Multiple sequence alignment - TraesCS3D01G204700

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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 TraesCS3D01G204700 chr3D 100.000 5858 0 0 1 5858 256149514 256143657 0.000000e+00 10818.0
1 TraesCS3D01G204700 chr3D 94.483 145 8 0 5714 5858 247962879 247963023 2.120000e-54 224.0
2 TraesCS3D01G204700 chr3D 92.414 145 11 0 5714 5858 248037153 248037297 2.140000e-49 207.0
3 TraesCS3D01G204700 chr3D 95.833 48 2 0 1 48 606877322 606877369 1.750000e-10 78.7
4 TraesCS3D01G204700 chr3D 94.000 50 3 0 1 50 39432180 39432229 6.290000e-10 76.8
5 TraesCS3D01G204700 chr2B 96.103 5696 165 26 44 5700 220357439 220363116 0.000000e+00 9236.0
6 TraesCS3D01G204700 chr2B 94.710 3762 147 18 232 3981 421425792 421422071 0.000000e+00 5797.0
7 TraesCS3D01G204700 chr7A 95.505 5695 151 30 44 5700 308451035 308456662 0.000000e+00 9001.0
8 TraesCS3D01G204700 chr1B 95.833 5568 158 32 162 5700 192694132 192688610 0.000000e+00 8929.0
9 TraesCS3D01G204700 chr1B 95.322 1368 54 10 3823 5187 117569460 117570820 0.000000e+00 2163.0
10 TraesCS3D01G204700 chr6A 97.276 4552 98 15 446 4980 388055615 388060157 0.000000e+00 7696.0
11 TraesCS3D01G204700 chr6A 93.810 420 10 3 44 447 388055034 388055453 8.340000e-173 617.0
12 TraesCS3D01G204700 chr4B 96.519 2614 74 12 344 2948 414457295 414454690 0.000000e+00 4307.0
13 TraesCS3D01G204700 chr4B 95.233 2664 83 15 3073 5700 414454037 414451382 0.000000e+00 4176.0
14 TraesCS3D01G204700 chr4B 92.406 1330 67 20 4386 5700 149030358 149029048 0.000000e+00 1866.0
15 TraesCS3D01G204700 chr4B 96.347 657 15 4 3027 3680 414454687 414454037 0.000000e+00 1072.0
16 TraesCS3D01G204700 chr4B 82.266 203 20 5 44 232 302805204 302805004 1.690000e-35 161.0
17 TraesCS3D01G204700 chr4B 95.833 48 2 0 1 48 644933135 644933088 1.750000e-10 78.7
18 TraesCS3D01G204700 chr5B 94.687 2541 89 17 44 2539 139739294 139741833 0.000000e+00 3903.0
19 TraesCS3D01G204700 chr6B 96.160 2318 74 10 3393 5697 393760617 393762932 0.000000e+00 3773.0
20 TraesCS3D01G204700 chr6B 96.810 1787 54 2 1163 2948 393757675 393759459 0.000000e+00 2981.0
21 TraesCS3D01G204700 chr6B 93.182 440 18 7 5269 5700 373759842 373759407 2.300000e-178 636.0
22 TraesCS3D01G204700 chr5D 97.288 1807 32 4 1565 3370 249158411 249156621 0.000000e+00 3049.0
23 TraesCS3D01G204700 chr5D 97.024 1613 40 6 4095 5700 249151353 249149742 0.000000e+00 2706.0
24 TraesCS3D01G204700 chr5D 96.186 1442 36 5 44 1468 249160163 249158724 0.000000e+00 2340.0
25 TraesCS3D01G204700 chr5D 92.727 55 4 0 1 55 242650207 242650153 4.870000e-11 80.5
26 TraesCS3D01G204700 chr5D 95.833 48 2 0 1 48 302281152 302281105 1.750000e-10 78.7
27 TraesCS3D01G204700 chr5D 95.833 48 2 0 1 48 441606109 441606062 1.750000e-10 78.7
28 TraesCS3D01G204700 chr3B 95.685 1738 62 9 2803 4532 277656413 277658145 0.000000e+00 2782.0
29 TraesCS3D01G204700 chr3B 91.016 1447 110 12 1879 3316 330779215 330777780 0.000000e+00 1934.0
30 TraesCS3D01G204700 chr3B 92.068 769 37 7 44 792 277645136 277645900 0.000000e+00 1061.0
31 TraesCS3D01G204700 chr3B 94.118 51 2 1 1 50 731036721 731036671 6.290000e-10 76.8
32 TraesCS3D01G204700 chr6D 93.687 697 31 9 5014 5700 16120361 16121054 0.000000e+00 1031.0
33 TraesCS3D01G204700 chr6D 92.414 145 11 0 5714 5858 337675280 337675424 2.140000e-49 207.0
34 TraesCS3D01G204700 chr7D 89.160 369 30 7 5126 5486 208660846 208660480 8.950000e-123 451.0
35 TraesCS3D01G204700 chr7D 93.103 145 9 1 5714 5858 316917199 316917342 1.650000e-50 211.0
36 TraesCS3D01G204700 chr7D 92.414 145 11 0 5714 5858 541059317 541059461 2.140000e-49 207.0
37 TraesCS3D01G204700 chr7D 92.414 145 11 0 5714 5858 541163194 541163338 2.140000e-49 207.0
38 TraesCS3D01G204700 chr7D 92.683 82 5 1 5619 5700 208660344 208660264 3.710000e-22 117.0
39 TraesCS3D01G204700 chr4D 93.103 145 10 0 5714 5858 28687743 28687887 4.600000e-51 213.0
40 TraesCS3D01G204700 chr4D 93.103 145 10 0 5714 5858 312487573 312487717 4.600000e-51 213.0
41 TraesCS3D01G204700 chr2D 92.414 145 11 0 5714 5858 593053156 593053300 2.140000e-49 207.0
42 TraesCS3D01G204700 chr2D 90.741 54 5 0 1 54 95319478 95319425 8.140000e-09 73.1
43 TraesCS3D01G204700 chr1D 92.308 52 4 0 1 52 331138365 331138314 2.260000e-09 75.0


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 TraesCS3D01G204700 chr3D 256143657 256149514 5857 True 10818.0 10818 100.0000 1 5858 1 chr3D.!!$R1 5857
1 TraesCS3D01G204700 chr2B 220357439 220363116 5677 False 9236.0 9236 96.1030 44 5700 1 chr2B.!!$F1 5656
2 TraesCS3D01G204700 chr2B 421422071 421425792 3721 True 5797.0 5797 94.7100 232 3981 1 chr2B.!!$R1 3749
