Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168100.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_346, whole genome shotgun sequence
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: 32569
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Found at i:1521 original size:7 final size:7
Alignment explanation
Indices: 1509--1589 Score: 74
Period size: 7 Copynumber: 10.4 Consensus size: 7
1499 CGTATAGCCC
1509 TATATTT
1 TATATTT
1516 TATATTT
1 TATATTT
1523 T-TATTT
1 TATATTT
1529 TATATTT
1 TATATTT
1536 TATTAATTTT
1 TA-T-A-TTT
1546 TATATTT
1 TATATTT
1553 TATTAATTTT
1 TA-T-A-TTT
1563 TATATTT
1 TATATTT
1570 TATTAATTTT
1 TA-T-A-TTT
1580 TATATTT
1 TATATTT
1587 TAT
1 TAT
1590 TAATTTAAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.09
7 31 0.48
8 6 0.09
9 6 0.09
10 15 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATATTT
Found at i:1548 original size:17 final size:17
Alignment explanation
Indices: 1526--1595 Score: 140
Period size: 17 Copynumber: 4.1 Consensus size: 17
1516 TATATTTTTA
1526 TTTTATATTTTATTAAT
1 TTTTATATTTTATTAAT
1543 TTTTATATTTTATTAAT
1 TTTTATATTTTATTAAT
1560 TTTTATATTTTATTAAT
1 TTTTATATTTTATTAAT
1577 TTTTATATTTTATTAAT
1 TTTTATATTTTATTAAT
1594 TT
1 TT
1596 AAAATATTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTATTAAT
Found at i:1606 original size:34 final size:34
Alignment explanation
Indices: 1530--1609 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
1520 TTTTTATTTT
**
1530 ATATTTTATTAATTTTTATATTTTATTAATTTTT
1 ATATTTTATTAATTTTTATATTTTATTAATTTAA
1564 ATATTTTATTAATTTTTATATTTTATTAATTTAA
1 ATATTTTATTAATTTTTATATTTTATTAATTTAA
1598 A-ATATTTATTAA
1 ATAT-TTTATTAA
1610 ATTAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
33 2 0.05
34 41 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (34 bp):
ATATTTTATTAATTTTTATATTTTATTAATTTAA
Found at i:1626 original size:23 final size:23
Alignment explanation
Indices: 1596--1643 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1586 TTATTAATTT
1596 AAAATATTTATTAAATTAATAAA
1 AAAATATTTATTAAATTAATAAA
1619 AAAATATTTATTAAATTAATAAA
1 AAAATATTTATTAAATTAATAAA
1642 AA
1 AA
1644 TGAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATTTATTAAATTAATAAA
Found at i:1874 original size:2 final size:2
Alignment explanation
Indices: 1867--2034 Score: 57
Period size: 2 Copynumber: 92.5 Consensus size: 2
1857 AATCTCATAA
* *
1867 AT AT AT AT A- AT AT AT AT -T AA AT AT AT AT AT AT AG AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
1906 AT AT AT A- AG AT A- AT AT CT AT A- AA AG AT AT A- AT AT CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
1944 A- AA AT AT A- AA AT AT A- AA AT AA AT -T TT AT CT AT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1980 AT AT AT A- AT TT AT AT AT -T AT AT AT AA AT AT A- AT A- AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2018 AT AT AT AGT -T AT AT AT A
1 AT AT AT A-T AT AT AT AT A
2035 GAATACATTT
Statistics
Matches: 122, Mismatches: 25, Indels: 38
0.66 0.14 0.21
Matches are distributed among these distances:
1 18 0.15
2 103 0.84
3 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1880 original size:9 final size:9
Alignment explanation
Indices: 1866--2022 Score: 89
Period size: 9 Copynumber: 18.1 Consensus size: 9
1856 GAATCTCATA
1866 AATATATAT
1 AATATATAT
1875 AATATATATT
1 AATATATA-T
1885 AA-ATATAT
1 AATATATAT
*
1893 ATATATAGAT
1 A-ATATATAT
1903 AATATATAT
1 AATATATAT
*
1912 AAGATA-AT
1 AATATATAT
*
1920 -ATCTATA-
1 AATATATAT
*
1927 AA-AGATAT
1 AATATATAT
*
1935 AATATCTAT
1 AATATATAT
1944 AA-A-ATAT
1 AATATATAT
* *
1951 AAAATATAA
1 AATATATAT
* *
1960 AATAAATTT
1 AATATATAT
* *
1969 TATCTATAT
1 AATATATAT
*
1978 TA-ATATAT
1 AATATATAT
*
1986 AATTTATAT
1 AATATATAT
*
1995 ATTATATAT
1 AATATATAT
2004 AA-ATATAAT
1 AATATAT-AT
*
2013 AATTTATAT
1 AATATATAT
2022 A
1 A
2023 TAGTTATATA
Statistics
Matches: 110, Mismatches: 26, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
7 11 0.10
8 20 0.18
9 67 0.61
10 12 0.11
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (9 bp):
AATATATAT
Found at i:1881 original size:7 final size:7
Alignment explanation
Indices: 1869--2013 Score: 53
Period size: 7 Copynumber: 21.4 Consensus size: 7
1859 TCTCATAAAT
1869 ATATATA
1 ATATATA
1876 ATATAT-
1 ATATATA
1882 AT-TA-A
1 ATATATA
1887 ATATAT-
1 ATATATA
1893 ATATATA
1 ATATATA
1900 GATA-AT-
1 -ATATATA
1906 ATATATA
1 ATATATA
*
1913 AGATAATA
1 ATAT-ATA
* *
1921 TCTATAAA
1 -ATATATA
*
1929 AGATATA
1 ATATATA
1936 ATATCTATA
1 ATA--TATA
*
1945 AAATATA
1 ATATATA
*
1952 AAATATA
1 ATATATA
*
1959 AAATA-A
1 ATATATA
*
1965 AT-TTTA
1 ATATATA
*
1971 TCTATATTA
1 -ATATA-TA
1980 ATATATA
1 ATATATA
1987 AT-T-T-
1 ATATATA
*
1991 ATATATT
1 ATATATA
1998 ATATATA
1 ATATATA
2005 A-ATATA
1 ATATATA
2011 ATA
1 ATA
2014 ATTTATATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 38
0.66 0.10 0.24
Matches are distributed among these distances:
4 2 0.02
5 10 0.10
6 23 0.22
7 46 0.44
8 13 0.12
9 10 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (7 bp):
ATATATA
Found at i:1896 original size:15 final size:15
Alignment explanation
Indices: 1871--1911 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
1861 TCATAAATAT
1871 ATATAATATATATTAA
1 ATAT-ATATATATTAA
*
1887 ATATATATATA-TAG
1 ATATATATATATTAA
1901 ATA-ATATATAT
1 ATATATATATAT
1912 AAGATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 7 0.30
16 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATATATATATTAA
Found at i:2044 original size:27 final size:27
Alignment explanation
Indices: 1984--2044 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
1974 ATATTAATAT
*
1984 ATAATTTATATATTATATATAAATATA
1 ATAATTTATATATTATATATAAATAGA
*
2011 ATAATTTATATA-TAGT-TATATATAGA
1 ATAATTTATATATTA-TATATAAATAGA
2037 ATACATTT
1 ATA-ATTT
2045 TTTATTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (27 bp):
ATAATTTATATATTATATATAAATAGA
Found at i:2049 original size:30 final size:29
Alignment explanation
Indices: 1973--2039 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 29
1963 AAATTTTATC
*
1973 TATATTAATAT-ATAA-TT-TATATATTA
1 TATATAAATATAATAATTTATATATATTA
1999 TATATAAATATAATAATTTATATATAGTTA
1 TATATAAATATAATAATTTATATATA-TTA
2029 TATATAGAATA
