Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011337.1 Kokia drynarioides strain JFW-HI SEQ_126317, whole genome shotgun sequence
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: 80561
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 106 characters in sequence are not A, C, G, or T
Found at i:1131 original size:22 final size:23
Alignment explanation
Indices: 1074--1133 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
1064 AGGATCGAAG
*
1074 TTAAATTATAATTTTTACGATAA
1 TTAAATTATAATTTTTACAATAA
* * *
1097 TAAAAGTATAATTTTTA-AATGA
1 TTAAATTATAATTTTTACAATAA
*
1119 TTAAATTAAAATTTT
1 TTAAATTATAATTTT
1134 ATCATTTTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
TTAAATTATAATTTTTACAATAA
Found at i:2012 original size:17 final size:17
Alignment explanation
Indices: 1989--2050 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
1979 GCCCAATAAG
1989 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
* * *
2006 GTTTAAATTTACTTAAA
1 ATTTAAATTTATTTTAA
*
2023 ATTTAAATTTATTATAA
1 ATTTAAATTTATTTTAA
*
2040 ATTTAAGTTTA
1 ATTTAAATTTA
2051 AATCTATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:2826 original size:21 final size:21
Alignment explanation
Indices: 2779--2830 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
2769 AAATGGTAAT
* * *
2779 AATAATAATATTACTAATATC
1 AATAATAATATTAATAACAAC
* *
2800 ATTAATAATATTAATGACAAC
1 AATAATAATATTAATAACAAC
2821 AATAATAATA
1 AATAATAATA
2831 ATAAACATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (21 bp):
AATAATAATATTAATAACAAC
Found at i:2842 original size:16 final size:17
Alignment explanation
Indices: 2803--2850 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
2793 TAATATCATT
2803 AATAAT-ATTAATGACAAC
1 AATAATAATTAAT-A-AAC
2821 AATAATAA-TAATAAAC
1 AATAATAATTAATAAAC
*
2837 ATTAATAATTAATA
1 AATAATAATTAATA
2851 TTTTTCGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 10 0.37
17 6 0.22
18 10 0.37
19 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (17 bp):
AATAATAATTAATAAAC
Found at i:3844 original size:28 final size:28
Alignment explanation
Indices: 3803--3942 Score: 163
Period size: 28 Copynumber: 4.9 Consensus size: 28
3793 CTAAACTGTT
* * *
3803 CAAAAATTACATTTTTACCTCAAATTTC
1 CAAAAATTCCATTTTTACCCCAAACTTC
*
3831 CAAAAATTCTATTTTTGACCCCAAAACTTC
1 CAAAAATTCCATTTTT-ACCCC-AAACTTC
*
3861 CAAAAATTCCATTTTTTACCCCCGAACTTC
1 CAAAAATTCCA-TTTTTA-CCCCAAACTTC
* *
3891 CAAAAATTCCATTTTTACACTAAACTTC
1 CAAAAATTCCATTTTTACCCCAAACTTC
* *
3919 CAAAATTTCCATTTTTAACCCAAA
1 CAAAAATTCCATTTTTACCCCAAA
3943 AAATTACTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 42 0.44
29 10 0.11
30 34 0.36
31 9 0.09
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.35
Consensus pattern (28 bp):
CAAAAATTCCATTTTTACCCCAAACTTC
Found at i:3916 original size:58 final size:60
Alignment explanation
Indices: 3793--3939 Score: 167
Period size: 58 Copynumber: 2.5 Consensus size: 60
3783 CTGGAGGTCC
* * * * * *
3793 CTAAACTGTTCAAAAATTACA-TTTTTA-CCTCAAATTTCCAAAAATTCTATTTTTGACCC
1 CTAAACT-TCCAAAAATTCCATTTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCA
* *
3852 CAAAACTTCCAAAAATTCCATTTTTTACCCCCGAACTTCCAAAAATTCCATTTTT-A-CA
1 CTAAACTTCCAAAAATTCCATTTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCA
* *
3910 CTAAACTTCCAAAATTTCCATTTTTAACCC
1 CTAAACTTCCAAAAATTCCATTTTTTACCC
3940 AAAAAATTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
58 39 0.52
59 13 0.17
60 23 0.31
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (60 bp):
CTAAACTTCCAAAAATTCCATTTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCA
Found at i:4008 original size:59 final size:58
Alignment explanation
Indices: 3941--4101 Score: 173
Period size: 59 Copynumber: 2.7 Consensus size: 58
3931 TTTTAACCCA
** ** * *
3941 AAAAATTACTTTTTTACCCTCGAACCTCCAAAATTTCCATTTTTGACCTTGAAACTT-TC
1 AAAAATTACCATTTTACCC-CGAATGTCCAAAAATTCCATTTTTGACCTCGAAA-TTCTC
* * *
4000 AAAAATTACCATTTTGCCCCCGAATGTCCAAAAACTCCATTTTCGACCTCGAAATTCTC
1 AAAAATTACCATTTT-ACCCCGAATGTCCAAAAATTCCATTTTTGACCTCGAAATTCTC
* *
4059 -AAAATTACCCTTTTAGCCCCGAATGTCTAAAAATTCCATTTTT
1 AAAAATTACCATTTTA-CCCCGAATGTCCAAAAATTCCATTTTT
4102 AATCCTAAAC
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
58 39 0.46
59 43 0.51
60 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCGAATGTCCAAAAATTCCATTTTTGACCTCGAAATTCTC
Found at i:4102 original size:29 final size:30
Alignment explanation
Indices: 4000--4100 Score: 95
Period size: 29 Copynumber: 3.5 Consensus size: 30
3990 TGAAACTTTC
* *
4000 AAAAATTACCATTTT-GCCCCCGAATGTCC
1 AAAAATTACCATTTTAGACCCCGAATGTCT
* * *
4029 AAAAACT-CCATTTTCGACCTCGAAAT-TCT
1 AAAAATTACCATTTTAGACCCCG-AATGTCT
* *
4058 CAAAATTACCCTTTTAG-CCCCGAATGTCT
1 AAAAATTACCATTTTAGACCCCGAATGTCT
4087 AAAAATT-CCATTTT
1 AAAAATTACCATTTT
4101 TAATCCTAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
28 16 0.28
29 31 0.54
30 10 0.18
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAAATTACCATTTTAGACCCCGAATGTCT
Found at i:4150 original size:28 final size:28
Alignment explanation
Indices: 4116--4191 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
4106 CTAAACTTTC
*
4116 CCAAAATTACCATTTTGCCCCCGAGAAT
1 CCAAAATTACCATTTTGCCCCCAAGAAT
*
4144 CCAAAATTACCATTTTGCTCCCAAGAAT
1 CCAAAATTACCATTTTGCCCCCAAGAAT
4172 CCAAAATTACCATTTTGCCC
1 CCAAAATTACCATTTTGCCC
4192 TCGGGTATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.28
Consensus pattern (28 bp):
CCAAAATTACCATTTTGCCCCCAAGAAT
Found at i:4150 original size:58 final size:58
Alignment explanation
Indices: 3967--4159 Score: 191
Period size: 59 Copynumber: 3.3 Consensus size: 58
3957 CCCTCGAACC
*
3967 TCCAAAATTTCCATTTTTGACCTTGAAACTTT-CAAAAATTACCATTTTGCCCCCGAATG
1 TCCAAAA-TTCCATTTTTGACC-TGAAACTTTCCCAAAATTACCATTTTGCCCCCGAATG
* * * *
4026 TCCAAAAACTCCATTTTCGACCTCGAAA--TTCTCAAAATTACCCTTTTAG-CCCCGAATG
1 TCC-AAAATTCCATTTTTGACCT-GAAACTTTCCCAAAATTACCATTTT-GCCCCCGAATG
* * *
4084 TCTAAAAATTCCATTTTTAATCCT-AAACTTTCCCAAAATTACCATTTTGCCCCCGAGA-A
1 TC-CAAAATTCCATTTTTGA-CCTGAAACTTTCCCAAAATTACCATTTTGCCCCCGA-ATG
4143 TCCAAAATTACCATTTT
1 TCCAAAATT-CCATTTT
4160 GCTCCCAAGA
Statistics
Matches: 110, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
57 5 0.05
58 45 0.41
59 55 0.50
60 5 0.05
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (58 bp):
TCCAAAATTCCATTTTTGACCTGAAACTTTCCCAAAATTACCATTTTGCCCCCGAATG
Found at i:4530 original size:96 final size:95
Alignment explanation
Indices: 4421--4611 Score: 224
Period size: 95 Copynumber: 2.0 Consensus size: 95
4411 AAAACTTTAA
* * * * *
4421 AATCGAGGCAATA-TTCTTTTAT-TTCGAGCTTCAAAAATTTGTGCTTTAATTTACTATGTGCAA
1 AATCGAGGCAATATTTC-CTTATCTTCGA--TTCAAAAATTTGCGCCTTAACTTACTAGGTGCAA
**
4484 TTTTTCTTCAAATCGAAATAATCGAATACCCTT
63 CCTTTCTTCAAATCGAAATAATCGAATACCCTT
* **
4517 AATCGAGGTAATATTTCCTTATCTTCGATTCTGAAATTTGCGCCTTAACTTACTAGGTGCAACCT
1 AATCGAGGCAATATTTCCTTATCTTCGATTCAAAAATTTGCGCCTTAACTTACTAGGTGCAACCT
* * *
4582 TTCTTCAAATCGAGATAATTGAATATCCTT
66 TTCTTCAAATCGAAATAATCGAATACCCTT
4612 CTCCCAAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
95 56 0.70
96 16 0.20
97 8 0.10
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (95 bp):
AATCGAGGCAATATTTCCTTATCTTCGATTCAAAAATTTGCGCCTTAACTTACTAGGTGCAACCT
TTCTTCAAATCGAAATAATCGAATACCCTT
Found at i:8754 original size:29 final size:28
Alignment explanation
Indices: 8729--9015 Score: 226
Period size: 29 Copynumber: 9.8 Consensus size: 28
8719 TTCACCCTCG
*
8729 AACTTCCAAAAATCCATTTCTGACCCCAA
1 AACTTCCAAAAATCCATTT-TTACCCCAA
* *
8758 AACTTCTAAAAATTTCATTTTTACCCCTAA
1 AACTTCCAAAAA-TCCATTTTTACCCC-AA
8788 AA-TTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAAT-CCATTTTT-ACCCCAA
*
8817 AACTTCCAAAAATTTCC-TTTTTACCCTC-G
1 AACTTCCAAAAA--TCCATTTTTACCC-CAA
*
8846 AATTTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAAT-CCATTTTT-ACCCCAA
*
8876 AACTTCAAAAAATTCCATTTTTTACCCCTAA
1 AACTTCCAAAAA-TCCA-TTTTTACCCC-AA
* *
8907 AA-TTCTAAAAATCCCATTTTTAATCCCAA
1 AACTTCCAAAAAT-CCATTTTT-ACCCCAA
*
8936 AACTTCCAAAAATTC-TATTTTACCCCCCAA
1 AACTTCCAAAAATCCAT-TTTTA--CCCCAA
* * *
8966 AA-TTCCAAAAATCCCAATTTGACCCCGA
1 AACTTCCAAAAAT-CCATTTTTACCCCAA
* *
8994 AACTACCAAAAATTCCCTTTTT
1 AACTTCCAAAAA-TCCATTTTT
9016 TAACCTTAAT
Statistics
Matches: 210, Mismatches: 23, Indels: 50
0.74 0.08 0.18
Matches are distributed among these distances:
27 1 0.00
28 12 0.06
29 95 0.45
30 89 0.42
31 12 0.06
32 1 0.00
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.32
Consensus pattern (28 bp):
AACTTCCAAAAATCCATTTTTACCCCAA
Found at i:8824 original size:30 final size:30
Alignment explanation
Indices: 8729--9020 Score: 271
Period size: 30 Copynumber: 9.9 Consensus size: 30
8719 TTCACCCTCG
* *
8729 AACTTCCAAAAAT-CCATTTCTGACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* **
8758 AACTTCTAAAAATTTCATTTTT-ACCCCTAA
1 AACTTCCAAAAATCCCATTTTTAACCCC-AA
8788 AA-TTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* *
8817 AACTTCCAAAAATTTCC-TTTTT-ACCCTC-G
1 AACTTCCAAAAA-TCCCATTTTTAACCC-CAA
*
8846 AATTTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* * *
8876 AACTTCAAAAAATTCCATTTTTTACCCCTAA
1 AACTTCCAAAAATCCCATTTTTAACCCC-AA
* *
8907 AA-TTCTAAAAATCCCATTTTTAATCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* * *
8936 AACTTCCAAAAATTCTA-TTTTACCCCCCAA
1 AACTTCCAAAAATCCCATTTTTA-ACCCCAA
* * *
8966 AA-TTCCAAAAATCCCA-ATTTGACCCCGA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* *
8994 AACTACCAAAAATTCCCTTTTTTAACC
1 AACTTCCAAAAA-TCCCATTTTTAACC
9021 TTAATTTTCC
Statistics
Matches: 214, Mismatches: 34, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
28 10 0.05
29 90 0.42
30 101 0.47
31 13 0.06
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.32
Consensus pattern (30 bp):
AACTTCCAAAAATCCCATTTTTAACCCCAA
Found at i:8828 original size:59 final size:59
Alignment explanation
Indices: 8732--9007 Score: 346
Period size: 59 Copynumber: 4.7 Consensus size: 59
8722 ACCCTCGAAC
* * *
8732 TTCCAAAAAT-CCATTTCTGACCCCAAAACTTCTAAAAATTTCATTTTTACCCCTAAAA
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCTAAAA
* * *
8790 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCCTTTTTA-CCCTCGAAT
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCT-AAAA
* *
8849 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCAAAAAATTCCATTTTTTACCCCTAAAA
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCA-TTTTTACCCCTAAAA
* * *
8909 TTCTAAAAATCCCATTTTTAATCCCAAAACTTCCAAAAA-TTC-TATTTTACCCCCCAAAA
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCAT-TTTTA-CCCCTAAAA
