGCA 58.276 39.130 0.00 0.00 34.56 3.49
1944 2341 4.618227 GCAAGGTTTATTTACAGCCAGGTG 60.618 45.833 0.00 0.00 0.00 4.00
1994 2392 8.947940 GCTTAGAGTTATAAACATTGCATTTCG 58.052 33.333 0.00 0.00 0.00 3.46
2044 2443 7.220491 GGCTACTACTCGAGTCACTTTATTTTC 59.780 40.741 23.89 0.91 39.81 2.29
2340 2747 6.540189 AGATCTGGTTTATGAAGGAACATTCG 59.460 38.462 0.00 0.00 31.52 3.34
2398 2805 6.147864 TCAGTTCTTTTAGTTGCATTGCTT 57.852 33.333 10.49 0.00 0.00 3.91
2415 2822 6.292168 GCATTGCTTCATTGATCATTACTTGC 60.292 38.462 0.16 0.00 0.00 4.01
2438 2845 3.006247 GCTGTGGAGAATCAAAGGAGAC 58.994 50.000 0.00 0.00 36.25 3.36
2460 2867 5.925509 ACTAAGCTTGTTTCTTGGACAGTA 58.074 37.500 9.86 0.00 0.00 2.74
2472 2879 5.794894 TCTTGGACAGTAGAGTTCCAAATC 58.205 41.667 3.99 0.00 39.59 2.17
2507 2914 2.918131 GCTTGCTTAGTTGCTCGTTTGG 60.918 50.000 0.00 0.00 0.00 3.28
2685 3102 9.110502 GAATTCCGTTATGGTTTCTCTATTTCT 57.889 33.333 0.00 0.00 39.52 2.52
2699 3116 6.637657 TCTCTATTTCTTTCGGGGAGTTTAC 58.362 40.000 0.00 0.00 0.00 2.01
2704 3121 4.426736 TCTTTCGGGGAGTTTACACTTT 57.573 40.909 0.00 0.00 31.22 2.66
2709 3126 3.387374 TCGGGGAGTTTACACTTTGTGTA 59.613 43.478 6.48 6.48 45.56 2.90
2742 3160 8.131100 TGTTGATAAGCTCTTGAAGAACTTTTG 58.869 33.333 15.14 0.00 33.22 2.44
2767 3187 8.143193 TGTTTCTCAAGTTTAATGCAATGATGT 58.857 29.630 0.00 0.00 0.00 3.06
2817 3247 3.500680 TGCAGTCGGTCTTGGAAAATTAC 59.499 43.478 0.00 0.00 0.00 1.89
2853 3283 2.015588 GCTGGTGGTGATGATGACAGG 61.016 57.143 0.00 0.00 0.00 4.00
2968 3398 5.161358 CAACAACTACTAGACTGCGATCAA 58.839 41.667 0.00 0.00 0.00 2.57
2973 3403 4.700692 ACTACTAGACTGCGATCAACAAGA 59.299 41.667 0.00 0.00 0.00 3.02
3154 3584 5.656859 TCTGTATGGTGTCTAGCAATAGTGT 59.343 40.000 0.00 0.00 37.91 3.55
3341 3772 4.305989 TGCAGAAAAAGAGCACGAAAAT 57.694 36.364 0.00 0.00 32.55 1.82
3349 3781 5.567138 AAAGAGCACGAAAATATGGAAGG 57.433 39.130 0.00 0.00 0.00 3.46
3660 4396 0.318445 GCGCATCCTTGATCCAATGC 60.318 55.000 0.30 8.03 40.81 3.56
3696 4435 2.334977 TGAAGAAACAGTGGGCTCCTA 58.665 47.619 0.00 0.00 0.00 2.94
3884 4630 3.483421 TGGCATGCTATGAAGATCCTTG 58.517 45.455 18.92 0.00 0.00 3.61
3987 4734 5.163903 ACACTTTGTTTGGCGTTTTCAATTC 60.164 36.000 0.00 0.00 0.00 2.17
4035 4782 1.532437 TGCTGTGATTGCTCGTTTCTG 59.468 47.619 0.00 0.00 0.00 3.02
4186 4954 5.231991 GCAACGAACAATTGATTTTGACTGT 59.768 36.000 13.59 0.00 0.00 3.55
4313 5085 1.002033 GTTGCTCCTGAACTTGCAGTG 60.002 52.381 0.00 0.00 36.75 3.66
4346 5118 0.040067 GCAGGCACTTGAGGAAAACG 60.040 55.000 0.00 0.00 34.60 3.60
4905 6007 1.198408 ACTGCATGCTGTTCATCGTTG 59.802 47.619 22.97 0.42 31.79 4.10
4954 6056 3.192212 GCTACTTCTGCCATTCTTTGCTT 59.808 43.478 0.00 0.00 0.00 3.91
