Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 158 of 410
Found at i:48055184 original size:6 final size:6
Alignment explanation
Indices: 48055175--48055202 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48055165 ATAAAAGTAA
48055175 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
48055203 TGAGTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:48055186 original size:20 final size:20
Alignment explanation
Indices: 48055152--48055197 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
48055142 TGAGTCCTCA
* *
48055152 AAAATAAATAGAAATAAAAGT
1 AAAA-AAATAAAAATAAAAAT
48055173 AAAAAAATAAAAATAAAAAT
1 AAAAAAATAAAAATAAAAAT
48055193 AAAAA
1 AAAAA
48055198 TAAAATGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAAAATAAAAATAAAAAT
Found at i:48065169 original size:45 final size:45
Alignment explanation
Indices: 48065105--48065356 Score: 375
Period size: 45 Copynumber: 5.6 Consensus size: 45
48065095 TATTGTACGG
* * * *
48065105 TACTATTCGGGACTTTGAGCCTAGTAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
*
48065150 TACTATTCGGGCCTTTGAGCCTAGCAGTCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
*
48065195 TACTATTCGGGCCTTTGAGCCTAGCAGTCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
*
48065240 TACTATTCGGGCCTTTGAGCCTAGCAGTCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
* * *
48065285 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
*
48065330 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
48065357 GAAATACCGG
Statistics
Matches: 197, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
43 17 0.09
44 5 0.03
45 174 0.88
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:48069630 original size:31 final size:31
Alignment explanation
Indices: 48069579--48069652 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
48069569 ACATATACTA
*
48069579 GGCTGAAGCC-TTTCATAATTCATAACACTG
1 GGCTGAAGCCTTTTCAAAATTCATAACACTG
*
48069609 GGCTGAAGCCTTTTCAAAATTCATATCACTG
1 GGCTGAAGCCTTTTCAAAATTCATAACACTG
**
48069640 GGCCAAAGCCTTT
1 GGCTGAAGCCTTT
48069653 ACTGTAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 10 0.26
31 29 0.74
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
GGCTGAAGCCTTTTCAAAATTCATAACACTG
Found at i:48069899 original size:25 final size:25
Alignment explanation
Indices: 48069871--48069942 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
48069861 CTCTTTTAAT
48069871 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * * *
48069896 AACTGTGGCAAAGCCCTTTTCGGTG
1 AACTGGGGCAAAGCCCTTTTTGATA
*
48069921 AACTAGGGCAAAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
48069943 GACTTCCTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:48070012 original size:21 final size:21
Alignment explanation
Indices: 48069988--48070038 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
48069978 TATAATGAGT
*
48069988 ATATCATGTGCACCTCATAAC
1 ATATCATGTGCACATCATAAC
* **
48070009 ATATCATGTGCATATCATGTC
1 ATATCATGTGCACATCATAAC
48070030 ATATCATGT
1 ATATCATGT
48070039 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCACATCATAAC
Found at i:48070022 original size:11 final size:10
Alignment explanation
Indices: 48070008--48070044 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
48069998 CACCTCATAA
48070008 CATATCATGT
1 CATATCATGT
48070018 GCATATCATGT
1 -CATATCATGT
48070029 CATATCATGT
1 CATATCATGT
48070039 -ATATCA
1 CATATCA
48070045 AAATCTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:48077553 original size:31 final size:31
Alignment explanation
Indices: 48077498--48077575 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
48077488 CTCAACATAT
*
48077498 ACTGGGCTGAAGCC-TTTCATAATTCATAAC
1 ACTGGGCTGAAGCCTTTTCAGAATTCATAAC
*
48077528 ACTGGGCTGAAGCCTTTTCAGAATTCATATC
1 ACTGGGCTGAAGCCTTTTCAGAATTCATAAC
48077559 ACTGGGCTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
48077576 ACTGTAAGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 14 0.31
31 31 0.69
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCAGAATTCATAAC
Found at i:48077814 original size:24 final size:25
Alignment explanation
Indices: 48077787--48077838 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
48077777 GCCTAGCCTC
*
48077787 TTTT-AAAAACTAGGGTAAAGCCCT
1 TTTTGAAAAACTAGGGCAAAGCCCT
* *
48077811 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTGAAAAACTAGGGCAAAGCCCT
48077836 TTT
1 TTT
48077839 CGGTGAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTGAAAAACTAGGGCAAAGCCCT
Found at i:48077831 original size:25 final size:25
Alignment explanation
Indices: 48077793--48077865 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
48077783 CCTCTTTTAA
* *
48077793 AAACTAGGGTAAAGCCCTTTTTGAT
1 AAACTGGGGCAAAGCCCTTTTTGAT
* *
48077818 AAACTGGGGCAAAGCCCTTTTCGGT
1 AAACTGGGGCAAAGCCCTTTTTGAT
* * *
48077843 GAATTGGGGCAAAGCCTTTTTTG
1 AAACTGGGGCAAAGCCCTTTTTG
48077866 CACTTCCTCC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (25 bp):
AAACTGGGGCAAAGCCCTTTTTGAT
Found at i:48078031 original size:25 final size:25
Alignment explanation
Indices: 48077988--48078036 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
48077978 ACAATTAAAC
* * *
48077988 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGCGTAAAATAGTCATTTTTA
48078013 CCTAGGCGTAAAATAGTCATTTTT
1 CCTAGGCGTAAAATAGTCATTTTT
48078037 CATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (25 bp):
CCTAGGCGTAAAATAGTCATTTTTA
Found at i:48081741 original size:43 final size:43
Alignment explanation
Indices: 48081675--48081839 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 43
48081665 TAACTCGTAT
* * * * *
48081675 AATACC-ATATCCCATATATGGTCTTACATGTTATCACATATC
1 AATACCAATGTCCCAGACATGGTCTTACACGTAATCACATATC
* * ** * *
48081717 AATACCACTGTCCCAGACAGGGTCTTACACAAAATCATATAAC
1 AATACCAATGTCCCAGACATGGTCTTACACGTAATCACATATC
* * * *
48081760 GATGCCAATGTCCCAGACATGGTCTTACACGTATTCATA-ATAC
1 AATACCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-C
* *
48081803 AATTCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 AATACCAATGTCCCAGACATGGTCTTACACGTAATCA
48081840 ATGTCCCATA
Statistics
Matches: 98, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
42 7 0.07
43 91 0.93
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (43 bp):
AATACCAATGTCCCAGACATGGTCTTACACGTAATCACATATC
Found at i:48081842 original size:30 final size:30
Alignment explanation
Indices: 48081808--48081869 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
48081798 AATACAATTC
48081808 CAATGTCCCAGACATGGTCTTACATGTAAT
1 CAATGTCCCAGACATGGTCTTACATGTAAT
* *
48081838 CAATGTCCCATACATGGTCTTCCATGTAAT
1 CAATGTCCCAGACATGGTCTTACATGTAAT
48081868 CA
1 CA
48081870 CATCTCGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (30 bp):
CAATGTCCCAGACATGGTCTTACATGTAAT
Found at i:48086494 original size:29 final size:28
Alignment explanation
Indices: 48086462--48086535 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
48086452 TTCGGGCCAG
48086462 ATGGGCCATATGAATGTGATTTGGACCTA
1 ATGGGCCATATGAATGTGA-TTGGACCTA
* *
48086491 ATGGGCCATATGAATGAGATTGGGCCTA
1 ATGGGCCATATGAATGTGATTGGACCTA
* *
48086519 GTGGGCCATATGCATGT
1 ATGGGCCATATGAATGT
48086536 ATGTAGACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 22 0.55
29 18 0.45
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
ATGGGCCATATGAATGTGATTGGACCTA
Found at i:48086523 original size:28 final size:28
Alignment explanation
Indices: 48086450--48086530 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
48086440 GCTTGGAATT
*
48086450 GATTCGGGCC-AGATGGGCCATATGAATGT
1 GATT-GGGCCTAG-TGGGCCATATGAATGA
* *
48086479 GATTTGGACCTAATGGGCCATATGAATGA
1 GA-TTGGGCCTAGTGGGCCATATGAATGA
48086508 GATTGGGCCTAGTGGGCCATATG
1 GATTGGGCCTAGTGGGCCATATG
48086531 CATGTATGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.42
29 23 0.51
30 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATGAATGA
Found at i:48086859 original size:27 final size:27
Alignment explanation
