Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 71 of 153
Found at i:22601167 original size:6 final size:6
Alignment explanation
Indices: 22601158--22601202 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
22601148 AACCTAAACT
22601158 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
22601203 CCCAACCCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:22603347 original size:44 final size:44
Alignment explanation
Indices: 22603284--22603389 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 44
22603274 AATGAAAGTG
22603284 CTCACACGAGCTATGAATCAGACATTAACAAGTACACGATGCTA
1 CTCACACGAGCTATGAATCAGACATTAACAAGTACACGATGCTA
* *
22603328 CTCACACGAGCTATGAATCAGACATTAACCATTACACGATGCTA
1 CTCACACGAGCTATGAATCAGACATTAACAAGTACACGATGCTA
* * *
22603372 CTCATAAGAGCTGTGAAT
1 CTCACACGAGCTATGAAT
22603390 AATCCGCAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (44 bp):
CTCACACGAGCTATGAATCAGACATTAACAAGTACACGATGCTA
Found at i:22604045 original size:122 final size:122
Alignment explanation
Indices: 22603828--22604068 Score: 340
Period size: 122 Copynumber: 2.0 Consensus size: 122
22603818 GTTATATCGA
* * * *
22603828 TACCTTGAGGACTTCTATCGAAACAAGTCAAAAAAGTAGCCAAAGTTCAGCCTCTCCTGTACTTT
1 TACCTTGAGGACTTCTACCGAAACAAGTCAAAAAAGTAGCCAAAGTCCAGCCTCTCCTGCACTTC
* * * **
22603893 TACCGATACTTTGTTGGATTCTATCGATACCAGTTGAAACCA-CTAGAGTTCTACCGC
66 TACCAATACTCTGATGGATTCTATCGATACCAAATGAAACCATC-AGAGTTCTACCGC
* *
22603950 TACCTTGAGGACTTCTACCGAAACAAGTCAAAACAGTAGCCAAAGTCCAGCCTGTCCTGCACTTC
1 TACCTTGAGGACTTCTACCGAAACAAGTCAAAAAAGTAGCCAAAGTCCAGCCTCTCCTGCACTTC
* * *
22604015 TACTAATACTCTGATGGGTTCTATTGATACCAAATGAAACCATCAGAGTTCTAC
66 TACCAATACTCTGATGGATTCTATCGATACCAAATGAAACCATCAGAGTTCTAC
22604069 TGATAGAACG
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
122 103 0.99
123 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (122 bp):
TACCTTGAGGACTTCTACCGAAACAAGTCAAAAAAGTAGCCAAAGTCCAGCCTCTCCTGCACTTC
TACCAATACTCTGATGGATTCTATCGATACCAAATGAAACCATCAGAGTTCTACCGC
Found at i:22610483 original size:19 final size:19
Alignment explanation
Indices: 22610459--22610496 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22610449 ACATGTCTAC
22610459 CTAACCTCTAATGTCCATG
1 CTAACCTCTAATGTCCATG
*
22610478 CTAACCTTTAATGTCCATG
1 CTAACCTCTAATGTCCATG
22610497 GCCTAACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (19 bp):
CTAACCTCTAATGTCCATG
Found at i:22612783 original size:21 final size:21
Alignment explanation
Indices: 22612740--22612783 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
22612730 AAAAGCAAAT
* * * *
22612740 AATAATAAATAATAAAGAGAA
1 AATAAAAAATAACAAAAACAA
22612761 AATAAAAAATAACAAAAACAA
1 AATAAAAAATAACAAAAACAA
22612782 AA
1 AA
22612784 CTTATCAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (21 bp):
AATAAAAAATAACAAAAACAA
Found at i:22613791 original size:30 final size:30
Alignment explanation
Indices: 22613757--22613813 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22613747 TTCGAGCCTT
*
22613757 GGGGCAAAAAT-GTAATTATGTAAAAGTATA
1 GGGGC-AAAATCGTAATTATGAAAAAGTATA
*
22613787 GGGGCAAAATCGTAATTTTGAAAAAGT
1 GGGGCAAAATCGTAATTATGAAAAAGT
22613814 TAGAGTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.26
Consensus pattern (30 bp):
GGGGCAAAATCGTAATTATGAAAAAGTATA
Found at i:22614294 original size:49 final size:50
Alignment explanation
Indices: 22614153--22614344 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
22614143 ATTTGGGTAA
22614153 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
22614203 AGAGGTCCCATGTAAGACCATGTCTGGGAAATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
22614253 AGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCGTGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
22614302 AGAACATCCCATGTAAGACCATGTCTGAGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
22614345 TGTTATGATC
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
49 37 0.29
50 62 0.49
51 28 0.22
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:22617447 original size:3 final size:3
Alignment explanation
Indices: 22617439--22617474 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22617429 TATTTAAAAT
22617439 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22617475 GGGTAGACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22624326 original size:34 final size:34
Alignment explanation
Indices: 22624273--22624428 Score: 224
Period size: 34 Copynumber: 4.6 Consensus size: 34
22624263 TTATAGTGTT
*
22624273 ATTCAGTGTGTTGGTTGGTTTGGCTCATACGAGC
1 ATTCGGTGTGTTGGTTGGTTTGGCTCATACGAGC
*
22624307 ATTCGGTGTGTTGGCTGGTTTGGCTCATACGAGC
1 ATTCGGTGTGTTGGTTGGTTTGGCTCATACGAGC
*
22624341 ATTCGGTGTGTTGGTTGGTTTGGCTTATACGAGC
1 ATTCGGTGTGTTGGTTGGTTTGGCTCATACGAGC
* * *
22624375 ATTTGATGTATTGGTTGGTTTGGCTCATACGAG-
1 ATTCGGTGTGTTGGTTGGTTTGGCTCATACGAGC
* *
22624408 TTTCTGGTGTGTTGGATGGTT
1 ATTC-GGTGTGTTGGTTGGTT
22624429 AACCGTATAC
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
33 2 0.02
34 106 0.98
ACGTcount: A:0.13, C:0.12, G:0.34, T:0.41
Consensus pattern (34 bp):
ATTCGGTGTGTTGGTTGGTTTGGCTCATACGAGC
Found at i:22629199 original size:43 final size:42
Alignment explanation
Indices: 22629125--22629232 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 42
22629115 TAGCCCAGCT
* *
22629125 ATGGTCTTACACGAATCATATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCACATAGCGATGCCAATGTCCCAGAC
*
22629167 ATGGTCTTACTCGAAATCACATAGCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACG-AATCACATAGCGATGCCAATGTCCCAGAC
*
22629210 ATGGTATTACACGTAATCACATA
1 ATGGTCTTACACG-AATCACATA
22629233 TATCGATGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 12 0.20
43 47 0.80
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGGTCTTACACGAATCACATAGCGATGCCAATGTCCCAGAC
Found at i:22629302 original size:88 final size:84
Alignment explanation
Indices: 22629114--22629302 Score: 179
Period size: 88 Copynumber: 2.2 Consensus size: 84
22629104 ATTGATGCTA
* * ** *
22629114 ATAGCCCAGCTATGGTCTTACACGAATCATATATCGATGCCAATGTCCCAGACATGGTCTTACTC
1 ATAGCCCAGCTATGGTATTACACGAATCATATATCGATGCCAATATCCCAGACAAAGTCTTACAC
22629179 GAAATCACATAGCGATGCC
66 GAAATCACATAGCGATGCC
*
22629198 A-ATGTCCCAGAC-ATGGTATTACACGTAATCACATATATCGATGCC-ATATCCCAGATAAAGTC
1 ATA-G-CCCAG-CTATGGTATTACACG-AAT--CATATATCGATGCCAATATCCCAGACAAAGTC
* ** *
22629260 TTACAC-AAAGTCTCATATATTGATTCC
60 TTACACGAAA---TCACATAGCGATGCC
22629287 ATAGCCCAGCTATGGT
1 ATAGCCCAGCTATGGT
22629303 CTATACGAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
83 1 0.01
84 2 0.02
85 17 0.20
86 7 0.08
87 19 0.23
88 24 0.29
89 13 0.15
90 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (84 bp):
ATAGCCCAGCTATGGTATTACACGAATCATATATCGATGCCAATATCCCAGACAAAGTCTTACAC
GAAATCACATAGCGATGCC
Found at i:22631788 original size:22 final size:21
Alignment explanation
Indices: 22631760--22631830 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
22631750 GCCTACTAGG
22631760 CACTAAGCCTGAATAACATCGA
1 CACTAAGCCTGAATAACA-CGA
* *
22631782 CACTAAGCTTG-CT-A-A-G-
1 CACTAAGCCTGAATAACACGA
*
22631798 CACTAAGCCTGAATAACACCAA
1 CACTAAGCCTGAATAACA-CGA
22631820 CACTAAGCCTG
1 CACTAAGCCTG
22631831 CTAGGCACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
16 10 0.26
17 2 0.05
18 1 0.03
19 2 0.05
20 1 0.03
21 1 0.03
22 21 0.55
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.18
Consensus pattern (21 bp):
CACTAAGCCTGAATAACACGA
Found at i:22631854 original size:38 final size:38
Alignment explanation
Indices: 22631711--22631855 Score: 164
Period size: 38 Copynumber: 3.8 Consensus size: 38
22631701 ACCGGCTCAC
* * * * * * *
22631711 AGCCTACTAGGCATTAAGTCTGATTAACATCAGCATTG
1 AGCCTACTAGGCACTAAGCCTGAATAACACCAACACTA
* *
22631749 AGCCTACTAGGCACTAAGCCTGAATAACATCGACACTA
1 AGCCTACTAGGCACTAAGCCTGAATAACACCAACACTA
* * *
22631787 AGCTTGCTAAGCACTAAGCCTGAATAACACCAACACTA
1 AGCCTACTAGGCACTAAGCCTGAATAACACCAACACTA
* *
22631825 AGCCTGCTAGGCACTAAGTCTGAATAACACC
1 AGCCTACTAGGCACTAAGCCTGAATAACACC
22631856 TCATTTGAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 92 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (38 bp):
AGCCTACTAGGCACTAAGCCTGAATAACACCAACACTA
Found at i:22636782 original size:23 final size:23
Alignment explanation
Indices: 22636753--22636799 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
22636743 TTTACTTCAT
**
22636753 AAAAGTTCAAAAAATTTTAAAAA
1 AAAAGTTCAAAAAAGGTTAAAAA
*
22636776 AAAAGTTCATAAAAGGTTAAAAA
1 AAAAGTTCAAAAAAGGTTAAAAA
22636799 A
1 A
22636800 GCTATTCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAGTTCAAAAAAGGTTAAAAA
Found at i:22637395 original size:16 final size:16
Alignment explanation
Indices: 22637376--22637416 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
22637366 AATCATCTAT
22637376 ATATTATTTCATTTTC
1 ATATTATTTCATTTTC
*
22637392 ATATTATATTTATTTTC
1 ATATTAT-TTCATTTTC
22637409 -TATTATTT
1 ATATTATTT
22637417 TGTTCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 8 0.35
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTATTTCATTTTC
Found at i:22647958 original size:19 final size:19
Alignment explanation
Indices: 22647934--22647971 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22647924 GTTACAATAG
22647934 CTTCTTTATATGTGATAAA
1 CTTCTTTATATGTGATAAA
22647953 CTTCTTTATATGTGATAAA
1 CTTCTTTATATGTGATAAA
22647972 TATATGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
CTTCTTTATATGTGATAAA
Found at i:22648301 original size:15 final size:15
Alignment explanation
Indices: 22648281--22648321 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