5134 6239 6.801539 TCAGAGTACCTATTTGCAACAAAG 57.198 37.500 0.00 0.00 0.00 2.77
5263 6443 2.626743 GCATGATGATGGGAAGGAAAGG 59.373 50.000 0.00 0.00 0.00 3.11
5288 6468 7.420214 GGAACACCCATGAAGAGGATAATAAGA 60.420 40.741 0.00 0.00 34.14 2.10
5449 6634 1.525619 GTTGCGATGTATTACCTCCGC 59.474 52.381 13.83 13.83 42.52 5.54
5486 6671 5.055144 ACGCTCAGATGTATCTAGACGTAA 58.945 41.667 0.00 0.00 34.85 3.18
5494 6679 7.805542 CAGATGTATCTAGACGTAATTCAGTGG 59.194 40.741 0.00 0.00 34.85 4.00
5590 7950 8.424918 CACTTAGAGGGATACACAACTCATTAT 58.575 37.037 0.00 0.00 39.74 1.28
5994 8655 8.342634 TCGCATTATCTTGGCTAAGTAAATTTC 58.657 33.333 9.87 4.90 35.38 2.17
6141 9154 5.652014 TGAAATTTATGATCGCCTGTTTCCT 59.348 36.000 0.00 0.00 0.00 3.36
6160 9173 2.289820 CCTCATCCGCATCATGAAGTTG 59.710 50.000 0.00 0.00 29.74 3.16
6170 9183 5.152097 GCATCATGAAGTTGACTTGTCTTG 58.848 41.667 0.00 0.00 36.11 3.02
6542 9557 9.558133 AAAGTATTACTTCTAAGGTACTCCCTT 57.442 33.333 9.45 0.00 46.14 3.95
6659 9721 8.527567 TTCTTTGGTGAAACTTTACTTTGTTG 57.472 30.769 0.00 0.00 36.74 3.33
6722 9794 1.128507 CAGCAACGCATGTGTTCGTAT 59.871 47.619 21.44 5.50 38.03 3.06
6766 9838 7.040409 CCTCACTTTAATGGTAGCTTTCTTGTT 60.040 37.037 0.00 0.00 0.00 2.83
6810 9882 9.305925 CCCAATTATCTCTTCAATAACTTTTGC 57.694 33.333 0.00 0.00 0.00 3.68
7139 10214 6.098124 TCCTGTGAGAATGGTTCAATTTTGTT 59.902 34.615 0.00 0.00 0.00 2.83
7140 10215 6.201425 CCTGTGAGAATGGTTCAATTTTGTTG 59.799 38.462 0.00 0.00 0.00 3.33
7267 10342 2.408271 TCAGATGGACAAGGATGCAC 57.592 50.000 0.00 0.00 0.00 4.57
7408 10483 3.517500 TGATGAGGTATGCCACTTACACA 59.482 43.478 1.54 0.00 37.19 3.72
7418 10493 2.890945 GCCACTTACACAAAATGGTCCT 59.109 45.455 0.00 0.00 32.71 3.85
7434 10509 4.834534 TGGTCCTTACTAATAGCGCAAAA 58.165 39.130 11.47 0.00 0.00 2.44
7554 10668 1.134521 TCGGTAGATGGTGGATTGCAC 60.135 52.381 0.00 0.00 0.00 4.57
7639 10753 0.986019 TGTCCTGGGTGTTGGTCAGT 60.986 55.000 0.00 0.00 0.00 3.41
7697 10811 1.365368 CTGTTGCACACGGTGACACA 61.365 55.000 16.29 10.06 35.23 3.72
7710 10824 3.304257 CGGTGACACAGTTTACTACTCGT 60.304 47.826 8.08 0.00 33.85 4.18
7713 10827 5.521372 GGTGACACAGTTTACTACTCGTTTT 59.479 40.000 8.08 0.00 33.85 2.43
7761 10927 5.470098 ACCTGTTGTGAAATACATGTCACTC 59.530 40.000 0.00 3.36 43.73 3.51
7851 11017 3.056607 CACCCAATGTTGAATTCCTGGAC 60.057 47.826 2.27 0.00 0.00 4.02
7859 11025 3.282374 AATTCCTGGACCCGCCACC 62.282 63.158 0.00 0.00 43.33 4.61
7953 11119 4.170256 CCACCGCAAAACATTGTTATACC 58.830 43.478 1.76 0.00 0.00 2.73
7955 11121 5.465935 CACCGCAAAACATTGTTATACCTT 58.534 37.500 1.76 0.00 0.00 3.50
