Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 153 of 313
Found at i:48517696 original size:83 final size:83
Alignment explanation
Indices: 48517588--48517741 Score: 272
Period size: 83 Copynumber: 1.9 Consensus size: 83
48517578 TTATGTAAGC
* * * *
48517588 TATGTAATTTGTATTTTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTATTATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
48517653 CTATGTCATAGACTTTTT
66 CTATGTCATAGACTTTTT
48517671 TATGTAAGTTGTATTTTATGTAAGTTATTTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
1 TATGTAAGTTGTATTTTATGTAAGTTATTTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
48517736 CTATGT
66 CTATGT
48517742 AAGTTGTGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (83 bp):
TATGTAAGTTGTATTTTATGTAAGTTATTTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
CTATGTCATAGACTTTTT
Found at i:48517698 original size:9 final size:9
Alignment explanation
Indices: 48517686--48517943 Score: 123
Period size: 9 Copynumber: 30.8 Consensus size: 9
48517676 AAGTTGTATT
48517686 TTATGTAAG
1 TTATGTAAG
*
48517695 TTAT-TTA-
1 TTATGTAAG
*
48517702 CTATGTAAG
1 TTATGTAAG
* *
48517711 CTACGTAAG
1 TTATGTAAG
48517720 TTATGT-A-
1 TTATGTAAG
*
48517727 TCATGTAAG
1 TTATGTAAG
*
48517736 CTATGTAAG
1 TTATGTAAG
*
48517745 TTGTGT-A-
1 TTATGTAAG
48517752 TTATGTAAG
1 TTATGTAAG
*
48517761 CTATGT-A-
1 TTATGTAAG
*
48517768 TTATGTTAG
1 TTATGTAAG
48517777 TTATGTAAG
1 TTATGTAAG
48517786 TTATGT-A-
1 TTATGTAAG
*
48517793 TTATGTATG
1 TTATGTAAG
48517802 TTATGTAAG
1 TTATGTAAG
*
48517811 TTGTGT-AG
1 TTATGTAAG
*
48517819 -AATGTAAG
1 TTATGTAAG
*
48517827 CTATGTAAG
1 TTATGTAAG
*
48517836 TTATGTGAG
1 TTATGTAAG
48517845 TTA--T-A-
1 TTATGTAAG
48517850 -TATGTAAG
1 TTATGTAAG
48517858 TTATGTATA-
1 TTATGTA-AG
*
48517867 ATAT-TAA-
1 TTATGTAAG
*
48517874 TTAATCGGCCAAG
1 TT-AT--G-TAAG
*
48517887 TTGTG-AA-
1 TTATGTAAG
*
48517894 TAATGTAAG
1 TTATGTAAG
*
48517903 TTATGAAAG
1 TTATGTAAG
48517912 TTATGT-A-
1 TTATGTAAG
48517919 TTATGTAAG
1 TTATGTAAG
*
48517928 TTATTTAAG
1 TTATGTAAG
48517937 TTATGTA
1 TTATGTA
48517944 TTACGAAATT
Statistics
Matches: 187, Mismatches: 34, Indels: 56
0.68 0.12 0.20
Matches are distributed among these distances:
4 2 0.01
6 2 0.01
7 40 0.21
8 25 0.13
9 111 0.59
10 2 0.01
12 3 0.02
13 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:48517758 original size:66 final size:66
Alignment explanation
Indices: 48517671--48517833 Score: 209
Period size: 66 Copynumber: 2.5 Consensus size: 66
48517661 TAGACTTTTT
* * * *
48517671 TATGTAAGTTGTATTTTATGTAAGTTATTTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
1 TATGTAAGTTGTGTATTATGTAAGCTATGTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
48517736 C
66 C
* * * * * *
48517737 TATGTAAGTTGTGTATTATGTAAGCTATGTATTATGTTAGTTATGTAAGTTATGTATTATGTATG
1 TATGTAAGTTGTGTATTATGTAAGCTATGTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
*
48517802 T
66 C
**
48517803 TATGTAAGTTGTGTAGAATGTAAGCTATGTA
1 TATGTAAGTTGTGTATTATGTAAGCTATGTA
48517834 AGTTATGTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 84 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.45
Consensus pattern (66 bp):
TATGTAAGTTGTGTATTATGTAAGCTATGTACTATGTAAGCTACGTAAGTTATGTATCATGTAAG
C
Found at i:48517793 original size:25 final size:25
Alignment explanation
Indices: 48517752--48517946 Score: 139
Period size: 25 Copynumber: 7.8 Consensus size: 25
48517742 AAGTTGTGTA
*
48517752 TTATGTAAGCTATGTATTATGTTAG
1 TTATGTAAGTTATGTATTATGTTAG
48517777 TTATGTAAGTTATGTATTATG-TATG
1 TTATGTAAGTTATGTATTATGTTA-G
* ** *
48517802 TTATGTAAGTTGTGTAGAATGTAAG
1 TTATGTAAGTTATGTATTATGTTAG
* *
48517827 CTATGTAAGTTATG--TGA-GTTA-
1 TTATGTAAGTTATGTATTATGTTAG
* * *
48517848 TATATGTAAGTTATGTATAATATTAA
1 T-TATGTAAGTTATGTATTATGTTAG
* * * * *
48517874 TTAATCGGCCAAGTTGTGAATAATGTAAG
1 TT-AT--G-TAAGTTATGTATTATGTTAG
* *
48517903 TTATGAAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTTAG
*
48517928 TTATTTAAGTTATGTATTA
1 TTATGTAAGTTATGTATTA
48517947 CGAAATTTTA
Statistics
Matches: 134, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
22 16 0.12
23 1 0.01
24 4 0.03
25 89 0.66
26 5 0.04
28 3 0.02
29 16 0.12
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTTAG
Found at i:48517824 original size:41 final size:41
Alignment explanation
Indices: 48517715--48517833 Score: 109
Period size: 41 Copynumber: 2.9 Consensus size: 41
48517705 TGTAAGCTAC
* * * *
48517715 GTAAGTTATGTATCATGTAAGCT-ATGTAAGTTGTGTATTAT
1 GTAAGCTATGTATTATGTTAG-TAATGTAAGTTATGTATTAT
*
48517756 GTAAGCTATGTATTATGTTAGTTATGTAAGTTATGTATTAT
1 GTAAGCTATGTATTATGTTAGTAATGTAAGTTATGTATTAT
* * * *
48517797 GTATGTTATGTAAGT-TGTGTAG-AATGTAAGCTATGTA
1 GTAAGCTATGT-ATTATGT-TAGTAATGTAAGTTATGTA
48517834 AGTTATGTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
40 1 0.02
41 60 0.91
42 5 0.08
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (41 bp):
GTAAGCTATGTATTATGTTAGTAATGTAAGTTATGTATTAT
Found at i:48518049 original size:30 final size:30
Alignment explanation
Indices: 48517959--48518144 Score: 162
Period size: 30 Copynumber: 6.1 Consensus size: 30
48517949 AAATTTTATC
*
48517959 TTAATATTATATAAGTTATGTAATGAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
*
48517989 TTAATATTATATAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
*
48518019 TTAATATTATATAAGTTATGTAATTCGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
* * * * * *
48518049 TTTTATCTTA-ATATTGCATAAGTTATATA-AAA
1 -TTAATATTATATA-AG-TTATGTAAT-TAGAAA
* * * * *
48518081 TTAGAAATTGATGTGTACTTA-GAAATTAGAAA
1 TTA-ATATT-ATAT-AAGTTATGTAATTAGAAA
48518113 TTAATATTATATAAGTTATGTAATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
48518143 TT
1 TT
48518145 TTATCTTAAT
Statistics
Matches: 120, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
29 4 0.03
30 74 0.62
31 16 0.13
32 21 0.17
33 4 0.03
34 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (30 bp):
TTAATATTATATAAGTTATGTAATTAGAAA
Found at i:48518220 original size:66 final size:66
Alignment explanation
Indices: 48518135--48518300 Score: 332
Period size: 66 Copynumber: 2.5 Consensus size: 66
48518125 AAGTTATGTA
48518135 ATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGAAATTAGAAATTGATGTGT
1 ATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGAAATTAGAAATTGATGTGT
48518200 G
66 G
48518201 ATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGAAATTAGAAATTGATGTGT
1 ATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGAAATTAGAAATTGATGTGT
48518266 G
66 G
48518267 ATTAGAAATTTTATCTTAATATTATATAAGTTAT
1 ATTAGAAATTTTATCTTAATATTATATAAGTTAT
48518301 GAAGTGTCCT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 100 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.48
Consensus pattern (66 bp):
ATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGAAATTAGAAATTGATGTGT
G
Found at i:48520798 original size:20 final size:20
Alignment explanation
Indices: 48520773--48520810 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48520763 AGTAATGCAT
*
48520773 TTTTAAAAAATAATTACACA
1 TTTTAAAAAATAAATACACA
48520793 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
48520811 TCAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACACA
Found at i:48521035 original size:15 final size:15
Alignment explanation
Indices: 48521017--48521046 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48521007 TTAAATAATA
*
48521017 ATTTATATTTATATT
1 ATTTACATTTATATT
48521032 ATTTACATTTATATT
1 ATTTACATTTATATT
48521047 CTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTACATTTATATT
Found at i:48521217 original size:22 final size:21
Alignment explanation
Indices: 48521181--48521223 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
48521171 ACCGAAAATC
*
48521181 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCACAAACA
48521202 TTAAACCCGTAAACCACAAACA
1 TTAAACCC-TAAACCACAAACA
48521224 ACAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.16
Consensus pattern (21 bp):
TTAAACCCTAAACCACAAACA
Found at i:48524303 original size:19 final size:20
Alignment explanation
Indices: 48524264--48524303 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
48524254 AAAATATAAA
48524264 TTTATAAATTTTTTGAGTTT
1 TTTATAAATTTTTTGAGTTT
48524284 TTTA-AAATTATTTTGA-TTT
1 TTTATAAATT-TTTTGAGTTT
48524303 T
1 T
48524304 CTTTTTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTATAAATTTTTTGAGTTT
Found at i:48532069 original size:39 final size:39
Alignment explanation
Indices: 48532015--48532094 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
48532005 TGAGCCCTAA
48532015 TAGGTGGCGGCCAATTGATGACAAGAATGGTGTGGACAT
1 TAGGTGGCGGCCAATTGATGACAAGAATGGTGTGGACAT
48532054 TAGGTGGCGGCCAATTGATGACAAGAATGGTGTGGACAT
1 TAGGTGGCGGCCAATTGATGACAAGAATGGTGTGGACAT
48532093 TA
1 TA
48532095 TGTTAGTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (39 bp):
TAGGTGGCGGCCAATTGATGACAAGAATGGTGTGGACAT
Found at i:48532716 original size:24 final size:24
Alignment explanation
Indices: 48532687--48532735 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
48532677 TTGAACATGG
*
48532687 TCCTATTGGGGGTTCATTGAAGTT
1 TCCTATTGAGGGTTCATTGAAGTT
48532711 TCCTATTGAGGGTTCATTGAAGTT
1 TCCTATTGAGGGTTCATTGAAGTT
48532735 T
1 T
48532736 ATGTCTACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.43
Consensus pattern (24 bp):
TCCTATTGAGGGTTCATTGAAGTT
Found at i:48533876 original size:8 final size:8
