Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 143 of 235
Found at i:48072273 original size:21 final size:21
Alignment explanation
Indices: 48072235--48072274 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48072225 CCTGCAGTTG
*
48072235 AAATTTTTCTAACTTTTTTCT
1 AAATTTTTCTAAATTTTTTCT
48072256 AAATTTTT-TAAATGTTTTT
1 AAATTTTTCTAAAT-TTTTT
48072275 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (21 bp):
AAATTTTTCTAAATTTTTTCT
Found at i:48073632 original size:26 final size:26
Alignment explanation
Indices: 48073596--48073657 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 26
48073586 AATCAAGATA
* * *
48073596 ATTCATATATATATTCCATTGAAATC
1 ATTCATGTATATATTCCATCGAAAAC
*
48073622 ATTCATG--TATATTCGATCGAAAAC
1 ATTCATGTATATATTCCATCGAAAAC
48073646 ATTCATGTATAT
1 ATTCATGTATAT
48073658 TTATTTAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 21 0.70
26 9 0.30
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (26 bp):
ATTCATGTATATATTCCATCGAAAAC
Found at i:48073643 original size:24 final size:24
Alignment explanation
Indices: 48073605--48073658 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
48073595 AATTCATATA
* *
48073605 TATATTCCATTGAAATCATTCATG
1 TATATTCCATCGAAAACATTCATG
*
48073629 TATATTCGATCGAAAACATTCATG
1 TATATTCCATCGAAAACATTCATG
48073653 TATATT
1 TATATT
48073659 TATTTAAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (24 bp):
TATATTCCATCGAAAACATTCATG
Found at i:48073868 original size:20 final size:20
Alignment explanation
Indices: 48073815--48073879 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
48073805 TGCTATATAG
48073815 AGGCATCGTAGTGCAAACAA
1 AGGCATCGTAGTGCAAACAA
* * *
48073835 AGACA-CGATTGTGCAATCAA
1 AGGCATCG-TAGTGCAAACAA
*
48073855 AGGCATCGTAGTGCAAACAG
1 AGGCATCGTAGTGCAAACAA
48073875 AGGCA
1 AGGCA
48073880 CCAAAGTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.15
Consensus pattern (20 bp):
AGGCATCGTAGTGCAAACAA
Found at i:48073891 original size:20 final size:20
Alignment explanation
Indices: 48073868--48073906 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48073858 CATCGTAGTG
48073868 CAAACAGAGGCACCAAAGTT
1 CAAACAGAGGCACCAAAGTT
*
48073888 CAAACAGAGGCACTAAAGT
1 CAAACAGAGGCACCAAAGT
48073907 GCAATCCCAT
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:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (20 bp):
CAAACAGAGGCACCAAAGTT
Found at i:48073899 original size:40 final size:40
Alignment explanation
Indices: 48073813--48073899 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
48073803 AATGCTATAT
* ** *
48073813 AGAGGCATCGTAGTGCAAACAAAGACACGATTGTGCAATC
1 AGAGGCATCGTAGTGCAAACAAAGACACCAAAGTGCAAAC
* * * *
48073853 AAAGGCATCGTAGTGCAAACAGAGGCACCAAAGTTCAAAC
1 AGAGGCATCGTAGTGCAAACAAAGACACCAAAGTGCAAAC
48073893 AGAGGCA
1 AGAGGCA
48073900 CTAAAGTGCA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.14
Consensus pattern (40 bp):
AGAGGCATCGTAGTGCAAACAAAGACACCAAAGTGCAAAC
Found at i:48074680 original size:21 final size:21
Alignment explanation
Indices: 48074656--48074695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48074646 AAATAGTCTT
48074656 ATTCAACAATCAAGCTCATAA
1 ATTCAACAATCAAGCTCATAA
* * *
48074677 ATTCATCATTTAAGCTCAT
1 ATTCAACAATCAAGCTCAT
48074696 GAATAACTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTCAACAATCAAGCTCATAA
Found at i:48074961 original size:12 final size:12
Alignment explanation
Indices: 48074944--48074974 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48074934 GTTTAATATA
*
48074944 TTTTAACTTAAT
1 TTTTAACTTAAC
48074956 TTTTAACTTAAC
1 TTTTAACTTAAC
48074968 TTTTAAC
1 TTTTAAC
48074975 AAAATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAACTTAAC
Found at i:48075625 original size:25 final size:25
Alignment explanation
Indices: 48075597--48075651 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
48075587 AGAAAAAAGA
* *
48075597 GAAGGACTTTTCATATAGTCCAGTT
1 GAAGGACTTTACATATAGCCCAGTT
*
48075622 GAAGGCCTTTACATATAGCCCAGTT
1 GAAGGACTTTACATATAGCCCAGTT
48075647 GAAGG
1 GAAGG
48075652 TGGACTTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (25 bp):
GAAGGACTTTACATATAGCCCAGTT
Found at i:48077870 original size:18 final size:17
Alignment explanation
Indices: 48077842--48077875 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48077832 AATGACCAAA
*
48077842 TTATAAAATTTTTAAAG
1 TTATAAAATTTATAAAG
48077859 TTATATAAATTTATAAA
1 TTATA-AAATTTATAAA
48077876 AATTTTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTATAAAATTTATAAAG
Found at i:48078143 original size:23 final size:23
Alignment explanation
Indices: 48078113--48078159 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
48078103 TAATGGCCAA
48078113 TTAAAAATTAATGAAGAGTTGAG
1 TTAAAAATTAATGAAGAGTTGAG
*
48078136 TTAAAAATTAATGAAGGGTTGAG
1 TTAAAAATTAATGAAGAGTTGAG
48078159 T
1 T
48078160 GATTATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (23 bp):
TTAAAAATTAATGAAGAGTTGAG
Found at i:48080669 original size:6 final size:6
Alignment explanation
Indices: 48080658--48080687 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
48080648 CTCCTTATCT
48080658 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC
1 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC
48080688 ATTTTCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTCTTC
Found at i:48080698 original size:18 final size:18
Alignment explanation
Indices: 48080659--48080712 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
48080649 TCCTTATCTC
* * *
48080659 TCTTCCTCTTCCTCTTCC
1 TCTTCCTCTTCATTTTCT
48080677 TCTTCCTCTTCATTTTCT
1 TCTTCCTCTTCATTTTCT
** *
48080695 TCTTGTTCTTCTTTTTCT
1 TCTTCCTCTTCATTTTCT
48080713 CCTCCTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.61
Consensus pattern (18 bp):
TCTTCCTCTTCATTTTCT
Found at i:48083249 original size:23 final size:22
Alignment explanation
Indices: 48083204--48083249 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
48083194 GTATGAAACT
* *
48083204 TGAAGATAAATCTGAATTTTTC
1 TGAAGATAAATATGAATTCTTC
*
48083226 TGAAGATGAATATGAAATTCTTC
1 TGAAGATAAATATG-AATTCTTC
48083249 T
1 T
48083250 TATTCTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
TGAAGATAAATATGAATTCTTC
Found at i:48084250 original size:256 final size:256
Alignment explanation
Indices: 48083795--48084310 Score: 1014
Period size: 256 Copynumber: 2.0 Consensus size: 256
48083785 TAAGAGCACG
48083795 ATATTTTGATTCTGCACTACTCCGTGAGACTACAGCTTGCTTTTTGCTCCTCCAAGTAATAAGAT
1 ATATTTTGATTCTGCACTACTCCGTGAGACTACAGCTTGCTTTTTGCTCCTCCAAGTAATAAGAT
48083860 TACCCCAAACATAGGACCAATAACCAGTGATTGATCTTCGATCAGTTTGCTCTCTTGCCCAACTA
66 TACCCCAAACATAGGACCAATAACCAGTGATTGATCTTCGATCAGTTTGCTCTCTTGCCCAACTA
48083925 GTATCGGTGTAAATTTCCACTTCTCGGTTTGCACACTTCCTGAATAGTAGACCAAGTCCCGGAGT
131 GTATCGGTGTAAATTTCCACTTCTCGGTTTGCACACTTCCTGAATAGTAGACCAAGTCCCGGAGT
* *
48083990 CATTTTTAAATACCTTAAGATTTTATTTACTACCTCTAAATGATATTCAGTTGGATTGTTC
196 CATTTTTAAATACCTCAAGATTCTATTTACTACCTCTAAATGATATTCAGTTGGATTGTTC
48084051 ATATTTTGATTCTGCACTACTCCGTGAGACTACAGCTTGCTTTTTGCTCCTCCAAGTAATAAGAT
1 ATATTTTGATTCTGCACTACTCCGTGAGACTACAGCTTGCTTTTTGCTCCTCCAAGTAATAAGAT
48084116 TACCCCAAACATAGGACCAATAACCAGTGATTGATCTTCGATCAGTTTGCTCTCTTGCCCAACTA
66 TACCCCAAACATAGGACCAATAACCAGTGATTGATCTTCGATCAGTTTGCTCTCTTGCCCAACTA
48084181 GTATCGGTGTAAATTTCCACTTCTCGGTTTGCACACTTCCTGAATAGTAGACCAAGTCCCGGAGT
131 GTATCGGTGTAAATTTCCACTTCTCGGTTTGCACACTTCCTGAATAGTAGACCAAGTCCCGGAGT
48084246 CATTTTTAAATACCTCAAGATTCTATTTACTACCTCTAAATGATATTCAGTTGGATTGTTC
196 CATTTTTAAATACCTCAAGATTCTATTTACTACCTCTAAATGATATTCAGTTGGATTGTTC
48084307 ATAT
1 ATAT
48084311 GTTGGCTGAC
Statistics
Matches: 258, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 258 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (256 bp):
ATATTTTGATTCTGCACTACTCCGTGAGACTACAGCTTGCTTTTTGCTCCTCCAAGTAATAAGAT
TACCCCAAACATAGGACCAATAACCAGTGATTGATCTTCGATCAGTTTGCTCTCTTGCCCAACTA
GTATCGGTGTAAATTTCCACTTCTCGGTTTGCACACTTCCTGAATAGTAGACCAAGTCCCGGAGT
CATTTTTAAATACCTCAAGATTCTATTTACTACCTCTAAATGATATTCAGTTGGATTGTTC
Found at i:48088909 original size:5 final size:5
Alignment explanation
Indices: 48088899--48088923 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48088889 TATCTTGTAA
48088899 AGATT AGATT AGATT AGATT AGATT
1 AGATT AGATT AGATT AGATT AGATT
48088924 GGAGATGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
AGATT
Found at i:48090866 original size:28 final size:28
Alignment explanation
Indices: 48090826--48090879 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
48090816 CTAGTCCCAT
*
48090826 AACAAGTGGTATCCGAGCTATTGGTTTG
1 AACAAGTGATATCCGAGCTATTGGTTTG
* *
48090854 AACAAGTGATATCTGAGTTATTGGTT
1 AACAAGTGATATCCGAGCTATTGGTT
48090880 CAAAAACACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (28 bp):
AACAAGTGATATCCGAGCTATTGGTTTG
Found at i:48093734 original size:23 final size:23
Alignment explanation
Indices: 48093708--48093752 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48093698 ATGGATTAGC
* *
48093708 CTTAGCACTGTTTTTAGATTTGA
1 CTTAGCACAGTTCTTAGATTTGA
48093731 CTTAGCACAGTTCTTAGATTTG
1 CTTAGCACAGTTCTTAGATTTG
48093753 CCAGTAGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (23 bp):
CTTAGCACAGTTCTTAGATTTGA
Found at i:48095429 original size:18 final size:18
Alignment explanation
Indices: 48095408--48095449 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
48095398 AAAACATTTA
*
48095408 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATA-TAT
*
48095426 TTTTGATGTATTATATAT
1 TTTTAATGTATTATATAT
48095444 TTTTAA
1 TTTTAA
48095450 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:48107755 original size:22 final size:22
Alignment explanation
Indices: 48107727--48107784 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 22
48107717 CAAAATTAAC
*
48107727 ATTTAAAAATATTTATAA-TTT
1 ATTTAAAAATAGTTATAACTTT
48107748 AATTTAAAATTATTAGTTATAACTTT
1 -ATTTAAAA--A-TAGTTATAACTTT
48107774 ATTTAAAAATA
1 ATTTAAAAATA
48107785 AGTTGTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 10 0.32
23 1 0.03
24 1 0.03
25 16 0.52
26 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAAAAATAGTTATAACTTT
Found at i:48108336 original size:3 final size:3
Alignment explanation
Indices: 48108328--48108360 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
48108318 TTTTTTATTC
48108328 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48108361 AATAGGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48108617 original size:18 final size:18
Alignment explanation
Indices: 48108577--48108640 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
48108567 TTACTTTCTA
*
48108577 ATATGATTTTAAAATTTT
1 ATATTATTTTAAAATTTT
*
48108595 ATATTATTTTCAAA--TT
1 ATATTATTTTAAAATTTT
*
48108611 AT-TTATTTATAAAATATT
1 ATATTATTT-TAAAATTTT
