Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga03g00305.P2
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: 2549
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.23
Found at i:446 original size:3 final size:3
Alignment explanation
Indices: 440--477 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
430 AGGAGGAGGA
* *
440 GGT GGT GGT GGT GGT AGT GGT GAT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
478 AAGTGGTAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.63, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:1138 original size:54 final size:53
Alignment explanation
Indices: 1057--1160 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 53
1047 CTGGTGAGGT
* *
1057 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCCAGTGGTAGAG
1 AAAAGGACAAGATGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAGAG
*
1110 AAAAGAGACAAGATGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTA
1 AAAAG-GACAAGATGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTA
1161 AAGATGAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.11
54 42 0.89
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.18
Consensus pattern (53 bp):
AAAAGGACAAGATGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAGAG
Found at i:1341 original size:54 final size:54
Alignment explanation
Indices: 1267--1372 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
1257 CTGGTGGGGT
* * * *
1267 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAAA
1 AAAAGGACAAGGTGAAGGAGATGGTAATGGTAATACAAATGCAAGAGGTAAAAA
1321 AAAAGGACAAGGTGAAGGAGATGGTAATGGTAATACAAATGCAAGAGGTAAA
1 AAAAGGACAAGGTGAAGGAGATGGTAATGGTAATACAAATGCAAGAGGTAAA
1373 GATGAAGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.45, C:0.06, G:0.33, T:0.16
Consensus pattern (54 bp):
AAAAGGACAAGGTGAAGGAGATGGTAATGGTAATACAAATGCAAGAGGTAAAAA
Found at i:1536 original size:54 final size:54
Alignment explanation
Indices: 1477--1584 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
1467 CCGGTGGGGT
* * * *
1477 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTGACACAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTCGAGGAGATAGTAGTGGTAACACAAATGCAAGTGGTAAAGA
*
1531 AAAAGGACAAGGTCGAGGAGATAGTAGTGGTAATACAAATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTCGAGGAGATAGTAGTGGTAACACAAATGCAAGTGGTAAAGA
1585 TGAAGCTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.42, C:0.07, G:0.35, T:0.16
Consensus pattern (54 bp):
AAAAGGACAAGGTCGAGGAGATAGTAGTGGTAACACAAATGCAAGTGGTAAAGA
Found at i:1739 original size:210 final size:209
Alignment explanation
Indices: 979--1740 Score: 1161
Period size: 210 Copynumber: 3.6 Consensus size: 209
969 GTGGTAAAGA
* * * *
979 TGAAGGAAAATTTGGAGGACAGAGAAAGGTCGATGGAAATAGTGGTGGAAGTGATAGCTCTAGTT
1 TGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAATG
* * * *
1044 ATTCTGGTGAGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCCAGTGGTAGA
66 ATTCCGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAA
* * *
1109 G-AAAAGAGACAAGATGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGATGAAGCTA
131 GAAAAAG-GACAAGGT-GAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTA
* *
1173 AAGCTAAAGCTGAAGC
194 AAGATAAAGCTGAAGT
* * * * *
1189 TGGAGGAAATTTTGAAGGACAGGGAAAGGTCGATGGAAATATTGGTGGAAGTGACAGCTCTAGTG
1 TGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAATG
*
1254 ATTCTGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAA
66 ATTCCGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAA
* * *
1319 AAAAAAGGACAAGGTGAAGGAGATGGTAATGGTAATACAAATGCAAGAGGTAAAGATGAAGCTAA
131 GAAAAAGGACAAGGTG-AGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAA
1384 AGATAAAGCTGAAGT
195 AGATAAAGCTGAAGT
* * * * *
1399 TGAAGGAAAATTTGGAGGGA-AGGGAAAGGTTGATGAAAATAATGGTGGAAATAACAGCTCTAAT
