Multiple sequence alignment - TraesCS2B01G197000

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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 TraesCS2B01G197000 chr2B 100.000 5223 0 0 1 5223 174832392 174827170 0.000000e+00 9646.0
1 TraesCS2B01G197000 chr2D 92.091 2668 133 36 2600 5223 121704508 121701875 0.000000e+00 3687.0
2 TraesCS2B01G197000 chr2D 90.661 1906 103 33 278 2123 121707071 121705181 0.000000e+00 2464.0
3 TraesCS2B01G197000 chr2D 94.805 462 18 4 2122 2579 121705103 121704644 0.000000e+00 715.0
4 TraesCS2B01G197000 chr2D 87.500 136 16 1 142 276 121722942 121722807 7.000000e-34 156.0
5 TraesCS2B01G197000 chr2D 100.000 29 0 0 3855 3883 33904394 33904366 3.000000e-03 54.7
6 TraesCS2B01G197000 chr2A 91.099 2674 161 33 2600 5223 125901745 125899099 0.000000e+00 3548.0
7 TraesCS2B01G197000 chr2A 87.050 1583 107 44 13 1522 125904438 125902881 0.000000e+00 1698.0
8 TraesCS2B01G197000 chr2A 93.390 711 29 8 1878 2579 125902584 125901883 0.000000e+00 1037.0
9 TraesCS2B01G197000 chr2A 87.089 852 83 8 4388 5223 125899084 125898244 0.000000e+00 939.0
10 TraesCS2B01G197000 chr2A 85.618 445 47 6 4388 4824 125898229 125897794 7.980000e-123 451.0
11 TraesCS2B01G197000 chr2A 88.740 373 34 1 4859 5223 125897792 125897420 2.870000e-122 449.0
12 TraesCS2B01G197000 chr2A 84.988 433 53 4 4537 4967 125796925 125796503 3.740000e-116 429.0
13 TraesCS2B01G197000 chr2A 89.831 295 18 4 1550 1832 125902883 125902589 8.260000e-98 368.0
14 TraesCS2B01G197000 chr2A 89.189 222 16 3 4388 4601 125897405 125897184 2.400000e-68 270.0
15 TraesCS2B01G197000 chr7D 76.735 533 99 22 3574 4096 115048459 115047942 1.850000e-69 274.0
16 TraesCS2B01G197000 chr6A 78.190 431 81 12 3560 3985 570382535 570382113 4.010000e-66 263.0
17 TraesCS2B01G197000 chr6A 77.381 336 63 11 3574 3904 469432323 469431996 2.480000e-43 187.0
18 TraesCS2B01G197000 chr7B 78.118 425 75 15 3574 3989 74598501 74598086 2.410000e-63 254.0
19 TraesCS2B01G197000 chr7B 82.867 286 44 5 1153 1434 641255543 641255827 8.680000e-63 252.0
20 TraesCS2B01G197000 chr7B 82.096 229 41 0 3574 3802 565577311 565577539 4.130000e-46 196.0
21 TraesCS2B01G197000 chr7B 91.667 48 4 0 2515 2562 180041005 180040958 3.380000e-07 67.6
22 TraesCS2B01G197000 chr7A 77.934 426 74 17 3574 3989 119702658 119702243 1.120000e-61 248.0
23 TraesCS2B01G197000 chr7A 88.235 51 6 0 2512 2562 232024790 232024840 1.570000e-05 62.1
24 TraesCS2B01G197000 chr6D 77.083 336 64 11 3574 3904 330157604 330157277 1.160000e-41 182.0
25 TraesCS2B01G197000 chr3A 78.495 186 28 6 5013 5188 20232630 20232813 1.540000e-20 111.0
26 TraesCS2B01G197000 chr3A 80.460 87 17 0 2455 2541 571791068 571791154 3.380000e-07 67.6
27 TraesCS2B01G197000 chr3B 77.717 184 28 7 5013 5185 23709192 23709373 3.330000e-17 100.0
28 TraesCS2B01G197000 chr3B 79.310 87 18 0 2455 2541 566161997 566162083 1.570000e-05 62.1
29 TraesCS2B01G197000 chr3D 80.460 87 17 0 2455 2541 433415034 433415120 3.380000e-07 67.6
30 TraesCS2B01G197000 chrUn 92.857 42 3 0 2521 2562 270733775 270733734 1.570000e-05 62.1
31 TraesCS2B01G197000 chrUn 88.235 51 6 0 2512 2562 282197154 282197204 1.570000e-05 62.1
32 TraesCS2B01G197000 chr4D 100.000 30 0 0 1289 1318 464636 464607 7.310000e-04 56.5


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 TraesCS2B01G197000 chr2B 174827170 174832392 5222 True 9646.000000 9646 100.00000 1 5223 1 chr2B.!!$R1 5222
1 TraesCS2B01G197000 chr2D 121701875 121707071 5196 True 2288.666667 3687 92.51900 278 5223 3 chr2D.!!$R3 4945
2 TraesCS2B01G197000 chr2A 125897184 125904438 7254 True 1095.000000 3548 89.00075 13 5223 8 chr2A.!!$R2 5210
3 TraesCS2B01G197000 chr7D 115047942 115048459 517 True 274.000000 274 76.73500 3574 4096 1 chr7D.!!$R1 522

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
