Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 127 of 143
Found at i:37345829 original size:41 final size:41
Alignment explanation
Indices: 37345783--37345879 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 41
37345773 TTAATTTAAG
** *
37345783 TTTAAAATGATTTTTAAATTTATTTCTAAAATTAAATTTAC
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
* * * * *
37345824 TTTAAATTTAAATTTAAATTCATTTTTAAATTTAAATTTAT
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
*
37345865 TTTAAATTG-AATTTA
1 TTTAAAATGAAATTTA
37345880 GTTTAAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 6 0.13
41 41 0.87
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (41 bp):
TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
Found at i:37345834 original size:17 final size:17
Alignment explanation
Indices: 37345795--37345894 Score: 67
Period size: 17 Copynumber: 5.4 Consensus size: 17
37345785 TAAAATGATT
*
37345795 TTTAAATTTATTTCTAAA
1 TTTAAATTTACTT-TAAA
*
37345813 ATTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
37345830 TTTAAATTTAAATTCATTTTTAAA
1 TTTAAATTT--A--C---TTTAAA
*
37345854 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
* *
37345871 -TTGAATTTAGTTTAAA
1 TTTAAATTTACTTTAAA
37345887 TTTGAAAT
1 TTT-AAAT
37345895 AATTTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
16 14 0.21
17 20 0.30
18 14 0.21
19 1 0.02
21 1 0.02
22 1 0.02
24 15 0.23
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:37345888 original size:11 final size:11
Alignment explanation
Indices: 37345814--37345889 Score: 55
Period size: 11 Copynumber: 6.7 Consensus size: 11
37345804 ATTTCTAAAA
*
37345814 TTAAATTTACT
1 TTAAATTTAAT
37345825 TTAAATTTAAAT
1 TTAAATTT-AAT
* *
37345837 TTAAATTCATTT
1 TTAAATTTA-AT
37345849 TTAAATTTAAAT
1 TTAAATTT-AAT
* *
37345861 TT-ATTTTAAA
1 TTAAATTTAAT
* *
37345871 TTGAATTTAGT
1 TTAAATTTAAT
37345882 TTAAATTT
1 TTAAATTT
37345890 GAAATAATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
10 4 0.08
11 25 0.50
12 20 0.40
13 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:37345901 original size:17 final size:17
Alignment explanation
Indices: 37345830--37345913 Score: 75
Period size: 17 Copynumber: 4.9 Consensus size: 17
37345820 TTACTTTAAA
37345830 TTTAAATTT-AAATTCATT
1 TTTAAATTTGAAATT-A-T
37345848 TTTAAATTT-AAATTTAT
1 TTTAAATTTGAAA-TTAT
* *
37345865 TTTAAA-TTGAATTTAG
1 TTTAAATTTGAAATTAT
*
37345881 TTTAAATTTGAAATAAT
1 TTTAAATTTGAAATTAT
* *
37345898 TTTAAAATTAAAATTA
1 TTTAAATTTGAAATTA
37345914 AAAAGCCCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
16 11 0.20
17 29 0.53
18 13 0.24
19 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTAAATTTGAAATTAT
Found at i:37347761 original size:58 final size:59
Alignment explanation
Indices: 37347690--37347946 Score: 365
Period size: 59 Copynumber: 4.4 Consensus size: 59
37347680 CCTGGATGGT
* * *
37347690 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTA-TTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
37347748 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * **
37347807 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCTTAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* * * * * *
37347866 CCAAAAATTACTATTTTACCCTCAAATTTTCCAAAATTCCA-TTTTGACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
37347924 CCGAAAATTACCATTTTGCCCCC
1 CCAAAAATTACCATTTTACCCCC
37347947 GCGAGTCTAA
Statistics
Matches: 181, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
58 73 0.40
59 108 0.60
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:37347922 original size:117 final size:117
Alignment explanation
Indices: 37347690--37347947 Score: 365
Period size: 117 Copynumber: 2.2 Consensus size: 117
37347680 CCTGGATGGT
** * *
37347690 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTATTTTAACCCCGATTTCACCAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCAATTTCACCAAAAA
37347755 TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
66 TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* **
37347807 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCTTAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCCCAATTTCACCAAAA
* * * * * *
37347872 ATTACTATTTTACCCTCAAATTTTCCAAAATTCCA-TTTTGACCTCGATTTCA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
* *
37347924 CCGAAAATTACCATTTTGCCCCCG
1 CCAAAAATTACCATTTTACCCCCG
37347948 CGAGTCTAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
117 74 0.59
118 51 0.41
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCCAATTTCACCAAAAA
TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCA
Found at i:37347939 original size:30 final size:30
Alignment explanation
Indices: 37347693--37347941 Score: 149
Period size: 29 Copynumber: 8.5 Consensus size: 30
37347683 GGATGGTCCA
*
37347693 AAAATTACCATTTT-ACCCCTAAACTTT--CC
1 AAAATTACCATTTTGA-CCCTCAA-TTTCACC
* * *
37347722 AAAATT-CTATTTTAACCC-CGATTTCACC
1 AAAATTACCATTTTGACCCTCAATTTCACC
*
37347750 AAAAATTACCATTTT-ACCCCCAAACTTT--CC
1 -AAAATTACCATTTTGACCCTC-AA-TTTCACC
*
37347780 AAAATT-CCATTTTTAACCC-CAATTTCACC
1 AAAATTACCA-TTTTGACCCTCAATTTCACC
*
37347809 AAAAATTACCATTTT-ACCCCCGAACTTT--CC
1 -AAAATTACCATTTTGACCCTC-AA-TTTCACC
*
37347839 AAAATT-CCATTTTTGA-CCTTAATTTCACC
1 AAAATTACCA-TTTTGACCCTCAATTTCACC
* *
37347868 AAAAATTACTATTTT-ACCCTCAAATTT-TCC
1 -AAAATTACCATTTTGACCCTC-AATTTCACC
*
37347898 AAAATT-CCATTTTGA-CCTCGATTTCACC
1 AAAATTACCATTTTGACCCTCAATTTCACC
37347926 GAAAATTACCATTTTG
1 -AAAATTACCATTTTG
37347942 CCCCCGCGAG
Statistics
Matches: 178, Mismatches: 13, Indels: 57
0.72 0.05 0.23
Matches are distributed among these distances:
26 3 0.02
27 11 0.06
28 33 0.19
29 62 0.35
30 50 0.28
31 13 0.07
32 6 0.03
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTGACCCTCAATTTCACC
Found at i:37360236 original size:76 final size:76
Alignment explanation
Indices: 37360114--37360573 Score: 794
Period size: 76 Copynumber: 6.0 Consensus size: 76
37360104 TCAATCCAAC
37360114 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
37360179 GTAAGAGCAAC
66 GTAAGAGCAAG
37360190 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
37360255 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * * *
37360266 ATCATTTCCTGTCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
37360331 GTAAGAGCAAG
66 GTAAGAGCAAG
*
37360342 ATCATTTCCTATCCTCTTAAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
37360407 GTAAGAGCAAG
66 GTAAGAGCAAG
37360418 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
37360483 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * * *
37360494 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGAATAGCAAGTATTTATCTCTCTAAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGAAATTG
37360559 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
37360572 AT
1 AT
37360574 GAAGCCTCGA
Statistics
Matches: 364, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
76 338 0.93
78 26 0.07
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:37360864 original size:6 final size:6
Alignment explanation
Indices: 37360855--37360959 Score: 67
Period size: 6 Copynumber: 18.0 Consensus size: 6
37360845 TAAAATGATT
* * *
37360855 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** * *
37360902 TTCATT TTTAAA TTTAAA TTT-AG TTTAAA TTTGAAA --TAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* *
37360948 ATTAAA ATTAAA
1 TTTAAA TTTAAA
37360960 AAGCCCAAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
4 2 0.03
5 12 0.16
6 56 0.75
7 5 0.07
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:37360864 original size:24 final size:24
Alignment explanation
Indices: 37360831--37360923 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 24
37360821 TTTGGGTCAA
* *
37360831 TTTT-AATTTAAGTTTAAAATGAT
1 TTTTAAATTTAAATTTAAAATAAT
*
37360854 TTTTAAATTT-ATTTCTAAAATTAAATT
1 TTTTAAATTTAAATT-TAAAA-T-AA-T
* *
37360881 TACTTTAAATTTAAATTTAAATTCAT
1 T--TTTAAATTTAAATTTAAAATAAT
37360907 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
37360924 GTTTAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
23 7 0.12
24 26 0.46
25 1 0.02
26 3 0.05
27 3 0.05
28 1 0.02
29 13 0.23
30 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTAAATTTAAATTTAAAATAAT
Found at i:37360888 original size:41 final size:41
Alignment explanation
Indices: 37360843--37360930 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
37360833 TTAATTTAAG
** *
37360843 TTTAAAATGATTTTTAAATTTATTTCTAAAATTAAATTTAC
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
* * * * *
37360884 TTTAAATTTAAATTTAAATTCATTTTTAAATTTAAATTTAG
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
37360925 TTTAAA
1 TTTAAA
37360931 TTTGAAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (41 bp):
TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
Found at i:37360894 original size:17 final size:18
Alignment explanation
Indices: 37360855--37360899 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
37360845 TAAAATGATT
*
37360855 TTTAAATTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
*
37360873 ATTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
37360890 TTTAAATTTA
1 TTTAAATTTA
37360900 AATTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:37360929 original size:35 final size:35
Alignment explanation
Indices: 37360890--37360956 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
37360880 TTACTTTAAA
* * *
37360890 TTTAAATTT-AAATTCATTTTTAAATTTAAATTTAG
1 TTTAAATTTGAAA-TAATTTTAAAATTAAAATTTAG
37360925 TTTAAATTTGAAATAATTTTAAAATTAAAATT
1 TTTAAATTTGAAATAATTTTAAAATTAAAATT
37360957 AAAAAGCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 25 0.89
36 3 0.11
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTAAATTTGAAATAATTTTAAAATTAAAATTTAG
Found at i:37360931 original size:41 final size:42
Alignment explanation
Indices: 37360855--37360938 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
37360845 TAAAATGATT
*
37360855 TTTAAATTTATTTCTAAAATTAAATTTACTTTAAATTT-AAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
* * *
37360896 TTTAAATTCATTTTTAAATTTAAATTTAGTTTAAATTTGAAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
37360938 T
1 T
37360939 AATTTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
Found at i:37360945 original size:17 final size:17
Alignment explanation
Indices: 37360874--37360958 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
37360864 ATTTCTAAAA
** *
37360874 TTAAATTTACTTTAAAT
1 TTAAATTTAAATTAATT
*
37360891 TTAAATTTAAATTCATTT
1 TTAAATTTAAATT-AATT
* *
37360909 TTAAATTTAAATTTAGT
1 TTAAATTTAAATTAATT
37360926 TTAAATTTGAAA-TAATT
1 TTAAATTT-AAATTAATT
*
37360943 TTAAAATTAAAATTAA
1 TT-AAATTTAAATTAA
37360959 AAAGCCCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
17 28 0.52
18 26 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:37361689 original size:3 final size:3
Alignment explanation
Indices: 37361681--37361717 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
37361671 TATAGCATTC
* *
37361681 ATA ATA ATA ATG TTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37361718 ATATTAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37362267 original size:15 final size:16
Alignment explanation
Indices: 37362247--37362280 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
37362237 ACCCATCGAC
37362247 CCGACCCCACCCG-AT
1 CCGACCCCACCCGAAT
*
37362262 CCGACCCGACCCGAAT
1 CCGACCCCACCCGAAT
37362278 CCG
1 CCG
37362281 CTCTGGGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.21, C:0.56, G:0.18, T:0.06
Consensus pattern (16 bp):
CCGACCCCACCCGAAT
Found at i:37362710 original size:29 final size:28
Alignment explanation
