Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 165 of 187
Found at i:48628421 original size:17 final size:17
Alignment explanation
Indices: 48628399--48628433 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48628389 ACACCGAATG
48628399 AGAAGACTTGTTTGGAA
1 AGAAGACTTGTTTGGAA
48628416 AGAAGACTTGTTTGGAA
1 AGAAGACTTGTTTGGAA
48628433 A
1 A
48628434 TTCTACACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
AGAAGACTTGTTTGGAA
Found at i:48633814 original size:9 final size:9
Alignment explanation
Indices: 48633800--48633828 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
48633790 CAAAAGGTAA
48633800 GCAATAGTG
1 GCAATAGTG
48633809 GCAATAGTG
1 GCAATAGTG
48633818 GCAATAGTG
1 GCAATAGTG
48633827 GC
1 GC
48633829 GTTTTTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (9 bp):
GCAATAGTG
Found at i:48635821 original size:28 final size:27
Alignment explanation
Indices: 48635778--48635842 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
48635768 AATACGAAAG
*
48635778 AAATGAAATTATATATTAAA-ATAAATTTA
1 AAAT-AAATAATATA-TAAATA-AAATTTA
*
48635807 AAATAAATAATATATAAATGAAAATTTG
1 AAATAAATAATATATAAAT-AAAATTTA
48635835 AAATAAAT
1 AAATAAAT
48635843 TAAAAATACG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 4 0.12
28 23 0.72
29 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (27 bp):
AAATAAATAATATATAAATAAAATTTA
Found at i:48636195 original size:3 final size:3
Alignment explanation
Indices: 48636187--48636246 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
48636177 AACTAATATA
* * * * * *
48636187 AAT AAT AAT ACT AAT AGT TAT AAT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48636235 AAT GAA- AAT AAT
1 AAT -AAT AAT AAT
48636247 TGAGTAATTA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48636224 original size:15 final size:15
Alignment explanation
Indices: 48636187--48636237 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
48636177 AACTAATATA
48636187 AATAATAAT-ACTAAT
1 AATAATAATAAC-AAT
* * *
48636202 AGTTATAATAACATT
1 AATAATAATAACAAT
48636217 AATAATAATAACAAT
1 AATAATAATAACAAT
48636232 AATAAT
1 AATAAT
48636238 GAAAATAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 27 0.93
16 2 0.07
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:48640100 original size:27 final size:25
Alignment explanation
Indices: 48640070--48640129 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
48640060 TTTAAAATAC
* * *
48640070 TTTTAAAATATTTTTTTTATTTTTTTA
1 TTTTAAAATA-ATTTTTTA-ATGTTTA
48640097 TTTTAAAATAATTTTTTAATGTTTA
1 TTTTAAAATAATTTTTTAATGTTTA
48640122 TTTTAAAA
1 TTTTAAAA
48640130 ATGGGCCGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 13 0.43
26 7 0.23
27 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTAAAATAATTTTTTAATGTTTA
Found at i:48640126 original size:38 final size:38
Alignment explanation
Indices: 48640041--48640126 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
48640031 CGGTATATTT
*
48640041 TTTATTTTTATTTTTTAATTTTAAAATACTTTTAAAATA
1 TTTA-TTTTATTTTTTAATTTTAAAATAATTTTAAAATA
* * ** *
48640080 TTTTTTTTATTTTTTTATTTTAAAATAATTTTTTAATG
1 TTTATTTTATTTTTTAATTTTAAAATAATTTTAAAATA
48640118 TTTATTTTA
1 TTTATTTTA
48640127 AAAATGGGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 37 0.93
39 3 0.08
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (38 bp):
TTTATTTTATTTTTTAATTTTAAAATAATTTTAAAATA
Found at i:48642661 original size:21 final size:21
Alignment explanation
Indices: 48642632--48642681 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
48642622 CTACAACTTA
* *
48642632 AAGCGGAGGCAACGACGAGGG
1 AAGCAGAGGCAACAACGAGGG
*
48642653 AAGCAGAGGCAGCAACGAGGG
1 AAGCAGAGGCAACAACGAGGG
48642674 AAGCAGAG
1 AAGCAGAG
48642682 CAAAGCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.44, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCAACAACGAGGG
Found at i:48646026 original size:33 final size:33
Alignment explanation
Indices: 48645989--48646056 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
48645979 TTCTTTTTCT
48645989 TTTCTG-CTGATTTGCTCCCTCTGTTTCTCACAG
1 TTTCTGAC-GATTTGCTCCCTCTGTTTCTCACAG
*
48646022 TTTCTGACGATTTGCTCCCTCTGTTTCTCATAG
1 TTTCTGACGATTTGCTCCCTCTGTTTCTCACAG
48646055 TT
1 TT
48646057 CTCCACACGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.10, C:0.28, G:0.15, T:0.47
Consensus pattern (33 bp):
TTTCTGACGATTTGCTCCCTCTGTTTCTCACAG
Found at i:48648915 original size:91 final size:91
Alignment explanation
Indices: 48648606--48648901 Score: 517
Period size: 91 Copynumber: 3.3 Consensus size: 91
48648596 TTGATTTTAG
* *
48648606 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
*
48648671 ATTTAATATTAATTATTTTAAATTGTA
65 ATTTAATATTAATTATTTTAAATTATA
48648698 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
48648763 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
48648789 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAA-T-TATAT-ATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
48648851 TTTAATAATAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
48648877 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
48648902 GTTATAATTA
Statistics
Matches: 199, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
88 63 0.32
89 5 0.03
90 1 0.01
91 114 0.57
92 16 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:48649041 original size:120 final size:120
Alignment explanation
Indices: 48648917--48649454 Score: 952
Period size: 120 Copynumber: 4.5 Consensus size: 120
48648907 AATTATTTTC
* * *
48648917 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
*
48648981 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* * *
48649037 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAGTAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
48649102 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
48649157 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
48649222 ATAGTATCATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
48649277 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
48649342 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATAATAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
48649397 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
48649455 ATGATTAAAT
Statistics
Matches: 402, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 394 0.98
121 8 0.02
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:48649066 original size:18 final size:17
Alignment explanation
Indices: 48649038--48649072 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48649028 ATTATTAAGA
*
48649038 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48649055 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48649073 TTAGTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48649192 original size:16 final size:16
Alignment explanation
Indices: 48649171--48649217 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
48649161 TTATTAAATT
48649171 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
48649187 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
48649202 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
48649218 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:48649312 original size:16 final size:16
Alignment explanation
Indices: 48649291--48649337 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
48649281 TTATTAAATT
48649291 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
48649307 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
48649322 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
48649338 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:48649432 original size:16 final size:16
Alignment explanation
Indices: 48649388--48649452 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
48649378 AAGAATATTG
*
48649388 AATAATAAGA-ATTTT
1 AATAATAATATATTTT
* *
48649403 ATTAAATTATATATTTT
1 AAT-AATAATATATTTT
*
48649420 AATTATAATATA-TTT
1 AATAATAATATATTTT
48649435 AATAATAAT-TATGTTT
1 AATAATAATATAT-TTT
48649451 AA
1 AA
48649453 ATATGATTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.05
15 13 0.33
16 17 0.44
17 7 0.18
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AATAATAATATATTTT
Found at i:48649437 original size:15 final size:15
Alignment explanation
Indices: 48649402--48649443 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48649392 ATAAGAATTT
*
48649402 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48649416 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48649430 TATTTAATAATAAT
1 TATTTAATTATAAT
48649444 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48649713 original size:16 final size:16
Alignment explanation
Indices: 48649666--48649714 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
48649656 TTGATTTGCT
*
48649666 ATTACGCCTTTATTCT
1 ATTACGCCTTTATTCC
* *
48649682 ATTACACATTTATTCC
1 ATTACGCCTTTATTCC
*
48649698 ATTACGCCTCTATTCC
1 ATTACGCCTTTATTCC
48649714 A
1 A
48649715 ATACAGCGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (16 bp):
ATTACGCCTTTATTCC
Found at i:48653935 original size:20 final size:20
Alignment explanation
Indices: 48653910--48653968 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
48653900 ATTAAATAAT
48653910 ATTTAATATTAAGATAATTA
1 ATTTAATATTAAGATAATTA
48653930 ATTTAATATTAA-ATTAA-TA
1 ATTTAATATTAAGA-TAATTA
** *
48653949 AAATACTATTAAGATAATTA
1 ATTTAATATTAAGATAATTA
48653969 TTAAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (20 bp):
ATTTAATATTAAGATAATTA
Found at i:48663630 original size:18 final size:17
Alignment explanation
Indices: 48663598--48663633 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
48663588 TTAATCACTT
48663598 TAATATTAAATTTAATA
1 TAATATTAAATTTAATA
*
48663615 TAATATTTATATTTAATA
1 TAATA-TTAAATTTAATA
48663633 T
1 T
48663634 TAAATCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATTAAATTTAATA
Found at i:48663724 original size:20 final size:18
Alignment explanation
Indices: 48663674--48663770 Score: 66
Period size: 17 Copynumber: 5.7 Consensus size: 18
48663664 CAACAAGATA
48663674 AATATTAAATTAA-ATTG
1 AATATTAAATTAATATTG
*
48663691 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTG
*
48663711 AATATTAAATTAATA--A
1 AATATTAAATTAATATTG
*
48663727 AATATT--ATTAAGATT-
1 AATATTAAATTAATATTG
* *
48663742 AGTATTAAATTAA-ATTT
1 AATATTAAATTAATATTG
48663759 AATATTAAATTA
1 AATATTAAATTA
48663771 TTAAAATAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 6 0.09
15 5 0.08
16 9 0.14
17 27 0.42
18 1 0.02
19 3 0.05
20 14 0.22
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTG
Found at i:48663725 original size:11 final size:11
Alignment explanation
Indices: 48663709--48663784 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
48663699 GATAATCACT
48663709 TTAATATTAAA
1 TTAATATTAAA
48663720 TTAATA--AAA
1 TTAATATTAAA
*
48663729 -TATTATTAAGA
1 TTAATATTAA-A
*
48663740 TTAGTATTAAA
1 TTAATATTAAA
48663751 TTAA-ATTTAATA
1 TTAATA-TTAA-A
48663763 TTAAATTATTAAA
1 TT-AA-TATTAAA
*
48663776 ATAATATTA
1 TTAATATTA
48663785 TTTTTGAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.38
12 13 0.25
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:48667321 original size:6 final size:6
Alignment explanation
Indices: 48667310--48667361 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
48667300 AATGATTGCA
*
48667310 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAG
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
48667358 AAAA
1 AAAA
48667362 CACACATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:48671880 original size:9 final size:9
Alignment explanation
Indices: 48671866--48671890 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48671856 AATAGTACAT
48671866 TAAACAAAA
1 TAAACAAAA
48671875 TAAACAAAA
1 TAAACAAAA
48671884 TAAACAA
1 TAAACAA
48671891 TTGTTAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAACAAAA
Found at i:48676949 original size:17 final size:17
Alignment explanation
Indices: 48676927--48676978 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
48676917 ATAGAAACAT
* *
48676927 AATCTTCAAGGATATGC
1 AATCTTAAAAGATATGC
*
48676944 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
48676963 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
48676979 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:48676997 original size:22 final size:22
Alignment explanation
Indices: 48676937--48676980 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
48676927 AATCTTCAAG
48676937 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAAAAGATAT
48676956 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTTAAAAGATAT
48676978 GAT
1 GAT
48676981 TTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.59
22 9 0.41
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTAAAAGATAT
Found at i:48688630 original size:11 final size:10
Alignment explanation
Indices: 48688578--48688633 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 10
48688568 AAATTTTAAA
48688578 TTTTA-AATT
1 TTTTATAATT
*
48688587 TGTTATAATT
1 TTTTATAATT
48688597 TTTTATGAAGTT
1 TTTTAT-AA-TT
48688609 TGTTTATAATT
1 T-TTTATAATT
48688620 TTTTAATAATT
1 TTTT-ATAATT
48688631 TTT
1 TTT
48688634 AAAATTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 4 0.10
10 12 0.30
11 14 0.35
12 5 0.12
13 5 0.12
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:48689185 original size:20 final size:20
Alignment explanation
Indices: 48689156--48689195 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48689146 AAATTTTTTT
48689156 ATCTTGTC-AAATCTTTGATA
1 ATCTTGTCAAAATC-TTGATA
*
48689176 ATCTTTTCAAAATCTTGATA
1 ATCTTGTCAAAATCTTGATA
48689196 CTAACCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (20 bp):
ATCTTGTCAAAATCTTGATA
Found at i:48689283 original size:20 final size:20
Alignment explanation
Indices: 48689258--48689299 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
48689248 TCAGATCAAA
48689258 ATAGAGTGTGAGGAACATCG
1 ATAGAGTGTGAGGAACATCG
48689278 ATAGAGTGTGAGGAACATCG
1 ATAGAGTGTGAGGAACATCG
48689298 AT
1 AT
48689300 CAGACCCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (20 bp):
ATAGAGTGTGAGGAACATCG
Found at i:48691861 original size:28 final size:28
Alignment explanation
Indices: 48691807--48691898 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 28
48691797 CCTATACAGT
*
48691807 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAATGTGGGCCTTAGCCCAA
* * *
48691834 AACGGTAGCAATGTGGGCCTTAGTCCAA
1 AACAGTAACAATGTGGGCCTTAGCCCAA
* * *
48691862 TACAGTAATAATATGGGCCTTAGCCCAA
1 AACAGTAACAATGTGGGCCTTAGCCCAA
* *
48691890 TACAATAAC
1 AACAGTAAC
48691899 CAGTACAGTG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 5 0.10
28 47 0.90
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (28 bp):
AACAGTAACAATGTGGGCCTTAGCCCAA
Found at i:48692233 original size:27 final size:26
Alignment explanation
Indices: 48692203--48692280 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
48692193 ATCATAAGGC
*
48692203 TATAACGGTAATTTTATCTCCTA-GGGG
1 TATAACAGTAATTTTA-C-CCTATGGGG
*
48692230 TATAACAGTCATTTTACCCTATGGGG
1 TATAACAGTAATTTTACCCTATGGGG
** *
48692256 TATTTCAGTCATTTTACCCT-TGGGG
1 TATAACAGTAATTTTACCCTATGGGG
48692281 GTATTTCGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.20
26 23 0.50
27 14 0.30
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (26 bp):
TATAACAGTAATTTTACCCTATGGGG
Found at i:48692264 original size:26 final size:26
Alignment explanation
Indices: 48692213--48692287 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 26
48692203 TATAACGGTA
**
48692213 ATTTTATCTCCTA-GGGGTATAACAGTC
1 ATTTTA-C-CCTATGGGGTATTTCAGTC
48692240 ATTTTACCCTATGGGGTATTTCAGTC
1 ATTTTACCCTATGGGGTATTTCAGTC
48692266 ATTTTACCCT-TGGGGGTATTTC
1 ATTTTACCCTAT-GGGGTATTTC
48692288 GGCCATTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 5 0.11
26 33 0.75
27 6 0.14
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTATTTCAGTC
Found at i:48693009 original size:12 final size:13
Alignment explanation
Indices: 48692985--48693014 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
48692975 GAATGAAGAG
48692985 GAGAAGAAGAGAA
1 GAGAAGAAGAGAA
48692998 GAGAAG-AGAGAA
1 GAGAAGAAGAGAA
48693010 GAGAA
1 GAGAA
48693015 AAGTGAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (13 bp):
GAGAAGAAGAGAA
Found at i:48702396 original size:66 final size:62
Alignment explanation
Indices: 48702321--48702445 Score: 187
Period size: 66 Copynumber: 2.0 Consensus size: 62
48702311 TTTATATATA
* *
48702321 GTATATATATTGATGGGTTTTGGTGTCATATATATAATATACATATGCATGGTTCTATTGTATGC
1 GTATATATATTAATGGATTTTGGTGT--TATATATAATAT--ATATGCATGGTTCTATTGTATGC
48702386 G
62 G
*
48702387 GTATATATATTAATGGATTTTGGTGTTATATATAATATATATGCATGGTTCTGTTGTAT
1 GTATATATATTAATGGATTTTGGTGTTATATATAATATATATGCATGGTTCTATTGTAT
48702446 ACAATATATA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
62 20 0.36
64 12 0.21
66 24 0.43
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (62 bp):
GTATATATATTAATGGATTTTGGTGTTATATATAATATATATGCATGGTTCTATTGTATGCG
Found at i:48702454 original size:62 final size:64
Alignment explanation
Indices: 48702322--48702456 Score: 184
Period size: 62 Copynumber: 2.1 Consensus size: 64
48702312 TTATATATAG
* * * *
48702322 TATATATATTGATGGGTTTTGGTGTCATATATATAATATACATATGCATGGTTCTATTGTATGCG
1 TATATATATTAATGGATTTTGGTGT-ATATATATAATATA-ATATGCATGGTTCTATTGTATACA
*
48702387 G
64 A
*
48702388 TATATATATTAATGGATTTTGGTGT-TATATATAATAT-ATATGCATGGTTCTGTTGTATACAA
1 TATATATATTAATGGATTTTGGTGTATATATATAATATAATATGCATGGTTCTATTGTATACAA
48702450 TATATAT
1 TATATAT
48702457 TAGTGGATGT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
62 28 0.44
64 12 0.19
66 23 0.37
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (64 bp):
TATATATATTAATGGATTTTGGTGTATATATATAATATAATATGCATGGTTCTATTGTATACAA
Found at i:48702543 original size:26 final size:27
Alignment explanation
Indices: 48702505--48702563 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
48702495 GGGTATTAAT
* * *
48702505 ATATTTGCGTGGGTCTTACTATGT-AC
1 ATATATGCATGGGTCTTACTATATAAC
*
48702531 ATATATGCATGGGTCTTATTATATAAC
1 ATATATGCATGGGTCTTACTATATAAC
48702558 ATATAT
1 ATATAT
48702564 AATTACGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (27 bp):
ATATATGCATGGGTCTTACTATATAAC
Found at i:48705947 original size:16 final size:16
Alignment explanation
Indices: 48705912--48705949 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
48705902 AGGTTTAAGA
48705912 AATAAAACAATTATGT
1 AATAAAACAATTATGT
48705928 -ATAAAA-AATTATGT
1 AATAAAACAATTATGT
48705942 GAATAAAA
1 -AATAAAA
48705950 GGATAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 6 0.30
16 6 0.30
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (16 bp):
AATAAAACAATTATGT
Found at i:48706067 original size:20 final size:19
Alignment explanation
Indices: 48706023--48706072 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
48706013 ATATGTATTT
* *
48706023 TTAAATAATATTGATACAT
1 TTAAAAAATATTGATACAA
*
48706042 TTAAAACATATTGATAACAA
1 TTAAAAAATATTGAT-ACAA
48706062 TTAAAAAATAT
1 TTAAAAAATAT
48706073 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAAAATATTGATACAA
Found at i:48707895 original size:44 final size:44
Alignment explanation
Indices: 48707813--48708327 Score: 258
Period size: 44 Copynumber: 11.0 Consensus size: 44
48707803 ATTTTAGTCC
* * * * *
48707813 GCTCCACTATAATCTCAGGGAGATAGGCTTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
* *
48707857 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATC---T
* * * * *
48707904 GCGATCTACTCTACTGTAA-CTTTAGAGAGATAAGATCCTT-TA-TTTTAATCC
1 --G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTCTAGCTTCAATCT
* * *
48707955 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
* *
48707999 GCTCCACTGTAATCTCAGTGAGATAAGATTTCT-GCCTTCAATTTGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAG-CTTCAA--T-CT
* * *
48708046 GCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTT-TA-TTTTAATCT
1 --G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTCTAGCTTCAATCT
* * * *
48708097 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
** *
48708141 GCTCCGTTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATC---T
* * * * *
48708188 GCGATCTACTCTACTGT-AGCTTCAGAGAGATAAGATCCTT-TA-TTTTAATCC
1 --G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTCTAGCTTCAATCT
* * *
48708239 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
* **
48708283 GTTCCGTTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
48708327 G
1 G
48708328 ATGCGATCTC
Statistics
Matches: 354, Mismatches: 67, Indels: 100
0.68 0.13 0.19
Matches are distributed among these distances:
42 3 0.01
43 7 0.02
44 218 0.62
45 7 0.02
46 4 0.01
47 9 0.03
49 6 0.02
51 7 0.02
52 4 0.01
53 7 0.02
54 73 0.21
55 3 0.01
56 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
Found at i:48708009 original size:142 final size:142
Alignment explanation
Indices: 48707749--48708394 Score: 1094
Period size: 142 Copynumber: 4.5 Consensus size: 142
48707739 TGCTGTTGTA
* * * ** * *
48707749 GCTTCATTCTGATGTGAGCTACTCCGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAGTCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
*
48707814 CTCCACTATAATCTCAGGGAGATAGGCTTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
66 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
48707879 ATAAGATTTCTG
131 ATAAGATTTCTG
*
48707891 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
* * *
48707956 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGTGAG
66 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
48708021 ATAAGATTTCTG
131 ATAAGATTTCTG
* * *
48708033 CCTTCAATTTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
*
48708098 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCGTTGTAATCTCAGGGAG
66 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
48708163 ATAAGATTTCTG
131 ATAAGATTTCTG
*
48708175 GCTTCAATCTGATGCGATCTACTCTACTGTAGCTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
* * *
48708240 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGTTCCGTTGTAATCTCAGGGAG
66 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
*
48708305 ATAAGATTTCTA
131 ATAAGATTTCTG
*
48708317 GCTTCAATCTGATGCGATCTCCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
48708382 CTCCACTATAATC
66 CTCCACTATAATC
48708395 GATGGAGGCA
Statistics
Matches: 474, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 474 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (142 bp):
GCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATTTCTG
Found at i:48717332 original size:21 final size:21
Alignment explanation
Indices: 48717306--48717356 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
48717296 ATACGTACTC
48717306 CAATTCTTCTATCCTCTTTTT
1 CAATTCTTCTATCCTCTTTTT
48717327 CAATTCTTCTATCCTCTTTTT
1 CAATTCTTCTATCCTCTTTTT
48717348 CAATTCTTC
1 CAATTCTTC
48717357 AATCTTGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (21 bp):
CAATTCTTCTATCCTCTTTTT
Found at i:48720712 original size:16 final size:16
Alignment explanation
Indices: 48720677--48720714 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
48720667 AGGTTTAAGA
48720677 AATAAAACAATTATGT
1 AATAAAACAATTATGT
48720693 -ATAAAA-AATTATGT
1 AATAAAACAATTATGT
48720707 GAATAAAA
1 -AATAAAA
48720715 GGTTAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.40
15 6 0.30
16 6 0.30
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (16 bp):
AATAAAACAATTATGT
Found at i:48720811 original size:19 final size:19
Alignment explanation
Indices: 48720787--48720836 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
48720777 TATATGTATT
48720787 TTTAAATAATATTGAT-ACA
1 TTTAAA-AATATTGATAACA
48720806 TTTAAAACATATTGATAACA
1 TTTAAAA-ATATTGATAACA
*
48720826 ATTAAAAATAT
1 TTTAAAAATAT
48720837 ATTATTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 18 0.64
20 9 0.32
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTAAAAATATTGATAACA
Found at i:48720838 original size:21 final size:19
Alignment explanation
Indices: 48720790--48720839 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
48720780 ATGTATTTTT
*
48720790 AAATAATATTGATACATTTA
1 AAAT-ATATTGATACATTAA
*
48720810 AAACATATTGATAACAATTAA
1 AAATATATTGAT-AC-ATTAA
48720831 AAATATATT
1 AAATATATT
48720840 ATTATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.32
20 5 0.20
21 12 0.48
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATATATTGATACATTAA
Found at i:48730126 original size:26 final size:26
Alignment explanation
Indices: 48730074--48730127 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
48730064 GAAAGACAAG
*
48730074 ACGTGCTATCGCAGCAGACTAGGTAA
1 ACGTGCTATCGCAGCAGACTACGTAA
* *
48730100 ACGTGCTATCGCAGTAGACTACTTAA
1 ACGTGCTATCGCAGCAGACTACGTAA
48730126 AC
1 AC
48730128 ACTAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
ACGTGCTATCGCAGCAGACTACGTAA
Found at i:48731307 original size:30 final size:27
Alignment explanation
Indices: 48731263--48731320 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 27
48731253 GTTTTAAATG
48731263 TTTTTAATACATTTTTTAGAGTTTTATTA
1 TTTTTAATACATTTTTTAGA-TTTT-TTA
*
48731292 TTTTTAAATATATTTTTTAGATTTTTTA
1 TTTTT-AATACATTTTTTAGATTTTTTA
48731320 T
1 T
48731321 AATTTTCACG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 9 0.33
30 14 0.52
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTTTAATACATTTTTTAGATTTTTTA
Found at i:48737522 original size:19 final size:19
Alignment explanation
Indices: 48737467--48737525 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
48737457 AGTATTACTC
*
48737467 AATTAAAATAGAGTTATTA
1 AATTGAAATAGAGTTATTA
*
48737486 AA-TGAGAATAG-TTTATTA
1 AATTGA-AATAGAGTTATTA
48737504 AATTGAAATAGAGTTATTA
1 AATTGAAATAGAGTTATTA
48737523 AAT
1 AAT
48737526 AAAAAATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
AATTGAAATAGAGTTATTA
Found at i:48737795 original size:37 final size:37
Alignment explanation
Indices: 48737748--48737818 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
48737738 AGTATTACTT
*
48737748 AATATTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
48737785 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
48737819 AAAAAAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:48737823 original size:19 final size:19
Alignment explanation
Indices: 48737754--48737822 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
48737744 ACTTAATATT
48737754 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
48737773 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
48737791 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
48737810 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
48737823 AAAAGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:48737946 original size:27 final size:27
Alignment explanation
Indices: 48737897--48737974 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
48737887 CTTTTTTTTC
*
48737897 CTTTGGCACCA-TGGTGCCGCCAATGA
1 CTTTGGCACCATTGGTGCCACCAATGA
*
48737923 CTTTGGCACCATTGGTGCCACCAATTTA
1 CTTTGGCACCATTGGTGCCACCAA-TGA
*
48737951 -TTTGGCACCTTTGGTGCCACCAAT
1 CTTTGGCACCATTGGTGCCACCAAT
48737975 TTAATTGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 12 0.26
27 33 0.70
28 2 0.04
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.29
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATGA
Found at i:48737975 original size:27 final size:26
Alignment explanation
Indices: 48737898--48737983 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
48737888 TTTTTTTTCC
* * *
48737898 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCTTGGTGCCACCAATTTA
48737923 CTTTGGCACCATTGGTGCCACCAATTTA
1 -TTTGGCACC-TTGGTGCCACCAATTTA
48737951 TTTGGCACCTTTGGTGCCACCAATTTA
1 TTTGGCACC-TTGGTGCCACCAATTTA
*
48737978 ATTGGC
1 TTTGGC
48737984 CTGATCAGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.17
27 42 0.79
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (26 bp):
TTTGGCACCTTGGTGCCACCAATTTA
Found at i:48738074 original size:24 final size:23
Alignment explanation
Indices: 48738023--48738067 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
48738013 TGTTTTTTTA
48738023 ATATATTTTGGTAAATAAAAAAT
1 ATATATTTTGGTAAATAAAAAAT
48738046 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
48738068 AGTTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (23 bp):
ATATATTTTGGTAAATAAAAAAT
Found at i:48738922 original size:12 final size:12
Alignment explanation
Indices: 48738905--48738933 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
48738895 GCAATGAGTG
48738905 GCATCTAGCAAT
1 GCATCTAGCAAT
48738917 GCATCTAGCAAT
1 GCATCTAGCAAT
48738929 GCATC
1 GCATC
48738934 ATTGCCACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (12 bp):
GCATCTAGCAAT
Found at i:48743465 original size:44 final size:45
Alignment explanation
Indices: 48743411--48743500 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 45
48743401 AATAATAACA
*
48743411 GATACACGGTGGAATCAGCACATAGCAACCACC-TTATAATCAAT
1 GATACACGGTGGAATCAACACATAGCAACCACCTTTATAATCAAT
* *
48743455 GATACTCGGTGGAATCAACACATAGCAACCACCTTTATAGTCAAT
1 GATACACGGTGGAATCAACACATAGCAACCACCTTTATAATCAAT
48743500 G
1 G
48743501 GTACCCGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (45 bp):
GATACACGGTGGAATCAACACATAGCAACCACCTTTATAATCAAT
Found at i:48743580 original size:51 final size:50
Alignment explanation
Indices: 48743511--48743699 Score: 175
Period size: 51 Copynumber: 3.7 Consensus size: 50
48743501 GTACCCGATT
* **
48743511 CACAAAGTAGCCTACACATAGTACTACACATGTGA-CCATTTCCATCCAATA
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCCA--TCCATCCGGTA
* * * ** * *
48743562 CACATAGTAGCTTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTA
1 CACATAGTAGCCTACACATAGTACTACACATGTGA-CCCATCCATCCGGTA
* * * *
48743613 CGCATAGTAGCCTACACACAGTACTACACATGCGACCCAT-CATTCTGGTA
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCCATCCA-TCCGGTA
* * *
48743663 CACGTAGTAGCCTGCACATAGTACCACACATGTGACC
1 CACATAGTAGCCTACACATAGTACTACACATGTGACC
48743700 ATCACTTTCA
Statistics
Matches: 108, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 1 0.01
50 39 0.36
51 67 0.62
53 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (50 bp):
CACATAGTAGCCTACACATAGTACTACACATGTGACCCATCCATCCGGTA
Found at i:48751815 original size:16 final size:15
Alignment explanation
Indices: 48751762--48751835 Score: 69
Period size: 16 Copynumber: 4.7 Consensus size: 15
48751752 CTTAATCACT
*
48751762 TTAATATTAATTTAA
