Multiple sequence alignment - TraesCS7A01G040700

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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 TraesCS7A01G040700 chr7A 100.000 8259 0 0 1 8259 18884267 18876009 0.000000e+00 15252.0
1 TraesCS7A01G040700 chr7A 90.764 314 29 0 1334 1647 18882880 18882567 3.560000e-113 420.0
2 TraesCS7A01G040700 chr7D 94.066 5645 209 52 2637 8223 18432670 18427094 0.000000e+00 8453.0
3 TraesCS7A01G040700 chr7D 92.861 1723 94 10 1 1701 18435412 18433697 0.000000e+00 2473.0
4 TraesCS7A01G040700 chr7D 97.108 1314 38 0 1334 2647 18434010 18432697 0.000000e+00 2217.0
5 TraesCS7A01G040700 chr7D 91.083 314 28 0 1388 1701 18434064 18433751 7.660000e-115 425.0
6 TraesCS7A01G040700 chr7D 84.848 132 19 1 7944 8074 595574442 595574573 1.870000e-26 132.0
7 TraesCS7A01G040700 chr7D 95.556 45 2 0 7987 8031 153405604 153405648 1.150000e-08 73.1
8 TraesCS7A01G040700 chrUn 92.530 3909 203 50 3904 7777 50839272 50835418 0.000000e+00 5518.0
9 TraesCS7A01G040700 chrUn 95.681 2524 93 8 1334 3853 50841947 50839436 0.000000e+00 4043.0
10 TraesCS7A01G040700 chrUn 90.987 1742 109 18 1 1701 50843368 50841634 0.000000e+00 2303.0
11 TraesCS7A01G040700 chrUn 90.022 451 38 5 7775 8223 50835346 50834901 2.000000e-160 577.0
12 TraesCS7A01G040700 chrUn 91.401 314 27 0 1388 1701 50842001 50841688 1.650000e-116 431.0
13 TraesCS7A01G040700 chrUn 94.545 55 3 0 6594 6648 74816156 74816210 1.480000e-12 86.1
14 TraesCS7A01G040700 chrUn 100.000 32 0 0 3882 3913 50839312 50839281 8.950000e-05 60.2
15 TraesCS7A01G040700 chr2D 80.510 2432 363 89 4870 7260 513461903 513464264 0.000000e+00 1762.0
16 TraesCS7A01G040700 chr2D 86.265 1376 167 16 1542 2907 513457046 513458409 0.000000e+00 1474.0
17 TraesCS7A01G040700 chr2D 87.065 603 59 15 3019 3612 513458707 513459299 0.000000e+00 664.0
18 TraesCS7A01G040700 chr2D 78.881 554 80 15 939 1479 513456670 513457199 2.850000e-89 340.0
19 TraesCS7A01G040700 chr2D 83.908 348 35 13 4156 4488 513459903 513460244 6.220000e-81 313.0
20 TraesCS7A01G040700 chr2D 84.739 249 25 7 3623 3865 513459345 513459586 3.850000e-58 237.0
21 TraesCS7A01G040700 chr2D 94.574 129 6 1 7947 8074 362297086 362296958 1.820000e-46 198.0
22 TraesCS7A01G040700 chr2D 85.315 143 7 1 3394 3536 91144861 91144989 1.450000e-27 135.0
23 TraesCS7A01G040700 chr2A 80.404 2424 361 88 4886 7260 657522989 657525347 0.000000e+00 1740.0
24 TraesCS7A01G040700 chr2A 85.507 1449 185 17 1488 2922 657519274 657520711 0.000000e+00 1489.0
25 TraesCS7A01G040700 chr2A 87.603 605 53 13 3019 3612 657520884 657521477 0.000000e+00 682.0
26 TraesCS7A01G040700 chr2A 81.535 482 65 5 1070 1539 657519018 657519487 7.830000e-100 375.0
27 TraesCS7A01G040700 chr2A 83.573 347 37 16 4156 4488 657522078 657522418 2.900000e-79 307.0
28 TraesCS7A01G040700 chr2A 84.739 249 25 7 3623 3865 657521523 657521764 3.850000e-58 237.0
29 TraesCS7A01G040700 chr2B 85.745 1417 188 12 1542 2954 604994102 604995508 0.000000e+00 1485.0
30 TraesCS7A01G040700 chr2B 81.046 1873 281 56 4870 6702 604999058 605000896 0.000000e+00 1424.0
31 TraesCS7A01G040700 chr2B 86.971 591 53 21 3034 3612 604997026 604997604 1.940000e-180 643.0
32 TraesCS7A01G040700 chr2B 83.908 348 35 13 4156 4488 604998165 604998506 6.220000e-81 313.0
33 TraesCS7A01G040700 chr2B 84.739 249 25 7 3623 3865 604997651 604997892 3.850000e-58 237.0
34 TraesCS7A01G040700 chr2B 83.562 146 10 1 3394 3539 695100871 695100740 3.130000e-24 124.0
35 TraesCS7A01G040700 chr4A 80.274 583 87 14 6273 6842 704322608 704322041 1.660000e-111 414.0
36 TraesCS7A01G040700 chr4A 79.616 417 69 9 6457 6861 711215408 711215820 1.360000e-72 285.0
37 TraesCS7A01G040700 chr4B 85.374 294 33 5 7468 7760 195445207 195445491 6.270000e-76 296.0
38 TraesCS7A01G040700 chr6A 77.236 369 67 14 3248 3607 471871491 471871131 5.060000e-47 200.0
39 TraesCS7A01G040700 chr6A 88.387 155 18 0 5578 5732 471869304 471869150 3.940000e-43 187.0
40 TraesCS7A01G040700 chr6A 82.759 87 15 0 6737 6823 199811151 199811065 2.470000e-10 78.7
41 TraesCS7A01G040700 chr6D 76.152 369 72 15 3248 3607 332546146 332545785 6.590000e-41 180.0
42 TraesCS7A01G040700 chr6D 82.759 87 15 0 6737 6823 147881591 147881677 2.470000e-10 78.7