3 TraesCS3D01G204700 chr7A 308451035 308456662 5627 False 9001.0 9001 95.5050 44 5700 1 chr7A.!!$F1 5656
4 TraesCS3D01G204700 chr1B 192688610 192694132 5522 True 8929.0 8929 95.8330 162 5700 1 chr1B.!!$R1 5538
5 TraesCS3D01G204700 chr1B 117569460 117570820 1360 False 2163.0 2163 95.3220 3823 5187 1 chr1B.!!$F1 1364
6 TraesCS3D01G204700 chr6A 388055034 388060157 5123 False 4156.5 7696 95.5430 44 4980 2 chr6A.!!$F1 4936
7 TraesCS3D01G204700 chr4B 414451382 414457295 5913 True 3185.0 4307 96.0330 344 5700 3 chr4B.!!$R4 5356
8 TraesCS3D01G204700 chr4B 149029048 149030358 1310 True 1866.0 1866 92.4060 4386 5700 1 chr4B.!!$R1 1314
9 TraesCS3D01G204700 chr5B 139739294 139741833 2539 False 3903.0 3903 94.6870 44 2539 1 chr5B.!!$F1 2495
10 TraesCS3D01G204700 chr6B 393757675 393762932 5257 False 3377.0 3773 96.4850 1163 5697 2 chr6B.!!$F1 4534
11 TraesCS3D01G204700 chr5D 249149742 249151353 1611 True 2706.0 2706 97.0240 4095 5700 1 chr5D.!!$R2 1605
12 TraesCS3D01G204700 chr5D 249156621 249160163 3542 True 2694.5 3049 96.7370 44 3370 2 chr5D.!!$R5 3326
13 TraesCS3D01G204700 chr3B 277656413 277658145 1732 False 2782.0 2782 95.6850 2803 4532 1 chr3B.!!$F2 1729
14 TraesCS3D01G204700 chr3B 330777780 330779215 1435 True 1934.0 1934 91.0160 1879 3316 1 chr3B.!!$R1 1437
15 TraesCS3D01G204700 chr3B 277645136 277645900 764 False 1061.0 1061 92.0680 44 792 1 chr3B.!!$F1 748
16 TraesCS3D01G204700 chr6D 16120361 16121054 693 False 1031.0 1031 93.6870 5014 5700 1 chr6D.!!$F1 686
17 TraesCS3D01G204700 chr7D 208660264 208660846 582 True 284.0 451 90.9215 5126 5700 2 chr7D.!!$R1 574

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
132 146 0.241213 TTCAGGTCTTGTCTCGCTCG 59.759 55.000 0.00 0.00 0.0 5.03 F
145 159 0.602638 TCGCTCGCACCTCAAAATGT 60.603 50.000 0.00 0.00 0.0 2.71 F
1019 1210 1.070127 ATGGGGTATGGCTGCAGGAT 61.070 55.000 17.12 0.00 0.0 3.24 F
2497 2984 1.002868 ACTGTGAGCATGCCCTGAC 60.003 57.895 15.66 6.56 0.0 3.51 F
2912 3402 0.826672 ACGAGGAAGAGGACACCGTT 60.827 55.000 0.00 0.00 0.0 4.44 F
3070 3572 3.321968 GGTTGTTCCTCTTTTTCCTGCAT 59.678 43.478 0.00 0.00 0.0 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1028 1219 0.250295 CTTCTTCCTGTCGTTGGCCA 60.250 55.000 0.00 0.0 0.00 5.36 R
1285 1476 1.380112 GGGTCCGACTGCTCTAGGT 60.380 63.158 0.00 0.0 0.00 3.08 R
2912 3402 1.068588 GTGAGATATAGCACGCCACCA 59.931 52.381 0.00 0.0 0.00 4.17 R
3607 4922 4.689612 ACTTCTTAAGGCACTCAGTCAA 57.310 40.909 1.85 0.0 38.49 3.18 R
4702 6661 1.431195 TTCTGTAGGGCTTGGGGCAA 61.431 55.000 0.00 0.0 44.01 4.52 R
4980 6947 2.325761 ACATCAGTTTCTGTACGACGC 58.674 47.619 0.00 0.0 32.61 5.19 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
36 37 9.333724 ACAAATACACCTTATATAAAGGAACGG 57.666 33.333 10.67 6.38 39.81 4.44
37 38 9.550406 CAAATACACCTTATATAAAGGAACGGA 57.450 33.333 10.67 0.00 39.81 4.69
38 39 9.774413 AAATACACCTTATATAAAGGAACGGAG 57.226 33.333 10.67 5.47 39.81 4.63
39 40 6.170846 ACACCTTATATAAAGGAACGGAGG 57.829 41.667 10.67 4.52 39.81 4.30
40 41 5.664457 ACACCTTATATAAAGGAACGGAGGT 59.336 40.000 10.67 5.03 39.81 3.85
41 42 6.157471 ACACCTTATATAAAGGAACGGAGGTT 59.843 38.462 10.67 0.00 39.81 3.50
42 43 6.482308 CACCTTATATAAAGGAACGGAGGTTG 59.518 42.308 10.67 0.00 39.81 3.77
132 146 0.241213 TTCAGGTCTTGTCTCGCTCG 59.759 55.000 0.00 0.00 0.00 5.03
145 159 0.602638 TCGCTCGCACCTCAAAATGT 60.603 50.000 0.00 0.00 0.00 2.71
189 203 4.327680 GCATAACTGATATCCCCCTTGAC 58.672 47.826 0.00 0.00 0.00 3.18
200 214 3.839778 TCCCCCTTGACCTTTGTTAAAG 58.160 45.455 0.00 0.00 38.24 1.85
213 227 9.444600 GACCTTTGTTAAAGTTGTAGGATATGA 57.555 33.333 0.00 0.00 36.77 2.15
465 648 9.851043 GATTACTAGAAAGCATTATCACGTTTC 57.149 33.333 0.00 0.00 0.00 2.78
528 711 2.655090 TGGGCATTCAGTTGAGAACA 57.345 45.000 0.00 0.00 0.00 3.18
657 842 4.402155 TGGGAGCTATGCCTTTTTACATTG 59.598 41.667 0.00 0.00 37.91 2.82
780 970 9.623000 TCATGATGTAATGGATGGATATGAATC 57.377 33.333 0.00 0.00 0.00 2.52
784 974 9.987272 GATGTAATGGATGGATATGAATCGATA 57.013 33.333 0.00 0.00 31.39 2.92
913 1104 3.769739 ATTGTGACCTTGTGCTGTCTA 57.230 42.857 0.00 0.00 32.67 2.59
1018 1209 1.288508 AATGGGGTATGGCTGCAGGA 61.289 55.000 17.12 0.00 0.00 3.86
1019 1210 1.070127 ATGGGGTATGGCTGCAGGAT 61.070 55.000 17.12 0.00 0.00 3.24
1028 1219 2.435693 GCTGCAGGATAGGGGACGT 61.436 63.158 17.12 0.00 0.00 4.34
1077 1268 1.134965 GTCGAGGACTACAAGCAGCAT 60.135 52.381 0.00 0.00 0.00 3.79
1285 1476 4.503123 CCGGAGATATTGTGGCTTGATGTA 60.503 45.833 0.00 0.00 0.00 2.29
1335 1526 3.055240 AGGTGAGCCTGATTTCTTCTGAG 60.055 47.826 0.00 0.00 45.05 3.35
1402 1593 4.592942 CACCATTTCTTGAGGAGGATTGA 58.407 43.478 0.00 0.00 0.00 2.57