22648271 TTGAATGACA
22648281 AAAGCAAAACAAAGC
1 AAAGCAAAACAAAGC
* *
22648296 AAAGCAAAGCAAAGG
1 AAAGCAAAACAAAGC
*
22648311 AAAGGAAAACA
1 AAAGCAAAACA
22648322 GTGATCTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.66, C:0.15, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAGCAAAACAAAGC
Found at i:22648318 original size:5 final size:5
Alignment explanation
Indices: 22648281--22648314 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
22648271 TTGAATGACA
* *
22648281 AAAGC AAAAC AAAGC AAAGC AAAGC AAAGG AAAG
1 AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAAG
22648315 GAAAACAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.65, C:0.15, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAGC
Found at i:22650101 original size:24 final size:24
Alignment explanation
Indices: 22650044--22650123 Score: 90
Period size: 24 Copynumber: 3.4 Consensus size: 24
22650034 ACTGTTCAGG
* ** *
22650044 AACACTAAACAAACATATTTGT-G
1 AACACTAAACAAACATGTTCCTAA
*
22650067 AACACTCAACAAACATGTTCCTAA
1 AACACTAAACAAACATGTTCCTAA
*
22650091 AACACTAAACAAACATGTCCCTAA
1 AACACTAAACAAACATGTTCCTAA
*
22650115 AATACTAAA
1 AACACTAAA
22650124 TGAATCGTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 18 0.38
24 30 0.62
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (24 bp):
AACACTAAACAAACATGTTCCTAA
Found at i:22653460 original size:17 final size:18
Alignment explanation
Indices: 22653430--22653463 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22653420 ATTTAAATTG
22653430 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
22653448 CGGTCGC-GTCGCGTTT
1 CGGTCGCGGTCGCGTTT
22653464 GTCACGGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.00, C:0.29, G:0.38, T:0.32
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:22655265 original size:14 final size:14
Alignment explanation
Indices: 22655227--22655269 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
22655217 TAAAATGTAC
22655227 AATATAATTAAA-T
1 AATATAATTAAATT
22655240 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
22655255 AA-ATAATTTAATT
1 AATATAATTAAATT
22655268 AA
1 AA
22655270 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:22657749 original size:3 final size:3
Alignment explanation
Indices: 22657741--22657783 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
22657731 TAAAACAATT
*
22657741 TAA TAA TAA TAA TAA TAA TGGA -AA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T
22657784 GATGATGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 34 0.94
4 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22660563 original size:21 final size:21
Alignment explanation
Indices: 22660522--22660588 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
22660512 TACATAATAT
*
22660522 TATTTATAAAAT-TAATCTTATA
1 TATTT-TAAAATATAA-ATTATA
22660544 TATTTTAAAATATAAATTAT-
1 TATTTTAAAATATAAATTATA
* *
22660564 TATTTCAATATATTAAATTA-A
1 TATTTTAAAATA-TAAATTATA
22660585 TATT
1 TATT
22660589 ATATTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 10 0.26
21 21 0.54
22 8 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTTAAAATATAAATTATA
Found at i:22661749 original size:15 final size:15
Alignment explanation
Indices: 22661709--22661751 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
22661699 ATTGGGTCTA
*
22661709 TTTT-TTTTTAATTC
1 TTTTATTTTTATTTC
*
22661723 CTTTATTCTTTATTTC
1 TTTTATT-TTTATTTC
22661739 TTTTATTTTTATT
1 TTTTATTTTTATT
22661752 ATTCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 13 0.54
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTTTTATTTC
Found at i:22662808 original size:24 final size:24
Alignment explanation
Indices: 22662771--22662816 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
22662761 TGCCACACAT
22662771 GCTCGTGTGCCAGGCCGTGTGATA
1 GCTCGTGTGCCAGGCCGTGTGATA
22662795 GCTCGTGT-CTCAGGCCGTGTGA
1 GCTCGTGTGC-CAGGCCGTGTGA
22662817 ACCCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (24 bp):
GCTCGTGTGCCAGGCCGTGTGATA
Found at i:22664002 original size:16 final size:16
Alignment explanation
Indices: 22663981--22664012 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22663971 TCATCATAGC
22663981 ATTGATACATTTATAT
1 ATTGATACATTTATAT
*
22663997 ATTGATTCATTTATAT
1 ATTGATACATTTATAT
22664013 TAAAACAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
ATTGATACATTTATAT
Found at i:22671062 original size:5 final size:5
Alignment explanation
Indices: 22671052--22671083 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
22671042 ATAATTTGAT
*
22671052 AATTA AATTA AATTA AATTA AATTA AACTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AA
22671084 ATGTTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (5 bp):
AATTA
Found at i:22673219 original size:15 final size:16
Alignment explanation
Indices: 22673199--22673228 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22673189 TGGTGCCTTG
22673199 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
22673214 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
22673229 AACATGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:22676246 original size:10 final size:10
Alignment explanation
Indices: 22676231--22676305 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 10
22676221 TTTTTAGCAT
22676231 AAAATTTATA
1 AAAATTTATA
*
22676241 AAAA-TTAGA
1 AAAATTTATA
*
22676250 GAAA-TTATA
1 AAAATTTATA
*
22676259 GAAATTTATA
1 AAAATTTATA
* *
22676269 AAACTATA-A
1 AAAATTTATA
22676278 AAAATTTATA
1 AAAATTTATA
*
22676288 GAAAATTATATT
1 -AAAATT-TATA
22676300 AAAATT
1 AAAATT
22676306 GTTAAAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
9 22 0.42
10 15 0.29
11 12 0.23
12 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (10 bp):
AAAATTTATA
Found at i:22676357 original size:24 final size:24
Alignment explanation
Indices: 22676326--22676373 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
22676316 TAAATTAATA
*
22676326 AAAATTATTGAAATCTTACAAAAT
1 AAAATTATTAAAATCTTACAAAAT
* *
22676350 AAAATTATTAAAATTTTATAAAAT
1 AAAATTATTAAAATCTTACAAAAT
22676374 GATAAGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAATTATTAAAATCTTACAAAAT
Found at i:22676489 original size:20 final size:19
Alignment explanation
Indices: 22676417--22676492 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 19
22676407 ATTCTATATA
22676417 TTATAAATTTCTAATAATTT
1 TTATAAATTT-TAATAATTT
22676437 TTA-AAATTTT-A-AATTT
1 TTATAAATTTTAATAATTT
* ** *
22676453 TTCTATAAGGTTCATAATTT
1 TTATA-AATTTTAATAATTT
22676473 TTATAATATTTTAATAATTT
1 TTATAA-ATTTTAATAATTT
22676493 CTAATAGTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
16 7 0.16
17 2 0.05
18 5 0.11
19 8 0.18
20 22 0.50
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (19 bp):
TTATAAATTTTAATAATTT
Found at i:22684438 original size:89 final size:89
Alignment explanation
Indices: 22684312--22685729 Score: 699
Period size: 89 Copynumber: 15.3 Consensus size: 89
22684302 TTCAATCTAC
* *** * *
22684312 TCCACTGCAACTTCAGAGAGATAAGGCATGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* * *
22684377 TAAGATTCACTACCTTTAATTTGC
66 TAAGATTCACTAGCTTTAATCTGT
* * * * * *
22684401 TCCACTGCCACTTTAGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
22684466 TAAGATTTATAACACATAGCTTTAATATGT
66 TAAGA--T-T--CAC-TAGCTTTAATCTGT
** * *
22684496 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTGTAGCTTTAGCCTGTTCCACTACAACTTC
1 TCCACTGCAACTTCAGGGAGATAAG---A-T---TTGTAGCTTTAATCTGCTCCACTGCAACTTC
* * * ** * *
22684561 AGGGAAATAGGACTTGCTATAATAAATTTAATCCGA
59 AGGGAGATAAGA-TT-C---ACTAGCTTTAATCTGT
* * * * * * * *
22684597 CCCACTGCAACTTCA-GAAGTATAGGATTTGTTGCTTCAATCTACTCTATTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * **
22684661 ATAAGATTCACTACCTTCAATCTAC
65 ATAAGATTCACTAGCTTTAATCTGT
* * * * * *
22684686 TCCACTACCACTTTAGGGAGATAAGATTTGTAACTTCAAGCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* *
22684751 TAAGATTTATAACTCGTAGCTTTAATCTAT
66 TAAGA--T-T--CAC-TAGCTTTAATCTGT
* * * *
22684781 TCCACTGCAACTTTAAGGAGATAAGATTAGTAGCTTGTAACTTTAGTCTATTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTT-TAA-TCT-G-C---TCCACTGCAACTTC
* * *
22684846 AGGGAAAT-AGAACTTGCTATAGTAGATTTAAT-TCG-
59 AGGGAGATAAG-A-TT-C---ACTAGCTTTAATCT-GT
* * * * * * * * *
22684881 ACTCACTACAACTTTAGAGG-TATAGGATTTGTCGCTTCAATCTACTCTACTGCAACTTCAGGGA
1 TC-CACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGA
* * *
22684945 AATAAG-GTCTA-TAGCTTCAATCTGT
64 GATAAGATTC-ACTAGCTTTAATCTGT
* * * * * * *
22684970 TCCACTGCCACTTCAGGGAGATAAGATTTGTAACTTCAATATGCTCCACTGTAACTTTAGGGATA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
22685035 TAAGATTTATAACTCGTAGCTTTAATCTGT
66 TAAGA--T-T--CAC-TAGCTTTAATCTGT
* * * * * * * *
22685065 TCCACTACAACTTTAGGGAAATGAGATTTGCTATCTTCAATCTGCTTCATTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
22685130 ATAAGACTTGTAACTTGTAGCTTTAATCTGT
65 ATAAGA--T-TCAC---TAGCTTTAATCTGT
* * * * * * *
22685161 TCCACCGTAACTTTAAGGAAATACGATTTGTAGCTTTAA-CTTGCTCCACTGCAACTTCAGGAAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATC-TGCTCCACTGCAACTTCAGGGAG
** * * *
22685225 ATGAA-ATT-TGT-GAATTTAATTTTT
65 AT-AAGATTCACTAG-CTTTAATCTGT
* * * * ** * * *
22685249 TCCATTGCCACTTCAGGG-GCATAGAATTTGTGACTTGTAGCTTTAGTCTATTCCATTGTAGCTT
1 TCCACTGCAACTTCAGGGAG-AT--AA-----GATTTGTAGCTTTAATCTGCTCCACTGCAACTT
* * ** * * *
22685313 TAGGGAAATAAGATTTGC-ATCTTCAACCTGT
58 CAGGGAGATAAGATTCACTAGCTTTAATCTGT
* * * * * * *
22685344 TCCACTGCAGCTTCAGGGAGATAAGATTTATATCTTTAATTTGCTCTACTGCAACTTTAGAGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
