Multiple sequence alignment - TraesCS4B01G320900

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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 TraesCS4B01G320900 chr4B 100.000 3421 0 0 1 3421 612211856 612208436 0.000000e+00 6318.0
1 TraesCS4B01G320900 chr4B 81.532 666 81 22 1486 2117 612178096 612177439 8.470000e-141 510.0
2 TraesCS4B01G320900 chr4B 92.394 355 14 10 777 1129 612178816 612178473 8.530000e-136 494.0
3 TraesCS4B01G320900 chr4B 97.992 249 4 1 1132 1379 612178521 612178273 6.780000e-117 431.0
4 TraesCS4B01G320900 chr4B 88.889 270 18 6 2119 2379 612177384 612177118 4.260000e-84 322.0
5 TraesCS4B01G320900 chr4D 95.406 1219 37 6 2120 3320 482359341 482358124 0.000000e+00 1923.0
6 TraesCS4B01G320900 chr4D 93.944 644 32 7 1486 2126 482360034 482359395 0.000000e+00 966.0
7 TraesCS4B01G320900 chr4D 84.028 720 44 35 777 1483 482255567 482254906 8.060000e-176 627.0
8 TraesCS4B01G320900 chr4D 92.120 368 18 8 1118 1483 482360453 482360095 3.050000e-140 508.0
9 TraesCS4B01G320900 chr4D 89.315 365 24 7 770 1124 482360766 482360407 8.710000e-121 444.0
10 TraesCS4B01G320900 chr4D 81.043 575 64 23 1580 2117 482254654 482254088 1.900000e-112 416.0
11 TraesCS4B01G320900 chr4D 88.764 267 18 6 2122 2379 482254032 482253769 1.980000e-82 316.0
12 TraesCS4B01G320900 chr4D 85.106 188 22 6 213 399 62757843 62758025 1.620000e-43 187.0
13 TraesCS4B01G320900 chr4D 85.106 188 22 6 213 399 440250004 440249822 1.620000e-43 187.0
14 TraesCS4B01G320900 chr7A 97.927 772 3 2 1 772 670829628 670830386 0.000000e+00 1325.0
15 TraesCS4B01G320900 chr7A 83.824 136 18 4 1596 1729 135627675 135627808 3.580000e-25 126.0
16 TraesCS4B01G320900 chr5A 92.185 755 39 10 2120 2855 660204275 660205028 0.000000e+00 1050.0
17 TraesCS4B01G320900 chr5A 93.260 638 37 6 1492 2126 660203587 660204221 0.000000e+00 935.0
18 TraesCS4B01G320900 chr5A 84.722 720 46 40 773 1483 660202867 660203531 0.000000e+00 662.0
19 TraesCS4B01G320900 chr5A 92.163 319 17 6 777 1093 660250305 660250617 8.710000e-121 444.0
20 TraesCS4B01G320900 chr5A 87.546 273 23 6 2116 2379 660252060 660252330 4.290000e-79 305.0
21 TraesCS4B01G320900 chr5A 87.149 249 20 8 2945 3189 660252785 660253025 4.350000e-69 272.0
22 TraesCS4B01G320900 chr5A 83.486 218 21 9 1269 1483 660250673 660250878 4.510000e-44 189.0
23 TraesCS4B01G320900 chr5A 81.290 155 25 4 1604 1756 328030668 328030516 4.640000e-24 122.0
24 TraesCS4B01G320900 chr5A 79.487 156 26 6 1595 1746 510541570 510541417 4.670000e-19 106.0
25 TraesCS4B01G320900 chr3A 86.242 596 30 14 180 731 100838592 100838005 1.760000e-167 599.0
26 TraesCS4B01G320900 chr6B 84.859 568 37 18 208 731 457408924 457409486 8.410000e-146 527.0
27 TraesCS4B01G320900 chr6B 85.714 126 16 2 1593 1716 192931422 192931547 7.700000e-27 132.0
28 TraesCS4B01G320900 chr7D 85.934 391 19 16 213 570 170727846 170727459 5.360000e-103 385.0
29 TraesCS4B01G320900 chr7D 87.791 172 8 4 573 731 170727488 170727317 4.510000e-44 189.0
30 TraesCS4B01G320900 chr7D 93.902 82 2 2 2852 2932 22964268 22964347 1.670000e-23 121.0
31 TraesCS4B01G320900 chr7D 91.111 90 6 2 2852 2939 141292099 141292188 1.670000e-23 121.0
32 TraesCS4B01G320900 chr3D 89.583 288 16 4 457 731 332508692 332508406 1.510000e-93 353.0
33 TraesCS4B01G320900 chr3D 84.043 188 24 6 213 399 503045607 503045789 3.510000e-40 176.0
34 TraesCS4B01G320900 chr3D 92.135 89 4 2 2852 2939 570848679 570848765 4.640000e-24 122.0
35 TraesCS4B01G320900 chr3D 93.902 82 2 2 2852 2932 54370486 54370407 1.670000e-23 121.0
36 TraesCS4B01G320900 chr3D 79.577 142 28 1 1595 1735 28519034 28519175 2.170000e-17 100.0
37 TraesCS4B01G320900 chr2A 87.500 208 4 3 1 186 16295611 16295404 1.600000e-53 220.0
38 TraesCS4B01G320900 chr2A 85.106 188 23 5 1 186 737831257 737831073 1.620000e-43 187.0
39 TraesCS4B01G320900 chr2A 91.339 127 11 0 1 127 737646367 737646241 1.260000e-39 174.0
40 TraesCS4B01G320900 chr2A 87.129 101 8 4 2852 2949 81785593 81785691 3.610000e-20 110.0
41 TraesCS4B01G320900 chr2A 92.453 53 3 1 3348 3399 211303194 211303246 1.320000e-09 75.0
42 TraesCS4B01G320900 chr1B 87.500 200 11 4 545 731 665094332 665094530 5.750000e-53 219.0
43 TraesCS4B01G320900 chr1B 86.058 208 7 3 1 186 629180650 629180443 1.610000e-48 204.0
44 TraesCS4B01G320900 chr1B 96.078 51 2 0 727 777 451561602 451561652 2.190000e-12 84.2
