Multiple sequence alignment - TraesCS2B01G273000

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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 TraesCS2B01G273000 chr2B 100.000 2816 0 0 1 2816 374240935 374238120 0.000000e+00 5201.0
1 TraesCS2B01G273000 chr2B 97.862 2572 45 2 253 2816 678030948 678028379 0.000000e+00 4436.0
2 TraesCS2B01G273000 chr2B 93.778 225 14 0 1109 1333 729633316 729633540 3.470000e-89 339.0
3 TraesCS2B01G273000 chr2B 90.574 244 22 1 2153 2396 546783756 546783514 3.500000e-84 322.0
4 TraesCS2B01G273000 chr2B 90.667 75 6 1 1832 1905 385193548 385193622 6.420000e-17 99.0
5 TraesCS2B01G273000 chr7A 96.464 905 25 4 827 1728 642878978 642879878 0.000000e+00 1487.0
6 TraesCS2B01G273000 chr7A 95.085 590 28 1 257 845 642878379 642878968 0.000000e+00 928.0
7 TraesCS2B01G273000 chr7A 84.286 420 34 14 1391 1779 545721719 545722137 5.690000e-102 381.0
8 TraesCS2B01G273000 chr7A 90.625 224 21 0 2252 2475 113429747 113429970 5.900000e-77 298.0
9 TraesCS2B01G273000 chr7A 90.278 144 13 1 2339 2481 692703654 692703511 1.330000e-43 187.0
10 TraesCS2B01G273000 chr6D 90.593 489 41 5 1343 1827 189790602 189791089 0.000000e+00 643.0
11 TraesCS2B01G273000 chr6D 92.879 323 21 1 1832 2154 189791492 189791812 4.250000e-128 468.0
12 TraesCS2B01G273000 chr6D 88.199 322 37 1 2161 2481 199696421 199696100 1.580000e-102 383.0
13 TraesCS2B01G273000 chr6B 91.509 318 27 0 2161 2478 677053284 677052967 3.330000e-119 438.0
14 TraesCS2B01G273000 chr6B 93.333 225 15 0 1109 1333 716951661 716951437 1.620000e-87 333.0
15 TraesCS2B01G273000 chr6B 93.333 120 8 0 1878 1997 716954859 716954740 8.020000e-41 178.0
16 TraesCS2B01G273000 chr6B 83.246 191 15 9 1 174 84360571 84360761 2.900000e-35 159.0
17 TraesCS2B01G273000 chr2D 91.304 322 27 1 2154 2475 78797651 78797971 3.330000e-119 438.0
18 TraesCS2B01G273000 chr2D 89.744 273 18 5 1557 1827 317586868 317587132 9.660000e-90 340.0
19 TraesCS2B01G273000 chr2D 92.466 146 10 1 2539 2684 630450789 630450645 1.020000e-49 207.0
20 TraesCS2B01G273000 chr2D 91.034 145 12 1 2539 2683 305025397 305025540 7.960000e-46 195.0
21 TraesCS2B01G273000 chr2D 90.667 75 6 1 1832 1905 317587539 317587613 6.420000e-17 99.0
22 TraesCS2B01G273000 chr5B 90.826 327 26 3 1832 2154 522009593 522009267 4.310000e-118 435.0
23 TraesCS2B01G273000 chr5B 81.985 272 23 17 1899 2154 629085383 629085122 1.020000e-49 207.0
24 TraesCS2B01G273000 chr5B 81.618 272 24 18 1899 2154 632801029 632801290 4.760000e-48 202.0
25 TraesCS2B01G273000 chr2A 84.964 419 32 10 1391 1779 41638249 41638666 2.030000e-106 396.0
26 TraesCS2B01G273000 chr2A 89.493 276 19 5 1557 1830 416925651 416925384 9.660000e-90 340.0
27 TraesCS2B01G273000 chr2A 85.648 216 24 6 1391 1603 706899438 706899227 1.310000e-53 220.0
28 TraesCS2B01G273000 chr2A 90.667 75 6 1 1832 1905 416924979 416924905 6.420000e-17 99.0
29 TraesCS2B01G273000 chr3B 84.915 411 34 9 1391 1774 820666144 820666553 9.460000e-105 390.0
30 TraesCS2B01G273000 chr3B 91.189 227 19 1 2256 2481 109949697 109949471 9.800000e-80 307.0
31 TraesCS2B01G273000 chr3B 92.361 144 10 1 1139 1282 473685202 473685344 1.320000e-48 204.0
32 TraesCS2B01G273000 chr3B 92.857 84 6 0 1345 1428 704471874 704471791 3.810000e-24 122.0
33 TraesCS2B01G273000 chr3B 90.476 84 7 1 1345 1427 818405592 818405675 2.970000e-20 110.0
34 TraesCS2B01G273000 chr1A 84.248 419 36 7 1391 1779 579265032 579264614 5.690000e-102 381.0
35 TraesCS2B01G273000 chr1A 97.521 121 3 0 55 175 420386131 420386251 1.020000e-49 207.0
36 TraesCS2B01G273000 chrUn 83.848 421 36 8 1391 1779 68806601 68806181 3.430000e-99 372.0
37 TraesCS2B01G273000 chr5D 83.848 421 36 7 1391 1779 549456389 549455969 3.430000e-99 372.0
38 TraesCS2B01G273000 chr5D 90.909 242 21 1 2153 2394 355429615 355429855 9.730000e-85 324.0
39 TraesCS2B01G273000 chr5D 81.618 272 24 17 1899 2154 498934513 498934252 4.760000e-48 202.0
40 TraesCS2B01G273000 chr5D 81.618 272 24 16 1899 2154 501727263 501727002 4.760000e-48 202.0
41 TraesCS2B01G273000 chr7D 90.323 279 25 2 1878 2154 431038009 431038287 5.730000e-97 364.0