7958 11124 5.571357 CCGCAAAACATTGTTATACCTTGTC 59.429 40.000 1.76 0.42 0.00 3.18
8071 11237 0.107410 TCCCATACGGCACAATGACC 60.107 55.000 0.00 0.00 0.00 4.02
8299 11465 2.322355 ATTCCTGTGGCTTCGAGATG 57.678 50.000 0.00 0.00 0.00 2.90
8314 11480 0.246360 AGATGAACCGCACGTCATCA 59.754 50.000 19.47 8.57 40.82 3.07
8368 11534 1.087501 GCCCATTCGACAACTTCCTC 58.912 55.000 0.00 0.00 0.00 3.71
8463 11643 7.478520 TCTAAGCTTTGAACACTAGTTTGTC 57.521 36.000 3.20 0.00 38.30 3.18
8683 11865 2.437281 TCTGGGCATCTCTCCATTTCTC 59.563 50.000 0.00 0.00 31.95 2.87
8729 11911 0.388006 ACAAAGCAAAATACGCCCGC 60.388 50.000 0.00 0.00 0.00 6.13
8745 11927 2.264794 GCTGAATCGTGGGACGGT 59.735 61.111 0.00 0.00 42.81 4.83
8786 11968 3.556633 GCATCAGGTATCAGCTACTGCAT 60.557 47.826 0.00 0.00 42.74 3.96
8790 11972 4.649218 TCAGGTATCAGCTACTGCATGTTA 59.351 41.667 0.00 0.00 42.74 2.41
8813 11995 9.956720 GTTATATATTTGAGCAGCAGTCATTTT 57.043 29.630 0.00 0.00 0.00 1.82
8823 12005 6.789262 AGCAGCAGTCATTTTTGTGTATATC 58.211 36.000 0.00 0.00 0.00 1.63
8869 12056 7.856894 GTGCAATGCTTTAAACATTTCACAATT 59.143 29.630 23.84 4.00 45.21 2.32
8890 12100 3.068560 TGTTAAAGGTATGCGCGAGTTT 58.931 40.909 12.10 1.58 0.00 2.66
8967 12177 0.767998 TGGCCAACATACTGACCACA 59.232 50.000 0.61 0.00 0.00 4.17
8968 12178 1.143889 TGGCCAACATACTGACCACAA 59.856 47.619 0.61 0.00 0.00 3.33
8969 12179 1.812571 GGCCAACATACTGACCACAAG 59.187 52.381 0.00 0.00 0.00 3.16
8970 12180 2.552155 GGCCAACATACTGACCACAAGA 60.552 50.000 0.00 0.00 0.00 3.02
8971 12181 3.146066 GCCAACATACTGACCACAAGAA 58.854 45.455 0.00 0.00 0.00 2.52
8972 12182 3.189287 GCCAACATACTGACCACAAGAAG 59.811 47.826 0.00 0.00 0.00 2.85
8973 12183 3.189287 CCAACATACTGACCACAAGAAGC 59.811 47.826 0.00 0.00 0.00 3.86
8974 12184 3.769739 ACATACTGACCACAAGAAGCA 57.230 42.857 0.00 0.00 0.00 3.91
8975 12185 4.292186 ACATACTGACCACAAGAAGCAT 57.708 40.909 0.00 0.00 0.00 3.79
8976 12186 5.420725 ACATACTGACCACAAGAAGCATA 57.579 39.130 0.00 0.00 0.00 3.14
8977 12187 5.178797 ACATACTGACCACAAGAAGCATAC 58.821 41.667 0.00 0.00 0.00 2.39
8978 12188 2.688507 ACTGACCACAAGAAGCATACG 58.311 47.619 0.00 0.00 0.00 3.06
8979 12189 2.002586 CTGACCACAAGAAGCATACGG 58.997 52.381 0.00 0.00 0.00 4.02
8980 12190 0.727398 GACCACAAGAAGCATACGGC 59.273 55.000 0.00 0.00 45.30 5.68
8989 12199 3.546009 GCATACGGCTACCCCTCA 58.454 61.111 0.00 0.00 40.25 3.86
8990 12200 1.827394 GCATACGGCTACCCCTCAA 59.173 57.895 0.00 0.00 40.25 3.02
8991 12201 0.179468 GCATACGGCTACCCCTCAAA 59.821 55.000 0.00 0.00 40.25 2.69
8992 12202 1.407712 GCATACGGCTACCCCTCAAAA 60.408 52.381 0.00 0.00 40.25 2.44
8993 12203 2.942306 GCATACGGCTACCCCTCAAAAA 60.942 50.000 0.00 0.00 40.25 1.94
