Multiple sequence alignment - TraesCS2B01G537200
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 | TraesCS2B01G537200 | chr2B | 100.000 | 3454 | 0 | 0 | 1 | 3454 | 732594025 | 732590572 | 0.000000e+00 | 6379.0 |
1 | TraesCS2B01G537200 | chr2B | 87.077 | 975 | 122 | 4 | 2482 | 3454 | 755914483 | 755915455 | 0.000000e+00 | 1099.0 |
2 | TraesCS2B01G537200 | chr2B | 86.855 | 1027 | 68 | 29 | 1374 | 2389 | 732892973 | 732893943 | 0.000000e+00 | 1086.0 |
3 | TraesCS2B01G537200 | chr2B | 97.812 | 320 | 6 | 1 | 2404 | 2722 | 732586409 | 732586090 | 5.040000e-153 | 551.0 |
4 | TraesCS2B01G537200 | chr2B | 83.940 | 467 | 51 | 11 | 1398 | 1855 | 732864642 | 732865093 | 3.190000e-115 | 425.0 |
5 | TraesCS2B01G537200 | chr2B | 87.077 | 325 | 42 | 0 | 2072 | 2396 | 732865352 | 732865676 | 5.450000e-98 | 368.0 |
6 | TraesCS2B01G537200 | chr2B | 81.595 | 163 | 12 | 11 | 907 | 1063 | 732892469 | 732892619 | 6.060000e-23 | 119.0 |
7 | TraesCS2B01G537200 | chr2A | 98.488 | 1058 | 15 | 1 | 2398 | 3454 | 684429097 | 684430154 | 0.000000e+00 | 1864.0 |
8 | TraesCS2B01G537200 | chr2A | 91.955 | 1156 | 71 | 11 | 225 | 1370 | 734989980 | 734988837 | 0.000000e+00 | 1600.0 |
9 | TraesCS2B01G537200 | chr2A | 93.788 | 998 | 50 | 4 | 1412 | 2401 | 734988832 | 734987839 | 0.000000e+00 | 1489.0 |
10 | TraesCS2B01G537200 | chr2A | 87.012 | 1024 | 72 | 27 | 1374 | 2389 | 735244264 | 735245234 | 0.000000e+00 | 1098.0 |
11 | TraesCS2B01G537200 | chr2A | 85.714 | 455 | 46 | 9 | 1393 | 1841 | 735238331 | 735238772 | 2.430000e-126 | 462.0 |
12 | TraesCS2B01G537200 | chr2A | 97.807 | 228 | 5 | 0 | 2404 | 2631 | 684434323 | 684434550 | 8.980000e-106 | 394.0 |
13 | TraesCS2B01G537200 | chr2A | 85.345 | 348 | 42 | 4 | 2054 | 2401 | 735261955 | 735262293 | 5.480000e-93 | 351.0 |
14 | TraesCS2B01G537200 | chr2A | 100.000 | 31 | 0 | 0 | 802 | 832 | 713643365 | 713643335 | 1.340000e-04 | 58.4 |
15 | TraesCS2B01G537200 | chr6B | 93.443 | 976 | 56 | 8 | 2482 | 3454 | 714304198 | 714303228 | 0.000000e+00 | 1441.0 |
16 | TraesCS2B01G537200 | chr6B | 77.914 | 978 | 203 | 13 | 2482 | 3454 | 101611641 | 101610672 | 6.380000e-167 | 597.0 |
17 | TraesCS2B01G537200 | chr6B | 78.947 | 171 | 29 | 2 | 432 | 602 | 38976927 | 38977090 | 3.640000e-20 | 110.0 |
18 | TraesCS2B01G537200 | chrUn | 93.238 | 976 | 59 | 7 | 2482 | 3454 | 79546543 | 79545572 | 0.000000e+00 | 1430.0 |
19 | TraesCS2B01G537200 | chrUn | 88.085 | 235 | 21 | 7 | 2482 | 2713 | 79541329 | 79541099 | 4.390000e-69 | 272.0 |
20 | TraesCS2B01G537200 | chr5A | 83.765 | 579 | 88 | 6 | 2482 | 3058 | 614546861 | 614546287 | 8.430000e-151 | 544.0 |
21 | TraesCS2B01G537200 | chr5A | 87.466 | 367 | 46 | 0 | 3084 | 3450 | 614523228 | 614522862 | 1.150000e-114 | 424.0 |
22 | TraesCS2B01G537200 | chr5A | 86.792 | 371 | 49 | 0 | 3084 | 3454 | 614546288 | 614545918 | 6.900000e-112 | 414.0 |
23 | TraesCS2B01G537200 | chr2D | 83.656 | 465 | 53 | 13 | 1413 | 1868 | 602648245 | 602648695 | 1.920000e-112 | 416.0 |
24 | TraesCS2B01G537200 | chr2D | 86.239 | 327 | 45 | 0 | 2072 | 2398 | 602648830 | 602649156 | 4.240000e-94 | 355.0 |
25 | TraesCS2B01G537200 | chr2D | 84.309 | 376 | 44 | 10 | 2024 | 2393 | 602253428 | 602253062 | 1.520000e-93 | 353.0 |
26 | TraesCS2B01G537200 | chr4A | 78.618 | 608 | 124 | 6 | 2452 | 3057 | 607624179 | 607624782 | 6.950000e-107 | 398.0 |
27 | TraesCS2B01G537200 | chr5D | 80.519 | 154 | 21 | 3 | 424 | 576 | 509290113 | 509290258 | 3.640000e-20 | 110.0 |
28 | TraesCS2B01G537200 | chr1A | 84.286 | 70 | 8 | 3 | 1152 | 1220 | 9697476 | 9697409 | 8.000000e-07 | 65.8 |
29 | TraesCS2B01G537200 | chr5B | 93.023 | 43 | 3 | 0 | 803 | 845 | 592293561 | 592293603 | 2.880000e-06 | 63.9 |
30 | TraesCS2B01G537200 | chr7B | 100.000 | 30 | 0 | 0 | 803 | 832 | 429215397 | 429215426 | 4.820000e-04 | 56.5 |
31 | TraesCS2B01G537200 | chr1B | 100.000 | 30 | 0 | 0 | 803 | 832 | 558522166 | 558522137 | 4.820000e-04 | 56.5 |
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.
