Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 151 of 290
Found at i:51371686 original size:47 final size:47
Alignment explanation
Indices: 51371608--51372718 Score: 1990
Period size: 47 Copynumber: 23.6 Consensus size: 47
51371598 GCATGCGGGA
* * ** * * * *
51371608 CTTATCACATTTAGACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
* *
51371654 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
* * * * *
51371702 CTCATCACATATATACATTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51371749 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51371796 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51371843 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51371890 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51371937 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51371984 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372031 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372078 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372125 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372172 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372219 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372266 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372313 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372360 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372407 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
* *
51372454 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
*
51372501 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372552 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372599 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
51372646 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
* *
51372693 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
51372719 CACAATTATC
Statistics
Matches: 1035, Mismatches: 24, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
46 2 0.00
47 985 0.95
48 2 0.00
51 46 0.04
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
Found at i:51375428 original size:28 final size:28
Alignment explanation
Indices: 51375385--51375466 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
51375375 GGGGTGTCAC
51375385 ATAATCAAACTCGCACACTTAGTGCTAT
1 ATAATCAAACTCGCACACTTAGTGCTAT
*
51375413 ATAATCAAACTTGCACACTTAGTGCTAT
1 ATAATCAAACTCGCACACTTAGTGCTAT
** * *
51375441 GCAATTTAAACCCGCACACTTAGTGC
1 ATAA-TCAAACTCGCACACTTAGTGC
51375467 CAATCTCATG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 29 0.62
29 18 0.38
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
ATAATCAAACTCGCACACTTAGTGCTAT
Found at i:51385104 original size:21 final size:21
Alignment explanation
Indices: 51385078--51385117 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
51385068 TTTCCAATAC
51385078 CAAATCA-TAGTCGAATCATTT
1 CAAATCACTA-TCGAATCATTT
51385099 CAAATCACTATCGAATCAT
1 CAAATCACTATCGAATCAT
51385118 GGTCGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
CAAATCACTATCGAATCATTT
Found at i:51392161 original size:17 final size:19
Alignment explanation
Indices: 51392135--51392171 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
51392125 TGTAAAACCC
51392135 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
51392153 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
51392171 A
1 A
51392172 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:51394855 original size:40 final size:39
Alignment explanation
Indices: 51394774--51394875 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 39
51394764 GAACCAAGTA
* * *
51394774 CCTTCGGGATTTAGCCGGATATAGCTACTCACTCAACTG
1 CCTTCGGGACTTAGCCGGATATAGCTACTCACACAAATG
*
51394813 CCTTCGGGACTTAGCTCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGC-CGGATATAGCT-ACTCACACAAATG
51394853 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATAT
51394876 CATCCGAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
39 15 0.27
40 40 0.71
41 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTCACACAAATG
Found at i:51407386 original size:42 final size:42
Alignment explanation
Indices: 51407299--51407389 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
51407289 AGTTAGGCAA
* **
51407299 TTACACGGCCTGGCACACGGGCATGTGAGGCCATTTTGAGAG
1 TTACACGACCTGGCACACGGGCATGTGAGGCCATTTCAAGAG
* * * * *
51407341 TTACACGACTTGGCATATGGGCGTGTGAGGCCATTTCAAGCG
1 TTACACGACCTGGCACACGGGCATGTGAGGCCATTTCAAGAG
51407383 TTACACG
1 TTACACG
51407390 GCCTAACACA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (42 bp):
TTACACGACCTGGCACACGGGCATGTGAGGCCATTTCAAGAG
Found at i:51408538 original size:27 final size:27
Alignment explanation
Indices: 51408508--51408691 Score: 262
Period size: 27 Copynumber: 6.8 Consensus size: 27
51408498 CGAGTTGTAG
*
51408508 AATTACCATTTTACCCTCAATTTATAA
1 AATTACCATTTTACCCTCGATTTATAA
*
51408535 AATTACCGTTTTACCCTCGATTTATAA
1 AATTACCATTTTACCCTCGATTTATAA
*
51408562 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAA
* * *
51408589 AATTACCATTTTGCCCTCGATTTGTAG
1 AATTACCATTTTACCCTCGATTTATAA
* *
51408616 AATTACCATTTTACCCTTGATTTACAA
1 AATTACCATTTTACCCTCGATTTATAA
*
51408643 AATTACCATTTTACCCTC-AGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTATAA
*
51408670 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
51408692 GTGAAATTAC
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTATAA
Found at i:51408713 original size:27 final size:26
Alignment explanation
Indices: 51408683--51408848 Score: 129
Period size: 27 Copynumber: 6.2 Consensus size: 26
51408673 TACCGTTTTA
**
51408683 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
*
51408710 CCCTG-TAG-GATAGAATTACCAAAATAC
1 CCCTGATTGTG--A-AATTACCAAAATAC
* *
51408737 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
51408764 CCCTAATTTGTAAAATTACCGAAATAC
1 CCCTGA-TTGTGAAATTACCAAAATAC
* *
51408791 CACTGGTTTGTGAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
51408818 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTGA-TTGTGAAATTACCAAAATAC
51408845 CCCT
1 CCCT
51408849 AATTTACAAA
Statistics
Matches: 111, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 2 0.02
27 102 0.92
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:51408812 original size:81 final size:81
Alignment explanation
Indices: 51408723--51408872 Score: 246
Period size: 81 Copynumber: 1.9 Consensus size: 81
51408713 TGTAGGATAG
* ** *
51408723 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
51408788 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
51408804 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAG
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
51408869 TACC
66 TACC
51408873 CTTGACTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:51408851 original size:27 final size:27
Alignment explanation
Indices: 51408723--51408863 Score: 201
Period size: 27 Copynumber: 5.2 Consensus size: 27
51408713 TGTAGGATAG
*
51408723 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
51408750 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * ** *
51408777 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
51408804 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
51408831 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
51408858 AATTAC
1 AATTAC
51408864 AGAAGTACCC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:51408936 original size:27 final size:27
Alignment explanation
Indices: 51408885--51408936 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
51408875 TGACTTTCTA
*
51408885 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTAGTTTAC
*
51408912 AAAATTACT-GAAATACCTTTAGTTT
1 AAAATTA-TAGAAATACCATTAGTTT
51408937 GTTGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTAGTTTAC
Found at i:51409028 original size:27 final size:27
Alignment explanation
Indices: 51408993--51409054 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
51408983 CCGAATAGGA
*
51408993 AAAAAGACCGTAA-AGCCCCTGTAGGGT
1 AAAATGACCGTAATA-CCCCTGTAGGGT
* * *
51409020 AAAGTGACCGTAATACCCTTGTATGGT
1 AAAATGACCGTAATACCCCTGTAGGGT
51409047 AAAATGAC
1 AAAATGAC
51409055 GAATATGCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
AAAATGACCGTAATACCCCTGTAGGGT
Found at i:51410186 original size:31 final size:31
Alignment explanation
Indices: 51410151--51410265 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
51410141 TATTTACAGT
51410151 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
51410182 AAAGGCTTCGGCCCAGTGGTATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
51410213 AAAGGCTTCGGCCCAGTGGTATGATTTGTGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
51410244 AAAGGATTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
51410266 TGAAGACTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 4 0.05
31 75 0.95
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:51413076 original size:150 final size:150
Alignment explanation
Indices: 51412839--51413138 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
51412829 ATGTACCAAA
51412839 AAGGGTGGTTTTGCATGTCAATTTACCCAAAAGATGAAGAGTGGCCGGCAAAGGGGTGATGGTGC
1 AAGGGTGGTTTTGCATGTCAATTTACCCAAAAGATGAAGAGTGGCCGGCAAAGGGGTGATGGTGC
51412904 TCCACTTATTCTAATTTAATATGTTTTGTTTAGTTAACAAATGGCTTAAAATAATTATAATAAAA
66 TCCACTTATTCTAATTTAATATGTTTTGTTTAGTTAACAAATGGCTTAAAATAATTATAATAAAA
51412969 TTGAATAAAAGAGAAAAAGG
131 TTGAATAAAAGAGAAAAAGG
*
51412989 AAGGGTGGTTTTGCATGTCAATTTACCCAAAAGATGAAGAGTGGCCGGCCAAGGGGTGATGGTGC
