Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, 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: 2129691
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:1812 original size:21 final size:21
Alignment explanation
Indices: 1783--1827 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1773 ATTCTAACTA
*
1783 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTACCAAAT
* *
1804 TCGCGTTGCGATTTACCTAAT
1 TCGCATTGCGATTTACCAAAT
1825 TCG
1 TCG
1828 TAATGCGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTACCAAAT
Found at i:1854 original size:20 final size:20
Alignment explanation
Indices: 1829--1918 Score: 153
Period size: 20 Copynumber: 4.5 Consensus size: 20
1819 CCTAATTCGT
*
1829 AATGCGAATACGTAAATTGC
1 AATGCGAATACGTAAATCGC
1849 AATGCGAATACGTAAAATCGC
1 AATGCGAATACGT-AAATCGC
1870 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
1890 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
1910 AACGCGAAT
1 AATGCGAAT
1919 CTGACTATCG
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 48 0.72
21 19 0.28
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGCGAATACGTAAATCGC
Found at i:1855 original size:41 final size:41
Alignment explanation
Indices: 1829--1918 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
1819 CCTAATTCGT
* *
1829 AATGCGAATACGTAAATTGCAATGCGAATACGTAAAATCGC
1 AATGCGAATACGTAAATCGCAATGCGAATACCTAAAATCGC
*
1870 AATGCGAATACGTAAATCGCAATGCGAATACGT-AAATCGC
1 AATGCGAATACGTAAATCGCAATGCGAATACCTAAAATCGC
*
1910 AACGCGAAT
1 AATGCGAAT
1919 CTGACTATCG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 15 0.32
41 32 0.68
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (41 bp):
AATGCGAATACGTAAATCGCAATGCGAATACCTAAAATCGC
Found at i:1928 original size:20 final size:20
Alignment explanation
Indices: 1905--1971 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
1895 GAATACGTAA
*
1905 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
*
1925 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1945 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1965 ATCGCAA
1 ATCGCAA
1972 TACTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1929 original size:40 final size:41
Alignment explanation
Indices: 1847--1972 Score: 120
Period size: 40 Copynumber: 3.1 Consensus size: 41
1837 TACGTAAATT
* *
1847 GCAATGCGAATACGTAAAATCGCAATGCGAATAC-GTA-AATC
1 GCAATGCGAATACGTAAAATCGCAACGCGAAT-CTG-ACTATC
1888 GCAATGCGAATACGT-AAATCGCAACGCGAATCTGACTATC
1 GCAATGCGAATACGTAAAATCGCAACGCGAATCTGACTATC
* ** *
1928 GCAA--CGAGATTC-TGACTATCGCAACGCGATTCTGACTATC
1 GCAATGCGA-ATACGT-AAAATCGCAACGCGAATCTGACTATC
1968 GCAAT
1 GCAAT
1973 ACTGAATTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
38 4 0.05
39 5 0.07
40 49 0.67
41 15 0.21
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (41 bp):
GCAATGCGAATACGTAAAATCGCAACGCGAATCTGACTATC
Found at i:4845 original size:20 final size:21
Alignment explanation
Indices: 4820--4913 Score: 133
Period size: 20 Copynumber: 4.7 Consensus size: 21
4810 GACATTCATT
4820 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAATA
* *
4840 TGACTATCGCAACAC-GAAAA
1 TGACTATCGCAACGCGGAATA
*
4860 TGACTATCACAACGCGGAAT-
1 TGACTATCGCAACGCGGAATA
4880 TGACTATCGCAACGCGGAA-A
1 TGACTATCGCAACGCGGAATA
4900 TGACTATCGCAACG
1 TGACTATCGCAACG
4914 AGAGAATCGC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
20 63 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (21 bp):
TGACTATCGCAACGCGGAATA
Found at i:4935 original size:33 final size:33
Alignment explanation
Indices: 4885--4980 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
4875 GGAATTGACT
* **
4885 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
4919 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4952 ATCACAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
4981 CGAATTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:5181 original size:14 final size:14
Alignment explanation
Indices: 5162--5198 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5152 CATCAATTAA
5162 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
5176 ACAAATCATCTTTT
1 ACAAATCAACATTT
5190 ACAAATCAA
1 ACAAATCAA
5199 TTAAATAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:6526 original size:64 final size:64
Alignment explanation
Indices: 6441--6600 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 64
6431 TTGTTTAAGG
* * ** *
6441 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCAAATGCAGTGCATCGATGCATCCACATTAAATA-AAAACATCGAAT-GCATTTT
6504 A
64 A
*
6505 TGCATCGATGCATAATG-AGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCA-AATGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
* *
6569 TGCACCGATGCACAA-GTAGTGCATCGATGCAT
1 TGCATCGATGCA-AATGCAGTGCATCGATGCAT
6601 ACATTCATTG
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 3 0.04
64 71 0.85
65 10 0.12
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCAAATGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
Found at i:7110 original size:17 final size:19
Alignment explanation
Indices: 7088--7123 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
7078 GATTTACATG
7088 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
7105 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
7124 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:7297 original size:31 final size:30
Alignment explanation
Indices: 7258--7350 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
7248 GTCGAGGGTT
7258 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTTT-GAGACATATGGACAG
**
7288 TATACCTATGTTCTAAG-GAACATATGGACAG
1 T-TACCTATGTTCTTTGAG-ACATATGGACAG
* * *
7319 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTTTGAGACATATGGACAG
7349 TT
1 TT
7351 GCCGAGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 27 0.51
31 23 0.43
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTTTGAGACATATGGACAG
Found at i:7331 original size:30 final size:30
Alignment explanation
Indices: 7276--7361 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
7266 GTCTTTCGAG
*
7276 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
** *
7307 ACATATGGACAGTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTACCTAGGTTCTAAGGA
* * *
7337 ACCTATGGACAGTTGCCGAGGTTCT
1 ACATATGGACAGTTACCTAGGTTCT
7362 TTATGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:7370 original size:30 final size:30
Alignment explanation
Indices: 7279--7384 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
7269 TTTCGAGACA
* * * *
7279 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
7310 TATGGACAGTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
7340 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
7370 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
7385 GGGTCTATGT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 50 0.79
31 13 0.21
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:10294 original size:64 final size:64
Alignment explanation
Indices: 10209--10368 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 64
10199 TTGTTTAAGG
* * ** *
10209 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCAAATGCAGTGCATCGATGCATCCACATTAAATA-AAAACATCGAAT-GCATTTT
10272 A
64 A
*
10273 TGCATCGATGCATAATG-AGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCA-AATGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
* *
10337 TGCACCGATGCACAA-GTAGTGCATCGATGCAT
1 TGCATCGATGCA-AATGCAGTGCATCGATGCAT
10369 ACATTCATTG
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 3 0.04
64 71 0.85
65 10 0.12
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCAAATGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
Found at i:10879 original size:17 final size:19
Alignment explanation
Indices: 10857--10892 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
10847 GATTTACATG
10857 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
10874 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
10893 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:11066 original size:31 final size:30
Alignment explanation
Indices: 11027--11119 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
11017 GTCGAGGGTT
11027 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTTT-GAGACATATGGACAG
**
11057 TATACCTATGTTCTAAG-GAACATATGGACAG
1 T-TACCTATGTTCTTTGAG-ACATATGGACAG
* * *
11088 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTTTGAGACATATGGACAG
11118 TT
1 TT
11120 CCCGAGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 27 0.51
31 23 0.43
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTTTGAGACATATGGACAG
Found at i:11100 original size:30 final size:30
Alignment explanation
Indices: 11045--11130 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
11035 GTCTTTCGAG
*
11045 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
** *
11076 ACATATGGACAGTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTACCTAGGTTCTAAGGA
* * *
11106 ACCTATGGACAGTTCCCGAGGTTCT
1 ACATATGGACAGTTACCTAGGTTCT
11131 TTATGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:11139 original size:30 final size:30
Alignment explanation
Indices: 11048--11150 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 30
11038 TTTCGAGACA
* * * *
11048 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
11079 TATGGACAGTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
11109 TATGGACAGTTCCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
11139 TCTGGATAGTTA
1 TATGGACAGTTA
11151 TCGGGGTCTG
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 47 0.78
31 13 0.22
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:14043 original size:64 final size:62
Alignment explanation
Indices: 13958--14122 Score: 176
Period size: 64 Copynumber: 2.6 Consensus size: 62
13948 TTGTTTAAGG
* * *
