Multiple sequence alignment - TraesCS7B01G147400

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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 TraesCS7B01G147400 chr7B 100.000 4460 0 0 1 4460 193307852 193312311 0.000000e+00 8237.0
1 TraesCS7B01G147400 chr7B 90.761 368 33 1 2984 3351 544481053 544480687 1.440000e-134 490.0
2 TraesCS7B01G147400 chr7B 96.183 262 8 2 4065 4324 598955038 598954777 1.150000e-115 427.0
3 TraesCS7B01G147400 chr7B 80.233 172 18 9 119 276 712466217 712466048 1.010000e-21 115.0
4 TraesCS7B01G147400 chr7B 80.420 143 21 6 138 276 746239638 746239777 7.890000e-18 102.0
5 TraesCS7B01G147400 chr7A 94.213 3318 102 26 648 3930 221269609 221266347 0.000000e+00 4981.0
6 TraesCS7B01G147400 chr7A 89.946 368 36 1 2984 3351 585356882 585356516 1.450000e-129 473.0
7 TraesCS7B01G147400 chr7A 77.294 643 116 26 17 640 262850722 262851353 7.100000e-93 351.0
8 TraesCS7B01G147400 chr7A 78.626 524 91 20 138 650 732179593 732179080 1.200000e-85 327.0
9 TraesCS7B01G147400 chr7A 94.203 138 6 2 3932 4068 221265955 221265819 4.520000e-50 209.0
10 TraesCS7B01G147400 chr7A 87.591 137 8 5 4322 4449 221265822 221265686 2.780000e-32 150.0
11 TraesCS7B01G147400 chr7D 96.719 1981 45 9 646 2621 208225785 208223820 0.000000e+00 3280.0
12 TraesCS7B01G147400 chr7D 90.061 1479 77 30 2635 4059 208223836 208222374 0.000000e+00 1853.0
13 TraesCS7B01G147400 chr7D 90.489 368 34 1 2984 3351 512747072 512746706 6.710000e-133 484.0
14 TraesCS7B01G147400 chr7D 91.339 127 8 2 4330 4456 208222090 208221967 2.130000e-38 171.0
15 TraesCS7B01G147400 chr5B 95.616 365 16 0 2985 3349 446996505 446996869 1.790000e-163 586.0
16 TraesCS7B01G147400 chr5B 93.151 146 7 1 1643 1788 446993006 446993148 1.260000e-50 211.0
17 TraesCS7B01G147400 chr5A 95.368 367 17 0 2985 3351 476225335 476225701 6.430000e-163 584.0
18 TraesCS7B01G147400 chr3B 92.857 406 24 2 241 646 764051674 764051274 6.430000e-163 584.0
19 TraesCS7B01G147400 chr3B 85.784 408 52 6 236 642 56448664 56449066 1.150000e-115 427.0
20 TraesCS7B01G147400 chr5D 95.095 367 18 0 2985 3351 374391716 374392082 2.990000e-161 579.0
21 TraesCS7B01G147400 chr5D 91.781 146 9 1 1643 1788 374388288 374388430 2.720000e-47 200.0
22 TraesCS7B01G147400 chr6B 86.593 455 56 5 195 646 565048645 565049097 8.620000e-137 497.0
23 TraesCS7B01G147400 chrUn 87.500 424 40 9 236 654 27276508 27276093 1.120000e-130 477.0
24 TraesCS7B01G147400 chrUn 95.817 263 9 2 4065 4325 108799236 108799498 1.480000e-114 424.0
25 TraesCS7B01G147400 chr4D 96.935 261 6 2 4065 4324 349816059 349816318 1.900000e-118 436.0
26 TraesCS7B01G147400 chr6D 96.183 262 8 2 4065 4325 160794030 160793770 1.150000e-115 427.0
27 TraesCS7B01G147400 chr6D 96.198 263 7 3 4065 4325 388990621 388990882 1.150000e-115 427.0
28 TraesCS7B01G147400 chr6D 83.784 407 63 3 241 646 427744071 427744475 2.520000e-102 383.0
29 TraesCS7B01G147400 chr6A 95.203 271 11 2 4065 4333 76520939 76520669 1.150000e-115 427.0
30 TraesCS7B01G147400 chr3D 95.833 264 9 2 4063 4324 83428533 83428796 4.120000e-115 425.0
31 TraesCS7B01G147400 chr3D 95.802 262 9 2 4065 4324 603703429 603703168 5.330000e-114 422.0
32 TraesCS7B01G147400 chr3D 81.390 446 72 11 195 634 253707916 253708356 1.970000e-93 353.0
33 TraesCS7B01G147400 chr3D 96.875 32 1 0 1577 1608 414507002 414506971 2.000000e-03 54.7
34 TraesCS7B01G147400 chr2D 96.169 261 8 2 4066 4324 204112944 204112684 4.120000e-115 425.0
35 TraesCS7B01G147400 chr1B 84.652 417 58 5 236 648 597111337 597110923 1.150000e-110 411.0
36 TraesCS7B01G147400 chr3A 84.559 136 13 7 138 268 674505531 674505399 1.300000e-25 128.0
37 TraesCS7B01G147400 chr2A 82.270 141 22 3 138 276 508603968 508603829 7.840000e-23 119.0


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 TraesCS7B01G147400 chr7B 193307852 193312311 4459 False 8237.0 8237 100.000000 1 4460 1 chr7B.!!$F1 4459
1 TraesCS7B01G147400 chr7A 221265686 221269609 3923 True 1780.0 4981 92.002333 648 4449 3 chr7A.!!$R3 3801
2 TraesCS7B01G147400 chr7A 262850722 262851353 631 False 351.0 351 77.294000 17 640 1 chr7A.!!$F1 623
3 TraesCS7B01G147400 chr7A 732179080 732179593 513 True 327.0 327 78.626000 138 650 1 chr7A.!!$R2 512
4 TraesCS7B01G147400 chr7D 208221967 208225785 3818 True 1768.0 3280 92.706333 646 4456 3 chr7D.!!$R2 3810
5 TraesCS7B01G147400 chr5B 446993006 446996869 3863 False 398.5 586 94.383500 1643 3349 2 chr5B.!!$F1 1706
6 TraesCS7B01G147400 chr5D 374388288 374392082 3794 False 389.5 579 93.438000 1643 3351 2 chr5D.!!$F1 1708

