Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 45 of 352
Found at i:14362095 original size:93 final size:93
Alignment explanation
Indices: 14361983--14362154 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
14361973 CGCCCATAAG
* *
14361983 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
14362048 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
*
14362076 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14362141 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
14362155 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:14362151 original size:46 final size:46
Alignment explanation
Indices: 14361976--14362151 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
14361966 TGTAACCCGC
* * *
14361976 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
14362022 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14362072 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14362115 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14362152 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14371023 original size:22 final size:23
Alignment explanation
Indices: 14370998--14371043 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14370988 CAACCAAATC
14370998 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
14371020 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
14371043 A
1 A
14371044 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:14371049 original size:23 final size:23
Alignment explanation
Indices: 14371005--14371049 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14370995 ATCAATTCAA
*
14371005 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
14371028 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
14371050 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:14383081 original size:53 final size:52
Alignment explanation
Indices: 14382994--14383093 Score: 146
Period size: 53 Copynumber: 1.9 Consensus size: 52
14382984 CTACTGACTT
* *
14382994 GGGTCACACGGCCAACCACACACCCGTGTGCTAGGCCGTGTGTGAAGTGCAG
1 GGGTCACACGGCCAACCACACACCCGTGTACTAGGCAGTGTGTGAAGTGCAG
* * *
14383046 GGGTTACACGGCCAAGCCATACACCCTTGTACTAGGCAGTGTGTGAAG
1 GGGTCACACGGCCAA-CCACACACCCGTGTACTAGGCAGTGTGTGAAG
14383094 ACCTGGGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 14 0.33
53 28 0.67
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (52 bp):
GGGTCACACGGCCAACCACACACCCGTGTACTAGGCAGTGTGTGAAGTGCAG
Found at i:14383937 original size:21 final size:21
Alignment explanation
Indices: 14383911--14384003 Score: 73
Period size: 21 Copynumber: 4.4 Consensus size: 21
14383901 CAGAAGTGCT
*
14383911 AACAGAAACTCGTAAGGGTTG
1 AACAGAAACTCGTAAGAGTTG
* * *
14383932 AACAGAAGCTCATAAGAGATG
1 AACAGAAACTCGTAAGAGTTG
* * *
14383953 AACGAAAAAC-CAGT-AGGGTTA
1 AAC-AGAAACTC-GTAAGAGTTG
*
14383974 AACTGAAACTCGTAAGAGTTG
1 AACAGAAACTCGTAAGAGTTG
*
14383995 AACTGAAAC
1 AACAGAAAC
14384004 CCATTAGGGT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
20 6 0.11
21 43 0.80
22 5 0.09
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (21 bp):
AACAGAAACTCGTAAGAGTTG
Found at i:14383990 original size:42 final size:41
Alignment explanation
Indices: 14383925--14384028 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 41
14383915 GAAACTCGTA
* *
14383925 AGGGTTGAACAGAAGCTCATAAGAGATGAAC-GAAAAACCAGT
1 AGGGTT-AACTGAAACTCATAAGAGATGAACTG-AAAACCAGT
* * * *
14383967 AGGGTTAAACTGAAACTCGTAAGAGTTGAACTGAAACCCATT
1 AGGGTT-AACTGAAACTCATAAGAGATGAACTGAAAACCAGT
*
14384009 AGGGTTAATTGAAACTCATA
1 AGGGTTAACTGAAACTCATA
14384029 TAAATTAACT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 12 0.23
42 39 0.75
43 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (41 bp):
AGGGTTAACTGAAACTCATAAGAGATGAACTGAAAACCAGT
Found at i:14385934 original size:260 final size:260
Alignment explanation
Indices: 14385451--14385934 Score: 783
Period size: 260 Copynumber: 1.9 Consensus size: 260
14385441 AGTGGATATT
* * *
14385451 AAGATTCTCTTGTTTCGAATAAATAAAATATCACATCCAGCACGTACGACACAATATTTCAAACC
1 AAGATTCTCTTGTTTCGAAGAAACAAAATATCACATCCAACACGTACGACACAATATTTCAAACC
*
14385516 TTCGATATCAAAATCATCTCATAATTTCTAAATTTATGTATTGAAATTTTAAGAAGGACATTCGG
66 TTCGATATCAAAATCATCTCATAATTTCCAAATTTATGTATTGAAATTTTAAGAAGGACATTCGG
*
14385581 TCGTTCGGTCAAACGATAAATCGAAACCCAGCACGTAGGGCACAATTTCTCGAAAATTCTAAACA
131 TCGTTCGGTCAAACAATAAATCGAAACCCAGCACGTAGGGCACAATTTCTCGAAAATTCTAAACA
* * *
14385646 ATGGAATATTGCCTTTTTTTTAAAAAAAAAAGTCTTGAGTAAAAATGCAATAATATGAAACGATC
196 ACGGAATATTGCCTTTATCTTAAAAAAAAAAGTCTTGAGTAAAAATGCAATAATATGAAACGATC
* * * *
14385711 AAGATTTTCTTGTTTCGAAGAAACGAAATATCACATCCAACACGTAGGACACGATATTTCAAACC
1 AAGATTCTCTTGTTTCGAAGAAACAAAATATCACATCCAACACGTACGACACAATATTTCAAACC
*
14385776 TTCGATATCAAAATCATCTCATAATTTCCAAATTTATGTATTGAAATTTTAAGAAGGATATTCGG
66 TTCGATATCAAAATCATCTCATAATTTCCAAATTTATGTATTGAAATTTTAAGAAGGACATTCGG
* *
14385841 TCGTTCGGTCAAACAATAAATCGAAACCCAAG-ACGTAGGGCACGACTTTCTCG-AAATTTTCAA
131 TCGTTCGGTCAAACAATAAATCGAAACCC-AGCACGTAGGGCAC-AATTTCTCGAAAATTCT-AA
*
14385904 ACAACGGAATTTTGCCTTTATCTTAAAAAAA
193 ACAACGGAATATTGCCTTTATCTTAAAAAAA
14385935 TCCTTTTTTA
Statistics
Matches: 205, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
260 166 0.81
261 39 0.19
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (260 bp):
AAGATTCTCTTGTTTCGAAGAAACAAAATATCACATCCAACACGTACGACACAATATTTCAAACC
