Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold434
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: 307070
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 3
Found at i:55 original size:17 final size:21
Alignment explanation
Indices: 1--45 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
1 AAAT-TGTATCGATACATCAA
1 AAATATGTATCGATACATCAA
21 AAATATGTATCGATACATCAA
1 AAATATGTATCGATACATCAA
42 AAAT
1 AAAT
46 TATCATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (21 bp):
AAATATGTATCGATACATCAA
Found at i:1296 original size:33 final size:32
Alignment explanation
Indices: 1229--1336 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 32
1219 TTCTCAAGTC
* *
1229 CACCATTTTTCTTTCAAAAG-CCCAAACTCCGTGG
1 CACC-TTTTTCTTTC--AAGTCCAAAACTCTGTGG
1263 CACCATTTTTCCTTT-AAGTCCAAAACTCTGTGG
1 CACC-TTTTT-CTTTCAAGTCCAAAACTCTGTGG
* *
1296 CACCTGTTTCTTTCAAGTCCACAACTCTGTGG
1 CACCTTTTTCTTTCAAGTCCAAAACTCTGTGG
* *
1328 TACCCTTTT
1 CACCTTTTT
1337 AAGTCCATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
31 4 0.06
32 30 0.47
33 16 0.25
34 10 0.16
35 4 0.06
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (32 bp):
CACCTTTTTCTTTCAAGTCCAAAACTCTGTGG
Found at i:1367 original size:26 final size:26
Alignment explanation
Indices: 1275--1532 Score: 261
Period size: 26 Copynumber: 9.6 Consensus size: 26
1265 CCATTTTTCC
*
1275 TTTAAGTCCAAAACTCTGTGGCACCTGTTT
1 TTTAAGTCCACAACTCTGTGGCACC----T
*
1305 CTTTCAAGTCCACAACTCTGTGGTACCCT
1 -TTT-AAGTCCACAACTCTGTGGCA-CCT
* *
1334 TTTAAGTCCATAACTTTGTGGCACCT
1 TTTAAGTCCACAACTCTGTGGCACCT
*
1360 TTTAAGTCCACAACTCTATGGCATCC-
1 TTTAAGTCCACAACTCTGTGGCA-CCT
* *
1386 TTTAAGTCCACAACTCTATGGCACTT
1 TTTAAGTCCACAACTCTGTGGCACCT
1412 TTTAAGTCCACAACTCTGTGGCACCCT
1 TTTAAGTCCACAACTCTGTGGCA-CCT
* *
1439 TTTAAG-CCACAACTCCGTGACACCT
1 TTTAAGTCCACAACTCTGTGGCACCT
* *
1464 TTTAAGTTCACAACTCTGTGACACCTT
1 TTTAAGTCCACAACTCTGTGGCACC-T
* * *
1491 TTTAAGTACACAACT-TCATGGCACCC
1 TTTAAGTCCACAACTCT-GTGGCACCT
*
1517 TTTAAGTCCATAACTC
1 TTTAAGTCCACAACTC
1533 CATGGCATTT
Statistics
Matches: 197, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.05
26 112 0.57
27 48 0.24
28 3 0.02
29 1 0.01
31 3 0.02
32 18 0.09
33 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (26 bp):
TTTAAGTCCACAACTCTGTGGCACCT
Found at i:1539 original size:105 final size:105
Alignment explanation
Indices: 1305--1532 Score: 291
Period size: 105 Copynumber: 2.2 Consensus size: 105
1295 GCACCTGTTT
* * ** *
1305 CTTTCAAGTCCACAACTCTGTGGTACCCTTTTAAGTCCATAACTTTGTGGCACCTTTTAAGTCCA
1 CTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCTTTTAAGTCCA
* * *
1370 CAACTCTATGGCATCCTTTAAGTCCACAACTCTATGGCACT
65 CAACTCTATGACATCCTTTAAGTACACAACTCTATGGCACC
* *
1411 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAG-CCACAACTCCGTGACACCTTTTAAGTTCAC
1 CTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCTTTTAAGTCCAC
*
1475 AACTCTGTGACA-CCTTTTTAAGTACACAACT-TCATGGCACC
66 AACTCTATGACATCC--TTTAAGTACACAACTCT-ATGGCACC
*
1516 CTTTAAGTCCATAACTC
1 CTTTAAGTCCACAACTC
1533 CATGGCATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
103 2 0.02
104 36 0.34
105 65 0.61
106 3 0.03
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (105 bp):
CTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCTTTTAAGTCCAC
AACTCTATGACATCCTTTAAGTACACAACTCTATGGCACC
Found at i:1669 original size:34 final size:32
Alignment explanation
Indices: 1517--2677 Score: 405
Period size: 34 Copynumber: 36.9 Consensus size: 32
1507 CATGGCACCC
* ** *
1517 TTTAAGTCCATAACTCCATGGCATTTTTTTCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * ** *
1549 TTTCAAAGCCCACAATTCTGTGGCACCCTTTTTTTCT
1 TTT--AAGTCCACAACTCCATGGCA-CC--TTTTCCT
* * *
1586 TTTAAGTCTACAACTCCATGGCACTTTTTTCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* *
1618 TTTCAAAGCCCATAACTCCATGGCACCCTTTTCCCT
1 TTT--AAGTCCACAACTCCATGGCA-CCTTTT-CCT
* * *
1654 TTTAAGTCCACAACTCCGT-GCACATTTCCCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* **
1685 TTTAAGTTCACAACTCTGTGGCACC---T--T
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
*
1712 TTT-AGTCTACAACTCCATGGCA-C----CCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
*
1738 TTTAAGTCCACAACTCCGTGGCA-C----CC-
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * *
1764 TTTAAGTCTACAACTCCGTGGCACCTTTTTCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * *
1796 TTTCAAAGCCCAC-ACTTCGTGGCACTCTTTTTTCCT
1 TTT--AAGTCCACAACTCCATGGCAC-C--TTTTCCT
* * * * * *
1832 TTTAAGTCCATAACTTCGTGGTATCTTTTCTT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * ** *
1864 TTTAAAGCCCATAACTCTGTCGCACCCTTTTCCCT
1 TTT-AAGTCCACAACTCCATGGCA-CCTTTT-CCT
** * ** *
1899 TTTTTGTCTACAACTCTGTGGCA------CCA
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
1925 TTTAAGTCCACAACTCCATGGCACCTTTTTTTCCT
1 TTTAAGTCCACAACTCCATGGCACC---TTTTCCT
1960 TTTAAGTCCACAACTCCATGGCA-C----CC-
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * *
1986 TTTAAGTCCATAACTCCGTGGCACCTTTTTCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* *
2018 TTTCAAAG-CCACAACTTCGTGGCACCGTTTTTCCT
1 TTT--AAGTCCACAACTCCATGGCACC--TTTTCCT
* * * *
2053 TTTAAGGTCCATAACTTCGTGGCACCTTTTTCT
1 TTTAA-GTCCACAACTCCATGGCACCTTTTCCT
* *
2086 TTTCAAAGCCCAGAACTCCATGGCA------CC-
1 TTT--AAGTCCACAACTCCATGGCACCTTTTCCT
* **
2113 TTTAAGACCACAACTCTGTGGCAGCC---T-C-
1 TTTAAGTCCACAACTCCATGGCA-CCTTTTCCT
*
2141 -TTAAGTCCACAACTCCATGGCACCTTTT-TT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * *
2171 TTTCAAAGCCCATAACTCCATGGCACCCTTATCCCT
1 TTT--AAGTCCACAACTCCATGGCA-CCTT-TTCCT
* * * *
2207 TTTAAGTCCATAACTTCGTGTCACC--TTCCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * * *
2237 TTTAAGTCCATAAGTCCGTAGCACCTTTTCCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
***
2269 TTTAAGTCCACAACTTTGTGGCA------CC-
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
2294 TTTAAGTCCACAACTCCATGGCA-C----CCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
*** *
2321 TTTAAGTCCACAACTTTGTAGCA-C----CC-
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* *
2347 TTTAAGTCCACAATTCAATGGCACCTTGTT-CT
1 TTTAAGTCCACAACTCCATGGCACCTT-TTCCT
*
2379 TTTCAAAGCCCACAACTCCATGGCACCATTTTTTCCT
1 TTT--AAGTCCACAACTCCATGGCACC---TTTTCCT
* * * *
2416 TTTAAATCCATAACTCCATGGCATCTTTTTCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * *
2448 TTTCAAAGCCCATAACTCCATCGCACCTTTTTTCCT
1 TTT--AAGTCCACAACTCCATGGCACC--TTTTCCT
* * * **
2484 TTTATGTCCATAACTCCATGGCATCTTTTTTT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * *
2516 TTTCAAAGCCCATAACTCCATCGCACCTTTTCCCCT
1 TTT--AAGTCCACAACTCCATGGCACCTTTT--CCT
* *
2552 TTTATGTCCATAACTCCATGGCA-C----CCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* * *
2579 TTTAAGTCCACAACTCTATGGCACATTTTTCT
1 TTTAAGTCCACAACTCCATGGCACCTTTTCCT
* *
2611 TTTCAAAGCCCACAACTCCGTGGCACCTCTTTTTCCT
1 TTT--AAGTCCACAACTCCATGGCA-C-C-TTTTCCT
* *
2648 TTTAAGTCCATAACTCCATAGCACCCTTTT
1 TTTAAGTCCACAACTCCATGGCA-CCTTTT
2678 AAGTCTACAA
Statistics
Matches: 872, Mismatches: 157, Indels: 199
0.71 0.13 0.16
Matches are distributed among these distances:
25 37 0.04
26 106 0.12
27 96 0.11
28 2 0.00
29 1 0.00
30 25 0.03
31 25 0.03
32 84 0.10
33 81 0.09
34 230 0.26
35 126 0.14
36 33 0.04
37 26 0.03
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (32 bp):
TTTAAGTCCACAACTCCATGGCACCTTTTCCT
Found at i:1738 original size:27 final size:27
Alignment explanation
Indices: 1650--1793 Score: 159
Period size: 26 Copynumber: 5.3 Consensus size: 27
1640 GCACCCTTTT
* *
1650 CCCTTTTAAGTCCACAACTCCGTGCACA
1 CCCTTTTAAGTCTACAACTCCGTG-GCA
*
1678 TTTCCCTTTTAAGT-TCACAACTCTGTGGCA
1 ---CCCTTTTAAGTCT-ACAACTCCGTGGCA
* *
1708 -CCTTTTTAGTCTACAACTCCATGGCA
1 CCCTTTTAAGTCTACAACTCCGTGGCA
*
1734 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCTACAACTCCGTGGCA
1761 CCC-TTTAAGTCTACAACTCCGTGGCA
1 CCCTTTTAAGTCTACAACTCCGTGGCA
*
1787 CCTTTTT
1 CCCTTTT
1794 CTTTTCAAAG
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 45 0.46
27 30 0.31
30 2 0.02
31 21 0.21
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (27 bp):
CCCTTTTAAGTCTACAACTCCGTGGCA
Found at i:1750 original size:53 final size:53
Alignment explanation
Indices: 1681--1793 Score: 172
Period size: 53 Copynumber: 2.1 Consensus size: 53
1671 GTGCACATTT
* * * *
1681 CCCTTTTAAGTTCACAACTCTGTGGCACCTTTTTAGTCTACAACTCCATGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAGTCTACAACTCCATGGCA
*
1734 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAGTCTACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAGTCTACAACTCCATGGCA
*
1787 CCTTTTT
1 CCCTTTT
1794 CTTTTCAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (53 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAGTCTACAACTCCATGGCA
Found at i:1752 original size:247 final size:240
Alignment explanation
Indices: 1411--1953 Score: 640
Period size: 247 Copynumber: 2.2 Consensus size: 240
1401 CTATGGCACT
* *
1411 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCACAACTCCGTGACACCTTTTAAGTTCACA
1 TTTTAAGTCCACAACTCCGTGACACCCTTTTAAGCCACAACTCCGTGACACCTTTTAAGTTCACA
** * * * *
1476 ACTCTGTGACACCTTTTTAAGTACACAACTTCATGGCACCCTTTAAGTCCATAACTCCATGGCAT
66 ACTCCATGACACCCTTTTAAGTACACAACTCCATGGCACCCTTTAAGTCCACAACTCCATGGCAC
* * *
1541 TTTTTTCTTTTCAAAGCCCACAATTCTGTGGCACCCTTTTTTTCTTTTAAGTCTACAACTCCATG
131 CTTTTTCTTTTCAAAGCCCACAATTC-GTGGCACCCTTTTTTCCTTTTAAGTCCACAACTCCATG
* *
1606 GCACTTTTTTCTTTTCAAAGCCCATAACTCCATGGCACCCTTTTCCC
195 GCA-TCTTTTCTTTTCAAAGCCCATAACTCCATCGCACCCTTTTCCC
* * * *
1653 TTTTAAGTCCACAACTCCGTGCACATTTCCCTTTTAAGTTCACAACTCTGTGGCACCTTTTTAG-
1 TTTTAAGTCCACAACTCCGTG-ACA---CCCTTTTAAG-CCACAACTCCGTGACACCTTTTAAGT
* * * * *
1717 TCTACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAGTCTACAACTCCG
61 TC-ACAACTCCATGACACCCTTTTAAGTACACAACTCCATGGCACCCTTTAAGTCCACAACTCCA
* * *
1782 TGGCACCTTTTTCTTTTCAAAGCCCACACTTCGTGGCACTCTTTTTTCCTTTTAAGTCCATAACT
125 TGGCACCTTTTTCTTTTCAAAGCCCACAATTCGTGGCACCCTTTTTTCCTTTTAAGTCCACAACT
* * * * **
1847 TCGTGGTATCTTTTCTTTTTAAAGCCCATAACTCTGTCGCACCCTTTTCCC
190 CCATGGCATCTTTTCTTTTCAAAGCCCATAACTCCATCGCACCCTTTTCCC
** * * * * * *
1898 TTTTTTGTCTACAACTCTGTGGCA-CCATTTAAGTCCACAACTCCATGGCACCTTTT
1 TTTTAAGTCCACAACTCCGTGACACCCTTTTAAG-CCACAACTCCGTGACACCTTTT
1954 TTTCCTTTTA
Statistics
Matches: 255, Mismatches: 40, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
240 28 0.11
242 20 0.08
243 2 0.01
244 2 0.01
245 55 0.22
246 46 0.18
247 102 0.40
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (240 bp):
TTTTAAGTCCACAACTCCGTGACACCCTTTTAAGCCACAACTCCGTGACACCTTTTAAGTTCACA
ACTCCATGACACCCTTTTAAGTACACAACTCCATGGCACCCTTTAAGTCCACAACTCCATGGCAC
CTTTTTCTTTTCAAAGCCCACAATTCGTGGCACCCTTTTTTCCTTTTAAGTCCACAACTCCATGG
CATCTTTTCTTTTCAAAGCCCATAACTCCATCGCACCCTTTTCCC
Found at i:1961 original size:61 final size:61
Alignment explanation
Indices: 1891--2015 Score: 169
Period size: 61 Copynumber: 2.0 Consensus size: 61
1881 TGTCGCACCC
** * **
1891 TTTTCCCTTTTTTGTCTACAACTCTGTGGCACCATTTAAGTCCACAACTCCATGGCACCTT
