Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007760.1 Hibiscus syriacus cultivar Beakdansim tig00110029_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: 2010226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:1388186 original size:22 final size:21
Alignment explanation
Indices: 1388158--1388208 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
1388148 GGAGAGACTG
*
1388158 TTCACTATTAGCCCCTTAACT
1 TTCACTATTAGCACCTTAACT
*
1388179 ATTCACTATTAGCATCTTAACT
1 -TTCACTATTAGCACCTTAACT
1388201 TTCACTAT
1 TTCACTAT
1388209 CAGTTTCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.41
Consensus pattern (21 bp):
TTCACTATTAGCACCTTAACT
Found at i:1389056 original size:46 final size:46
Alignment explanation
Indices: 1389007--1389570 Score: 759
Period size: 46 Copynumber: 12.3 Consensus size: 46
1388997 TTCTTCATTA
* * * * * * **
1389007 ATTTCAGTTTTGGCCTCTTTTCATGCTTTAATACATCCGTTCATAA
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
1389053 ATTTTAGTTATGGCATCCTTTCATACCTTAATGCATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
1389099 ATTGTAGTTATGGCATCCTTTCATGCCTTGATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
1389145 ATTTTAGTTATGGCATCCTTTTATGCCTTAATTCATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * *
1389191 ATTTTAGTTATAGCATCATTTCATGCCTTAATGTATCTGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * *
1389237 ATTCTAGTTATGTCGTCCTTTCATGCCTTAATGCATACGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
1389283 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTCGTTAATGG
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * **
1389329 ATTCTAGTTATGGCATCCTTTCATGCCTTATTACATCTATTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
*
1389375 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
1389421 ATTCTAGTTATGGCATCATTTCATGCCTTAATGCATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
*
1389467 ATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * ** *
1389513 ATTCTAGTTATGGCATCGTTTCATGTATTAATGCATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1389559 ATTTTAGTTATG
1 ATTTTAGTTATG
1389571 AATTCGGTTT
Statistics
Matches: 449, Mismatches: 69, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 449 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
Found at i:1389365 original size:20 final size:20
Alignment explanation
Indices: 1389342--1389420 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 20
1389332 CTAGTTATGG
1389342 CATCCTTTCATGCCTTATTA
1 CATCCTTTCATGCCTTATTA
*
1389362 CAT-CTATTCATGCATTTTATTTA
1 CATCCT-TTCATGC--CTTA-TTA
* *
1389385 TGGCATCCTTTCATGCCTTAATG
1 ---CATCCTTTCATGCCTTATTA
*
1389408 CATCCGTTCATGC
1 CATCCTTTCATGC
1389421 ATTCTAGTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
19 2 0.04
20 22 0.48
22 3 0.07
23 4 0.09
24 3 0.07
26 10 0.22
27 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (20 bp):
CATCCTTTCATGCCTTATTA
Found at i:1389463 original size:20 final size:20
Alignment explanation
Indices: 1389440--1389512 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
1389430 ATGGCATCAT
*
1389440 TTCATGCCTTAATGCATTCG
1 TTCATGCCTTAATGCATCCG
* *
1389460 TTCATGCATTTTAGTTATGACATCCT
1 TTCATGC--CTTA---ATG-CATCCG
1389486 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
1389506 TTCATGC
1 TTCATGC
1389513 ATTCTAGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
20 19 0.45
21 3 0.07
22 3 0.07
24 3 0.07
25 3 0.07
26 11 0.26
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCG
Found at i:1394817 original size:18 final size:18
Alignment explanation
Indices: 1394787--1394842 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
1394777 TTTTAATATA
1394787 TTTATTGAA-TATTTTTAT
1 TTTATT-AATTATTTTTAT
* *
1394805 TTTATTAATTATTTGTAA
1 TTTATTAATTATTTTTAT
1394823 TTTA-TAATT-TTATTTAT
1 TTTATTAATTATT-TTTAT
1394840 TTT
1 TTT
1394843 CTGCAGTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 2 0.06
17 13 0.41
18 17 0.53
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTATTAATTATTTTTAT
Found at i:1395077 original size:25 final size:26
Alignment explanation
Indices: 1395022--1395082 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
1395012 AATTAGGTAA
* *
1395022 ACATTTATTTTTTTGAATATTTTATT
1 ACATTTAATTTTTTGAATATTTTATC
1395048 A-ATTTAATTTTTT-AATATTATT-TC
1 ACATTTAATTTTTTGAATATT-TTATC
1395072 ACATTTTAATT
1 ACA-TTTAATT
1395083 CGTAGAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 8 0.27
25 14 0.47
26 8 0.27
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
ACATTTAATTTTTTGAATATTTTATC
Found at i:1395092 original size:86 final size:87
Alignment explanation
Indices: 1394938--1395104 Score: 248
Period size: 86 Copynumber: 1.9 Consensus size: 87
1394928 ATTATGCTAT
* * * *
1394938 TTTAATTTTTTGAATATTTTATTAATTGTACTTTTTAATATATTTTTTGAATTTTAATTTGTAAA
1 TTTAATTTTTTGAATATTTTATTAATTGTAATTTTTAATATATTATTTCAATTTTAATTCGTAAA
1395003 ATGTTTATTAATTAGGTAAACA
66 ATGTTTATTAATTAGGTAAACA
* * *
1395025 TTTATTTTTTTGAATATTTTATTAATT-TAATTTTTTA-ATATTATTTCACATTTTAATTCGTAG
1 TTTAATTTTTTGAATATTTTATTAATTGTAATTTTTAATATATTATTTCA-ATTTTAATTCGTAA
1395088 AATGTTTATTAATTAGG
65 AATGTTTATTAATTAGG
1395105 AAAATAATCT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
85 9 0.12
86 37 0.51
87 26 0.36
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (87 bp):
TTTAATTTTTTGAATATTTTATTAATTGTAATTTTTAATATATTATTTCAATTTTAATTCGTAAA
ATGTTTATTAATTAGGTAAACA
Found at i:1397131 original size:31 final size:31
Alignment explanation
Indices: 1397064--1397141 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
1397054 ATTAATTGTA
*
1397064 ATGTTTTATGTAATGTTTTTAATATTTCTTT
1 ATGTTTTATGTAATGTTTTTAATATTTCTCT
* *
1397095 ATGTTTTATTTAATGTTTTTAATATTTGTCCT
1 ATGTTTTATGTAATGTTTTTAATATTTCT-CT
*
1397127 -TGTTTAATGTAATGT
1 ATGTTTTATGTAATGT
1397142 CATCTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.62
Consensus pattern (31 bp):
ATGTTTTATGTAATGTTTTTAATATTTCTCT
Found at i:1398962 original size:2 final size:2
Alignment explanation
Indices: 1398955--1399001 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1398945 CACAAACACA
1398955 AT AT AT AT 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 AT AT AT AT
1398997 AT AT A
1 AT AT A
1399002 AACTCTTATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1399766 original size:8 final size:8
Alignment explanation
Indices: 1399742--1399783 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
1399732 ATAAAGAATG
1399742 CTCTCAAA
1 CTCTCAAA
1399750 -TCCTCAAA
1 CT-CTCAAA
*
1399758 CTCTTAAA
1 CTCTCAAA
1399766 CTCTCAAA
1 CTCTCAAA
1399774 CTCTCAAA
1 CTCTCAAA
1399782 CT
1 CT
1399784 GATCTCCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 1 0.03
8 28 0.93
9 1 0.03
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (8 bp):
CTCTCAAA
Found at i:1402608 original size:15 final size:15
Alignment explanation
Indices: 1402590--1402629 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
1402580 AAACAAAAAA
1402590 AACCTAAACCACTTT
1 AACCTAAACCACTTT
*
1402605 AACCTCTAAACCATTTT
1 AA-C-CTAAACCACTTT
1402622 AACCTAAA
1 AACCTAAA
1402630 ACCCTATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 2 0.09
17 13 0.59
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
AACCTAAACCACTTT
Found at i:1402615 original size:17 final size:17
Alignment explanation
Indices: 1402593--1402626 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1402583 CAAAAAAAAC
1402593 CTAAACCACTTTAACCT
1 CTAAACCACTTTAACCT
*
1402610 CTAAACCATTTTAACCT
1 CTAAACCACTTTAACCT
1402627 AAAACCCTAT
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:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (17 bp):
CTAAACCACTTTAACCT
Found at i:1402672 original size:43 final size:40
Alignment explanation
Indices: 1402624--1402711 Score: 92
Period size: 42 Copynumber: 2.1 Consensus size: 40
1402614 ACCATTTTAA
*
1402624 CCTAAAACC-CTAT-ATCACTTCAACCAAAAAAAAATCCCTAAAT
1 CCTAAAACCACT-TCATCAC-TCAA-CAAAAAAAAA--CCTAAAC
*
1402667 CCT-AAACCACTTCATCACTCAACATAAAAAAACCTAAAC
1 CCTAAAACCACTTCATCACTCAACAAAAAAAAACCTAAAC
1402706 CCTAAA
1 CCTAAA
1402712 CCTAGGTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
39 9 0.22
40 2 0.05
41 9 0.22
42 10 0.25
43 10 0.25
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (40 bp):
CCTAAAACCACTTCATCACTCAACAAAAAAAAACCTAAAC
Found at i:1402956 original size:24 final size:24
Alignment explanation
Indices: 1402929--1402974 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1402919 CAAAAAAAAC
1402929 CCTAAACCACTTTAACCTAAAATT
1 CCTAAACCACTTTAACCTAAAATT
*
1402953 CCTAAACCATTTTAACCTAAAA
1 CCTAAACCACTTTAACCTAAAA
1402975 CATAAAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (24 bp):
CCTAAACCACTTTAACCTAAAATT
Found at i:1404071 original size:18 final size:18
Alignment explanation
Indices: 1404053--1404085 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1404043 ATGATATAAT
1404053 ATAAAT-TT-AAAATTAA
1 ATAAATATTAAAAATTAA
1404069 ATAAATATTAAAAATTA
1 ATAAATATTAAAAATTA
1404086 TTTTTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAATATTAAAAATTAA
Found at i:1404131 original size:25 final size:27
Alignment explanation
Indices: 1404066--1404131 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 27
1404056 AATTTAAAAT
*
1404066 TAAATAAATATTAAAAATTATTTTTATCA
1 TAAAT-AATATT-AAAATTATTATTATCA
*
1404095 TAAATAAT-TTAAAATTA-TATTAT-T
1 TAAATAATATTAAAATTATTATTATCA
*
1404119 TAATTAATATTAA
1 TAAATAATATTAA
1404132 TTTAATAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 7 0.21
25 9 0.27
26 7 0.21
27 2 0.06
28 3 0.09
29 5 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAATAATATTAAAATTATTATTATCA
Found at i:1404718 original size:16 final size:16
Alignment explanation
Indices: 1404679--1404721 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
1404669 AACTGGTATT
*
1404679 ACCTGACATGTTTTCA
1 ACCTGACCTGTTTTCA
*
1404695 ACCTGACCTGTTTTTA
1 ACCTGACCTGTTTTCA
1404711 ACCTGACCTGT
1 ACCTGACCTGT
1404722 AAATGATCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (16 bp):
ACCTGACCTGTTTTCA
Found at i:1404931 original size:13 final size:13
Alignment explanation
Indices: 1404915--1404941 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1404905 GACTTATTAT
1404915 ATAAAATTATTTA
1 ATAAAATTATTTA
1404928 ATAAAATTATTTA
1 ATAAAATTATTTA
1404941 A
1 A
1404942 ATTTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:1405297 original size:12 final size:12
Alignment explanation
Indices: 1405264--1405322 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
1405254 ATAAATTTAA
1405264 TTGATAATAATAAT
1 TTGAT-ATAAT-AT
*
1405278 TT-AAATAATAT
1 TTGATATAATAT
*
1405289 TTGATATAAAAT
1 TTGATATAATAT
1405301 TTGAT-TAATAT
1 TTGATATAATAT
*
1405312 TTGATTTAATA
1 TTGATATAATA
1405323 CAAGTTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 14 0.36
12 22 0.56
13 1 0.03
14 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (12 bp):
TTGATATAATAT
Found at i:1405309 original size:23 final size:25
Alignment explanation
Indices: 1405264--1405316 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
1405254 ATAAATTTAA
1405264 TTGATAATAATAATTTAAATAATAT
1 TTGATAATAATAATTTAAATAATAT
* *
1405289 TTGAT-ATAA-AATTTGATTAATAT
1 TTGATAATAATAATTTAAATAATAT
1405312 TTGAT
1 TTGAT
1405317 TTAATACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 17 0.65