45 TraesCS4B01G320900 chr1B 96.000 50 2 0 727 776 312610742 312610693 7.870000e-12 82.4
46 TraesCS4B01G320900 chr1B 94.340 53 2 1 723 775 338428680 338428629 2.830000e-11 80.5
47 TraesCS4B01G320900 chr1B 94.340 53 2 1 723 775 361802432 361802483 2.830000e-11 80.5
48 TraesCS4B01G320900 chr1A 87.379 206 4 3 3 186 565750433 565750228 2.070000e-52 217.0
49 TraesCS4B01G320900 chr2B 86.058 208 7 6 1 186 777965838 777966045 1.610000e-48 204.0
50 TraesCS4B01G320900 chr2B 95.276 127 6 0 1 127 778027526 778027652 5.790000e-48 202.0
51 TraesCS4B01G320900 chr2D 85.106 188 22 6 213 399 482358639 482358821 1.620000e-43 187.0
52 TraesCS4B01G320900 chr2D 79.104 134 17 4 3269 3401 195726051 195726174 7.870000e-12 82.4
53 TraesCS4B01G320900 chr6A 84.043 188 24 6 213 399 195291545 195291727 3.510000e-40 176.0
54 TraesCS4B01G320900 chr1D 95.000 80 1 2 2852 2930 335585051 335585128 4.640000e-24 122.0
55 TraesCS4B01G320900 chr1D 94.231 52 2 1 725 776 490331979 490332029 1.020000e-10 78.7
56 TraesCS4B01G320900 chr6D 90.110 91 5 3 2852 2941 387886063 387885976 7.760000e-22 115.0
57 TraesCS4B01G320900 chr5D 87.037 108 6 7 2852 2953 545227861 545227756 7.760000e-22 115.0
58 TraesCS4B01G320900 chrUn 94.231 52 3 0 727 778 470095728 470095677 2.830000e-11 80.5
59 TraesCS4B01G320900 chrUn 94.231 52 2 1 725 776 392125319 392125269 1.020000e-10 78.7
60 TraesCS4B01G320900 chrUn 94.231 52 2 1 725 776 392126232 392126182 1.020000e-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 TraesCS4B01G320900 chr4B 612208436 612211856 3420 True 6318.000000 6318 100.000000 1 3421 1 chr4B.!!$R1 3420
1 TraesCS4B01G320900 chr4B 612177118 612178816 1698 True 439.250000 510 90.201750 777 2379 4 chr4B.!!$R2 1602
2 TraesCS4B01G320900 chr4D 482358124 482360766 2642 True 960.250000 1923 92.696250 770 3320 4 chr4D.!!$R3 2550
3 TraesCS4B01G320900 chr4D 482253769 482255567 1798 True 453.000000 627 84.611667 777 2379 3 chr4D.!!$R2 1602
4 TraesCS4B01G320900 chr7A 670829628 670830386 758 False 1325.000000 1325 97.927000 1 772 1 chr7A.!!$F2 771
5 TraesCS4B01G320900 chr5A 660202867 660205028 2161 False 882.333333 1050 90.055667 773 2855 3 chr5A.!!$F1 2082
6 TraesCS4B01G320900 chr5A 660250305 660253025 2720 False 302.500000 444 87.586000 777 3189 4 chr5A.!!$F2 2412
7 TraesCS4B01G320900 chr3A 100838005 100838592 587 True 599.000000 599 86.242000 180 731 1 chr3A.!!$R1 551
8 TraesCS4B01G320900 chr6B 457408924 457409486 562 False 527.000000 527 84.859000 208 731 1 chr6B.!!$F2 523
9 TraesCS4B01G320900 chr7D 170727317 170727846 529 True 287.000000 385 86.862500 213 731 2 chr7D.!!$R1 518

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
182 183 0.457853 GTAGCATGTTCGAGTCGCCA 60.458 55.0 7.92 7.43 0.00 5.69 F
1061 1120 0.390124 ACAACGACAAGCGGGTTAGA 59.610 50.0 0.00 0.00 46.49 2.10 F
1484 1583 0.179161 GAGCATCGGACGCGCTATAT 60.179 55.0 5.73 0.00 35.75 0.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1399 1495 0.110688 GTAGCGCACACACACACATG 60.111 55.0 11.47 0.0 0.00 3.21 R
2184 3028 0.519961 CCTTCCTGCGGGTTAAAACG 59.480 55.0 12.43 0.0 0.00 3.60 R
3392 4252 0.182775 AGTTGTGAAACCCGAAGCCT 59.817 50.0 0.00 0.0 34.36 4.58 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
177 178 1.671850 CCGGTTGTAGCATGTTCGAGT 60.672 52.381 0.00 0.00 0.00 4.18
178 179 1.654105 CGGTTGTAGCATGTTCGAGTC 59.346 52.381 0.00 0.00 0.00 3.36
182 183 0.457853 GTAGCATGTTCGAGTCGCCA 60.458 55.000 7.92 7.43 0.00 5.69
772 820 1.253100 CCGGCCACAAACATTTACCT 58.747 50.000 2.24 0.00 0.00 3.08
773 821 1.616374 CCGGCCACAAACATTTACCTT 59.384 47.619 2.24 0.00 0.00 3.50
1047 1106 2.252260 CCGAGGCAGCAAACAACG 59.748 61.111 0.00 0.00 0.00 4.10
1050 1109 1.771073 CGAGGCAGCAAACAACGACA 61.771 55.000 0.00 0.00 0.00 4.35
1057 1116 1.725066 CAAACAACGACAAGCGGGT 59.275 52.632 0.00 0.00 46.49 5.28
1059 1118 1.331138 CAAACAACGACAAGCGGGTTA 59.669 47.619 0.00 0.00 46.49 2.85
1060 1119 1.223187 AACAACGACAAGCGGGTTAG 58.777 50.000 0.00 0.00 46.49 2.34
1061 1120 0.390124 ACAACGACAAGCGGGTTAGA 59.610 50.000 0.00 0.00 46.49 2.10
1062 1121 1.068474 CAACGACAAGCGGGTTAGAG 58.932 55.000 0.00 0.00 46.49 2.43
1063 1122 0.963962 AACGACAAGCGGGTTAGAGA 59.036 50.000 0.00 0.00 46.49 3.10
1064 1123 0.526662 ACGACAAGCGGGTTAGAGAG 59.473 55.000 0.00 0.00 46.49 3.20
