Multiple sequence alignment - TraesCS4B01G100600

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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 TraesCS4B01G100600 chr4B 100.000 4438 0 0 772 5209 106229397 106224960 0.000000e+00 8196.0
1 TraesCS4B01G100600 chr4B 100.000 543 0 0 1 543 106230168 106229626 0.000000e+00 1003.0
2 TraesCS4B01G100600 chr4B 94.268 157 8 1 2605 2761 146469370 146469215 6.740000e-59 239.0
3 TraesCS4B01G100600 chr4A 92.417 4418 198 50 870 5209 514078268 514082626 0.000000e+00 6176.0
4 TraesCS4B01G100600 chr4A 95.513 156 6 1 2606 2761 690411443 690411289 1.120000e-61 248.0
5 TraesCS4B01G100600 chr4D 94.047 1831 65 11 2473 4278 74079640 74077829 0.000000e+00 2737.0
6 TraesCS4B01G100600 chr4D 92.196 1589 79 21 870 2432 74081206 74079637 0.000000e+00 2206.0
7 TraesCS4B01G100600 chr4D 90.377 956 45 14 4274 5209 74076645 74075717 0.000000e+00 1212.0
8 TraesCS4B01G100600 chr5A 92.896 183 8 5 362 543 410215282 410215104 1.440000e-65 261.0
9 TraesCS4B01G100600 chr5A 77.049 366 58 14 25 368 410216143 410215782 2.480000e-43 187.0
10 TraesCS4B01G100600 chr5A 79.487 117 20 3 4526 4642 613576093 613575981 4.320000e-11 80.5
11 TraesCS4B01G100600 chr7D 95.513 156 7 0 2606 2761 34756864 34757019 3.110000e-62 250.0
12 TraesCS4B01G100600 chr7D 90.110 182 17 1 362 542 29889139 29888958 8.720000e-58 235.0
13 TraesCS4B01G100600 chr7D 83.568 213 31 4 4910 5121 407845511 407845720 4.120000e-46 196.0
14 TraesCS4B01G100600 chr7D 91.045 67 6 0 4847 4913 388716609 388716543 2.000000e-14 91.6
15 TraesCS4B01G100600 chr2A 96.078 153 6 0 2608 2760 141506318 141506470 3.110000e-62 250.0
16 TraesCS4B01G100600 chr2A 93.865 163 8 2 2607 2768 176673419 176673258 1.450000e-60 244.0
17 TraesCS4B01G100600 chr2A 94.771 153 8 0 2608 2760 79316157 79316005 6.740000e-59 239.0
18 TraesCS4B01G100600 chr2A 84.135 208 31 2 4914 5121 669882665 669882870 3.180000e-47 200.0
19 TraesCS4B01G100600 chr3D 75.478 628 90 43 4523 5121 455947904 455948496 1.120000e-61 248.0
20 TraesCS4B01G100600 chr3D 93.293 164 9 2 2604 2766 322435447 322435285 1.870000e-59 241.0
21 TraesCS4B01G100600 chr3D 87.845 181 19 2 366 543 140627912 140628092 5.290000e-50 209.0
22 TraesCS4B01G100600 chr6D 94.937 158 7 1 2607 2763 392273227 392273070 4.030000e-61 246.0
23 TraesCS4B01G100600 chr6D 91.026 156 14 0 3417 3572 410398433 410398278 1.470000e-50 211.0
24 TraesCS4B01G100600 chr6D 84.783 184 21 4 362 543 91858082 91857904 1.490000e-40 178.0
25 TraesCS4B01G100600 chr2D 95.425 153 7 0 2608 2760 79056319 79056167 1.450000e-60 244.0
26 TraesCS4B01G100600 chr2D 82.692 208 34 2 4914 5121 524329822 524330027 3.200000e-42 183.0
27 TraesCS4B01G100600 chr1A 93.252 163 11 0 2602 2764 395177443 395177605 1.870000e-59 241.0
28 TraesCS4B01G100600 chr1A 90.286 175 13 3 362 535 550900671 550900842 5.250000e-55 226.0
29 TraesCS4B01G100600 chr3B 93.750 160 9 1 2604 2763 396272034 396271876 6.740000e-59 239.0
30 TraesCS4B01G100600 chr7A 94.194 155 9 0 2606 2760 421785160 421785006 2.420000e-58 237.0
31 TraesCS4B01G100600 chr7A 90.000 160 14 2 3413 3571 201986997 201987155 6.840000e-49 206.0
32 TraesCS4B01G100600 chr7A 90.323 155 15 0 3417 3571 462978741 462978587 2.460000e-48 204.0
33 TraesCS4B01G100600 chr7A 81.761 159 20 7 221 379 9575063 9575212 1.970000e-24 124.0
34 TraesCS4B01G100600 chr7A 81.132 159 22 6 221 379 9536051 9536201 2.550000e-23 121.0
35 TraesCS4B01G100600 chr7A 81.132 159 22 6 221 379 9540572 9540722 2.550000e-23 121.0
36 TraesCS4B01G100600 chr7A 81.132 159 22 6 221 379 9627869 9628019 2.550000e-23 121.0
37 TraesCS4B01G100600 chr7A 81.132 159 21 7 221 379 9583633 9583782 9.160000e-23 119.0
38 TraesCS4B01G100600 chr7A 81.132 159 21 7 221 379 9620202 9620351 9.160000e-23 119.0
39 TraesCS4B01G100600 chr6A 79.508 366 49 18 23 368 558988142 558987783 2.420000e-58 237.0
40 TraesCS4B01G100600 chr6A 90.385 156 15 0 3417 3572 555729345 555729190 6.840000e-49 206.0
41 TraesCS4B01G100600 chr6A 86.486 148 20 0 221 368 609666095 609665948 4.170000e-36 163.0
42 TraesCS4B01G100600 chr2B 90.556 180 15 2 362 540 682223339 682223517 2.420000e-58 237.0
43 TraesCS4B01G100600 chr2B 87.978 183 21 1 362 543 480017731 480017549 1.140000e-51 215.0
44 TraesCS4B01G100600 chr2B 84.293 191 28 2 4933 5123 372771109 372771297 8.910000e-43 185.0
45 TraesCS4B01G100600 chr2B 81.132 212 33 7 3 209 480064514 480064305 4.170000e-36 163.0
46 TraesCS4B01G100600 chr5D 80.678 295 45 9 4838 5126 332440265 332439977 8.780000e-53 219.0
47 TraesCS4B01G100600 chr5D 89.375 160 13 3 3414 3571 204323227 204323384 1.140000e-46 198.0
48 TraesCS4B01G100600 chr6B 90.385 156 15 0 3417 3572 617176736 617176581 6.840000e-49 206.0
49 TraesCS4B01G100600 chr6B 80.534 262 37 13 4838 5096 646294432 646294682 6.890000e-44 189.0
50 TraesCS4B01G100600 chr6B 84.783 184 26 2 362 543 30252225 30252408 3.200000e-42 183.0