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
635 759 0.598158 CTGCCACACATGTGCCAAAC 60.598 55.000 25.68 11.28 44.34 2.93 F
1036 1162 0.034960 GAGCTTCCTCAAGAACCCCC 60.035 60.000 0.00 0.00 38.03 5.40 F
1065 1191 1.301293 CTGCACTTCCTCCTTCCCC 59.699 63.158 0.00 0.00 0.00 4.81 F
2952 5914 0.606944 AATTTAACAGACGGCCGGCA 60.607 50.000 36.60 12.39 0.00 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1641 1767 1.747709 CCGTCGAAGAGAACCCTAGA 58.252 55.000 0.0 0.0 36.95 2.43 R
2756 5707 1.639298 GCAAAGCCCTAGTCGTGCTG 61.639 60.000 0.0 0.0 35.08 4.41 R
2960 5922 2.093816 TGCACAACAATCAGTTTGGCAA 60.094 40.909 0.0 0.0 41.21 4.52 R
3940 7318 0.044092 TCATCCTCCCTTGCTACCCA 59.956 55.000 0.0 0.0 0.00 4.51 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
40 41 6.695292 AAACATAACACGGTAACTTCTACG 57.305 37.500 0.00 0.00 0.00 3.51
41 42 5.376854 ACATAACACGGTAACTTCTACGT 57.623 39.130 0.00 0.00 40.60 3.57
42 43 6.494893 ACATAACACGGTAACTTCTACGTA 57.505 37.500 0.00 0.00 37.85 3.57
43 44 6.908825 ACATAACACGGTAACTTCTACGTAA 58.091 36.000 0.00 0.00 37.85 3.18
44 45 7.367285 ACATAACACGGTAACTTCTACGTAAA 58.633 34.615 0.00 0.00 37.85 2.01
45 46 7.865385 ACATAACACGGTAACTTCTACGTAAAA 59.135 33.333 0.00 0.00 37.85 1.52
46 47 8.698854 CATAACACGGTAACTTCTACGTAAAAA 58.301 33.333 0.00 0.00 37.85 1.94
68 69 8.986477 AAAAAGCATGGTAATGTACAAATCTC 57.014 30.769 0.00 0.00 36.08 2.75
69 70 5.991328 AGCATGGTAATGTACAAATCTCG 57.009 39.130 0.00 0.00 36.08 4.04
70 71 4.273480 AGCATGGTAATGTACAAATCTCGC 59.727 41.667 0.00 0.00 36.08 5.03
71 72 4.035091 GCATGGTAATGTACAAATCTCGCA 59.965 41.667 0.00 0.00 36.08 5.10
72 73 5.741425 CATGGTAATGTACAAATCTCGCAG 58.259 41.667 0.00 0.00 0.00 5.18
73 74 3.621268 TGGTAATGTACAAATCTCGCAGC 59.379 43.478 0.00 0.00 0.00 5.25
74 75 3.871594 GGTAATGTACAAATCTCGCAGCT 59.128 43.478 0.00 0.00 0.00 4.24
75 76 4.260375 GGTAATGTACAAATCTCGCAGCTG 60.260 45.833 10.11 10.11 0.00 4.24
76 77 2.741759 TGTACAAATCTCGCAGCTGA 57.258 45.000 20.43 0.00 0.00 4.26
77 78 3.251479 TGTACAAATCTCGCAGCTGAT 57.749 42.857 20.43 0.00 0.00 2.90
78 79 4.385358 TGTACAAATCTCGCAGCTGATA 57.615 40.909 20.43 2.65 0.00 2.15
79 80 4.754322 TGTACAAATCTCGCAGCTGATAA 58.246 39.130 20.43 0.00 0.00 1.75
80 81 4.566759 TGTACAAATCTCGCAGCTGATAAC 59.433 41.667 20.43 0.00 0.00 1.89
81 82 3.866651 ACAAATCTCGCAGCTGATAACT 58.133 40.909 20.43 0.00 0.00 2.24
82 83 4.256920 ACAAATCTCGCAGCTGATAACTT 58.743 39.130 20.43 1.42 0.00 2.66
83 84 5.419542 ACAAATCTCGCAGCTGATAACTTA 58.580 37.500 20.43 0.00 0.00 2.24
84 85 5.521735 ACAAATCTCGCAGCTGATAACTTAG 59.478 40.000 20.43 3.40 0.00 2.18
85 86 3.717400 TCTCGCAGCTGATAACTTAGG 57.283 47.619 20.43 0.00 0.00 2.69
86 87 2.131183 CTCGCAGCTGATAACTTAGGC 58.869 52.381 20.43 0.00 0.00 3.93
87 88 1.480545 TCGCAGCTGATAACTTAGGCA 59.519 47.619 20.43 0.00 0.00 4.75
88 89 1.594862 CGCAGCTGATAACTTAGGCAC 59.405 52.381 20.43 0.00 0.00 5.01
89 90 2.632377 GCAGCTGATAACTTAGGCACA 58.368 47.619 20.43 0.00 0.00 4.57
90 91 3.009723 GCAGCTGATAACTTAGGCACAA 58.990 45.455 20.43 0.00 0.00 3.33
91 92 3.440173 GCAGCTGATAACTTAGGCACAAA 59.560 43.478 20.43 0.00 0.00 2.83
92 93 4.672801 GCAGCTGATAACTTAGGCACAAAC 60.673 45.833 20.43 0.00 0.00 2.93
93 94 4.455533 CAGCTGATAACTTAGGCACAAACA 59.544 41.667 8.42 0.00 0.00 2.83
94 95 4.455877 AGCTGATAACTTAGGCACAAACAC 59.544 41.667 0.00 0.00 0.00 3.32
95 96 4.379499 GCTGATAACTTAGGCACAAACACC 60.379 45.833 0.00 0.00 0.00 4.16
96 97 4.720046 TGATAACTTAGGCACAAACACCA 58.280 39.130 0.00 0.00 0.00 4.17
97 98 4.517453 TGATAACTTAGGCACAAACACCAC 59.483 41.667 0.00 0.00 0.00 4.16
98 99 2.428544 ACTTAGGCACAAACACCACA 57.571 45.000 0.00 0.00 0.00 4.17
99 100 2.729194 ACTTAGGCACAAACACCACAA 58.271 42.857 0.00 0.00 0.00 3.33
100 101 3.295973 ACTTAGGCACAAACACCACAAT 58.704 40.909 0.00 0.00 0.00 2.71
101 102 4.465886 ACTTAGGCACAAACACCACAATA 58.534 39.130 0.00 0.00 0.00 1.90
102 103 4.890581 ACTTAGGCACAAACACCACAATAA 59.109 37.500 0.00 0.00 0.00 1.40
103 104 3.726291 AGGCACAAACACCACAATAAC 57.274 42.857 0.00 0.00 0.00 1.89
104 105 3.027412 AGGCACAAACACCACAATAACA 58.973 40.909 0.00 0.00 0.00 2.41
105 106 3.640967 AGGCACAAACACCACAATAACAT 59.359 39.130 0.00 0.00 0.00 2.71
106 107 4.100808 AGGCACAAACACCACAATAACATT 59.899 37.500 0.00 0.00 0.00 2.71
107 108 4.813697 GGCACAAACACCACAATAACATTT 59.186 37.500 0.00 0.00 0.00 2.32
108 109 5.277250 GGCACAAACACCACAATAACATTTG 60.277 40.000 0.00 0.00 0.00 2.32
109 110 5.521735 GCACAAACACCACAATAACATTTGA 59.478 36.000 0.00 0.00 31.59 2.69
110 111 6.202570 GCACAAACACCACAATAACATTTGAT 59.797 34.615 0.00 0.00 31.59 2.57