42 TraesCS2B01G273000 chr7D 84.502 271 26 9 1899 2154 610617908 610618177 1.290000e-63 254.0
43 TraesCS2B01G273000 chr7D 80.882 272 26 13 1899 2154 563469464 563469203 1.030000e-44 191.0
44 TraesCS2B01G273000 chr5A 93.694 222 14 0 1112 1333 603994591 603994370 1.620000e-87 333.0
45 TraesCS2B01G273000 chr6A 95.429 175 6 1 1 175 435761834 435762006 7.680000e-71 278.0
46 TraesCS2B01G273000 chr4D 93.855 179 10 1 2256 2433 297220023 297219845 4.620000e-68 268.0
47 TraesCS2B01G273000 chr4D 85.990 207 22 5 1391 1594 418414233 418414031 6.110000e-52 215.0
48 TraesCS2B01G273000 chr1B 98.485 66 1 0 1363 1428 482951351 482951286 1.770000e-22 117.0
49 TraesCS2B01G273000 chr1B 89.773 88 6 3 1975 2059 313084885 313084798 2.970000e-20 110.0
50 TraesCS2B01G273000 chr1D 85.057 87 2 7 1975 2059 218978698 218978621 8.360000e-11 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 TraesCS2B01G273000 chr2B 374238120 374240935 2815 True 5201.0 5201 100.0000 1 2816 1 chr2B.!!$R1 2815
1 TraesCS2B01G273000 chr2B 678028379 678030948 2569 True 4436.0 4436 97.8620 253 2816 1 chr2B.!!$R3 2563
2 TraesCS2B01G273000 chr7A 642878379 642879878 1499 False 1207.5 1487 95.7745 257 1728 2 chr7A.!!$F3 1471
3 TraesCS2B01G273000 chr6D 189790602 189791812 1210 False 555.5 643 91.7360 1343 2154 2 chr6D.!!$F1 811
4 TraesCS2B01G273000 chr6B 716951437 716954859 3422 True 255.5 333 93.3330 1109 1997 2 chr6B.!!$R2 888
5 TraesCS2B01G273000 chr2D 317586868 317587613 745 False 219.5 340 90.2055 1557 1905 2 chr2D.!!$F3 348
6 TraesCS2B01G273000 chr2A 416924905 416925651 746 True 219.5 340 90.0800 1557 1905 2 chr2A.!!$R2 348

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
249 250 0.032540 CTGCACTTGGGTTTTCTGGC 59.967 55.0 0.00 0.00 0.0 4.85 F
932 962 0.975556 TAGGGGTGATGCGCTTCAGA 60.976 55.0 24.61 2.71 0.0 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1214 3305 0.904649 CCAGTGCCATGTCCTCTACA 59.095 55.000 0.00 0.0 43.86 2.74 R
2758 5264 1.202359 CGTGGGAAAATATTTGGCCCG 60.202 52.381 23.92 14.8 38.02 6.13 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
19 20 0.909623 ATACCACACCCCTACACTGC 59.090 55.000 0.00 0.00 0.00 4.40
20 21 0.472161 TACCACACCCCTACACTGCA 60.472 55.000 0.00 0.00 0.00 4.41
21 22 1.302511 CCACACCCCTACACTGCAC 60.303 63.158 0.00 0.00 0.00 4.57
22 23 1.302511 CACACCCCTACACTGCACC 60.303 63.158 0.00 0.00 0.00 5.01
23 24 1.461461 ACACCCCTACACTGCACCT 60.461 57.895 0.00 0.00 0.00 4.00
24 25 1.296715 CACCCCTACACTGCACCTC 59.703 63.158 0.00 0.00 0.00 3.85
25 26 2.283529 ACCCCTACACTGCACCTCG 61.284 63.158 0.00 0.00 0.00 4.63
26 27 2.125512 CCCTACACTGCACCTCGC 60.126 66.667 0.00 0.00 42.89 5.03
27 28 2.650116 CCCTACACTGCACCTCGCT 61.650 63.158 0.00 0.00 43.06 4.93
29 30 0.737715 CCTACACTGCACCTCGCTTC 60.738 60.000 0.00 0.00 43.06 3.86
30 31 0.244994 CTACACTGCACCTCGCTTCT 59.755 55.000 0.00 0.00 43.06 2.85
31 32 0.679505 TACACTGCACCTCGCTTCTT 59.320 50.000 0.00 0.00 43.06 2.52
32 33 0.882042 ACACTGCACCTCGCTTCTTG 60.882 55.000 0.00 0.00 43.06 3.02
33 34 1.963338 ACTGCACCTCGCTTCTTGC 60.963 57.895 0.00 0.00 43.06 4.01
34 35 1.962822 CTGCACCTCGCTTCTTGCA 60.963 57.895 0.00 0.00 42.60 4.08
35 36 1.509644 CTGCACCTCGCTTCTTGCAA 61.510 55.000 0.00 0.00 44.08 4.08
36 37 1.100463 TGCACCTCGCTTCTTGCAAA 61.100 50.000 0.00 0.00 41.90 3.68
38 39 0.384725 CACCTCGCTTCTTGCAAACG 60.385 55.000 0.00 2.49 43.06 3.60
39 40 0.531974 ACCTCGCTTCTTGCAAACGA 60.532 50.000 0.00 6.95 43.06 3.85
40 41 0.586319 CCTCGCTTCTTGCAAACGAA 59.414 50.000 0.00 0.39 43.06 3.85
44 45 1.532921 CGCTTCTTGCAAACGAACCAA 60.533 47.619 0.00 0.00 43.06 3.67
45 46 2.742774 GCTTCTTGCAAACGAACCAAT 58.257 42.857 0.00 0.00 42.31 3.16
46 47 3.608241 CGCTTCTTGCAAACGAACCAATA 60.608 43.478 0.00 0.00 43.06 1.90
47 48 4.485163 GCTTCTTGCAAACGAACCAATAT 58.515 39.130 0.00 0.00 42.31 1.28
48 49 5.636837 GCTTCTTGCAAACGAACCAATATA 58.363 37.500 0.00 0.00 42.31 0.86
49 50 6.090129 GCTTCTTGCAAACGAACCAATATAA 58.910 36.000 0.00 0.00 42.31 0.98
50 51 6.751888 GCTTCTTGCAAACGAACCAATATAAT 59.248 34.615 0.00 0.00 42.31 1.28
51 52 7.253750 GCTTCTTGCAAACGAACCAATATAATG 60.254 37.037 0.00 0.00 42.31 1.90
52 53 6.033341 TCTTGCAAACGAACCAATATAATGC 58.967 36.000 0.00 0.00 0.00 3.56
