Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 65
Found at i:3195373 original size:40 final size:38
Alignment explanation
Indices: 3195288--3195406 Score: 105
Period size: 40 Copynumber: 3.0 Consensus size: 38
3195278 TTTTCAAAAC
* * * * * *
3195288 TATTTTTAAAAACTATATTATATATGTTTTTAAAAAATA
1 TATTTTCAAAAACTATATTATATAT-ATTATATATATTA
*
3195327 TGTTTTCAAAAACTATATATATATATATATATATATATTA
1 TATTTTCAAAAACTATAT-TATATATAT-TATATATATTA
* *
3195367 TATTTTCAGAAACTATATT-TGAAATTATTATATATATTA
1 TATTTTCAAAAACTATATTAT-ATA-TATTATATATATTA
3195406 T
1 T
3195407 GCTGTACAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
38 1 0.02
39 32 0.48
40 33 0.50
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (38 bp):
TATTTTCAAAAACTATATTATATATATTATATATATTA
Found at i:3198719 original size:12 final size:12
Alignment explanation
Indices: 3198702--3198732 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3198692 AGTAAGATAA
3198702 AAAATAATAATC
1 AAAATAATAATC
*
3198714 AAAATAATAATG
1 AAAATAATAATC
3198726 AAAATAA
1 AAAATAA
3198733 AAAAATTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAATAATAATC
Found at i:3199780 original size:17 final size:18
Alignment explanation
Indices: 3199753--3199786 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3199743 AATTAAGAAA
*
3199753 TAAGAATAAAAATAAAGT
1 TAAGAATAAAAAGAAAGT
3199771 TAAG-ATAAAAAGAAAG
1 TAAGAATAAAAAGAAAG
3199787 AATAATAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (18 bp):
TAAGAATAAAAAGAAAGT
Found at i:3199818 original size:17 final size:17
Alignment explanation
Indices: 3199775--3199821 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
3199765 TAAAGTTAAG
*
3199775 ATAAAA-AGAAAGAATA
1 ATAAAAGAGAAATAATA
*
3199791 AT-AAAGTGAAATAATA
1 ATAAAAGAGAAATAATA
*
3199807 TTAAAAGAGAAATAA
1 ATAAAAGAGAAATAA
3199822 ATAAAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 3 0.12
16 11 0.44
17 11 0.44
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (17 bp):
ATAAAAGAGAAATAATA
Found at i:3199899 original size:34 final size:35
Alignment explanation
Indices: 3199820--3199898 Score: 140
Period size: 35 Copynumber: 2.3 Consensus size: 35
3199810 AAAGAGAAAT
*
3199820 AAATAAAAAATGAAGAAAATGTTAAATTTTAAAAG
1 AAATAAAAAATGAAGAAAATATTAAATTTTAAAAG
*
3199855 AAATAAAAAATGAAGAAAATATTAATTTTTAAAAG
1 AAATAAAAAATGAAGAAAATATTAAATTTTAAAAG
3199890 AAATAAAAA
1 AAATAAAAA
3199899 TAAAATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (35 bp):
AAATAAAAAATGAAGAAAATATTAAATTTTAAAAG
Found at i:3199921 original size:45 final size:47
Alignment explanation
Indices: 3199855--3199947 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 47
3199845 ATTTTAAAAG
*
3199855 AAATAAAAAATGAAGAAAATATTAATTTTTAAAAGAAATAAA-AATA
1 AAATAAAAAATGAAGAAAATATTAAATTTTAAAAGAAATAAATAATA
*
3199901 AAAT-AAAAATGAA-AGAAATATTAAATTTTAGAAGAAATAAATAATA
1 AAATAAAAAATGAAGA-AAATATTAAATTTTAAAAGAAATAAATAATA
3199947 A
1 A
3199948 TAATTTATAG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 1 0.02
45 33 0.77
46 9 0.21
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (47 bp):
AAATAAAAAATGAAGAAAATATTAAATTTTAAAAGAAATAAATAATA
Found at i:3199937 original size:23 final size:26
Alignment explanation
Indices: 3199911--3199966 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
3199901 AAATAAAAAT
*
3199911 GAAAGAAAT-ATTA-AATTT-TAGAA
1 GAAAGAAATAATAATAATTTATAGAA
*
3199934 GAAATAAATAATAATAATTTATAGAA
1 GAAAGAAATAATAATAATTTATAGAA
*
3199960 AAAAGAA
1 GAAAGAA
3199967 TGGAGAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 8 0.31
24 3 0.12
25 5 0.19
26 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (26 bp):
GAAAGAAATAATAATAATTTATAGAA
Found at i:3201000 original size:18 final size:18
Alignment explanation
Indices: 3200974--3201016 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3200964 AATTTGGATC
3200974 TGAAATAAAAAAATAAAA
1 TGAAATAAAAAAATAAAA
* *
3200992 TGAACTAAATAAATAAAA
1 TGAAATAAAAAAATAAAA
3201010 T-AAATAA
1 TGAAATAA
3201017 TAATATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (18 bp):
TGAAATAAAAAAATAAAA
Found at i:3201005 original size:13 final size:13
Alignment explanation
Indices: 3200976--3201056 Score: 53
Period size: 14 Copynumber: 6.2 Consensus size: 13
3200966 TTTGGATCTG
3200976 AAATAAAA-AAAT
1 AAATAAAATAAAT
* *
3200988 AAAATGAACTAAAT
1 -AAATAAAATAAAT
3201002 AAATAAAATAAAT
1 AAATAAAATAAAT
3201015 -AATAATATATAAAT
1 AAATAA-A-ATAAAT
* *
3201029 -AATAATATATACT
1 AAATAAAATA-AAT
*
3201042 AAATATAAT-AAT
1 AAATAAAATAAAT
3201054 AAA
1 AAA
3201057 AACTATATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
12 13 0.24
13 20 0.37
14 21 0.39
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.27
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:3201026 original size:19 final size:18
Alignment explanation
Indices: 3200999--3201055 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
3200989 AAATGAACTA
3200999 AATAA-ATA-AAATAAAT
1 AATAATATATAAATAAAT
3201015 AATAATATATAAAT-AAT
1 AATAATATATAAATAAAT
3201032 AAT-ATATACTAAATATAAT
1 AATAATATA-TAAATA-AAT
3201051 AATAA
1 AATAA
3201056 AAACTATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 10 0.29
17 14 0.40
18 4 0.11
19 6 0.17
20 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAATATATAAATAAAT
Found at i:3201026 original size:23 final size:23
Alignment explanation
Indices: 3201000--3201055 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
3200990 AATGAACTAA
3201000 ATAAATAA-AATAAATAATAATAT
1 ATAAATAATAATAAATAATAA-AT
* *
3201023 ATAAATAATAATATATACTAAAT
1 ATAAATAATAATAAATAATAAAT
3201046 AT-AATAATAA
1 ATAAATAATAA
3201056 AAACTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 8 0.27
23 12 0.40
24 10 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAAATAATAATAAATAATAAAT
Found at i:3201046 original size:14 final size:14
Alignment explanation
Indices: 3200997--3201039 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
3200987 TAAAATGAAC
3200997 TAAATAAATAA-A-A
1 TAAAT-AATAATATA
3201010 TAAATAATAATATA
1 TAAATAATAATATA
3201024 TAAATAATAATATA
1 TAAATAATAATATA
3201038 TA
1 TA
3201040 CTAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 17 0.61
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAATAATATA
Found at i:3201068 original size:14 final size:13
Alignment explanation
Indices: 3200999--3201068 Score: 54
Period size: 14 Copynumber: 5.3 Consensus size: 13
3200989 AAATGAACTA
*
3200999 AATAAATAAAATA-
1 AATAAA-AATATAT
*
3201012 AATAATAATATAT
1 AATAAAAATATAT
*
3201025 AAATAATAATATAT
1 -AATAAAAATATAT
* *
3201039 ACTAAATATA-AT
1 AATAAAAATATAT
3201051 AATAAAAACTATAT
1 AATAAAAA-TATAT
3201065 AATA
1 AATA
3201069 CTATATTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
12 13 0.28
13 14 0.30
14 19 0.41
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAAAATATAT
Found at i:3201102 original size:36 final size:37
Alignment explanation
Indices: 3201053--3201155 Score: 104
Period size: 36 Copynumber: 2.8 Consensus size: 37
3201043 AATATAATAA
*
3201053 TAAAAACTATATAATACTATATTTTCAAAAAT-ATGTT
1 TAAAAAAT-TATAATACTATATTTTCAAAAATCATGTT
* * * *
3201090 TCAAAAATTATAATA-TATGTTTTCAAAAATCGTTTT
1 TAAAAAATTATAATACTATATTTTCAAAAATCATGTT
*
3201126 TAAAAAATCAT-ATACTATATGTTTTCAAAA
1 TAAAAAATTATAATACTATA--TTTTCAAAA
3201156 CCGTTTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
35 17 0.31
36 22 0.41
37 6 0.11
38 9 0.17
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (37 bp):
TAAAAAATTATAATACTATATTTTCAAAAATCATGTT
Found at i:3201210 original size:37 final size:37
Alignment explanation
Indices: 3201054--3201303 Score: 201
Period size: 38 Copynumber: 6.8 Consensus size: 37
3201044 ATATAATAAT
* * ** * *
3201054 AAAAACTATATAATACTATATTTTCAAAAATATGTTTC
1 AAAAACTATATATTA-TATGTTTTCAAAACCATTTTTA
* * *
3201092 AAAAA-T-TATAATATATGTTTTCAAAAATCGTTTTTA
1 AAAAACTATATATTATATGTTTTC-AAAACCATTTTTA
* * *
3201128 AAAAA-TCATATACTATATGTTTTCAAAACCGTTTTTTT
1 AAAAACT-ATATATTATATGTTTTCAAAACC-ATTTTTA
*
3201166 AAAAACTATATATTATACGTTTTCAAAACCATTTTTA
1 AAAAACTATATATTATATGTTTTCAAAACCATTTTTA
** *
3201203 AAAAACTATATATTATACATTTTCAAAACTA-TTTTA
1 AAAAACTATATATTATATGTTTTCAAAACCATTTTTA
* * *
3201239 AAAAACTATAT-TATATATGTTTTTAAAA-AATACGTTTTC
1 AAAAACTATATAT-TATATGTTTTCAAAACCAT---TTTTA
3201278 AAAAACTATATATTATA--TTTTCAAAA
1 AAAAACTATATATTATATGTTTTCAAAA
3201304 ATTATATTTA
Statistics
Matches: 179, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
35 10 0.06
36 49 0.27
37 48 0.27
38 51 0.28
39 20 0.11
40 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (37 bp):
AAAAACTATATATTATATGTTTTCAAAACCATTTTTA
Found at i:3201304 original size:36 final size:37
Alignment explanation
Indices: 3201054--3201305 Score: 184
Period size: 37 Copynumber: 6.8 Consensus size: 37
3201044 ATATAATAAT
