Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 27 of 29
Found at i:4233532 original size:27 final size:28
Alignment explanation
Indices: 4233468--4233538 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
4233458 TTCCACCATC
*
4233468 GGGGATATTCCAACCCTGTTATTTTCGA
1 GGGGATACTCCAACCCTGTTATTTTCGA
*
4233496 GGGGATACTCCAATCCTGTTATTTT-GA
1 GGGGATACTCCAACCCTGTTATTTTCGA
4233523 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
4233539 CGATTTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 17 0.43
28 23 0.57
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (28 bp):
GGGGATACTCCAACCCTGTTATTTTCGA
Found at i:4233549 original size:106 final size:107
Alignment explanation
Indices: 4233389--4233580 Score: 287
Period size: 106 Copynumber: 1.8 Consensus size: 107
4233379 TTCCACCATC
* *
4233389 GGGGATACTCCAACCCCGTTATTTTTTAGGGGACACTCCAACCCTGATTTTATTTCTAAAATATA
1 GGGGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCCCGATTTTATTTCTAAAATATA
* *
4233454 GATTTTCCACCATCGGGGATATTCCAACCCTGTTATTTTCGA
66 GATTTTCCAACATCGGAGATATTCCAACCCTGTTATTTTCGA
* * * * *
4233496 GGGGATACTCCAATCCTGTTA-TTTTGAGGGGATACTCCAACCCCGATTTTATTTTTAAAATATC
1 GGGGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCCCGATTTTATTTCTAAAATATA
*
4233560 GATTTTTCAACATCGGAGATA
66 GATTTTCCAACATCGGAGATA
4233581 ATTCATTATT
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
106 56 0.75
107 19 0.25
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGTTATTTTTGAGGGGACACTCCAACCCCGATTTTATTTCTAAAATATA
GATTTTCCAACATCGGAGATATTCCAACCCTGTTATTTTCGA
Found at i:4233698 original size:79 final size:79
Alignment explanation
Indices: 4233524--4233786 Score: 242
Period size: 79 Copynumber: 3.4 Consensus size: 79
4233514 TTATTTTGAG
* * * * *
4233524 GGGATACTCCAACCCCGATTTTATTTTTAAAATA-TCGATTTTTCAACATCG-GAGATAATT---
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACT-GATTTTTCACCTTCGAG-GATACTTCAA
* *
4233584 ---CATTATTTCTGAG
64 CCCCATTATTTCCGAA
* * *
4233597 GGGATACTCCAACCGC-AGTTTTATTTCTAAAACATTGA-TTTTC-CGCTATCGAGGATATTTCA
1 GGGATACTCCAACCCCGA-TTTTATTTCTAAAACACTGATTTTTCAC-CT-TCGAGGATACTTCA
**
4233659 ACCCTGTTATTTCCGAA
63 ACCCCATTATTTCCGAA
* * *
4233676 GGGATACTCTAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCTTTGGGGATACTTCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCTTCGAGGATACTTCAACC
*
4233741 CCATTATTTTCGAA
66 CCATTATTTCCGAA
* *
4233755 GGGATACTCCAACCTCGATTTTATTTCCAAAA
1 GGGATACTCCAACCCCGATTTTATTTCTAAAA
4233787 TATCAACTTT
Statistics
Matches: 154, Mismatches: 22, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
72 7 0.05
73 40 0.26
74 2 0.01
79 96 0.62
80 8 0.05
81 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCTTCGAGGATACTTCAACC
CCATTATTTCCGAA
Found at i:4235024 original size:16 final size:16
Alignment explanation
Indices: 4235003--4235036 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4234993 ACCATAGACC
4235003 TTTTGTAACCATATAT
1 TTTTGTAACCATATAT
**
4235019 TTTTGTGCCCATATAT
1 TTTTGTAACCATATAT
4235035 TT
1 TT
4235037 CTTTGTGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (16 bp):
TTTTGTAACCATATAT
Found at i:4235863 original size:13 final size:13
Alignment explanation
Indices: 4235845--4235916 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
4235835 TCCTCTGTGG
4235845 AAAGAAGAAAAAT
1 AAAGAAGAAAAAT
4235858 AAAGAA-AGAAAAT
1 AAAGAAGA-AAAAT
*
4235871 AGAAAAAGCAAAAGA-
1 A-AAGAAG-AAAA-AT
*
4235886 AAAGATGAAAAAT
1 AAAGAAGAAAAAT
* *
4235899 TAAGAA-AAAGAT
1 AAAGAAGAAAAAT
4235911 AAAGAA
1 AAAGAA
4235917 AAAGAGGCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
12 12 0.26
13 20 0.43
14 8 0.17
15 4 0.09
16 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.08
Consensus pattern (13 bp):
AAAGAAGAAAAAT
Found at i:4235917 original size:12 final size:12
Alignment explanation
Indices: 4235862--4235921 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
4235852 AAAAATAAAG
*
4235862 AAAGAAAATAGAA
1 AAAGAAAA-AGAT
*
4235875 AAAGCAAAAGA-
1 AAAGAAAAAGAT
4235886 AAAGATGAAAA-AT
1 AAAGA--AAAAGAT
*
4235899 TAAGAAAAAGAT
1 AAAGAAAAAGAT
4235911 AAAGAAAAAGA
1 AAAGAAAAAGA
4235922 GGCATATTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 8 0.21
12 16 0.41
13 15 0.38
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (12 bp):
AAAGAAAAAGAT
Found at i:4236682 original size:15 final size:16
Alignment explanation
Indices: 4236662--4236691 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4236652 AACATCCTTT
4236662 TGAACC-TGATCTTAA
1 TGAACCTTGATCTTAA
4236677 TGAACCTTGATCTTA
1 TGAACCTTGATCTTA
4236692 TTTGGCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (16 bp):
TGAACCTTGATCTTAA
Found at i:4238446 original size:20 final size:20
Alignment explanation
Indices: 4238421--4238460 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4238411 GTTACAAGCA
* *
4238421 ATGTATCGATACAATTTATC
1 ATGTATCGAGACAATGTATC
4238441 ATGTATCGAGACAATGTATC
1 ATGTATCGAGACAATGTATC
4238461 GATACATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGAGACAATGTATC
Found at i:4238456 original size:33 final size:33
Alignment explanation
Indices: 4238419--4238487 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4238409 CCGTTACAAG
*
4238419 CAATGTATCGATACAATT-TATCATGTATCGAGA
1 CAATGTATCGATAC-ATTGTACCATGTATCGAGA
*
4238452 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGTACCATGTATCGAGA
4238485 CAA
1 CAA
4238488 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGTACCATGTATCGAGA
Found at i:4239136 original size:22 final size:22
Alignment explanation
Indices: 4239111--4239183 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
4239101 TTCATTTTTC
4239111 TCCCCCTTAATTAAAGAATTTA
1 TCCCCCTTAATTAAAGAATTTA
* * *
4239133 TCCCCTTTAA-TAAAAAATTTG
1 TCCCCCTTAATTAAAGAATTTA
* * * * *
4239154 TCCCCTTTAATCAAGGCATTTC
1 TCCCCCTTAATTAAAGAATTTA
4239176 TCCCCCTT
1 TCCCCCTT
4239184 TGTCAGATCT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 19 0.46
22 22 0.54
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (22 bp):
TCCCCCTTAATTAAAGAATTTA
Found at i:4239161 original size:21 final size:21
Alignment explanation
Indices: 4239111--4239164 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
4239101 TTCATTTTTC
* *
4239111 TCCCCCTTAATTAAAGAATTTA
1 TCCCCTTTAA-TAAAAAATTTA
*
4239133 TCCCCTTTAATAAAAAATTTG
1 TCCCCTTTAATAAAAAATTTA
4239154 TCCCCTTTAAT
1 TCCCCTTTAAT
4239165 CAAGGCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (21 bp):
TCCCCTTTAATAAAAAATTTA
Found at i:4247267 original size:33 final size:33
Alignment explanation
Indices: 4247223--4247289 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
4247213 GTTATAAGCT
*
4247223 ATGTATCGATACAATT-CATCATGTATCGATACA
1 ATGTATCGATAC-ATTGCACCATGTATCGATACA
* *
4247256 ATGTATTGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
4247289 A
1 A
4247290 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTGCACCATGTATCGATACA
Found at i:4247362 original size:19 final size:20
Alignment explanation
Indices: 4247318--4247371 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
4247308 CTGCCAATCT
**
4247318 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
4247338 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
4247357 CATGTATCGATACAA
1 CATGTATCGATACAA
4247372 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:4247962 original size:35 final size:37
Alignment explanation
Indices: 4247912--4248011 Score: 152
Period size: 35 Copynumber: 2.8 Consensus size: 37
4247902 AAGTTTTCAT
4247912 TTTTCTCCCCCTTAATTAAAGCATTTCTCAAAAAA-A
1 TTTTCTCCCCCTTAATTAAAGCATTTCTCAAAAAATA
* *
4247948 -TTTCTCCCCATTAATTAAAGAATTTCT-AAAAAATA
1 TTTTCTCCCCCTTAATTAAAGCATTTCTCAAAAAATA
*
4247983 TTTTCTCCCCCTTAATTAAAGCAATTCTC
1 TTTTCTCCCCCTTAATTAAAGCATTTCTC
4248012 CCTTTTTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
34 6 0.11
35 26 0.46
36 24 0.43
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (37 bp):
TTTTCTCCCCCTTAATTAAAGCATTTCTCAAAAAATA
Found at i:4253596 original size:36 final size:31
Alignment explanation
Indices: 4253508--4253602 Score: 104
Period size: 36 Copynumber: 2.9 Consensus size: 31
4253498 CCTTACAACA
4253508 CTATC-TTTCAAGGCTAAGATAGAAACC-TCC
1 CTATCTTTTCAAGGCTAAGATAG-AACCTTCC
*
4253538 CTATCTTTTCACGAGCTAAGATAGAACCTTTCTC
1 CTATCTTTTCAAG-GCTAAGATAGAACC-TTC-C
4253572 TCTATCTTTTACAAAGGCTAAGATAGAACCT
1 -CTATCTTTT-C-AAGGCTAAGATAGAACCT
4253603 CACAATCACT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
30 5 0.09
31 10 0.18
32 10 0.18
33 2 0.04
34 1 0.02
35 10 0.18
36 15 0.27
37 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTTCC
Found at i:4254085 original size:32 final size:32
Alignment explanation
Indices: 4254044--4254106 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4254034 ATTCACAATG
4254044 TATCGATACATGAAAAGTGATGAACAGTGATA
1 TATCGATACATGAAAAGTGATGAACAGTGATA
* *
4254076 TATCGATACATGAACAGTGATGAATAGTGAT
1 TATCGATACATGAAAAGTGATGAACAGTGAT
4254107 GAACAGTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (32 bp):
TATCGATACATGAAAAGTGATGAACAGTGATA
Found at i:4254104 original size:10 final size:10
Alignment explanation
Indices: 4254085--4254115 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4254075 ATATCGATAC
4254085 ATGAACAGTG
1 ATGAACAGTG
*
4254095 ATGAATAGTG
1 ATGAACAGTG
4254105 ATGAACAGTG
1 ATGAACAGTG
4254115 A
1 A
4254116 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:4254195 original size:30 final size:30
Alignment explanation
Indices: 4254159--4254219 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
4254149 CGCTACAATG
*
4254159 TATCGATACTAAGCAAAATGTATCGATACA
1 TATCGATACTAAACAAAATGTATCGATACA
4254189 TATCGATACTAAACAAAATGTATCGATACA
1 TATCGATACTAAACAAAATGTATCGATACA
4254219 T
1 T
4254220 CTGGGTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.28
Consensus pattern (30 bp):
TATCGATACTAAACAAAATGTATCGATACA
Found at i:4257349 original size:13 final size:13
Alignment explanation
Indices: 4257331--4257356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4257321 ACAATTCATC
4257331 ATGTATCGATACA
1 ATGTATCGATACA
4257344 ATGTATCGATACA
1 ATGTATCGATACA
4257357 TTGCACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4257349 original size:33 final size:33
Alignment explanation