TTCGATATCAAAATCATCTCATAATTTCCAAATTTATGTATTGAAATTTTAAGAAGGACATTCGG
TCGTTCGGTCAAACAATAAATCGAAACCCAGCACGTAGGGCACAATTTCTCGAAAATTCTAAACA
ACGGAATATTGCCTTTATCTTAAAAAAAAAAGTCTTGAGTAAAAATGCAATAATATGAAACGATC
Found at i:14386260 original size:23 final size:23
Alignment explanation
Indices: 14386215--14386266 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
14386205 GGATGGTGAG
* * *
14386215 AATAATAATGATAATAACCATAT
1 AATAAGAATGACAATAACAATAT
*
14386238 AATAAGAATGACAATAATAATAT
1 AATAAGAATGACAATAACAATAT
*
14386261 TATAAG
1 AATAAG
14386267 TGAAAACCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AATAAGAATGACAATAACAATAT
Found at i:14386346 original size:3 final size:3
Alignment explanation
Indices: 14386338--14386391 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
14386328 GACTACATAG
* *
14386338 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14386386 TAA TAA
1 TAA TAA
14386392 ATATTTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14386583 original size:27 final size:27
Alignment explanation
Indices: 14386495--14386584 Score: 78
Period size: 27 Copynumber: 3.3 Consensus size: 27
14386485 ATATATATTA
* *
14386495 ATTTAAAATACAAAGATGCATATAAAA-
1 ATTTAAAATA-AATGATACATATAAAAT
* * * *
14386522 ATTTCAAGATAAATGTTACGTAT--GAT
1 ATTT-AAAATAAATGATACATATAAAAT
14386548 AGTTTAAAATAAATGATACATATAAAAT
1 A-TTTAAAATAAATGATACATATAAAAT
14386576 ATTTAAAAT
1 ATTTAAAAT
14386585 TGATAACAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
25 1 0.02
26 16 0.33
27 23 0.48
28 8 0.17
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (27 bp):
ATTTAAAATAAATGATACATATAAAAT
Found at i:14386960 original size:18 final size:18
Alignment explanation
Indices: 14386934--14386974 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14386924 ATGATGAATG
14386934 AATAAATAATAAAACAAT
1 AATAAATAATAAAACAAT
* *
14386952 AATAGATAATAAAATAAT
1 AATAAATAATAAAACAAT
14386970 AATAA
1 AATAA
14386975 CAAAGGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAAATAATAAAACAAT
Found at i:14388236 original size:7 final size:7
Alignment explanation
Indices: 14388155--14388243 Score: 74
Period size: 7 Copynumber: 12.9 Consensus size: 7
14388145 ACGGGTTATA
14388155 GGTTTAG
1 GGTTTAG
*
14388162 GGTTTAT
1 GGTTTAG
14388169 GGTTTA-
1 GGTTTAG
* * *
14388175 TGTGTAA
1 GGTTTAG
14388182 GGTTTATG
1 GGTTTA-G
* *
14388190 GTTTTAT
1 GGTTTAG
14388197 GGTTTAG
1 GGTTTAG
14388204 GGTTTAG
1 GGTTTAG
*
14388211 GGTATAG
1 GGTTTAG
*
14388218 TG-TTAG
1 GGTTTAG
14388224 GGTTTAG
1 GGTTTAG
*
14388231 GTTTTAG
1 GGTTTAG
14388238 GGTTTA
1 GGTTTA
14388244 TGAAATATGG
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 8 0.13
7 50 0.79
8 5 0.08
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:14388516 original size:14 final size:14
Alignment explanation
Indices: 14388480--14388516 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
14388470 GAAAAAAATG
14388480 AAATTATTTAGATT
1 AAATTATTTAGATT
14388494 AAATT-TTTAGATT
1 AAATTATTTAGATT
14388507 AAATTATTTA
1 AAATTATTTA
14388517 AGAGATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:14390339 original size:14 final size:14
Alignment explanation
Indices: 14390317--14390349 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14390307 TCTAAATATG
*
14390317 TTTTCTTTTTC-CA
1 TTTTTTTTTTCTCA
14390330 TTTTTTTTTTCTCA
1 TTTTTTTTTTCTCA
14390344 TTTTTT
1 TTTTTT
14390350 ACCCATCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTTCTCA
Found at i:14390800 original size:22 final size:23
Alignment explanation
Indices: 14390774--14390816 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
14390764 AAATGGAATC
14390774 GAATTTTTTTAT-TATATTTATT
1 GAATTTTTTTATATATATTTATT
14390796 GAATTTTTTTATATATATTTA
1 GAATTTTTTTATATATATTTA
14390817 ATGATTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (23 bp):
GAATTTTTTTATATATATTTATT
Found at i:14392939 original size:27 final size:27
Alignment explanation
Indices: 14392904--14393108 Score: 154
Period size: 27 Copynumber: 8.1 Consensus size: 27
14392894 ATCTTAATGT
*
14392904 TAAAAATATATCATATAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
14392931 TAAATATATATCATATAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
* * * *
14392958 TAACTTATATACCTTACAA-AA--TACA
1 TAA-ATATATATCATATAATAACTTACA
14392983 TAAATATATATC-T-T-A-AA--T--A
1 TAAATATATATCATATAATAACTTACA
*
14393002 TATATCATATA--ATATAATAACTTACA
1 TAAAT-ATATATCATATAATAACTTACA
* *
14393028 TAAATATATATCATATGATAACTTACG
1 TAAATATATATCATATAATAACTTACA
* * * *
14393055 TAACTTATATACCTTACAA-AA--TACA
1 TAA-ATATATATCATATAATAACTTACA
*
14393080 TAAATATATATCATATCATAACTTACA
1 TAAATATATATCATATAATAACTTACA
14393107 TA
1 TA
14393109 CCTTACATAA
Statistics
Matches: 139, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
19 6 0.04
20 6 0.04
21 5 0.04
22 2 0.01
23 1 0.01
24 18 0.13
25 20 0.14
26 5 0.04
27 55 0.40
28 21 0.15
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (27 bp):
TAAATATATATCATATAATAACTTACA
Found at i:14392959 original size:14 final size:14
Alignment explanation
Indices: 14392915--14392959 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
14392905 AAAAATATAT
14392915 CATATAATAACTTA
1 CATATAATAACTTA
14392929 CATA-AAT-A-TATA
1 CATATAATAACT-TA
14392941 TCATATAATAACTTA
1 -CATATAATAACTTA
14392956 CATA
1 CATA
14392960 ACTTATATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 1 0.04
12 3 0.12
