Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 80 of 135
Found at i:24658589 original size:14 final size:15
Alignment explanation
Indices: 24658570--24658607 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
24658560 ACTAACTTTT
24658570 AATTCAATAATT-AA
1 AATTCAATAATTCAA
24658584 AATTC-ATCAATTCAA
1 AATTCAAT-AATTCAA
24658599 AATTCAATA
1 AATTCAATA
24658608 TAAAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.10
14 9 0.43
15 8 0.38
16 2 0.10
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTCAATAATTCAA
Found at i:24669726 original size:32 final size:32
Alignment explanation
Indices: 24669665--24670024 Score: 416
Period size: 32 Copynumber: 11.3 Consensus size: 32
24669655 GCTAATAAAC
* * *
24669665 CTGTAAACAATATGCTCGTAAGAGTTATCAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* *
24669697 CTGTGAACTGTATGGTCGTAAGAGCTATCAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* * *
24669729 TTGTGAATAGTATGCTCGTAAGAGTTATCAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* * *
24669761 CTGTGAACAATAT-ATCGTAAGAGCTGTCAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* *
24669792 CTGTGAATAGTATGCTCATAAGAGCTATCAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* * * *
24669824 ATGTGAACAATATGCTCGTAAGAGCTGTTAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* * * * *
24669856 ATGTGAACAGGATGCTCGTAAGAGCTGTTAAA
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* * * *
24669888 CTATGAATAGCATGCTCGTAAGAGCTATCAAC
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* *
24669920 CTGTGAACAGTATGCTCGTAAGAGCTGTCAAC
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* *
24669952 CTGTGAACGGTATGCTCATAAGAGCTATCAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
* *
24669984 CTGTGAACAGTATGCTCGTAAGAGCAATTAAT
1 CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
*
24670016 TTGTGAACA
1 CTGTGAACA
24670025 TCTCCACAAC
Statistics
Matches: 277, Mismatches: 50, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
31 26 0.09
32 251 0.91
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (32 bp):
CTGTGAACAGTATGCTCGTAAGAGCTATCAAT
Found at i:24682784 original size:65 final size:65
Alignment explanation
Indices: 24682691--24682857 Score: 187
Period size: 65 Copynumber: 2.6 Consensus size: 65
24682681 AGGGTGTAAA
* * * * *
24682691 AAACCTTTAAATTTAA-AAAAAAAATAATTAAGTCCCTCTTTTTTTTTCATTGAATTAAGTATTT
1 AAACTTTTAAAATTAATCAAAAAAATAATTAAGTCCCTCTTTTTTTTTCATTCAATTAAGTACTT
* * * * **
24682755 GAACTTTTAAAATGT-ATCAAAAAAATAATTAAGTTCTTGTTTTTTTTTCATTCAATTGGGTACT
1 AAACTTTTAAAAT-TAATCAAAAAAATAATTAAGTCCCTCTTTTTTTTTCATTCAATTAAGTACT
24682819 T
65 T
*
24682820 AAACTTTTAAAATTAATCAAAAAAAGCAATTAAG-CCCT
1 AAACTTTTAAAATTAATCAAAAAAA-TAATTAAGTCCCT
24682858 TGCTTTCTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
64 12 0.14
65 65 0.77
66 7 0.08
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (65 bp):
AAACTTTTAAAATTAATCAAAAAAATAATTAAGTCCCTCTTTTTTTTTCATTCAATTAAGTACTT
Found at i:24682909 original size:66 final size:65
Alignment explanation
Indices: 24682753--24682909 Score: 188
Period size: 67 Copynumber: 2.4 Consensus size: 65
24682743 AATTAAGTAT
* * ** * * * *
24682753 TTGAACTTTTAAAATGTATCAAAAAAATAATTAAGTTCTTGTTTTTTTTTCATTCAATTGGGTAC
1 TTGAACTTTTAAAATGAATCAAAAAAACAATTAAGCCCTTGTTTCTTTTCCACTCAATTGGATAC
* * *
24682818 TTAAACTTTTAAAATTAATCAAAAAAAGCAATTAAGCCCTTGCTTTCTTTTCCCCTCAATTGGAT
1 TTGAACTTTTAAAATGAATCAAAAAAA-CAATTAAGCCCTTG-TTTCTTTTCCACTCAATTGGAT
24682883 AC
64 AC
*
24682885 TTGAACTTTCAAAATGAATCAAAAA
1 TTGAACTTTTAAAATGAATCAAAAA
24682910 GACCCTCCAA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
65 24 0.32
66 11 0.14
67 41 0.54
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (65 bp):
TTGAACTTTTAAAATGAATCAAAAAAACAATTAAGCCCTTGTTTCTTTTCCACTCAATTGGATAC
Found at i:24682999 original size:18 final size:19
Alignment explanation
Indices: 24682974--24683025 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
24682964 GAAAAAAATT
24682974 ATAAAAATAATAAATTTTA
1 ATAAAAATAATAAATTTTA
*
24682993 A-AAAAATTATTAAATTTTA
1 ATAAAAA-TAATAAATTTTA
24683012 ATAAAAAT-ATAAAT
1 ATAAAAATAATAAAT
24683026 AATTTAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 10 0.34
19 14 0.48
20 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAAATAATAAATTTTA
Found at i:24683071 original size:27 final size:29
Alignment explanation
Indices: 24683007--24683079 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 29
24682997 AATTATTAAA
24683007 TTTTAATAAAAATATAAATAATTTAGAATT
1 TTTTAA-AAAAATATAAATAATTTAGAATT
*
24683037 TATT--AAAAAT-TAAA-AA-TTAGAAATT
1 TTTTAAAAAAATATAAATAATTTAG-AATT
24683062 TTTTAAAAAAATCATAAA
1 TTTTAAAAAAAT-ATAAA
24683080 AAAATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
24 4 0.11
25 9 0.25
26 4 0.11
27 12 0.33
29 4 0.11
30 3 0.08
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTTAAAAAAATATAAATAATTTAGAATT
Found at i:24683089 original size:37 final size:36
Alignment explanation
Indices: 24683041--24683130 Score: 90
Period size: 37 Copynumber: 2.4 Consensus size: 36
24683031 AGAATTTATT
* * *
24683041 AAAAATTAAAAATTAGAAATTTTTTAAAAAAATCATA
1 AAAAAATAAAAATTAGAAA-CTTTTAAAAAAATAATA
* * *
24683078 AAAAAATAAAAAATTATAAACTTTTATAGAAATAATA
1 AAAAAAT-AAAAATTAGAAACTTTTAAAAAAATAATA
24683115 AAAAAATTATAAAATT
1 AAAAAA-TA-AAAATT
24683131 TATCAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 26 0.59
38 18 0.41
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (36 bp):
AAAAAATAAAAATTAGAAACTTTTAAAAAAATAATA
Found at i:24683090 original size:38 final size:37
Alignment explanation
Indices: 24683041--24683130 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
24683031 AGAATTTATT
* * *
24683041 AAAAATTAAAAATTAGAAATTTTTTAAAAAAATCATAA
1 AAAAATAAAAAATTAGAAA-CTTTTAAAAAAATAATAA
* * *
24683079 AAAAATAAAAAATTATAAACTTTTATAGAAATAATAA
1 AAAAATAAAAAATTAGAAACTTTTAAAAAAATAATAA
*
24683116 AAAAATTATAAAATT
1 AAAAA-TAAAAAATT
24683131 TATCAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 19 0.43
38 25 0.57
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (37 bp):
AAAAATAAAAAATTAGAAACTTTTAAAAAAATAATAA
Found at i:24683438 original size:10 final size:10
Alignment explanation
Indices: 24683368--24683449 Score: 50
Period size: 10 Copynumber: 8.5 Consensus size: 10
24683358 TTCTTAGGAC
*
24683368 TTTATAAAAT
1 TTTATAATAT
24683378 TTTATAATAT
1 TTTATAATAT
**
24683388 TTT-TTGTAT
1 TTTATAATAT
24683397 TTCTAT-ATAT
1 TT-TATAATAT
24683407 TTTAT-A-AT
1 TTTATAATAT
*
24683415 TTTACACGAT-T
1 TTTATA--ATAT
24683426 TTTATAATAT
1 TTTATAATAT
*
24683436 TTTACAAT-T
1 TTTATAATAT
24683445 TTTAT
1 TTTAT
24683450 TTTTTTTTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
8 6 0.11
9 17 0.30
10 26 0.46
11 8 0.14
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTATAATAT
Found at i:24683439 original size:21 final size:17
Alignment explanation
Indices: 24683406--24683449 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
24683396 TTTCTATATA
24683406 TTTTATAATTTTACACGAT
1 TTTTATAATTTTACA--AT
24683425 TTTTATAATATTTTACAAT
1 TTTTAT-A-ATTTTACAAT
24683444 TTTTAT
1 TTTTAT
24683450 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.61
20 1 0.04
21 8 0.35
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTATAATTTTACAAT
Found at i:24683456 original size:18 final size:19
Alignment explanation
Indices: 24683435--24683473 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24683425 TTTTATAATA
24683435 TTTTAC-AATTTTTATTTT
1 TTTTACTAATTTTTATTTT
*
24683453 TTTTTCTAATTTTTATTTT
1 TTTTACTAATTTTTATTTT
24683472 TT
1 TT
24683474 AATATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTACTAATTTTTATTTT
Found at i:24683702 original size:90 final size:88
Alignment explanation
Indices: 24683576--24683783 Score: 269
Period size: 90 Copynumber: 2.3 Consensus size: 88
24683566 ATTGTTTTTT
* * *
24683576 TTTTTTTGAAAAAGTTTGA-GGATCTTTTTAATGCATTTTAAAAGTTCAAGTACCCAATTGAGTG
1 TTTTTTTGAAAAAGTTTAAGGGAT-TTTTT-ATGCATTTTAAAAGTTCAAATACCCAAATGAGTG
*
24683640 CAGAAAAAAAAGTAGAGGCTTAATTGC
64 --GAAAAAAAAGGAGAGGCTTAATTGC
* ** *
24683667 -TTTTTTGAAAAGGTTTAAGGGCATTTTTTATGCATTTTAAAAGTTCAAATACTTAAATGAGTGT
1 TTTTTTTGAAAAAGTTTAAGGG-ATTTTTTATGCATTTTAAAAGTTCAAATACCCAAATGAGTGG
*
24683731 AAAAAAAAGGAGGGGCTTAATTGC
65 AAAAAAAAGGAGAGGCTTAATTGC
24683755 TTTTTTTGAAAAAGTTTAAGGG-TTTTTTA
1 TTTTTTTGAAAAAGTTTAAGGGATTTTTTA
24683784 CACCTTTAAG
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
87 7 0.07
88 22 0.21
89 20 0.19
90 46 0.44
91 7 0.07
92 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.38
Consensus pattern (88 bp):
TTTTTTTGAAAAAGTTTAAGGGATTTTTTATGCATTTTAAAAGTTCAAATACCCAAATGAGTGGA
AAAAAAAGGAGAGGCTTAATTGC
Found at i:24684407 original size:22 final size:23
Alignment explanation
Indices: 24684365--24684409 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
24684355 ATTATATATT
*
24684365 TTTATAATAGCATTTATCTATAA
1 TTTATAATAGCATATATCTATAA
*
24684388 TTTATAATA-TATATATCTATAA
1 TTTATAATAGCATATATCTATAA
24684410 CCTATCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTATAATAGCATATATCTATAA
Found at i:24684701 original size:24 final size:22
Alignment explanation
Indices: 24684656--24684732 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
24684646 AATAAATTAA
**
24684656 AAATTATAAAAATCCATTTTTTT
1 AAATTATAAAAATCCA-AATTTT
24684679 AAATATATAAAAATCCAAATTTT
1 AAAT-TATAAAAATCCAAATTTT
** *
24684702 AAATTA-AATAAATATAAGTTTT
1 AAATTATAA-AAATCCAAATTTT
24684724 AAA-TATAAA
1 AAATTATAAA
24684733 TATGATTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.11
22 17 0.37
23 12 0.26
24 12 0.26
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (22 bp):
AAATTATAAAAATCCAAATTTT
Found at i:24686807 original size:10 final size:10
Alignment explanation
Indices: 24686794--24686826 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
24686784 AATTACTCAA
24686794 TTTTATTTTC
1 TTTTATTTTC
24686804 TTTTATTTTC
1 TTTTATTTTC
*
24686814 TTTTTTTTTC
1 TTTTATTTTC
24686824 TTT
1 TTT
24686827 CGATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTATTTTC
Found at i:24686837 original size:20 final size:20
Alignment explanation
Indices: 24686794--24686838 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24686784 AATTACTCAA
*
24686794 TTTTATTTTCTTTTATTTTC
1 TTTTATTTTCTTTGATTTTC
*
24686814 TTTTTTTTTCTTTCGATTTT-
1 TTTTATTTTCTTT-GATTTTC
24686834 TTTTA
1 TTTTA
24686839 CCAAAATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTATTTTCTTTGATTTTC
Found at i:24687877 original size:16 final size:15
Alignment explanation
Indices: 24687856--24687915 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
24687846 TTGGGGTAGG
24687856 AAAGAAACAAAATAAA
1 AAAGAAA-AAAATAAA
*
24687872 AAAGAAAAAAAT-TA
1 AAAGAAAAAAATAAA
*
24687886 GAAGAAAAAAATAAA
1 AAAGAAAAAAATAAA
24687901 AATA-AAATAAAATAA
1 AA-AGAAA-AAAATAA