Indices: 4257311--4257377 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
4257301 GTTACAAGCT
*
4257311 ATGTATCGATACAATT-CATCATGTATCGATACA
1 ATGTATCGATAC-ATTGCACCATGTATCGATACA
*
4257344 ATGTATCGATACATTGCACCATGTGTCGATACA
1 ATGTATCGATACATTGCACCATGTATCGATACA
4257377 A
1 A
4257378 ACAGTGGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACATTGCACCATGTATCGATACA
Found at i:4257450 original size:19 final size:20
Alignment explanation
Indices: 4257406--4257460 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4257396 CTGCCAATCT
**
4257406 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
4257426 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
4257445 CATGTATCGATACAAT
1 CATGTATCGATACAAT
4257461 GTATCGATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:4257464 original size:13 final size:13
Alignment explanation
Indices: 4257446--4257472 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4257436 TACAATTAAC
4257446 ATGTATCGATACA
1 ATGTATCGATACA
4257459 ATGTATCGATACA
1 ATGTATCGATACA
4257472 A
1 A
4257473 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4259664 original size:19 final size:20
Alignment explanation
Indices: 4259619--4259668 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4259609 TTACAAGCCA
*
4259619 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
4259639 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
4259659 -TGTATCGATA
1 ATGTATCGATA
4259669 AAAACAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:4265977 original size:32 final size:32
Alignment explanation
Indices: 4265941--4266001 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
4265931 CATGTGTGAA
*
4265941 ATGTATG-GCCATTTTTATGACATAACAAACAC
1 ATGTATGAGCCATTCTTATG-CATAACAAACAC
* *
4265973 ATGTATGAGGCATTCTTATGCTTAACAAA
1 ATGTATGAGCCATTCTTATGCATAACAAA
4266002 GAAATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 15 0.60
33 10 0.40
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (32 bp):
ATGTATGAGCCATTCTTATGCATAACAAACAC
Found at i:4268441 original size:33 final size:32
Alignment explanation
Indices: 4268397--4268460 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
4268387 TACAAGCCAA
* *
4268397 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCAATACATCTTGGG-TGTATCGATACAT
*
4268430 TGTATCAATACATCTTGTGTGTATCGATACA
1 TGTATCAATACATCTTGGGTGTATCGATACA
4268461 AACAGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCAATACATCTTGGGTGTATCGATACAT
Found at i:4271935 original size:21 final size:20
Alignment explanation
Indices: 4271909--4271947 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4271899 GTTGGGACCT
4271909 TGTATCAATACATTCTAGAAA
1 TGTATCAATACATT-TAGAAA
*
4271930 TGTATCGATACATTTAGA
1 TGTATCAATACATTTAGA
4271948 CAAAAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCAATACATTTAGAAA
Found at i:4272765 original size:49 final size:49
Alignment explanation
Indices: 4272604--4273266 Score: 487
Period size: 49 Copynumber: 13.8 Consensus size: 49
4272594 CGAAGAATGA
* * * * * *
4272604 CAATGTGCTGATTCATGGCCAGCGACATTAGAATTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* ** * * * *
4272651 TAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGGTGC
* * *** *
4272703 CAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAAGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* * * * *
4272752 CAATGTGCTGATTCAAGGCTAGCAACATTAGACTTGAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
4272804 CAATGTGCTGATTCAAGGCTAGCGACATTAGACTTGAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G--AAGGTGC
* * * * * *
4272856 CAATGTGCTGATTAAAGGCCAACAACGTCGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* *
4272905 CAATATGCTGATTCAAGGCCAACGATATTAGG-C-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAAGATGAAGGTGC
**
4272944 CAATGTGCTGATTCAAGGCCAACGACATT-GATCTTAAAGATGGTGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGA-CTTAAAGATGAAGGTGC
* * * *
4272993 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* *
4273032 CAATGTGCTGATTCAAGGCCAGA-GACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCA-ACGACATTGGACTTAAAGATGAAGGTGC
* * * *
4273080 CAATATGTTGATTTAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* * *
4273129 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGT
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* ** * * *
4273178 CAATATGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGGAGGTGT
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* * * *
4273227 CAATGTGCTGATTCAAGGCCAGCGATATCGGACTTGAAGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGA
4273267 AGATGTCACC
Statistics
Matches: 498, Mismatches: 83, Indels: 68
0.77 0.13 0.10
Matches are distributed among these distances:
37 1 0.00
39 64 0.13
40 2 0.00
43 2 0.00
45 1 0.00
47 28 0.06
48 39 0.08
49 233 0.47
50 9 0.02
52 119 0.24
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
Found at i:4272955 original size:39 final size:39
Alignment explanation
Indices: 4272901--4273052 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 39
4272891 AAAGATAAAG
4272901 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTT
* * *
4272940 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGATCTTAAAGATGGTG
1 GTGCCAATATGCTGATTCAAGGCCAACG--A-T-A--TT--AG--GCTT
* *
4272989 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTT
*
4273028 GTGCCAATGTGCTGATTCAAGGCCA
1 GTGCCAATATGCTGATTCAAGGCCA
4273053 GAGACATTGG
Statistics
Matches: 94, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
39 53 0.56
41 2 0.02
42 1 0.01
43 3 0.03
45 3 0.03
46 1 0.01
47 3 0.03
49 28 0.30
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTT
Found at i:4273001 original size:88 final size:87
Alignment explanation
Indices: 4272852--4273198 Score: 428
Period size: 88 Copynumber: 3.9 Consensus size: 87
4272842 GATGGTTAAG
* * * * *
4272852 GTGCCAATGTGCTGATTAAAGGCCAACAACGTCGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
4272917 TCAAGGCCAACGATATTAGGCTT
66 TCAAGGCCAACGATATT-GGCTT
* **
4272940 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGATCTTAAAGATGGTGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
4273005 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAACGATATT-GGCTT
* *
4273028 GTGCCAATGTGCTGATTCAAGGCCAGA-GACATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGA
1 GTGCCAATGTGCTGATTCAAGGCCA-ACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGA
*
4273091 TTTAAGGCCAACGATATTGGACTTAAAGAT
65 TTCAAGGCCAACGATATTGG-C-T-----T
* *
4273121 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGTCAATATGC
1 ----GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGC
4273186 TGATTCAAGGCCA
62 TGATTCAAGGCCA
4273199 GTGACATTGG
Statistics
Matches: 223, Mismatches: 22, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
86 2 0.01
87 32 0.14
88 120 0.54
89 1 0.00
93 1 0.00
97 42 0.19
98 25 0.11
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAACGATATTGGCTT
Found at i:4273401 original size:33 final size:29
Alignment explanation
Indices: 4273300--4273448 Score: 151
Period size: 28 Copynumber: 5.1 Consensus size: 29
4273290 TTTTGAAGGT
*
4273300 TGCCATT-ATCTTGTGGGCTTTGAAA-AGG
1 TGCCATTGA-CTTGTGGGCTTTGAAAGGGG
* * *
4273328 TTCCACTAACTTGTGGGCTTTGAAAGGGG
1 TGCCATTGACTTGTGGGCTTTGAAAGGGG
*
4273357 TGCCATCGACTTGTGGGCTTTTGAAAGGGGTGG
1 TGCCATTGACTTGTGGGC-TTTGAAA--GG-GG
*
4273390 TGCCATTGACTTGTGGGCTTTGAAA-AGG
1 TGCCATTGACTTGTGGGCTTTGAAAGGGG
* * *
4273418 TGCCACTGACTTGTGGGCTTCGAAAAGGG
1 TGCCATTGACTTGTGGGCTTTGAAAGGGG
4273447 TG
1 TG
4273449 AGGAATGTCT
Statistics
Matches: 102, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
28 46 0.45
29 21 0.21
30 7 0.07
32 9 0.09
33 19 0.19
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (29 bp):
TGCCATTGACTTGTGGGCTTTGAAAGGGG
Found at i:4274165 original size:21 final size:21
Alignment explanation
Indices: 4274103--4274165 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
4274093 AAAGATGAAA
4274103 GTGCCAATGTGCTGATTCAA-
1 GTGCCAATGTGCTGATTCAAG
* ** *
4274123 G-GCCACT-TGAAGATGGTTAAG
1 GTGCCAATGTGCTGAT--TCAAG
4274144 GTGCCAATGTGCTGATTCAAG
1 GTGCCAATGTGCTGATTCAAG
4274165 G
1 G
4274166 CCAGCGACGT
Statistics
Matches: 30, Mismatches: 8, Indels: 9
0.64 0.17 0.19
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 4 0.13
21 6 0.20
22 5 0.17
23 5 0.17
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (21 bp):
GTGCCAATGTGCTGATTCAAG
Found at i:4274212 original size:52 final size:52
Alignment explanation
Indices: 4274130--4274269 Score: 178
Period size: 52 Copynumber: 2.8 Consensus size: 52
4274120 CAAGGCCACT
* * *
4274130 TGAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACGTTAGACA
1 TGAAGATGGTTAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATCAGACA
* * * * *
4274182 TGAAGATGGTTAAGGTGCCAATATGTTGATTAAAGGCCAGCGACATCGGTCT
1 TGAAGATGGTTAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATCAGACA
*
4274234 TAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCA
1 TGAAGATGGTTAAGGTGCCAATATGCTGATTCAAGGCCA
4274270 ACAATATTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 26 0.34
51 1 0.01
52 50 0.65
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (52 bp):
TGAAGATGGTTAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATCAGACA
Found at i:4274267 original size:49 final size:49
Alignment explanation
Indices: 4274141--4274562 Score: 431
Period size: 49 Copynumber: 8.8 Consensus size: 49
4274131 GAAGATGGTT
* * * * * *
4274141 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACGTTAGACATGAAGATGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-G
* * *
4274191 TTAAGGTGCCAATATGTTGATTAAAGGCCAGCGACATCGGTCTTAAAGATG
1 --AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
* * * *
4274242 AAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
* *
4274284 ---GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
** * *
4274330 GTGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
* * * *
4274378 AAGGTGCTAATATGCTGATTCAAGG-CTGACGATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGATG
* *
4274427 AAGGTGCCAATATGTTGATTCAAGG-CTGACGACATTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGATG
* *
4274476 AAGGTGCCAATATGTTGATTCAAGG-CTGACGACATTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGATG
* *
4274525 AAGGTGTCAATATGCTGATTCAAGGCCAGTGACATTGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
4274563 AGGTGTCAAT
Statistics
Matches: 317, Mismatches: 40, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
39 31 0.10
40 1 0.00
43 1 0.00
45 1 0.00
47 2 0.01
48 40 0.13
49 199 0.63
50 2 0.01
51 1 0.00
52 39 0.12
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
Found at i:4274345 original size:88 final size:88
Alignment explanation
Indices: 4274196--4274367 Score: 263
Period size: 88 Copynumber: 2.0 Consensus size: 88
4274186 GATGGTTAAG
* *
4274196 GTGCCAATATGTTGATTAAAGGCCAGCGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTAAAGGCCAGCGACATCGATCTTAAAGATGAAGGTGCCAATATGCTGAT
4274261 TCAAGGCCAACAATATTGGGCTT
66 TCAAGGCCAACAATATTGGGCTT
* * * **
4274284 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGATCTTAAAGATGGTGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTAAAGGCCAGCGACATCGATCTTAAAGATGAAGGTGCCAATATGCTGAT
* *
4274349 TCAAGGCCAGCGATATTGG
66 TCAAGGCCAACAATATTGG
4274368 TCTTAAAGAC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (88 bp):
GTGCCAATATGCTGATTAAAGGCCAGCGACATCGATCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAACAATATTGGGCTT
Found at i:4274559 original size:98 final size:97
Alignment explanation
Indices: 4274284--4274562 Score: 382
Period size: 97 Copynumber: 2.9 Consensus size: 97
4274274 TATTGGGCTT
* * * **
4274284 GTGCCAATGTGCTGATTCAAGGC-CAGCGACATTGATCTTAAAGATGGTGGTGCCAATATGCTGA
1 GTGCCAATATGCTGATTCAAGGCTGA-CGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGA
*
4274348 TTCAAGGCCAGCGATATTGGTCTTAAAGACAAG
65 TTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
4274381 GTGCTAATATGCTGATTCAAGGCTGACGATATTGGACTTAAAGATGAAGGTGCCAATATGTTGAT
1 GTGCCAATATGCTGATTCAAGGCTGACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
* *
4274446 TCAAGG-CTGACGACATTGGTCTTAAAGATGAAG
66 TCAAGGCCAG-CGACATTGGTCTTAAAGA-CAAG
* *
4274479 GTGCCAATATGTTGATTCAAGGCTGACGACATTGGTCTTAAAGATGAAGGTGTCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCTGACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
4274544 TCAAGGCCAGTGACATTGG
66 TCAAGGCCAGCGACATTGG
4274563 AGGTGTCAAT
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
96 2 0.01
97 77 0.49
98 77 0.49
99 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (97 bp):
GTGCCAATATGCTGATTCAAGGCTGACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGACATTGGTCTTAAAGACAAG
Found at i:4274671 original size:28 final size:28
Alignment explanation
Indices: 4274623--4274784 Score: 168
Period size: 28 Copynumber: 5.6 Consensus size: 28
4274613 CACCAACTTG
* *
4274623 TGTGGGCTTTTG--AAGGTTGCCATTGTCT
1 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
*
4274651 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
4274679 TATGGGCTTTGAAAGGGGTGCCA-TGACT
1 TGTGGGCTTTGAAA-AGGTGCCACTGACT
*
4274707 TGTGGGCTTTTAAAAGGGGTGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-----GGTGCCACTGACT
*
4274740 TGTGGGCTTCGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
4274768 TGTGGGCTTTGAAAAGG
1 TGTGGGCTTTGAAAAGG
4274785 GTGAGGAATG
Statistics
Matches: 113, Mismatches: 12, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
27 4 0.04
28 73 0.65
29 11 0.10
32 7 0.06
33 18 0.16
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:4274767 original size:61 final size:61
Alignment explanation
Indices: 4274666--4274785 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
4274656 GCTTTGAAAA
* * *
4274666 GGTGCCACTAACTTATGGGCTTTGAAAGGGGTGCCATGACTTGTGGGCTTTTAAAAGGGGT
1 GGTGCCACTAACTTATGGGCTTCGAAAGAGGTGCCATGACTTGTGGGCTTTGAAAAGGGGT
* *
4274727 GGTGCCACTGACTTGTGGGCTTCGAAA-AGGTGCCACTGACTTGTGGGCTTTGAAAAGGG
1 GGTGCCACTAACTTATGGGCTTCGAAAGAGGTGCCA-TGACTTGTGGGCTTTGAAAAGGG
4274786 TGAGGAATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 7 0.13
61 46 0.87
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.28
Consensus pattern (61 bp):
GGTGCCACTAACTTATGGGCTTCGAAAGAGGTGCCATGACTTGTGGGCTTTGAAAAGGGGT
Found at i:4277974 original size:10 final size:10
Alignment explanation
Indices: 4277959--4278004 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
4277949 CCGGACCCTT
4277959 TTTTTTGTTG
1 TTTTTTGTTG
*
4277969 TTTTTTTTTG
1 TTTTTTGTTG
4277979 TCTTTTT-TT-
1 T-TTTTTGTTG
4277988 TTGTTTTGTTG
1 TT-TTTTGTTG
4277999 TTTTTT
1 TTTTTT
4278005 TTTTGCGGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
8 1 0.03
9 5 0.16
10 18 0.58
11 7 0.23
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (10 bp):
TTTTTTGTTG
Found at i:4277994 original size:20 final size:19
Alignment explanation
Indices: 4277957--4278009 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
4277947 ATCCGGACCC
*
4277957 TTTTTTTTGTTGTTTTTTTTTG
1 TTTTTTTT-TTG--TTTTGTTG
4277979 TCTTTTTTTTTGTTTTGTTG
1 T-TTTTTTTTTGTTTTGTTG
4277999 TTTTTTTTTTG
1 TTTTTTTTTTG
4278010 CGGAGGATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 8 0.28
22 4 0.14
23 7 0.24
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTGTTTTGTTG
Found at i:4279404 original size:14 final size:13
Alignment explanation
Indices: 4279385--4279440 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 13
4279375 GTCTGGAGCC
4279385 TTTTTGTTGTTGTT
1 TTTTTGTT-TTGTT
4279399 TTTTTGTTGTTGTT
1 TTTTTGTT-TTGTT
*
4279413 GTTTTTGTCTTTTTT
1 -TTTTTGT-TTTGTT
4279428 TTTTTGTTTTGTT
1 TTTTTGTTTTGTT
4279441 GTTATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
13 5 0.13
14 21 0.55
15 11 0.29
16 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (13 bp):
TTTTTGTTTTGTT
Found at i:4279410 original size:17 final size:17
Alignment explanation
Indices: 4279388--4279449 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
4279378 TGGAGCCTTT
4279388 TTGTTGTTGTTTTTTTG
1 TTGTTGTTGTTTTTTTG
4279405 TTGTTGTTG--TTTTTG
1 TTGTTGTTGTTTTTTTG
*
4279420 -TCTT-TT-TTTTTTTG
1 TTGTTGTTGTTTTTTTG
4279434 TT-TTGTTGTTATTTTT
1 TTGTTGTTGTT-TTTTT
4279450 TGCGGAGGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 2 0.05
14 11 0.29
15 9 0.24
16 2 0.05
17 14 0.37
ACGTcount: A:0.02, C:0.02, G:0.18, T:0.79
Consensus pattern (17 bp):
TTGTTGTTGTTTTTTTG
Found at i:4284871 original size:13 final size:13
Alignment explanation
Indices: 4284853--4284878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4284843 ACAAAGGTCC
4284853 ATGTATCGATACA
1 ATGTATCGATACA
4284866 ATGTATCGATACA
1 ATGTATCGATACA
4284879 TCGAGTGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4286413 original size:18 final size:17
Alignment explanation
Indices: 4286392--4286433 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
4286382 GTTGTTATTG
4286392 TTTTTTTTTCTCTCTTTT
1 TTTTTTTTTCT-TCTTTT
*
4286410 TTTTTGTTTTGTTCTTTT
1 TTTTT-TTTTCTTCTTTT
4286428 TTTTTT
1 TTTTTT
4286434 GTGGAGGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 16 0.73
19 5 0.23
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTCTTCTTTT
Found at i:4291754 original size:18 final size:18
Alignment explanation
Indices: 4291731--4291766 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4291721 CTAAAGTTAT
4291731 TTAGTATTTTTCCCTTAA
1 TTAGTATTTTTCCCTTAA
4291749 TTAGTATTTTTCCCTTAA
1 TTAGTATTTTTCCCTTAA
4291767 AGTGTGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.56
Consensus pattern (18 bp):
TTAGTATTTTTCCCTTAA
Found at i:4293506 original size:51 final size:51
Alignment explanation
Indices: 4293429--4293542 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 51
4293419 AAAGAAAATG
* * *
4293429 TATCGATATATTCTGGGTTTTTGACGCAAGTGTATCGATACATTATTC-ATCA
1 TATCGATACA-TCTAGGTTTTTGACGCAAATGTATCGATACATTATTCAAT-A
* *
4293481 TATCGATACATCTAGGTTTTTGACGCAAATGTATTGATACATTCTTCAATA
1 TATCGATACATCTAGGTTTTTGACGCAAATGTATCGATACATTATTCAATA
*
4293532 TATTGATACAT
1 TATCGATACAT
4293543 GCAGGCAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 44 0.80
52 11 0.20
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (51 bp):
TATCGATACATCTAGGTTTTTGACGCAAATGTATCGATACATTATTCAATA
Found at i:4294588 original size:19 final size:19
Alignment explanation
Indices: 4294564--4294619 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
4294554 GTATCGATAT
**
4294564 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATGACA
4294583 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
4294603 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
4294620 GATTGGTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:4294607 original size:20 final size:20
Alignment explanation
Indices: 4294564--4294618 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4294554 GTATCGATAT
**
4294564 ATTGTATCGATACAT-GTTA
1 ATTGTATCGATACATGGACA
4294583 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
4294603 ATTGTATCGATACATG
1 ATTGTATCGATACATG
4294619 AGATTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:4294675 original size:20 final size:20
Alignment explanation
Indices: 4294650--4294700 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4294640 CCACTATTTA
*
4294650 TATCGATACATGGT-ACAATG
1 TATCGATACATGATGA-AATG
*
4294670 TATCGATACATGATGAATTG
1 TATCGATACATGATGAAATG
4294690 TATCGATACAT
1 TATCGATACAT
4294701 AGCTTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
TATCGATACATGATGAAATG
Found at i:4302819 original size:36 final size:37
Alignment explanation
Indices: 4302761--4302841 Score: 128
Period size: 36 Copynumber: 2.2 Consensus size: 37
4302751 TTACAAAAAA
* * *
4302761 GGGAGAAATTTTTTTTTTAGAAATTCTTTAATTAAGG
1 GGGAGAAATTGTTTTTTGAGAAATGCTTTAATTAAGG
4302798 GGGAGAAA-TGTTTTTTGAGAAATGCTTTAATTAAGG
1 GGGAGAAATTGTTTTTTGAGAAATGCTTTAATTAAGG
4302834 GGGAGAAA
1 GGGAGAAA
4302842 AACGAAAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 33 0.80
37 8 0.20
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (37 bp):
GGGAGAAATTGTTTTTTGAGAAATGCTTTAATTAAGG
Found at i:4303409 original size:19 final size:19
Alignment explanation
Indices: 4303385--4303439 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
4303375 ACATTATGCT
**
4303385 TTGTATCGATACATGTTAA
1 TTGTATCGATACATGACAA
*
4303404 TTGTATTGATACATGGACAA
1 TTGTATCGATACAT-GACAA
4303424 TTGTATCGATACATGA
1 TTGTATCGATACATGA
4303440 GATTGGCAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:4303493 original size:20 final size:20
