Multiple sequence alignment - TraesCS1B01G259500

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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 TraesCS1B01G259500 chr1B 100.000 4389 0 0 1 4389 456978186 456973798 0.000000e+00 8106.0
1 TraesCS1B01G259500 chr1D 94.988 2075 104 0 1550 3624 341239710 341237636 0.000000e+00 3256.0
2 TraesCS1B01G259500 chr1D 89.720 321 33 0 1167 1487 341240290 341239970 1.140000e-110 411.0
3 TraesCS1B01G259500 chr1D 85.981 321 35 6 847 1162 341240655 341240340 7.030000e-88 335.0
4 TraesCS1B01G259500 chr1D 78.295 387 34 24 230 572 341241376 341240996 2.070000e-48 204.0
5 TraesCS1B01G259500 chr1D 93.750 48 3 0 30 77 166630737 166630784 6.090000e-09 73.1
6 TraesCS1B01G259500 chr1A 94.724 2066 105 1 1559 3624 440888488 440886427 0.000000e+00 3208.0
7 TraesCS1B01G259500 chr1A 89.443 682 34 14 1 660 440890449 440889784 0.000000e+00 826.0
8 TraesCS1B01G259500 chr1A 89.408 321 34 0 1167 1487 440889087 440888767 5.290000e-109 405.0
9 TraesCS1B01G259500 chr1A 83.960 399 40 6 769 1148 440889547 440889154 1.160000e-95 361.0
10 TraesCS1B01G259500 chr1A 88.073 218 26 0 1994 2211 440881623 440881406 4.350000e-65 259.0
11 TraesCS1B01G259500 chr1A 88.571 105 12 0 668 772 527083913 527084017 1.280000e-25 128.0
12 TraesCS1B01G259500 chr4A 99.350 769 3 2 3623 4389 594423843 594424611 0.000000e+00 1391.0
13 TraesCS1B01G259500 chr4A 99.220 769 4 2 3623 4389 456471231 456471999 0.000000e+00 1386.0
14 TraesCS1B01G259500 chr4A 98.830 769 7 2 3623 4389 617368689 617367921 0.000000e+00 1369.0
15 TraesCS1B01G259500 chr4A 94.340 53 3 0 25 77 613419902 613419954 1.010000e-11 82.4
16 TraesCS1B01G259500 chr5B 99.349 768 4 1 3623 4389 633758021 633757254 0.000000e+00 1389.0
17 TraesCS1B01G259500 chr4B 99.220 769 4 2 3623 4389 13405261 13404493 0.000000e+00 1386.0
18 TraesCS1B01G259500 chr4B 99.219 768 4 2 3624 4389 551231047 551231814 0.000000e+00 1384.0
19 TraesCS1B01G259500 chr4B 91.919 99 7 1 682 779 633769868 633769966 2.130000e-28 137.0
20 TraesCS1B01G259500 chr4B 95.556 45 2 0 30 74 18648752 18648796 6.090000e-09 73.1
21 TraesCS1B01G259500 chr2B 99.220 769 4 2 3623 4389 160700265 160699497 0.000000e+00 1386.0
22 TraesCS1B01G259500 chr2B 95.455 88 4 0 684 771 239852697 239852610 1.650000e-29 141.0
23 TraesCS1B01G259500 chr6A 98.961 770 6 2 3622 4389 445569977 445569208 0.000000e+00 1376.0
24 TraesCS1B01G259500 chr6A 90.278 72 6 1 21 91 19884180 19884251 4.670000e-15 93.5
25 TraesCS1B01G259500 chr5A 97.719 789 13 4 3605 4389 2819336 2820123 0.000000e+00 1352.0
26 TraesCS1B01G259500 chr7B 93.478 92 6 0 683 774 428966840 428966931 2.130000e-28 137.0
27 TraesCS1B01G259500 chr7B 94.231 52 3 0 26 77 54323349 54323400 3.640000e-11 80.5
28 TraesCS1B01G259500 chr2D 90.722 97 9 0 674 770 128890627 128890723 3.560000e-26 130.0
29 TraesCS1B01G259500 chr2D 93.548 62 4 0 30 91 57902676 57902737 4.670000e-15 93.5
30 TraesCS1B01G259500 chr2D 90.323 62 2 1 30 91 572051646 572051589 1.310000e-10 78.7
31 TraesCS1B01G259500 chr2A 90.099 101 8 2 673 772 361381716 361381617 3.560000e-26 130.0
32 TraesCS1B01G259500 chr2A 90.625 96 9 0 677 772 65084909 65084814 1.280000e-25 128.0
33 TraesCS1B01G259500 chr6B 86.325 117 15 1 656 772 670367640 670367525 4.610000e-25 126.0
34 TraesCS1B01G259500 chr3B 89.216 102 9 2 671 772 372246284 372246383 4.610000e-25 126.0
35 TraesCS1B01G259500 chr5D 94.118 51 3 0 27 77 450211004 450211054 1.310000e-10 78.7
36 TraesCS1B01G259500 chr3D 95.833 48 2 0 30 77 346970423 346970470 1.310000e-10 78.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G259500 chr1B 456973798 456978186 4388 True 8106.0 8106 100.00000 1 4389 1 chr1B.!!$R1 4388
1 TraesCS1B01G259500 chr1D 341237636 341241376 3740 True 1051.5 3256 87.24600 230 3624 4 chr1D.!!$R1 3394
2 TraesCS1B01G259500 chr1A 440886427 440890449 4022 True 1200.0 3208 89.38375 1 3624 4 chr1A.!!$R2 3623
3 TraesCS1B01G259500 chr4A 594423843 594424611 768 False 1391.0 1391 99.35000 3623 4389 1 chr4A.!!$F2 766
4 TraesCS1B01G259500 chr4A 456471231 456471999 768 False 1386.0 1386 99.22000 3623 4389 1 chr4A.!!$F1 766