query | scaffold | start | end | length | rev.comp | avg.bitscore | max.bitscore | avg.percent.identical | query.start | query.end | num_hsp | groupid | homo_length | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS2B01G537200 | chr2B | 732590572 | 732594025 | 3453 | True | 6379.0 | 6379 | 100.0000 | 1 | 3454 | 1 | chr2B.!!$R2 | 3453 |
1 | TraesCS2B01G537200 | chr2B | 755914483 | 755915455 | 972 | False | 1099.0 | 1099 | 87.0770 | 2482 | 3454 | 1 | chr2B.!!$F1 | 972 |
2 | TraesCS2B01G537200 | chr2B | 732892469 | 732893943 | 1474 | False | 602.5 | 1086 | 84.2250 | 907 | 2389 | 2 | chr2B.!!$F3 | 1482 |
3 | TraesCS2B01G537200 | chr2B | 732864642 | 732865676 | 1034 | False | 396.5 | 425 | 85.5085 | 1398 | 2396 | 2 | chr2B.!!$F2 | 998 |
4 | TraesCS2B01G537200 | chr2A | 684429097 | 684430154 | 1057 | False | 1864.0 | 1864 | 98.4880 | 2398 | 3454 | 1 | chr2A.!!$F1 | 1056 |
5 | TraesCS2B01G537200 | chr2A | 734987839 | 734989980 | 2141 | True | 1544.5 | 1600 | 92.8715 | 225 | 2401 | 2 | chr2A.!!$R2 | 2176 |
6 | TraesCS2B01G537200 | chr2A | 735244264 | 735245234 | 970 | False | 1098.0 | 1098 | 87.0120 | 1374 | 2389 | 1 | chr2A.!!$F4 | 1015 |
7 | TraesCS2B01G537200 | chr6B | 714303228 | 714304198 | 970 | True | 1441.0 | 1441 | 93.4430 | 2482 | 3454 | 1 | chr6B.!!$R2 | 972 |
8 | TraesCS2B01G537200 | chr6B | 101610672 | 101611641 | 969 | True | 597.0 | 597 | 77.9140 | 2482 | 3454 | 1 | chr6B.!!$R1 | 972 |
9 | TraesCS2B01G537200 | chrUn | 79545572 | 79546543 | 971 | True | 1430.0 | 1430 | 93.2380 | 2482 | 3454 | 1 | chrUn.!!$R2 | 972 |
10 | TraesCS2B01G537200 | chr5A | 614545918 | 614546861 | 943 | True | 479.0 | 544 | 85.2785 | 2482 | 3454 | 2 | chr5A.!!$R2 | 972 |
11 | TraesCS2B01G537200 | chr2D | 602648245 | 602649156 | 911 | False | 385.5 | 416 | 84.9475 | 1413 | 2398 | 2 | chr2D.!!$F1 | 985 |
12 | TraesCS2B01G537200 | chr4A | 607624179 | 607624782 | 603 | False | 398.0 | 398 | 78.6180 | 2452 | 3057 | 1 | chr4A.!!$F1 | 605 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
204 | 205 | 0.401738 | CCACCTCACCTTCACCATGT | 59.598 | 55.0 | 0.0 | 0.0 | 0.0 | 3.21 | F |
209 | 210 | 0.478072 | TCACCTTCACCATGTTGCCT | 59.522 | 50.0 | 0.0 | 0.0 | 0.0 | 4.75 | F |
1520 | 1622 | 0.034896 | ACGGGCTTGTCACGAAGATT | 59.965 | 50.0 | 0.0 | 0.0 | 0.0 | 2.40 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1282 | 1327 | 0.301687 | TCGTCGACTCCGCGTTATAC | 59.698 | 55.000 | 14.70 | 0.0 | 36.92 | 1.47 | R |
2037 | 2265 | 0.817654 | TGAGCTCACATACTGGACCG | 59.182 | 55.000 | 13.74 | 0.0 | 0.00 | 4.79 | R |
2711 | 2941 | 4.033709 | CAAGTCTCAAGGAGAGGGGAATA | 58.966 | 47.826 | 0.00 | 0.0 | 44.81 | 1.75 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
78 | 79 | 8.497554 | ACATTACAACAAAATCAATGAACATGC | 58.502 | 29.630 | 0.00 | 0.00 | 32.29 | 4.06 |
79 | 80 | 8.496751 | CATTACAACAAAATCAATGAACATGCA | 58.503 | 29.630 | 0.00 | 0.00 | 0.00 | 3.96 |
80 | 81 | 8.604640 | TTACAACAAAATCAATGAACATGCAT | 57.395 | 26.923 | 0.00 | 0.00 | 0.00 | 3.96 |
81 | 82 | 7.124347 | ACAACAAAATCAATGAACATGCATC | 57.876 | 32.000 | 0.00 | 0.00 | 0.00 | 3.91 |
82 | 83 | 6.706716 | ACAACAAAATCAATGAACATGCATCA | 59.293 | 30.769 | 0.00 | 4.45 | 0.00 | 3.07 |
83 | 84 | 7.226918 | ACAACAAAATCAATGAACATGCATCAA | 59.773 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
84 | 85 | 7.915293 | ACAAAATCAATGAACATGCATCAAT | 57.085 | 28.000 | 0.00 | 0.00 | 0.00 | 2.57 |
85 | 86 | 8.330466 | ACAAAATCAATGAACATGCATCAATT | 57.670 | 26.923 | 0.00 | 0.00 | 0.00 | 2.32 |
86 | 87 | 8.233868 | ACAAAATCAATGAACATGCATCAATTG | 58.766 | 29.630 | 0.00 | 0.00 | 0.00 | 2.32 |
87 | 88 | 8.447053 | CAAAATCAATGAACATGCATCAATTGA | 58.553 | 29.630 | 11.26 | 11.26 | 33.31 | 2.57 |
88 | 89 | 8.554835 | AAATCAATGAACATGCATCAATTGAA | 57.445 | 26.923 | 13.09 | 0.00 | 32.93 | 2.69 |
89 | 90 | 7.770801 | ATCAATGAACATGCATCAATTGAAG | 57.229 | 32.000 | 13.09 | 9.46 | 32.93 | 3.02 |
90 | 91 | 5.579119 | TCAATGAACATGCATCAATTGAAGC | 59.421 | 36.000 | 24.90 | 24.90 | 39.04 | 3.86 |
96 | 97 | 3.581024 | TGCATCAATTGAAGCAGGTTC | 57.419 | 42.857 | 29.07 | 5.33 | 42.83 | 3.62 |
97 | 98 | 2.892215 | TGCATCAATTGAAGCAGGTTCA | 59.108 | 40.909 | 29.07 | 11.11 | 42.83 | 3.18 |
98 | 99 | 3.512329 | TGCATCAATTGAAGCAGGTTCAT | 59.488 | 39.130 | 29.07 | 0.00 | 44.89 | 2.57 |
99 | 100 | 4.020928 | TGCATCAATTGAAGCAGGTTCATT | 60.021 | 37.500 | 29.07 | 9.64 | 44.89 | 2.57 |
100 | 101 | 4.933400 | GCATCAATTGAAGCAGGTTCATTT | 59.067 | 37.500 | 26.25 | 14.78 | 44.89 | 2.32 |
106 | 107 | 5.787953 | TTGAAGCAGGTTCATTTGATTGA | 57.212 | 34.783 | 15.71 | 0.00 | 44.89 | 2.57 |
107 | 108 | 5.988310 | TGAAGCAGGTTCATTTGATTGAT | 57.012 | 34.783 | 11.11 | 0.00 | 40.45 | 2.57 |
