Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 75 of 292
Found at i:22948118 original size:28 final size:29
Alignment explanation
Indices: 22948043--22948120 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 29
22948033 TATGGATGTG
* *
22948043 ATTTGGGCCTAATGGGCCATACGAATTTA
1 ATTTGGGCCTAATGGGCCATATGAATTGA
*
22948072 ATTTGGGCC-AATGGACCATATGAA-TGA
1 ATTTGGGCCTAATGGGCCATATGAATTGA
*
22948099 GA-TTGGGCCTAGTGGGCCATAT
1 -ATTTGGGCCTAATGGGCCATAT
22948121 ACATGTATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 9 0.21
28 24 0.57
29 9 0.21
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
ATTTGGGCCTAATGGGCCATATGAATTGA
Found at i:22949277 original size:17 final size:18
Alignment explanation
Indices: 22949244--22949277 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22949234 TTTAAGGAAG
22949244 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
22949262 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
22949278 CTTCAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:22951054 original size:15 final size:14
Alignment explanation
Indices: 22951034--22951063 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
22951024 GATATGTTTC
22951034 AAATTACTGTGAATA
1 AAATTACTGT-AATA
22951049 AAATTACTGTAATA
1 AAATTACTGTAATA
22951063 A
1 A
22951064 GTCTATTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
AAATTACTGTAATA
Found at i:22955925 original size:40 final size:40
Alignment explanation
Indices: 22955865--22956032 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
22955855 TCGGATTTAA
* ** *
22955865 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
22955905 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
22955945 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
22955985 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
22956025 CCGGATAT
1 CCGGATAT
22956033 CATTCAAATG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 104 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:22956012 original size:80 final size:80
Alignment explanation
Indices: 22955865--22956032 Score: 212
Period size: 80 Copynumber: 2.1 Consensus size: 80
22955855 TCGGATTTAA
* * ** * *
22955865 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
22955930 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * *
22955945 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
22956009 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
22956025 CCGGATAT
1 CCGGATAT
22956033 CATTCAAATG
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
80 73 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:22964014 original size:40 final size:40
Alignment explanation
Indices: 22963954--22964116 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
22963944 CGGGATTTAA
* ** *
22963954 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
22963994 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
22964034 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
22964074 CCGGATATAATC-ACTAGCATAAATGCCTTC-GGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
22964113 CCGG
1 CCGG
22964117 GTATCATTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
39 14 0.13
40 87 0.84
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:22964101 original size:80 final size:79
Alignment explanation
Indices: 22963954--22964116 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 79
22963944 CGGGATTTAA
* * ** * *
22963954 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
22964019 CCTTCGGGTCTTAGC
66 CCTTC-GGACTTAGC
** * * *
22964034 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
22964098 GCCTTCGGACTTAGC
65 GCCTTCGGACTTAGC
22964113 CCGG
1 CCGG
22964117 GTATCATTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 12 0.17
80 56 0.80
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGACTTAGC
Found at i:22971926 original size:37 final size:37
Alignment explanation
Indices: 22971836--22971996 Score: 146
Period size: 39 Copynumber: 4.2 Consensus size: 37
22971826 AAATTGAATG
* * *
22971836 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGGTGG---TT
* *
22971875 ATATCCGGGTTAAGACCCGAAGGCAATTGTGGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGGTGGTT
* *
22971912 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTG-GTG-GTT
* * **
22971951 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTG-GTGGTT
22971989 ATATCCGG
1 ATATCCGG
22971997 TTATATTCCG
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
36 3 0.03
37 27 0.26
38 11 0.11
39 42 0.41
40 19 0.19
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (37 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGGTGGTT
Found at i:22973713 original size:40 final size:39
Alignment explanation
Indices: 22973668--22973875 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
22973658 CGGAATACAA
*
22973668 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
22973708 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
22973748 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
22973788 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
22973828 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
22973868 CCGGATAT
1 CCGGATAT
22973876 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:22973808 original size:80 final size:80
Alignment explanation
Indices: 22973668--22973874 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
22973658 CGGAATACAA
* * *
22973668 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
22973732 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
22973748 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
22973812 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
22973828 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
22973875 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:22990652 original size:25 final size:25
Alignment explanation
Indices: 22990623--22990672 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
22990613 AAGCATACAT
22990623 AAATTTACATTCCATCGATTTTGGG
1 AAATTTACATTCCATCGATTTTGGG
22990648 AAATTTACATTCCATCGATTTTGGG
1 AAATTTACATTCCATCGATTTTGGG
22990673 TAAGTTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (25 bp):
AAATTTACATTCCATCGATTTTGGG
Found at i:22990680 original size:25 final size:25
Alignment explanation
Indices: 22990627--22990680 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
22990617 ATACATAAAT
*
22990627 TTACATTCCATCGATTTTGGGAAAT
1 TTACATTCCATCGATTTTGGGAAAG
*
22990652 TTACATTCCATCGATTTTGGGTAAG
1 TTACATTCCATCGATTTTGGGAAAG
22990677 TTAC
1 TTAC
22990681 TTAAACACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (25 bp):
TTACATTCCATCGATTTTGGGAAAG
Found at i:22993312 original size:18 final size:17
Alignment explanation
Indices: 22993280--22993313 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22993270 AAATTGGACA
22993280 GTGTGAGCCACACGGGT
1 GTGTGAGCCACACGGGT
*
22993297 GTGTGGGCCTACACGGG
1 GTGTGAGCC-ACACGGG
22993314 CAAGCCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.24, G:0.44, T:0.18
Consensus pattern (17 bp):
GTGTGAGCCACACGGGT
Found at i:22994055 original size:6 final size:6
Alignment explanation
Indices: 22994039--22994076 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
22994029 TGAGTATTGG
*
22994039 TTTTAT TTTTTT ATTTTAT TTTTAT TTTTA- TTTTAT TT
1 TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TT
22994077 GGTTAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:23001049 original size:19 final size:19
Alignment explanation
Indices: 23001027--23001065 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23001017 TCATCTCATA
23001027 AACTCAGAATCAACTAATG
1 AACTCAGAATCAACTAATG
* *
23001046 AACTTAGAATCAACTCATG
1 AACTCAGAATCAACTAATG
23001065 A
1 A
23001066 GTTCAGACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (19 bp):
AACTCAGAATCAACTAATG
Found at i:23003102 original size:108 final size:108
Alignment explanation
Indices: 23002913--23003125 Score: 408
Period size: 108 Copynumber: 2.0 Consensus size: 108
23002903 ATATAATTTT
* *
23002913 CTCTAAGCTTGGTCCAATACAAATGCGTTCGGCACTTACGCCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGCCCAATACAAATGCGTTCGGCACTTACGCCTATACAACGCCTCATAAGGTGCC
23002978 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACTACA
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACTACA
23003021 CTCTAAGCTCGGCCCAATACAAATGCGTTCGGCACTTACGCCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGCCCAATACAAATGCGTTCGGCACTTACGCCTATACAACGCCTCATAAGGTGCC
