Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2668
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129383
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1236 original size:61 final size:60
Alignment explanation
Indices: 1080--1415 Score: 300
Period size: 61 Copynumber: 5.4 Consensus size: 60
1070 AATTTTTCAA
* * * *
1080 ATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTCCAAA-ACCACGACTCAGTGGC
1 ATCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTTGTC--CCAAAGTCCACGACTCAGTGGC
* * * * *
1142 ATCTTTTTTCTTCAAAGTCCATGACCCAATGGCATCTTGTCCCAAAGTCCACGACCCAGTGGC
1 ATC--TCTTC-TCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGC
1205 AATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGC
1 -ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGC
* * * * ** * * *
1266 ATCTTTTTTTCAAAGTCCACAACTTAGTGGCATCTCT-TTTCTAAGTCCACAACTCAGTGGA
1 ATC-TCTTCTCAAAGTCCACGACTCAGTGGCATCT-TGTCCCAAAGTCCACGACTCAGTGGC
* * ** *
1327 ATCCTTTTCTTTCAAA-TCCACGACTCAGTGGCATCTTTTTTTTTCAAAGTCCACGACTTAGTGG
1 AT-CTCTTC--TCAAAGTCCACGACTCAGTGGCATC---TTGTCCCAAAGTCCACGACTCAGTGG
1391 C
60 C
*
1392 ATCTCTTCCCAAAGTCCACGACTC
1 ATCTCTTCTCAAAGTCCACGACTC
1416 TATGGCACCT
Statistics
Matches: 227, Mismatches: 32, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
60 3 0.01
61 100 0.44
62 35 0.15
63 29 0.13
64 17 0.07
65 43 0.19
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (60 bp):
ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGC
Found at i:1414 original size:30 final size:30
Alignment explanation
Indices: 1083--1456 Score: 319
Period size: 30 Copynumber: 12.0 Consensus size: 30
1073 TTTTCAAATC
1083 TCTTTTCT--AAGTCCACGACTCAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
*
1111 TCCTTTTCTTCCAAA-ACCACGACTCAGTGGCA
1 T-CTTTTC-T-CAAAGTCCACGACTCAGTGGCA
* * *
1143 TCTTTTTTCTTCAAAGTCCATGACCCAATGGCA
1 TC--TTTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
1176 TCTTGTCCCAAAGTCCACGACCCAGTGGCAA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGC-A
*
1207 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
* *
1237 TCTTGTCCCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
* * *
1267 TCTTTTTTTCAAAGTCCACAACTTAGTGGCA
1 TC-TTTTCTCAAAGTCCACGACTCAGTGGCA
* * *
1298 TCTCTTT-TCTAAGTCCACAACTCAGTGGAA
1 TCT-TTTCTCAAAGTCCACGACTCAGTGGCA
1328 TCCTTTTCTTTCAAA-TCCACGACTCAGTGGCA
1 T-CTTTTC--TCAAAGTCCACGACTCAGTGGCA
* *
1360 TCTTTTTTTTTCAAAGTCCACGACTTAGTGGCA
1 TC---TTTTCTCAAAGTCCACGACTCAGTGGCA
* *
1393 TCTCTTCCCAAAGTCCACGACTCTA-TGGCA
1 TCTTTTCTCAAAGTCCACGACTC-AGTGGCA
* * *
1423 CCTTTTTTCTTTCAAAGTCCACAACTCTGTGGCA
1 --TCTTTTC--TCAAAGTCCACGACTCAGTGGCA
1457 CCCTTTTAAG
Statistics
Matches: 283, Mismatches: 38, Indels: 44
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.00
29 6 0.02
30 97 0.34
31 63 0.22
32 47 0.17
33 46 0.16
34 23 0.08
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (30 bp):
TCTTTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:1455 original size:64 final size:64
Alignment explanation
Indices: 1184--1456 Score: 176
Period size: 61 Copynumber: 4.3 Consensus size: 64
1174 CATCTTGTCC
* * * * * *
1184 CAAAGTCCACGACCCAGTGGCAAT-CTCTTCT-CAAAGTCCACGACTCAGTGGCA---TCTTGTC
1 CAAAGTCCACAACTCTGTGGC-ATCCTCTTCTCCAAA-TCCACGACTCAGTGGCACCTTTTTTTT
*
1244 C
64 T
* * * * * * * * *
1245 CAAAGTCCACGACTCAGTGGCAT-CTTTTTTTCAAAGTCCACAACTTAGTGGCA---TCTCTTTT
1 CAAAGTCCACAACTCTGTGGCATCCTCTTCTCCAAA-TCCACGACTCAGTGGCACCTTTTTTTTT
* * * * * *
1306 CTAAGTCCACAACTCAGTGGAATCCTTTTCTTTCAAATCCACGACTCAGTGGCATCTTTTTTTTT
1 CAAAGTCCACAACTCTGTGGCATCCTCTTC-TCCAAATCCACGACTCAGTGGCACCTTTTTTTTT
*
1371 CAAAGTCCACGACT-TAGTGGCAT-CTCTTC-CCAAAGTCCACGACTCTA-TGGCACCTTTTTTC
1 CAAAGTCCACAACTCT-GTGGCATCCTCTTCTCCAAA-TCCACGACTC-AGTGGCACCTTTTTT-
1432 TTT
62 TTT
1435 CAAAGTCCACAACTCTGTGGCA
1 CAAAGTCCACAACTCTGTGGCA
1457 CCCTTTTAAG
Statistics
Matches: 176, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
60 7 0.04
61 64 0.36
62 24 0.14
63 28 0.16
64 28 0.16
65 25 0.14
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (64 bp):
CAAAGTCCACAACTCTGTGGCATCCTCTTCTCCAAATCCACGACTCAGTGGCACCTTTTTTTTT
Found at i:1470 original size:217 final size:215
Alignment explanation
Indices: 1080--1483 Score: 537
Period size: 217 Copynumber: 1.9 Consensus size: 215
1070 AATTTTTCAA
* *
1080 ATCTCTTTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTTCCAAAACCACGACTCAGTGGCATC
1 ATCTCTTTTCTAAGTCCACAACTCAGTGGAATCCTTTTCTTCCAAAACCACGACTCAGTGGCATC
*
1145 TTTTTTCTTCAAAGTCCATGACCCAATGGCATCTTGTCCCAAAGTCCACGACCCAGTGGCAATCT
66 TTTTTTCTTCAAAGTCCACGACCCAATGGCATCTTGTCCCAAAGTCCACGACCCAGTGGCAATCT
* * *
1210 CTTCTCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTT
131 CTTCTCAAAGTCCACAACTCAGTGGCACCTTGT--CAAAGTCCACAACTCAGTGGCATCTTTTTT
1275 TCAAAGTCCACAACTTAGTGGC
194 TCAAAGTCCACAACTTAGTGGC
* *
1297 ATCTCTTTTCTAAGTCCACAACTCAGTGGAATCCTTTTCTTTCAAATCCACGACTCAGTGGCATC
1 ATCTCTTTTCTAAGTCCACAACTCAGTGGAATCCTTTTCTTCCAAAACCACGACTCAGTGGCATC
* ** * * *
1362 TTTTTTTTTCAAAGTCCACGACTTAGTGGCATCTCT-TCCCAAAGTCCACGACTCTA-TGGCACC
66 TTTTTTCTTCAAAGTCCACGACCCAATGGCATCT-TGTCCCAAAGTCCACGAC-CCAGTGGCA-A
* * * * *
1425 TTTTTTCTTTCAAAGTCCACAACTCTGTGGCACCCTT-T-TAAGTCCACAACTCTGTGGCA
128 TCTCTTC--TCAAAGTCCACAACTCAGTGGCA-CCTTGTCAAAGTCCACAACTCAGTGGCA
1484 CATTTTTCTT
Statistics
Matches: 162, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
217 129 0.80
218 8 0.05
220 22 0.14
221 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (215 bp):
ATCTCTTTTCTAAGTCCACAACTCAGTGGAATCCTTTTCTTCCAAAACCACGACTCAGTGGCATC
TTTTTTCTTCAAAGTCCACGACCCAATGGCATCTTGTCCCAAAGTCCACGACCCAGTGGCAATCT
CTTCTCAAAGTCCACAACTCAGTGGCACCTTGTCAAAGTCCACAACTCAGTGGCATCTTTTTTTC
AAAGTCCACAACTTAGTGGC
Found at i:1516 original size:33 final size:32
Alignment explanation
Indices: 1247--2073 Score: 626
Period size: 33 Copynumber: 25.8 Consensus size: 32
1237 TCTTGTCCCA
* * * *
1247 AAGTCCACGACTCAGTGGCATCTTTT--TTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTT-T
** * * *
1278 AAGTCCACAACTTAGTGGCATCTCTT--TTCT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
1308 AAGTCCACAACTCAGTGGAATCCTTTT-CTTTC
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
* * * * *
1340 AAATCCACGACTCAGTGGCATCTTTT-TTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* ** * * **
1371 CAAAGTCCACGACTTAGTGGCATCTCTTCC--CA
1 --AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* ** * *
1403 AAGTCCACGACTCTATGGCACCTTTTTTCTTTCA
1 AAGTCCACAACTCCGTGGCACC-TTTTCCTTT-T
*
1437 AAGTCCACAACTCTGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
1464 AAGTCCACAACTCTGTGGCACATTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* * *
1496 AAAGCCCATAACTCCATGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTT
**
1531 AAGTCCACAACTCTATGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* ** *
1558 AAGTCCATAACTCAATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
* * *
1591 AAGTCCACAACTTCGTGACACCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACC-TTTTCCTTTT
* *
1624 AAAGCCCACAACTTCGTGGCACTCTTGTTCCTTTT
1 -AAGTCCACAACTCCGTGGCAC-CTT-TTCCTTTT
*
1659 AAGTCCACAACTCCATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
1692 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
*
1724 AAGTCCACAACTCTGTGGCA-C----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
**
1751 AAGTCCATGACTCCGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT-CCTTTT
*
1785 AAGCCCACAACTCCGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT-CCTTTT
* *
1819 AAGCCCATAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTT
*
1853 AAGTCCACAACTCTGTGGCACCTTATTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
*
1886 AAGTCCACAACTTCGTGGCACC-TTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
1917 AAGTCCACAACTCCGTGGCATCTTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCTTTT
* *
1950 AAGTCCACAACTCTGTGGCACCTTGTCCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTCCTTTT
*
1983 AAGTCCACAACTCTGTGGCACCTTTT-CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* *
2014 AAGTCCACGACTCTGTGGCACCCTTTT-CTCTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTCCT-TTT
* * * *
2047 AAGCCCACACCTCTGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTT
2074 TTTCCTGTAA
Statistics
Matches: 665, Mismatches: 89, Indels: 82
0.80 0.11 0.10
Matches are distributed among these distances:
27 67 0.10
28 4 0.01
29 1 0.00
30 36 0.05
31 93 0.14
32 69 0.10
33 218 0.33
34 156 0.23
35 21 0.03
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:1524 original size:156 final size:155
Alignment explanation
Indices: 1214--1524 Score: 379
Period size: 156 Copynumber: 2.0 Consensus size: 155
1204 CAATCTCTTC
1214 TCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTTTCAA
1 TCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTTTCAA
* *
1279 AGTCCACAACTTAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGAATCCTTTTCTTTCAAAT
66 AGTCCACAACTTAGTGGCATCTCCTTTCTAAGTCCACAACTCAGTGGAAT-CTTTTCTTTCAAAC
* *
1344 CCACGACTCAGTGGCATCTTTTTTTT
130 CCACAACTCAGTGGCATCTCTTTTTT
* *
1370 TCAAAGTCCACGACTTAGTGGCATCTCT-TCCCAAAGTCCACGACTCTA-TGGCACCTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCT-TGTCCCAAAGTCCACGACTC-AGTGGCA--TCTTTT-T
*
1433 TTCAAAGTCCACAACTCT-GTGGCA-C-CCTTT-TAAGTCCACAACTCTGTGGCACAT-TTTTCT
61 TTCAAAGTCCACAACT-TAGTGGCATCTCCTTTCTAAGTCCACAACTCAGTGG-A-ATCTTTTCT
* *
1493 TTTAAAGCCCATAACTCCA-TGGCA-CTCTTTTT
123 TTCAAA-CCCACAACT-CAGTGGCATCTCTTTTT
1525 CCTTTTAAGT
Statistics
Matches: 136, Mismatches: 9, Indels: 20
0.82 0.05 0.12
Matches are distributed among these distances:
156 84 0.62
157 18 0.13
158 10 0.07
159 23 0.17
160 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (155 bp):
TCAAAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTTTCAA
AGTCCACAACTTAGTGGCATCTCCTTTCTAAGTCCACAACTCAGTGGAATCTTTTCTTTCAAACC
CACAACTCAGTGGCATCTCTTTTTT
Found at i:1852 original size:194 final size:190
Alignment explanation
Indices: 1458--2073 Score: 736
Period size: 194 Copynumber: 3.2 Consensus size: 190
1448 TCTGTGGCAC
* * * * *
1458 CCTTTTAAGTCCACAACTCTGTGGCACATTTTTCTTTTAAAGCCCATAACTCCATGGCACTCTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTT-AAGTCCACAACTCCGTGGCAC-C-TT
* * * *
1523 TTCCTTTTAAGTCCACAACTCTATGGCACCCTTTTAAGTCCATAACTCAATGGCATCTTTTTCCT
63 TTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCAGTGGCACCTTTTCCCT
* * * * *
1588 TTTAAGTCCACAACTTCGTGACACCTTTTTCTTTTTAAAGCCCACAACTTCGTGGCACTCTTGTT
128 TTTAAGTCCACAACTCCGTGGCACC-TTTTCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
**
1653 CCTTTTAAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
1718 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATGACTCCGTGGCACCCTTTTCCCTT
65 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCAGTGGCA-CCTTTTCCCTT
* *
