Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 42 of 167
Found at i:12859428 original size:94 final size:96
Alignment explanation
Indices: 12859262--12859484 Score: 315
Period size: 94 Copynumber: 2.3 Consensus size: 96
12859252 TTGAATTGCT
* * * * ** *
12859262 GATGCCATGTCCCAGATATGGTCTTACACTAGTACACATATCAACGCAAATGCCATGTCTTAGAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCAAATGCCATGTCCCAAAC
*
12859327 ATGGTCTTACACT-GCACACATATCAACACC
66 ATCGTCTTACACTGGCACACATATCAACACC
* *
12859357 GATG-CATGTCCTAGACATGGTCTTACACTGGCACACATATCAATGCTAATGCCATGTCCCAAAC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCAAATGCCATGTCCCAAAC
*
12859421 ATCGTCTTATACTGGCACACATATCAACACC
66 ATCGTCTTACACTGGCACACATATCAACACC
* *
12859452 GACGCCATGTCCTAGACATGGTATTACACTGGC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGC
12859485 TTTCATCTTG
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
94 62 0.55
95 24 0.21
96 27 0.24
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCAAATGCCATGTCCCAAAC
ATCGTCTTACACTGGCACACATATCAACACC
Found at i:12871065 original size:11 final size:11
Alignment explanation
Indices: 12871049--12871073 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12871039 CCACAATTAA
12871049 ACTCACATTTT
1 ACTCACATTTT
12871060 ACTCACATTTT
1 ACTCACATTTT
12871071 ACT
1 ACT
12871074 TACCGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (11 bp):
ACTCACATTTT
Found at i:12872395 original size:23 final size:23
Alignment explanation
Indices: 12872365--12872418 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
12872355 AGACAAAGAC
12872365 ATTTTCGATTTACCATGCTTCAA
1 ATTTTCGATTTACCATGCTTCAA
*
12872388 ATTTTCGATTTACCATGCTTTAA
1 ATTTTCGATTTACCATGCTTCAA
12872411 ATTTTCGA
1 ATTTTCGA
12872419 ACACATTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (23 bp):
ATTTTCGATTTACCATGCTTCAA
Found at i:12882470 original size:23 final size:23
Alignment explanation
Indices: 12882444--12882489 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12882434 TGTTAAATAA
12882444 ATAAAACAAAACAATTTTTTTAT
1 ATAAAACAAAACAATTTTTTTAT
12882467 ATAAAACAAAACAATTTTTTTAT
1 ATAAAACAAAACAATTTTTTTAT
12882490 CCCTTATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAAAACAAAACAATTTTTTTAT
Found at i:12889568 original size:21 final size:21
Alignment explanation
Indices: 12889523--12889578 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
12889513 TTCTATATGC
*
12889523 ATATTTTAATTATTTTTTAAAAA
1 ATATTTT-ATT-TTTTGTAAAAA
*
12889546 ATATTTTATTTTTTGTAAGAA
1 ATATTTTATTTTTTGTAAAAA
12889567 ATATTTT-TTTTT
1 ATATTTTATTTTT
12889579 GGTGACATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 5 0.16
21 16 0.52
22 3 0.10
23 7 0.23
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
ATATTTTATTTTTTGTAAAAA
Found at i:12891228 original size:15 final size:15
Alignment explanation
Indices: 12891198--12891226 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12891188 ACTATTAGTA
12891198 ATTTTTTACATATTT
1 ATTTTTTACATATTT
12891213 ATTTTTTA-ATATTT
1 ATTTTTTACATATTT
12891227 TACCATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTACATATTT
Found at i:12894085 original size:21 final size:21
Alignment explanation
Indices: 12894044--12894085 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
12894034 AAAAATACTC
*
12894044 TTTTAAAAATGTGATAATTAAT
1 TTTTAAAAAAGT-ATAATTAAT
12894066 TTTTAAAAAAGT-TAAGTTAA
1 TTTTAAAAAAGTATAA-TTAA
12894086 AACCAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 4 0.22
22 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTTAAAAAAGTATAATTAAT
Found at i:12894314 original size:48 final size:48
Alignment explanation
Indices: 12894259--12894451 Score: 386
Period size: 48 Copynumber: 4.0 Consensus size: 48
12894249 ATCTAATTTA
12894259 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
1 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
12894307 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
1 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
12894355 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
1 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
12894403 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
1 ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
12894451 A
1 A
12894452 AATATTGTTT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (48 bp):
ATTTAATAATGTTAAATATATTTTAATTTATCTAATTAACAATTTTTT
Found at i:12894450 original size:24 final size:24
Alignment explanation
Indices: 12894279--12894452 Score: 150
Period size: 24 Copynumber: 7.2 Consensus size: 24
12894269 GTTAAATATA
12894279 TTTTAATTTATCTAATTAACAATT
1 TTTTAATTTATCTAATTAACAATT
* *
12894303 TTTT-ATTTA-ATAATGTTAA-ATATA
1 TTTTAATTTATCTAA--TTAACA-ATT
12894327 TTTTAATTTATCTAATTAACAATT
1 TTTTAATTTATCTAATTAACAATT
* *
12894351 TTTT-ATTTA-ATAATGTTAA-ATATA
1 TTTTAATTTATCTAA--TTAACA-ATT
12894375 TTTTAATTTATCTAATTAACAATT
1 TTTTAATTTATCTAATTAACAATT
* *
12894399 TTTT-ATTTA-ATAATGTTAA-ATATA
1 TTTTAATTTATCTAA--TTAACA-ATT
12894423 TTTTAATTTATCTAATTAACAATT
1 TTTTAATTTATCTAATTAACAATT
12894447 TTTTAA
1 TTTTAA
12894453 ATATTGTTTA
Statistics
Matches: 120, Mismatches: 12, Indels: 36
0.71 0.07 0.21
Matches are distributed among these distances:
22 9 0.08
23 18 0.15
24 66 0.55
25 18 0.15
26 9 0.08
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAATTTATCTAATTAACAATT
Found at i:12915015 original size:25 final size:24
Alignment explanation
Indices: 12914963--12915038 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 24
12914953 CTTATTTTAT
* *
12914963 TAAATAAA-AAATTTAAAATATAA
1 TAAATAAATACATTTAAAACATAA
12914986 TAAATGAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTT-AAAACATAA
12915012 -AAATAAAT--A-TTAAAACA-AA
1 TAAATAAATACATTTAAAACATAA
12915031 TAAA-AAAT
1 TAAATAAAT
12915039 GATATTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 6 0.13
20 9 0.19
21 2 0.04
22 1 0.02
23 5 0.11
24 7 0.15
25 9 0.19
26 8 0.17
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (24 bp):
TAAATAAATACATTTAAAACATAA
Found at i:12915036 original size:22 final size:22
Alignment explanation
Indices: 12914992--12915051 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
12914982 ATAATAAATG
* *
12914992 AAATACAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
12915012 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
12915034 AAA-ATGATATTAAAACAA
1 AAATA-AATATTAAAACAA
12915052 TACACAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.21
21 7 0.21
22 20 0.59
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:12917486 original size:56 final size:56
Alignment explanation
Indices: 12917425--12917566 Score: 196
Period size: 56 Copynumber: 2.5 Consensus size: 56
12917415 AACGTGGAAT
**
12917425 CGATATATCTATGGGAGTAAGACCACGTTTAATACGTTGGCATCGATATATGATTC
1 CGATATATCTATACGAGTAAGACCACGTTTAATACGTTGGCATCGATATATGATTC
* * *
12917481 CGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATCTATACGAGTAAGACCACGTTTAATACGTTGGCATCGATATATGATTC
*
12917537 CGATATATGTGATTAC-ATGTAAGACCACGT
1 CGATATATCT-A-TACGA-GTAAGACCACGT
12917567 CTGGGACGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
56 61 0.79
57 1 0.01
58 15 0.19
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (56 bp):
CGATATATCTATACGAGTAAGACCACGTTTAATACGTTGGCATCGATATATGATTC
Found at i:12917766 original size:97 final size:97
Alignment explanation
Indices: 12917657--12917851 Score: 327
Period size: 97 Copynumber: 2.0 Consensus size: 97
12917647 GTTGTGATCG
* * * *
12917657 AATGTGTAATCGAGCTAAAGTGATCAGGTATGTGATAGTTAATTTCCTATTTGAAATTAAGGTAA
1 AATGTGTAATCGAGCTAAAGCGATCAAGTATGTGATAGTTAATTTCCTATTTAAAAGTAAGGTAA
12917722 GTTGGCTGTTTGGTATGTGATACAAAATGTAT
66 GTTGGCTGTTTGGTATGTGATACAAAATGTAT
*
12917754 AATGTGTAATCGAGCTAAAGCGATCAAGTATGTGATAGTTAATTTCCTATTTAAAAGTAAGGTAG
1 AATGTGTAATCGAGCTAAAGCGATCAAGTATGTGATAGTTAATTTCCTATTTAAAAGTAAGGTAA
* *
12917819 GTTGGTTGTTTGGTATGTGATACAAATTGTAT
66 GTTGGCTGTTTGGTATGTGATACAAAATGTAT
12917851 A
1 A
12917852 TGATAAAGTG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (97 bp):
AATGTGTAATCGAGCTAAAGCGATCAAGTATGTGATAGTTAATTTCCTATTTAAAAGTAAGGTAA
GTTGGCTGTTTGGTATGTGATACAAAATGTAT
Found at i:12920760 original size:216 final size:216
Alignment explanation
Indices: 12920386--12920820 Score: 852
Period size: 216 Copynumber: 2.0 Consensus size: 216
12920376 TAAATAATAT
12920386 ACTTTTCCACTTAGAGTTTGGGATTGGCCTGGGATGTTGATCCAACGATCTGATTTTAACTTATC
1 ACTTTTCCACTTAGAGTTTGGGATTGGCCTGGGATGTTGATCCAACGATCTGATTTTAACTTATC
*
12920451 TTGCGCACAGAAACAAACCGTACGCTGAGTATGAACTCAATGGTATTTCTATAATCCGAACACTT
66 TTGAGCACAGAAACAAACCGTACGCTGAGTATGAACTCAATGGTATTTCTATAATCCGAACACTT
12920516 AATAATATGAAAATATAACATTCATTTAAAAATCATATAACAATTACAATTATATAATTGTTCAA
131 AATAATATGAAAATATAACATTCATTTAAAAATCATATAACAATTACAATTATATAATTGTTCAA
12920581 TTCATAGATAAATCCTTTATA
196 TTCATAGATAAATCCTTTATA
12920602 ACTTTTCCACTTAGAGTTTGGGATTGGCCTGGGATGTTGATCCAACGATCTGATTTTAACTTATC