43 TraesCS7A01G040700 chr7B 85.616 146 7 1 3394 3539 68574984 68574853 3.110000e-29 141.0
44 TraesCS7A01G040700 chr1B 84.932 146 8 4 3394 3539 74840583 74840452 1.450000e-27 135.0
45 TraesCS7A01G040700 chr6B 89.744 78 8 0 6577 6654 716623475 716623398 5.270000e-17 100.0
46 TraesCS7A01G040700 chr6B 83.908 87 14 0 6737 6823 260547094 260547180 5.310000e-12 84.2
47 TraesCS7A01G040700 chr5D 85.000 80 10 2 6576 6654 296868976 296868898 6.870000e-11 80.5
48 TraesCS7A01G040700 chr5D 85.000 80 10 2 6576 6654 501209646 501209568 6.870000e-11 80.5
49 TraesCS7A01G040700 chr5B 85.000 80 10 2 6576 6654 622740261 622740183 6.870000e-11 80.5
50 TraesCS7A01G040700 chr5A 83.750 80 11 2 6576 6654 626066116 626066194 3.200000e-09 75.0
51 TraesCS7A01G040700 chr3B 83.750 80 11 2 6576 6654 11695660 11695738 3.200000e-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 TraesCS7A01G040700 chr7A 18876009 18884267 8258 True 7836.000000 15252 95.382000 1 8259 2 chr7A.!!$R1 8258
1 TraesCS7A01G040700 chr7D 18427094 18435412 8318 True 3392.000000 8453 93.779500 1 8223 4 chr7D.!!$R1 8222
2 TraesCS7A01G040700 chrUn 50834901 50843368 8467 True 2155.366667 5518 93.436833 1 8223 6 chrUn.!!$R1 8222
3 TraesCS7A01G040700 chr2D 513456670 513464264 7594 False 798.333333 1762 83.561333 939 7260 6 chr2D.!!$F2 6321
4 TraesCS7A01G040700 chr2A 657519018 657525347 6329 False 805.000000 1740 83.893500 1070 7260 6 chr2A.!!$F1 6190
5 TraesCS7A01G040700 chr2B 604994102 605000896 6794 False 820.400000 1485 84.481800 1542 6702 5 chr2B.!!$F1 5160
6 TraesCS7A01G040700 chr4A 704322041 704322608 567 True 414.000000 414 80.274000 6273 6842 1 chr4A.!!$R1 569

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
188 207 0.034670 GGCTCTGGCTCAATTGGTCT 60.035 55.000 5.42 0.00 38.73 3.85 F
800 850 0.108615 ATTCGTGAGGACCGAGCTTG 60.109 55.000 0.00 0.00 35.49 4.01 F
1489 1551 1.061905 CCCTCAGGGCCATGGACATA 61.062 60.000 22.13 2.31 35.35 2.29 F
2219 2392 1.141019 GCCAGAGGTTACATCGCGA 59.859 57.895 13.09 13.09 0.00 5.87 F
2640 2823 2.710096 TGCCTACTGCCAGGTAAATC 57.290 50.000 0.00 0.00 40.16 2.17 F
4173 6182 2.435805 TCACTGCACCAGGATTATCCTC 59.564 50.000 11.38 0.61 45.66 3.71 F
4393 6414 2.932855 ATCTGTGCATAGCAGCTGAT 57.067 45.000 20.43 15.46 40.08 2.90 F
5540 8975 2.054021 TCACTGACCTCCAACCATTCA 58.946 47.619 0.00 0.00 0.00 2.57 F
6477 9932 2.476873 ATGATCAGCGTACTGTCGAC 57.523 50.000 9.11 9.11 44.77 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1191 1250 0.738389 GTTGAGGAGGAGCTCTCTCG 59.262 60.000 14.64 0.0 42.10 4.04 R
2219 2392 2.831685 TCACAGCACGATTAACACCT 57.168 45.000 0.00 0.0 0.00 4.00 R
3183 4955 0.937304 TGAACAACAGCGAGACAAGC 59.063 50.000 0.00 0.0 0.00 4.01 R
3464 5244 1.340248 ACCACAGTCTTCACAGTACCG 59.660 52.381 0.00 0.0 0.00 4.02 R
4376 6385 1.268589 GCAATCAGCTGCTATGCACAG 60.269 52.381 24.20 0.0 39.34 3.66 R
4981 8400 2.620115 AGCATTATCTTGCACATTCCGG 59.380 45.455 0.00 0.0 45.23 5.14 R
5834 9276 2.889512 TGAGAAGCAACCACCTAGAGA 58.110 47.619 0.00 0.0 0.00 3.10 R
6575 10043 0.110238 CGAATCAACAACGGTGCCTG 60.110 55.000 0.00 0.0 0.00 4.85 R
7598 11093 0.592637 CGAAGACACATGCCAGCAAA 59.407 50.000 0.00 0.0 0.00 3.68 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
39 45 4.101448 GCATCGGTGGCCCTGTCT 62.101 66.667 0.00 0.00 0.00 3.41
121 133 2.033757 CAGGCTGCTTGCTGGAGT 59.966 61.111 0.00 0.00 42.39 3.85
129 141 0.674895 GCTTGCTGGAGTGACCGATT 60.675 55.000 0.00 0.00 42.61 3.34
180 199 4.025858 GCTGGTGGCTCTGGCTCA 62.026 66.667 0.00 0.00 38.73 4.26
181 200 2.752358 CTGGTGGCTCTGGCTCAA 59.248 61.111 0.00 0.00 38.73 3.02
188 207 0.034670 GGCTCTGGCTCAATTGGTCT 60.035 55.000 5.42 0.00 38.73 3.85
199 218 1.894466 CAATTGGTCTGTTCATGCCCA 59.106 47.619 0.00 0.00 0.00 5.36
201 220 0.888736 TTGGTCTGTTCATGCCCACG 60.889 55.000 0.00 0.00 0.00 4.94
231 251 1.134670 GTCGAGGTTTAGGATGCTGCT 60.135 52.381 0.00 0.00 0.00 4.24
246 266 2.266055 GCTGTCTCCCGTCCTTGG 59.734 66.667 0.00 0.00 0.00 3.61
254 274 3.630289 CCGTCCTTGGGGAGGTAG 58.370 66.667 4.44 0.00 46.39 3.18
255 275 1.305887 CCGTCCTTGGGGAGGTAGT 60.306 63.158 4.44 0.00 46.39 2.73
256 276 1.328430 CCGTCCTTGGGGAGGTAGTC 61.328 65.000 4.44 0.00 46.39 2.59
257 277 0.613853 CGTCCTTGGGGAGGTAGTCA 60.614 60.000 0.00 0.00 46.39 3.41