53 54 5.316327 TGCAAACGAACCAATATAATGCA 57.684 34.783 0.00 0.00 38.78 3.96
55 56 5.124617 TGCAAACGAACCAATATAATGCAGA 59.875 36.000 0.00 0.00 36.46 4.26
58 59 6.851222 AACGAACCAATATAATGCAGAGAG 57.149 37.500 0.00 0.00 0.00 3.20
59 60 6.161855 ACGAACCAATATAATGCAGAGAGA 57.838 37.500 0.00 0.00 0.00 3.10
60 61 6.219473 ACGAACCAATATAATGCAGAGAGAG 58.781 40.000 0.00 0.00 0.00 3.20
61 62 6.183360 ACGAACCAATATAATGCAGAGAGAGT 60.183 38.462 0.00 0.00 0.00 3.24
62 63 6.145209 CGAACCAATATAATGCAGAGAGAGTG 59.855 42.308 0.00 0.00 0.00 3.51
63 64 6.737720 ACCAATATAATGCAGAGAGAGTGA 57.262 37.500 0.00 0.00 0.00 3.41
64 65 6.520272 ACCAATATAATGCAGAGAGAGTGAC 58.480 40.000 0.00 0.00 0.00 3.67
65 66 5.632764 CCAATATAATGCAGAGAGAGTGACG 59.367 44.000 0.00 0.00 0.00 4.35
66 67 6.442112 CAATATAATGCAGAGAGAGTGACGA 58.558 40.000 0.00 0.00 0.00 4.20
67 68 2.937469 AATGCAGAGAGAGTGACGAG 57.063 50.000 0.00 0.00 0.00 4.18
68 69 2.121291 ATGCAGAGAGAGTGACGAGA 57.879 50.000 0.00 0.00 0.00 4.04
69 70 1.447945 TGCAGAGAGAGTGACGAGAG 58.552 55.000 0.00 0.00 0.00 3.20
70 71 1.002544 TGCAGAGAGAGTGACGAGAGA 59.997 52.381 0.00 0.00 0.00 3.10
75 76 5.729454 GCAGAGAGAGTGACGAGAGAATTAC 60.729 48.000 0.00 0.00 0.00 1.89
76 77 5.584649 CAGAGAGAGTGACGAGAGAATTACT 59.415 44.000 0.00 0.00 0.00 2.24
77 78 5.584649 AGAGAGAGTGACGAGAGAATTACTG 59.415 44.000 0.00 0.00 0.00 2.74
78 79 5.250200 AGAGAGTGACGAGAGAATTACTGT 58.750 41.667 0.00 0.00 0.00 3.55
80 81 6.879993 AGAGAGTGACGAGAGAATTACTGTTA 59.120 38.462 0.00 0.00 0.00 2.41
82 83 7.306953 AGAGTGACGAGAGAATTACTGTTAAC 58.693 38.462 0.00 0.00 0.00 2.01
88 89 7.659186 ACGAGAGAATTACTGTTAACAGACTT 58.341 34.615 36.14 25.04 46.59 3.01
89 90 8.142551 ACGAGAGAATTACTGTTAACAGACTTT 58.857 33.333 36.14 24.87 46.59 2.66
90 91 8.428536 CGAGAGAATTACTGTTAACAGACTTTG 58.571 37.037 36.14 14.61 46.59 2.77
92 93 7.173390 AGAGAATTACTGTTAACAGACTTTGGC 59.827 37.037 36.14 20.98 46.59 4.52
93 94 5.607119 ATTACTGTTAACAGACTTTGGCG 57.393 39.130 36.14 12.55 46.59 5.69
95 96 2.870411 ACTGTTAACAGACTTTGGCGTC 59.130 45.455 36.14 0.00 46.59 5.19
97 98 1.193874 GTTAACAGACTTTGGCGTCCG 59.806 52.381 0.00 0.00 34.46 4.79
98 99 0.320073 TAACAGACTTTGGCGTCCGG 60.320 55.000 0.00 0.00 34.46 5.14
99 100 2.030562 CAGACTTTGGCGTCCGGT 59.969 61.111 0.00 0.00 34.46 5.28
101 102 1.012486 CAGACTTTGGCGTCCGGTAC 61.012 60.000 0.00 0.00 34.46 3.34
102 103 1.005867 GACTTTGGCGTCCGGTACA 60.006 57.895 0.00 0.00 0.00 2.90
104 105 0.672401 ACTTTGGCGTCCGGTACATG 60.672 55.000 0.00 0.00 0.00 3.21
105 106 0.672401 CTTTGGCGTCCGGTACATGT 60.672 55.000 2.69 2.69 0.00 3.21
106 107 0.671163 TTTGGCGTCCGGTACATGTC 60.671 55.000 0.00 0.00 0.00 3.06
107 108 2.581409 GGCGTCCGGTACATGTCG 60.581 66.667 0.00 0.00 0.00 4.35
108 109 2.486504 GCGTCCGGTACATGTCGA 59.513 61.111 0.00 0.00 0.00 4.20
109 110 1.153978 GCGTCCGGTACATGTCGAA 60.154 57.895 0.00 0.00 0.00 3.71
110 111 1.408474 GCGTCCGGTACATGTCGAAC 61.408 60.000 0.00 0.00 0.00 3.95
111 112 1.129879 CGTCCGGTACATGTCGAACG 61.130 60.000 0.00 2.36 0.00 3.95
112 113 0.168788 GTCCGGTACATGTCGAACGA 59.831 55.000 7.63 0.00 0.00 3.85
122 123 2.559840 TCGAACGACGAGCTGGAC 59.440 61.111 1.44 0.00 46.45 4.02
123 124 1.964891 TCGAACGACGAGCTGGACT 60.965 57.895 1.44 0.00 46.45 3.85
124 125 1.081376 CGAACGACGAGCTGGACTT 60.081 57.895 1.44 0.00 45.77 3.01
125 126 1.337817 CGAACGACGAGCTGGACTTG 61.338 60.000 1.44 0.00 45.77 3.16
127 128 0.039074 AACGACGAGCTGGACTTGAG 60.039 55.000 1.44 0.00 33.49 3.02
128 129 1.173444 ACGACGAGCTGGACTTGAGT 61.173 55.000 1.44 0.00 33.49 3.41
131 132 0.318762 ACGAGCTGGACTTGAGTTCC 59.681 55.000 1.44 0.00 33.49 3.62
132 133 0.605589 CGAGCTGGACTTGAGTTCCT 59.394 55.000 0.00 0.00 30.27 3.36
133 134 1.001406 CGAGCTGGACTTGAGTTCCTT 59.999 52.381 0.00 0.00 30.27 3.36
134 135 2.231478 CGAGCTGGACTTGAGTTCCTTA 59.769 50.000 0.00 0.00 30.27 2.69
135 136 3.591023 GAGCTGGACTTGAGTTCCTTAC 58.409 50.000 0.00 0.00 0.00 2.34
136 137 2.972713 AGCTGGACTTGAGTTCCTTACA 59.027 45.455 0.00 0.00 0.00 2.41
137 138 3.007398 AGCTGGACTTGAGTTCCTTACAG 59.993 47.826 0.00 0.00 0.00 2.74
138 139 3.866449 GCTGGACTTGAGTTCCTTACAGG 60.866 52.174 0.00 0.00 36.46 4.00
