Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 47 of 131
Found at i:15484742 original size:17 final size:16
Alignment explanation
Indices: 15484712--15484747 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
15484702 CCGTATGCAA
15484712 TTTTTTTTCAATTTTT
1 TTTTTTTTCAATTTTT
*
15484728 TTTTCTTTTCGATTTTT
1 TTTT-TTTTCAATTTTT
15484745 TTT
1 TTT
15484748 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCAATTTTT
Found at i:15484758 original size:11 final size:12
Alignment explanation
Indices: 15484727--15484772 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
15484717 TTTCAATTTT
15484727 TTTTTCTTTTCGA
1 TTTTT-TTTTCGA
15484740 -TTTTTTTT-GA
1 TTTTTTTTTCGA
*
15484750 TTTTTTTTTCAAA
1 TTTTTTTTTC-GA
15484763 TTTTTTTTTC
1 TTTTTTTTTC
15484773 AAAACTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 12 0.41
12 4 0.14
13 11 0.38
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:15484775 original size:13 final size:13
Alignment explanation
Indices: 15484749--15484775 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15484739 ATTTTTTTTG
15484749 ATTTTTTTTTCAA
1 ATTTTTTTTTCAA
15484762 ATTTTTTTTTCAA
1 ATTTTTTTTTCAA
15484775 A
1 A
15484776 ACTACAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTTTTCAA
Found at i:15491420 original size:26 final size:23
Alignment explanation
Indices: 15491391--15491453 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
15491381 TTCTAACTTT
15491391 TAATTTATATTATATAATACTTATTA
1 TAATTTATATTATATAAT--TT-TTA
* *
15491417 TAATCTTTTAAT-TATAATTTTTA
1 TAAT-TTATATTATATAATTTTTA
15491440 TAATTTAATATTAT
1 TAATTT-ATATTAT
15491454 TTACTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
22 2 0.07
23 10 0.33
24 3 0.10
26 10 0.33
27 5 0.17
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTATATTATATAATTTTTA
Found at i:15494712 original size:18 final size:18
Alignment explanation
Indices: 15494689--15494726 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
15494679 AATATGCCAT
15494689 AAGTTTATGTACTCTTCA
1 AAGTTTATGTACTCTTCA
*
15494707 AAGTTTATGTCCTCTTCA
1 AAGTTTATGTACTCTTCA
15494725 AA
1 AA
15494727 AATTTGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (18 bp):
AAGTTTATGTACTCTTCA
Found at i:15495258 original size:20 final size:21
Alignment explanation
Indices: 15495225--15495264 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15495215 TATATGACAT
* *
15495225 TTATTATTACAATATATTTTC
1 TTATTATTAAAATAAATTTTC
15495246 TTATTA-TAAAATAAATTTT
1 TTATTATTAAAATAAATTTT
15495265 GATTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTATTAAAATAAATTTTC
Found at i:15502444 original size:101 final size:101
Alignment explanation
Indices: 15502329--15502513 Score: 318
Period size: 101 Copynumber: 1.8 Consensus size: 101
15502319 AAAGTGATGG
*
15502329 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-AATGATAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAATGAT-GGTCACATGTGTAGTA
15502393 CTATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
65 CTATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
* *
15502430 TCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTATCAGATAATGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-AATGATGGTCACATGTGTAGTA
15502495 CTATGTGCAGGCTACTATG
65 CTATGTGCAGGCTACTATG
15502514 TGAACAGGTA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
101 39 0.49
102 34 0.43
103 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAATGATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
Found at i:15502459 original size:51 final size:51
Alignment explanation
Indices: 15502323--15502513 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 51
15502313 AAAGTGAAAG
* * * * *
15502323 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG--AA
1 TGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAA
* * *
15502372 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGAT-A
1 TGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAA
* * * * *
15502423 -GCTTCGATCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTATCAGATAA
1 TG-AT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAA
*
15502475 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
15502514 TGAACAGGTA
Statistics
Matches: 116, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 4 0.03
50 38 0.33
51 71 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
TGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAA
Found at i:15502761 original size:16 final size:16
Alignment explanation
Indices: 15502740--15502770 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15502730 GATTGAAAGG
*
15502740 GAAAAAGTGAAATTAT
1 GAAAAAGTAAAATTAT
15502756 GAAAAAGTAAAATTA
1 GAAAAAGTAAAATTA
15502771 GCAACAAAAC
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:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
GAAAAAGTAAAATTAT
Found at i:15506192 original size:85 final size:86
Alignment explanation
Indices: 15506048--15506219 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 86
15506038 ACCACATGCT
15506048 TTCTTATGTCATTTTTTAACACAATAATTTAAAAGGCCTACATCCAAGCATCCAAGGTTTTATCC
1 TTCTTATGTCATTTTTTAACACAATAATTTAAAAGGCCTACATCCAAGCATCCAAGGTTTTATCC
15506113 ACTTAAAACCAAAATTTTTGC
66 ACTTAAAACCAAAATTTTTGC
15506134 TTCTTATGTCA-TTTTTAACACAATAATTTAAAAGGCCTACATCCAAGCATCCAAGGTTTTATCC
1 TTCTTATGTCATTTTTTAACACAATAATTTAAAAGGCCTACATCCAAGCATCCAAGGTTTTATCC
15506198 ACTTAAAACCAAAATTTTTGC
66 ACTTAAAACCAAAATTTTTGC
15506219 T
1 T
15506220 AAAGCCCAGG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 75 0.87
86 11 0.13
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (86 bp):
TTCTTATGTCATTTTTTAACACAATAATTTAAAAGGCCTACATCCAAGCATCCAAGGTTTTATCC
ACTTAAAACCAAAATTTTTGC
Found at i:15508941 original size:24 final size:25
Alignment explanation
Indices: 15508863--15508934 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
15508853 GTACGTTCAT
* * * *
15508863 ACGAGCTATGAATTGGTATGCTCTC
1 ACGAGCTGTAAATCGGTAAGCTCTC
**
15508888 ATAAGCTGTAAATCGGTAAGCTCTC
1 ACGAGCTGTAAATCGGTAAGCTCTC
15508913 ACGAGCTG-AAATCGGTAAGCTC
1 ACGAGCTGTAAATCGGTAAGCTC
15508935 ATGCGAGTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 14 0.36
25 25 0.64
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGTAAGCTCTC
Found at i:15511804 original size:43 final size:43
Alignment explanation
Indices: 15511752--15511866 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
15511742 TGTGTTTTTT
* *
15511752 GTGTAAGACCACGTCTGGGACGTTGGCATCAATTTGTGTTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTAC
* * *
15511795 GTGTAAGACC-CTATCTGGGACAG-TGGCACCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATATGTGATTAC
* *
15511838 ATGTAAGATCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
15511867 TGTACGAGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
42 2 0.03
43 55 0.93
44 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTAC
Found at i:15514654 original size:13 final size:13
Alignment explanation
Indices: 15514636--15514665 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15514626 GTTTGTGGTA
*
15514636 CTTGTTGAGCGAG
1 CTTGTTGAGCAAG
15514649 CTTGTTGAGCAAG
1 CTTGTTGAGCAAG
15514662 CTTG
1 CTTG
15514666 CAAAGCCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (13 bp):
CTTGTTGAGCAAG
Found at i:15519928 original size:43 final size:43
Alignment explanation
Indices: 15519834--15519928 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
15519824 AATGCATTGA
* * * * * *
15519834 ACGTTGGCATCGATTTGTGTTTACGTGTAAGACCCTTTCTGGG
1 ACGTTGGCACCGATATGTGATTACATGTAAGACCCTGTCTAGG
**
15519877 ACACTGGCACCGATATGTGATTACATGTAAGACCAC-GTCTAGG
1 ACGTTGGCACCGATATGTGATTACATGTAAGACC-CTGTCTAGG
15519920 ACGTTGGCA
1 ACGTTGGCA
15519929 TTGTACGAGC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (43 bp):
ACGTTGGCACCGATATGTGATTACATGTAAGACCCTGTCTAGG
Found at i:15527914 original size:25 final size:25
Alignment explanation
Indices: 15527877--15527964 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
15527867 GTACATGTAT
* * * *
15527877 GCTCTTACAAGCTATGAATCGATAT
1 GCTCTCACGAGCTATGAATCGGTAA
*
15527902 GCTCTCACGAGCTATAAATCGGTAA
1 GCTCTCACGAGCTATGAATCGGTAA
*
15527927 GCTCAT-ACGAGC--TGAATTTGGTAA
1 GCTC-TCACGAGCTATGAA-TCGGTAA
15527951 GCTCTCACGAGCTA
1 GCTCTCACGAGCTA
15527965 AAATTAGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
23 4 0.08
24 16 0.31
25 30 0.59
26 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (25 bp):
GCTCTCACGAGCTATGAATCGGTAA
Found at i:15527954 original size:24 final size:24
Alignment explanation
Indices: 15527908--15527988 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
15527898 ATATGCTCTC
* *
15527908 ACGAGCTATAAATCGGTAAGCTCAT
1 ACGAGCT-GAAATTGGTAAGCTCAT
*
15527933 ACGAGCTGAATTTGGTAAGCTC-T
1 ACGAGCTGAAATTGGTAAGCTCAT
* *
15527956 CACGAGCTAAAATTAGTAAGCTCAT
1 -ACGAGCTGAAATTGGTAAGCTCAT
*
15527981 ACAAGCTG
1 ACGAGCTG
15527989 TGGTGTGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.02
24 37 0.80
25 8 0.17
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (24 bp):
ACGAGCTGAAATTGGTAAGCTCAT
Found at i:15539718 original size:20 final size:20
Alignment explanation
Indices: 15539669--15539707 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15539659 TGTCTTGTCC
*
15539669 AACTGAATTAATTGTGTCTT
1 AACTTAATTAATTGTGTCTT
15539689 AACTTAATTAATTGTGTCT
1 AACTTAATTAATTGTGTCT
15539708 AGTTTTAATT
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:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (20 bp):
AACTTAATTAATTGTGTCTT
Found at i:15541805 original size:12 final size:11
Alignment explanation
Indices: 15541790--15541834 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
15541780 TAATGAAATT
15541790 GAAAAAGAAAA
1 GAAAAAGAAAA
15541801 CGAAAAAGAAAA
1 -GAAAAAGAAAA
**
15541813 GAAATTGCAAAA
1 GAAAAAG-AAAA
15541825 GAAAAAGAAA
1 GAAAAAGAAA
15541835 TCAAAAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.04
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:15541835 original size:18 final size:18
Alignment explanation
Indices: 15541790--15541843 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
15541780 TAATGAAATT
*
15541790 GAAAAAGAAAACGAAAAA
1 GAAAAAGAAATCGAAAAA
* *
15541808 G-AAAAGAAATTGCAAAA
1 GAAAAAGAAATCGAAAAA
*
15541825 GAAAAAGAAATCAAAAAA