258 278 1.880941 GTCCTTGGGGAGGTAGTCAT 58.119 55.000 0.00 0.00 46.39 3.06
282 310 2.202932 CTTGCCTAGATGCGCCGT 60.203 61.111 4.18 0.00 0.00 5.68
306 334 2.110578 GCCAGCCAGGGTCAAATAAAT 58.889 47.619 0.00 0.00 38.09 1.40
389 423 1.454663 GCCTTCCTTCTCCCATGGC 60.455 63.158 6.09 0.00 0.00 4.40
409 443 2.492773 GGCTGCAGGCTTGTTGTGT 61.493 57.895 31.40 0.00 41.46 3.72
413 447 0.472044 TGCAGGCTTGTTGTGTAGGA 59.528 50.000 0.00 0.00 0.00 2.94
428 462 0.319211 TAGGACTGTTGTTCGTGGCG 60.319 55.000 0.00 0.00 0.00 5.69
441 475 1.153429 GTGGCGGTGTCCATAGGTC 60.153 63.158 0.00 0.00 38.57 3.85
450 484 1.646447 TGTCCATAGGTCTCTGGGAGT 59.354 52.381 3.11 0.00 31.40 3.85
463 497 5.719085 GTCTCTGGGAGTCATATATGGATGT 59.281 44.000 12.78 0.00 0.00 3.06
531 579 6.797033 CAGCAACACGTATAAAGAAAGAAAGG 59.203 38.462 0.00 0.00 0.00 3.11
532 580 6.708949 AGCAACACGTATAAAGAAAGAAAGGA 59.291 34.615 0.00 0.00 0.00 3.36
533 581 7.227910 AGCAACACGTATAAAGAAAGAAAGGAA 59.772 33.333 0.00 0.00 0.00 3.36
534 582 7.534239 GCAACACGTATAAAGAAAGAAAGGAAG 59.466 37.037 0.00 0.00 0.00 3.46
550 598 8.954950 AGAAAGGAAGTATGATGACATTAGTG 57.045 34.615 0.00 0.00 37.87 2.74
610 658 6.525629 GTCATAGGACTTGCATTGGTATAGT 58.474 40.000 0.00 0.00 40.99 2.12
633 681 6.153000 AGTCTGTAGTGTGGTATTCGATTTCT 59.847 38.462 0.00 0.00 0.00 2.52
643 691 5.116882 GGTATTCGATTTCTAGTGCCACTT 58.883 41.667 1.02 0.00 0.00 3.16
694 742 3.884895 TCATTATGCTCGGGTGACATTT 58.115 40.909 0.00 0.00 0.00 2.32
754 802 2.493278 GCATGGTTTGCCTAGACATGTT 59.507 45.455 0.00 0.00 46.15 2.71
775 825 4.345859 TGTTGAGTCAGGGTTAAATCGT 57.654 40.909 0.00 0.00 0.00 3.73
782 832 4.406003 AGTCAGGGTTAAATCGTAGCAGAT 59.594 41.667 0.00 0.00 0.00 2.90
799 849 0.173708 GATTCGTGAGGACCGAGCTT 59.826 55.000 0.00 0.00 35.49 3.74
800 850 0.108615 ATTCGTGAGGACCGAGCTTG 60.109 55.000 0.00 0.00 35.49 4.01
866 916 3.205338 AGGGGTTGTGTACGTTTGTTAC 58.795 45.455 0.00 0.00 0.00 2.50
871 921 4.437121 GGTTGTGTACGTTTGTTACAAGCA 60.437 41.667 12.08 0.00 43.82 3.91
906 956 1.075212 TCCCATGATGGTTTGCAGACA 59.925 47.619 11.09 0.00 35.17 3.41
917 967 3.253230 GTTTGCAGACATGTTATTGGGC 58.747 45.455 0.00 0.00 0.00 5.36
1029 1079 4.759782 TCTGCTTCAAGTTATACCTGAGC 58.240 43.478 0.00 0.00 0.00 4.26
1191 1250 3.512516 GGTTCATCGCAGCCAGCC 61.513 66.667 0.00 0.00 41.38 4.85
1374 1436 2.607892 GCGTGAATATCAGGGCCGC 61.608 63.158 0.00 0.00 32.59 6.53
1410 1472 2.916269 TGGTCCACCTGAATATCAACCA 59.084 45.455 0.00 0.00 31.83 3.67
1413 1475 2.569853 TCCACCTGAATATCAACCACGT 59.430 45.455 0.00 0.00 0.00 4.49
1489 1551 1.061905 CCCTCAGGGCCATGGACATA 61.062 60.000 22.13 2.31 35.35 2.29
1763 1936 2.445845 CGGGCATAGGGGAGGACA 60.446 66.667 0.00 0.00 0.00 4.02
1771 1944 1.255033 TAGGGGAGGACATGGAGGAT 58.745 55.000 0.00 0.00 0.00 3.24
2147 2320 6.339587 TGAAATTTTATTCCCACACTGGAC 57.660 37.500 0.00 0.00 40.96 4.02
2152 2325 7.881775 ATTTTATTCCCACACTGGACTTATC 57.118 36.000 0.00 0.00 40.96 1.75
2219 2392 1.141019 GCCAGAGGTTACATCGCGA 59.859 57.895 13.09 13.09 0.00 5.87
2640 2823 2.710096 TGCCTACTGCCAGGTAAATC 57.290 50.000 0.00 0.00 40.16 2.17
2682 2902 9.531942 TCATGTTATTATTTTTCATGTGGCATC 57.468 29.630 0.00 0.00 37.64 3.91
2833 3053 6.027025 AGTATAAGACCTACACAGATGGGA 57.973 41.667 0.00 0.00 0.00 4.37
2975 4747 7.255569 TCAGTAATACATAGTGTCCAAGTTCG 58.744 38.462 0.00 0.00 36.49 3.95
2990 4762 4.466828 CAAGTTCGGTTTTACAGAGCATG 58.533 43.478 0.00 0.00 0.00 4.06
3017 4789 4.081406 TGTAGGTTGCTGAATGCTCATTT 58.919 39.130 0.00 0.00 43.37 2.32
3183 4955 3.431912 TCGTGTGAAGGTTCGATTCATTG 59.568 43.478 3.43 0.00 38.81 2.82
3464 5244 2.843701 AGATTCCCTGTTGATGATCGC 58.156 47.619 0.00 0.00 0.00 4.58
3563 5343 2.742053 GCAAGTCGGTAATCAGCAAAGA 59.258 45.455 0.00 0.00 0.00 2.52
3643 5423 5.179368 CACCTCAGTATGTTGGTACAAGTTG 59.821 44.000 0.00 0.00 40.64 3.16
3712 5527 2.735134 GGACAACGCTACTCAAAACGAT 59.265 45.455 0.00 0.00 0.00 3.73
3865 5680 5.136816 TGCAAAATTATGACATGCTGTGT 57.863 34.783 0.00 0.00 45.83 3.72
3927 5865 4.653341 TGTTTTCCCCAGTCAATCATGTTT 59.347 37.500 0.00 0.00 0.00 2.83
3941 5879 6.655003 TCAATCATGTTTACAGAGTTCTTCCC 59.345 38.462 0.00 0.00 0.00 3.97
3942 5880 5.560722 TCATGTTTACAGAGTTCTTCCCA 57.439 39.130 0.00 0.00 0.00 4.37
3954 5892 5.244626 AGAGTTCTTCCCATTTGATGTTTGG 59.755 40.000 0.00 0.00 0.00 3.28