48108629 A-ATTATTTTAAA
1 ATATTATTTTAAA
48108641 TATTATGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 6 0.15
16 8 0.21
17 4 0.10
18 21 0.54
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATTATTTTAAAATTTT
Found at i:48108646 original size:34 final size:33
Alignment explanation
Indices: 48108582--48108646 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
48108572 TTCTAATATG
* *
48108582 ATTTTAAAATTTTATATTATTTTCAAATTATTT
1 ATTTTAAAATATTATATTATTTTAAAATTATTT
48108615 ATTTATAAAATATTA-ATTATTTTAAATATTAT
1 ATTT-TAAAATATTATATTATTTTAAA-ATTAT
48108647 GTTTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (33 bp):
ATTTTAAAATATTATATTATTTTAAAATTATTT
Found at i:48113688 original size:28 final size:28
Alignment explanation
Indices: 48113655--48113730 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
48113645 TAATGAGATT
**
48113655 AGCACTAAGTGTGTGAGTTTAATTG-AA
1 AGCACTAAGTGTGTGAGTTTAAGGGTAA
*
48113682 ATGCACTAAGTGTGTGAGTATAAGGGTAA
1 A-GCACTAAGTGTGTGAGTTTAAGGGTAA
*
48113711 AGCACTAAGTGTGCGAGTTT
1 AGCACTAAGTGTGTGAGTTT
48113731 GATTATTAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 38 0.90
29 3 0.07
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGTGAGTTTAAGGGTAA
Found at i:48114727 original size:25 final size:25
Alignment explanation
Indices: 48114698--48114821 Score: 138
Period size: 25 Copynumber: 5.2 Consensus size: 25
48114688 ATAATTTTGA
48114698 GTATATTGATGCTGTCCATTTTAAT
1 GTATATTGATGCTGTCCATTTTAAT
* *
48114723 GTATA---ATGCTATCCAATTTTGA-
1 GTATATTGATGCTGTCC-ATTTTAAT
*
48114745 GTATATTGATGTTGTCCATTTTAAT
1 GTATATTGATGCTGTCCATTTTAAT
*
48114770 GTATA---ATGCTATCCAATTTTAA-
1 GTATATTGATGCTGTCC-ATTTTAAT
48114792 GTATATTGATGCTGTCCATTTTAAT
1 GTATATTGATGCTGTCCATTTTAAT
48114817 GTATA
1 GTATA
48114822 ATGCTATCAA
Statistics
Matches: 81, Mismatches: 8, Indels: 20
0.74 0.07 0.18
Matches are distributed among these distances:
22 25 0.31
23 13 0.16
24 13 0.16
25 30 0.37
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (25 bp):
GTATATTGATGCTGTCCATTTTAAT
Found at i:48114732 original size:22 final size:22
Alignment explanation
Indices: 48114706--48114826 Score: 120
Period size: 22 Copynumber: 5.2 Consensus size: 22
48114696 GAGTATATTG
48114706 ATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCATTTTAATGTATA
* *
48114728 ATGCTATCCAATTTTGA-GTATA
1 ATGCTGTCC-ATTTTAATGTATA
*
48114750 TTGATGTTGTCCATTTTAATGTATA
1 ---ATGCTGTCCATTTTAATGTATA
*
48114775 ATGCTATCCAATTTTAA-GTATA
1 ATGCTGTCC-ATTTTAATGTATA
48114797 TTGATGCTGTCCATTTTAATGTATA
1 ---ATGCTGTCCATTTTAATGTATA
48114822 ATGCT
1 ATGCT
48114827 ATCAAATTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 20
0.74 0.07 0.18
Matches are distributed among these distances:
22 30 0.37
23 13 0.16
24 13 0.16
25 25 0.31
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGCTGTCCATTTTAATGTATA
Found at i:48114761 original size:47 final size:47
Alignment explanation
Indices: 48114690--48114880 Score: 285
Period size: 47 Copynumber: 4.0 Consensus size: 47
48114680 TTTGTGTTAT
48114690 AATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTATCC
1 AATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTATCC
*
48114737 AATTTTGAGTATATTGATGTTGTCCATTTTAATGTATAATGCTATCC
1 AATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTATCC
* *
48114784 AATTTTAAGTATATTGATGCTGTCCATTTTAATGTATAATGCTATCA
1 AATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTATCC
* * * * *
48114831 AATTTTGAGCATATT-ATTGCTGTCCAATTTGATGAATAATTGCTGTCC
1 AATTTTGAGTATATTGA-TGCTGTCCATTTTAATGTATAA-TGCTATCC
48114879 AA
1 AA
48114881 AACAGGGTCG
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 122 0.93
48 8 0.06
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (47 bp):
AATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTATCC
Found at i:48115654 original size:40 final size:39
Alignment explanation
Indices: 48115589--48115795 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 39
48115579 GAGCATTACC
* * * *
48115589 TACTGAAACGTATGCGCTATTGAGCCATACCTACTGAATT
1 TACTGAAATGTATG-TCTATCGAGCCATACCTATTGAATT
* *
48115629 TACTGAAATGTATGTGATATCGAGCCATACTTATTG-ATT
1 TACTGAAATGTATGT-CTATCGAGCCATACCTATTGAATT
*
48115668 CTATTGAAA-GTATGCTCTATCGAGCCATACCTATTGAATT
1 -TACTGAAATGTATG-TCTATCGAGCCATACCTATTGAATT
* * * *
48115708 TACTAAAATGTATGCACTATCGAGTCATACCTACTGAATT
1 TACTGAAATGTATG-TCTATCGAGCCATACCTATTGAATT
*
48115748 TACTGAAAAGTATGCTCTATCGAGCCATACCTATTG-ATT
1 TACTGAAATGTATG-TCTATCGAGCCATACCTATTGAATT
48115787 CTACTGAAA
1 -TACTGAAA
48115796 GTTGCTCAAA
Statistics
Matches: 142, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.25
40 107 0.75
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (39 bp):
TACTGAAATGTATGTCTATCGAGCCATACCTATTGAATT
Found at i:48115729 original size:79 final size:79
Alignment explanation
Indices: 48115589--48115784 Score: 261
Period size: 79 Copynumber: 2.5 Consensus size: 79
48115579 GAGCATTACC
* * * * *
48115589 TACTGAAACGTATGCGCTATTGAGCCATACCTACTGAATTTACTGAAATGTATGTGATATCGAGC
1 TACTGAAA-GTATGCTCTATCGAGCCATACCTATTGAATTTACTAAAATGTATGTCATATCGAGC
* *
48115654 CATACTTATTG-ATT
65 CATACCTACTGAATT
*
48115668 CTATTGAAAGTATGCTCTATCGAGCCATACCTATTGAATTTACTAAAATGTATG-CACTATCGAG
1 -TACTGAAAGTATGCTCTATCGAGCCATACCTATTGAATTTACTAAAATGTATGTCA-TATCGAG
*
48115732 TCATACCTACTGAATT
64 CCATACCTACTGAATT
48115748 TACTGAAAAGTATGCTCTATCGAGCCATACCTATTGA
1 TACTG-AAAGTATGCTCTATCGAGCCATACCTATTGA
48115785 TTCTACTGAA
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 61 0.59
80 41 0.40
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (79 bp):
TACTGAAAGTATGCTCTATCGAGCCATACCTATTGAATTTACTAAAATGTATGTCATATCGAGCC
ATACCTACTGAATT
Found at i:48119774 original size:101 final size:100
Alignment explanation
Indices: 48119612--48119812 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 100
48119602 TGAAAGTGGA
48119612 AAATTCGATTTAAATTTACGATCCTCTCATTGCATCTCTTTTGTTTTGAGTTATATTTTTTTTAT
1 AAATTCGATTTAAATTTACGATCCTCTCATTGCATCTCTTTTGTTTTGAGTTATA-TTTTTTTAT
48119677 CGTGTTCTGTATTTTATTTTATACCTCTGCACATTG
65 CGTGTTCTGTATTTTATTTTATACCTCTGCACATTG
48119713 AAATTCGATTTAAATTTACGATCCTCTCATTGCATCTCTTTTGTTTTGAGTTATATTTTTTTATC
1 AAATTCGATTTAAATTTACGATCCTCTCATTGCATCTCTTTTGTTTTGAGTTATATTTTTTTATC
48119778 GTGTTCTGTATTTTATTTTATACCTCTGCACATTG
66 GTGTTCTGTATTTTATTTTATACCTCTGCACATTG
48119813 CATTGCATGA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 45 0.45
101 55 0.55
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.52
Consensus pattern (100 bp):
AAATTCGATTTAAATTTACGATCCTCTCATTGCATCTCTTTTGTTTTGAGTTATATTTTTTTATC
GTGTTCTGTATTTTATTTTATACCTCTGCACATTG
Found at i:48131028 original size:44 final size:44
Alignment explanation
Indices: 48130961--48131927 Score: 621
Period size: 44 Copynumber: 20.8 Consensus size: 44
48130951 GAAGAATTTC
* * *
48130961 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
48131005 AGATCTTATCTCTTTG-AGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTGAAGCTAG
* * ** *
48131049 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
48131092 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * *
48131147 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
48131191 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
48131234 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * *
48131289 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
48131333 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
48131376 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * *
48131431 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
48131475 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
48131518 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * *
48131573 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
48131617 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
48131660 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * ** ** **
48131715 AGATCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAAAATTTC
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTG--AAGCTAG
* * *
48131761 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
48131805 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
48131849 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
48131892 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
48131928 CACATCAGAT
Statistics
Matches: 716, Mismatches: 128, Indels: 158
0.71 0.13 0.16
Matches are distributed among these distances:
42 6 0.01
43 25 0.03
44 444 0.62
45 13 0.02
46 38 0.05
47 11 0.02
51 9 0.01
52 5 0.01
53 7 0.01
54 138 0.19
55 20 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
Found at i:48131180 original size:142 final size:142
Alignment explanation
Indices: 48130991--48131739 Score: 1462
Period size: 142 Copynumber: 5.3 Consensus size: 142
48130981 TACAGTGGAG
* *
48130991 CAGATTGAAGCCAGAGATCTTATCTCTTTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
48131056 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
48131121 AGTAGATCACAT
131 AGTAGATCACAT
48131133 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
48131198 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
48131263 AGTAGATCACAT
131 AGTAGATCACAT
48131275 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
48131340 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
48131405 AGTAGATCACAT
131 AGTAGATCACAT
48131417 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
48131482 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
48131547 AGTAGATCACAT
131 AGTAGATCACAT
48131559 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
48131624 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
48131689 AGTAGATCACAT
131 AGTAGATCACAT
* *
48131701 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAG
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAG
48131740 TGGAACAGAC
Statistics
Matches: 603, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 603 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (142 bp):
CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCACAT
Found at i:48131830 original size:232 final size:232
Alignment explanation
Indices: 48131559--48131987 Score: 824
Period size: 232 Copynumber: 1.8 Consensus size: 232
48131549 TAGATCACAT
48131559 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
48131624 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
48131689 AGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGA-GATTACAGTGGAACAGACCGA
131 AGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGATG-TTACAGTGGAACAGACCGA
48131753 AAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAG
195 AAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAG
48131791 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
