Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 46 of 199
Found at i:18277594 original size:64 final size:64
Alignment explanation
Indices: 18277500--18277621 Score: 226
Period size: 64 Copynumber: 1.9 Consensus size: 64
18277490 GTATACTCCA
* *
18277500 ACTGATCTAATAGTCACTCTATTGTTTCTAGGCAATTCTCAGCAATTTCGGGTTCTGTACTCTG
1 ACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTGTACTCTG
18277564 ACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTGT
1 ACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTGT
18277622 GCCTTTCATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (64 bp):
ACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTGTACTCTG
Found at i:18279469 original size:18 final size:20
Alignment explanation
Indices: 18279428--18279467 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18279418 GATAGAATTG
* *
18279428 TTATTCTTATAAAATAGAAT
1 TTATACTTAAAAAATAGAAT
18279448 TTATACTTAAAAAATA-AAT
1 TTATACTTAAAAAATAGAAT
18279467 T
1 T
18279468 ATCATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TTATACTTAAAAAATAGAAT
Found at i:18294833 original size:7 final size:7
Alignment explanation
Indices: 18294821--18294845 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18294811 AATCAATATA
18294821 ACATAAT
1 ACATAAT
18294828 ACATAAT
1 ACATAAT
18294835 ACATAAT
1 ACATAAT
18294842 ACAT
1 ACAT
18294846 TTATTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ACATAAT
Found at i:18295741 original size:13 final size:13
Alignment explanation
Indices: 18295723--18295749 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18295713 TAAGCTTTTG
18295723 CAGCTTAGTAAGT
1 CAGCTTAGTAAGT
18295736 CAGCTTAGTAAGT
1 CAGCTTAGTAAGT
18295749 C
1 C
18295750 GTAAACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CAGCTTAGTAAGT
Found at i:18302378 original size:22 final size:22
Alignment explanation
Indices: 18302345--18302409 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
18302335 CTCCAATTAT
*
18302345 TAGCACATTAGTGCTCTCTGTA
1 TAGCACTTTAGTGCTCTCTGTA
* * *
18302367 TAGTACTTTAGTGTTCTTTGTA
1 TAGCACTTTAGTGCTCTCTGTA
18302389 TAGCACTTTAGTGCTCTCTGT
1 TAGCACTTTAGTGCTCTCTGT
18302410 TTAATAGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (22 bp):
TAGCACTTTAGTGCTCTCTGTA
Found at i:18303017 original size:13 final size:13
Alignment explanation
Indices: 18302999--18303023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18302989 ATTATTAATA
18302999 TTATTTTGTGTGT
1 TTATTTTGTGTGT
18303012 TTATTTTGTGTG
1 TTATTTTGTGTG
18303024 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:18304738 original size:41 final size:41
Alignment explanation
Indices: 18304693--18304794 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
18304683 GCTTAGAGCT
*
18304693 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * * *
18304734 TAGCAGGCTTAATGCCGGTGAAATATTTTAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
18304775 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
18304795 TACTGAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:18308947 original size:22 final size:21
Alignment explanation
Indices: 18308912--18308952 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
18308902 GCGACGGATA
18308912 CGGGTTAGAGGTGTTACAAAT
1 CGGGTTAGAGGTGTTACAAAT
*
18308933 CGGGTATAGGGGTGTTACAA
1 CGGGT-TAGAGGTGTTACAA
18308953 CGCCATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (21 bp):
CGGGTTAGAGGTGTTACAAAT
Found at i:18311897 original size:2 final size:2
Alignment explanation
Indices: 18311890--18311915 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18311880 TTGAAACACC
18311890 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18311916 TGAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18326588 original size:3 final size:3
Alignment explanation
Indices: 18326573--18326608 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
18326563 TACTATGACT
* *
18326573 TTA TTA CTA TTA TTA TTA TTT TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18326609 CTGTACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18326884 original size:16 final size:16
Alignment explanation
Indices: 18326851--18326884 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18326841 TATTGTACAC
**
18326851 ATATATATGTATTTGA
1 ATATATATGTATGCGA
18326867 ATATATATGTATGCGA
1 ATATATATGTATGCGA
18326883 AT
1 AT
18326885 TTTCATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (16 bp):
ATATATATGTATGCGA
Found at i:18329309 original size:21 final size:23
Alignment explanation
Indices: 18329285--18329329 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
18329275 GTTTGCAGGT
*
18329285 GAGCAGTTG-GGCGATGG-CAGA
1 GAGCAGGTGCGGCGATGGTCAGA
*
18329306 GAGCAGGTGCGGCGCTGGTCAGA
1 GAGCAGGTGCGGCGATGGTCAGA
18329329 G
1 G
18329330 GCGGTGGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.20, C:0.18, G:0.49, T:0.13
Consensus pattern (23 bp):
GAGCAGGTGCGGCGATGGTCAGA
Found at i:18329319 original size:22 final size:22
Alignment explanation
Indices: 18329285--18329336 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
18329275 GTTTGCAGGT
*
18329285 GAGCAGTTGGGCGATGG-CAGA
1 GAGCAGGTGGGCGATGGTCAGA
*
18329306 GAGCAGGTGCGGCGCTGGTCAGA
1 GAGCAGGTG-GGCGATGGTCAGA
18329329 G-GC-GGTGG
1 GAGCAGGTGG
18329337 CAGGGGGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 9 0.33
23 5 0.19
ACGTcount: A:0.17, C:0.17, G:0.52, T:0.13
Consensus pattern (22 bp):
GAGCAGGTGGGCGATGGTCAGA
Found at i:18329928 original size:30 final size:30
Alignment explanation
Indices: 18329892--18329950 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
18329882 TCATGTTTTT
*
18329892 ATGAAATTCAAGTACCAAAATGAACTTAAA
1 ATGAAATTCAAGTACCAAAATAAACTTAAA
* **
18329922 ATGAAATTTAAGTATTAAAATAAACTTAA
1 ATGAAATTCAAGTACCAAAATAAACTTAA
18329951 TTATTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (30 bp):
ATGAAATTCAAGTACCAAAATAAACTTAAA
Found at i:18329955 original size:18 final size:18
Alignment explanation
Indices: 18329917--18329963 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
18329907 CAAAATGAAC
*
18329917 TTAAAATGAAATTTAAGTA
1 TTAAAAT-AAACTTAAGTA
*
18329936 TTAAAATAAACTTAATTA
1 TTAAAATAAACTTAAGTA
*
18329954 TTAAATTAAA
1 TTAAAATAAA
18329964 ATACGGAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TTAAAATAAACTTAAGTA
Found at i:18337999 original size:50 final size:50
Alignment explanation
Indices: 18337887--18338284 Score: 526
Period size: 50 Copynumber: 7.7 Consensus size: 50
18337877 ATTTGGGTAA
*
18337887 AGAGATCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
18337943 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
18337993 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
18338043 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
18338099 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
18338149 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
18338199 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
18338249 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGCAAGACCATGTCTGGGACATGGC
18338285 TTTAGCATGT
Statistics
Matches: 312, Mismatches: 23, Indels: 19
0.88 0.06 0.05
Matches are distributed among these distances:
50 184 0.59
51 31 0.10
53 9 0.03
55 4 0.01
56 84 0.27
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:18338102 original size:106 final size:100
Alignment explanation
Indices: 18337887--18338284 Score: 535
Period size: 106 Copynumber: 3.9 Consensus size: 100
18337877 ATTTGGGTAA
* *
18337887 AGAGATCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAG---ATGAGAGGTCCC
18337952 ATGCAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
60 ATGCAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
18337993 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTCCCATGCAA
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGCAA
*
18338058 GACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
66 GACCATGTCTGGGACATGGCGTTGGCA-CC--GAG---ATG
**
18338099 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATATAA
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGCAA
18338164 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
66 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * ** *
18338199 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACATCCCATGTA
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG-AGGTCCCATGCA
18338264 AGACCATGTCTGGGACATGGC
65 AGACCATGTCTGGGACATGGC
18338285 TTTAGCATGT
Statistics
Matches: 267, Mismatches: 18, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
100 94 0.35
101 32 0.12
103 9 0.03
105 4 0.01
106 128 0.48
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (100 bp):
AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATGCAA
GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:18338176 original size:156 final size:156
Alignment explanation
Indices: 18337887--18338284 Score: 628
Period size: 156 Copynumber: 2.6 Consensus size: 156
18337877 ATTTGGGTAA
*
18337887 AGAGATCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
* * *
18337952 ATGCAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
66 ATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
18338017 TGGGACATGACATTGGCACCGAGATG
131 TGGGACATGACATTGGCACCGAGATG
18338043 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
18338108 ATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
66 ATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
* *
18338173 TGGGACATGGCGTTGGCACCGAGATG
131 TGGGACATGACATTGGCACCGAGATG
** * * **
18338199 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCA--C-T--GAT-ATGAGAACATCC