939 1029 0.096628 GACGTACGTGTCGAGCTGAT 59.903 55.0 28.16 0.0 0.00 2.90 F
1001 1097 0.029035 CGACGTTGCGAGGTAGCTAT 59.971 55.0 0.00 0.0 38.13 2.97 F
1127 1231 0.038159 CACGAGGCGAAGAAGAAGGT 60.038 55.0 0.00 0.0 0.00 3.50 F
1331 1441 0.038892 GTGTACAAGGGCTTCGTCGA 60.039 55.0 0.00 0.0 0.00 4.20 F
2582 2810 0.038892 TCAAACGTACGTCCCTGCTC 60.039 55.0 23.05 0.0 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2246 2459 1.146263 GCCCACAGGTCCTAATCCG 59.854 63.158 0.00 0.00 34.57 4.18 R
2942 3312 0.103937 CGACCTCTGATCTGCCTTCC 59.896 60.000 0.00 0.00 0.00 3.46 R
3009 3379 0.038618 TAATCGCGACATGGATCCGG 60.039 55.000 12.93 4.34 0.00 5.14 R
3551 3939 0.107897 TTCTTGTCCTGCACACACGT 60.108 50.000 0.00 0.00 33.41 4.49 R
4533 5821 0.249120 TAGCACCGATTGACACCCAG 59.751 55.000 0.00 0.00 0.00 4.45 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
32 33 2.050918 TGAGAGAGCGAGATCTAGGGA 58.949 52.381 4.92 0.00 0.00 4.20
34 35 2.301870 GAGAGAGCGAGATCTAGGGAGA 59.698 54.545 4.92 0.00 35.71 3.71
39 40 2.955660 AGCGAGATCTAGGGAGAAACTG 59.044 50.000 4.92 0.00 34.61 3.16
40 41 2.691011 GCGAGATCTAGGGAGAAACTGT 59.309 50.000 4.92 0.00 34.61 3.55
66 67 0.320697 GGGTGAACACGAGGCTAACT 59.679 55.000 0.00 0.00 0.00 2.24
82 83 6.621394 AGGCTAACTAGGTTATATCCAGTCA 58.379 40.000 2.69 0.00 0.00 3.41
92 93 7.227156 AGGTTATATCCAGTCATAAAGCTTGG 58.773 38.462 0.00 0.00 0.00 3.61
97 98 4.985538 TCCAGTCATAAAGCTTGGAACTT 58.014 39.130 0.00 0.00 0.00 2.66
101 102 7.669722 TCCAGTCATAAAGCTTGGAACTTATTT 59.330 33.333 0.00 0.00 0.00 1.40
145 146 6.780031 TCCTTCATAAATGAACTTGGGTTGAA 59.220 34.615 1.23 0.00 41.51 2.69
157 158 4.469586 ACTTGGGTTGAACAAAAATGACCT 59.530 37.500 0.00 0.00 0.00 3.85
206 207 9.581289 AATAAATTATACGGAATTCATGGGTCA 57.419 29.630 7.93 0.00 0.00 4.02
213 214 2.159198 GGAATTCATGGGTCATGTGCAC 60.159 50.000 10.75 10.75 41.98 4.57
214 215 2.519771 ATTCATGGGTCATGTGCACT 57.480 45.000 19.41 0.15 41.98 4.40
226 227 2.321213 GTGCACTCACAGACCAACC 58.679 57.895 10.32 0.00 42.66 3.77
227 228 1.227527 TGCACTCACAGACCAACCG 60.228 57.895 0.00 0.00 0.00 4.44
238 239 0.316689 GACCAACCGAACGCACAAAG 60.317 55.000 0.00 0.00 0.00 2.77
240 241 0.099791 CCAACCGAACGCACAAAGTT 59.900 50.000 0.00 0.00 34.07 2.66
241 242 1.187715 CAACCGAACGCACAAAGTTG 58.812 50.000 0.00 0.00 31.14 3.16
242 243 0.806241 AACCGAACGCACAAAGTTGT 59.194 45.000 0.00 0.00 43.36 3.32
251 252 3.558418 ACGCACAAAGTTGTCGAAATAGT 59.442 39.130 17.06 0.94 39.91 2.12
256 257 6.691388 GCACAAAGTTGTCGAAATAGTCTTTT 59.309 34.615 0.00 0.00 39.91 2.27
258 259 6.691388 ACAAAGTTGTCGAAATAGTCTTTTGC 59.309 34.615 0.00 0.00 36.50 3.68
271 272 8.451908 AATAGTCTTTTGCCTCGCTTTATAAT 57.548 30.769 0.00 0.00 0.00 1.28
276 277 8.182227 GTCTTTTGCCTCGCTTTATAATAAAGT 58.818 33.333 0.00 0.00 0.00 2.66
342 364 2.649531 AACCGAATCTGGGTTGAACA 57.350 45.000 0.00 0.00 45.74 3.18
353 375 3.546724 TGGGTTGAACAAGTCGAATTCA 58.453 40.909 6.22 0.00 0.00 2.57
359 381 6.458342 GGTTGAACAAGTCGAATTCAGTTCTT 60.458 38.462 21.64 3.33 37.03 2.52
372 394 3.295093 TCAGTTCTTGGAAAACATGGCA 58.705 40.909 0.00 0.00 0.00 4.92
403 425 0.390209 GGCGGCATTGCTCACAAAAT 60.390 50.000 8.82 0.00 39.77 1.82
404 426 1.431496 GCGGCATTGCTCACAAAATT 58.569 45.000 8.82 0.00 39.77 1.82
414 436 8.392612 GCATTGCTCACAAAATTAGCATTAAAT 58.607 29.630 0.16 0.00 45.09 1.40
461 483 6.169094 TGTGAAAAGAAAGCCAAATCAAACA 58.831 32.000 0.00 0.00 0.00 2.83
497 519 0.459585 CCCTTACATGTCACGGGTCG 60.460 60.000 0.00 0.00 0.00 4.79
538 563 0.907486 GCGGGTAGGTAGGAAAAGGT 59.093 55.000 0.00 0.00 0.00 3.50
541 566 1.064906 GGGTAGGTAGGAAAAGGTGCC 60.065 57.143 0.00 0.00 0.00 5.01
634 687 8.952278 ACAAGAACAGTTTGTAATTTGTACAGA 58.048 29.630 0.00 0.00 37.02 3.41
636 689 8.732746 AGAACAGTTTGTAATTTGTACAGACT 57.267 30.769 0.00 4.37 41.61 3.24
695 758 2.502510 CGCAACACAATCGCAGCC 60.503 61.111 0.00 0.00 0.00 4.85