9042 12252 4.057432 GTGTGACAAAATCCCAATTGTGG 58.943 43.478 4.43 5.70 45.53 4.17
9077 12287 6.743575 ACATGTGTAGAAAGAATTGTAGGC 57.256 37.500 0.00 0.00 0.00 3.93
9092 12302 4.106029 TGTAGGCGACTAGCTTTAGTTG 57.894 45.455 0.00 0.00 45.49 3.16
9183 12393 5.570234 TTGGACCGGAATATTTAGCAAAC 57.430 39.130 9.46 0.00 0.00 2.93
9186 12396 4.095334 GGACCGGAATATTTAGCAAACGTT 59.905 41.667 9.46 0.00 0.00 3.99
9218 12428 3.498018 GGCAAGGCAAATCGAATGTTTTT 59.502 39.130 0.00 0.00 0.00 1.94
9220 12430 4.210955 GCAAGGCAAATCGAATGTTTTTCA 59.789 37.500 0.00 0.00 0.00 2.69
9223 12433 4.931002 AGGCAAATCGAATGTTTTTCATGG 59.069 37.500 0.00 0.00 36.81 3.66
9256 12466 0.036306 CCGAGGGTGGCAAGTTTAGT 59.964 55.000 0.00 0.00 0.00 2.24
9301 12511 0.740737 GCCATGCTCGCCAACTAAAT 59.259 50.000 0.00 0.00 0.00 1.40
9304 12514 3.181397 CCATGCTCGCCAACTAAATTTG 58.819 45.455 0.00 0.00 0.00 2.32
9336 12546 4.081531 ACACCAACATAAATTGCCATGAGG 60.082 41.667 0.00 6.07 38.23 3.86
9340 12550 4.637483 ACATAAATTGCCATGAGGAACG 57.363 40.909 0.00 0.00 36.89 3.95
9342 12552 4.096382 ACATAAATTGCCATGAGGAACGTC 59.904 41.667 0.00 0.00 36.89 4.34
9343 12553 2.198827 AATTGCCATGAGGAACGTCA 57.801 45.000 0.00 0.00 36.89 4.35
9344 12554 1.742761 ATTGCCATGAGGAACGTCAG 58.257 50.000 0.00 0.00 36.89 3.51
9345 12555 0.684535 TTGCCATGAGGAACGTCAGA 59.315 50.000 0.00 0.00 36.89 3.27
9346 12556 0.904649 TGCCATGAGGAACGTCAGAT 59.095 50.000 0.00 0.00 36.89 2.90
9347 12557 1.278985 TGCCATGAGGAACGTCAGATT 59.721 47.619 0.00 0.00 36.89 2.40
9348 12558 2.290260 TGCCATGAGGAACGTCAGATTT 60.290 45.455 0.00 0.00 36.89 2.17
9349 12559 2.749621 GCCATGAGGAACGTCAGATTTT 59.250 45.455 0.00 0.00 36.89 1.82
9350 12560 3.191371 GCCATGAGGAACGTCAGATTTTT 59.809 43.478 0.00 0.00 36.89 1.94
9351 12561 4.394920 GCCATGAGGAACGTCAGATTTTTA 59.605 41.667 0.00 0.00 36.89 1.52
9352 12562 5.447818 GCCATGAGGAACGTCAGATTTTTAG 60.448 44.000 0.00 0.00 36.89 1.85
9353 12563 5.447818 CCATGAGGAACGTCAGATTTTTAGC 60.448 44.000 0.00 0.00 36.89 3.09
9354 12564 4.637276 TGAGGAACGTCAGATTTTTAGCA 58.363 39.130 0.00 0.00 0.00 3.49
9355 12565 5.245531 TGAGGAACGTCAGATTTTTAGCAT 58.754 37.500 0.00 0.00 0.00 3.79
9356 12566 5.705441 TGAGGAACGTCAGATTTTTAGCATT 59.295 36.000 0.00 0.00 0.00 3.56
9357 12567 6.206634 TGAGGAACGTCAGATTTTTAGCATTT 59.793 34.615 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.117372 CGGTGTAGGCCTACGAGG 58.883 66.667 32.52 21.50 38.85 4.63
5 6 2.412112 GCGGTGTAGGCCTACGAG 59.588 66.667 32.52 26.21 38.85 4.18
56 57 1.221840 CTGCAACGGCTGGGACTAT 59.778 57.895 0.00 0.00 41.91 2.12
69 70 2.166459 CGACCAGAGTTAGATCCTGCAA 59.834 50.000 0.00 0.00 0.00 4.08