1 GAAAAAGAAATCGAAAAA
15541843 G
1 G
15541844 TGAGAGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.06
Consensus pattern (18 bp):
GAAAAAGAAATCGAAAAA
Found at i:15541841 original size:17 final size:17
Alignment explanation
Indices: 15541790--15541841 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
15541780 TAATGAAATT
*
15541790 GAAAAAGAAAACGAAAAA
1 GAAAAAGAAATC-AAAAA
15541808 G-AAAAGAAATTGC-AAAA
1 GAAAAAGAAA-T-CAAAAA
15541825 GAAAAAGAAATCAAAAA
1 GAAAAAGAAATCAAAAA
15541842 AGTGAGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
16 1 0.03
17 18 0.62
18 9 0.31
19 1 0.03
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
GAAAAAGAAATCAAAAA
Found at i:15541841 original size:29 final size:29
Alignment explanation
Indices: 15541784--15541919 Score: 84
Period size: 30 Copynumber: 4.7 Consensus size: 29
15541774 ACATTGTAAT
*
15541784 GAAATTGAAAAAGAAAACGAAAAAGAAAA
1 GAAATTGAAAAAGAAAAAGAAAAAGAAAA
*
15541813 GAAATTGCAAAAGAAAAAGAAATCAA-AAAA
1 GAAATTGAAAAAGAAAAAGAAA--AAGAAAA
** ** *
15541843 GTGAGAGAAAAAGAAAATG---AAGAAAA
1 GAAATTGAAAAAGAAAAAGAAAAAGAAAA
* * ***
15541869 GAAACTTGAAAAATAAATTGAGATTGAGAAAA
1 GAAA-TTGAAAAAGAAA--AAGAAAAAGAAAA
15541901 -AAATTGAAAAAGAAAAAGA
1 GAAATTGAAAAAGAAAAAGA
15541920 TGTTGAAAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 19
0.68 0.15 0.16
Matches are distributed among these distances:
25 2 0.03
26 6 0.08
27 9 0.11
28 3 0.04
29 21 0.26
30 28 0.35
31 5 0.06
32 6 0.08
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.12
Consensus pattern (29 bp):
GAAATTGAAAAAGAAAAAGAAAAAGAAAA
Found at i:15541916 original size:16 final size:18
Alignment explanation
Indices: 15541895--15541933 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15541885 ATTGAGATTG
15541895 AGAAAAA-A-ATTGAAAA
1 AGAAAAAGATATTGAAAA
*
15541911 AGAAAAAGATGTTGAAAA
1 AGAAAAAGATATTGAAAA
15541929 AGAAA
1 AGAAA
15541934 GGAGAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:15545929 original size:21 final size:22
Alignment explanation
Indices: 15545878--15545923 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
15545868 TATTTGCTGG
*
15545878 AATAAAATTAGTTTAAGTATTT
1 AATAAATTTAGTTTAAGTATTT
*
15545900 AATAAATTTAG-TTAAGTGTTT
1 AATAAATTTAGTTTAAGTATTT
15545921 AAT
1 AAT
15545924 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
AATAAATTTAGTTTAAGTATTT
Found at i:15551803 original size:22 final size:22
Alignment explanation
Indices: 15551771--15551812 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15551761 TTTTATTATT
15551771 AAATTTAAAAATAAAAATAATA
1 AAATTTAAAAATAAAAATAATA
*
15551793 AAATTTTAAAATAAAAATAA
1 AAATTTAAAAATAAAAATAA
15551813 AATTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATTTAAAAATAAAAATAATA
Found at i:15555313 original size:18 final size:18
Alignment explanation
Indices: 15555290--15555326 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15555280 TTTATGATGA
*
15555290 AACAAAATATAGAAAGGT
1 AACAAAATATAAAAAGGT
*
15555308 AACAAAATTTAAAAAGGT
1 AACAAAATATAAAAAGGT
15555326 A
1 A
15555327 TGAATAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (18 bp):
AACAAAATATAAAAAGGT
Found at i:15555832 original size:50 final size:50
Alignment explanation
Indices: 15555773--15556098 Score: 388
Period size: 50 Copynumber: 6.5 Consensus size: 50
15555763 AATATGTGAG
*
15555773 CCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
*
15555823 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
* * * *
15555873 CCATGTAAGACCATGTCTGGGACATGACATTGGCACGGAGATGAGAGGTT
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
* *
15555923 CCATGTAAGACCATGTATAGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
** * * * **
15555973 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
* * * * * * * * **
15556023 CCATGTAAGACAATATTTGGGATATGACATTGGCA--GTACA-GAAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG-AGAGGTC
15556072 CCATGTAAGACCATGTCTGGGACATGG
1 CCATGTAAGACCATGTCTGGGACATGG
15556099 ATGTCATGTT
Statistics
Matches: 235, Mismatches: 39, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
48 2 0.01
49 28 0.12
50 205 0.87
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
Found at i:15556044 original size:150 final size:150
Alignment explanation
Indices: 15555773--15556057 Score: 453
Period size: 150 Copynumber: 1.9 Consensus size: 150
15555763 AATATGTGAG
* *
15555773 CCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATG
1 CCATGTAAGACCATGTATAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGACCATG
* * ** * *
15555838 TCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACAT
66 TCTGGGACATGGCATGGGCACCAAGATGAGAACTCCCATGTAAGACAATATCTGGGACATGACAT
15555903 TGGCACGGAGATGAGAGGTT
131 TGGCACGGAGATGAGAGGTT
*
15555923 CCATGTAAGACCATGTATAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATG
1 CCATGTAAGACCATGTATAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGACCATG
* * * *
15555988 TCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACAATATTTGGGATATGACAT
66 TCTGGGACATGGCATGGGCACCAAGATGAGAACTCCCATGTAAGACAATATCTGGGACATGACAT
15556053 TGGCA
131 TGGCA
15556058 GTACAGAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
150 122 1.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (150 bp):
CCATGTAAGACCATGTATAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGACCATG
TCTGGGACATGGCATGGGCACCAAGATGAGAACTCCCATGTAAGACAATATCTGGGACATGACAT
TGGCACGGAGATGAGAGGTT
Found at i:15560445 original size:29 final size:27
Alignment explanation
Indices: 15560409--15560463 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
15560399 GTGATTAAAT
15560409 AAAATTGACA-CAAGCAGAATTTAAAAGAA
1 AAAATTGACAGCAAG-A-AA-TTAAAAGAA
15560438 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATTGACAGCAAGAAATTAAAAGA
15560464 TAAGTCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.32
28 2 0.08
29 11 0.44
30 4 0.16
ACGTcount: A:0.60, C:0.09, G:0.15, T:0.16
Consensus pattern (27 bp):
AAAATTGACAGCAAGAAATTAAAAGAA
Found at i:15561320 original size:31 final size:32
Alignment explanation
Indices: 15561263--15561322 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
15561253 CTGGTGACCA
*
15561263 AAAAAAGAAAAATTCTAATTGTTTGGGTGGCT
1 AAAAAAGAAAAATTCTAATAGTTTGGGTGGCT
*
15561295 AAAAAAG-AAAATTTTGAATAG-TTGGGTG
1 AAAAAAGAAAAATTCT-AATAGTTTGGGTG
15561323 ATCATTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (32 bp):
AAAAAAGAAAAATTCTAATAGTTTGGGTGGCT
Found at i:15564363 original size:36 final size:38
Alignment explanation
Indices: 15564298--15564370 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
15564288 ATAGGTACGT
**
15564298 AAAAAAAAGTTCGAAAAAAAATATTTTGAAA-AAAAAC
1 AAAAAAAAGTTCGAAAAAAAATAAATTGAAAGAAAAAC
15564335 AAAAAAAA-TTCGAAAGAAAAA-AAATTGAAAGAAAAA
1 AAAAAAAAGTTCGAAA-AAAAATAAATTGAAAGAAAAA
15564371 AATTGCATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 14 0.44
37 18 0.56
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (38 bp):
AAAAAAAAGTTCGAAAAAAAATAAATTGAAAGAAAAAC
Found at i:15564375 original size:14 final size:15
Alignment explanation
Indices: 15564335--15564372 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
15564325 GAAAAAAAAC
15564335 AAAAAAAATTCGAAAG
1 AAAAAAAATT-GAAAG
15564351 AAAAAAAATTGAAAG
1 AAAAAAAATTGAAAG
15564366 AAAAAAA
1 AAAAAAA
15564373 TTGCATACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAAAATTGAAAG
Found at i:15564646 original size:21 final size:21
Alignment explanation
Indices: 15564611--15564663 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
15564601 CCTAAATTCG
*
15564611 TACCAAATACCATACCATTTCA
1 TACC-AATTCCATACCATTTCA
*
15564633 TACCAATTCCATACCATTTCG
1 TACCAATTCCATACCATTTCA
15564654 TACCAATTCC
1 TACCAATTCC
15564664 CAAATACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
TACCAATTCCATACCATTTCA
Found at i:15590284 original size:29 final size:30
Alignment explanation
Indices: 15590240--15590300 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
15590230 GAGAGCTAGG
*
15590240 ATGGGAAGGGAATAAAAGTTTTGGGGAAAA
1 ATGGGAAGGGAATAAAAATTTTGGGGAAAA
*
15590270 ATGGG-AGGGAGTAAAAATTTTGGGGAAAA
1 ATGGGAAGGGAATAAAAATTTTGGGGAAAA
15590299 AT
1 AT
15590301 AAAAGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (30 bp):
ATGGGAAGGGAATAAAAATTTTGGGGAAAA
Found at i:15590626 original size:9 final size:9
Alignment explanation
Indices: 15590609--15590638 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15590599 GAGTTGATTT
15590609 GAATAACTC
1 GAATAACTC
*
15590618 GATTAACTC
1 GAATAACTC
15590627 GAATAACTC
1 GAATAACTC
15590636 GAA
1 GAA
15590639 ATTCAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (9 bp):
GAATAACTC
Found at i:15594724 original size:36 final size:36
Alignment explanation
Indices: 15594655--15594724 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
15594645 GAGGTTCAAG
* * * ** *
15594655 GAAGTTATTTTGGGTCTCATTGATTGAGTTTGGGGA
1 GAAGCTATTGTGGGACTCATTGATCAAGCTTGGGGA
15594691 GAAGCTATTGTGGGACTCATTGATCAAGCTTGGG
1 GAAGCTATTGTGGGACTCATTGATCAAGCTTGGG
15594725 CATGCACTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.21, C:0.10, G:0.33, T:0.36
Consensus pattern (36 bp):
GAAGCTATTGTGGGACTCATTGATCAAGCTTGGGGA
Found at i:15594891 original size:38 final size:39
Alignment explanation
Indices: 15594849--15594951 Score: 154
Period size: 38 Copynumber: 2.7 Consensus size: 39
15594839 AGTTTAAGTA
* *
15594849 TTTAATTATGCCATAATTTTAACATCATTAATATGAGT-
1 TTTAATTATGTCATAATTTGAACATCATTAATATGAGTC
* *
15594887 TTTAATTATGTCATAATCTGAACATCATTAATATGGGTC
1 TTTAATTATGTCATAATTTGAACATCATTAATATGAGTC
*
15594926 TTTAATTATGTCATAGTTTGAACATC
1 TTTAATTATGTCATAATTTGAACATC
15594952 TTCAATACTT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 34 0.59
39 24 0.41
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (39 bp):
TTTAATTATGTCATAATTTGAACATCATTAATATGAGTC
Found at i:15595045 original size:23 final size:23
Alignment explanation
Indices: 15595019--15595068 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
15595009 TTCCTACAAA
** *
15595019 TTAAAGTGTGTTTAAACCTTGTC
1 TTAAAGTGCATTTAAACATTGTC
*
15595042 TTAATGTGCATTTAAACATTGTC
1 TTAAAGTGCATTTAAACATTGTC
15595065 TTAA
1 TTAA
15595069 TGTTTTCCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (23 bp):
TTAAAGTGCATTTAAACATTGTC
Found at i:15596504 original size:26 final size:27