1 AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAG-AGGTCC
*
18338258 CATGTAAGACCATGTCTGGGACATGGC
65 CATGCAAGACCATGTCTGGGACATGGC
18338285 TTTAGCATGT
Statistics
Matches: 228, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
150 5 0.02
151 33 0.14
153 1 0.00
154 1 0.00
156 188 0.82
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (156 bp):
AGAGGTCCCATGCAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
ATGCAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAGGTCCCATATAAGACCATGTC
TGGGACATGACATTGGCACCGAGATG
Found at i:18339164 original size:40 final size:40
Alignment explanation
Indices: 18339107--18339202 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
18339097 ATGACAAAGA
18339107 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
18339148 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
18339188 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
18339203 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:18343130 original size:11 final size:11
Alignment explanation
Indices: 18343108--18343148 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
18343098 AACTAATCCT
18343108 CTCTCAAATTTC
1 CTCTC-AATTTC
18343120 CTCTCAATTTC
1 CTCTCAATTTC
* *
18343131 CTCTTAATTTG
1 CTCTCAATTTC
18343142 CTCTCAA
1 CTCTCAA
18343149 ATTATAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.22, C:0.32, G:0.02, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:18343305 original size:22 final size:22
Alignment explanation
Indices: 18343263--18343305 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18343253 AGCATTTACA
* *
18343263 TATATATATTTTTTTACATTTT
1 TATATATATTTTTTGAAATTTT
18343285 TATAT-TATTATTTTGAAATTT
1 TATATATATT-TTTTGAAATTT
18343306 AAAGTACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATATATTTTTTGAAATTTT
Found at i:18344661 original size:20 final size:20
Alignment explanation
Indices: 18344618--18344662 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18344608 AGCTTTAATG
* *
18344618 TTTTTTTTTGTTAATTTTAC
1 TTTTTTTTAGTTAATTTGAC
18344638 TTTTTTTTAGTTAAATTTGA-
1 TTTTTTTTAGTT-AATTTGAC
18344658 TTTTT
1 TTTTT
18344663 AAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTTTTTTAGTTAATTTGAC
Found at i:18369750 original size:12 final size:12
Alignment explanation
Indices: 18369733--18369759 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18369723 AGAAAATTTT
18369733 AACAATATGATA
1 AACAATATGATA
18369745 AACAATATGATA
1 AACAATATGATA
18369757 AAC
1 AAC
18369760 CTTGTATACA
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:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (12 bp):
AACAATATGATA
Found at i:18369871 original size:21 final size:21
Alignment explanation
Indices: 18369845--18369884 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
18369835 GTATTTAGTA
18369845 GAGCGTAAAAATAGAAAGATT
1 GAGCGTAAAAATAGAAAGATT
18369866 GAGCGTAAAAATAGAAAGA
1 GAGCGTAAAAATAGAAAGA
18369885 AAAAAATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (21 bp):
GAGCGTAAAAATAGAAAGATT
Found at i:18372047 original size:49 final size:48
Alignment explanation
Indices: 18371992--18372095 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 48
18371982 TCATGTGTTA
* * *
18371992 TAATTTTATACAGTGTT-GAGTTTTTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCCA-TTTTT-ATTCATGATATTAAACTCAATTT
*
18372041 TAATTTTATAAAGTGTTCCCATTTTTATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTT-CCATTTTTATTCATGATATTAAACTCAATTT
18372090 TAATTT
1 TAATTT
18372096 GTTTTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 43 0.88
50 5 0.10
51 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (48 bp):
TAATTTTATAAAGTGTTCCATTTTTATTCATGATATTAAACTCAATTT
Found at i:18373371 original size:26 final size:26
Alignment explanation
Indices: 18373333--18373473 Score: 86
Period size: 26 Copynumber: 5.5 Consensus size: 26
18373323 AAGTAGATTA
18373333 TAAATTATA-TTTAATAATAATTATT
1 TAAATTATATTTTAATAATAATTATT
*
18373358 TAAATTATATTTT-ATAGT-ATTA--
1 TAAATTATATTTTAATAATAATTATT
* * *
18373380 TATATTATGATTTTAGT-A-AATTCATA
1 TAAATTAT-ATTTTAATAATAATT-ATT
* * *
18373406 TAAGA--ATATTTAATATTAAGAATTTTAT
1 TAA-ATTATATTT--TAATAATAATTAT-T
18373434 TAAATTATA-TTTAATAATAATTATTT
1 TAAATTATATTTTAATAATAATTA-TT
18373460 TAAATTATATTTTA
1 TAAATTATATTTTA
18373474 TAGTATTATA
Statistics
Matches: 88, Mismatches: 11, Indels: 32
0.67 0.08 0.24
Matches are distributed among these distances:
22 7 0.08
23 8 0.09
24 10 0.11
25 15 0.17
26 27 0.31
27 9 0.10
28 9 0.10
29 3 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (26 bp):
TAAATTATATTTTAATAATAATTATT
Found at i:18373517 original size:102 final size:98
Alignment explanation
Indices: 18373333--18373542 Score: 366
Period size: 102 Copynumber: 2.1 Consensus size: 98
18373323 AAGTAGATTA
18373333 TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
1 TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
*
18373398 AATTCATATAAGAATATTTAATATTAAGAATTTTAT
66 AATTCATATAAGAATA-TT--TATTAACAATTTTAT
*
18373434 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGGTTTTAGT
1 TAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
18373499 AAATTCATATAAGAATATTTATTAACAATTTTAT
65 AAATTCATATAAGAATATTTATTAACAATTTTAT
18373533 TAAATTATAT
1 TAAATTATAT
18373543 ATTTTTATTA
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
99 24 0.23
101 25 0.24
102 57 0.54
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (98 bp):
TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTA
AATTCATATAAGAATATTTATTAACAATTTTAT
Found at i:18373631 original size:51 final size:52
Alignment explanation
Indices: 18373517--18373633 Score: 123
Period size: 55 Copynumber: 2.2 Consensus size: 52
18373507 ATAAGAATAT
* *
18373517 TTATTAACAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAACAA
1 TTATTAA-AATATGATTAAATTATATATTTTTATTAAATTATATTTAATAAC-A
* *
18373571 TTATGTTAAAATATGATTAAATTATTTATTATTTATT-ATTTATA-TTAATAATC-
1 TTA--TTAAAATATGATTAAATTATATATT-TTTATTAAATTATATTTAATAA-CA
18373624 TTATTAAAAT
1 TTATTAAAAT
18373634 TTAATAACAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
51 7 0.13
53 3 0.05
54 10 0.18
55 25 0.45
56 10 0.18
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (52 bp):
TTATTAAAATATGATTAAATTATATATTTTTATTAAATTATATTTAATAACA
Found at i:18373767 original size:39 final size:43
Alignment explanation
Indices: 18373714--18373815 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
18373704 TTTCCTTATG
* *
18373714 CTATTACACATCTATTC-T-ATTCAACCAAACACAAGAA-TAC
1 CTATTACACCTCTATTCATCATTCAACCAAACAAAAGAATTAC
* *
18373754 C-ATTACGCCTCTATTCCATTCCATTCAACCAAGCAAAAGAATTAC
1 CTATTACACCTCTATT-CA-T-CATTCAACCAAACAAAAGAATTAC
18373799 CTATTACACCTCTATTC
1 CTATTACACCTCTATTC
18373816 CATTACACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
39 12 0.24
40 2 0.04
42 1 0.02
44 17 0.34
45 5 0.10
46 13 0.26
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.29
Consensus pattern (43 bp):
CTATTACACCTCTATTCATCATTCAACCAAACAAAAGAATTAC
Found at i:18373782 original size:44 final size:46
Alignment explanation
Indices: 18373727--18373819 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
18373717 TTACACATCT
* * *
18373727 ATTCTATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
*
18373771 ATTCCATTCAACCAAGCAAAAGAATTACCTATTACACCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
18373817 ATT
1 ATT
18373820 ACACTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 21 0.49
45 4 0.09
46 18 0.42
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
Found at i:18374782 original size:20 final size:21
Alignment explanation
Indices: 18374737--18374782 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18374727 GGTTTTCTAG
18374737 GATTTTTTATTTTAGTGTTTA
1 GATTTTTTATTTTAGTGTTTA
* *
18374758 CATTTTTTATTTTA-TTTTTA
1 GATTTTTTATTTTAGTGTTTA
18374778 GATTT
1 GATTT
18374783 AAAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.70
Consensus pattern (21 bp):
GATTTTTTATTTTAGTGTTTA
Found at i:18376923 original size:25 final size:25
Alignment explanation
Indices: 18376883--18376975 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 25
18376873 CCCATATGAG
*
18376883 CATATAATCAGGAAGCTCTTTCGAGC
1 CATATAA-CGGGAAGCTCTTTCGAGC
* * *
18376909 CATATAACGGAAAGCTCATGT-AAGC
1 CATATAACGGGAAGCTC-TTTCGAGC
** *
18376934 TGTATAACGGGAAGCTCTTGCGAGC
1 CATATAACGGGAAGCTCTTTCGAGC
* *
18376959 CAAATATCGGGAAGCTC
1 CATATAACGGGAAGCTC
18376976 AAGAAAGCCA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
24 1 0.02
25 41 0.80
26 9 0.18
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.23
Consensus pattern (25 bp):
CATATAACGGGAAGCTCTTTCGAGC
Found at i:18377257 original size:24 final size:23
Alignment explanation
Indices: 18377213--18377274 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
18377203 AATTATATAT
* *
18377213 TAAATAT-TTTTTTATT-TTTAA
1 TAAATATATTTTATATTATTAAA
18377234 TCAAATATATTTTATATATATTAAA
1 T-AAATATATTTTATAT-TATTAAA
* *
18377259 TATATATATTTAATAT
1 TAAATATATTTTATAT
18377275 GGGTCGGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 6 0.18
23 7 0.21
24 14 0.42
25 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TAAATATATTTTATATTATTAAA
Found at i:18377445 original size:25 final size:25
Alignment explanation
Indices: 18377411--18377460 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
18377401 ATCACCTCTA
*
18377411 GTGAGAGCCAAGTATCGGGAAGCTC
1 GTGAGAGCCAAATATCGGGAAGCTC
*
18377436 GTGAGAGCCAAATATCGGGACGCTC
1 GTGAGAGCCAAATATCGGGAAGCTC
18377461 ATAAAAGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.34, T:0.16