1065 1124 0.809385 CGACAAGCGGGTTAGAGAGA 59.191 55.000 0.00 0.00 36.03 3.10
1066 1125 1.202200 CGACAAGCGGGTTAGAGAGAG 60.202 57.143 0.00 0.00 36.03 3.20
1067 1126 2.093106 GACAAGCGGGTTAGAGAGAGA 58.907 52.381 0.00 0.00 0.00 3.10
1069 1128 2.291024 ACAAGCGGGTTAGAGAGAGAGA 60.291 50.000 0.00 0.00 0.00 3.10
1070 1129 2.341846 AGCGGGTTAGAGAGAGAGAG 57.658 55.000 0.00 0.00 0.00 3.20
1071 1130 1.133915 AGCGGGTTAGAGAGAGAGAGG 60.134 57.143 0.00 0.00 0.00 3.69
1072 1131 1.975660 CGGGTTAGAGAGAGAGAGGG 58.024 60.000 0.00 0.00 0.00 4.30
1073 1132 1.491332 CGGGTTAGAGAGAGAGAGGGA 59.509 57.143 0.00 0.00 0.00 4.20
1074 1133 2.486548 CGGGTTAGAGAGAGAGAGGGAG 60.487 59.091 0.00 0.00 0.00 4.30
1075 1134 2.781174 GGGTTAGAGAGAGAGAGGGAGA 59.219 54.545 0.00 0.00 0.00 3.71
1076 1135 3.181443 GGGTTAGAGAGAGAGAGGGAGAG 60.181 56.522 0.00 0.00 0.00 3.20
1077 1136 3.714798 GGTTAGAGAGAGAGAGGGAGAGA 59.285 52.174 0.00 0.00 0.00 3.10
1078 1137 4.202367 GGTTAGAGAGAGAGAGGGAGAGAG 60.202 54.167 0.00 0.00 0.00 3.20
1079 1138 3.421394 AGAGAGAGAGAGGGAGAGAGA 57.579 52.381 0.00 0.00 0.00 3.10
1080 1139 3.312890 AGAGAGAGAGAGGGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1081 1140 3.051803 AGAGAGAGAGAGGGAGAGAGAGA 60.052 52.174 0.00 0.00 0.00 3.10
1082 1141 3.312890 AGAGAGAGAGGGAGAGAGAGAG 58.687 54.545 0.00 0.00 0.00 3.20
1083 1142 2.370189 GAGAGAGAGGGAGAGAGAGAGG 59.630 59.091 0.00 0.00 0.00 3.69
1084 1143 2.022035 AGAGAGAGGGAGAGAGAGAGGA 60.022 54.545 0.00 0.00 0.00 3.71
1108 1167 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1109 1168 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1110 1169 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1111 1170 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1112 1171 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1113 1172 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1114 1173 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1115 1174 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1116 1175 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1117 1176 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1118 1177 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1119 1178 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1120 1179 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1121 1180 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1122 1181 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1123 1182 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1124 1183 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1125 1184 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1126 1185 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1127 1186 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1128 1187 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1129 1188 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1130 1189 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1131 1190 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1132 1191 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1133 1192 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1134 1193 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1135 1194 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1136 1195 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1137 1196 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1138 1197 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1139 1198 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1140 1199 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1141 1200 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1142 1201 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1143 1202 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1144 1203 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1145 1204 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1146 1205 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1147 1206 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1148 1207 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1149 1208 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1150 1209 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1151 1210 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1152 1211 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1153 1212 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1396 1492 5.106712 GGTGAGCTTCGTCATGTTTAATTCA 60.107 40.000 0.00 0.00 0.00 2.57
