Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 32 of 343
Found at i:10862117 original size:7 final size:7
Alignment explanation
Indices: 10862073--10862100 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
10862063 TTAATTACAA
10862073 AATATTT
1 AATATTT
10862080 AATATTT
1 AATATTT
10862087 AATATTT
1 AATATTT
10862094 AATATTT
1 AATATTT
10862101 TTATCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:10865881 original size:21 final size:21
Alignment explanation
Indices: 10865855--10865899 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10865845 CTAATAAATT
*
10865855 CCATTTTCTTCAATTTTCTTA
1 CCATTTTCTTCAATTTTCTCA
* *
10865876 CCATTTTCTTTAGTTTTCTCA
1 CCATTTTCTTCAATTTTCTCA
10865897 CCA
1 CCA
10865900 ACCAAACAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.53
Consensus pattern (21 bp):
CCATTTTCTTCAATTTTCTCA
Found at i:10869909 original size:28 final size:28
Alignment explanation
Indices: 10869869--10869925 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
10869859 CCCTAAGCCC
*
10869869 TTCGTCACCTTCTTTCTCTTTTTCTTTT
1 TTCGTCACCTTCTTTCTCGTTTTCTTTT
*
10869897 TTCGTCTCCTTCTTTCTCGTTTTCTTTT
1 TTCGTCACCTTCTTTCTCGTTTTCTTTT
10869925 T
1 T
10869926 CTTTCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.02, C:0.28, G:0.05, T:0.65
Consensus pattern (28 bp):
TTCGTCACCTTCTTTCTCGTTTTCTTTT
Found at i:10869977 original size:4 final size:4
Alignment explanation
Indices: 10869970--10869999 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
10869960 CTTTCTTTCT
*
10869970 TTTA TTTA TTTA TTTA TTTA TTCA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
10870000 ACTTTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:10870065 original size:33 final size:31
Alignment explanation
Indices: 10870007--10870074 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 31
10869997 ATTACTTTTG
*
10870007 TTTTATATGATATAGATAAATACTTA-AGGT
1 TTTTATATGATATAGATAAATACTTACACGT
* *
10870037 TTTTATATTATAATATATAAATAAACTTACACGT
1 TTTTATATGAT-ATAGATAAAT--ACTTACACGT
10870071 TTTT
1 TTTT
10870075 TTAATCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 10 0.32
31 9 0.29
33 5 0.16
34 7 0.23
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTTATATGATATAGATAAATACTTACACGT
Found at i:10872024 original size:27 final size:28
Alignment explanation
Indices: 10871987--10872040 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
10871977 AAAATTTATT
*
10871987 TCAAACTCTCAAAT-TCAATTTTAAAACA
1 TCAAACTCTCAAATCCCAA-TTTAAAACA
10872015 TCAAA-TCTCAAATCCCAATTTAAAAC
1 TCAAACTCTCAAATCCCAATTTAAAAC
10872041 CCTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (28 bp):
TCAAACTCTCAAATCCCAATTTAAAACA
Found at i:10875890 original size:15 final size:15
Alignment explanation
Indices: 10875870--10875921 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
10875860 ACTACAAAAC
10875870 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
10875885 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
10875904 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
10875919 ATT
1 ATT
10875922 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:10875972 original size:16 final size:17
Alignment explanation
Indices: 10875951--10875990 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
10875941 AATATGTGAA
10875951 TATTATTATTT-AAACT
1 TATTATTATTTAAAACT
*
10875967 TATTATT-TTTAAAATT
1 TATTATTATTTAAAACT
10875983 TATTATTA
1 TATTATTA
10875991 AAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATTATTTAAAACT
Found at i:10876026 original size:16 final size:16
Alignment explanation
Indices: 10875966--10876060 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 16
10875956 TTATTTAAAC
10875966 TTATTATTTTTAA-AAT
1 TTATTA-TTTTAATAAT
** *
10875982 TTATTATTAAAATAAAA
1 TTATTATTTTAAT-AAT
**
10875999 TTAAAATATTTAATAAT
1 TTATTAT-TTTAATAAT
10876016 TTATTATTTTAATAAAT
1 TTATTATTTTAAT-AAT
10876033 TATATTTATTATATTAATAAT
1 T-TA-TTA-T-T-TTAATAAT
10876054 TTATTAT
1 TTATTAT
10876061 ATTACTAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
15 4 0.07
16 12 0.20
17 18 0.30
18 7 0.12
19 6 0.10
20 3 0.05
21 5 0.08
22 5 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTATTTTAATAAT
Found at i:10876053 original size:25 final size:22
Alignment explanation
Indices: 10876014--10876064 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
10876004 ATATTTAATA
10876014 ATTTATTATTTTAATAAATTAT
1 ATTTATTATTTTAATAAATTAT
*
10876036 ATTTATTATATTAAT-AATT-T
1 ATTTATTATTTTAATAAATTAT
10876056 ATTATATTA
1 ATT-TATTA
10876065 CTAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 9 0.33
22 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATTATTTTAATAAATTAT
Found at i:10878978 original size:38 final size:37
Alignment explanation
Indices: 10878906--10879038 Score: 97
Period size: 38 Copynumber: 3.5 Consensus size: 37
10878896 ACCAGTTTGG
* * *
10878906 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTGA
1 CACCCAGTGCCTCATCGGCTAGCT-GAAGTAAAGTTGA
* *
10878944 CACCCAGTGTCTCATCGGCCTAGCTGAAGTAAAG-TGG
1 CACCCAGTGCCTCATCGG-CTAGCTGAAGTAAAGTTGA
* * * * **
10878981 TACCCAGTACCTCATCGAATCTATCCAAAGTAACAGTATGA
1 CACCCAGTGCCTCATCG--GCTAGCTGAAGTAA-AGT-TGA
*
10879022 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
10879039 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
37 16 0.22
38 35 0.48
39 6 0.08
41 16 0.22
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGCTAGCTGAAGTAAAGTTGA
Found at i:10879523 original size:17 final size:18
Alignment explanation
Indices: 10879489--10879524 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10879479 TGAATTTCTA
10879489 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
10879507 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
10879524 T
1 T
10879525 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:10879997 original size:16 final size:18
Alignment explanation
Indices: 10879965--10879999 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
10879955 CCTTGGTTTC
10879965 TTTGTTTTTCTTTTATAT
1 TTTGTTTTTCTTTTATAT
10879983 TTTG-TTTTC-TTTATAT
1 TTTGTTTTTCTTTTATAT
10879999 T
1 T
10880000 ATTTTATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 5 0.29
18 4 0.24
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTGTTTTTCTTTTATAT
Found at i:10881841 original size:46 final size:46
Alignment explanation
Indices: 10881774--10881865 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
10881764 CACAACTTAG
*
10881774 ATTCAGACGGATACGCGGATCCAACCCAAACACATCAGTACGGCAC
1 ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
10881820 ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
1 ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
10881866 TCAGTGCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.35, C:0.34, G:0.20, T:0.12
Consensus pattern (46 bp):
ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
Found at i:10882109 original size:5 final size:5
Alignment explanation
Indices: 10882091--10882135 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
10882081 ATAATTCATA
* *
10882091 AATTCC AATTC AATAC AATTC AATTC AACTC AATTC AATTTC AAT
1 AATT-C AATTC AATTC AATTC AATTC AATTC AATTC AA-TTC AAT
10882136 ACTACAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (5 bp):
AATTC
Found at i:10882116 original size:15 final size:15
Alignment explanation
Indices: 10882083--10882137 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
10882073 CAACTCAAAT
10882083 AATTC-ATA-AATTCC
1 AATTCAATACAATT-C
10882097 AATTCAATACAATTC
1 AATTCAATACAATTC
10882112 AATTCAACT-CAATTC
1 AATTCAA-TACAATTC
10882127 AATTTCAATAC
1 AA-TTCAATAC
10882138 TACAATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.14
15 20 0.56
16 11 0.31
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTCAATACAATTC
Found at i:10883017 original size:22 final size:23
Alignment explanation
Indices: 10882975--10883018 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10882965 ATATATATAA
10882975 TACAAATGTATGTATATTTTTAC
1 TACAAATGTATGTATATTTTTAC
* *
10882998 TACACATGTAT-TTTATTTTTA
1 TACAAATGTATGTATATTTTTA
10883019 ACATACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TACAAATGTATGTATATTTTTAC
Found at i:10888357 original size:32 final size:32
Alignment explanation
Indices: 10888320--10888393 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
10888310 TCATAGTCTA
*
10888320 TAGTTTCACAATTTA-AAGTTTAAGTATATATG
1 TAGTTTCACAATTTATAA-TTTAAGTATATAAG
* *
10888352 TAGTTTCATAATTTATAATTTCAGTATATAAG
1 TAGTTTCACAATTTATAATTTAAGTATATAAG
10888384 TAGTTTCACA
1 TAGTTTCACA
10888394 GTCTATAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 35 0.95
33 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (32 bp):
TAGTTTCACAATTTATAATTTAAGTATATAAG
Found at i:10892748 original size:96 final size:97
Alignment explanation
Indices: 10892584--10892761 Score: 277
Period size: 96 Copynumber: 1.8 Consensus size: 97
10892574 TTCTTTTTTC
*
10892584 TCCTCTTCGCCCTCTTGGCTTCAGCTTTTACCTTACTCGAACTAAGCTTATTGGGATCCTTGTCT
1 TCCTCTTCGCCCTCTTGGCTTCAGCTTTTACCTTACTCGAACCAAGCTTATTGGGATCCTTGTCT