Consensus pattern (25 bp):
GTGAGAGCCAAATATCGGGAAGCTC
Found at i:18391630 original size:13 final size:13
Alignment explanation
Indices: 18391614--18391679 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
18391604 TTTAAACTAA
18391614 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
18391627 ACTTCTT-AAAAAC
1 ACTT-TTCAAAAAC
* * ***
18391640 ACATTTCTACGTC
1 ACTTTTCAAAAAC
18391653 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
18391666 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
18391679 A
1 A
18391680 TTCTCAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:18391686 original size:12 final size:13
Alignment explanation
Indices: 18391614--18391687 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 13
18391604 TTTAAACTAA
*
18391614 ACTTTTCAAAAAC
1 ACTTCTCAAAAAC
*
18391627 ACTTCTTAAAAAC
1 ACTTCTCAAAAAC
* ***
18391640 ACATT-TCTACGTC
1 AC-TTCTCAAAAAC
*
18391653 ACTTTTCAAAAAC
1 ACTTCTCAAAAAC
*
18391666 ACTTTTCAAAAAC
1 ACTTCTCAAAAAC
18391679 A-TTCTCAAA
1 ACTTCTCAAA
18391688 CTAACCTTTA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
12 9 0.19
13 36 0.77
14 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.32
Consensus pattern (13 bp):
ACTTCTCAAAAAC
Found at i:18407736 original size:23 final size:23
Alignment explanation
Indices: 18407710--18407754 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
18407700 AAATTAATTA
*
18407710 TGTAATATCCCGAAAATTACTAT
1 TGTAATACCCCGAAAATTACTAT
18407733 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
18407755 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAT
Found at i:18407760 original size:23 final size:23
Alignment explanation
Indices: 18407711--18407760 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
18407701 AATTAATTAT
* **
18407711 GTAATATCCCGAAAATTACTATT
1 GTAATACCCCGAAAATTACTACA
18407734 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
18407757 GTAA
1 GTAA
18407761 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:18409635 original size:46 final size:46
Alignment explanation
Indices: 18409568--18409661 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
18409558 ACAATGCTAT
18409568 AACTCAGTATAGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATAGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
* **
18409614 AACTCAGTATGGTTTTTTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATAGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
18409660 AA
1 AA
18409662 TTTGCCATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (46 bp):
AACTCAGTATAGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:18413030 original size:24 final size:25
Alignment explanation
Indices: 18412998--18413049 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18412988 TGATCGAGAT
* *
18412998 GCTCCGAAGAGCA-TTTAATGGGAA
1 GCTCCGAAGAACACTATAATGGGAA
*
18413022 GCTCGGAAGAACACTATAATGGGAA
1 GCTCCGAAGAACACTATAATGGGAA
18413047 GCT
1 GCT
18413050 TGAAAAGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (25 bp):
GCTCCGAAGAACACTATAATGGGAA
Found at i:18415405 original size:17 final size:17
Alignment explanation
Indices: 18415385--18415422 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18415375 AATAATTTAA
*
18415385 AATATAAACATTAATAT
1 AATATAAAAATTAATAT
*
18415402 AATATAAAAATTATTAT
1 AATATAAAAATTAATAT
18415419 AATA
1 AATA
18415423 AATAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATAAAAATTAATAT
Found at i:18420688 original size:20 final size:18
Alignment explanation
Indices: 18420663--18420734 Score: 73
Period size: 20 Copynumber: 4.1 Consensus size: 18
18420653 TAAATATTTT
18420663 TATTTTTTAATTTTAAAA
1 TATTTTTTAATTTTAAAA
*
18420681 TACTTTTT--TTTT--AA
1 TATTTTTTAATTTTAAAA
18420695 T-TTTTTTAATTTTAAAA
1 TATTTTTTAATTTTAAAA
18420712 TAATTTTTTTAATTTTTAAAA
1 T-A-TTTTTTAA-TTTTAAAA
18420733 TA
1 TA
18420735 AATTTTTGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
13 5 0.11
14 3 0.07
15 4 0.09
16 4 0.09
17 3 0.07
18 7 0.16
20 9 0.20
21 9 0.20
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTTTAATTTTAAAA
Found at i:18420700 original size:9 final size:9
Alignment explanation
Indices: 18420686--18420728 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
18420676 TAAAATACTT
18420686 TTTTTTTAA
1 TTTTTTTAA
18420695 TTTTTTTAA
1 TTTTTTTAA
**
18420704 TTTTAAAATAA
1 TTTT--TTTAA
18420715 TTTTTTTAA
1 TTTTTTTAA
18420724 TTTTT
1 TTTTT
18420729 AAAATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 21 0.75
11 7 0.25
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:18420703 original size:31 final size:29
Alignment explanation
Indices: 18420665--18420728 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 29
18420655 AATATTTTTA
*
18420665 TTTTTTAATTTTAAAATACTTTTTTTTTAAT
1 TTTTTTAATTTTAAAATA--ATTTTTTTAAT
18420696 TTTTTTAATTTTAAAATAATTTTTTTAAT
1 TTTTTTAATTTTAAAATAATTTTTTTAAT
18420725 TTTT
1 TTTT
18420729 AAAATAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 14 0.44
31 18 0.56
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTTTAATTTTAAAATAATTTTTTTAAT
Found at i:18420721 original size:21 final size:21
Alignment explanation
Indices: 18420692--18420741 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
18420682 ACTTTTTTTT
18420692 TAATTTTTTTAA-TTTTAAAA
1 TAATTTTTTTAATTTTTAAAA
18420712 TAATTTTTTTAATTTTTAAAA
1 TAATTTTTTTAATTTTTAAAA
*
18420733 TAAATTTTT
1 TAATTTTTT
18420742 GGTATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATTTTTTTAATTTTTAAAA
Found at i:18420748 original size:22 final size:21
Alignment explanation
Indices: 18420692--18420756 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
18420682 ACTTTTTTTT
*
18420692 TAATTTTTTTAA-TTTTAAAA
1 TAATTTTTGTAATTTTTAAAA
*
18420712 TAATTTTTTTAATTTTTAAAA
1 TAATTTTTGTAATTTTTAAAA
*
18420733 TAAATTTTTGGTATTTATTTAAAA
1 T-AATTTTT-GTAATT-TTTAAAA
18420757 AACGGACCGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.31
21 9 0.23
22 7 0.18
23 4 0.10
24 7 0.18
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (21 bp):
TAATTTTTGTAATTTTTAAAA
Found at i:18421461 original size:7 final size:7
Alignment explanation
Indices: 18421449--18421486 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
18421439 TAATAAAAAC
18421449 AAATTAG
1 AAATTAG
18421456 AAATTAG
1 AAATTAG
18421463 AAATTAG
1 AAATTAG
18421470 AAATTAG
1 AAATTAG
18421477 AAATTAG
1 AAATTAG
18421484 AAA
1 AAA
18421487 ATGATTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAATTAG
Found at i:18423996 original size:25 final size:26
Alignment explanation
Indices: 18423962--18424010 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18423952 AGTGGTAGTC
*
18423962 TCTAGGCATA-TTTGTGAAAAGGAAT
1 TCTAGGCATATTTTGCGAAAAGGAAT
18423987 TCTAGGCATATTTTGCGAAAAGGA
1 TCTAGGCATATTTTGCGAAAAGGA
18424011 GTAAGTGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (26 bp):
TCTAGGCATATTTTGCGAAAAGGAAT
Found at i:18430414 original size:23 final size:25
Alignment explanation
Indices: 18430365--18430415 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
18430355 TACTCACTTT
* *
18430365 AATATATATATTATTGTTCCATCTC
1 AATATATATATTAATATTCCATCTC
*
18430390 AATATATAT-TTAATATT-CATTTC
1 AATATATATATTAATATTCCATCTC
18430413 AAT
1 AAT
18430416 CCTTGATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
24 6 0.26
25 9 0.39
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (25 bp):
AATATATATATTAATATTCCATCTC
Found at i:18446742 original size:21 final size:20
Alignment explanation
Indices: 18446697--18446736 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
18446687 CACGACCAAC
18446697 AAATATATTAATATATAAGCA
1 AAATATATTAATATATAA-CA
*
18446718 AAATATAATTATTATATAA
1 AAATAT-ATTAATATATAA
18446737 ATAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATATATTAATATATAACA
Found at i:18451076 original size:17 final size:18
Alignment explanation
Indices: 18451056--18451090 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18451046 TTTATTAATT
*
18451056 TTAAAATTTTAAA-AAAA
1 TTAAAATATTAAATAAAA
18451073 TTAAAATATTAAATAAAA
1 TTAAAATATTAAATAAAA
18451091 AAAATTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAATATTAAATAAAA
Found at i:18454886 original size:19 final size:18
Alignment explanation
Indices: 18454834--18454890 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
18454824 TTGAAAATAA
18454834 TTATAATTG-TAATAATT
1 TTATAATTGTTAATAATT
*
18454851 TT-TAATCAT-TTATTAATT
1 TTATAAT--TGTTAATAATT
18454869 TTATAATTGTTAAATAATT
1 TTATAATTGTT-AATAATT
18454888 TTA
1 TTA
18454891 AAAATTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 12 0.38
19 13 0.41
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (18 bp):
TTATAATTGTTAATAATT
Found at i:18455028 original size:21 final size:21
Alignment explanation
Indices: 18455004--18455056 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
18454994 CGCTATTTCT
* *
18455004 AATCTCACTGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
18455025 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
18455046 AATCTCACCGC
1 AATCTCACCGC
18455057 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:18466591 original size:43 final size:43
Alignment explanation
Indices: 18466543--18466624 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
18466533 TTAACCACGT
** * *
18466543 TAAGGTTAAATTTTCATATTTATTCAAAATAATCACATTCTGA
1 TAAGGTTAAATTCCCACATTTATTCAAAAGAATCACATTCTGA
* *
18466586 TAAGGTTAACTTCCCACATTTATTCAAAAGAATCGCATT
1 TAAGGTTAAATTCCCACATTTATTCAAAAGAATCACATT
18466625 TTCTTATGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (43 bp):
