Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 39 of 54
Found at i:15638266 original size:77 final size:75
Alignment explanation
Indices: 15638105--15638281 Score: 275
Period size: 77 Copynumber: 2.3 Consensus size: 75
15638095 TAATCGTGTG
*
15638105 TGTGCGGTGTGGGAGTGCACATGACGGTGATGGTGGTGTGCGGTGTGGGAGTGCACATGATGATG
1 TGTGCGGTGTGGGAGTGCACATGATGGTGATGGTGGTGTGCGGTGTGGGAGTGCACATGATGATG
*
15638170 ATATTTGCCA
66 ATATATGCCA
* *
15638180 TTTGCGGTGTGGGAGTGCACATGATGG-GATTGTGGTGTGCGGTGTGGGAGTGCACACGATGATG
1 TGTGCGGTGTGGGAGTGCACATGATGGTGATGGTGGTGTGCGGTGTGGGAGTG--CAC-ATGATG
15638244 ATGATATATGCCA
63 ATGATATATGCCA
*
15638257 TGTGAGGTGTGGGAGTGCACATGAT
1 TGTGCGGTGTGGGAGTGCACATGAT
15638282 ATTTTCCATG
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
74 24 0.26
75 25 0.27
76 3 0.03
77 41 0.44
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.28
Consensus pattern (75 bp):
TGTGCGGTGTGGGAGTGCACATGATGGTGATGGTGGTGTGCGGTGTGGGAGTGCACATGATGATG
ATATATGCCA
Found at i:15638291 original size:33 final size:33
Alignment explanation
Indices: 15638244--15638349 Score: 113
Period size: 33 Copynumber: 3.1 Consensus size: 33
15638234 CACGATGATG
* * *
15638244 ATGATATATGCCATGTGAGGTGTGGGAGTGCAC
1 ATGATATTTACCATGTGCGGTGTGGGAGTGCAC
* *
15638277 ATGATATTTTCCATGTGCGATGTGGGAGTGCAC
1 ATGATATTTACCATGTGCGGTGTGGGAGTGCAC
* * *
15638310 ATGAGGATATTGACTATGTGCGGTGAGGGAGTGCAC
1 AT---GATATTTACCATGTGCGGTGTGGGAGTGCAC
15638346 ATGA
1 ATGA
15638350 GTTGAGTTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
33 33 0.54
36 28 0.46
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (33 bp):
ATGATATTTACCATGTGCGGTGTGGGAGTGCAC
Found at i:15643792 original size:2 final size:2
Alignment explanation
Indices: 15643785--15643875 Score: 94
Period size: 2 Copynumber: 44.5 Consensus size: 2
15643775 TTAGGAACGT
* * *
15643785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TNA TC TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * *
15643828 TA TC TGA GA -A CA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15643871 TA TA T
1 TA TA T
15643876 GCTTGGTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
1 1 0.01
2 72 0.96
3 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:15645002 original size:19 final size:20
Alignment explanation
Indices: 15644965--15645002 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15644955 TCTTCTCTTC
*
15644965 CATGCTCCCAACGCCATTTT
1 CATGCTCCCAACACCATTTT
15644985 CATGCTCCC-ACACCATTT
1 CATGCTCCCAACACCATTT
15645003 CACCTTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.21, C:0.42, G:0.08, T:0.29
Consensus pattern (20 bp):
CATGCTCCCAACACCATTTT
Found at i:15645118 original size:20 final size:21
Alignment explanation
Indices: 15645093--15645147 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
15645083 GATCAGTTGG
*
15645093 AAGAAAGGAGAAAG-GAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
15645113 AAGAAAGGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
*
15645134 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
15645148 AAGCTTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.45
21 12 0.39
22 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGAAAGGAGAAAGAAAAAGA
Found at i:15651690 original size:70 final size:70
Alignment explanation
Indices: 15651524--15651707 Score: 208
Period size: 70 Copynumber: 2.6 Consensus size: 70
15651514 GTGGTTTTGT
* * * ** * *
15651524 TGCCAAGTTTTGAGGGAGAAAGAAGCAGCTTGGCTGCTG-GTTTTTTAGGCATAACAGAGCAGCT
1 TGCCAAGTTTTTAGGGAGAAAGAAGTAGCTTGGCTGCTGATTTTTTTAGAAAGAACAAAGCAGCT
*
15651588 TTTAC
66 TTGAC
* * *
15651593 TTCCAAGTTTTTAGGGAGAAAGGAGTAGCTTGGCTGCTGATTTTTTTAGAAAGAATAAAGCAGCT
1 TGCCAAGTTTTTAGGGAGAAAGAAGTAGCTTGGCTGCTGATTTTTTTAGAAAGAACAAAGCAGCT
*
15651658 TTGGC
66 TTGAC
* * * *
15651663 TGCCAAGTTTTTAAGGTGAGAGAAGTAGCTTTAGCTGCTGATTTT
1 TGCCAAGTTTTTAGGGAGAAAGAAGTAGC-TTGGCTGCTGATTTT
15651708 GAAGGCTGAA
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
69 35 0.37
70 46 0.48
71 14 0.15
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (70 bp):
TGCCAAGTTTTTAGGGAGAAAGAAGTAGCTTGGCTGCTGATTTTTTTAGAAAGAACAAAGCAGCT
TTGAC
Found at i:15652065 original size:25 final size:24
Alignment explanation
Indices: 15652019--15652087 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
15652009 AAAGAAAAAA
* *
15652019 AAAAGAGTGGACATAGCCCAATAAG
1 AAAAGAATGGGCATAGCCCAAT-AG
* *
15652044 AAAAGAATGGGCATGGCTCAATAG
1 AAAAGAATGGGCATAGCCCAATAG
* *
15652068 -AAAGAAATGGGAAGAGCCCA
1 AAAAG-AATGGGCATAGCCCA
15652088 TGGAAAGGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 4 0.11
24 13 0.37
25 18 0.51
ACGTcount: A:0.46, C:0.14, G:0.28, T:0.12
Consensus pattern (24 bp):
AAAAGAATGGGCATAGCCCAATAG
Found at i:15676452 original size:37 final size:37
Alignment explanation
Indices: 15676402--15676519 Score: 110
Period size: 37 Copynumber: 3.1 Consensus size: 37
15676392 TGTTGGGTGG
* * * *
15676402 TGATGTTGAAGTGTGCAAGTAGAGAGTGCGCACATGA
1 TGATGATGGAGTGTGCGAGTAGAGAGTGCACACATGA
**
15676439 TGATGATGGAGTGTGCGAGTAGCGACTGGAGTGCACATGTGA
1 TGATGATGGAGTGTGCGAGTA--GA---GAGTGCACACATGA
* * *
15676481 TGATAATAGAGTGTGCGAGTAGGGAGTGCACACATGA
1 TGATGATGGAGTGTGCGAGTAGAGAGTGCACACATGA
15676518 TG
1 TG
15676520 CCGATGTATG
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
37 32 0.49
39 2 0.03
40 1 0.02
42 30 0.46
ACGTcount: A:0.28, C:0.11, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGGAGTGTGCGAGTAGAGAGTGCACACATGA
Found at i:15677190 original size:50 final size:49
Alignment explanation
Indices: 15677094--15677190 Score: 113
Period size: 50 Copynumber: 2.0 Consensus size: 49
15677084 CACAAGGGAT
* * * * *
15677094 GCTGTCACAGCCCAAATCTCAGGCTATGATTGGCGCATGGACCCAATGG
1 GCTGTCACAGCCCAAAACTCAGGCCATGATCGACACATGGACCCAATGG
** *
15677143 GCTGTCACAGCCCAAAACTTTGGGCCATGATCGACACATGGGCCCAAT
1 GCTGTCACAGCCCAAAAC-TCAGGCCATGATCGACACATGGACCCAAT
15677191 AGGCAAAGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 17 0.44
50 22 0.56
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (49 bp):
GCTGTCACAGCCCAAAACTCAGGCCATGATCGACACATGGACCCAATGG
Found at i:15677899 original size:33 final size:33
Alignment explanation
Indices: 15677816--15677954 Score: 170
Period size: 33 Copynumber: 4.1 Consensus size: 33
15677806 TCAACTCAGC
* * *
15677816 TCATGTGCACTCTCACACCGCACATAGCTAATATCC
1 TCATGTGCACTCCCACACCGCACATGGC-AA-AT-A
*
15677852 TCATGTGCACTCCCACACCGCACATGGTAAATA
1 TCATGTGCACTCCCACACCGCACATGGCAAATA
* * *
15677885 TCATGTGCATTCCCACATCGCACATGGCATATA
1 TCATGTGCACTCCCACACCGCACATGGCAAATA
* *
15677918 TCATGTGCATTCCCACACCGCACATGGCATATA
1 TCATGTGCACTCCCACACCGCACATGGCAAATA
15677951 TCAT
1 TCAT
15677955 CATCATCGTG
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
33 65 0.69
34 2 0.02
35 2 0.02
36 25 0.27
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (33 bp):
TCATGTGCACTCCCACACCGCACATGGCAAATA
Found at i:15678010 original size:77 final size:74
Alignment explanation
Indices: 15677852--15678093 Score: 223
Period size: 75 Copynumber: 3.3 Consensus size: 74
15677842 GCTAATATCC
** * * *
15677852 TCATGTGCACTCCCACACCGCACATG-GTAA-AT-ATCA---TGTGCATTCCCACATCGCACA-T
1 TCATGTGCACTCCCACACCGCACATGACAAATATCATCATCGTGTGCAATCCCACACCGCACACC
** *
15677910 GGCAT-ATA
66 ACCATCACA
* * * *
15677918 TCATGTGCATTCCCACACCGCACATGGCATATATCATCATCATCGTGTGCAATCCTACATCGCAC
1 TCATGTGCACTCCCACACCGCACATGACA-A-AT-ATCATCATCGTGTGCAATCCCACACCGCAC
*
15677983 ACCA-CATCCCCA
63 ACCACCAT-CACA
* * *
15677995 TCATGTGCACTCCCACACCGCACATGACAAATGTCATCATCGTGTTCACTCCCACACCGCACACC
1 TCATGTGCACTCCCACACCGCACATGACAAATATCATCATCGTGTGCAATCCCACACCGCACACC
15678060 ACCATCACA
66 ACCATCACA
*
15678069 GTCATGTGCACTCCCACTCCGCACA
1 -TCATGTGCACTCCCACACCGCACA
15678094 CGCATGGTTA
Statistics
Matches: 144, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
66 25 0.17
68 1 0.01
69 1 0.01
71 2 0.01
72 4 0.03
74 32 0.22
75 50 0.35
76 1 0.01
77 28 0.19
ACGTcount: A:0.27, C:0.38, G:0.13, T:0.22
Consensus pattern (74 bp):
TCATGTGCACTCCCACACCGCACATGACAAATATCATCATCGTGTGCAATCCCACACCGCACACC
ACCATCACA
Found at i:15678081 original size:36 final size:35
Alignment explanation
Indices: 15677952--15678094 Score: 117
Period size: 35 Copynumber: 3.9 Consensus size: 35
15677942 TGGCATATAT
* * * *
15677952 CATCATCATCGTGTGCAATCCTACATCGCACACCA-
1 CATCA-CATCATGTGCACTCCCACACCGCACACCAC
* **
15677987 CATCCCCATCATGTGCACTCCCACACCGCACATGAC
1 CAT-CACATCATGTGCACTCCCACACCGCACACCAC
* * *
15678023 AAATGTCATCATCGTGTTCACTCCCACACCGCACACCAC
1 -CA--TCA-CATCATGTGCACTCCCACACCGCACACCAC
*
15678062 CATCACAGTCATGTGCACTCCCACTCCGCACAC
1 CATCACA-TCATGTGCACTCCCACACCGCACAC
15678095 GCATGGTTAT
Statistics
Matches: 84, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
35 28 0.33
36 26 0.31
37 1 0.01
38 2 0.02
39 27 0.32
ACGTcount: A:0.27, C:0.43, G:0.11, T:0.20
Consensus pattern (35 bp):
CATCACATCATGTGCACTCCCACACCGCACACCAC
Found at i:15679321 original size:24 final size:24
Alignment explanation
Indices: 15679289--15679336 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
15679279 AGCTCTATTT