1783 TTAAGCCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGCCCATAACTCCGTGGCACTCTTTTT
129 TTAAGTCCACAACTCCGTGGCA-CCTTTT-CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
1847 CCTTTTAAGTCCACAACTCTGTGGCACCTTATTCCTTTTAAGTCCACAACTTCGTGGCACC-TTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* * * * *
1911 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCTTGT
65 CCTTTTAAGTCCACAACTCTGTGGCA-C-----CCTTTTAAGTCCATAACTCAGTGGCACCTTTT
* * * * *
1976 CCCTTTTAAGTCCACAACTCTGTGGCACCTTTT-CTTTTAAGTCCACGACTCTGTGGCAC-CCTT
124 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTT
2039 TT
189 TT
* * *
2041 -CTCTTTAAGCCCACACCTCTGTGGTATCCTTTT
1 CCT-TTTAAGTCCACAACTCTGTGGCA-CCTTTT
2074 TTTCCTGTAA
Statistics
Matches: 369, Mismatches: 40, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
193 83 0.22
194 143 0.39
195 78 0.21
196 7 0.02
197 6 0.02
198 30 0.08
199 22 0.06
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (190 bp):
CCTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTC
CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCAGTGGCACCTTTTCCCTTTT
AAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:2278 original size:49 final size:49
Alignment explanation
Indices: 2193--2704 Score: 442
Period size: 49 Copynumber: 10.6 Consensus size: 49
2183 CATATTGACA
* * * *
2193 TAAGCCCAATATCACTGGCCTTGAATTAGCATATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2242 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA----
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * ** *
2281 TAAG-CCTATATCATTGGCCTTGAATCAGCATATTGGCACCTT-GTCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2328 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
** * **
2377 TAAGATTAATGTCGTTGGCCTTGAATCAGCACGTTGGCACCTTAACCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT---CATCTT
** * **
2429 TAAGACTGATGTCGTTGGCCTTGAATCAGCACGTTGGCACCTTAACCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT---CATCTT
* ** * *
2481 TAAGTCTGATGTCGCCGACCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
2530 TAAGACCAATGTCGCTGGCCTTGAATTAGCATATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * * *
2579 TAAGTCAAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTACAT-TCC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-CATCT-T
* ** * * *
2630 TAAGCCCAATGTCGCTGGCCTTGTCTCAGTACATTGGCA--TTCTTCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
2677 CAAGTCTAATGTCGCTGGCCATGAATCA
1 TAAGACCAATGTCGCTGGCCTTGAATCA
2705 ACACAATGTC
Statistics
Matches: 384, Mismatches: 60, Indels: 40
0.79 0.12 0.08
Matches are distributed among these distances:
38 27 0.07
39 4 0.01
43 2 0.01
47 28 0.07
48 38 0.10
49 155 0.40
50 4 0.01
51 33 0.09
52 93 0.24
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:2299 original size:87 final size:87
Alignment explanation
Indices: 2121--2366 Score: 377
Period size: 87 Copynumber: 2.8 Consensus size: 87
2111 CCAATATTGT
** * *
2121 TGGCCTTGTCTCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCAT
1 TGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAT
*
2186 ATTGACATAAGCCCAATATCAC
66 ATTGGCATAAGCCCAATATCAC
*
2208 TGGCCTTGAATTAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCA
* * *
2273 CATTGGCATAAG-CCTATATCAT
65 TATTGGCATAAGCCCAATATCAC
* *
2295 TGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCAT
1 TGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAT
2360 ATTGGCA
66 ATTGGCA
2367 CCTTCATCTT
Statistics
Matches: 145, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
86 41 0.28
87 59 0.41
88 45 0.31
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (87 bp):
TGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCAT
ATTGGCATAAGCCCAATATCAC
Found at i:2682 original size:98 final size:97
Alignment explanation
Indices: 2294--2682 Score: 336
Period size: 101 Copynumber: 3.9 Consensus size: 97
2284 GCCTATATCA
* * *
2294 TTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
1 TTGGCCTTGAATCAGCATATTGGCACCTTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGC
* * * * *
2358 ATATTGGCACCTTCATCTTTAAGAT-TAATGTCG
66 ACATTGGCA-CTTCATCTTCAAG-TCAAATATTG
** * ** *
2391 TTGGCCTTGAATCAGCACGTTGGCACCTTAACCATCTTTAAGACTGATGTCGTTGGCCTTGAATC
1 TTGGCCTTGAATCAGCATATTGGCACCTT---CATCTCTAAGACCAATGTCGCTGGCCTTGAATC
* * ** * *
2456 AGCACGTTGGCACCTTAACCATCTTTAAGTCTGATGTCG
63 AGCACATTGGCA-CTT---CATCTTCAAGTCAAATATTG
** * * *
2495 CCGACCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATTAGC
1 TTGGCCTTGAATCAGCATATTGGCACCTTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGC
* *
2560 ATATTGGCACCTTCATCTTTAAGTCAAATATTG
66 ACATTGGCA-CTTCATCTTCAAGTCAAATATTG
* * **
2593 TTGGCCTTGAATCAGCATATTGGCATCTTTACAT-TCCTAAGCCCAATGTCGCTGGCCTTGTCTC
1 TTGGCCTTGAATCAGCATATTGGCA-CCTT-CATCT-CTAAGACCAATGTCGCTGGCCTTGAATC
* *
2657 AGTACATTGGCA-TTCTTCTTCAAGTC
63 AGCACATTGGCACTTCATCTTCAAGTC
2683 TAATGTCGCT
Statistics
Matches: 243, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
97 27 0.11
98 50 0.21
99 4 0.02
100 36 0.15
101 84 0.35
103 1 0.00
104 41 0.17
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (97 bp):
TTGGCCTTGAATCAGCATATTGGCACCTTCATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGC
ACATTGGCACTTCATCTTCAAGTCAAATATTG
Found at i:4907 original size:27 final size:27
Alignment explanation
Indices: 4877--4940 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
4867 TCATCGGGGA
*
4877 CACTCCAACCCCATTCCTCCGAGAGTG
1 CACTCCAACCCCATTCCTCCGAGAGAG
4904 CACTCCAACCCCATTCCTCCGAGAGAG
1 CACTCCAACCCCATTCCTCCGAGAGAG
4931 CACTCCAACC
1 CACTCCAACC
4941 TCGTTTTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.47, G:0.12, T:0.16
Consensus pattern (27 bp):
CACTCCAACCCCATTCCTCCGAGAGAG
Found at i:7786 original size:43 final size:43
Alignment explanation
Indices: 7645--8479 Score: 640
Period size: 42 Copynumber: 19.7 Consensus size: 43
7635 TCTTTTCTGT
* *
7645 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * * * * *
7688 -ATCCCTTAATCTTCCTGTCGGCTTCGTCCCTAGAGATTTTCC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * * *
7730 -CTCCCTCAATCTGCTTGTCGACTTTGACCCTGGAGACTTTCC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* *
7772 TTTCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTCA
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-T-TCC
* * * * * * * *
7817 TTT---TAAGTCTTCCTGTTGGCTTCGTCCCTGAAAACTTTTC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * * *
7857 -TACCCTCAATCTGCCTGTCGG-TTTAACCCTAGAGACTTTCC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * **
7898 -TACCCTTCAGTCTGTCTGTCGGCTTTGACCCTAAAGACTTTCC
1 TTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
*
7941 -TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGAACTTT-C
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAG-ACTTTCC
* * *
7983 -TACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTTC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * * * *
8025 -ATCCCTTAGTTTGCCTGTCAGCTTTGACCTTGAAGACTTTTC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
** * *
8067 -AACCCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * * *
8109 TTT-CCTTCAGTCTGCTTATCAGCTTTGACCTTGGAGACTATCTCA
1 TTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-T-TCC
** * * * * *
8154 TTT---AAAGTTTGCCTGTCGGCTTCGTCCCTGAAGAC-TACC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
** *
8193 --TCATTTAAAGTCTGCATGTCGGCTTTGACCCTGGAGACTTTCC
1 TTTCCCTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * *
8236 TATCCCTTAGTCTACCTGTCAGCTTTAACCCTGGAGACTTTCC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
*
8279 TATCCCTTAGTCTGCCTGTCGGCTTTGACCAC-GGAGACTTT-C
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACC-CTGGAGACTTTCC
* * * *
8321 TTTCCCTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCC
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * * * * *
8364 TAGT-CCTAAGTCTGCCTGTTGGCTTCGATCTTGGAGACGTTCC
1 T-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * *
8407 TATCCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTT-T
1 TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* *
8449 TTTCCCTAAGTCTG-CTCGTTGGCTTTGACCC
1 TTTCCCTTAGTCTGCCT-GTCGGCTTTGACCC
8480 GAAAGAATAT
Statistics
Matches: 634, Mismatches: 130, Indels: 57
0.77 0.16 0.07
Matches are distributed among these distances:
37 1 0.00
39 2 0.00
40 2 0.00
41 27 0.04
42 357 0.56
43 227 0.36
44 4 0.01
45 14 0.02
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.36
Consensus pattern (43 bp):
TTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
Found at i:7936 original size:126 final size:123
Alignment explanation
Indices: 7648--8447 Score: 463
Period size: 127 Copynumber: 6.3 Consensus size: 123
7638 TTTCTGTTTT
* * *
7648 CCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCATCCCTTAA-TCTTCCTGTCGGCTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGAC-TTTCAT--TTTAAGTCTTCCTGTCGGCTT
* * * *
7712 CGTCCCT-AGAGA-TTTTCCCT-CCCTCAATCTGCTTGTCGACTTTGACCCTGGAGACTTTCCTT
63 CGTCCCTGA-AAACTTTT--CTACCCTCAATCTGCCTGTCG-GTTTGACCCTAGAGACTTTCC-T
*
7774 T
123 A
* * *
7775 CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTCATTTTAAGTCTTCCTGTTGGCTTC
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGACT-T-TCATTTTAAGTCTTCCTGTCGGCTTC
*
7840 GTCCCTGAAAACTTTTCTACCCTCAATCTGCCTGTCGGTTTAACCCTAGAGACTTTCCTA
64 GTCCCTGAAAACTTTTCTACCCTCAATCTGCCTGTCGGTTTGACCCTAGAGACTTTCCTA
* * * *
7900 CCCTTCAGTCTGTCTGTCGGCTTTGACCCTAAAGACTTTCCTTCCCTT-AGTCTGCCTGTCGGCT
1 CCCTT-AGTCTGCCTGTCGGCTTTGACCCTGAAGACTTTCATT---TTAAGTCTTCCTGTCGGCT
* * * * *
7964 TTGACCCTGAAGAAC-TTTCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTTC-A
62 TCGTCCCTGAA-AACTTTTCTACCCTCAATCTGCCTGTCGG-TTTGACCCTAGAGACTTTCCTA
* * * *** * * *
8026 TCCCTTAGTTTGCCTGTCAGCTTTGACCTTGAAGACTTTTCAACCCTCAGTCTGCTTGTCGGCTT
1 -CCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGAC-TTTC-ATTTTAAGTCTTCCTGTCGGCTT
* * * * * * * * * * * * * *
8091 TGACCCTGGAGACTTTCCTTTCCTTCAGTCTGCTTATCAGCTTTGACCTTGGAGACTAT-CT-
63 CGTCCCTGAAAACTTTTC-TACCCTCAATCTGCCTGTC-GGTTTGACCCTAGAGACTTTCCTA
** * * * * * * *
8152 CATTTAAAGTTTGCCTGTCGGCTTCGTCCCTGAAGACTACCTCATTTAAAGTCTGCATGTCGGCT
1 CCCTT--AGTCTGCCTGTCGGCTTTGACCCTGAAGACT--TTCATTTTAAGTCTTCCTGTCGGCT
* * * * * * * * * * *
8217 TTGACCCTGGAGACTTTCCTATCCCTTAGTCTACCTGTCAGCTTTAACCCTGGAGACTTTCCTA
62 TCGTCCCTGAAAACTTTTCTA-CCCTCAATCTGCCTGTC-GGTTTGACCCTAGAGACTTTCCTA
* * * *
8281 TCCCTTAGTCTGCCTGTCGGCTTTGACCAC-GGAGACTTTC-TTTCCCTAAGTCTGCTTGTCAGC
1 -CCCTTAGTCTGCCTGTCGGCTTTGACC-CTGAAGACTTTCATTT---TAAGTCTTCCTGTCGGC
* * * * * * * * * * * * *
8344 TTTGACCTTGGAGACTTTCCTAGTCCT-AAGTCTGCCTGTTGGCTTCGATCTTGGAGACGTTCCT
61 TTCGTCCCTGAAAACTTTTCTA-CCCTCAA-TCTGCCTGTCGG-TTTGACCCTAGAGACTTTCCT
8408 A
123 A
8409 TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTT
1 -CCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTT
8448 TTTTCCCTAA
Statistics
Matches: 548, Mismatches: 90, Indels: 69
0.78 0.13 0.10
Matches are distributed among these distances:
124 4 0.01
125 15 0.03
126 158 0.29
127 229 0.42
128 138 0.25
129 1 0.00
130 3 0.01
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.36
Consensus pattern (123 bp):
CCCTTAGTCTGCCTGTCGGCTTTGACCCTGAAGACTTTCATTTTAAGTCTTCCTGTCGGCTTCGT
CCCTGAAAACTTTTCTACCCTCAATCTGCCTGTCGGTTTGACCCTAGAGACTTTCCTA
Found at i:9100 original size:25 final size:25
Alignment explanation
Indices: 9069--9136 Score: 136
Period size: 25 Copynumber: 2.7 Consensus size: 25
9059 TCATGCATGC
9069 ATTTTCATTTCATGCATTTCACATA
1 ATTTTCATTTCATGCATTTCACATA
9094 ATTTTCATTTCATGCATTTCACATA
1 ATTTTCATTTCATGCATTTCACATA
9119 ATTTTCATTTCATGCATT
1 ATTTTCATTTCATGCATT
9137 ACATTTCATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.50
Consensus pattern (25 bp):
ATTTTCATTTCATGCATTTCACATA
Found at i:9176 original size:50 final size:49
Alignment explanation
Indices: 9122--9276 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 49
9112 TCACATAATT
*
9122 TTCATTTCATGCATTACATTTCATGCATGCATTTCATAAACATTTCAAGC
1 TTCATTTCATGCATT-CATTTCATGCATGCATTTCATAAACATTTCATGC
* * * *
9172 TTCA-TGCATGCA-T--TTTCATTTCATGCATTTCATGTAACAATTCATGC
1 TTCATTTCATGCATTCATTTCA-TGCATGCATTTCAT-AAACATTTCATGC
* *
9219 ATGCATTTAACAT-AATTTTCATTTCATGCATGCATTTCATAAACATTTCATGC
1 -TTCATTT--CATGCA--TTCATTTCATGCATGCATTTCATAAACATTTCATGC
9272 TTCAT
1 TTCAT
9277 GCATGCAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
45 5 0.06
46 13 0.16
47 10 0.12
48 4 0.05
49 8 0.10
50 5 0.06
51 3 0.04
52 4 0.05
53 12 0.15
54 13 0.16
55 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (49 bp):
TTCATTTCATGCATTCATTTCATGCATGCATTTCATAAACATTTCATGC
Found at i:9179 original size:31 final size:31
Alignment explanation
Indices: 9141--9283 Score: 105
Period size: 31 Copynumber: 4.4 Consensus size: 31
9131 TGCATTACAT
9141 TTCATGCATGCATTTCATAAACATTTCAAGC
1 TTCATGCATGCATTTCATAAACATTTCAAGC
** *
9172 TTCATGCATGCATTTTCATTTCATGCATTTCATGTAAC
1 TTCATGCATGCA-TTTCA--T-AAACATTTCA---AGC
* *
9210 AATTCATGCATGCATTTAACAT-AA-TTTTC-A-T
1 --TTCATGCATGCATTT--CATAAACATTTCAAGC
*
9241 TTCATGCATGCATTTCATAAACATTTCATGC
1 TTCATGCATGCATTTCATAAACATTTCAAGC
9272 TTCATGCATGCA
1 TTCATGCATGCA
9284 AATTTTCATT
Statistics
Matches: 87, Mismatches: 10, Indels: 30
0.69 0.08 0.24
Matches are distributed among these distances:
27 3 0.03
28 2 0.02
29 19 0.22
31 24 0.28
32 6 0.07
34 1 0.01
35 8 0.09
36 4 0.05
38 2 0.02
39 4 0.05
40 12 0.14
41 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (31 bp):
TTCATGCATGCATTTCATAAACATTTCAAGC
Found at i:9222 original size:89 final size:94
Alignment explanation
Indices: 9093--9301 Score: 241
Period size: 100 Copynumber: 2.2 Consensus size: 94
9083 CATTTCACAT
** *
9093 AATTTTCATTTCATGCATTTCACATAATTTTCATTTCATGCA-T-T-A-CATTTCATGCATGCAT
1 AATTTTCATTTCATGCATTTCACATAAAATTCATTGCATGCATTATAATCATTTCATGCATGCAT
9154 TTCATAAACATTTCAAGCTTCATGCATGC
66 TTCATAAACATTTCAAGCTTCATGCATGC
**
9183 -ATTTTCATTTCATGCATTTCATGTAACAATTCA-TGCATGCATTTAACATAATTTTCATTTCAT
1 AATTTTCATTTCATGCATTTCACATAA-AATTCATTGCATGCA-TT---ATAA---TCATTTCAT
*
9246 GCATGCATTTCATAAACATTTCATGCTTCATGCATGC
58 GCATGCATTTCATAAACATTTCAAGCTTCATGCATGC
9283 AAATTTTCATTTCATGCAT
1 -AATTTTCATTTCATGCAT
9302 ACATGCATTT
Statistics
Matches: 99, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
89 31 0.31
90 4 0.04
91 1 0.01
95 1 0.01
96 1 0.01
100 44 0.44
102 17 0.17
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (94 bp):
AATTTTCATTTCATGCATTTCACATAAAATTCATTGCATGCATTATAATCATTTCATGCATGCAT
TTCATAAACATTTCAAGCTTCATGCATGC
Found at i:9246 original size:25 final size:25
Alignment explanation
Indices: 9183--9249 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
9173 TCATGCATGC
* **
9183 ATTTTCATTTCATGCATTTCATGTA
1 ATTTTCATTTCATGCATTTAACATA
** *
9208 ACAATTCA-TGCATGCATTTAACATA
1 A-TTTTCATTTCATGCATTTAACATA
9233 ATTTTCATTTCATGCAT
1 ATTTTCATTTCATGCAT
9250 GCATTTCATA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
24 4 0.13
25 23 0.74
26 4 0.13
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (25 bp):
ATTTTCATTTCATGCATTTAACATA
Found at i:9267 original size:29 final size:29
Alignment explanation
Indices: 9212--9283 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
9202 CATGTAACAA
*
9212 TTCATGCATGCATTTAACATAATTTTCAT-
1 TTCATGCATGCATTT-ACATAAATTTCATC
9241 TTCATGCATGCATTT-CATAAACATTTCATGC
1 TTCATGCATGCATTTACAT-AA-ATTTCAT-C
9272 TTCATGCATGCA
1 TTCATGCATGCA
9284 AATTTTCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
27 3 0.08
28 2 0.05
29 21 0.55
31 12 0.32
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (29 bp):
TTCATGCATGCATTTACATAAATTTCATC
Found at i:9579 original size:23 final size:23
Alignment explanation
Indices: 9553--9608 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
9543 ATGATGAAGA
*
9553 CAAAGCAACATGGAATAGCAAAG
1 CAAAGCAACATGGAACAGCAAAG
9576 CAAAGCAACATGGAACAGCAAAG
1 CAAAGCAACATGGAACAGCAAAG
9599 CAAAGCAACA
1 CAAAGCAACA
9609 ATGAAGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.54, C:0.21, G:0.20, T:0.05
Consensus pattern (23 bp):
CAAAGCAACATGGAACAGCAAAG
Found at i:9951 original size:16 final size:18
Alignment explanation
Indices: 9932--9970 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
9922 CATCCGAAAA
*
9932 AACCAACACCAG-T-AGC
1 AACCAACAACAGTTCAGC
9948 AACCAACAACAGTTCAGC
1 AACCAACAACAGTTCAGC
9966 AACCA
1 AACCA
9971 CCATAACCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 1 0.05
18 8 0.40
ACGTcount: A:0.46, C:0.36, G:0.10, T:0.08
Consensus pattern (18 bp):
AACCAACAACAGTTCAGC
Found at i:10017 original size:22 final size:22
Alignment explanation
Indices: 9992--10036 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9982 AGCAACTTCT
9992 AGCAGCTCCCACGATAGCCTCC
1 AGCAGCTCCCACGATAGCCTCC
* *
10014 AGCAGCTTCCACGGTAGCCTCC
1 AGCAGCTCCCACGATAGCCTCC
10036 A
1 A
10037 ATAGCTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.42, G:0.20, T:0.16
Consensus pattern (22 bp):
AGCAGCTCCCACGATAGCCTCC
Found at i:10042 original size:22 final size:22
Alignment explanation
Indices: 9994--10043 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
9984 CAACTTCTAG
*
9994 CAGCTCCCACGATAGCCTCCAG
1 CAGCTCCCACGATAGCCTCCAA
* *
10016 CAGCTTCCACGGTAGCCTCCAA
1 CAGCTCCCACGATAGCCTCCAA
*
10038 TAGCTC
1 CAGCTC
10044 AGCAACCACG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.42, G:0.18, T:0.18
Consensus pattern (22 bp):
CAGCTCCCACGATAGCCTCCAA
Found at i:10189 original size:69 final size:69
Alignment explanation
Indices: 10078--10215 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
10068 GCTCCTGTAG
* *
10078 TAACTTCCAACAGCTCCCACAACAACTTCCAGCAGTGACAGCGGCATCCACGGCAGCAGCAACTT
1 TAACTTCCAACAGCTCCCACAACAACTTCCAACAGTGACAGCGGCATCCACAGCAGCAGCAACTT
10143 CCAC
66 CCAC
*
10147 TAACTTCCAACAGCTCCCACAACAACTTCCAACAGTGACAGCGGCATCCACAGTAGCAGCAACTT
1 TAACTTCCAACAGCTCCCACAACAACTTCCAACAGTGACAGCGGCATCCACAGCAGCAGCAACTT
10212 CCAC
66 CCAC
10216 GAGCTCCCAG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.32, C:0.38, G:0.14, T:0.15
Consensus pattern (69 bp):
TAACTTCCAACAGCTCCCACAACAACTTCCAACAGTGACAGCGGCATCCACAGCAGCAGCAACTT
CCAC
Found at i:12865 original size:121 final size:121
Alignment explanation
Indices: 12651--12895 Score: 436
Period size: 121 Copynumber: 2.0 Consensus size: 121
12641 ATGTTGTGAC
* * *
12651 AAACATTACCCTTATATAAAAGGTAATGCTGGTTTGAAAATGGCTCACTGATTTTAAACTATTGT
1 AAACATTACACTTAAATAAAAGGTAATGCTGGTTTGAAAATGGCTCACTGATTTTAAAATATTGT
*
12716 TTTTAATGAAATTACATAAAATTACCTAATTACATAAAAATATTGCAAGTTACATA
66 TTTTAATGAAATTACATAAAATTACCTAATTACATAAAAATATTACAAGTTACATA
12772 AAACATTACACTTAAATAAAAGGTAATGCTGGTTTGAAAATGGCTCACTGATTTTAAAATATTGT
1 AAACATTACACTTAAATAAAAGGTAATGCTGGTTTGAAAATGGCTCACTGATTTTAAAATATTGT
* *
12837 TTTTAATGAAATTATATAAAATTACCTAATTATATAAAAATATTACAAGTTACATA
66 TTTTAATGAAATTACATAAAATTACCTAATTACATAAAAATATTACAAGTTACATA
12893 AAA
1 AAA
12896 TATTGCCTCA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (121 bp):
AAACATTACACTTAAATAAAAGGTAATGCTGGTTTGAAAATGGCTCACTGATTTTAAAATATTGT
TTTTAATGAAATTACATAAAATTACCTAATTACATAAAAATATTACAAGTTACATA
Found at i:13611 original size:13 final size:13
Alignment explanation
Indices: 13589--13645 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
13579 CATAAAGTGT
13589 TGTATCGATACAA
1 TGTATCGATACAA
*
13602 TGTATTGATACATAA
1 TGTATCGATAC--AA
13617 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
13634 TGTATCGATACA
1 TGTATCGATACA
13646 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:13624 original size:32 final size:32
Alignment explanation
Indices: 13569--13669 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
13559 TTCAACGATT
13569 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
13602 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
13634 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
13666 TGTA
1 TGTA
13670 AGCTACTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 53 0.82
33 12 0.18
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:13630 original size:19 final size:18
Alignment explanation
Indices: 13567--13664 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
13557 ATTTCAACGA
13567 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
13586 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
13602 --TGTATTGATACATAAG
1 TTTGTATCGATACATAAG
13618 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
13634 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
13650 TTTTGTATCGATACA
1 -TTTGTATCGATACA
13665 ATGTAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:13725 original size:13 final size:13
Alignment explanation
Indices: 13707--13731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13697 ATTACTCAAA
13707 TGTATCGATACAT
1 TGTATCGATACAT
13720 TGTATCGATACA
1 TGTATCGATACA
13732 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:13784 original size:52 final size:52
Alignment explanation
Indices: 13740--13920 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
13730 CACTGATCTT
*
13740 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
13792 TGTATCAATATATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
13844 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
13896 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
13921 TCATATTTCA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:14429 original size:19 final size:19
Alignment explanation
Indices: 14390--14537 Score: 152
Period size: 19 Copynumber: 8.7 Consensus size: 19
14380 TTTCAACGAT
14390 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
14410 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
14429 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