TAAGGTTAAATTCCCACATTTATTCAAAAGAATCACATTCTGA
Found at i:18470283 original size:15 final size:15
Alignment explanation
Indices: 18470263--18470300 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
18470253 TACACACGAC
18470263 TGTGTCACTTGGTCA
1 TGTGTCACTTGGTCA
18470278 TGTGTCACTTGGTCA
1 TGTGTCACTTGGTCA
18470293 TGTGTCAC
1 TGTGTCAC
18470301 ACACGGCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.21, G:0.26, T:0.39
Consensus pattern (15 bp):
TGTGTCACTTGGTCA
Found at i:18471904 original size:46 final size:46
Alignment explanation
Indices: 18471839--18472106 Score: 215
Period size: 36 Copynumber: 6.5 Consensus size: 46
18471829 TGAGTACTTT
* * *
18471839 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTGTT
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
18471885 TGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTATC
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
18471921 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
18471967 TGATCAAGTGAAAAAGTGATAA---GT-G--TTA--T--ACTTATC
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
18472003 TGATCAAGTGAAAAAGTGATAAGT-G-A----TA--T--ACTTATC
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
18472039 TGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
18472084 TGATCAAG-GACAAA-TGATAAGTG
1 TGATCAAGAGAAAAAGTGATAAGTG
18472107 ATCATACGTA
Statistics
Matches: 191, Mismatches: 9, Indels: 47
0.77 0.04 0.19
Matches are distributed among these distances:
36 90 0.47
37 3 0.02
38 3 0.02
40 5 0.03
41 2 0.01
42 3 0.02
43 12 0.06
44 6 0.03
45 17 0.09
46 50 0.26
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (46 bp):
TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:18471976 original size:82 final size:82
Alignment explanation
Indices: 18471839--18472027 Score: 315
Period size: 82 Copynumber: 2.3 Consensus size: 82
18471829 TGAGTACTTT
* * *
18471839 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTGTTTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
18471904 TAAGTGCTACACTTATC
66 TAAGTGCTACACTTATC
*
18471921 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
* *
18471986 TAAGTGTTATACTTATC
66 TAAGTGCTACACTTATC
*
18472003 TGATCAAGTGAAAAAGTGATAAGTG
1 TGATCAAGAGAAAAAGTGATAAGTG
18472028 ATATACTTAT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 100 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (82 bp):
TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
TAAGTGCTACACTTATC
Found at i:18474715 original size:42 final size:42
Alignment explanation
Indices: 18474622--18474762 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 42
18474612 TTGAAGGCTG
* * * * * *
18474622 AACAGAAGCACATAAGTGCTAAACAGAAACCCCATGAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAAC-GAAAACCCATAAGGGTTA
* *
18474665 AACGGAAGCTCATAAGAGCTGAATGAAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTA
* * * * *
18474707 AACTGAAGCTCAAAAGAGTTGAACGGAAACCCATTAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTA
*
18474749 AACAGAAACTCATA
1 AACAGAAGCTCATA
18474763 TGAGTTAACA
Statistics
Matches: 81, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 62 0.77
43 19 0.23
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTA
Found at i:18478401 original size:11 final size:11
Alignment explanation
Indices: 18478385--18478410 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18478375 TAGAAGAGAC
18478385 GAAACAGGGGA
1 GAAACAGGGGA
18478396 GAAACAGGGGA
1 GAAACAGGGGA
18478407 GAAA
1 GAAA
18478411 GAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:18479092 original size:3 final size:3
Alignment explanation
Indices: 18479071--18479114 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
18479061 GTAAGTATAA
* *
18479071 TAT TAG TAT TAA T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18479115 GAGTGGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 35 0.97
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:18483574 original size:21 final size:22
Alignment explanation
Indices: 18483527--18483580 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
18483517 AATTATTTTG
18483527 TTCAATTAATAAATTTTTAAAAAT
1 TTCAATT-A-AAATTTTTAAAAAT
* *
18483551 TTCGATTAAAATTTTT-AAAGT
1 TTCAATTAAAATTTTTAAAAAT
18483572 TTCAATTAA
1 TTCAATTAA
18483581 TAATAATTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.44
22 8 0.30
23 1 0.04
24 6 0.22
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (22 bp):
TTCAATTAAAATTTTTAAAAAT
Found at i:18484211 original size:126 final size:126
Alignment explanation
Indices: 18483986--18484451 Score: 761
Period size: 126 Copynumber: 3.7 Consensus size: 126
18483976 CGTCTCTGGT
* * * *
18483986 CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAATAAATTGTGAAATCGCGCCCCCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
* * *
18484051 TGGACGCGATTTTGCTACAGTAGGTGATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATGTTTCTAAG
* * *
18484112 CAAATAGTATAAAACCGTTTGTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
* * *
18484177 TAGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTTTTTCTGATGTTTCTAAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATGTTTCTAAG
* * *
18484238 CAAATAGTATAAAATCGTTTGTACGAGGATGCTATTTGAGAAAAAATTGTGAAATCGTGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
* *
18484303 TGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTAATGTTTCTAAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATGTTTCTAAG
*
18484364 CAAATAGTATAAAATCGTTTCTACGAGAATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
18484429 TGGACGCGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
18484452 CAAGTTTGGG
Statistics
Matches: 317, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 317 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (126 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATGTTTCTAAG
Found at i:18485658 original size:7 final size:7
Alignment explanation
Indices: 18485648--18485672 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18485638 TTATATACAT
18485648 AATACTA
1 AATACTA
18485655 AATACTA
1 AATACTA
18485662 AATACTA
1 AATACTA
18485669 AATA
1 AATA
18485673 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:18486794 original size:29 final size:29
Alignment explanation
Indices: 18486752--18486814 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
18486742 GCCATTGATG
* *
18486752 AAAATATAAAAAAATTTAAAATTATTTTA
1 AAAAAATAAAAAAAATTAAAATTATTTTA
* *
18486781 AAAAAATATAAAAAATTATAATTATTTTA
1 AAAAAATAAAAAAAATTAAAATTATTTTA
18486810 AAAAA
1 AAAAA
18486815 TGGATTTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAAAATAAAAAAAATTAAAATTATTTTA
Found at i:18486885 original size:22 final size:22
Alignment explanation
Indices: 18486860--18486910 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
18486850 AAATATGAGT
18486860 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
18486882 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
18486904 TTGAGAG
1 TTGAGAG
18486911 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:18489624 original size:19 final size:20
Alignment explanation
Indices: 18489588--18489627 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18489578 GATTAATGGG
18489588 AAAAAAAGAAAACAATAATA
1 AAAAAAAGAAAACAATAATA
18489608 AAAAGAAAG-AAAC-ATAATA
1 AAAA-AAAGAAAACAATAATA
18489627 A
1 A
18489628 CAATAACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (20 bp):
AAAAAAAGAAAACAATAATA
Found at i:18495951 original size:7 final size:7
Alignment explanation
Indices: 18495939--18495963 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18495929 CTCAAATGGG
18495939 TGAAATT
1 TGAAATT
18495946 TGAAATT
1 TGAAATT
18495953 TGAAATT
1 TGAAATT
18495960 TGAA
1 TGAA
18495964 GCCATTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (7 bp):
TGAAATT
Found at i:18502410 original size:45 final size:45
Alignment explanation
Indices: 18502352--18502504 Score: 213
Period size: 45 Copynumber: 3.5 Consensus size: 45
18502342 TAGGCAATAA
* *
18502352 GGGATGTGCAGGCAATGGTGGTGGTGGTGGTGGTTTTGGCAGGGG
1 GGGAGGTGTAGGCAATGGTGGTGGTGGTGGTGGTTTTGGCAGGGG
18502397 GGGAGGTGTAGGCAA---TGGTGGTGGTGGTGGTTTTGGCAGGGG
1 GGGAGGTGTAGGCAATGGTGGTGGTGGTGGTGGTTTTGGCAGGGG
** * * *
18502439 GGGAGGTGTAGGCAATGGTGGTCTTGGTGGAGGTTTCGGCAGAGG
1 GGGAGGTGTAGGCAATGGTGGTGGTGGTGGTGGTTTTGGCAGGGG
*
18502484 GGGAGGTATAGGCAATGGTGG
1 GGGAGGTGTAGGCAATGGTGG
18502505 AACCGGGGGT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
42 42 0.43
45 55 0.57
ACGTcount: A:0.14, C:0.07, G:0.54, T:0.25
Consensus pattern (45 bp):
GGGAGGTGTAGGCAATGGTGGTGGTGGTGGTGGTTTTGGCAGGGG
Found at i:18502416 original size:42 final size:42
Alignment explanation
Indices: 18502370--18502504 Score: 207
Period size: 42 Copynumber: 3.1 Consensus size: 42
18502360 CAGGCAATGG
18502370 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAA
1 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAA
18502412 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAA
1 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAA
* * * *
18502454 TGGTGGTCTTGGTGGAGGTTTCGGCAGAGGGGGAGGTATAGGCAA
1 TGGTGG---TGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAA
18502499 TGGTGG
1 TGGTGG
18502505 AACCGGGGGT
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
42 48 0.56
45 38 0.44
ACGTcount: A:0.13, C:0.06, G:0.55, T:0.26
Consensus pattern (42 bp):
TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAA
Found at i:18502530 original size:87 final size:87
Alignment explanation
Indices: 18502352--18502555 Score: 232
Period size: 87 Copynumber: 2.3 Consensus size: 87