48131856 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
* *
48131921 AGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGATGTTGCAGTGGAACAGACTGAA
131 AGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGATGTTACAGTGGAACAGACCGAA
48131986 AA
196 AA
48131988 CATAAATTTC
Statistics
Matches: 194, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
232 193 0.99
233 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (232 bp):
CAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGATGTTACAGTGGAACAGACCGAA
AAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAG
Found at i:48132995 original size:100 final size:100
Alignment explanation
Indices: 48132886--48133085 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
48132876 TTTTTGGTTT
48132886 TTCGGCCACCGCGAACGGCGCCGTCGTCGCCGGCGTCCGGCGACCGGTGCGGTGGTCGATGGCCG
1 TTCGGCCACCGCGAACGGCGCCGTCGTCGCCGGCGTCCGGCGACCGGTGCGGTGGTCGATGGCCG
48132951 GCAAAGGGGGCTCTTCCTCTCTTTTTACGGACACA
66 GCAAAGGGGGCTCTTCCTCTCTTTTTACGGACACA
*
48132986 TTCGGCCACCGCGAACGGCGGCGTCGTCGCCGGCGTCCGGCGACCGGTGCGGTGGTCGATGGCCG
1 TTCGGCCACCGCGAACGGCGCCGTCGTCGCCGGCGTCCGGCGACCGGTGCGGTGGTCGATGGCCG
48133051 GCAAAGGGGGCTCTTCCTCTCTTTTTACGGACACA
66 GCAAAGGGGGCTCTTCCTCTCTTTTTACGGACACA
48133086 AGAACAATAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.12, C:0.34, G:0.35, T:0.19
Consensus pattern (100 bp):
TTCGGCCACCGCGAACGGCGCCGTCGTCGCCGGCGTCCGGCGACCGGTGCGGTGGTCGATGGCCG
GCAAAGGGGGCTCTTCCTCTCTTTTTACGGACACA
Found at i:48139708 original size:21 final size:21
Alignment explanation
Indices: 48139679--48139718 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48139669 TAATTTCATC
* *
48139679 GTTATAGTATCCAATCTCACT
1 GTTACAGTAACCAATCTCACT
*
48139700 GTTACAGTAACTAATCTCA
1 GTTACAGTAACCAATCTCA
48139719 TCACCACCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (21 bp):
GTTACAGTAACCAATCTCACT
Found at i:48142644 original size:13 final size:13
Alignment explanation
Indices: 48142626--48142650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48142616 AATTCTTTAT
48142626 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
48142639 TGCTTTTGAGAA
1 TGCTTTTGAGAA
48142651 ATTTGAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:48144242 original size:11 final size:11
Alignment explanation
Indices: 48144226--48144251 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48144216 CAAGAAATAC
48144226 CAGCAAATCAA
1 CAGCAAATCAA
48144237 CAGCAAATCAA
1 CAGCAAATCAA
48144248 CAGC
1 CAGC
48144252 TTCAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.31, G:0.12, T:0.08
Consensus pattern (11 bp):
CAGCAAATCAA
Found at i:48144302 original size:19 final size:19
Alignment explanation
Indices: 48144256--48144304 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
48144246 AACAGCTTCA
* * *
48144256 AAATATTAAACAGAAGAGG
1 AAATATAAAACAAAAGAAG
*
48144275 AACTAATAAAACAAAAGAAG
1 AAAT-ATAAAACAAAAGAAG
48144295 AAATATAAAA
1 AAATATAAAA
48144305 GAAACTCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.14
Consensus pattern (19 bp):
AAATATAAAACAAAAGAAG
Found at i:48146986 original size:3 final size:3
Alignment explanation
Indices: 48146978--48147020 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
48146968 AAATTGGACT
48146978 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48147021 GCCTTCATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48147511 original size:17 final size:15
Alignment explanation
Indices: 48147482--48147524 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
48147472 TTGAATTAGA
48147482 TATTAGATAATTTTATT
1 TATTA-ATAATTTT-TT
48147499 TATTAATATATTTTTT
1 TATTAATA-ATTTTTT
48147515 TACTTAATAA
1 TA-TTAATAA
48147525 GCTATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (15 bp):
TATTAATAATTTTTT
Found at i:48150593 original size:45 final size:45
Alignment explanation
Indices: 48150523--48150693 Score: 202
Period size: 45 Copynumber: 3.8 Consensus size: 45
48150513 GGTGGGTCAG
* * *
48150523 CACATAGC-ACCACCCTTATAATCAATTATATTCGGTGGAATCAT
1 CACATAGCAACCACCTTTATAATCAATGATATTCAGTGGAATCAT
* ** * *
48150567 CACATAGCAACCACATTTATTTTCAATGAT-TTCCAGTGGAGTCCT
1 CACATAGCAACCACCTTTATAATCAATGATATT-CAGTGGAATCAT
* ** *
48150612 CACATAGCAACCACCTTTATAATCAATGGTACCCAGTGGAATCAG
1 CACATAGCAACCACCTTTATAATCAATGATATTCAGTGGAATCAT
*
48150657 CACATAGCAACCACCTTTATAATCAATGATACTCAGT
1 CACATAGCAACCACCTTTATAATCAATGATATTCAGT
48150694 ACACGTAGTA
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 10 0.10
45 95 0.90
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (45 bp):
CACATAGCAACCACCTTTATAATCAATGATATTCAGTGGAATCAT
Found at i:48150684 original size:90 final size:89
Alignment explanation
Indices: 48150523--48150686 Score: 229
Period size: 90 Copynumber: 1.8 Consensus size: 89
48150513 GGTGGGTCAG
* ** * * *
48150523 CACATAGCACCACCCTTATAATCAATTATATTCGGTGGAATCATCACATAGCAACCACATTTATT
1 CACATAGCACCACCCTTATAATCAATGATACCCAGTGGAATCAGCACATAGCAACCACATTTATA
*
48150588 TTCAATGATTTCCAGTGGAGTCCT
66 ATCAATGATTTCCAGTGGAGTCCT
* * *
48150612 CACATAGCAACCACCTTTATAATCAATGGTACCCAGTGGAATCAGCACATAGCAACCACCTTTAT
1 CACATAGC-ACCACCCTTATAATCAATGATACCCAGTGGAATCAGCACATAGCAACCACATTTAT
48150677 AATCAATGAT
65 AATCAATGAT
48150687 ACTCAGTACA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
89 8 0.12
90 56 0.88
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (89 bp):
CACATAGCACCACCCTTATAATCAATGATACCCAGTGGAATCAGCACATAGCAACCACATTTATA
ATCAATGATTTCCAGTGGAGTCCT
Found at i:48152022 original size:16 final size:17
Alignment explanation
Indices: 48151986--48152024 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
48151976 CAAAGCAAAC
48151986 AATAGATCAATCAAGTAG
1 AATA-ATCAATCAAGTAG
*
48152004 AATAATCAATCCA-TAG
1 AATAATCAATCAAGTAG
48152020 AATAA
1 AATAA
48152025 ATCACAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (17 bp):
AATAATCAATCAAGTAG
Found at i:48152027 original size:17 final size:18
Alignment explanation
Indices: 48151986--48152028 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
48151976 CAAAGCAAAC
*
48151986 AATAGATCAATCAAGTAG
1 AATAAATCAATCAAGTAG
*
48152004 AAT-AATCAATCCA-TAG
1 AATAAATCAATCAAGTAG
48152020 AATAAATCA
1 AATAAATCA
48152029 CAATTCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (18 bp):
AATAAATCAATCAAGTAG
Found at i:48152688 original size:17 final size:17
Alignment explanation
Indices: 48152662--48152721 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
48152652 GGGACTAAAA
*
48152662 TAAAATACTAAAAATTG
1 TAAAACACTAAAAATTG
*
48152679 TAAAACACT-AACA---
1 TAAAACACTAAAAATTG
48152692 TAAAACACTAAAAATTG
1 TAAAACACTAAAAATTG
*
48152709 TAAAACTCTAAAA
1 TAAAACACTAAAA
48152722 TAAAACTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.26
14 3 0.09
16 3 0.09
17 20 0.57
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAACACTAAAAATTG
Found at i:48152695 original size:30 final size:30
Alignment explanation
Indices: 48152655--48152736 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
48152645 TCATCCAGGG
48152655 ACTAAAATAAAATACTAAAAATTGTAAAAC
1 ACTAAAATAAAATACTAAAAATTGTAAAAC
* *
48152685 ACTAACATAAAACACTAAAAATTGTAAAAC
1 ACTAAAATAAAATACTAAAAATTGTAAAAC
*
48152715 TCTAAAATAAAACT-CTAAAAAT
1 ACTAAAATAAAA-TACTAAAAAT
48152737 AAACCGTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.61, C:0.13, G:0.02, T:0.23
Consensus pattern (30 bp):
ACTAAAATAAAATACTAAAAATTGTAAAAC
Found at i:48152727 original size:13 final size:14
Alignment explanation
Indices: 48152709--48152739 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
48152699 CTAAAAATTG
48152709 TAAAACTCT-AAAA
1 TAAAACTCTAAAAA
48152722 TAAAACTCTAAAAA
1 TAAAACTCTAAAAA
48152736 TAAA
1 TAAA
48152740 CCGTTCAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAACTCTAAAAA
Found at i:48158055 original size:3 final size:3
Alignment explanation
Indices: 48158036--48158080 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
48158026 ATGGCATGGG
* *
48158036 TGT T-T TGT TGT TTT TGT TGT TGT TGT TGT TGT TTT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
48158081 TTTACTATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.00, C:0.00, G:0.27, T:0.73
Consensus pattern (3 bp):
TGT
Found at i:48161623 original size:30 final size:30
Alignment explanation
Indices: 48161582--48161808 Score: 418
Period size: 30 Copynumber: 7.6 Consensus size: 30
48161572 AGAATTGTGA
*
48161582 CACAGACATCAAGTTTTTTGTTATGCCAGG
1 CACATACATCAAGTTTTTTGTTATGCCAGG
*
48161612 CACATACATCAAGTTTTTTTTTATGCCAGG
1 CACATACATCAAGTTTTTTGTTATGCCAGG
48161642 CACATACATCAAGTTTTTTGTTATGCCAGG
1 CACATACATCAAGTTTTTTGTTATGCCAGG
*
48161672 CACATACATCAAGTTTTTTTTTATGCCAGG
1 CACATACATCAAGTTTTTTGTTATGCCAGG
48161702 CACATACATCAAGTTTTTTGTTATGCCAGG
1 CACATACATCAAGTTTTTTGTTATGCCAGG
*
48161732 CACATACATCAAGTTTTTTTTTATGCCAGG
1 CACATACATCAAGTTTTTTGTTATGCCAGG
48161762 CACATACATCAAGTTTTTTGTTATGCCAGG
1 CACATACATCAAGTTTTTTGTTATGCCAGG
48161792 CACATACATCAAGTTTT
1 CACATACATCAAGTTTT
48161809 CATATGAAGA
Statistics
Matches: 190, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 190 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (30 bp):
CACATACATCAAGTTTTTTGTTATGCCAGG
Found at i:48163695 original size:19 final size:21
Alignment explanation
Indices: 48163644--48163697 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
48163634 GGATGGATCA
*
48163644 CTCTTACGAGCTTCTGTTTAG
1 CTCTTACGAGCTTCTGTTCAG
48163665 CTCTTACGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAG
48163686 CT-TT-CGAGCTTC
1 CTCTTACGAGCTTC
48163698 AGTTGGCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 22 0.69
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.41
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAG
Found at i:48166552 original size:17 final size:18
Alignment explanation
Indices: 48166530--48166571 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
48166520 TATATTCTGG
*
48166530 TATCTATTATTCT-TTTA
1 TATCTAGTATTCTGTTTA
*
48166547 TATCTAGTATTCTGTTTG
1 TATCTAGTATTCTGTTTA
48166565 TATCTAG
1 TATCTAG
48166572 CTATGGGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (18 bp):
TATCTAGTATTCTGTTTA
Found at i:48177884 original size:332 final size:334
Alignment explanation
Indices: 48177274--48177923 Score: 1034
Period size: 332 Copynumber: 1.9 Consensus size: 334
48177264 GTAGGCCCAA
*
48177274 ATTTTAGAATTTTTCCCTAAGGTCGTACATGTTGTCCCGATCGACTGTGGGCCTTCCGTGAGGTC
1 ATTTTAGAATTTTTCCCTAAGGTCGTACATGTTGTCCAGATCGACTGTGGGCCTTCCGTGAGGTC
* *
48177339 GGTATGTGTTATATAAGCTTTAAAGTATGAAGTCTACTAATCTATTTGTATGAATTGGACATAAA
66 GGTATGTGTTATATAAGCTTTAAAGTATGAACTCTACTAATCTATTTGTACGAATTGGACATAAA
* *
48177404 TAATGCCTAAATGCATGTAATGTGATGTGATAGGTTTGATCTGTTATGTATAAGCATGTTCAATA
131 TAATGCCTAAATGCATCTAATGTGATGCGATAGGTTTGATCTGTTATGTATAAGCATGTTCAATA