5 TraesCS1B01G259500 chr4A 617367921 617368689 768 True 1369.0 1369 98.83000 3623 4389 1 chr4A.!!$R1 766
6 TraesCS1B01G259500 chr5B 633757254 633758021 767 True 1389.0 1389 99.34900 3623 4389 1 chr5B.!!$R1 766
7 TraesCS1B01G259500 chr4B 13404493 13405261 768 True 1386.0 1386 99.22000 3623 4389 1 chr4B.!!$R1 766
8 TraesCS1B01G259500 chr4B 551231047 551231814 767 False 1384.0 1384 99.21900 3624 4389 1 chr4B.!!$F2 765
9 TraesCS1B01G259500 chr2B 160699497 160700265 768 True 1386.0 1386 99.22000 3623 4389 1 chr2B.!!$R1 766
10 TraesCS1B01G259500 chr6A 445569208 445569977 769 True 1376.0 1376 98.96100 3622 4389 1 chr6A.!!$R1 767
11 TraesCS1B01G259500 chr5A 2819336 2820123 787 False 1352.0 1352 97.71900 3605 4389 1 chr5A.!!$F1 784

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
228 240 0.179056 ACCTGTCCTGTTGTCCAACG 60.179 55.0 5.75 1.44 43.94 4.10 F
1271 1765 0.035056 GGTTCAGGCAGTGGCAGTAT 60.035 55.0 20.04 0.00 43.71 2.12 F
2107 2812 0.886490 AAGAACACAGGCTTGGAGCG 60.886 55.0 0.00 0.00 43.62 5.03 F
2476 3181 0.526524 CGCTAAGTTCGGAGCTGGAG 60.527 60.0 0.00 0.00 36.50 3.86 F
2539 3244 0.605319 TGGCGTCCATCACAGTTTCC 60.605 55.0 0.00 0.00 0.00 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2077 2782 0.101579 TGTGTTCTTCTGCGTCGTGA 59.898 50.000 0.00 0.0 0.00 4.35 R
2464 3169 0.039764 TCTCCTTCTCCAGCTCCGAA 59.960 55.000 0.00 0.0 0.00 4.30 R
3145 3850 1.268743 GCTTTTCGAAGCTGCTTGTGT 60.269 47.619 21.25 0.0 42.32 3.72 R
3337 4042 1.506028 GGGTGGACATCTGGGGGAAA 61.506 60.000 0.00 0.0 0.00 3.13 R
4332 5038 6.893005 TCTGGAAAGTTAAGGTTCCTTTGAAA 59.107 34.615 9.46 0.0 43.24 2.69 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
26 27 5.414454 TGGAACTCATACATTAGCAACCAAC 59.586 40.000 0.00 0.00 0.00 3.77
48 53 2.289565 GCTCCCTCCGTTCCAAAATAG 58.710 52.381 0.00 0.00 0.00 1.73
51 56 2.093869 TCCCTCCGTTCCAAAATAGTCG 60.094 50.000 0.00 0.00 0.00 4.18
53 58 2.928116 CCTCCGTTCCAAAATAGTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
69 81 4.183101 AGTCGTCGTGGTTTTAGTTCAAA 58.817 39.130 0.00 0.00 0.00 2.69
73 85 5.966503 TCGTCGTGGTTTTAGTTCAAATTTG 59.033 36.000 12.15 12.15 0.00 2.32
74 86 5.966503 CGTCGTGGTTTTAGTTCAAATTTGA 59.033 36.000 16.91 16.91 34.92 2.69
75 87 6.469595 CGTCGTGGTTTTAGTTCAAATTTGAA 59.530 34.615 26.01 26.01 44.31 2.69
111 123 3.064931 GGAACGGAGGTTGTAGTTTCTG 58.935 50.000 0.00 0.00 36.24 3.02
118 130 5.347907 CGGAGGTTGTAGTTTCTGTTATGTC 59.652 44.000 0.00 0.00 0.00 3.06
119 131 5.347907 GGAGGTTGTAGTTTCTGTTATGTCG 59.652 44.000 0.00 0.00 0.00 4.35
120 132 5.850614 AGGTTGTAGTTTCTGTTATGTCGT 58.149 37.500 0.00 0.00 0.00 4.34
121 133 6.285990 AGGTTGTAGTTTCTGTTATGTCGTT 58.714 36.000 0.00 0.00 0.00 3.85
122 134 7.436118 AGGTTGTAGTTTCTGTTATGTCGTTA 58.564 34.615 0.00 0.00 0.00 3.18
123 135 7.927629 AGGTTGTAGTTTCTGTTATGTCGTTAA 59.072 33.333 0.00 0.00 0.00 2.01
124 136 8.006027 GGTTGTAGTTTCTGTTATGTCGTTAAC 58.994 37.037 0.00 0.00 33.56 2.01
125 137 8.758715 GTTGTAGTTTCTGTTATGTCGTTAACT 58.241 33.333 3.71 0.00 33.99 2.24
126 138 8.511465 TGTAGTTTCTGTTATGTCGTTAACTC 57.489 34.615 3.71 0.00 33.99 3.01
158 170 6.926826 TCATTTGATTTGATTGATAGGCATGC 59.073 34.615 9.90 9.90 0.00 4.06
190 202 7.755582 TCATCTTTACATGATATATTCCGCG 57.244 36.000 0.00 0.00 0.00 6.46
193 205 6.097356 TCTTTACATGATATATTCCGCGGTC 58.903 40.000 27.15 14.87 0.00 4.79
226 238 0.465460 GCACCTGTCCTGTTGTCCAA 60.465 55.000 0.00 0.00 0.00 3.53
227 239 1.308998 CACCTGTCCTGTTGTCCAAC 58.691 55.000 3.21 3.21 41.50 3.77
228 240 0.179056 ACCTGTCCTGTTGTCCAACG 60.179 55.000 5.75 1.44 43.94 4.10
295 309 0.462759 GGATGGCCAGAAGAAGACCG 60.463 60.000 13.05 0.00 0.00 4.79
316 335 2.292569 GCATGGATTTCATCGACTGCAT 59.707 45.455 0.00 0.00 32.92 3.96
325 344 9.155975 GGATTTCATCGACTGCATATATAGTTT 57.844 33.333 0.00 0.00 0.00 2.66
332 351 6.202762 TCGACTGCATATATAGTTTTTGGCTG 59.797 38.462 0.00 0.00 0.00 4.85
454 500 1.334689 CGTCGCCTTTCCCTTTTGTTC 60.335 52.381 0.00 0.00 0.00 3.18
531 579 1.425066 TGCAGGGATGAAAAGGTCAGT 59.575 47.619 0.00 0.00 40.43 3.41