1 TTTTCCCTTTTAAGTCCACAACTCCATGGCACCATTTAAGTCCACAACTCCATGGCACCTT
* * * *
1952 TTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTAAGTCCATAACTCCGTGGCACCTT
1 TTTTCCCTTTTAAGTCCACAACTCCATGGCACCATTTAAGTCCACAACTCCATGGCACCTT
2013 TTT
1 TTT
2016 CTTTTCAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (61 bp):
TTTTCCCTTTTAAGTCCACAACTCCATGGCACCATTTAAGTCCACAACTCCATGGCACCTT
Found at i:1994 original size:26 final size:26
Alignment explanation
Indices: 1960--2010 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1950 TTTTTTTCCT
1960 TTTAAGTCCACAACTCCATGGCACCC
1 TTTAAGTCCACAACTCCATGGCACCC
* *
1986 TTTAAGTCCATAACTCCGTGGCACC
1 TTTAAGTCCACAACTCCATGGCACC
2011 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.25
Consensus pattern (26 bp):
TTTAAGTCCACAACTCCATGGCACCC
Found at i:2127 original size:25 final size:25
Alignment explanation
Indices: 2099--2167 Score: 93
Period size: 27 Copynumber: 2.7 Consensus size: 25
2089 CAAAGCCCAG
2099 AACTCCATGGCACCTTTAAGACCAC
1 AACTCCATGGCACCTTTAAGACCAC
** *
2124 AACTCTGTGGCAGCCTCTTAAGTCCAC
1 AACTCCATGGCA-CCT-TTAAGACCAC
2151 AACTCCATGGCACCTTT
1 AACTCCATGGCACCTTT
2168 TTTTTTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.32
26 6 0.16
27 19 0.51
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (25 bp):
AACTCCATGGCACCTTTAAGACCAC
Found at i:2240 original size:30 final size:29
Alignment explanation
Indices: 2204--2295 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 29
2194 CACCCTTATC
2204 CCTTTTAAGTCCATAACTTCGTGTCACCTT
1 CCTTTTAAGTCCATAACTTCGTG-CACCTT
* *
2234 CCTTTTAAGTCCATAAGTCCGTAGCACCTTTT
1 CCTTTTAAGTCCATAACTTCGT-GCACC--TT
* *
2266 CCTTTTAAGTCCACAACTTTGTGGCACCTT
1 CCTTTTAAGTCCATAACTTCGT-GCACCTT
2296 TAAGTCCACA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
30 26 0.50
31 1 0.02
32 25 0.48
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (29 bp):
CCTTTTAAGTCCATAACTTCGTGCACCTT
Found at i:2293 original size:32 final size:32
Alignment explanation
Indices: 2141--2296 Score: 129
Period size: 32 Copynumber: 4.8 Consensus size: 32
2131 TGGCAGCCTC
* * * *
2141 TTAAGTCCACAACTCCATGGCACCTTTT-TTT
1 TTAAGTCCATAACTTCGTGGCACCTTTTCCTT
* * * *
2172 TTCAAAGCCCATAACTCCATGGCACCCTTATCCCTT
1 TT--AAGTCCATAACTTCGTGGCA-CCTT-TTCCTT
*
2208 TTAAGTCCATAACTTCGTGTCACC--TTCCTT
1 TTAAGTCCATAACTTCGTGGCACCTTTTCCTT
* * *
2238 TTAAGTCCATAAGTCCGTAGCACCTTTTCCTT
1 TTAAGTCCATAACTTCGTGGCACCTTTTCCTT
* *
2270 TTAAGTCCACAACTTTGTGGCACCTTT
1 TTAAGTCCATAACTTCGTGGCACCTTT
2297 AAGTCCACAA
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
30 25 0.25
31 2 0.02
32 28 0.28
33 20 0.20
34 20 0.20
35 1 0.01
36 4 0.04
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (32 bp):
TTAAGTCCATAACTTCGTGGCACCTTTTCCTT
Found at i:2299 original size:154 final size:156
Alignment explanation
Indices: 1953--2323 Score: 429
Period size: 154 Copynumber: 2.4 Consensus size: 156
1943 TGGCACCTTT
** * *
1953 TTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTAAGTCCATAACTCCGTGGCACCTTTTTCT
1 TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAGTCCACAACTCCATGGCACCTTTTTCT
* * * * *
2018 TTTCAAAGCCACAACTTCGTGGCACCGTTTTTCCTTTTAAGGTCCATAACTTCGTGGCACCTTTT
66 TTTCAAAGCCACAACTCCATGGCACCCTTATCCCTTTTAAGGTCCATAACTTCGTGGCACC-TTT
* *
2083 TCTTTTCAAAGCCCAGAACTCCATGGCA
130 CCTTTT-AAAGCCCAGAACTCCATAGCA
* *
2111 ----CC-TTTAAGACCACAACTCTGTGGCAGCCTCTTAAGTCCACAACTCCATGGCACCTTTTT-
1 TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCT-TTAAGTCCACAACTCCATGGCACCTTTTTC
* *
2170 TTTTCAAAGCCCATAACTCCATGGCACCCTTATCCCTTTTAA-GTCCATAACTTCGTGTCACC-T
65 TTTTCAAAG-CCACAACTCCATGGCACCCTTATCCCTTTTAAGGTCCATAACTTCGTGGCACCTT
* * * *
2233 TCCTTTT-AAGTCCATAAGTCCGTAGCA
129 TCCTTTTAAAGCCCAGAACTCCATAGCA
* *
2260 CCTTTTCCTTTTAAGTCCACAACTTTGTGGCA-CCTTTAAGTCCACAACTCCATGGCACCCTTTT
1 --TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAGTCCACAACTCCATGGCACCTTTTT
2324 AAGTCCACAA
Statistics
Matches: 182, Mismatches: 22, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
149 15 0.08
151 7 0.04
153 51 0.28
154 83 0.46
155 5 0.03
156 21 0.12
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (156 bp):
TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAGTCCACAACTCCATGGCACCTTTTTCT
TTTCAAAGCCACAACTCCATGGCACCCTTATCCCTTTTAAGGTCCATAACTTCGTGGCACCTTTC
CTTTTAAAGCCCAGAACTCCATAGCA
Found at i:2300 original size:25 final size:26
Alignment explanation
Indices: 2269--2359 Score: 130
Period size: 27 Copynumber: 3.5 Consensus size: 26
2259 ACCTTTTCCT
2269 TTTAAGTCCACAACTTTGTGGCA-CC
1 TTTAAGTCCACAACTTTGTGGCACCC
***
2294 TTTAAGTCCACAACTCCATGGCACCC
1 TTTAAGTCCACAACTTTGTGGCACCC
*
2320 TTTTAAGTCCACAACTTTGTAGCACCC
1 -TTTAAGTCCACAACTTTGTGGCACCC
2347 TTTAAGTCCACAA
1 TTTAAGTCCACAA
2360 TTCAATGGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
25 20 0.35
26 15 0.26
27 22 0.39
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (26 bp):
TTTAAGTCCACAACTTTGTGGCACCC
Found at i:2332 original size:52 final size:53
Alignment explanation
Indices: 2266--2371 Score: 178
Period size: 52 Copynumber: 2.0 Consensus size: 53
2256 AGCACCTTTT
* *
2266 CCTTTTAAGTCCACAACTTTGTGGCA-CCTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTTTGTAGCACCCTTTAAGTCCACAACTCAATGGCAC
*
2318 CCTTTTAAGTCCACAACTTTGTAGCACCCTTTAAGTCCACAATTCAATGGCAC
1 CCTTTTAAGTCCACAACTTTGTAGCACCCTTTAAGTCCACAACTCAATGGCAC
2371 C
1 C
2372 TTGTTCTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
52 25 0.50
53 25 0.50
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (53 bp):
CCTTTTAAGTCCACAACTTTGTAGCACCCTTTAAGTCCACAACTCAATGGCAC
Found at i:2579 original size:27 final size:27
Alignment explanation
Indices: 2548--2602 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
2538 GCACCTTTTC
* *
2548 CCCTTTTATGTCCATAACTCCATGGCA
1 CCCTTTTAAGTCCACAACTCCATGGCA
*
2575 CCCTTTTAAGTCCACAACTCTATGGCA
1 CCCTTTTAAGTCCACAACTCCATGGCA
2602 C
1 C
2603 ATTTTTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.31
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCATGGCA
Found at i:2608 original size:27 final size:27
Alignment explanation
Indices: 2550--2608 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
2540 ACCTTTTCCC
* * *
2550 CTTTTATGTCCATAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCATGGCACA
*
2577 CTTTTAAGTCCACAACTCTATGGCACA
1 CTTTTAAGTCCACAACTCCATGGCACA
*
2604 TTTTT
1 CTTTT
2609 CTTTTCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.37
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCATGGCACA
Found at i:2616 original size:95 final size:95
Alignment explanation
Indices: 2481--2698 Score: 285
Period size: 95 Copynumber: 2.3 Consensus size: 95
2471 CACCTTTTTT
* * * * *
2481 CCTTTTATGTCCATAACTCCATGGCATCTTTTTTTTTTCAAAGCCCATAACTCCATCGCACCT-T
1 CCTTTTAAGTCCACAACTCTATGGCA-CTTTTTCTTTTCAAAGCCCACAACTCCATCGCACCTCT
* *
2545 TTCCCCTTTTATGTCCATAACTCCATGGCAC
65 TTCCCCTTTTAAGTCCATAACTCCATAGCAC
* *
2576 CCTTTTAAGTCCACAACTCTATGGCACATTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTCT
1 CCTTTTAAGTCCACAACTCTATGGCAC-TTTTTCTTTTCAAAGCCCACAACTCCATCGCACCTCT
**
2641 TTTTCCTTTTAAGTCCATAACTCCATAGCAC
65 TTCCCCTTTTAAGTCCATAACTCCATAGCAC
* * *
2672 CCTTTTAAGTCTACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCTATGGCAC
2699 CTATTCCTTC
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 54 0.50
96 52 0.49
ACGTcount: A:0.22, C:0.32, G:0.10, T:0.36
Consensus pattern (95 bp):
CCTTTTAAGTCCACAACTCTATGGCACTTTTTCTTTTCAAAGCCCACAACTCCATCGCACCTCTT
TCCCCTTTTAAGTCCATAACTCCATAGCAC
Found at i:2889 original size:52 final size:51
Alignment explanation
Indices: 2768--3136 Score: 324
Period size: 52 Copynumber: 7.3 Consensus size: 51
2758 CAGTGGTAAC
* * * **
2768 TCTTCTAAG-CCAATGTCACTAGCCTTGAATTAGCACATTGGCAT-TTTTTT
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTTCA
* *
2818 TC-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT-TCA
*
2869 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-CTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTTCA
* * ** * * *
2918 TCTTTAAGTCTAATGTCACTAACCTTGAATCAGCACACTAGCA-C-CTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTTCA
* * * * * *
2967 TTTTTAAGTCCGATATCGCTGGCCTTGAATCAACATATTGGCATCTTTAACA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT-TCA
* * * * *
3019 T-TCCTAAGCCCTATATTGCTGGCCTTGAATCAGCACATTGGCAT-TTTTCTTA
1 TCT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTTC--A
* * * *
3071 TCTTTAAGTCTAATGTCGCTGGCCGTGAATCAGCACATTGGTATTTTTCTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT-TCA
* *
3123 TCCTTAAGCCCAAT
1 TCTTTAAGTCCAAT
3137 ATCATTAGCC
Statistics
Matches: 259, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
48 4 0.02
49 109 0.42
50 8 0.03
51 9 0.03
52 123 0.47
53 4 0.02
54 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (51 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTTCA
Found at i:3050 original size:150 final size:152
Alignment explanation
Indices: 2779--3107 Score: 423
Period size: 150 Copynumber: 2.2 Consensus size: 152
2769 CTTCTAAGCC
* * * * **
2779 AATGTCACTAGCCTTGAATTAGCACATTGGCATTTTTTTTCTTAAGTCCAATATCGCTGGCCTTG
1 AATGTCACTAGCCTTGAATCAGCACACTAGCACTTCATTTCTTAAGTCCAATATCGCTGGCCTTG
* * * * *
2844 AATCAGCATATTGGCATCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
66 AATCAACATATTGGCATCTTTAACATCTCTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTG
2909 GCA-CCTTC-ATCTTTAAGTCT
131 GCATCCTTCTATCTTTAAGTCT
* *
2929 AATGTCACTAACCTTGAATCAGCACACTAGCACCTTCATTT-TTAAGTCCGATATCGCTGGCCTT
1 AATGTCACTAGCCTTGAATCAGCACACTAGCA-CTTCATTTCTTAAGTCCAATATCGCTGGCCTT
* *
2993 GAATCAACATATTGGCATCTTTAACAT-TCCTAAGCCCTATATTGCTGGCCTTGAATCAGCACAT
65 GAATCAACATATTGGCATCTTTAACATCT-CTAAGCCCAATATCGCTGGCCTTGAATCAGCACAT
**
3057 TGGCATTTTTCTTATCTTTAAGTCT
129 TGGCATCCTTC-TATCTTTAAGTCT
* * *
3082 AATGTCGCTGGCCGTGAATCAGCACA
1 AATGTCACTAGCCTTGAATCAGCACA
3108 TTGGTATTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
149 1 0.01
150 110 0.72
151 8 0.05
153 34 0.22
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (152 bp):
AATGTCACTAGCCTTGAATCAGCACACTAGCACTTCATTTCTTAAGTCCAATATCGCTGGCCTTG
AATCAACATATTGGCATCTTTAACATCTCTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTG
GCATCCTTCTATCTTTAAGTCT
Found at i:4015 original size:20 final size:20
Alignment explanation
Indices: 3950--4021 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
3940 GCCAAGGAAA
* * *
3950 TGTATTGATACATTAATAAA
1 TGTATCGATACATTTATAAT
3970 TGTATCGATACATGCTTCA-AAT
1 TGTATCGATACAT--TT-ATAAT
*
3992 TGTATCGATACATTTATCAT
1 TGTATCGATACATTTATAAT
*
4012 TGTATTGATA
1 TGTATCGATA
4022 TATCTAGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
20 25 0.58
22 16 0.37
23 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTATAAT
Found at i:7902 original size:19 final size:19
Alignment explanation
Indices: 7888--7952 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
7878 AAAATATGTT
7888 ATTATAATAACAATAAGTA