51 TraesCS4B01G100600 chr5B 90.000 160 12 3 3414 3571 208523294 208523451 2.460000e-48 204.0
52 TraesCS4B01G100600 chr5B 75.104 241 41 11 4412 4644 653712873 653713102 1.540000e-15 95.3
53 TraesCS4B01G100600 chr7B 86.471 170 22 1 375 543 122494151 122493982 8.910000e-43 185.0
54 TraesCS4B01G100600 chr7B 91.045 67 6 0 4847 4913 383855761 383855695 2.000000e-14 91.6
55 TraesCS4B01G100600 chr7B 88.889 63 7 0 4842 4904 720240538 720240600 1.560000e-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 TraesCS4B01G100600 chr4B 106224960 106230168 5208 True 4599.500000 8196 100.000000 1 5209 2 chr4B.!!$R2 5208
1 TraesCS4B01G100600 chr4A 514078268 514082626 4358 False 6176.000000 6176 92.417000 870 5209 1 chr4A.!!$F1 4339
2 TraesCS4B01G100600 chr4D 74075717 74081206 5489 True 2051.666667 2737 92.206667 870 5209 3 chr4D.!!$R1 4339
3 TraesCS4B01G100600 chr5A 410215104 410216143 1039 True 224.000000 261 84.972500 25 543 2 chr5A.!!$R2 518
4 TraesCS4B01G100600 chr3D 455947904 455948496 592 False 248.000000 248 75.478000 4523 5121 1 chr3D.!!$F2 598

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
856 1384 0.028770 TTTCCTTCTGTTGCAACGCG 59.971 50.0 23.79 17.12 0.00 6.01 F
2331 2896 0.617820 GGGCTACTTCTCCCTGTCCA 60.618 60.0 0.00 0.00 39.46 4.02 F
2789 3360 0.417437 TCACTCTTCCCCATCTCCCA 59.583 55.0 0.00 0.00 0.00 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2778 3349 0.032813 AGCAAATGTGGGAGATGGGG 60.033 55.0 0.00 0.00 0.00 4.96 R
3593 4170 0.178990 AATAATGGGAAGCTCGGGGC 60.179 55.0 0.00 0.00 42.19 5.80 R
4512 6316 0.961019 TTCATGCTTGCAAGTCACCC 59.039 50.0 26.55 10.85 0.00 4.61 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
34 35 4.615949 TGTGTTTTCATGAAATCAACCCG 58.384 39.130 25.95 0.00 33.41 5.28
36 37 4.444056 GTGTTTTCATGAAATCAACCCGTG 59.556 41.667 25.95 0.00 33.41 4.94
100 572 5.862678 TTTAGAAACCCCCTTCTGTTTTG 57.137 39.130 0.00 0.00 36.34 2.44
108 580 4.156477 CCCCCTTCTGTTTTGGTGAAATA 58.844 43.478 0.00 0.00 0.00 1.40
121 593 2.156098 GTGAAATAAACCCGCAGTCCA 58.844 47.619 0.00 0.00 0.00 4.02
122 594 2.161609 GTGAAATAAACCCGCAGTCCAG 59.838 50.000 0.00 0.00 0.00 3.86
135 607 4.151867 CCGCAGTCCAGACTTAAGTAAAAC 59.848 45.833 8.42 5.09 40.20 2.43
141 613 7.010738 CAGTCCAGACTTAAGTAAAACACGAAA 59.989 37.037 8.42 0.00 40.20 3.46
145 617 8.126700 CCAGACTTAAGTAAAACACGAAACATT 58.873 33.333 8.42 0.00 0.00 2.71
168 640 7.452630 TTTTTCGTATTTTTCAGAAAACCCG 57.547 32.000 7.89 10.27 40.76 5.28
176 648 0.393820 TCAGAAAACCCGCTACCGTT 59.606 50.000 0.00 0.00 0.00 4.44
182 654 3.339253 AAACCCGCTACCGTTTCTATT 57.661 42.857 0.00 0.00 0.00 1.73
184 656 4.470334 AACCCGCTACCGTTTCTATTAA 57.530 40.909 0.00 0.00 0.00 1.40
189 662 6.870439 ACCCGCTACCGTTTCTATTAATAATC 59.130 38.462 0.00 0.00 0.00 1.75
233 726 8.505625 TGTAATTTTATTGACCGTAACTCCAAC 58.494 33.333 0.00 0.00 0.00 3.77
243 736 8.086851 TGACCGTAACTCCAACTTTAAATTAC 57.913 34.615 0.00 0.00 0.00 1.89
244 737 7.933033 TGACCGTAACTCCAACTTTAAATTACT 59.067 33.333 0.00 0.00 0.00 2.24
354 847 7.860373 TGGTGTAATTTTAATCAATAGCGATGC 59.140 33.333 0.00 0.00 0.00 3.91
362 855 5.673337 AATCAATAGCGATGCGTACAATT 57.327 34.783 0.00 0.00 0.00 2.32
363 856 6.779115 AATCAATAGCGATGCGTACAATTA 57.221 33.333 0.00 0.00 0.00 1.40
364 857 5.822584 TCAATAGCGATGCGTACAATTAG 57.177 39.130 0.00 0.00 0.00 1.73
405 932 9.579768 TGTAATTTTAATCAATAGCGCACAATT 57.420 25.926 11.47 3.19 0.00 2.32
410 937 2.616960 TCAATAGCGCACAATTCGTCT 58.383 42.857 11.47 0.00 0.00 4.18
411 938 3.000041 TCAATAGCGCACAATTCGTCTT 59.000 40.909 11.47 0.00 0.00 3.01
415 942 2.650608 AGCGCACAATTCGTCTTTTTC 58.349 42.857 11.47 0.00 0.00 2.29
422 949 5.086058 CACAATTCGTCTTTTTCCATACCG 58.914 41.667 0.00 0.00 0.00 4.02
426 953 1.664151 CGTCTTTTTCCATACCGAGGC 59.336 52.381 0.00 0.00 0.00 4.70
443 970 1.284408 GCCGATCCGTGTTGCAAAA 59.716 52.632 0.00 0.00 0.00 2.44
447 974 2.307049 CGATCCGTGTTGCAAAAGAAC 58.693 47.619 0.00 0.00 0.00 3.01
455 982 4.044426 GTGTTGCAAAAGAACACCTCATC 58.956 43.478 0.00 0.00 44.95 2.92
463 990 6.074142 GCAAAAGAACACCTCATCAAAATCAC 60.074 38.462 0.00 0.00 0.00 3.06
525 1053 1.325640 CTCGACAAACATCGCATGGAG 59.674 52.381 0.00 0.00 41.97 3.86
795 1323 7.516450 ACTAAAGGATATGGATCTATTGGGG 57.484 40.000 0.00 0.00 32.15 4.96
796 1324 5.803463 AAAGGATATGGATCTATTGGGGG 57.197 43.478 0.00 0.00 32.15 5.40
797 1325 4.458700 AGGATATGGATCTATTGGGGGT 57.541 45.455 0.00 0.00 32.15 4.95
798 1326 5.584864 AGGATATGGATCTATTGGGGGTA 57.415 43.478 0.00 0.00 32.15 3.69
799 1327 6.136377 AGGATATGGATCTATTGGGGGTAT 57.864 41.667 0.00 0.00 32.15 2.73
800 1328 6.534313 AGGATATGGATCTATTGGGGGTATT 58.466 40.000 0.00 0.00 32.15 1.89
801 1329 6.391055 AGGATATGGATCTATTGGGGGTATTG 59.609 42.308 0.00 0.00 32.15 1.90
802 1330 6.389869 GGATATGGATCTATTGGGGGTATTGA 59.610 42.308 0.00 0.00 32.15 2.57
803 1331 5.786121 ATGGATCTATTGGGGGTATTGAG 57.214 43.478 0.00 0.00 0.00 3.02
804 1332 4.577096 TGGATCTATTGGGGGTATTGAGT 58.423 43.478 0.00 0.00 0.00 3.41