538 586 4.223032 GGGATGAAAAGGTCAGTCTGTAGA 59.777 45.833 0.00 0.00 40.43 2.59
544 592 4.559862 AAGGTCAGTCTGTAGAAATGGG 57.440 45.455 0.00 0.00 0.00 4.00
560 608 1.423584 TGGGTGACGATCATAGCCAT 58.576 50.000 7.46 0.00 37.09 4.40
581 639 9.632638 AGCCATTATAGAAACATGTCATAGTTT 57.367 29.630 0.00 11.01 40.38 2.66
690 1057 7.671495 ATTGTTGAAAATTGGCAAATACTCC 57.329 32.000 3.01 0.00 0.00 3.85
691 1058 5.546526 TGTTGAAAATTGGCAAATACTCCC 58.453 37.500 3.01 0.00 0.00 4.30
692 1059 5.306678 TGTTGAAAATTGGCAAATACTCCCT 59.693 36.000 3.01 0.00 0.00 4.20
693 1060 5.659440 TGAAAATTGGCAAATACTCCCTC 57.341 39.130 3.01 0.00 0.00 4.30
694 1061 5.332743 TGAAAATTGGCAAATACTCCCTCT 58.667 37.500 3.01 0.00 0.00 3.69
695 1062 5.185635 TGAAAATTGGCAAATACTCCCTCTG 59.814 40.000 3.01 0.00 0.00 3.35
696 1063 4.322057 AATTGGCAAATACTCCCTCTGT 57.678 40.909 3.01 0.00 0.00 3.41
697 1064 5.450818 AATTGGCAAATACTCCCTCTGTA 57.549 39.130 3.01 0.00 0.00 2.74
698 1065 4.919774 TTGGCAAATACTCCCTCTGTAA 57.080 40.909 0.00 0.00 0.00 2.41
699 1066 4.919774 TGGCAAATACTCCCTCTGTAAA 57.080 40.909 0.00 0.00 0.00 2.01
700 1067 4.843728 TGGCAAATACTCCCTCTGTAAAG 58.156 43.478 0.00 0.00 0.00 1.85
701 1068 4.534500 TGGCAAATACTCCCTCTGTAAAGA 59.466 41.667 0.00 0.00 0.00 2.52
702 1069 5.013704 TGGCAAATACTCCCTCTGTAAAGAA 59.986 40.000 0.00 0.00 0.00 2.52
703 1070 5.944007 GGCAAATACTCCCTCTGTAAAGAAA 59.056 40.000 0.00 0.00 0.00 2.52
704 1071 6.603599 GGCAAATACTCCCTCTGTAAAGAAAT 59.396 38.462 0.00 0.00 0.00 2.17
705 1072 7.773690 GGCAAATACTCCCTCTGTAAAGAAATA 59.226 37.037 0.00 0.00 0.00 1.40
706 1073 9.343539 GCAAATACTCCCTCTGTAAAGAAATAT 57.656 33.333 0.00 0.00 0.00 1.28
712 1079 8.425703 ACTCCCTCTGTAAAGAAATATAAGAGC 58.574 37.037 0.00 0.00 0.00 4.09
713 1080 7.434492 TCCCTCTGTAAAGAAATATAAGAGCG 58.566 38.462 0.00 0.00 0.00 5.03
714 1081 7.069578 TCCCTCTGTAAAGAAATATAAGAGCGT 59.930 37.037 0.00 0.00 0.00 5.07
715 1082 8.358148 CCCTCTGTAAAGAAATATAAGAGCGTA 58.642 37.037 0.00 0.00 0.00 4.42
716 1083 9.915629 CCTCTGTAAAGAAATATAAGAGCGTAT 57.084 33.333 0.00 0.00 0.00 3.06
731 1098 7.772332 AAGAGCGTATAAATCACTACTTTGG 57.228 36.000 0.00 0.00 0.00 3.28
732 1099 5.753921 AGAGCGTATAAATCACTACTTTGGC 59.246 40.000 0.00 0.00 0.00 4.52
733 1100 4.506654 AGCGTATAAATCACTACTTTGGCG 59.493 41.667 0.00 0.00 0.00 5.69
734 1101 4.505191 GCGTATAAATCACTACTTTGGCGA 59.495 41.667 0.00 0.00 0.00 5.54
735 1102 5.176958 GCGTATAAATCACTACTTTGGCGAT 59.823 40.000 0.00 0.00 0.00 4.58
736 1103 6.615839 GCGTATAAATCACTACTTTGGCGATC 60.616 42.308 0.00 0.00 0.00 3.69
737 1104 6.641314 CGTATAAATCACTACTTTGGCGATCT 59.359 38.462 0.00 0.00 0.00 2.75
738 1105 7.806487 CGTATAAATCACTACTTTGGCGATCTA 59.194 37.037 0.00 0.00 0.00 1.98
739 1106 9.472361 GTATAAATCACTACTTTGGCGATCTAA 57.528 33.333 0.00 0.00 0.00 2.10
740 1107 8.958119 ATAAATCACTACTTTGGCGATCTAAA 57.042 30.769 0.00 0.00 0.00 1.85
741 1108 6.663944 AATCACTACTTTGGCGATCTAAAC 57.336 37.500 0.00 0.00 0.00 2.01
742 1109 5.401531 TCACTACTTTGGCGATCTAAACT 57.598 39.130 0.00 0.00 0.00 2.66
743 1110 5.408356 TCACTACTTTGGCGATCTAAACTC 58.592 41.667 0.00 0.00 0.00 3.01
744 1111 5.185249 TCACTACTTTGGCGATCTAAACTCT 59.815 40.000 0.00 0.00 0.00 3.24
745 1112 5.517054 CACTACTTTGGCGATCTAAACTCTC 59.483 44.000 0.00 0.00 0.00 3.20
746 1113 4.810191 ACTTTGGCGATCTAAACTCTCT 57.190 40.909 0.00 0.00 0.00 3.10
747 1114 5.153950 ACTTTGGCGATCTAAACTCTCTT 57.846 39.130 0.00 0.00 0.00 2.85
748 1115 6.282199 ACTTTGGCGATCTAAACTCTCTTA 57.718 37.500 0.00 0.00 0.00 2.10
749 1116 6.879400 ACTTTGGCGATCTAAACTCTCTTAT 58.121 36.000 0.00 0.00 0.00 1.73
750 1117 8.008513 ACTTTGGCGATCTAAACTCTCTTATA 57.991 34.615 0.00 0.00 0.00 0.98
751 1118 8.643324 ACTTTGGCGATCTAAACTCTCTTATAT 58.357 33.333 0.00 0.00 0.00 0.86
752 1119 9.482627 CTTTGGCGATCTAAACTCTCTTATATT 57.517 33.333 0.00 0.00 0.00 1.28
753 1120 9.832445 TTTGGCGATCTAAACTCTCTTATATTT 57.168 29.630 0.00 0.00 0.00 1.40
754 1121 9.477484 TTGGCGATCTAAACTCTCTTATATTTC 57.523 33.333 0.00 0.00 0.00 2.17
755 1122 8.861086 TGGCGATCTAAACTCTCTTATATTTCT 58.139 33.333 0.00 0.00 0.00 2.52
756 1123 9.699703 GGCGATCTAAACTCTCTTATATTTCTT 57.300 33.333 0.00 0.00 0.00 2.52