1 AAGGGTGGTTTTGCATGTCAATTTACCCAAAAGATGAAGAGTGGCCGGCAAAGGGGTGATGGTGC
51413054 TCCACTTATTCTAATTTAATATGTTTTGTTTAGTTAACAAATGGCTTAAAATAATTATAATAAAA
66 TCCACTTATTCTAATTTAATATGTTTTGTTTAGTTAACAAATGGCTTAAAATAATTATAATAAAA
51413119 TTGAATAAAAGAGAAAAAGG
131 TTGAATAAAAGAGAAAAAGG
51413139 GAAGAGGAGT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (150 bp):
AAGGGTGGTTTTGCATGTCAATTTACCCAAAAGATGAAGAGTGGCCGGCAAAGGGGTGATGGTGC
TCCACTTATTCTAATTTAATATGTTTTGTTTAGTTAACAAATGGCTTAAAATAATTATAATAAAA
TTGAATAAAAGAGAAAAAGG
Found at i:51414313 original size:56 final size:56
Alignment explanation
Indices: 51414216--51414341 Score: 182
Period size: 55 Copynumber: 2.2 Consensus size: 56
51414206 CATGAGATTG
* * *
51414216 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATA
* *
51414273 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
*
51414328 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
51414342 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 23 0.37
56 22 0.35
57 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
Found at i:51414328 original size:27 final size:28
Alignment explanation
Indices: 51414216--51414341 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
51414206 CATGAGATTG
* * * *
51414216 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
51414245 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51414273 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51414301 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51414328 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
51414342 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.27
28 48 0.53
29 18 0.20
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51414352 original size:27 final size:27
Alignment explanation
Indices: 51414244--51414354 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
51414234 TAAATTGTAC
* * *
51414244 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
51414272 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
51414300 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
51414327 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
51414354 A
1 A
51414355 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:51414584 original size:85 final size:85
Alignment explanation
Indices: 51414441--51414609 Score: 311
Period size: 85 Copynumber: 2.0 Consensus size: 85
51414431 AGTTCATGGC
*
51414441 TAATAGGCGCTATGTTTATATTTGGAGTTGAGCTTGGTAAGTTTGAACCTATGTGACAATTATAA
1 TAATAGGCGCTATGTTTATATTTGGAGTTGAGCTTGGTAAATTTGAACCTATGTGACAATTATAA
51414506 TTGAAGTCAAATACATAAGA
66 TTGAAGTCAAATACATAAGA
51414526 TAATAGGCGCTATGTTTATATTTGGAGTTGAGCTTGGTAAATTTGAACCTATGTGACAATTATAA
1 TAATAGGCGCTATGTTTATATTTGGAGTTGAGCTTGGTAAATTTGAACCTATGTGACAATTATAA
**
51414591 TTGAAGTCACGTACATAAG
66 TTGAAGTCAAATACATAAG
51414610 GTTTAAATTG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (85 bp):
TAATAGGCGCTATGTTTATATTTGGAGTTGAGCTTGGTAAATTTGAACCTATGTGACAATTATAA
TTGAAGTCAAATACATAAGA
Found at i:51414707 original size:27 final size:28
Alignment explanation
Indices: 51414623--51414720 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
51414613 TAAATTGTAC
*
51414623 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
51414651 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
51414679 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
51414706 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51414721 GACTTAATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.35
28 44 0.65
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:51414731 original size:27 final size:27
Alignment explanation
Indices: 51414623--51414733 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
51414613 TAAATTGTAC
* * *
51414623 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
51414651 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
51414679 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
51414706 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
51414733 A
1 A
51414734 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:51416967 original size:82 final size:82
Alignment explanation
Indices: 51416830--51416993 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
51416820 TGTTGAAGGA
51416830 CTACGAACTTGTTATTGATTATCACCCGGGAAAGGCTAACGTGGTTGCCGATGCTTTAAGTCGGA
1 CTACGAACTTGTTATTGATTATCACCCGGGAAAGGCTAACGTGGTTGCCGATGCTTTAAGTCGGA
*
51416895 AAGCACTGTTTGCTTTG
66 AAGCACTGTTTACTTTG
51416912 CTACGAACTTGTTATTGATTATCACCCGGGAAAGGCTAACGTGGTTGCCGATGCTTTAAGTCGGA
1 CTACGAACTTGTTATTGATTATCACCCGGGAAAGGCTAACGTGGTTGCCGATGCTTTAAGTCGGA
51416977 AAGCACTGTTTACTTTG
66 AAGCACTGTTTACTTTG
51416994 AGAGTGGTGA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (82 bp):
CTACGAACTTGTTATTGATTATCACCCGGGAAAGGCTAACGTGGTTGCCGATGCTTTAAGTCGGA
AAGCACTGTTTACTTTG
Found at i:51417716 original size:45 final size:45
Alignment explanation
Indices: 51417662--51417751 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
51417652 GATTTACCTC
51417662 GCGATTTTGGAAGAAATTACAAGAAGCATTGGGTACCAAGATGCA
1 GCGATTTTGGAAGAAATTACAAGAAGCATTGGGTACCAAGATGCA
51417707 GCGATTTTGGAAGAAATTACAAGAAGCATTGGGTACCAAGATGCA
1 GCGATTTTGGAAGAAATTACAAGAAGCATTGGGTACCAAGATGCA
51417752 CTTTAGCACC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (45 bp):
GCGATTTTGGAAGAAATTACAAGAAGCATTGGGTACCAAGATGCA
Found at i:51419438 original size:27 final size:28
Alignment explanation
Indices: 51419354--51419451 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
51419344 CCTGAGATTG
* * * *
51419354 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
51419383 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51419411 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51419438 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
51419452 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51419462 original size:27 final size:27
Alignment explanation
Indices: 51419382--51419464 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
51419372 TAAATTGTAC
* *
51419382 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
51419410 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
51419437 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
51419464 A
1 A
51419465 TTTTTTTGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:51419465 original size:29 final size:27
Alignment explanation
Indices: 51419354--51419465 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
51419344 CCTGAGATTG
** * *
51419354 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
51419383 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
51419411 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
51419438 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
51419466 TTTTTTGAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:51425756 original size:21 final size:22
Alignment explanation
Indices: 51425732--51425779 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
51425722 TTCGAATGAT
* *
51425732 TTCACTATTCTATCAT-TTCAA
1 TTCACTAGTCTATCATCTACAA
* *
51425753 TTCAATAGTCTTTCATCTACAA
1 TTCACTAGTCTATCATCTACAA
51425775 TTCAC
1 TTCAC
51425780 AACAGCATCA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.44
Consensus pattern (22 bp):
TTCACTAGTCTATCATCTACAA
Found at i:51427920 original size:13 final size:13
Alignment explanation
Indices: 51427886--51427914 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
51427876 CAACACACAC
51427886 ACCCATGTGGCTA
1 ACCCATGTGGCTA
51427899 ACCCATGTGGCTA
1 ACCCATGTGGCTA
51427912 ACC
1 ACC
51427915 TGTGTGCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (13 bp):
ACCCATGTGGCTA
Found at i:51431294 original size:13 final size:13
Alignment explanation
Indices: 51431276--51431300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51431266 AGGAGAAAAA
51431276 GAAGGAAGTGAAT
1 GAAGGAAGTGAAT
51431289 GAAGGAAGTGAA
1 GAAGGAAGTGAA
51431301 ATATTGCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.40, T:0.12
Consensus pattern (13 bp):
GAAGGAAGTGAAT
Found at i:51436558 original size:29 final size:28
Alignment explanation
Indices: 51436522--51436593 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
51436512 TCATGAGATT
*
51436522 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
51436552 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
51436579 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
51436594 ACGGTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:51436817 original size:174 final size:174
Alignment explanation
Indices: 51436552--51436879 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
51436542 AAATTGTACA
51436552 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
* *
51436617 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
51436682 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
51436726 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
*
51436791 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
51436856 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
51436880 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:51448399 original size:14 final size:16
Alignment explanation
Indices: 51448367--51448403 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
51448357 ATTTACATAA
*
51448367 CATATATCACCTATTT
1 CATATATCACCTATAT
51448383 CATATATCA-CT-TAT
1 CATATATCACCTATAT
51448397 CATATAT
1 CATATAT
51448404 TATCATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (16 bp):
CATATATCACCTATAT