Indices: 37362668--37362768 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 28
37362658 GGATGGTCCA
37362668 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCC-AAACTTTCC
*
37362697 AAAATT-CCATTTTTAACCCC-GA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCAAACTTT--CC
*
37362726 AAAAATTACCATTTTACCCCCAAACTTTCT
1 -AAAATTACCATTTTA-CCCCAAACTTTCC
37362756 AAAATT-CCATTTT
1 AAAATTACCATTTT
37362769 TAACCTCGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
27 3 0.05
28 11 0.18
29 19 0.32
30 20 0.33
31 4 0.07
32 3 0.05
ACGTcount: A:0.35, C:0.29, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCAAACTTTCC
Found at i:37362769 original size:29 final size:29
Alignment explanation
Indices: 37362666--37362820 Score: 97
Period size: 29 Copynumber: 5.3 Consensus size: 29
37362656 CTGGATGGTC
*
37362666 CAAAAATTACCATTTTACCCCTAAACTTT
1 CAAAAATTACCATTTTACCCCCAAACTTT
* * *
37362695 CCAAAATT-CCATTTTTAACCCC-GA-TTT
1 CAAAAATTACCA-TTTTACCCCCAAACTTT
37362722 CACCAAAAATTACCATTTTACCCCCAAACTTT
1 ---CAAAAATTACCATTTTACCCCCAAACTTT
* * * *
37362754 CTAAAATT-CCATTTTTAACCTC-GA-TTT
1 CAAAAATTACCA-TTTTACCCCCAAACTTT
* *
37362781 CACCAAAAATTATCATTTTACCCCCGAACTTT
1 ---CAAAAATTACCATTTTACCCCCAAACTTT
*
37362813 CTAAAATT
1 CAAAAATT
37362821 CTATTTTCGA
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
27 6 0.06
28 8 0.08
29 37 0.39
30 31 0.33
31 7 0.07
32 6 0.06
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCCAAACTTT
Found at i:37362922 original size:58 final size:59
Alignment explanation
Indices: 37362665--37362916 Score: 355
Period size: 59 Copynumber: 4.3 Consensus size: 59
37362655 CCTGGATGGT
*
37362665 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
37362724 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * ** *
37362783 CCAAAAATTATCATTTTACCCCCGAACTTTCTAAAATTCTATTTTCGACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
37362842 CCAAAAATTACTATTTTACCCTCAAATTTTCCAAAATTCCA-TTTTGACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
37362900 -CAGAAAATTACCATTTT
1 CCA-AAAATTACCATTTT
37362917 GCCCTCGCGA
Statistics
Matches: 174, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
57 2 0.01
58 28 0.16
59 144 0.83
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:37369063 original size:49 final size:49
Alignment explanation
Indices: 37368957--37369372 Score: 299
Period size: 49 Copynumber: 8.4 Consensus size: 49
37368947 TGGCTTCAAT
* * * *
37368957 AGATTCGCCGTTGCGGCTTAAAATCTTTCCCTTCATGCTCCTGAGGTACA
1 AGATTCGCCGTTGCGACTT-AAACCTTTCCCTTCATTCTTCTGAGGTACA
* * * * * *
37369007 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATATCTGCT-TGGAACT
1 AGATTCGCCGTTGCGACTTAAACCTTTCCCTTCAT-TCTTCTGAGGTACA
* * * *
37369056 AGATTCGCCGTTGCGGCTTAAATCTCTCCCTTCATGCTTCTGAGGTACA
1 AGATTCGCCGTTGCGACTTAAACCTTTCCCTTCATTCTTCTGAGGTACA
* * * * * * *
37369105 AGGTTTGCCGTTGCGACTTAAACCCTTCCTTTTATATCTTCT-CGGTACT
1 AGATTCGCCGTTGCGACTTAAACCTTTCCCTTCAT-TCTTCTGAGGTACA
* * *
37369154 AGATTCGCCGTTGC-AGCTTAAATCC-CTCCCATCATGCTTCTGAGGTACA
1 AGATTCGCCGTTGCGA-CTTAAA-CCTTTCCCTTCATTCTTCTGAGGTACA
* * * * * ** * *
37369203 AGGTTTGCCGTTGCAACTTAAATCTTTCTCTTTGTATCTT-TGTGGTACT
1 AGATTCGCCGTTGCGACTTAAACCTTTCCCTTCAT-TCTTCTGAGGTACA
* * * ** *
37369252 GGATTCGCCATTGCTG-CTTAAATCTTTCCCTTCATGGTCCTGAGGTACA
1 AGATTCGCCGTTGC-GACTTAAACCTTTCCCTTCATTCTTCTGAGGTACA
* *
37369301 AGATTCGCCGTTGCGACTTAAACCTTTCCCTCCATTATCTTC-GTGGTAC-
1 AGATTCGCCGTTGCGACTTAAACCTTTCCCTTCA-T-TCTTCTGAGGTACA
* *
37369350 CGAATTCGCCGTTGCGGCTTAAA
1 AG-ATTCGCCGTTGCGACTTAAA
37369373 AAATTAAAAA
Statistics
Matches: 278, Mismatches: 73, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
48 13 0.05
49 205 0.74
50 58 0.21
51 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (49 bp):
AGATTCGCCGTTGCGACTTAAACCTTTCCCTTCATTCTTCTGAGGTACA
Found at i:37369126 original size:98 final size:98
Alignment explanation
Indices: 37368956--37369372 Score: 541
Period size: 98 Copynumber: 4.2 Consensus size: 98
37368946 ATGGCTTCAA
*
37368956 TAGATTCGCCGTTGCGGCTTAAAATCTTTCCCTTCATGCTCCTGAGGTACAAGGTTCGCCGTTGC
1 TAGATTCGCCGTTGCGGCTT-AAATCTCTCCCTTCATGCTCCTGAGGTACAAGGTTCGCCGTTGC
* *
37369021 GACTTAAACCTTTCCCTTTATATCTGCTTGGAAC
65 GACTTAAACCTTTCCCTTTATATCTTCTTGGTAC
* *
37369055 TAGATTCGCCGTTGCGGCTTAAATCTCTCCCTTCATGCTTCTGAGGTACAAGGTTTGCCGTTGCG
1 TAGATTCGCCGTTGCGGCTTAAATCTCTCCCTTCATGCTCCTGAGGTACAAGGTTCGCCGTTGCG
* * *
37369120 ACTTAAACCCTTCCTTTTATATCTTCTCGGTAC
66 ACTTAAACCTTTCCCTTTATATCTTCTTGGTAC
* * * * * *
37369153 TAGATTCGCCGTTGCAGCTTAAATCCCTCCCATCATGCTTCTGAGGTACAAGGTTTGCCGTTGCA
1 TAGATTCGCCGTTGCGGCTTAAATCTCTCCCTTCATGCTCCTGAGGTACAAGGTTCGCCGTTGCG
* * *
37369218 ACTTAAATCTTTCTCTTTGTATCTT-TGTGGTAC
66 ACTTAAACCTTTCCCTTTATATCTTCT-TGGTAC
* * * * * *
37369251 TGGATTCGCCATTGCTGCTTAAATCTTTCCCTTCATGGTCCTGAGGTACAAGATTCGCCGTTGCG
1 TAGATTCGCCGTTGCGGCTTAAATCTCTCCCTTCATGCTCCTGAGGTACAAGGTTCGCCGTTGCG
** *
37369316 ACTTAAACCTTTCCCTCCATTATCTTCGTGGTAC
66 ACTTAAACCTTTCCCTTTA-TATCTTCTTGGTAC
*
37369350 -CGAATTCGCCGTTGCGGCTTAAA
1 TAG-ATTCGCCGTTGCGGCTTAAA
37369373 AAATTAAAAA
Statistics
Matches: 276, Mismatches: 38, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
97 1 0.00
98 225 0.82
99 50 0.18
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (98 bp):
TAGATTCGCCGTTGCGGCTTAAATCTCTCCCTTCATGCTCCTGAGGTACAAGGTTCGCCGTTGCG
ACTTAAACCTTTCCCTTTATATCTTCTTGGTAC
Found at i:37370212 original size:16 final size:16
Alignment explanation
Indices: 37370193--37370223 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37370183 TCTGAGATTG
*
37370193 TTTTTGTATTTATTTA
1 TTTTTGTATCTATTTA
37370209 TTTTTGTATCTATTT
1 TTTTTGTATCTATTT
37370224 CCTTTTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTTGTATCTATTTA
Found at i:37371208 original size:16 final size:17
Alignment explanation
Indices: 37371163--37371216 Score: 83
Period size: 16 Copynumber: 3.2 Consensus size: 17
37371153 CATTTTAAAG
*
37371163 ATTTATTTTAAATATTAA
1 ATTTATTTTGAAT-TTAA
37371181 ATTTATTTTGAATTTAA
1 ATTTATTTTGAATTTAA
37371198 ATTTA-TTTGAATTTAA
1 ATTTATTTTGAATTTAA
37371214 ATT
1 ATT
37371217 CAAGACTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 14 0.40
17 9 0.26
18 12 0.34
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTATTTTGAATTTAA
Found at i:37372492 original size:13 final size:13
Alignment explanation
Indices: 37372465--37372549 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 13
37372455 TTCAATGAAT
37372465 AAAAGAAAA-GAA
1 AAAAGAAAAGGAA
*
37372477 AAAAGAAGAGGAA
1 AAAAGAAAAGGAA
37372490 AAAA-AACAA--AA
1 AAAAGAA-AAGGAA
37372501 ACAAA-AAAA-GAA
1 A-AAAGAAAAGGAA
37372513 AAAAGAAAAGGAA
1 AAAAGAAAAGGAA
*
37372526 AAAA-AAAAGGGA
1 AAAAGAAAAGGAA
37372538 AAAAGAAAAGGA
1 AAAAGAAAAGGA
37372550 GAGGTCGAGG
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
11 8 0.13
12 33 0.53
13 21 0.34
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGGAA
Found at i:37372514 original size:21 final size:21
Alignment explanation
Indices: 37372490--37372530 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37372480 AGAAGAGGAA
37372490 AAAAAACAAAAACAAAAAAAG
1 AAAAAACAAAAACAAAAAAAG
* **
37372511 AAAAAAGAAAAGGAAAAAAA
1 AAAAAACAAAAACAAAAAAA
37372531 AAAGGGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAACAAAAACAAAAAAAG
Found at i:37373585 original size:50 final size:48
Alignment explanation
Indices: 37373454--37373625 Score: 161
Period size: 50 Copynumber: 3.5 Consensus size: 48
37373444 AGGTTTGACG
*
37373454 GGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCACGAAGACAAGAA
1 GGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCACGAAGACAA-AA
* * * * *
37373504 --GAGAGATTTAAGCCGCAACGGC-GAATTCAGTATCATGAAGACATAAA
1 GGGAAAGATCTAAGCCGCAACGGCAG-ATCCAGTACCACGAAGACA-AAA
* *
37373551 GGGAAAGATCTAAGATCGCAACGGCAGATCCAGTACCACAAAGATGCAAAA
1 GGGAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCACGAAGA--CAAAA
* * *
37373602 GGGAAAGGTCTAAGTCACAACGGC
1 GGGAAAGATCTAAGCCGCAACGGC
37373626 GGACCGTGTA
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
46 1 0.01
47 27 0.27
48 11 0.11
49 10 0.10
50 31 0.31
51 17 0.17
52 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (48 bp):
GGGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAAGACAAAA
Found at i:37373688 original size:51 final size:50
Alignment explanation
Indices: 37373623--37373776 Score: 150
Period size: 50 Copynumber: 3.1 Consensus size: 50
37373613 AAGTCACAAC
* * * * *
37373623 GGCGGACCGTGTACCTTAAAAAGACAGGAAAGGAAAGACTTAAGACGCAAT
1 GGCGAACCGAGTACC-TAAAAAGACAGGAAAGGAAAGATTTAAGCCGTAAT
* * * * *
37373674 GGCGAATCC-AGTACC-ACAAAGATACGAAAGGGAAAGGTTTGAGCCGTAAT
1 GGCGAA-CCGAGTACCTAAAAAGACAGGAAA-GGAAAGATTTAAGCCGTAAT
* * *
37373724 GGCGAACCGTGTACCTCAGAAGACAGGAAAGGAAAGATTTAAGCCGTAAT
1 GGCGAACCGAGTACCTAAAAAGACAGGAAAGGAAAGATTTAAGCCGTAAT
37373774 GGC
1 GGC
37373777 AAATTCAATA
Statistics
Matches: 81, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
49 13 0.16
50 47 0.58
51 19 0.23
52 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.15
Consensus pattern (50 bp):
GGCGAACCGAGTACCTAAAAAGACAGGAAAGGAAAGATTTAAGCCGTAAT
Found at i:37373693 original size:101 final size:99
Alignment explanation
Indices: 37373455--37373777 Score: 266
Period size: 101 Copynumber: 3.2 Consensus size: 99
37373445 GGTTTGACGG
* * * *
37373455 GGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCACGAAG--ACAAGAA--GAGAGATTTAAG
1 GGAAAGAT-TAAGA-CGCAATGGCAGATCCAGTACCACAAAGATACAA-AAGGGAAAGGTCTAAG
* * * * ** *
37373516 CCGCAACGGCGAATTC-AGTATC-ATGAAGACA-TAAA
63 CCACAACGGCGAA-CCGTGTACCTAAAAAGACAGGAAA
* *
37373551 GGGAAAGATCTAAGATCGCAACGGCAGATCCAGTACCACAAAGATGCAAAAGGGAAAGGTCTAAG
1 -GGAAAGAT-TAAGA-CGCAATGGCAGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTAAG
* *
37373616 TCACAACGGCGGACCGTGTACCTTAAAAAGACAGGAAA
63 CCACAACGGCGAACCGTGTACC-TAAAAAGACAGGAAA
* * *
37373654 GGAAAGACTTAAGACGCAATGGC-GAATCCAGTACCACAAAGATACGAAAGGGAAAGGTTTGAGC
1 GGAAAGA-TTAAGACGCAATGGCAG-ATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTAAGC
** * * *
37373718 CGTAATGGCGAACCGTGTACCTCAGAAGACAGGAAA
64 CACAACGGCGAACCGTGTACCTAAAAAGACAGGAAA
* *
37373754 GGAAAGATTTAAGCCGTAATGGCA
1 GGAAAGA-TTAAGACGCAATGGCA
37373778 AATTCAATAT
Statistics
Matches: 184, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
97 39 0.21
98 2 0.01
99 4 0.02
100 57 0.31
101 59 0.32
102 19 0.10
103 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.14
Consensus pattern (99 bp):
GGAAAGATTAAGACGCAATGGCAGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTAAGCCA
CAACGGCGAACCGTGTACCTAAAAAGACAGGAAA
Found at i:37373725 original size:50 final size:50
Alignment explanation
Indices: 37373578--37373816 Score: 135
Period size: 50 Copynumber: 4.8 Consensus size: 50
37373568 GCAACGGCAG
* * * * ** * *
37373578 ATCCAGTACCACAAAGATGCAAAAGGGAAAGGTCTAAGTCACAACGGCGG
1 ATCCAGTACCACAAAGATACGAAAGGGAAAGGTTTAAGCCGTAATGGCGA
* * * * ** * *
37373628 A-CCGTGTACCTTAAAAAGACAGGAAA-GGAAAGACTTAAGACGCAATGGCGA
1 ATCC-AGTACC--ACAAAGATACGAAAGGGAAAGGTTTAAGCCGTAATGGCGA
*
37373679 ATCCAGTACCACAAAGATACGAAAGGGAAAGGTTTGAGCCGTAATGGCGA
1 ATCCAGTACCACAAAGATACGAAAGGGAAAGGTTTAAGCCGTAATGGCGA
* * * * * *
37373729 A-CCGTGTACCTCAGAAGACAGGAAA-GGAAAGATTTAAGCCGTAATGGCAA
1 ATCC-AGTACCACA-AAGATACGAAAGGGAAAGGTTTAAGCCGTAATGGCGA
* * * * ** *
37373779 ATTCAATATCACGAAGATTTGGAAGGGAAAGGTTTAAG
1 ATCCAGTACCACAAAGATACGAAAGGGAAAGGTTTAAG
37373817 TCGCGATGGC
Statistics
Matches: 140, Mismatches: 40, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
49 22 0.16
50 73 0.52
51 34 0.24
52 11 0.08
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.16
Consensus pattern (50 bp):
ATCCAGTACCACAAAGATACGAAAGGGAAAGGTTTAAGCCGTAATGGCGA
Found at i:37373805 original size:100 final size:100