764 1131 9.819267 AAACTCTCTTATATTTCTTTACGGAGG 57.181 33.333 0.00 0.00 0.00 4.30
765 1132 7.953752 ACTCTCTTATATTTCTTTACGGAGGG 58.046 38.462 0.00 0.00 0.00 4.30
766 1133 7.783596 ACTCTCTTATATTTCTTTACGGAGGGA 59.216 37.037 0.00 0.00 0.00 4.20
767 1134 8.179509 TCTCTTATATTTCTTTACGGAGGGAG 57.820 38.462 0.00 0.00 0.00 4.30
768 1135 7.783596 TCTCTTATATTTCTTTACGGAGGGAGT 59.216 37.037 0.00 0.00 0.00 3.85
769 1136 9.075678 CTCTTATATTTCTTTACGGAGGGAGTA 57.924 37.037 0.00 0.00 0.00 2.59
770 1137 8.854117 TCTTATATTTCTTTACGGAGGGAGTAC 58.146 37.037 0.00 0.00 0.00 2.73
771 1138 8.773033 TTATATTTCTTTACGGAGGGAGTACT 57.227 34.615 0.00 0.00 0.00 2.73
772 1139 5.595257 ATTTCTTTACGGAGGGAGTACTC 57.405 43.478 14.87 14.87 36.76 2.59
783 1150 4.158209 GGAGGGAGTACTCTACAACACTTC 59.842 50.000 21.88 9.25 37.63 3.01
821 1188 7.276658 CGTTCTCACAGCTTATTTTCTCTGTAT 59.723 37.037 0.00 0.00 37.66 2.29
822 1189 8.940952 GTTCTCACAGCTTATTTTCTCTGTATT 58.059 33.333 0.00 0.00 37.66 1.89
836 1203 5.918608 TCTCTGTATTATGTGGAGGCTTTC 58.081 41.667 0.00 0.00 0.00 2.62
845 1270 1.947456 GTGGAGGCTTTCGTTTGTCTT 59.053 47.619 0.00 0.00 0.00 3.01
881 1323 4.705023 GGCTTTGCCTTCACCTTCTATAAA 59.295 41.667 0.73 0.00 46.69 1.40
882 1324 5.185056 GGCTTTGCCTTCACCTTCTATAAAA 59.815 40.000 0.73 0.00 46.69 1.52
894 1336 4.035675 CCTTCTATAAAAGCTTTGCCCTCG 59.964 45.833 13.54 0.08 0.00 4.63
952 1395 4.996788 AAAAGGCTAATCCTGCTGAATG 57.003 40.909 0.00 0.00 46.94 2.67
970 1413 4.394920 TGAATGCAATAAAACGAGAGGACC 59.605 41.667 0.00 0.00 0.00 4.46
975 1418 4.566004 CAATAAAACGAGAGGACCTGTGA 58.434 43.478 0.00 0.00 0.00 3.58
976 1419 2.821991 AAAACGAGAGGACCTGTGAG 57.178 50.000 0.00 0.00 0.00 3.51
977 1420 0.318762 AAACGAGAGGACCTGTGAGC 59.681 55.000 0.00 0.00 0.00 4.26
980 1423 1.217779 GAGAGGACCTGTGAGCAGC 59.782 63.158 0.00 0.00 41.26 5.25
1009 1452 6.422701 CGATTTATCCGCTAACATGGAAACTA 59.577 38.462 0.00 0.00 37.90 2.24
1010 1453 7.117812 CGATTTATCCGCTAACATGGAAACTAT 59.882 37.037 0.00 0.00 37.90 2.12
1025 1468 4.854291 GGAAACTATCGATAGCACTCATCG 59.146 45.833 28.37 6.66 45.17 3.84
1092 1538 5.987953 TCTTGCAGAAAATCTAGATCCATCG 59.012 40.000 5.51 0.00 0.00 3.84
1111 1557 4.749245 TCGTTGGAGATTCAAGAAAAGC 57.251 40.909 0.00 0.00 0.00 3.51
1134 1580 2.092968 ACCTCACAACTTGACAGAGCAA 60.093 45.455 0.00 0.00 0.00 3.91
1149 1595 4.070716 CAGAGCAACAGGAGAACTTGAAT 58.929 43.478 0.00 0.00 0.00 2.57
1153 1599 3.125316 GCAACAGGAGAACTTGAATACCG 59.875 47.826 0.00 0.00 0.00 4.02
1154 1600 4.315803 CAACAGGAGAACTTGAATACCGT 58.684 43.478 0.00 0.00 0.00 4.83
1162 1608 5.476614 AGAACTTGAATACCGTTGTAGGTC 58.523 41.667 0.00 0.00 44.68 3.85
1163 1609 5.245526 AGAACTTGAATACCGTTGTAGGTCT 59.754 40.000 0.00 0.00 44.68 3.85
1164 1610 6.435277 AGAACTTGAATACCGTTGTAGGTCTA 59.565 38.462 0.00 0.00 44.68 2.59
1165 1611 6.205101 ACTTGAATACCGTTGTAGGTCTAG 57.795 41.667 0.00 0.00 44.68 2.43
1204 1698 3.726291 TGAACGACAAGACAGATGACA 57.274 42.857 0.00 0.00 0.00 3.58
1265 1759 1.278985 TGATAGTGGTTCAGGCAGTGG 59.721 52.381 0.00 0.00 0.00 4.00
1271 1765 0.035056 GGTTCAGGCAGTGGCAGTAT 60.035 55.000 20.04 0.00 43.71 2.12
1272 1766 1.209504 GGTTCAGGCAGTGGCAGTATA 59.790 52.381 20.04 0.00 43.71 1.47
1310 1804 6.039382 GCAAGAAAATCTAACGGGGACAATAT 59.961 38.462 0.00 0.00 0.00 1.28
1319 1813 2.978978 ACGGGGACAATATGGATCATCA 59.021 45.455 0.00 0.00 0.00 3.07
1320 1814 3.588842 ACGGGGACAATATGGATCATCAT 59.411 43.478 0.00 0.00 0.00 2.45
1323 1817 4.338012 GGGACAATATGGATCATCATGCA 58.662 43.478 0.00 0.00 34.38 3.96
1355 1849 2.025887 CCACCCCAAATAAGAGAGCAGT 60.026 50.000 0.00 0.00 0.00 4.40
1380 1874 2.171003 GAAAGCAGGCCATACAAAGGT 58.829 47.619 5.01 0.00 0.00 3.50
1389 1883 3.763897 GGCCATACAAAGGTCTTGTTGAT 59.236 43.478 0.00 0.00 34.11 2.57
1425 1919 4.689612 TGAGTCTGTTAAAGAGGCTGTT 57.310 40.909 0.00 0.00 34.84 3.16
1466 1960 5.129634 TGTTGACTGGAAAGCATACAGAAA 58.870 37.500 8.61 0.92 36.17 2.52
1467 1961 5.769662 TGTTGACTGGAAAGCATACAGAAAT 59.230 36.000 8.61 0.00 36.17 2.17
1474 1968 7.611467 ACTGGAAAGCATACAGAAATCATACAA 59.389 33.333 8.61 0.00 36.17 2.41