108 | 109 | 7.465353 | TTGAAGCAGGTTCATTTGATTGATA | 57.535 | 32.000 | 15.71 | 0.00 | 44.89 | 2.15 |
109 | 110 | 7.649533 | TGAAGCAGGTTCATTTGATTGATAT | 57.350 | 32.000 | 11.11 | 0.00 | 40.45 | 1.63 |
110 | 111 | 8.070034 | TGAAGCAGGTTCATTTGATTGATATT | 57.930 | 30.769 | 11.11 | 0.00 | 40.45 | 1.28 |
111 | 112 | 9.187996 | TGAAGCAGGTTCATTTGATTGATATTA | 57.812 | 29.630 | 11.11 | 0.00 | 40.45 | 0.98 |
112 | 113 | 9.674824 | GAAGCAGGTTCATTTGATTGATATTAG | 57.325 | 33.333 | 7.51 | 0.00 | 34.97 | 1.73 |
113 | 114 | 8.757982 | AGCAGGTTCATTTGATTGATATTAGT | 57.242 | 30.769 | 0.00 | 0.00 | 0.00 | 2.24 |
114 | 115 | 9.851686 | AGCAGGTTCATTTGATTGATATTAGTA | 57.148 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
149 | 150 | 8.691661 | GAAGTTATCTTCAGATAGTCTCCTCT | 57.308 | 38.462 | 8.40 | 0.00 | 46.50 | 3.69 |
150 | 151 | 8.691661 | AAGTTATCTTCAGATAGTCTCCTCTC | 57.308 | 38.462 | 0.00 | 0.00 | 38.18 | 3.20 |
151 | 152 | 7.231467 | AGTTATCTTCAGATAGTCTCCTCTCC | 58.769 | 42.308 | 0.00 | 0.00 | 38.18 | 3.71 |
152 | 153 | 5.930209 | ATCTTCAGATAGTCTCCTCTCCT | 57.070 | 43.478 | 0.00 | 0.00 | 32.01 | 3.69 |
153 | 154 | 5.304686 | TCTTCAGATAGTCTCCTCTCCTC | 57.695 | 47.826 | 0.00 | 0.00 | 0.00 | 3.71 |
154 | 155 | 4.104102 | TCTTCAGATAGTCTCCTCTCCTCC | 59.896 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
155 | 156 | 3.398490 | TCAGATAGTCTCCTCTCCTCCA | 58.602 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
156 | 157 | 3.137544 | TCAGATAGTCTCCTCTCCTCCAC | 59.862 | 52.174 | 0.00 | 0.00 | 0.00 | 4.02 |
157 | 158 | 2.445525 | AGATAGTCTCCTCTCCTCCACC | 59.554 | 54.545 | 0.00 | 0.00 | 0.00 | 4.61 |
158 | 159 | 0.927767 | TAGTCTCCTCTCCTCCACCC | 59.072 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
159 | 160 | 0.853586 | AGTCTCCTCTCCTCCACCCT | 60.854 | 60.000 | 0.00 | 0.00 | 0.00 | 4.34 |
160 | 161 | 0.686112 | GTCTCCTCTCCTCCACCCTG | 60.686 | 65.000 | 0.00 | 0.00 | 0.00 | 4.45 |
161 | 162 | 0.851332 | TCTCCTCTCCTCCACCCTGA | 60.851 | 60.000 | 0.00 | 0.00 | 0.00 | 3.86 |
162 | 163 | 0.686112 | CTCCTCTCCTCCACCCTGAC | 60.686 | 65.000 | 0.00 | 0.00 | 0.00 | 3.51 |
163 | 164 | 1.687493 | CCTCTCCTCCACCCTGACC | 60.687 | 68.421 | 0.00 | 0.00 | 0.00 | 4.02 |
164 | 165 | 1.687493 | CTCTCCTCCACCCTGACCC | 60.687 | 68.421 | 0.00 | 0.00 | 0.00 | 4.46 |
165 | 166 | 2.689034 | CTCCTCCACCCTGACCCC | 60.689 | 72.222 | 0.00 | 0.00 | 0.00 | 4.95 |
166 | 167 | 4.715130 | TCCTCCACCCTGACCCCG | 62.715 | 72.222 | 0.00 | 0.00 | 0.00 | 5.73 |
169 | 170 | 4.585216 | TCCACCCTGACCCCGGTT | 62.585 | 66.667 | 0.00 | 0.00 | 0.00 | 4.44 |
170 | 171 | 4.344865 | CCACCCTGACCCCGGTTG | 62.345 | 72.222 | 0.00 | 0.00 | 0.00 | 3.77 |
171 | 172 | 4.344865 | CACCCTGACCCCGGTTGG | 62.345 | 72.222 | 0.00 | 0.00 | 0.00 | 3.77 |
174 | 175 | 4.410400 | CCTGACCCCGGTTGGCTC | 62.410 | 72.222 | 0.00 | 0.00 | 0.00 | 4.70 |
175 | 176 | 4.760047 | CTGACCCCGGTTGGCTCG | 62.760 | 72.222 | 0.00 | 0.00 | 0.00 | 5.03 |
196 | 197 | 4.643387 | GCCGTGCCACCTCACCTT | 62.643 | 66.667 | 0.00 | 0.00 | 33.57 | 3.50 |
197 | 198 | 2.358737 | CCGTGCCACCTCACCTTC | 60.359 | 66.667 | 0.00 | 0.00 | 33.57 | 3.46 |
198 | 199 | 2.425592 | CGTGCCACCTCACCTTCA | 59.574 | 61.111 | 0.00 | 0.00 | 33.57 | 3.02 |
199 | 200 | 1.961277 | CGTGCCACCTCACCTTCAC | 60.961 | 63.158 | 0.00 | 0.00 | 33.57 | 3.18 |
200 | 201 | 1.600916 | GTGCCACCTCACCTTCACC | 60.601 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
201 | 202 | 2.075566 | TGCCACCTCACCTTCACCA | 61.076 | 57.895 | 0.00 | 0.00 | 0.00 | 4.17 |
202 | 203 | 1.380302 | GCCACCTCACCTTCACCAT | 59.620 | 57.895 | 0.00 | 0.00 | 0.00 | 3.55 |
203 | 204 | 0.962356 | GCCACCTCACCTTCACCATG | 60.962 | 60.000 | 0.00 | 0.00 | 0.00 | 3.66 |
204 | 205 | 0.401738 | CCACCTCACCTTCACCATGT | 59.598 | 55.000 | 0.00 | 0.00 | 0.00 | 3.21 |
205 | 206 | 1.202927 | CCACCTCACCTTCACCATGTT | 60.203 | 52.381 | 0.00 | 0.00 | 0.00 | 2.71 |
206 | 207 | 1.881973 | CACCTCACCTTCACCATGTTG | 59.118 | 52.381 | 0.00 | 0.00 | 0.00 | 3.33 |
207 | 208 | 0.883833 | CCTCACCTTCACCATGTTGC | 59.116 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
208 | 209 | 0.883833 | CTCACCTTCACCATGTTGCC | 59.116 | 55.000 | 0.00 | 0.00 | 0.00 | 4.52 |
209 | 210 | 0.478072 | TCACCTTCACCATGTTGCCT | 59.522 | 50.000 | 0.00 | 0.00 | 0.00 | 4.75 |
210 | 211 | 1.133513 | TCACCTTCACCATGTTGCCTT | 60.134 | 47.619 | 0.00 | 0.00 | 0.00 | 4.35 |
211 | 212 | 1.000060 | CACCTTCACCATGTTGCCTTG | 60.000 | 52.381 | 0.00 | 0.00 | 0.00 | 3.61 |
212 | 213 | 1.133513 | ACCTTCACCATGTTGCCTTGA | 60.134 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
213 | 214 | 1.962807 | CCTTCACCATGTTGCCTTGAA | 59.037 | 47.619 | 0.00 | 0.00 | 0.00 | 2.69 |
