Multiple sequence alignment - TraesCS7B01G177100

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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 TraesCS7B01G177100 chr7B 100.000 5056 0 0 2475 7530 252681324 252686379 0.000000e+00 9337.0
1 TraesCS7B01G177100 chr7B 100.000 2118 0 0 1 2118 252678850 252680967 0.000000e+00 3912.0
2 TraesCS7B01G177100 chr7B 92.608 947 61 7 1 940 389009895 389008951 0.000000e+00 1352.0
3 TraesCS7B01G177100 chr7B 88.272 1134 99 21 5880 6983 566480762 566479633 0.000000e+00 1327.0
4 TraesCS7B01G177100 chr7B 92.097 949 59 11 1 942 635041665 635040726 0.000000e+00 1323.0
5 TraesCS7B01G177100 chr7B 90.773 737 58 7 2503 3234 566482173 566481442 0.000000e+00 976.0
6 TraesCS7B01G177100 chr7B 90.860 558 47 4 5300 5855 566481380 566480825 0.000000e+00 745.0
7 TraesCS7B01G177100 chr7B 84.000 425 56 6 1087 1505 566482959 566482541 1.520000e-106 398.0
8 TraesCS7B01G177100 chr7B 79.870 154 16 4 1980 2118 566482366 566482213 1.730000e-16 99.0
9 TraesCS7B01G177100 chr7D 95.332 2999 69 23 4132 7091 282872526 282869560 0.000000e+00 4697.0
10 TraesCS7B01G177100 chr7D 97.018 1643 44 3 2493 4133 282877442 282875803 0.000000e+00 2758.0
11 TraesCS7B01G177100 chr7D 87.179 1131 112 21 5880 6983 528904200 528903076 0.000000e+00 1254.0
12 TraesCS7B01G177100 chr7D 90.860 744 64 3 2493 3234 528906537 528905796 0.000000e+00 994.0
13 TraesCS7B01G177100 chr7D 93.785 531 31 2 5308 5837 528905776 528905247 0.000000e+00 797.0
14 TraesCS7B01G177100 chr7D 95.908 391 6 2 1087 1477 282879083 282878703 6.420000e-175 625.0
15 TraesCS7B01G177100 chr7D 91.139 395 14 2 1695 2087 282878113 282877738 4.030000e-142 516.0
16 TraesCS7B01G177100 chr7D 99.091 220 2 0 1472 1691 282878603 282878384 5.480000e-106 396.0
17 TraesCS7B01G177100 chr7D 86.567 335 41 2 1087 1417 528907301 528906967 4.290000e-97 366.0
18 TraesCS7B01G177100 chr7D 86.494 348 13 13 7178 7491 282869561 282869214 1.200000e-92 351.0
19 TraesCS7B01G177100 chr7D 83.158 285 41 5 1696 1978 41436313 41436034 3.490000e-63 254.0
20 TraesCS7B01G177100 chr7D 94.326 141 1 4 940 1073 282879206 282879066 7.660000e-50 209.0
21 TraesCS7B01G177100 chr7D 85.616 146 16 4 1976 2118 528906710 528906567 1.690000e-31 148.0
22 TraesCS7B01G177100 chr7D 94.872 39 2 0 7146 7184 5041201 5041163 2.270000e-05 62.1
23 TraesCS7B01G177100 chr7D 97.059 34 1 0 7105 7138 361747079 361747046 2.930000e-04 58.4
24 TraesCS7B01G177100 chr7A 95.402 2762 67 18 4379 7086 314417412 314420167 0.000000e+00 4342.0
25 TraesCS7B01G177100 chr7A 96.659 1646 51 2 2490 4133 314411996 314413639 0.000000e+00 2732.0
26 TraesCS7B01G177100 chr7A 95.900 1000 24 7 1087 2076 314410645 314411637 0.000000e+00 1604.0
27 TraesCS7B01G177100 chr7A 92.211 950 63 10 2 943 174709458 174710404 0.000000e+00 1334.0
28 TraesCS7B01G177100 chr7A 92.072 946 64 7 2 942 586320295 586319356 0.000000e+00 1321.0
29 TraesCS7B01G177100 chr7A 85.915 1136 104 20 5880 6983 608675117 608674006 0.000000e+00 1160.0
30 TraesCS7B01G177100 chr7A 90.934 739 57 7 2504 3234 608676530 608675794 0.000000e+00 985.0
31 TraesCS7B01G177100 chr7A 91.171 555 44 5 5303 5855 608675732 608675181 0.000000e+00 749.0
32 TraesCS7B01G177100 chr7A 97.251 291 7 1 4132 4421 314417134 314417424 6.790000e-135 492.0
33 TraesCS7B01G177100 chr7A 85.714 343 36 8 1087 1417 608677359 608677018 4.320000e-92 350.0
34 TraesCS7B01G177100 chr7A 86.751 317 22 7 7178 7491 314420169 314420468 1.210000e-87 335.0
35 TraesCS7B01G177100 chr7A 96.377 138 1 1 940 1073 314410525 314410662 2.730000e-54 224.0
36 TraesCS7B01G177100 chr6B 93.524 942 52 5 1 937 695471032 695470095 0.000000e+00 1393.0
37 TraesCS7B01G177100 chr6B 82.807 285 42 5 1696 1978 170346737 170347016 1.620000e-61 248.0
38 TraesCS7B01G177100 chr6B 83.154 279 32 11 3230 3499 657620407 657620679 2.710000e-59 241.0
39 TraesCS7B01G177100 chr6B 97.059 34 1 0 7105 7138 189803197 189803230 2.930000e-04 58.4
40 TraesCS7B01G177100 chr6B 97.059 34 1 0 7105 7138 453407550 453407583 2.930000e-04 58.4
41 TraesCS7B01G177100 chr6B 94.595 37 2 0 7147 7183 555808013 555808049 2.930000e-04 58.4
42 TraesCS7B01G177100 chr6D 93.143 948 59 4 1 944 283793354 283794299 0.000000e+00 1386.0
43 TraesCS7B01G177100 chr6D 97.727 44 1 0 7139 7182 313026779 313026822 8.100000e-10 76.8
44 TraesCS7B01G177100 chr6D 97.059 34 1 0 7105 7138 45481815 45481782 2.930000e-04 58.4
45 TraesCS7B01G177100 chr6D 97.059 34 1 0 7105 7138 386699683 386699650 2.930000e-04 58.4
46 TraesCS7B01G177100 chr6D 97.059 34 1 0 7105 7138 410110856 410110889 2.930000e-04 58.4
47 TraesCS7B01G177100 chr6D 97.059 34 1 0 7105 7138 432036256 432036289 2.930000e-04 58.4
48 TraesCS7B01G177100 chr4B 93.256 949 49 12 1 942 191193475 191192535 0.000000e+00 1384.0
49 TraesCS7B01G177100 chr1D 92.955 951 56 7 1 942 19036930 19037878 0.000000e+00 1375.0
50 TraesCS7B01G177100 chr1D 82.517 286 41 6 1696 1977 278421860 278422140 7.550000e-60 243.0
51 TraesCS7B01G177100 chr1D 95.000 40 1 1 7145 7184 403516079 403516041 2.270000e-05 62.1
52 TraesCS7B01G177100 chr1D 94.286 35 2 0 7105 7139 203876345 203876311 4.000000e-03 54.7