1 TGAAGGAAAATTTGGA-GGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAAT
* *
1463 GATTCCGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTGACACAGATGCAAGTGGTAA
65 GATTCCGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAA
*
1528 AGAAAAAGGACAAGGTCGAGGAGATAGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTA
130 AGAAAAAGGACAAGGT-GAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTA
1593 AAGATAAAGCTGAAGT
194 AAGATAAAGCTGAAGT
*
1609 TGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGACGGCTCTAATG
1 TGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAATG
*
1674 ATTCCGGTAGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACA-AGTGCAAGTGGTAA
66 ATTCCGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGA-TGCAAGTGGTAA
1738 AGA
130 AGA
1741 TGAAGCTAAA
Statistics
Matches: 503, Mismatches: 43, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
209 5 0.01
210 489 0.97
211 9 0.02
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (209 bp):
TGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAATG
ATTCCGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAA
GAAAAAGGACAAGGTGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAA
GATAAAGCTGAAGT
Found at i:1752 original size:6 final size:6
Alignment explanation
Indices: 1743--1939 Score: 119
Period size: 6 Copynumber: 32.8 Consensus size: 6
1733 GGTAAAGATG
* * * ** * *
1743 AAGCTA AAGCTG AAGCTG AAGCTC AAGCTA AAGCTA AAAATG AAGTTA
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
* * * * * * * *
1791 AAGCTG AAGATG AAGCTC AAGCTA AAGTTA AAGATG AAGCTA AAGCTG
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
* * * * * *
1839 AATCTG AAGCTA AAGCTA AATCTA AAG-AA GAAGCTA AAGTTG AAGCTA
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA -AAGCTA AAGCTA AAGCTA
* * ** * *
1887 AAGCTA AAGCTG AAGCTAA AAG-TG AAGCCG AAGATG AAGCTA AAGCTA
1 AAGCTA AAGCTA AAGCT-A AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
1935 AAGCT
1 AAGCT
1940 GAAGGAAAGG
Statistics
Matches: 147, Mismatches: 40, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
5 4 0.03
6 139 0.95
7 4 0.03
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (6 bp):
AAGCTA
Found at i:1756 original size:12 final size:12
Alignment explanation
Indices: 1735--2016 Score: 146
Period size: 12 Copynumber: 23.5 Consensus size: 12
1725 GTGCAAGTGG
*
1735 TAAAGATGAAGC
1 TAAAGCTGAAGC
1747 TAAAGCTGAAGC
1 TAAAGCTGAAGC
* *
1759 TGAAGCTCAAGC
1 TAAAGCTGAAGC
* **
1771 TAAAGCTAAAAA
1 TAAAGCTGAAGC
* * *
1783 TGAAGTTAAAGC
1 TAAAGCTGAAGC
* *
1795 TGAAGATGAAGC
1 TAAAGCTGAAGC
* * *
1807 TCAAGCTAAAGT
1 TAAAGCTGAAGC
*
1819 TAAAGATGAAGC
1 TAAAGCTGAAGC
*
1831 TAAAGCTGAATC
1 TAAAGCTGAAGC
* *
1843 TGAAGCTAAAGC
1 TAAAGCTGAAGC
* *
1855 TAAATCTAAAG-
1 TAAAGCTGAAGC
* * *
1866 AAGAAGCTAAAGT
1 TA-AAGCTGAAGC
* *
1879 TGAAGCTAAAGC
1 TAAAGCTGAAGC
1891 TAAAGCTGAAGC
1 TAAAGCTGAAGC
1903 TAAAAG-TGAAGC
1 T-AAAGCTGAAGC
** *
1915 CGAAGATGAAGC
1 TAAAGCTGAAGC
*
1927 TAAAGCTAAAGC
1 TAAAGCTGAAGC
*
1939 TGAAG--GAAAGGC
1 TAAAGCTG-AA-GC
*
1951 TGAAGCTGAAGC
1 TAAAGCTGAAGC
1963 TGAAA-CTGAAGC
1 T-AAAGCTGAAGC
*
1975 AAAAGCTGAAGC
1 TAAAGCTGAAGC
1987 -AAAGGCTGAAGC
1 TAAA-GCTGAAGC
*
1999 -AAACACTGAAGC
1 TAAA-GCTGAAGC
*
2011 AAAAGC
1 TAAAGC
2017 AAAAGCTGAA
Statistics
Matches: 210, Mismatches: 48, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
11 12 0.06
12 186 0.89
13 11 0.05
14 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (12 bp):
TAAAGCTGAAGC
Found at i:1764 original size:18 final size:18
Alignment explanation
Indices: 1741--1974 Score: 150
Period size: 18 Copynumber: 13.0 Consensus size: 18
1731 GTGGTAAAGA
1741 TGAAGCTAAAGCTGAAGC
1 TGAAGCTAAAGCTGAAGC
* *
1759 TGAAGCTCAAGCTAAAGC
1 TGAAGCTAAAGCTGAAGC