10892649 ACTCCATCG-TTCCTTTCAATGACAGACTTGT
66 ACTCCATCGTTTCCTTTCAATGACAGACTTGT
* ** * * * *
10892680 TCCTCTTTGCCCTCTTGGCTTTGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
1 TCCTCTTCGCCCTCTTGGCTTCAGCTTTTACCTTACTCGAACCAAGCTTATTGGGATCCTTGTCT
10892745 ACTCCATCGTTTCCTTT
66 ACTCCATCGTTTCCTTT
10892762 GGTGACAGAC
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
96 66 0.90
97 7 0.10
ACGTcount: A:0.12, C:0.32, G:0.15, T:0.40
Consensus pattern (97 bp):
TCCTCTTCGCCCTCTTGGCTTCAGCTTTTACCTTACTCGAACCAAGCTTATTGGGATCCTTGTCT
ACTCCATCGTTTCCTTTCAATGACAGACTTGT
Found at i:10899823 original size:33 final size:29
Alignment explanation
Indices: 10899792--10899930 Score: 164
Period size: 27 Copynumber: 4.9 Consensus size: 29
10899782 GCCAGGCAAT
10899792 TTACCATCCATGCCTGGCATTGGCATTGGCAAA
1 TTACCATCCATGCCTGGCATTGGCA-T-G--AA
*
10899825 TTACCAGCCATGCCTGGCATTGGCA--AA
1 TTACCATCCATGCCTGGCATTGGCATGAA
*
10899852 TTACCAGCCATGCCTGGCATTGGCAT-AA
1 TTACCATCCATGCCTGGCATTGGCATGAA
*
10899880 -TACCATCCTTGCCTGGCATTGGCATG--
1 TTACCATCCATGCCTGGCATTGGCATGAA
*
10899906 TTACCATCCATGCCTGGAATTGGCA
1 TTACCATCCATGCCTGGCATTGGCA
10899931 CGTTACCATC
Statistics
Matches: 98, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
27 72 0.73
28 2 0.02
33 24 0.24
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (29 bp):
TTACCATCCATGCCTGGCATTGGCATGAA
Found at i:10899935 original size:27 final size:27
Alignment explanation
Indices: 10899812--10899941 Score: 172
Period size: 27 Copynumber: 4.8 Consensus size: 27
10899802 TGCCTGGCAT
*
10899812 TGGCATTGGCAAATTACCAGCCATGCC
1 TGGCATTGGCAAATTACCATCCATGCC
*
10899839 TGGCATTGGCAAATTACCAGCCATGCC
1 TGGCATTGGCAAATTACCATCCATGCC
*
10899866 TGGCATTGGCATAA-TACCATCCTTGCC
1 TGGCATTGGCA-AATTACCATCCATGCC
**
10899893 TGGCATTGGCATGTTACCATCCATGCC
1 TGGCATTGGCAAATTACCATCCATGCC
* **
10899920 TGGAATTGGCACGTTACCATCC
1 TGGCATTGGCAAATTACCATCC
10899942 TTGACTGCCG
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
27 92 0.98
28 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (27 bp):
TGGCATTGGCAAATTACCATCCATGCC
Found at i:10899964 original size:54 final size:54
Alignment explanation
Indices: 10899792--10899966 Score: 152
Period size: 54 Copynumber: 3.1 Consensus size: 54
10899782 GCCAGGCAAT
* * * * * *
10899792 TTACCATCCATGCCTGGCATTGGCATTGGCAAATTACCAGCCATGCCTGGCATTGGCAAA
1 TTACCATCCATGCCTGGAATTGGCA----C-AA-TACCATCCTTGACTGCCATTGGCATA
* * * * * *
10899852 TTACCAGCCATGCCTGGCATTGGCATAATACCATCCTTGCCTGGCATTGGCATG
1 TTACCATCCATGCCTGGAATTGGCACAATACCATCCTTGACTGCCATTGGCATA
** * *
10899906 TTACCATCCATGCCTGGAATTGGCACGTTACCATCCTTGACTGCCGTTGGTATA
1 TTACCATCCATGCCTGGAATTGGCACAATACCATCCTTGACTGCCATTGGCATA
10899960 TTACCAT
1 TTACCAT
10899967 TAACTGGCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
54 73 0.74
55 2 0.02
60 24 0.24
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (54 bp):
TTACCATCCATGCCTGGAATTGGCACAATACCATCCTTGACTGCCATTGGCATA
Found at i:10899965 original size:81 final size:81
Alignment explanation
Indices: 10899812--10899966 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
10899802 TGCCTGGCAT
* * *
10899812 TGGCATTGGCAAATTACCAGCCATGCCTGGCATTGGCAAATTACCAGCCATGCCTGGCATTGGCA
1 TGGCATTGGCAAATTACCAGCCATGCCTGGAATTGGCAAATTACCAGCCATGACTGCCATTGGCA
10899877 TAATACCATCCTTGCC
66 TAATACCATCCTTGCC
** * ** * * * *
10899893 TGGCATTGGCATGTTACCATCCATGCCTGGAATTGGCACGTTACCATCCTTGACTGCCGTTGGTA
1 TGGCATTGGCAAATTACCAGCCATGCCTGGAATTGGCAAATTACCAGCCATGACTGCCATTGGCA
*
10899958 TATTACCAT
66 TAATACCAT
10899967 TAACTGGCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (81 bp):
TGGCATTGGCAAATTACCAGCCATGCCTGGAATTGGCAAATTACCAGCCATGACTGCCATTGGCA
TAATACCATCCTTGCC
Found at i:10908578 original size:82 final size:82
Alignment explanation
Indices: 10908437--10908594 Score: 280
Period size: 82 Copynumber: 1.9 Consensus size: 82
10908427 GCATGAAAGG
* *
10908437 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAACGACGAATAGCCTCAAAG
1 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAACGACAAAGAGCCTCAAAG
10908502 TTTTGATGATGTAATGA
66 TTTTGATGATGTAATGA
* *
10908519 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAATGACAAAGAGCCTTAAAG
1 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAACGACAAAGAGCCTCAAAG
10908584 TTTTGATGATG
66 TTTTGATGATG
10908595 CGATGAATGA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (82 bp):
AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAACGACAAAGAGCCTCAAAG
TTTTGATGATGTAATGA
Found at i:10912226 original size:13 final size:14
Alignment explanation
Indices: 10912195--10912236 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
10912185 GGAGAAATAG
*
10912195 AAAAGAATGTAAAA
1 AAAAGAAAGTAAAA
*
10912209 TAAAGAAAG-AAAA
1 AAAAGAAAGTAAAA
10912222 AAAAGAAAGTTAAAA
1 AAAAGAAAG-TAAAA
10912237 GAACATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 12 0.52
14 7 0.30
15 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (14 bp):
AAAAGAAAGTAAAA
Found at i:10918858 original size:32 final size:32
Alignment explanation
Indices: 10918822--10918883 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
10918812 TCCTCTCTTC
10918822 TTCATTTCTTTTAACATAA-TTTTTCTATGTTT
1 TTCATTTCTTTTAACATAACTTTTT-TATGTTT
*
10918854 TTCATTTCTTTTTACATAACTTTTTTATGT
1 TTCATTTCTTTTAACATAACTTTTTTATGT
10918884 CTTTGAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.63
Consensus pattern (32 bp):
TTCATTTCTTTTAACATAACTTTTTTATGTTT
Found at i:10926611 original size:39 final size:39
Alignment explanation
Indices: 10926557--10926635 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
10926547 TAAAAAAGCA
* *
10926557 TAATTTTTTGGACAAGTTCAAGTACTAACAATGTGTTCT
1 TAATTTTTTGGACAAGTTCAAGTACTAACAAGGTATTCT
*
10926596 TAATTTTTTGTACAAGTTCAAGTACTAACAAGGTATTCT
1 TAATTTTTTGGACAAGTTCAAGTACTAACAAGGTATTCT
10926635 T
1 T
10926636 TCAAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (39 bp):
TAATTTTTTGGACAAGTTCAAGTACTAACAAGGTATTCT
Found at i:10933293 original size:12 final size:12
Alignment explanation
Indices: 10933276--10933304 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10933266 TTATCTTATC
10933276 AATTTAAACGAA
1 AATTTAAACGAA
10933288 AATTTAAACGAA
1 AATTTAAACGAA
10933300 AATTT
1 AATTT
10933305 TAGGTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (12 bp):
AATTTAAACGAA
Found at i:10937300 original size:338 final size:338
Alignment explanation
Indices: 10936684--10937361 Score: 1295
Period size: 338 Copynumber: 2.0 Consensus size: 338
10936674 GCATATCATG
10936684 CCAAACTGCATGTGAGAAGTCACAGGCACATACATGAATGTGAAAGGGGTACAGTGTATGCTGAG
1 CCAAACTGCATGTGAGAAGTCACAGGCACATACATGAATGTGAAAGGGGTACAGTGTATGCTGAG
10936749 AGAGTTAATATTGATATGAAGTTTCCATTAAAAGATTCTTCATATTTGTGAGTTTTTGTAAAGCG
66 AGAGTTAATATTGATATGAAGTTTCCATTAAAAGATTCTTCATATTTGTGAGTTTTTGTAAAGCG
*
10936814 ATGCAAGGCGAAGTTCTGTTTGAAGAAGTTATGAGGTTATGAGAAGGCAGCATAATGTCAATATT
131 ATGCAAGGCGAAGTTCTGTTTGAAGAAGTTATGAGGCTATGAGAAGGCAGCATAATGTCAATATT
*
10936879 TACGTGAATTAAGTAGTCAGTAATCACATTAAATTTACAAACCAATAGCACCGCATGAAAGCATT
196 TACGTGAATTAAGTAGTCAATAATCACATTAAATTTACAAACCAATAGCACCGCATGAAAGCATT
10936944 AGAACCAAACACAAATAGTACCACAAGACCAAGCAGCTCTTTCCCTAAAAAAAAGAAGAAAATAA
261 AGAACCAAACACAAATAGTACCACAAGACCAAGCAGCTCTTTCCCTAAAAAAAAGAAGAAAATAA
10937009 TAAAAGGAAAGGA
326 TAAAAGGAAAGGA
* *
10937022 CCAAACTGCATGTGAGAAGTCACAGGCACATACTTGGATGTGAAAGGGGTACAGTGTATGCTGAG
1 CCAAACTGCATGTGAGAAGTCACAGGCACATACATGAATGTGAAAGGGGTACAGTGTATGCTGAG
10937087 AGAGTTAATATTGATATGAAGTTTCCATTAAAAGATTCTTCATATTTGTGAGTTTTTGTAAAGCG
66 AGAGTTAATATTGATATGAAGTTTCCATTAAAAGATTCTTCATATTTGTGAGTTTTTGTAAAGCG
*
10937152 ATGCAAGGCGATGTTCTGTTTGAAGAAGTTATGAGGCTATGAGAAGGCAG-AGTAATGTCAATAT
131 ATGCAAGGCGAAGTTCTGTTTGAAGAAGTTATGAGGCTATGAGAAGGCAGCA-TAATGTCAATAT
10937216 TTACGTGAATTAAGTAGTCAATAATCACATTAAATTTACAAACCAATAGCACCGCATGAAAGCAT
195 TTACGTGAATTAAGTAGTCAATAATCACATTAAATTTACAAACCAATAGCACCGCATGAAAGCAT
10937281 TAGAACCAAACACAAATAGTACCACAAGACCAAGCAGCTCTTTCCCTAAAAAAAAGAAGAAAATA
260 TAGAACCAAACACAAATAGTACCACAAGACCAAGCAGCTCTTTCCCTAAAAAAAAGAAGAAAATA
10937346 ATAAAAGGAAAGGA
325 ATAAAAGGAAAGGA
10937360 CC
1 CC
10937362 CAACCTTCAA
Statistics
Matches: 334, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
337 1 0.00
338 333 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (338 bp):
CCAAACTGCATGTGAGAAGTCACAGGCACATACATGAATGTGAAAGGGGTACAGTGTATGCTGAG
AGAGTTAATATTGATATGAAGTTTCCATTAAAAGATTCTTCATATTTGTGAGTTTTTGTAAAGCG
ATGCAAGGCGAAGTTCTGTTTGAAGAAGTTATGAGGCTATGAGAAGGCAGCATAATGTCAATATT
TACGTGAATTAAGTAGTCAATAATCACATTAAATTTACAAACCAATAGCACCGCATGAAAGCATT
AGAACCAAACACAAATAGTACCACAAGACCAAGCAGCTCTTTCCCTAAAAAAAAGAAGAAAATAA
TAAAAGGAAAGGA
Found at i:10938422 original size:18 final size:18
Alignment explanation
Indices: 10938356--10938422 Score: 70
Period size: 17 Copynumber: 3.8 Consensus size: 18
10938346 TAAGCTTAAC
10938356 TTTTAA-TTTGTTTTT-T
1 TTTTAATTTTGTTTTTGT
*
10938372 CTTTTAATTTCG-TTTTGT
1 -TTTTAATTTTGTTTTTGT
10938390 TTATT-ATTTTGGTTTTTGT
1 TT-TTAATTTT-GTTTTTGT
10938409 TTTTAATTTTGTTT
1 TTTTAATTTTGTTT