Alignment explanation
Indices: 48533863--48533888 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48533853 AGTTGTTATC
48533863 ACAAATCA
1 ACAAATCA
48533871 ACAAATCA
1 ACAAATCA
48533879 ACAAATCA
1 ACAAATCA
48533887 AC
1 AC
48533889 TAACTTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (8 bp):
ACAAATCA
Found at i:48534315 original size:129 final size:129
Alignment explanation
Indices: 48533888--48534336 Score: 586
Period size: 130 Copynumber: 3.5 Consensus size: 129
48533878 AACAAATCAA
* * * * * * *
48533888 CTAACTTAGAAGAAATTGTTCATGATCGTAAATCAATGAACTTCGACTATGATCATAAATTAACT
1 CTAACTCAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCAA-T
* * * * *
48533953 -AGCCTTAATAATATCAGTTGTGATCATAAATACACGAGTTGTTTAGAGTTGC-AGTCGTAAATT
65 GAGCCTTAATAATATCAATCGTGATCATAAAT-CAAGAGCTGTTTGGAGTTGCGA-TCGTAAATT
48534016 AG
128 AG
* * *
48534018 CTAACTAAGAAGAAATTATTCATGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCAGTG
1 CTAACTCAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCAATG
* * * *
48534083 AGCAC-TAATAATATCAA-CTGTGATCGTAAACCAACGAGCTATTTGGAGTTACGATCGT-AATT
66 AGC-CTTAATAATATCAATC-GTGATCATAAATCAA-GAGCTGTTTGGAGTTGCGATCGTAAATT
48534145 CAG
128 -AG
* *
48534148 CTAACTCAGAAGAAATGGTTCATGATCATAAATTAATGAACTTAGGCTGTGA-CTGTAAATCAAT
1 CTAACTCAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGGCTGTGATC-GTAAATCAAT
48534212 GAGCCTTAATAATATCAATCGTGATCATAAATCAAGAGCTGTTTGGAGTTGCGATCGTAAATTAG
65 GAGCCTTAATAATATCAATCGTGATCATAAATCAAGAGCTGTTTGGAGTTGCGATCGTAAATTAG
*
48534277 CTAACTCAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGGTTGTGATCGTAAAT
1 CTAACTCAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGGCTGTGATCGTAAAT
48534337 TGTAAATTTA
Statistics
Matches: 278, Mismatches: 30, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
129 87 0.31
130 188 0.68
131 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (129 bp):
CTAACTCAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGGCTGTGATCGTAAATCAATG
AGCCTTAATAATATCAATCGTGATCATAAATCAAGAGCTGTTTGGAGTTGCGATCGTAAATTAG
Found at i:48538014 original size:33 final size:31
Alignment explanation
Indices: 48537958--48538024 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
48537948 TTATTGTCAT
*
48537958 TGTAATGGGCTTAGACCACACTGATACTGATAC
1 TGTAATGGGCTAAGACCACACTGA-ACTGA-AC
*
48537991 TGTAATGGGCTAAGGCC-CAACTGAACTGAAC
1 TGTAATGGGCTAAGACCAC-ACTGAACTGAAC
48538022 TGT
1 TGT
48538025 TATTGAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.16
32 6 0.19
33 20 0.65
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (31 bp):
TGTAATGGGCTAAGACCACACTGAACTGAAC
Found at i:48553591 original size:20 final size:21
Alignment explanation
Indices: 48553568--48553607 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48553558 ATCACACGAC
*
48553568 CATGT-CCCTAGGCACACGGG
1 CATGTACCCTAGCCACACGGG
*
48553588 CATGTACCTTAGCCACACGG
1 CATGTACCCTAGCCACACGG
48553608 CTATGTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (21 bp):
CATGTACCCTAGCCACACGGG
Found at i:48558516 original size:27 final size:27
Alignment explanation
Indices: 48558472--48558526 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
48558462 TGAAAAAGAT
*
48558472 TAAATTACTTTGTCATCTTATAGTTTA
1 TAAATTACTCTGTCATCTTATAGTTTA
*
48558499 TAAATTACTCTGTTATCTTATAGTTTA
1 TAAATTACTCTGTCATCTTATAGTTTA
48558526 T
1 T
48558527 TAACACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (27 bp):
TAAATTACTCTGTCATCTTATAGTTTA
Found at i:48561673 original size:32 final size:32
Alignment explanation
Indices: 48561644--48561702 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
48561634 AATATATACT
*
48561644 TATAAAAA-AATTCAAAA-TTATAAAAATATA
1 TATAAAAACAAATCAAAATTTATAAAAATATA
*
48561674 TATAAAAACAAATCAAAATTTATTAAAAT
1 TATAAAAACAAATCAAAATTTATAAAAAT
48561703 TTCTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 8 0.32
32 9 0.36
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (32 bp):
TATAAAAACAAATCAAAATTTATAAAAATATA
Found at i:48562974 original size:21 final size:21
Alignment explanation
Indices: 48562950--48562997 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
48562940 ATTTTCTTGT
*
48562950 TGCCTCTGCTGCCCTTGCTGC
1 TGCCTCTGCTGCCCTTACTGC
* * *
48562971 TGCCTTTGTTTCCCTTACTGC
1 TGCCTCTGCTGCCCTTACTGC
48562992 TGCCTC
1 TGCCTC
48562998 CACTTTAAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.40, G:0.19, T:0.40
Consensus pattern (21 bp):
TGCCTCTGCTGCCCTTACTGC
Found at i:48565832 original size:26 final size:26
Alignment explanation
Indices: 48565675--48565828 Score: 136
Period size: 26 Copynumber: 5.8 Consensus size: 26
48565665 TATATCGGTC
* *
48565675 AATTTACCCTTCTAGGAGTATTTC-AGT
1 AATTTACCCATCGAGG-GTATTTCGA-T
*
48565702 AATTTTGCCC-TACGAGGGTATTTCGAT
1 AA-TTTACCCAT-CGAGGGTATTTCGAT
*
48565729 AATTTACCTATC-AGGGGTATTTCGAT
1 AATTTACCCATCGA-GGGTATTTCGAT
* *
48565755 AATTTACCCATCGAGGGGATTTCAAT
1 AATTTACCCATCGAGGGTATTTCGAT
* * *
48565781 AATTTATCCATCGAGGGTAGCTT-GGT
1 AATTTACCCATCGAGGGTA-TTTCGAT
*
48565807 AATTTACCCATTGAGGGTATTT
1 AATTTACCCATCGAGGGTATTT
48565829 TGGTCACCAC
Statistics
Matches: 105, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
25 3 0.03
26 74 0.70
27 17 0.16
28 11 0.10
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (26 bp):
AATTTACCCATCGAGGGTATTTCGAT
Found at i:48572757 original size:28 final size:28
Alignment explanation
Indices: 48572726--48572821 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
48572716 CCTTTTCTAG
48572726 TATCAGTGTGGGCCTTAGCCCAATACATTA
1 TATCAGTGTGGGCCTTAGCCCAATACA--A
* * **
48572756 TCAGAACAGTGCGGGCCTTAGCCCAATGTAA
1 T---ATCAGTGTGGGCCTTAGCCCAATACAA
* * *
48572787 TAACAGTGTGGGCCTAAGCCCATTACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
48572815 TATCAGT
1 TATCAGT
48572822 ATGGTGCAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
28 28 0.53
30 1 0.02
31 2 0.04
33 22 0.42
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:48573197 original size:26 final size:26
Alignment explanation
Indices: 48573148--48573284 Score: 159
Period size: 26 Copynumber: 5.2 Consensus size: 26
48573138 CATATCAATC
*
48573148 ATTTCAGTAATTTTACCC-TACGAGGGT
1 ATTTCGGTAA-TTTACCCAT-CGAGGGT
** *
48573175 ATTTCAATAATTTACCCATCGAGGAT
1 ATTTCGGTAATTTACCCATCGAGGGT
* *
48573201 ATTTTGGTAATTTACCCATCGAAGGT
1 ATTTCGGTAATTTACCCATCGAGGGT
*
48573227 ATTTTGGTAATTTACCCATCGAGGGT
1 ATTTCGGTAATTTACCCATCGAGGGT
* * *
48573253 ATTTCGATAATTTACCCATTGAGTGT
1 ATTTCGGTAATTTACCCATCGAGGGT
48573279 ATTTCG
1 ATTTCG
48573285 ATCAACACCG
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
26 87 0.90
27 10 0.10
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (26 bp):
ATTTCGGTAATTTACCCATCGAGGGT
Found at i:48574184 original size:21 final size:22
Alignment explanation
Indices: 48574133--48574184 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
48574123 TCAAAGTCGA
*
48574133 TCCAAAAGAAAAAGAAGAACAC
1 TCCAAAAGAAAAAGAAGAAAAC
48574155 T-CAAGAAGAGAAAA-AA-AAAAC
1 TCCAA-AAGA-AAAAGAAGAAAAC
48574176 TCCAAAAGA
1 TCCAAAAGA
48574185 CATAGAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 12 0.46
22 10 0.38
23 4 0.15
ACGTcount: A:0.65, C:0.15, G:0.13, T:0.06
Consensus pattern (22 bp):
TCCAAAAGAAAAAGAAGAAAAC
Found at i:48576081 original size:77 final size:77
Alignment explanation
Indices: 48575984--48576133 Score: 291
Period size: 77 Copynumber: 1.9 Consensus size: 77
48575974 CGCTACTATG
48575984 TAACGACTTATTGTGGCATTTTTCGGTTAGCGCCACTAATGGTATATATTTGTGGCATTTTTCAA
1 TAACGACTTATTGTGGCATTTTTCGGTTAGCGCCACTAATGGTATATATTTGTGGCATTTTTCAA
48576049 TACAATCATTTT
66 TACAATCATTTT
*
48576061 TAACTACTTATTGTGGCATTTTTCGGTTAGCGCCACTAATGGTATATATTTGTGGCATTTTTCAA
1 TAACGACTTATTGTGGCATTTTTCGGTTAGCGCCACTAATGGTATATATTTGTGGCATTTTTCAA
48576126 TACAATCA
66 TACAATCA
48576134 CCGTTAAAAG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (77 bp):
TAACGACTTATTGTGGCATTTTTCGGTTAGCGCCACTAATGGTATATATTTGTGGCATTTTTCAA
TACAATCATTTT
Found at i:48577113 original size:34 final size:34
Alignment explanation
Indices: 48577070--48577196 Score: 157
Period size: 34 Copynumber: 3.7 Consensus size: 34
48577060 ATGTGACATA
* * *
48577070 CTTATAACAGATCAATACAATAACATTTAATATG
1 CTTATAACAGATCAATATAGTAGCATTTAATATG
*
48577104 CTTATAACAGATCAATATGGTAGCATTTAATATG
1 CTTATAACAGATCAATATAGTAGCATTTAATATG
* * * *
48577138 CTCATAACAGATTAATATAGTAGCAATTATTATG
1 CTTATAACAGATCAATATAGTAGCATTTAATATG
*
48577172 CTTATAACA-ATTCAATTTAGTAGCA
1 CTTATAACAGA-TCAATATAGTAGCA
48577197 AAAGACATGT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
33 1 0.01
34 79 0.99
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (34 bp):
CTTATAACAGATCAATATAGTAGCATTTAATATG
Found at i:48578230 original size:16 final size:15
Alignment explanation
Indices: 48578207--48578240 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
48578197 AATATGGTGT
48578207 AAAAAAAAGAGAAATA
1 AAAAAAAAGAG-AATA
48578223 AAATAAAAAGAGAATA
1 AAA-AAAAAGAGAATA
48578239 AA
1 AA
48578241 TGGAAAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAAAAAAGAGAATA
Found at i:48580148 original size:19 final size:18
Alignment explanation
Indices: 48580116--48580173 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
48580106 TAAATATTAA
* *
48580116 TTTGAATATATTATAATTT
1 TTTGAATTTTTTAT-ATTT
*
48580135 TTTGAATTTTTTATTTTT
1 TTTGAATTTTTTATATTT
*
48580153 TTTGTAATTTTTAATATTT
1 TTTG-AATTTTTTATATTT