24687916 CTAGCTTCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
14 12 0.32
15 10 0.27
16 15 0.41
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.12
Consensus pattern (15 bp):
AAAGAAAAAAATAAA
Found at i:24687907 original size:14 final size:14
Alignment explanation
Indices: 24687856--24687907 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
24687846 TTGGGGTAGG
24687856 AAAGAAACAAAATAAA
1 AAAGAAA-AAAAT-AA
*
24687872 AAAGAAAAAAATTA
1 AAAGAAAAAAATAA
*
24687886 GAAGAAAAAAATAA
1 AAAGAAAAAAATAA
*
24687900 AAATAAAA
1 AAAGAAAA
24687908 TAAAATAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 19 0.61
15 5 0.16
16 7 0.23
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.10
Consensus pattern (14 bp):
AAAGAAAAAAATAA
Found at i:24688412 original size:10 final size:11
Alignment explanation
Indices: 24688395--24688424 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24688385 TTGAATTATT
24688395 ATTTTTTTTCA
1 ATTTTTTTTCA
*
24688406 ATTTTTTTTGA
1 ATTTTTTTTCA
24688417 ATTTTTTT
1 ATTTTTTT
24688425 AAAATAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (11 bp):
ATTTTTTTTCA
Found at i:24693149 original size:16 final size:16
Alignment explanation
Indices: 24693128--24693159 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24693118 AGTACTAGAA
24693128 AGAACCATTAATTTTT
1 AGAACCATTAATTTTT
24693144 AGAACCATTAATTTTT
1 AGAACCATTAATTTTT
24693160 CCTTACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (16 bp):
AGAACCATTAATTTTT
Found at i:24693347 original size:26 final size:26
Alignment explanation
Indices: 24693318--24693401 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
24693308 GAGCATGTTT
*
24693318 AGAATTGTCGCTACA-GAAACTTGTCC
1 AGAATTGTCGCTACATG-AACATGTCC
*
24693344 AGAATTATCGCTACATGAACATGTCC
1 AGAATTGTCGCTACATGAACATGTCC
* ** *
24693370 AGAGTTGTCGCTGTATGAGCATGTCC
1 AGAATTGTCGCTACATGAACATGTCC
*
24693396 AAAATT
1 AGAATT
24693402 ACGCCCAGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
26 47 0.98
27 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (26 bp):
AGAATTGTCGCTACATGAACATGTCC
Found at i:24694814 original size:11 final size:11
Alignment explanation
Indices: 24694798--24694848 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
24694788 CAGAATACGC
24694798 CACAAAGGCAT
1 CACAAAGGCAT
24694809 CACAAAGGCAT
1 CACAAAGGCAT
* * **
24694820 TACAAAATGCGC
1 CAC-AAAGGCAT
24694832 CACAAAGGCAT
1 CACAAAGGCAT
24694843 CACAAA
1 CACAAA
24694849 ATTTCGTGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
11 24 0.77
12 7 0.23
ACGTcount: A:0.47, C:0.27, G:0.16, T:0.10
Consensus pattern (11 bp):
CACAAAGGCAT
Found at i:24697592 original size:11 final size:11
Alignment explanation
Indices: 24697578--24697610 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
24697568 TTAGGATATT
24697578 ATTTATATTTA
1 ATTTATATTTA
*
24697589 ATTTGTATTTA
1 ATTTATATTTA
24697600 ATTTATATTTA
1 ATTTATATTTA
24697611 TCTTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:24697638 original size:14 final size:14
Alignment explanation
Indices: 24697601--24697630 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24697591 TTGTATTTAA
*
24697601 TTTATATTTATCTT
1 TTTAGATTTATCTT
24697615 TTTAGATTTATCTT
1 TTTAGATTTATCTT
24697629 TT
1 TT
24697631 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:24702811 original size:23 final size:23
Alignment explanation
Indices: 24702777--24702820 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24702767 TAAACACGAA
* * *
24702777 ATTTTGTGATGCTTTTGTGGCGC
1 ATTTTGTAATGCCTTTATGGCGC
24702800 ATTTTGTAATGCCTTTATGGC
1 ATTTTGTAATGCCTTTATGGC
24702821 ATATTCTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.48
Consensus pattern (23 bp):
ATTTTGTAATGCCTTTATGGCGC
Found at i:24703790 original size:26 final size:26
Alignment explanation
Indices: 24703745--24703827 Score: 114
Period size: 26 Copynumber: 3.2 Consensus size: 26
24703735 TTAATACTAA
*
24703745 TGTCGCTGCATGAGCATGTCCAGAAT
1 TGTCGCTGCATGAACATGTCCAGAAT
*
24703771 TGTCGCTGCA-GAAACTTGTCCAGAAT
1 TGTCGCTGCATG-AACATGTCCAGAAT
* *
24703797 TATCGCTGCATGAACATGTCCAGATT
1 TGTCGCTGCATGAACATGTCCAGAAT
24703823 TGTCG
1 TGTCG
24703828 TTATATGAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.02
26 47 0.96
27 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (26 bp):
TGTCGCTGCATGAACATGTCCAGAAT
Found at i:24712571 original size:24 final size:24
Alignment explanation
Indices: 24712544--24712590 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24712534 AATAGTGGTC
*
24712544 TACATTGGACCACTTAAAGTGATT
1 TACACTGGACCACTTAAAGTGATT
*
24712568 TACACTGGACCACTTGAAGTGAT
1 TACACTGGACCACTTAAAGTGAT
24712591 CTATCCAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (24 bp):
TACACTGGACCACTTAAAGTGATT
Found at i:24712907 original size:17 final size:17
Alignment explanation
Indices: 24712836--24712907 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
24712826 TGTTAGTAAG
* *
24712836 CATTGTCATCACATTCC
1 CATTGTCATTACATTTC
* *
24712853 CGTTGTCATTACATTTT
1 CATTGTCATTACATTTC
* * * *
24712870 AATTGTCACTGCATTTG
1 CATTGTCATTACATTTC
24712887 CATTGTCATTACATTTC
1 CATTGTCATTACATTTC
24712904 CATT
1 CATT
24712908 TGTTATTGTA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (17 bp):
CATTGTCATTACATTTC
Found at i:24713503 original size:16 final size:17
Alignment explanation
Indices: 24713482--24713513 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24713472 GTCACATAAA
24713482 AAAAGAA-AAAAAAAGG
1 AAAAGAAGAAAAAAAGG
24713498 AAAAGAAGAAAAAAAG
1 AAAAGAAGAAAAAAAG
24713514 TATATGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAGAAGAAAAAAAGG
Found at i:24718806 original size:26 final size:26
Alignment explanation
Indices: 24718777--24718869 Score: 105
Period size: 26 Copynumber: 3.5 Consensus size: 26
24718767 ATTATTGTAT
* *
24718777 TGGCTCATAAGAGTGATATAATGAAC
1 TGGCTCATAAGAGCGATATACTGAAC
* *
24718803 TGGCTCGTAAGAGCGATATACTGTAC
1 TGGCTCATAAGAGCGATATACTGAAC
* * *
24718829 TAGCTCGTAAGAGCGATATACTAAAC
1 TGGCTCATAAGAGCGATATACTGAAC
*
24718855 TAGGCTCATATGAGC
1 T-GGCTCATAAGAGC
24718870 TAAATTACTG
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 46 0.82
27 10 0.18
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (26 bp):
TGGCTCATAAGAGCGATATACTGAAC
Found at i:24725776 original size:26 final size:26
Alignment explanation
Indices: 24725741--24725841 Score: 96
Period size: 26 Copynumber: 3.8 Consensus size: 26
24725731 CTGAAGAAAT
*
24725741 TACTGTACTGACTCATAAGAGCGATA
1 TACTGAACTGACTCATAAGAGCGATA
* * *
24725767 TACTGAACTGGCTCGTAAGAGTGATA
1 TACTGAACTGACTCATAAGAGCGATA
* *
24725793 TACTGTACT-AGCTCGTAAGAGCGATA
1 TACTGAACTGA-CTCATAAGAGCGATA
* * *
24725819 TACTAAACTAGGCTCATATGAGC
1 TACTGAACT-GACTCATAAGAGC
24725842 TAAATTACTG
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 51 0.85
27 9 0.15
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (26 bp):
TACTGAACTGACTCATAAGAGCGATA
Found at i:24727691 original size:40 final size:40
Alignment explanation
Indices: 24727631--24727901 Score: 224
Period size: 40 Copynumber: 6.8 Consensus size: 40
24727621 ATATAGTTCG
* * * *
24727631 GGCTACGGCCTAGGAAGCTTTGAGCCGGTGATGTGATTTA
1 GGCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGATTCA
* * * * *
24727671 GGCTACGACCTAGCAGGCTTTTTAATCCGTTGATATGATTTA
1 GGCTACGACCTAGCAGGC--TTTGAGCCGGTGATGTGATTCA
* * * *
24727713 GGCTACGATCGAGCAGGCTTTGAACCGTTGATGTGATTCA
1 GGCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGATTCA
* * * * ** * **
24727753 AGATATGGCCTAATAGACTTTGAGTTGGTGA-GATGATTCA
1 GGCTACGACCTAGCAGGCTTTGAGCCGGTGATG-TGATTCA
* * *
24727793 GGCTACGATCTAACAGGATTTGAGCCGGTGATGTGATTCA
1 GGCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGATTCA
*
24727833 GGCTACGACCTAGCAGGCTTTGAGCCAGTGA-GATGATTCA
1 GGCTACGACCTAGCAGGCTTTGAGCCGGTGATG-TGATTCA
* * *
24727873 GGTTACAACCTAGCAGGCTTT-ATCCGGTG
1 GGCTACGACCTAGCAGGCTTTGAGCCGGTG
24727902 TTGTTGTAAA
Statistics
Matches: 182, Mismatches: 44, Indels: 11
0.77 0.19 0.05
Matches are distributed among these distances:
39 8 0.04
40 139 0.76
41 1 0.01
42 34 0.19
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (40 bp):
GGCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGATTCA
Found at i:24727717 original size:42 final size:40
Alignment explanation
Indices: 24727647--24727750 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 40
24727637 GGCCTAGGAA
* * *
24727647 GCTTTGAGCCGGTGATGTGATTTAGGCTACGACCTAGCAG
1 GCTTTGAACCGTTGATGTGATTTAGGCTACGACCGAGCAG
* * *
24727687 GCTTTTTAATCCGTTGATATGATTTAGGCTACGATCGAGCAG
1 GC-TTTGAA-CCGTTGATGTGATTTAGGCTACGACCGAGCAG
24727729 GCTTTGAACCGTTGATGTGATT
1 GCTTTGAACCGTTGATGTGATT
24727751 CAAGATATGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 15 0.28
41 9 0.17
42 30 0.56
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (40 bp):
GCTTTGAACCGTTGATGTGATTTAGGCTACGACCGAGCAG
Found at i:24728925 original size:55 final size:55
Alignment explanation
Indices: 24728811--24728939 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 55
24728801 CACGGTTGGG
* * * * * * * * *
24728811 CACACGGACTGGGACACGACCGTGTTACCTTATTTTGAGTACTCATAGGGGCAAG
1 CACACGGGCTGGGACACGACCGTGTGACCCTATTTAGACTACTCACACGGGAAAA
*
24728866 CACACGGGTTGGGACACGACCGTGTGACCCTATTTAGACTAAC-CACACGGGAAAA
1 CACACGGGCTGGGACACGACCGTGTGACCCTATTTAGACT-ACTCACACGGGAAAA
*
24728921 CACACGGGCTGGTACACGA
1 CACACGGGCTGGGACACGA
24728940 TCATGTGTCA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 59 0.97
56 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.19
Consensus pattern (55 bp):
CACACGGGCTGGGACACGACCGTGTGACCCTATTTAGACTACTCACACGGGAAAA
Found at i:24733030 original size:20 final size:19
Alignment explanation
Indices: 24733007--24733044 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24732997 TATCAATACT
24733007 TTTCTTAAAGTATCGATATA
1 TTTC-TAAAGTATCGATATA
*
24733027 TTTCTAAGGTATCGATAT
1 TTTCTAAAGTATCGATAT
24733045 TTCTGCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (19 bp):
TTTCTAAAGTATCGATATA
Found at i:24735726 original size:33 final size:33
Alignment explanation
Indices: 24735672--24735738 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
24735662 ATATTTATGC
* *
24735672 CTTAAATTGAAAACGATTTTTA-TATAGGGGGAG
1 CTTAAATTCAAAACGACTTTTATTA-AGGGGGAG
*
24735705 CTTAAATTCAAAATGACTTTTATTAAGGGGGAG
1 CTTAAATTCAAAACGACTTTTATTAAGGGGGAG
24735738 C
1 C
24735739 AATCTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (33 bp):
CTTAAATTCAAAACGACTTTTATTAAGGGGGAG
Found at i:24738467 original size:40 final size:40
Alignment explanation
Indices: 24738308--24738480 Score: 183
Period size: 40 Copynumber: 4.3 Consensus size: 40
24738298 CGGGCTACGA
* * **
24738308 CCTAGCAGGCTTTGAG-TCGTTGATG-TGATTCAGGCTACAG
1 CCTAGCAGGCTTTGAGCT-GGTGA-GATGATTCAAGCTATGG
* *
24738348 CCTAGCAGGCTTTGAGCTGGTGAGATGATTCAAGCTACGA
1 CCTAGCAGGCTTTGAGCTGGTGAGATGATTCAAGCTATGG