53 TraesCS7B01G177100 chr5B 92.332 952 59 10 1 942 511344498 511343551 0.000000e+00 1341.0
54 TraesCS7B01G177100 chr5B 80.612 98 13 4 7087 7183 664024322 664024230 3.770000e-08 71.3
55 TraesCS7B01G177100 chr5B 97.143 35 1 0 7105 7139 290935204 290935170 8.160000e-05 60.2
56 TraesCS7B01G177100 chr5B 94.872 39 1 1 7145 7183 542989737 542989700 8.160000e-05 60.2
57 TraesCS7B01G177100 chr5B 97.059 34 1 0 7105 7138 466429634 466429667 2.930000e-04 58.4
58 TraesCS7B01G177100 chr4D 92.219 951 62 8 1 943 383893180 383892234 0.000000e+00 1336.0
59 TraesCS7B01G177100 chr4D 83.158 285 41 4 1696 1978 99208902 99208623 3.490000e-63 254.0
60 TraesCS7B01G177100 chr2B 92.211 950 64 6 1 942 71376429 71377376 0.000000e+00 1336.0
61 TraesCS7B01G177100 chr2B 97.143 35 1 0 7105 7139 185961261 185961295 8.160000e-05 60.2
62 TraesCS7B01G177100 chrUn 84.582 467 65 4 3600 4065 20926328 20925868 2.480000e-124 457.0
63 TraesCS7B01G177100 chr3A 82.650 317 35 9 3223 3524 51283272 51283583 5.790000e-66 263.0
64 TraesCS7B01G177100 chr3A 80.000 95 12 4 7090 7183 397141457 397141369 6.310000e-06 63.9
65 TraesCS7B01G177100 chr5D 81.469 286 44 6 1696 1977 102114064 102113784 7.600000e-55 226.0
66 TraesCS7B01G177100 chr5D 80.603 232 38 6 3244 3473 552776872 552776646 1.000000e-38 172.0
67 TraesCS7B01G177100 chr5D 90.476 63 6 0 1696 1758 216015223 216015161 4.840000e-12 84.2
68 TraesCS7B01G177100 chr5D 83.582 67 11 0 1685 1751 247224354 247224288 6.310000e-06 63.9
69 TraesCS7B01G177100 chr4A 80.702 285 48 5 1696 1978 587336373 587336094 1.650000e-51 215.0
70 TraesCS7B01G177100 chr4A 80.172 232 39 6 3244 3473 615224349 615224575 4.670000e-37 167.0
71 TraesCS7B01G177100 chr1A 79.859 283 50 5 1696 1976 565352062 565352339 4.610000e-47 200.0
72 TraesCS7B01G177100 chr1A 91.304 46 4 0 7139 7184 554368332 554368377 6.310000e-06 63.9
73 TraesCS7B01G177100 chr1A 95.000 40 1 1 7145 7184 498666571 498666533 2.270000e-05 62.1
74 TraesCS7B01G177100 chr1A 97.059 34 1 0 7105 7138 99183117 99183084 2.930000e-04 58.4
75 TraesCS7B01G177100 chr1A 97.059 34 1 0 7105 7138 292421313 292421346 2.930000e-04 58.4
76 TraesCS7B01G177100 chr2A 83.482 224 19 12 3269 3486 447145470 447145681 7.710000e-45 193.0
77 TraesCS7B01G177100 chr2A 79.762 252 41 7 3234 3480 767031735 767031489 2.790000e-39 174.0
78 TraesCS7B01G177100 chr2A 93.878 49 0 1 7090 7138 746945826 746945781 3.770000e-08 71.3
79 TraesCS7B01G177100 chr2D 83.182 220 19 12 3273 3486 336965634 336965841 1.290000e-42 185.0
80 TraesCS7B01G177100 chr2D 97.059 34 1 0 7105 7138 628730308 628730341 2.930000e-04 58.4
81 TraesCS7B01G177100 chr2D 100.000 28 0 0 7154 7181 624976503 624976530 1.400000e-02 52.8
82 TraesCS7B01G177100 chr3D 85.075 67 10 0 1685 1751 522587853 522587919 1.360000e-07 69.4
83 TraesCS7B01G177100 chr3D 94.737 38 2 0 7146 7183 324311131 324311168 8.160000e-05 60.2
84 TraesCS7B01G177100 chr3D 97.059 34 1 0 7105 7138 346218737 346218704 2.930000e-04 58.4
85 TraesCS7B01G177100 chr3D 100.000 30 0 0 7109 7138 328514888 328514859 1.000000e-03 56.5
86 TraesCS7B01G177100 chr6A 97.143 35 1 0 7105 7139 521438472 521438506 8.160000e-05 60.2
87 TraesCS7B01G177100 chr6A 100.000 30 0 0 7109 7138 549230403 549230432 1.000000e-03 56.5
88 TraesCS7B01G177100 chr3B 94.872 39 1 1 7146 7184 757951877 757951914 8.160000e-05 60.2


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 TraesCS7B01G177100 chr7B 252678850 252686379 7529 False 6624.500000 9337 100.000000 1 7530 2 chr7B.!!$F1 7529
1 TraesCS7B01G177100 chr7B 389008951 389009895 944 True 1352.000000 1352 92.608000 1 940 1 chr7B.!!$R1 939
2 TraesCS7B01G177100 chr7B 635040726 635041665 939 True 1323.000000 1323 92.097000 1 942 1 chr7B.!!$R2 941
3 TraesCS7B01G177100 chr7B 566479633 566482959 3326 True 709.000000 1327 86.755000 1087 6983 5 chr7B.!!$R3 5896
4 TraesCS7B01G177100 chr7D 282869214 282879206 9992 True 1364.571429 4697 94.186857 940 7491 7 chr7D.!!$R4 6551
5 TraesCS7B01G177100 chr7D 528903076 528907301 4225 True 711.800000 1254 88.801400 1087 6983 5 chr7D.!!$R5 5896
6 TraesCS7B01G177100 chr7A 314410525 314420468 9943 False 1621.500000 4342 94.723333 940 7491 6 chr7A.!!$F2 6551
7 TraesCS7B01G177100 chr7A 174709458 174710404 946 False 1334.000000 1334 92.211000 2 943 1 chr7A.!!$F1 941
8 TraesCS7B01G177100 chr7A 586319356 586320295 939 True 1321.000000 1321 92.072000 2 942 1 chr7A.!!$R1 940
9 TraesCS7B01G177100 chr7A 608674006 608677359 3353 True 811.000000 1160 88.433500 1087 6983 4 chr7A.!!$R2 5896
10 TraesCS7B01G177100 chr6B 695470095 695471032 937 True 1393.000000 1393 93.524000 1 937 1 chr6B.!!$R1 936
11 TraesCS7B01G177100 chr6D 283793354 283794299 945 False 1386.000000 1386 93.143000 1 944 1 chr6D.!!$F1 943
12 TraesCS7B01G177100 chr4B 191192535 191193475 940 True 1384.000000 1384 93.256000 1 942 1 chr4B.!!$R1 941
13 TraesCS7B01G177100 chr1D 19036930 19037878 948 False 1375.000000 1375 92.955000 1 942 1 chr1D.!!$F1 941
14 TraesCS7B01G177100 chr5B 511343551 511344498 947 True 1341.000000 1341 92.332000 1 942 1 chr5B.!!$R2 941