48580172 TT
1 TT
48580174 GGATTTTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
18 7 0.21
19 26 0.79
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTGAATTTTTTATATTT
Found at i:48580172 original size:18 final size:17
Alignment explanation
Indices: 48580129--48580181 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
48580119 GAATATATTA
48580129 TAATTTTTTGAATTTTT
1 TAATTTTTTGAATTTTT
*
48580146 TATTTTTTTTGTAA-TTTT
1 TA-ATTTTTTG-AATTTTT
*
48580164 TAATATTTTTGGATTTTT
1 TAAT-TTTTTGAATTTTT
48580182 AGAATAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 4 0.14
18 23 0.79
19 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (17 bp):
TAATTTTTTGAATTTTT
Found at i:48580982 original size:18 final size:19
Alignment explanation
Indices: 48580958--48581008 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 19
48580948 ATACACATTA
48580958 AAAATATAAAAATTCAAAT
1 AAAATATAAAAATTCAAAT
48580977 AAATATATAAAAAAATTCAAAT
1 AAA-ATAT--AAAAATTCAAAT
*
48580999 -ATATATAAAA
1 AAAATATAAAA
48581009 CCTAGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.14
19 3 0.11
20 8 0.29
21 1 0.04
22 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATATAAAAATTCAAAT
Found at i:48580984 original size:20 final size:20
Alignment explanation
Indices: 48580956--48581008 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
48580946 ATATACACAT
*
48580956 TAAAAATATAAAAATTCAAA
1 TAAATATATAAAAATTCAAA
48580976 TAAATATATAAAAAAATTCAAA
1 TAAATATAT--AAAAATTCAAA
48580998 T--ATATATAAAA
1 TAAATATATAAAA
48581009 CCTAGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.13
20 14 0.47
22 12 0.40
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAATATATAAAAATTCAAA
Found at i:48580993 original size:22 final size:20
Alignment explanation
Indices: 48580965--48581008 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 20
48580955 TTAAAAATAT
48580965 AAAAATTCAAATAAATATATAA
1 AAAAATTCAAAT--ATATATAA
48580987 AAAAATTCAAATATATATAA
1 AAAAATTCAAATATATATAA
48581007 AA
1 AA
48581009 CCTAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATTCAAATATATATAA
Found at i:48581199 original size:9 final size:9
Alignment explanation
Indices: 48581185--48581263 Score: 51
Period size: 9 Copynumber: 9.1 Consensus size: 9
48581175 TATATTTTTT
48581185 ATTTTATAA
1 ATTTTATAA
48581194 ATTTTATAA
1 ATTTTATAA
*
48581203 ATTTTTATAT
1 A-TTTTATAA
*
48581213 ATTATTTTAA
1 ATT-TTATAA
*
48581223 CTTTT-TAA
1 ATTTTATAA
*
48581231 AATTTAT-A
1 ATTTTATAA
*
48581239 A--TTATAT
1 ATTTTATAA
48581246 ATTTTA-AA
1 ATTTTATAA
*
48581254 GTTTTATAA
1 ATTTTATAA
48581263 A
1 A
48581264 AAAATATATA
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
8 14 0.26
9 20 0.38
10 14 0.26
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (9 bp):
ATTTTATAA
Found at i:48581210 original size:10 final size:10
Alignment explanation
Indices: 48581186--48581235 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 10
48581176 ATATTTTTTA
48581186 TTTTATAAA-
1 TTTTATAAAT
48581195 TTTTATAAAT
1 TTTTATAAAT
*
48581205 TTTTATATAT
1 TTTTATAAAT
*
48581215 TATTT-TAACT
1 T-TTTATAAAT
48581225 TTTTA-AAAT
1 TTTTATAAAT
48581234 TT
1 TT
48581236 ATAATTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 17 0.50
10 14 0.41
11 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:48581259 original size:30 final size:30
Alignment explanation
Indices: 48581183--48581263 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
48581173 AATATATTTT
*
48581183 TTATTTTATAAATTTTATAAATTTTTATATA
1 TTATTTTA-AAATTTTATAAATTTTAATATA
**
48581214 TTATTTTAACTTTTTA-AAATTTATAAT-TA
1 TTATTTTAAAATTTTATAAATTT-TAATATA
*
48581243 TATATTTTAAAGTTTTATAAA
1 T-TATTTTAAAATTTTATAAA
48581264 AAAATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 9 0.21
30 22 0.52
31 11 0.26
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (30 bp):
TTATTTTAAAATTTTATAAATTTTAATATA
Found at i:48592290 original size:10 final size:10
Alignment explanation
Indices: 48592277--48592305 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
48592267 ACTTTCCTCA
48592277 TTTTTCCCAC
1 TTTTTCCCAC
48592287 TTTTT-CCAC
1 TTTTTCCCAC
48592296 TTTTTCCCAC
1 TTTTTCCCAC
48592306 ACGTTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTTTCCCAC
Found at i:48598364 original size:44 final size:43
Alignment explanation
Indices: 48598214--48598981 Score: 282
Period size: 44 Copynumber: 17.0 Consensus size: 43
48598204 TTCTGGCAAG
* *
48598214 TCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGTCACAGA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGT-ACAAA
* * * **
48598258 TATTATCTCCCTAAAGTTGTAGTGGAGTAGATCGAAGATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TA-CAAA
* * * *
48598303 TTTTATCTCTCC-GAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
1 TCTTATCTC-CCTAAAGTTGCAGTGGAGCAGATTAAAG-TACAAA
* * * * *
48598347 CCTTATCTCCCTAAAGTTGCAATGAAGCAGGTTAAAAATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGTA-CAAA
* * * * * * * *
48598392 TCTTATTTTCTTGAGGCTACAGTGGAACAGATTAAGGCTATCAAGTTACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-T-----TA--AAG-TACAAA
* * * * * *
48598444 TTTTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGAAGTTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TACAAA
* * * * * * * * *
48598488 TTTTATCTCCTTGAAGTTGCTGTGAAGCAGACTGAAGATGGCGAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-T-ACAAA
* * ** *
48598533 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTACAACCACTAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTA-AAGTACAAA
* * * * *
48598577 CCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGATACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TACAAA
* * ** * *
48598621 TCTTATCTTCCTGAAGTTGCAAAGGAGCAAATTAAAGATAGAAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TA-CAAA
* * * * **
48598666 TCTTATTTCCTTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TA-CAAA
* * * * * *
48598711 TCTTATCTCTCTGAAGTCGCAGTAGAGCAAATTAAAGCTATAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TACAAA
* ** * *
48598755 CCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATTACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG--------TACAAA
* * * * * * **
48598806 TCTTAACTCCTTGAAGTTACAATGGAGTAGATCGAAGATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-TA-CAAA
* * * * * * *
48598851 TATTATCTCTCTAAAGTTACAGTAGAGCATATTAAAACTATAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGTACAAA
* * * * * *
48598895 CCTTATCTCCTTGAAGTTGCAGCGGA-CTAGATTGAAACTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGC-AGATT-AAAGTACAAA
* * *
48598939 TCTTATCTCCCTGAAA-TTGTAGTGGAGTAGATTGAAACTACAA
1 TCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATT-AAAGTACAA
48598982 CTCCTCGAAG
Statistics
Matches: 533, Mismatches: 160, Indels: 62
0.71 0.21 0.08
Matches are distributed among these distances:
43 5 0.01
44 268 0.50
45 187 0.35
46 8 0.02
50 1 0.00
51 35 0.07
52 27 0.05
53 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTACAAA
Found at i:48598388 original size:89 final size:89
Alignment explanation
Indices: 48598209--48598397 Score: 209
Period size: 89 Copynumber: 2.1 Consensus size: 89
48598199 AGTCATTCTG
* * * * *
48598209 GCAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGTCACAGATATTATCTCCCTAAAG
1 GCAAATCTTATCTCTCCAAAGTTGCAGTAGAGCAGATTAAAGTCACAAACATTATCTCCCTAAAG
* * * * * *
48598274 TTGTAGTGGAGTAGATCGAAGATA
66 TTGCAATGAAGCAGATCAAAAATA
* * * *
48598298 GCAAATTTTATCTCTCCGAAGTTGCAGTAGAGCAGATTAAAG-CTATAAACCTTATCTCCCTAAA
1 GCAAATCTTATCTCTCCAAAGTTGCAGTAGAGCAGATTAAAGTC-ACAAACATTATCTCCCTAAA
* *
48598362 GTTGCAATGAAGCAGGTTAAAAATA
65 GTTGCAATGAAGCAGATCAAAAATA
48598387 GCAAATCTTAT
1 GCAAATCTTAT
48598398 TTTCTTGAGG
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 1 0.01
89 80 0.99
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (89 bp):
GCAAATCTTATCTCTCCAAAGTTGCAGTAGAGCAGATTAAAGTCACAAACATTATCTCCCTAAAG
TTGCAATGAAGCAGATCAAAAATA
Found at i:48598659 original size:133 final size:133
Alignment explanation
Indices: 48598446--48598689 Score: 328
Period size: 133 Copynumber: 1.8 Consensus size: 133
48598436 GTTACAAATT
* * * ***
48598446 TTATCTCCCTGAAGTTGAAGTGGAGCAGGTTGAAGTTACAAGTTTTATCTCCTTGAAGTTGCTGT
1 TTATCTCCCTAAAGTTGAAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCTTGAAGTTGCAAA
* * * **
48598511 GAAGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTACAACCACTA
66 GAAGCAAACTAAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTACAACCACTA
48598576 ACC
131 ACC
*
48598579 TTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGATACAAGTCTTATCTTCC-TGAAGTTGCAA
1 TTATCTCCCTAAAGTTGAAGTGGAGCAGGTTGAAGATACAAGTCTTATC-TCCTTGAAGTTGCAA
* * * *
48598643 AGGAGCAAATTAAAGATAGAAAATCTTATTTCCTTGAAGTTGCAGTG
65 AGAAGCAAACTAAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTG
48598690 GAGTAGATCG
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
133 91 0.97
134 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (133 bp):
TTATCTCCCTAAAGTTGAAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCTTGAAGTTGCAAA
GAAGCAAACTAAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTACAACCACTA
ACC
Found at i:48598685 original size:45 final size:45
Alignment explanation
Indices: 48598621--48598747 Score: 116
Period size: 45 Copynumber: 2.8 Consensus size: 45
48598611 AAGATACAAG