1 TATATA-AATA
2040 CATTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 10 0.29
27 4 0.11
28 2 0.06
29 6 0.17
30 9 0.26
31 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TATATAAATATAATAATTTATATATATTA
Found at i:2101 original size:28 final size:27
Alignment explanation
Indices: 2064--2130 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
2054 TATCTATATT
* * *
2064 TTATAGATATTATATCTTTTTATAGATA
1 TTATATATATTATAT-ATTTAATAGATA
* *
2092 TTATCTATATATATATATTTAATATATA
1 TTATATATAT-TATATATTTAATAGATA
2120 TTATATATATT
1 TTATATATATT
2131 TATGAGATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 1 0.03
28 26 0.81
29 5 0.16
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (27 bp):
TTATATATATTATATATTTAATAGATA
Found at i:2106 original size:19 final size:19
Alignment explanation
Indices: 2054--2106 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2044 TTTTATTTTC
2054 TATCTATATTTTATAGATAT
1 TATCTATA-TTTATAGATAT
* * *
2074 TATATCTTTTTATAGATAT
1 TATCTATATTTATAGATAT
*
2093 TATCTATATATATA
1 TATCTATATTTATA
2107 TATTTAATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (19 bp):
TATCTATATTTATAGATAT
Found at i:2383 original size:23 final size:23
Alignment explanation
Indices: 2353--2400 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2343 TTTCATTTCA
2353 TTTTTATTAATTTAATAAATATT
1 TTTTTATTAATTTAATAAATATT
2376 TTTTTATTAATTTAATAAATATT
1 TTTTTATTAATTTAATAAATATT
2399 TT
1 TT
2401 AAATTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTATTAATTTAATAAATATT
Found at i:2414 original size:22 final size:23
Alignment explanation
Indices: 2366--2414 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
2356 TTATTAATTT
** **
2366 AATAAATATTTTTTTATTAATTT
1 AATAAATATTTTTAAATTAATAA
2389 AATAAATA-TTTTAAATTAATAA
1 AATAAATATTTTTAAATTAATAA
2411 AATA
1 AATA
2415 TAAAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATAAATATTTTTAAATTAATAA
Found at i:2419 original size:7 final size:7
Alignment explanation
Indices: 2407--2487 Score: 74
Period size: 7 Copynumber: 10.4 Consensus size: 7
2397 TTTTAAATTA
2407 ATAAAAT
1 ATAAAAT
2414 ATAAAAATT
1 AT-AAAA-T
2423 AATAAAAT
1 -ATAAAAT
2431 ATAAAAATT
1 AT-AAAA-T
2440 AATAAAAT
1 -ATAAAAT
2448 ATAAAAATT
1 AT-AAAA-T
2457 AATAAAAT
1 -ATAAAAT
2465 ATAAAAT
1 ATAAAAT
2472 A-AAAAT
1 ATAAAAT
2478 ATAAAAT
1 ATAAAAT
2485 ATA
1 ATA
2488 GGGCTATACG
Statistics
Matches: 64, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.09
7 22 0.34
8 15 0.23
9 15 0.23
10 6 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAAAAT
Found at i:2421 original size:17 final size:17
Alignment explanation
Indices: 2401--2470 Score: 140
Period size: 17 Copynumber: 4.1 Consensus size: 17
2391 TAAATATTTT
2401 AAATTAATAAAATATAA
1 AAATTAATAAAATATAA
2418 AAATTAATAAAATATAA
1 AAATTAATAAAATATAA
2435 AAATTAATAAAATATAA
1 AAATTAATAAAATATAA
2452 AAATTAATAAAATATAA
1 AAATTAATAAAATATAA
2469 AA
1 AA
2471 TAAAAATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTAATAAAATATAA
Found at i:2434 original size:24 final size:23
Alignment explanation
Indices: 2407--2487 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 23
2397 TTTTAAATTA
*
2407 ATAAAATATAAAAATTAATAAAAT
1 ATAAAATATAAAAAAT-ATAAAAT
2431 ATAAAA-ATTAATAAAATATAAAAATT
1 ATAAAATA-TAA-AAAATAT-AAAA-T
2457 AATAAAATAT--AAAATA-AAAAT
1 -ATAAAATATAAAAAATATAAAAT
2478 ATAAAATATA
1 ATAAAATATA
2488 GGGCTATACG
Statistics
Matches: 49, Mismatches: 1, Indels: 17
0.73 0.01 0.25
Matches are distributed among these distances:
20 9 0.18
21 1 0.02
22 4 0.08
23 1 0.02
24 17 0.35
25 8 0.16
26 1 0.02
27 7 0.14
28 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
ATAAAATATAAAAAATATAAAAT
Found at i:5821 original size:11 final size:11
Alignment explanation
Indices: 5802--5843 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
5792 TTTTGAGAGA
*
5802 GTCTTTCATTT
1 GTCTATCATTT
5813 GTCTATCA-TT
1 GTCTATCATTT
*
5823 GTCTTTCATTT
1 GTCTATCATTT
5834 GTCTATCATT
1 GTCTATCATT
5844 ATAGGCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.14, C:0.19, G:0.10, T:0.57
Consensus pattern (11 bp):
GTCTATCATTT
Found at i:5826 original size:21 final size:21
Alignment explanation
Indices: 5802--5843 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5792 TTTTGAGAGA
5802 GTCTTTCATTTGTCTATCATT
1 GTCTTTCATTTGTCTATCATT
5823 GTCTTTCATTTGTCTATCATT
1 GTCTTTCATTTGTCTATCATT
5844 ATAGGCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.10, T:0.57
Consensus pattern (21 bp):
GTCTTTCATTTGTCTATCATT
Found at i:6114 original size:10 final size:10
Alignment explanation
Indices: 6086--6182 Score: 50
Period size: 10 Copynumber: 10.3 Consensus size: 10
6076 TCAAGAGTGA
6086 ATTTCTTATT
1 ATTTCTTATT
*
6096 CTTTCTTATT
1 ATTTCTTATT
*
6106 -TCTTATTATT
1 AT-TTCTTATT
*
6116 GAATTT-ATATT
1 --ATTTCTTATT
6127 ATTTCTTA-T
1 ATTTCTTATT
*
6136 -TTT-ATATT
1 ATTTCTTATT
6144 ATTTCTTATT
1 ATTTCTTATT
6154 A--TCTTATT
1 ATTTCTTATT
6162 A--TCTTATT
1 ATTTCTTATT
**
6170 ATTGATTATT
1 ATTTCTTATT
6180 ATT
1 ATT
6183 GACTATTGAC
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
7 2 0.03
8 20 0.29
9 9 0.13
10 31 0.45
11 4 0.06
12 2 0.03
13 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTCTTATT
Found at i:6160 original size:20 final size:17
Alignment explanation
Indices: 6119--6153 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6109 TATTATTGAA
6119 TTTATATTATTTCTTAT
1 TTTATATTATTTCTTAT
6136 TTTATATTATTTCTTAT
1 TTTATATTATTTCTTAT
6153 T
1 T
6154 ATCTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTATTTCTTAT
Found at i:6276 original size:20 final size:20
Alignment explanation
Indices: 6248--6332 Score: 88
Period size: 20 Copynumber: 4.3 Consensus size: 20
6238 ATTGACTTAT
*
6248 TATTGAATTTATATATTTTA
1 TATTTAATTTATATATTTTA
6268 TATTTAATTTATATATTTTA
1 TATTTAATTTATATATTTTA
*
6288 TATATATATTT-TATA-TTTA
1 TATTTA-ATTTATATATTTTA
*
6307 TAATTCTAA-TTATA-ATTATA
1 T-ATT-TAATTTATATATTTTA
6327 TATTTA
1 TATTTA
6333 TAATATTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
18 2 0.04
19 11 0.20
20 37 0.66
21 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (20 bp):
TATTTAATTTATATATTTTA
Found at i:6282 original size:13 final size:13
Alignment explanation
Indices: 6262--6340 Score: 58