Alignment explanation
Indices: 37373552--37373839 Score: 283
Period size: 100 Copynumber: 2.9 Consensus size: 100
37373542 AGACATAAAG
* * * * * *
37373552 GGAAAGA-TCTAAGATCGCAACGGCAGATCCAGTACCACAAAGATGCAAAAGGGAAAGGTCTAAG
1 GGAAAGACT-TAAGA-CGCAATGGCAAATCCAATACCACAAAGATACGAAAGGGAAAGGTTTAAG
* * * *
37373616 TCACAACGGCGGACCGTGTACCTTAAAAAGACAGGAAA
64 CCGCAATGGCGAACCGTGTACC-TAAAAAGACAGGAAA
* * *
37373654 GGAAAGACTTAAGACGCAATGGCGAATCCAGTACCACAAAGATACGAAAGGGAAAGGTTTGAGCC
1 GGAAAGACTTAAGACGCAATGGCAAATCCAATACCACAAAGATACGAAAGGGAAAGGTTTAAGCC
* * *
37373719 GTAATGGCGAACCGTGTACCTCAGAAGACAGGAAA
66 GCAATGGCGAACCGTGTACCTAAAAAGACAGGAAA
* * * * * * ** * *
37373754 GGAAAGATTTAAGCCGTAATGGCAAATTCAATATCACGAAGATTTGGAAGGGAAAGGTTTAAGTC
1 GGAAAGACTTAAGACGCAATGGCAAATCCAATACCACAAAGATACGAAAGGGAAAGGTTTAAGCC
*
37373819 GCGATGGCGAACCCG-GTACCT
66 GCAATGGCGAA-CCGTGTACCT
37373840 TATAAACATG
Statistics
Matches: 155, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
100 80 0.52
101 62 0.40
102 12 0.08
103 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.16
Consensus pattern (100 bp):
GGAAAGACTTAAGACGCAATGGCAAATCCAATACCACAAAGATACGAAAGGGAAAGGTTTAAGCC
GCAATGGCGAACCGTGTACCTAAAAAGACAGGAAA
Found at i:37374505 original size:200 final size:200
Alignment explanation
Indices: 37374154--37375280 Score: 1806
Period size: 200 Copynumber: 5.6 Consensus size: 200
37374144 AAATAGCAAT
*
37374154 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCCCAA
1 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTC-A
* *
37374219 ACACGAGCGAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
65 ACGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* * *
37374284 TGGTTAGCTTTCTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCTTGAGGAGATCCAGAGA
130 TGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGA
37374349 AGCGAA
195 AGCGAA
* * * *
37374355 TTAAAATAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAAAAGAAAACCAACTCAACACTCAA
1 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA
37374420 CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
66 CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
37374485 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAA
37374550 GCGAA
196 GCGAA
**
37374555 TTAAAACAAGAGAGGCAATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA
1 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA
* *
37374620 CGCAAACAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
66 CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
* * * *
37374685 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGAAAATTCAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAA
37374750 GCGAA
196 GCGAA
* *
37374755 TTAAAACAAGAGAGGCGATCATCTTCCTGGTGAGATACAGAGAAGAATACCAACTCAACGCTCAA
1 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA
*
37374820 CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAAAAT
66 CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
* *
37374885 GGTTAACTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAAGAGATCCAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAA
*
37374950 GCTAA
196 GCGAA
*
37374955 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGTTCAA
1 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA
*
37375020 CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAGGCAATAAAAT
66 CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
* ** *
37375085 GGTTAGCTTTCTGATGAGACACAGAGAAGTATACCAAATTCGTCTTCCTGAGGAGATCCAGATAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAA
*
37375150 GCAAA
196 GCGAA
* * * * * *
37375155 TTAAAACAAGCGAGACGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCAACG
1 TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACC-AA-C---TCAACG
* * * * *
37375220 CTCAATGAGAACAAATCTTTGAACCTAA-CTTCCTGATGAGACACTGAGAAGCAAGTCGAAG
61 CTCAACGCGAGCAAATCTTCGAACC-AAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
37375281 TCAGCAATCT
Statistics
Matches: 861, Mismatches: 59, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
200 742 0.86
201 60 0.07
202 1 0.00
205 56 0.07
206 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (200 bp):
TTAAAACAAGAGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA
CGCGAGCAAATCTTCGAACCAAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAA
GCGAA
Found at i:37375641 original size:13 final size:13
Alignment explanation
Indices: 37375625--37375649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37375615 ATTTAAACCC
37375625 ATTTTAAAGATTT
1 ATTTTAAAGATTT
37375638 ATTTTAAAGATT
1 ATTTTAAAGATT
37375650 AAATTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATTTTAAAGATTT
Found at i:37375657 original size:18 final size:17
Alignment explanation
Indices: 37375634--37375676 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
37375624 CATTTTAAAG
37375634 ATTTATTTTAAAGATTAA
1 ATTTATTTTAAA-ATTAA
* *
37375652 ATTTATTTTGAATTTAA
1 ATTTATTTTAAAATTAA
37375669 ATTTATTT
1 ATTTATTT
37375677 GAATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTTATTTTAAAATTAA
Found at i:37375679 original size:16 final size:17
Alignment explanation
Indices: 37375634--37375687 Score: 74
Period size: 16 Copynumber: 3.2 Consensus size: 17
37375624 CATTTTAAAG
* *
37375634 ATTTATTTTAAAGATTAA
1 ATTTATTTTGAA-TTTAA
37375652 ATTTATTTTGAATTTAA
1 ATTTATTTTGAATTTAA
37375669 ATTTA-TTTGAATTTAA
1 ATTTATTTTGAATTTAA
37375685 ATT
1 ATT
37375688 CAAGACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 14 0.41
17 9 0.26
18 11 0.32
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTATTTTGAATTTAA
Found at i:37377240 original size:33 final size:32
Alignment explanation
Indices: 37377172--37377241 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 32
37377162 ATTTGTGCAC
* *
37377172 TTGGTCCTTCTGTATTTTTTTAATTATTTCGAT
1 TTGGTCCTTCTGTA-TCTTTTAATTATTTCAAT
*
37377205 TTGGTCCCTTCTGTA-CTTTTAATTATTGTTAAT
1 TTGGT-CCTTCTGTATCTTTTAATTATT-TCAAT
37377238 TTGG
1 TTGG
37377242 CCCAGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 11 0.34
33 12 0.38
34 9 0.28
ACGTcount: A:0.16, C:0.13, G:0.14, T:0.57
Consensus pattern (32 bp):
TTGGTCCTTCTGTATCTTTTAATTATTTCAAT
Found at i:37377571 original size:29 final size:27
Alignment explanation
Indices: 37377529--37377627 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 27
37377519 GAAACTATAT
*
37377529 TTTTGACCCTAAAACTTCAAAAAATTACA
1 TTTTGACCCCAAAACTTC-AAAAATT-CA
*
37377558 TTTTGACCCCAAAACTTCCTAAAATTCTTA
1 TTTTGACCCCAAAACTT-CAAAAATTC--A
* * *
37377588 TTTTAACCTC-AAACTTTCCAAAATTCCA
1 TTTTGACCCCAAAAC-TTCAAAAATT-CA
37377616 TTTTGACCCCAA
1 TTTTGACCCCAA
37377628 TTTCACAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
28 10 0.18
29 34 0.60
30 13 0.23
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.34
Consensus pattern (27 bp):
TTTTGACCCCAAAACTTCAAAAATTCA
Found at i:37377728 original size:59 final size:58
Alignment explanation
Indices: 37377587--37377767 Score: 170
Period size: 59 Copynumber: 3.1 Consensus size: 58
37377577 TAAAATTCTT
* *
37377587 ATTTTA-ACCTCAAACTTTCCAAAATTCCA-TTTTGACCCCAATTTCACAAAAAATTACC
1 ATTTTACACC-CAAACTTTCCAAAATT-CATTTTTGACCTCAATTTCACCAAAAATTACC
* * ** * * *
37377645 ATTTTAC-CCCTGAGCCCTCCAAAATCTCGTTTTTAACCTCGATTTCACCAAAAATTACC
1 ATTTTACACCC-AAACTTTCCAAAAT-TCATTTTTGACCTCAATTTCACCAAAAATTACC
* * * **
37377704 ATTTTACACCCAAACTTTCAAAAATTTTATTTTTGACCTCTATTTTTCCAAAAATTACC
1 ATTTTACACCCAAACTTTCCAAAA-TTCATTTTTGACCTCAATTTCACCAAAAATTACC
37377763 ATTTT
1 ATTTT
37377768 GCCCTCGGGT
Statistics
Matches: 97, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
57 1 0.01
58 19 0.20
59 73 0.75
60 4 0.04
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (58 bp):
ATTTTACACCCAAACTTTCCAAAATTCATTTTTGACCTCAATTTCACCAAAAATTACC
Found at i:37380352 original size:16 final size:16
Alignment explanation
Indices: 37380333--37380384 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
37380323 ATATATATAT
*
37380333 TAAAAATAATTAAAAA
1 TAAAAATTATTAAAAA
37380349 T-AAAATTA-TAGAAAA
1 TAAAAATTATTA-AAAA
37380364 TATAATAATTATTAAAAA
1 TA-AA-AATTATTAAAAA
37380382 TAA
1 TAA
37380385 TTAAATTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.07
15 11 0.37
16 1 0.03
17 3 0.10
18 11 0.37
19 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
TAAAAATTATTAAAAA
Found at i:37380357 original size:40 final size:40
Alignment explanation
Indices: 37380281--37380389 Score: 105
Period size: 40 Copynumber: 2.6 Consensus size: 40
37380271 AGAAATTTTT
* * * * *
37380281 TTATATATAAATTACAAAACAATCATAAAAATATTATA-AA
1 TTATATATATATTA-AAAATAATTAAAAAAAAATTATAGAA
37380321 TTATATATATATTAAAAATAATTAAAAATAAAATTATAGAA
1 TTATATATATATTAAAAATAATTAAAAA-AAAATTATAGAA
*
37380362 -AATATAATAATTATTAAAAATAATTAAA
1 TTATAT-AT-A-TATTAAAAATAATTAAA
37380390 TTTACAATGG
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
39 11 0.19
40 25 0.43
41 4 0.07
42 1 0.02
43 17 0.29
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (40 bp):
TTATATATATATTAAAAATAATTAAAAAAAAATTATAGAA
Found at i:37380358 original size:27 final size:27
Alignment explanation
Indices: 37380306--37380358 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
37380296 AAAACAATCA
* * *
37380306 TAAAAATATTATAAATTATATATATAT
1 TAAAAATATTAAAAATAAAATATATAT
37380333 TAAAAATAATTAAAAATAAAAT-TATA
1 TAAAAAT-ATTAAAAATAAAATATATA
37380359 GAAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAAAATATTAAAAATAAAATATATAT
Found at i:37383172 original size:16 final size:16
Alignment explanation
Indices: 37383151--37383183 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37383141 ATGCAGAAGT
37383151 ATATTT-AAATTTATTG
1 ATATTTGAAATTT-TTG
37383167 ATATTTGAAATTTTTG
1 ATATTTGAAATTTTTG
37383183 A
1 A
37383184 ATCTTATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (16 bp):
ATATTTGAAATTTTTG
Found at i:37385939 original size:61 final size:60
Alignment explanation
Indices: 37385828--37386068 Score: 183
Period size: 59 Copynumber: 4.1 Consensus size: 60
37385818 AAAAATGACA
* * * * ** * * *
37385828 TTTTAGACTTTCGAGGGTAAAATGGTAATTTTTAGAAA--AATCGGGATCAAAAACGAAAT
1 TTTTGGACATTCGAGAGTAAAATAGTAATTTTT-GAAAGCTTTCGGGGTCAAAAATGGAAT
* * * *
37385887 TTTTGGACATTCGGGGGTAAAATAGTATTTTTTTTGAAAG-TTTCGGGGTCAAAAATGGAGT
1 TTTTGGACATTCGAGAGTAAAATAGTA--ATTTTTGAAAGCTTTCGGGGTCAAAAATGGAAT
* * *
37385948 TTTTGGACATTCGAGAGTAAAATGGTAATTTTTGAAAGCTTT-AGGGTTAAAAATGGAAT
1 TTTTGGACATTCGAGAGTAAAATAGTAATTTTTGAAAGCTTTCGGGGTCAAAAATGGAAT
* * ** * *
37386007 TTTTGGA-AGTT-TAGGTGTAAAAT-GTAATTTTT-AAAAATTTCGAGGTTAAAAATGGAAT
1 TTTTGGACA-TTCGA-GAGTAAAATAGTAATTTTTGAAAGCTTTCGGGGTCAAAAATGGAAT
37386065 TTTT
1 TTTT
37386069 AGAAGTTTAG
Statistics
Matches: 151, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
57 6 0.04
58 30 0.20
59 64 0.42
60 7 0.05
61 44 0.29
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (60 bp):
TTTTGGACATTCGAGAGTAAAATAGTAATTTTTGAAAGCTTTCGGGGTCAAAAATGGAAT
Found at i:37386008 original size:30 final size:28
Alignment explanation
Indices: 37385966--37386105 Score: 131
Period size: 30 Copynumber: 4.8 Consensus size: 28
37385956 ATTCGAGAGT
37385966 AAAATGGTAATTTTTGAAAGCTTTAGGGTTA
1 AAAATGG-AATTTTT-AAAG-TTTAGGGTTA
*
37385997 AAAATGGAATTTTTGGAAGTTTA-GGTGT-
1 AAAATGGAATTTTT-AAAGTTTAGGGT-TA
* * *
37386025 AAAATGTAATTTTTAAAAATTTCGAGGTTA
1 AAAATGGAATTTTT-AAAGTTTAG-GGTTA
*
37386055 AAAATGGAATTTTTAGAAGTTTAGGGGTA
1 AAAATGGAATTTTTA-AAGTTTAGGGTTA
*
37386084 AAAATGTAATTTTTAGAAGTTT
1 AAAATGGAATTTTTA-AAGTTT
37386106 CGGGATCTCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
28 21 0.23
29 32 0.34
30 33 0.35
31 7 0.08
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (28 bp):
AAAATGGAATTTTTAAAGTTTAGGGTTA