15 TraesCS7B01G177100 chr4D 383892234 383893180 946 True 1336.000000 1336 92.219000 1 943 1 chr4D.!!$R2 942
16 TraesCS7B01G177100 chr2B 71376429 71377376 947 False 1336.000000 1336 92.211000 1 942 1 chr2B.!!$F1 941

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
908 922 0.458889 TATCTCAAACGAACGGGGCG 60.459 55.000 0.00 0.00 0.00 6.13 F
1079 1102 0.906775 CCAAATCTTGGCCTGGCATT 59.093 50.000 22.05 8.60 45.17 3.56 F
1080 1103 1.134610 CCAAATCTTGGCCTGGCATTC 60.135 52.381 22.05 3.49 45.17 2.67 F
1307 1339 1.193323 CACAGAGACAGGGAGATGCT 58.807 55.000 0.00 0.00 0.00 3.79 F
1825 2332 1.209621 TATGGCCCACCCTACACTTC 58.790 55.000 0.00 0.00 33.59 3.01 F
3752 4296 0.759959 TCTTGCGGTTAGTTCCCACA 59.240 50.000 0.00 0.00 0.00 4.17 F
4372 8490 0.833287 ATGCTCACCTTCGCCATACT 59.167 50.000 0.00 0.00 0.00 2.12 F
4404 8552 1.079127 CGCGTTGTTCCCCTGATCT 60.079 57.895 0.00 0.00 0.00 2.75 F
5042 9253 2.327325 AGAGAAGTTAGTGGGGAGCA 57.673 50.000 0.00 0.00 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1825 2332 0.318120 AGGCCTCAAAAACATTGCGG 59.682 50.000 0.00 0.0 0.00 5.69 R
2491 3027 0.953960 GGTAACCACCACTGCCTTCG 60.954 60.000 0.00 0.0 45.04 3.79 R
2960 3504 1.879372 GCCGGCATCAGATATGAAGCA 60.879 52.381 24.80 0.0 34.59 3.91 R
3301 3845 8.930760 GCAAAAGCTAGAATATGATAGGTGTAG 58.069 37.037 0.00 0.0 30.51 2.74 R
3814 4358 0.036388 AGAAAATTGCGCGGGAGAGA 60.036 50.000 8.83 0.0 0.00 3.10 R
5187 9398 0.183492 AAAAGAGAGGCAGGCACACA 59.817 50.000 0.00 0.0 0.00 3.72 R
5947 11174 2.415893 CCTGCTTAACAATTTCTGCGGG 60.416 50.000 0.00 0.0 40.01 6.13 R
6071 11298 4.275936 ACAAGTGTACTGATTGCAAAGGTC 59.724 41.667 1.71 0.0 0.00 3.85 R
6973 12239 1.730612 CGCCCATGATTCATCGATCAG 59.269 52.381 0.00 0.0 39.26 2.90 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
494 500 2.428085 GCTCTCCGTTCCCTCCTCC 61.428 68.421 0.00 0.00 0.00 4.30
515 521 3.192922 CCGATTCCGCGTCCAACC 61.193 66.667 4.92 0.00 0.00 3.77
573 579 1.003580 TCTTGGCGCCTTCTTCTTCAT 59.996 47.619 29.70 0.00 0.00 2.57
642 648 2.136878 CCATGGACGGGGGAGAGAG 61.137 68.421 5.56 0.00 0.00 3.20
643 649 1.075970 CATGGACGGGGGAGAGAGA 60.076 63.158 0.00 0.00 0.00 3.10
653 660 4.144727 GAGAGAGAGGGGGCGGGA 62.145 72.222 0.00 0.00 0.00 5.14
684 691 0.544120 GGAGGGTTTGGGGCAAATGA 60.544 55.000 0.00 0.00 35.74 2.57
727 740 0.761323 TGGTTTCTCCCACCGACAGA 60.761 55.000 0.00 0.00 37.07 3.41
812 825 4.887190 ACGCAAACTTGGGCCGGT 62.887 61.111 1.90 0.00 44.05 5.28
818 831 2.075355 AAACTTGGGCCGGTGATGGA 62.075 55.000 1.90 0.00 0.00 3.41
908 922 0.458889 TATCTCAAACGAACGGGGCG 60.459 55.000 0.00 0.00 0.00 6.13
910 924 3.869473 CTCAAACGAACGGGGCGGA 62.869 63.158 0.00 0.00 0.00 5.54
911 925 3.719144 CAAACGAACGGGGCGGAC 61.719 66.667 0.00 0.00 0.00 4.79
912 926 4.238654 AAACGAACGGGGCGGACA 62.239 61.111 0.00 0.00 0.00 4.02
913 927 3.540367 AAACGAACGGGGCGGACAT 62.540 57.895 0.00 0.00 0.00 3.06
1077 1100 4.116926 CCAAATCTTGGCCTGGCA 57.883 55.556 22.05 1.21 45.17 4.92
1078 1101 2.599216 CCAAATCTTGGCCTGGCAT 58.401 52.632 22.05 1.69 45.17 4.40
1079 1102 0.906775 CCAAATCTTGGCCTGGCATT 59.093 50.000 22.05 8.60 45.17 3.56
1080 1103 1.134610 CCAAATCTTGGCCTGGCATTC 60.135 52.381 22.05 3.49 45.17 2.67
1081 1104 1.551430 CAAATCTTGGCCTGGCATTCA 59.449 47.619 22.05 6.51 0.00 2.57
1082 1105 1.941377 AATCTTGGCCTGGCATTCAA 58.059 45.000 22.05 14.21 0.00 2.69
1083 1106 1.941377 ATCTTGGCCTGGCATTCAAA 58.059 45.000 22.05 5.51 0.00 2.69
1084 1107 1.714541 TCTTGGCCTGGCATTCAAAA 58.285 45.000 22.05 0.00 0.00 2.44
1085 1108 1.619827 TCTTGGCCTGGCATTCAAAAG 59.380 47.619 22.05 12.81 0.00 2.27
1114 1137 2.564553 ATCTTGGCCAGCGACTCGAC 62.565 60.000 5.11 0.00 0.00 4.20
1307 1339 1.193323 CACAGAGACAGGGAGATGCT 58.807 55.000 0.00 0.00 0.00 3.79
1691 1931 5.397447 CCATGGGTGCTTAGAGTATGGTTAA 60.397 44.000 2.85 0.00 31.33 2.01
1759 2266 6.726299 TGTCAGCTATAGCCAACCTAATAGAT 59.274 38.462 21.17 0.00 43.38 1.98
1825 2332 1.209621 TATGGCCCACCCTACACTTC 58.790 55.000 0.00 0.00 33.59 3.01
1827 2334 2.267961 GCCCACCCTACACTTCCG 59.732 66.667 0.00 0.00 0.00 4.30
1967 2476 7.768807 AGCCTACTGACTGTATCTTATTAGG 57.231 40.000 0.00 0.00 0.00 2.69
2024 2535 7.494952 CAGAGGTACCTAAAATTAGCACCTTAC 59.505 40.741 16.29 11.18 41.16 2.34
2025 2536 7.402361 AGAGGTACCTAAAATTAGCACCTTACT 59.598 37.037 16.29 12.51 41.16 2.24
2115 2651 6.152831 CCTAATAGCACTTTACCCTTGCTTTT 59.847 38.462 0.00 2.53 44.26 2.27
2491 3027 2.873288 CCTTGCCGCTTCAAGAGC 59.127 61.111 14.09 0.00 44.61 4.09
2786 3330 8.787852 ACCTTTGTCTATCTTGATTTTCAGTTC 58.212 33.333 0.00 0.00 0.00 3.01
2927 3471 7.121907 TGCATTTTGATGTAGCCACTAATGTTA 59.878 33.333 0.00 0.00 0.00 2.41
3301 3845 6.377327 ACCAATCATGTTCGACATAAATCC 57.623 37.500 0.00 0.00 36.53 3.01
3413 3957 7.441017 TGAGGTTTTGGTAAGATTTGATTTGG 58.559 34.615 0.00 0.00 0.00 3.28
3504 4048 6.031964 AGTTAATGTAGGAGATGGAGGAGA 57.968 41.667 0.00 0.00 0.00 3.71
3569 4113 4.723285 TCCCCAACTCCCCTTTAATAGTAC 59.277 45.833 0.00 0.00 0.00 2.73
3614 4158 4.572438 GGAAACTAGTACTCCCTCCTTCCT 60.572 50.000 0.00 0.00 0.00 3.36
3708 4252 8.649973 ACGATAGCTAGTTTTCAGGAAATAAG 57.350 34.615 0.00 0.00 42.67 1.73
3752 4296 0.759959 TCTTGCGGTTAGTTCCCACA 59.240 50.000 0.00 0.00 0.00 4.17