1539 2149 7.878127 ACTTTTGTGTTGTAGACTACTGCATAT 59.122 33.333 13.67 0.00 38.42 1.78
1540 2150 9.366216 CTTTTGTGTTGTAGACTACTGCATATA 57.634 33.333 13.67 4.23 38.42 0.86
1634 2339 5.248870 ACAAGACATTCCACAAGTCAAAC 57.751 39.130 0.00 0.00 34.80 2.93
1693 2398 1.062880 GTCGAGGAGCTAGAGACAACG 59.937 57.143 0.00 0.00 32.57 4.10
1699 2404 3.827302 AGGAGCTAGAGACAACGAAAAGA 59.173 43.478 0.00 0.00 0.00 2.52
1736 2441 1.297456 GCACAAGCTGGAGAGAGCAC 61.297 60.000 0.00 0.00 41.83 4.40
1747 2452 2.563179 GGAGAGAGCACAGGTTGAACTA 59.437 50.000 0.00 0.00 0.00 2.24
1822 2527 0.982852 TGGGGATCGACAATGGAGCT 60.983 55.000 0.00 0.00 0.00 4.09
1905 2610 2.625639 ACTGAAGATGGTCAAGGAGGT 58.374 47.619 0.00 0.00 0.00 3.85
1936 2641 3.906720 ACACAAGAACAGTACACCACT 57.093 42.857 0.00 0.00 38.32 4.00
1940 2645 6.174760 ACACAAGAACAGTACACCACTTTAA 58.825 36.000 0.00 0.00 34.26 1.52
1966 2671 2.494471 TGAAAGGGATGCAGCAATCAAG 59.506 45.455 3.51 0.00 0.00 3.02
2032 2737 4.056050 GAGTCGAGGAGCTTACTCTAGAG 58.944 52.174 18.49 18.49 42.98 2.43
2069 2774 5.330455 AGAATCTCTCGATTTAGCACACA 57.670 39.130 0.00 0.00 39.89 3.72
2077 2782 1.305219 ATTTAGCACACACCGCGCAT 61.305 50.000 8.75 0.00 0.00 4.73
2092 2797 2.445274 GCATCACGACGCAGAAGAA 58.555 52.632 0.00 0.00 0.00 2.52
2107 2812 0.886490 AAGAACACAGGCTTGGAGCG 60.886 55.000 0.00 0.00 43.62 5.03
2347 3052 6.403866 TCTGAGGAAGATAGAGAAATGAGC 57.596 41.667 0.00 0.00 0.00 4.26
2357 3062 3.883669 AGAGAAATGAGCAGGTCAATCC 58.116 45.455 6.36 3.50 39.19 3.01
2464 3169 1.734465 GCTGTTGCAGAATCGCTAAGT 59.266 47.619 0.00 0.00 39.41 2.24
2465 3170 2.160417 GCTGTTGCAGAATCGCTAAGTT 59.840 45.455 0.00 0.00 39.41 2.66
2467 3172 2.411748 TGTTGCAGAATCGCTAAGTTCG 59.588 45.455 0.00 0.00 0.00 3.95
2476 3181 0.526524 CGCTAAGTTCGGAGCTGGAG 60.527 60.000 0.00 0.00 36.50 3.86
2534 3239 1.434622 GAGCATGGCGTCCATCACAG 61.435 60.000 8.21 0.36 43.15 3.66
2539 3244 0.605319 TGGCGTCCATCACAGTTTCC 60.605 55.000 0.00 0.00 0.00 3.13
2623 3328 1.723003 GAAAGCAGAGCAAAAATGGCG 59.277 47.619 0.00 0.00 36.08 5.69
2710 3415 2.670414 GGCACGAGAAGAACTGATGAAG 59.330 50.000 0.00 0.00 0.00 3.02
3035 3740 4.399618 TGGAGAGACTTCTTGAAGTATCCG 59.600 45.833 25.23 0.40 40.78 4.18
3041 3746 3.195825 ACTTCTTGAAGTATCCGGGAGTG 59.804 47.826 13.62 0.00 0.00 3.51
3074 3779 2.286872 AGGATGCTCTGAAAATCGCAG 58.713 47.619 0.00 0.00 35.66 5.18
3145 3850 5.494724 CAGTTGAGGAAATGGAGATCTGAA 58.505 41.667 0.00 0.00 0.00 3.02
3148 3853 4.836825 TGAGGAAATGGAGATCTGAACAC 58.163 43.478 0.00 0.00 0.00 3.32
3236 3941 3.039011 GGATACAAGGAGGCCTCTTACA 58.961 50.000 31.36 13.44 30.89 2.41
3335 4040 2.067013 AGCTACGGAAAAAGAAGACGC 58.933 47.619 0.00 0.00 0.00 5.19
3337 4042 2.479275 GCTACGGAAAAAGAAGACGCTT 59.521 45.455 0.00 0.00 0.00 4.68
3437 4142 6.348132 CGTATCTTGTTTTCCATTGTACAGCA 60.348 38.462 0.00 0.00 0.00 4.41
3555 4260 9.462174 GTCTGTGAATGATGTTTGAAAATTGTA 57.538 29.630 0.00 0.00 0.00 2.41
4332 5038 7.766278 TGCACAAACCACATAAACACTTTAATT 59.234 29.630 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 5.648092 AGTTGGTTGCTAATGTATGAGTTCC 59.352 40.000 0.00 0.00 0.00 3.62
26 27 0.250727 TTTTGGAACGGAGGGAGCAG 60.251 55.000 0.00 0.00 0.00 4.24
48 53 4.519191 TTTGAACTAAAACCACGACGAC 57.481 40.909 0.00 0.00 0.00 4.34
51 56 7.743520 TTCAAATTTGAACTAAAACCACGAC 57.256 32.000 26.01 0.00 41.88 4.34
69 81 8.013378 CGTTCCGTAGTTTTAGTTCATTCAAAT 58.987 33.333 0.00 0.00 0.00 2.32
73 85 5.634859 TCCGTTCCGTAGTTTTAGTTCATTC 59.365 40.000 0.00 0.00 0.00 2.67
74 86 5.540911 TCCGTTCCGTAGTTTTAGTTCATT 58.459 37.500 0.00 0.00 0.00 2.57
75 87 5.138125 TCCGTTCCGTAGTTTTAGTTCAT 57.862 39.130 0.00 0.00 0.00 2.57
76 88 4.549458 CTCCGTTCCGTAGTTTTAGTTCA 58.451 43.478 0.00 0.00 0.00 3.18
77 89 3.922850 CCTCCGTTCCGTAGTTTTAGTTC 59.077 47.826 0.00 0.00 0.00 3.01
87 99 1.909700 ACTACAACCTCCGTTCCGTA 58.090 50.000 0.00 0.00 0.00 4.02
111 123 9.962759 AATGAAATAACGAGTTAACGACATAAC 57.037 29.630 0.00 0.00 36.28 1.89
182 194 0.459585 GTCTTGCAGACCGCGGAATA 60.460 55.000 35.90 10.30 46.97 1.75
190 202 0.815213 TGCACACAGTCTTGCAGACC 60.815 55.000 11.24 0.00 46.18 3.85