** * * *
22685409 TAAGATTTGCTATCTTTAATATTT
66 TAAGATTCACTAGCTTTAATCTGT
* * * * *
22685433 TCCACTGCAACTTTAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
** * * *
22685498 TAAGATTTGCTATCTTCAATCTTT
66 TAAGATTCACTAGCTTTAATCTGT
* * * **
22685522 TCCACTGCAACTTCAAGGAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCATAGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
** * * *
22685587 TAAGATTTGCTATCTTCAATCTGC
66 TAAGATTCACTAGCTTTAATCTGT
* * * * * * **
22685611 TCCACTACAACTTCAGGGAGATAAGATTTGTATCTTTAGTCTACTCCACTGCCATTTCAATGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
** *
22685676 TGAA-ATT-TGT-GACTTTAATCTTT
66 T-AAGATTCACTAG-CTTTAATCTGT
* **
22685699 TCCACTGGAACTTCAAAGAGATAAGATTTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGT
22685730 CACGGTGACC
Statistics
Matches: 1030, Mismatches: 227, Indels: 145
0.73 0.16 0.10
Matches are distributed among these distances:
87 3 0.00
88 157 0.15
89 358 0.35
90 6 0.01
91 3 0.00
92 6 0.01
93 5 0.00
94 63 0.06
95 202 0.20
96 81 0.08
97 3 0.00
98 3 0.00
99 6 0.01
100 9 0.01
101 65 0.06
102 60 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTCACTAGCTTTAATCTGT
Found at i:22684470 original size:44 final size:44
Alignment explanation
Indices: 22684269--22685729 Score: 583
Period size: 44 Copynumber: 31.7 Consensus size: 44
22684259 TTAATCCGAC
* * * ** *
22684269 CCACTGCAACTTCAGAGG-TATAGGGTTTGTCGCTTCAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAACTTCAATCTGCT
* *** *
22684313 CCACTGCAACTTCAGAGAGATAAGGCATGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* ** * * *
22684357 CCACTGCAACTTCAGGGAAATAAGATTCACTACCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTCAATCTGCT
* * *
22684402 CCACTGCCACTTTAGGGAGATAAGATTTGTAACTTCAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * * *
22684446 CCACTGCAACTTCAGGGGGATAAGATTTATAACACATAGCTTTAATATGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-----A-A-CTTCAATCTGCT
* * ** *
22684497 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTGTAGCTTTAGCCTGTT
1 CCACTGCAACTTCAGGGAGATAAG---A-T---TTGTAACTTCAATCTGCT
* * * * * * *
22684548 CCACTACAACTTCAGGGAAATAGGACTTGCTATAATAAATTTAATCCGAC-
1 CCACTGCAACTTCAGGGAGATAAGA--T--T-T-GTAACTTCAATCTG-CT
* * ** *
22684598 CCACTGCAACTTCA-GAAGTATAGGATTTGTTGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAACTTCAATCTGCT
* * ** * *
22684642 CTATTGCAACTTCAGGGAGATAAGATTCACTACCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTCAATCTGCT
* * * *
22684687 CCACTACCACTTTAGGGAGATAAGATTTGTAACTTCAAGCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* **
22684731 CCACTGCAACTTCAGGGAGATAAGATTTATAACTCGTAGCTTTAATCTATT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACT--T--C---AATCTGCT
* * * * **
22684782 CCACTGCAACTTTAAGGAGATAAGATTAGTAGCTTGTAACTTTAGTCTATT
1 CCACTGCAACTTCAGGGAGATAAG---A-T---TTGTAACTTCAATCTGCT
* *
22684833 CCACTGCAACTTCAGGGAAAT-AGAACTTGCTATAGTAGA-TTTAAT-TCGACT
1 CCACTGCAACTTCAGGGAGATAAG-A--T--T-T-GTA-ACTTCAATCT-G-CT
* * * * ** *
22684884 -CACTACAACTTTAGAGG-TATAGGATTTGTCGCTTCAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAACTTCAATCTGCT
* * * * * * *
22684927 CTACTGCAACTTCAGGGAAATAAGGTCTATAGCTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* *
22684971 CCACTGCCACTTCAGGGAGATAAGATTTGTAACTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * * *
22685015 CCACTGTAACTTTAGGGATATAAGATTTATAACTCGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACT--T--C---AATCTGCT
* * * * *
22685066 CCACTACAACTTTAGGGAAATGAGATTTGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCT
* * * *
22685111 TCATTGCAACTTCAGGGAGATAAGACTTGTAACTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAAC-T-T--C---AATCTGCT
* * * * * * * *
22685162 CCACCGTAACTTTAAGGAAATACGATTTGTAGCTTTAA-CTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATC-TGCT
* * * **
22685206 CCACTGCAACTTCAGGAAGATGAA-ATTTGTGAA-TTTAATTTTTT
1 CCACTGCAACTTCAGGGAGAT-AAGATTTGT-AACTTCAATCTGCT
* * * * **
22685250 CCATTGCCACTTCAGGG-GCAT-AGAATTTGTGACTTGTAGCTTTAGTCTATT
1 CCACTGCAACTTCAGGGAG-ATAAG-ATTTGT-A-----A-CTTCAATCTGCT
* * * * * * * * *
22685301 CCATTGTAGCTTTAGGGAAATAAGATTTGCATCTTCAACCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * * *
22685345 CCACTGCAGCTTCAGGGAGATAAGATTTATATCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * * * * **
22685389 CTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTTAATATTTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCT
* * * * *
22685434 CCACTGCAACTTTAGGGAGATAAGATTTATAGCTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * **
22685478 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCT
* * * *
22685523 CCACTGCAACTTCAAGGAGATAAGATTTATAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* ** *
22685567 CTACTGCAACTTCATAGAGATAAGATTTGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCT
* * * * *
22685612 CCACTACAACTTCAGGGAGATAAGATTTGTATCTTTAGTCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * ** * * **
22685656 CCACTGCCATTTCAATGAGATGAA-ATTTGTGACTTTAATCTTTT
1 CCACTGCAACTTCAGGGAGAT-AAGATTTGTAACTTCAATCTGCT
* **
22685700 CCACTGGAACTTCAAAGAGATAAGATTTGT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT
22685730 CACGGTGACC
Statistics
Matches: 1073, Mismatches: 258, Indels: 172
0.71 0.17 0.11
Matches are distributed among these distances:
42 1 0.00
43 10 0.01
44 526 0.49
45 223 0.21
46 5 0.00
48 14 0.01
49 10 0.01
50 56 0.05
51 206 0.19
52 6 0.01
53 1 0.00
54 2 0.00
55 2 0.00
56 1 0.00
58 10 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
Found at i:22684537 original size:51 final size:51
Alignment explanation
Indices: 22684445--22684565 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 51
22684435 TTCAACCTGC
* *
22684445 TCCACTGCAACTTCAGGGGGATAAGATTTATAACACATAGCTTTAATATGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACACATAGCTTTAACATGT
* *** * *
22684496 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTGTAGCTTTAGCCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTA-TAACACATAGCTTTAACATGT
*
22684547 TCCACTACAACTTCAGGGA
1 TCCACTGCAACTTCAGGGA
22684566 AATAGGACTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
50 3 0.05
51 57 0.95
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTATAACACATAGCTTTAACATGT
Found at i:22684659 original size:285 final size:285
Alignment explanation
Indices: 22684313--22685092 Score: 1111
Period size: 285 Copynumber: 2.7 Consensus size: 285
22684303 TCAATCTACT
* *
22684313 CCACTGCAACTTCAGAGAG-ATAAGGCA--TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGA
1 CCACTGCAACTTCAGA-AGTAT-AGG-ATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGA
* *
22684375 AATAAGATTCACTACCTTTAATTTGCTCCACTGCCACTTTAGGGAGATAAGATTTGTAACTTCAA
63 AATAAGATTCACTACCTTCAATCTGCTCCACTGCCACTTTAGGGAGATAAGATTTGTAACTTCAA
* * * *
22684440 CCTGCTCCACTGCAACTTCAGGGGGATAAGATTTATAACACATAGCTTTAATATGTTCCACTGCA
128 CCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTCGTAGCTTTAATCTGTTCCACTGCA
* * *
22684505 ACTTCAGGGAGATAAGATTAGTAGCTTGTAGCTTTAGCCTGTTCCACTACAACTTCAGGGAAATA
193 ACTTTAGGGAGATAAGATTAGTAGCTTGTAACTTTAGCCTATTCCACTACAACTTCAGGGAAATA
*
22684570 GGACTTGCTATAATAAATTTAATCCGAC
258 GAACTTGCTATAATAAATTTAATCCGAC
* * *
22684598 CCACTGCAACTTCAGAAGTATAGGATTTGTTGCTTCAATCTACTCTATTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGAAGTATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAAT
* * *
22684663 AAGATTCACTACCTTCAATCTACTCCACTACCACTTTAGGGAGATAAGATTTGTAACTTCAAGCT
66 AAGATTCACTACCTTCAATCTGCTCCACTGCCACTTTAGGGAGATAAGATTTGTAACTTCAACCT
*
22684728 GCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTCGTAGCTTTAATCTATTCCACTGCAACT
131 GCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTCGTAGCTTTAATCTGTTCCACTGCAACT
* * *
22684793 TTAAGGAGATAAGATTAGTAGCTTGTAACTTTAGTCTATTCCACTGCAACTTCAGGGAAATAGAA
196 TTAGGGAGATAAGATTAGTAGCTTGTAACTTTAGCCTATTCCACTACAACTTCAGGGAAATAGAA
* * *
22684858 CTTGCTATAGTAGATTTAATTCGAC
261 CTTGCTATAATAAATTTAATCCGAC
* * * * *
22684883 TCACTACAACTTTAGAGGTATAGGATTTGTCGCTTCAATCTACTCTACTGCAACTTCAGGGAAAT
1 CCACTGCAACTTCAGAAGTATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAAT
* * * * **
22684948 AAG-GTCTA-TAGCTTCAATCTGTTCCACTGCCACTTCAGGGAGATAAGATTTGTAACTTCAATA
66 AAGATTC-ACTACCTTCAATCTGCTCCACTGCCACTTTAGGGAGATAAGATTTGTAACTTCAACC
* * * *
22685011 TGCTCCACTGTAACTTTAGGGATATAAGATTTATAACTCGTAGCTTTAATCTGTTCCACTACAAC
130 TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTCGTAGCTTTAATCTGTTCCACTGCAAC
* *
22685076 TTTAGGGAAATGAGATT
195 TTTAGGGAGATAAGATT
22685093 TGCTATCTTC
Statistics
Matches: 443, Mismatches: 48, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
283 1 0.00
284 129 0.29
285 313 0.71
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (285 bp):
CCACTGCAACTTCAGAAGTATAGGATTTGTAGCTTCAATCTACTCTACTGCAACTTCAGGGAAAT
AAGATTCACTACCTTCAATCTGCTCCACTGCCACTTTAGGGAGATAAGATTTGTAACTTCAACCT
GCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTCGTAGCTTTAATCTGTTCCACTGCAACT
TTAGGGAGATAAGATTAGTAGCTTGTAACTTTAGCCTATTCCACTACAACTTCAGGGAAATAGAA
CTTGCTATAATAAATTTAATCCGAC
Found at i:22684806 original size:51 final size:51
Alignment explanation
Indices: 22684730--22684846 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
22684720 TTCAAGCTGC
* *
22684730 TCCACTGCAACTTCAGGGAGATAAGATTTA-TAACTCGTAGCTTTAATCTAT
1 TCCACTGCAACTTCAAGGAGATAAGA-TTAGTAACTCGTAACTTTAATCTAT
* * * *
22684781 TCCACTGCAACTTTAAGGAGATAAGATTAGTAGCTTGTAACTTTAGTCTAT
1 TCCACTGCAACTTCAAGGAGATAAGATTAGTAACTCGTAACTTTAATCTAT