Found at i:37386009 original size:29 final size:28
Alignment explanation
Indices: 37385966--37386105 Score: 104
Period size: 29 Copynumber: 4.8 Consensus size: 28
37385956 ATTCGAGAGT
37385966 AAAATGGTAATTTTTGAAAGCTTTAGGGTTA
1 AAAATGG-AA-TTTTGAAAG-TTTAGGGTTA
*
37385997 AAAATGGAATTTTTGGAAGTTTA-GGTGT-
1 AAAATGGAA-TTTTGAAAGTTTAGGGT-TA
* * * *
37386025 AAAATGTAATTTTTAAAAATTTCGAGGTTA
1 AAAATGGAA-TTTTGAAAGTTTAG-GGTTA
* *
37386055 AAAATGGAATTTTTAGAAGTTTAGGGGTA
1 AAAATGGAATTTTGA-AAGTTTAGGGTTA
* *
37386084 AAAATGTAATTTTTAGAAGTTT
1 AAAATGGAATTTTGA-AAGTTT
37386106 CGGGATCTCC
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
28 21 0.23
29 36 0.39
30 28 0.30
31 7 0.08
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (28 bp):
AAAATGGAATTTTGAAAGTTTAGGGTTA
Found at i:37386010 original size:59 final size:58
Alignment explanation
Indices: 37385762--37386068 Score: 234
Period size: 58 Copynumber: 5.2 Consensus size: 58
37385752 CGGGGGGTAC
* * * *
37385762 AATGGTAA-TTTTGGAC-TCTCGAGGGCAAAATGGTAATTTTGGGAAAACTTAGGATTAAA
1 AATGG-AATTTTTGGACAT-TCGAGGGTAAAATGGTAATTTT-TGAAAATTTAGGGTTAAA
* * * * *
37385821 AAT-GACA-TTTTAGACTTTCGAGGGTAAAATGGTAATTTTTAGAAAA-ATCGGGATCAAA
1 AATGGA-ATTTTTGGACATTCGAGGGTAAAATGGTAATTTTT-GAAAATTTAGGG-TTAAA
* * * * * * * *
37385879 AACGAAATTTTTGGACATTCGGGGGTAAAATAGTATTTTTTTTGAAAGTTTCGGGGTCAAA
1 AATGGAATTTTTGGACATTCGAGGGTAAAATGGTA--ATTTTTGAAAATTT-AGGGTTAAA
* * *
37385940 AATGGAGTTTTTGGACATTCGAGAGTAAAATGGTAATTTTTGAAAGCTTTAGGGTTAAA
1 AATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGAAA-ATTTAGGGTTAAA
* * *
37385999 AATGGAATTTTTGGA-AGTT-TAGGTGTAAAAT-GTAATTTTTAAAAATTTCGAGGTTAAA
1 AATGGAATTTTTGGACA-TTCGAGG-GTAAAATGGTAATTTTTGAAAATTTAG-GGTTAAA
37386057 AATGGAATTTTT
1 AATGGAATTTTT
37386069 AGAAGTTTAG
Statistics
Matches: 201, Mismatches: 33, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
57 8 0.04
58 76 0.38
59 67 0.33
60 7 0.03
61 40 0.20
62 3 0.01
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (58 bp):
AATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGAAAATTTAGGGTTAAA
Found at i:37387985 original size:17 final size:17
Alignment explanation
Indices: 37387962--37388089 Score: 168
Period size: 17 Copynumber: 7.4 Consensus size: 17
37387952 ACATTTATTC
*
37387962 ATTTAAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
37387979 TTTTAAATTTTAAAATAA
1 ATTTAAA-TTTAAAATAA
* *
37387997 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAAATAA
37388014 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
37388031 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
37388048 ATATAAATTTTAAAACAA
1 ATTTAAA-TTTAAAATAA
37388066 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
37388083 ATTTAAA
1 ATTTAAA
37388090 ATAGGTTTGG
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
16 1 0.01
17 66 0.69
18 29 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:37388008 original size:6 final size:6
Alignment explanation
Indices: 37387962--37388057 Score: 78
Period size: 6 Copynumber: 16.7 Consensus size: 6
37387952 ACATTTATTC
* * *
37387962 ATTTAA ATTTATA A--TAA TTTTAA ATTTTAA A-ATAA ATTTAA ACTTAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA A-TTTAA ATTTAA ATTTAA ATTTAA
* * *
37388009 A-TTAA ATTTAA ATTTAA A-ATAA ATTTAA ATTTAA A-ATAA ATATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
37388054 ATTT
1 ATTT
37388058 TAAAACAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
4 1 0.01
5 19 0.26
6 45 0.62
7 8 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:37388023 original size:23 final size:23
Alignment explanation
Indices: 37387995--37388057 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
37387985 ATTTTAAAAT
*
37387995 AAATTTAAACTTAAA-TTAAATTT
1 AAATTTAAA-ATAAATTTAAATTT
37388018 AAATTTAAAATAAATTTAAATTT
1 AAATTTAAAATAAATTTAAATTT
*
37388041 AAA-ATAAATATAAATTT
1 AAATTTAAA-ATAAATTT
37388058 TAAAACAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 8 0.22
23 28 0.78
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATTTAAAATAAATTTAAATTT
Found at i:37388024 original size:52 final size:52
Alignment explanation
Indices: 37387962--37388089 Score: 170
Period size: 52 Copynumber: 2.5 Consensus size: 52
37387952 ACATTTATTC
* * * **
37387962 ATTTAAATTTATAATAATTTTAAATTTTAAAATAAATTTAAA-CTTAAATTAA
1 ATTTAAATTTAAAATAAATTTAAA-TTTAAAATAAATATAAATCTTAAAACAA
*
37388014 ATTTAAATTTAAAATAAATTTAAATTTAAAATAAATATAAATTTTAAAACAA
1 ATTTAAATTTAAAATAAATTTAAATTTAAAATAAATATAAATCTTAAAACAA
37388066 ATTT-AATCTTAAAATAAATTTAAA
1 ATTTAAAT-TTAAAATAAATTTAAA
37388090 ATAGGTTTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
51 19 0.28
52 49 0.72
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (52 bp):
ATTTAAATTTAAAATAAATTTAAATTTAAAATAAATATAAATCTTAAAACAA
Found at i:37388091 original size:11 final size:12
Alignment explanation
Indices: 37387982--37388071 Score: 75
Period size: 11 Copynumber: 7.8 Consensus size: 12
37387972 ATAATAATTT
37387982 TAAATTTTAAA-A
1 TAAA-TTTAAATA
37387994 TAAATTTAAACT-
1 TAAATTTAAA-TA
*
37388006 TAAA-TTAAATT
1 TAAATTTAAATA
37388017 TAAATTTAAA-A
1 TAAATTTAAATA
*
37388028 TAAATTTAAATT
1 TAAATTTAAATA
*
37388040 TAAA-ATAAATA
1 TAAATTTAAATA
37388051 TAAATTTTAAA-A
1 TAAA-TTTAAATA
*
37388063 CAAATTTAA
1 TAAATTTAA
37388072 TCTTAAAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
10 1 0.02
11 39 0.60
12 21 0.32
13 4 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:37388944 original size:209 final size:208
Alignment explanation
Indices: 37388406--37389726 Score: 1711
Period size: 209 Copynumber: 6.3 Consensus size: 208
37388396 TCACTGTAGT
* * ** * * * *
37388406 CTTTGAGTTTGGTTTCATTGACTTGACCTTCTTCTTAATATCTCATTAGGAAGATGACCGCATCA
1 CTTTGAGCTT-GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
** * * * * * *
37388471 CTTGTTTTTGATCCACTTCTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCTGCATCT
65 CTTG-TTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCT
* * ****
37388536 TATCAGGAAGGTAATTGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGT
129 CATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGT
37388601 TCGAAGATTTGCTCA
194 TCGAAGATTTGCTCA
* *
37388616 CTTTGAGCCTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGGTGACCGCATCAC
1 CTTTGAGCTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCAC
* *
37388681 TTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAACTCA
66 TTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCA
* *
37388746 TCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTT
131 TCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTC
37388811 GAAGATTTGCTCA
196 GAAGATTTGCTCA
* * * * * * * *
37388824 CCTTGAGCTTGGCTTCATCGAGTTGGTATACTTCTCTGTATCTCATTAGGAAGATGACCGCCTCA
1 CTTTGAGCTT-GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
** * * * * * *
37388889 CTTGTTTTGATCTACTTCTCTGTGTCTTATCAAGAAGACGGATTTGGTCCACTTCTCAGCATCTC
65 CTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
* * *
37388954 ATCAGGAAGCTAACTATTTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAGGAAG-TTGAGG
130 ATCAGGAAGCTAACCA-TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAG-GG
37389018 TTCGAAGATTTGCTCA
193 TTCGAAGATTTGCTCA
* * * ** * * **
37389034 CATCGAGCGTGGGT--TTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATTGC
1 CTTTGAGCTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCAC
37389097 TTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCA
66 TTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCA
* * * *
37389162 TCAGAAAGCTAACAATTTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTC
131 TCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTC
37389227 GAAGATTTGCTCA
196 GAAGATTTGCTCA
* ** * * *
37389240 -TTTCGAGCGTGGGT--TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCG
1 CTTT-GAGCTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
* * * *
37389302 TTTATTTAAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
65 CTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
* * *
37389367 ATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGTT
130 ATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTT
*
37389432 CGAAGATTTGCTCG
195 CGAAGATTTGCTCA
* * *
37389446 CTTTGAGCCTTGTTTTATTGATTTGGTCTACATCTCAGTATCTCATCAGGAAGATGACCGCATCG
1 CTTTGAG-CTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
** * ** *
37389511 CTTGTTTCAATCTGCTTCTTTGTATCTCATCAAAAAGACGAATTTGGTCCACTTCTCAATATCTC
65 CTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
*
37389576 ATCAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGCT-GAGGT
130 ATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAG-GGT
* *
37389640 TCGAACATTTGCTCG
194 TCGAAGATTTGCTCA
* * *
37389655 CTTTGAGCCTTGTTTCATTGATTTGGCCTACTTCTCAGTATCTCACCAAGAAGATGACCGCATCA
1 CTTTGAG-CTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCA
37389720 CTTGTTT
65 CTTGTTT
37389727 TTGGATAATC
Statistics
Matches: 978, Mismatches: 123, Indels: 21
0.87 0.11 0.02
Matches are distributed among these distances:
205 1 0.00
206 246 0.25
207 118 0.12
208 131 0.13
209 410 0.42
210 72 0.07
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (208 bp):
CTTTGAGCTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCAC
TTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCA
TCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTC
GAAGATTTGCTCA
Found at i:37389489 original size:622 final size:624
Alignment explanation
Indices: 37388422--37389726 Score: 1812
Period size: 622 Copynumber: 2.1 Consensus size: 624
37388412 GTTTGGTTTC
* * * * * * **
37388422 ATTGACTTGACCTTCTTCTTAATATCTCATTAGGAAGATGACCGCATCACTTGTTTTTGATCCAC
1 ATTGATTTGGCCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTG-TTTCAATCCAC
* * * * * * * * **
37388487 TTCTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCTGCATCTTATCAGGAAGGTAATT
65 TTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGCATCTCATCAGAAAGCTAACA
* * *
37388552 GCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCAC
130 ACTTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCAC
** *
37388617 TTTGAGCCTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGGTGACCGCATCACT
195 TTTGAGCCTGGGT-ATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACT
* *
37388682 TGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAACTCAT
259 TATTTAAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAACTCAT
* * *
37388747 CAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTTG
324 CAGAAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCG
* * *
37388812 AAGATTTGCTCACCTTGAGCTTGGCTTCATCGAGTTGGTATACTTCTCTGTATCTCATTAGGAAG
389 AAGATTTGCTCACCTTGAGCTTGGCTTCATCGAGTTGGTATACATCTCAGTATCTCATCAGGAAG
* ** * * * *
37388877 ATGACCGCCTCACTTGTTTTGATCTACTTCTCTGTGTCTTATCAAGAAGACGGATTTGGTCCACT
454 ATGACCGCATCACTTGTTTCAATCTACTTCTCTGTATCTCATCAAAAAGACGAATTTGGTCCACT
* * *
37388942 TCTCAGCATCTCATCAGGAAGCTAACTATTTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCA
519 TCTCAACATCTCATCAGGAAGCTAACCA-TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA
* *
37389007 GGAAGTTGAGGTTCGAAGATTTGCTCACATCGAG-CGTGGGT
583 GGAAGCTGAGGTTCGAACATTTGCTCACATCGAGCCGTGGGT
* **
37389048 -TTGATTTGGTCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATTGCTTGTTTCAATCCACT
1 ATTGATTTGGCCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAATCCACT
*
37389112 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGAAAGCTAACAA
66 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGCATCTCATCAGAAAGCTAACAA
*
37389177 TTTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCA-T
131 CTTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACT
* * * **