Indices: 48086829--48086891 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
48086819 GTAATAAAGA
48086829 AAAATTA-TAGAAATACCCCTGA-TTTAC
1 AAAATTACTA-AAATA-CCCTGAGTTTAC
*
48086856 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACTAAAATACCCTGAGTTTAC
48086883 AAAATTACT
1 AAAATTACT
48086892 GAATACCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTGAGTTTAC
Found at i:48086912 original size:26 final size:27
Alignment explanation
Indices: 48086893--48086976 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
48086883 AAAATTACTG
48086893 AATACCTTTGACTTGTAAAATTACCAA
1 AATACCTTTGACTTGTAAAATTACCAA
** * * * *
48086920 AATACCCCTAATTTGTGAAATTATCAA
1 AATACCTTTGACTTGTAAAATTACCAA
*
48086947 AATACCTTCGACTTGTAAAATTACCAA
1 AATACCTTTGACTTGTAAAATTACCAA
48086974 AAT
1 AAT
48086977 GCCCCTAAGG
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
AATACCTTTGACTTGTAAAATTACCAA
Found at i:48086914 original size:53 final size:54
Alignment explanation
Indices: 48086856--48086984 Score: 161
Period size: 54 Copynumber: 2.4 Consensus size: 54
48086846 CCTGATTTAC
* * * ** *
48086856 AAAATTACTAAAATACCCTTAGTTTACAAAATTA-CTGAATACCTTTGACTTGT
1 AAAATTACCAAAATACCCCTAATTTACAAAATTATCAAAATACCTTCGACTTGT
***
48086909 AAAATTACCAAAATACCCCTAATTTGTGAAATTATCAAAATACCTTCGACTTGT
1 AAAATTACCAAAATACCCCTAATTTACAAAATTATCAAAATACCTTCGACTTGT
*
48086963 AAAATTACCAAAATGCCCCTAA
1 AAAATTACCAAAATACCCCTAA
48086985 GGGCAAGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 28 0.43
54 37 0.57
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTACAAAATTATCAAAATACCTTCGACTTGT
Found at i:48091861 original size:11 final size:11
Alignment explanation
Indices: 48091845--48091869 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48091835 AAAATTTAGC
48091845 TACATTAAGGT
1 TACATTAAGGT
48091856 TACATTAAGGT
1 TACATTAAGGT
48091867 TAC
1 TAC
48091870 TTGGGCGGCA
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:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (11 bp):
TACATTAAGGT
Found at i:48097468 original size:22 final size:22
Alignment explanation
Indices: 48097393--48097460 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
48097383 CACTGAGTCA
*
48097393 ACAGGAC-GACTCAACGCCGTAG
1 ACAGGACAG-CTCAATGCCGTAG
*
48097415 ACAAGACAGCTCAATGCCGTAG
1 ACAGGACAGCTCAATGCCGTAG
48097437 ACAGGACAGCTCAATGCCGTAG
1 ACAGGACAGCTCAATGCCGTAG
48097459 AC
1 AC
48097461 TCTGCAGCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.25, T:0.12
Consensus pattern (22 bp):
ACAGGACAGCTCAATGCCGTAG
Found at i:48105781 original size:40 final size:40
Alignment explanation
Indices: 48105736--48105902 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
48105726 CGGAATATAA
48105736 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48105776 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48105816 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
48105856 CC-GATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48105895 CCGGATAT
1 CCGGATAT
48105903 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 31 0.30
40 74 0.70
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48113799 original size:40 final size:40
Alignment explanation
Indices: 48113754--48113920 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
48113744 CGGAATATAA
48113754 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48113794 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48113834 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48113874 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48113913 CCGGATAT
1 CCGGATAT
48113921 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:48117212 original size:40 final size:40
Alignment explanation
Indices: 48117167--48117334 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
48117157 CGGAATATAA
48117167 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
48117207 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48117247 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
48117287 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48117327 CCGGATAT
1 CCGGATAT
48117335 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48120702 original size:43 final size:42
Alignment explanation
Indices: 48120601--48120721 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
48120591 TAGGGTAACT
* *
48120601 GAGATTACATGTAAGACCATATCGGGGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
* * *
48120643 AAGACTT-CATGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGATA-TGGCATCGATAC
* *
48120686 GAGATTACATGCAAGACCATATCTGGGATATAGCAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
48120722 TGGTACGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:48124712 original size:2 final size:2
Alignment explanation
Indices: 48124705--48124729 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48124695 TCATTTCAGC
48124705 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
48124730 GCATTTAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48125876 original size:42 final size:42
Alignment explanation
Indices: 48125815--48125935 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 42
48125805 TAAGGTTACT
* * * *
48125815 GAGATTATGTGTAAAACCATATTTGGGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* * *
48125857 GAGACTT-CGTGTAAGACCATAGCTGGGCTATTGCCATCGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAC
** *
48125900 GAGATTACAAGTAAGACCATATCTGGGATATAGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
48125936 TGGTATGGTA
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:48142618 original size:15 final size:15
Alignment explanation
Indices: 48142598--48142640 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
48142588 CGATGTAAAT
*
48142598 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
48142613 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
*
48142628 TAGATTTCTTTAT
1 TGGATTTCTTTAT
48142641 TCTGGGCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:48146469 original size:40 final size:41
Alignment explanation
Indices: 48146424--48146590 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
48146414 CGGAATATAA
*
48146424 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
48146464 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48146504 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48146544 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
48146583 CCGGATAT
1 CCGGATAT
48146591 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48147438 original size:17 final size:19
Alignment explanation
Indices: 48147415--48147460 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
48147405 AAGAAGCATG
48147415 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
48147433 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
48147451 AATCATGCTC
1 AATCATGCTC
48147461 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:48158877 original size:40 final size:40
Alignment explanation
Indices: 48158818--48158959 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
48158808 AAATTGAATG
* * *
48158818 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
48158858 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
48158898 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
48158938 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48158960 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:48158960 original size:40 final size:39
Alignment explanation
Indices: 48158857--48158985 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
48158847 TGCTGGAAAT
* * *
48158857 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
48158897 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
48158937 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
48158977 TATATCCGG
1 TATATCCGG
48158986 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:48166114 original size:31 final size:31