* *
24738388 CCTAGCAGGCTTTGAGCCGGTGATG-TGGTTCAAGCTATGG
1 CCTAGCAGGCTTTGAGCTGGTGA-GATGATTCAAGCTATGG
* *
24738428 CCTAACAGGCTTTGAGCTGGTGAGATGATT-AAGGTTATGG
1 CCTAGCAGGCTTTGAGCTGGTGAGATGATTCAA-GCTATGG
*
24738468 CCTAGCAAGCTTT
1 CCTAGCAGGCTTT
24738481 AGTCGATGTT
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.04
40 108 0.95
41 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (40 bp):
CCTAGCAGGCTTTGAGCTGGTGAGATGATTCAAGCTATGG
Found at i:24738480 original size:80 final size:80
Alignment explanation
Indices: 24738301--24738457 Score: 251
Period size: 80 Copynumber: 2.0 Consensus size: 80
24738291 TATAGTTCGG
* * * *
24738301 GCTACGACCTAGCAGGCTTTGAGTCGTTGATGTGATTCAGGCTACAGCCTAGCAGGCTTTGAGCT
1 GCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGATTCAAGCTACAGCCTAACAGGCTTTGAGCT
24738366 GGTGAGATGATTCAA
66 GGTGAGATGATTCAA
* **
24738381 GCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGGTTCAAGCTATGGCCTAACAGGCTTTGAGCT
1 GCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGATTCAAGCTACAGCCTAACAGGCTTTGAGCT
24738446 GGTGAGATGATT
66 GGTGAGATGATT
24738458 AAGGTTATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (80 bp):
GCTACGACCTAGCAGGCTTTGAGCCGGTGATGTGATTCAAGCTACAGCCTAACAGGCTTTGAGCT
GGTGAGATGATTCAA
Found at i:24749240 original size:33 final size:32
Alignment explanation
Indices: 24749167--24749243 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
24749157 TTAGTCAAAG
* * *
24749167 TTATTTATTTTATTAATTTTATTTTCATTAAA
1 TTATTTATTTTACTAATTTCATTTTCATAAAA
* *
24749199 TT-TGTTATTTTCCTAATTTCATTTTGACTAAAA
1 TTAT-TTATTTTACTAATTTCATTTTCA-TAAAA
24749232 TTATTTATTTTA
1 TTATTTATTTTA
24749244 ATTAAATAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
31 1 0.03
32 21 0.58
33 13 0.36
34 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (32 bp):
TTATTTATTTTACTAATTTCATTTTCATAAAA
Found at i:24752337 original size:32 final size:33
Alignment explanation
Indices: 24752292--24752365 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 33
24752282 GTCAAAGTTG
* * *
24752292 TTTATTTTATTAATTTTATTTTCA-TTAAATTT
1 TTTATTTTATTAATTTCATTTTCACTAAAATTA
* *
24752324 TTTATTTTCTTAATTTCATTTTGACTAAAATTA
1 TTTATTTTATTAATTTCATTTTCACTAAAATTA
24752357 TTTATTTTA
1 TTTATTTTA
24752366 AGTAAATAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
32 21 0.60
33 14 0.40
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.65
Consensus pattern (33 bp):
TTTATTTTATTAATTTCATTTTCACTAAAATTA
Found at i:24764781 original size:16 final size:16
Alignment explanation
Indices: 24764702--24764784 Score: 121
Period size: 16 Copynumber: 5.2 Consensus size: 16
24764692 TGAATTACTG
*
24764702 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
24764718 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
24764734 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
24764750 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
24764766 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
24764782 ATT
1 ATT
24764785 CCAATGAACC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 61 1.00
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:24764999 original size:22 final size:22
Alignment explanation
Indices: 24764948--24764999 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
24764938 AAACTTTAAA
**
24764948 AATTATAAAATATCAATAATTAT
1 AATTA-AAAATAAAAATAATTAT
*
24764971 AAATAAAAATAAAAATAA-TATT
1 AATTAAAAATAAAAATAATTA-T
24764993 AATTAAA
1 AATTAAA
24765000 TGTTAGATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTAAAAATAAAAATAATTAT
Found at i:24768520 original size:16 final size:16
Alignment explanation
Indices: 24768501--24768546 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
24768491 AATAAATAAA
24768501 AAAATATAAATATTAT
1 AAAATATAAATATTAT
24768517 AAAATATTGAAATA--AT
1 AAAATA-T-AAATATTAT
*
24768533 ATAATATAAATATT
1 AAAATATAAATATT
24768547 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
14 5 0.20
15 1 0.04
16 13 0.52
17 1 0.04
18 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAATATAAATATTAT
Found at i:24773418 original size:15 final size:15
Alignment explanation
Indices: 24773375--24773412 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24773365 TTTAATATGT
*
24773375 TATAAATTACATAATA
1 TATAAA-TAAATAATA
24773391 TATAAATAAATAATA
1 TATAAATAAATAATA
24773406 TA-AAATA
1 TATAAATA
24773413 TTATAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAATAAATAATA
Found at i:24775412 original size:115 final size:115
Alignment explanation
Indices: 24775210--24775443 Score: 414
Period size: 115 Copynumber: 2.0 Consensus size: 115
24775200 TGTGGGCAGA
*
24775210 ATTTTCTGGACGTGATAAAAGCGAGAATAACGAGTTTTAGACTTTATTTGGCTTTTAAATCATAT
1 ATTTTCTAGACGTGATAAAAGCGAGAATAACGAGTTTTAGACTTTATTTGGCTTTTAAATCATAT
* *
24775275 TGAGTTCAACTCTAAGGCTTAAATTTGATTATATATAAACTTAATAATGT
66 TGAATTCAACTCTAAGGCTTAAATTTGATTATATATAAACCTAATAATGT
* * *
24775325 ATTTTCTAGATGTGATTAAAGCGAGAATAACGAGTTTTAGATTTTATTTGGCTTTTAAATCATAT
1 ATTTTCTAGACGTGATAAAAGCGAGAATAACGAGTTTTAGACTTTATTTGGCTTTTAAATCATAT
24775390 TGAATTCAACTCTAAGGCTTAAATTTGATTATATATAAACCTAATAATGT
66 TGAATTCAACTCTAAGGCTTAAATTTGATTATATATAAACCTAATAATGT
24775440 ATTT
1 ATTT
24775444 ATTAAGTCTT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.41
Consensus pattern (115 bp):
ATTTTCTAGACGTGATAAAAGCGAGAATAACGAGTTTTAGACTTTATTTGGCTTTTAAATCATAT
TGAATTCAACTCTAAGGCTTAAATTTGATTATATATAAACCTAATAATGT
Found at i:24777384 original size:25 final size:23
Alignment explanation
Indices: 24777344--24777394 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
24777334 TTAAAGGTGC
24777344 AAATTAAAAATAAAAA-GTAAATA
1 AAATTAAAAATAAAAATG-AAATA
*
24777367 AAATTAACTAAATTAAAATGAAATA
1 AAATTAA--AAATAAAAATGAAATA
24777392 AAA
1 AAA
24777395 ATTACAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.29
25 16 0.67
26 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
AAATTAAAAATAAAAATGAAATA
Found at i:24780040 original size:19 final size:19
Alignment explanation
Indices: 24779995--24780031 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24779985 ATTGATAAAA
*
24779995 AATAGCAAATGTTGGTCAC
1 AATAGCAAATATTGGTCAC
24780014 AATAGCAAATATTGGTCA
1 AATAGCAAATATTGGTCA
24780032 ACATTGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (19 bp):
AATAGCAAATATTGGTCAC
Found at i:24782749 original size:21 final size:21
Alignment explanation
Indices: 24782725--24782782 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
24782715 TAGTATAGAT
*
24782725 TTCTACTGATACAAGTGA-TAG
1 TTCTACTGATACAAGTGACT-C
*
24782746 TTCT-GTCGATACAAGTGACTC
1 TTCTACT-GATACAAGTGACTC
*
24782767 TTCTACCGATACAAGT
1 TTCTACTGATACAAGT
24782783 TTCACCTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
TTCTACTGATACAAGTGACTC
Found at i:24783096 original size:116 final size:115
Alignment explanation
Indices: 24782825--24783097 Score: 268
Period size: 116 Copynumber: 2.3 Consensus size: 115
24782815 CTAGAAATCT
* * * * *
24782825 TACCCTGCTACTTTTACCGATACA-AGTATAGGAACTACTAATATTTCTAAATACAGGACTACCA
1 TACCCTG-TACTTCTACCGATACACA-CAT-GGAACTACTGATACTTCTAAATACAGAACTACCA
* *
24782889 ACACTTGATATTCATCTATCGATACAACCTAAGTCAGTATGCAACCTCTCTCC
63 ACACTTGATATTCAACTACCGATACAACCTAAGTCAGTATGCAACCTCTCTCC
* * * * * *
24782942 T-CTCCTATACTTCTACCGATACACACATGCAAAATACTGATACTTCTAAATACATAACTATCGA
1 TAC-CCTGTACTTCTACCGATACACACATG-GAACTACTGATACTTCTAAATACAGAACTACCAA
* * * *
24783006 TACTTGTTATTCAACTACCGATACAATCC-AAGTTAG-A-GAACAACTTCTCTCC
64 CACTTGATATTCAACTACCGATACAA-CCTAAGTCAGTATG--CAACCTCTCTCC
*
24783058 TACCCTGTACTTCTACCGATACACCCATGGATACTACTGA
1 TACCCTGTACTTCTACCGATACACACATGGA-ACTACTGA
24783098 AACAAGGATT
Statistics
Matches: 127, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
114 1 0.01
115 3 0.02
116 115 0.91
117 8 0.06
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (115 bp):
TACCCTGTACTTCTACCGATACACACATGGAACTACTGATACTTCTAAATACAGAACTACCAACA
CTTGATATTCAACTACCGATACAACCTAAGTCAGTATGCAACCTCTCTCC
Found at i:24783657 original size:52 final size:52
Alignment explanation
Indices: 24783579--24783765 Score: 234
Period size: 52 Copynumber: 3.6 Consensus size: 52
24783569 TACATTTTTG
* * * * *
24783579 ATACTCACGATGACAAAGAGTCATCGGACCT-TTAATCCGTATTGAGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTA-AGAGATTCAT
* *
24783631 ATACTCAAGATGACACATAGTTATCGGACCTCATAATCCGTAA-AGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGA-GATTCAT
* ** * *
24783683 ATACTCACGATGACATATAGTCATCAAACCTCATAATCCATAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGAGATTCAT
24783735 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
24783766 ATTTCATTCA
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
51 1 0.01
52 105 0.91
53 10 0.09
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAGAGATTCAT
Found at i:24790158 original size:116 final size:116
Alignment explanation
Indices: 24789941--24790188 Score: 288
Period size: 116 Copynumber: 2.1 Consensus size: 116
24789931 CTTACCCTGC
* * * * * *
24789941 TACTTCTACCGATACAAGTATAGGAACTACCGATATTTCTAAATACATGACTATCGACACTTGAT
1 TACTTCTACCGATACAAGCATAGAAAATACCGATACTTCTAAATACATAACTACCGACACTTGAT
* * *
24790006 ATTCATCTACCGATACAACCTAAGTCAGTATGCAACCTCTCTCCT-CTCTTG
66 ATTCAACTACCGATACAACCCAAGTCAGTATGCAACCTCTCTCCTAC-CTTA
* * ** *
24790057 TACTTCTACCAATACAAGCAT-GCAAAATACTGATACTTCTAAATACATAACTACCGATGCTTGT
1 TACTTCTACCGATACAAGCATAG-AAAATACCGATACTTCTAAATACATAACTACCGACACTTGA
* *
24790121 TATTCAACTACCGATATAACCCAAGTTAG-A-GAACAACCTCTCTCCTACCTTA
65 TATTCAACTACCGATACAACCCAAGTCAGTATG--CAACCTCTCTCCTACCTTA
24790173 TACTTCTACCGATACA
1 TACTTCTACCGATACA
24790189 CCCATGGATA
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
114 1 0.01
115 2 0.02
116 107 0.96
117 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (116 bp):
TACTTCTACCGATACAAGCATAGAAAATACCGATACTTCTAAATACATAACTACCGACACTTGAT
ATTCAACTACCGATACAACCCAAGTCAGTATGCAACCTCTCTCCTACCTTA
Found at i:24790765 original size:52 final size:52
Alignment explanation
Indices: 24790687--24790873 Score: 259
Period size: 52 Copynumber: 3.6 Consensus size: 52
24790677 TACATTTTTG
* * * * * *
24790687 ATACTTACGATGACATAGAGTCATCGGACCT-TTAATCCGTATTAGGAATCAT
1 ATACTCACGATGACAAATAGTCATCGGACCTCATAATCCGTA-AAGGATTCAT
24790739 ATACTCACGATGACAAATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACAAATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
24790791 ATACTCACAATGACAAATAGTCATCGAACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACAAATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
24790843 ATGCTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACAAATAGTCATCGGACCT
24790874 ATTTACTTCA
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
52 112 0.93
53 9 0.07
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACAAATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:24792265 original size:21 final size:21