37389241 TTCGAGCGTGGGT-TTGATTTGGTCTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCGTTT
196 TT-GAGCCTGGGTATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTT
*
37389305 ATTTAAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATC
260 ATTTAAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAACTCATC
* *
37389370 AGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGA
325 AGAAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGA
* * * * * * *
37389435 AGATTTGCTCGCTTTGAGCCTT-GTTTTATTGATTTGGTCTACATCTCAGTATCTCATCAGGAAG
390 AGATTTGCTCACCTTGAG-CTTGGCTTCATCGAGTTGGTATACATCTCAGTATCTCATCAGGAAG
* * *
37389499 ATGACCGCATCGCTTGTTTCAATCTGCTTCTTTGTATCTCATCAAAAAGACGAATTTGGTCCACT
454 ATGACCGCATCACTTGTTTCAATCTACTTCTCTGTATCTCATCAAAAAGACGAATTTGGTCCACT
* *
37389564 TCTCAATATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAG
519 TCTCAACATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAG
* * * * **
37389629 GAAGCTGAGGTTCGAACATTTGCTCGCTTTGAGCCTTGTTT
584 GAAGCTGAGGTTCGAACATTTGCTCACATCGAGCCGTGGGT
* *
37389670 CATTGATTTGGCCTACTTCTCAGTATCTCACCA-AGAAGATGACCGCATCACTTGTTT
1 -ATTGATTTGGCCTTCTTCTCAGTATCTCATCAGA-AAGATGACCGCATCACTTGTTT
37389727 TTGGATAATC
Statistics
Matches: 593, Mismatches: 80, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
621 63 0.11
622 302 0.51
623 7 0.01
624 178 0.30
625 43 0.07
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (624 bp):
ATTGATTTGGCCTTCTTCTCAGTATCTCATCAGAAAGATGACCGCATCACTTGTTTCAATCCACT
TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGCATCTCATCAGAAAGCTAACAA
CTTTATTACTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACT
TTGAGCCTGGGTATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTA
TTTAAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTAACTCATCA
GAAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAA
GATTTGCTCACCTTGAGCTTGGCTTCATCGAGTTGGTATACATCTCAGTATCTCATCAGGAAGAT
GACCGCATCACTTGTTTCAATCTACTTCTCTGTATCTCATCAAAAAGACGAATTTGGTCCACTTC
TCAACATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGA
AGCTGAGGTTCGAACATTTGCTCACATCGAGCCGTGGGT
Found at i:37389866 original size:39 final size:39
Alignment explanation
Indices: 37389753--37389934 Score: 101
Period size: 39 Copynumber: 4.7 Consensus size: 39
37389743 CGCCCCGTGA
* * * *
37389753 TCGGGGTAGGAGATTGGTTGACGGTGATCTGCCTCAAGC
1 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGC
* * * *
37389792 TCGAGATAAAAGATCAAATGGTTG-T-A--ATCTACCCCAAGC
1 TCGGGGTAAGAGAT----TGGTTGATGATGATCTGCCCCAAGC
* *
37389831 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAGGA
1 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGC
* * * *
37389870 TCGGGGTAAAAGATCCAATGGCT--TCA--ATCTGCCCCAGGC
1 TCGGGGTAAGAGAT----TGGTTGATGATGATCTGCCCCAAGC
*
37389909 TCGGGGTAAGAGATTGGTTGACGATG
1 TCGGGGTAAGAGATTGGTTGATGATG
37389935 TAACTTCACT
Statistics
Matches: 105, Mismatches: 22, Indels: 32
0.66 0.14 0.20
Matches are distributed among these distances:
35 10 0.10
36 1 0.01
37 2 0.02
39 80 0.76
41 2 0.02
43 10 0.10
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (39 bp):
TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGC
Found at i:37389880 original size:78 final size:78
Alignment explanation
Indices: 37389753--37389934 Score: 240
Period size: 78 Copynumber: 2.3 Consensus size: 78
37389743 CGCCCCGTGA
* * * * *
37389753 TCGGGGTAGGAGATTGGTTGACGGTGATCTGCCTCAAGCTCGAGATAAAAGATCAAATGG-TTGT
1 TCGGGGTAAGAGATTGGTTGACGATGATCTGCCCCAAGATCGAGATAAAAGATCAAATGGCTT-C
37389817 AATCTACCCCAAGC
65 AATCTACCCCAAGC
* * * * *
37389831 TCGGGGTAAGAGATTGGTTGATGATGATCTGCCCCAGGATCGGGGTAAAAGATCCAATGGCTTCA
1 TCGGGGTAAGAGATTGGTTGACGATGATCTGCCCCAAGATCGAGATAAAAGATCAAATGGCTTCA
* *
37389896 ATCTGCCCCAGGC
66 ATCTACCCCAAGC
37389909 TCGGGGTAAGAGATTGGTTGACGATG
1 TCGGGGTAAGAGATTGGTTGACGATG
37389935 TAACTTCACT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 88 0.98
79 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (78 bp):
TCGGGGTAAGAGATTGGTTGACGATGATCTGCCCCAAGATCGAGATAAAAGATCAAATGGCTTCA
ATCTACCCCAAGC
Found at i:37390133 original size:101 final size:102
Alignment explanation
Indices: 37389989--37390189 Score: 305
Period size: 102 Copynumber: 2.0 Consensus size: 102
37389979 GCTGCTGTAG
* * * * * *
37389989 TTTTAATCCAACTTTGCTGCAACTTTAGGAAGATAGGATTTGATG-TTGAAGTTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAAGATAGAAATTGATGTTTGAAGCTTCATCTTGCTC
*
37390053 TTACTACAACTTCAGAGAGATAAAGACTTGTTATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
* *
37390090 TTTTAATCCAACTTTACTGTAACTTCAAGAAGATAGAAATTGATGTTTGAAGCTTCATCTTGGTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAAGATAGAAATTGATGTTTGAAGCTTCATCTTGCTC
*
37390155 TTATTACAACTTCAGAGAGATAAAGACTTGCTATT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCTATT
37390190 TTGATTTGAT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 39 0.44
102 50 0.56
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (102 bp):
TTTTAATCCAACTTTACTGCAACTTCAAGAAGATAGAAATTGATGTTTGAAGCTTCATCTTGCTC
TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
Found at i:37390440 original size:98 final size:98
Alignment explanation
Indices: 37390307--37390837 Score: 415
Period size: 98 Copynumber: 5.4 Consensus size: 98
37390297 TCCCTTCAAA
** * * *
37390307 TCTTCG-TGGTACTGGATCCACCATTGCGGTCTTAGATCTTT-TCCTTTATGTCTTTGTGGTACT
1 TCTTCGCT-GTACTGGATCTGCCGTTACGGTCTTAGATCTTTCT-CTTTGTGTCTTTGTGGTACT
* *
37390370 GGATCCGCCGTCACGACTTAAATCTTTCCCTCGCG
64 GGATCCGCCGTCACGACTTAGATCTTTCCCTCGTG
* * * * *
37390405 TCTTCGCTGTATTGGATTTGTCGTTACGGTCTTAGATCTTTCTCGTTGTGTTTTTGTGGTACTGG
1 TCTTCGCTGTACTGGATCTGCCGTTACGGTCTTAGATCTTTCTCTTTGTGTCTTTGTGGTACTGG
* *** * * *
37390470 ATTCGCCGTTGTGGCTTAGATCTTTCCTTGGTG
66 ATCCGCCGTCACGACTTAGATCTTTCCCTCGTG
* ** * *
37390503 TCTTCG-TGGTACTGGATCCGCCGTTGTGGTC-TAGATCTTTC-CTTGGTGTCTTCGTGGTACTG
1 TCTTCGCT-GTACTGGATCTGCCGTTACGGTCTTAGATCTTTCTCTTTGTGTCTTTGTGGTACTG
* * * *
37390565 GATCTGTCGTCACGGCTTAGATCTTTCCCTTGTG
65 GATCCGCCGTCACGACTTAGATCTTTCCCTCGTG
* * * * * ***
37390599 TCTTTGCGGTACTGGATCTGCCGTTACGGTCTTAGATCTTTCTCATCGTGTTTTTGTGGTACCAA
1 TCTTCGCTGTACTGGATCTGCCGTTACGGTCTTAGATCTTTCTCTTTGTGTCTTTGTGGTACTGG
* * *
37390664 ATCCGCCGTTACGACTTAGATCTTTTCCTGGTG
66 ATCCGCCGTCACGACTTAGATCTTTCCCTCGTG
* ** ** * * * * * * *
37390697 TCTTTGAGGTACTACATCCGCTGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTTGTGGTACTGG
1 TCTTCGCTGTACTGGATCTGCCGTTACGGTCTTAGATCTTTCTCTTTGTGTCTTTGTGGTACTGG
* ** * **
37390762 ATCTGCCGTTGCGATCTTAGATCTTTTCCTTATG
66 ATCCGCCGTCACGA-CTTAGATCTTTCCCTCGTG
* * * * * * *
37390796 TTTTTGCGGTATTGGATCCGTCGTTGCGGTCTTAGATCTTTC
1 TCTTCGCTGTACTGGATCTGCCGTTACGGTCTTAGATCTTTC
37390838 CCTTCGTATT
Statistics
Matches: 347, Mismatches: 79, Indels: 13
0.79 0.18 0.03
Matches are distributed among these distances:
96 68 0.20
97 21 0.06
98 205 0.59
99 53 0.15
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.42
Consensus pattern (98 bp):
TCTTCGCTGTACTGGATCTGCCGTTACGGTCTTAGATCTTTCTCTTTGTGTCTTTGTGGTACTGG
ATCCGCCGTCACGACTTAGATCTTTCCCTCGTG
Found at i:37390638 original size:194 final size:195
Alignment explanation
Indices: 37390307--37390889 Score: 670
Period size: 194 Copynumber: 3.0 Consensus size: 195
37390297 TCCCTTCAAA
* * **
37390307 TCTTCGTGGTACTGGATCCACCATTGCGGTCTTAGATCTTTTCCTTTATGTCTTTGTGGTACTGG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATC-TTTCCTTCGTGTCTTTGTGGTACTGG
* * * * * * *
37390372 ATCCGCCGTCACGACTTAAATCTTTCCCTCGCGTCTTCGCTGTATTGGATTTGTCGTTACGGTCT
65 ATCTGCCGTCACGACTTAGATCTTTCCCTTGTGTCTTTGCGGTATTGGATCTGTCGTTACGGTCT
* * *
37390437 TAGATCTTTCTCGTTGTGTTTTTGTGGTACTGGATTCGCCGTTGTGGCTTAGATCTTTCCTTGGT
130 TAGATCTTTCTCATTGTGTTTTTGTGGTACTAGATTCGCCGTTGCGGCTTAGATCTTTCCTTGGT
37390502 G
195 G
* * *
37390503 TCTTCGTGGTACTGGATCCGCCGTTGTGGTC-TAGATCTTTCCTTGGTGTCTTCGTGGTACTGGA
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCTTCGTGTCTTTGTGGTACTGGA
* * * *
37390567 TCTGTCGTCACGGCTTAGATCTTTCCCTTGTGTCTTTGCGGTACTGGATCTGCCGTTACGGTCTT
66 TCTGCCGTCACGACTTAGATCTTTCCCTTGTGTCTTTGCGGTATTGGATCTGTCGTTACGGTCTT
* * * * * *
37390632 AGATCTTTCTCATCGTGTTTTTGTGGTACCAAATCCGCCGTTACGACTTAGATCTTTTCC-TGGT
131 AGATCTTTCTCATTGTGTTTTTGTGGTACTAGATTCGCCGTTGCGGCTTAGATC-TTTCCTTGGT
37390696 G
195 G
* * ** * * *
37390697 TCTTTGAGGTACTACATCCGCTGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTTGTGGTACTGG
1 TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTT-CCTTCGTGTCTTTGTGGTACTGG
** * * * * *
37390762 ATCTGCCGTTGCGATCTTAGATCTTTTCCTTATGTTTTTGCGGTATTGGATCCGTCGTTGCGGTC
65 ATCTGCCGTCACGA-CTTAGATCTTTCCCTTGTGTCTTTGCGGTATTGGATCTGTCGTTACGGTC
* * * *
37390827 TTAGATCTTTC-CCTTCGTATTTTTGTTGTACTAGATAT-ACCGTTGCGGTCTTAGATCTTTCCT
129 TTAGATCTTTCTCATT-GTGTTTTTGTGGTACTAGAT-TCGCCGTTGCGG-CTTAGATCTTTCCT
37390890 GTCATGTCTC
Statistics
Matches: 322, Mismatches: 57, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
194 152 0.47
195 20 0.06
196 60 0.19
197 82 0.25
198 8 0.02
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.42
Consensus pattern (195 bp):
TCTTCGTGGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCTTCGTGTCTTTGTGGTACTGGA
TCTGCCGTCACGACTTAGATCTTTCCCTTGTGTCTTTGCGGTATTGGATCTGTCGTTACGGTCTT
AGATCTTTCTCATTGTGTTTTTGTGGTACTAGATTCGCCGTTGCGGCTTAGATCTTTCCTTGGTG
Found at i:37390887 original size:50 final size:50
Alignment explanation
Indices: 37390312--37390998 Score: 449
Period size: 50 Copynumber: 14.0 Consensus size: 50
37390302 TCAAATCTTC
** * * * ** *
37390312 GTGGTACTGGATCCACCATTGCGGTCTTAGATCTTTTCCTTTATGTCTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* ** * * * *
37390362 GTGGTACTGGATCCGCCGTCACGA-CTTAAATCTTTCCC-TCGCGTCTTC
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* * * * * *
37390410 GCT-GTATTGGATTTGTCGTTACGGTCTTAGATCTTTCTCGTT-GTGTTTTT
1 G-TGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTC-CCTTCGTGTTTTT
* * * * *
37390460 GTGGTACTGGAT-TCGCCGTTGTG-GCTTAGATCTTT-CCTTGGTGTCTTC
1 GTGGTACTGGATCT-GCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* * * * * *
37390508 GTGGTACTGGATCCGCCGTTGTGGTC-TAGATCTTT-CCTTGGTGTCTTC
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* ** * *
37390556 GTGGTACTGGATCTGTCGTCACG-GCTTAGATCTTTCCCTT-GTGTCTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* * * * *
37390604 GCGGTACTGGATCTGCCGTTACGGTCTTAGATCTTTCTCATCGTGTTTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
*** * * * * *
37390654 GTGGTACCAAATCCGCCGTTACGA-CTTAGATCTTTTCC-TGGTGTCTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* ** * *
37390702 GAGGTACTACATCCGCTGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* *
37390752 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTTCCTT-ATGTTTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* * * * * *
37390801 GCGGTATTGGATCCGTCGTTGCGGTCTTAGATCTTTCCCTTCGTATTTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
* * * * * * * *
37390851 GTTGTACTAGATATACCGTTGCGGTCTTAGATCTTT-CCTGTCATGTCTCT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCT-TCGTGTTTTT
* * * * * **
37390901 GAGGTA-TAAGGTTC-GCCGTTGCGA-CTTAAACCTTTCCCTTTGCATCTTTT
1 GTGGTACT--GGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGT-TTTT
* *
37390951 GCGGTACTGGATCCGCCGTTGCGATCTTAGATCTTT-CCTGTCGTGTTT
1 GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCT-TCGTGTTT
37390999 CATGGTGCTG
Statistics
Matches: 499, Mismatches: 113, Indels: 50
0.75 0.17 0.08
Matches are distributed among these distances:
47 4 0.01
48 152 0.30
49 142 0.28
50 185 0.37
51 16 0.03
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (50 bp):
GTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCCTTCGTGTTTTT
Found at i:37390972 original size:100 final size:100
Alignment explanation