214 | 215 | 2.364970 | CCTTCACCATGTTGCCTTGAAA | 59.635 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
215 | 216 | 3.383761 | CTTCACCATGTTGCCTTGAAAC | 58.616 | 45.455 | 0.00 | 0.00 | 0.00 | 2.78 |
216 | 217 | 1.686052 | TCACCATGTTGCCTTGAAACC | 59.314 | 47.619 | 0.00 | 0.00 | 0.00 | 3.27 |
217 | 218 | 1.047801 | ACCATGTTGCCTTGAAACCC | 58.952 | 50.000 | 0.00 | 0.00 | 0.00 | 4.11 |
218 | 219 | 1.047002 | CCATGTTGCCTTGAAACCCA | 58.953 | 50.000 | 0.00 | 0.00 | 0.00 | 4.51 |
219 | 220 | 1.270252 | CCATGTTGCCTTGAAACCCAC | 60.270 | 52.381 | 0.00 | 0.00 | 0.00 | 4.61 |
220 | 221 | 1.411977 | CATGTTGCCTTGAAACCCACA | 59.588 | 47.619 | 0.00 | 0.00 | 0.00 | 4.17 |
221 | 222 | 1.561643 | TGTTGCCTTGAAACCCACAA | 58.438 | 45.000 | 0.00 | 0.00 | 0.00 | 3.33 |
222 | 223 | 2.114616 | TGTTGCCTTGAAACCCACAAT | 58.885 | 42.857 | 0.00 | 0.00 | 0.00 | 2.71 |
223 | 224 | 2.503356 | TGTTGCCTTGAAACCCACAATT | 59.497 | 40.909 | 0.00 | 0.00 | 0.00 | 2.32 |
227 | 228 | 3.181467 | TGCCTTGAAACCCACAATTTGAG | 60.181 | 43.478 | 2.79 | 0.00 | 0.00 | 3.02 |
234 | 235 | 2.348472 | ACCCACAATTTGAGGAGAGGA | 58.652 | 47.619 | 13.71 | 0.00 | 28.90 | 3.71 |
237 | 238 | 2.356535 | CCACAATTTGAGGAGAGGAGGG | 60.357 | 54.545 | 7.03 | 0.00 | 28.90 | 4.30 |
264 | 265 | 1.154150 | GCTTCAACGCTGATGGCAC | 60.154 | 57.895 | 8.68 | 0.00 | 41.91 | 5.01 |
279 | 280 | 1.064803 | TGGCACACGAAATGTTGTCAC | 59.935 | 47.619 | 0.00 | 0.00 | 40.64 | 3.67 |
293 | 294 | 0.806868 | TGTCACATCCGACGGACTAC | 59.193 | 55.000 | 21.02 | 14.75 | 38.84 | 2.73 |
314 | 316 | 4.143333 | CCCGATCCAGGTTCGCGT | 62.143 | 66.667 | 13.72 | 0.00 | 35.31 | 6.01 |
375 | 377 | 6.590292 | TGAGTTCGACAGATTTATCCTTTCAC | 59.410 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
376 | 378 | 6.464222 | AGTTCGACAGATTTATCCTTTCACA | 58.536 | 36.000 | 0.00 | 0.00 | 0.00 | 3.58 |
401 | 403 | 9.702726 | CACATTATATTACAAAAACTCTCCACG | 57.297 | 33.333 | 0.00 | 0.00 | 0.00 | 4.94 |
427 | 429 | 5.486526 | AGAAGACATCTCAACAACTCCATC | 58.513 | 41.667 | 0.00 | 0.00 | 30.46 | 3.51 |
430 | 432 | 3.341823 | ACATCTCAACAACTCCATCTGC | 58.658 | 45.455 | 0.00 | 0.00 | 0.00 | 4.26 |
451 | 453 | 0.963962 | CTGGCCTTGACAAACAGCAT | 59.036 | 50.000 | 3.32 | 0.00 | 0.00 | 3.79 |
491 | 494 | 1.073199 | GTGGCTTACTGGTGGTGCT | 59.927 | 57.895 | 0.00 | 0.00 | 0.00 | 4.40 |
513 | 516 | 4.832248 | TGATGAAGCTACTTTGATTCCGT | 58.168 | 39.130 | 0.00 | 0.00 | 32.04 | 4.69 |
585 | 588 | 3.217626 | GCACCCTGCTGCTATTAAGAAT | 58.782 | 45.455 | 0.00 | 0.00 | 40.96 | 2.40 |
639 | 642 | 2.679996 | AAAGCCCATTCCCACCGC | 60.680 | 61.111 | 0.00 | 0.00 | 0.00 | 5.68 |
672 | 675 | 3.207669 | GGCCTGCCAGCGATTCTG | 61.208 | 66.667 | 2.58 | 0.00 | 42.49 | 3.02 |
673 | 676 | 2.437359 | GCCTGCCAGCGATTCTGT | 60.437 | 61.111 | 0.00 | 0.00 | 41.25 | 3.41 |
731 | 734 | 2.175202 | AGCTTGTGTTGTGGGTTTTGA | 58.825 | 42.857 | 0.00 | 0.00 | 0.00 | 2.69 |
736 | 739 | 4.873746 | TGTGTTGTGGGTTTTGAAAAGA | 57.126 | 36.364 | 0.00 | 0.00 | 0.00 | 2.52 |
746 | 749 | 7.094805 | TGTGGGTTTTGAAAAGAGAATAGATCG | 60.095 | 37.037 | 0.00 | 0.00 | 0.00 | 3.69 |
761 | 764 | 1.278127 | AGATCGTGATTTGGGACCGTT | 59.722 | 47.619 | 0.00 | 0.00 | 0.00 | 4.44 |
764 | 767 | 0.519961 | CGTGATTTGGGACCGTTTCC | 59.480 | 55.000 | 0.00 | 0.00 | 45.00 | 3.13 |
832 | 835 | 9.585099 | TTGAATTATTTGGATTGCTTATCACAC | 57.415 | 29.630 | 2.57 | 0.00 | 34.77 | 3.82 |
837 | 840 | 5.981088 | TTGGATTGCTTATCACACATGTT | 57.019 | 34.783 | 0.00 | 0.00 | 34.77 | 2.71 |
839 | 842 | 6.435430 | TGGATTGCTTATCACACATGTTAC | 57.565 | 37.500 | 0.00 | 0.00 | 34.77 | 2.50 |
840 | 843 | 5.942826 | TGGATTGCTTATCACACATGTTACA | 59.057 | 36.000 | 0.00 | 0.00 | 34.77 | 2.41 |
904 | 907 | 6.642707 | TTTTGTTCACTCGGTTATTCCATT | 57.357 | 33.333 | 0.00 | 0.00 | 35.57 | 3.16 |
915 | 918 | 5.067153 | TCGGTTATTCCATTTAGCCAATGTG | 59.933 | 40.000 | 5.69 | 0.00 | 40.87 | 3.21 |
961 | 964 | 6.429692 | TGACAAACATCAACAAATCCTACGAT | 59.570 | 34.615 | 0.00 | 0.00 | 0.00 | 3.73 |
962 | 965 | 7.604545 | TGACAAACATCAACAAATCCTACGATA | 59.395 | 33.333 | 0.00 | 0.00 | 0.00 | 2.92 |
963 | 966 | 8.330466 | ACAAACATCAACAAATCCTACGATAA | 57.670 | 30.769 | 0.00 | 0.00 | 0.00 | 1.75 |
1303 | 1359 | 1.364626 | ATAACGCGGAGTCGACGACT | 61.365 | 55.000 | 29.59 | 29.59 | 46.42 | 4.18 |
1349 | 1440 | 5.419155 | ACGACCATGTATATATCCACCTCTG | 59.581 | 44.000 | 0.00 | 0.00 | 0.00 | 3.35 |
1364 | 1455 | 1.756538 | CCTCTGCTTGTTGTGGGTTTT | 59.243 | 47.619 | 0.00 | 0.00 | 0.00 | 2.43 |
1370 | 1461 | 5.091261 | TGCTTGTTGTGGGTTTTAATGTT | 57.909 | 34.783 | 0.00 | 0.00 | 0.00 | 2.71 |
1371 | 1462 | 6.096987 | TCTGCTTGTTGTGGGTTTTAATGTTA | 59.903 | 34.615 | 0.00 | 0.00 | 0.00 | 2.41 |
1372 | 1463 | 6.640518 | TGCTTGTTGTGGGTTTTAATGTTAA | 58.359 | 32.000 | 0.00 | 0.00 | 0.00 | 2.01 |