3769 4313 1.374758 CAAGCACCCACTCGTCTCC 60.375 63.158 0.00 0.00 0.00 3.71
3782 4326 2.763448 CTCGTCTCCCTCTCCTTCAAAT 59.237 50.000 0.00 0.00 0.00 2.32
3814 4358 1.774254 TGAATGACCCACCTCACTTGT 59.226 47.619 0.00 0.00 0.00 3.16
3888 4432 1.521681 CCGATCTTTCCCACCTCGC 60.522 63.158 0.00 0.00 0.00 5.03
4068 4612 1.586154 GGGAACAGGCAACCATGACG 61.586 60.000 0.00 0.00 40.62 4.35
4098 4642 2.914777 GAAGCTAGCCCGACCAGCTG 62.915 65.000 12.13 6.78 44.70 4.24
4158 8275 3.628942 TCTGCACCTGAATTACATGCATC 59.371 43.478 0.00 0.00 41.57 3.91
4169 8286 9.356433 CTGAATTACATGCATCATTTAAACACA 57.644 29.630 0.00 0.00 0.00 3.72
4261 8379 9.715121 TGAAAAGAATAGGTTTCGTACACTTAT 57.285 29.630 0.00 0.00 36.69 1.73
4372 8490 0.833287 ATGCTCACCTTCGCCATACT 59.167 50.000 0.00 0.00 0.00 2.12
4404 8552 1.079127 CGCGTTGTTCCCCTGATCT 60.079 57.895 0.00 0.00 0.00 2.75
4597 8771 2.738139 CGACGGTCAGCATGCACA 60.738 61.111 21.98 1.82 34.76 4.57
4616 8790 4.715523 CAACATGGCCCCGACCGT 62.716 66.667 0.00 0.00 0.00 4.83
4928 9105 4.527816 ACCAGTGTAATTGCCATTGTCATT 59.472 37.500 0.00 0.00 0.00 2.57
4938 9115 3.202818 TGCCATTGTCATTCCATCTAGGT 59.797 43.478 0.00 0.00 39.02 3.08
4965 9142 5.186409 CAGATTCAGGTCAATTTCCACCATT 59.814 40.000 1.71 0.00 34.80 3.16
5042 9253 2.327325 AGAGAAGTTAGTGGGGAGCA 57.673 50.000 0.00 0.00 0.00 4.26
5097 9308 4.119136 CCAAATTTGAAGTTTTGACGGCT 58.881 39.130 19.86 0.00 35.34 5.52
5187 9398 5.276440 AGACTAGGTCAAAGGAGATCATGT 58.724 41.667 0.00 0.00 34.60 3.21
5479 9694 8.467963 TCATCCATTTGCATACTAACATGAAT 57.532 30.769 0.00 0.00 0.00 2.57
5947 11174 4.041444 AGGCTCTGGAAGATGAATATGGTC 59.959 45.833 0.00 0.00 45.62 4.02
6071 11298 5.173673 CGGTTGATTGTTGACTTGAAACATG 59.826 40.000 0.00 0.00 37.38 3.21
6107 11334 8.479313 TCAGTACACTTGTTATATTTGCAGAG 57.521 34.615 0.00 0.00 0.00 3.35
6406 11636 8.758633 TGCTTTCTTGTAGTCTTGTCTATTAC 57.241 34.615 0.00 0.00 0.00 1.89
6652 11891 1.251251 GGCTTGCTGTTCATCCAGTT 58.749 50.000 0.00 0.00 34.84 3.16
6674 11915 9.410556 CAGTTTAGCATAAAAATACTGTTGCTT 57.589 29.630 6.25 0.00 40.60 3.91
6965 12231 5.850557 TTGGTCAAAATCCGCATCATAAT 57.149 34.783 0.00 0.00 0.00 1.28
6966 12232 6.951062 TTGGTCAAAATCCGCATCATAATA 57.049 33.333 0.00 0.00 0.00 0.98
6967 12233 7.523293 TTGGTCAAAATCCGCATCATAATAT 57.477 32.000 0.00 0.00 0.00 1.28
6973 12239 9.462174 TCAAAATCCGCATCATAATATTTGTTC 57.538 29.630 0.00 0.00 0.00 3.18
7008 12274 3.842869 GGCGATATTCTAGCCTGGG 57.157 57.895 0.00 0.00 46.83 4.45
7022 12288 2.045438 TGGGTGTGGCGCTATTGG 60.045 61.111 7.64 0.00 0.00 3.16
7095 12361 5.629079 GCATTTGGCTGTATAATACTCCC 57.371 43.478 0.00 0.00 40.25 4.30
7096 12362 5.316987 GCATTTGGCTGTATAATACTCCCT 58.683 41.667 0.00 0.00 40.25 4.20
7097 12363 5.412904 GCATTTGGCTGTATAATACTCCCTC 59.587 44.000 0.00 0.00 40.25 4.30
7098 12364 5.562298 TTTGGCTGTATAATACTCCCTCC 57.438 43.478 0.00 0.00 0.00 4.30
7099 12365 3.162666 TGGCTGTATAATACTCCCTCCG 58.837 50.000 0.00 0.00 0.00 4.63
7100 12366 3.163467 GGCTGTATAATACTCCCTCCGT 58.837 50.000 0.00 0.00 0.00 4.69
7101 12367 3.193056 GGCTGTATAATACTCCCTCCGTC 59.807 52.174 0.00 0.00 0.00 4.79
7102 12368 3.193056 GCTGTATAATACTCCCTCCGTCC 59.807 52.174 0.00 0.00 0.00 4.79
7103 12369 3.762823 CTGTATAATACTCCCTCCGTCCC 59.237 52.174 0.00 0.00 0.00 4.46
7104 12370 3.140707 TGTATAATACTCCCTCCGTCCCA 59.859 47.826 0.00 0.00 0.00 4.37
7105 12371 2.077687 TAATACTCCCTCCGTCCCAC 57.922 55.000 0.00 0.00 0.00 4.61
7106 12372 0.042131 AATACTCCCTCCGTCCCACA 59.958 55.000 0.00 0.00 0.00 4.17
7107 12373 0.042131 ATACTCCCTCCGTCCCACAA 59.958 55.000 0.00 0.00 0.00 3.33
7108 12374 0.042131 TACTCCCTCCGTCCCACAAT 59.958 55.000 0.00 0.00 0.00 2.71
7109 12375 0.042131 ACTCCCTCCGTCCCACAATA 59.958 55.000 0.00 0.00 0.00 1.90
7110 12376 0.753262 CTCCCTCCGTCCCACAATAG 59.247 60.000 0.00 0.00 0.00 1.73
7111 12377 0.042131 TCCCTCCGTCCCACAATAGT 59.958 55.000 0.00 0.00 0.00 2.12
7112 12378 0.178068 CCCTCCGTCCCACAATAGTG 59.822 60.000 0.00 0.00 45.47 2.74
7113 12379 0.902531 CCTCCGTCCCACAATAGTGT 59.097 55.000 0.00 0.00 44.39 3.55
7114 12380 1.134788 CCTCCGTCCCACAATAGTGTC 60.135 57.143 0.00 0.00 44.39 3.67
7115 12381 1.548719 CTCCGTCCCACAATAGTGTCA 59.451 52.381 0.00 0.00 44.39 3.58
7116 12382 1.972075 TCCGTCCCACAATAGTGTCAA 59.028 47.619 0.00 0.00 44.39 3.18
7117 12383 2.369203 TCCGTCCCACAATAGTGTCAAA 59.631 45.455 0.00 0.00 44.39 2.69
7118 12384 3.142951 CCGTCCCACAATAGTGTCAAAA 58.857 45.455 0.00 0.00 44.39 2.44
7119 12385 3.566322 CCGTCCCACAATAGTGTCAAAAA 59.434 43.478 0.00 0.00 44.39 1.94
7120 12386 4.533222 CGTCCCACAATAGTGTCAAAAAC 58.467 43.478 0.00 0.00 44.39 2.43
7121 12387 4.533222 GTCCCACAATAGTGTCAAAAACG 58.467 43.478 0.00 0.00 44.39 3.60
7122 12388 4.035909 GTCCCACAATAGTGTCAAAAACGT 59.964 41.667 0.00 0.00 44.39 3.99
7123 12389 4.641094 TCCCACAATAGTGTCAAAAACGTT 59.359 37.500 0.00 0.00 44.39 3.99
7124 12390 4.973663 CCCACAATAGTGTCAAAAACGTTC 59.026 41.667 0.00 0.00 44.39 3.95
7125 12391 5.220970 CCCACAATAGTGTCAAAAACGTTCT 60.221 40.000 0.00 0.00 44.39 3.01
7126 12392 6.262601 CCACAATAGTGTCAAAAACGTTCTT 58.737 36.000 0.00 0.00 44.39 2.52
7127 12393 7.411274 CCACAATAGTGTCAAAAACGTTCTTA 58.589 34.615 0.00 0.00 44.39 2.10