805 1333 4.597507 TGGATCTATTGGGGGTATTGAGTC 59.402 45.833 0.00 0.00 0.00 3.36
806 1334 4.597507 GGATCTATTGGGGGTATTGAGTCA 59.402 45.833 0.00 0.00 0.00 3.41
807 1335 5.251700 GGATCTATTGGGGGTATTGAGTCAT 59.748 44.000 0.00 0.00 0.00 3.06
808 1336 5.567037 TCTATTGGGGGTATTGAGTCATG 57.433 43.478 0.00 0.00 0.00 3.07
809 1337 5.223655 TCTATTGGGGGTATTGAGTCATGA 58.776 41.667 0.00 0.00 0.00 3.07
810 1338 5.851693 TCTATTGGGGGTATTGAGTCATGAT 59.148 40.000 0.00 0.00 0.00 2.45
811 1339 4.879295 TTGGGGGTATTGAGTCATGATT 57.121 40.909 0.00 0.00 0.00 2.57
812 1340 5.985175 TTGGGGGTATTGAGTCATGATTA 57.015 39.130 0.00 0.00 0.00 1.75
813 1341 6.529084 TTGGGGGTATTGAGTCATGATTAT 57.471 37.500 0.00 0.00 0.00 1.28
814 1342 6.529084 TGGGGGTATTGAGTCATGATTATT 57.471 37.500 0.00 0.00 0.00 1.40
815 1343 6.306199 TGGGGGTATTGAGTCATGATTATTG 58.694 40.000 0.00 0.00 0.00 1.90
816 1344 5.711976 GGGGGTATTGAGTCATGATTATTGG 59.288 44.000 0.00 0.00 0.00 3.16
817 1345 5.711976 GGGGTATTGAGTCATGATTATTGGG 59.288 44.000 0.00 0.00 0.00 4.12
818 1346 6.306987 GGGTATTGAGTCATGATTATTGGGT 58.693 40.000 0.00 0.00 0.00 4.51
819 1347 6.777580 GGGTATTGAGTCATGATTATTGGGTT 59.222 38.462 0.00 0.00 0.00 4.11
820 1348 7.942341 GGGTATTGAGTCATGATTATTGGGTTA 59.058 37.037 0.00 0.00 0.00 2.85
821 1349 9.003658 GGTATTGAGTCATGATTATTGGGTTAG 57.996 37.037 0.00 0.00 0.00 2.34
822 1350 9.003658 GTATTGAGTCATGATTATTGGGTTAGG 57.996 37.037 0.00 0.00 0.00 2.69
823 1351 6.575244 TGAGTCATGATTATTGGGTTAGGT 57.425 37.500 0.00 0.00 0.00 3.08
824 1352 6.356556 TGAGTCATGATTATTGGGTTAGGTG 58.643 40.000 0.00 0.00 0.00 4.00
825 1353 5.133221 AGTCATGATTATTGGGTTAGGTGC 58.867 41.667 0.00 0.00 0.00 5.01
826 1354 4.024048 GTCATGATTATTGGGTTAGGTGCG 60.024 45.833 0.00 0.00 0.00 5.34
827 1355 3.637911 TGATTATTGGGTTAGGTGCGT 57.362 42.857 0.00 0.00 0.00 5.24
828 1356 3.275143 TGATTATTGGGTTAGGTGCGTG 58.725 45.455 0.00 0.00 0.00 5.34
829 1357 2.863132 TTATTGGGTTAGGTGCGTGT 57.137 45.000 0.00 0.00 0.00 4.49
830 1358 2.389962 TATTGGGTTAGGTGCGTGTC 57.610 50.000 0.00 0.00 0.00 3.67
831 1359 0.672401 ATTGGGTTAGGTGCGTGTCG 60.672 55.000 0.00 0.00 0.00 4.35
832 1360 2.030490 TTGGGTTAGGTGCGTGTCGT 62.030 55.000 0.00 0.00 0.00 4.34
833 1361 1.177895 TGGGTTAGGTGCGTGTCGTA 61.178 55.000 0.00 0.00 0.00 3.43
834 1362 0.174162 GGGTTAGGTGCGTGTCGTAT 59.826 55.000 0.00 0.00 0.00 3.06
835 1363 1.404583 GGGTTAGGTGCGTGTCGTATT 60.405 52.381 0.00 0.00 0.00 1.89
836 1364 1.657094 GGTTAGGTGCGTGTCGTATTG 59.343 52.381 0.00 0.00 0.00 1.90
837 1365 2.331194 GTTAGGTGCGTGTCGTATTGT 58.669 47.619 0.00 0.00 0.00 2.71
838 1366 2.728690 TAGGTGCGTGTCGTATTGTT 57.271 45.000 0.00 0.00 0.00 2.83
839 1367 1.873698 AGGTGCGTGTCGTATTGTTT 58.126 45.000 0.00 0.00 0.00 2.83
840 1368 1.796459 AGGTGCGTGTCGTATTGTTTC 59.204 47.619 0.00 0.00 0.00 2.78
841 1369 1.136169 GGTGCGTGTCGTATTGTTTCC 60.136 52.381 0.00 0.00 0.00 3.13
842 1370 1.796459 GTGCGTGTCGTATTGTTTCCT 59.204 47.619 0.00 0.00 0.00 3.36
843 1371 2.222445 GTGCGTGTCGTATTGTTTCCTT 59.778 45.455 0.00 0.00 0.00 3.36
844 1372 2.477375 TGCGTGTCGTATTGTTTCCTTC 59.523 45.455 0.00 0.00 0.00 3.46
845 1373 2.735134 GCGTGTCGTATTGTTTCCTTCT 59.265 45.455 0.00 0.00 0.00 2.85
846 1374 3.423123 GCGTGTCGTATTGTTTCCTTCTG 60.423 47.826 0.00 0.00 0.00 3.02
847 1375 3.739300 CGTGTCGTATTGTTTCCTTCTGT 59.261 43.478 0.00 0.00 0.00 3.41
848 1376 4.210537 CGTGTCGTATTGTTTCCTTCTGTT 59.789 41.667 0.00 0.00 0.00 3.16
849 1377 5.440685 GTGTCGTATTGTTTCCTTCTGTTG 58.559 41.667 0.00 0.00 0.00 3.33
850 1378 4.024387 TGTCGTATTGTTTCCTTCTGTTGC 60.024 41.667 0.00 0.00 0.00 4.17
851 1379 4.024387 GTCGTATTGTTTCCTTCTGTTGCA 60.024 41.667 0.00 0.00 0.00 4.08
852 1380 4.576873 TCGTATTGTTTCCTTCTGTTGCAA 59.423 37.500 0.00 0.00 0.00 4.08
853 1381 4.675114 CGTATTGTTTCCTTCTGTTGCAAC 59.325 41.667 22.83 22.83 0.00 4.17
854 1382 2.842208 TGTTTCCTTCTGTTGCAACG 57.158 45.000 23.79 17.92 0.00 4.10
855 1383 1.202245 TGTTTCCTTCTGTTGCAACGC 60.202 47.619 23.79 2.38 0.00 4.84
856 1384 0.028770 TTTCCTTCTGTTGCAACGCG 59.971 50.000 23.79 17.12 0.00 6.01
857 1385 1.092921 TTCCTTCTGTTGCAACGCGT 61.093 50.000 23.79 5.58 0.00 6.01
858 1386 1.369209 CCTTCTGTTGCAACGCGTG 60.369 57.895 23.79 13.80 0.00 5.34
859 1387 1.369209 CTTCTGTTGCAACGCGTGG 60.369 57.895 23.79 12.31 0.00 4.94
860 1388 2.047151 CTTCTGTTGCAACGCGTGGT 62.047 55.000 23.79 0.00 0.00 4.16
861 1389 2.042520 TTCTGTTGCAACGCGTGGTC 62.043 55.000 23.79 6.83 0.00 4.02
862 1390 2.512745 TGTTGCAACGCGTGGTCT 60.513 55.556 23.79 0.00 0.00 3.85
863 1391 2.248431 GTTGCAACGCGTGGTCTC 59.752 61.111 14.98 0.00 0.00 3.36
864 1392 2.108157 TTGCAACGCGTGGTCTCT 59.892 55.556 14.98 0.00 0.00 3.10
865 1393 1.522806 TTGCAACGCGTGGTCTCTT 60.523 52.632 14.98 0.00 0.00 2.85
866 1394 1.092921 TTGCAACGCGTGGTCTCTTT 61.093 50.000 14.98 0.00 0.00 2.52
867 1395 1.092921 TGCAACGCGTGGTCTCTTTT 61.093 50.000 14.98 0.00 0.00 2.27
868 1396 0.657368 GCAACGCGTGGTCTCTTTTG 60.657 55.000 14.98 4.72 0.00 2.44