Alignment explanation
Indices: 4303468--4303520 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
4303458 TACCACTGTT
4303468 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
4303488 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
4303508 TGTATCGATACAT
1 TGTATCGATACAT
4303521 TGTATCGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGGTACAA
Found at i:4303524 original size:13 final size:13
Alignment explanation
Indices: 4303503--4303533 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4303493 CGATACATGG
*
4303503 TACAATGTATCGA
1 TACATTGTATCGA
4303516 TACATTGTATCGA
1 TACATTGTATCGA
4303529 TACAT
1 TACAT
4303534 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:4303530 original size:33 final size:33
Alignment explanation
Indices: 4303483--4303553 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
4303473 CGATACATGG
* *
4303483 TACAATGTATCGATACATGGT-ACAATGTATCGA
1 TACATTGTATCGATACATGATGA-AATGTATCGA
*
4303516 TACATTGTATCGATACATGATGAATTGTATCGA
1 TACATTGTATCGATACATGATGAAATGTATCGA
4303549 TACAT
1 TACAT
4303554 AGCTTGTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACATGATGAAATGTATCGA
Found at i:4313190 original size:20 final size:20
Alignment explanation
Indices: 4313165--4313218 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
4313155 GTTGGGCATA
* * *
4313165 ATGTATCGATACATTTTACT
1 ATGTATCGATACAATGTACC
*
4313185 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTACC
4313205 ATGTATCGATACAA
1 ATGTATCGATACAA
4313219 ATAGTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:4314022 original size:29 final size:29
Alignment explanation
Indices: 4313983--4314040 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4313973 GTTTCAAAAA
4313983 TAATCTCTCCCTTTTTCAAATTCATTTTC
1 TAATCTCTCCCTTTTTCAAATTCATTTTC
* *
4314012 TAATCTTTCCCTTTTTCAAATTTATTTTC
1 TAATCTCTCCCTTTTTCAAATTCATTTTC
4314041 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (29 bp):
TAATCTCTCCCTTTTTCAAATTCATTTTC
Found at i:4316016 original size:16 final size:17
Alignment explanation
Indices: 4315995--4316026 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4315985 CTAAATTCAA
4315995 ATTTAA-AACATAATTC
1 ATTTAACAACATAATTC
4316011 ATTTAACAACATAATT
1 ATTTAACAACATAATT
4316027 AAACATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTAACAACATAATTC
Found at i:4319320 original size:10 final size:11
Alignment explanation
Indices: 4319298--4319326 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4319288 GAAGTTTTTA
4319298 TGAAAAATGTT
1 TGAAAAATGTT
4319309 TGAAAAAT-TT
1 TGAAAAATGTT
4319319 TGAAAAAT
1 TGAAAAAT
4319327 AATATAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:4320586 original size:13 final size:13
Alignment explanation
Indices: 4320568--4320593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4320558 CAATTTTTTG
4320568 TGTATCGATACAT
1 TGTATCGATACAT
4320581 TGTATCGATACAT
1 TGTATCGATACAT
4320594 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4320658 original size:21 final size:21
Alignment explanation
Indices: 4320632--4320707 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4320622 CTGCCAAGAA
*
4320632 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4320653 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4320673 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4320694 ATGTATCGATACAT
1 ATGTATCGATACAT
4320708 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4320678 original size:20 final size:20
Alignment explanation
Indices: 4320653--4320725 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4320643 CATCTTTTTT
4320653 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4320673 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4320694 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4320714 ATGTATCGATAC
1 ATGTATCGATAC
4320726 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4320689 original size:41 final size:41
Alignment explanation
Indices: 4320632--4320725 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4320622 CTGCCAAGAA
*
4320632 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4320673 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4320714 ATGTATCGATAC
1 ATGTATCGATAC
4320726 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4323182 original size:13 final size:13
Alignment explanation
Indices: 4323164--4323202 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4323154 ATAATCACCC
*
4323164 TGTATCGATACAG
1 TGTATCGATACAA
4323177 TGTATCGATACAA
1 TGTATCGATACAA
4323190 TGTATCGATACAA
1 TGTATCGATACAA
4323203 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4323213 original size:20 final size:20
Alignment explanation
Indices: 4323188--4323266 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
4323178 GTATCGATAC
4323188 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
4323208 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
4323233 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
4323253 CATGTATCGATACA
1 AATGTATCGATACA
4323267 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:4325301 original size:15 final size:15
Alignment explanation
Indices: 4325281--4325311 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4325271 ATTTCGTTTG
*
4325281 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4325296 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4325311 G
1 G
4325312 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4329388 original size:13 final size:13
Alignment explanation
Indices: 4329370--4329395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4329360 CAATTTTTTG
4329370 TGTATCGATACAT
1 TGTATCGATACAT
4329383 TGTATCGATACAT
1 TGTATCGATACAT
4329396 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4329460 original size:21 final size:21
Alignment explanation
Indices: 4329434--4329509 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4329424 CTGCCAAGAA
*
4329434 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4329455 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4329475 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4329496 ATGTATCGATACAT
1 ATGTATCGATACAT
4329510 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4329480 original size:20 final size:20
Alignment explanation
Indices: 4329455--4329527 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4329445 CATCTTTTTT
4329455 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4329475 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4329496 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4329516 ATGTATCGATAC
1 ATGTATCGATAC
4329528 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4329491 original size:41 final size:41
Alignment explanation
Indices: 4329434--4329527 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4329424 CTGCCAAGAA
*
4329434 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4329475 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4329516 ATGTATCGATAC
1 ATGTATCGATAC
4329528 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4331028 original size:20 final size:20
Alignment explanation
Indices: 4331003--4331079 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
4330993 GCAAAAAGAC
4331003 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
4331023 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
4331043 TA-CATGTATTGATACATTGA
1 -AGAATGTATCGATACATTGA
*
4331063 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
4331080 CTGGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:4331036 original size:51 final size:49
Alignment explanation
Indices: 4330974--4331133 Score: 144
Period size: 51 Copynumber: 3.4 Consensus size: 49
4330964 TACATTATTC
4330974 AATGTATCGATACATCTGGGCAAAAAGACAGAATGTATCGATACATTGAA
1 AATGTATCGATACATCTGGGCAAAAAGACAG-ATGTATCGATACATTGAA
* *
4331024 GAATGTATCGATACAT-T---C----ATAC--ATGTATTGATACATTGAAA
1 -AATGTATCGATACATCTGGGCAAAAAGACAGATGTATCGATACATTG-AA
* * *
4331065 AATGTATCGATACATCTGGGTAAAAAGATAGCATGTATCGATAC-CTGTATA
1 AATGTATCGATACATCTGGGCAAAAAGACAG-ATGTATCGATACATTG-A-A
4331116 AATGTATCGATACATCTG
1 AATGTATCGATACATCTG
4331134 TCTTATCGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
40 30 0.34
41 3 0.03
43 3 0.03
47 1 0.01
48 2 0.02
50 4 0.05
51 45 0.51
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (49 bp):
AATGTATCGATACATCTGGGCAAAAAGACAGATGTATCGATACATTGAA
Found at i:4331178 original size:88 final size:89
Alignment explanation
Indices: 4330974--4331218 Score: 318
Period size: 88 Copynumber: 2.7 Consensus size: 89
4330964 TACATTATTC
*
4330974 AATGTATCGATACATCTGGGCAAAAAGACAGAATGTATCGATACATTGA-AGAATGTATCGATAC
1 AATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATT-ATA-AATGTATCGATAC
*
4331038 ATTCATACATGTATTGATACATTGAAA
64 A-TCATACATGTATCGATACATTGAAA
* * *
4331065 AATGTATCGATACATCTGGGTAAAAAGATAGCATGTATCGATACCTGTATAAATGTATCGATACA
1 AATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT-TATAAATGTATCGATACA
*
4331130 TC-TGTC-T-TATCGATACATTGAAA
65 TCAT-ACATGTATCGATACATTGAAA
* * * *
4331153 AATGTTTTGATACATCTTGGTAAAAAGACAGAATGTATCGATACATTTATACATGTATCGATACA
1 AATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACA-TTATAAATGTATCGATACA
4331218 T
65 T
4331219 TGAAAAATGT
Statistics
Matches: 137, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
88 72 0.53
89 3 0.02
90 3 0.02
91 57 0.42
92 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (89 bp):
AATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTATAAATGTATCGATACAT
CATACATGTATCGATACATTGAAA
Found at i:4331228 original size:20 final size:20
Alignment explanation
Indices: 4331184--4331228 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4331174 AAAAAGACAG
* *
4331184 AATGTATCGATACATTTATA
1 AATGTATCGATACATTGAAA
*
4331204 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
4331224 AATGT
1 AATGT
4331229 GACTTTTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:4332407 original size:85 final size:83
Alignment explanation
Indices: 4332199--4332525 Score: 387
Period size: 78 Copynumber: 3.9 Consensus size: 83
4332189 TGCCACAGAA
* * * * * *
4332199 TTGTAGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAAGGGGTACCACTGACTTTTGTGGG