48598621 TCTTATCTTCC-TGAAGTTGCAAAGGAGCAAATTAAAGATAGAAAA
1 TCTTAT-TTCCTTGAAGTTGCAAAGGAGCAAATTAAAGATAGAAAA
** * * ** *
48598666 TCTTATTTCCTTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAA
1 TCTTATTTCCTTGAAGTTGCAAAGGAGCAAATTAAAGATAGAAAA
* * *
48598711 TCTTATCT-CTCTGAAGTCGCAGTA-GAGCAAATTAAAG
1 TCTTATTTCCT-TGAAGTTGCA-AAGGAGCAAATTAAAG
48598748 CTATAAACCT
Statistics
Matches: 64, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
44 6 0.09
45 58 0.91
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (45 bp):
TCTTATTTCCTTGAAGTTGCAAAGGAGCAAATTAAAGATAGAAAA
Found at i:48598770 original size:89 final size:90
Alignment explanation
Indices: 48598490--48598786 Score: 263
Period size: 89 Copynumber: 3.3 Consensus size: 90
48598480 GTTACAAGTT
* * * * *
48598490 TTATC-TCCTTGAAGTTGCTGTGAAGCAGA-CTGAAGATGGCGAATCTTATCTCCCTGAAGTTGC
1 TTATCTTCC-TGAAGTTGCAGTGGAGCAGATC-GAAGATAGCAAATCTTATCTCTCTGAAGTTGC
* *
48598553 AGT-GAAGCAGATTACAA-CCACT-AACC
64 AGTAG-AGCAAATTA-AAGCTACTAAACC
* * * * * *
48598579 TTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGATA-CAAGTCTTATCT-TCCTGAAGTTGCA
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCT-CTGAAGTTGCA
* * ** *
48598642 -AAGGAGCAAATTAAAGATAGAAAATC
65 GTA-GAGCAAATTAAAGCTACTAAACC
* *
48598668 TTAT-TTCCTTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTCGCA
1 TTATCTTCC-TGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTTGCA
48598732 GTAGAGCAAATTAAAGCTA-TAAACC
65 GTAGAGCAAATTAAAGCTACTAAACC
* *
48598757 TTATCTTTCTGAAGTTGCAGTGGAGTAGAT
1 TTATCTTCCTGAAGTTGCAGTGGAGCAGAT
48598787 TAAAGCTACA
Statistics
Matches: 165, Mismatches: 31, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
87 2 0.01
88 33 0.20
89 87 0.53
90 41 0.25
91 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (90 bp):
TTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAG
TAGAGCAAATTAAAGCTACTAAACC
Found at i:48598847 original size:140 final size:140
Alignment explanation
Indices: 48598663--48598937 Score: 401
Period size: 140 Copynumber: 2.0 Consensus size: 140
48598653 TAAAGATAGA
** * * * *
48598663 AAATCTTATTTCCTTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTGAAGT
1 AAATCTTAACTCCTTGAAGTTACAATGGAGTAGATCGAAGATAGCAAATATTATCTCTCTAAAGT
* * * * *
48598728 CGCAGTAGAGCAAATTAAAGCTATAAACCTTATCT-TTCTGAAGTTGCAGTGGAGTAGATT-AAA
66 CACAGTAGAGCAAATTAAAACTATAAACCTTATCTCCT-TGAAGTTGCAGCGGACTAGATTGAAA
48598791 GCTACAAATTAC
130 -CTACAAATTAC
48598803 AAATCTTAACTCCTTGAAGTTACAATGGAGTAGATCGAAGATAGCAAATATTATCTCTCTAAAGT
1 AAATCTTAACTCCTTGAAGTTACAATGGAGTAGATCGAAGATAGCAAATATTATCTCTCTAAAGT
* *
48598868 TACAGTAGAGCATATTAAAACTATAAACCTTATCTCCTTGAAGTTGCAGCGGACTAGATTGAAAC
66 CACAGTAGAGCAAATTAAAACTATAAACCTTATCTCCTTGAAGTTGCAGCGGACTAGATTGAAAC
48598933 TACAA
131 TACAA
48598938 GTCTTATCTC
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
140 116 0.97
141 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (140 bp):
AAATCTTAACTCCTTGAAGTTACAATGGAGTAGATCGAAGATAGCAAATATTATCTCTCTAAAGT
CACAGTAGAGCAAATTAAAACTATAAACCTTATCTCCTTGAAGTTGCAGCGGACTAGATTGAAAC
TACAAATTAC
Found at i:48599780 original size:43 final size:42
Alignment explanation
Indices: 48599699--48599780 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
48599689 GGTCTTTGAT
* *
48599699 TTTATTTTCTTTTTCGAAACTATTTATATACACATATATCTC
1 TTTATTTTCTTTTTCAAAACCATTTATATACACATATATCTC
* * * *
48599741 TTTATTTTCTTTTTTTAAAACCATTTCTATATATATATAT
1 TTTATTTTC-TTTTTCAAAACCATTTATATACACATATAT
48599781 TAAAAAGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 9 0.27
43 24 0.73
ACGTcount: A:0.29, C:0.13, G:0.01, T:0.56
Consensus pattern (42 bp):
TTTATTTTCTTTTTCAAAACCATTTATATACACATATATCTC
Found at i:48600401 original size:3 final size:3
Alignment explanation
Indices: 48600393--48600464 Score: 108
Period size: 3 Copynumber: 24.0 Consensus size: 3
48600383 CTTAACATTG
* * *
48600393 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAC TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
48600441 TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
48600465 ATTTCTTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:48602900 original size:21 final size:20
Alignment explanation
Indices: 48602875--48602939 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
48602865 TAGCCTTCGG
48602875 GCTTCCGTTTAGAACTTGTGT
1 GCTTCCGTTTAG-ACTTGTGT
* * *
48602896 GCTTCAG-TTAGCCTT-TGG
1 GCTTCCGTTTAGACTTGTGT
48602914 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAG-ACTTGTGT
*
48602935 ACTTC
1 GCTTC
48602940 AGTTAGCCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGACTTGTGT
Found at i:48602905 original size:39 final size:39
Alignment explanation
Indices: 48602857--48602996 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
48602847 GCTCTGATGA
* *
48602857 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGAACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
48602896 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * * *
48602935 ACTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACCTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
48602974 GCTTCAGCTAGACTTTGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
48602997 AGATCACGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:48603712 original size:13 final size:13
Alignment explanation
Indices: 48603689--48603722 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
48603679 AGTTTTTTTT
48603689 AAATAATAATAATA
1 AAATAA-AATAATA
48603703 AAATAAAATAATA
1 AAATAAAATAATA
48603716 AAATAAA
1 AAATAAA
48603723 TTCTAGAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:48609888 original size:28 final size:28
Alignment explanation
Indices: 48609820--48609878 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
48609810 GAAATTGAGG
48609820 ATAAACGAGGAAAAGAGAAAATTTCGGA
1 ATAAACGAGGAAAAGAGAAAATTTCGGA
48609848 ATAAACGAGGAAAAGAGAAAATTTCGGA
1 ATAAACGAGGAAAAGAGAAAATTTCGGA
48609876 ATA
1 ATA
48609879 GTTCTAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.54, C:0.07, G:0.24, T:0.15
Consensus pattern (28 bp):
ATAAACGAGGAAAAGAGAAAATTTCGGA
Found at i:48610197 original size:20 final size:20
Alignment explanation
Indices: 48610158--48610208 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
48610148 TGTGTTTACT
* *
48610158 TTCCGTTTAGCTCTTATGAGC
1 TTCCG-TTAACTCATATGAGC
*
48610179 TTCCGTTAACTCATATGAGT
1 TTCCGTTAACTCATATGAGC
*
48610199 TTCAGTTAAC
1 TTCCGTTAAC
48610209 CCTTTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (20 bp):
TTCCGTTAACTCATATGAGC
Found at i:48610354 original size:39 final size:39
Alignment explanation
Indices: 48610237--48610360 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
48610227 CAGCTCTGAT
*
48610237 GGGCTTCCGTTTAGCACTTGTGTGCTTCAGTTAGCCTTC
1 GGGCTTCTGTTTAGCACTTGTGTGCTTCAGTTAGCCTTC
* * *
48610276 GGGATTATGTTTAGCACTTGTGTACTTCAGTTAGCCTTC
1 GGGCTTCTGTTTAGCACTTGTGTGCTTCAGTTAGCCTTC
* ** *
48610315 GGGCTTCTGTTTAGCACTTATGTGCTTCAACTAGACTTC
1 GGGCTTCTGTTTAGCACTTGTGTGCTTCAGTTAGCCTTC
48610354 GGGCTTC
1 GGGCTTC
48610361 AGAACACGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.39
Consensus pattern (39 bp):
GGGCTTCTGTTTAGCACTTGTGTGCTTCAGTTAGCCTTC
Found at i:48611077 original size:13 final size:13
Alignment explanation
Indices: 48611053--48611087 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
48611043 GAGTTTTTTT
48611053 AAAATAATAATAAA
1 AAAATAA-AATAAA
48611067 AAAATAAAATAAA
1 AAAATAAAATAAA
48611080 AAAATAAA
1 AAAATAAA
48611088 TTCCGGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:48617352 original size:17 final size:17
Alignment explanation
Indices: 48617326--48617358 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48617316 TTATTATAAT
*
48617326 TGTGTGTATATATTATG
1 TGTGTATATATATTATG
48617343 TGTGTATATATATTAT
1 TGTGTATATATATTAT
48617359 ATGCATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
TGTGTATATATATTATG
Found at i:48620876 original size:46 final size:46
Alignment explanation
Indices: 48620806--48621081 Score: 358
Period size: 46 Copynumber: 6.0 Consensus size: 46
48620796 TGACATAGTG
* * * *
48620806 TCTTTCAACTATAGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATGTCACGTTGCCATGGTA
* ** **
48620852 TCATTCAACCATGGTCTTATTCATTTCCCCGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTT-CATGTCACGTTGCCATGGTA
48620899 TCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTA
* *
48620945 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTA
* * *
48620991 TCTTTCAACCATGGTCTTACACGTTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTA
* * *
48621037 TCTTTCAACCATGGTCTTACA-AGTTTTATATCAGGTTGCCATGGT
1 TCTTTCAACCATGGTCTTACACA-TTTCATGTCACGTTGCCATGGT
48621082 CTTACACATT
Statistics
Matches: 211, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
45 3 0.01
46 169 0.80
47 39 0.18
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTA
Found at i:48626012 original size:26 final size:26
Alignment explanation
Indices: 48625976--48626186 Score: 370
Period size: 26 Copynumber: 8.2 Consensus size: 26
48625966 NNNNNNNNNN
48625976 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48626002 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48626028 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48626054 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
48626080 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