10938423 GTTTCTTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 16 0.38
18 13 0.31
19 13 0.31
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (18 bp):
TTTTAATTTTGTTTTTGT
Found at i:10948246 original size:16 final size:16
Alignment explanation
Indices: 10948235--10948324 Score: 51
Period size: 16 Copynumber: 5.5 Consensus size: 16
10948225 ACAAATAAAT
10948235 AAAAGAAAAAATAGAA
1 AAAAGAAAAAATAGAA
* *
10948251 AAAAGAAACAA-AG-G
1 AAAAGAAAAAATAGAA
* *
10948265 AAAATAAAACA-AGAA
1 AAAAGAAAAAATAGAA
*
10948280 AGAAAGAAAGAAAAAGAA
1 A-AAAGAAA-AAATAGAA
* *
10948298 AAAGGAAATAAAAAGAGA
1 AAAAGAAA-AAATAGA-A
10948316 AAGAAGAAA
1 AA-AAGAAA
10948325 GAAAGCCACG
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
14 10 0.18
15 3 0.05
16 16 0.28
17 15 0.26
18 8 0.14
19 5 0.09
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAATAGAA
Found at i:10948285 original size:22 final size:23
Alignment explanation
Indices: 10948242--10948285 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10948232 AATAAAAGAA
10948242 AAAATAGAAAAAAGAAACAAAGG
1 AAAATAGAAAAAAGAAACAAAGG
* *
10948265 AAAATA-AAACAAGAAAGAAAG
1 AAAATAGAAAAAAGAAACAAAG
10948286 AAAGAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.05
Consensus pattern (23 bp):
AAAATAGAAAAAAGAAACAAAGG
Found at i:10948307 original size:37 final size:40
Alignment explanation
Indices: 10948236--10948328 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 40
10948226 CAAATAAATA
*
10948236 AAAGAAAAAATAGAAAAAAGAAACAAAGGAAAATAAAACA-AG
1 AAAGAAAGAA-AG-AAAAAGAAACAAAGGAAAATAAAA-AGAG
10948278 AAAGAAAGAAAGAAAAAG-AA-AAAGG-AAATAAAAAGAG
1 AAAGAAAGAAAGAAAAAGAAACAAAGGAAAATAAAAAGAG
10948315 AAAG-AAGAAAGAAA
1 AAAGAAAGAAAGAAA
10948329 GCCACGGCCT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
36 11 0.22
37 14 0.29
38 5 0.10
39 2 0.04
40 6 0.12
41 2 0.04
42 9 0.18
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.03
Consensus pattern (40 bp):
AAAGAAAGAAAGAAAAAGAAACAAAGGAAAATAAAAAGAG
Found at i:10948310 original size:17 final size:17
Alignment explanation
Indices: 10948250--10948318 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
10948240 AAAAAATAGA
10948250 AAAAAGAAACAAAGGAAAAT
1 AAAAAG-AA-AAAGG-AAAT
* *
10948270 AAAACAAGAAAGAAAGAAAG
1 -AAA-AAGAAA-AAGGAAAT
10948290 AAAAAGAAAAAGGAAAT
1 AAAAAGAAAAAGGAAAT
*
10948307 AAAAAGAGAAAG
1 AAAAAGAAAAAG
10948319 AAGAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 17 0.41
18 6 0.15
19 3 0.07
20 4 0.10
21 8 0.20
22 3 0.07
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAGGAAAT
Found at i:10949303 original size:41 final size:41
Alignment explanation
Indices: 10949235--10949337 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
10949225 TTTATTTCGG
* * * *
10949235 TTTAACCGATGTGACACTAGGTGTCAATATACTACTTCAAA
1 TTTATCCGATGAGACACTGGGTATCAATATACTACTTCAAA
* **
10949276 TTTATCCGATGAGACACTGGGTATCAATTTACTACTTTGAA
1 TTTATCCGATGAGACACTGGGTATCAATATACTACTTCAAA
* *
10949317 -TTATCCGACGAGGCACTGGGT
1 TTTATCCGATGAGACACTGGGT
10949338 GCCAAACTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 19 0.36
41 34 0.64
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (41 bp):
TTTATCCGATGAGACACTGGGTATCAATATACTACTTCAAA
Found at i:10955830 original size:23 final size:23
Alignment explanation
Indices: 10955800--10955846 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10955790 CAAGCAAAAG
10955800 AATAGGGTAAGAGTTCAATTATT
1 AATAGGGTAAGAGTTCAATTATT
10955823 AATAGGGTAAGAGTTCAATTATT
1 AATAGGGTAAGAGTTCAATTATT
10955846 A
1 A
10955847 TTAAAGGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (23 bp):
AATAGGGTAAGAGTTCAATTATT
Found at i:10964706 original size:24 final size:20
Alignment explanation
Indices: 10964665--10964702 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10964655 ATATGTTAGC
10964665 TTAAAAAATAAATTAAACTA
1 TTAAAAAATAAATTAAACTA
10964685 TTAAAAAATAAATTAAAC
1 TTAAAAAATAAATTAAAC
10964703 AAACCATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAAAAATAAATTAAACTA
Found at i:10968034 original size:29 final size:31
Alignment explanation
Indices: 10968001--10968071 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
10967991 AAGTTTACGT
*
10968001 TTTGGTCACTGATGTT-TCAGTTG-TAACAA
1 TTTGGTCACTGATGTTATCAATTGATAACAA
*
10968030 TTTGGTCACAGATGTTATCAATTGATAACAA
1 TTTGGTCACTGATGTTATCAATTGATAACAA
10968061 TTTGGTCACTG
1 TTTGGTCACTG
10968072 GTCTCTGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 15 0.41
30 6 0.16
31 16 0.43
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (31 bp):
TTTGGTCACTGATGTTATCAATTGATAACAA
Found at i:10968062 original size:31 final size:29
Alignment explanation
Indices: 10968001--10968069 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
10967991 AAGTTTACGT
* *
10968001 TTTGGTCACTGATGTTTCAGTTGTAACAA
1 TTTGGTCACAGATGTTTCAATTGTAACAA
10968030 TTTGGTCACAGATGTTATCAATTGATAACAA
1 TTTGGTCACAGATGTT-TCAATTG-TAACAA
10968061 TTTGGTCAC
1 TTTGGTCAC
10968070 TGGTCTCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 15 0.42
30 6 0.17
31 15 0.42
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (29 bp):
TTTGGTCACAGATGTTTCAATTGTAACAA
Found at i:10970581 original size:297 final size:296
Alignment explanation
Indices: 10970038--10970632 Score: 1129
Period size: 297 Copynumber: 2.0 Consensus size: 296
10970028 AAATAATTCT
10970038 TATATAGTATTTTAAAAAATATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
1 TATATAGTATTTTAAAAAATATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
10970103 TAAAACATTTTTTTCATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
66 TAAAACATTTTTTTCATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
10970168 AGGAAAGAGACAAAAAAAATGATGGTGTTAAGAAGACCAGTTCACTTAAACAGGCAAAAAATCGA
131 AGGAAAGAGACAAAAAAAATGATGGTGTTAAGAAGACCAGTTCACTTAAACAGGCAAAAAATCGA
*
10970233 AAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATGC
196 AAAAGCAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATGC
10970298 TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
261 TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
10970334 TATATAGTATTTTTAAAAAA-ATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAAT
1 TATATAGTA-TTTTAAAAAATATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAAT
*
10970398 ATAAAACATTTTTTTTATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAAC
65 ATAAAACATTTTTTTCATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAAC
*
10970463 AAGGAAAGAGACAAAAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAGGCAAAAAATC
130 AAGGAAAGAGAC-AAAAAAAATGATGGTGTTAAGAAGACCAGTTCACTTAAACAGGCAAAAAATC
*
10970528 GAAAAAGCAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATATT
194 GAAAAAGCAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAAT
10970593 GCTTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
259 GCTTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
10970631 TA
1 TA
10970633 ATTCTTTGAA
Statistics
Matches: 293, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
296 129 0.44
297 164 0.56
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (296 bp):
TATATAGTATTTTAAAAAATATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
TAAAACATTTTTTTCATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
AGGAAAGAGACAAAAAAAATGATGGTGTTAAGAAGACCAGTTCACTTAAACAGGCAAAAAATCGA
AAAAGCAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATGC
TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
Found at i:10971574 original size:21 final size:21
Alignment explanation
Indices: 10971548--10971595 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
10971538 GAAGCTTGAA
* *
10971548 AGCTGAATAGAAGCTCATAAG
1 AGCTGAACAAAAGCTCATAAG
*
10971569 AGCTGAACAAAAGCTCGTAAG
1 AGCTGAACAAAAGCTCATAAG
10971590 AGCTGA
1 AGCTGA
10971596 TCTACCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AGCTGAACAAAAGCTCATAAG
Found at i:10976381 original size:102 final size:103
Alignment explanation
Indices: 10976171--10976388 Score: 221
Period size: 102 Copynumber: 2.1 Consensus size: 103
10976161 TCTAGTCCAA
*
10976171 AAAGTATTA-ATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATACCCCTCTTGAAA
1 AAAGTA-TAGATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATACCCCTCTTAAAA
** * * *
10976235 GTAATACCAAAATGACATTTTGTTTTTCACAAACCATAC
65 ACAATACCAAAATGACATTATGTTTTTCAAAAAACATAC
* * * * ** *
10976274 TAAGTATAGATACC-TTTTGGTCAAGTATCGATATTTTTTGAATTATTGATACTTGCTTTTAAAA
1 AAAGTATAGATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATAC-CCCTCTTAAAA
* *
10976338 ACGATACCAACAT-AGCATTATGTTTCTT-AAAAAAC-TAC
65 ACAATACCAAAATGA-CATTATGTTT-TTCAAAAAACATAC
*
10976376 AAAGTATCGATAC
1 AAAGTATAGATAC
10976389 GGTATTGATA
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
102 52 0.55
103 40 0.43
104 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (103 bp):
AAAGTATAGATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATACCCCTCTTAAAAA
CAATACCAAAATGACATTATGTTTTTCAAAAAACATAC
Found at i:10980970 original size:27 final size:27
Alignment explanation
Indices: 10980940--10981001 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