Period size: 13 Copynumber: 5.9 Consensus size: 13
6252 GAATTTATAT
6262 ATTT-TATATTTA
1 ATTTATATATTTA
*
6274 ATTTATATATTTT
1 ATTTATATATTTA
*
6287 ATATATATATTTTA
1 ATTTATATA-TTTA
6301 TATTTATA-ATTCTA
1 -ATTTATATATT-TA
6315 A-TTATA-ATTATA
1 ATTTATATATT-TA
6327 TATTTATAATATTT
1 -ATTTAT-ATATTT
6341 CTATTTCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
12 14 0.26
13 19 0.35
14 10 0.19
15 8 0.15
16 3 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTATATATTTA
Found at i:6327 original size:33 final size:32
Alignment explanation
Indices: 6256--6340 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 32
6246 ATTATTGAAT
* *
6256 TTATATATTTTATATTTAATTTATATATTTTA
1 TTATATATTTTATATTTAAATTATATATTTAA
*
6288 TATATATATTTTATATTTATAATTCTA-ATTATAA
1 T-TATATATTTTATATTTA-AATTATATATT-TAA
6322 TTATATATTTATAATATTT
1 TTATATATTT-T-ATATTT
6341 CTATTTCATT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.02
33 29 0.64
34 9 0.20
35 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (32 bp):
TTATATATTTTATATTTAAATTATATATTTAA
Found at i:6450 original size:17 final size:17
Alignment explanation
Indices: 6428--6464 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6418 TGCGCCATAC
6428 ATATGAAAGAATATAGA
1 ATATGAAAGAATATAGA
6445 ATATGAAAGAATATAGA
1 ATATGAAAGAATATAGA
6462 ATA
1 ATA
6465 ATGATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.24
Consensus pattern (17 bp):
ATATGAAAGAATATAGA
Found at i:8257 original size:23 final size:23
Alignment explanation
Indices: 8227--8275 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
8217 GAATAGAAAC
8227 TTATTGTATTAGTAGACGAGATT
1 TTATTGTATTAGTAGACGAGATT
*
8250 TTATTGTATTAGTAGACGATATT
1 TTATTGTATTAGTAGACGAGATT
8273 TTA
1 TTA
8276 CGAAAAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (23 bp):
TTATTGTATTAGTAGACGAGATT
Found at i:8881 original size:18 final size:18
Alignment explanation
Indices: 8858--8893 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8848 TTTAATTAGG
8858 GATAGTAATCAGGATAAT
1 GATAGTAATCAGGATAAT
8876 GATAGTAATCAGGATAAT
1 GATAGTAATCAGGATAAT
8894 TATTCTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (18 bp):
GATAGTAATCAGGATAAT
Found at i:9198 original size:36 final size:36
Alignment explanation
Indices: 9146--9370 Score: 441
Period size: 36 Copynumber: 6.2 Consensus size: 36
9136 TAGTGAAGAC
*
9146 AATGGTTTAACTCTAAAAGAAAGTTGCGCAAATGGT
1 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
9182 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
1 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
9218 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
1 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
9254 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
1 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
9290 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
1 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
9326 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
1 AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
9362 AATGATTTA
1 AATGATTTA
9371 GAAAGGCCTA
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 188 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (36 bp):
AATGATTTAACTCTAAAAGAAAGTTGCGCAAATGGT
Found at i:9635 original size:36 final size:36
Alignment explanation
Indices: 9586--9679 Score: 179
Period size: 36 Copynumber: 2.6 Consensus size: 36
9576 ATCCCATTGA
*
9586 ATTTCAGTATGACGAAGATGGTATTGATTATGATCC
1 ATTTCAGTCTGACGAAGATGGTATTGATTATGATCC
9622 ATTTCAGTCTGACGAAGATGGTATTGATTATGATCC
1 ATTTCAGTCTGACGAAGATGGTATTGATTATGATCC
9658 ATTTCAGTCTGACGAAGATGGT
1 ATTTCAGTCTGACGAAGATGGT
9680 TCTGACGAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (36 bp):
ATTTCAGTCTGACGAAGATGGTATTGATTATGATCC
Found at i:9698 original size:24 final size:24
Alignment explanation
Indices: 9666--9857 Score: 384
Period size: 24 Copynumber: 8.0 Consensus size: 24
9656 CCATTTCAGT
9666 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9690 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9714 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9738 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9762 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9786 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9810 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9834 CTGACGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
9858 ATGGTATTGA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 168 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (24 bp):
CTGACGAAGATGGTTCTGACGAAG
Found at i:9954 original size:21 final size:21
Alignment explanation
Indices: 9930--10328 Score: 365
Period size: 21 Copynumber: 19.0 Consensus size: 21
9920 TCTGATCCAT
*
9930 TTCAGTATGACGAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
*
9951 TTCAGTATGACGAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
9972 TTCAGTATGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
*
9993 TTCAGTTTGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
10014 TTCAGTATGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
* *
10035 TTCAGTTTAACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
* * * * ** *
10056 AT-GGTATTA-ATTATGATCCAT
1 TTCAGTATGACA--AAGATAAAG
* *
10077 TTCAGTTTAACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
* * * **** ** *
10098 AT-GGTCTTGATTCTGATCCAT
1 TTCAGT-ATGACAAAGATAAAG
*
10119 TTCAGTATGACGAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
*
10140 TTCAGTATGACGAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
10161 TTCAGTATGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
* *
10182 TTCAGTTTGACGAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
* * **** ** *
10203 AT-GGTATTGATTCTGATCCAT
1 TTCAGTA-TGACAAAGATAAAG
*
10224 TTCAGTATGACGAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
10245 TTCAGTATGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
*
10266 TTCAGTTTGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
*
10287 TTCAGTTTGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
*
10308 TTCAGTTTGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAG
10329 ATAAAGATGG
Statistics
Matches: 305, Mismatches: 65, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