1 TTAATATTAATTAAA
*
48751777 TCTAATATTTATTAAGA
1 T-TAATATTAATTAA-A
*
48751794 TAAATATTAGATTAAA
1 TTAATATTA-ATTAAA
*
48751810 TTAATATTAAATTATA
1 TTAATATT-AATTAAA
48751826 TTAA-ATTAAT
1 TTAATATTAAT
48751836 AGAATATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
14 3 0.06
15 4 0.08
16 34 0.69
17 8 0.16
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAATATTAATTAAA
Found at i:48751818 original size:11 final size:11
Alignment explanation
Indices: 48751804--48751836 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
48751794 TAAATATTAG
48751804 ATTAAATTAAT
1 ATTAAATTAAT
48751815 ATTAAATT-AT
1 ATTAAATTAAT
48751825 ATTAAATTAAT
1 ATTAAATTAAT
48751836 A
1 A
48751837 GAATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAAATTAAT
Found at i:48751826 original size:10 final size:10
Alignment explanation
Indices: 48751799--48751833 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
48751789 TAAGATAAAT
*
48751799 ATTAGATTAA
1 ATTATATTAA
48751809 ATTAATATTAA
1 ATT-ATATTAA
48751820 ATTATATTAA
1 ATTATATTAA
48751830 ATTA
1 ATTA
48751834 ATAGAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (10 bp):
ATTATATTAA
Found at i:48752376 original size:24 final size:24
Alignment explanation
Indices: 48752316--48752373 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
48752306 TTAATTTCCA
48752316 AAAATATAATATTAATTTTAATTAAT
1 AAAAT-TAAT-TTAATTTTAATTAAT
* * *
48752342 TAGATTAATTTAATTTTACTTAAT
1 AAAATTAATTTAATTTTAATTAAT
48752366 CAAAATTA
1 -AAAATTA
48752374 TTTTTTTCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 14 0.54
25 9 0.35
26 3 0.12
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAATTAATTTAATTTTAATTAAT
Found at i:48753190 original size:11 final size:12
Alignment explanation
Indices: 48753160--48753192 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
48753150 GTCACAAGTG
48753160 AATTAATTCACA
1 AATTAATTCACA
*
48753172 AATGAATTCA-A
1 AATTAATTCACA
48753183 AATTAATTCA
1 AATTAATTCA
48753193 TCTTGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:48753975 original size:18 final size:17
Alignment explanation
Indices: 48753945--48753987 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
48753935 ATCTCGTTCG
*
48753945 TATTTTTA-AAAAACCTT
1 TATTTTTAGAAAAACC-A
*
48753962 TATTTTTAGTAAAACCA
1 TATTTTTAGAAAAACCA
48753979 TATTTTTAG
1 TATTTTTAG
48753988 CCAATCATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (17 bp):
TATTTTTAGAAAAACCA
Found at i:48758202 original size:42 final size:42
Alignment explanation
Indices: 48758101--48758239 Score: 156
Period size: 42 Copynumber: 3.2 Consensus size: 42
48758091 ATGTGATTTT
* *
48758101 GTGTAAGACCAC-GTCTGGGACGTTAGCATCG-ATTTGAGATTTAC
1 GTGTAAGACC-CTGTCTGGGACATTGGCATCGTATTT--GA-TTAC
* *
48758145 GTGTAAGACCGTGTCTGGGACATTGGCATCGTATATGATTAC
1 GTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTAC
* *
48758187 GTGTAAGACCCTGTCTGGGACAGTGGCATTGTTATTTGATTAC
1 GTGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGATTAC
*
48758230 ATGTAAGACC
1 GTGTAAGACC
48758240 ACGTATGGGA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 32 0.39
43 21 0.25
44 27 0.33
45 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTAC
Found at i:48758257 original size:43 final size:44
Alignment explanation
Indices: 48758141--48758261 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 44
48758131 GATTTGAGAT
* * * *
48758141 TTACGTGTAAGACCGTGTCTGGGACA-TTGGCATCG-TATATGA
1 TTACATGTAAGACCCTGTATGGGACAGTTGGCATTGTTATATGA
* * *
48758183 TTACGTGTAAGACCCTGTCTGGGACAG-TGGCATTGTTATTTGA
1 TTACATGTAAGACCCTGTATGGGACAGTTGGCATTGTTATATGA
*
48758226 TTACATGTAAGACCAC-GTATGGGA-TGTTGGCATTGT
1 TTACATGTAAGACC-CTGTATGGGACAGTTGGCATTGT
48758262 ACGAGCTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 33 0.48
43 35 0.51
44 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (44 bp):
TTACATGTAAGACCCTGTATGGGACAGTTGGCATTGTTATATGA
Found at i:48768167 original size:4 final size:4
Alignment explanation
Indices: 48768158--48768191 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
48768148 TGTTATTAGG
*
48768158 GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
48768192 GTTATATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:48778917 original size:19 final size:21
Alignment explanation
Indices: 48778895--48778947 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
48778885 CCTCAACTTT
48778895 AATAGTATA-ATTCAA-GAA-A
1 AATA-TATACATTCAATGAATA
48778914 AATATTATATCATTCAATGAATA
1 AATA-TATA-CATTCAATGAATA
48778937 AATATATACAT
1 AATATATACAT
48778948 AAGTAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 8 0.28
21 9 0.31
22 7 0.24
23 5 0.17
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.34
Consensus pattern (21 bp):
AATATATACATTCAATGAATA
Found at i:48785317 original size:73 final size:73
Alignment explanation
Indices: 48785225--48785397 Score: 276
Period size: 73 Copynumber: 2.4 Consensus size: 73
48785215 AAAATAAGCA
* * *
48785225 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTT-TCGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACACCGTTTTGT-AAGCT
48785289 TTCGGGGAT
65 TTCGGGGAT
* *
48785298 TTAGCGGCGTTTCTGAGAAAGCGCTGCAAAAAAACATAAGCCCAACGACACCGTTTTGTAAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACACCGTTTTGTAAGCTT
48785363 TCGGGGAT
66 TCGGGGAT
*
48785371 TTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
48785398 TAACGCTCAG
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 90 0.99
74 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (73 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACACCGTTTTGTAAGCTT
TCGGGGAT
Found at i:48785445 original size:114 final size:114
Alignment explanation
Indices: 48785297--48785739 Score: 685
Period size: 114 Copynumber: 3.9 Consensus size: 114
48785287 CTTTCGGGGA
* *
48785297 TTTAGCGGCGTTTCTGAGAAAGCGCTGCAAAAAAACATAAGCCCAACGACACCGTTTTGTAAGCT
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACACCGTTTTGTGAGCT
*
48785362 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
48785411 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACATAAGCCCAACGACGA-CGTTTTGTGAGC
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGAC-ACCGTTTTGTGAGC
48785475 TTTCGAGGG-TTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTTCG-GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
48785525 CTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACACCGTTTTGTGAGCT
*
48785590 TTCGGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
48785639 TTTAGCGACGGTTTCTCA-AAAACGCCGCAAGAAAACCTAAGCCCAACGACACCGTTTTGTGAGC
1 TTTAGCGGC-GTTTCTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACACCGTTTTGTGAGC
* *
48785703 TTTTGGGGATTTAGCGGCGTTTTTAAGAAAACGCCGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
48785740 AAAAAATTCT
Statistics
Matches: 305, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
113 3 0.01
114 292 0.96
115 10 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (114 bp):
TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACACCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:48785758 original size:73 final size:73
Alignment explanation
Indices: 48785657--48785793 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 73
48785647 CGGTTTCTCA
* *
48785657 AAAACGCCGCAAGAAAACCTAAGCCCAACGACACCGTTTTGTGAGCTTTTGGGGATTTAGCGGCG
1 AAAACGCCGCAAGAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
48785722 TTTTTAAG
66 TTTTTAAG
* *
48785730 AAAACGCCGCAA-AAAATTCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
1 AAAACGCCGCAAGAAAA-CCTAAGCCCAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
48785794 AAAAAATGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 4 0.07
73 55 0.93
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (73 bp):
AAAACGCCGCAAGAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
TTTTTAAG
Found at i:48786504 original size:261 final size:261
Alignment explanation
Indices: 48785988--48786697 Score: 1183
Period size: 261 Copynumber: 2.7 Consensus size: 261
48785978 ATTATTTAAA
*
48785988 ATAATTGTAAAAGAGATAA-AATAAATTTGTTTAGGGTTTTTG-GTTTAGGGTATATGATTTATT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGG-TTTTGAGTTTAGGGTATATGATTAATT
* * *
48786051 TAAGATTTAAGACCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAAGTAAGGGTTTAGGGATTA
65 TAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGG-AGTATGGATTTAGGGATTA
* * * * *
48786116 TGGATTAGGGGTTGGGATTTAAGGTTTAAGGGTTAAAGGA-TTAGGGGTTTAGGGGTTAGATGTG
129 TGAATT----G--GGGA-TTATGGTTTAAGGGTT-GA-GATTTA-AGGTTTAGGGGTTAGACGTG
48786180 CTAGGGATTCAGGGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTTTATTTTA
184 CTAGGGATTCAGGGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTTTATTTTA
48786245 AATATGTTCTTAG
249 AATATGTTCTTAG
48786258 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTGAGTTTAGGGTATATGATTAATTT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTGAGTTTAGGGTATATGATTAATTT
*
48786323 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAAGGAGTATGGATTTAGGGATTATG
66 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATG
48786388 AATTGGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGACGTGCTAGGGATTCAG
131 AATTGGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGACGTGCTAGGGATTCAG
48786453 GGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTTTATTTTAAATATGTTCTTA
196 GGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTTTATTTTAAATATGTTCTTA
48786518 G
261 G
* *
48786519 ATAATTATAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTGAGTTTAGGGTATATGATTAATTT
48786584 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATG
66 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATG
48786649 AATTGGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGA
131 AATTGGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGA
48786698 TGTTAGGGGT
Statistics
Matches: 424, Mismatches: 13, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
261 274 0.65
262 4 0.01
263 15 0.04
264 4 0.01
266 1 0.00
270 46 0.11
271 80 0.19
ACGTcount: A:0.29, C:0.03, G:0.28, T:0.41
Consensus pattern (261 bp):
ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTGAGTTTAGGGTATATGATTAATTT
AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATG
AATTGGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGACGTGCTAGGGATTCAG
GGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTTTATTTTAAATATGTTCTTA
G
Found at i:48786686 original size:21 final size:21
Alignment explanation
Indices: 48786662--48786731 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
48786652 TGGGGATTAT
48786662 GGTTTAAGGGTTGAGATTTAA
1 GGTTTAAGGGTTGAGATTTAA
* *
48786683 GGTTTAGGGGTT-AGATGTTAG
1 GGTTTAAGGGTTGAGAT-TTAA
* * *
48786704 GGGTTAAGAGTTAGGGATTTAA
1 GGTTTAAGGGTT-GAGATTTAA
48786726 GGTTTA
1 GGTTTA
48786732 GAGATTCAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 4 0.11
21 23 0.61
22 8 0.21
23 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
GGTTTAAGGGTTGAGATTTAA
Found at i:48786703 original size:14 final size:14
Alignment explanation
Indices: 48786686--48786719 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
48786676 GATTTAAGGT
48786686 TTAGGGGTT-AGATG
1 TTAGGGGTTAAGA-G
48786700 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
48786714 TTAGGG
1 TTAGGG
48786720 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:48787326 original size:16 final size:15
Alignment explanation
Indices: 48787295--48787324 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48787285 TTTTTTCTAT
48787295 TTTATAAAAAATAAA
1 TTTATAAAAAATAAA
48787310 TTTATAAAAAATAAA
1 TTTATAAAAAATAAA
48787325 ATAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTTATAAAAAATAAA
Found at i:48787538 original size:109 final size:108
Alignment explanation
Indices: 48787425--48787732 Score: 336
Period size: 105 Copynumber: 2.9 Consensus size: 108
48787415 TAAGCAATAT
*
48787425 AAAAACGCCGCAAAAAATAAATCAATATATATATAAAAAATAAAATAAAAAATTTTTAGCAGAGC
1 AAAAACGCCGCAAAAAATAAATC-A-ATATATATAAAAAATAAAATAAAAAATTTTTAGCATAGC
48787490 AAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCG-TTTTATA
64 AAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTATA
* ** *
48787534 AAAAACGCCGCAAAAAATAAATCAAT-T-TATAAAAAACAAAATAAAAAA-AATTATGAATAGCA
1 AAAAACGCCGCAAAAAATAAATCAATATATATAAAAAATAAAATAAAAAATTTTTA-GCATAGCA
* * * * * * *
48787596 AAATGGCGCCATTTTGTTAAAAATGAATTTTTTTTGCAGCGTTTTTATG
65 AAACGGCGTCATTTTGTTCAAAATGAA-----ATAGCGGCGTTTTTATA
*
48787645 ACAAACGCCGCAAAAAAT-AATC---ATATATAAAAAAT-AAATAAAAAATTTTTAGCATAGC-A
1 AAAAACGCCGCAAAAAATAAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGCATAGCAA
48787704 AAC-GCGTCA-TTTGTTC-AAATGAAATAGCG
66 AACGGCGTCATTTTGTTCAAAATGAAATAGCG
48787733 NNNNNNNNNN
Statistics
Matches: 166, Mismatches: 23, Indels: 30
0.76 0.11 0.14
Matches are distributed among these distances:
99 3 0.02
104 10 0.06
105 56 0.34
106 6 0.04
107 5 0.03
108 18 0.11
109 35 0.21
110 10 0.06
111 23 0.14
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (108 bp):
AAAAACGCCGCAAAAAATAAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGCATAGCAA
AACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTATA
Found at i:48788233 original size:209 final size:210
Alignment explanation
Indices: 48787915--48788310 Score: 627
Period size: 209 Copynumber: 1.9 Consensus size: 210
48787905 GACAAACTCG
* * * ** * *
48787915 GCAAAACATAAATCACTCTATACAAAAAATAAAATATCAAATATTTAGCATAGCAAAACGGCGTC
1 GCAAAAAATAAATCAATCTATACAAAAAACAAAATAAAAAATATTTAGAATAGAAAAACGGCGTC
* * *
48787980 ATGTTGTTCAAAATGATATCGCGGCTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
66 ATGTTGTTAAAAATGAAATAGCGGCTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
48788045 AAACAAAATAAAAAATTTTATGAATAGCAAAACGACGTCATTTTGTTAAAAATGAAATAGCGGCG
131 AAACAAAATAAAAAATTTTATGAATAGCAAAACGACGTCATTTTGTTAAAAATGAAATAGCGGCG
48788110 TTTTATAAAAACGCC
196 TTTTATAAAAACGCC
*
48788125 GCAAAAAATAAATCAAT-T-TATAAAAAACAAAATAAAAAAT-TTTATGAATAGAAAAACGGCGT
1 GCAAAAAATAAATCAATCTATACAAAAAACAAAATAAAAAATATTTA-GAATAGAAAAACGGCGT
*
48788187 CATTTTGTTAAAAATGAAATAGCGGCGTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATA
65 CATGTTGTTAAAAATGAAATAGCGGC-TTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATA
* *
48788252 AAAAACAAAATAAAAAATTTTATGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
129 AAAAACAAAATAAAAAATTTTATGAATAGCAAAACGACGTCATTTTGTTAAAAATGAAA
48788311 AATTTTTTGC
Statistics
Matches: 170, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
207 4 0.02
208 55 0.32
209 96 0.56
210 15 0.09
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (210 bp):
GCAAAAAATAAATCAATCTATACAAAAAACAAAATAAAAAATATTTAGAATAGAAAAACGGCGTC
ATGTTGTTAAAAATGAAATAGCGGCTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAA
AAACAAAATAAAAAATTTTATGAATAGCAAAACGACGTCATTTTGTTAAAAATGAAATAGCGGCG
TTTTATAAAAACGCC
Found at i:48788245 original size:105 final size:105
Alignment explanation
Indices: 48787915--48788310 Score: 618
Period size: 104 Copynumber: 3.8 Consensus size: 105
48787905 GACAAACTCG
* * * * ** *
48787915 GCAAAACATAAATCACTCTATACAAAAAATAAAATATCAAATATTTA-GCATAGCAAAACGGCGT
1 GCAAAAAATAAATCAAT-T-TATAAAAAACAAAATAAAAAAT-TTTATGAATAGCAAAACGGCGT
* * * *
48787979 CATGTTGTTCAAAATGATATCGCGGC-TTTTTATAAAAACGCC
63 CATTTTGTTAAAAATGAAATAGCGGCGTTTTTATAAAAACGCC
*
48788021 GCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAACGACGTCAT
1 GCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAACGGCGTCAT
48788086 TTTGTTAAAAATGAAATAGCGGCG-TTTTATAAAAACGCC
66 TTTGTTAAAAATGAAATAGCGGCGTTTTTATAAAAACGCC
*
48788125 GCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGAAAAACGGCGTCAT
1 GCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAACGGCGTCAT
48788190 TTTGTTAAAAATGAAATAGCGGCGTTTTTATAAAAACGCC
66 TTTGTTAAAAATGAAATAGCGGCGTTTTTATAAAAACGCC
48788230 GCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAACGGCGTCAT
1 GCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAACGGCGTCAT
*
48788295 TTTGTTCAAAATGAAA
66 TTTGTTAAAAATGAAA
48788311 AATTTTTTGC
Statistics
Matches: 271, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
103 4 0.01
104 157 0.58
105 95 0.35
106 15 0.06
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (105 bp):
GCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTATGAATAGCAAAACGGCGTCAT
TTTGTTAAAAATGAAATAGCGGCGTTTTTATAAAAACGCC
Found at i:48790456 original size:24 final size:23
Alignment explanation
Indices: 48790416--48790460 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
48790406 AAAGAAAAAC
*
48790416 TTTTTTATTTAAAATTTTTTTTA
1 TTTTATATTTAAAATTTTTTTTA
*
48790439 TTTTATATGTTAATATTTTTTT
1 TTTTATAT-TTAAAATTTTTTT
48790461 AGTTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTATATTTAAAATTTTTTTTA
Found at i:48792612 original size:42 final size:43
Alignment explanation
Indices: 48792534--48792665 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
48792524 TGACCTATAG
*
48792534 TTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGGTCT
1 TTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAGGTCATGGTCT
***
48792577 TTAGCGGCGTTTGTAGG-AATGTGCCGCTAAAGGTCATGGTCT
1 TTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAGGTCATGGTCT
*** * *
48792619 TTAGCGGCGCTTT-TCCCACAAACGCCGCTAAAGGTCATGATCT
1 TTAGCGGCG-TTTGTAGGAAAAACGCCGCTAAAGGTCATGGTCT
48792662 TTAG
1 TTAG
48792666 AGGCATTTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
42 32 0.43
43 43 0.57
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAGGTCATGGTCT
Found at i:48794520 original size:35 final size:33
Alignment explanation
Indices: 48794434--48794529 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 33
48794424 TCAACGATAT
* *
48794434 TTGTGCCTAATGCTAGTCGGATAAACCGACAAA
1 TTGTGCCCAACGCTAGTCGGATAAACCGACAAA
* * * *
48794467 TGTATGCCCAGCAG-TAGTCAGATAAACTGACAGAA
1 T-TGTGCCCAAC-GCTAGTCGGATAAACCGACA-AA
48794502 GTTGTGCCCAACGCTAGTCGGATAAACC
1 -TTGTGCCCAACGCTAGTCGGATAAACC
48794530 AACGAAATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
33 1 0.02
34 23 0.48
35 23 0.48
36 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (33 bp):
TTGTGCCCAACGCTAGTCGGATAAACCGACAAA
Found at i:48794559 original size:144 final size:144
Alignment explanation
Indices: 48794301--48794580 Score: 355
Period size: 144 Copynumber: 1.9 Consensus size: 144
48794291 TGCGCCTAGC
* * * * * * *
48794301 GCTAGTCAGATAAATCGACGAATGTGTACCCAATACTAGTTAGATAAACTGGCGGAAGTTGCGCC
1 GCTAGTCAGATAAACCGACAAATGTATACCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCC
* * ** * *
48794366 TAACGTTAGTCGTTTAAACCGAATAAAAAAATAGTGAGCCTAGCCCAAGTTTGATAAATCAACGA
66 CAACGCTAGTCGGATAAACCGAAGAAAAAAATAGTGAGCCTAGCCCAAGTTGGATAAATCAACGA
48794431 TATTTGTGCCTAAT
131 TATTTGTGCCTAAT
* * * * *
48794445 GCTAGTCGGATAAACCGACAAATGTATGCCCAGCAGTAGTCAGATAAACTGACAGAAGTTGTGCC
1 GCTAGTCAGATAAACCGACAAATGTATACCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCC
* * *
48794510 CAACGCTAGTCGGATAAACC-AACGAAATAAATAGTGAGCCTAGCTCAAGTTGGATAAATCAATG
66 CAACGCTAGTCGGATAAACCGAA-GAAAAAAATAGTGAGCCTAGCCCAAGTTGGATAAATCAACG
48794574 ATATTTG
130 ATATTTG
48794581 CAATTATTTA
Statistics
Matches: 114, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
143 2 0.02
144 112 0.98
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (144 bp):
GCTAGTCAGATAAACCGACAAATGTATACCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCC
CAACGCTAGTCGGATAAACCGAAGAAAAAAATAGTGAGCCTAGCCCAAGTTGGATAAATCAACGA
TATTTGTGCCTAAT
Found at i:48801365 original size:13 final size:15
Alignment explanation
Indices: 48801337--48801373 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
48801327 AATAACTAGG
*
48801337 AAAATCAAAATAAAT
1 AAAATAAAAATAAAT
48801352 -AAATAAAAAT-AAT
1 AAAATAAAAATAAAT
48801365 AAAATAAAA
1 AAAATAAAA
48801374 TTTAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAAAT
Found at i:48801385 original size:12 final size:12
Alignment explanation
Indices: 48801364--48801397 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
48801354 ATAAAAATAA
*
48801364 TAAAATAAAATT
1 TAAAAGAAAATT
48801376 TAAAAGAAAATT
1 TAAAAGAAAATT
48801388 TAAAAGAAAA
1 TAAAAGAAAA
48801398 GGGAAGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (12 bp):
TAAAAGAAAATT
Found at i:48808188 original size:49 final size:49
Alignment explanation