207 219 0.465460 TTGGACAACAGGACAGGTGC 60.465 55.000 0.00 0.00 0.00 5.01
226 238 2.839486 TTGCTCTGTTTCTCATCCGT 57.161 45.000 0.00 0.00 0.00 4.69
227 239 4.259970 CGTATTTGCTCTGTTTCTCATCCG 60.260 45.833 0.00 0.00 0.00 4.18
228 240 4.494855 GCGTATTTGCTCTGTTTCTCATCC 60.495 45.833 0.00 0.00 0.00 3.51
295 309 1.672363 TGCAGTCGATGAAATCCATGC 59.328 47.619 0.00 0.00 41.39 4.06
316 335 7.201785 GCCAGTTAAGCAGCCAAAAACTATATA 60.202 37.037 0.00 0.00 0.00 0.86
325 344 1.407936 TTGCCAGTTAAGCAGCCAAA 58.592 45.000 0.00 0.00 42.17 3.28
332 351 5.107645 CGGTGTTTTTAATTGCCAGTTAAGC 60.108 40.000 0.00 0.00 0.00 3.09
531 579 3.767131 TGATCGTCACCCATTTCTACAGA 59.233 43.478 0.00 0.00 0.00 3.41
538 586 2.172505 TGGCTATGATCGTCACCCATTT 59.827 45.455 0.00 0.00 0.00 2.32
544 592 7.598869 TGTTTCTATAATGGCTATGATCGTCAC 59.401 37.037 0.00 0.00 0.00 3.67
599 657 1.597742 GAACAGAGCAGCCAGTTCAA 58.402 50.000 14.19 0.00 39.95 2.69
666 1033 6.654582 GGGAGTATTTGCCAATTTTCAACAAT 59.345 34.615 0.00 0.00 37.22 2.71
669 1036 5.793817 AGGGAGTATTTGCCAATTTTCAAC 58.206 37.500 0.00 0.00 40.38 3.18
690 1057 9.915629 ATACGCTCTTATATTTCTTTACAGAGG 57.084 33.333 0.00 0.00 0.00 3.69
705 1072 9.477484 CCAAAGTAGTGATTTATACGCTCTTAT 57.523 33.333 0.00 0.00 0.00 1.73
706 1073 7.437267 GCCAAAGTAGTGATTTATACGCTCTTA 59.563 37.037 0.00 0.00 0.00 2.10
707 1074 6.258068 GCCAAAGTAGTGATTTATACGCTCTT 59.742 38.462 0.00 0.00 0.00 2.85
708 1075 5.753921 GCCAAAGTAGTGATTTATACGCTCT 59.246 40.000 0.00 0.00 0.00 4.09
709 1076 5.332355 CGCCAAAGTAGTGATTTATACGCTC 60.332 44.000 0.00 0.00 0.00 5.03
710 1077 4.506654 CGCCAAAGTAGTGATTTATACGCT 59.493 41.667 0.00 0.00 0.00 5.07
711 1078 4.505191 TCGCCAAAGTAGTGATTTATACGC 59.495 41.667 0.00 0.00 0.00 4.42
712 1079 6.641314 AGATCGCCAAAGTAGTGATTTATACG 59.359 38.462 0.00 0.00 34.68 3.06
713 1080 7.948278 AGATCGCCAAAGTAGTGATTTATAC 57.052 36.000 0.00 0.00 34.68 1.47
715 1082 8.827677 GTTTAGATCGCCAAAGTAGTGATTTAT 58.172 33.333 0.00 0.00 34.68 1.40
716 1083 8.038944 AGTTTAGATCGCCAAAGTAGTGATTTA 58.961 33.333 0.00 0.00 34.68 1.40
717 1084 6.879458 AGTTTAGATCGCCAAAGTAGTGATTT 59.121 34.615 0.00 0.00 34.68 2.17
718 1085 6.407202 AGTTTAGATCGCCAAAGTAGTGATT 58.593 36.000 0.00 0.00 34.68 2.57
719 1086 5.978814 AGTTTAGATCGCCAAAGTAGTGAT 58.021 37.500 0.00 0.00 37.18 3.06
720 1087 5.185249 AGAGTTTAGATCGCCAAAGTAGTGA 59.815 40.000 0.00 0.00 0.00 3.41
721 1088 5.411781 AGAGTTTAGATCGCCAAAGTAGTG 58.588 41.667 0.00 0.00 0.00 2.74
722 1089 5.419471 AGAGAGTTTAGATCGCCAAAGTAGT 59.581 40.000 0.00 0.00 0.00 2.73
723 1090 5.897050 AGAGAGTTTAGATCGCCAAAGTAG 58.103 41.667 0.00 0.00 0.00 2.57
724 1091 5.916661 AGAGAGTTTAGATCGCCAAAGTA 57.083 39.130 0.00 0.00 0.00 2.24
725 1092 4.810191 AGAGAGTTTAGATCGCCAAAGT 57.190 40.909 0.00 0.00 0.00 2.66
726 1093 9.482627 AATATAAGAGAGTTTAGATCGCCAAAG 57.517 33.333 0.00 0.00 0.00 2.77
727 1094 9.832445 AAATATAAGAGAGTTTAGATCGCCAAA 57.168 29.630 0.00 0.00 0.00 3.28
728 1095 9.477484 GAAATATAAGAGAGTTTAGATCGCCAA 57.523 33.333 0.00 0.00 0.00 4.52
729 1096 8.861086 AGAAATATAAGAGAGTTTAGATCGCCA 58.139 33.333 0.00 0.00 0.00 5.69
730 1097 9.699703 AAGAAATATAAGAGAGTTTAGATCGCC 57.300 33.333 0.00 0.00 0.00 5.54
738 1105 9.819267 CCTCCGTAAAGAAATATAAGAGAGTTT 57.181 33.333 0.00 0.00 0.00 2.66
739 1106 8.422566 CCCTCCGTAAAGAAATATAAGAGAGTT 58.577 37.037 0.00 0.00 0.00 3.01
740 1107 7.783596 TCCCTCCGTAAAGAAATATAAGAGAGT 59.216 37.037 0.00 0.00 0.00 3.24
741 1108 8.179509 TCCCTCCGTAAAGAAATATAAGAGAG 57.820 38.462 0.00 0.00 0.00 3.20
742 1109 7.783596 ACTCCCTCCGTAAAGAAATATAAGAGA 59.216 37.037 0.00 0.00 0.00 3.10
743 1110 7.953752 ACTCCCTCCGTAAAGAAATATAAGAG 58.046 38.462 0.00 0.00 0.00 2.85
744 1111 7.909485 ACTCCCTCCGTAAAGAAATATAAGA 57.091 36.000 0.00 0.00 0.00 2.10
745 1112 8.858094 AGTACTCCCTCCGTAAAGAAATATAAG 58.142 37.037 0.00 0.00 0.00 1.73
746 1113 8.773033 AGTACTCCCTCCGTAAAGAAATATAA 57.227 34.615 0.00 0.00 0.00 0.98
747 1114 8.223330 AGAGTACTCCCTCCGTAAAGAAATATA 58.777 37.037 19.38 0.00 31.53 0.86
748 1115 7.068061 AGAGTACTCCCTCCGTAAAGAAATAT 58.932 38.462 19.38 0.00 31.53 1.28