1 ACTTTTCCACTTAGAGTTTGGGATTGGCCTGGGATGTTGATCCAACGATCTGATTTTAACTTATC
12920667 TTGAGCACAGAAACAAACCGTACGCTGAGTATGAACTCAATGGTATTTCTATAATCCGAACACTT
66 TTGAGCACAGAAACAAACCGTACGCTGAGTATGAACTCAATGGTATTTCTATAATCCGAACACTT
*
12920732 AATAATATGAAAATATAACATTCATTTAAAAATCATTTAACAATTACAATTATATAATTGTTCAA
131 AATAATATGAAAATATAACATTCATTTAAAAATCATATAACAATTACAATTATATAATTGTTCAA
12920797 TTCATAGATAAATCCTTTATA
196 TTCATAGATAAATCCTTTATA
12920818 ACT
1 ACT
12920821 CAATTAATTC
Statistics
Matches: 217, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 217 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (216 bp):
ACTTTTCCACTTAGAGTTTGGGATTGGCCTGGGATGTTGATCCAACGATCTGATTTTAACTTATC
TTGAGCACAGAAACAAACCGTACGCTGAGTATGAACTCAATGGTATTTCTATAATCCGAACACTT
AATAATATGAAAATATAACATTCATTTAAAAATCATATAACAATTACAATTATATAATTGTTCAA
TTCATAGATAAATCCTTTATA
Found at i:12921091 original size:18 final size:18
Alignment explanation
Indices: 12921068--12921132 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
12921058 TATCAGTATC
12921068 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* * *
12921086 ATTCAGTAGCAACCAGTT
1 ATTCAGTAACAATCAATT
*
12921104 ATTCAGTAACAATCAATA
1 ATTCAGTAACAATCAATT
12921122 ATTCAGTAACA
1 ATTCAGTAACA
12921133 GTTAGTCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:12921102 original size:28 final size:28
Alignment explanation
Indices: 12921049--12921102 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
12921039 TTTTCAATAT
* **
12921049 CAATCAATTTATCAGTATCATTCAGTAA
1 CAATCAATTTATCAGTAGCAACCAGTAA
12921077 CAATCAA-TTATTCAGTAGCAACCAGT
1 CAATCAATTTA-TCAGTAGCAACCAGT
12921103 TATTCAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (28 bp):
CAATCAATTTATCAGTAGCAACCAGTAA
Found at i:12921144 original size:36 final size:36
Alignment explanation
Indices: 12921066--12921147 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
12921056 TTTATCAGTA
* *
12921066 TCATTCAGTAACAATCAATTATTCAGTAGCAACCAG
1 TCATTCAGTAACAATCAATAATTCAGTAACAACCAG
* ***
12921102 TTATTCAGTAACAATCAATAATTCAGTAACAGTTAG
1 TCATTCAGTAACAATCAATAATTCAGTAACAACCAG
12921138 TCATTCAGTA
1 TCATTCAGTA
12921148 CCTTTATCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (36 bp):
TCATTCAGTAACAATCAATAATTCAGTAACAACCAG
Found at i:12922653 original size:19 final size:19
Alignment explanation
Indices: 12922629--12922678 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
12922619 TAATAACAAT
* **
12922629 ATAATTTAATATTAATTTA
1 ATAATTTAATATAAAACTA
12922648 ATAATTTAATATAAAACTA
1 ATAATTTAATATAAAACTA
12922667 ATAATTATAATA
1 ATAATT-TAATA
12922679 AATATCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATTTAATATAAAACTA
Found at i:12923003 original size:13 final size:13
Alignment explanation
Indices: 12922981--12923020 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
12922971 GAAAACCATG
12922981 ATAATAATTAATA
1 ATAATAATTAATA
*
12922994 ATAATTATT-ATA
1 ATAATAATTAATA
12923006 ATAATAGATTAATA
1 ATAATA-ATTAATA
12923020 A
1 A
12923021 CAAAACCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.35
13 11 0.48
14 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
ATAATAATTAATA
Found at i:12923198 original size:20 final size:19
Alignment explanation
Indices: 12923152--12923198 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
12923142 AATCCTTTTT
*
12923152 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
12923172 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
12923192 CCTAATT
1 CCTAATT
12923199 AGACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:12923245 original size:5 final size:5
Alignment explanation
Indices: 12923235--12923266 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
12923225 CTTTATGTGA
12923235 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
12923267 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:12923255 original size:14 final size:14
Alignment explanation
Indices: 12923236--12923266 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
12923226 TTTATGTGAA
12923236 AAATAAAATAAAAT
1 AAATAAAATAAAAT
12923250 AAATAAAATAAAAT
1 AAATAAAATAAAAT
12923264 AAA
1 AAA
12923267 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:12927632 original size:5 final size:5
Alignment explanation
Indices: 12927622--12927649 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12927612 CAATTTGTGA
12927622 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
12927650 GAACACACAA
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:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12935215 original size:23 final size:23
Alignment explanation
Indices: 12935133--12935219 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
12935123 CCTGGTCAGT
*
12935133 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
12935155 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
12935175 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
12935198 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
12935220 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:12935616 original size:15 final size:15
Alignment explanation
Indices: 12935591--12935648 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
12935581 TCATATATAT
12935591 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
12935607 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
12935622 AATAATTTCAATCAA
1 TATAAATTCAATCAA
12935637 TATAAATTCAAT
1 TATAAATTCAAT
12935649 AAATTCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:12937254 original size:17 final size:17
Alignment explanation
Indices: 12937234--12937291 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
12937224 AAAATTAATG
12937234 ATAATTATACATTTAAA
1 ATAATTATACATTTAAA
*
12937251 ATAATTATA-ATTTAAT
1 ATAATTATACATTTAAA
* * *
12937267 AGAAGTACACATTTAAA
1 ATAATTATACATTTAAA
12937284 ACTAATTA
1 A-TAATTA
12937292 AAATTATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 12 0.38
17 16 0.50
18 4 0.12
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAATTATACATTTAAA
Found at i:12938148 original size:25 final size:25
Alignment explanation
Indices: 12938106--12938154 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
12938096 AAAATTAAGG
*
12938106 TAAAAAATTTATGCTAATTTTATTT
1 TAAAAAAGTTATGCTAATTTTATTT
* *
12938131 TAAAAAAGTTGTGTTAATTTTATT
1 TAAAAAAGTTATGCTAATTTTATT
12938155 GATGTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (25 bp):
TAAAAAAGTTATGCTAATTTTATTT
Found at i:12944059 original size:17 final size:17
Alignment explanation
Indices: 12944037--12944069 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12944027 AGGCGTTGCC
12944037 TCATCA-CATCACACAAA
1 TCATCATCATCA-ACAAA
12944054 TCATCATCATCAACAA
1 TCATCATCATCAACAA
12944070 GGGTAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (17 bp):
TCATCATCATCAACAAA
Found at i:12950462 original size:14 final size:14
Alignment explanation
Indices: 12950439--12950468 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12950429 ATTGTCTCCT
12950439 AGAAACTTTTTTGG
1 AGAAACTTTTTTGG
*
12950453 AGAAAGTTTTTTGG
1 AGAAACTTTTTTGG
12950467 AG
1 AG
12950469 GTTTATCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.40
Consensus pattern (14 bp):
AGAAACTTTTTTGG
Found at i:12971823 original size:20 final size:22
Alignment explanation
Indices: 12971784--12971825 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
12971774 TGTGATTGGA
12971784 TCACTTAATAAAACATTTTGTT
1 TCACTTAATAAAACATTTTGTT
*
12971806 TCACTTAA-AATA-ATTTTGTT
1 TCACTTAATAAAACATTTTGTT
12971826 CTACGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.48
Consensus pattern (22 bp):
TCACTTAATAAAACATTTTGTT
Found at i:12980133 original size:20 final size:20
Alignment explanation
Indices: 12980110--12980148 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12980100 GTTCTAAGTT
*
12980110 AATACCAAAATTTCTAATGC
1 AATAACAAAATTTCTAATGC
*
12980130 AATAACAATATTTCTAATG
1 AATAACAAAATTTCTAATG
12980149 GAAACCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (20 bp):
AATAACAAAATTTCTAATGC
Found at i:12980479 original size:19 final size:20
Alignment explanation
Indices: 12980439--12980485 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
12980429 AGCATGTACT
* *
12980439 AATTTTTAATACGATACTAA
1 AATTTCTAATACGATACCAA
12980459 AATTTCTAATA-GATACCAA
1 AATTTCTAATACGATACCAA
12980478 AATTTCTA
1 AATTTCTA
12980486 GCCAAATACC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTTCTAATACGATACCAA
Found at i:12982393 original size:48 final size:48
Alignment explanation
Indices: 12982113--12982394 Score: 212
Period size: 48 Copynumber: 5.9 Consensus size: 48
12982103 ATAATTTACT
* * * *
12982113 GATGCCATGTCCTAGACATGGTCTTACACTGGCTTACATGTCGAGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCGTGGCC
* * **
12982161 GATGCTATGTCCTAGACATGGTCTTACACTGGCTTTCATAAT-GTGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACAT-ATCGTGGCC
* * * * * * * *