Indices: 37390649--37390992 Score: 292
Period size: 99 Copynumber: 3.5 Consensus size: 100
37390639 TCTCATCGTG
*** * * * *
37390649 TTTTTGTGGTACCAAATCCGCCGTTACGA-CTTAGATCTTTTCCTG--GTGTCTTTGAGGTACTA
1 TTTTTGTGGTACTGGATCTGCCGTTGCGATCTTAGATC-TTTCCTGTCATGTCTCTGAGGTA-TA
* * * * **
37390711 -CATCCGCTGTTGC-GATCTTAGATCTTTCCCTTCGTG
64 GGATCCGCCGTTGCGGA-CTTAAACCTTTCCCTTCGCA
* * * *
37390747 TTTTTGTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTTCCT-T-ATGTTTTTGCGGTATTG
1 TTTTTGTGGTACTGGATCTGCCGTTGCGATCTTAGATC-TTTCCTGTCATGTCTCTGAGGTATAG
* * * * *
37390810 GATCCGTCGTTGCGGTCTTAGATCTTTCCCTTCGTA
65 GATCCGCCGTTGCGGACTTAAACCTTTCCCTTCGCA
* * * * *
37390846 TTTTTGTTGTACTAGATATACCGTTGCGGTCTTAGATCTTTCCTGTCATGTCTCTGAGGTATAAG
1 TTTTTGTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCTGTCATGTCTCTGAGGTAT-AG
* *
37390911 G-TTCGCCGTTGC-GACTTAAACCTTTCCCTTTGCA
65 GATCCGCCGTTGCGGACTTAAACCTTTCCCTTCGCA
* *
37390945 TCTTTTGCGGTACTGGATCCGCCGTTGCGATCTTAGATCTTTCCTGTC
1 T-TTTTGTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCTGTC
37390993 GTGTTTCATG
Statistics
Matches: 201, Mismatches: 37, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
98 31 0.15
99 107 0.53
100 61 0.30
101 2 0.01
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (100 bp):
TTTTTGTGGTACTGGATCTGCCGTTGCGATCTTAGATCTTTCCTGTCATGTCTCTGAGGTATAGG
ATCCGCCGTTGCGGACTTAAACCTTTCCCTTCGCA
Found at i:37392169 original size:6 final size:6
Alignment explanation
Indices: 37392160--37392216 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
37392150 CGACCTCTCC
37392160 TTTTCT TTTTCT TTTT-T TTATT-T TTTTCT CTTTTCAT TTTTCAT TTTTC-
1 TTTTCT TTTTCT TTTTCT TT-TTCT TTTTCT -TTTTC-T TTTTC-T TTTTCT
37392209 TTTTCT TT
1 TTTTCT TT
37392217 CATTCATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
5 10 0.22
6 18 0.39
7 17 0.37
8 1 0.02
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:37392205 original size:23 final size:23
Alignment explanation
Indices: 37392160--37392220 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
37392150 CGACCTCTCC
* *
37392160 TTTTCT-TTTTCTTTTTTTTATTT
1 TTTTCTCTTTTC-ATTTTTCATTT
37392183 TTTTCTCTTTTCATTTTTCATTT
1 TTTTCTCTTTTCATTTTTCATTT
*
37392206 TTCTTTTC-TTTCATT
1 TT-TTCTCTTTTCATT
37392221 CATGAATCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTCTCTTTTCATTTTTCATTT
Found at i:37393053 original size:18 final size:18
Alignment explanation
Indices: 37393019--37393052 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37393009 ACTTTTCTCT
*
37393019 CTTTTTTTCTTCCTTTTC
1 CTTTTTTACTTCCTTTTC
37393037 CTTTTTTACTT-CTTTT
1 CTTTTTTACTTCCTTTT
37393053 TTTTTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTTTTTACTTCCTTTTC
Found at i:37400072 original size:43 final size:44
Alignment explanation
Indices: 37400019--37400107 Score: 126
Period size: 47 Copynumber: 2.0 Consensus size: 44
37400009 ATGTGATAAG
* *
37400019 ATTTTTAATATTTATG-ATAGTGGTATGTTTATGTTGATGTGAA
1 ATTTCTAATATTTATGAATAGTGATATGTTTATGTTGATGTGAA
37400062 ATTTCTAATATTTATGATATATAGTGATATGTTTATGTTGATGTGA
1 ATTTCTAATATTTATG--A-ATAGTGATATGTTTATGTTGATGTGA
37400108 GAGTGTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 15 0.38
47 25 0.62
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (44 bp):
ATTTCTAATATTTATGAATAGTGATATGTTTATGTTGATGTGAA
Found at i:37401036 original size:17 final size:16
Alignment explanation
Indices: 37400998--37401037 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
37400988 AGATTCATTT
*
37400998 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
37401014 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
37401032 TTAAAT
1 TTAAAT
37401038 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:37404692 original size:199 final size:200
Alignment explanation
Indices: 37404349--37405181 Score: 1174
Period size: 199 Copynumber: 4.2 Consensus size: 200
37404339 CAAAATGGTA
* * *
37404349 AGGCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGTTCAAACACGAGCAAAT
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTC-AACACGAGCAAAT
** *
37404414 CTTATAACCCAACTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
65 CTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCC
* *
37404479 TGATGAGGCACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCGAATTAAAA
130 TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
*
37404544 CAACCG
195 CAAACG
*
37404550 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAACTCAACGCTCAACACGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACACGAGCAAATC
* *
37404615 TTCGAACCCAGCTT-CTGATGAGACACTGAGAAGCAAGTCGAACCAATAAAAAGGTTAGCTTCCT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
* * *
37404679 GATGAGACACAGAGAAGTAGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
131 GATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
*
37404744 AAGCG
196 AAACG
* * *** *
37404749 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAATGTGAGAAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACACGAGCAAATC
** * *
37404814 TTTAAACCCAGCTTCCTGATGAGACATTGAGAAGTAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
* *
37404879 GATGAGACACA-AGAAGTGGACCAAA------TTCCTGAGGACATCCAGAGAAGCGAATTGAAAC
131 GATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
37404937 AAACG
196 AAACG
*
37404942 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACG-------CGAGCAAATC
1 AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACACGAGCAAATC
* *
37405000 TTCGAACCCAGCATCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
66 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
37405065 GATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
131 GATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
* *
37405130 AGATG
196 AAACG
* * * * * * * *
37405135 ATTGCAGTCATTTTCTTGATGAGACACAGCGAAGAAGACCAAGTCAA
1 A-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAA
37405182 TGAAATCAGA
Statistics
Matches: 569, Mismatches: 54, Indels: 25
0.88 0.08 0.04
Matches are distributed among these distances:
186 78 0.14
187 14 0.02
193 117 0.21
194 37 0.07
199 194 0.34
200 82 0.14
201 47 0.08
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (200 bp):
AGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACACGAGCAAATC
TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
GATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC
AAACG
Found at i:37405576 original size:6 final size:6
Alignment explanation
Indices: 37405558--37405626 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
37405548 TATTTCTAAG
* **
37405558 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAGA TTCATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA
*
37405606 TTT--G TTCTAAA TTTAAA TTTA
1 TTTAAA TT-TAAA TTTAAA TTTA
37405627 GCTTAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 36 0.72
7 6 0.12
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:37405580 original size:17 final size:17
Alignment explanation
Indices: 37405558--37405626 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
37405548 TATTTCTAAG
37405558 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
* *
37405575 TTTAAATTTAAGATTCATT
1 TTTAAATTTAA-ATTTA-A
*
37405594 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAA
37405610 TTCTAAATTTAAATTTA
1 TT-TAAATTTAAATTTA
37405627 GCTTAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.05
17 22 0.51
18 5 0.12
19 14 0.33
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:37405633 original size:17 final size:16
Alignment explanation
Indices: 37405595--37405634 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
37405585 AGATTCATTT
*
37405595 TTAAATTTAAATTTGT
1 TTAAATTTAAATTTGC
37405611 TCTAAATTTAAATTTAGC
1 T-TAAATTTAAATTT-GC
37405629 TTAAAT
1 TTAAAT
37405635 ATGAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAAATTTAAATTTGC
Found at i:37406448 original size:20 final size:20
Alignment explanation
Indices: 37406397--37406450 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
37406387 GGAAATAACA
*
37406397 ATAATAGTAATAAATATTTTT
1 ATAATAGTAA-ATATATTTTT
* *
37406418 ATAATAATAAATATTTTTTT
1 ATAATAGTAAATATATTTTT
*
37406438 GTAATAGTAAATA
1 ATAATAGTAAATA
37406451 ATAATAATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
ATAATAGTAAATATATTTTT
Found at i:37406464 original size:16 final size:16
Alignment explanation
Indices: 37406439--37406473 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
37406429 TATTTTTTTG
*
37406439 TAATAGTAAATAATAA
1 TAATACTAAATAATAA
37406455 TAATACTAAATAATAA
1 TAATACTAAATAATAA
37406471 TAA
1 TAA
37406474 AAGAAATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATACTAAATAATAA
Found at i:37412958 original size:21 final size:20
Alignment explanation
Indices: 37412933--37412977 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
37412923 ACTTCATAAT
37412933 AAATAACATAT-ATATTAATTG
1 AAATAACATATCATA--AATTG
*
37412954 AAATACCATATCATAAATTG
1 AAATAACATATCATAAATTG
37412974 AAAT
1 AAAT
37412978 CTTAAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATAACATATCATAAATTG
Found at i:37413370 original size:48 final size:47
Alignment explanation
Indices: 37413269--37413373 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 47
37413259 AGAAAAAACA
* * * * *
37413269 AGTTGTTCCTTCGCTACATCTTAAATAAGAATTGGACAAGGAGCAAC
1 AGTTGTTCCTGCCCAACATATTAAATAAGAATTGGACAAGAAGCAAC
37413316 TAGTTGTTCCTGCCCAACATATTAAATAAGAATTGGACAACGAAG-AAC
1 -AGTTGTTCCTGCCCAACATATTAAATAAGAATTGGACAA-GAAGCAAC
37413364 AGGTTGTTCC
1 A-GTTGTTCC
37413374 ACAATAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
47 1 0.02
48 46 0.92
49 3 0.06
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (47 bp):
AGTTGTTCCTGCCCAACATATTAAATAAGAATTGGACAAGAAGCAAC
Found at i:37423739 original size:57 final size:58
Alignment explanation
Indices: 37423645--37423766 Score: 142
Period size: 57 Copynumber: 2.1 Consensus size: 58
37423635 ACTAACATGG
* * * *
37423645 ATAAAAAAAGTTGAAGTCTCAATGTGAAAATATTTGTCAAAGTCA-AAGCGTGACTTGA
1 ATAAAAAAAGTTCAAGTCTCAATGTAAAAATAATTGTCAAAGTCAGAA-CGTAACTTGA
* * *
37423703 ATAAAAAAA-TTCAAG-CTTCAATTTAAAAATAATTGTCAAATTCAGAACTTAACTTGA
1 ATAAAAAAAGTTCAAGTC-TCAATGTAAAAATAATTGTCAAAGTCAGAACGTAACTTGA
37423760 ATAAAAA
1 ATAAAAA
37423767 TAAAAATTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
56 1 0.02
57 43 0.78
58 11 0.20
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (58 bp):
ATAAAAAAAGTTCAAGTCTCAATGTAAAAATAATTGTCAAAGTCAGAACGTAACTTGA
Found at i:37423831 original size:26 final size:26
Alignment explanation
Indices: 37423802--37423853 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
37423792 AAGTCCCAAA
37423802 ATATTATTTAACCCTAATAAAAATGC
1 ATATTATTTAACCCTAATAAAAATGC
37423828 ATATTATTTAACCCTAATAAAAATGC
1 ATATTATTTAACCCTAATAAAAATGC
37423854 CTTCTTTTAC
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:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATTATTTAACCCTAATAAAAATGC
Found at i:37424758 original size:28 final size:27
Alignment explanation
Indices: 37424701--37424777 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
37424691 TACAATATTT
*
37424701 TTTTCCTACATTTAATGTCTTAATGGC
1 TTTTCCTACATTTAATGTCTTAATAGC
* * *
37424728 TTTTCCATGCATTTGATGTCTTAATATC
1 TTTTCC-TACATTTAATGTCTTAATAGC
* *
37424756 TTTTTCTTACATTTAATATCTT
1 -TTTTCCTACATTTAATGTCTT
37424778 TTTTCTTGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 6 0.15
28 29 0.73
29 5 0.12
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (27 bp):
TTTTCCTACATTTAATGTCTTAATAGC
Found at i:37424773 original size:20 final size:21
Alignment explanation
Indices: 37424748--37424793 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
37424738 ATTTGATGTC