Alignment explanation
Indices: 15596431--15596510 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
15596421 AACACGTTAG
* *
15596431 GAAAGAAAGAGCCTTTGTGGTATAATAT
1 GAAAGAAA-AGCCTTTGTGGCATAACAT
*
15596459 GAAAGAAAAGCCTTTGTGGCGTAACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
* *
15596486 G-AAGGAATGCCTTTGTGGCA-AACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
15596511 CTAAATGGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.11
26 16 0.35
27 17 0.37
28 8 0.17
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCATAACAT
Found at i:15602270 original size:29 final size:29
Alignment explanation
Indices: 15602233--15602403 Score: 132
Period size: 29 Copynumber: 5.9 Consensus size: 29
15602223 TTTCAGAGTC
* * *
15602233 TCACCATAAACGCATCATTTTAACAGAGA
1 TCACCATAAAGGCTTCCTTTTAACAGAGA
* *
15602262 TCACTATAAAGGCTTCCCTTTAACAGAGA
1 TCACCATAAAGGCTTCCTTTTAACAGAGA
* *
15602291 TCGCCACAAAGGCTTCCTTTTAACAGAGA
1 TCACCATAAAGGCTTCCTTTTAACAGAGA
* * * * * *
15602320 TCGCCACAAGGGCATCCTTTTAATAGAAA
1 TCACCATAAAGGCTTCCTTTTAACAGAGA
* * *
15602349 T-AGCCACAAAGGGTTCCTGTTAACAGAGA
1 TCA-CCATAAAGGCTTCCTTTTAACAGAGA
* * *
15602378 T-AGCCACAAAAGATTCCTTTT-ACAGA
1 TCA-CCATAAAGGCTTCCTTTTAACAGA
15602404 AATTGGTGTT
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
28 5 0.04
29 113 0.96
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.25
Consensus pattern (29 bp):
TCACCATAAAGGCTTCCTTTTAACAGAGA
Found at i:15602315 original size:58 final size:58
Alignment explanation
Indices: 15602250--15602406 Score: 165
Period size: 58 Copynumber: 2.7 Consensus size: 58
15602240 AAACGCATCA
* * * * *
15602250 TTTTAACAGAGATCACTATAAAGGCTTCCCTTTAACAGAGATCGCCACAAAGGCTTCC
1 TTTTAACAGAGATCACCACAAAGGCATCCCTTTAACAGAAATAGCCACAAAGGCTTCC
* * * * *
15602308 TTTTAACAGAGATCGCCACAAGGGCATCCTTTTAATAGAAATAGCCACAAAGGGTTCC
1 TTTTAACAGAGATCACCACAAAGGCATCCCTTTAACAGAAATAGCCACAAAGGCTTCC
* * * *
15602366 TGTTAACAGAGAT-AGCCACAAAAG-ATTCCTTTTACAGAAAT
1 TTTTAACAGAGATCA-CCACAAAGGCATCCCTTTAACAGAAAT
15602407 TGGTGTTTTT
Statistics
Matches: 80, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
57 13 0.16
58 67 0.84
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (58 bp):
TTTTAACAGAGATCACCACAAAGGCATCCCTTTAACAGAAATAGCCACAAAGGCTTCC
Found at i:15602907 original size:227 final size:227
Alignment explanation
Indices: 15602499--15602954 Score: 678
Period size: 227 Copynumber: 2.0 Consensus size: 227
15602489 TTTAAATTTT
* * * *
15602499 TTCCATATGATGCCATAGCCTAGCCAGGGTCTTAGACTATATGGTCTTTAGAGTGCCATGGACTT
1 TTCCATATGATGCCATAGCCCAGCCAGGGTCTTAGACTATATGGTCTTCAGAATGACATGGACTT
* * * *
15602564 TTCCTTTCAGAGATTCATGTTTTTGTTCTCGAAGAACCCTTTTAGACAACACAAATAGTTCATGC
66 TTCCTTTAAGAGATTCATGTTTTTATTCTCGAAGAACCCTTTTAGACAACACAAACACTTCATGC
*
15602629 AGACTCATACTTAACAGACTCATCCACATAAGACTTACACATGATAGACTCTTCCACAATAGACT
131 AGACTCATACTTAACAGACTCATCCACATAAGACTTACACATGACAGACTCTTCCACAATAGACT
*
15602694 TGTTCATATCCTCCATACACACATTGATACAC
196 TGTTCATATCCTCAATACACACATTGATACAC
* *
15602726 TTCCATATGATGCCATAGCCCAGCCATGGTCTTAGACTATATGGTCTTCAGAATGACATGGGCTT
1 TTCCATATGATGCCATAGCCCAGCCAGGGTCTTAGACTATATGGTCTTCAGAATGACATGGACTT
* * * ** **
15602791 TTCCTTTAAGAGATTCATGTTTTTATTCTTGACGGACCCTTTTAGATGACGTAAACACTTCATGC
66 TTCCTTTAAGAGATTCATGTTTTTATTCTCGAAGAACCCTTTTAGACAACACAAACACTTCATGC
* * * * * * *
15602856 AGACTTATACTTGACAGACTTATTCACATATGACTTACTCATGACAGACTCTTTCACAATAGACT
131 AGACTCATACTTAACAGACTCATCCACATAAGACTTACACATGACAGACTCTTCCACAATAGACT
15602921 TGTTCATATCCTCAATACACACATTGATACAC
196 TGTTCATATCCTCAATACACACATTGATACAC
15602953 TT
1 TT
15602955 TAGACACTAA
Statistics
Matches: 203, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
227 203 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (227 bp):
TTCCATATGATGCCATAGCCCAGCCAGGGTCTTAGACTATATGGTCTTCAGAATGACATGGACTT
TTCCTTTAAGAGATTCATGTTTTTATTCTCGAAGAACCCTTTTAGACAACACAAACACTTCATGC
AGACTCATACTTAACAGACTCATCCACATAAGACTTACACATGACAGACTCTTCCACAATAGACT
TGTTCATATCCTCAATACACACATTGATACAC
Found at i:15605837 original size:42 final size:41
Alignment explanation
Indices: 15605789--15605881 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 41
15605779 TCCCATATTA
*
15605789 AGCATGCCAACTGTATTAATTATAAATTTGATTCACATGTTT
1 AGCATGCCAACTATATTAATTATAAATTTGATTCACATG-TT
* *
15605831 AGCATGCCAACTATGTTGATTATAAATTTGATTCACATGTT
1 AGCATGCCAACTATATTAATTATAAATTTGATTCACATGTT
15605872 AGGCATGCCA
1 A-GCATGCCA
15605882 CTAAAAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 3 0.06
42 44 0.94
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (41 bp):
AGCATGCCAACTATATTAATTATAAATTTGATTCACATGTT
Found at i:15608017 original size:40 final size:40
Alignment explanation
Indices: 15607964--15608242 Score: 333
Period size: 40 Copynumber: 7.0 Consensus size: 40
15607954 AAAAAACACA
*
15607964 TAAGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCACG
1 TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG
* * * * *
15608004 TACGTGTAATCAGGGGTACCAAAGTACAAACAGGGCCACA
1 TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG
* * ** * *
15608044 AAAGTGCAATTAGGGGTACCGAAGTACAAACAATGCCATG
1 TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG
* * *
15608084 TAAGTGCAATCAAGGGTACCGAATTACAAAAAGGGGCACG
1 TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG
* * * *
15608124 CAAGTTCAATTAGGGGTACCGAAATACAAACAGGGGCACG
1 TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG
*
15608164 TAAGTGCAATCAGGGGTACCGAAATACAAACAGGGGCACG
1 TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG
* * * * *
15608204 TAAGTCCAGTCAGGGGTACCAAATTAGAAACAGGGGCAC
1 TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCAC
15608243 ACAACTACAG
Statistics
Matches: 201, Mismatches: 38, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 201 1.00
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (40 bp):
TAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG
Found at i:15608158 original size:20 final size:20
Alignment explanation
Indices: 15608135--15608199 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
15608125 AAGTTCAATT
15608135 AGGGGTACCGAAATACAAAC
1 AGGGGTACCGAAATACAAAC
* * * *
15608155 AGGGGCA-CGTAAGTGCAATC
1 AGGGGTACCG-AAATACAAAC
15608175 AGGGGTACCGAAATACAAAC
1 AGGGGTACCGAAATACAAAC
15608195 AGGGG
1 AGGGG
15608200 CACGTAAGTC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.38, C:0.18, G:0.32, T:0.11
Consensus pattern (20 bp):
AGGGGTACCGAAATACAAAC
Found at i:15608217 original size:20 final size:20
Alignment explanation
Indices: 15607964--15608219 Score: 74
Period size: 20 Copynumber: 12.8 Consensus size: 20
15607954 AAAAAACACA
* *
15607964 TAAGTGCAATCAGGGGTACCG
1 TAAGTACAATCAGGGGCA-CG
15607985 -AAGTACAAAT-AGGGGCACG
1 TAAGTAC-AATCAGGGGCACG
* ** * *
15608004 TACGTGTAATCAGGGGTACC
1 TAAGTACAATCAGGGGCACG
* * * *
15608024 AAAGTACAAACAGGGCCACA
1 TAAGTACAATCAGGGGCACG
* * * *
15608044 AAAGTGCAATTAGGGGTACCG
1 TAAGTACAATCAGGGGCA-CG
* ** * *
15608065 -AAGTACAAACAATGCCATG
1 TAAGTACAATCAGGGGCACG
* * *
15608084 TAAGTGCAATCAAGGGTACCG
1 TAAGTACAATCAGGGGCA-CG
* **
15608105 -AATTACAAAAAGGGGCACG
1 TAAGTACAATCAGGGGCACG
* * * *
15608124 CAAGTTCAATTAGGGGTACCG
1 TAAGTACAATCAGGGGCA-CG
* *
15608145 -AAATACAAACAGGGGCACG
1 TAAGTACAATCAGGGGCACG
* *
15608164 TAAGTGCAATCAGGGGTACCG
1 TAAGTACAATCAGGGGCA-CG
* *
15608185 -AAATACAAACAGGGGCACG
1 TAAGTACAATCAGGGGCACG
* *
15608204 TAAGTCCAGTCAGGGG
1 TAAGTACAATCAGGGG
15608220 TACCAAATTA
Statistics
Matches: 161, Mismatches: 63, Indels: 23
0.65 0.26 0.09
Matches are distributed among these distances:
19 12 0.07
20 140 0.87
21 9 0.06
ACGTcount: A:0.37, C:0.19, G:0.29, T:0.15
Consensus pattern (20 bp):
TAAGTACAATCAGGGGCACG
Found at i:15611036 original size:40 final size:40
Alignment explanation
Indices: 15610971--15611174 Score: 237
Period size: 40 Copynumber: 5.1 Consensus size: 40
15610961 ATCGAAGTAC
* * * * *
15610971 GTGCAATTAGGGGTATCGAAGTACAAACAAGGGAACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * **
15611011 GTGTAATCAAGGGTACCGAAGTACAAAAAATGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* *
15611051 GTGCAATCAAGGGTACCAAAGTACAAATAGGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * * * *
15611091 GTGCAATTAGGGGTACTGAAGTACGAACAGGGGCACATAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * *
15611131 GTGCAGTCAGGGGTACCGAAGTACAAATAGGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
15611171 GTGC
1 GTGC
15611175 GTCAGGGTAT
Statistics
Matches: 139, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (40 bp):
GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
Found at i:15611101 original size:20 final size:20
Alignment explanation
Indices: 15611042--15611174 Score: 78
Period size: 20 Copynumber: 6.7 Consensus size: 20
15611032 TACAAAAAAT
*
15611042 GGCACGTAAGTGCAATCAAG
1 GGCACGTAAGTGCAATCAGG
* ** *
15611062 GGTACCAAAGTACAAAT-AGG
1 GGCACGTAAGTGC-AATCAGG
*
15611082 GGCACGTAAGTGCAATTAGG
1 GGCACGTAAGTGCAATCAGG
* *
15611102 GGTAC-TGAAGTACGAA-CAGG
1 GGCACGT-AAGTGC-AATCAGG
* *
15611122 GGCACATAAGTGCAGTCAGG
1 GGCACGTAAGTGCAATCAGG
* *
15611142 GGTACCG-AAGTACAAAT-AGG
1 GGCA-CGTAAGTGC-AATCAGG
15611162 GGCACGTAAGTGC
1 GGCACGTAAGTGC
15611175 GTCAGGGTAT
Statistics
Matches: 83, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
19 7 0.08
20 67 0.81
21 9 0.11
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.16
Consensus pattern (20 bp):
GGCACGTAAGTGCAATCAGG
Found at i:15615251 original size:29 final size:29
Alignment explanation
Indices: 15615219--15615408 Score: 175
Period size: 29 Copynumber: 6.5 Consensus size: 29
15615209 TAAAGAAAAC
15615219 CTTTTAACAGAGATCACCACAAAGGTTTT
1 CTTTTAACAGAGATCACCACAAAGGTTTT
* ** *
15615248 CTTTTAACAAAGATTGCCACAAAGGCTTT
1 CTTTTAACAGAGATCACCACAAAGGTTTT
** * *
15615277 CTTTTAACAGAGATTGCCACAAAGGTATA
1 CTTTTAACAGAGATCACCACAAAGGTTTT
* *
15615306 CTTTTAACAGAAATCACCACAAAGG-CTT
1 CTTTTAACAGAGATCACCACAAAGGTTTT
*** * *
15615334 CTTTTTAACAGAAAGATTGGCACAAATGCTTT
1 C-TTTTAACAG--AGATCACCACAAAGGTTTT
* * *
15615366 CTTTTAACAGATATCACCATAAAGGTTTC
1 CTTTTAACAGAGATCACCACAAAGGTTTT
*
15615395 CTTTTAACGGAGAT
1 CTTTTAACAGAGAT
15615409 TGCTAGAAAT
Statistics
Matches: 128, Mismatches: 29, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
28 2 0.02
29 104 0.81
31 19 0.15