Alignment explanation
Indices: 48166079--48166137 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
48166069 AAGAAGTAAA
48166079 ACCACAATCTAACAGTCATCACCTACCAAAG
1 ACCACAATCTAACAGTCATCACCTACCAAAG
48166110 ACCACAATCTAACAGTCATCACCTACCA
1 ACCACAATCTAACAGTCATCACCTACCA
48166138 CGATTAGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.37, G:0.05, T:0.17
Consensus pattern (31 bp):
ACCACAATCTAACAGTCATCACCTACCAAAG
Found at i:48172402 original size:36 final size:36
Alignment explanation
Indices: 48172362--48172433 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
48172352 TTCTGACCTT
*
48172362 TTAACACAATATGCTTTCATTTATAATTCACAACAA
1 TTAACACAATATGCTGTCATTTATAATTCACAACAA
48172398 TTAACACAATATGCTGTCATTTATAATTCACAACAA
1 TTAACACAATATGCTGTCATTTATAATTCACAACAA
48172434 CATCATGCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (36 bp):
TTAACACAATATGCTGTCATTTATAATTCACAACAA
Found at i:48175312 original size:43 final size:43
Alignment explanation
Indices: 48175216--48175338 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
48175206 ATCGAGATGT
* * * *
48175216 GATTACATGTAAGACAATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
* * *
48175259 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGA
* * *
48175302 GATTCCGTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
48175339 ATATGTGTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 64 0.96
44 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
Found at i:48179767 original size:40 final size:41
Alignment explanation
Indices: 48179678--48179823 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
48179668 CGTTGACTCA
*
48179678 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGC-C
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
48179718 TGAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 -AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
48179759 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
48179800 AAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
48179824 AATTTAAACC
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 31 0.34
41 59 0.66
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:48183550 original size:29 final size:29
Alignment explanation
Indices: 48183517--48183590 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
48183507 GTGACGAGAT
48183517 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
48183546 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
48183575 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48183591 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:48183606 original size:29 final size:29
Alignment explanation
Indices: 48183574--48183649 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
48183564 CTGGAAATAT
* *
48183574 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
48183603 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
48183632 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
48183650 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:48183617 original size:58 final size:58
Alignment explanation
Indices: 48183517--48183649 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
48183507 GTGACGAGAT
* * * * * *
48183517 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
48183575 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
48183633 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
48183650 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:48191410 original size:29 final size:29
Alignment explanation
Indices: 48191377--48191450 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
48191367 GTGACGAGAT
48191377 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
48191406 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
48191435 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48191451 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:48191466 original size:29 final size:29
Alignment explanation
Indices: 48191434--48191509 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
48191424 CTGGAAATAT
* *
48191434 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
48191463 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
48191492 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
48191510 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:48191477 original size:58 final size:58
Alignment explanation
Indices: 48191377--48191509 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
48191367 GTGACGAGAT
* * * * * *
48191377 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
48191435 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
48191493 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
48191510 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:48198038 original size:40 final size:40
Alignment explanation
Indices: 48197894--48198039 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 40
48197884 AATTGAATGA
* * * * ** *
48197894 TATCCGGGCTAAGCCCCGAAGACAATCATGCTG-GAAATTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTC
* * *
48197934 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT--CATTC
48197975 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
48198014 TATCCGGGCTAAGACCCGAAGGCATT
1 TATCCGGGCTAAGACCCGAAGGCATT
48198040 TGAGCACATG
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 77 0.90
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
Found at i:48198058 original size:40 final size:40
Alignment explanation
Indices: 48197931--48198060 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
48197921 ATGCTGGAAA
* * *
48197931 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
48197971 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * *
48198011 TTCTATCCGGGCTAAGACCCGAAGGCATTTGAGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
48198051 TTATATCCGG
1 TTATATCCGG
48198061 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:48198059 original size:80 final size:80
Alignment explanation
Indices: 48197893--48198060 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 80
48197883 AAATTGAATG
* *
48197893 ATATCCGGGCTAAGCCCCGAAGACAATCATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
* *
48197958 ATTGTGCTAGTGGCT
66 ATTGAGCTAATGGCT
* * * * ** *
48197973 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACAATCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
* *
48198037 ATTTGAGC-ACATGGTT
65 AATTGAGCTA-ATGGCT
48198053 ATATCCGG
1 ATATCCGG
48198061 TTATATTCCG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 2 0.03
80 70 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGAGCTAATGGCT
Found at i:48210766 original size:14 final size:14
Alignment explanation
Indices: 48210747--48210777 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48210737 TCTTCTTGGC
*
48210747 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
48210761 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
48210775 CGG
1 CGG
48210778 ACCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:48226572 original size:5 final size:5
Alignment explanation
Indices: 48226562--48226589 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48226552 GCTAGGCATA
48226562 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTT
48226590 TTGGGTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (5 bp):
TTTGG
Found at i:48228528 original size:40 final size:39
Alignment explanation
Indices: 48228464--48228650 Score: 214
Period size: 39 Copynumber: 4.8 Consensus size: 39
48228454 GCTACTCGTT
* * * ** *
48228464 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
48228504 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
48228544 CAATTGCCTTCGGGCTTAGCCC-GATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * *
48228582 CAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
48228621 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
48228651 CTCGAACATT
Statistics