* * * *
8968 TTCCAAAAATCCCA-ATTTGACCCCGAAACTACCAAAAATT
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATT
9008 CCCTTTTTTA
Statistics
Matches: 189, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 38 0.20
59 102 0.54
60 44 0.23
61 4 0.02
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.31
Consensus pattern (59 bp):
TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCTAAAA
Found at i:11948 original size:21 final size:21
Alignment explanation
Indices: 11901--11952 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
11891 AAATGGTAAT
* * *
11901 AATAATAATATTACTAATATC
1 AATAATAATATTAATAACAAC
* *
11922 ATTAATAATATTAATGACAAC
1 AATAATAATATTAATAACAAC
11943 AATAATAATA
1 AATAATAATA
11953 ATAAACATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (21 bp):
AATAATAATATTAATAACAAC
Found at i:11964 original size:16 final size:17
Alignment explanation
Indices: 11925--11972 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
11915 TAATATCATT
11925 AATAAT-ATTAATGACAAC
1 AATAATAATTAAT-A-AAC
11943 AATAATAA-TAATAAAC
1 AATAATAATTAATAAAC
*
11959 ATTAATAATTAATA
1 AATAATAATTAATA
11973 TTTTTCGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 10 0.37
17 6 0.22
18 10 0.37
19 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (17 bp):
AATAATAATTAATAAAC
Found at i:12966 original size:28 final size:28
Alignment explanation
Indices: 12925--13064 Score: 163
Period size: 28 Copynumber: 4.9 Consensus size: 28
12915 CTAAACTGTT
* * *
12925 CAAAAATTACATTTTTACCTCAAATTTC
1 CAAAAATTCCATTTTTACCCCAAACTTC
*
12953 CAAAAATTCTATTTTTGACCCCAAAACTTC
1 CAAAAATTCCATTTTT-ACCCC-AAACTTC
*
12983 CAAAAATTCCATTTTTTACCCCCGAACTTC
1 CAAAAATTCCA-TTTTTA-CCCCAAACTTC
* *
13013 CAAAAATTCCATTTTTACACTAAACTTC
1 CAAAAATTCCATTTTTACCCCAAACTTC
* *
13041 CAAAATTTCCATTTTTAACCCAAA
1 CAAAAATTCCATTTTTACCCCAAA
13065 AAATTACTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 42 0.44
29 10 0.11
30 34 0.36
31 9 0.09
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.35
Consensus pattern (28 bp):
CAAAAATTCCATTTTTACCCCAAACTTC
Found at i:13038 original size:58 final size:60
Alignment explanation
Indices: 12915--13061 Score: 167
Period size: 58 Copynumber: 2.5 Consensus size: 60
12905 CTGGAGGTCC
* * * * * *
12915 CTAAACTGTTCAAAAATTACA-TTTTTA-CCTCAAATTTCCAAAAATTCTATTTTTGACCC
1 CTAAACT-TCCAAAAATTCCATTTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCA
* *
12974 CAAAACTTCCAAAAATTCCATTTTTTACCCCCGAACTTCCAAAAATTCCATTTTT-A-CA
1 CTAAACTTCCAAAAATTCCATTTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCA
* *
13032 CTAAACTTCCAAAATTTCCATTTTTAACCC
1 CTAAACTTCCAAAAATTCCATTTTTTACCC
13062 AAAAAATTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
58 39 0.52
59 13 0.17
60 23 0.31
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (60 bp):
CTAAACTTCCAAAAATTCCATTTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCA
Found at i:13130 original size:59 final size:58
Alignment explanation
Indices: 13063--13223 Score: 173
Period size: 59 Copynumber: 2.7 Consensus size: 58
13053 TTTTAACCCA
** ** * *
13063 AAAAATTACTTTTTTACCCTCGAACCTCCAAAATTTCCATTTTTGACCTTGAAACTT-TC
1 AAAAATTACCATTTTACCC-CGAATGTCCAAAAATTCCATTTTTGACCTCGAAA-TTCTC
* * *
13122 AAAAATTACCATTTTGCCCCCGAATGTCCAAAAACTCCATTTTCGACCTCGAAATTCTC
1 AAAAATTACCATTTT-ACCCCGAATGTCCAAAAATTCCATTTTTGACCTCGAAATTCTC
* *
13181 -AAAATTACCCTTTTAGCCCCGAATGTCTAAAAATTCCATTTTT
1 AAAAATTACCATTTTA-CCCCGAATGTCCAAAAATTCCATTTTT
13224 AATCCTAAAC
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
58 39 0.46
59 43 0.51
60 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCGAATGTCCAAAAATTCCATTTTTGACCTCGAAATTCTC
Found at i:13224 original size:29 final size:30
Alignment explanation
Indices: 13122--13222 Score: 95
Period size: 29 Copynumber: 3.5 Consensus size: 30
13112 TGAAACTTTC
* *
13122 AAAAATTACCATTTT-GCCCCCGAATGTCC
1 AAAAATTACCATTTTAGACCCCGAATGTCT
* * *
13151 AAAAACT-CCATTTTCGACCTCGAAAT-TCT
1 AAAAATTACCATTTTAGACCCCG-AATGTCT
* *
13180 CAAAATTACCCTTTTAG-CCCCGAATGTCT
1 AAAAATTACCATTTTAGACCCCGAATGTCT
13209 AAAAATT-CCATTTT
1 AAAAATTACCATTTT
13223 TAATCCTAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
28 16 0.28
29 31 0.54
30 10 0.18
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.32
Consensus pattern (30 bp):
AAAAATTACCATTTTAGACCCCGAATGTCT
Found at i:13272 original size:28 final size:28
Alignment explanation
Indices: 13238--13313 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
13228 CTAAACTTTC
*
13238 CCAAAATTACCATTTTGCCCCCGAGAAT
1 CCAAAATTACCATTTTGCCCCCAAGAAT
*
13266 CCAAAATTACCATTTTGCTCCCAAGAAT
1 CCAAAATTACCATTTTGCCCCCAAGAAT
13294 CCAAAATTACCATTTTGCCC
1 CCAAAATTACCATTTTGCCC
13314 TCGGGTATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.28
Consensus pattern (28 bp):
CCAAAATTACCATTTTGCCCCCAAGAAT
Found at i:13272 original size:58 final size:58
Alignment explanation
Indices: 13089--13281 Score: 191
Period size: 59 Copynumber: 3.3 Consensus size: 58
13079 CCCTCGAACC
*
13089 TCCAAAATTTCCATTTTTGACCTTGAAACTTT-CAAAAATTACCATTTTGCCCCCGAATG
1 TCCAAAA-TTCCATTTTTGACC-TGAAACTTTCCCAAAATTACCATTTTGCCCCCGAATG
* * * *
13148 TCCAAAAACTCCATTTTCGACCTCGAAA--TTCTCAAAATTACCCTTTTAG-CCCCGAATG
1 TCC-AAAATTCCATTTTTGACCT-GAAACTTTCCCAAAATTACCATTTT-GCCCCCGAATG
* * *
13206 TCTAAAAATTCCATTTTTAATCCT-AAACTTTCCCAAAATTACCATTTTGCCCCCGAGA-A
1 TC-CAAAATTCCATTTTTGA-CCTGAAACTTTCCCAAAATTACCATTTTGCCCCCGA-ATG
13265 TCCAAAATTACCATTTT
1 TCCAAAATT-CCATTTT
13282 GCTCCCAAGA
Statistics
Matches: 110, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
57 5 0.05
58 45 0.41
59 55 0.50
60 5 0.05
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (58 bp):
TCCAAAATTCCATTTTTGACCTGAAACTTTCCCAAAATTACCATTTTGCCCCCGAATG
Found at i:13652 original size:96 final size:95
Alignment explanation
Indices: 13543--13733 Score: 224
Period size: 95 Copynumber: 2.0 Consensus size: 95
13533 AAAACTTTAA
* * * * *
13543 AATCGAGGCAATA-TTCTTTTAT-TTCGAGCTTCAAAAATTTGTGCTTTAATTTACTATGTGCAA
1 AATCGAGGCAATATTTC-CTTATCTTCGA--TTCAAAAATTTGCGCCTTAACTTACTAGGTGCAA
**
13606 TTTTTCTTCAAATCGAAATAATCGAATACCCTT
63 CCTTTCTTCAAATCGAAATAATCGAATACCCTT
* **
13639 AATCGAGGTAATATTTCCTTATCTTCGATTCTGAAATTTGCGCCTTAACTTACTAGGTGCAACCT
1 AATCGAGGCAATATTTCCTTATCTTCGATTCAAAAATTTGCGCCTTAACTTACTAGGTGCAACCT
* * *
13704 TTCTTCAAATCGAGATAATTGAATATCCTT
66 TTCTTCAAATCGAAATAATCGAATACCCTT
13734 CTCCCAAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
95 56 0.70
96 16 0.20
97 8 0.10
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (95 bp):
AATCGAGGCAATATTTCCTTATCTTCGATTCAAAAATTTGCGCCTTAACTTACTAGGTGCAACCT
TTCTTCAAATCGAAATAATCGAATACCCTT
Found at i:17876 original size:29 final size:28
Alignment explanation
Indices: 17851--18137 Score: 226
Period size: 29 Copynumber: 9.8 Consensus size: 28
17841 TTCACCCTCG
*
17851 AACTTCCAAAAATCCATTTCTGACCCCAA
1 AACTTCCAAAAATCCATTT-TTACCCCAA
* *
17880 AACTTCTAAAAATTTCATTTTTACCCCTAA
1 AACTTCCAAAAA-TCCATTTTTACCCC-AA
17910 AA-TTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAAT-CCATTTTT-ACCCCAA
*
17939 AACTTCCAAAAATTTCC-TTTTTACCCTC-G
1 AACTTCCAAAAA--TCCATTTTTACCC-CAA
*
17968 AATTTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAAT-CCATTTTT-ACCCCAA
*
17998 AACTTCAAAAAATTCCATTTTTTACCCCTAA
1 AACTTCCAAAAA-TCCA-TTTTTACCCC-AA
* *
18029 AA-TTCTAAAAATCCCATTTTTAATCCCAA
1 AACTTCCAAAAAT-CCATTTTT-ACCCCAA
*
18058 AACTTCCAAAAATTC-TATTTTACCCCCCAA
1 AACTTCCAAAAATCCAT-TTTTA--CCCCAA
* * *
18088 AA-TTCCAAAAATCCCAATTTGACCCCGA
1 AACTTCCAAAAAT-CCATTTTTACCCCAA
* *
18116 AACTACCAAAAATTCCCTTTTT
1 AACTTCCAAAAA-TCCATTTTT
18138 TAACCTTAAT
Statistics
Matches: 210, Mismatches: 23, Indels: 50
0.74 0.08 0.18
Matches are distributed among these distances:
27 1 0.00
28 12 0.06
29 95 0.45
30 89 0.42
31 12 0.06
32 1 0.00
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.32
Consensus pattern (28 bp):
AACTTCCAAAAATCCATTTTTACCCCAA
Found at i:17946 original size:30 final size:30
Alignment explanation
Indices: 17851--18142 Score: 271
Period size: 30 Copynumber: 9.9 Consensus size: 30
17841 TTCACCCTCG
* *
17851 AACTTCCAAAAAT-CCATTTCTGACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* **
17880 AACTTCTAAAAATTTCATTTTT-ACCCCTAA
1 AACTTCCAAAAATCCCATTTTTAACCCC-AA
17910 AA-TTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* *
17939 AACTTCCAAAAATTTCC-TTTTT-ACCCTC-G
1 AACTTCCAAAAA-TCCCATTTTTAACCC-CAA
*
17968 AATTTCCAAAAATCCCATTTTTAACCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* * *
17998 AACTTCAAAAAATTCCATTTTTTACCCCTAA
1 AACTTCCAAAAATCCCATTTTTAACCCC-AA
* *
18029 AA-TTCTAAAAATCCCATTTTTAATCCCAA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* * *
18058 AACTTCCAAAAATTCTA-TTTTACCCCCCAA
1 AACTTCCAAAAATCCCATTTTTA-ACCCCAA
* * *
18088 AA-TTCCAAAAATCCCA-ATTTGACCCCGA
1 AACTTCCAAAAATCCCATTTTTAACCCCAA
* *
18116 AACTACCAAAAATTCCCTTTTTTAACC
1 AACTTCCAAAAA-TCCCATTTTTAACC
18143 TTAATTTTCC
Statistics
Matches: 214, Mismatches: 34, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
28 10 0.05
29 90 0.42
30 101 0.47
31 13 0.06
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.32
Consensus pattern (30 bp):
AACTTCCAAAAATCCCATTTTTAACCCCAA
Found at i:17950 original size:59 final size:59
Alignment explanation
Indices: 17854--18129 Score: 346
Period size: 59 Copynumber: 4.7 Consensus size: 59
17844 ACCCTCGAAC
* * *
17854 TTCCAAAAAT-CCATTTCTGACCCCAAAACTTCTAAAAATTTCATTTTTACCCCTAAAA
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCTAAAA
* * *
17912 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCCTTTTTA-CCCTCGAAT
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCT-AAAA
* *
17971 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCAAAAAATTCCATTTTTTACCCCTAAAA
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCA-TTTTTACCCCTAAAA
* * *
18031 TTCTAAAAATCCCATTTTTAATCCCAAAACTTCCAAAAA-TTC-TATTTTACCCCCCAAAA
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCAT-TTTTA-CCCCTAAAA
* * * *
18090 TTCCAAAAATCCCA-ATTTGACCCCGAAACTACCAAAAATT
1 TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATT
18130 CCCTTTTTTA
Statistics
Matches: 189, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 38 0.20
59 102 0.54
60 44 0.23
61 4 0.02
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.31
Consensus pattern (59 bp):
TTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATTTCATTTTTACCCCTAAAA
Found at i:21081 original size:205 final size:205
Alignment explanation
Indices: 20729--21156 Score: 757