24 4 0.15
25 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
TTGATAATAATAATTTAAATAATAT
Found at i:1406397 original size:12 final size:12
Alignment explanation
Indices: 1406380--1406406 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1406370 CACATATCAT
1406380 CTTTTTCACAAA
1 CTTTTTCACAAA
1406392 CTTTTTCACAAA
1 CTTTTTCACAAA
1406404 CTT
1 CTT
1406407 AAAGATAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (12 bp):
CTTTTTCACAAA
Found at i:1408120 original size:6 final size:6
Alignment explanation
Indices: 1408109--1408197 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
1408099 TCCCTATATA
1408109 ATTAAT ATTAAT A-TAA- ATTATAT ATT-AT AATTAAT ATTAAT A-T-A-
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT
* *
1408153 ATTAAT ATTAAT A-TAAA ATATAGT -TTATAT AATTAAT ATTAAT AT
1 ATTAAT ATTAAT ATTAAT AT-TAAT ATTA-AT -ATTAAT ATTAAT AT
1408198 AAACTATATT
Statistics
Matches: 66, Mismatches: 4, Indels: 26
0.69 0.04 0.27
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 15 0.23
6 35 0.53
7 9 0.14
8 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:1408124 original size:15 final size:15
Alignment explanation
Indices: 1408104--1408199 Score: 117
Period size: 15 Copynumber: 6.4 Consensus size: 15
1408094 TTTCATCCCT
1408104 ATATAATTAATATTA
1 ATATAATTAATATTA
1408119 ATATAAATT-ATA-TA
1 ATAT-AATTAATATTA
*
1408133 TTATAATTAATATTA
1 ATATAATTAATATTA
1408148 ATATAATTAATATTA
1 ATATAATTAATATTA
* *
1408163 ATATAA-AATATAGTTT
1 ATATAATTA-ATA-TTA
1408179 ATATAATTAATATTA
1 ATATAATTAATATTA
1408194 ATATAA
1 ATATAA
1408200 ACTATATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.06
14 9 0.13
15 40 0.58
16 15 0.22
17 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
ATATAATTAATATTA
Found at i:1408142 original size:29 final size:27
Alignment explanation
Indices: 1408105--1408162 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
1408095 TTCATCCCTA
1408105 TATAATTAATATTAATATAAATTATATAT
1 TATAATTAATATTAATAT-AATTA-ATAT
1408134 TATAATTAATATTAATATAATTAATAT
1 TATAATTAATATTAATATAATTAATAT
1408161 TA
1 TA
1408163 ATATAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 6 0.21
28 5 0.17
29 18 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATAATTAATATTAATATAATTAATAT
Found at i:1408158 original size:9 final size:9
Alignment explanation
Indices: 1408104--1408191 Score: 50
Period size: 9 Copynumber: 10.4 Consensus size: 9
1408094 TTTCATCCCT
1408104 ATATAATTA
1 ATATAATTA
1408113 ATATTAATATA
1 ATA-TAAT-TA
*
1408124 A-ATTATATA
1 ATATAAT-TA
*
1408133 TTATAATT-
1 ATATAATTA
1408141 A-AT-ATTA
1 ATATAATTA
1408148 ATATAATT-
1 ATATAATTA
1408156 A-AT-ATTA
1 ATATAATTA
1408163 ATATAA--A
1 ATATAATTA
* *
1408170 ATATAGTTT
1 ATATAATTA
1408179 ATATAATTA
1 ATATAATTA
1408188 ATAT
1 ATAT
1408192 TAATATAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
6 6 0.10
7 12 0.20
8 5 0.08
9 25 0.42
10 9 0.15
11 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (9 bp):
ATATAATTA
Found at i:1408186 original size:31 final size:30
Alignment explanation
Indices: 1408142--1408263 Score: 138
Period size: 31 Copynumber: 3.8 Consensus size: 30
1408132 ATTATAATTA
* *
1408142 ATATTAATATAATTAATATTAATATAAAAT
1 ATATTTATATAATTAATATTAATATAAACT
1408172 ATAGTTTATATAATTAATATTAATATAAACT
1 ATA-TTTATATAATTAATATTAATATAAACT
1408203 ATATTT-TATAAATTATATAGTATAATTTATAAACT
1 ATATTTATAT-AATTA-ATA-T-TAA--TATAAACT
*
1408238 ATATTTAATATAATTTATATTAATAT
1 ATATTT-ATATAATTAATATTAATAT
1408264 GGTATATGGT
Statistics
Matches: 80, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
29 3 0.04
30 11 0.14
31 34 0.43
32 1 0.01
33 6 0.08
34 1 0.01
35 17 0.21
36 4 0.05
37 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (30 bp):
ATATTTATATAATTAATATTAATATAAACT
Found at i:1408226 original size:21 final size:21
Alignment explanation
Indices: 1408202--1408256 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
1408192 TAATATAAAC
* *
1408202 TATATTTTATAAATTATATAG
1 TATAATTTATAAACTATATAG
*
1408223 TATAATTTATAAACTATATTTAA
1 TATAATTTATAAACTATA--TAG
1408246 TATAATTTATA
1 TATAATTTATA
1408257 TTAATATGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 16 0.55
23 13 0.45
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATAATTTATAAACTATATAG
Found at i:1408248 original size:75 final size:74
Alignment explanation
Indices: 1408103--1408257 Score: 190
Period size: 75 Copynumber: 2.1 Consensus size: 74
1408093 ATTTCATCCC
* *
1408103 TATATAATTAATATTAATATAAATTATATATTATAATTAATATTAATATAATTAATATTAATATA
1 TATATAATTAATATTAATATAAACTATATATTATAATTAATATTAATATAATT-ATATAAATATA
*
1408168 AAATATAGTT
65 AAATATAATT
* *
1408178 TATATAATTAATATTAATATAAACTATATTTTATAAATT-ATA-TAGTATAATT-TATAAACTAT
1 TATATAATTAATATTAATATAAACTATATATTAT-AATTAATATTAATATAATTATATAAA-TAT
*
1408240 ATTTAATATAATT
64 A--AAATATAATT
1408253 TATAT
1 TATAT
1408258 TAATATGGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
72 5 0.07
73 4 0.06
74 9 0.13
75 48 0.69
76 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (74 bp):
TATATAATTAATATTAATATAAACTATATATTATAATTAATATTAATATAATTATATAAATATAA
AATATAATT
Found at i:1408323 original size:15 final size:16
Alignment explanation
Indices: 1408300--1408333 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1408290 ATAGTAATAC
*
1408300 TATATACTATA-TTAA
1 TATAAACTATAGTTAA
1408315 TATAAACTATAGTTAA
1 TATAAACTATAGTTAA
1408331 TAT
1 TAT
1408334 GTTAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
TATAAACTATAGTTAA
Found at i:1408397 original size:36 final size:36
Alignment explanation
Indices: 1408352--1408427 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
1408342 TAATGTAAAC
* * *
1408352 TATAGTTTATAAACTATCTACTGCATTAATACAAAT
1 TATAATTTATAAACTATATACTACATTAATACAAAT
* *
1408388 TATAATTTATAAACTATATACTATATTAATATAAAT
1 TATAATTTATAAACTATATACTACATTAATACAAAT
1408424 TATA
1 TATA
1408428 GTTAAGATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (36 bp):
TATAATTTATAAACTATATACTACATTAATACAAAT
Found at i:1408427 original size:15 final size:15
Alignment explanation
Indices: 1408409--1408459 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1408399 AACTATATAC
1408409 TATATTAATATAAAT
1 TATATTAATATAAAT
*
1408424 TATAGTTAAGAT-AAT
1 TATA-TTAATATAAAT
* *
1408439 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
1408455 TATAT
1 TATAT
1408460 ACTACATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:1408528 original size:57 final size:56
Alignment explanation
Indices: 1408388--1408546 Score: 193
Period size: 57 Copynumber: 2.9 Consensus size: 56
1408378 TAATACAAAT
* * *
1408388 TATAATTTATAAACTATATACTATATTAATATAAATTATAG-TTA-AGATAATTAAC
1 TATAA-TTATAAACTATATACTACATTAATATAAACTATAGTTTATAAATAATTAAC
1408443 -ATTAA-TATAAACTATATACTACATTAATATAAACTATAGTTTATAAATAA-TATAC
1 TA-TAATTATAAACTATATACTACATTAATATAAACTATAGTTTATAAATAATTA-AC
* * *
1408498 TATAAGTTATAAACTATATAGTACAATAATATAAACTATTGTTTATAAA
1 TATAA-TTATAAACTATATACTACATTAATATAAACTATAGTTTATAAA
1408547 CTATATGTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
53 32 0.35
54 6 0.07
55 13 0.14
56 1 0.01
57 39 0.43
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.40
Consensus pattern (56 bp):
TATAATTATAAACTATATACTACATTAATATAAACTATAGTTTATAAATAATTAAC
Found at i:1408546 original size:14 final size:15
Alignment explanation
Indices: 1408527--1408555 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1408517 AGTACAATAA
1408527 TATAAACTAT-TGTT
1 TATAAACTATATGTT
1408541 TATAAACTATATGTT
1 TATAAACTATATGTT
1408556 ACATATATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
TATAAACTATATGTT
Found at i:1408594 original size:22 final size:24
Alignment explanation
Indices: 1408569--1408621 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
1408559 TATATAGTTC
1408569 ATATA-ACATATA-AATAGATTAT
1 ATATATACATATATAATAGATTAT
* *
1408591 ATATATACATATATGATAGGTTAT
1 ATATATACATATATAATAGATTAT
1408615 ATATATA
1 ATATATA
1408622 GTTTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 5 0.19
23 7 0.26
24 15 0.56
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
ATATATACATATATAATAGATTAT
Found at i:1408630 original size:11 final size:13
Alignment explanation
Indices: 1408599--1408632 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1408589 ATATATATAC
1408599 ATATATGATAGGTT
1 ATATAT-ATAGGTT
*
1408613 ATATATATAGTTT
1 ATATATATAGGTT
1408626 ATATATA
1 ATATATA
1408633 CTATACATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (13 bp):
ATATATATAGGTT
Found at i:1408642 original size:20 final size:20
Alignment explanation
Indices: 1408614--1408653 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1408604 TGATAGGTTA
* *
1408614 TATATATAGTTTATATATAC
1 TATACATAGTTTATACATAC
1408634 TATACATAGTTTATACATAC
1 TATACATAGTTTATACATAC
1408654 ATGTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TATACATAGTTTATACATAC
Found at i:1408680 original size:35 final size:36
Alignment explanation
Indices: 1408640--1408710 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
1408630 ATACTATACA
*
1408640 TAGTTT-ATACATACATGTACTATAAGTTACATATG
1 TAGTTTAATACATACATATACTATAAGTTACATATG
** *
1408675 TAGTTTACATGTATACATATACTATAGGTTACATAT
1 TAGTTTA-ATACATACATATACTATAAGTTACATAT
1408711 ATTAACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 6 0.20
37 24 0.80
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (36 bp):
TAGTTTAATACATACATATACTATAAGTTACATATG
Found at i:1408681 original size:55 final size:57
Alignment explanation
Indices: 1408546--1408681 Score: 154
Period size: 57 Copynumber: 2.4 Consensus size: 57
1408536 TTGTTTATAA
* * *
1408546 ACTATATGTTACATATATAGTTCATATAACATATAAATAGATTATATATATACATAT
1 ACTATAAGTTACATATATAGTTTATATAACATATAAATAGATTATATACATACATAT
* * * *
1408603 A-TGATAGGTTATATATATAGTTTATATATAC-TATACATAG-TT-TATACATACATGT
1 ACT-ATAAGTTACATATATAGTTTATATA-ACATATAAATAGATTATATACATACATAT
*
1408658 ACTATAAGTTACATATGTAGTTTA
1 ACTATAAGTTACATATATAGTTTA
1408682 CATGTATACA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
55 30 0.45
56 4 0.06
57 31 0.46
58 2 0.03
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (57 bp):
ACTATAAGTTACATATATAGTTTATATAACATATAAATAGATTATATACATACATAT
Found at i:1409009 original size:15 final size:14
Alignment explanation
Indices: 1408975--1409123 Score: 126
Period size: 15 Copynumber: 10.1 Consensus size: 14
1408965 TAATATAAAT
*
1408975 TATAATTTATAAACTA
1 TATAGTTTAT-AA-TA
1408991 TATAGTTTATACATA
1 TATAGTTTATA-ATA
*
1409006 TATAATTTATACATA
1 TATAGTTTATA-ATA
1409021 TATAGTTTATACATA
1 TATAGTTTATA-ATA
1409036 TATAGTTTAT-ATA
1 TATAGTTTATAATA
*
1409049 AATAGTTTAT-ATA
1 TATAGTTTATAATA
1409062 TATAGTTCATATAA-A
1 TATAGTT--TATAATA
* *
1409077 CATAATTTAT-ATA
1 TATAGTTTATAATA
1409090 TATAGCTTATAATAATTA
1 TATAG-TT-T-ATAA-TA
1409108 TATAGTTTATAATA
1 TATAGTTTATAATA
1409122 TA
1 TA
1409124 AATATAGTTT
Statistics
Matches: 114, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.01
13 28 0.25
14 6 0.05
15 55 0.48
16 14 0.12
17 3 0.03
18 7 0.06
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:1409074 original size:28 final size:28
Alignment explanation
Indices: 1408992--1409123 Score: 110
Period size: 28 Copynumber: 4.5 Consensus size: 28
1408982 TATAAACTAT
* * *
1408992 ATAGTTTATACATATATAATTTATACATAT
1 ATAGTTTATA-ATATAT-AGTTATATATAA
1409022 ATAGTTTATACATATATAGTT-TATATAA