Indices: 48808116--48808213 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
48808106 TTCCACCTTT
* *
48808116 TTAGGGTAATATGTATGTAGTTATGGCTATAGATTATGTCTTTAAGTGG
1 TTAGGGTAATATGTATGTAGTTATGGCCATAGATTATGTCTCTAAGTGG
48808165 TTAGGGTAATATGTATGTAGTTATGGCCATAGATTATGTCTCTAAGTGG
1 TTAGGGTAATATGTATGTAGTTATGGCCATAGATTATGTCTCTAAGTGG
48808214 GTAGAAGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.41
Consensus pattern (49 bp):
TTAGGGTAATATGTATGTAGTTATGGCCATAGATTATGTCTCTAAGTGG
Found at i:48813862 original size:2 final size:2
Alignment explanation
Indices: 48813855--48813891 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
48813845 TATAGGCTAG
*
48813855 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48813892 TTGGGTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:48823475 original size:27 final size:27
Alignment explanation
Indices: 48823403--48823733 Score: 299
Period size: 27 Copynumber: 12.3 Consensus size: 27
48823393 CTCTGTTTAT
* * **
48823403 AATA-CCTCGATTTACAAAATTACTGA
1 AATACCCTCAATTTGCAAAATTACCAA
*** * **
48823429 AATACCCTTGGTTTACAAAATTACTGA
1 AATACCCTCAATTTGCAAAATTACCAA
* * * *
48823456 AATACCCTCAACTTGTAAAATTATCGA
1 AATACCCTCAATTTGCAAAATTACCAA
** * * * *
48823483 AGCACCCCCAATATACAAAATTATCAA
1 AATACCCTCAATTTGCAAAATTACCAA
**
48823510 AATACCCTCGGTTTGCAAAATTACCAA
1 AATACCCTCAATTTGCAAAATTACCAA
* * *
48823537 AGTACCCTTAATTTGTAAAATTACCAA
1 AATACCCTCAATTTGCAAAATTACCAA
* * *
48823564 AATACCCTCACTTTGGAAAATTACAAA
1 AATACCCTCAATTTGCAAAATTACCAA
*
48823591 AATACCCTCAATTTGCAAAATTACCGA
1 AATACCCTCAATTTGCAAAATTACCAA
48823618 AATACCC-CTAATTTGCAAAATTACCAA
1 AATACCCTC-AATTTGCAAAATTACCAA
*
48823645 AATACCCTCAGTTTGCAAAATTACCAA
1 AATACCCTCAATTTGCAAAATTACCAA
* * *
48823672 AGTACCC-CTAATTTGTAAAATTACCAG
1 AATACCCTC-AATTTGCAAAATTACCAA
* *
48823699 AATACCCCTCGATTTGTAAAATTACCAA
1 AATA-CCCTCAATTTGCAAAATTACCAA
48823727 AATACCC
1 AATACCC
48823734 CCCGATTTAT
Statistics
Matches: 250, Mismatches: 49, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
26 6 0.02
27 219 0.88
28 24 0.10
29 1 0.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (27 bp):
AATACCCTCAATTTGCAAAATTACCAA
Found at i:48823979 original size:30 final size:32
Alignment explanation
Indices: 48823932--48824001 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
48823922 CTGATGTCTA
*
48823932 TGTGCCAATCGTATTATA-GTTACCT-ATGGCTT
1 TGTGCCAATC-TATTATATGTTA-CTGAAGGCTT
48823964 TGTGCCAAT-TATTATATTGTTACTGAAGGCTT
1 TGTGCCAATCTATTATA-TGTTACTGAAGGCTT
48823996 TGTGCC
1 TGTGCC
48824002 GAATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 7 0.21
31 2 0.06
32 25 0.74
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTGCCAATCTATTATATGTTACTGAAGGCTT
Found at i:48828013 original size:27 final size:27
Alignment explanation
Indices: 48827982--48828036 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
48827972 TTTAGAATAT
48827982 TTGGTTTACAAAATTACTAAAATACCC
1 TTGGTTTACAAAATTACTAAAATACCC
* *
48828009 TTGGTTTACAAAATTATTGAAATACCC
1 TTGGTTTACAAAATTACTAAAATACCC
48828036 T
1 T
48828037 CAACTTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (27 bp):
TTGGTTTACAAAATTACTAAAATACCC
Found at i:48828286 original size:27 final size:27
Alignment explanation
Indices: 48828028--48828331 Score: 294
Period size: 27 Copynumber: 11.3 Consensus size: 27
48828018 AAAATTATTG
* * *
48828028 AAATACCCTCAACTTGTAAACTTACCG
1 AAATACCCTCAATTTGTAAAATTACCA
* *
48828055 AAGTACCC-CTAATTTGCAAAATTACCA
1 AAATACCCTC-AATTTGTAAAATTACCA
* * *
48828082 AAGTACCC-CTAATTTGCAAAATTATCA
1 AAATACCCTC-AATTTGTAAAATTACCA
* **
48828109 AAATACCTTCAATTTGGGAAATTACCA
1 AAATACCCTCAATTTGTAAAATTACCA
* **
48828136 AAATACACC-CGATTTGTAAAATTACTG
1 AAATAC-CCTCAATTTGTAAAATTACCA
*
48828163 AAATACCCTCAATTTGTGAAATTACCA
1 AAATACCCTCAATTTGTAAAATTACCA
* * * *
48828190 AAGTACCCCCAATTTGCAAAATTATCA
1 AAATACCCTCAATTTGTAAAATTACCA
*
48828217 AAATACCCCTCAATTTGTAAAATTACTA
1 AAATA-CCCTCAATTTGTAAAATTACCA
*
48828245 AAATAACCCT-AATTTATAAAATTACCA
1 AAAT-ACCCTCAATTTGTAAAATTACCA
* * *
48828272 AAATACCTTCGATTTGTTAAATTACCA
1 AAATACCCTCAATTTGTAAAATTACCA
* *
48828299 AAATACCCTCAATTTGTTAGATTACC-
1 AAATACCCTCAATTTGTAAAATTACCA
48828325 AAATACC
1 AAATACC
48828332 TCTGATTTGT
Statistics
Matches: 230, Mismatches: 40, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
26 14 0.06
27 187 0.81
28 28 0.12
29 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATACCCTCAATTTGTAAAATTACCA
Found at i:48828287 original size:109 final size:108
Alignment explanation
Indices: 48828073--48828314 Score: 333
Period size: 109 Copynumber: 2.2 Consensus size: 108
48828063 CTAATTTGCA
* * *
48828073 AAATTACCAAAGTACCCCTAATTTGCAAAATTATCAAAATACCTTCAATTTGGGAAATTACCAAA
1 AAATTACCAAAGTACCCCCAATTTGCAAAATTATCAAAATACCCTCAATTTGGAAAATTACCAAA
* * **
48828138 ATACACCCGATTTGTAAAATTACTGAAATACCCTCAATTTGTG
66 ATACACCCAATTTATAAAATTACCAAAATACCCTCAATTTGTG
* *
48828181 AAATTACCAAAGTACCCCCAATTTGCAAAATTATCAAAATACCCCTCAATTTGTAAAATTACTAA
1 AAATTACCAAAGTACCCCCAATTTGCAAAATTATCAAAATA-CCCTCAATTTGGAAAATTACCAA
* * *
48828246 AATA-ACCCTAATTTATAAAATTACCAAAATACCTTCGATTTGTT
65 AATACACCC-AATTTATAAAATTACCAAAATACCCTCAATTTGTG
* *
48828290 AAATTACCAAAATACCCTCAATTTG
1 AAATTACCAAAGTACCCCCAATTTG
48828315 TTAGATTACC
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
108 44 0.37
109 74 0.63
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (108 bp):
AAATTACCAAAGTACCCCCAATTTGCAAAATTATCAAAATACCCTCAATTTGGAAAATTACCAAA
ATACACCCAATTTATAAAATTACCAAAATACCCTCAATTTGTG
Found at i:48828400 original size:27 final size:27
Alignment explanation
Indices: 48828342--48828439 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
48828332 TCTGATTTGT
* * *
48828342 GAAATACCCCTATAGGGTAGAATCACC
1 GAAATACCCCTGTAAGGTAGAATTACC
* *
48828369 AAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACC
* *
48828396 GAAATACCTCTGTAAGGTAGGATTACC
1 GAAATACCCCTGTAAGGTAGAATTACC
* *
48828423 GTAATACCCTTGTAAGG
1 GAAATACCCCTGTAAGG
48828440 GTAAAATCTC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAAGGTAGAATTACC
Found at i:48838305 original size:17 final size:16
Alignment explanation
Indices: 48838283--48838317 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
48838273 ACCACCAAAT
48838283 TGACACTTGAAGATCAG
1 TGACACTTGAAGAT-AG
48838300 TGACACTTGAAGATAG
1 TGACACTTGAAGATAG
48838316 TG
1 TG
48838318 GCTTGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (16 bp):
TGACACTTGAAGATAG
Found at i:48843528 original size:3 final size:3
Alignment explanation
Indices: 48843522--48843579 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
48843512 CTTCCTCATC
* *
48843522 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT -TA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
48843569 ATT ATT TTT AT
1 ATT ATT ATT AT
48843580 GTACATACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 1 0.02
3 47 0.98
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48843762 original size:25 final size:26
Alignment explanation
Indices: 48843726--48843820 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 26
48843716 TTAATTTAAT
*
48843726 TATTATCATTTTTTTGTATATATGTA
1 TATTATCATTTTTTTATATATATGTA
* *
48843752 -ATTATCGTTTTTTAATCTATATATGTA
1 TATTATCATTTTTT--TATATATATGTA
* *
48843779 TATAATTATTTTTTTATATATATGTACA
1 TATTATCATTTTTTTATATATATGT--A
48843807 TATTAT-ATTTTTTT
1 TATTATCATTTTTTT
48843821 CAATTAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
25 12 0.21
26 10 0.18
27 19 0.33
28 16 0.28
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTATCATTTTTTTATATATATGTA
Found at i:48849408 original size:752 final size:749
Alignment explanation
Indices: 48847952--48849458 Score: 2174
Period size: 752 Copynumber: 2.0 Consensus size: 749
48847942 ACATCGGAGA
* * *
48847952 TGCTTGTACCATTTTTGAACAGAGAATGAAACTAGTTGCCAATCCATGTGCATTGTTCAATTTAT
1 TGCTTGTACCATTTTTGAACAGAGAATAAAACAAGTTGCCAATCAATGTGCATTGTTCAATTTAT
*
48848017 TTAATTCATACGGGGAAAACCTCAATTTCTCAATATTCAAGACATGATTGGTTAAAGTTGAATAG
66 TTAATTCATACGGGGAAAACCTCAATTTCTCAATATTCAAGACATCATTGGTTAAAGTTGAATAG
* * * * * *
48848082 AAGTAGTAACCAGTCTTGTAAAGAATGATATTAGGATAATCCTCTGTAGTCACCAGTTATAGACA
131 AAGCAGTAACCAGTCCTATAAAGAATGATATTAGGATAATCCTCCGTAGTCACCAGATACAGACA
* * * *
48848147 ATAGGACTCAAACTTTTATTTTTTTTCTTTTTCTTTTCTCGTGTTTTAAGTTAGCTCTTCAGCAA
196 ATAGGACTCAAACTTTTAGTTGTTTTCTTTCTCTTTTCTCGTGTTTT-ACTTA-CTCTT------
*
48848212 CCACGAAAATGAAGAAATTTGAAATATATAAATCAAATCCTCAACTAGTTGTAGGCAAACCTGTA
253 --ACG---AT--AGAAATTTGAAATATATAAACCAAATCCTCAACTAGTTGTAGGCAAACCTGTA
*
48848277 AAATGCTATCCTGGATTATACATACACACTCTGTATATATTTTGTCCTCGATTTTGCAACTAAAA
311 AAATGCTATCCTGGATTATACATACACACTCTGTATATATTTTGTCCTCGATTTCGCAACTAAAA
* * *
48848342 ATAGAATACAATAACATGCCAATTTCAGTATAATTATAATTTTGGCATTGAAACCGTACACTAAA
376 ACAGAATACAATAACATGCCAATTTCAGTATAATTACAATTTTGGCATTGAAACCATACACTAAA
* * * *
48848407 CCGAGGATAATTGATATTTTGTCTGAAGAATGCCATAAAGTATTTTCTCATATTGTATGTTCTGG
441 CCAAGGATAATTGATATTTTATCTGAAAAATGCCATAAAGTATTTTCTCATATTGTATGTTATGG
* * * * *
48848472 TCTAGGCCAATATAACATGCCAGTCATAATACTTAATTTGGAGTTAATGATCATAGGTTAAGTGA
506 TCTAAGCCAATATAACATGCCAATCATAATACATAATTAGGAGTTAATGATCATAAGTTAAGTGA
* *
48848537 TAATCGATGGCAGTATGTAAAACAAAAGGCTTTAGAACTGGAAATTAGATTTTGGCAGAAATTAT
571 TAATCGATGGCAGTATGTAAAACAAAAGGCTTCACAACTGGAAATTAGATTTTGGCAGAAATTAT
48848602 CCACATAATATCAGAAACAAGATTCATGAAAAGAAAGTTCATTGAAAAATTTATATATTGGTTAC
636 CCACATAATATCAGAAACAAGATTCATGAAAAGAAAGTTCATTGAAAAATTTATATATTGGTTAC
48848667 AAAAATTAATTTCGTTGACAAGGGCATGGGATTGCAAAAATTTATATAT
701 AAAAATTAATTTCGTTGACAAGGGCATGGGATTGCAAAAATTTATATAT
*
48848716 TGCTTGTACCATTTTTGAACAGAGAATAAAACAAGTTGCCAATCAATGTGCATTGTTGAATTTAT
1 TGCTTGTACCATTTTTGAACAGAGAATAAAACAAGTTGCCAATCAATGTGCATTGTTCAATTTAT
** * *
48848781 TTAATTCATGTGGGGAAAGCCTCAATTTCTCAATATTCAAGACATCATTGGTTGAAGTTGAATAG
66 TTAATTCATACGGGGAAAACCTCAATTTCTCAATATTCAAGACATCATTGGTTAAAGTTGAATAG
*
48848846 AAGCAGTAACCAGTCCTATAAAGAATTATATTAGGATAATCCTCCGTAGTCACCAGATACAGACA
131 AAGCAGTAACCAGTCCTATAAAGAATGATATTAGGATAATCCTCCGTAGTCACCAGATACAGACA
* *
48848911 ATAGGCCTCCAACTTTTAGTTGTTTTCTTTCTCTTTT-TC-T-TTTT-CTT-CTC-T-CG-T-G-
196 ATAGGACTCAAACTTTTAGTTGTTTTCTTTCTCTTTTCTCGTGTTTTACTTACTCTTACGATAGA