103 105 2.437085 AAGGGTTATGCAACTAGCCC 57.563 50.000 10.48 10.48 44.83 5.19
126 129 3.683581 GCAACTCGTCCATTGCTTC 57.316 52.632 1.80 0.00 46.21 3.86
159 162 2.671682 GTCAGGAACCAGCCCCTC 59.328 66.667 0.00 0.00 0.00 4.30
174 177 5.189180 GGATGGGCTATTAATCAGATGGTC 58.811 45.833 0.00 0.00 0.00 4.02
178 181 7.036154 TCATTGGATGGGCTATTAATCAGAT 57.964 36.000 0.00 0.00 0.00 2.90
224 227 2.125512 AACTGACCGATCCTGCGC 60.126 61.111 0.00 0.00 0.00 6.09
251 254 9.623000 GGACTAGCCTTATTTAAGTGGAAAATA 57.377 33.333 0.00 0.00 0.00 1.40
412 419 8.437575 GGATTCTTAACAATGGAGGGTTATCTA 58.562 37.037 0.00 0.00 30.29 1.98
489 496 3.364441 TGACGCACATGGCAAGGC 61.364 61.111 0.00 0.00 45.17 4.35
490 497 1.968017 AGTGACGCACATGGCAAGG 60.968 57.895 11.58 0.00 45.17 3.61
491 498 1.208358 CAGTGACGCACATGGCAAG 59.792 57.895 11.58 0.00 45.17 4.01
492 499 1.525765 ACAGTGACGCACATGGCAA 60.526 52.632 11.58 0.00 45.17 4.52
707 1071 1.359474 AGCTAGGTCAGGAGAGTCCAA 59.641 52.381 0.00 0.00 39.61 3.53
790 1164 2.202623 CCGCGACGAGGAAGAAGG 60.203 66.667 12.82 0.00 0.00 3.46
847 1221 3.702045 CCAAGTTACCTCCAAACCAAACA 59.298 43.478 0.00 0.00 0.00 2.83
851 1225 2.107552 CCTCCAAGTTACCTCCAAACCA 59.892 50.000 0.00 0.00 0.00 3.67
900 1277 0.984230 TGTGGAGGTCAGTGGGATTC 59.016 55.000 0.00 0.00 0.00 2.52
1122 1506 0.320374 CACTTACAGGCGTCTTGGGA 59.680 55.000 0.00 0.00 0.00 4.37
1149 1533 2.823829 GCCGGCCAACAATAGCGAG 61.824 63.158 18.11 0.00 0.00 5.03
1255 1652 2.824689 TAACCATGTGACATGGCCAT 57.175 45.000 37.19 26.93 42.82 4.40
1324 1721 3.004734 GCATTAGTGTGTCCTTTGCAAGT 59.995 43.478 0.00 0.00 0.00 3.16
1377 1774 8.046294 ACTCTATTCTATGAGCAACTATACGG 57.954 38.462 0.00 0.00 33.92 4.02
1396 1793 4.080299 CCCTCCTGCAAAGGTAAACTCTAT 60.080 45.833 12.56 0.00 31.51 1.98
1429 1826 6.425504 GCATAACTTCATGATTTTCCTCTCG 58.574 40.000 0.00 0.00 0.00 4.04
1729 2126 0.250640 AAGTGAGTGGCAGCCAAGAG 60.251 55.000 18.28 0.00 34.18 2.85
1923 2320 4.086457 CCACCTGGCTGTAAATAAACCTT 58.914 43.478 0.00 0.00 0.00 3.50
1944 2341 3.245016 TGTCTGATCCATCATAATGCCCC 60.245 47.826 0.00 0.00 36.02 5.80
1994 2392 6.709846 CCTTTCATGATTAGGAGGAACAGATC 59.290 42.308 15.93 0.00 0.00 2.75
2340 2747 8.408601 ACCTCATCAAAATCAGCAAATATGTAC 58.591 33.333 0.00 0.00 0.00 2.90
2398 2805 3.313249 CAGCCGCAAGTAATGATCAATGA 59.687 43.478 0.00 0.00 0.00 2.57
2415 2822 1.089920 CCTTTGATTCTCCACAGCCG 58.910 55.000 0.00 0.00 0.00 5.52
2438 2845 6.223852 TCTACTGTCCAAGAAACAAGCTTAG 58.776 40.000 0.00 0.00 0.00 2.18
2460 2867 2.039084 AGGTTGAGCGATTTGGAACTCT 59.961 45.455 0.00 0.00 0.00 3.24
2472 2879 3.749981 AAGCAACCAGGTTGAGCG 58.250 55.556 33.10 9.67 45.28 5.03