1 ATAGTTTATA-ATATATAGTTATATATAA
1409050 ATAGTTTAT-ATATATAGTTCATATA-AA
1 ATAGTTTATAATATATAGTT-ATATATAA
* *
1409077 CATAATTTAT-ATATATAGCTTATAATAATTAT
1 -ATAGTTTATAATATATAG-TTAT-AT-A-TAA
1409109 ATAGTTTATAATATA
1 ATAGTTTATAATATA
1409124 AATATAGTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 16
0.80 0.06 0.15
Matches are distributed among these distances:
26 10 0.11
27 2 0.02
28 36 0.41
29 7 0.08
30 18 0.21
31 8 0.09
32 6 0.07
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (28 bp):
ATAGTTTATAATATATAGTTATATATAA
Found at i:1409128 original size:18 final size:18
Alignment explanation
Indices: 1409084--1409164 Score: 69
Period size: 18 Copynumber: 4.4 Consensus size: 18
1409074 AAACATAATT
* *
1409084 TATATATATAGCTTATAA
1 TATAAATATAGTTTATAA
*
1409102 TA-ATTATATAGTTTATAA
1 TATA-AATATAGTTTATAA
1409120 TATAAATATAGTTTAT-A
1 TATAAATATAGTTTATAA
1409137 TATAAACTTATA-TTATATTAA
1 TATAAA--TATAGTT-TA-TAA
1409158 TATAAAT
1 TATAAAT
1409165 TATATATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
17 8 0.15
18 30 0.56
19 8 0.15
20 1 0.02
21 7 0.13
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
TATAAATATAGTTTATAA
Found at i:1409137 original size:15 final size:15
Alignment explanation
Indices: 1408967--1409138 Score: 106
Period size: 15 Copynumber: 11.3 Consensus size: 15
1408957 TACTATATTA
*
1408967 ATATAAATTATAATTT
1 ATATAAA-TATAGTTT
1408983 ATA-AACTATATAGTTT
1 ATATAA--ATATAGTTT
* * *
1408999 ATACATATATAATTT
1 ATATAAATATAGTTT
* *
1409014 ATACATATATAGTTT
1 ATATAAATATAGTTT
* *
1409029 ATACATATATAGTTT
1 ATATAAATATAGTTT
1409044 ATAT-AA-ATAGTTT
1 ATATAAATATAGTTT
*
1409057 ATAT--ATATAGTTC
1 ATATAAATATAGTTT
* *
1409070 ATATAAACATAATTT
1 ATATAAATATAGTTT
*
1409085 ATAT--ATATAGCTT
1 ATATAAATATAGTTT
1409098 ATAATAATTATATAGTTTAT
1 AT-ATAA--ATATAG-TT-T
1409118 AATATAAATATAGTTT
1 -ATATAAATATAGTTT
1409134 ATATA
1 ATATA
1409139 TAAACTTATA
Statistics
Matches: 128, Mismatches: 14, Indels: 29
0.75 0.08 0.17
Matches are distributed among these distances:
12 1 0.01
13 29 0.23
14 3 0.02
15 57 0.45
16 14 0.11
17 4 0.03
18 12 0.09
19 1 0.01
20 5 0.04
21 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (15 bp):
ATATAAATATAGTTT
Found at i:1409303 original size:2 final size:2
Alignment explanation
Indices: 1409292--1409358 Score: 73
Period size: 2 Copynumber: 33.0 Consensus size: 2
1409282 TATGTACTTA
* * * *
1409292 AT AT ACT AT AT AT AT AA ACT AT AT AC AT AA AT CT -T AT AT AT AT
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
1409335 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
1409359 TACACAGTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
1 1 0.02
2 51 0.93
3 3 0.05
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1411288 original size:61 final size:62
Alignment explanation
Indices: 1411217--1411342 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 62
1411207 ATAAGTTTGA
* * *
1411217 TAATTTTTTAATTATTCAGCGCTACTGTAATTTTAAGTATT-TTTTAATAGTCTAAG-ATAAT
1 TAATTTTTTAATTATTCAGCACTACTGTAATTTCAAGGATTGTTTTAATAGT-TAAGAATAAT
* * * *
1411278 TAATTTTTTAATTTTTTAGCACTACTTTAATTTCAAGGATTGTTTTAATAGTTTAGAATAAT
1 TAATTTTTTAATTATTCAGCACTACTGTAATTTCAAGGATTGTTTTAATAGTTAAGAATAAT
1411340 TAA
1 TAA
1411343 AAGATAGTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
61 38 0.68
62 18 0.32
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (62 bp):
TAATTTTTTAATTATTCAGCACTACTGTAATTTCAAGGATTGTTTTAATAGTTAAGAATAAT
Found at i:1419473 original size:71 final size:71
Alignment explanation
Indices: 1419353--1419493 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
1419343 CAGATGGTCA
*
1419353 GTTGACTCAAGCTCCTTTAGGCAAAAAAACAAAAAGACAAGAGTCTGAGTCTACCACACCCTGTT
1 GTTGACTCAAGCTCCTTTAGGCAAAAAAACAAAAAGACAAGAGTCTGAGTCTACCACACCCCGTT
1419418 TAGCTC
66 TAGCTC
* * *
1419424 GTTGACTCAGGCTCCTTTGGGC-AAAAAACAAAAAGACAAGAGTCTTGAGTCTACCATACCCCGT
1 GTTGACTCAAGCTCCTTTAGGCAAAAAAACAAAAAGACAAGAGTC-TGAGTCTACCACACCCCGT
1419488 TTAGCT
65 TTAGCT
1419494 AACTCCTCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 22 0.34
71 43 0.66
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (71 bp):
GTTGACTCAAGCTCCTTTAGGCAAAAAAACAAAAAGACAAGAGTCTGAGTCTACCACACCCCGTT
TAGCTC
Found at i:1421420 original size:14 final size:15
Alignment explanation
Indices: 1421400--1421429 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1421390 CATTTTAATA
*
1421400 AAAAAATTGAATGAT
1 AAAAATTTGAATGAT
1421415 AAAAATTTGAATGAT
1 AAAAATTTGAATGAT
1421430 GATATTCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAAATTTGAATGAT
Found at i:1426988 original size:89 final size:90
Alignment explanation
Indices: 1426835--1427009 Score: 280
Period size: 89 Copynumber: 2.0 Consensus size: 90
1426825 TAACACACCC
* * *
1426835 TTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTTAAATTAATTAAATCTATAT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATATAT
* *
1426900 TTAATTAATTGGAATTTAATAATCT
66 TTAATTAATTGAAATTAAATAATCT
* *
1426925 TTTTATATCCAAGTTACTCTAATCATATTA-GGATTTTATTATTTCAAATTAATTAAATATATAT
1 TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATATAT
1426989 TTAATTAATTGAAATTAAATA
66 TTAATTAATTGAAATTAAATA
1427010 TTCAGGATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 50 0.64
90 28 0.36
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (90 bp):
TTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATATAT
TTAATTAATTGAAATTAAATAATCT
Found at i:1434289 original size:17 final size:19
Alignment explanation
Indices: 1434261--1434309 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1434251 TATTTTGAAA
1434261 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
1434279 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
1434298 CACCGATGCACT
1 CATCGATGCACT
1434310 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:1440125 original size:24 final size:24
Alignment explanation
Indices: 1440097--1440176 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
1440087 CACTTAACAA
1440097 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCATCCCTTTGAATG
* *
1440121 TGCATCGATTCAT-CATGTTGAA--
1 TGCATCGATGCATCCCT-TTGAATG
*
1440143 -GCACCGATGCA-CACC-TTGAATG
1 TGCATCGATGCATC-CCTTTGAATG
1440165 TGCATCGATGCA
1 TGCATCGATGCA
1440177 CGGGGTCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
20 5 0.11
21 9 0.20
22 1 0.02
23 12 0.27
24 17 0.39
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (24 bp):
TGCATCGATGCATCCCTTTGAATG
Found at i:1442812 original size:65 final size:63
Alignment explanation
Indices: 1442743--1442902 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 63
1442733 AATTAAATTG
* *
1442743 AACATCGAATGCATTTCATGCATCGATGCACA-TACCATGCACCGATGCAC-C-GAAGATGTTAT
1 AACATCGAATGCATTTGATGCATCGATGCACAGT--CATGCACCGATGCACTCTG--GATATTAT
1442805 GAA
62 G-A
* * * *
1442808 AACATCGAATGCATTTGATGCATCGATACACCAGTCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGTCATGCACCGATGCACTCTGGATATTATGA
*
1442872 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
1442903 TCTTAGTGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 1 0.01
64 29 0.35
65 48 0.58
66 3 0.04
67 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGTCATGCACCGATGCACTCTGGATATTATGA
Found at i:1443719 original size:22 final size:23
Alignment explanation
Indices: 1443694--1443737 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1443684 AATTAAGTTT
1443694 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
1443716 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
1443738 TCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:1449674 original size:20 final size:21
Alignment explanation
Indices: 1449650--1449729 Score: 90
Period size: 20 Copynumber: 3.8 Consensus size: 21
1449640 TTAGTGCAGA
*
1449650 GGGAATCGATTCCCCCTTTA-
1 GGGAACCGATTCCCCCTTTAG
1449670 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTT--AG
**
1449693 GGGAACCGATTCCCCCCATAG
1 GGGAACCGATTCCCCCTTTAG
* *
1449714 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
1449730 CTGGGGTTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.35
21 16 0.31
22 1 0.02
23 17 0.33
ACGTcount: A:0.23, C:0.34, G:0.24, T:0.20
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTTTAG
Found at i:1453224 original size:88 final size:88
Alignment explanation
Indices: 1453072--1453247 Score: 309
Period size: 88 Copynumber: 2.0 Consensus size: 88
1453062 TGTGCAATTT
* * *
1453072 CTTTCAATTTTCTGCAAAAGCTTCTACCAAATTTTTTATTGCCAATTCACCCCCCTCTTGGCCGA
1 CTTTCAATTTTCTGCAAAAGCTTCCACCAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGA
1453137 TTCAGTCAATCGATTAACTCAACA
66 TTC-GTCAATCGATTAACTCAACA
1453161 CTTTCAATTTTCTGCAAAAGCTTCCA-CAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGA
1 CTTTCAATTTTCTGCAAAAGCTTCCACCAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGA
1453225 TTCGTCAATCGATTAACTCAACA
66 TTCGTCAATCGATTAACTCAACA
1453248 TACATCTATG
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
87 20 0.24
88 39 0.46
89 25 0.30
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (88 bp):
CTTTCAATTTTCTGCAAAAGCTTCCACCAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGA
TTCGTCAATCGATTAACTCAACA
Found at i:1455785 original size:3 final size:3
Alignment explanation
Indices: 1455777--1455802 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1455767 CACTTATTTC
1455777 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
1455803 ATGTGGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:1456879 original size:54 final size:54
Alignment explanation
Indices: 1456812--1457346 Score: 707
Period size: 54 Copynumber: 9.8 Consensus size: 54
1456802 GATTACAAAA
** *
1456812 AGGCACTAAGTGTGCATTCCATAGAATTTATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
1456866 ATGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
1456921 AGGCACTAAGTGTGCATTCCATGGAATTCATCATGAGTTGATGAATAACCATAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
1456975 AAGCACTATGTGTGCAAATCCACGAAATTCATCATTAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
*
1457030 AGACACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
** *
1457084 AGGCACTAAGTGTGCATTCCACATAATTCATCATGAGTTGATGAATAACCATAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
1457138 ATGCACTAAGTGTGCATTCCACGGAATTCATCATAAGTTGATGAATAATCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * * *
1457192 AGGCACTATGTGAGCAAATCCACGAAATTCATCATAAGTTGATGAATAACCATGC
1 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
1457247 AAGCACTAAGTGTGCATTCCACGGAATTCATTATGAGTTTG-TGAATAACCGTAC
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAG-TTGATGAATAACCGTAC
* *
1457301 ATGCACTATA-TGTGCAAATT-CACGGAATTCATTATGAGTTGATGAA
1 AGGCACTA-AGTGTGC--ATTCCACGGAATTCATCATGAGTTGATGAA
1457347 CTACCATATA
Statistics
Matches: 421, Mismatches: 52, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
54 252 0.60
55 166 0.39
56 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (54 bp):
AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:1457004 original size:109 final size:109
Alignment explanation
Indices: 1456812--1457354 Score: 788
Period size: 109 Copynumber: 5.0 Consensus size: 109
1456802 GATTACAAAA
** * *
1456812 AGGCACTAAGTGTGCATTCCATAGAATTTATCATGAGTTGATGAATAACCGTACATGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* *
1456877 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