13 7 0.27
14 11 0.42
15 3 0.12
16 1 0.04
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (14 bp):
CATATAATAACTTA
Found at i:14392983 original size:52 final size:52
Alignment explanation
Indices: 14392927--14393113 Score: 212
Period size: 52 Copynumber: 3.7 Consensus size: 52
14392917 TATAATAACT
14392927 TACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACAAAA
1 TACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACAAAA
* * * **
14392979 TACATAAATATATATCTTA-AAT-A-TATATCAT-A--TA-ATA--TAATAACT
1 TACATAAATATATATCATATAATAACT-TA-CATAACTTATATACCTTACAAAA
* *
14393024 TACATAAATATATATCATATGATAACTTACGTAACTTATATACCTTACAAAA
1 TACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACAAAA
* *
14393076 TACATAAATATATATCATATCATAACTTACATACCTTA
1 TACATAAATATATATCATATAATAACTTACATAACTTA
14393114 CATAAATATA
Statistics
Matches: 109, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
45 22 0.20
46 4 0.04
47 7 0.06
48 3 0.03
49 3 0.03
50 7 0.06
51 6 0.06
52 57 0.52
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (52 bp):
TACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACAAAA
Found at i:14393001 original size:13 final size:13
Alignment explanation
Indices: 14392981--14393042 Score: 61
Period size: 13 Copynumber: 4.3 Consensus size: 13
14392971 TTACAAAATA
14392981 CATAAATATATAT
1 CATAAATATATAT
*
14392994 CTTAAATATATAT
1 CATAAATATATAT
14393007 CATATAATATAATAACTT
1 CATA-AATAT-AT-A--T
14393025 ACATAAATATATAT
1 -CATAAATATATAT
14393039 CATA
1 CATA
14393043 TGATAACTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 19 0.46
14 6 0.15
15 2 0.05
16 2 0.05
17 2 0.05
18 6 0.15
19 4 0.10
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:14393059 original size:97 final size:97
Alignment explanation
Indices: 14392911--14393149 Score: 338
Period size: 97 Copynumber: 2.6 Consensus size: 97
14392901 TGTTAAAAAT
*
14392911 ATATCATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
1 ATATAATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
14392976 AAATACATAAATATATATCTTAAATATATATC
66 AAATACATAAATATATATCTTAAATATATATC
* *
14393008 ATATAATATAATAACTTACATAAATATATATCATATGATAACTTACGTAACTTATATACCTTACA
1 ATATAATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
14393073 AAATACATAAATATATATC--------ATATC
66 AAATACATAAATATATATCTTAAATATATATC
* *
14393097 ATA-ACT-TACATACCTTACATAAATATATATCATA-ACATAACTTACATAACTTA
1 ATATAATATA-ATAACTTACATAAATATATATCATATA-ATAACTTACATAACTTA
14393150 CAAAGCTTCC
Statistics
Matches: 133, Mismatches: 7, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
87 2 0.02
88 42 0.32
89 8 0.06
97 81 0.61
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.36
Consensus pattern (97 bp):
ATATAATATAATAACTTACATAAATATATATCATATAATAACTTACATAACTTATATACCTTACA
AAATACATAAATATATATCTTAAATATATATC
Found at i:14393108 original size:9 final size:9
Alignment explanation
Indices: 14393096--14393151 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
14393086 TATATCATAT
14393096 CATAACTTA
1 CATAACTTA
*
14393105 CATACCTTA
1 CATAACTTA
*
14393114 CATAA-ATA
1 CATAACTTA
* * *
14393122 TATATCATAA
1 CATAAC-TTA
14393132 CATAACTTA
1 CATAACTTA
14393141 CATAACTTA
1 CATAACTTA
14393150 CA
1 CA
14393152 AAGCTTCCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
8 5 0.14
9 25 0.71
10 5 0.14
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:14393117 original size:36 final size:36
Alignment explanation
Indices: 14393076--14393151 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
14393066 CCTTACAAAA
* *
14393076 TACATAAATATATATCATATCATAACTTACATACCT
1 TACATAAATATATATCATAACATAACTTACATAACT
14393112 TACATAAATATATATCATAACATAACTTACATAACT
1 TACATAAATATATATCATAACATAACTTACATAACT
14393148 TACA
1 TACA
14393152 AAGCTTCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (36 bp):
TACATAAATATATATCATAACATAACTTACATAACT
Found at i:14398670 original size:21 final size:21
Alignment explanation
Indices: 14398575--14398671 Score: 92
Period size: 21 Copynumber: 4.6 Consensus size: 21
14398565 ACTTAGAGTG
*
14398575 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
14398596 GTA-GCAGCAGCAAGGGAGGCA
1 G-AGGCAGCAGCGAGGGAGGCA
* *
14398617 GCA-ACAGCAACGAGGGAGGCA
1 G-AGGCAGCAGCGAGGGAGGCA
* *
14398638 AAGGCA-CGAGCGAGAGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
14398659 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
14398672 TGGCAGCAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.44, T:0.01
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:14398965 original size:31 final size:31
Alignment explanation
Indices: 14398903--14398985 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
14398893 TTAGAATTAA
*
14398903 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGTA--TTTTATACTAAATTTGC
* * *
14398936 TGTTTTTGGCTGTATTTTATACTATATTTGT
1 TGTTTTTGGTTGTATTTTATACTAAATTTGC
* *
14398967 TGTATTTGGTTGGATTTTA
1 TGTTTTTGGTTGTATTTTA
14398986 AGGCAAGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 30 0.70
33 13 0.30
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (31 bp):
TGTTTTTGGTTGTATTTTATACTAAATTTGC
Found at i:14400053 original size:23 final size:23
Alignment explanation
Indices: 14400026--14400077 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
14400016 AAGATGTAAA
14400026 TCATGGAAGAAACGTATTCGTTT
1 TCATGGAAGAAACGTATTCGTTT
14400049 TCATGGAAGAAACGTATTCGTTT