Alignment explanation
Indices: 24792241--24792285 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
24792231 GCTTCTTTCG
*
24792241 CTTGCCTCGCTGCTGCCTCCA
1 CTTGCCTCCCTGCTGCCTCCA
24792262 CTTGCCTCCCTGCTGCCTCCA
1 CTTGCCTCCCTGCTGCCTCCA
24792283 CTT
1 CTT
24792286 TAAGTTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.49, G:0.16, T:0.31
Consensus pattern (21 bp):
CTTGCCTCCCTGCTGCCTCCA
Found at i:24792353 original size:66 final size:66
Alignment explanation
Indices: 24792277--24792424 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
24792267 CTCCCTGCTG
* * *
24792277 CCTCCACTTTAAGTTGTATG-TGGAGTTCTTCATATTTTTTTTGAGATTCTGCTTCTCTCACTGC
1 CCTCCTCTTTAAGTTGTA-GATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
24792341 AA
65 AA
* * **
24792343 CCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGCA
1 CCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
*
24792408 G
66 A
24792409 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
24792425 AGCAATTTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.01
66 71 0.99
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
A
Found at i:24797950 original size:18 final size:18
Alignment explanation
Indices: 24797927--24798430 Score: 128
Period size: 18 Copynumber: 29.9 Consensus size: 18
24797917 CTGTTTTTAT
24797927 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
*
24797945 TAATTAAA-AATTTAATA
1 TAATTAAATAATTAAATA
** *
24797962 TAATTATTTACCTT-AATA
1 TAATTAAATA-ATTAAATA
24797980 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
24797998 T--TT-AAT--TT-AATA
1 TAATTAAATAATTAAATA
** *
24798010 TAATTATTTAATTTAATA
1 TAATTAAATAATTAAATA
*
24798028 TAATTAAATAATTAAATC
1 TAATTAAATAATTAAATA
24798046 T--TT---TAACTT-AATA
1 TAATTAAATAA-TTAAATA
** * *
24798059 TAATTAGTTACTTTAATA
1 TAATTAAATAATTAAATA
*
24798077 TAATTAAATAATTAAATC
1 TAATTAAATAATTAAATA
24798095 T--TT---TAACTT-AATA
1 TAATTAAATAA-TTAAATA
*
24798108 TAATTAAATAATTAAATC
1 TAATTAAATAATTAAATA
24798126 T--TT-AAT--TT-AATA
1 TAATTAAATAATTAAATA
** * *
24798138 TAATTATTTACTTTAATA
1 TAATTAAATAATTAAATA
*
24798156 TAATTAAATAATTAAATC
1 TAATTAAATAATTAAATA
24798174 T--TT---TAACTT-AATA
1 TAATTAAATAA-TTAAATA
* ** * *
24798187 TAATCATTTACTTTAATA
1 TAATTAAATAATTAAATA
*
24798205 TAATTAAATAATTAAATCTTT
1 TAATTAAATAATTAAA---TA
*
24798226 TAACTTAAAT-ATTTAAT-
1 TAA-TTAAATAATTAAATA
* * **
24798243 TAATCGATAGTGTTTATAAT-
1 TAAT-TA-AATAATTA-AATA
* * *
24798263 TAAATACATAATTAAACA
1 TAATTAAATAATTAAATA
* *
24798281 TGATTAAATAATTTAATA
1 TAATTAAATAATTAAATA
** * *
24798299 TAATTATTTAGTTTAATA
1 TAATTAAATAATTAAATA
24798317 TAATTAAATAATT--ATA
1 TAATTAAATAATTAAATA
* **
24798333 T-CTTTTA-AATT-AATA
1 TAATTAAATAATTAAATA
* ** * *
24798348 TACTTATTTACTTTAATA
1 TAATTAAATAATTAAATA
24798366 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
24798384 T--TT-AAT--TT-AATA
1 TAATTAAATAATTAAATA
** * *
24798396 TAATTATTTACTTTAATA
1 TAATTAAATAATTAAATA
24798414 TAATTAAATAATTAAAT
1 TAATTAAATAATTAAAT
24798431 CTTTTAACTT
Statistics
Matches: 351, Mismatches: 80, Indels: 110
0.65 0.15 0.20
Matches are distributed among these distances:
12 14 0.04
13 27 0.08
14 16 0.05
15 24 0.07
16 21 0.06
17 37 0.11
18 186 0.53
19 5 0.01
20 6 0.02
21 9 0.03
22 6 0.02
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (18 bp):
TAATTAAATAATTAAATA
Found at i:24798057 original size:31 final size:29
Alignment explanation
Indices: 24798016--24798143 Score: 94
Period size: 31 Copynumber: 4.6 Consensus size: 29
24798006 AATATAATTA
*
24798016 TTTAATTTAATATAATTAAATAATTAAATC
1 TTTAACTTAATATAATTAAATAATTAAA-C
** * *
24798046 TTTTAACTTAATATAATTAGTTACTTTAA-
1 -TTTAACTTAATATAATTAAATAATTAAAC
* *
24798075 TATAA-TTAA-ATAATTAAAT--CT----
1 TTTAACTTAATATAATTAAATAATTAAAC
24798096 TTTAACTTAATATAATTAAATAATTAAATC
1 TTTAACTTAATATAATTAAATAATTAAA-C
*
24798126 TTTAATTTAATATAATTA
1 TTTAACTTAATATAATTA
24798144 TTTACTTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
21 4 0.05
22 4 0.05
23 10 0.13
24 1 0.01
25 1 0.01
26 8 0.11
27 4 0.05
28 4 0.05
30 17 0.22
31 23 0.30
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.48
Consensus pattern (29 bp):
TTTAACTTAATATAATTAAATAATTAAAC
Found at i:24798074 original size:49 final size:49
Alignment explanation
Indices: 24797956--24798442 Score: 345
Period size: 49 Copynumber: 10.1 Consensus size: 49
24797946 AATTAAAAAT
* * *
24797956 TTAATATAATTATTTACCTTAATATAATTAAATAATTAAAT-ATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
24798004 TTAATATAATTATTTAATTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
24798053 TTAATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
** * ** *
24798102 TTAATATAATTAAATA-ATTAA-ATCTTTAATTTAA-TATAAT-TATTT-AC
1 TTAATATAATTATTTACTTTAATATAATTAA-ATAATTA-AATCT-TTTAAC
** * * * * * *
24798149 TTTAATATAATTAAATAATTAAATCT-TTTAACTTAA-TATAATCATTT-AC
1 -TTAATATAATTATTTACTTTAATATAATTAA-ATAATTA-AATCTTTTAAC
** * * * *
24798198 TTTAATATAATTAAATA-ATTAA-AT-CTT--TTAACTTAAAT-ATTTAA-
1 -TTAATATAATTATTTACTTTAATATAATTAAATAA-TTAAATCTTTTAAC
* * * * *
24798242 TTAATCGAT-AGTGTTTA---TAAT-TAAATACATAATTAAA-CATGATTAAATAAT
1 TTAAT--ATAATTATTTACTTTAATATAATTAAATAATTAAATC-T--TT---TAAC
* * *
24798293 TTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * *
24798342 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
24798390 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
24798439 TTAA
1 TTAA
24798443 ATATTTAATT
Statistics
Matches: 364, Mismatches: 43, Indels: 63
0.77 0.09 0.13
Matches are distributed among these distances:
42 4 0.01
43 6 0.02
44 17 0.05
45 9 0.02
46 2 0.01
47 16 0.04
48 116 0.32
49 158 0.43
50 10 0.03
51 5 0.01
52 2 0.01
53 4 0.01
54 14 0.04
55 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (49 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
Found at i:24798123 original size:128 final size:128
Alignment explanation
Indices: 24797968--24798453 Score: 551
Period size: 128 Copynumber: 3.8 Consensus size: 128
24797958 AATATAATTA
*
24797968 TTTACCTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAATTTAATATAATT
1 TTTAACTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAATTTAATATAATT
*
24798033 AAATAATTAAATCTTTTAACTTAATATAATTAGTTACTTTAATATAATTAAATAATTAAATCT
66 AAATAATTAAATCTTTTAACTTAATATAATTAATTACTTTAATATAATTAAATAATTAAATCT
* *
24798096 TTTAACTTAATATAATTAAATAATTAAATCTTTAATTTAATATAATTATTTACTTTAATATAATT
1 TTTAACTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAATTTAATATAATT
* *
24798161 AAATAATTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCT
66 AAATAATTAAATCTTTTAACTTAATATAATTAATTACTTTAATATAATTAAATAATTAAATCT
* * ** * * ** * * *
24798224 TTTAACTTAA-ATATTTAATTAA-TCGATAGTGTT--TATAAT-TAAATACATAATTAAACATGA
1 TTTAACTTAATATAATTAAATAATTAAATA-T-TTAATTTAATATAATTATTTAATTTAATATAA
* ** * * * **
24798284 TTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA-ATT-ATAT-CTTTTA-AATTA
64 TTAAATAA-TTAA-AT--CT-TTTAACTTAATATAATTAATTACTTTAATATAATTAAATAATTA
24798345 ATATACT
124 A-AT-CT
* *
24798352 TATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTACTTTAATATAA
1 T-TTAAC-TTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAATTTAATATAA
*
24798417 TTAAATAATTAAATCTTTTAACTTAA-ATATTTAATTA
64 TTAAATAATTAAATCTTTTAACTTAATATAATTAATTA
24798454 ATCGATAGTG
Statistics
Matches: 296, Mismatches: 46, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
125 22 0.07
126 18 0.06
127 27 0.09
128 150 0.51
129 8 0.03
130 23 0.08
131 13 0.04
132 13 0.04
133 22 0.07
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (128 bp):
TTTAACTTAATATAATTAAATAATTAAATATTTAATTTAATATAATTATTTAATTTAATATAATT
AAATAATTAAATCTTTTAACTTAATATAATTAATTACTTTAATATAATTAAATAATTAAATCT
Found at i:24798136 original size:79 final size:80
Alignment explanation
Indices: 24798016--24798190 Score: 316
Period size: 79 Copynumber: 2.2 Consensus size: 80
24798006 AATATAATTA
*
24798016 TTTAATTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAGTTACTTTAATATAAT
1 TTTAACTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAGTTACTTTAATATAAT
24798081 TAAATAATTAAATCT
66 TAAATAATTAAATCT
* *
24798096 TTTAACTTAATATAATTAAATAATTAAATC-TTTAATTTAATATAATTATTTACTTTAATATAAT
1 TTTAACTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAGTTACTTTAATATAAT
24798160 TAAATAATTAAATCT
66 TAAATAATTAAATCT
24798175 TTTAACTTAATATAAT
1 TTTAACTTAATATAAT
24798191 CATTTACTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 63 0.68
80 29 0.32
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (80 bp):
TTTAACTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTAGTTACTTTAATATAAT
TAAATAATTAAATCT
Found at i:24798410 original size:209 final size:209
Alignment explanation
Indices: 24798102--24798541 Score: 810
Period size: 209 Copynumber: 2.1 Consensus size: 209
24798092 ATCTTTTAAC
* *
24798102 TTAATATAATTAAATAATTAAATCTTTAATTTAATATAATTATTTACTTTAATATAATTAAATAA
1 TTAATATAATTAAATAATTATATCTTTAAATTAATATAATTATTTACTTTAATATAATTAAATAA
*
24798167 TTAAATCTTTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT
66 TTAAATCATTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT
24798232 AAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAA
131 AAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAA
24798297 TATAATTATTTAGT
196 TATAATTATTTAGT
*
24798311 TTAATATAATTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATATAATTAAATA
1 TTAATATAATTAAATAATTATATC-TTTAAATTAATATAATTATTTACTTTAATATAATTAAATA
* *
24798376 ATTAAAT-ATTTAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACT
65 ATTAAATCATTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACT
24798440 TAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTA
130 TAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTA
24798505 ATATAATTATTTAGT
195 ATATAATTATTTAGT
24798520 TTAATATAATTAAATAATTATA
1 TTAATATAATTAAATAATTATA
24798542 ATCAAGCTGA
Statistics
Matches: 224, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
209 179 0.80
210 45 0.20
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (209 bp):
TTAATATAATTAAATAATTATATCTTTAAATTAATATAATTATTTACTTTAATATAATTAAATAA
TTAAATCATTTAACTTAATATAATCATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT
AAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTTAA
TATAATTATTTAGT
Found at i:24798513 original size:18 final size:18
Alignment explanation
Indices: 24798492--24798543 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
24798482 ATTAAACATG
24798492 ATTAAATAATTTAATATA
1 ATTAAATAATTTAATATA
** *
24798510 ATTATTTAGTTTAATATA
1 ATTAAATAATTTAATATA
24798528 ATTAAATAATTATAAT
1 ATTAAATAATT-TAAT
24798544 CAAGCTGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTAAATAATTTAATATA
Found at i:24801000 original size:14 final size:14
Alignment explanation
Indices: 24800963--24801001 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
24800953 ATTTTAATAT
*