* * *
48177469 TCTGTTATACGAGCATGCATGATATATATATTCTGGAATCTGTTATTCTATTATATCTGGTATTC
196 TCTATTATACGAGCATGCATGATATATATATTCTGGAATCTATTATTCTATTATATCTGCTATTC
* *
48177534 TGTTTGTATCTGGCTAT-GGTATGTATTATGTGGAGGAAGTGTTCTGTGTGAGGCGTTAACTAGC
261 TGTTTGTATCTAGCTATGGGTATGTATTATGTGGAGGAAATGTTCTGTGTGAGGCGTTAACTAGC
48177598 AATTTTACT
326 AATTTTACT
* * * *
48177607 ATTTTAGAATTTTTCCCTACGGTTGTACATGTTGTCCAGTTCGACTGTGGGCCTTCCG-GTGGTC
1 ATTTTAGAATTTTTCCCTAAGGTCGTACATGTTGTCCAGATCGACTGTGGGCCTTCCGTGAGGTC
* * * *
48177671 GGTATGTGTTATATAAGCTTTAAAGTATGAACTCTGCTGATCTGTTTGTACGAATTGGACGTAAA
66 GGTATGTGTTATATAAGCTTTAAAGTATGAACTCTACTAATCTATTTGTACGAATTGGACATAAA
*
48177736 TAATGCCTAAATGCATCTAATGTGATGCGATATGTTTGATCTGTTATGTATAAGCATGTTCAATA
131 TAATGCCTAAATGCATCTAATGTGATGCGATAGGTTTGATCTGTTATGTATAAGCATGTTCAATA
* * *
48177801 TCTATTATACGAGCATGCATGATATATATATTCTGGTATCTATTATTTTGTTATATCTGCTATTC
196 TCTATTATACGAGCATGCATGATATATATATTCTGGAATCTATTATTCTATTATATCTGCTATTC
48177866 TGTTTGTATCTAGCTATGGGGCAGGGTATGTATTATGTGGAGGAAATGTTCTGTGTGA
261 TGTTTGTATCTAGCTAT------GGGTATGTATTATGTGGAGGAAATGTTCTGTGTGA
48177924 CGTTTGGTAA
Statistics
Matches: 288, Mismatches: 22, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
332 201 0.70
333 54 0.19
339 33 0.11
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (334 bp):
ATTTTAGAATTTTTCCCTAAGGTCGTACATGTTGTCCAGATCGACTGTGGGCCTTCCGTGAGGTC
GGTATGTGTTATATAAGCTTTAAAGTATGAACTCTACTAATCTATTTGTACGAATTGGACATAAA
TAATGCCTAAATGCATCTAATGTGATGCGATAGGTTTGATCTGTTATGTATAAGCATGTTCAATA
TCTATTATACGAGCATGCATGATATATATATTCTGGAATCTATTATTCTATTATATCTGCTATTC
TGTTTGTATCTAGCTATGGGTATGTATTATGTGGAGGAAATGTTCTGTGTGAGGCGTTAACTAGC
AATTTTACT
Found at i:48181547 original size:18 final size:18
Alignment explanation
Indices: 48181520--48181557 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48181510 TATAAGAGAA
48181520 TTCACATTTCAAGGACTC
1 TTCACATTTCAAGGACTC
* *
48181538 TTCACTTTTCAAGGGCTC
1 TTCACATTTCAAGGACTC
48181556 TT
1 TT
48181558 AAAGCCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (18 bp):
TTCACATTTCAAGGACTC
Found at i:48182647 original size:93 final size:93
Alignment explanation
Indices: 48182488--48182660 Score: 346
Period size: 93 Copynumber: 1.9 Consensus size: 93
48182478 TATTCAACAA
48182488 AAGAAACTTGGGTTTTAGGTGGGGTTTCACTTAGAAATGAAAGAGAAGATTGGCCATTGTTGTTG
1 AAGAAACTTGGGTTTTAGGTGGGGTTTCACTTAGAAATGAAAGAGAAGATTGGCCATTGTTGTTG
48182553 AAATTTAGAAGAGATGAGAAAAATCTCT
66 AAATTTAGAAGAGATGAGAAAAATCTCT
48182581 AAGAAACTTGGGTTTTAGGTGGGGTTTCACTTAGAAATGAAAGAGAAGATTGGCCATTGTTGTTG
1 AAGAAACTTGGGTTTTAGGTGGGGTTTCACTTAGAAATGAAAGAGAAGATTGGCCATTGTTGTTG
48182646 AAATTTAGAAGAGAT
66 AAATTTAGAAGAGAT
48182661 CTTCTTCTTC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 80 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (93 bp):
AAGAAACTTGGGTTTTAGGTGGGGTTTCACTTAGAAATGAAAGAGAAGATTGGCCATTGTTGTTG
AAATTTAGAAGAGATGAGAAAAATCTCT
Found at i:48182668 original size:3 final size:3
Alignment explanation
Indices: 48182660--48182700 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
48182650 TTAGAAGAGA
48182660 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
48182701 CATTTAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:48183944 original size:50 final size:51
Alignment explanation
Indices: 48183877--48183986 Score: 204
Period size: 50 Copynumber: 2.2 Consensus size: 51
48183867 AATTAAAAAA
48183877 AGTAACTTTGGGTCATTGTAACAACTGTCACCTATTGTAATCAAATTTA-T
1 AGTAACTTTGGGTCATTGTAACAACTGTCACCTATTGTAATCAAATTTATT
48183927 AGTAACTTTGGGTCATTGTAACAACTGTCACCTATTGTAATCAAATTTATT
1 AGTAACTTTGGGTCATTGTAACAACTGTCACCTATTGTAATCAAATTTATT
*
48183978 ATTAACTTT
1 AGTAACTTT
48183987 CATCCCCTCA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 49 0.84
51 9 0.16
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (51 bp):
AGTAACTTTGGGTCATTGTAACAACTGTCACCTATTGTAATCAAATTTATT
Found at i:48184266 original size:17 final size:17
Alignment explanation
Indices: 48184246--48184304 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
48184236 TCAATATGAT
48184246 TAAATAATTCAATAATA
1 TAAATAATTCAATAATA
* *
48184263 TAAATAGTACAA-AATA
1 TAAATAATTCAATAATA
*
48184279 TGAAATTTAATTTAATAATA
1 T-AAA--TAATTCAATAATA
48184299 TAAATA
1 TAAATA
48184305 GTAGAATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 15 0.45
19 8 0.24
20 5 0.15
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:48190036 original size:66 final size:66
Alignment explanation
Indices: 48189930--48190064 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
48189920 TTTACCTTCC
*
48189930 CTTCGAATGATTCATCCAAAGTCCATGCTTCAAACTGGAACTTCGCCTTCCTCCCTTCCCTTTTC
1 CTTCGAATGATTCATCCAAAGTCCATGCTTCAAACCGGAACTTCGCCTTCCTCCCTTCCCTTTTC
48189995 T
66 T
48189996 CTTCGAATGATTCATCCAAAGTCCATGCTTCAAACCGGAACTTCGCCTTCCTCCCTTCCCTTTTC
1 CTTCGAATGATTCATCCAAAGTCCATGCTTCAAACCGGAACTTCGCCTTCCTCCCTTCCCTTTTC
48190061 T
66 T
48190062 CTT
1 CTT
48190065 GTTCTGTAAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.19, C:0.36, G:0.10, T:0.35
Consensus pattern (66 bp):
CTTCGAATGATTCATCCAAAGTCCATGCTTCAAACCGGAACTTCGCCTTCCTCCCTTCCCTTTTC
T
Found at i:48190469 original size:112 final size:112
Alignment explanation
Indices: 48190271--48190496 Score: 434
Period size: 112 Copynumber: 2.0 Consensus size: 112
48190261 TCCTCTAAAA
48190271 CTCTGAAAAACCTCCATTTGACATTCCTCCCATAGCACTCCCCATTCTTTCTCAAAAGAATACGT
1 CTCTGAAAAACCTCCATTTGACATTCCTCCCATAGCACTCCCCATTCTTTCTCAAAAGAATACGT
48190336 AATTCCATTAAAGTCACCACACACAAGCCAATGTGACTCGTGTACGT
66 AATTCCATTAAAGTCACCACACACAAGCCAATGTGACTCGTGTACGT
*
48190383 CTCTGAAAAACCTCCATTTGACATTCCTCCCATGGCACTCCCCATTCTTTCTCAAAAGAATACGT
1 CTCTGAAAAACCTCCATTTGACATTCCTCCCATAGCACTCCCCATTCTTTCTCAAAAGAATACGT
*
48190448 AATTCCATTAAAGTCAGCACACACAAGCCAATGTGACTCGTGTACGT
66 AATTCCATTAAAGTCACCACACACAAGCCAATGTGACTCGTGTACGT
48190495 CT
1 CT
48190497 TAAATTCCTC
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.27
Consensus pattern (112 bp):
CTCTGAAAAACCTCCATTTGACATTCCTCCCATAGCACTCCCCATTCTTTCTCAAAAGAATACGT
AATTCCATTAAAGTCACCACACACAAGCCAATGTGACTCGTGTACGT
Found at i:48197545 original size:19 final size:17
Alignment explanation
Indices: 48197490--48197574 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 17
48197480 ATAATTATTT
48197490 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
48197507 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
48197528 TAAATTTCATATATTTTAT
1 TAAA-TT-ATATATTTTAG
*
48197547 TAAATTATATATTTTTAT
1 TAAATTATATA-TTTTAG
48197565 TAAATTATAT
1 TAAATTATAT
48197575 TTAATAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
17 7 0.12
18 20 0.35
19 12 0.21
20 8 0.14
21 7 0.12
22 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:48197812 original size:46 final size:44
Alignment explanation
Indices: 48197726--48197819 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 44
48197716 ATTACAATAT
*
48197726 CATTCCATTCAACCAAATATAAAAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACATAAAAATACTATTACAGTTCTATTC
*
48197770 CATTTCATTCAACCAAACA-AAAAGATTACCTATTAC-GCTTCTATTC
1 CATTCCATTCAACCAAACATAAAA-A-TA-CTATTACAG-TTCTATTC
48197816 CATT
1 CATT
48197820 AAGCCTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
43 4 0.09
44 18 0.41
45 3 0.07
46 19 0.43
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAAAATACTATTACAGTTCTATTC
Found at i:48199781 original size:2 final size:2
Alignment explanation
Indices: 48199774--48199904 Score: 262
Period size: 2 Copynumber: 65.5 Consensus size: 2
48199764 TGACACAATT
48199774 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48199816 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48199858 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48199900 TA TA T
1 TA TA T
48199905 GAGAAAGCAT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 129 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48212666 original size:16 final size:16
Alignment explanation
Indices: 48212633--48212666 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48212623 TTTTAATTTC
*
48212633 TATTTATCTACTTATT
1 TATTTATCTAATTATT
*
48212649 TATTTATCTAATTTTT
1 TATTTATCTAATTATT
48212665 TA
1 TA
48212667 AAATTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTATCTAATTATT
Found at i:48214089 original size:21 final size:22
Alignment explanation
Indices: 48214033--48214142 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 22
48214023 TGAGTATACT
48214033 CAAATTAATCCCTCAAGGGATA
1 CAAATTAATCCCTCAAGGGATA
* * * *
48214055 TAACTCAATCCC-CTAGGGGATA
1 CAAATTAATCCCTC-AAGGGATA
* *
48214077 CAAATTAATCCCTCATGGTATA
1 CAAATTAATCCCTCAAGGGATA
* * * *
48214099 TAACA-CAATCCCTCAAAGCATA
1 CAA-ATTAATCCCTCAAGGGATA
*
48214121 CGAATTAATCCCTCAAGGGATA
1 CAAATTAATCCCTCAAGGGATA
48214143 TAAAAAATCT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
21 2 0.03
22 61 0.94
23 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAATTAATCCCTCAAGGGATA
Found at i:48214100 original size:44 final size:44
Alignment explanation
Indices: 48214033--48214145 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
48214023 TGAGTATACT
* ** *
48214033 CAAATTAATCCCTCAAGGGATATAACTCAATCCC-CTAGGGGATA
1 CAAATTAATCCCTCAAGGGATATAACACAATCCCTC-AAAGCATA
* *
48214077 CAAATTAATCCCTCATGGTATATAACACAATCCCTCAAAGCATA
1 CAAATTAATCCCTCAAGGGATATAACACAATCCCTCAAAGCATA
*
48214121 CGAATTAATCCCTCAAGGGATATAA
1 CAAATTAATCCCTCAAGGGATATAA
48214146 AAAATCTGCA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 58 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (44 bp):
CAAATTAATCCCTCAAGGGATATAACACAATCCCTCAAAGCATA
Found at i:48222091 original size:29 final size:29
Alignment explanation
Indices: 48222047--48222258 Score: 177
Period size: 29 Copynumber: 7.3 Consensus size: 29
48222037 ACCTCAGATA
*
48222047 ATGAAAAGGGATAGCTTCTACTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
*
48222076 ACGAAAAGGGATAGCTTCTG-CTATCGAAT
1 ATGAAAAGGGATAGCTTC-GACTATCGAAT
* * *
48222105 GTGAAAAGTGATAACTTC-AGCTATC-AATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAA-T
* * * *
48222134 ATGAGAAGGGAT-GGTGACGACCATC-AATT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
* *
48222163 ATGAAAAGGGAT-GGTGAT-GACCATCGAAT
1 ATGAAAAGGGATAGCT--TCGACTATCGAAT
*
48222192 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
48222221 GTGAAAAGGGATAACTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
48222250 ATGAAAAGG
1 ATGAAAAGG
48222259 CATGGTGATA
Statistics
Matches: 149, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
28 4 0.03
29 140 0.94
30 5 0.03
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:48222215 original size:87 final size:87
Alignment explanation
Indices: 48222098--48222290 Score: 212
Period size: 87 Copynumber: 2.2 Consensus size: 87