7128 12394 8.073768 CCACAATAGTGTCAAAAACGTTCTTAT 58.926 33.333 0.00 0.00 44.39 1.73
7135 12401 8.073768 AGTGTCAAAAACGTTCTTATATTGTGG 58.926 33.333 0.00 0.00 0.00 4.17
7136 12402 7.325097 GTGTCAAAAACGTTCTTATATTGTGGG 59.675 37.037 0.00 0.00 0.00 4.61
7137 12403 7.228906 TGTCAAAAACGTTCTTATATTGTGGGA 59.771 33.333 0.00 0.00 0.00 4.37
7138 12404 8.241367 GTCAAAAACGTTCTTATATTGTGGGAT 58.759 33.333 0.00 0.00 0.00 3.85
7139 12405 9.451002 TCAAAAACGTTCTTATATTGTGGGATA 57.549 29.630 0.00 0.00 0.00 2.59
7140 12406 9.716507 CAAAAACGTTCTTATATTGTGGGATAG 57.283 33.333 0.00 0.00 0.00 2.08
7141 12407 9.457436 AAAAACGTTCTTATATTGTGGGATAGT 57.543 29.630 0.00 0.00 0.00 2.12
7142 12408 8.433421 AAACGTTCTTATATTGTGGGATAGTG 57.567 34.615 0.00 0.00 0.00 2.74
7143 12409 7.120923 ACGTTCTTATATTGTGGGATAGTGT 57.879 36.000 0.00 0.00 0.00 3.55
7144 12410 7.208080 ACGTTCTTATATTGTGGGATAGTGTC 58.792 38.462 0.00 0.00 0.00 3.67
7145 12411 7.147794 ACGTTCTTATATTGTGGGATAGTGTCA 60.148 37.037 0.00 0.00 0.00 3.58
7146 12412 7.709182 CGTTCTTATATTGTGGGATAGTGTCAA 59.291 37.037 0.00 0.00 0.00 3.18
7147 12413 9.391006 GTTCTTATATTGTGGGATAGTGTCAAA 57.609 33.333 0.00 0.00 0.00 2.69
7148 12414 9.967451 TTCTTATATTGTGGGATAGTGTCAAAA 57.033 29.630 0.00 0.00 0.00 2.44
7149 12415 9.967451 TCTTATATTGTGGGATAGTGTCAAAAA 57.033 29.630 0.00 0.00 0.00 1.94
7151 12417 4.822036 TTGTGGGATAGTGTCAAAAACG 57.178 40.909 0.00 0.00 0.00 3.60
7152 12418 3.142951 TGTGGGATAGTGTCAAAAACGG 58.857 45.455 0.00 0.00 0.00 4.44
7153 12419 3.143728 GTGGGATAGTGTCAAAAACGGT 58.856 45.455 0.00 0.00 0.00 4.83
7154 12420 3.566742 GTGGGATAGTGTCAAAAACGGTT 59.433 43.478 0.00 0.00 0.00 4.44
7155 12421 4.037089 GTGGGATAGTGTCAAAAACGGTTT 59.963 41.667 0.00 0.00 0.00 3.27
7156 12422 4.645588 TGGGATAGTGTCAAAAACGGTTTT 59.354 37.500 12.86 12.86 37.43 2.43
7157 12423 5.826737 TGGGATAGTGTCAAAAACGGTTTTA 59.173 36.000 18.33 2.17 35.12 1.52
7158 12424 6.490721 TGGGATAGTGTCAAAAACGGTTTTAT 59.509 34.615 18.33 7.17 35.12 1.40
7159 12425 7.664731 TGGGATAGTGTCAAAAACGGTTTTATA 59.335 33.333 18.33 7.69 35.12 0.98
7160 12426 8.680001 GGGATAGTGTCAAAAACGGTTTTATAT 58.320 33.333 18.33 5.26 35.12 0.86
7164 12430 8.568732 AGTGTCAAAAACGGTTTTATATTGTG 57.431 30.769 18.33 12.00 35.12 3.33
7165 12431 7.650104 AGTGTCAAAAACGGTTTTATATTGTGG 59.350 33.333 18.33 0.00 35.12 4.17
7166 12432 6.924060 TGTCAAAAACGGTTTTATATTGTGGG 59.076 34.615 18.33 0.00 35.12 4.61
7167 12433 7.146648 GTCAAAAACGGTTTTATATTGTGGGA 58.853 34.615 18.33 0.00 35.12 4.37
7168 12434 7.115236 GTCAAAAACGGTTTTATATTGTGGGAC 59.885 37.037 18.33 7.47 35.12 4.46
7169 12435 4.950434 AACGGTTTTATATTGTGGGACG 57.050 40.909 0.00 0.00 0.00 4.79
7170 12436 3.272581 ACGGTTTTATATTGTGGGACGG 58.727 45.455 0.00 0.00 0.00 4.79
7171 12437 3.055240 ACGGTTTTATATTGTGGGACGGA 60.055 43.478 0.00 0.00 0.00 4.69
7172 12438 3.558418 CGGTTTTATATTGTGGGACGGAG 59.442 47.826 0.00 0.00 0.00 4.63
7173 12439 3.881089 GGTTTTATATTGTGGGACGGAGG 59.119 47.826 0.00 0.00 0.00 4.30
7174 12440 3.849563 TTTATATTGTGGGACGGAGGG 57.150 47.619 0.00 0.00 0.00 4.30
7175 12441 2.779429 TATATTGTGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
7176 12442 1.424638 ATATTGTGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
7231 12498 8.897872 TTTTTATCCTATATCCGGAACACTTC 57.102 34.615 9.01 0.00 33.55 3.01
7260 12527 4.970860 AGTGAAGACTGCATATATGGCT 57.029 40.909 14.51 0.00 0.00 4.75
7327 12601 5.994054 TCCTATTCTGATAGCATGTCAAAGC 59.006 40.000 0.00 0.00 35.01 3.51
7328 12602 5.761726 CCTATTCTGATAGCATGTCAAAGCA 59.238 40.000 0.00 0.00 35.01 3.91
7329 12603 6.430308 CCTATTCTGATAGCATGTCAAAGCAT 59.570 38.462 0.00 0.00 35.01 3.79
7352 12650 1.000359 GGTAGCATTGTGGGCCCTT 60.000 57.895 25.70 1.80 0.00 3.95
7380 12678 7.614124 TTATACCGTTAAATCGCTCCTTTTT 57.386 32.000 0.00 0.00 0.00 1.94
7484 12784 2.204291 AATCAGGGGTGGCCAGGA 60.204 61.111 5.11 0.00 0.00 3.86
7486 12786 3.889525 ATCAGGGGTGGCCAGGACA 62.890 63.158 5.11 0.00 0.00 4.02
7491 12791 0.683179 GGGGTGGCCAGGACAATAAC 60.683 60.000 5.11 0.00 0.00 1.89
7492 12792 0.039035 GGGTGGCCAGGACAATAACA 59.961 55.000 5.11 0.00 0.00 2.41
7493 12793 1.463674 GGTGGCCAGGACAATAACAG 58.536 55.000 5.11 0.00 0.00 3.16
7494 12794 1.271926 GGTGGCCAGGACAATAACAGT 60.272 52.381 5.11 0.00 0.00 3.55
7495 12795 1.812571 GTGGCCAGGACAATAACAGTG 59.187 52.381 5.11 0.00 0.00 3.66
7496 12796 1.271871 TGGCCAGGACAATAACAGTGG 60.272 52.381 0.00 0.00 0.00 4.00
7497 12797 1.004277 GGCCAGGACAATAACAGTGGA 59.996 52.381 0.00 0.00 0.00 4.02
7498 12798 2.084546 GCCAGGACAATAACAGTGGAC 58.915 52.381 0.00 0.00 0.00 4.02
7499 12799 2.711542 CCAGGACAATAACAGTGGACC 58.288 52.381 0.00 0.00 0.00 4.46
7500 12800 2.346803 CAGGACAATAACAGTGGACCG 58.653 52.381 0.00 0.00 0.00 4.79
7501 12801 2.028476 CAGGACAATAACAGTGGACCGA 60.028 50.000 0.00 0.00 0.00 4.69
7502 12802 2.838202 AGGACAATAACAGTGGACCGAT 59.162 45.455 0.00 0.00 0.00 4.18
7503 12803 3.263425 AGGACAATAACAGTGGACCGATT 59.737 43.478 0.00 0.00 0.00 3.34
7504 12804 3.374058 GGACAATAACAGTGGACCGATTG 59.626 47.826 0.00 0.00 0.00 2.67
7505 12805 4.250464 GACAATAACAGTGGACCGATTGA 58.750 43.478 0.00 0.00 0.00 2.57