696 759 2.644418 GCAACACAATCGCAGCCA 59.356 55.556 0.00 0.00 0.00 4.75
729 792 4.749310 AAGCTCTGCACGCTCCCG 62.749 66.667 6.24 0.00 36.56 5.14
753 823 1.140652 CCAGAGGGAGAGAATTGAGGC 59.859 57.143 0.00 0.00 35.59 4.70
854 933 1.380650 GTCGGCCTCCTCTCCTCTT 60.381 63.158 0.00 0.00 0.00 2.85
897 982 2.203394 CCACACACAGGCCAGCTT 60.203 61.111 5.01 0.00 0.00 3.74
902 987 1.302832 ACACAGGCCAGCTTGCTAC 60.303 57.895 5.01 0.00 0.00 3.58
903 988 1.302752 CACAGGCCAGCTTGCTACA 60.303 57.895 5.01 0.00 0.00 2.74
909 994 1.088910 GCCAGCTTGCTACAGAGAGC 61.089 60.000 1.78 0.00 43.16 4.09
937 1027 4.038036 GACGTACGTGTCGAGCTG 57.962 61.111 28.16 0.00 0.00 4.24
938 1028 1.494628 GACGTACGTGTCGAGCTGA 59.505 57.895 28.16 0.00 0.00 4.26
939 1029 0.096628 GACGTACGTGTCGAGCTGAT 59.903 55.000 28.16 0.00 0.00 2.90
976 1066 0.456824 CTCGATATATGCTGCGCGGT 60.457 55.000 19.23 0.51 0.00 5.68
1001 1097 0.029035 CGACGTTGCGAGGTAGCTAT 59.971 55.000 0.00 0.00 38.13 2.97
1035 1136 2.990479 GACGGGGTGATCAAGGCT 59.010 61.111 0.00 0.00 0.00 4.58
1127 1231 0.038159 CACGAGGCGAAGAAGAAGGT 60.038 55.000 0.00 0.00 0.00 3.50
1331 1441 0.038892 GTGTACAAGGGCTTCGTCGA 60.039 55.000 0.00 0.00 0.00 4.20
1519 1636 2.187073 CGGCAACCGGTAGAGTAGT 58.813 57.895 8.00 0.00 44.15 2.73
1520 1637 0.179145 CGGCAACCGGTAGAGTAGTG 60.179 60.000 8.00 0.56 44.15 2.74
1523 1640 1.135170 GCAACCGGTAGAGTAGTGGTC 60.135 57.143 8.00 0.00 31.17 4.02
1526 1643 1.555075 ACCGGTAGAGTAGTGGTCGTA 59.445 52.381 4.49 0.00 0.00 3.43
1696 1829 6.412362 TGGTTAACCAACAAGTTTGCATAT 57.588 33.333 25.19 0.00 44.35 1.78
1697 1830 6.219473 TGGTTAACCAACAAGTTTGCATATG 58.781 36.000 25.19 0.00 44.35 1.78
1755 1888 3.561143 TGGTGCACCATTGAGTAACTTT 58.439 40.909 34.74 0.00 42.01 2.66
1756 1889 3.317711 TGGTGCACCATTGAGTAACTTTG 59.682 43.478 34.74 0.00 42.01 2.77
1765 1898 8.184192 CACCATTGAGTAACTTTGTGGATAATC 58.816 37.037 0.00 0.00 0.00 1.75
1772 1905 9.704098 GAGTAACTTTGTGGATAATCGAAATTC 57.296 33.333 0.00 0.00 0.00 2.17
1870 2003 1.529010 TGCTGGGAAGCAACCTGTG 60.529 57.895 0.00 0.00 42.40 3.66
1871 2004 1.529244 GCTGGGAAGCAACCTGTGT 60.529 57.895 0.00 0.00 34.41 3.72
1872 2005 0.250727 GCTGGGAAGCAACCTGTGTA 60.251 55.000 0.00 0.00 34.41 2.90
1900 2033 2.716217 ACCTGTAGCCAAGAAGCAATC 58.284 47.619 0.00 0.00 34.23 2.67
1970 2104 2.660362 CGTGCAAGTTCGAGCTTTCTTC 60.660 50.000 12.23 4.88 0.00 2.87
2081 2215 6.494893 TTACTTCGCAATGAAAACATAGCT 57.505 33.333 0.00 0.00 35.79 3.32
2082 2216 7.603963 TTACTTCGCAATGAAAACATAGCTA 57.396 32.000 0.00 0.00 35.79 3.32
2083 2217 6.111768 ACTTCGCAATGAAAACATAGCTAG 57.888 37.500 0.00 0.00 35.79 3.42
2084 2218 4.536364 TCGCAATGAAAACATAGCTAGC 57.464 40.909 6.62 6.62 0.00 3.42
2098 2232 7.436430 ACATAGCTAGCATCAAGATCAATTG 57.564 36.000 18.83 0.00 0.00 2.32
2240 2453 4.154737 TGCATGCTCCATAAAATATCTCGC 59.845 41.667 20.33 0.00 0.00 5.03
2246 2459 2.159627 CCATAAAATATCTCGCCGCCAC 59.840 50.000 0.00 0.00 0.00 5.01
2297 2513 1.300620 CGGTGAGCGAGGTTGTTGA 60.301 57.895 0.00 0.00 0.00 3.18
2495 2723 3.072476 CTGGTGGGCTACTGCTGT 58.928 61.111 0.00 0.66 39.59 4.40
2579 2807 0.040157 TCGTCAAACGTACGTCCCTG 60.040 55.000 23.05 18.32 43.14 4.45
2580 2808 1.611592 CGTCAAACGTACGTCCCTGC 61.612 60.000 23.05 13.31 36.74 4.85
2581 2809 0.319297 GTCAAACGTACGTCCCTGCT 60.319 55.000 23.05 1.01 0.00 4.24
2582 2810 0.038892 TCAAACGTACGTCCCTGCTC 60.039 55.000 23.05 0.00 0.00 4.26
2583 2811 1.012486 CAAACGTACGTCCCTGCTCC 61.012 60.000 23.05 0.00 0.00 4.70
2584 2812 2.482296 AAACGTACGTCCCTGCTCCG 62.482 60.000 23.05 0.00 0.00 4.63
2585 2813 4.849329 CGTACGTCCCTGCTCCGC 62.849 72.222 7.22 0.00 0.00 5.54
2586 2814 3.450115 GTACGTCCCTGCTCCGCT 61.450 66.667 0.00 0.00 0.00 5.52
2597 2825 0.391661 TGCTCCGCTCACTCCATTTC 60.392 55.000 0.00 0.00 0.00 2.17
2598 2826 0.107945 GCTCCGCTCACTCCATTTCT 60.108 55.000 0.00 0.00 0.00 2.52