12982209 GTTGCCATGTCCCAGGCATTGTCTTACACTAGCGCACCTAACAAT-GCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATC-GTGGCC
* * * ** * * *
12982257 GATGCCATGTCCCAGGCATGGTCTTACATTAGCTCTTATAACATTGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCGTGGCC
* * * * * *
12982305 AATGTCATGTTCC-AAACATGGTTTTATACT-GACTCTCATATCGTGGCC
1 GATGCCATG-TCCTAGACATGGTCTTACACTAG-CTCACATATCGTGGCC
* *
12982353 GACGCCATGTCCTAGACATGGTCTTACACTAGCACACATATC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATC
12982395 ACCCAAATGT
Statistics
Matches: 184, Mismatches: 42, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
47 7 0.04
48 171 0.93
49 6 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCGTGGCC
Found at i:12989759 original size:48 final size:46
Alignment explanation
Indices: 12989658--12989792 Score: 130
Period size: 48 Copynumber: 2.8 Consensus size: 46
12989648 AGGGTAAATT
* * * *
12989658 ACCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCACATGTCGAG
1 ACCGATGCCATGTTCCAGACATGGTATTACACTGGCT--CTTGTCAAG
*
12989706 ACCGATGCCATGTTCCAGACATGGTATTACACTAGCTCTTGTCTTAATG
1 ACCGATGCCATGTTCCAGACATGGTATTACACTGGCTCTTGTC--AA-G
* * *
12989755 -CCGATGCCATG-TCCTGAACATGGTCTTAAACTGGCTCT
1 ACCGATGCCATGTTCCAG-ACATGGTATTACACTGGCTCT
12989793 CATAATGTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
46 5 0.07
47 4 0.05
48 64 0.86
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (46 bp):
ACCGATGCCATGTTCCAGACATGGTATTACACTGGCTCTTGTCAAG
Found at i:12989823 original size:96 final size:96
Alignment explanation
Indices: 12989711--12989893 Score: 231
Period size: 96 Copynumber: 1.9 Consensus size: 96
12989701 TCGAGACCGA
* * *** ** * * *
12989711 TGCCATGTTCCAGACATGGTATTACACTAGCTCTTGTCTTAATGCCGATGCCATGTCCTGAACAT
1 TGCCATGTCCCAGACATGGTATTACACTAGCGCACCTAATAACGCCGATGCCATATCCCGAACAT
12989776 GGTCTTAAACTGGCTCTCATAATGTGGCCAT
66 GGTCTTAAACTGGCTCTCATAATGTGGCCAT
* * *
12989807 TGCCATGTCCCAGACATGTTCTTACACTAGCGCACCTAATAACGCCGATGCCGTATCCCGAACAT
1 TGCCATGTCCCAGACATGGTATTACACTAGCGCACCTAATAACGCCGATGCCATATCCCGAACAT
* *
12989872 TGTCTTACACTGGCTCTCATAA
66 GGTCTTAAACTGGCTCTCATAA
12989894 CATTGTTGAT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (96 bp):
TGCCATGTCCCAGACATGGTATTACACTAGCGCACCTAATAACGCCGATGCCATATCCCGAACAT
GGTCTTAAACTGGCTCTCATAATGTGGCCAT
Found at i:12989907 original size:96 final size:93
Alignment explanation
Indices: 12989709--12989926 Score: 229
Period size: 96 Copynumber: 2.3 Consensus size: 93
12989699 TGTCGAGACC
* * *** ** * * *
12989709 GATGCCATGTTCCAGACATGGTATTACACTAGCTCTTGTCTTAATGCCGATGCCATGTCCTGAAC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCGCACCTAATAACGCCGATGCCATATCCCGAAC
12989774 ATGGTCTTAAACTGGCTCTCATAATGTG
66 ATGGTCTTAAACTGGCTCTCATAATGTG
* * *
12989802 GCCATTGCCATGTCCCAGACATGTTCTTACACTAGCGCACCTAATAACGCCGATGCCGTATCCCG
1 G--A-TGCCATGTTCCAGACATGGTCTTACACTAGCGCACCTAATAACGCCGATGCCATATCCCG
* * *
12989867 AACATTGTCTTACACTGGCTCTCATAACATTGTT
63 AACATGGTCTTAAACTGGCTCTCAT-A-A-TGTG
*
12989901 GATGCCATGTTCCAAACATGGTCTTA
1 GATGCCATGTTCCAGACATGGTCTTA
12989927 TACTGGCTCT
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
93 1 0.01
95 1 0.01
96 91 0.91
97 2 0.02
98 1 0.01
99 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (93 bp):
GATGCCATGTTCCAGACATGGTCTTACACTAGCGCACCTAATAACGCCGATGCCATATCCCGAAC
ATGGTCTTAAACTGGCTCTCATAATGTG
Found at i:12989956 original size:48 final size:48
Alignment explanation
Indices: 12989867--12989978 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 48
12989857 CCGTATCCCG
* * *
12989867 AACATTGTCTTACACTGGCTCTCATAACATTGTTGATGCCATGTTCC-A
1 AACATGGTCTTATACTGGCTCTCATAACATTGTTGACGCCATG-TCCGA
* *
12989915 AACATGGTCTTATACTGGCTCTCATATC-GTGTTTGACGCCATGTCCGA
1 AACATGGTCTTATACTGGCTCTCATAACATTG-TTGACGCCATGTCCGA
*
12989963 GACATGGTCTTATACT
1 AACATGGTCTTATACT
12989979 AGTACACATA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 5 0.09
48 51 0.91
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (48 bp):
AACATGGTCTTATACTGGCTCTCATAACATTGTTGACGCCATGTCCGA
Found at i:12989989 original size:48 final size:48
Alignment explanation
Indices: 12989899--12989990 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
12989889 CATAACATTG
* * *
12989899 TTGATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATATCGTGT
1 TTGACGCCATGTTCCAAACATGGTCTTATACTAGCTCACATATCGTGT
*
12989947 TTGACGCCATG-TCCGAGACATGGTCTTATACTAG-TACACATATC
1 TTGACGCCATGTTCC-AAACATGGTCTTATACTAGCT-CACATATC
12989991 ACCCAAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 4 0.11
48 34 0.89
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (48 bp):
TTGACGCCATGTTCCAAACATGGTCTTATACTAGCTCACATATCGTGT
Found at i:12996115 original size:11 final size:11
Alignment explanation
Indices: 12996096--12996129 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
12996086 TGTATGTTAT
*
12996096 TGATGTGAATA
1 TGATTTGAATA
12996107 TGATTTGAATA
1 TGATTTGAATA
12996118 TGATTTGAATA
1 TGATTTGAATA
12996129 T
1 T
12996130 TCATTGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (11 bp):
TGATTTGAATA
Found at i:12996559 original size:46 final size:45
Alignment explanation
Indices: 12996507--12996826 Score: 331
Period size: 46 Copynumber: 7.0 Consensus size: 45
12996497 GCTCTCTGAA
* * *
12996507 ATGAAATATGTAAGATCATGGTTGAAAGATACCATAGCAACATGAT
1 ATGAAATA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
12996553 ATGAAATGTGTAAGACCATAGTTTAAAGATACCATGGCAACATGAT
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
12996599 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAG
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
12996645 ATGAAA-AGAATAAGACCATGGTTCAAAAATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
12996691 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
12996737 ATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
12996783 A-GAAAATGAGTAAGACCATACTTGAAAGACACTATGGCATCATG
1 ATG-AAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATG
12996827 TCAAAAATAA
Statistics
Matches: 233, Mismatches: 31, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 227 0.97
48 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (45 bp):
ATGAAATAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:12996677 original size:92 final size:92
Alignment explanation
Indices: 12996507--12996811 Score: 384
Period size: 92 Copynumber: 3.3 Consensus size: 92
12996497 GCTCTCTGAA
* * * **
12996507 ATGAAAT-ATGTAAGATCATGGTTGAAAGATACCAT-AGCAACATGATATGAAATGTGTAAGACC
1 ATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGA-CAACATGACATGAAAAGAATAAGACC
* * *
12996570 ATAGTTTAAAGATACCATGGCAACATGAT
64 ATGGTTCAAAGATACCATGGCAACATGAC
* * *
12996599 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAGATGAAAAGAATAAGACCAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAAGAATAAGACCAT
*
12996664 GGTTCAAAAATACCATGGCAACATGAC
66 GGTTCAAAGATACCATGGCAACATGAC
** *
12996691 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGA-AACATGACATGAAAAGAATAAGACCA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCAT-GACAACATGACATGAAAAGAATAAGACCA
*
12996755 TGGTTGAAAGATACCATGGCAACATGAC
65 TGGTTCAAAGATACCATGGCAACATGAC
**
12996783 A-GAAAATGAGTAAGACCATACTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
12996812 CACTATGGCA
Statistics
Matches: 186, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
91 1 0.01
92 182 0.98
93 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (92 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAAGAATAAGACCAT
GGTTCAAAGATACCATGGCAACATGAC
Found at i:12996705 original size:138 final size:138
Alignment explanation
Indices: 12996517--12996801 Score: 374
Period size: 138 Copynumber: 2.1 Consensus size: 138
12996507 ATGAAATATG
* * * * * ** *
12996517 TAAGATCATGGTTGAAAGATACCATAGCAACATGATATGAAATGTGTAAGACCATAGTTTAAAGA
1 TAAGACCATGGTTCAAAAATACCATAGCAACATGACAGGAAATGAATAAGACCATAGTTGAAAGA
* * * ** * *
12996582 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAGAT
66 TACCATGGAAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAACATGACA-
12996647 GAAAA-GAA
130 GAAAATGAA
* * *
12996655 TAAGACCATGGTTCAAAAATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTCAAAAATACCATAGCAACATGACAGGAAATGAATAAGACCATAGTTGAAAGA
*
12996720 TACCATGGAAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGAAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAACATGACAG
*
12996785 AAAATGAG
131 AAAATGAA
12996793 TAAGACCAT
1 TAAGACCAT
12996802 ACTTGAAAGA
Statistics
Matches: 126, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
137 5 0.04
138 121 0.96
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTCAAAAATACCATAGCAACATGACAGGAAATGAATAAGACCATAGTTGAAAGA
TACCATGGAAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAACATGACAG
AAAATGAA
Found at i:13000053 original size:7 final size:7
Alignment explanation
Indices: 13000041--13000133 Score: 105
Period size: 7 Copynumber: 13.0 Consensus size: 7