1383 | 1474 | 7.102993 | GGGTTTTAATGTTAATGTGGCTTGAT | 58.897 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
1391 | 1482 | 5.106197 | TGTTAATGTGGCTTGATTGCAGTAG | 60.106 | 40.000 | 0.00 | 0.00 | 34.04 | 2.57 |
1394 | 1485 | 3.334691 | TGTGGCTTGATTGCAGTAGTAC | 58.665 | 45.455 | 0.00 | 0.00 | 34.04 | 2.73 |
1396 | 1487 | 4.221924 | TGTGGCTTGATTGCAGTAGTACTA | 59.778 | 41.667 | 1.57 | 0.00 | 34.04 | 1.82 |
1398 | 1489 | 5.817816 | GTGGCTTGATTGCAGTAGTACTAAT | 59.182 | 40.000 | 3.61 | 0.00 | 34.04 | 1.73 |
1399 | 1490 | 6.316390 | GTGGCTTGATTGCAGTAGTACTAATT | 59.684 | 38.462 | 3.61 | 0.00 | 34.04 | 1.40 |
1400 | 1491 | 7.494625 | GTGGCTTGATTGCAGTAGTACTAATTA | 59.505 | 37.037 | 3.61 | 0.00 | 34.04 | 1.40 |
1401 | 1492 | 8.044309 | TGGCTTGATTGCAGTAGTACTAATTAA | 58.956 | 33.333 | 3.61 | 1.94 | 34.04 | 1.40 |
1402 | 1493 | 8.336080 | GGCTTGATTGCAGTAGTACTAATTAAC | 58.664 | 37.037 | 3.61 | 0.00 | 34.04 | 2.01 |
1403 | 1494 | 8.056571 | GCTTGATTGCAGTAGTACTAATTAACG | 58.943 | 37.037 | 3.61 | 0.00 | 0.00 | 3.18 |
1404 | 1495 | 8.991243 | TTGATTGCAGTAGTACTAATTAACGT | 57.009 | 30.769 | 3.61 | 0.00 | 0.00 | 3.99 |
1438 | 1532 | 5.131784 | GGTATACAGTGTAGCTAGTCTGGT | 58.868 | 45.833 | 21.49 | 14.89 | 32.92 | 4.00 |
1508 | 1610 | 1.821216 | CTTTGTATGTCCACGGGCTT | 58.179 | 50.000 | 0.00 | 0.00 | 0.00 | 4.35 |
1520 | 1622 | 0.034896 | ACGGGCTTGTCACGAAGATT | 59.965 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
1525 | 1627 | 2.415512 | GGCTTGTCACGAAGATTACCAC | 59.584 | 50.000 | 0.00 | 0.00 | 0.00 | 4.16 |
1535 | 1637 | 4.825252 | ATTACCACGGCGGCGGAC | 62.825 | 66.667 | 35.05 | 0.00 | 39.03 | 4.79 |
1705 | 1813 | 1.589716 | GCTTGCCAGAAATGGAGCGT | 61.590 | 55.000 | 0.00 | 0.00 | 0.00 | 5.07 |
1787 | 1895 | 0.041238 | TCGACTCCCACCTCATCCTT | 59.959 | 55.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1870 | 1990 | 1.810030 | CCAGCGTTCTTCTACCGGC | 60.810 | 63.158 | 0.00 | 0.00 | 0.00 | 6.13 |
1877 | 1997 | 4.077184 | CTTCTACCGGCGGCACCA | 62.077 | 66.667 | 28.71 | 7.97 | 39.03 | 4.17 |
1878 | 1998 | 4.382320 | TTCTACCGGCGGCACCAC | 62.382 | 66.667 | 28.71 | 0.00 | 39.03 | 4.16 |
1908 | 2028 | 1.890979 | GCTGCATCTGCTATGGCGT | 60.891 | 57.895 | 3.53 | 0.00 | 42.66 | 5.68 |
1950 | 2070 | 1.960763 | CAGCTGCAGGTGCGTACAA | 60.961 | 57.895 | 30.93 | 0.00 | 45.83 | 2.41 |
1967 | 2090 | 1.302832 | AAACCCGCAGCCAGAAGAG | 60.303 | 57.895 | 0.00 | 0.00 | 0.00 | 2.85 |
1973 | 2183 | 1.712977 | CGCAGCCAGAAGAGCCATTC | 61.713 | 60.000 | 0.00 | 0.00 | 0.00 | 2.67 |
2030 | 2258 | 5.894393 | CCCATCGTCTTCCATATATAGGAGT | 59.106 | 44.000 | 0.00 | 0.00 | 36.33 | 3.85 |
2037 | 2265 | 5.648526 | TCTTCCATATATAGGAGTCTGCGAC | 59.351 | 44.000 | 0.00 | 1.15 | 36.33 | 5.19 |
2068 | 2296 | 2.094390 | TGTGAGCTCAACGTATGTACCC | 60.094 | 50.000 | 20.19 | 1.49 | 0.00 | 3.69 |
2127 | 2355 | 1.237285 | AACTTCGGCCATGTGCTCAC | 61.237 | 55.000 | 2.24 | 0.00 | 40.92 | 3.51 |
2293 | 2521 | 2.351276 | GACCACATCGTGCCCCTT | 59.649 | 61.111 | 0.00 | 0.00 | 31.34 | 3.95 |
2610 | 2840 | 3.641906 | GCTGCTTCCCTTATACCTACTCA | 59.358 | 47.826 | 0.00 | 0.00 | 0.00 | 3.41 |
2620 | 2850 | 6.183361 | CCCTTATACCTACTCAGTCCACTCTA | 60.183 | 46.154 | 0.00 | 0.00 | 0.00 | 2.43 |
2711 | 2941 | 3.728373 | GCCCACCCTTCCCGTGAT | 61.728 | 66.667 | 0.00 | 0.00 | 32.77 | 3.06 |
2764 | 2994 | 3.882131 | GCCACAGCTCTGGGAAATA | 57.118 | 52.632 | 10.31 | 0.00 | 35.61 | 1.40 |
3368 | 3598 | 3.259374 | TCAAATGGAGAAGAGCGAAGAGT | 59.741 | 43.478 | 0.00 | 0.00 | 0.00 | 3.24 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
52 | 53 | 8.497554 | GCATGTTCATTGATTTTGTTGTAATGT | 58.502 | 29.630 | 0.00 | 0.00 | 32.22 | 2.71 |
53 | 54 | 8.496751 | TGCATGTTCATTGATTTTGTTGTAATG | 58.503 | 29.630 | 0.00 | 0.00 | 0.00 | 1.90 |
54 | 55 | 8.604640 | TGCATGTTCATTGATTTTGTTGTAAT | 57.395 | 26.923 | 0.00 | 0.00 | 0.00 | 1.89 |
55 | 56 | 8.604640 | ATGCATGTTCATTGATTTTGTTGTAA | 57.395 | 26.923 | 0.00 | 0.00 | 0.00 | 2.41 |
56 | 57 | 7.871463 | TGATGCATGTTCATTGATTTTGTTGTA | 59.129 | 29.630 | 2.46 | 0.00 | 0.00 | 2.41 |
57 | 58 | 6.706716 | TGATGCATGTTCATTGATTTTGTTGT | 59.293 | 30.769 | 2.46 | 0.00 | 0.00 | 3.32 |
58 | 59 | 7.123160 | TGATGCATGTTCATTGATTTTGTTG | 57.877 | 32.000 | 2.46 | 0.00 | 0.00 | 3.33 |
59 | 60 | 7.731882 | TTGATGCATGTTCATTGATTTTGTT | 57.268 | 28.000 | 2.46 | 0.00 | 0.00 | 2.83 |
60 | 61 | 7.915293 | ATTGATGCATGTTCATTGATTTTGT | 57.085 | 28.000 | 2.46 | 0.00 | 0.00 | 2.83 |
61 | 62 | 8.447053 | TCAATTGATGCATGTTCATTGATTTTG | 58.553 | 29.630 | 2.46 | 0.00 | 0.00 | 2.44 |
62 | 63 | 8.554835 | TCAATTGATGCATGTTCATTGATTTT | 57.445 | 26.923 | 2.46 | 0.00 | 0.00 | 1.82 |
63 | 64 | 8.554835 | TTCAATTGATGCATGTTCATTGATTT | 57.445 | 26.923 | 9.40 | 0.00 | 0.00 | 2.17 |