2614 2977 7.014230 ACTCCATTTCTTTTTACTTGCTGCTTA 59.986 33.333 0.00 0.00 0.00 3.09
2907 3271 5.990668 AGTTCTGACCAACTAAACTTGACT 58.009 37.500 0.00 0.00 34.70 3.41
3005 3375 4.922719 GTGAGGTCACGAGTTAAGATAGG 58.077 47.826 0.00 0.00 37.10 2.57
3006 3376 4.398673 GTGAGGTCACGAGTTAAGATAGGT 59.601 45.833 0.00 0.00 37.10 3.08
3007 3377 5.014858 TGAGGTCACGAGTTAAGATAGGTT 58.985 41.667 0.00 0.00 0.00 3.50
3008 3378 5.105877 TGAGGTCACGAGTTAAGATAGGTTG 60.106 44.000 0.00 0.00 0.00 3.77
3009 3379 3.864003 GGTCACGAGTTAAGATAGGTTGC 59.136 47.826 0.00 0.00 0.00 4.17
3010 3380 3.864003 GTCACGAGTTAAGATAGGTTGCC 59.136 47.826 0.00 0.00 0.00 4.52
3011 3381 2.858344 CACGAGTTAAGATAGGTTGCCG 59.142 50.000 0.00 0.00 0.00 5.69
3055 3433 1.061131 CTCAGCACGCTACAATTTCCG 59.939 52.381 0.00 0.00 0.00 4.30
3080 3458 3.134442 GCCTCACTGATTGATCTCCTCTT 59.866 47.826 0.00 0.00 32.17 2.85
3083 3461 3.516700 TCACTGATTGATCTCCTCTTGCA 59.483 43.478 0.00 0.00 0.00 4.08
3094 3472 4.610333 TCTCCTCTTGCACAATAGTCCTA 58.390 43.478 0.00 0.00 0.00 2.94
3139 3517 3.694072 CCATCCCTGCGTTCAGAAAAATA 59.306 43.478 0.00 0.00 42.95 1.40
3140 3518 4.438744 CCATCCCTGCGTTCAGAAAAATAC 60.439 45.833 0.00 0.00 42.95 1.89
3214 3595 1.252215 TAACACTGTCGGGGCATCGA 61.252 55.000 0.00 0.00 36.76 3.59
3215 3596 1.899437 AACACTGTCGGGGCATCGAT 61.899 55.000 5.55 0.00 41.40 3.59
3216 3597 1.040893 ACACTGTCGGGGCATCGATA 61.041 55.000 0.00 2.67 41.40 2.92
3264 3645 8.463930 ACAGAACAATTGACTAAGAAATGGAA 57.536 30.769 13.59 0.00 0.00 3.53
3280 3661 3.071874 TGGAAAATGTAGCTCTGGGTG 57.928 47.619 0.00 0.00 0.00 4.61
3444 3831 2.519013 GACTTCAAGGGCTCCAACATT 58.481 47.619 0.00 0.00 0.00 2.71
3466 3853 2.362503 TCGACTCGGTGAGCCCAT 60.363 61.111 0.00 0.00 32.04 4.00
3482 3869 1.817099 CATTCTCCGGCCTGCTCAC 60.817 63.158 0.00 0.00 0.00 3.51
3493 3880 0.247736 CCTGCTCACCTCACACTACC 59.752 60.000 0.00 0.00 0.00 3.18
3494 3881 1.261480 CTGCTCACCTCACACTACCT 58.739 55.000 0.00 0.00 0.00 3.08
3500 3887 4.517453 GCTCACCTCACACTACCTATCTAG 59.483 50.000 0.00 0.00 0.00 2.43
3501 3888 5.686753 CTCACCTCACACTACCTATCTAGT 58.313 45.833 0.00 0.00 0.00 2.57
3508 3895 6.896883 TCACACTACCTATCTAGTTCTAGCA 58.103 40.000 2.31 0.00 0.00 3.49
3526 3913 4.861102 AGCAGCAAATGAAGCTAAGTTT 57.139 36.364 0.00 0.00 41.14 2.66
3527 3914 5.205759 AGCAGCAAATGAAGCTAAGTTTT 57.794 34.783 0.00 0.00 41.14 2.43
3746 4134 1.336632 GGTGCTGCTGGAGATCCTCT 61.337 60.000 0.00 0.00 36.82 3.69
4217 4608 2.717809 GCCGACGACGACAAGAAGC 61.718 63.158 9.28 0.00 42.66 3.86
4486 5757 8.909708 TGATTGATCAACATAACGGAAATTTC 57.090 30.769 11.07 9.83 33.08 2.17
4526 5801 2.640346 TGAAGCTACGACAATGCGTA 57.360 45.000 8.93 8.93 43.61 4.42
4531 5808 3.116300 AGCTACGACAATGCGTATTCAG 58.884 45.455 9.52 3.09 44.65 3.02
4533 5821 3.061139 GCTACGACAATGCGTATTCAGTC 60.061 47.826 9.52 1.34 44.65 3.51
4550 5838 1.003839 TCTGGGTGTCAATCGGTGC 60.004 57.895 0.00 0.00 0.00 5.01
4584 5874 2.649331 ACAATCGGTCTTCTACGTGG 57.351 50.000 0.00 0.00 0.00 4.94
4594 5884 2.227388 TCTTCTACGTGGTCTCGGTTTC 59.773 50.000 0.00 0.00 34.94 2.78
4601 5891 1.039068 TGGTCTCGGTTTCGGTTGTA 58.961 50.000 0.00 0.00 36.95 2.41
4602 5892 1.269726 TGGTCTCGGTTTCGGTTGTAC 60.270 52.381 0.00 0.00 36.95 2.90
4603 5893 1.269726 GGTCTCGGTTTCGGTTGTACA 60.270 52.381 0.00 0.00 36.95 2.90
4604 5894 2.472816 GTCTCGGTTTCGGTTGTACAA 58.527 47.619 3.59 3.59 36.95 2.41
4605 5895 3.062042 GTCTCGGTTTCGGTTGTACAAT 58.938 45.455 12.26 0.00 36.95 2.71
4606 5896 3.122445 GTCTCGGTTTCGGTTGTACAATC 59.878 47.826 12.26 10.52 36.95 2.67
4607 5897 3.006110 TCTCGGTTTCGGTTGTACAATCT 59.994 43.478 16.56 0.00 36.95 2.40
4608 5898 3.319755 TCGGTTTCGGTTGTACAATCTC 58.680 45.455 16.56 6.85 36.95 2.75
4609 5899 3.006110 TCGGTTTCGGTTGTACAATCTCT 59.994 43.478 16.56 0.00 36.95 3.10
4610 5900 3.744426 CGGTTTCGGTTGTACAATCTCTT 59.256 43.478 16.56 0.00 0.00 2.85