Found at i:51448866 original size:20 final size:18
Alignment explanation
Indices: 51448829--51448879 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
51448819 CTATAGCAAC
51448829 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
51448846 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
51448866 TTACAAATTTACAA
1 TCAC-AATTTACAA
51448880 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:51451075 original size:22 final size:19
Alignment explanation
Indices: 51451049--51451097 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
51451039 ATACCGTTTC
51451049 AATTAAATTCTTGTCAAAAAAT
1 AATTAAATT-TT-T-AAAAAAT
*
51451071 AATT-AATTTTTATAAAAT
1 AATTAAATTTTTAAAAAAT
51451089 AATTAAATT
1 AATTAAATT
51451098 ATACTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.40
19 5 0.20
20 2 0.08
21 4 0.16
22 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTAAATTTTTAAAAAAT
Found at i:51453822 original size:30 final size:30
Alignment explanation
Indices: 51453767--51453823 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
51453757 ATTATAGGGG
* * * *
51453767 ACACACGGCTGTGTCACCTGGCCGTGTGTC
1 ACACACGGCTGAGACACATGCCCGTGTGTC
51453797 ACACACGGCTGAGACACATGCCCGTGT
1 ACACACGGCTGAGACACATGCCCGTGT
51453824 CTTTGCCCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.19
Consensus pattern (30 bp):
ACACACGGCTGAGACACATGCCCGTGTGTC
Found at i:51454843 original size:25 final size:25
Alignment explanation
Indices: 51454790--51454845 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
51454780 AATCTCTTCC
* * *
51454790 GAGCTAAATAACAGTAAGTTCCTAC
1 GAGCTAAATAACAGTAAGCTCATAA
* *
51454815 GAGCTAAGTATCAGTAAGCTCATAA
1 GAGCTAAATAACAGTAAGCTCATAA
51454840 GAGCTA
1 GAGCTA
51454846 GAATCGGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (25 bp):
GAGCTAAATAACAGTAAGCTCATAA
Found at i:51458703 original size:45 final size:45
Alignment explanation
Indices: 51458653--51458740 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
51458643 CCAAAACATG
* *
51458653 TGCCACATACATCATGAACTTAGACCATAACTCAATGAGTTCATA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATGAGTTCATA
* *
51458698 TGCCACATATATCATGAACTCAGACTACAACTCAATGAGTTCA
1 TGCCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
51458741 GATCACATAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (45 bp):
TGCCACATACATCATGAACTCAGACCACAACTCAATGAGTTCATA
Found at i:51467165 original size:45 final size:45
Alignment explanation
Indices: 51467096--51467312 Score: 332
Period size: 45 Copynumber: 4.9 Consensus size: 45
51467086 GTACAGTACA
* *
51467096 ATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATT
* *
51467141 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTAAGATATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATT
51467186 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGA-T
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-ATT
51467231 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATT
* * * *
51467276 ATTTGAGCC-TTGAGCCTAACAGGCGA-AATGCCGGTGA
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
51467313 ATGAATTCGA
Statistics
Matches: 160, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
43 11 0.07
44 16 0.10
45 132 0.82
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATT
Found at i:51467254 original size:90 final size:90
Alignment explanation
Indices: 51467096--51467352 Score: 346
Period size: 90 Copynumber: 2.9 Consensus size: 90
51467086 GTACAGTACA
*
51467096 ATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTCGGGCCTTTGAGCCTA
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGA-TATTCGGGCCTTTGAGCCTA
51467160 GCAGGCTATAATGCCAGTAAGATATT
65 GCAGGCTATAATGCCAGTAAGATATT
51467186 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATTCGGGCCTTTGAGCCTAG
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATTCGGGCCTTTGAGCCTAG
* *
51467251 CAGGCTATAATGCCGGTGAGATATT
66 CAGGCTATAATGCCAGTAAGATATT
* * * * * ** * *
51467276 ATTTGAGCC-TTGAGCCTAACAGGCGA-AATGCCGGTGA-ATGA-ATTCGAGTTTTTAAACCTAG
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATTCGGGCCTTTGAGCCTAG
*
51467337 CAGGCT-GAATGCCAGT
66 CAGGCTATAATGCCAGT
51467353 GATTTGATAA
Statistics
Matches: 152, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
85 8 0.05
86 21 0.14
87 4 0.03
88 11 0.07
89 15 0.10
90 92 0.61
91 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (90 bp):
ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATTCGGGCCTTTGAGCCTAG
CAGGCTATAATGCCAGTAAGATATT
Found at i:51475481 original size:270 final size:270
Alignment explanation
Indices: 51475000--51475542 Score: 1086
Period size: 270 Copynumber: 2.0 Consensus size: 270
51474990 ATATTTATAC
51475000 GATAATACTATCATGTTGTAGATCACAAAATAATATTAAAATAAATTTTTTGACCTCGAAATTAT
1 GATAATACTATCATGTTGTAGATCACAAAATAATATTAAAATAAATTTTTTGACCTCGAAATTAT
51475065 CATCCCGAATCACTGTTTCGATTTCACGAAAAACGGCTGTTTCAGATCATGAATGGGTTGACAAT
66 CATCCCGAATCACTGTTTCGATTTCACGAAAAACGGCTGTTTCAGATCATGAATGGGTTGACAAT
51475130 CGCAAAAAACGGAAAGATTTTAGAGTAGTTCCTATGCTTTGCAATTACTACAATCTAGTCTTGTA
131 CGCAAAAAACGGAAAGATTTTAGAGTAGTTCCTATGCTTTGCAATTACTACAATCTAGTCTTGTA
51475195 AGTTCGTTTTATGCTTATTTTTAGTTGAATTAAATATGTTGTCAGCGATTAAATCTTTAAAGTTT
196 AGTTCGTTTTATGCTTATTTTTAGTTGAATTAAATATGTTGTCAGCGATTAAATCTTTAAAGTTT
51475260 GTTATGGAAT
261 GTTATGGAAT
51475270 GATAATACTATCATGTTGTAGATCACAAAATAATATTAAAATAAATTTTTTGACCTCGAAATTAT
1 GATAATACTATCATGTTGTAGATCACAAAATAATATTAAAATAAATTTTTTGACCTCGAAATTAT
51475335 CATCCCGAATCACTGTTTCGATTTCACGAAAAACGGCTGTTTCAGATCATGAATGGGTTGACAAT
66 CATCCCGAATCACTGTTTCGATTTCACGAAAAACGGCTGTTTCAGATCATGAATGGGTTGACAAT
51475400 CGCAAAAAACGGAAAGATTTTAGAGTAGTTCCTATGCTTTGCAATTACTACAATCTAGTCTTGTA
131 CGCAAAAAACGGAAAGATTTTAGAGTAGTTCCTATGCTTTGCAATTACTACAATCTAGTCTTGTA
51475465 AGTTCGTTTTATGCTTATTTTTAGTTGAATTAAATATGTTGTCAGCGATTAAATCTTTAAAGTTT
196 AGTTCGTTTTATGCTTATTTTTAGTTGAATTAAATATGTTGTCAGCGATTAAATCTTTAAAGTTT
51475530 GTTATGGAAT
261 GTTATGGAAT
51475540 GAT
1 GAT
51475543 GTTTAAATGT
Statistics
Matches: 273, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
270 273 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (270 bp):
GATAATACTATCATGTTGTAGATCACAAAATAATATTAAAATAAATTTTTTGACCTCGAAATTAT
CATCCCGAATCACTGTTTCGATTTCACGAAAAACGGCTGTTTCAGATCATGAATGGGTTGACAAT
CGCAAAAAACGGAAAGATTTTAGAGTAGTTCCTATGCTTTGCAATTACTACAATCTAGTCTTGTA
AGTTCGTTTTATGCTTATTTTTAGTTGAATTAAATATGTTGTCAGCGATTAAATCTTTAAAGTTT
GTTATGGAAT
Found at i:51475617 original size:38 final size:38
Alignment explanation
Indices: 51475563--51475707 Score: 148
Period size: 38 Copynumber: 3.8 Consensus size: 38
51475553 TGAATTATAT
* * ** *
51475563 TGTTATTCGGGCTTTGTGCCTATTAGGCTTAGTGCCGG
1 TGTTATTTGAGCTTTGTGCCTAGCAGGCTTAGTACCGG
*
51475601 TGTTATTT-AGGTTTTGTGCCTAGCAGGCTTAGTACCGG
1 TGTTATTTGA-GCTTTGTGCCTAGCAGGCTTAGTACCGG
* * *
51475639 TGTTATTTGAGCTTTGTGCCTAGCAAGCTTAGTTCTGG
1 TGTTATTTGAGCTTTGTGCCTAGCAGGCTTAGTACCGG
** ** *
51475677 TGTTATTCAAGCTTACTGCCTAGTAGGCTTA
1 TGTTATTTGAGCTTTGTGCCTAGCAGGCTTA
51475708 TTTTCGGTGT
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
38 88 0.99
39 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.27, T:0.40
Consensus pattern (38 bp):
TGTTATTTGAGCTTTGTGCCTAGCAGGCTTAGTACCGG
Found at i:51475717 original size:76 final size:76
Alignment explanation
Indices: 51475563--51475707 Score: 173
Period size: 76 Copynumber: 1.9 Consensus size: 76
51475553 TGAATTATAT
* ** * * * * **
51475563 TGTTATTCGGGCTTTGTGCCTATTAGGCTTAGTGCCGGTGTTATTTAGGTTTTGTGCCTAGCAGG
1 TGTTATTCGAGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTTATTCAAGCTTACTGCCTAGCAGG
51475628 CTTAGTACCGG
66 CTTAGTACCGG
* * * *
51475639 TGTTATTTGAGCTTTGTGCCTAGCAAGCTTAGTTCTGGTGTTATTCAAGCTTACTGCCTAGTAGG
1 TGTTATTCGAGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTTATTCAAGCTTACTGCCTAGCAGG
51475704 CTTA
66 CTTA
51475708 TTTTCGGTGT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
76 56 1.00
ACGTcount: A:0.16, C:0.17, G:0.27, T:0.40
Consensus pattern (76 bp):
TGTTATTCGAGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTTATTCAAGCTTACTGCCTAGCAGG
CTTAGTACCGG
Found at i:51479957 original size:23 final size:24
Alignment explanation
Indices: 51479931--51480004 Score: 73
Period size: 23 Copynumber: 3.1 Consensus size: 24
51479921 AATATTAATT
51479931 TAAATAATATTTA-AATAAAATAA
1 TAAATAATATTTATAATAAAATAA
**
51479954 TAAAGT-ATA-TTATAATATTATAA
1 TAAA-TAATATTTATAATAAAATAA
*
51479977 TAATATAATATTATATAATAGAATAA
1 TAA-ATAATATT-TATAATAAAATAA
51480003 TA
1 TA
51480005 GATAGAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
22 3 0.07
23 19 0.46
24 5 0.12
25 1 0.02
26 13 0.32
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (24 bp):
TAAATAATATTTATAATAAAATAA
Found at i:51479971 original size:8 final size:8
Alignment explanation
Indices: 51479960--51479991 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
51479950 ATAATAAAGT
51479960 ATATTATA
1 ATATTATA
51479968 ATATTATA
1 ATATTATA
*
51479976 ATAATATA
1 ATATTATA
51479984 ATATTATA
1 ATATTATA
51479992 TAATAGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATATTATA
Found at i:51484575 original size:23 final size:23
Alignment explanation
Indices: 51484517--51484580 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
51484507 TTAAAAAAAA
51484517 ATAAAATAAGTTAATCAAAACAATG
1 ATAAAATAA--TAATCAAAACAATG
* *
51484542 ATAACAT-ATAATGAAAGACAATG
1 ATAAAATAATAATCAAA-ACAATG
51484565 A-AAAATAATAATCAAA
1 ATAAAATAATAATCAAA