18502342 TAGGCAATAA
* * ** * * * *
18502352 GGGATGTGCAGGCAATGGTGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTG
1 GGGAGGTGTAGGCAATGGTGGTCTTGGTGGAGGTTTCGGCAGAGGGGGAGGTATAGGCAATGGTG
**** * * *
18502417 GTGGTGGTGGTTTTGGCAGGGG
66 GAACCGGGGGTTATGGCAGGGC
18502439 GGGAGGTGTAGGCAATGGTGGTCTTGGTGGAGGTTTCGGCAGAGGGGGAGGTATAGGCAATGGTG
1 GGGAGGTGTAGGCAATGGTGGTCTTGGTGGAGGTTTCGGCAGAGGGGGAGGTATAGGCAATGGTG
18502504 GAACCGGGGGTTATGGC-GGTGC
66 GAACCGGGGGTTATGGCAGG-GC
*
18502526 GGGAGGTGTAGGAAATGGTGG-CTTTGGTGG
1 GGGAGGTGTAGGCAATGGTGGTC-TTGGTGG
18502556 TGGTATGGGC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
86 3 0.03
87 96 0.97
ACGTcount: A:0.15, C:0.07, G:0.53, T:0.25
Consensus pattern (87 bp):
GGGAGGTGTAGGCAATGGTGGTCTTGGTGGAGGTTTCGGCAGAGGGGGAGGTATAGGCAATGGTG
GAACCGGGGGTTATGGCAGGGC
Found at i:18502617 original size:6 final size:6
Alignment explanation
Indices: 18502608--18502642 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
18502598 TGGGTTTGGG
18502608 GGTGGA GGTGGA GGTGGA GGTGGA GG-GGA CGGTGG
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA -GGTGG
18502643 TGGCTACGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 3 0.11
6 22 0.81
7 2 0.07
ACGTcount: A:0.14, C:0.03, G:0.69, T:0.14
Consensus pattern (6 bp):
GGTGGA
Found at i:18510606 original size:57 final size:58
Alignment explanation
Indices: 18510507--18510625 Score: 204
Period size: 57 Copynumber: 2.1 Consensus size: 58
18510497 AAATCAATGT
*
18510507 ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATTACACAATTCAATTTGGATTTG
1 ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATCACACAATTCAATTTGGATTTG
* *
18510565 ATTT-ATTTGATTTTAGGTTGGTGTATTATTTAAATCGCACAATTCAATTTGGATTTG
1 ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATCACACAATTCAATTTGGATTTG
18510622 ATTT
1 ATTT
18510626 TTTCACATGA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 54 0.93
58 4 0.07
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (58 bp):
ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATCACACAATTCAATTTGGATTTG
Found at i:18517077 original size:6 final size:6
Alignment explanation
Indices: 18517066--18517090 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18517056 AATGGTTTAA
18517066 TTCAAT TTCAAT TTCAAT TTCAAT T
1 TTCAAT TTCAAT TTCAAT TTCAAT T
18517091 AAATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCAAT
Found at i:18519259 original size:27 final size:27
Alignment explanation
Indices: 18519227--18519278 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
18519217 CCACTGAATC
*
18519227 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
18519254 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
18519279 TTTCATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:18519371 original size:102 final size:104
Alignment explanation
Indices: 18519195--18519458 Score: 410
Period size: 102 Copynumber: 2.5 Consensus size: 104
18519185 ACCGTTATTG
* *
18519195 GTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
18519260 TCAGCACATAGCAA-CCCCTTTT-CATTTCAAAGATACA
66 TCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACA
18519297 GTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGGA
**
18519361 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATG
65 ATCAGCACATAGCAACCCCCTTTT-ACATTTCAAAGATACA
* **
18519402 GTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
18519459 TTATATACAA
Statistics
Matches: 149, Mismatches: 7, Indels: 9
0.90 0.04 0.05
Matches are distributed among these distances:
101 1 0.01
102 75 0.50
103 8 0.05
105 63 0.42
106 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACA
Found at i:18521710 original size:20 final size:21
Alignment explanation
Indices: 18521680--18521728 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
18521670 TATATAAAAA
*
18521680 TATTATTGTAATAA-TATAATT
1 TATT-TTGTAAAAAGTATAATT
*
18521701 TATTTTGTAAAAAGTATGATT
1 TATTTTGTAAAAAGTATAATT
18521722 T-TTTTGT
1 TATTTTGT
18521729 CATTTTCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TATTTTGTAAAAAGTATAATT
Found at i:18529318 original size:24 final size:24
Alignment explanation
Indices: 18529258--18529324 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
18529248 TCAATATTTG
18529258 GCTC-TCACGAGCTTCCCGTTATAT
1 GCTCTTCA-GAGCTTCCCGTTATAT
*
18529282 GATTCTTGC-GAGCTTCCCGTTA-AT
1 G-CTCTT-CAGAGCTTCCCGTTATAT
*
18529306 AGCTCTTCAGAGCATCCCG
1 -GCTCTTCAGAGCTTCCCG
18529325 ATTGGTTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
23 1 0.03
24 16 0.46
25 16 0.46
26 1 0.03
27 1 0.03
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.31
Consensus pattern (24 bp):
GCTCTTCAGAGCTTCCCGTTATAT
Found at i:18529509 original size:23 final size:24
Alignment explanation
Indices: 18529482--18529529 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
18529472 GAACTTCCCG
*
18529482 ATTACAT-CTCTTATAAGCTTCCT
1 ATTACATACTCATATAAGCTTCCT
*
18529505 ATTACATGACTCATATTAGCTTCCT
1 ATTACAT-ACTCATATAAGCTTCCT
18529530 GTTATATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (24 bp):
ATTACATACTCATATAAGCTTCCT
Found at i:18530197 original size:49 final size:47
Alignment explanation
Indices: 18530111--18530205 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 47
18530101 CCGCTAAGGC
18530111 TCTTTCATGAGCTTCCTGATTAATGGCTCTCCAGAGCTTCCCGATTACA
1 TCTTTCATGAGCTTCCTGATTAATGGCTCT-CAGAGCTTCCC-ATTACA
*
18530160 TCTTTTATGAGCTTCCTG-TTACATGGCTCAT-ATGAGCTTCCCATTA
1 TCTTTCATGAGCTTCCTGATTA-ATGGCTC-TCA-GAGCTTCCCATTA
18530206 TATGGCCCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
48 8 0.19
49 33 0.79
50 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (47 bp):
TCTTTCATGAGCTTCCTGATTAATGGCTCTCAGAGCTTCCCATTACA
Found at i:18539132 original size:177 final size:177
Alignment explanation
Indices: 18538836--18539191 Score: 712
Period size: 177 Copynumber: 2.0 Consensus size: 177
18538826 AAGAATACAG
18538836 GTTTGGATGATTATATAATTTTAGTTCCGGGGCTTTTTGTATATTCAGGTCCCGAATTTATGGTG
1 GTTTGGATGATTATATAATTTTAGTTCCGGGGCTTTTTGTATATTCAGGTCCCGAATTTATGGTG
18538901 CCAAAGGTAAATAAGTTTCCGATGACCAAATCCAATTTTTCAAGCTTGAGAGAGAATTTGGTCTT
66 CCAAAGGTAAATAAGTTTCCGATGACCAAATCCAATTTTTCAAGCTTGAGAGAGAATTTGGTCTT
18538966 CTGTTATGATATATGAAATTTTAGCTATATGTGTATTTTGATGTTGT
131 CTGTTATGATATATGAAATTTTAGCTATATGTGTATTTTGATGTTGT
18539013 GTTTGGATGATTATATAATTTTAGTTCCGGGGCTTTTTGTATATTCAGGTCCCGAATTTATGGTG
1 GTTTGGATGATTATATAATTTTAGTTCCGGGGCTTTTTGTATATTCAGGTCCCGAATTTATGGTG
18539078 CCAAAGGTAAATAAGTTTCCGATGACCAAATCCAATTTTTCAAGCTTGAGAGAGAATTTGGTCTT
66 CCAAAGGTAAATAAGTTTCCGATGACCAAATCCAATTTTTCAAGCTTGAGAGAGAATTTGGTCTT
18539143 CTGTTATGATATATGAAATTTTAGCTATATGTGTATTTTGATGTTGT
131 CTGTTATGATATATGAAATTTTAGCTATATGTGTATTTTGATGTTGT
18539190 GT
1 GT
18539192 GGGCGGGGGG
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 179 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (177 bp):
GTTTGGATGATTATATAATTTTAGTTCCGGGGCTTTTTGTATATTCAGGTCCCGAATTTATGGTG
CCAAAGGTAAATAAGTTTCCGATGACCAAATCCAATTTTTCAAGCTTGAGAGAGAATTTGGTCTT
CTGTTATGATATATGAAATTTTAGCTATATGTGTATTTTGATGTTGT
Found at i:18544320 original size:21 final size:21
Alignment explanation
Indices: 18544294--18544421 Score: 152
Period size: 21 Copynumber: 6.1 Consensus size: 21
18544284 TTACTTTCCA
18544294 TTCAACTCTT-TCGAGCTTCTG
1 TTCAACTCTTAT-GAGCTTCTG
* *
18544315 TTCAACTCTTATAAGTTTCTG
1 TTCAACTCTTATGAGCTTCTG
* * *
18544336 TTCAGCTCTTACGAGTTTCTG
1 TTCAACTCTTATGAGCTTCTG
*
18544357 TTCAACTCTTATGAGTTTCTG
1 TTCAACTCTTATGAGCTTCTG
* *
18544378 TTCAGCTCTTACGAGCTTCTG
1 TTCAACTCTTATGAGCTTCTG
18544399 TT-AAGCTCTTATGAGCTTCTG
1 TTCAA-CTCTTATGAGCTTCTG
18544420 TT
1 TT
18544422 AATAATGTAC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 1 0.01
21 91 0.98
22 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (21 bp):
TTCAACTCTTATGAGCTTCTG
Found at i:18544356 original size:42 final size:42
Alignment explanation
Indices: 18544294--18544421 Score: 195
Period size: 42 Copynumber: 3.0 Consensus size: 42
18544284 TTACTTTCCA
* * *
18544294 TTCAACTCTTTCGAGCTTCTGTTCAACTCTTATAAGTTTCTG
1 TTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTCTG
*
18544336 TTCAGCTCTTACGAGTTTCTGTTCAACTCTTATGAGTTTCTG
1 TTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTCTG
*
18544378 TTCAGCTCTTACGAGCTTCTGTT-AAGCTCTTATGAGCTTCTG
1 TTCAGCTCTTACGAGCTTCTGTTCAA-CTCTTATGAGTTTCTG
18544420 TT
1 TT
18544422 AATAATGTAC
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 2 0.03
42 77 0.97
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (42 bp):
TTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTCTG
Found at i:18544377 original size:63 final size:63
Alignment explanation
Indices: 18544294--18544421 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 63
18544284 TTACTTTCCA
* * * *
18544294 TTCAACTCTTTCGAGCTTCTGTTCAACTCTTATAAGTTTCTGTTCAGCTCTTACGAGTTTCTG
1 TTCAACTCTTTCGAGCTTCTGTTCAACTCTTACAAGCTTCTGTTAAGCTCTTACGAGCTTCTG
* * * *
18544357 TTCAACTCTTAT-GAGTTTCTGTTCAGCTCTTACGAGCTTCTGTTAAGCTCTTATGAGCTTCTG
1 TTCAACTCTT-TCGAGCTTCTGTTCAACTCTTACAAGCTTCTGTTAAGCTCTTACGAGCTTCTG
18544420 TT
1 TT
18544422 AATAATGTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 55 0.98
64 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (63 bp):
TTCAACTCTTTCGAGCTTCTGTTCAACTCTTACAAGCTTCTGTTAAGCTCTTACGAGCTTCTG
Found at i:18571754 original size:46 final size:46
Alignment explanation
Indices: 18571687--18571863 Score: 284
Period size: 46 Copynumber: 3.8 Consensus size: 46
18571677 AGTGTGGAAT
18571687 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * *
18571733 GTAGGTATGATAGTTCAGTAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