13958 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCAAATGCAGTGCATCGATGCATCCA-TTT-AATA-AAAACATCGAAT-GCATTTT
14021 A
62 A
14022 TGCATCGATGCATAATG-AGTGCATCGATGCATCCCCATTTAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCA-AATGCAGTGCATCGATGCAT--CCATTTAATAAAAACATCGAATGCATTTTA
* * *
14086 TGCACCGATGCACAA-GTAGTGCATCGATGCATACATT
1 TGCATCGATGCA-AATGCAGTGCATCGATGCATCCATT
14123 CATTGAAAGA
Statistics
Matches: 89, Mismatches: 6, Indels: 14
0.82 0.06 0.13
Matches are distributed among these distances:
62 4 0.04
63 3 0.03
64 71 0.80
65 7 0.08
66 3 0.03
67 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (62 bp):
TGCATCGATGCAAATGCAGTGCATCGATGCATCCATTTAATAAAAACATCGAATGCATTTTA
Found at i:14628 original size:16 final size:18
Alignment explanation
Indices: 14607--14640 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
14597 ATTTACATGA
14607 ATACATGT-ATAT-ATAT
1 ATACATGTGATATGATAT
14623 ATACATGTGATATGATAT
1 ATACATGTGATATGATAT
14641 GAGATATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (18 bp):
ATACATGTGATATGATAT
Found at i:14812 original size:31 final size:30
Alignment explanation
Indices: 14773--14865 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
14763 GTCGAGGGTT
14773 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTTT-GAGACATATGGACAG
**
14803 TATACCTATGTTCTAAG-GAACATATGGACAG
1 T-TACCTATGTTCTTTGAG-ACATATGGACAG
* * *
14834 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTTTGAGACATATGGACAG
14864 TT
1 TT
14866 CCCGAGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 27 0.51
31 23 0.43
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTTTGAGACATATGGACAG
Found at i:14846 original size:30 final size:30
Alignment explanation
Indices: 14791--14876 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
14781 GTCTTTCGAG
*
14791 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
** *
14822 ACATATGGACAGTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTACCTAGGTTCTAAGGA
* * *
14852 ACCTATGGACAGTTCCCGAGGTTCT
1 ACATATGGACAGTTACCTAGGTTCT
14877 TTATGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:14885 original size:30 final size:30
Alignment explanation
Indices: 14794--14899 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
14784 TTTCGAGACA
* * * *
14794 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
14825 TATGGACAGTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
14855 TATGGACAGTTCCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
14885 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
14900 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 50 0.79
31 13 0.21
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:17219 original size:20 final size:20
Alignment explanation
Indices: 17196--17322 Score: 164
Period size: 20 Copynumber: 6.3 Consensus size: 20
17186 GAAACTTAAA
*
17196 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
17216 ATCGCAACGAGAAAATGACT
1 ATCGCAATGCGAAAATGACT
17236 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
17256 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
* **
17276 ATCACAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
**
17296 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
17316 ATCGCAA
1 ATCGCAA
17323 CGAGAGAATC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:17251 original size:40 final size:40
Alignment explanation
Indices: 17196--17322 Score: 182
Period size: 40 Copynumber: 3.2 Consensus size: 40
17186 GAAACTTAAA
* * * **
17196 ATCGCAACGCGAAAATGACTATCGCAACGAGAAAATGACT
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACT
17236 ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACT
* **
17276 ATCACAATGCGAATTTGACTATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACT
17316 ATCGCAA
1 ATCGCAA
17323 CGAGAGAATC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (40 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACT
Found at i:17339 original size:34 final size:36
Alignment explanation
Indices: 17231--17341 Score: 102
Period size: 40 Copynumber: 2.9 Consensus size: 36
17221 AACGAGAAAA
*
17231 TGACTATCGCAATGCGAAAATGACTATCGCAATGCGAATT
1 TGACTATCACAA-GCG--AATGAC-ATCGCAATGCGAATT
17271 TGACTATCACAATGCGAATTTGACTATCGCAATGCGAATT
1 TGACTATCACAA-GCGAA--TGAC-ATCGCAATGCGAATT
*
17311 TGACTATCGCAA-CGAGA-GA-ATCGCAATGCGA
1 TGACTATCACAAGCGA-ATGACATCGCAATGCGA
17342 TTTTCATTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
34 12 0.18
36 2 0.03
38 5 0.08
39 1 0.02
40 46 0.70
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (36 bp):
TGACTATCACAAGCGAATGACATCGCAATGCGAATT
Found at i:17398 original size:20 final size:20
Alignment explanation
Indices: 17367--17498 Score: 210
Period size: 20 Copynumber: 6.6 Consensus size: 20
17357 GCGATTCTTT
**
17367 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
* *
17387 CATTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
**
17407 TATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
17427 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
17447 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
17467 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
17487 CGTTGCGATAGT
1 CGTTGCGATAGT
17499 AAACTATTCT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 104 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:19395 original size:20 final size:20
Alignment explanation
Indices: 19372--19458 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
19362 GAAACTTAAT
19372 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGAAA
* **
19392 ATCGAAACACGAAAATGACT
1 ATCGCAACACGAAAATGAAA
* ** **
19412 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGAAA
*
19432 ATCGCAACGCG-AAATGAAA
1 ATCGCAACACGAAAATGAAA
19451 ATCGCAAC
1 ATCGCAAC
19459 GACAGAATCG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 12 0.21
20 44 0.79
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGAAAATGAAA
Found at i:21273 original size:22 final size:22
Alignment explanation
Indices: 21245--21294 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
21235 CAACGGTCAA
21245 CGGTCAACGGTCGGGTCGGGTC
1 CGGTCAACGGTCGGGTCGGGTC
21267 CGGTCAACGGTCGGGTCGGGTC
1 CGGTCAACGGTCGGGTCGGGTC
*
21289 GGGTCA
1 CGGTCA
21295 GACCGGTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.10, C:0.26, G:0.46, T:0.18
Consensus pattern (22 bp):
CGGTCAACGGTCGGGTCGGGTC
Found at i:21291 original size:27 final size:28
Alignment explanation
Indices: 21238--21293 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
21228 AGAAAGTCAA
21238 CGGTCAACGGTCAACGGTCGGGTCGGGTC
1 CGGTCAACGGTC-ACGGTCGGGTCGGGTC
*
21267 CGGTCAACGGTC-GGGTCGGGTCGGGTC
1 CGGTCAACGGTCACGGTCGGGTCGGGTC
21294 AGACCGGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.54
29 12 0.46
ACGTcount: A:0.11, C:0.27, G:0.45, T:0.18
Consensus pattern (28 bp):
CGGTCAACGGTCACGGTCGGGTCGGGTC
Found at i:21314 original size:19 final size:19
Alignment explanation
Indices: 21292--21389 Score: 83
Period size: 19 Copynumber: 5.1 Consensus size: 19
21282 TCGGGTCGGG
21292 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
21311 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
21330 TC-GAACCGGTTGAAACAGGT
1 TCAG-ACCGG-TCAAACCGGT
* *
21350 T-AAATCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* * *
21369 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
21389 T
1 T
21390 TCCAGCAGCC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.05
19 37 0.57
20 17 0.26
21 8 0.12
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:21320 original size:10 final size:10
Alignment explanation
Indices: 21292--21340 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
21282 TCGGGTCGGG
21292 TCAGACCGG-
1 TCAGACCGGT
*
21301 TCAAACCGGT
1 TCAGACCGGT
21311 TCAGACCGG-
1 TCAGACCGGT
*
21320 TCAAACCGGT
1 TCAGACCGGT
21330 TC-GAACCGGT
1 TCAG-ACCGGT
21340 T
1 T
21341 GAAACAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (10 bp):
TCAGACCGGT
Found at i:21358 original size:29 final size:31
Alignment explanation
Indices: 21322--21389 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
21312 CAGACCGGTC
21322 AAACCGGTTC-GAACCGGTTG-AAACAGGTT
1 AAACCGGTTCAGAACCGGTTGAAAACAGGTT
* *
21351 AAATCGG-TCAGAACCGGTTGAAAACCGGTT
1 AAACCGGTTCAGAACCGGTTGAAAACAGGTT
21381 AAACCGGTT
1 AAACCGGTT
21390 TCCAGCAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 16 0.48
30 14 0.42
31 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (31 bp):
AAACCGGTTCAGAACCGGTTGAAAACAGGTT
Found at i:21378 original size:11 final size:9
Alignment explanation
Indices: 21296--21389 Score: 71
Period size: 9 Copynumber: 9.8 Consensus size: 9
21286 GTCGGGTCAG
*
21296 ACCGGTCAA
1 ACCGGTTAA
*
21305 ACCGGTTCAG
1 ACCGGTT-AA
*
21315 ACCGGTCAA
1 ACCGGTTAA
*
21324 ACCGGTTCGA
1 ACCGGTT-AA
21334 ACCGGTTGAA
1 ACCGGTT-AA
*
21344 ACAGGTTAA
1 ACCGGTTAA
* *
21353 ATCGGTCAGA
1 ACCGGTTA-A
21363 ACCGGTTGAAA
1 ACCGGTT--AA
21374 ACCGGTTAA
1 ACCGGTTAA
21383 ACCGGTT
1 ACCGGTT
21390 TCCAGCAGCC
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
9 29 0.44
10 28 0.42
11 8 0.12
12 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (9 bp):
ACCGGTTAA
Found at i:28629 original size:10 final size:10
Alignment explanation
Indices: 28597--28669 Score: 75
Period size: 9 Copynumber: 7.7 Consensus size: 10
28587 GTCGGGTCAG
28597 ACCGG-TCAA
1 ACCGGTTCAA
28606 ACCGG-TCAA
1 ACCGGTTCAA
*
28615 ACCGGTTCGA
1 ACCGGTTCAA
*
28625 ACCGGTTGAA
1 ACCGGTTCAA
*
28635 ACTGG-TCAA
1 ACCGGTTCAA
28644 ACCGGTT-AGA
1 ACCGGTTCA-A
28654 ACCGGTT-AA
1 ACCGGTTCAA
28663 ACCGGTT
1 ACCGGTT
28670 TCTAGCAGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
9 30 0.55
10 25 0.45
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:28629 original size:19 final size:18
Alignment explanation