48222088 AGCTTCTGCT
* * * **
48222098 ATCGAATGTGAAAAGTGATAACTTCAGCTATC-AATTATGAGAAGGGAT-GGTGACGACCATCAA
1 ATCGAATATGAAAAGGGATAACTTCAGCTATCGAA-TATGAAAAGGGATAACT-ACGACCATCAA
* *
48222161 TTATGAAAAGGGATGGTGATGACC
64 TTATGAAAAGGCATGGTGATAACC
* * * * * *
48222185 ATCGAATATGAAAAGGGATAGCTTCGGCTATCGAATGTGAAAAGGGATAACTTCGACTATCGATT
1 ATCGAATATGAAAAGGGATAACTTCAGCTATCGAATATGAAAAGGGATAACTACGACCATCAATT
48222250 ATGAAAAGGCATGGTGATAACC
66 ATGAAAAGGCATGGTGATAACC
*
48222272 ATC-AGCTATGAAAAGGGAT
1 ATCGA-ATATGAAAAGGGAT
48222291 GGTGACGACC
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
86 1 0.01
87 85 0.96
88 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATAACTTCAGCTATCGAATATGAAAAGGGATAACTACGACCATCAATT
ATGAAAAGGCATGGTGATAACC
Found at i:48222251 original size:116 final size:116
Alignment explanation
Indices: 48222069--48222347 Score: 371
Period size: 116 Copynumber: 2.4 Consensus size: 116
48222059 AGCTTCTACT
* * *
48222069 ATCGAATACGAAAAGGGATAGCTTCTGCTATCGAATGTGAAAAGTGATAACTTCAGCTATCAATT
1 ATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATGTGAAAAGGGATAACTTCAGCTATCAATT
* * * * *
48222134 ATGAGAAGGGATGGTGACGACCATCAATTATGAAAAGGGATGGTGATGACC
66 ATGAAAAGGCATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACC
* *
48222185 ATCGAATATGAAAAGGGATAGCTTCGGCTATCGAATGTGAAAAGGGATAACTTC-GACTATCGAT
1 ATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATGTGAAAAGGGATAACTTCAG-CTATCAAT
* *
48222249 TATGAAAAGGCATGGTGATAACCATCAGCTATGAAAAGGGATGGTGACGACC
65 TATGAAAAGGCATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACC
* * * * * *
48222301 ATCGATTAATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGG
1 ATCGAAT-ATGAAAAGGGATAGCTTCAGCTATCGAATGTGAAAAGGG
48222348 GCGGTTACAA
Statistics
Matches: 143, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
115 1 0.01
116 109 0.76
117 33 0.23
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (116 bp):
ATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATGTGAAAAGGGATAACTTCAGCTATCAATT
ATGAAAAGGCATGGTGACAACCATCAACTATGAAAAGGGATGGTGACGACC
Found at i:48222301 original size:29 final size:29
Alignment explanation
Indices: 48222131--48222347 Score: 179
Period size: 29 Copynumber: 7.4 Consensus size: 29
48222121 TCAGCTATCA
* *
48222131 ATTATGAGAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCG
*
48222160 ATTATGAAAAGGGATGGTGATGACCATCG
1 ATTATGAAAAGGGATGGTGACGACCATCG
* * * * *
48222189 AATATGAAAAGGGATAGCT-TCGGCTATCG
1 ATTATGAAAAGGGAT-GGTGACGACCATCG
* * ** * *
48222218 AATGTGAAAAGGGATAACT-TCGACTATCG
1 ATTATGAAAAGGGAT-GGTGACGACCATCG
* **
48222247 ATTATGAAAAGGCATGGTGATAACCATC-
1 ATTATGAAAAGGGATGGTGACGACCATCG
*
48222275 AGCTATGAAAAGGGATGGTGACGACCATCG
1 A-TTATGAAAAGGGATGGTGACGACCATCG
** *
48222305 ATTAATGAAAAGGGATGGTTTCAACCATCG
1 ATT-ATGAAAAGGGATGGTGACGACCATCG
*
48222335 AATATGAAAAGGG
1 ATTATGAAAAGGG
48222348 GCGGTTACAA
Statistics
Matches: 153, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.01
29 123 0.80
30 28 0.18
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.23
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCG
Found at i:48222305 original size:87 final size:88
Alignment explanation
Indices: 48222151--48222346 Score: 202
Period size: 87 Copynumber: 2.2 Consensus size: 88
48222141 GGGATGGTGA
* * * * *
48222151 CGACCATCAATTATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGGGATAGCTTCGGCTAT
1 CGACCATCAATTATGAAAAGGCATGGTGATAACCATCGAATATGAAAAGGGATAGCTACGACCAT
*
48222216 CGAAT-GTGAAAAGGGATAACTT
66 CGAATAATGAAAAGGGATAACTT
* * * *
48222238 CGACTATCGATTATGAAAAGGCATGGTGATAACCATC-AGCTATGAAAAGGGAT-GGTGACGACC
1 CGACCATCAATTATGAAAAGGCATGGTGATAACCATCGA-ATATGAAAAGGGATAGCT-ACGACC
* ***
48222301 ATCGATTAATGAAAAGGGATGGTTT
64 ATCGAATAATGAAAAGGGATAACTT
*
48222326 CAACCATCGAA-TATGAAAAGG
1 CGACCATC-AATTATGAAAAGG
48222347 GGCGGTTACA
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
86 3 0.03
87 55 0.62
88 29 0.33
89 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.22
Consensus pattern (88 bp):
CGACCATCAATTATGAAAAGGCATGGTGATAACCATCGAATATGAAAAGGGATAGCTACGACCAT
CGAATAATGAAAAGGGATAACTT
Found at i:48222353 original size:29 final size:30
Alignment explanation
Indices: 48222279--48222363 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 30
48222269 ACCATCAGCT
* * * *
48222279 ATGAAAAGGGATGGTGACGACCATCGATTA
1 ATGAAAAGGGACGGTTACAACCATCGAATA
* *
48222309 ATGAAAAGGGATGGTTTCAACCATCGAAT-
1 ATGAAAAGGGACGGTTACAACCATCGAATA
*
48222338 ATGAAAAGGGGCGGTTACAACCATCG
1 ATGAAAAGGGACGGTTACAACCATCG
48222364 TTTAGCACAC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 23 0.48
30 25 0.52
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.20
Consensus pattern (30 bp):
ATGAAAAGGGACGGTTACAACCATCGAATA
Found at i:48222361 original size:59 final size:58
Alignment explanation
Indices: 48222243--48222363 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 58
48222233 AACTTCGACT
* * *
48222243 ATCGATTATGAAAAGGCATGGTGATAACCATCAGCTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGCATGGTGATAACCATCAGATATGAAAAGGGACGGTGACAACC
* * * *
48222301 ATCGATTAATGAAAAGGGATGGT-TTCAACCATC-GAATATGAAAAGGGGCGGTTACAACC
1 ATCGATT-ATGAAAAGGCATGGTGAT-AACCATCAG-ATATGAAAAGGGACGGTGACAACC
48222360 ATCG
1 ATCG
48222364 TTTAGCACAC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
58 9 0.17
59 44 0.83
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.21
Consensus pattern (58 bp):
ATCGATTATGAAAAGGCATGGTGATAACCATCAGATATGAAAAGGGACGGTGACAACC
Found at i:48230804 original size:16 final size:16
Alignment explanation
Indices: 48230785--48230819 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
48230775 ATGATGAGAC
*
48230785 TGTTAAATTTGTTTTT
1 TGTTAAATTTGTTGTT
48230801 TGTTAAATTTGTTGTT
1 TGTTAAATTTGTTGTT
48230817 TGT
1 TGT
48230820 GCATACTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (16 bp):
TGTTAAATTTGTTGTT
Found at i:48232810 original size:18 final size:19
Alignment explanation
Indices: 48232784--48232825 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
48232774 AAAAATGTAA
*
48232784 AAGAGATAT-ATATATAAT
1 AAGACATATAATATATAAT
48232802 AAGACATATAGATATATAAT
1 AAGACATATA-ATATATAAT
48232822 AAGA
1 AAGA
48232826 TAAAAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (19 bp):
AAGACATATAATATATAAT
Found at i:48232818 original size:20 final size:20
Alignment explanation
Indices: 48232793--48232839 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
48232783 AAAGAGATAT
* *
48232793 ATATATAATAAGACATATAG
1 ATATATAATAAGACAAAAAG
*
48232813 ATATATAATAAGATAAAAAG
1 ATATATAATAAGACAAAAAG
48232833 ATATATA
1 ATATATA
48232840 GATATAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
ATATATAATAAGACAAAAAG
Found at i:48233999 original size:40 final size:41
Alignment explanation
Indices: 48233949--48234025 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
48233939 AATAGAAATT
48233949 CCCCCCCCCGAATCCC-TTTTTACATTTTTCTTATTTTCCC
1 CCCCCCCCCGAATCCCTTTTTTACATTTTTCTTATTTTCCC
48233989 CCCCCCCCCGAATCCCTTTTTTACATTTTTCTTATTT
1 CCCCCCCCCGAATCCCTTTTTTACATTTTTCTTATTT
48234026 ACTCCTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
40 16 0.44
41 20 0.56
ACGTcount: A:0.13, C:0.40, G:0.03, T:0.44
Consensus pattern (41 bp):
CCCCCCCCCGAATCCCTTTTTTACATTTTTCTTATTTTCCC
Found at i:48234734 original size:44 final size:44
Alignment explanation
Indices: 48234669--48234780 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
48234659 GATCTGCTCT
* * * *
48234669 ACTGGAACCTCAGGGAAATAAGATTTGCTTCT-TCACTCTGCCCC
1 ACTGTAACTTCAGGGAGATAAGACTTG-TTCTCTCACTCTGCCCC
* * * * *
48234713 ACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCC
1 ACTGTAACTTCAGGGAGATAAGACTTGTTCTCTCACTCTGCCCC
*
48234757 GCTGTAACTTCAGGGAGATAAGAC
1 ACTGTAACTTCAGGGAGATAAGAC
48234781 CCGATGCGAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 3 0.05
44 52 0.95
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (44 bp):
ACTGTAACTTCAGGGAGATAAGACTTGTTCTCTCACTCTGCCCC
Found at i:48234859 original size:44 final size:44
Alignment explanation
Indices: 48234808--48235034 Score: 222
Period size: 44 Copynumber: 5.2 Consensus size: 44
48234798 ACTACTGCTT
48234808 AGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTC
1 AGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTC
* * * **
48234852 AGGGAGATAGGAT-TCATT-TCTTCTGTAT--GCTCCACTACTGCTT-
1 AGGGAGATAAGATAT-ATTGT-TT-T-AATCCGCTCCACTGCAACTTC
48234895 AGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTC
1 AGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTC
* * * **
48234939 AGGGAGATAGGAT-TCATT-TCTTCTGTAT--GCTCCACTACTGCTT-
1 AGGGAGATAAGATAT-ATTGT-TT-T-AATCCGCTCCACTGCAACTTC
48234982 AGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTC
1 AGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTC
48235026 AGGGAGATA
1 AGGGAGATA
48235035 GGATTCATTT
Statistics
Matches: 145, Mismatches: 20, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
41 4 0.03
42 2 0.01
43 62 0.43
44 71 0.49
45 2 0.01
46 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
AGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTC
Found at i:48234898 original size:87 final size:87
Alignment explanation
Indices: 48234792--48235080 Score: 578
Period size: 87 Copynumber: 3.3 Consensus size: 87
48234782 CGATGCGATC
48234792 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTCAGGGA
48234857 GATAGGATTCATTTCTTCTGTA
66 GATAGGATTCATTTCTTCTGTA
48234879 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTCAGGGA
48234944 GATAGGATTCATTTCTTCTGTA
66 GATAGGATTCATTTCTTCTGTA
48234966 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTCAGGGA
1 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTCAGGGA
48235031 GATAGGATTCATTTCTTCTGTA
66 GATAGGATTCATTTCTTCTGTA
48235053 TGCTCCACTACTGCTTAGGGAGATAAGA
1 TGCTCCACTACTGCTTAGGGAGATAAGA
48235081 CTTGCTTCTT
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 202 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (87 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTCATTTCTTCTGTA
Found at i:48235058 original size:44 final size:44
Alignment explanation
Indices: 48234836--48235061 Score: 220
Period size: 44 Copynumber: 5.2 Consensus size: 44
48234826 GTTTTAATCC
48234836 GCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTAT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTAT
* ** * *
48234880 GCTCCACTACTGCTT-AGGGAGATAAGATAT-ATTGT-TT-T-AAT
1 GCTCCACTGCAACTTCAGGGAGATAGGAT-TCATT-TCTTCTGTAT
48234921 CCGCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTAT
1 --GCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTAT
* ** * *
48234967 GCTCCACTACTGCTT-AGGGAGATAAGATAT-ATTGT-TT-T-AAT
1 GCTCCACTGCAACTTCAGGGAGATAGGAT-TCATT-TCTTCTGTAT