4612 5902 5.277634 CGGTTTCGGTTGTACAATCTCTTTT 60.278 40.000 16.56 0.00 0.00 2.27
4613 5903 6.500910 GGTTTCGGTTGTACAATCTCTTTTT 58.499 36.000 16.56 0.00 0.00 1.94
4638 5928 9.771534 TTTTATTTGGAAATCTTGTCCGAAAAT 57.228 25.926 0.00 0.00 41.04 1.82
4645 5935 9.893634 TGGAAATCTTGTCCGAAAATTACTATA 57.106 29.630 0.00 0.00 38.06 1.31
4697 5987 3.005472 TCCACTACCAATAGCATCGTAGC 59.995 47.826 0.00 0.00 33.06 3.58
4721 6011 4.987832 TGTTTGTTTTTCTGCATGTACGT 58.012 34.783 0.00 0.00 0.00 3.57
4723 6013 3.889196 TGTTTTTCTGCATGTACGTCC 57.111 42.857 0.00 0.00 0.00 4.79
4737 6027 0.670546 ACGTCCGCCATGAAGACTTG 60.671 55.000 0.00 0.00 0.00 3.16
4758 6048 0.617935 AAGAAGCAGAGGAGGAAGGC 59.382 55.000 0.00 0.00 0.00 4.35
4759 6049 0.546267 AGAAGCAGAGGAGGAAGGCA 60.546 55.000 0.00 0.00 0.00 4.75
4813 6103 1.146930 GATCCTGATTCGGCTGCCA 59.853 57.895 20.29 0.00 0.00 4.92
4839 6129 3.343972 GCTCCTGCGTTTCAAGCA 58.656 55.556 0.00 0.00 42.99 3.91
4842 6132 0.455633 CTCCTGCGTTTCAAGCATGC 60.456 55.000 10.51 10.51 44.26 4.06
4843 6133 1.798725 CCTGCGTTTCAAGCATGCG 60.799 57.895 13.01 0.00 44.26 4.73
4878 6168 1.813513 GCAATCATATCCGACCCCTG 58.186 55.000 0.00 0.00 0.00 4.45
4879 6169 1.611673 GCAATCATATCCGACCCCTGG 60.612 57.143 0.00 0.00 0.00 4.45
4914 6204 1.814772 CTCCAGCTATCCGCCTCCAG 61.815 65.000 0.00 0.00 40.39 3.86
4970 7083 0.955905 TTGTCTCGACCGTGTCATCA 59.044 50.000 5.15 0.00 32.09 3.07
4993 7106 0.389948 GTGAGAACTGGCCTACCACG 60.390 60.000 3.32 0.00 42.67 4.94
5032 7145 4.715523 TACCGGTGGCAGCAAGGC 62.716 66.667 19.93 0.00 44.50 4.35
5065 7178 2.046023 CTCGTGCATGGCAGGGAA 60.046 61.111 5.98 0.00 43.44 3.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.043852 GCTCTCTCACGGGGGAGA 60.044 66.667 18.22 18.22 41.47 3.71
4 5 3.522731 CGCTCTCTCACGGGGGAG 61.523 72.222 8.76 8.76 36.21 4.30
5 6 3.997400 CTCGCTCTCTCACGGGGGA 62.997 68.421 0.00 0.00 0.00 4.81
6 7 3.522731 CTCGCTCTCTCACGGGGG 61.523 72.222 0.00 0.00 0.00 5.40
7 8 1.791103 GATCTCGCTCTCTCACGGGG 61.791 65.000 0.00 0.00 0.00 5.73
8 9 0.817634 AGATCTCGCTCTCTCACGGG 60.818 60.000 0.00 0.00 0.00 5.28
9 10 1.798223 CTAGATCTCGCTCTCTCACGG 59.202 57.143 0.00 0.00 0.00 4.94
10 11 1.798223 CCTAGATCTCGCTCTCTCACG 59.202 57.143 0.00 0.00 0.00 4.35
11 12 2.151202 CCCTAGATCTCGCTCTCTCAC 58.849 57.143 0.00 0.00 0.00 3.51
32 33 5.046520 GTGTTCACCCTCCTATACAGTTTCT 60.047 44.000 0.00 0.00 0.00 2.52
34 35 4.322499 CGTGTTCACCCTCCTATACAGTTT 60.322 45.833 0.00 0.00 0.00 2.66
39 40 2.361438 CCTCGTGTTCACCCTCCTATAC 59.639 54.545 0.00 0.00 0.00 1.47
40 41 2.662866 CCTCGTGTTCACCCTCCTATA 58.337 52.381 0.00 0.00 0.00 1.31
66 67 8.375506 CCAAGCTTTATGACTGGATATAACCTA 58.624 37.037 0.00 0.00 0.00 3.08
113 114 9.709495 CCAAGTTCATTTATGAAGGAATTTGAA 57.291 29.630 24.47 6.15 46.82 2.69
189 190 3.540617 CACATGACCCATGAATTCCGTA 58.459 45.455 13.22 0.00 43.81 4.02
191 192 1.066002 GCACATGACCCATGAATTCCG 59.934 52.381 13.22 0.00 43.81 4.30
193 194 2.756760 AGTGCACATGACCCATGAATTC 59.243 45.455 21.04 0.00 43.81 2.17
213 214 1.557443 GCGTTCGGTTGGTCTGTGAG 61.557 60.000 0.00 0.00 0.00 3.51
214 215 1.593209 GCGTTCGGTTGGTCTGTGA 60.593 57.895 0.00 0.00 0.00 3.58
219 220 0.316689 CTTTGTGCGTTCGGTTGGTC 60.317 55.000 0.00 0.00 0.00 4.02
226 227 0.299300 TCGACAACTTTGTGCGTTCG 59.701 50.000 0.00 0.00 42.43 3.95
227 228 2.445453 TTCGACAACTTTGTGCGTTC 57.555 45.000 0.00 0.00 42.43 3.95
238 239 5.358298 AGGCAAAAGACTATTTCGACAAC 57.642 39.130 0.00 0.00 0.00 3.32
240 241 3.678072 CGAGGCAAAAGACTATTTCGACA 59.322 43.478 0.00 0.00 0.00 4.35
241 242 3.483738 GCGAGGCAAAAGACTATTTCGAC 60.484 47.826 0.00 0.00 0.00 4.20
242 243 2.671396 GCGAGGCAAAAGACTATTTCGA 59.329 45.455 0.00 0.00 0.00 3.71
251 252 8.276252 ACTTTATTATAAAGCGAGGCAAAAGA 57.724 30.769 20.75 0.00 0.00 2.52
256 257 7.934665 TGGATAACTTTATTATAAAGCGAGGCA 59.065 33.333 20.75 4.51 0.00 4.75