22684832 TCCACTGCAACTTCA
1 TCCACTGCAACTTCA
22684847 GGGAAATAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 3 0.05
51 55 0.95
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (51 bp):
TCCACTGCAACTTCAAGGAGATAAGATTAGTAACTCGTAACTTTAATCTAT
Found at i:22685417 original size:139 final size:138
Alignment explanation
Indices: 22685052--22685648 Score: 350
Period size: 139 Copynumber: 4.4 Consensus size: 138
22685042 TATAACTCGT
* * * * * * * * *
22685052 AGCTTTAATCTGTTCCACTACAACTTTAGGGAAATGAGATTTGCTATCTTCAATCTGCT-TCATT
1 AGCTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGATTT-ATATCTTTAATTTGCTCT-ATT
* *
22685116 GCAACTTCAGGGAGATAAGACTTGTAACTTGTAGCTTTAATCTGTTCCACCGTAACTTTAAGGAA
64 GCAACTTCA-GGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACCGTAACTTTAAGGAA
* *
22685181 ATACGATTTGT
128 ATAAGATTTGC
* * * * * * ** *
22685192 AGCTTTAACTTGCTCCACTGCAACTTCAGGAAGATGAA-ATTTGTGA-ATTTAATTTTTTCCATT
1 AGCTTCAACCTGTTCCACTGCAACTTCAGGGAGAT-AAGATTTAT-ATCTTTAATTTGCTCTATT
* * * * ** * *
22685255 GCCACTTCAGGGGCAT-AGAATTTGTGACTTGTAGCTTTAGTCTATTCCATTGTAGCTTTAGGGA
64 GCAACTTCAGGAG-ATAAG-ATTTGTAACTTGTAGCTTTAATCTATTCCACCGTAACTTTAAGGA
22685319 AATAAGATTTGC
127 AATAAGATTTGC
* * *
22685331 ATCTTCAACCTGTTCCACTGCAGCTTCAGGGAGATAAGATTTATATCTTTAATTTGCTCTACTGC
1 AGCTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGATTTATATCTTTAATTTGCTCTATTGC
* * * * * * * *
22685396 AACTTTAGAGAGATAAGATTTG---C---TATCTTTAATATTTTCCACTGCAACTTTAGGGAGAT
66 AACTTCAG-GAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACCGTAACTTTAAGGAAAT
**
22685455 AAGATTTAT
130 AAGATTTGC
* * ** * * * * * * *
22685464 AGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTT-TTCCACT
1 AGCTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGATTT-ATATCTTTAAT-TTGCTCTATT
** * * * *
22685528 GCAACTTCAAGGAGATAAGA-TT-T-A----TAGCTTTAATCTGCTCTACTGCAACTTCATA-GA
64 GCAACTTC-AGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACCGTAACTTTA-AGGA
*
22685585 GATAAGATTTGC
127 AATAAGATTTGC
* * * * *
22685597 TATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTATCTTTA
1 -AGCTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGATTTATATCTTTA
22685649 GTCTACTCCA
Statistics
Matches: 359, Mismatches: 82, Indels: 39
0.75 0.17 0.08
Matches are distributed among these distances:
133 113 0.31
134 66 0.18
135 4 0.01
136 1 0.00
138 8 0.02
139 129 0.36
140 37 0.10
141 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (138 bp):
AGCTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGATTTATATCTTTAATTTGCTCTATTGC
AACTTCAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACCGTAACTTTAAGGAAATA
AGATTTGC
Found at i:22694564 original size:19 final size:19
Alignment explanation
Indices: 22694540--22694581 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
22694530 ACAAAACGAA
22694540 ACAAGTTAGTACATTTCAT
1 ACAAGTTAGTACATTTCAT
*
22694559 ACAAGTTAGTACATTTTAT
1 ACAAGTTAGTACATTTCAT
22694578 ACAA
1 ACAA
22694582 AGCTAGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (19 bp):
ACAAGTTAGTACATTTCAT
Found at i:22696084 original size:46 final size:47
Alignment explanation
Indices: 22696031--22696122 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 47
22696021 TGTGAAGATA
*
22696031 ATAAAAGAAATAGTAAAAAACGAGAT-AAAAATATAATAATGAATAG
1 ATAAAAGAAATAGTAAAAAACAAGATAAAAAATATAATAATGAATAG
22696077 ATAAAAGAAATAGTAAAAAACAAGATAAAAAATATAATAATGAATA
1 ATAAAAGAAATAGTAAAAAACAAGATAAAAAATATAATAATGAATA
22696123 AGTAAAAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 25 0.57
47 19 0.43
ACGTcount: A:0.67, C:0.02, G:0.11, T:0.20
Consensus pattern (47 bp):
ATAAAAGAAATAGTAAAAAACAAGATAAAAAATATAATAATGAATAG
Found at i:22696192 original size:4 final size:4
Alignment explanation
Indices: 22696179--22696219 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
22696169 TATAAAAAGC
**
22696179 AAAT -AAT AAAT AAAT GGAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
22696220 TAGTAGTAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:22696300 original size:41 final size:41
Alignment explanation
Indices: 22696255--22696341 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
22696245 AAAATAATAC
*
22696255 ATAAACATTATAAAAAAGAGTAAAAGATAATAAATGGATAA
1 ATAAACATTATAAAAAAGAGTAAAAGATAAGAAATGGATAA
22696296 ATAAACATTATAAAAAAGAGTAAAAGATAAGAAATGGATAA
1 ATAAACATTATAAAAAAGAGTAAAAGATAAGAAATGGATAA
22696337 ATAAA
1 ATAAA
22696342 TAAAAAATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.64, C:0.02, G:0.13, T:0.21
Consensus pattern (41 bp):
ATAAACATTATAAAAAAGAGTAAAAGATAAGAAATGGATAA
Found at i:22697577 original size:125 final size:126
Alignment explanation
Indices: 22697354--22697605 Score: 443
Period size: 125 Copynumber: 2.0 Consensus size: 126
22697344 CTTTTAAGAA
22697354 TTTTTTCTATTCTTCTTTGATTGATTCTCTGTAAAAAAATTACAAACTATTTTCGTGGCTTTTAT
1 TTTTTTCTATTCTTCTTTGATTGATTCTCTGTAAAAAAATTACAAACTATTTTCGTGGCTTTTAT
*
22697419 AGCCACGATTACACTATTCATATATGTTTTACTACTATTTTATGCAACTATTCTTGTTGCC
66 AGCCACGATTACACTATTCATATATGTTTTACTACTATTTTATGCAACTATTCTTGCTGCC
22697480 TTTTTTCTATTCTTCTTTGATTGATTCTCTGT-AAAAAATTACAAACTATTTTCGTGGCTTTTAT
1 TTTTTTCTATTCTTCTTTGATTGATTCTCTGTAAAAAAATTACAAACTATTTTCGTGGCTTTTAT
* * * * *
22697544 AGTCACGATTACACTGTTCATATTTGTTTTACTATTATTTTATGCTACTATTCTTGCTGCC
66 AGCCACGATTACACTATTCATATATGTTTTACTACTATTTTATGCAACTATTCTTGCTGCC
22697605 T
1 T
22697606 CTGTGTTGTT
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 88 0.73
126 32 0.27
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (126 bp):
TTTTTTCTATTCTTCTTTGATTGATTCTCTGTAAAAAAATTACAAACTATTTTCGTGGCTTTTAT
AGCCACGATTACACTATTCATATATGTTTTACTACTATTTTATGCAACTATTCTTGCTGCC
Found at i:22697657 original size:45 final size:45
Alignment explanation
Indices: 22697606--22697695 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
22697596 CTTGCTGCCT
* *
22697606 CTGTGTTGTTTTTTTGTCCTCTTTTGCAAGTTCGGCGCTAGGTCA
1 CTGTGTTCTTTTTTTGTCCTCTTTTGCAAGTTCGGCACTAGGTCA
*
22697651 CTGTGTTCTTTTTTTGTCCTCTTTTGCAAGTTCGGCACTTGGTCA
1 CTGTGTTCTTTTTTTGTCCTCTTTTGCAAGTTCGGCACTAGGTCA
22697696 ACGGAGGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (45 bp):
CTGTGTTCTTTTTTTGTCCTCTTTTGCAAGTTCGGCACTAGGTCA
Found at i:22698054 original size:15 final size:15
Alignment explanation
Indices: 22698034--22698074 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
22698024 TAAAACCAAA
*
22698034 ATTTTTATAACATCT
1 ATTTTTTTAACATCT
* *
22698049 ATTTTTTTAATATTT
1 ATTTTTTTAACATCT
22698064 ATTTTTTTAAC
1 ATTTTTTTAAC
22698075 TCTTCATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTTTTAACATCT
Found at i:22698294 original size:19 final size:20
Alignment explanation
Indices: 22698260--22698297 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22698250 CAATTAACTT
*
22698260 TTAGTTTTACTAATATAAAA
1 TTAGGTTTACTAATATAAAA
22698280 TTAGGTTTA-TAATATAAA
1 TTAGGTTTACTAATATAAA
22698298 TTCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (20 bp):
TTAGGTTTACTAATATAAAA
Found at i:22700033 original size:42 final size:42
Alignment explanation
Indices: 22699968--22700052 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
22699958 GCATCAATCA
*
22699968 TCATCTATTCTAGCACATCTTATATCTGTTGTGCGTATGGAG
1 TCATCTATTCTAGCACATCTTATATCTATTGTGCGTATGGAG
* * *
22700010 TCATCTATTCTAGCAGATTTTATATCTATTGTGTGTATGGAG
1 TCATCTATTCTAGCACATCTTATATCTATTGTGCGTATGGAG
22700052 T
1 T
22700053 AGAAGAGAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (42 bp):
TCATCTATTCTAGCACATCTTATATCTATTGTGCGTATGGAG
Found at i:22708492 original size:19 final size:20
Alignment explanation
Indices: 22708452--22708495 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
22708442 GTCTCTTTAG
* *
22708452 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
22708471 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
22708490 GCATTA
1 GCATTA
22708496 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:22711100 original size:7 final size:8
Alignment explanation
Indices: 22711079--22711108 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
22711069 TCTCATGAAT
22711079 TCAAAAAA
1 TCAAAAAA
22711087 TCAAAAAA
1 TCAAAAAA
22711095 TCAAAAAAA
1 TC-AAAAAA
22711104 TCAAA
1 TCAAA
22711109 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:22713297 original size:42 final size:42
Alignment explanation
Indices: 22713250--22713385 Score: 107
Period size: 42 Copynumber: 3.2 Consensus size: 42
22713240 GACAGCAGAT
22713250 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGC
* * * * * ** ** *
22713292 CTTGCCTTCATTG-GTT-GCAGTGGAGCT-GGTTAAAGAAGTAGAT
1 CTTGCCTTC-CTGCGTTAACAGCGAAG-TAGATCGAA-AACAAG-C
*
22713335 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGC
*
22713377 TTTGCCTTC
1 CTTGCCTTC
22713386 ATTGGTTACA
Statistics
Matches: 65, Mismatches: 22, Indels: 14
0.64 0.22 0.14
Matches are distributed among these distances:
41 10 0.15
42 27 0.42
43 18 0.28
44 10 0.15
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (42 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGC
Found at i:22713422 original size:85 final size:85
Alignment explanation
Indices: 22713246--22713412 Score: 307
Period size: 85 Copynumber: 2.0 Consensus size: 85
22713236 TGAAGACAGC
* *
22713246 AGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGCCTTGCCTTCATTGGTTGCA
1 AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGGTTACA
22713311 GTGGAGCTGGTTAAAGAAGT
66 GTGGAGCTGGTTAAAGAAGT
*
22713331 AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCTTCATTGGTTACA
1 AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGGTTACA
22713396 GTGGAGCTGGTTAAAGA
66 GTGGAGCTGGTTAAAGA
22713413 TTCGGATCTT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (85 bp):
AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGGTTACA
GTGGAGCTGGTTAAAGAAGT
Found at i:22713441 original size:85 final size:85
Alignment explanation
Indices: 22713246--22713451 Score: 263
Period size: 85 Copynumber: 2.4 Consensus size: 85
22713236 TGAAGACAGC
* * * * *
22713246 AGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGCCTTGCCTTCATTGGTTGCA
1 AGATCTTACCTCCCTGAGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGGTTACA
22713311 GTGGAGCTGGTTAAAGAAGT
66 GTGGAGCTGGTTAAAGAAGT
* * * *
22713331 AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCTTCATTGGTTACA
1 AGATCTTACCTCCCTGAGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGGTTACA
*
22713396 GTGGAGCTGGTTAAAG-ATT
66 GTGGAGCTGGTTAAAGAAGT
* * *
22713415 CGGATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATC
1 -AGATCTTACCTCCCTGAG-TTAACAGCGAAGCAGATC
22713452 AAGGATAGTA
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
84 2 0.02
85 105 0.96
86 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (85 bp):
AGATCTTACCTCCCTGAGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCATTGGTTACA
GTGGAGCTGGTTAAAGAAGT
Found at i:22713653 original size:44 final size:43
Alignment explanation
Indices: 22713587--22713741 Score: 152
Period size: 44 Copynumber: 3.6 Consensus size: 43
22713577 AAGAATTTCG
* **
22713587 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAACA-A
* * *
22713631 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAACAC
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAACAA
* * * *
22713674 TATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAAA
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAAA-CAA
* *
22713717 GGATCTTATCTCTCTGAGGTTACAG
1 -GATCTTATCTCCCTGAGATTACAG
22713742 CAGAGTAGAT
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 5 0.06
43 29 0.32
44 56 0.62
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAACAA
Found at i:22713683 original size:87 final size:87
Alignment explanation
Indices: 22713592--22713753 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
22713582 TTTCGGATCT
* * * *
22713592 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
22713656 GGAGCAGATCGAAAACACTATCC
65 AGAGCAGATCGAAAACACTATCC
* * * *
22713679 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
22713744 GAGTAGATCG
66 GAGCAGATCG
22713754 CATCAGGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAAACACTATCC
Found at i:22714129 original size:86 final size:86
Alignment explanation
Indices: 22713938--22714210 Score: 361
Period size: 86 Copynumber: 3.2 Consensus size: 86
22713928 GGTTGTGATA
* ** * * *
22713938 GAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAA
1 GAGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAA
*
22714003 -CCTTGCCTCTC-TCGGTTGTAGTG
63 GCCTTGCCTC-CATCGGTTGCAGTG
*
22714026 GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCC
1 GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCC
* *
22714091 TTGCATCCATCGATTGCAGTG
66 TTGCCTCCATCGGTTGCAGTG
* * * *
22714112 GAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAACAAAGCAGATCAAAAACAAAGCC
1 GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCC
*
22714177 TTGCCTCCATCGGTTGCATTG
66 TTGCCTCCATCGGTTGCAGTG
22714198 GAGCTGGTTAAAG
1 GAGCTGGTTAAAG
22714211 GTTACAGATT
Statistics
Matches: 164, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
85 6 0.04
86 109 0.66
87 36 0.22
88 13 0.08
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (86 bp):
GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCC
TTGCCTCCATCGGTTGCAGTG
Found at i:22714456 original size:43 final size:44
Alignment explanation
Indices: 22714356--22714461 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
22714346 GATCTTGTCC
* * *
22714356 CCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCT
1 CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
* * **
22714400 CCCCG-AGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCT
1 CCCTGAAG-TTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
22714443 CCCTGAAGTTACAGTGGAG
1 CCCTGAAGTTACAGTGGAG
22714462 TGGGTTAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
43 24 0.47
44 27 0.53
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (44 bp):
CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGATCCTATCT
Found at i:22716331 original size:61 final size:57
Alignment explanation
Indices: 22716215--22716339 Score: 137
Period size: 61 Copynumber: 2.1 Consensus size: 57
22716205 TTCTATGACT
**
22716215 CATATATATATATATGTATCTATATATATACTTTTTATATTTTATGATAGTTACATA
1 CATATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATA
* * *
22716272 CGTATATATGTATATGTTTACTTATATATATA-TTTTATAATGATTTTAAAATA-TGTACATA
1 CATATATATATATATGTAT-C-TATATATATACTTTT-T-AT-ATTTTAAAATAGT-TACATA
22716333 CATATAT
1 CATATAT
22716340 TTTTTATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
57 16 0.29
58 5 0.09
59 11 0.20
60 3 0.05
61 21 0.38
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (57 bp):
CATATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATA
Found at i:22728884 original size:17 final size:17
Alignment explanation
Indices: 22728855--22728931 Score: 66
Period size: 17 Copynumber: 4.3 Consensus size: 17
22728845 TTTAGTAATT
22728855 TTTTTTATAAAATTTATA
1 TTTTTTAT-AAATTTATA
*
22728873 TTTTTTATAAATTCTACA
1 TTTTTTATAAATT-TATA
*
22728891 -TTTTTATAATATTCATAA
1 TTTTTTATAA-ATTTAT-A
* *
22728909 CTTTTTTATGATTTTATA
1 -TTTTTTATAAATTTATA
22728927 TTTTT
1 TTTTT
22728932 AGTTTTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
17 20 0.42
18 16 0.33
19 4 0.08
20 8 0.17
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTTTATAAATTTATA
Found at i:22728938 original size:25 final size:25
Alignment explanation
Indices: 22728910--22728957 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
22728900 TATTCATAAC
*
22728910 TTTTTTATGA-TTTTATATTTTTAGT
1 TTTTTTA-GATTTTTATATATTTAGT
22728935 TTTTTTAGATTTTTATATATTTA
1 TTTTTTAGATTTTTATATATTTA
22728958 AAAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (25 bp):
TTTTTTAGATTTTTATATATTTAGT
Found at i:22732422 original size:21 final size:22
Alignment explanation
Indices: 22732375--22732425 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
22732365 TTTATTCAAT
*
22732375 TCATTTATGTTCACAAACAAGC
1 TCATTTATGTTCACAAACAACC
* *
22732397 TCATTTATGTTCATATA-AACC
1 TCATTTATGTTCACAAACAACC
22732418 TCATTTAT
1 TCATTTAT
22732426 TATGTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (22 bp):
TCATTTATGTTCACAAACAACC
Found at i:22732629 original size:23 final size:24
Alignment explanation
Indices: 22732573--22732629 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
22732563 TTGTTTATTA
*
22732573 TTCATGAACATGTTCGATTATATG
1 TTCATGAACATGATCGATTATATG
* *
22732597 TACATAAACATGATC-ATT-TAATG
1 TTCATGAACATGATCGATTAT-ATG
22732620 TTCATGAACA
1 TTCATGAACA
22732630 AGTACATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.04
23 14 0.52
24 12 0.44
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (24 bp):
TTCATGAACATGATCGATTATATG
Found at i:22735127 original size:15 final size:15
Alignment explanation
Indices: 22735109--22735165 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
22735099 TTAACCACTT
22735109 TAATATTAATTAATA
1 TAATATTAATTAATA
* * *
22735124 TAATATTTATCAAGA
1 TAATATTAATTAATA
*
22735139 TAAATATTAGATTAAATT
1 T-AATATTA-ATT-AATA
22735157 TAATATTAA
1 TAATATTAA
22735166 ATCTTATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.41
16 7 0.22
17 9 0.28
18 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (15 bp):
TAATATTAATTAATA
Found at i:22736984 original size:70 final size:70
Alignment explanation
Indices: 22736866--22737145 Score: 551
Period size: 70 Copynumber: 4.0 Consensus size: 70
22736856 ATGGTGAAGA
*
22736866 TTTCCTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
1 TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
22736931 CATTT
66 CATTT
22736936 TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
1 TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
22737001 CATTT
66 CATTT
22737006 TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
1 TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
22737071 CATTT
66 CATTT
22737076 TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
1 TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
22737141 CATTT
66 CATTT
22737146 CCTAAACGCA
Statistics
Matches: 209, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 209 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.42
Consensus pattern (70 bp):
TTTCTTAGAAACCTTGAATCTTAAATTATACGGAAGCTTTGATAGTCTTAGTCTACTTCTCTCCT
CATTT
Found at i:22738407 original size:27 final size:27
Alignment explanation
Indices: 22738377--22738432 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
22738367 ATAAGTTAAG
22738377 TTAATTTATTATGAACTTACTAAGCAT
1 TTAATTTATTATGAACTTACTAAGCAT
22738404 TTAATTTATTATGAACTTACTAAGCAT
1 TTAATTTATTATGAACTTACTAAGCAT
22738431 TT
1 TT
22738433 GATATGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (27 bp):
TTAATTTATTATGAACTTACTAAGCAT
Found at i:22740946 original size:27 final size:28
Alignment explanation
Indices: 22740890--22740952 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
22740880 TATTTTCTCG
* *
22740890 AAATTTTA-CGAAGGGTATAATCGTAAA
1 AAATTTTATCGAAGGGTAAAATCATAAA
* *