13000031 GATTTTATTA
13000041 CCTAAAC
1 CCTAAAC
13000048 CCTAAAC
1 CCTAAAC
13000055 CCTAAAAC
1 CCT-AAAC
13000063 CCTAAAC
1 CCTAAAC
*
13000070 CATAAAC
1 CCTAAAC
* *
13000077 ACTAAAG
1 CCTAAAC
*
13000084 CTTAAAC
1 CCTAAAC
13000091 CCTAAAC
1 CCTAAAC
* *
13000098 CATAAAG
1 CCTAAAC
13000105 CCTAAAAC
1 CCT-AAAC
*
13000113 CCTAAAT
1 CCTAAAC
13000120 CCTAAAC
1 CCTAAAC
13000127 CCTAAAC
1 CCTAAAC
13000134 ATTTGAGCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
7 57 0.81
8 13 0.19
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:13000069 original size:22 final size:21
Alignment explanation
Indices: 13000041--13000133 Score: 105
Period size: 22 Copynumber: 4.3 Consensus size: 21
13000031 GATTTTATTA
13000041 CCTAAACCCTAAACCCTAAAAC
1 CCTAAACCCTAAACCCT-AAAC
* * *
13000063 CCTAAACCATAAACACTAAAG
1 CCTAAACCCTAAACCCTAAAC
* * *
13000084 CTTAAACCCTAAACCATAAAG
1 CCTAAACCCTAAACCCTAAAC
*
13000105 CCTAAAACCCTAAATCCTAAAC
1 CCT-AAACCCTAAACCCTAAAC
13000127 CCTAAAC
1 CCTAAAC
13000134 ATTTGAGCCC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 26 0.44
22 33 0.56
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.16
Consensus pattern (21 bp):
CCTAAACCCTAAACCCTAAAC
Found at i:13002967 original size:23 final size:23
Alignment explanation
Indices: 13002877--13003013 Score: 111
Period size: 23 Copynumber: 5.9 Consensus size: 23
13002867 AAGCTCCTCC
13002877 TGAGCTGATAAACAGTAAGCT-TTAT
1 TGAGCTG--AAACAGTAAGCTCTT-T
* *
13002902 TGAGCTGAAA-ATGGTCAGCTCTAT
1 TGAGCTGAAACA--GTAAGCTCTTT
13002926 TGAGCTG-AACAGTAAGCTCTTT
1 TGAGCTGAAACAGTAAGCTCTTT
* * ***
13002948 TGAGCTGAATCTGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTTT
13002971 TGAGCTGAAACAGTAAGCT-TTT
1 TGAGCTGAAACAGTAAGCTCTTT
* *
13002993 ACGAGCTGAATCAGTAAGCTC
1 -TGAGCTGAAACAGTAAGCTC
13003014 ATACGAGCTG
Statistics
Matches: 89, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
22 17 0.19
23 49 0.55
24 15 0.17
25 8 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTTT
Found at i:13003003 original size:46 final size:46
Alignment explanation
Indices: 13002877--13003013 Score: 145
Period size: 46 Copynumber: 2.9 Consensus size: 46
13002867 AAGCTCCTCC
** * * *
13002877 TGAGCTGATAAACAGTAAGC-TTTATTGAGCTGAAAATGGTCAGCTCTAT
1 TGAGCTG--AAACAGTAAGCTTTTA-TGAGCTGAATCT-GTAAGCTCCAA
13002926 TGAGCTG-AACAGTAAGCTCTTT-TGAGCTGAATCTGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCT-TTTATGAGCTGAATCTGTAAGCTCCAA
* *
13002971 TGAGCTGAAACAGTAAGCTTTTACGAGCTGAATCAGTAAGCTC
1 TGAGCTGAAACAGTAAGCTTTTATGAGCTGAATCTGTAAGCTC
13003014 ATACGAGCTG
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
45 18 0.23
46 49 0.64
48 3 0.04
49 7 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTTTTATGAGCTGAATCTGTAAGCTCCAA
Found at i:13003018 original size:23 final size:23
Alignment explanation
Indices: 13002927--13003023 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 23
13002917 CAGCTCTATT
* **
13002927 GAGCTGAA-CAGTAAGCTCTTTT
1 GAGCTGAATCAGTAAGCTCATAC
* *
13002949 GAGCTGAATCTGTAAGCTCCA-AT
1 GAGCTGAATCAGTAAGCT-CATAC
* **
13002972 GAGCTGAAACAGTAAGCTTTTAC
1 GAGCTGAATCAGTAAGCTCATAC
13002995 GAGCTGAATCAGTAAGCTCATAC
1 GAGCTGAATCAGTAAGCTCATAC
13003018 GAGCTG
1 GAGCTG
13003024 TGGTGAGTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
22 8 0.13
23 52 0.85
24 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCATAC
Found at i:13003022 original size:46 final size:45
Alignment explanation
Indices: 13002927--13003023 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 45
13002917 CAGCTCTATT
* * *
13002927 GAGCTGAACAGTAAGCTCTTTTGAGCTGAATCTGTAAGCTCCAAT
1 GAGCTGAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAAC
13002972 GAGCTGAAACAGTAAGCT-TTTACGAGCTGAATCAGTAAGCT-CATAC
1 GAGCTG-AACAGTAAGCTCTTT-CGAGCTGAATCAGTAAGCTCCA-AC
13003018 GAGCTG
1 GAGCTG
13003024 TGGTGAGTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
45 11 0.24
46 35 0.76
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
GAGCTGAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAAC
Found at i:13005899 original size:13 final size:13
Alignment explanation
Indices: 13005872--13005904 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13005862 CCAATCTTTG
13005872 ATTTA-TTATCCT
1 ATTTATTTATCCT
*
13005884 ATTTATTTATCTT
1 ATTTATTTATCCT
13005897 ATTTATTT
1 ATTTATTT
13005905 GTTTGTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATTTATCCT
Found at i:13006764 original size:7 final size:7
Alignment explanation
Indices: 13006752--13006782 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13006742 TGAGAGTGAA
13006752 AGAAAAG
1 AGAAAAG
13006759 AGAAAAG
1 AGAAAAG
13006766 AGAAAAG
1 AGAAAAG
*
13006773 AGAGAAG
1 AGAAAAG
13006780 AGA
1 AGA
13006783 TGGTGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:13012931 original size:54 final size:53
Alignment explanation
Indices: 13012849--13012985 Score: 211
Period size: 54 Copynumber: 2.5 Consensus size: 53
13012839 AGCGTCCTGG
* *
13012849 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTTCCACATATATCTGTTCTGA
1 TGGCTCTGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGA
*
13012903 TGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGA
*
13012957 TGGCTCTGCCACAATATCTGTATCTGGTG
1 TGGCTCTGCCACATTATCTG-ATCTGGTG
13012986 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 70 0.91
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (53 bp):
TGGCTCTGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGA
Found at i:13012996 original size:27 final size:27
Alignment explanation
Indices: 13012845--13013003 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
13012835 AGGAAGCGTC
*
13012845 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
13012872 CTGGTGGCTCTTCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
13012899 CTGATGGCTCTGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
13012926 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
13012953 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
13012980 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
13013004 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:13018131 original size:13 final size:13
Alignment explanation
Indices: 13018113--13018137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13018103 CGCACCGCTT
13018113 CTCCCACACGCAA
1 CTCCCACACGCAA
13018126 CTCCCACACGCA
1 CTCCCACACGCA
13018138 CCACGCCCGC
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:0.28, C:0.56, G:0.08, T:0.08
Consensus pattern (13 bp):
CTCCCACACGCAA
Found at i:13023624 original size:19 final size:19
Alignment explanation
Indices: 13023600--13023661 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
13023590 AATCTTTAAG
13023600 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13023619 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13023638 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
13023659 GAT
1 GAT
13023662 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13024034 original size:19 final size:19
Alignment explanation
Indices: 13024010--13024053 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13024000 TTAACCTTTT
*
13024010 TATATAGTTTATTTTCAAA
1 TATATAGTTTATTTGCAAA
* * *
13024029 TATATATTTTCTTTGCATA
1 TATATAGTTTATTTGCAAA
13024048 TATATA
1 TATATA
13024054 TTATATTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (19 bp):
TATATAGTTTATTTGCAAA
Found at i:13027440 original size:4 final size:4
Alignment explanation
Indices: 13027431--13027470 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
13027421 CATCTGACTG
*
13027431 CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
13027471 TGCATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:13027756 original size:92 final size:93
Alignment explanation
Indices: 13027589--13027761 Score: 224
Period size: 92 Copynumber: 1.9 Consensus size: 93
13027579 CCGATATCGG
* * * **
13027589 TATAGCAGATTATCGTATTGCACTGTACTGCATGTACATTAGCTACGCTGCGTACCTTTCATTGA
1 TATAGCAGATTACCGCATTGCACTGTACTGCATGTACATTAGCTACGCTACGTACCACTCATTGA
* *
13027654 ACTGGTAGTTT-TACTGCAACCTATCAA
66 ACAGGCAGTTTATACTGCAACCTATCAA
* * *
13027681 TATAGCGGATTACCGCATTGCACTGTACTGCATGTACGTTAGCTACGCTATGTACCACT-ATCTG
1 TATAGCAGATTACCGCATTGCACTGTACTGCATGTACATTAGCTACGCTACGTACCACTCAT-TG
*
13027745 ATCAGGCAGTTTATACT
65 AACAGGCAGTTTATACT
13027762 ACATGTCTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
91 2 0.03
92 62 0.91
93 4 0.06
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (93 bp):
TATAGCAGATTACCGCATTGCACTGTACTGCATGTACATTAGCTACGCTACGTACCACTCATTGA
ACAGGCAGTTTATACTGCAACCTATCAA
Found at i:13028123 original size:12 final size:12
Alignment explanation
Indices: 13028083--13028124 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
13028073 TATGCATCAT
13028083 ATTGACTGTTTG
1 ATTGACTGTTTG
* *
13028095 ATTGAAATGTCTG
1 ATTG-ACTGTTTG
13028108 ATTGACTGTTTG
1 ATTGACTGTTTG