1423 1614 6.353404 TGATGTTTCCCCTTTATTTTGTCC 57.647 37.500 0.00 0.00 0.00 4.02
1547 1999 9.949174 ATCTATTTTTGCGCTTTTCAAATTTTT 57.051 22.222 9.73 0.00 33.94 1.94
1869 2346 4.759782 CTTCATATTCAGGGTCGAACTGT 58.240 43.478 15.52 3.39 37.25 3.55
1895 2372 6.425114 GCTATATTTCTTTCATTGAGGCGAGA 59.575 38.462 0.00 0.00 0.00 4.04
2471 2958 4.870426 GCACAGCTAAGCTATCTGTAACAA 59.130 41.667 13.02 0.00 38.85 2.83
2496 2983 1.196766 AGACTGTGAGCATGCCCTGA 61.197 55.000 15.66 0.00 0.00 3.86
2497 2984 1.002868 ACTGTGAGCATGCCCTGAC 60.003 57.895 15.66 6.56 0.00 3.51
2501 2989 2.285773 TGAGCATGCCCTGACGACT 61.286 57.895 15.66 0.00 0.00 4.18
2760 3250 2.472695 TTAGTAGCTGCACCTTGGTG 57.527 50.000 14.94 14.94 0.00 4.17
2912 3402 0.826672 ACGAGGAAGAGGACACCGTT 60.827 55.000 0.00 0.00 0.00 4.44
3070 3572 3.321968 GGTTGTTCCTCTTTTTCCTGCAT 59.678 43.478 0.00 0.00 0.00 3.96
3071 3573 4.202253 GGTTGTTCCTCTTTTTCCTGCATT 60.202 41.667 0.00 0.00 0.00 3.56
3171 4426 3.809832 CCTACACCTCTTTGTTCTGTGTG 59.190 47.826 0.00 0.00 40.17 3.82
3219 4474 4.832248 ACGAAAGAGATTCCATGCTACAA 58.168 39.130 0.00 0.00 34.34 2.41
3607 4922 5.968167 TGGTAGGTGGTAGAATCATAACCTT 59.032 40.000 0.00 0.00 38.86 3.50
4523 6482 6.621380 GCAACATCAAATCATTCTCTCGAACA 60.621 38.462 0.00 0.00 30.67 3.18
4702 6661 9.118300 GTCTTGTGATTGATTCAGGATATTCTT 57.882 33.333 0.00 0.00 34.17 2.52
4900 6867 6.324819 TCATAAGTTAGCAGAAGCAAAATGC 58.675 36.000 0.00 0.00 45.49 3.56
4980 6947 7.880195 CCCAGTATTGAATATCTACTTTCCCAG 59.120 40.741 0.00 0.00 0.00 4.45
5226 7208 6.685620 GCAGAGAAATCCGAGGTAATAGGAAA 60.686 42.308 0.00 0.00 36.15 3.13
5242 7224 6.642733 ATAGGAAAGGAGAAATCTCACCAA 57.357 37.500 12.21 0.00 44.60 3.67
5507 7546 4.658063 ACACGGGATGATTTAAACTTGGA 58.342 39.130 0.00 0.00 0.00 3.53
5633 7675 5.596772 ACCACAGCTAAACCAACTAAACATT 59.403 36.000 0.00 0.00 0.00 2.71
5700 7742 9.132923 TGTGTATTTACATTGTTTTGTCCCTAA 57.867 29.630 0.00 0.00 38.63 2.69
5701 7743 9.620660 GTGTATTTACATTGTTTTGTCCCTAAG 57.379 33.333 0.00 0.00 38.63 2.18
5702 7744 8.798402 TGTATTTACATTGTTTTGTCCCTAAGG 58.202 33.333 0.00 0.00 0.00 2.69
5703 7745 9.016438 GTATTTACATTGTTTTGTCCCTAAGGA 57.984 33.333 0.00 0.00 41.08 3.36
5704 7746 7.899648 TTTACATTGTTTTGTCCCTAAGGAA 57.100 32.000 0.00 0.00 46.38 3.36
5705 7747 7.899648 TTACATTGTTTTGTCCCTAAGGAAA 57.100 32.000 0.00 0.00 46.38 3.13
5706 7748 6.156748 ACATTGTTTTGTCCCTAAGGAAAC 57.843 37.500 0.00 0.00 46.38 2.78
5707 7749 5.897250 ACATTGTTTTGTCCCTAAGGAAACT 59.103 36.000 0.00 0.00 46.38 2.66
5708 7750 7.064229 ACATTGTTTTGTCCCTAAGGAAACTA 58.936 34.615 0.00 0.00 46.38 2.24
5709 7751 7.230712 ACATTGTTTTGTCCCTAAGGAAACTAG 59.769 37.037 0.00 0.00 46.38 2.57
5710 7752 6.503560 TGTTTTGTCCCTAAGGAAACTAGA 57.496 37.500 0.00 0.00 46.38 2.43
5711 7753 6.902408 TGTTTTGTCCCTAAGGAAACTAGAA 58.098 36.000 0.00 0.00 46.38 2.10
5712 7754 6.996282 TGTTTTGTCCCTAAGGAAACTAGAAG 59.004 38.462 0.00 0.00 46.38 2.85
5713 7755 5.757099 TTGTCCCTAAGGAAACTAGAAGG 57.243 43.478 0.00 0.00 46.38 3.46
5714 7756 5.019657 TGTCCCTAAGGAAACTAGAAGGA 57.980 43.478 0.00 0.00 46.38 3.36
5715 7757 5.024118 TGTCCCTAAGGAAACTAGAAGGAG 58.976 45.833 0.00 0.00 46.38 3.69
5716 7758 5.222484 TGTCCCTAAGGAAACTAGAAGGAGA 60.222 44.000 0.00 0.00 46.38 3.71
5717 7759 5.900699 GTCCCTAAGGAAACTAGAAGGAGAT 59.099 44.000 0.00 0.00 46.38 2.75
5718 7760 6.041182 GTCCCTAAGGAAACTAGAAGGAGATC 59.959 46.154 0.00 0.00 46.38 2.75
5719 7761 6.068140 TCCCTAAGGAAACTAGAAGGAGATCT 60.068 42.308 0.00 0.00 42.68 2.75
5720 7762 7.130598 TCCCTAAGGAAACTAGAAGGAGATCTA 59.869 40.741 0.00 0.00 42.68 1.98
5721 7763 7.450323 CCCTAAGGAAACTAGAAGGAGATCTAG 59.550 44.444 9.25 9.25 44.09 2.43
5733 7775 7.066781 AGAAGGAGATCTAGAAGGAGTTTAGG 58.933 42.308 0.00 0.00 0.00 2.69
5734 7776 5.711698 AGGAGATCTAGAAGGAGTTTAGGG 58.288 45.833 0.00 0.00 0.00 3.53
5735 7777 4.282449 GGAGATCTAGAAGGAGTTTAGGGC 59.718 50.000 0.00 0.00 0.00 5.19
5736 7778 5.144832 GAGATCTAGAAGGAGTTTAGGGCT 58.855 45.833 0.00 0.00 0.00 5.19
5737 7779 4.898861 AGATCTAGAAGGAGTTTAGGGCTG 59.101 45.833 0.00 0.00 0.00 4.85
5738 7780 4.332683 TCTAGAAGGAGTTTAGGGCTGA 57.667 45.455 0.00 0.00 0.00 4.26
5739 7781 4.884961 TCTAGAAGGAGTTTAGGGCTGAT 58.115 43.478 0.00 0.00 0.00 2.90
5740 7782 4.896482 TCTAGAAGGAGTTTAGGGCTGATC 59.104 45.833 0.00 0.00 0.00 2.92
5741 7783 3.730269 AGAAGGAGTTTAGGGCTGATCT 58.270 45.455 0.00 0.00 0.00 2.75
5742 7784 4.107820 AGAAGGAGTTTAGGGCTGATCTT 58.892 43.478 0.00 0.00 0.00 2.40
5743 7785 4.538089 AGAAGGAGTTTAGGGCTGATCTTT 59.462 41.667 0.00 0.00 0.00 2.52
5744 7786 4.227864 AGGAGTTTAGGGCTGATCTTTG 57.772 45.455 0.00 0.00 0.00 2.77