Indices: 28597--28669 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
28587 GTCGGGTCAG
**
28597 ACCGGTCAAACCGGTCAA
1 ACCGGTCAAACCGGTTGA
*
28615 ACCGGTTCGAACCGGTTGAA
1 ACCGG-TCAAACCGGTTG-A
*
28635 ACTGGTCAAACCGGTTAGA
1 ACCGGTCAAACCGGTT-GA
*
28654 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
28670 TCTAGCAGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.11
19 34 0.76
20 6 0.13
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (18 bp):
ACCGGTCAAACCGGTTGA
Found at i:28641 original size:29 final size:28
Alignment explanation
Indices: 28597--28668 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 28
28587 GTCGGGTCAG
* *
28597 ACCGGTCAAACCGGTCAAACCGGTTCGA
1 ACCGGTTAAACCGGTCAAACCGGTTAGA
*
28625 ACCGGTTGAAACTGGTCAAACCGGTTAGA
1 ACCGGTT-AAACCGGTCAAACCGGTTAGA
28654 ACCGGTTAAACCGGT
1 ACCGGTTAAACCGGT
28669 TTCTAGCAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 13 0.33
29 26 0.67
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (28 bp):
ACCGGTTAAACCGGTCAAACCGGTTAGA
Found at i:29741 original size:20 final size:20
Alignment explanation
Indices: 29718--29790 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
29708 CGATAGTCAG
*
29718 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
29738 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
29758 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
29778 ATTCGCATTGCGA
1 ATTCGCATTGCGA
29791 ATTAGGAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:29811 original size:21 final size:21
Alignment explanation
Indices: 29787--29832 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
29777 TATTCGCATT
29787 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
29808 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
29829 GCGA
1 GCGA
29833 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:31066 original size:30 final size:31
Alignment explanation
Indices: 31032--31091 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
31022 AAAACATAAT
**
31032 ATATGATCA-TTTTGTTTTTATTTAATTAAA
1 ATATGATCACTTTCATTTTTATTTAATTAAA
31062 ATATGATCACTTTCATTTTTATTTAATTAA
1 ATATGATCACTTTCATTTTTATTTAATTAA
31092 TATGTGCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (31 bp):
ATATGATCACTTTCATTTTTATTTAATTAAA
Found at i:32731 original size:6 final size:6
Alignment explanation
Indices: 32720--32744 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32710 ACAGTTTAAT
32720 CCCGGC CCCGGC CCCGGC CCCGGC C
1 CCCGGC CCCGGC CCCGGC CCCGGC C
32745 AGGTGGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.32, T:0.00
Consensus pattern (6 bp):
CCCGGC
Found at i:41226 original size:16 final size:18
Alignment explanation
Indices: 41194--41237 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
41184 AAAAAAAGTT
*
41194 AAAAAAATATGATAATTT
1 AAAAAAATATGATAATTC
*
41212 TAAAAAATAT-A-AATTC
1 AAAAAAATATGATAATTC
41228 AAAAAAATAT
1 AAAAAAATAT
41238 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 13 0.57
17 1 0.04
18 9 0.39
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAAATATGATAATTC
Found at i:41983 original size:91 final size:91
Alignment explanation
Indices: 41839--42010 Score: 299
Period size: 91 Copynumber: 1.9 Consensus size: 91
41829 GCAACACAAA
* *
41839 TTTCAAATTCGCAACGTGATTCTCCAAAATCGCAACGTGAATTTCGTTTTCGCAACGCTAATTAC
1 TTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTTCGCAACGCTAATTAC
*
41904 CGATATAGGTAAACACGCAACTCAGC
66 CGATATAAGTAAACACGCAACTCAGC
**
41930 TTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTTCGCAATTCTAATTAC
1 TTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTTCGCAACGCTAATTAC
41995 CGATATAAGTAAACAC
66 CGATATAAGTAAACAC
42011 AACTATTCAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (91 bp):
TTTCAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCGTTTTCGCAACGCTAATTAC
CGATATAAGTAAACACGCAACTCAGC
Found at i:42226 original size:52 final size:52
Alignment explanation
Indices: 42141--42243 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
42131 TTGAAAACTG
42141 AGTTGTGTCTACCTATATCGGTAAATAGAGTTGCGAAAATT-GAGTTGCGAAT
1 AGTTGTGTCTACCTATATCGGTAAATAGAGTTGCG-AAATTCGAGTTGCGAAT
* * *
42193 AGTTGTGTTTACCTATATCGGTAATTAGTGTTGCGAAATTCGAGTTGCGAA
1 AGTTGTGTCTACCTATATCGGTAAATAGAGTTGCGAAATTCGAGTTGCGAA
42244 AATAAAACTC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 5 0.11
52 42 0.89
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (52 bp):
AGTTGTGTCTACCTATATCGGTAAATAGAGTTGCGAAATTCGAGTTGCGAAT
Found at i:44034 original size:31 final size:31
Alignment explanation
Indices: 43999--44059 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
43989 ATATATGTAC
*
43999 ACTTTCATTTTTATTTAGTTAAGATATGGTT
1 ACTTTCATTTTTATTTAATTAAGATATGGTT
* *
44030 ACTTTCGTTTTTATTTAATTAAGATGTGGT
1 ACTTTCATTTTTATTTAATTAAGATATGGT
44060 CACAACGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.54
Consensus pattern (31 bp):
ACTTTCATTTTTATTTAATTAAGATATGGTT
Found at i:44292 original size:30 final size:28
Alignment explanation
Indices: 44256--44327 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 28
44246 TTTAAAGTAA
44256 AATAAAAATAATTTTTTAAATTAAGTAAAT
1 AATAAAAAT-ATTTTTTAAA-TAAGTAAAT
* *
44286 AAT-AAAATA-TATTT-AATAAGTTAAT
1 AATAAAAATATTTTTTAAATAAGTAAAT
44311 -ATAAAAATATTTTTTAA
1 AATAAAAATATTTTTTAA
44328 GTTATAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
24 2 0.06
25 14 0.39
26 6 0.17
27 5 0.14
28 1 0.03
29 5 0.14
30 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
AATAAAAATATTTTTTAAATAAGTAAAT
Found at i:44328 original size:23 final size:25
Alignment explanation
Indices: 44275--44336 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
44265 AATTTTTTAA
*
44275 ATTAAGTAAATAATAAAATATATTT
1 ATTAAGTTAATAATAAAATATATTT
*
44300 AATAAGTTAAT-ATAAAA-ATATTT
1 ATTAAGTTAATAATAAAATATATTT
*
44323 TTTAAGTT-ATAATA
1 ATTAAGTTAATAATA
44337 TATAAAACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 15 0.47
24 6 0.19
25 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (25 bp):
ATTAAGTTAATAATAAAATATATTT
Found at i:44337 original size:25 final size:25
Alignment explanation
Indices: 44257--44343 Score: 70
Period size: 30 Copynumber: 3.3 Consensus size: 25
44247 TTAAAGTAAA
*
44257 ATAAAAATAATTTTTTAAATTAAGTAAAT
1 ATAAAAAT-ATTTTTTAAGTT-A-T-AAT
**
44286 AATAAAATATATTTAATAAG-T-TAAT
1 -ATAAAA-ATATTTTTTAAGTTATAAT
44311 ATAAAAATATTTTTTAAGTTATAAT
1 ATAAAAATATTTTTTAAGTTATAAT
44336 ATATAAAA
1 ATA-AAAA
44344 CAGGGTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
23 10 0.21
24 7 0.15
25 10 0.21
26 5 0.10
29 1 0.02
30 13 0.27
31 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (25 bp):
ATAAAAATATTTTTTAAGTTATAAT
Found at i:46988 original size:23 final size:23
Alignment explanation
Indices: 46936--46988 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
46926 ACATGTTCTT
46936 TGTCTTTATGACACATTTATCTC
1 TGTCTTTATGACACATTTATCTC
** * *
46959 TACCTTTATGACACGTTTGTCTC
1 TGTCTTTATGACACATTTATCTC
46982 TGTCTTT
1 TGTCTTT
46989 TGGTAGCTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (23 bp):
TGTCTTTATGACACATTTATCTC
Found at i:49188 original size:17 final size:17
Alignment explanation
Indices: 49143--49189 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
49133 TTCAATTTTA
49143 TTTAA-CTTGATTT-AC
1 TTTAATCTTGATTTCAC
*
49158 TCTAAATC-TGATTTCAC
1 T-TTAATCTTGATTTCAC
49175 TTTAATCTTGATTTC
1 TTTAATCTTGATTTC
49190 TCCTTCAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.04
16 14 0.54
17 11 0.42
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (17 bp):
TTTAATCTTGATTTCAC
Found at i:50217 original size:129 final size:130
Alignment explanation
Indices: 50084--50331 Score: 329
Period size: 129 Copynumber: 1.9 Consensus size: 130
50074 AAAAAACGCC
* * * *
50084 GCAATAGGTATTGATATTTAGCGGCGTTTGT-GTGACAAACGCCGTAATAGGTGTTGATATTTAG
1 GCAATAGGTATTGATATTTAGCGGCGTTTGTCAT-AAAAACGCCGCAATAGGTGTTAATATTTAG
* * * * *
50148 CGGCG-TTTGTCATAAAAATGCCGCAATAGGTTTTGATATTTAGCAGCGTTTTTCAGACAAACGT
65 CAGCGCTTTGTCAGAAAAACGCCGCAATAAGTTATGATATTTAGCAGCGTTTTTCAGACAAACGT
50212 T
130 T
* * *
50213 GCAATATGTGTTGATATTTAGCGGCGTTTGTCATAAAAACGTCGCAATAGGTGTTAATATTTAGC
1 GCAATAGGTATTGATATTTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTAATATTTAGC
* * * *
50278 AGCGCTTTTTCAGACAAACGCCGCAATAAGTTATGATGTTTAGCGGCGTTTTTC
66 AGCGCTTTGTCAGAAAAACGCCGCAATAAGTTATGATATTTAGCAGCGTTTTTC
50332 GCTAAAACGC
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
129 59 0.58
130 42 0.42
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (130 bp):
GCAATAGGTATTGATATTTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTAATATTTAGC
AGCGCTTTGTCAGAAAAACGCCGCAATAAGTTATGATATTTAGCAGCGTTTTTCAGACAAACGTT
Found at i:50224 original size:86 final size:86
Alignment explanation
Indices: 50075--50357 Score: 354
Period size: 86 Copynumber: 3.3 Consensus size: 86
50065 TTTTTTTACA
* * ** * *
50075 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTGTGACAAACGCCGTAATAGGTGTTG
1 AAAAACGCCGCAATAGGTATTGATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAAGTGTTG
50140 ATATTTAGCGGCGTTTGTCAT
66 ATATTTAGCGGCGTTTGTCAT
* * ** *
50161 AAAAATGCCGCAATAGGTTTTGATATTTAGCAGCGTTTTTCAGACAAACGTTGCAATATGTGTTG
1 AAAAACGCCGCAATAGGTATTGATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAAGTGTTG
50226 ATATTTAGCGGCGTTTGTCAT
66 ATATTTAGCGGCGTTTGTCAT
* * *
50247 AAAAACGTCGCAATAGGTGTTAATATTTAGCAGCGCTTTTTCAGACAAACGCCGCAATAAGT-TA
1 AAAAACGCCGCAATAGGTATTGATATTTAGCAGCG-TTTTTCAGACAAACGCCGCAATAAGTGT-
* * *
50311 TGATGTTTAGCGGCGTTTTTCGCT
64 TGATATTTAGCGGCGTTTGTC-AT
* *
50335 -AAAACGCCGCAGTAGGTGTTGAT
1 AAAAACGCCGCAATAGGTATTGAT
50358 GTCTTGCGAC
Statistics
Matches: 171, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
86 108 0.63
87 62 0.36
88 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (86 bp):
AAAAACGCCGCAATAGGTATTGATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAAGTGTTG
ATATTTAGCGGCGTTTGTCAT
Found at i:50358 original size:43 final size:43
Alignment explanation
Indices: 50077--50414 Score: 285
Period size: 43 Copynumber: 7.8 Consensus size: 43
50067 TTTTTACAAA
* *
50077 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGT-GTGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGT-AC
* * * *
50120 AAACGCCGTAATAGGTGTTGATATTTAGCGGCGTTTGTCATAA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGTAC
* * *
50163 AAATGCCGCAATAGGTTTTGATATTTAGCAGCGTTTTTCAG-AC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTC-GTAC
** * * * *
50206 AAACGTTGCAATATGTGTTGATATTTAGCGGCGTTTGTCATAA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGTAC
* * *
50249 AAACGTCGCAATAGGTGTTAATATTTAGCAGCGCTTTTTCAG-AC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTTC-GTAC
* *
50293 AAACGCCGCAATAAGT-TATGATGTTTAGCGGCGTTTTTCGCTA-
1 AAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTTTCG-TAC
* * * * *
50336 AAACGCCGCAGTAGGTGTTGATGTCTT-GCGACATTTTT-TTCAC
1 AAACGCCGCAATAGGTGTTGATAT-TTAGCGGCGTTTTTCGT-AC
* * * * *
50379 AAACGCCGCAGTAGGTATTGATGTTTTGCGGTGTTT
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT
50415 CTACTAAAAA
Statistics
Matches: 241, Mismatches: 41, Indels: 26
0.78 0.13 0.08
Matches are distributed among these distances:
41 1 0.00
42 4 0.02
43 199 0.83
44 37 0.15
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGTAC
Found at i:50876 original size:12 final size:12
Alignment explanation
Indices: 50861--50891 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
50851 GCTTCTTTCT
50861 CTGCTCTGGCTG
1 CTGCTCTGGCTG
50873 CTGCTCTGGCTG
1 CTGCTCTGGCTG
50885 CTGCTCT
1 CTGCTCT
50892 CTCTACTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.35, G:0.29, T:0.35
Consensus pattern (12 bp):
CTGCTCTGGCTG
Found at i:52779 original size:3 final size:3
Alignment explanation
Indices: 52773--52807 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
52763 CATCATCATC
*
52773 ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
52808 GAAAGCTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:55904 original size:180 final size:180
Alignment explanation
Indices: 55602--55961 Score: 720
Period size: 180 Copynumber: 2.0 Consensus size: 180
55592 ATAGTTTTTT
55602 TAGTTTGGAAAAGCCTGAGATTAGGGTTTGGTAGCAAATGTTAGTTTATCTGTTTATGTAGGTGG
1 TAGTTTGGAAAAGCCTGAGATTAGGGTTTGGTAGCAAATGTTAGTTTATCTGTTTATGTAGGTGG
55667 GATTGGGAAACCGTAACTAGTGTTTTGAATTCAAAGAAGTTCCCGGCCTGGGTTGAGGGTGAGGC
66 GATTGGGAAACCGTAACTAGTGTTTTGAATTCAAAGAAGTTCCCGGCCTGGGTTGAGGGTGAGGC
55732 GGGAGAAAAGTTACGACGGAGAAAAAGGATACGGTTTTATGGAAATTAGA
131 GGGAGAAAAGTTACGACGGAGAAAAAGGATACGGTTTTATGGAAATTAGA
55782 TAGTTTGGAAAAGCCTGAGATTAGGGTTTGGTAGCAAATGTTAGTTTATCTGTTTATGTAGGTGG
1 TAGTTTGGAAAAGCCTGAGATTAGGGTTTGGTAGCAAATGTTAGTTTATCTGTTTATGTAGGTGG
55847 GATTGGGAAACCGTAACTAGTGTTTTGAATTCAAAGAAGTTCCCGGCCTGGGTTGAGGGTGAGGC
66 GATTGGGAAACCGTAACTAGTGTTTTGAATTCAAAGAAGTTCCCGGCCTGGGTTGAGGGTGAGGC
55912 GGGAGAAAAGTTACGACGGAGAAAAAGGATACGGTTTTATGGAAATTAGA
131 GGGAGAAAAGTTACGACGGAGAAAAAGGATACGGTTTTATGGAAATTAGA
55962 GCCGTGCCTA
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 180 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (180 bp):
TAGTTTGGAAAAGCCTGAGATTAGGGTTTGGTAGCAAATGTTAGTTTATCTGTTTATGTAGGTGG
GATTGGGAAACCGTAACTAGTGTTTTGAATTCAAAGAAGTTCCCGGCCTGGGTTGAGGGTGAGGC
GGGAGAAAAGTTACGACGGAGAAAAAGGATACGGTTTTATGGAAATTAGA
Found at i:56120 original size:42 final size:42
Alignment explanation
Indices: 56068--56204 Score: 215
Period size: 42 Copynumber: 3.3 Consensus size: 42
56058 TTGTAAATAC
56068 AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCA
1 AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCA
* *
56110 AAACGCCACTAAAGTACGAGTC-TATAGCGGCGTTTGTA-TAA
1 AAACGCCACTAAAGTACGAGTCAT-TAGCAGCGTTTGTATTCA
* *
56151 AAACGCCACTAAATTACGAGTCATTAGCAGCATTTGTATTCA
1 AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCA
56193 AAACGCCACTAA
1 AAACGCCACTAA
56205 TATTAGTATA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
41 36 0.42
42 50 0.58
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (42 bp):
AAACGCCACTAAAGTACGAGTCATTAGCAGCGTTTGTATTCA
Found at i:56866 original size:42 final size:41
Alignment explanation
Indices: 56698--57015 Score: 208
Period size: 42 Copynumber: 7.7 Consensus size: 41
56688 TTTGTTAAAA
* * *
56698 AAACGCCACTAT-TGATTAAAACTATTGCGGCGTTT-TTGTAA
1 AAACGCCACTATATG-TT-AATCTATTGCGGCGTTTGTGGTAT
* * *
56739 AAACGCCACTAT-TGATTAACACTATTGCGGCGTTTGT-CTAA
1 AAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTGTGGTAT
* * ** * * * *
56780 AAACGCCACTATTTATTATAAATATTACAGCGTTT-TAAGAAT
1 AAACGCCACTATATGTTA-ATCTATTGCGGCGTTTGT-GGTAT
*
56822 AAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTAT
1 AAACGCCACTATATGT-TAATCTATTGCGGCGTTTGTGGTAT
* * *
56864 AAACGCCGCTA-AT-TTACCGATTTATTACGGCGTTT-TGGCTA-
1 AAACGCCACTATATGTTA---ATCTATTGCGGCGTTTGTGG-TAT
56905 AAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTAT
1 AAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTAT
* * * *
56946 AAACGCCGCTA-AT-TTACCACTCTATTGCGGTGTTTGTTGTAA
1 AAACGCCACTATATGTTA--A-TCTATTGCGGCGTTTGTGGTAT
* *
56988 AAACGCCGCTATATGTCAACTCTATTGC
1 AAACGCCACTATATGTTAA-TCTATTGC
57016 AGCATTTTTA
Statistics
Matches: 227, Mismatches: 29, Indels: 41
0.76 0.10 0.14
Matches are distributed among these distances:
39 5 0.02
40 22 0.10
41 91 0.40
42 99 0.44
43 8 0.04
44 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
AAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTAT
Found at i:56941 original size:82 final size:83
Alignment explanation
Indices: 56719--57015 Score: 272
Period size: 82 Copynumber: 3.6 Consensus size: 83
56709 TTGATTAAAA
* * * * *
56719 CTATTGCGGCGTTT-TTGTAAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTGT-CTAAA
1 CTATTACGGCGTTTGTGGTAAAAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTGTGGTATA
* **
56781 AACGCCACT-ATTTATTA-T
64 AACGCCGCTAATTTACCACT
* * * *
56799 AAATATTACAGCGTTT-TAAG-AATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGT
1 --CTATTACGGCGTTTGT-GGTAA-AAACGCCACTATATGT-TAATCTATTGCGGCGTTTGTGGT
56862 ATAAACGCCGCTAATTTACCGA-T
61 ATAAACGCCGCTAATTTACC-ACT
*
56885 TTATTACGGCGTTT-TGGCT-AAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAA
1 CTATTACGGCGTTTGTGG-TAAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAA
56948 ACGCCGCTAATTTACCACT
65 ACGCCGCTAATTTACCACT
* * * * *
56967 CTATTGCGGTGTTTGTTGTAAAAACGCCGCTATATGTCAACTCTATTGC
1 CTATTACGGCGTTTGTGGTAAAAACGCCACTATATGTTAA-TCTATTGC
57016 AGCATTTTTA
Statistics
Matches: 181, Mismatches: 21, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
81 1 0.01
82 70 0.39
83 65 0.36
84 38 0.21
85 5 0.03
86 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (83 bp):
CTATTACGGCGTTTGTGGTAAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAAA
CGCCGCTAATTTACCACT
Found at i:56950 original size:41 final size:41
Alignment explanation
Indices: 56655--57015 Score: 219
Period size: 41 Copynumber: 8.7 Consensus size: 41
56645 GTTTATACAA
* * ***
56655 AAAAATGCCACTAT-TGATTACAT-TATTGTGGCGTTTGTTAA
1 AAAAACGCCACTATATG-TTA-ATCTATTGCGGCGTTTGTGGT
* *
56696 AAAAACGCCACTAT-TGATTAAAACTATTGCGGCGTTT-TTGT
1 AAAAACGCCACTATATG-TT-AATCTATTGCGGCGTTTGTGGT
* *
56737 AAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTGT-CT
1 AAAAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTGTGGT
* * ** * * *
56778 AAAAACGCCACTATTTATTATAAATATTACAGCGTTT-TAAG-
1 AAAAACGCCACTATATGTTA-ATCTATTGCGGCGTTTGT-GGT
*
56819 AATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGT
1 AA-AAACGCCACTATATGT-TAATCTATTGCGGCGTTTGTGGT
* * * *
56862 ATAAACGCCGCTA-AT-TTACCGATTTATTACGGCGTTT-TGGCT
1 AAAAACGCCACTATATGTTA---ATCTATTGCGGCGTTTGTGG-T
56904 -AAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGT
1 AAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGT
* * * *
56944 ATAAACGCCGCTA-AT-TTACCACTCTATTGCGGTGTTTGTTGT
1 AAAAACGCCACTATATGTTA--A-TCTATTGCGGCGTTTGTGGT
* *
56986 AAAAACGCCGCTATATGTCAACTCTATTGC
1 AAAAACGCCACTATATGTTAA-TCTATTGC
57016 AGCATTTTTA
Statistics
Matches: 261, Mismatches: 34, Indels: 49
0.76 0.10 0.14
Matches are distributed among these distances:
39 5 0.02
40 21 0.08
41 116 0.44
42 108 0.41
43 9 0.03
44 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (41 bp):
AAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGT
Found at i:67165 original size:19 final size:19
Alignment explanation
Indices: 67124--67167 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
67114 TTTGGGCTAT
*
67124 GAATCTAAAGTAAAGCCAT
1 GAATCTAAAGTAAAGCCAC
**
67143 GAATCTAAAGTAAAGTTAC
1 GAATCTAAAGTAAAGCCAC
67162 GAATCT
1 GAATCT
67168 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (19 bp):
GAATCTAAAGTAAAGCCAC
Found at i:77505 original size:22 final size:22
Alignment explanation
Indices: 77480--77522 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
77470 ATTTTCCTGC
77480 CCACTGGGATTAAAGAAAGAGA
1 CCACTGGGATTAAAGAAAGAGA
77502 CCACTGGGATTAAAGAAAGAG
1 CCACTGGGATTAAAGAAAGAG
77523 GGTTGAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (22 bp):
CCACTGGGATTAAAGAAAGAGA
Found at i:83312 original size:12 final size:12
Alignment explanation
Indices: 83295--83320 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83285 GGCTGCGAAA
83295 GAGGAGAAGAAG
1 GAGGAGAAGAAG
83307 GAGGAGAAGAAG
1 GAGGAGAAGAAG
83319 GA
1 GA
83321 TATTGTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (12 bp):
GAGGAGAAGAAG
Found at i:84576 original size:351 final size:351
Alignment explanation
Indices: 83933--84634 Score: 1386
Period size: 351 Copynumber: 2.0 Consensus size: 351
83923 ATCTAATAAG
83933 TATTTGATGAATCGATTGCACGATTTCGACATCTCGTTTGTTCCATTTCACTTTAGTAGGAAAAA