3966 5904 9.927668 CCATTTGATGTTTGGAGTATTTAGTTT 57.072 29.630 0.00 0.00 31.94 2.66
4105 6052 9.396022 AGTTGTTATGGTGGAAACTATTATGAG 57.604 33.333 0.00 0.00 29.56 2.90
4107 6054 9.747898 TTGTTATGGTGGAAACTATTATGAGTT 57.252 29.630 0.00 0.00 41.50 3.01
4146 6093 7.615582 TCTGTCTTATGTCAAATGCTTTAGG 57.384 36.000 0.00 0.00 0.00 2.69
4148 6095 8.318412 TCTGTCTTATGTCAAATGCTTTAGGTA 58.682 33.333 0.00 0.00 0.00 3.08
4173 6182 2.435805 TCACTGCACCAGGATTATCCTC 59.564 50.000 11.38 0.61 45.66 3.71
4188 6197 8.265764 AGGATTATCCTCTTAAACTTAAGCGTT 58.734 33.333 8.15 0.00 45.66 4.84
4376 6385 8.219769 CGATTAGACAGCAGTTGATTTCATATC 58.780 37.037 0.00 0.00 0.00 1.63
4393 6414 2.932855 ATCTGTGCATAGCAGCTGAT 57.067 45.000 20.43 15.46 40.08 2.90
4511 6727 3.927142 GTCTTGGTGATGTAACGGAAGAG 59.073 47.826 0.00 0.00 0.00 2.85
4559 6779 9.701098 ACAAAGCCATGCATAGATAAATAAATG 57.299 29.630 0.00 0.00 0.00 2.32
4590 6814 9.952341 GAAATAAAAATAGAAATGGCAACGAAC 57.048 29.630 0.00 0.00 42.51 3.95
4593 6817 5.461032 AAATAGAAATGGCAACGAACCAA 57.539 34.783 0.00 0.00 41.49 3.67
4685 6909 8.662781 TCAATACAGTAGCAAGAATATCAACC 57.337 34.615 0.00 0.00 0.00 3.77
4718 6942 9.740239 CAACATGCAGCTTTCATAAATACTAAT 57.260 29.630 0.00 0.00 0.00 1.73
4794 8154 9.403583 TCTAGGTTCACATGGGATAATTTTAAC 57.596 33.333 0.00 0.00 0.00 2.01
4824 8191 7.334858 TGTGCACATCTCAAAACCATACTATA 58.665 34.615 17.42 0.00 0.00 1.31
4829 8196 6.942576 ACATCTCAAAACCATACTATATGGGC 59.057 38.462 17.18 0.00 43.32 5.36
4866 8279 4.961438 AGCATTGTTTCTTCAACCCATT 57.039 36.364 0.00 0.00 33.97 3.16
4926 8345 7.502226 AGTTCTCATACTTGTTCATTTTGGTGA 59.498 33.333 0.00 0.00 0.00 4.02
4981 8400 4.576463 CACTGGGCATGTATTAACTTCTCC 59.424 45.833 0.00 0.00 0.00 3.71
5076 8495 5.356751 TGGTATGGTTCAATCATGCAACTAC 59.643 40.000 0.81 0.00 0.00 2.73
5088 8507 7.976135 ATCATGCAACTACCTTCTCATATTC 57.024 36.000 0.00 0.00 0.00 1.75
5111 8532 3.896122 TCTGTCGCTTTGGTTATTTTGC 58.104 40.909 0.00 0.00 0.00 3.68
5352 8782 2.795329 AGCACGTTTGAAGATTCCCAT 58.205 42.857 0.00 0.00 0.00 4.00
5540 8975 2.054021 TCACTGACCTCCAACCATTCA 58.946 47.619 0.00 0.00 0.00 2.57
5738 9173 2.483876 TGCAGCTGTAAGTGACTTGTC 58.516 47.619 16.64 1.92 35.30 3.18
5804 9246 4.897076 TCTAGGTGTGTTGGAAGTTCTGTA 59.103 41.667 2.25 0.00 0.00 2.74
5818 9260 9.349713 TGGAAGTTCTGTAGTTTTATTGATTGT 57.650 29.630 2.25 0.00 0.00 2.71
6093 9537 4.327982 TCTCATATCTTTCAAGAGGGCG 57.672 45.455 0.00 0.00 38.66 6.13
6146 9590 4.373156 ACAGGTTCATAGCCTTTCTTGT 57.627 40.909 0.00 0.00 33.31 3.16
6282 9726 6.151144 GGAAGGTACAATTGCTTTGACTACAT 59.849 38.462 5.05 0.00 38.76 2.29
6285 9729 7.593825 AGGTACAATTGCTTTGACTACATTTC 58.406 34.615 5.05 0.00 38.76 2.17
6294 9738 5.675538 CTTTGACTACATTTCTCCTAGGGG 58.324 45.833 9.46 5.31 0.00 4.79
6338 9793 9.177608 TGGTAATATTCCACATTTTTCTCTGAG 57.822 33.333 0.00 0.00 0.00 3.35
6474 9929 3.511699 TCACAATGATCAGCGTACTGTC 58.488 45.455 0.09 0.00 44.77 3.51
6477 9932 2.476873 ATGATCAGCGTACTGTCGAC 57.523 50.000 9.11 9.11 44.77 4.20
6541 10002 5.245075 ACAAGGTTTTTGTTCTTGGTTGAGA 59.755 36.000 0.00 0.00 41.35 3.27
6575 10043 7.781056 TGACCATTTTTATGCTTCCTAATTCC 58.219 34.615 0.00 0.00 0.00 3.01
6621 10089 2.083774 TGCCATCCGACAGAATTTGAC 58.916 47.619 0.00 0.00 0.00 3.18
6655 10123 1.766494 CCATGCTGGCATTCAGGTTA 58.234 50.000 5.23 0.00 43.54 2.85
6827 10303 6.126568 ACAACTTGTGCTACACGTAATTTT 57.873 33.333 0.00 0.00 37.14 1.82
6842 10318 7.119116 ACACGTAATTTTCTGTTCTATCATGCA 59.881 33.333 0.00 0.00 0.00 3.96
6846 10322 9.846248 GTAATTTTCTGTTCTATCATGCACTTT 57.154 29.630 0.00 0.00 0.00 2.66
6894 10371 7.890515 TGTTACATTGGCTGATCAAACATTAA 58.109 30.769 0.00 0.00 0.00 1.40
6895 10372 7.812191 TGTTACATTGGCTGATCAAACATTAAC 59.188 33.333 0.00 7.60 0.00 2.01
6901 10378 7.945033 TGGCTGATCAAACATTAACTTTTTC 57.055 32.000 0.00 0.00 0.00 2.29
6911 10388 7.770801 AACATTAACTTTTTCCTGTTTCAGC 57.229 32.000 0.00 0.00 0.00 4.26
6961 10438 8.218488 GTCAATTGGTAAACTCCCCTATCTATT 58.782 37.037 5.42 0.00 0.00 1.73
7001 10478 6.125327 TCAAGCTTCTCGTACTAGATTCAG 57.875 41.667 0.00 0.00 0.00 3.02
7015 10493 7.659652 ACTAGATTCAGTGCTGTTAAAAGTC 57.340 36.000 0.00 0.00 0.00 3.01
7023 10501 5.758296 CAGTGCTGTTAAAAGTCCAACTCTA 59.242 40.000 0.00 0.00 0.00 2.43