5745 7787 3.054065 AGGAGTTTAGGGCTGATCTTTGG 60.054 47.826 0.00 0.00 0.00 3.28
5746 7788 3.308473 GGAGTTTAGGGCTGATCTTTGGT 60.308 47.826 0.00 0.00 0.00 3.67
5747 7789 3.690460 AGTTTAGGGCTGATCTTTGGTG 58.310 45.455 0.00 0.00 0.00 4.17
5748 7790 2.755103 GTTTAGGGCTGATCTTTGGTGG 59.245 50.000 0.00 0.00 0.00 4.61
5749 7791 1.668826 TAGGGCTGATCTTTGGTGGT 58.331 50.000 0.00 0.00 0.00 4.16
5750 7792 0.779997 AGGGCTGATCTTTGGTGGTT 59.220 50.000 0.00 0.00 0.00 3.67
5751 7793 1.992557 AGGGCTGATCTTTGGTGGTTA 59.007 47.619 0.00 0.00 0.00 2.85
5752 7794 2.025887 AGGGCTGATCTTTGGTGGTTAG 60.026 50.000 0.00 0.00 0.00 2.34
5753 7795 2.290960 GGGCTGATCTTTGGTGGTTAGT 60.291 50.000 0.00 0.00 0.00 2.24
5754 7796 3.054655 GGGCTGATCTTTGGTGGTTAGTA 60.055 47.826 0.00 0.00 0.00 1.82
5755 7797 4.192317 GGCTGATCTTTGGTGGTTAGTAG 58.808 47.826 0.00 0.00 0.00 2.57
5756 7798 4.323562 GGCTGATCTTTGGTGGTTAGTAGT 60.324 45.833 0.00 0.00 0.00 2.73
5757 7799 5.246307 GCTGATCTTTGGTGGTTAGTAGTT 58.754 41.667 0.00 0.00 0.00 2.24
5758 7800 5.705905 GCTGATCTTTGGTGGTTAGTAGTTT 59.294 40.000 0.00 0.00 0.00 2.66
5759 7801 6.128254 GCTGATCTTTGGTGGTTAGTAGTTTC 60.128 42.308 0.00 0.00 0.00 2.78
5760 7802 7.074653 TGATCTTTGGTGGTTAGTAGTTTCT 57.925 36.000 0.00 0.00 0.00 2.52
5761 7803 7.514721 TGATCTTTGGTGGTTAGTAGTTTCTT 58.485 34.615 0.00 0.00 0.00 2.52
5762 7804 8.653191 TGATCTTTGGTGGTTAGTAGTTTCTTA 58.347 33.333 0.00 0.00 0.00 2.10
5763 7805 9.152595 GATCTTTGGTGGTTAGTAGTTTCTTAG 57.847 37.037 0.00 0.00 0.00 2.18
5764 7806 7.447594 TCTTTGGTGGTTAGTAGTTTCTTAGG 58.552 38.462 0.00 0.00 0.00 2.69
5765 7807 6.999705 TTGGTGGTTAGTAGTTTCTTAGGA 57.000 37.500 0.00 0.00 0.00 2.94
5766 7808 6.600882 TGGTGGTTAGTAGTTTCTTAGGAG 57.399 41.667 0.00 0.00 0.00 3.69
5767 7809 5.482878 TGGTGGTTAGTAGTTTCTTAGGAGG 59.517 44.000 0.00 0.00 0.00 4.30
5768 7810 5.105023 GGTGGTTAGTAGTTTCTTAGGAGGG 60.105 48.000 0.00 0.00 0.00 4.30
5769 7811 5.483231 GTGGTTAGTAGTTTCTTAGGAGGGT 59.517 44.000 0.00 0.00 0.00 4.34
5770 7812 6.665248 GTGGTTAGTAGTTTCTTAGGAGGGTA 59.335 42.308 0.00 0.00 0.00 3.69
5771 7813 7.179160 GTGGTTAGTAGTTTCTTAGGAGGGTAA 59.821 40.741 0.00 0.00 0.00 2.85
5772 7814 7.902941 TGGTTAGTAGTTTCTTAGGAGGGTAAT 59.097 37.037 0.00 0.00 0.00 1.89
5773 7815 8.202811 GGTTAGTAGTTTCTTAGGAGGGTAATG 58.797 40.741 0.00 0.00 0.00 1.90
5774 7816 8.975295 GTTAGTAGTTTCTTAGGAGGGTAATGA 58.025 37.037 0.00 0.00 0.00 2.57
5775 7817 9.551339 TTAGTAGTTTCTTAGGAGGGTAATGAA 57.449 33.333 0.00 0.00 0.00 2.57
5776 7818 8.080363 AGTAGTTTCTTAGGAGGGTAATGAAG 57.920 38.462 0.00 0.00 0.00 3.02
5777 7819 5.746284 AGTTTCTTAGGAGGGTAATGAAGC 58.254 41.667 0.00 0.00 0.00 3.86
5778 7820 4.772886 TTCTTAGGAGGGTAATGAAGCC 57.227 45.455 0.00 0.00 46.88 4.35
5791 7833 8.942338 GGGTAATGAAGCCCTAAAATTTTTAG 57.058 34.615 18.13 18.13 41.63 1.85
5792 7834 7.494625 GGGTAATGAAGCCCTAAAATTTTTAGC 59.505 37.037 19.22 12.25 41.63 3.09
5793 7835 8.258007 GGTAATGAAGCCCTAAAATTTTTAGCT 58.742 33.333 19.22 13.92 0.00 3.32
5794 7836 9.302345 GTAATGAAGCCCTAAAATTTTTAGCTC 57.698 33.333 19.22 13.63 0.00 4.09
5795 7837 6.280855 TGAAGCCCTAAAATTTTTAGCTCC 57.719 37.500 19.22 7.60 0.00 4.70
5796 7838 5.777732 TGAAGCCCTAAAATTTTTAGCTCCA 59.222 36.000 19.22 9.68 0.00 3.86
5797 7839 6.440328 TGAAGCCCTAAAATTTTTAGCTCCAT 59.560 34.615 19.22 7.43 0.00 3.41
5798 7840 6.874278 AGCCCTAAAATTTTTAGCTCCATT 57.126 33.333 19.22 3.39 0.00 3.16
5799 7841 6.643388 AGCCCTAAAATTTTTAGCTCCATTG 58.357 36.000 19.22 7.43 0.00 2.82
5800 7842 5.817296 GCCCTAAAATTTTTAGCTCCATTGG 59.183 40.000 19.22 14.71 0.00 3.16
5801 7843 6.351796 GCCCTAAAATTTTTAGCTCCATTGGA 60.352 38.462 19.22 5.05 0.00 3.53
5802 7844 7.635750 GCCCTAAAATTTTTAGCTCCATTGGAT 60.636 37.037 19.22 0.00 0.00 3.41
5803 7845 7.928167 CCCTAAAATTTTTAGCTCCATTGGATC 59.072 37.037 19.22 1.55 0.00 3.36
5804 7846 7.649306 CCTAAAATTTTTAGCTCCATTGGATCG 59.351 37.037 19.22 0.00 0.00 3.69
5805 7847 6.773976 AAATTTTTAGCTCCATTGGATCGA 57.226 33.333 5.70 0.00 0.00 3.59
5806 7848 6.382869 AATTTTTAGCTCCATTGGATCGAG 57.617 37.500 5.70 0.00 0.00 4.04
5807 7849 3.475566 TTTAGCTCCATTGGATCGAGG 57.524 47.619 5.70 0.00 0.00 4.63
5808 7850 2.381752 TAGCTCCATTGGATCGAGGA 57.618 50.000 5.70 0.00 0.00 3.71
5809 7851 1.500474 AGCTCCATTGGATCGAGGAA 58.500 50.000 5.70 0.00 0.00 3.36
5810 7852 1.839994 AGCTCCATTGGATCGAGGAAA 59.160 47.619 5.70 0.00 0.00 3.13
5811 7853 2.239654 AGCTCCATTGGATCGAGGAAAA 59.760 45.455 5.70 0.00 0.00 2.29
5812 7854 3.117738 AGCTCCATTGGATCGAGGAAAAT 60.118 43.478 5.70 0.00 0.00 1.82
5813 7855 3.633986 GCTCCATTGGATCGAGGAAAATT 59.366 43.478 5.70 0.00 0.00 1.82
5814 7856 4.498682 GCTCCATTGGATCGAGGAAAATTG 60.499 45.833 5.70 0.00 0.00 2.32