872 1400 0.716108 CGCGTGGTCTCTTTTGCTAG 59.284 55.000 0.00 0.00 0.00 3.42
915 1443 9.552695 AGGGAAAAGAAAGAATGGAAAATAGAT 57.447 29.630 0.00 0.00 0.00 1.98
984 1514 1.630126 GGGCTGGCTCATCTCCTGAA 61.630 60.000 0.00 0.00 32.14 3.02
997 1529 4.768130 TCTCCTGAAGTAAGTCTGTTCG 57.232 45.455 0.00 0.00 0.00 3.95
1007 1548 1.120530 AGTCTGTTCGTTCACCACCT 58.879 50.000 0.00 0.00 0.00 4.00
1010 1551 1.340248 TCTGTTCGTTCACCACCTCTC 59.660 52.381 0.00 0.00 0.00 3.20
1031 1572 1.324005 CCGTTCACCTCTCTCTCCCC 61.324 65.000 0.00 0.00 0.00 4.81
1108 1649 3.327404 CCACCTGGTACGCCCCTT 61.327 66.667 0.00 0.00 0.00 3.95
1110 1651 2.122056 ACCTGGTACGCCCCTTCT 59.878 61.111 0.00 0.00 0.00 2.85
1111 1652 1.988406 ACCTGGTACGCCCCTTCTC 60.988 63.158 0.00 0.00 0.00 2.87
1113 1654 1.265454 CCTGGTACGCCCCTTCTCTT 61.265 60.000 0.00 0.00 0.00 2.85
1116 1657 1.521141 GTACGCCCCTTCTCTTCCC 59.479 63.158 0.00 0.00 0.00 3.97
1121 1662 0.995803 GCCCCTTCTCTTCCCTTTCT 59.004 55.000 0.00 0.00 0.00 2.52
1130 1671 3.074538 TCTCTTCCCTTTCTTTTCCCCTG 59.925 47.826 0.00 0.00 0.00 4.45
1148 1690 0.907704 TGTCCATAACCGAGCACCCT 60.908 55.000 0.00 0.00 0.00 4.34
1166 1708 2.421107 CCCTGAACCCTGATGTCAGATG 60.421 54.545 11.47 5.05 46.59 2.90
1255 1797 4.946772 TCTCGCAAAAATTATGACCCATGA 59.053 37.500 0.00 0.00 0.00 3.07
1256 1798 5.417266 TCTCGCAAAAATTATGACCCATGAA 59.583 36.000 0.00 0.00 0.00 2.57
1299 1841 2.873170 TACTGTGCAATTTCTTCGCG 57.127 45.000 0.00 0.00 0.00 5.87
1439 1981 3.426903 CCATCCTCGGCCATCAAAT 57.573 52.632 2.24 0.00 0.00 2.32
1498 2040 5.644206 GGTAGGATTCTTGTCCTCTTTTGTC 59.356 44.000 0.00 0.00 45.51 3.18
1556 2099 4.619973 TCAATTTCTTTGCGTGCAGAATT 58.380 34.783 0.00 0.00 35.16 2.17
1622 2165 2.612972 GCAAAGGTTCTCATGACGAGGA 60.613 50.000 0.00 0.00 42.55 3.71
1644 2187 1.678598 TTGTCGACGGTGGGAACTGT 61.679 55.000 11.62 0.00 0.00 3.55
1769 2313 8.339714 TGAATGTAAACTTAGTGTTACTTGCAC 58.660 33.333 13.92 0.00 38.03 4.57
1774 2332 5.399604 ACTTAGTGTTACTTGCACGAAAC 57.600 39.130 0.00 0.00 41.36 2.78
1789 2347 5.465390 TGCACGAAACTATATAACATCCAGC 59.535 40.000 0.00 0.00 0.00 4.85
1819 2377 3.397482 TGTTGCCGCAAAAGCATAAAAT 58.603 36.364 7.54 0.00 40.59 1.82
1953 2511 4.511454 TGAGATTGGTATAGCATTTCACGC 59.489 41.667 5.28 2.01 0.00 5.34
1969 2527 3.096791 GCTCCTGCTTTAGCGCTG 58.903 61.111 22.90 4.11 45.83 5.18
1970 2528 3.096791 CTCCTGCTTTAGCGCTGC 58.903 61.111 22.90 16.27 45.83 5.25
1973 2531 2.747460 CTGCTTTAGCGCTGCCCA 60.747 61.111 22.90 10.75 45.83 5.36
2174 2732 4.718961 ACCAAACATGTGCTCTTCTACTT 58.281 39.130 0.00 0.00 0.00 2.24
2229 2794 5.499313 TGTCTTGGAACATATCATGCTGAA 58.501 37.500 0.00 0.00 39.30 3.02
2331 2896 0.617820 GGGCTACTTCTCCCTGTCCA 60.618 60.000 0.00 0.00 39.46 4.02
2466 3031 8.552034 GTGAAACTATAGATGTGTAATTCCTGC 58.448 37.037 6.78 0.00 0.00 4.85
2523 3088 2.031616 TGTGCTCACTGCTCAGGC 59.968 61.111 1.66 0.00 39.83 4.85
2620 3186 2.618045 CCATTTGCTACTCCCTCCGTTT 60.618 50.000 0.00 0.00 0.00 3.60
2688 3254 5.248870 ACTGAAATGAGTGAACAAACACC 57.751 39.130 0.00 0.00 41.12 4.16
2711 3277 8.358148 CACCCTAAAACGTGTCTATATACATCT 58.642 37.037 0.00 0.00 0.00 2.90
2778 3349 5.697178 GGAGTAGTTGTTTTCCTCACTCTTC 59.303 44.000 0.00 0.00 33.21 2.87
2789 3360 0.417437 TCACTCTTCCCCATCTCCCA 59.583 55.000 0.00 0.00 0.00 4.37
2936 3507 4.335416 TCATCTGGTCCTTCCATTTGTTC 58.665 43.478 0.00 0.00 46.12 3.18
2996 3567 7.234988 ATGGTACATACTTAGGTAATGACCCTC 59.765 40.741 0.00 0.00 46.49 4.30
3059 3630 3.716353 ACCAAGTAGGCACATATGATCCA 59.284 43.478 10.38 0.00 43.14 3.41
3060 3631 4.352001 ACCAAGTAGGCACATATGATCCAT 59.648 41.667 10.38 0.00 43.14 3.41
3120 3691 2.084546 CCCTTTTAGCTTCCTGTTCGG 58.915 52.381 0.00 0.00 0.00 4.30
3200 3771 2.693074 TGACCTTGTGGCCTTTTCTTTC 59.307 45.455 3.32 0.00 36.63 2.62
3242 3817 8.992073 GGAAACAAATACATTCAAAGAATGCTT 58.008 29.630 17.12 9.87 35.37 3.91
3245 3820 9.715121 AACAAATACATTCAAAGAATGCTTCAT 57.285 25.926 17.12 5.62 31.82 2.57
3315 3891 7.225538 GTGCTCTGTTCTGCAGTTATATGTATT 59.774 37.037 14.67 0.00 45.23 1.89
3538 4115 9.869757 CCGTATGTAGTCCATATTGAAATATCA 57.130 33.333 0.00 0.00 38.29 2.15
3589 4166 7.232534 AGGGAGTACTAGCTAGATTGATTTGAG 59.767 40.741 27.45 0.00 0.00 3.02
3590 4167 6.866248 GGAGTACTAGCTAGATTGATTTGAGC 59.134 42.308 27.45 3.74 0.00 4.26
3591 4168 7.255801 GGAGTACTAGCTAGATTGATTTGAGCT 60.256 40.741 27.45 2.40 45.24 4.09
3592 4169 8.017418 AGTACTAGCTAGATTGATTTGAGCTT 57.983 34.615 27.45 1.95 40.55 3.74
3593 4170 7.925483 AGTACTAGCTAGATTGATTTGAGCTTG 59.075 37.037 27.45 1.28 40.55 4.01
3594 4171 4.897025 AGCTAGATTGATTTGAGCTTGC 57.103 40.909 0.00 0.00 40.55 4.01
3595 4172 3.631227 AGCTAGATTGATTTGAGCTTGCC 59.369 43.478 0.00 0.00 40.55 4.52
3596 4173 3.243334 GCTAGATTGATTTGAGCTTGCCC 60.243 47.826 0.00 0.00 0.00 5.36
3597 4174 2.105766 AGATTGATTTGAGCTTGCCCC 58.894 47.619 0.00 0.00 0.00 5.80
3598 4175 0.819582 ATTGATTTGAGCTTGCCCCG 59.180 50.000 0.00 0.00 0.00 5.73
3599 4176 0.251121 TTGATTTGAGCTTGCCCCGA 60.251 50.000 0.00 0.00 0.00 5.14