48626106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
48626132 ATCATGGAA-TTTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
48626157 GTTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48626183 ATCA
1 ATCA
48626187 ATTTGTATCA
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
25 21 0.12
26 153 0.88
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:48626799 original size:22 final size:22
Alignment explanation
Indices: 48626771--48626813 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48626761 TGTGAGTGGG
48626771 ATCAGAGTGATAGCGTCTCAAT
1 ATCAGAGTGATAGCGTCTCAAT
48626793 ATCAGAGTGATAGCGTCTCAA
1 ATCAGAGTGATAGCGTCTCAA
48626814 CATTGACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (22 bp):
ATCAGAGTGATAGCGTCTCAAT
Found at i:48630666 original size:12 final size:12
Alignment explanation
Indices: 48630649--48630673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48630639 GCCTCGACCA
48630649 CGACCACGGCCT
1 CGACCACGGCCT
48630661 CGACCACGGCCT
1 CGACCACGGCCT
48630673 C
1 C
48630674 TTCCCCGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.52, G:0.24, T:0.08
Consensus pattern (12 bp):
CGACCACGGCCT
Found at i:48633853 original size:26 final size:26
Alignment explanation
Indices: 48633817--48634027 Score: 314
Period size: 26 Copynumber: 8.1 Consensus size: 26
48633807 GAAATGCCCG
*
48633817 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
48633843 TCATGGAACATTTACGTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* * *
48633869 TCATGGAATATTTACCTAATCCGTTA
1 TCATGGAACATTTACCTAACCCATTA
*
48633895 TCATGGAACATTTACCTAACCTATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
48633921 TCATGAAACATTTACCTAGCCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
48633947 TCATGGAACATTTACCTAACCTATTA
1 TCATGGAACATTTACCTAACCCATTA
* * *
48633973 TCATGAAACATTTACCTAGCCCATTG
1 TCATGGAACATTTACCTAACCCATTA
48633999 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
48634025 TCA
1 TCA
48634028 ATTTTTATCA
Statistics
Matches: 162, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 162 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:48635771 original size:13 final size:13
Alignment explanation
Indices: 48635753--48635777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48635743 TCAATTATGC
48635753 TAATTTCATTCAA
1 TAATTTCATTCAA
48635766 TAATTTCATTCA
1 TAATTTCATTCA
48635778 TACAAATACC
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTTCATTCAA
Found at i:48635908 original size:20 final size:20
Alignment explanation
Indices: 48635883--48635924 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
48635873 TATCGGTAAG
48635883 AGCATGGCTAACTCTGTCAT
1 AGCATGGCTAACTCTGTCAT
48635903 AGCATGGCTAACTCTGTCAT
1 AGCATGGCTAACTCTGTCAT
48635923 AG
1 AG
48635925 TCTGGTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (20 bp):
AGCATGGCTAACTCTGTCAT
Found at i:48642457 original size:27 final size:27
Alignment explanation
Indices: 48642405--48642481 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
48642395 AATAAACGAA
*
48642405 TAATAATAATAATAAATAGATAAATAAGAG
1 TAATAATAATAAT-AATAG-T-AATAACAG
*
48642435 TAATAATAATAATAATAGTAATAACCG
1 TAATAATAATAATAATAGTAATAACAG
*
48642462 TATTAA-ACATAATAATAGTA
1 TAATAATA-ATAATAATAGTA
48642482 GTAAAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.02
27 23 0.53
28 1 0.02
29 5 0.12
30 13 0.30
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (27 bp):
TAATAATAATAATAATAGTAATAACAG
Found at i:48642478 original size:3 final size:3
Alignment explanation
Indices: 48642403--48642458 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
48642393 TTAATAAACG
* *
48642403 AAT AAT AAT AAT AAT AAAT AGAT AAAT AAG AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT
*
48642451 AGT AAT AA
1 AAT AAT AA
48642459 CCGTATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 36 0.82
4 7 0.16
5 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:48644767 original size:19 final size:18
Alignment explanation
Indices: 48644743--48644791 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
48644733 TTTTATTGTC
*
48644743 TTTAAATTATTGTTGAAAT
1 TTTAAATTATT-TTCAAAT
48644762 TTTAAATTGA-TTTCAAAT
1 TTTAAATT-ATTTTCAAAT
*
48644780 TTTAAAATATTT
1 TTTAAATTATTT
48644792 AAATTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 15 0.58
19 9 0.35
20 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTAAATTATTTTCAAAT
Found at i:48645928 original size:15 final size:15
Alignment explanation
Indices: 48645908--48645941 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48645898 AAAATAAAAG
48645908 AATTTATTATATTTA
1 AATTTATTATATTTA
* *
48645923 AATTTATTTTATTTG
1 AATTTATTATATTTA
48645938 AATT
1 AATT
48645942 AAAAAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTTATTATATTTA
Found at i:48646859 original size:20 final size:20
Alignment explanation
Indices: 48646822--48646860 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48646812 CTTCATTTCT
* *
48646822 ATGTTTGTACAAATATGAAA
1 ATGTTTATACAAACATGAAA
*
48646842 ATGTTTATACTAACATGAA
1 ATGTTTATACAAACATGAA
48646861 TTATGTATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTTTATACAAACATGAAA
Found at i:48647392 original size:21 final size:22
Alignment explanation
Indices: 48647367--48647408 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48647357 TTAAAAAATT
48647367 GGAGAAGT-GAAGAAAATAGAG
1 GGAGAAGTGGAAGAAAATAGAG
*
48647388 GGAGAAGTGGAAGAGAATAGA
1 GGAGAAGTGGAAGAAAATAGA
48647409 ATATAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.40, T:0.10
Consensus pattern (22 bp):
GGAGAAGTGGAAGAAAATAGAG
Found at i:48656970 original size:106 final size:107
Alignment explanation
Indices: 48656828--48657030 Score: 336
Period size: 106 Copynumber: 1.9 Consensus size: 107
48656818 TGGATTAAGA
* * * *
48656828 TTTAAGAGGATATTTGGGTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
1 TTTAAGAGGATATTTGGCTATTTAGTCAAACGAAAAAATCGAAACCCAACACATTAGGACACGTT
*
48656893 TCCTCGAATTTCCAAATGCAAAATATTGCCTTACTTTAAAAT
66 TCCTCGAATTCCCAAATGCAAAATATTGCCTTACTTTAAAAT
*
48656935 TTTAA-AGGATATTTGGCTATTTAGTCGAACGAAAAAATCGAAACCCAACACATTAGGACACGTT
1 TTTAAGAGGATATTTGGCTATTTAGTCAAACGAAAAAATCGAAACCCAACACATTAGGACACGTT
*
48656999 TTCTCGAATTCCCAAATGCAAAATATTGCCTT
66 TCCTCGAATTCCCAAATGCAAAATATTGCCTT
48657031 TATTATTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
106 84 0.94
107 5 0.06
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (107 bp):
TTTAAGAGGATATTTGGCTATTTAGTCAAACGAAAAAATCGAAACCCAACACATTAGGACACGTT
TCCTCGAATTCCCAAATGCAAAATATTGCCTTACTTTAAAAT
Found at i:48657923 original size:27 final size:27
Alignment explanation
Indices: 48657893--48657958 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
48657883 TTTTAAAGCA
48657893 TAAAAGTATATATAAAATAAAAT-ATTT
1 TAAAAGTATATATAAAATAAAATCA-TT
48657920 TAAAAATGTAT-TATAAAATAAAATCATT
1 T-AAAA-GTATATATAAAATAAAATCATT
48657948 TAAAA-TATATA
1 TAAAAGTATATA
48657959 GACAATATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 5 0.14
28 20 0.57
29 5 0.14
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
TAAAAGTATATATAAAATAAAATCATT
Found at i:48657925 original size:28 final size:28
Alignment explanation
Indices: 48657894--48657952 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
48657884 TTTAAAGCAT
48657894 AAAA-GTATATATAAAATAAAAT-ATTTTA
1 AAAATGTAT-TATAAAATAAAATCA-TTTA
48657922 AAAATGTATTATAAAATAAAATCATTTA
1 AAAATGTATTATAAAATAAAATCATTTA
48657950 AAA
1 AAA
48657953 TATATAGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATGTATTATAAAATAAAATCATTTA
Found at i:48658132 original size:3 final size:3
Alignment explanation
Indices: 48658124--48658171 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
48658114 TAAAATGACG
* *
48658124 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ATA ATA A-A ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
48658171 A
1 A
48658172 TAGAAAAGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.69, C:0.27, G:0.00, T:0.04
Consensus pattern (3 bp):
ACA
Found at i:48661488 original size:15 final size:14
Alignment explanation
Indices: 48661458--48661485 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48661448 TACATTCTCC
48661458 TTCAAAAATATCAA
1 TTCAAAAATATCAA
48661472 TTCAAAAATATCAA
1 TTCAAAAATATCAA
48661486 ATTTATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
TTCAAAAATATCAA
Found at i:48666492 original size:21 final size:21
Alignment explanation
Indices: 48666442--48666492 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
48666432 AGTTCGGGCC
48666442 CAAATAA-AAAAATAAACAAA
1 CAAATAATAAAAATAAACAAA
48666462 CAGAAT-ATAAAAATAAA-AAA
1 CA-AATAATAAAAATAAACAAA
48666482 TCAAATAATAA
1 -CAAATAATAA
48666493 GAGTCCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (21 bp):
CAAATAATAAAAATAAACAAA
Found at i:48666871 original size:15 final size:16
Alignment explanation
Indices: 48666851--48666880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48666841 TTTTCAAAAA
48666851 AGAG-AAATTGAATAC
1 AGAGAAAATTGAATAC
48666866 AGAGAAAATTGAATA
1 AGAGAAAATTGAATA
48666881 TATTCGAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (16 bp):
AGAGAAAATTGAATAC
Found at i:48672610 original size:19 final size:20
Alignment explanation
Indices: 48672571--48672610 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48672561 CAAGGTCGTA
*
48672571 TATGTAAAATGTATCCGTTT