48235008 CCGCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTAT
1 --GCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTAT
48235054 GCTCCACT
1 GCTCCACT
48235062 ACTGCTTAGG
Statistics
Matches: 144, Mismatches: 20, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
41 4 0.03
42 2 0.01
43 62 0.43
44 70 0.49
45 2 0.01
46 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTAT
Found at i:48235090 original size:43 final size:41
Alignment explanation
Indices: 48234792--48235091 Score: 189
Period size: 43 Copynumber: 6.9 Consensus size: 41
48234782 CGATGCGATC
* *
48234792 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTT-T-TAA
1 TGCTCCACTACTGCTTAGGGAGATAAGAT-TCTTCTTCTGT-A
* ** *
48234833 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTA
1 T--GCTCCACTACTGCTT-AGGGAGATAAGATTC--TTCTTCTGTA
* *
48234879 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTT-T-TAA
1 TGCTCCACTACTGCTTAGGGAGATAAGAT-TCTTCTTCTGT-A
* ** *
48234920 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTA
1 T--GCTCCACTACTGCTT-AGGGAGATAAGATTC--TTCTTCTGTA
* *
48234966 TGCTCCACTACTGCTTAGGGAGATAAGATATATTGTT-T-TAA
1 TGCTCCACTACTGCTTAGGGAGATAAGAT-TCTTCTTCTGT-A
* ** *
48235007 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTCATTTCTTCTGTA
1 T--GCTCCACTACTGCTT-AGGGAGATAAGATTC--TTCTTCTGTA
48235053 TGCTCCACTACTGCTTAGGGAGATAAGACTTGCTTCTTC
1 TGCTCCACTACTGCTTAGGGAGATAAGA-TT-CTTCTTC
48235092 AGCAAGGCTT
Statistics
Matches: 198, Mismatches: 34, Indels: 52
0.70 0.12 0.18
Matches are distributed among these distances:
40 2 0.01
41 7 0.04
42 8 0.04
43 80 0.40
44 76 0.38
45 13 0.07
46 9 0.05
47 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (41 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATTCTTCTTCTGTA
Found at i:48235239 original size:87 final size:87
Alignment explanation
Indices: 48235093--48235630 Score: 988
Period size: 87 Copynumber: 6.2 Consensus size: 87
48235083 TGCTTCTTCA
48235093 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
1 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
48235158 AGCTCCACTGCAACCGATGGAG
66 AGCTCCACTGCAACCGATGGAG
48235180 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
1 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
48235245 AGCTCCACTGCAACCGATGGAG
66 AGCTCCACTGCAACCGATGGAG
48235267 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
1 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
48235332 AGCTCCACTGCAACCGATGGAG
66 AGCTCCACTGCAACCGATGGAG
48235354 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
1 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
48235419 AGCTCCACTGCAACCGATGGAG
66 AGCTCCACTGCAACCGATGGAG
48235441 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
1 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
*
48235506 AGCTCCACTGCAACCGATAGAG
66 AGCTCCACTGCAACCGATGGAG
* * * *
48235528 GCAAGGCTTTGTTTTCGGTCTGCTTCACTGTTAACGTAGGAATGG-AAGATCTTTTATCTTTAAC
1 GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAA-GGCAAGATCTGTTATCTTTAAC
*
48235592 CAGCTCCAACTGCAATCGATGGAG
65 CAGCTCC-ACTGCAACCGATGGAG
*
48235616 GTAAGGCTTTGTTTT
1 GCAAGGCTTTGTTTT
48235631 TTATCTTCAC
Statistics
Matches: 441, Mismatches: 8, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
87 411 0.93
88 30 0.07
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
GCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAAGAAGGCAAGATCTGTTATCTTTAACC
AGCTCCACTGCAACCGATGGAG
Found at i:48236448 original size:165 final size:165
Alignment explanation
Indices: 48236176--48236505 Score: 615
Period size: 165 Copynumber: 2.0 Consensus size: 165
48236166 CGAAGCAAGG
48236176 CACGACAATTAAAATCAAAGATGAATGCTTTTCTCCAAGACTTTGTTGCTACAAATTTAATTCAT
1 CACGACAATTAAAATCAAAGATGAATGCTTTTCTCCAAGACTTTGTTGCTACAAATTTAATTCAT
* *
48236241 CATGTTCGTCACGTTGACAAATACGGGAATGCAATTCACTGGACCAATCTTGGAATAGTGTAAGC
66 CATGTTCGTCACATTGACAAATACGGGAATGCAATTCACTGGACCAATCTTGGAATAGTGCAAGC
48236306 CCATAAATTGGTGGACTAATCTTTTATGTATCTTA
131 CCATAAATTGGTGGACTAATCTTTTATGTATCTTA
* *
48236341 CACGACAATTAAAATCAAAGATGAATGCTTTTGTCCAAGGCTTTGTTGCTACAAATTTAATTCAT
1 CACGACAATTAAAATCAAAGATGAATGCTTTTCTCCAAGACTTTGTTGCTACAAATTTAATTCAT
*
48236406 CATGTTCGTGACATTGACAAATACGGGAATGCAATTCACTGGACCAATCTTGGAATAGTGCAAGC
66 CATGTTCGTCACATTGACAAATACGGGAATGCAATTCACTGGACCAATCTTGGAATAGTGCAAGC
48236471 CCATAAATTGGTGGACTAATCTTTTATGTATCTTA
131 CCATAAATTGGTGGACTAATCTTTTATGTATCTTA
48236506 TTATTATTTA
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
165 160 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (165 bp):
CACGACAATTAAAATCAAAGATGAATGCTTTTCTCCAAGACTTTGTTGCTACAAATTTAATTCAT
CATGTTCGTCACATTGACAAATACGGGAATGCAATTCACTGGACCAATCTTGGAATAGTGCAAGC
CCATAAATTGGTGGACTAATCTTTTATGTATCTTA
Found at i:48236892 original size:168 final size:168
Alignment explanation
Indices: 48236614--48236949 Score: 618
Period size: 168 Copynumber: 2.0 Consensus size: 168
48236604 AATTTTAAAG
48236614 AGTTTTATTAGGGTTCAATTACTATTGTATTTTGCCTATAAATAGGCTTGCTTTCTACACATTGG
1 AGTTTTATTAGGGTTCAATTACTATTGTATTTTGCCTATAAATAGGCTTGCTTTCTACACATTGG
*
48236679 GGGGAGGTCGAATAAAAAGAGAGTAATTGTTTTCTTCCAAATTTGTGTGAGGCAAATTTTTGAGA
66 GGGGAGGTCGAATAAAAAGAGAGCAATTGTTTTCTTCCAAATTTGTGTGAGGCAAATTTTTGAGA
* *
48236744 TTAGAGTGATTCTTCTCTTGCTATTTAGTTTGGAGTTT
131 GTAGAGTGATTCTTCTCTTGCTATTCAGTTTGGAGTTT
* *
48236782 AGTTTTATTAGGGTTCAATTACTATTGTATTTTTCCTATAAATAGGTTTGCTTTCTACACATTGG
1 AGTTTTATTAGGGTTCAATTACTATTGTATTTTGCCTATAAATAGGCTTGCTTTCTACACATTGG
*
48236847 GGGGAGGTCGAATAAAAAGAGAGCATTTGTTTTCTTCCAAATTTGTGTGAGGCAAATTTTTGAGA
66 GGGGAGGTCGAATAAAAAGAGAGCAATTGTTTTCTTCCAAATTTGTGTGAGGCAAATTTTTGAGA
48236912 GTAGAGTGATTCTTCTCTTGCTATTCAGTTTGGAGTTT
131 GTAGAGTGATTCTTCTCTTGCTATTCAGTTTGGAGTTT
48236950 GTTACTTTCG
Statistics
Matches: 162, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
168 162 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (168 bp):
AGTTTTATTAGGGTTCAATTACTATTGTATTTTGCCTATAAATAGGCTTGCTTTCTACACATTGG
GGGGAGGTCGAATAAAAAGAGAGCAATTGTTTTCTTCCAAATTTGTGTGAGGCAAATTTTTGAGA
GTAGAGTGATTCTTCTCTTGCTATTCAGTTTGGAGTTT
Found at i:48238438 original size:31 final size:30
Alignment explanation
Indices: 48238379--48238437 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
48238369 TTATATTTTA
48238379 TTTTGACTTTGATTGATTTCTCTTTTTTTGC
1 TTTTGACTTTGATT-ATTTCTCTTTTTTTGC
*
48238410 TTTTGACTTTGATT-TTTCTTTTCTTTTT
1 TTTTGACTTTGATTATTTCTCTT-TTTTT
48238438 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 5 0.19
31 14 0.54
ACGTcount: A:0.08, C:0.12, G:0.10, T:0.69
Consensus pattern (30 bp):
TTTTGACTTTGATTATTTCTCTTTTTTTGC
Found at i:48238458 original size:27 final size:30
Alignment explanation
Indices: 48238391--48238467 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 30
48238381 TTGACTTTGA
48238391 TTGATTTCTCTTTTTTTGCTTTTGACTTTGATT
1 TTGATTT-TCTTTTTTTGCTTTT-A-TTTGATT
**
48238424 TTTCTTTTCTTTTTTTG-TTTT-TTT-ATT
1 TTGATTTTCTTTTTTTGCTTTTATTTGATT
*
48238451 TTGATTTTGATTTTTTT
1 TTGATTTT-CTTTTTTT
48238468 TGAATCTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 9 0.24
28 10 0.26
31 4 0.11
32 10 0.26
33 5 0.13
ACGTcount: A:0.08, C:0.08, G:0.09, T:0.75
Consensus pattern (30 bp):
TTGATTTTCTTTTTTTGCTTTTATTTGATT
Found at i:48243023 original size:20 final size:20
Alignment explanation
Indices: 48242998--48243044 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
48242988 TAAAAGATAT
* *
48242998 ATATATAATAAGACATATAG
1 ATATATAATAAGACAAAAAG
*
48243018 ATATATAATAAGATAAAAAG
1 ATATATAATAAGACAAAAAG
48243038 ATATATA
1 ATATATA
48243045 GATATAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
ATATATAATAAGACAAAAAG
Found at i:48244003 original size:20 final size:21
Alignment explanation
Indices: 48243978--48244016 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48243968 CAAAAGGAAG
*
48243978 AAAAAAAT-GAAGGGAAAAAT
1 AAAAAAATAAAAGGGAAAAAT
48243998 AAAAAAATAAAAGGGAAAA
1 AAAAAAATAAAAGGGAAAA
48244017 TAGAGTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (21 bp):
AAAAAAATAAAAGGGAAAAAT
Found at i:48244537 original size:16 final size:15
Alignment explanation
Indices: 48244518--48244559 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
48244508 ATTTTTATTA
48244518 AATTATATTTAATAAT
1 AATTATATTTAA-AAT
48244534 AATTATA-TTAAAAT
1 AATTATATTTAAAAT
48244548 ATGATTATATTT
1 A--ATTATATTT
48244560 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 13 0.57
17 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTATATTTAAAAT
Found at i:48244573 original size:5 final size:6
Alignment explanation
Indices: 48244558--48244583 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48244548 ATGATTATAT
48244558 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
48244584 AAATTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:48244583 original size:67 final size:66
Alignment explanation
Indices: 48244432--48244617 Score: 227
Period size: 65 Copynumber: 2.8 Consensus size: 66
48244422 TTTCTAACAT
* *
48244432 TATA-TATTTTTATTTTTATTAATTTATATTTTAATAATAATTATATTTAAA-ATGTTATTAAGT
1 TATATTATTTTTATTTTTATTAAATTATA-TTTAATAATAATTATATTAAAATATGTTATTAAGT
48244495 TA
65 TA
**
48244497 TATATT-TTTTTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTA-TATTT
1 TATATTATTTTTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATG-TTATTAAGT
*
48244560 TT
65 TA
* *
48244562 TATTTTTATTTTTATTTTTATTAAATTATATATAATAATAATAATTTTATTAAAAT
1 TA-TATTATTTTTATTTTTATTAAATTATAT-T--TAATAATAATTATATTAAAAT
48244618 TTAATAACAA
Statistics
Matches: 106, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
64 21 0.20
65 34 0.32
66 7 0.07
67 23 0.22
68 1 0.01
70 20 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (66 bp):
TATATTATTTTTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGTTATTAAGTT
A
Found at i:48244633 original size:28 final size:29
Alignment explanation
Indices: 48244577--48244634 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
48244567 TTATTTTTAT
*
48244577 TTTTATTAAATTATATATAATAATAATAA
1 TTTTATTAAATTATATATAACAATAATAA
48244606 TTTTATTAAAATT-TA-ATAACAATAATAA
1 TTTTATT-AAATTATATATAACAATAATAA
48244634 T
1 T
48244635 AATCATCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 13 0.48
29 9 0.33
30 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTTATTAAATTATATATAACAATAATAA
Found at i:48247798 original size:19 final size:19
Alignment explanation
Indices: 48247776--48247835 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
48247766 CTTCAAAAAG
*
48247776 AATTTTAAAAAAATATTAA
1 AATTTTAAAAAAATATAAA
*
48247795 AATTTTAAAAAGATATAAA
1 AATTTTAAAAAAATATAAA
*
48247814 AAATTTAAAAAAATA-AAA
1 AATTTTAAAAAAATATAAA
48247832 AATT
1 AATT
48247836 AATTGTTGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
18 6 0.17
19 30 0.83
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AATTTTAAAAAAATATAAA