1398 1494 5.931724 TGAGCTTCGTCATGTTTAATTCAGA 59.068 36.000 0.00 0.00 0.00 3.27
1399 1495 6.128553 TGAGCTTCGTCATGTTTAATTCAGAC 60.129 38.462 0.00 0.00 0.00 3.51
1400 1496 5.700832 AGCTTCGTCATGTTTAATTCAGACA 59.299 36.000 0.00 0.00 0.00 3.41
1424 1521 0.671796 TGTGTGTGCGCTACTACTGT 59.328 50.000 9.73 0.00 0.00 3.55
1429 1526 3.057734 GTGTGCGCTACTACTGTCTTTT 58.942 45.455 9.73 0.00 0.00 2.27
1483 1582 1.209383 GAGCATCGGACGCGCTATA 59.791 57.895 5.73 0.00 35.75 1.31
1484 1583 0.179161 GAGCATCGGACGCGCTATAT 60.179 55.000 5.73 0.00 35.75 0.86
1495 1700 3.603532 ACGCGCTATATAGGTGTAGCTA 58.396 45.455 5.73 0.00 41.38 3.32
1680 1992 3.679389 ACGATTGGATGAGCAAGAAAGT 58.321 40.909 0.00 0.00 0.00 2.66
1726 2459 7.445402 CCGGTTGTTGGATCTTAATCTAATGAT 59.555 37.037 0.00 0.00 35.19 2.45
1818 2551 2.994186 ATATACTTCACCGCCGGTTT 57.006 45.000 5.76 0.00 31.02 3.27
1843 2579 9.936759 TTAAAACTTCAGACACAAAGGAAAAAT 57.063 25.926 0.00 0.00 0.00 1.82
1888 2624 3.954904 GGGGGAGAAAAATAGGAGAAAGC 59.045 47.826 0.00 0.00 0.00 3.51
1952 2691 3.560636 ACCTGATTTCATAGGAACCCG 57.439 47.619 0.00 0.00 37.52 5.28
1959 2698 2.767644 TCATAGGAACCCGGATGAGA 57.232 50.000 0.73 0.00 30.88 3.27
2280 3125 6.095440 GCAAAGATGATCTAGTTTTAAGGGCA 59.905 38.462 0.00 0.00 0.00 5.36
2386 3236 3.758554 AGGCACAAATTATGACCTGTGAC 59.241 43.478 9.36 6.65 46.26 3.67
2410 3260 5.113529 CGTTTCTCGTTTGCTATTGTTCAAC 59.886 40.000 0.00 0.00 34.52 3.18
2457 3307 8.769891 CAATTTTGGGGTGTAGTTGTTTTATTC 58.230 33.333 0.00 0.00 0.00 1.75
2477 3327 4.705110 TCTGGGAAGTTTCTCACATCAA 57.295 40.909 0.00 0.00 33.31 2.57
2686 3541 5.811399 TGCCGTCTATAATTTTGTCAAGG 57.189 39.130 0.00 0.00 0.00 3.61
2846 3703 5.822132 AAATCCATGTCTCCCTCTATCAG 57.178 43.478 0.00 0.00 0.00 2.90
2875 3732 9.269453 ACTCCCATAATATAAGAGCGTTTTTAC 57.731 33.333 0.00 0.00 0.00 2.01
2876 3733 8.301730 TCCCATAATATAAGAGCGTTTTTACG 57.698 34.615 0.00 0.00 0.00 3.18
2895 3753 6.515043 TTACGCTAGTGTAGTGTCAAAAAC 57.485 37.500 15.36 0.00 45.75 2.43
2906 3764 8.440833 GTGTAGTGTCAAAAACGCTCTTATATT 58.559 33.333 0.00 0.00 45.69 1.28
2933 3792 4.262938 GGATGGAGGGGTAGTAGTTATTGC 60.263 50.000 0.00 0.00 0.00 3.56
3119 3978 9.601810 AGAAACCCTTATCAAAAAGGTTATTCT 57.398 29.630 2.21 5.74 43.94 2.40
3211 4070 4.537135 TCAGTGGGTACAAGACATCTTC 57.463 45.455 0.00 0.00 33.11 2.87
3212 4071 3.901222 TCAGTGGGTACAAGACATCTTCA 59.099 43.478 0.00 0.00 33.11 3.02
3329 4189 9.674068 AAAAAGGATTAGAACTAGGATCTGAAC 57.326 33.333 9.82 2.19 0.00 3.18
3330 4190 6.987403 AGGATTAGAACTAGGATCTGAACC 57.013 41.667 9.82 9.59 0.00 3.62
3331 4191 6.444704 AGGATTAGAACTAGGATCTGAACCA 58.555 40.000 15.82 0.00 30.63 3.67
3332 4192 7.079048 AGGATTAGAACTAGGATCTGAACCAT 58.921 38.462 15.82 0.00 30.63 3.55
3333 4193 7.234577 AGGATTAGAACTAGGATCTGAACCATC 59.765 40.741 15.82 0.00 30.63 3.51
3334 4194 7.234577 GGATTAGAACTAGGATCTGAACCATCT 59.765 40.741 6.74 6.75 29.28 2.90
3335 4195 7.979786 TTAGAACTAGGATCTGAACCATCTT 57.020 36.000 6.74 0.00 0.00 2.40
3336 4196 9.661954 ATTAGAACTAGGATCTGAACCATCTTA 57.338 33.333 6.74 0.00 0.00 2.10
3337 4197 7.979786 AGAACTAGGATCTGAACCATCTTAA 57.020 36.000 6.74 0.00 0.00 1.85
3338 4198 8.380742 AGAACTAGGATCTGAACCATCTTAAA 57.619 34.615 6.74 0.00 0.00 1.52
3339 4199 8.826765 AGAACTAGGATCTGAACCATCTTAAAA 58.173 33.333 6.74 0.00 0.00 1.52
3340 4200 8.794335 AACTAGGATCTGAACCATCTTAAAAC 57.206 34.615 6.74 0.00 0.00 2.43
3341 4201 8.152023 ACTAGGATCTGAACCATCTTAAAACT 57.848 34.615 6.74 0.00 0.00 2.66
3342 4202 9.268282 ACTAGGATCTGAACCATCTTAAAACTA 57.732 33.333 6.74 0.00 0.00 2.24
3343 4203 9.535878 CTAGGATCTGAACCATCTTAAAACTAC 57.464 37.037 6.74 0.00 0.00 2.73
3344 4204 8.152023 AGGATCTGAACCATCTTAAAACTACT 57.848 34.615 6.74 0.00 0.00 2.57
3345 4205 8.261522 AGGATCTGAACCATCTTAAAACTACTC 58.738 37.037 6.74 0.00 0.00 2.59
3346 4206 7.222999 GGATCTGAACCATCTTAAAACTACTCG 59.777 40.741 0.00 0.00 0.00 4.18
3347 4207 7.223260 TCTGAACCATCTTAAAACTACTCGA 57.777 36.000 0.00 0.00 0.00 4.04
3348 4208 7.663827 TCTGAACCATCTTAAAACTACTCGAA 58.336 34.615 0.00 0.00 0.00 3.71
3349 4209 7.597743 TCTGAACCATCTTAAAACTACTCGAAC 59.402 37.037 0.00 0.00 0.00 3.95