332 354 3.546724 TGAATTCGACTTGTTCAACCCA 58.453 40.909 0.04 0.00 0.00 4.51
342 364 6.094881 TGTTTTCCAAGAACTGAATTCGACTT 59.905 34.615 0.04 1.33 42.69 3.01
353 375 3.030291 TGTGCCATGTTTTCCAAGAACT 58.970 40.909 0.00 0.00 0.00 3.01
359 381 7.102346 CCTTTTATATTGTGCCATGTTTTCCA 58.898 34.615 0.00 0.00 0.00 3.53
372 394 3.492482 GCAATGCCGCCCTTTTATATTGT 60.492 43.478 0.00 0.00 0.00 2.71
387 409 3.587923 TGCTAATTTTGTGAGCAATGCC 58.412 40.909 0.00 0.00 43.03 4.40
424 446 4.447290 TCTTTTCACAATGACGAAGGTGA 58.553 39.130 0.00 0.00 38.41 4.02
461 483 6.505754 TGTAAGGGTAGTAGGTGTTATTCCT 58.494 40.000 0.00 0.00 38.91 3.36
497 519 0.724549 TGCGAATTGGTATGCGTCAC 59.275 50.000 0.00 0.00 35.12 3.67
559 600 7.141363 GGATTGACTATTTCATCGGGATTTTG 58.859 38.462 0.00 0.00 32.84 2.44
695 758 0.601841 CTTTGGCTTGGCTTGGCTTG 60.602 55.000 5.64 0.00 0.00 4.01
696 759 1.750297 CTTTGGCTTGGCTTGGCTT 59.250 52.632 5.64 0.00 0.00 4.35
729 792 0.915364 AATTCTCTCCCTCTGGTGGC 59.085 55.000 0.00 0.00 0.00 5.01
731 794 2.170187 CCTCAATTCTCTCCCTCTGGTG 59.830 54.545 0.00 0.00 0.00 4.17
733 796 1.140652 GCCTCAATTCTCTCCCTCTGG 59.859 57.143 0.00 0.00 0.00 3.86
734 797 1.140652 GGCCTCAATTCTCTCCCTCTG 59.859 57.143 0.00 0.00 0.00 3.35
739 809 1.884926 CGCGGCCTCAATTCTCTCC 60.885 63.158 0.00 0.00 0.00 3.71
742 812 3.577313 GGCGCGGCCTCAATTCTC 61.577 66.667 23.89 0.00 46.69 2.87
753 823 1.571919 GGCAGAATATATAGGCGCGG 58.428 55.000 8.83 0.00 0.00 6.46
796 866 3.084646 TGTCCGTGTGGGTGGTGT 61.085 61.111 0.00 0.00 37.00 4.16
797 867 2.590575 GTGTCCGTGTGGGTGGTG 60.591 66.667 0.00 0.00 37.00 4.17
798 868 4.230002 CGTGTCCGTGTGGGTGGT 62.230 66.667 0.00 0.00 37.00 4.16
841 920 4.352893 AGAAAGAGAAAGAGGAGAGGAGG 58.647 47.826 0.00 0.00 0.00 4.30
854 933 2.352814 CGCGGGAGAAAGAGAAAGAGAA 60.353 50.000 0.00 0.00 0.00 2.87
897 982 1.678970 TGCCTCGCTCTCTGTAGCA 60.679 57.895 0.00 0.00 42.91 3.49
902 987 2.202544 GTCGTGCCTCGCTCTCTG 60.203 66.667 0.00 0.00 39.67 3.35
903 988 3.805307 CGTCGTGCCTCGCTCTCT 61.805 66.667 0.00 0.00 39.67 3.10
1020 1121 2.124570 CCAGCCTTGATCACCCCG 60.125 66.667 0.00 0.00 0.00 5.73
1035 1136 3.706373 GACCTCTCCCTTGCGCCA 61.706 66.667 4.18 0.00 0.00 5.69
1112 1216 1.592223 CGGACCTTCTTCTTCGCCT 59.408 57.895 0.00 0.00 0.00 5.52
1164 1274 2.579201 CCGCTCAGGTCCGTGAAT 59.421 61.111 0.00 0.00 34.51 2.57
1519 1636 1.717791 CCGTCCGCATACTACGACCA 61.718 60.000 0.00 0.00 38.89 4.02
1520 1637 1.009222 CCGTCCGCATACTACGACC 60.009 63.158 0.00 0.00 38.89 4.79
1523 1640 1.657487 CAGCCGTCCGCATACTACG 60.657 63.158 0.00 0.00 41.38 3.51
1526 1643 4.873129 CGCAGCCGTCCGCATACT 62.873 66.667 0.00 0.00 41.38 2.12
1545 1662 5.818678 TCCAAGAAAAGCTACTCCAACTA 57.181 39.130 0.00 0.00 0.00 2.24
1546 1663 4.706842 TCCAAGAAAAGCTACTCCAACT 57.293 40.909 0.00 0.00 0.00 3.16
1548 1665 5.071788 TCTCTTCCAAGAAAAGCTACTCCAA 59.928 40.000 0.00 0.00 34.03 3.53
1582 1703 3.391506 TTAGGCCATCGATGTCAGATG 57.608 47.619 23.27 8.53 43.65 2.90
1668 1794 4.744795 AACTTGTTGGTTAACCATGCAA 57.255 36.364 27.57 28.04 46.97 4.08
1690 1816 4.165950 ACATCCTTGTAAGGGACATATGCA 59.834 41.667 10.59 0.00 46.47 3.96
1696 1829 6.352737 GGATTTAGACATCCTTGTAAGGGACA 60.353 42.308 10.59 0.00 46.47 4.02
1697 1830 6.056236 GGATTTAGACATCCTTGTAAGGGAC 58.944 44.000 10.59 0.00 46.47 4.46
1715 1848 5.827797 GCACCAGATGTAAGGATTGGATTTA 59.172 40.000 0.00 0.00 33.19 1.40
1755 1888 7.156876 AGCTTTTGAATTTCGATTATCCACA 57.843 32.000 0.00 0.00 0.00 4.17
1765 1898 5.188194 CGACGGTATAGCTTTTGAATTTCG 58.812 41.667 0.00 0.00 0.00 3.46
1772 1905 1.593006 CCTGCGACGGTATAGCTTTTG 59.407 52.381 0.00 0.00 0.00 2.44
1832 1965 6.934210 CAGCAAAACTGGATCTACGTTATAC 58.066 40.000 0.00 0.00 43.19 1.47
1870 2003 6.461110 TCTTGGCTACAGGTTACATACTAC 57.539 41.667 0.00 0.00 0.00 2.73
1871 2004 6.406624 GCTTCTTGGCTACAGGTTACATACTA 60.407 42.308 0.00 0.00 0.00 1.82