1 TATGTAAAAAGTATCCGTTT
*
48672591 TATGTAAAAAG-ATTCGTTT
1 TATGTAAAAAGTATCCGTTT
48672610 T
1 T
48672611 CTAGTAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (20 bp):
TATGTAAAAAGTATCCGTTT
Found at i:48679949 original size:45 final size:45
Alignment explanation
Indices: 48679849--48680210 Score: 256
Period size: 44 Copynumber: 7.8 Consensus size: 45
48679839 CACCGTAGTG
* * * **
48679849 AATCTTATCCCCCTGAAGTTGCAG-CAGAGTAGATTAAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGATAGCA
**
48679893 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATAGCA
* *
48679938 AATCTTATCTCCCTGAAGTTGGAGT-AGAGCAGATTAAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGATAGCA
* * * * *
48679983 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGTTA-CG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATAGCA
* *
48680027 AATCTTATTTCCCTGAAGTTGCAGTGGAA-CATATTAAAGCTACTAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAG--A-TAG---CA
* * * * * *
48680078 AATCTTATCTCCTTAAAGTTACA-TCAGAGCAAATTAAAGTTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGATAGCA
* * * *
48680122 AATCTTATTTCCCT-AGAGTTACATTGGAA-CAGATTAAAGCTACAAGTTGCA
1 AATCTTATCTCCCTGA-AGTTGCAGT-GAAGCAGATTAAAG-----A-TAGCA
*
48680173 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA
48680211 ACGAACTTTA
Statistics
Matches: 251, Mismatches: 41, Indels: 45
0.74 0.12 0.13
Matches are distributed among these distances:
43 1 0.00
44 95 0.38
45 83 0.33
46 1 0.00
47 2 0.01
48 2 0.01
49 1 0.00
50 5 0.02
51 60 0.24
52 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATAGCA
Found at i:48679972 original size:89 final size:89
Alignment explanation
Indices: 48679849--48680206 Score: 263
Period size: 95 Copynumber: 3.9 Consensus size: 89
48679839 CACCGTAGTG
* * * *
48679849 AATCTTATCCCCCTGAAGTTGCAGCAGAGTAGATTAAAGCCA-CAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAGAAAATCTTATCTCCCTGAAGTT
* *
48679913 GCAGTGAAGCAGATCGAAGATAGCA
66 GCAATGAAGCAGATCAAAGATA-CA
* **
48679938 AATCTTATCTCCCTGAAGTTGGAGTAGAGCAGATTAAAGATAGAAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAGAAAATCTTATCTCCCTGAAGTT
* * * * *
48680003 GTAATGGAGCAGATTAAAGTTACG
66 GCAATGAAGCAGATCAAAGATACA
* * * * *
48680027 AATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTACTAGTCACAAATCTTATCTCCTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGC--C-AG--A-AAATCTTATCTCCCT
* * * * * *
48680092 AAAGTTAC-ATCAGAGCAAATTAAAGTTACA
60 GAAGTTGCAATGA-AGCAGATCAAAGATACA
* * * * * *
48680122 AATCTTATTTCCCT-AGAGTTACATTGGAACAGATTAAAGCTACAAGTTGCAAATCTTATCTCCC
1 AATCTTATCTCCCTGA-AGTTGCAGTAGAGCAGATTAAAGC--C-A---GAAAATCTTATCTCCC
* *
48680186 TGAAGTTGCAGTGGAGCAGAT
59 TGAAGTTGCAATGAAGCAGAT
48680207 TAAAACGAAC
Statistics
Matches: 215, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
89 71 0.33
90 37 0.17
92 2 0.01
94 4 0.02
95 99 0.46
96 1 0.00
98 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAGAAAATCTTATCTCCCTGAAGTT
GCAATGAAGCAGATCAAAGATACA
Found at i:48680203 original size:95 final size:94
Alignment explanation
Indices: 48679889--48680210 Score: 334
Period size: 95 Copynumber: 3.4 Consensus size: 94
48679879 AGATTAAAGC
* ** * *
48679889 CACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGATAGCAAATCTTATCTCCCTGA
1 CACAAATCTTATCTCCCTGAAGTTGCA-TGGAGCAGATTAAAGTTA-CAAATCTTATTTCCCTGA
** * * *
48679954 AGTTGGAGTAGAGCAGATTAAAG--A-TAG-
64 AGTTACAGTGGAACAGATTAAAGCTACAAGT
* *
48679981 -A-AAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTAAAGTTACGAATCTTATTTCCCTGAA
1 CACAAATCTTATCTCCCTGAAGTTG-CATGGAGCAGATTAAAGTTACAAATCTTATTTCCCTGAA
* * *
48680044 GTTGCAGTGGAACATATTAAAGCTACTAGT
65 GTTACAGTGGAACAGATTAAAGCTACAAGT
* * * * *
48680074 CACAAATCTTATCTCCTTAAAGTTACATCAGAGCAAATTAAAGTTACAAATCTTATTTCCCT-AG
1 CACAAATCTTATCTCCCTGAAGTTGCAT-GGAGCAGATTAAAGTTACAAATCTTATTTCCCTGA-
*
48680138 AGTTACATTGGAACAGATTAAAGCTACAAGT
64 AGTTACAGTGGAACAGATTAAAGCTACAAGT
**
48680169 TGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 CACAAATCTTATCTCCCTGAAGTTGCA-TGGAGCAGATTAAA
48680211 ACGAACTTTA
Statistics
Matches: 191, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
89 35 0.18
90 36 0.19
91 3 0.02
92 3 0.02
94 4 0.02
95 109 0.57
96 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (94 bp):
CACAAATCTTATCTCCCTGAAGTTGCATGGAGCAGATTAAAGTTACAAATCTTATTTCCCTGAAG
TTACAGTGGAACAGATTAAAGCTACAAGT
Found at i:48680206 original size:51 final size:51
Alignment explanation
Indices: 48680019--48680210 Score: 175
Period size: 51 Copynumber: 3.9 Consensus size: 51
48680009 GAGCAGATTA
* * * *
48680019 AAGTTACGAATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTAC
1 AAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTAC
* * * * ** *
48680070 TAGTCACAAATCTTATCTCCTTAAAGTTACA-T----CAGAGCAAA-TTA-
1 AAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTAC
* *
48680114 AAGTTACAAATCTTATTTCCCT-AGAGTTACATTGGAACAGATTAAAGCTAC
1 AAGTTACAAATCTTATCTCCCTGA-AGTTACAGTGGAACAGATTAAAGCTAC
* * *
48680165 AAGTTGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAA
48680211 ACGAACTTTA
Statistics
Matches: 109, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 25 0.23
45 3 0.03
46 6 0.06
49 7 0.06
50 3 0.03
51 63 0.58
52 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (51 bp):
AAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCTAC
Found at i:48681804 original size:4 final size:4
Alignment explanation
Indices: 48681795--48681893 Score: 80
Period size: 4 Copynumber: 24.8 Consensus size: 4
48681785 ATTGTTTCCT
* *
48681795 TTTA TTTA TTTA TTTA TTTA -TTA TTCCT- TTTA TTTTA TTCA TTTA CTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA -TTTA TTTA TTTA TTTA
* * * *
48681844 CTTA TTTA CTTA TTTA TTTA TATA -TTA TTCA TTTA TTTA CTTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
48681891 TTT
1 TTT
48681894 TAATTCCTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
3 9 0.12
4 58 0.75
5 9 0.12
6 1 0.01
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:48686566 original size:9 final size:9
Alignment explanation
Indices: 48686560--48686584 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48686550 TAAGATAATC
48686560 ATAATAACA
1 ATAATAACA
48686569 ATAATAACA
1 ATAATAACA
48686578 ATAATAA
1 ATAATAA
48686585 GGATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:48691488 original size:9 final size:9
Alignment explanation
Indices: 48691464--48691508 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
48691454 ATTTTACAAT
*
48691464 TCGAATAGC
1 TCGAATAAC
*
48691473 TCAAATAAC
1 TCGAATAAC
*
48691482 TCGAATAAT
1 TCGAATAAC
48691491 TCGAATAAC
1 TCGAATAAC
*
48691500 TCAAATAAC
1 TCGAATAAC
48691509 AAATTTGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (9 bp):
TCGAATAAC
Found at i:48693612 original size:3 final size:3
Alignment explanation
Indices: 48693604--48693649 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
48693594 ATATAAAAAC
48693604 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48693650 GGACTAAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:48694239 original size:10 final size:10
Alignment explanation
Indices: 48694224--48694255 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
48694214 ACGTTTTTAA
48694224 TATATATATG
1 TATATATATG
48694234 TATATATATG
1 TATATATATG
*
48694244 TATGTATATG
1 TATATATATG
48694254 TA
1 TA
48694256 AAAAAACGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:48694242 original size:14 final size:14
Alignment explanation
Indices: 48694223--48694252 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48694213 AACGTTTTTA
48694223 ATATATATATGTAT
1 ATATATATATGTAT
*
48694237 ATATATGTATGTAT
1 ATATATATATGTAT
48694251 AT
1 AT
48694253 GTAAAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
ATATATATATGTAT
Found at i:48699216 original size:25 final size:25
Alignment explanation
Indices: 48699182--48699233 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
48699172 ATGAATGTCA
*
48699182 TTAAAAAGGTCCACTAGAGAAAGGG
1 TTAAAAAGGTCAACTAGAGAAAGGG
48699207 TTAAAAAGGTCAACTAGAGAAAGGG
1 TTAAAAAGGTCAACTAGAGAAAGGG
48699232 TT
1 TT
48699234 TCTAATTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (25 bp):
TTAAAAAGGTCAACTAGAGAAAGGG
Found at i:48701942 original size:11 final size:11
Alignment explanation
Indices: 48701928--48701971 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
48701918 AAATAAATAT
48701928 TATTTTATTAA
1 TATTTTATTAA
*
48701939 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
48701952 TATTTTATTAT
1 TATTTTATTAA
48701963 TATTTTATT
1 TATTTTATT
48701972 TAGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:48703961 original size:33 final size:33
Alignment explanation
Indices: 48703919--48704183 Score: 149
Period size: 33 Copynumber: 7.9 Consensus size: 33
48703909 GCAATGTTTA
48703919 AATGTAAGACCATAGCTGGGCTATGGCA-TTTT
1 AATGTAAGACCATAGCTGGGCTATGGCACTTTT
* * * * * *
48703951 AATGAAAAGACCATAACTGAGTTATGGCACTATG
1 AATG-TAAGACCATAGCTGGGCTATGGCACTTTT
* * * * * ** *
48703985 AACGTAAGACCATGGTTGGACCATGATAGTGTTT
1 AATGTAAGACCATAGCTGGGCTATGGCACT-TTT
* *
48704019 ATATGTAAGACCATAGTTGGGCTATGGCA-TTCT
1 A-ATGTAAGACCATAGCTGGGCTATGGCACTTTT
* ** * * *
48704052 GATGATAAGACCATAATTGGGTTATGGCACTATG
1 AATG-TAAGACCATAGCTGGGCTATGGCACTTTT
* * * * * *
48704086 AACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 AATGTAAGACCATAGCTGGGCTATGGCACT-TTT