15679289 AATAAAGACACACG-GACACAACTA
1 AATAAAGACACACGAG-CACAACTA
15679313 AATAAAGACACACGAGCACAACTA
1 AATAAAGACACACGAGCACAACTA
15679337 TCGCTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (24 bp):
AATAAAGACACACGAGCACAACTA
Found at i:15682852 original size:20 final size:20
Alignment explanation
Indices: 15682819--15682866 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
15682809 TTTTAAATAT
15682819 TTATTTTA-AGTTATTGAT-A
1 TTATTTTACA-TTATTGATAA
*
15682838 TTAGTTTTACATTATTTATAA
1 TTA-TTTTACATTATTGATAA
15682859 TTATTTTA
1 TTATTTTA
15682867 TGTTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 17 0.68
21 5 0.20
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (20 bp):
TTATTTTACATTATTGATAA
Found at i:15684016 original size:55 final size:55
Alignment explanation
Indices: 15683943--15684144 Score: 251
Period size: 55 Copynumber: 3.7 Consensus size: 55
15683933 GGGTGATTCT
* * * * *
15683943 AGCTTTGTGCGGTATGGGAGTGCACATGAGCTGATAACCGATGGATGACGATTCC
1 AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATCGATGGATGACGATTTC
* * * * * * *
15683998 AACTTTGTACTGTGTGGGAGTGCACATGACCTGATGATCGGTGGATGAGGATTTC
1 AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATCGATGGATGACGATTTC
* * * *
15684053 AGCTATGTGCGGTGTGAGAGTGCACATGAGCTGATGATCAATTGATGATGATTTC
1 AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATCGATGGATGACGATTTC
*
15684108 AGCTATGTGCGGTATGGGAGTGCACATGAGCTGATGA
1 AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGA
15684145 GCCAGTGGTT
Statistics
Matches: 125, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 125 1.00
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (55 bp):
AGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATCGATGGATGACGATTTC
Found at i:15688842 original size:58 final size:58
Alignment explanation
Indices: 15688752--15688865 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
15688742 AGGGTTTTTC
*
15688752 ATACTCTTTTACTCCTTCACCCTAAAGACCCTTAAAAGTCTTACTCCCATACTTTCTT
1 ATACTCTTTTACTCCTTCACCCTAAAAACCCTTAAAAGTCTTACTCCCATACTTTCTT
15688810 ATACTCTTTTACTCCTTCA-CCTAAAAAACCCTTAAAAGTCTTACTCCCATACTTTC
1 ATACTCTTTTACTCCTTCACCCT-AAAAACCCTTAAAAGTCTTACTCCCATACTTTC
15688866 ACTCGCTAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
57 3 0.06
58 51 0.94
ACGTcount: A:0.28, C:0.32, G:0.03, T:0.37
Consensus pattern (58 bp):
ATACTCTTTTACTCCTTCACCCTAAAAACCCTTAAAAGTCTTACTCCCATACTTTCTT
Found at i:15689815 original size:21 final size:21
Alignment explanation
Indices: 15689771--15689812 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15689761 AGTGATGATC
*
15689771 ATATATGCTATGAAATTGTTT
1 ATATATGCTATGAAATAGTTT
*
15689792 ATATATGTTATGGAAATAGTT
1 ATATATGCTAT-GAAATAGTT
15689813 ATAAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (21 bp):
ATATATGCTATGAAATAGTTT
Found at i:15694815 original size:19 final size:19
Alignment explanation
Indices: 15694793--15694856 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
15694783 CACACCCAGC
15694793 TCATGTACATCCCCCCACA
1 TCATGTACATCCCCCCACA
* * **
15694812 TCATGCACATAGCCGACACCA
1 TCATGTACAT-CCCCCCA-CA
* *
15694833 TCGTGTGCATCCCCCCACA
1 TCATGTACATCCCCCCACA
15694852 TCATG
1 TCATG
15694857 CAGAATCAGT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 15 0.47
20 8 0.25
21 9 0.28
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.20
Consensus pattern (19 bp):
TCATGTACATCCCCCCACA
Found at i:15694844 original size:40 final size:38
Alignment explanation
Indices: 15694796--15694898 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
15694786 ACCCAGCTCA
*
15694796 TGTACATCCCCCCACATCATGCACATAGCCGACACCATCG
1 TGTACATCCCCCCACATCATGCACA-AGCAG-CACCATCG
* * * **
15694836 TGTGCATCCCCCCACATCATGCAGAATCAGTGCCATCG
1 TGTACATCCCCCCACATCATGCACAAGCAGCACCATCG
*
15694874 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCATGCACA
15694899 CGGGCACTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 28 0.52
39 3 0.06
40 23 0.43
ACGTcount: A:0.25, C:0.41, G:0.15, T:0.19
Consensus pattern (38 bp):
TGTACATCCCCCCACATCATGCACAAGCAGCACCATCG
Found at i:15698908 original size:42 final size:42
Alignment explanation
Indices: 15698784--15698900 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
15698774 CATCTCATAT
* *
15698784 GCAACGGCTTATGGGCACT-CTCACTCGCACATACCCGGGTTA
1 GCAACGGCTTATGTGCACTCCT-ACTCGCACATACCCGGGTCA
*
15698826 GCAACGGCTTATGTGCACTCCCACTCGCACATACCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATACCCGGGTCA
* *
15698868 GCAACTGCTTATGTGCATTCCTACTCGCACATA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATA
15698901 GCTGGGTCCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 67 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCTACTCGCACATACCCGGGTCA
Found at i:15701734 original size:19 final size:19
Alignment explanation
Indices: 15701710--15701747 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15701700 CCACTTGACT
*
15701710 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
15701729 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
15701748 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:15710527 original size:37 final size:37
Alignment explanation
Indices: 15710477--15710558 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
15710467 TGTTGGGTGG
*
15710477 TGATGTTGAAGTGTGCGAGTAGGGAGTGCACACAAGA
1 TGATGATGAAGTGTGCGAGTAGGGAGTGCACACAAGA
* *
15710514 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
1 TGATGATGAAGTGTGCGAGTAGGGAGTGCACACAAGA
15710551 TGATGATG
1 TGATGATG
15710559 TATGTATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.39, T:0.23
Consensus pattern (37 bp):
TGATGATGAAGTGTGCGAGTAGGGAGTGCACACAAGA
Found at i:15719709 original size:2 final size:2
Alignment explanation
Indices: 15719631--15719697 Score: 73
Period size: 2 Copynumber: 33.0 Consensus size: 2
15719621 TAGCTTTGAC
** * *
15719631 TA TA TA TA TA TA TA TA TA TA TA -A GC TA TA TA TA TG TA GTA NTG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA
15719674 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
15719698 AGCTATATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
1 1 0.02
2 51 0.93
3 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:15737580 original size:45 final size:43
Alignment explanation
Indices: 15737531--15737634 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 43
15737521 ATGAATAATG
*
15737531 ATGAGTTGATGATGACCCAGCTATGTGCGGATGTAGGGAGTGCAC
1 ATGAGTTGATGATGACCCAGCTATGTGC-GA-GTAGGAAGTGCAC
*
15737576 ATGAGCTT-ATGATGACCCCGCTATGTGCGAGTAGGAAGTGCAC
1 ATGAG-TTGATGATGACCCAGCTATGTGCGAGTAGGAAGTGCAC
*
15737619 ATGATGATGATGATGA
1 ATGA-GTTGATGATGA
15737635 TGATATGGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
43 17 0.32
44 10 0.19
45 24 0.45
46 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (43 bp):
ATGAGTTGATGATGACCCAGCTATGTGCGAGTAGGAAGTGCAC
Found at i:15744880 original size:21 final size:22
Alignment explanation
Indices: 15744847--15744887 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15744837 ACCTTTTTTT
* *
15744847 CACTTGTTTCCTTTAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
15744869 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
15744888 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.17, C:0.24, G:0.05, T:0.54
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:15747595 original size:45 final size:44
Alignment explanation
Indices: 15747546--15747776 Score: 166
Period size: 41 Copynumber: 5.1 Consensus size: 44
15747536 ATGAATAATG
* *
15747546 ATGAGCTGATGATGACCCAACTATGTGCGGATGTAGGGAGTGCAA
1 ATGAGCTGATGATGACCCAGCTATGTGC-GATGTAGGGAGTGCAC
* * * * *
15747591 ATGAGCTAATGATGACCCAGCTATGTGCAATGTAAGGACTGTAC
1 ATGAGCTGATGATGACCCAGCTATGTGCGATGTAGGGAGTGCAC
* * *
15747635 ATGAGCTGAGGACCAATGGAGGATCCTAGCCGTGTGTG-GATGTAGGGAGTGCAC
1 ATGAGCT---G----AT-GATGA-CCCAG-C-TATGTGCGATGTAGGGAGTGCAC
*
15747689 ATGAGCTGATGATGACCCCGCTATGTGCGA-GTAGGGAGTGCAC
1 ATGAGCTGATGATGACCCAGCTATGTGCGATGTAGGGAGTGCAC
**** **
15747732 ATGA--TGATGATGATATGGAAATGTGCGA-GTAGGGAGTGCAC
1 ATGAGCTGATGATGACCCAGCTATGTGCGATGTAGGGAGTGCAC
15747773 ATGA
1 ATGA
15747777 CTATGAATGA
Statistics
Matches: 149, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
41 35 0.23
43 22 0.15
44 21 0.14
45 29 0.19
46 4 0.03
47 2 0.01
51 3 0.02
52 4 0.03
53 4 0.03
54 20 0.13
55 5 0.03
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.23
Consensus pattern (44 bp):
ATGAGCTGATGATGACCCAGCTATGTGCGATGTAGGGAGTGCAC
Found at i:15747641 original size:44 final size:45
Alignment explanation
Indices: 15747546--15747641 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
15747536 ATGAATAATG
* * * *
15747546 ATGAGCTGATGATGACCCAACTATGTGCGGATGTAGGGAGTGCAA
1 ATGAGCTAATGATGACCCAACTATGTGCGAATGTAAGGACTGCAA
* * *
15747591 ATGAGCTAATGATGACCCAGCTATGTGC-AATGTAAGGACTGTAC
1 ATGAGCTAATGATGACCCAACTATGTGCGAATGTAAGGACTGCAA
15747635 ATGAGCT
1 ATGAGCT
15747642 GAGGACCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (45 bp):
ATGAGCTAATGATGACCCAACTATGTGCGAATGTAAGGACTGCAA
Found at i:15749441 original size:2 final size:2