1 TATTTGATGAATCGATTGCACGATTTCGACATCTCGTTTGTTCCATTTCACTTTAGTAGGAAAAA
* *
83998 GACTGTTGAAAGAGATTGTCACATGTCTATTTTCTATTTATTTCAAGTTTTCTTCACTTTTTAGG
66 GACTATTGAAAGAGATTGTCACATGTCAATTTTCTATTTATTTCAAGTTTTCTTCACTTTTTAGG
84063 TGGCTATTAATGTTAGTTGCTTGTACCTATCATCTCCATCTATAAACCGTTTTTTTAATTATGTT
131 TGGCTATTAATGTTAGTTGCTTGTACCTATCATCTCCATCTATAAACCGTTTTTTTAATTATGTT
84128 TTCGCATGAGATTGAATAGTTTAATTACCCTTTTCCAAATTCCAACAAAGATTAACCTAGTTATA
196 TTCGCATGAGATTGAATAGTTTAATTACCCTTTTCCAAATTCCAACAAAGATTAACCTAGTTATA
84193 TAGTTAAGTTATTGTACCAATTTAGTCTCTTCAATATTATTTTTGGATCAATTTAGCCCCTTTAT
261 TAGTTAAGTTATTGTACCAATTTAGTCTCTTCAATATTATTTTTGGATCAATTTAGCCCCTTTAT
84258 TGTAGAGATTAATTCAACATCTATCT
326 TGTAGAGATTAATTCAACATCTATCT
84284 TATTTGATGAATCGATTGCACGATTTCGACATCTCGTTTGTTCCATTTCACTTTAGTAGGAAAAA
1 TATTTGATGAATCGATTGCACGATTTCGACATCTCGTTTGTTCCATTTCACTTTAGTAGGAAAAA
84349 GACTATTGAAAGAGATTGTCACATGTCAATTTTCTATTTATTTCAAGTTTTCTTCACTTTTTAGG
66 GACTATTGAAAGAGATTGTCACATGTCAATTTTCTATTTATTTCAAGTTTTCTTCACTTTTTAGG
84414 TGGCTATTAATGTTAGTTGCTTGTACCTATCATCTCCATCTATAAACCGTTTTTTTAATTATGTT
131 TGGCTATTAATGTTAGTTGCTTGTACCTATCATCTCCATCTATAAACCGTTTTTTTAATTATGTT
84479 TTCGCATGAGATTGAATAGTTTAATTACCCTTTTCCAAATTCCAACAAAGATTAACCTAGTTATA
196 TTCGCATGAGATTGAATAGTTTAATTACCCTTTTCCAAATTCCAACAAAGATTAACCTAGTTATA
84544 TAGTTAAGTTATTGTACCAATTTAGTCTCTTCAATATTATTTTTGGATCAATTTAGCCCCTTTAT
261 TAGTTAAGTTATTGTACCAATTTAGTCTCTTCAATATTATTTTTGGATCAATTTAGCCCCTTTAT
84609 TGTAGAGATTAATTCAACATCTATCT
326 TGTAGAGATTAATTCAACATCTATCT
84635 ACTATCGAAA
Statistics
Matches: 349, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
351 349 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (351 bp):
TATTTGATGAATCGATTGCACGATTTCGACATCTCGTTTGTTCCATTTCACTTTAGTAGGAAAAA
GACTATTGAAAGAGATTGTCACATGTCAATTTTCTATTTATTTCAAGTTTTCTTCACTTTTTAGG
TGGCTATTAATGTTAGTTGCTTGTACCTATCATCTCCATCTATAAACCGTTTTTTTAATTATGTT
TTCGCATGAGATTGAATAGTTTAATTACCCTTTTCCAAATTCCAACAAAGATTAACCTAGTTATA
TAGTTAAGTTATTGTACCAATTTAGTCTCTTCAATATTATTTTTGGATCAATTTAGCCCCTTTAT
TGTAGAGATTAATTCAACATCTATCT
Found at i:87134 original size:14 final size:15
Alignment explanation
Indices: 87105--87140 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
87095 TAAATTAGTT
87105 AAATATTTTAAAAATA
1 AAATA-TTTAAAAATA
87121 AAATATTT-AAAATA
1 AAATATTTAAAAATA
87135 AAATAT
1 AAATAT
87141 GAATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.60
15 3 0.15
16 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATTTAAAAATA
Found at i:95399 original size:12 final size:12
Alignment explanation
Indices: 95382--95411 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
95372 AAGCCATTGC
95382 CTAGACTACCTT
1 CTAGACTACCTT
*
95394 CTAGACTATCTT
1 CTAGACTACCTT
95406 CTAGAC
1 CTAGAC
95412 CTCTGCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (12 bp):
CTAGACTACCTT
Found at i:95951 original size:59 final size:60
Alignment explanation
Indices: 95850--95964 Score: 178
Period size: 59 Copynumber: 1.9 Consensus size: 60
95840 GGTCTCTCGT
* * *
95850 CTATAGGTTACTATTTTGTTGAATCTCTCGACTATTAAAAGTTACAAAATGGTCACTCAA
1 CTATAGGGTACTACTTTGTTGAATCTCTCGACTATTAAAAGTTACAAAATGATCACTCAA
* *
95910 CTATAGGGTACTACTTT-TTGAGTCTCTCGACTATTAGAAGTTACAAAATGATCAC
1 CTATAGGGTACTACTTTGTTGAATCTCTCGACTATTAAAAGTTACAAAATGATCAC
95965 CCGACTATTC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 35 0.70
60 15 0.30
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (60 bp):
CTATAGGGTACTACTTTGTTGAATCTCTCGACTATTAAAAGTTACAAAATGATCACTCAA
Found at i:96394 original size:25 final size:25
Alignment explanation
Indices: 96366--96417 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
96356 AAAAATTACT
96366 ATTTCATAATTATAATTACAAGAAA
1 ATTTCATAATTATAATTACAAGAAA
* * *
96391 ATTTGATATTTATAATTATAAGAAA
1 ATTTCATAATTATAATTACAAGAAA
96416 AT
1 AT
96418 ATGTATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (25 bp):
ATTTCATAATTATAATTACAAGAAA
Found at i:103943 original size:2 final size:2
Alignment explanation
Indices: 103899--103932 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
103889 AATCATATGA
103899 AT 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 AT
103933 GTGATTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104901 original size:17 final size:18
Alignment explanation
Indices: 104879--104947 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
104869 GATGAATTAT
104879 CAGTGGTCCTTC-GAAAA
1 CAGTGGTCCTTCGGAAAA
* * *
104896 CAGTGGTCATTCGGGACA
1 CAGTGGTCCTTCGGAAAA
* *
104914 TAGTGGTTCTTCGGAACAA
1 CAGTGGTCCTTCGGAA-AA
104933 TCAGTGGTCCTTCGG
1 -CAGTGGTCCTTCGG
104948 GACATAGTGG
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 11 0.28
18 15 0.38
19 1 0.03
20 12 0.31
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (18 bp):
CAGTGGTCCTTCGGAAAA
Found at i:104920 original size:18 final size:18
Alignment explanation
Indices: 104897--104964 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
104887 CTTCGAAAAC
104897 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
104915 AGTGGTTC-TTCGGAACAAT
1 AGTGG-TCATTCGGGAC-AT
*
104934 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCATTCGGGACAT
104953 AGTGGTCATTCG
1 AGTGGTCATTCG
104965 AGATAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 23 0.53
19 8 0.19
20 12 0.28
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:104947 original size:38 final size:35
Alignment explanation
Indices: 104880--104965 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 35
104870 ATGAATTATC
104880 AGTGGTCCTTCGAAAACAGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGAAAACAGTGGTCATTCGGGACAT
* *
104915 AGTGGTTCTTCGGAACAATCAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTC-GAA-AA-CAGTGGTCATTCGGGACAT
*
104953 AGTGGTCATTCGA
1 AGTGGTCCTTCGA
104966 GATAAATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
35 10 0.23
36 3 0.07
37 4 0.09
38 27 0.61
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (35 bp):
AGTGGTCCTTCGAAAACAGTGGTCATTCGGGACAT
Found at i:108477 original size:31 final size:31
Alignment explanation
Indices: 108434--108493 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
108424 AACTTAAAAG
*
108434 AGTTTTGAAATACTGAGATTTAAATAATTTT
1 AGTTTTGAAATACTGAAATTTAAATAATTTT
108465 AGTTTT-ACAATACTGAAATTTAAATAATT
1 AGTTTTGA-AATACTGAAATTTAAATAATT
108494 CATACAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTGAAATACTGAAATTTAAATAATTTT
Found at i:108994 original size:20 final size:19
Alignment explanation
Indices: 108946--108994 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
108936 TATTTAAATC
*
108946 AAAATAATTAAAATAAATAT
1 AAAATAATT-TAATAAATAT
108966 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAA-ATAT
108984 AAAATAATTTA
1 AAAATAATTTA
108995 TATGATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
20 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTTAATAAATAT
Found at i:109022 original size:20 final size:20
Alignment explanation
Indices: 108980--109031 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
108970 TTTTAATAAT
* * *
108980 ATATAAAAT-AATTTATATG
1 ATATAAATTAAATATATATA
108999 ATATAAATTAAATATATATA
1 ATATAAATTAAATATATATA
109019 ATATAATATTAAA
1 ATATAA-ATTAAA
109032 AAATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 8 0.29
20 14 0.50
21 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATAAATTAAATATATATA
Found at i:109092 original size:64 final size:63
Alignment explanation
Indices: 109003--109156 Score: 233
Period size: 64 Copynumber: 2.5 Consensus size: 63
108993 TATATGATAT
* * *
109003 AAATTAAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAGAAAATTATTATTA
1 AAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTA-AAAAATAATATTA
109068 AAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATAATATTA
1 AAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATAATATTA
*
109131 AAATTAAAATC-A-AATATAATA-TAAAA
1 AAATTAATATCTATAATATAATATTAAAA
109157 TTAAATATCT
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
60 5 0.06
61 9 0.11
62 1 0.01
63 21 0.25
64 44 0.52
65 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (63 bp):
AAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATAATATTA
Found at i:109164 original size:87 final size:91
Alignment explanation
Indices: 109063--109281 Score: 330
Period size: 87 Copynumber: 2.5 Consensus size: 91
109053 AGAAAATTAT
109063 TATTAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAA-TAA
1 TATTAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAA
109126 TATTAAAATTAAAATC-A-AATATAA
66 TATTAAAATTAAAATCTATAATATAA
109150 TA-TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAA
1 TATTAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAA
*
109214 TATTAAAATTAATATCTATAATATAA
66 TATTAAAATTAAAATCTATAATATAA
* * *
109240 TATTAAAA--AAATAATATTTAAT-TTAT-TTAAAAAATTAATATT
1 TATTAAAATTAAAT-ATCTATAATATAATATTAAAAAATTAATATT
109282 AAAATTAATA
Statistics
Matches: 122, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
86 7 0.06
87 52 0.43
88 34 0.28
89 8 0.07
90 16 0.13
91 5 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (91 bp):
TATTAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAA
TATTAAAATTAAAATCTATAATATAA
Found at i:109179 original size:151 final size:154
Alignment explanation
Indices: 108994--109311 Score: 545
Period size: 151 Copynumber: 2.1 Consensus size: 154
108984 AAAATAATTT
* *
108994 ATATGATAT-AAATTAAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAGAAA
1 ATATAATATAAAATTAAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAA
* *
109058 ATTATTATTAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAA
66 ATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAA
109123 -TAATATTAAAATTAAAATC-A-A
131 TTAATATTAAAATTAAAATCTATA
*
109144 ATATAATATAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAA
1 ATATAATATAAAATTAAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAA
109209 ATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAA
66 ATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAA
*
109274 TTAATATTAAAATTAATATCTATA
131 TTAATATTAAAATTAAAATCTATA
109298 ATATAATATTAAAA
1 ATATAATA-TAAAA
109312 AATTAATATT
Statistics
Matches: 157, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
150 8 0.05
151 116 0.74
152 18 0.11
153 1 0.01
154 9 0.06
155 5 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (154 bp):
ATATAATATAAAATTAAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAA
ATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAA
TTAATATTAAAATTAAAATCTATA
Found at i:109215 original size:64 final size:64
Alignment explanation
Indices: 109142--109371 Score: 389
Period size: 64 Copynumber: 3.6 Consensus size: 64
109132 AATTAAAATC
109142 AAATATAATA-TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
1 AAAT-TAATATTAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
109206 A
64 A
*
109207 AAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAA
1 AAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAA
109271 AAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTT-AA
1 AAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAA
*
109334 AAATTAATATTAAAATTAAAATC-A-AATATAATA-TAAAA
1 AAATTAATATTAAAATTAATATCTATAATATAATATTAAAA
109372 TTAAATATAA
Statistics
Matches: 161, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
60 5 0.03
61 9 0.06
62 1 0.01
63 24 0.15
64 111 0.69
65 11 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (64 bp):
AAATTAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAA
Found at i:109350 original size:24 final size:24
Alignment explanation
Indices: 109176--109350 Score: 69
Period size: 23 Copynumber: 7.0 Consensus size: 24
109166 TATAATATAA
* *
109176 TATTAAAAAATTAATATT-TAATT
1 TATTTAAAAATTAATATTAAAATT
109199 TATTTAAAAAATTAATATTAAAATT
1 TATTT-AAAAATTAATATTAAAATT
* * *
109224 AATATCT-ATAATATAATATTAAAAAAATAA
1 --TATTTAAAAAT-TAATATT---AAAAT-T
*
109254 TATTT---AATTTAT-TTAAAAAATT
1 TATTTAAAAATTAATATT--AAAATT
* *
109276 AATATT-AAAATTAATATCTATAATATAA
1 TAT-TTAAAAATTAATAT-TA-AA-AT-T
* *
109304 TATTAAAAAATTAATATT-TAATT
1 TATTTAAAAATTAATATTAAAATT
109327 TATTTAAAAATTAATATTAAAATT
1 TATTTAAAAATTAATATTAAAATT
109351 AAAATCAAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 37
0.68 0.10 0.22
Matches are distributed among these distances:
22 2 0.02
23 30 0.26
24 21 0.18
25 19 0.16
26 13 0.11
27 9 0.08
28 17 0.15
29 5 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (24 bp):
TATTTAAAAATTAATATTAAAATT
Found at i:109378 original size:12 final size:12
Alignment explanation
Indices: 109333--109383 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
109323 AATTTATTTA
109333 AAAATT-AATATT
1 AAAATTAAATA-T
109345 AAAATTAAA-AT
1 AAAATTAAATAT
*
109356 CAAA-TATAATAT
1 AAAATTA-AATAT
109368 AAAATTAAATAT
1 AAAATTAAATAT
109380 AAAA
1 AAAA
109384 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:109379 original size:151 final size:149
Alignment explanation
Indices: 108994--109375 Score: 485
Period size: 151 Copynumber: 2.5 Consensus size: 149
108984 AAAATAATTT
* * * * *
108994 ATATGATAT-AAATTAAATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAGAAA
1 ATATAATATAAAATTAAATATCTATAATAT-ATATTAAAAAATTAATATTTAA-TAATTAAAAAA
* *
109058 ATTATTATTAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAA
64 ATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAA
109123 TAATATTAAAATTAAAATCAA
129 TAATATTAAAATTAAAATCAA
* *
109144 ATATAATATAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAA
1 ATATAATATAAAATTAAATATCTATAATAT-ATATTAAAAAATTAATATTTAA-TAATTAAAAAA
109209 ATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAA
64 ATTAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAA
*
109274 TTAATATTAAAATTAATATCTATA
129 -TAATATTAAAATTAAAATC-A-A
*
109298 ATATAATATTAAAAAATT-AATAT-T-TAAT-T-TATTTAAAAATTAATA-TTAA-AATTAAAAT
1 ATATAATA-T--AAAATTAAATATCTATAATATATATTAAAAAATTAATATTTAATAATTAAAA-
109356 CAAATATAATA-TAAAATTAA
62 -AAAT-TAATATTAAAATTAA
109376 ATATAAAACC
Statistics
Matches: 213, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
148 6 0.03
150 25 0.12
151 136 0.64
152 18 0.08
153 2 0.01
154 13 0.06
155 2 0.01
156 5 0.02
157 6 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (149 bp):
ATATAATATAAAATTAAATATCTATAATATATATTAAAAAATTAATATTTAATAATTAAAAAAAT
TAATATTAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAATA
ATATTAAAATTAAAATCAA
Found at i:109809 original size:32 final size:32
Alignment explanation
Indices: 109752--109812 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
109742 CCTATGTAAC
* *
109752 TGTCCATATGTTCCGAAGAATATAGGTAATCA
1 TGTCCATATGTCCCGAAGAACATAGGTAATCA
109784 TGTCCATATGTCCCGAA-AGACATAGGTAA
1 TGTCCATATGTCCCGAAGA-ACATAGGTAA
109813 CCCTCGACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAGAACATAGGTAATCA
Found at i:123052 original size:22 final size:23
Alignment explanation
Indices: 123027--123071 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
123017 TACATGCGGG
* *
123027 CAAGTATTTTTATATAA-TCCAT
1 CAAGTATTTATATAAAATTCCAT
*
123049 CAAGTGTTTATATAAAATTCCAT
1 CAAGTATTTATATAAAATTCCAT
123072 ATCTTTGAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (23 bp):
CAAGTATTTATATAAAATTCCAT
Found at i:124507 original size:18 final size:18
Alignment explanation
Indices: 124484--124521 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
124474 AAAATAAGTG
124484 TCTAAATTATAACACGTT
1 TCTAAATTATAACACGTT
124502 TCTAAATTATAACACGTT
1 TCTAAATTATAACACGTT
124520 TC
1 TC
124522 ATGAATAAAT
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:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (18 bp):
TCTAAATTATAACACGTT
Found at i:124751 original size:23 final size:22
Alignment explanation
Indices: 124701--124755 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
124691 TTTTTAAAAA
* *
124701 TATATATATTTTTTATTTATCT
1 TATAAATATTTTTTATTAATCT
124723 TA-AAATATTTTTATATTAAAT-T
1 TATAAATATTTTT-TATT-AATCT
124745 TATAAATATTT
1 TATAAATATTT
124756 ATTTTTCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 9 0.32
22 9 0.32
23 10 0.36
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATAAATATTTTTTATTAATCT
Found at i:126436 original size:19 final size:19
Alignment explanation
Indices: 126414--126458 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
126404 ATTTTTAGGC
*
126414 TCATAGCTTATTATCAGAT
1 TCATAGCTTATTATCAAAT
*
126433 TCATAGCTTATTTTCAAAT
1 TCATAGCTTATTATCAAAT
126452 TCATAGC
1 TCATAGC
126459 CCAATGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (19 bp):
TCATAGCTTATTATCAAAT
Found at i:126602 original size:27 final size:27
Alignment explanation
Indices: 126562--126627 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
126552 CACACTCCAA
*
126562 GTGC-AATAATAACATGAGCACCAATG
1 GTGCAAATCATAACATGAGCACCAATG
126588 GTGCAAATCATAACATGAGCACCAATG
1 GTGCAAATCATAACATGAGCACCAATG
*
126615 GTGCAGATCATAA
1 GTGCAAATCATAA
126628 TGTACACGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 4 0.11
27 33 0.89
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
GTGCAAATCATAACATGAGCACCAATG
Found at i:137641 original size:12 final size:12
Alignment explanation
Indices: 137611--137654 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
137601 CATTTTCCAC
137611 TTTCATATTCAT
1 TTTCATATTCAT
**
137623 TCACATATTCAT
1 TTTCATATTCAT
137635 TTTCATATTCCAT
1 TTTCATATT-CAT
*
137648 GTTCATA
1 TTTCATA
137655 ATAAATACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTCATATTCAT
Found at i:137739 original size:19 final size:19
Alignment explanation
Indices: 137716--137773 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
137706 ATATTTATAA
*
137716 CTTATTTTCAAACTCATAG
1 CTTATTTTCAAATTCATAG
* *
137735 TTTATTGTT-AGATTCATAG
1 CTTATT-TTCAAATTCATAG
137754 CTTATTTTCAAATTCATAG
1 CTTATTTTCAAATTCATAG
137773 C
1 C
137774 CCAATGCATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 2 0.06
19 28 0.88
20 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
CTTATTTTCAAATTCATAG
Found at i:140393 original size:20 final size:20
Alignment explanation
Indices: 140368--140411 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
140358 GTGGGTACCA
*
140368 ATACTGACCCTTCAGTATCG
1 ATACTGAACCTTCAGTATCG
**
140388 ATACTGAACCTTTGGTATCG
1 ATACTGAACCTTCAGTATCG
140408 ATAC
1 ATAC
140412 CCACCTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (20 bp):
ATACTGAACCTTCAGTATCG
Found at i:140422 original size:20 final size:19
Alignment explanation
Indices: 140395--140433 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
140385 TCGATACTGA
*
140395 ACCTTTGGTATCGATACCC
1 ACCTTTGGTATCGAAACCC
140414 ACCTGTTGGTATCGAAACCC
1 ACCT-TTGGTATCGAAACCC
140434 CTAACTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (19 bp):
ACCTTTGGTATCGAAACCC
Found at i:143330 original size:16 final size:18
Alignment explanation
Indices: 143311--143350 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
143301 AATATTGAAA
*
143311 ATTAAAAATTA-AAAA-T
1 ATTAAAAATAACAAAATT
143327 ATTAAAAATAACAAAATT
1 ATTAAAAATAACAAAATT
143345 ATTAAA
1 ATTAAA
143351 TATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
ATTAAAAATAACAAAATT
Found at i:143884 original size:29 final size:29
Alignment explanation
Indices: 143837--143927 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
143827 TTTGTCTTTG
* * *
143837 GTTCTAGTTTAGTGTCTAACGTTTATTTC
1 GTTCCAGTTTGGTGCCTAACGTTTATTTC
143866 GTTCCAGTTTGGTGCCTAACGTTTATTTC
1 GTTCCAGTTTGGTGCCTAACGTTTATTTC
*
143895 GTTCCAGTTTGGTGCCTAACGTTTCATTCC
1 GTTCCAGTTTGGTGCCTAACGTTT-ATTTC
143925 GTT
1 GTT
