Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 84 of 240
Found at i:26587969 original size:23 final size:23
Alignment explanation
Indices: 26587939--26587985 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
26587929 AAGCTCCAGA
26587939 AGAGCTAATATATCAATATCTGG
1 AGAGCTAATATATCAATATCTGG
*
26587962 AGAGCTAATATATCAATATTTGG
1 AGAGCTAATATATCAATATCTGG
26587985 A
1 A
26587986 AGAACAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (23 bp):
AGAGCTAATATATCAATATCTGG
Found at i:26588394 original size:77 final size:77
Alignment explanation
Indices: 26588251--26588401 Score: 194
Period size: 77 Copynumber: 2.0 Consensus size: 77
26588241 AATTTAAGAG
** * * * * *
26588251 AAAGATATGACCATTGGAACATGATAAATTTATCTAAAGCTCATTACAATTGGTTGCGCCTGAAG
1 AAAGATATGACCATCAGAACATGATAAATTTATCTAAAACTCATTACAATTGGATACACCTAAAG
26588316 TTGCAATATTTT
66 TTGCAATATTTT
** * * *
26588328 AAAGATATGACCATCAGCCCATGATAAATTTATCTAAAACTCGTTACGATTGGATATACCTAAAG
1 AAAGATATGACCATCAGAACATGATAAATTTATCTAAAACTCATTACAATTGGATACACCTAAAG
26588393 TTGCAATAT
66 TTGCAATAT
26588402 CTCAATTATG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 62 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (77 bp):
AAAGATATGACCATCAGAACATGATAAATTTATCTAAAACTCATTACAATTGGATACACCTAAAG
TTGCAATATTTT
Found at i:26591700 original size:107 final size:108
Alignment explanation
Indices: 26591509--26591725 Score: 373
Period size: 107 Copynumber: 2.0 Consensus size: 108
26591499 CATCAAAAGG
*
26591509 AAGATTTTTCTAAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTGCCCTAACGTGCT
1 AAGATTTTTCTAAATAAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCT
* *
26591574 GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAGTATCCTTTT
66 GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
* *
26591617 AAGA-TTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAGTCGAGAAAACGTGCCCTAACGTGCT
1 AAGATTTTTCTAAATAAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCT
*
26591681 GGGTTTCGATTTCTCGTTCGACTAAATAGCCAAATATCCTCTT
66 GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
26591724 AA
1 AA
26591726 AACTTCAAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 99 0.96
108 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (108 bp):
AAGATTTTTCTAAATAAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCT
GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
Found at i:26592817 original size:12 final size:13
Alignment explanation
Indices: 26592796--26592836 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
26592786 ACAAGAATAG
*
26592796 AAAGAGTAAAAAT
1 AAAGAATAAAAAT
26592809 -AAGAAT-AAAAT
1 AAAGAATAAAAAT
*
26592820 AAAGAATAAAAAG
1 AAAGAATAAAAAT
26592833 AAAG
1 AAAG
26592837 TAAAGACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 5 0.21
12 11 0.46
13 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (13 bp):
AAAGAATAAAAAT
Found at i:26592840 original size:18 final size:18
Alignment explanation
Indices: 26592788--26592842 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
26592778 TATGAAATAC
*
26592788 AAGAATAGAAAG--AGTA
1 AAGAATAAAAAGAAAGTA
* * *
26592804 AA-AATAAGAATAAAATA
1 AAGAATAAAAAGAAAGTA
26592821 AAGAATAAAAAGAAAGTA
1 AAGAATAAAAAGAAAGTA
26592839 AAGA
1 AAGA
26592843 CAAAAGAATG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 6 0.21
16 2 0.07
17 5 0.17
18 16 0.55
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (18 bp):
AAGAATAAAAAGAAAGTA
Found at i:26597265 original size:19 final size:21
Alignment explanation
Indices: 26597209--26597267 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 21
26597199 TGTTATAATT
26597209 TTTTTAAAAATATAAATTTTAGAA
1 TTTTTAAAAAT-T--ATTTTAGAA
*
26597233 TTTTTATAAA-TATTTT-GAA
1 TTTTTAAAAATTATTTTAGAA
26597252 -TTTTAAAAATTATTTT
1 TTTTTAAAAATTATTTT
26597268 TATTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 8 0.25
19 9 0.28
20 5 0.16
22 1 0.03
24 9 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTTAAAAATTATTTTAGAA
Found at i:26597274 original size:19 final size:18
Alignment explanation
Indices: 26597232--26597274 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
26597222 AAATTTTAGA
*
26597232 ATTTTTATAAATATTTTG
1 ATTTTTAAAAATATTTTG
* *
26597250 AATTTTAAAAATTATTTTT
1 ATTTTTAAAAA-TATTTTG
26597269 ATTTTT
1 ATTTTT
26597275 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:26597722 original size:51 final size:52
Alignment explanation
Indices: 26597667--26597771 Score: 158
Period size: 51 Copynumber: 2.0 Consensus size: 52
26597657 TTCATTTTCA
*
26597667 TTTTGGAGAAAACCAAAATCATTTCCAAATAATTC-CATTTCTCCATTTTTG
1 TTTTGGAGAAAACCAAAATCATTTCCAAATAATTCTCATTTCTCCATTTGTG
* ** *
26597718 TTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTCGTTTCTCCATTTGTG
1 TTTTGGAGAAAACCAAAATCATTTCCAAATAATTCTCATTTCTCCATTTGTG
26597770 TT
1 TT
26597772 CATTTGATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 32 0.67
52 16 0.33
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (52 bp):
TTTTGGAGAAAACCAAAATCATTTCCAAATAATTCTCATTTCTCCATTTGTG
Found at i:26604941 original size:50 final size:50
Alignment explanation
Indices: 26604866--26604966 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
26604856 ACCTTATTGT
* **
26604866 AATCAATGTCAAATAGAAGAAGAGTAATTCTCTATTGATTCTACTTGTGC
1 AATCAATGTCAAATAGAAGAAGAGTAATTCTATACAGATTCTACTTGTGC
* *
26604916 AATCAATGTCAAATAGAAGAAGAGTAGTTCTATACAGATTTTACTTGTGC
1 AATCAATGTCAAATAGAAGAAGAGTAATTCTATACAGATTCTACTTGTGC
26604966 A
1 A
26604967 GCCTGGTCCG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (50 bp):
AATCAATGTCAAATAGAAGAAGAGTAATTCTATACAGATTCTACTTGTGC
Found at i:26619067 original size:40 final size:40
Alignment explanation
Indices: 26619002--26619138 Score: 186
Period size: 40 Copynumber: 3.4 Consensus size: 40
26618992 GCTTGTATAG
*
26619002 GTTTGCACTTTGGTGCTTC-AGATTGCACAATTGTGCTTTT
1 GTTTGCACTTTGGTGCCTCTA-ATTGCACAATTGTGCTTTT
* * *
26619042 GTTTGCACTTTTGTGCCTCTAATTGCACAATCGTGCTTCT
1 GTTTGCACTTTGGTGCCTCTAATTGCACAATTGTGCTTTT
* ** *
26619082 GTTTGCACTTCGGTGCCTCTGGTTGCACAATTGTGCCTTT
1 GTTTGCACTTTGGTGCCTCTAATTGCACAATTGTGCTTTT
26619122 GTTTGCACTTTGGTGCC
1 GTTTGCACTTTGGTGCC
26619139 CCTATTAGCA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 83 0.99
41 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (40 bp):
GTTTGCACTTTGGTGCCTCTAATTGCACAATTGTGCTTTT
Found at i:26619087 original size:20 final size:20
Alignment explanation
Indices: 26619014--26619129 Score: 85
Period size: 20 Copynumber: 5.8 Consensus size: 20
26619004 TTGCACTTTG
* *
26619014 GTGCTTCAGATTGCACAATT
1 GTGCTTCTGTTTGCACAATT
* **
26619034 GTGCTTTTGTTTGCACTTTT
1 GTGCTTCTGTTTGCACAATT
* ** *
26619054 GTGCCTCTAATTGCACAATC
1 GTGCTTCTGTTTGCACAATT
26619074 GTGCTTCTGTTTGCAC--TT
1 GTGCTTCTGTTTGCACAATT
* *
26619092 CGGTGCCTCTGGTTGCACAATT
1 --GTGCTTCTGTTTGCACAATT
26619114 GTGCCTT-TGTTTGCAC
1 GTG-CTTCTGTTTGCAC
26619130 TTTGGTGCCC
Statistics
Matches: 71, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
18 1 0.01
20 66 0.93
21 2 0.03
22 2 0.03
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.41
Consensus pattern (20 bp):
GTGCTTCTGTTTGCACAATT
Found at i:26619137 original size:20 final size:20
Alignment explanation
Indices: 26619002--26619138 Score: 75
Period size: 20 Copynumber: 6.8 Consensus size: 20
26618992 GCTTGTATAG
*
26619002 GTTTGCACTTTGGTG-CTTCA
1 GTTTGCACTTTGGTGCCTT-T
* * *
26619022 GATTGCACAATT-GTGCTTTT
1 GTTTGCAC-TTTGGTGCCTTT
* *
26619042 GTTTGCACTTTTGTGCCTCT
1 GTTTGCACTTTGGTGCCTTT
** ** *
26619062 AATTGCACAATCGTG-CTTCT
1 GTTTGCACTTTGGTGCCTT-T
* *
26619082 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTTGGTGCCTTT
* *
26619102 GGTTGCACAATT-GTGCCTTT
1 GTTTGCAC-TTTGGTGCCTTT
26619122 GTTTGCACTTTGGTGCC
1 GTTTGCACTTTGGTGCC
26619139 CCTATTAGCA
Statistics
Matches: 83, Mismatches: 27, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
19 6 0.07
20 70 0.84
21 7 0.08
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (20 bp):
GTTTGCACTTTGGTGCCTTT
Found at i:26622360 original size:28 final size:28
Alignment explanation
Indices: 26622328--26622425 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
26622318 GAATTTACCA
26622328 TATATGTGGAAGTCCACAAGGACAATCT
1 TATATGTGGAAGTCCACAAGGACAATCT
*
26622356 TATATGTGGAAGTCCACAAGGA-AATTCA
1 TATATGTGGAAGTCCACAAGGACAA-TCT
* * * *
26622384 TGTATGTGGAAGTCCGC-AGGACTATAT
1 TATATGTGGAAGTCCACAAGGACAATCT
* *
26622411 TGTATGTAGAAGTCC
1 TATATGTGGAAGTCC
26622426 GTCAAGGCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 21 0.34
28 40 0.66
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (28 bp):
TATATGTGGAAGTCCACAAGGACAATCT
Found at i:26627026 original size:17 final size:17
Alignment explanation
Indices: 26626997--26627029 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26626987 TTTTTTCTAG
26626997 AAATGTTGAAAAAAATT
1 AAATGTTGAAAAAAATT
26627014 AAAT-TTGAGAAAAAAT
1 AAATGTTGA-AAAAAAT
26627030 AACATTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (17 bp):
AAATGTTGAAAAAAATT
Found at i:26629966 original size:20 final size:20
Alignment explanation