Alignment explanation
Indices: 15749434--15749468 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15749424 TGCACACCAC
15749434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15749469 CCACCANNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15750012 original size:15 final size:16
Alignment explanation
Indices: 15749984--15750013 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15749974 AAAAATGAGT
15749984 AAACAACTCAATAATA
1 AAACAACTCAATAATA
15750000 AAACAACTC-ATAAT
1 AAACAACTCAATAAT
15750014 CCCAATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (16 bp):
AAACAACTCAATAATA
Found at i:15765890 original size:40 final size:39
Alignment explanation
Indices: 15765834--15765936 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 39
15765824 ACCCAGCTCA
* *
15765834 TGTGCATCCCCTCACATTGTGCACATAGCCGAAGT-CATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCC--AGTCCATCG
* *
15765874 TGTGCATCCCCCCACATCATG--CATAGTCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCCAGT-CCATCG
*
15765912 TGTACATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
15765937 CGGGCACTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
36 3 0.06
38 30 0.57
40 20 0.38
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.23
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACATAGCCAGTCCATCG
Found at i:15768213 original size:36 final size:36
Alignment explanation
Indices: 15768165--15768238 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
15768155 TAAATGTGTT
*
15768165 AGAAGGGAGGTGAATAGCACTTTTGGCTCTTAATAA
1 AGAAGGGAGGTGAATAACACTTTTGGCTCTTAATAA
15768201 AGAAGCGG-GGTGAATAACACTTTTGGCTCTTAATAA
1 AGAAG-GGAGGTGAATAACACTTTTGGCTCTTAATAA
15768237 AG
1 AG
15768239 TTATCTTCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (36 bp):
AGAAGGGAGGTGAATAACACTTTTGGCTCTTAATAA
Found at i:15768529 original size:32 final size:32
Alignment explanation
Indices: 15768493--15768640 Score: 113
Period size: 35 Copynumber: 4.4 Consensus size: 32
15768483 TTTATCGGGA
15768493 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * *
15768525 TCAACCACAACCTTTCACAA-TGATTTTTCACCA-GC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCA-AAGGC
**
15768560 TCAATGAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * * *
15768592 TCAACCACAACCTACAACAATGGTTTTTC-ACGAGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAG-GC
15768627 TCAACCAAAACCCA
1 TCAACCAAAACCCA
15768641 GCAACTAACT
Statistics
Matches: 90, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
31 3 0.03
32 33 0.37
33 2 0.02
34 5 0.06
35 44 0.49
36 3 0.03
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:15768544 original size:67 final size:67
Alignment explanation
Indices: 15768466--15768640 Score: 255
Period size: 67 Copynumber: 2.6 Consensus size: 67
15768456 GCTTAGCCAA
*
15768466 AACCTTTCACAATGGTTTTT-ATCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
15768530 CAC
65 CAC
* * * **
15768533 AACCTTTCACAATGATTTTTCACCAGCTCAATGAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
15768598 AC
66 AC
*
15768600 AACC-TACAACAATGGTTTTTCACGAGATCAACCAAAACCCA
1 AACCTTTC-ACAATGGTTTTTCACGAGATCAACCAAAACCCA
15768641 GCAACTAACT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
66 2 0.02
67 91 0.97
68 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:15768554 original size:35 final size:33
Alignment explanation
Indices: 15768493--15768621 Score: 106
Period size: 32 Copynumber: 3.8 Consensus size: 33
15768483 TTTATCGGGA
*
15768493 TCAACCAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCACAACCTCACAA-TGGTTTTTCAAAGGC
* *
15768525 TCAACCACAACCTTTCACAATGATTTTTCACCA-GC
1 TCAACCACAACC--TCACAATGGTTTTTCA-AAGGC
** *
15768560 TCAATGAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCACAACCTCACAA-TGGTTTTTCAAAGGC
15768592 TCAACCACAACCTACAACAATGGTTTTTCA
1 TCAACCACAACCT-C-ACAATGGTTTTTCA
15768622 CGAGATCAAC
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
31 3 0.04
32 33 0.44
34 1 0.01
35 33 0.44
36 5 0.07
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.26
Consensus pattern (33 bp):
TCAACCACAACCTCACAATGGTTTTTCAAAGGC
Found at i:15777768 original size:67 final size:66
Alignment explanation
Indices: 15777684--15777857 Score: 253
Period size: 67 Copynumber: 2.6 Consensus size: 66
15777674 TTAGCCAAAC
15777684 CCTTTCACAATGGTTTTTACCAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCAT
1 CCTTTCACAATGGTTTTT-CCAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCAT
15777749 AA
65 AA
* *
15777751 CCTTTCACAATGGTTTTTCATAGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCAT
1 CCTTTCACAATGGTTTTTC-CAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCAT
15777816 AA
65 AA
* *
15777818 CC-TACAGCAATGGTTTTT-CATGGGATCAATCAAAACCCAA
1 CCTTTCA-CAATGGTTTTTCCA--GGATCAACCAAAACCCAA
15777858 CAACTAACTT
Statistics
Matches: 97, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
65 1 0.01
66 4 0.04
67 92 0.95
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (66 bp):
CCTTTCACAATGGTTTTTCCAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCATA
A
Found at i:15777769 original size:35 final size:33
Alignment explanation
Indices: 15777688--15777837 Score: 157
Period size: 32 Copynumber: 4.5 Consensus size: 33
15777678 CCAAACCCTT
* *
15777688 TCACAATGGTTTTT-ACCAGGATCAACCAAAACC
1 TCACAATGGTTTTTCA-AAGGCTCAACCAAAACC
*
15777721 -CA-AAGTGGTTTTTCAAAGGCTCAACCATAACC
1 TCACAA-TGGTTTTTCAAAGGCTCAACCAAAACC
*
15777753 TTTCACAATGGTTTTTCATAGGCTCAACCAAAACC
1 --TCACAATGGTTTTTCAAAGGCTCAACCAAAACC
*
15777788 -CA-AAGTGGTTTTTCAAAGGCTCAACCATAACC
1 TCACAA-TGGTTTTTCAAAGGCTCAACCAAAACC
15777820 TACAGCAATGGTTTTTCA
1 T-CA-CAATGGTTTTTCA
15777838 TGGGATCAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 20
0.79 0.06 0.16
Matches are distributed among these distances:
31 4 0.04
32 51 0.52
33 1 0.01
34 2 0.02
35 37 0.37
36 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (33 bp):
TCACAATGGTTTTTCAAAGGCTCAACCAAAACC
Found at i:15789237 original size:19 final size:19
Alignment explanation
Indices: 15789213--15789280 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
15789203 ATAGTGCCCG
15789213 TGTACACGATGTGGGGGGA
1 TGTACACGATGTGGGGGGA
****
15789232 TGTACACGATG-GCACTGA
1 TGTACACGATGTGGGGGGA
*
15789250 TTGTGCACGATGTGGGGGGA
1 -TGTACACGATGTGGGGGGA
*
15789270 TGCACACGATG
1 TGTACACGATG
15789281 GTGCTGACTA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
18 3 0.08
19 30 0.83
20 3 0.08
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.22
Consensus pattern (19 bp):
TGTACACGATGTGGGGGGA
Found at i:15789259 original size:38 final size:40
Alignment explanation
Indices: 15789217--15789313 Score: 144
Period size: 38 Copynumber: 2.5 Consensus size: 40
15789207 TGCCCGTGTA
15789217 CACGATGTGGGGGGATGTACACGATGGCACTGA-T-TGTG
1 CACGATGTGGGGGGATGTACACGATGGCACTGACTATGTG
* **
15789255 CACGATGTGGGGGGATGCACACGATGGTGCTGACTATGTG
1 CACGATGTGGGGGGATGTACACGATGGCACTGACTATGTG
*
15789295 CACGATGTAGGGGGATGTA
1 CACGATGTGGGGGGATGTA
15789314 ATGAGTCGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
38 30 0.58
39 1 0.02
40 21 0.40
ACGTcount: A:0.22, C:0.15, G:0.40, T:0.23
Consensus pattern (40 bp):
CACGATGTGGGGGGATGTACACGATGGCACTGACTATGTG
Found at i:15791003 original size:15 final size:15
Alignment explanation
Indices: 15790953--15791003 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
15790943 TTTAAAGATC
*
15790953 AAAGATTTTGGTTTT
1 AAAGTTTTTGGTTTT
*
15790968 AAAG-CTTTGGATTTT
1 AAAGTTTTTGG-TTTT
15790983 AAAGTTTTTGGTTTT
1 AAAGTTTTTGGTTTT
15790998 AAAGTT
1 AAAGTT
15791004 GTTTTAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 5 0.16
15 22 0.69
16 5 0.16
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (15 bp):
AAAGTTTTTGGTTTT
Found at i:15793058 original size:20 final size:20
Alignment explanation
Indices: 15793033--15793078 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15793023 TTTTGGCCCC
* *
15793033 ATTTGACTCATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
15793053 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
15793073 ATTTGA
1 ATTTGA
15793079 GGTTAATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.41
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Found at i:15793079 original size:20 final size:20
Alignment explanation
Indices: 15793042--15793079 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15793032 CATTTGACTC
*
15793042 ATTGGAGTATGATTTGAGTA
1 ATTGAAGTATGATTTGAGTA
15793062 ATTGAAGTATGATTTGAG
1 ATTGAAGTATGATTTGAG
15793080 GTTAATACAA
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:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
ATTGAAGTATGATTTGAGTA
Found at i:15794177 original size:13 final size:13
Alignment explanation
Indices: 15794159--15794183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15794149 GGAGAAATTG
15794159 TGATTTTATAAAA
1 TGATTTTATAAAA
15794172 TGATTTTATAAA
1 TGATTTTATAAA
15794184 TTTTTTTGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:15799210 original size:25 final size:25