* *
3201054 AAAAACTATATAATACTATATTTTCAAAAATATG-TTTC
1 AAAAACTATAT-ATA-TATATTTTCAAAAATACGTTTTA
* *
3201092 AAAAATTATA-ATATATGTTTTCAAAAAT-CGTTTTTA
1 AAAAACTATATATATATATTTTCAAAAATACG-TTTTA
* * *
3201128 AAAAA-TCATATACTATATGTTTTC-AAAA-CCGTTTTTTT
1 AAAAACT-ATATA-TATATATTTTCAAAAATACG--TTTTA
** *
3201166 AAAAACTATATAT-TATACGTTTTCAAAACCA-TTTTTA
1 AAAAACTATATATATATA--TTTTCAAAAATACGTTTTA
* *
3201203 AAAAACTATATATTATACATTTTCAAAACTA--TTTTA
1 AAAAACTATATA-TATATATTTTCAAAAATACGTTTTA
* * *
3201239 AAAAACTATATTATATATGTTTTTAAAAAATACGTTTTC
1 AAAAACTATA-TATATAT-ATTTTCAAAAATACGTTTTA
3201278 AAAAACTATATAT-TATATTTTCAAAAAT
1 AAAAACTATATATATATATTTTCAAAAAT
3201306 TATATTTAAA
Statistics
Matches: 177, Mismatches: 19, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
34 1 0.01
35 15 0.08
36 46 0.26
37 50 0.28
38 44 0.25
39 21 0.12
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (37 bp):
AAAAACTATATATATATATTTTCAAAAATACGTTTTA
Found at i:3202272 original size:3 final size:3
Alignment explanation
Indices: 3202264--3202289 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3202254 GGATAAGATA
3202264 CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CA
3202290 TCATCATCAT
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:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:3202294 original size:3 final size:3
Alignment explanation
Indices: 3202288--3202365 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
3202278 CCACCACCAC
3202288 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
3202336 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
3202366 TTTTTGCCTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:3204474 original size:30 final size:29
Alignment explanation
Indices: 3204432--3204509 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 29
3204422 CATATACACC
*
3204432 TATTTTTATTTGGTAATCATCCATTTACA
1 TATTTTTTTTTGGTAATCATCCATTTACA
3204461 TATTGTTTTTTTGGTAATCATCCATTTACA
1 TATT-TTTTTTTGGTAATCATCCATTTACA
3204491 TATTTTTTTGTGTGGTAAT
1 TATTTTTTT-T-TGGTAAT
3204510 TGCTCTTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 9 0.20
30 29 0.64
31 7 0.16
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (29 bp):
TATTTTTTTTTGGTAATCATCCATTTACA
Found at i:3218603 original size:24 final size:23
Alignment explanation
Indices: 3218576--3218622 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3218566 ATAATTCAGC
3218576 AAATTATACTA-ATAAAAACAATTT
1 AAATTATA-TATA-AAAAACAATTT
*
3218600 AAATTCTATATAAAAAACAATTT
1 AAATTATATATAAAAAACAATTT
3218623 TAAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATTATATATAAAAAACAATTT
Found at i:3219440 original size:40 final size:40
Alignment explanation
Indices: 3219395--3219481 Score: 174
Period size: 40 Copynumber: 2.2 Consensus size: 40
3219385 GGTTTAGACG
3219395 AATTGGTTGAATGAATGTCAACAAATCCTGTCGCTGTCAA
1 AATTGGTTGAATGAATGTCAACAAATCCTGTCGCTGTCAA
3219435 AATTGGTTGAATGAATGTCAACAAATCCTGTCGCTGTCAA
1 AATTGGTTGAATGAATGTCAACAAATCCTGTCGCTGTCAA
3219475 AATTGGT
1 AATTGGT
3219482 GGCCACCGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (40 bp):
AATTGGTTGAATGAATGTCAACAAATCCTGTCGCTGTCAA
Found at i:3221581 original size:42 final size:42
Alignment explanation
Indices: 3221530--3221621 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
3221520 AGTGAAATTC
3221530 TAAT-TATTTAAATAAAAATTATTTATACAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATACAAAAATTCATCGA
** *
3221571 TAATATATTTAAATAAAAATTATTTATATGAAAATTTATCGA
1 TAATATATTTAAATAAAAATTATTTATACAAAAATTCATCGA
3221613 TAATATATT
1 TAATATATT
3221622 ATTTTATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATACAAAAATTCATCGA
Found at i:3221609 original size:16 final size:15
Alignment explanation
Indices: 3221531--3221606 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
3221521 GTGAAATTCT
3221531 AATTATTTAAATAAA
1 AATTATTTAAATAAA
* *
3221546 AATTATTTATACAAA
1 AATTATTTAAATAAA
**
3221561 AATTCA--TCGAT-AA
1 AATT-ATTTAAATAAA
*
3221574 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
* *
3221588 AATTATTTATATGAA
1 AATTATTTAAATAAA
3221603 AATT
1 AATT
3221607 TATCGATAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.13
14 5 0.11
15 31 0.69
16 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:3222999 original size:217 final size:216
Alignment explanation
Indices: 3222625--3223043 Score: 694
Period size: 217 Copynumber: 1.9 Consensus size: 216
3222615 CGAACTAGCT
*
3222625 AAAATTCAACAGCAATGAAGAGCCAAAAGTTATTGAAATGAACAAATACAAGCAAATCTTTCAGC
1 AAAATTCAACAACAATGAAGAGCCAAAAGTTATTGAAATGAACAAATACAAGCAAATCTTTCAGC
* * * * *
3222690 TAAGTGAAACAAATTGATTGCAACTTAGATGCCAAAGGACACACAAGTGGAGACACACATCTATG
66 TAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACAAGAGAAGACACACAACTATA
*
3222755 ACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTATGTCGTTTATTAAAAATACTCGAA
131 ACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTATGCCGTTTATTAAAAATACTCGAA
3222820 ACCGATTTTGTCCCGTTGATC
196 ACCGATTTTGTCCCGTTGATC
* *
3222841 AAAATTCAACAACAATGAAGAGCCAAAAGTTCTTGAAATGAACAAGATACAGGCAAATCTTTCAG
1 AAAATTCAACAACAATGAAGAGCCAAAAGTTATTGAAATGAACAA-ATACAAGCAAATCTTTCAG
* * *
3222906 TTAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACTAGAGAAGACATACAACTAT
65 CTAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACAAGAGAAGACACACAACTAT
* * *
3222971 AATATAAAATTCTCTGCAACAACATCATGCATGATGTTTTTGTGCCGTTTATTAAAAATACTCGA
130 AACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTATGCCGTTTATTAAAAATACTCGA
3223036 AACCGATT
195 AACCGATT
3223044 CTCTTAGAAG
Statistics
Matches: 187, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
216 43 0.23
217 144 0.77
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (216 bp):
AAAATTCAACAACAATGAAGAGCCAAAAGTTATTGAAATGAACAAATACAAGCAAATCTTTCAGC
TAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACAAGAGAAGACACACAACTATA
ACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTATGCCGTTTATTAAAAATACTCGAA
ACCGATTTTGTCCCGTTGATC
Found at i:3223335 original size:17 final size:18
Alignment explanation
Indices: 3223313--3223359 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
3223303 TCTCTTTAAA
3223313 ATTTTATATTATTA-TAT
1 ATTTTATATTATTATTAT
* * *
3223330 ATTTTAGATTTTTATTTGT
1 ATTTTATATTATTA-TTAT
3223349 ATTTTATATTA
1 ATTTTATATTA
3223360 ATAATATGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
19 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
ATTTTATATTATTATTAT
Found at i:3223883 original size:69 final size:69
Alignment explanation
Indices: 3223800--3223939 Score: 235
Period size: 69 Copynumber: 2.0 Consensus size: 69
3223790 ATGAACACAA
* *
3223800 TTCCATAACAGGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
1 TTCCAGAACAGGATAAATAGCCATAATTTACACAAACAAATCTCAAAGACAAATTAATGAAGTAA
3223865 AATC
66 AATC
* *
3223869 TTCCAGAACAGGATAAATAGCCATAATTTACACAAATATATCTCAAAGACAAATTAATGAAGTAA
1 TTCCAGAACAGGATAAATAGCCATAATTTACACAAACAAATCTCAAAGACAAATTAATGAAGTAA
*
3223934 ACTC
66 AATC
3223938 TT
1 TT
3223940 ATGGCAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (69 bp):
TTCCAGAACAGGATAAATAGCCATAATTTACACAAACAAATCTCAAAGACAAATTAATGAAGTAA
AATC
Found at i:3225253 original size:18 final size:19
Alignment explanation
Indices: 3225230--3225268 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3225220 AAATGTGGGT
3225230 ATATT-CACCCAGGAAAAA
1 ATATTCCACCCAGGAAAAA
* *
3225248 ATATTCCTCCCAGGAATAA
1 ATATTCCACCCAGGAAAAA
3225267 AT
1 AT
3225269 TATATCCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (19 bp):
ATATTCCACCCAGGAAAAA
Found at i:3225485 original size:38 final size:38
Alignment explanation
Indices: 3225434--3225509 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
3225424 CTAGATTATC
* *
3225434 GATACTTATTTAAGTGGTATAGATACTGATCTGTAGGT
1 GATACTCATTTAAGTGGTATAGATACTGATCTCTAGGT
*
3225472 GATACTCATTTAAGTGGTATCGATACTGATCTCTAGGT
1 GATACTCATTTAAGTGGTATAGATACTGATCTCTAGGT
3225510 ATCGATACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (38 bp):
GATACTCATTTAAGTGGTATAGATACTGATCTCTAGGT
Found at i:3225498 original size:21 final size:21
Alignment explanation
Indices: 3225430--3225498 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
3225420 AGGTCTAGAT
*
3225430 TATCGATACTTATTTAAGTGG
1 TATCGATACTCATTTAAGTGG
* * *
3225451 TATAGATACTGATCT--GTAGG
1 TATCGATACTCATTTAAGT-GG
3225471 --T-GATACTCATTTAAGTGG
1 TATCGATACTCATTTAAGTGG
3225489 TATCGATACT
1 TATCGATACT
3225499 GATCTCTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 9 0.24
18 3 0.08
19 4 0.11
20 3 0.08
21 18 0.49
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (21 bp):
TATCGATACTCATTTAAGTGG
Found at i:3232638 original size:20 final size:20
Alignment explanation
Indices: 3232613--3232652 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3232603 TGTTGCAACG