64 | 65 | 7.201609 | GCTTCAATTGATGCATGTTCATTGATT | 60.202 | 33.333 | 30.88 | 0.00 | 42.61 | 2.57 |
65 | 66 | 6.257849 | GCTTCAATTGATGCATGTTCATTGAT | 59.742 | 34.615 | 30.88 | 0.00 | 42.61 | 2.57 |
66 | 67 | 5.579119 | GCTTCAATTGATGCATGTTCATTGA | 59.421 | 36.000 | 30.88 | 9.37 | 42.61 | 2.57 |
67 | 68 | 5.350091 | TGCTTCAATTGATGCATGTTCATTG | 59.650 | 36.000 | 33.30 | 7.12 | 46.06 | 2.82 |
68 | 69 | 5.483811 | TGCTTCAATTGATGCATGTTCATT | 58.516 | 33.333 | 33.30 | 0.00 | 46.06 | 2.57 |
69 | 70 | 5.079689 | TGCTTCAATTGATGCATGTTCAT | 57.920 | 34.783 | 33.30 | 0.00 | 46.06 | 2.57 |
70 | 71 | 4.522722 | TGCTTCAATTGATGCATGTTCA | 57.477 | 36.364 | 33.30 | 17.43 | 46.06 | 3.18 |
75 | 76 | 8.746927 | CAAATGAACCTGCTTCAATTGATGCAT | 61.747 | 37.037 | 35.40 | 26.15 | 46.51 | 3.96 |
76 | 77 | 7.506768 | CAAATGAACCTGCTTCAATTGATGCA | 61.507 | 38.462 | 33.94 | 33.94 | 46.51 | 3.96 |
77 | 78 | 3.581024 | TGAACCTGCTTCAATTGATGC | 57.419 | 42.857 | 29.80 | 29.80 | 43.15 | 3.91 |
78 | 79 | 6.160684 | TCAAATGAACCTGCTTCAATTGATG | 58.839 | 36.000 | 9.40 | 12.82 | 46.82 | 3.07 |
79 | 80 | 6.349243 | TCAAATGAACCTGCTTCAATTGAT | 57.651 | 33.333 | 9.40 | 0.00 | 46.82 | 2.57 |
81 | 82 | 6.647481 | TCAATCAAATGAACCTGCTTCAATTG | 59.353 | 34.615 | 0.00 | 0.00 | 45.58 | 2.32 |
82 | 83 | 6.761312 | TCAATCAAATGAACCTGCTTCAATT | 58.239 | 32.000 | 0.00 | 0.00 | 42.37 | 2.32 |
83 | 84 | 6.349243 | TCAATCAAATGAACCTGCTTCAAT | 57.651 | 33.333 | 0.00 | 0.00 | 42.37 | 2.57 |
84 | 85 | 5.787953 | TCAATCAAATGAACCTGCTTCAA | 57.212 | 34.783 | 0.00 | 0.00 | 42.37 | 2.69 |
85 | 86 | 5.988310 | ATCAATCAAATGAACCTGCTTCA | 57.012 | 34.783 | 0.00 | 0.00 | 43.28 | 3.02 |
86 | 87 | 9.674824 | CTAATATCAATCAAATGAACCTGCTTC | 57.325 | 33.333 | 0.00 | 0.00 | 32.06 | 3.86 |
87 | 88 | 9.193806 | ACTAATATCAATCAAATGAACCTGCTT | 57.806 | 29.630 | 0.00 | 0.00 | 32.06 | 3.91 |
88 | 89 | 8.757982 | ACTAATATCAATCAAATGAACCTGCT | 57.242 | 30.769 | 0.00 | 0.00 | 32.06 | 4.24 |
121 | 122 | 7.444183 | AGGAGACTATCTGAAGATAACTTCGAG | 59.556 | 40.741 | 8.08 | 6.95 | 46.79 | 4.04 |
122 | 123 | 7.284074 | AGGAGACTATCTGAAGATAACTTCGA | 58.716 | 38.462 | 8.08 | 8.46 | 46.79 | 3.71 |
123 | 124 | 7.504924 | AGGAGACTATCTGAAGATAACTTCG | 57.495 | 40.000 | 8.08 | 3.90 | 46.79 | 3.79 |
124 | 125 | 8.691661 | AGAGGAGACTATCTGAAGATAACTTC | 57.308 | 38.462 | 5.82 | 5.82 | 46.28 | 3.01 |
125 | 126 | 8.691661 | GAGAGGAGACTATCTGAAGATAACTT | 57.308 | 38.462 | 1.87 | 0.00 | 45.28 | 2.66 |
138 | 139 | 1.501604 | GGGTGGAGGAGAGGAGACTAT | 59.498 | 57.143 | 0.00 | 0.00 | 44.43 | 2.12 |
139 | 140 | 0.927767 | GGGTGGAGGAGAGGAGACTA | 59.072 | 60.000 | 0.00 | 0.00 | 44.43 | 2.59 |
141 | 142 | 0.686112 | CAGGGTGGAGGAGAGGAGAC | 60.686 | 65.000 | 0.00 | 0.00 | 0.00 | 3.36 |
142 | 143 | 0.851332 | TCAGGGTGGAGGAGAGGAGA | 60.851 | 60.000 | 0.00 | 0.00 | 0.00 | 3.71 |
143 | 144 | 0.686112 | GTCAGGGTGGAGGAGAGGAG | 60.686 | 65.000 | 0.00 | 0.00 | 0.00 | 3.69 |
144 | 145 | 1.388531 | GTCAGGGTGGAGGAGAGGA | 59.611 | 63.158 | 0.00 | 0.00 | 0.00 | 3.71 |
145 | 146 | 1.687493 | GGTCAGGGTGGAGGAGAGG | 60.687 | 68.421 | 0.00 | 0.00 | 0.00 | 3.69 |
146 | 147 | 1.687493 | GGGTCAGGGTGGAGGAGAG | 60.687 | 68.421 | 0.00 | 0.00 | 0.00 | 3.20 |
147 | 148 | 2.450243 | GGGTCAGGGTGGAGGAGA | 59.550 | 66.667 | 0.00 | 0.00 | 0.00 | 3.71 |
148 | 149 | 2.689034 | GGGGTCAGGGTGGAGGAG | 60.689 | 72.222 | 0.00 | 0.00 | 0.00 | 3.69 |
149 | 150 | 4.715130 | CGGGGTCAGGGTGGAGGA | 62.715 | 72.222 | 0.00 | 0.00 | 0.00 | 3.71 |
152 | 153 | 4.585216 | AACCGGGGTCAGGGTGGA | 62.585 | 66.667 | 6.32 | 0.00 | 36.45 | 4.02 |
153 | 154 | 4.344865 | CAACCGGGGTCAGGGTGG | 62.345 | 72.222 | 6.32 | 0.00 | 42.56 | 4.61 |
154 | 155 | 4.344865 | CCAACCGGGGTCAGGGTG | 62.345 | 72.222 | 6.32 | 0.00 | 45.73 | 4.61 |
179 | 180 | 4.643387 | AAGGTGAGGTGGCACGGC | 62.643 | 66.667 | 12.17 | 6.48 | 39.66 | 5.68 |
180 | 181 | 2.358737 | GAAGGTGAGGTGGCACGG | 60.359 | 66.667 | 12.17 | 0.00 | 39.66 | 4.94 |
181 | 182 | 1.961277 | GTGAAGGTGAGGTGGCACG | 60.961 | 63.158 | 12.17 | 0.00 | 39.66 | 5.34 |
182 | 183 | 1.600916 | GGTGAAGGTGAGGTGGCAC | 60.601 | 63.158 | 9.70 | 9.70 | 38.05 | 5.01 |
183 | 184 | 1.426251 | ATGGTGAAGGTGAGGTGGCA | 61.426 | 55.000 | 0.00 | 0.00 | 0.00 | 4.92 |
184 | 185 | 0.962356 | CATGGTGAAGGTGAGGTGGC | 60.962 | 60.000 | 0.00 | 0.00 | 0.00 | 5.01 |
185 | 186 | 0.401738 | ACATGGTGAAGGTGAGGTGG | 59.598 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
186 | 187 | 1.881973 | CAACATGGTGAAGGTGAGGTG | 59.118 | 52.381 | 4.15 | 0.00 | 0.00 | 4.00 |
187 | 188 | 1.819305 | GCAACATGGTGAAGGTGAGGT | 60.819 | 52.381 | 16.85 | 0.00 | 0.00 | 3.85 |