Alignment explanation
Indices: 15799193--15799240 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15799183 CATTTCTTTC
15799193 TAATTGGACCATGTCCATTTTTCCT
1 TAATTGGACCATGTCCATTTTTCCT
*
15799218 TTATTGGACCATGTCCATTTTTC
1 TAATTGGACCATGTCCATTTTTC
15799241 TTGCTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.46
Consensus pattern (25 bp):
TAATTGGACCATGTCCATTTTTCCT
Found at i:15799299 original size:4 final size:4
Alignment explanation
Indices: 15799275--15799317 Score: 59
Period size: 4 Copynumber: 10.0 Consensus size: 4
15799265 TCCTTGTTAT
15799275 TTTC TTTTC TTTTC TTTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC -TTTC -TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC
15799318 CCACCGTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.63
5 14 0.37
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:15799659 original size:34 final size:34
Alignment explanation
Indices: 15799621--15799713 Score: 132
Period size: 34 Copynumber: 2.7 Consensus size: 34
15799611 GTAAAATTCT
** *
15799621 GCACTTTTTGGCCTCCAAAACTAGCAAAAAAATG
1 GCACTTTTCAGCCTCCAAAACCAGCAAAAAAATG
* *
15799655 GCACTTTTCAGCCTCCGAAACCAGCAGAAAAATG
1 GCACTTTTCAGCCTCCAAAACCAGCAAAAAAATG
*
15799689 GCTCTTTTCAGCCTCCAAAACCAGC
1 GCACTTTTCAGCCTCCAAAACCAGC
15799714 CCTTAAATGC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (34 bp):
GCACTTTTCAGCCTCCAAAACCAGCAAAAAAATG
Found at i:15799728 original size:34 final size:34
Alignment explanation
Indices: 15799631--15799730 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 34
15799621 GCACTTTTTG
* * * *
15799631 GCCTCCAAAACTAGCAAAAAAATGGCACTTTTCA
1 GCCTCCAAAACCAGCACAAAAATGCCTCTTTTCA
* * *
15799665 GCCTCCGAAACCAGCAGAAAAATGGCTCTTTTCA
1 GCCTCCAAAACCAGCACAAAAATGCCTCTTTTCA
* **
15799699 GCCTCCAAAACCAGCCCTTAAATGCCTCTTTT
1 GCCTCCAAAACCAGCACAAAAATGCCTCTTTT
15799731 TTCCTTCTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (34 bp):
GCCTCCAAAACCAGCACAAAAATGCCTCTTTTCA
Found at i:15799841 original size:28 final size:29
Alignment explanation
Indices: 15799789--15799858 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
15799779 TCCTTTTATT
15799789 TTTCTTTCTCTCTCGACTTTCTCTTTGTTC
1 TTTCTTTCTCTCTCGA-TTTCTCTTTGTTC
15799819 TTTCTTTCTCTC-CG-TTTCTTCTTTGTTC
1 TTTCTTTCTCTCTCGATTTC-TCTTTGTTC
*
15799847 TTTGGTTTCTCT
1 TTT-CTTTCTCT
15799859 TTTACACTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 4 0.11
28 12 0.32
29 9 0.24
30 12 0.32
ACGTcount: A:0.01, C:0.27, G:0.09, T:0.63
Consensus pattern (29 bp):
TTTCTTTCTCTCTCGATTTCTCTTTGTTC
Found at i:15799926 original size:2 final size:2
Alignment explanation
Indices: 15799921--15799954 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15799911 CTCAAGTGTG
15799921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15799955 TTTATTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15807938 original size:30 final size:30
Alignment explanation
Indices: 15807885--15807942 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15807875 TCAATCATAT
**
15807885 ATAAGATAACTCAATAATTTTTTATCTTAG
1 ATAAGATAACTCAATAACATTTTATCTTAG
**
15807915 ATAAGATAACTTGATAACATTTTATCTT
1 ATAAGATAACTCAATAACATTTTATCTT
15807943 TGCAACAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (30 bp):
ATAAGATAACTCAATAACATTTTATCTTAG
Found at i:15809521 original size:20 final size:20
Alignment explanation
Indices: 15809496--15809537 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15809486 GCTATAAATA
* *
15809496 TCATTTTTCCAGTAGCTTCT
1 TCATTTCTCCAGCAGCTTCT
*
15809516 TCATTTCTCTAGCAGCTTCT
1 TCATTTCTCCAGCAGCTTCT
15809536 TC
1 TC
15809538 TTCTTCTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.29, G:0.10, T:0.48
Consensus pattern (20 bp):
TCATTTCTCCAGCAGCTTCT
Found at i:15810894 original size:19 final size:19
Alignment explanation
Indices: 15810870--15810910 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15810860 GGGGTTTTAG
15810870 TGAGAAAACCTC-GACCAGC
1 TGAGAAAACCTCTG-CCAGC
*
15810889 TGAGAAACCCTCTGCCAGC
1 TGAGAAAACCTCTGCCAGC
15810908 TGA
1 TGA
15810911 TAAATTGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.15
Consensus pattern (19 bp):
TGAGAAAACCTCTGCCAGC
Found at i:15820401 original size:16 final size:16
Alignment explanation
Indices: 15820380--15820412 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15820370 TTTAAACTTG
15820380 CCTCCATGTTACTCGT
1 CCTCCATGTTACTCGT
15820396 CCTCCATGTTACTCGT
1 CCTCCATGTTACTCGT
15820412 C
1 C
15820413 TTTAGATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.39, G:0.12, T:0.36
Consensus pattern (16 bp):
CCTCCATGTTACTCGT
Found at i:15829838 original size:26 final size:26
Alignment explanation
Indices: 15829782--15829840 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
15829772 GGCCAGCCAT
* *
15829782 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
15829808 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
15829834 AAGGAAA
1 AAGGAAA
15829841 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:15832344 original size:14 final size:15
Alignment explanation
Indices: 15832309--15832348 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
15832299 GGAAGGAGTA
**
15832309 AGAAAAGAAAAGGAG
1 AGAAAAGAAAACAAG
15832324 AGAAAAGAAAACAAG
1 AGAAAAGAAAACAAG
15832339 -GAAAAGAAAA
1 AGAAAAGAAAA
15832349 TGAAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAACAAG
Found at i:15835404 original size:42 final size:42
Alignment explanation
Indices: 15835345--15835468 Score: 158
Period size: 42 Copynumber: 3.0 Consensus size: 42
15835335 ATCTCATATC
* * **
15835345 CAACGGCTTATGCGCACTCCTACTCGCACATAGCTTGGTCAA
1 CAACGACTTATGTGCACTCCTACTCGCACATAGCCAGGTCAA
* * * *
15835387 CAACGACTTATTTGCACTCCCACTCCCACATAGCCAGGTCAG
1 CAACGACTTATGTGCACTCCTACTCGCACATAGCCAGGTCAA
* *
15835429 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTC
1 CAACGACTTATGTGCACTCCTACTCGCACATAGCCAGGTC
15835469 CACATCAACA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.23
Consensus pattern (42 bp):
CAACGACTTATGTGCACTCCTACTCGCACATAGCCAGGTCAA
Found at i:15836529 original size:20 final size:20
Alignment explanation
Indices: 15836504--15836567 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
15836494 TTATTTCCTT
15836504 ATCATTTTACTCATATTTTC
1 ATCATTTTACTCATATTTTC
*
15836524 ATCATTTT--T--TATTTCCTT
1 ATCATTTTACTCATATTT--TC
*
15836542 ATCATTTTACCCATATTTTC
1 ATCATTTTACTCATATTTTC
15836562 ATCATT
1 ATCATT
15836568 CATTTATGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
16 5 0.14
18 10 0.29
20 15 0.43
22 5 0.14
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.56
Consensus pattern (20 bp):
ATCATTTTACTCATATTTTC
Found at i:15836535 original size:38 final size:38
Alignment explanation
Indices: 15836491--15836567 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
15836481 ATCATCAAAA
*
15836491 TTTTTATTTCCTTATCATTTTACTCATATTTTCATCAT
1 TTTTTATTTCCTTATCATTTTACCCATATTTTCATCAT
15836529 TTTTTATTTCCTTATCATTTTACCCATATTTTCATCAT
1 TTTTTATTTCCTTATCATTTTACCCATATTTTCATCAT
15836567 T
1 T
15836568 CATTTATGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (38 bp):
TTTTTATTTCCTTATCATTTTACCCATATTTTCATCAT
Found at i:15836580 original size:38 final size:38
Alignment explanation
Indices: 15836493--15836580 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 38
15836483 CATCAAAATT
* * *
15836493 TTTATTTCCTTATCATTTTACTCATATTTTCATCATTT
1 TTTATTGCCTTATCATTTTACCCATATTTTCATCATTA
*
15836531 TTTATTTCCTTATCATTTTACCCATATTTTCATCATTCA
1 TTTATTGCCTTATCATTTTACCCATATTTTCATCATT-A
15836570 TTTA-TGCCTTA
1 TTTATTGCCTTA
15836581 GGCCTGTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 42 0.91
39 4 0.09
ACGTcount: A:0.22, C:0.20, G:0.01, T:0.57
Consensus pattern (38 bp):
TTTATTGCCTTATCATTTTACCCATATTTTCATCATTA
Found at i:15840017 original size:215 final size:213
Alignment explanation
Indices: 15839562--15840119 Score: 665
Period size: 215 Copynumber: 2.6 Consensus size: 213
15839552 CTTACTATTT
* * ** * *
15839562 TTTTCATTGTTGTAAAAGATAAATTCTTTGTTCTCTTTGTGTGGATCGCGCGAGTCTTTAAGGAA
1 TTTTCATTGTTCTAAAAAATAAATTCTTTGTTCTCTTTGCATGGATCGCGCGAGTCATTAAAGAA
* * *
15839627 TATCTTATATGTAAGAAAGAGTCGCAC-ATTTTTAAAGTTAATAATATTATTTTTTATAAAAATT
66 AATC-TATATGTAAGAAAGAGTCGCACGATTTTTAAAGTTAATAATATTAATTTTTAAAAAAATT
* * * *
15839691 AAATAAATTCATAAAAAAATAATTGTGCTTGTAAGTATCTCCCTGGAAATTTTTTGGAAGCTAGT
130 AAATAAATTAATAAAAAAATAATTGTGCTTGTAAGTATCTCCCTGCAAACTTTTTGGAAGCTAAT
** * * *
15839756 ACTTTGGCTTCTTGCTATA
195 ACTTTACCCTCGTACTATA
* * *
15839775 TTTTCCATTGTTCTGAAAAACAAATTCTTTATTCTCTTTGCATGGATCGCGCGAGTCATTAAAGA
1 TTTT-CATTGTTCTAAAAAATAAATTCTTTGTTCTCTTTGCATGGATCGCGCGAGTCATTAAAGA
* *
15839840 AAATCATATAGGTAAGAAAGAGTCGCACGTTTTTGTAAAGTTAATAATATTAATTTTTAAAAAAA
65 AAATC-TATATGTAAGAAAGAGTCGCACGATTTT-TAAAGTTAATAATATTAATTTTTAAAAAAA
* * *
15839905 TTAAATAAATTAAT-AAAAAATCATTTTGCTTGTAAGTATCTCCCTTCAAACTTTTTGGAAGCTA
128 TTAAATAAATTAATAAAAAAATAATTGTGCTTGTAAGTATCTCCCTGCAAACTTTTTGGAAGCTA
*
15839969 ATACTTTACCCTCGTATTATA
193 ATACTTTACCCTCGTACTATA
* * * *