111 112 7.383572 GCACAAACACCACAATAACATTTGATA 59.616 33.333 0.00 0.00 31.59 2.15
112 113 9.254133 CACAAACACCACAATAACATTTGATAA 57.746 29.630 0.00 0.00 31.59 1.75
113 114 9.474920 ACAAACACCACAATAACATTTGATAAG 57.525 29.630 0.00 0.00 31.59 1.73
114 115 8.924691 CAAACACCACAATAACATTTGATAAGG 58.075 33.333 0.00 0.00 0.00 2.69
115 116 7.169158 ACACCACAATAACATTTGATAAGGG 57.831 36.000 0.00 0.00 0.00 3.95
116 117 6.154363 ACACCACAATAACATTTGATAAGGGG 59.846 38.462 0.00 0.00 0.00 4.79
117 118 5.660864 ACCACAATAACATTTGATAAGGGGG 59.339 40.000 0.00 0.00 0.00 5.40
189 307 9.905713 ATATGAACCACATACTTGATAACTTGT 57.094 29.630 0.00 0.00 43.12 3.16
192 310 9.161629 TGAACCACATACTTGATAACTTGTATG 57.838 33.333 9.53 9.53 44.37 2.39
193 311 9.378551 GAACCACATACTTGATAACTTGTATGA 57.621 33.333 15.84 0.00 42.62 2.15
209 327 6.985645 ACTTGTATGAAAACACTACGGTAACA 59.014 34.615 0.00 0.00 0.00 2.41
218 337 4.952460 ACACTACGGTAACATTGACAAGT 58.048 39.130 0.00 0.00 0.00 3.16
221 340 3.478857 ACGGTAACATTGACAAGTGGA 57.521 42.857 0.00 0.00 0.00 4.02
222 341 3.811083 ACGGTAACATTGACAAGTGGAA 58.189 40.909 0.00 0.00 0.00 3.53
285 404 1.734163 AGCACGGTAAGTTGCATACC 58.266 50.000 5.09 5.09 39.57 2.73
315 434 3.735591 GGTAAATTATGTAGCCGAGGCA 58.264 45.455 17.18 0.00 44.88 4.75
329 448 2.161609 CCGAGGCATGGTAACTTTTGAC 59.838 50.000 0.00 0.00 37.61 3.18
330 449 2.161609 CGAGGCATGGTAACTTTTGACC 59.838 50.000 0.00 0.00 36.17 4.02
332 451 1.548719 GGCATGGTAACTTTTGACCCC 59.451 52.381 0.00 0.00 34.58 4.95
382 501 7.783596 AGCATGGGATCTATTTTTGAAGATCTT 59.216 33.333 7.95 7.95 44.94 2.40
411 530 9.210426 CACGAGAAATCTTTTATATGAAAACGG 57.790 33.333 0.00 0.00 0.00 4.44
461 580 8.419076 AGCTACAAAACATTTTAAACTGTTGG 57.581 30.769 20.61 17.81 35.82 3.77
495 614 8.503458 AGAATCTAGGATGACATCAACTTTTG 57.497 34.615 17.08 0.76 0.00 2.44
499 619 4.728772 AGGATGACATCAACTTTTGGTCA 58.271 39.130 17.08 0.00 42.07 4.02
506 626 6.427853 TGACATCAACTTTTGGTCATCTAGTG 59.572 38.462 0.00 0.00 33.88 2.74
541 661 4.559862 AGAGGAAGGAATGAACGTGAAT 57.440 40.909 0.00 0.00 0.00 2.57
542 662 4.256920 AGAGGAAGGAATGAACGTGAATG 58.743 43.478 0.00 0.00 0.00 2.67
551 671 6.093219 AGGAATGAACGTGAATGAAGAATGAG 59.907 38.462 0.00 0.00 0.00 2.90
555 675 5.177511 TGAACGTGAATGAAGAATGAGTCAC 59.822 40.000 0.00 0.00 33.62 3.67
556 676 4.887748 ACGTGAATGAAGAATGAGTCACT 58.112 39.130 0.00 0.00 34.57 3.41
592 715 9.865321 GCATGCATGTAATTATATGGAAGAAAT 57.135 29.630 26.79 1.66 30.00 2.17
635 759 0.598158 CTGCCACACATGTGCCAAAC 60.598 55.000 25.68 11.28 44.34 2.93
650 774 3.450457 TGCCAAACATCACAGTCCTTTTT 59.550 39.130 0.00 0.00 0.00 1.94
688 813 2.108952 AGAAAGGAAGCATTGTCCTGGT 59.891 45.455 0.00 0.00 45.12 4.00
692 817 1.003580 GGAAGCATTGTCCTGGTCTGA 59.996 52.381 0.00 0.00 31.94 3.27
794 919 2.840511 TCCCCCTAGCAGAATACAACA 58.159 47.619 0.00 0.00 0.00 3.33
870 996 1.891811 TCTCTCTCCTGCTCACACTTG 59.108 52.381 0.00 0.00 0.00 3.16
913 1039 2.978010 CCAACCACGGCACCTCAC 60.978 66.667 0.00 0.00 0.00 3.51
914 1040 2.978010 CAACCACGGCACCTCACC 60.978 66.667 0.00 0.00 0.00 4.02
915 1041 3.168528 AACCACGGCACCTCACCT 61.169 61.111 0.00 0.00 0.00 4.00
962 1088 3.410508 AGCCAAGAAGAGAGAAGCAAAG 58.589 45.455 0.00 0.00 0.00 2.77
1036 1162 0.034960 GAGCTTCCTCAAGAACCCCC 60.035 60.000 0.00 0.00 38.03 5.40
1065 1191 1.301293 CTGCACTTCCTCCTTCCCC 59.699 63.158 0.00 0.00 0.00 4.81
1066 1192 2.269241 GCACTTCCTCCTTCCCCG 59.731 66.667 0.00 0.00 0.00 5.73
1069 1195 3.798511 CTTCCTCCTTCCCCGCCC 61.799 72.222 0.00 0.00 0.00 6.13
1326 1452 4.471726 GACGTCGCCGACACCGAT 62.472 66.667 18.40 0.00 37.04 4.18
1853 2168 3.619483 TGGGCATGTAGTAATTTCGTTCG 59.381 43.478 0.00 0.00 0.00 3.95
1858 2173 6.254157 GGCATGTAGTAATTTCGTTCGTCTAA 59.746 38.462 0.00 0.00 0.00 2.10
1859 2174 7.042925 GGCATGTAGTAATTTCGTTCGTCTAAT 60.043 37.037 0.00 0.00 0.00 1.73
1933 3000 1.395635 TGCATGCCATGAATGACTCC 58.604 50.000 16.68 0.00 0.00 3.85
2610 5552 7.686438 TTCTCTGCTTGCAAACTGATTAATA 57.314 32.000 9.49 0.00 0.00 0.98
2616 5558 5.514204 GCTTGCAAACTGATTAATACTGCTG 59.486 40.000 0.00 0.00 0.00 4.41
2619 5561 5.032863 GCAAACTGATTAATACTGCTGCTG 58.967 41.667 4.89 4.89 0.00 4.41
2622 5564 6.824305 AACTGATTAATACTGCTGCTGTTT 57.176 33.333 17.29 12.94 0.00 2.83
2624 5566 5.063944 ACTGATTAATACTGCTGCTGTTTCG 59.936 40.000 17.29 6.88 0.00 3.46
2626 5568 5.411361 TGATTAATACTGCTGCTGTTTCGTT 59.589 36.000 17.29 9.97 0.00 3.85
2632 5574 4.739195 ACTGCTGCTGTTTCGTTTAAAAA 58.261 34.783 6.33 0.00 0.00 1.94
2683 5631 2.171870 AGAAAGTCCGGGTTCAGTTTGA 59.828 45.455 0.00 0.00 0.00 2.69