7029 10507 7.573283 GCTGTTAAAAGTCCAACTCTAACCATC 60.573 40.741 0.00 0.00 0.00 3.51
7044 10522 0.667184 CCATCGGTTGTTTGCTTGCC 60.667 55.000 0.00 0.00 0.00 4.52
7260 10738 4.151689 GCGTGTCATGTTTTACTGCTAAGA 59.848 41.667 0.00 0.00 0.00 2.10
7261 10739 5.163854 GCGTGTCATGTTTTACTGCTAAGAT 60.164 40.000 0.00 0.00 0.00 2.40
7262 10740 6.035650 GCGTGTCATGTTTTACTGCTAAGATA 59.964 38.462 0.00 0.00 0.00 1.98
7263 10741 7.412563 GCGTGTCATGTTTTACTGCTAAGATAA 60.413 37.037 0.00 0.00 0.00 1.75
7269 10747 8.491152 CATGTTTTACTGCTAAGATAAGATCCG 58.509 37.037 0.00 0.00 0.00 4.18
7302 10780 1.348036 GAGGGTACTTGAAGCACCTGT 59.652 52.381 13.92 2.51 32.12 4.00
7320 10813 5.023452 ACCTGTGAGTAGTATTGGTGATGA 58.977 41.667 0.00 0.00 0.00 2.92
7408 10901 4.781087 AGGGTATTCTAAGTACTTGCACCA 59.219 41.667 18.56 0.00 0.00 4.17
7410 10903 4.571176 GGTATTCTAAGTACTTGCACCAGC 59.429 45.833 18.56 6.59 42.57 4.85
7466 10959 4.331968 TGACTGGATTGGGTGTCATTTAC 58.668 43.478 0.00 0.00 34.94 2.01
7469 10962 3.696045 TGGATTGGGTGTCATTTACCTG 58.304 45.455 0.00 0.00 38.30 4.00
7470 10963 3.075283 TGGATTGGGTGTCATTTACCTGT 59.925 43.478 0.00 0.00 38.30 4.00
7471 10964 4.086457 GGATTGGGTGTCATTTACCTGTT 58.914 43.478 0.00 0.00 38.30 3.16
7472 10965 4.082245 GGATTGGGTGTCATTTACCTGTTG 60.082 45.833 0.00 0.00 38.30 3.33
7473 10966 3.586470 TGGGTGTCATTTACCTGTTGT 57.414 42.857 0.00 0.00 38.30 3.32
7474 10967 3.218453 TGGGTGTCATTTACCTGTTGTG 58.782 45.455 0.00 0.00 38.30 3.33
7475 10968 2.030274 GGGTGTCATTTACCTGTTGTGC 60.030 50.000 0.00 0.00 38.30 4.57
7476 10969 2.884639 GGTGTCATTTACCTGTTGTGCT 59.115 45.455 0.00 0.00 35.30 4.40
7477 10970 3.304659 GGTGTCATTTACCTGTTGTGCTG 60.305 47.826 0.00 0.00 35.30 4.41
7478 10971 2.293122 TGTCATTTACCTGTTGTGCTGC 59.707 45.455 0.00 0.00 0.00 5.25
7479 10972 2.554032 GTCATTTACCTGTTGTGCTGCT 59.446 45.455 0.00 0.00 0.00 4.24
7480 10973 2.813754 TCATTTACCTGTTGTGCTGCTC 59.186 45.455 0.00 0.00 0.00 4.26
7481 10974 1.604604 TTTACCTGTTGTGCTGCTCC 58.395 50.000 0.00 0.00 0.00 4.70
7482 10975 0.602638 TTACCTGTTGTGCTGCTCCG 60.603 55.000 0.00 0.00 0.00 4.63
7530 11023 3.861341 GGCTGTGCCTTGTGAGATA 57.139 52.632 0.73 0.00 46.69 1.98
7567 11062 7.433708 TCTACATTTGTATGACTGGTGTTTG 57.566 36.000 0.00 0.00 35.65 2.93
7598 11093 7.943079 TTATGAACTTGTGTCATGGAATCAT 57.057 32.000 0.00 0.00 0.00 2.45
7613 11108 2.953466 ATCATTTGCTGGCATGTGTC 57.047 45.000 0.00 0.00 0.00 3.67
7616 11111 2.229543 TCATTTGCTGGCATGTGTCTTC 59.770 45.455 0.00 0.00 0.00 2.87
7670 11165 7.560368 AGATTCTTAGGGTTGTCTGTATGAAG 58.440 38.462 0.00 0.00 0.00 3.02
7781 11350 7.285566 AGCATTGGTGAAGATAGATACAATGT 58.714 34.615 13.76 0.00 43.20 2.71
7826 11395 2.104111 TCTTTACACTGACCACCACTGG 59.896 50.000 0.00 0.00 44.26 4.00
7863 11432 2.363038 CCATGCCAATGATTACCACCTG 59.637 50.000 0.00 0.00 35.67 4.00
7886 11455 5.637810 TGTGGAGTAGCGATTTTAAGTGAAG 59.362 40.000 0.00 0.00 0.00 3.02
7908 11477 0.532115 CCCCTGTTGGCTTTACATGC 59.468 55.000 0.00 0.00 0.00 4.06
8047 11618 4.837896 AGTCTTGAGCTAAACAAAAGGC 57.162 40.909 0.00 0.00 0.00 4.35
8058 11629 4.568072 AAACAAAAGGCAAGGGTTCTTT 57.432 36.364 0.00 0.00 32.77 2.52
8077 11648 5.801380 TCTTTGAATAAGAACCGCTTACCT 58.199 37.500 0.00 0.00 41.64 3.08
8108 11679 3.196254 CCATAAAGTGCAGCCCTCAATTT 59.804 43.478 0.00 2.42 36.06 1.82
8129 11700 0.893727 ACCCATTTGTCCACTTCGCC 60.894 55.000 0.00 0.00 0.00 5.54
8130 11701 1.501741 CCATTTGTCCACTTCGCCG 59.498 57.895 0.00 0.00 0.00 6.46
8184 11755 4.582701 TCACCAATTTCGACAAATGCTT 57.417 36.364 0.00 0.00 32.18 3.91
8204 11775 4.085107 GCTTACATTTTCGTTGCCAACTTG 60.085 41.667 5.96 0.00 0.00 3.16
8226 11797 7.884816 TTGAGCAAAGTACATAGTTCAGTAC 57.115 36.000 0.00 0.00 40.60 2.73
8227 11798 6.988522 TGAGCAAAGTACATAGTTCAGTACA 58.011 36.000 0.00 0.00 42.26 2.90
8228 11799 7.611770 TGAGCAAAGTACATAGTTCAGTACAT 58.388 34.615 0.00 0.00 42.26 2.29
8229 11800 8.094548 TGAGCAAAGTACATAGTTCAGTACATT 58.905 33.333 0.00 0.00 42.26 2.71
8230 11801 8.848474 AGCAAAGTACATAGTTCAGTACATTT 57.152 30.769 0.00 0.00 42.26 2.32
8231 11802 8.936864 AGCAAAGTACATAGTTCAGTACATTTC 58.063 33.333 0.00 0.00 42.26 2.17
8232 11803 8.717821 GCAAAGTACATAGTTCAGTACATTTCA 58.282 33.333 0.00 0.00 42.26 2.69
8250 11821 7.515957 CATTTCATCAAAATGTCAGCCTAAC 57.484 36.000 2.99 0.00 46.12 2.34