3350 4210 7.439381 TGAACCATCTTAAAACTACTCGAACT 58.561 34.615 0.00 0.00 0.00 3.01
3351 4211 8.579006 TGAACCATCTTAAAACTACTCGAACTA 58.421 33.333 0.00 0.00 0.00 2.24
3352 4212 8.754230 AACCATCTTAAAACTACTCGAACTAC 57.246 34.615 0.00 0.00 0.00 2.73
3353 4213 7.889469 ACCATCTTAAAACTACTCGAACTACA 58.111 34.615 0.00 0.00 0.00 2.74
3354 4214 8.027771 ACCATCTTAAAACTACTCGAACTACAG 58.972 37.037 0.00 0.00 0.00 2.74
3355 4215 7.488471 CCATCTTAAAACTACTCGAACTACAGG 59.512 40.741 0.00 0.00 0.00 4.00
3356 4216 6.385033 TCTTAAAACTACTCGAACTACAGGC 58.615 40.000 0.00 0.00 0.00 4.85
3357 4217 4.868314 AAAACTACTCGAACTACAGGCT 57.132 40.909 0.00 0.00 0.00 4.58
3358 4218 4.437772 AAACTACTCGAACTACAGGCTC 57.562 45.455 0.00 0.00 0.00 4.70
3359 4219 3.353370 ACTACTCGAACTACAGGCTCT 57.647 47.619 0.00 0.00 0.00 4.09
3360 4220 3.688235 ACTACTCGAACTACAGGCTCTT 58.312 45.455 0.00 0.00 0.00 2.85
3361 4221 3.690628 ACTACTCGAACTACAGGCTCTTC 59.309 47.826 0.00 0.00 0.00 2.87
3362 4222 1.819903 ACTCGAACTACAGGCTCTTCC 59.180 52.381 0.00 0.00 0.00 3.46
3364 4224 2.093106 TCGAACTACAGGCTCTTCCTC 58.907 52.381 0.00 0.00 45.52 3.71
3365 4225 1.135333 CGAACTACAGGCTCTTCCTCC 59.865 57.143 0.00 0.00 45.52 4.30
3366 4226 2.462723 GAACTACAGGCTCTTCCTCCT 58.537 52.381 0.00 0.00 45.52 3.69
3367 4227 2.153034 ACTACAGGCTCTTCCTCCTC 57.847 55.000 0.00 0.00 45.52 3.71
3368 4228 1.643811 ACTACAGGCTCTTCCTCCTCT 59.356 52.381 0.00 0.00 45.52 3.69
3369 4229 2.043801 ACTACAGGCTCTTCCTCCTCTT 59.956 50.000 0.00 0.00 45.52 2.85
3370 4230 1.274712 ACAGGCTCTTCCTCCTCTTG 58.725 55.000 0.00 0.00 45.52 3.02
3371 4231 0.540923 CAGGCTCTTCCTCCTCTTGG 59.459 60.000 0.00 0.00 45.52 3.61
3372 4232 0.415429 AGGCTCTTCCTCCTCTTGGA 59.585 55.000 0.00 0.00 43.20 3.53
3373 4233 1.203364 AGGCTCTTCCTCCTCTTGGAA 60.203 52.381 0.00 0.00 43.20 3.53
3379 4239 1.645710 TCCTCCTCTTGGAAGTGACC 58.354 55.000 0.00 0.00 42.66 4.02
3380 4240 1.150135 TCCTCCTCTTGGAAGTGACCT 59.850 52.381 0.00 0.00 42.66 3.85
3381 4241 1.552792 CCTCCTCTTGGAAGTGACCTC 59.447 57.143 0.00 0.00 42.66 3.85
3382 4242 2.534990 CTCCTCTTGGAAGTGACCTCT 58.465 52.381 0.00 0.00 42.66 3.69
3383 4243 2.495669 CTCCTCTTGGAAGTGACCTCTC 59.504 54.545 0.00 0.00 42.66 3.20
3384 4244 2.158310 TCCTCTTGGAAGTGACCTCTCA 60.158 50.000 0.00 0.00 39.87 3.27
3385 4245 2.233431 CCTCTTGGAAGTGACCTCTCAG 59.767 54.545 0.00 0.00 34.57 3.35
3386 4246 2.233431 CTCTTGGAAGTGACCTCTCAGG 59.767 54.545 0.00 0.00 42.49 3.86
3387 4247 2.158310 TCTTGGAAGTGACCTCTCAGGA 60.158 50.000 0.00 0.00 37.67 3.86
3388 4248 1.930251 TGGAAGTGACCTCTCAGGAG 58.070 55.000 0.00 0.00 37.67 3.69
3396 4256 2.695597 CTCTCAGGAGGGGAGGCT 59.304 66.667 0.00 0.00 36.03 4.58
3397 4257 1.002792 CTCTCAGGAGGGGAGGCTT 59.997 63.158 0.00 0.00 36.03 4.35
3398 4258 1.002274 TCTCAGGAGGGGAGGCTTC 59.998 63.158 0.00 0.00 33.18 3.86
3399 4259 2.364317 TCAGGAGGGGAGGCTTCG 60.364 66.667 0.00 0.00 0.00 3.79
3400 4260 3.474570 CAGGAGGGGAGGCTTCGG 61.475 72.222 0.00 0.00 0.00 4.30
3401 4261 4.806339 AGGAGGGGAGGCTTCGGG 62.806 72.222 0.00 0.00 0.00 5.14
3403 4263 3.009714 GAGGGGAGGCTTCGGGTT 61.010 66.667 0.00 0.00 0.00 4.11
3404 4264 2.531942 AGGGGAGGCTTCGGGTTT 60.532 61.111 0.00 0.00 0.00 3.27
3405 4265 2.045242 GGGGAGGCTTCGGGTTTC 60.045 66.667 0.00 0.00 0.00 2.78
3406 4266 2.754375 GGGAGGCTTCGGGTTTCA 59.246 61.111 0.00 0.00 0.00 2.69
3407 4267 1.674651 GGGAGGCTTCGGGTTTCAC 60.675 63.158 0.00 0.00 0.00 3.18
3408 4268 1.072505 GGAGGCTTCGGGTTTCACA 59.927 57.895 0.00 0.00 0.00 3.58
3409 4269 0.536460 GGAGGCTTCGGGTTTCACAA 60.536 55.000 0.00 0.00 0.00 3.33
3410 4270 0.591659 GAGGCTTCGGGTTTCACAAC 59.408 55.000 0.00 0.00 0.00 3.32
3411 4271 0.182775 AGGCTTCGGGTTTCACAACT 59.817 50.000 0.00 0.00 32.90 3.16
3412 4272 1.029681 GGCTTCGGGTTTCACAACTT 58.970 50.000 0.00 0.00 32.90 2.66
3413 4273 1.407618 GGCTTCGGGTTTCACAACTTT 59.592 47.619 0.00 0.00 32.90 2.66
3414 4274 2.159156 GGCTTCGGGTTTCACAACTTTT 60.159 45.455 0.00 0.00 32.90 2.27
3415 4275 2.857748 GCTTCGGGTTTCACAACTTTTG 59.142 45.455 0.00 0.00 32.90 2.44
3416 4276 2.570442 TCGGGTTTCACAACTTTTGC 57.430 45.000 0.00 0.00 32.90 3.68
3417 4277 1.819288 TCGGGTTTCACAACTTTTGCA 59.181 42.857 0.00 0.00 32.90 4.08
3418 4278 2.159310 TCGGGTTTCACAACTTTTGCAG 60.159 45.455 0.00 0.00 32.90 4.41
3419 4279 2.159310 CGGGTTTCACAACTTTTGCAGA 60.159 45.455 0.00 0.00 32.90 4.26