23003086 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACT
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACT
23003126 CCACCAGCGG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (108 bp):
CTCTAAGCTCGGCCCAATACAAATGCGTTCGGCACTTACGCCTATACAACGCCTCATAAGGTGCC
ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACTACA
Found at i:23010358 original size:14 final size:14
Alignment explanation
Indices: 23010339--23010368 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23010329 TATTTATGTA
23010339 TGATTACTGTTAGT
1 TGATTACTGTTAGT
23010353 TGATTACTGTTAGT
1 TGATTACTGTTAGT
23010367 TG
1 TG
23010369 CATATAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.23, T:0.50
Consensus pattern (14 bp):
TGATTACTGTTAGT
Found at i:23017482 original size:40 final size:40
Alignment explanation
Indices: 23017374--23017557 Score: 318
Period size: 40 Copynumber: 4.6 Consensus size: 40
23017364 CGGATGATAA
* *
23017374 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
23017414 CCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23017453 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23017493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23017533 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23017558 AGCAAGTAGT
Statistics
Matches: 139, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
39 35 0.25
40 104 0.75
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23017505 original size:79 final size:80
Alignment explanation
Indices: 23017370--23017557 Score: 326
Period size: 79 Copynumber: 2.4 Consensus size: 80
23017360 TATTCGGATG
*
23017370 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCC-AAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA
23017434 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
23017449 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGC
23017513 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
23017529 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
23017558 AGCAAGTAGT
Statistics
Matches: 103, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
78 2 0.02
79 52 0.50
80 49 0.48
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:23017572 original size:80 final size:79
Alignment explanation
Indices: 23017370--23017589 Score: 311
Period size: 79 Copynumber: 2.8 Consensus size: 79
23017360 TATTCGGATG
* *
23017370 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCC-AAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
23017433 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * *
23017449 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
23017514 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * *
23017529 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
23017590 ATGCTTGGGT
Statistics
Matches: 129, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 68 0.53
80 61 0.47
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:23017856 original size:22 final size:21
Alignment explanation
Indices: 23017815--23017858 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
23017805 GAATGTGCAT
23017815 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
23017837 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
23017859 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:23025422 original size:40 final size:40
Alignment explanation
Indices: 23025363--23025546 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
23025353 CGGATGATAA
* *
23025363 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
23025403 CCGAGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23025443 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23025483 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23025523 CCGGGCTAAGTCCCGAAGGTATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
23025547 TAGCAAGTAG
Statistics
Matches: 135, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 134 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23025847 original size:22 final size:21
Alignment explanation
Indices: 23025806--23025849 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
23025796 GAATGTGCAT
23025806 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
23025828 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
23025850 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:23036438 original size:5 final size:5
Alignment explanation
Indices: 23036428--23036454 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23036418 GATGCCAACC
23036428 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
23036455 TTTATCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:23037704 original size:21 final size:22
Alignment explanation
Indices: 23037666--23037710 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23037656 AGACTAAACC
23037666 AAAAACTCAAGAAA-TTTTCAA
1 AAAAACTCAAGAAATTTTTCAA
*
23037687 AAAAACT-TAGAAATTTTTTCAA
1 AAAAACTCAAGAAA-TTTTTCAA
23037709 AA
1 AA
23037711 TACAGGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAAACTCAAGAAATTTTTCAA
Found at i:23040646 original size:27 final size:27
Alignment explanation
Indices: 23040610--23040673 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
23040600 GTCTTTGAAT
23040610 TTTGATGAAATGAGCTATTTG-GGGA-TAA
1 TTTG-TGAAATGAG-T-TTTGAGGGACTAA
23040638 TTTGTGAAAATGAGTTTTGAGGGACTAA
1 TTTGTG-AAATGAGTTTTGAGGGACTAA
*
23040666 ATTGTGAA
1 TTTGTGAA
23040674 TTAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.12
27 9 0.28
28 19 0.59
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTGTGAAATGAGTTTTGAGGGACTAA
Found at i:23040648 original size:28 final size:28
Alignment explanation
Indices: 23040617--23040673 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
23040607 AATTTTGATG
*
23040617 AAATGAGCTATTTG-GGGA-TAATTTGTGA
1 AAATGAG-T-TTTGAGGGACTAAATTGTGA
23040645 AAATGAGTTTTGAGGGACTAAATTGTGA
1 AAATGAGTTTTGAGGGACTAAATTGTGA
23040673 A
1 A
23040674 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 5 0.19
28 17 0.65
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (28 bp):
AAATGAGTTTTGAGGGACTAAATTGTGA
Found at i:23046506 original size:11 final size:11
Alignment explanation
Indices: 23046490--23046514 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23046480 TTACTAGATA
23046490 TCATTTAAAAC
1 TCATTTAAAAC
23046501 TCATTTAAAAC
1 TCATTTAAAAC
23046512 TCA
1 TCA
23046515 AAGAAAGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (11 bp):
TCATTTAAAAC
Found at i:23052167 original size:46 final size:46
Alignment explanation
Indices: 23052095--23052248 Score: 179
Period size: 46 Copynumber: 3.3 Consensus size: 46
23052085 TGTAACCCGC
* *
23052095 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
* *
23052141 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TTGCAT
* * **
23052191 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
23052234 CCATAAGTGAACTCG
1 CCATAAGTGAACTCG
23052249 CCCAAATATC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.06
44 1 0.01
45 3 0.03
46 43 0.48
47 29 0.32
48 3 0.03
49 1 0.01
50 5 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTTGCAT
Found at i:23055969 original size:40 final size:40
Alignment explanation
Indices: 23055833--23055986 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
23055823 GTGTGCATGA
* *
23055833 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
23055873 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
23055913 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
23055953 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
23055987 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:23064161 original size:40 final size:40
Alignment explanation
Indices: 23064025--23064178 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
23064015 GTGTGCATGA
* *
23064025 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
23064065 GCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
23064105 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
23064145 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
23064179 CTTGGTGCGG
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:23066290 original size:30 final size:30
Alignment explanation
Indices: 23066246--23066334 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
23066236 CAAAGATAAC
23066246 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