8251 11822 6.647334 TTTCATCAAAATGTCAGCCTAACA 57.353 33.333 0.00 0.00 34.32 2.41
8252 11823 5.627499 TCATCAAAATGTCAGCCTAACAC 57.373 39.130 0.00 0.00 34.32 3.32
8253 11824 5.316167 TCATCAAAATGTCAGCCTAACACT 58.684 37.500 0.00 0.00 34.32 3.55
8254 11825 6.472016 TCATCAAAATGTCAGCCTAACACTA 58.528 36.000 0.00 0.00 34.32 2.74
8255 11826 6.595326 TCATCAAAATGTCAGCCTAACACTAG 59.405 38.462 0.00 0.00 34.32 2.57
8256 11827 4.695455 TCAAAATGTCAGCCTAACACTAGC 59.305 41.667 0.00 0.00 0.00 3.42
8257 11828 4.559862 AAATGTCAGCCTAACACTAGCT 57.440 40.909 0.00 0.00 37.32 3.32
8258 11829 5.677319 AAATGTCAGCCTAACACTAGCTA 57.323 39.130 0.00 0.00 34.38 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 33 3.368571 GCAAGCAGACAGGGCCAC 61.369 66.667 6.18 0.00 0.00 5.01
39 45 1.374631 CAGGACGCTACAGCAAGCA 60.375 57.895 1.61 0.00 42.91 3.91
116 128 3.283751 ACAAAACAAATCGGTCACTCCA 58.716 40.909 0.00 0.00 35.57 3.86
121 133 5.587043 ACAGAGTAACAAAACAAATCGGTCA 59.413 36.000 0.00 0.00 0.00 4.02
129 141 4.492895 GCGACGAACAGAGTAACAAAACAA 60.493 41.667 0.00 0.00 0.00 2.83
180 199 1.895131 GTGGGCATGAACAGACCAATT 59.105 47.619 0.00 0.00 32.19 2.32
181 200 1.549203 GTGGGCATGAACAGACCAAT 58.451 50.000 0.00 0.00 32.19 3.16
199 218 4.657824 CTCGACCAACCACGCCGT 62.658 66.667 0.00 0.00 0.00 5.68
201 220 3.819877 AACCTCGACCAACCACGCC 62.820 63.158 0.00 0.00 0.00 5.68
210 229 1.941325 CAGCATCCTAAACCTCGACC 58.059 55.000 0.00 0.00 0.00 4.79
246 266 2.279517 CGCGCATGACTACCTCCC 60.280 66.667 8.75 0.00 0.00 4.30
252 272 3.195002 GCAAGCCGCGCATGACTA 61.195 61.111 8.75 0.00 27.85 2.59
255 275 4.465480 TAGGCAAGCCGCGCATGA 62.465 61.111 8.75 0.00 43.84 3.07
256 276 3.945434 CTAGGCAAGCCGCGCATG 61.945 66.667 8.75 0.41 43.84 4.06
257 277 3.466791 ATCTAGGCAAGCCGCGCAT 62.467 57.895 8.75 0.00 43.84 4.73
258 278 4.161295 ATCTAGGCAAGCCGCGCA 62.161 61.111 8.75 0.00 43.84 6.09
282 310 2.005606 TTTGACCCTGGCTGGCTTGA 62.006 55.000 4.64 0.00 0.00 3.02
306 334 3.826157 TCGACCCGAAAAGTAACCTAGAA 59.174 43.478 0.00 0.00 31.06 2.10
389 423 4.047059 CAACAAGCCTGCAGCCCG 62.047 66.667 8.66 0.00 45.47 6.13
409 443 0.319211 CGCCACGAACAACAGTCCTA 60.319 55.000 0.00 0.00 0.00 2.94
413 447 2.177580 CACCGCCACGAACAACAGT 61.178 57.895 0.00 0.00 0.00 3.55
428 462 1.123928 CCCAGAGACCTATGGACACC 58.876 60.000 11.93 0.00 44.36 4.16
441 475 6.617782 AACATCCATATATGACTCCCAGAG 57.382 41.667 14.54 0.00 35.52 3.35
468 502 5.988561 AGCAAATATTTGGAACGAAGCAAAA 59.011 32.000 25.61 0.00 38.57 2.44
531 579 6.763135 TGCCTTCACTAATGTCATCATACTTC 59.237 38.462 0.00 0.00 33.49 3.01
532 580 6.653020 TGCCTTCACTAATGTCATCATACTT 58.347 36.000 0.00 0.00 33.49 2.24
533 581 6.239217 TGCCTTCACTAATGTCATCATACT 57.761 37.500 0.00 0.00 33.49 2.12
534 582 6.933521 AGATGCCTTCACTAATGTCATCATAC 59.066 38.462 0.00 0.00 33.34 2.39
550 598 4.229876 CGGAAACTTTCAAAGATGCCTTC 58.770 43.478 3.49 0.00 0.00 3.46
610 658 6.525578 AGAAATCGAATACCACACTACAGA 57.474 37.500 0.00 0.00 0.00 3.41
633 681 8.153479 CATAGTTTGCATATAAAGTGGCACTA 57.847 34.615 22.37 6.57 35.74 2.74
694 742 6.350906 TCAAGGACCGAAAACTCTTTAGAAA 58.649 36.000 0.00 0.00 0.00 2.52
751 799 4.513692 CGATTTAACCCTGACTCAACAACA 59.486 41.667 0.00 0.00 0.00 3.33
754 802 4.345859 ACGATTTAACCCTGACTCAACA 57.654 40.909 0.00 0.00 0.00 3.33
775 825 0.738975 CGGTCCTCACGAATCTGCTA 59.261 55.000 0.00 0.00 0.00 3.49
782 832 1.289066 CAAGCTCGGTCCTCACGAA 59.711 57.895 0.00 0.00 40.16 3.85
799 849 3.857157 AAAGGAAGGCTAGAACACACA 57.143 42.857 0.00 0.00 0.00 3.72
800 850 4.134563 TGAAAAGGAAGGCTAGAACACAC 58.865 43.478 0.00 0.00 0.00 3.82
866 916 3.001330 GGATAAGATTCGTTCCGTGCTTG 59.999 47.826 0.00 0.00 0.00 4.01
871 921 3.386726 TCATGGGATAAGATTCGTTCCGT 59.613 43.478 0.00 0.00 0.00 4.69
906 956 1.575304 ACCAGATGGGCCCAATAACAT 59.425 47.619 32.58 11.79 42.05 2.71
1029 1079 9.605275 TGAAGTATCAAAGATGGAAAGATACTG 57.395 33.333 12.50 0.00 46.27 2.74
1179 1238 4.218578 CTCTCGGCTGGCTGCGAT 62.219 66.667 10.35 0.00 44.05 4.58
1191 1250 0.738389 GTTGAGGAGGAGCTCTCTCG 59.262 60.000 14.64 0.00 42.10 4.04
1374 1436 2.268920 CCACCACCTGGATGTCCG 59.731 66.667 0.00 0.00 43.95 4.79
1410 1472 1.681327 ACGGCCCTGATAGTCACGT 60.681 57.895 0.00 0.00 0.00 4.49
1413 1475 1.001120 TCCACGGCCCTGATAGTCA 59.999 57.895 2.94 0.00 0.00 3.41