143928 ACTCATTTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 50 0.88
30 7 0.12
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (29 bp):
GTTCCAGTTTGGTGCCTAACGTTTATTTC
Found at i:144429 original size:2 final size:2
Alignment explanation
Indices: 144422--144448 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
144412 TTTCTTTTTA
144422 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 A
144449 GTTTTATTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:153694 original size:38 final size:38
Alignment explanation
Indices: 153652--153774 Score: 115
Period size: 38 Copynumber: 3.2 Consensus size: 38
153642 AGTATATTTT
153652 TATTTAATTATTTAAAGTATATTTTTAATCAAAATAAG
1 TATTTAATTATTTAAAGTATATTTTTAATCAAAATAAG
* * * * * * ***
153690 TATTTGATTATATAATAAA-TAAATACTTAAAGC-ATATTTT
1 TATTTAATTAT-T--TAAAGTATAT-TTTTAATCAAAATAAG
153730 TATTTAATTATTTAAAGTATATTTTTAATCAAAATAAG
1 TATTTAATTATTTAAAGTATATTTTTAATCAAAATAAG
153768 TATTTAA
1 TATTTAA
153775 AATTATTATT
Statistics
Matches: 61, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
37 9 0.15
38 24 0.39
39 2 0.03
40 17 0.28
41 9 0.15
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (38 bp):
TATTTAATTATTTAAAGTATATTTTTAATCAAAATAAG
Found at i:153715 original size:78 final size:78
Alignment explanation
Indices: 153617--153772 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
153607 TAAATTTAAG
*
153617 GATTATATAATAAATAAATACTTAAAGTATATTTTTATTTAATTATTTAAAGTATATTTTTAATC
1 GATTATATAATAAATAAATACTTAAAGCATATTTTTATTTAATTATTTAAAGTATATTTTTAATC
153682 AAAATAAGTATTT
66 AAAATAAGTATTT
153695 GATTATATAATAAATAAATACTTAAAGCATATTTTTATTTAATTATTTAAAGTATATTTTTAATC
1 GATTATATAATAAATAAATACTTAAAGCATATTTTTATTTAATTATTTAAAGTATATTTTTAATC
153760 AAAATAAGTATTT
66 AAAATAAGTATTT
153773 AAAATTATTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (78 bp):
GATTATATAATAAATAAATACTTAAAGCATATTTTTATTTAATTATTTAAAGTATATTTTTAATC
AAAATAAGTATTT
Found at i:153734 original size:40 final size:40
Alignment explanation
Indices: 153618--153740 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
153608 AAATTTAAGG
*
153618 ATTATATAATAAATAAATACTTAAAGTATATTTTTATTTA
1 ATTATATAATAAATAAATACTTAAAGCATATTTTTATTTA
* * * * * *** *
153658 ATTAT-T--TAAAGTATAT-TTTTAATCAAAATAAGTATTTG
1 ATTATATAATAAA-TAAATACTTAAAGC-ATATTTTTATTTA
153696 ATTATATAATAAATAAATACTTAAAGCATATTTTTATTTA
1 ATTATATAATAAATAAATACTTAAAGCATATTTTTATTTA
153736 ATTAT
1 ATTAT
153741 TTAAAGTATA
Statistics
Matches: 58, Mismatches: 19, Indels: 12
0.65 0.21 0.13
Matches are distributed among these distances:
37 8 0.14
38 17 0.29
39 2 0.03
40 22 0.38
41 9 0.16
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (40 bp):
ATTATATAATAAATAAATACTTAAAGCATATTTTTATTTA
Found at i:153825 original size:29 final size:29
Alignment explanation
Indices: 153741--153839 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 29
153731 ATTTAATTAT
* *
153741 TTAAAGTATATTTTTAATCAAAATAAGTAT
1 TTAAAGTAT-TTTTTGATCAAAATAAGTAC
* *
153771 TTAAAATTATTATTTTGGTCAAAAT-AGATAC
1 TT-AAAGTATT-TTTTGATCAAAATAAG-TAC
*
153802 TTAAAGTATTTTTTGATAAAAATAAGTAC
1 TTAAAGTATTTTTTGATCAAAATAAGTAC
*
153831 GTAAAGTAT
1 TTAAAGTAT
153840 CCATTTTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
29 22 0.39
30 14 0.25
31 21 0.37
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.41
Consensus pattern (29 bp):
TTAAAGTATTTTTTGATCAAAATAAGTAC
Found at i:154946 original size:19 final size:19
Alignment explanation
Indices: 154902--154951 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
154892 ATTCAAGTAC
* * *
154902 AATATTATATTAAATTTAA
1 AATATTAAATTTAATTCAA
*
154921 AA-GTTAAATTTAATTCAA
1 AATATTAAATTTAATTCAA
154939 AATATTAAATTTA
1 AATATTAAATTTA
154952 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AATATTAAATTTAATTCAA
Found at i:155070 original size:25 final size:26
Alignment explanation
Indices: 155022--155070 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
155012 TTTTAAATCC
* *
155022 TAAATTAACTATTTTCTAAAATATTT
1 TAAATTAACTATATTATAAAATATTT
*
155048 TAAA-TAACTATATTATAATATAT
1 TAAATTAACTATATTATAAAATAT
155071 ATAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (26 bp):
TAAATTAACTATATTATAAAATATTT
Found at i:155077 original size:25 final size:25
Alignment explanation
Indices: 155022--155078 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
155012 TTTTAAATCC
* * * *
155022 TAAATTAACTATTTTCTAAAATATT
1 TAAAATAACTATATTATAAAATATA
* *
155047 TTAAATAACTATATTATAATATATA
1 TAAAATAACTATATTATAAAATATA
155072 TAAAATA
1 TAAAATA
155079 TTTACCTATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAAATAACTATATTATAAAATATA
Found at i:160469 original size:75 final size:74
Alignment explanation
Indices: 160246--160796 Score: 682
Period size: 75 Copynumber: 7.5 Consensus size: 74
160236 CAACATATTT
* * * * *
160246 GGTAGGTAGTTTAATATAATAGTTAGAGCCTA---TTTTTACCGTTTACATTATTATCAACC-TT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTT
160307 AAAAAAACC
66 AAAAAAACC
* * * * *
160316 TGTAAGTATTTTAATGTAATAGATAGTGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTC
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTT
**
160381 AAAAAAATT
66 AAAAAAACC
* * * * *
160390 GGTAGGTATTTTAATGTAATAGGTAGCGCTTATTTTATTTTATCATTTACATTATTAGTAATCTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTT-TTTTACCGTTTACATTATTAGCAACCTT
*
160455 TAAACAAACC
65 TAAAAAAACC
* * *
160465 GGTAGGTATTTTAATATAATAGGTAGCGACTA-TTTTTTTACCGTTTACATTATTAGCAATCTTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTT
160529 AAAAAAACC
66 AAAAAAACC
* * * * * * *
160538 GATAAGTAGTTTAATATAATAGGTAGCGCCTATTTTTTTTACCGTTTATATTATTAGAAACCTTC
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTT
*
160603 AAAAAAATC
66 AAAAAAACC
* * * * *
160612 AGTAGATAGTTTAATGTAATAGGTATCACCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTTTACCGTTTACATTATTAGCAACCTT
*
160677 TAAAAAAACT
65 TAAAAAAACC
160687 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAA-CTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTTTACCGTTTACATTATTAGCAACCTT
*
160751 TAAAAAAATC
65 TAAAAAAACC
* * *
160761 GGTAGGTATTTTAATGTAATATGTAACGTCTATTTT
1 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTT
160797 ATATTTCCGG
Statistics
Matches: 413, Mismatches: 61, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
70 26 0.06
73 92 0.22
74 143 0.35
75 152 0.37
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (74 bp):
GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAACCTTT
AAAAAAACC
Found at i:160499 original size:149 final size:147
Alignment explanation
Indices: 160245--160796 Score: 675
Period size: 149 Copynumber: 3.7 Consensus size: 147
160235 TCAACATATT
* * * * *
160245 TGGTAGGTAGTTTAATATAATAGTTAGAGCCTA---TTTTTACCGTTTACATTATTA-TCAACCT
1 TGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGT-AACTT
* * * * *
160306 TAAAAAAACCTGTAAGTATTTTAATGTAATAGATAGTGCCTATTTTTTTTACCGTTTACATTATT
65 TAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCGACTATTTTTTTTACCGTTTACATTATT
* *
160371 AGCAACCTTCAAAAAAAT
130 AGCAACCTTTAAAAAAAC
* * *
160389 TGGTAGGTATTTTAATGTAATAGGTAGCGCTTATTTTATTTTATCATTTACATTATTAGTAATCT
1 TGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTT-TTTTACCGTTTACATTATTAGTAA-CT
* *
160454 TTAAACAAACCGGTAGGTATTTTAATATAATAGGTAGCGACTA-TTTTTTTACCGTTTACATTAT
64 TTAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCGACTATTTTTTTTACCGTTTACATTAT
*
160518 TAGCAATCTTTAAAAAAAC
129 TAGCAACCTTTAAAAAAAC
* * * * * * *
160537 CGATAAGTAGTTTAATATAATAGGTAGCGCCTATTTTTTTTACCGTTTATATTATTAGAAACCTT
1 TGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGTAA-CTT
* * * * * *
160602 CAAAAAAATCAGTAGATAGTTTAATGTAATAGGTATC-ACCTATTTTTTTTTACCGTTTACATTA
65 TAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCGA-CTA-TTTTTTTTACCGTTTACATTA
160666 TTAGCAACCTTTAAAAAAAC
128 TTAGCAACCTTTAAAAAAAC
*
160686 TGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACTT
1 TGGTAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTTTACCGTTTACATTATTAGTAACTT
* * * *
160751 TAAAAAAATCGGTAGGTATTTTAATGTAATATGTAACGTCTATTTT
65 TAAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCGACTATTTT
160797 ATATTTCCGG
Statistics
Matches: 345, Mismatches: 52, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
144 28 0.08
146 1 0.00
147 56 0.16
148 92 0.27
149 142 0.41
150 26 0.08
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (147 bp):
TGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGTAACTTT
AAAAAAACCGGTAGGTATTTTAATGTAATAGGTAGCGACTATTTTTTTTACCGTTTACATTATTA
GCAACCTTTAAAAAAAC
Found at i:160629 original size:222 final size:220
Alignment explanation
Indices: 160246--160796 Score: 746
Period size: 222 Copynumber: 2.5 Consensus size: 220
160236 CAACATATTT
* * * * *
160246 GGTAGGTAGTTTAATATAATAGTTAGAGCCTA--TTTTTACCGTTTACATTATTATCAACCTTAA
1 GGTAGGTATTTTAATATAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAACTTTAA
* * *
160309 AAAAACCTGTAAGTATTTTAATGTAATAGATAGTGCCTATTTTTTTTACCGTTTACATTATTAGC
66 AAAAACC-GTAAGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGA
** * * * * *
160374 AACCTTCAAAAAAATTGGTAGGTATTTTAATGTAATAGGTAGCGCTTATTTTATTTTATCATTTA
130 AACCTTCAAAAAAATCAGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTATTTTACCATTTA
* * *
160439 CATTATTAGTAATCTTTAAACAAACC
195 CATTATTAGCAACCTTTAAAAAAACC
*
160465 GGTAGGTATTTTAATATAATAGGTAGCGACTATTTTTTTACCGTTTACATTATTAGCAATCTTTA
1 GGTAGGTATTTTAATATAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAA-CTTTA
* * *
160530 AAAAAACCGATAAGTAGTTTAATATAATAGGTAGCGCCTATTTTTTTTACCGTTTATATTATTAG
65 AAAAAACCG-TAAGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAG
* * *
160595 AAACCTTCAAAAAAATCAGTAGATAGTTTAATGTAATAGGTATCACCTATTTTTTTTTACCGTTT
129 AAACCTTCAAAAAAATCAGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTATTTTACCATTT
*