23066275 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * * *
23066305 AAGAGATCTAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
23066335 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:23066294 original size:15 final size:15
Alignment explanation
Indices: 23066246--23066325 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
23066236 CAAAGATAAC
*
23066246 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
23066260 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
23066275 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
23066290 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
23066305 AAGAGATCTAGGATA
1 AAGAAATCCAGAATA
23066320 AAGAAA
1 AAGAAA
23066326 CCCAAGATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 9 0.17
15 44 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:23066334 original size:15 final size:15
Alignment explanation
Indices: 23066257--23066334 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
23066247 AGAAAACCGA
23066257 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
23066272 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
23066286 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
23066301 AATAAAGAGATCTAGG
1 -ATAAAGAAATCCAAG
*
23066317 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
23066332 ATA
1 ATA
23066335 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:23068604 original size:40 final size:40
Alignment explanation
Indices: 23068559--23068725 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
23068549 CGGAATATAA
23068559 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
23068599 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
23068639 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23068679 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
23068718 CCGGATAT
1 CCGGATAT
23068726 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23072523 original size:46 final size:45
Alignment explanation
Indices: 23072451--23072623 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
23072441 TGTAACCCAC
*
23072451 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* *
23072497 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
23072547 -C-TCA-CGAACTCGGACTCAA--CAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
23072588 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
23072624 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
41 6 0.06
42 2 0.02
43 2 0.02
44 14 0.13
45 12 0.11
46 46 0.43
47 14 0.13
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:23072616 original size:91 final size:92
Alignment explanation
Indices: 23072459--23072628 Score: 279
Period size: 91 Copynumber: 1.8 Consensus size: 92
23072449 ACCCATAAGT
* * *
23072459 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAC-CAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23072524 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
23072552 GAACTCGGACTCAA-CAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
23072616 GAGTTCGGATGCC
66 GAGTTCGGATGCC
23072629 CAAATATCCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 58 0.81
93 14 0.19
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23072643 original size:46 final size:46
Alignment explanation
Indices: 23072502--23072643 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
23072492 CGCATCCATG
* * *
23072502 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
23072550 A-CGAACTCGGACTCAA--CAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
23072593 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
23072639 AGTGA
1 AGTGA
23072644 CATGTCACTT
Statistics
Matches: 73, Mismatches: 10, Indels: 24
0.68 0.09 0.22
Matches are distributed among these distances:
39 1 0.01
41 4 0.05
43 1 0.01
44 14 0.19
45 13 0.18
46 18 0.25
47 14 0.19
48 5 0.07
50 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:23076065 original size:40 final size:40
Alignment explanation
Indices: 23075986--23076151 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
23075976 AACCCAAGTA
* * * *
23075986 CCTTCGGAATTTAG-CCGGATATA-GCAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGGC-ACTAGCACAAATG
*
23076025 CCTTCGGGACTTAGCCCGGACATAGGCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
* *
23076065 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
**
23076105 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
23076145 CCTTCGG
1 CCTTCGG
23076152 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.10
40 101 0.88
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGGCACTAGCACAAATG
Found at i:23096456 original size:2 final size:2
Alignment explanation
Indices: 23096451--23096475 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23096441 GTGTGCGTAC
23096451 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23096476 CTCCGATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23104298 original size:29 final size:30
Alignment explanation
Indices: 23104235--23104312 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
23104225 TACGGTGACG
*
23104235 AGAT-TGGCACTAAGTGTGC-ACGCTGGAA
1 AGATATGGCACTAAGTGTGCGACGCTCGAA
*
23104263 ATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCGACGCTCGAA
* * *
23104292 GGGTATGGCACTATGTGTGCG
1 AGATATGGCACTAAGTGTGCG
23104313 GGCTTAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.90
30 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (30 bp):
AGATATGGCACTAAGTGTGCGACGCTCGAA
Found at i:23104378 original size:2 final size:2
Alignment explanation
Indices: 23104373--23104411 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23104363 GTGTGCGTAC
23104373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23104412 CTCCGATCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23106314 original size:25 final size:25
Alignment explanation
Indices: 23106268--23106315 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23106258 TACCCTTATA
* *
23106268 ATGTGAAAATGACCTTTTTACCCTT
1 ATGTGAAAATGAACTTTATACCCTT
23106293 ATGTGAAAAT-AACTATTATACCC
1 ATGTGAAAATGAACT-TTATACCC
23106316 CTAGGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (25 bp):
ATGTGAAAATGAACTTTATACCCTT
Found at i:23106383 original size:21 final size:20
Alignment explanation
Indices: 23106358--23106410 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
23106348 TACTGATTTG
23106358 TACATAATATGCCATGATATGA
1 TACAT-ATATGCCATGATAT-A
*
23106380 -ACATGATATGTCATGATATA
1 TACAT-ATATGCCATGATATA
23106400 TACATATATGC
1 TACATATATGC
23106411 ATGGGTTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:23106472 original size:25 final size:25
Alignment explanation
Indices: 23106444--23106513 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
23106434 GAAGAAGTGC
*
23106444 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
23106469 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
23106494 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
23106514 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:23106537 original size:50 final size:50
Alignment explanation
Indices: 23106444--23106538 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
23106434 GAAGAAGTGC
**
23106444 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACTG
* **
23106494 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
23106539 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACTG
Found at i:23106769 original size:31 final size:31
Alignment explanation
Indices: 23106734--23106817 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
23106724 CGTTTACAAT
23106734 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
23106765 AAAGGCTTCGGCCTAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
23106796 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
23106818 CTGAGATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:23114243 original size:25 final size:25
Alignment explanation
Indices: 23114198--23114247 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23114188 CCTTATAATT
* *
23114198 TGAAAATGACCTTTTTTCCCCTAGG
1 TGAAAATGACCTTTATACCCCTAGG
23114223 TGAAAATGA-CTATTATACCCCTAGG
1 TGAAAATGACCT-TTATACCCCTAGG
23114248 GTTATGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (25 bp):
TGAAAATGACCTTTATACCCCTAGG
Found at i:23114306 original size:10 final size:10
Alignment explanation
Indices: 23114291--23114325 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