7506 12806 4.843728 ACAATAACAGTGGACCGATTGAT 58.156 39.130 0.00 0.00 0.00 2.57
7507 12807 5.984725 ACAATAACAGTGGACCGATTGATA 58.015 37.500 0.00 0.00 0.00 2.15
7508 12808 6.049149 ACAATAACAGTGGACCGATTGATAG 58.951 40.000 0.00 0.00 0.00 2.08
7509 12809 5.871396 ATAACAGTGGACCGATTGATAGT 57.129 39.130 0.00 0.00 0.00 2.12
7510 12810 3.526931 ACAGTGGACCGATTGATAGTG 57.473 47.619 0.00 0.00 0.00 2.74
7511 12811 2.832129 ACAGTGGACCGATTGATAGTGT 59.168 45.455 0.00 0.00 0.00 3.55
7512 12812 4.021229 ACAGTGGACCGATTGATAGTGTA 58.979 43.478 0.00 0.00 0.00 2.90
7513 12813 4.098044 ACAGTGGACCGATTGATAGTGTAG 59.902 45.833 0.00 0.00 0.00 2.74
7514 12814 3.637229 AGTGGACCGATTGATAGTGTAGG 59.363 47.826 0.00 0.00 0.00 3.18
7515 12815 2.963101 TGGACCGATTGATAGTGTAGGG 59.037 50.000 0.00 0.00 0.00 3.53
7516 12816 2.963782 GGACCGATTGATAGTGTAGGGT 59.036 50.000 0.00 0.00 0.00 4.34
7517 12817 4.147321 GGACCGATTGATAGTGTAGGGTA 58.853 47.826 0.00 0.00 0.00 3.69
7518 12818 4.586001 GGACCGATTGATAGTGTAGGGTAA 59.414 45.833 0.00 0.00 0.00 2.85
7519 12819 5.245526 GGACCGATTGATAGTGTAGGGTAAT 59.754 44.000 0.00 0.00 0.00 1.89
7520 12820 6.239515 GGACCGATTGATAGTGTAGGGTAATT 60.240 42.308 0.00 0.00 0.00 1.40
7521 12821 6.756221 ACCGATTGATAGTGTAGGGTAATTC 58.244 40.000 0.00 0.00 0.00 2.17
7522 12822 6.325545 ACCGATTGATAGTGTAGGGTAATTCA 59.674 38.462 0.00 0.00 0.00 2.57
7523 12823 7.147620 ACCGATTGATAGTGTAGGGTAATTCAA 60.148 37.037 0.00 0.00 0.00 2.69
7524 12824 7.385205 CCGATTGATAGTGTAGGGTAATTCAAG 59.615 40.741 0.00 0.00 0.00 3.02
7525 12825 8.141909 CGATTGATAGTGTAGGGTAATTCAAGA 58.858 37.037 0.00 0.00 0.00 3.02
7526 12826 9.262358 GATTGATAGTGTAGGGTAATTCAAGAC 57.738 37.037 0.00 0.00 0.00 3.01
7527 12827 6.802608 TGATAGTGTAGGGTAATTCAAGACG 58.197 40.000 0.00 0.00 0.00 4.18
7528 12828 6.379133 TGATAGTGTAGGGTAATTCAAGACGT 59.621 38.462 0.00 0.00 0.00 4.34
7529 12829 4.817517 AGTGTAGGGTAATTCAAGACGTG 58.182 43.478 0.00 0.00 0.00 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 3.532896 CTAAGAAAGCAGGCACGGA 57.467 52.632 0.00 0.00 0.00 4.69
159 161 4.595538 ACGTGGGCTTGTTCGCGA 62.596 61.111 3.71 3.71 39.75 5.87
652 659 2.760385 CCTCCCACGTCCCTCCTC 60.760 72.222 0.00 0.00 0.00 3.71
653 660 4.400251 CCCTCCCACGTCCCTCCT 62.400 72.222 0.00 0.00 0.00 3.69
812 825 0.534873 TGTCCGCTTTCGATCCATCA 59.465 50.000 0.00 0.00 38.10 3.07
818 831 0.517316 GCTTTGTGTCCGCTTTCGAT 59.483 50.000 0.00 0.00 38.10 3.59
884 898 3.998341 CCCCGTTCGTTTGAGATAAAAGA 59.002 43.478 0.00 0.00 0.00 2.52
893 907 3.926318 TCCGCCCCGTTCGTTTGA 61.926 61.111 0.00 0.00 0.00 2.69
908 922 2.585247 GCGCGACCCTACATGTCC 60.585 66.667 12.10 0.00 0.00 4.02
910 924 4.508128 CCGCGCGACCCTACATGT 62.508 66.667 34.63 2.69 0.00 3.21
911 925 4.508128 ACCGCGCGACCCTACATG 62.508 66.667 34.63 13.76 0.00 3.21
912 926 4.508128 CACCGCGCGACCCTACAT 62.508 66.667 34.63 2.49 0.00 2.29
1069 1092 1.895131 TCTTCTTTTGAATGCCAGGCC 59.105 47.619 9.64 0.00 37.85 5.19
1070 1093 3.429960 GGATCTTCTTTTGAATGCCAGGC 60.430 47.826 3.66 3.66 37.85 4.85
1071 1094 3.765511 TGGATCTTCTTTTGAATGCCAGG 59.234 43.478 0.00 0.00 37.85 4.45
1072 1095 5.395682 TTGGATCTTCTTTTGAATGCCAG 57.604 39.130 0.00 0.00 37.85 4.85
1073 1096 5.804944 TTTGGATCTTCTTTTGAATGCCA 57.195 34.783 0.00 0.00 37.85 4.92
1074 1097 6.637657 AGATTTGGATCTTCTTTTGAATGCC 58.362 36.000 0.00 0.00 39.63 4.40
1114 1137 4.271816 CGTCGGCTGGAGATCCGG 62.272 72.222 3.12 3.12 45.31 5.14
1307 1339 2.203056 CCATCGATGAAGGCGGCA 60.203 61.111 26.86 0.00 0.00 5.69
1708 2215 8.458573 TGATAATTTCATATAGCCGGTTGTTT 57.541 30.769 1.90 0.00 0.00 2.83
1825 2332 0.318120 AGGCCTCAAAAACATTGCGG 59.682 50.000 0.00 0.00 0.00 5.69
1827 2334 1.532437 GCAAGGCCTCAAAAACATTGC 59.468 47.619 5.23 4.85 35.35 3.56
1967 2476 5.163723 TGTTGTTATGCATCTAAGAGCAAGC 60.164 40.000 0.19 0.00 44.88 4.01
2024 2535 2.416431 GCTTCTTGCCATGCAGGTTTAG 60.416 50.000 0.00 0.00 40.61 1.85
2025 2536 1.545582 GCTTCTTGCCATGCAGGTTTA 59.454 47.619 0.00 0.00 40.61 2.01
2491 3027 0.953960 GGTAACCACCACTGCCTTCG 60.954 60.000 0.00 0.00 45.04 3.79
2786 3330 1.896220 TTGGGAGTAGCAGCTTGTTG 58.104 50.000 0.00 0.00 0.00 3.33
2891 3435 9.695526 GGCTACATCAAAATGCATGAATAATTA 57.304 29.630 0.00 0.00 36.26 1.40
2960 3504 1.879372 GCCGGCATCAGATATGAAGCA 60.879 52.381 24.80 0.00 34.59 3.91
3301 3845 8.930760 GCAAAAGCTAGAATATGATAGGTGTAG 58.069 37.037 0.00 0.00 30.51 2.74
3413 3957 1.598869 TCCCCTACCCATACCCAAAC 58.401 55.000 0.00 0.00 0.00 2.93
3504 4048 1.731324 CCCCCTACCCTCGATCTCCT 61.731 65.000 0.00 0.00 0.00 3.69
3569 4113 5.821470 TCCTCCTAACGAAGTAGTACATCTG 59.179 44.000 2.52 0.16 45.00 2.90
3580 4124 6.183360 GGAGTACTAGTTTCCTCCTAACGAAG 60.183 46.154 20.49 0.00 40.30 3.79
3614 4158 7.375834 CAGTTCCTAATACGCCTAACATATCA 58.624 38.462 0.00 0.00 0.00 2.15
3721 4265 2.687805 CGCAAGAGAGGGTCGTCGA 61.688 63.158 0.00 0.00 43.02 4.20
3752 4296 2.584391 GGGAGACGAGTGGGTGCTT 61.584 63.158 0.00 0.00 0.00 3.91
3787 4331 0.334676 GGTGGGTCATTCATGGGGAA 59.665 55.000 0.00 0.00 40.46 3.97
3814 4358 0.036388 AGAAAATTGCGCGGGAGAGA 60.036 50.000 8.83 0.00 0.00 3.10
3853 4397 1.697432 TCGGAAGGAGAAATGGTGTGT 59.303 47.619 0.00 0.00 0.00 3.72