14443 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
14461 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
14475 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
14493 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
14507 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
14525 TTGTATCGATACA
1 TTGTATCGATACA
14538 ATGTAAGCTA
Statistics
Matches: 110, Mismatches: 0, Indels: 37
0.75 0.00 0.25
Matches are distributed among these distances:
13 33 0.30
15 6 0.05
17 6 0.05
19 51 0.46
20 14 0.13
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:14448 original size:13 final size:13
Alignment explanation
Indices: 14430--14518 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
14420 ACATAAGTGT
14430 TGTATCGATACAA
1 TGTATCGATACAA
14443 TGTATCGATACATAA
1 TGTATCGATAC--AA
14458 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
14475 TGTATCGATACATAA
1 TGTATCGATAC--AA
14490 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
14507 TGTATCGATACA
1 TGTATCGATACA
14519 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14452 original size:32 final size:32
Alignment explanation
Indices: 14411--14542 Score: 255
Period size: 32 Copynumber: 4.1 Consensus size: 32
14401 CATAAAGTGT
14411 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
14443 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
14475 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
14507 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
14539 TGTA
1 TGTA
14543 AGCTACTGCC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 99 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:14598 original size:13 final size:13
Alignment explanation
Indices: 14580--14604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14570 ATTACTCAAA
14580 TGTATCGATACAT
1 TGTATCGATACAT
14593 TGTATCGATACA
1 TGTATCGATACA
14605 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14756 original size:51 final size:52
Alignment explanation
Indices: 14613--14792 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
14603 CACTGATCTT
* *
14613 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATGCACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
14665 TGTATGGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
14717 TGTATCGATACATG-AGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
14768 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
14793 TCATATTTCG
Statistics
Matches: 123, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
51 50 0.41
52 73 0.59
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:19853 original size:15 final size:15
Alignment explanation
Indices: 19803--19846 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
19793 ATTTAGATAA
*
19803 TAATAAAATTGATTT
1 TAATAAAATTAATTT
*
19818 TGATAAAATTAATTT
1 TAATAAAATTAATTT
19833 TAATAAAATTAATT
1 TAATAAAATTAATT
19847 ATTATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
TAATAAAATTAATTT
Found at i:19859 original size:21 final size:23
Alignment explanation
Indices: 19824--19881 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 23
19814 ATTTTGATAA
*
19824 AATTAAT-TTTAATAAAATTAAT
1 AATTAATAATTAATAAAATTAAT
*
19846 TATT-ATAA-TAATAAAATTAAT
1 AATTAATAATTAATAAAATTAAT
19867 AATTAATAATTAATA
1 AATTAATAATTAATA
19882 TGTATTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 18 0.60
22 7 0.23
23 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTAATAATTAATAAAATTAAT
Found at i:21953 original size:2 final size:2
Alignment explanation
Indices: 21946--21975 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21936 TACTAAAATA
21946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21976 TGAGCACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23782 original size:2 final size:2
Alignment explanation
Indices: 23777--23802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23767 TTGGTTGCAA
23777 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23803 GAATGGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26479 original size:37 final size:37
Alignment explanation
Indices: 26438--26513 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
26428 TATATAATTT
*
26438 ATAAAAATAAA-AATATAAAATATAATGATTAAATTAA
1 ATAAAAATAAATAATATAAAATATAA-AATTAAATTAA
* *
26475 ATAAATATAAATCATATAAAATATAAAATTAAATTAA
1 ATAAAAATAAATAATATAAAATATAAAATTAAATTAA
26512 AT
1 AT
26514 TAATTTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 22 0.63
38 13 0.37
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (37 bp):
ATAAAAATAAATAATATAAAATATAAAATTAAATTAA
Found at i:26500 original size:7 final size:7
Alignment explanation
Indices: 26441--26507 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
26431 ATAATTTATA
26441 AAAATA-
1 AAAATAT
26447 AAAATAT
1 AAAATAT
26454 AAAATAT
1 AAAATAT
*
26461 AATGAT-T
1 AA-AATAT
* *
26468 AAATTAA
1 AAAATAT
26475 ATAAATAT
1 A-AAATAT
26483 AAATCATAT
1 AAA--ATAT
26492 AAAATAT
1 AAAATAT
26499 AAAAT-T
1 AAAATAT
26505 AAA
1 AAA
26508 TTAAATTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
6 11 0.22
7 24 0.49
8 7 0.14
9 7 0.14
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (7 bp):
AAAATAT
Found at i:28327 original size:21 final size:18
Alignment explanation
Indices: 28297--28336 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
28287 TGTTAATTTA
28297 TTTAATTTTAAATATATAAT
1 TTTAATTTTAAA-A-ATAAT
28317 TTTATATTTTAAAAATAAT
1 TTTA-ATTTTAAAAATAAT
28336 T
1 T
28337 AAAATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAATTTTAAAAATAAT
Found at i:29743 original size:3 final size:3
Alignment explanation
Indices: 29724--29762 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
29714 TTAAAGCTGC
*
29724 ATA AT- ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
29763 ACAAGGCCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:29803 original size:21 final size:21
Alignment explanation
Indices: 29777--29818 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
29767 GGCCAGTAAA
*
29777 TCAACTGTGAGCTAGCTTTGC
1 TCAACTGTGAGCAAGCTTTGC
29798 TCAACTGTGAGCAAGCTTTGC
1 TCAACTGTGAGCAAGCTTTGC
29819 CACCTAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (21 bp):
TCAACTGTGAGCAAGCTTTGC
Found at i:30009 original size:22 final size:22
Alignment explanation
Indices: 29984--30026 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29974 ATATGTATTT
29984 AGATAATTATATTTA-TATAAAG
1 AGATAATTAT-TTTATTATAAAG
*
30006 AGATATTTATTTTATTATAAA
1 AGATAATTATTTTATTATAAA
30027 TAAAACTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
AGATAATTATTTTATTATAAAG
Found at i:32040 original size:47 final size:47
Alignment explanation
Indices: 31986--32079 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
31976 AGATGAATGC
31986 CCTTAGGCCAATTTGAGTTACGAACATAGTTTTGATCATGGTCATAA
1 CCTTAGGCCAATTTGAGTTACGAACATAGTTTTGATCATGGTCATAA
32033 CCTTAGGCCAATTTGAGTTACGAACATAGTTTTGATCATGGTCATAA
1 CCTTAGGCCAATTTGAGTTACGAACATAGTTTTGATCATGGTCATAA
32080 AAATGACTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (47 bp):
CCTTAGGCCAATTTGAGTTACGAACATAGTTTTGATCATGGTCATAA
Found at i:33609 original size:15 final size:16
Alignment explanation
Indices: 33589--33618 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33579 ACTTCAAATG
33589 TTAATATA-ATTTTAA
1 TTAATATACATTTTAA
33604 TTAATATACATTTTA
1 TTAATATACATTTTA
33619 TTAGTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATATACATTTTAA
Found at i:35772 original size:12 final size:12
Alignment explanation
Indices: 35757--35786 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35747 GATTTTTATA
35757 TTTTAATTTAAT
1 TTTTAATTTAAT
35769 TTTTAATTTAAT
1 TTTTAATTTAAT
*
35781 ATTTAA
1 TTTTAA
35787 AAAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAATTTAAT
Found at i:35784 original size:19 final size:19
Alignment explanation
Indices: 35743--35786 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
35733 TTAAATATTC
* *
35743 ATTTGATTTTTATATTTTA
1 ATTTAATTTTTATATTTAA
35762 ATTTAATTTTTA-ATTTAA
1 ATTTAATTTTTATATTTAA
35780 TATTTAA
1 -ATTTAA
35787 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTAATTTTTATATTTAA
Found at i:39817 original size:2 final size:2
Alignment explanation
Indices: 39812--39863 Score: 70
Period size: 2 Copynumber: 26.0 Consensus size: 2
39802 AACCATTTAG
*
39812 AT AT AT AT GAT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
39854 AT AT GT AT AT
1 AT AT AT AT AT
39864 GAGACATGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41862 original size:29 final size:28
Alignment explanation
Indices: 41804--41862 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
41794 TTAAATTATT
* ** **
41804 ATTTAATATTAAAAATATTTTTATTTAA
1 ATTTAATATAAAAAATATTAATATAAAA
41832 ATTTAATTATAAAAAATATTAATATAAAA
1 ATTTAA-TATAAAAAATATTAATATAAAA
41861 AT
1 AT
41863 AATATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTAATATAAAAAATATTAATATAAAA
Found at i:50665 original size:21 final size:22
Alignment explanation
Indices: 50628--50683 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
50618 AGATTTTTTT
* *
50628 ATTTAATTTTTATTTTACG-TGA
1 ATTTAA-TTTAATTTTACGTTAA
*
50650 ATTTAATTTAATTTTATGTTAA
1 ATTTAATTTAATTTTACGTTAA
50672 ATTT-ATTTAATT
1 ATTTAATTTAATT
50684 ATATGTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
ATTTAATTTAATTTTACGTTAA
Found at i:50688 original size:21 final size:20
Alignment explanation
Indices: 50649--50698 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
50639 ATTTTACGTG
*
50649 AATTTAATTTAATTTTATGTTA
1 AATTT-ATTTAATTATATG-TA
*
50671 AATTTATTTAATTATATGTC
1 AATTTATTTAATTATATGTA
50691 AATTTATT
1 AATTTATT
50699 GATTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 9 0.35
21 12 0.46
22 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTATTTAATTATATGTA
Found at i:51362 original size:21 final size:22
Alignment explanation
Indices: 51338--51379 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51328 TACAAGTATG
*
51338 TTAT-AATGAAATTAATTTTTT
1 TTATAAATGAAATAAATTTTTT
*
51359 TTATAAATTAAATAAATTTTT
1 TTATAAATGAAATAAATTTTT
51380 AAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATAAATGAAATAAATTTTTT
Found at i:51399 original size:22 final size:23
Alignment explanation
Indices: 51364--51419 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
51354 TTTTTTTATA
51364 AATTAAATAAAT-TTT-TAAAAAT
1 AATTAAA-AAATATTTATAAAAAT
*
51386 AA-TAAAAAATATTTATAATAAT
1 AATTAAAAAATATTTATAAAAAT
*
51408 AATTTAAAAATA
1 AATTAAAAAATA
51420 AAATAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 7 0.24
22 10 0.34
23 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTAAAAAATATTTATAAAAAT
Found at i:55507 original size:156 final size:157
Alignment explanation
Indices: 55197--55942 Score: 391
Period size: 156 Copynumber: 4.8 Consensus size: 157
55187 CTCTAAAGAA
* * *