5815 7857 3.381272 TCCATTGGATCGAGGAAAATTGC 59.619 43.478 0.00 0.00 0.00 3.56
5816 7858 3.130869 CCATTGGATCGAGGAAAATTGCA 59.869 43.478 0.00 0.00 0.00 4.08
5817 7859 3.848272 TTGGATCGAGGAAAATTGCAC 57.152 42.857 0.00 0.00 0.00 4.57
5818 7860 3.071874 TGGATCGAGGAAAATTGCACT 57.928 42.857 0.00 0.00 0.00 4.40
5819 7861 3.420893 TGGATCGAGGAAAATTGCACTT 58.579 40.909 0.00 0.00 0.00 3.16
5820 7862 3.440173 TGGATCGAGGAAAATTGCACTTC 59.560 43.478 0.00 0.00 0.00 3.01
5821 7863 3.181496 GGATCGAGGAAAATTGCACTTCC 60.181 47.826 11.77 11.77 41.32 3.46
5822 7864 1.804151 TCGAGGAAAATTGCACTTCCG 59.196 47.619 13.22 5.63 44.94 4.30
5823 7865 1.135689 CGAGGAAAATTGCACTTCCGG 60.136 52.381 13.22 0.00 44.94 5.14
5824 7866 1.886542 GAGGAAAATTGCACTTCCGGT 59.113 47.619 0.00 0.95 44.94 5.28
5825 7867 3.078837 GAGGAAAATTGCACTTCCGGTA 58.921 45.455 0.00 0.00 44.94 4.02
5826 7868 3.081804 AGGAAAATTGCACTTCCGGTAG 58.918 45.455 6.53 6.53 44.94 3.18
5827 7869 3.078837 GGAAAATTGCACTTCCGGTAGA 58.921 45.455 15.82 0.00 32.23 2.59
5828 7870 3.504520 GGAAAATTGCACTTCCGGTAGAA 59.495 43.478 15.82 0.00 32.23 2.10
5829 7871 4.022676 GGAAAATTGCACTTCCGGTAGAAA 60.023 41.667 15.82 6.59 32.88 2.52
5830 7872 4.499037 AAATTGCACTTCCGGTAGAAAC 57.501 40.909 15.82 4.14 32.88 2.78
5831 7873 2.922740 TTGCACTTCCGGTAGAAACT 57.077 45.000 15.82 0.00 32.88 2.66
5832 7874 2.163818 TGCACTTCCGGTAGAAACTG 57.836 50.000 15.82 3.60 32.88 3.16
5833 7875 0.796927 GCACTTCCGGTAGAAACTGC 59.203 55.000 15.82 10.18 33.38 4.40
5834 7876 1.439679 CACTTCCGGTAGAAACTGCC 58.560 55.000 15.82 0.00 32.88 4.85
5835 7877 1.002087 CACTTCCGGTAGAAACTGCCT 59.998 52.381 15.82 0.00 34.05 4.75
5836 7878 1.697982 ACTTCCGGTAGAAACTGCCTT 59.302 47.619 15.82 0.00 34.05 4.35
5837 7879 2.105993 ACTTCCGGTAGAAACTGCCTTT 59.894 45.455 15.82 0.00 34.05 3.11
5838 7880 2.943036 TCCGGTAGAAACTGCCTTTT 57.057 45.000 0.00 0.00 34.05 2.27
5839 7881 2.774687 TCCGGTAGAAACTGCCTTTTC 58.225 47.619 0.00 0.00 34.05 2.29
5840 7882 2.370849 TCCGGTAGAAACTGCCTTTTCT 59.629 45.455 12.76 12.76 45.73 2.52
5841 7883 2.484264 CCGGTAGAAACTGCCTTTTCTG 59.516 50.000 16.27 3.94 44.04 3.02
5842 7884 3.399330 CGGTAGAAACTGCCTTTTCTGA 58.601 45.455 16.27 2.71 44.04 3.27
5843 7885 3.186613 CGGTAGAAACTGCCTTTTCTGAC 59.813 47.826 16.27 11.27 44.04 3.51
5844 7886 3.502595 GGTAGAAACTGCCTTTTCTGACC 59.497 47.826 16.27 14.77 44.04 4.02
5845 7887 3.297134 AGAAACTGCCTTTTCTGACCA 57.703 42.857 8.47 0.00 42.94 4.02
5846 7888 3.217626 AGAAACTGCCTTTTCTGACCAG 58.782 45.455 8.47 0.00 42.94 4.00
5847 7889 3.117888 AGAAACTGCCTTTTCTGACCAGA 60.118 43.478 8.47 0.00 42.94 3.86
5848 7890 3.297134 AACTGCCTTTTCTGACCAGAA 57.703 42.857 8.27 8.27 44.94 3.02
5849 7891 2.576615 ACTGCCTTTTCTGACCAGAAC 58.423 47.619 11.60 2.28 46.13 3.01
5850 7892 2.092429 ACTGCCTTTTCTGACCAGAACA 60.092 45.455 11.60 5.34 46.13 3.18
5851 7893 2.551459 CTGCCTTTTCTGACCAGAACAG 59.449 50.000 15.40 15.40 46.13 3.16
5852 7894 2.172505 TGCCTTTTCTGACCAGAACAGA 59.827 45.455 21.14 5.68 46.13 3.41
5853 7895 3.214328 GCCTTTTCTGACCAGAACAGAA 58.786 45.455 21.14 10.03 46.13 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 9.333724 CCGTTCCTTTATATAAGGTGTATTTGT 57.666 33.333 4.13 0.00 38.55 2.83
11 12 9.550406 TCCGTTCCTTTATATAAGGTGTATTTG 57.450 33.333 4.13 0.00 38.55 2.32
12 13 9.774413 CTCCGTTCCTTTATATAAGGTGTATTT 57.226 33.333 4.13 0.00 38.55 1.40
13 14 8.373220 CCTCCGTTCCTTTATATAAGGTGTATT 58.627 37.037 4.13 0.00 38.55 1.89
14 15 7.511714 ACCTCCGTTCCTTTATATAAGGTGTAT 59.488 37.037 4.13 0.00 38.55 2.29
15 16 6.840705 ACCTCCGTTCCTTTATATAAGGTGTA 59.159 38.462 4.13 0.00 38.55 2.90
16 17 5.664457 ACCTCCGTTCCTTTATATAAGGTGT 59.336 40.000 4.13 0.00 38.55 4.16
17 18 6.170846 ACCTCCGTTCCTTTATATAAGGTG 57.829 41.667 4.13 0.00 38.55 4.00
18 19 6.157471 ACAACCTCCGTTCCTTTATATAAGGT 59.843 38.462 4.13 0.00 38.55 3.50
19 20 6.589135 ACAACCTCCGTTCCTTTATATAAGG 58.411 40.000 0.00 0.00 38.78 2.69
20 21 9.774413 AATACAACCTCCGTTCCTTTATATAAG 57.226 33.333 0.00 0.00 0.00 1.73
23 24 9.117183 GAAAATACAACCTCCGTTCCTTTATAT 57.883 33.333 0.00 0.00 0.00 0.86
24 25 7.553760 GGAAAATACAACCTCCGTTCCTTTATA 59.446 37.037 0.00 0.00 32.14 0.98
25 26 6.376299 GGAAAATACAACCTCCGTTCCTTTAT 59.624 38.462 0.00 0.00 32.14 1.40
26 27 5.706833 GGAAAATACAACCTCCGTTCCTTTA 59.293 40.000 0.00 0.00 32.14 1.85
27 28 4.521639 GGAAAATACAACCTCCGTTCCTTT 59.478 41.667 0.00 0.00 32.14 3.11
28 29 4.077108 GGAAAATACAACCTCCGTTCCTT 58.923 43.478 0.00 0.00 32.14 3.36
29 30 3.073356 TGGAAAATACAACCTCCGTTCCT 59.927 43.478 0.00 0.00 35.22 3.36
30 31 3.414269 TGGAAAATACAACCTCCGTTCC 58.586 45.455 0.00 0.00 34.83 3.62
31 32 4.320870 TCTGGAAAATACAACCTCCGTTC 58.679 43.478 0.00 0.00 0.00 3.95