1 ATTATAATAACAATAAGTA
* *
7907 ATTATAATAATAAGTAACTA
1 ATTATAATAACAA-TAAGTA
* * *
7927 TTTAAAATAATAATAAGTA
1 ATTATAATAACAATAAGTA
7946 ATTATAA
1 ATTATAA
7953 CAATATTTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.58
20 16 0.42
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
ATTATAATAACAATAAGTA
Found at i:8138 original size:12 final size:13
Alignment explanation
Indices: 8121--8160 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
8111 TCATAAAAAT
8121 TAAATAATT-TAA
1 TAAATAATTATAA
8133 TAAATAAATTATAA
1 TAAAT-AATTATAA
8147 TAAA-AATTATAA
1 TAAATAATTATAA
8159 TA
1 TA
8161 TTTTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 15 0.58
13 4 0.15
14 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATAATTATAA
Found at i:8199 original size:24 final size:23
Alignment explanation
Indices: 8156--8200 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
8146 ATAAAAATTA
* *
8156 TAATATTTTTTATTATTTTATCG
1 TAATATTTTATATAATTTTATCG
8179 TAATATATTTATATAATTTTAT
1 TAATAT-TTTATATAATTTTAT
8201 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TAATATTTTATATAATTTTATCG
Found at i:8504 original size:2 final size:2
Alignment explanation
Indices: 8497--8527 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8487 ACTCAAGTCT
8497 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8528 TTGTAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16479 original size:43 final size:43
Alignment explanation
Indices: 16414--16498 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
16404 GTGATCAACT
*
16414 TTTTGTTGTTTCTATTTATAAGGCATGGTCTGGATTCCTTCTA
1 TTTTGTTGTTTCTATTCATAAGGCATGGTCTGGATTCCTTCTA
*
16457 TTTTGTTGTTTCTATTCGTAAGGCATGGTCTGGATTCCTTCT
1 TTTTGTTGTTTCTATTCATAAGGCATGGTCTGGATTCCTTCT
16499 CTGCAGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.51
Consensus pattern (43 bp):
TTTTGTTGTTTCTATTCATAAGGCATGGTCTGGATTCCTTCTA
Found at i:17406 original size:2 final size:2
Alignment explanation
Indices: 17399--17429 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17389 CACAAGCTAG
17399 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17430 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17832 original size:33 final size:33
Alignment explanation
Indices: 17764--17829 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
17754 TTGCACTACC
*
17764 ATTTCATAATGACCAACAAATCTCAAAAATATA
1 ATTTCATAATGACCAACAAATCCCAAAAATATA
*
17797 ATTTCATGATGACCAACAAATCCCGAAATAATA
1 ATTTCATAATGACCAACAAATCCC-AAA-AATA
17830 ATTCTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 22 0.76
34 3 0.10
35 4 0.14
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (33 bp):
ATTTCATAATGACCAACAAATCCCAAAAATATA
Found at i:18107 original size:25 final size:25
Alignment explanation
Indices: 18056--18107 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
18046 ACAAGTCATT
* * **
18056 TAATCTATTTATTTTTAATTATTAA
1 TAATCTATTTATTTTAAATAAAAAA
*
18081 TAATTTATTTATTTTAAATAAAAAA
1 TAATCTATTTATTTTAAATAAAAAA
18106 TA
1 TA
18108 TATAATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TAATCTATTTATTTTAAATAAAAAA
Found at i:18297 original size:18 final size:18
Alignment explanation
Indices: 18262--18296 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
18252 GATTATTAGG
18262 TAAAAAAATAAAAGAAAA
1 TAAAAAAATAAAAGAAAA
18280 TAAAAAAA-AAAAGAAAA
1 TAAAAAAATAAAAGAAAA
18297 AAGAGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (18 bp):
TAAAAAAATAAAAGAAAA
Found at i:18944 original size:21 final size:21
Alignment explanation
Indices: 18890--18944 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
18880 TTTAGAACAA
18890 AGAATTAGAG-AGAAGAATAG
1 AGAATTAGAGAAGAAGAATAG
*
18910 AGAATTTGGAGAAGAA-AATAG
1 AGAA-TTAGAGAAGAAGAATAG
18931 AGAATTAGATGAAG
1 AGAATTAGA-GAAG
18945 GAAAGGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.27
21 18 0.60
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (21 bp):
AGAATTAGAGAAGAAGAATAG
Found at i:20169 original size:15 final size:16
Alignment explanation
Indices: 20135--20172 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20125 TCTCTCATAT
**
20135 AAAAAATTGTAAATAG
1 AAAAAATTAAAAATAG
20151 AAAAAATTAAAAATA-
1 AAAAAATTAAAAATAG
20166 AAAAAAT
1 AAAAAAT
20173 ATTAACAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAAAATTAAAAATAG
Found at i:28452 original size:23 final size:23
Alignment explanation
Indices: 28425--28468 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
28415 CTATTCAAGT
28425 ATCACTATTCATGTATCGATAAA
1 ATCACTATTCATGTATCGATAAA
28448 ATCACTATTCATGTATCGATA
1 ATCACTATTCATGTATCGATA
28469 CATTGTATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATCACTATTCATGTATCGATAAA
Found at i:28477 original size:13 final size:13
Alignment explanation
Indices: 28459--28500 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
28449 TCACTATTCA
28459 TGTATCGATACAT
1 TGTATCGATACAT
*
28472 TGTATCGATACAG
1 TGTATCGATACAT
*
28485 TATATCGATACAT
1 TGTATCGATACAT
28498 TGT
1 TGT
28501 GAATAGTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31664 original size:2 final size:2
Alignment explanation
Indices: 31659--31691 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31649 ATAAAAAATC
31659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31692 AGGATCTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32062 original size:2 final size:2
Alignment explanation
Indices: 32055--32084 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32045 ACTTTTCTTC
32055 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32085 AAATACATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33524 original size:18 final size:18
Alignment explanation
Indices: 33503--33537 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33493 TGAAATAATT
33503 AAAATATAAT-ATAATATG
1 AAAA-ATAATAATAATATG
33521 AAAAATAATAATAATAT
1 AAAAATAATAATAATAT
33538 AATACAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATAATAATAATATG
Found at i:34063 original size:3 final size:3
Alignment explanation
Indices: 34055--34096 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
34045 ATGGCAGGAA
34055 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34097 GAGAAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35388 original size:2 final size:2
Alignment explanation
Indices: 35366--35533 Score: 126
Period size: 2 Copynumber: 93.0 Consensus size: 2
35356 TAATTTTTTT
*
35366 TA TA T- TA TA T- TA TA T- TA TA TA TA T- TA TG T- TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
35402 TA TA TA T- TA -A TA TA AA TA TA TA TA AA TA -A CTA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
35442 TA TA TA TA TGA TA -A TA TA -A TA -A TA TA TA -A TA TA TA -A TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35480 TA -A TA -A TA TA -A TA -A TA TA TA TA GTA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
*
35518 CA TA -A TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
35534 ACATATAATA
Statistics
Matches: 135, Mismatches: 7, Indels: 48
0.71 0.04 0.25
Matches are distributed among these distances:
1 21 0.16
2 109 0.81
3 5 0.04
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:35406 original size:5 final size:5
Alignment explanation
Indices: 35365--35399 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
35355 GTAATTTTTT
*
35365 TTATA TTATA TTATA TTATA -TATA TTATG TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
35400 ATTATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:35540 original size:30 final size:29
Alignment explanation
Indices: 35411--35544 Score: 147
Period size: 30 Copynumber: 4.7 Consensus size: 29
35401 TTATATATTA
35411 ATATA-AATATATATAA-ATAACT-ATATAT
1 ATATATAATATA-ATAATATAA-TAATATAT
*
35439 ATATATATATATGATAATATAATAATATAT
1 ATATATA-ATATAATAATATAATAATATAT
35469 AATATATAATATAATAATATAATAATATAT
1 -ATATATAATATAATAATATAATAATATAT
35499 ATAGTAT-ATATAAT-ATATACATAATA-AT
1 ATA-TATAATATAATAATATA-ATAATATAT
*
35527 ATATATAACAT-ATAATAT
1 ATATATAATATAATAATAT
35545 TTTATTTATT
Statistics
Matches: 94, Mismatches: 3, Indels: 18
0.82 0.03 0.16
Matches are distributed among these distances:
27 5 0.05
28 22 0.23
29 22 0.23
30 38 0.40
31 7 0.07
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (29 bp):
ATATATAATATAATAATATAATAATATAT
Found at i:39167 original size:89 final size:89
Alignment explanation
Indices: 39014--41358 Score: 2659
Period size: 89 Copynumber: 26.5 Consensus size: 89
39004 TCTGTCATAT
* * * * *
39014 CATTAGTCAAATATTTTCTGTTGTGTCAGAAAGAATCTGATACCCGTATGCATTTGTCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
39079 TCGGGTTTCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * *
39103 AATTAGTCAAATATTTTATATCGTGTTAGAAAGAATCTGATACTCGCATGTATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
*
39168 TCGGGTTTCAAGAAATTTATCAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* *
39192 CATTAGTCAAATATTTTATATCGTGTCAG-AAGAAATCTGATACCCGCATCCATCTGTCACATCT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAG-AATCTGATACCCGCATGCATCTGTCACATCT
* *
39256 TTTGGGTTCCAAGAAATTTATTAGG
65 TTCGGGTTTCAAGAAATTTATTAGG
* * * *
39281 TATTAGTCAAATATTTTCTGTCGTGTCA-AAAGGAATCTGATACCCGCATCCATCTATCACATCT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAA-GAATCTGATACCCGCATGCATCTGTCACATCT
* * *
39345 TTGGGGTTCCAATAAATTTATTAGG
65 TTCGGGTTTCAAGAAATTTATTAGG
* * * * *
39370 CATTAGTTAAATATTTTCTGTCGTGTTAGAAAGAATCTGATACCCGCATCCATCTGTCACATATT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
39435 TCGGGTTTCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* *
39459 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCAGATACCCTGCATGCATCTGTCACATCT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCC-GCATGCATCTGTCACATCT
*
39524 TTCGAGTTTCAAGAAATTTATTAGG
65 TTCGGGTTTCAAGAAATTTATTAGG
* * * *
39549 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCGGATACTCACATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* *
39614 TCGGGTTTTAAGAAATTTATTAAG
66 TCGGGTTTCAAGAAATTTATTAGG
* ** * * *
39638 CATTAGTCAAATATTTTATATTTTGTTAG-AAGAAATCTGATACTCGTATGCATCTGTCACATCT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAG-AATCTGATACCCGCATGCATCTGTCACATCT
*
39702 TTCGGG-TTCTAAGAAATTTATTAGA
65 TTCGGGTTTC-AAGAAATTTATTAGG
* * * * * * * *
39727 CATTAGTAAAATATTTTATAACGTGCCAGAAGGAATCTGATACCCGTATGCATCTATCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* * *
39792 TTGGGTTCCAAGAAATTTATTAGA
66 TCGGGTTTCAAGAAATTTATTAGG
* * *
39816 CATTAGTCAAATATTTTCTATCGTGT----TAGAATCTGATACCC-CTATGTATCTATCACATCT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGC-ATGCATCTGTCACATCT
* *
39876 TTTGGGTTTCAAGAAATTTATTAGA
65 TTCGGGTTTCAAGAAATTTATTAGG
* * *
39901 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCCTGCATCTGTCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* * *
39966 TCGAG-TTGAAGAAATTTATTTGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * * *
39989 CATTAGTCAAATATTTTCTGTTGTGTTAGAAGGAATCTGATACCCACATCCATCTATCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
*
40054 TCGGGTTTCAAGAAATTTATTAAG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * *
40078 CATTAGACAAATATTTTTTGTCGTGTCAGAAAGAATATGATACCTGCATGCATCTATCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* * * *
40143 TCGGATTCCAAAAAATTTATTAGA
66 TCGGGTTTCAAGAAATTTATTAGG
* **
40167 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATATCCTACATGCATCTGTCACATCT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATA-CCCGCATGCATCTGTCACATCT
* * *
40232 TTCGAGTTCCAAGAAATTTATTAAG
65 TTCGGGTTTCAAGAAATTTATTAGG
* * * * * *
40257 TATTAGTAAAATATTTTCTATCGTATCAGAAAGAATTTGATACTCGCATGCATCGGTCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
*
40322 TCGGGTTTCAAGAAATTTATTAAG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * * **
40346 CATTAGTCAAATATTTTATATTGTCTCAGAAGGAATCTGACACTCGCATATATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* * *
40411 TGGGGTTTTAAAAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
** * * * * *
40435 CATTAGTCAAATATTTTAAATTGTGTCAG-AAGTAATCTAATACTCGCATGTATCTATCACATCT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAG-AATCTGATACCCGCATGCATCTGTCACATCT
*
40499 TTCGAG-TTCTAAGAAATTTATTAGG
65 TTCGGGTTTC-AAGAAATTTATTAGG
* * * *
40524 TATTAGTCAAATATTTTCTGTCGTGTTAGAAAGAATCTGATACCCGTATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
*
40589 TCGGGTTTCAAGAAATTTGTTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * *
40613 CATTAGTCAAATATTTTATATCATGTCAGAAGGAATTTGATACCCGCATCCATCTGTCAAATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
*
40678 TCGGGTTCCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * * * *
40702 CATTAGTCAAATATTTTTTATCGTATCAAAAAGAATCTAATACCCGCATGCATTTATCATATTTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* *
40767 TTGGGTTTCAAGAAATTTATTCGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * *
40791 CATTAGTCAAATATTTTCTATCGTGTGAAAAAGAATTTGATACCCGCATGTATCTATCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
** * * *
40856 TCGAATTCCAAAAAATTTATTAGA
66 TCGGGTTTCAAGAAATTTATTAGG
* * *
40880 CATT-GTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATACATCTATCACAT-TT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* *
40943 TCGAG-TTCAAAAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * *
40966 CATTAATCAAATATTTTTTGAT-GTGTCAGAAAGAATCTGATACCCGCATGCATCTATTATATCT
1 CATTAGTCAAATATTTTCT-ATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCT
* *
41030 TTCGAGTTTCAAGAAATTTATTAGA
65 TTCGGGTTTCAAGAAATTTATTAGG
* * * *
41055 CATTAGTCAAATATTTTTTGTCGTGTCAGAAAGAATCTGATACACGCATGCATCTGTCACATTTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* *
41120 TCGAG-TTCTAAGAAATATATTAGG
66 TCGGGTTTC-AAGAAATTTATTAGG
* * * ** * * * * * * *
41144 TATTAATCAAATATTTTCTGTTATGTTAGTAGGAATCTGATA--CTC--GCATCTATCACTTTTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* * *
41205 TCAGGTTCCAAAAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * * * *
41229 CATTAATCAAATATTTTATATCATGTCAAAAAGAATTTGATACTCGCATGTATCTCTCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
* * *
41294 TTGAGTTTCAAGAATTTTAATTTA--
66 TCGGGTTTCAAGAAATTT-A-TTAGG
* *
41318 TATTAATCAAATATTTTCTATCGTGTCAG-AAGAAATCTGAT
1 CATTAGTCAAATATTTTCTATCGTGTCAGAAAG-AATCTGAT
41359 CTAATAAATT
Statistics
Matches: 1936, Mismatches: 285, Indels: 70
0.85 0.12 0.03
Matches are distributed among these distances:
85 140 0.07
86 22 0.01
87 59 0.03
88 154 0.08
89 1381 0.71
90 177 0.09
91 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (89 bp):
CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
TCGGGTTTCAAGAAATTTATTAGG
Found at i:41444 original size:7 final size:7
Alignment explanation
Indices: 41429--41560 Score: 102
Period size: 7 Copynumber: 19.6 Consensus size: 7
41419 AATAAATAAA
41429 ATATTAT
1 ATATTAT
*
41436 ATGTTAT
1 ATATTAT
41443 AT-TATAT
1 ATAT-TAT
*
41450 ATATTTT
1 ATATTAT
41457 ATATTAT
1 ATATTAT
41464 ATATTAT
1 ATATTAT
41471 -TA-TATT
1 ATATTA-T
41477 ATATTAT
1 ATATTAT
*
41484 ATTTTTAT
1 A-TATTAT
*
41492 ATATCAT
1 ATATTAT
41499 ATA-TAT
1 ATATTAT
*
41505 CTATTAT
1 ATATTAT
41512 ATA-TAT
1 ATATTAT
*
41518 TTA-TAT
1 ATATTAT
*
41524 -TAATAT
1 ATATTAT
41530 ATATTAT
1 ATATTAT
41537 ATATTAT
1 ATATTAT
41544 ATA-TAT
1 ATATTAT
41550 AT-TATAT
1 ATAT-TAT
41557 ATAT
1 ATAT
41561 AACATATAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.04
6 24 0.24
7 64 0.63
8 10 0.10
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.58
Consensus pattern (7 bp):
ATATTAT
Found at i:41452 original size:2 final size:2
Alignment explanation
Indices: 41440--41561 Score: 99
Period size: 2 Copynumber: 67.0 Consensus size: 2
41430 TATTATATGT
*
41440 TA TA T- TA TA TA TA T- TT TA TA T- TA TA TA T- TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
41476 TA TA T- TA TA TT TT TA TA TA TCA TA TA TA TC TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
*
41517 TT TA TA T- TA -A TA TA TA T- TA TA TA T- TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41554 TA TA TA TA
1 TA TA TA TA
41562 ACATATAATT
Statistics
Matches: 99, Mismatches: 7, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
1 13 0.13
2 84 0.85
3 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:41477 original size:43 final size:42
Alignment explanation
Indices: 41429--41561 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 42
41419 AATAAATAAA
41429 ATATTATATGTTATATTATATATATTTTATATTATATATTATT
1 ATATTATAT-TTATATTATATATATTTTATATTATATATTATT
* * * *
41472 ATATTATA-TTATATT-TTTATATATCATA-TATAT-CTATT
1 ATATTATATTTATATTATATATATTTTATATTATATATTATT
*
41510 ATA-TATATTTATATTAATATATATTATATATTATATATATATT
1 ATATTATATTTATATT-ATATATATTTTATATTATATAT-TATT
41553 ATATATATA
1 ATAT-TATA
41562 ACATATAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
37 4 0.05
38 14 0.19
39 5 0.07
40 19 0.26
41 12 0.16
43 15 0.21
45 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (42 bp):
ATATTATATTTATATTATATATATTTTATATTATATATTATT
Found at i:41689 original size:19 final size:20
Alignment explanation
Indices: 41667--41709 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
41657 GGAGTTTTTC
41667 TTTTTTA-AATTTTTAATTT
1 TTTTTTACAATTTTTAATTT
*
41686 TTTTTTACAATTTTTTATTT
1 TTTTTTACAATTTTTAATTT
41706 TTTT
1 TTTT
41710 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTACAATTTTTAATTT
Found at i:41690 original size:20 final size:21
Alignment explanation
Indices: 41662--41709 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
41652 TAAAAGGAGT
41662 TTTTCTTTTTTA-AATTTTTAA
1 TTTT-TTTTTTACAATTTTTAA
*
41683 -TTTTTTTTTACAATTTTTTA
1 TTTTTTTTTTACAATTTTTAA
41703 TTTTTTT
1 TTTTTTT
41710 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 11 0.46
21 6 0.25
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTACAATTTTTAA
Found at i:41715 original size:18 final size:19
Alignment explanation
Indices: 41667--41716 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
41657 GGAGTTTTTC
*
41667 TTTTTT-AAATTTTTAATTT
1 TTTTTTAAAATTTTT-ATAT
*
41686 TTTTTTACAATTTTT-TAT
1 TTTTTTAAAATTTTTATAT
41704 TTTTTTAAAATTT
1 TTTTTTAAAATTT
41717 AAACGTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 14 0.52
19 6 0.22
20 7 0.26
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTAAAATTTTTATAT
Found at i:46645 original size:23 final size:25
Alignment explanation
Indices: 46619--46674 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
46609 CATCAAATTT
46619 TAAATT-ATTT-TTTAAAAAATAAA
1 TAAATTAATTTATTTAAAAAATAAA
*
46642 TAAATTCAATTTAATTTAATAAATAAA
1 TAAATT-AATTT-ATTTAAAAAATAAA
*
46669 CAAATT
1 TAAATT
46675 TATTACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.22
25 4 0.15
27 17 0.63
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
TAAATTAATTTATTTAAAAAATAAA
Found at i:47564 original size:20 final size:20
Alignment explanation
Indices: 47533--47579 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
47523 TATTATATCT
* *
47533 TAAAATTTTAATAAATTTATA
1 TAAAA-TTTAATAAATTAAAA
*
47554 TAAAATTTAATATATTAAAA
1 TAAAATTTAATAAATTAAAA
47574 TAAAAT
1 TAAAAT
47580 AACGAATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAAATTTAATAAATTAAAA
Found at i:47778 original size:2 final size:2
Alignment explanation
Indices: 47736--47770 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47726 ATAAAATTGA
47736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47771 ACTATATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48419 original size:2 final size:2
Alignment explanation
Indices: 48412--48443 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48402 AAGTCATTGA
48412 AT 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 AT
48444 CCAAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53519 original size:20 final size:19
Alignment explanation
Indices: 53494--53563 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 19
53484 GAAGTCAATA
53494 TATCGATACATTTATAGATG
1 TATCGATACATTTA-AGATG
53514 TATCGATACATTCTAA-ATTG
1 TATCGATACATT-TAAGA-TG
*
53534 TATTGATACATTTACATG-TG
1 TATCGATACATTTA-A-GATG
53554 TATCGATACA
1 TATCGATACA
53564 AATAAGTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.07
20 38 0.88
21 2 0.05
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
TATCGATACATTTAAGATG
Found at i:64992 original size:20 final size:20
Alignment explanation
Indices: 64963--65020 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
64953 GTAGTAACTT
64963 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
64982 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
65002 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
65021 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:66011 original size:1 final size:1
Alignment explanation
Indices: 66001--66070 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
65991 TGAAAAGGGG
* * * * * * * * *
66001 TTTTTCTTTTTTTTTTCTTTTTGTTTTGTTTCTTTTTTTTGTTTCTTCTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
66066 GTTTT
1 TTTTT
66071 GTTTCTTGTT
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:66051 original size:42 final size:42
Alignment explanation
Indices: 66000--66082 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
65990 GTGAAAAGGG
*
66000 GTTTTTCTTTTTTTTTTC-TTTTTGTTTTGTTTCTTTTTTTT
1 GTTTTTCTTTTTTTTTTCTTTTTTGTTTTGTTTCTTGTTTTT
66041 GTTTCTTCTTTTTTTTTTCTTTTTTGTTTTGTTTCTTGTTTT
1 GTTT-TTCTTTTTTTTTTCTTTTTTGTTTTGTTTCTTGTTTT
66083 GGAAAAGAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 4 0.10
42 14 0.36
43 21 0.54
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (42 bp):
GTTTTTCTTTTTTTTTTCTTTTTTGTTTTGTTTCTTGTTTTT
Found at i:66073 original size:30 final size:30
Alignment explanation
Indices: 66001--66082 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
65991 TGAAAAGGGG
* *
66001 TTTTTCTTTT-TTTTTTCTTTTTGTTTTGT
1 TTTTTCTTTTGTTTCTTCTTTTTGTTTTCT
* *
66030 TTCTTTTTTTTGTTTCTTCTTTTTTTTTTCT