13028120 ATTGA
1 ATTGA
13028125 AAGGCACTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (12 bp):
ATTGACTGTTTG
Found at i:13029081 original size:7 final size:7
Alignment explanation
Indices: 13029065--13029114 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
13029055 ATCCAATACT
*
13029065 TATCACA
1 TATCAAA
13029072 TATCAAA
1 TATCAAA
13029079 TATCAAA
1 TATCAAA
13029086 TATCAAACA
1 TATC-AA-A
13029095 TAT-AAA
1 TATCAAA
*
13029101 -ATCACA
1 TATCAAA
13029107 TATCAAA
1 TATCAAA
13029114 T
1 T
13029115 TTGCATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 2 0.06
6 3 0.08
7 25 0.69
8 2 0.06
9 4 0.11
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (7 bp):
TATCAAA
Found at i:13029112 original size:21 final size:23
Alignment explanation
Indices: 13029069--13029113 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
13029059 AATACTTATC
13029069 ACATATCAAATATCAAATATCAA
1 ACATATCAAATATCAAATATCAA
*
13029092 ACATAT-AAA-ATCACATATCAA
1 ACATATCAAATATCAAATATCAA
13029113 A
1 A
13029114 TTTGCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 3 0.14
23 6 0.29
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (23 bp):
ACATATCAAATATCAAATATCAA
Found at i:13029238 original size:30 final size:30
Alignment explanation
Indices: 13029197--13029253 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
13029187 ACGGGAATAA
*
13029197 GTTGTTCACACAAGCTGACAATATATTAGG
1 GTTGCTCACACAAGCTGACAATATATTAGG
*
13029227 GTTGCTCACACAAGCTGACAGTATATT
1 GTTGCTCACACAAGCTGACAATATATT
13029254 GAGGTTACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (30 bp):
GTTGCTCACACAAGCTGACAATATATTAGG
Found at i:13032016 original size:26 final size:26
Alignment explanation
Indices: 13031985--13032092 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
13031975 TGAAATGCCC
*
13031985 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13032011 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
13032037 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13032063 AACATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13032089 ATCA
1 ATCA
13032093 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13038759 original size:20 final size:19
Alignment explanation
Indices: 13038725--13038781 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
13038715 TGAAATATTA
*
13038725 GAATC-CATTAGAAATTTT
1 GAATCACATTAAAAATTTT
* *
13038743 CGTATTACATTAAAAATATTT
1 -GAATCACATTAAAAAT-TTT
*
13038764 GAATCACGTTAAAAATTT
1 GAATCACATTAAAAATTT
13038782 GGCTTTTTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.39
Consensus pattern (19 bp):
GAATCACATTAAAAATTTT
Found at i:13046417 original size:91 final size:92
Alignment explanation
Indices: 13046262--13046444 Score: 341
Period size: 91 Copynumber: 2.0 Consensus size: 92
13046252 GTAAAATGAA
*
13046262 TTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCTGAATATAGAAAGGAG
1 TTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGAAAGGAG
13046327 AAA-CATGGCTAGGGTTTTTCAAGCTT
66 AAACCATGGCTAGGGTTTTTCAAGCTT
*
13046353 TTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGCAAGGAG
1 TTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGAAAGGAG
13046418 AAACCATGGCTAGGGTTTTTCAAGCTT
66 AAACCATGGCTAGGGTTTTTCAAGCTT
13046445 CCAAGCTCGA
Statistics
Matches: 89, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
91 66 0.74
92 23 0.26
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (92 bp):
TTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCATGGCCGAATATAGAAAGGAG
AAACCATGGCTAGGGTTTTTCAAGCTT
Found at i:13047404 original size:47 final size:47
Alignment explanation
Indices: 13047335--13047736 Score: 804
Period size: 47 Copynumber: 8.6 Consensus size: 47
13047325 GCAAATGTCC
13047335 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047382 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047429 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047476 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047523 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047570 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047617 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047664 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
13047711 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
13047737 ACTCATGGAT
Statistics
Matches: 355, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 355 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCT
Found at i:13050738 original size:15 final size:15
Alignment explanation
Indices: 13050718--13050786 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
13050708 ATATCTTGGG
13050718 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
13050733 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
13050748 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
13050763 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
13050778 TTTCTTTAT
1 TTTCTTTAT
13050787 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:13050787 original size:30 final size:30
Alignment explanation
Indices: 13050709--13050796 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
13050699 CATAGTATCA
* * * *
13050709 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
13050739 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
13050769 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
13050797 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:13056576 original size:23 final size:22
Alignment explanation
Indices: 13056540--13056594 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
13056530 TTAAATTTAA
13056540 AAATTTTAAAAATAAAACAACT
1 AAATTTTAAAAATAAAACAACT
* **
13056562 AAATTCTTATAAATAAAATTACT
1 AAATT-TTAAAAATAAAACAACT
*
13056585 AAATATTAAA
1 AAATTTTAAA
13056595 TTTCTTTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTTTAAAAATAAAACAACT
Found at i:13056778 original size:14 final size:14
Alignment explanation
Indices: 13056759--13056787 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13056749 GTAGTAAAGC
13056759 ACACTAAAATTAGT
1 ACACTAAAATTAGT
13056773 ACACTAAAATTAGT
1 ACACTAAAATTAGT
13056787 A
1 A
13056788 TTAAAATTTA
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:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACACTAAAATTAGT
Found at i:13059476 original size:26 final size:26
Alignment explanation
Indices: 13059447--13059554 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
13059437 TGGTACAAAT
13059447 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
13059473 TGATAACGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13059499 TGATAATGGGTTGGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13059525 TGAGAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13059551 TGAT
1 TGAT
13059555 GGGCATTTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13061073 original size:26 final size:26
Alignment explanation
Indices: 13061044--13061093 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
13061034 ACAGTTTTAT
13061044 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
13061070 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
13061094 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:13063863 original size:39 final size:40
Alignment explanation
Indices: 13063793--13063916 Score: 106
Period size: 38 Copynumber: 3.3 Consensus size: 40
13063783 ATAATAATGT
* * *
13063793 ATGTTA-TATATTAT-TTTT-ATAATATTATATATTATG-
1 ATGTTATTAAATTATATTTTAATAATAATATATATTAAGA
*
13063829 ATTTCTATT-AATTCATATTTTAATAATAAT-TATATTAAGA
1 ATGT-TATTAAATT-ATATTTTAATAATAATATATATTAAGA
*
13063869 ATGTTATTAAATTATA-TTTAATAATAATCT-TATTAA-A
1 ATGTTATTAAATTATATTTTAATAATAATATATATTAAGA
*
13063906 AT-TTAATAAAT
1 ATGTTATTAAAT
13063917 AATAACAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
36 11 0.15
37 8 0.11
38 21 0.28
39 20 0.27
40 14 0.19
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (40 bp):
ATGTTATTAAATTATATTTTAATAATAATATATATTAAGA
Found at i:13064072 original size:44 final size:44
Alignment explanation
Indices: 13064001--13064106 Score: 160
Period size: 44 Copynumber: 2.4 Consensus size: 44
13063991 TACAACATCT
*
13064001 ATTCCATTCAACCAAATACAATGATACTAATATAGATCTATTCC
1 ATTCCATTCAACCAAACACAATGATACTAATATAGATCTATTCC
* * *
13064045 ATTGCATTCAACCAAACACAA-GAATACTATTATAGCTCTATTCC
1 ATTCCATTCAACCAAACACAATG-ATACTAATATAGATCTATTCC
13064089 ATTCCATTCAACCAAACA
1 ATTCCATTCAACCAAACA
13064107 ACTGAATTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAATGATACTAATATAGATCTATTCC
Found at i:13064140 original size:16 final size:16
Alignment explanation
Indices: 13064119--13064170 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
13064109 TGAATTACTG
13064119 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
*
13064135 ATTACAG-TTCTATTAC
1 ATTACAGCTT-TATTCC
*
13064151 ATTACAGCTCTATTCC
1 ATTACAGCTTTATTCC
13064167 ATTA
1 ATTA
13064171 TAACCCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 2 0.06