66 GTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCATAC
* * *
1456921 AGGCACTAAGTGTGCATTCCATGGAATTCATCATGAGTTGATGAATAACCATACAAGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* *
1456986 GTGCAAATCCACGAAATTCATCATTAGTTGATGAATAACCGTAC
66 GTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCATAC
* *
1457030 AGACACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
*
1457095 GTGC-ATTCCAC-ATAATTCATCATGAGTTGATGAATAACCATAC
66 GTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCATAC
* * *
1457138 ATGCACTAAGTGTGCATTCCACGGAATTCATCATAAGTTGATGAATAATCGTACAGGCACTATGT
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* * *
1457203 GAGCAAATCCACGAAATTCATCATAAGTTGATGAATAACCATGC
66 GTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCATAC
* * * *
1457247 AAGCACTAAGTGTGCATTCCACGGAATTCATTATGAGTTTG-TGAATAACCGTACATGCACTATA
1 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAG-TTGATGAATAACCGTACAGGCACTATG
* * *
1457311 TGTGCAAATTCACGGAATTCATTATGAGTTGATGAACT-ACCATA
65 TGTGCAAATCCACGAAATTCATCATGAGTTGATGAA-TAACCATA
1457355 TAGGAGCTAC
Statistics
Matches: 394, Mismatches: 35, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
107 1 0.00
108 97 0.25
109 291 0.74
110 5 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (109 bp):
AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
GTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCATAC
Found at i:1457091 original size:163 final size:163
Alignment explanation
Indices: 1456835--1457346 Score: 751
Period size: 163 Copynumber: 3.1 Consensus size: 163
1456825 GCATTCCATA
*
1456835 GAATTTATCATGAGTTGATGAATAACCGTACATGCACTATGTGTGCAAATCCACGGAATTCATCA
1 GAATTCATCATGAGTTGATGAATAACCGTACA-GCACTATGTGTGCAAATCCACGGAATTCATCA
*
1456900 TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTCCATGGAATTCATCATGAGTTGATGA
65 TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGA
*
1456965 ATAACCATACAAGCACTATGTGTGCAAATCCACG
130 ATAACCATACATGCACTATGTGTGCAAATCCACG
* * * *
1456999 AAATTCATCATTAGTTGATGAATAACCGTACAGACACTAAGTGTGC-ATTCCACGGAATTCATCA
1 GAATTCATCATGAGTTGATGAATAACCGTACAG-CACTATGTGTGCAAATCCACGGAATTCATCA
**
1457063 TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTCCACATAATTCATCATGAGTTGATGA
65 TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGA
* *
1457128 ATAACCATACATGCACTAAGTGTGC-ATTCCACG
130 ATAACCATACATGCACTATGTGTGCAAATCCACG
* * * *
1457161 GAATTCATCATAAGTTGATGAATAATCGTACAGGCACTATGTGAGCAAATCCACGAAATTCATCA
1 GAATTCATCATGAGTTGATGAATAACCGTACA-GCACTATGTGTGCAAATCCACGGAATTCATCA
* * * * *
1457226 TAAGTTGATGAATAACCATGCAAGCACTAAGTGTGCATTCCACGGAATTCATTATGAGTTTG-TG
65 TGAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTCCACGGAATTCATCATGAG-TTGATG
* * *
1457290 AATAACCGTACATGCACTATATGTGCAAATTCACG
129 AATAACCATACATGCACTATGTGTGCAAATCCACG
*
1457325 GAATTCATTATGAGTTGATGAA
1 GAATTCATCATGAGTTGATGAA
1457347 CTACCATATA
Statistics
Matches: 311, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
162 46 0.15
163 196 0.63
164 69 0.22
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (163 bp):
GAATTCATCATGAGTTGATGAATAACCGTACAGCACTATGTGTGCAAATCCACGGAATTCATCAT
GAGTTGATGAATAACCGTACAGGCACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAA
TAACCATACATGCACTATGTGTGCAAATCCACG
Found at i:1457585 original size:81 final size:81
Alignment explanation
Indices: 1457487--1457986 Score: 680
Period size: 81 Copynumber: 6.2 Consensus size: 81
1457477 TAGTCAAAAA
* * * *
1457487 TAAAAGGATAATGGCCTATCTGTGCAATTAGTAGAAAGATGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
1457552 GTTAAATACCATTGAG
66 GTTAAATACCGTTGAG
* *
1457568 TAAAAGGATAAAT-GCCTAACTGTGAAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAAC
1 TAAAAGGAT-AATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAC
*
1457632 GGTTAAATACCGTTGTG
65 GGTTAAATACCGTTGAG
* * ** *
1457649 TAAAAGGATAATGGCCCAACTGTGCAATTGGCAGACATATGT-AATTTATGCTAGTTAGATGAAC
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAA-TTATGCCAGTTAGATGAAC
1457713 GGTTAAATACCGTTGAG
65 GGTTAAATACCGTTGAG
*
1457730 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACA
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* *
1457795 GTTAAGTACCGTTAAG
66 GTTAAATACCGTTGAG
* * * * * * *
1457811 TAAAAGGATAATGGCCTAACTGTGCAATTAGTAAAAAGGTGTTAATTATGCCAATTAGTTGAATG
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
1457876 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* * * * *
1457892 TAAAAGGATAATGACCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGTCGGTTAGCTGAATG
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
** *
1457957 GTTAAGCACTGTTGAG
66 GTTAAATACCGTTGAG
*
1457973 TAAAAGAATAATGG
1 TAAAAGGATAATGG
1457987 ACTAGCTATG
Statistics
Matches: 367, Mismatches: 48, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 5 0.01
81 357 0.97
82 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
GTTAAATACCGTTGAG
Found at i:1458017 original size:243 final size:243
Alignment explanation
Indices: 1457487--1458065 Score: 657
Period size: 243 Copynumber: 2.4 Consensus size: 243
1457477 TAGTCAAAAA
* * * * * *
1457487 TAAAAGGATAATGGCCTATCTGTGCAATTAGTAG-AAAGATGTCAATTATGCCAGTTAGATGAAC
1 TAAAAGAATAATGGACTAACTATGCAATTGGCAGAAAAG-TGTCAATTATGCCAGTTAGATGAAC
* * * *
1457551 GGTTAAATACCATTGAGTAAAAGGATAAATGCCTAACTGTGAAATTGGCATAAAGGTGTCAATTA
65 AGTTAAATACCATTAAGTAAAAGGATAAATGCCTAACTGTGAAATTAGCAAAAAGGTGTCAATTA
* * *
1457616 TGCCAGTTAGATGAACGGTTAAATACCGTTGTGTAAAAGGATAATGGCCCAACTGTGCAATTGGC
130 TGCCAATTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGACCCAACTGTGCAATTGGC
* * *
1457681 AGACATATGTAATTTATGCTAGTTAGATGAACGGTTAAATACCGTTGAG
195 AGAAAGATGTAATTTATGCTAGTTAGATGAACGGTTAAACACCGTTGAG
* * * *
1457730 TAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACA
1 TAAAAGAATAATGGACTAACTATGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACA
* * * * *
1457795 GTTAAGTACCGTTAAGTAAAAGGAT-AATGGCCTAACTGTGCAATTAGTAAAAAGGTGTTAATTA
66 GTTAAATACCATTAAGTAAAAGGATAAAT-GCCTAACTGTGAAATTAGCAAAAAGGTGTCAATTA
* * *
1457859 TGCCAATTAGTTGAATGGTTAAATACCGTTGAGTAAAAGGATAATGACCTAACTGTGCAATTGGC
130 TGCCAATTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGACCCAACTGTGCAATTGGC
* * * * * *
1457924 AGAAAGGTGTCAA-TTATG-TCGGTTAGCTGAATGGTTAAGCACTGTTGAG
195 AGAAAGATGT-AATTTATGCT-AGTTAGATGAACGGTTAAACACCGTTGAG
* * * * *
1457973 TAAAAGAATAATGGACTAGCTATGC-CTTGGATAGAAAAGTGTCAAATATGCAAGTTA-AGTGAA
1 TAAAAGAATAATGGACTAACTATGCAATTGG-CAGAAAAGTGTCAATTATGCCAGTTAGA-TGAA
* * * ** *
1458036 AAGCTAAATACCTTTGGGTAAAAGAATAAA
64 CAGTTAAATACCATTAAGTAAAAGGATAAA
1458066 AAAAAATTAT
Statistics
Matches: 285, Mismatches: 44, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
242 9 0.03
243 269 0.94
244 7 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (243 bp):
TAAAAGAATAATGGACTAACTATGCAATTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACA
GTTAAATACCATTAAGTAAAAGGATAAATGCCTAACTGTGAAATTAGCAAAAAGGTGTCAATTAT
GCCAATTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGACCCAACTGTGCAATTGGCA
GAAAGATGTAATTTATGCTAGTTAGATGAACGGTTAAACACCGTTGAG
Found at i:1458046 original size:162 final size:160
Alignment explanation
Indices: 1457487--1458064 Score: 673
Period size: 162 Copynumber: 3.6 Consensus size: 160
1457477 TAGTCAAAAA
* * * *
1457487 TAAAAGGATAATGGCCTATCTGTGCAATTAGTAG-AAAGATGTCAATTATGCCAGTTAGATGAAC
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGTAGAAAAG-TGT-AATTATGCAAGTTAGATGAAA
* * *
1457551 GGTTAAATACCATTGAGTAAAAGGATAAATGCCTAACTGTGAAATTGGCATAAAGGTGTCAATTA
64 GGTTAAATACCGTTGAGTAAAAGGAT-AATGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTA
* *
1457616 TGCCAGTTAGATGAACGGTTAAATACCGTTGTG
128 TGCCAGTTAGATGAACGGTTAAGTACCGTTGAG
* * * * *
1457649 TAAAAGGATAATGGCCCAACTGTGCAATTGGCAGACATA-TGTAATTTATGCTAGTTAGATGAAC
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGTAGA-AAAGTGTAA-TTATGCAAGTTAGATGAAA
1457713 GGTTAAATACCGTTGAGTAAAAGGATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTA
64 GGTTAAATACCGTTGAGTAAAAGGATAAT-GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTA
* *
1457778 TGCCAGTTAGATGAACAGTTAAGTACCGTTAAG
128 TGCCAGTTAGATGAACGGTTAAGTACCGTTGAG
* *
1457811 TAAAAGGATAATGGCCTAACTGTGCAATTAGTA-AAAAGGTGTTAATTATGCCAA-TTAGTTGAA
1 TAAAAGGATAATGGCCTAACTGTGCAATTGGTAGAAAA-GTG-TAATTATG-CAAGTTAGATGAA
*
1457874 TGGTTAAATACCGTTGAGTAAAAGGATAATGACCTAACTGTGCAATTGGCAGAAAGGTGTCAATT
63 AGGTTAAATACCGTTGAGTAAAAGGATAATG-CCTAACTGTGCAATTGGCAGAAAGGTGTCAATT
* * * * * *
1457939 ATGTCGGTTAGCTGAATGGTTAAGCACTGTTGAG
127 ATGCCAGTTAGATGAACGGTTAAGTACCGTTGAG
* * * * * *
1457973 TAAAAGAATAATGGACTAGCTATGC-CTTGGATAGAAAAGTGTCAAATATGCAAGTTA-AGTGAA
1 TAAAAGGATAATGGCCTAACTGTGCAATTGG-TAGAAAAGTGT-AATTATGCAAGTTAGA-TGAA
* * * * *
1458036 AAGCTAAATACCTTTGGGTAAAAGAATAA
63 AGGTTAAATACCGTTGAGTAAAAGGATAA
1458065 AAAAAAATTA
Statistics
Matches: 360, Mismatches: 42, Indels: 28
0.84 0.10 0.07
Matches are distributed among these distances:
160 2 0.01
161 14 0.04
162 333 0.93
163 9 0.03
164 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (160 bp):
TAAAAGGATAATGGCCTAACTGTGCAATTGGTAGAAAAGTGTAATTATGCAAGTTAGATGAAAGG
TTAAATACCGTTGAGTAAAAGGATAATGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGC
CAGTTAGATGAACGGTTAAGTACCGTTGAG
Found at i:1474932 original size:55 final size:55
Alignment explanation
Indices: 1474851--1475441 Score: 639
Period size: 55 Copynumber: 10.9 Consensus size: 55
1474841 ACCAAAAGGT
* * * *
1474851 ACTAAGTGTGC-ATTCCATGAAATTCATCATGAGTAGATGAATAACCGTACATGC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * *
1474905 GCTATGTGTGCAAATCTATGGAATTCATCATGAGTTGATGAATAACCGTACA-GAC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-C
* *
1474960 ACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * *
1475014 AGTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACTGTACA-GAC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATG-C
* * *
1475069 ACTAAGTGTGC-ATTCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* ** * *
1475123 ACTAAGTGTGC-ATTCCACATAATTCATCATGAGTTAATGAATAACCATACATGC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * * * ** * *
1475177 ACTAAGTGTG-TATTCCACGTAATTCATCATAAGTTGATGAATAACCATGTAGGA
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
** * * * *
1475231 ACTATTTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAATCATACAAGC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * *
1475286 ACTAAGTGTGCAAATCAACGAAATTCATCATGAGTTGATGAATAACCATACATGC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * **
1475341 AC---GTGTGC-ATTCCACGGAATTCATCAAGTCTTGATGAATAACCGTACATGC
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
* * * *
1475392 ACTATGTGTGCAAATTCACAGAATTCAACATGAGTTGATGAACT-ACCGTA
1 ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTA
1475442 TAGACACTAC
Statistics
Matches: 458, Mismatches: 66, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
51 38 0.08
52 6 0.01
54 205 0.45
55 208 0.45
56 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (55 bp):
ACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGC
Found at i:1475042 original size:109 final size:109
Alignment explanation
Indices: 1474851--1475450 Score: 666
Period size: 109 Copynumber: 5.5 Consensus size: 109
1474841 ACCAAAAGGT
* * * * *
1474851 ACTAAGTGTGCATTCCATGAAATTCATCATGAGTAGATGAATAACCGTACATGCGCTATGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGC
* * *
1474916 AAATCTATGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
66 AAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGAC
* *
1474960 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAAGCAGTATGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGC
*
1475025 AAATCCACGAAATTCATCATGAGTTGATGAATAACTGTACAGAC
66 AAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGAC
* *
1475069 ACTAAGTGTGCATTCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGC
* * *
1475134 -ATTCCAC-ATAATTCATCATGAGTTAATGAATAACCATACATG-C
66 AAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACA-GAC
* * * * ** * *
1475177 ACTAAGTGTGTATTCCACGTAATTCATCATAAGTTGATGAATAACCATGTAGGAACTATTTGTGC
1 ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGC
* *
1475242 AAATCCAC-AGAATTCATCATGAGTTGATGAATAATCATACA-AGC
66 AAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAGA-C
* * * * *
1475286 ACTAAGTGTGCAAATCAACGAAATTCATCATGAGTTGATGAATAACCATACATGCAC---GTGTG
1 ACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTG
* * * **
1475348 C-ATTCCACGGAATTCATCAAGTCTTGATGAATAACCGTACATG-C
65 CAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACA-GAC
* * * * *
1475392 ACTATGTGTGCAAATT-CACAGAATTCAACATGAGTTGATGAACT-ACCGTATAGACACTA
1 ACTAAGTGTGC--ATTCCACGGAATTCATCATGAGTTGATGAA-TAACCGTACAGGCACTA
1475451 CATGTGCATC
Statistics
Matches: 419, Mismatches: 59, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
106 74 0.18
107 10 0.02
108 90 0.21
109 208 0.50
110 37 0.09
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (109 bp):
ACTAAGTGTGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTGTGC
AAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGAC
Found at i:1475450 original size:55 final size:54
Alignment explanation
Indices: 1474851--1475458 Score: 542
Period size: 54 Copynumber: 11.2 Consensus size: 54
1474841 ACCAAAAGGT
*
1474851 ACTAAGTGTGC-ATTC-CATGAAATTCATCATGAGTAGATGAATAACCGTACATG-C
1 ACTAAGTGTGCAATTCACA-G-AATTCATCATGAGTTGATGAATAACCGTACA-GAC
* * * **
1474905 GCTATGTGTGCAAATCTATGGAATTCATCATGAGTTGATGAATAACCGTACAGAC
1 ACTAAGTGTGCAATTC-ACAGAATTCATCATGAGTTGATGAATAACCGTACAGAC
*
1474960 ACTAAGTGTGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACA-AGC
1 ACTAAGTGTGCAATT-CACAGAATTCATCATGAGTTGATGAATAACCGTACAGA-C
* * * *
1475014 AGTATGTGTGCAAATC-CACGAAATTCATCATGAGTTGATGAATAACTGTACAGAC
1 ACTAAGTGTGCAATTCACA-G-AATTCATCATGAGTTGATGAATAACCGTACAGAC
*
1475069 ACTAAGTGTGC-ATTCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGC
1 ACTAAGTGTGCAATT-CACAGAATTCATCATGAGTTGATGAATAACCGTACAGAC
* * *
1475123 ACTAAGTGTGC-ATTCCACATAATTCATCATGAGTTAATGAATAACCATACATG-C
1 ACTAAGTGTGCAATT-CACAGAATTCATCATGAGTTGATGAATAACCGTACA-GAC
* * *
1475177 ACTAAGTGTG-TATTC-CACGTAATTCATCATAAGTTGATGAATAACCATGTA-GGA-
1 ACTAAGTGTGCAATTCACA-G-AATTCATCATGAGTTGATGAATAACC--GTACAGAC
** * * *
1475231 ACTATTTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAATCATACA-AGC
1 ACTAAGTGTGC-AATTCACAGAATTCATCATGAGTTGATGAATAACCGTACAGA-C
* *
1475286 ACTAAGTGTGCAAATCA-ACGAAATTCATCATGAGTTGATGAATAACCATACATG-C
1 ACTAAGTGTGCAATTCACA-G-AATTCATCATGAGTTGATGAATAACCGTACA-GAC
* * **
1475341 AC---GTGTGC-ATTCCACGGAATTCATCAAGTCTTGATGAATAACCGTACATG-C
1 ACTAAGTGTGCAATT-CACAGAATTCATCATGAGTTGATGAATAACCGTACA-GAC
* * *
1475392 ACTATGTGTGCAAATTCACAGAATTCAACATGAGTTGATGAACT-ACCGTATAGAC
1 ACTAAGTGTGC-AATTCACAGAATTCATCATGAGTTGATGAA-TAACCGTACAGAC
1475447 ACTACA-TGTGCA
1 ACTA-AGTGTGCA
1475459 TCTTAATAAA
Statistics
Matches: 461, Mismatches: 54, Indels: 78
0.78 0.09 0.13
Matches are distributed among these distances:
51 34 0.07
52 11 0.02
53 7 0.02
54 200 0.43
55 193 0.42
56 14 0.03
57 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (54 bp):
ACTAAGTGTGCAATTCACAGAATTCATCATGAGTTGATGAATAACCGTACAGAC
Found at i:1475757 original size:81 final size:81
Alignment explanation
Indices: 1475622--1475893 Score: 429
Period size: 81 Copynumber: 3.4 Consensus size: 81
1475612 TTAATGACAT
* * *
1475622 AAAGGTGTTAATTATGCCAGTTAGATGAATGATTAAATACCGTTGAGTAAAAGGATAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGGCCTA
1475687 ACTGTGTAATTGGCAG
66 ACTGTGTAATTGGCAG
* *
1475703 AAAGGTGTCAATTAAGCCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGGATAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGGCCTA
* * *
1475768 GCTGTGCAATTGACAG
66 ACTGTGTAATTGGCAG
*
1475784 AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGGCCTA
*
1475849 ATTGTGCT-ATTGGCAG
66 ACTGTG-TAATTGGCAG
*
1475865 AAAGGTGTCAATTATGCCGGTTAGATGAA
1 AAAGGTGTCAATTATGCCAGTTAGATGAA
1475894 TGATTAAGCA
Statistics
Matches: 173, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
81 173 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (81 bp):
AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGGCCTA
ACTGTGTAATTGGCAG
Found at i:1475863 original size:162 final size:161
Alignment explanation
Indices: 1475616--1476003 Score: 467
Period size: 162 Copynumber: 2.4 Consensus size: 161
1475606 AATGGCTTAA
* * * * *
1475616 TGACATAAAGGTGTTAATTATGCCAGTTAGATGAATGATTAAATACCGTTGAGTAAAAGGATAAT
1 TGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGGATAAT
* *
1475681 GGCCTAACTGTGTAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAACGGTTAAATA-TCG
66 GGCCTAACTGTGTAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAACGATTAAACACT-G
* * * * *
1475745 TTGAGTAAAAGGATAATGGCCTAGCTGTGCAAT
130 TTAAATAAAAGAATAATGGACTAGCTATGC-AT
* *
1475778 TGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAAT
1 TGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGGATAAT
* * * * *
1475843 GGCCTAATTGTGCT-ATTGGCAGAAAGGTGTCAATTATGCCGGTTAGATGAATGATTAAGCACTG
66 GGCCTAACTGTG-TAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAACGATTAAACACTG
*
1475907 TTAAATAAAAGAATAATGGACTAGCTATGCCT
130 TTAAATAAAAGAATAATGGACTAGCTATGCAT
* * * * * * *
1475939 TGGACAGAAAAGTGTCAAATATGCAAGTTA-AGTGAAAAGCTAAATACCTTTGGGTAAAAGAATA
1 T-GACAGAAAAGTGTCAATTATGCCAGTTAGA-TGAAAGGTTAAATACCGTTGAGTAAAAGGATA
1476003 A
64 A
1476004 AATAATTATA
Statistics
Matches: 195, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
161 3 0.02
162 190 0.97
163 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (161 bp):
TGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGGATAAT
GGCCTAACTGTGTAATTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAACGATTAAACACTGT
TAAATAAAAGAATAATGGACTAGCTATGCAT
Found at i:1475916 original size:81 final size:81
Alignment explanation
Indices: 1475622--1475968 Score: 428
Period size: 81 Copynumber: 4.3 Consensus size: 81
1475612 TTAATGACAT
* *
1475622 AAAGGTGTTAATTATGCCAGTTAGATGAATGATTAAATACCGTTGAGTAAAAGGATAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGGATAATGGCCTA
1475687 ACTGTG-TAATTGGCAG
66 ACTGTGCT-ATTGGCAG
* * *
1475703 AAAGGTGTCAATTAAGCCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGGATAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGGATAATGGCCTA
* * *
1475768 GCTGTGCAATTGACAG
66 ACTGTGCTATTGGCAG
* *
1475784 AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGGATAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGGATAATGGCCTA
*
1475849 ATTGTGCTATTGGCAG
66 ACTGTGCTATTGGCAG
* * ** * * * * *
1475865 AAAGGTGTCAATTATGCCGGTTAGATGAATGATTAAGCACTGTTAAATAAAAGAATAATGGACTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGGATAATGGCCTA
* * *
1475930 GCTATGC-CTTGGACAG
66 ACTGTGCTATTGG-CAG
* * *
1475946 AAAAGTGTCAAATATGCAAGTTA
1 AAAGGTGTCAATTATGCCAGTTA
1475969 AGTGAAAAGC
Statistics
Matches: 230, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
80 4 0.02
81 226 0.98
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
AAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGGATAATGGCCTA
ACTGTGCTATTGGCAG
Found at i:1479530 original size:51 final size:51
Alignment explanation
Indices: 1479470--1479641 Score: 195
Period size: 51 Copynumber: 3.4 Consensus size: 51
1479460 AGATCACTAC
* * *
1479470 AAAGTTAAATAATAGAACATGTGGAGGTCGCAAGCATCGAATACATAAAAT
1 AAAGTTAAATAACAGAACATGTGGAGGCCGCAAGCATCGAATATATAAAAT
* * * * * * *
1479521 AAAGTTAAATAACAAAATATGT-GAGGCCACAAACATTGAGTATACAAAAT
1 AAAGTTAAATAACAGAACATGTGGAGGCCGCAAGCATCGAATATATAAAAT
* * * *
1479571 AAAATCAAATAACAGAACATGTGGAAGCCGCAAGCA-CTGATTATATAAAAT
1 AAAGTTAAATAACAGAACATGTGGAGGCCGCAAGCATC-GAATATATAAAAT
1479622 AAAGTTAAATAACAGAACAT
1 AAAGTTAAATAACAGAACAT
1479642 CCGGACGCCA
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
50 39 0.40
51 58 0.60
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (51 bp):
AAAGTTAAATAACAGAACATGTGGAGGCCGCAAGCATCGAATATATAAAAT
Found at i:1480238 original size:21 final size:19
Alignment explanation
Indices: 1480207--1480255 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 19
1480197 AAGATTTATG
1480207 TTCACTTTTTAAATTTTGTA
1 TTCACTTTTTAAATTTT-TA
1480227 TTCACATTTTTAAATTTTTA
1 TTCAC-TTTTTAAATTTTTA
1480247 TTCA-TTTTT
1 TTCACTTTTT
1480256 CCAAACCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.18
20 11 0.39
21 12 0.43
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (19 bp):
TTCACTTTTTAAATTTTTA
Found at i:1481496 original size:23 final size:23
Alignment explanation
Indices: 1481415--1481509 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 23
1481405 TGAGTGACAT
*
1481415 ATAAAATTGTCCCGAAGGACCTC
1 ATAAAATTGTCCCGAAGGACCAC
* *
1481438 GTAGAATTGTCCCGAAGGACCAC
1 ATAAAATTGTCCCGAAGGACCAC
*** * *
1481461 GCGGAAA-TATCCCGAATGACCAC
1 -ATAAAATTGTCCCGAAGGACCAC
* *
1481484 ATAAAATTGTCCCTAAAGACCAC
1 ATAAAATTGTCCCGAAGGACCAC
1481507 ATA
1 ATA
1481510 TATGTTCCAA
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
22 3 0.05
23 50 0.91
24 2 0.04
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (23 bp):
ATAAAATTGTCCCGAAGGACCAC
Found at i:1481565 original size:21 final size:21
Alignment explanation
Indices: 1481501--1481575 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
1481491 TGTCCCTAAA
1481501 GACCACATATATGTTCCAAAG
1 GACCACATATATGTTCCAAAG
* * **
1481522 AACCAAATATATG-TCTCGGAG
1 GACCACATATATGTTC-CAAAG
*
1481543 GACCGCATATATGTTCCAAAG
1 GACCACATATATGTTCCAAAG
* *
1481564 GATCATATATAT
1 GACCACATATAT
1481576 ATGTCCCGAA
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (21 bp):
GACCACATATATGTTCCAAAG
Found at i:1481591 original size:44 final size:42
Alignment explanation
Indices: 1481491--1481591 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
1481481 CACATAAAAT
* * *
1481491 TGTCCCTAAAGACCACATATATGTTCCAAAGAACCAAATATA
1 TGTCCCGAAGGACCGCATATATGTTCCAAAGAACCAAATATA
* * * *
1481533 TGTCTCGGAGGACCGCATATATGTTCCAAAGGATCATATATATA
1 TGTCCCGAAGGACCGCATATATGTTCCAAAGAACCA-A-ATATA
1481577 TGTCCCGAAGGACCG
1 TGTCCCGAAGGACCG
1481592 TGTAGAACCC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 29 0.60
43 1 0.02
44 18 0.38
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTCCCGAAGGACCGCATATATGTTCCAAAGAACCAAATATA
Found at i:1486585 original size:6 final size:6
Alignment explanation
Indices: 1486574--1486613 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
1486564 TTTATTTATT
* *
1486574 TTAATA TTAATA TTAATA TTAATA TTTTATT TTAATA TTA
1 TTAATA TTAATA TTAATA TTAATA -TTAATA TTAATA TTA
1486614 TAATTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TTAATA
Found at i:1486692 original size:30 final size:30
Alignment explanation