22740917 AAATTTTATCGATGGGTAAAATCAT-TA
1 AAATTTTATCGAAGGGTAAAATCATAAA
22740944 AAATTTTAT
1 AAATTTTAT
22740953 AGGGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (28 bp):
AAATTTTATCGAAGGGTAAAATCATAAA
Found at i:22745163 original size:12 final size:12
Alignment explanation
Indices: 22745140--22745178 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22745130 TACTCTCCTA
22745140 TTCATATTTCTTC
1 TTCAT-TTTCTTC
* *
22745153 TTCCTTTTCTTT
1 TTCATTTTCTTC
22745165 TTCATTTTCTTC
1 TTCATTTTCTTC
22745177 TT
1 TT
22745179 TGCAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCATTTTCTTC
Found at i:22748343 original size:13 final size:13
Alignment explanation
Indices: 22748325--22748349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22748315 GAATTAAAAT
22748325 GTGTGAAAATTTC
1 GTGTGAAAATTTC
22748338 GTGTGAAAATTT
1 GTGTGAAAATTT
22748350 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:22749990 original size:18 final size:18
Alignment explanation
Indices: 22749967--22750006 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22749957 AATTTTATCG
22749967 TTGTATCGA-ATATTTATA
1 TTGTATCGATA-ATTTATA
*
22749985 TTGTATCGATAATTTTTA
1 TTGTATCGATAATTTATA
22750003 TTGT
1 TTGT
22750007 TATGTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (18 bp):
TTGTATCGATAATTTATA
Found at i:22750084 original size:32 final size:32
Alignment explanation
Indices: 22750044--22750133 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 32
22750034 CATACCAAGT
*
22750044 TAGT-ATTTGTTATCATTTCACAAAATTAAAG-
1 TAGTAATTTGTTAT-ATTTCACAAAATGAAAGC
*
22750075 TAGTAATTTGTTAATATTTCACAAAAAGAAAGC
1 TAGTAATTTGTT-ATATTTCACAAAATGAAAGC
22750108 T-G-ATATTTGTTATTATTTCACAAAAT
1 TAGTA-ATTTGTTA-TATTTCACAAAAT
22750134 CGCGCGTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
31 6 0.12
32 42 0.82
33 3 0.06
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (32 bp):
TAGTAATTTGTTATATTTCACAAAATGAAAGC
Found at i:22761655 original size:6 final size:6
Alignment explanation
Indices: 22761646--22761679 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
22761636 AAAAAAGGAA
*
22761646 TTTGAT TTTGGT TTTGGT TTTGGT TTTGGT TTTG
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTG
22761680 CAGTTCACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (6 bp):
TTTGGT
Found at i:22769648 original size:8 final size:9
Alignment explanation
Indices: 22769631--22769691 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
22769621 CATAAAAAAA
22769631 TATAATTTT
1 TATAATTTT
22769640 TAT-ATTTT
1 TATAATTTT
22769648 TATAATTTT
1 TATAATTTT
* *
22769657 TTTCATTTT
1 TATAATTTT
22769666 TAAATAATTTT
1 T--ATAATTTT
22769677 TGA-AATTTT
1 T-ATAATTTT
22769686 ATATAA
1 -TATAA
22769692 AAATTAAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 8 0.19
9 23 0.55
10 4 0.10
11 7 0.17
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TATAATTTT
Found at i:22769672 original size:20 final size:17
Alignment explanation
Indices: 22769631--22769691 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 17
22769621 CATAAAAAAA
22769631 TATAATTTTTATATTTT
1 TATAATTTTTATATTTT
*
22769648 TATAATTTTTTTCATTTT
1 TATAATTTTTAT-ATTTT
*
22769666 TAAATAATTTTTGAAATTTT
1 T--ATAATTTTT-ATATTTT
22769686 ATATAA
1 -TATAA
22769692 AAATTAAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 11 0.31
18 6 0.17
19 4 0.11
20 14 0.39
21 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATAATTTTTATATTTT
Found at i:22769775 original size:30 final size:30
Alignment explanation
Indices: 22769714--22769796 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
22769704 AATTTTTTAT
* *
22769714 TTTTTAATAATTTCCTATT-TTTAAAATAC
1 TTTTTAATAATTTCCTATTATTTTAAACAC
22769743 TTTTTAATAATTTCCTATTATTTTAAACAC
1 TTTTTAATAATTTCCTATTATTTTAAACAC
22769773 TTTTTAATAATTTCCTATTATTTT
1 TTTTTAATAATTTCCTATTATTTT
22769797 TAAATAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 19 0.37
30 32 0.63
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTTAATAATTTCCTATTATTTTAAACAC
Found at i:22770917 original size:22 final size:23
Alignment explanation
Indices: 22770890--22770934 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22770880 AGGTATCTAC
22770890 AAATCAAATC-TCTAAAATTACA
1 AAATCAAATCTTCTAAAATTACA
* *
22770912 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAAATTACA
22770935 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAAATTACA
Found at i:22770939 original size:22 final size:22
Alignment explanation
Indices: 22770887--22770944 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
22770877 GAAAGGTATC
*
22770887 TACAAATCAAATC-TCTAAAAT
1 TACAAATCATATCTTCTAAAAT
*
22770908 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAAAT
*
22770931 TACATATCATATCT
1 TACAAATCATATCT
22770945 GCGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAAAT
Found at i:22776049 original size:22 final size:23
Alignment explanation
Indices: 22776022--22776066 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22776012 AAGTATCTAC
22776022 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
22776044 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
22776067 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:22776070 original size:17 final size:17
Alignment explanation
Indices: 22776048--22776100 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
22776038 ATTACAAAAT
22776048 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
22776065 CATATCATATCTACGATTA
1 CATATC-T-TCTAAGATTA
* *
22776084 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
22776101 TGTTTTCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:22776071 original size:22 final size:22
Alignment explanation
Indices: 22776019--22776076 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
22776009 GAAAAGTATC
*
22776019 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
22776040 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
22776063 TACATATCATATCT
1 TACAAATCATATCT
22776077 ACGATTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22778742 original size:24 final size:24
Alignment explanation
Indices: 22778715--22778760 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
22778705 TTGATTGTCC
22778715 AAAGTTCAAACTGAAGATAAGTCT
1 AAAGTTCAAACTGAAGATAAGTCT
22778739 AAAGTTCAAACTGAAGATAAGT
1 AAAGTTCAAACTGAAGATAAGT
22778761 GACATTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (24 bp):
AAAGTTCAAACTGAAGATAAGTCT
Found at i:22781446 original size:5 final size:5
Alignment explanation
Indices: 22781436--22781463 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22781426 AGAAAATACA
22781436 TGTAT TGTAT TGTAT TGTAT TGTAT TGT
1 TGTAT TGTAT TGTAT TGTAT TGTAT TGT
22781464 TCTATTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (5 bp):
TGTAT
Found at i:22788384 original size:15 final size:14
Alignment explanation
Indices: 22788363--22788398 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
22788353 ATAATCCTTA
*
22788363 ATAATTATCTTAAT
1 ATAATTATCCTAAT
22788377 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
22788392 ATAATTA
1 ATAATTA
22788399 AAATAGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:22790812 original size:10 final size:10
Alignment explanation
Indices: 22790799--22790831 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
22790789 ACTTTATTCC
22790799 GTTCTGCTCT
1 GTTCTGCTCT
*
22790809 GTTCTGTTCT
1 GTTCTGCTCT
22790819 GTTCTGCTCT
1 GTTCTGCTCT
22790829 GTT
1 GTT
22790832 TCGTTCTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.21, T:0.55
Consensus pattern (10 bp):
GTTCTGCTCT
Found at i:22790824 original size:20 final size:20
Alignment explanation
Indices: 22790799--22790848 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
22790789 ACTTTATTCC
22790799 GTTCTGCTCTG-TTCTGTTCT
1 GTTCTGCTCTGTTTC-GTTCT
22790819 GTTCTGCTCTGTTTCGTTCT
1 GTTCTGCTCTGTTTCGTTCT
*
22790839 GCTCTGCTCT
1 GTTCTGCTCT
22790849 ACTCTATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.00, C:0.28, G:0.20, T:0.52
Consensus pattern (20 bp):
GTTCTGCTCTGTTTCGTTCT
Found at i:22790903 original size:20 final size:20
Alignment explanation
Indices: 22790799--22790905 Score: 65
Period size: 20 Copynumber: 5.1 Consensus size: 20
22790789 ACTTTATTCC
*
22790799 GTTCTGCTCTGTTCTGTTCT
1 GTTCTGCTCTATTCTGTTCT
*
22790819 GTTCTGCTCTGTT-TCGTTCT
1 GTTCTGCTCTATTCT-GTTCT
* * *
22790839 GCTCTGCTCTACTCTATTCT
1 GTTCTGCTCTATTCTGTTCT
* **
22790859 ATTCATTTTTTCT-TTGCTATGTTCT
1 GTTC---TGCTCTATT-C--TGTTCT
22790884 GTTCTGCTCTATTCTGTTCT
1 GTTCTGCTCTATTCTGTTCT
22790904 GT
1 GT
22790906 CTTGTTCTGG
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
19 1 0.02
20 42 0.65
21 1 0.02
22 6 0.09
23 7 0.11
25 8 0.12
ACGTcount: A:0.06, C:0.24, G:0.15, T:0.55
Consensus pattern (20 bp):
GTTCTGCTCTATTCTGTTCT
Found at i:22790914 original size:15 final size:15
Alignment explanation
Indices: 22790799--22790844 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
22790789 ACTTTATTCC
* *
22790799 GTTCTGCTCTGTTCT
1 GTTCTGTTCTGCTCT
22790814 GTTCTGTTCTGCTCT
1 GTTCTGTTCTGCTCT
22790829 GTT-TCGTTCTGCTCT
1 GTTCT-GTTCTGCTCT
22790844 G
1 G
22790845 CTCTACTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.00, C:0.26, G:0.22, T:0.52
Consensus pattern (15 bp):
GTTCTGTTCTGCTCT
Found at i:22791421 original size:46 final size:46
Alignment explanation
Indices: 22791328--22791450 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
22791318 CTCTGAAAAG
22791328 ATTAAGGGAGTTTAGCGTGCTCTCTG---ATTAGAACTATTAGGAT