3420 4280 3.186909 GGGTTTCACAACTTTTGCAGAC 58.813 45.455 0.00 0.00 32.90 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1032 1091 0.380378 TTGTCGTTGTTTGCTGCCTC 59.620 50.000 0.00 0.0 0.00 4.70
1047 1106 2.093106 TCTCTCTCTAACCCGCTTGTC 58.907 52.381 0.00 0.0 0.00 3.18
1050 1109 2.650322 CTCTCTCTCTCTAACCCGCTT 58.350 52.381 0.00 0.0 0.00 4.68
1054 1113 2.781174 TCTCCCTCTCTCTCTCTAACCC 59.219 54.545 0.00 0.0 0.00 4.11
1057 1116 4.890988 TCTCTCTCCCTCTCTCTCTCTAA 58.109 47.826 0.00 0.0 0.00 2.10
1059 1118 3.051803 TCTCTCTCTCCCTCTCTCTCTCT 60.052 52.174 0.00 0.0 0.00 3.10
1060 1119 3.309296 TCTCTCTCTCCCTCTCTCTCTC 58.691 54.545 0.00 0.0 0.00 3.20
1061 1120 3.312890 CTCTCTCTCTCCCTCTCTCTCT 58.687 54.545 0.00 0.0 0.00 3.10
1062 1121 2.370189 CCTCTCTCTCTCCCTCTCTCTC 59.630 59.091 0.00 0.0 0.00 3.20
1063 1122 2.022035 TCCTCTCTCTCTCCCTCTCTCT 60.022 54.545 0.00 0.0 0.00 3.10
1064 1123 2.408565 TCCTCTCTCTCTCCCTCTCTC 58.591 57.143 0.00 0.0 0.00 3.20
1065 1124 2.587060 TCCTCTCTCTCTCCCTCTCT 57.413 55.000 0.00 0.0 0.00 3.10
1066 1125 2.777692 TCTTCCTCTCTCTCTCCCTCTC 59.222 54.545 0.00 0.0 0.00 3.20
1067 1126 2.780010 CTCTTCCTCTCTCTCTCCCTCT 59.220 54.545 0.00 0.0 0.00 3.69
1069 1128 2.780010 CTCTCTTCCTCTCTCTCTCCCT 59.220 54.545 0.00 0.0 0.00 4.20
1070 1129 2.777692 TCTCTCTTCCTCTCTCTCTCCC 59.222 54.545 0.00 0.0 0.00 4.30
1071 1130 3.711704 TCTCTCTCTTCCTCTCTCTCTCC 59.288 52.174 0.00 0.0 0.00 3.71
1072 1131 4.651503 TCTCTCTCTCTTCCTCTCTCTCTC 59.348 50.000 0.00 0.0 0.00 3.20
1073 1132 4.624913 TCTCTCTCTCTTCCTCTCTCTCT 58.375 47.826 0.00 0.0 0.00 3.10
1074 1133 4.651503 TCTCTCTCTCTCTTCCTCTCTCTC 59.348 50.000 0.00 0.0 0.00 3.20
1075 1134 4.624913 TCTCTCTCTCTCTTCCTCTCTCT 58.375 47.826 0.00 0.0 0.00 3.10
1076 1135 4.651503 TCTCTCTCTCTCTCTTCCTCTCTC 59.348 50.000 0.00 0.0 0.00 3.20
1077 1136 4.624913 TCTCTCTCTCTCTCTTCCTCTCT 58.375 47.826 0.00 0.0 0.00 3.10
1078 1137 4.651503 TCTCTCTCTCTCTCTCTTCCTCTC 59.348 50.000 0.00 0.0 0.00 3.20
1079 1138 4.624913 TCTCTCTCTCTCTCTCTTCCTCT 58.375 47.826 0.00 0.0 0.00 3.69
1080 1139 4.651503 TCTCTCTCTCTCTCTCTCTTCCTC 59.348 50.000 0.00 0.0 0.00 3.71
1081 1140 4.624913 TCTCTCTCTCTCTCTCTCTTCCT 58.375 47.826 0.00 0.0 0.00 3.36
1082 1141 4.651503 TCTCTCTCTCTCTCTCTCTCTTCC 59.348 50.000 0.00 0.0 0.00 3.46
1083 1142 5.596361 TCTCTCTCTCTCTCTCTCTCTCTTC 59.404 48.000 0.00 0.0 0.00 2.87
1084 1143 5.523588 TCTCTCTCTCTCTCTCTCTCTCTT 58.476 45.833 0.00 0.0 0.00 2.85
1108 1167 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1109 1168 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1110 1169 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1111 1170 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1112 1171 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1113 1172 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1114 1173 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1115 1174 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1116 1175 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1117 1176 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1118 1177 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1119 1178 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1120 1179 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1121 1180 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1122 1181 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1123 1182 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1124 1183 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1125 1184 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1126 1185 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1127 1186 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1128 1187 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1129 1188 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1130 1189 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1131 1190 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.0 0.00 3.10
1132 1191 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.0 0.00 3.20
1133 1192 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.0 0.00 3.10
1134 1193 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.0 0.00 3.20
1135 1194 4.078922 TCCTCTCTCTCTCTCTCTCTCTCT 60.079 50.000 0.00 0.0 0.00 3.10
1136 1195 4.219115 TCCTCTCTCTCTCTCTCTCTCTC 58.781 52.174 0.00 0.0 0.00 3.20