1 TCATGGAAGAAACGTATTCGTTT
14400072 TCATGG
1 TCATGG
14400078 CTTCTCCGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (23 bp):
TCATGGAAGAAACGTATTCGTTT
Found at i:14406645 original size:17 final size:17
Alignment explanation
Indices: 14406623--14406656 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14406613 ATCCACTAAT
*
14406623 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
14406640 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
14406657 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:14411284 original size:17 final size:17
Alignment explanation
Indices: 14411262--14411295 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14411252 ATCCACTAAT
*
14411262 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
14411279 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
14411296 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:14420916 original size:17 final size:17
Alignment explanation
Indices: 14420880--14420917 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
14420870 TATATATGTT
*
14420880 TTATTGTTGGAATTAAA
1 TTATTGTTGGAATAAAA
14420897 TTATTGTTGGAA-AAATA
1 TTATTGTTGGAATAAA-A
14420914 TTAT
1 TTAT
14420918 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
TTATTGTTGGAATAAAA
Found at i:14429769 original size:29 final size:29
Alignment explanation
Indices: 14429703--14429775 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
14429693 ATAAGCATTT
* *
14429703 AATTAATTTTTTAAAATTTAAAATTATAAA
1 AATT-ATTTTTAAAAATTAAAAATTATAAA
**
14429733 AACCATTTTTAAAAATTAAAAATTACT-AA
1 AATTATTTTTAAAAATTAAAAATTA-TAAA
14429762 AATTATTTTTAAAA
1 AATTATTTTTAAAA
14429776 TTTTTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 33 0.92
30 3 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTATTTTTAAAAATTAAAAATTATAAA
Found at i:14433433 original size:5 final size:5
Alignment explanation
Indices: 14433423--14433449 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14433413 ATAATATGAT
14433423 AAAGA AAAGA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AA
14433450 CAAACATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:14435582 original size:28 final size:28
Alignment explanation
Indices: 14435537--14435714 Score: 169
Period size: 28 Copynumber: 6.3 Consensus size: 28
14435527 ATATGAATTT
* *
14435537 TAAAAAATAAGGGTAAAATTATAAAATC
1 TAAAAAATAAGGGCAAAACTATAAAATC
* *
14435565 TAAAAAATAATGGCAAAACTGTAAAATC
1 TAAAAAATAAGGGCAAAACTATAAAATC
*
14435593 TAAAAAGTAAGGGCAAAACTATAAAATC
1 TAAAAAATAAGGGCAAAACTATAAAATC
* * * * *
14435621 T-GAAAATTAGTGGCAAAACTATAGATTT
1 TAAAAAATAAG-GGCAAAACTATAAAATC
* * * * *
14435649 TGAAAAATAAGGGTAAAATTGTAAAATT
1 TAAAAAATAAGGGCAAAACTATAAAATC
* * *
14435677 TGAAAAATAGGGGAAAAACTATAAAAATC
1 TAAAAAATAAGGGCAAAACTAT-AAAATC
14435706 TAAAAAATA
1 TAAAAAATA
14435715 GAAGAAAACC
Statistics
Matches: 121, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
27 6 0.05
28 95 0.79
29 20 0.17
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.24
Consensus pattern (28 bp):
TAAAAAATAAGGGCAAAACTATAAAATC
Found at i:14435711 original size:56 final size:55
Alignment explanation
Indices: 14435539--14435747 Score: 188
Period size: 56 Copynumber: 3.7 Consensus size: 55
14435529 ATGAATTTTA
* * ** * *
14435539 AAAAATAAGGGTAAAATTATAAAATCTAAAAAATAATGGCAAAACTGTAAAATCT
1 AAAAATAAGGGTAAAACTATAAAATCTGAAAAATAGGGGAAAAACTATAAAATCT
* * * * * * *
14435594 AAAAAGTAAGGGCAAAACTATAAAATCTGAAAATTAGTGGCAAAACTATAGATTTT
1 AAAAA-TAAGGGTAAAACTATAAAATCTGAAAAATAGGGGAAAAACTATAAAATCT
* * *
14435650 GAAAAATAAGGGTAAAATTGTAAAATTTGAAAAATAGGGGAAAAACTATAAAAATCT
1 -AAAAATAAGGGTAAAACTATAAAATCTGAAAAATAGGGGAAAAACTAT-AAAATCT
* *
14435707 AAAAA-ATAGAAG-AAAACCTGTAAAATCTGAAAAATAGGGGA
1 AAAAATA-AG-GGTAAAA-CTATAAAATCTGAAAAATAGGGGA
14435748 CACACGATCG
Statistics
Matches: 126, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
55 6 0.05
56 88 0.70
57 32 0.25
ACGTcount: A:0.56, C:0.07, G:0.16, T:0.22
Consensus pattern (55 bp):
AAAAATAAGGGTAAAACTATAAAATCTGAAAAATAGGGGAAAAACTATAAAATCT
Found at i:14435723 original size:84 final size:84
Alignment explanation
Indices: 14435567--14435723 Score: 192
Period size: 84 Copynumber: 1.9 Consensus size: 84
14435557 ATAAAATCTA
* * * * *
14435567 AAAAATAATGGCAAAACTGTAAAATCTAAAAAGTAAGGGCAAAACTATAAAATCTGAAAATTAGT
1 AAAAATAAGGGCAAAACTGTAAAATCTAAAAAGTAAGGGAAAAACTATAAAATCTAAAAAATAGA
*
14435632 GGCAAAACTATAGATTTTG
66 AGCAAAACTATAGATTTTG
* * * *
14435651 AAAAATAAGGGTAAAATTGTAAAATTTGAAAAA-TAGGGGAAAAACTATAAAAATCTAAAAAATA
1 AAAAATAAGGGCAAAACTGTAAAATCT-AAAAAGTAAGGGAAAAACTAT-AAAATCTAAAAAATA
14435715 GAAG-AAAAC
64 GAAGCAAAAC
14435724 CTGTAAAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
84 41 0.67
85 20 0.33
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (84 bp):
AAAAATAAGGGCAAAACTGTAAAATCTAAAAAGTAAGGGAAAAACTATAAAATCTAAAAAATAGA
AGCAAAACTATAGATTTTG
Found at i:14435723 original size:112 final size:113
Alignment explanation
Indices: 14435533--14435739 Score: 276
Period size: 112 Copynumber: 1.8 Consensus size: 113
14435523 AAAAATATGA
* * *
14435533 ATTTTAAAAAATAAGGGTAAAATTATAAAATCTAAAAAATAATGGCAAAACTGTAAAATCTAAAA
1 ATTTTAAAAAATAAGGGTAAAATTATAAAATCTAAAAAATAAGGGAAAAACTATAAAATCTAAAA
* *
14435598 AGTAAGGGCAAAA-CTATAAAATCTGAAAATTAGTGGCAAAACTATAG
66 AATAAGAGCAAAACCTATAAAATCTGAAAATTAGTGGCAAAACTATAG
* * * * *