32 33 4.360951 TCTGGAAAATACAACCTCCGTT 57.639 40.909 0.00 0.00 0.00 4.44
33 34 4.202430 ACTTCTGGAAAATACAACCTCCGT 60.202 41.667 0.00 0.00 0.00 4.69
34 35 4.324267 ACTTCTGGAAAATACAACCTCCG 58.676 43.478 0.00 0.00 0.00 4.63
35 36 5.350640 CGTACTTCTGGAAAATACAACCTCC 59.649 44.000 0.00 0.00 0.00 4.30
36 37 6.090493 GTCGTACTTCTGGAAAATACAACCTC 59.910 42.308 0.00 0.00 0.00 3.85
37 38 5.930569 GTCGTACTTCTGGAAAATACAACCT 59.069 40.000 0.00 0.00 0.00 3.50
38 39 5.121298 GGTCGTACTTCTGGAAAATACAACC 59.879 44.000 0.00 0.00 0.00 3.77
39 40 5.697633 TGGTCGTACTTCTGGAAAATACAAC 59.302 40.000 0.00 0.00 0.00 3.32
40 41 5.697633 GTGGTCGTACTTCTGGAAAATACAA 59.302 40.000 0.00 0.00 0.00 2.41
41 42 5.232463 GTGGTCGTACTTCTGGAAAATACA 58.768 41.667 0.00 0.00 0.00 2.29
42 43 4.628766 GGTGGTCGTACTTCTGGAAAATAC 59.371 45.833 0.00 0.00 0.00 1.89
145 159 1.666553 CACCGCGCTACCAAACTCA 60.667 57.895 5.56 0.00 0.00 3.41
200 214 9.503427 GTTTAAGCACAATTCATATCCTACAAC 57.497 33.333 0.00 0.00 0.00 3.32
213 227 5.458041 AGCACTCATGTTTAAGCACAATT 57.542 34.783 0.00 0.00 0.00 2.32
465 648 6.307318 GCTTCAGAAAGTATGAAAATGCACTG 59.693 38.462 0.00 0.00 36.30 3.66
528 711 5.329035 AGAAGTGCAACACAATTGTTCTT 57.671 34.783 8.77 6.92 44.57 2.52
605 789 4.651962 AGCTCTAATCTAACCCAGACCTTC 59.348 45.833 0.00 0.00 35.62 3.46
759 949 9.770097 GTATCGATTCATATCCATCCATTACAT 57.230 33.333 1.71 0.00 0.00 2.29
784 974 7.857734 TTAATTTACATGACATGACGATGGT 57.142 32.000 22.19 0.10 33.39 3.55
1018 1209 2.995547 GTTGGCCACGTCCCCTAT 59.004 61.111 3.88 0.00 0.00 2.57
1019 1210 3.697747 CGTTGGCCACGTCCCCTA 61.698 66.667 3.88 0.00 44.49 3.53
1028 1219 0.250295 CTTCTTCCTGTCGTTGGCCA 60.250 55.000 0.00 0.00 0.00 5.36
1077 1268 9.438228 TCGTTTGAAAATATACACATCTTACCA 57.562 29.630 0.00 0.00 0.00 3.25
1285 1476 1.380112 GGGTCCGACTGCTCTAGGT 60.380 63.158 0.00 0.00 0.00 3.08
1335 1526 1.466167 CATGTACTGTGGTGCAAGAGC 59.534 52.381 0.00 0.00 41.06 4.09
1402 1593 5.012664 GTGGGACAAAATAAAGGGGAAACAT 59.987 40.000 0.00 0.00 44.16 2.71
1547 1999 7.870954 CCCTGAACATGATAAATAGCGTAGTAA 59.129 37.037 0.00 0.00 0.00 2.24
1716 2193 4.256920 CGTCAATCCCAAAGATCTTCTGT 58.743 43.478 8.78 0.00 32.47 3.41
1869 2346 6.054941 TCGCCTCAATGAAAGAAATATAGCA 58.945 36.000 0.00 0.00 0.00 3.49
1895 2372 2.834549 CACCTCACCTACTGGAATCACT 59.165 50.000 0.00 0.00 37.04 3.41
2016 2495 1.489230 AGAAGACGGACACCCAACTTT 59.511 47.619 0.00 0.00 31.13 2.66
2379 2864 4.986034 TGGTATCAATTACGATAACAGCGG 59.014 41.667 0.54 0.00 39.97 5.52
2471 2958 3.539604 GGCATGCTCACAGTCTATTCTT 58.460 45.455 18.92 0.00 0.00 2.52
2496 2983 8.308931 TGTACAGGAATTATTTAGACAAGTCGT 58.691 33.333 0.00 0.00 34.09 4.34
2497 2984 8.592998 GTGTACAGGAATTATTTAGACAAGTCG 58.407 37.037 0.00 0.00 34.09 4.18
2501 2989 9.173021 CCATGTGTACAGGAATTATTTAGACAA 57.827 33.333 0.00 0.00 0.00 3.18
2760 3250 7.042119 ACACTGTAAAACAAATTATTTGCAGGC 60.042 33.333 16.57 5.53 46.73 4.85
2912 3402 1.068588 GTGAGATATAGCACGCCACCA 59.931 52.381 0.00 0.00 0.00 4.17
3128 4383 9.743057 TGTAGGAAAAATAGTTTGTTTCATGTG 57.257 29.630 0.00 0.00 33.76 3.21
3171 4426 1.808945 CACTCAACCAAGAGCACCATC 59.191 52.381 0.00 0.00 39.26 3.51
3607 4922 4.689612 ACTTCTTAAGGCACTCAGTCAA 57.310 40.909 1.85 0.00 38.49 3.18
4292 6242 5.051153 TGTGCTGACAGTTATTTAACACGA 58.949 37.500 3.99 0.00 38.62 4.35
4641 6600 3.878160 AGCAAGGACTACAGTAGAAGC 57.122 47.619 14.94 9.74 0.00 3.86
4702 6661 1.431195 TTCTGTAGGGCTTGGGGCAA 61.431 55.000 0.00 0.00 44.01 4.52
4900 6867 9.950496 AGGATACAACAGGAGCATAATAAATAG 57.050 33.333 0.00 0.00 41.41 1.73
4980 6947 2.325761 ACATCAGTTTCTGTACGACGC 58.674 47.619 0.00 0.00 32.61 5.19
5144 7111 7.550196 AGTCCAATTTGAATCCATACAATTTGC 59.450 33.333 0.00 0.00 36.71 3.68
5226 7208 5.634118 TGTGAAATTGGTGAGATTTCTCCT 58.366 37.500 5.17 0.00 41.70 3.69
5242 7224 3.248602 GTGAAACTCTGCGACTGTGAAAT 59.751 43.478 0.00 0.00 0.00 2.17
5507 7546 7.384932 GCACATTTTATTTTGGTAGCAGAAAGT 59.615 33.333 1.68 0.00 0.00 2.66
5687 7729 6.503560 TCTAGTTTCCTTAGGGACAAAACA 57.496 37.500 13.40 2.54 42.05 2.83
5700 7742 7.066781 CCTTCTAGATCTCCTTCTAGTTTCCT 58.933 42.308 0.00 0.00 43.74 3.36
5701 7743 7.064229 TCCTTCTAGATCTCCTTCTAGTTTCC 58.936 42.308 0.00 0.00 43.74 3.13
5702 7744 7.778382 ACTCCTTCTAGATCTCCTTCTAGTTTC 59.222 40.741 0.00 0.00 43.74 2.78
5703 7745 7.648770 ACTCCTTCTAGATCTCCTTCTAGTTT 58.351 38.462 0.00 0.00 43.74 2.66
5704 7746 7.220890 ACTCCTTCTAGATCTCCTTCTAGTT 57.779 40.000 0.00 0.00 43.74 2.24
5705 7747 6.841781 ACTCCTTCTAGATCTCCTTCTAGT 57.158 41.667 0.00 0.00 43.74 2.57
5706 7748 9.284968 CTAAACTCCTTCTAGATCTCCTTCTAG 57.715 40.741 0.00 2.72 44.37 2.43