** * * *
48848966 TTTTATGACATATCTAAACCAAATCCTCAACTAGTTGTAGGCAAGCCTGTAAAATGCTATCCTGG
261 AATT-TGAAATATATAAACCAAATCCTCAACTAGTTGTAGGCAAACCTGTAAAATGCTATCCTGG
*
48849031 ATTATACATACACACTCTGAATATAGGATTGTATATATTTTGTCCTGGATTTCGCAACTAAAAAC
325 ATTATACATACACACTC------------TGTATATATTTTGTCCTCGATTTCGCAACTAAAAAC
* *
48849096 AGAATGCAATAACATGCCAATTTCAGTATAATTACAATTTTGGCATTGAAACCATACACTAAACT
378 AGAATACAATAACATGCCAATTTCAGTATAATTACAATTTTGGCATTGAAACCATACACTAAACC
*
48849161 AAGGATAATTGATCTTTTATCTGAAAAATGCCATAAAGTATTTTCTCATATTGTATGTTATGGTC
443 AAGGATAATTGATATTTTATCTGAAAAATGCCATAAAGTATTTTCTCATATTGTATGTTATGGTC
* *
48849226 TAAGCCAATATAACATGCCAATCATAGTACATAATTAGGAGTTAATGATCATAATTTAAGTGATA
508 TAAGCCAATATAACATGCCAATCATAATACATAATTAGGAGTTAATGATCATAAGTTAAGTGATA
* * *
48849291 ATTGATGGCAG-AGTGTAAAACAAAAGGCTTCACAACTGGAATTTAGATTTTGGCTGAAATTATC
573 ATCGATGGCAGTA-TGTAAAACAAAAGGCTTCACAACTGGAAATTAGATTTTGGCAGAAATTATC
*
48849355 CACATAATATCA-TAACAAGATTCATGAAAAGAAAGTTTCATTGAAAAATTTATATATTGGTTAC
637 CACATAATATCAGAAACAAGATTCATGAAAAGAAAG-TTCATTGAAAAATTTATATATTGGTTAC
*
48849419 AAATATTAATTTCGTTGACAAGGGCATGGGATTGCAAAAA
701 AAAAATTAATTTCGTTGACAAGGGCATGGGATTGCAAAAA
48849459 ACAATCCACC
Statistics
Matches: 674, Mismatches: 54, Indels: 42
0.88 0.07 0.05
Matches are distributed among these distances:
739 2 0.00
740 74 0.11
743 1 0.00
747 2 0.00
751 23 0.03
752 348 0.52
756 1 0.00
757 3 0.00
759 2 0.00
761 4 0.01
762 1 0.00
763 2 0.00
764 211 0.31
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (749 bp):
TGCTTGTACCATTTTTGAACAGAGAATAAAACAAGTTGCCAATCAATGTGCATTGTTCAATTTAT
TTAATTCATACGGGGAAAACCTCAATTTCTCAATATTCAAGACATCATTGGTTAAAGTTGAATAG
AAGCAGTAACCAGTCCTATAAAGAATGATATTAGGATAATCCTCCGTAGTCACCAGATACAGACA
ATAGGACTCAAACTTTTAGTTGTTTTCTTTCTCTTTTCTCGTGTTTTACTTACTCTTACGATAGA
AATTTGAAATATATAAACCAAATCCTCAACTAGTTGTAGGCAAACCTGTAAAATGCTATCCTGGA
TTATACATACACACTCTGTATATATTTTGTCCTCGATTTCGCAACTAAAAACAGAATACAATAAC
ATGCCAATTTCAGTATAATTACAATTTTGGCATTGAAACCATACACTAAACCAAGGATAATTGAT
ATTTTATCTGAAAAATGCCATAAAGTATTTTCTCATATTGTATGTTATGGTCTAAGCCAATATAA
CATGCCAATCATAATACATAATTAGGAGTTAATGATCATAAGTTAAGTGATAATCGATGGCAGTA
TGTAAAACAAAAGGCTTCACAACTGGAAATTAGATTTTGGCAGAAATTATCCACATAATATCAGA
AACAAGATTCATGAAAAGAAAGTTCATTGAAAAATTTATATATTGGTTACAAAAATTAATTTCGT
TGACAAGGGCATGGGATTGCAAAAATTTATATAT
Found at i:48852516 original size:19 final size:19
Alignment explanation
Indices: 48852470--48852517 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
48852460 GTATATATTT
48852470 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
48852488 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
48852507 TAAGTTTTATT
1 TAAATTTTATT
48852518 CATAGTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:48860343 original size:41 final size:42
Alignment explanation
Indices: 48860286--48860379 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 42
48860276 GCTAATTGGG
* * *
48860286 AAAATAATTCCCTTATTCTATTAAACTACTAAAAGATAAGA-
1 AAAATAATTCCTTTATTCTAATAAACTACTAAAAGATAAAAT
48860327 AAAATAATTCCTTTATTCTAATAAACTACTAAAAGATAAAAT
1 AAAATAATTCCTTTATTCTAATAAACTACTAAAAGATAAAAT
48860369 AAAAT-ATTCCT
1 AAAATAATTCCT
48860380 AGAATATCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 44 0.90
42 5 0.10
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (42 bp):
AAAATAATTCCTTTATTCTAATAAACTACTAAAAGATAAAAT
Found at i:48876294 original size:41 final size:42
Alignment explanation
Indices: 48876237--48876329 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 42
48876227 GCTAATTGGG
* *
48876237 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAATA-
1 AAAATAATTCCCTTATTATAATAAACTACTAAAAGATAAAAT
*
48876278 AAAATAATTCCCTTATTATAATAAACTATTAAAAGATAAAAT
1 AAAATAATTCCCTTATTATAATAAACTACTAAAAGATAAAAT
48876320 AAAAT-ATTCC
1 AAAATAATTCC
48876330 TAGAATATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 43 0.90
42 5 0.10
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (42 bp):
AAAATAATTCCCTTATTATAATAAACTACTAAAAGATAAAAT
Found at i:48876382 original size:19 final size:19
Alignment explanation
Indices: 48876358--48876394 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48876348 TTATTCTAAT
*
48876358 ATTTATCTACCTAAATAAG
1 ATTTATCTACCAAAATAAG
48876377 ATTTATCTACCAAAATAA
1 ATTTATCTACCAAAATAA
48876395 CTTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (19 bp):
ATTTATCTACCAAAATAAG
Found at i:48878379 original size:28 final size:28
Alignment explanation
Indices: 48878339--48878392 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
48878329 CATGTAATCT
*
48878339 GCCCGTGTAGGCCCACACGCCTGTGTAA
1 GCCCGTGTAGGCCCACACGCCCGTGTAA
* *
48878367 GCCCGTGTGGGCCCATACGCCCGTGT
1 GCCCGTGTAGGCCCACACGCCCGTGT
48878393 GGCCCACCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.13, C:0.37, G:0.31, T:0.19
Consensus pattern (28 bp):
GCCCGTGTAGGCCCACACGCCCGTGTAA
Found at i:48881449 original size:23 final size:23
Alignment explanation
Indices: 48881419--48881469 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
48881409 ACTCGCCCTG
48881419 ATGGCGTCTACCACAATCAGTAC
1 ATGGCGTCTACCACAATCAGTAC
48881442 ATGGCGTCTACCACAATCAGTAC
1 ATGGCGTCTACCACAATCAGTAC
48881465 ATGGC
1 ATGGC
48881470 TGCAGTCCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (23 bp):
ATGGCGTCTACCACAATCAGTAC
Found at i:48884888 original size:17 final size:17
Alignment explanation
Indices: 48884866--48884900 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48884856 ACAAGTTTCG
*
48884866 ACCAAAGGGGAACAAAA
1 ACCAAACGGGAACAAAA
*
48884883 ACCAAACGTGAACAAAA
1 ACCAAACGGGAACAAAA
48884900 A
1 A
48884901 AGGAGAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.20, G:0.17, T:0.03
Consensus pattern (17 bp):
ACCAAACGGGAACAAAA
Found at i:48910942 original size:61 final size:60
Alignment explanation
Indices: 48910832--48911040 Score: 178
Period size: 60 Copynumber: 3.5 Consensus size: 60
48910822 AAATAAAGAA
* *
48910832 GTGCCCCTGTTTGCACTTTAGTGGCCTTGTATACACTTCGGTGTCTCTATTTGCACAATT
1 GTGCCCCTGTTCGCACTTTAGTGGCCCTGTATACACTTCGGTGTCTCTATTTGCACAATT
* *
48910892 GTGCCCCTGTTCGCACTTT-GATGCGCCCTGTATACGA-TTTGGTGTCTCTATTTGCAC-GTCT
1 GTGCCCCTGTTCGCACTTTAG-TG-GCCCTGTATAC-ACTTCGGTGTCTCTATTTGCACAAT-T
* * * * * * *
48910953 GTGCTCCTATTTGCACTTTAGT-GCCCTTGTATATACTTTGGTGTC-CTTGTTTGCA-GATCT
1 GTGCCCCTGTTCGCACTTTAGTGGCCC-TGTATACACTTCGGTGTCTC-TATTTGCACAAT-T
* * * *
48911013 GTGCCCCAGTTCACACTTTGGTGCCCCT
1 GTGCCCCTGTTCGCACTTTAGTGGCCCT
48911041 AAGTGCACGT
Statistics
Matches: 122, Mismatches: 17, Indels: 20
0.77 0.11 0.13
Matches are distributed among these distances:
59 7 0.06
60 63 0.52
61 50 0.41
62 2 0.02
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (60 bp):
GTGCCCCTGTTCGCACTTTAGTGGCCCTGTATACACTTCGGTGTCTCTATTTGCACAATT
Found at i:48916605 original size:20 final size:19
Alignment explanation
Indices: 48916582--48916694 Score: 64
Period size: 20 Copynumber: 5.7 Consensus size: 19
48916572 CTAATGTATA
* *
48916582 CACTTCGGTGTCTCTATTGC
1 CACTTCGGTGCCCCTATT-C
* **
48916602 CACTACTATGCCCCTATTC
1 CACTTCGGTGCCCCTATTC
*
48916621 GCACTTCGGTGCCCCTATATA
1 -CACTTCGGTGCCCCTAT-TC
* *
48916642 CACTTCGGTGTCTCTATTTC
1 CACTTCGGTGCCCCTA-TTC
* * * *
48916662 CACGTCTGTGCTCCTGTTC
1 CACTTCGGTGCCCCTATTC
*
48916681 GCACTTTGGTGCCC
1 -CACTTCGGTGCCC
48916695 TATATATATA
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
19 4 0.06
20 61 0.91
21 2 0.03
ACGTcount: A:0.12, C:0.35, G:0.18, T:0.35
Consensus pattern (19 bp):
CACTTCGGTGCCCCTATTC
Found at i:48916643 original size:60 final size:60
Alignment explanation
Indices: 48916550--48916815 Score: 257
Period size: 60 Copynumber: 4.4 Consensus size: 60
48916540 TGCATAACTG
* ** ** *
48916550 TGCCCCTATTTGCACTTCAGTGCTAATGTATACACTTCGGTGTCTCTATTGCCAC-TACTA
1 TGCCCCTATTCGCACTTTGGTGCCCATATATACACTTCGGTGTCTCTATTGCCACGT-CTA
* * * *
48916610 TGCCCCTATTCGCACTTCGGTGCCCCTATATACACTTCGGTGTCTCTATTTCCACGTCTG
1 TGCCCCTATTCGCACTTTGGTGCCCATATATACACTTCGGTGTCTCTATTGCCACGTCTA
* * * ** *
48916670 TGCTCCTGTTCGCACTTTGGTGCCCTATATATATACTTCGACGTCTCTATTTCCACGTCTA
1 TGCCCCTATTCGCACTTTGGTGCCC-ATATATACACTTCGGTGTCTCTATTGCCACGTCTA
* * * ** * * * *
48916731 TGCTCCTGTTCGCACTTTGGTGCCCCTATATACACTTTAGTGTCCCTGTTTG-CACATCTG
1 TGCCCCTATTCGCACTTTGGTGCCCATATATACACTTCGGTGTCTCT-ATTGCCACGTCTA
*
48916791 TGTCCCTATTCGCACTTTGGTGCCC
1 TGCCCCTATTCGCACTTTGGTGCCC
48916816 TTGACTGCAC
Statistics
Matches: 173, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
60 115 0.66
61 58 0.34
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (60 bp):
TGCCCCTATTCGCACTTTGGTGCCCATATATACACTTCGGTGTCTCTATTGCCACGTCTA
Found at i:48916803 original size:121 final size:121
Alignment explanation
Indices: 48916528--48916816 Score: 325
Period size: 121 Copynumber: 2.4 Consensus size: 121
48916518 GAAATGAAGA
* * * * ** * **
48916528 AGTGCCCCTGTTTGCATAACTGTGCCCCTATTTGCACTTCAGTG--CTAATGTATACACTTCGGT
1 AGTGTCCCTGTTTGCACATCTGTG-CCCTATTCGCACTTTGGTGCCCTAATATATACACTTCGAC
48916591 GTCTCTATTGCCACTACTATGCCCCTATTCGCACTTCGGTGCCCCTATATACACTTC
65 GTCTCTATTGCCACTACTATGCCCCTATTCGCACTTCGGTGCCCCTATATACACTTC
* * * * * * *
48916648 GGTGTCTCTATTTCCACGTCTGTGCTCCTGTTCGCACTTTGGTGCCCT-ATATATATACTTCGAC
1 AGTGTCCCTGTTTGCACATCTGTGC-CCTATTCGCACTTTGGTGCCCTAATATATACACTTCGAC
* * * * *
48916712 GTCTCTATTTCCACGT-CTATGCTCCTGTTCGCACTTTGGTGCCCCTATATACACTTT
65 GTCTCTATTGCCAC-TACTATGCCCCTATTCGCACTTCGGTGCCCCTATATACACTTC
48916769 AGTGTCCCTGTTTGCACATCTGTGTCCCTATTCGCACTTTGGTGCCCT
1 AGTGTCCCTGTTTGCACATCTGTG-CCCTATTCGCACTTTGGTGCCCT
48916817 TGACTGCACG
Statistics
Matches: 137, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
119 1 0.01
120 30 0.22
121 102 0.74
122 4 0.03
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (121 bp):
AGTGTCCCTGTTTGCACATCTGTGCCCTATTCGCACTTTGGTGCCCTAATATATACACTTCGACG
TCTCTATTGCCACTACTATGCCCCTATTCGCACTTCGGTGCCCCTATATACACTTC
Found at i:48919768 original size:23 final size:23
Alignment explanation
Indices: 48919718--48919762 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
48919708 AGTTTGTATT
48919718 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
48919741 TGTAATA-CCCTGAAAATTACTA
1 TGTAATATCCC-GAAAATTACTA