*
48704120 ATATGTAAGACCATAGCTGGGCTATGGCA-TTCT
1 A-ATGTAAGACCATAGCTGGGCTATGGCACTTTT
* * * *
48704153 GATGATAAGATCATAACTGGGTTATGGCACT
1 AATG-TAAGACCATAGCTGGGCTATGGCACT
48704184 ACGAATGTAA
Statistics
Matches: 170, Mismatches: 53, Indels: 18
0.71 0.22 0.07
Matches are distributed among these distances:
32 10 0.06
33 102 0.60
34 15 0.09
35 43 0.25
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (33 bp):
AATGTAAGACCATAGCTGGGCTATGGCACTTTT
Found at i:48704064 original size:101 final size:101
Alignment explanation
Indices: 48703889--48704193 Score: 493
Period size: 101 Copynumber: 3.0 Consensus size: 101
48703879 ATTGACGGAG
* * * *
48703889 AAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGGGCTATGGCATTTTAAT
1 AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
* *
48703954 GAAAAGACCATAACTGAGTTATGGCACTATGAACGT
66 GATAAGACCATAACTGGGTTATGGCACTATGAACGT
** *
48703990 AAGACCATGGTTGGACCATGATAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
1 AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
*
48704055 GATAAGACCATAATTGGGTTATGGCACTATGAACGT
66 GATAAGACCATAACTGGGTTATGGCACTATGAACGT
48704091 AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
1 AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
* * *
48704156 GATAAGATCATAACTGGGTTATGGCACTACGAATGT
66 GATAAGACCATAACTGGGTTATGGCACTATGAACGT
48704192 AA
1 AA
48704194 AGGATGAATT
Statistics
Matches: 187, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 187 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (101 bp):
AAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
GATAAGACCATAACTGGGTTATGGCACTATGAACGT
Found at i:48704715 original size:27 final size:27
Alignment explanation
Indices: 48704684--48704768 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
48704674 TTTGGTTAAA
*
48704684 AATTAACCGAATTACCCGAATTAACCG
1 AATTACCCGAATTACCCGAATTAACCG
48704711 AATTACCCGAATTACCCGAATTAACCG
1 AATTACCCGAATTACCCGAATTAACCG
* * *
48704738 AATTACCCGAATTAACCAAATTAACCA
1 AATTACCCGAATTACCCGAATTAACCG
48704765 AATT
1 AATT
48704769 GAATCACTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (27 bp):
AATTACCCGAATTACCCGAATTAACCG
Found at i:48704759 original size:9 final size:9
Alignment explanation
Indices: 48704684--48704768 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
48704674 TTTGGTTAAA
48704684 AATTAACCG
1 AATTAACCG
*
48704693 AATTACCCG
1 AATTAACCG
48704702 AATTAACCG
1 AATTAACCG
*
48704711 AATTACCCG
1 AATTAACCG
*
48704720 AATTACCCG
1 AATTAACCG
48704729 AATTAACCG
1 AATTAACCG
*
48704738 AATTACCCG
1 AATTAACCG
*
48704747 AATTAACCA
1 AATTAACCG
*
48704756 AATTAACCA
1 AATTAACCG
48704765 AATT
1 AATT
48704769 GAATCACTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 69 1.00
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:48704915 original size:18 final size:18
Alignment explanation
Indices: 48704872--48704918 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
48704862 ATTTAATTTT
*
48704872 ATAATTGGGTTGGGTTGG
1 ATAATTGGGTTGGGTTGA
*
48704890 GTAATTGGGTTGGGTTGA
1 ATAATTGGGTTGGGTTGA
*
48704908 ATACTTGGGTT
1 ATAATTGGGTT
48704919 TAGATTGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (18 bp):
ATAATTGGGTTGGGTTGA
Found at i:48712784 original size:24 final size:24
Alignment explanation
Indices: 48712757--48712808 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48712747 TTAGTAAGTC
*
48712757 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
48712781 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
48712805 AAAT
1 AAAT
48712809 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:48714753 original size:24 final size:24
Alignment explanation
Indices: 48714726--48714777 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48714716 TTAGTAAGTC
*
48714726 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
48714750 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
48714774 AAAT
1 AAAT
48714778 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:48716339 original size:21 final size:23
Alignment explanation
Indices: 48716315--48716359 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
48716305 GTTTGCAGGT
*
48716315 GAGCAGTTG-GGCGATGG-CAGA
1 GAGCAGGTGCGGCGATGGTCAGA
*
48716336 GAGCAGGTGCGGCGCTGGTCAGA
1 GAGCAGGTGCGGCGATGGTCAGA
48716359 G
1 G
48716360 GCGGTGGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.20, C:0.18, G:0.49, T:0.13
Consensus pattern (23 bp):
GAGCAGGTGCGGCGATGGTCAGA
Found at i:48716349 original size:22 final size:22
Alignment explanation
Indices: 48716315--48716366 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
48716305 GTTTGCAGGT
*
48716315 GAGCAGTTGGGCGATGG-CAGA
1 GAGCAGGTGGGCGATGGTCAGA
*
48716336 GAGCAGGTGCGGCGCTGGTCAGA
1 GAGCAGGTG-GGCGATGGTCAGA
48716359 G-GC-GGTGG
1 GAGCAGGTGG
48716367 CAGGGGGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 9 0.33
23 5 0.19
ACGTcount: A:0.17, C:0.17, G:0.52, T:0.13
Consensus pattern (22 bp):
GAGCAGGTGGGCGATGGTCAGA
Found at i:48725304 original size:21 final size:22
Alignment explanation
Indices: 48725263--48725319 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
48725253 AAACCCAACT
*
48725263 AACCTAGCCCAATACCCTAAACC
1 AACCTAGCCCAATA-CCTAAAAC
48725286 AACCTAGCCCAAT-CCTAAAAC
1 AACCTAGCCCAATACCTAAAAC
*
48725307 TACCTGAGCCCAA
1 AACCT-AGCCCAA
48725320 ATTTTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.39, C:0.40, G:0.07, T:0.14
Consensus pattern (22 bp):
AACCTAGCCCAATACCTAAAAC
Found at i:48727064 original size:106 final size:106
Alignment explanation
Indices: 48726928--48727128 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
48726918 AAAATTTTTC
48726928 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
48726993 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
*
48727034 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
48727099 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
48727129 CTTAAAGCTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:48743573 original size:82 final size:82
Alignment explanation
Indices: 48743470--48743627 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 82
48743460 TACATATTAG
* * *
48743470 TTTGGAAACAAAACAATATCAAATAAAAT-ATTGTTAAACGGTGGGAATAAATCCCGAAACATAT
1 TTTGGAAACAAAACAATATCAAAT-AAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGAT
* *
48743534 TTTATTTTATTTCTTGTT
65 TTAATTTAATTTCTTGTT
* * *
48743552 TTTGGCAAA-AAAATCAA-ATCAAATAAATCTTTATTAAGCGGTGGAAATAAATCCTGAAACAGA
1 TTTGG-AAACAAAA-CAATATCAAATAAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGA
48743615 TTTAATTTAATTT
64 TTTAATTTAATTT
48743628 AATTTCTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 4 0.06
82 55 0.85
83 6 0.09
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (82 bp):
TTTGGAAACAAAACAATATCAAATAAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGATT
TAATTTAATTTCTTGTT
Found at i:48748544 original size:22 final size:24
Alignment explanation
Indices: 48748518--48748561 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48748508 GAAAAATATT
48748518 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
48748540 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
48748562 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:48748675 original size:9 final size:9
Alignment explanation
Indices: 48748661--48748688 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
48748651 TTTTGTTACA
48748661 ACAATTAAT
1 ACAATTAAT
48748670 ACAATTAAT
1 ACAATTAAT
48748679 ACAATTAAT
1 ACAATTAAT
48748688 A
1 A
48748689 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:48748709 original size:68 final size:66
Alignment explanation
Indices: 48748631--48748764 Score: 223
Period size: 68 Copynumber: 2.0 Consensus size: 66
48748621 TCAAGTTTGT
*
48748631 TTTACTAATCAAATATTAAATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATATTAAATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
48748696 AAA
64 AAA
* *
48748699 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATATTAAATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
48748764 A
66 A
48748765 CAAAATGTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 20 0.32
67 1 0.02
68 42 0.67
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (66 bp):
TTTACTAATCAAATATTAAATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:48748899 original size:16 final size:16
Alignment explanation
Indices: 48748878--48748918 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
48748868 AATGTTGACA
*
48748878 AATTTTACTAACAATT
1 AATTTTAATAACAATT
48748894 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
48748910 AGTTTTAAT
1 AATTTTAAT
48748919 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:48748920 original size:22 final size:23
Alignment explanation
Indices: 48748892--48748953 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
48748882 TTACTAACAA
* * *
48748892 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
48748914 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
48748937 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
48748954 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:48750003 original size:22 final size:22
Alignment explanation
Indices: 48749978--48750023 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
48749968 TTTTTTCTTC
* *
48749978 TTCTTTTTCCTTTTATTTAATT
1 TTCTTTCTCATTTTATTTAATT
* *