Matches: 130, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 37 0.28
39 48 0.37
40 45 0.35
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:48228622 original size:77 final size:79
Alignment explanation
Indices: 48228469--48228650 Score: 251
Period size: 77 Copynumber: 2.3 Consensus size: 79
48228459 TCGTTCAAAC
* * **
48228469 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
48228534 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * *
48228549 GCCTTCGGGCTTAGCCC-GATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATGTCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
* *
48228612 CAATTTGCACAATT
66 CAACTCGCACAATT
48228626 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
48228651 CTCGAACATT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
77 43 0.47
78 32 0.35
79 7 0.08
80 9 0.10
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:48228633 original size:39 final size:39
Alignment explanation
Indices: 48228500--48228651 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
48228490 TATGGTAACC
* *
48228500 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
48228540 CGCACAATTGCCTTCGGGCTTAGCCC-GATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
48228578 CGCACAATTGCCTTCGGGCTTAGCCCGGATGTCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48228617 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
48228652 TCGAACATTT
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 37 0.36
39 49 0.48
40 17 0.17
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48235818 original size:40 final size:39
Alignment explanation
Indices: 48235754--48235941 Score: 223
Period size: 39 Copynumber: 4.8 Consensus size: 39
48235744 GCTACTCGTT
* * * ** *
48235754 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
48235794 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
48235834 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * *
48235873 CAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
48235912 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
48235942 CTCGAACATT
Statistics
Matches: 132, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 87 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:48235869 original size:39 final size:39
Alignment explanation
Indices: 48235790--48235942 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
48235780 TATGGTAACC
* *
48235790 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
48235830 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
48235869 CGCACAATTGCCTTCGGGCTTAGCCCGGATGTCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48235908 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
48235943 TCGAACATTT
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48235920 original size:78 final size:79
Alignment explanation
Indices: 48235759--48235941 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 79
48235749 TCGTTCAAAC
* * **
48235759 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
48235824 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * *
48235839 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATGTCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
* *
48235903 CAATTTGCACAATT
66 CAACTCGCACAATT
48235917 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
48235942 CTCGAACATT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
78 51 0.55
79 33 0.35
80 9 0.10
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:48241935 original size:46 final size:46
Alignment explanation
Indices: 48241779--48241946 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 46
48241769 TGTAACCCGC
* * ***
48241779 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCAT
* * * *
48241825 CCAT-AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC---TGAC-A-TTCGCAT
* *
48241874 --TTCA-CGAACTC-GACTCAACTCAACGAGTTCTGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCAT
*
48241916 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
48241947 CTCGGATGCT
Statistics
Matches: 95, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 3 0.03
44 2 0.02
45 32 0.34
46 38 0.40
47 7 0.07
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCTGACATTCGCAT
Found at i:48241943 original size:92 final size:92
Alignment explanation
Indices: 48241786--48241955 Score: 261
Period size: 92 Copynumber: 1.8 Consensus size: 92
48241776 CGCCCATAAG
***
48241786 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
*
48241851 CAAGTTCGGATGCCTAGTTACATTTCA
66 CAAGCTCGGATGCCTAGTTACATTTCA
* *
48241878 CGAACTC-GACTCAACTCAACGAGTTCTGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCA
*
48241942 ACGAGCTCGGATGC
65 ACAAGCTCGGATGC
48241956 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
91 30 0.43
92 40 0.57
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATTTCA
Found at i:48241971 original size:46 final size:45
Alignment explanation
Indices: 48241787--48241971 Score: 114
Period size: 46 Copynumber: 4.0 Consensus size: 45
48241777 GCCCATAAGC
* * *
48241787 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTC--GCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-C-TAGT
* * * *
48241832 GAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCT-AGT
* * * * * *
48241879 GAACTC-GACTCAACTCAACGAGTTCTGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGCTC-G-GATGCTCAACCATCTAGT
48241924 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-CTAGT
48241970 GA
1 GA
48241972 CATGTCACTT
Statistics
Matches: 107, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
44 11 0.10
45 35 0.33
46 44 0.41
47 8 0.07
48 5 0.05
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCTAGT
Found at i:48244357 original size:25 final size:26
Alignment explanation
Indices: 48244328--48244376 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
48244318 AAAGATAACA
48244328 AGAAAACC-GAATAAAGAAATCCAAG
1 AGAAAACCGGAATAAAGAAATCCAAG
*
48244353 AGAAACCCGGAATAAAGAAATCCA
1 AGAAAACCGGAATAAAGAAATCCA
48244377 GAATAAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.57, C:0.18, G:0.16, T:0.08
Consensus pattern (26 bp):
AGAAAACCGGAATAAAGAAATCCAAG
Found at i:48244380 original size:15 final size:15
Alignment explanation
Indices: 48244362--48244402 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
48244352 GAGAAACCCG
48244362 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
48244377 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
48244392 GGATAAAGAAA
1 GAATAAAGAAA
48244403 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:48244411 original size:15 final size:15
Alignment explanation
Indices: 48244364--48244411 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
48244354 GAAACCCGGA
48244364 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
48244378 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
48244394 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
48244409 ATA
1 ATA
48244412 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48247429 original size:93 final size:93
Alignment explanation
Indices: 48247317--48247488 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48247307 CGCCCATAAG
* *
48247317 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48247382 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48247410 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48247475 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48247489 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48247485 original size:46 final size:46
Alignment explanation
Indices: 48247310--48247485 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48247300 TGTAACCCGC
* * *
48247310 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48247356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48247406 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48247449 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48247486 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48250186 original size:56 final size:56