3620 4208 6.884295 CCCGAGCTTCCCATTATTTATGATTA 59.116 38.462 0.00 0.00 36.26 1.75
3654 4242 3.638627 TGTTGTTTGAATGGCCACATGTA 59.361 39.130 8.16 0.00 37.40 2.29
3930 4533 7.029563 CCATCTTTGTAAAGCCATAGTTTGTC 58.970 38.462 0.00 0.00 35.99 3.18
3931 4534 7.094205 CCATCTTTGTAAAGCCATAGTTTGTCT 60.094 37.037 0.00 0.00 35.99 3.41
3932 4535 7.202016 TCTTTGTAAAGCCATAGTTTGTCTG 57.798 36.000 0.00 0.00 35.99 3.51
3933 4536 6.770785 TCTTTGTAAAGCCATAGTTTGTCTGT 59.229 34.615 0.00 0.00 35.99 3.41
3947 4550 6.159988 AGTTTGTCTGTACTTCTCATAGTGC 58.840 40.000 0.00 0.00 0.00 4.40
3982 4589 5.299279 TCTTGCTTGCCATTATTTACCTAGC 59.701 40.000 0.00 0.00 0.00 3.42
4078 4685 4.321008 GCCATCGAGATTACCGTTCTCATA 60.321 45.833 0.00 0.00 39.69 2.15
4337 6132 8.550710 TTCTTGATTTGCCCTTCAAAAATATG 57.449 30.769 0.00 0.00 46.60 1.78
4524 6328 4.657436 AAAATTAACGGGTGACTTGCAA 57.343 36.364 0.00 0.00 0.00 4.08
4648 6456 5.929415 GCATAGCTAGAAGAAATAGTGGGTC 59.071 44.000 0.00 0.00 0.00 4.46
4655 6463 6.793505 AGAAGAAATAGTGGGTCGTAGATT 57.206 37.500 0.00 0.00 40.67 2.40
4664 6472 4.694037 AGTGGGTCGTAGATTTTTAGCAAC 59.306 41.667 0.00 0.00 40.67 4.17
4678 6486 8.691661 ATTTTTAGCAACAGAGGAAAAGAGTA 57.308 30.769 0.00 0.00 0.00 2.59
4713 6530 4.844349 ACAAGTGAAGGTAGCCATACAT 57.156 40.909 0.00 0.00 33.21 2.29
4754 6571 6.453943 CAACACACATATCATCTCTAGGAGG 58.546 44.000 0.00 0.00 0.00 4.30
4824 6641 1.272037 TGAAATGATGAGGTGGCAGCA 60.272 47.619 20.04 3.11 38.68 4.41
4826 6643 1.688772 AATGATGAGGTGGCAGCATC 58.311 50.000 20.04 16.75 43.42 3.91
4850 6685 8.812147 TCGCATGGAGTATAACTTATAACTTG 57.188 34.615 0.00 0.00 0.00 3.16
5008 6843 5.722263 AGGATTCTCATGCATAGATCGAAG 58.278 41.667 0.00 0.00 0.00 3.79
5014 6849 3.834231 TCATGCATAGATCGAAGGGATGA 59.166 43.478 13.16 13.16 34.82 2.92
5021 6856 6.680131 GCATAGATCGAAGGGATGATAGTGAG 60.680 46.154 0.00 0.00 34.82 3.51
5027 6862 4.500545 CGAAGGGATGATAGTGAGTCAAGG 60.501 50.000 0.00 0.00 0.00 3.61
5051 6886 6.309737 GGTAGTAAATCTAACGACCACAACAG 59.690 42.308 0.00 0.00 40.96 3.16
5081 6916 3.945981 TGTGAAAGCATGCATGTTGAT 57.054 38.095 26.79 14.33 0.00 2.57
5118 6955 6.420913 GTGGGGATCACTCTTTTAGCTATA 57.579 41.667 0.00 0.00 42.86 1.31
5119 6956 7.010339 GTGGGGATCACTCTTTTAGCTATAT 57.990 40.000 0.00 0.00 42.86 0.86
5120 6957 8.135382 GTGGGGATCACTCTTTTAGCTATATA 57.865 38.462 0.00 0.00 42.86 0.86
5121 6958 8.763601 GTGGGGATCACTCTTTTAGCTATATAT 58.236 37.037 0.00 0.00 42.86 0.86
5188 7026 2.668212 GCGCAGTACCTTGGCACA 60.668 61.111 0.30 0.00 0.00 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 6.048509 GGTTGATTTCATGAAAACACAGGTT 58.951 36.000 25.47 8.28 39.43 3.50
9 10 5.453198 GGGTTGATTTCATGAAAACACAGGT 60.453 40.000 25.47 8.96 33.72 4.00
10 11 4.990426 GGGTTGATTTCATGAAAACACAGG 59.010 41.667 25.47 0.00 33.72 4.00
11 12 4.681025 CGGGTTGATTTCATGAAAACACAG 59.319 41.667 25.47 14.68 33.72 3.66
12 13 4.098654 ACGGGTTGATTTCATGAAAACACA 59.901 37.500 25.47 20.50 33.72 3.72
13 14 4.444056 CACGGGTTGATTTCATGAAAACAC 59.556 41.667 25.47 18.63 33.72 3.32
14 15 4.098654 ACACGGGTTGATTTCATGAAAACA 59.901 37.500 23.91 23.33 33.56 2.83
15 16 4.616953 ACACGGGTTGATTTCATGAAAAC 58.383 39.130 23.91 21.08 33.56 2.43
16 17 4.927978 ACACGGGTTGATTTCATGAAAA 57.072 36.364 23.91 6.72 33.56 2.29
17 18 4.927978 AACACGGGTTGATTTCATGAAA 57.072 36.364 22.52 22.52 35.46 2.69
34 35 5.459110 TTTTCTCACTTACGTCACAACAC 57.541 39.130 0.00 0.00 0.00 3.32
36 37 6.340537 TCTTTTTCTCACTTACGTCACAAC 57.659 37.500 0.00 0.00 0.00 3.32
39 40 6.074463 ACGATTCTTTTTCTCACTTACGTCAC 60.074 38.462 0.00 0.00 0.00 3.67
90 92 5.689961 CGGGTTTATTTCACCAAAACAGAAG 59.310 40.000 0.00 0.00 35.80 2.85
100 572 1.471287 GGACTGCGGGTTTATTTCACC 59.529 52.381 0.00 0.00 0.00 4.02
108 580 1.053424 TAAGTCTGGACTGCGGGTTT 58.947 50.000 3.88 0.00 41.58 3.27
141 613 8.822855 GGGTTTTCTGAAAAATACGAAAAATGT 58.177 29.630 16.47 0.00 37.18 2.71
145 617 5.459434 GCGGGTTTTCTGAAAAATACGAAAA 59.541 36.000 25.46 0.00 37.97 2.29
150 622 5.396484 GGTAGCGGGTTTTCTGAAAAATAC 58.604 41.667 16.47 13.15 36.77 1.89
159 631 1.071228 AGAAACGGTAGCGGGTTTTCT 59.929 47.619 19.72 19.63 36.55 2.52
160 632 1.516161 AGAAACGGTAGCGGGTTTTC 58.484 50.000 19.72 17.84 36.55 2.29
161 633 2.837532 TAGAAACGGTAGCGGGTTTT 57.162 45.000 19.72 10.07 36.55 2.43
162 634 3.339253 AATAGAAACGGTAGCGGGTTT 57.661 42.857 19.72 10.82 38.95 3.27
165 637 6.312180 GGATTATTAATAGAAACGGTAGCGGG 59.688 42.308 19.72 0.00 0.00 6.13
168 640 7.880059 ACGGATTATTAATAGAAACGGTAGC 57.120 36.000 12.36 0.00 0.00 3.58
209 682 8.851541 AGTTGGAGTTACGGTCAATAAAATTA 57.148 30.769 0.00 0.00 0.00 1.40
210 683 7.754851 AGTTGGAGTTACGGTCAATAAAATT 57.245 32.000 0.00 0.00 0.00 1.82
212 685 7.571080 AAAGTTGGAGTTACGGTCAATAAAA 57.429 32.000 0.00 0.00 0.00 1.52
213 686 8.674263 TTAAAGTTGGAGTTACGGTCAATAAA 57.326 30.769 0.00 0.00 0.00 1.40
215 688 8.851541 ATTTAAAGTTGGAGTTACGGTCAATA 57.148 30.769 0.00 0.00 0.00 1.90