32 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (29 bp):
CTTTTAACAGAGATCACCACAAAGGTTTT
Found at i:15615423 original size:89 final size:88
Alignment explanation
Indices: 15615219--15615463 Score: 251
Period size: 89 Copynumber: 2.8 Consensus size: 88
15615209 TAAAGAAAAC
* * *
15615219 CTTTTAACAGAGATCACCACAAAGGTTTTCTTTTAAC-AAAGATTGCCACAAAGGCTTTCTTTTA
1 CTTTTAACAGAAATCACCACAAAGGCTTCCTTTTAACAAAAGATTGCCACAAAGGCTTTCTTTTA
**
15615283 ACAGAGATTGCCACAAAGGTATA
66 ACAGAGATCACCACAAAGGTATA
* * *
15615306 CTTTTAACAGAAATCACCACAAAGGCTTCTTTTTAACAGAAAGATTGGCACAAATGCTTTCTTTT
1 CTTTTAACAGAAATCACCACAAAGGCTTCCTTTTAACA-AAAGATTGCCACAAAGGCTTTCTTTT
* * * *
15615371 AACAGATATCACCATAAAGGTTTC
65 AACAGAGATCACCACAAAGGTATA
* * ** * * * * * * * *
15615395 CTTTTAACGGAGATTGCTAGAAATGCTTCCTTTTAAC-AAAGATTACCATAAGGGCATCCTTTTA
1 CTTTTAACAGAAATCACCACAAAGGCTTCCTTTTAACAAAAGATTGCCACAAAGGCTTTCTTTTA
15615459 ACAGA
66 ACAGA
15615464 AATAGCCACA
Statistics
Matches: 129, Mismatches: 27, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
87 58 0.45
89 71 0.55
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (88 bp):
CTTTTAACAGAAATCACCACAAAGGCTTCCTTTTAACAAAAGATTGCCACAAAGGCTTTCTTTTA
ACAGAGATCACCACAAAGGTATA
Found at i:15615428 original size:118 final size:118
Alignment explanation
Indices: 15615236--15615465 Score: 259
Period size: 118 Copynumber: 1.9 Consensus size: 118
15615226 CAGAGATCAC
* **
15615236 CACAAAGGTTTTCTTTTAACAAAGATTGCCACAAAGGCTTTCTTTTAACAGAGATTGCCACAAAG
1 CACAAAGGCTTTCTTTTAACAAAGATCACCACAAAGGCTTTCTTTTAACAGAGATTGCCACAAAG
* * *
15615301 GTATACTTTTAACAGAA-ATCACCACAAAGGCTTCTTTTTAACAGAAAGATTGG
66 CTATACTTTTAACA-AAGATCACCACAAAGGCATCCTTTTAACAGAAAGATTGG
* * * * * * *
15615354 CACAAATGCTTTCTTTTAACAGATATCACCATAAAGG-TTTCCTTTTAACGGAGATTGCTAGAAA
1 CACAAAGGCTTTCTTTTAACAAAGATCACCACAAAGGCTTT-CTTTTAACAGAGATTGCCACAAA
* * * *
15615418 TGCT-TCCTTTTAACAAAGATTACCATAAGGGCATCCTTTTAACAGAAA
65 -GCTATACTTTTAACAAAGATCACCACAAAGGCATCCTTTTAACAGAAA
15615466 TAGCCACAAG
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
117 5 0.05
118 85 0.92
119 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (118 bp):
CACAAAGGCTTTCTTTTAACAAAGATCACCACAAAGGCTTTCTTTTAACAGAGATTGCCACAAAG
CTATACTTTTAACAAAGATCACCACAAAGGCATCCTTTTAACAGAAAGATTGG
Found at i:15615443 original size:58 final size:57
Alignment explanation
Indices: 15615248--15615460 Score: 187
Period size: 58 Copynumber: 3.6 Consensus size: 57
15615238 CAAAGGTTTT
** * * *
15615248 CTTTTAACAAAGATTGCCACAAAGGCTTTCTTTTAACAGAGATTGCCACAAA-GGTATA
1 CTTTTAACAAAGATCACCACAAAGGCTTCCTTTTAACGGAGATTG-CACAAATGCT-TA
* * *
15615306 CTTTTAACAGAA-ATCACCACAAAGGCTTCTTTTTAACAGAAAGATTGGCACAAATGCTTT
1 CTTTTAACA-AAGATCACCACAAAGGCTTCCTTTTAAC-G-GAGATT-GCACAAATGCTTA
* * * * * *
15615366 CTTTTAACAGATATCACCATAAAGGTTTCCTTTTAACGGAGATTGCTAGAAATGCTTC
1 CTTTTAACAAAGATCACCACAAAGGCTTCCTTTTAACGGAGATTGC-ACAAATGCTTA
* * * *
15615424 CTTTTAACAAAGATTACCATAAGGGCATCCTTTTAAC
1 CTTTTAACAAAGATCACCACAAAGGCTTCCTTTTAAC
15615461 AGAAATAGCC
Statistics
Matches: 127, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
57 2 0.02
58 75 0.59
59 4 0.03
60 43 0.34
61 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (57 bp):
CTTTTAACAAAGATCACCACAAAGGCTTCCTTTTAACGGAGATTGCACAAATGCTTA
Found at i:15615454 original size:29 final size:29
Alignment explanation
Indices: 15615422--15615506 Score: 104
Period size: 29 Copynumber: 2.9 Consensus size: 29
15615412 TAGAAATGCT
*
15615422 TCCTTTTAACA-AAGATTA-CCATAAGGGCA
1 TCCTTTTAACAGAA-A-TAGCCACAAGGGCA
15615451 TCCTTTTAACAGAAATAGCCACAAGGGCA
1 TCCTTTTAACAGAAATAGCCACAAGGGCA
*
15615480 TCCTTTTAATA-AAACTAGCCACAAGGG
1 TCCTTTTAACAGAAA-TAGCCACAAGGG
15615507 TATCATTTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.10
29 44 0.86
30 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (29 bp):
TCCTTTTAACAGAAATAGCCACAAGGGCA
Found at i:15615487 original size:147 final size:147
Alignment explanation
Indices: 15615219--15615488 Score: 362
Period size: 147 Copynumber: 1.8 Consensus size: 147
15615209 TAAAGAAAAC
* *
15615219 CTTTTAACAGAGATCACCACAAAGGTTTTCTTTTAACAAAGATTGCCACAAAGGCTTTCTTTTAA
1 CTTTTAACAGAGATCACCACAAAGGTTTCCTTTTAACAAAGATTGCCACAAAGGCTTCCTTTTAA
* * * * *
15615284 CAGAGATTGCCACAAAGGTATACTTTTAACAGAAATCACCACAAAGGCTTCTTTTTAACAGAAAG
66 CAAAGATTACCACAAAGGCATACTTTTAACAGAAATCACCACAAAGGCATCCTTTTAACAGAAAG
15615349 ATTGGCACAAATGCTTT
131 ATTGGCACAAATGCTTT
* * ** * * *
15615366 CTTTTAACAGATATCACCATAAAGGTTTCCTTTTAACGGAGATTGCTAGAAATGCTTCCTTTTAA
1 CTTTTAACAGAGATCACCACAAAGGTTTCCTTTTAACAAAGATTGCCACAAAGGCTTCCTTTTAA
* * * *
15615431 CAAAGATTACCATAAGGGCATCCTTTTAACAGAAAT-AGCCACAAGGGCATCCTTTTAA
66 CAAAGATTACCACAAAGGCATACTTTTAACAGAAATCA-CCACAAAGGCATCCTTTTAA
15615489 TAAAACTAGC
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
146 1 0.01
147 103 0.99
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (147 bp):
CTTTTAACAGAGATCACCACAAAGGTTTCCTTTTAACAAAGATTGCCACAAAGGCTTCCTTTTAA
CAAAGATTACCACAAAGGCATACTTTTAACAGAAATCACCACAAAGGCATCCTTTTAACAGAAAG
ATTGGCACAAATGCTTT
Found at i:15618437 original size:115 final size:115
Alignment explanation
Indices: 15618235--15618465 Score: 453
Period size: 115 Copynumber: 2.0 Consensus size: 115
15618225 TCAAGTCCTC
15618235 ACTTTTGCAATTTACTTTTAAATTCAATAGCCCCTTTAGTCAACCTTTTTGTCGCCCAAAATTCT
1 ACTTTTGCAATTTACTTTTAAATTCAATAGCCCCTTTAGTCAACCTTTTTGTCGCCCAAAATTCT
*
15618300 TACCTTGTGTAAGAGATTCTTTCCTCTCTTATGTTTCTCCTCCTTCCTTT
66 TACCTTGTGTAAGAGATTCTTTCCTCCCTTATGTTTCTCCTCCTTCCTTT
15618350 ACTTTTGCAATTTACTTTTAAATTCAATAGCCCCTTTAGTCAACCTTTTTGTCGCCCAAAATTCT
1 ACTTTTGCAATTTACTTTTAAATTCAATAGCCCCTTTAGTCAACCTTTTTGTCGCCCAAAATTCT
15618415 TACCTTGTGTAAGAGATTCTTTCCTCCCTTATGTTTCTCCTCCTTCCTTT
66 TACCTTGTGTAAGAGATTCTTTCCTCCCTTATGTTTCTCCTCCTTCCTTT
15618465 A
1 A
15618466 TTATCCCCCT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.45
Consensus pattern (115 bp):
ACTTTTGCAATTTACTTTTAAATTCAATAGCCCCTTTAGTCAACCTTTTTGTCGCCCAAAATTCT
TACCTTGTGTAAGAGATTCTTTCCTCCCTTATGTTTCTCCTCCTTCCTTT
Found at i:15626850 original size:82 final size:82
Alignment explanation
Indices: 15626747--15626909 Score: 238
Period size: 82 Copynumber: 2.0 Consensus size: 82
15626737 TTTTACTTCC
* * * *
15626747 CTTTAAATACCGTTCCATGCATGGGAACATCTCCTT-AATGCATGTTTCCTTTGCCATTAAGTAG
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGTCTCCTTAGCCATTAAGTAG
15626811 CCGAATTTCAATGACCTT
66 CCGAA-TTCAATGACCTT
* * **
15626829 CTTTAAATGCCGTTCCTTGCATGTTAACAGCACCTTAAATGCATGTCTCCTTAGCCATTAAGTAG
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGTCTCCTTAGCCATTAAGTAG
15626894 CCGAATTCAATGACCT
66 CCGAATTCAATGACCT
15626910 GCAAACACAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 41 0.57
83 31 0.43
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (82 bp):
CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGTCTCCTTAGCCATTAAGTAG
CCGAATTCAATGACCTT
Found at i:15632471 original size:51 final size:51
Alignment explanation
Indices: 15632351--15632538 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 51
15632341 TATCATTCAA
* * *
15632351 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCTGG
*
15632401 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCTGG
* * ** * *
15632452 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATC-GA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCT-TCTGG
* * *
15632503 TACATGTAGTAACCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
15632539 TCTATAGGCA
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
50 36 0.30
51 82 0.68
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCTGG
Found at i:15635662 original size:10 final size:10
Alignment explanation
Indices: 15635647--15635673 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15635637 TAGAAGCTAA
15635647 TTTTTAAAAT
1 TTTTTAAAAT
15635657 TTTTTAAAAT
1 TTTTTAAAAT
15635667 TTTTTAA
1 TTTTTAA
15635674 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:15640345 original size:20 final size:22
Alignment explanation
Indices: 15640308--15640351 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
15640298 CCCTTAACCA
15640308 AAGCATATAAACATACCAATTC
1 AAGCATATAAACATACCAATTC
15640330 AAGCATA-AAACA-ACCAATTC
1 AAGCATATAAACATACCAATTC
15640350 AA
1 AA
15640352 TGAATCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.55, C:0.23, G:0.05, T:0.18
Consensus pattern (22 bp):
AAGCATATAAACATACCAATTC
Found at i:15678739 original size:56 final size:50
Alignment explanation
Indices: 15678668--15678904 Score: 219
Period size: 50 Copynumber: 4.6 Consensus size: 50
15678658 AAAGAGATCC
* * *
15678668 CATGTAAAACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGCCT
* * * *
15678724 CATGTAAGACAATGTCTAGGACATGACGTTGGCACCGAGATGAGAGGCCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGCCT
*
15678774 CATGTAAGACCATGTCTGGGA-ATGGCATTGACACCGAGATGAGAGGTCC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG-CCT
** * * * * *
15678823 CCCGTAAGACCATGTCTAGGACATGGCATGGGCACCTATATGAGA-ACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGC-CT
* * *
15678873 CATGTAAGACCATATTTGGGATATGGCATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
15678905 TAGTACAAGA
Statistics
Matches: 150, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 41 0.27
50 75 0.50
53 3 0.02
55 1 0.01
56 29 0.19
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGCCT
Found at i:15678820 original size:99 final size:103
Alignment explanation
Indices: 15678668--15678903 Score: 257
Period size: 99 Copynumber: 2.3 Consensus size: 103
15678658 AAAGAGATCC
* ** * *
15678668 CATGTAAAACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCTCATGTAAGA
1 CATGTAAGACCATGTCTGGGACATGGCATT-GCATCACCGAG--TATGAGAGGTCCCACGTAAGA
* * *
15678733 CAATGTCTAGGACATGACGTTGGCACCGAGATGAGAGGC-CT
63 CAATGTCTAGGACATGACATGGGCACCGAGATGAGA-ACTCT
* *
15678774 CATGTAAGACCATGTCTGGGA-ATGGCATTG-A-CACCGAG-ATGAGAGGTCCCCCGTAAGACCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGCATCACCGAGTATGAGAGGTCCCACGTAAGACAA
* * *
15678835 TGTCTAGGACATGGCATGGGCACCTATATGAGAACTCT
66 TGTCTAGGACATGACATGGGCACCGAGATGAGAACTCT
* * *
15678873 CATGTAAGACCATATTTGGGATATGGCATTG
1 CATGTAAGACCATGTCTGGGACATGGCATTG
15678904 GTAGTACAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
98 1 0.01
99 68 0.60
100 9 0.08
102 5 0.04
103 1 0.01
104 1 0.01