48750000 TTCTTTCTCATTTTCTTTATTT
1 TTCTTTCTCATTTTATTTAATT
48750022 TT
1 TT
48750024 TATTCTTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (22 bp):
TTCTTTCTCATTTTATTTAATT
Found at i:48750004 original size:28 final size:28
Alignment explanation
Indices: 48749970--48750039 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
48749960 TCTTGCATTT
48749970 TTTTCTTCTTCTTTTTCCTTT-TATTTAA
1 TTTTCTTCTTCTTTTT-CTTTATATTTAA
* * *
48749998 TTTTCTT-TCTCATTTTCTTTATTTTTTA
1 TTTTCTTCT-TCTTTTTCTTTATATTTAA
48750026 TTCTTCTTCTTCTT
1 TT-TTCTTCTTCTT
48750040 CTCCTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
27 5 0.15
28 20 0.59
29 8 0.24
30 1 0.03
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTCTTCTTCTTTTTCTTTATATTTAA
Found at i:48756672 original size:42 final size:42
Alignment explanation
Indices: 48756626--48756757 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 42
48756616 AGCTCTCACG
* *
48756626 AGCTTCTGTTTAACTCATATAAGTTTCTGTTCAGCTCTTTTA
1 AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
* * * *
48756668 AGCTTCCGTTTAACCCTTATGAGTTTCCGTTCAGCTCTTTTG
1 AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
* * ** * * *
48756710 AGCTTCTGTTTAACCCTTTTTGGTTTTCGTTCAGCTCTTATG
1 AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
48756752 AGCTTC
1 AGCTTC
48756758 CATTCAACCC
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (42 bp):
AGCTTCTGTTTAACCCATATAAGTTTCCGTTCAGCTCTTTTA
Found at i:48756728 original size:21 final size:21
Alignment explanation
Indices: 48756625--48756729 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
48756615 TAGCTCTCAC
* *
48756625 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTTAACTCTTTT
* * * *
48756646 AAGTTTCTGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCTTTT
* * * *
48756667 AAGCTTCCGTTTAACCCTTAT
1 GAGCTTCTGTTTAACTCTTTT
* * * *
48756688 GAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCTTTT
*
48756709 GAGCTTCTGTTTAACCCTTTT
1 GAGCTTCTGTTTAACTCTTTT
48756730 TGGTTTTCGT
Statistics
Matches: 61, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (21 bp):
GAGCTTCTGTTTAACTCTTTT
Found at i:48756767 original size:42 final size:43
Alignment explanation
Indices: 48756649--48756777 Score: 156
Period size: 42 Copynumber: 3.0 Consensus size: 43
48756639 CTCATATAAG
*
48756649 TTTCTGTTCAGCTCTTTTAAGCTTCCGTTTAACCC-TTATGAGT
1 TTTC-GTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
* * *
48756692 TTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTTTTG-GT
1 TTTCGTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
* * * *
48756734 TTTCGTTCAGCTCTTATGAGCTTCCATTCAACCC-TTATGGGT
1 TTTCGTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
48756776 TT
1 TT
48756778 CTATTTAACA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.05
42 63 0.85
43 7 0.09
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.47
Consensus pattern (43 bp):
TTTCGTTCAGCTCTTTTGAGCTTCCGTTTAACCCTTTATGAGT
Found at i:48756770 original size:21 final size:21
Alignment explanation
Indices: 48756746--48756805 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
48756736 TCGTTCAGCT
*
48756746 CTTATGAGCTTCCATTCAACC
1 CTTATGAGCTTCCATTCAACA
* * * *
48756767 CTTATGGGTTTCTATTTAACA
1 CTTATGAGCTTCCATTCAACA
*
48756788 CTTATGTGCTTCCATTCA
1 CTTATGAGCTTCCATTCA
48756806 GTCTTCGGGC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.42
Consensus pattern (21 bp):
CTTATGAGCTTCCATTCAACA
Found at i:48763933 original size:21 final size:20
Alignment explanation
Indices: 48763909--48763980 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
48763899 CCTTACGAGT
48763909 TTCTGTTCAGCTCTTTTAAGC
1 TTCTGTTCAGCTCTTTT-AGC
* * * * *
48763930 TTCTGTTTAACCCTTTTTGG
1 TTCTGTTCAGCTCTTTTAGC
* *
48763950 TTTTCGTTCAGCTCTTATGAGC
1 TTCT-GTTCAGCTCTT-TTAGC
48763972 TTCTGTTCA
1 TTCTGTTCA
48763981 ACCATTATAG
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
20 4 0.11
21 27 0.75
22 5 0.14
ACGTcount: A:0.12, C:0.22, G:0.15, T:0.50
Consensus pattern (20 bp):
TTCTGTTCAGCTCTTTTAGC
Found at i:48763994 original size:42 final size:42
Alignment explanation
Indices: 48763842--48764015 Score: 156
Period size: 42 Copynumber: 4.1 Consensus size: 42
48763832 TAACTCTCAC
* * *
48763842 GAGCTTCTGTTTAACTCA-TATAAGTTTTCGTTCAGCTATTTT
1 GAGCTTCTGTTTAAC-CATTATAGGTTTTCGTTCAGCTCTTAT
* * * *
48763884 GAGCTTTTGTTTAACCCTTA-CGAG-TTTCTGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACCATTATAG-GTTTTC-GTTCAGCTCTTAT
* * * *
48763926 AAGCTTCTGTTTAACCCTTTTTGGTTTTCGTTCAGCTCTTAT
1 GAGCTTCTGTTTAACCATTATAGGTTTTCGTTCAGCTCTTAT
* * * *
48763968 GAGCTTCTGTTCAACCATTATAGGTTTTTGTTTAGCACTTAT
1 GAGCTTCTGTTTAACCATTATAGGTTTTCGTTCAGCTCTTAT
*
48764010 GTGCTT
1 GAGCTT
48764016 TCGTTCAGCC
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
41 5 0.05
42 98 0.91
43 5 0.05
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCATTATAGGTTTTCGTTCAGCTCTTAT
Found at i:48766264 original size:27 final size:27
Alignment explanation
Indices: 48766207--48766269 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
48766197 CCATCTCGAT
* * * *
48766207 GGACCATCTTGTGTTTAGTGTCCCATT
1 GGACTATCTCGTGTTTACTGTCCCATC
*
48766234 GGACTATCTCGTGTTTACTGTCCCGTC
1 GGACTATCTCGTGTTTACTGTCCCATC
48766261 GGACTATCT
1 GGACTATCT
48766270 ATGATGTCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
GGACTATCTCGTGTTTACTGTCCCATC
Found at i:48766436 original size:45 final size:45
Alignment explanation
Indices: 48766367--48766453 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
48766357 GTCTTTCAGC
* * *
48766367 TATCATGATGCCATAGCGTATTTCAGTTATGGCCTTACTCATCCT
1 TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCATCCT
* * *
48766412 TATCATGATGTCATAACATCTTTCAATTATGGTCTTACTCAT
1 TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCAT
48766454 TTTAGGCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (45 bp):
TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCATCCT
Found at i:48768629 original size:14 final size:14
Alignment explanation
Indices: 48768610--48768639 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48768600 ATTAAATTAA
48768610 ATTTTTAAAAAAAT
1 ATTTTTAAAAAAAT
*
48768624 ATTTTTAAAAATAT
1 ATTTTTAAAAAAAT
48768638 AT
1 AT
48768640 ACCAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTTAAAAAAAT
Found at i:48775531 original size:21 final size:21
Alignment explanation
Indices: 48775492--48775533 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48775482 TTTTTTTAGG
*
48775492 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
48775513 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
48775534 GTTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:48778271 original size:18 final size:18
Alignment explanation
Indices: 48778250--48778284 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48778240 ATAAAAAAAT
*
48778250 AAATATGTATATATATAA
1 AAATATGTACATATATAA
48778268 AAATATGTACATATATA
1 AAATATGTACATATATA
48778285 TAGGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATGTACATATATAA
Found at i:48778537 original size:36 final size:37
Alignment explanation
Indices: 48778497--48778578 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 37
48778487 ATATAAATAC
*
48778497 ATATATATACT-TATAAAAATAA-AAATAT-GTATATGT
1 ATATATATA-TATATAAAAA-AAGAAATATAGTATACGT
*
48778533 ATATAGATATATATAAAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAAAGAAATAT-AGTATACGT
48778571 ATATATAT
1 ATATATAT
48778579 TAAACAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 3 0.08
36 22 0.56
38 14 0.36
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (37 bp):
ATATATATATATATAAAAAAAGAAATATAGTATACGT
Found at i:48778720 original size:3 final size:3
Alignment explanation
Indices: 48778709--48778773 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
48778699 CAATAATACC
* * * *
48778709 AAT ACT AAT AAT AGT AAG GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
48778757 AAT AAT AGAT GAT AAT A
1 AAT AAT A-AT AAT AAT A
48778774 CATTAAATTA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48785353 original size:4 final size:4
Alignment explanation
Indices: 48785344--48785408 Score: 62
Period size: 4 Copynumber: 15.5 Consensus size: 4
48785334 CAACCCAATT
*
48785344 TTTA TTTA TTTA TTTA TTTA TTTTC TTTA CTTTA TTTA -TTA CTTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA -TTTA -TTTA
48785395 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
48785409 ACTTATTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
3 4 0.08
4 33 0.63
5 15 0.29
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:48786418 original size:19 final size:20
Alignment explanation
Indices: 48786378--48786423 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
48786368 TAAAAAATAT
*
48786378 AAAT-AATAAATCAAAATCA
1 AAATAAATAAATCAAAAACA
*
48786397 AAATAAATAAAT-AAAAAGA
1 AAATAAATAAATCAAAAACA
48786416 AAA-AAATA
1 AAATAAATA
48786424 TAATTTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAATAAATCAAAAACA
Found at i:48786999 original size:15 final size:15
Alignment explanation
Indices: 48786974--48787008 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
48786964 GACTCTATTT
*
48786974 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
48786988 TAATTAATATTAAGA
1 TAATTAATATTAAGA
48787003 TAATTA
1 TAATTA
48787009 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Done.