23114281 TTTGTACATA
23114291 ATATGCCATG
1 ATATGCCATG
23114301 ATATGCACATG
1 ATATGC-CATG
*
23114312 ATATGCGATG
1 ATATGCCATG
23114322 ATAT
1 ATAT
23114326 ATACATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:23114310 original size:21 final size:21
Alignment explanation
Indices: 23114286--23114325 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23114276 ACTGATTTGT
23114286 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
* *
23114307 ACATGATATGCGATGATAT
1 ACATAATATGCCATGATAT
23114326 ATACATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:23114331 original size:21 final size:20
Alignment explanation
Indices: 23114285--23114337 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
23114275 TACTGATTTG
*
23114285 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
* *
23114306 CACATGATATGCGATGATATA
1 TACAT-ATATGCCATGATATA
23114327 TACATATATGC
1 TACATATATGC
23114338 ATGGGTTGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:23114467 original size:24 final size:26
Alignment explanation
Indices: 23114371--23114465 Score: 124
Period size: 25 Copynumber: 3.8 Consensus size: 26
23114361 GAGGAAGTGC
* *
23114371 AAAAGGGCTATGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTATCGA
*
23114397 AAAA-GGCTTTGCCCTAGTTTA-CGA
1 AAAAGGGCTTTGCCCCAGTTTATCGA
*
23114421 AAAAGGTCTTTGCCCCAGTTTATC-A
1 AAAAGGGCTTTGCCCCAGTTTATCGA
*
23114446 AAAAGGGCTTTGCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
23114466 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 7 0.11
25 49 0.80
26 5 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTATCGA
Found at i:23114478 original size:24 final size:23
Alignment explanation
Indices: 23114396--23114492 Score: 72
Period size: 25 Copynumber: 4.0 Consensus size: 23
23114386 CAGTTTACCG
23114396 AAAAAGGCTTTGC-CCTAGTT-TAC
1 AAAAAGGCTTTGCTCC-AGTTAT-C
*
23114419 GAAAAAGGTCTTTGCCCCAGTTTATC
1 -AAAAAGG-CTTTGCTCCAG-TTATC
*
23114445 AAAAAGGGCTTTGCTCCAGTTATT
1 AAAAA-GGCTTTGCTCCAGTTATC
**
23114469 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAA-AGGCTTTG-CTCCAGTTAT
23114493 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
24 20 0.32
25 34 0.55
26 7 0.11
27 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAAAGGCTTTGCTCCAGTTATC
Found at i:23114724 original size:31 final size:31
Alignment explanation
Indices: 23114686--23114769 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
23114676 CGTTTGCAGT
23114686 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
* * *
23114717 AAAGGCTTCGGCCCAGTGGTATGAATAATGC
1 AAAGGCTTCAGCCCAGTGATATGAATAATGA
23114748 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
23114770 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGAATAATGA
Found at i:23125762 original size:20 final size:20
Alignment explanation
Indices: 23125737--23125844 Score: 155
Period size: 20 Copynumber: 5.5 Consensus size: 20
23125727 AGGCTTATGC
23125737 TAAGTAAATGGAATGAAAAG
1 TAAGTAAATGGAATGAAAAG
* *
23125757 TAAGTAAATGGAACGGAAAG
1 TAAGTAAATGGAATGAAAAG
*
23125777 TAAGTAAATGAAATGAAAAG
1 TAAGTAAATGGAATGAAAAG
*
23125797 TAAGTAAATGAAATGAAAAG
1 TAAGTAAATGGAATGAAAAG
**
23125817 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGAAAAG
23125837 TAAG-AAAT
1 TAAGTAAAT
23125845 AGAGTGGTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
19 4 0.05
20 76 0.95
ACGTcount: A:0.55, C:0.01, G:0.24, T:0.20
Consensus pattern (20 bp):
TAAGTAAATGGAATGAAAAG
Found at i:23126681 original size:9 final size:9
Alignment explanation
Indices: 23126655--23126689 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
23126645 ACAACAATTA
23126655 ATTATTTTT
1 ATTATTTTT
* *
23126664 TTTACTTTT
1 ATTATTTTT
23126673 ATTATTTTT
1 ATTATTTTT
23126682 ATTATTTT
1 ATTATTTT
23126690 AATGTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTATTTTT
Found at i:23128677 original size:24 final size:24
Alignment explanation
Indices: 23128645--23128694 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
23128635 GTGGGATTGA
23128645 TAAAATTAATAAACAGTAACATGT
1 TAAAATTAATAAACAGTAACATGT
*
23128669 TAAAATTAATAAACAGTAACGTGT
1 TAAAATTAATAAACAGTAACATGT
23128693 TA
1 TA
23128695 TGTATATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (24 bp):
TAAAATTAATAAACAGTAACATGT
Found at i:23128776 original size:20 final size:21
Alignment explanation
Indices: 23128714--23128781 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 21
23128704 CATGTTAATG
*
23128714 TATAATATAATAATTAATTTT
1 TATAATAAAATAATTAATTTT
* *
23128735 TAATTATAAAATTAAATAATTTT
1 T-ATAATAAAA-TAATTAATTTT
23128758 T-TAATAAAATAATTAATTTAT
1 TATAATAAAATAATTAATTT-T
23128779 TAT
1 TAT
23128782 TTGATCGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 9 0.24
21 10 0.26
22 8 0.21
23 11 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAATAAAATAATTAATTTT
Found at i:23132412 original size:41 final size:41
Alignment explanation
Indices: 23132347--23132426 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
23132337 TACAGGGGTT
*
23132347 TTCACACGGCATGGCACACGCCCGTGTCCATGGCCCGTGTCC
1 TTCACACGGCATGGCACACGCCCGTGTCC-TAGCCCGTGTCC
23132389 TTCACACGGCCAT-G-ACACGCCCGTGTCCTAGCCCGTGT
1 TTCACACGG-CATGGCACACGCCCGTGTCCTAGCCCGTGT
23132427 GTAAAAACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 9 0.25
41 14 0.39
42 10 0.28
43 3 0.08
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (41 bp):
TTCACACGGCATGGCACACGCCCGTGTCCTAGCCCGTGTCC
Found at i:23133428 original size:47 final size:47
Alignment explanation
Indices: 23133353--23133556 Score: 190
Period size: 46 Copynumber: 4.4 Consensus size: 47
23133343 GCCGTGGCCT
* * * *
23133353 AGACACGGTCTTACACTGGCTCAT-ATCTC-AAGTCGAAGCCATGTCCC
1 AGACATGGTCTTACACTGACT-ATCATCTCGAAGCCGATG-CATGTCCC
* *
23133400 AGACATGGTCTTACACTGACTATCATCTCGTAGCCGACGCATGTCCC
1 AGACATGGTCTTACACTGACTATCATCTCGAAGCCGATGCATGTCCC
* *
23133447 AGACAT-GTCTTACACTGGCT-TACATCTCGAAGCCGATGCATGTCCT
1 AGACATGGTCTTACACTGACTAT-CATCTCGAAGCCGATGCATGTCCC
* * *
23133493 AGACAT-GTCTTATACT-AGC-ACTCATCTC-AATGCTGATGCCACGTCCC
1 AGACATGGTCTTACACTGA-CTA-TCATCTCGAA-GCCGATG-CATGTCCC
23133540 AGACATGGTCTTACACT
1 AGACATGGTCTTACACT
23133557 AGCTCACACA
Statistics
Matches: 133, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
45 3 0.02
46 64 0.48
47 51 0.38
48 15 0.11
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
AGACATGGTCTTACACTGACTATCATCTCGAAGCCGATGCATGTCCC
Found at i:23133942 original size:30 final size:29
Alignment explanation
Indices: 23133908--23133965 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
23133898 CTTCTTTGGT
*
23133908 AAAATGACCATCTTGCCCCTAGACCTTGAC
1 AAAATGACCATCTTACCCCTAGA-CTTGAC
*
23133938 AAAATGACCATTTTACCCCTAGACTTGA
1 AAAATGACCATCTTACCCCTAGACTTGA
23133966 AATTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (29 bp):
AAAATGACCATCTTACCCCTAGACTTGAC
Found at i:23139811 original size:40 final size:40
Alignment explanation
Indices: 23139752--23139959 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
23139742 CGAAATACAA
* * *
23139752 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
23139792 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
23139832 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
23139872 CCGGATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
23139912 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
23139952 CCGGATAT
1 CCGGATAT
23139960 CATTCAATTG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 141 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:23144449 original size:46 final size:46
Alignment explanation
Indices: 23144368--23144484 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 46
23144358 AAGTCGAAGC
* *
23144368 CATGTCTCAGACATGGTCTTACATTGACTATCATCTCGTA-GCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGACG
* * * *
23144415 CATGTCCCAGATATGTCTTACACTGGCT-TACATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCGACG
*
23144461 CATGTCCTAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
23144485 AGCACTTGAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.03
46 46 0.77
47 12 0.20
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGACG
Found at i:23147175 original size:42 final size:41
Alignment explanation
Indices: 23147067--23147230 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 41
23147057 AGTATCGTAC
* * *
23147067 CAATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AATCTCATAT
* * * * *