19 1 0.00
20 8 0.03
21 286 0.94
22 9 0.03
23 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
TTCAGTATGACAAAGATAAAG
Found at i:10093 original size:147 final size:147
Alignment explanation
Indices: 9908--10328 Score: 619
Period size: 147 Copynumber: 2.9 Consensus size: 147
9898 GCCTTATATG
*
9908 GATGGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAGTTCAGTATGACGAAGATAAAGT
1 GATGGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAGTTCAGTATGACAAAGATAAAGT
9973 TCAGTATGACAAAGATAAAGTTCAGTTTGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTTC
66 TCAGTATGACAAAGATAAAGTTCAGTTTGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTTC
10038 AGTTTAACAAAGATAAA
131 AGTTTAACAAAGATAAA
* * * * * * * * **** ** *
10055 GATGGTATTAATTATGATCCATTTCAGTTTAACAAAGATAAAGAT-GGTCTTGATTCTGATCCAT
1 GATGGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAGTTCAGT-ATGACAAAGATAAAG
* * *
10119 TTCAGTATGACGAAGATAAAGTTCAGTATGACGAAGATAAAGTTCAGTATGACAAAGATAAAGTT
65 TTCAGTATGACAAAGATAAAGTTCAGTTTGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTT
* *
10184 CAGTTTGACGAAGATAAA
130 CAGTTTAACAAAGATAAA
10202 GATGGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAGTTCAGTATGACAAAGATAAAGT
1 GATGGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAGTTCAGTATGACAAAGATAAAGT
* *
10267 TCAGTTTGACAAAGATAAAGTTCAGTTTGACAAAGATAAAGTTCAGTTTGACAAAGATAAAG
66 TCAGTATGACAAAGATAAAGTTCAGTTTGACAAAGATAAAGTTCAGTATGACAAAGATAAAG
10329 ATAAAGATGG
Statistics
Matches: 232, Mismatches: 40, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
146 2 0.01
147 228 0.98
148 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (147 bp):
GATGGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAGTTCAGTATGACAAAGATAAAGT
TCAGTATGACAAAGATAAAGTTCAGTTTGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTTC
AGTTTAACAAAGATAAA
Found at i:10123 original size:105 final size:105
Alignment explanation
Indices: 9930--10307 Score: 429
Period size: 105 Copynumber: 3.6 Consensus size: 105
9920 TCTGATCCAT
* * * * * *
9930 TTCAGTATGACGAAGATAAAGTTCAGTATGACGAAGATAAAGTTCAGTATGACAAAGATAAAGTT
1 TTCAGTATGACAAAGATAAAGATCAGTATGACAAAGATAAAGTTCAGTTTAACAAAGATAAAGAT
* **** ** * *
9995 CAGT-TTGACAAAGATAAAGTTCAGTATGACAAAGATAAAG
66 -GGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAG
* * * * * ** *
10035 TTCAGTTTAACAAAGATAAAGAT-GGTATTA-ATTATGATCCATTTCAGTTTAACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAGATCAGTATGACA--AAGATAAAGTTCAGTTTAACAAAGATAAAG
*
10098 ATGGTCTTGATTCTGATCCATTTCAGTATGACGAAGATAAAG
64 ATGGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAG
* * * *
10140 TTCAGTATGACGAAGATAAAGTTCAGTATGACAAAGATAAAGTTCAGTTTGACGAAGATAAAGAT
1 TTCAGTATGACAAAGATAAAGATCAGTATGACAAAGATAAAGTTCAGTTTAACAAAGATAAAGAT
10205 GGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAG
66 GGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAG
* * *
10245 TTCAGTATGACAAAGATAAAGTTCAGTTTGACAAAGATAAAGTTCAGTTTGACAAAGATAAAG
1 TTCAGTATGACAAAGATAAAGATCAGTATGACAAAGATAAAGTTCAGTTTAACAAAGATAAAG
10308 TTCAGTTTGA
Statistics
Matches: 229, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
104 7 0.03
105 216 0.94
106 5 0.02
107 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (105 bp):
TTCAGTATGACAAAGATAAAGATCAGTATGACAAAGATAAAGTTCAGTTTAACAAAGATAAAGAT
GGTATTGATTCTGATCCATTTCAGTATGACGAAGATAAAG
Found at i:10384 original size:42 final size:42
Alignment explanation
Indices: 10182--10414 Score: 173
Period size: 42 Copynumber: 5.4 Consensus size: 42
10172 AAAGATAAAG
* *
10182 TTCAGTTTGACGAAGATAAAGATGGTATTGATTCTGATCCAT
1 TTCAGTTTGACAAAGATAAAGATGGTATTGATTATGATCCAT
* * * * ** * ** *
10224 TTCAGTATGACGAAGATAAAGTTCAGTA-TGACAAAGATAAAG
1 TTCAGTTTGACAAAGATAAAGAT-GGTATTGATTATGATCCAT
* * ** * ** *
10266 TTCAGTTTGACAAAGATAAAGTTCAGT-TTGACAAAGATAAAG
1 TTCAGTTTGACAAAGATAAAGAT-GGTATTGATTATGATCCAT
10308 TTCAGTTTGACAAAGATAAAGATAAAGATGGTATTGATTATGATCCAT
1 TTCAGTTTGAC------AAAGATAAAGATGGTATTGATTATGATCCAT
*
10356 TTCAGTTTGACAAAGATAAAGATGGTATTGATTCTGATCCAT
1 TTCAGTTTGACAAAGATAAAGATGGTATTGATTATGATCCAT
* *
10398 TTCAGTATGACGAAGAT
1 TTCAGTTTGACAAAGAT
10415 GGTATTGATT
Statistics
Matches: 159, Mismatches: 23, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
42 123 0.77
43 3 0.02
47 2 0.01
48 31 0.19
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.31
Consensus pattern (42 bp):
TTCAGTTTGACAAAGATAAAGATGGTATTGATTATGATCCAT
Found at i:10421 original size:36 final size:36
Alignment explanation
Indices: 10332--10485 Score: 191
Period size: 36 Copynumber: 4.1 Consensus size: 36
10322 GATAAAGATA
* *
10332 AAGATGGTATTGATTATGATCCATTTCAGTTTGACAAAG
1 AAGATGGTATTGATTCTGATCCATTTCAGTATGAC---G
10371 ATAAAGATGGTATTGATTCTGATCCATTTCAGTATGACG
1 ---AAGATGGTATTGATTCTGATCCATTTCAGTATGACG
* * *
10410 AAGATGGTATTGATTCTTATCCGTTTGAGTATGACG
1 AAGATGGTATTGATTCTGATCCATTTCAGTATGACG
* *
10446 AAGATGGTATTGATTCTGATCCGTTTGAGTATGACG
1 AAGATGGTATTGATTCTGATCCATTTCAGTATGACG
10482 AAGA
1 AAGA
10486 GCCCTATAAA
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
36 72 0.68
39 1 0.01
42 33 0.31
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (36 bp):
AAGATGGTATTGATTCTGATCCATTTCAGTATGACG
Found at i:11392 original size:22 final size:22
Alignment explanation
Indices: 11365--11408 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11355 AATCTTTCGA
11365 CAATTTGTAATAAACTCTTTCT
1 CAATTTGTAATAAACTCTTTCT
11387 CAATTTGTAATAAACTCTTTCT
1 CAATTTGTAATAAACTCTTTCT
11409 TTATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (22 bp):
CAATTTGTAATAAACTCTTTCT
Found at i:11646 original size:17 final size:17
Alignment explanation
Indices: 11624--11713 Score: 126
Period size: 17 Copynumber: 5.0 Consensus size: 17
11614 ATATACTCGC
11624 TTAGATATACTTAGTAT
1 TTAGATATACTTAGTAT
11641 TTAGATATACTTAGTAT
1 TTAGATATACTTAGTAT
11658 TTAGATATACTTAGTATAATAT
1 TTAGATATACTTAG-----TAT
11680 TTAGATATACTTAGTAT
1 TTAGATATACTTAGTAT
*
11697 TTCGATATACTTAGTAT
1 TTAGATATACTTAGTAT
11714 AATATTTAGA
Statistics
Matches: 67, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
17 50 0.75
22 17 0.25
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (17 bp):
TTAGATATACTTAGTAT
Found at i:11680 original size:22 final size:22
Alignment explanation