*
3232613 CCCTAAAAGTTTTGCAACAC
1 CCCTAAAAGTTATGCAACAC
3232633 CCCTAAAAGTTATGCAACAC
1 CCCTAAAAGTTATGCAACAC
3232653 GACCTTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (20 bp):
CCCTAAAAGTTATGCAACAC
Found at i:3237574 original size:3 final size:3
Alignment explanation
Indices: 3237568--3237623 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
3237558 GTATTATTTG
* * *
3237568 TAA TAA TAA TAA TATA TAA TTA TAA TAA TAG TAA T-A TAA TAG TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3237613 TAG TAA TAA TA
1 TAA TAA TAA TA
3237624 TAAATAAGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3237606 original size:20 final size:19
Alignment explanation
Indices: 3237570--3237630 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
3237560 ATTATTTGTA
3237570 ATAATAATAAT-ATATAATT
1 ATAATAATAATAATATAA-T
*
3237589 ATAATAATAGTAATATAAT
1 ATAATAATAATAATATAAT
*
3237608 AGTAATAGTAATAATATAA-
1 A-TAATAATAATAATATAAT
3237627 ATAA
1 ATAA
3237631 GTAAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.08
19 13 0.35
20 21 0.57
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
ATAATAATAATAATATAAT
Found at i:3237608 original size:11 final size:11
Alignment explanation
Indices: 3237570--3237623 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
3237560 ATTATTTGTA
3237570 ATAATAATAAT
1 ATAATAATAAT
*
3237581 AT-ATAATTAT
1 ATAATAATAAT
*
3237591 AATAATAGTAAT
1 -ATAATAATAAT
*
3237603 ATAATAGTAAT
1 ATAATAATAAT
3237614 AGTAATAATA
1 A-TAATAATA
3237624 TAAATAAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 7 0.19
11 16 0.44
12 13 0.36
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:3241007 original size:19 final size:20
Alignment explanation
Indices: 3240971--3241008 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3240961 TCGATTTCTG
*
3240971 AAAACATAACATTTTAATAC
1 AAAACAAAACATTTTAATAC
3240991 AAAACAAAACA-TTTAATA
1 AAAACAAAACATTTTAATA
3241009 TAAACTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAACAAAACATTTTAATAC
Found at i:3241556 original size:66 final size:66
Alignment explanation
Indices: 3241485--3241630 Score: 238
Period size: 66 Copynumber: 2.2 Consensus size: 66
3241475 TTTAATTATG
* * * *
3241485 GCATCCTTTAATGCCTTAATGTATCATTTCATGCATTTTAATTATGGCGTCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCAACATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAA
3241550 T
66 T
* *
3241551 GCATCCTTTCATGCCTTAATGCAACCTTTCATGCATTTTAATTATGGCATCCTTTTATGCCTTAA
1 GCATCCTTTCATGCCTTAATGCAACATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAA
3241616 T
66 T
3241617 GCATCCTTTCATGC
1 GCATCCTTTCATGC
3241631 ATTTTAATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (66 bp):
GCATCCTTTCATGCCTTAATGCAACATTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAA
T
Found at i:3241559 original size:20 final size:20
Alignment explanation
Indices: 3241534--3241676 Score: 124
Period size: 20 Copynumber: 6.5 Consensus size: 20
3241524 AATTATGGCG
3241534 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
3241554 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
* *
3241574 ACCTTTCATGCATTTTAATTATGGCA
1 TCCTTTCATGC--CTT-A--AT-GCA
*
3241600 TCCTTTTATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
*
3241620 TCCTTTCATGCATTTTAATTATGACA
1 TCCTTTCATGC--CTT-A--ATG-CA
*
3241646 TCCTTTCATTCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
*
3241666 TCATTTCATGC
1 TCCTTTCATGC
3241677 ATTTTAATTA
Statistics
Matches: 100, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
20 54 0.54
21 5 0.05
22 4 0.04
23 4 0.04
24 4 0.04
25 5 0.05
26 24 0.24
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.43
Consensus pattern (20 bp):
TCCTTTCATGCCTTAATGCA
Found at i:3241563 original size:46 final size:46
Alignment explanation
Indices: 3241454--3241564 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 46
3241444 TTTTCATATA
* *
3241454 TTAATACATTCATTT-ATACATTTTAATTATGGCATCCTTTAATGCC
1 TTAATGCA-TCATTTCATGCATTTTAATTATGGCATCCTTTAATGCC
* * *
3241500 TTAATGTATCATTTCATGCATTTTAATTATGGCGTCCTTTCATGCC
1 TTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTAATGCC
*
3241546 TTAATGCATCCTTTCATGC
1 TTAATGCATCATTTCATGC
3241565 CTTAATGCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 6 0.11
46 51 0.89
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (46 bp):
TTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTAATGCC
Found at i:3241597 original size:112 final size:112
Alignment explanation
Indices: 3241472--3241676 Score: 347
Period size: 112 Copynumber: 1.8 Consensus size: 112
3241462 TTCATTTATA
* * *
3241472 CATTTTAATTATGGCATCCTTTAATGCCTTAATGTATCATTTCATGCATTTTAATTATGGCGTCC
1 CATTTTAATTATGGCATCCTTTAATGCCTTAATGCATCATTTCATGCATTTTAATTATGACATCC
*
3241537 TTTCATGCCTTAATGCATCCTTTCATGCCTTAATGCAACCTTTCATG
66 TTTCATGCCTTAATGCATCATTTCATGCCTTAATGCAACCTTTCATG
* *
3241584 CATTTTAATTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTTTAATTATGACATCC
1 CATTTTAATTATGGCATCCTTTAATGCCTTAATGCATCATTTCATGCATTTTAATTATGACATCC
*
3241649 TTTCATTCCTTAATGCATCATTTCATGC
66 TTTCATGCCTTAATGCATCATTTCATGC
3241677 ATTTTAATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 86 1.00
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.44
Consensus pattern (112 bp):
CATTTTAATTATGGCATCCTTTAATGCCTTAATGCATCATTTCATGCATTTTAATTATGACATCC
TTTCATGCCTTAATGCATCATTTCATGCCTTAATGCAACCTTTCATG
Found at i:3241601 original size:46 final size:46
Alignment explanation
Indices: 3241551--3241689 Score: 233
Period size: 46 Copynumber: 3.0 Consensus size: 46
3241541 ATGCCTTAAT
*
3241551 GCATCCTTTCATGCCTTAATGCAACCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
*
3241597 GCATCCTTTTATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
* * *
3241643 ACATCCTTTCATTCCTTAATGCATCATTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
3241689 G
1 G
3241690 ATTCGATTTA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
Found at i:3242142 original size:18 final size:18
Alignment explanation
Indices: 3242119--3242163 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
3242109 CTATACTATG
*
3242119 GTATCGATACCCCTTCTA
1 GTATCGATACCCCTTCCA
3242137 GTATCGATACCCCTTCCA
1 GTATCGATACCCCTTCCA
3242155 GTATCGATA
1 GTATCGATA
3242164 GCATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (18 bp):
GTATCGATACCCCTTCCA
Found at i:3242256 original size:44 final size:45
Alignment explanation
Indices: 3242193--3242308 Score: 132
Period size: 44 Copynumber: 2.6 Consensus size: 45
3242183 TGCCTGGTAT
*
3242193 CGATACCCTT-TCTTCAGTATCGATACCACTAT-CTATGGTAGCAT
1 CGATACCCTTCTCTT-AGTATCGATACCACTATACTATGGTAGCAC
* * * *
3242237 TGATACCCTTCTCTTAGTATTGATACCACTTTACTATGGTAGTAC
1 CGATACCCTTCTCTTAGTATCGATACCACTATACTATGGTAGCAC
*
3242282 CGATACTCC--CTTTTAGTATCGATACCA
1 CGATAC-CCTTCTCTTAGTATCGATACCA
3242309 TTTTGACATT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 40 0.66
45 19 0.31
46 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (45 bp):
CGATACCCTTCTCTTAGTATCGATACCACTATACTATGGTAGCAC
Found at i:3242260 original size:20 final size:20
Alignment explanation
Indices: 3242189--3242263 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
3242179 GTGTTGCCTG
3242189 GTATCGATACCCTT-TCTTCA
1 GTATCGATACCCTTCTCTT-A
*
3242209 GTATCGATACCACTATCTATGGTA
1 GTATCGATACC-CT-TCTCT--TA
* *
3242233 GCATTGATACCCTTCTCTTA
1 GTATCGATACCCTTCTCTTA
*
3242253 GTATTGATACC
1 GTATCGATACC
3242264 ACTTTACTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 23 0.51
21 2 0.04
22 5 0.11
23 4 0.09
24 10 0.22
25 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (20 bp):
GTATCGATACCCTTCTCTTA
Found at i:3243000 original size:2 final size:2
Alignment explanation
Indices: 3242993--3243025 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3242983 AAAATCCCTA
3242993 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3243026 AATTTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3248583 original size:26 final size:26
Alignment explanation
Indices: 3248554--3248754 Score: 109
Period size: 26 Copynumber: 8.4 Consensus size: 26
3248544 TACATTAATA
3248554 CATCCATTT-ATACATTTTAATTATAG
1 CATCC-TTTCATACATTTTAATTATAG
* *
3248580 CATCCTTTCATGCATTTTAATTATGG
1 CATCCTTTCATACATTTTAATTATAG
* * *
3248606 AATCCTTTCATGC--CTT-A--AT-G
1 CATCCTTTCATACATTTTAATTATAG
* *
3248626 CATCCTTTCATGCATTTTAATTATGG
1 CATCCTTTCATACATTTTAATTATAG
*
3248652 CATCCTTTCATGCCA----AA--AT-G
1 CATCCTTTCAT-ACATTTTAATTATAG
* * *
3248672 CATCATTTCATGCATTTTAATTATGG
1 CATCCTTTCATACATTTTAATTATAG
*
3248698 CATCCTTTCATAC--CTT-A--AT-G
1 CATCCTTTCATACATTTTAATTATAG
* * *
3248718 CATCATTTCATGCATTTTAATTATTG
1 CATCCTTTCATACATTTTAATTATAG
3248744 CATCCTTTCAT
1 CATCCTTTCAT
3248755 GGTTTAATGC
Statistics