105 8 0.07
106 20 0.18
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (103 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGCATCACCGAGTATGAGAGGTCCCACGTAAGACAA
TGTCTAGGACATGACATGGGCACCGAGATGAGAACTCT
Found at i:15682729 original size:56 final size:50
Alignment explanation
Indices: 15682643--15682770 Score: 148
Period size: 50 Copynumber: 2.4 Consensus size: 50
15682633 GAGATACCAT
* *
15682643 GTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAAAGGTCCCAC
1 GTAAGACCATGTTTGGGACATGGCATTGGCACTA---A-G--ATGAAAGGTCCCAC
* * * *
15682699 GTAAGACCATGTTTGGGATATGGCGTTGGCACTAAGATGAGAGGTCCCTC
1 GTAAGACCATGTTTGGGACATGGCATTGGCACTAAGATGAAAGGTCCCAC
15682749 GTAAGACCATGTTTGGGACATG
1 GTAAGACCATGTTTGGGACATG
15682771 CACCGATATG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
50 33 0.51
52 1 0.02
53 1 0.02
56 30 0.46
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (50 bp):
GTAAGACCATGTTTGGGACATGGCATTGGCACTAAGATGAAAGGTCCCAC
Found at i:15683098 original size:20 final size:20
Alignment explanation
Indices: 15683073--15683121 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15683063 TGAGTTATTT
*
15683073 AAGTAAGCAAGTAAGTGAAC
1 AAGTAAGCAAGTAAGTAAAC
*
15683093 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
15683113 AAG-AAGCAA
1 AAGTAAGCAA
15683122 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:15685919 original size:40 final size:41
Alignment explanation
Indices: 15685858--15685936 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 41
15685848 CGTACAATCG
*
15685858 AAAACATTTAAATAATATTTCATTCACTAATATAAACATAT
1 AAAACATTAAAATAATATTTCATTCACTAATATAAACATAT
15685899 AAAA-ATTAAAATAATATTTCATTCACTAATATAAACAT
1 AAAACATTAAAATAATATTTCATTCACTAATATAAACAT
15685937 GTTATATACC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 33 0.89
41 4 0.11
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.35
Consensus pattern (41 bp):
AAAACATTAAAATAATATTTCATTCACTAATATAAACATAT
Found at i:15691411 original size:7 final size:8
Alignment explanation
Indices: 15691393--15691421 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15691383 GTGAATCGGC
15691393 AAAAGCCA
1 AAAAGCCA
15691401 AAAAGCCA
1 AAAAGCCA
15691409 AAAAGCCA
1 AAAAGCCA
15691417 AAAAG
1 AAAAG
15691422 TCGAAACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.21, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAGCCA
Found at i:15699767 original size:14 final size:14
Alignment explanation
Indices: 15699748--15699775 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15699738 TAAAGCTATA
15699748 TTTAATAATTCATT
1 TTTAATAATTCATT
15699762 TTTAATAATTCATT
1 TTTAATAATTCATT
15699776 AGTAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:15700246 original size:19 final size:19
Alignment explanation
Indices: 15700224--15700261 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15700214 TCAATCACCC
15700224 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
15700243 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
15700262 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:15707785 original size:13 final size:13
Alignment explanation
Indices: 15707767--15707792 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15707757 CGTGTGTGAC
15707767 ACACGACCATGTG
1 ACACGACCATGTG
15707780 ACACGACCATGTG
1 ACACGACCATGTG
15707793 TCATTTGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
ACACGACCATGTG
Found at i:15709262 original size:20 final size:20
Alignment explanation
Indices: 15709234--15709304 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
15709224 AGGAGTATCG
*
15709234 AAGTACAAACAGGGGCACGT
1 AAGTGCAAACAGGGGCACGT
* * *
15709254 ACGTGCAAATAGGGGTACCG-
1 AAGTGCAAACAGGGGCA-CGT
* *
15709274 AAGTACAAATAGGGGCACGT
1 AAGTGCAAACAGGGGCACGT
*
15709294 ATGTGCAAACA
1 AAGTGCAAACA
15709305 TTCAATAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
19 2 0.05
20 35 0.90
21 2 0.05
ACGTcount: A:0.38, C:0.18, G:0.30, T:0.14
Consensus pattern (20 bp):
AAGTGCAAACAGGGGCACGT
Found at i:15711435 original size:27 final size:25
Alignment explanation
Indices: 15711373--15711424 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
15711363 TATGGTCATA
15711373 ATGAACATATATATACATTTTGCTC
1 ATGAACATATATATACATTTTGCTC
15711398 ATGAACATATATATACATTTTGCTC
1 ATGAACATATATATACATTTTGCTC
15711423 AT
1 AT
15711425 TTGAAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (25 bp):
ATGAACATATATATACATTTTGCTC
Found at i:15714565 original size:20 final size:21
Alignment explanation
Indices: 15714534--15714573 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
15714524 AAACCATGGC
15714534 TAGGGTTTTTCAAGCTTCCAT
1 TAGGGTTTTTCAAGCTTCCAT
15714555 TAGGG-TTTTCAAGCTTCCA
1 TAGGGTTTTTCAAGCTTCCA
15714574 AGCTCCATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (21 bp):
TAGGGTTTTTCAAGCTTCCAT
Found at i:15715501 original size:42 final size:43
Alignment explanation
Indices: 15715363--15715591 Score: 215
Period size: 43 Copynumber: 5.5 Consensus size: 43
15715353 CCGAGGGGTC
* * * *
15715363 GCTAAGTGCTGATT-C-CCGAAT-ATTGATTCTAAAGGTGGTT
1 GCTAAGTGTTGATTCCACCGTATCATTGAATGTAAAGGTGGTT
* *
15715403 GCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAAAGG-GGTT
1 GCTAAGTGTTGATTCCACCGTATCA-TTGAATGT-AAAGGTGGTT
* * * *
15715446 GCTATGTGCTGATTCC-CCGTACCATTGAATATAAAGGTGGTT
1 GCTAAGTGTTGATTCCACCGTATCATTGAATGTAAAGGTGGTT
* * *
15715488 GTTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGG-GGTT
1 GCTAAGTGTTGATTCCACCGTATCATTGAATGT-AAAGGTGGTT
* * *
15715531 GCTATGTGTTGATTCC-CCGTATCACTGAAT-TTAAGGTGGTT
1 GCTAAGTGTTGATTCCACCGTATCATTGAATGTAAAGGTGGTT
*
15715572 GCTAAGTGTTGAATCCACCG
1 GCTAAGTGTTGATTCCACCG
15715592 AGTAACGGAT
Statistics
Matches: 158, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
40 18 0.11
41 25 0.16
42 48 0.30
43 57 0.36
44 10 0.06
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
GCTAAGTGTTGATTCCACCGTATCATTGAATGTAAAGGTGGTT
Found at i:15715501 original size:85 final size:84
Alignment explanation
Indices: 15715356--15715591 Score: 323
Period size: 85 Copynumber: 2.8 Consensus size: 84
15715346 AAATTCCCCG
* * * * *
15715356 AGGGGTCGCTAAGTGCTGATT-CCCG-AATATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTAACATTGAAT-TAAAGGTGGTTGCTAAGTGTTGATTCC
15715419 ACCGTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* *
15715439 AGGGGTTGCTATGTGCTGATTCCCCGTACCATTGAATATAAAGGTGGTTGTTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTAACATTGAAT-TAAAGGTGGTTGCTAAGTGTTGATTCC
*
15715504 ACCGTATCTTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * * * *
15715524 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAATTTAAGGTGGTTGCTAAGTGTTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTAACATTGAATTAAAGGTGGTTGCTAAGTGTTGATTCCA
15715589 CCG
66 CCG
15715592 AGTAACGGAT
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
83 19 0.14
84 32 0.24
85 85 0.62
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTAACATTGAATTAAAGGTGGTTGCTAAGTGTTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:15737774 original size:20 final size:20
Alignment explanation
Indices: 15737735--15737774 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15737725 ATATACTCAA
**
15737735 TTTTTTTTAACTTCTTATAC
1 TTTTTTTTAACTTCAAATAC
*
15737755 TTTTTTTTCACTTCAAATAC
1 TTTTTTTTAACTTCAAATAC
15737775 AACTGAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTTTTAACTTCAAATAC
Found at i:15737835 original size:17 final size:17
Alignment explanation
Indices: 15737810--15737846 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15737800 AATACAACTT
* *
15737810 GAAATTTTTTTTAATTC
1 GAAACTTTTTTTAATAC
15737827 GAAACTTTTTTTAATAC
1 GAAACTTTTTTTAATAC
15737844 GAA
1 GAA
15737847 CCTACTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (17 bp):
GAAACTTTTTTTAATAC
Found at i:15742081 original size:13 final size:14
Alignment explanation
Indices: 15742053--15742094 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
15742043 ATTGGATATC
15742053 AAATTGTGAAAAAA
1 AAATTGTGAAAAAA
15742067 AAATT-TGAAACAAA
1 AAATTGTGAAA-AAA
*
15742081 AAATTTTGAAAAAA
1 AAATTGTGAAAAAA
15742095 CATGTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 16 0.62
15 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (14 bp):
AAATTGTGAAAAAA
Found at i:15742392 original size:13 final size:13
Alignment explanation
Indices: 15742376--15742414 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
15742366 TGAAAAGAAA
15742376 TTGAAAAAAAAAT
1 TTGAAAAAAAAAT
15742389 TTG-AAAAAAAAT
1 TTGAAAAAAAAAT
15742401 TGTGAAAAACAAAA
1 T-TGAAAAA-AAAA
15742415 AAAAAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.43
13 5 0.22
14 4 0.17
15 4 0.17
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (13 bp):
TTGAAAAAAAAAT
Found at i:15742576 original size:304 final size:307
Alignment explanation
Indices: 15742024--15742632 Score: 1127
Period size: 304 Copynumber: 2.0 Consensus size: 307
15742014 AAAAACTAGG
15742024 TTCCATTCAAACTTAAAAGATTGGATATCAAATTGTGAAAAAAAAATTTGAAACAAAAAATTTTG
1 TTCCATTCAAACTTAAAAGATTGGATATCAAATTGTGAAAAAAAAATTTGAAACAAAAAATTTTG
*
15742089 AAAAAACATGTGAAAAACAAAAAAAAAAGCTAGTTTTGAAATTTAGTTTTTGTTTGCTGCCCAAA
66 AAAAAAAATGTGAAAAACAAAAAAAAAAGCTAGTTTTGAAATTTAGTTTTTGTTTGCTGCCCAAA
15742154 TTTTAGTCATTATTACCTTTTACTATTTCGCCACACCCAACCTTTTCATTTCTTTGTTTCAAGCC
131 TTTTAGTCATTATTACCTTTTACTATTTCGCCACACCCAACCTTTTCATTTCTTTGTTTCAAGCC
15742219 TACCTTCCTTTGTCCTACAATATTCTTACCAAGCCCAAACATCAAGTTTGTAAGCCGACCCACAA
196 TACCTTCCTTTGTCCTACAATATTCTTACCAAGCCCAAACATCAAGTTTGTAAGCCGACCCACAA
15742284 CAACTACCTTTTAAGTTTAAATAATTCCTAAGAACTTAGAGAGGACT
261 CAACTACCTTTTAAGTTTAAATAATTCCTAAGAACTTAGAGAGGACT
* *
15742331 TTCCATTCAAACTTAAAAGATTGGATATCAAGTTGTG-AAAAGAAA-TTGAAA-AAAAAA-TTTG
1 TTCCATTCAAACTTAAAAGATTGGATATCAAATTGTGAAAAAAAAATTTGAAACAAAAAATTTTG
15742392 AAAAAAAATTGTGAAAAACAAAAAAAAAAGCTAGTTTTGAAATTTAGTTTTTGTTTGCTGCCCAA
66 AAAAAAAA-TGTGAAAAACAAAAAAAAAAGCTAGTTTTGAAATTTAGTTTTTGTTTGCTGCCCAA
15742457 ATTTTAGTCATTATTACCTTTTACTATTTCGCCACACCCAACCTTTTCATTTCTTTGTTTCAAGC
130 ATTTTAGTCATTATTACCTTTTACTATTTCGCCACACCCAACCTTTTCATTTCTTTGTTTCAAGC
15742522 CTACCTTCCTTTGTCCTACAATATTCTTACCAAGCCCAAACATCAAGTTTGTAAGCCGACCCACA
195 CTACCTTCCTTTGTCCTACAATATTCTTACCAAGCCCAAACATCAAGTTTGTAAGCCGACCCACA
* * *
15742587 ACAATTGCTTTTTAAGTTTAAATAATTCCTAAGAACTTAGAGAGGA