16 28 0.90
17 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:13064810 original size:27 final size:27
Alignment explanation
Indices: 13064728--13064814 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
13064718 TGGTGTAATT
*
13064728 AAAAAAACTTGAGACACCATGAAATTAA
1 AAAAAAACTTGAAACACCATGAAA-TAA
* *
13064756 AAATACATAA-TT-ATAA-A-CATTAACTAA
1 AAA-A-A-AACTTGA-AACACCATGAAATAA
13064783 AAAAAAACTTGAAACACCATGAAATAA
1 AAAAAAACTTGAAACACCATGAAATAA
13064810 AAAAA
1 AAAAA
13064815 TACATATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 17
0.68 0.07 0.25
Matches are distributed among these distances:
24 2 0.04
25 5 0.11
26 3 0.07
27 19 0.41
28 8 0.17
29 3 0.07
30 4 0.09
31 2 0.04
ACGTcount: A:0.62, C:0.13, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAAAAACTTGAAACACCATGAAATAA
Found at i:13065841 original size:60 final size:60
Alignment explanation
Indices: 13065743--13065865 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
13065733 TAAATTTGCC
*
13065743 TCTCCATGAGAACCCTAAATCAATATCATAACTTATGATTTAGGTTACGATGTTATCATG
1 TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
13065803 TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
1 TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
13065863 TCT
1 TCT
13065866 GACCAAATAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (60 bp):
TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
Found at i:13068545 original size:16 final size:14
Alignment explanation
Indices: 13068504--13068538 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
13068494 TTCTTGATTT
13068504 TAATTTTCA-TAAAA
1 TAATTTT-ATTAAAA
13068518 TAATTTTATTAAAA
1 TAATTTTATTAAAA
13068532 TAATTTT
1 TAATTTT
13068539 TTGTTAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTTTATTAAAA
Found at i:13071897 original size:29 final size:29
Alignment explanation
Indices: 13071855--13071912 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
13071845 GAATCTTCTA
13071855 ACTGTTAGAAACTTTTATCAGATAGTCTT
1 ACTGTTAGAAACTTTTATCAGATAGTCTT
13071884 ACTGTTAGAAACTTTTATCAGATAGTCTT
1 ACTGTTAGAAACTTTTATCAGATAGTCTT
13071913 TCTTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (29 bp):
ACTGTTAGAAACTTTTATCAGATAGTCTT
Found at i:13074508 original size:11 final size:11
Alignment explanation
Indices: 13074492--13074516 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13074482 GATGAATATT
13074492 TTTATTTAAAA
1 TTTATTTAAAA
13074503 TTTATTTAAAA
1 TTTATTTAAAA
13074514 TTT
1 TTT
13074517 TGGTAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATTTAAAA
Found at i:13075789 original size:30 final size:33
Alignment explanation
Indices: 13075753--13075819 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 33
13075743 TTTACAAACA
13075753 AACAGATC-T-TGGCC-AGAATGTGAATAATGT
1 AACAGATCATATGGCCAAGAATGTGAATAATGT
13075783 AACAGATCATATGGCCGGAAAGAATGTGAATAATGT
1 AACAGATCATATGGCC---AAGAATGTGAATAATGT
13075819 A
1 A
13075820 CTTTGCTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
30 8 0.26
31 1 0.03
32 5 0.16
36 17 0.55
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (33 bp):
AACAGATCATATGGCCAAGAATGTGAATAATGT
Found at i:13078545 original size:30 final size:30
Alignment explanation
Indices: 13078496--13078557 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
13078486 ATTAATAATT
*
13078496 TATAAGAATTAAATTAAATTAAAATATTATA
1 TATAAGAATTAAATAAAATTAAAAT-TTATA
*
13078527 TATAA-AATTACATAAAATTAAAATTTATA
1 TATAAGAATTAAATAAAATTAAAATTTATA
13078556 TA
1 TA
13078558 AAATTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.24
30 17 0.59
31 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (30 bp):
TATAAGAATTAAATAAAATTAAAATTTATA
Found at i:13078560 original size:17 final size:16
Alignment explanation
Indices: 13078529--13078563 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
13078519 ATATTATATA
13078529 TAAAATTACATAAAAT
1 TAAAATTACATAAAAT
*
13078545 TAAAATTTATATAAAAT
1 TAAAA-TTACATAAAAT
13078562 TA
1 TA
13078564 TATATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAATTACATAAAAT
Found at i:13078577 original size:29 final size:28
Alignment explanation
Indices: 13078481--13078582 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 28
13078471 TTTACCAATA
* *
13078481 ATTATATTAATAATTTATA-AGAATTAA-
1 ATTAAATTAA-AATTTATATAAAATTAAT
13078508 ATTAAATTAAAATATTATATATAAAATTACAT
1 ATTAAATT-AAA-ATT-TATATAAAATTA-AT
13078540 A--AAATTAAAATTTATATAAAATTATAT
1 ATTAAATTAAAATTTATATAAAATTA-AT
*
13078567 ATTAAACTAAAATTTA
1 ATTAAATTAAAATTTA
13078583 CTTATAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
27 23 0.37
28 8 0.13
29 19 0.30
30 11 0.17
31 1 0.02
32 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (28 bp):
ATTAAATTAAAATTTATATAAAATTAAT
Found at i:13083146 original size:15 final size:15
Alignment explanation
Indices: 13083122--13083151 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13083112 ACATCTAATA
*
13083122 TAAACTAACCCAAAC
1 TAAACCAACCCAAAC
13083137 TAAACCAACCCAAAC
1 TAAACCAACCCAAAC
13083152 CCACCTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10
Consensus pattern (15 bp):
TAAACCAACCCAAAC
Found at i:13084748 original size:22 final size:23
Alignment explanation
Indices: 13084710--13084765 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
13084700 ATATACCTTT
**
13084710 TTTATTATTT-TACTTTATTATA
1 TTTATTATTTATACTTTAACATA
*
13084732 TTTATTATTTAT-TTTTAACATA
1 TTTATTATTTATACTTTAACATA
13084754 -TTATTATTTATA
1 TTTATTATTTATA
13084766 TCATCATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
22 17 0.59
23 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTATTTATACTTTAACATA
Found at i:13085453 original size:24 final size:24
Alignment explanation
Indices: 13085425--13085483 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
13085415 TTAATGTTAT
* *
13085425 TATGTATGTAC-TTTTCCTATATA
1 TATGTATATACATTTTCATATATA
*
13085448 TCATGTACATACATTTTTCATATATA
1 T-ATGTATATACA-TTTTCATATATA
13085474 TATGTATATA
1 TATGTATATA
13085484 TTATGTATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 8 0.28
25 8 0.28
26 12 0.41
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (24 bp):
TATGTATATACATTTTCATATATA
Found at i:13100053 original size:2 final size:2
Alignment explanation
Indices: 13100046--13100903 Score: 1682
Period size: 2 Copynumber: 429.5 Consensus size: 2
13100036 AGTACAATAA
13100046 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100088 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100130 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100172 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100214 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100256 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100298 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100340 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100382 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100424 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100466 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100508 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100550 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100592 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100634 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100676 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100718 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100760 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100802 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
13100844 AG AG AG AG TG AG TG AG AG AG TG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13100886 AG AG AG AG AG AG A- AG AG A
1 AG AG AG AG AG AG AG AG AG A
13100904 ACATTGTGAA
Statistics
Matches: 849, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
1 1 0.00
2 848 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13102448 original size:7 final size:7
Alignment explanation
Indices: 13102436--13102470 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
13102426 ATAATATTTT
13102436 GGGTTTA
1 GGGTTTA
13102443 GGGTTTA
1 GGGTTTA
13102450 GGGTTTA
1 GGGTTTA
*
13102457 GAGTTTA
1 GGGTTTA
13102464 GGGTTTA
1 GGGTTTA
13102471 TAGTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:13102455 original size:14 final size:14
Alignment explanation
Indices: 13102436--13102476 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
13102426 ATAATATTTT
*
13102436 GGGTTTAGGGTTTA
1 GGGTTTAGAGTTTA
13102450 GGGTTTAGAGTTTA
1 GGGTTTAGAGTTTA
*
13102464 GGGTTTATAGTTT
1 GGGTTTAGAGTTT
13102477 GTTTTATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
GGGTTTAGAGTTTA
Found at i:13102551 original size:17 final size:17
Alignment explanation
Indices: 13102529--13102572 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
13102519 TAATTTTAAA
13102529 TTTGCTTTATAAAATAG
1 TTTGCTTTATAAAATAG