37424748 TTAATATC-TTTTTCTTACAT
1 TTAATATCTTTTTTCTTACAT
*
37424768 TTAATATCTTTTTTCTTGCAT
1 TTAATATCTTTTTTCTTACAT
37424789 TTAAT
1 TTAAT
37424794 CCTTAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.61
Consensus pattern (21 bp):
TTAATATCTTTTTTCTTACAT
Found at i:37425409 original size:13 final size:13
Alignment explanation
Indices: 37425391--37425415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37425381 TTAATCTTAA
37425391 CTTTTTCTAAAGC
1 CTTTTTCTAAAGC
37425404 CTTTTTCTAAAG
1 CTTTTTCTAAAG
37425416 TCCACTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (13 bp):
CTTTTTCTAAAGC
Found at i:37425801 original size:16 final size:18
Alignment explanation
Indices: 37425762--37425795 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37425752 TAAGTTTATA
37425762 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
37425779 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
37425796 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:37426718 original size:126 final size:126
Alignment explanation
Indices: 37426489--37426733 Score: 427
Period size: 126 Copynumber: 1.9 Consensus size: 126
37426479 GAGAGTCTTG
* * *
37426489 GGTTGATTATACAATTGTTGATTCTTACAACCCGGATTTATGTGGTAGGATGTCAAAAGTGGAAC
1 GGTTGATTACACAATTGTTGATTCTTACAACCCGAATTTATGTGGTAGGATGTCAAAAGTGCAAC
*
37426554 CGCGAACAATGTCAATCTAAATTTACGCAAAGAGTTATATGTCAATCACAATATCAAATTA
66 CGCGAACAATGTCAATCTAAATTTACGCAAAGAATTATATGTCAATCACAATATCAAATTA
* *
37426615 GGTTGATTACACAATTGTTGGTTCTTACAACCTGAATTTATGTGGTAGGATGTCAAAAGTGCAAC
1 GGTTGATTACACAATTGTTGATTCTTACAACCCGAATTTATGTGGTAGGATGTCAAAAGTGCAAC
*
37426680 CGCGAACTATGTCAATCTAAATTTACGCAAAGAATTATATGTCAATCACAATAT
66 CGCGAACAATGTCAATCTAAATTTACGCAAAGAATTATATGTCAATCACAATAT
37426734 TAATCCAAAT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (126 bp):
GGTTGATTACACAATTGTTGATTCTTACAACCCGAATTTATGTGGTAGGATGTCAAAAGTGCAAC
CGCGAACAATGTCAATCTAAATTTACGCAAAGAATTATATGTCAATCACAATATCAAATTA
Found at i:37432746 original size:58 final size:59
Alignment explanation
Indices: 37432639--37432749 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 59
37432629 AAAAAAAAAA
* * **
37432639 AAAAAGAAAGTGCTACAGTTATGTTGCACATTCTAGGAGTCTATTTAAGTTCTCAAGGG
1 AAAAAGAAAGTGCTACAGTTATGTTGCACAGTCTAGGAATCTACCTAAGTTCTCAAGGG
* * ** *
37432698 AAAAA-AAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTGCCTAAGTTCT
1 AAAAAGAAAGTGCTACAGTTATGTTGCACAGTCTAGGAATCTACCTAAGTTCT
37432750 TGAAGAAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
58 38 0.88
59 5 0.12
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (59 bp):
AAAAAGAAAGTGCTACAGTTATGTTGCACAGTCTAGGAATCTACCTAAGTTCTCAAGGG
Found at i:37435795 original size:2 final size:2
Alignment explanation
Indices: 37435790--37435817 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37435780 TTACACACAC
37435790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37435818 TAAACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37443524 original size:20 final size:21
Alignment explanation
Indices: 37443499--37443538 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37443489 TATAAAAGGT
37443499 TAAAAATA-ATTTTTTTAATA
1 TAAAAATATATTTTTTTAATA
37443519 TAAAAATATATTTTTTTAAT
1 TAAAAATATATTTTTTTAAT
37443539 TTTTAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAAATATATTTTTTTAATA
Found at i:37443561 original size:20 final size:23
Alignment explanation
Indices: 37443536--37443583 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
37443526 ATATTTTTTT
37443536 AATTTT-TAAA-GTT-AGGACTA
1 AATTTTATAAATGTTGAGGACTA
*
37443556 AATTTTATAAATTTTGAGGACTA
1 AATTTTATAAATGTTGAGGACTA
37443579 AATTT
1 AATTT
37443584 ATCAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 4 0.17
22 2 0.08
23 12 0.50
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (23 bp):
AATTTTATAAATGTTGAGGACTA
Found at i:37443593 original size:23 final size:23
Alignment explanation
Indices: 37443549--37443592 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
37443539 TTTTAAAGTT
37443549 AGGACTAAATTTTATAAATTTTG
1 AGGACTAAATTTTATAAATTTTG
*
37443572 AGGACTAAA-TTTATCAATTTT
1 AGGACTAAATTTTATAAATTTT
37443593 TTAGAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (23 bp):
AGGACTAAATTTTATAAATTTTG
Found at i:37444255 original size:20 final size:20
Alignment explanation
Indices: 37444218--37444255 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37444208 TTAATTAATT
*
37444218 AAATAATGTTTTGTTATTGA
1 AAATAATGTTTTGATATTGA
37444238 AAATAAT-TTATTGATATT
1 AAATAATGTT-TTGATATT
37444256 TATTCTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
AAATAATGTTTTGATATTGA
Found at i:37444689 original size:19 final size:18
Alignment explanation
Indices: 37444660--37444728 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 18
37444650 TGTAATTTTG
*
37444660 TAATAAATTTTAGATATTTT
1 TAAT-AATTTTA-ATACTTT
*
37444680 TACTAATTTTTAATACTTT
1 TAATAA-TTTTAATACTTT
* *
37444699 TAATAATTTCTTATAACTAT
1 TAATAATTT-TAAT-ACTTT
37444719 TAATAATTTT
1 TAATAATTTT
37444729 GCATACTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 17 0.41
20 21 0.51
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (18 bp):
TAATAATTTTAATACTTT
Found at i:37449723 original size:6 final size:6
Alignment explanation
Indices: 37449709--37449752 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
37449699 AGTTCCTCGA
* * * *
37449709 CTGCAG CTGCGG CTGCAG CTGCGG CTGCAA CTGCAG CAGCAG CT
1 CTGCAG CTGCAG CTGCAG CTGCAG CTGCAG CTGCAG CTGCAG CT
37449753 TCACTGCTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (6 bp):
CTGCAG
Found at i:37449726 original size:12 final size:12
Alignment explanation
Indices: 37449709--37449752 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
37449699 AGTTCCTCGA
37449709 CTGCAGCTGCGG
1 CTGCAGCTGCGG
37449721 CTGCAGCTGCGG
1 CTGCAGCTGCGG
* *
37449733 CTGCAACTGCAG
1 CTGCAGCTGCGG
*
37449745 CAGCAGCT
1 CTGCAGCT
37449753 TCACTGCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (12 bp):
CTGCAGCTGCGG
Found at i:37449988 original size:33 final size:30
Alignment explanation
Indices: 37449919--37450033 Score: 78
Period size: 33 Copynumber: 3.7 Consensus size: 30
37449909 TTATCCTTCT
*
37449919 TCTTCTTT-TTCTTTTTCTCTTTTGTCTCG
1 TCTTCTTTCTTCTTTTTCTCTTTTGTCTCA
*
37449948 TCATCTTTCTTCTCTTCCTTCTCTTTGTGT-TCA
1 TCTTCTTTCTTCT-TT--TTCTCTTT-TGTCTCA
* * *
37449981 TCTTCTTTCGACTCTTTATTGTCTTCT-TCTTC-
1 TCTTCTTTC--TTCTTT-TTCTCTTTTGTC-TCA
37450013 TCTTC-TTCTTCTTTTTCTCTT
1 TCTTCTTTCTTCTTTTTCTCTT
37450034 CTCTTCTCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
28 6 0.09
29 12 0.18
30 4 0.06
31 6 0.09
32 6 0.09
33 26 0.38
34 5 0.07
35 3 0.04
ACGTcount: A:0.03, C:0.28, G:0.05, T:0.63
Consensus pattern (30 bp):
TCTTCTTTCTTCTTTTTCTCTTTTGTCTCA
Found at i:37450018 original size:11 final size:11
Alignment explanation
Indices: 37450002--37450040 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
37449992 CTCTTTATTG
37450002 TCTTCTTCTTC
1 TCTTCTTCTTC
37450013 TCTTCTTCTTC
1 TCTTCTTCTTC
*
37450024 T-TTTTCTCTTC
1 TCTTCT-TCTTC
37450035 TCTTCT
1 TCTTCT
37450041 CTTTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:37450024 original size:17 final size:16
Alignment explanation
Indices: 37450002--37450040 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
37449992 CTCTTTATTG
37450002 TCTTCTTCTTCTCTTC
1 TCTTCTTCTTCTCTTC
*
37450018 TTCTTCTTTTTCTCTTC
1 -TCTTCTTCTTCTCTTC
37450035 TCTTCT
1 TCTTCT
37450041 CTTTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TCTTCTTCTTCTCTTC
Found at i:37450036 original size:22 final size:22
Alignment explanation
Indices: 37449906--37450050 Score: 70
Period size: 22 Copynumber: 6.3 Consensus size: 22
37449896 TTCTTCGTGA
* *
37449906 TCTTTATC-CTTCTTCTTCTTTT
1 TCTTTTTCTCTTC-TCTTCTCTT
*
37449928 TCTTTTTCTCTT-T-TGTCTCGTCA
1 TCTTTTTCTCTTCTCT-TCTC-T-T
37449951 TCTTTCTTCTCTTC-CTTCTCTT
1 TCTTT-TTCTCTTCTCTTCTCTT
* *
37449973 T-GTGTTCATCTTCT-TTCGACTCTT
1 TCTTTTTC-TCTTCTCTT---CTCTT
*
37449997 TATTGTCTTCTTCTTCTCTTCT-TCT
1 TCTT-T-TTC-TCTTCTCTTCTCT-T
37450022 TCTTTTTCTCTTCTCTTCTCTT
1 TCTTTTTCTCTTCTCTTCTCTT
37450044 TCTTTTT
1 TCTTTTT
37450051 TTATCTGAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 36
0.67 0.07 0.26
Matches are distributed among these distances:
20 4 0.04
21 12 0.13
22 28 0.29
23 13 0.14
24 19 0.20
25 8 0.08
27 9 0.09
28 2 0.02
ACGTcount: A:0.03, C:0.28, G:0.04, T:0.64
Consensus pattern (22 bp):
TCTTTTTCTCTTCTCTTCTCTT
Found at i:37450113 original size:27 final size:29
Alignment explanation
Indices: 37450078--37450142 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
37450068 AGAAGACGAC
* *
37450078 GAAGAAGATGA-A-AATGATGATGAGGAA
1 GAAGAAGATGACATAACGACGATGAGGAA
*
37450105 GAAGAAGATGACGATGACGACGATGAGGAA
1 GAAGAAGATGAC-ATAACGACGATGAGGAA
37450135 GAAGAAGA
1 GAAGAAGA
37450143 ATCTTTATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 11 0.34
29 1 0.03
30 20 0.62
ACGTcount: A:0.49, C:0.05, G:0.35, T:0.11
Consensus pattern (29 bp):
GAAGAAGATGACATAACGACGATGAGGAA
Found at i:37450115 original size:21 final size:21
Alignment explanation
Indices: 37450072--37450121 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
37450062 CGAATCAGAA
* * *
37450072 GACGACGAAGAAGATGAAAAT
1 GACGATGAGGAAGAAGAAAAT
* *
37450093 GATGATGAGGAAGAAGAAGAT
1 GACGATGAGGAAGAAGAAAAT
37450114 GACGATGA
1 GACGATGA
37450122 CGACGATGAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.06, G:0.34, T:0.12
Consensus pattern (21 bp):
GACGATGAGGAAGAAGAAAAT
Found at i:37450251 original size:6 final size:6
Alignment explanation
Indices: 37450240--37450328 Score: 56
Period size: 6 Copynumber: 15.0 Consensus size: 6
37450230 ATCCTTTTTC
* * * * ** *
37450240 TTCTTT TTCTTT TTCTCT TTCTCT TTCTCT TTCTCT TTC-CC ATCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
* * * *
37450287 GTCTTT CTTCTTC TTCTTT TTC-TT TTCTTT CTCTTT CTCTTT
1 TTCTTT -TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
37450329 GTCTCCCTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
5 8 0.11
6 58 0.83
7 4 0.06
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (6 bp):
TTCTTT
Found at i:37450360 original size:57 final size:59
Alignment explanation
Indices: 37450225--37450360 Score: 138
Period size: 57 Copynumber: 2.3 Consensus size: 59
37450215 TTCTTCTAAC
* * *
37450225 TCTTTATCCTTTTTCTTCTTTTTCTTTTTCTCTTTCTCTTTCTCTTTCTCTTTCCCATCT
1 TCTTTATCCTTATTCTTCTTTTTC-TTTTCTCTTTCTCTTTCTCTTTCTCTTCCCCAACT
* * *
37450285 T-TGTCT-TTCTTCTTCTTCTTTTTC-TTT-TCTTTCTCTTTCTCTTTGTC-TCCCTCAACT
1 TCT-T-TATCCTTATTCTTCTTTTTCTTTTCTCTTTCTCTTTCTCTTTCTCTTCCC-CAACT
*
37450342 TCTTTATCCTTATCCTTCT
1 TCTTTATCCTTATTCTTCT
37450361 CCTTTTCCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
56 4 0.06
57 35 0.56
58 4 0.06
59 1 0.02
60 18 0.29
61 1 0.02
ACGTcount: A:0.04, C:0.30, G:0.01, T:0.64
Consensus pattern (59 bp):
TCTTTATCCTTATTCTTCTTTTTCTTTTCTCTTTCTCTTTCTCTTTCTCTTCCCCAACT
Found at i:37450386 original size:48 final size:49
Alignment explanation
Indices: 37450334--37450442 Score: 152
Period size: 48 Copynumber: 2.3 Consensus size: 49
37450324 TCTTTGTCTC
** *
37450334 CCTCAA-CTTCTTTATCCTT-ATCCTTCTCCTTTTCCTTCTCTTCTTTTT
1 CCTCAACCTTCTTTATCCTTCA-CCACCTCCTTCTCCTTCTCTTCTTTTT
*
37450382 CCTCAACCTT-TTTATCCTTCACCACCTGCTTCTCCTTCTCTTCTTTTT
1 CCTCAACCTTCTTTATCCTTCACCACCTCCTTCTCCTTCTCTTCTTTTT
37450430 CCTCAACCTTCTT
1 CCTCAACCTTCTT
37450443 CTCTTCTGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
48 48 0.89
49 6 0.11
ACGTcount: A:0.10, C:0.39, G:0.01, T:0.50
Consensus pattern (49 bp):
CCTCAACCTTCTTTATCCTTCACCACCTCCTTCTCCTTCTCTTCTTTTT
Found at i:37464776 original size:19 final size:18