Indices: 11655--11740 Score: 128
Period size: 22 Copynumber: 4.1 Consensus size: 22
11645 ATATACTTAG
11655 TATTTAGATATACTTAGTATAA
1 TATTTAGATATACTTAGTATAA
11677 TATTTAGATATACTTAG-----
1 TATTTAGATATACTTAGTATAA
*
11694 TATTTCGATATACTTAGTATAA
1 TATTTAGATATACTTAGTATAA
11716 TATTTAGATATACTTAGTATAA
1 TATTTAGATATACTTAGTATAA
11738 TAT
1 TAT
11741 ACGAATTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
17 16 0.28
22 41 0.72
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
TATTTAGATATACTTAGTATAA
Found at i:11692 original size:39 final size:39
Alignment explanation
Indices: 11638--11735 Score: 187
Period size: 39 Copynumber: 2.5 Consensus size: 39
11628 ATATACTTAG
11638 TATTTAGATATACTTAGTATTTAGATATACTTAGTATAA
1 TATTTAGATATACTTAGTATTTAGATATACTTAGTATAA
*
11677 TATTTAGATATACTTAGTATTTCGATATACTTAGTATAA
1 TATTTAGATATACTTAGTATTTAGATATACTTAGTATAA
11716 TATTTAGATATACTTAGTAT
1 TATTTAGATATACTTAGTAT
11736 AATATACGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (39 bp):
TATTTAGATATACTTAGTATTTAGATATACTTAGTATAA
Found at i:16335 original size:17 final size:17
Alignment explanation
Indices: 16313--16346 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16303 TTAGATTTAC
16313 TTATAATAGATAATAGA
1 TTATAATAGATAATAGA
16330 TTATAATAGATAATAGA
1 TTATAATAGATAATAGA
16347 ATAAGTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (17 bp):
TTATAATAGATAATAGA
Found at i:16390 original size:21 final size:20
Alignment explanation
Indices: 16333--16463 Score: 90
Period size: 20 Copynumber: 6.2 Consensus size: 20
16323 TAATAGATTA
*
16333 TAAT-AGATAATAGAATAAG
1 TAATAAGATAATATAATAAG
**
16352 TAATAA-AGTAATCGAATAAG
1 TAATAAGA-TAATATAATAAG
16372 TAATAAGGATAATATAATAAG
1 TAATAA-GATAATATAATAAG
*
16393 T-ATAAAATAAGTATAAATAAG
1 TAATAAGATAA-TAT-AATAAG
16414 TATAAAATAAGTATAAGTATAAATAAG
1 --T--AATAAG-ATAA-TAT-AATAAG
*
16441 T-ATAATATAATATAATAAG
1 TAATAAGATAATATAATAAG
16460 TAAT
1 TAAT
16464 GGACAACCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
19 16 0.17
20 30 0.32
21 21 0.23
22 5 0.05
23 1 0.01
25 1 0.01
26 4 0.04
27 15 0.16
ACGTcount: A:0.58, C:0.01, G:0.11, T:0.30
Consensus pattern (20 bp):
TAATAAGATAATATAATAAG
Found at i:16397 original size:27 final size:25
Alignment explanation
Indices: 16373--16450 Score: 92
Period size: 21 Copynumber: 3.2 Consensus size: 25
16363 TCGAATAAGT
16373 AATAAGGATAATATAATAAGTATAA
1 AATAAGGATAATATAATAAGTATAA
16398 AATAA-G-T-ATA-AATAAGTATAA
1 AATAAGGATAATATAATAAGTATAA
*
16419 AATAAGTATAAGTATAAATAAGTATAA
1 AATAAGGATAA-TAT-AATAAGTATAA
*
16446 TATAA
1 AATAA
16451 TATAATAAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 16 0.36
22 3 0.07
23 2 0.04
24 2 0.04
25 7 0.16
27 15 0.33
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.29
Consensus pattern (25 bp):
AATAAGGATAATATAATAAGTATAA
Found at i:16401 original size:11 final size:11
Alignment explanation
Indices: 16387--16429 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
16377 AGGATAATAT
16387 AATAAGTATAA
1 AATAAGTATAA
16398 AATAAGTAT-A
1 AATAAGTATAA
16408 AATAAGTATAA
1 AATAAGTATAA
16419 AATAAGTATAA
1 AATAAGTATAA
16430 GTATAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.32
11 21 0.68
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (11 bp):
AATAAGTATAA
Found at i:16402 original size:32 final size:31
Alignment explanation
Indices: 16366--16461 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 31
16356 AAAGTAATCG
*
16366 AATAAGTAATAAGGATAATATAATAAGTATAA
1 AATAAGTAATAAGTATAATATAATAAGTAT-A
*
16398 AATAAGTATAAATAAGTATAAAATAAGTATAAGTATA
1 AATAAG--T-AATAAGTATAATAT-A--ATAAGTATA
16435 AATAAGT-ATAA-TATAATATAATAAGTA
1 AATAAGTAATAAGTATAATATAATAAGTA
16462 ATGGACAACC
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
29 7 0.13
31 1 0.02
32 13 0.24
33 4 0.07
34 1 0.02
35 13 0.24
36 1 0.02
37 7 0.13
38 8 0.15
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.30
Consensus pattern (31 bp):
AATAAGTAATAAGTATAATATAATAAGTATA
Found at i:16652 original size:13 final size:13
Alignment explanation
Indices: 16636--16705 Score: 85
Period size: 13 Copynumber: 5.5 Consensus size: 13
16626 AAAAAAAAAG
16636 AAATATTAAAATT
1 AAATATTAAAATT
16649 AAATATTAAAATATT
1 AAATATT-AAA-ATT
16664 AAA-ATTAAATATT
1 AAATATTAAA-ATT
16677 AAA-A--AAAATT
1 AAATATTAAAATT
16687 AAATATTAAAATT
1 AAATATTAAAATT
16700 AAATAT
1 AAATAT
16706 ATATTGTGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.12
11 4 0.08
13 30 0.58
14 6 0.12
15 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATTAAAATT
Found at i:16660 original size:21 final size:21
Alignment explanation
Indices: 16636--16698 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
16626 AAAAAAAAAG
16636 AAATATTAAAATTAAATATTA
1 AAATATTAAAATTAAATATTA
16657 AAATATTAAAATTAAATATT-
1 AAATATTAAAATTAAATATTA
16677 AAA-A--AAAATTAAATATTA
1 AAATATTAAAATTAAATATTA
16695 AAAT
1 AAAT
16699 TAAATATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.32
18 3 0.08
19 1 0.03
20 3 0.08
21 20 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATTAAAATTAAATATTA
Found at i:20157 original size:22 final size:22
Alignment explanation
Indices: 20126--20176 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
20116 GTTGTTTTTA
*
20126 GAATTATAATTATATAAGAAAT
1 GAATTCTAATTATATAAGAAAT
20148 GAATTCTAATTATATAAGAAAT
1 GAATTCTAATTATATAAGAAAT
20170 -AATTCTA
1 GAATTCTA
20177 TTTAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
GAATTCTAATTATATAAGAAAT
Found at i:21244 original size:25 final size:25
Alignment explanation
Indices: 21211--21262 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
21201 ATTATTTATT
*
21211 TTTTTAGTTTACCGTCTTCGAATGA
1 TTTTTAGTTTACAGTCTTCGAATGA
21236 TTTTTAGTTTACAGTCTTCGAATGA
1 TTTTTAGTTTACAGTCTTCGAATGA
21261 TT
1 TT
21263 AGGAGTTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.50
Consensus pattern (25 bp):
TTTTTAGTTTACAGTCTTCGAATGA
Found at i:21269 original size:25 final size:25
Alignment explanation
Indices: 21216--21269 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
21206 TTATTTTTTT
* ***
21216 AGTTTACCGTCTTCGAATGATTTTT
1 AGTTTACAGTCTTCGAATGATTAGG
21241 AGTTTACAGTCTTCGAATGATTAGG
1 AGTTTACAGTCTTCGAATGATTAGG
21266 AGTT
1 AGTT