Matches: 138, Mismatches: 16, Indels: 42
0.70 0.08 0.21
Matches are distributed among these distances:
19 2 0.01
20 36 0.26
21 6 0.04
22 4 0.03
23 8 0.06
24 4 0.03
25 9 0.07
26 67 0.49
27 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.44
Consensus pattern (26 bp):
CATCCTTTCATACATTTTAATTATAG
Found at i:3248629 original size:46 final size:46
Alignment explanation
Indices: 3248579--3248881 Score: 462
Period size: 46 Copynumber: 6.6 Consensus size: 46
3248569 TTTAATTATA
*
3248579 GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
**
3248625 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCAAAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
* *
3248671 GCATCATTTCATGCATTTTAATTATGGCATCCTTTCATACCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
* * **
3248717 GCATCATTTCATGCATTTTAATTATTGCATCCTTTCATGGTTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
** * *
3248763 GCATATTTTCATGCATTTTAATTATGGAATTCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
* *
3248809 GCATCCTTTCAGGCATTTTAATTATGGCATCCTTTCATGTCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
*
3248855 TCATCCTTTCATGCATTTTAATTATGG
1 GCATCCTTTCATGCATTTTAATTATGG
3248882 ATTCGATTTA
Statistics
Matches: 231, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 231 1.00
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
Found at i:3248645 original size:72 final size:72
Alignment explanation
Indices: 3248528--3248664 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 72
3248518 ATAATTTCAG
* *
3248528 TTATGGTATCTTTTCATACATTAATACATCCATTTATACATTTTAATTATAGCATCCTTTCATGC
1 TTATGGAATCCTTTCATACATTAATACATCCATTTATACATTTTAATTATAGCATCCTTTCATGC
3248593 ATTTTAA
66 ATTTTAA
* * * * *
3248600 TTATGGAATCCTTTCATGCCTTAATGCATCC-TTTCATGCATTTTAATTATGGCATCCTTTCATG
1 TTATGGAATCCTTTCATACATTAATACATCCATTT-ATACATTTTAATTATAGCATCCTTTCATG
3248664 C
65 C
3248665 CAAAATGCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 3 0.05
72 54 0.95
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (72 bp):
TTATGGAATCCTTTCATACATTAATACATCCATTTATACATTTTAATTATAGCATCCTTTCATGC
ATTTTAA
Found at i:3252262 original size:24 final size:24
Alignment explanation
Indices: 3252230--3252278 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3252220 AGTCTTCTTG
3252230 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3252254 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3252278 A
1 A
3252279 ATGTCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:3255787 original size:19 final size:19
Alignment explanation
Indices: 3255765--3255802 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
3255755 TCTCTTATCA
3255765 TTTTTTCTTCTTT-TTTTTC
1 TTTTTTC-TCTTTCTTTTTC
3255784 TTTTTTCTCTTTCTTTTTC
1 TTTTTTCTCTTTCTTTTTC
3255803 AGCTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTCTCTTTCTTTTTC
Found at i:3259115 original size:24 final size:24
Alignment explanation
Indices: 3259083--3259131 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3259073 AGTCTTCCTG
3259083 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3259107 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3259131 A
1 A
3259132 ATGTCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:3261336 original size:2 final size:2
Alignment explanation
Indices: 3261329--3261364 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3261319 TTTTCTGAAC
*
3261329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3261365 TGAAATGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3262522 original size:30 final size:30
Alignment explanation
Indices: 3262481--3262549 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
3262471 CAAAATTATC
* *
3262481 AAGAGTTCAAGTTAAAATTTGCTAT-CACTA
1 AAGAATTCAAGTTAAAATTTGCT-TCCACCA
** *
3262511 AAGAATTCAAGTTTGATTTTGCTTCCACCA
1 AAGAATTCAAGTTAAAATTTGCTTCCACCA
3262541 AAGAATTCA
1 AAGAATTCA
3262550 TGTTGACAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (30 bp):
AAGAATTCAAGTTAAAATTTGCTTCCACCA
Found at i:3272143 original size:24 final size:24
Alignment explanation
Indices: 3272116--3272161 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
3272106 TTTATGACAT
* *
3272116 CTGATCTGAAATCTGTTCTGATTC
1 CTGACCTGAAATCTGTTATGATTC
* *
3272140 CTGACCTGGATTCTGTTATGAT
1 CTGACCTGAAATCTGTTATGAT
3272162 ATTTGATCTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (24 bp):
CTGACCTGAAATCTGTTATGATTC
Found at i:3274753 original size:12 final size:12
Alignment explanation
Indices: 3274736--3274762 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3274726 TAATCGGATT
3274736 GGTTAGCGAATC
1 GGTTAGCGAATC
3274748 GGTTAGCGAATC
1 GGTTAGCGAATC
3274760 GGT
1 GGT
3274763 AATGTTACCG
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:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (12 bp):
GGTTAGCGAATC
Found at i:3275632 original size:17 final size:18
Alignment explanation
Indices: 3275610--3275643 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3275600 TCAGTCGGTC
3275610 CGGTTT-GAACTGTTCAA
1 CGGTTTCGAACTGTTCAA
*
3275627 CGGTTTCGACCTGTTCA
1 CGGTTTCGAACTGTTCA
3275644 CTAGTAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (18 bp):
CGGTTTCGAACTGTTCAA
Found at i:3284660 original size:21 final size:21
Alignment explanation
Indices: 3284623--3284662 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3284613 TCGTTTTTCA
*
3284623 ATTTTGAAACATCTTTCTTGT
1 ATTTTGAAACATATTTCTTGT
3284644 ATTTTGAAA-ATAATTTCTT
1 ATTTTGAAACAT-ATTTCTT
3284663 ATAATCCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTTGAAACATATTTCTTGT
Found at i:3286164 original size:20 final size:20
Alignment explanation
Indices: 3286139--3286231 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
3286129 TTTTCCCAAT
3286139 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
3286159 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
3286179 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
3286200 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
3286221 TCGCAATGCGA
1 TCGCAATGCGA
3286232 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:3286181 original size:41 final size:41
Alignment explanation
Indices: 3286136--3286231 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
3286126 CGATTTTCCC
3286136 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
3286177 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
3286218 AAATCGCAATGCGA
1 AATTCGCAATGCGA
3286232 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:3286185 original size:21 final size:20
Alignment explanation
Indices: 3286139--3286231 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
3286129 TTTTCCCAAT
*
3286139 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
3286159 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
3286179 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
3286200 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
3286221 TCGCAATGCGA
1 TCGCAATGCGA
3286232 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:3286245 original size:20 final size:20
Alignment explanation
Indices: 3286220--3286313 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
3286210 AATTGGGAAA
*
3286220 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
3286240 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
3286261 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
3286281 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
3286301 TTCGCAACGCGAT
1 ATCGCAACGCGAT
3286314 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:3286294 original size:41 final size:41
Alignment explanation
Indices: 3286217--3286294 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
3286207 GCGAATTGGG
* * **
3286217 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
3286258 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
3286295 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:3286876 original size:19 final size:19
Alignment explanation
Indices: 3286833--3286897 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
3286823 CGAGAATGAG
* *
3286833 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATAAA
*
3286853 TATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
**
3286872 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATAAA
3286891 AATCGCA
1 AATCGCA
3286898 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:3286915 original size:19 final size:19
Alignment explanation
Indices: 3286893--3287077 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
3286883 GAAACCAAAA
*
3286893 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3286912 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
3286931 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
3286950 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