Indices: 26629941--26629990 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
26629931 TGGCTTAAAA
26629941 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
26629961 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
26629978 GTGGTAGTGGATT
1 TTGGTAGTGGATT
26629991 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:26634605 original size:20 final size:20
Alignment explanation
Indices: 26634580--26634629 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
26634570 TGGCTTAAAA
26634580 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
26634600 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
26634617 GTGGTAGTGGATT
1 TTGGTAGTGGATT
26634630 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:26637345 original size:41 final size:41
Alignment explanation
Indices: 26637288--26637370 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
26637278 TCTCTCTCTT
26637288 GATTTCATTAGTATATATTTATTCTTTCCAAGCTTGTTGTC
1 GATTTCATTAGTATATATTTATTCTTTCCAAGCTTGTTGTC
26637329 GATTTCATTAGTATATATTTATTCTTTCCAAGCTTGTTGTC
1 GATTTCATTAGTATATATTTATTCTTTCCAAGCTTGTTGTC
26637370 G
1 G
26637371 TTTACGATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (41 bp):
GATTTCATTAGTATATATTTATTCTTTCCAAGCTTGTTGTC
Found at i:26637767 original size:33 final size:34
Alignment explanation
Indices: 26637714--26637872 Score: 94
Period size: 33 Copynumber: 4.7 Consensus size: 34
26637704 GTTTATATGT
*
26637714 AAGACCATAGTTGGGCTATGACA-TTTTAATGAA
1 AAGACCATAGCTGGGCTATGACACTTTTAATGAA
* * * * *
26637747 AAGACCATAACTGGGTTATGACACTTTGAACG-T
1 AAGACCATAGCTGGGCTATGACACTTTTAATGAA
* * * * *
26637780 AAGACCATTGTTGGACTATGGCAGTATTT-AT-AA
1 AAGACCATAGCTGGGCTATGACACT-TTTAATGAA
* * * * *
26637813 GTAAGACCATAGCTGGGATATGGCA-TTCTGATGAT
1 --AAGACCATAGCTGGGCTATGACACTTTTAATGAA
* *
26637848 AAGACCATAACTGGGTTATGACACT
1 AAGACCATAGCTGGGCTATGACACT
26637873 ACGAAAGTAA
Statistics
Matches: 93, Mismatches: 25, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
33 61 0.66
34 12 0.13
35 20 0.22
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (34 bp):
AAGACCATAGCTGGGCTATGACACTTTTAATGAA
Found at i:26637863 original size:101 final size:101
Alignment explanation
Indices: 26637705--26637888 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 101
26637695 CATGACAATG
* * * *
26637705 TTTATATGTAAGACCATAGTTGGGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACA
1 TTTATAAGTAAGACCATAGCTGGGATATGACATTCTAATGAAAAGACCATAACTGGGTTATGACA
** *
26637770 CTTTGAACGTAAGACCATTGTTGGACTATGGCAGTA
66 CTACGAAAGTAAGACCATTGTTGGACTATGGCAGTA
* * *
26637806 TTTATAAGTAAGACCATAGCTGGGATATGGCATTCTGATGATAAGACCATAACTGGGTTATGACA
1 TTTATAAGTAAGACCATAGCTGGGATATGACATTCTAATGAAAAGACCATAACTGGGTTATGACA
26637871 CTACGAAAGTAAGACCAT
66 CTACGAAAGTAAGACCAT
26637889 GGATGGGCCA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (101 bp):
TTTATAAGTAAGACCATAGCTGGGATATGACATTCTAATGAAAAGACCATAACTGGGTTATGACA
CTACGAAAGTAAGACCATTGTTGGACTATGGCAGTA
Found at i:26640199 original size:3 final size:3
Alignment explanation
Indices: 26640191--26640239 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
26640181 GAAAGAAAGG
26640191 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
26640239 A
1 A
26640240 AGAAAGAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:26640852 original size:104 final size:101
Alignment explanation
Indices: 26640732--26641009 Score: 409
Period size: 102 Copynumber: 2.7 Consensus size: 101
26640722 TTATAGTTAT
* * *
26640732 TTATTTTGTTAATAATTTATGGGATTAGG-T-TACAAATTGTTAGTGTTTAGTATTGAGTTTTGT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGT-TTGTGTTTTGT
26640795 GATTTTTTAGTAATGTAATTTTAAAAAAAAATAATTTT-TAG
63 GATTTTTTAGTAAT-TAATTTT--AAAAAAATAATTTTATAG
26640836 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTT-TGTGTTTTGTGA
*
26640901 TTTTTTAGTAATTTATTTTAAAAAAATAATTTTATAG
65 TTTTTTAGTAATTAATTTTAAAAAAATAATTTTATAG
* *
26640938 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTCAGTGTTTAGTTTAGTGTTTTGTAA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTT-GTGTTTTGTGA
26641003 TTTTTTA
65 TTTTTTA
26641010 ATGTAATTTT
Statistics
Matches: 163, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
101 15 0.09
102 78 0.48
103 8 0.05
104 62 0.38
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.54
Consensus pattern (101 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTGTGTTTTGTGAT
TTTTTAGTAATTAATTTTAAAAAAATAATTTTATAG
Found at i:26640885 original size:50 final size:50
Alignment explanation
Indices: 26640831--26640989 Score: 142
Period size: 50 Copynumber: 3.1 Consensus size: 50
26640821 AAAAATAATT
26640831 TTTAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTG
1 TTTAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTG
* * * * ** * **** * *
26640881 TTTAGTTATGTGTT-TT-GTGATTTTTTAGTAATTTATTTTAAAAAAATAATT
1 TTTAGTTAT-T-TTGTTAGTAATTTATGATTAGGTTA-TATAAATTGTTAGTG
*
26640932 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTCAGTG
1 TT-TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTG
26640983 TTTAGTT
1 TTTAGTT
26640990 TAGTGTTTTG
Statistics
Matches: 76, Mismatches: 27, Indels: 12
0.66 0.23 0.10
Matches are distributed among these distances:
50 29 0.38
51 25 0.33
52 22 0.29
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.55
Consensus pattern (50 bp):
TTTAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTG
Found at i:26641387 original size:3 final size:3
Alignment explanation
Indices: 26641379--26641409 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26641369 GTTCTTTGAT
26641379 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
26641410 CGCATATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:26643118 original size:33 final size:33
Alignment explanation
Indices: 26643081--26643165 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
26643071 CATTCTTGCT
*
26643081 CATATCCACCTCAGTACTCCGCTCCTTCCGACC
1 CATATCCACCTCAGTACTCCACTCCTTCCGACC
* *
26643114 CATATCCACCACCA-TACTCCACTCCTTCCGGCC
1 CATATCCACC-TCAGTACTCCACTCCTTCCGACC
* * *
26643147 CGTATCCACTTCTGTACTC
1 CATATCCACCTCAGTACTC
26643166 TATTCCTCCC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 1 0.02
33 40 0.93
34 2 0.05
ACGTcount: A:0.19, C:0.47, G:0.08, T:0.26
Consensus pattern (33 bp):
CATATCCACCTCAGTACTCCACTCCTTCCGACC
Found at i:26643531 original size:80 final size:75
Alignment explanation
Indices: 26643368--26643674 Score: 416
Period size: 75 Copynumber: 4.0 Consensus size: 75
26643358 AATAACTTCA
* * * *
26643368 TATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGTTTTTTTGCAATTTAAATA
1 TATTTATGTAATGACTTTTTCGCCATTTCAGTTATCAATTTTATGGTTTTTTTGCAATTTAAATA
**
26643433 GTTGACTTTG
66 GTAAACTTTG
* * *
26643443 TATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTTTATGGTTGTTTTTTTTTGCAATTT
1 TATTTATGTAATGACTTTTTCGCCATTTCAGTTATCAATTTTAT-G--G--TTTTTTTGCAATTT
26643508 AAATAGTAAACTTTG
61 AAATAGTAAACTTTG
*
26643523 TATTTATGTAATGACTTTTTCGCTATTTCAGTTATCAATTTTATGGTTTTTTTGCAATTTAAATA
1 TATTTATGTAATGACTTTTTCGCCATTTCAGTTATCAATTTTATGGTTTTTTTGCAATTTAAATA
26643588 GTAAACTTTG
66 GTAAACTTTG
* * *
26643598 TATTTATGTAATGACATTTTCACTATTTCAGTTATCAATTTTATGGTTTTTTTTTGCAATTTAAA
1 TATTTATGTAATGACTTTTTCGCCATTTCAGTTATCAATTTTATGG--TTTTTTTGCAATTTAAA
*
26643663 TAAATAAACTTT
64 T-AGTAAACTTT
26643675 AGACTAACTT
Statistics
Matches: 214, Mismatches: 10, Indels: 13
0.90 0.04 0.05
Matches are distributed among these distances:
75 116 0.54
76 1 0.00
77 19 0.09
78 10 0.05
79 1 0.00
80 67 0.31
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (75 bp):
TATTTATGTAATGACTTTTTCGCCATTTCAGTTATCAATTTTATGGTTTTTTTGCAATTTAAATA
GTAAACTTTG
Found at i:26643643 original size:155 final size:153
Alignment explanation
Indices: 26643355--26643674 Score: 455
Period size: 155 Copynumber: 2.1 Consensus size: 153
26643345 GTTTTGTAAT
** * * *
26643355 ATAAAT-AACTTCATATTTATGTAATGAATTTTTTGCCATTTTATTTATCAATTTTATGGTTTTT
1 ATAAATAAACTTTGTATTTATGTAATGAATTTTTCGCCATTTCAGTTATCAATTTTATGGTTTTT
** * ** * *
26643419 TTGCAATTTAAATAGTTGACTTTGTATTTATGTAATGACTTTTTTGCCATTTTATTTATCAATTT
66 TTGCAATTTAAATAGTAAACTTTGTATTTATGTAATGACATTTTCACCATTTCAGTTATCAATTT
26643484 TATGGTTGTTTTTTTTTGCAATTTAA
131 TAT-G--GTTTTTTTTTGCAATTTAA
* * *
26643510 AT-AGTAAACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAGTTATCAATTTTATGGTTTTT
1 ATAAATAAACTTTGTATTTATGTAATGAATTTTTCGCCATTTCAGTTATCAATTTTATGGTTTTT
*
26643574 TTGCAATTTAAATAGTAAACTTTGTATTTATGTAATGACATTTTCACTATTTCAGTTATCAATTT
66 TTGCAATTTAAATAGTAAACTTTGTATTTATGTAATGACATTTTCACCATTTCAGTTATCAATTT
26643639 TATGGTTTTTTTTTGCAATTTAA
131 TATGGTTTTTTTTTGCAATTTAA
26643662 ATAAATAAACTTT
1 ATAAATAAACTTT
26643675 AGACTAACTT
Statistics
Matches: 146, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
152 21 0.14
153 9 0.06
154 3 0.02
155 113 0.77
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (153 bp):
ATAAATAAACTTTGTATTTATGTAATGAATTTTTCGCCATTTCAGTTATCAATTTTATGGTTTTT
TTGCAATTTAAATAGTAAACTTTGTATTTATGTAATGACATTTTCACCATTTCAGTTATCAATTT
TATGGTTTTTTTTTGCAATTTAA
Found at i:26646486 original size:21 final size:20
Alignment explanation