1 TT-TTTCTTTTGTTTCTTCTTTTTGTTTTCT
* *
66061 TTTTTGTTTTGTTTCTTGTTTT
1 TTTTTCTTTTGTTTCTTCTTTT
66083 GGAAAAGAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.04
30 25 0.56
31 18 0.40
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (30 bp):
TTTTTCTTTTGTTTCTTCTTTTTGTTTTCT
Found at i:66082 original size:18 final size:17
Alignment explanation
Indices: 66001--66082 Score: 54
Period size: 15 Copynumber: 5.2 Consensus size: 17
65991 TGAAAAGGGG
* *
66001 TTTTTCTTTTTTTTTTC
1 TTTTTGTTTTTTTCTTC
*
66018 TTTTTG-TTTTGT-TTC
1 TTTTTGTTTTTTTCTTC
*
66033 TTTTT-TTTGTTTCTTC
1 TTTTTGTTTTTTTCTTC
66049 --TTT-TTTTTTTC-T-
1 TTTTTGTTTTTTTCTTC
*
66061 TTTTTGTTTTGTTTCTTG
1 TTTTTGTTTT-TTTCTTC
66079 TTTT
1 TTTT
66083 GGAAAAGAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
13 1 0.02
14 13 0.25
15 16 0.31
16 12 0.23
17 6 0.12
18 4 0.08
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTTGTTTTTTTCTTC
Found at i:66083 original size:42 final size:41
Alignment explanation
Indices: 66000--66083 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 41
65990 GTGAAAAGGG
*
66000 GTTTTTCTTTTTTTTTTCTTTTTGTTTTGTTTCTTTTTTTT
1 GTTTTTCTTTTTTTTTTCTTTTTGTTTTGTTTCTTTGTTTT
66041 GTTTCTTCTTTTTTTTTTCTTTTTTGTTTTGTTTC-TTGTTTT
1 GTTT-TTCTTTTTTTTTTC-TTTTTGTTTTGTTTCTTTGTTTT
66083 G
1 G
66084 GAAAAGAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
41 4 0.10
42 21 0.52
43 15 0.38
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (41 bp):
GTTTTTCTTTTTTTTTTCTTTTTGTTTTGTTTCTTTGTTTT
Found at i:69343 original size:169 final size:174
Alignment explanation
Indices: 69050--69437 Score: 459
Period size: 169 Copynumber: 2.2 Consensus size: 174
69040 GTTTTGCAAT
* * * * * *
69050 GTGCCACTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAGATGATGAGGATGAAGAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGAGGATGAAGAGTGACA
*
69115 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGAT-AAAA
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGAAAA
* * * *
69179 T-AGCCCATAT-ACGACTAGCGATATTGGAC-TTAAAGAT-AAAG
131 TGAGCCCAT-TCAAGACCAGCGACATTGAACTTTAAAGATGAAAG
* *
69220 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GCAA-AGTGAC
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGAGGATG-AAGAGTGAC
* * **
69283 AAAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
65 AAA-AGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGAA
* * * *
69347 AATGTGCTCATTCAAGGCCAGCTACATTGAACTTTAAAGATGGAAAAG
129 AATGAGCCCATTCAAGACCAGCGACATTGAACTTTAAAGAT-G-AAAG
* * *
69395 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG
69438 GTGCCAATGT
Statistics
Matches: 185, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
169 61 0.33
170 54 0.29
171 18 0.10
172 8 0.04
175 44 0.24
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (174 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGAGGATGAAGAGTGACA
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGAAAA
TGAGCCCATTCAAGACCAGCGACATTGAACTTTAAAGATGAAAG
Found at i:69507 original size:49 final size:49
Alignment explanation
Indices: 69288--70231 Score: 1042
Period size: 49 Copynumber: 19.8 Consensus size: 49
69278 GTGACAAAGA
* * * * *
69288 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * * *
69342 ATGTCAATGTGCTCATTCAAGGCCAGCTACATTGAACTTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-TTAAAGAT-G--AAGG
69396 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
69439 TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
69488 TGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT--AGA--AGGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * *
69533 TGTCACTGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
69582 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
69625 TGCCAATGTGCTGACTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
69674 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
69723 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGGCGTAAAGATG-AGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
69771 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
69814 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
69863 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * * *
69912 TGTCAATGTGTTGATTCAAGGCCAGCTACATTGGGCGTAAAGATGAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
69960 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
70003 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
70052 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
70101 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
70150 TGCCAATATGCTGATTCAAGGCCAGCGATATTTGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
70193 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
70232 GAAGGGTTGC
Statistics
Matches: 762, Mismatches: 95, Indels: 75
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.00
43 186 0.24
44 2 0.00
45 36 0.05
47 10 0.01
48 68 0.09
49 384 0.50
52 2 0.00
53 31 0.04
54 6 0.01
55 27 0.04
56 8 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:69512 original size:92 final size:92
Alignment explanation
Indices: 69337--70231 Score: 1281
Period size: 92 Copynumber: 9.5 Consensus size: 92
69327 AAGATGAGAA
* * *
69337 AAAGGATGTCAATGTGCTCATTCAAGGCCAGCTACATTGAACTTTAAAGATGGAAAAGGTGCCAA
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-TTAAAGAT-G--AAGGTGCCAA
*
69402 TATGCTGATTCAAGGCCAGCTATATTGGACTT
61 TATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
69434 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATAC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
69499 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
69526 AGAAGGGTGTCACTGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATAT
1 A-AA-GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
69591 GCTGATTCAAGGCCAGCGATATTGGACTT
64 GCTGATTCAAGGCCAGCGATATTGGACTT
*
69620 AAAGGTGCCAATGTGCTGACTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
69685 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
69712 AAAGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGGCGTAAAGATG-AGGTGCCA
1 --A----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
69776 ATATGCTGATTCAAGGCCAGCGATATTAGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
69809 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
69874 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
69901 AAAGGTGAAGGTGTCAATGTGTTGATTCAAGGCCAGCTACATTGGGCGTAAAGATGAA-GTGCCA
1 --A----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
69965 ATATGCTGATTCAAGGCTAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
69998 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
70063 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
70090 AAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCA
1 --A----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
70155 ATATGCTGATTCAAGGCCAGCGATATTTGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
70188 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
70232 GAAGGGTTGC
Statistics
Matches: 725, Mismatches: 51, Indels: 49
0.88 0.06 0.06
Matches are distributed among these distances:
91 93 0.13
92 241 0.33
93 4 0.01
94 87 0.12
95 9 0.01
96 33 0.05
97 81 0.11
98 177 0.24
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:69835 original size:189 final size:190
Alignment explanation
Indices: 69284--70231 Score: 1433
Period size: 189 Copynumber: 5.0 Consensus size: 190
69274 CAAAGTGACA
* * * * * *
69284 AAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--GTG---AAGG-TGCCAA
* *
69349 TGTGCTCATTCAAGGCCAGCTACATTGAACTTTAAAGATGGAAAAGGTGCCAATATGCTGATTCA
60 TGTGCTGATTCAAGGCCAGCTACATTGGAC-TTAAAGAT-G--AAGGTGCCAATATGCTGATTCA
* *
69414 AGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAA
121 AGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
69479 AGAAG
186 AGATG
* * * * *
69484 AAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTT--A---GAAGGGTGTCACTGTGC
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAA-GGTGCCAATGTGC
*
69544 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
65 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
*
69609 ATATTGGACTTAAAGGTGCCAATGTGCTGACTCAAGGCCAGCTACATTGGACTTAAAGATG
130 ATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
69670 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
* * *
69735 GATTCAAGGCCAGCTATATTGGGCGTAAAGATG-AGGTGCCAATATGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
*
69799 TATTAGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
131 TATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
69859 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGTCAATGTGTT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
* * *
69924 GATTCAAGGCCAGCTACATTGGGCGTAAAGATGAA-GTGCCAATATGCTGATTCAAGGCTAGCGA
66 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
69988 TATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
131 TATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
70048 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATATGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
* * *
70113 GATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
66 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* *
70178 TATTTGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTA
131 TATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
70232 GAAGGGTTGC
Statistics
Matches: 698, Mismatches: 42, Indels: 26
0.91 0.05 0.03
Matches are distributed among these distances:
186 129 0.18
188 2 0.00
189 369 0.53
190 156 0.22
191 5 0.01
193 1 0.00
198 1 0.00
200 35 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (190 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCT
GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
TATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:70276 original size:33 final size:33
Alignment explanation
Indices: 70231--70426 Score: 288
Period size: 33 Copynumber: 5.9 Consensus size: 33
70221 CATTGGGCTT
*
70231 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGAA
* * * *
70264 AGAATTGTTGCCACCAACCTGTGTGGGCTTT-AG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGAA
70297 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGAA
*
70331 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAA
*
70364 AGAAGGTTTCCACCGACTTGTGTGGGCTTTGAA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAA
70397 AGAAGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT
70427 AGGAAGGGAG
Statistics
Matches: 149, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
33 144 0.97
34 5 0.03
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (33 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAA
Found at i:70475 original size:34 final size:34
Alignment explanation
Indices: 70417--71337 Score: 886
Period size: 35 Copynumber: 27.3 Consensus size: 34
70407 CACCGACTTG
* *