1137 1196 4.222336 CTCCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.0 0.00 3.10
1138 1197 3.323403 CCTCCTCTCTCTCTCTCTCTCTC 59.677 56.522 0.00 0.0 0.00 3.20
1139 1198 3.051803 TCCTCCTCTCTCTCTCTCTCTCT 60.052 52.174 0.00 0.0 0.00 3.10
1140 1199 3.070302 GTCCTCCTCTCTCTCTCTCTCTC 59.930 56.522 0.00 0.0 0.00 3.20
1141 1200 3.041946 GTCCTCCTCTCTCTCTCTCTCT 58.958 54.545 0.00 0.0 0.00 3.10
1142 1201 2.224066 CGTCCTCCTCTCTCTCTCTCTC 60.224 59.091 0.00 0.0 0.00 3.20
1143 1202 1.762957 CGTCCTCCTCTCTCTCTCTCT 59.237 57.143 0.00 0.0 0.00 3.10
1144 1203 1.760613 TCGTCCTCCTCTCTCTCTCTC 59.239 57.143 0.00 0.0 0.00 3.20
1145 1204 1.874129 TCGTCCTCCTCTCTCTCTCT 58.126 55.000 0.00 0.0 0.00 3.10
1146 1205 2.561569 CTTCGTCCTCCTCTCTCTCTC 58.438 57.143 0.00 0.0 0.00 3.20
1147 1206 1.211949 CCTTCGTCCTCCTCTCTCTCT 59.788 57.143 0.00 0.0 0.00 3.10
1148 1207 1.210967 TCCTTCGTCCTCCTCTCTCTC 59.789 57.143 0.00 0.0 0.00 3.20
1149 1208 1.211949 CTCCTTCGTCCTCCTCTCTCT 59.788 57.143 0.00 0.0 0.00 3.10
1150 1209 1.675552 CTCCTTCGTCCTCCTCTCTC 58.324 60.000 0.00 0.0 0.00 3.20
1151 1210 0.257616 CCTCCTTCGTCCTCCTCTCT 59.742 60.000 0.00 0.0 0.00 3.10
1152 1211 0.256464 TCCTCCTTCGTCCTCCTCTC 59.744 60.000 0.00 0.0 0.00 3.20
1153 1212 0.705253 TTCCTCCTTCGTCCTCCTCT 59.295 55.000 0.00 0.0 0.00 3.69
1317 1413 0.534412 AGCTGCAGACGTGATTAGCT 59.466 50.000 20.43 0.0 34.25 3.32
1396 1492 1.775039 GCGCACACACACACATGTCT 61.775 55.000 0.30 0.0 36.72 3.41
1398 1494 0.531753 TAGCGCACACACACACATGT 60.532 50.000 11.47 0.0 40.80 3.21
1399 1495 0.110688 GTAGCGCACACACACACATG 60.111 55.000 11.47 0.0 0.00 3.21
1400 1496 0.249868 AGTAGCGCACACACACACAT 60.250 50.000 11.47 0.0 0.00 3.21
1462 1561 4.854784 GCGCGTCCGATGCTCTCA 62.855 66.667 8.43 0.0 36.29 3.27
1483 1582 9.924650 CCTAACGATAAATTTAGCTACACCTAT 57.075 33.333 11.41 0.0 0.00 2.57
1484 1583 9.135189 TCCTAACGATAAATTTAGCTACACCTA 57.865 33.333 11.41 0.0 0.00 3.08
1495 1700 8.606602 GGTTAACGTGATCCTAACGATAAATTT 58.393 33.333 10.66 0.0 43.68 1.82
1647 1959 2.196595 TCCAATCGTTTCTCCTCCCAT 58.803 47.619 0.00 0.0 0.00 4.00
1680 1992 3.756117 GGCCTTCTTTCTTCTTCCTCAA 58.244 45.455 0.00 0.0 0.00 3.02
1726 2459 2.048601 TGGGTAAGTCGGTTTTCTGGA 58.951 47.619 0.00 0.0 0.00 3.86
1797 2530 2.994186 ACCGGCGGTGAAGTATATTT 57.006 45.000 33.71 0.0 32.98 1.40
1818 2551 9.364989 CATTTTTCCTTTGTGTCTGAAGTTTTA 57.635 29.630 0.00 0.0 0.00 1.52
1843 2579 7.292356 CCCCTACATATGCCTATAATCCATACA 59.708 40.741 1.58 0.0 0.00 2.29
1888 2624 4.609301 TGGAGGAAAATAAACATGAGGGG 58.391 43.478 0.00 0.0 0.00 4.79
1952 2691 3.569701 ACCATGTTGTGTTGTTCTCATCC 59.430 43.478 0.00 0.0 0.00 3.51
1959 2698 1.098869 TGCGACCATGTTGTGTTGTT 58.901 45.000 0.00 0.0 0.00 2.83
2039 2801 6.769822 ACATATATGGTTCTTTGGCTGAAGAG 59.230 38.462 16.96 0.0 37.01 2.85
2174 3015 7.028361 CCTGCGGGTTAAAACGAAATAAATTA 58.972 34.615 2.29 0.0 0.00 1.40
2175 3016 5.865013 CCTGCGGGTTAAAACGAAATAAATT 59.135 36.000 2.29 0.0 0.00 1.82
2176 3017 5.183522 TCCTGCGGGTTAAAACGAAATAAAT 59.816 36.000 12.43 0.0 0.00 1.40
2184 3028 0.519961 CCTTCCTGCGGGTTAAAACG 59.480 55.000 12.43 0.0 0.00 3.60
2209 3054 0.961753 GCTTTTGTAGGCTTGCCAGT 59.038 50.000 14.54 0.0 0.00 4.00
2247 3092 7.608308 AACTAGATCATCTTTGCTTGAGTTC 57.392 36.000 0.00 0.0 0.00 3.01
2280 3125 7.607991 CCAATTCTAGTAATTGAGTCCAGTGTT 59.392 37.037 20.22 0.0 39.36 3.32
2457 3307 4.136796 TGTTGATGTGAGAAACTTCCCAG 58.863 43.478 0.00 0.0 33.09 4.45
2846 3703 8.828688 AAACGCTCTTATATTATGGGAGTAAC 57.171 34.615 0.00 0.0 0.00 2.50
2874 3731 3.488310 CGTTTTTGACACTACACTAGCGT 59.512 43.478 0.00 0.0 0.00 5.07
2875 3732 3.660904 GCGTTTTTGACACTACACTAGCG 60.661 47.826 0.00 0.0 0.00 4.26
2876 3733 3.493503 AGCGTTTTTGACACTACACTAGC 59.506 43.478 0.00 0.0 0.00 3.42
2895 3753 5.453903 CCCTCCATCCCATAATATAAGAGCG 60.454 48.000 0.00 0.0 0.00 5.03
2906 3764 3.076735 ACTACTACCCCTCCATCCCATA 58.923 50.000 0.00 0.0 0.00 2.74
3211 4070 6.359804 TCTTCTATTGTTGAGATGGGGAATG 58.640 40.000 0.00 0.0 0.00 2.67
3212 4071 6.581388 TCTTCTATTGTTGAGATGGGGAAT 57.419 37.500 0.00 0.0 0.00 3.01
3271 4131 9.602568 CCATTTTGTAAATCCATGATCAAATCA 57.397 29.630 0.00 0.0 44.55 2.57
3314 4174 8.884726 GTTTTAAGATGGTTCAGATCCTAGTTC 58.115 37.037 0.00 0.0 0.00 3.01
3320 4180 7.222999 CGAGTAGTTTTAAGATGGTTCAGATCC 59.777 40.741 0.00 0.0 0.00 3.36