Indices: 26646457--26646502 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
26646447 CGAAATGCAA
26646457 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
26646478 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
26646498 T-AACC
1 TCAACC
26646503 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:26648589 original size:27 final size:27
Alignment explanation
Indices: 26648537--26648590 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
26648527 ATCAAGCACT
* *
26648537 AGTCGCGCCTGTCAGATAGACTCCACC
1 AGTCGCGCCTCTCAGATAGACGCCACC
*
26648564 AGTCGCGCCTACT-AGATAGGCGCCACC
1 AGTCGCGCCT-CTCAGATAGACGCCACC
26648591 TACCCCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.17
Consensus pattern (27 bp):
AGTCGCGCCTCTCAGATAGACGCCACC
Found at i:26651557 original size:21 final size:21
Alignment explanation
Indices: 26651509--26651560 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
26651499 CATATTTTCT
*
26651509 TGTTGCCTCTGCTGCCCTTAC
1 TGTTGCCTCTGCTGCCCTCAC
* * *
26651530 TGCTGCCTCTGCTTCCCTCGC
1 TGTTGCCTCTGCTGCCCTCAC
26651551 TGTTGCCTCT
1 TGTTGCCTCT
26651561 ACTTTAAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.40, G:0.19, T:0.38
Consensus pattern (21 bp):
TGTTGCCTCTGCTGCCCTCAC
Found at i:26653745 original size:23 final size:23
Alignment explanation
Indices: 26653690--26653734 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
26653680 ATAAAAAAAC
26653690 AAGTTAGGGAATTGGGGAAAATT
1 AAGTTAGGGAATTGGGGAAAATT
*
26653713 AAGTTAGGGATTTGGGGAAAAT
1 AAGTTAGGGAATTGGGGAAAAT
26653735 GATTTAGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.27
Consensus pattern (23 bp):
AAGTTAGGGAATTGGGGAAAATT
Found at i:26653867 original size:41 final size:42
Alignment explanation
Indices: 26653805--26653915 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 42
26653795 AAAAATATTC
*
26653805 GCGGTGTTTATGGGTAAAATGCCGCTATTG-CTTT-A-CTTTT
1 GCGGCGTTTATGGG-AAAATGCCGCTATTGTCTTTAACCTTTT
* *
26653845 AGCGGCGTTTATGAGAAGAATGCCGCTATTGTTTTTAACCTTTT
1 -GCGGCGTTTATGGGAA-AATGCCGCTATTGTCTTTAACCTTTT
* *
26653889 GCGGCATTTATGGGAAAAACGCCGCTA
1 GCGGCGTTTATGGG-AAAATGCCGCTA
26653916 ACACTGCTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
40 2 0.03
41 25 0.42
42 3 0.05
43 22 0.37
44 7 0.12
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (42 bp):
GCGGCGTTTATGGGAAAATGCCGCTATTGTCTTTAACCTTTT
Found at i:26653913 original size:43 final size:41
Alignment explanation
Indices: 26653811--26653915 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 41
26653801 ATTCGCGGTG
* *
26653811 TTTATGGGTAAAATGCCGCTATTGCTTTACTTTTAGCGGCG
1 TTTATGGGAAAAATGCCGCTATTGCTTTACTTTTAGCGGCA
* * *
26653852 TTTATGAGAAGAATGCCGCTATTGTTTTTAACCTTTT-GCGGCA
1 TTTATGGGAAAAATGCCGCTATTG-CTTT-A-CTTTTAGCGGCA
*
26653895 TTTATGGGAAAAACGCCGCTA
1 TTTATGGGAAAAATGCCGCTA
26653916 ACACTGCTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 21 0.40
42 3 0.06
43 24 0.45
44 5 0.09
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTATGGGAAAAATGCCGCTATTGCTTTACTTTTAGCGGCA
Found at i:26661152 original size:29 final size:28
Alignment explanation
Indices: 26661116--26661193 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
26661106 TCATGAGATT
26661116 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
26661146 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
26661173 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
26661194 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:26669124 original size:29 final size:28
Alignment explanation
Indices: 26669088--26669165 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
26669078 TCATGAGATT
26669088 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
26669118 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
26669145 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
26669166 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:26687878 original size:18 final size:18
Alignment explanation
Indices: 26687855--26687889 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
26687845 GTGAGAATAA
26687855 GGAACCCAAAATCATTCG
1 GGAACCCAAAATCATTCG
26687873 GGAACCCAAAATCATTC
1 GGAACCCAAAATCATTC
26687890 TGATATTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.29, G:0.14, T:0.17
Consensus pattern (18 bp):
GGAACCCAAAATCATTCG
Found at i:26688321 original size:22 final size:23
Alignment explanation
Indices: 26688278--26688321 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
26688268 CATCATTTAA
* *
26688278 TATAATTTAATTTAATACCACTT
1 TATAATTTAATTCAATAACACTT
*
26688301 TATAA-TTAATTCACTAACACT
1 TATAATTTAATTCAATAACACT
26688322 CAACATTCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATTTAATTCAATAACACTT
Found at i:26696626 original size:27 final size:27
Alignment explanation
Indices: 26696580--26696672 Score: 127
Period size: 27 Copynumber: 3.4 Consensus size: 27
26696570 TCCAAAATAC
26696580 GCCACAAAGGC-AGTTCATACAGAGTAT
1 GCCACAAAGGCTA-TTCATACAGAGTAT
*
26696607 GCTACAAAGGCTATAT-ATACAGAGTAT
1 GCCACAAAGGCTAT-TCATACAGAGTAT
* *
26696634 GCCACAAGGGCTATTCATTCAGAGTAT
1 GCCACAAAGGCTATTCATACAGAGTAT
26696661 GCCACAAAGGCT
1 GCCACAAAGGCT
26696673 GATAGGATGC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 55 0.95
28 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
GCCACAAAGGCTATTCATACAGAGTAT
Found at i:26701818 original size:51 final size:51
Alignment explanation
Indices: 26701763--26701941 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
26701753 TGATATATAA
*
26701763 TGGTCACATGTGTAGTACTATGTGCAAGCTACTATGTGTACCGGAAGGCCT
1 TGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAAGGCCT
* * * * *
26701814 TGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAG-CT
1 TGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAAGGCCT
* * * * * * * **
26701864 TGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGACAA
1 TGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAAGGCCT
*
26701915 TGGTCACATG-GATGGTACTATGTGCAA
1 TGGTCACATGTG-TAGTACTATGTGCAA
26701942 ACCACCAAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
50 45 0.42
51 62 0.58
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAAGGCCT
Found at i:26701888 original size:50 final size:51
Alignment explanation
Indices: 26701766--26701901 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 51
26701756 TATATAATGG
* * * * * * *
26701766 TCACATGTGTAGTACTATGTGCAAGCTACTATGTGTACCGGAAGGCCTTGG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGCCTTGA
26701817 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAG-CTTGA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGCCTTGA
26701867 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTG
26701902 TATCGGATGA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 39 0.50
51 39 0.50
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGGAAAGCCTTGA
Found at i:26704485 original size:18 final size:18
Alignment explanation
Indices: 26704452--26704504 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
26704442 ATTCACCTAA
*
26704452 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
26704471 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
26704489 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
26704505 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:26704616 original size:9 final size:9
Alignment explanation
Indices: 26704602--26704641 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
26704592 GTAGTGATTC
26704602 AATTCGGTT
1 AATTCGGTT
*
26704611 AATTCGGGT
1 AATTCGGTT
*
26704620 AATTCGTTT
1 AATTCGGTT
*
26704629 AATTCAGTT
1 AATTCGGTT
26704638 AATT
1 AATT
26704642 TTTAACCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:26704818 original size:12 final size:12
Alignment explanation
Indices: 26704801--26704825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26704791 TGTTATTTCG
26704801 GGTCGGTTAACC
1 GGTCGGTTAACC
26704813 GGTCGGTTAACC
1 GGTCGGTTAACC
26704825 G
1 G
26704826 AATGAACACC
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:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:26713879 original size:12 final size:12
Alignment explanation
Indices: 26713862--26713914 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
26713852 TCGAACAAGC
26713862 ATGTATATATAT
1 ATGTATATATAT
26713874 ATGTATATATAT
1 ATGTATATATAT
*
26713886 AATGCTAGAATATAT
1 -ATG-TA-TATATAT
**
26713901 ATACATATATAT
1 ATGTATATATAT
26713913 AT
1 AT
26713915 AAAAGTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 20 0.59
13 4 0.12
14 4 0.12
15 6 0.18
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:26714627 original size:41 final size:41
Alignment explanation
Indices: 26714578--26714686 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 41
26714568 GACTTTAAGT
*
26714578 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
**
26714619 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
26714660 CTAGCAGGCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
26714687 TTTTAATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 57 0.92
42 5 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:26715772 original size:21 final size:21