Found at i:48247813 original size:10 final size:9
Alignment explanation
Indices: 48247783--48247834 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
48247773 AAGAATTTTA
48247783 AAAAAATAT
1 AAAAAATAT
* * *
48247792 TAAAATTTT
1 AAAAAATAT
48247801 AAAAAGATAT
1 AAAAA-ATAT
*
48247811 AAAAAATTT
1 AAAAAATAT
48247820 AAAAAA-AT
1 AAAAAATAT
48247828 AAAAAAT
1 AAAAAAT
48247835 TAATTGTTGA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
8 7 0.21
9 19 0.58
10 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:48248175 original size:30 final size:30
Alignment explanation
Indices: 48248141--48248201 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
48248131 ATACTTAAAA
* *
48248141 ATATTCAAATAAACTCTTAAATTTTAATTG
1 ATATTCAAATAAACCCTTAAAATTTAATTG
* *
48248171 ATATTCAAGTGAACCCTTAAAATTTAATTG
1 ATATTCAAATAAACCCTTAAAATTTAATTG
48248201 A
1 A
48248202 CGCTCAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (30 bp):
ATATTCAAATAAACCCTTAAAATTTAATTG
Found at i:48249926 original size:77 final size:77
Alignment explanation
Indices: 48249745--48249960 Score: 310
Period size: 77 Copynumber: 2.8 Consensus size: 77
48249735 AGTGTTAGTG
** * *
48249745 CAAATGTACTAAATTACACGTGACAAAATATAAGTTCAAATGATATCAACTAAAT-AAAAAATAA
1 CAAATGTACTAAATTGTA--TGACAGAATATAAGTTCAGATGATATCAACTAAATAAAAAAATAA
48249809 AAATCAAACAAATA
64 AAATCAAACAAATA
* * *
48249823 CGAATGTACTAAATTGTGTGACAGAATATAAGTTCAGATGATATCAACTAATTAAAAAAATAAAA
1 CAAATGTACTAAATTGTATGACAGAATATAAGTTCAGATGATATCAACTAAATAAAAAAATAAAA
*
48249888 ATCAAATAAATA
66 ATCAAACAAATA
*
48249900 CAAATGTACTAAATTGTATGATAGAATATAAGTTCATG-TGATATCAACTAAATAAAAAAAT
1 CAAATGTACTAAATTGTATGACAGAATATAAGTTCA-GATGATATCAACTAAATAAAAAAAT
48249961 GAAATAAATA
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
76 32 0.26
77 77 0.62
78 15 0.12
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (77 bp):
CAAATGTACTAAATTGTATGACAGAATATAAGTTCAGATGATATCAACTAAATAAAAAAATAAAA
ATCAAACAAATA
Found at i:48250748 original size:24 final size:24
Alignment explanation
Indices: 48250721--48250767 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48250711 CTAAATCGGG
* *
48250721 TATCTTTTTCTAGTTAAACTCTAT
1 TATCTTTTCCCAGTTAAACTCTAT
*
48250745 TATCTTTTCCCAGTTGAACTCTA
1 TATCTTTTCCCAGTTAAACTCTA
48250768 ATAACTCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.49
Consensus pattern (24 bp):
TATCTTTTCCCAGTTAAACTCTAT
Found at i:48252553 original size:16 final size:16
Alignment explanation
Indices: 48252532--48252565 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48252522 TAGGATTGAT
48252532 TTTTAAAATTTCAAAG
1 TTTTAAAATTTCAAAG
*
48252548 TTTTAAAATTTTAAAG
1 TTTTAAAATTTCAAAG
48252564 TT
1 TT
48252566 GGCATCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTTTAAAATTTCAAAG
Found at i:48253699 original size:12 final size:11
Alignment explanation
Indices: 48253667--48253709 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
48253657 ACAAGAAAAT
* *
48253667 AAACTATTTTA
1 AAACTAATTAA
48253678 AAACTGAATTAA
1 AAACT-AATTAA
48253690 AAACCTAATTAA
1 AAA-CTAATTAA
48253702 AAACTAAT
1 AAACTAAT
48253710 GGCCTTCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.36
12 16 0.57
13 2 0.07
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (11 bp):
AAACTAATTAA
Found at i:48254419 original size:35 final size:35
Alignment explanation
Indices: 48254377--48254452 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
48254367 ATGACTTGAG
* *
48254377 AATTAATTTATAATTTTTTAAATTATTAGTTAATT
1 AATTAATTTATAATTCTTTAAATTATTAATTAATT
*
48254412 AATTAATTTATAATTCTTTGAATTATTAATTAATT
1 AATTAATTTATAATTCTTTAAATTATTAATTAATT
48254447 AATTAA
1 AATTAA
48254453 ATTTCAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (35 bp):
AATTAATTTATAATTCTTTAAATTATTAATTAATT
Found at i:48254451 original size:15 final size:15
Alignment explanation
Indices: 48254397--48254451 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
48254387 TAATTTTTTA
48254397 AATT-ATTAGTTAATT
1 AATTAATTA-TTAATT
48254412 AATTAATT-TATAATT
1 AATTAATTAT-TAATT
**
48254427 CTTTGAATTATTAATT
1 AATT-AATTATTAATT
48254443 AATTAATTA
1 AATTAATTA
48254452 AATTTCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 16 0.50
16 14 0.44
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (15 bp):
AATTAATTATTAATT
Found at i:48255999 original size:17 final size:17
Alignment explanation
Indices: 48255969--48256027 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
48255959 ACATTAAATT
48255969 TAATAATTTTATTAAAA
1 TAATAATTTTATTAAAA
*
48255986 TAAT-ATTTTAATTAAGA
1 TAATAATTTT-ATTAAAA
*
48256003 TAAT--TTTCATTAATAA
1 TAATAATTTTATTAA-AA
48256019 TTAATAATT
1 -TAATAATT
48256028 AATAGGTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 5 0.15
16 9 0.26
17 18 0.53
19 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TAATAATTTTATTAAAA
Found at i:48259083 original size:18 final size:18
Alignment explanation
Indices: 48259060--48259096 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
48259050 CTGAAGTGTA
48259060 TATTAATACTATATTATT
1 TATTAATACTATATTATT
48259078 TATTAATACTATATTATT
1 TATTAATACTATATTATT
48259096 T
1 T
48259097 GTAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTAATACTATATTATT
Found at i:48267439 original size:15 final size:15
Alignment explanation
Indices: 48267419--48267451 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
48267409 ACTGTTATAC
48267419 TAATAAATTAAAATT
1 TAATAAATTAAAATT
48267434 TAATAAATTAAAATT
1 TAATAAATTAAAATT
48267449 TAA
1 TAA
48267452 ATAGTTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAAATTAAAATT
Found at i:48274553 original size:36 final size:35
Alignment explanation
Indices: 48274513--48274839 Score: 119
Period size: 37 Copynumber: 9.2 Consensus size: 35
48274503 GGATAAATTT
48274513 ATTTAAAGGAATAAATTTAAATTTTAAAACAATTGA
1 ATTTAAAGGAATAAATTTAAATTTTAAAA-AATTGA
** * *
48274549 ATTTAATTAAAAAATAAATAATTAAA---TGATAAATT-A
1 ATTT-A--AAGGAATAAAT--TTAAATTTTAAAAAATTGA
48274585 ATTTAAAGGAATAAATTTAAATTTTTAAAAAATTGA
1 ATTTAAAGGAATAAATTTAAA-TTTTAAAAAATTGA
** * ** *
48274621 ATTT-AATTAAAAAATAAAAAAATTTAAGGATAAATT-A
1 ATTTAAAGGAATAAAT-TTAAATTTTAA--A-AAATTGA
*
48274658 ATTTAAAGGATTAAATTTAAA-TTTAAAAAATAT-A
1 ATTTAAAGGAATAAATTTAAATTTTAAAAAAT-TGA
** *** *
48274692 ATTT-AATTAA-AAAAAGAAATAATTAAAGGATAAATT-A
1 ATTTAAAGGAATAAATTTAAAT--TTTAA--A-AAATTGA
* *
48274729 ATTTTAAGGAAAAAATTTAAATTTT-AAAAATTGA
1 ATTTAAAGGAATAAATTTAAATTTTAAAAAATTGA
** *
48274763 ATTT-AATTAA-AAA-ATAAATAATTTAAGGATAAATT-A
1 ATTTAAAGGAATAAATTTAAAT--TTTAA--A-AAATTGA
* * *
48274799 ATTTAGAGGAATAAATTTAAATTTAAAAAAATAGA
1 ATTTAAAGGAATAAATTTAAATTTTAAAAAATTGA
48274834 ATTTAA
1 ATTTAA
48274840 TTAAAAAAGA
Statistics
Matches: 213, Mismatches: 43, Indels: 71
0.65 0.13 0.22
Matches are distributed among these distances:
31 10 0.05
32 9 0.04
33 28 0.13
34 18 0.08
35 32 0.15
36 29 0.14
37 35 0.16
38 26 0.12
39 21 0.10
41 5 0.02
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (35 bp):
ATTTAAAGGAATAAATTTAAATTTTAAAAAATTGA
Found at i:48274573 original size:72 final size:71
Alignment explanation
Indices: 48274429--48274856 Score: 601
Period size: 71 Copynumber: 6.0 Consensus size: 71
48274419 GTTAATGTGC
* **
48274429 GGATAAATCAATTTAAAGGAATAAATTTAAATTTTTTAAAAAAATAAAATTTAATTAAAAAAGAA
1 GGATAAATTAATTTAAAGGAATAAATTTAAA--TTTT-AAAAAATTGAATTTAATTAAAAAAGAA
48274494 ATAATTAAA
63 ATAATTAAA
* *
48274503 GGATAAATTTATTTAAAGGAATAAATTTAAATTTTAAAACAATTGAATTTAATTAAAAAATAAAT
1 GGATAAATTAATTTAAAGGAATAAATTTAAATTTTAAAA-AATTGAATTTAATTAAAAAAGAAAT
48274568 AATTAAA
65 AATTAAA
* *
48274575 TGATAAATTAATTTAAAGGAATAAATTTAAATTTTTAAAAAATTGAATTTAATTAAAAAATAAAA
1 GGATAAATTAATTTAAAGGAATAAATTTAAA-TTTTAAAAAATTGAATTTAATTAAAAAA-GAAA
* *
48274640 AAATTTAA
64 TAATTAAA
*
48274648 GGATAAATTAATTTAAAGGATTAAATTTAAA-TTTAAAAAATAT-AATTTAATTAAAAAAAGAAA
1 GGATAAATTAATTTAAAGGAATAAATTTAAATTTTAAAAAAT-TGAATTTAATT-AAAAAAGAAA
48274711 TAATTAAA
64 TAATTAAA
* * *
48274719 GGATAAATTAATTTTAAGGAAAAAATTTAAATTTT-AAAAATTGAATTTAATTAAAAAATAAATA
1 GGATAAATTAATTTAAAGGAATAAATTTAAATTTTAAAAAATTGAATTTAATTAAAAAAGAAATA
*
48274783 ATTTAA
66 ATTAAA
* * * *
48274789 GGATAAATTAATTTAGAGGAATAAATTTAAATTTAAAAAAATAGAATTTAATTAAAAAAGAAAAA
1 GGATAAATTAATTTAAAGGAATAAATTTAAATTTTAAAAAATTGAATTTAATTAAAAAAGAAATA
48274854 ATT
66 ATT
48274857 TAAGAAAAGA
Statistics
Matches: 319, Mismatches: 27, Indels: 19
0.87 0.07 0.05
Matches are distributed among these distances:
70 48 0.15
71 104 0.33
72 92 0.29
73 46 0.14
74 29 0.09
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (71 bp):
GGATAAATTAATTTAAAGGAATAAATTTAAATTTTAAAAAATTGAATTTAATTAAAAAAGAAATA
ATTAAA
Found at i:48274580 original size:15 final size:16
Alignment explanation
Indices: 48274467--48274847 Score: 79
Period size: 18 Copynumber: 21.4 Consensus size: 16
48274457 AAATTTTTTA
48274467 AAAAAATAAAATTTAATT
1 AAAAAAT-AAA-TTAATT
*
48274485 AAAAAAGAAA-TAATT
1 AAAAAATAAATTAATT
** *
48274500 AAAGGATAAATTTATTT
1 AAAAAATAAA-TTAATT
*
48274517 AAAGGAATAAATTTAAATTTT
1 AAA-AAATAAA-TT-AA--TT
*
48274538 AAAACAATTGAATTTAATT
1 AAAA-AA-T-AAATTAATT
48274557 AAAAAATAAA-TAATT
1 AAAAAATAAATTAATT
**
48274572 AAATGATAAATTAATTT
1 AAAAAATAAATTAA-TT
*
48274589 AAAGGAATAAATTTAAATTTTT
1 AAA-AAATAAA-TT-AA---TT
*
48274611 AAAAAATTGAATTTAATT
1 AAAAAA-T-AAATTAATT
**
48274629 AAAAAATAAAAAAATT
1 AAAAAATAAATTAATT
* **
48274645 TAAGGATAAATTAATTT
1 AAAAAATAAATTAA-TT
* *
48274662 AAAGGATTAAATTTAAATTT
1 AAA-AAATAAA-TT-AA-TT
48274682 AAAAAATATAATTTAATT
1 AAAAAATA-AA-TTAATT
*
48274700 AAAAAA-AGAAATAATT
1 AAAAAATA-AATTAATT
**
48274716 AAAGGATAAATTAATTTT
1 AAAAAATAAATTAA--TT
*
48274734 AAGGAAAA-AATTTAAATTTT
1 AA--AAAATAAATT-AA--TT
* *
48274754 AAAAATTGAATTTAATT
1 AAAAAAT-AAATTAATT
48274771 AAAAAATAAA-TAATT
1 AAAAAATAAATTAATT
* **
48274786 TAAGGATAAATTAATTT
1 AAAAAATAAATTAA-TT
**
48274803 AGAGGAATAAATTTAAATTT
1 A-AAAAATAAA-TT-AA-TT
48274823 AAAAAAATAGAATTTAATT
1 -AAAAAATA-AA-TTAATT
48274842 AAAAAA
1 AAAAAA
48274848 GAAAAAATTT
Statistics
Matches: 277, Mismatches: 48, Indels: 76
0.69 0.12 0.19
Matches are distributed among these distances:
15 37 0.13
16 39 0.14
17 35 0.13
18 63 0.23
19 26 0.09
20 42 0.15
21 19 0.07
22 12 0.04
23 4 0.01
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (16 bp):
AAAAAATAAATTAATT
Found at i:48274800 original size:16 final size:18
Alignment explanation
Indices: 48274775--48274815 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
48274765 TTAATTAAAA
48274775 AATAAA-TAATTTA-AGG
1 AATAAATTAATTTAGAGG
48274791 -ATAAATTAATTTAGAGG
1 AATAAATTAATTTAGAGG
48274808 AATAAATT
1 AATAAATT
48274816 TAAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.23
16 7 0.32
17 3 0.14
18 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (18 bp):