3286970 TTGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
3286986 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
3287003 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
3287017 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
3287036 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
3287056 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
3287076 TC
1 TC
3287078 AACCAAAAGA
Statistics
Matches: 137, Mismatches: 16, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 60 0.44
20 48 0.35
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3286970 original size:39 final size:38
Alignment explanation
Indices: 3286893--3286982 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
3286883 GAAACCAAAA
* *
3286893 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
3286931 TCGCGTTGCGATTTTAATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGC-GTTGCGATTTTCATT
*
3286970 TTGCGTTGCGATT
1 TCGCGTTGCGATT
3286983 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
Found at i:3286995 original size:33 final size:33
Alignment explanation
Indices: 3286965--3287052 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
3286955 GTTGCGATTT
* * *
3286965 TCATTTTGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
3286998 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
3287031 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
3287053 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 35 0.70
34 15 0.30
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:3287054 original size:20 final size:20
Alignment explanation
Indices: 3287020--3287077 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3287010 GCGATTCTCT
**
3287020 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
3287040 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
3287060 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
3287078 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:3289139 original size:42 final size:42
Alignment explanation
Indices: 3289079--3289201 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
3289069 GCTCGACTTG
* * *
3289079 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
3289121 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
3289163 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
3289202 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:3289159 original size:21 final size:21
Alignment explanation
Indices: 3289135--3289201 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3289125 TCATTCCTCG
3289135 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
3289156 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
3289177 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
3289198 AGAG
1 AGAG
3289202 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:3290572 original size:14 final size:14
Alignment explanation
Indices: 3290553--3290588 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3290543 ATTGTTTAAT
3290553 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3290567 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3290581 TGATTTGT
1 TGATTTGT
3290589 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3290757 original size:19 final size:19
Alignment explanation
Indices: 3290695--3290748 Score: 90
Period size: 20 Copynumber: 2.8 Consensus size: 19
3290685 AAAAAGTACT
*
3290695 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
3290714 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCG-AAATGAAA
3290734 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
3290749 TAAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:3290775 original size:19 final size:19
Alignment explanation
Indices: 3290753--3290870 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
3290743 CGAAATTAAA
3290753 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
3290772 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
3290787 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
3290805 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
3290820 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
3290838 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
3290857 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
3290871 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:3290799 original size:33 final size:33
Alignment explanation
Indices: 3290757--3290850 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
3290747 ATTAAATTCG
3290757 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
3290790 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
3290823 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3290851 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:3294531 original size:14 final size:15
Alignment explanation
Indices: 3294511--3294583 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
3294501 TGAAAATCGC
3294511 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
3294526 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
3294543 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
3294561 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
3294577 -TTGCGAT
1 ATTGCGAT
3294584 AGCCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:3294548 original size:19 final size:19
Alignment explanation
Indices: 3294507--3294573 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
3294497 GAAATGAAAA
3294507 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
3294523 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3294540 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
3294558 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
3294574 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3294709 original size:14 final size:14
Alignment explanation
Indices: 3294690--3294726 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3294680 CATCAATTAA
3294690 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3294704 ACAAATCATCTTTT
1 ACAAATCAACATTT
3294718 ACAAATCAA
1 ACAAATCAA
3294727 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:3295165 original size:14 final size:14
Alignment explanation
Indices: 3295146--3295199 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
3295136 GAAAATCGCA
3295146 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
3295160 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
3295177 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
3295193 TTGCGAT
1 TTGCGAT
3295200 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:3295183 original size:33 final size:33
Alignment explanation
Indices: 3295141--3295218 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
3295131 GAAATGAAAA
***
3295141 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
3295174 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
3295207 TCGCGTTGCGAT
1 TCGCATTGCGAT
3295219 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:3295325 original size:14 final size:14
Alignment explanation
Indices: 3295306--3295342 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3295296 CATAAATTAA
3295306 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3295320 ACAAATCATCTTTT
1 ACAAATCAACATTT
3295334 ACAAATCAA
1 ACAAATCAA
3295343 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:3295460 original size:616 final size:621
Alignment explanation
Indices: 3294269--3295591 Score: 2449
Period size: 616 Copynumber: 2.1 Consensus size: 621
3294259 TTTAACAATT
*
3294269 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAAACAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
3294334 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
3294399 GAGTTTGAACATTGCTATGATATGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
131 GAGTTTGAACATTGCTATGATATGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
3294464 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
196 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTT-
3294529 CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
260 CG---------TCGCATT--G-TTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
3294594 CGTTGCAATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
313 CGTTGCAATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
*
3294659 TTTCAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
378 TTTCAACACAAATTATGTACACATAAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
3294724 CAATTAAACAATCAAAAAATAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAA
443 CAATTAAACAATCAAAAAATAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAA
3294789 CAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAA
508 CAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAA
3294854 CATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
573 CATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
3294903 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
3294968 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
*
3295033 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
131 GAGTTTGAACATTGCTATGATATGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
*
3295098 AAAGTGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTT-
196 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTC
*
3295162 G-CG-A-T-TTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCGCGTTGCGATAGTC
261 GTCGCATTGTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCGCGTTGCAATAGTC
3295223 TGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACATTTCAACACAAAT
326 TGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACATTTCAACACAAAT
3295288 TATGTACACATAAATTAAACAAATCAACATTTACAAATCATCTTTTACAAATCAATTAAACAATC
391 TATGTACACATAAATTAAACAAATCAACATTTACAAATCATCTTTTACAAATCAATTAAACAATC
3295353 AAAAAATAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAACAACTTTGTGACC
456 AAAAAATAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAACAACTTTGTGACC
3295418 CCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAAC
521 CCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAAC
3295483 AAGACTTCCTACACATCTAAAACCTACAAACAGCAA
586 AAGACTTCCTACACATCTAAAACCTACAAACAGCAA
3295519 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
3295584 CTTGCATT
66 CTTGCATT
3295592 TGACTTACCA
Statistics
Matches: 684, Mismatches: 5, Indels: 18
0.97 0.01 0.03
Matches are distributed among these distances:
616 423 0.62
620 1 0.00
621 1 0.00
622 2 0.00
632 1 0.00
634 256 0.37
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (621 bp):
ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
GAGTTTGAACATTGCTATGATATGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTC
GTCGCATTGTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCGCGTTGCAATAGTC
TGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACATTTCAACACAAAT
TATGTACACATAAATTAAACAAATCAACATTTACAAATCATCTTTTACAAATCAATTAAACAATC
AAAAAATAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAACAACTTTGTGACC
CCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAACATTTGCTCAAAC
AAGACTTCCTACACATCTAAAACCTACAAACAGCAA
Found at i:3297285 original size:14 final size:14
Alignment explanation
Indices: 3297266--3297323 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3297256 ATGCGAAATG
3297266 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3297280 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
3297296 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3297312 AAAATCGCAACG
1 AAAATCGCAACG
3297324 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3297308 original size:32 final size:33
Alignment explanation
Indices: 3297250--3297340 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
3297240 GGAAATGGCT
*
3297250 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3297283 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3297315 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
3297341 TGCGATTTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:3297334 original size:19 final size:19
Alignment explanation
Indices: 3297192--3297345 Score: 114
Period size: 19 Copynumber: 8.6 Consensus size: 19
3297182 TAGTTTACTT
* *
3297192 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
3297212 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
3297231 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
3297251 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3297270 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
3297284 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
3297302 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
3297316 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3297335 TCGCAATGCGA
1 TCGCAACGCGA
3297346 TTTATGTTTC
Statistics
Matches: 108, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
14 20 0.19
15 1 0.01
16 6 0.06
17 2 0.02
18 11 0.10
19 39 0.36
20 29 0.27
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3297376 original size:14 final size:14
Alignment explanation
Indices: 3297357--3297446 Score: 72
Period size: 14 Copynumber: 5.9 Consensus size: 14
3297347 TTATGTTTCG
3297357 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
3297371 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
3297387 CGAGTTGCGATTTTGT
1 C--GTTGCGATTTTGT
*
3297403 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
3297419 CGCGTTGCGCTTTTGT
1 --CGTTGCGATTTTGT
*
3297435 CGTTGCAATTTT
1 CGTTGCGATTTT
3297447 CATTTCGCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 31 0.51
16 10 0.16
18 20 0.33
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:3297394 original size:32 final size:32
Alignment explanation
Indices: 3297352--3297462 Score: 161
Period size: 32 Copynumber: 3.4 Consensus size: 32
3297342 GCGATTTATG
*
3297352 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGAGTTGCGATTTTGTCGTTGCGATTTCA
3297384 TTTCGAGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGAGTTGCGATTTTGTCGTTGCGATTTCA
* * *
3297416 TTTCGCGTTGCGCTTTTGTCGTTGCAATTTTCA
1 TTTCGAGTTGCGATTTTGTCGTTGCGA-TTTCA
3297449 TTTCGCA-TTGCGAT
1 TTTCG-AGTTGCGAT
3297463 AGCCATTTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
32 55 0.77
33 16 0.23
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (32 bp):
TTTCGAGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:3297481 original size:20 final size:19
Alignment explanation
Indices: 3297447--3297501 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
3297437 TTGCAATTTT
*
3297447 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
3297466 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
3297486 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
3297502 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:3298000 original size:18 final size:18
Alignment explanation
Indices: 3297974--3298018 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3297964 GTCGATCAGA
*
3297974 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
3297992 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
3298010 TGATGGCTC
1 TGATGGCTC
3298019 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:3300271 original size:20 final size:20
Alignment explanation
Indices: 3300165--3300279 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
3300155 CGCTTTGAAA
*
3300165 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
3300186 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
** * *
3300206 ATCGTGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
3300226 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
3300247 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
3300267 ATCGCATTGCGAT
1 ATCGCATTGCGAT
3300280 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 48 0.65
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:3300298 original size:41 final size:41
Alignment explanation
Indices: 3300268--3300363 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
3300258 ATAGTCAGTA
* * *
3300268 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
3300309 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
3300350 TCGCATTGCGAATT
1 TCGCATTGCGAATT
3300364 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:3300312 original size:20 final size:20
Alignment explanation
Indices: 3300268--3300360 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
3300258 ATAGTCAGTA
* **
3300268 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
3300289 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
3300309 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
3300330 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
3300350 TCGCATTGCGA
1 TCGCATTGCGA
3300361 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:3305089 original size:23 final size:21
Alignment explanation
Indices: 3305055--3305098 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
3305045 ATATAAAAAA
3305055 TTATTTTTTATTAAATGTTTTT
1 TTATTTTTTATTAAAT-TTTTT
*
3305077 TTATATTTTTATTTAATTTTTT
1 TTAT-TTTTTATTAAATTTTTT
3305099 AAATAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (21 bp):
TTATTTTTTATTAAATTTTTT
Found at i:3307692 original size:20 final size:20
Alignment explanation
Indices: 3307655--3307694 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3307645 AAAATAAAAA
* **
3307655 TAAAATTTAAATTTAAATTT
1 TAAAATCTAAATAAAAATTT
3307675 TAAAATCTAAATAAAAATTT
1 TAAAATCTAAATAAAAATTT
3307695 AGAAATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATCTAAATAAAAATTT
Found at i:3309616 original size:65 final size:65
Alignment explanation