15839990 TTCTTCATTGTTCTAAAAAATAAATTCTTTGTTCTCTTCT-CAAGGATCGCGCAAGCCGTTAAA-
1 TT-TTCATTGTTCTAAAAAATAAATTCTTTGTTCTCTT-TGCATGGATCGCGCGAGTCATTAAAG
* * * * * **
15840053 AACTATTCTATATGTAAGAAAGAGTTGCACGCTTTTTAAAATTAACAATGCTAACTTTTTAAAAA
64 AA--AATCTATATGTAAGAAAGAGTCGCACGATTTTTAAAGTTAATAATATTAA-TTTTTAAAAA
15840118 AA
126 AA
15840120 AAAAACTAAG
Statistics
Matches: 294, Mismatches: 43, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
213 4 0.01
214 92 0.31
215 151 0.51
216 47 0.16
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (213 bp):
TTTTCATTGTTCTAAAAAATAAATTCTTTGTTCTCTTTGCATGGATCGCGCGAGTCATTAAAGAA
AATCTATATGTAAGAAAGAGTCGCACGATTTTTAAAGTTAATAATATTAATTTTTAAAAAAATTA
AATAAATTAATAAAAAAATAATTGTGCTTGTAAGTATCTCCCTGCAAACTTTTTGGAAGCTAATA
CTTTACCCTCGTACTATA
Found at i:15845753 original size:255 final size:249
Alignment explanation
Indices: 15845147--15845950 Score: 777
Period size: 255 Copynumber: 3.2 Consensus size: 249
15845137 CTTATCATTA
** * * * * ** * *
15845147 TGACTTGTTACATTAAATCTCACACATTTACATCAATATTTT-AAAACTACTTATTTTACCTTTA
1 TGACTTGTTATGTTAAAT-TTATACATTTACATCAATATTTTGACAA-TGCTCGTTTCAACTTTA
* * * *
15845211 TAATTTTTTATGTTAATTCTTATAAGTTTAGGACAAGGTTTTTCAATTGTTAATTTTCACTATAA
64 TAATTTTTTACGTTAATTCTTATAAGTTTACGTCAAGGTTTTTCAATTGCTAATTTTCACTATAA
* * *** *
15845276 TTATTTTTATCTTTATTATT-TTCCTTTATAAATTAAAATTTGTAA-GTCGTTAAATA-TTTTAA
129 TTATTTTTATCCTTATTATTATTCATTTATAAATTAAAATTACAAACGTTGTT--ATACTTTT-A
* * * *
15845338 T-ACAAGAATATACATTTACATTTTTAACTTTT-AAAAAATTATATTTATTTTGACTT-AT
191 TCTCAACAATATA-ATTTAAATATTTAA-TTTTCAAAAAATTATATTTATTTTGACTTAAT
* * * * * * * * *
15845396 AGATTTGTTATATTAAATTTAATGCATTTACATCGATATTTTAACAATGTTTGTTTTAACTTTAT
1 TGACTTGTTATGTTAAATTT-ATACATTTACATCAATATTTTGACAATGCTCGTTTCAACTTTAT
* *
15845461 AATTTTTTACGTTAATTCTTATAGGTTTACATCAAGGTTTTTCAATTGCTAATTTTCACTATAAT
65 AATTTTTTACGTTAATTCTTATAAGTTTACGTCAAGGTTTTTCAATTGCTAATTTTCACTATAAT
15845526 TATTTTTATCCTTATTATTATTCATTTATAAATTAAAATCTACAAACTGTATGTTATACTTTTAT
130 TATTTTTATCCTTATTATTATTCATTTATAAATTAAAAT-TACAAAC-GT-TGTTATACTTTTAT
* * *
15845591 CTCAACAATATCAATTTAAATGTTTAATTTTCCAAAAAAATATATTTATTTTGAATTAAT
192 CTCAACAATAT-AATTTAAATATTTAATTTT-CAAAAAATTATATTTATTTTGACTTAAT
* *
15845651 TGACTTGTTATGTTAAATTTCATACATTTACGTCAATATTTTGACAATGCTCG-TTCCACTTTTA
1 TGACTTGTTATGTTAAATTT-ATACATTTACATCAATATTTTGACAATGCTCGTTTCAAC-TTTA
* * * * * * *
15845715 TTATTTTTTACATTACTTCTTACAAGTTTATGTCAAGGTTTTTCAATTGCGAATTTTCATTAT-A
64 TAATTTTTTACGTTAATTCTTATAAGTTTACGTCAAGGTTTTTCAATTGCTAATTTTCACTATAA
* ** ** *
15845779 TGTATTTTTATCCTTACTATTATTTCA-TTATAAATTAAAATTTGTAAACCGTT-AAAAACTTTT
129 T-TATTTTTATCCTTATTATTA-TTCATTTATAAATTAAAA-TTACAAA-CGTTGTTATACTTTT
* * * *
15845842 AACTCAATAACATAAATTTAAATATTTAATTTTCACAAAAATTATATTT-TTTTTACTTAAT
190 ATCTCAACAATAT-AATTTAAATATTTAATTTTCA-AAAAATTATATTTATTTTGACTTAAT
* * * *
15845903 TGACTTTTTACGTTAAATATTATAAATTTACACCAATATTTTGACAAT
1 TGACTTGTTATGTTAAAT-TTATACATTTACATCAATATTTTGACAAT
15845951 ACTTGTTTTG
Statistics
Matches: 465, Mismatches: 70, Indels: 37
0.81 0.12 0.06
Matches are distributed among these distances:
248 1 0.00
249 124 0.27
250 21 0.05
251 3 0.01
252 61 0.13
253 75 0.16
254 33 0.07
255 141 0.30
256 6 0.01
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (249 bp):
TGACTTGTTATGTTAAATTTATACATTTACATCAATATTTTGACAATGCTCGTTTCAACTTTATA
ATTTTTTACGTTAATTCTTATAAGTTTACGTCAAGGTTTTTCAATTGCTAATTTTCACTATAATT
ATTTTTATCCTTATTATTATTCATTTATAAATTAAAATTACAAACGTTGTTATACTTTTATCTCA
ACAATATAATTTAAATATTTAATTTTCAAAAAATTATATTTATTTTGACTTAAT
Found at i:15847078 original size:20 final size:21
Alignment explanation
Indices: 15847050--15847089 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15847040 CATTTTAGTG
*
15847050 TTGTTTTAATCGATT-AAACT
1 TTGTGTTAATCGATTGAAACT
15847070 TTGTGTTAATCGATTGAAAC
1 TTGTGTTAATCGATTGAAAC
15847090 CTTTTTGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
TTGTGTTAATCGATTGAAACT
Found at i:15848325 original size:35 final size:33
Alignment explanation
Indices: 15848278--15848378 Score: 114
Period size: 32 Copynumber: 3.0 Consensus size: 33
15848268 AAGTTAGTTT
* *
15848278 TTGGGTTTTGGTTGATCCCATGAAACACCATTG
1 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
* *** *
15848311 TTGTAGGTTGTGGTTGAGCTTTTGAAAAACCACT-
1 TTG--GGTTTTGGTTGAGCCCATGAAAAACCATTG
15848345 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
1 TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
15848378 T
1 T
15848379 GAAAGGTTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
32 24 0.45
33 4 0.08
34 3 0.06
35 22 0.42
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.37
Consensus pattern (33 bp):
TTGGGTTTTGGTTGAGCCCATGAAAAACCATTG
Found at i:15848405 original size:67 final size:67
Alignment explanation
Indices: 15848277--15848405 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 67
15848267 AAAGTTAGTT
* * * * * **
15848277 TTTGGGTTTTGGTTGATCCCATGAAACACCATTGTTGTAGGTTGTGGTTGAGCTTTTGAAAAACC
1 TTTGGGTTTTGGTTGAGCCCATGAAAAACCATTGTTGAAGGTTGTGGCTAAGCTTGGGAAAAACC
15848342 AC
66 AC
*
15848344 TTTGGGTTTTGGTTGAGCCCATGAAAAACCATTG-TGAAAGGTTTTGGCTAAGCTTGGGAAAA
1 TTTGGGTTTTGGTTGAGCCCATGAAAAACCATTGTTG-AAGGTTGTGGCTAAGCTTGGGAAAA
15848406 GCCATTGTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 2 0.04
67 51 0.96
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (67 bp):
TTTGGGTTTTGGTTGAGCCCATGAAAAACCATTGTTGAAGGTTGTGGCTAAGCTTGGGAAAAACC
AC
Found at i:15855829 original size:17 final size:17
Alignment explanation
Indices: 15855807--15855850 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
15855797 AAGTAAAATA
15855807 AGCACACACTAAGGAGG
1 AGCACACACTAAGGAGG
*
15855824 AGCACACACTAAGGGGG
1 AGCACACACTAAGGAGG
*
15855841 AGCACTCACT
1 AGCACACACT
15855851 TAGAGGGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.27, T:0.09
Consensus pattern (17 bp):
AGCACACACTAAGGAGG
Found at i:15855858 original size:17 final size:17
Alignment explanation
Indices: 15855807--15855859 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
15855797 AAGTAAAATA
15855807 AGCACACACTAAG-GAGG
1 AGCACACACTAAGAG-GG
*
15855824 AGCACACACTAAGGGGG
1 AGCACACACTAAGAGGG
* *
15855841 AGCACTCACTTAGAGGG
1 AGCACACACTAAGAGGG
15855858 AG
1 AG
15855860 AAATCCTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 31 0.97
18 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.32, T:0.09
Consensus pattern (17 bp):
AGCACACACTAAGAGGG
Found at i:15856963 original size:67 final size:67
Alignment explanation
Indices: 15856798--15856972 Score: 268
Period size: 66 Copynumber: 2.6 Consensus size: 67
15856788 AAGTTAGTTA
*
15856798 TTGGGTTTTGGTTGAT-CTCGTGAAAAACCATTGTTG-TAGGTTATGGTTGAGCCTTTGAAAACC
1 TTGGGTTTTGGTTGATCCTCGTGAAAAACCATTG-TGAAAGGTTATGGTTGAGCCTTTGAAAACC
15856861 ACT
65 ACT
*
15856864 TTGGGTTTTGGTTGAGCC-CGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCTCGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTG-AAAACC
15856928 ACT
65 ACT
* *
15856931 TTGGGTTTTGGTTGATCCTAGT-AAAAGCCATTGTGAAAGGTT
1 TTGGGTTTTGGTTGATCCTCGTGAAAAACCATTGTGAAAGGTT
15856973 TTGGCTAAGC
Statistics
Matches: 100, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
65 2 0.02
66 50 0.50
67 46 0.46
68 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCTCGTGAAAAACCATTGTGAAAGGTTATGGTTGAGCCTTTGAAAACCA
CT
Found at i:15856975 original size:35 final size:35
Alignment explanation
Indices: 15856801--15856976 Score: 142
Period size: 35 Copynumber: 5.2 Consensus size: 35
15856791 TTAGTTATTG
* *
15856801 GGTTTTGGTTGA-TCTCGTGAAAAACCATTGTTG-TA
1 GGTTTTGGTTGAGCCT-GTGAAAAACCATTG-TGAAA
* *
15856836 GGTTATGGTTGAGCCTTTG-AAAACCACTT-TG---
1 GGTTTTGGTTGAGCCTGTGAAAAACCA-TTGTGAAA
*
15856867 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAA
1 GGTTTTGGTTGAGCCTGTGAAAAACCATTGTGAAA
* *
15856902 GGTTATGGTTGAGCCTTTGAAAAACCACTT-TG---
1 GGTTTTGGTTGAGCCTGTGAAAAACCA-TTGTGAAA
* *
15856934 GGTTTTGGTTGATCCTAGT-AAAAGCCATTGTGAAA
1 GGTTTTGGTTGAGCCT-GTGAAAAACCATTGTGAAA
15856969 GGTTTTGG
1 GGTTTTGG
15856977 CTAAGCTTGG
Statistics
Matches: 115, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
31 20 0.17
32 32 0.28
33 3 0.03
34 7 0.06
35 49 0.43
36 4 0.03
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.35
Consensus pattern (35 bp):
GGTTTTGGTTGAGCCTGTGAAAAACCATTGTGAAA
Found at i:15859308 original size:42 final size:41
Alignment explanation
Indices: 15859253--15859411 Score: 192
Period size: 42 Copynumber: 3.8 Consensus size: 41
15859243 GTAATGATAT
* * *
15859253 TGACCTGGCTATGTGAGAGTAGGAGTGTGCATACGTCGATGA
1 TGACCTGACTATGTGCGAGTAGGAGTGCGCATACG-CGATGA
* * * * * *
15859295 TGACCCGACTATGTGCGAGTGGGAGTACGCGTAAGCCGGTGA
1 TGACCTGACTATGTGCGAGTAGGAGTGCGCATACG-CGATGA
*
15859337 TGACCTGACTATGTGCGAGTAGGAGTGTGCATACGCAGATGA
1 TGACCTGACTATGTGCGAGTAGGAGTGCGCATACGC-GATGA
*
15859379 TGACCTGGCTATGTGCGAGTAGGAGTGCGCATA
1 TGACCTGACTATGTGCGAGTAGGAGTGCGCATA
15859412 AGCTGTGCTG
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 1 0.01
42 96 0.99
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
TGACCTGACTATGTGCGAGTAGGAGTGCGCATACGCGATGA