23147109 CGATGGCAATAGCCCAGCTATGGTCTTACACGAATTATCATAT
1 CAAT-GCCATATCCCAGATATGGTCTTACACGAA-TCTCATAT
*
23147152 CAATGCCATATCCCAGATATGGTCTTAAACGACATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGA-ATCTCATAT
*
23147194 CAATGCCATATCCCAGATATGGTCTAACACGTAATCT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AATCT
23147231 TAGTAACCCT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 69 0.68
43 33 0.32
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (41 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAATCTCATAT
Found at i:23149027 original size:42 final size:42
Alignment explanation
Indices: 23148915--23149071 Score: 176
Period size: 42 Copynumber: 3.8 Consensus size: 42
23148905 GCCTAGTTTA
* * * * * *
23148915 ATACACCGGCAT-AGAGCCTGCTAGTCAATAAACCTGATTTA
1 ATACACCAGCATCAAAGCCTGCTAGGCAATAAGCCTGATATC
* * * *
23148956 ATAAACC-GACAT-AAAGCTTGATACGCAATAAGCCTGATATC
1 ATACACCAG-CATCAAAGCCTGCTAGGCAATAAGCCTGATATC
*
23148997 ATACACTAGCATCAAAGCCTGCTAGGCAATAAGCCTGATATC
1 ATACACCAGCATCAAAGCCTGCTAGGCAATAAGCCTGATATC
*
23149039 ATACACCGGCATCAAAGCCTGCTAGGCAATAAG
1 ATACACCAGCATCAAAGCCTGCTAGGCAATAAG
23149072 TCTAATATTA
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.01
41 38 0.39
42 58 0.60
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (42 bp):
ATACACCAGCATCAAAGCCTGCTAGGCAATAAGCCTGATATC
Found at i:23154255 original size:32 final size:32
Alignment explanation
Indices: 23154216--23154281 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
23154206 GAATTTTTAA
23154216 ATCATATTATATTGTTATTACACTTTAAAACT
1 ATCATATTATATTGTTATTACACTTTAAAACT
*
23154248 ATCATATTATATTGTTATTACGCTTTAAAACT
1 ATCATATTATATTGTTATTACACTTTAAAACT
23154280 AT
1 AT
23154282 GTTTGTTGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (32 bp):
ATCATATTATATTGTTATTACACTTTAAAACT
Found at i:23154703 original size:34 final size:34
Alignment explanation
Indices: 23154651--23154715 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
23154641 AGACACTGTT
* *
23154651 TGGGCTTGAGCCCGTTACAGTATCAGTATCAACG
1 TGGGCTTGAGCCCATTACAGTAACAGTATCAACG
*
23154685 TGGGTCTT-AGCCCATTACAGTAAGAGTATCA
1 TGGG-CTTGAGCCCATTACAGTAACAGTATCA
23154716 GTGCAGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 24 0.89
35 3 0.11
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (34 bp):
TGGGCTTGAGCCCATTACAGTAACAGTATCAACG
Found at i:23166996 original size:2 final size:2
Alignment explanation
Indices: 23166985--23167016 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23166975 GTAAAATAAC
23166985 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23167017 GGAAATGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23167828 original size:2 final size:2
Alignment explanation
Indices: 23167821--23167851 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23167811 TGGTGCAAGT
23167821 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23167852 CTTTTACCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23169336 original size:28 final size:27
Alignment explanation
Indices: 23169303--23169383 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
23169293 TTAGAATACT
23169303 TTAGTTTACTAAAATTATTGAAATACCC
1 TTAGTTTA-TAAAATTATTGAAATACCC
* * *
23169331 TTAGTTTGTAAAAATATTGAAATGCCC
1 TTAGTTTATAAAATTATTGAAATACCC
*
23169358 TT-GATTTATAAAATTACTGAAATACC
1 TTAG-TTTATAAAATTATTGAAATACC
23169384 TTCGACTTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.02
27 37 0.82
28 7 0.16
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (27 bp):
TTAGTTTATAAAATTATTGAAATACCC
Found at i:23169342 original size:27 final size:28
Alignment explanation
Indices: 23169312--23169400 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 28
23169302 TTTAGTTTAC
23169312 TAAAATTATTGAAATACCCTTAG-TTTG
1 TAAAATTATTGAAATACCCTTAGATTTG
* * *
23169339 TAAAAATATTGAAATGCCCTT-GATTTA
1 TAAAATTATTGAAATACCCTTAGATTTG
* * *
23169366 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTATTGAAATACCCTTAGATTTG
23169393 TAAAATTA
1 TAAAATTA
23169401 CCAAAGTACC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 5 0.10
27 47 0.90
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (28 bp):
TAAAATTATTGAAATACCCTTAGATTTG
Found at i:23169426 original size:27 final size:27
Alignment explanation
Indices: 23169396--23169456 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
23169386 CGACTTGTAA
23169396 AATTACCAAAGTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
**** *
23169423 AATTACCGTTTTAGCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
23169450 AATTACC
1 AATTACC
23169457 GTTTTACCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:23169498 original size:81 final size:81
Alignment explanation
Indices: 23169407--23169590 Score: 244
Period size: 81 Copynumber: 2.3 Consensus size: 81
23169397 ATTACCAAAG
* * * *
23169407 TACCCCCGATTTACATAATTACCGTTTTAGCC-CCGATTTACATAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACAGTTTTA-CCTCCGATTTACAGAATTACCGTTTTACCCTCGAT
*
23169471 TTATAGAATTACCGTTT
65 TTACAGAATTACCGTTT
* * * * *
23169488 TACCCTCGATTTACAGAATTACAGTTTTACCTTCGATTTACAGAATTACTGTTTTACCTTTGATT
1 TACCCTCGATTTACAAAATTACAGTTTTACCTCCGATTTACAGAATTACCGTTTTACCCTCGATT
*
23169553 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
*
23169569 TACTCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
23169591 TAAAATACCC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
80 2 0.02
81 88 0.98
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACAGTTTTACCTCCGATTTACAGAATTACCGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:23169591 original size:27 final size:26
Alignment explanation
Indices: 23169413--23169590 Score: 221
Period size: 27 Copynumber: 6.6 Consensus size: 26
23169403 AAAGTACCCC
* *
23169413 CGATTTACATAATTACCGTTTTAGCCC
1 CGATTTACAGAATTACCGTTTTA-CCT
*
23169440 CGATTTACATAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTA-CCT
*
23169467 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTA-CCT
*
23169494 CGATTTACAGAATTACAGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACC-T
*
23169521 CGATTTACAGAATTACTGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACC-T
* *
23169548 TGATTTACAGAATTACTGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTAC-CT
*
23169575 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
23169591 TAAAATACCC
Statistics
Matches: 139, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
26 2 0.01
27 136 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (26 bp):
CGATTTACAGAATTACCGTTTTACCT
Found at i:23169613 original size:27 final size:27
Alignment explanation
Indices: 23169583--23169821 Score: 201
Period size: 27 Copynumber: 8.8 Consensus size: 27
23169573 CTCGATTTAC
*
23169583 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
23169610 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
23169637 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * ***
23169664 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
23169691 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
23169718 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
*** * **
23169746 AAAAATTATGGAAATACCATTGGTTTAC
1 -AAAATTACCAAAATACCCTTGGTTTGT
* *
23169774 AAAATTACTAAAATACCCTTGGCTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * *
23169801 AGATTTACCAAGACACCCTTG
1 AAAATTACCAAAATACCCTTG
23169822 TAGGATGAAA
Statistics
Matches: 167, Mismatches: 41, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 143 0.86
28 6 0.04
29 16 0.10
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:23169912 original size:27 final size:27
Alignment explanation
Indices: 23169843--23169917 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
23169833 GACTAAAATA
* * * *
23169843 CCCCTATTAGGTAAAAATACCGTAAAG
1 CCCCTATAAGGTAAAGAGACCATAAAG
* *
23169870 CCCCTGTAGGGTAAAGAGACCATAAAG
1 CCCCTATAAGGTAAAGAGACCATAAAG
*
23169897 CCCCTATAAGGTAAAGTGACC
1 CCCCTATAAGGTAAAGAGACC
23169918 GTAATACTCC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (27 bp):
CCCCTATAAGGTAAAGAGACCATAAAG
Found at i:23170992 original size:42 final size:42
Alignment explanation
Indices: 23170933--23171024 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
23170923 TAGTTTCCCC
* ** *
23170933 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
23170975 AAATGGGTTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
23171017 AAATGGGC
1 AAATGGGC
23171025 CTATAGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:23176061 original size:18 final size:19