216 689 7.754851 ATTTAAAGTTGGAGTTACGGTCAAT 57.245 32.000 0.00 0.00 0.00 2.57
219 692 8.315391 AGTAATTTAAAGTTGGAGTTACGGTC 57.685 34.615 0.00 0.00 0.00 4.79
220 693 9.948964 ATAGTAATTTAAAGTTGGAGTTACGGT 57.051 29.630 0.00 0.00 0.00 4.83
329 822 7.059488 CGCATCGCTATTGATTAAAATTACACC 59.941 37.037 0.00 0.00 0.00 4.16
330 823 7.586300 ACGCATCGCTATTGATTAAAATTACAC 59.414 33.333 0.00 0.00 0.00 2.90
335 828 7.184800 TGTACGCATCGCTATTGATTAAAAT 57.815 32.000 0.00 0.00 0.00 1.82
339 832 6.779115 AATTGTACGCATCGCTATTGATTA 57.221 33.333 0.00 0.00 0.00 1.75
342 835 5.525199 TCTAATTGTACGCATCGCTATTGA 58.475 37.500 0.00 0.00 0.00 2.57
405 932 2.675889 GCCTCGGTATGGAAAAAGACGA 60.676 50.000 0.00 0.00 0.00 4.20
410 937 0.614294 TCGGCCTCGGTATGGAAAAA 59.386 50.000 0.00 0.00 36.95 1.94
411 938 0.834612 ATCGGCCTCGGTATGGAAAA 59.165 50.000 0.00 0.00 36.95 2.29
415 942 2.657237 GGATCGGCCTCGGTATGG 59.343 66.667 0.00 0.00 36.95 2.74
422 949 3.195698 GCAACACGGATCGGCCTC 61.196 66.667 0.00 0.00 0.00 4.70
426 953 0.871722 TCTTTTGCAACACGGATCGG 59.128 50.000 0.00 0.00 0.00 4.18
443 970 6.491062 TCAATGTGATTTTGATGAGGTGTTCT 59.509 34.615 0.00 0.00 0.00 3.01
447 974 6.805271 GTCTTCAATGTGATTTTGATGAGGTG 59.195 38.462 0.00 0.00 37.70 4.00
481 1008 5.508320 GGCATGCATGTGTGATTATTGATGA 60.508 40.000 26.79 0.00 0.00 2.92
771 1299 6.448387 CCCCCAATAGATCCATATCCTTTAGT 59.552 42.308 0.00 0.00 31.98 2.24
772 1300 6.448387 ACCCCCAATAGATCCATATCCTTTAG 59.552 42.308 0.00 0.00 31.98 1.85
773 1301 6.347497 ACCCCCAATAGATCCATATCCTTTA 58.653 40.000 0.00 0.00 31.98 1.85
774 1302 5.180927 ACCCCCAATAGATCCATATCCTTT 58.819 41.667 0.00 0.00 31.98 3.11
775 1303 4.791000 ACCCCCAATAGATCCATATCCTT 58.209 43.478 0.00 0.00 31.98 3.36
776 1304 4.458700 ACCCCCAATAGATCCATATCCT 57.541 45.455 0.00 0.00 31.98 3.24
777 1305 6.389869 TCAATACCCCCAATAGATCCATATCC 59.610 42.308 0.00 0.00 31.98 2.59
778 1306 7.127955 ACTCAATACCCCCAATAGATCCATATC 59.872 40.741 0.00 0.00 0.00 1.63
779 1307 6.974247 ACTCAATACCCCCAATAGATCCATAT 59.026 38.462 0.00 0.00 0.00 1.78
780 1308 6.339220 ACTCAATACCCCCAATAGATCCATA 58.661 40.000 0.00 0.00 0.00 2.74
781 1309 5.173246 ACTCAATACCCCCAATAGATCCAT 58.827 41.667 0.00 0.00 0.00 3.41
782 1310 4.577096 ACTCAATACCCCCAATAGATCCA 58.423 43.478 0.00 0.00 0.00 3.41
783 1311 4.597507 TGACTCAATACCCCCAATAGATCC 59.402 45.833 0.00 0.00 0.00 3.36
784 1312 5.825593 TGACTCAATACCCCCAATAGATC 57.174 43.478 0.00 0.00 0.00 2.75
785 1313 5.851693 TCATGACTCAATACCCCCAATAGAT 59.148 40.000 0.00 0.00 0.00 1.98
786 1314 5.223655 TCATGACTCAATACCCCCAATAGA 58.776 41.667 0.00 0.00 0.00 1.98
787 1315 5.567037 TCATGACTCAATACCCCCAATAG 57.433 43.478 0.00 0.00 0.00 1.73
788 1316 6.529084 AATCATGACTCAATACCCCCAATA 57.471 37.500 0.00 0.00 0.00 1.90
789 1317 5.408079 AATCATGACTCAATACCCCCAAT 57.592 39.130 0.00 0.00 0.00 3.16
790 1318 4.879295 AATCATGACTCAATACCCCCAA 57.121 40.909 0.00 0.00 0.00 4.12
791 1319 6.306199 CAATAATCATGACTCAATACCCCCA 58.694 40.000 0.00 0.00 0.00 4.96
792 1320 5.711976 CCAATAATCATGACTCAATACCCCC 59.288 44.000 0.00 0.00 0.00 5.40
793 1321 5.711976 CCCAATAATCATGACTCAATACCCC 59.288 44.000 0.00 0.00 0.00 4.95
794 1322 6.306987 ACCCAATAATCATGACTCAATACCC 58.693 40.000 0.00 0.00 0.00 3.69
795 1323 7.823745 AACCCAATAATCATGACTCAATACC 57.176 36.000 0.00 0.00 0.00 2.73
796 1324 9.003658 CCTAACCCAATAATCATGACTCAATAC 57.996 37.037 0.00 0.00 0.00 1.89
797 1325 8.723365 ACCTAACCCAATAATCATGACTCAATA 58.277 33.333 0.00 0.00 0.00 1.90
798 1326 7.503566 CACCTAACCCAATAATCATGACTCAAT 59.496 37.037 0.00 0.00 0.00 2.57
799 1327 6.828273 CACCTAACCCAATAATCATGACTCAA 59.172 38.462 0.00 0.00 0.00 3.02
800 1328 6.356556 CACCTAACCCAATAATCATGACTCA 58.643 40.000 0.00 0.00 0.00 3.41
801 1329 5.239525 GCACCTAACCCAATAATCATGACTC 59.760 44.000 0.00 0.00 0.00 3.36
802 1330 5.133221 GCACCTAACCCAATAATCATGACT 58.867 41.667 0.00 0.00 0.00 3.41
803 1331 4.024048 CGCACCTAACCCAATAATCATGAC 60.024 45.833 0.00 0.00 0.00 3.06
804 1332 4.133820 CGCACCTAACCCAATAATCATGA 58.866 43.478 0.00 0.00 0.00 3.07
805 1333 3.882888 ACGCACCTAACCCAATAATCATG 59.117 43.478 0.00 0.00 0.00 3.07
806 1334 3.882888 CACGCACCTAACCCAATAATCAT 59.117 43.478 0.00 0.00 0.00 2.45
807 1335 3.275143 CACGCACCTAACCCAATAATCA 58.725 45.455 0.00 0.00 0.00 2.57
808 1336 3.275999 ACACGCACCTAACCCAATAATC 58.724 45.455 0.00 0.00 0.00 1.75
809 1337 3.275999 GACACGCACCTAACCCAATAAT 58.724 45.455 0.00 0.00 0.00 1.28
810 1338 2.702261 GACACGCACCTAACCCAATAA 58.298 47.619 0.00 0.00 0.00 1.40
811 1339 1.404449 CGACACGCACCTAACCCAATA 60.404 52.381 0.00 0.00 0.00 1.90
812 1340 0.672401 CGACACGCACCTAACCCAAT 60.672 55.000 0.00 0.00 0.00 3.16
813 1341 1.301087 CGACACGCACCTAACCCAA 60.301 57.895 0.00 0.00 0.00 4.12
814 1342 1.177895 TACGACACGCACCTAACCCA 61.178 55.000 0.00 0.00 0.00 4.51
815 1343 0.174162 ATACGACACGCACCTAACCC 59.826 55.000 0.00 0.00 0.00 4.11
816 1344 1.657094 CAATACGACACGCACCTAACC 59.343 52.381 0.00 0.00 0.00 2.85
817 1345 2.331194 ACAATACGACACGCACCTAAC 58.669 47.619 0.00 0.00 0.00 2.34