Period size: 205 Copynumber: 2.1 Consensus size: 205
20719 ACGATTATCC
* *
20729 ACAAACGGCGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* *
20794 TGTGAGCAAATCTTCAAACCCCAGTTTCCTGATGAGACAATGAGAAGCAGGTCGAAGCAATAAAA
66 TGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGACAATGAGAAGCAGGTCAAAGCAATAAAA
*
20859 GGTTAGCTTCATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
131 GGTTAGCGTCATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
20924 GCGAATTGAA
196 GCGAATTGAA
* *
20934 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTTGA
1 ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* * *
20999 TGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCAAAGCAATAAAA
66 TGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGACAATGAGAAGCAGGTCAAAGCAATAAAA
*
21064 GGTTAGCGTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
131 GGTTAGCGTCATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
21129 GCGAATTGAA
196 GCGAATTGAA
21139 ACAAACGACGCGGTCATC
1 ACAAACGACGCGGTCATC
21157 NNNNNNNNNN
Statistics
Matches: 212, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 212 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (205 bp):
ACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
TGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGACAATGAGAAGCAGGTCAAAGCAATAAAA
GGTTAGCGTCATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
GCGAATTGAA
Found at i:21546 original size:204 final size:205
Alignment explanation
Indices: 21252--21695 Score: 728
Period size: 204 Copynumber: 2.2 Consensus size: 205
21242 NNNNNNNNNN
21252 AGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCC
1 AGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCC
*
21317 TGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCGGTCAACATCCTGACGAGAT-CTGAGA
66 TGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCAGTCAACATCCTGACGAGATACTGAGA
** *
21381 AGAAGACCAAATCAAACCCACGCTTGATGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGAC
131 AGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGAC
21446 ACTGAGAAGC
196 ACTGAGAAGC
21456 AGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCC
1 AGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCC
* * * * * *
21521 TTATGAGATACAGAGAAGTGAATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATATTGAGA
66 TGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCAGTCAACATCCTGACGAGATACTGAGA
* * *
21586 ATAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCTTTGAACCCCAGCTTCCTGATGAGAT
131 AGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGAC
*
21651 ACTGAGGAGC
196 ACTGAGAAGC
**
21661 AGGTCGAAATAATAAAATGGTTAGCTTCCTGATGA
1 AGGTCGAAGCAATAAAA-GGTTAGCTTCCTGATGA
21696 AATATGGGGA
Statistics
Matches: 222, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
204 117 0.53
205 88 0.40
206 17 0.08
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (205 bp):
AGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCC
TGATGAGATACAGAGAAGCGAATTGAAACAAACGACGCAGTCAACATCCTGACGAGATACTGAGA
AGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGAC
ACTGAGAAGC
Found at i:21667 original size:409 final size:410
Alignment explanation
Indices: 20729--21695 Score: 865
Period size: 409 Copynumber: 2.4 Consensus size: 410
20719 ACGATTATCC
* *
20729 ACAAACGGCGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
1 ACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
*
20794 TGTGAGCAAATCTTCAAACCCCAGTTTCCTGATGAGACAATGAGAAGCAGGTCGAAGCAATAAAA
66 TGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGACAATGAGAAGCAGGTCGAAGCAATAAAA
*
20859 GGTTAGCTTCATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
* * *
20924 GCGAATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
196 GCGAATTGAAACAAACGACGCGGTCAACATCCTGACGAGATACTGAGAAGAAGACCAAATCAAAC
*
20989 TCACGCTTGATGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCAA
261 CCACGCTTGATGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCAA
21054 AGCAATAAAAGGTTAGCGTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAG
326 AGCAATAAAAGGTTAGCGTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAG
21119 ATACAGAGAAGCGAATTGAA
391 ATACAGAGAAGCGAATTGAA
* ***********************************************
21139 ACAAACGACGCGGTCATCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 ACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
************************************************
21204 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGTCGAAGCAATAAAA
66 TGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGACAATGAGAAGCAGGTCGAAGCAATAAAA
21269 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
21334 GCGAATTGAAACAAACGACGCGGTCAACATCCTGACGAGAT-CTGAGAAGAAGACCAAATCAAAC
196 GCGAATTGAAACAAACGACGCGGTCAACATCCTGACGAGATACTGAGAAGAAGACCAAATCAAAC
*
21398 CCACGCTTGATGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCGA
261 CCACGCTTGATGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCAA
* *
21463 AGCAATAAAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTTATGAG
326 AGCAATAAAAGGTTAGCGTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAG
*
21528 ATACAGAGAAGTGAATTGAA
391 ATACAGAGAAGCGAATTGAA
* *
21548 ACAAACGACGCAGTCATCTTCCTGATGAGATATTGAGAATAAGACCAAATCAAACCCACGCTCAA
1 ACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
** * * * **
21613 TGTGAGCAAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGGAGCAGGTCGAAATAATAAAA
66 TGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGACAATGAGAAGCAGGTCGAAGCAATAAAA
21678 TGGTTAGCTTCCTGATGA
131 -GGTTAGCTTCCTGATGA
21696 AATATGGGGA
Statistics
Matches: 352, Mismatches: 204, Indels: 2
0.63 0.37 0.00
Matches are distributed among these distances:
409 200 0.57
410 152 0.43
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.19
Consensus pattern (410 bp):
ACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAA
TGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGACAATGAGAAGCAGGTCGAAGCAATAAAA
GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
GCGAATTGAAACAAACGACGCGGTCAACATCCTGACGAGATACTGAGAAGAAGACCAAATCAAAC
CCACGCTTGATGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGACACTGAGAAGCAGGTCAA
AGCAATAAAAGGTTAGCGTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAG
ATACAGAGAAGCGAATTGAA
Found at i:22145 original size:17 final size:17
Alignment explanation
Indices: 22123--22199 Score: 84
Period size: 17 Copynumber: 4.5 Consensus size: 17
22113 CCAACAGGAT
22123 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
**
22140 TTAAATTTATTTTAAGT
1 TTAAATTTATTTTAAAA
*
22157 TTAAATTTA-CTTAAAA
1 TTAAATTTATTTTAAAA
* *
22173 TTTAAATTTATTATAAAT
1 -TTAAATTTATTTTAAAA
*
22191 TTAAGTTTA
1 TTAAATTTA
22200 AATCTATTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 4 0.08
17 41 0.84
18 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:22148 original size:23 final size:23
Alignment explanation
Indices: 22121--22208 Score: 61
Period size: 23 Copynumber: 3.6 Consensus size: 23
22111 GCCCAACAGG
22121 ATTTAAATTTATTTTAAAATTAA
1 ATTTAAATTTATTTTAAAATTAA
* *
22144 ATTT-ATTTTAAGTTTAAATTTACTTAAA
1 ATTTAAATTT-ATTTTAAA---A-TT-AA
* *
22172 ATTTAAATTTATTATAAATTTAA
1 ATTTAAATTTATTTTAAAATTAA
* *
22195 GTTTAAATCTATTT
1 ATTTAAATTTATTT
22209 AAATCAAAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
22 4 0.08
23 24 0.49
24 2 0.04
26 1 0.02
27 2 0.04
28 12 0.24
29 4 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTAAATTTATTTTAAAATTAA
Found at i:22159 original size:6 final size:6
Alignment explanation
Indices: 22121--22202 Score: 57
Period size: 6 Copynumber: 14.3 Consensus size: 6
22111 GCCCAACAGG
* * * *
22121 ATTTAA ATTT-A TTTTAA AATTAA ATTT-A TTTTAA GTTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * *
22166 CTTAAA ATTTAA ATTT-- ATTATAA ATTTAA GTTTAA AT
1 ATTTAA ATTTAA ATTTAA ATT-TAA ATTTAA ATTTAA AT
22203 CTATTTAAAT
Statistics
Matches: 57, Mismatches: 13, Indels: 12
0.70 0.16 0.15
Matches are distributed among these distances:
4 3 0.05
5 12 0.21
6 39 0.68
7 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:22165 original size:34 final size:34
Alignment explanation
Indices: 22121--22199 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
22111 GCCCAACAGG
* *
22121 ATTTAAATTTATTTTAAAA-TTAAATTTATTTTAA
1 ATTTAAATTTA-CTTAAAATTTAAATTTATTATAA
*
22155 GTTTAAATTTACTTAAAATTTAAATTTATTATAA
1 ATTTAAATTTACTTAAAATTTAAATTTATTATAA
*
22189 ATTTAAGTTTA
1 ATTTAAATTTA
22200 AATCTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 6 0.15
34 33 0.85
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (34 bp):
ATTTAAATTTACTTAAAATTTAAATTTATTATAA
Found at i:24135 original size:29 final size:29
Alignment explanation
Indices: 23947--24195 Score: 191
Period size: 30 Copynumber: 8.4 Consensus size: 29
23937 AAACTGTTCG
** *
23947 AAAATTACATTTTTACCCCCAAATTTCCA
1 AAAATTACATTTTTACCCTAAAACTTCCA
*
23976 AAAATT-CAATTTTTAACCTCAAAACTTCCA
1 AAAATTAC-ATTTTTACCCT-AAAACTTCCA
* * *
24006 AAAATTCCATTTTTGACCAC-GAAACTTCTA
1 AAAATTACATTTTT-ACC-CTAAAACTTCCA
*
24036 AAAATTCCATTTTTATCCCTAAAACTTCCA
1 AAAATTACATTTTTA-CCCTAAAACTTCCA
**
24066 AAAATT-C-TATTTTACCCTCGAACTTCCA
1 AAAATTACAT-TTTTACCCTAAAACTTCCA
* *
24094 AAAATTTCATTTTTGACCCTAAAAATTCCA
1 AAAATTACATTTTT-ACCCTAAAACTTCCA
* ** *
24124 AAAATTACTTTTTTACCCTCGAACCTCCA
1 AAAATTACATTTTTACCCTAAAACTTCCA
* * * ** **
24153 AAATTTCCATTTTGACCCCGAAACTTTTA
1 AAAATTACATTTTTACCCTAAAACTTCCA
24182 AAAATTACCATTTT
1 AAAATTA-CATTTT
24196 GCCCCCGATG
Statistics
Matches: 176, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
28 20 0.11
29 63 0.36
30 89 0.51
31 3 0.02
32 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTTACCCTAAAACTTCCA
Found at i:24165 original size:59 final size:58
Alignment explanation
Indices: 23947--24189 Score: 247
Period size: 58 Copynumber: 4.1 Consensus size: 58
23937 AAACTGTTCG
* * * * * *
23947 AAAATTACATTTTTACCCCCAAATTTCCAAAAATTCAATTTTTAACCTCAAAACTTCCA
1 AAAATTACTTTTTTACCCTCGAACTTCCAAAAATTCCATTTTTACCCT-AAAACTTCCA
* * * *
24006 AAAATTCCATTTTTGA-CCACGAAACTTCTAAAAATTCCATTTTTATCCCTAAAACTTCCA
1 AAAATTAC-TTTTTTACCCTCG-AACTTCCAAAAATTCCATTTTTA-CCCTAAAACTTCCA
* * *
24066 AAAATT-CTATTTTACCCTCGAACTTCCAAAAATTTCATTTTTGACCCTAAAAATTCCA
1 AAAATTACTTTTTTACCCTCGAACTTCCAAAAATTCCATTTTT-ACCCTAAAACTTCCA
* * * ** **
24124 AAAATTACTTTTTTACCCTCGAACCTCCAAAATTTCCATTTTGACCCCGAAACTTTTA
1 AAAATTACTTTTTTACCCTCGAACTTCCAAAAATTCCATTTTTACCCTAAAACTTCCA
24182 AAAATTAC
1 AAAATTAC
24190 CATTTTGCCC
Statistics
Matches: 153, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