18571779 GTAGGTATGGTATTTCAATAACA-AAAATCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAA-AGAAAACCATACTGAGTTGTGAAAA
*
18571825 GTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
18571864 ATAGCATTGT
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 116 0.98
47 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:18573661 original size:45 final size:47
Alignment explanation
Indices: 18573584--18573684 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 47
18573574 TTTTGACTTT
* * *
18573584 TTTTTTTTGTATATATATATCATATATATTGACTTTTTTTTTGTTAA-
1 TTTTTTTTGTATATATATATAACATATATTGAC-ATTTTTTTGTTAAG
* *
18573631 TTTTTTTTGTATATATA-A-AACATGTGTTGACATTTTTTTGTTAAG
1 TTTTTTTTGTATATATATATAACATATATTGACATTTTTTTGTTAAG
18573676 TTTATTTTT
1 TTT-TTTTT
18573685 ATACATGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.26
45 12 0.26
46 6 0.13
47 17 0.36
ACGTcount: A:0.25, C:0.04, G:0.09, T:0.62
Consensus pattern (47 bp):
TTTTTTTTGTATATATATATAACATATATTGACATTTTTTTGTTAAG
Found at i:18621809 original size:21 final size:21
Alignment explanation
Indices: 18621764--18621855 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
18621754 GAGTACATCG
**
18621764 TTAACAGAAGCTC-GCA-AGC
1 TTAACAGAAGCTCATAAGAGC
* *
18621783 TGAACAGAAGCTCATAATAGC
1 TTAACAGAAGCTCATAAGAGC
* *
18621804 TTAACAGAAACTCTTAAGAG-
1 TTAACAGAAGCTCATAAGAGC
* *
18621824 TTGAATAGAAGCTTATAAGAGC
1 TT-AACAGAAGCTCATAAGAGC
*
18621846 TAAACAGAAG
1 TTAACAGAAG
18621856 TTAAACATAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 12 0.21
20 3 0.05
21 40 0.71
22 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (21 bp):
TTAACAGAAGCTCATAAGAGC
Found at i:18621912 original size:21 final size:21
Alignment explanation
Indices: 18621854--18621970 Score: 87
Period size: 21 Copynumber: 5.6 Consensus size: 21
18621844 GCTAAACAGA
* * *
18621854 AGTTAAACATAAACTCGTAAG
1 AGTTAAACAGAAGCTCATAAG
*
18621875 AGCTT-AAC-GAAAACTCATAAG
1 AG-TTAAACAG-AAGCTCATAAG
*
18621896 AGTTTAACAGAAGCTCA-ATAG
1 AGTTAAACAGAAGCTCATA-AG
* * * *
18621917 AGTTGAACGGAATCTCATATG
1 AGTTAAACAGAAGCTCATAAG
*
18621938 AGTTAAACAGAAGCTCGTAAG
1 AGTTAAACAGAAGCTCATAAG
*
18621959 AGCTAAACAGAA
1 AGTTAAACAGAA
18621971 AGTAAAACAC
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
20 3 0.04
21 70 0.91
22 4 0.05
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTTAAACAGAAGCTCATAAG
Found at i:18624835 original size:17 final size:16
Alignment explanation
Indices: 18624811--18624846 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
18624801 TTCAATATTA
*
18624811 GTTTTAGTTTATTTTT
1 GTTTTAGTTCATTTTT
18624827 GTTTCTAGTTCATTTTT
1 GTTT-TAGTTCATTTTT
18624844 GTT
1 GTT
18624847 AATTGTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (16 bp):
GTTTTAGTTCATTTTT
Found at i:18634527 original size:73 final size:71
Alignment explanation
Indices: 18634436--18634571 Score: 227
Period size: 73 Copynumber: 1.9 Consensus size: 71
18634426 ACCAAAAACT
* * *
18634436 AAAGACAACATTTTAAGTCAAAAGAAAGGTTTGGCTTAGAGATCAAAAATCAAAATAAATATAAC
1 AAAGAAAACATTTTAAGTCAAAA-AAAGCTTTGACTTAGAGAT-AAAAATCAAAATAAATATAAC
18634501 TGCCAAAA
64 TGCCAAAA
18634509 AAAGAAAACATTTTAAGTCAAAAAAAGCTTTGACTTAGAGATAAAAATCAAAATAAATATAAC
1 AAAGAAAACATTTTAAGTCAAAAAAAGCTTTGACTTAGAGATAAAAATCAAAATAAATATAAC
18634572 ACTGAAGATA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 21 0.35
72 17 0.28
73 22 0.37
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.23
Consensus pattern (71 bp):
AAAGAAAACATTTTAAGTCAAAAAAAGCTTTGACTTAGAGATAAAAATCAAAATAAATATAACTG
CCAAAA
Found at i:18637362 original size:30 final size:31
Alignment explanation
Indices: 18637316--18637411 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 31
18637306 TCATTCTATT
* *
18637316 AATTTAATCTTAAATA-TAAAAAATTTAACA
1 AATTTAGTCTTTAATATTAAAAAATTTAACA
* *
18637346 AATTTAGTCTTTAATATTTACAAAATTTATC-
1 AATTTAGTCTTTAATA-TTAAAAAATTTAACA
* * * *
18637377 ATTTTAGT-TCTAATATTAAAAAAATTAATA
1 AATTTAGTCTTTAATATTAAAAAATTTAACA
18637407 AATTT
1 AATTT
18637412 GGCTAGCAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
29 10 0.19
30 24 0.46
31 7 0.13
32 11 0.21
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (31 bp):
AATTTAGTCTTTAATATTAAAAAATTTAACA
Found at i:18650399 original size:14 final size:14
Alignment explanation
Indices: 18650380--18650408 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18650370 CTAGATATTG
18650380 TTATGTATATTTAT
1 TTATGTATATTTAT
18650394 TTATGTATATTTAT
1 TTATGTATATTTAT
18650408 T
1 T
18650409 GCATTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TTATGTATATTTAT
Found at i:18659039 original size:15 final size:16
Alignment explanation
Indices: 18659008--18659040 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18658998 ATATCCTTTT
*
18659008 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
18659024 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
18659039 AA
1 AA
18659041 GACAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:18662083 original size:14 final size:13
Alignment explanation
Indices: 18662060--18662115 Score: 64
Period size: 14 Copynumber: 4.3 Consensus size: 13
18662050 CAGTGGAGGC
18662060 AAAA-AAAAAGCA
1 AAAATAAAAAGCA
18662072 AAAAGTAAAAAGCA
1 AAAA-TAAAAAGCA
18662086 AAAA-AAAAA-CTA
1 AAAATAAAAAGC-A
18662098 GAAAATAAAAAGCA
1 -AAAATAAAAAGCA
18662112 AAAA
1 AAAA
18662116 AAACCAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
11 1 0.03
12 10 0.26
13 8 0.21
14 18 0.47
15 1 0.03
ACGTcount: A:0.79, C:0.07, G:0.09, T:0.05
Consensus pattern (13 bp):
AAAATAAAAAGCA
Found at i:18662089 original size:26 final size:26
Alignment explanation
Indices: 18662058--18662118 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
18662048 TTCAGTGGAG
*
18662058 GCAAAAAAAAAGC-A-AAAAGTAAAAA
1 GCAAAAAAAAAACTAGAAAA-TAAAAA
18662083 GCAAAAAAAAAACTAGAAAATAAAAA
1 GCAAAAAAAAAACTAGAAAATAAAAA
18662109 GCAAAAAAAA
1 GCAAAAAAAA
18662119 CCAAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 12 0.36
26 17 0.52
27 4 0.12
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.05
Consensus pattern (26 bp):
GCAAAAAAAAAACTAGAAAATAAAAA
Found at i:18663114 original size:108 final size:108
Alignment explanation
Indices: 18662925--18663120 Score: 313
Period size: 108 Copynumber: 1.8 Consensus size: 108
18662915 TTTGCATTCT
*
18662925 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
18662990 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * **
18663033 AGCAAATTTTGCTATCTTGATTGATTTATTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATCT
1 AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAAC-AAATTTCCATCT
* *
18663097 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
18663121 AGCATTTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 74 0.93
109 6 0.08
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTATTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:18663673 original size:44 final size:44
Alignment explanation
Indices: 18663598--18663856 Score: 242
Period size: 44 Copynumber: 6.0 Consensus size: 44
18663588 AGTCACCAAG
* * *
18663598 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA
* * * * *
18663642 GCCGGTCTTGTCTTCCTACATTGGTAGGAAGTGGATCGAAGA-C
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA
* * * *
18663685 GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA
* * * * *
18663730 GTAGATCTTGTCTTCATGTATTGG-CGTGAAGTGGATCGAAGATA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATA
* * *
18663774 GCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA
* * *
18663817 GCAGATATTGTCTTCCCATACTGGT--GAAGTAGATCGAAGA
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGA
18663857 AAATAGATCA
Statistics
Matches: 175, Mismatches: 36, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
41 14 0.08
43 41 0.23
44 99 0.57
45 21 0.12
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATA
Found at i:18663837 original size:132 final size:129
Alignment explanation
Indices: 18663600--18663865 Score: 442
Period size: 132 Copynumber: 2.0 Consensus size: 129
18663590 TCACCAAGGC
* *
18663600 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCCGGTCTTGTCTTCCTACATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACATTG
*
18663665 GTAGGAAGTGGATCGAAGACGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
66 GTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATAC---TGGTGAAGTAGATCGAAGAAA
*
18663730 GT
128 AT
* *
18663732 AGATCTTGTCTTCATGTATTGGCGTGAAGTGGATCGAAGATAGCAGGTCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACATTG
*
18663797 GTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAAAT
66 GTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAAAT
18663861 AGATC
1 AGATC
18663866 AATGAAGTTA
Statistics
Matches: 127, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
129 27 0.21
132 100 0.79
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (129 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACATTG
GTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAAAT
Found at i:18664094 original size:100 final size:100
Alignment explanation
Indices: 18663877--18664157 Score: 388
Period size: 100 Copynumber: 2.8 Consensus size: 100
18663867 ATGAAGTTAC
* *
18663877 CTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGC
1 CTTCTCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
* * *
18663941 AATTAAAGAGATTGAAGCCATAATGGCGAATCTCA
66 AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
* * *
18663976 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAACTACGACGGCGAATCTTGCTTCCCTGATATTGC