14435645 ATTTTGAAAAATAAGGGTAAAATTGTAAAATTTGAAAAATAGGGGAAAAACTATAAAAATCTAAA
1 ATTTTAAAAAATAAGGGTAAAATTATAAAATCTAAAAAATAAGGGAAAAACTAT-AAAATCTAAA
*
14435710 AAAT-AGAAG-AAAACCTGTAAAATCTGAAAA
65 AAATAAG-AGCAAAACCTATAAAATCTGAAAA
14435740 ATAGGGGACA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
112 52 0.64
113 29 0.36
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.24
Consensus pattern (113 bp):
ATTTTAAAAAATAAGGGTAAAATTATAAAATCTAAAAAATAAGGGAAAAACTATAAAATCTAAAA
AATAAGAGCAAAACCTATAAAATCTGAAAATTAGTGGCAAAACTATAG
Found at i:14445573 original size:27 final size:27
Alignment explanation
Indices: 14445534--14445649 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
14445524 CCCTAAAATA
* **
14445534 GGTAAAATAACCGTAATGTCCTTGTAG
1 GGTAAAATGACCGTAATACCCTTGTAG
* *
14445561 GGTAAAATGACCGTAATGCCCTTATAG
1 GGTAAAATGACCGTAATACCCTTGTAG
*
14445588 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCTTGTAG
* * *
14445615 GATAAAATGACCGTAATATCCTTGTAC
1 GGTAAAATGACCGTAATACCCTTGTAG
14445642 GGTAAAAT
1 GGTAAAAT
14445650 AACGATTATG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCTTGTAG
Found at i:14446071 original size:32 final size:34
Alignment explanation
Indices: 14446035--14446099 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
14446025 GCCATATTAT
*
14446035 TACTGTATA-GGCTAAGGCCCAGACTG-TACTGA
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTGA
* *
14446067 TACTGAATAGGGCTCATGCCCAGACTGTTACTG
1 TACTGAATAGGGCTAAGGCCCAGACTGTTACTG
14446100 CACGCACTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 8 0.29
33 15 0.54
34 5 0.18
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (34 bp):
TACTGAATAGGGCTAAGGCCCAGACTGTTACTGA
Found at i:14454287 original size:12 final size:12
Alignment explanation
Indices: 14454272--14454296 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14454262 GTTCTTGTTG
14454272 TTTTATTATTTC
1 TTTTATTATTTC
14454284 TTTTATTATTTC
1 TTTTATTATTTC
14454296 T
1 T
14454297 AATATCTTCA
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:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:14461753 original size:39 final size:38
Alignment explanation
Indices: 14461703--14461788 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 38
14461693 ATATAAAAAT
* * *
14461703 ATATATTATATATTATATTAATTTA-ATATTTAAGTATTA
1 ATATATAATATATCATATTAATTTATATATATAA-TA-TA
*
14461742 ATATATAATATATCATATTATTTTATTATATATAATATA
1 ATATATAATATATCATATTAATTTA-TATATATAATATA
14461781 ATATATAA
1 ATATATAA
14461789 AACATAAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 32 0.78
40 2 0.05
41 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (38 bp):
ATATATAATATATCATATTAATTTATATATATAATATA
Found at i:14461788 original size:7 final size:7
Alignment explanation
Indices: 14461700--14461788 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
14461690 TTAATATAAA
14461700 AATATAT
1 AATATAT
*
14461707 ATTATAT
1 AATATAT
*
14461714 ATTATATT
1 AATATA-T
14461722 AAT-T-T
1 AATATAT
*
14461727 AATATTT
1 AATATAT
14461734 AAGTAT-T
1 AA-TATAT
14461741 AATATAT
1 AATATAT
14461748 AATATAT
1 AATATAT
*
14461755 CATAT-T
1 AATATAT
* *
14461761 ATTTTAT
1 AATATAT
*
14461768 TATATAT
1 AATATAT
14461775 -A-ATAT
1 AATATAT
14461780 AATATAT
1 AATATAT
14461787 AA
1 AA
14461789 AACATAAGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 8 0.12
6 9 0.14
7 42 0.65
8 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (7 bp):
AATATAT
Found at i:14462981 original size:22 final size:22
Alignment explanation
Indices: 14462941--14463008 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
14462931 CGTTCTATTA
* *
14462941 TTAGCACGTTAAGTGCTCTTTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
14462964 TTAGCACATTT-GTGCTCTCTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
*
14462986 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACTTTAGTGCTCTCTGT
14463008 T
1 T
14463009 CGTTTGTGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.08
22 27 0.69
23 9 0.23
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (22 bp):
TTAGCACTTTAGTGCTCTCTGT
Found at i:14468658 original size:50 final size:48
Alignment explanation
Indices: 14468583--14468770 Score: 158
Period size: 50 Copynumber: 3.9 Consensus size: 48
14468573 AGAAACTATA
*
14468583 AATCTTATACCCCTGAAGTTGTAGTGG-GACAGATTGAAGTTATCATGGTG
1 AATCTTATACCCCTGAAGTTGTAGTGGAG-CAGATTGAAGTCA-CATGG-G
* *
14468633 AATCTTAT-CTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACA----
1 AATCTTATAC-CCCTGAAGTTGTAGTGGAGCAGATTGAAGTCACATGGG
* * ** *
14468677 AATCCTATACCGCTGAAGTTACAGT-GAGACGGATTGAAGTCAACATGGCG
1 AATCTTATACCCCTGAAGTTGTAGTGGAG-CAGATTGAAGTC-ACATGG-G
* *
14468727 AATCTTAT-CTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACA
1 AATCTTATAC-CCCTGAAGTTGTAGTGGAGCAGATTGAAGTCACA
14468771 AATCCTATAC
Statistics
Matches: 109, Mismatches: 17, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.03
44 28 0.26
45 4 0.04
49 7 0.06
50 63 0.58
51 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (48 bp):
AATCTTATACCCCTGAAGTTGTAGTGGAGCAGATTGAAGTCACATGGG
Found at i:14468743 original size:94 final size:94
Alignment explanation
Indices: 14468582--14468889 Score: 377
Period size: 94 Copynumber: 3.3 Consensus size: 94
14468572 AAGAAACTAT
* * * * * * *
14468582 AAATCTTATACCCCTGAAGTTGTAGTGGGACAGATTGAAGTTATCATGGTGAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