58 62 0.41
59 47 0.31
60 41 0.27
61 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAATTACTTTTTTACCCTCGAACTTCCAAAAATTCCATTTTTACCCTAAAACTTCCA
Found at i:24334 original size:28 final size:28
Alignment explanation
Indices: 24299--24358 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
24289 GAACTTTCCT
24299 AAAATTACCATTTTACCCTCGAGAATCC
1 AAAATTACCATTTTACCCTCGAGAATCC
* * *
24327 AAAATTACCATTTTGCCCTCGGGTATCC
1 AAAATTACCATTTTACCCTCGAGAATCC
24355 AAAA
1 AAAA
24359 AGTCTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTCGAGAATCC
Found at i:25660 original size:31 final size:32
Alignment explanation
Indices: 25625--25711 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 32
25615 ATTTTATATA
*
25625 TTTTCTTAATTTGATATCTAAATTTGACA-CT
1 TTTTCTTAATTTGATATCTAAACTTGACACCT
* * *
25656 TTTTCCTAATTTAATATTTAAACTTGACACCT
1 TTTTCTTAATTTGATATCTAAACTTGACACCT
*
25688 TTTT-TTAAGTTGATA-CTTAAACTT
1 TTTTCTTAATTTGATATC-TAAACTT
25712 TTTGGGGTCC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 40 0.87
32 6 0.13
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.51
Consensus pattern (32 bp):
TTTTCTTAATTTGATATCTAAACTTGACACCT
Found at i:26055 original size:58 final size:59
Alignment explanation
Indices: 25909--26102 Score: 223
Period size: 59 Copynumber: 3.3 Consensus size: 59
25899 AATATTTAAT
* * * * * *
25909 AAATTTAAGTACCAAATTGAATCTTAAAAAAAGTTTAGGTACTAAATTA-AGAAAAAATATC
1 AAATTCAAGTACCAAATTGAGTC--CAAAAAAGTTTAAGTACCAAATTAGA-AAAAAATGTC
* * *
25970 AAATCCAAGTACCAAATTGGGTCCAAAAAAGTTTAAGTACCAAATTAGAAAAAAATGTT
1 AAATTCAAGTACCAAATTGAGTCCAAAAAAGTTTAAGTACCAAATTAGAAAAAAATGTC
* *
26029 AAGTTCAAGTATCAAATTGAGT-CAAAAAAGTTTAAGTACCAAATT-GAAAAAAATGTC
1 AAATTCAAGTACCAAATTGAGTCCAAAAAAGTTTAAGTACCAAATTAGAAAAAAATGTC
* *
26086 AAATTCAAATGCCAAAT
1 AAATTCAAGTACCAAAT
26103 GTTATATTAA
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
57 24 0.21
58 23 0.20
59 47 0.41
60 1 0.01
61 19 0.17
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (59 bp):
AAATTCAAGTACCAAATTGAGTCCAAAAAAGTTTAAGTACCAAATTAGAAAAAAATGTC
Found at i:26064 original size:33 final size:31
Alignment explanation
Indices: 25998--26102 Score: 80
Period size: 31 Copynumber: 3.5 Consensus size: 31
25988 GGGTCCAAAA
*
25998 AAGTTTAAGTACCAAATTAGAAAAAAATGTT
1 AAGTTCAAGTACCAAATTAGAAAAAAATGTT
* *
26029 AAGTTCAAGTATCAAATTGAGTCAAAAAA-G-T
1 AAGTTCAAGTACCAAATT-AG-AAAAAAATGTT
*
26060 ---TT-AAGTACCAAATT-GAAAAAAATGTC
1 AAGTTCAAGTACCAAATTAGAAAAAAATGTT
* * *
26086 AAATTCAAATGCCAAAT
1 AAGTTCAAGTACCAAAT
26103 GTTATATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
24 6 0.10
25 2 0.03
27 11 0.19
28 2 0.03
29 2 0.03
30 9 0.16
31 17 0.29
32 3 0.05
33 6 0.10
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.27
Consensus pattern (31 bp):
AAGTTCAAGTACCAAATTAGAAAAAAATGTT
Found at i:27223 original size:17 final size:17
Alignment explanation
Indices: 27193--27225 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27183 AATGCTGTGA
27193 GTAAACTATCCACAAAT
1 GTAAACTATCCACAAAT
27210 GTAAATCTAT-CACAAA
1 GTAAA-CTATCCACAAA
27226 GGTATACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.24
Consensus pattern (17 bp):
GTAAACTATCCACAAAT
Found at i:27317 original size:23 final size:22
Alignment explanation
Indices: 27286--27331 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
27276 GATAAAAACT
*
27286 AAAAAAAAATCAAAATATAAAA
1 AAAAAAAAAACAAAATATAAAA
**
27308 AAAAATAAAAACTGAATATAAAA
1 AAAAA-AAAAACAAAATATAAAA
27331 A
1 A
27332 GTTAAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAAAAAAAACAAAATATAAAA
Found at i:28073 original size:9 final size:9
Alignment explanation
Indices: 28059--28106 Score: 57
Period size: 8 Copynumber: 5.7 Consensus size: 9
28049 CAAATTCACC
28059 TAAAAATTA
1 TAAAAATTA
28068 TAAAAA-TA
1 TAAAAATTA
*
28076 TAAAAACTA
1 TAAAAATTA
28085 -AAAAATTA
1 TAAAAATTA
*
28093 TTAAAATT-
1 TAAAAATTA
28101 TAAAAA
1 TAAAAA
28107 AAAAACATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 20 0.59
9 14 0.41
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:28081 original size:17 final size:18
Alignment explanation
Indices: 28059--28106 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
28049 CAAATTCACC
28059 TAAAAATTATAAAAA-TA
1 TAAAAATTATAAAAATTA
*
28076 TAAAAACTA-AAAAATTA
1 TAAAAATTATAAAAATTA
*
28093 TTAAAATT-TAAAAA
1 TAAAAATTATAAAAA
28107 AAAAACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAATTATAAAAATTA
Found at i:29544 original size:97 final size:97
Alignment explanation
Indices: 29374--29555 Score: 274
Period size: 97 Copynumber: 1.9 Consensus size: 97
29364 TTCGAAAAGA
* * * *
29374 GTATTCGATTATCCCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAGC
1 GTATTCGATTACCCCGATTTGAAAAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAAC
*
29439 CAGGAATAAAGAAATATTGCCTCGTTTTAAGG
66 CAGAAATAAAGAAATATTGCCTCGTTTTAAGG
* * *
29471 GTATTCGATTACCCCGGTTTGAAAAAAAATTGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC
1 GTATTCGATTACCCCGATTTGAAAAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAAC
* *
29536 CCGAAATAAAGGAATATTGC
66 CAGAAATAAAGAAATATTGC
29556 GTCAATTTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 75 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (97 bp):
GTATTCGATTACCCCGATTTGAAAAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAAC
CAGAAATAAAGAAATATTGCCTCGTTTTAAGG
Found at i:29973 original size:30 final size:30
Alignment explanation
Indices: 29823--30198 Score: 206
Period size: 29 Copynumber: 12.8 Consensus size: 30
29813 AGTTTCGAAC
* * * *
29823 AGTTTG-GGGTTAAAACGTAATTTTGGAAA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGA
* * * *
29852 ATTTTAGGGGGTAGAAATGTCATTTTT-AGA
1 AGTTT-GAGGGTAAAAATGTAATTTTTGAGA
* * * *
29882 GGATTT-TGGGTAAAAATGTGATTTTT-AAA
1 AG-TTTGAGGGTAAAAATGTAATTTTTGAGA
** ** * * *
29911 AGTTCAAGGACAAAATTGCAATCTTTG-GA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGA
* * *
29940 AGTTTAATGGTAAAAATGTAATTTTTGAAA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGA
** * *
29970 AGTTT-AGGGGCAAAATGTAAATTTTG-GT
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGA
* * * *
29998 TGTTCGAGGGCAAAAATGTATTTTTTGAGA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGA
*
30028 AGTTTGGGGGTAAAAAATGTAATTTTTGAGA
1 AGTTTGAGGGT-AAAAATGTAATTTTTGAGA
* * *
30059 AGTTCG-GGAGAAAAAATGCAATTTTTG-GA
1 AGTTTGAGG-GTAAAAATGTAATTTTTGAGA
*
30088 AGTTTGAGGGCAAAAATGTAATTTTTGAGA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGA
* *
30118 AGTTTG-GGAGCAAAAATGCAATTTTTG-GA
1 AGTTTGAGG-GTAAAAATGTAATTTTTGAGA
* * * *
30147 AGTTCG-GGG--GAAATATATTTTTTGAGA
1 AGTTTGAGGGTAAAAATGTAATTTTTGAGA
* *
30174 AGTTCG-GGAGCAAAAATGTAATTTT
1 AGTTTGAGG-GTAAAAATGTAATTTT
30199 GGAAAAGTGT
Statistics
Matches: 266, Mismatches: 64, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
26 11 0.04
27 10 0.04
28 7 0.03
29 126 0.47
30 71 0.27
31 41 0.15
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (30 bp):
AGTTTGAGGGTAAAAATGTAATTTTTGAGA
Found at i:30111 original size:59 final size:58
Alignment explanation
Indices: 29951--30202 Score: 264
Period size: 59 Copynumber: 4.3 Consensus size: 58
29941 GTTTAATGGT
* * **
29951 AAAAATGTAATTTTTGAAAAGTTT-AGGGGCAAAATGTAAATTTTG-GTTGTTCGAGG-GC
1 AAAAATGTAATTTTTG-GAAGTTTGA-GGGCAAAATGTAATTTTTGAGAAGTTCG-GGAGC
* * * *
30009 AAAAATGTATTTTTTGAGAAGTTTGGGGGTAAAAAATGTAATTTTTGAGAAGTTCGGGAGA
1 AAAAATGTAATTTTTG-GAAGTTTGAGGG--CAAAATGTAATTTTTGAGAAGTTCGGGAGC
* *
30070 AAAAATGCAATTTTTGGAAGTTTGAGGGCAAAAATGTAATTTTTGAGAAGTTTGGGAGC
1 AAAAATGTAATTTTTGGAAGTTTGAGGGC-AAAATGTAATTTTTGAGAAGTTCGGGAGC
* * * * *
30129 AAAAATGCAATTTTTGGAAGTTCG-GGG-GAAATATATTTTTTGAGAAGTTCGGGAGC
1 AAAAATGTAATTTTTGGAAGTTTGAGGGCAAAATGTAATTTTTGAGAAGTTCGGGAGC
30185 AAAAATGTAA-TTTTGGAA
1 AAAAATGTAATTTTTGGAA
30203 AAGTGTAGGG
Statistics
Matches: 168, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
55 8 0.05
56 34 0.20
58 28 0.17
59 50 0.30
60 27 0.16
61 21 0.12
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (58 bp):
AAAAATGTAATTTTTGGAAGTTTGAGGGCAAAATGTAATTTTTGAGAAGTTCGGGAGC
Found at i:31336 original size:3 final size:3
Alignment explanation
Indices: 31292--31317 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31282 TCTCATTTTC
31292 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
31318 TAATGCTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32001 original size:17 final size:17
Alignment explanation
Indices: 31979--32063 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 17
31969 ATTTTTTAAT
31979 TAAATTCAAATTTAAAA
1 TAAATTCAAATTTAAAA
* **
31996 TAAATTTAAACTAAAAAA
1 TAAATTCAAA-TTTAAAA
* * *
32014 TTAATTTAAATTTATAA
1 TAAATTCAAATTTAAAA
*
32031 TAAA-TCTAAACTTAAAA
1 TAAATTC-AAATTTAAAA
* *
32048 TAATTTAAAATTTAAA
1 TAAATTCAAATTTAAA
32064 TTTTGGGCTT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
16 1 0.02
17 35 0.69
18 15 0.29
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTCAAATTTAAAA
Found at i:32026 original size:35 final size:34
Alignment explanation
Indices: 31976--32063 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 34
31966 GACATTTTTT
* *
31976 AATTAAATTCAAATTTAAAATAAATTTAAACTAAAA
1 AATT-AATTTAAATTTAAAATAAATCTAAACT-AAA
* *
32012 AATTAATTTAAATTTATAATAAATCTAAACTTAA
1 AATTAATTTAAATTTAAAATAAATCTAAACTAAA
32046 AA-TAATTTAAAATTTAAA
1 AATTAATTT-AAATTTAAA
32064 TTTTGGGCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 6 0.13
34 12 0.26
35 24 0.52
36 4 0.09
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (34 bp):
AATTAATTTAAATTTAAAATAAATCTAAACTAAA
Found at i:32809 original size:210 final size:210
Alignment explanation
Indices: 32447--33518 Score: 1459
Period size: 209 Copynumber: 5.1 Consensus size: 210
32437 TCTTGATCTT
* * ** *
32447 CTTCTCTGTATCTTATCAGGAAGATGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATC
* * * * *
32512 AGGAAGCTGAGATTCGAAGTTTTGCTCACATCGAGCTTTGGTTTCATTGATTTGATCTACTTCTC
66 AGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGGTTTCATTGACTTGGTCTACTTCTC
* * * * **
32577 AATATCTCTTCAGGAAGATGACCGCATCACTTGTTTTGATCCGCTTCTCTATATCTAATCAGGAA
131 AGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCTCTGTATCTCGTCAGGAA
* * **
32642 GATGGATTTGGTCTG
196 AACGGATTTGGTCCA
* * * * *
32657 CTTCTCTGTGTCTCATCAGGAAGGCGACCGCTTTATTGCTTTGACCTGCTTCTTATTACCTCATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATC
* * * * *
32722 AAGAAGCTGAGG-TTCGAAGTTTCACTCATATCGAGCTTTGGTTTCATTGATTTGGTCTACTTCT
66 AGGAAGCTG-GGATTCGAAGTTTCGCTCACATTGAGCTTTGGTTTCATTGACTTGGTCTACTTCT