24800963 TTAGATTAATTTGGG
1 TTAGATTTA-TTGGG
24800978 TTA-ATTTATTGGG
1 TTAGATTTATTGGG
24800991 TTAGATTTATT
1 TTAGATTTATT
24801002 TGAGTTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 8 0.36
14 11 0.50
15 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (14 bp):
TTAGATTTATTGGG
Found at i:24802478 original size:42 final size:41
Alignment explanation
Indices: 24802386--24802952 Score: 355
Period size: 41 Copynumber: 13.8 Consensus size: 41
24802376 TTTAAATAAA
* * * *
24802386 TTAGCGGCGCTTATGGGAAAGCGCTGCTAAT-TCAC--ACCT
1 TTAGCGGCGCTTATTGAAAAGCGCCGCTAATGAC-CTGACCT
*
24802425 TTAGCGACGCTTATTAGAAAAGCGCCGCTAATGACCTGACCT
1 TTAGCGGCGCTTATT-GAAAAGCGCCGCTAATGACCTGACCT
* * *
24802467 TTAGCGGCGCTTTATAT-ATAAGCGCCGCTAATGACCCGAACT
1 TTAGCGGCGC-TTAT-TGAAAAGCGCCGCTAATGACCTGACCT
* * *
24802509 TTAGCGGCACTTGA-GGAAAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTT-ATTGAAAAGCGCCGCTAATGACCTGACC-T
*
24802551 TTAGCGGCGCTTGAATG-AAAGCGCCGCTAAATGATCCT-ACCT
1 TTAGCGGCGCTT-ATTGAAAAGCGCCGCT-AATGA-CCTGACCT
**** *
24802593 TTAGCGGCGCTT-TCCCTCAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTAT-TGAAAAGCGCCGCTAATGACCTGACC-T
* * * * *
24802635 TTCGTGGCGCTTCA-GGGAAAGCGCCGCTAATGATCAT-ACCT
1 TTAGCGGCGCTT-ATTGAAAAGCGCCGCTAATGA-CCTGACCT
* * *
24802676 TTAGCGGCGCTTGAGTT--AAAGTGCCGCTAATTACCTGGCCT
1 TTAGCGGCGCTT-A-TTGAAAAGCGCCGCTAATGACCTGACCT
* * * *
24802717 TTAGCGGCACTTGA-GGGAAAGCGCCGCTAATTACCCT-ACCT
1 TTAGCGGCGCTT-ATTGAAAAGCGCCGCTAATGA-CCTGACCT
* * *
24802758 TTAGCGGCGC--ATTAGAAAAAACGCCGCTAATGACTTGAACT
1 TTAGCGGCGCTTATT-G-AAAAGCGCCGCTAATGACCTGACCT
* **
24802799 TTAGCGGCGCTT-GTGATAAAGCGCCGCTAATGACCCCACCT
1 TTAGCGGCGCTTATTGA-AAAGCGCCGCTAATGACCTGACCT
* * * * **
24802840 TTAGCGGCGCTTGTGGGTAAAGCGCCGTTAATGACCCCACCT
1 TTAGCGGCGCTTAT-TGAAAAGCGCCGCTAATGACCTGACCT
** * * *
24802882 TTAGCGGCGCTT-TTGTTAAGCACCGCTAATG-CTTTACCT
1 TTAGCGGCGCTTATTGAAAAGCGCCGCTAATGACCTGACCT
* * *
24802921 TTTGCGGCCCATTA-AGAAAAGCGCCGCTAATG
1 TTAGCGGCGC-TTATTGAAAAGCGCCGCTAATG
24802953 TTTTACCTTT
Statistics
Matches: 421, Mismatches: 71, Indels: 71
0.75 0.13 0.13
Matches are distributed among these distances:
38 1 0.00
39 26 0.06
40 53 0.13
41 162 0.38
42 161 0.38
43 15 0.04
44 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTATTGAAAAGCGCCGCTAATGACCTGACCT
Found at i:24802535 original size:83 final size:82
Alignment explanation
Indices: 24802441--24802952 Score: 460
Period size: 82 Copynumber: 6.2 Consensus size: 82
24802431 ACGCTTATTA
* * *
24802441 GAAAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTATATATAAGCGCCGCTAATGACCCGA
1 GAAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTAGATA-AAGCGCCGCTAATGACCCTA
* *
24802506 ACTTTAGCGGCACTTGAG
65 CCTTTAGCGGCGCTTGAG
* *
24802524 GAAAAGCGCCGCTAATGACCCGACCTTTTAGCGGCGCTTGA-ATGAAAGCGCCGCTAAATGATCC
1 GAAAAGCGCCGCTAATGACCCGACC-TTTAGCGGCGCTTTAGAT-AAAGCGCCGCT-AATGACCC
***
24802588 TACCTTTAGCGGCGCTTTCC
63 TACCTTTAGCGGCGCTTGAG
*** * * * ** * *
24802608 CTCAAGCGCCGCTAATGACCCGACCTTTTCGTGGCGCTTCAGGGAAAGCGCCGCTAATGATCATA
1 GAAAAGCGCCGCTAATGACCCGACC-TTTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCTA
24802673 CCTTTAGCGGCGCTTGAG
65 CCTTTAGCGGCGCTTGAG
** * * * * * * ** *
24802691 TTAAAGTGCCGCTAATTACCTGGCCTTTAGCGGCACTTGAGGGAAAGCGCCGCTAATTACCCTAC
1 GAAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCTAC
24802756 CTTTAGCGGCGCATT-AG
66 CTTTAGCGGCGC-TTGAG
* * ** * *
24802773 AAAAAACGCCGCTAATGACTTGAACTTTAGCGGCGCTTGT-GATAAAGCGCCGCTAATGACCCCA
1 GAAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTT-TAGATAAAGCGCCGCTAATGACCCTA
*
24802837 CCTTTAGCGGCGCTTGTGG
65 CCTTTAGCGGCGCTTG-AG
* * * * * * **
24802856 GTAAAGCGCCGTTAATGACCCCACCTTTAGCGGCGCTTTTG-TTAAGCACCGCTAATG-CTTTAC
1 GAAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCTAC
* * *
24802919 CTTTTGCGGCCCATT-AA
66 CTTTAGCGGCGC-TTGAG
24802936 GAAAAGCGCCGCTAATG
1 GAAAAGCGCCGCTAATG
24802953 TTTTACCTTT
Statistics
Matches: 351, Mismatches: 68, Indels: 23
0.79 0.15 0.05
Matches are distributed among these distances:
80 15 0.04
81 15 0.04
82 126 0.36
83 113 0.32
84 82 0.23
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
GAAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTAGATAAAGCGCCGCTAATGACCCTAC
CTTTAGCGGCGCTTGAG
Found at i:24802543 original size:41 final size:41
Alignment explanation
Indices: 24802386--24802893 Score: 420
Period size: 41 Copynumber: 12.3 Consensus size: 41
24802376 TTTAAATAAA
* * * *
24802386 TTAGCGGCGCTT-ATGGGAAAGCGCTGCTAAT-TCAC-ACCT
1 TTAGCGGCGCTTGA-GGAAAAGCGCCGCTAATGACCCGACCT
* * *
24802425 TTAGCGACGCTT-ATTAGAAAAGCGCCGCTAATGACCTGACCT
1 TTAGCGGCGCTTGA--GGAAAAGCGCCGCTAATGACCCGACCT
* * *
24802467 TTAGCGGCGCTTTA-TATATAAGCGCCGCTAATGACCCGAACT
1 TTAGCGGCGCTTGAGGA-A-AAGCGCCGCTAATGACCCGACCT
*
24802509 TTAGCGGCACTTGAGGAAAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACC-T
* * *
24802551 TTAGCGGCGCTTGAATG-AAAGCGCCGCTAAATGATCCTACCT
1 TTAGCGGCGCTTG-AGGAAAAGCGCCGCT-AATGACCCGACCT
******
24802593 TTAGCGGCGCTTTCCCTCAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACC-T
* * * * * **
24802635 TTCGTGGCGCTTCAGGGAAAGCGCCGCTAATGATCATACCT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
** * * * *
24802676 TTAGCGGCGCTTGAGTTAAAGTGCCGCTAATTACCTGGCCT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
* * * *
24802717 TTAGCGGCACTTGAGGGAAAGCGCCGCTAATTACCCTACCT
1 TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
* * ** *
24802758 TTAGCGGCGCATT-AGAAAAAACGCCGCTAATGACTTGAACT
1 TTAGCGGCGC-TTGAGGAAAAGCGCCGCTAATGACCCGACCT
* *
24802799 TTAGCGGCGCTTG-TGATAAAGCGCCGCTAATGACCCCACCT
1 TTAGCGGCGCTTGAGGA-AAAGCGCCGCTAATGACCCGACCT
* * * *
24802840 TTAGCGGCGCTTGTGGGTAAAGCGCCGTTAATGACCCCACCT
1 TTAGCGGCGCTTG-AGGAAAAGCGCCGCTAATGACCCGACCT
24802882 TTAGCGGCGCTT
1 TTAGCGGCGCTT
24802894 TTGTTAAGCA
Statistics
Matches: 378, Mismatches: 74, Indels: 31
0.78 0.15 0.06
Matches are distributed among these distances:
39 12 0.03
40 19 0.05
41 169 0.45
42 163 0.43
43 15 0.04
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTGAGGAAAAGCGCCGCTAATGACCCGACCT
Found at i:24809400 original size:19 final size:19
Alignment explanation
Indices: 24809378--24809422 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24809368 TTATATTAGG
24809378 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATAT
* *
24809397 ATTTATTATTTAAATTTAT
1 ATTTAATATTTAAATATAT
24809416 ATTTAAT
1 ATTTAAT
24809423 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATAT
Found at i:24813035 original size:12 final size:12
Alignment explanation
Indices: 24813018--24813074 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 12
24813008 GGCAACCTAA
24813018 TTATTTTTATTT
1 TTATTTTTATTT
24813030 TTATTTTTATTT
1 TTATTTTTATTT
24813042 TT-TTTCTCTA-TT
1 TTATTT-T-TATTT
24813054 TTATTTATTTATTT
1 TTA-TT-TTTATTT
24813068 ATTATTT
1 -TTATTT
24813075 GCCCAGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
11 3 0.08
12 19 0.50
13 5 0.13
14 7 0.18
15 4 0.11
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:24813954 original size:40 final size:40
Alignment explanation
Indices: 24813908--24813996 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
24813898 TTTGGAAACA
* * *
24813908 AAGCGCCGCAAAAGATGAAGCATTAGCGGCGCTTTTCC-T
1 AAGCGCCGCAAAAGATAAAGCATTAGCGACGCTTTCCCAT
*
24813947 AATGCGCCGCAAAAGGTAAAGCATTAGCGACGCTTTCCCAT
1 AA-GCGCCGCAAAAGATAAAGCATTAGCGACGCTTTCCCAT
24813988 AAGCGCCGC
1 AAGCGCCGC
24813997 TAATTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.05
40 39 0.89
41 3 0.07
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (40 bp):
AAGCGCCGCAAAAGATAAAGCATTAGCGACGCTTTCCCAT
Found at i:24815502 original size:19 final size:19
Alignment explanation
Indices: 24815480--24815524 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24815470 TTATATTAGG
24815480 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
24815499 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
24815518 ATTTAAT
1 ATTTAAT
24815525 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:24821805 original size:22 final size:20
Alignment explanation
Indices: 24821755--24821879 Score: 67
Period size: 19 Copynumber: 6.0 Consensus size: 20
24821745 CTATCATAAA
*
24821755 AAATAACAAATAAATAAAAT
1 AAATAAAAAATAAATAAAAT
**
24821775 GCATAAAAATAATAAATAAAATT
1 AAAT-AAAA-AATAAATAAAA-T
* **
24821798 AAAT-AAAAACAAA-AATGT
1 AAATAAAAAATAAATAAAAT
* *
24821816 AAATAACAAAGAAAT-AAAT
1 AAATAAAAAATAAATAAAAT
*
24821835 AAATAAAAATTAAATATTAAAT
1 AAATAAAAAATAAATA--AAAT
24821857 AAAATAATGAAAATAATATAAAA
1 -AAATAA--AAAATAA-ATAAAA
24821880 ATATAAATGG
Statistics
Matches: 77, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
18 5 0.06
19 23 0.30
20 7 0.09
21 6 0.08
22 15 0.19
23 9 0.12
24 3 0.04
25 6 0.08
26 3 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (20 bp):
AAATAAAAAATAAATAAAAT
Found at i:24823916 original size:10 final size:10
Alignment explanation
Indices: 24823900--24823957 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
24823890 ATATAATTTA
24823900 TTTTCCTTTC
1 TTTTCCTTTC
* *
24823910 CTTTCCTCTC
1 TTTTCCTTTC
*
24823920 CTTT-CTTTC
1 TTTTCCTTTC
*
24823929 TTTTCTTTTC
1 TTTTCCTTTC
**
24823939 TTTTGTTTTC
1 TTTTCCTTTC
24823949 TTTTCCTTT
1 TTTTCCTTT
24823958 GAATCCAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 7 0.18
10 32 0.82
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTCCTTTC
Found at i:24823949 original size:15 final size:15
Alignment explanation
Indices: 24823924--24823958 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24823914 CCTCTCCTTT
*
24823924 CTTTCTTTTCTTTTC
1 CTTTGTTTTCTTTTC
*
24823939 TTTTGTTTTCTTTTC
1 CTTTGTTTTCTTTTC
24823954 CTTTG
1 CTTTG
24823959 AATCCAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (15 bp):
CTTTGTTTTCTTTTC
Found at i:24825831 original size:49 final size:49
Alignment explanation
Indices: 24825728--24825833 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 49
24825718 AGTCAAGTTG
* * *
24825728 CTAGAAACAAAATATTGTGGTCGAGCCACCAGATAATGCAAATATACTT
1 CTAGATACAAAATATTGTGGTCAAGCCACCAGATAATGCAAATATACTA
* * *
24825777 CTAGATACAGAATATTGTGGTCAAGCCACTAGA-AATTGCAGATATACTA
1 CTAGATACAAAATATTGTGGTCAAGCCACCAGATAA-TGCAAATATACTA
24825826 CTAGATAC
1 CTAGATAC
24825834 TTACTTCATA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 2 0.04
49 48 0.96
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (49 bp):
CTAGATACAAAATATTGTGGTCAAGCCACCAGATAATGCAAATATACTA
Found at i:24828136 original size:20 final size:20
Alignment explanation
Indices: 24828072--24828157 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 20
24828062 GGCCTGAAGC
* *
24828072 TATTTTGACTTGTTTGAAAAA
1 TATTTTGACTTGGTT-AAAAT
**
24828093 TATTTTGAAGT-GTTAAAAT
1 TATTTTGACTTGGTTAAAAT
* *
24828112 GATTTTGACTTGGTTCAAAT
1 TATTTTGACTTGGTTAAAAT
*
24828132 TATTTTGACTTGTTTAAAAT
1 TATTTTGACTTGGTTAAAAT
*
24828152 CATTTT