2507 2914 6.998673 AGCATTCTATTGGTAATAACCTGGTC 59.001 38.462 0.00 0.00 46.91 4.02
2685 3102 3.628487 CACAAAGTGTAAACTCCCCGAAA 59.372 43.478 0.00 0.00 0.00 3.46
2699 3116 8.903570 TTATCAACAAAACAGTACACAAAGTG 57.096 30.769 0.00 0.00 39.75 3.16
2704 3121 6.765989 AGAGCTTATCAACAAAACAGTACACA 59.234 34.615 0.00 0.00 0.00 3.72
2709 3126 6.942532 TCAAGAGCTTATCAACAAAACAGT 57.057 33.333 0.00 0.00 0.00 3.55
2742 3160 8.524870 ACATCATTGCATTAAACTTGAGAAAC 57.475 30.769 0.00 0.00 0.00 2.78
2767 3187 5.240844 TCTGTCACGTCAAAGAGAGAACATA 59.759 40.000 0.00 0.00 32.06 2.29
2817 3247 1.676746 CAGCAGTTCCATCCATCCTG 58.323 55.000 0.00 0.00 0.00 3.86
2968 3398 2.961741 TCAGTGCTGAAGAGTCTCTTGT 59.038 45.455 19.95 0.00 36.73 3.16
2973 3403 1.617850 CTGGTCAGTGCTGAAGAGTCT 59.382 52.381 3.19 0.00 41.85 3.24
3078 3508 7.120432 TGCAGTAAAAGTGTGTATGATATGCAA 59.880 33.333 0.00 0.00 34.79 4.08
3083 3513 7.120432 TGCAATGCAGTAAAAGTGTGTATGATA 59.880 33.333 2.72 0.00 33.32 2.15
3349 3781 7.092716 TCTGCTATGCTTCAAAAGGAAATTTC 58.907 34.615 9.83 9.83 34.44 2.17
3686 4425 1.422161 ATCCATGCCTAGGAGCCCAC 61.422 60.000 14.75 0.00 38.83 4.61
3696 4435 2.429610 CAAGCAAAGCTAATCCATGCCT 59.570 45.455 0.00 0.00 38.25 4.75
4186 4954 1.207089 GGTCCAGATGACGGATGACAA 59.793 52.381 0.00 0.00 45.46 3.18
4313 5085 2.263741 CCTGCACAAGTCACCTGCC 61.264 63.158 0.00 0.00 0.00 4.85
4346 5118 0.392336 CTGACTCCATGGCCTCTAGC 59.608 60.000 6.96 0.00 42.60 3.42
4820 5922 6.648310 TCTGAACTTCATCACATCACTCTTTC 59.352 38.462 0.00 0.00 0.00 2.62
4905 6007 2.961526 TCACGGAGTAGAATTCTGCC 57.038 50.000 18.47 14.45 41.61 4.85
5134 6239 3.849911 TGGTGATCGAGATTGACACTTC 58.150 45.455 0.00 0.00 0.00 3.01
5263 6443 7.509546 TCTTATTATCCTCTTCATGGGTGTTC 58.490 38.462 0.00 0.00 0.00 3.18
5288 6468 2.209273 GCTTTTTCGTGCCCAAACATT 58.791 42.857 0.00 0.00 0.00 2.71
5409 6594 2.351924 AAAACAAGGGCCCTCGCAGA 62.352 55.000 28.84 0.00 36.38 4.26
5414 6599 0.249868 GCAACAAAACAAGGGCCCTC 60.250 55.000 28.84 4.01 0.00 4.30
5449 6634 5.188327 TCTGAGCGTCAACTAATATGGAG 57.812 43.478 0.00 0.00 0.00 3.86
5486 6671 5.353394 AACGGATGTATGTACCACTGAAT 57.647 39.130 0.00 0.00 0.00 2.57
5494 6679 1.595794 CGCCCAAACGGATGTATGTAC 59.404 52.381 0.00 0.00 0.00 2.90
5900 8561 6.159299 AGATGAGACCATTGACATGACTAG 57.841 41.667 0.00 0.00 32.09 2.57
5970 8631 8.413229 TGGAAATTTACTTAGCCAAGATAATGC 58.587 33.333 1.27 0.00 35.60 3.56
5994 8655 6.202570 CACCAAAACCACTATTTCAACATTGG 59.797 38.462 0.00 0.00 39.49 3.16
6141 9154 2.938451 GTCAACTTCATGATGCGGATGA 59.062 45.455 8.45 5.89 0.00 2.92
6160 9173 6.922957 TGGAAAAATTGCATACAAGACAAGTC 59.077 34.615 0.00 0.00 39.69 3.01