Indices: 1486658--1486716 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1486648 TAATAATTAG
** *
1486658 TTATTATTTTTTTAATAATATAATATAATA
1 TTATTATTTTAATAATAAAATAATATAATA
*
1486688 TTATTATTTTAATAATAAAATGATATAAT
1 TTATTATTTTAATAATAAAATAATATAAT
1486717 TAATAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
TTATTATTTTAATAATAAAATAATATAATA
Found at i:1486865 original size:19 final size:19
Alignment explanation
Indices: 1486841--1486880 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
1486831 TAATATTCTA
*
1486841 ATAATAAATAATATTTTTT
1 ATAATAAATAATATTATTT
1486860 ATAATAAATAATATTATTT
1 ATAATAAATAATATTATTT
1486879 AT
1 AT
1486881 TCTATTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATAAATAATATTATTT
Found at i:1487552 original size:12 final size:12
Alignment explanation
Indices: 1487535--1487568 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1487525 TGTTGAACTC
1487535 AAATTTTAAATT
1 AAATTTTAAATT
1487547 AAATTTTAAATT
1 AAATTTTAAATT
*
1487559 AAATTATAAA
1 AAATTTTAAA
1487569 ATCTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATTTTAAATT
Found at i:1489916 original size:24 final size:24
Alignment explanation
Indices: 1489889--1489935 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1489879 TTCATGAACA
1489889 TTCGGTTATGTTCGTTTATGTTCG
1 TTCGGTTATGTTCGTTTATGTTCG
*
1489913 TTCGGTTATTTTCGTTTATGTTC
1 TTCGGTTATGTTCGTTTATGTTC
1489936 ATTCATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.21, T:0.57
Consensus pattern (24 bp):
TTCGGTTATGTTCGTTTATGTTCG
Found at i:1489945 original size:24 final size:24
Alignment explanation
Indices: 1489887--1489948 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
1489877 CGTTCATGAA
*
1489887 CATTCGGTTATGTTCGTTTATGTT
1 CATTCAGTTATGTTCGTTTATGTT
* * *
1489911 CGTTCGGTTATTTTCGTTTATGTT
1 CATTCAGTTATGTTCGTTTATGTT
*
1489935 CATTCATTTATGTT
1 CATTCAGTTATGTT
1489949 TAACCCAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (24 bp):
CATTCAGTTATGTTCGTTTATGTT
Found at i:1491093 original size:27 final size:27
Alignment explanation
Indices: 1491053--1491104 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1491043 ATTTACAGGC
*
1491053 CTATATATATTATATGTGTGCGTGTAT
1 CTATATATATTATATATGTGCGTGTAT
*
1491080 CTATA-ATATATATATATGTGTGTGT
1 CTATATATAT-TATATATGTGCGTGT
1491105 GTGTGTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (27 bp):
CTATATATATTATATATGTGCGTGTAT
Found at i:1491115 original size:27 final size:28
Alignment explanation
Indices: 1491053--1491123 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 28
1491043 ATTTACAGGC
1491053 CTATATATAT-TATATGTGTGCGTGTAT
1 CTATATATATATATATGTGTGCGTGTAT
* *
1491080 CTATAATATATATATATGTGTGTGTGTGT
1 CTAT-ATATATATATATGTGTGCGTGTAT
* *
1491109 GT-TATATGTATATAT
1 CTATATATATATATAT
1491124 TATGTAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 15 0.39
28 7 0.18
29 16 0.42
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.49
Consensus pattern (28 bp):
CTATATATATATATATGTGTGCGTGTAT
Found at i:1503383 original size:65 final size:64
Alignment explanation
Indices: 1503307--1503462 Score: 172
Period size: 64 Copynumber: 2.4 Consensus size: 64
1503297 TACACTAGGG
* *
1503307 GTGCATCGGTACACT-AATTACATTCGATGTTTCAAAAGAGCCAGGAATGCATCGATGCATGGTC
1 GTGCATCGGTACA-TAAAATACATTCGATG-TTCAAAAGAGCCAGGAATGCATCGATGCAT-GCC
1503371 TT
63 TT
* * * ** * *
1503373 -TGCATCGGTACATAAAATGCATTCGGTGTTCAAAATATTCATGAGTGCATCGATGCATGCCTT
1 GTGCATCGGTACATAAAATACATTCGATGTTCAAAAGAGCCAGGAATGCATCGATGCATGCCTT
* *
1503436 GTGCATCGGTACAAAAAATGCATTCGA
1 GTGCATCGGTACATAAAATACATTCGA
1503463 AATTCAATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 4 0.05
64 50 0.65
65 23 0.30
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATACATTCGATGTTCAAAAGAGCCAGGAATGCATCGATGCATGCCTT
Found at i:1503469 original size:64 final size:63
Alignment explanation
Indices: 1503348--1503513 Score: 174
Period size: 64 Copynumber: 2.6 Consensus size: 63
1503338 TCAAAAGAGC
* * ***
1503348 CAGGAATGCATCGATGCATGGTCTT-TGCATCGGTACATAAAATGCATTCGGTGTTCAAA-ATAT
1 CAGGAGTGCATCGATGCAT-G-CTTGTGCATCGGTACAAAAAATGCATTCGAAATTCAAATA-AT
1503411 T
63 T
* *
1503412 CATGAGTGCATCGATGCATGCCTTGTGCATCGGTACAAAAAATGCATTCGAAATTCAATTAATT
1 CAGGAGTGCATCGATGCATG-CTTGTGCATCGGTACAAAAAATGCATTCGAAATTCAAATAATT
* * *
1503476 CAGGGGTGCATTGATGCATTGATTGGTGCATCGGTACA
1 CAGGAGTGCATCGATGCA-TGCTT-GTGCATCGGTACA
1503514 CTACTTTGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 4 0.05
64 66 0.77
65 16 0.19
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (63 bp):
CAGGAGTGCATCGATGCATGCTTGTGCATCGGTACAAAAAATGCATTCGAAATTCAAATAATT
Found at i:1510678 original size:65 final size:64
Alignment explanation
Indices: 1510605--1510758 Score: 168
Period size: 64 Copynumber: 2.4 Consensus size: 64
1510595 TACATTAGAG
* **
1510605 GTGCATCGGTACACT-AATTACATTCGATGT-TTCAAAAGAGTCAGGAATGCATCGATGCATAGT
1 GTGCATCGGTACA-TAAAATACATTCG--GTCTTCAAAAGAGTCAGGAATGCATCGATGCATACC
1510668 TT
63 TT
* * * * * *
1510670 GTGCATCGGTACATAAAATGCATTCGGTCTTCAAAATATTCATGAGTGCATCGATGCATTCCTT
1 GTGCATCGGTACATAAAATACATTCGGTCTTCAAAAGAGTCAGGAATGCATCGATGCATACCTT
* *
1510734 GTGCATCGGTACAAAAAATGCATTC
1 GTGCATCGGTACATAAAATACATTC
1510759 AAAATTCAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
63 2 0.03
64 53 0.69
65 22 0.29
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATACATTCGGTCTTCAAAAGAGTCAGGAATGCATCGATGCATACCTT
Found at i:1510767 original size:64 final size:64
Alignment explanation
Indices: 1510645--1510810 Score: 174
Period size: 64 Copynumber: 2.6 Consensus size: 64
1510635 TTCAAAAGAG
* * * * ****
1510645 TCAGGAATGCATCGATGCATAGTTTGTGCATCGGTACATAAAATGCATTCGGTCTTCAAA-ATAT
1 TCAGGAGTGCATCGATGCATTGATTGTGCATCGGTACAAAAAATGCATTCAAAATTCAAATA-AT
* ** *
1510709 TCATGAGTGCATCGATGCATTCCTTGTGCATCGGTACAAAAAATGCATTCAAAATTCAATTAAT
1 TCAGGAGTGCATCGATGCATTGATTGTGCATCGGTACAAAAAATGCATTCAAAATTCAAATAAT
* *
1510773 TCAGGGGTGCAT-GATGCATTGATTGGTGCATCAGTACA
1 TCAGGAGTGCATCGATGCATTGATT-GTGCATCGGTACA
1510811 CTACTTTGAA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
63 10 0.12
64 73 0.87
65 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (64 bp):
TCAGGAGTGCATCGATGCATTGATTGTGCATCGGTACAAAAAATGCATTCAAAATTCAAATAAT
Found at i:1516819 original size:17 final size:17
Alignment explanation
Indices: 1516779--1516820 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1516769 ATAATAAACT
*
1516779 TATGATAATTAAATTAA
1 TATGATTATTAAATTAA
1516796 TATGATTATTAAATTAA
1 TATGATTATTAAATTAA
1516813 TATGATTA
1 TATGATTA
1516821 CTTTTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (17 bp):
TATGATTATTAAATTAA
Found at i:1517028 original size:15 final size:15
Alignment explanation
Indices: 1517010--1517043 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1517000 AATTTAAGTA
*
1517010 TTATCTTATTAAATT
1 TTATCTTAATAAATT
*
1517025 TTATTTTAATAAATT
1 TTATCTTAATAAATT
1517040 TTAT
1 TTAT
1517044 TAATTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATCTTAATAAATT
Found at i:1518691 original size:25 final size:24
Alignment explanation
Indices: 1518657--1518704 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
1518647 TACAAAATAT
*
1518657 TAATAATTATTATTATTATTATTTA
1 TAATAATTATTA-TAATATTATTTA
1518682 TAATAATTATTATAATATTATTT
1 TAATAATTATTATAATATTATTT
1518705 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TAATAATTATTATAATATTATTTA
Found at i:1518759 original size:18 final size:18
Alignment explanation
Indices: 1518736--1518770 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1518726 AGGTGTCTAC
1518736 ATATAGTATATATATAAA
1 ATATAGTATATATATAAA
1518754 ATATAGTATATATATAA
1 ATATAGTATATATATAA
1518771 GTCATATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
ATATAGTATATATATAAA
Found at i:1518787 original size:18 final size:18
Alignment explanation
Indices: 1518772--1518915 Score: 69
Period size: 18 Copynumber: 8.4 Consensus size: 18
1518762 TATATATAAG
*
1518772 TCATATGTAAACTATAGT
1 TCATATATAAACTATAGT
*
1518790 TCATATATAAA-TATCAACT
1 TCATATATAAACTAT--AGT
*
1518809 T--TAGTATATA-TATAGT
1 TCATA-TATAAACTATAGT
* *
1518825 TCGTATGTAAACTATATAGT
1 TCATATATAAAC--TATAGT
1518845 T--TATAT--A-TATAGT
1 TCATATATAAACTATAGT
*
1518858 TCATATGTAAACTATAGT
1 TCATATATAAACTATAGT
* *
1518876 TCATATATATAGTATA--
1 TCATATATAAACTATAGT
*
1518892 T-AAATATAAACTATAGT
1 TCATATATAAACTATAGT
*
1518909 TTATATA
1 TCATATA
1518916 AATAGTATAA
Statistics
Matches: 95, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
13 7 0.07
15 15 0.16
16 5 0.05
17 11 0.12
18 47 0.49
19 3 0.03
20 7 0.07
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (18 bp):
TCATATATAAACTATAGT
Found at i:1518855 original size:13 final size:13
Alignment explanation
Indices: 1518837--1518888 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 13
1518827 GTATGTAAAC
*
1518837 TATATAGTTTATA
1 TATATAGTTCATA
1518850 TATATAGTTCATA
1 TATATAGTTCATA
1518863 TGTAAACTATAGTTCATA
1 --T--A-TATAGTTCATA
1518881 TATATAGT
1 TATATAGT
1518889 ATATAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
13 18 0.55
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 11 0.33
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (13 bp):
TATATAGTTCATA
Found at i:1518874 original size:31 final size:31
Alignment explanation
Indices: 1518813--1518921 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 31
1518803 TCAACTTTAG
*
1518813 TATATATATAGTTCGTATGTAAACTATATAGTT
1 TATATATATAGTTCATATGTAAAC--TATAGTT
1518846 TATATATATAGTTCATATGTAAACTATAGTT
1 TATATATATAGTTCATATGTAAACTATAGTT
* *
1518877 CATATATATAGTAT-ATAAATATAAACTATAGTT
1 TATATATATAGT-TCAT--ATGTAAACTATAGTT
*
1518910 TATATAAATAGT
1 TATATATATAGT
1518922 ATAAAATATA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
31 20 0.29
32 1 0.01
33 47 0.69
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (31 bp):
TATATATATAGTTCATATGTAAACTATAGTT
Found at i:1518906 original size:20 final size:20
Alignment explanation
Indices: 1518882--1519000 Score: 121
Period size: 20 Copynumber: 5.5 Consensus size: 20
1518872 TAGTTCATAT
1518882 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
1518902 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
1518927 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
1518947 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
1518972 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
1518992 TTATAGTAT
1 ATATAGTAT
1519001 GTAGTTTATA
Statistics
Matches: 84, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
20 30 0.36
21 2 0.02
22 14 0.17
23 14 0.17
24 2 0.02
25 22 0.26
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:1518925 original size:31 final size:32
Alignment explanation
Indices: 1518839--1518931 Score: 125
Period size: 33 Copynumber: 2.9 Consensus size: 32
1518829 ATGTAAACTA
* * *
1518839 TATAGTTTATATATATAGT-TCATATGTAAAC
1 TATAGTTTATATATATAGTATAAAATATAAAC
*
1518870 TATAGTTCATATATATAGTATATAAATATAAAC
1 TATAGTTTATATATATAGTATA-AAATATAAAC
*
1518903 TATAGTTTATATAAATAGTATAAAATATA
1 TATAGTTTATATATATAGTATAAAATATA
1518932 GTATATAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
31 18 0.33
32 8 0.15
33 28 0.52
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (32 bp):
TATAGTTTATATATATAGTATAAAATATAAAC
Found at i:1518931 original size:25 final size:23
Alignment explanation
Indices: 1518882--1518987 Score: 116
Period size: 25 Copynumber: 4.7 Consensus size: 23