1442 1504 3.744660 GGTTGATATTCAGGTGGCCTAG 58.255 50.000 3.32 0.00 29.64 3.02
1444 1506 1.134098 CGGTTGATATTCAGGTGGCCT 60.134 52.381 3.32 0.00 0.00 5.19
1481 1543 1.210478 GAGCACCACCTGTATGTCCAT 59.790 52.381 0.00 0.00 0.00 3.41
1771 1944 3.248024 ACTGACCTGGAGGAACATTGTA 58.752 45.455 0.00 0.00 38.94 2.41
2147 2320 9.234384 GATGATCAGAAACTGCAAAATGATAAG 57.766 33.333 0.09 0.00 0.00 1.73
2219 2392 2.831685 TCACAGCACGATTAACACCT 57.168 45.000 0.00 0.00 0.00 4.00
2833 3053 6.238484 GCATCTAACCAATATTCAGCGAAAGT 60.238 38.462 0.00 0.00 0.00 2.66
2975 4747 2.095059 CACCTGCATGCTCTGTAAAACC 60.095 50.000 20.33 0.00 0.00 3.27
2990 4762 1.470098 CATTCAGCAACCTACACCTGC 59.530 52.381 0.00 0.00 36.29 4.85
3183 4955 0.937304 TGAACAACAGCGAGACAAGC 59.063 50.000 0.00 0.00 0.00 4.01
3464 5244 1.340248 ACCACAGTCTTCACAGTACCG 59.660 52.381 0.00 0.00 0.00 4.02
3563 5343 2.701551 TCCATGGGGAGATAATTCGGT 58.298 47.619 13.02 0.00 38.64 4.69
3870 5685 8.922676 GCTACATAAACACATATATACAAGCGT 58.077 33.333 0.00 0.00 0.00 5.07
3871 5686 9.140286 AGCTACATAAACACATATATACAAGCG 57.860 33.333 0.00 0.00 0.00 4.68
3927 5865 6.126863 ACATCAAATGGGAAGAACTCTGTA 57.873 37.500 0.00 0.00 33.60 2.74
4109 6056 9.159254 TGACATAAGACAGATATAAAGGGTCAT 57.841 33.333 0.00 0.00 0.00 3.06
4110 6057 8.547481 TGACATAAGACAGATATAAAGGGTCA 57.453 34.615 0.00 0.00 0.00 4.02
4111 6058 9.832445 TTTGACATAAGACAGATATAAAGGGTC 57.168 33.333 0.00 0.00 0.00 4.46
4123 6070 7.383102 ACCTAAAGCATTTGACATAAGACAG 57.617 36.000 0.00 0.00 39.63 3.51
4143 6090 4.552674 TCCTGGTGCAGTGATAATACCTA 58.447 43.478 0.00 0.00 32.68 3.08
4144 6091 3.384168 TCCTGGTGCAGTGATAATACCT 58.616 45.455 0.00 0.00 32.68 3.08
4146 6093 6.595716 GGATAATCCTGGTGCAGTGATAATAC 59.404 42.308 0.00 0.00 32.53 1.89
4148 6095 5.564550 GGATAATCCTGGTGCAGTGATAAT 58.435 41.667 0.00 0.00 32.53 1.28
4151 6098 3.498774 GGATAATCCTGGTGCAGTGAT 57.501 47.619 0.00 0.00 32.53 3.06
4246 6255 3.391506 TCCTGTGCATATGGATCTTCG 57.608 47.619 4.56 0.00 0.00 3.79
4376 6385 1.268589 GCAATCAGCTGCTATGCACAG 60.269 52.381 24.20 0.00 39.34 3.66
4579 6803 1.754226 AGTTGTTTGGTTCGTTGCCAT 59.246 42.857 0.00 0.00 35.71 4.40
4590 6814 7.042335 TGGTTAATTGTTTACCAGTTGTTTGG 58.958 34.615 0.00 0.00 44.09 3.28
4593 6817 8.141268 CAGATGGTTAATTGTTTACCAGTTGTT 58.859 33.333 6.69 0.00 33.63 2.83
4602 6826 6.480763 TCCAGCTCAGATGGTTAATTGTTTA 58.519 36.000 9.29 0.00 39.01 2.01
4718 6942 6.430925 AGAACAGCAGCAAACTTATGATACAA 59.569 34.615 0.00 0.00 0.00 2.41
4729 6953 4.201950 TGAGAAAGAAGAACAGCAGCAAAC 60.202 41.667 0.00 0.00 0.00 2.93
4794 8154 4.232221 GGTTTTGAGATGTGCACATTCTG 58.768 43.478 31.82 0.00 36.57 3.02
4926 8345 4.998051 ACCACCATTGACCATTTTCTACT 58.002 39.130 0.00 0.00 0.00 2.57
4981 8400 2.620115 AGCATTATCTTGCACATTCCGG 59.380 45.455 0.00 0.00 45.23 5.14
5076 8495 3.320541 AGCGACAGAGGAATATGAGAAGG 59.679 47.826 0.00 0.00 0.00 3.46
5088 8507 4.475944 CAAAATAACCAAAGCGACAGAGG 58.524 43.478 0.00 0.00 0.00 3.69
5111 8532 8.545229 AAAGAGAAGTTGATGACTACAGAATG 57.455 34.615 0.00 0.00 39.30 2.67
5834 9276 2.889512 TGAGAAGCAACCACCTAGAGA 58.110 47.619 0.00 0.00 0.00 3.10
6024 9466 5.627499 TTACACTTTTAGCAGCATCCAAG 57.373 39.130 0.00 0.00 0.00 3.61
6059 9503 3.457380 AGATATGAGAAGCTCCCTGCAAA 59.543 43.478 0.00 0.00 45.94 3.68
6093 9537 2.894126 TCTCTGAGGTTTCTGTCCAGTC 59.106 50.000 4.59 0.00 0.00 3.51
6163 9607 7.033185 CCAGTTGTTTAATAATAGGCAACCAC 58.967 38.462 0.00 0.00 37.50 4.16
6282 9726 6.034003 AGTATGGTTAAACCCCTAGGAGAAA 58.966 40.000 11.48 0.00 37.50 2.52
6285 9729 5.970501 AAGTATGGTTAAACCCCTAGGAG 57.029 43.478 11.48 0.00 37.50 3.69
6474 9929 1.135083 AGTATGTTCCCGCTTCTGTCG 60.135 52.381 0.00 0.00 0.00 4.35
6477 9932 1.009829 GCAGTATGTTCCCGCTTCTG 58.990 55.000 0.00 0.00 39.31 3.02
6541 10002 9.374838 GAAGCATAAAAATGGTCAGATTCAAAT 57.625 29.630 0.00 0.00 0.00 2.32
6575 10043 0.110238 CGAATCAACAACGGTGCCTG 60.110 55.000 0.00 0.00 0.00 4.85
6655 10123 4.695396 TGAACACATTGCAAATGAAAGCT 58.305 34.783 18.17 0.00 0.00 3.74
6693 10165 2.234661 TCCACACTCGAATCAGCAATCT 59.765 45.455 0.00 0.00 0.00 2.40
6860 10337 3.372206 CAGCCAATGTAACAGTAGTGAGC 59.628 47.826 4.09 0.00 0.00 4.26
6894 10371 4.829492 AGCATAGCTGAAACAGGAAAAAGT 59.171 37.500 0.00 0.00 37.57 2.66