2831 5793 5.068987 ACCAAACACTGCATTAATGTGAAGT 59.931 36.000 16.61 14.04 35.83 3.01
2832 5794 6.264292 ACCAAACACTGCATTAATGTGAAGTA 59.736 34.615 16.61 0.00 35.83 2.24
2833 5795 6.803320 CCAAACACTGCATTAATGTGAAGTAG 59.197 38.462 16.61 13.19 35.83 2.57
2930 5892 2.116827 ACGTGTCCAAACTCCAAACA 57.883 45.000 0.00 0.00 0.00 2.83
2952 5914 0.606944 AATTTAACAGACGGCCGGCA 60.607 50.000 36.60 12.39 0.00 5.69
2955 5917 3.673956 TAACAGACGGCCGGCATGG 62.674 63.158 36.60 24.56 42.50 3.66
3640 6608 5.234766 CGTTTGTTGTCGTTTTTGCTTTAC 58.765 37.500 0.00 0.00 0.00 2.01
3652 6620 6.197655 CGTTTTTGCTTTACTGTTAGGGTTTC 59.802 38.462 0.00 0.00 0.00 2.78
3671 6639 5.977725 GGTTTCTGGAAGTTTTCTTTAGTGC 59.022 40.000 0.00 0.00 40.61 4.40
3677 6645 7.015292 TCTGGAAGTTTTCTTTAGTGCTAGAGA 59.985 37.037 0.00 0.00 40.61 3.10
3854 6835 9.533253 AATTTTTATTGTAAGGCTATGCATGAC 57.467 29.630 10.16 1.24 0.00 3.06
3863 6847 3.118408 AGGCTATGCATGACCTCGTAAAA 60.118 43.478 10.16 0.00 0.00 1.52
3940 7318 6.769512 TCTGTAAAGAGTAAGAACAATGGCT 58.230 36.000 0.00 0.00 0.00 4.75
4059 7443 8.293867 GCTCGAGTCAAGTTTCTACTATATCAT 58.706 37.037 15.13 0.00 33.17 2.45
4061 7445 9.338622 TCGAGTCAAGTTTCTACTATATCATCA 57.661 33.333 0.00 0.00 33.17 3.07
4062 7446 9.952188 CGAGTCAAGTTTCTACTATATCATCAA 57.048 33.333 0.00 0.00 33.17 2.57
4064 7448 9.737427 AGTCAAGTTTCTACTATATCATCAACG 57.263 33.333 0.00 0.00 33.17 4.10
4065 7449 9.517609 GTCAAGTTTCTACTATATCATCAACGT 57.482 33.333 0.00 0.00 33.17 3.99
4070 7454 9.609950 GTTTCTACTATATCATCAACGTACTCC 57.390 37.037 0.00 0.00 0.00 3.85
4073 7457 6.821031 ACTATATCATCAACGTACTCCCTC 57.179 41.667 0.00 0.00 0.00 4.30
4075 7459 1.100510 TCATCAACGTACTCCCTCCG 58.899 55.000 0.00 0.00 0.00 4.63
4076 7460 0.815734 CATCAACGTACTCCCTCCGT 59.184 55.000 0.00 0.00 36.17 4.69
4077 7461 1.203994 CATCAACGTACTCCCTCCGTT 59.796 52.381 0.00 0.00 44.81 4.44
4078 7462 1.331214 TCAACGTACTCCCTCCGTTT 58.669 50.000 0.00 0.00 42.34 3.60
4079 7463 1.688197 TCAACGTACTCCCTCCGTTTT 59.312 47.619 0.00 0.00 42.34 2.43
4080 7464 2.102925 TCAACGTACTCCCTCCGTTTTT 59.897 45.455 0.00 0.00 42.34 1.94
4103 7487 6.687081 TTTTAGTCCGCATATAAGGTTTGG 57.313 37.500 0.00 0.00 0.00 3.28
4104 7488 3.926058 AGTCCGCATATAAGGTTTGGT 57.074 42.857 0.00 0.00 0.00 3.67
4105 7489 3.805207 AGTCCGCATATAAGGTTTGGTC 58.195 45.455 0.00 0.00 0.00 4.02
4107 7491 3.942748 GTCCGCATATAAGGTTTGGTCAA 59.057 43.478 0.00 0.00 0.00 3.18
4108 7492 4.396790 GTCCGCATATAAGGTTTGGTCAAA 59.603 41.667 0.00 0.00 0.00 2.69
4109 7493 4.638421 TCCGCATATAAGGTTTGGTCAAAG 59.362 41.667 0.00 0.00 0.00 2.77
4110 7494 4.398044 CCGCATATAAGGTTTGGTCAAAGT 59.602 41.667 0.00 0.00 0.00 2.66
4111 7495 5.448632 CCGCATATAAGGTTTGGTCAAAGTC 60.449 44.000 0.00 0.00 0.00 3.01
4112 7496 5.123186 CGCATATAAGGTTTGGTCAAAGTCA 59.877 40.000 0.00 0.00 0.00 3.41
4114 7498 7.029563 GCATATAAGGTTTGGTCAAAGTCAAG 58.970 38.462 0.00 0.00 0.00 3.02
4115 7499 3.801114 AAGGTTTGGTCAAAGTCAAGC 57.199 42.857 0.00 0.00 0.00 4.01
4117 7501 3.365472 AGGTTTGGTCAAAGTCAAGCTT 58.635 40.909 0.00 0.00 39.52 3.74
4134 7518 7.478520 TCAAGCTTTGTAGAGTTTGACTAAC 57.521 36.000 0.00 0.00 40.46 2.34
4137 7521 8.398665 CAAGCTTTGTAGAGTTTGACTAACTTT 58.601 33.333 0.00 1.31 47.00 2.66
4138 7522 9.609346 AAGCTTTGTAGAGTTTGACTAACTTTA 57.391 29.630 3.78 0.37 47.00 1.85
4139 7523 9.780186 AGCTTTGTAGAGTTTGACTAACTTTAT 57.220 29.630 3.78 0.00 47.00 1.40
4190 7574 9.734984 ATGAAATCAATACTATCAGATGCATCA 57.265 29.630 27.81 9.38 0.00 3.07
4191 7575 9.734984 TGAAATCAATACTATCAGATGCATCAT 57.265 29.630 27.81 15.95 0.00 2.45
4193 7577 9.734984 AAATCAATACTATCAGATGCATCATGA 57.265 29.630 27.81 24.74 0.00 3.07
4195 7579 9.734984 ATCAATACTATCAGATGCATCATGAAA 57.265 29.630 27.81 14.44 0.00 2.69
4196 7580 8.996271 TCAATACTATCAGATGCATCATGAAAC 58.004 33.333 27.81 0.00 0.00 2.78
4197 7581 5.919272 ACTATCAGATGCATCATGAAACG 57.081 39.130 27.81 18.91 0.00 3.60
4198 7582 5.363101 ACTATCAGATGCATCATGAAACGT 58.637 37.500 27.81 19.39 0.00 3.99
4199 7583 6.515832 ACTATCAGATGCATCATGAAACGTA 58.484 36.000 27.81 14.83 0.00 3.57
4200 7584 7.157347 ACTATCAGATGCATCATGAAACGTAT 58.843 34.615 27.81 13.68 0.00 3.06
4201 7585 6.872628 ATCAGATGCATCATGAAACGTATT 57.127 33.333 27.81 9.20 0.00 1.89
4202 7586 6.682423 TCAGATGCATCATGAAACGTATTT 57.318 33.333 27.81 0.00 0.00 1.40
4203 7587 7.087409 TCAGATGCATCATGAAACGTATTTT 57.913 32.000 27.81 0.00 0.00 1.82
4204 7588 7.188834 TCAGATGCATCATGAAACGTATTTTC 58.811 34.615 27.81 0.00 43.63 2.29
4275 7659 8.840833 AAATTTGGTCAAACTTTGTGTAGTTT 57.159 26.923 1.44 0.00 46.42 2.66