Indices: 3309480--3309639 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
3309470 TACACTAAGA
* *
3309480 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAGAATAGCCAGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAGAAAAGCCAGAGTGCATCGATGCATGGCTT
* * * * *
3309544 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTGAGTGCGTCGATGCATGG-TA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAGAAAAGCCAGAGTGCATCGATGCATGGCT-
3309608 T
65 T
* *
3309609 GTTCATCGATGCATAAAATACATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
3309640 CAATTTATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 29 0.34
65 56 0.66
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAGAAAAGCCAGAGTGCATCGATGCATGGCTT
Found at i:3309680 original size:20 final size:20
Alignment explanation
Indices: 3309655--3309699 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
3309645 TATTCCATGG
*
3309655 TGCATGGATTGGTGCATCGA
1 TGCATGGATTAGTGCATCGA
*
3309675 TGCATGGATTATTGCATCGA
1 TGCATGGATTAGTGCATCGA
3309695 TGCAT
1 TGCAT
3309700 CACTTTGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (20 bp):
TGCATGGATTAGTGCATCGA
Found at i:3310060 original size:21 final size:22
Alignment explanation
Indices: 3310034--3310085 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
3310024 TTTGAAATTA
3310034 CTCCCCCTTAC-TTTAACACTT
1 CTCCCCCTTACATTTAACACTT
* * *
3310055 CTCCCCATAACATTTAACATTT
1 CTCCCCCTTACATTTAACACTT
3310077 CTCCCCCTT
1 CTCCCCCTT
3310086 TTTGTTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCCCCCTTACATTTAACACTT
Found at i:3310513 original size:20 final size:19
Alignment explanation
Indices: 3310417--3310588 Score: 98
Period size: 20 Copynumber: 8.6 Consensus size: 19
3310407 AAATGACCAA
* *
3310417 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCG-ATTT
*
3310437 CAATTTCGCAACGCGAATATGT
1 CAAATTCGCAACGCG-AT-T-T
**
3310459 -AAA-TCGCATTGCGATTTT
1 CAAATTCGCAACGCGA-TTT
* **
3310477 ACAAATTAGCATTGCGATTT
1 -CAAATTCGCAACGCGATTT
*
3310497 CCAAATTCGCAACGCGATAGT
1 -CAAATTCGCAACGCGAT-TT
* * **
3310518 CAAATTCGCAACACAAAGT
1 CAAATTCGCAACGCGATTT
3310537 CAAATTCGCAACGCGGAATTT
1 CAAATTCGCAACGC-G-ATTT
*
3310558 CAAATTCGCAACTG-AATTT
1 CAAATTCGCAAC-GCGATTT
3310577 CAAATTCGCAAC
1 CAAATTCGCAAC
3310589 AGGTTTTTGT
Statistics
Matches: 122, Mismatches: 20, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
18 1 0.01
19 33 0.27
20 59 0.48
21 28 0.23
22 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (19 bp):
CAAATTCGCAACGCGATTT
Found at i:3310539 original size:19 final size:20
Alignment explanation
Indices: 3310498--3310589 Score: 89
Period size: 19 Copynumber: 4.7 Consensus size: 20
3310488 TTGCGATTTC
* *
3310498 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACACGAAAGT
3310518 CAAATTCGCAACAC-AAAGT
1 CAAATTCGCAACACGAAAGT
* **
3310537 CAAATTCGCAACGCGGAATTT
1 CAAATTCGCAACAC-GAAAGT
* **
3310558 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACACGAAAGT
3310577 CAAATTCGCAACA
1 CAAATTCGCAACA
3310590 GGTTTTTGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 35 0.56
20 13 0.21
21 15 0.24
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACACGAAAGT
Found at i:3310546 original size:39 final size:40
Alignment explanation
Indices: 3310498--3310588 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
3310488 TTGCGATTTC
3310498 CAAATTCGCAACGC-G-ATAGTCAAATTCGCAACACAAAGT
1 CAAATTCGCAACGCGGAAT-GTCAAATTCGCAACACAAAGT
* ** **
3310537 CAAATTCGCAACGCGGAATTTCAAATTCGCAACTGAATTT
1 CAAATTCGCAACGCGGAATGTCAAATTCGCAACACAAAGT
3310577 CAAATTCGCAAC
1 CAAATTCGCAAC
3310589 AGGTTTTTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 14 0.31
40 29 0.64
41 2 0.04
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.22
Consensus pattern (40 bp):
CAAATTCGCAACGCGGAATGTCAAATTCGCAACACAAAGT
Found at i:3311355 original size:12 final size:12
Alignment explanation
Indices: 3311334--3311367 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3311324 ACTACATTTC
*
3311334 CAATACCAAACA
1 CAATATCAAACA
3311346 CAATATCAAACA
1 CAATATCAAACA
*
3311358 CAATCTCAAA
1 CAATATCAAA
3311368 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:3313823 original size:18 final size:18
Alignment explanation
Indices: 3313800--3313840 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
3313790 AAGCAAAAGG
*
3313800 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
3313818 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
3313836 CAATC
1 AAATC
3313841 GGCTTCACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:3314147 original size:20 final size:20
Alignment explanation
Indices: 3314122--3314194 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 20
3314112 TGTTGCGATC
3314122 AACGCGAAAGTCAAATTCGT
1 AACGCGAAAGTCAAATTCGT
*
3314142 AACGCGAAA-T--AA-GCGT
1 AACGCGAAAGTCAAATTCGT
* * *
3314158 --TGCGATAGTCAAATTCGC
1 AACGCGAAAGTCAAATTCGT
3314176 AACGCGAAAGTCAAATTCG
1 AACGCGAAAGTCAAATTCG
3314195 CAAACCGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
14 5 0.12
15 1 0.03
16 3 0.08
17 4 0.10
18 2 0.05
19 1 0.03
20 24 0.60
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (20 bp):
AACGCGAAAGTCAAATTCGT
Found at i:3314204 original size:20 final size:20
Alignment explanation
Indices: 3314159--3314197 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3314149 AATAAGCGTT
*
3314159 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
3314179 GCGAAAGTCAAATTCGCAA
1 GCGAAAGTCAAATTCGCAA
3314198 ACCGAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:3314235 original size:20 final size:20
Alignment explanation
Indices: 3314210--3314260 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3314200 CGAAAATCGT
* *
3314210 GTTGCGAATTTGGCTTTCGC
1 GTTGCGAATTTGACGTTCGC
3314230 GTTGCGAATTTGACGTTCGC
1 GTTGCGAATTTGACGTTCGC
* *
3314250 ATTGTGAATTT
1 GTTGCGAATTT
3314261 AACTTTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (20 bp):
GTTGCGAATTTGACGTTCGC
Found at i:3315127 original size:45 final size:39
Alignment explanation
Indices: 3315041--3315127 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
3315031 TTCGATGCTC
3315041 ATCAAAATCCAAAGCTCATATGGTGCAAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCAAAGCAAAAGGAA
* *
3315080 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCAAAGCAAAAGGAA
*
3315119 AACAAAATC
1 ATCAAAATC
3315128 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.49, C:0.20, G:0.15, T:0.16
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCAAAGCAAAAGGAA
Found at i:3315328 original size:20 final size:20
Alignment explanation
Indices: 3315303--3315345 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3315293 ATGTTGCGAT
*
3315303 CAACGCGAAAGTCAAATTCG
1 CAACGCAAAAGTCAAATTCG
*
3315323 CAACGCAAAAGTTAAATTCG
1 CAACGCAAAAGTCAAATTCG
3315343 CAA
1 CAA
3315346 ACTGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (20 bp):
CAACGCAAAAGTCAAATTCG
Found at i:3315384 original size:20 final size:20
Alignment explanation
Indices: 3315354--3315463 Score: 97
Period size: 20 Copynumber: 5.8 Consensus size: 20
3315344 AAACTGAAAA
*
3315354 TCGCATTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
* *
3315374 TCGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTT
** *
3315394 TCGC--AACG--CTT-A-TT
1 TCGCGTTGCGAATTTGACTT
*
3315408 TTGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
* *
3315428 TCGCATTGCGAATTTAACTT
1 TCGCGTTGCGAATTTGACTT
3315448 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
3315464 TACCTTCAAC
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 4 0.06
15 1 0.01
16 4 0.06
18 4 0.06
19 1 0.01
20 53 0.79
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTT
Found at i:3315659 original size:60 final size:62
Alignment explanation
Indices: 3315522--3315660 Score: 183
Period size: 61 Copynumber: 2.2 Consensus size: 62
3315512 TTTTAGAAAC
*
3315522 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAAATTA
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAATAAATCTTATTTACACATCAAATTA
* * * *
3315587 AACAAATCAACTTTTACAAATTAATT-AATCAAAAAATAAATCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAATAAATCTTATTTACACATCAAATTA
*
3315647 AACAAATAAACTTT
1 AACAAATCAACTTT
3315661 CAATGTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
60 18 0.26
61 25 0.37
65 25 0.37
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.32
Consensus pattern (62 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAATAAATCTTATTTACACATCAAATTA
Found at i:3317075 original size:21 final size:21
Alignment explanation
Indices: 3317035--3317133 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
3317025 ACGGGCAGAA
* *
3317035 CCTCTTGAACAATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
3317056 CCTCTTGAACGGTG-GAAGGGG