139 140 3.314693 TGGACTTGAGTTCCTTACAGGT 58.685 45.455 0.00 0.00 36.53 4.00
140 141 4.485875 TGGACTTGAGTTCCTTACAGGTA 58.514 43.478 0.00 0.00 36.53 3.08
141 142 4.282703 TGGACTTGAGTTCCTTACAGGTAC 59.717 45.833 0.00 0.00 36.08 3.34
142 143 4.282703 GGACTTGAGTTCCTTACAGGTACA 59.717 45.833 0.00 0.00 38.04 2.90
143 144 5.221581 GGACTTGAGTTCCTTACAGGTACAA 60.222 44.000 0.00 0.00 38.04 2.41
145 146 6.838382 ACTTGAGTTCCTTACAGGTACAATT 58.162 36.000 0.00 0.00 38.04 2.32
146 147 6.935208 ACTTGAGTTCCTTACAGGTACAATTC 59.065 38.462 0.00 0.00 38.04 2.17
147 148 5.475719 TGAGTTCCTTACAGGTACAATTCG 58.524 41.667 0.00 0.00 38.04 3.34
148 149 4.251268 AGTTCCTTACAGGTACAATTCGC 58.749 43.478 0.00 0.00 38.04 4.70
149 150 3.255969 TCCTTACAGGTACAATTCGCC 57.744 47.619 0.00 0.00 36.53 5.54
150 151 2.835764 TCCTTACAGGTACAATTCGCCT 59.164 45.455 0.00 0.00 36.53 5.52
151 152 3.118884 TCCTTACAGGTACAATTCGCCTC 60.119 47.826 0.00 0.00 36.53 4.70
152 153 3.118738 CCTTACAGGTACAATTCGCCTCT 60.119 47.826 0.00 0.00 0.00 3.69
153 154 2.674796 ACAGGTACAATTCGCCTCTC 57.325 50.000 0.00 0.00 0.00 3.20
154 155 1.207329 ACAGGTACAATTCGCCTCTCC 59.793 52.381 0.00 0.00 0.00 3.71
155 156 0.831307 AGGTACAATTCGCCTCTCCC 59.169 55.000 0.00 0.00 0.00 4.30
156 157 0.831307 GGTACAATTCGCCTCTCCCT 59.169 55.000 0.00 0.00 0.00 4.20
159 160 3.071167 GGTACAATTCGCCTCTCCCTTAT 59.929 47.826 0.00 0.00 0.00 1.73
160 161 3.199880 ACAATTCGCCTCTCCCTTATG 57.800 47.619 0.00 0.00 0.00 1.90
163 164 4.163458 ACAATTCGCCTCTCCCTTATGTAA 59.837 41.667 0.00 0.00 0.00 2.41
164 165 5.163195 ACAATTCGCCTCTCCCTTATGTAAT 60.163 40.000 0.00 0.00 0.00 1.89
166 167 6.875972 ATTCGCCTCTCCCTTATGTAATAT 57.124 37.500 0.00 0.00 0.00 1.28
167 168 5.661056 TCGCCTCTCCCTTATGTAATATG 57.339 43.478 0.00 0.00 0.00 1.78
168 169 5.330233 TCGCCTCTCCCTTATGTAATATGA 58.670 41.667 0.00 0.00 0.00 2.15
169 170 5.185249 TCGCCTCTCCCTTATGTAATATGAC 59.815 44.000 0.00 0.00 0.00 3.06
171 172 6.377429 CGCCTCTCCCTTATGTAATATGACTA 59.623 42.308 0.00 0.00 0.00 2.59
173 174 7.147811 GCCTCTCCCTTATGTAATATGACTAGG 60.148 44.444 0.00 0.00 0.00 3.02
174 175 7.147811 CCTCTCCCTTATGTAATATGACTAGGC 60.148 44.444 0.00 0.00 0.00 3.93
175 176 7.246027 TCTCCCTTATGTAATATGACTAGGCA 58.754 38.462 0.00 0.00 0.00 4.75
176 177 7.733047 TCTCCCTTATGTAATATGACTAGGCAA 59.267 37.037 0.13 0.00 0.00 4.52
178 179 8.154856 TCCCTTATGTAATATGACTAGGCAAAC 58.845 37.037 0.13 0.00 0.00 2.93
180 181 8.993121 CCTTATGTAATATGACTAGGCAAACAG 58.007 37.037 0.13 0.00 0.00 3.16
181 182 9.547753 CTTATGTAATATGACTAGGCAAACAGT 57.452 33.333 0.13 0.00 0.00 3.55
182 183 9.899661 TTATGTAATATGACTAGGCAAACAGTT 57.100 29.630 0.13 0.00 0.00 3.16
184 185 8.942338 TGTAATATGACTAGGCAAACAGTTAG 57.058 34.615 0.13 0.00 0.00 2.34
185 186 8.537016 TGTAATATGACTAGGCAAACAGTTAGT 58.463 33.333 0.13 0.00 0.00 2.24
190 191 6.558009 TGACTAGGCAAACAGTTAGTATACG 58.442 40.000 0.00 0.00 0.00 3.06
191 192 6.375174 TGACTAGGCAAACAGTTAGTATACGA 59.625 38.462 0.00 0.00 0.00 3.43
192 193 6.558909 ACTAGGCAAACAGTTAGTATACGAC 58.441 40.000 0.00 0.96 0.00 4.34
193 194 5.395682 AGGCAAACAGTTAGTATACGACA 57.604 39.130 12.82 0.00 0.00 4.35
194 195 5.786311 AGGCAAACAGTTAGTATACGACAA 58.214 37.500 12.82 0.73 0.00 3.18
195 196 6.225318 AGGCAAACAGTTAGTATACGACAAA 58.775 36.000 12.82 0.00 0.00 2.83
196 197 6.367969 AGGCAAACAGTTAGTATACGACAAAG 59.632 38.462 12.82 6.61 0.00 2.77
197 198 6.146673 GGCAAACAGTTAGTATACGACAAAGT 59.853 38.462 12.82 7.06 0.00 2.66
198 199 7.007697 GCAAACAGTTAGTATACGACAAAGTG 58.992 38.462 12.82 12.68 0.00 3.16
199 200 7.507304 CAAACAGTTAGTATACGACAAAGTGG 58.493 38.462 12.82 0.00 0.00 4.00
200 201 6.579666 ACAGTTAGTATACGACAAAGTGGA 57.420 37.500 12.82 0.00 0.00 4.02
202 203 7.088905 ACAGTTAGTATACGACAAAGTGGAAG 58.911 38.462 12.82 0.00 0.00 3.46
203 204 6.530534 CAGTTAGTATACGACAAAGTGGAAGG 59.469 42.308 12.82 0.00 0.00 3.46
204 205 6.435277 AGTTAGTATACGACAAAGTGGAAGGA 59.565 38.462 12.82 0.00 0.00 3.36
205 206 5.733620 AGTATACGACAAAGTGGAAGGAA 57.266 39.130 0.00 0.00 0.00 3.36
206 207 6.105397 AGTATACGACAAAGTGGAAGGAAA 57.895 37.500 0.00 0.00 0.00 3.13
207 208 6.164176 AGTATACGACAAAGTGGAAGGAAAG 58.836 40.000 0.00 0.00 0.00 2.62