AATAAATTAATTTAGAGG
Found at i:48274814 original size:214 final size:215
Alignment explanation
Indices: 48274429--48274860 Score: 683
Period size: 214 Copynumber: 2.0 Consensus size: 215
48274419 GTTAATGTGC
48274429 GGATAAATCAATTTAAAGGAATAAATTTAAATTTTTTAAAAAAATAAAATTTAATTAAAAAAGAA
1 GGATAAATCAATTTAAAGGAATAAATTTAAA--TTTTAAAAAAATAAAATTTAATTAAAAAAGAA
* *
48274494 ATAATTAAAGGATAAATTTATTTAAAGGAATAAATTTAAATTTTAAAACAATTGAATTTAATTAA
64 ATAATTAAAGGATAAATTAATTTAAAGGAAAAAATTTAAATTTTAAAACAATTGAATTTAATTAA
* * *
48274559 AAAATAAATAATTAAATGATAAATTAATTTAAAGGAATAAATTTAAATTTTTAAAAAATTGAATT
129 AAAATAAATAATTAAAGGATAAATTAATTTAAAGGAATAAATTTAAA-TTTAAAAAAATAGAATT
48274624 TAATTAAAAAATAAAAAAATTTAA
193 TAATTAAAAAA-AAAAAAATTTAA
* * *
48274648 GGATAAATTAATTTAAAGGATTAAATTTAAA-TTT-AAAAAATATAATTTAATTAAAAAAAGAAA
1 GGATAAATCAATTTAAAGGAATAAATTTAAATTTTAAAAAAATAAAATTTAATT-AAAAAAGAAA
*
48274711 TAATTAAAGGATAAATTAATTTTAAGGAAAAAATTTAAATTTT-AAA-AATTGAATTTAATTAAA
65 TAATTAAAGGATAAATTAATTTAAAGGAAAAAATTTAAATTTTAAAACAATTGAATTTAATTAAA
* *
48274774 AAATAAATAATTTAAGGATAAATTAATTTAGAGGAATAAATTTAAATTTAAAAAAATAGAATTTA
130 AAATAAATAATTAAAGGATAAATTAATTTAAAGGAATAAATTTAAATTTAAAAAAATAGAATTTA
*
48274839 ATTAAAAAAGAAAAAATTTAA
195 ATTAAAAAAAAAAAAATTTAA
48274860 G
1 G
48274861 AAAAGAAAAG
Statistics
Matches: 200, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
212 12 0.06
213 26 0.13
214 60 0.30
215 20 0.10
216 53 0.26
219 29 0.14
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (215 bp):
GGATAAATCAATTTAAAGGAATAAATTTAAATTTTAAAAAAATAAAATTTAATTAAAAAAGAAAT
AATTAAAGGATAAATTAATTTAAAGGAAAAAATTTAAATTTTAAAACAATTGAATTTAATTAAAA
AATAAATAATTAAAGGATAAATTAATTTAAAGGAATAAATTTAAATTTAAAAAAATAGAATTTAA
TTAAAAAAAAAAAAATTTAA
Found at i:48274866 original size:5 final size:5
Alignment explanation
Indices: 48274858--48274902 Score: 65
Period size: 5 Copynumber: 8.8 Consensus size: 5
48274848 GAAAAAATTT
48274858 AAGAA AAGAA AAGAA AAGAA AAGAA GAA-AA GAAGAA AAGAA AAGA
1 AAGAA AAGAA AAGAA AAGAA AAGAA -AAGAA -AAGAA AAGAA AAGA
48274903 GGATCGAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 34 0.89
6 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:48274886 original size:8 final size:8
Alignment explanation
Indices: 48274858--48274898 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
48274848 GAAAAAATTT
48274858 AAGAAAAG
1 AAGAAAAG
48274866 AA-AAGAA-
1 AAGAA-AAG
48274873 AAGAAAAG
1 AAGAAAAG
48274881 AAGAAAAG
1 AAGAAAAG
48274889 AAGAAAAG
1 AAGAAAAG
48274897 AA
1 AA
48274899 AAGAGGATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AAGAAAAG
Found at i:48274886 original size:13 final size:13
Alignment explanation
Indices: 48274863--48274902 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
48274853 AATTTAAGAA
48274863 AAGAAAAGAAAAG
1 AAGAAAAGAAAAG
48274876 AA-AAGAAGAAAAG
1 AAGAA-AAGAAAAG
48274889 AAGAAAAGAAAAG
1 AAGAAAAGAAAAG
48274902 A
1 A
48274903 GGATCGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 21 0.84
14 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAAAAG
Found at i:48293490 original size:98 final size:98
Alignment explanation
Indices: 48293311--48293507 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
48293301 TTACAATAAA
* * *
48293311 ACTTTAAAAGAACATCCACTCATTCAATATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
48293376 CCTCTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
48293409 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
48293474 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
48293507 A
1 A
48293508 TTATTTTAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:48294842 original size:19 final size:19
Alignment explanation
Indices: 48294818--48294890 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
48294808 AATCATATAT
48294818 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
48294837 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
48294856 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
48294875 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
48294891 CTCAAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:48295206 original size:44 final size:45
Alignment explanation
Indices: 48295094--48295438 Score: 183
Period size: 44 Copynumber: 7.9 Consensus size: 45
48295084 GGAATTAGTG
* *
48295094 CTTCAATCTACTCCACTGA-AACTTCAGGGAGATAAGACTTGCCAT
1 CTTCAGTCTGCTCCACT-ACAACTTCAGGGAGATAAGACTTGCCAT
* *
48295139 CTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTT
1 CTTCAGTCTGCTC-CACTACAACTTCAGGGA-GATAAGACTTGCCAT
*
48295183 CCTT-AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAG--A-
1 -CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAT
* * * *
48295225 -TGC-GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTG--AT
1 CTTCAG-TCTGCTCCACTACAACTTCAGGGAGATAAGA-CT-TGCCAT
* * * * * * **
48295268 -TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGA-TT-CTCGG
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGC-CAT
* * ** * *
48295311 CTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTTCCAT
1 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAT
** *
48295356 CTTCAGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTG-CTT
1 CTTCAGTCTGCTC-CACTACAACTTCAGGGA-GATAAGACTTGCCAT
**
48295400 ACTT-AGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACT
1 -CTTCAGTC-TGCTCCACTACAACTTCAGGGAGATAAGACT
48295439 AGATGCGATT
Statistics
Matches: 240, Mismatches: 35, Indels: 51
0.74 0.11 0.16
Matches are distributed among these distances:
40 23 0.10
41 9 0.04
42 3 0.01
43 6 0.03
44 117 0.49
45 81 0.34
46 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCAT
Found at i:48295289 original size:84 final size:84
Alignment explanation
Indices: 48295145--48295300 Score: 201
Period size: 84 Copynumber: 1.8 Consensus size: 84
48295135 CCATCTTCAG
* * *
48295145 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCACTACAACTTCAG
1 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATT-CTTAATCCGCTCCACTACAACTTCAG
48295210 GGAGATAAGACTAGATGCGA
65 GGAGATAAGACTAGATGCGA
* * *
48295230 TCTG-CTCTCTGCAACTTCA-GAGAGATAAGATCTGTGATT-TTAATCCGCTCTACTGCAACTTC
1 TCTGCCTCACTGCAACTTCAGGAG-GATAAGA-CT-TGATTCTTAATCCGCTCCACTACAACTTC
48295292 AGGGAGATA
63 AGGGAGATA
48295301 GGATTCTCGG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
83 3 0.05
84 49 0.79
85 6 0.10
86 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (84 bp):
TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTCTTAATCCGCTCCACTACAACTTCAGG
GAGATAAGACTAGATGCGA
Found at i:48295479 original size:217 final size:217
Alignment explanation
Indices: 48295093--48295576 Score: 781
Period size: 217 Copynumber: 2.2 Consensus size: 217
48295083 AGGAATTAGT
* * *
48295093 GCTTCAATCTACTCCACTGAAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
* *
48295158 AACTTCAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCACAACTTCAGGGAGATAAGACTA
* * *
48295223 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAA
131 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
48295288 CTTCAGGGAGATAGGATTCTCG
196 CTTCAGGGAGATAGGATTCTCG
* * *
48295310 GCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
*
48295375 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTC-TGCTCCACCACAACTTCAGGGAGATAAGACT
* * *
48295439 AGATGCGATTTGCTCTCTGTAACTTTAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCA
130 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCA
* *
48295504 ACTTCAGGGAGATAGGATTGTTG
195 ACTTCAGGGAGATAGGATTCTCG
* *
48295527 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTC
1 GCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGCCATCTTC
48295577 GATCTGCTCC
Statistics
Matches: 246, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 244 0.99
218 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCACAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCACTCCACTGCAA
CTTCAGGGAGATAGGATTCTCG
Found at i:48295619 original size:44 final size:45
Alignment explanation
Indices: 48295533--48295620 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 45
48295523 GTTGGCTTTA
* * * *
48295533 ATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCG
1 ATCTGCTCCACTACAACTTCAGGAAGATAAGATCTACAATCTTCG
** *
48295578 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTC
1 ATCTGCTCCACTACAACTTCAGGAAGATAAGATCTACAATCTTC
48295621 AACATACTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 20 0.56
45 16 0.44
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCACTACAACTTCAGGAAGATAAGATCTACAATCTTCG
Found at i:48295708 original size:132 final size:132
Alignment explanation
Indices: 48295556--48296149 Score: 929
Period size: 132 Copynumber: 4.5 Consensus size: 132
48295546 CAACTTCAGG
* *
48295556 AAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * * *
48295621 AACATACTCCGCTGCTGCTCAAGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
48295686 GA
131 GA
* * *
48295688 AATATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAAT-TT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC-AATCTT
* * *
48295752 CAACCTTCTCCGCTGTTGCTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCGACTATCTT
65 CAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTT
48295817 GGA
130 GGA
* *
48295820 AAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* *
48295885 AACCTTCTCCGCTGCTACTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
48295950 GA
131 GA
* * * **
48295952 AAGATAAGATTCGCCATATTCGATCTGTTCCACTACTATTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * *
48296017 AACCTTCTCCGCTGCTGCTCAGGGAGACGATGCTTGGTGGCTTAAATTTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
48296082 GA
131 GA
* * *
48296084 AAGATAAGATTCGCCGTCTTCGATCTGCTTCACTACTGTTTAGGGAGATAAGATCTACAATTTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
48296149 A
66 A
48296150 CTGATCTGTT
Statistics
Matches: 423, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 3 0.01
132 417 0.99
133 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
GA
Found at i:48301656 original size:98 final size:98
Alignment explanation
Indices: 48301482--48301678 Score: 342
Period size: 98 Copynumber: 2.0 Consensus size: 98
48301472 GTACAATAAA
*
48301482 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
48301547 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
48301580 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCA-ACCCCAATACGTTAGGGCACAAT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACA-CCCAATACGTTAGGGCACAAT
*
48301644 TCCTTTAAAATCCCAAACTCGGAATATTTCCTTT
65 TCCTCTAAAATCCCAAACTCGGAATATTTCCTTT
48301678 A
1 A
48301679 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
97 1 0.01
98 93 0.99
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Done.