51484581 TATGAAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 11 0.33
23 15 0.45
24 1 0.03
25 6 0.18
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (23 bp):
ATAAAATAATAATCAAAACAATG
Found at i:51500677 original size:19 final size:19
Alignment explanation
Indices: 51500631--51500678 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
51500621 GTATATATTT
51500631 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
51500649 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
51500668 TAAGTTTTATT
1 TAAATTTTATT
51500679 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:51516182 original size:40 final size:40
Alignment explanation
Indices: 51516108--51516209 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
51516098 AACCCAAGTA
* *
51516108 CCTTCGGGAT-TTAG-CCGGATATAGCAACTCGCACACATG
1 CCTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATG
51516147 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATG
*
51516187 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
51516210 CATCCGAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
38 1 0.02
39 12 0.21
40 43 0.75
41 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:51519784 original size:16 final size:16
Alignment explanation
Indices: 51519763--51519795 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51519753 GCATTTAGTG
51519763 ACTAAATGACTTAATT
1 ACTAAATGACTTAATT
51519779 ACTAAATGACTTAATT
1 ACTAAATGACTTAATT
51519795 A
1 A
51519796 TTAATTGAGA
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:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (16 bp):
ACTAAATGACTTAATT
Found at i:51520913 original size:35 final size:35
Alignment explanation
Indices: 51520867--51521018 Score: 214
Period size: 35 Copynumber: 4.3 Consensus size: 35
51520857 TACTCTATGT
*
51520867 TTGGCGTGTTTCGGTTGGACTAGCTCTGATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
***
51520902 TTGGCGTGTTTCAACTGGACTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
51520937 TTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGTA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
51520972 TTGGCGTGTTTCGGTTGGACTAGCTCTTGTGAGAA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
*
51521007 TTTGGTGTGTTT
1 -TTGGCGTGTTT
51521019 TGGAAGGATT
Statistics
Matches: 103, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 93 0.90
36 10 0.10
ACGTcount: A:0.14, C:0.14, G:0.32, T:0.39
Consensus pattern (35 bp):
TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
Found at i:51525712 original size:101 final size:100
Alignment explanation
Indices: 51525583--51525801 Score: 287
Period size: 101 Copynumber: 2.2 Consensus size: 100
51525573 CATGGCCCTT
* * * *
51525583 CCATGGTCTTACATCCTAGTGCCATAACCCAGTTATGGT-TTTATCATTAGAATCCCATAACCCA
1 CCATGGTCTTACGTTCAAGTGCCATAACCCAGTTATGGTCTTT-TCATTAAAATCCCATAACCCA
* * *
51525647 TCTATGGTCTTACATATAAATAGTGTCATGGTCCAA
65 GCTATGGTCTTACATAAAAATACTGTCATGGTCCAA
* ** * *
51525683 CCATGGTCTTACGTTCAAGGTGCCATAACCTAGTTATGGTCTTTTCATTAAAATGTCATAGCCTA
1 CCATGGTCTTACGTTCAA-GTGCCATAACCCAGTTATGGTCTTTTCATTAAAATCCCATAACCCA
*
51525748 GCTATGGTCTTACATAAAAATACTGTCATGTTCCAA
65 GCTATGGTCTTACATAAAAATACTGTCATGGTCCAA
*
51525784 CCATAGTCTTACGTTCAA
1 CCATGGTCTTACGTTCAA
51525802 TTCATCCTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
100 15 0.15
101 85 0.83
102 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (100 bp):
CCATGGTCTTACGTTCAAGTGCCATAACCCAGTTATGGTCTTTTCATTAAAATCCCATAACCCAG
CTATGGTCTTACATAAAAATACTGTCATGGTCCAA
Found at i:51529886 original size:40 final size:40
Alignment explanation
Indices: 51529768--51529872 Score: 165
Period size: 40 Copynumber: 2.6 Consensus size: 40
51529758 NNNNNNNNNN
*
51529768 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
* * *
51529808 CTGGGCTAAGTCCCGAAGGCATTTGTGGGAGTTACTATAA
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
*
51529848 CCGGGCTAAGTCTTGAAGGCATTTG
1 CCGGGCTAAGTCCTGAAGGCATTTG
51529873 AGCAAGTAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
Found at i:51531449 original size:14 final size:14
Alignment explanation
Indices: 51531430--51531459 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
51531420 TCCCGCACAA
51531430 GGGACAGCGCTGGC
1 GGGACAGCGCTGGC
51531444 GGGACAGCGCTGGC
1 GGGACAGCGCTGGC
51531458 GG
1 GG
51531460 ACTCTCAACC
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:0.13, C:0.27, G:0.53, T:0.07
Consensus pattern (14 bp):
GGGACAGCGCTGGC
Found at i:51537819 original size:40 final size:40
Alignment explanation
Indices: 51537764--51538021 Score: 448
Period size: 40 Copynumber: 6.5 Consensus size: 40
51537754 CGGATGATAA
51537764 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51537804 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51537844 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51537884 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51537924 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
51537964 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
51538004 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51538022 TACTTGGTTT
Statistics
Matches: 211, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 16 0.08
40 195 0.92
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51555450 original size:39 final size:40
Alignment explanation
Indices: 51555405--51555572 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
51555395 CGGGGTTTAG
* * *
51555405 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
51555444 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
51555484 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
51555524 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
51555565 CCGGATAT
1 CCGGATAT
51555573 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:51555555 original size:41 final size:40
Alignment explanation
Indices: 51555428--51555572 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
51555418 CTCGCACAAG
* * * * *
51555428 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
51555468 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
51555508 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
51555549 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
51555573 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:51561155 original size:48 final size:46
Alignment explanation
Indices: 51560989--51561188 Score: 161
Period size: 48 Copynumber: 4.2 Consensus size: 46
51560979 ATGATGGCGC
* *** * *
51560989 CATGTCCCAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGATG
1 CATGTCCCAGACA-GGTCTTACACTAGCTCTAATC-TCAAGGCCGATG
* * * * *
51561036 TCGTGTCCCCGACAAGTCTTACACTAGCTCTCATCT-ATCGGCGTCGATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTCTAATCTCA-AGGC--CGATG
* *
51561085 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCTAGGCCGATG
1 -CATGTCCCAGACAGGTCTTACACTAGC-TCTA-ATCTCAAGGCCGATG
* * *
51561134 CATGTCCTAGACATGTCTTACACTAGCTCTAATCTCAATGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTAATCTCAAGGCCGATG
51561180 CATGTCCCA
1 CATGTCCCA
51561189 AGCATATCTT
Statistics
Matches: 122, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
46 22 0.18
47 20 0.16
48 37 0.30
49 34 0.28
50 2 0.02
51 7 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACAGGTCTTACACTAGCTCTAATCTCAAGGCCGATG
Found at i:51561199 original size:46 final size:48
Alignment explanation
Indices: 51561080--51561201 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 48
51561070 CTATCGGCGT
* ** * *
51561080 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCTAGGC
1 CGATG-CATGTCCAAGACATATCTTACACTAGCTTCTATATCTCAAGGC
* * *
51561129 CGATGCATGTCCTAGACATGTCTTACACTAGC-TCTA-ATCTCAATGC
1 CGATGCATGTCCAAGACATATCTTACACTAGCTTCTATATCTCAAGGC
51561175 CGATGCATGTCCCAAG-CATATCTTACA
1 CGATGCATGT-CCAAGACATATCTTACA
51561202 TTGACTTACA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
46 28 0.43
47 7 0.11
48 25 0.38
49 5 0.08
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCATGTCCAAGACATATCTTACACTAGCTTCTATATCTCAAGGC
Found at i:51568948 original size:49 final size:48
Alignment explanation
Indices: 51568890--51569063 Score: 190
Period size: 49 Copynumber: 3.6 Consensus size: 48
51568880 ATGCCGACGC
* *
51568890 CATGCCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGT
1 CATGTCCCAGACAGGTCTTACACTAGCTTT-ATATATCGAGGCCGATGT
* * * * *
51568939 CGTGTCCCAGACAGGTCTTACATTGGCTCTTATCTATC-AGTGTCGATGT
1 CATGTCCCAGACAGGTCTTACACTAGCT-TTATATATCGAG-GCCGATGT
* * *
51568988 CATGTCCGAGACAGGTCTTACACTAGCTTGTATATCTCGAGACCGATG-
1 CATGTCCCAGACAGGTCTTACACTAGCTT-TATATATCGAGGCCGATGT
* *
51569036 CATGTCCTAGACATGTCTTACACTAGCT
1 CATGTCCCAGACAGGTCTTACACTAGCT
51569064 CTCGTCTCAA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
48 29 0.28
49 71 0.68
50 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTTATATATCGAGGCCGATGT
Found at i:51569096 original size:46 final size:46
Alignment explanation
Indices: 51568980--51569148 Score: 150
Period size: 48 Copynumber: 3.6 Consensus size: 46
51568970 ATCTATCAGT
* * * *
51568980 GTCGATGTCATGTCCGAGACAGGTCTTACACT-AGCTTGTATATCTCGA
1 GTCGATG-CATGTCC-AGACATGTCTTACACTGA-CTTGCATCTCTCAA
*
51569028 GACCGATGCATGTCCTAGACATGTCTTACACT-AGC-T-C-TCGTCTCAA
1 G-TCGATGCATGTCC-AGACATGTCTTACACTGA-CTTGCATC-TCTCAA
*
51569074 TGTCGATGCATGTCTCACACATGTCTTACACTGACTTGCATCTCTCAA
1 -GTCGATGCATGTC-CAGACATGTCTTACACTGACTTGCATCTCTCAA
*
51569122 GTTGATGCATGTCCCAGACATGTCTTA