70417 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGATGCCACGGAGT
* *
70453 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
70488 TGTGGGCTTT---A--AAAAAG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
70516 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
70550 TGTGGGCTTTGAAAAGGAAAAAAAAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGG-AAAAAGA-TGCCACGGAGT
*
70587 TGTGGGCTTTAAAAAGAAAAAG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * * *
70620 GGTGGGCTTTGAGAA-GAAAAAGGTTGTCACGGAAT
1 TGTGGGCTTT-AAAAGGAAAAA-GATGCCACGGAGT
70655 TGTGGGCTTTAAAAGG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
70683 TGTGGAC-TTAAAAGGAAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGG-AAAAAGA-TGCCACGGAGT
* *
70718 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
* * *
70753 TGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
70787 TGTGGGCTTTGAAAAGGGAAAAAGAATGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-ATGCCACGGAGT
*
70824 TGTGGGCTTTAAAAAGAAAAAG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * *
70857 GGTGGGCTTTGAGAA-GAAAAAGGTTGCCACGGAAT
1 TGTGGGCTTT-AAAAGGAAAAA-GATGCCACGGAGT
*
70892 TGT-GGCTTTAAAAGG-----G-TACCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * *
70919 TATGGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
70952 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
* *
70987 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * *
71021 TAG-AGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 T-GTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
71054 TGTGGGC-TTAAAAGGGAAAAAGAGGGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
* *
71089 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
71123 TGTGGGC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
* * *
71158 TGTGGGCTTTAAAAAGAAAAAGGTGTCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
71192 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
71226 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGA-TGCCACGGAGT
* *
71263 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
71297 TGTGGGCTTTAAAA--AGAAA-ATGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
**
71328 CATGGGCTTT
1 TGTGGGCTTT
71338 GAGAAGAGAT
Statistics
Matches: 755, Mismatches: 76, Indels: 113
0.80 0.08 0.12
Matches are distributed among these distances:
27 27 0.04
28 38 0.05
29 1 0.00
30 6 0.01
31 20 0.03
32 6 0.01
33 125 0.17
34 195 0.26
35 211 0.28
36 66 0.09
37 60 0.08
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
Found at i:70488 original size:35 final size:34
Alignment explanation
Indices: 70417--71337 Score: 967
Period size: 34 Copynumber: 27.3 Consensus size: 34
70407 CACCGACTTG
* * *
70417 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGGTGCCACGGAGT
* *
70453 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
70488 TGTGGGCTTT---A--AAAAA-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
70516 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
70550 TGTGGGCTTTGAAAAGGAAAAAAAAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGG--AAAAAGGTGCCACGGAGT
*
70587 TGTGGGCTTTAAAAAGAAAAA-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * * *
70620 GGTGGGCTTTGAGAA-GAAAAAGGTTGTCACGGAAT
1 TGTGGGCTTT-AAAAGGAAAAAGG-TGCCACGGAGT
70655 TGTGGGCTTTAAAA-G-----GGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
70683 TGTGGAC-TTAAAAGGAAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGG-AAAAAG-GTGCCACGGAGT
* *
70718 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGAAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
* *
70753 TGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
70787 TGTGGGCTTTGAAAAGGGAAAAAGAATGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
*
70824 TGTGGGCTTTAAAAAGAAAAA-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
70857 GGTGGGCTTTGAGAA-GAAAAAGGTTGCCACGGAAT
1 TGTGGGCTTT-AAAAGGAAAAAGG-TGCCACGGAGT
*
70892 TGT-GGCTTTAAAA-G-----GGTACCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
70919 TATGGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
70952 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
70987 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
71021 TAG-AGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 T-GTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
71054 TGTGGGC-TTAAAAGGGAAAAAGAGGGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
71089 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
71123 TGTGGGC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
* *
71158 TGTGGGCTTTAAAAAGAAAAAGGTGTCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
71192 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
71226 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
*
71263 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
71297 TGTGGGCTTTAAAAAG-AAAA--TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
**
71328 CATGGGCTTT
1 TGTGGGCTTT
71338 GAGAAGAGAT
Statistics
Matches: 768, Mismatches: 65, Indels: 109
0.82 0.07 0.12
Matches are distributed among these distances:
27 23 0.03
28 42 0.05
29 2 0.00
30 5 0.01
31 20 0.03
32 1 0.00
33 131 0.17
34 208 0.27
35 208 0.27
36 61 0.08
37 67 0.09
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:70781 original size:69 final size:68
Alignment explanation
Indices: 70665--71337 Score: 774
Period size: 69 Copynumber: 9.9 Consensus size: 68
70655 TGTGGGCTTT
* * * *
70665 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAAGAGTGCCACGGAGTTGTGGAC-TTA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAAAG-GTGCCACGGAGTTGTGGGCTTTA
70728 AAAGGG
64 AAA-GG
* *
70734 AAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-A
70799 AAAGGG
64 AAA-GG
* *
70805 AAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-GTGCCACGGAGTGGTGGGCTTTGA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-A
*
70869 GAA-G
64 AAAGG
* * * *
70873 AAAAAGGTTGCCACGGAATTGT-GGCTTT-AAAAG-----GGTACCACGGAGTTATGGAC-TTAA
1 AAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
70930 AAGG
65 AAGG
* * *
70934 AACAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTA
*
70998 AAAAG
64 AAAGG
* * * *
71003 AAAAAGGTGCCACGGAGTTAG-AGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGC-TTAA
1 AAAAAGGTGCCACGGAGTT-GTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
71065 AAGGG
65 AA-GG
*
71070 AAAAAGAGGGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
71134 AAGGG
65 AA-GG
*
71139 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGGCTTTAA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
*
71204 AAAG
65 AAGG
* *
71208 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
*
71273 AAAAAG
63 AAAAGG
**
71279 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAA--TGCCACGGAGTCATGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
71338 GAGAAGAGAT
Statistics
Matches: 533, Mismatches: 45, Indels: 56
0.84 0.07 0.09
Matches are distributed among these distances:
60 18 0.03
61 14 0.03
62 16 0.03
65 18 0.03
66 11 0.02
67 34 0.06
68 83 0.16
69 166 0.31
70 67 0.13
71 106 0.20
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.19
Consensus pattern (68 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
AGG
Found at i:70913 original size:27 final size:27
Alignment explanation
Indices: 70874--70933 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
70864 TTTGAGAAGA
* * *
70874 AAAAGGTTGCCACGGAATTGTGG-CTTT
1 AAAAGGGTACCACGGAATTATGGAC-TT
*
70901 AAAAGGGTACCACGGAGTTATGGACTT
1 AAAAGGGTACCACGGAATTATGGACTT
70928 AAAAGG
1 AAAAGG
70934 AACAAGGTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAAGGGTACCACGGAATTATGGACTT
Found at i:72294 original size:9 final size:9
Alignment explanation
Indices: 72280--72342 Score: 63
Period size: 9 Copynumber: 6.4 Consensus size: 9
72270 GTGAAAAGGG
72280 TTTTTTCTT
1 TTTTTTCTT
72289 TTTTTTCTT
1 TTTTTTCTT
*
72298 TTTGTTCTGT
1 TTTTTTCT-T
*
72308 TTCTTTTTTT
1 TT-TTTTCTT
72318 TGTTTCTTCTTT
1 T-TTT-TTC-TT
72330 TTTTTTCTT
1 TTTTTTCTT
72339 TTTT
1 TTTT
72343 GTTTTGTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 22 0.49
10 10 0.22
11 10 0.22
12 3 0.07
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:72315 original size:16 final size:15
Alignment explanation
Indices: 72292--72360 Score: 67
Period size: 13 Copynumber: 4.7 Consensus size: 15
72282 TTTTCTTTTT
72292 TTTC-TTTTTGTTCTG
1 TTTCTTTTTTGTT-TG
72307 TTTC-TTTTT-TTTG
1 TTTCTTTTTTGTTTG
*
72320 TTTCTTCTTT-TTT-
1 TTTCTTTTTTGTTTG
72333 TTTCTTTTTTGTTTTG
1 TTTCTTTTTTG-TTTG
72349 TTTCTTGTTTTG
1 TTTCTT-TTTTG
72361 GAAAAGAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
13 15 0.32
14 9 0.19
15 12 0.26
16 6 0.13
17 5 0.11
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (15 bp):
TTTCTTTTTTGTTTG
Found at i:72317 original size:18 final size:16
Alignment explanation
Indices: 72308--72359 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
72298 TTTGTTCTGT
72308 TTCTTTTTTTTGTTTC
1 TTCTTTTTTTTGTTTC
72324 TTC--TTTTTT-TTTC
1 TTCTTTTTTTTGTTTC
72337 TT-TTTTGTTTTGTTTC
1 TTCTTTT-TTTTGTTTC
*
72353 TTGTTTT
1 TTCTTTT
72360 GGAAAAGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
13 6 0.19
14 8 0.26
15 4 0.13
16 9 0.29
17 4 0.13
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.83
Consensus pattern (16 bp):
TTCTTTTTTTTGTTTC
Found at i:72323 original size:13 final size:12
Alignment explanation
Indices: 72287--72347 Score: 68
Period size: 13 Copynumber: 4.6 Consensus size: 12
72277 GGGTTTTTTC
72287 TTTTTTTTCTTT
1 TTTTTTTTCTTT
72299 TTGTTCTGTTTCTTT
1 TT-TT-T-TTTCTTT
72314 TTTTTGTTTCTTCT
1 TTTTT-TTTCTT-T
72328 TTTTTTTTCTTT
1 TTTTTTTTCTTT
72340 TTTGTTTT
1 TTT-TTTT
72348 GTTTCTTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
12 6 0.14
13 20 0.45
14 9 0.20
15 9 0.20
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.84
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:72340 original size:24 final size:24
Alignment explanation
Indices: 72279--72346 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
72269 AGTGAAAAGG
72279 GTTTTTTC-TTTTT-TTTCTTTTT
1 GTTTTTTCTTTTTTGTTTCTTTTT
72301 GTTCTGTTTCTTTTTTTTGTTTCTTCTTT
1 GTT-T-TTTC--TTTTTTGTTTCTT-TTT
72330 -TTTTTTCTTTTTTGTTT
1 GTTTTTTCTTTTTTGTTT
72347 TGTTTCTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
22 3 0.08
23 1 0.03
24 14 0.36
26 4 0.10
27 6 0.15
28 8 0.21
29 3 0.08
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.82
Consensus pattern (24 bp):
GTTTTTTCTTTTTTGTTTCTTTTT
Found at i:72344 original size:42 final size:40
Alignment explanation
Indices: 72279--72359 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 40
72269 AGTGAAAAGG
* *
72279 GTTTTTTCTTTTTTTTCTTTTTGTTCTGTTTCTTTTTTTT
1 GTTTCTTCTTTTTTTTCTTTTTGTTCTGTTTCTTGTTTTT
*
72319 GTTTCTTCTTTTTTTTTCTTTTTTGTTTTGTTTCTTGTTTT
1 GTTTCTTC-TTTTTTTTC-TTTTTGTTCTGTTTCTTGTTTT
72360 GGAAAAGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 7 0.19