4276 7660 9.930693 AAATTTGGTCAAACTTTGTGTAGTTTA 57.069 25.926 1.44 0.00 44.33 2.01
4277 7661 9.930693 AATTTGGTCAAACTTTGTGTAGTTTAA 57.069 25.926 1.44 0.00 44.33 1.52
4279 7663 7.690952 TGGTCAAACTTTGTGTAGTTTAACT 57.309 32.000 2.32 2.32 44.33 2.24
4280 7664 8.113173 TGGTCAAACTTTGTGTAGTTTAACTT 57.887 30.769 1.94 0.00 44.33 2.66
4281 7665 8.578151 TGGTCAAACTTTGTGTAGTTTAACTTT 58.422 29.630 1.94 0.00 44.33 2.66
4282 7666 8.856247 GGTCAAACTTTGTGTAGTTTAACTTTG 58.144 33.333 1.94 0.00 44.33 2.77
4283 7667 9.615295 GTCAAACTTTGTGTAGTTTAACTTTGA 57.385 29.630 1.94 1.17 44.33 2.69
4284 7668 9.615295 TCAAACTTTGTGTAGTTTAACTTTGAC 57.385 29.630 1.94 0.00 44.33 3.18
4285 7669 8.856247 CAAACTTTGTGTAGTTTAACTTTGACC 58.144 33.333 1.94 0.00 44.33 4.02
4287 7671 8.113173 ACTTTGTGTAGTTTAACTTTGACCAA 57.887 30.769 1.94 0.63 0.00 3.67
4289 7673 9.581099 CTTTGTGTAGTTTAACTTTGACCAAAT 57.419 29.630 1.94 0.00 0.00 2.32
4290 7674 9.575783 TTTGTGTAGTTTAACTTTGACCAAATC 57.424 29.630 1.94 0.00 0.00 2.17
4292 7676 8.962679 TGTGTAGTTTAACTTTGACCAAATCTT 58.037 29.630 1.94 0.00 0.00 2.40
4318 7702 3.396560 ACGGAGTAAAAAGAAACGGAGG 58.603 45.455 0.00 0.00 41.94 4.30
4320 7704 3.555586 CGGAGTAAAAAGAAACGGAGGGA 60.556 47.826 0.00 0.00 0.00 4.20
4365 7769 3.165071 CAGCCCAACCTAAACATTTCCT 58.835 45.455 0.00 0.00 0.00 3.36
4407 7811 3.627395 TCCAAGAAAGTCTGTGTGTGT 57.373 42.857 0.00 0.00 0.00 3.72
4416 7820 4.323553 AGTCTGTGTGTGTCCTAGAAAC 57.676 45.455 0.00 0.00 0.00 2.78
4435 7841 6.591935 AGAAACAGAAAACATAGAGGACACA 58.408 36.000 0.00 0.00 0.00 3.72
4449 7855 0.472471 GACACAACTGGGTCTTGGGA 59.528 55.000 4.81 0.00 44.75 4.37
4451 7857 2.304761 GACACAACTGGGTCTTGGGATA 59.695 50.000 4.81 0.00 44.75 2.59
4452 7858 2.039879 ACACAACTGGGTCTTGGGATAC 59.960 50.000 0.00 0.00 0.00 2.24
4453 7859 2.305927 CACAACTGGGTCTTGGGATACT 59.694 50.000 0.00 0.00 0.00 2.12
4454 7860 3.517901 CACAACTGGGTCTTGGGATACTA 59.482 47.826 0.00 0.00 0.00 1.82
4455 7861 3.518303 ACAACTGGGTCTTGGGATACTAC 59.482 47.826 0.00 0.00 0.00 2.73
4456 7862 3.775316 CAACTGGGTCTTGGGATACTACT 59.225 47.826 0.00 0.00 0.00 2.57
4457 7863 3.375699 ACTGGGTCTTGGGATACTACTG 58.624 50.000 0.00 0.00 0.00 2.74
4458 7864 2.103263 CTGGGTCTTGGGATACTACTGC 59.897 54.545 0.00 0.00 0.00 4.40
4459 7865 2.292918 TGGGTCTTGGGATACTACTGCT 60.293 50.000 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 7.224557 ACGTAGAAGTTACCGTGTTATGTTTTT 59.775 33.333 0.00 0.00 31.43 1.94
43 44 7.754924 CGAGATTTGTACATTACCATGCTTTTT 59.245 33.333 0.00 0.00 33.05 1.94
44 45 7.250569 CGAGATTTGTACATTACCATGCTTTT 58.749 34.615 0.00 0.00 33.05 2.27
45 46 6.677920 GCGAGATTTGTACATTACCATGCTTT 60.678 38.462 0.00 0.00 33.05 3.51
46 47 5.220854 GCGAGATTTGTACATTACCATGCTT 60.221 40.000 0.00 0.00 33.05 3.91
47 48 4.273480 GCGAGATTTGTACATTACCATGCT 59.727 41.667 0.00 0.00 33.05 3.79
48 49 4.035091 TGCGAGATTTGTACATTACCATGC 59.965 41.667 0.00 0.00 33.05 4.06
49 50 5.733226 TGCGAGATTTGTACATTACCATG 57.267 39.130 0.00 0.00 36.34 3.66
50 51 4.273480 GCTGCGAGATTTGTACATTACCAT 59.727 41.667 0.00 0.00 0.00 3.55
51 52 3.621268 GCTGCGAGATTTGTACATTACCA 59.379 43.478 0.00 0.00 0.00 3.25
52 53 3.871594 AGCTGCGAGATTTGTACATTACC 59.128 43.478 0.00 0.00 0.00 2.85
53 54 4.566759 TCAGCTGCGAGATTTGTACATTAC 59.433 41.667 9.47 0.00 0.00 1.89
54 55 4.754322 TCAGCTGCGAGATTTGTACATTA 58.246 39.130 9.47 0.00 0.00 1.90
55 56 3.599343 TCAGCTGCGAGATTTGTACATT 58.401 40.909 9.47 0.00 0.00 2.71
56 57 3.251479 TCAGCTGCGAGATTTGTACAT 57.749 42.857 9.47 0.00 0.00 2.29
57 58 2.741759 TCAGCTGCGAGATTTGTACA 57.258 45.000 9.47 0.00 0.00 2.90
58 59 4.806247 AGTTATCAGCTGCGAGATTTGTAC 59.194 41.667 9.47 8.91 0.00 2.90
59 60 5.011090 AGTTATCAGCTGCGAGATTTGTA 57.989 39.130 9.47 0.00 0.00 2.41
60 61 3.866651 AGTTATCAGCTGCGAGATTTGT 58.133 40.909 9.47 0.00 0.00 2.83
61 62 4.871993 AAGTTATCAGCTGCGAGATTTG 57.128 40.909 9.47 0.00 0.00 2.32
62 63 5.053145 CCTAAGTTATCAGCTGCGAGATTT 58.947 41.667 9.47 1.85 0.00 2.17
63 64 4.626042 CCTAAGTTATCAGCTGCGAGATT 58.374 43.478 9.47 3.77 0.00 2.40
64 65 3.553922 GCCTAAGTTATCAGCTGCGAGAT 60.554 47.826 9.47 13.56 0.00 2.75
65 66 2.223829 GCCTAAGTTATCAGCTGCGAGA 60.224 50.000 9.47 0.00 0.00 4.04
66 67 2.131183 GCCTAAGTTATCAGCTGCGAG 58.869 52.381 9.47 0.00 0.00 5.03
67 68 1.480545 TGCCTAAGTTATCAGCTGCGA 59.519 47.619 9.47 0.00 0.00 5.10
68 69 1.594862 GTGCCTAAGTTATCAGCTGCG 59.405 52.381 9.47 0.00 0.00 5.18
69 70 2.632377 TGTGCCTAAGTTATCAGCTGC 58.368 47.619 9.47 0.00 0.00 5.25
70 71 4.455533 TGTTTGTGCCTAAGTTATCAGCTG 59.544 41.667 7.63 7.63 0.00 4.24
71 72 4.455877 GTGTTTGTGCCTAAGTTATCAGCT 59.544 41.667 0.00 0.00 0.00 4.24