1 GTCGATGCATGT-CCAGACATGTCTTA
51569149 TGCTGGCTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 19
0.78 0.08 0.15
Matches are distributed among these distances:
45 1 0.01
46 32 0.31
47 28 0.27
48 34 0.33
49 7 0.07
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
GTCGATGCATGTCCAGACATGTCTTACACTGACTTGCATCTCTCAA
Found at i:51569566 original size:30 final size:30
Alignment explanation
Indices: 51569530--51569586 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
51569520 CATTTTTTGG
* **
51569530 CAAAATGACCATTTTGTCCCTAGACTTTCA
1 CAAAATGAACATTTTACCCCTAGACTTTCA
51569560 CAAAATGAACATTTTACCCCTAGACTT
1 CAAAATGAACATTTTACCCCTAGACTT
51569587 GAAAATCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (30 bp):
CAAAATGAACATTTTACCCCTAGACTTTCA
Found at i:51571594 original size:27 final size:27
Alignment explanation
Indices: 51571253--51571593 Score: 398
Period size: 27 Copynumber: 12.6 Consensus size: 27
51571243 TTAGCTTACC
51571253 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
51571280 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51571307 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
51571334 AAATTACCAAAACACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
51571361 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
51571388 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
51571415 AAATTACCAAAATCCCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
51571442 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
51571469 AAATTATCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
51571496 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
51571523 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
51571550 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
51571577 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
51571594 TTGATTTATA
Statistics
Matches: 269, Mismatches: 43, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.01
27 263 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:51571667 original size:27 final size:27
Alignment explanation
Indices: 51571635--51571902 Score: 277
Period size: 27 Copynumber: 9.6 Consensus size: 27
51571625 TTTACAAAAT
*
51571635 TACCGAAATACCCTTGTACGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
51571662 TGCCGAAATACCCTTATAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
51571689 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
51571716 TACCAAAATACTGAAATACCCCTGTACGGTAGAAA
1 TA-C------C-GAAATACCCTTGTAGGGTAGAAA
* *
51571751 TACTGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * *
51571778 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
51571805 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
51571832 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
51571859 TACTGAAATACTCC-TGTAAGGTAGAAT
1 TACCGAAATAC-CCTTGTAGGGTAGAAA
* *
51571886 TACCGAGATACCATTGT
1 TACCGAAATACCCTTGT
51571903 GGAGTAAAAT
Statistics
Matches: 207, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.00
27 177 0.86
28 3 0.01
34 2 0.01
35 24 0.12
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:51571725 original size:35 final size:35
Alignment explanation
Indices: 51571686--51571762 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
51571676 TATAGGGTAG
*
51571686 AAATACCGAAATACCCCTGTAGGGTAGAAATACCA
1 AAATACCGAAATACCCCTGTACGGTAGAAATACCA
* **
51571721 AAATACTGAAATACCCCTGTACGGTAGAAATACTG
1 AAATACCGAAATACCCCTGTACGGTAGAAATACCA
51571756 AAATACC
1 AAATACC
51571763 CTTGTAGGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (35 bp):
AAATACCGAAATACCCCTGTACGGTAGAAATACCA
Found at i:51571752 original size:19 final size:19
Alignment explanation
Indices: 51571693--51571753 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
51571683 TAGAAATACC
*
51571693 GAAATACCCCTGTAGGGTA
1 GAAATACCCCTGTACGGTA
****
51571712 GAAATACCAAAATAC--T-
1 GAAATACCCCTGTACGGTA
51571728 GAAATACCCCTGTACGGTA
1 GAAATACCCCTGTACGGTA
51571747 GAAATAC
1 GAAATAC
51571754 TGAAATACCC
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 11 0.37
17 1 0.03
18 1 0.03
19 17 0.57
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (19 bp):
GAAATACCCCTGTACGGTA
Found at i:51572462 original size:12 final size:12
Alignment explanation
Indices: 51572441--51572541 Score: 70
Period size: 12 Copynumber: 8.8 Consensus size: 12
51572431 ATTCTGTTAC
*
51572441 CTGATACTAATT
1 CTGATTCTAATT
51572453 CTGATTCTAATT
1 CTGATTCTAATT
*
51572465 CTG-TCACCTAATT
1 CTGAT--TCTAATT
*
51572478 CTGATTCTGATT
1 CTGATTCTAATT
*
51572490 CTGATTCTGATT
1 CTGATTCTAATT
*
51572502 CTG--TC--A-C
1 CTGATTCTAATT
*
51572509 CTAATTCTAATT
1 CTGATTCTAATT
*
51572521 CTGATTCTCATT
1 CTGATTCTAATT
*
51572533 TTGATTCTA
1 CTGATTCTA
51572542 GTTTTGATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
7 2 0.03
8 1 0.01
9 2 0.03
10 2 0.03
11 2 0.03
12 51 0.73
13 9 0.13
14 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.47
Consensus pattern (12 bp):
CTGATTCTAATT
Found at i:51572484 original size:6 final size:6
Alignment explanation
Indices: 51572475--51572540 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
51572465 CTGTCACCTA
* * *
51572475 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
51572524 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
51572541 AGTTTTGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
5 1 0.02
6 45 0.92
7 2 0.04
8 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:51572491 original size:37 final size:37
Alignment explanation
Indices: 51572441--51572528 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
51572431 ATTCTGTTAC
* *
51572441 CTGATACTAATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
*
51572478 CTGATTCTGATTCTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
*
51572515 CTAATTCTGATTCT
1 CTGATTCTGATTCT
51572529 CATTTTGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:51572538 original size:37 final size:36
Alignment explanation
Indices: 51572425--51572540 Score: 134
Period size: 37 Copynumber: 3.3 Consensus size: 36
51572415 TCATATTTTG
* * *
51572425 ATTTTGATTCTGTTACCTGATACTAATTCTGATTCT
1 ATTTTGATTCTGTCACCTAATTCTAATTCTGATTCT
*
51572461 A-----ATTCTGTCACCTAATTCTGATTCTGATTCT
1 ATTTTGATTCTGTCACCTAATTCTAATTCTGATTCT
*
51572492 GATTCTGATTCTGTCACCTAATTCTAATTCTGATTCT
1 -ATTTTGATTCTGTCACCTAATTCTAATTCTGATTCT
51572529 CATTTTGATTCT
1 -ATTTTGATTCT
51572541 AGTTTTGATA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
31 26 0.39
32 1 0.01
36 1 0.01
37 39 0.58
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (36 bp):
ATTTTGATTCTGTCACCTAATTCTAATTCTGATTCT
Found at i:51578567 original size:49 final size:49
Alignment explanation
Indices: 51578511--51578605 Score: 190
Period size: 49 Copynumber: 1.9 Consensus size: 49
51578501 GAGGTAGAGC
51578511 TAAACAACATGCTATAGGCTCAATTCAGTCAAGAATTTCATATGGCAGG
1 TAAACAACATGCTATAGGCTCAATTCAGTCAAGAATTTCATATGGCAGG
51578560 TAAACAACATGCTATAGGCTCAATTCAGTCAAGAATTTCATATGGC
1 TAAACAACATGCTATAGGCTCAATTCAGTCAAGAATTTCATATGGC
51578606 CTAATAAACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (49 bp):
TAAACAACATGCTATAGGCTCAATTCAGTCAAGAATTTCATATGGCAGG
Found at i:51581108 original size:14 final size:14
Alignment explanation
Indices: 51581089--51581129 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
51581079 TATTAATAGT
51581089 ATAAAAATAAATAA
1 ATAAAAATAAATAA
51581103 AT-AAAATAAAATAA
1 ATAAAAAT-AAATAA
*
51581117 ATAAGAA-AAATAA
1 ATAAAAATAAATAA
51581130 GCAAATGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 11 0.46
14 10 0.42
15 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:51581113 original size:18 final size:18
Alignment explanation
Indices: 51581092--51581129 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
51581082 TAATAGTATA
51581092 AAAATAAATAA-ATAAAAT
1 AAAATAAATAAGA-AAAAT
51581110 AAAATAAATAAGAAAAAT
1 AAAATAAATAAGAAAAAT
51581128 AA
1 AA
51581130 GCAAATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAATAAATAAGAAAAAT
Found at i:51581712 original size:33 final size:33
Alignment explanation
Indices: 51581675--51581741 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
51581665 AAAATAAAAG
51581675 AGTTATGAAAAGCC-GAAAAAAAAACCTAACCTT
1 AGTTATGAAAAGCCAG-AAAAAAAACCTAACCTT
51581708 AGTTATGAAAAGCCAGAAAAAAAACCTAACCTT
1 AGTTATGAAAAGCCAGAAAAAAAACCTAACCTT
51581741 A
1 A
51581742 CTTCTAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (33 bp):
AGTTATGAAAAGCCAGAAAAAAAACCTAACCTT
Found at i:51585861 original size:37 final size:37
Alignment explanation
Indices: 51585780--51586193 Score: 310
Period size: 37 Copynumber: 11.1 Consensus size: 37
51585770 CTCCTTTCAC
* * *
51585780 ATAATCTGTGGATATTGCTCGTTTGAGCATGCATTCCGT
1 ATAATCAGTAGATATTGCTCGTTTGAGCA--CATTCAGT
* * *
51585819 ATAATTAGTATATATTGCTCGTTTGAGCCCATTCAGT
1 ATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
* * * * * *
51585856 ATAATTAGTGGATATCGCTCGTTTGAGAAACTTTCAAT
1 ATAATCAGTAGATATTGCTCGTTTGAG-CACATTCAGT
* * * * * *
51585894 ATAATCAATAGACATTTCTCTTTTGAGCACGTTTAGT
1 ATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
* * * *
51585931 ATATTCAGTAGATATTGCTCATTTGAGCCCATTCAAT
1 ATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
* * ** *
51585968 ATAATCAATGGATATTGCTTATTTGAGCAACTTTCAGT
1 ATAATCAGTAGATATTGCTCGTTTGAGC-ACATTCAGT
* ** *
51586006 ATAATCAGTAGACATTGCTC-TTTTTGCACATTAAGT
1 ATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
* * * * *
51586042 AGT-TTCAGTATATATTGCTCATTTAAGCACATTCAAT