41 9 0.25
42 20 0.56
ACGTcount: A:0.00, C:0.10, G:0.09, T:0.81
Consensus pattern (40 bp):
GTTTCTTCTTTTTTTTCTTTTTGTTCTGTTTCTTGTTTTT
Found at i:76344 original size:21 final size:21
Alignment explanation
Indices: 76318--76362 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
76308 ATCTTATTTT
*
76318 TAGTTAGACTTTAAGCACTGA
1 TAGTTAGACTTTAAACACTGA
76339 TAGTTAGACTTTAAACACTGA
1 TAGTTAGACTTTAAACACTGA
76360 TAG
1 TAG
76363 GTTGGACGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
TAGTTAGACTTTAAACACTGA
Found at i:78853 original size:19 final size:19
Alignment explanation
Indices: 78829--78882 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
78819 CACACCCAGA
78829 TGTATCGATACATGATC-AT
1 TGTATCGATACATGA-CAAT
78848 TGTATCGATACATGGACAAT
1 TGTATCGATACAT-GACAAT
*
78868 TATATCGATACATGA
1 TGTATCGATACATGA
78883 AACTGGCAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATGACAAT
Found at i:78875 original size:20 final size:20
Alignment explanation
Indices: 78831--78881 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
78821 CACCCAGATG
*
78831 TATCGATACAT-GATCATTG
1 TATCGATACATGGATCATTA
78850 TATCGATACATGGA-CAATTA
1 TATCGATACATGGATC-ATTA
78870 TATCGATACATG
1 TATCGATACATG
78882 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
TATCGATACATGGATCATTA
Found at i:78944 original size:13 final size:13
Alignment explanation
Indices: 78926--78956 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
78916 CGATACACGG
*
78926 TACATTGTATTGA
1 TACATTGTATCGA
78939 TACATTGTATCGA
1 TACATTGTATCGA
78952 TACAT
1 TACAT
78957 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:78966 original size:33 final size:33
Alignment explanation
Indices: 78910--78978 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
78900 CTACCACTAT
* **
78910 TTGTATCGATACACGGTACATTGTATTGATACA
1 TTGTATCGATACACGATACATTGTATCAATACA
*
78943 TTGTATCGATACATGATGA-ATTGTATCAATACA
1 TTGTATCGATACACGAT-ACATTGTATCAATACA
78976 TTG
1 TTG
78979 CTGGTAACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACACGATACATTGTATCAATACA
Found at i:87531 original size:15 final size:15
Alignment explanation
Indices: 87511--87541 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87501 TAAAAATGTC
*
87511 CAAAATGAGGAAGCT
1 CAAAATGACGAAGCT
87526 CAAAATGACGAAGCT
1 CAAAATGACGAAGCT
87541 C
1 C
87542 CAAACAAAAT
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:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGACGAAGCT
Found at i:89787 original size:20 final size:20
Alignment explanation
Indices: 89744--89789 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
89734 AAATCTTTTG
89744 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
89765 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
89785 CAAAA
1 CAAAA
89790 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:95241 original size:20 final size:21
Alignment explanation
Indices: 95205--95243 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95195 TTACAAATTT
*
95205 CTTCATTTTTACTTCAAAACA
1 CTTCATTTTTACATCAAAACA
95226 CTTCATTTTT-CATCAAAA
1 CTTCATTTTTACATCAAAA
95244 TCACCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAACA
Found at i:101750 original size:14 final size:15
Alignment explanation
Indices: 101724--101753 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
101714 ATGGTATATA
101724 ATTTAATTAAAAAAT
1 ATTTAATTAAAAAAT
101739 ATTTAA-TAAAAAAT
1 ATTTAATTAAAAAAT
101753 A
1 A
101754 ATAGACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTTAATTAAAAAAT
Found at i:103239 original size:2 final size:2
Alignment explanation
Indices: 103232--103258 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
103222 TTGGTTAATT
103232 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
103259 GTTAGATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104938 original size:120 final size:120
Alignment explanation
Indices: 104725--104968 Score: 452
Period size: 120 Copynumber: 2.0 Consensus size: 120
104715 TTTCAGTTTA
*
104725 CCTTAGTGTTTCATATTTAAACTCATTAATGTCTTCTTTTTTCATACTTCATAGAATTACCTGTC
1 CCTTAGTGTTTCAAATTTAAACTCATTAATGTCTTCTTTTTTCATACTTCATAGAATTACCTGTC
*
104790 TGTTTTTGCTTTTGTAGCTTTCATCATAGGGTTATAACAAAAAGCGAATGGATGT
66 TGTTTTTGCTTTTGTAGCTTTCATCATAGGCTTATAACAAAAAGCGAATGGATGT
*
104845 CCTTAGTGTTTCAAATTTAAACTCATTAATGTCTTCTTTTTTCATACTTCGTAGAATTACCTGTC
1 CCTTAGTGTTTCAAATTTAAACTCATTAATGTCTTCTTTTTTCATACTTCATAGAATTACCTGTC
*
104910 TGTTTTTGCTTTTGTAGCTTTCATCATAGGCTTATAACAAAAAGTGAATGGATGT
66 TGTTTTTGCTTTTGTAGCTTTCATCATAGGCTTATAACAAAAAGCGAATGGATGT
104965 CCTT
1 CCTT
104969 GCTTCATTTA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.44
Consensus pattern (120 bp):
CCTTAGTGTTTCAAATTTAAACTCATTAATGTCTTCTTTTTTCATACTTCATAGAATTACCTGTC
TGTTTTTGCTTTTGTAGCTTTCATCATAGGCTTATAACAAAAAGCGAATGGATGT
Found at i:113546 original size:2 final size:2
Alignment explanation
Indices: 113539--113568 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113529 AATTTGTGGG
113539 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
113569 TTGTTGGTTA
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:114080 original size:6 final size:6
Alignment explanation
Indices: 114048--114079 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
114038 ATTCAGCATT
*
114048 TTCAGC TTCAGC TTCAGC TTCAGC TTTAGC TT
1 TTCAGC TTCAGC TTCAGC TTCAGC TTCAGC TT
114080 TTTACAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.41
Consensus pattern (6 bp):
TTCAGC
Found at i:114481 original size:14 final size:14
Alignment explanation
Indices: 114462--114501 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
114452 ATTATTAATG
*
114462 AATATAATTAAGTA
1 AATATAATTAAATA
114476 AATATAATATAAATA
1 AATATAAT-TAAATA
114491 AA-ATAATTAAA
1 AATATAATTAAA
114502 ATATTTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 13 0.54
15 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATATAATTAAATA
Found at i:115302 original size:21 final size:22
Alignment explanation
Indices: 115278--115318 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
115268 ATGAGAAAGA
*
115278 TTAAATT-AAAATGATTTTAAC
1 TTAAATTAAAAATAATTTTAAC
115299 TTAAATTAAAAATAATTTTA
1 TTAAATTAAAAATAATTTTA
115319 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAAATTAAAAATAATTTTAAC
Found at i:115619 original size:18 final size:20
Alignment explanation
Indices: 115588--115631 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
115578 TAATATTAAA
*
115588 TTATTTTTCTCATTTT-TTT
1 TTATTTTACTCATTTTGTTT
115607 TTATTTTAC-CATTTTGTTT
1 TTATTTTACTCATTTTGTTT
115626 TT-TTTT
1 TTATTTT
115632 TTACAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (20 bp):
TTATTTTACTCATTTTGTTT
Found at i:115641 original size:21 final size:21
Alignment explanation
Indices: 115602--115642 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
115592 TTTTCTCATT
*
115602 TTTTTTTATTTTACCATTTTG
1 TTTTTTTATTTTACAATTTTG
115623 TTTTTTT-TTTTACAAATTTT
1 TTTTTTTATTTTAC-AATTTT
115643 TCATTAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTTTATTTTACAATTTTG
Found at i:116528 original size:22 final size:22
Alignment explanation
Indices: 116502--116546 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
116492 TGGATTGACT
116502 AAAAAAAAAAATA-TGATCATTG
1 AAAAAAAAAAATATTGAT-ATTG
**
116524 AAAAAATTAAATATTGATATTG
1 AAAAAAAAAAATATTGATATTG
116546 A
1 A
116547 CATTGAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (22 bp):
AAAAAAAAAAATATTGATATTG
Found at i:117605 original size:2 final size:2
Alignment explanation
Indices: 117600--117635 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
117590 TATATATATA
*
117600 TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
117636 GCAGGATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:121825 original size:2 final size:2
Alignment explanation
Indices: 121818--121843 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
121808 TCACTACATA
121818 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
121844 TCAGAGATAA
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:121904 original size:3 final size:3
Alignment explanation
Indices: 121898--121929 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
121888 TGCGAAATTA
121898 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
121930 CAAAGATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:122584 original size:3 final size:3
Alignment explanation
Indices: 122576--122613 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
122566 AATATGTTTG
122576 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
122614 GTAAAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:128323 original size:20 final size:20
Alignment explanation
Indices: 128298--128335 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
128288 GTAAAAAGAC
128298 AGAATATATCGATACATTGA
1 AGAATATATCGATACATTGA
128318 AGAATATATCGATACATT
1 AGAATATATCGATACATT
128336 CATACATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AGAATATATCGATACATTGA
Found at i:128347 original size:20 final size:20
Alignment explanation
Indices: 128304--128374 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
128294 AGACAGAATA
* * *
128304 TATCGATACATTGAAGAATA
1 TATCGATACATTCAAAAATG
* *
128324 TATCGATACATTCATACATG
1 TATCGATACATTCAAAAATG
* *
128344 TATCGATATATTGAAAAATG
1 TATCGATACATTCAAAAATG
*
128364 TATCAATACAT
1 TATCGATACAT
128375 CTGGGTAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:131372 original size:79 final size:77
Alignment explanation
Indices: 131289--131636 Score: 237
Period size: 76 Copynumber: 4.5 Consensus size: 77
131279 TATCCTCAAA
** *
131289 ATAAAACATTTAATGTTTTTGAAATAAAAATGGGGTTGGAGTAT-TCCTTCGAAAATAACGGGAT
1 ATAAAA-ATTTAAT-TTTTTGAAATAAAAACAGGGTTGGAGTATCTCCTTAG-AAATAACGGGAT
131353 TGGAGTATCCC-CGAG
63 TGGAGTA-CCCTCGAG
* *
131368 ATAAAAAGTTGATATTTTTGGAAATAAAAACAGGGTTGGAGTATCTCCTTAGAAATAACGGGATT
1 ATAAAAA-TTTA-ATTTTTTGAAATAAAAACAGGGTTGGAGTATCTCCTTAGAAATAACGGGATT
* *
131433 TGAGTACCCTTGAG
64 GGAGTACCCTCGAG
* * * * * * *
131447 --AAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCCCTCA-AATTGATGGGGTTG
1 ATAAAAATTTAATTTTTTG-AAATAAAAACAGGGTTGGAGTATCTCCTTAGAAATAACGGGATTG
*
131509 GAGTATCCT--AG
65 GAGTACCCTCGAG
* * ** * * * * * *
131520 ATGAAAATTTTAGCA-TTTTAGAAATAAATGCGGGGTTAGAGTATC-CCTTCGAAATTGATGGGG
1 AT-AAAAATTTA--ATTTTTTGAAATAAAAACAGGGTTGGAGTATCTCCTTAGAAA-TAACGGGA
* *
131583 TTGGAGTATCCCCCAAG
62 TTGGAGTA-CCCTCGAG
* **
131600 ATGAAAATTTTAATATTTTAAAAATAAAAACAGGGTT
1 AT-AAAAATTTAAT-TTTTTGAAATAAAAACAGGGTT
131637 ATAGTATCCT
Statistics
Matches: 218, Mismatches: 34, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
73 2 0.01
75 26 0.12
76 61 0.28
77 25 0.11
78 8 0.04
79 56 0.26
80 40 0.18
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (77 bp):
ATAAAAATTTAATTTTTTGAAATAAAAACAGGGTTGGAGTATCTCCTTAGAAATAACGGGATTGG
AGTACCCTCGAG
Found at i:131625 original size:80 final size:78
Alignment explanation