Alignment explanation
Indices: 48250126--48250262 Score: 202
Period size: 56 Copynumber: 2.4 Consensus size: 56
48250116 GTCCCAGACA
* * *
48250126 TGGTCTTACTCACACACATATATCGGAATCACATATTGATGCCAACGTATTAAACG
1 TGGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACG
* ** *
48250182 TGGTCTTACTCGCACATATATATTAGAATCACATATCGATGCCAACATATTAAATG
1 TGGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACG
*
48250238 TGGTCTTACCCGCACACATATATCG
1 TGGTCTTACTCGCACACATATATCG
48250263 ATGCCATGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (56 bp):
TGGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACG
Found at i:48251421 original size:14 final size:15
Alignment explanation
Indices: 48251404--48251432 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48251394 ACACAAAAAG
48251404 TTCACACA-TATAAA
1 TTCACACATTATAAA
48251418 TTCACACATTATAAA
1 TTCACACATTATAAA
48251433 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:48255379 original size:30 final size:30
Alignment explanation
Indices: 48255345--48255407 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
48255335 AGCATCAAAA
48255345 CATGTTATATTATCAACATAGCCAAATAAG
1 CATGTTATATTATCAACATAGCCAAATAAG
48255375 CATGTTATATTATCAACATAGCCAAATAAG
1 CATGTTATATTATCAACATAGCCAAATAAG
48255405 CAT
1 CAT
48255408 TTTAAACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (30 bp):
CATGTTATATTATCAACATAGCCAAATAAG
Found at i:48257838 original size:40 final size:40
Alignment explanation
Indices: 48257710--48257861 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
48257700 ATAACCATGT
* * *
48257710 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
48257750 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48257790 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
48257830 GCATAATTGTCTTCGGGAT-TTAGCCTGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
48257862 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 85 0.94
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:48257844 original size:80 final size:80
Alignment explanation
Indices: 48257710--48257859 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
48257700 ATAACCATGT
*
48257710 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
48257774 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
48257790 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
*
48257853 CCTGGAT
64 CCCGGAT
48257860 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:48262434 original size:21 final size:21
Alignment explanation
Indices: 48262410--48262453 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
48262400 GACTATAGTC
*
48262410 ATATTTGACGAGAATTCGACT
1 ATATTTGACAAGAATTCGACT
*
48262431 ATATTTGACAAGAATTCGGCT
1 ATATTTGACAAGAATTCGACT
48262452 AT
1 AT
48262454 GTATGTCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATATTTGACAAGAATTCGACT
Found at i:48262514 original size:40 final size:40
Alignment explanation
Indices: 48262450--48262578 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
48262440 AAGAATTCGG
*
48262450 CTATGTAT-GTCACTTAGTGTGCGATTCGGGATAGCTTCAA
1 CTATGTATAG-CACTTAGTGTGCGATTCGAGATAGCTTCAA
* * * **
48262490 CTATGTATAGCACTTTGTGAGCGATTTGAGATAGCTTCGG
1 CTATGTATAGCACTTAGTGTGCGATTCGAGATAGCTTCAA
* ** * *
48262530 CTATGTATAGAACTTAGTGTGCGATATTAAAATAGCTTCAG
1 CTATGTATAGCACTTAGTGTGCGAT-TCGAGATAGCTTCAA
48262571 CTATGTAT
1 CTATGTAT
48262579 TGTTTTTCCA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
40 54 0.72
41 21 0.28
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (40 bp):
CTATGTATAGCACTTAGTGTGCGATTCGAGATAGCTTCAA
Found at i:48265331 original size:7 final size:7
Alignment explanation
Indices: 48265319--48265346 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48265309 AGGTAAGTTC
48265319 GTGAATT
1 GTGAATT
48265326 GTGAATT
1 GTGAATT
48265333 GTGAATT
1 GTGAATT
48265340 GTGAATT
1 GTGAATT
48265347 CAACTCTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
GTGAATT
Found at i:48265511 original size:48 final size:48
Alignment explanation
Indices: 48265439--48265584 Score: 161
Period size: 48 Copynumber: 3.0 Consensus size: 48
48265429 TGTCATTAGG
* * *
48265439 GATACATTGATTTGGCTT-TGGGCCATGATATTAGCACTTTGGGTGCGA
1 GATACATTGATTTGGCTTCT-GGCCATGATACTAGCACTTAGAGTGCGA
* * * * *
48265487 GATACATTAATTTGGCTTCTGGCCATGATACCAGAACTTCGAGTGTGA
1 GATACATTGATTTGGCTTCTGGCCATGATACTAGCACTTAGAGTGCGA
* * *
48265535 -ATTACTTTGATTTGGCTTCGGGCCATGATACTAGCACTTAGTGTGCGA
1 GA-TACATTGATTTGGCTTCTGGCCATGATACTAGCACTTAGAGTGCGA
48265583 GA
1 GA
48265585 CTCTTGAGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
47 1 0.01
48 77 0.96
49 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (48 bp):
GATACATTGATTTGGCTTCTGGCCATGATACTAGCACTTAGAGTGCGA
Found at i:48272029 original size:40 final size:39
Alignment explanation
Indices: 48271985--48272147 Score: 200
Period size: 39 Copynumber: 4.1 Consensus size: 39
48271975 GTTCAAAACA
* * ** * *
48271985 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
48272025 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
48272065 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
48272104 CCTTCGGGCTTAGCCCGGATATCACAATTCACACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
48272143 CCTTC
1 CCTTC
48272148 ACATCTTTGT
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 68 0.63
40 40 0.37
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:48272096 original size:39 final size:39
Alignment explanation
Indices: 48272015--48272147 Score: 203
Period size: 39 Copynumber: 3.4 Consensus size: 39
48272005 TATGGTAACC
* *
48272015 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
48272055 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48272094 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48272133 CACACAATTGCCTTC
1 CGCACAATTGCCTTC
48272148 ACATCTTTGT
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 68 0.80
40 17 0.20
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48273944 original size:40 final size:40
Alignment explanation
Indices: 48273879--48274086 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
48273869 TCTTCGGAAT
* ** *
48273879 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48273918 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
48273958 TTAGCCCAGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48273998 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48274038 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
48274078 TTAGCCCGG
1 TTAGCCCGG
48274087 GTATCATTCA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 148 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:48276644 original size:40 final size:40
Alignment explanation
Indices: 48276585--48276726 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
48276575 AAATTGAATG
* * *
48276585 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
48276625 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
48276665 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
48276705 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48276727 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:48276727 original size:40 final size:39
Alignment explanation
Indices: 48276624--48276752 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
48276614 TGCTGGAAAT
* * *
48276624 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
48276664 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
48276704 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
48276744 TATATCCGG
1 TATATCCGG
48276753 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:48284668 original size:40 final size:40
Alignment explanation
Indices: 48284609--48284750 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
48284599 AAATTGAATG
* * *
48284609 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