6895 10372 5.382618 AGCATAGCTGAAACAGGAAAAAG 57.617 39.130 0.00 0.00 37.57 2.27
6901 10378 2.299993 TCGAGCATAGCTGAAACAGG 57.700 50.000 0.00 0.00 39.88 4.00
7001 10478 6.427974 GTTAGAGTTGGACTTTTAACAGCAC 58.572 40.000 9.57 0.00 33.04 4.40
7015 10493 3.053831 ACAACCGATGGTTAGAGTTGG 57.946 47.619 0.06 0.00 45.01 3.77
7029 10507 1.950630 GCAGGCAAGCAAACAACCG 60.951 57.895 0.00 0.00 0.00 4.44
7240 10718 9.890629 ATCTTATCTTAGCAGTAAAACATGACA 57.109 29.630 0.00 0.00 0.00 3.58
7260 10738 1.690352 CGGTAACCACCCGGATCTTAT 59.310 52.381 0.73 0.00 42.43 1.73
7261 10739 1.113788 CGGTAACCACCCGGATCTTA 58.886 55.000 0.73 0.00 42.43 2.10
7262 10740 1.902556 CGGTAACCACCCGGATCTT 59.097 57.895 0.73 0.00 42.43 2.40
7263 10741 3.625099 CGGTAACCACCCGGATCT 58.375 61.111 0.73 0.00 42.43 2.75
7269 10747 0.904394 TACCCTCACGGTAACCACCC 60.904 60.000 0.00 0.00 45.97 4.61
7302 10780 7.181569 TGAACATCATCACCAATACTACTCA 57.818 36.000 0.00 0.00 0.00 3.41
7320 10813 3.815856 TTGCACAATGGTGTTGAACAT 57.184 38.095 0.00 0.00 46.95 2.71
7466 10959 3.052082 CCGGAGCAGCACAACAGG 61.052 66.667 0.00 0.00 0.00 4.00
7469 10962 3.357079 CCACCGGAGCAGCACAAC 61.357 66.667 9.46 0.00 0.00 3.32
7470 10963 3.872603 ACCACCGGAGCAGCACAA 61.873 61.111 9.46 0.00 0.00 3.33
7471 10964 4.624364 CACCACCGGAGCAGCACA 62.624 66.667 9.46 0.00 0.00 4.57
7480 10973 4.680237 TTCTCGCAGCACCACCGG 62.680 66.667 0.00 0.00 0.00 5.28
7481 10974 3.114616 CTTCTCGCAGCACCACCG 61.115 66.667 0.00 0.00 0.00 4.94
7482 10975 3.426568 GCTTCTCGCAGCACCACC 61.427 66.667 0.00 0.00 39.83 4.61
7523 11016 3.192422 AGATGGCTACGCAGATATCTCAC 59.808 47.826 1.03 0.00 0.00 3.51
7582 11077 4.322123 CCAGCAAATGATTCCATGACACAA 60.322 41.667 0.00 0.00 32.36 3.33
7598 11093 0.592637 CGAAGACACATGCCAGCAAA 59.407 50.000 0.00 0.00 0.00 3.68
7613 11108 2.653890 CAACCATGCAAGACAACGAAG 58.346 47.619 0.00 0.00 0.00 3.79
7646 11141 6.763610 CCTTCATACAGACAACCCTAAGAATC 59.236 42.308 0.00 0.00 0.00 2.52
7670 11165 8.178313 GTGTTCTATTCTTTCACTAGAAATGCC 58.822 37.037 0.00 0.00 42.49 4.40
7781 11350 8.103305 AGATGTACTCCTTTCTGATTTTGCTAA 58.897 33.333 0.00 0.00 0.00 3.09
7826 11395 3.236816 GCATGGATTATACACGCAATGC 58.763 45.455 0.00 0.00 0.00 3.56
7863 11432 5.867716 TCTTCACTTAAAATCGCTACTCCAC 59.132 40.000 0.00 0.00 0.00 4.02
7965 11536 8.812513 AGTTGAATTGATTCATAGGATCACAA 57.187 30.769 7.20 0.00 45.30 3.33
8017 11588 8.846943 TTGTTTAGCTCAAGACTAAATCATCA 57.153 30.769 0.00 0.00 40.62 3.07
8058 11629 5.927281 ACTAGGTAAGCGGTTCTTATTCA 57.073 39.130 1.59 0.00 39.29 2.57
8077 11648 4.100498 GGCTGCACTTTATGGTACCTACTA 59.900 45.833 14.36 0.00 0.00 1.82
8090 11661 2.036346 GTGAAATTGAGGGCTGCACTTT 59.964 45.455 5.59 0.00 0.00 2.66
8108 11679 1.890876 CGAAGTGGACAAATGGGTGA 58.109 50.000 0.00 0.00 0.00 4.02
8129 11700 4.509970 TGTGTCTACAGTTGACCAAAATCG 59.490 41.667 11.97 0.00 33.83 3.34
8130 11701 5.277828 GGTGTGTCTACAGTTGACCAAAATC 60.278 44.000 11.97 0.25 37.52 2.17
8184 11755 4.791411 GCTCAAGTTGGCAACGAAAATGTA 60.791 41.667 23.47 5.15 42.51 2.29
8191 11762 1.065401 CTTTGCTCAAGTTGGCAACGA 59.935 47.619 23.47 14.98 46.14 3.85
8192 11763 1.202290 ACTTTGCTCAAGTTGGCAACG 60.202 47.619 23.47 22.69 43.89 4.10
8193 11764 2.584492 ACTTTGCTCAAGTTGGCAAC 57.416 45.000 22.48 22.48 43.89 4.17
8204 11775 8.480643 AATGTACTGAACTATGTACTTTGCTC 57.519 34.615 0.00 0.00 39.57 4.26
8227 11798 7.039504 AGTGTTAGGCTGACATTTTGATGAAAT 60.040 33.333 15.60 0.00 38.49 2.17
8228 11799 6.265196 AGTGTTAGGCTGACATTTTGATGAAA 59.735 34.615 15.60 0.00 0.00 2.69
8229 11800 5.769662 AGTGTTAGGCTGACATTTTGATGAA 59.230 36.000 15.60 0.00 0.00 2.57
8230 11801 5.316167 AGTGTTAGGCTGACATTTTGATGA 58.684 37.500 15.60 0.00 0.00 2.92
8231 11802 5.633830 AGTGTTAGGCTGACATTTTGATG 57.366 39.130 15.60 0.00 0.00 3.07
8232 11803 5.355350 GCTAGTGTTAGGCTGACATTTTGAT 59.645 40.000 15.60 1.33 0.00 2.57
8233 11804 4.695455 GCTAGTGTTAGGCTGACATTTTGA 59.305 41.667 15.60 0.00 0.00 2.69
8234 11805 4.697352 AGCTAGTGTTAGGCTGACATTTTG 59.303 41.667 15.60 9.11 34.82 2.44
8235 11806 4.911390 AGCTAGTGTTAGGCTGACATTTT 58.089 39.130 15.60 7.23 34.82 1.82
8236 11807 4.559862 AGCTAGTGTTAGGCTGACATTT 57.440 40.909 15.60 9.57 34.82 2.32


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

AutoCloner maintained by Alex Coulton.