208 209 3.553828 ACGACAAAGTGGAAGGAAAGA 57.446 42.857 0.00 0.00 0.00 2.52
209 210 3.881220 ACGACAAAGTGGAAGGAAAGAA 58.119 40.909 0.00 0.00 0.00 2.52
215 216 7.239763 ACAAAGTGGAAGGAAAGAAAGAAAA 57.760 32.000 0.00 0.00 0.00 2.29
216 217 7.097192 ACAAAGTGGAAGGAAAGAAAGAAAAC 58.903 34.615 0.00 0.00 0.00 2.43
217 218 6.850752 AAGTGGAAGGAAAGAAAGAAAACA 57.149 33.333 0.00 0.00 0.00 2.83
218 219 6.850752 AGTGGAAGGAAAGAAAGAAAACAA 57.149 33.333 0.00 0.00 0.00 2.83
220 221 8.533569 AGTGGAAGGAAAGAAAGAAAACAATA 57.466 30.769 0.00 0.00 0.00 1.90
221 222 8.977412 AGTGGAAGGAAAGAAAGAAAACAATAA 58.023 29.630 0.00 0.00 0.00 1.40
222 223 9.594478 GTGGAAGGAAAGAAAGAAAACAATAAA 57.406 29.630 0.00 0.00 0.00 1.40
223 224 9.594478 TGGAAGGAAAGAAAGAAAACAATAAAC 57.406 29.630 0.00 0.00 0.00 2.01
224 225 9.042008 GGAAGGAAAGAAAGAAAACAATAAACC 57.958 33.333 0.00 0.00 0.00 3.27
225 226 9.594478 GAAGGAAAGAAAGAAAACAATAAACCA 57.406 29.630 0.00 0.00 0.00 3.67
226 227 9.952030 AAGGAAAGAAAGAAAACAATAAACCAA 57.048 25.926 0.00 0.00 0.00 3.67
234 235 9.606631 AAAGAAAACAATAAACCAAATACTGCA 57.393 25.926 0.00 0.00 0.00 4.41
235 236 8.587952 AGAAAACAATAAACCAAATACTGCAC 57.412 30.769 0.00 0.00 0.00 4.57
238 239 7.945033 AACAATAAACCAAATACTGCACTTG 57.055 32.000 0.00 0.00 0.00 3.16
239 240 6.454795 ACAATAAACCAAATACTGCACTTGG 58.545 36.000 9.50 9.50 44.35 3.61
240 241 5.659440 ATAAACCAAATACTGCACTTGGG 57.341 39.130 13.75 4.55 43.30 4.12
241 242 2.675658 ACCAAATACTGCACTTGGGT 57.324 45.000 13.75 5.07 43.30 4.51
247 248 4.853924 AATACTGCACTTGGGTTTTCTG 57.146 40.909 0.00 0.00 0.00 3.02
248 249 1.402787 ACTGCACTTGGGTTTTCTGG 58.597 50.000 0.00 0.00 0.00 3.86
249 250 0.032540 CTGCACTTGGGTTTTCTGGC 59.967 55.000 0.00 0.00 0.00 4.85
250 251 1.007387 GCACTTGGGTTTTCTGGCG 60.007 57.895 0.00 0.00 0.00 5.69
251 252 1.659794 CACTTGGGTTTTCTGGCGG 59.340 57.895 0.00 0.00 0.00 6.13
456 457 5.714806 ACTGGTTTTGGTTATACTTCCCATG 59.285 40.000 0.00 0.00 0.00 3.66
570 571 1.115467 CCATAGGAGGAGCGTGTTCT 58.885 55.000 0.00 0.00 0.00 3.01
932 962 0.975556 TAGGGGTGATGCGCTTCAGA 60.976 55.000 24.61 2.71 0.00 3.27
1037 1069 2.554142 CGATTCTAGCACCATTCAGCA 58.446 47.619 0.00 0.00 0.00 4.41
1464 3556 6.934645 TCCATTTGTAGTGAAGTTTCTGTAGG 59.065 38.462 0.00 0.00 0.00 3.18
1506 3598 5.452078 ACATGTGGATACTGTTGTTTTGG 57.548 39.130 0.00 0.00 37.61 3.28
2144 4650 8.939929 TGATCTGTTCTCTTGAATGATGTAAAC 58.060 33.333 0.00 0.00 34.40 2.01
2166 4672 6.642683 ACTTAACGGATCTTATGTGTTTCG 57.357 37.500 0.00 0.00 0.00 3.46
2310 4816 4.385358 AAATTTCAATCCACATACCGGC 57.615 40.909 0.00 0.00 0.00 6.13
2329 4835 6.412214 ACCGGCTGTTAAGAAGTATTACATT 58.588 36.000 0.00 0.00 0.00 2.71
2421 4927 7.953005 TTTCTTATTCATGCTATTTGGACCA 57.047 32.000 0.00 0.00 0.00 4.02
2428 4934 6.357579 TCATGCTATTTGGACCAAATTTGT 57.642 33.333 32.06 15.42 40.60 2.83
2458 4964 7.833786 TCGTTAAAGTCTCAGCTAGGATTTTA 58.166 34.615 9.88 9.88 0.00 1.52
2595 5101 1.767759 AGTTTGCTCTGTGCCACTTT 58.232 45.000 0.00 0.00 42.00 2.66
2736 5242 5.630061 TGCGTGTGTGAATTTGATTATGAG 58.370 37.500 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.909623 GCAGTGTAGGGGTGTGGTAT 59.090 55.000 0.00 0.00 0.00 2.73
3 4 1.302511 GTGCAGTGTAGGGGTGTGG 60.303 63.158 0.00 0.00 0.00 4.17
4 5 1.302511 GGTGCAGTGTAGGGGTGTG 60.303 63.158 0.00 0.00 0.00 3.82
5 6 1.461461 AGGTGCAGTGTAGGGGTGT 60.461 57.895 0.00 0.00 0.00 4.16
6 7 1.296715 GAGGTGCAGTGTAGGGGTG 59.703 63.158 0.00 0.00 0.00 4.61
7 8 2.283529 CGAGGTGCAGTGTAGGGGT 61.284 63.158 0.00 0.00 0.00 4.95
8 9 2.579201 CGAGGTGCAGTGTAGGGG 59.421 66.667 0.00 0.00 0.00 4.79
9 10 2.125512 GCGAGGTGCAGTGTAGGG 60.126 66.667 0.00 0.00 45.45 3.53
25 26 2.202295 TTGGTTCGTTTGCAAGAAGC 57.798 45.000 18.58 18.58 42.99 3.86
26 27 7.253750 GCATTATATTGGTTCGTTTGCAAGAAG 60.254 37.037 0.00 0.00 0.00 2.85
27 28 6.529829 GCATTATATTGGTTCGTTTGCAAGAA 59.470 34.615 0.00 0.00 0.00 2.52
29 30 5.804473 TGCATTATATTGGTTCGTTTGCAAG 59.196 36.000 0.00 0.00 34.91 4.01
30 31 5.714047 TGCATTATATTGGTTCGTTTGCAA 58.286 33.333 0.00 0.00 34.91 4.08
31 32 5.124617 TCTGCATTATATTGGTTCGTTTGCA 59.875 36.000 0.00 0.00 36.30 4.08
32 33 5.577835 TCTGCATTATATTGGTTCGTTTGC 58.422 37.500 0.00 0.00 0.00 3.68