Alignment explanation
Indices: 23176029--23176064 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23176019 TTTTACTTTA
*
23176029 TTTTTTATTTATTTTAATT
1 TTTTTTATGTATTTTAATT
23176048 TTTTTTATGT-TTTTAAT
1 TTTTTTATGTATTTTAAT
23176065 CACCCTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTATGTATTTTAATT
Found at i:23179722 original size:18 final size:18
Alignment explanation
Indices: 23179699--23179734 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23179689 TTCTTGATTT
23179699 ATATGTTTTCAAAATTAA
1 ATATGTTTTCAAAATTAA
23179717 ATATGTTTTCAAAATTAA
1 ATATGTTTTCAAAATTAA
23179735 CTCTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (18 bp):
ATATGTTTTCAAAATTAA
Found at i:23185309 original size:28 final size:28
Alignment explanation
Indices: 23185244--23185344 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23185234 ATAGTGAATC
*
23185244 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
23185273 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23185301 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
23185331 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23185345 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23193264 original size:28 final size:28
Alignment explanation
Indices: 23193199--23193299 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23193189 ATAGTGAATC
*
23193199 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
23193228 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23193256 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
23193286 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23193300 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23197923 original size:15 final size:15
Alignment explanation
Indices: 23197903--23197932 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23197893 TTCTTGAGGT
23197903 GAAATCCTAGGAAGC
1 GAAATCCTAGGAAGC
23197918 GAAATCCTAGGAAGC
1 GAAATCCTAGGAAGC
23197933 ATGGAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (15 bp):
GAAATCCTAGGAAGC
Found at i:23207486 original size:27 final size:27
Alignment explanation
Indices: 23207456--23207693 Score: 160
Period size: 27 Copynumber: 8.9 Consensus size: 27
23207446 GGCAAATCAA
* *
23207456 TCATTTTACCTTACAGGGGTGTTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
* *
23207483 TCATTTTACCCTACAGGTGTATTACAA
1 TCATTTTACCCTACAGGGGTATTACAG
*
23207510 TCATTTTACCCTACAAGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
* * ***
23207537 TCATTTTACCTTATAGGGGTATTTTGG
1 TCATTTTACCCTACAGGGGTATTACAG
* * * *
23207564 TCATTTTACCCTATATGTGTATTTC-G
1 TCATTTTACCCTACAGGGGTATTACAG
* ** *
23207590 ATCATTTTAACCTATGGGGGTATTTC-G
1 -TCATTTTACCCTACAGGGGTATTACAG
* * * *
23207617 ATCATTTTGCCCTA-TGAGGGTATTTCGG
1 -TCATTTTACCCTACAG-GGGTATTACAG
* ***
23207645 TCATTTTACCCTA-TGGGGTATTTTGG
1 TCATTTTACCCTACAGGGGTATTACAG
* **
23207671 TCATTTTACACTATGGGGGTATT
1 TCATTTTACCCTACAGGGGTATT
23207694 TCGGTCACCA
Statistics
Matches: 179, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 24 0.13
27 154 0.86
28 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACAG
Found at i:23207559 original size:54 final size:54
Alignment explanation
Indices: 23207452--23207667 Score: 211
Period size: 54 Copynumber: 4.0 Consensus size: 54
23207442 GTAGGGCAAA
* * * * *
23207452 TCAATCATTTTACCTTACAGGGGTGTTACAGTCATTTTACCCTACAGGTGTATT
1 TCAATCATTTTACCCTACAAGGGTATTACAGTCATTTTACCCTATAGGGGTATT
* *
23207506 ACAATCATTTTACCCTACAAGGGTATTACAGTCATTTTACCTTATAGGGGTATT
1 TCAATCATTTTACCCTACAAGGGTATTACAGTCATTTTACCCTATAGGGGTATT
*** * * * * * *
23207560 TTGGTCATTTTACCCTATATGTGTATTTC-GATCATTTTAACCTATGGGGGTATT
1 TCAATCATTTTACCCTACAAGGGTATTACAG-TCATTTTACCCTATAGGGGTATT
* * ** * *
23207614 TCGATCATTTTGCCCTATGAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATT
1 TCAATCATTTTACCCTACAAGGGTATTACAGTCATTTTACCCTATAGGGGTATT
23207667 T
1 T
23207668 TGGTCATTTT
Statistics
Matches: 135, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 10 0.07
54 124 0.92
55 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (54 bp):
TCAATCATTTTACCCTACAAGGGTATTACAGTCATTTTACCCTATAGGGGTATT
Found at i:23207594 original size:81 final size:81
Alignment explanation
Indices: 23207455--23207666 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 81
23207445 GGGCAAATCA
* * * * * *
23207455 ATCATTTTACCTTACAGGGGTGTTACAGTCATTTTACCCTACAGGTGTATTACAATCATTTTACC
1 ATCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATAGGTGTATTACAATCATTTTAAC
23207520 CTACAAGGGTATTAC-
66 CTACAAGGGTATTACG
* * * *
23207535 AGTCATTTTACCTTATAGGGGTATTTTGGTCATTTTACCCTATATGTGTATTTCGATCATTTTAA
1 A-TCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATAGGTGTATTACAATCATTTTAA
*** *
23207600 CCTATGGGGGTATTTCG
65 CCTACAAGGGTATTACG
* * *
23207617 ATCATTTTGCCCTAT-GAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATT
1 ATCATTTTACCTTATAG-GGGTATTTCGGTCATTTTACCCTATAGGTGTATT
23207667 TTGGTCATTT
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
80 8 0.07
81 101 0.92
82 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (81 bp):
ATCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATAGGTGTATTACAATCATTTTAAC
CTACAAGGGTATTACG
Found at i:23207699 original size:27 final size:27
Alignment explanation
Indices: 23207482--23207700 Score: 215
Period size: 27 Copynumber: 8.1 Consensus size: 27
23207472 GGGTGTTACA
** * * *
23207482 GTCATTTTACCCTACAGGTGTATTACA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *** * *
23207509 ATCATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
23207536 GTCATTTTACCTTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
23207563 GTCATTTTACCCTATATGTGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
23207590 ATCATTTTAACCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
23207617 ATCATTTTGCCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
23207644 GTCATTTTACCCTAT-GGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
23207670 GTCATTTTACACTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
23207697 GTCA
1 GTCA
23207701 CCATTTCGGC
Statistics
Matches: 163, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.14
27 140 0.86
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:23208606 original size:27 final size:27
Alignment explanation
Indices: 23208565--23208932 Score: 515
Period size: 27 Copynumber: 13.7 Consensus size: 27
23208555 CCTAAATTAA
* * *
23208565 TAAAATGACTATTTTGCTCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
23208592 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
23208619 TAAATTGACTGTTTTGCCCTTAT-ATCG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
*
23208646 TAAAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
23208673 TAAAATAACTGTTTTGCCATTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
23208700 TAAAATGACTATTTTTCCTTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
23208727 TAAATTGACTGTTTTGCCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
23208754 T-AAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
23208780 TAAAATGACTGTTTTGCCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
23208807 TAAAATGGCTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
23208834 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
23208861 TAAAATGGCTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
23208888 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
23208915 TAAAATGATTGTTTTGCC
1 TAAAATGACTGTTTTGCC
23208933 TTTTTATGGT
Statistics
Matches: 302, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 24 0.08
27 277 0.92
28 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:23209346 original size:18 final size:18
Alignment explanation
Indices: 23209287--23209346 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
23209277 TACTGTTCAA
*
23209287 ACTGTTACTGCACAGATT
1 ACTGTTACTGCACTGATT
* *
23209305 ACTATTACTGCATTGATT
1 ACTGTTACTGCACTGATT
* *
23209323 ATTGTTACCGCACTGATT
1 ACTGTTACTGCACTGATT
23209341 ACTGTT
1 ACTGTT
23209347 GCATGGTTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:23211479 original size:46 final size:46
Alignment explanation
Indices: 23211429--23211604 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
23211419 GATGTTGGCA
23211429 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
23211475 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
23211522 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