818 1346 2.728690 ACAATACGACACGCACCTAA 57.271 45.000 0.00 0.00 0.00 2.69
819 1347 2.728690 AACAATACGACACGCACCTA 57.271 45.000 0.00 0.00 0.00 3.08
820 1348 1.796459 GAAACAATACGACACGCACCT 59.204 47.619 0.00 0.00 0.00 4.00
821 1349 1.136169 GGAAACAATACGACACGCACC 60.136 52.381 0.00 0.00 0.00 5.01
822 1350 1.796459 AGGAAACAATACGACACGCAC 59.204 47.619 0.00 0.00 0.00 5.34
823 1351 2.157834 AGGAAACAATACGACACGCA 57.842 45.000 0.00 0.00 0.00 5.24
824 1352 2.735134 AGAAGGAAACAATACGACACGC 59.265 45.455 0.00 0.00 0.00 5.34
825 1353 3.739300 ACAGAAGGAAACAATACGACACG 59.261 43.478 0.00 0.00 0.00 4.49
826 1354 5.440685 CAACAGAAGGAAACAATACGACAC 58.559 41.667 0.00 0.00 0.00 3.67
827 1355 4.024387 GCAACAGAAGGAAACAATACGACA 60.024 41.667 0.00 0.00 0.00 4.35
828 1356 4.024387 TGCAACAGAAGGAAACAATACGAC 60.024 41.667 0.00 0.00 0.00 4.34
829 1357 4.130857 TGCAACAGAAGGAAACAATACGA 58.869 39.130 0.00 0.00 0.00 3.43
830 1358 4.481930 TGCAACAGAAGGAAACAATACG 57.518 40.909 0.00 0.00 0.00 3.06
831 1359 4.675114 CGTTGCAACAGAAGGAAACAATAC 59.325 41.667 28.01 0.00 0.00 1.89
832 1360 4.791411 GCGTTGCAACAGAAGGAAACAATA 60.791 41.667 28.01 0.00 0.00 1.90
833 1361 3.705604 CGTTGCAACAGAAGGAAACAAT 58.294 40.909 28.01 0.00 0.00 2.71
834 1362 2.733858 GCGTTGCAACAGAAGGAAACAA 60.734 45.455 28.01 0.00 0.00 2.83
835 1363 1.202245 GCGTTGCAACAGAAGGAAACA 60.202 47.619 28.01 0.00 0.00 2.83
836 1364 1.477105 GCGTTGCAACAGAAGGAAAC 58.523 50.000 28.01 0.00 0.00 2.78
837 1365 0.028770 CGCGTTGCAACAGAAGGAAA 59.971 50.000 28.01 0.00 0.00 3.13
838 1366 1.092921 ACGCGTTGCAACAGAAGGAA 61.093 50.000 28.01 0.00 0.00 3.36
839 1367 1.522806 ACGCGTTGCAACAGAAGGA 60.523 52.632 28.01 0.00 0.00 3.36
840 1368 1.369209 CACGCGTTGCAACAGAAGG 60.369 57.895 28.01 13.09 0.00 3.46
841 1369 1.369209 CCACGCGTTGCAACAGAAG 60.369 57.895 28.01 17.30 0.00 2.85
842 1370 2.042520 GACCACGCGTTGCAACAGAA 62.043 55.000 28.01 0.00 0.00 3.02
843 1371 2.512745 ACCACGCGTTGCAACAGA 60.513 55.556 28.01 0.00 0.00 3.41
844 1372 2.052237 GACCACGCGTTGCAACAG 60.052 61.111 28.01 22.25 0.00 3.16
845 1373 2.512745 AGACCACGCGTTGCAACA 60.513 55.556 28.01 0.00 0.00 3.33
846 1374 1.772063 AAGAGACCACGCGTTGCAAC 61.772 55.000 19.89 19.89 0.00 4.17
847 1375 1.092921 AAAGAGACCACGCGTTGCAA 61.093 50.000 10.22 0.00 0.00 4.08
848 1376 1.092921 AAAAGAGACCACGCGTTGCA 61.093 50.000 10.22 0.00 0.00 4.08
849 1377 0.657368 CAAAAGAGACCACGCGTTGC 60.657 55.000 10.22 0.97 0.00 4.17
850 1378 0.657368 GCAAAAGAGACCACGCGTTG 60.657 55.000 10.22 9.54 0.00 4.10
851 1379 0.814010 AGCAAAAGAGACCACGCGTT 60.814 50.000 10.22 0.00 0.00 4.84
852 1380 0.032952 TAGCAAAAGAGACCACGCGT 59.967 50.000 5.58 5.58 0.00 6.01
853 1381 0.716108 CTAGCAAAAGAGACCACGCG 59.284 55.000 3.53 3.53 0.00 6.01
854 1382 1.797025 ACTAGCAAAAGAGACCACGC 58.203 50.000 0.00 0.00 0.00 5.34
855 1383 5.168569 TGATTACTAGCAAAAGAGACCACG 58.831 41.667 0.00 0.00 0.00 4.94
856 1384 8.718102 TTATGATTACTAGCAAAAGAGACCAC 57.282 34.615 0.00 0.00 0.00 4.16
857 1385 9.383519 CTTTATGATTACTAGCAAAAGAGACCA 57.616 33.333 0.00 0.00 0.00 4.02
858 1386 9.601217 TCTTTATGATTACTAGCAAAAGAGACC 57.399 33.333 0.00 0.00 30.64 3.85
866 1394 9.778741 CCCTACAATCTTTATGATTACTAGCAA 57.221 33.333 0.00 0.00 43.00 3.91
867 1395 9.154632 TCCCTACAATCTTTATGATTACTAGCA 57.845 33.333 0.00 0.00 43.00 3.49
868 1396 9.998106 TTCCCTACAATCTTTATGATTACTAGC 57.002 33.333 0.00 0.00 43.00 3.42
915 1443 0.968393 GGCAGGAATTGGCCCGTTTA 60.968 55.000 0.00 0.00 46.14 2.01
984 1514 3.492137 GGTGGTGAACGAACAGACTTACT 60.492 47.826 0.00 0.00 0.00 2.24
997 1529 1.765597 AACGGGGAGAGGTGGTGAAC 61.766 60.000 0.00 0.00 0.00 3.18
1007 1548 0.323542 GAGAGAGGTGAACGGGGAGA 60.324 60.000 0.00 0.00 0.00 3.71
1010 1551 1.324005 GGAGAGAGAGGTGAACGGGG 61.324 65.000 0.00 0.00 0.00 5.73
1056 1597 2.815647 GCGAAGGGGCAAGACGAG 60.816 66.667 0.00 0.00 0.00 4.18
1106 1647 4.082845 GGGGAAAAGAAAGGGAAGAGAAG 58.917 47.826 0.00 0.00 0.00 2.85
1108 1649 3.074538 CAGGGGAAAAGAAAGGGAAGAGA 59.925 47.826 0.00 0.00 0.00 3.10
1110 1651 2.789399 ACAGGGGAAAAGAAAGGGAAGA 59.211 45.455 0.00 0.00 0.00 2.87
1111 1652 3.157881 GACAGGGGAAAAGAAAGGGAAG 58.842 50.000 0.00 0.00 0.00 3.46
1113 1654 1.427753 GGACAGGGGAAAAGAAAGGGA 59.572 52.381 0.00 0.00 0.00 4.20
1116 1657 4.462834 GGTTATGGACAGGGGAAAAGAAAG 59.537 45.833 0.00 0.00 0.00 2.62
1121 1662 1.986631 TCGGTTATGGACAGGGGAAAA 59.013 47.619 0.00 0.00 0.00 2.29
1130 1671 0.462047 CAGGGTGCTCGGTTATGGAC 60.462 60.000 0.00 0.00 0.00 4.02
1148 1690 4.074259 CAAACATCTGACATCAGGGTTCA 58.926 43.478 15.49 0.00 43.91 3.18
1166 1708 2.169769 TGGGTCAGATCCGGATACAAAC 59.830 50.000 19.15 12.95 0.00 2.93
1223 1765 6.468956 TCATAATTTTTGCGAGAAATCGAAGC 59.531 34.615 1.17 0.00 34.64 3.86
1255 1797 1.132817 AGGGGCGGATCCAGTATAGTT 60.133 52.381 13.41 0.00 36.21 2.24
1256 1798 0.487772 AGGGGCGGATCCAGTATAGT 59.512 55.000 13.41 0.00 36.21 2.12
1498 2040 3.182967 CCTGGACGAATTCGAAGAAGAG 58.817 50.000 33.05 17.55 45.90 2.85