3888 4432 1.679680 GGCCATGGATTGATGTCTGTG 59.320 52.381 18.40 0.00 0.00 3.66
4078 4622 2.501610 CTGGTCGGGCTAGCTTCC 59.498 66.667 15.72 7.35 0.00 3.46
4098 4642 0.391263 GTCCAACCTCCATGTCGTCC 60.391 60.000 0.00 0.00 0.00 4.79
4106 4650 2.911484 CGTCGACGTCCAACCTCCA 61.911 63.158 29.08 0.00 34.11 3.86
4169 8286 9.651913 ATCACTTTTTGATTGTTGTTTTACAGT 57.348 25.926 0.00 0.00 42.87 3.55
4372 8490 3.204119 CGCGCATGGCAATGGAGA 61.204 61.111 8.75 0.00 43.84 3.71
4528 8702 4.552365 CCCGGCCATGTCGATGCT 62.552 66.667 2.24 0.00 29.41 3.79
4597 8771 4.360405 GGTCGGGGCCATGTTGGT 62.360 66.667 4.39 0.00 40.46 3.67
4616 8790 1.292223 GACGCACACTAGGCCTTGA 59.708 57.895 21.63 0.00 0.00 3.02
4928 9105 2.702478 CTGAATCTGCCACCTAGATGGA 59.298 50.000 7.57 0.00 43.02 3.41
4938 9115 3.091545 GGAAATTGACCTGAATCTGCCA 58.908 45.455 0.00 0.00 0.00 4.92
4965 9142 4.391830 CCTCTGCTGTATGCTTTCGTAAAA 59.608 41.667 0.00 0.00 43.37 1.52
5042 9253 2.753452 ACCATCGATCGTGACTTACAGT 59.247 45.455 15.94 2.11 0.00 3.55
5097 9308 2.339556 CCAATTCTTTCCCGCGCCA 61.340 57.895 0.00 0.00 0.00 5.69
5187 9398 0.183492 AAAAGAGAGGCAGGCACACA 59.817 50.000 0.00 0.00 0.00 3.72
5479 9694 7.540299 ACGAGTTATGTTCTTTTGAAACCAAA 58.460 30.769 0.00 0.00 40.53 3.28
5719 9935 6.179906 AGTGGCATACTAATAACTCTGCAT 57.820 37.500 0.00 0.00 38.04 3.96
5947 11174 2.415893 CCTGCTTAACAATTTCTGCGGG 60.416 50.000 0.00 0.00 40.01 6.13
6071 11298 4.275936 ACAAGTGTACTGATTGCAAAGGTC 59.724 41.667 1.71 0.00 0.00 3.85
6406 11636 2.919229 GCATTTCGCCAAAGTTGATCAG 59.081 45.455 0.00 0.00 32.94 2.90
6652 11891 9.405587 GACAAAGCAACAGTATTTTTATGCTAA 57.594 29.630 0.00 0.00 42.82 3.09
6674 11915 4.873827 GGCAGTACGATTCTAAATGGACAA 59.126 41.667 0.00 0.00 0.00 3.18
6801 12060 6.525121 CGAGTGGCGAATTTATTCAGATAA 57.475 37.500 3.61 0.00 44.57 1.75
6908 12171 3.612955 GCTCCCTATTCTCGCAGTACATC 60.613 52.174 0.00 0.00 0.00 3.06
6940 12204 3.911868 TGATGCGGATTTTGACCAAAAG 58.088 40.909 12.61 2.41 42.72 2.27
6965 12231 7.173735 CCCATGATTCATCGATCAGAACAAATA 59.826 37.037 0.00 0.00 39.26 1.40
6966 12232 6.016527 CCCATGATTCATCGATCAGAACAAAT 60.017 38.462 0.00 0.00 39.26 2.32
6967 12233 5.297527 CCCATGATTCATCGATCAGAACAAA 59.702 40.000 0.00 0.00 39.26 2.83
6973 12239 1.730612 CGCCCATGATTCATCGATCAG 59.269 52.381 0.00 0.00 39.26 2.90
7008 12274 2.018542 TTAGACCAATAGCGCCACAC 57.981 50.000 2.29 0.00 0.00 3.82
7022 12288 3.851098 AGAGTCGGCAACTTCATTAGAC 58.149 45.455 0.00 0.00 38.74 2.59
7089 12355 0.042131 ATTGTGGGACGGAGGGAGTA 59.958 55.000 0.00 0.00 0.00 2.59
7090 12356 0.042131 TATTGTGGGACGGAGGGAGT 59.958 55.000 0.00 0.00 0.00 3.85
7091 12357 0.753262 CTATTGTGGGACGGAGGGAG 59.247 60.000 0.00 0.00 0.00 4.30
7092 12358 0.042131 ACTATTGTGGGACGGAGGGA 59.958 55.000 0.00 0.00 0.00 4.20
7093 12359 0.178068 CACTATTGTGGGACGGAGGG 59.822 60.000 0.00 0.00 40.33 4.30
7094 12360 3.760693 CACTATTGTGGGACGGAGG 57.239 57.895 0.00 0.00 40.33 4.30
7109 12375 8.073768 CCACAATATAAGAACGTTTTTGACACT 58.926 33.333 13.87 0.00 0.00 3.55
7110 12376 7.325097 CCCACAATATAAGAACGTTTTTGACAC 59.675 37.037 13.87 0.00 0.00 3.67
7111 12377 7.228906 TCCCACAATATAAGAACGTTTTTGACA 59.771 33.333 13.87 0.01 0.00 3.58
7112 12378 7.586747 TCCCACAATATAAGAACGTTTTTGAC 58.413 34.615 13.87 0.00 0.00 3.18
7113 12379 7.747155 TCCCACAATATAAGAACGTTTTTGA 57.253 32.000 13.87 2.81 0.00 2.69
7114 12380 9.716507 CTATCCCACAATATAAGAACGTTTTTG 57.283 33.333 13.87 8.38 0.00 2.44
7115 12381 9.457436 ACTATCCCACAATATAAGAACGTTTTT 57.543 29.630 9.22 9.22 0.00 1.94
7116 12382 8.889717 CACTATCCCACAATATAAGAACGTTTT 58.110 33.333 0.46 0.00 0.00 2.43
7117 12383 8.044908 ACACTATCCCACAATATAAGAACGTTT 58.955 33.333 0.46 0.00 0.00 3.60
7118 12384 7.562135 ACACTATCCCACAATATAAGAACGTT 58.438 34.615 0.00 0.00 0.00 3.99
7119 12385 7.120923 ACACTATCCCACAATATAAGAACGT 57.879 36.000 0.00 0.00 0.00 3.99
7120 12386 7.207383 TGACACTATCCCACAATATAAGAACG 58.793 38.462 0.00 0.00 0.00 3.95
7121 12387 8.958119 TTGACACTATCCCACAATATAAGAAC 57.042 34.615 0.00 0.00 0.00 3.01
7122 12388 9.967451 TTTTGACACTATCCCACAATATAAGAA 57.033 29.630 0.00 0.00 0.00 2.52
7123 12389 9.967451 TTTTTGACACTATCCCACAATATAAGA 57.033 29.630 0.00 0.00 0.00 2.10
7125 12391 8.670135 CGTTTTTGACACTATCCCACAATATAA 58.330 33.333 0.00 0.00 0.00 0.98
7126 12392 7.281324 CCGTTTTTGACACTATCCCACAATATA 59.719 37.037 0.00 0.00 0.00 0.86
7127 12393 6.094881 CCGTTTTTGACACTATCCCACAATAT 59.905 38.462 0.00 0.00 0.00 1.28
7128 12394 5.413213 CCGTTTTTGACACTATCCCACAATA 59.587 40.000 0.00 0.00 0.00 1.90
7129 12395 4.217550 CCGTTTTTGACACTATCCCACAAT 59.782 41.667 0.00 0.00 0.00 2.71
7130 12396 3.566322 CCGTTTTTGACACTATCCCACAA 59.434 43.478 0.00 0.00 0.00 3.33
7131 12397 3.142951 CCGTTTTTGACACTATCCCACA 58.857 45.455 0.00 0.00 0.00 4.17
7132 12398 3.143728 ACCGTTTTTGACACTATCCCAC 58.856 45.455 0.00 0.00 0.00 4.61
7133 12399 3.495434 ACCGTTTTTGACACTATCCCA 57.505 42.857 0.00 0.00 0.00 4.37
7134 12400 4.841443 AAACCGTTTTTGACACTATCCC 57.159 40.909 0.00 0.00 0.00 3.85
7138 12404 9.666626 CACAATATAAAACCGTTTTTGACACTA 57.333 29.630 14.25 0.00 35.62 2.74