23211568 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23211605 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:23211584 original size:93 final size:93
Alignment explanation
Indices: 23211425--23211596 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23211415 CTAGGATGTT
* *
23211425 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
23211490 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
23211518 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
23211583 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
23211597 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:23214536 original size:15 final size:15
Alignment explanation
Indices: 23214516--23214584 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
23214506 GTATCTTGGG
23214516 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
23214531 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
23214546 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
23214561 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
23214576 TTTCTTTAT
1 TTTCTTTAT
23214585 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:23214585 original size:30 final size:30
Alignment explanation
Indices: 23214507--23214594 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
23214497 CATAGTATCG
* * * *
23214507 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
23214537 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
23214567 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
23214595 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:23217009 original size:46 final size:46
Alignment explanation
Indices: 23216956--23217131 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
23216946 GGATTGGGCA
23216956 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
23217002 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
23217049 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
23217095 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23217132 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:23217111 original size:93 final size:93
Alignment explanation
Indices: 23216952--23217123 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23216942 ACTAGGATTG
* *
23216952 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
23217017 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
23217045 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
23217110 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
23217124 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:23224708 original size:40 final size:40
Alignment explanation
Indices: 23224653--23224820 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
23224643 TGAATGATAC
* * *
23224653 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTATTATAT
* * *
23224693 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTATTATAT
* ** *
23224733 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTATTATAT
* * * **
23224773 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTATTATAT
23224813 CC-GGCTAA
1 CCGGGCTAA
23224821 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 5 0.05
40 101 0.95
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTATTATAT
Found at i:23224786 original size:80 final size:80
Alignment explanation
Indices: 23224653--23224820 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 80
23224643 TGAATGATAC
* * ** *
23224653 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
23224717 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
23224733 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
23224798 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
23224813 CC-GGCTAA
1 CCGGGCTAA
23224821 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
79 6 0.08
80 67 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:23227816 original size:93 final size:93
Alignment explanation
Indices: 23227701--23227872 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
23227691 GCCCAGAAGT
*
23227701 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAATTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
23227765 ATGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
23227794 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23227859 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
23227873 CAAATATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23227868 original size:46 final size:45
Alignment explanation
Indices: 23227697--23227867 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
23227687 ACCTGCCCAG
23227697 AAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCATCCAT
* * * *
23227743 AATTGAACTCGGACTCAACTCAATGAGCTCGG-ATGC-CTAGTTACAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--TCCAT
*** *
23227789 CTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCAT
*
23227836 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGG
23227868 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 61 0.59
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCAT
Found at i:23227887 original size:46 final size:44
Alignment explanation
Indices: 23227698--23227887 Score: 113
Period size: 46 Copynumber: 4.1 Consensus size: 44
23227688 CCTGCCCAGA
* * *
23227698 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCAAATCC-T
* * * *
23227743 AATTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
23227793 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
23227836 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
23227883 AGTGA
1 AGTGA
23227888 CATGTCACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 7 0.06
45 2 0.02
46 60 0.53
47 27 0.24
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:23232304 original size:21 final size:21
Alignment explanation
Indices: 23232280--23232348 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
23232270 TAATTATAAC
23232280 TTAATTAATCAATTTCCATTT
1 TTAATTAATCAATTTCCATTT
* *
23232301 TTAACCTT-AT-TATTAT-CATTAAC
1 TTAA--TTAATCAATT-TCCATT--T
23232324 TTAATTAATCAATTTCCATTT
1 TTAATTAATCAATTTCCATTT
23232345 TTAA
1 TTAA
23232349 CCTTATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
21 17 0.47
22 6 0.17
23 13 0.36
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATTAATCAATTTCCATTT
Found at i:23232312 original size:26 final size:26
Alignment explanation
Indices: 23232283--23232356 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
23232273 TTATAACTTA
23232283 ATTAATCAATTTCCATTTTTAACCTT
1 ATTAATCAATTTCCATTTTTAACCTT
* * *
23232309 ATT-AT---TAT-CA---TTAACTTA
1 ATTAATCAATTTCCATTTTTAACCTT
23232327 ATTAATCAATTTCCATTTTTAACCTT
1 ATTAATCAATTTCCATTTTTAACCTT
23232353 ATTA
1 ATTA
23232357 TTATTATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 16
0.61 0.11 0.29
Matches are distributed among these distances:
18 9 0.26
19 2 0.06
21 2 0.06
22 4 0.12
23 2 0.06
25 2 0.06
26 13 0.38
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTAATCAATTTCCATTTTTAACCTT
Found at i:23232325 original size:44 final size:44
Alignment explanation
Indices: 23232276--23232367 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
23232266 TTATTAATTA
23232276 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
*
23232320 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATTAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
23232364 TAAC
1 TAAC
23232368 ATTCCACTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (44 bp):
TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
Found at i:23244555 original size:19 final size:18
Alignment explanation
Indices: 23244533--23244601 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
23244523 CACATTATAC
23244533 AATTTAAATGATTTTAAAA
1 AATTTAAAT-ATTTTAAAA
*
23244552 AATTTAAATTTTTTTAAAA
1 AATTTAAA-TATTTTAAAA
* * * *
23244571 AGTATGAA-ATTTTAAAT
1 AATTTAAATATTTTAAAA
23244588 AATTTAAATATTTT
1 AATTTAAATATTTT
23244602 CTTTTTGTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 12 0.31
18 5 0.13
19 21 0.54
20 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
AATTTAAATATTTTAAAA
Found at i:23245678 original size:7 final size:7
Alignment explanation
Indices: 23245638--23245677 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
23245628 TTTTCCATTT
23245638 TCAATCC
1 TCAATCC
23245645 TCAATCC
1 TCAATCC
23245652 TCAATCC
1 TCAATCC
23245659 TCAATCC
1 TCAATCC
* *
23245666 TTAATTC
1 TCAATCC
23245673 TCAAT
1 TCAAT