55197 ATTTTAGTAATTTTCCCTTAAAATTGAGTTAGATATAGTCACAAAGATGCTTTTATGCCAAAGCT
1 ATTTTGGTAATTTTCCCTTAAAATCGAGTTAGATATAGTCACAAAGATGCTTTTATGCCAAAGAT
* * * * * * * * *
55262 GTGCATTTAGGATAGGTTCATATTTTTTTTATCATTTTTGATTCTTTTAAGGTTATTGAGATATT
66 GTACATTTAGGATAGGTTCACATTTTTCTTATCATTTTTAAGTCTTTTAAGATTATAGAGACACT
* * *
55327 TTTATATCGAAGGTGTAACCCAAAGGC
131 TTTATATCAAAAGTATAACCCAAAGGC
* * *** * *
55354 ATTTTGGTAA-TTTCCCTTAGAATCGAGTTTAG-TATGGTCATTGAGATGCTTTTATGCCAGATA
1 ATTTTGGTAATTTTCCCTTAAAATCGAG-TTAGATATAGTCACAAAGATGCTTTTATGCCAAAGA
*
55417 TGTACATTTAGGATAGGTTCACCTTTTTCTTATCATTTTTAAGTCTTTT-AGAATTATCAGA-AC
65 TGTACATTTAGGATAGGTTCACATTTTTCTTATCATTTTTAAGTCTTTTAAG-ATTAT-AGAGAC
* * *
55480 ACTTTTATGTCAAAAGTATATCTCAAAGGC
128 ACTTTTATATCAAAAGTATAACCCAAAGGC
* * * * * * * * * * *
55510 ATTTGGGTAGTTTT--CTTACAACCAAGTTTGATGTAGTCA-ACGACATGCTTTTATGCTAAAGG
1 ATTTTGGTAATTTTCCCTTAAAATCGAGTTAGATATAGTCACA-AAGATGCTTTTATGCCAAAGA
* * * ** *
55572 TGTGA-ATTGAGGATAGGTT--CATCTTTTCATGATCA-TTTTGAGTCTTTTGGGATTACT-GAA
65 TGT-ACATTTAGGATAGGTTCACAT-TTTTC-TTATCATTTTTAAGTCTTTTAAGATTA-TAGAG
* * * *
55632 ATACTTTTATATCGAAAA-TATACCCCAAAAGT
126 ACACTTTTATATC-AAAAGTATAACCCAAAGGC
* * * * ** *** * * *
55664 TTTTTAGTAATTTTCCC-TAAAACCAAGTCCGATATAGTCACTGGGATGCTTTTAAGTCAAAGGT
1 ATTTTGGTAATTTTCCCTTAAAATCGAGTTAGATATAGTCACAAAGATGCTTTTATGCCAAAGAT
* * * * * * * ** *
55728 CTACATTTAGGATAAGTTTACCA-TTTTCTTATCATTTTAAAGTCCTTTAGGTTTACCGAGATAC
66 GTACATTTAGGATAGGTTCA-CATTTTTCTTATCATTTTTAAGTCTTTTAAGATTATAGAGACAC
* * ** * * *
55792 TTTCACATGGAAGGTAT-ACCCTTAAGGT
130 TTTTATATCAAAAGTATAACCC-AAAGGC
* * * ** ** *
55820 ATTTTGGTAA-TTT-CTTCTATAATCTAGTGCGATATAGTCA-TTAGAATGTTTTTATGCCAAAG
1 ATTTTGGTAATTTTCCCT-TAAAATCGAGTTAGATATAGTCACAAAG-ATGCTTTTATGCCAAAG
* * * * ** * * *
55882 GTGTATATTTAGGATAGGTTCA-ACTTTT-TTATTATTTTCGAGTCCTTTAAGGTTATTGAGA
64 ATGTACATTTAGGATAGGTTCACATTTTTCTTATCATTTTTAAGTCTTTTAAGATTATAGAGA
55943 TATTTTCACG
Statistics
Matches: 454, Mismatches: 107, Indels: 59
0.73 0.17 0.10
Matches are distributed among these distances:
153 4 0.01
154 84 0.19
155 128 0.28
156 218 0.48
157 18 0.04
158 2 0.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (157 bp):
ATTTTGGTAATTTTCCCTTAAAATCGAGTTAGATATAGTCACAAAGATGCTTTTATGCCAAAGAT
GTACATTTAGGATAGGTTCACATTTTTCTTATCATTTTTAAGTCTTTTAAGATTATAGAGACACT
TTTATATCAAAAGTATAACCCAAAGGC
Found at i:56049 original size:154 final size:154
Alignment explanation
Indices: 55665--56142 Score: 455
Period size: 154 Copynumber: 3.1 Consensus size: 154
55655 CCCAAAAGTT
* * * * * * * * *
55665 TTTTAGTAATTT-TCCCTAAAACCAAGTCCGATATAGTCACTGGGATGCTTTTAAGTCAAAGGTC
1 TTTTAGTAATTTCT-TCTAAAATCTAGTGCGATATAGTCATTGGGATGTTTTTATGCCAAAGGTG
* * * * * *
55729 TACATTTAGGATAAGTTTACCATTTTCTTATCATTTTAAAGTCCTTTAGGTTTACCGAGATACTT
65 TACATTTAGGATAAGTTCAAC-TTTTTTTATCATTTTCAAGTCCTTTAGGATTATCGAGATACTT
* * *
55794 TCACATGGAAGGTATACCCTTAAGGTA
129 TCACGTTGAAGGTATA-CCTTAAGGCA
* * * *
55821 TTTTGGTAATTTCTTCTATAATCTAGTGCGATATAGTCATTAGAATGTTTTTATGCCAAAGGTGT
1 TTTTAGTAATTTCTTCTAAAATCTAGTGCGATATAGTCATTGGGATGTTTTTATGCCAAAGGTGT
* * * * * *
55886 ATATTTAGGATAGGTTCAAC-TTTTTTATTATTTTCGAGTCCTTTAAGG-TTATTGAGATATTTT
66 ACATTTAGGATAAGTTCAACTTTTTTTATCATTTTCAAGTCCTTT-AGGATTATCGAGATACTTT
55949 CACGTTGAAGGTATA-CTATAATGGCA
130 CACGTTGAAGGTATACCT-TAA-GGCA
* *
55975 TTTTAGTAATTTCTTCTAAAAT-TAAGTTCTATATAGTCATTGGGATGTTTTTATGCCAAAGGTG
1 TTTTAGTAATTTCTTCTAAAATCT-AGTGCGATATAGTCATTGGGATGTTTTTATGCCAAAGGTG
* * * * * * *
56039 TGCGTCTAGGATATGTTC-ACTTTTTTTTATCATTTTCAAGTCTTTTAGGATTATCAATATACTT
65 TACATTTAGGATAAGTTCAAC-TTTTTTTATCATTTTCAAGTCCTTTAGGATTATCGAGATACTT
* * *
56103 TCATGTTGAAGGTATATCTTAAAAGGTA
129 TCACGTTGAAGGTATACCTT--AAGGCA
*
56131 TTTTCGTAATTT
1 TTTTAGTAATTT
56143 TCCTTAGAAC
Statistics
Matches: 263, Mismatches: 48, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
152 2 0.01
153 6 0.02
154 120 0.46
155 50 0.19
156 82 0.31
157 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (154 bp):
TTTTAGTAATTTCTTCTAAAATCTAGTGCGATATAGTCATTGGGATGTTTTTATGCCAAAGGTGT
ACATTTAGGATAAGTTCAACTTTTTTTATCATTTTCAAGTCCTTTAGGATTATCGAGATACTTTC
ACGTTGAAGGTATACCTTAAGGCA
Found at i:56484 original size:20 final size:20
Alignment explanation
Indices: 56456--56530 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
56446 TTTTACCCAG
56456 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
56476 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
56496 ATGTATCAATATATTCTTCA
1 ATGTATCGATACATTTTTCA
56516 ATGTATCGATACATT
1 ATGTATCGATACATT
56531 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:56516 original size:40 final size:39
Alignment explanation
Indices: 56456--56533 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
56446 TTTTACCCAG
* *
56456 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTCTTCAATATATCGATACAT-TATGA
* *
56496 ATGTATCAATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCAATACATTCTTCAATATATCGATACATTATG
56534 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (39 bp):
ATGTATCAATACATTCTTCAATATATCGATACATTATGA
Found at i:57497 original size:20 final size:20
Alignment explanation
Indices: 57440--57490 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
57430 AGCCTTTGAC
57440 CATGCATTTTTTTTATGTTT
1 CATGCATTTTTTTTATGTTT
57460 CATGCATTTTTTTTATGTTT
1 CATGCATTTTTTTTATGTTT
57480 CATGCATTTTT
1 CATGCATTTTT
57491 AATATGTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.16, C:0.12, G:0.10, T:0.63
Consensus pattern (20 bp):
CATGCATTTTTTTTATGTTT
Found at i:62627 original size:20 final size:20
Alignment explanation
Indices: 62602--62673 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
62592 TACCCAGATG
62602 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
62622 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* *
62642 TATCGATATATTCTTCAATA
1 TATCGATACATTTTTCAATA
62662 TATCGATACATT
1 TATCGATACATT
62674 ATGTCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:62659 original size:40 final size:39
Alignment explanation
Indices: 62599--62676 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
62589 TTTTACCCAG
*
62599 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
*
62639 ATGTATCGATATATTCTTCAATATATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
62677 TCTTTTTACC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:66099 original size:149 final size:150
Alignment explanation
Indices: 65903--66182 Score: 368
Period size: 149 Copynumber: 1.9 Consensus size: 150
65893 AAGTTGTGAC
* *
65903 ACTTTCATGTCGAAGGTATACCCCAAAAGCATTTTGATAATTTTTTTAGAAGC-GAATATGATAT
1 ACTTTCATGTCAAAGGTATACCCCAAAAGCATTTTGATAATTTTTTTAGAACCAG-ATATGATAT
* * *
65967 TGTCACGA-GATGATTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCACCTTTTTATGATCGTT
65 AGTCACGAGGATGATTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCATTTTATGATCGTT
66031 TTATTTTAGAGTTATTGGGAT
130 TTATTTTAGAGTTATTGGGAT
* * * * * * *
66052 ACTTTTATGTCAAAGGTATGCCTCAAAGGTATTTT-AGTAATTTTTTTAGAACCAGGTCTGATAT
1 ACTTTCATGTCAAAGGTATACCCCAAAAGCATTTTGA-TAATTTTTTTAGAACCAGATATGATAT
* * * * *
66116 AGTCACTAGGATGCTTTTATGCCAAATGTGTACATTTAGGATAGGTTCATCATTTTATGATTGTT
65 AGTCACGAGGATGATTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCATTTTATGATCGTT
66181 TT
130 TT
66183 CGAATCCTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
148 1 0.01
149 57 0.51
150 53 0.48
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (150 bp):
ACTTTCATGTCAAAGGTATACCCCAAAAGCATTTTGATAATTTTTTTAGAACCAGATATGATATA
GTCACGAGGATGATTTTATGCCAAAGGTGTACATTTAGGATAGGTTCACCATTTTATGATCGTTT
TATTTTAGAGTTATTGGGAT
Found at i:69139 original size:11 final size:11
Alignment explanation
Indices: 69123--69147 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
69113 TTACTTTGAT
69123 TTTGATTTTAA
1 TTTGATTTTAA
69134 TTTGATTTTAA
1 TTTGATTTTAA
69145 TTT
1 TTT
69148 ATACTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTGATTTTAA
Found at i:74815 original size:13 final size:13
Alignment explanation
Indices: 74797--74821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74787 CAAAGATCAG
74797 TGTATCGATACAA
1 TGTATCGATACAA
74810 TGTATCGATACA
1 TGTATCGATACA
74822 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:74898 original size:19 final size:19
Alignment explanation
Indices: 74874--74957 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
74864 AGCGATACAT
74874 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
74893 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
74912 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
* *
74925 TGTATCGATACAACACCTA
1 TGTATCGATACAAAACTTA
74944 TGTATCGATACAAA
1 TGTATCGATACAAA
74958 TCGTTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.04
18 1 0.02
19 42 0.74
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:74929 original size:32 final size:32
Alignment explanation
Indices: 74893--74955 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
74883 ACAAAACTTA
*
74893 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACCTATGTATCGATACAT
74925 TGTATCGATACAACACCTATGTATCGATACA
1 TGTATCGATACAACACCTATGTATCGATACA
74956 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAACACCTATGTATCGATACAT
Found at i:74930 original size:13 final size:13
Alignment explanation
Indices: 74912--74936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74902 ACAACACTTA
74912 TGTATCGATACAT
1 TGTATCGATACAT
74925 TGTATCGATACA
1 TGTATCGATACA
74937 ACACCTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:75727 original size:28 final size:28
Alignment explanation
Indices: 75684--75739 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
75674 AGGATGTATT
* * *
75684 GATATATTGAAGAATGTATTGATACATC
1 GATACATTGAAAAATGTATCGATACATC
75712 GATACATTGAAAAATGTATCGATACATC
1 GATACATTGAAAAATGTATCGATACATC
75740 TGGGGTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (28 bp):
GATACATTGAAAAATGTATCGATACATC
Found at i:76694 original size:28 final size:28
Alignment explanation
Indices: 76622--76889 Score: 394
Period size: 28 Copynumber: 9.5 Consensus size: 28
76612 TACTAACTTG
* *
76622 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GATGCCACTGAC-T
*
76653 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
76682 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
76710 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
76738 TGTGGGCTTTGAAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
76766 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
76794 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
76822 TGTGGGCTTTGAAAGGATGCCAC-GACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
76849 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
76877 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
76890 GAGATGAACG
Statistics