1 CTTCTCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
* * *
18664041 AATTAAAAAGATTGAAGCCGCAACGGCGAATTTTA
66 AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
**
18664076 CTTC-CATGGTGGTGCAGTGGAGCAGATTAAAGCTACGACGGCG-ATCCTTGCTTCCCTGACATT
1 CTTCTC-TGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAAT-CTTGCTTCCCTGACATT
* *
18664139 GCAATTTAAAAGATCGAAG
64 GCAATTAAAAAGATTGAAG
18664158 ATGGCGGATT
Statistics
Matches: 161, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
99 50 0.31
100 111 0.69
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (100 bp):
CTTCTCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGC
AATTAAAAAGATTGAAGCCACAACGGCGAATCTCA
Found at i:18664117 original size:50 final size:50
Alignment explanation
Indices: 18663887--18664119 Score: 130
Period size: 50 Copynumber: 4.7 Consensus size: 50
18663877 CTTCCCTGGC
* ** *
18663887 AGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTT-GTTCCCCGAC
1 AGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTACTTCCATGAT
* * ** * * ** * * **
18663936 ATTGCAATTAAAG-AGATTGAAGCCATAATGGCGAATCTCACTTCTC-TGGC
1 AGTGC-AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTACTTC-CATGAT
* * * *
18663986 AGTACAGTGGAGCAGATTAAAACTACGACGGCGAATCTTGCTTCCCTGAT
1 AGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTACTTCCATGAT
* * ** ** * ** * * *
18664036 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATTTTACTTCCATGGT
1 AGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTACTTCCATGAT
*
18664086 GGTGCAGTGGAGCAGATTAAAGCTACGACGGCGA
1 AGTGCAGTGGAGCAGATTAAAGCTACGACGGCGA
18664120 TCCTTGCTTC
Statistics
Matches: 124, Mismatches: 55, Indels: 9
0.66 0.29 0.05
Matches are distributed among these distances:
49 29 0.23
50 94 0.76
51 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (50 bp):
AGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTACTTCCATGAT
Found at i:18664277 original size:44 final size:44
Alignment explanation
Indices: 18664224--18664584 Score: 127
Period size: 44 Copynumber: 8.3 Consensus size: 44
18664214 ACTTCCCTGG
* * * *
18664224 GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
1 GCAATAGTGGAGTAGATTGAAGATTCCAGATATTATCTCCCTAA
* * * * ** * * *
18664268 GCAGTAGTGGAGCAGATCGAATATGACAGATTTTACCTCCCTGA
1 GCAATAGTGGAGTAGATTGAAGATTCCAGATATTATCTCCCTAA
* * * * **
18664312 G-ATTACAGTGGAGTACATTGAAG---CCAGAAATTCTACTTCCCTGG
1 GCA--ATAGTGGAGTAGATTGAAGATTCCAGATATTAT-C-TCCCTAA
* * * * *
18664356 GCAACAATGGAATAGATTGAAGATTTCAG-TCTTATCTCCCTAA
1 GCAATAGTGGAGTAGATTGAAGATTCCAGATATTATCTCCCTAA
* * * **
18664399 GCAGTAGTGGAGCAGA-CGAAAGAAACCAGATATTATCTCCCTAA
1 GCAATAGTGGAGTAGATTG-AAGATTCCAGATATTATCTCCCTAA
* * * ** * * *
18664443 GCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCT--
1 GCAATAGTGGAGTAGATTGAAGATTCCAGATATTATCTCCCTAA
* * **
18664485 G-ATTACGGTGGAGTACATTGAAG---CCAG-TAGTTCTATCTCCCTGG
1 GCAATA--GTGGAGTAGATTGAAGATTCCAGATA--T-TATCTCCCTAA
* * * * *
18664529 GCAACAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAA
1 GCAATAGTGGAGTAGATTGAAGATTCCAGATATTATCTCCCTAA
18664573 GCAATAGTGGAG
1 GCAATAGTGGAG
18664585 CAGGTCGAAG
Statistics
Matches: 224, Mismatches: 70, Indels: 46
0.66 0.21 0.14
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 4 0.02
42 16 0.07
43 66 0.29
44 106 0.47
45 22 0.10
46 6 0.03
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
GCAATAGTGGAGTAGATTGAAGATTCCAGATATTATCTCCCTAA
Found at i:18664552 original size:173 final size:175
Alignment explanation
Indices: 18664250--18664587 Score: 520
Period size: 173 Copynumber: 1.9 Consensus size: 175
18664240 TTGAAGATTT
* * *
18664250 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATGACAGATTTTACCTCCCTGAGAT
1 CAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCT-AGAT
*
18664315 TACAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGCAACAATGGAATAGATTGAAGAT
65 TACAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGCAACAATGGAATAGAGTGAAGAT
* *
18664380 TTCAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAC
130 TACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAGAAAC
* * *
18664425 CAGATATTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCT-GATT
1 CAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTAGATT
* * * *
18664489 ACGGTGGAGTACATTGAAGCCAGTAGTTCTA-TCTCCCTGGGCAACAGTGGAATAGAGTGAAGAT
66 ACAGTGGAGTACATTGAAGCCAGAAATTCTACT-TCCCTGGGCAACAATGGAATAGAGTGAAGAT
18664553 TACAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
130 TACAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
18664588 GTCGAAGATG
Statistics
Matches: 148, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
172 1 0.01
173 65 0.44
174 28 0.19
175 54 0.36
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (175 bp):
CAGATATTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTAGATT
ACAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGCAACAATGGAATAGAGTGAAGATT
ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAGAAAC
Found at i:18664568 original size:130 final size:131
Alignment explanation
Indices: 18664425--18664854 Score: 499
Period size: 130 Copynumber: 3.3 Consensus size: 131
18664415 CGAAAGAAAC
* *
18664425 CAGATATTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTA
* * *****
18664490 CGGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTG-GGCAACAGTGGAATAGAGTGAAGATT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGATTTGGCAGTGGAATAGAGTGAAGATT
18664554 A
131 A
*
18664555 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCTTGACTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTA
* * *
18664620 CAGTGGAGTACATTGAAGCCAATAATTCTATCTCCTTGTATTTGGCAGTGGAATAGATTGAAGAT
66 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG-ATTTGGCAGTGGAATAGAGTGAAGAT
*
18664685 TG
130 TA
** * * * * * * *
18664687 CAGATCTTGCCTTCCT--GTATTTGGCAGCGAAGCAGGTCAAAGATGGCAGATTTTACCTCCCTG
1 CAGATCTTATCTCCCTAAGCA-AT---AGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTG
* *
18664750 ACTACAGTGGAGTACATTGAAGCC-GATAACTCTATCTCCCTGTATTTGGCAGTAGAATAGAGTG
62 ACTACAGTGGAGTACATTGAAGCCAG-TAATTCTATCTCCCTG-ATTTGGCAGTGGAATAGAGTG
**
18664814 AAGAAAA
125 AAGATTA
* *
18664821 CCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAG
1 -CAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
18664855 ATCACATCAA
Statistics
Matches: 252, Mismatches: 38, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
130 98 0.39
131 1 0.00
132 33 0.13
133 8 0.03
134 95 0.38
135 13 0.05
136 1 0.00
137 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (131 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGACTA
CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGATTTGGCAGTGGAATAGAGTGAAGATT
A
Found at i:18664920 original size:44 final size:41
Alignment explanation
Indices: 18664817--18664938 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 41
18664807 TAGAGTGAAG
*
18664817 AAAACCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
18664858 ACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-C
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
18664897 GAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
1 ---A-AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
18664939 GTCGAAGATG
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 28 0.42
41 5 0.08
42 1 0.02
43 4 0.06
44 27 0.41
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (41 bp):
AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:18664954 original size:44 final size:42
Alignment explanation
Indices: 18664822--18664947 Score: 125
Period size: 44 Copynumber: 3.0 Consensus size: 42
18664812 TGAAGAAAAC
* * *
18664822 CAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC--ACAT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT
* * *
18664862 CA-AGTCTTATCTCCCTAAGCAGTAGTGGAGTA-GACGAAAGAAAC
1 CAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCG-AAG--AT
*
18664906 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGAT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT
18664948 GGCAGATTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
39 2 0.03
40 28 0.41
42 2 0.03
44 32 0.47
45 4 0.06
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT
Found at i:18665047 original size:130 final size:130
Alignment explanation
Indices: 18664906--18665328 Score: 720
Period size: 130 Copynumber: 3.3 Consensus size: 130
18664896 CGAAAGAAAC
*
18664906 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCTGATTA
*
18664971 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCTCTGGGCAACAGTGGAATAGAGTGAAGATTA
66 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
* * *
18665036 CAGATCTTATCTCCCTAGGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCACTAATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCTGATTA
18665101 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
66 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
*
18665166 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCTGATTA
* ** * * **
18665231 CGGTGGAGTACATTGAAGCTGGTAATTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAATAGCA
66 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
*
18665296 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
18665329 ATCACATCCA
Statistics
Matches: 276, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 276 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (130 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCCCTGATTA
CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
Found at i:18665057 original size:44 final size:44
Alignment explanation