23245678 TTTCAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (7 bp):
TCAATCC
Found at i:23245683 original size:21 final size:21
Alignment explanation
Indices: 23245634--23245684 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
23245624 CCAATTTTCC
23245634 ATTTTCAATCCTCAATCCTCA
1 ATTTTCAATCCTCAATCCTCA
** * *
23245655 ATCCTCAATCCTTAATTCTCA
1 ATTTTCAATCCTCAATCCTCA
23245676 ATTTTCAAT
1 ATTTTCAAT
23245685 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTTCAATCCTCAATCCTCA
Found at i:23245685 original size:14 final size:14
Alignment explanation
Indices: 23245637--23245684 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
23245627 ATTTTCCATT
23245637 TTCAATCCTCAATC
1 TTCAATCCTCAATC
*
23245651 CTCAATCCTCAATCC
1 TTCAATCCTCAAT-C
* *
23245666 TT-AATTCTCAATT
1 TTCAATCCTCAATC
23245679 TTCAAT
1 TTCAAT
23245685 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (14 bp):
TTCAATCCTCAATC
Found at i:23245745 original size:20 final size:20
Alignment explanation
Indices: 23245707--23245745 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23245697 CAGTTTTTGA
*
23245707 ATTTTATTCTCTTTGATTTT
1 ATTTTATTCTCTTTCATTTT
23245727 ATTTTATTC-CTTATCATTT
1 ATTTTATTCTCTT-TCATTT
23245746 GTAAAATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTATTCTCTTTCATTTT
Found at i:23248435 original size:27 final size:27
Alignment explanation
Indices: 23248403--23248457 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
23248393 AGCTTGAAAA
23248403 CCCTAGCAATGGAAATCCTTGAAGTTT
1 CCCTAGCAATGGAAATCCTTGAAGTTT
23248430 CCCTAGCAATGGAAATCCTTGAAGTTT
1 CCCTAGCAATGGAAATCCTTGAAGTTT
23248457 C
1 C
23248458 GGCTGGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (27 bp):
CCCTAGCAATGGAAATCCTTGAAGTTT
Found at i:23256643 original size:30 final size:30
Alignment explanation
Indices: 23256609--23256710 Score: 120
Period size: 30 Copynumber: 3.5 Consensus size: 30
23256599 ATAGTGAATC
*
23256609 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
23256639 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * * *
23256667 CGCACACTTAGTGTTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
23256697 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23256711 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.03
28 21 0.34
30 37 0.61
31 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:23265365 original size:40 final size:40
Alignment explanation
Indices: 23265271--23265415 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
23265261 TACTCGAATG
*
23265271 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
23265312 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
23265352 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
23265392 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
23265416 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:23298540 original size:46 final size:46
Alignment explanation
Indices: 23298487--23298662 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
23298477 TATTTGGGCA
*
23298487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
23298533 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
23298580 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
23298626 CCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23298663 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:23298642 original size:93 final size:93
Alignment explanation
Indices: 23298483--23298654 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
23298473 AGGATATTTG
* *
23298483 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
23298548 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
23298576 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
23298641 TTGAGTCCTAGTTC
66 TTGAGTCCGAGTTC
23298655 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:23298794 original size:21 final size:21
Alignment explanation
Indices: 23298769--23298812 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
23298759 CTATTCAAAT
23298769 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
23298790 GGAGGAATACTCGAGATGAAA
1 GGAGGAATACTCGAGATGAAA
23298811 GG
1 GG
23298813 GACGTATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.36, T:0.14
Consensus pattern (21 bp):
GGAGGAATACTCGAGATGAAA
Found at i:23301958 original size:40 final size:39
Alignment explanation
Indices: 23301875--23302057 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 39
23301865 TCGAATGATG
* * * * *
23301875 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
23301915 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
23301955 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
23301994 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
**
23302035 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
23302058 TGAGTGAGTC
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:23302015 original size:79 final size:82
Alignment explanation
Indices: 23301875--23302059 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
23301865 TCGAATGATG
* * *
23301875 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
23301939 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
23301955 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
23302017 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
23302035 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23302060 AGTGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:23302090 original size:79 final size:79
Alignment explanation
Indices: 23301875--23302092 Score: 174
Period size: 79 Copynumber: 2.7 Consensus size: 79
23301865 TCGAATGATG
* * * * ** *
23301875 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
23301938 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
23301955 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
23302020 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** ** ** * *
23302035 -CCGGGCTTCGTCCCGAAGGCATTTGAGTGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
23302093 TACGTGATTC
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
79 69 0.62
80 43 0.38
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:23303548 original size:13 final size:13
Alignment explanation
Indices: 23303530--23303569 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
23303520 GCTCGGCAGG
*
23303530 GACACGCCTGTGT
1 GACACGCCCGTGT
23303543 GACACGCCCGTGT
1 GACACGCCCGTGT
*
23303556 GACACGCTCGTGT
1 GACACGCCCGTGT
23303569 G
1 G
23303570 CGATTACTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:23310303 original size:16 final size:16
Alignment explanation
Indices: 23310282--23310314 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23310272 CGAAATGTTT
23310282 TCACCTTCTAGAGGCC
1 TCACCTTCTAGAGGCC
23310298 TCACCTTCTAGAGGCC
1 TCACCTTCTAGAGGCC
23310314 T
1 T
23310315 ACGAAAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.27
Consensus pattern (16 bp):
TCACCTTCTAGAGGCC
Found at i:23314868 original size:39 final size:40
Alignment explanation
Indices: 23314758--23314934 Score: 185
Period size: 40 Copynumber: 4.5 Consensus size: 40
23314748 AATTATTGTA
* * * * * *
23314758 TGATCGCACATATGTACCTTTCTTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCTTTGTTTGTACTTCGGTACCCC
* * * *
23314798 TGATAGAACACACGTACCTTTGTTTGTACTTCGGTA-CCC
1 TGATTGCACATACGTGCCTTTGTTTGTACTTCGGTACCCC
** *
23314837 TGATTGCATGTACGTGCCTTTGTTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCTTTGTTTGTACTTCGGTACCCC
* * ** *
23314877 TCATTGCACATATGTGCCCCTGTTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCTTTGTTTGTACTTCGGTACCCC
23314917 TGATTGCACATACGTGCC
1 TGATTGCACATACGTGCC
23314935 CCTGTTTATA
Statistics
Matches: 112, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
39 31 0.28
40 81 0.72
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (40 bp):
TGATTGCACATACGTGCCTTTGTTTGTACTTCGGTACCCC
Found at i:23314936 original size:20 final size:20
Alignment explanation
Indices: 23314873--23314938 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
23314863 TACTTCGATA
* *
23314873 CCCCTCATTGCACATATGTG
1 CCCCTGATTGCACATACGTG
* * * *
23314893 CCCCTGTTTGTAC-TTCAGTA
1 CCCCTGATTGCACATAC-GTG
23314913 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCACATACGTG
23314933 CCCCTG
1 CCCCTG
23314939 TTTATACCCT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.91
21 2 0.06
ACGTcount: A:0.17, C:0.36, G:0.17, T:0.30
Consensus pattern (20 bp):
CCCCTGATTGCACATACGTG
Done.