260 ACAACTACCTTTTAAGTTTAAATAATTCCTAAGAACTTAGAGAGGA
15742633 GGAGTGAGTG
Statistics
Matches: 295, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
303 11 0.04
304 235 0.80
305 6 0.02
306 7 0.02
307 36 0.12
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (307 bp):
TTCCATTCAAACTTAAAAGATTGGATATCAAATTGTGAAAAAAAAATTTGAAACAAAAAATTTTG
AAAAAAAATGTGAAAAACAAAAAAAAAAGCTAGTTTTGAAATTTAGTTTTTGTTTGCTGCCCAAA
TTTTAGTCATTATTACCTTTTACTATTTCGCCACACCCAACCTTTTCATTTCTTTGTTTCAAGCC
TACCTTCCTTTGTCCTACAATATTCTTACCAAGCCCAAACATCAAGTTTGTAAGCCGACCCACAA
CAACTACCTTTTAAGTTTAAATAATTCCTAAGAACTTAGAGAGGACT
Found at i:15753477 original size:18 final size:19
Alignment explanation
Indices: 15753448--15753488 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
15753438 TGTAGATTTA
15753448 TTATTCTATTTTAATTGTC
1 TTATTCTATTTTAATTGTC
*
15753467 TTATT-TATTTTAATTGTT
1 TTATTCTATTTTAATTGTC
15753485 TTAT
1 TTAT
15753489 CTAACTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (19 bp):
TTATTCTATTTTAATTGTC
Found at i:15755653 original size:28 final size:27
Alignment explanation
Indices: 15755594--15755654 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
15755584 AATGCATGCA
15755594 TTTAATATGTCTTAGTTAGTACATATC
1 TTTAATATGTCTTAGTTAGTACATATC
* * *
15755621 ATTAATTTGTCTTAGTATATTACATCAT-
1 TTTAATATGTCTTAGT-TAGTACAT-ATC
15755649 TTTAAT
1 TTTAAT
15755655 GTGTTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.50
28 12 0.43
29 2 0.07
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (27 bp):
TTTAATATGTCTTAGTTAGTACATATC
Found at i:15756834 original size:24 final size:26
Alignment explanation
Indices: 15756807--15756858 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
15756797 TAGGCAAATC
*
15756807 TCCATCCTCA-TTCACCTAGCC-ATT
1 TCCATCATCATTTCACCTAGCCAATT
*
15756831 TCCATCATCATTTCACTTAGCCAATT
1 TCCATCATCATTTCACCTAGCCAATT
15756857 TC
1 TC
15756859 AGCCCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 10 0.42
26 5 0.21
ACGTcount: A:0.23, C:0.37, G:0.04, T:0.37
Consensus pattern (26 bp):
TCCATCATCATTTCACCTAGCCAATT
Found at i:15759799 original size:32 final size:32
Alignment explanation
Indices: 15759763--15759924 Score: 96
Period size: 32 Copynumber: 5.2 Consensus size: 32
15759753 CACACGATCA
15759763 TGTGACCAGGCTGTGTGGAACACCCCATACCG
1 TGTGACCAGGCTGTGTGGAACACCCCATACCG
* * * *
15759795 TGTGACTTTCAAAG-T-TG-GG-ACACACGAT--CA
1 TGTGAC---C-AGGCTGTGTGGAACACCCCATACCG
15759825 TGTGACCAGGCTGTGTGGAACACCCCATACCG
1 TGTGACCAGGCTGTGTGGAACACCCCATACCG
* * * *
15759857 TGTGACTTTCAAAG-T-TG-GG-ACACACGAT--CA
1 TGTGAC---C-AGGCTGTGTGGAACACCCCATACCG
15759887 TGTGACCAGGCTGTGTGGAACACCCCATACCG
1 TGTGACCAGGCTGTGTGGAACACCCCATACCG
15759919 TGTGAC
1 TGTGAC
15759925 TTTCAAAGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 40
0.63 0.11 0.27
Matches are distributed among these distances:
26 4 0.04
27 4 0.04
28 4 0.04
29 4 0.04
30 28 0.30
32 34 0.36
33 4 0.04
34 4 0.04
35 4 0.04
36 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.22
Consensus pattern (32 bp):
TGTGACCAGGCTGTGTGGAACACCCCATACCG
Found at i:15759830 original size:30 final size:30
Alignment explanation
Indices: 15759795--15759892 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 30
15759785 CCCCATACCG
15759795 TGTGACTTTCAAAGTTGGGACACACGATCA
1 TGTGACTTTCAAAGTTGGGACACACGATCA
* * * *
15759825 TGTGAC---C-AGGCTGTGTGGAACACCCCATACCG
1 TGTGACTTTCAAAG-T-TG-GG-ACACACGAT--CA
15759857 TGTGACTTTCAAAGTTGGGACACACGATCA
1 TGTGACTTTCAAAGTTGGGACACACGATCA
15759887 TGTGAC
1 TGTGAC
15759893 CAGGCTGTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 2 0.04
29 2 0.04
30 20 0.40
32 14 0.28
33 2 0.04
34 2 0.04
35 2 0.04
36 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (30 bp):
TGTGACTTTCAAAGTTGGGACACACGATCA
Found at i:15759836 original size:62 final size:62
Alignment explanation
Indices: 15759749--15759945 Score: 385
Period size: 62 Copynumber: 3.2 Consensus size: 62
15759739 TCAAAAATAA
15759749 GGGACACACGATCATGTGACCAGGCTGTGTGGAACACCCCATACCGTGTGACTTTCAAAGTT
1 GGGACACACGATCATGTGACCAGGCTGTGTGGAACACCCCATACCGTGTGACTTTCAAAGTT
15759811 GGGACACACGATCATGTGACCAGGCTGTGTGGAACACCCCATACCGTGTGACTTTCAAAGTT
1 GGGACACACGATCATGTGACCAGGCTGTGTGGAACACCCCATACCGTGTGACTTTCAAAGTT
15759873 GGGACACACGATCATGTGACCAGGCTGTGTGGAACACCCCATACCGTGTGACTTTCAAAGTT
1 GGGACACACGATCATGTGACCAGGCTGTGTGGAACACCCCATACCGTGTGACTTTCAAAGTT
*
15759935 GGGACCCACGA
1 GGGACACACGA
15759946 CAGTGTCCCA
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 134 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (62 bp):
GGGACACACGATCATGTGACCAGGCTGTGTGGAACACCCCATACCGTGTGACTTTCAAAGTT
Found at i:15760661 original size:10 final size:10
Alignment explanation
Indices: 15760635--15760682 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
15760625 TTTGATGTGG
*
15760635 TTCAGCTCAC
1 TTCAGCTCAA
*
15760645 TTGAGCTCAA
1 TTCAGCTCAA
*
15760655 GTCAGCTC-A
1 TTCAGCTCAA
15760664 TTCGAGCTCAA
1 TTC-AGCTCAA
15760675 TTCAGCTC
1 TTCAGCTC
15760683 GTTATTAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 3 0.10
10 24 0.77
11 4 0.13
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (10 bp):
TTCAGCTCAA
Found at i:15760661 original size:20 final size:20
Alignment explanation
Indices: 15760636--15760682 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
15760626 TTGATGTGGT
15760636 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
*
15760656 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
15760676 TCAGCTC
1 TCAGCTC
15760683 GTTATTAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:15764919 original size:25 final size:25
Alignment explanation
Indices: 15764891--15764938 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15764881 CGGCTCATGA
*
15764891 GAGCTTACCGATTCT-CAGCTCGTAT
1 GAGCTTACCAATT-TACAGCTCGTAT
15764916 GAGCTTACCAATTTACAGCTCGT
1 GAGCTTACCAATTTACAGCTCGT
15764939 GACAGCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTACCAATTTACAGCTCGTAT
Found at i:15796140 original size:45 final size:45
Alignment explanation
Indices: 15795985--15796141 Score: 172
Period size: 45 Copynumber: 3.5 Consensus size: 45
15795975 GTGTACTGAG
* **
15795985 TATCATTAATTATAAAGGTGGTTGCTATGTGCTAATTCCACCGGG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTAATTCCACCGAA
* * * *
15796030 TACCATTGATTATAAAGGGGGTTGCTATGTGCCAACTCCACCGGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTAATTCCACC-GAA
** * *
15796076 -ATCATTGAAAATAAAGGTGGTTGCTATGTGTTGATTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTAATTCCACCGAA
* * *
15796120 TATAATTTATTATAAGGGTGGT
1 TATCATTGATTATAAAGGTGGT
15796142 ATTATGTGCT
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
44 3 0.03
45 86 0.96
46 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTGCTAATTCCACCGAA
Found at i:15801335 original size:45 final size:45
Alignment explanation
Indices: 15801271--15801532 Score: 343
Period size: 45 Copynumber: 5.9 Consensus size: 45
15801261 TACTGAGTAT
*
15801271 CATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
*
15801316 CATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
*
15801361 CATTGATTATAAAAGG-GGTTGCTATGTGTTGATTCCACCGGGTAC
1 CATTGATTAT-AAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
* * * *
15801406 CATTGATTATAAAGGTGGTTACTATGTGCTGACTCCACCGAAG-AT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG-GGTAC
** * ** *
15801451 CATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCAGCGAATAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
* *
15801496 AATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
15801533 ATGTAACGGT
Statistics
Matches: 197, Mismatches: 16, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
43 5 0.03
44 19 0.10
45 167 0.85
46 6 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
Found at i:15805051 original size:39 final size:39
Alignment explanation
Indices: 15805008--15805124 Score: 162
Period size: 39 Copynumber: 3.0 Consensus size: 39
15804998 TAATTTTGTT
* *
15805008 TGAGTCTTTAATTATGTCATAATTTCAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
* *
15805047 TGAGTTTTTAAATATGTCATAATCTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
* * * *
15805086 AGAGTTTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
15805125 CATGTTTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (39 bp):
TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:15812530 original size:822 final size:822
Alignment explanation
Indices: 15810940--15813058 Score: 2890
Period size: 822 Copynumber: 2.6 Consensus size: 822
15810930 TGGGCTCTAG
* *
15810940 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTAGATGAAAAGATGATGTCGAGTCGA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
* * *
15811005 GATCTAAACAAAAG-AATAAAACCAATTA-ATTT-TTCTAAAAGAATGAAAAAGAAAACCAAACA
66 GATCTAAACAAAAGAAATAAAACAAATTAGATTTAGTC-AAAAGAATGAAAAAGTAAACCAAACA
* * * * * *
15811067 GCAAGGAAAGAGAGAGATGGCGAAAAGAGGAGT-CTAAGAATGAGTGGGATA-TGGTTTCATGGA
130 GCATGG-AA-AGAGAGA-GGTG----GAGGAGTGC-AAGAACGAGTGGGATACGGGTTTCTTGAA
* * * * * * *
15811130 TGAGAATGAACCACTCTTGAACCAAAAGAAGGACTCCAACTAGTTTTGAAATCGAAAGAAGAAAA
187 TGAGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGATCTGGAATCGAAAGAAGAAAA
* ** * * *
15811195 AAGATAATC-GTAATGGATTTTTAAGCAATAACAAAAATTTTTTGTGATAAAAGCAATCGGCACA
252 CAGATTGTCAG-AATGGATTTTTAAGCCATAA-TAAAATTTTTTGTGATAAAAGCAATCGACACA
* * *
15811259 ATAAGAAAAAAAAGAGACTTATTTGTTTTCAATGGTTCTTGGTGTATTAAGAATGGG-GAACGTC
315 ATAAG-AAAAGAAGAGACTTCTTTGTTTTCAATGGTTCTTGGTGTATTAAGGA-GGGAGAACGTC
* * * *
15811323 TTTTCTTGTTGATTCCTCATATGGAAGTAAAGAAATAAAAGATTAGAAATAAATAGACAAGAATC
378 TTTTCTTGTTGATTCCTAATATGGAAGTAAAGAAATAAAATATTAGAAACAAACAGACAAGAATC
* * *
15811388 GAACTACAAATTAAAGGAAAGAGAGAAGGAAGTTGGGAAAAGACTAAAGTGGCATGAAGCTGTCC
443 GAACTACAAATTAAAGGAAAAAGAGAAAGAAGTTGGGAAAAGACTAAAGTGGCATGAAGATGTCC
* *
15811453 TAAGCAGCATTAGATTGTTGCATTCTCAAGATTAAGGAATCATAGAGTTCGACCCCACCCAAAAC
508 TAAGCAGCATTAGATTATTGCATTCTCAAGATTAAGGAATCATAGAGTTCGAACCCACCCAAAAC
*
15811518 TCAAACAATCCAAGTTAGAATTAAAAAGGAAACAACACAAATCAAGTCATAAAAGAATAAGGAAA
573 TCAAAAAATCCAAGTTAGAATTAAAAAGGAAACAACACAAATCAAGTCATAAAAGAATAAGGAAA
* * * *
15811583 CTAAATCGAAATTAGGGTTCTTGGAAGAGACCAAGTAGGTTAAGGAAGCACTATTCTGTATGAAA
638 CTAAATCCAAATTAAGGTTCTTGGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTATATGAAA
* ** * * *
15811648 TCCAAAAGGGCAAGGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGATTTGTAGAATAAAGAT
703 TCCAAAAGGGCAAAGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAAAG
* * *
15811713 CAAAAT-TGAAT-AAGATCACAAGATAGATTAAAGGAATGCCTGACCAGTAAAGAAC
768 CAAAATCT-AATGAA-ATCACAAGAAAGATTAAAGGAATGCCTGACCAATAAAAAAC
* *
15811768 TTGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATTATGTCGAATCGA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
* *
15811833 GATCTAAACAAAAGAAATAAAAGAAATTAGATGTTCAGTCAAAAGAATGAAAAAGTAAACCAAAT
66 GATCTAAACAAAAGAAATAAAACAAATTAGAT-TT-AGTCAAAAGAATGAAAAAGTAAACCAAAC
* * *
15811898 AGCATGGAATGAGAGAGGT-G-GGAGTGCAAGAACGAGTGAGATACGGGTTTCTTGAATAAGAAA
129 AGCATGGAAAGAGAGAGGTGGAGGAGTGCAAGAACGAGTGGGATACGGGTTTCTTGAATGAGAAA
*
15811961 GAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGATCTGGAATTGAAAGAAGAAAACAGATTG
194 GAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGATCTGGAATCGAAAGAAGAAAACAGATTG
15812026 TCAGAATGGATTTTTAAGCCATAATAAAATTATTTTGTGATAAAAGCAATCGACACAATAAGAAA
259 TCAGAATGGATTTTTAAGCCATAATAAAATT-TTTTGTGATAAAAGCAATCGACACAATAAGAAA
* * * *
15812091 AGAAGGGGCTTCCTTGTTTTCAATGGTTCTTGGTGCATTAAGGAGGGAGAACGTCTTTTCTTGTT
323 AGAAGAGACTTCTTTGTTTTCAATGGTTCTTGGTGTATTAAGGAGGGAGAACGTCTTTTCTTGTT
* * * *
15812156 GATTCCTAATATGAAAGTAAAGAAAT-AAATACTAGAAACAAACAAAAAAGAATCGAACTACAAA
388 GATTCCTAATATGGAAGTAAAGAAATAAAATATTAGAAACAAACAGACAAGAATCGAACTACAAA
* * *
15812220 TTAAAGGAAAAAGA-AAAGATAGTTGGGAAAAGACTAAAGTCGG-GTGAAGATGTCTTAAGGAGC
453 TTAAAGGAAAAAGAGAAAGA-AGTTGGGAAAAGACTAAAGT-GGCATGAAGATGTCCTAAGCAGC
* * * *
15812283 ATTAGATTATTGCATTCTCAAGATTAAGGAATCATGGATTTTGAACCCACCCAAACCTCAAAAAA
516 ATTAGATTATTGCATTCTCAAGATTAAGGAATCATAGAGTTCGAACCCACCCAAAACTCAAAAAA
* * * *
15812348 TCCATGTTAGGATTAAAAGGGTAACAACACAAATCAAGTCATTAAAA-AATAAGGAAACTAAATC
581 TCCAAGTTAGAATTAAAAAGGAAACAACACAAATCAAGTCA-TAAAAGAATAAGGAAACTAAATC
* * *
15812412 CAAATTAAGGTTCTTGGAGGACACCAAGTAGGTTAGGGAAGCACTATTCTATATGAAATCCAAAG
645 CAAATTAAGGTTCTTGGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTATATGAAATCCAAAA
* **
15812477 GGGTCAAAGTTGCAAATTAAGTGAAAACAAATGGTTGG-CAGACCTGAAGAATAAAAAGCAAAAT
710 GGG-CAAAGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAAAGCAAAAT
15812541 CTAATGAAATCACAAGAAAGATTAAAGGAATGCCTGACCAATAAAAAAC
774 CTAATGAAATCACAAGAAAGATTAAAGGAATGCCTGACCAATAAAAAAC
* *
15812590 ATGAAGAATCAACTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCAAATCGA
1 ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
* *
15812655 GATCTAAACAAAA-AAATAAAACAATTTAGATTTATTGTTAAAAGAATGAAAAAGTAAACCAAAC
66 GATCTAAACAAAAGAAATAAAACAAATTAGATTTA--GTCAAAAGAATGAAAAAGTAAACCAAAC
* * * *
15812719 AACATGGGAGGAGAGAGGTGGGCAAAGAGGAGTGCAAGAACAAGTGGGATACGGGTTTCTTGAAT
129 AGCATGGAAAGAGAGAGGT--G----GAGGAGTGCAAGAACGAGTGGGATACGGGTTTCTTGAAT
* * * *
15812784 GAGAAAGAACCATTCTTAAACCAAAAG-AGGCCTCAAACTATATCTGGAATCAAAAGAAGTAAAC
188 GAGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGATCTGGAATCGAAAGAAGAAAAC
* * *
15812848 AGATTGTCAGAATAGATTTTTAAGCCATAATAAAATTGTTTTGTGATAAAAGCAATCGCCTCAAT
253 AGATTGTCAGAATGGATTTTTAAGCCATAATAAAATT-TTTTGTGATAAAAGCAATCGACACAAT
* *
15812913 AAGAAAAGAAGAGACTTCTTTGTTTTCAATGGTTCTTGGTGTATTAATGAGGGAGAATGTCTTTT
317 AAGAAAAGAAGAGACTTCTTTGTTTTCAATGGTTCTTGGTGTATTAAGGAGGGAGAACGTCTTTT
* *
15812978 CTTGTTGATTCCTGATATGGAAGTAAAGAAATAAAATATTAGAAACAAGCAGACAAGAATC-AAC
382 CTTGTTGATTCCTAATATGGAAGTAAAGAAATAAAATATTAGAAACAAACAGACAAGAATCGAA-
*
15813042 CTGCAAATTAAAGGAAA
446 CTACAAATTAAAGGAAA
15813059 GTGCTACGAG
Statistics
Matches: 1144, Mismatches: 119, Indels: 55
0.87 0.09 0.04
Matches are distributed among these distances:
819 1 0.00
820 2 0.00
821 62 0.05
822 393 0.34
823 146 0.13
824 121 0.11
825 1 0.00
828 261 0.23
829 114 0.10
830 8 0.01
831 4 0.00
832 29 0.03
833 2 0.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (822 bp):
ATGAAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAAGATGATGTCGAATCGA
GATCTAAACAAAAGAAATAAAACAAATTAGATTTAGTCAAAAGAATGAAAAAGTAAACCAAACAG
CATGGAAAGAGAGAGGTGGAGGAGTGCAAGAACGAGTGGGATACGGGTTTCTTGAATGAGAAAGA
ACCATTCTTGAACCAAAAGAAGGCCTCAAACTAGATCTGGAATCGAAAGAAGAAAACAGATTGTC
AGAATGGATTTTTAAGCCATAATAAAATTTTTTGTGATAAAAGCAATCGACACAATAAGAAAAGA
AGAGACTTCTTTGTTTTCAATGGTTCTTGGTGTATTAAGGAGGGAGAACGTCTTTTCTTGTTGAT
TCCTAATATGGAAGTAAAGAAATAAAATATTAGAAACAAACAGACAAGAATCGAACTACAAATTA
AAGGAAAAAGAGAAAGAAGTTGGGAAAAGACTAAAGTGGCATGAAGATGTCCTAAGCAGCATTAG
ATTATTGCATTCTCAAGATTAAGGAATCATAGAGTTCGAACCCACCCAAAACTCAAAAAATCCAA
GTTAGAATTAAAAAGGAAACAACACAAATCAAGTCATAAAAGAATAAGGAAACTAAATCCAAATT
AAGGTTCTTGGAAGACACCAAGTAGGTTAAGGAAGCACTATTCTATATGAAATCCAAAAGGGCAA
AGCTGCAAATTAAGTGAAAACAAACAGTTGGACAGACCTGAAGAATAAAAAGCAAAATCTAATGA
AATCACAAGAAAGATTAAAGGAATGCCTGACCAATAAAAAAC
Found at i:15815463 original size:16 final size:16
Alignment explanation
Indices: 15815423--15815464 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
15815413 TCTGCATTTA
*
15815423 AACAACAGTATTAAAC
1 AACAACAGCATTAAAC
*
15815439 AACAGCAGCATTAAAC
1 AACAACAGCATTAAAC
*
15815455 AGCAACAGCA
1 AACAACAGCA
15815465 AAACACATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (16 bp):
AACAACAGCATTAAAC
Found at i:15817821 original size:14 final size:14
Alignment explanation
Indices: 15817792--15817828 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15817782 TTCAATCTCT
15817792 TTTTC-TTTTTCAA
1 TTTTCTTTTTTCAA
15817805 TTTTCTTTTCTTC-A
1 TTTTCTTTT-TTCAA
15817819 TTTTCTTTTT
1 TTTTCTTTTT
15817829 CTCTCACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 13 0.59
15 3 0.14
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTTTCAA
Found at i:15817856 original size:18 final size:18
Alignment explanation
Indices: 15817775--15817893 Score: 85
Period size: 18 Copynumber: 6.4 Consensus size: 18
15817765 TCTTTTTCAA
* *
15817775 TTTCTTTTTCAATCTCTT
1 TTTCTTTTTCGATTTCTT
*
15817793 TTTCTTTTTCAATTTTCTTT
1 TTTCTTTTTCGA-TTTC-TT
* ** *
15817813 TCTTCATTTTCTTTTTCTC
1 T-TTCTTTTTCGATTTCTT
** *
15817832 TCACTTTTTTGATTTCTT
1 TTTCTTTTTCGATTTCTT
* *
15817850 TTTCTTTTGCAATTTCTT
1 TTTCTTTTTCGATTTCTT
*
15817868 TTTCTTTTTCGTTTTCTT
1 TTTCTTTTTCGATTTCTT
*
15817886 TTTGTTTT
1 TTTCTTTT
15817894 CTTTCAATTT
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
18 57 0.74
19 5 0.06
20 7 0.09
21 8 0.10
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCGATTTCTT
Found at i:15817877 original size:12 final size:12
Alignment explanation
Indices: 15817764--15817897 Score: 74
Period size: 12 Copynumber: 11.0 Consensus size: 12
15817754 TTTCTTTTTC
**
15817764 TTCTTTTTCAAT
1 TTCTTTTTCTTT
**
15817776 TTCTTTTTCAAT
1 TTCTTTTTCTTT
*
15817788 CTCTTTTTCTTT
1 TTCTTTTTCTTT
*
15817800 TTCAATTTTCTTTT
1 TTC-TTTTTC-TTT
*
15817814 CTTCATTTTCTTT
1 -TTCTTTTTCTTT
* **
15817827 TTCTCTCACTTT
1 TTCTTTTTCTTT
*
15817839 TT-TGATTTCTTT
1 TTCT-TTTTCTTT
* **
15817851 TTCTTTTGCAAT
1 TTCTTTTTCTTT
15817863 TTCTTTTTCTTT
1 TTCTTTTTCTTT
*
15817875 TTCGTTTTCTTT
1 TTCTTTTTCTTT
*
15817887 TT-GTTTTCTTT
1 TTCTTTTTCTTT
15817898 CAATTTCTTT
Statistics
Matches: 97, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
11 10 0.10
12 66 0.68
13 9 0.09
14 9 0.09
15 3 0.03
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.71
Consensus pattern (12 bp):
TTCTTTTTCTTT
Found at i:15818172 original size:18 final size:18
Alignment explanation
Indices: 15818151--15818209 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
15818141 TTTTCTCTCA
15818151 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
15818169 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
15818187 CTTTTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
15818205 GTTTT
1 CTTTT
15818210 CTTTCAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.73
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:15818208 original size:11 final size:12
Alignment explanation
Indices: 15818151--15818213 Score: 67
Period size: 12 Copynumber: 5.3 Consensus size: 12
15818141 TTTTCTCTCA
*
15818151 CTTTTTCGATTT
1 CTTTTTCGTTTT
15818163 CTTTTTC-TTTT
1 CTTTTTCGTTTT
** *
15818174 GCAATTTCTTTTT
1 -CTTTTTCGTTTT
15818187 CTTTTTCGTTTT
1 CTTTTTCGTTTT
15818199 CTTTTT-GTTTT
1 CTTTTTCGTTTT
15818210 CTTT
1 CTTT
15818214 CAATTTCTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
11 12 0.28
12 27 0.63
13 4 0.09
ACGTcount: A:0.05, C:0.16, G:0.06, T:0.73
Consensus pattern (12 bp):
CTTTTTCGTTTT
Found at i:15818226 original size:6 final size:6
Alignment explanation
Indices: 15818160--15818213 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
15818150 ACTTTTTCGA
* ** * *
15818160 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCGT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
15818207 TTTCTT T
1 TTTCTT T
15818214 CAATTTCTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.04, C:0.15, G:0.06, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:15818397 original size:316 final size:316
Alignment explanation
Indices: 15817824--15818455 Score: 1237
Period size: 316 Copynumber: 2.0 Consensus size: 316
15817814 CTTCATTTTC
*
15817824 TTTTTCTCTCACTTTTTTGATTTCTTTTTCTTTTGCAATTTCTTTTTCTTTTTCGTTTTCTTTTT
1 TTTTTCTCTCACTTTTTCGATTTCTTTTTCTTTTGCAATTTCTTTTTCTTTTTCGTTTTCTTTTT
15817889 GTTTTCTTTCAATTTCTTTTTCAATCTCTTTCTCCTTTTCTCGCTCAATGGATTGCTTCATTTTG
66 GTTTTCTTTCAATTTCTTTTTCAATCTCTTTCTCCTTTTCTCGCTCAATGGATTGCTTCATTTTG
15817954 AATTGGTCTTCATGCACTTGTTCCGGTGTGAGCGGCGCTAAAGTGATTTTCCTTCCTTGATGCTT
131 AATTGGTCTTCATGCACTTGTTCCGGTGTGAGCGGCGCTAAAGTGATTTTCCTTCCTTGATGCTT
15818019 GAAGGAATACCTATTGGTACGTTCATCGTGAATGACCTTGCGATCCGATTGCCATGGTTCTCCTA
196 GAAGGAATACCTATTGGTACGTTCATCGTGAATGACCTTGCGATCCGATTGCCATGGTTCTCCTA
15818084 GCAACAAATGGCAGACTTGAATAGGCACAACATCACAAACGACTTCGTCTTGGTAT
261 GCAACAAATGGCAGACTTGAATAGGCACAACATCACAAACGACTTCGTCTTGGTAT
15818140 TTTTTCTCTCACTTTTTCGATTTCTTTTTCTTTTGCAATTTCTTTTTCTTTTTCGTTTTCTTTTT
1 TTTTTCTCTCACTTTTTCGATTTCTTTTTCTTTTGCAATTTCTTTTTCTTTTTCGTTTTCTTTTT
15818205 GTTTTCTTTCAATTTCTTTTTCAATCTCTTTCTCCTTTTCTCGCTCAATGGATTGCTTCATTTTG
66 GTTTTCTTTCAATTTCTTTTTCAATCTCTTTCTCCTTTTCTCGCTCAATGGATTGCTTCATTTTG
*
15818270 AATTGGTCTTCTTGCACTTGTTCCGGTGTGAGCGGCGCTAAAGTGATTTTCCTTCCTTGATGCTT
131 AATTGGTCTTCATGCACTTGTTCCGGTGTGAGCGGCGCTAAAGTGATTTTCCTTCCTTGATGCTT
15818335 GAAGGAATACCTATTGGTACGTTCATCGTGAATGACCTTGCGATCCGATTGCCATGGTTCTCCTA