1 ATTAAGGGAGTTTAGCGTGCTCTCTGATTATTAGAACTATTAGGAT
*
22791371 ATTAAGGGAGTTTAGCATGCTCTCTGATTATTAGAACTATTAGGAT
1 ATTAAGGGAGTTTAGCGTGCTCTCTGATTATTAGAACTATTAGGAT
* *
22791417 ATTAAGAGAGTTTAGCGTACTCTCTGATTATTAG
1 ATTAAGGGAGTTTAGCGTGCTCTCTGATTATTAG
22791451 CACATCGGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 25 0.34
46 48 0.66
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (46 bp):
ATTAAGGGAGTTTAGCGTGCTCTCTGATTATTAGAACTATTAGGAT
Found at i:22795100 original size:20 final size:21
Alignment explanation
Indices: 22795072--22795112 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
22795062 ATAACAAAAC
22795072 CTTTAAAAAAATAAAACCTTA
1 CTTTAAAAAAATAAAACCTTA
22795093 CTTT-AAAAAATAAAACCTTA
1 CTTTAAAAAAATAAAACCTTA
22795113 AACCCCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (21 bp):
CTTTAAAAAAATAAAACCTTA
Found at i:22796957 original size:67 final size:67
Alignment explanation
Indices: 22796849--22797046 Score: 378
Period size: 67 Copynumber: 3.0 Consensus size: 67
22796839 TTTCCAATTC
**
22796849 AGAGAGCACACTCCCACGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
22796914 CA
66 CA
22796916 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
22796981 CA
66 CA
22796983 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
22797047 GTAATATAAA
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 129 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTA
CA
Found at i:22797274 original size:57 final size:60
Alignment explanation
Indices: 22797182--22797316 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 60
22797172 TTACCCGTGT
* * *
22797182 GGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A-GATCACCCATCC
1 GGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGCTATATCGATAGGATCACCCATCC
*
22797239 GGGCTAGAT-CTTTTTCACACATATTCTTCGAGAGGGCTATATCAGGATAGGATCACCCATCT
1 GGGCTAGATCCTTTTTC-CACATATTCTTCGAGAGGGCTATATC--GATAGGATCACCCATCC
22797301 GGGCTAGATCCTTTTT
1 GGGCTAGATCCTTTTT
22797317 ACCGTCAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
56 6 0.09
57 33 0.49
60 1 0.01
61 1 0.01
62 20 0.30
63 6 0.09
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (60 bp):
GGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGCTATATCGATAGGATCACCCATCC
Found at i:22798093 original size:16 final size:16
Alignment explanation
Indices: 22798072--22798106 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22798062 AAGTTAACCT
22798072 ACTGTTGCTGTCCAAA
1 ACTGTTGCTGTCCAAA
22798088 ACTGTTGCTGTCCAAA
1 ACTGTTGCTGTCCAAA
22798104 ACT
1 ACT
22798107 ATTTTAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (16 bp):
ACTGTTGCTGTCCAAA
Found at i:22798938 original size:30 final size:31
Alignment explanation
Indices: 22798870--22798927 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
22798860 CACCCTTAAA
* * *
22798870 ATATTTACACTATTGATCCTTCAAATTTCTC
1 ATATTTACACTATTAACCCCTCAAATTTCTC
22798901 ATATTTACACT-TTAACCCCTCAAATTT
1 ATATTTACACTATTAACCCCTCAAATTT
22798928 TCGGTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTCTC
Found at i:22800133 original size:16 final size:16
Alignment explanation
Indices: 22800112--22800148 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
22800102 TCTGATATAC
*
22800112 AAGTATTGATAATTCT
1 AAGTATTGAGAATTCT
22800128 AAGTATTGAGAATTCT
1 AAGTATTGAGAATTCT
22800144 AAGTA
1 AAGTA
22800149 AACTTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (16 bp):
AAGTATTGAGAATTCT
Found at i:22801803 original size:36 final size:36
Alignment explanation
Indices: 22801754--22801825 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
22801744 TACTAACTCA
* *
22801754 TATATATAATCAAATTTCTGTTAATGTATATTTTTT
1 TATAAATAATCAAATTTCTATTAATGTATATTTTTT
*
22801790 TATAAATAGTCAAATTTCTATTAATGTATATTTTTT
1 TATAAATAATCAAATTTCTATTAATGTATATTTTTT
22801826 ATATGTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (36 bp):
TATAAATAATCAAATTTCTATTAATGTATATTTTTT
Found at i:22803821 original size:35 final size:35
Alignment explanation
Indices: 22803775--22803873 Score: 162
Period size: 35 Copynumber: 2.8 Consensus size: 35
22803765 TTAGATATTG
* *
22803775 ATTATGCTTTAAGCTTGTTGGATATTGAATTTTTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTTGTT
* *
22803810 ATTATGTTTTAAGTTTGTTGGGTATTGAATTTGTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTTGTT
22803845 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
22803874 ATGATTGACA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.54
Consensus pattern (35 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTTGTT
Found at i:22805209 original size:32 final size:32
Alignment explanation
Indices: 22805173--22805250 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
22805163 AACTTTTCTG
*
22805173 GAAAATATTTTCA-AGAAATC-TGCCAAACAGCA
1 GAAAATATTTTCACAG-AATCAT-CCAAACACCA
*
22805205 GAAAATATTTTACACAGATTCATCCAAACACCA
1 GAAAATATTTT-CACAGAATCATCCAAACACCA
22805238 GAAAATATTTTCA
1 GAAAATATTTTCA
22805251 GTAAATCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 13 0.32
33 25 0.61
34 3 0.07
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCACAGAATCATCCAAACACCA
Found at i:22805290 original size:19 final size:20
Alignment explanation
Indices: 22805252--22805290 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22805242 ATATTTTCAG
*
22805252 TAAATCATTTTCCAGAAAAA
1 TAAATCATTTTACAGAAAAA
22805272 TAAATCATTTTAC-GAAAAA
1 TAAATCATTTTACAGAAAAA
22805291 CATTTTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (20 bp):
TAAATCATTTTACAGAAAAA
Found at i:22808154 original size:44 final size:45
Alignment explanation
Indices: 22808091--22808199 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
22808081 CTATTACACC
*
22808091 TCCATTCCATTCAACCAAACACA-AGA-ATACAATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACAATTACGCCTCTAT
* * *
22808135 TCCATTACATTCAACCAAACAATTGATTTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACAATTACGCCTCTAT
* * *
22808180 TCCAATACAGTGAACCAAAC
1 TCCATTACATTCAACCAAAC
22808200 GTGCCCTTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.39
45 33 0.59
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.28
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACAATTACGCCTCTAT
Found at i:22808713 original size:90 final size:88
Alignment explanation
Indices: 22808569--22808741 Score: 197
Period size: 90 Copynumber: 1.9 Consensus size: 88
22808559 TTAAGCTTTT
* * *
22808569 TTTTTACACTCAATTGAGCACTTAACTTTCAAATTGCATAAAAAAGACCGTC-AAACTTCTTCAA
1 TTTTTACACTCAATTGAGCACTTAACTTTCAAAATGCATAAAAAAGACCATCAAAAATT-TTC--
*
22808633 ATAAAAGCAATTAAGCCCCTGTATTC
63 ATAAAAACAATTAAGCCCCTGTATTC
* * * * * * *
22808659 TTTTT-CACTCAATTGGGTACTTAAATTTTTAAAATGTATCAAAAAGAGCATCAAAAATTTTCAT
1 TTTTTACACTCAATTGAGCACTT-AACTTTCAAAATGCATAAAAAAGACCATCAAAAATTTTCAT
22808723 AAAAACAATTAAGCCCCTG
65 AAAAACAATTAAGCCCCTG
22808742 CTCTTATTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
88 20 0.29
89 15 0.21
90 30 0.43
91 5 0.07
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (88 bp):
TTTTTACACTCAATTGAGCACTTAACTTTCAAAATGCATAAAAAAGACCATCAAAAATTTTCATA
AAAACAATTAAGCCCCTGTATTC
Found at i:22809107 original size:9 final size:9
Alignment explanation
Indices: 22809095--22809128 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
22809085 ATTTTGCAAT
22809095 TTTTTTATA
1 TTTTTTATA
*
22809104 TTTTTTAAA
1 TTTTTTATA
*
22809113 TTTTTAATA
1 TTTTTTATA
22809122 TTTTTTA
1 TTTTTTA
22809129 ACATTTTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTTATA
Found at i:22809116 original size:18 final size:19
Alignment explanation
Indices: 22809095--22809136 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
22809085 ATTTTGCAAT
*
22809095 TTTTTTATATTTTTTAA-A
1 TTTTTAATATTTTTTAACA
22809113 TTTTTAATATTTTTTAACA
1 TTTTTAATATTTTTTAACA
22809132 TTTTT
1 TTTTT
22809137 CCTAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTAATATTTTTTAACA
Found at i:22809128 original size:10 final size:10
Alignment explanation
Indices: 22809093--22809136 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
22809083 AAATTTTGCA
*
22809093 ATTTTTTTAT
1 ATTTTTTAAT
22809103 ATTTTTTAA-
1 ATTTTTTAAT
22809112 A-TTTTTAAT
1 ATTTTTTAAT
*
22809121 ATTTTTTAAC
1 ATTTTTTAAT
22809131 ATTTTT
1 ATTTTT
22809137 CCTAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.23
9 2 0.07
10 21 0.70
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:22809325 original size:86 final size:83
Alignment explanation
Indices: 22809235--22809429 Score: 241
Period size: 86 Copynumber: 2.3 Consensus size: 83
22809225 AATTTTTCAT
** *
22809235 AAAAAAAGGGCTTAATTG-TTTTTTTAAAAAGGTTTGAGGGTCTTTTTTTATGCATTTTGAAAGT
1 AAAAAAAGGGCTTAATTGTTTTTTTTAAAAAGGTTTGA-AAT-TTTTTTGATGCATTTTGAAAGT
*
22809299 TCAAATACCCAATTGAGTGCAA
64 TCAAATACCCAAATGAGT--AA
* *
22809321 AAAAATAGGGGCTTAATTGTTTTTTTTGAAAAGGTTTGAAATTTTTTTGATGCATTTTGAAAGTT
1 AAAAA-AAGGGCTTAATTGTTTTTTTTAAAAAGGTTTGAAATTTTTTTGATGCATTTTGAAAGTT
*
22809386 CAAATATCCAAATGAGTAA
65 CAAATACCCAAATGAGTAA
* * *
22809405 AAAAAAA-GACTTGATTATTTTTTTT
1 AAAAAAAGGGCTTAATTGTTTTTTTT
22809430 TGAAAAAATT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
82 15 0.16
83 1 0.01
84 7 0.07
86 42 0.44
87 13 0.14
88 18 0.19
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (83 bp):
AAAAAAAGGGCTTAATTGTTTTTTTTAAAAAGGTTTGAAATTTTTTTGATGCATTTTGAAAGTTC
AAATACCCAAATGAGTAA
Found at i:22812881 original size:93 final size:93
Alignment explanation
Indices: 22812722--22812908 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
22812712 TAGTGTTGAA