188 | 189 | 0.883833 | GCAACATGGTGAAGGTGAGG | 59.116 | 55.000 | 16.85 | 0.00 | 0.00 | 3.86 |
189 | 190 | 0.883833 | GGCAACATGGTGAAGGTGAG | 59.116 | 55.000 | 16.85 | 0.00 | 0.00 | 3.51 |
190 | 191 | 0.478072 | AGGCAACATGGTGAAGGTGA | 59.522 | 50.000 | 16.85 | 0.00 | 41.41 | 4.02 |
191 | 192 | 1.000060 | CAAGGCAACATGGTGAAGGTG | 60.000 | 52.381 | 16.85 | 2.22 | 41.41 | 4.00 |
192 | 193 | 1.133513 | TCAAGGCAACATGGTGAAGGT | 60.134 | 47.619 | 16.85 | 0.00 | 35.55 | 3.50 |
193 | 194 | 1.619654 | TCAAGGCAACATGGTGAAGG | 58.380 | 50.000 | 16.85 | 0.00 | 35.55 | 3.46 |
194 | 195 | 3.383761 | GTTTCAAGGCAACATGGTGAAG | 58.616 | 45.455 | 16.85 | 0.02 | 35.55 | 3.02 |
195 | 196 | 2.102252 | GGTTTCAAGGCAACATGGTGAA | 59.898 | 45.455 | 16.85 | 0.00 | 35.55 | 3.18 |
196 | 197 | 1.686052 | GGTTTCAAGGCAACATGGTGA | 59.314 | 47.619 | 16.85 | 0.00 | 35.55 | 4.02 |
197 | 198 | 1.270252 | GGGTTTCAAGGCAACATGGTG | 60.270 | 52.381 | 6.32 | 6.32 | 35.55 | 4.17 |
198 | 199 | 1.047801 | GGGTTTCAAGGCAACATGGT | 58.952 | 50.000 | 0.00 | 0.00 | 35.55 | 3.55 |
199 | 200 | 1.047002 | TGGGTTTCAAGGCAACATGG | 58.953 | 50.000 | 0.00 | 0.00 | 35.55 | 3.66 |
200 | 201 | 1.411977 | TGTGGGTTTCAAGGCAACATG | 59.588 | 47.619 | 0.00 | 0.00 | 41.41 | 3.21 |
201 | 202 | 1.786937 | TGTGGGTTTCAAGGCAACAT | 58.213 | 45.000 | 0.00 | 0.00 | 41.41 | 2.71 |
202 | 203 | 1.561643 | TTGTGGGTTTCAAGGCAACA | 58.438 | 45.000 | 0.00 | 0.00 | 41.41 | 3.33 |
203 | 204 | 2.908688 | ATTGTGGGTTTCAAGGCAAC | 57.091 | 45.000 | 0.00 | 0.00 | 0.00 | 4.17 |
204 | 205 | 3.198635 | TCAAATTGTGGGTTTCAAGGCAA | 59.801 | 39.130 | 0.00 | 0.00 | 0.00 | 4.52 |
205 | 206 | 2.768527 | TCAAATTGTGGGTTTCAAGGCA | 59.231 | 40.909 | 0.00 | 0.00 | 0.00 | 4.75 |
206 | 207 | 3.392882 | CTCAAATTGTGGGTTTCAAGGC | 58.607 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
207 | 208 | 3.640967 | TCCTCAAATTGTGGGTTTCAAGG | 59.359 | 43.478 | 13.36 | 0.35 | 32.20 | 3.61 |
208 | 209 | 4.584325 | TCTCCTCAAATTGTGGGTTTCAAG | 59.416 | 41.667 | 13.36 | 3.64 | 32.20 | 3.02 |
209 | 210 | 4.541705 | TCTCCTCAAATTGTGGGTTTCAA | 58.458 | 39.130 | 13.36 | 0.00 | 32.20 | 2.69 |
210 | 211 | 4.144297 | CTCTCCTCAAATTGTGGGTTTCA | 58.856 | 43.478 | 13.36 | 0.00 | 32.20 | 2.69 |
211 | 212 | 3.507622 | CCTCTCCTCAAATTGTGGGTTTC | 59.492 | 47.826 | 13.36 | 0.00 | 32.20 | 2.78 |
212 | 213 | 3.140144 | TCCTCTCCTCAAATTGTGGGTTT | 59.860 | 43.478 | 13.36 | 0.00 | 32.20 | 3.27 |
213 | 214 | 2.716424 | TCCTCTCCTCAAATTGTGGGTT | 59.284 | 45.455 | 13.36 | 0.00 | 32.20 | 4.11 |
214 | 215 | 2.307098 | CTCCTCTCCTCAAATTGTGGGT | 59.693 | 50.000 | 13.36 | 0.00 | 32.20 | 4.51 |
215 | 216 | 2.356535 | CCTCCTCTCCTCAAATTGTGGG | 60.357 | 54.545 | 13.36 | 7.63 | 32.20 | 4.61 |
216 | 217 | 2.356535 | CCCTCCTCTCCTCAAATTGTGG | 60.357 | 54.545 | 7.71 | 7.71 | 32.56 | 4.17 |
217 | 218 | 2.356535 | CCCCTCCTCTCCTCAAATTGTG | 60.357 | 54.545 | 0.00 | 0.00 | 0.00 | 3.33 |
218 | 219 | 1.918957 | CCCCTCCTCTCCTCAAATTGT | 59.081 | 52.381 | 0.00 | 0.00 | 0.00 | 2.71 |
219 | 220 | 1.213926 | CCCCCTCCTCTCCTCAAATTG | 59.786 | 57.143 | 0.00 | 0.00 | 0.00 | 2.32 |
220 | 221 | 1.601248 | CCCCCTCCTCTCCTCAAATT | 58.399 | 55.000 | 0.00 | 0.00 | 0.00 | 1.82 |
221 | 222 | 3.348938 | CCCCCTCCTCTCCTCAAAT | 57.651 | 57.895 | 0.00 | 0.00 | 0.00 | 2.32 |
222 | 223 | 4.919770 | CCCCCTCCTCTCCTCAAA | 57.080 | 61.111 | 0.00 | 0.00 | 0.00 | 2.69 |
242 | 243 | 2.044946 | ATCAGCGTTGAAGCCCCC | 60.045 | 61.111 | 5.91 | 0.00 | 36.78 | 5.40 |
256 | 257 | 1.952990 | ACAACATTTCGTGTGCCATCA | 59.047 | 42.857 | 0.00 | 0.00 | 41.14 | 3.07 |
274 | 275 | 0.806868 | GTAGTCCGTCGGATGTGACA | 59.193 | 55.000 | 18.75 | 0.00 | 38.84 | 3.58 |
275 | 276 | 0.100146 | GGTAGTCCGTCGGATGTGAC | 59.900 | 60.000 | 18.75 | 12.44 | 32.73 | 3.67 |
279 | 280 | 2.496291 | GGGGGTAGTCCGTCGGATG | 61.496 | 68.421 | 18.75 | 0.00 | 32.73 | 3.51 |
375 | 377 | 9.702726 | CGTGGAGAGTTTTTGTAATATAATGTG | 57.297 | 33.333 | 0.00 | 0.00 | 0.00 | 3.21 |
376 | 378 | 9.661563 | TCGTGGAGAGTTTTTGTAATATAATGT | 57.338 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
415 | 417 | 1.538512 | CCAGTGCAGATGGAGTTGTTG | 59.461 | 52.381 | 11.75 | 0.00 | 40.51 | 3.33 |
427 | 429 | 0.031178 | GTTTGTCAAGGCCAGTGCAG | 59.969 | 55.000 | 5.01 | 0.00 | 40.13 | 4.41 |
430 | 432 | 0.031178 | GCTGTTTGTCAAGGCCAGTG | 59.969 | 55.000 | 5.01 | 2.04 | 0.00 | 3.66 |
491 | 494 | 4.832248 | ACGGAATCAAAGTAGCTTCATCA | 58.168 | 39.130 | 0.00 | 0.00 | 0.00 | 3.07 |
511 | 514 | 0.171231 | TCGCATCTCAGTCCTCAACG | 59.829 | 55.000 | 0.00 | 0.00 | 0.00 | 4.10 |
513 | 516 | 2.102578 | TCATCGCATCTCAGTCCTCAA | 58.897 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
551 | 554 | 4.021925 | GGTGCCTTCCGTGCCTCT | 62.022 | 66.667 | 0.00 | 0.00 | 0.00 | 3.69 |