160660 ACATTATTAGCAACCTTTAAAAAAACT
194 ACATTATTAGCAACCTTTAAAAAAACC
*
160687 GGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACTTT
1 GGTAGGTATTTTAATATAATAGGTAGCGCCTA--TTTTTTTACCGTTTACATTATTAGCAACTTT
* * * * *
160752 AAAAAAATCGGTAGGTATTTTAATGTAATATGTAACGTCTATTTT
64 AAAAAAA-CCGTAAGTATTTTAATGTAATAGGTAGCGCCTATTTT
160797 ATATTTCCGG
Statistics
Matches: 290, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
219 28 0.10
221 25 0.09
222 169 0.58
223 39 0.13
224 29 0.10
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (220 bp):
GGTAGGTATTTTAATATAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAACTTTAA
AAAAACCGTAAGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGAA
ACCTTCAAAAAAATCAGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTATTTTACCATTTAC
ATTATTAGCAACCTTTAAAAAAACC
Found at i:164165 original size:13 final size:13
Alignment explanation
Indices: 164149--164173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
164139 TTTATACATT
164149 TTATTAATTTTAA
1 TTATTAATTTTAA
164162 TTATTAATTTTA
1 TTATTAATTTTA
164174 TTTTATTTGA
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:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTAATTTTAA
Found at i:164599 original size:8 final size:8
Alignment explanation
Indices: 164583--164625 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
164573 AATGTTATTT
164583 AATAATAA
1 AATAATAA
*
164591 AATATTAA
1 AATAATAA
164599 AATAATATA
1 AATAATA-A
164608 AAT-ATAAA
1 AATAAT-AA
164616 AATAATAA
1 AATAATAA
164624 AA
1 AA
164626 ATATAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AATAATAA
Found at i:164612 original size:17 final size:16
Alignment explanation
Indices: 164583--164632 Score: 73
Period size: 17 Copynumber: 3.0 Consensus size: 16
164573 AATGTTATTT
*
164583 AATAATAAAATATTAA
1 AATAATAAAATATAAA
164599 AATAATATAAATATAAA
1 AATAATA-AAATATAAA
164616 AATAATAAAAATATAAA
1 AATAAT-AAAATATAAA
164633 CAAATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 7 0.23
17 23 0.74
18 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAATAAAATATAAA
Found at i:164631 original size:8 final size:8
Alignment explanation
Indices: 164589--164632 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
164579 ATTTAATAAT
*
164589 AAAATATT
1 AAAATATA
164597 AAAATAATA
1 AAAAT-ATA
*
164606 TAAATATA
1 AAAATATA
164614 AAAATAATA
1 AAAAT-ATA
164623 AAAATATA
1 AAAATATA
164631 AA
1 AA
164633 CAAATATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAATATA
Found at i:165231 original size:59 final size:60
Alignment explanation
Indices: 165136--165257 Score: 210
Period size: 59 Copynumber: 2.0 Consensus size: 60
165126 AATTTATTAA
* * *
165136 TATGACTAAATTGATAGAATGTATAAACATTGAGGGTC-AATTTGTACTTATATCAATTT
1 TATGACCAAATTGATAGAATGTATAAACATTAAGGGTCAAATGTGTACTTATATCAATTT
165195 TATGACCAAATTGATAGAATGTATAAACATTAAGGGTCAAATGTGTACTTATATCAATTT
1 TATGACCAAATTGATAGAATGTATAAACATTAAGGGTCAAATGTGTACTTATATCAATTT
165255 TAT
1 TAT
165258 TAATTACCAC
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 36 0.61
60 23 0.39
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (60 bp):
TATGACCAAATTGATAGAATGTATAAACATTAAGGGTCAAATGTGTACTTATATCAATTT
Found at i:169738 original size:44 final size:42
Alignment explanation
Indices: 169591--169919 Score: 235
Period size: 44 Copynumber: 7.7 Consensus size: 42
169581 TTATGAAATT
* * *
169591 TTAAAAAA-TTAGATGCCTTAATTATAAAGGTAGAAA-TCGAGA
1 TTAAAAAACTTAG-GGCCTCAATTATAAAGTTAGAAAGT-GAGA
* * *
169633 TTTAAAAAA--TAGGGCCTCAATTATAAAGGTA-TAATTGAGA
1 -TTAAAAAACTTAGGGCCTCAATTATAAAGTTAGAAAGTGAGA
*** * **
169673 TCGTAAAACTTAGGGGTCTCAATTAGGAAGTTAGAAAGTGAGA
1 TTAAAAAACTTA-GGGCCTCAATTATAAAGTTAGAAAGTGAGA
* *
169716 TTAAGAAAACTTGAGGGCCTCAATTATAAAGTTAAAAATGTGGGA
1 TTAA-AAAACTT-AGGGCCTCAATTATAAAGTTAGAAA-GTGAGA
* * * *
169761 TTAAAAAAATTAGGAGCCTCAACTATAAAGATAGAAATTGAGA
1 TTAAAAAACTTAGG-GCCTCAATTATAAAGTTAGAAAGTGAGA
* *
169804 TTGAAAAAACTTAAGGGCCTTAATTGA-AAA-TGTAGAAAATGAGA
1 TT-AAAAAACTT-AGGGCCTCAATT-ATAAAGT-TAGAAAGTGAGA
**
169848 TTGAAAAAACTTAAAAGCCTCAATTATAAAGTTA-AAAGTGAGA
1 TT-AAAAAACTT-AGGGCCTCAATTATAAAGTTAGAAAGTGAGA
* **
169891 TTACAAAA-TTAAGGGTTTCAATTATAAAG
1 TTAAAAAACTT-AGGGCCTCAATTATAAAG
169920 GTGAAAAAAA
Statistics
Matches: 231, Mismatches: 40, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
39 5 0.02
40 6 0.03
41 37 0.16
42 24 0.10
43 36 0.16
44 108 0.47
45 15 0.06
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (42 bp):
TTAAAAAACTTAGGGCCTCAATTATAAAGTTAGAAAGTGAGA
Found at i:170052 original size:28 final size:30
Alignment explanation
Indices: 170020--170090 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 30
170010 AAAATAAGAT
* *
170020 TTAAAAAATTA-AAAACCTAATTATAAAAA
1 TTAAAAAATTAGAAAACCCAATTACAAAAA
*
170049 -TAAAAAA-TAGAAACCCCAATTACAAAAA
1 TTAAAAAATTAGAAAACCCAATTACAAAAA
*
170077 TTAAAAAATGAGAA
1 TTAAAAAATTAGAA
170091 CCCTGAGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.06
28 22 0.63
29 7 0.20
30 4 0.11
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.21
Consensus pattern (30 bp):
TTAAAAAATTAGAAAACCCAATTACAAAAA
Found at i:170055 original size:42 final size:42
Alignment explanation
Indices: 169952--170057 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
169942 TTAGAGACTT
* *
169952 TAATTATAAAAATAAAAAGTAAGATTAAATAATATTATAACC
1 TAATTATAAAAATAAAAAATAAGATTAAATAATATTAAAACC
* **
169994 TCTATTATAAATGTAAAAAATAAGATTTAAA-AA-ATTAAAAACC
1 T-AATTATAAAAATAAAAAATAAGA-TTAAATAATATT-AAAACC
170037 TAATTATAAAAATAAAAAATA
1 TAATTATAAAAATAAAAAATA
170058 GAAACCCCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 21 0.40
43 27 0.51
44 5 0.09
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (42 bp):
TAATTATAAAAATAAAAAATAAGATTAAATAATATTAAAACC
Found at i:173857 original size:77 final size:77
Alignment explanation
Indices: 173730--173892 Score: 245
Period size: 77 Copynumber: 2.1 Consensus size: 77
173720 AGAGGGGATG
* * * * *
173730 TTCTTTAAACTTGGATTAATTCAAATTCGAAATAGTTGTTTAAATTAAACTGTTCATCAATCTAA
1 TTCTTTTAACTTGGATTAATTCAAATTCCAAATAGTTATTTAAATTAAACTATTCATCAATCCAA
*
173795 ACTCAAATTGGC
66 ACTCAAATGGGC
* *
173807 TTCTTTTAACTTGGATTAATTCAAATTCCAAATAGTTATTTTAATTAAACTATTCATTAATCCAA
1 TTCTTTTAACTTGGATTAATTCAAATTCCAAATAGTTATTTAAATTAAACTATTCATCAATCCAA
173872 ACTCAAATGGGC
66 ACTCAAATGGGC
*
173884 TTCTCTTAA
1 TTCTTTTAA
173893 TTGCATGCTG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (77 bp):
TTCTTTTAACTTGGATTAATTCAAATTCCAAATAGTTATTTAAATTAAACTATTCATCAATCCAA
ACTCAAATGGGC
Found at i:176001 original size:18 final size:18
Alignment explanation
Indices: 175978--176033 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
175968 ATATTCCTCT
175978 TTTTTTAT-TTATATTATA
1 TTTTTTATATTATA-TATA
175996 TTTTTTATATTATATATA
1 TTTTTTATATTATATATA
* *
176014 TCTTATATCATTATATATA
1 TTTTTTAT-ATTATATATA
176033 T
1 T
176034 ATATATATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTATATTATATATA
Found at i:176026 original size:19 final size:18
Alignment explanation
Indices: 175986--176051 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
175976 CTTTTTTTAT
* *
175986 TTATATTATATTTTTTATA
1 TTATA-TATATCTTATATA
176005 TTATATATATCTTATATCA
1 TTATATATATCTTATAT-A
*
176024 TTATATATAT-ATATATA
1 TTATATATATCTTATATA
*
176041 TGTATAGATAT
1 T-TATATATAT
176052 ATTAATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.05
18 23 0.56
19 16 0.39
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTATATATATCTTATATA
Found at i:176422 original size:19 final size:19
Alignment explanation
Indices: 176380--176422 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
176370 GTTTTTTAAC
176380 ATTTTATTCATTTTGTTTA
1 ATTTTATTCATTTTGTTTA
* *
176399 TTTTTATT-ATTTTTTATTA
1 ATTTTATTCATTTTGT-TTA
176418 ATTTT
1 ATTTT
176423 TACGTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTATTCATTTTGTTTA
Found at i:179609 original size:29 final size:28
Alignment explanation
Indices: 179545--179615 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
179535 AGATTCAATC
*
179545 AGAACAAAAAGAAAAAAAAGCAAAGAGA
1 AGAAAAAAAAGAAAAAAAAGCAAAGAGA
* *
179573 AAAGAAAAAAAGAAAAAAAAGGAAA-ATTGA
1 AGA-AAAAAAAGAAAAAAAAGCAAAGA--GA
179603 AGAAAAAAGAAGA
1 AGAAAAAA-AAGA
179616 CAAGATGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 3 0.09
29 24 0.69
30 8 0.23
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (28 bp):
AGAAAAAAAAGAAAAAAAAGCAAAGAGA
Found at i:179795 original size:69 final size:69
Alignment explanation
Indices: 179671--179808 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
179661 GATTTAAACT
* *
179671 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCATTTCACTCAAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCAATGAACCATCTCACTCAAAGATCATAGAGCA
179736 TCAA
66 TCAA
* * * * * *
179740 ATGAGATTGATCAAGCACAATCATTTCTGAATTAATGCATCA-CTCTACTCGAAGATCATGGAGC
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCAATGAACCATCTC-ACTCAAAGATCATAGAGC
179804 ATCAA
65 ATCAA
179809 GAGAGAGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 2 0.03
69 58 0.97
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCAATGAACCATCTCACTCAAAGATCATAGAGCA
TCAA
Found at i:180793 original size:32 final size:32
Alignment explanation
Indices: 180743--180855 Score: 104
Period size: 32 Copynumber: 3.5 Consensus size: 32
180733 TGAGGGCATC
*
180743 TTTGAAGATTCAATATCAAATGTTGGGACAATGT
1 TTTG-AGATTCAACATCAAATGTTGGGAC-ATGT
* * *
180777 TTT-AGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGACATGT
* * * *
180808 TTTGAGATTCAACATCGAATATTGGGGCAT-C
1 TTTGAGATTCAACATCAAATGTTGGGACATGT
*
180839 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
180856 CTGATGCAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
31 11 0.16
32 54 0.79
34 3 0.04
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGACATGT
Done.