Found at i:15859394 original size:84 final size:84
Alignment explanation
Indices: 15859253--15859414 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 84
15859243 GTAATGATAT
* *
15859253 TGACCTGGCTATGTGAGAGTAGGAGTGTGCATACGTCGATGATGACCCGACTATGTGCGAGTGGG
1 TGACCTGACTATGTGAGAGTAGGAGTGTGCATACGTCGATGATGACCCGACTATGTGCGAGTAGG
*
15859318 AGTACGCGTAAGCCGGTGA
66 AGTACGCATAAGCCGGTGA
* * *
15859337 TGACCTGACTATGTGCGAGTAGGAGTGTGCATACG-CAGATGATGACCTGGCTATGTGCGAGTAG
1 TGACCTGACTATGTGAGAGTAGGAGTGTGCATACGTC-GATGATGACCCGACTATGTGCGAGTAG
*
15859401 GAGTGCGCATAAGC
65 GAGTACGCATAAGC
15859415 TGTGCTGACC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
83 1 0.01
84 69 0.99
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (84 bp):
TGACCTGACTATGTGAGAGTAGGAGTGTGCATACGTCGATGATGACCCGACTATGTGCGAGTAGG
AGTACGCATAAGCCGGTGA
Found at i:15859447 original size:84 final size:84
Alignment explanation
Indices: 15859253--15859435 Score: 228
Period size: 84 Copynumber: 2.2 Consensus size: 84
15859243 GTAATGATAT
* * * *
15859253 TGACCTGGCTATGTGAGAGTAGGAGTGTGCATACGTCGATGATGACCCGACTATGTGCGAGTGGG
1 TGACCTGACCATGTGCGAGTAGGAGTGTGCATACGTCGATGATGACCCGACTATGTGCGAGTAGG
*
15859318 AGTACGCGTAAGCCGGTGA
66 AGTACGCATAAGCCGGTGA
* * *
15859337 TGACCTGACTATGTGCGAGTAGGAGTGTGCATACG-CAGATGATGACCTGGCTATGTGCGAGTAG
1 TGACCTGACCATGTGCGAGTAGGAGTGTGCATACGTC-GATGATGACCCGACTATGTGCGAGTAG
* * *
15859401 GAGTGCGCATAAG-CTGTGC
65 GAGTACGCATAAGCCGGTGA
15859420 TGACCT-AGCCATGTGC
1 TGACCTGA-CCATGTGC
15859436 TAGTGGGGAG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
82 1 0.01
83 18 0.21
84 68 0.78
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (84 bp):
TGACCTGACCATGTGCGAGTAGGAGTGTGCATACGTCGATGATGACCCGACTATGTGCGAGTAGG
AGTACGCATAAGCCGGTGA
Found at i:15859462 original size:84 final size:84
Alignment explanation
Indices: 15859253--15859465 Score: 200
Period size: 84 Copynumber: 2.5 Consensus size: 84
15859243 GTAATGATAT
* * * * * *
15859253 TGACCTGGCTATGTGAGAGTAGGAGTGTGCATACGTC-GATGATGACCCGACTATGTGCGAGTGG
1 TGACCTGACCATGTGCGAGTAGGAGAGTGCATAAG-CAGATGATGACCCGACTATGTGCGAGTAG
*
15859317 GAGTACGCGTAAGCCGGTGA
65 GAGTACGCATAAGCCGGTGA
* * * * *
15859337 TGACCTGACTATGTGCGAGTAGGAGTGTGCATACGCAGATGATGACCTGGCTATGTGCGAGTAGG
1 TGACCTGACCATGTGCGAGTAGGAGAGTGCATAAGCAGATGATGACCCGACTATGTGCGAGTAGG
* * *
15859402 AGTGCGCATAAG-CTGTGC
66 AGTACGCATAAGCCGGTGA
* * *
15859420 TGACCT-AGCCATGTGCTAGT-GGGGAGTGCATATGAGCTGATGATGA
1 TGACCTGA-CCATGTGCGAGTAGGAGAGTGCATA--AGCAGATGATGA
15859466 TGGGAGGGTG
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
82 11 0.10
83 21 0.19
84 78 0.71
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (84 bp):
TGACCTGACCATGTGCGAGTAGGAGAGTGCATAAGCAGATGATGACCCGACTATGTGCGAGTAGG
AGTACGCATAAGCCGGTGA
Found at i:15877137 original size:28 final size:27
Alignment explanation
Indices: 15877098--15877151 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
15877088 ATATCTTGGT
*
15877098 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTACCCCTAG
*
15877125 GGTGGTAAAATTACCATTTTACCCCTA
1 GGTGG-AAAATTACAATTTTACCCCTA
15877152 TACTCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTAG
Found at i:15886692 original size:28 final size:29
Alignment explanation
Indices: 15886651--15886710 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15886641 GTCTATGGGC
*
15886651 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15886679 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15886709 AA
1 AA
15886711 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15894872 original size:28 final size:29
Alignment explanation
Indices: 15894831--15894890 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15894821 GTCTATGGGC
*
15894831 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15894859 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15894889 AA
1 AA
15894891 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15903052 original size:28 final size:29
Alignment explanation
Indices: 15903011--15903070 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15903001 GTCTATGGGC
*
15903011 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15903039 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15903069 AA
1 AA
15903071 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15911232 original size:28 final size:29
Alignment explanation
Indices: 15911191--15911250 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15911181 GTCTATGGGC
*
15911191 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15911219 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15911249 AA
1 AA
15911251 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15925064 original size:25 final size:25
Alignment explanation
Indices: 15925036--15925092 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
15925026 ATGGACTTCT
*
15925036 CCCATTTCTTT-TTAATTGGGTCATG
1 CCCATTTCTTTCTT-ATTGGGCCATG
15925061 CCCA-TTCTTTCCTTATTGGGCCATG
1 CCCATTTCTTT-CTTATTGGGCCATG
*
15925086 TCCATTT
1 CCCATTT
15925093 ATTTGCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 6 0.22
25 17 0.63
26 4 0.15
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.46
Consensus pattern (25 bp):
CCCATTTCTTTCTTATTGGGCCATG
Found at i:15925129 original size:5 final size:5
Alignment explanation
Indices: 15925119--15925144 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15925109 ATATATATAT
15925119 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
15925145 CTCCAGCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:15925344 original size:34 final size:34
Alignment explanation
Indices: 15925306--15925420 Score: 178
Period size: 34 Copynumber: 3.4 Consensus size: 34
15925296 TACTGACTTC
15925306 AAAATCAGCAGCTAAGCTACTATATTTCTTCTCA
1 AAAATCAGCAGCTAAGCTACTATATTTCTTCTCA
15925340 AAAATCAGCAGCTAAGCTACTATATTTCTTCTCA
1 AAAATCAGCAGCTAAGCTACTATATTTCTTCTCA
* * *
15925374 AAAATCAGCAGCTAAGCTGCTCTATTT-TCCCTCCA
1 AAAATCAGCAGCTAAGCTACTATATTTCT-TCT-CA
15925409 AAAATCAGCAGC
1 AAAATCAGCAGC
15925421 CAAAACAACA
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
33 1 0.01
34 61 0.80
35 14 0.18
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (34 bp):
AAAATCAGCAGCTAAGCTACTATATTTCTTCTCA
Found at i:15925758 original size:2 final size:2
Alignment explanation
Indices: 15925751--15925782 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15925741 TTAGTCACCC
15925751 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15925783 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15931830 original size:5 final size:5
Alignment explanation
Indices: 15931820--15931860 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
15931810 TTGGCTGTAG
*
15931820 AGAAA AGAAA AGAAA AGAAA AGAAG AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
15931861 ATATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:15936424 original size:35 final size:35
Alignment explanation
Indices: 15936293--15936429 Score: 184
Period size: 35 Copynumber: 3.9 Consensus size: 35
15936283 GGGAATGCGT
* * * **
15936293 ATGATGATACTAAAACGTGCGAGTAGATAGTGCAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
* *
15936328 ATGATGATATTAAAATGTGCGAGTAAGGAGTGCAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
*
15936363 ATGATGATATTGAAATGTGCAAGTAGGGAGTGCAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
* *
15936398 ATGATGATATTGAAATGTGTGTGTAGGGAGTG
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTG
15936430 TACAAGAGCT
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (35 bp):
ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
Found at i:15940241 original size:2 final size:2
Alignment explanation
Indices: 15940226--15940274 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
15940216 TATTGGTGGT
* *
15940226 TA TA TA TG TG 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
15940268 TA TA TA T
1 TA TA TA T
15940275 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15940296 original size:2 final size:2
Alignment explanation
Indices: 15940289--15940348 Score: 85
Period size: 2 Copynumber: 32.5 Consensus size: 2
15940279 NNNNNNNNNG
15940289 TA TA TA TA TA TA TA -A 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
15940330 -A TA TA -A TA TA -A TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
15940349 TATTTTATGC
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
1 5 0.09
2 48 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15947212 original size:2 final size:2
Alignment explanation
Indices: 15947197--15947307 Score: 120
Period size: 2 Copynumber: 56.5 Consensus size: 2
15947187 TATTGGCGGT
* *
15947197 TA TA TA TG TG 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
* * * * * *
15947239 TA TA T- TA T- TA TG CA -A TA GA AA GTN TA TA TG 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
15947279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15947308 TTATGCAATA
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
1 3 0.03
2 90 0.97