13102546 TTTGCTTTATAAAATAG
1 TTTGCTTTATAAAATAG
*
13102563 TTTGTTTTAT
1 TTTGCTTTAT
13102573 GTGCCTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (17 bp):
TTTGCTTTATAAAATAG
Found at i:13105602 original size:8 final size:7
Alignment explanation
Indices: 13105581--13105616 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
13105571 ACCCTTTCTC
13105581 AAAGAAA
1 AAAGAAA
13105588 AACA-AAA
1 AA-AGAAA
13105595 AAAGAAA
1 AAAGAAA
13105602 AAAGAAA
1 AAAGAAA
13105609 AAAGAAA
1 AAAGAAA
13105616 A
1 A
13105617 GAAATAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 25 0.93
8 1 0.04
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:13106029 original size:20 final size:20
Alignment explanation
Indices: 13105991--13106029 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13105981 TGGAACAAGA
*
13105991 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
13106011 ATATCGATACTTTAAGAAA
1 ATATCGATACCTTAAGAAA
13106030 AGTATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:13108750 original size:27 final size:27
Alignment explanation
Indices: 13108556--13108749 Score: 262
Period size: 27 Copynumber: 7.1 Consensus size: 27
13108546 CCCTAATTGA
* * *
13108556 TAAAATGACTATTTTTTCCTTTATGTGG
1 TAAAATGACT-GTTTTGCCCTTATGTGG
* *
13108584 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
13108611 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
13108638 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
13108665 TAAAATGACTGTTTTGCCCTTATGTTG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
13108692 TAAAATGATTGTTTCGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
13108719 TAAATTGACTGTTTTGCCCCTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGG
13108746 TAAA
1 TAAA
13108750 TGTTTATATT
Statistics
Matches: 147, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 137 0.93
28 10 0.07
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:13109105 original size:18 final size:17
Alignment explanation
Indices: 13109078--13109111 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
13109068 ACATATATGT
13109078 ACTGTTACTGTTACTGC
1 ACTGTTACTGTTACTGC
13109095 ACTGTTTACTGTTACTG
1 ACTG-TTACTGTTACTG
13109112 TAATGGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (17 bp):
ACTGTTACTGTTACTGC
Found at i:13110117 original size:18 final size:18
Alignment explanation
Indices: 13110077--13110118 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
13110067 AAAAATTTTC
*
13110077 GCTTTT-TCACTCACAAT
1 GCTTTTATCACTAACAAT
* *
13110094 GTTTTTATCACTAACCAT
1 GCTTTTATCACTAACAAT
13110112 GCTTTTA
1 GCTTTTA
13110119 ACCTTCACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (18 bp):
GCTTTTATCACTAACAAT
Found at i:13110135 original size:18 final size:18
Alignment explanation
Indices: 13110084--13110135 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
13110074 TTCGCTTTTT
*
13110084 CACTCACAATGTTTTTAT
1 CACTCACAATGTTTTTAA
* * *
13110102 CACTAACCATGCTTTTAA
1 CACTCACAATGTTTTTAA
13110120 C-CTTCACAATGTTTTT
1 CAC-TCACAATGTTTTT
13110136 TTTGCTCGCA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (18 bp):
CACTCACAATGTTTTTAA
Found at i:13110980 original size:27 final size:27
Alignment explanation
Indices: 13110950--13111013 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
13110940 TTTCTCATCC
*
13110950 TTATTTTACCCCCCGTAAAATTTTTGA
1 TTATTTTACCCCCCATAAAATTTTTGA
* * *
13110977 TTATTTTA-CGCCCATAAATTTTTTTA
1 TTATTTTACCCCCCATAAAATTTTTGA
13111003 TTATTTTACCC
1 TTATTTTACCC
13111014 ATGGTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (27 bp):
TTATTTTACCCCCCATAAAATTTTTGA
Found at i:13111026 original size:26 final size:25
Alignment explanation
Indices: 13110950--13111026 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 25
13110940 TTTCTCATCC
*
13110950 TTATTTTACCCCCCGTAAAATTTTTGA
1 TTATTTTA--CCCAGTAAAATTTTTGA
* *
13110977 TTATTTTACGCCCA-TAAATTTTTTTA
1 TTATTTTA--CCCAGTAAAATTTTTGA
13111003 TTATTTTACCCATGGTAAAATTTT
1 TTATTTTACCCA--GTAAAATTTT
13111027 GAGAAAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
24 4 0.10
26 18 0.43
27 20 0.48
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.49
Consensus pattern (25 bp):
TTATTTTACCCAGTAAAATTTTTGA
Found at i:13118839 original size:27 final size:27
Alignment explanation
Indices: 13118799--13118886 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
13118789 AGGAAGCGTC
*
13118799 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* * *
13118826 CTGGTGGCTCTGCCATATATT-TTTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
13118853 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
13118881 CTGGTG
1 CTGGTG
13118887 ACTTTGTCCC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.06
27 37 0.74
28 10 0.20
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:13118905 original size:54 final size:53
Alignment explanation
Indices: 13118799--13118910 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 53
13118789 AGGAAGCGTC
*
13118799 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATTTTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCATATA-TTTTGTT
* * *
13118853 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTTTGTCCCAT-TA-TTTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTG--CCATATATTTTGTT
13118907 CTGG
1 CTGG
13118911 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
54 33 0.65
55 12 0.24
56 2 0.04
57 4 0.08
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCATATATTTTGTT
Found at i:13124510 original size:22 final size:22
Alignment explanation
Indices: 13124478--13124520 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13124468 GAATGATCTA
*
13124478 TTGATTTTTAAAATATATTCAG
1 TTGATTATTAAAATATATTCAG
*
13124500 TTGATTATTAATATATATTCA
1 TTGATTATTAAAATATATTCA
13124521 AGAATTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
TTGATTATTAAAATATATTCAG
Found at i:13126174 original size:5 final size:5
Alignment explanation
Indices: 13126161--13126294 Score: 67
Period size: 5 Copynumber: 27.0 Consensus size: 5
13126151 AAAGCAAAAT
* * * ** * *
13126161 AGAAA AGAAC AGAAC AAAAC AAGTA- A-AAC AGAAC AGAAC TTAAT AGAGC
1 AGAAC AGAAC AGAAC AGAAC -AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC
* * * * *
13126210 AGAAC AGAAC ATAAT GGAAC AGAAC AGAAC AGAAC TA-AGC AGAAC AGAAT
1 AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC -AGAAC AGAAC AGAAC
* * ** * *
13126260 GGAGC AGAGT AGAAC GGAAC AGAGC AGAAC AGAAC
1 AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC
13126295 GTGTATGTTT
Statistics
Matches: 91, Mismatches: 33, Indels: 10
0.68 0.25 0.07
Matches are distributed among these distances:
3 1 0.01
4 3 0.03
5 84 0.92
6 3 0.03
ACGTcount: A:0.55, C:0.16, G:0.22, T:0.07
Consensus pattern (5 bp):
AGAAC
Found at i:13126214 original size:20 final size:20
Alignment explanation
Indices: 13126189--13126258 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
13126179 ACAAGTAAAA
*
13126189 CAGAACAGAACTTAATAGAG
1 CAGAACAGAACATAATAGAG
* *
13126209 CAGAACAGAACATAATGGAA
1 CAGAACAGAACATAATAGAG
*
13126229 CAGAACAGAACAGAACTA-AG
1 CAGAACAGAACATAA-TAGAG
13126249 CAGAACAGAA
1 CAGAACAGAA
13126259 TGGAGCAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.54, C:0.17, G:0.20, T:0.09
Consensus pattern (20 bp):
CAGAACAGAACATAATAGAG
Found at i:13126253 original size:35 final size:35
Alignment explanation
Indices: 13126191--13126293 Score: 100
Period size: 35 Copynumber: 2.9 Consensus size: 35
13126181 AAGTAAAACA
** * * * *
13126191 GAACAGAACTTAATAGAGCAGAACAGAACATAATG
1 GAACAGAACAGAACAGAACAGAGCAGAACAGAATG
13126226 GAACAGAACAGAACAGAACTA-AGCAGAACAGAATG
1 GAACAGAACAGAACAGAAC-AGAGCAGAACAGAATG
* ** *
13126261 GAGCAGAGTAGAACGGAACAGAGCAGAACAGAA
1 GAACAGAACAGAACAGAACAGAGCAGAACAGAA
13126294 CGTGTATGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 1 0.02
35 54 0.96
36 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.25, T:0.08
Consensus pattern (35 bp):
GAACAGAACAGAACAGAACAGAGCAGAACAGAATG
Found at i:13127426 original size:36 final size:36
Alignment explanation
Indices: 13127379--13127450 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
13127369 CACGCGATAT
13127379 GGACGTGACGGACATGGCCGTGTAATGGCTGGTAGG
1 GGACGTGACGGACATGGCCGTGTAATGGCTGGTAGG
13127415 GGACGTGACGGACATGGCCGTGTAATGGCTGGTAGG
1 GGACGTGACGGACATGGCCGTGTAATGGCTGGTAGG
13127451 CCGTGTGGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.17, G:0.44, T:0.19
Consensus pattern (36 bp):
GGACGTGACGGACATGGCCGTGTAATGGCTGGTAGG
Found at i:13132761 original size:53 final size:53
Alignment explanation
Indices: 13132663--13132767 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
13132653 CATCGTGTAT
* * *
13132663 CGATTGACCAAGACTACACATTTCATTCCTGTTAGGATGATCTTTTCCCTACC
1 CGATTGACCAAGACTACACATTTCATTCCTGTAAGGAAGAGCTTTTCCCTACC
* * * *
13132716 CGATTGACCAAGGCTGCACATTTTATTCTTGTAAGGACAG-GCTTTTCCCTAC