560 | 563 | 0.394899 | AATAGCAGCAGGGTGCCTTC | 60.395 | 55.000 | 18.77 | 0.00 | 46.52 | 3.46 |
585 | 588 | 7.402071 | ACTCACCTGTCTATTTTCCCATACTTA | 59.598 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
605 | 608 | 2.937149 | GCTTTCCTTTCGGATACTCACC | 59.063 | 50.000 | 0.00 | 0.00 | 39.58 | 4.02 |
642 | 645 | 3.736224 | AGGCCAGCTGGTCCATGG | 61.736 | 66.667 | 33.78 | 4.97 | 41.83 | 3.66 |
720 | 723 | 7.094805 | CGATCTATTCTCTTTTCAAAACCCACA | 60.095 | 37.037 | 0.00 | 0.00 | 0.00 | 4.17 |
721 | 724 | 7.094762 | ACGATCTATTCTCTTTTCAAAACCCAC | 60.095 | 37.037 | 0.00 | 0.00 | 0.00 | 4.61 |
731 | 734 | 7.281100 | GTCCCAAATCACGATCTATTCTCTTTT | 59.719 | 37.037 | 0.00 | 0.00 | 0.00 | 2.27 |
736 | 739 | 4.501571 | CGGTCCCAAATCACGATCTATTCT | 60.502 | 45.833 | 0.00 | 0.00 | 0.00 | 2.40 |
761 | 764 | 9.720769 | CTTAGTTAAGAAGGTTCATGTAAGGAA | 57.279 | 33.333 | 0.00 | 0.00 | 35.33 | 3.36 |
813 | 816 | 6.534475 | ACATGTGTGATAAGCAATCCAAAT | 57.466 | 33.333 | 0.00 | 0.00 | 33.22 | 2.32 |
827 | 830 | 8.678593 | TTAGTTAAACCATGTAACATGTGTGA | 57.321 | 30.769 | 0.00 | 0.00 | 34.50 | 3.58 |
1282 | 1327 | 0.301687 | TCGTCGACTCCGCGTTATAC | 59.698 | 55.000 | 14.70 | 0.00 | 36.92 | 1.47 |
1349 | 1440 | 7.225734 | ACATTAACATTAAAACCCACAACAAGC | 59.774 | 33.333 | 0.00 | 0.00 | 0.00 | 4.01 |
1364 | 1455 | 6.071447 | ACTGCAATCAAGCCACATTAACATTA | 60.071 | 34.615 | 0.00 | 0.00 | 0.00 | 1.90 |
1370 | 1461 | 4.588899 | ACTACTGCAATCAAGCCACATTA | 58.411 | 39.130 | 0.00 | 0.00 | 0.00 | 1.90 |
1371 | 1462 | 3.424703 | ACTACTGCAATCAAGCCACATT | 58.575 | 40.909 | 0.00 | 0.00 | 0.00 | 2.71 |
1372 | 1463 | 3.077484 | ACTACTGCAATCAAGCCACAT | 57.923 | 42.857 | 0.00 | 0.00 | 0.00 | 3.21 |
1383 | 1474 | 7.062605 | GCAAGACGTTAATTAGTACTACTGCAA | 59.937 | 37.037 | 0.91 | 0.00 | 0.00 | 4.08 |
1391 | 1482 | 7.543520 | ACCAACTAGCAAGACGTTAATTAGTAC | 59.456 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
1394 | 1485 | 6.963049 | ACCAACTAGCAAGACGTTAATTAG | 57.037 | 37.500 | 0.00 | 0.00 | 0.00 | 1.73 |
1396 | 1487 | 8.036575 | TGTATACCAACTAGCAAGACGTTAATT | 58.963 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
1398 | 1489 | 6.923012 | TGTATACCAACTAGCAAGACGTTAA | 58.077 | 36.000 | 0.00 | 0.00 | 0.00 | 2.01 |
1399 | 1490 | 6.151648 | ACTGTATACCAACTAGCAAGACGTTA | 59.848 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
1400 | 1491 | 5.047519 | ACTGTATACCAACTAGCAAGACGTT | 60.048 | 40.000 | 0.00 | 0.00 | 0.00 | 3.99 |
1401 | 1492 | 4.461781 | ACTGTATACCAACTAGCAAGACGT | 59.538 | 41.667 | 0.00 | 0.00 | 0.00 | 4.34 |
1402 | 1493 | 4.798907 | CACTGTATACCAACTAGCAAGACG | 59.201 | 45.833 | 0.00 | 0.00 | 0.00 | 4.18 |
1403 | 1494 | 5.721232 | ACACTGTATACCAACTAGCAAGAC | 58.279 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
1404 | 1495 | 5.995565 | ACACTGTATACCAACTAGCAAGA | 57.004 | 39.130 | 0.00 | 0.00 | 0.00 | 3.02 |
1496 | 1598 | 2.110213 | GTGACAAGCCCGTGGACA | 59.890 | 61.111 | 0.00 | 0.00 | 0.00 | 4.02 |
1508 | 1610 | 1.670674 | GCCGTGGTAATCTTCGTGACA | 60.671 | 52.381 | 0.00 | 0.00 | 0.00 | 3.58 |
1685 | 1793 | 1.588824 | CGCTCCATTTCTGGCAAGCA | 61.589 | 55.000 | 5.98 | 0.00 | 40.69 | 3.91 |
1705 | 1813 | 0.947180 | GTACAAGAACTTCCGGCGCA | 60.947 | 55.000 | 10.83 | 0.00 | 0.00 | 6.09 |
1787 | 1895 | 0.913934 | TGTGGCTGAGCAAGGGGATA | 60.914 | 55.000 | 6.82 | 0.00 | 0.00 | 2.59 |
1836 | 1944 | 1.202545 | GCTGGTAGGATTCGGAGGAAC | 60.203 | 57.143 | 0.00 | 0.00 | 34.37 | 3.62 |
1870 | 1990 | 2.650196 | CCATTGTTGGTGGTGCCG | 59.350 | 61.111 | 0.00 | 0.00 | 41.21 | 5.69 |
1879 | 1999 | 3.495127 | GCAGATGCAGCAACCATTGTTG | 61.495 | 50.000 | 4.07 | 5.31 | 46.34 | 3.33 |
1950 | 2070 | 2.348998 | CTCTTCTGGCTGCGGGTT | 59.651 | 61.111 | 0.00 | 0.00 | 0.00 | 4.11 |
1967 | 2090 | 4.525912 | AAACCAACAAGATGAGAATGGC | 57.474 | 40.909 | 0.00 | 0.00 | 0.00 | 4.40 |
1973 | 2183 | 3.054878 | GCTGCAAAACCAACAAGATGAG | 58.945 | 45.455 | 0.00 | 0.00 | 0.00 | 2.90 |
2030 | 2258 | 0.963856 | ACATACTGGACCGTCGCAGA | 60.964 | 55.000 | 18.43 | 7.40 | 0.00 | 4.26 |
2037 | 2265 | 0.817654 | TGAGCTCACATACTGGACCG | 59.182 | 55.000 | 13.74 | 0.00 | 0.00 | 4.79 |
2175 | 2403 | 2.203788 | TCTTGACGGCCACCTCCT | 60.204 | 61.111 | 2.24 | 0.00 | 0.00 | 3.69 |
2185 | 2413 | 2.670414 | GTGATTCTTCAGGCTCTTGACG | 59.330 | 50.000 | 0.00 | 0.00 | 30.85 | 4.35 |
2258 | 2486 | 2.982130 | GTGACGGAGGTGGCAGAT | 59.018 | 61.111 | 0.00 | 0.00 | 0.00 | 2.90 |
2401 | 2629 | 5.568685 | ATCCATCTTAGGATCGTATCACG | 57.431 | 43.478 | 0.00 | 0.00 | 45.16 | 4.35 |
2711 | 2941 | 4.033709 | CAAGTCTCAAGGAGAGGGGAATA | 58.966 | 47.826 | 0.00 | 0.00 | 44.81 | 1.75 |
2764 | 2994 | 4.725810 | AGATGAAGTCCCTCTGAAATCCAT | 59.274 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.