48919763 TAGTAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:48928480 original size:33 final size:33
Alignment explanation
Indices: 48928420--48928484 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
48928410 CACAAAGATC
* *
48928420 CAAATGTTTATATGCTCATCAAATACATATAAA
1 CAAATGTTCATATACTCATCAAATACATATAAA
* * *
48928453 CAAATGTTCATATACTTATCCATTACATATAA
1 CAAATGTTCATATACTCATCAAATACATATAA
48928485 CTAAAATCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (33 bp):
CAAATGTTCATATACTCATCAAATACATATAAA
Found at i:48934282 original size:15 final size:16
Alignment explanation
Indices: 48934255--48934286 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
48934245 TTGTTGACTT
48934255 TTTCCTGTTTTATTGA
1 TTTCCTGTTTTATTGA
48934271 TTTCCT-TTTTATTGA
1 TTTCCTGTTTTATTGA
48934286 T
1 T
48934287 ATTTGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.66
Consensus pattern (16 bp):
TTTCCTGTTTTATTGA
Found at i:48935158 original size:10 final size:11
Alignment explanation
Indices: 48935132--48935157 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48935122 ATTTTGGGAG
48935132 AAAAATGAGCA
1 AAAAATGAGCA
48935143 AAAAATGAGCA
1 AAAAATGAGCA
48935154 AAAA
1 AAAA
48935158 TTAGACAAAT
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:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (11 bp):
AAAAATGAGCA
Found at i:48939554 original size:426 final size:426
Alignment explanation
Indices: 48938761--48939616 Score: 1712
Period size: 426 Copynumber: 2.0 Consensus size: 426
48938751 CATAAATTAC
48938761 CAAGTGGCTCCATTTTATCTTCTTATCTCAATTTTATCGACTTGGAAAAATTTTGTCTAATTTAT
1 CAAGTGGCTCCATTTTATCTTCTTATCTCAATTTTATCGACTTGGAAAAATTTTGTCTAATTTAT
48938826 CTTCTGATCCTATCGGTTAATCTGGGACTAGCAAACGGGTGTGCGATAATATTACCTTCCGGTCT
66 CTTCTGATCCTATCGGTTAATCTGGGACTAGCAAACGGGTGTGCGATAATATTACCTTCCGGTCT
48938891 CACTTTATCTTATATTCGCTTAGGGCTGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGTCT
131 CACTTTATCTTATATTCGCTTAGGGCTGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGTCT
48938956 AATTTGTTACGATCTAGTCCCTTGTCCAAATATTTTACATTACCCACATCTCCATCAGCCAACCT
196 AATTTGTTACGATCTAGTCCCTTGTCCAAATATTTTACATTACCCACATCTCCATCAGCCAACCT
48939021 CCTTAAGGGTTTAGCTATACATACTCAAAGTCAAGAAAATAAACATAATAGTGGAAAACAAAGAA
261 CCTTAAGGGTTTAGCTATACATACTCAAAGTCAAGAAAATAAACATAATAGTGGAAAACAAAGAA
48939086 GCCATGAAAGTAAAGCTTGAGAAAAATATGAAAGTTGAGATTTTTATGCAAGAAAACTTACAAAG
326 GCCATGAAAGTAAAGCTTGAGAAAAATATGAAAGTTGAGATTTTTATGCAAGAAAACTTACAAAG
48939151 CATGAAACCAAAAGTATCTAACAACAAAATCTAAAA
391 CATGAAACCAAAAGTATCTAACAACAAAATCTAAAA
48939187 CAAGTGGCTCCATTTTATCTTCTTATCTCAATTTTATCGACTTGGAAAAATTTTGTCTAATTTAT
1 CAAGTGGCTCCATTTTATCTTCTTATCTCAATTTTATCGACTTGGAAAAATTTTGTCTAATTTAT
48939252 CTTCTGATCCTATCGGTTAATCTGGGACTAGCAAACGGGTGTGCGATAATATTACCTTCCGGTCT
66 CTTCTGATCCTATCGGTTAATCTGGGACTAGCAAACGGGTGTGCGATAATATTACCTTCCGGTCT
48939317 CACTTTATCTTATATTCGCTTAGGGCTGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGTCT
131 CACTTTATCTTATATTCGCTTAGGGCTGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGTCT
48939382 AATTTGTTACGATCTAGTCCCTTGTCCAAATATTTTACATTACCCACATCTCCATCAGCCAACCT
196 AATTTGTTACGATCTAGTCCCTTGTCCAAATATTTTACATTACCCACATCTCCATCAGCCAACCT
48939447 CCTTAAGGGTTTAGCTATACATACTCAAAGTCAAGAAAATAAACATAATAGTGGAAAACAAAGAA
261 CCTTAAGGGTTTAGCTATACATACTCAAAGTCAAGAAAATAAACATAATAGTGGAAAACAAAGAA
48939512 GCCATGAAAGTAAAGCTTGAGAAAAATATGAAAGTTGAGATTTTTATGCAAGAAAACTTACAAAG
326 GCCATGAAAGTAAAGCTTGAGAAAAATATGAAAGTTGAGATTTTTATGCAAGAAAACTTACAAAG
48939577 CATGAAACCAAAAGTATCTAACAACAAAATCTAAAA
391 CATGAAACCAAAAGTATCTAACAACAAAATCTAAAA
48939613 CAAG
1 CAAG
48939617 AAACATAAAA
Statistics
Matches: 430, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
426 430 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (426 bp):
CAAGTGGCTCCATTTTATCTTCTTATCTCAATTTTATCGACTTGGAAAAATTTTGTCTAATTTAT
CTTCTGATCCTATCGGTTAATCTGGGACTAGCAAACGGGTGTGCGATAATATTACCTTCCGGTCT
CACTTTATCTTATATTCGCTTAGGGCTGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGTCT
AATTTGTTACGATCTAGTCCCTTGTCCAAATATTTTACATTACCCACATCTCCATCAGCCAACCT
CCTTAAGGGTTTAGCTATACATACTCAAAGTCAAGAAAATAAACATAATAGTGGAAAACAAAGAA
GCCATGAAAGTAAAGCTTGAGAAAAATATGAAAGTTGAGATTTTTATGCAAGAAAACTTACAAAG
CATGAAACCAAAAGTATCTAACAACAAAATCTAAAA
Found at i:48944956 original size:25 final size:25
Alignment explanation
Indices: 48944922--48944972 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
48944912 ATTATTGGTG
*
48944922 TGAAAGAGTATTTGTAAGCATGCCA
1 TGAAAGAGTATATGTAAGCATGCCA
48944947 TGAAAGAGTATATGTAAGCATGCCA
1 TGAAAGAGTATATGTAAGCATGCCA
48944972 T
1 T
48944973 ACATGCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (25 bp):
TGAAAGAGTATATGTAAGCATGCCA
Found at i:48945227 original size:48 final size:48
Alignment explanation
Indices: 48945153--48945260 Score: 189
Period size: 48 Copynumber: 2.2 Consensus size: 48
48945143 TGAGGCCCTG
* *
48945153 GGACATGGTTGGAGAGATAAGGAAATGTGAGCTAAGCTCCATTCAACA
1 GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAACA
*
48945201 GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAACG
1 GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAACA
48945249 GGACATGTTTGG
1 GGACATGTTTGG
48945261 TGTGCTAGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (48 bp):
GGACATGTTTGGAGAGATAAGAAAATGTGAGCTAAGCTCCATTCAACA
Found at i:48950384 original size:17 final size:16
Alignment explanation
Indices: 48950362--48950396 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
48950352 ACCACCAAAT
*
48950362 TGACACTTGAAGATCAG
1 TGACACTAGAAGAT-AG
48950379 TGACACTAGAAGATAG
1 TGACACTAGAAGATAG
48950395 TG
1 TG
48950397 GCTTGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (16 bp):
TGACACTAGAAGATAG
Found at i:48958283 original size:41 final size:42
Alignment explanation
Indices: 48958226--48958316 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 42
48958216 TAATTAGGAT
* *
48958226 AATAATTCCCTTATTCTAA-TAAACTACTAAAATATAAGA-AA
1 AATAATTCCCTTATTCTAAGTAAA-TACTAAAAGATAAAATAA
48958267 AATAATTCCCTTATTCTAAGTAAATACTAAAAGATAAAATAA
1 AATAATTCCCTTATTCTAAGTAAATACTAAAAGATAAAATAA
48958309 AAT-ATTCC
1 AATAATTCC
48958317 TAGAATATCT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 37 0.80
42 9 0.20
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (42 bp):
AATAATTCCCTTATTCTAAGTAAATACTAAAAGATAAAATAA
Found at i:48973665 original size:30 final size:30
Alignment explanation
Indices: 48973624--48973680 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48973614 CACGGGCTAG
*
48973624 CACATGGGCATGTGTCCAGCCT-GTGTGACT
1 CACACGGGCATGTGTCCA-CCTCGTGTGACT
48973654 CACACGGGCATGTGTCCACCTCGTGTG
1 CACACGGGCATGTGTCCACCTCGTGTG
48973681 GAAATGCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (30 bp):
CACACGGGCATGTGTCCACCTCGTGTGACT
Found at i:48975626 original size:25 final size:26
Alignment explanation
Indices: 48975578--48975627 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
48975568 AAAACAAACA
* *
48975578 AAAAATAATAATAAAATTAGTAAAAT
1 AAAAATAATAATAAAATAAATAAAAT
*
48975604 AAAAA-AATAATATAATAAATAAAA
1 AAAAATAATAATAAAATAAATAAAA
48975628 AATAAAGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAATAATAATAAAATAAATAAAAT
Found at i:48977446 original size:45 final size:45
Alignment explanation
Indices: 48977384--48977488 Score: 131
Period size: 45 Copynumber: 2.4 Consensus size: 45
48977374 GTGTGCCCTG
* * ** *
48977384 CACGGCCTTG-CACACAGGCATGGGAGAAGCGAAGGAATATCACA
1 CACGGCCTGGACACACAGGCATAGGAGAAGAAAAGAAATATCACA
* *
48977428 CACGGCCTGGACACACAGGCGTAGGATAAGAAAAGAAATATCACA
1 CACGGCCTGGACACACAGGCATAGGAGAAGAAAAGAAATATCACA
*
48977473 CACGACCTGGACACAC
1 CACGGCCTGGACACAC
48977489 TATCGTGTCC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 9 0.17
45 43 0.83
ACGTcount: A:0.37, C:0.27, G:0.26, T:0.10
Consensus pattern (45 bp):
CACGGCCTGGACACACAGGCATAGGAGAAGAAAAGAAATATCACA
Found at i:48977574 original size:13 final size:13
Alignment explanation
Indices: 48977556--48977594 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
48977546 TGAAAACCCC
*
48977556 ACACGGGCGTGTG
1 ACACGGTCGTGTG
*
48977569 ACACGGTCGTGTA
1 ACACGGTCGTGTG
*
48977582 ACATGGTCGTGTG
1 ACACGGTCGTGTG
48977595 GCCCAACACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.18, C:0.21, G:0.38, T:0.23
Consensus pattern (13 bp):
ACACGGTCGTGTG
Found at i:48978208 original size:16 final size:16
Alignment explanation
Indices: 48978191--48978243 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
48978181 TTATGTTCTA
48978191 TTATTTTATT-TTATT
1 TTATTTTATTATTATT
48978206 ATTATTTTCATTATT-TT
1 -TTATTTT-ATTATTATT
48978223 TTATTGTTATTA-TA-T
1 TTATT-TTATTATTATT
48978238 TTATTT
1 TTATTT
48978244 GTTTTATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.03
15 7 0.21
16 16 0.48
17 7 0.21
18 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTTTATTATTATT
Found at i:48978218 original size:25 final size:25
Alignment explanation
Indices: 48978169--48978235 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
48978159 GTTTGGCCCG
* *
48978169 TTTTTTTCATTTTTATGTTCTATTA
1 TTTTTTTTATTATTATGTTCTATTA
*
48978194 TTTTATTTTATTATTATTTTC-ATTA
1 TTTT-TTTTATTATTATGTTCTATTA
*
48978219 TTTTTTATTGTTATTAT
1 TTTTTT-TTATTATTAT
48978236 ATTTATTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.06
25 21 0.58
26 13 0.36
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTTTTTTATTATTATGTTCTATTA
Found at i:48978241 original size:22 final size:22
Alignment explanation
Indices: 48978199--48978252 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48978189 TATTATTTTA
*
48978199 TTTTATTATTATTTTCATTATT
1 TTTTATTATTATTATCATTATT
*
48978221 TTTTATTGTTATTAT-ATTTATT
1 TTTTATTATTATTATCA-TTATT
*
48978243 TGTT-TTATTA
1 TTTTATTATTA
48978253 GTCCTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTATTATTATTATCATTATT
Found at i:48980199 original size:16 final size:15
Alignment explanation
Indices: 48980178--48980207 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48980168 GTTCGGTTTA
48980178 GGATAGAAACAAGGTG
1 GGATAGAAA-AAGGTG
48980194 GGATAGAAAAAGGT
1 GGATAGAAAAAGGT
48980208 AATTGATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.03, G:0.37, T:0.13
Consensus pattern (15 bp):
GGATAGAAAAAGGTG
Done.