1 TTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAAC--TTGTGGG
*
4332264 CTTTGAAAGGGTATGCCACTGAC
64 CTTTG-AAGAG-ATGCCA-TGAC
* * * * *
4332287 TTGTGGGCTTTGAAAGGGTGCCATTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGTCT
1 TTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTGTGGGC-
4332352 TTTGAAGAGATGCCATTGAC
65 TTTGAAGAGATGCCA-TGAC
* *
4332372 TTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGAGCT
1 TTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
4332437 TTGAA-AGGATGCC---AC
66 TTGAAGA-GATGCCATGAC
* * *
4332452 --GTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACCTGTGGGCT
1 TTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
4332515 TTGAAGAGATG
66 TTGAAGAGATG
4332526 AATGTTCTAG
Statistics
Matches: 215, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
78 67 0.31
79 1 0.00
80 2 0.01
83 1 0.00
84 12 0.06
85 67 0.31
86 11 0.05
87 4 0.02
88 50 0.23
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (83 bp):
TTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
TTGAAGAGATGCCATGAC
Found at i:4332488 original size:50 final size:51
Alignment explanation
Indices: 4332247--4332502 Score: 235
Period size: 50 Copynumber: 4.6 Consensus size: 51
4332237 TGAAGGGGTA
* *
4332247 CCACTGACTTTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTGAC--TTGTGGGCTTTGAAA-GG-ATG-C-C--AC-TGTGGGCTTTGAAAAGATG
* * *
4332307 CCATTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGTCTTTTGAAGAGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTG---TG-GG-C-TTTGAAAAGATG
* *
4332364 CCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG-C-C--AC-TGTGGGCTTTGAAAAGATG
* *
4332420 CCACTAACTTGTGAGCTTTGAAAGGATGCCAC-GTGGGCTTTGAAAAGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTGTGGGCTTTGAAAAGATG
*
4332470 CCACTGACTTATGGGCTTTGAAAGGATGCCACT
1 CCACTGACTTGTGGGCTTTGAAAGGATGCCACT
4332503 AACCTGTGGG
Statistics
Matches: 169, Mismatches: 15, Indels: 33
0.78 0.07 0.15
Matches are distributed among these distances:
50 46 0.27
51 2 0.01
52 4 0.02
54 4 0.02
55 4 0.02
56 39 0.23
57 39 0.23
58 17 0.10
59 3 0.02
60 7 0.04
61 2 0.01
62 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (51 bp):
CCACTGACTTGTGGGCTTTGAAAGGATGCCACTGTGGGCTTTGAAAAGATG
Found at i:4332525 original size:28 final size:28
Alignment explanation
Indices: 4332094--4332519 Score: 411
Period size: 28 Copynumber: 15.1 Consensus size: 28
4332084 TTTTTAAAAA
*
4332094 AAAGG-TGCCACTAACTTGTGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
* * *
4332123 AAAAGAGTTGCCACCGACTTTTGTAGGCTTTG
1 -AAAG-GATGCCACTGAC--TTGTGGGCTTTG
* * *
4332155 AAAGGGA-GCCACCGACTTATAGGCTTTG
1 AAA-GGATGCCACTGACTTGTGGGCTTTG
* * * *
4332183 AAAGGGTGCCACAGAATTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
4332211 AAAGGGTGCCACTAACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
4332239 AAGGGGTACCACTGACTTTTGTGGGCTTTG
1 AAAGGATGCCACTGAC--TTGTGGGCTTTG
4332269 AAAGGGTATGCCACTGACTTGTGGGCTTTG
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTG
* * *
4332299 AAAGGGTGCCATTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
4332327 AAAGGATGCCACTGACTTGTGGTCTTTTG
1 AAAGGATGCCACTGACTTGTGGGC-TTTG
*
4332356 -AAGAGATGCCATTGACTTGTGGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
*
4332384 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
4332412 AAAGGATGCCACTAACTTGTGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
4332440 AAAGGATG-C-C--AC--GTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
4332462 AAAAGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
4332490 AAAGGATGCCACTAACCTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
4332518 AA
1 AA
4332520 GAGATGAATG
Statistics
Matches: 338, Mismatches: 40, Indels: 38
0.81 0.10 0.09
Matches are distributed among these distances:
22 16 0.05
23 1 0.00
24 3 0.01
26 3 0.01
27 3 0.01
28 207 0.61
29 27 0.08
30 41 0.12
31 7 0.02
32 28 0.08
33 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:4333790 original size:18 final size:16
Alignment explanation
Indices: 4333769--4333830 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 16
4333759 ATCTGGACCC
* *
4333769 TTTTTTTGTTTGTTTG
1 TTTTTTTTTTTTTTTG
4333785 TTTTTTTATTTTTTTTGG
1 TTTTTTT-TTTTTTTT-G
4333803 TTTTTTTCTATTTTTTTG
1 TTTTTTT-T-TTTTTTTG
4333821 TTTTTTTTTT
1 TTTTTTTTTT
4333831 GGTACGAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.22
17 7 0.17
18 17 0.43
19 7 0.17
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:4333796 original size:8 final size:8
Alignment explanation
Indices: 4333769--4333827 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
4333759 ATCTGGACCC
4333769 TTTTTTTG
1 TTTTTTTG
*
4333777 TTTGTTTG
1 TTTTTTTG
*
4333785 TTTTTTTAT
1 TTTTTTT-G
4333794 TTTTTTTGG
1 TTTTTTT-G
*
4333803 TTTTTTTCTA
1 -TTTTTT-TG
4333813 TTTTTTTG
1 TTTTTTTG
4333821 TTTTTTT
1 TTTTTTT
4333828 TTTGGTACGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 21 0.51
9 13 0.32
10 6 0.15
11 1 0.02
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:4333807 original size:19 final size:17
Alignment explanation
Indices: 4333769--4333828 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 17
4333759 ATCTGGACCC
* *
4333769 TTTTTTTGTTTGTTTG-
1 TTTTTTTATTTTTTTGT
4333785 TTTTTTTATTTTTTTTGGT
1 TTTTTTTA-TTTTTTT-GT
4333804 TTTTTTCTATTTTTTTGT
1 TTTTTT-TATTTTTTTGT
4333822 TTTTTTT
1 TTTTTTT
4333829 TTGGTACGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.18
17 7 0.18
18 9 0.24
19 13 0.34
20 2 0.05
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.85
Consensus pattern (17 bp):
TTTTTTTATTTTTTTGT
Found at i:4347716 original size:20 final size:19
Alignment explanation
Indices: 4347691--4347765 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
4347681 TTTTAACTAG
4347691 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
* *
4347711 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGA-AA
*
4347731 ATGTATCGATACATCGAAAA
1 ATGTATCGATACATTG-AAA
4347751 ATGTATCGATACATT
1 ATGTATCGATACATT
4347766 TGGGTAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 45 0.96
21 2 0.04
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:4347812 original size:20 final size:20
Alignment explanation
Indices: 4347784--4347835 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
4347774 AAGATAGGAA
* * *
4347784 GTATTGATACATTCATACAT
1 GTATCGATACATTCAAAAAT
* *
4347804 GTATCGATACTTTGAAAAAT
1 GTATCGATACATTCAAAAAT
4347824 GTATCGATACAT
1 GTATCGATACAT
4347836 CTGGGTAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTCAAAAAT
Found at i:4347834 original size:71 final size:71
Alignment explanation
Indices: 4347708--4347896 Score: 299
Period size: 71 Copynumber: 2.7 Consensus size: 71
4347698 GATACATTGA
* *
4347708 AGAATGTATCGATACATTCATACATGTATCGATACATCGAAAAATGTATCGATACATTTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
*
4347773 AAAGAT
66 AAAGAC
* *
4347779 AGGAA-GTATTGATACATTCATACATGTATCGATACTTTGAAAAATGTATCGATACATCTGGGTA
1 A-GAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTA
4347843 AAAAGAC
65 AAAAGAC
* *
4347850 AGAATGTATCGATACATTCATACTTGTATCAATACATTGAAAAATGT
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGT
4347897 GACTTTTCCA
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
70 3 0.03
71 101 0.94
72 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (71 bp):
AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
AAAGAC
Found at i:4350791 original size:20 final size:20
Alignment explanation
Indices: 4350749--4350802 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
4350739 TTTTACCCAG
* * *
4350749 ATGTATCGATACGTTTTTCA
1 ATGTATCGATACATGTATCA
*
4350769 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
*
4350789 ATGTATCAATACAT
1 ATGTATCGATACAT
4350803 TCTGTCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:4350837 original size:71 final size:71
Alignment explanation
Indices: 4350717--4350853 Score: 204
Period size: 71 Copynumber: 1.9 Consensus size: 71
4350707 TTTTTATCCA
* *
4350717 AATGTATCGATACATTCTATTTTTTTACCCAGATGTATCGATACGTTTTTCAATGTATCGATACA
1 AATGTATCAATACATTCTATTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
4350782 TGTATG
66 TGTATG
* ** *
4350788 AATGTATCAATACATTCTGTCTTTTTT-CTTAGATGTATCGATATATTTTTCAATGTATCGATAC
1 AATGTATCAATACATTCTAT-TTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATAC
4350852 AT
65 AT
4350854 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 53 0.90
72 6 0.10
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (71 bp):
AATGTATCAATACATTCTATTTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACA
TGTATG
Found at i:4356738 original size:154 final size:154
Alignment explanation
Indices: 4356332--4357258 Score: 953
Period size: 154 Copynumber: 6.0 Consensus size: 154
4356322 TAGATCTGGC
* *
4356332 GACAACCTA-GAGTTGGTTTTAAAAAATTACT-AAAATACC-CCTAA-GGATACCTTCGACGTAG
1 GACAACCTAGGAGTTGGTTTGAAAAAATTA-TGAAAATACCTTC-AAGGGATACCTTCGACGTA-
* * * * * * *
4356393 A-ACTACCTGATACCCCTAAACGACTTAAAAAGGATATTGATTGGGTGAACCTGTTCTAAATACC
63 ATAGTACCCGATACCCCTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACC
*
4356457 CACCTTTGGCCTAAAAGCGAACCCAGT
128 CACCTTTGGCATAAAAGCGAACCCAGT
* * * * *
4356484 GAGAACTTAGGAGTTGG-TTCAAAAAAGTATGAAAATACCTTC-AGAGGAGACCTTCGACGTAAT
1 GACAACCTAGGAGTTGGTTTGAAAAAATTATGAAAATACCTTCAAG-GGATACCTTCGACGTAAT
* ** * *
4356547 AGTACCCAATACCTTTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTGTTCTAAATACCCA
65 AGTACCCGATACCCCTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCA
* *
4356612 CCTTTGGCCTAAAAGTGAACCCAGT
130 CCTTTGGCATAAAAGCGAACCCAGT
* * *
4356637 GACAACTTAGGAGTTGGTTTGAAAAAATTATGAAAATACCCTCAAGGGAGACCTTCGACGTAATA
1 GACAACCTAGGAGTTGGTTTGAAAAAATTATGAAAATACCTTCAAGGGATACCTTCGACGTAATA
* ** * ** *
4356702 GTACCTGATACCTTTAAAGGACTTAAAAATGATATGGATGTAGTGAACCTATCCTAAATTCCCA-
66 GTACCCGATACCCCTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCAC
* *
4356766 CTTTCGGCATACAAGCGAACCTAGT
131 CTTT-GGCATAAAAGCGAACCCAGT
* * * * ** * * *
4356791 GACAACCTAGGACTCGATTCT-AAAAAATTATAAAAATGTCTTTAGGGGATACCTTCGACGTAAC
1 GACAACCTAGGAGTTGGTT-TGAAAAAATTATGAAAATACCTTCAAGGGATACCTTCGACGTAAT
* * * *
4356855 AGTGCCCGATACCCCTAAAAGACTTAAAAAGGATATGGATGGGGCGAATCTATCCTAAATACCCA
65 AGTACCCGATACCCCTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCA
* *
4356920 -CTTTCGGCATAAAAGTGGACCCAGT
130 CCTTT-GGCATAAAAGCGAACCCAGT
* * * * * ** * * * *
4356945 GACAACCTAAGACTCGATTTTAAAAAATTACAAAAATGTCCGTCGA-TGATACCTTCGACGTAAT
1 GACAACCTAGGAGTTGGTTTGAAAAAATTATGAAAAT-ACCTTCAAGGGATACCTTCGACGTAAT
* * * * **
4357009 AGTGCCCGCTACCCATAAAGGATTTAAAAAGGATATGGATAAGGTGAACCTATCCTAAATACCCA
65 AGTACCCGATACCCCTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCA
** *
4357074 CCTTTGGCATAAAA-ATAGACCCAAT
130 CCTTTGGCATAAAAGCGA-ACCCAGT
* * *
4357099 GACAACCTAGGATTTGGTTTTG-AAAAATTACGAAAATGCCTTCAAGGGATACCTTCGACGTAAT
1 GACAACCTAGGAGTTGG-TTTGAAAAAATTATGAAAATACCTTCAAGGGATACCTTCGACGTAAT
* * * * *
4357163 AATGCCTGATACCTCTAAAGGACTTAAAAAGGATATAGATGGGGTGAACCTATCCTAAATACCCA
65 AGTACCCGATACCCCTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCA
* * *
4357228 CCTTTGGCATCAAAGCAAACCCGGT
130 CCTTTGGCATAAAAGCGAACCCAGT
4357253 GACAAC
1 GACAAC
4357259 GTAAGACTCG
Statistics
Matches: 654, Mismatches: 104, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
151 2 0.00
152 26 0.04
153 130 0.20
154 483 0.74
155 13 0.02
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (154 bp):
GACAACCTAGGAGTTGGTTTGAAAAAATTATGAAAATACCTTCAAGGGATACCTTCGACGTAATA
GTACCCGATACCCCTAAAGGACTTAAAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCAC
CTTTGGCATAAAAGCGAACCCAGT
Found at i:4357257 original size:462 final size:462
Alignment explanation
Indices: 4356376--4357305 Score: 1165
Period size: 462 Copynumber: 2.0 Consensus size: 462
4356366 ATACCCCTAA
* * * * *
4356376 GGATACCTTCGACGTAGAACTACCTGATACCCCTAAACGACTTAAAAAGGATATTGATTGGGTGA
1 GGATACCTTCGACGTAGAACTACCCGATACCCCTAAAAGACTTAAAAAGGATATGGATGGGGCGA
* * * * * * * *
4356441 ACCTGTTCTAAATACCCACCTTTGGCCTAAAAGCGAACCCAGTGAGAACTTAGGAGTTGGTTCAA
66 ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAAGACTCGGTTCAA
** * **
4356506 AAAAGTATGAAAATACCTTCAGAGGAGACCTTCGACGTAATAGTACCCAATACCTTTAAAGGACT
131 AAAAGTACAAAAATACCGTCAGAGGAGACCTTCGACGTAATAGTACCCAATACCCATAAAGGACT
** * * * * *
4356571 TAAAAAGGATATGGATGGGGTGAACCTGTTCTAAATACCCACCTTTGGCCTAAAAGTGAACCCAG
196 TAAAAAGGATATGGATAAGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAATGAACCCAA
* *
4356636 TGACAACTTAGGAGTTGGTTTGAAAAAATTATGAAAATACCCTCAAGGGAGACCTTCGACGTAAT
261 TGACAACCTAGGAGTTGGTTTGAAAAAATTACGAAAATACCCTCAAGGGAGACCTTCGACGTAAT
* * * * * *
4356701 AGTACCTGATACCTTTAAAGGACTTAAAAATGATATGGATGTAGTGAACCTATCCTAAATTCCCA
326 AATACCTGATACCTCTAAAGGACTTAAAAAGGATATAGATGGAGTGAACCTATCCTAAATACCCA
* * * *
4356766 CTTTCGGCATACAAGCGAACCTAGTGACAACCTAGGACTCGATTCTA-AAAAATTATAAAAATGT
391 CTTTCGGCATACAAGCAAACCCAGTGACAACCTAAGACTCGATTCTAGAAAAATTATAAAAATGC
*
4356830 CTTTAGG
456 CCTTAGG
* *
4356837 GGATACCTTCGACGTA-ACAGTGCCCGATACCCCTAAAAGACTTAAAAAGGATATGGATGGGGCG
1 GGATACCTTCGACGTAGA-ACTACCCGATACCCCTAAAAGACTTAAAAAGGATATGGATGGGGCG
* * * *
4356901 AATCTATCCTAAATACCCA-CTTTCGGCATAAAAGTGGACCCAGTGACAACCTAAGACTCGATTT
65 AACCTATCCTAAATACCCACCTTT-GGCATAAAAGCGAACCCAGTGACAACCTAAGACTCG-GTT
* * * * * * **
4356965 TAAAAAATTACAAAAATGTCCGTC-GATGATACCTTCGACGTAATAGTGCCCGCTACCCATAAAG
128 CAAAAAAGTACAAAAAT-ACCGTCAGAGGAGACCTTCGACGTAATAGTACCCAATACCCATAAAG
*
4357029 GATTTAAAAAGGATATGGATAAGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAAT-AGA
192 GACTTAAAAAGGATATGGATAAGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAATGA-A
* * * *
4357093 CCCAATGACAACCTAGGATTTGGTTTTG-AAAAATTACGAAAATGCCTTCAAGGGATACCTTCGA
256 CCCAATGACAACCTAGGAGTTGG-TTTGAAAAAATTACGAAAATACCCTCAAGGGAGACCTTCGA
* *
4357157 CGTAATAATGCCTGATACCTCTAAAGGACTTAAAAAGGATATAGATGGGGTGAACCTATCCTAAA
320 CGTAATAATACCTGATACCTCTAAAGGACTTAAAAAGGATATAGATGGAGTGAACCTATCCTAAA
* * *
4357222 TACCCACCTTT-GGCAT-CAAAGCAAACCCGGTGACAACGTAAGACTCGATTCTAGGAAAATTAT
385 TACCCA-CTTTCGGCATAC-AAGCAAACCCAGTGACAACCTAAGACTCGATTCTAGAAAAATTAT
*
4357285 GAAAATGCCCTTAGG
448 AAAAATGCCCTTAGG
4357300 GGATAC
1 GGATAC
4357306 GCTGGGCGTA
Statistics
Matches: 397, Mismatches: 63, Indels: 16
0.83 0.13 0.03
Matches are distributed among these distances:
460 5 0.01
461 101 0.25
462 253 0.64
463 38 0.10
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (462 bp):
GGATACCTTCGACGTAGAACTACCCGATACCCCTAAAAGACTTAAAAAGGATATGGATGGGGCGA
ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAAGACTCGGTTCAA
AAAAGTACAAAAATACCGTCAGAGGAGACCTTCGACGTAATAGTACCCAATACCCATAAAGGACT
TAAAAAGGATATGGATAAGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAATGAACCCAA
TGACAACCTAGGAGTTGGTTTGAAAAAATTACGAAAATACCCTCAAGGGAGACCTTCGACGTAAT
AATACCTGATACCTCTAAAGGACTTAAAAAGGATATAGATGGAGTGAACCTATCCTAAATACCCA
CTTTCGGCATACAAGCAAACCCAGTGACAACCTAAGACTCGATTCTAGAAAAATTATAAAAATGC
CCTTAGG
Found at i:4359307 original size:12 final size:12
Alignment explanation
Indices: 4359290--4359317 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4359280 TAATTATTAA
4359290 ATGATGTCATGC
1 ATGATGTCATGC
4359302 ATGATGTCATGC
1 ATGATGTCATGC
4359314 ATGA
1 ATGA
4359318 CATCATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (12 bp):
ATGATGTCATGC
Found at i:4359883 original size:166 final size:166
Alignment explanation
Indices: 4359693--4360105 Score: 461
Period size: 165 Copynumber: 2.5 Consensus size: 166
4359683 AATTTCATCC
* * * * *
4359693 AAAAAATCTAAAACTCTTGAAAATGAATTAATTTTTTCAAAATGATTTAATTAAAGATTAAATAA
1 AAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTGAAAATAATTTAATTAAAGATTAAATAA
* * * *
4359758 TGATATTTGATGAATTTTAAAAATTAAAAAC-AAGAAAAATCCCCCCGAAAACATTTAC-AGAGT
66 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCCAAAAAAATTTACGA-ACT
*
4359821 AAAAAAC-TCCATATTTCCAAAAAAAAAG-AATTTCAAGG
130 AAAAAACAACCAT-TTT--AAAAAAAAAGAAATTTCAAGG
* * * * * * *
4359859 AAAGAATCAAAAACTCATGAAAATGAAGGAATTTTATGAAACTAATTTAATGT--TGATCAAATG
1 AAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTGAAAATAATTTAAT-TAAAGATTAAATA
*
4359922 ATAATATTTGAAT-AATTTTAAAAATTAGAAACTAAGAAAAATCCCCCCAAAAAAATTTACGAAC
65 ATAATATTTG-ATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCCAAAAAAATTTACGAAC
* * *
4359986 TAGAAAACAACGATTTTAGAAAAAAAGAAATTTCAAGG
129 TAAAAAACAACCATTTTAAAAAAAAAGAAATTTCAAGG
* *
4360024 AAAAAATTAAAAACTTATGAAAATGAATGAA-TTTTTGAAAACTAATTTAA-TAGGAA-A-TAAA
1 AAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTGAAAA-TAATTTAATTA--AAGATTAAA
4360085 TAATAATATTTGATGAATTTT
63 TAATAATATTTGATGAATTTT
4360106 CAACATTTTA
Statistics
Matches: 205, Mismatches: 30, Indels: 25
0.79 0.12 0.10
Matches are distributed among these distances:
163 1 0.00
164 19 0.09
165 99 0.48
166 81 0.40
167 5 0.02
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (166 bp):
AAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTGAAAATAATTTAATTAAAGATTAAATAA
TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCCAAAAAAATTTACGAACTA
AAAAACAACCATTTTAAAAAAAAAGAAATTTCAAGG
Found at i:4362136 original size:28 final size:28
Alignment explanation
Indices: 4362096--4362164 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
4362086 GGAATAAAGC
*
4362096 CGGGGTTGGAGTATCCCCTCA-GAAGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
4362124 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
4362152 CGAGGTTGGAGTA
1 CGGGGTTGGAGTA
4362165 CCTCAATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:4362211 original size:107 final size:105
Alignment explanation
Indices: 4362017--4362432 Score: 339
Period size: 107 Copynumber: 3.9 Consensus size: 105
4362007 AAAAAAAAAT
* * * * *
4362017 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-
1 CGGGATTGGAGTATCCC--CGAAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATTAGTAT
* * * *
4362081 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAGTAA
64 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTC-GAAATAA
* * *
4362124 CGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTA-CCTCAATTGTGAAAAATTGGTAT
1 CGGGATTGGAGTATCCCCGA--AAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATTAGTAT
* *
4362188 TTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC-CG-ATTAA
64 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGAAATAA
* * * ** * *
4362227 AGGAAAATTGGCGT-T--TTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTA
1 CGG--GATTGGAGTATCCCCGAAAAT--AACGAGG-TTGGAGTATCCCCAATTGT-GAAAAATTA
* *
4362289 GTGTTTTAGCG--ATAAAACCGGAGTTGGAGTATCCCCTCGAAATAA
60 GTATTTTTG-GAAATAAAACCGGAGTTGGAGTATCCCCTCGAAATAA
* * * * * * *
4362334 CGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGT
1 CGGGATTGGAGTATCCCCGA-AAATAACGAGGTTGGAGTATCCCCAATTGTGAA-AAATTAGT-A
* *
4362399 TTTTTGGAAATAAAATCGGAGTTAGAGTATCCCC
63 TTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
4362433 GCTTATAGAA
Statistics
Matches: 245, Mismatches: 42, Indels: 43
0.74 0.13 0.13
Matches are distributed among these distances:
100 4 0.02
102 8 0.03
103 14 0.06
104 30 0.12
105 37 0.15
106 50 0.20
107 75 0.31
108 25 0.10
109 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (105 bp):
CGGGATTGGAGTATCCCCGAAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATTAGTATTT
TTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGAAATAA
Found at i:4362250 original size:52 final size:52
Alignment explanation
Indices: 4362188--4362324 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 52
4362178 AAATTGGTAT
* * *
4362188 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
** *
4362240 TTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGAAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
**
4362292 TTTT-AGCGATAAAACCGGAGTTGGAGTATCCCC
1 TTTTGA-AAATAAAACCGGAGTTGGAGTATCCCC
4362325 TCGAAATAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
51 6 0.08
52 64 0.88
53 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (52 bp):
TTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:4362349 original size:27 final size:27
Alignment explanation
Indices: 4362311--4362378 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
4362301 TAAAACCGGA
4362311 GTTGGAGTATCCCCTCGA-AATAACGGG
1 GTTGGAGTATCCCC-CGAGAATAACGGG
*
4362338 GTTGGAGTAT-CCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCGA-GAATAACGGG
4362365 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
4362379 GATTGTGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 3 0.08
26 3 0.08
27 28 0.76
28 3 0.08