Alignment explanation
Indices: 37464752--37464809 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
37464742 TTTACTATCG
37464752 TAAAAAAATCTTCAATTTT
1 TAAAAAAAT-TTCAATTTT
*
37464771 TAAAAAAATTAATTAAATTTT
1 TAAAAAAA-T--TTCAATTTT
37464792 TAAAAAGAATTTCAATTT
1 TAAAAA-AATTTCAATTT
37464810 ATTGAGCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 15 0.45
20 1 0.03
21 15 0.45
22 2 0.06
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAAAAAATTTCAATTTT
Found at i:37465023 original size:10 final size:11
Alignment explanation
Indices: 37465005--37465064 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
37464995 AAATGTAAAC
37465005 TTATAAAAAAA
1 TTATAAAAAAA
37465016 TT-TAAAAAAA
1 TTATAAAAAAA
* *
37465026 -TGT--AAAAG
1 TTATAAAAAAA
37465034 TTATAAAAAAA
1 TTATAAAAAAA
37465045 TATATAAAAAAA
1 T-TATAAAAAAA
*
37465057 TTAGAAAA
1 TTATAAAA
37465065 TGTAAAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
10 9 0.22
11 13 0.32
12 11 0.28
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (11 bp):
TTATAAAAAAA
Found at i:37465053 original size:29 final size:28
Alignment explanation
Indices: 37464995--37465055 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
37464985 TTAATTAGAT
*
37464995 AAATGTAAACTTATAAAAAAATTTAAAA
1 AAATGTAAACTTATAAAAAAATATAAAA
*
37465023 AAATGTAAAAGTTATAAAAAAATATATAAA
1 AAATGT-AAACTTATAAAAAAATATA-AAA
37465053 AAA
1 AAA
37465056 ATTAGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.21
29 17 0.59
30 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (28 bp):
AAATGTAAACTTATAAAAAAATATAAAA
Found at i:37471923 original size:8 final size:8
Alignment explanation
Indices: 37471903--37471941 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
37471893 TGTTACCCAT
37471903 TCTCT-CC
1 TCTCTCCC
37471910 TCCTCTCCC
1 T-CTCTCCC
37471919 TCTCTCCC
1 TCTCTCCC
37471927 TCTCTCCC
1 TCTCTCCC
37471935 TCTCTCC
1 TCTCTCC
37471942 ACTCCTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 1 0.03
8 26 0.87
9 3 0.10
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (8 bp):
TCTCTCCC
Found at i:37483804 original size:26 final size:26
Alignment explanation
Indices: 37483786--37483853 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
37483776 AAATTTAATG
* *
37483786 TAAATCTATAAAAAAAAAAGTCATCA
1 TAAATCTACAAAAAAAAAAGTAATCA
* *
37483812 TAAATCTACAAAAAAAAAAACTTTATCA
1 TAAATCTAC-AAAAAAAAAA-GTAATCA
*
37483840 CAAATCTACAAAAA
1 TAAATCTACAAAAA
37483854 TTAAAATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 8 0.22
27 15 0.42
28 13 0.36
ACGTcount: A:0.62, C:0.15, G:0.01, T:0.22
Consensus pattern (26 bp):
TAAATCTACAAAAAAAAAAGTAATCA
Found at i:37483839 original size:28 final size:27
Alignment explanation
Indices: 37483786--37483853 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
37483776 AAATTTAATG
*
37483786 TAAATCTA-TAAAAAAAAAAGTCATCA
1 TAAATCTACAAAAAAAAAAAGTCATCA
* *
37483812 TAAATCTACAAAAAAAAAAACTTTATCA
1 TAAATCTACAAAAAAAAAAA-GTCATCA
*
37483840 CAAATCTACAAAAA
1 TAAATCTACAAAAA
37483854 TTAAAATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 8 0.22
27 10 0.28
28 18 0.50
ACGTcount: A:0.62, C:0.15, G:0.01, T:0.22
Consensus pattern (27 bp):
TAAATCTACAAAAAAAAAAAGTCATCA
Found at i:37492677 original size:22 final size:22
Alignment explanation
Indices: 37492633--37492675 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37492623 ATAAAATTAT
37492633 TAAATATTAAAATAAAATAAAA
1 TAAATATTAAAATAAAATAAAA
* *
37492655 TAAATATTTAAA-AAATTAAAA
1 TAAATATTAAAATAAAATAAAA
37492676 ATTAATATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATATTAAAATAAAATAAAA
Found at i:37496037 original size:20 final size:20
Alignment explanation
Indices: 37495974--37496037 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
37495964 GAGAGTTCCT
*
37495974 AATTTGGAAGAAAGTGAAGA
1 AATTTGGAAGAAAGTGAAGG
*** * *
37495994 AGATTCACAGGAAAATGAAAGG
1 A-ATTTGGAAGAAAGTG-AAGG
37496016 AATTTGGAAGAAAGTGAAGG
1 AATTTGGAAGAAAGTGAAGG
37496036 AA
1 AA
37496038 AAAACAAGGA
Statistics
Matches: 31, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
20 7 0.23
21 20 0.65
22 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.30, T:0.17
Consensus pattern (20 bp):
AATTTGGAAGAAAGTGAAGG
Found at i:37497907 original size:22 final size:23
Alignment explanation
Indices: 37497869--37497911 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
37497859 ATTAGACTTA
*
37497869 ATTAATTGTTATTATTGTATAAT
1 ATTAATTGTTATAATTGTATAAT
37497892 ATTAATT-TTATAATTGTATA
1 ATTAATTGTTATAATTGTATA
37497912 TTTTGTGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (23 bp):
ATTAATTGTTATAATTGTATAAT
Found at i:37504821 original size:17 final size:18
Alignment explanation
Indices: 37504773--37504822 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
37504763 GTAATATATA
*
37504773 AAATATATAAATATAATTT
1 AAATAAATAAATA-AATTT
*
37504792 AAATTTAAT-AATAAATTT
1 AAA-TAAATAAATAAATTT
37504810 AAA-AAATAAATAA
1 AAATAAATAAATAA
37504823 CAAGTATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 3 0.12
17 5 0.19
18 8 0.31
19 7 0.27
20 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAAATAAATAAATTT
Found at i:37505149 original size:21 final size:21
Alignment explanation
Indices: 37505125--37505179 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
37505115 GAAATTTAAA
37505125 ACAAACATAATGAAGAGAGTT
1 ACAAACATAATGAAGAGAGTT
* *
37505146 ACAAAACATTATGAGGAGAGTT
1 AC-AAACATAATGAAGAGAGTT
*
37505168 ACAAATATAATG
1 ACAAACATAATG
37505180 TTTTGTAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (21 bp):
ACAAACATAATGAAGAGAGTT
Found at i:37513399 original size:17 final size:17
Alignment explanation
Indices: 37513373--37513411 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
37513363 TGATGAAAAT
37513373 AATT-TTAAAA-AATATA
1 AATTATTAAAATAATA-A
37513389 AATTATTAAAATAATAA
1 AATTATTAAAATAATAA
37513406 AATTAT
1 AATTAT
37513412 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 13 0.62
18 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTATTAAAATAATAA
Found at i:37519088 original size:5 final size:5
Alignment explanation
Indices: 37519078--37519102 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37519068 TAAGCTTTCG
37519078 CTCTT CTCTT CTCTT CTCTT CTCTT
1 CTCTT CTCTT CTCTT CTCTT CTCTT
37519103 TCTCATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTCTT
Found at i:37528045 original size:26 final size:26
Alignment explanation
Indices: 37527990--37528040 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
37527980 TAAAAGGTTA
* *
37527990 AATTAAAATTTTATTATTTTTTATAG
1 AATTAAAATATAATTATTTTTTATAG
*
37528016 AATTAAAATATAATTTTATTTTTAT
1 AATTAAAATATAATTAT-TTTTTAT
37528041 TAATTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
AATTAAAATATAATTATTTTTTATAG
Found at i:37532301 original size:24 final size:24
Alignment explanation
Indices: 37532272--37532322 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
37532262 AGAAATAATC
37532272 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
37532296 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
37532320 TTT
1 TTT
37532323 AAGTCAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:37532331 original size:24 final size:24
Alignment explanation
Indices: 37532272--37532334 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
37532262 AGAAATAATC
*
37532272 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATCAAACTCTGTTTATTTG
*
37532296 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATCAAACTCTGTTTATTTG
37532320 TTT-AAGTCAAACTCT
1 TTTCAA-TCAAACTCT
37532335 TATTACTCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
23 2 0.05
24 35 0.95
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTCAATCAAACTCTGTTTATTTG
Found at i:37532357 original size:18 final size:18
Alignment explanation
Indices: 37532334--37532393 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
37532324 AGTCAAACTC
37532334 TTATTACTCTAGATTATT
1 TTATTACTCTAGATTATT
*
37532352 TTATTA-T-TA-TTTAACCTT
1 TTATTACTCTAGATT-A--TT
37532370 TTATTACTCTAGATTATT
1 TTATTACTCTAGATTATT
37532388 TTATTA
1 TTATTA
37532394 TTATTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 1 0.03
18 22 0.65
19 1 0.03
20 3 0.09
21 2 0.06
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTACTCTAGATTATT
Found at i:37533053 original size:29 final size:28
Alignment explanation
Indices: 37532999--37533112 Score: 88
Period size: 29 Copynumber: 3.9 Consensus size: 28
37532989 TATTGCTTGT
* *
37532999 AAATATTCATAAATATTATAAGAAAATTA
1 AAATATTAATAAATATAATAA-AAAATTA
*
37533028 AAATATTAATTAATATAATGAAAAAA-TA
1 AAATATTAATAAATATAAT-AAAAAATTA
* * * *
37533056 GAAGACAATAAAAAATA-AATATATAAATTA
1 -AA-ATATTAATAAATATAATA-AAAAATTA
*
37533086 AAATATTAATTAATATAATGAAAAAAT
1 AAATATTAATAAATATAAT-AAAAAAT
37533113 AGAAGCAATA
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
28 12 0.18
29 39 0.60
30 14 0.22
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (28 bp):
AAATATTAATAAATATAATAAAAAATTA
Found at i:37533137 original size:57 final size:58
Alignment explanation
Indices: 37533022--37533137 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
37533012 TATTATAAGA
37533022 AAATTAAAATATTAATTAATATAATGAAAAAATAGAAGACAATAAAAAATAAATATAT
1 AAATTAAAATATTAATTAATATAATGAAAAAATAGAAGACAATAAAAAATAAATATAT
37533080 AAATTAAAATATTAATTAATATAATGAAAAAATAGAAG-CAATAAAAAATAAATATAT
1 AAATTAAAATATTAATTAATATAATGAAAAAATAGAAGACAATAAAAAATAAATATAT
37533137 A
1 A
37533138 TTTAAATTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 20 0.34
58 38 0.66
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (58 bp):
AAATTAAAATATTAATTAATATAATGAAAAAATAGAAGACAATAAAAAATAAATATAT
Found at i:37533526 original size:13 final size:12
Alignment explanation
Indices: 37533498--37533537 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
37533488 AGTTTAGTAT
*
37533498 TGCTTTTAAAAC
1 TGCTTTTAAAAG
37533510 TGCTTTTAAAAAG
1 TGCTTTT-AAAAG
37533523 TGCTTTTGAAAAG
1 TGCTTTT-AAAAG
37533536 TG
1 TG
37533538 TGGTGCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (12 bp):
TGCTTTTAAAAG
Found at i:37535942 original size:72 final size:72
Alignment explanation
Indices: 37535590--37535925 Score: 496
Period size: 72 Copynumber: 4.7 Consensus size: 72
37535580 GAACAAATTT
* * * *
37535590 ATATCC-AAAATCAAATATAAACAACTATTGATAAAACTAAAATACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
37535654 AAATTCA
66 AAATTCA
* * * * *
37535661 ATATTCAAAAACCAAACATAAATAACTATTGATAAAATTAGATTGCACATAAATAAGTAGAATAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
37535726 AAATTCA
66 AAATTCA
** * * *
37535733 ATATTTAAGAACCAAACATAAACAACTATTAATAAAATTAGATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
37535798 AAATTCA
66 AAATTCA
* *
37535805 ATATCCAAGAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
37535870 AAATTCA
66 AAATTCA
* *
37535877 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGTTTA-ACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACAT
37535926 TGTTGCTTAG
Statistics
Matches: 240, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
71 9 0.04
72 231 0.96
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.25
Consensus pattern (72 bp):
ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
AAATTCA
Found at i:37536377 original size:18 final size:18
Alignment explanation
Indices: 37536348--37536396 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
37536338 CGTTTCCATC
*
37536348 AATGTTAACATCATTTGA
1 AATGTTAACATCATTTAA
37536366 AAT-TTGAACATCATTTAA
1 AATGTT-AACATCATTTAA
37536384 AATGTTAACATCA
1 AATGTTAACATCA
37536397 CTTCCTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (18 bp):
AATGTTAACATCATTTAA
Done.