1 TATTTT
24828158 AACTCAATTT
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
19 12 0.23
20 31 0.60
21 9 0.17
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (20 bp):
TATTTTGACTTGGTTAAAAT
Found at i:24828149 original size:40 final size:40
Alignment explanation
Indices: 24828073--24828157 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
24828063 GCCTGAAGCT
* *
24828073 ATTTTGACTTGTTTGAAAAATATTTTGAAGTGTTAAAATG
1 ATTTTGACTTGGTTGAAAAATATTTTGAAGTGTTAAAATC
* * **
24828113 ATTTTGACTTGGTT-CAAATTATTTTGACTTGTTTAAAATC
1 ATTTTGACTTGGTTGAAAAATATTTTGAAGTG-TTAAAATC
24828153 ATTTT
1 ATTTT
24828158 AACTCAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 13 0.34
40 25 0.66
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (40 bp):
ATTTTGACTTGGTTGAAAAATATTTTGAAGTGTTAAAATC
Found at i:24831085 original size:27 final size:27
Alignment explanation
Indices: 24830976--24831085 Score: 107
Period size: 27 Copynumber: 4.1 Consensus size: 27
24830966 TAACCCTTTT
* *
24830976 CACAAAAGCA-TTCATGTCATATTTCAC
1 CACAAAAGCATTTC-TTTCATATTACAC
*
24831003 CACAAAAG-ATTTCTTTCATATCACAC
1 CACAAAAGCATTTCTTTCATATTACAC
* * * ***
24831029 AACAAAGGCATTCCTTTCATATTTTGC
1 CACAAAAGCATTTCTTTCATATTACAC
*
24831056 CACAAAAGCATTTCTTTCATATTACTC
1 CACAAAAGCATTTCTTTCATATTACAC
24831083 CAC
1 CAC
24831086 GAAGGCTTCA
Statistics
Matches: 65, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
26 17 0.26
27 48 0.74
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (27 bp):
CACAAAAGCATTTCTTTCATATTACAC
Found at i:24834172 original size:22 final size:21
Alignment explanation
Indices: 24834146--24834188 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
24834136 CAACAAATGA
24834146 TTTTA-AAATTATAAAAGTTATT
1 TTTTAGAAA-TATAAAA-TTATT
24834168 TTTTAGAAATATAAAATTATT
1 TTTTAGAAATATAAAATTATT
24834189 AAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTAGAAATATAAAATTATT
Found at i:24834208 original size:30 final size:31
Alignment explanation
Indices: 24834149--24834228 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 31
24834139 CAAATGATTT
*
24834149 TAAAATTA-TAAAAGTTATTTTTTAGAAATA
1 TAAAATTATTAAAAATTATTTTTTAGAAATA
24834179 TAAAATTATTAAAAA-TATTTTTTTA-AAATA
1 TAAAATTATTAAAAATTA-TTTTTTAGAAATA
*
24834209 -ATAATTATTAAATAATTATT
1 TAAAATTATTAAA-AATTATT
24834229 AAATTATGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 11 0.25
30 19 0.43
31 14 0.32
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
TAAAATTATTAAAAATTATTTTTTAGAAATA
Found at i:24834224 original size:11 final size:11
Alignment explanation
Indices: 24834208--24834232 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24834198 TTTTTAAAAT
24834208 AATAATTATTA
1 AATAATTATTA
24834219 AATAATTATTA
1 AATAATTATTA
24834230 AAT
1 AAT
24834233 TATGATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATTATTA
Found at i:24837113 original size:20 final size:20
Alignment explanation
Indices: 24837084--24837127 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
24837074 AAATAGTTAA
*
24837084 AAAAAATTAAATCTTTGTTT
1 AAAAAATTAAATCTTTCTTT
* * *
24837104 AAAAATTTAATTTTTTCTTT
1 AAAAAATTAAATCTTTCTTT
24837124 AAAA
1 AAAA
24837128 TAACTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (20 bp):
AAAAAATTAAATCTTTCTTT
Found at i:24837415 original size:146 final size:145
Alignment explanation
Indices: 24836895--24837394 Score: 602
Period size: 146 Copynumber: 3.4 Consensus size: 145
24836885 AAACAAAATT
* * ** *
24836895 ACTACTTTACTTCAAAATCAAAACTTTTATTTTAAAATAGTTAAAAAAATCAAAATTTTGTTAAA
1 ACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAATTTTGTTTAA
* * *
24836960 AAATTTAAACTTTTTTTTAAAATCACTAAAAAACAGATTTTTATTTTTTAAAATTCTAAAATTTT
66 AAATTTAAACTTTTTTTTAAAATAACTAAAAAACAAATTTTTA-TTTTTAAAAATCT-AAA-TTT
* *
24837025 TTCTTTTTTTAATG-AAAA
128 CTC-TTTTTTAAAGAAAAA
* * * *
24837043 TC-A--TCACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAAT-TAAATCTTTGTTT
1 ACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAAT-TTTGTTT
* * * **
24837104 AAAAATTT-AATTTTTTCTTTAAAATAACTAAAAAAACCAATTTTTATTGTTAAAAAAATAAATT
64 AAAAATTTAAACTTTTT-TTTAAAATAACT-AAAAAACAAATTTTTATTTTTAAAAATCTAAATT
*
24837168 TCCTCTTTTTTAAAGAAAATC
127 T-CTCTTTTTTAAAGAAAA-A
24837189 ACTATTTTACTTAAAAATGC-AAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTT
1 ACTATTTTACTTAAAAAT-CAAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAATTTTGTTT
*
24837253 AAAAATTTAAAC-TTTTTTTAAAATAACTAAAAAGCAAATTTTTATTTTTAAAAATCTAAACTTT
64 AAAAATTTAAACTTTTTTTTAAAATAACTAAAAAACAAATTTTTATTTTTAAAAATCTAAA-TTT
*
24837317 GTCTTTTTTAAAGAAAAA
128 CTCTTTTTTAAAGAAAAA
* *
24837335 ACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATTGTTTAAAAAAACCAAAATTTT
1 ACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAG-TTAAAAAAATCAAAATTTT
24837395 TCCTAAAATC
Statistics
Matches: 304, Mismatches: 32, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
144 12 0.04
145 51 0.17
146 96 0.32
147 61 0.20
148 16 0.05
149 61 0.20
150 7 0.02
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (145 bp):
ACTATTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAATTTTGTTTAA
AAATTTAAACTTTTTTTTAAAATAACTAAAAAACAAATTTTTATTTTTAAAAATCTAAATTTCTC
TTTTTTAAAGAAAAA
Found at i:24837826 original size:3 final size:3
Alignment explanation
Indices: 24837810--24837856 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
24837800 AAATCCTAAA
24837810 AAC AAC AA- ATAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC A-AC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
24837855 AA
1 AA
24837857 TAATAATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:24837909 original size:11 final size:11
Alignment explanation
Indices: 24837901--24837925 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24837891 GCCCAAAAAG
24837901 AAAGAAAAATA
1 AAAGAAAAATA
24837912 AAAGAAAAATA
1 AAAGAAAAATA
24837923 AAA
1 AAA
24837926 ACCTCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAAAATA
Found at i:24838305 original size:42 final size:42
Alignment explanation
Indices: 24838259--24838696 Score: 553
Period size: 42 Copynumber: 10.4 Consensus size: 42
24838249 CTATGTTTAG
*
24838259 GCCTCTAATTGCAATGAAAAGTAAATGGACCTCCACACCTGA
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* ** * *
24838301 GCCTCCAAATGCAATGAAAAGTAAATGGACCTATACACTTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* * * * *
24838343 GCCACTAAATGCAACGAGAAGTAAATGGGCCTCCTCACCT-A
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* *
24838384 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGG
1 -GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
*
24838427 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCTACACCTGA
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* *
24838469 GCCTTTGAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* * *
24838511 CCCTCTAAATGCAATGAAAAGTAAATCGG-CCTCTACACCTGG
1 GCCTCTAAATGCAATGAAAAGTAAAT-GGACCTCCACACCTGA
24838553 GCCTCTGAATATG--ATGAAAAGTAAATGGACCTCCACACCT-A
1 GCCTCT-AA-ATGCAATGAAAAGTAAATGGACCTCCACACCTGA
** * *
24838594 GGCCTCTAAATGCAATGAAAAGTAAATGGGTCTTCACACCTGG
1 -GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
* * * *
24838637 GGCTCTGAATGCGATGAAAAGTAAATGGACCTCCACACCTGG
1 GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
24838679 GCCTCTAAATGCAATGAA
1 GCCTCTAAATGCAATGAA
24838697 TGCTTTCCTT
Statistics
Matches: 336, Mismatches: 50, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
40 3 0.01
41 4 0.01
42 322 0.96
43 4 0.01
44 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
GCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGA
Found at i:24845460 original size:26 final size:26
Alignment explanation
Indices: 24845430--24845479 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24845420 TTCATATAAG
*
24845430 ATGGTGACAGGTTTCGTATCTAACGT
1 ATGGTGACAGGTTTCGCATCTAACGT
24845456 ATGGTGACAGGTTTCGCATCTAAC
1 ATGGTGACAGGTTTCGCATCTAAC
24845480 ATGTTTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (26 bp):
ATGGTGACAGGTTTCGCATCTAACGT
Found at i:24847361 original size:4 final size:4
Alignment explanation
Indices: 24847348--24847381 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
24847338 TAAATAAACA
* *
24847348 AATG AGTG AATG AATG AATG AGTG AATG AATG AA
1 AATG AATG AATG AATG AATG AATG AATG AATG AA
24847382 ATTCAGGCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:24847369 original size:16 final size:16
Alignment explanation
Indices: 24847348--24847381 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24847338 TAAATAAACA
24847348 AATGAGTGAATGAATG
1 AATGAGTGAATGAATG
24847364 AATGAGTGAATGAATG
1 AATGAGTGAATGAATG
24847380 AA
1 AA
24847382 ATTCAGGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (16 bp):
AATGAGTGAATGAATG
Found at i:24852522 original size:146 final size:147
Alignment explanation
Indices: 24852140--24852671 Score: 651
Period size: 145 Copynumber: 3.6 Consensus size: 147
24852130 TTTCTTTTTC
* * * * * * *
24852140 TTTTTCTTTTTAAAATA-AAAGTTT-TCTTTTAATTAAAACAAAATTATTACTTTACTTGAAAAT
1 TTTTTATTTTAAAAATATAAACTTTCTCTTTT--TT-AAATAAAATCATTATTTTACTTAAAAAT
* * *
24852203 CAAAATTTTTATTTCGAAATAGTT--AAAAAATCAAAATTTTGTTTAAAAATTTAAATTTTTTCT
63 C-AAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAAATTTTTCT
*
24852266 TTAAAATCACTAAAAAACAGA
127 TTAAAATAACTAAAAAACAGA
*
24852287 TTTTTATTTTTTAAAAATATAAAC--T-T-TTTTTT-AATGAAAATCATTACTTTACTTAAAAAT
1 TTTTTA--TTTTAAAAATATAAACTTTCTCTTTTTTAAAT-AAAATCATTATTTTACTTAAAAAT
* * *
24852347 CCGAACTTTTATTTCGAAATAGTTAAAAAAAATTAAAA-TTTATTTAAAAATTTAAAATTTTTCT
63 -CAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAAATTTTTCT
24852411 TTAAAATAACTAAAAAACAGA
127 TTAAAATAACTAAAAAACAGA
*
24852432 TTTTTA-TTTAAAAAAATAAACTTTCTCTTTTTTAAATAAAATCACTT-TTTTACTTAAAAATCA
1 TTTTTATTTTAAAAATATAAACTTTCTCTTTTTTAAATAAAATCA-TTATTTTACTTAAAAATCA
* * *
24852495 AACTTTTATTTTGAGATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTT-AAACTTTTCTTTA
65 AACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAAATTTTTCTTTA
*
24852559 AAATAACTAAAAAACATA
130 AAATAACTAAAAAACAGA
* *
24852577 TTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTAAAGAAAATCATTATTTTACTTAAAAATCA
1 TTTTTA-TTTTAAAAATATAAACTTTCTCTTTTTTAAATAAAATCATTATTTTACTTAAAAATCA
*
24852642 AAGCTTTTATTTCGAAAGT-GTTTAAAAAAA
65 AA-CTTTTATTTCGAAA-TAGTTAAAAAAAA
24852672 GCCAAAATTT
Statistics
Matches: 339, Mismatches: 27, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
142 14 0.04
143 2 0.01
144 43 0.13
145 122 0.36
146 53 0.16
147 67 0.20
148 24 0.07
149 11 0.03
150 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (147 bp):
TTTTTATTTTAAAAATATAAACTTTCTCTTTTTTAAATAAAATCATTATTTTACTTAAAAATCAA
ACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAAATTTTTCTTTAA
AATAACTAAAAAACAGA
Found at i:24853155 original size:11 final size:11
Alignment explanation