* * * * *
32786 CAGTACCTCATCAGGAAGATGACCGCATCGCTTGTTTTGATCTGCTTCTCTGTATCTCATCAGGA
130 CAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCTCTGTATCTCGTCAGGA
* *
32851 AGACGAATTTGGTCCA
195 AAACGGATTTGGTCCA
* * *
32867 CTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACTTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATC
*
32932 AGGAAGCTGGGATTCGAAGTTTTGCTCACATTGAGC-TTGGTTTCATTGACTTGGTCTACTTCTC
66 AGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGGTTTCATTGACTTGGTCTACTTCTC
* * * *
32996 AGTATCTCATCAAGAAGAAGACCGCATCACTTATTTTGATCTGCTTCTCTGTATCTCGTTAGGAA
131 AGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCTCTGTATCTCGTCAGGAA
*
33061 AACAGATTTGGTCCA
196 AACGGATTTGGTCCA
* * * *
33076 CTTCTTTATATCTCATCAGGAAGACGACAGCTTTATTGCTTTGACCTACTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATC
* * * * *
33141 AAGAAGTTGGGATTTGAAGTTTCGCTCACATTGAACTTT-GTTTCATTGACTTGGTCTACTTCTT
66 AGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGGTTTCATTGACTTGGTCTACTTCTC
* * *
33205 AGTATCTCATCAGGAAGATGACCGCATTACTTATTTTGATTCGCTTCTCTGTATCTTGTCAGGAA
131 AGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCTCTGTATCTCGTCAGGAA
**
33270 AATAGATTTGGTCCA
196 AACGGATTTGGTCCA
* * * * *
33285 CTTTTCTGTATCTTATTAGGAAGACAACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATT
1 CTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATC
33350 AGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTT-GTTTCATTGACTTGGTCTACTTCTC
66 AGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGGTTTCATTGACTTGGTCTACTTCTC
* * *
33414 AGTATCTCATCAGGAAGATGACCACATTACTTATTTTGATCCACTTCTCTGTATATCTCGTCAGG
131 AGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCTCTG--TATCTCGTCAGG
33479 AAAACGGATTTGGTCCA
194 AAAACGGATTTGGTCCA
**
33496 CTTCTCAATATCTCATCAGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
33519 CTGAGATTAG
Statistics
Matches: 760, Mismatches: 97, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
209 447 0.59
210 268 0.35
211 45 0.06
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (210 bp):
CTTCTCTGTATCTCATCAGGAAGACGACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATC
AGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGGTTTCATTGACTTGGTCTACTTCTC
AGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCTCTGTATCTCGTCAGGAA
AACGGATTTGGTCCA
Found at i:33572 original size:372 final size:372
Alignment explanation
Indices: 33123--33890 Score: 1212
Period size: 372 Copynumber: 2.1 Consensus size: 372
33113 GCTTTGACCT
* * * *
33123 ACTTCTCAGTATCTCATCAAGAAGTTGGGATTTGAAGTTTCGCTCACATTGAACTTTGTTTCATT
1 ACTTCTCAGTATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAACTTTGTTTCATT
* * * *
33188 GACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATTACTTATTTTGATTCGCTTCT
66 GACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCT
* * * * * * * *
33253 CTGTATCTTGTCAGGAAAATAGATTTGGTCCACTTTTCTGTATCTTATTAGGAAGACAACCGCTT
131 CTGTATCTCGTCAAGAAAACAGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACAACAGCTT
* * *
33318 TATTGCTTTGACCTGCTTCTCAGTATCTCATTAGGAAGCTGGGATTCGAAGTTTCGCTCACATTG
196 TATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGTTTCGCTCACATTG
*
33383 AGCTTTGTTTCATTGACTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATTACTTAT
261 AGCTTTGTTTCATTGACTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTAT
**
33448 TTTGATCCACTTCTCTGTATATCTCGTCAGGAAAACGGATTTGGTCC
326 TTTGATCCACTTCTCTGTATATCTCGTCAGGAAAACAAATTTGGTCC
* *
33495 ACTTCTCAATATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTTGTTTCATT
1 ACTTCTCAGTATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAACTTTGTTTCATT
* *
33560 GACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCATCACTTATTTTGATCCGTTTCT
66 GACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCT
* * * * *
33625 TTGTATCTCGTCAAGAAAACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGATATCTT
131 CTGTATCTCGTCAAGAAAACAGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACAACAGCTT
33690 TATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGTTTCGCTCACATTG
196 TATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGTTTCGCTCACATTG
* *
33755 AGCTTTGTTTCATTGACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTAT
261 AGCTTTGTTTCATTGACTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTAT
*
33820 TTTGATCCACTTCTTTGTATATCTCGTCAGGAAAACAAATTTGGTCC
326 TTTGATCCACTTCTCTGTATATCTCGTCAGGAAAACAAATTTGGTCC
**
33867 ACTTCTTTGTATCTCATCAGGAAG
1 ACTTCTCAGTATCTCATCAGGAAG
33891 ATGACCGCTT
Statistics
Matches: 359, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
372 359 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (372 bp):
ACTTCTCAGTATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAACTTTGTTTCATT
GACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCGCTTCT
CTGTATCTCGTCAAGAAAACAGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACAACAGCTT
TATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGTTTCGCTCACATTG
AGCTTTGTTTCATTGACTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTAT
TTTGATCCACTTCTCTGTATATCTCGTCAGGAAAACAAATTTGGTCC
Found at i:33607 original size:581 final size:582
Alignment explanation
Indices: 32915--34019 Score: 1759
Period size: 581 Copynumber: 1.9 Consensus size: 582
32905 CTTCGACTTG
* * * *
32915 CTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGTTTTGCTCACATTGAGCTTGGTTTCATTG
1 CTTCTCAATATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTGGTTTCATTG
* *
32980 ACTTGGTCTACTTCTCAGTATCTCATCAAGAAGAAGACCGCATCACTTATTTTGATCTGCTTCTC
66 ACTTCGTCTACTTCTCAGTATCTCATCAAGAAGAAGACCGCATCACTTATTTTGATCCGCTTCTC
* * * *
33045 TGTATCTCGTTAGGAAAACAGATTTGGTCCACTTCTTTATATCTCATCAGGAAGACGACAGCTTT
131 TGTATCTCGTCAAGAAAACAGATTTGGTCCACTTCTCTATATCTCATCAAGAAGACGACAGCTTT
* * *
33110 ATTGCTTTGACCTA-CTTCTCAGTATCTCATCAAGAAGTTGGGATTTGAAGTTTCGCTCACATTG
196 ATTGCTTCGACC-AGCTTCTCAGTATCTCATCAAGAAGCTGGGATTCGAAGTTTCGCTCACATTG
*
33174 AACTTTGTTTCATTGACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATTACTTAT
260 AACTTTGTTTCATTGACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTAT
* * * * * * *
33239 TTTGATTCGCTTCTCTG-TATCTTGTCAGGAAAATAGATTTGGTCCACTT-TTCTGTATCTTATT
325 TTTGATCCACTTCTCTGATATCTCGTCAGGAAAACAAATTTGGTCCACTTCTT-TGTATCTCATC
* * *
33302 AGGAAGACAACCGCTTTATTGCTTTGACCTGCTTCTCAGTATCTCATTAGGAAGCTGGGATTCGA
389 AGGAAGACAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGATTCGA
* *
33367 AGTTTCGCTCACATTGAGCTTTGTTTCATTGACTTGGTCTACTTCTC-AGTATCTCATCAGGAAG
454 AGTTTCGCACACATTGAGCTTTGTTTCATTGACTTGGTATACTTCTCTA-TATCTCATCAGGAAG
33431 ATGACCACATTACTTATTTTGATCCACTTCTCTGTATATCTCGTCAGGAAAACGGATTTGGTCCA
518 ATGACCACATTACTTATTTTGATCCACTTCTCTGTATATCTCGTCAGGAAAACGGATTTGGTCCA
*
33496 CTTCTCAATATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
1 CTTCTCAATATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTGGTTTCATTG
* * * * *
33561 ACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCATCACTTATTTTGATCCGTTTCTT
66 ACTTCGTCTACTTCTCAGTATCTCATCAAGAAGAAGACCGCATCACTTATTTTGATCCGCTTCTC
* * * *
33626 TGTATCTCGTCAAGAAAACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGATATCTTT
131 TGTATCTCGTCAAGAAAACAGATTTGGTCCACTTCTCTATATCTCATCAAGAAGACGACAGCTTT
*
33691 ATTGCTTCGACCAGCTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGTTTCGCTCACATTGA
196 ATTGCTTCGACCAGCTTCTCAGTATCTCATCAAGAAGCTGGGATTCGAAGTTTCGCTCACATTGA
*
33756 GCTTTGTTTCATTGACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTATT
261 ACTTTGTTTCATTGACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTATT
*
33821 TTGATCCACTTCTTTGTATATCTCGTCAGGAAAACAAATTTGGTCCACTTCTTTGTATCTCATCA
326 TTGATCCACTTCTCTG-ATATCTCGTCAGGAAAACAAATTTGGTCCACTTCTTTGTATCTCATCA
** *
33886 GGAAGATGACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCATGAAGCTGAGATTCGAA
390 GGAAGACAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGATTCGAA
*
33951 GTTTCGCACACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTATATCTCATCAGGAAGAT
455 GTTTCGCACACATTGAGCTTTGTTTCATTGACTTGGTATACTTCTCTATATCTCATCAGGAAGAT
34016 GACC
520 GACC
34020 GCCTCTTTTG
Statistics
Matches: 476, Mismatches: 43, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
580 1 0.00
581 310 0.65
583 162 0.34
584 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (582 bp):
CTTCTCAATATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTGGTTTCATTG
ACTTCGTCTACTTCTCAGTATCTCATCAAGAAGAAGACCGCATCACTTATTTTGATCCGCTTCTC
TGTATCTCGTCAAGAAAACAGATTTGGTCCACTTCTCTATATCTCATCAAGAAGACGACAGCTTT
ATTGCTTCGACCAGCTTCTCAGTATCTCATCAAGAAGCTGGGATTCGAAGTTTCGCTCACATTGA
ACTTTGTTTCATTGACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTATT
TTGATCCACTTCTCTGATATCTCGTCAGGAAAACAAATTTGGTCCACTTCTTTGTATCTCATCAG
GAAGACAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGATTCGAAG
TTTCGCACACATTGAGCTTTGTTTCATTGACTTGGTATACTTCTCTATATCTCATCAGGAAGATG
ACCACATTACTTATTTTGATCCACTTCTCTGTATATCTCGTCAGGAAAACGGATTTGGTCCA
Found at i:33611 original size:163 final size:161
Alignment explanation
Indices: 33333--33679 Score: 550
Period size: 163 Copynumber: 2.1 Consensus size: 161
33323 CTTTGACCTG
* * *
33333 CTTCTCAGTATCTCATTAGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
* *
33398 ACTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATTACTTATTTTGATCCACTTCTC
66 ACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTATTTTGATCC-CTT-TC
*
33463 TGTATATCTCGTCAGGAAAACGGATTTGGTCCA
129 TGTATATCTCGTCAAGAAAACGGATTTGGTCCA
*
33496 CTTCTCAATATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
* * * *
33561 ACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCATCACTTATTTTGATCCGTTTCTT
66 ACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTATTTTGATCCCTTTCTG
*
33626 TGTATCTCGTCAAGAAAACGGATTTGGTCCA
131 TATATCTCGTCAAGAAAACGGATTTGGTCCA
* *
33657 CTTCTCTGTATCTCATCAAGAAG
1 CTTCTCAGTATCTCATCAGGAAG
33680 ACGATATCTT
Statistics
Matches: 169, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
161 52 0.31
162 2 0.01
163 115 0.68
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (161 bp):
CTTCTCAGTATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
ACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTATTTTGATCCCTTTCTG
TATATCTCGTCAAGAAAACGGATTTGGTCCA
Found at i:33965 original size:211 final size:209
Alignment explanation
Indices: 33496--34021 Score: 820
Period size: 211 Copynumber: 2.5 Consensus size: 209
33486 ATTTGGTCCA
* *
33496 CTTCTCAATATCTCATCAGGAAGCTGAGATTAGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGAGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