72 73 4.379499 GGTGTTTGTGCCTAAGTTATCAGC 60.379 45.833 0.00 0.00 0.00 4.26
73 74 4.759693 TGGTGTTTGTGCCTAAGTTATCAG 59.240 41.667 0.00 0.00 0.00 2.90
74 75 4.517453 GTGGTGTTTGTGCCTAAGTTATCA 59.483 41.667 0.00 0.00 0.00 2.15
75 76 4.517453 TGTGGTGTTTGTGCCTAAGTTATC 59.483 41.667 0.00 0.00 0.00 1.75
76 77 4.465886 TGTGGTGTTTGTGCCTAAGTTAT 58.534 39.130 0.00 0.00 0.00 1.89
77 78 3.887352 TGTGGTGTTTGTGCCTAAGTTA 58.113 40.909 0.00 0.00 0.00 2.24
78 79 2.729194 TGTGGTGTTTGTGCCTAAGTT 58.271 42.857 0.00 0.00 0.00 2.66
79 80 2.428544 TGTGGTGTTTGTGCCTAAGT 57.571 45.000 0.00 0.00 0.00 2.24
80 81 5.219633 GTTATTGTGGTGTTTGTGCCTAAG 58.780 41.667 0.00 0.00 0.00 2.18
81 82 4.645136 TGTTATTGTGGTGTTTGTGCCTAA 59.355 37.500 0.00 0.00 0.00 2.69
82 83 4.207955 TGTTATTGTGGTGTTTGTGCCTA 58.792 39.130 0.00 0.00 0.00 3.93
83 84 3.027412 TGTTATTGTGGTGTTTGTGCCT 58.973 40.909 0.00 0.00 0.00 4.75
84 85 3.444703 TGTTATTGTGGTGTTTGTGCC 57.555 42.857 0.00 0.00 0.00 5.01
85 86 5.521735 TCAAATGTTATTGTGGTGTTTGTGC 59.478 36.000 0.00 0.00 0.00 4.57
86 87 7.712264 ATCAAATGTTATTGTGGTGTTTGTG 57.288 32.000 0.00 0.00 0.00 3.33
87 88 9.474920 CTTATCAAATGTTATTGTGGTGTTTGT 57.525 29.630 0.00 0.00 0.00 2.83
88 89 8.924691 CCTTATCAAATGTTATTGTGGTGTTTG 58.075 33.333 0.00 0.00 0.00 2.93
89 90 8.093927 CCCTTATCAAATGTTATTGTGGTGTTT 58.906 33.333 0.00 0.00 0.00 2.83
90 91 7.310361 CCCCTTATCAAATGTTATTGTGGTGTT 60.310 37.037 0.00 0.00 0.00 3.32
91 92 6.154363 CCCCTTATCAAATGTTATTGTGGTGT 59.846 38.462 0.00 0.00 0.00 4.16
92 93 6.406849 CCCCCTTATCAAATGTTATTGTGGTG 60.407 42.308 0.00 0.00 0.00 4.17
93 94 5.660864 CCCCCTTATCAAATGTTATTGTGGT 59.339 40.000 0.00 0.00 0.00 4.16
94 95 6.160576 CCCCCTTATCAAATGTTATTGTGG 57.839 41.667 0.00 0.00 0.00 4.17
178 296 8.714179 CCGTAGTGTTTTCATACAAGTTATCAA 58.286 33.333 0.00 0.00 0.00 2.57
188 306 7.953710 GTCAATGTTACCGTAGTGTTTTCATAC 59.046 37.037 0.00 0.00 0.00 2.39
189 307 7.656542 TGTCAATGTTACCGTAGTGTTTTCATA 59.343 33.333 0.00 0.00 0.00 2.15
190 308 6.483974 TGTCAATGTTACCGTAGTGTTTTCAT 59.516 34.615 0.00 0.00 0.00 2.57
192 310 6.289745 TGTCAATGTTACCGTAGTGTTTTC 57.710 37.500 0.00 0.00 0.00 2.29
193 311 6.316890 ACTTGTCAATGTTACCGTAGTGTTTT 59.683 34.615 0.00 0.00 0.00 2.43
200 318 4.603989 TCCACTTGTCAATGTTACCGTA 57.396 40.909 0.00 0.00 0.00 4.02
201 319 3.478857 TCCACTTGTCAATGTTACCGT 57.521 42.857 0.00 0.00 0.00 4.83
227 346 9.636789 GTTACCAGGGGTATGTTTTCTAATATT 57.363 33.333 0.00 0.00 38.05 1.28
228 347 9.010767 AGTTACCAGGGGTATGTTTTCTAATAT 57.989 33.333 0.00 0.00 38.05 1.28
230 349 7.280044 AGTTACCAGGGGTATGTTTTCTAAT 57.720 36.000 0.00 0.00 38.05 1.73
231 350 6.707273 AGTTACCAGGGGTATGTTTTCTAA 57.293 37.500 0.00 0.00 38.05 2.10
243 362 6.039382 GCTATTTTCACATAAGTTACCAGGGG 59.961 42.308 0.00 0.00 0.00 4.79
286 405 3.362693 GCTACATAATTTACCGCGTCTGC 60.363 47.826 4.92 0.00 37.91 4.26
290 409 2.129607 CGGCTACATAATTTACCGCGT 58.870 47.619 4.92 0.00 33.46 6.01
292 411 2.735134 CCTCGGCTACATAATTTACCGC 59.265 50.000 0.00 0.00 40.41 5.68
293 412 2.735134 GCCTCGGCTACATAATTTACCG 59.265 50.000 0.00 0.00 41.92 4.02
299 418 1.699634 ACCATGCCTCGGCTACATAAT 59.300 47.619 9.65 0.00 42.51 1.28
342 461 3.202818 TCCCATGCTGGTATGTTTCTGAT 59.797 43.478 0.00 0.00 35.17 2.90
344 463 3.003394 TCCCATGCTGGTATGTTTCTG 57.997 47.619 0.00 0.00 35.17 3.02
345 464 3.461085 AGATCCCATGCTGGTATGTTTCT 59.539 43.478 0.00 0.00 35.17 2.52
357 476 7.521871 AGATCTTCAAAAATAGATCCCATGC 57.478 36.000 8.13 0.00 45.05 4.06
373 492 9.658799 AAAAGATTTCTCGTGATAAGATCTTCA 57.341 29.630 12.24 1.53 0.00 3.02
386 505 8.943002 ACCGTTTTCATATAAAAGATTTCTCGT 58.057 29.630 0.00 0.00 0.00 4.18
402 521 3.056304 CCGATGCAAAAACCGTTTTCAT 58.944 40.909 9.65 9.58 34.64 2.57
407 526 0.312729 GGTCCGATGCAAAAACCGTT 59.687 50.000 0.00 0.00 0.00 4.44
411 530 0.452122 CGTCGGTCCGATGCAAAAAC 60.452 55.000 20.13 3.06 38.42 2.43
455 574 8.187913 TCCTAGATTCTCTCATATTCCAACAG 57.812 38.462 0.00 0.00 0.00 3.16
457 576 8.811017 TCATCCTAGATTCTCTCATATTCCAAC 58.189 37.037 0.00 0.00 0.00 3.77
466 585 6.838090 AGTTGATGTCATCCTAGATTCTCTCA 59.162 38.462 10.36 0.00 0.00 3.27
467 586 7.288810 AGTTGATGTCATCCTAGATTCTCTC 57.711 40.000 10.36 0.00 0.00 3.20
506 626 9.442047 CATTCCTTCCTCTAATTACATACATCC 57.558 37.037 0.00 0.00 0.00 3.51
511 631 8.701895 ACGTTCATTCCTTCCTCTAATTACATA 58.298 33.333 0.00 0.00 0.00 2.29
527 647 6.128172 ACTCATTCTTCATTCACGTTCATTCC 60.128 38.462 0.00 0.00 0.00 3.01
533 653 5.300752 AGTGACTCATTCTTCATTCACGTT 58.699 37.500 0.00 0.00 38.69 3.99