Indices: 24853141--24853165 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24853131 GCCCAAAAAG
24853141 AAAGAAAAATA
1 AAAGAAAAATA
24853152 AAAGAAAAATA
1 AAAGAAAAATA
24853163 AAA
1 AAA
24853166 ACATCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAAAATA
Found at i:24853539 original size:42 final size:42
Alignment explanation
Indices: 24853493--24853859 Score: 529
Period size: 42 Copynumber: 8.7 Consensus size: 42
24853483 TCTATGCTTA
** *
24853493 GGCCTCTAGTTGCAATGAAAAGTAAATGGACCTCCACACTTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
** * *
24853535 GGCCTCTAAATGCAACAAAAAGTAAATGGGCCTCCACACCAG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* *
24853577 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCTACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
*
24853619 GGCCTCTAAATCCAATGAAAAGTAAATGGACCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
24853661 AGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCATACCTA
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* * *
24853703 GGCCGCTGAATGCAATGAAAAGTAAATGGGCCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
*
24853745 GGCCTCTAAATGCCATGAAAAGTAAATGGACCTCCACACCTG
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
* *
24853787 GGCTTCTAAGA-GCAATGAAAAGTAAATGAACCTCCACACCTG
1 GGCCTCTAA-ATGCAATGAAAAGTAAATGGACCTCCACACCTG
* *
24853829 GGCGTCTAAATGTAATGAAAAGTAAATGGAC
1 GGCCTCTAAATGCAATGAAAAGTAAATGGAC
24853860 ATCTGAATGC
Statistics
Matches: 289, Mismatches: 34, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
41 1 0.00
42 287 0.99
43 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (42 bp):
GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTG
Found at i:24862155 original size:5 final size:5
Alignment explanation
Indices: 24862145--24862180 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
24862135 TATATTTCTT
24862145 TTTTC TTTTC TTTTC TTTTC -TTT- TTTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
24862181 ATGTGACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
4 10 0.34
5 19 0.66
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTTC
Found at i:24862164 original size:22 final size:22
Alignment explanation
Indices: 24862139--24862180 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
24862129 TATAAATATA
24862139 TTTC-TTTTTTCTTTTCTTTTCT
1 TTTCTTTTTTTCTTTT-TTTTCT
24862161 TTTCTTTTTTTCTTTTTTTT
1 TTTCTTTTTTTCTTTTTTTT
24862181 ATGTGACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTCTTTTTTTCTTTTTTTTCT
Found at i:24867694 original size:17 final size:18
Alignment explanation
Indices: 24867662--24867699 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
24867652 TAAGAAATAA
24867662 AAATAAAAACCTAAAGAT
1 AAATAAAAACCTAAAGAT
*
24867680 AAATAAATA-CTAAAGAT
1 AAATAAAAACCTAAAGAT
24867697 AAA
1 AAA
24867700 GAATTCCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAAAACCTAAAGAT
Found at i:24870296 original size:20 final size:20
Alignment explanation
Indices: 24870270--24870346 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
24870260 GACTGACCCA
24870270 TTGACTTTGACCATTGACC-
1 TTGACTTTGACCATTGACCG
**
24870289 TATGACTTTGATTATTGACCG
1 T-TGACTTTGACCATTGACCG
**
24870310 TTGACTTTGACTGTTGACCG
1 TTGACTTTGACCATTGACCG
* *
24870330 TTGAATTTGAGCATTGA
1 TTGACTTTGACCATTGA
24870347 ATTTTTTACC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGACTTTGACCATTGACCG
Found at i:24870346 original size:40 final size:40
Alignment explanation
Indices: 24870270--24870346 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
24870260 GACTGACCCA
* **
24870270 TTGACTTTGACCATTGACCTATGACTTTGATTATTGACCG
1 TTGACTTTGACCATTGACCTATGAATTTGAGCATTGACCG
**
24870310 TTGACTTTGACTGTTGACCGT-TGAATTTGAGCATTGA
1 TTGACTTTGACCATTGACC-TATGAATTTGAGCATTGA
24870347 ATTTTTTACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (40 bp):
TTGACTTTGACCATTGACCTATGAATTTGAGCATTGACCG
Found at i:24874713 original size:20 final size:21
Alignment explanation
Indices: 24874664--24874715 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
24874654 ATTGACTGAC
24874664 CTGTTGACTTTGATAGTTGAT
1 CTGTTGACTTTGATAGTTGAT
* *
24874685 -AGTTAACTTTGACTA-TTG-T
1 CTGTTGACTTTGA-TAGTTGAT
24874704 CTGTTGACTTTG
1 CTGTTGACTTTG
24874716 GCGATTAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 22 0.88
21 2 0.08
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (21 bp):
CTGTTGACTTTGATAGTTGAT
Found at i:24887527 original size:17 final size:19
Alignment explanation
Indices: 24887507--24887546 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
24887497 TAAGTTTTAA
24887507 TGCATTTTTA-TTT-TCAC
1 TGCATTTTTATTTTGTCAC
24887524 TGCA-TTTTATTTTGTCAC
1 TGCATTTTTATTTTGTCAC
24887542 TGCAT
1 TGCAT
24887547 CATTTTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 7 0.35
18 8 0.40
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.55
Consensus pattern (19 bp):
TGCATTTTTATTTTGTCAC
Found at i:24887531 original size:16 final size:18
Alignment explanation
Indices: 24887507--24887546 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
24887497 TAAGTTTTAA
24887507 TGCATTTT-TATTT-TCAC
1 TGCATTTTAT-TTTGTCAC
24887524 TGCATTTTATTTTGTCAC
1 TGCATTTTATTTTGTCAC
24887542 TGCAT
1 TGCAT
24887547 CATTTTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.55
Consensus pattern (18 bp):
TGCATTTTATTTTGTCAC
Found at i:24890593 original size:26 final size:26
Alignment explanation
Indices: 24890526--24890577 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24890516 AAGAATTCAA
24890526 GGGTATAAGAAAATAAAGTCTAGAAG
1 GGGTATAAGAAAATAAAGTCTAGAAG
24890552 GGGTATAAGAAAATAAAGTCTAGAAG
1 GGGTATAAGAAAATAAAGTCTAGAAG
24890578 AGTGTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.27, T:0.19
Consensus pattern (26 bp):
GGGTATAAGAAAATAAAGTCTAGAAG
Found at i:24892068 original size:20 final size:20
Alignment explanation
Indices: 24892004--24892069 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
24891994 ACTCGAACCC
24892004 GTTGACTTTGACCGTTGA-T
1 GTTGACTTTGACCGTTGACT
*
24892023 AGTTGACTTTGACCATTGACCT
1 -GTTGACTTTGACCGTTGA-CT
* *
24892045 -TTGACTTTAACTGTTGACT
1 GTTGACTTTGACCGTTGACT
24892064 GTTGAC
1 GTTGAC
24892070 CGTTGGCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
22 1 0.03
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (20 bp):
GTTGACTTTGACCGTTGACT
Found at i:24906559 original size:12 final size:13
Alignment explanation
Indices: 24906542--24906575 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
24906532 AATGAATTGA
24906542 TTTAGTTTTTA-T
1 TTTAGTTTTTAGT
24906554 TTTAGTTTTTAGT
1 TTTAGTTTTTAGT
24906567 TTTAGTTTT
1 TTTAGTTTT
24906576 CACACATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (13 bp):
TTTAGTTTTTAGT
Found at i:24917418 original size:21 final size:21
Alignment explanation
Indices: 24917394--24917449 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
24917384 CAAAAAAAGC
*
24917394 CAGATGCCACCACATCAGAAT
1 CAGATGCCACCACACCAGAAT
24917415 CAGATG-CAGCCACACCAGAAT
1 CAGATGCCA-CCACACCAGAAT
** *
24917436 TGGATGCAACCACA
1 CAGATGCCACCACA
24917450 ACAATACGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.12
Consensus pattern (21 bp):
CAGATGCCACCACACCAGAAT
Found at i:24919360 original size:62 final size:62
Alignment explanation
Indices: 24919263--24919389 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
24919253 AGTATGTATG
24919263 GATTATCGCAAACTTAATACAGCCACAAGGAAGGACCACTTCTCACTTCCCTTCATTGACCA
1 GATTATCGCAAACTTAATACAGCCACAAGGAAGGACCACTTCTCACTTCCCTTCATTGACCA
24919325 GATTATCGCAAACTTAATACAGCCACAAGGAAGGACCACTTCTCACTTCCCTTCATTGACCA
1 GATTATCGCAAACTTAATACAGCCACAAGGAAGGACCACTTCTCACTTCCCTTCATTGACCA
24919387 GAT
1 GAT
24919390 GTTAGATAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.24
Consensus pattern (62 bp):
GATTATCGCAAACTTAATACAGCCACAAGGAAGGACCACTTCTCACTTCCCTTCATTGACCA
Found at i:24924043 original size:17 final size:16
Alignment explanation
Indices: 24924020--24924068 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 16
24924010 GATTAGTAAA
24924020 CATTGTCATTGCATTC
1 CATTGTCATTGCATTC
24924036 CTATTGTCATTGCATTTC
1 C-ATTGTCATTGCA-TTC
*
24924054 CATGGTCATTGCATT
1 CATTGTCATTGCATT
24924069 TTAGTATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 3 0.10
17 23 0.77
18 4 0.13
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.45
Consensus pattern (16 bp):
CATTGTCATTGCATTC
Found at i:24925628 original size:177 final size:177
Alignment explanation
Indices: 24925323--24925675 Score: 672
Period size: 177 Copynumber: 2.0 Consensus size: 177
24925313 TTTTGAAGCT
24925323 TGCAGCTATGGAGGCTTCAAGCTGTCATGGGCGAACTGATGTGGGAAGGATGTAGAATAGCTCCT
1 TGCAGCTATGGAGGCTTCAAGCTGTCATGGGCGAACTGATGTGGGAAGGATGTAGAATAGCTCCT
24925388 GACGACGAGTCCTAAGTGCGACACAAGAAGGAAAATGAATGATCAAGTCAAGTACTACTAGGAAT
66 GACGACGAGTCCTAAGTGCGACACAAGAAGGAAAATGAATGATCAAGTCAAGTACTACTAGGAAT
24925453 AGTATTCTCCATTGCTTCTTTTACATTTCTTTTCTAAAACGCTGGTA
131 AGTATTCTCCATTGCTTCTTTTACATTTCTTTTCTAAAACGCTGGTA
24925500 TGCAGCTATGGAGGCTTCAAGCTGTCATGGGCGAACTGATGTGGGAAGGATGTAGAATAGCTCCT
1 TGCAGCTATGGAGGCTTCAAGCTGTCATGGGCGAACTGATGTGGGAAGGATGTAGAATAGCTCCT
* *
24925565 GACGACGAGTCCTAAGTGCGACACAAGAAGGAAAATGCAA-GATCAAGTCAAGTTCTTCTAGGAA
66 GACGACGAGTCCTAAGTGCGACACAAGAAGGAAAATG-AATGATCAAGTCAAGTACTACTAGGAA
24925629 TAGTATTCTCCATTGCTTCTTTTACATTTCTTTTCTAAAACGCTGGT
130 TAGTATTCTCCATTGCTTCTTTTACATTTCTTTTCTAAAACGCTGGT
24925676 GATTACTGTT
Statistics
Matches: 173, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
177 171 0.99
178 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
TGCAGCTATGGAGGCTTCAAGCTGTCATGGGCGAACTGATGTGGGAAGGATGTAGAATAGCTCCT
GACGACGAGTCCTAAGTGCGACACAAGAAGGAAAATGAATGATCAAGTCAAGTACTACTAGGAAT
AGTATTCTCCATTGCTTCTTTTACATTTCTTTTCTAAAACGCTGGTA
Found at i:24926415 original size:50 final size:50
Alignment explanation
Indices: 24926303--24926415 Score: 190
Period size: 50 Copynumber: 2.3 Consensus size: 50
24926293 AATCAAGTAG
* *
24926303 CTATGTTGTGACAACGCCTGTAGGATGAAGCTTCACAAGGAGACTGATTC
1 CTATGTTGCGACAACGCCTGTAGGATGAAGCTTCACAAGGAGACTGATGC
*
24926353 CTATGTTACGACAACGCCTGTAGGATGAAGCTTCACAAGGAGACTGATGC
1 CTATGTTGCGACAACGCCTGTAGGATGAAGCTTCACAAGGAGACTGATGC
*
24926403 CTATGTCGCGACA
1 CTATGTTGCGACA
24926416 TAGGACCTGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (50 bp):
CTATGTTGCGACAACGCCTGTAGGATGAAGCTTCACAAGGAGACTGATGC
Found at i:24934640 original size:49 final size:49
Alignment explanation
Indices: 24934580--24935160 Score: 494
Period size: 49 Copynumber: 11.8 Consensus size: 49
24934570 CCTAAAGTTC
* * * * * *
24934580 AAGAGAGAAAGATTAAAGCTGCAATGACGAATCGTACACCTTAAAACCA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAACCA
* * * *
24934629 AAGAGGAAAAGATTAAAGCCACAAC-AGTGAATCTTACACCCTAAAATCG
1 AAGAGGGAAAGATTAAAGCCGCAACGA-TGAATCTTACACCCTAAAACCA