* * * **
33561 ACTTCGTCTACTTCTCAGTATCTCATCAGGAAGATGATCGCATCACTTATTTTGATCCGTTTCTT
66 ACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTT
** * *
33626 TGTATCTCGTCAAGAAAACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGATATCTTT
131 TGTATCTCGTCAAGAAAACAAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGACAGCTTT
33691 ATTGCTTCGACCAG
196 ATTGCTTCGACCAG
*
33705 CTTCTCAGTATCTCATCAGGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGAGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
33770 ACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTT
66 ACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTT
* * * * *
33835 TGTATATCTCGTCAGGAAAACAAATTTGGTCCACTTCTTTGTATCTCATCAGGAAGATGACCGCT
131 TG--TATCTCGTCAAGAAAACAAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGACAGCT
*
33900 TTATTGCTTCGACCTG
194 TTATTGCTTCGACCAG
* *
33916 CTTCTCAGTATCTCATCATGAAGCTGAGATTCGAAGTTTCGCACACATTGAGCTTTGTTTCATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGAGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
* *
33981 ATTTGGTATACTTCTCTA-TATCTCATCAGGAAGATGACCGC
66 ACTTGGTCTACTTCT-TAGTATCTCATCAGGAAGATGACCGC
34022 CTCTTTTGTT
Statistics
Matches: 291, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
209 124 0.43
211 165 0.57
212 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGCTGAGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTG
ACTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTATTTTGATCCACTTCTT
TGTATCTCGTCAAGAAAACAAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGACGACAGCTTT
ATTGCTTCGACCAG
Found at i:35235 original size:15 final size:14
Alignment explanation
Indices: 35208--35240 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
35198 GAAATCAAAC
35208 ATAAAATCGATAGA
1 ATAAAATCGATAGA
35222 ATAAAATACGATAGA
1 ATAAAAT-CGATAGA
35237 ATAA
1 ATAA
35241 TAAAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (14 bp):
ATAAAATCGATAGA
Found at i:35452 original size:29 final size:28
Alignment explanation
Indices: 35420--35516 Score: 99
Period size: 30 Copynumber: 3.4 Consensus size: 28
35410 AAAAAAAGGT
35420 ATTTTTGGACA-TCAGAGGGTAAAATGATA
1 ATTTTTGGA-AGTCAG-GGGTAAAATGATA
**
35449 ATTTTTGGAAGTTTGGGGTTAAAAATGA-A
1 ATTTTTGGAAGTCAGGGG-T-AAAATGATA
* *
35478 ATTTTTTGAAAGTCAGGGGTAAAATGGTA
1 A-TTTTTGGAAGTCAGGGGTAAAATGATA
35507 ATTTTTGGAA
1 ATTTTTGGAA
35517 AGTTCGAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
28 18 0.32
29 17 0.30
30 21 0.38
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (28 bp):
ATTTTTGGAAGTCAGGGGTAAAATGATA
Found at i:35770 original size:29 final size:29
Alignment explanation
Indices: 35436--35810 Score: 215
Period size: 29 Copynumber: 12.9 Consensus size: 29
35426 GGACATCAGA
35436 GGGT-AAAATGATAATTTTTGG-AAGTTTG
1 GGGTAAAAATG-TAATTTTTGGAAAGTTTG
* * **
35464 GGGTTAAAAATGAAATTTTTTGAAAGTCAG
1 GGG-TAAAAATGTAATTTTTGGAAAGTTTG
*
35494 GGGT-AAAATGGTAATTTTTGGAAAG-TTC
1 GGGTAAAAAT-GTAATTTTTGGAAAGTTTG
** *
35522 GAATCAAAAATGGAATTTTTGGAAA-TTTG
1 GGGT-AAAAATGTAATTTTTGGAAAGTTTG
* * *
35551 AGGGT-AAAATGGTAATTTTTAGAAAGCTCG
1 -GGGTAAAAAT-GTAATTTTTGGAAAGTTTG
* * *
35581 GGGTTAAAAATGCAA-TTTT-GAGAGTTCGG
1 GGG-TAAAAATGTAATTTTTGGAAAGTT-TG
**
35610 GGGT-AAAATGGTAATTTTT--AAAGAATTCA
1 GGGTAAAAAT-GTAATTTTTGGAAAG--TTTG
*
35639 GGGT-AAAA-GGAATTTTTGGAAA-TTTG
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
* * *
35665 AGGGTAGAAATGTAAATTTTGG-AAGTTCG
1 -GGGTAAAAATGTAATTTTTGGAAAGTTTG
* *
35694 AGGGCAAAAATGTAATTTTTGTAAAG-TTG
1 -GGGTAAAAATGTAATTTTTGGAAAGTTTG
*
35723 GATGGCAAAAATGTAATTTTTGGAAAGTTTAG
1 G--GGTAAAAATGTAATTTTTGGAAAGTTT-G
* ** *
35755 GGGTAAAAATGTATTTTTTTAAAAGTTTA
1 GGGTAAAAATGTAATTTTTGGAAAGTTTG
* ** *
35784 GGGTCAAAATGTGTTTTTTGGATAGTT
1 GGGTAAAAATGTAATTTTTGGAAAGTT
35811 CAGGGACCTT
Statistics
Matches: 269, Mismatches: 50, Indels: 55
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.01
27 17 0.06
28 33 0.12
29 130 0.48
30 78 0.29
31 7 0.03
32 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGAAAGTTTG
Found at i:35815 original size:29 final size:29
Alignment explanation
Indices: 35651--35815 Score: 127
Period size: 30 Copynumber: 5.6 Consensus size: 29
35641 GTAAAAGGAA
* *
35651 TTTTTGGAAA-TTTGAGGGTAGAAATGTAA
1 TTTTTGGAAAGTTT-AGGGTAAAAATGTAT
* * * *
35680 ATTTTGG-AAGTTCGAGGGCAAAAATGTAA
1 TTTTTGGAAAGTT-TAGGGTAAAAATGTAT
* * * * *
35709 TTTTTGTAAAGTTGGATGGCAAAAATGTAA
1 TTTTTGGAAAGTT-TAGGGTAAAAATGTAT
35739 TTTTTGGAAAGTTTAGGGGTAAAAATGTAT
1 TTTTTGGAAAGTTTA-GGGTAAAAATGTAT
** * *
35769 TTTTTTAAAAGTTTAGGGTCAAAATGTGT
1 TTTTTGGAAAGTTTAGGGTAAAAATGTAT
* *
35798 TTTTTGGATAGTTCAGGG
1 TTTTTGGAAAGTTTAGGG
35816 ACCTTTTTAG
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
28 2 0.02
29 53 0.48
30 56 0.50
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (29 bp):
TTTTTGGAAAGTTTAGGGTAAAAATGTAT
Found at i:37794 original size:6 final size:6
Alignment explanation
Indices: 37779--37856 Score: 79
Period size: 6 Copynumber: 13.3 Consensus size: 6
37769 CAAATTTAAC
* ** * *
37779 TAAATT TAAATA TAAAAA TAAATT TAAATC TAAATT TAAA-A TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
37826 TAAATC TAAATT TAAA-A TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TA
37857 GAAACAAATT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
5 8 0.14
6 50 0.86
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:37823 original size:23 final size:23
Alignment explanation
Indices: 37779--37853 Score: 123
Period size: 23 Copynumber: 3.2 Consensus size: 23
37769 CAAATTTAAC
* *
37779 TAAATTTAAATATAAAAATAAATT
1 TAAATCTAAAT-TTAAAATAAATT
37803 TAAATCTAAATTTAAAATAAATT
1 TAAATCTAAATTTAAAATAAATT
37826 TAAATCTAAATTTAAAATAAATT
1 TAAATCTAAATTTAAAATAAATT
37849 TAAAT
1 TAAAT
37854 TTAGAAACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 39 0.80
24 10 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAATCTAAATTTAAAATAAATT
Found at i:37825 original size:11 final size:11
Alignment explanation
Indices: 37793--37894 Score: 88
Period size: 11 Copynumber: 9.5 Consensus size: 11
37783 TTTAAATATA
37793 AAAATAAATTT
1 AAAATAAATTT
*
37804 AAATCTAAATTT
1 AAA-ATAAATTT
37816 AAAATAAATTT
1 AAAATAAATTT
*
37827 AAATCTAAATTT
1 AAA-ATAAATTT
37839 AAAATAAA-TT
1 AAAATAAATTT
37849 ----TAAATTT
1 AAAATAAATTT
*
37856 AGAAACAAATTT
1 A-AAATAAATTT
*
37868 AAAATCAATTT
1 AAAATAAATTT
* *
37879 AAACTTAATTT
1 AAAATAAATTT
37890 AAAAT
1 AAAAT
37895 CAAAAGTTTG
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
10 2 0.03
11 38 0.52
12 27 0.37
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (11 bp):
AAAATAAATTT
Found at i:37835 original size:29 final size:29
Alignment explanation
Indices: 37736--37886 Score: 110
Period size: 29 Copynumber: 5.5 Consensus size: 29
37726 TTGGACTTTC
*
37736 AAATTT-AATTTAATAT-TAAGTTTAAAA-
1 AAATTTAAATTTAA-ATCTAAATTTAAAAT
**
37763 CCATTTCAAATTT-AA-CTAAATTTAAATAT
1 AAATTT-AAATTTAAATCTAAATTTAAA-AT
**
37792 AAAAATAAATTTAAATCTAAATTT---A-
1 AAATTTAAATTTAAATCTAAATTTAAAAT
37817 AAA--TAAATTTAAATCTAAATTTAAAAT
1 AAATTTAAATTTAAATCTAAATTTAAAAT
*
37844 AAATTTAAATTTAGAAAC-AAATTTAAAAT
1 AAATTTAAATTTA-AATCTAAATTTAAAAT
* *
37873 CAATTTAAACTTAA
1 AAATTTAAATTTAA
37887 TTTAAAATCA
Statistics
Matches: 100, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
23 19 0.19
25 3 0.03
26 2 0.02
27 17 0.17
28 9 0.09
29 39 0.39
30 11 0.11
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.38
Consensus pattern (29 bp):
AAATTTAAATTTAAATCTAAATTTAAAAT
Found at i:37867 original size:18 final size:17
Alignment explanation
Indices: 37827--37870 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
37817 AAATAAATTT
* *
37827 AAATCTAAATTTAAAAT
1 AAATTTAAATTTAAAAC
37844 AAATTTAAATTTAGAAAC
1 AAATTTAAATTTA-AAAC
37862 AAATTTAAA
1 AAATTTAAA
37871 ATCAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (17 bp):
AAATTTAAATTTAAAAC
Found at i:38547 original size:208 final size:208
Alignment explanation
Indices: 38183--38574 Score: 703
Period size: 208 Copynumber: 1.9 Consensus size: 208
38173 TCATAGTCTT
* * * *
38183 TGAGTCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGTATCGCTT
1 TGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTC
* *
38248 GTTTTGATCTACTTCTCTGTGTCTCATCAAGAAGACGGATCTGGTTCACTTCTCAGTATCTCATC
66 GTTTTGATCCACTTCTCTGTGTCTCATCAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATC
* *
38313 AGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTTGGGTTCGAA
131 AGGAAGCTAACCATTTTATCGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGTTGGGTTCGAA
38378 AATTCGTTCACTC
196 AATTCGTTCACTC
38391 TGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTC
1 TGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTC
38456 GTTTTGATCCACTTCTCTGTGTCTCATCAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATC
66 GTTTTGATCCACTTCTCTGTGTCTCATCAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATC
*
38521 AGGAAGCTAACCATTTTATCGCTTCGAGCTGCTTCTCAGTATCTCATCAAGAAG
131 AGGAAGCTAACCATTTTATCGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAG
38575 ATGACCTCAT
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
208 175 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (208 bp):
TGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTC
GTTTTGATCCACTTCTCTGTGTCTCATCAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATC
AGGAAGCTAACCATTTTATCGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGTTGGGTTCGAA
AATTCGTTCACTC
Found at i:38658 original size:134 final size:134
Alignment explanation
Indices: 38418--38708 Score: 476
Period size: 134 Copynumber: 2.2 Consensus size: 134
38408 ATTTGGTCTA
* *
38418 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTCGTTTTGATCCACTTCTCTGTGTCTCAT
1 CTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTCATTTTGATCCACTTCTCTGTGTCTCAT
*
38483 CAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATCGCTTCGA
66 CAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATCGCTTCGA
*
38548 GCTG
131 CCTG
* *
38552 CTTCTCAGTATCTCATCAAGAAGATGACCTCATCACTCATTTTGATTCACTTCTCTGTGTCTCAT
1 CTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTCATTTTGATCCACTTCTCTGTGTCTCAT
** * *
38617 CAGGAAGATGGATCTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGA
66 CAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATCGCTTCGA
38682 CCTG
131 CCTG
38686 C-TCTTCAGTATCTCATCAAGAAG
1 CTTC-TCAGTATCTCATCAAGAAG
38709 TTGGGGTTCG
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
133 2 0.01
134 144 0.99