* ** * * *
1777 TAAAAATGAAGTTAAAGC
1 TGAAGCTAAAGCTGAAGC
* * *
1795 TGAAGATGAAGCTCAAGC
1 TGAAGCTAAAGCTGAAGC
* * *
1813 TAAAGTTAAAGATGAAGC
1 TGAAGCTAAAGCTGAAGC
* * *
1831 TAAAGCTGAATCTGAAGC
1 TGAAGCTAAAGCTGAAGC
* * * *
1849 TAAAGCTAAATCTAAAGA
1 TGAAGCTAAAGCTGAAGC
* *
1867 AGAAGCTAAAGTTGAAGC
1 TGAAGCTAAAGCTGAAGC
*
1885 TAAAGCTAAAGCTGAAGC
1 TGAAGCTAAAGCTGAAGC
* * * *
1903 TAAAAG-TGAAGCCGAAGA
1 T-GAAGCTAAAGCTGAAGC
*
1921 TGAAGCTAAAGCTAAAGC
1 TGAAGCTAAAGCTGAAGC
*
1939 TGAAG-GAAAGGCTGAAGC
1 TGAAGCTAAA-GCTGAAGC
1957 TGAAGCTGAAA-CTGAAGC
1 TGAAGCT-AAAGCTGAAGC
1975 AAAAGCTGAA
Statistics
Matches: 168, Mismatches: 43, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
17 6 0.04
18 155 0.92
19 4 0.02
20 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (18 bp):
TGAAGCTAAAGCTGAAGC
Found at i:1799 original size:42 final size:42
Alignment explanation
Indices: 1735--1986 Score: 247
Period size: 42 Copynumber: 6.0 Consensus size: 42
1725 GTGCAAGTGG
* *
1735 TAAAGATGAAGCTAAAGCTGAAGCTGAAGCTCAAGCTAAAGC
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* * * *
1777 TAAAAATGAAGTTAAAGCTGAAGATGAAGCTCAAGCTAAAGT
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* * *
1819 TAAAGATGAAGCTAAAGCTGAATCTGAAGCTAAAGCTAAATC
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* * *
1861 TAAAGAA-GAAGCTAAAGTTGAAGCTAAAGCTAAAGCTGAAGC
1 TAAA-AATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* ** * * *
1903 TAAAAGTGAAGCCGAAGATGAAGCTAAAGCTAAAGCTGAAG-
1 TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
* ** * * * *
1944 GAAAGGCTGAAGCTGAAGCTGAAACTGAAGCAAAAGCTGAAGC
1 TAAA-AATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
1987 AAAGGCTGAA
Statistics
Matches: 177, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
41 4 0.02
42 172 0.97
43 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.17
Consensus pattern (42 bp):
TAAAAATGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTAAAGC
Found at i:1991 original size:42 final size:43
Alignment explanation
Indices: 1741--2026 Score: 235
Period size: 42 Copynumber: 6.8 Consensus size: 43
1731 GTGGTAAAGA
* * * **
1741 TGAAGCTAAAGCTGAAGCTGAAGCTCAAGCTAAAGCTAAA-AA
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * * * * * *
1783 TGAAGTTAAAGCTGAAGATGAAGCTCAAGCTAAAGTTAAA-GA
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * * * *
1825 TGAAGCTAAAGCTGAATCTGAAGCTAAAGCTAAATCTAAA-GA
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * *
1867 AGAAGCTAAAGTTGAAGCTAAAGCTAAAGCTGAAGCTAAAAG-
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
** * *
1909 TGAAGCCGAAGATGAAGCTAAAGCTAAAGCTGAAG-GAAAGGC
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * * *
1951 TGAAGCTGAAGCTGAAACTGAAGCAAAAGCTGAAGC-AAAGGC
1 TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
* * *
1993 TGAAGC-AAACACTGAAGCAAAAGCAAAAGCTGAA
1 TGAAGCTAAA-GCTGAAGCTAAAGCTAAAGCTGAA
2027 ATAGGAGGAC
Statistics
Matches: 208, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.03
42 201 0.97
43 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (43 bp):
TGAAGCTAAAGCTGAAGCTAAAGCTAAAGCTGAAGCTAAAGGC
Found at i:2022 original size:24 final size:24
Alignment explanation
Indices: 1971--2022 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1961 GCTGAAACTG
* **
1971 AAGCAAAAGCTGAAGCAAAGGCTG
1 AAGCAAAAGCTGAAGCAAAAGCAA
1995 AAGCAAACA-CTGAAGCAAAAGCAA
1 AAGCAAA-AGCTGAAGCAAAAGCAA
2019 AAGC
1 AAGC
2023 TGAAATAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.52, C:0.19, G:0.23, T:0.06
Consensus pattern (24 bp):
AAGCAAAAGCTGAAGCAAAAGCAA
Found at i:2086 original size:6 final size:6
Alignment explanation
Indices: 2068--2193 Score: 94
Period size: 6 Copynumber: 21.0 Consensus size: 6
2058 GTGGTGGTGG
* * * *