Matches: 218, Mismatches: 17, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
27 26 0.12
28 166 0.76
29 1 0.00
30 10 0.05
31 4 0.02
32 11 0.05
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:78139 original size:9 final size:9
Alignment explanation
Indices: 78125--78195 Score: 74
Period size: 9 Copynumber: 7.9 Consensus size: 9
78115 TTGTTTCTTG
78125 GTTTTTTTT
1 GTTTTTTTT
78134 GTTTTTTTT
1 GTTTTTTTT
*
78143 GTTTTTTAAAT
1 GTTTTTT--TT
78154 -TTTTTTTT
1 GTTTTTTTT
*
78162 G-GTTTTTT
1 GTTTTTTTT
* *
78170 CTATTTTTT
1 GTTTTTTTT
78179 GTTTTTTTT
1 GTTTTTTTT
78188 GTTTTTTT
1 GTTTTTTT
78196 GGGTATAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
8 7 0.14
9 37 0.73
10 6 0.12
11 1 0.02
ACGTcount: A:0.06, C:0.01, G:0.10, T:0.83
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:78158 original size:20 final size:20
Alignment explanation
Indices: 78135--78187 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
78125 GTTTTTTTTG
78135 TTTTTTTTGTTTTTTAAATT
1 TTTTTTTTGTTTTTTAAATT
* **
78155 TTTTTTTGGTTTTTTCTATT
1 TTTTTTTTGTTTTTTAAATT
78175 TTTTGTTTT-TTTT
1 TTTT-TTTTGTTTT
78188 GTTTTTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.83
Consensus pattern (20 bp):
TTTTTTTTGTTTTTTAAATT
Found at i:85232 original size:52 final size:52
Alignment explanation
Indices: 85154--85279 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
85144 CGAAATATGA
*
85154 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
85206 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
**
85258 AAATTTATCTGCATGTATCGAT
1 AAATTTGCCTGCATGTATCGAT
85280 GCAAAGATCA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:85293 original size:52 final size:52
Alignment explanation
Indices: 85154--85302 Score: 174
Period size: 52 Copynumber: 2.9 Consensus size: 52
85144 CGAAATATGA
* *** *
85154 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTACCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
* * ***
85206 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
* *
85258 AAATTTATCTGCATGTATCGATGCA-AAGATCAGTGTATCGATACA
1 AAATTTACCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
85303 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
Found at i:85309 original size:13 final size:13
Alignment explanation
Indices: 85291--85315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85281 CAAAGATCAG
85291 TGTATCGATACAA
1 TGTATCGATACAA
85304 TGTATCGATACA
1 TGTATCGATACA
85316 TTTGGGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85392 original size:19 final size:19
Alignment explanation
Indices: 85368--85432 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
85358 AGCGATACAT
85368 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
85387 TGTATCAATAC---A--T-
1 TGTATCGATACAAAACTTA
*
85400 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
85419 TGTATCGATACAAA
1 TGTATCGATACAAA
85433 TCGTTGAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.62
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:85403 original size:32 final size:32
Alignment explanation
Indices: 85362--85430 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
85352 CTTCGTAGCG
85362 ATACATTGTATCGATACAAAACTTATGTATCA
1 ATACATTGTATCGATACAAAACTTATGTATCA
* *
85394 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCA
85426 ATACA
1 ATACA
85431 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCA
Found at i:85607 original size:16 final size:16
Alignment explanation
Indices: 85586--85617 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85576 GATTCGGGCT
85586 TAACAAAAAGTTATGA
1 TAACAAAAAGTTATGA
85602 TAACAAAAAGTTATGA
1 TAACAAAAAGTTATGA
85618 ATTCGTCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAACAAAAAGTTATGA
Found at i:88750 original size:79 final size:79
Alignment explanation
Indices: 88613--89203 Score: 431
Period size: 79 Copynumber: 7.3 Consensus size: 79
88603 TTGGAGATAG
* *
88613 TAACGGGGTTGGAGTATCCCCGATTAT-AGAAAATTGATGTTTTAAAAATAAAATCGGGGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTATGAG-AAATTGATGTTTTAGAAATAAAACCGGGGTTGGA
88677 GTATCCCCGTGAAAA
65 GTATCCCCGTGAAAA
* * * ** *
88692 TAATGGGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAGGCCGGGGTTGAAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
*
88757 TATCCTCGATTGTGAGAAA
66 TATCC-C---CGTGA-AAA
**** * * ** *
88776 TCAA-TATTTTGGAAATAAAGCCGGGGTTGGA-GTATCTCCGATGAAAAATTGATGTTTTAGAAA
1 T-AACGGGGTTGG-AGT--ATCCCCGATT--ATG-A-----GA-----AATTGATGTTTTAGAAA
* * * * *
88839 TAAAATCAGGATTGGAATATCCTCTCG-G-AAG
49 TAAAACCGGGGTTGGAGTATCC-C-CGTGAAAA
* *
88870 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
88935 TATCTCCTCG-G-AAA
66 TATC-CC-CGTGAAAA
* * * ** *
88949 TAACGGGGTTAGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAATCAAGATTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
* *
89011 TATCCCC-TCGGAAG
66 TATCCCCGT-GAAAA
* * * *
89025 TAACGGGGTTGGAGTATCCCCGATTTTGAGAAATTAATATTTTAGAAATAAAACCGAGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
*
89090 TATCCCC-TCAGAAA
66 TATCCCCGTGA-AAA
*
89104 TAACGGGGTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
* *
89166 TGTCCCC-TCAGAAA
66 TATCCCCGTGA-AAA
89180 TAACGGGGTTGGAGTATCCCCGAT
1 TAACGGGGTTGGAGTATCCCCGAT
89204 GATTAACGGG
Statistics
Matches: 406, Mismatches: 71, Indels: 71
0.74 0.13 0.13
Matches are distributed among these distances:
74 1 0.00
75 3 0.01
76 130 0.32
79 184 0.45
80 4 0.01
83 4 0.01
84 10 0.02
85 4 0.01
87 6 0.01
88 1 0.00
89 4 0.01
90 1 0.00
91 6 0.01
93 4 0.01
94 9 0.02
96 1 0.00
97 2 0.00
99 32 0.08
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAG
TATCCCCGTGAAAA
Found at i:88767 original size:51 final size:51
Alignment explanation
Indices: 88696--88817 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
88686 TGAAAATAAT
* *
88696 GGGGTTGGAGTATCCCCGATTATGAGAAATCGATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
* * * *
88747 GGGGTTGAAGTATCCTCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
*
88798 GGGGTTGGAGTATCTCCGAT
1 GGGGTTGGAGTATCCCCGAT
88818 GAAAAATTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:89029 original size:76 final size:76
Alignment explanation
Indices: 88797--89205 Score: 548
Period size: 76 Copynumber: 5.3 Consensus size: 76
88787 GAAATAAAGC
* * * * * *
88797 CGGGGTTGGAGTATCTCCGATGAAAAATTGATGTTTTAGAAATAAAATCAGGATTGGAATATCCT
1 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
88862 CTCGGAAGTAA
66 CTCGGAAATAA
* * *
88873 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
88938 CTCCTCGGAAATAA
63 CCCCTCGGAAATAA
* * ** *
88952 CGGGGTTAGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCAAGATTGGAGTATCCC
1 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
89017 CTCGGAAGTAA
66 CTCGGAAATAA
* * * *
89028 CGGGGTTGGAGTATCCCCGATTTTGAGAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGA---TGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
89093 CCCCTCAGAAATAA
63 CCCCTCGGAAATAA
*
89107 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCC
1 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
89172 CTCAGAAATAA
66 CTCGGAAATAA
89183 CGGGGTTGGAGTATCCCCGATGA
1 CGGGGTTGGAGTATCCCCGATGA
89206 TTAACGGGGC
Statistics
Matches: 292, Mismatches: 35, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
76 159 0.54
79 133 0.46
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (76 bp):
CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CTCGGAAATAA
Found at i:89079 original size:155 final size:155
Alignment explanation
Indices: 88797--89203 Score: 679
Period size: 155 Copynumber: 2.6 Consensus size: 155
88787 GAAATAAAGC
* * *
88797 CGGGGTTGGAGTATCTCCGATGAAAAATTGATGTTTTAGAAATAAAATCAGGATTGGAATATCCT
1 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCAGGATTGGAGTATCCC
*
88862 CTCGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGG
66 CTCGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGA
* *
88927 GGTTGGAGTATCTCCTCGGAAATAA
131 GGTTGGAGTATCCCCTCAGAAATAA
* *
88952 CGGGGTTAGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCAAGATTGGAGTATCCC
1 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCAGGATTGGAGTATCCC
*
89017 CTCGGAAGTAACGGGGTTGGAGTATCCCCGATTTTGAGAAATTAATATTTTAGAAATAAAACCGA
66 CTCGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGA
89082 GGTTGGAGTATCCCCTCAGAAATAA
131 GGTTGGAGTATCCCCTCAGAAATAA
* * * *
89107 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCC
1 CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCAGGATTGGAGTATCCC
* *
89172 CTCAGAAATAACGGGGTTGGAGTATCCCCGAT
66 CTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
89204 GATTAACGGG
Statistics
Matches: 235, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
155 235 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (155 bp):
CGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAATCAGGATTGGAGTATCCC
CTCGGAAGTAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGA
GGTTGGAGTATCCCCTCAGAAATAA
Found at i:89182 original size:31 final size:28
Alignment explanation
Indices: 89155--89227 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
89145 GAAATAAAAC
*
89155 CGGGGTTGGAGTGTCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCCTCAGAAATAA
* *
89183 CGGGGTTGGAGTATCCCC-GATG-ATTAA
1 CGGGGTTGGAGTATCCCCTCA-GAAATAA
*
89210 CGGGGCTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
89228 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAA
Found at i:89279 original size:52 final size:51
Alignment explanation
Indices: 89216--89345 Score: 143
Period size: 52 Copynumber: 2.5 Consensus size: 51
89206 TTAACGGGGC
* * *
89216 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTGGAAATAAAATCGAAGT
1 TGGAGTATCCCCGATTGTGAAAAATTAGTG-TTCTGAAAATAAAACCGAAGT
* ** * * **
89268 TGGAGCATCCCCGATTAAAGGAAAATTGGTGTTCTGAAAATAAAACCGGGGT
1 TGGAGTATCCCCGATT-GTGAAAAATTAGTGTTCTGAAAATAAAACCGAAGT
*
89320 TGGAGTATCCCCGATTGTGCAAAATT
1 TGGAGTATCCCCGATTGTGAAAAATT
89346 GAGAACTTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
51 7 0.11
52 46 0.73
53 10 0.16
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
TGGAGTATCCCCGATTGTGAAAAATTAGTGTTCTGAAAATAAAACCGAAGT
Found at i:92190 original size:13 final size:13
Alignment explanation
Indices: 92172--92197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92162 TAATTTTTTG
92172 TGTATCGATACAT
1 TGTATCGATACAT
92185 TGTATCGATACAT
1 TGTATCGATACAT
92198 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:92904 original size:21 final size:21
Alignment explanation
Indices: 92863--92906 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92853 CTCCCCTTTA
* *
92863 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
92884 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
92905 TC
1 TC
92907 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:96823 original size:15 final size:15