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (134 bp):
CTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTCATTTTGATCCACTTCTCTGTGTCTCAT
CAAAAAGACGGATCTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATCGCTTCGA
CCTG
Found at i:50980 original size:59 final size:58
Alignment explanation
Indices: 50826--51255 Score: 279
Period size: 59 Copynumber: 7.4 Consensus size: 58
50816 GGATACTTGG
* * * * * * *
50826 GGGTAAAATGGTAAT-TTT-AAAGGTTCGGGGTCAAAAATAGAATTTTAGGACATTCAG
1 GGGTAAAATGGTAATATTTGGAA-GTTCGAGGTAAAAAATGGAATTTTTGGAAATTCAA
* * * * * *
50883 GGGTGAAATGGTGATTTTTGATAAGTTCGAGGTAAAAAATTGATATTTTTGGACATTCAA
1 GGGTAAAATGGTAATATTTG-GAAGTTCGAGGTAAAAAATGGA-ATTTTTGGAAATTCAA
* * * *
50943 AGGTAAAATGGTAATATTTGGAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATTCAG
1 GGGTAAAATGGTAATATTTGGAAGTTCGAGGTAAAAAATGGAATTTTTGGAAATTCAA
* * *
51001 GGGTAAAATGGTAA-ATTTTGGAAAGTTCGTGATAAAAAATGGAATTTTTGGAAATTCGA
1 GGGTAAAATGGTAATA-TTTGG-AAGTTCGAGGTAAAAAATGGAATTTTTGGAAATTCAA
* * * ** * *
51060 GGGTAAAAATGGTAATTTTTGGAAAGTTTTG-GGTTAAAAATGGAATTTTAAG-AGTTC-G
1 GGGT-AAAATGGTAATATTTGG-AAG-TTCGAGGTAAAAAATGGAATTTTTGGAAATTCAA
* * * * * * *
51118 GGGTAAAATGGTAATTTTTGGAGAATTTGGGGTCAAAAATGGAATTTTTTGAAATAT-AG
1 GGGTAAAATGGTAATATTTGGA-AGTTCGAGGTAAAAAATGGAATTTTTGGAAAT-TCAA
* * * * * * **
51177 GGGTAGAAAT-ATAATTTTTGGAAG-TCGAGG-GAAAAAT-GTATTTTTGTTAAGTTTGA
1 GGGTA-AAATGGTAATATTTGGAAGTTCGAGGTAAAAAATGGAATTTTTG-GAAATTCAA
* *
51233 GGGTAAAATTGTAATTTTTGGAA
1 GGGTAAAATGGTAATATTTGGAA
51256 AGTTTAGGGG
Statistics
Matches: 305, Mismatches: 50, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
55 12 0.04
56 31 0.10
57 54 0.18
58 41 0.13
59 92 0.30
60 72 0.24
61 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (58 bp):
GGGTAAAATGGTAATATTTGGAAGTTCGAGGTAAAAAATGGAATTTTTGGAAATTCAA
Found at i:50983 original size:30 final size:29
Alignment explanation
Indices: 50803--51280 Score: 239
Period size: 29 Copynumber: 16.4 Consensus size: 29
50793 AAACGGGATT
* * *
50803 AAAT-GTAAATTTTGGATACTTGGGGGT-A
1 AAATGGTAATTTTTGGA-AGTTCGGGGTAA
*
50831 AAATGGTAA-TTTT-AAAGGTTCGGGGTCAA
1 AAATGGTAATTTTTGGAA-GTTCGGGGT-AA
* * *
50860 AAATAG-AATTTTAGGACA-TTCAGGGGT-G
1 AAATGGTAATTTTTGGA-AGTTC-GGGGTAA
* * *
50888 AAATGGTGATTTTTGATAAGTTCGAGGTAAA
1 AAATGGTAATTTTTG-GAAGTTCGGGGT-AA
* **
50919 AAATTG-ATATTTTTGGACA-TTCAAAGGT-A
1 AAATGGTA-ATTTTTGGA-AGTTC-GGGGTAA
* *
50948 AAATGGTAATATTTGGAAGTTCGAGGTCAA
1 AAATGGTAATTTTTGGAAGTTCGGGGT-AA
* *
50978 AAATGG-AATTTTTGAAAATTCAGGGGT-A
1 AAATGGTAATTTTTGGAAGTTC-GGGGTAA
* * *
51006 AAATGGTAAATTTTGGAAAGTTCGTGATAAA
1 AAATGGTAATTTTTGG-AAGTTCGGGGT-AA
*
51037 AAATGG-AATTTTTGGAAATTCGAGGGTAA
1 AAATGGTAATTTTTGGAAGTTCG-GGGTAA
* *
51066 AAATGGTAATTTTTGGAAAGTTTTGGGTTAA
1 AAATGGTAATTTTTGG-AAG-TTCGGGGTAA
**
51097 AAATGG-AATTTTAAG-AGTTCGGGGT-A
1 AAATGGTAATTTTTGGAAGTTCGGGGTAA
* *
51123 AAATGGTAATTTTTGGAGAATTTGGGGTCAA
1 AAATGGTAATTTTTGGA-AGTTCGGGGT-AA
* * * *
51154 AAATGG-AATTTTTTGAAATATAGGGGTAG
1 AAATGGTAATTTTTGGAAGT-TCGGGGTAA
*
51183 AAAT-ATAATTTTTGGAAG-TCGAGGG-AA
1 AAATGGTAATTTTTGGAAGTTCG-GGGTAA
* *
51210 AAAT-GT-ATTTTTGTTAAGTTTGAGGGT-A
1 AAATGGTAATTTTTG-GAAGTTCG-GGGTAA
* *
51238 AAATTGTAATTTTTGGAAAGTTTAGGGGTAA
1 AAATGGTAATTTTTGG-AAG-TTCGGGGTAA
51269 AAAT-GTAATTTT
1 AAATGGTAATTTT
51281 AAAAAGTTTG
Statistics
Matches: 348, Mismatches: 57, Indels: 88
0.71 0.12 0.18
Matches are distributed among these distances:
26 15 0.04
27 32 0.09
28 43 0.12
29 108 0.31
30 94 0.27
31 53 0.15
32 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
AAATGGTAATTTTTGGAAGTTCGGGGTAA
Found at i:51020 original size:118 final size:114
Alignment explanation
Indices: 50827--51172 Score: 333
Period size: 118 Copynumber: 3.0 Consensus size: 114
50817 GATACTTGGG
* * * * * *
50827 GGTAAAATGGTAATTTT-AAAGGTTCGGGGTCAAAAATAGAATTTTAGGACATTCAGGGGTGAAA
1 GGTAAAATGGTAATTTTGGAA-GTTC-GGGTCAAAAATGGAATTTTTGAAAATTCAGGGGTAAAA
* * * *
50891 TGGTGATTTTTGATAAGTTCGAGGTAAAAAATTGATATTTTTGGACATTCAAA
64 TGGTAATTTTTGA-AAGTTCGAGATAAAAAATGGA-ATTTTTGGAAATTCAAA
50944 GGTAAAATGGTAATATTTGGAAGTTCGAGGTCAAAAATGGAATTTTTGAAAATTCAGGGGTAAAA
1 GGTAAAATGGTAAT-TTTGGAAGTTCG-GGTCAAAAATGGAATTTTTGAAAATTCAGGGGTAAAA
* * * *
51009 TGGTAAATTTTGGAAAGTTCGTGATAAAAAATGGAATTTTTGGAAATTCGAG
64 TGGT-AATTTTTGAAAGTTCGAGATAAAAAATGGAATTTTTGGAAATTCAAA
* * *
51061 GGTAAAAATGGTAATTTTTGGAAAGTTTTGGGTTAAAAATGGAA-TTTT-AAGAGTTC-GGGGTA
1 GGT-AAAATGGTAA-TTTTGG-AAG-TTCGGGTCAAAAATGGAATTTTTGAA-AATTCAGGGGTA
* * * * *
51123 AAATGGTAATTTTTGGAGAA-TTTGGGGTCAAAAATGGAATTTTTTGAAAT
61 AAATGGTAATTTTT-GA-AAGTTCGAGATAAAAAATGGAATTTTTGGAAAT
51173 ATAGGGGTAG
Statistics
Matches: 195, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
116 6 0.03
117 74 0.38
118 86 0.44
119 26 0.13
120 3 0.02
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (114 bp):
GGTAAAATGGTAATTTTGGAAGTTCGGGTCAAAAATGGAATTTTTGAAAATTCAGGGGTAAAATG
GTAATTTTTGAAAGTTCGAGATAAAAAATGGAATTTTTGGAAATTCAAA
Found at i:51213 original size:27 final size:29
Alignment explanation
Indices: 50896--51280 Score: 194
Period size: 30 Copynumber: 13.2 Consensus size: 29
50886 TGAAATGGTG
*
50896 ATTTTTGATAAGTTCGA-GGTAAAAAAT-TGA
1 ATTTTTG-GAAGTTCGAGGGT-AAAAATGT-A
* *
50926 TATTTTTGGACA-TTCAAAGGT-AAAATGGTA
1 -ATTTTTGGA-AGTTCGAGGGTAAAAAT-GTA
* *
50956 ATATTTGGAAGTTCGA-GGTCAAAAATGGA
1 ATTTTTGGAAGTTCGAGGGT-AAAAATGTA
* *
50985 ATTTTTGAAAATTC-AGGGGT-AAAATGGTA
1 ATTTTTGGAAGTTCGA-GGGTAAAAAT-GTA
* * * *
51014 AATTTTGGAAAGTTCG-TGATAAAAAATGGA
1 ATTTTTGG-AAGTTCGAGGGT-AAAAATGTA
*
51044 ATTTTTGGAAATTCGAGGGTAAAAATGGTA
1 ATTTTTGGAAGTTCGAGGGTAAAAAT-GTA
* * *
51074 ATTTTTGGAAAGTTTTG-GGTTAAAAATGGA
1 ATTTTTGG-AAG-TTCGAGGGTAAAAATGTA
**
51104 ATTTTAAG-AGTTCG-GGGT-AAAATGGTA
1 ATTTTTGGAAGTTCGAGGGTAAAAAT-GTA
* * *
51131 ATTTTTGGAGAATTTG-GGGTCAAAAATGGA
1 ATTTTTGGA-AGTTCGAGGGT-AAAAATGTA
* * * * *
51161 ATTTTTTGAAATATAG-GGGTAGAAATATA
1 ATTTTTGGAAGT-TCGAGGGTAAAAATGTA
51190 ATTTTTGGAAG-TCGAGGG-AAAAATGT-
1 ATTTTTGGAAGTTCGAGGGTAAAAATGTA
* * *
51216 ATTTTTGTTAAGTTTGAGGGTAAAATTGTA
1 ATTTTTG-GAAGTTCGAGGGTAAAAATGTA
*
51246 ATTTTTGGAAAGTT-TAGGGGTAAAAATGTA
1 ATTTTTGG-AAGTTCGA-GGGTAAAAATGTA
51276 ATTTT
1 ATTTT
51281 AAAAAGTTTG
Statistics
Matches: 273, Mismatches: 50, Indels: 63
0.71 0.13 0.16
Matches are distributed among these distances:
26 12 0.04
27 25 0.09
28 21 0.08
29 86 0.32
30 93 0.34
31 33 0.12
32 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
ATTTTTGGAAGTTCGAGGGTAAAAATGTA
Found at i:51291 original size:59 final size:59
Alignment explanation
Indices: 50944--51300 Score: 253
Period size: 59 Copynumber: 6.1 Consensus size: 59
50934 GACATTCAAA
* * * *
50944 GGTAAAATGGTAATATTTGG-AAG-TTCGAGGTCAAAAATGGAATTTTTGAAAA--TTCAGG
1 GGTAAAATGGTAATTTTTGGAAAGTTTAGGGGT-AAAAATGGAA-TTTTGAAAAGTTTGA-G
* * * * * *
51002 GGTAAAATGGTAAATTTTGGAAAG-TTCGTGATAAAAAATGGAATTTTTGGAAA-TTCGAG
1 GGTAAAATGGTAATTTTTGGAAAGTTTAGGGGT-AAAAATGGAA-TTTTGAAAAGTTTGAG
* * * *
51061 GGTAAAAATGGTAATTTTTGGAAAGTTTTGGGTTAAAAATGGAATTTT-AAGAGTTCG-G
1 GGT-AAAATGGTAATTTTTGGAAAGTTTAGGGGTAAAAATGGAATTTTGAAAAGTTTGAG
*
51119 GGTAAAATGGTAATTTTTGGAGAA-TTT-GGGGTCAAAAATGGAATTTTTTG-AAA-TAT-AGG
1 GGTAAAATGGTAATTTTTGGA-AAGTTTAGGGGT-AAAAATGGAA--TTTTGAAAAGTTTGA-G
* ** * * **
51178 GGTAGAAAT-ATAATTTTTGG-AAGTCGA-GGG-AAAAATGTATTTTTGTTAAGTTTGAG
1 GGTA-AAATGGTAATTTTTGGAAAGTTTAGGGGTAAAAATGGAATTTTGAAAAGTTTGAG
* * *
51234 GGTAAAATTGTAATTTTTGGAAAGTTTAGGGGTAAAAATGTAATTTTAAAAAGTTTGAG
1 GGTAAAATGGTAATTTTTGGAAAGTTTAGGGGTAAAAATGGAATTTTGAAAAGTTTGAG
51293 GGTCAAAA
1 GGT-AAAA
51301 ATTTGAGTTT
Statistics
Matches: 244, Mismatches: 32, Indels: 44
0.76 0.10 0.14
Matches are distributed among these distances:
54 5 0.02
55 6 0.02
56 29 0.12
57 39 0.16
58 34 0.14
59 86 0.35
60 40 0.16
61 5 0.02
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (59 bp):
GGTAAAATGGTAATTTTTGGAAAGTTTAGGGGTAAAAATGGAATTTTGAAAAGTTTGAG
Found at i:53038 original size:12 final size:12
Alignment explanation
Indices: 53021--53049 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
53011 TGGAGGCAAC
53021 AGCAGTAACAAT
1 AGCAGTAACAAT
53033 AGCAGTAACAAT
1 AGCAGTAACAAT
53045 AGCAG
1 AGCAG
53050 ATTAGGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (12 bp):
AGCAGTAACAAT
Found at i:53278 original size:17 final size:15
Alignment explanation
Indices: 53253--53325 Score: 55
Period size: 17 Copynumber: 4.7 Consensus size: 15
53243 TAATTTAATA
*
53253 TTAAGTTTAAAACCAT
1 TTAAATTTAAAA-CAT
53269 TTCAAATTTAACTAA-AT
1 TT-AAATTTAA--AACAT
53286 TTAAATTTAAAACAAAT
1 TTAAATTTAAAAC--AT
53303 TTAAATTTAAAA-A-
1 TTAAATTTAAAACAT
53316 -TAAATTTAAA
1 TTAAATTTAAA
53326 TTTAAAAACA
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
12 10 0.20
14 3 0.06
16 10 0.20
17 25 0.50
19 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (15 bp):
TTAAATTTAAAACAT
Found at i:53292 original size:6 final size:6
Alignment explanation
Indices: 53281--53331 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
53271 CAAATTTAAC
* * **
53281 TAAATT TAAATT TAAA-A CAAATT TAAATT TAAAAA TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
53328 TAAA
1 TAAA
53332 AACAAATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
5 3 0.08
6 33 0.92
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (6 bp):
TAAATT
Found at i:53332 original size:17 final size:18
Alignment explanation
Indices: 53282--53343 Score: 108
Period size: 18 Copynumber: 3.5 Consensus size: 18
53272 AAATTTAACT
53282 AAATTTAAATTT-AAAAC
1 AAATTTAAATTTAAAAAC
*
53299 AAATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAC
53317 AAATTTAAATTTAAAAAC
1 AAATTTAAATTTAAAAAC
53335 AAATTTAAA
1 AAATTTAAA
53344 ATCAATTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
17 12 0.29
18 30 0.71
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTTAAATTTAAAAAC
Found at i:53350 original size:11 final size:11
Alignment explanation
Indices: 53324--53370 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
53314 AATAAATTTA
*
53324 AATTTAAAAAC
1 AATTTAAAATC
53335 AAATTTAAAATC
1 -AATTTAAAATC
* *
53347 AATTTAAACTT
1 AATTTAAAATC
53358 AATTTAAAATC
1 AATTTAAAATC
53369 AA
1 AA
53371 AAGTTTGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (11 bp):
AATTTAAAATC
Found at i:55434 original size:3 final size:3
Alignment explanation
Indices: 55426--55455 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
55416 GGTCATCCCT
*
55426 TTC TTC TTC TTC TTC TTC TTC TTC TGC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