10980930 TTCTTGAAAC
*
10980940 TAACTATTATCACGATGAAGGCAAGTG
1 TAACTATTATCACGATAAAGGCAAGTG
10980967 TAACTATTATCACGATAAAGGCAAGTG
1 TAACTATTATCACGATAAAGGCAAGTG
*
10980994 TACCTATT
1 TAACTATT
10981002 GAACAGTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (27 bp):
TAACTATTATCACGATAAAGGCAAGTG
Found at i:10981572 original size:14 final size:13
Alignment explanation
Indices: 10981541--10981579 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
10981531 TTTCCTGGAA
10981541 AATTAA-AACAAG
1 AATTAAGAACAAG
*
10981553 AATTAAGAACAGAT
1 AATTAAGAACA-AG
10981567 AATTAAGAACAAG
1 AATTAAGAACAAG
10981580 TCAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.18
Consensus pattern (13 bp):
AATTAAGAACAAG
Found at i:10989316 original size:22 final size:22
Alignment explanation
Indices: 10989275--10989323 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
10989265 ATTCATATAG
*
10989275 TCAAATAAATATTTACTTC-AT
1 TCAAATAAATATTAACTTCAAT
10989296 TCAAATTAAATA-TAACATTCAAT
1 TCAAA-TAAATATTAAC-TTCAAT
10989319 TCAAA
1 TCAAA
10989324 CATGTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
23 7 0.29
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TCAAATAAATATTAACTTCAAT
Found at i:10991187 original size:26 final size:24
Alignment explanation
Indices: 10991143--10991191 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
10991133 ATTTGTCTTA
*
10991143 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
10991167 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
10991192 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:10999711 original size:13 final size:13
Alignment explanation
Indices: 10999695--10999729 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
10999685 AAAACAATAC
10999695 CCAAACAGTGTAA
1 CCAAACAGTGTAA
10999708 CCAAACAGTGTAA
1 CCAAACAGTGTAA
10999721 CCAAACAGT
1 CCAAACAGT
10999730 TTCGAACAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (13 bp):
CCAAACAGTGTAA
Found at i:11002215 original size:36 final size:36
Alignment explanation
Indices: 11002175--11002247 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
11002165 GAACTCGGGT
11002175 GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
1 GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
*
11002211 GTAGGTTTCTGTTTTACACTATTACAATGAACATCA
1 GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
11002247 G
1 G
11002248 ACTTCCCTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (36 bp):
GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
Found at i:11010607 original size:26 final size:26
Alignment explanation
Indices: 11010578--11010687 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
11010568 TGGTACAAAT
11010578 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
11010604 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11010630 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
11010656 TTATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
11010682 TGATAA
1 TGATAA
11010688 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:11019031 original size:21 final size:21
Alignment explanation
Indices: 11018982--11019031 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
11018972 AGTGTTATTG
* *
11018982 AGTTAGTTTTAAAGTTTCGTT
1 AGTTAATTTTAAAGTTTCGGT
** *
11019003 AGGAAATTTTAACGTTTCGGT
1 AGTTAATTTTAAAGTTTCGGT
11019024 AGTTAATT
1 AGTTAATT
11019032 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (21 bp):
AGTTAATTTTAAAGTTTCGGT
Found at i:11022451 original size:21 final size:22
Alignment explanation
Indices: 11022392--11022457 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 22
11022382 CAGAAGCAGT
* *
11022392 ATACTACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
* ** *
11022414 A-ACGAAACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
11022434 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
11022456 AT
1 AT
11022458 GGCAAAACCG
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:11023326 original size:7 final size:7
Alignment explanation
Indices: 11023308--11023337 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
11023298 ACTATATATA
11023308 ATATAAT
1 ATATAAT
11023315 AATATAAT
1 -ATATAAT
11023323 ATATAAT
1 ATATAAT
11023330 ATATAAT
1 ATATAAT
11023337 A
1 A
11023338 AAACATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:11023345 original size:17 final size:20
Alignment explanation
Indices: 11023305--11023351 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
11023295 TTTACTATAT
*
11023305 ATAATATAATAATATAATAT
1 ATAATATAATAATATAATAC
11023325 ATAATAT-ATAATA-AA-AC
1 ATAATATAATAATATAATAC
11023342 ATAATA-AATA
1 ATAATATAATA
11023352 TCTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 6 0.24
20 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATATAATAATATAATAC
Found at i:11023980 original size:20 final size:19
Alignment explanation
Indices: 11023934--11023980 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
11023924 AGTCCTTTTT
*
11023934 CCTAATTTCTCCTAATTAAG
1 CCTAA-TTCACCTAATTAAG
11023954 -CTAAATTCACCTAATTAAAG
1 CCT-AATTCACCTAATT-AAG
11023974 CCTAATT
1 CCTAATT
11023981 AAACACACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (19 bp):
CCTAATTCACCTAATTAAG
Found at i:11024271 original size:45 final size:43
Alignment explanation
Indices: 11024175--11024272 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 43
11024165 TACATGTATA
* *
11024175 ATTATAAATAATGTATATCCAAATCAATTATAACAAAAATAAT
1 ATTACAAATAATGTATAACCAAATCAATTATAACAAAAATAAT
*
11024218 ACTCTACAAATAATGTATAACCAAATCAATTATAATAAAAATAAAGT
1 A-T-TACAAATAATGTATAACCAAATCAATTATAACAAAAAT-AA-T
11024265 ATTACAAA
1 ATTACAAA
11024273 GTATAATCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
43 1 0.02
44 1 0.02
45 41 0.85
46 3 0.06
47 2 0.04
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (43 bp):
ATTACAAATAATGTATAACCAAATCAATTATAACAAAAATAAT
Found at i:11029103 original size:21 final size:22
Alignment explanation
Indices: 11029057--11029104 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
11029047 CTAGTATAAT
*
11029057 TGATTTATGCCTTATGTGTTAG
1 TGATTTATGCCTTATGTGCTAG
11029079 -GATTTATGCCATTAT-TGCT-G
1 TGATTTATGCC-TTATGTGCTAG
11029099 TGATTT
1 TGATTT
11029105 CATCATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (22 bp):
TGATTTATGCCTTATGTGCTAG
Found at i:11029637 original size:25 final size:25
Alignment explanation
Indices: 11029604--11029652 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11029594 ACATGGCATG
*
11029604 TCAACAACTATATAATGGCTATTTA
1 TCAACAACTATATAATGGATATTTA
11029629 TCAACAACTATATAATGGATATTT
1 TCAACAACTATATAATGGATATTT
11029653 TTAAGCTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (25 bp):
TCAACAACTATATAATGGATATTTA
Found at i:11044324 original size:29 final size:30
Alignment explanation
Indices: 11044265--11044325 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
11044255 ATATATAAAA
* *
11044265 TTTTAAAATATATAAAAATACATACATATT
1 TTTTAAAATATATAAAAATAAATACAAATT
* **
11044295 TTTTAAAA-ATATAATAATAAATTTAAATT
1 TTTTAAAATATATAAAAATAAATACAAATT
11044324 TT
1 TT
11044326 ATATTAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
TTTTAAAATATATAAAAATAAATACAAATT
Found at i:11050770 original size:22 final size:22
Alignment explanation
Indices: 11050742--11050798 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
11050732 ATCTCAAACG
11050742 CACACGGGCGTGTCTCTGTGTC
1 CACACGGGCGTGTCTCTGTGTC
11050764 CACACGGGCGTGTCTCTGTGTC
1 CACACGGGCGTGTCTCTGTGTC
11050786 CACACGGGCGTGT
1 CACACGGGCGTGT
11050799 GACTTTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.11, C:0.32, G:0.33, T:0.25
Consensus pattern (22 bp):
CACACGGGCGTGTCTCTGTGTC
Found at i:11057025 original size:18 final size:18
Alignment explanation
Indices: 11056953--11057120 Score: 135
Period size: 18 Copynumber: 9.3 Consensus size: 18
11056943 ATCGGTTTTC
*
11056953 CAGTAACTGTCAATTATT
1 CAGTAACAGTCAATTATT
* *
11056971 TAGTAA-ATTCAGA-TATT
1 CAGTAACAGTCA-ATTATT
* * * *
11056988 CAATAGCAATTAAGTTATT
1 CAGTAACAGTCAA-TTATT
*
11057007 CAGTAACAGTCATTTATT
1 CAGTAACAGTCAATTATT
* * *
11057025 CAGTGACAATCAGTTATT
1 CAGTAACAGTCAATTATT
*
11057043 CAGTAA-TGATCAATTATT
1 CAGTAACAG-TCAATTATT
* * *
11057061 CAGTAATATTCAGTTATT
1 CAGTAACAGTCAATTATT
*
11057079 CAGTAACAGTCAATTTTT
1 CAGTAACAGTCAATTATT
*
11057097 CGGTAACAGTCAATTATT
1 CAGTAACAGTCAATTATT
11057115 CAGTAA
1 CAGTAA
11057121 TTATCAGTTA
Statistics
Matches: 114, Mismatches: 30, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
17 11 0.10
18 91 0.80
19 12 0.11
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
CAGTAACAGTCAATTATT
Found at i:11057121 original size:54 final size:54
Alignment explanation
Indices: 11057002--11057132 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
11056992 AGCAATTAAG
* * * * * *
11057002 TTATTCAGTAACAGTCATTTATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TTATTCAGTAATATTCAGTTATTCAGTAACAATCAATTATTCAGTAAAGATCAA
* * *
11057056 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCAATTTTTCGGTAACAG-TCAA