Alignment explanation
Indices: 96803--96833 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96793 ATTTCGTTTG
*
96803 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
96818 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
96833 G
1 G
96834 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:98910 original size:33 final size:33
Alignment explanation
Indices: 98873--98939 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
98863 TTCAACGATT
98873 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
98906 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
98939 T
1 T
98940 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:98911 original size:13 final size:13
Alignment explanation
Indices: 98893--98917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98883 CATAAAATGT
98893 TGTATCGATACAA
1 TGTATCGATACAA
98906 TGTATCGATACA
1 TGTATCGATACA
98918 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:98999 original size:13 final size:13
Alignment explanation
Indices: 98981--99005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98971 ATTACTCACA
98981 TGTATCGATACAT
1 TGTATCGATACAT
98994 TGTATCGATACA
1 TGTATCGATACA
99006 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:99194 original size:52 final size:52
Alignment explanation
Indices: 99014--99186 Score: 328
Period size: 52 Copynumber: 3.3 Consensus size: 52
99004 CACTGATCTT
99014 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
99066 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
99118 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
99170 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
99187 ATAAATTTTC
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:107448 original size:30 final size:31
Alignment explanation
Indices: 107412--107493 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
107402 ATACCTTTTT
107412 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
107442 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
107473 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
107494 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:107577 original size:34 final size:33
Alignment explanation
Indices: 107447--108499 Score: 782
Period size: 34 Copynumber: 31.7 Consensus size: 33
107437 GTCTCAAAGT
* * *
107447 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
107478 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
*
107511 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
107539 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
107573 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
107601 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
* *
107635 CCACAACTCCGTGGCAC-----CCT-TTTAAAAC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
107663 CCACAATTTCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
107697 CCACAACTCCGTGGCAC-----TCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
107725 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
107759 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
107787 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
107821 CCACAACTCCGTGGCAC------C-CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
* * *
107848 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGA
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
107882 CCACAACTCCGTGGCACCTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
107915 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
107952 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
107986 CCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
108023 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
108057 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
108094 CCACAACTCCGTGGCACTTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
108127 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCA--CTTTTTTCTC-TTTAAGC
* *
108163 CCACAACTCCGTGGCA-TCTTTCTCCCTTCCTAAAGCC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT--T-AAG-C
* * * *
108200 CACACAAGTCGGTGGCAACCTTCTTCT-TTTCAAAGC
1 C-CACAACTCCGTGGC-ACTTTTTTCTCTTT--AAGC
* *
108236 CCACAACTCCGTGGCACCTTCTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
**
108269 CCACAACTTTGTGGCACTCTTTTT-TCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCT-C-TTT--AAGC
* *
108306 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
108340 CCACAACTACGTGGCACTCTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTT-TAAGC
*
108373 CCACAACTCTGTGGCACTATTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
108407 CCACAACTCCGTGGCACTTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
108440 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTTAAGC
108475 CCACAACTCCGTGGCATCTTTTTTC
1 CCACAACTCCGTGGCA-CTTTTTTC
108500 CTTCCCAAAG
Statistics
Matches: 841, Mismatches: 91, Indels: 176
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.00
27 38 0.05
28 98 0.12
29 5 0.01
31 14 0.02
32 6 0.01
33 152 0.18
34 265 0.32
35 83 0.10
36 66 0.08
37 94 0.11
38 14 0.02
39 5 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:107852 original size:27 final size:27
Alignment explanation
Indices: 107814--107865 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
107804 TTTTTTCATC
*
107814 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
107841 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
107866 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:108007 original size:71 final size:68
Alignment explanation
Indices: 107442--108502 Score: 1037
Period size: 62 Copynumber: 16.0 Consensus size: 68
107432 ATTTTGTCTC
* * * * *
107442 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
107504 TTT
66 TTT
* * *
107507 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
107565 CTTT
66 -TTT
* * *
107569 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
107627 CTTT
66 -TTT
* * * * *
107631 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAACCCACAATTTCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
107689 CTTT
66 -TTT
* * *
107693 -AAGTCCACAACTCCGTGGCA-C----TCTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
107751 CTTT
66 -TTT
* * * *
107755 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
107813 CTTT
66 -TTT
* * *
107817 -AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCAC-CTTTTTCTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
107874 TTT
66 TTT
* *
107877 AAAGACCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CC
107942 TTTT
65 TTTT
*
107946 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
108011 TCTTTT
64 -CTTTT
108017 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-
108082 CCTTTT
63 CCTTTT
*
108088 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTT-
108153 CCTTTT
63 CCTTTT
* * * * * *
108159 -AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTT
1 AAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTCTT
*
108222 CTT-CTTTT
60 TTTCCTTTT
* **
108230 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTTC
108295 CTTTT
64 CTTTT
*
108300 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTACGTGGCACTC-TTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
108364 CTTCT
64 CTTTT
* * *
108369 -AAGCCCACAACTCTGTGGCACTATTTTTCCTTCT-AAGCCCACAACTCCGTGGCACT-TTTTT-
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
108430 CTTTT
64 CTTTT
*
108435 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
108498 TCCTT
62 TCCTT
108503 CCCAAAGCCC
Statistics
Matches: 902, Mismatches: 52, Indels: 79
0.87 0.05 0.08
Matches are distributed among these distances:
60 4 0.00
61 78 0.09
62 268 0.30
63 1 0.00
64 18 0.02
66 8 0.01
67 94 0.10
68 49 0.05
69 49 0.05
70 102 0.11
71 180 0.20
72 8 0.01
73 28 0.03
74 13 0.01
75 2 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (68 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
TTT
Found at i:108571 original size:30 final size:28
Alignment explanation
Indices: 108503--108561 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
108493 TTTTTTCCTT
*
108503 CCCAAAGCCCACACAAGTTGGTGGCAAC
1 CCCAAAGCCCACACAAGTCGGTGGCAAC
108531 CCCAAAGCCCACACAAGTCGGTGGCAAC
1 CCCAAAGCCCACACAAGTCGGTGGCAAC
108559 CCC
1 CCC
108562 TCTAAGCCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.41, G:0.20, T:0.08
Consensus pattern (28 bp):
CCCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:108682 original size:49 final size:49
Alignment explanation
Indices: 108564--109189 Score: 868
Period size: 49 Copynumber: 12.7 Consensus size: 49
108554 GCAACCCCTC
* *
108564 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
108616 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
108665 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * *
108717 TAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
108766 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
108818 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
108867 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
108916 TAAGTCCAATATTGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
108965 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
109014 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
109063 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
109106 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
109158 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
109190 GTTGACATCC
Statistics
Matches: 524, Mismatches: 35, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
43 40 0.08
45 1 0.00
49 316 0.60
50 7 0.01
51 4 0.01
52 156 0.30
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:108744 original size:101 final size:101
Alignment explanation
Indices: 108564--109251 Score: 920
Period size: 101 Copynumber: 6.9 Consensus size: 101
108554 GCAACCCCTC
* * *
108564 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATA
108629 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
108665 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATA
*
108730 GCTAGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
108766 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATA
108831 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
108867 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATA
108929 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
108965 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACC--TT-CACCTTTAAGTCCAATATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATA
* * *
109027 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
*
109063 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATA
* * *
109119 GCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCAC--CTT-CATCTT
* * * * *
109158 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC-TTTTC-CATCTTTAAGTCCAAT