21270 GGATTTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (25 bp):
AGTTTACAGTCTTCGAATGATTAGG
Found at i:21369 original size:15 final size:15
Alignment explanation
Indices: 21349--21398 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 15
21339 CATAATGATT
21349 ATTTTAATATTGTTA
1 ATTTTAATATTGTTA
21364 ATTTTAATATTGTTGTTA
1 ATTTTAATA---TTGTTA
21382 ATTTTAATATTGTTA
1 ATTTTAATATTGTTA
21397 AT
1 AT
21399 ATTGTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 17 0.53
18 15 0.47
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (15 bp):
ATTTTAATATTGTTA
Found at i:21381 original size:18 final size:18
Alignment explanation
Indices: 21358--21395 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
21348 TATTTTAATA
21358 TTGTTAATTTTAATATTG
1 TTGTTAATTTTAATATTG
21376 TTGTTAATTTTAATATTG
1 TTGTTAATTTTAATATTG
21394 TT
1 TT
21396 AATATTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (18 bp):
TTGTTAATTTTAATATTG
Found at i:21417 original size:17 final size:17
Alignment explanation
Indices: 21397--21430 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21387 AATATTGTTA
*
21397 ATATTGTATTATTTATT
1 ATATTGTATGATTTATT
21414 ATATTGTATGATTTATT
1 ATATTGTATGATTTATT
21431 CATTACTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
ATATTGTATGATTTATT
Found at i:21454 original size:19 final size:19
Alignment explanation
Indices: 21432--21481 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
21422 TGATTTATTC
*
21432 ATTACTATATTTTTTAGTT
1 ATTACTATATTTTGTAGTT
*
21451 ATTACTATATTTTGTATTT
1 ATTACTATATTTTGTAGTT
21470 ATTACTATATTT
1 ATTACTATATTT
21482 CATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (19 bp):
ATTACTATATTTTGTAGTT
Found at i:21499 original size:19 final size:19
Alignment explanation
Indices: 21465--21520 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
21455 CTATATTTTG
*
21465 TATTTATTACTATATTTCAT
1 TATTTATTTCT-TATTTCAT
*
21485 TATTTATTTCTTATTTTAT
1 TATTTATTTCTTATTTCAT
* *
21504 TAATTATTTATTATTTC
1 TATTTATTTCTTATTTC
21521 GTGTCGGTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTATTTCTTATTTCAT
Found at i:21500 original size:38 final size:38
Alignment explanation
Indices: 21427--21501 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
21417 TTGTATGATT
*
21427 TATTCATTACTATATTTTTTAGTTATTACTATATTTTG
1 TATTCATTACTATATTTATTAGTTATTACTATATTTTG
* * *
21465 TATTTATTACTATATTTCATTATTTATTTCT-TATTTT
1 TATTCATTACTATATTT-ATTAGTTATTACTATATTTT
21502 ATTAATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 22 0.69
39 10 0.31
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (38 bp):
TATTCATTACTATATTTATTAGTTATTACTATATTTTG
Found at i:21567 original size:17 final size:17
Alignment explanation
Indices: 21531--21653 Score: 53
Period size: 17 Copynumber: 7.4 Consensus size: 17
21521 GTGTCGGTTC
21531 TATATATATTTATAAAT
1 TATATATATTTATAAAT
* *
21548 TATATTTATTTAT-TAT
1 TATATATATTTATAAAT
* *
21564 T-TATGTA-TTATCACAGT
1 TATATATATTTAT-A-AAT
*
21581 TATAGATATTTAT---T
1 TATATATATTTATAAAT
* *
21595 TAAATTATATTTATATAT
1 TATA-TATATTTATAAAT
* *
21613 TAAATATA-TTAAAATAT
1 TATATATATTTATAA-AT
* **
21630 TAAATATATTTATATTT
1 TATATATATTTATAAAT
21647 TATATAT
1 TATATAT
21654 TAAATATATT
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
14 8 0.10
15 13 0.16
16 7 0.09
17 35 0.44
18 13 0.16
19 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TATATATATTTATAAAT
Found at i:21634 original size:7 final size:8
Alignment explanation
Indices: 21609--21704 Score: 68
Period size: 9 Copynumber: 11.5 Consensus size: 8
21599 TTATATTTAT
21609 ATATTAAA
1 ATATTAAA
21617 TATATTAAA
1 -ATATTAAA
21626 ATATTAAA
1 ATATTAAA
* *
21634 TATATTTAT
1 -ATATTAAA
* *
21643 AT-TTTAT
1 ATATTAAA
21650 ATATTAAA
1 ATATTAAA
21658 TATATTAAA
1 -ATATTAAA
* *
21667 ATATGAATT
1 ATATTAA-A
* *
21676 ATATTTAT
1 ATATTAAA
21684 ATATTAAA
1 ATATTAAA
21692 TATATTAAA
1 -ATATTAAA
21701 ATAT
1 ATAT
21705 GAAATTATAT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
7 7 0.10
8 30 0.42
9 35 0.49
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (8 bp):
ATATTAAA
Found at i:21639 original size:34 final size:35
Alignment explanation
Indices: 21596--21717 Score: 174
Period size: 34 Copynumber: 3.3 Consensus size: 35
21586 ATATTTATTT
*
21596 AAATTATATTTATATATTAAATATATTAAAATATTAA
1 AAATTATATTTATATATTAAATATATTAAAATA-T-G
21633 ATATATTTATATTTTATATATTAAATATATTAAAATATG
1 A-A-A-TTATA-TTTATATATTAAATATATTAAAATATG
21672 -AATTATATTTATATATTAAATATATTAAAATATG
1 AAATTATATTTATATATTAAATATATTAAAATATG
21706 AAATTATATTTA
1 AAATTATATTTA
21718 AATAAATATC
Statistics
Matches: 79, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
34 27 0.34
35 16 0.20
36 1 0.01
37 2 0.03
38 1 0.01
39 1 0.01
40 6 0.08
41 25 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (35 bp):
AAATTATATTTATATATTAAATATATTAAAATATG
Found at i:21649 original size:41 final size:40
Alignment explanation
Indices: 21599--21717 Score: 160
Period size: 41 Copynumber: 3.1 Consensus size: 40
21589 TTTATTTAAA
21599 TTATATTTATATATTAAATATATTAAAATATTAAATATAT
1 TTATATTTATATATTAAATATATTAAAATATTAAATATAT
*
21639 TTATATTTTATATATTAAATATATTAAAATA-T---GA-A-
1 TTATA-TTTATATATTAAATATATTAAAATATTAAATATAT
*
21674 TTATATTTATATATTAAATATATTAAAATATGAAATTATAT
1 TTATATTTATATATTAAATATATTAAAATATTAAA-TATAT
21715 TTA
1 TTA
21718 AATAAATATC
Statistics
Matches: 68, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
34 25 0.37
35 5 0.07
36 1 0.01
37 1 0.01
39 1 0.01
40 7 0.10
41 28 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (40 bp):
TTATATTTATATATTAAATATATTAAAATATTAAATATAT
Found at i:21670 original size:17 final size:17
Alignment explanation
Indices: 21594--21721 Score: 103
Period size: 17 Copynumber: 7.0 Consensus size: 17
21584 AGATATTTAT
* *
21594 TTAAATTATATTTATATA
1 TTAAA-TATATTAAAATA
21612 TTAAATATATTAAAATA
1 TTAAATATATTAAAATA
21629 TTAAATATATTTATATTTTATATA
1 TTAAATATA-TTA-A----A-ATA
21653 TTAAATATATTAAAATA
1 TTAAATATATTAAAATA
* * * *
21670 TGAATTATATTTATATA
1 TTAAATATATTAAAATA
21687 TTAAATATATTAAAATA
1 TTAAATATATTAAAATA
* *
21704 TGAAATTATATTTAAATA
1 TTAAA-TATATTAAAATA
21722 AATATCTATA
Statistics
Matches: 90, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
17 52 0.58
18 20 0.22
19 1 0.01
22 1 0.01
23 4 0.04
24 12 0.13