1518872 TAGTTCATAT
1518882 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
1518902 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
1518927 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
1518947 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
1518972 ATATAGTATATAAATA
1 ATATAGTATATAAATA
1518988 TAAATTATAG
Statistics
Matches: 72, Mismatches: 4, Indels: 17
0.77 0.04 0.18
Matches are distributed among these distances:
20 16 0.22
21 1 0.01
22 12 0.17
23 19 0.26
24 2 0.03
25 22 0.31
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:1518936 original size:45 final size:45
Alignment explanation
Indices: 1518882--1518998 Score: 225
Period size: 45 Copynumber: 2.6 Consensus size: 45
1518872 TAGTTCATAT
1518882 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
1 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
1518927 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
1 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
*
1518972 ATATAGTATATAAATATAAATTATAGT
1 ATATAGTATATAAATATAAACTATAGT
1518999 ATGTAGTTTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (45 bp):
ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
Found at i:1519084 original size:2 final size:2
Alignment explanation
Indices: 1519071--1519214 Score: 51
Period size: 2 Copynumber: 75.5 Consensus size: 2
1519061 TCCCTAAACC
* *
1519071 AT AT AT ACT AT AT AT AT AT AT AT AT AC ACT AT AT AGT TT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
* * * *
1519114 -T A- AT AA ACT AT AT A- AT TT AT AC A- AT AT AT AT -T AT TT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1519152 A- AT -T AT AC AT -T AT AC AT A- AT AT AT A- AT AT AT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1519188 GT AT AGT TT AT AT AT A- AT TT AT AT AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT A
1519215 AACTATGTAG
Statistics
Matches: 103, Mismatches: 22, Indels: 34
0.65 0.14 0.21
Matches are distributed among these distances:
1 12 0.12
2 85 0.83
3 6 0.06
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1519123 original size:22 final size:21
Alignment explanation
Indices: 1519071--1519134 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
1519061 TCCCTAAACC
* *
1519071 ATATATACTATATATATATAT
1 ATATAAACTATATATTTATAT
*
1519092 ATATACACTATATAGTTTATAT
1 ATATAAACTATATA-TTTATAT
1519114 -TAATAAACTATATAATTTATA
1 AT-ATAAACTATAT-ATTTATA
1519135 CAATATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.38
22 22 0.59
23 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATAAACTATATATTTATAT
Found at i:1519290 original size:2 final size:2
Alignment explanation
Indices: 1519283--1519463 Score: 59
Period size: 2 Copynumber: 86.0 Consensus size: 2
1519273 TTATACATGG
* * *
1519283 TA TA TA TA GTT TA TA TA TA -A TA TA GA TA TA TA AA CTA TA TA GT-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
1519326 TCA TA TG TA AA T- TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA
1 T-A TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA
* *
1519369 TA -A TA TA TA GTA TA TGA -A TA TA AA CTA TA GCA TA TA TA TA TA
1 TA TA TA TA TA -TA TA T-A TA TA TA TA -TA TA -TA TA TA TA TA TA
* * * * * *
1519411 TG TCA TA TG TA AA T- TA TA TA GTA TA TA AA TA TC GA CTA TA GTA
1 TA T-A TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA -TA
1519454 TA TA TA TA TA
1 TA TA TA TA TA
1519464 GTTCATATGT
Statistics
Matches: 130, Mismatches: 28, Indels: 42
0.65 0.14 0.21
Matches are distributed among these distances:
1 6 0.05
2 104 0.80
3 20 0.15
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1519297 original size:9 final size:9
Alignment explanation
Indices: 1519257--1519383 Score: 67
Period size: 9 Copynumber: 14.3 Consensus size: 9
1519247 ATATATAAAC
1519257 TATATAGTA
1 TATATAGTA
1519266 T-TATAGTTTA
1 TATATAG--TA
* *
1519276 TACATGGTA
1 TATATAGTA
*
1519285 TATATAGTT
1 TATATAGTA
1519294 TATATA-TA
1 TATATAGTA
1519302 -ATATAG-A
1 TATATAGTA
*
1519309 TATATA-AA
1 TATATAGTA
1519317 CTATATAGT-
1 -TATATAGTA
1519326 TCATAT-GTA
1 T-ATATAGTA
*
1519335 AAT-TA-TA
1 TATATAGTA
1519342 CTATATAGTA
1 -TATATAGTA
1519352 TATATAGTTTA
1 TATATAG--TA
1519363 TATATA-TAA
1 TATATAGT-A
1519372 TATATAGTA
1 TATATAGTA
1519381 TAT
1 TAT
1519384 GAATATAAAC
Statistics
Matches: 91, Mismatches: 9, Indels: 36
0.67 0.07 0.26
Matches are distributed among these distances:
7 9 0.10
8 20 0.22
9 45 0.49
10 6 0.07
11 11 0.12
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (9 bp):
TATATAGTA
Found at i:1519306 original size:20 final size:20
Alignment explanation
Indices: 1519257--1519379 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
1519247 ATATATAAAC
1519257 TATATAGTAT-TATAGTTTA
1 TATATAGTATATATAGTTTA
* *
1519276 TACATGGTATATATAGTTTA
1 TATATAGTATATATAGTTTA
* **
1519296 TATATAATATAGATATA-TAAA
1 TATATAGTAT--ATATAGTTTA
* *
1519317 CTATATAGTTCATATGTAAATTATA
1 -TATATAG-T-ATATAT-AGTT-TA
1519342 CTATATAGTATATATAGTTTA
1 -TATATAGTATATATAGTTTA
1519363 TATATA-TAATATATAGT
1 TATATAGT-ATATATAGT
1519380 ATATGAATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
19 9 0.11
20 31 0.38
21 4 0.05
22 17 0.21
23 7 0.09
24 4 0.05
25 9 0.11
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (20 bp):
TATATAGTATATATAGTTTA
Found at i:1519358 original size:87 final size:85
Alignment explanation
Indices: 1519255--1519428 Score: 214
Period size: 87 Copynumber: 2.0 Consensus size: 85
1519245 TCATATATAA
* *
1519255 ACTATATAGTATTATAGTTTATACATGGT-ATATATAGTTTAT-ATAT-AA-TATAG-ATATATA
1 ACTATATAGTATTATAGTTTATACAT-ATAATATATAGTATATAATATAAACTATAGCATATAT-
1519315 AACTATATAGTTCATATGTAAATTAT
64 -A-TATAT-G-TCATATGTAAATTAT
*
1519341 ACTATATAGTATATATAGTTTATATATATAATATATAGTATATGAATATAAACTATAGCATATAT
1 ACTATATAGTAT-TATAGTTTATACATATAATATATAGTATAT-AATATAAACTATAGCATATAT
1519406 ATATATGTCATATGTAAATTAT
64 ATATATGTCATATGTAAATTAT
1519428 A
1 A
1519429 TAGTATATAA
Statistics
Matches: 78, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
86 13 0.17
87 41 0.53
88 1 0.01
89 9 0.12
90 3 0.04
91 5 0.06
92 6 0.08
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (85 bp):
ACTATATAGTATTATAGTTTATACATATAATATATAGTATATAATATAAACTATAGCATATATAT
ATATGTCATATGTAAATTAT
Found at i:1519411 original size:22 final size:20
Alignment explanation
Indices: 1519338--1519410 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
1519328 ATATGTAAAT
1519338 TATACTATATAGT-ATATATAG
1 TATA-TATATA-TAATATATAG
*
1519359 TTTATATATATAATATATAG
1 TATATATATATAATATATAG
1519379 TATATGA-ATATAA-ACTATAG
1 TATAT-ATATATAATA-TATAG
*
1519399 CATATATATATA
1 TATATATATATA
1519411 TGTCATATGT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 3 0.07
20 38 0.84
21 4 0.09
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (20 bp):
TATATATATATAATATATAG
Found at i:1519430 original size:53 final size:53
Alignment explanation
Indices: 1519350--1519496 Score: 181
Period size: 53 Copynumber: 2.8 Consensus size: 53
1519340 TACTATATAG
* * *
1519350 TATATATAGTTTATATATATAA-TATATAGTATATGAATATAAACTATAGCATA
1 TATATATAGTTCATATGTA-AACTATATAGTATATAAATATAAACTATAGCATA
* ** *
1519403 TATATATA-TGTCATATGTAAATTATATAGTATATAAATATCGACTATAGTATA
1 TATATATAGT-TCATATGTAAACTATATAGTATATAAATATAAACTATAGCATA
* *
1519456 TATATATAGTTCATATGTAAACTATATAGTTTATATATATA
1 TATATATAGTTCATATGTAAACTATATAGTATATAAATATA
1519497 TAGTTCATAT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
52 3 0.04
53 77 0.95
54 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (53 bp):
TATATATAGTTCATATGTAAACTATATAGTATATAAATATAAACTATAGCATA
Found at i:1519481 original size:20 final size:20
Alignment explanation
Indices: 1519458--1519650 Score: 112
Period size: 18 Copynumber: 10.7 Consensus size: 20
1519448 ATAGTATATA
1519458 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATGTAAAC
*
1519478 TATATAGTT--TA--TATA-
1 TATATAGTTCATATGTAAAC
1519493 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATGTAAAC
*
1519513 --TATAGTT-AGTATATAAAC
1 TATATAGTTCA-TATGTAAAC
*
1519531 TATATAGTTTATATGTAAAC
1 TATATAGTTCATATGTAAAC
*
1519551 --TATAGTTCATATATAAA-
1 TATATAGTTCATATGTAAAC
*
1519568 TATCA-ACTT--TA-GTATATA-
1 TAT-ATAGTTCATATGTA-A-AC
* *
1519586 TATATAATTCTTATGTAAAC
1 TATATAGTTCATATGTAAAC
1519606 TATATAGTT--TA--T--A-
1 TATATAGTTCATATGTAAAC
1519619 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATGTAAAC
1519639 --TATAGTTCATAT
1 TATATAGTTCATAT
1519651 ATATAGTATA
Statistics
Matches: 137, Mismatches: 10, Indels: 54
0.68 0.05 0.27
Matches are distributed among these distances:
13 9 0.07
14 1 0.01
15 11 0.08
16 6 0.04
17 8 0.06
18 53 0.39
19 9 0.07
20 36 0.26
21 4 0.03
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (20 bp):
TATATAGTTCATATGTAAAC
Found at i:1519484 original size:33 final size:32
Alignment explanation
Indices: 1519447--1519657 Score: 185
Period size: 35 Copynumber: 6.6 Consensus size: 32
1519437 AAATATCGAC
1519447 TATAGTATATATATATAGTTCATATGTAAACT
1 TATAGTATATATATATAGTTCATATGTAAACT
1519479 ATATAGTTTATATATATATAGTTCATATGTAAACT
1 -TATAG--TATATATATATAGTTCATATGTAAACT
*
1519514 ATAGTTAGTATATAAACTATATAGTTTATATGTAAAC-
1 -TA--TAGTATAT--A-TATATAGTTCATATGTAAACT
*
1519551 TATAGT-TCATATATA-A----ATA--TCAACT
1 TATAGTAT-ATATATATAGTTCATATGTAAACT
* *
1519576 T-TAGTATATATATATAATTCTTATGTAAACT
1 TATAGTATATATATATAGTTCATATGTAAACT
*
1519607 ATATAGTTTATATATATAGTTCATATGTAAAC-
1 -TATAGTATATATATATAGTTCATATGTAAACT
1519639 TATAGT-TCATATATATAGT
1 TATAGTAT-ATATATATAGT
1519658 ATATAAATAT
Statistics
Matches: 151, Mismatches: 7, Indels: 42
0.75 0.04 0.21
Matches are distributed among these distances:
24 15 0.10
25 3 0.02
26 3 0.02
29 2 0.01
30 2 0.01
31 26 0.17
32 2 0.01
33 32 0.21
34 6 0.04
35 35 0.23
36 2 0.01
37 4 0.03
38 19 0.13
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (32 bp):
TATAGTATATATATATAGTTCATATGTAAACT
Found at i:1519498 original size:15 final size:15
Alignment explanation
Indices: 1519453--1519506 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
1519443 CGACTATAGT
1519453 ATATATATATAGTTC
1 ATATATATATAGTTC
*
1519468 ATATGTAAACTATATAGTTT
1 ATA--T--A-TATATAGTTC
1519488 ATATATATATAGTTC
1 ATATATATATAGTTC
1519503 ATAT
1 ATAT
1519507 GTAAACTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
15 16 0.50
16 1 0.03
17 1 0.03
18 1 0.03
19 1 0.03
20 12 0.38
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (15 bp):
ATATATATATAGTTC
Found at i:1519636 original size:126 final size:128
Alignment explanation
Indices: 1519432--1519662 Score: 378
Period size: 128 Copynumber: 1.8 Consensus size: 128
1519422 AATTATATAG
* *
1519432 TATATAAATATCGACTATAGTATATATATATAGTTCATATGTAAACTATATAGTTTATATATATA
1 TATATAAATATCAACTATAGTATATATATATAATTCATATGTAAACTATATAGTTTATATATATA
1519497 TAGTTCATATGTAAACTATAGTT-AGTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
66 TAGTTCATATGTAAACTATAGTTCA-TATATAAACTATATAGTTTATATGTAAACTATAGTTCA
* *
1519560 TATATAAATATCAACTTTAGTATATATATATAATTCTTATGTAAACTATATAG-TT-TATATATA
1 TATATAAATATCAACTATAGTATATATATATAATTCATATGTAAACTATATAGTTTATATATATA
* *
1519623 TAGTTCATATGTAAACTATAGTTCATATATATAGTATATA
66 TAGTTCATATGTAAACTATAGTTCATATATAAACTATATA
1519663 AATATAAACT
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
126 44 0.46
127 3 0.03
128 49 0.51
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (128 bp):