5707 7749 8.221944 CCTAAACTCCTTCTAGATCTCCTTCTA 58.778 40.741 0.00 0.00 0.00 2.10
5708 7750 7.066781 CCTAAACTCCTTCTAGATCTCCTTCT 58.933 42.308 0.00 0.00 0.00 2.85
5709 7751 6.266786 CCCTAAACTCCTTCTAGATCTCCTTC 59.733 46.154 0.00 0.00 0.00 3.46
5710 7752 6.140377 CCCTAAACTCCTTCTAGATCTCCTT 58.860 44.000 0.00 0.00 0.00 3.36
5711 7753 5.711698 CCCTAAACTCCTTCTAGATCTCCT 58.288 45.833 0.00 0.00 0.00 3.69
5712 7754 4.282449 GCCCTAAACTCCTTCTAGATCTCC 59.718 50.000 0.00 0.00 0.00 3.71
5713 7755 5.010617 CAGCCCTAAACTCCTTCTAGATCTC 59.989 48.000 0.00 0.00 0.00 2.75
5714 7756 4.898861 CAGCCCTAAACTCCTTCTAGATCT 59.101 45.833 0.00 0.00 0.00 2.75
5715 7757 4.896482 TCAGCCCTAAACTCCTTCTAGATC 59.104 45.833 0.00 0.00 0.00 2.75
5716 7758 4.884961 TCAGCCCTAAACTCCTTCTAGAT 58.115 43.478 0.00 0.00 0.00 1.98
5717 7759 4.332683 TCAGCCCTAAACTCCTTCTAGA 57.667 45.455 0.00 0.00 0.00 2.43
5718 7760 4.898861 AGATCAGCCCTAAACTCCTTCTAG 59.101 45.833 0.00 0.00 0.00 2.43
5719 7761 4.884961 AGATCAGCCCTAAACTCCTTCTA 58.115 43.478 0.00 0.00 0.00 2.10
5720 7762 3.730269 AGATCAGCCCTAAACTCCTTCT 58.270 45.455 0.00 0.00 0.00 2.85
5721 7763 4.495690 AAGATCAGCCCTAAACTCCTTC 57.504 45.455 0.00 0.00 0.00 3.46
5722 7764 4.568592 CCAAAGATCAGCCCTAAACTCCTT 60.569 45.833 0.00 0.00 0.00 3.36
5723 7765 3.054065 CCAAAGATCAGCCCTAAACTCCT 60.054 47.826 0.00 0.00 0.00 3.69
5724 7766 3.282885 CCAAAGATCAGCCCTAAACTCC 58.717 50.000 0.00 0.00 0.00 3.85
5725 7767 3.691609 CACCAAAGATCAGCCCTAAACTC 59.308 47.826 0.00 0.00 0.00 3.01
5726 7768 3.562176 CCACCAAAGATCAGCCCTAAACT 60.562 47.826 0.00 0.00 0.00 2.66
5727 7769 2.755103 CCACCAAAGATCAGCCCTAAAC 59.245 50.000 0.00 0.00 0.00 2.01
5728 7770 2.378547 ACCACCAAAGATCAGCCCTAAA 59.621 45.455 0.00 0.00 0.00 1.85
5729 7771 1.992557 ACCACCAAAGATCAGCCCTAA 59.007 47.619 0.00 0.00 0.00 2.69
5730 7772 1.668826 ACCACCAAAGATCAGCCCTA 58.331 50.000 0.00 0.00 0.00 3.53
5731 7773 0.779997 AACCACCAAAGATCAGCCCT 59.220 50.000 0.00 0.00 0.00 5.19
5732 7774 2.290960 ACTAACCACCAAAGATCAGCCC 60.291 50.000 0.00 0.00 0.00 5.19
5733 7775 3.073274 ACTAACCACCAAAGATCAGCC 57.927 47.619 0.00 0.00 0.00 4.85
5734 7776 4.833390 ACTACTAACCACCAAAGATCAGC 58.167 43.478 0.00 0.00 0.00 4.26
5735 7777 7.162082 AGAAACTACTAACCACCAAAGATCAG 58.838 38.462 0.00 0.00 0.00 2.90
5736 7778 7.074653 AGAAACTACTAACCACCAAAGATCA 57.925 36.000 0.00 0.00 0.00 2.92
5737 7779 7.981102 AAGAAACTACTAACCACCAAAGATC 57.019 36.000 0.00 0.00 0.00 2.75
5738 7780 8.101419 CCTAAGAAACTACTAACCACCAAAGAT 58.899 37.037 0.00 0.00 0.00 2.40
5739 7781 7.290714 TCCTAAGAAACTACTAACCACCAAAGA 59.709 37.037 0.00 0.00 0.00 2.52
5740 7782 7.447594 TCCTAAGAAACTACTAACCACCAAAG 58.552 38.462 0.00 0.00 0.00 2.77
5741 7783 7.377696 TCCTAAGAAACTACTAACCACCAAA 57.622 36.000 0.00 0.00 0.00 3.28
5742 7784 6.013984 CCTCCTAAGAAACTACTAACCACCAA 60.014 42.308 0.00 0.00 0.00 3.67
5743 7785 5.482878 CCTCCTAAGAAACTACTAACCACCA 59.517 44.000 0.00 0.00 0.00 4.17
5744 7786 5.105023 CCCTCCTAAGAAACTACTAACCACC 60.105 48.000 0.00 0.00 0.00 4.61
5745 7787 5.483231 ACCCTCCTAAGAAACTACTAACCAC 59.517 44.000 0.00 0.00 0.00 4.16
5746 7788 5.658474 ACCCTCCTAAGAAACTACTAACCA 58.342 41.667 0.00 0.00 0.00 3.67
5747 7789 7.724490 TTACCCTCCTAAGAAACTACTAACC 57.276 40.000 0.00 0.00 0.00 2.85
5748 7790 8.975295 TCATTACCCTCCTAAGAAACTACTAAC 58.025 37.037 0.00 0.00 0.00 2.34
5749 7791 9.551339 TTCATTACCCTCCTAAGAAACTACTAA 57.449 33.333 0.00 0.00 0.00 2.24
5750 7792 9.198475 CTTCATTACCCTCCTAAGAAACTACTA 57.802 37.037 0.00 0.00 0.00 1.82
5751 7793 7.364851 GCTTCATTACCCTCCTAAGAAACTACT 60.365 40.741 0.00 0.00 0.00 2.57
5752 7794 6.762187 GCTTCATTACCCTCCTAAGAAACTAC 59.238 42.308 0.00 0.00 0.00 2.73
5753 7795 6.126854 GGCTTCATTACCCTCCTAAGAAACTA 60.127 42.308 0.00 0.00 0.00 2.24
5754 7796 5.339282 GGCTTCATTACCCTCCTAAGAAACT 60.339 44.000 0.00 0.00 0.00 2.66
5755 7797 4.882427 GGCTTCATTACCCTCCTAAGAAAC 59.118 45.833 0.00 0.00 0.00 2.78
5756 7798 4.079958 GGGCTTCATTACCCTCCTAAGAAA 60.080 45.833 0.00 0.00 43.36 2.52
5757 7799 3.458487 GGGCTTCATTACCCTCCTAAGAA 59.542 47.826 0.00 0.00 43.36 2.52
5758 7800 3.046374 GGGCTTCATTACCCTCCTAAGA 58.954 50.000 0.00 0.00 43.36 2.10
5759 7801 3.493767 GGGCTTCATTACCCTCCTAAG 57.506 52.381 0.00 0.00 43.36 2.18
5767 7809 8.258007 AGCTAAAAATTTTAGGGCTTCATTACC 58.742 33.333 22.41 5.72 0.00 2.85
5768 7810 9.302345 GAGCTAAAAATTTTAGGGCTTCATTAC 57.698 33.333 22.41 6.13 0.00 1.89
5769 7811 8.474831 GGAGCTAAAAATTTTAGGGCTTCATTA 58.525 33.333 22.41 1.01 0.00 1.90
5770 7812 7.038373 TGGAGCTAAAAATTTTAGGGCTTCATT 60.038 33.333 22.41 5.78 30.16 2.57
5771 7813 6.440328 TGGAGCTAAAAATTTTAGGGCTTCAT 59.560 34.615 22.41 6.03 30.16 2.57