1 A-TAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
* * * * *
51586079 ATAATCAATAGACATTGCTTGTTTGAACTCATTCAGT
1 ATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
* * ** *
51586116 ATAATCAATGGATATCACTCGTTTGAGCAACTTTCAGT
1 ATAATCAGTAGATATTGCTCGTTTGAGC-ACATTCAGT
* * * *
51586154 ATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAAT
1 ATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
51586191 ATA
1 ATA
51586194 TTTAGTATTC
Statistics
Matches: 288, Mismatches: 81, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
36 23 0.08
37 164 0.57
38 77 0.27
39 24 0.08
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (37 bp):
ATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGT
Found at i:51585996 original size:74 final size:74
Alignment explanation
Indices: 51585793--51586193 Score: 301
Period size: 75 Copynumber: 5.4 Consensus size: 74
51585783 ATCTGTGGAT
** * * * * * *
51585793 ATTGCTCGTTTGAGCATGCATTCCGTATAATTAGTATATATTGCTCGTTTGAGC-CCATTCAGTA
1 ATTGCTC-TTTGAGCA--CATTCAATATAATCAATAGATATTGCTCATTTGAGCAACTTTCAGTA
* * *
51585857 TAATTAGTGGAT
63 TAATCAGTAGAC
* * * * * *
51585869 ATCGCTCGTTTGAGAAACTTTCAATATAATCAATAGACATTTCTCTTTTGAGC-ACGTTT-AGTA
1 ATTGCTC-TTTGAG-CACATTCAATATAATCAATAGATATTGCTCATTTGAGCAAC-TTTCAGTA
* *
51585932 TATTCAGTAGAT
63 TAATCAGTAGAC
* * *
51585944 ATTGCTCATTTGAGCCCATTCAATATAATCAATGGATATTGCTTATTTGAGCAACTTTCAGTATA
1 ATTGCTC-TTTGAGCACATTCAATATAATCAATAGATATTGCTCATTTGAGCAACTTTCAGTATA
51586009 ATCAGTAGAC
65 ATCAGTAGAC
** * * * * * *
51586019 ATTGCTCTTTTTGCACATT-AAGTAGT-TTCAGTATATATTGCTCATTTAAGC-ACATTCAATAT
1 ATTGCTCTTTGAGCACATTCAA-TA-TAATCAATAGATATTGCTCATTTGAGCAACTTTCAGTAT
*
51586081 AATCAATAGAC
64 AATCAGTAGAC
* * * * * ** *
51586092 ATTGCTTGTTTGAACTCATTCAGTATAATCAATGGATATCACTCGTTTGAGCAACTTTCAGTATA
1 ATTGC-TCTTTGAGCACATTCAATATAATCAATAGATATTGCTCATTTGAGCAACTTTCAGTATA
51586157 ATCAGTAGAC
65 ATCAGTAGAC
*
51586167 ATTGCTCTTTTGAGCACGTTCAATATA
1 ATTGCTC-TTTGAGCACATTCAATATA
51586194 TTTAGTATTC
Statistics
Matches: 252, Mismatches: 62, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
73 27 0.11
74 92 0.37
75 117 0.46
76 15 0.06
77 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (74 bp):
ATTGCTCTTTGAGCACATTCAATATAATCAATAGATATTGCTCATTTGAGCAACTTTCAGTATAA
TCAGTAGAC
Found at i:51586096 original size:111 final size:112
Alignment explanation
Indices: 51585793--51586193 Score: 387
Period size: 112 Copynumber: 3.6 Consensus size: 112
51585783 ATCTGTGGAT
* ** * *
51585793 ATTGCTCGTTTGAGCATGCATTCCGTATAATT-AGTATATATTGCTCGTTTGAGCCCATTCAGTA
1 ATTGCTCTTTTGAGCA--CATTAAGTAT-ATTCAGTATATATTGCTCATTTGAGCCCATTCAATA
* * * * * *
51585857 TAATTAGTGGATATCGCTCGTTTGAGAAACTTTCAATATAATCAATAGAC
63 TAATCAATGGATATTGCTTGTTTGAGCAACTTTCAGTATAATCAATAGAC
* * * *
51585907 ATTTCTCTTTTGAGCACGTTTAGTATATTCAGTAGATATTGCTCATTTGAGCCCATTCAATATAA
1 ATTGCTCTTTTGAGCACATTAAGTATATTCAGTATATATTGCTCATTTGAGCCCATTCAATATAA
* *
51585972 TCAATGGATATTGCTTATTTGAGCAACTTTCAGTATAATCAGTAGAC
66 TCAATGGATATTGCTTGTTTGAGCAACTTTCAGTATAATCAATAGAC
* * *
51586019 ATTGCTCTTTT-TGCACATTAAGTAGT-TTCAGTATATATTGCTCATTTAAGCACATTCAATATA
1 ATTGCTCTTTTGAGCACATTAAGTA-TATTCAGTATATATTGCTCATTTGAGCCCATTCAATATA
* * * * * * *
51586082 ATCAATAGACATTGCTTGTTTGAAC-TCATTCAGTATAATCAATGGAT
65 ATCAATGGATATTGCTTGTTTGAGCAACTTTCAGTATAATCAATAGAC
** * * * * * * * * *
51586129 ATCACTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACGTTCAATATA
1 ATTGCTCTTTTGAGC-ACATTAAGTATATTCAGTATATATTGCTCATTTGAGCCCATTCAATATA
51586194 TTTAGTATTC
Statistics
Matches: 238, Mismatches: 44, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
110 25 0.11
111 71 0.30
112 128 0.54
114 14 0.06
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (112 bp):
ATTGCTCTTTTGAGCACATTAAGTATATTCAGTATATATTGCTCATTTGAGCCCATTCAATATAA
TCAATGGATATTGCTTGTTTGAGCAACTTTCAGTATAATCAATAGAC
Found at i:51594844 original size:40 final size:40
Alignment explanation
Indices: 51594789--51595003 Score: 308
Period size: 40 Copynumber: 5.4 Consensus size: 40
51594779 ATGATAACCA
51594789 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
*
51594829 GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* *
51594869 GGCTAAGTCCCGAAGGCATTAGTGCGAGTTACTATTTCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* ** *
51594909 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* *
51594949 GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTTCCG
**
51594988 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
51595004 TACTTGGTTG
Statistics
Matches: 158, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.10
40 142 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
Found at i:51598252 original size:27 final size:27
Alignment explanation
Indices: 51598222--51598414 Score: 260
Period size: 27 Copynumber: 7.1 Consensus size: 27
51598212 TTAGTTTATC
51598222 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
51598249 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
51598276 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
51598303 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * **
51598330 AAATTAGTAAAATACCCTTTGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
51598357 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
51598384 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
51598411 AAAT
1 AAAT
51598415 CACNCCTGTA
Statistics
Matches: 142, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:51598360 original size:81 final size:81
Alignment explanation
Indices: 51598213--51598414 Score: 332
Period size: 81 Copynumber: 2.5 Consensus size: 81
51598203 TAGAATACGT
* * *
51598213 TAGTTTATCAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAA
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTACAAA
51598278 ATTACCAAAATACCCC
66 ATTACCAAAATACCCC
* *
51598294 TGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTAGTAAAATACCCTTTGTTTACAAA
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTACAAA
51598359 ATTACCAAAATACCCC
66 ATTACCAAAATACCCC
* * *
51598375 TAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAAT
1 TAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAAT
51598415 CACNCCTGTA
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (81 bp):
TAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTACAAA
ATTACCAAAATACCCC
Found at i:51598450 original size:27 final size:27
Alignment explanation
Indices: 51598419--51598761 Score: 497
Period size: 27 Copynumber: 12.7 Consensus size: 27
51598409 TAAAATCACN
51598419 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
51598446 CCTGTAGGGTAGAATTATCGCAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
51598473 CCTATAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
51598500 CCTATATGGTAGAATTAACGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
51598527 CCTGTATGGTAGAATTATCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
51598554 CCTGTAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
* *
51598581 CCTGTAGGGTAGAAATACCGAAATACA
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
51598608 CCTGTAGGGTAGAATTATCGGAATACT
1 CCTGTAGGGTAGAATTACCGAAATACC
* * *
51598635 CTTGTAGGGTAGAATTATCAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
**
51598662 CCTGTAGGGTAGAATTTTCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
51598689 CCTGTAGGGTAGAATTACCAAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
51598716 CCTATAGGGTAGAATTACCGAAATACC
1 CCTGTAGGGTAGAATTACCGAAATACC
*
51598743 CCTGTAAGGTAGAATTACC
1 CCTGTAGGGTAGAATTACC
51598762 ATTTTGCTCC
Statistics
Matches: 285, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 285 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
CCTGTAGGGTAGAATTACCGAAATACC
Found at i:51599240 original size:22 final size:22
Alignment explanation
Indices: 51599188--51599252 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
51599178 TTAAAGCCTT
* *
51599188 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
51599210 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
51599232 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
51599253 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:51599441 original size:27 final size:27
Alignment explanation
Indices: 51599411--51599512 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
51599401 ATTCTGTTAA
* *
51599411 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
51599438 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
51599465 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
51599492 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
51599513 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:51599682 original size:19 final size:19
Alignment explanation
Indices: 51599660--51599717 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
51599650 TTCTGATTTT
51599660 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
51599679 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
51599691 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
51599710 TGATTCTG
1 TGATTCTG
51599718 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:51599687 original size:6 final size:6
Alignment explanation
Indices: 51599649--51599768 Score: 95
Period size: 6 Copynumber: 19.3 Consensus size: 6
51599639 TTGCATTCAC
* * *
51599649 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
51599699 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