48284649 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
48284689 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
48284729 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48284751 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:48284751 original size:40 final size:39
Alignment explanation
Indices: 48284648--48284776 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
48284638 TGCTGGAAAT
* * *
48284648 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
48284688 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
48284728 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
48284768 TATATCCGG
1 TATATCCGG
48284777 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:48289549 original size:40 final size:40
Alignment explanation
Indices: 48289483--48289649 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
48289473 AAATTGAATG
* * *
48289483 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
48289522 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
48289562 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
48289602 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
48289642 ATATCCGG
1 ATATCCGG
48289650 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:48293050 original size:30 final size:29
Alignment explanation
Indices: 48293016--48293072 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
48293006 CCCGAGCCTA
48293016 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGC-AAAGTTTAG
* * *
48293046 GGGCAAAATTGTAATTTTGCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAGTTT
48293073 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (29 bp):
GGGCAAAAGTGTAAATATGCAAAGTTTAG
Found at i:48293885 original size:64 final size:65
Alignment explanation
Indices: 48293804--48293959 Score: 183
Period size: 64 Copynumber: 2.4 Consensus size: 65
48293794 AGACATTATG
* * * *
48293804 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAA-AGAGCTACGAGATA
*
48293867 T
65 A
* * *
48293868 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAAGGACACCATGTAGACAAAGAGCTACGAGATA
48293933 A
65 A
* *
48293934 AT-TGGCTAGGTCACATGGGTGGTACT
1 ATGTAGCTAGGTCGCATGGGTGGTACT
48293960 GAATGTTTAC
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 24 0.32
65 19 0.25
66 17 0.22
67 16 0.21
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAAGAGCTACGAGATAA
Found at i:48298190 original size:40 final size:40
Alignment explanation
Indices: 48298116--48298293 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
48298106 GAGTCACGTA
** *
48298116 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
48298155 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
48298195 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
48298235 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
48298275 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
48298294 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:48303378 original size:44 final size:43
Alignment explanation
Indices: 48303316--48303404 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 43
48303306 CGTGTGTAGG
*
48303316 ATAGTTTTTCTCATGCAGCTTCAACTGTCGTGCAACATAGGCT
1 ATAGTTTTTCTCATGCAGCTTCAACTGTCGTGCAACATAAGCT
*
48303359 ATAGTTTTTTCTCATGCAGCTTCAACTGTCGTGCATCATAAGCT
1 ATAG-TTTTTCTCATGCAGCTTCAACTGTCGTGCAACATAAGCT
48303403 AT
1 AT
48303405 TACCTTGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 4 0.09
44 39 0.91
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (43 bp):
ATAGTTTTTCTCATGCAGCTTCAACTGTCGTGCAACATAAGCT
Found at i:48305894 original size:41 final size:41
Alignment explanation
Indices: 48305849--48305966 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48305839 TGAAAGATAA
48305849 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48305890 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48305920 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48305961 ATGTAG
1 ATGTAG
48305967 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48305905 original size:71 final size:71
Alignment explanation
Indices: 48305817--48305980 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48305807 GAGATGTATC
48305817 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48305882 AGGACA
66 AGGACA
48305888 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48305953 AGGACA
66 AGGACA
48305959 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48305981 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48313463 original size:41 final size:41
Alignment explanation
Indices: 48313418--48313535 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
48313408 TGAAAGATAA
48313418 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
48313459 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48313489 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
48313530 ATGTAG
1 ATGTAG
48313536 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:48313474 original size:71 final size:71
Alignment explanation
Indices: 48313386--48313549 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48313376 GAGATGTATC
48313386 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48313451 AGGACA
66 AGGACA
48313457 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48313522 AGGACA
66 AGGACA
48313528 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48313550 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48325393 original size:51 final size:50
Alignment explanation
Indices: 48325322--48325481 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
48325312 CTGATCACAT
48325322 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
48325373 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
48325423 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
48325474 TTGTCACT
1 TTATCACT
48325482 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:48333158 original size:51 final size:50
Alignment explanation
Indices: 48333087--48333246 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
48333077 CTGATCACAT
48333087 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
48333138 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
48333188 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
48333239 TTGTCACT
1 TTATCACT
48333247 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:48354129 original size:40 final size:40
Alignment explanation
Indices: 48354067--48354283 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
48354057 AAGCCAAGTA
* * *
48354067 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
48354106 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
48354146 CCTTC-GGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
48354185 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
48354225 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
48354265 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48354284 TTATCATCCA
Statistics
Matches: 165, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 52 0.32
40 113 0.68
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:48354200 original size:79 final size:79
Alignment explanation
Indices: 48354081--48354283 Score: 293
Period size: 79 Copynumber: 2.5 Consensus size: 79
48354071 CGGGATTTAA
* * *
48354081 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCGGATATAG-TACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48354146 CCTTC-GGACATAGC
65 CCTTCGGGACATAGC
48354160 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCGGATATAGT-ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48354225 CCTTCGGGACTTAGC
65 CCTTCGGGACATAGC
* * *
48354240 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCGGATA-TAGT-ACTCGCACGAATGCCTTCGGGACTTAGCCCGG
48354284 TTATCATCCA
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 66 0.58
80 46 0.41
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
CTTCGGGACATAGC
Found at i:48362213 original size:40 final size:40