1556 2099 1.074727 ACCATCACGGGAAATGAACCA 59.925 47.619 0.00 0.00 40.22 3.67
1622 2165 0.531311 GTTCCCACCGTCGACAAACT 60.531 55.000 17.16 0.00 0.00 2.66
1769 2313 5.696270 TGCTGCTGGATGTTATATAGTTTCG 59.304 40.000 0.00 0.00 0.00 3.46
1774 2332 7.821359 ACATTACTGCTGCTGGATGTTATATAG 59.179 37.037 18.13 0.65 0.00 1.31
1789 2347 0.240678 TTGCGGCAACATTACTGCTG 59.759 50.000 12.11 0.00 46.90 4.41
1819 2377 9.606631 AAACCAAACAAAGAATATAACAAGCAA 57.393 25.926 0.00 0.00 0.00 3.91
1953 2511 2.467826 GGCAGCGCTAAAGCAGGAG 61.468 63.158 10.99 0.00 42.21 3.69
1973 2531 6.613271 ACAGGATCAGTACCAGAAATGTATCT 59.387 38.462 0.00 0.00 0.00 1.98
2229 2794 7.453393 TCACAGAATCAAGAGGTACTTCAATT 58.547 34.615 7.82 4.20 41.55 2.32
2331 2896 6.629156 AGAACTCCCTGTCTGATATCCTAAT 58.371 40.000 0.00 0.00 0.00 1.73
2399 2964 8.039538 CCGGGGATATAGTTAGGTATTTTCTTC 58.960 40.741 0.00 0.00 0.00 2.87
2415 2980 5.732170 TGGCCTTAATTTATCCGGGGATATA 59.268 40.000 3.32 4.50 37.02 0.86
2448 3013 5.069119 TCTCACGCAGGAATTACACATCTAT 59.931 40.000 0.00 0.00 0.00 1.98
2452 3017 3.610040 TCTCACGCAGGAATTACACAT 57.390 42.857 0.00 0.00 0.00 3.21
2466 3031 5.862924 AACATCCAACTACATTTCTCACG 57.137 39.130 0.00 0.00 0.00 4.35
2523 3088 5.591099 ACCAGCATGACAAAAACTTTACTG 58.409 37.500 0.00 0.00 39.69 2.74
2749 3316 3.323775 AGGAAAACAACTACTCCCTCCA 58.676 45.455 0.00 0.00 0.00 3.86
2778 3349 0.032813 AGCAAATGTGGGAGATGGGG 60.033 55.000 0.00 0.00 0.00 4.96
2789 3360 8.396272 AGTGACAAGATAAAACTAGCAAATGT 57.604 30.769 0.00 0.00 0.00 2.71
2996 3567 6.543465 TGCCCATCTCATCATTAACTTACTTG 59.457 38.462 0.00 0.00 0.00 3.16
3059 3630 8.102047 TCAATCATTCCACAAAATAGCCAAAAT 58.898 29.630 0.00 0.00 0.00 1.82
3060 3631 7.387397 GTCAATCATTCCACAAAATAGCCAAAA 59.613 33.333 0.00 0.00 0.00 2.44
3120 3691 3.983044 ATGGAACTACAACCTCCACTC 57.017 47.619 0.00 0.00 41.95 3.51
3200 3771 4.935702 TGTTTCCACAGAAAATGCAGAAG 58.064 39.130 0.00 0.00 43.48 2.85
3375 3951 8.267894 AGATGCAGGGGTTATATGTAATCATAC 58.732 37.037 0.00 0.00 39.03 2.39
3542 4119 8.324191 TCCCTCTGTTCAGAAATATAAGATGT 57.676 34.615 4.09 0.00 0.00 3.06
3590 4167 2.843912 AATGGGAAGCTCGGGGCAAG 62.844 60.000 1.17 0.00 44.79 4.01
3591 4168 1.567208 TAATGGGAAGCTCGGGGCAA 61.567 55.000 1.17 0.00 44.79 4.52
3592 4169 1.352622 ATAATGGGAAGCTCGGGGCA 61.353 55.000 1.17 0.00 44.79 5.36
3593 4170 0.178990 AATAATGGGAAGCTCGGGGC 60.179 55.000 0.00 0.00 42.19 5.80
3594 4171 2.364972 AAATAATGGGAAGCTCGGGG 57.635 50.000 0.00 0.00 0.00 5.73
3595 4172 4.651778 TCATAAATAATGGGAAGCTCGGG 58.348 43.478 0.00 0.00 36.15 5.14
3596 4173 6.824305 AATCATAAATAATGGGAAGCTCGG 57.176 37.500 0.00 0.00 36.15 4.63
3930 4533 4.036852 TCATCCGCACTATGAGAAGTACAG 59.963 45.833 0.00 0.00 0.00 2.74
3931 4534 3.951680 TCATCCGCACTATGAGAAGTACA 59.048 43.478 0.00 0.00 0.00 2.90
3932 4535 4.569761 TCATCCGCACTATGAGAAGTAC 57.430 45.455 0.00 0.00 0.00 2.73
3947 4550 1.649664 CAAGCAAGAGACCTCATCCG 58.350 55.000 0.00 0.00 0.00 4.18
4078 4685 7.013464 TGTGAATAAACACTTTACCGATTTGGT 59.987 33.333 0.19 0.19 46.11 3.67
4309 6104 8.782339 ATTTTTGAAGGGCAAATCAAGAATAG 57.218 30.769 10.86 0.00 45.30 1.73
4395 6190 3.584848 AGAAATGCCACTCTCCTAACTGT 59.415 43.478 0.00 0.00 0.00 3.55
4503 6307 4.616953 CTTGCAAGTCACCCGTTAATTTT 58.383 39.130 18.65 0.00 0.00 1.82
4504 6308 3.552068 GCTTGCAAGTCACCCGTTAATTT 60.552 43.478 26.55 0.00 0.00 1.82
4505 6309 2.030274 GCTTGCAAGTCACCCGTTAATT 60.030 45.455 26.55 0.00 0.00 1.40
4512 6316 0.961019 TTCATGCTTGCAAGTCACCC 59.039 50.000 26.55 10.85 0.00 4.61
4521 6325 4.357142 CCACATCATTAGTTCATGCTTGC 58.643 43.478 0.00 0.00 0.00 4.01
4524 6328 3.623703 TGCCACATCATTAGTTCATGCT 58.376 40.909 0.00 0.00 0.00 3.79
4648 6456 6.721571 TTCCTCTGTTGCTAAAAATCTACG 57.278 37.500 0.00 0.00 0.00 3.51
4655 6463 8.567948 CAATACTCTTTTCCTCTGTTGCTAAAA 58.432 33.333 0.00 0.00 0.00 1.52
4713 6530 2.124736 GGGCGCTTGGAGCATACA 60.125 61.111 7.64 0.00 42.58 2.29
4781 6598 8.922931 TCATGCATGTAAGTCATTGGTTATAT 57.077 30.769 25.43 0.00 34.09 0.86
4782 6599 8.744568 TTCATGCATGTAAGTCATTGGTTATA 57.255 30.769 25.43 0.00 34.09 0.98
4783 6600 7.643569 TTCATGCATGTAAGTCATTGGTTAT 57.356 32.000 25.43 0.00 34.09 1.89
4824 6641 9.424319 CAAGTTATAAGTTATACTCCATGCGAT 57.576 33.333 5.23 0.00 0.00 4.58
4826 6643 7.170828 TGCAAGTTATAAGTTATACTCCATGCG 59.829 37.037 5.23 0.00 0.00 4.73
4850 6685 3.441163 CACATCAACAAGCCATGTATGC 58.559 45.455 0.00 0.00 42.99 3.14
5008 6843 4.896482 ACTACCTTGACTCACTATCATCCC 59.104 45.833 0.00 0.00 0.00 3.85
5021 6856 6.529477 GTGGTCGTTAGATTTACTACCTTGAC 59.471 42.308 0.00 0.00 33.71 3.18
5027 6862 6.865205 ACTGTTGTGGTCGTTAGATTTACTAC 59.135 38.462 0.00 0.00 0.00 2.73
5051 6886 4.687018 TGCATGCTTTCACATCATCAAAAC 59.313 37.500 20.33 0.00 0.00 2.43
5150 6987 5.410067 CGCCCAAATTCAAATGTGTAATCT 58.590 37.500 0.00 0.00 0.00 2.40
5153 6990 3.243873 TGCGCCCAAATTCAAATGTGTAA 60.244 39.130 4.18 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.