51599749 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
51599769 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
5 6 0.07
6 68 0.74
7 15 0.16
8 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:51599695 original size:31 final size:31
Alignment explanation
Indices: 51599649--51599784 Score: 177
Period size: 31 Copynumber: 4.4 Consensus size: 31
51599639 TTGCATTCAC
*
51599649 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
51599681 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
51599712 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
51599743 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
51599773 TTTCTTATTCTG
1 ATTCTGATTCTG
51599785 TAATGGGTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.18
31 69 0.73
32 9 0.09
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:51603142 original size:21 final size:21
Alignment explanation
Indices: 51603116--51603169 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
51603106 AGCAAAGGTC
51603116 ACACGCCCGTGTGGATATGGG
1 ACACGCCCGTGTGGATATGGG
51603137 ACACGCCCGTGTGGATATGGG
1 ACACGCCCGTGTGGATATGGG
*
51603158 ACATGCCCGTGT
1 ACACGCCCGTGT
51603170 AGGAAGGCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.20
Consensus pattern (21 bp):
ACACGCCCGTGTGGATATGGG
Found at i:51604857 original size:42 final size:43
Alignment explanation
Indices: 51604752--51604900 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 43
51604742 ATGTGTTTTA
** * * *
51604752 GTGTAAGACCACATCTGAGAC-GTTGGCATCAACT-TGTGATATAC
1 GTGTAAGACCATGTCTGGGACAG-TGGCATCAA-TATTTGAT-TTC
* *
51604796 GTGTAAGACCATGTTTGGGACA-TCGGCATC-GTATTTGATTTC
1 GTGTAAGACCATGTCTGGGACAGT-GGCATCAATATTTGATTTC
* *
51604838 GTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATTTC
* *
51604881 AT-TAAGA-CATGTCTGAGACA
1 GTGTAAGACCATGTCTGGGACA
51604901 TTGACATTGT
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 11 0.13
42 34 0.40
43 18 0.21
44 23 0.27
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATTTC
Found at i:51611207 original size:41 final size:40
Alignment explanation
Indices: 51611149--51611291 Score: 157
Period size: 40 Copynumber: 3.5 Consensus size: 40
51611139 GAGCTTGGTC
51611149 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGC-TTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
51611190 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * *
51611230 CCGAAGGGCCTTCGAGCCAGTGGCCTAAT--CCGAGCTTGGTC
1 TCGAAGGG-CTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
51611271 TCGAAGGGCTTTGAGCCAGTG
1 TCGAAGGGCTTTGAGCCAGTG
51611292 TTAAGAATCG
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 45 0.52
41 37 0.43
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCGAAGGGCTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:51615026 original size:21 final size:21
Alignment explanation
Indices: 51615002--51615044 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51614992 TCAGTTACAA
51615002 GAGTTGATGGATAGAGGTTTC
1 GAGTTGATGGATAGAGGTTTC
51615023 GAGTTGATGGATAGAGGTTTC
1 GAGTTGATGGATAGAGGTTTC
51615044 G
1 G
51615045 CTCGACCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.40, T:0.33
Consensus pattern (21 bp):
GAGTTGATGGATAGAGGTTTC
Found at i:51627744 original size:46 final size:46
Alignment explanation
Indices: 51627694--51627866 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
51627684 TGGTTGAGCA
51627694 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
51627740 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51627785 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
51627833 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51627867 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51627850 original size:93 final size:93
Alignment explanation
Indices: 51627691--51627861 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
51627681 GGATGGTTGA
* *
51627691 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51627756 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
51627784 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51627849 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51627862 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:51639545 original size:12 final size:12
Alignment explanation
Indices: 51639528--51639587 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
51639518 ATTTTAATAG
51639528 TTTAATATTAAA
1 TTTAATATTAAA
51639540 TTTAAT-TTAATA
1 TTTAATATTAA-A
51639552 TTT-ATATTAATA
1 TTTAATATTAA-A
**
51639564 TTATTTTATT-AA
1 TT-TAATATTAAA
51639576 TTTAATATTAAA
1 TTTAATATTAAA
51639588 GTGATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 11 0.28
12 23 0.57
13 2 0.05
14 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:51639691 original size:20 final size:20
Alignment explanation
Indices: 51639666--51639704 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51639656 GATTTAATAT
51639666 TAAATTTAATCTAATATTTG
1 TAAATTTAATCTAATATTTG
*
51639686 TAAATTTAATGTAATATTT
1 TAAATTTAATCTAATATTT
51639705 ATCTTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
TAAATTTAATCTAATATTTG
Found at i:51643675 original size:13 final size:14
Alignment explanation
Indices: 51643644--51643677 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
51643634 AAAGAAAATA
51643644 AAAAATAATTAAAC
1 AAAAATAATTAAAC
*
51643658 AAAAATAATTAGAC
1 AAAAATAATTAAAC
51643672 AAAAAT
1 AAAAAT
51643678 TAAAAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (14 bp):
AAAAATAATTAAAC
Found at i:51650385 original size:17 final size:18
Alignment explanation
Indices: 51650365--51650400 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
51650355 AGGGCACCGT
51650365 AGTGT-AAAGGGCATTAA
1 AGTGTAAAAGGGCATTAA
51650382 AGTGTAAAAGGGCATTAA
1 AGTGTAAAAGGGCATTAA
51650400 A
1 A
51650401 ATGTTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.44, C:0.06, G:0.28, T:0.22
Consensus pattern (18 bp):
AGTGTAAAAGGGCATTAA
Found at i:51658047 original size:16 final size:17
Alignment explanation
Indices: 51658026--51658059 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
51658016 TTGATTACTT
51658026 TCTTTGTATTAAG-AAA
1 TCTTTGTATTAAGCAAA
51658042 TCTTTGTATTAAGCAAA
1 TCTTTGTATTAAGCAAA
51658059 T
1 T
51658060 TATTCTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (17 bp):
TCTTTGTATTAAGCAAA
Found at i:51659156 original size:10 final size:9
Alignment explanation
Indices: 51659141--51659179 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
51659131 TATCAAAATT
51659141 ATAATATAA
1 ATAATATAA
51659150 CATAATATAA
1 -ATAATATAA
*
51659160 ATATTATAA
1 ATAATATAA
51659169 ATAATTATAA
1 ATAA-TATAA
51659179 A
1 A
51659180 ACAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 11 0.42
10 15 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAATATAA
Found at i:51659178 original size:24 final size:24
Alignment explanation
Indices: 51659124--51659172 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
51659114 ATCATCTCAT
51659124 ACATATATATCAAA-ATTATAATATA
1 ACATA-ATAT-AAATATTATAATATA
51659149 ACATAATATAAATATTATAA-ATA
1 ACATAATATAAATATTATAATATA
51659172 A
1 A
51659173 TTATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
ACATAATATAAATATTATAATATA
Found at i:51660151 original size:42 final size:44
Alignment explanation
Indices: 51660097--51660181 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 44
51660087 ATCACTTTAA
*
51660097 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTAAATAT
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATAT
*
51660139 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAAT
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAAT
51660182 TAAATTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 20 0.53
44 1 0.03
45 17 0.45
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (44 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATAT
Found at i:51663662 original size:2 final size:2
Alignment explanation
Indices: 51663655--51663688 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
51663645 TTCAAGGACC
51663655 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
51663689 TCCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:51669731 original size:21 final size:21
Alignment explanation
Indices: 51669705--51669753 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
51669695 TTTTGTGTCT
51669705 ATTTTAGTACTTAAACTTGTA
1 ATTTTAGTACTTAAACTTGTA
51669726 ATTTTAGTACTTAAACTTGTA
1 ATTTTAGTACTTAAACTTGTA
51669747 ATGTTTA
1 AT-TTTA
51669754 TCAAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (21 bp):
ATTTTAGTACTTAAACTTGTA
Found at i:51674242 original size:79 final size:79
Alignment explanation
Indices: 51674111--51674266 Score: 294
Period size: 79 Copynumber: 2.0 Consensus size: 79
51674101 CCCATTGCCT
* *
51674111 TTCCCTTTGGGCTTGAAAAACTTGAACTTGTCTTTCTTCGAAACAATTTCAAGCAAAGACTCAGC
1 TTCCCTTTGGGCTTGAAAAACTTGAACTTGTCTTTCCTCGAAACAATCTCAAGCAAAGACTCAGC
51674176 TACAATCATAGCCC
66 TACAATCATAGCCC
51674190 TTCCCTTTGGGCTTGAAAAACTTGAACTTGTCTTTCCTCGAAACAATCTCAAGCAAAGACTCAGC
1 TTCCCTTTGGGCTTGAAAAACTTGAACTTGTCTTTCCTCGAAACAATCTCAAGCAAAGACTCAGC
51674255 TACAATCATAGC
66 TACAATCATAGC
51674267 TTTTGATAGT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (79 bp):
TTCCCTTTGGGCTTGAAAAACTTGAACTTGTCTTTCCTCGAAACAATCTCAAGCAAAGACTCAGC
TACAATCATAGCCC
Found at i:51680910 original size:14 final size:15
Alignment explanation
Indices: 51680891--51680923 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51680881 TGGCCTACCC