1872 2005 5.627040 GCTTCTTGGCTACAGGTTACATACT 60.627 44.000 0.00 0.00 0.00 2.12
1900 2033 8.613482 GCTTAACTTGCCTATAACTCTAAAAGG 58.387 37.037 0.00 0.00 0.00 3.11
1970 2104 6.338146 TGTGTAACCAAGAATATTCTCCTCG 58.662 40.000 18.19 8.55 33.43 4.63
2039 2173 3.865011 AAGCAATGTTGTGAACACACA 57.135 38.095 7.16 9.26 45.50 3.72
2040 2174 4.920376 AGTAAGCAATGTTGTGAACACAC 58.080 39.130 7.16 4.32 45.50 3.82
2055 2189 4.560136 TGTTTTCATTGCGAAGTAAGCA 57.440 36.364 0.00 0.00 43.59 3.91
2081 2215 7.541162 CAAAGGTTCAATTGATCTTGATGCTA 58.459 34.615 19.00 0.00 35.20 3.49
2082 2216 6.395629 CAAAGGTTCAATTGATCTTGATGCT 58.604 36.000 19.00 5.52 35.20 3.79
2083 2217 5.063060 GCAAAGGTTCAATTGATCTTGATGC 59.937 40.000 20.49 20.49 35.20 3.91
2084 2218 5.287752 CGCAAAGGTTCAATTGATCTTGATG 59.712 40.000 19.00 16.10 35.20 3.07
2098 2232 9.911980 GATAGTTACTAATTAACGCAAAGGTTC 57.088 33.333 0.00 0.00 44.39 3.62
2168 2381 4.522789 GGTTTATGTGTGGTTGAGAATGGT 59.477 41.667 0.00 0.00 0.00 3.55
2227 2440 2.066262 CGTGGCGGCGAGATATTTTAT 58.934 47.619 12.98 0.00 0.00 1.40
2246 2459 1.146263 GCCCACAGGTCCTAATCCG 59.854 63.158 0.00 0.00 34.57 4.18
2297 2513 2.126071 CGGAACCGTCACATCGCT 60.126 61.111 4.99 0.00 34.35 4.93
2580 2808 2.393271 AAGAAATGGAGTGAGCGGAG 57.607 50.000 0.00 0.00 0.00 4.63
2581 2809 2.859165 AAAGAAATGGAGTGAGCGGA 57.141 45.000 0.00 0.00 0.00 5.54
2582 2810 3.923017 AAAAAGAAATGGAGTGAGCGG 57.077 42.857 0.00 0.00 0.00 5.52
2583 2811 5.613358 AGTAAAAAGAAATGGAGTGAGCG 57.387 39.130 0.00 0.00 0.00 5.03
2584 2812 5.631096 GCAAGTAAAAAGAAATGGAGTGAGC 59.369 40.000 0.00 0.00 0.00 4.26
2585 2813 6.860023 CAGCAAGTAAAAAGAAATGGAGTGAG 59.140 38.462 0.00 0.00 0.00 3.51
2586 2814 6.735694 GCAGCAAGTAAAAAGAAATGGAGTGA 60.736 38.462 0.00 0.00 0.00 3.41
2597 2825 7.196331 AGACAAACTAAGCAGCAAGTAAAAAG 58.804 34.615 0.00 0.00 0.00 2.27
2598 2826 7.095695 AGACAAACTAAGCAGCAAGTAAAAA 57.904 32.000 0.00 0.00 0.00 1.94
2614 2977 6.124340 TCCATATGCATGATTGAGACAAACT 58.876 36.000 10.16 0.00 33.67 2.66
2677 3041 1.821753 CACCACAGCTAGCAGACTACT 59.178 52.381 18.83 0.00 0.00 2.57
2907 3271 5.669904 TGGGGGTATGTTAATTCAGAGATGA 59.330 40.000 0.00 0.00 0.00 2.92
2942 3312 0.103937 CGACCTCTGATCTGCCTTCC 59.896 60.000 0.00 0.00 0.00 3.46
2995 3365 3.181458 TGGATCCGGCAACCTATCTTAAC 60.181 47.826 7.39 0.00 0.00 2.01
2997 3367 2.684943 TGGATCCGGCAACCTATCTTA 58.315 47.619 7.39 0.00 0.00 2.10
2999 3369 1.349026 CATGGATCCGGCAACCTATCT 59.651 52.381 7.39 0.00 0.00 1.98
3002 3372 0.468226 GACATGGATCCGGCAACCTA 59.532 55.000 7.39 0.00 0.00 3.08
3003 3373 1.224592 GACATGGATCCGGCAACCT 59.775 57.895 7.39 0.00 0.00 3.50
3004 3374 2.180204 CGACATGGATCCGGCAACC 61.180 63.158 7.39 0.00 0.00 3.77
3005 3375 2.823829 GCGACATGGATCCGGCAAC 61.824 63.158 7.39 0.00 0.00 4.17
3006 3376 2.513666 GCGACATGGATCCGGCAA 60.514 61.111 7.39 0.00 0.00 4.52
3007 3377 4.889856 CGCGACATGGATCCGGCA 62.890 66.667 7.39 0.00 0.00 5.69
3008 3378 3.865929 ATCGCGACATGGATCCGGC 62.866 63.158 12.93 4.48 0.00 6.13
3009 3379 0.038618 TAATCGCGACATGGATCCGG 60.039 55.000 12.93 4.34 0.00 5.14
3010 3380 1.778334 TTAATCGCGACATGGATCCG 58.222 50.000 12.93 0.00 0.00 4.18
3011 3381 3.589988 AGATTAATCGCGACATGGATCC 58.410 45.455 12.93 4.20 0.00 3.36
3055 3433 2.211806 GAGATCAATCAGTGAGGCTGC 58.788 52.381 0.00 0.00 44.66 5.25
3080 3458 2.466846 TCTGGCTAGGACTATTGTGCA 58.533 47.619 0.00 0.00 36.96 4.57
3083 3461 4.140805 AGGAGATCTGGCTAGGACTATTGT 60.141 45.833 0.00 0.00 0.00 2.71
3094 3472 1.038130 ACGCGTTAGGAGATCTGGCT 61.038 55.000 5.58 0.00 0.00 4.75
3139 3517 1.269998 GCCTACTGTCGAGACTGTTGT 59.730 52.381 18.26 8.39 42.30 3.32
3140 3518 1.729472 CGCCTACTGTCGAGACTGTTG 60.729 57.143 18.26 16.02 42.30 3.33
3255 3636 4.952335 CCCAGAGCTACATTTTCCATTTCT 59.048 41.667 0.00 0.00 0.00 2.52