Alignment explanation
Indices: 48362151--48362368 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
48362141 AAGCCAAGTA
* * *
48362151 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
48362190 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
48362230 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
48362270 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
48362310 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
48362350 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48362369 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:48364434 original size:16 final size:16
Alignment explanation
Indices: 48364413--48364445 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48364403 ATTTATTTTC
*
48364413 ATTTGCATCATATATA
1 ATTTGCATCACATATA
48364429 ATTTGCATCACATATA
1 ATTTGCATCACATATA
48364445 A
1 A
48364446 AGTAACCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:48364650 original size:43 final size:43
Alignment explanation
Indices: 48364596--48364752 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
48364586 ATATCGTACA
* *
48364596 ATGCCAATGTCCCAGACTTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCG
* * * * *
48364639 ATGCCATTGTCCCAAACAGGGTCTTACACG-GATCAAATA-CG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCG
* * * *
48364680 ATGTCGATGTCCCAGACATGGTCTTACATGTAATCACATATTG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCG
* * *
48364723 ATGTCAACGTCCCAAACGTGGTCTTACATG
1 ATGCCAATGTCCCAAACATGGTCTTACATG
48364753 AGAACACATA
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
41 26 0.28
42 14 0.15
43 52 0.57
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCG
Found at i:48365369 original size:15 final size:15
Alignment explanation
Indices: 48365346--48365375 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48365336 TCAAAAATTC
48365346 TAATACAAAACATAT
1 TAATACAAAACATAT
*
48365361 TAATCCAAAACATAT
1 TAATACAAAACATAT
48365376 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:48365912 original size:14 final size:15
Alignment explanation
Indices: 48365895--48365923 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48365885 ACACGAAAAT
48365895 TTCACACA-TATAAA
1 TTCACACATTATAAA
48365909 TTCACACATTATAAA
1 TTCACACATTATAAA
48365924 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:48381742 original size:19 final size:20
Alignment explanation
Indices: 48381718--48381755 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48381708 GGTACCACCA
48381718 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48381737 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48381756 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48382096 original size:93 final size:93
Alignment explanation
Indices: 48381984--48382155 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
48381974 CGCCCCTAAG
*
48381984 TGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTC
48382048 AACGAGTTCAGATGCCTAGTTACATTTCA
65 AACGAGTTCAGATGCCTAGTTACATTTCA
* * *
48382077 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
48382142 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
48382156 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATTTCA
Found at i:48382152 original size:46 final size:47
Alignment explanation
Indices: 48381980--48382149 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 47
48381970 AACCCGCCCC
* *
48381980 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGACATTCACATCCA
* *
48382026 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAG--GAC-A-TTCACATCCA
* *
48382074 TCA-TGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGACATTCACATCCA
*
48382119 TAAGTGAACTTGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
48382150 GGATGCTCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGACATTCACATCCA
Found at i:48406873 original size:19 final size:20
Alignment explanation
Indices: 48406849--48406886 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48406839 GGTACCACCA
48406849 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48406868 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48406887 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48407178 original size:46 final size:46
Alignment explanation
Indices: 48407111--48407282 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
48407101 AACCCACCCC
* *
48407111 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
*
48407157 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATTC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGC-A--TCCA
* * * *
48407203 TTTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
48407250 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
48407283 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 4 0.04
46 59 0.56
47 28 0.26
48 3 0.03
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:48407224 original size:93 final size:93
Alignment explanation
Indices: 48407116--48407284 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
48407106 ACCCCTAAGT
* *
48407116 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48407181 CGAGTTCGGATTCCTAGTTACATTTCAC
66 CGAGTTCGGATTCCTAGTTACATTTCAC
* *
48407209 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48407274 CGAGTTCGGAT
66 CGAGTTCGGAT
48407285 GCTCAACCAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATTCCTAGTTACATTTCAC
Found at i:48407513 original size:8 final size:8
Alignment explanation
Indices: 48407500--48407526 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
48407490 AGCATCATAT
48407500 CATTTACA
1 CATTTACA
48407508 CATTTACA
1 CATTTACA
48407516 CATTTACA
1 CATTTACA
48407524 CAT
1 CAT
48407527 GAACTTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (8 bp):
CATTTACA
Found at i:48409193 original size:24 final size:23
Alignment explanation
Indices: 48409161--48409269 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
48409151 ACCAAACGTT
* **
48409161 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
48409185 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
48409209 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
48409233 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
48409257 GCACACATAGTGC
1 GCACACATAGTGC
48409270 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:48409235 original size:48 final size:48
Alignment explanation
Indices: 48409161--48409269 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
48409151 ACCAAACGTT
* **
48409161 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
48409209 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
48409257 GCACACATAGTGC
1 GCACACATAGTGC
48409270 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:48413568 original size:39 final size:39
Alignment explanation
Indices: 48413514--48413676 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
48413504 TGTGAATGAA
48413514 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
48413553 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
48413592 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
48413631 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
48413671 TGTGCG
1 TGTGCG
48413677 GGTTACCATA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:48421442 original size:39 final size:39
Alignment explanation
Indices: 48421388--48421550 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
48421378 TGTGAATGAA
48421388 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
48421427 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
48421466 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
48421505 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
48421545 TGTGCG
1 TGTGCG
48421551 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:48421566 original size:40 final size:39
Alignment explanation
Indices: 48421388--48421580 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
48421378 TGTGAATGAA