Alignment explanation
Indices: 26715706--26715765 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
26715696 ACGCCCAAGT
*
26715706 CGTGTGGCTT-CACACATGGC
1 CGTGTGGCTTCCACACATGCC
* *
26715726 CGTGCGGCTTCCTCACATGCC
1 CGTGTGGCTTCCACACATGCC
*
26715747 CGTGTGGCTTCCCCACATG
1 CGTGTGGCTTCCACACATG
26715766 TCTGTGTAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.12, C:0.37, G:0.27, T:0.25
Consensus pattern (21 bp):
CGTGTGGCTTCCACACATGCC
Found at i:26721546 original size:25 final size:25
Alignment explanation
Indices: 26721518--26721571 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
26721508 CTATTATACA
*
26721518 GCTCAGATAAGCTTCCCGTTACATG
1 GCTCACATAAGCTTCCCGTTACATG
* *
26721543 GCTCACATGAGCTTCCCGTTATATG
1 GCTCACATAAGCTTCCCGTTACATG
26721568 GCTC
1 GCTC
26721572 GAGAGAGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (25 bp):
GCTCACATAAGCTTCCCGTTACATG
Found at i:26726135 original size:2 final size:2
Alignment explanation
Indices: 26726130--26726173 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
26726120 TTATTATGCG
*
26726130 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26726172 TC
1 TC
26726174 ACTCACTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:26726178 original size:10 final size:10
Alignment explanation
Indices: 26726130--26726181 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
26726120 TTATTATGCG
*
26726130 TCTCTCTCTC
1 TCTCTCTCAC
*
26726140 TCTCTCTCTC
1 TCTCTCTCAC
*
26726150 TCTCTCTCTC
1 TCTCTCTCAC
26726160 TCTCTCTCAC
1 TCTCTCTCAC
*
26726170 TCTCACTCAC
1 TCTCTCTCAC
26726180 TC
1 TC
26726182 ACACGCACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.06, C:0.50, G:0.00, T:0.44
Consensus pattern (10 bp):
TCTCTCTCAC
Found at i:26727900 original size:19 final size:20
Alignment explanation
Indices: 26727876--26727921 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
26727866 GTCTGGTATA
*
26727876 GATACC-GTTTTAGTATATC
1 GATACCTGTTTTAGGATATC
*
26727895 GATACCTTTTTTAGGATATC
1 GATACCTGTTTTAGGATATC
26727915 GATACCT
1 GATACCT
26727922 TAATGCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
GATACCTGTTTTAGGATATC
Found at i:26727908 original size:20 final size:20
Alignment explanation
Indices: 26727883--26727922 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
26727873 ATAGATACCG
*
26727883 TTTTAGTATATCGATACCTT
1 TTTTAGGATATCGATACCTT
26727903 TTTTAGGATATCGATACCTT
1 TTTTAGGATATCGATACCTT
26727923 AATGCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTTAGGATATCGATACCTT
Found at i:26731108 original size:27 final size:27
Alignment explanation
Indices: 26731067--26731143 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
26731057 TAACTAACCG
* *
26731067 TAATACCCCTGTAGGGTAAAATGACCA
1 TAATGCCCCTATAGGGTAAAATGACCA
* *
26731094 TAATGCCCCTATAGGGTAAACTGACCG
1 TAATGCCCCTATAGGGTAAAATGACCA
* *
26731121 TAAAGCCCCTA-AAGGT-AAATGAC
1 TAATGCCCCTATAGGGTAAAATGAC
26731144 TATTTTGCCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 6 0.14
26 4 0.09
27 33 0.77
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (27 bp):
TAATGCCCCTATAGGGTAAAATGACCA
Found at i:26731246 original size:27 final size:27
Alignment explanation
Indices: 26731216--26731456 Score: 225
Period size: 27 Copynumber: 9.0 Consensus size: 27
26731206 AAAATTACCA
* *
26731216 TAATGCCCCTATAAGGTAAACTAACTG
1 TAATGCCCCTGTAAGGTAAACTGACTG
* *
26731243 TAATACCCCTGTAAGGTAAAATGACTG
1 TAATGCCCCTGTAAGGTAAACTGACTG
* *
26731270 TAATGCCCCTGTAGGGTAAACTAACTG
1 TAATGCCCCTGTAAGGTAAACTGACTG
* * * **
26731297 TAATGCCTCTATAGGGTAAACTGACCA
1 TAATGCCCCTGTAAGGTAAACTGACTG
* *
26731324 TAATGCCCCTGTAGGGAAAACTGA-TCG
1 TAATGCCCCTGTAAGGTAAACTGACT-G
* * *
26731351 TAATACCCCTGTAAGGTAAAATGATTG
1 TAATGCCCCTGTAAGGTAAACTGACTG
* * *
26731378 TAACGCCCCTGTGAGGTAAACTGACCG
1 TAATGCCCCTGTAAGGTAAACTGACTG
* * * *
26731405 TAATACCCCTGTAGGGTAAAATGATTG
1 TAATGCCCCTGTAAGGTAAACTGACTG
* * *
26731432 TAATACCCCTGGAGGGTAAA-TGACT
1 TAATGCCCCTGTAAGGTAAACTGACT
26731457 ATTTTGCACC
Statistics
Matches: 175, Mismatches: 37, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
26 4 0.02
27 170 0.97
28 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
TAATGCCCCTGTAAGGTAAACTGACTG
Found at i:26731288 original size:54 final size:54
Alignment explanation
Indices: 26731216--26731451 Score: 269
Period size: 54 Copynumber: 4.4 Consensus size: 54
26731206 AAAATTACCA
* *
26731216 TAATGCCCCTATAAGGTAAACTAACTGTAATACCCCTGTAAGGTAAAATGACTG
1 TAATGCCCCTGTAGGGTAAACTAACTGTAATACCCCTGTAAGGTAAAATGACTG
* * * * * **
26731270 TAATGCCCCTGTAGGGTAAACTAACTGTAATGCCTCTATAGGGTAAACTGACCA
1 TAATGCCCCTGTAGGGTAAACTAACTGTAATACCCCTGTAAGGTAAAATGACTG
* * *
26731324 TAATGCCCCTGTAGGGAAAACTGA-TCGTAATACCCCTGTAAGGTAAAATGATTG
1 TAATGCCCCTGTAGGGTAAACTAACT-GTAATACCCCTGTAAGGTAAAATGACTG
* * * * *
26731378 TAACGCCCCTGT-GAGGTAAACTGACCGTAATACCCCTGTAGGGTAAAATGATTG
1 TAATGCCCCTGTAG-GGTAAACTAACTGTAATACCCCTGTAAGGTAAAATGACTG
* *
26731432 TAATACCCCTGGAGGGTAAA
1 TAATGCCCCTGTAGGGTAAA
26731452 TGACTATTTT
Statistics
Matches: 152, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.01
54 149 0.98
55 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (54 bp):
TAATGCCCCTGTAGGGTAAACTAACTGTAATACCCCTGTAAGGTAAAATGACTG
Found at i:26731335 original size:81 final size:80
Alignment explanation
Indices: 26731200--26731451 Score: 274
Period size: 81 Copynumber: 3.1 Consensus size: 80
26731190 GATTGATTTT
* ** * * *
26731200 TAGGGTAAAATTACCATAATGCCCCTATAAGGTAAACTAACTGTAATACCCCTGTAAGGTAAAAT
1 TAGGGTAAAATAACTGTAATGCCCCTATAGGGTAAACTGACCGTAATACCCCTGTAAGGTAAAAT
*
26731265 GACTGTAATGCCCCTG
66 GA-TGTAATACCCCTG
* * * * *
26731281 TAGGGTAAACTAACTGTAATGCCTCTATAGGGTAAACTGACCATAATGCCCCTGT-AGGGAAAAC
1 TAGGGTAAAATAACTGTAATGCCCCTATAGGGTAAACTGACCGTAATACCCCTGTAAGGTAAAA-
26731345 TGATCGTAATACCCCTG
65 TGAT-GTAATACCCCTG
* * * * * *
26731362 TAAGGTAAAATGATTGTAACGCCCCTGT-GAGGTAAACTGACCGTAATACCCCTGTAGGGTAAAA
1 TAGGGTAAAATAACTGTAATGCCCCTATAG-GGTAAACTGACCGTAATACCCCTGTAAGGTAAAA
26731426 TGATTGTAATACCCCTG
65 TGA-TGTAATACCCCTG
*
26731443 GAGGGTAAA
1 TAGGGTAAA
26731452 TGACTATTTT
Statistics
Matches: 141, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
80 9 0.06
81 125 0.89
82 7 0.05
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGGGTAAAATAACTGTAATGCCCCTATAGGGTAAACTGACCGTAATACCCCTGTAAGGTAAAAT
GATGTAATACCCCTG
Found at i:26731551 original size:24 final size:24
Alignment explanation
Indices: 26731499--26731557 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
26731489 TCTATGGTTA
*
26731499 AATGACTAATTTGTCTGTGTTTGG
1 AATGACTGATTTGTCTGTGTTTGG
* *
26731523 TATGATTGATTTGTCTGTGATTT-G
1 AATGACTGATTTGTCTGTG-TTTGG
26731547 AATGACTGATT
1 AATGACTGATT
26731558 CTGAGCATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGTTTGG
Found at i:26731682 original size:27 final size:27
Alignment explanation
Indices: 26731628--26731683 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
26731618 AAGTACTGTT
*
26731628 CTAGTGGCTCTGCCACAATCACTGTTA
1 CTAGTGGCTCTGCCACAATCACTATTA
26731655 CTAGTGGCT-TGGCCACATAT-ACTATTA
1 CTAGTGGCTCT-GCCACA-ATCACTATTA
26731682 CT
1 CT
26731684 GGCAGCTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 1 0.04
27 23 0.88
28 2 0.08
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (27 bp):
CTAGTGGCTCTGCCACAATCACTATTA
Found at i:26731778 original size:32 final size:31
Alignment explanation
Indices: 26731729--26731874 Score: 157
Period size: 32 Copynumber: 4.5 Consensus size: 31
26731719 GCTACGATGC
26731729 TACTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGAT-GCTTTGTGCCAATCATATTACCGT
* * *
26731761 TACTAATAGCTTTGTGCCGATCATATCACCGT
1 TACTGAT-GCTTTGTGCCAATCATATTACCGT
* * *
26731793 TACTGATGGGTTTGTGTCGATCATATTACCGT
1 TACTGAT-GCTTTGTGCCAATCATATTACCGT
* * *
26731825 TACTGATGAATTTGTACGAATCATATTACCGT
1 TACTGATG-CTTTGTGCCAATCATATTACCGT
*
26731857 TACTGATGGTTGTGTGCC
1 TACTGATGCTT-TGTGCC
26731875 GATTATATCA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
31 3 0.03
32 92 0.97
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (31 bp):
TACTGATGCTTTGTGCCAATCATATTACCGT
Found at i:26731839 original size:64 final size:64
Alignment explanation
Indices: 26731729--26731882 Score: 188
Period size: 64 Copynumber: 2.4 Consensus size: 64
26731719 GCTACGATGC
* * * *
26731729 TACTGATGGCTTTGTGCCAATCATATTACCGTTACTAATAGCTTTGTGCCG-ATCATATCACCGT
1 TACTGATGGGTTTGTGCCGATCATATTACCGTTACTAATAGATTTGT-ACGAATCATATCACCGT
* * *
26731793 TACTGATGGGTTTGTGTCGATCATATTACCGTTACTGAT-GAATTTGTACGAATCATATTACCGT
1 TACTGATGGGTTTGTGCCGATCATATTACCGTTACTAATAG-ATTTGTACGAATCATATCACCGT
*
26731857 TACTGAT-GGTTGTGTGCCGATTATAT
1 TACTGATGGGTT-TGTGCCGATCATAT
26731883 CACTACTACT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 7 0.09
64 71 0.91
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (64 bp):
TACTGATGGGTTTGTGCCGATCATATTACCGTTACTAATAGATTTGTACGAATCATATCACCGT
Found at i:26731903 original size:96 final size:96
Alignment explanation
Indices: 26731729--26731904 Score: 219
Period size: 96 Copynumber: 1.8 Consensus size: 96
26731719 GCTACGATGC