749 1116 6.430007 AGAGTACTCCCTCCGTAAAGAAATA 58.570 40.000 19.38 0.00 31.53 1.40
750 1117 5.270794 AGAGTACTCCCTCCGTAAAGAAAT 58.729 41.667 19.38 0.00 31.53 2.17
751 1118 4.670765 AGAGTACTCCCTCCGTAAAGAAA 58.329 43.478 19.38 0.00 31.53 2.52
752 1119 4.313020 AGAGTACTCCCTCCGTAAAGAA 57.687 45.455 19.38 0.00 31.53 2.52
753 1120 4.225942 TGTAGAGTACTCCCTCCGTAAAGA 59.774 45.833 19.38 0.00 31.53 2.52
754 1121 4.521146 TGTAGAGTACTCCCTCCGTAAAG 58.479 47.826 19.38 0.00 31.53 1.85
755 1122 4.574674 TGTAGAGTACTCCCTCCGTAAA 57.425 45.455 19.38 0.00 31.53 2.01
756 1123 4.263462 TGTTGTAGAGTACTCCCTCCGTAA 60.263 45.833 19.38 3.21 31.53 3.18
757 1124 3.264193 TGTTGTAGAGTACTCCCTCCGTA 59.736 47.826 19.38 1.23 31.53 4.02
758 1125 2.040813 TGTTGTAGAGTACTCCCTCCGT 59.959 50.000 19.38 2.25 31.53 4.69
759 1126 2.422832 GTGTTGTAGAGTACTCCCTCCG 59.577 54.545 19.38 0.00 31.53 4.63
760 1127 3.699413 AGTGTTGTAGAGTACTCCCTCC 58.301 50.000 19.38 5.61 31.53 4.30
761 1128 4.765856 TGAAGTGTTGTAGAGTACTCCCTC 59.234 45.833 19.38 10.36 0.00 4.30
762 1129 4.523558 GTGAAGTGTTGTAGAGTACTCCCT 59.476 45.833 19.38 4.54 0.00 4.20
763 1130 4.280174 TGTGAAGTGTTGTAGAGTACTCCC 59.720 45.833 19.38 10.87 0.00 4.30
764 1131 5.009811 AGTGTGAAGTGTTGTAGAGTACTCC 59.990 44.000 19.38 5.74 0.00 3.85
765 1132 6.074544 AGTGTGAAGTGTTGTAGAGTACTC 57.925 41.667 15.41 15.41 0.00 2.59
766 1133 6.096423 TCAAGTGTGAAGTGTTGTAGAGTACT 59.904 38.462 0.00 0.00 0.00 2.73
767 1134 6.270815 TCAAGTGTGAAGTGTTGTAGAGTAC 58.729 40.000 0.00 0.00 0.00 2.73
768 1135 6.096423 ACTCAAGTGTGAAGTGTTGTAGAGTA 59.904 38.462 0.00 0.00 31.88 2.59
769 1136 5.105310 ACTCAAGTGTGAAGTGTTGTAGAGT 60.105 40.000 0.00 0.00 31.88 3.24
770 1137 5.352284 ACTCAAGTGTGAAGTGTTGTAGAG 58.648 41.667 0.00 0.00 31.88 2.43
771 1138 5.339008 ACTCAAGTGTGAAGTGTTGTAGA 57.661 39.130 0.00 0.00 31.88 2.59
772 1139 5.276395 CGAACTCAAGTGTGAAGTGTTGTAG 60.276 44.000 0.00 0.00 31.88 2.74
783 1150 3.186909 TGTGAGAACGAACTCAAGTGTG 58.813 45.455 15.06 0.00 46.34 3.82
821 1188 3.482436 ACAAACGAAAGCCTCCACATAA 58.518 40.909 0.00 0.00 0.00 1.90
822 1189 3.071479 GACAAACGAAAGCCTCCACATA 58.929 45.455 0.00 0.00 0.00 2.29
836 1203 5.062308 GCCAGAGAAGTACATAAGACAAACG 59.938 44.000 0.00 0.00 0.00 3.60
881 1323 1.111277 ACAAAACGAGGGCAAAGCTT 58.889 45.000 0.00 0.00 0.00 3.74
882 1324 1.111277 AACAAAACGAGGGCAAAGCT 58.889 45.000 0.00 0.00 0.00 3.74
894 1336 8.702163 TCTCCTGAAGAAATTTCAAACAAAAC 57.298 30.769 19.99 3.31 0.00 2.43
952 1395 3.125316 CACAGGTCCTCTCGTTTTATTGC 59.875 47.826 0.00 0.00 0.00 3.56
959 1402 0.827925 TGCTCACAGGTCCTCTCGTT 60.828 55.000 0.00 0.00 0.00 3.85
975 1418 0.882042 CGGATAAATCGCTGGCTGCT 60.882 55.000 14.58 0.00 40.11 4.24
976 1419 1.571460 CGGATAAATCGCTGGCTGC 59.429 57.895 6.26 6.26 38.57 5.25
990 1433 4.038763 TCGATAGTTTCCATGTTAGCGGAT 59.961 41.667 0.00 0.00 37.40 4.18
998 1441 5.069119 TGAGTGCTATCGATAGTTTCCATGT 59.931 40.000 28.47 12.58 32.96 3.21
1025 1468 4.487412 GCATGCTTGCGTCCCTGC 62.487 66.667 11.37 0.00 39.49 4.85
1052 1495 2.738213 AAGAACTGGTGCCGGCTCTG 62.738 60.000 29.70 23.43 29.26 3.35
1092 1538 5.707764 AGGTAGCTTTTCTTGAATCTCCAAC 59.292 40.000 0.00 0.00 0.00 3.77
1111 1557 3.243873 TGCTCTGTCAAGTTGTGAGGTAG 60.244 47.826 17.77 6.79 36.74 3.18
1134 1580 4.202326 ACAACGGTATTCAAGTTCTCCTGT 60.202 41.667 0.00 0.00 0.00 4.00
1149 1595 6.058183 GGATACTTCTAGACCTACAACGGTA 58.942 44.000 0.00 0.00 37.42 4.02
1153 1599 7.166691 TGTTGGATACTTCTAGACCTACAAC 57.833 40.000 9.95 11.71 34.67 3.32
1154 1600 7.786046 TTGTTGGATACTTCTAGACCTACAA 57.214 36.000 16.76 16.76 41.22 2.41
1162 1608 8.669243 GTTCAAGGAATTGTTGGATACTTCTAG 58.331 37.037 0.00 0.00 37.61 2.43
1163 1609 7.333423 CGTTCAAGGAATTGTTGGATACTTCTA 59.667 37.037 0.00 0.00 37.61 2.10
1164 1610 6.149474 CGTTCAAGGAATTGTTGGATACTTCT 59.851 38.462 0.00 0.00 37.61 2.85
1165 1611 6.148811 TCGTTCAAGGAATTGTTGGATACTTC 59.851 38.462 0.00 0.00 37.61 3.01
1204 1698 6.767524 TTCAGTGTTATTTGTGGAAGTTGT 57.232 33.333 0.00 0.00 0.00 3.32
1239 1733 5.219343 TGCCTGAACCACTATCAGATATG 57.781 43.478 5.16 0.00 45.74 1.78