55456 AATATCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:59880 original size:200 final size:200
Alignment explanation
Indices: 59537--59933 Score: 767
Period size: 200 Copynumber: 2.0 Consensus size: 200
59527 TGTGCTCTCA
*
59537 TTATCCTCCGTGATTACCCCCTCTTTGACCAACTGACACCATACTCATTGGAGTGGAGACTTGAC
1 TTATCCTCCGTGATTACCCCCTCTTTGACCAACTGACACCATACCCATTGGAGTGGAGACTTGAC
*
59602 TTCTTTAACATTTGTTTTGATTTTCTGGCCTCTTCCTTCCATTAAGGCGTTCACTCCCTACTCCG
66 TTCTTTAACATTTGTTTTGATTTTCTGGCCTCTTCCTTCCATCAAGGCGTTCACTCCCTACTCCG
59667 GGTAATTGGGCAAGGGATTCCAAACTATGTTGGGTTTCATTGGTTCTTCCAATCTCACGATTCCA
131 GGTAATTGGGCAAGGGATTCCAAACTATGTTGGGTTTCATTGGTTCTTCCAATCTCACGATTCCA
59732 TGTCC
196 TGTCC
59737 TTATCCTCCGTGATTACCCCCTCTTTGACCAACTGACACCATACCCATTGGAGTGGAGACTTGAC
1 TTATCCTCCGTGATTACCCCCTCTTTGACCAACTGACACCATACCCATTGGAGTGGAGACTTGAC
59802 TTCTTTAACATTTGTTTTGATTTTCTGGCCTCTTCCTTCCATCAAGGCGTTCACTCCCTACTCCG
66 TTCTTTAACATTTGTTTTGATTTTCTGGCCTCTTCCTTCCATCAAGGCGTTCACTCCCTACTCCG
*
59867 GGTAATTGGGCAAGGGATTCCCAACTATGTTGGGTTTCATTGGTTCTTCCAATCTCACGATTCCA
131 GGTAATTGGGCAAGGGATTCCAAACTATGTTGGGTTTCATTGGTTCTTCCAATCTCACGATTCCA
59932 TG
196 TG
59934 CTCAATGAGT
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 194 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (200 bp):
TTATCCTCCGTGATTACCCCCTCTTTGACCAACTGACACCATACCCATTGGAGTGGAGACTTGAC
TTCTTTAACATTTGTTTTGATTTTCTGGCCTCTTCCTTCCATCAAGGCGTTCACTCCCTACTCCG
GGTAATTGGGCAAGGGATTCCAAACTATGTTGGGTTTCATTGGTTCTTCCAATCTCACGATTCCA
TGTCC
Found at i:62593 original size:54 final size:54
Alignment explanation
Indices: 62506--62613 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
62496 CCAAGATTTT
62506 TCGAATCCTTTTCTTATTATTTTCTCCTCGGTATGTGAATTCACACTGAGCTAA
1 TCGAATCCTTTTCTTATTATTTTCTCCTCGGTATGTGAATTCACACTGAGCTAA
*
62560 TCGATTCCTTTTCTTATTATTTTCTCCTCGGTATGTGAATTCACACTGAGCTAA
1 TCGAATCCTTTTCTTATTATTTTCTCCTCGGTATGTGAATTCACACTGAGCTAA
62614 CCCTTGAGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (54 bp):
TCGAATCCTTTTCTTATTATTTTCTCCTCGGTATGTGAATTCACACTGAGCTAA
Found at i:64985 original size:97 final size:97
Alignment explanation
Indices: 64797--64973 Score: 284
Period size: 97 Copynumber: 1.8 Consensus size: 97
64787 AACCTTGGAA
*
64797 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCGCGACTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGACTAGTAAGTTAAGGCACAAATTTTCA
*
64862 AAACCAGAGATAAAGAAATATTGCCTCGTTTT
66 AAACCAGAAATAAAGAAATATTGCCTCGTTTT
* * *
64894 AAGGGTATTCGATTATCTCGGTTTGAAGAAAAATCGTG-CATAGTAAGTTAAGGCACAAATTTTC
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGAC-TAGTAAGTTAAGGCACAAATTTTC
*
64958 AAAACCCGAAATAAAG
65 AAAACCAGAAATAAAG
64974 GACTTTCGCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
96 1 0.01
97 72 0.99
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGACTAGTAAGTTAAGGCACAAATTTTCA
AAACCAGAAATAAAGAAATATTGCCTCGTTTT
Found at i:65442 original size:29 final size:29
Alignment explanation
Indices: 65262--65656 Score: 244
Period size: 29 Copynumber: 13.5 Consensus size: 29
65252 TTTAGCGGGT
* * * *
65262 AAAAATGTCATTTTGGGAAGATTTGA-GGT
1 AAAAATGTAATTTTTGGAAG-TTCGAGGGA
* * ** *
65291 AAAAACGTGATTTTTGGAAGTTTAAGGGC
1 AAAAATGTAATTTTTGGAAGTTCGAGGGA
* * *
65320 AAAAATGTGATTTTTAGAAGATCGAGGG-
1 AAAAATGTAATTTTTGGAAGTTCGAGGGA
*
65348 AAAAATGTAATTTTTAGAAGTTCGAGGGA
1 AAAAATGTAATTTTTGGAAGTTCGAGGGA
* * *** *
65377 AAAAATGTAATTTTTTTGATAATTTTTGTGGC
1 AAAAATGTAA-TTTTTGGA-AGTTCGAG-GGA
* *
65409 AAAAATGCAATTTTTGGAAGTTCAAGGGA
1 AAAAATGTAATTTTTGGAAGTTCGAGGGA
** * *
65438 AAAAATACAATTTTTTGAAGTTCGAGGGT
1 AAAAATGTAATTTTTGGAAGTTCGAGGGA
* ** * *
65467 AAAAATATAATTTTTACAAAGTT-TAGGGC
1 AAAAATGTAATTTTT-GGAAGTTCGAGGGA
* * * * *
65496 TAAAATGTAAATTTAGGAAGTTTG-GGAGC
1 AAAAATGTAATTTTTGGAAGTTCGAGG-GA
* *
65525 AAAAATGTAATTTTTGGAAGTTCAAGAGA
1 AAAAATGTAATTTTTGGAAGTTCGAGGGA
* *
65554 CAAAA-GTAATTTTTTAGAAGTTCGA-GGA
1 AAAAATGTAA-TTTTTGGAAGTTCGAGGGA
* * * ***
65582 CAAAAATGTAATTTTAGAAAAGTTTGAGATT
1 -AAAAATGTAATTTTTG-GAAGTTCGAGGGA
* *
65613 AAAAATGTAATTTTTGGAAGTTCGGGGGC
1 AAAAATGTAATTTTTGGAAGTTCGAGGGA
65642 AAAAATGTAATTTTT
1 AAAAATGTAATTTTT
65657 TGAAAGGTCA
Statistics
Matches: 285, Mismatches: 67, Indels: 28
0.75 0.18 0.07
Matches are distributed among these distances:
28 43 0.15
29 177 0.62
30 43 0.15
31 11 0.04
32 11 0.04
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTCGAGGGA
Found at i:65465 original size:90 final size:89
Alignment explanation
Indices: 65317--65481 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 89
65307 GAAGTTTAAG
** * **
65317 GGCAAAAATGTGATTTTTAGAAGATCGAGGGAAAAATGTAATTTTTAGAAGTTCGAGGGAAAAAA
1 GGCAAAAATGCAATTTTTAGAAGATCAAGGGAAAAATACAATTTTTAGAAGTTCGAGGGAAAAAA
*
65382 TGTAATTTTTTTGATAATTTTTGT
66 TATAATTTTTTTGATAATTTTTGT
* * * *
65406 GGCAAAAATGCAATTTTTGGAAGTTCAAGGGAAAAAATACAATTTTTTGAAGTTCGAGGGTAAAA
1 GGCAAAAATGCAATTTTTAGAAGATCAAGGG-AAAAATACAATTTTTAGAAGTTCGAGGGAAAAA
65471 ATATAATTTTT
65 ATATAATTTTT
65482 ACAAAGTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
89 26 0.40
90 39 0.60
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (89 bp):
GGCAAAAATGCAATTTTTAGAAGATCAAGGGAAAAATACAATTTTTAGAAGTTCGAGGGAAAAAA
TATAATTTTTTTGATAATTTTTGT
Found at i:65568 original size:116 final size:117
Alignment explanation
Indices: 65407--65656 Score: 310
Period size: 116 Copynumber: 2.1 Consensus size: 117
65397 AATTTTTGTG
* * * **
65407 GCAAAAATGCAATTTTTGGAAGTTCAAGGGAAAAAATACAATTTTTTGAAGTTCGAGGGTAAAAA
1 GCAAAAATGTAATTTTTGGAAGTTCAAGAGAAAAAATACAATTTTTAGAAGTTCGAGGACAAAAA
* * *
65472 TATAATTTTTA-CAAAGTTT-AGGGCT-AAAATGTAAATTTAGGAAGTTTGGGA
66 TATAA-TTTTAGAAAAGTTTGA-GACTAAAAATGTAAATTTAGGAAGTTCGGGA
* *
65523 GCAAAAATGTAATTTTTGGAAGTTCAAGAGACAAAAGTA-ATTTTTTAGAAGTTCGAGGACAAAA
1 GCAAAAATGTAATTTTTGGAAGTTCAAGAGA-AAAAATACAATTTTTAGAAGTTCGAGGACAAAA
* * * * *
65587 ATGTAATTTTAGAAAAGTTTGAGATTAAAAATGTAATTTTTGGAAGTTCGGGG
65 ATATAATTTTAGAAAAGTTTGAGACTAAAAATGTAAATTTAGGAAGTTCGGGA
65640 GCAAAAATGTAATTTTT
1 GCAAAAATGTAATTTTT
65657 TGAAAGGTCA
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
115 5 0.04
116 64 0.56
117 46 0.40
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (117 bp):
GCAAAAATGTAATTTTTGGAAGTTCAAGAGAAAAAATACAATTTTTAGAAGTTCGAGGACAAAAA
TATAATTTTAGAAAAGTTTGAGACTAAAAATGTAAATTTAGGAAGTTCGGGA
Found at i:66516 original size:22 final size:22
Alignment explanation
Indices: 66491--66533 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
66481 CATTTATTAT
66491 TATTATTATTA-TTATTTAATTC
1 TATTATTATTATTTA-TTAATTC
*
66513 TATTTTTATTATTTATTAATT
1 TATTATTATTATTTATTAATT
66534 AATATTACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTATTATTATTTATTAATTC
Found at i:67211 original size:17 final size:17
Alignment explanation
Indices: 67185--67291 Score: 70
Period size: 17 Copynumber: 6.8 Consensus size: 17
67175 CATTTTTTAA
67185 TTAAATTTTAAAATAAAT
1 TTAAA-TTTAAAATAAAT
*
67203 TTAAATTTAAAATAAAC
1 TTAAATTTAAAATAAAT
* *
67220 TGAAA-CT---A-AAAT
1 TTAAATTTAAAATAAAT
*
67232 TT-AATTT-AAAT--TT
1 TTAAATTTAAAATAAAT
*
67245 TTAAATTTATAATAAAT
1 TTAAATTTAAAATAAAT
* *
67262 CTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
67279 TAAAATTTAAAAT
1 TTAAATTTAAAAT
67292 TTGGGCTTAG
Statistics
Matches: 66, Mismatches: 15, Indels: 17
0.67 0.15 0.17
Matches are distributed among these distances:
11 2 0.03
12 5 0.08
13 4 0.06
14 6 0.09
15 3 0.05
16 1 0.02
17 40 0.61
18 5 0.08
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:67285 original size:42 final size:42
Alignment explanation
Indices: 67202--67286 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
67192 TTAAAATAAA
* *
67202 TTTAAATTTAAAATAAACTGAAACTAAAATTTAATTTAAATT
1 TTTAAATTTAAAATAAACTGAAACTAAAATTAAATTAAAATT
*
67244 TTTAAATTTATAATAAATCT-AAACTTAAAA-TAAATTAAAATT
1 TTTAAATTTAAAATAAA-CTGAAAC-TAAAATTAAATTAAAATT
67286 T
1 T
67287 AAAATTTGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 31 0.82
43 7 0.18
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (42 bp):
TTTAAATTTAAAATAAACTGAAACTAAAATTAAATTAAAATT
Found at i:67338 original size:2 final size:2
Alignment explanation
Indices: 67331--67373 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
67321 GGGCTCCAAC
67331 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
67373 A
1 A
67374 ATTCTTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73966 original size:24 final size:24
Alignment explanation
Indices: 73937--73987 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
73927 AATATTTAAA
*
73937 TAAAACAATTAAAAATACAATATC
1 TAAAACAATTAAAAATACAAAATC
*
73961 TAAAACAATTCAAAATACAAAATC
1 TAAAACAATTAAAAATACAAAATC
73985 TAA
1 TAA
73988 GGAATTAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.24
Consensus pattern (24 bp):
TAAAACAATTAAAAATACAAAATC
Found at i:74275 original size:21 final size:21
Alignment explanation
Indices: 74249--74301 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
74239 TCTTTTAATT
74249 ATTTAATTATTAAAATTTTTA
1 ATTTAATTATTAAAATTTTTA
* *
74270 ATTTAATTATTTAATTTTTTA
1 ATTTAATTATTAAAATTTTTA
* *
74291 AATTAAATATT
1 ATTTAATTATT
74302 TTAGTTACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAATTATTAAAATTTTTA
Found at i:76014 original size:20 final size:20
Alignment explanation
Indices: 75968--76014 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
75958 AAGATGACTT
*
75968 TATAAAA-ATTTTATAAAAT
1 TATAAAAGATTTTATAAAAA
* *
75987 TATTAAAGATTTTTTAAAAA
1 TATAAAAGATTTTATAAAAA
76007 TATAAAAG
1 TATAAAAG
76015 TATTAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TATAAAAGATTTTATAAAAA
Found at i:76850 original size:32 final size:31
Alignment explanation
Indices: 76809--76868 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
76799 ATCGTAAAAA
76809 AATGATTGTTTTATCATATTTTCGATAACATT
1 AATGATTGTTTTATCAT-TTTTCGATAACATT
* *
76841 AATGATTGTTTTGTCATTTTTTGATAAC
1 AATGATTGTTTTATCATTTTTCGATAAC
76869 GTTGGTGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (31 bp):
AATGATTGTTTTATCATTTTTCGATAACATT
Found at i:76882 original size:31 final size:32
Alignment explanation
Indices: 76809--76894 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
76799 ATCGTAAAAA
* *
76809 AATGATTGTTTTATCATATTTTCGATAACATT
1 AATGACTGTTTTGTCATATTTTCGATAACATT
* * *
76841 AATGATTGTTTTGTCAT-TTTTTGATAACGTT
1 AATGACTGTTTTGTCATATTTTCGATAACATT
** *
76872 GGTGACTGTTTTGTCACATTTTC
1 AATGACTGTTTTGTCATATTTTC
76895 AAAGTTGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
31 25 0.56
32 20 0.44
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (32 bp):
AATGACTGTTTTGTCATATTTTCGATAACATT
Done.