** * **
26731729 TACTGATGGCTTTGTGCCAATCATATTACCGTTACTAATAGCTTTGTGCCGATCATATCACCGTT
1 TACTGATGAATTTGTACCAATCATATTACCGTTACTAATAGCTTTGTGCCGATCATATCACCACT
* * *
26731794 ACTGATGGGTTTGTGTCGATCATATTACCGT
66 ACTAAAGGCTTTGTGTCGATCATATTACCGT
* * * * *
26731825 TACTGATGAATTTGTACGAATCATATTACCGTTACTGAT-GGTTGTGTGCCGATTATATCACTAC
1 TACTGATGAATTTGTACCAATCATATTACCGTTACTAATAGCTT-TGTGCCGATCATATCACCAC
26731889 TACTAAAGGCTTTGTG
65 TACTAAAGGCTTTGTG
26731905 CCAATGATAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
95 3 0.05
96 63 0.95
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (96 bp):
TACTGATGAATTTGTACCAATCATATTACCGTTACTAATAGCTTTGTGCCGATCATATCACCACT
ACTAAAGGCTTTGTGTCGATCATATTACCGT
Found at i:26731953 original size:22 final size:22
Alignment explanation
Indices: 26731923--26731969 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
26731913 ATTATTGTAC
* * *
26731923 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTTATAGCCATCCTGT
*
26731945 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
26731967 TTA
1 TTA
26731970 CGGCTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:26737101 original size:13 final size:13
Alignment explanation
Indices: 26737079--26737108 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
26737069 ATTGGACTAA
26737079 TGGC-TTATCGAT
1 TGGCATTATCGAT
26737091 TGGCATTATCGAT
1 TGGCATTATCGAT
26737104 TGGCA
1 TGGCA
26737109 GTATGAGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (13 bp):
TGGCATTATCGAT
Found at i:26737513 original size:9 final size:9
Alignment explanation
Indices: 26737496--26737532 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26737486 TGAGTTTTCG
26737496 AATTCGAAT
1 AATTCGAAT
*
26737505 AACTCGAAT
1 AATTCGAAT
*
26737514 AATTCAAAT
1 AATTCGAAT
26737523 AATTCGAAT
1 AATTCGAAT
26737532 A
1 A
26737533 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26737931 original size:20 final size:21
Alignment explanation
Indices: 26737897--26737935 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
26737887 TCCCTCAAAC
26737897 TTTTATTCCCAAAACTTTTTA
1 TTTTATTCCCAAAACTTTTTA
*
26737918 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
26737936 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:26745933 original size:23 final size:24
Alignment explanation
Indices: 26745901--26745971 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 24
26745891 ACGAGGTGTC
26745901 TGATAAGACACATAAAGTGTCTGA
1 TGATAAGACACATAAAGTGTCTGA
*
26745925 -GATAGGACACATAAAGTGTCTGA
1 TGATAAGACACATAAAGTGTCTGA
*
26745948 TG-TACA-ACACATAAAGTGCCTGA
1 TGATA-AGACACATAAAGTGTCTGA
26745971 T
1 T
26745972 CGGCAAAGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 41 0.98
24 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (24 bp):
TGATAAGACACATAAAGTGTCTGA
Found at i:26746298 original size:16 final size:17
Alignment explanation
Indices: 26746277--26746308 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26746267 TAATAATAAT
26746277 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
26746293 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
26746309 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:26746998 original size:17 final size:17
Alignment explanation
Indices: 26746976--26747010 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
26746966 GAATGGTCTC
*
26746976 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
26746993 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
26747010 T
1 T
26747011 ATTTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:26748952 original size:10 final size:10
Alignment explanation
Indices: 26748937--26748963 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26748927 ATTTTCCATC
26748937 GTACCATGCT
1 GTACCATGCT
26748947 GTACCATGCT
1 GTACCATGCT
26748957 GTACCAT
1 GTACCAT
26748964 TTTCCTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (10 bp):
GTACCATGCT
Found at i:26754506 original size:21 final size:20
Alignment explanation
Indices: 26754460--26754539 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
26754450 CTTGATCAGT
* *
26754460 ATACGACACATAAGTGCCTG
1 ATACGACACAAAAGTGTCTG
* * *
26754480 AAACGACACACGAGGTGTCTG
1 ATACGACACA-AAAGTGTCTG
26754501 ATACGACACATAAAGTGTCTAAG
1 ATACGACACA-AAAGTGTCT--G
26754524 ATACGACACATAAAGT
1 ATACGACACA-AAAGT
26754540 TCCTGATGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 9 0.18
21 23 0.47
23 17 0.35
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ATACGACACAAAAGTGTCTG
Found at i:26754530 original size:23 final size:21
Alignment explanation
Indices: 26754460--26754569 Score: 98
Period size: 23 Copynumber: 5.1 Consensus size: 21
26754450 CTTGATCAGT
*
26754460 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGTCTG
* ** *
26754480 AAACGACACACGAGGTGTCTG
1 ATACGACACATAAAGTGTCTG
26754501 ATACGACACATAAAGTGTCTAAG
1 ATACGACACATAAAGTGTCT--G
26754524 ATACGACACATAAAGT-TCCTG
1 ATACGACACATAAAGTGT-CTG
* *
26754545 ATGTACGACAAATAAAGTGCCTG
1 A--TACGACACATAAAGTGTCTG
26754568 AT
1 AT
26754570 CGGCAAAGCC
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
20 9 0.12
21 26 0.36
22 1 0.01
23 37 0.51
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (21 bp):
ATACGACACATAAAGTGTCTG
Found at i:26754895 original size:16 final size:17
Alignment explanation
Indices: 26754874--26754905 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26754864 TAATAATAAT
26754874 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
26754890 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
26754906 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:26755591 original size:17 final size:17
Alignment explanation
Indices: 26755569--26755603 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
26755559 GAATGGTCTC
*
26755569 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
26755586 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
26755603 T
1 T
26755604 ATTTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:26755799 original size:28 final size:29
Alignment explanation
Indices: 26755776--26755846 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
26755766 TATTTATTTC
26755776 ATATAA-TATAATATCTTAACTTTAATTA
1 ATATAATTATAATATCTTAACTTTAATTA
* *
26755804 ATATAATTTATAATATTTTAA--TTAAATA
1 ATATAA-TTATAATATCTTAACTTTAATTA
**
26755832 ATATTTTTATAATAT
1 ATATAATTATAATAT
26755847 AAATCAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 9 0.24
28 16 0.43
30 12 0.32
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATAATTATAATATCTTAACTTTAATTA
Found at i:26755818 original size:30 final size:27
Alignment explanation
Indices: 26755782--26755846 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
26755772 TTTCATATAA
*
26755782 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
26755812 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
26755839 TATAATAT
1 TATAATAT
26755847 AAATCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:26755848 original size:16 final size:17
Alignment explanation
Indices: 26755812--26755848 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
26755802 TAATATAATT
26755812 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
26755829 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
26755844 TATAA
1 TATAA
26755849 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:26759164 original size:36 final size:37
Alignment explanation
Indices: 26759117--26759189 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
26759107 GTCTCCAAAT
* * *
26759117 TCACATTTCAATTC-AATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTCCACTTTCAA
*
26759153 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTCCACTTTCAA
26759190 GTCAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.44
Consensus pattern (37 bp):
TCACAATTCAATTCAAAATTCACTTTTCCACTTTCAA
Found at i:26759917 original size:13 final size:13
Alignment explanation
Indices: 26759895--26759934 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
26759885 ACTCTAGTTT
26759895 TTCCTTTCTTTTC
1 TTCCTTTCTTTTC
*
26759908 TTCTTTTC-TTTC
1 TTCCTTTCTTTTC
26759920 TTTCCTTTCTTTTC
1 -TTCCTTTCTTTTC
26759934 T
1 T
26759935 CCCTGTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.17
13 15 0.65
14 4 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCCTTTCTTTTC
Found at i:26759922 original size:9 final size:9
Alignment explanation
Indices: 26759893--26759934 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
26759883 AAACTCTAGT
26759893 TTTTCCTTTC
1 TTTT-CTTTC
26759903 TTTTC-TTC
1 TTTTCTTTC
26759911 TTTTCTTTC
1 TTTTCTTTC
*
26759920 TTTCCTTTC
1 TTTTCTTTC
26759929 TTTTCT
1 TTTTCT
26759935 CCCTGTTTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 8 0.28
9 17 0.59
10 4 0.14
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:26760142 original size:24 final size:24
Alignment explanation
Indices: 26760097--26760142 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
26760087 TACACATTTA
* * *
26760097 ATTATTATTACCATACACTTGTCT
1 ATTATCATCACCATACAATTGTCT
*
26760121 ATTATCATCACCATCCAATTGT
1 ATTATCATCACCATACAATTGT