1 TTATTCAGTAATATTCAGTTATTCAGTAACAATCAATTATTCAGTAA-AGATCAA
11057110 TTATTCAGTAAT-TATCAGTTATT
1 TTATTCAGTAATAT-TCAGTTATT
11057133 TTATACCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.02
54 64 0.97
55 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (54 bp):
TTATTCAGTAATATTCAGTTATTCAGTAACAATCAATTATTCAGTAAAGATCAA
Found at i:11057307 original size:6 final size:6
Alignment explanation
Indices: 11057296--11057320 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11057286 ACAAATCCAG
11057296 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
11057321 TTCAACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:11057357 original size:45 final size:45
Alignment explanation
Indices: 11057301--11057410 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
11057291 TCCAGAACAG
* *
11057301 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATTGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * *
11057346 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* *
11057391 TAACAGTAACGGCAACAGTA
1 TAACAGTAACAGTAACAGTA
11057411 ACAGTGGTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:11059125 original size:5 final size:5
Alignment explanation
Indices: 11059115--11059160 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
11059105 TTACTTATTT
*
11059115 ATATA ATATAA TATATA ATATA ATATA ATAAAA ATATA ATATA ATA
1 ATATA ATAT-A -ATATA ATATA ATATA AT-ATA ATATA ATATA ATA
11059161 ACAATTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 26 0.72
6 6 0.17
7 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:11059292 original size:21 final size:22
Alignment explanation
Indices: 11059253--11059306 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
11059243 CATACAATTG
* *
11059253 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATAA
*
11059275 TTAATATAA-ATTACAATATAA
1 TTAAAATAATATTACAATATAA
11059296 TTAAAATAATA
1 TTAAAATAATA
11059307 ATATAGTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAATAATATTACAATATAA
Found at i:11062332 original size:565 final size:566
Alignment explanation
Indices: 11061262--11062384 Score: 2095
Period size: 565 Copynumber: 2.0 Consensus size: 566
11061252 ATTTTTTATT
* *
11061262 GTATCTAGTAGACTTGAAGATATTTAGTGTGTATGGTCTGATTTTCGTTTGATATACTATAGCTT
1 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
*
11061327 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTTAAGTTTGC
66 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTAAAGTTTGC
11061392 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
131 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
11061457 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
196 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
*
11061522 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTTCG
261 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTGCG
* *
11061587 TTGATTATTGATATATTGTATTATTCGGTTTGCCATAATTACCAAATTGATTTACAGGGAGTGAA
326 TTAATTATTGATATATTGTATTATTCGATTTGCCATAATTACCAAATTGATTTACAGGGAGTGAA
* * *
11061652 AGAACACTGATTGTGCTTCTATATTGTTTCTTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
391 AGAACACTGATTGTACTTCTACATTGTTTCCTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
11061717 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
456 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
11061782 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAA
521 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAA
11061828 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
1 GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
*
11061893 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTTTGATATTCTCAACTTTTCTCTAAAGTTTGC
66 CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTAAAGTTTGC
11061958 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
131 TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
*
11062023 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAG-TTTTACCCTTTGCTTTAAAGGGGTT
196 ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
11062087 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTGCG
261 CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTGCG
*
11062152 TTAATTATTGATATATTGTATTATTCGATTTGCCATAATTACCAAATTGATTTATAGGGAGTGAA
326 TTAATTATTGATATATTGTATTATTCGATTTGCCATAATTACCAAATTGATTTACAGGGAGTGAA
* * *
11062217 AGAACATTGATTGTACTTCTACATTGTTTCCTCGAGTTCAATTTTATTCTAACAAAATGGTATCA
391 AGAACACTGATTGTACTTCTACATTGTTTCCTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
*
11062282 GAGCTTGATTTTCGTGTTTAGTAATCATGTAAATTATCATTAGTAAGATGATTATATTGAATGAC
456 GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
11062347 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTC
521 AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTC
11062385 TGTTAGTGAA
Statistics
Matches: 541, Mismatches: 16, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
565 311 0.57
566 230 0.43
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.43
Consensus pattern (566 bp):
GTATCTAGTAGACTTGAAGATATTTAATGTGTACGGTCTGATTTTCGTTTGATATACTATAGCTT
CGCGATTTTTGACTTTTAAAGTCAACCTCTTTTTGTGATATTCTCAACTTTTCTCTAAAGTTTGC
TTTAGTCTTGTTTGAGTTGTATACTCTTTATGGTGGCTTGGTTGTGATCTTATAGCAAGACTCTG
ATTATAGTGAAAATTTTGGCGTACTTTCAAGTTCTGTAGTTTTTACCCTTCGCTTTAAAGGGGTT
CTCCATGTAAAAATTGTGTGTTTCGATTTATTATTATTATTTTACGATATTGTGGTTGATTTGCG
TTAATTATTGATATATTGTATTATTCGATTTGCCATAATTACCAAATTGATTTACAGGGAGTGAA
AGAACACTGATTGTACTTCTACATTGTTTCCTCGAGTTCAATTTCATTCTAACAAAATAGTATCA
GAGCTTGATTTTCGTGTTTAGTAATCATGAAAATTATCATTAGTAAGATGATTATATTGAATGAC
AAATTATCAACTTTGGCAGAAAAAAATGAAAGATCTTCAATTTCAA
Found at i:11067435 original size:24 final size:24
Alignment explanation
Indices: 11067408--11067454 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11067398 ATATGTTGAC
11067408 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
11067432 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
11067455 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:11067488 original size:24 final size:24
Alignment explanation
Indices: 11067418--11067480 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
11067408 ATTCAAATCA
* * * *
11067418 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
11067442 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
11067466 GCACACATAGTGCCA
1 GCACACATAGTGCCA
11067481 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:11071449 original size:26 final size:26
Alignment explanation
Indices: 11071420--11071470 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
11071410 TTCAAGTAAG
11071420 TTCAACTCATGATTATTTCTTAAAAA
1 TTCAACTCATGATTATTTCTTAAAAA
* *
11071446 TTCAATTCTTGATTATTTCTTAAAA
1 TTCAACTCATGATTATTTCTTAAAA
11071471 TTTTTGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (26 bp):
TTCAACTCATGATTATTTCTTAAAAA
Found at i:11072913 original size:50 final size:51
Alignment explanation
Indices: 11072836--11072962 Score: 193
Period size: 50 Copynumber: 2.5 Consensus size: 51
11072826 GACCATGGCA
* * *
11072836 ACAAGTGATGAGTGATAGCTTCGGCTACACTTATCTGATCAAGTACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
11072887 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGGTCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
11072937 ACAAGTGAAAAGTGGTAGCTTCGGCT
1 ACAAGTGATAAGTGATAGCTTCGGCT
11072963 CCCTGATCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.67
51 23 0.33
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:11072977 original size:31 final size:31
Alignment explanation
Indices: 11072940--11073088 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
11072930 ACAAATGACA
*
11072940 AGTGAAAAGTGGTAGCTTCGGCTCCCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11072971 ATTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11073002 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11073033 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11073064 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
11073089 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:11073228 original size:46 final size:47
Alignment explanation
Indices: 11073108--11073229 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
11073098 GTGATTTCCA
* * * *
11073108 TATAAAACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
11073155 TATAAGACCATATCTGGGATATAGCATCAGTGAGATATGTGATTC-G
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
11073201 TGTAAGACCATAGCTGGGCTATGGCATCA
1 TATAAGACCATATCTGGGATATGGCATCA
11073230 TTATGTGAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 26 0.41
47 38 0.59
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
Found at i:11073995 original size:24 final size:24
Alignment explanation
Indices: 11073968--11074017 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
11073958 CCGAATTATA
*
11073968 TAATAA-ATATATATTTTTTATTTT
1 TAATAATATATATA-TTTATATTTT
* *
11073992 TAATCATATTTATATTTATATTTT
1 TAATAATATATATATTTATATTTT
11074016 TA
1 TA
11074018 TTTTAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TAATAATATATATATTTATATTTT