TATATAAATATCAACTATAGTATATATATATAATTCATATGTAAACTATATAGTTTATATATATA
TAGTTCATATGTAAACTATAGTTCATATATAAACTATATAGTTTATATGTAAACTATAGTTCA
Found at i:1519660 original size:18 final size:17
Alignment explanation
Indices: 1519283--1519660 Score: 92
Period size: 18 Copynumber: 21.5 Consensus size: 17
1519273 TTATACATGG
*
1519283 TATATATAGTTTATATA
1 TATATATAGTTCATATA
*
1519300 TA-ATATAGAT-ATATA
1 TATATATAGTTCATATA
* *
1519315 AACTATATAGTTCATATG
1 TA-TATATAGTTCATATA
* *
1519333 TAAAT-TA-TACTATATA
1 TATATATAGTTC-ATATA
*
1519349 GTATATATAGTTTATATATA
1 -TATATATAG-TT-CATATA
1519369 TAATATATAGTAT-ATGAATA
1 T-ATATATAGT-TCAT--ATA
*
1519389 TAAACTATAG--CATATA
1 TATA-TATAGTTCATATA
1519405 TATATAT-G-TCATATGTA
1 TATATATAGTTCATA--TA
*
1519422 AATTATATAG-T-ATATA
1 TA-TATATAGTTCATATA
* ** *
1519438 AATATCGACTAT-AGTATA
1 TATATATAGT-TCA-TATA
1519456 TATATATAGTTCATATGTA
1 TATATATAGTTCATA--TA
*
1519475 AACTATATAGTT--TATA
1 TA-TATATAGTTCATATA
*
1519491 TATATATAGTTCATATG
1 TATATATAGTTCATATA
*
1519508 TAAACTATAGTT-AGTATA
1 TATA-TATAGTTCA-TATA
* *
1519526 TAAACTATATAGTTTATATG
1 T--A-TATATAGTTCATATA
*
1519546 TAAACTATAGTTCATATA
1 TATA-TATAGTTCATATA
* * *
1519564 TAAATATCAACTTTAGTATA
1 TATATAT--AGTTCA-TATA
* *
1519584 TATATATAATTCTTATGTA
1 TATATATAGTTC--ATATA
*
1519603 AACTATATAG-T--T-TA
1 TA-TATATAGTTCATATA
*
1519617 TATATATAGTTCATATG
1 TATATATAGTTCATATA
*
1519634 TAAACTATAGTTCATATA
1 TATA-TATAGTTCATATA
1519652 TATAGTATA
1 TATA-TATA
1519661 TAAATATAAA
Statistics
Matches: 269, Mismatches: 45, Indels: 93
0.66 0.11 0.23
Matches are distributed among these distances:
13 7 0.03
14 5 0.02
15 29 0.11
16 27 0.10
17 38 0.14
18 81 0.30
19 18 0.07
20 62 0.23
21 2 0.01
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (17 bp):
TATATATAGTTCATATA
Found at i:1519671 original size:33 final size:33
Alignment explanation
Indices: 1519560--1519736 Score: 141
Period size: 33 Copynumber: 5.4 Consensus size: 33
1519550 CTATAGTTCA
* * * *
1519560 TATATAAATATCAACTTTAGTATATATATATAA
1 TATATAAATATAAACTATAGTTTATATATATAG
* * *
1519593 T-TCT-TATGTAAACTATATAGTTTATATATATAG
1 TATATAAATATAAAC--TATAGTTTATATATATAG
* *
1519626 T-TCAT--ATGTAAACTATAGTTCATATATATAG
1 TAT-ATAAATATAAACTATAGTTTATATATATAG
*
1519657 TATATAAATATAAACTATAGTTTATATAAATAG
1 TATATAAATATAAACTATAGTTTATATATATAG
* *
1519690 TATATAAATATAAATTATAGTATGTAGTTTATATA-
1 TATATAAATATAAACTATAGT-T-TA-TATATATAG
*
1519725 AATATAAATATA
1 TATATAAATATA
1519737 CACCCTAAAC
Statistics
Matches: 119, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
31 26 0.22
32 3 0.03
33 69 0.58
34 2 0.02
35 13 0.11
36 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (33 bp):
TATATAAATATAAACTATAGTTTATATATATAG
Found at i:1519675 original size:20 final size:19
Alignment explanation
Indices: 1519651--1519712 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
1519641 TAGTTCATAT
1519651 ATATAGTATATAAATATAA
1 ATATAGTATATAAATATAA
1519670 ACTATAGT-T-T--ATAT-A
1 A-TATAGTATATAAATATAA
1519685 A-ATAGTATATAAATATAA
1 ATATAGTATATAAATATAA
1519703 ATTATAGTAT
1 A-TATAGTAT
1519713 GTAGTTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 15
0.70 0.00 0.30
Matches are distributed among these distances:
13 5 0.14
14 1 0.03
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 2 0.06
20 13 0.37
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (19 bp):
ATATAGTATATAAATATAA
Found at i:1519750 original size:7 final size:7
Alignment explanation
Indices: 1519738--1519803 Score: 73
Period size: 7 Copynumber: 9.4 Consensus size: 7
1519728 ATAAATATAC
1519738 ACCCTAA
1 ACCCTAA
1519745 ACCCTAA
1 ACCCTAA
1519752 ACCCTAA
1 ACCCTAA
*
1519759 ACTCTAA
1 ACCCTAA
*
1519766 TA-CTTAA
1 -ACCCTAA
1519773 ACCCTAA
1 ACCCTAA
1519780 ACCCTAA
1 ACCCTAA
*
1519787 TA-CTTAA
1 -ACCCTAA
1519794 ACCCTAA
1 ACCCTAA
1519801 ACC
1 ACC
1519804 ATATATATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
6 2 0.04
7 45 0.92
8 2 0.04
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:1519765 original size:21 final size:21
Alignment explanation
Indices: 1519749--1519803 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1519739 CCCTAAACCC
*
1519749 TAAACCCTAAACTCTAATACT
1 TAAACCCTAAACCCTAATACT
1519770 TAAACCCTAAACCCTAATACT
1 TAAACCCTAAACCCTAATACT
1519791 TAAACCCTAAACC
1 TAAACCCTAAACC
1519804 ATATATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAACCCTAATACT
Found at i:1519830 original size:22 final size:22
Alignment explanation
Indices: 1519805--1519852 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1519795 CCCTAAACCA
*
1519805 TATATATAA-AAACTATATAGTT
1 TATAT-TAATAAACTATATAATT
1519827 TATATTAATAAACTATATAATT
1 TATATTAATAAACTATATAATT
1519849 TATA
1 TATA
1519853 CAATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATTAATAAACTATATAATT
Found at i:1519914 original size:20 final size:20
Alignment explanation
Indices: 1519889--1520094 Score: 100
Period size: 20 Copynumber: 10.1 Consensus size: 20
1519879 TAATATATAA
*
1519889 ATATAAATTGTATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
1519909 ATATAATTCATATATAATTTAT
1 ATATAAAT--TATATAGTTTAT
* * *
1519931 ATATAAACTATGTAGTTTCT
1 ATATAAATTATATAGTTTAT
* *
1519951 ATAT-AGTTCA-ATAGTTCAT
1 ATATAAATT-ATATAGTTTAT
*
1519970 ATATAAACTATATAGTATTAT
1 ATATAAATTATATAGT-TTAT
* ** *
1519991 AGTTTATACATGGTATA-TATAGT
1 A---TATAAATTATATAGTTTA-T
* * *
1520014 TTATACA-TA-ATA-TATAT
1 ATATAAATTATATAGTTTAT
*
1520031 ATATAAACTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
1520051 ATATATAATACATATACTTTAT
1 ATATA-AAT-TATATAGTTTAT
*
1520073 ATATAAACTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
1520093 AT
1 AT
1520095 TACATATATA
Statistics
Matches: 138, Mismatches: 33, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
17 6 0.04
18 9 0.07
19 16 0.12
20 55 0.40
21 8 0.06
22 33 0.24
23 2 0.01
24 9 0.07
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (20 bp):
ATATAAATTATATAGTTTAT
Found at i:1519931 original size:9 final size:10
Alignment explanation
Indices: 1519855--1519936 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
1519845 AATTTATACA
1519855 ATATAT-ATT
1 ATATATAATT
*
1519864 ATTTATAATT
1 ATATATAATT
*
1519874 ATACATAATAT
1 ATATATAAT-T
1519885 ATAAATATAAATT
1 AT--ATAT-AATT
*
1519898 GTATAGT--TT
1 ATATA-TAATT
1519907 ATATATAATT
1 ATATATAATT
1519917 CATATATAATTT
1 -ATATATAA-TT
1519929 ATATATAA
1 ATATATAA
1519937 ACTATGTAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:1519934 original size:13 final size:11
Alignment explanation
Indices: 1519899--1519936 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
1519889 ATATAAATTG
*
1519899 TATAGTTTATA
1 TATAATTTATA
*
1519910 TATAATTCATA
1 TATAATTTATA
1519921 TATAATTTATA
1 TATAATTTATA
1519932 TATAA
1 TATAA
1519937 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:1520018 original size:11 final size:10
Alignment explanation
Indices: 1520004--1520106 Score: 50
Period size: 11 Copynumber: 10.0 Consensus size: 10
1519994 TTATACATGG
*
1520004 TATATATAGTT
1 TATATATA-TA
*
1520015 TATACATA-A
1 TATATATATA
1520024 TATATATATA
1 TATATATATA
*
1520034 TAAACTATATA
1 TATA-TATATA
*
1520045 GTTTATATATA
1 -TATATATATA
*
1520056 TA-ATACATA
1 TATATATATA
*
1520065 TACTTTATATA
1 TA-TATATATA
*
1520076 TAAACTATATA
1 TATA-TATATA
*
1520087 GTTTATAT-TA
1 -TATATATATA
*
1520097 CATATATATA
1 TATATATATA
1520107 AAATGAATGA
Statistics
Matches: 68, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
9 20 0.29
10 9 0.13
11 35 0.51
12 4 0.06
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (10 bp):
TATATATATA
Found at i:1520051 original size:22 final size:22
Alignment explanation
Indices: 1520026--1520094 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
1520016 ATACATAATA
1520026 TATATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
*
1520048 TATATATATAATAC-ATATA-CT
1 TATATATATAA-ACTATATAGTT
1520069 T-TATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
1520090 TATAT
1 TATAT
1520095 TACATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 2 0.05
20 14 0.34
21 4 0.10
22 19 0.46
23 2 0.05
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (22 bp):
TATATATATAAACTATATAGTT
Found at i:1520699 original size:216 final size:215
Alignment explanation
Indices: 1520159--1520854 Score: 1090
Period size: 210 Copynumber: 3.3 Consensus size: 215
1520149 TGATCTATTT
*
1520159 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCACA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
*
1520224 TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTATTAATTAGCCCATAAC
66 TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTT-TTAATTGGCCCATAAC
* * * *
1520289 TTTTTAAATGAGTATAATTTAGTACATTTTTGTATTAATTTCAACCTCA-AATTTTAAAATTATT
130 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAA-TTTAAAAATATT
*
1520353 TCAATTTGATCCCT--T---T-
194 TCGATTTGATCCCTCATCAATG
* * * *
1520369 TGTGTTGTTTAGTTTATTTAATTTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCTTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
*
1520434 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCCATAAC
66 TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTT-AATTGGCCCATAAC
1520499 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAAATATTT
130 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAAATATTT
1520564 CGATTTGATCCCTCATCAATG
195 CGATTTGATCCCTCATCAATG
*
1520585 TGTGTTGTTTAATTAATTTAAATTTTTAATTT-TAATTTCATATTTGTTCAATTTAGTCCTCCAA
1 TGTGTTGTTTAATTTATTTAAATTTTT-ATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAA
* * * *
1520649 ATTTTATTTGCATATGAAATTGATCCATACTTTTTACTTAATTATATTTTTTAATTGGCCCATAA
65 ATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTA-TTTTTAATTGGCCCATAA
1520714 CTTTTTAAATGGGTATAATTTAGTA-TTTTTTGTATTAATTTCAACATCACAA-TTAAAAATTAT
129 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAAA-TAT
1520777 TTCGATTTGATCCCTCATCAATG
193 TTCGATTTGATCCCTCATCAATG
*
1520800 TGTGTTGTTTAATTTATTTAAATTTTTATTT-TCAATTTCTTATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGT-AATTTCATATTTGTTCAATTTA
1520855 ATTCTTAAAT
Statistics
Matches: 450, Mismatches: 24, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
209 2 0.00
210 190 0.42
211 2 0.00
212 1 0.00
214 12 0.03
215 101 0.22
216 133 0.30
217 9 0.02
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (215 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTAATTGGCCCATAACT
TTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAAATATTTC
GATTTGATCCCTCATCAATG
Found at i:1521992 original size:23 final size:23
Alignment explanation
Indices: 1521966--1522013 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1521956 ATAAAGTACA
*
1521966 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
1521989 ATAATGTAATAGGTAGCTCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1522012 AT
1 AT
1522014 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1522525 original size:23 final size:23
Alignment explanation
Indices: 1522490--1522562 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1522480 ATACTTTACA
*
1522490 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1522513 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1522536 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1522559 ATAT
1 ATAT
1522563 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Done.