22812722 GAACTACTGTTAGTTATTGAAGTTGGTCATACGAGGTACATGTCTACTGTGTAACAAGTTCCTTT
1 GAACTACTGTTAGTTATTGAAGTTGGTCATACGAGGTACATGTCTACTGTGTAACAAGTTCCTTT
22812787 ACATAGTGAAAATTCTTAGCGGACTACG
66 ACATAGTGAAAATTCTTAGCGGACTACG
22812815 GAACTACTGTTAGTTATTGAAGTTGGTCATACGAGGTACATGTCTACTGTGTAACAAGTTCCTTT
1 GAACTACTGTTAGTTATTGAAGTTGGTCATACGAGGTACATGTCTACTGTGTAACAAGTTCCTTT
*
22812880 ACATAGTGAAAATTTTTAGCGGACTACG
66 ACATAGTGAAAATTCTTAGCGGACTACG
22812908 G
1 G
22812909 TCCCGTGGTT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (93 bp):
GAACTACTGTTAGTTATTGAAGTTGGTCATACGAGGTACATGTCTACTGTGTAACAAGTTCCTTT
ACATAGTGAAAATTCTTAGCGGACTACG
Found at i:22813762 original size:1 final size:1
Alignment explanation
Indices: 22813756--22813786 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
22813746 ATTGTCGATT
22813756 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
22813787 TCACAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:22815717 original size:15 final size:17
Alignment explanation
Indices: 22815688--22815721 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
22815678 TTGGCATAAC
22815688 TTTTTAGAAATTTTATT
1 TTTTTAGAAATTTTATT
22815705 TTTTTA-AAA-TTTATT
1 TTTTTAGAAATTTTATT
22815720 TT
1 TT
22815722 ATTTTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTAGAAATTTTATT
Found at i:22815740 original size:19 final size:18
Alignment explanation
Indices: 22815688--22815730 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
22815678 TTGGCATAAC
*
22815688 TTTTTAGAAATTT-TATT-
1 TTTTTA-AAATTTATTTTA
22815705 TTTTTAAAATTTATTTTA
1 TTTTTAAAATTTATTTTA
22815723 TTTTTAAA
1 TTTTTAAA
22815731 GAGTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTAAAATTTATTTTA
Found at i:22823705 original size:13 final size:13
Alignment explanation
Indices: 22823687--22823714 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22823677 AAAAGTATTT
22823687 TAAAAATAAAAAA
1 TAAAAATAAAAAA
22823700 TAAAAATAAAAAA
1 TAAAAATAAAAAA
22823713 TA
1 TA
22823715 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:22823747 original size:10 final size:10
Alignment explanation
Indices: 22823732--22823765 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
22823722 ATTATATTCG
22823732 GGCCGGGCCA
1 GGCCGGGCCA
22823742 GGCCGGGCCA
1 GGCCGGGCCA
22823752 GGCCGGGCCA
1 GGCCGGGCCA
22823762 GGCC
1 GGCC
22823766 CATGGACAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.09, C:0.41, G:0.50, T:0.00
Consensus pattern (10 bp):
GGCCGGGCCA
Found at i:22831359 original size:19 final size:17
Alignment explanation
Indices: 22831328--22831376 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
22831318 ATATTGAATG
22831328 TTTTTAT-ATTATTTAT
1 TTTTTATAATTATTTAT
22831344 TTTTAATATAATTA-TTAT
1 TTTT--TATAATTATTTAT
22831362 TTTTTATAATTATTT
1 TTTTTATAATTATTT
22831377 TTAAATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 12 0.41
17 2 0.07
18 11 0.38
19 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATAATTATTTAT
Found at i:22831953 original size:28 final size:29
Alignment explanation
Indices: 22831896--22831955 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
22831886 TTTAATGTTG
* * **
22831896 ATTTAGTTATAATTTTTTTTATTTTTAAA
1 ATTTAGTTAAAATCTTTTTTATTTAAAAA
22831925 ATTTAGTTAAAATCTTTTTTA-TTAAAAA
1 ATTTAGTTAAAATCTTTTTTATTTAAAAA
22831953 ATT
1 ATT
22831956 GATTGGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
ATTTAGTTAAAATCTTTTTTATTTAAAAA
Found at i:22834367 original size:24 final size:24
Alignment explanation
Indices: 22834340--22834397 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
22834330 TATACATGCC
22834340 ATTATACCAAGGGAAATTTTACTA
1 ATTATACCAAGGGAAATTTTACTA
22834364 ATTATACCAAGGGAAATTTTACTA
1 ATTATACCAAGGGAAATTTTACTA
22834388 ATTATACCAA
1 ATTATACCAA
22834398 AATGAACTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (24 bp):
ATTATACCAAGGGAAATTTTACTA
Found at i:22835207 original size:64 final size:63
Alignment explanation
Indices: 22835096--22835225 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 63
22835086 TCATGAAGAG
* * * * * * *
22835096 TCATATATCGGGACGCTCATAAGAGCTACGGTATGTCTGCAATACATGTAGGATCAATACTGA
1 TCATATAACAGGACGCTCAAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCAATACCGA
* *
22835159 TCATATAACAGGACGCTCACAAAGAGCTGCGGTATTTCCGCAACACATGCAGGATCAATACCGA
1 TCATATAACAGGACGCTCA-AAAGAGCTACGGTATGTCCGCAACACATGCAGGATCAATACCGA
22835223 TCA
1 TCA
22835226 GGATGCTCGT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
63 17 0.30
64 40 0.70
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (63 bp):
TCATATAACAGGACGCTCAAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCAATACCGA
Found at i:22850801 original size:22 final size:22
Alignment explanation
Indices: 22850775--22850823 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22850765 AAGGTATTTG
**
22850775 CGATTAGAGATTTTTGGACGAA
1 CGATTAGAGATTTAGGGACGAA
* *
22850797 TGATTAGGGATTTAGGGACGAA
1 CGATTAGAGATTTAGGGACGAA
22850819 CGATT
1 CGATT
22850824 GGGATGAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (22 bp):
CGATTAGAGATTTAGGGACGAA
Found at i:22850950 original size:18 final size:16
Alignment explanation
Indices: 22850913--22850962 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
22850903 AGTTTTTTAG
*
22850913 TTTTTTTATTAAATTA
1 TTTTTTAATTAAATTA
22850929 TTTTTTAATATAAATTA
1 TTTTTTAAT-TAAATTA
*
22850946 CTTTTATAATTAAATTA
1 -TTTTTTAATTAAATTA
22850963 ATTATTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 8 0.27
17 14 0.47
18 8 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTTAATTAAATTA
Found at i:22852331 original size:35 final size:35
Alignment explanation
Indices: 22852279--22852367 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
22852269 TTGACTCTGA
* * * ** *
22852279 AGAGTCAGTAGACCATTTTCATGGTGTTGCTCCGT
1 AGAGCCAGTAGACCATTTACATGATGTCACTCCAT
* *
22852314 AGAGCTAGTAGATCATTTACATGATGTCACTCCAT
1 AGAGCCAGTAGACCATTTACATGATGTCACTCCAT
*
22852349 AGAGCCAGTAGACAATTTA
1 AGAGCCAGTAGACCATTTA
22852368 TCCATCCAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (35 bp):
AGAGCCAGTAGACCATTTACATGATGTCACTCCAT
Found at i:22857116 original size:31 final size:30
Alignment explanation
Indices: 22857078--22857139 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
22857068 TATTTTTATA
*
22857078 ATATATATAACTGAATTAAAATAAAAGATTT
1 ATATATATAACTGAATCAAAATAAAA-ATTT
**
22857109 ATATATATATTTGAATCAAAATAAAAATTT
1 ATATATATAACTGAATCAAAATAAAAATTT
22857139 A
1 A
22857140 ATGTGTATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
ATATATATAACTGAATCAAAATAAAAATTT
Found at i:22866926 original size:13 final size:13
Alignment explanation
Indices: 22866892--22866927 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
22866882 TCAAAGTTAT
22866892 CCTAGCCCAAATA
1 CCTAGCCCAAATA
* *
22866905 CTTAACCCAAATA
1 CCTAGCCCAAATA
22866918 CCTAGCCCAA
1 CCTAGCCCAA
22866928 TTGCTAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.39, G:0.06, T:0.17
Consensus pattern (13 bp):
CCTAGCCCAAATA
Found at i:22868061 original size:18 final size:17
Alignment explanation
Indices: 22868034--22868067 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22868024 ATTCTTGGCA
22868034 TATTTTTTAAAATCTAG
1 TATTTTTTAAAATCTAG
*
22868051 TATTATTTTAATATCTA
1 TATT-TTTTAAAATCTA
22868068 AGCTTAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTTTTAAAATCTAG
Found at i:22868179 original size:45 final size:46
Alignment explanation
Indices: 22868084--22868200 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 46
22868074 ACATTGTTTT
* * *
22868084 AAATTTATCATTAGTATTATTTTAATATATAATATACTATTATTTT
1 AAATTTATCATTAATATTATTTTAATATATAATATACTATAATTTG
* *
22868130 AAA-TTATCATTAATATTA-TTTAAGTTTATCATATA-TCATAATTTG
1 AAATTTATCATTAATATTATTTTAA-TATATAATATACT-ATAATTTG
* *
22868175 AAATTTATCATGTACTATAATTTTAA
1 AAATTTATCAT-TAATATTATTTTAA
22868201 ACTTATCATA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
44 6 0.10
45 32 0.54
46 10 0.17
47 6 0.10
48 5 0.08
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.50
Consensus pattern (46 bp):
AAATTTATCATTAATATTATTTTAATATATAATATACTATAATTTG
Found at i:22868183 original size:24 final size:24
Alignment explanation
Indices: 22868084--22868237 Score: 92
Period size: 22 Copynumber: 6.8 Consensus size: 24
22868074 ACATTGTTTT
* *
22868084 AAATTTATCAT-TAGTATTATTT-
1 AAATTTATCATATACTATAATTTG
* * * * *
22868106 TAATATATAATATACTATTATTTT
1 AAATTTATCATATACTATAATTTG
* *
22868130 AAA-TTATCAT-TAATATTATTT-
1 AAATTTATCATATACTATAATTTG
*
22868151 AAGTTTATCATATA-TCATAATTTG
1 AAATTTATCATATACT-ATAATTTG
* *
22868175 AAATTTATCATGTACTATAATTTT
1 AAATTTATCATATACTATAATTTG
* *
22868199 AAACTTATCATAT-C-ATTATTT-
1 AAATTTATCATATACTATAATTTG
* *
22868220 ATATCTATCATATACTAT
1 AAATTTATCATATACTAT
22868238 TTTTATGTAT
Statistics
Matches: 104, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
21 12 0.12
22 33 0.32
23 26 0.25
24 32 0.31
25 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (24 bp):
AAATTTATCATATACTATAATTTG
Found at i:22868374 original size:47 final size:47
Alignment explanation
Indices: 22868322--22868415 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
22868312 TTATTTTTAA
22868322 AATTTTCTTTTATATTTTTAAATTTTAAAGAATTATATGATAGTATT
1 AATTTTCTTTTATATTTTTAAATTTTAAAGAATTATATGATAGTATT
*
22868369 AATTTTCTTTTATATTTTTACATTTTAAAGAATTATATGATAGTATT
1 AATTTTCTTTTATATTTTTAAATTTTAAAGAATTATATGATAGTATT
22868416 CTCATACAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (47 bp):
AATTTTCTTTTATATTTTTAAATTTTAAAGAATTATATGATAGTATT
Done.