33 34 7.011389 TCTCTCTGCATTATATTGGTTCGTTTG 59.989 37.037 0.00 0.00 0.00 2.93
34 35 7.047891 TCTCTCTGCATTATATTGGTTCGTTT 58.952 34.615 0.00 0.00 0.00 3.60
35 36 6.582636 TCTCTCTGCATTATATTGGTTCGTT 58.417 36.000 0.00 0.00 0.00 3.85
36 37 6.161855 TCTCTCTGCATTATATTGGTTCGT 57.838 37.500 0.00 0.00 0.00 3.85
38 39 7.170658 GTCACTCTCTCTGCATTATATTGGTTC 59.829 40.741 0.00 0.00 0.00 3.62
39 40 6.989169 GTCACTCTCTCTGCATTATATTGGTT 59.011 38.462 0.00 0.00 0.00 3.67
40 41 6.520272 GTCACTCTCTCTGCATTATATTGGT 58.480 40.000 0.00 0.00 0.00 3.67
44 45 6.000840 TCTCGTCACTCTCTCTGCATTATAT 58.999 40.000 0.00 0.00 0.00 0.86
45 46 5.368989 TCTCGTCACTCTCTCTGCATTATA 58.631 41.667 0.00 0.00 0.00 0.98
46 47 4.203226 TCTCGTCACTCTCTCTGCATTAT 58.797 43.478 0.00 0.00 0.00 1.28
47 48 3.610911 TCTCGTCACTCTCTCTGCATTA 58.389 45.455 0.00 0.00 0.00 1.90
48 49 2.423185 CTCTCGTCACTCTCTCTGCATT 59.577 50.000 0.00 0.00 0.00 3.56
49 50 2.016318 CTCTCGTCACTCTCTCTGCAT 58.984 52.381 0.00 0.00 0.00 3.96
50 51 1.002544 TCTCTCGTCACTCTCTCTGCA 59.997 52.381 0.00 0.00 0.00 4.41
51 52 1.732941 TCTCTCGTCACTCTCTCTGC 58.267 55.000 0.00 0.00 0.00 4.26
52 53 4.963276 AATTCTCTCGTCACTCTCTCTG 57.037 45.455 0.00 0.00 0.00 3.35
53 54 5.584649 CAGTAATTCTCTCGTCACTCTCTCT 59.415 44.000 0.00 0.00 0.00 3.10
55 56 5.250200 ACAGTAATTCTCTCGTCACTCTCT 58.750 41.667 0.00 0.00 0.00 3.10
58 59 7.082602 TGTTAACAGTAATTCTCTCGTCACTC 58.917 38.462 3.59 0.00 0.00 3.51
59 60 6.978338 TGTTAACAGTAATTCTCTCGTCACT 58.022 36.000 3.59 0.00 0.00 3.41
60 61 7.060864 GTCTGTTAACAGTAATTCTCTCGTCAC 59.939 40.741 29.83 14.77 44.12 3.67
61 62 7.040617 AGTCTGTTAACAGTAATTCTCTCGTCA 60.041 37.037 29.83 7.50 44.12 4.35
62 63 7.306953 AGTCTGTTAACAGTAATTCTCTCGTC 58.693 38.462 29.83 4.32 44.12 4.20
63 64 7.216973 AGTCTGTTAACAGTAATTCTCTCGT 57.783 36.000 29.83 4.78 44.12 4.18
64 65 8.428536 CAAAGTCTGTTAACAGTAATTCTCTCG 58.571 37.037 29.83 6.17 44.12 4.04
65 66 8.713271 CCAAAGTCTGTTAACAGTAATTCTCTC 58.287 37.037 29.83 12.98 44.12 3.20
66 67 7.173390 GCCAAAGTCTGTTAACAGTAATTCTCT 59.827 37.037 29.83 16.37 44.12 3.10
67 68 7.298854 GCCAAAGTCTGTTAACAGTAATTCTC 58.701 38.462 29.83 14.89 44.12 2.87
68 69 6.073222 CGCCAAAGTCTGTTAACAGTAATTCT 60.073 38.462 29.83 19.07 44.12 2.40
69 70 6.077838 CGCCAAAGTCTGTTAACAGTAATTC 58.922 40.000 29.83 17.58 44.12 2.17
70 71 5.529800 ACGCCAAAGTCTGTTAACAGTAATT 59.470 36.000 29.83 20.73 44.12 1.40
75 76 2.223377 GGACGCCAAAGTCTGTTAACAG 59.777 50.000 26.60 26.60 45.08 3.16
76 77 2.215196 GGACGCCAAAGTCTGTTAACA 58.785 47.619 8.28 8.28 40.76 2.41
77 78 1.193874 CGGACGCCAAAGTCTGTTAAC 59.806 52.381 0.00 0.00 41.36 2.01
78 79 1.504359 CGGACGCCAAAGTCTGTTAA 58.496 50.000 0.00 0.00 41.36 2.01
80 81 1.597027 CCGGACGCCAAAGTCTGTT 60.597 57.895 0.00 0.00 43.96 3.16
82 83 1.012486 GTACCGGACGCCAAAGTCTG 61.012 60.000 9.46 0.00 44.80 3.51
84 85 0.390735 ATGTACCGGACGCCAAAGTC 60.391 55.000 9.46 0.00 40.25 3.01
88 89 1.079681 GACATGTACCGGACGCCAA 60.080 57.895 9.46 0.00 0.00 4.52
89 90 2.574929 GACATGTACCGGACGCCA 59.425 61.111 9.46 0.00 0.00 5.69
90 91 2.546645 TTCGACATGTACCGGACGCC 62.547 60.000 9.46 0.00 0.00 5.68
92 93 2.645411 GTTCGACATGTACCGGACG 58.355 57.895 9.46 0.00 0.00 4.79
93 94 0.168788 TCGTTCGACATGTACCGGAC 59.831 55.000 9.46 8.04 0.00 4.79
95 96 1.129879 CGTCGTTCGACATGTACCGG 61.130 60.000 21.94 0.00 42.86 5.28
97 98 1.531912 CTCGTCGTTCGACATGTACC 58.468 55.000 21.94 0.00 44.01 3.34
98 99 0.905839 GCTCGTCGTTCGACATGTAC 59.094 55.000 21.94 0.00 44.01 2.90
99 100 0.800631 AGCTCGTCGTTCGACATGTA 59.199 50.000 21.94 6.40 44.01 2.29
101 102 1.406219 CCAGCTCGTCGTTCGACATG 61.406 60.000 21.94 15.11 44.01 3.21
102 103 1.154016 CCAGCTCGTCGTTCGACAT 60.154 57.895 21.94 5.20 44.01 3.06
104 105 1.796749 GTCCAGCTCGTCGTTCGAC 60.797 63.158 14.25 14.25 44.01 4.20
105 106 1.512996 AAGTCCAGCTCGTCGTTCGA 61.513 55.000 5.54 5.54 46.83 3.71
106 107 1.081376 AAGTCCAGCTCGTCGTTCG 60.081 57.895 0.00 0.00 41.41 3.95
107 108 0.039437 TCAAGTCCAGCTCGTCGTTC 60.039 55.000 0.00 0.00 0.00 3.95
108 109 0.039074 CTCAAGTCCAGCTCGTCGTT 60.039 55.000 0.00 0.00 0.00 3.85
109 110 1.173444 ACTCAAGTCCAGCTCGTCGT 61.173 55.000 0.00 0.00 0.00 4.34