7139 12405 7.650104 CCACAATATAAAACCGTTTTTGACACT 59.350 33.333 14.25 0.00 35.62 3.55
7140 12406 7.095982 CCCACAATATAAAACCGTTTTTGACAC 60.096 37.037 14.25 0.00 35.62 3.67
7141 12407 6.924060 CCCACAATATAAAACCGTTTTTGACA 59.076 34.615 14.25 0.00 35.62 3.58
7142 12408 7.115236 GTCCCACAATATAAAACCGTTTTTGAC 59.885 37.037 14.25 5.05 35.62 3.18
7143 12409 7.146648 GTCCCACAATATAAAACCGTTTTTGA 58.853 34.615 14.25 4.01 35.62 2.69
7144 12410 6.088350 CGTCCCACAATATAAAACCGTTTTTG 59.912 38.462 14.25 9.11 35.62 2.44
7145 12411 6.151004 CGTCCCACAATATAAAACCGTTTTT 58.849 36.000 14.25 0.00 38.51 1.94
7146 12412 5.335819 CCGTCCCACAATATAAAACCGTTTT 60.336 40.000 13.58 13.58 36.67 2.43
7147 12413 4.156373 CCGTCCCACAATATAAAACCGTTT 59.844 41.667 0.00 0.00 0.00 3.60
7148 12414 3.690628 CCGTCCCACAATATAAAACCGTT 59.309 43.478 0.00 0.00 0.00 4.44
7149 12415 3.055240 TCCGTCCCACAATATAAAACCGT 60.055 43.478 0.00 0.00 0.00 4.83
7150 12416 3.533547 TCCGTCCCACAATATAAAACCG 58.466 45.455 0.00 0.00 0.00 4.44
7151 12417 3.881089 CCTCCGTCCCACAATATAAAACC 59.119 47.826 0.00 0.00 0.00 3.27
7152 12418 3.881089 CCCTCCGTCCCACAATATAAAAC 59.119 47.826 0.00 0.00 0.00 2.43
7153 12419 3.781407 TCCCTCCGTCCCACAATATAAAA 59.219 43.478 0.00 0.00 0.00 1.52
7154 12420 3.386063 TCCCTCCGTCCCACAATATAAA 58.614 45.455 0.00 0.00 0.00 1.40
7155 12421 2.969950 CTCCCTCCGTCCCACAATATAA 59.030 50.000 0.00 0.00 0.00 0.98
7156 12422 2.090943 ACTCCCTCCGTCCCACAATATA 60.091 50.000 0.00 0.00 0.00 0.86
7157 12423 1.344087 ACTCCCTCCGTCCCACAATAT 60.344 52.381 0.00 0.00 0.00 1.28
7158 12424 0.042131 ACTCCCTCCGTCCCACAATA 59.958 55.000 0.00 0.00 0.00 1.90
7159 12425 0.042131 TACTCCCTCCGTCCCACAAT 59.958 55.000 0.00 0.00 0.00 2.71
7160 12426 0.613853 CTACTCCCTCCGTCCCACAA 60.614 60.000 0.00 0.00 0.00 3.33
7161 12427 1.000019 CTACTCCCTCCGTCCCACA 60.000 63.158 0.00 0.00 0.00 4.17
7162 12428 0.614134 AACTACTCCCTCCGTCCCAC 60.614 60.000 0.00 0.00 0.00 4.61
7163 12429 0.115745 AAACTACTCCCTCCGTCCCA 59.884 55.000 0.00 0.00 0.00 4.37
7164 12430 1.206610 GAAAACTACTCCCTCCGTCCC 59.793 57.143 0.00 0.00 0.00 4.46
7165 12431 2.177734 AGAAAACTACTCCCTCCGTCC 58.822 52.381 0.00 0.00 0.00 4.79
7166 12432 3.380954 CCTAGAAAACTACTCCCTCCGTC 59.619 52.174 0.00 0.00 0.00 4.79
7167 12433 3.363627 CCTAGAAAACTACTCCCTCCGT 58.636 50.000 0.00 0.00 0.00 4.69
7168 12434 2.694109 CCCTAGAAAACTACTCCCTCCG 59.306 54.545 0.00 0.00 0.00 4.63
7169 12435 3.991683 TCCCTAGAAAACTACTCCCTCC 58.008 50.000 0.00 0.00 0.00 4.30
7170 12436 6.070136 ACATTTCCCTAGAAAACTACTCCCTC 60.070 42.308 0.00 0.00 44.91 4.30
7171 12437 5.791141 ACATTTCCCTAGAAAACTACTCCCT 59.209 40.000 0.00 0.00 44.91 4.20
7172 12438 5.880887 CACATTTCCCTAGAAAACTACTCCC 59.119 44.000 0.00 0.00 44.91 4.30
7173 12439 5.354513 GCACATTTCCCTAGAAAACTACTCC 59.645 44.000 0.00 0.00 44.91 3.85
7174 12440 5.063564 CGCACATTTCCCTAGAAAACTACTC 59.936 44.000 0.00 0.00 44.91 2.59
7175 12441 4.935808 CGCACATTTCCCTAGAAAACTACT 59.064 41.667 0.00 0.00 44.91 2.57
7176 12442 4.436986 GCGCACATTTCCCTAGAAAACTAC 60.437 45.833 0.30 0.00 44.91 2.73
7273 12540 2.386660 GCGTGCCTTGCAGTCTCTC 61.387 63.158 0.00 0.00 40.08 3.20
7280 12548 0.742635 TATGATTCGCGTGCCTTGCA 60.743 50.000 5.77 0.00 35.60 4.08
7327 12601 2.816087 GCCCACAATGCTACCTGATATG 59.184 50.000 0.00 0.00 0.00 1.78
7328 12602 2.224867 GGCCCACAATGCTACCTGATAT 60.225 50.000 0.00 0.00 0.00 1.63
7329 12603 1.142870 GGCCCACAATGCTACCTGATA 59.857 52.381 0.00 0.00 0.00 2.15
7380 12678 5.913534 AGATAATGGATGGAGGAGGAAGAAA 59.086 40.000 0.00 0.00 0.00 2.52
7484 12784 4.280436 TCAATCGGTCCACTGTTATTGT 57.720 40.909 0.00 0.00 0.00 2.71
7486 12786 6.049149 CACTATCAATCGGTCCACTGTTATT 58.951 40.000 0.00 0.00 0.00 1.40
7491 12791 3.526931 ACACTATCAATCGGTCCACTG 57.473 47.619 0.00 0.00 0.00 3.66
7492 12792 3.637229 CCTACACTATCAATCGGTCCACT 59.363 47.826 0.00 0.00 0.00 4.00
7493 12793 3.243771 CCCTACACTATCAATCGGTCCAC 60.244 52.174 0.00 0.00 0.00 4.02
7494 12794 2.963101 CCCTACACTATCAATCGGTCCA 59.037 50.000 0.00 0.00 0.00 4.02
7495 12795 2.963782 ACCCTACACTATCAATCGGTCC 59.036 50.000 0.00 0.00 0.00 4.46
7496 12796 5.779529 TTACCCTACACTATCAATCGGTC 57.220 43.478 0.00 0.00 0.00 4.79
7497 12797 6.325545 TGAATTACCCTACACTATCAATCGGT 59.674 38.462 0.00 0.00 0.00 4.69
7498 12798 6.755206 TGAATTACCCTACACTATCAATCGG 58.245 40.000 0.00 0.00 0.00 4.18
7499 12799 8.141909 TCTTGAATTACCCTACACTATCAATCG 58.858 37.037 0.00 0.00 0.00 3.34
7500 12800 9.262358 GTCTTGAATTACCCTACACTATCAATC 57.738 37.037 0.00 0.00 0.00 2.67
7501 12801 7.926555 CGTCTTGAATTACCCTACACTATCAAT 59.073 37.037 0.00 0.00 0.00 2.57
7502 12802 7.093640 ACGTCTTGAATTACCCTACACTATCAA 60.094 37.037 0.00 0.00 0.00 2.57
7503 12803 6.379133 ACGTCTTGAATTACCCTACACTATCA 59.621 38.462 0.00 0.00 0.00 2.15
7504 12804 6.696148 CACGTCTTGAATTACCCTACACTATC 59.304 42.308 0.00 0.00 0.00 2.08
7505 12805 6.570692 CACGTCTTGAATTACCCTACACTAT 58.429 40.000 0.00 0.00 0.00 2.12
7506 12806 5.957798 CACGTCTTGAATTACCCTACACTA 58.042 41.667 0.00 0.00 0.00 2.74
7507 12807 4.817517 CACGTCTTGAATTACCCTACACT 58.182 43.478 0.00 0.00 0.00 3.55


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

AutoCloner maintained by Alex Coulton.