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAAATATATTAAAATA
Found at i:21736 original size:4 final size:4
Alignment explanation
Indices: 21729--21856 Score: 85
Period size: 4 Copynumber: 32.2 Consensus size: 4
21719 ATAAATATCT
*
21729 ATAA AT-A ATATA AT-A ATAAA ATAA ACT-A ATAAA ATAA ACAA ATAA
1 ATAA ATAA ATA-A ATAA AT-AA ATAA A-TAA AT-AA ATAA ATAA ATAA
* *
21774 AT-A ATAA ATAA ATAA TTAAA ATAA ACT-A ATAAA ATAA ACAA ATAA AT-A
1 ATAA ATAA ATAA ATAA AT-AA ATAA A-TAA AT-AA ATAA ATAA ATAA ATAA
*
21822 AGAA ATAA AT-A ATAA ATAA AT-A ATACA AT-A ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA A
21857 AAAACAAAGC
Statistics
Matches: 99, Mismatches: 8, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
3 22 0.22
4 57 0.58
5 20 0.20
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:21751 original size:13 final size:13
Alignment explanation
Indices: 21742--21819 Score: 82
Period size: 13 Copynumber: 6.5 Consensus size: 13
21732 AATAATATAA
21742 TAATAAAATAAAC
1 TAATAAAATAAAC
21755 TAATAAAATAAAC
1 TAATAAAATAAAC
21768 -----AAATAAA-
1 TAATAAAATAAAC
21775 TAAT-AAATAAA-
1 TAATAAAATAAAC
21786 TAATTAAAATAAAC
1 TAA-TAAAATAAAC
21800 TAATAAAATAAAC
1 TAATAAAATAAAC
*
21813 AAATAAA
1 TAATAAA
21820 TAAGAAATAA
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
8 7 0.12
11 10 0.18
12 1 0.02
13 36 0.63
14 3 0.05
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (13 bp):
TAATAAAATAAAC
Found at i:21856 original size:45 final size:44
Alignment explanation
Indices: 21735--21852 Score: 186
Period size: 45 Copynumber: 2.7 Consensus size: 44
21725 ATCTATAAAT
*
21735 AATATAATAATAAAATAAACTAATAAAATAAACAAATAAATAATA
1 AATA-AATAATAAAATAAACTAATAAAATAAACAAATAAATAAGA
21780 AATAAATAATTAAAATAAACTAATAAAATAAACAAATAAATAAGA
1 AATAAATAA-TAAAATAAACTAATAAAATAAACAAATAAATAAGA
*
21825 AATAAATAAT-AAATAAA-TAATACAATAA
1 AATAAATAATAAAATAAACTAATAAAATAA
21853 TAAAAAAACA
Statistics
Matches: 70, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
42 10 0.14
43 7 0.10
44 6 0.09
45 47 0.67
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.24
Consensus pattern (44 bp):
AATAAATAATAAAATAAACTAATAAAATAAACAAATAAATAAGA
Found at i:23974 original size:30 final size:30
Alignment explanation
Indices: 23940--24090 Score: 302
Period size: 30 Copynumber: 5.0 Consensus size: 30
23930 AAATGGTGTT
23940 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
23970 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24000 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24030 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24060 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24090 C
1 C
24091 TCAATGTGTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 121 1.00
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (30 bp):
CCATTGTCGTCAAATGGTGGTCTTCCATTG
Found at i:24013 original size:60 final size:60
Alignment explanation
Indices: 23940--24230 Score: 483
Period size: 60 Copynumber: 4.7 Consensus size: 60
23930 AAATGGTGTT
23940 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
24000 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
24060 CCATTGTCGTCAAATGGTGGTCTTCCATTGCTCAATGTGTTCCATTGTCGTCAAATGGTGGTCTT
1 CCATTGTCGTCAAATGGTGG---T-C-TT-C-C-AT-TG--CCATTGTCGTCAAATGGTGGTCTT
24125 CCATTG
55 CCATTG
24131 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
24191 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGT
1 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGT
24231 TAACTAGTCT
Statistics
Matches: 220, Mismatches: 0, Indels: 22
0.91 0.00 0.09
Matches are distributed among these distances:
60 150 0.68
62 2 0.01
63 3 0.01
64 2 0.01
65 3 0.01
66 3 0.01
67 2 0.01
68 3 0.01
69 2 0.01
71 50 0.23
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (60 bp):
CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
Found at i:24137 original size:30 final size:30
Alignment explanation
Indices: 24101--24230 Score: 260
Period size: 30 Copynumber: 4.3 Consensus size: 30
24091 TCAATGTGTT
24101 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24131 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24161 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24191 CCATTGTCGTCAAATGGTGGTCTTCCATTG
1 CCATTGTCGTCAAATGGTGGTCTTCCATTG
24221 CCATTGTCGT
1 CCATTGTCGT
24231 TAACTAGTCT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 100 1.00
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (30 bp):
CCATTGTCGTCAAATGGTGGTCTTCCATTG
Found at i:24200 original size:161 final size:161
Alignment explanation
Indices: 23935--24230 Score: 592
Period size: 161 Copynumber: 1.8 Consensus size: 161
23925 AAATTAAATG
23935 GTGTTCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
1 GTGTTCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
24000 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
66 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
24065 GTCGTCAAATGGTGGTCTTCCATTGCTCAAT
131 GTCGTCAAATGGTGGTCTTCCATTGCTCAAT
24096 GTGTTCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
1 GTGTTCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
24161 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
66 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
24226 GTCGT
131 GTCGT
24231 TAACTAGTCT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 135 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (161 bp):
GTGTTCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTG
CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
GTCGTCAAATGGTGGTCTTCCATTGCTCAAT
Found at i:24202 original size:131 final size:131
Alignment explanation
Indices: 23970--24221 Score: 504
Period size: 131 Copynumber: 1.9 Consensus size: 131
23960 TCTTCCATTG
23970 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
1 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
24035 GTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCTCAATGTGT
66 GTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCTCAATGTGT
24100 T
131 T
24101 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
1 CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
24166 GTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGC
66 GTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGC
24222 CATTGTCGTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 121 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (131 bp):
CCATTGTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCCATT
GTCGTCAAATGGTGGTCTTCCATTGCCATTGTCGTCAAATGGTGGTCTTCCATTGCTCAATGTGT
T
Found at i:24271 original size:18 final size:18
Alignment explanation
Indices: 24244--24478 Score: 397
Period size: 18 Copynumber: 13.1 Consensus size: 18
24234 CTAGTCTCCA
*
24244 TTTTTTATTCACTATAGG
1 TTTTTCATTCACTATAGG
24262 TTTGTT-ATTCACTATAGG
1 TTT-TTCATTCACTATAGG
24280 TTTGTT-ATTCACTATAGG
1 TTT-TTCATTCACTATAGG
24298 TTTGTT-ATTCACTATAGG
1 TTT-TTCATTCACTATAGG
24316 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24334 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24352 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24370 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24388 TTTGTT-ATTCACTATAGG
1 TTT-TTCATTCACTATAGG
24406 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24424 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24442 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24460 TTTTTCATTCACTATAGG
1 TTTTTCATTCACTATAGG
24478 T
1 T
24479 CTCGATTCTG
Statistics
Matches: 213, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.02
18 205 0.96
19 4 0.02
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (18 bp):
TTTTTCATTCACTATAGG
Found at i:24819 original size:18 final size:18
Alignment explanation
Indices: 24796--24833 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
24786 TTTTTTGCGC
24796 ATTGCATACGGCTTTACA
1 ATTGCATACGGCTTTACA
24814 ATTGCATACGGCTTTACA
1 ATTGCATACGGCTTTACA
24832 AT
1 AT
24834 GGAATTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (18 bp):
ATTGCATACGGCTTTACA
Found at i:26769 original size:78 final size:78
Alignment explanation
Indices: 26640--26808 Score: 320
Period size: 78 Copynumber: 2.2 Consensus size: 78
26630 AGTAAAAAGA
* *
26640 ATGTAAAATTATATTTCGCTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAATGGTC
1 ATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAATGGTC
26705 TTATCTTAATAAT
66 TTATCTTAATAAT
26718 ATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAATGGTC
1 ATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAATGGTC
26783 TTATCTTAATAAT
66 TTATCTTAATAAT
26796 ATGTAATATTATA
1 ATGTAATATTATA
26809 ATATGTAATA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 89 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (78 bp):
ATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAATGGTC
TTATCTTAATAAT
Found at i:26811 original size:15 final size:15
Alignment explanation
Indices: 26791--26823 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
26781 TCTTATCTTA
26791 ATAATATGTAATATT
1 ATAATATGTAATATT
26806 ATAATATGTAATATT
1 ATAATATGTAATATT
26821 ATA
1 ATA
26824 TTTCACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
ATAATATGTAATATT
Found at i:26904 original size:15 final size:15
Alignment explanation
Indices: 26884--26916 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
26874 TCTTATCTTA
26884 ATAATATGTAATATT
1 ATAATATGTAATATT
26899 ATAATATGTAATATT
1 ATAATATGTAATATT
26914 ATA
1 ATA
26917 TTTCACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
ATAATATGTAATATT
Found at i:27005 original size:93 final size:93
Alignment explanation
Indices: 26713--26989 Score: 554
Period size: 93 Copynumber: 3.0 Consensus size: 93
26703 TCTTATCTTA
26713 ATAATATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAA
1 ATAATATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAA
26778 TGGTCTTATCTTAATAATATGTAATATT
66 TGGTCTTATCTTAATAATATGTAATATT
26806 ATAATATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAA
1 ATAATATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAA
26871 TGGTCTTATCTTAATAATATGTAATATT
66 TGGTCTTATCTTAATAATATGTAATATT
26899 ATAATATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAA
1 ATAATATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAA
26964 TGGTCTTATCTTAATAATATGTAATA
66 TGGTCTTATCTTAATAATATGTAATA
26990 ATGGTCTTAA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 184 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (93 bp):
ATAATATGTAATATTATATTTCACTTTGATTGTGGAAGCGTAATACGTAATGTAATACGTAATAA
TGGTCTTATCTTAATAATATGTAATATT
Found at i:29395 original size:21 final size:20
Alignment explanation
Indices: 29370--29437 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 20
29360 TTCCATTATT
*
29370 ATATAATTATATAAATAATAT
1 ATATAATTATATAAAT-ATAA
29391 ATATAA--ATATAAATATAA
1 ATATAATTATATAAATATAA
*
29409 ATATAAATAATATAAATATAA
1 ATAT-AATTATATAAATATAA
29430 ATATAATT
1 ATATAATT
29438 TCAAGATCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.17
19 10 0.24
20 3 0.07
21 22 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAATTATATAAATATAA
Found at i:29402 original size:6 final size:6
Alignment explanation
Indices: 29378--29435 Score: 77
Period size: 6 Copynumber: 10.0 Consensus size: 6
29368 TTATATAATT
*
29378 ATATAA ATAATAT ATATAA ATATAA ATATAA ATAT-A A-AT-A ATATAA
1 ATATAA AT-ATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
29424 ATATAA ATATAA
1 ATATAA ATATAA
29436 TTTCAAGATC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 34 0.72
7 5 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:29414 original size:27 final size:26
Alignment explanation
Indices: 29370--29435 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
29360 TTCCATTATT
*
29370 ATATAATTATATAAAT-AATATATATAA
1 ATATAAATATA-AAATAAATA-ATATAA
29397 ATATAAATATAAATATAAATAATATAA
1 ATATAAATATAAA-ATAAATAATATAA
29424 ATATAAATATAA
1 ATATAAATATAA
29436 TTTCAAGATC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.06
27 30 0.83
28 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
ATATAAATATAAAATAAATAATATAA
Found at i:31405 original size:23 final size:23
Alignment explanation
Indices: 31379--31424 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
31369 TATATTGTAA
31379 CCAATCATTTATCTTATTACTTG
1 CCAATCATTTATCTTATTACTTG
31402 CCAATCATTTATCTTATTACTTG
1 CCAATCATTTATCTTATTACTTG
31425 GGGGAGGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (23 bp):
CCAATCATTTATCTTATTACTTG
Done.