5772 7814 5.777732 TGGAGCTAAAAATTTTAGGGCTTCA 59.222 36.000 22.41 20.28 32.33 3.02
5773 7815 6.280855 TGGAGCTAAAAATTTTAGGGCTTC 57.719 37.500 22.41 15.82 0.00 3.86
5774 7816 6.874278 ATGGAGCTAAAAATTTTAGGGCTT 57.126 33.333 22.41 3.14 0.00 4.35
5775 7817 6.352137 CCAATGGAGCTAAAAATTTTAGGGCT 60.352 38.462 22.41 16.58 0.00 5.19
5776 7818 5.817296 CCAATGGAGCTAAAAATTTTAGGGC 59.183 40.000 22.41 12.80 0.00 5.19
5777 7819 7.181569 TCCAATGGAGCTAAAAATTTTAGGG 57.818 36.000 22.41 14.68 0.00 3.53
5778 7820 7.649306 CGATCCAATGGAGCTAAAAATTTTAGG 59.351 37.037 22.41 8.24 35.75 2.69
5779 7821 8.405531 TCGATCCAATGGAGCTAAAAATTTTAG 58.594 33.333 16.03 18.36 35.75 1.85
5780 7822 8.287439 TCGATCCAATGGAGCTAAAAATTTTA 57.713 30.769 16.03 0.00 35.75 1.52
5781 7823 7.169158 TCGATCCAATGGAGCTAAAAATTTT 57.831 32.000 16.03 0.00 35.75 1.82
5782 7824 6.183360 CCTCGATCCAATGGAGCTAAAAATTT 60.183 38.462 16.03 0.00 35.75 1.82
5783 7825 5.300286 CCTCGATCCAATGGAGCTAAAAATT 59.700 40.000 16.03 0.00 35.75 1.82
5784 7826 4.823989 CCTCGATCCAATGGAGCTAAAAAT 59.176 41.667 16.03 0.00 35.75 1.82
5785 7827 4.080582 TCCTCGATCCAATGGAGCTAAAAA 60.081 41.667 16.03 0.00 35.75 1.94
5786 7828 3.454447 TCCTCGATCCAATGGAGCTAAAA 59.546 43.478 16.03 0.00 35.75 1.52
5787 7829 3.038280 TCCTCGATCCAATGGAGCTAAA 58.962 45.455 16.03 0.22 35.75 1.85
5788 7830 2.677914 TCCTCGATCCAATGGAGCTAA 58.322 47.619 16.03 2.76 35.75 3.09
5789 7831 2.381752 TCCTCGATCCAATGGAGCTA 57.618 50.000 16.03 3.57 35.75 3.32
5790 7832 1.500474 TTCCTCGATCCAATGGAGCT 58.500 50.000 16.03 0.00 35.75 4.09
5791 7833 2.332063 TTTCCTCGATCCAATGGAGC 57.668 50.000 7.60 7.60 34.05 4.70
5792 7834 4.498682 GCAATTTTCCTCGATCCAATGGAG 60.499 45.833 8.40 0.00 34.05 3.86
5793 7835 3.381272 GCAATTTTCCTCGATCCAATGGA 59.619 43.478 3.67 3.67 35.55 3.41
5794 7836 3.130869 TGCAATTTTCCTCGATCCAATGG 59.869 43.478 0.00 0.00 0.00 3.16
5795 7837 4.107622 GTGCAATTTTCCTCGATCCAATG 58.892 43.478 0.00 0.00 0.00 2.82
5796 7838 4.019174 AGTGCAATTTTCCTCGATCCAAT 58.981 39.130 0.00 0.00 0.00 3.16
5797 7839 3.420893 AGTGCAATTTTCCTCGATCCAA 58.579 40.909 0.00 0.00 0.00 3.53
5798 7840 3.071874 AGTGCAATTTTCCTCGATCCA 57.928 42.857 0.00 0.00 0.00 3.41
5799 7841 3.181496 GGAAGTGCAATTTTCCTCGATCC 60.181 47.826 15.20 0.25 39.78 3.36
5800 7842 3.485877 CGGAAGTGCAATTTTCCTCGATC 60.486 47.826 18.40 0.00 40.55 3.69
5801 7843 2.420022 CGGAAGTGCAATTTTCCTCGAT 59.580 45.455 18.40 0.00 40.55 3.59
5802 7844 1.804151 CGGAAGTGCAATTTTCCTCGA 59.196 47.619 18.40 0.00 40.55 4.04
5803 7845 1.135689 CCGGAAGTGCAATTTTCCTCG 60.136 52.381 18.40 10.57 40.55 4.63
5804 7846 1.886542 ACCGGAAGTGCAATTTTCCTC 59.113 47.619 9.46 0.22 40.55 3.71
5805 7847 1.995376 ACCGGAAGTGCAATTTTCCT 58.005 45.000 9.46 4.04 40.55 3.36
5806 7848 3.078837 TCTACCGGAAGTGCAATTTTCC 58.921 45.455 9.46 8.24 39.56 3.13
5807 7849 4.759516 TTCTACCGGAAGTGCAATTTTC 57.240 40.909 9.46 0.00 0.00 2.29
5808 7850 4.583073 AGTTTCTACCGGAAGTGCAATTTT 59.417 37.500 9.46 0.00 35.16 1.82
5809 7851 4.023193 CAGTTTCTACCGGAAGTGCAATTT 60.023 41.667 9.46 0.00 35.16 1.82
5810 7852 3.502211 CAGTTTCTACCGGAAGTGCAATT 59.498 43.478 9.46 0.00 35.16 2.32
5811 7853 3.074412 CAGTTTCTACCGGAAGTGCAAT 58.926 45.455 9.46 0.00 35.16 3.56
5812 7854 2.489971 CAGTTTCTACCGGAAGTGCAA 58.510 47.619 9.46 0.00 35.16 4.08
5813 7855 1.876416 GCAGTTTCTACCGGAAGTGCA 60.876 52.381 22.12 0.00 41.45 4.57
5814 7856 0.796927 GCAGTTTCTACCGGAAGTGC 59.203 55.000 9.46 13.32 38.02 4.40
5815 7857 1.002087 AGGCAGTTTCTACCGGAAGTG 59.998 52.381 9.46 6.23 35.16 3.16
5816 7858 1.349067 AGGCAGTTTCTACCGGAAGT 58.651 50.000 9.46 0.00 35.16 3.01
5817 7859 2.474410 AAGGCAGTTTCTACCGGAAG 57.526 50.000 9.46 0.00 35.16 3.46
5818 7860 2.943036 AAAGGCAGTTTCTACCGGAA 57.057 45.000 9.46 0.00 0.00 4.30
5819 7861 2.370849 AGAAAAGGCAGTTTCTACCGGA 59.629 45.455 9.46 0.00 44.24 5.14
5820 7862 2.484264 CAGAAAAGGCAGTTTCTACCGG 59.516 50.000 13.74 0.00 44.25 5.28
5821 7863 3.186613 GTCAGAAAAGGCAGTTTCTACCG 59.813 47.826 13.74 5.08 44.25 4.02
5822 7864 3.502595 GGTCAGAAAAGGCAGTTTCTACC 59.497 47.826 13.74 15.54 44.25 3.18
5823 7865 4.134563 TGGTCAGAAAAGGCAGTTTCTAC 58.865 43.478 13.74 12.06 44.25 2.59
5824 7866 4.102524 TCTGGTCAGAAAAGGCAGTTTCTA 59.897 41.667 13.74 1.44 44.25 2.10
5825 7867 3.117888 TCTGGTCAGAAAAGGCAGTTTCT 60.118 43.478 9.62 9.62 46.44 2.52
5826 7868 3.214328 TCTGGTCAGAAAAGGCAGTTTC 58.786 45.455 0.00 5.75 37.70 2.78
5827 7869 3.297134 TCTGGTCAGAAAAGGCAGTTT 57.703 42.857 0.00 0.00 33.91 2.66
5828 7870 3.297134 TTCTGGTCAGAAAAGGCAGTT 57.703 42.857 10.61 0.00 43.79 3.16


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

AutoCloner maintained by Alex Coulton.