51680891 ATATTA-AATTTTTT
1 ATATTATAATTTTTT
*
51680905 ATATTATCATTTTTT
1 ATATTATAATTTTTT
51680920 ATAT
1 ATAT
51680924 AAAAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
ATATTATAATTTTTT
Found at i:51681140 original size:11 final size:11
Alignment explanation
Indices: 51681121--51681145 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51681111 ACAATAACAA
51681121 CAATATAATAG
1 CAATATAATAG
51681132 CAATATAATAG
1 CAATATAATAG
51681143 CAA
1 CAA
51681146 AATGACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (11 bp):
CAATATAATAG
Found at i:51685517 original size:24 final size:27
Alignment explanation
Indices: 51685461--51685517 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 27
51685451 ATTTTTGTTT
51685461 TATTCTTTTAATTACATGTTAATTTAAA
1 TATT-TTTTAATTACATGTTAATTTAAA
51685489 -A--TTTTAATTA-AT-TTAA-TTAAA
1 TATTTTTTAATTACATGTTAATTTAAA
51685510 TATTTTTT
1 TATTTTTT
51685518 TAAAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 2 0.08
24 13 0.50
27 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTTTTTAATTACATGTTAATTTAAA
Found at i:51685520 original size:21 final size:22
Alignment explanation
Indices: 51685466--51685515 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
51685456 TGTTTTATTC
51685466 TTTTAATTACATGTTAATTTAAAA
1 TTTTAATTA-AT-TTAATTTAAAA
51685490 TTTTAATTAATTTAA-TTAAATA
1 TTTTAATTAATTTAATTTAAA-A
51685512 TTTT
1 TTTT
51685516 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
23 2 0.08
24 9 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAATTAATTTAATTTAAAA
Found at i:51687848 original size:12 final size:12
Alignment explanation
Indices: 51687833--51687858 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51687823 TATGGTCTTA
51687833 TACGAAGTCTCT
1 TACGAAGTCTCT
51687845 TACGAAGTCTCT
1 TACGAAGTCTCT
51687857 TA
1 TA
51687859 TCGGTGCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (12 bp):
TACGAAGTCTCT
Found at i:51688188 original size:49 final size:49
Alignment explanation
Indices: 51687960--51688184 Score: 197
Period size: 48 Copynumber: 4.7 Consensus size: 49
51687950 CGATACCAAA
** * * * * * *
51687960 GCCATATCCTTGATATGGTATTATACAGGATCACATATTGG-TGCCGAT
1 GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
* * * * *
51688008 ACCATATCCCAGACATGGTCTTACACTAGCA-CACATATC-AAAGTCGAT
1 GCCATATCCCAGACATGGTCTTACAC-GGGATCACATATCGGATGTCGAT
** * * * * **
51688056 GCCATATCCTTGATATGGTCTTATACGGGATCACATATTGG-TGCCGGC
1 GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
* * *
51688104 GCCATGTCCCAGACATGGTCTTACACGGGATCTCATCTCGGATGTCGAT
1 GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
51688153 GCCATATCCCAGACATGGTCTTACACGGGATC
1 GCCATATCCCAGACATGGTCTTACACGGGATC
51688185 TCATTAACCA
Statistics
Matches: 136, Mismatches: 36, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
47 2 0.01
48 96 0.71
49 38 0.28
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (49 bp):
GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
Found at i:51690448 original size:5 final size:5
Alignment explanation
Indices: 51690438--51690462 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
51690428 TAATAATTAA
51690438 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
51690463 ATTTTAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:51691848 original size:26 final size:27
Alignment explanation
Indices: 51691807--51691864 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
51691797 AGATCACTAA
*
51691807 TTTTATTTCTTTTCTTTTCATTTTTAT
1 TTTTATTTCTTATCTTTTCATTTTTAT
* *
51691834 TTTTATTT-TTATCTTTTTATTTTTGT
1 TTTTATTTCTTATCTTTTCATTTTTAT
51691860 TTTTA
1 TTTTA
51691865 GTTGTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTATTTCTTATCTTTTCATTTTTAT
Found at i:51691852 original size:20 final size:20
Alignment explanation
Indices: 51691827--51691883 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
51691817 TTTCTTTTCA
51691827 TTTTTATTTTTATTTTTA-T
1 TTTTTATTTTTATTTTTAGT
*
51691846 CTTTTTATTTTTGTTTTTAGT
1 -TTTTTATTTTTATTTTTAGT
51691867 TGTTTTATTTTTATTTT
1 T-TTTTATTTTTATTTT
51691884 CTTTGACCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTTATTTTTAGT
Found at i:51691877 original size:5 final size:6
Alignment explanation
Indices: 51691816--51691883 Score: 64
Period size: 6 Copynumber: 10.5 Consensus size: 6
51691806 ATTTTATTTC
* * *
51691816 TTTTCT TTTCAT TTTTAT TTTTAT TTTTATCT TTTTAT TTTTGT TTTTAGTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T TTTTAT TTTTAT TTTTA--T
51691868 GTTTTAT TTTTAT TTT
1 -TTTTAT TTTTAT TTT
51691884 CTTTGACCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
6 39 0.75
7 1 0.02
8 7 0.13
9 5 0.10
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:51697287 original size:12 final size:12
Alignment explanation
Indices: 51697254--51697287 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51697244 AAACAGAAAG
*
51697254 TATATATATACA
1 TATATATATGCA
*
51697266 TATATATATGTA
1 TATATATATGCA
51697278 TATATATATG
1 TATATATATG
51697288 ACTAGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (12 bp):
TATATATATGCA
Found at i:51698492 original size:13 final size:13
Alignment explanation
Indices: 51698476--51698525 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
51698466 TTTAAACCTA
51698476 ACTTTTCTAAAAC
1 ACTTTTCTAAAAC
*
51698489 ACTTCTC-AAAATC
1 ACTTTTCTAAAA-C
* *
51698502 ACTTTTCCACAAC
1 ACTTTTCTAAAAC
51698515 ACTTTT-TAAAA
1 ACTTTTCTAAAA
51698526 GTATTGCTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
12 7 0.23
13 20 0.67
14 3 0.10
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTTTTCTAAAAC
Found at i:51714989 original size:21 final size:21
Alignment explanation
Indices: 51714963--51715009 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
51714953 ACCTTTGAAC
*
51714963 ATTTAGGAATTGTTTTAAAAG
1 ATTTAGAAATTGTTTTAAAAG
51714984 ATTTAGAAATTGTTTTAAAAG
1 ATTTAGAAATTGTTTTAAAAG
*
51715005 TTTTA
1 ATTTA
51715010 ATAATGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
ATTTAGAAATTGTTTTAAAAG
Found at i:51720722 original size:31 final size:31
Alignment explanation
Indices: 51720675--51720745 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
51720665 TTAAGAATAA
* * **
51720675 AAGAGTTGAGAAAATTGCGAGAGTAGATGTAT
1 AAGA-TTGAGAAAATTGAGAGAATAGATAAAT
*
51720707 AAGATTGAGAGAATTGAGAGAATAGATAAAT
1 AAGATTGAGAAAATTGAGAGAATAGATAAAT
51720738 AAGATTGA
1 AAGATTGA
51720746 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.46, C:0.01, G:0.28, T:0.24
Consensus pattern (31 bp):
AAGATTGAGAAAATTGAGAGAATAGATAAAT
Found at i:51733533 original size:10 final size:10
Alignment explanation
Indices: 51733518--51733548 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
51733508 TAGCTATTTG
51733518 CTGCCCCGCC
1 CTGCCCCGCC
51733528 CTGCCCCGCC
1 CTGCCCCGCC
*
51733538 CTGCCCTGCC
1 CTGCCCCGCC
51733548 C
1 C
51733549 ACCTTTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.68, G:0.19, T:0.13
Consensus pattern (10 bp):
CTGCCCCGCC
Found at i:51733847 original size:16 final size:16
Alignment explanation
Indices: 51733828--51733858 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51733818 TATTTGTGTT
*
51733828 TTATGTTTAAAATTTA
1 TTATGATTAAAATTTA
51733844 TTATGATTAAAATTT
1 TTATGATTAAAATTT
51733859 TAATAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TTATGATTAAAATTTA
Found at i:51734357 original size:14 final size:14
Alignment explanation
Indices: 51734335--51734373 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
51734325 TATGTAATAT
*
51734335 TATTTTAAATAAAA
1 TATTTTAAAAAAAA
*
51734349 TATTATAAAAAAAA
1 TATTTTAAAAAAAA
51734363 TATTTTAAAAA
1 TATTTTAAAAA
51734374 TCTAATCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTTTAAAAAAAA
Found at i:51739101 original size:30 final size:30
Alignment explanation
Indices: 51739060--51739122 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
51739050 TTATGGAAAG
*
51739060 AGATTATCCGTTTTGGCGTGACAGATCTGT
1 AGATTACCCGTTTTGGCGTGACAGATCTGT
51739090 AGATTACCCGTTTTGGCGTGACAGATCTGT
1 AGATTACCCGTTTTGGCGTGACAGATCTGT
51739120 AGA
1 AGA
51739123 CACTCAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (30 bp):
AGATTACCCGTTTTGGCGTGACAGATCTGT
Found at i:51739134 original size:30 final size:30
Alignment explanation
Indices: 51739070--51739134 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
51739060 AGATTATCCG
* **
51739070 TTTTGGCGTGACAGATCTGTAGATTACCCG
1 TTTTGGCGTGACAGATCTGTAGATCACCAA
51739100 TTTTGGCGTGACAGATCTGTAGA-CACTCAA
1 TTTTGGCGTGACAGATCTGTAGATCAC-CAA
51739130 TTTTG
1 TTTTG
51739135 CCCGGGCCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (30 bp):
TTTTGGCGTGACAGATCTGTAGATCACCAA
Found at i:51739361 original size:18 final size:19
Alignment explanation
Indices: 51739308--51739421 Score: 178
Period size: 19 Copynumber: 5.9 Consensus size: 19
51739298 ATAATCTTCA
51739308 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51739327 ATGATATGATACAATCTTAGAT
1 ATGATATG---CAATCTTAGAT
51739349 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
51739367 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51739386 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
51739404 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
51739422 AGATTTGATT
Statistics
Matches: 88, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
18 33 0.38
19 37 0.42
21 2 0.02
22 16 0.18
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Done.