3321 4181 7.974501 TCGAGTAGTTTTAAGATGGTTCAGATC 59.025 37.037 0.00 0.0 0.00 2.75
3322 4182 7.837863 TCGAGTAGTTTTAAGATGGTTCAGAT 58.162 34.615 0.00 0.0 0.00 2.90
3323 4183 7.223260 TCGAGTAGTTTTAAGATGGTTCAGA 57.777 36.000 0.00 0.0 0.00 3.27
3324 4184 7.599245 AGTTCGAGTAGTTTTAAGATGGTTCAG 59.401 37.037 0.00 0.0 0.00 3.02
3325 4185 7.439381 AGTTCGAGTAGTTTTAAGATGGTTCA 58.561 34.615 0.00 0.0 0.00 3.18
3326 4186 7.886405 AGTTCGAGTAGTTTTAAGATGGTTC 57.114 36.000 0.00 0.0 0.00 3.62
3327 4187 8.362639 TGTAGTTCGAGTAGTTTTAAGATGGTT 58.637 33.333 0.00 0.0 0.00 3.67
3328 4188 7.889469 TGTAGTTCGAGTAGTTTTAAGATGGT 58.111 34.615 0.00 0.0 0.00 3.55
3329 4189 7.488471 CCTGTAGTTCGAGTAGTTTTAAGATGG 59.512 40.741 0.00 0.0 0.00 3.51
3330 4190 7.009357 GCCTGTAGTTCGAGTAGTTTTAAGATG 59.991 40.741 0.00 0.0 0.00 2.90
3331 4191 7.034397 GCCTGTAGTTCGAGTAGTTTTAAGAT 58.966 38.462 0.00 0.0 0.00 2.40
3332 4192 6.208204 AGCCTGTAGTTCGAGTAGTTTTAAGA 59.792 38.462 0.00 0.0 0.00 2.10
3333 4193 6.388278 AGCCTGTAGTTCGAGTAGTTTTAAG 58.612 40.000 0.00 0.0 0.00 1.85
3334 4194 6.208204 AGAGCCTGTAGTTCGAGTAGTTTTAA 59.792 38.462 0.00 0.0 0.00 1.52
3335 4195 5.709164 AGAGCCTGTAGTTCGAGTAGTTTTA 59.291 40.000 0.00 0.0 0.00 1.52
3336 4196 4.523558 AGAGCCTGTAGTTCGAGTAGTTTT 59.476 41.667 0.00 0.0 0.00 2.43
3337 4197 4.080687 AGAGCCTGTAGTTCGAGTAGTTT 58.919 43.478 0.00 0.0 0.00 2.66
3338 4198 3.688235 AGAGCCTGTAGTTCGAGTAGTT 58.312 45.455 0.00 0.0 0.00 2.24
3339 4199 3.353370 AGAGCCTGTAGTTCGAGTAGT 57.647 47.619 0.00 0.0 0.00 2.73
3340 4200 3.065648 GGAAGAGCCTGTAGTTCGAGTAG 59.934 52.174 0.00 0.0 0.00 2.57
3341 4201 3.015327 GGAAGAGCCTGTAGTTCGAGTA 58.985 50.000 0.00 0.0 0.00 2.59
3342 4202 1.819903 GGAAGAGCCTGTAGTTCGAGT 59.180 52.381 0.00 0.0 0.00 4.18
3343 4203 2.570442 GGAAGAGCCTGTAGTTCGAG 57.430 55.000 0.00 0.0 0.00 4.04
3354 4214 1.280457 TTCCAAGAGGAGGAAGAGCC 58.720 55.000 0.00 0.0 46.74 4.70
3359 4219 1.978580 GGTCACTTCCAAGAGGAGGAA 59.021 52.381 0.32 0.0 46.74 3.36
3360 4220 1.150135 AGGTCACTTCCAAGAGGAGGA 59.850 52.381 0.32 0.0 46.74 3.71
3361 4221 1.552792 GAGGTCACTTCCAAGAGGAGG 59.447 57.143 0.00 0.0 46.74 4.30
3362 4222 2.495669 GAGAGGTCACTTCCAAGAGGAG 59.504 54.545 0.00 0.0 46.74 3.69
3363 4223 2.158310 TGAGAGGTCACTTCCAAGAGGA 60.158 50.000 0.00 0.0 43.93 3.71
3364 4224 2.233431 CTGAGAGGTCACTTCCAAGAGG 59.767 54.545 0.00 0.0 0.00 3.69
3365 4225 2.233431 CCTGAGAGGTCACTTCCAAGAG 59.767 54.545 0.00 0.0 0.00 2.85
3366 4226 2.158310 TCCTGAGAGGTCACTTCCAAGA 60.158 50.000 0.00 0.0 36.53 3.02
3367 4227 2.233431 CTCCTGAGAGGTCACTTCCAAG 59.767 54.545 0.00 0.0 36.53 3.61
3368 4228 2.251818 CTCCTGAGAGGTCACTTCCAA 58.748 52.381 0.00 0.0 36.53 3.53
3369 4229 1.930251 CTCCTGAGAGGTCACTTCCA 58.070 55.000 0.00 0.0 36.53 3.53
3379 4239 1.002792 AAGCCTCCCCTCCTGAGAG 59.997 63.158 0.00 0.0 40.09 3.20
3380 4240 1.002274 GAAGCCTCCCCTCCTGAGA 59.998 63.158 0.00 0.0 31.26 3.27
3381 4241 2.430610 CGAAGCCTCCCCTCCTGAG 61.431 68.421 0.00 0.0 0.00 3.35
3382 4242 2.364317 CGAAGCCTCCCCTCCTGA 60.364 66.667 0.00 0.0 0.00 3.86
3383 4243 3.474570 CCGAAGCCTCCCCTCCTG 61.475 72.222 0.00 0.0 0.00 3.86
3384 4244 4.806339 CCCGAAGCCTCCCCTCCT 62.806 72.222 0.00 0.0 0.00 3.69
3386 4246 2.538512 GAAACCCGAAGCCTCCCCTC 62.539 65.000 0.00 0.0 0.00 4.30
3387 4247 2.531942 AAACCCGAAGCCTCCCCT 60.532 61.111 0.00 0.0 0.00 4.79
3388 4248 2.045242 GAAACCCGAAGCCTCCCC 60.045 66.667 0.00 0.0 0.00 4.81
3389 4249 1.674651 GTGAAACCCGAAGCCTCCC 60.675 63.158 0.00 0.0 0.00 4.30
3390 4250 0.536460 TTGTGAAACCCGAAGCCTCC 60.536 55.000 0.00 0.0 34.36 4.30
3391 4251 0.591659 GTTGTGAAACCCGAAGCCTC 59.408 55.000 0.00 0.0 34.36 4.70
3392 4252 0.182775 AGTTGTGAAACCCGAAGCCT 59.817 50.000 0.00 0.0 34.36 4.58
3393 4253 1.029681 AAGTTGTGAAACCCGAAGCC 58.970 50.000 0.00 0.0 34.36 4.35
3394 4254 2.857748 CAAAAGTTGTGAAACCCGAAGC 59.142 45.455 0.00 0.0 34.36 3.86
3395 4255 2.857748 GCAAAAGTTGTGAAACCCGAAG 59.142 45.455 0.00 0.0 34.36 3.79
3396 4256 2.231478 TGCAAAAGTTGTGAAACCCGAA 59.769 40.909 0.00 0.0 34.36 4.30
3397 4257 1.819288 TGCAAAAGTTGTGAAACCCGA 59.181 42.857 0.00 0.0 34.36 5.14
3398 4258 2.159310 TCTGCAAAAGTTGTGAAACCCG 60.159 45.455 0.00 0.0 34.36 5.28
3399 4259 3.186909 GTCTGCAAAAGTTGTGAAACCC 58.813 45.455 0.00 0.0 34.36 4.11


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

AutoCloner maintained by Alex Coulton.