2068 TGAAGC CGAAGC TGAAGC TAAAGC TAAAGC TGAAG- -GAAAGGC TAAAGC
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TG-AA-GC TGAAGC
** * ** *
2116 TGAAGC TGAAGC CAAAGC TGAAGC GGAAGC AAAAGC CGAAGC TGAAGC
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC
** * *
2164 TGAAGC AAAAGC CGAAGC TGAAGC CGAAGC
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC
2194 AAACACCGAA
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
4 1 0.01
5 2 0.02
6 89 0.95
7 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.30, T:0.10
Consensus pattern (6 bp):
TGAAGC
Found at i:2097 original size:18 final size:18
Alignment explanation
Indices: 2076--2193 Score: 105
Period size: 18 Copynumber: 6.6 Consensus size: 18
2066 GGTGAAGCCG
*
2076 AAGCTGAAGCTAAAGCTA
1 AAGCTGAAGCTGAAGCTA
2094 AAGCTGAAG--GAAAGGCTA
1 AAGCTGAAGCTG-AA-GCTA
*
2112 AAGCTGAAGCTGAAGCCA
1 AAGCTGAAGCTGAAGCTA
* *
2130 AAGCTGAAGCGGAAGCAA
1 AAGCTGAAGCTGAAGCTA
* *
2148 AAGCCGAAGCTGAAGCTG
1 AAGCTGAAGCTGAAGCTA
** * *
2166 AAGCAAAAGCCGAAGCTG
1 AAGCTGAAGCTGAAGCTA
*
2184 AAGCCGAAGC
1 AAGCTGAAGC
2194 AAACACCGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.02
18 78 0.94
19 2 0.02
20 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.30, T:0.09
Consensus pattern (18 bp):
AAGCTGAAGCTGAAGCTA
Found at i:2181 original size:36 final size:36
Alignment explanation
Indices: 2070--2251 Score: 128
Period size: 36 Copynumber: 5.2 Consensus size: 36
2060 GGTGGTGGTG
* * *
2070 AAGCCGAAGCTGAAGCTAAAGCTAAAGCTGAAGGAA
1 AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
* ** *
2106 AGGCTAAAGCTGAAGCTGAAGCCAAAGCTGAAGC--
1 AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
** * **
2140 --G--GAAGCAAAAGCCGAAGCTGAAGCTGAAGCAA
1 AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
* *
2172 AAGCCGAAGCTGAAGCCGAAGCAAACA-CCGAAGCAA
1 AAGCCGAAGCTGAAGCTGAAGCAAA-AGCTGAAGCAA
* * * *
2208 AAGCCAAAGC-AAAGGCTGAAGCAAAGGCCGAAGCAA
1 AAGCCGAAGCTGAA-GCTGAAGCAAAAGCTGAAGCAA
2244 AAGCCGAA
1 AAGCCGAA
2252 ATAGGAGGAC
Statistics
Matches: 115, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
30 23 0.20
32 1 0.01
34 1 0.01
35 2 0.02
36 87 0.76
37 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.28, T:0.07
Consensus pattern (36 bp):
AAGCCGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAA
Found at i:2194 original size:24 final size:24
Alignment explanation
Indices: 2124--2251 Score: 143
Period size: 24 Copynumber: 5.3 Consensus size: 24
2114 GCTGAAGCTG
* *
2124 AAGCCAAAGCTGAAGCGGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
*
2148 AAGCCGAAGCTGAAGCTGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
2172 AAGCCGAAGCTGAAGCCGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
** *
2196 ACA-CCGAAGCAAAAGCCAAAGCAA
1 A-AGCCGAAGCTGAAGCCGAAGCAA
* * *
2220 AGGCTGAAGC-AAAGGCCGAAGCAA
1 AAGCCGAAGCTGAA-GCCGAAGCAA
2244 AAGCCGAA
1 AAGCCGAA
2252 ATAGGAGGAC
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.03
24 86 0.96
25 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.27, T:0.04
Consensus pattern (24 bp):
AAGCCGAAGCTGAAGCCGAAGCAA
Found at i:2249 original size:12 final size:12
Alignment explanation
Indices: 2136--2251 Score: 126
Period size: 12 Copynumber: 9.7 Consensus size: 12
2126 GCCAAAGCTG
*
2136 AAGCGGAAGCAA
1 AAGCCGAAGCAA
**
2148 AAGCCGAAGCTG
1 AAGCCGAAGCAA
*
2160 AAGCTGAAGCAA
1 AAGCCGAAGCAA
**
2172 AAGCCGAAGCTG
1 AAGCCGAAGCAA
2184 AAGCCGAAGCAA
1 AAGCCGAAGCAA
2196 ACA-CCGAAGCAA
1 A-AGCCGAAGCAA
*
2208 AAGCCAAAGCAA
1 AAGCCGAAGCAA
* *
2220 AGGCTGAAGCAA
1 AAGCCGAAGCAA
*
2232 AGGCCGAAGCAA
1 AAGCCGAAGCAA
2244 AAGCCGAA
1 AAGCCGAA
2252 ATAGGAGGAC
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
11 1 0.01
12 83 0.98
13 1 0.01
ACGTcount: A:0.46, C:0.23, G:0.28, T:0.03
Consensus pattern (12 bp):
AAGCCGAAGCAA
Done.