Found at i:11074106 original size:40 final size:41
Alignment explanation
Indices: 11074034--11074128 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 41
11074024 TATAATCAAT
* *
11074034 TTTTATTATATTTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATATTTTAATTTGTGTATTGTTTTAAGAATTG
* * * *
11074075 TTTTAATATATATTTT-ATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATATTTTAATTTGTGTATTGTTTTAAGAATTG
*
11074115 TTTTAA-ATGTATTT
1 TTTTAATATATATTT
11074129 GATTATTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 7 0.15
40 26 0.55
41 14 0.30
ACGTcount: A:0.24, C:0.01, G:0.09, T:0.65
Consensus pattern (41 bp):
TTTTAATATATATTTTAATTTGTGTATTGTTTTAAGAATTG
Found at i:11075868 original size:18 final size:18
Alignment explanation
Indices: 11075841--11075876 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11075831 GGAATTCGAG
11075841 AGCTTCGATTCCCTCTTA
1 AGCTTCGATTCCCTCTTA
*
11075859 AGCTTTGATTCCCTCTTA
1 AGCTTCGATTCCCTCTTA
11075877 TTCCTACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (18 bp):
AGCTTCGATTCCCTCTTA
Found at i:11078120 original size:18 final size:18
Alignment explanation
Indices: 11078097--11078131 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11078087 CATGTGATCT
*
11078097 GCCCGTGTGAGCCCACAC
1 GCCCGTGTAAGCCCACAC
11078115 GCCCGTGTAAGCCCACA
1 GCCCGTGTAAGCCCACA
11078132 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11
Consensus pattern (18 bp):
GCCCGTGTAAGCCCACAC
Found at i:11081284 original size:10 final size:9
Alignment explanation
Indices: 11081271--11081295 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11081261 AAAAATATGT
11081271 AAAAAATAA
1 AAAAAATAA
11081280 AAAAAATAA
1 AAAAAATAA
11081289 AAAAAAT
1 AAAAAAT
11081296 TATTTTCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:11085588 original size:5 final size:5
Alignment explanation
Indices: 11085578--11085602 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11085568 ATGCATTCCC
11085578 CACAA CACAA CACAA CACAA CACAA
1 CACAA CACAA CACAA CACAA CACAA
11085603 TTTCACTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
CACAA
Found at i:11085656 original size:12 final size:12
Alignment explanation
Indices: 11085639--11085666 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11085629 TCTCTTTCAA
11085639 AAAAGGTATTTT
1 AAAAGGTATTTT
11085651 AAAAGGTATTTT
1 AAAAGGTATTTT
11085663 AAAA
1 AAAA
11085667 TACCTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (12 bp):
AAAAGGTATTTT
Found at i:11085937 original size:30 final size:31
Alignment explanation
Indices: 11085903--11085964 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
11085893 TATATATAAT
*
11085903 ATTATATATTTGAA-ATAAAT-TTAAAAAATA
1 ATTATATATCT-AATATAAATATTAAAAAATA
*
11085933 ATTATATATCTAATATAAATATTAAATAATA
1 ATTATATATCTAATATAAATATTAAAAAATA
11085964 A
1 A
11085965 ATGAGAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 16 0.57
31 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (31 bp):
ATTATATATCTAATATAAATATTAAAAAATA
Found at i:11087377 original size:12 final size:12
Alignment explanation
Indices: 11087356--11087386 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11087346 AATCAGTAAT
11087356 CAGTAACAGTAG
1 CAGTAACAGTAG
*
11087368 CAGTAGCAGTAG
1 CAGTAACAGTAG
11087380 CAGTAAC
1 CAGTAAC
11087387 GGTAACAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (12 bp):
CAGTAACAGTAG
Found at i:11088757 original size:33 final size:32
Alignment explanation
Indices: 11088699--11088761 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
11088689 ATTATTTAAT
11088699 TAATAAATATCTCTTAATTATAATAATAATAAA
1 TAATAAATATCTCTTAATTATAATAA-AATAAA
11088732 TAATAAATATCTAC-TAATT-TAAATAAAATA
1 TAATAAATATCT-CTTAATTAT-AATAAAATA
11088762 TTATAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.18
33 22 0.79
34 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAAATATCTCTTAATTATAATAAAATAAA
Found at i:11095147 original size:6 final size:6
Alignment explanation
Indices: 11095136--11095173 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
11095126 AACATTTGGA
* *
11095136 AACCCT AACCCT AGCCCC AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AA
11095174 ACATTTGTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.50, G:0.03, T:0.13
Consensus pattern (6 bp):
AACCCT
Found at i:11096753 original size:21 final size:24
Alignment explanation
Indices: 11096728--11096797 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
11096718 GAATCAAGCT
11096728 TCGTTACA-TTT-AT-CAAATAAA
1 TCGTTACATTTTAATCCAAATAAA
**
11096749 TCGTTTTATTTTAATCCAAATAAA
1 TCGTTACATTTTAATCCAAATAAA
** *
11096773 TCGTTTTATTTTAATCCAAACAAA
1 TCGTTACATTTTAATCCAAATAAA
11096797 T
1 T
11096798 AATGCAAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 2 0.05
24 32 0.74
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (24 bp):
TCGTTACATTTTAATCCAAATAAA
Found at i:11096799 original size:28 final size:24
Alignment explanation
Indices: 11096741--11096797 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
11096731 TTACATTTAT
11096741 CAAATAAATCGTTTTATTTTAATC
1 CAAATAAATCGTTTTATTTTAATC
11096765 CAAATAAATCGTTTTATTTTAATC
1 CAAATAAATCGTTTTATTTTAATC
*
11096789 CAAACAAAT
1 CAAATAAAT
11096798 AATGCAAGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (24 bp):
CAAATAAATCGTTTTATTTTAATC
Found at i:11107227 original size:24 final size:20
Alignment explanation
Indices: 11107181--11107220 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11107171 ATGCCAAACT
*
11107181 AGGAAGGACCTTATGTAATA
1 AGGAAGGACCTTATATAATA
11107201 AGGAAGGACCTTATATAATA
1 AGGAAGGACCTTATATAATA
11107221 CAGAAGGCCT
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:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (20 bp):
AGGAAGGACCTTATATAATA
Found at i:11108573 original size:64 final size:64
Alignment explanation
Indices: 11108450--11108573 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
11108440 TCATTCATAA
* * *
11108450 CACATCTAGTTAGGAGCATTGGATTCATTTTGATCATAGCATCCTAATTATTTTACATAATCAT
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAAATATTTGACATAATCAT
* * * *
11108514 CACATCTAGTTAGGAGCATTTGATTCATTTCGATTATAGTATCCTAAATATTTGGCATAA
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAAATATTTGACATAA
11108574 GCATAGATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAAATATTTGACATAATCAT
Found at i:11108977 original size:178 final size:178
Alignment explanation
Indices: 11108678--11109016 Score: 527
Period size: 178 Copynumber: 1.9 Consensus size: 178
11108668 GGGTAATAGG
*** **
11108678 CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATTGGAAATGGTGAGTCTTAT
1 CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATCAAAAATGGCAAGTCTTAT
* * **
11108743 CTCCATGTATCGACTATGGAGTAGATTTTAGCCACCAGTCGTATCTCTCTGAGGTAGCAAGAGAG
66 ATCCATGTATCGACTATGGAGCAGATTTTAGCCACCAACCGTATCTCTCTGAGGTAGCAAGAGAG
* *
11108808 TAGGTTGAATATACAAGTCTTATATTCCTGAGGTAACAAGGAAGCAGA
131 CAGGTTGAAGATACAAGTCTTATATTCCTGAGGTAACAAGGAAGCAGA
* *
11108856 CTAAAAATTACAGATCTTATCTCCATGTATCGGTTATGGAGCAGATCAAAAATGGCAAGTCTTAT
1 CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATCAAAAATGGCAAGTCTTAT
*
11108921 ATCCATGTATCTG-CTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGA
66 ATCCATGTATC-GACTATGGAGCAGATTTTAGCCACCAACCGTATCTCTCTGAGGTAGCAAGAGA
*
11108985 GCAGGTTGAAGATACAAGTCTTATCTTCCTGA
130 GCAGGTTGAAGATACAAGTCTTATATTCCTGA
11109017 AGTAGTAAGA
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
178 144 0.99
179 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (178 bp):
CTAAAAATTACAGATCTTATCTCCAAGTATCGGCTATGGAGCAGATCAAAAATGGCAAGTCTTAT
ATCCATGTATCGACTATGGAGCAGATTTTAGCCACCAACCGTATCTCTCTGAGGTAGCAAGAGAG
CAGGTTGAAGATACAAGTCTTATATTCCTGAGGTAACAAGGAAGCAGA
Found at i:11109009 original size:44 final size:44
Alignment explanation
Indices: 11108960--11109101 Score: 182
Period size: 44 Copynumber: 3.2 Consensus size: 44
11108950 AGCCACCAAC
11108960 CTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
1 CTTATCTTC-CTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
* * *
11109004 CTTATCTTCCTGAAGTAGTAAGAGAGCAGGTCGAAGATACAAGT
1 CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
** *
11109048 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAAATCACAAGT
1 CTTATCTTCCTGAGGTAGCAAGAG-AGCAGGTTGAAGAT-ACAAGT
11109093 CTTAT-TTCC
1 CTTATCTTCC
11109102 CCTAAAGTTG
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.01
44 72 0.84
45 13 0.15
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGT
Found at i:11118058 original size:127 final size:127
Alignment explanation
Indices: 11117709--11118018 Score: 593
Period size: 127 Copynumber: 2.4 Consensus size: 127
11117699 ACAGAAGATT
11117709 TGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTTCGGTTTGTT
1 TGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTTCGGTTTGTT
11117774 CAAAATAATTGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTCTAAAGCAAGGCAA
66 CAAAATAATTGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTCTAAAGCAAGGCAA
11117836 TGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTTCGGTTTGTT
1 TGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTTCGGTTTGTT
11117901 CAAAATAATTGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTCTAAAGCAAGGCAA
66 CAAAATAATTGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTCTAAAGCAAGGCAA
* * *
11117963 TGTTCAATGTTTAGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCGATTTT
1 TGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTT
11118019 TCGTTGGACT
Statistics
Matches: 180, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 180 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (127 bp):
TGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTTGATTTTCGGTTTGTT
CAAAATAATTGAATATTCCTTTAGAATTTCACTCGTATTTTATAAATTCTAAAGCAAGGCAA
Found at i:11127877 original size:10 final size:10
Alignment explanation
Indices: 11127848--11127901 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 10
11127838 AAATATCTTT
*
11127848 AAAAGTATAA
1 AAAATTATAA
11127858 GAAAAGTTATAA
1 -AAAA-TTATAA
11127870 AAAATTAT-A
1 AAAATTATAA
11127879 AAAATTATAA
1 AAAATTATAA
11127889 AAATATATATAA
1 AAA-AT-TATAA
11127901 A
1 A
11127902 TAAAATTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 9 0.24
10 8 0.21
11 10 0.26
12 11 0.29
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (10 bp):
AAAATTATAA
Found at i:11127886 original size:19 final size:21
Alignment explanation
Indices: 11127859--11127901 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
11127849 AAAGTATAAG
*
11127859 AAAAGTTATAAAAA-AT-TAT
1 AAAAATTATAAAAATATATAT
11127878 AAAAATTATAAAAATATATAT
1 AAAAATTATAAAAATATATAT
11127899 AAA
1 AAA
11127902 TAAAATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 2 0.10
21 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAATTATAAAAATATATAT
Found at i:11127903 original size:10 final size:9
Alignment explanation
Indices: 11127859--11127902 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
11127849 AAAGTATAAG
*
11127859 AAAAGTTAT
1 AAAAATTAT
11127868 AAAAAATTAT
1 -AAAAATTAT
11127878 AAAAATTAT
1 AAAAATTAT
11127887 AAAAATATAT
1 AAAAAT-TAT
*
11127897 ATAAAT
1 AAAAAT
11127903 AAAATTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:11127975 original size:39 final size:40
Alignment explanation
Indices: 11127919--11128021 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
11127909 ATGTGTAATT
*
11127919 TTTTAAAAAAATT-TAAAAAAATTAT-AAAACTATTAGAAA
1 TTTT-AAAAAATTGTAAAAAAATTATAAAAAATATTAGAAA
* *
11127958 TTTTAAAATATTGTAAAAAAATTTTAAAAAATATTAGAAA
1 TTTTAAAAAATTGTAAAAAAATTATAAAAAATATTAGAAA
** * *
11127998 TCATAAAAGATTGT-GAAAAATTAT
1 TTTTAAAAAATTGTAAAAAAATTAT
11128022 TAATTTTTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 7 0.13
39 23 0.43
40 24 0.44
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (40 bp):
TTTTAAAAAATTGTAAAAAAATTATAAAAAATATTAGAAA
Found at i:11128172 original size:14 final size:14
Alignment explanation
Indices: 11128137--11128174 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11128127 TACAATCAAT
11128137 TTTTATAAAAATTA
1 TTTTATAAAAATTA
*
11128151 TATTATAAAAA-TA
1 TTTTATAAAAATTA
11128164 TTTTAATAAAA
1 TTTT-ATAAAA
11128175 TGAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTTATAAAAATTA
Found at i:11130633 original size:16 final size:17
Alignment explanation
Indices: 11130599--11130637 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
11130589 GAATTTTAAA
11130599 AAAAAAATTCAGAAATTT
1 AAAAAAATT-AGAAATTT
*
11130617 AAAAAAATT-GAATTTT
1 AAAAAAATTAGAAATTT
11130633 AAAAA
1 AAAAA
11130638 TTATAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAAAATTAGAAATTT
Found at i:11130743 original size:25 final size:25
Alignment explanation
Indices: 11130684--11130744 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
11130674 CATTTAAGAA
* * *
11130684 TATTTTTTCTCTTTTCATTTTCCTTT
1 TATTCTTTC-CTTTCCATTTTCCCTT
*
11130710 TATTTTTTCCTTTCCATTTTCCCCTT
1 TATTCTTTCCTTTCCATTTT-CCCTT
11130736 T-TTCTTTCC
1 TATTCTTTCC
11130745 AAGTTTCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (25 bp):
TATTCTTTCCTTTCCATTTTCCCTT
Found at i:11130751 original size:21 final size:21
Alignment explanation
Indices: 11130713--11130752 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11130703 TTCCTTTTAT
*
11130713 TTTTTCCTTTCCATTTTCCCC
1 TTTTTCCTTTCCAGTTTCCCC
11130734 TTTTT-CTTTCCAAGTTTCC
1 TTTTTCCTTTCC-AGTTTCC
11130753 ATAAAACCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.07, C:0.33, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTTCCTTTCCAGTTTCCCC
Found at i:11131379 original size:31 final size:32
Alignment explanation
Indices: 11131327--11131392 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
11131317 AAAGGGAAAG
11131327 ATAGAAAAAAGAAAAAAAAAATTAAGTTATATT
1 ATAGAAAAAAG-AAAAAAAAATTAAGTTATATT
*
11131360 ATAGAAAAAAG-GAAAAAAATTAAGTTATATT
1 ATAGAAAAAAGAAAAAAAAATTAAGTTATATT
11131391 AT
1 AT
11131393 TTTTAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 21 0.66
33 11 0.34
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.26
Consensus pattern (32 bp):
ATAGAAAAAAGAAAAAAAAATTAAGTTATATT
Found at i:11133626 original size:67 final size:65
Alignment explanation
Indices: 11133453--11133628 Score: 253
Period size: 65 Copynumber: 2.7 Consensus size: 65
11133443 TAGAATGTGA
* * * *
11133453 TTTTTGTATTGAAATTTCATTATTTTATCAACTTCAATTATTTACATATATTTGCATTATGTTTC
1 TTTTTTTATTGAATTTTCATTATTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTC
* ** *
11133518 TATTTTTATACAATTTTCATTATTGTATTAACTTAAATTATTTACATATATTTGCATTATGTTTC
1 TTTTTTTATTGAATTTTCATTATTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTC
*
11133583 TGTTTTTTTATTGAATTTTCATTATTGTATCAACTTTAATTATTTA
1 --TTTTTTTATTGAATTTTCATTATTGTATCAACTTAAATTATTTA
11133629 GATGAACTTG
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 57 0.59
67 39 0.41
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (65 bp):
TTTTTTTATTGAATTTTCATTATTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTC
Found at i:11140935 original size:42 final size:43
Alignment explanation
Indices: 11140888--11141034 Score: 190
Period size: 42 Copynumber: 3.3 Consensus size: 43
11140878 CATAGTTCAA
* * *
11140888 CTATGGTCTCACACATCTTCACATAAT-GATGCCATAGCCTAG
1 CTATGGTCTTACACATATTCACATAATCGATGCCATAGCCCAG
11140930 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATAATCGATGCCATAGCCCAG
*
11140972 CTATGGTCTTACACATAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCAC--AT---A-ATCGATGCCATAGCCCAG
11141021 CTATGGTCTTACAC
1 CTATGGTCTTACAC
11141035 GAATCACATA
Statistics
Matches: 93, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
41 2 0.02
42 57 0.61
44 2 0.02
49 32 0.34
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (43 bp):
CTATGGTCTTACACATATTCACATAATCGATGCCATAGCCCAG
Found at i:11141003 original size:49 final size:48
Alignment explanation
Indices: 11140941--11141077 Score: 188
Period size: 49 Copynumber: 2.9 Consensus size: 48
11140931 TATGGTCTTA
*
11140941 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACATAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
11140991 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * **
11141039 CACATATCTCA-CT-GATGCCATATCCCAAATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
11141078 TATAGTAGCA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 23 0.28
47 1 0.01
48 13 0.16
49 38 0.47
50 6 0.07
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:11141073 original size:46 final size:47
Alignment explanation
Indices: 11140956--11141120 Score: 161
Period size: 47 Copynumber: 3.5 Consensus size: 47
11140946 ATTCACATAT
* * * * * *
11140956 CGATGCCATAGCCCAGCTATGGTCTTACACATAATCACATATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCAC--AC
* * * * *
11141005 CGATGCCATAGCCCAGCTATGGTCTTACA-CGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
* * * * *
11141051 TGATGCCATATCCCAAATATGGTCTTATATAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
11141098 CGATGCCATATCCCAGATATGGT
1 CGATGCCATATCCCAGATATGGT
11141121 TTTATACGGA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
46 25 0.25
47 33 0.33
48 12 0.12
49 29 0.29
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
Found at i:11145790 original size:30 final size:30
Alignment explanation
Indices: 11145754--11145826 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
11145744 TGTCAAGGGA
*
11145754 TGAGGGCTTAATTGAGTACTTAAACTCGAC
1 TGAGGGCTTAATTGAGTACTTAAACTAGAC
* * *
11145784 TGAGGGCTCAATTGAGTACTTAAACTATAT
1 TGAGGGCTTAATTGAGTACTTAAACTAGAC
11145814 TGAGGGCTTAATT
1 TGAGGGCTTAATT
11145827 AGTTATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (30 bp):
TGAGGGCTTAATTGAGTACTTAAACTAGAC
Found at i:11147202 original size:17 final size:16
Alignment explanation
Indices: 11147180--11147222 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11147170 CACAATGCCA
11147180 ATGAAAAAAATTGATAT
1 ATGAAAAAAATT-ATAT
*
11147197 ATGAAAAATA-TATAT
1 ATGAAAAAAATTATAT
*
11147212 AAGAAAAAAAT
1 ATGAAAAAAAT
11147223 ATCAAATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 12 0.55