* * * * * *
109223 ATCGTTGGCCATGAATCAACATATTGGCA
63 ATAGCTGGCCTTGACTCAGCACATTGGCA
109252 TCTTTATCAC
Statistics
Matches: 545, Mismatches: 27, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
92 41 0.08
94 3 0.01
95 42 0.08
98 182 0.33
99 2 0.00
101 237 0.43
105 1 0.00
107 37 0.07
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (101 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATA
GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:109121 original size:43 final size:43
Alignment explanation
Indices: 109060--109145 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
109050 GCATCTTCAT
* *
109060 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
109103 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
109146 ATTTTCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:109129 original size:92 final size:94
Alignment explanation
Indices: 109008--109189 Score: 314
Period size: 92 Copynumber: 1.9 Consensus size: 94
108998 TTGGCACCTT
*
109008 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-CATCTT-CATCTTTAAGTCCA
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCA
109071 ATGTAGCTGGCCTTGAATCAGCACATTGG
66 ATGTAGCTGGCCTTGAATCAGCACATTGG
* *
109100 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-ACATCTTCCATCTTTAAGTCC
109165 AATGTAGCTGGCCTTGAATCAGCAC
65 AATGTAGCTGGCCTTGAATCAGCAC
109190 GTTGACATCC
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
92 42 0.50
94 5 0.06
95 37 0.44
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (94 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCA
ATGTAGCTGGCCTTGAATCAGCACATTGG
Found at i:109232 original size:55 final size:55
Alignment explanation
Indices: 109103--109486 Score: 264
Period size: 67 Copynumber: 6.7 Consensus size: 55
109093 ACATTGGCAC
* *
109103 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
109155 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
109210 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
109274 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
109326 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * *
109381 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
109446 AT
54 AT
* *
109448 CTTTAAGTCCAATATTGCTGGTCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
109487 GCACCTTCAT
Statistics
Matches: 256, Mismatches: 43, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
49 36 0.14
50 1 0.00
52 42 0.16
54 8 0.03
55 64 0.25
56 2 0.01
57 2 0.01
58 2 0.01
59 1 0.00
61 8 0.03
62 6 0.02
63 5 0.02
64 7 0.03
66 4 0.02
67 68 0.27
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:109393 original size:171 final size:171
Alignment explanation
Indices: 109103--109497 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
109093 ACATTGGCAC
*
109103 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
109168 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
109233 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
109277 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
109342 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
109407 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* * *
109448 CTTTAAGTCCAATATTGCTGGTCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
109498 ATCTCTAAAA
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 169 0.80
172 5 0.02
174 38 0.18
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:110332 original size:33 final size:33
Alignment explanation
Indices: 110295--110361 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
110285 TTCAACGATT
110295 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
110328 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
110361 T
1 T
110362 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:110333 original size:13 final size:13
Alignment explanation
Indices: 110315--110339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110305 CATAAAATGT
110315 TGTATCGATACAA
1 TGTATCGATACAA
110328 TGTATCGATACA
1 TGTATCGATACA
110340 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:110422 original size:13 final size:13
Alignment explanation
Indices: 110404--110428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110394 ATTACTCACA
110404 TGTATCGATACAT
1 TGTATCGATACAT
110417 TGTATCGATACA
1 TGTATCGATACA
110429 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:110617 original size:52 final size:52
Alignment explanation
Indices: 110437--110609 Score: 328
Period size: 52 Copynumber: 3.3 Consensus size: 52
110427 CACTGATCTT
110437 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
110489 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
110541 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
110593 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
110610 ATAAATTTTC
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:113789 original size:21 final size:21
Alignment explanation
Indices: 113760--113804 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
113750 AAGTTTTCAT
*
113760 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
113780 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
113802 TTT
1 TTT
113805 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:116037 original size:13 final size:13
Alignment explanation
Indices: 116019--116044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116009 CAATTTTTTG
116019 TGTATCGATACAT
1 TGTATCGATACAT
116032 TGTATCGATACAT
1 TGTATCGATACAT
116045 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:116658 original size:20 final size:20
Alignment explanation
Indices: 116633--116700 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
116623 AAACTTCCTA
116633 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
116653 GATGTATCGATAC----A--
1 GATGTATCGATACAAAGATC
116667 -ATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
116686 GATGTATCGATACAA
1 GATGTATCGATACAA
116701 TGTATCGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.29
16 1 0.02
17 1 0.02
20 27 0.66
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (20 bp):
GATGTATCGATACAAAGATC
Found at i:116672 original size:13 final size:13
Alignment explanation
Indices: 116654--116712 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
116644 ACAAAGATCG
116654 ATGTATCGATACA
1 ATGTATCGATACA
116667 ATGTATCGATACA
1 ATGTATCGATACA
*
116680 A---A--GAT-CG
1 ATGTATCGATACA
116687 ATGTATCGATACA
1 ATGTATCGATACA
116700 ATGTATCGATACA
1 ATGTATCGATACA
116713 TTTCCTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 3 0.08
13 28 0.74
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:116676 original size:33 final size:33
Alignment explanation
Indices: 116634--116712 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
116624 AACTTCCTAG
116634 ATGTATCGATACAAAGATCGATGTATCGATACA
1 ATGTATCGATACAAAGATCGATGTATCGATACA
116667 ATGTATCGATACAAAGATCGATGTATCGATACA
1 ATGTATCGATACAAAGATCGATGTATCGATACA
116700 ATGTATCGATACA
1 ATGTATCGATACA
116713 TTTCCTTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCGATGTATCGATACA
Found at i:116723 original size:21 final size:21
Alignment explanation
Indices: 116699--116740 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
116689 GTATCGATAC
116699 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
116720 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
116741 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:116798 original size:32 final size:32
Alignment explanation
Indices: 116635--116829 Score: 132
Period size: 32 Copynumber: 6.0 Consensus size: 32
116625 ACTTCCTAGA
* *
116635 TGTATCGATACAAAGA-TCGATGTATCGATACAA
1 TGTATCGATACAAA-ACT-TATGTATCGATACAT
* *
116668 TGTATCGATACAAAGA-TCGATGTATCGATACAA
1 TGTATCGATACAAA-ACT-TATGTATCGATACAT
***
116701 TGTATCGATACATTTCCTTAATGTATCGATACA-
1 TGTATCGATACA-AAACTT-ATGTATCGATACAT
** * * * *
116734 T-T-TCCTTGGCAGTAGCTT-TGTAGCGATACAT
1 TGTATCGAT-ACA-AAACTTATGTATCGATACAT
116765 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
* * *
116797 TGTATCAATACAATACTTATGTATCGTTACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
116829 T
1 T
116830 TTCTGTTTGT
Statistics
Matches: 134, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
30 11 0.08
31 8 0.06
32 52 0.39
33 49 0.37
34 14 0.10
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:116913 original size:21 final size:21
Alignment explanation
Indices: 116887--116942 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
116877 GTTGGGACCT
116887 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
116908 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
116929 TTTATCGATACATT
1 TGTATCGATACATT
116943 TGGATAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:120435 original size:26 final size:26
Alignment explanation
Indices: 120399--120451 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
120389 AACCCAATTT
120399 TGACCTTTTCATGCATTTTAGAGACA
1 TGACCTTTTCATGCATTTTAGAGACA
120425 TGACCTTTTCATGCATTTTAGAGACA
1 TGACCTTTTCATGCATTTTAGAGACA
120451 T
1 T
120452 AGTCAGGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (26 bp):
TGACCTTTTCATGCATTTTAGAGACA
Found at i:124951 original size:20 final size:20
Alignment explanation
Indices: 124926--125050 Score: 72
Period size: 20 Copynumber: 5.7 Consensus size: 20
124916 TTTTAACTAG
124926 ATGTATCGATACATTGAAAT
1 ATGTATCGATACATTGAAAT
124946 ATGTATCGATACATCTAGGTAAAAAGAT
1 ATGTATCGATACAT-T--G----AA-AT
* *
124974 AGAATGTATCAATACATCGAAGA-
1 ---ATGTATCGATACATTGAA-AT
* * *
124997 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAT
* *
125017 ATATATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAT
125037 ATGTATCGATACAT
1 ATGTATCGATACAT
125051 CTGGGTACTT
Statistics
Matches: 82, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
19 1 0.01
20 57 0.70
21 1 0.01
23 1 0.01
24 4 0.05
27 2 0.02
28 3 0.04
31 13 0.16
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAT
Found at i:128613 original size:21 final size:21
Alignment explanation
Indices: 128587--128645 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
128577 AAAGGTATCT
128587 TTGGATGAAATG-ATGCATTAG
1 TTGGATGAAA-GAATGCATTAG
**
128608 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAGAATGCATTAG
*
128629 TTGGATGAAAAAATGCA
1 TTGGATGAAAGAATGCA
128646 ACTTTTACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.32
Consensus pattern (21 bp):
TTGGATGAAAGAATGCATTAG
Found at i:128651 original size:21 final size:21
Alignment explanation
Indices: 128608--128651 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
128598 GATGCATTAG
* **
128608 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAAAATGCAACTT
128629 TTGGATGAAAAAATGCAACTT
1 TTGGATGAAAAAATGCAACTT
128650 TT
1 TT
128652 ACTAACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Done.