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15951093 original size:28 final size:27
Alignment explanation
Indices: 15951057--15951109 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
15951047 ATATCCTGGT
*
15951057 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
15951084 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
15951110 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:15951177 original size:20 final size:20
Alignment explanation
Indices: 15951154--15951199 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
15951144 CTTCTAAACC
15951154 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
15951174 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
15951194 TCAAAT
1 TCAAAT
15951200 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:15959487 original size:22 final size:22
Alignment explanation
Indices: 15959445--15959487 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15959435 TTAAAACAAC
* *
15959445 TTTAAAACTAAAAACTTTGATT
1 TTTAAAACCAAAAACTCTGATT
*
15959467 TTTAAAACCAAAAGCTCTGAT
1 TTTAAAACCAAAAACTCTGAT
15959488 ACCAATCGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (22 bp):
TTTAAAACCAAAAACTCTGATT
Found at i:15962036 original size:28 final size:27
Alignment explanation
Indices: 15961997--15962050 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
15961987 ATATCCTGGT
*
15961997 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTACCCCTAG
*
15962024 GGTGGTAAAATTACCATTTTACCCCTA
1 GGTGG-AAAATTACAATTTTACCCCTA
15962051 TACTCCGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTAG
Found at i:15962119 original size:20 final size:20
Alignment explanation
Indices: 15962094--15962139 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
15962084 CTTCTAAACC
*
15962094 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAACAAG
*
15962114 TCAAATTATACTCCAACAAG
1 TCAAATCATACTCCAACAAG
15962134 TCAAAT
1 TCAAAT
15962140 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (20 bp):
TCAAATCATACTCCAACAAG
Found at i:15962869 original size:15 final size:14
Alignment explanation
Indices: 15962849--15962903 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
15962839 GAAAAATCAA
15962849 TTTTCTTTCATTTTC
1 TTTTCTTTC-TTTTC
*
15962864 TTTTCTTTGTTTTC
1 TTTTCTTTCTTTTC
* *
15962878 TTTTCCTTTCCTTTA
1 TTTT-CTTTCTTTTC
15962893 TTTTCTTTCTT
1 TTTTCTTTCTT
15962904 CTTTCTTCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 15 0.44
15 19 0.56
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTCTTTCTTTTC
Found at i:15962886 original size:20 final size:19
Alignment explanation
Indices: 15962854--15962900 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
15962844 ATCAATTTTC
* *
15962854 TTTCATTTTCTTTTCTTTGT
1 TTTC-TTTTCTTTCCTTTAT
15962874 TTTCTTTTCCTTTCCTTTAT
1 TTTCTTTT-CTTTCCTTTAT
15962894 TTTCTTT
1 TTTCTTT
15962901 CTTCTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTCTTTTCTTTCCTTTAT
Found at i:15963786 original size:55 final size:55
Alignment explanation
Indices: 15963724--15963933 Score: 339
Period size: 55 Copynumber: 3.8 Consensus size: 55
15963714 ATGATGACTA
* *
15963724 ATGATTCCACCTATGTGCGATGTGGGAGTGCACTTGAGCTGATGACCGGTGGGTG
1 ATGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGGTG
15963779 ATGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGGTG
1 ATGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGGTG
* * *
15963834 ATGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATAACCGGTGGATG
1 ATGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGGTG
* * * *
15963889 ATGATTCCAACTATGTGCGGTGTGGGATTGCACATGAACTGATGA
1 ATGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGA
15963934 GCTAGAGGTT
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 146 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (55 bp):
ATGATTCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATGACCGGTGGGTG
Found at i:15963790 original size:27 final size:27
Alignment explanation
Indices: 15963760--15963845 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
15963750 AGTGCACTTG
15963760 AGCTGATGACCGGTGGGTGATGATTCC
1 AGCTGATGACCGGTGGGTGATGATTCC
** * * *
15963787 AGCT-ATGTGCGATGTGG-GAGTGCACAT-G
1 AGCTGATGACCGGTG-GGTGA-TG-A-TTCC
15963815 AGCTGATGACCGGTGGGTGATGATTCC
1 AGCTGATGACCGGTGGGTGATGATTCC
15963842 AGCT
1 AGCT
15963846 ATGTGCGGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
26 10 0.24
27 13 0.31
28 9 0.21
29 10 0.24
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (27 bp):
AGCTGATGACCGGTGGGTGATGATTCC
Found at i:15963804 original size:28 final size:27
Alignment explanation
Indices: 15963772--15963859 Score: 65
Period size: 28 Copynumber: 3.2 Consensus size: 27
15963762 CTGATGACCG
15963772 GTGGGTGATGATTCCAGCTATGTGCGAT
1 GTGGGTGATGATTCCAGCTATGTGCG-T
* * * **
15963800 GTGGGAG-TGCACAT-GAGCTGATGACCG-
1 GTGGGTGATG-A-TTCCAGCT-ATGTGCGT
15963827 GTGGGTGATGATTCCAGCTATGTGCGGT
1 GTGGGTGATGATTCCAGCTATGTGC-GT
15963855 GTGGG
1 GTGGG
15963860 AGTGCACATG
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
26 5 0.12
27 14 0.33
28 18 0.42
29 6 0.14
ACGTcount: A:0.17, C:0.15, G:0.41, T:0.27
Consensus pattern (27 bp):
GTGGGTGATGATTCCAGCTATGTGCGT
Found at i:15963873 original size:28 final size:28
Alignment explanation
Indices: 15963787--15963873 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
15963777 TGATGATTCC
*
15963787 AGCTATGTGCGATGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
** * *
15963815 AGCTGATGACCGGTG-GGTGA-TG-A-TTCC
1 AGCT-ATGTGCGGTGTGG-GAGTGCACAT-G
15963842 AGCTATGTGCGGTGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
15963870 AGCT
1 AGCT
15963874 GATAACCGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
26 11 0.26
27 9 0.21
28 13 0.30
29 10 0.23
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.25
Consensus pattern (28 bp):
AGCTATGTGCGGTGTGGGAGTGCACATG
Found at i:15966368 original size:20 final size:20
Alignment explanation
Indices: 15966339--15966381 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15966329 ATTAGGTTAC
*
15966339 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATATTAA
*
15966359 TTTTATGTTATTCATATTAA
1 TTTTAAGTTATTCATATTAA
15966379 TTT
1 TTT
15966382 GGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTTAAGTTATTCATATTAA
Found at i:15967558 original size:99 final size:100
Alignment explanation
Indices: 15967387--15967584 Score: 362
Period size: 99 Copynumber: 2.0 Consensus size: 100
15967377 GAGAGGTAAG
*
15967387 AATTAGATGAAGTGTGAGGGATATTGTAATCCTAGGCTTATTTGATTTGATATTTTCTCAAGTTA
1 AATTAGATGAAGTGTGAGGGATATTGTAATCCTAGGCTTATTTGATTTGATAGTTTCTCAAGTTA
15967452 TTATTTTGA-TTTTTCTTGTTCGTTTTAATTTTAA
66 TTATTTTGATTTTTTCTTGTTCGTTTTAATTTTAA
* *
15967486 AATTAGATGAAGTGTGAGGGATATTTTAATCCTAGGCTTGTTTGATTTGATAGTTTCTCAAGTTA
1 AATTAGATGAAGTGTGAGGGATATTGTAATCCTAGGCTTATTTGATTTGATAGTTTCTCAAGTTA
15967551 TTATTTTGATTTTTTCTTGTTCGTTTTAATTTTA
66 TTATTTTGATTTTTTCTTGTTCGTTTTAATTTTA
15967585 GTTTTAATTA
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
99 71 0.75
100 24 0.25
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (100 bp):
AATTAGATGAAGTGTGAGGGATATTGTAATCCTAGGCTTATTTGATTTGATAGTTTCTCAAGTTA
TTATTTTGATTTTTTCTTGTTCGTTTTAATTTTAA
Found at i:15973313 original size:36 final size:36
Alignment explanation
Indices: 15973273--15973399 Score: 168
Period size: 36 Copynumber: 3.5 Consensus size: 36
15973263 GTGATGATGT
* * * *
15973273 GGTGTGGGAGTGTACATAATGATATTTGCCATGTTC
1 GGTGTGGGAGTGCACATGATGATATTAGCTATGTTC
* *
15973309 GGTGTGGGAGTGCACATGACGATATTAGCTATGTGC
1 GGTGTGGGAGTGCACATGATGATATTAGCTATGTTC
15973345 GGTGTGGGAGTGCACATGATGAT-TTCAGCTATGTAT-
1 GGTGTGGGAGTGCACATGATGATATT-AGCTATGT-TC
15973381 GGTGTGGGAGTGCACATGA
1 GGTGTGGGAGTGCACATGA
15973400 GTTGGTGAGC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
35 2 0.02
36 79 0.98
ACGTcount: A:0.22, C:0.12, G:0.35, T:0.31
Consensus pattern (36 bp):
GGTGTGGGAGTGCACATGATGATATTAGCTATGTTC
Found at i:15973541 original size:22 final size:22
Alignment explanation
Indices: 15973513--15973555 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15973503 CTTCCAAATT
*
15973513 GATTTTCATTGCAGCAAGAATG
1 GATTTTCATTGCAACAAGAATG
* *
15973535 GATTTTCGTTGTAACAAGAAT
1 GATTTTCATTGCAACAAGAAT
15973556 TCTTCTAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (22 bp):
GATTTTCATTGCAACAAGAATG
Found at i:15979785 original size:38 final size:39
Alignment explanation
Indices: 15979699--15979801 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 39
15979689 ACTCGGATCA
15979699 TGTACATCCCCCCACATCGTGCAC-ATAGTCGACACCATCG
1 TGTACATCCCCCCACATCGTGCACAATAGTCG--ACCATCG
* *
15979739 TGTGCATCCCCCCACATCGCGCACAATCAGT-G-CCATCG
1 TGTACATCCCCCCACATCGTGCACAAT-AGTCGACCATCG
15979777 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
15979802 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 29 0.51
40 22 0.39
41 3 0.05
42 3 0.05
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACAATAGTCGACCATCG
Found at i:15985867 original size:43 final size:43
Alignment explanation
Indices: 15985795--15986007 Score: 257