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCGAGAATAACGGG
Found at i:4362489 original size:211 final size:211
Alignment explanation
Indices: 4362089--4362492 Score: 600
Period size: 211 Copynumber: 1.9 Consensus size: 211
4362079 TATTTTGGGA
* * *
4362089 ATAAAGCCGGGGTTGGAGTATCCCCTCAGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
4362154 AGGTTGGAGTACCTCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCC
66 AGGTTGGAGTACCCCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCC
* *
4362219 CCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAA
131 CCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGGATTGGAATATCCCCGATTGTGGAAA
4362284 AATTAGTGTTTTAGCG
196 AATTAGTGTTTTAGCG
*
4362300 ATAAAACCGGAGTTGGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* * *
4362363 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTA-CCCCAATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * * * *
4362428 TCCCCGCTTATA-GAAAATTAGTGTTTTGAAAATAAAATC-GGAGTTGGAATATCCTCGATTGTG
128 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGGA-TTGGAATATCCCCGATTGTG
4362491 GA
192 GA
4362493 GAATTGATAA
Statistics
Matches: 173, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
209 16 0.09
210 42 0.24
211 77 0.45
212 38 0.22
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (211 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTACCCCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCC
CCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGGATTGGAATATCCCCGATTGTGGAAA
AATTAGTGTTTTAGCG
Found at i:4364873 original size:13 final size:13
Alignment explanation
Indices: 4364855--4364880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4364845 ACAAAGATCC
4364855 ATGTATCGATACA
1 ATGTATCGATACA
4364868 ATGTATCGATACA
1 ATGTATCGATACA
4364881 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4364878 original size:33 final size:33
Alignment explanation
Indices: 4364834--4364900 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
4364824 AAAATTTCCA
***
4364834 AATGTAACGATACAAAGATCCATGTATCGATAC
1 AATGTAACGATACAAAGAAAAATGTATCGATAC
* *
4364867 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTAACGATACAAAGAAAAATGTATCGATAC
4364900 A
1 A
4364901 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (33 bp):
AATGTAACGATACAAAGAAAAATGTATCGATAC
Found at i:4364944 original size:19 final size:18
Alignment explanation
Indices: 4364920--4364987 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
4364910 CAGTAGCTAA
4364920 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4364939 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4364954 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4364971 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4364988 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4364960 original size:13 final size:13
Alignment explanation
Indices: 4364942--4364966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4364932 ACAATACTTA
4364942 TGTATCGATACAT
1 TGTATCGATACAT
4364955 TGTATCGATACA
1 TGTATCGATACA
4364967 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4364964 original size:32 final size:32
Alignment explanation
Indices: 4364923--4364985 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4364913 TAGCTAATTA
*
4364923 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4364955 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4364986 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4365857 original size:28 final size:28
Alignment explanation
Indices: 4365826--4365912 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
4365816 TGAGGAGTAA
4365826 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** ** *
4365854 AAAG-GCGTCCTGCTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
4365880 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAA-GTGCCACCAACTCGTGTGGGCTTTG
4365909 AAAG
1 AAAG
4365913 GTGTCCTGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 8 0.20
27 11 0.27
28 14 0.34
29 8 0.20
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:4365901 original size:55 final size:55
Alignment explanation
Indices: 4365806--4366648 Score: 1285
Period size: 55 Copynumber: 15.3 Consensus size: 55
4365796 ATAAAGTGTA
* * * * * * *
4365806 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
4365861 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
4365916 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4365971 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
4366026 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
4366081 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4366136 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
4366191 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
4366246 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4366301 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4366356 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4366411 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
4366466 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
4366521 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
4366576 TCCTGCTCTTTGGGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
4366631 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
4366649 AAAAAGCGGA
Statistics
Matches: 745, Mismatches: 30, Indels: 26
0.93 0.04 0.03
Matches are distributed among these distances:
54 20 0.03
55 707 0.95
56 18 0.02
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:4365970 original size:29 final size:28
Alignment explanation
Indices: 4365880--4366630 Score: 183
Period size: 28 Copynumber: 27.2 Consensus size: 28
4365870 TTGAGGACTG
4365880 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * ** *
4365908 GAAAGGTGTCCTGC-TCTT-TG-GGGAATG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
4365935 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
4365963 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
4365991 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
4366018 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
*
4366046 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * **
4366073 GAAAGGTGTCCTA-C-TCTT-TGAGGACTGG
1 -AAAGGTG-CC-ACCAACTTGTGTGGGCTTT
*
4366101 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
4366128 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
4366155 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
4366183 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
4366211 AAA-ATGCCACCAACTTGGGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
4366238 GAAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 -AAAGGTG-CCACCAACTTGTGTGGG-CTTT
4366265 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
4366293 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
4366320 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
4366348 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
4366375 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
4366403 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
4366430 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
4366458 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
4366485 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
4366513 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
4366541 AAA-ATGCCACCAACTTGGGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
4366568 GAAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 -AAAGGTG-CCACCAACTTGTGTGGG-CTTT
*
4366595 AAAGGTGCCACTAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
4366623 AAGAGGTG
1 AA-AGGTG
4366631 TCCTGCTCTT
Statistics
Matches: 492, Mismatches: 149, Indels: 162
0.61 0.19 0.20
Matches are distributed among these distances:
24 1 0.00
25 38 0.08
26 95 0.19
27 104 0.21
28 118 0.24
29 96 0.20
30 39 0.08
31 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (28 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:4367644 original size:9 final size:8
Alignment explanation
Indices: 4367615--4367685 Score: 56
Period size: 8 Copynumber: 8.8 Consensus size: 8
4367605 CTTAAGTAGG
4367615 TTTTTTC-
1 TTTTTTCT
*
4367622 TTTTCTCT
1 TTTTTTCT
*
4367630 CTTTTTCT
1 TTTTTTCT
*
4367638 TTGTTTTGTT
1 TT-TTTT-CT
*
4367648 TTTTTTGT
1 TTTTTTCT
4367656 TTTTTTCCT
1 TTTTTT-CT
4367665 TTTTTT-T
1 TTTTTTCT
*
4367672 TTTTTGCT
1 TTTTTTCT
4367680 TTTTTT
1 TTTTTT
4367686 TTTGAAGAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
7 12 0.24
8 20 0.40
9 15 0.30
10 3 0.06
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (8 bp):
TTTTTTCT
Found at i:4367649 original size:14 final size:13
Alignment explanation
Indices: 4367631--4367686 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
4367621 CTTTTCTCTC
4367631 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
*
4367644 TGTTTTTTTTG-TT
1 T-TTTTCTTTGTTT
*
4367657 TTTTTCCTT-TTT
1 TTTTTCTTTGTTT
4367669 TTTTT-TTTGCTTT
1 TTTTTCTTTG-TTT
4367682 TTTTT
1 TTTTT
4367687 TTGAAGAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 2 0.06
12 13 0.37
13 12 0.34
14 8 0.23
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTGTTT
Found at i:4367667 original size:23 final size:24
Alignment explanation
Indices: 4367641--4367685 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
4367631 TTTTTCTTTG
4367641 TTTTGTTTTTTTTG-TTTTTTTCC
1 TTTTGTTTTTTTTGCTTTTTTTCC
*
4367664 TTTTTTTTTTTTTGCTTTTTTT
1 TTTTGTTTTTTTTGCTTTTTTT
4367686 TTTGAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (24 bp):
TTTTGTTTTTTTTGCTTTTTTTCC
Found at i:4367687 original size:15 final size:15
Alignment explanation
Indices: 4367648--4367688 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4367638 TTGTTTTGTT
4367648 TTTTTTGTTTTTTTCC
1 TTTTTT-TTTTTTTCC
*
4367664 TTTTTTTTTTTTTGC
1 TTTTTTTTTTTTTCC
4367679 TTTTTTTTTT
1 TTTTTTTTTT
4367689 GAAGAGAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTTCC
Found at i:4373374 original size:17 final size:17
Alignment explanation
Indices: 4373352--4373385 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4373342 ACATCGATTC
*
4373352 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
4373369 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
4373386 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:4380306 original size:27 final size:27