196 GAAGGAATACCTATTGGTACGTTCATCGTGAATGACCTTGCGATCCGATTGCCATGGTTCTCCTA
*
15818400 GCAACAAATGGCAGACTTGAATAGGCACAACATCACAAAGGACTTCGTCTTGGTAT
261 GCAACAAATGGCAGACTTGAATAGGCACAACATCACAAACGACTTCGTCTTGGTAT
15818456 CTTCCGATGG
Statistics
Matches: 313, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
316 313 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (316 bp):
TTTTTCTCTCACTTTTTCGATTTCTTTTTCTTTTGCAATTTCTTTTTCTTTTTCGTTTTCTTTTT
GTTTTCTTTCAATTTCTTTTTCAATCTCTTTCTCCTTTTCTCGCTCAATGGATTGCTTCATTTTG
AATTGGTCTTCATGCACTTGTTCCGGTGTGAGCGGCGCTAAAGTGATTTTCCTTCCTTGATGCTT
GAAGGAATACCTATTGGTACGTTCATCGTGAATGACCTTGCGATCCGATTGCCATGGTTCTCCTA
GCAACAAATGGCAGACTTGAATAGGCACAACATCACAAACGACTTCGTCTTGGTAT
Found at i:15822884 original size:13 final size:13
Alignment explanation
Indices: 15822866--15822891 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15822856 TATTCTGCAT
15822866 TTAAACAACAGCA
1 TTAAACAACAGCA
15822879 TTAAACAACAGCA
1 TTAAACAACAGCA
15822892 GCAAAACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
TTAAACAACAGCA
Found at i:15825292 original size:30 final size:30
Alignment explanation
Indices: 15825258--15825317 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15825248 AATTTGTTGC
* *
15825258 GAGCT-GAACTAAGCTCCATTTCAGCTCAAT
1 GAGCTCGAA-TAAGCTCAAATTCAGCTCAAT
*
15825288 GAGCTCGAATCAGCTCAAATTCAGCTCAAT
1 GAGCTCGAATAAGCTCAAATTCAGCTCAAT
15825318 TCCATTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (30 bp):
GAGCTCGAATAAGCTCAAATTCAGCTCAAT
Found at i:15835448 original size:14 final size:13
Alignment explanation
Indices: 15835431--15835470 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
15835421 TTTTCAATTT
15835431 TTTTTCTTTTCGAA
1 TTTTT-TTTTCGAA
15835445 TTTTTTTTT-GAA
1 TTTTTTTTTCGAA
15835457 TTTTTTTTTTCGAA
1 -TTTTTTTTTCGAA
15835471 ACTACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.12
13 13 0.54
14 8 0.33
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:15835448 original size:16 final size:15
Alignment explanation
Indices: 15835417--15835453 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
15835407 CCGTATACAA
15835417 TTTTTTTTCAATTTT
1 TTTTTTTTCAATTTT
15835432 TTTTCTTTTCGAATTTT
1 TTTT-TTTTC-AATTTT
15835449 TTTTT
1 TTTTT
15835454 GAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 10 0.50
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTTTTTTCAATTTT
Found at i:15855885 original size:20 final size:19
Alignment explanation
Indices: 15855862--15855926 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
15855852 AAGCTCAAAC
15855862 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
15855882 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
15855902 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
15855922 GAGCT
1 GAGCT
15855927 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:15858564 original size:10 final size:10
Alignment explanation
Indices: 15858548--15858597 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
15858538 AGCTCGTTTG
*
15858548 CAGCTCACTT
1 CAGCTCAATT
*
15858558 GAGCTCAATT
1 CAGCTCAATT
15858568 CAGCTC-ATT
1 CAGCTCAATT
*
15858577 CGAGATCAATT
1 C-AGCTCAATT
15858588 CAGCTCAATT
1 CAGCTCAATT
15858598 TTAACCCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 4 0.12
10 25 0.76
11 4 0.12
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:15858573 original size:20 final size:20
Alignment explanation
Indices: 15858548--15858594 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
15858538 AGCTCGTTTG
*
15858548 CAGCTCACTT-GAGCTCAATT
1 CAGCTCA-TTCGAGATCAATT
15858568 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAATT
15858588 CAGCTCA
1 CAGCTCA
15858595 ATTTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAATT
Found at i:15872269 original size:11 final size:11
Alignment explanation
Indices: 15872253--15872280 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15872243 TTCACAAAAA
15872253 TTTTTTTCAAT
1 TTTTTTTCAAT
15872264 TTTTTTTCAAT
1 TTTTTTTCAAT
15872275 TTTTTT
1 TTTTTT
15872281 ACAAACCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCAAT
Found at i:15873883 original size:22 final size:22
Alignment explanation
Indices: 15873855--15873898 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15873845 GACAAAATTA
15873855 ATTAAGCAATCCAATCAGACAT
1 ATTAAGCAATCCAATCAGACAT
15873877 ATTAAGCAATCCAATCAGACAT
1 ATTAAGCAATCCAATCAGACAT
15873899 GTAATTTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (22 bp):
ATTAAGCAATCCAATCAGACAT
Found at i:15881059 original size:27 final size:27
Alignment explanation
Indices: 15881008--15881059 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15880998 CCTACCGACA
*
15881008 TACACCATCTTGCCAGACTTCCTGGCG
1 TACACCATCTTGCCAGACCTCCTGGCG
* * *
15881035 TACACCGTCTTGTCAGACCTGCTGG
1 TACACCATCTTGCCAGACCTCCTGG
15881060 GTGAATACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.17, C:0.35, G:0.21, T:0.27
Consensus pattern (27 bp):
TACACCATCTTGCCAGACCTCCTGGCG
Found at i:15881131 original size:27 final size:27
Alignment explanation
Indices: 15881067--15881142 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
15881057 TGGGTGAATA
* * *
15881067 CTAGCTTGCCAAGCCTTCTGGTGAACT
1 CTAGCTTGCCAAACCTACTGGCGAACT
* * *
15881094 TTAACTCGCCAAACCTACTGGCGAACT
1 CTAGCTTGCCAAACCTACTGGCGAACT
*
15881121 CTAGCTTGCCAAACCTGCTGGC
1 CTAGCTTGCCAAACCTACTGGC
15881143 AGTCATAATT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (27 bp):
CTAGCTTGCCAAACCTACTGGCGAACT
Found at i:15887570 original size:1 final size:1
Alignment explanation
Indices: 15887561--15887656 Score: 147
Period size: 1 Copynumber: 96.0 Consensus size: 1
15887551 AAAATAAAGC
* *
15887561 AAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* **
15887626 AATAAAGCAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15887657 GAAAGAAAGA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 86 1.00
ACGTcount: A:0.95, C:0.03, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:15887661 original size:4 final size:4
Alignment explanation
Indices: 15887654--15887690 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
15887644 AAAAAAAAAA
15887654 AAAG AAAG AAAG AAAG AAAG AAAG AAAAG AAAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG -AAAG -AAAG AAA
15887691 AAGGACACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 23 0.72
5 9 0.28
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:15889188 original size:2 final size:2
Alignment explanation
Indices: 15889181--15889207 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15889171 GAAACTGAAA
15889181 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
15889208 AAACTTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:15897315 original size:23 final size:24
Alignment explanation
Indices: 15897254--15897328 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
15897244 AACGAAGACA
*
15897254 AAGATGAGGGTGGAGATGAAGATG
1 AAGATGAGGGTCGAGATGAAGATG
15897278 AAGATGAGGGTCGAGATGAAGATG
1 AAGATGAGGGTCGAGATGAAGATG
* *
15897302 AATATG-GGGTCGAGGTGAAGATG
1 AAGATGAGGGTCGAGATGAAGATG
15897325 AAGA
1 AAGA
15897329 CGATGATCAC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 19 0.40
24 28 0.60
ACGTcount: A:0.37, C:0.03, G:0.43, T:0.17
Consensus pattern (24 bp):
AAGATGAGGGTCGAGATGAAGATG
Found at i:15897994 original size:9 final size:9
Alignment explanation
Indices: 15897982--15898013 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
15897972 AAATTTGAAT
15897982 TTCGAGTTA
1 TTCGAGTTA
15897991 TTCGAGTTA
1 TTCGAGTTA
*
15898000 ATCGAGTTA
1 TTCGAGTTA
15898009 TTCGA
1 TTCGA
15898014 ATCAACTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
TTCGAGTTA
Found at i:15898087 original size:9 final size:9
Alignment explanation
Indices: 15898068--15898104 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
15898058 TGAATTTTCG
15898068 AATTCGAAT
1 AATTCGAAT
15898077 AACTT-GAAT
1 AA-TTCGAAT
15898086 AATTCGAAT
1 AATTCGAAT
15898095 AATTCGAAT
1 AATTCGAAT
15898104 A
1 A
15898105 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15921623 original size:20 final size:21
Alignment explanation
Indices: 15921595--15921633 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
15921585 CAAAATGAGC
*
15921595 AAACAAGCT-CATTGAGCTGA
1 AAACAAGCTGAATTGAGCTGA
*
15921615 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
15921634 CAACCAGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGA
Found at i:15923785 original size:18 final size:18
Alignment explanation
Indices: 15923745--15923786 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
15923735 TACTCATCAT
15923745 TTAATTAAACTGAATTAA
1 TTAATTAAACTGAATTAA
* *
15923763 CTAATTAAACT-AACTTGA
1 TTAATTAAACTGAA-TTAA
15923781 TTAATT
1 TTAATT
15923787 TATTCCAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (18 bp):
TTAATTAAACTGAATTAA
Found at i:15943105 original size:30 final size:30
Alignment explanation
Indices: 15943057--15943128 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
15943047 ATGTGCATAT
** * *
15943057 GGAGCTGAATTAATGCATGAATGTGTTTAA
1 GGAGCTGAATGGAGGCATGAATGTATTTAA
* *
15943087 GGAGCTGAATGGAGGCATGCATGTATTTAG
1 GGAGCTGAATGGAGGCATGAATGTATTTAA
15943117 GGAGCTGAATGG
1 GGAGCTGAATGG
15943129 GGATGCTAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.28
Consensus pattern (30 bp):
GGAGCTGAATGGAGGCATGAATGTATTTAA
Found at i:15971074 original size:10 final size:9
Alignment explanation
Indices: 15971059--15971105 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
15971049 NAATATGCTT
15971059 AATATATTAA
1 AATAT-TTAA
15971069 AATATATTAA
1 AATAT-TTAA
15971079 AAT-TTTAA
1 AATATTTAA
15971087 ACATATTTAA
1 A-ATATTTAA
*
15971097 AAAATTTAA
1 AATATTTAA
15971106 GTATAACTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
8 5 0.15
9 10 0.29
10 19 0.56
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
AATATTTAA
Found at i:15971789 original size:15 final size:15
Alignment explanation
Indices: 15971769--15971804 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
15971759 AAACTAAAAT
15971769 ATTTAATTTAGTTAA
1 ATTTAATTTAGTTAA
15971784 ATTTAATTTAGTTAA
1 ATTTAATTTAGTTAA
15971799 AGTTTA
1 A-TTTA
15971805 TTGGGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (15 bp):
ATTTAATTTAGTTAA
Done.