6170 9183 3.430790 GGCCTCCTGGAAAAATTGCATAC 60.431 47.826 0.00 0.00 34.57 2.39
6235 9248 2.148446 TCCAGCAAAAGCCAGCATAT 57.852 45.000 0.00 0.00 0.00 1.78
6311 9324 7.356641 TCTGTACTACAACTGAGTACTTACG 57.643 40.000 12.69 0.00 46.30 3.18
6378 9391 8.239998 ACTTCTTCTTTTGAGAAAACTGAAGTG 58.760 33.333 15.05 9.28 37.50 3.16
6542 9557 2.070783 GCGACACTTATTTTGGGACGA 58.929 47.619 0.00 0.00 0.00 4.20
6639 9701 8.664211 AAAAACAACAAAGTAAAGTTTCACCA 57.336 26.923 0.00 0.00 31.80 4.17
6722 9794 4.022416 GTGAGGCACACCAATGAACATTAA 60.022 41.667 3.47 0.00 43.05 1.40
6766 9838 2.594303 CAACGGGCACAGAAGGCA 60.594 61.111 0.00 0.00 35.46 4.75
6810 9882 2.561419 TGAACGGAGGGAGTAGAACAAG 59.439 50.000 0.00 0.00 0.00 3.16
6865 9939 4.338118 AGCAAACGTTCAGGAAATTGAAGA 59.662 37.500 0.00 0.00 37.72 2.87
7139 10214 3.250762 GCAGTGTCAACAGCAAATAGACA 59.749 43.478 0.00 0.00 38.60 3.41
7140 10215 3.250762 TGCAGTGTCAACAGCAAATAGAC 59.749 43.478 0.00 0.00 44.79 2.59
7169 10244 6.146140 TCAGTATATGATCTCACTAGGGCT 57.854 41.667 0.00 0.00 31.12 5.19
7267 10342 1.447489 CTGTGAGCTCCTTCGCCAG 60.447 63.158 12.15 3.99 0.00 4.85
7408 10483 5.433526 TGCGCTATTAGTAAGGACCATTTT 58.566 37.500 9.73 0.00 0.00 1.82
7418 10493 6.962678 GGAAACGAATTTTGCGCTATTAGTAA 59.037 34.615 9.73 0.00 0.00 2.24
7434 10509 5.632347 CGTACAGTACAAGAAGGAAACGAAT 59.368 40.000 11.37 0.00 0.00 3.34
7485 10599 4.333926 GCAAAAGGACACATATGAGGAGAC 59.666 45.833 10.38 0.00 0.00 3.36
7489 10603 5.105635 ACAATGCAAAAGGACACATATGAGG 60.106 40.000 10.38 3.64 0.00 3.86
7494 10608 5.565509 TCCTACAATGCAAAAGGACACATA 58.434 37.500 0.00 0.00 33.18 2.29
7554 10668 5.351465 AGCAGTATTTGTAATTGGTGAGTCG 59.649 40.000 0.00 0.00 0.00 4.18
7639 10753 2.695359 GGTACTCACCGATTCAAGCAA 58.305 47.619 0.00 0.00 34.36 3.91
7713 10827 3.820467 CCACACAAGAACTATGAGCCAAA 59.180 43.478 0.00 0.00 0.00 3.28
7761 10927 3.265791 GGCAATACAGTCAGTTCAGGAG 58.734 50.000 0.00 0.00 0.00 3.69
7859 11025 4.697756 TGAAAGGGGGCTCGTGCG 62.698 66.667 3.02 0.00 40.82 5.34
7864 11030 0.328258 TAGCAAGTGAAAGGGGGCTC 59.672 55.000 0.00 0.00 33.10 4.70
7935 11101 6.378582 AGACAAGGTATAACAATGTTTTGCG 58.621 36.000 3.17 0.00 36.22 4.85
7953 11119 3.318839 TCAGAACCCAATGCAAAGACAAG 59.681 43.478 0.00 0.00 0.00 3.16
7955 11121 2.886523 CTCAGAACCCAATGCAAAGACA 59.113 45.455 0.00 0.00 0.00 3.41
7958 11124 4.074970 ACTACTCAGAACCCAATGCAAAG 58.925 43.478 0.00 0.00 0.00 2.77
8030 11196 0.179054 GGGGAGGTAGAAACGGATGC 60.179 60.000 0.00 0.00 0.00 3.91
8071 11237 0.679002 CCAGGGCCTCACATTGACTG 60.679 60.000 0.95 0.00 0.00 3.51
8299 11465 1.687494 GCTCTGATGACGTGCGGTTC 61.687 60.000 0.00 0.00 0.00 3.62