541 661 6.041423 TGCATTAGAGTGACTCATTCTTCA 57.959 37.500 15.86 2.69 32.80 3.02
542 662 6.511444 GCATGCATTAGAGTGACTCATTCTTC 60.511 42.308 15.86 0.06 32.80 2.87
619 743 1.340568 TGATGTTTGGCACATGTGTGG 59.659 47.619 26.01 2.28 46.96 4.17
679 804 5.304686 AGTATTTGTTCAGACCAGGACAA 57.695 39.130 0.00 0.00 0.00 3.18
688 813 7.578310 AGGCGTATAGTAGTATTTGTTCAGA 57.422 36.000 0.00 0.00 0.00 3.27
763 888 1.626321 GCTAGGGGGAATCCTAAGCTC 59.374 57.143 0.00 0.00 38.77 4.09
794 919 1.549170 AGCGGTATTGTTCTTCGGACT 59.451 47.619 0.00 0.00 0.00 3.85
870 996 3.324268 GGGGTAGTTATAGTGAGAAGGGC 59.676 52.174 0.00 0.00 0.00 5.19
911 1037 0.605589 GAGTGAGGTGAGGTGAGGTG 59.394 60.000 0.00 0.00 0.00 4.00
912 1038 0.543174 GGAGTGAGGTGAGGTGAGGT 60.543 60.000 0.00 0.00 0.00 3.85
913 1039 1.261238 GGGAGTGAGGTGAGGTGAGG 61.261 65.000 0.00 0.00 0.00 3.86
914 1040 0.542938 TGGGAGTGAGGTGAGGTGAG 60.543 60.000 0.00 0.00 0.00 3.51
915 1041 0.542938 CTGGGAGTGAGGTGAGGTGA 60.543 60.000 0.00 0.00 0.00 4.02
962 1088 0.802607 CTCCGGCGCACTCTTTCTAC 60.803 60.000 10.83 0.00 0.00 2.59
1036 1162 4.096682 GGAGGAAGTGCAGTAGTAGTAGTG 59.903 50.000 7.91 7.91 33.25 2.74
1142 1268 4.803426 GGTGAGGAGCTGCGGTCG 62.803 72.222 0.00 0.00 0.00 4.79
1143 1269 3.695606 TGGTGAGGAGCTGCGGTC 61.696 66.667 0.00 0.00 0.00 4.79
1144 1270 4.008933 GTGGTGAGGAGCTGCGGT 62.009 66.667 0.00 0.00 0.00 5.68
1201 1327 1.424493 GCCGTGCTGTAGTGATGAGC 61.424 60.000 0.00 0.00 0.00 4.26
1313 1439 4.485834 CGGAATCGGTGTCGGCGA 62.486 66.667 4.99 4.99 36.95 5.54
1321 1447 1.063649 CATCGTCGTCGGAATCGGT 59.936 57.895 1.55 0.00 37.69 4.69
1326 1452 0.726787 CGTTGTCATCGTCGTCGGAA 60.727 55.000 1.55 0.00 37.69 4.30
1641 1767 1.747709 CCGTCGAAGAGAACCCTAGA 58.252 55.000 0.00 0.00 36.95 2.43
1933 3000 4.082949 TCAGCAGCTCAAGTCAATTTCATG 60.083 41.667 0.00 0.00 0.00 3.07
2610 5552 4.364415 TTTTAAACGAAACAGCAGCAGT 57.636 36.364 0.00 0.00 0.00 4.40
2632 5574 4.737054 GCACACAGCAGCAGTATTAATTT 58.263 39.130 0.00 0.00 44.79 1.82
2633 5575 4.361451 GCACACAGCAGCAGTATTAATT 57.639 40.909 0.00 0.00 44.79 1.40
2683 5631 8.531982 AGTATATAAGTGTGTGTGAGTTGTGAT 58.468 33.333 0.00 0.00 0.00 3.06
2756 5707 1.639298 GCAAAGCCCTAGTCGTGCTG 61.639 60.000 0.00 0.00 35.08 4.41
2831 5793 8.252417 TCATATGCTTGTAGGTTTTTCGTACTA 58.748 33.333 0.00 0.00 38.00 1.82
2832 5794 7.101054 TCATATGCTTGTAGGTTTTTCGTACT 58.899 34.615 0.00 0.00 38.00 2.73
2833 5795 7.298507 TCATATGCTTGTAGGTTTTTCGTAC 57.701 36.000 0.00 0.00 37.75 3.67
2930 5892 2.608506 GCCGGCCGTCTGTTAAATTTTT 60.609 45.455 26.12 0.00 0.00 1.94
2955 5917 4.990426 ACAACAATCAGTTTGGCAATTAGC 59.010 37.500 0.00 0.00 38.74 3.09
2960 5922 2.093816 TGCACAACAATCAGTTTGGCAA 60.094 40.909 0.00 0.00 41.21 4.52
2963 5925 4.553156 GCAAATGCACAACAATCAGTTTGG 60.553 41.667 0.00 0.00 38.65 3.28
2964 5926 4.520078 GCAAATGCACAACAATCAGTTTG 58.480 39.130 0.00 0.00 38.65 2.93
2965 5927 4.799419 GCAAATGCACAACAATCAGTTT 57.201 36.364 0.00 0.00 38.65 2.66
3351 6313 4.615834 GCGCCGTTGCAACCGAAA 62.616 61.111 25.82 0.00 37.32 3.46
3640 6608 5.828328 AGAAAACTTCCAGAAACCCTAACAG 59.172 40.000 0.00 0.00 0.00 3.16
3652 6620 7.155328 TCTCTAGCACTAAAGAAAACTTCCAG 58.845 38.462 0.00 0.00 0.00 3.86
3671 6639 7.307514 CGATAGTACTGCTAACCACTTCTCTAG 60.308 44.444 5.39 0.00 32.72 2.43
3677 6645 5.009811 GGATCGATAGTACTGCTAACCACTT 59.990 44.000 5.39 0.00 32.72 3.16
3919 6906 5.123979 CCCAGCCATTGTTCTTACTCTTTAC 59.876 44.000 0.00 0.00 0.00 2.01
3920 6907 5.222048 ACCCAGCCATTGTTCTTACTCTTTA 60.222 40.000 0.00 0.00 0.00 1.85
3921 6908 4.082125 CCCAGCCATTGTTCTTACTCTTT 58.918 43.478 0.00 0.00 0.00 2.52
3925 6912 3.622455 GCTACCCAGCCATTGTTCTTACT 60.622 47.826 0.00 0.00 42.37 2.24
3927 6914 2.999331 GCTACCCAGCCATTGTTCTTA 58.001 47.619 0.00 0.00 42.37 2.10
3940 7318 0.044092 TCATCCTCCCTTGCTACCCA 59.956 55.000 0.00 0.00 0.00 4.51
4023 7407 2.949451 TGACTCGAGCAGGAAAGATC 57.051 50.000 13.61 0.00 0.00 2.75
4059 7443 4.828409 ACGGAGGGAGTACGTTGA 57.172 55.556 0.00 0.00 37.61 3.18
4079 7463 6.660094 ACCAAACCTTATATGCGGACTAAAAA 59.340 34.615 0.00 0.00 0.00 1.94
4080 7464 6.181908 ACCAAACCTTATATGCGGACTAAAA 58.818 36.000 0.00 0.00 0.00 1.52
4082 7466 5.104859 TGACCAAACCTTATATGCGGACTAA 60.105 40.000 0.00 0.00 0.00 2.24
4083 7467 4.406326 TGACCAAACCTTATATGCGGACTA 59.594 41.667 0.00 0.00 0.00 2.59
4084 7468 3.199071 TGACCAAACCTTATATGCGGACT 59.801 43.478 0.00 0.00 0.00 3.85
4086 7470 3.916359 TGACCAAACCTTATATGCGGA 57.084 42.857 0.00 0.00 0.00 5.54
4087 7471 4.398044 ACTTTGACCAAACCTTATATGCGG 59.602 41.667 0.00 0.00 0.00 5.69
4088 7472 5.123186 TGACTTTGACCAAACCTTATATGCG 59.877 40.000 0.00 0.00 0.00 4.73