14468647 GAAGTTGTAGTGGAGCAGATTAAAGCCAC
66 GAAGTTGTAGTGGAGCAGATTAAAGCCAC
* *
14468676 AAATCCTATACCGCTGAAGTTACAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
14468741 GAAGTTGTAGTGGAGCAGATTAAAGCCAC
66 GAAGTTGTAGTGGAGCAGATTAAAGCCAC
* * * * *
14468770 AAATCCTATACCTCTGAAGTTGCAGT-AGGTCGGATT-AAATCTACCATAGCGAATCTTATCTCC
1 AAATCCTATACCCCTGAAGTTGCAGTGA-GACGGATTGAAGTC-AACATGGCGAATCTTATCTCC
* ** * * *
14468833 CTGAAGTTGCAGTGGAATAGATTGAAGCGAT
64 CTGAAGTTGTAGTGGAGCAGATTAAAGCCAC
** *
14468864 AAATCCTATACTTCTGAAATTGCAGT
1 AAATCCTATACCCCTGAAGTTGCAGT
14468890 AGGTCGGATT
Statistics
Matches: 189, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
93 5 0.03
94 184 0.97
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (94 bp):
AAATCCTATACCCCTGAAGTTGCAGTGAGACGGATTGAAGTCAACATGGCGAATCTTATCTCCCT
GAAGTTGTAGTGGAGCAGATTAAAGCCAC
Found at i:14468890 original size:94 final size:94
Alignment explanation
Indices: 14468632--14468958 Score: 399
Period size: 94 Copynumber: 3.5 Consensus size: 94
14468622 TTATCATGGT
* *
14468632 GAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCCTATACCGCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACAAATCCTATACCTCTGAAGTT
* * * *
14468697 ACAGT-GAGACGGATTGAAGTC-AACATGGC
66 GCAGTAG-GTCGGATT-AAATCTAACATAGC
*
14468726 GAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCCTATACCTCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACAAATCCTATACCTCTGAAGTT
*
14468791 GCAGTAGGTCGGATTAAATCTACCATAGC
66 GCAGTAGGTCGGATTAAATCTAACATAGC
* * * * * * *
14468820 GAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGCGATAAATCCTATACTTCTGAAATT
1 GAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACAAATCCTATACCTCTGAAGTT
* *
14468885 GCAGTAGGTCGGATTAAATCTATCGTAGC
66 GCAGTAGGTCGGATTAAATCTAACATAGC
* * ** * * *
14468914 GAGTCTTATTTCTTTGAA-CTGTAGTGGAATAGATTAAAGCTACAA
1 GAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACAA
14468959 GTTACAAATC
Statistics
Matches: 206, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
93 26 0.13
94 179 0.87
95 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (94 bp):
GAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACAAATCCTATACCTCTGAAGTT
GCAGTAGGTCGGATTAAATCTAACATAGC
Found at i:14469044 original size:45 final size:45
Alignment explanation
Indices: 14468963--14469752 Score: 367
Period size: 44 Copynumber: 17.2 Consensus size: 45
14468953 CTACAAGTTA
* * *
14468963 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * *
14469008 CGAATCTTAT-TCCCCTAAAGTTGCAGTAGAACAGATTAAAGCTACAAAC
1 CAAATCTTATCT-CCCTAAAGTTGCAGTAGAGCAGATTGAAG----ATAG
* * * *
14469057 CACAAGTCTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAGATAG
1 CA-AA-TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * *
14469104 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * *
14469148 TAAA-CTTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAG
1 CAAATC-TTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * *
14469193 TAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * ** *
14469237 TAAACCTTATCTCAC-AGAAGTTGCAGT-GCAGTAGATCAAAGTTA-
1 CAAATCTTATCTCCCTA-AAGTTGCAGTAG-AGCAGATTGAAGATAG
* * * *
14469281 CAAATCCTATAC-CCCTAAAGTTGTAGT-GGGACGGATTGAAGTTATCATGG
1 CAAATCTTAT-CTCCCTAAAGTTGCAGTAGAG-CAGATTGAAG--AT-A--G
* * * **
14469331 TAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* ** * * * * *
14469375 CAGATCTTATCTCTTTGAAGTTGCAATTGAGCAGATTAAAGTTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * *
14469419 CAAATATTATCTCCTTAAAGTTACAGTAGAGTAGATTAAAGATAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * ** *
14469464 CAAATCTTATTTCCTTGAAGTTGTAG-AGGAATAGATT-AAAATTACAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTA-GAGCAGATTGAAGA-T---AG
* * * *
14469512 TTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGATAG
1 ---CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* * * * * *
14469560 CAAATCTTATTTCCTTGAAGTTGTAG-AGGAACAGATT-AAAATTACAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTA-GAGCAGATTGAAGA-T---AG
* * * * *
14469608 TTACAAATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAA-ATTA-
1 ---CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGA-TAG
* * * * * ** * *
14469655 CAAATCTTATCTTCTTGATGTTGCAGTGGAATAGATGGAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
* *
14469699 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
14469743 CAAATCTTAT
1 CAAATCTTAT
14469753 TTTTGTAAAG
Statistics
Matches: 577, Mismatches: 122, Indels: 93
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.01
44 255 0.44
45 165 0.29
46 4 0.01
47 6 0.01
48 7 0.01
49 4 0.01
50 32 0.06
51 93 0.16
52 7 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (45 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
Found at i:14469067 original size:96 final size:94
Alignment explanation
Indices: 14468944--14469753 Score: 505
Period size: 96 Copynumber: 8.8 Consensus size: 94
14468934 GTAGTGGAAT
* *
14468944 AGATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGC
1 AGATTAAAGCTACAA-ATAC-AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGC
* *
14469009 GAATCTTATTCCCCTAAAGTTGCAGTAGAAC
64 AAATCTTATTCCCCTGAAGTTGCAGTAGAAC
* * *
14469040 AGATTAAAGCTACAAACCACAAGTCTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAGATAGC
1 AGATTAAAGCTACAAA-TACAA-TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGC
* *
14469105 AAATCTTA-TCTCTCTGAAGTTGCAGTAGAGC
64 AAATCTTATTC-CCCTGAAGTTGCAGTAGAAC
* * * * * *
14469136 AGATTAAAGCTA-TAA-AC--T-TTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAGTAA
1 AGATTAAAGCTACAAATACAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAA
* * * *
14469196 ATCTTA-TCTCTCTAAAGTTGCAATAGAGC
66 ATCTTATTC-CCCTGAAGTTGCAGTAGAAC
* * * * * ** *
14469225 AGATTAAAGCT----ATA-AACCTTATCTCACAGAAGTTGCAGTGCAGTAGATCAAAGTTA-CAA
1 AGATTAAAGCTACAAATACAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAA
* * * * * *
14469284 ATCCTATACCCCTAAAGTTGTAGTGGGAC
66 ATCTTATTCCCCTGAAGTTGCAGTAGAAC
* * * ** * * **
14469313 GGATTGAAGTTATCATGGTA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C
1 AGATTAAAGCTA-CA-AATACAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGC
* ** * * *
14469376 AGATCTTA-TCTCTTTGAAGTTGCAATTGAGC
64 AAATCTTATTC-CCCTGAAGTTGCAGTAGAAC
* * * * *
14469407 AGATTAAAGTTACAAAT---A--TTATCTCCTTAAAGTTACAGTAGAGTAGATTAAAGATAGCAA
1 AGATTAAAGCTACAAATACAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAA
* * * *
14469467 ATCTTATTTCCTTGAAGTTGTAG-AGGAAT
66 ATCTTATTCCCCTGAAGTTGCAGTA-GAAC
** * * * * *
14469496 AGATTAAAATTACAAGTTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGATAGC
1 AGATTAAAGCTACAA-ATAC-AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGC
* * *
14469561 AAATCTTATTTCCTTGAAGTTGTAG-AGGAAC
64 AAATCTTATTCCCCTGAAGTTGCAGTA-GAAC
** * *
14469592 AGATTAAAATTACAAGTTACAAATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAA-ATTA-
1 AGATTAAAGCTACAA-ATAC-AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGA-TAG
* * * * *
14469655 CAAATCTTA-TCTTCTTGATGTTGCAGTGGAAT
63 CAAATCTTATTC-CCCTGAAGTTGCAGTAGAAC
** * * * *
14469687 AGATGGAAGCTAC----A-AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CAA
1 AGATTAAAGCTACAAATACAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAA
14469746 ATCTTATT
66 ATCTTATT
14469754 TTTGTAAAGT
Statistics
Matches: 577, Mismatches: 107, Indels: 67
0.77 0.14 0.09
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 104 0.18
89 139 0.24
90 5 0.01
92 1 0.00
93 5 0.01
94 66 0.11
95 39 0.07
96 216 0.37
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (94 bp):
AGATTAAAGCTACAAATACAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAA
ATCTTATTCCCCTGAAGTTGCAGTAGAAC
Found at i:14469216 original size:89 final size:89
Alignment explanation
Indices: 14469064--14469473 Score: 305
Period size: 89 Copynumber: 4.6 Consensus size: 89
14469054 AACCACAAGT
* * * *
14469064 CTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
*
14469129 GTAGAGCAGATTAAAGCTATAAAC
66 ATAGAGCAGATTAAAGCTATAAAC
* * *
14469153 TTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAGTAAATCTTATCTCTCTAAAGTTGCA
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
14469218 ATAGAGCAGATTAAAGCTATAAAC
66 ATAGAGCAGATTAAAGCTATAAAC
* * * * * * *
14469242 CTTATCTCACA-GAAGTTGCAGT-GCAGTAGA-TCAAAGTTA-CAAATCCTATAC-CCCTAAAGT
1 CTTATCTC-CATAAAGTTACAGTAG-AGCAGATTGAAA-ATAGCAAATCTTAT-CTCTCTAAAGT
* * * * * * *
14469302 TGTAGT-GGGACGGATTGAAGTTATCATGGTAAAT
62 TGCAATAGAG-CAGATT-AA---AGC-T-ATAAAC
* * * * *** * * *
14469336 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAGATCTTATCTCTTTGAAGTTGCA
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
* * * *
14469400 ATTGAGCAGATTAAAGTTACAAAT
66 ATAGAGCAGATTAAAGCTATAAAC
* * *
14469424 ATTATCTCCTTAAAGTTACAGTAGAGTAGATT-AAAGATAGCAAATCTTAT
1 CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAA-ATAGCAAATCTTAT
14469474 TTCCTTGAAG
Statistics
Matches: 249, Mismatches: 54, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
87 4 0.02
88 61 0.24
89 117 0.47
90 2 0.01
92 2 0.01
93 5 0.02
94 52 0.21
95 6 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (89 bp):
CTTATCTCCATAAAGTTACAGTAGAGCAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCA
ATAGAGCAGATTAAAGCTATAAAC
Found at i:14469440 original size:138 final size:132
Alignment explanation
Indices: 14469063--14469738 Score: 439
Period size: 138 Copynumber: 4.9 Consensus size: 132
14469053 AAACCACAAG
* * *
14469063 TCTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTTATCTCTCTGAAGTTGC
* * * *
14469128 AGTAGAGCAGATTAAAGCTATAAACTTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAG
65 AATTGAGCAGATTAAAGTTACAAA-TTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAG
14469193 TAAA
129 TAAA
* * * * * * * * *
14469197 TCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTATAAACCTTATCTCACAGAAGTTGC-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGCA
* * * * ** * *
14469261 AGTGCAGTAGATCAAAGTTACAAATCCTATAC-CCCTAAAGTTGTAGT-GGGACGGATTGAAGTT
66 ATTG-AGCAGATTAAAGTTACAAAT-TTAT-CTCCCTAAAGTTACAGTAGAG-CAGATTGAA---
*
14469324 ATCATGGTAAA
124 A--ATAGTAAA
* * *
14469335 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAGATCTTATCTCTTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGCA
* *
14469400 ATTGAGCAGATTAAAGTTACAAATATTATCTCCTTAAAGTTACAGTAGAGTAGATT-AAAGATAG
66 ATTGAGCAGATTAAAGTTACAAAT-TTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAA-ATAG
*
14469464 CAAA
129 TAAA
* * * * * * * *
14469468 TCTTATTTCCTTGAAGTTGTAGAGGAATAGATTAAAATTACAAGTTACAAATCTTATCTCTCTGA
1 TCTTATCTCCCTGAAGTTGCAGTGG---AG---CAGATT-GAAGCTACAAATCTTATCTCTCTGA
* * * * * * * ** *
14469533 AGTTGCAGTAGAGTAGATTAAAGATAGCAAATCTTATTTCCTTGAAGTTGTAG-AGGAACAGATT