Alignment explanation
Indices: 4380246--4380310 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
4380236 ATAAAGCCGG
* * *
4380246 GGTTGGAGTATCCCCTCGGAAGTAACGG
1 GGTTGGAGTATCCCATC-GAAATAACGA
4380274 GGTTGGAGTATCCCGAT-GAAATAACGA
1 GGTTGGAGTATCCC-ATCGAAATAACGA
4380301 GGTTGGAGTA
1 GGTTGGAGTA
4380311 CCTCAATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.55
28 14 0.42
29 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.23
Consensus pattern (27 bp):
GGTTGGAGTATCCCATCGAAATAACGA
Found at i:4380357 original size:106 final size:107
Alignment explanation
Indices: 4380164--4380579 Score: 338
Period size: 106 Copynumber: 3.9 Consensus size: 107
4380154 AAAAAAAAAT
* * * * * *
4380164 CGGGATTGGAGTATCCC-TTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA
1 CGGGATTGGAGTATCCCGAT-G-AAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATTAGTA
* * * *
4380228 -TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
64 TTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * *
4380271 CGGGGTTGGAGTATCCCGATGAAATAACGAGGTTGGAGTA-CCTCAATTGTGAAAAATTGGTATT
1 CGGGATTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATTAGTATT
* *
4380335 TTTGGAAATAAAATCGGAGTTGGAGTAT-CCC-C-G-ATTAA
66 TTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * ** * *
4380373 AGGAAAATTGGCGT-T-TTGA--AAATAAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATT
1 CGG--GATTGGAGTATCCCGATGAAAT--AACGAGG-TTGGAGTATCCCCAATTGT-GAAAAATT
* *
4380434 AGTGTTTTAGTG--ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
60 AGTATTTTTG-GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * * *
4380481 CGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTG
1 CGGGATTGGAGTAT-CCCGATGAAATAACGAGGTTGGAGTATCCCCAATTGTGAA-AAATTAGT-
* * *
4380545 TTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCC
63 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
4380580 GCTTATAGAA
Statistics
Matches: 244, Mismatches: 42, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
100 4 0.02
102 14 0.06
103 10 0.04
104 35 0.14
105 37 0.15
106 54 0.22
107 46 0.19
108 17 0.07
109 25 0.10
110 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (107 bp):
CGGGATTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTGTGAAAAATTAGTATT
TTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
Found at i:4380396 original size:52 final size:52
Alignment explanation
Indices: 4380334--4380470 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 52
4380324 AAATTGGTAT
* * *
4380334 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
** *
4380386 TTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGAAAATAAAACC-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
**
4380438 TTTT-AGTGATAAAACCGGAGTTGGAGTATCCCC
1 TTTTGA-AAATAAAACCGGAGTTGGAGTATCCCC
4380471 TCGGAAATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
51 6 0.08
52 64 0.88
53 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (52 bp):
TTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:4380497 original size:28 final size:27
Alignment explanation
Indices: 4380457--4380527 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
4380447 TAAAACCGGA
**
4380457 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
4380485 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
4380512 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
4380528 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:4383019 original size:13 final size:13
Alignment explanation
Indices: 4383001--4383026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4382991 ACAAAGATCC
4383001 ATGTATCGATACA
1 ATGTATCGATACA
4383014 ATGTATCGATACA
1 ATGTATCGATACA
4383027 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4383022 original size:33 final size:33
Alignment explanation
Indices: 4382980--4383046 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4382970 AAAATTTCCA
***
4382980 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
4383013 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
4383046 A
1 A
4383047 TTTCCATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:4383090 original size:19 final size:18
Alignment explanation
Indices: 4383066--4383133 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
4383056 CAGTAGCTAA
4383066 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4383085 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4383100 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4383117 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4383134 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4383106 original size:13 final size:13
Alignment explanation
Indices: 4383088--4383112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4383078 ACAATACTTA
4383088 TGTATCGATACAT
1 TGTATCGATACAT
4383101 TGTATCGATACA
1 TGTATCGATACA
4383113 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4383110 original size:32 final size:32
Alignment explanation
Indices: 4383069--4383131 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4383059 TAGCTAATTA
*
4383069 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4383101 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4383132 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4390708 original size:6 final size:6
Alignment explanation
Indices: 4390697--4390721 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4390687 TTTATAATGT
4390697 TTTTGA TTTTGA TTTTGA TTTTGA T
1 TTTTGA TTTTGA TTTTGA TTTTGA T
4390722 GTGATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:4392841 original size:79 final size:78
Alignment explanation
Indices: 4392577--4392867 Score: 307
Period size: 79 Copynumber: 3.7 Consensus size: 78
4392567 AAATTGATTA
* * *
4392577 GAAATAAAAACGGGGTTTGAGTATCCCCTT-AGAAATAACAAGGTTGGAGTATCCCTATTGGTGA
1 GAAATAAAAACGGGGTTGGAGTATCCCTTTGA-AAATAACAAGGTTGGAGTATCCCTA--GATGA
* *
4392641 AAAAATCGATATTTTG
63 AAATATTGATATTTTG
* * * * *
4392657 GAAGTAAAAACGGGGTTGGAGTATCCCTTTAAAAATAATAGGGTTGGAGTATCCCCAAGATG-AA
1 GAAATAAAAACGGGGTTGGAGTATCCCTTTGAAAATAACAAGGTTGGAGTAT-CCCTAGATGAAA
* *
4392721 ATACTGACATTTTG
65 ATATTGATATTTTG
* * * * ***
4392735 AAAATAAAAATGGGGTTAGAGTATCCCTTCGAAAATAATGGGGTTGGAGTATCCCTGAGATGAAA
1 GAAATAAAAACGGGGTTGGAGTATCCCTTTGAAAATAACAAGGTTGGAGTATCCCT-AGATGAAA
* *
4392800 ATTTTAATATTTTG
65 ATATTGATATTTTG
* * *
4392814 GAAATAAAAATGGGGTTGGAGTATCCCTTTGGAAATAACGAGGTTGGAGTATCC
1 GAAATAAAAACGGGGTTGGAGTATCCCTTTGAAAATAACAAGGTTGGAGTATCC
4392868 TCTCGAAAAT
Statistics
Matches: 178, Mismatches: 29, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
77 3 0.02
78 62 0.35
79 63 0.35
80 45 0.25
81 5 0.03
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (78 bp):
GAAATAAAAACGGGGTTGGAGTATCCCTTTGAAAATAACAAGGTTGGAGTATCCCTAGATGAAAA
TATTGATATTTTG
Found at i:4392841 original size:157 final size:152
Alignment explanation
Indices: 4392445--4392867 Score: 405
Period size: 157 Copynumber: 2.8 Consensus size: 152
4392435 AAAATCAGGA
* * ** * *
4392445 TTAGAGTATCCCCTCAGAGATGGTGGGGTTTGAGTATCCCCAAGATGAAAATTTTAATATTTTGG
1 TTAGAGTATCCCCTTAGAAATAATGGGGTTGGAGTAT-CCCTAGATGAAAATTTTAATATTTTGG
* * * * * *
4392510 ------AACGGGGTTAGAGTATTCCTTCAGAAATTATAGGGTTGGAGTATCCCTAATGGTGAAAA
65 AATAAAAACGGGGTTGGAGTATCCCTTTAGAAATAATAGGGTTGGAGTATCCCCAATGATGAAAA
*
4392569 ATTGATTAGAAATAAAAACGGGG
130 ACTGATTAGAAATAAAAACGGGG
* *** * ** **
4392592 TTTGAGTATCCCCTTAGAAATAACAAGGTTGGAGTATCCCTATTGGTGAAAAAATCGATATTTTG
1 TTAGAGTATCCCCTTAGAAATAATGGGGTTGGAGTATCCCTA--GATGAAAATTTTAATATTTTG
*
4392657 GAAGTAAAAACGGGGTTGGAGTATCCCTTTAAAAATAATAGGGTTGGAGTATCCCCAA-GATGAA
64 GAA-TAAAAACGGGGTTGGAGTATCCCTTTAGAAATAATAGGGTTGGAGTATCCCCAATGATGAA
* * *
4392721 ATACTGACATTTTGAAAATAAAAATGGGG
128 AAACTG--A-TTAG-AAATAAAAACGGGG
*
4392750 TTAGAGTAT-CCCTTCGAAAATAATGGGGTTGGAGTATCCCTGAGATGAAAATTTTAATATTTTG
1 TTAGAGTATCCCCTTAG-AAATAATGGGGTTGGAGTATCCCT-AGATGAAAATTTTAATATTTTG
* * *
4392814 GAAATAAAAATGGGGTTGGAGTATCCCTTTGGAAATAA-CGAGGTTGGAGTATCC
64 G-AATAAAAACGGGGTTGGAGTATCCCTTTAGAAATAATAG-GGTTGGAGTATCC
4392868 TCTCGAAAAT
Statistics
Matches: 219, Mismatches: 40, Indels: 24
0.77 0.14 0.08
Matches are distributed among these distances:
146 4 0.02
147 28 0.13
148 17 0.08
154 9 0.04
155 44 0.20
156 2 0.01
157 70 0.32
158 44 0.20
159 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (152 bp):
TTAGAGTATCCCCTTAGAAATAATGGGGTTGGAGTATCCCTAGATGAAAATTTTAATATTTTGGA
ATAAAAACGGGGTTGGAGTATCCCTTTAGAAATAATAGGGTTGGAGTATCCCCAATGATGAAAAA
CTGATTAGAAATAAAAACGGGG
Found at i:4392877 original size:28 final size:27
Alignment explanation
Indices: 4392827--4392893 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
4392817 ATAAAAATGG
* *
4392827 GGTTGGAGTATCCCTTTGGAAATAACGA
1 GGTTGGAGTATCCCTTCGAAAATAA-GA
*
4392855 GGTTGGAGTAT-CCTCTCGAAAATAATA
1 GGTTGGAGTATCCCT-TCGAAAATAAGA
*
4392882 GGCTGGAGTATC
1 GGTTGGAGTATC
4392894 TCCGATGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 14 0.42
28 19 0.58
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
GGTTGGAGTATCCCTTCGAAAATAAGA
Found at i:4395467 original size:50 final size:52
Alignment explanation
Indices: 4395339--4395468 Score: 165
Period size: 50 Copynumber: 2.5 Consensus size: 52
4395329 CCATGTATTG
* * * *
4395339 ATACATTGAAGAATGTATCGATACATTTGGGTCAAAAACCTAGAATGTATCA
1 ATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAAAATGTATCA
* * * * *
4395391 ATACAATGAAAAGTATGTCGACACATTT-GGT-TAAAACCCAAAATGTATCA
1 ATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAAAATGTATCA
4395441 ATACAATGAAAAATGTATCGATACATTT
1 ATACAATGAAAAATGTATCGATACATTT
4395469 TCTTTCTAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 40 0.62
51 3 0.05
52 22 0.34
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (52 bp):
ATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAAAATGTATCA
Found at i:4395548 original size:20 final size:21
Alignment explanation
Indices: 4395525--4395578 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
4395515 GATTTCAGAC
*
4395525 ATGTATCAATACATTCACT-T
1 ATGTATCGATACATTCACTAT
4395545 ATGTAAT-GATACATTCACTAT
1 ATGT-ATCGATACATTCACTAT
*
4395566 TTGTATCGATACA
1 ATGTATCGATACA
4395579 AATTATAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Done.