4090 7474 7.029563 GCTTGACTTTGACCAAACCTTATATG 58.970 38.462 0.00 0.00 0.00 1.78
4092 7476 6.303839 AGCTTGACTTTGACCAAACCTTATA 58.696 36.000 0.00 0.00 0.00 0.98
4093 7477 5.140454 AGCTTGACTTTGACCAAACCTTAT 58.860 37.500 0.00 0.00 0.00 1.73
4094 7478 4.532834 AGCTTGACTTTGACCAAACCTTA 58.467 39.130 0.00 0.00 0.00 2.69
4095 7479 3.365472 AGCTTGACTTTGACCAAACCTT 58.635 40.909 0.00 0.00 0.00 3.50
4107 7491 6.116126 AGTCAAACTCTACAAAGCTTGACTT 58.884 36.000 13.94 3.16 41.70 3.01
4108 7492 5.675538 AGTCAAACTCTACAAAGCTTGACT 58.324 37.500 13.94 13.94 0.00 3.41
4109 7493 5.993106 AGTCAAACTCTACAAAGCTTGAC 57.007 39.130 0.00 10.63 0.00 3.18
4110 7494 7.272978 AGTTAGTCAAACTCTACAAAGCTTGA 58.727 34.615 0.00 0.00 45.64 3.02
4111 7495 7.484035 AGTTAGTCAAACTCTACAAAGCTTG 57.516 36.000 0.00 0.00 45.64 4.01
4164 7548 9.734984 TGATGCATCTGATAGTATTGATTTCAT 57.265 29.630 26.32 9.10 0.00 2.57
4165 7549 9.734984 ATGATGCATCTGATAGTATTGATTTCA 57.265 29.630 26.32 2.34 0.00 2.69
4166 7550 9.989869 CATGATGCATCTGATAGTATTGATTTC 57.010 33.333 26.32 0.00 0.00 2.17
4167 7551 9.734984 TCATGATGCATCTGATAGTATTGATTT 57.265 29.630 26.32 0.00 0.00 2.17
4168 7552 9.734984 TTCATGATGCATCTGATAGTATTGATT 57.265 29.630 26.32 0.00 0.00 2.57
4169 7553 9.734984 TTTCATGATGCATCTGATAGTATTGAT 57.265 29.630 26.32 5.19 0.00 2.57
4170 7554 8.996271 GTTTCATGATGCATCTGATAGTATTGA 58.004 33.333 26.32 12.12 0.00 2.57
4171 7555 7.955864 CGTTTCATGATGCATCTGATAGTATTG 59.044 37.037 26.32 10.34 0.00 1.90
4174 7558 6.515832 ACGTTTCATGATGCATCTGATAGTA 58.484 36.000 26.32 5.68 0.00 1.82
4176 7560 5.919272 ACGTTTCATGATGCATCTGATAG 57.081 39.130 26.32 19.39 0.00 2.08
4177 7561 7.967890 AATACGTTTCATGATGCATCTGATA 57.032 32.000 26.32 17.86 0.00 2.15
4178 7562 6.872628 AATACGTTTCATGATGCATCTGAT 57.127 33.333 26.32 10.77 0.00 2.90
4180 7564 7.372634 GAAAATACGTTTCATGATGCATCTG 57.627 36.000 26.32 20.36 44.42 2.90
4249 7633 9.930693 AAACTACACAAAGTTTGACCAAATTTA 57.069 25.926 22.23 0.00 45.60 1.40
4250 7634 8.840833 AAACTACACAAAGTTTGACCAAATTT 57.159 26.923 22.23 11.30 45.60 1.82
4251 7635 9.930693 TTAAACTACACAAAGTTTGACCAAATT 57.069 25.926 22.23 11.66 46.49 1.82
4252 7636 9.361315 GTTAAACTACACAAAGTTTGACCAAAT 57.639 29.630 22.23 5.39 46.49 2.32
4253 7637 8.745464 GTTAAACTACACAAAGTTTGACCAAA 57.255 30.769 22.23 2.34 46.49 3.28
4259 7643 8.856247 GGTCAAAGTTAAACTACACAAAGTTTG 58.144 33.333 14.13 14.13 46.49 2.93
4261 7645 8.113173 TGGTCAAAGTTAAACTACACAAAGTT 57.887 30.769 0.00 0.00 41.46 2.66
4262 7646 7.690952 TGGTCAAAGTTAAACTACACAAAGT 57.309 32.000 0.00 0.00 0.00 2.66
4263 7647 8.973835 TTTGGTCAAAGTTAAACTACACAAAG 57.026 30.769 0.00 0.00 0.00 2.77
4264 7648 9.575783 GATTTGGTCAAAGTTAAACTACACAAA 57.424 29.630 2.55 0.00 33.32 2.83
4265 7649 8.962679 AGATTTGGTCAAAGTTAAACTACACAA 58.037 29.630 2.55 0.00 33.32 3.33
4266 7650 8.514330 AGATTTGGTCAAAGTTAAACTACACA 57.486 30.769 2.55 0.00 33.32 3.72
4276 7660 9.326413 CTCCGTATATAAGATTTGGTCAAAGTT 57.674 33.333 2.55 1.84 33.32 2.66
4277 7661 8.483758 ACTCCGTATATAAGATTTGGTCAAAGT 58.516 33.333 2.55 0.00 33.32 2.66
4289 7673 9.520204 CCGTTTCTTTTTACTCCGTATATAAGA 57.480 33.333 0.00 0.00 0.00 2.10
4290 7674 9.520204 TCCGTTTCTTTTTACTCCGTATATAAG 57.480 33.333 0.00 0.00 0.00 1.73
4292 7676 8.137437 CCTCCGTTTCTTTTTACTCCGTATATA 58.863 37.037 0.00 0.00 0.00 0.86
4293 7677 6.982724 CCTCCGTTTCTTTTTACTCCGTATAT 59.017 38.462 0.00 0.00 0.00 0.86
4296 7680 4.559153 CCTCCGTTTCTTTTTACTCCGTA 58.441 43.478 0.00 0.00 0.00 4.02
4297 7681 3.396560 CCTCCGTTTCTTTTTACTCCGT 58.603 45.455 0.00 0.00 0.00 4.69
4298 7682 2.740447 CCCTCCGTTTCTTTTTACTCCG 59.260 50.000 0.00 0.00 0.00 4.63
4299 7683 4.001652 CTCCCTCCGTTTCTTTTTACTCC 58.998 47.826 0.00 0.00 0.00 3.85
4300 7684 4.639334 ACTCCCTCCGTTTCTTTTTACTC 58.361 43.478 0.00 0.00 0.00 2.59
4301 7685 4.701651 ACTCCCTCCGTTTCTTTTTACT 57.298 40.909 0.00 0.00 0.00 2.24
4303 7687 4.898320 GGTACTCCCTCCGTTTCTTTTTA 58.102 43.478 0.00 0.00 0.00 1.52
4304 7688 3.748083 GGTACTCCCTCCGTTTCTTTTT 58.252 45.455 0.00 0.00 0.00 1.94
4318 7702 0.321298 TGCGCAGAAAAGGGTACTCC 60.321 55.000 5.66 0.00 0.00 3.85
4320 7704 1.523758 CTTGCGCAGAAAAGGGTACT 58.476 50.000 11.31 0.00 0.00 2.73
4341 7745 4.525100 GGAAATGTTTAGGTTGGGCTGTAA 59.475 41.667 0.00 0.00 0.00 2.41
4407 7811 7.234782 TGTCCTCTATGTTTTCTGTTTCTAGGA 59.765 37.037 0.00 0.00 0.00 2.94
4416 7820 5.180117 CCAGTTGTGTCCTCTATGTTTTCTG 59.820 44.000 0.00 0.00 0.00 3.02
4435 7841 3.775316 CAGTAGTATCCCAAGACCCAGTT 59.225 47.826 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.