Indices: 131267--131724 Score: 308
Period size: 79 Copynumber: 5.9 Consensus size: 78
131257 CTTTCAGAAT
* * * * * ** ** *
131267 ATGGGGTTGAAGTATCCTCAAAAT-AAAACATTTAATGTTTTTGAAATAAAAATGGGGTTGGAGT
1 ATGGGGTTGGAGTATCCCCAAGATGAAAA-TTTTAATATTTTAAAAATAAAAACAGGGTTAGAGT
* * *
131331 ATTCCTTCGAAAATA
65 ATCCCTTC-AAATTG
* * * ** * ** *
131346 ACGGGATTGGAGTATCCCCGAGAT-AAAAAGTTGATATTTTTGGAAATAAAAACAGGGTTGGAGT
1 ATGGGGTTGGAGTATCCCCAAGATGAAAATTTTAATA-TTTTAAAAATAAAAACAGGGTTAGAGT
* *
131410 ATCTCCTT-AGAAATA
65 ATC-CCTTCA-AATTG
* * * ** * * *
131425 ACGGGATTTGAGTA--CCCTTGA-GAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGTA
*
131487 TCCCCTCAAATTG
66 TCCCTTCAAATTG
* ** * ** *
131500 ATGGGGTTGGAGTAT--CCTAGATGAAAATTTTAGCATTTTAGAAATAAATGCGGGGTTAGAGTA
1 ATGGGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGTA
131563 TCCCTTCGAAATTG
66 TCCCTTC-AAATTG
*
131577 ATGGGGTTGGAGTATCCCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAACAGGGTTATAGT
1 ATGGGGTTGGAGTAT-CCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGT
* *
131642 AT-CCTCTCATAAATA
65 ATCCCT-TCA-AATTG
** * * *
131657 ATGAAGCTGGAGTATCTCCGAA-ATGAAAATTTTAATATTTTAAAAATAAAAAC-GGGATTGGAG
1 ATGGGGTTGGAGTATC-CCCAAGATGAAAATTTTAATATTTTAAAAATAAAAACAGGG-TTAGAG
131720 TATCC
64 TATCC
131725 ACTCAAAACT
Statistics
Matches: 311, Mismatches: 52, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
75 22 0.07
76 68 0.22
77 36 0.12
78 9 0.03
79 109 0.35
80 67 0.22
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (78 bp):
ATGGGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGTA
TCCCTTCAAATTG
Found at i:131722 original size:79 final size:77
Alignment explanation
Indices: 131446--131731 Score: 299
Period size: 80 Copynumber: 3.6 Consensus size: 77
131436 GTACCCTTGA
* * *
131446 GAAAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCCCTCAAATTGATGGGGTTGGA
1 GAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGTAT-CCCTCAAATTGATGGGGTTGGA
* *
131511 GTA--TCCTAGAT
65 GTATCTCCCAAAT
** * ** *
131522 GAAAATTTTAGCATTTTAGAAATAAATGCGGGGTTAGAGTATCCCTTCGAAATTGATGGGGTTGG
1 GAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGTATCCC-TC-AAATTGATGGGGTTGG
*
131587 AGTATCCCCCAAGAT
64 AGTATCTCCCAA-AT
* * * ** *
131602 GAAAATTTTAATATTTTAAAAATAAAAACAGGGTTATAGTATCCTCTCATAAATAATGAAGCTGG
1 GAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGTATCC-CTCA-AATTGATGGGGTTGG
*
131667 AGTATCTCCGAAAT
64 AGTATCTCCCAAAT
*
131681 GAAAATTTTAATATTTTAAAAATAAAAAC-GGGATTGGAGTATCCACTCAAA
1 GAAAATTTTAATATTTTAAAAATAAAAACAGGG-TTAGAGTATCC-CTCAAA
131732 ACTAACGAGG
Statistics
Matches: 173, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
75 3 0.02
76 35 0.20
77 20 0.12
78 5 0.03
79 48 0.28
80 61 0.35
81 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (77 bp):
GAAAATTTTAATATTTTAAAAATAAAAACAGGGTTAGAGTATCCCTCAAATTGATGGGGTTGGAG
TATCTCCCAAAT
Found at i:134293 original size:21 final size:21
Alignment explanation
Indices: 134267--134322 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
134257 AGAGTGGTTT
* *
134267 TGTATCGATACATTTTAGGCA
1 TGTATCGATACATTTCACGCA
*
134288 TGTATCGATACA-TTCACTCA
1 TGTATCGATACATTTCACGCA
134308 TGTATCGATACATTT
1 TGTATCGATACATTT
134323 ATTGTTTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTCACGCA
Found at i:138272 original size:13 final size:13
Alignment explanation
Indices: 138254--138278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138244 CATAAAATGT
138254 TGTATCGATACAA
1 TGTATCGATACAA
138267 TGTATCGATACA
1 TGTATCGATACA
138279 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:138276 original size:33 final size:33
Alignment explanation
Indices: 138234--138300 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
138224 TTCAACGATT
138234 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
138267 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
138300 T
1 T
138301 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:138360 original size:13 final size:13
Alignment explanation
Indices: 138342--138366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138332 ATTACTCACA
138342 TGTATCGATACAT
1 TGTATCGATACAT
138355 TGTATCGATACA
1 TGTATCGATACA
138367 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:138431 original size:52 final size:52
Alignment explanation
Indices: 138375--138499 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
138365 CACTGATCTT
*
138375 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
138427 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
138479 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
138500 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:142409 original size:12 final size:12
Alignment explanation
Indices: 142394--142420 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
142384 AAAAAATAAT
142394 TAAAATATAAAA
1 TAAAATATAAAA
142406 TAAAATATAAAA
1 TAAAATATAAAA
142418 TAA
1 TAA
142421 TATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATATAAAA
Found at i:142495 original size:17 final size:20
Alignment explanation
Indices: 142469--142515 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
142459 ATTAAAATTT
*
142469 ATATAATATAA-AT-TATTA
1 ATATATTATAATATATATTA
*
142487 ATAT-TTATAATTTATATTA
1 ATATATTATAATATATATTA
142506 ATATATTATA
1 ATATATTATA
142516 TTTTAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 5 0.21
19 9 0.38
20 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATTATAATATATATTA
Found at i:142502 original size:24 final size:26
Alignment explanation
Indices: 142451--142527 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 26
142441 ATATAAGTAC
* *
142451 ATAAATATATTAAAATTTAT-ATAAT
1 ATAAATATATTAATATTTATAATATT
142476 ATAAAT-TATTAATATTTATAAT-TT
1 ATAAATATATTAATATTTATAATATT
142500 ATATTAATATATT-ATATTT-TAATATT
1 ATA--AATATATTAATATTTATAATATT
142526 AT
1 AT
142528 TACATTATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 16 0.36
25 12 0.27
26 13 0.29
27 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAATATATTAATATTTATAATATT
Found at i:142503 original size:13 final size:14
Alignment explanation
Indices: 142482--142527 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
142472 TAATATAAAT
142482 TATTAATATTTATAA
1 TATT-ATATTTATAA
*
142497 T-TTATATTAAT-A
1 TATTATATTTATAA
142509 TATTATATTT-TAA
1 TATTATATTTATAA
142522 TATTAT
1 TATTAT
142528 TACATTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 21 0.78
14 2 0.07
15 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATATTTATAA
Found at i:142516 original size:26 final size:26
Alignment explanation
Indices: 142451--142535 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
142441 ATATAAGTAC
* *
142451 ATAAATATATTAA-AATTT-ATATAAT
1 ATAAAT-TATTAATATTTTAATATTAT
142476 ATAAATTATTAATATTTATAAT-TTAT
1 ATAAATTATTAATATTT-TAATATTAT
*
142502 ATTAATATATT-ATATTTTAATATTAT
1 ATAAAT-TATTAATATTTTAATATTAT
*
142528 -TACATTAT
1 ATAAATTAT
142536 AAAAATATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
24 9 0.18
25 16 0.32
26 19 0.38
27 6 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAATTATTAATATTTTAATATTAT
Found at i:142518 original size:19 final size:19
Alignment explanation
Indices: 142482--142526 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
142472 TAATATAAAT
142482 TATTAATATTTATAATTTA
1 TATTAATATTTATAATTTA
*
142501 TATTAATATATTATATTTTAA
1 TATTAATAT-TTATAATTT-A
142522 TATTA
1 TATTA
142527 TTACATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 8 0.35
21 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAATATTTATAATTTA
Found at i:142524 original size:21 final size:20
Alignment explanation
Indices: 142482--142537 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
142472 TAATATAAAT
142482 TATTAATAT-TTATAATTTA
1 TATTAATATATTATAATTTA
*
142501 TATTAATATATTATATTTTAA
1 TATTAATATATTATAATTT-A
* *
142522 TATTATTACATTATAA
1 TATTAATATATTATAA
142538 AAATATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.29
20 8 0.26
21 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAATATATTATAATTTA
Found at i:142774 original size:7 final size:7
Alignment explanation
Indices: 142764--142810 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
142754 AAAAAATCAT
142764 AAATTTA
1 AAATTTA
*
142771 AAA-TAA
1 AAATTTA
142777 AAATTATA
1 AAATT-TA
142785 AACA-TTA
1 AA-ATTTA
142792 AAATTTA
1 AAATTTA
142799 AAATTTA
1 AAATTTA
142806 AAATT
1 AAATT
142811 ATTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 6 0.18
7 23 0.68
8 4 0.12
9 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (7 bp):
AAATTTA
Found at i:145063 original size:27 final size:27
Alignment explanation
Indices: 145033--145087 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
145023 TCCTTTCAAT
145033 AACTCCATTTTGTTGAGGATTTCTAGG
1 AACTCCATTTTGTTGAGGATTTCTAGG
145060 AACTCCATTTTGTTGAGGATTTCTAGG
1 AACTCCATTTTGTTGAGGATTTCTAGG
145087 A
1 A
145088 GTAGAGAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (27 bp):
AACTCCATTTTGTTGAGGATTTCTAGG
Found at i:146420 original size:21 final size:19
Alignment explanation
Indices: 146392--146445 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
146382 TCATGGAAGT
146392 TTTTGTTTTTCTTAGTCAA
1 TTTTGTTTTTCTTAGTCAA
* *
146411 TTCATTGTTTTTATTAGTTAA
1 TT--TTGTTTTTCTTAGTCAA
146432 TTTTGTGTTTTCTT
1 TTTTGT-TTTTCTT
146446 CTTGCAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 6 0.21
21 17 0.59
ACGTcount: A:0.15, C:0.07, G:0.11, T:0.67
Consensus pattern (19 bp):
TTTTGTTTTTCTTAGTCAA
Found at i:146963 original size:3 final size:3
Alignment explanation
Indices: 146955--146988 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
146945 AACCTCTTGC
*
146955 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
146989 TTTGGATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:153368 original size:21 final size:21
Alignment explanation
Indices: 153342--153416 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
153332 AATTCAAATA
*
153342 TATCGATACATTTGTAGAATG
1 TATCGATACATTTGTAGAAAG
*
153363 TATCGATACATTTGTGGAAAG
1 TATCGATACATTTGTAGAAAG
153384 TATCGATACATTTG-AGGAAAG
1 TATCGATACATTTGTA-GAAAG
153405 TATCGATACATT
1 TATCGATACATT
153417 CTACAAATGT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (21 bp):
TATCGATACATTTGTAGAAAG
Found at i:153428 original size:21 final size:22
Alignment explanation
Indices: 153336--153435 Score: 93
Period size: 21 Copynumber: 4.7 Consensus size: 22
153326 AAAAAAAATT
*
153336 CAAATATATCGATACATTTGTA
1 CAAATGTATCGATACATTTGTA
* *
153358 -GAATGTATCGATACATTTGTG
1 CAAATGTATCGATACATTTGTA
*
153379 GAAA-GTATCGATACATTTG-A
1 CAAATGTATCGATACATTTGTA
* *
153399 GGAAA-GTATCGATACA-TTCTA
1 -CAAATGTATCGATACATTTGTA
*
153420 CAAATGTATCAATACA
1 CAAATGTATCGATACA
153436 GGGTCCCAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
20 5 0.08
21 59 0.89
22 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (22 bp):
CAAATGTATCGATACATTTGTA
Done.