26760143 TCTTAATTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTATCATCACCATACAATTGTCT
Found at i:26760322 original size:31 final size:28
Alignment explanation
Indices: 26760286--26760372 Score: 75
Period size: 31 Copynumber: 3.0 Consensus size: 28
26760276 TACATTTGTC
*
26760286 ATAATTCAATTTATCTATTAATATAATATTT
1 ATAATT-AATTTATATATTAATAT-A-ATTT
* * * *
26760317 ATAATTTAATTAATTTAATAATATACTTT
1 ATAA-TTAATTTATATATTAATATAATTT
* *
26760346 ATAATTAATTTATATATTTATAAAATT
1 ATAATTAATTTATATATTAATATAATT
26760373 AATTCATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 17 0.38
29 7 0.16
30 1 0.02
31 18 0.40
32 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAATTAATTTATATATTAATATAATTT
Found at i:26760365 original size:19 final size:19
Alignment explanation
Indices: 26760286--26760368 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 19
26760276 TACATTTGTC
*
26760286 ATAATTCAATTTATCTATTAAT
1 ATAATT-AATTTATATATT--T
26760308 ATAA-T-ATTTATA-ATTT
1 ATAATTAATTTATATATTT
*
26760324 AATTAATTTAA-TAATATACTTT
1 -A-TAA-TTAATTTATATA-TTT
26760346 ATAATTAATTTATATATTT
1 ATAATTAATTTATATATTT
26760365 ATAA
1 ATAA
26760369 AATTAATTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 19
0.69 0.04 0.26
Matches are distributed among these distances:
16 1 0.02
17 1 0.02
18 6 0.12
19 17 0.34
20 14 0.28
21 4 0.08
22 7 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATTAATTTATATATTT
Found at i:26768470 original size:184 final size:184
Alignment explanation
Indices: 26768161--26768529 Score: 702
Period size: 184 Copynumber: 2.0 Consensus size: 184
26768151 TGATCAACCG
*
26768161 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACATGACCAGATT
1 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
26768226 ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCATTCAACAAAACAAAG
66 ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCATTCAACAAAACAAAG
26768291 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
131 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
26768345 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
1 GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
* **
26768410 ACTCTTTTCTTCGAACATTTGGTTTCTTATGTTTTCCTAACCTTAGACTGTTCAACAAAACAAAG
66 ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCATTCAACAAAACAAAG
26768475 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
131 TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
26768529 G
1 G
26768530 GGTACAAGTG
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 181 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (184 bp):
GTTACCCTCTTATCCCTTAGGTAACATCTCACCATATGAGAAACTATTTCACACACGACCAGATT
ACTCTTTTCTTCGAACATTTGGTTGCTTATGTTTTCCTAACCTTAGACCATTCAACAAAACAAAG
TTGCAGTTTTGGTCAACTTCATATGTATTTTTAGGCTACTCCCCTTTACACAAA
Found at i:26773036 original size:11 final size:11
Alignment explanation
Indices: 26773014--26773064 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
26773004 AACTAATCCT
26773014 CTCTCAAATTTC
1 CTCTC-AATTTC
26773026 CTCTCAATTTC
1 CTCTCAATTTC
* * *
26773037 CTTTCAGTTTT
1 CTCTCAATTTC
26773048 CTCTCAATTTC
1 CTCTCAATTTC
26773059 CT-TCAA
1 CTCTCAA
26773065 AAATTCTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 4 0.12
11 24 0.73
12 5 0.15
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:26774967 original size:18 final size:18
Alignment explanation
Indices: 26774940--26774977 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
26774930 GAGGTGCGTT
*
26774940 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
26774958 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
26774976 TC
1 TC
26774978 ATTTTCCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:26775259 original size:21 final size:21
Alignment explanation
Indices: 26775235--26775283 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
26775225 AAATGCCGTA
* *
26775235 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCGCCG
*
26775256 CCGGAGGAACAACAACCGCCG
1 CCGGAAGAACAACAACCGCCG
26775277 CCGGAAG
1 CCGGAAG
26775284 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.37, G:0.29, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCGCCG
Found at i:26775439 original size:44 final size:44
Alignment explanation
Indices: 26775391--26775474 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
26775381 TGTACAAATA
26775391 TTTTAAATATTTTGATATTATTTGATGTAATAAAATAGAAATTT
1 TTTTAAATATTTTGATATTATTTGATGTAATAAAATAGAAATTT
**
26775435 TTTTAGTTATTTTGATATTATTTGATGTAATAAAATAGAA
1 TTTTAAATATTTTGATATTATTTGATGTAATAAAATAGAA
26775475 GTTTATTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (44 bp):
TTTTAAATATTTTGATATTATTTGATGTAATAAAATAGAAATTT
Found at i:26775486 original size:25 final size:25
Alignment explanation
Indices: 26775452--26775499 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
26775442 TATTTTGATA
26775452 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
26775477 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
26775500 ATTTTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:26775516 original size:9 final size:9
Alignment explanation
Indices: 26775502--26775534 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
26775492 AAATAGAAAT
26775502 TTTTGAATA
1 TTTTGAATA
26775511 TTTTGAATAA
1 TTTTGAAT-A
26775521 TTTT-AATA
1 TTTTGAATA
26775529 TTTTGA
1 TTTTGA
26775535 TCTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (9 bp):
TTTTGAATA
Found at i:26775595 original size:23 final size:23
Alignment explanation
Indices: 26775569--26776376 Score: 726
Period size: 23 Copynumber: 36.2 Consensus size: 23
26775559 ATTAATACCC
26775569 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26775592 TTAAATTAAAAACTCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26775615 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
* *
26775636 TTAACATAAAAATCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26775659 TTAAATTAAAAACCCTAA-CT-C
1 TTAACTTAAAAACCCTAACCTAA
*
26775680 TTAGCTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26775703 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
26775724 TTAACTTAAAAACACTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26775747 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
26775768 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26775791 TTAAATTAAAAAACCCTAACC--C
1 TTAACTT-AAAAACCCTAACCTAA
26775813 TTAACTT-AAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
26775835 TTTAA-TTAAAAACCCTAAACC--C
1 -TTAACTTAAAAACCCT-AACCTAA
26775857 TTAACTT-AAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
26775879 TTAAATTAAAAACCCTAACC--A
1 TTAACTTAAAAACCCTAACCTAA
26775900 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
26775923 TTAAGTTTAAAAACCCTAACCTAA
1 TTAA-CTTAAAAACCCTAACCTAA
*
26775947 TTAAATTAAAAACCCTAACCTAACCTAA
1 TTAACTTAAAAA--C---CCTAACCTAA
* *
26775975 TTAAATTAAAAACCCTAAACC--C
1 TTAACTTAAAAACCCT-AACCTAA
* *
26775997 TTAACTTAAAATCCCTAATCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26776020 TTTAA-TTAAAAACCCTAAACT-T
1 -TTAACTTAAAAACCCTAACCTAA
* *
26776042 TTAACTTAAAAACCCTAAACT-C
1 TTAACTTAAAAACCCTAACCTAA
26776064 TTAACTTAAAAA-CCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
26776086 TTAAATTTAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* * *
26776109 TTAAATTTAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
*
26776130 TTAACTTAAAAACCCTAACCTTA
1 TTAACTTAAAAACCCTAACCTAA
* *
26776153 TTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
26776174 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
26776197 TTTAA-TT-AAAACCCTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
**
26776220 --AACTTAAAAACCCTAACC-CG
1 TTAACTTAAAAACCCTAACCTAA
***
26776240 TT-ACTTAAAAACCCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
** *
26776262 TTAACTTAAAAACTTTAACC--C
1 TTAACTTAAAAACCCTAACCTAA
* * *
26776283 TTAACTTAAGAACACTAAACC--C
1 TTAACTTAAAAACCCT-AACCTAA
26776305 TTAACTTAAAAACCCTAACC--A
1 TTAACTTAAAAACCCTAACCTAA
* *
26776326 TTAACTTTAAAACCCTAAACTAA
1 TTAACTTAAAAACCCTAACCTAA
*
26776349 TTTAA-TTAAAAACCCTAAACTAAA
1 -TTAACTTAAAAACCCTAACCT-AA
26776373 TTAA
1 TTAA
26776377 TAATTTTACA
Statistics
Matches: 663, Mismatches: 70, Indels: 104
0.79 0.08 0.12
Matches are distributed among these distances:
20 20 0.03
21 210 0.32
22 110 0.17
23 239 0.36
24 60 0.09
25 1 0.00
26 1 0.00
28 22 0.03
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAACTTAAAAACCCTAACCTAA
Found at i:26775658 original size:44 final size:44
Alignment explanation
Indices: 26775569--26776343 Score: 933
Period size: 44 Copynumber: 17.4 Consensus size: 44
26775559 ATTAATACCC
* * * *
26775569 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAA
* *
26775615 TTAAATTAAAAACCCTAACCCTTAACATAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
* *
26775659 TTAAATTAAAAACCCTAACTCTTAGCTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
*
26775703 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACACTAACCTAA
1 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
26775747 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