110 111 0.039074 AACTCAAGTCCAGCTCGTCG 60.039 55.000 0.00 0.00 0.00 5.12
111 112 1.670380 GGAACTCAAGTCCAGCTCGTC 60.670 57.143 0.00 0.00 0.00 4.20
112 113 0.318762 GGAACTCAAGTCCAGCTCGT 59.681 55.000 0.00 0.00 0.00 4.18
114 115 2.849294 AAGGAACTCAAGTCCAGCTC 57.151 50.000 0.00 0.00 38.49 4.09
115 116 2.972713 TGTAAGGAACTCAAGTCCAGCT 59.027 45.455 0.00 0.00 38.49 4.24
131 132 4.113354 GAGAGGCGAATTGTACCTGTAAG 58.887 47.826 0.00 0.00 32.67 2.34
132 133 3.118884 GGAGAGGCGAATTGTACCTGTAA 60.119 47.826 0.00 0.00 32.67 2.41
133 134 2.429610 GGAGAGGCGAATTGTACCTGTA 59.570 50.000 0.00 0.00 32.67 2.74
134 135 1.207329 GGAGAGGCGAATTGTACCTGT 59.793 52.381 0.00 0.00 32.67 4.00
135 136 1.473434 GGGAGAGGCGAATTGTACCTG 60.473 57.143 0.00 0.00 32.67 4.00
136 137 0.831307 GGGAGAGGCGAATTGTACCT 59.169 55.000 0.00 0.00 36.19 3.08
137 138 0.831307 AGGGAGAGGCGAATTGTACC 59.169 55.000 0.00 0.00 0.00 3.34
138 139 2.693267 AAGGGAGAGGCGAATTGTAC 57.307 50.000 0.00 0.00 0.00 2.90
139 140 3.709653 ACATAAGGGAGAGGCGAATTGTA 59.290 43.478 0.00 0.00 0.00 2.41
140 141 2.505819 ACATAAGGGAGAGGCGAATTGT 59.494 45.455 0.00 0.00 0.00 2.71
141 142 3.199880 ACATAAGGGAGAGGCGAATTG 57.800 47.619 0.00 0.00 0.00 2.32
142 143 5.568620 ATTACATAAGGGAGAGGCGAATT 57.431 39.130 0.00 0.00 0.00 2.17
143 144 6.440647 TCATATTACATAAGGGAGAGGCGAAT 59.559 38.462 0.00 0.00 0.00 3.34
145 146 5.185249 GTCATATTACATAAGGGAGAGGCGA 59.815 44.000 0.00 0.00 0.00 5.54
146 147 5.186021 AGTCATATTACATAAGGGAGAGGCG 59.814 44.000 0.00 0.00 0.00 5.52
147 148 6.613153 AGTCATATTACATAAGGGAGAGGC 57.387 41.667 0.00 0.00 0.00 4.70
148 149 7.147811 GCCTAGTCATATTACATAAGGGAGAGG 60.148 44.444 5.68 0.00 0.00 3.69
149 150 7.397476 TGCCTAGTCATATTACATAAGGGAGAG 59.603 40.741 5.68 0.00 0.00 3.20
150 151 7.246027 TGCCTAGTCATATTACATAAGGGAGA 58.754 38.462 5.68 0.00 0.00 3.71
151 152 7.482169 TGCCTAGTCATATTACATAAGGGAG 57.518 40.000 5.68 0.00 0.00 4.30
152 153 7.865530 TTGCCTAGTCATATTACATAAGGGA 57.134 36.000 5.68 1.31 0.00 4.20
153 154 7.936847 TGTTTGCCTAGTCATATTACATAAGGG 59.063 37.037 5.68 0.00 0.00 3.95
154 155 8.902540 TGTTTGCCTAGTCATATTACATAAGG 57.097 34.615 0.00 0.00 0.00 2.69
155 156 9.547753 ACTGTTTGCCTAGTCATATTACATAAG 57.452 33.333 0.00 0.00 0.00 1.73
156 157 9.899661 AACTGTTTGCCTAGTCATATTACATAA 57.100 29.630 0.00 0.00 0.00 1.90
159 160 8.537016 ACTAACTGTTTGCCTAGTCATATTACA 58.463 33.333 0.00 0.00 0.00 2.41
160 161 8.943909 ACTAACTGTTTGCCTAGTCATATTAC 57.056 34.615 0.00 0.00 0.00 1.89
164 165 8.347771 CGTATACTAACTGTTTGCCTAGTCATA 58.652 37.037 0.00 0.00 0.00 2.15
166 167 6.375174 TCGTATACTAACTGTTTGCCTAGTCA 59.625 38.462 0.00 0.00 0.00 3.41
167 168 6.690528 GTCGTATACTAACTGTTTGCCTAGTC 59.309 42.308 0.00 0.00 0.00 2.59
168 169 6.151648 TGTCGTATACTAACTGTTTGCCTAGT 59.848 38.462 0.00 0.00 0.00 2.57
169 170 6.558009 TGTCGTATACTAACTGTTTGCCTAG 58.442 40.000 0.00 0.00 0.00 3.02
171 172 5.395682 TGTCGTATACTAACTGTTTGCCT 57.604 39.130 0.00 0.00 0.00 4.75
173 174 7.007697 CACTTTGTCGTATACTAACTGTTTGC 58.992 38.462 0.00 0.00 0.00 3.68
174 175 7.383029 TCCACTTTGTCGTATACTAACTGTTTG 59.617 37.037 0.00 0.00 0.00 2.93
175 176 7.436118 TCCACTTTGTCGTATACTAACTGTTT 58.564 34.615 0.00 0.00 0.00 2.83
176 177 6.985117 TCCACTTTGTCGTATACTAACTGTT 58.015 36.000 0.56 0.00 0.00 3.16
178 179 6.530534 CCTTCCACTTTGTCGTATACTAACTG 59.469 42.308 0.56 0.00 0.00 3.16
180 181 6.624423 TCCTTCCACTTTGTCGTATACTAAC 58.376 40.000 0.56 0.10 0.00 2.34
181 182 6.839124 TCCTTCCACTTTGTCGTATACTAA 57.161 37.500 0.56 0.00 0.00 2.24
182 183 6.839124 TTCCTTCCACTTTGTCGTATACTA 57.161 37.500 0.56 0.00 0.00 1.82
183 184 5.733620 TTCCTTCCACTTTGTCGTATACT 57.266 39.130 0.56 0.00 0.00 2.12
184 185 6.161381 TCTTTCCTTCCACTTTGTCGTATAC 58.839 40.000 0.00 0.00 0.00 1.47
185 186 6.349243 TCTTTCCTTCCACTTTGTCGTATA 57.651 37.500 0.00 0.00 0.00 1.47
188 189 3.553828 TCTTTCCTTCCACTTTGTCGT 57.446 42.857 0.00 0.00 0.00 4.34
189 190 4.574828 TCTTTCTTTCCTTCCACTTTGTCG 59.425 41.667 0.00 0.00 0.00 4.35
190 191 6.451064 TTCTTTCTTTCCTTCCACTTTGTC 57.549 37.500 0.00 0.00 0.00 3.18
191 192 6.850752 TTTCTTTCTTTCCTTCCACTTTGT 57.149 33.333 0.00 0.00 0.00 2.83