* *
48421388 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
48421427 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
48421466 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
48421505 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
48421545 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
48421581 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:48425010 original size:29 final size:29
Alignment explanation
Indices: 48424982--48425083 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
48424972 CCTCCGAGCT
** * * *
48424982 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
48425011 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
48425040 CACACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
48425069 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
48425084 GATCTCGTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:48430908 original size:46 final size:46
Alignment explanation
Indices: 48430858--48431033 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
48430848 TGGTTGAGCA
48430858 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48430904 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48430949 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
48430997 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48431034 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48431014 original size:93 final size:93
Alignment explanation
Indices: 48430855--48431025 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
48430845 GGATGGTTGA
* *
48430855 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48430920 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48430948 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48431013 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48431026 ACTTATGGGC
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:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48434440 original size:70 final size:71
Alignment explanation
Indices: 48434289--48434451 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
48434279 GAGATGTATC
48434289 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48434354 AGGACA
66 AGGACA
48434360 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
48434424 CGGACA
66 AGGACA
48434430 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48434452 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48441906 original size:71 final size:71
Alignment explanation
Indices: 48441818--48441981 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
48441808 GAGATGTATC
48441818 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
48441883 AGGACA
66 AGGACA
*
48441889 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
48441954 CGGACA
66 AGGACA
48441960 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48441982 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:48444292 original size:15 final size:15
Alignment explanation
Indices: 48444253--48444332 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48444243 GTATCTTGGG
*
48444253 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
48444268 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
48444283 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
48444298 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
48444313 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
48444327 TTTCTT
1 TTTCTT
48444333 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48444322 original size:30 final size:30
Alignment explanation
Indices: 48444244--48444331 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
48444234 CATAGTATCG
* * *
48444244 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
48444274 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
48444304 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
48444332 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:48446751 original size:46 final size:46
Alignment explanation
Indices: 48446701--48446876 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
48446691 TGGTTGAGCA
48446701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48446747 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48446792 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
48446840 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48446877 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48446857 original size:93 final size:93
Alignment explanation
Indices: 48446698--48446868 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
48446688 GGATGGTTGA
* *
48446698 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48446763 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48446791 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48446856 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48446869 ACTTATGGGC
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:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48451621 original size:29 final size:29
Alignment explanation
Indices: 48451593--48451694 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
48451583 CCTCCGAGCT
** * * *
48451593 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
48451622 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
48451651 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
48451680 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
48451695 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:48454951 original size:16 final size:16
Alignment explanation
Indices: 48454930--48454960 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48454920 ATATATTTTC
*
48454930 ATTTGCATCATATATA
1 ATTTGCATCACATATA
48454946 ATTTGCATCACATAT
1 ATTTGCATCACATAT
48454961 CAAGTAACCA
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:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:48455169 original size:43 final size:43
Alignment explanation
Indices: 48455114--48455283 Score: 208
Period size: 43 Copynumber: 4.0 Consensus size: 43
48455104 ATATCGTACA
*
48455114 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
48455157 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATAAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * *
48455198 ATGCC-ATGTCCCAGACATGGTCTTACACGTAATCTCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
48455240 ATGCCAACGTCCCAGACGTGGTCTTACACG-AGAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-ATCACATATCG
48455283 A
1 A
48455284 AAATCCTATG
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
40 20 0.19
41 14 0.13
42 17 0.16
43 56 0.52
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:48455606 original size:15 final size:16
Alignment explanation
Indices: 48455588--48455624 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
48455578 ATCTAAACAT
48455588 ATTCAAAT-TAAATTC
1 ATTCAAATATAAATTC
*
48455603 ATTCAAATATAATTTC
1 ATTCAAATATAAATTC
48455619 ATTCAA
1 ATTCAA
48455625 TTTAGTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTCAAATATAAATTC
Found at i:48458232 original size:48 final size:48
Alignment explanation
Indices: 48458161--48458340 Score: 236
Period size: 48 Copynumber: 3.8 Consensus size: 48
48458151 CATTAGGGGA
*
48458161 ACATTGATCTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGAT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGAT
* *** * *
48458209 ACATTGGTTTGGCTTCGGGCCATGATACCGGCACTTCGAGTGCGA-ATT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGA-T
* *
48458257 ACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCAAGAT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGAT
* * *
48458305 ATATTGAGTTGGCTTCGGGCCATGATATTGGCACTT
1 ACATTGATTTGGCTTCGGGCCATGATATTAGCACTT
48458341 ATAGTGTGTG
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 109 0.98
49 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (48 bp):
ACATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGCGAGAT
Done.