26775791 TTAAATTAAAAAACCCTAACCCTTAACTT-AAAACCCTAACCTAA
1 TTAAATT-AAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
*
26775835 TTTAATTAAAAACCCTAAACCCTTAACTT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCTAA
*
26775879 TTAAATTAAAAACCCTAACCATTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
* * *
26775923 TTAAGTTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAA
1 TTAA-ATTAAAAACCCTAACC--CTTAACTTAAAAA--C---CCTAACCTAA
* *
26775975 TTAAATTAAAAACCCTAAACCCTTAACTTAAAATCCCTAATCTAA
1 TTAAATTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCTAA
* ** * *
26776020 TTTAATTAAAAACCCTAAACTTTTAACTTAAAAACCCTAAACT-C
1 TTAAATTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCTAA
* * * *
26776064 TTAACTTAAAAA-CCTAACCTAATTAAATTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAA
* *
26776109 TTAAATTTAAAACCCTAACCCTTAACTTAAAAACCCTAACCTTA
1 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
26776153 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
* * **
26776197 TTTAATT-AAAACCCTAAACCCTAAACTTAAAAACCCTAACC-CG
1 TTAAATTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCTAA
* ** *
26776240 TT-ACTTAAAAACCCTAACCCCCTTAACTTAAAAACTTTAACC--C
1 TTAAATTAAAAACCCTAA--CCCTTAACTTAAAAACCCTAACCTAA
* * *
26776283 TTAACTTAAGAACACTAAACCCTTAACTTAAAAACCCTAACC--A
1 TTAAATTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCTAA
* *
26776326 TTAACTTTAAAACCCTAA
1 TTAAATTAAAAACCCTAA
26776344 ACTAATTTAA
Statistics
Matches: 644, Mismatches: 63, Indels: 48
0.85 0.08 0.06
Matches are distributed among these distances:
42 10 0.02
43 77 0.12
44 383 0.59
45 95 0.15
46 26 0.04
47 12 0.02
48 1 0.00
49 1 0.00
50 10 0.02
51 11 0.02
52 18 0.03
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (44 bp):
TTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
Found at i:26776516 original size:115 final size:115
Alignment explanation
Indices: 26776371--26776612 Score: 423
Period size: 115 Copynumber: 2.1 Consensus size: 115
26776361 CCCTAAACTA
*
26776371 AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACCGGTACTAACAATT
*
26776436 AATAATTTTATATAATTTGATAAATTT-ACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGA-AAATTTCACTAACCATTAATACAATTTATC
* *
26776486 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACCGGTACTAACAATT
1 AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACCGGTACTAACAATT
*
26776551 AATAATTTTATATAATTTGAAATTTTCACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGAAAATTTCACTAACCATTAATACAATTTATC
26776601 AATTAATAATTT
1 AATTAATAATTT
26776613 CACAAACTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
114 5 0.04
115 116 0.96
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (115 bp):
AATTAATAATTTTACATTCAAATAATGTTAGATTTAGAAAAATGTTTTGACCGGTACTAACAATT
AATAATTTTATATAATTTGAAAATTTCACTAACCATTAATACAATTTATC
Found at i:26779870 original size:125 final size:125
Alignment explanation
Indices: 26779609--26779981 Score: 615
Period size: 124 Copynumber: 3.0 Consensus size: 125
26779599 AACATGCTAT
** *
26779609 TGTAGCAAAAATGCATCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
26779674 AAGCGA-TTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCAAGACCTAC
66 AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCAAGACCTAC
* *
26779733 TGTAGCAAAAGCGTGTCCACGAGGGCACGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
*
26779798 AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCTAC
66 AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCAAGACCTAC
*
26779858 TGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCACATATTCTTCTCAAATAGCATCCTGCTAG
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
* *** *
26779922 AAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTA
66 AAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCAAGACCTA
26779982 AAAACCCTAA
Statistics
Matches: 233, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
124 132 0.57
125 101 0.43
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCTAG
AAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCAAGACCTAC
Found at i:26783072 original size:19 final size:19
Alignment explanation
Indices: 26783050--26783100 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
26783040 AAAATTAAAA
*
26783050 TAAAAAAATAAAAACT-CTT
1 TAAAAAAATAAAAA-TGATT
*
26783069 TAAAATAA-AAAAATGATT
1 TAAAAAAATAAAAATGATT
*
26783087 TAAAAATATAAAAA
1 TAAAAAAATAAAAA
26783101 ATTCAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 12 0.46
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAAAATAAAAATGATT
Found at i:26786642 original size:21 final size:21
Alignment explanation
Indices: 26786618--26786659 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
26786608 AACACAATAG
26786618 ATAAAGATAGAAACATAAACA
1 ATAAAGATAGAAACATAAACA
26786639 ATAAAGATAGAAACATAAACA
1 ATAAAGATAGAAACATAAACA
26786660 TTCATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.14
Consensus pattern (21 bp):
ATAAAGATAGAAACATAAACA
Found at i:26788313 original size:15 final size:15
Alignment explanation
Indices: 26788293--26788323 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26788283 TTCAGCAGAT
26788293 AATTTGCATAGCATC
1 AATTTGCATAGCATC
26788308 AATTTGCATAGCATC
1 AATTTGCATAGCATC
26788323 A
1 A
26788324 TTCATGGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (15 bp):
AATTTGCATAGCATC
Found at i:26789034 original size:2 final size:2
Alignment explanation
Indices: 26789027--26789065 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
26789017 CACATGCAAA
26789027 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
26789066 GACTCTACTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26791574 original size:21 final size:22
Alignment explanation
Indices: 26791549--26791593 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
26791539 TTTGGGTCGT
*
26791549 TTTAGATTGTATTAGTG-TTGG
1 TTTAGATTGTATTAGGGTTTGG
* *
26791570 TTTAGGTTGTTTTAGGGTTTGG
1 TTTAGATTGTATTAGGGTTTGG
26791592 TT
1 TT
26791594 CAATTTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (22 bp):
TTTAGATTGTATTAGGGTTTGG
Found at i:26794428 original size:22 final size:23
Alignment explanation
Indices: 26794379--26794434 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
26794369 CATATTGTAG
** *
26794379 GTTGTTTCACTGTTGTTTTTAGT
1 GTTGTTTCACTGTCCTTTTTAAT
*
26794402 ATTGTTTCACTG-CCTTTTTAAT
1 GTTGTTTCACTGTCCTTTTTAAT
26794424 GTTGTTTCACT
1 GTTGTTTCACT
26794435 ACTGCTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.57
Consensus pattern (23 bp):
GTTGTTTCACTGTCCTTTTTAAT
Found at i:26800355 original size:52 final size:52
Alignment explanation
Indices: 26800276--26800440 Score: 216
Period size: 46 Copynumber: 3.2 Consensus size: 52
26800266 TACTTCTGAT
* *
26800276 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
** *
26800329 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
26800381 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
*
26800427 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
26800441 GCTACACTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
46 43 0.45
52 41 0.43
53 12 0.12
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
Found at i:26800448 original size:37 final size:37
Alignment explanation
Indices: 26800404--26800512 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
26800394 GATAGCTTTA
26800404 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
26800441 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
26800478 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
26800513 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:26811182 original size:25 final size:25
Alignment explanation
Indices: 26811134--26811185 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
26811124 CTTATAAGCA
26811134 TCTCGATATTCGGCTCTCACGAGCT
1 TCTCGATATTCGGCTCTCACGAGCT
* **
26811159 TCTCGATATTTGGCTCTCTTGAGCT
1 TCTCGATATTCGGCTCTCACGAGCT
26811184 TC
1 TC
26811186 CCGTTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.38
Consensus pattern (25 bp):
TCTCGATATTCGGCTCTCACGAGCT
Found at i:26811194 original size:27 final size:25
Alignment explanation
Indices: 26811100--26811188 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 25
26811090 ACCACAGCTT
* **
26811100 TCACGAGCTTCCCGTTATTTAGCTC
1 TCACGAGCTTCCCGATATTCGGCTC
* ** * *
26811125 TTATAAGCATCTCGATATTCGGCTC
1 TCACGAGCTTCCCGATATTCGGCTC
* *
26811150 TCACGAGCTTCTCGATATTTGGCTC
1 TCACGAGCTTCCCGATATTCGGCTC
**
26811175 TCTTGAGCTTCCCG
1 TCACGAGCTTCCCG
26811189 TTATATAGCT
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (25 bp):
TCACGAGCTTCCCGATATTCGGCTC
Found at i:26811232 original size:25 final size:25
Alignment explanation
Indices: 26811177--26811237 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
26811167 TTTGGCTCTC
*
26811177 TTGAGCTTCCCGTTATATAGCTCAG
1 TTGAGCTTCCCGTTACATAGCTCAG
** *
26811202 AAGAGCTTCCCGTTTACAT-GCTCGG
1 TTGAGCTTCCCG-TTACATAGCTCAG
26811227 TTGAGCATTCC
1 TTGAGC-TTCC
26811238 TGAATATGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
TTGAGCTTCCCGTTACATAGCTCAG
Found at i:26816967 original size:16 final size:16