192 193 7.096551 TGTTTTCTTTCTTTCCTTCCACTTTG 58.903 34.615 0.00 0.00 0.00 2.77
193 194 7.239763 TGTTTTCTTTCTTTCCTTCCACTTT 57.760 32.000 0.00 0.00 0.00 2.66
194 195 6.850752 TGTTTTCTTTCTTTCCTTCCACTT 57.149 33.333 0.00 0.00 0.00 3.16
195 196 6.850752 TTGTTTTCTTTCTTTCCTTCCACT 57.149 33.333 0.00 0.00 0.00 4.00
196 197 9.594478 TTTATTGTTTTCTTTCTTTCCTTCCAC 57.406 29.630 0.00 0.00 0.00 4.02
197 198 9.594478 GTTTATTGTTTTCTTTCTTTCCTTCCA 57.406 29.630 0.00 0.00 0.00 3.53
198 199 9.042008 GGTTTATTGTTTTCTTTCTTTCCTTCC 57.958 33.333 0.00 0.00 0.00 3.46
199 200 9.594478 TGGTTTATTGTTTTCTTTCTTTCCTTC 57.406 29.630 0.00 0.00 0.00 3.46
200 201 9.952030 TTGGTTTATTGTTTTCTTTCTTTCCTT 57.048 25.926 0.00 0.00 0.00 3.36
208 209 9.606631 TGCAGTATTTGGTTTATTGTTTTCTTT 57.393 25.926 0.00 0.00 0.00 2.52
209 210 9.040939 GTGCAGTATTTGGTTTATTGTTTTCTT 57.959 29.630 0.00 0.00 0.00 2.52
215 216 6.454795 CCAAGTGCAGTATTTGGTTTATTGT 58.545 36.000 4.77 0.00 40.32 2.71
216 217 5.868801 CCCAAGTGCAGTATTTGGTTTATTG 59.131 40.000 11.16 0.00 42.83 1.90
217 218 5.542251 ACCCAAGTGCAGTATTTGGTTTATT 59.458 36.000 11.16 0.00 42.83 1.40
218 219 5.083821 ACCCAAGTGCAGTATTTGGTTTAT 58.916 37.500 11.16 0.00 42.83 1.40
220 221 3.304829 ACCCAAGTGCAGTATTTGGTTT 58.695 40.909 11.16 0.00 42.83 3.27
221 222 2.957474 ACCCAAGTGCAGTATTTGGTT 58.043 42.857 11.16 0.00 42.83 3.67
222 223 2.675658 ACCCAAGTGCAGTATTTGGT 57.324 45.000 11.16 4.62 42.83 3.67
223 224 4.039124 AGAAAACCCAAGTGCAGTATTTGG 59.961 41.667 5.86 5.86 43.70 3.28
224 225 4.984161 CAGAAAACCCAAGTGCAGTATTTG 59.016 41.667 0.00 0.00 0.00 2.32
225 226 4.039124 CCAGAAAACCCAAGTGCAGTATTT 59.961 41.667 0.00 0.00 0.00 1.40
226 227 3.573967 CCAGAAAACCCAAGTGCAGTATT 59.426 43.478 0.00 0.00 0.00 1.89
228 229 2.582052 CCAGAAAACCCAAGTGCAGTA 58.418 47.619 0.00 0.00 0.00 2.74
229 230 1.402787 CCAGAAAACCCAAGTGCAGT 58.597 50.000 0.00 0.00 0.00 4.40
230 231 0.032540 GCCAGAAAACCCAAGTGCAG 59.967 55.000 0.00 0.00 0.00 4.41
231 232 1.733402 CGCCAGAAAACCCAAGTGCA 61.733 55.000 0.00 0.00 0.00 4.57
232 233 1.007387 CGCCAGAAAACCCAAGTGC 60.007 57.895 0.00 0.00 0.00 4.40
233 234 0.821711 TCCGCCAGAAAACCCAAGTG 60.822 55.000 0.00 0.00 0.00 3.16
234 235 0.112412 ATCCGCCAGAAAACCCAAGT 59.888 50.000 0.00 0.00 0.00 3.16
235 236 0.811281 GATCCGCCAGAAAACCCAAG 59.189 55.000 0.00 0.00 0.00 3.61
238 239 0.253327 AGAGATCCGCCAGAAAACCC 59.747 55.000 0.00 0.00 0.00 4.11
239 240 2.981859 TAGAGATCCGCCAGAAAACC 57.018 50.000 0.00 0.00 0.00 3.27
240 241 6.223852 TGATAATAGAGATCCGCCAGAAAAC 58.776 40.000 0.00 0.00 0.00 2.43
241 242 6.419484 TGATAATAGAGATCCGCCAGAAAA 57.581 37.500 0.00 0.00 0.00 2.29
247 248 6.478344 CAGCTAAATGATAATAGAGATCCGCC 59.522 42.308 0.00 0.00 0.00 6.13
248 249 6.019156 GCAGCTAAATGATAATAGAGATCCGC 60.019 42.308 0.00 0.00 0.00 5.54
249 250 7.222417 CAGCAGCTAAATGATAATAGAGATCCG 59.778 40.741 0.00 0.00 0.00 4.18
250 251 7.011295 GCAGCAGCTAAATGATAATAGAGATCC 59.989 40.741 0.00 0.00 37.91 3.36
251 252 7.908230 GCAGCAGCTAAATGATAATAGAGATC 58.092 38.462 0.00 0.00 37.91 2.75
512 513 0.461548 CTCGAGCTTACTCCCATGCA 59.538 55.000 0.00 0.00 40.03 3.96
627 628 4.631234 AGTATCTTGTGATCAACCCCCTA 58.369 43.478 0.00 0.00 34.32 3.53
932 962 3.393426 AGCCAACATCCCAATCTCAAT 57.607 42.857 0.00 0.00 0.00 2.57
1071 1103 5.599732 ACAAGCACAAATGATTTTGCACTA 58.400 33.333 19.45 0.00 45.01 2.74
1081 1113 5.068855 TCTTGATGGAAACAAGCACAAATGA 59.931 36.000 0.00 0.00 45.22 2.57
1214 3305 0.904649 CCAGTGCCATGTCCTCTACA 59.095 55.000 0.00 0.00 43.86 2.74
1267 3358 0.969149 CACACAGAGGCACAGACCTA 59.031 55.000 0.00 0.00 41.32 3.08
2144 4650 6.309494 TCACGAAACACATAAGATCCGTTAAG 59.691 38.462 0.00 0.00 0.00 1.85
2149 4655 5.977725 ACTATCACGAAACACATAAGATCCG 59.022 40.000 0.00 0.00 0.00 4.18
2428 4934 6.827251 TCCTAGCTGAGACTTTAACGATTCTA 59.173 38.462 0.00 0.00 0.00 2.10
2595 5101 5.491982 GCTGTAAGAAGAGATGGAAAAGGA 58.508 41.667 0.00 0.00 34.07 3.36
2750 5256 1.484038 ATATTTGGCCCGTGCAACAT 58.516 45.000 0.00 0.00 40.13 2.71
2758 5264 1.202359 CGTGGGAAAATATTTGGCCCG 60.202 52.381 23.92 14.80 38.02 6.13


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

AutoCloner maintained by Alex Coulton.