3264 3645 3.525199 AGATTCCACCCAGAGCTACATTT 59.475 43.478 0.00 0.00 0.00 2.32
3270 3651 0.622665 CCAAGATTCCACCCAGAGCT 59.377 55.000 0.00 0.00 0.00 4.09
3280 3661 6.930722 ACACACAAAAATCATTCCAAGATTCC 59.069 34.615 0.00 0.00 34.78 3.01
3444 3831 1.745864 GCTCACCGAGTCGAGGAGA 60.746 63.158 26.97 13.87 31.94 3.71
3466 3853 3.706373 GGTGAGCAGGCCGGAGAA 61.706 66.667 5.05 0.00 0.00 2.87
3482 3869 6.428771 GCTAGAACTAGATAGGTAGTGTGAGG 59.571 46.154 12.33 0.00 33.35 3.86
3493 3880 7.095691 GCTTCATTTGCTGCTAGAACTAGATAG 60.096 40.741 12.33 9.97 35.21 2.08
3494 3881 6.703607 GCTTCATTTGCTGCTAGAACTAGATA 59.296 38.462 12.33 0.81 35.21 1.98
3500 3887 5.123027 ACTTAGCTTCATTTGCTGCTAGAAC 59.877 40.000 0.00 0.00 41.32 3.01
3501 3888 5.248640 ACTTAGCTTCATTTGCTGCTAGAA 58.751 37.500 0.00 0.00 41.32 2.10
3551 3939 0.107897 TTCTTGTCCTGCACACACGT 60.108 50.000 0.00 0.00 33.41 4.49
3552 3940 0.583438 CTTCTTGTCCTGCACACACG 59.417 55.000 0.00 0.00 33.41 4.49
3667 4055 0.744874 CCGTCATGATGTACTCCGGT 59.255 55.000 13.81 0.00 0.00 5.28
3703 4091 2.997986 CCCAAAACTATACACGTCGCTT 59.002 45.455 0.00 0.00 0.00 4.68
3841 4229 3.546543 GGGTCCATGATCCGGCGA 61.547 66.667 9.30 0.00 0.00 5.54
4015 4403 3.542676 ACGAACAGCACCACCGGA 61.543 61.111 9.46 0.00 0.00 5.14
4274 4668 2.091541 AGCACCTCTCTTTCTCTCTCG 58.908 52.381 0.00 0.00 0.00 4.04
4486 5757 1.006825 TCCAAGACGAACATGCGACG 61.007 55.000 0.00 0.00 34.83 5.12
4525 5800 3.118775 CCGATTGACACCCAGACTGAATA 60.119 47.826 3.32 0.00 0.00 1.75
4526 5801 2.355108 CCGATTGACACCCAGACTGAAT 60.355 50.000 3.32 0.00 0.00 2.57
4531 5808 1.298859 GCACCGATTGACACCCAGAC 61.299 60.000 0.00 0.00 0.00 3.51
4533 5821 0.249120 TAGCACCGATTGACACCCAG 59.751 55.000 0.00 0.00 0.00 4.45
4550 5838 7.042335 AGACCGATTGTTTCCTGTTATCTTAG 58.958 38.462 0.00 0.00 0.00 2.18
4584 5874 2.138596 TGTACAACCGAAACCGAGAC 57.861 50.000 0.00 0.00 0.00 3.36
4612 5902 9.771534 ATTTTCGGACAAGATTTCCAAATAAAA 57.228 25.926 0.00 0.00 31.94 1.52
4613 5903 9.771534 AATTTTCGGACAAGATTTCCAAATAAA 57.228 25.926 0.00 0.00 31.94 1.40
4615 5905 9.849166 GTAATTTTCGGACAAGATTTCCAAATA 57.151 29.630 0.00 0.00 31.94 1.40
4616 5906 8.585018 AGTAATTTTCGGACAAGATTTCCAAAT 58.415 29.630 0.00 0.00 31.94 2.32
4617 5907 7.947282 AGTAATTTTCGGACAAGATTTCCAAA 58.053 30.769 0.00 0.00 31.94 3.28
4618 5908 7.519032 AGTAATTTTCGGACAAGATTTCCAA 57.481 32.000 0.00 0.00 31.94 3.53
4619 5909 8.801882 ATAGTAATTTTCGGACAAGATTTCCA 57.198 30.769 0.00 0.00 31.94 3.53
4671 5961 4.587262 ACGATGCTATTGGTAGTGGATGTA 59.413 41.667 0.00 0.00 0.00 2.29
4682 5972 2.533266 ACAGGCTACGATGCTATTGG 57.467 50.000 0.00 0.00 0.00 3.16
4688 5978 2.989422 AAACAAACAGGCTACGATGC 57.011 45.000 0.00 0.00 0.00 3.91
4697 5987 4.440758 CGTACATGCAGAAAAACAAACAGG 59.559 41.667 0.00 0.00 0.00 4.00
4721 6011 0.250684 TTGCAAGTCTTCATGGCGGA 60.251 50.000 0.00 0.00 0.00 5.54
4723 6013 1.159285 TCTTGCAAGTCTTCATGGCG 58.841 50.000 25.19 0.00 0.00 5.69
4737 6027 1.678425 CCTTCCTCCTCTGCTTCTTGC 60.678 57.143 0.00 0.00 43.25 4.01
4857 6147 0.034896 GGGGTCGGATATGATTGCGT 59.965 55.000 0.00 0.00 0.00 5.24
4878 6168 1.079503 GAGGTGCGACTGAATGAACC 58.920 55.000 0.00 0.00 0.00 3.62
4879 6169 1.079503 GGAGGTGCGACTGAATGAAC 58.920 55.000 0.00 0.00 0.00 3.18
4914 6204 2.065483 GATGGCCTCTCCTCCCATC 58.935 63.158 3.32 3.43 45.65 3.51
4922 7035 0.473326 ATGAGCAAGGATGGCCTCTC 59.527 55.000 3.32 0.00 46.28 3.20
4926 7039 1.105759 GGTGATGAGCAAGGATGGCC 61.106 60.000 0.00 0.00 33.19 5.36
4970 7083 1.351350 GGTAGGCCAGTTCTCACCTTT 59.649 52.381 5.01 0.00 33.60 3.11
4993 7106 2.399916 AGAAGATGCTGCTGGAGAAC 57.600 50.000 0.00 0.00 0.00 3.01
5065 7178 1.133407 GAGCTGAATTCTCCGTCGAGT 59.867 52.381 7.05 0.00 37.40 4.18
5122 7235 2.446994 TTGGTGTCGGTGGGGACT 60.447 61.111 0.00 0.00 37.81 3.85


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

AutoCloner maintained by Alex Coulton.