1 CGATTGACCAAGACTACACATTTCATTCCTGTAAGGA-AGAGCTTTTCCCTAC
13132768 AGAAGTTGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (53 bp):
CGATTGACCAAGACTACACATTTCATTCCTGTAAGGAAGAGCTTTTCCCTACC
Found at i:13134883 original size:17 final size:18
Alignment explanation
Indices: 13134861--13134894 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13134851 TTGGGCCGTG
*
13134861 TGTGGG-CCACATGGGCT
1 TGTGGGTCCACACGGGCT
13134878 TGTGGGTCCACACGGGC
1 TGTGGGTCCACACGGGC
13134895 AAGCCCCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.26, G:0.41, T:0.21
Consensus pattern (18 bp):
TGTGGGTCCACACGGGCT
Found at i:13135285 original size:40 final size:40
Alignment explanation
Indices: 13135214--13135290 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
13135204 GTCCAGCCAG
* *
13135214 ATTTGGTGTGTAGGGTTGGATGGATTGATTTTATCCCCAT
1 ATTTGGTGTGTAGGGATGGATGGATTAATTTTATCCCCAT
* *
13135254 ATTTGGTGTGTAGGGATGGGTGGGTTAATTTTATCCC
1 ATTTGGTGTGTAGGGATGGATGGATTAATTTTATCCC
13135291 TACATGGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (40 bp):
ATTTGGTGTGTAGGGATGGATGGATTAATTTTATCCCCAT
Found at i:13138035 original size:17 final size:17
Alignment explanation
Indices: 13137998--13138051 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
13137988 TTCTTTGACC
* *
13137998 TATTTAGTTTATAAATC
1 TATTTAGTTTATATATA
13138015 TATTTAGTTTATATATA
1 TATTTAGTTTATATATA
* *
13138032 TATTGGAGTTTAGATATA
1 TATT-TAGTTTATATATA
13138050 TA
1 TA
13138052 ATACATATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (17 bp):
TATTTAGTTTATATATA
Found at i:13138061 original size:25 final size:22
Alignment explanation
Indices: 13138031--13138086 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 22
13138021 GTTTATATAT
13138031 ATATTGGAGTTTAGATATATAATAC
1 ATATTGG-GTTT--ATATATAATAC
13138056 ATATTGGGTTTATATATAAT--
1 ATATTGGGTTTATATATAATAC
13138076 ATATTGGGTTT
1 ATATTGGGTTT
13138087 GGGCTTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.35
22 9 0.29
24 4 0.13
25 7 0.23
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (22 bp):
ATATTGGGTTTATATATAATAC
Found at i:13148007 original size:21 final size:21
Alignment explanation
Indices: 13147981--13148096 Score: 117
Period size: 21 Copynumber: 5.4 Consensus size: 21
13147971 TACACGGTCT
* *
13147981 GGCCACATGGATGTGTGGGAA
1 GGCCACACGGATGTGTGGGGA
* **
13148002 GGCCACATGGGCGTGTGGGGA
1 GGCCACACGGATGTGTGGGGA
**
13148023 GGCCACACGGGCGTGTGGGGA
1 GGCCACACGGATGTGTGGGGA
13148044 GGCCACAC-GAGTGTGTGGGGA
1 GGCCACACGGA-TGTGTGGGGA
*
13148065 GGCCACACGGCCATGTGTTGGGA
1 GGCCACACGG--ATGTGTGGGGA
*
13148088 AGCCACACG
1 GGCCACACG
13148097 ACTTGGCCAC
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.01
21 63 0.76
22 1 0.01
23 17 0.20
24 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.45, T:0.14
Consensus pattern (21 bp):
GGCCACACGGATGTGTGGGGA
Found at i:13148040 original size:42 final size:42
Alignment explanation
Indices: 13147993--13148097 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
13147983 CCACATGGAT
* *
13147993 GTGTGGGAAGGCCACATGGGCGTGTGGGGAGGCCACACGGGC
1 GTGTGGGAAGGCCACACGAGCGTGTGGGGAGGCCACACGGGC
* * *
13148035 GTGTGGGGAGGCCACACGAGTGTGTGGGGAGGCCACACGGCC
1 GTGTGGGAAGGCCACACGAGCGTGTGGGGAGGCCACACGGGC
13148077 ATGTGTTGGGAA-GCCACACGA
1 --GTG-TGGGAAGGCCACACGA
13148098 CTTGGCCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
42 37 0.69
44 12 0.22
45 5 0.09
ACGTcount: A:0.19, C:0.22, G:0.46, T:0.13
Consensus pattern (42 bp):
GTGTGGGAAGGCCACACGAGCGTGTGGGGAGGCCACACGGGC
Found at i:13150706 original size:103 final size:103
Alignment explanation
Indices: 13150527--13150730 Score: 372
Period size: 103 Copynumber: 2.0 Consensus size: 103
13150517 AAGGGTTGAC
* *
13150527 TTGATTCACTTGAATCCAATTCAATCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
1 TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
*
13150592 TATCTTCACTAACACGGAACATAAATAGGTTTAAAGAT
66 TATCTTCACTAACACGGAACATAAATAAGTTTAAAGAT
*
13150630 TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAGTGATTGGTTTCCATAGATGGACTATAG
1 TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
13150695 TATCTTCACTAACACGGAACATAAATAAGTTTAAAG
66 TATCTTCACTAACACGGAACATAAATAAGTTTAAAG
13150731 GTTTTCTTCA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (103 bp):
TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
TATCTTCACTAACACGGAACATAAATAAGTTTAAAGAT
Found at i:13151059 original size:25 final size:25
Alignment explanation
Indices: 13151031--13151079 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
13151021 AATATATTAT
**
13151031 AAATTTATCATTTGGTTTTTATTTC
1 AAATTTATCATTTGAATTTTATTTC
*
13151056 AAATTTATGATTTGAATTTTATTT
1 AAATTTATCATTTGAATTTTATTT
13151080 TTTTTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (25 bp):
AAATTTATCATTTGAATTTTATTTC
Found at i:13159709 original size:44 final size:42
Alignment explanation
Indices: 13159648--13159804 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
13159638 TGTGTTATCG
* *
13159648 TGTAAGACCACCTCTGGGACGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTACA
* * * *
13159692 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTAATTT-CA
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTACA
*
13159734 TGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG--ATTTGATTTACA
13159777 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
13159805 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 28 0.30
43 36 0.38
44 29 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTACA
Found at i:13179812 original size:24 final size:24
Alignment explanation
Indices: 13179779--13179824 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13179769 ATTGTTGTGG
*
13179779 TGATGCTCCCTAATCAAAAGGAAA
1 TGATGCTCCCTAACCAAAAGGAAA
* *
13179803 TGATGGTCCCTGACCAAAAGGA
1 TGATGCTCCCTAACCAAAAGGA
13179825 GTATTGAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (24 bp):
TGATGCTCCCTAACCAAAAGGAAA
Found at i:13183062 original size:21 final size:21
Alignment explanation
Indices: 13183036--13183076 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13183026 AATGCTCACT
13183036 CTTGTCTCCTATTGAAATTAC
1 CTTGTCTCCTATTGAAATTAC
* *
13183057 CTTGTCTTCTGTTGAAATTA
1 CTTGTCTCCTATTGAAATTA
13183077 TTCTTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (21 bp):
CTTGTCTCCTATTGAAATTAC
Found at i:13189616 original size:20 final size:20
Alignment explanation
Indices: 13189591--13189657 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 20
13189581 TATTTGGGCA
13189591 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
* * *
13189611 TCCGAGTTCACTTATAGATGTGAATG
1 TCCGAGCTC-GTT-GAG-T-TG-A-G
13189637 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
13189657 T
1 T
13189658 TTGAGTTCGT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
20 10 0.29
21 3 0.09
22 4 0.11
23 2 0.06
24 4 0.11
25 3 0.09
26 9 0.26
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (20 bp):
TCCGAGCTCGTTGAGTTGAG
Found at i:13189644 original size:46 final size:46
Alignment explanation
Indices: 13189591--13189855 Score: 251
Period size: 46 Copynumber: 5.7 Consensus size: 46
13189581 TATTTGGGCA
13189591 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
** * *
13189637 TCCGAGCTCGTTGAGTTGAGTTTGAGTT--CGT-GAGATGT-AACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAA-T--G
* * *
13189682 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
* *
13189730 TCCGAGCGCGTTGAGTTGAGTCCGAGTT--C-T-GAGATGT-AACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAA-T--G
* * * *
13189774 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
*
13189822 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
13189856 CGGGCGGGTT
Statistics
Matches: 176, Mismatches: 24, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
41 2 0.01
42 7 0.04
43 8 0.05
44 4 0.02
45 1 0.01
46 110 0.62
47 25 0.14
48 3 0.02
49 3 0.02
50 9 0.05
51 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
Found at i:13189811 original size:92 final size:93
Alignment explanation
Indices: 13189587--13189850 Score: 449
Period size: 92 Copynumber: 2.8 Consensus size: 93
13189577 AGGATATTTG
* * *
13189587 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATGTCCGAGCTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
**
13189652 TTGAGTTTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
13189680 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCGCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
13189745 TTGAGTCCGAGTTC-TGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
13189772 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
13189837 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13189851 ACTTACGGGC
Statistics
Matches: 162, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 89 0.55
93 73 0.45
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (93 bp):
GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Done.