1250 1744 2.203337 TGCCACTGCCTGAACCAC 60.203 61.111 0.00 0.00 36.33 4.16
1265 1759 5.811399 TGCACTTGTTACCATTATACTGC 57.189 39.130 0.00 0.00 0.00 4.40
1271 1765 8.177119 AGATTTTCTTGCACTTGTTACCATTA 57.823 30.769 0.00 0.00 0.00 1.90
1272 1766 7.054491 AGATTTTCTTGCACTTGTTACCATT 57.946 32.000 0.00 0.00 0.00 3.16
1290 1784 6.008696 TCCATATTGTCCCCGTTAGATTTT 57.991 37.500 0.00 0.00 0.00 1.82
1323 1817 3.310307 GGGGTGGCCGCAATGTTT 61.310 61.111 19.98 0.00 36.42 2.83
1332 1826 2.024306 GCTCTCTTATTTGGGGTGGCC 61.024 57.143 0.00 0.00 0.00 5.36
1355 1849 3.712016 TGTATGGCCTGCTTTCAGTTA 57.288 42.857 3.32 0.00 38.66 2.24
1380 1874 2.224499 TGGTGCAGCAGTATCAACAAGA 60.224 45.455 15.99 0.00 0.00 3.02
1389 1883 2.038952 AGACTCAAATGGTGCAGCAGTA 59.961 45.455 24.45 6.69 0.00 2.74
1466 1960 5.945310 AGTGCATTACCTCCATTGTATGAT 58.055 37.500 0.00 0.00 0.00 2.45
1467 1961 5.372343 AGTGCATTACCTCCATTGTATGA 57.628 39.130 0.00 0.00 0.00 2.15
1474 1968 3.118531 AGAGGAAGTGCATTACCTCCAT 58.881 45.455 22.97 10.36 46.88 3.41
1556 2261 5.554510 CGCGCCTCTGCATATAATATAAACG 60.555 44.000 0.00 0.00 37.32 3.60
1557 2262 5.276868 CCGCGCCTCTGCATATAATATAAAC 60.277 44.000 0.00 0.00 37.32 2.01
1693 2398 5.140747 TCAGCTCCTCTACAAGTCTTTTC 57.859 43.478 0.00 0.00 0.00 2.29
1699 2404 2.028567 GTGCTTCAGCTCCTCTACAAGT 60.029 50.000 0.00 0.00 42.66 3.16
1736 2441 5.618640 GCTTTGATTGCTCTAGTTCAACCTG 60.619 44.000 2.47 0.00 0.00 4.00
1747 2452 3.695060 CAGAATCCTGCTTTGATTGCTCT 59.305 43.478 1.52 0.00 32.74 4.09
1822 2527 6.294564 CCAACTCTGTTTGAGCTACTACACTA 60.295 42.308 0.00 0.00 46.41 2.74
1862 2567 2.033801 CCTCAATAGCCTTTTGATGCCG 59.966 50.000 0.00 0.00 32.94 5.69
1905 2610 8.590204 TGTACTGTTCTTGTGTTGATCCTAATA 58.410 33.333 0.00 0.00 0.00 0.98
1936 2641 5.714333 TGCTGCATCCCTTTCAGTTATTAAA 59.286 36.000 0.00 0.00 0.00 1.52
1940 2645 3.370840 TGCTGCATCCCTTTCAGTTAT 57.629 42.857 0.00 0.00 0.00 1.89
1988 2693 1.815613 CTTCTCTGTCTCCTTCGCAGA 59.184 52.381 0.00 0.00 37.63 4.26
2032 2737 4.321899 AGAGATTCTCTGGATGCGAATAGC 60.322 45.833 15.41 0.00 42.26 2.97
2065 2770 4.656117 TCGTGATGCGCGGTGTGT 62.656 61.111 8.83 0.00 41.07 3.72
2077 2782 0.101579 TGTGTTCTTCTGCGTCGTGA 59.898 50.000 0.00 0.00 0.00 4.35
2107 2812 1.291272 CTGCTCCTTTGCCAAAGCC 59.709 57.895 11.76 3.18 38.69 4.35
2290 2995 1.134848 ACTGCTCCATCTTCTTCGCTC 60.135 52.381 0.00 0.00 0.00 5.03
2347 3052 1.093159 GAGCTTGCTGGATTGACCTG 58.907 55.000 0.00 0.00 39.86 4.00
2357 3062 0.938713 GCTGATGCTAGAGCTTGCTG 59.061 55.000 0.00 0.00 42.66 4.41
2410 3115 4.449131 TGGCTTCATCATTTGTTTTTGCA 58.551 34.783 0.00 0.00 0.00 4.08
2464 3169 0.039764 TCTCCTTCTCCAGCTCCGAA 59.960 55.000 0.00 0.00 0.00 4.30
2465 3170 0.039764 TTCTCCTTCTCCAGCTCCGA 59.960 55.000 0.00 0.00 0.00 4.55
2467 3172 1.406751 GCTTTCTCCTTCTCCAGCTCC 60.407 57.143 0.00 0.00 0.00 4.70
2476 3181 5.527582 TGTAACAAGTGAAGCTTTCTCCTTC 59.472 40.000 0.00 0.00 39.26 3.46
2534 3239 2.480587 GCTCGGCTTCTAGAGAGGAAAC 60.481 54.545 8.38 0.00 36.65 2.78
2539 3244 1.603802 CTGAGCTCGGCTTCTAGAGAG 59.396 57.143 10.21 3.01 39.88 3.20
2623 3328 2.997986 CTGCAGCATTTTTGGAATGTCC 59.002 45.455 0.00 0.00 36.96 4.02
2706 3411 1.270839 CGGCTTCTTCCTTGGACTTCA 60.271 52.381 0.00 0.00 0.00 3.02
2710 3415 1.021920 GCTCGGCTTCTTCCTTGGAC 61.022 60.000 0.00 0.00 0.00 4.02
2953 3658 4.344865 AACGATGCCGCCACCCTT 62.345 61.111 0.00 0.00 39.95 3.95
3035 3740 2.230660 CTTCTTTTGGTCCACACTCCC 58.769 52.381 0.00 0.00 0.00 4.30
3041 3746 2.489722 GAGCATCCTTCTTTTGGTCCAC 59.510 50.000 0.00 0.00 33.02 4.02
3145 3850 1.268743 GCTTTTCGAAGCTGCTTGTGT 60.269 47.619 21.25 0.00 42.32 3.72
3188 3893 6.574465 GCAAATGGAGTACTCAAAGGACTAGA 60.574 42.308 23.91 0.00 0.00 2.43
3335 4040 1.616994 GGTGGACATCTGGGGGAAAAG 60.617 57.143 0.00 0.00 0.00 2.27
3337 4042 1.506028 GGGTGGACATCTGGGGGAAA 61.506 60.000 0.00 0.00 0.00 3.13
3458 4163 7.358105 GCTTCGCAAAACAACCTTATTTACTTC 60.358 37.037 0.00 0.00 0.00 3.01
4332 5038 6.893005 TCTGGAAAGTTAAGGTTCCTTTGAAA 59.107 34.615 9.46 0.00 43.24 2.69


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

AutoCloner maintained by Alex Coulton.