Indices: 18664999--18665194 Score: 123
Period size: 44 Copynumber: 4.5 Consensus size: 44
18664989 CCAGTAGTTC
* *
18664999 TATCTCTCTGGGCAACAGTGGAATAGAGTGAAGATTACAGATCT
1 TATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATTACAGATCT
* ** ** *
18665043 TATCTCCCTAGGCAATAGTGGAGCAG-GTCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAACAGTGGAATAGAGT-GAAGATTACAGATCT
* * *** * * * * * * *
18665087 TACCTCACTA-ATTACGGTGGAGTACATTAAAGCCAGT--AGTTC-
1 TATCTCCCTAGGCAACAGTGGAATAGAGTGAAG--ATTACAGATCT
*
18665129 TATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTACAGATCT
1 TATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATTACAGATCT
* *
18665173 TATCTCCCTAAGCAATAGTGGA
1 TATCTCCCTAGGCAACAGTGGA
18665195 GCAGGTCGAA
Statistics
Matches: 105, Mismatches: 39, Indels: 16
0.66 0.24 0.10
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 34 0.32
44 61 0.58
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATTACAGATCT
Found at i:18667404 original size:15 final size:16
Alignment explanation
Indices: 18667373--18667405 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18667363 ATATCCTTTT
*
18667373 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
18667389 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
18667404 AA
1 AA
18667406 GACAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:18684577 original size:14 final size:14
Alignment explanation
Indices: 18684558--18684584 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18684548 CATTTTTAGG
18684558 TATTTTTCATTTTT
1 TATTTTTCATTTTT
18684572 TATTTTTCATTTT
1 TATTTTTCATTTT
18684585 CAATTTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TATTTTTCATTTTT
Found at i:18684666 original size:51 final size:51
Alignment explanation
Indices: 18684588--18684695 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
18684578 TCATTTTCAA
* *
18684588 TTTCATTTTGGAGAAAATCATATTCATTTCCAAATAATT-CCATTTCTCCAT
1 TTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTACCATTTCTCCAT
* * * *
18684639 TTTCATTTTGTAG-AAACCAATAATCATTTTCAAATGTTACCCATTTCTTCAT
1 TTTCATTTTGGAGAAAACC-ATAATCATTTCCAAATATTA-CCATTTCTCCAT
18684691 TTTCA
1 TTTCA
18684696 CCATTTCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
50 6 0.12
51 26 0.54
52 16 0.33
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (51 bp):
TTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTACCATTTCTCCAT
Found at i:18687648 original size:20 final size:21
Alignment explanation
Indices: 18687623--18687661 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18687613 CTGACTTCTA
*
18687623 CTTT-AAAAATTAATTTGGCT
1 CTTTAAAAAAATAATTTGGCT
18687643 CTTTAAAAAAATAATTTGG
1 CTTTAAAAAAATAATTTGG
18687662 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (21 bp):
CTTTAAAAAAATAATTTGGCT
Found at i:18687668 original size:21 final size:21
Alignment explanation
Indices: 18687623--18687669 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
18687613 CTGACTTCTA
* *
18687623 CTTT-AAAAATTAATTTGGCT
1 CTTTAAAAAAATAATTTGGAT
18687643 CTTTAAAAAAATAATTTGGAT
1 CTTTAAAAAAATAATTTGGAT
*
18687664 TTTTAA
1 CTTTAA
18687670 TTTATCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (21 bp):
CTTTAAAAAAATAATTTGGAT
Found at i:18700447 original size:231 final size:231
Alignment explanation
Indices: 18700044--18700971 Score: 1820
Period size: 231 Copynumber: 4.0 Consensus size: 231
18700034 ATTTTATAAA
*
18700044 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTTTACGT
1 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTCTACGT
18700109 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
66 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
18700174 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
131 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
*
18700239 ACACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
196 ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
*
18700275 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATAATATCTACTTTCTACGT
1 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTCTACGT
18700340 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
66 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
18700405 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
131 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
18700470 ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
196 ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
18700506 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTCTACGT
1 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTCTACGT
18700571 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
66 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
18700636 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
131 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
18700701 ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
196 ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
*
18700737 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTCTATGT
1 AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTCTACGT
18700802 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
66 TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
18700867 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
131 TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
18700932 ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
196 ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
18700968 AATT
1 AATT
18700972 TTGCTACCAT
Statistics
Matches: 692, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
231 692 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (231 bp):
AATTGTATAACCAATATAAAAACAACTATGCATTCTAATGACACAATGATATCTACTTTCTACGT
TACTGGCTTTTAAAACCATAATCCTTTTAGCCATGATGCTCTCATTTTGTTTGATATATGTTCAC
TTTGATGTTATTTGAAGAGTAATGCTCTTTGGTTTTCTTCATTCTCTTTATCTTTATTCTTCCAA
ATACAGAGCGCTTCAGATATGGTTTTAGCTGATGAC
Found at i:18704460 original size:12 final size:12
Alignment explanation
Indices: 18704443--18704467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18704433 GGTGTTCATT
18704443 CGGTTAACCGAC
1 CGGTTAACCGAC
18704455 CGGTTAACCGAC
1 CGGTTAACCGAC
18704467 C
1 C
18704468 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:18704680 original size:27 final size:27
Alignment explanation
Indices: 18704631--18704699 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
18704621 TTTTGGTTAA
* * *
18704631 AAATTAACCGAATTATCCGAATTATCC
1 AAATTAATCGAATTATCCAAATTAACC
*
18704658 AAATTAATCGAATTATCTAAATTAACC
1 AAATTAATCGAATTATCCAAATTAACC
* *
18704685 GAATTAATCAAATTA
1 AAATTAATCGAATTA
18704700 AATCACTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (27 bp):
AAATTAATCGAATTATCCAAATTAACC
Found at i:18704691 original size:9 final size:9
Alignment explanation
Indices: 18704632--18704691 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
18704622 TTTGGTTAAA
18704632 AATTAACCG
1 AATTAACCG
*
18704641 AATTATCCG
1 AATTAACCG
* *
18704650 AATTATCCA
1 AATTAACCG
*
18704659 AATTAATCG
1 AATTAACCG
* **
18704668 AATTATCTA
1 AATTAACCG
18704677 AATTAACCG
1 AATTAACCG
18704686 AATTAA
1 AATTAA
18704692 TCAAATTAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (9 bp):
AATTAACCG
Found at i:18704700 original size:18 final size:17
Alignment explanation
Indices: 18704641--18704700 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
18704631 AAATTAACCG
*
18704641 AATTATCCGAATTATCCA
1 AATTAACCGAATTAT-CA
*
18704659 AATTAATCGAATTATCTA
1 AATTAACCGAATTATC-A
18704677 AATTAACCGAATTAATCA
1 AATTAACCGAATT-ATCA
18704695 AATTAA
1 AATTAA
18704701 ATCACTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 1 0.03
18 33 0.89
19 3 0.08
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (17 bp):
AATTAACCGAATTATCA
Found at i:18704828 original size:18 final size:18
Alignment explanation
Indices: 18704805--18704858 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
18704795 TAATTTTATG
* **
18704805 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGAGTTGAATA
18704823 ATTGGGTTGAGTTGAATA
1 ATTGGGTTGAGTTGAATA
* *
18704841 ATTGGGTTTAGGTGAATA
1 ATTGGGTTGAGTTGAATA
18704859 GTGAGCCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGAGTTGAATA
Found at i:18712963 original size:18 final size:19
Alignment explanation
Indices: 18712940--18712977 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18712930 GGAAGCAAGC
*
18712940 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
18712958 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
18712977 A
1 A
18712978 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:18720977 original size:39 final size:40
Alignment explanation
Indices: 18720924--18721000 Score: 97
Period size: 39 Copynumber: 1.9 Consensus size: 40
18720914 ATTTCAAATT
*
18720924 CACTTTTGATTCAAT-CACAATTCA-ATTCAATTTCACTTTC
1 CACTTTTGAATCAATACACAATTCAGA-T-AATTTCACTTTC
*
18720964 CACTTTT-AATCAATACACAGTTCAGATAATTTCACTT
1 CACTTTTGAATCAATACACAATTCAGATAATTTCACTT
18721001 CGATTCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 16 0.48
40 16 0.48
41 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.40
Consensus pattern (40 bp):
CACTTTTGAATCAATACACAATTCAGATAATTTCACTTTC
Found at i:18723944 original size:24 final size:24
Alignment explanation
Indices: 18723912--18723962 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
18723902 TACTTGGGTA
18723912 ATTTACCGTCAATTCATCCTTTAC
1 ATTTACCGTCAATTCATCCTTTAC
*
18723936 ATTTTCCGTCAATTCATCCTTTAC
1 ATTTACCGTCAATTCATCCTTTAC
18723960 ATT
1 ATT
18723963 CGTAGTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTAC
Done.