16 1 0.05
17 9 0.41
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
ATGAAAAAAATTATAT
Found at i:11150362 original size:20 final size:19
Alignment explanation
Indices: 11150316--11150367 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
11150306 TACAAGTTTC
**
11150316 TTTTATAA-TTTTCTATAA
1 TTTTATAAGTTTTAAATAA
*
11150334 TTGTATAAGTTTTAAATAA
1 TTTTATAAGTTTTAAATAA
*
11150353 TTTTTATAAGCTTTA
1 -TTTTATAAGTTTTA
11150368 CAATTTTAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 7 0.26
19 8 0.30
20 12 0.44
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTATAAGTTTTAAATAA
Found at i:11150394 original size:9 final size:9
Alignment explanation
Indices: 11150316--11150397 Score: 51
Period size: 9 Copynumber: 8.8 Consensus size: 9
11150306 TACAAGTTTC
11150316 TTTTATAAT
1 TTTTATAAT
11150325 TTTCTATAA-
1 TTT-TATAAT
*
11150334 TTGTATAAGT
1 TTTTATAA-T
*
11150344 TTTAAATAAT
1 TTT-TATAAT
*
11150354 TTTTATAAG
1 TTTTATAAT
* *
11150363 CTTTACAA-
1 TTTTATAAT
*
11150371 TTTTAGCATAT
1 TTTTA-TA-AT
11150382 TTTTATAAT
1 TTTTATAAT
11150391 TTTTATA
1 TTTTATA
11150398 TTAGAAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
8 9 0.16
9 26 0.46
10 13 0.23
11 9 0.16
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (9 bp):
TTTTATAAT
Found at i:11151026 original size:71 final size:70
Alignment explanation
Indices: 11150893--11151039 Score: 181
Period size: 71 Copynumber: 2.1 Consensus size: 70
11150883 TTACTCGTAT
* * **
11150893 CAAAATGGATTTTTCCTTGAGTTCTCATAAATGATTTCTTTTTCATATTTTTGTTTACTTTTTAA
1 CAAAATGGATTTTTACTTCAGTTCTCATAAATGATTTCTTTTTCA-ATTTTCCTTTACTTTTTAA
11150958 AGAAAA
65 AGAAAA
* *
11150964 CAAAATGGATTTTTTACTTCAGTTCAT-ATAAATGATTTTTCTTTTC-ATTTTCCTTTATTTTTT
1 CAAAATGGA-TTTTTACTTCAGTTC-TCATAAATGATTTCT-TTTTCAATTTTCCTTTACTTTTT
11151027 AAAGAAAA
63 AAAGAAAA
*
11151035 TAAAA
1 CAAAA
11151040 AAGGTATTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
71 35 0.53
72 25 0.38
73 6 0.09
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (70 bp):
CAAAATGGATTTTTACTTCAGTTCTCATAAATGATTTCTTTTTCAATTTTCCTTTACTTTTTAAA
GAAAA
Found at i:11151315 original size:3 final size:3
Alignment explanation
Indices: 11151309--11151338 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11151299 CAACAACAAC
11151309 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11151339 TCTTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11152251 original size:51 final size:51
Alignment explanation
Indices: 11152196--11152382 Score: 257
Period size: 51 Copynumber: 3.7 Consensus size: 51
11152186 TGGAAACATG
* * *
11152196 ATCTTAAAAGATAAGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGAA
* * *
11152247 ATCTTATAAGATATTATATTATAATCTTAGAGATATTAGATATGATATGAA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGAA
* * * *
11152298 ATCTTATAAGATATTATTTTATATTCTTAGAGATCTTAGATACGATATGTA
1 ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGAA
* * *
11152349 ATCTTAGAAGATATGATTTTATATTCTTCGAGAT
1 ATCTTATAAGATATGATTTTATAATCTTAGAGAT
11152383 TTGATTTGTA
Statistics
Matches: 122, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 122 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (51 bp):
ATCTTATAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGAA
Found at i:11152260 original size:22 final size:22
Alignment explanation
Indices: 11152233--11152311 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
11152223 TAGAGATCTT
*
11152233 AGATATGATATGGAATCTTATA
1 AGATATGATATGAAATCTTATA
* *
11152255 AGATATTATATTATAATCTTAGAGATA
1 AGATATGATATGA-AATCTT----ATA
11152282 TTAGATATGATATGAAATCTTATA
1 --AGATATGATATGAAATCTTATA
11152306 AGATAT
1 AGATAT
11152312 TATTTTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
22 16 0.36
23 6 0.13
24 3 0.07
27 3 0.07
28 6 0.13
29 11 0.24
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (22 bp):
AGATATGATATGAAATCTTATA
Found at i:11152310 original size:29 final size:29
Alignment explanation
Indices: 11152255--11152313 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
11152245 GAATCTTATA
* * *
11152255 AGATATTATATTATAATCTTAGAGATATT
1 AGATATGATATGATAATCTTAAAGATATT
11152284 AGATATGATATGA-AATCTTATAAGATATT
1 AGATATGATATGATAATCTTA-AAGATATT
11152313 A
1 A
11152314 TTTTATATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (29 bp):
AGATATGATATGATAATCTTAAAGATATT
Found at i:11154402 original size:19 final size:19
Alignment explanation
Indices: 11154366--11154402 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11154356 GATTGAAGTT
*
11154366 TAAGAAGAAGGGAAAGGAA
1 TAAGAAGAAGAGAAAGGAA
*
11154385 TAAGAAGAAGAGAGAGGA
1 TAAGAAGAAGAGAAAGGA
11154403 GAGCATGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (19 bp):
TAAGAAGAAGAGAAAGGAA
Found at i:11163891 original size:26 final size:25
Alignment explanation
Indices: 11163855--11163964 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 25
11163845 CATGAAATTC
11163855 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAA-CCA
11163881 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
11163907 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAAC-CA
*
11163933 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
11163959 TTATCA
1 TTATCA
11163965 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 2 0.03
26 78 0.98
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:11171020 original size:24 final size:24
Alignment explanation
Indices: 11170988--11171036 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11170978 CTTAAGTGAT
11170988 CAATGATTCAAAGGCCAAATGCTA
1 CAATGATTCAAAGGCCAAATGCTA
*
11171012 CAATGATTCAAGGGCCAAATGCTA
1 CAATGATTCAAAGGCCAAATGCTA
11171036 C
1 C
11171037 CCAAGTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (24 bp):
CAATGATTCAAAGGCCAAATGCTA
Found at i:11172436 original size:52 final size:51
Alignment explanation
Indices: 11172374--11172489 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
11172364 AGAAATGGTG
* *
11172374 AAAATGGAGAAATGGGAAACATTTGGAAATGAATGTGGTTTTCTCCAAAATA
1 AAAAT-GAGAAATGGGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATA
*
11172426 AAAATAGAGAAAT-GGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATG
1 AAAAT-GAGAAATGGGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATA
*
11172477 AAAATGAAAAATG
1 AAAATGAGAAATG
11172490 AAAATGATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 6 0.10
51 40 0.69
52 12 0.21
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (51 bp):
AAAATGAGAAATGGGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATA
Found at i:11172489 original size:13 final size:13
Alignment explanation
Indices: 11172471--11172496 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11172461 AGTTTTCTCC
11172471 AAAATGAAAATGA
1 AAAATGAAAATGA
11172484 AAAATGAAAATGA
1 AAAATGAAAATGA
11172497 TATAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:11172506 original size:51 final size:50
Alignment explanation
Indices: 11172390--11172509 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 50
11172380 GAGAAATGGG
* * * *
11172390 AAACATTTGGAAATGAATGTGGTTTTCTCCAAAATAAAAATAGAGAAATGG
1 AAACA-TTAGAAATGAATGTAGTTTTCTCCAAAATAAAAATAGAAAAATGA
* *
11172441 AAACATTTGAAAATGAATGTAGTTTTCTCCAAAATGAAAAT-GAAAAATGA
1 AAACATTAG-AAATGAATGTAGTTTTCTCCAAAATAAAAATAGAAAAATGA
*
11172491 AAATGATATAGAAATGAAT
1 AAA-CAT-TAGAAATGAAT
11172510 TTATGGTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 13 0.22
51 44 0.75
52 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.28
Consensus pattern (50 bp):
AAACATTAGAAATGAATGTAGTTTTCTCCAAAATAAAAATAGAAAAATGA
Found at i:11173243 original size:86 final size:86
Alignment explanation
Indices: 11173093--11173266 Score: 285
Period size: 86 Copynumber: 2.0 Consensus size: 86
11173083 AACTATTTCT
*
11173093 GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCGAAGCAATTCGTGGTACAAGAATAGCG
1 GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCAAAGCAATTCGTGGTACAAGAATAGCG
*
11173158 GAGAAGACTATTCGGTTGAAA
66 GAGAAGACTATTCGGTTAAAA
* * * *
11173179 GCATTTGTGTTTGATTCGAATCGTTCGAGCCCACACTCAAAGCAGTTCGTGGTACAAGACTAGCG
1 GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCAAAGCAATTCGTGGTACAAGAATAGCG
*
11173244 GAGAAGACTGTTCGGTTAAAA
66 GAGAAGACTATTCGGTTAAAA
11173265 GC
1 GC
11173267 CAGGAACGAC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (86 bp):
GCATCTGTGTTTGATTCGAATCGTTCAAGCCCACACTCAAAGCAATTCGTGGTACAAGAATAGCG
GAGAAGACTATTCGGTTAAAA
Found at i:11175062 original size:21 final size:21
Alignment explanation
Indices: 11175038--11175111 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
11175028 CATTTAAAAC
11175038 TATAAAAAATAGAAATAAATA
1 TATAAAAAATAGAAATAAATA
* *
11175059 TATAAAAATTCAGAATATATATAA
1 TATAAAAAAT-AGAA-ATAAAT-A
* * *
11175083 TTTAGAAAAATACATATAAAT-
1 TATA-AAAAATAGAAATAAATA
11175104 TATAAAAA
1 TATAAAAA
11175112 TAAAATTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
20 4 0.10
21 12 0.29
22 4 0.10
23 10 0.24
24 6 0.15
25 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (21 bp):
TATAAAAAATAGAAATAAATA
Done.