Period size: 43 Copynumber: 5.0 Consensus size: 43
15985785 TGTGATAATT
* *
15985795 ATGACCCAACTATGTGCAGTGTGGGAGTGCACATGAGTTGATG
1 ATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATG
* * * *
15985838 ATGACCCAGCCATGTGCGGTGTAGTAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATG
* * *
15985881 ATGACCTAGCTATGT-CTAGTGTAGTAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGC-AGTGTGGGAGTGCACATGAGCTGATG
* * * *
15985924 ATGGCCCAGCTATGTTCGGTGTGGGAGTGCACATGAGTTGATG
1 ATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATG
* * * *
15985967 ATAACCCAGTTATGTGCAGTGTGGGAGTGCACGTGACCTGA
1 ATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGA
15986008 GGGAGAGTTG
Statistics
Matches: 145, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 143 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATG
Found at i:15995401 original size:22 final size:22
Alignment explanation
Indices: 15995375--15995446 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
15995365 AGTACCTTTC
*
15995375 TCGCTACAGCGAGAATAGATTT
1 TCGCTGCAGCGAGAATAGATTT
*
15995397 TCGCTGTAGCGAGAATCA-ATTT
1 TCGCTGCAGCGAGAAT-AGATTT
* *
15995419 TCACTGCAGCGAGAATCGATTT
1 TCGCTGCAGCGAGAATAGATTT
15995441 TCGCTG
1 TCGCTG
15995447 TAGTGAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (22 bp):
TCGCTGCAGCGAGAATAGATTT
Found at i:15995657 original size:2 final size:2
Alignment explanation
Indices: 15995645--15995684 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15995635 ATGTTCACNT
15995645 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15995685 CAATCATCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:16000526 original size:12 final size:12
Alignment explanation
Indices: 16000509--16000545 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
16000499 TTCAATCTGA
16000509 TGAAAAAGAAAT
1 TGAAAAAGAAAT
**
16000521 TGAAAAAGATGT
1 TGAAAAAGAAAT
16000533 TGAAAAAGAAAT
1 TGAAAAAGAAAT
16000545 T
1 T
16000546 ATAGTTGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (12 bp):
TGAAAAAGAAAT
Found at i:16012220 original size:20 final size:20
Alignment explanation
Indices: 16012195--16012240 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
16012185 TTTTGACCCC
16012195 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
16012215 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
16012235 ATTTGA
1 ATTTGA
16012241 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:16012316 original size:28 final size:27
Alignment explanation
Indices: 16012285--16012337 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
16012275 TTTGGAGTAT
*
16012285 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
16012313 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
16012338 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:16012343 original size:28 final size:28
Alignment explanation
Indices: 16012285--16012343 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
16012275 TTTGGAGTAT
* *
16012285 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
16012313 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
16012341 AGG
1 AGG
16012344 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:16017443 original size:19 final size:19
Alignment explanation
Indices: 16017415--16017452 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16017405 CCATTTGACT
* *
16017415 TATTGGAGTATGATTTGAG
1 TATTGAAGTATGACTTGAG
16017434 TATTGAAGTATGACTTGAG
1 TATTGAAGTATGACTTGAG
16017453 GTTTAAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGAAGTATGACTTGAG
Found at i:16020085 original size:15 final size:14
Alignment explanation
Indices: 16020065--16020106 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
16020055 AAGAGATTTT
16020065 GATTTTAAAGCTTTA
1 GATTTTAAAG-TTTA
16020080 GATTTTAAAGTTTA
1 GATTTTAAAGTTTA
*
16020094 TAGTTTTAAAGTT
1 GA-TTTTAAAGTT
16020107 GTTTTAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.50
Consensus pattern (14 bp):
GATTTTAAAGTTTA
Found at i:16023397 original size:13 final size:13
Alignment explanation
Indices: 16023379--16023403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16023369 GGAGAAATTG
16023379 TGATTTTATAAAA
1 TGATTTTATAAAA
16023392 TGATTTTATAAA
1 TGATTTTATAAA
16023404 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:16032189 original size:19 final size:19
Alignment explanation
Indices: 16032162--16032199 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16032152 CCATTTGACT
16032162 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
16032181 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
16032200 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:16036705 original size:20 final size:20
Alignment explanation
Indices: 16036680--16036742 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
16036670 GGGAGTGCGC
16036680 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
16036700 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
16036720 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
16036739 ATGA
1 ATGA
16036743 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:16036767 original size:16 final size:16
Alignment explanation
Indices: 16036746--16036776 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16036736 ATGATGATGG
16036746 GTATATACATATATAT
1 GTATATACATATATAT
16036762 GTATATACATATATA
1 GTATATACATATATA
16036777 AATGTGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
GTATATACATATATAT
Found at i:16044017 original size:2 final size:2
Alignment explanation
Indices: 16044010--16044056 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
16044000 NNNNNNNNNN
16044010 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
*
16044052 CA TA T
1 TA TA T
16044057 GTAAATATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16046016 original size:13 final size:13
Alignment explanation
Indices: 16045998--16046022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16045988 TTCCAGAAAA
16045998 TTTATAAAATCAT
1 TTTATAAAATCAT
16046011 TTTATAAAATCA
1 TTTATAAAATCA
16046023 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:16062091 original size:35 final size:34
Alignment explanation
Indices: 16062045--16062180 Score: 134
Period size: 35 Copynumber: 4.0 Consensus size: 34
16062035 AACCACTTTG
16062045 GGTTTTGGTTGAGCTCGTGAAAAACCATTGTGAAA
1 GGTTTTGGTTGAGCTCGTGAAAAACCATTGT-AAA
* * * *
16062080 GGTTATGGTTGAGC-CTTTGAAAAACCACT-T-AG
1 GGTTTTGGTTGAGCTC-GTGAAAAACCATTGTAAA
* *
16062112 GGTTTTGGTTGATCCCGTGAAAAACCATTGCTAAA
1 GGTTTTGGTTGAGCTCGTGAAAAACCATTG-TAAA
* * * *
16062147 GGTTGTGGTTGAGTTTGTGAAAAGCCATTGTAAA
1 GGTTTTGGTTGAGCTCGTGAAAAACCATTGTAAA
16062181 AGCTTGGTGG
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
32 24 0.30
33 1 0.01
34 7 0.09
35 49 0.60
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (34 bp):
GGTTTTGGTTGAGCTCGTGAAAAACCATTGTAAA
Found at i:16062133 original size:32 final size:32
Alignment explanation
Indices: 16062014--16062138 Score: 117
Period size: 32 Copynumber: 3.8 Consensus size: 32
16062004 GGTTGTTAAA
* * * *
16062014 GGTTGTGGTTGAG-CCTTGGAAAACCACTTTG
1 GGTTTTGGTTGAGCCCGTGAAAAACCACTTAG
* * *
16062045 GGTTTTGGTTGAGCTCGTGAAAAACCATTGTGAAA
1 GGTTTTGGTTGAGCCCGTGAAAAACCACT-T--AG
* **
16062080 GGTTATGGTTGAGCCTTTGAAAAACCACTTAG
1 GGTTTTGGTTGAGCCCGTGAAAAACCACTTAG
*
16062112 GGTTTTGGTTGATCCCGTGAAAAACCA
1 GGTTTTGGTTGAGCCCGTGAAAAACCA
16062139 TTGCTAAAGG
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
31 12 0.16
32 35 0.48
33 1 0.01
34 1 0.01
35 24 0.33
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (32 bp):
GGTTTTGGTTGAGCCCGTGAAAAACCACTTAG
Found at i:16062168 original size:67 final size:67
Alignment explanation
Indices: 16062010--16062169 Score: 229
Period size: 67 Copynumber: 2.4 Consensus size: 67
16062000 GCTTGGTTGT
* *
16062010 TAAAGGTTGTGGTTGAGCCTTG-G-AAAACCACTTTGGGTTTTGGTTGAGCTCGTGAAAAACCAT
1 TAAAGGTTGTGGTTGAGCCTTGTGAAAAACCACTTAGGGTTTTGGTTGAGCCCGTGAAAAACCAT
16062073 TG
66 TG
* *
16062075 TGAAAGGTTATGGTTGAGCCTT-TGAAAAACCACTTAGGGTTTTGGTTGATCCCGTGAAAAACCA
1 T-AAAGGTTGTGGTTGAGCCTTGTGAAAAACCACTTAGGGTTTTGGTTGAGCCCGTGAAAAACCA
16062139 TTG
65 TTG
*
16062142 CTAAAGGTTGTGGTTGAG-TTTGTGAAAA
1 -TAAAGGTTGTGGTTGAGCCTTGTGAAAA
16062170 GCCATTGTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
65 1 0.01
66 22 0.26
67 60 0.71
68 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (67 bp):
TAAAGGTTGTGGTTGAGCCTTGTGAAAAACCACTTAGGGTTTTGGTTGAGCCCGTGAAAAACCAT
TG
Found at i:16067567 original size:43 final size:43
Alignment explanation
Indices: 16067519--16067616 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
16067509 TGTAATAATT
* *
16067519 ATGACCTAACTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCTAACTATGTGCAGTGTAGGAGTGCACATAAGCTGATG
* *
16067562 ATGACCTAGCCATGTGCAGTGTAGGAGTGCACATAAGCTGATG
1 ATGACCTAACTATGTGCAGTGTAGGAGTGCACATAAGCTGATG
* *
16067605 TTGACCCAACTA
1 ATGACCTAACTA
16067617 AGGGAGAGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
ATGACCTAACTATGTGCAGTGTAGGAGTGCACATAAGCTGATG
Done.