8463 11643 2.648059 CCAGGAGGCCAAGTCATTAAG 58.352 52.381 5.01 0.00 0.00 1.85
8683 11865 1.995484 TCGTTCTAGACTACACGGACG 59.005 52.381 13.24 8.53 33.39 4.79
8729 11911 1.447838 CCACCGTCCCACGATTCAG 60.448 63.158 0.00 0.00 46.05 3.02
8759 11941 1.502163 GCTGATACCTGATGCGGCAC 61.502 60.000 4.03 0.00 33.01 5.01
8786 11968 8.681486 AATGACTGCTGCTCAAATATATAACA 57.319 30.769 0.00 0.00 0.00 2.41
8790 11972 8.472413 ACAAAAATGACTGCTGCTCAAATATAT 58.528 29.630 0.00 0.00 0.00 0.86
8813 11995 5.168647 ACCCGTTTTCAGGATATACACAA 57.831 39.130 0.00 0.00 0.00 3.33
8823 12005 2.946990 ACTTGTGTAACCCGTTTTCAGG 59.053 45.455 0.00 0.00 34.36 3.86
8830 12012 1.606668 CATTGCACTTGTGTAACCCGT 59.393 47.619 6.44 0.00 34.36 5.28
8831 12013 1.665735 GCATTGCACTTGTGTAACCCG 60.666 52.381 3.15 1.06 34.36 5.28
8869 12056 2.373540 ACTCGCGCATACCTTTAACA 57.626 45.000 8.75 0.00 0.00 2.41
8890 12100 5.363562 AGACATCAATGAAGCATGTCCTA 57.636 39.130 10.14 0.00 45.14 2.94
8959 12169 2.002586 CCGTATGCTTCTTGTGGTCAG 58.997 52.381 0.00 0.00 0.00 3.51
8972 12182 0.179468 TTTGAGGGGTAGCCGTATGC 59.821 55.000 6.07 0.00 41.71 3.14
8973 12183 2.702592 TTTTGAGGGGTAGCCGTATG 57.297 50.000 6.07 0.00 0.00 2.39
9030 12240 4.776837 TGAGTTTATTGCCACAATTGGGAT 59.223 37.500 9.95 0.00 43.96 3.85
9042 12252 8.289618 TCTTTCTACACATGTTGAGTTTATTGC 58.710 33.333 0.00 0.00 31.97 3.56
9070 12280 4.219070 TCAACTAAAGCTAGTCGCCTACAA 59.781 41.667 0.00 0.00 37.39 2.41
9077 12287 3.610242 CAGCTGTCAACTAAAGCTAGTCG 59.390 47.826 5.25 0.00 45.33 4.18
9130 12340 5.721960 AGCCTCTCACCTTAAATCTTAGTCA 59.278 40.000 0.00 0.00 0.00 3.41
9166 12376 6.592798 TCTAACGTTTGCTAAATATTCCGG 57.407 37.500 5.91 0.00 0.00 5.14
9180 12390 5.010213 TGCCTTGCCTAAAAATCTAACGTTT 59.990 36.000 5.91 0.00 0.00 3.60
9183 12393 4.695217 TGCCTTGCCTAAAAATCTAACG 57.305 40.909 0.00 0.00 0.00 3.18
9186 12396 5.650266 TCGATTTGCCTTGCCTAAAAATCTA 59.350 36.000 0.00 0.00 35.87 1.98
9301 12511 3.289407 TGTTGGTGTGAGGATGACAAA 57.711 42.857 0.00 0.00 30.85 2.83
9304 12514 6.324819 CAATTTATGTTGGTGTGAGGATGAC 58.675 40.000 0.00 0.00 0.00 3.06
9336 12546 5.800438 GGGAAATGCTAAAAATCTGACGTTC 59.200 40.000 0.00 0.00 0.00 3.95
9340 12550 8.607441 AAAAAGGGAAATGCTAAAAATCTGAC 57.393 30.769 0.00 0.00 0.00 3.51
9367 12577 1.792651 TCTCACCCTCCCCCAAAAATT 59.207 47.619 0.00 0.00 0.00 1.82
9372 12582 2.124996 CCTCTCACCCTCCCCCAA 59.875 66.667 0.00 0.00 0.00 4.12
9373 12583 4.741239 GCCTCTCACCCTCCCCCA 62.741 72.222 0.00 0.00 0.00 4.96
9374 12584 2.547123 TAAGCCTCTCACCCTCCCCC 62.547 65.000 0.00 0.00 0.00 5.40
9378 12588 4.849518 AGAAAAATAAGCCTCTCACCCTC 58.150 43.478 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.