** * **
24934678 AAGAGGGAAAGATTAAATTCACAACGACAAATCTTACACCCTAAAACCGA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAACC-A
* * * * *
24934728 AA-AGGGAAAGATTATAGCCACAACGGTGAATCTTACACCTTAAAA-TA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAACCA
* * * * *
24934775 AAGAGGGAAAGATTAAAGTCACAACGGTGAATCTTACACCCTAAAATCG
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAACCA
* * * * *
24934824 AAGAGGGAAAGATTAAAGTCGTAATGGCT-AATCTTACACCCTAAAACTA
1 AAGAGGGAAAGATTAAAGCCGCAA-CGATGAATCTTACACCCTAAAACCA
* * * **
24934873 AAGAGGGAAATATTAAAGCCGCAACGGTGAATCTTACACCTTAAAGTCA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAACCA
* * * **
24934922 AAGAGGGAAATATTAAAGCCGCAA-TA-GCAAATCTTACACCTTAAAATAA
1 AAGAGGGAAAGATTAAAGCCGCAACGATG--AATCTTACACCCTAAAACCA
* * ** * *
24934971 AAAAGGGAAATATTAAAGCCGCAACAGA-GAATCTTACACTTTAAGACTA
1 AAGAGGGAAAGATTAAAGCCGCAAC-GATGAATCTTACACCCTAAAACCA
* * * *
24935020 AAGAGGGAAAGATTAAAGCTGCAACAATAAATCTTACACCCTAAAACTA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAACCA
* ** **
24935069 AAGAGGGACAA-ATTAAAGCCTCAATAATGAATCTTACACCCCTAAAAACTG
1 AAGAGGGA-AAGATTAAAGCCGCAACGATGAATCTTACA-CCCT-AAAACCA
* * * *
24935120 AAGAGGGACAGATTAAAGCCACAACAACGAATCTTACACCC
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCC
24935161 CTCAAGTTGA
Statistics
Matches: 443, Mismatches: 73, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
47 4 0.01
48 44 0.10
49 340 0.77
50 15 0.03
51 40 0.09
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (49 bp):
AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCCTAAAACCA
Found at i:24934988 original size:147 final size:147
Alignment explanation
Indices: 24934580--24935160 Score: 614
Period size: 147 Copynumber: 3.9 Consensus size: 147
24934570 CCTAAAGTTC
* * * * * * *
24934580 AAGAGAGAAAGATTAAAGCTGCAATGACGAATCGTACACCTTAAAACCAAAGAGGAAAAGATTAA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCTTAAAATCAAAGAGGGAAAGATTAA
* * *
24934645 AGCCACAACAGTGAATCTTACACCCTAAAATCGAAGAGGGAAAGATTAAATTCACAACGACAAAT
66 AGCCACAACAGTGAATCTTACACCCTAAAATCGAAGAGGGAAAGATTAAAGTCGCAACGGCAAAT
*
24934710 CTTACACCCTAAAACCGA
131 CTTACACCCTAAAA-CTA
* * *
24934728 AA-AGGGAAAGATTATAGCCACAACGGTGAATCTTACACCTTAAAAT-AAAGAGGGAAAGATTAA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCTTAAAATCAAAGAGGGAAAGATTAA
* * * * *
24934791 AGTCACAACGGTGAATCTTACACCCTAAAATCGAAGAGGGAAAGATTAAAGTCGTAATGGCTAAT
66 AGCCACAACAGTGAATCTTACACCCTAAAATCGAAGAGGGAAAGATTAAAGTCGCAACGGCAAAT
24934856 CTTACACCCTAAAACTA
131 CTTACACCCTAAAACTA
* * * *
24934873 AAGAGGGAAATATTAAAGCCGCAACGGTGAATCTTACACCTTAAAGTCAAAGAGGGAAATATTAA
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCTTAAAATCAAAGAGGGAAAGATTAA
* * ** * ** * * * *
24934938 AGCCGCAATAGCAAATCTTACACCTTAAAATAAAAAAGGGAAATATTAAAGCCGCAACAG-AGAA
66 AGCCACAACAGTGAATCTTACACCCTAAAATCGAAGAGGGAAAGATTAAAGTCGCAACGGCA-AA
** *
24935002 TCTTACACTTTAAGACTA
130 TCTTACACCCTAAAACTA
* * * *
24935020 AAGAGGGAAAGATTAAAGCTGCAACAATAAATCTTACACCCTAAAA-CTAAAGAGGGACAA-ATT
1 AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCTTAAAATC-AAAGAGGGA-AAGATT
* * * * * * * **
24935083 AAAGCCTCAATAATGAATCTTACACCCCTAAAAACTGAAGAGGGACAGATTAAAGCCACAACAAC
64 AAAGCCACAACAGTGAATCTTACA-CCCTAAAATC-GAAGAGGGAAAGATTAAAGTCGCAACGGC
*
24935148 GAATCTTACACCC
127 AAATCTTACACCC
24935161 CTCAAGTTGA
Statistics
Matches: 359, Mismatches: 66, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
145 4 0.01
146 128 0.36
147 184 0.51
148 11 0.03
149 32 0.09
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (147 bp):
AAGAGGGAAAGATTAAAGCCGCAACGATGAATCTTACACCTTAAAATCAAAGAGGGAAAGATTAA
AGCCACAACAGTGAATCTTACACCCTAAAATCGAAGAGGGAAAGATTAAAGTCGCAACGGCAAAT
CTTACACCCTAAAACTA
Found at i:24935190 original size:50 final size:50
Alignment explanation
Indices: 24935049--24935204 Score: 167
Period size: 51 Copynumber: 3.1 Consensus size: 50
24935039 TGCAACAATA
* * * *
24935049 AATCTTACA-CCCT-AAAACTAAAGAGGGACAAATTAAAGCCTCAATAATG
1 AATCTTACACCCCTAAAAACTGAAGAGAGACAAATTAAAGCCACAA-AACG
* *
24935098 AATCTTACACCCCTAAAAACTGAAGAGGGACAGATTAAAGCCACAACAACG
1 AATCTTACACCCCTAAAAACTGAAGAGAGACAAATTAAAGCCACAA-AACG
* **
24935149 AATCTTACACCCCT-CAAGTTGAAGAGA-AGCAAATTAAAGCCACAAAGACG
1 AATCTTACACCCCTAAAAACTGAAGAGAGA-CAAATTAAAGCCACAAA-ACG
24935199 AATCTT
1 AATCTT
24935205 TATCTCTTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
49 11 0.12
50 37 0.40
51 45 0.48
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (50 bp):
AATCTTACACCCCTAAAAACTGAAGAGAGACAAATTAAAGCCACAAAACG
Found at i:24949400 original size:27 final size:26
Alignment explanation
Indices: 24949352--24949449 Score: 124
Period size: 27 Copynumber: 3.7 Consensus size: 26
24949342 TTATATTTCA
*
24949352 CCACAAAGGCTTTCTTTGATATCATG
1 CCACAAAGGCTTTCTTTCATATCATG
24949378 CCACAAAGGCATTTCTTTCATATCATG
1 CCACAAAGGC-TTTCTTTCATATCATG
* * *
24949405 CCACAAAGGAATTTCTTTCATATTACG
1 CCACAAAGG-CTTTCTTTCATATCATG
* *
24949432 TCACAAAGGCTTCCTTTC
1 CCACAAAGGCTTTCTTTC
24949450 CTGACGTGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 17 0.27
27 46 0.73
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (26 bp):
CCACAAAGGCTTTCTTTCATATCATG
Found at i:24950863 original size:24 final size:24
Alignment explanation
Indices: 24950831--24951101 Score: 308
Period size: 24 Copynumber: 11.3 Consensus size: 24
24950821 AGAACTTCTT
24950831 TACGTTTACGCTCGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
24950855 TACGTTTACACACGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
** * *
24950879 TACGTTTTTGCTCGTCAACATGAG
1 TACGTTTACGCTCGTCAGCATGAA
* *
24950903 TACGTTTATGCTCGTCAACATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* * *
24950927 TACATTTATGCTCGTTAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* * * * *
24950951 TACATTTAAGCTAGCCAGCATGAG
1 TACGTTTACGCTCGTCAGCATGAA
* *
24950975 TACGTTTACGCTTGTTAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
24950999 TACGTTTATGCTCGTCAGCATGAG
1 TACGTTTACGCTCGTCAGCATGAA
* * *
24951023 TACGTTTACACTCATCAGTATGAA
1 TACGTTTACGCTCGTCAGCATGAA
*
24951047 TACGTTTACGCTCGTCAGCATGAG
1 TACGTTTACGCTCGTCAGCATGAA
* *
24951071 TACGTTTACGCTCATCAACATGAA
1 TACGTTTACGCTCGTCAGCATGAA
24951095 TACGTTT
1 TACGTTT
24951102 GATTTATTTC
Statistics
Matches: 207, Mismatches: 40, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 207 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (24 bp):
TACGTTTACGCTCGTCAGCATGAA
Found at i:24955873 original size:36 final size:36
Alignment explanation
Indices: 24955833--24955906 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
24955823 AAAACGATAC
** * *
24955833 AACCTAAAAAAATCCTGATTGACTAATTAAATATAT
1 AACCTAAAAAAAGACTGACTGACTAATCAAATATAT
*
24955869 AACCTAAAAATAGACTGACTGACTAATCAAATATAT
1 AACCTAAAAAAAGACTGACTGACTAATCAAATATAT
24955905 AA
1 AA
24955907 ACTCAAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (36 bp):
AACCTAAAAAAAGACTGACTGACTAATCAAATATAT
Found at i:24955915 original size:36 final size:36
Alignment explanation
Indices: 24955847--24955915 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
24955837 TAAAAAAATC
* * *
24955847 CTGATTGACTAATTAAATATATAACCTAAAAATAGA
1 CTGACTGACTAATCAAATATATAAACTAAAAATAGA
*
24955883 CTGACTGACTAATCAAATATATAAACTCAAAAT
1 CTGACTGACTAATCAAATATATAAACTAAAAAT
24955916 GATTTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (36 bp):
CTGACTGACTAATCAAATATATAAACTAAAAATAGA
Found at i:24957841 original size:30 final size:29
Alignment explanation
Indices: 24957776--24957842 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
24957766 TGGTCTAATA
* * *
24957776 TTCAATTTGATAGATAAATTTTGATTTTG
1 TTCAATTTGATACATAAATATTAATTTTG
* *
24957805 TGCAATTTGATACATGAATATTAATTTTTG
1 TTCAATTTGATACATAAATATTAA-TTTTG
24957835 TTCAATTT
1 TTCAATTT
24957843 TCACAAATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (29 bp):
TTCAATTTGATACATAAATATTAATTTTG
Found at i:24960037 original size:27 final size:26
Alignment explanation
Indices: 24959996--24960046 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
24959986 TTTTTTAAAA
24959996 TATAAATTATAAAATTCATAAAAATAT
1 TATAAATTATAAAATT-ATAAAAATAT
*
24960023 TATAAATT-TATAAATTATAGAAAT
1 TATAAATTATA-AAATTATAAAAAT
24960047 TAAAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
TATAAATTATAAAATTATAAAAATAT
Found at i:24960052 original size:42 final size:39
Alignment explanation
Indices: 24959963--24960052 Score: 90
Period size: 42 Copynumber: 2.2 Consensus size: 39
24959953 TAAGAAAATT
* * *
24959963 ATTAAAATTCTAAAAAAATCTAATTTTTTAAAATATAAA
1 ATTAAAATTCTAAAAAAATATAAATTTATAAAATATAAA
* * *
24960002 TTATAAAATTCATAAAAATATTATAAATTTATAAATTATAGAA
1 AT-TAAAATTC-TAAAAA-AATATAAATTTATAAAATATA-AA
24960045 ATTAAAAT
1 ATTAAAAT
24960053 AATTAAATGC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
39 1 0.03
40 8 0.20
41 6 0.15
42 22 0.55
43 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (39 bp):
ATTAAAATTCTAAAAAAATATAAATTTATAAAATATAAA
Found at i:24963473 original size:6 final size:6
Alignment explanation
Indices: 24963463--24963503 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
24963453 GTAATGCACA
*
24963463 ACAAAA ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAA
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAA
24963504 ATATAAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.12
Consensus pattern (6 bp):
ACAAAT
Found at i:24964040 original size:23 final size:22
Alignment explanation
Indices: 24964008--24964052 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
24963998 ATTAATTTTT
24964008 TTATTTTTCAATTTTTTTCAAA
1 TTATTTTTCAATTTTTTTCAAA
*
24964030 TTATATTTTCATTTTTTTTCAAA
1 TTAT-TTTTCAATTTTTTTCAAA
24964053 AAAAATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTTCAATTTTTTTCAAA
Found at i:24966870 original size:20 final size:20
Alignment explanation
Indices: 24966845--24966887 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24966835 ATTAGAATAT
*
24966845 AAATATTAAATTAAAAACAA
1 AAATATTAAAATAAAAACAA
*
24966865 AAATATTAAAATAAAAATAA
1 AAATATTAAAATAAAAACAA
24966885 AAA
1 AAA
24966888 ATAACTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATATTAAAATAAAAACAA
Found at i:24968371 original size:21 final size:20
Alignment explanation
Indices: 24968347--24968467 Score: 69
Period size: 19 Copynumber: 6.1 Consensus size: 20
24968337 TTGTCTATAT
24968347 AAATTTTTATAATTTTAAATA
1 AAATTTTTATAATTTT-AATA
**
24968368 AAATTTTCTAT-ATTTTTCTA
1 AAATTTT-TATAATTTTAATA
*
24968388 AAATTTTTATAACATTT-A-A
1 AAATTTTTATAA-TTTTAATA
*
24968407 AAATTTTCTAT-ATTTT-TTA
1 AAATTTT-TATAATTTTAATA
*
24968426 ACAATTTATA-AATTTCTAATA
1 A-AATTTTTATAATTT-TAATA
*
24968447 ATA-TTTTATGAATTTT-ATA
1 AAATTTTTAT-AATTTTAATA
24968466 AA
1 AA
24968468 GTAATGGTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
18 3 0.04
19 28 0.36
20 21 0.27
21 23 0.29
22 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (20 bp):
AAATTTTTATAATTTTAATA
Done.