Alignment explanation
Indices: 26816946--26816977 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26816936 AATTATCTTC
*
26816946 ATGCATATCCACAAGT
1 ATGCATAACCACAAGT
26816962 ATGCATAACCACAAGT
1 ATGCATAACCACAAGT
26816978 TAGATGAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (16 bp):
ATGCATAACCACAAGT
Found at i:26819357 original size:55 final size:55
Alignment explanation
Indices: 26819278--26819381 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
26819268 AACAAAATTA
*
26819278 TTTTTTTAAAAATAAAAAAGTGGTGTCCGCCACCACAAAGCCAAAACCAAAAAAC
1 TTTTTTTAAAAATAAAAAAGTGGTGTCCGCCACCACAAAACCAAAACCAAAAAAC
** ** * *
26819333 TTTTTTTTTAAATCAAAAAA-TGGTGTTGGCCACCAGAAAACTAAAACCA
1 TTTTTTTAAAAAT-AAAAAAGTGGTGTCCGCCACCACAAAACCAAAACCA
26819382 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 35 0.85
56 6 0.15
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (55 bp):
TTTTTTTAAAAATAAAAAAGTGGTGTCCGCCACCACAAAACCAAAACCAAAAAAC
Found at i:26821443 original size:73 final size:71
Alignment explanation
Indices: 26821366--26821543 Score: 160
Period size: 73 Copynumber: 2.4 Consensus size: 71
26821356 TGTATACCAA
* * * *
26821366 GAAGCTCATAAGAGCCTTAATCAGGAAGCTCATGTGAGTCAATAACGGGTAA-CTCTAAAGAGCC
1 GAAGCTCAAAAGAGCCTTAATC-GGAAGCTCAAGCGAG-CAATAAC-GGAAAGCTCTAAAGAGCC
*
26821430 ATTAATCGG
63 ATTAATCAG
*** * * * * *
26821439 GAAGCTCCGGATAGCCATATATCGGAAAGCTCAAGCGAGCCATATCGGAAAGCTCTAGAGAGCCA
1 GAAGCTCAAAAGAGCCTTA-ATCGG-AAGCTCAAGCGAGCAATAACGGAAAGCTCTAAAGAGCCA
26821504 TTAATCAG
64 TTAATCAG
26821512 GAAGCTCACAAAGAGCCTTTAATCGGGAAGCT
1 GAAGCTCA-AAAGAGCC-TTAATC-GGAAGCT
26821544 TACGAAGAGC
Statistics
Matches: 82, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
72 4 0.05
73 47 0.57
74 27 0.33
75 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (71 bp):
GAAGCTCAAAAGAGCCTTAATCGGAAGCTCAAGCGAGCAATAACGGAAAGCTCTAAAGAGCCATT
AATCAG
Found at i:26821454 original size:25 final size:25
Alignment explanation
Indices: 26821424--26821543 Score: 111
Period size: 25 Copynumber: 4.8 Consensus size: 25
26821414 GTAACTCTAA
*
26821424 AGAGCCATTAATCGGGAAGCTCCGG
1 AGAGCCATTAATCGGGAAGCTCCAG
* * *
26821449 ATAGCCA-TATATCGGAAAGCTCAAG
1 AGAGCCATTA-ATCGGGAAGCTCCAG
* * *
26821474 CGAGCCA-T-ATCGGAAAGCTCTAG
1 AGAGCCATTAATCGGGAAGCTCCAG
* *
26821497 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAGCTC-CAG
*
26821523 AGAGCCTTTAATCGGGAAGCT
1 AGAGCCATTAATCGGGAAGCT
26821544 TACGAAGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
23 20 0.26
24 3 0.04
25 34 0.44
26 20 0.26
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (25 bp):
AGAGCCATTAATCGGGAAGCTCCAG
Found at i:26821487 original size:23 final size:23
Alignment explanation
Indices: 26821457--26821504 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
26821447 GGATAGCCAT
*
26821457 ATATCGGAAAGCTCAAGCGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
*
26821480 ATATCGGAAAGCTCTAGAGAGCC
1 ATATCGGAAAGCTCAAGAGAGCC
26821503 AT
1 AT
26821505 TAATCAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (23 bp):
ATATCGGAAAGCTCAAGAGAGCC
Found at i:26821562 original size:26 final size:27
Alignment explanation
Indices: 26821423--26821565 Score: 85
Period size: 26 Copynumber: 5.7 Consensus size: 27
26821413 GGTAACTCTA
*
26821423 AAGAGCCAT-TAATCGGGAAGC-TCCG
1 AAGAGCCATATAATCGGGAAGCTTACG
* * * * *
26821448 GATAGCCATAT-ATCGGAAAGCTCAAG
1 AAGAGCCATATAATCGGGAAGCTTACG
* *
26821474 -CGAGCC--AT-ATCGGAAAGCTCTA-G
1 AAGAGCCATATAATCGGGAAGCT-TACG
* * *
26821497 -AGAGCCAT-TAATCAGGAAGCTCACA
1 AAGAGCCATATAATCGGGAAGCTTACG
*
26821522 AAGAGCC-TTTAATCGGGAAGCTTACG
1 AAGAGCCATATAATCGGGAAGCTTACG
26821548 AAGAGCCATAT-ATCGGGA
1 AAGAGCCATATAATCGGGA
26821566 TACTCATAAG
Statistics
Matches: 90, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
23 19 0.21
24 3 0.03
25 30 0.33
26 36 0.40
27 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
AAGAGCCATATAATCGGGAAGCTTACG
Found at i:26822003 original size:5 final size:5
Alignment explanation
Indices: 26821974--26822012 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
26821964 GAATTTAATA
* *
26821974 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
26822013 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:26822135 original size:22 final size:22
Alignment explanation
Indices: 26822107--26822153 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
26822097 AATTTAATCC
26822107 TTATTCCAAGCCTAGATGATTT
1 TTATTCCAAGCCTAGATGATTT
26822129 TTATTCCAAGCCTAGATGATTT
1 TTATTCCAAGCCTAGATGATTT
26822151 TTA
1 TTA
26822154 CATATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (22 bp):
TTATTCCAAGCCTAGATGATTT
Found at i:26823501 original size:45 final size:44
Alignment explanation
Indices: 26823446--26823530 Score: 152
Period size: 45 Copynumber: 1.9 Consensus size: 44
26823436 TTAAAACTGT
*
26823446 AATTTAAAATGTTCAAATTTATTAATAAACAATATCATGTTTTA
1 AATTTAAAATGTTCAAAATTATTAATAAACAATATCATGTTTTA
26823490 AATTATAAAATGTTCAAAATTATTAATAAACAATATCATGT
1 AATT-TAAAATGTTCAAAATTATTAATAAACAATATCATGT
26823531 CTAGGAGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 4 0.10
45 35 0.90
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (44 bp):
AATTTAAAATGTTCAAAATTATTAATAAACAATATCATGTTTTA
Found at i:26827442 original size:20 final size:20
Alignment explanation
Indices: 26827404--26827443 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26827394 TAATATATGA
* *
26827404 GTGTATACATGCCTGCATAT
1 GTGTATACATGCATACATAT
*
26827424 GTGTATGCATGCATACATAT
1 GTGTATACATGCATACATAT
26827444 CCACAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (20 bp):
GTGTATACATGCATACATAT
Found at i:26827890 original size:21 final size:21
Alignment explanation
Indices: 26827865--26827908 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
26827855 ATACTGATGC
*
26827865 AACCTTTATTCCATTCAGACA
1 AACCTTTATTCCATTCAAACA
26827886 AACCTTTATTCCATTCAAACA
1 AACCTTTATTCCATTCAAACA
26827907 AA
1 AA
26827909 TGTCTAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (21 bp):
AACCTTTATTCCATTCAAACA
Found at i:26841149 original size:38 final size:40
Alignment explanation
Indices: 26841088--26841163 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
26841078 AAAAATAAAA
*
26841088 ATAAAAGTATCAAAAATTATTTTTTTCAAATT-AAAAATC
1 ATAAAAGTATCAAAAATTATTTTTTTAAAATTGAAAAATC
26841127 ATAAAAGT-TCAAAAA-TATTTTTTTTAAAATTGAAAAA
1 ATAAAAGTATCAAAAATTA-TTTTTTTAAAATTGAAAAA
26841164 AATAAGAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 2 0.06
38 19 0.56
39 13 0.38
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (40 bp):
ATAAAAGTATCAAAAATTATTTTTTTAAAATTGAAAAATC
Found at i:26847695 original size:3 final size:3
Alignment explanation
Indices: 26847687--26847730 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
26847677 CTTTGATAAT
26847687 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
26847731 TAGCATACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:26849261 original size:4 final size:4
Alignment explanation
Indices: 26849252--26849277 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
26849242 CTATAAGTAG
26849252 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
26849278 GGTACTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:26853040 original size:11 final size:11
Alignment explanation
Indices: 26853015--26853047 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
26853005 TCAATTATTT
26853015 TCTCAA-TTCC
1 TCTCAATTTCC
*
26853025 TCTCAATTTGC
1 TCTCAATTTCC
26853036 TCTCAATTTCC
1 TCTCAATTTCC
26853047 T
1 T
26853048 TCCAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.18, C:0.33, G:0.03, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:26853084 original size:51 final size:51
Alignment explanation
Indices: 26853025--26853124 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
26853015 TCTCAATTCC
26853025 TCTCAATTTGCTCTCAATTT-C-CTTCCAAATTTCT-TTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTGCTCTT--AAATTTCTCTT-AAATCCATATTTAA
*
26853076 TCTCAATTTGCTCTCAATTTGCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTGCTCTTAAATTTCTCTTAAATCCATATTT
26853125 TTAATTATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
51 39 0.87
52 3 0.07
53 3 0.07
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAATTTGCTCTTAAATTTCTCTTAAATCCATATTTAA
Found at i:26853096 original size:11 final size:11
Alignment explanation
Indices: 26853076--26853100 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26853066 CCATATTTAA
26853076 TCTCAATTTGC
1 TCTCAATTTGC
26853087 TCTCAATTTGC
1 TCTCAATTTGC
26853098 TCT
1 TCT
26853101 TAAATTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.08, T:0.48
Consensus pattern (11 bp):
TCTCAATTTGC
Found at i:26853111 original size:11 final size:12
Alignment explanation
Indices: 26853080--26853116 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
26853070 ATTTAATCTC
*
26853080 AATTTGCTC-TC
1 AATTTGCTCTTA
26853091 AATTTGCTCTTA
1 AATTTGCTCTTA
26853103 AATTT-CTCTTA
1 AATTTGCTCTTA
26853114 AAT
1 AAT
26853117 CCCTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (12 bp):
AATTTGCTCTTA
Done.