1 CCTCTTGAACGATGAG-AGGGG
* *
3317077 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
*
3317098 CCTCTTGAACGAT-AGGAGGTG
1 CCTCTTGAACGATGA-GAGGGG
* *
3317119 CCTCTTAAATGATGA
1 CCTCTTGAACGATGA
3317134 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
20 2 0.03
21 56 0.92
22 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:3317131 original size:42 final size:42
Alignment explanation
Indices: 3317046--3317133 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
3317036 CTCTTGAACA
* * **
3317046 ATGACAGGGGCCTCTTGAACGGTGGAAGGGGCTTCTTCGATG
1 ATGACAGGGGCCTCTTGAACGATGGAAGGGGCCTCTTAAATG
* *
3317088 ATGAGAGGGGCCTCTTGAACGATAGG-AGGTGCCTCTTAAATG
1 ATGACAGGGGCCTCTTGAACGAT-GGAAGGGGCCTCTTAAATG
3317130 ATGA
1 ATGA
3317134 TAGGTGCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (42 bp):
ATGACAGGGGCCTCTTGAACGATGGAAGGGGCCTCTTAAATG
Found at i:3319311 original size:20 final size:20
Alignment explanation
Indices: 3319288--3319332 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
3319278 AATTTGCAAT
3319288 GCGAAAATGAAAATCACAAC
1 GCGAAAATGAAAATCACAAC
*
3319308 GCGAAAATGAAAATCGCAAC
1 GCGAAAATGAAAATCACAAC
*
3319328 ACGAA
1 GCGAA
3319333 TCTAAAATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.53, C:0.20, G:0.18, T:0.09
Consensus pattern (20 bp):
GCGAAAATGAAAATCACAAC
Found at i:3319845 original size:20 final size:20
Alignment explanation
Indices: 3319820--3320064 Score: 227
Period size: 20 Copynumber: 12.2 Consensus size: 20
3319810 GCATAAAAAC
3319820 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
3319840 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
3319860 ATTTGAC-TTCTGTGTTGCG-
1 ATTTGACTTTC-GCGTTGCGA
*
3319879 ATTT-ACAAATTCGCGTTGCGA
1 ATTTGAC--TTTCGCGTTGCGA
* *
3319900 ATTTGACTTTTGTGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
3319920 ATTTGACTATCGTGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
3319940 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
**
3319960 ATTTGACTACCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
3319980 ATTTGACTATCACGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
3320000 ATTTGACTTAT-GTGTTGCG-
1 ATTTGACTT-TCGCGTTGCGA
*
3320019 ATTT-ACAGATTCGCGTTGCG-
1 ATTTGAC--TTTCGCGTTGCGA
*
3320039 ATTT-ACAGATTCGCGTTGCGA
1 ATTTGAC--TTTCGCGTTGCGA
3320060 ATTTG
1 ATTTG
3320065 GAAAATCGCA
Statistics
Matches: 195, Mismatches: 18, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
18 4 0.02
19 11 0.06
20 166 0.85
21 12 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:3320017 original size:60 final size:61
Alignment explanation
Indices: 3319820--3320019 Score: 259
Period size: 60 Copynumber: 3.3 Consensus size: 61
3319810 GCATAAAAAC
3319820 ATTTGACTT-TCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGTGTTGCG-
1 ATTTGACTTATCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATC-GTGTTGCGA
** * * *
3319879 ATTT-ACAAATTCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGTGTTGCGA
1 ATTTGACTTA-TCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGTGTTGCGA
* **
3319940 ATTTGAC-TATCGCGTTGCGAATTTGACTACCGCGTTGCGAATTTGACTATCACGTTGCGA
1 ATTTGACTTATCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGTGTTGCGA
*
3320000 ATTTGACTTAT-GTGTTGCGA
1 ATTTGACTTATCGCGTTGCGA
3320020 TTTACAGATT
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
58 2 0.02
59 4 0.03
60 104 0.85
61 10 0.08
62 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (61 bp):
ATTTGACTTATCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGTGTTGCGA
Found at i:3326990 original size:65 final size:65
Alignment explanation
Indices: 3326858--3327017 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
3326848 TGCACTAAGA
* *
3326858 GTGCATCGATGCATGAAACACATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATACATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTT
* * * * *
3326922 GTGCATTGATGCATCAAATGCATTCGATGTTTTCATAAAT-TCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATACATTCGATGTTTTCA-AAATAGCCAGAGTGCATCGATGCATGGCT
3326985 AT
65 -T
*
3326987 GTGCATCGATGCATAAAATACATTTGATGTT
1 GTGCATCGATGCATAAAATACATTCGATGTT
3327018 CAATTTATTC
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.31
65 53 0.64
66 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATACATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTT
Found at i:3327786 original size:52 final size:52
Alignment explanation
Indices: 3327721--3327824 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
3327711 ATTTTTTTGG
* *
3327721 CATTCAAATCACACTGGGGGACATTTCTTATTACTCAATTCATG-TTTCACTT
1 CATTCAAAGCACACTGAGGGACATTTCTTATTACTCAATTCATGCTTT-ACTT
* *
3327773 CATTCAAAGCACACTGAGGGACATTTCTTCTTACTCATTTCATGCTTTACTT
1 CATTCAAAGCACACTGAGGGACATTTCTTATTACTCAATTCATGCTTTACTT
3327825 TTTCCCTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 44 0.94
53 3 0.06
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (52 bp):
CATTCAAAGCACACTGAGGGACATTTCTTATTACTCAATTCATGCTTTACTT
Found at i:3333112 original size:51 final size:51
Alignment explanation
Indices: 3333048--3333162 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
3333038 AGGACCATAT
* * *
3333048 TTATTATTTTATTAGGAATTAAGATAGAGT-TAAAACATTATCTTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGAAAAAATCT-AAACATTATCTTTAGTTTA
* * *
3333099 TTATTATTTTATTAGGAATTAGGAAAAAATCTAAATATTGTCTTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGAAAAAATCTAAACATTATCTTTAGTTTA
3333150 TTATTATTTTATT
1 TTATTATTTTATT
3333163 CAGTAGTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (51 bp):
TTATTATTTTATTAGGAATTAAGAAAAAATCTAAACATTATCTTTAGTTTA
Found at i:3335212 original size:16 final size:16
Alignment explanation
Indices: 3335179--3335210 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3335169 AATCAACCAA
3335179 ATTTATTAAATATTAT
1 ATTTATTAAATATTAT
3335195 ATTTATT--ATATTAT
1 ATTTATTAAATATTAT
3335209 AT
1 AT
3335211 ATATATAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.56
16 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATTAAATATTAT
Found at i:3336602 original size:7 final size:7
Alignment explanation
Indices: 3336586--3336628 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
3336576 CAGCCAAAAT
*
3336586 TATTAAA
1 TATTATA
3336593 TATTATA
1 TATTATA
3336600 TA-TATTA
1 TATTA-TA
3336607 TATTATA
1 TATTATA
3336614 TATATATA
1 TAT-TATA
3336622 TATTATA
1 TATTATA
3336629 AACTATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 2 0.06
7 21 0.66
8 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TATTATA
Found at i:3336606 original size:9 final size:9
Alignment explanation
Indices: 3336592--3336628 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
3336582 AAATTATTAA
3336592 ATATTATAT
1 ATATTATAT
3336601 ATATTATATT
1 ATATTATA-T
3336611 ATATATATAT
1 ATAT-TATAT
3336621 ATATTATA
1 ATATTATA
3336629 AACTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 12 0.46
10 10 0.38
11 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATATTATAT
Found at i:3337284 original size:19 final size:19
Alignment explanation
Indices: 3337262--3337301 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3337252 TAATAAACTA
3337262 ATGATAATGCTTTAAATCT
1 ATGATAATGCTTTAAATCT
3337281 ATGATAATGCTTTAAATCT
1 ATGATAATGCTTTAAATCT
3337300 AT
1 AT
3337302 CTTAATTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (19 bp):
ATGATAATGCTTTAAATCT
Found at i:3337307 original size:19 final size:19
Alignment explanation
Indices: 3337265--3337307 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
3337255 TAAACTAATG
*
3337265 ATAATGCTTTAAATCTATG
1 ATAATGCTTTAAATCTATC
3337284 ATAATGCTTTAAATCTATC
1 ATAATGCTTTAAATCTATC
*
3337303 TTAAT
1 ATAAT
3337308 TCCTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (19 bp):
ATAATGCTTTAAATCTATC
Found at i:3341072 original size:30 final size:29
Alignment explanation
Indices: 3341022--3341080 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
3341012 TATAGAAAAA
* *
3341022 TTTAGGGACTAAAAGGGTAATTTTCTAAAG
1 TTTAAGGACCAAAAGGGTAA-TTTCTAAAG
*
3341052 TTTAAGGACCAAAAGTGTAATTTCTAAAG
1 TTTAAGGACCAAAAGGGTAATTTCTAAAG
3341081 GTTAGGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (29 bp):
TTTAAGGACCAAAAGGGTAATTTCTAAAG
Found at i:3355704 original size:3 final size:3
Alignment explanation
Indices: 3355683--3355766 Score: 89
Period size: 3 Copynumber: 27.7 Consensus size: 3
3355673 TTTTTCATTC
* * * * *
3355683 TAT TAT TTT TAT TAA TAT TAT TAT TAT TAA TAA TA- AAT ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
3355728 TAT TAT TAT TAT TAT TCT ATAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
3355767 AATTAAATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.01
3 64 0.93
4 4 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Done.