59 AGTTGCAATTGAGCAGATTAAAGTTA-CAAAT-TTATCTCCCTAAAGTTACAGTA-GAGCAGATT
14469597 -AAAATTACAAGTTACAAA
121 GAAAA-T---AG-T--AAA
* * * ** *
14469615 TCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAATTACAAATCTTATCT-TCTTGATGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTC-TGAAGTTGC
* * ** ** * * *
14469679 AGTGGAATAGATGGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
65 AATTGAGCAGATTAAAGTTACAAAT-TTATCTCCCTAAAGTTACAGTAGAGCAGATTGAA
14469739 GCTACAAATC
Statistics
Matches: 415, Mismatches: 96, Indels: 56
0.73 0.17 0.10
Matches are distributed among these distances:
132 4 0.01
133 86 0.21
134 34 0.08
136 3 0.01
137 3 0.01
138 96 0.23
139 41 0.10
140 86 0.21
141 36 0.09
144 4 0.01
147 22 0.05
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (132 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGCA
ATTGAGCAGATTAAAGTTACAAATTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAAATAGTA
AA
Found at i:14469762 original size:44 final size:44
Alignment explanation
Indices: 14469609--14469779 Score: 184
Period size: 44 Copynumber: 3.9 Consensus size: 44
14469599 AATTACAAGT
* * **
14469609 TACAAATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAAT
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
* * * *
14469653 TACAAATCTTATCT-TCTTGATGTTGCAGTGGAATAGATGGAAGC
1 TACAAATCTTATCTCTC-TAAAGTTGCAGTGGAGTAGATTGAAGC
* *
14469697 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
* * * *
14469741 TACAAATCTTATTTTTGTAAAGTTGTAGTAGG-GTAGATT
1 TACAAATCTTATCTCTCTAAAGTTGCAGT-GGAGTAGATT
14469780 AAAATAACAA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
43 2 0.02
44 101 0.95
45 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (44 bp):
TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
Found at i:14471398 original size:12 final size:12
Alignment explanation
Indices: 14471381--14471405 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14471371 GTTTTTGTTG
14471381 TTTTATTATTTC
1 TTTTATTATTTC
14471393 TTTTATTATTTC
1 TTTTATTATTTC
14471405 T
1 T
14471406 AATATCTTCA
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:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTATTTC
Found at i:14475732 original size:13 final size:13
Alignment explanation
Indices: 14475714--14475738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14475704 TGTAAAATCA
14475714 AAAATATTTTTTC
1 AAAATATTTTTTC
14475727 AAAATATTTTTT
1 AAAATATTTTTT
14475739 ATTGTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATATTTTTTC
Found at i:14476843 original size:26 final size:26
Alignment explanation
Indices: 14476807--14476884 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
14476797 GCCTAGTGAG
**
14476807 CTTGAGTTTAAGTGGGTTAGAGGACC
1 CTTGAGTTTAAGTGGGTCGGAGGACC
*
14476833 CTTGAGTTTAAATGGGTCGGAGGACC
1 CTTGAGTTTAAGTGGGTCGGAGGACC
14476859 CTTGAGTTTAAGTGGGTCGGAGGACC
1 CTTGAGTTTAAGTGGGTCGGAGGACC
14476885 ATGAGCGGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (26 bp):
CTTGAGTTTAAGTGGGTCGGAGGACC
Found at i:14481778 original size:41 final size:42
Alignment explanation
Indices: 14481719--14481811 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 42
14481709 GATATTCTAA
* *
14481719 AAATATTTTATTTTATCTTTTAGTAGTTTATTAAAATAAGGG
1 AAATATTTTATCTTATCTTTTAGTAGTTTATTAAAATAAGAG
* *
14481761 AATTATTTT-TCTTATCTTTTAGTAGTTTATTAGAATAAGAG
1 AAATATTTTATCTTATCTTTTAGTAGTTTATTAAAATAAGAG
14481802 AAATATTTTA
1 AAATATTTTA
14481812 CCAATTAGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 37 0.82
42 8 0.18
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (42 bp):
AAATATTTTATCTTATCTTTTAGTAGTTTATTAAAATAAGAG
Found at i:14486568 original size:6 final size:7
Alignment explanation
Indices: 14486549--14486579 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
14486539 AGTTGAATTG
14486549 AATTTTT
1 AATTTTT
14486556 AATTTTT
1 AATTTTT
14486563 AATTTTT
1 AATTTTT
14486570 AATTTTT
1 AATTTTT
14486577 AAT
1 AAT
14486580 GACTTTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:14489203 original size:29 final size:29
Alignment explanation
Indices: 14489158--14489228 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
14489148 CAAATGTGTA
*
14489158 TATAATTT-TTAAAAATT-TTAATCATTATT
1 TATAATTTCTT-AAAATTATTAATAATTA-T
*
14489187 TATAATTTCTTATAATTATTAATAATTAT
1 TATAATTTCTTAAAATTATTAATAATTAT
*
14489216 TATAATTACTTAA
1 TATAATTTCTTAA
14489229 GAAACTGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 25 0.69
30 11 0.31
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (29 bp):
TATAATTTCTTAAAATTATTAATAATTAT
Found at i:14489211 original size:10 final size:10
Alignment explanation
Indices: 14489159--14489228 Score: 56
Period size: 10 Copynumber: 7.1 Consensus size: 10
14489149 AAATGTGTAT
*
14489159 ATAATTTTTA
1 ATAATTATTA
*
14489169 AAAATT-TTA
1 ATAATTATTA
* *
14489178 ATCATTATTT
1 ATAATTATTA
*
14489188 ATAATT-TCTT
1 ATAATTAT-TA
14489198 ATAATTATTA
1 ATAATTATTA
14489208 ATAATTATT-
1 ATAATTATTA
14489217 ATAATTACTTA
1 ATAATTA-TTA
14489228 A
1 A
14489229 GAAACTGTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 15 0.31
10 32 0.65
11 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (10 bp):
ATAATTATTA
Found at i:14489353 original size:18 final size:17
Alignment explanation
Indices: 14489316--14489356 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
14489306 TTCTGGATGT
*
14489316 TTTTAATATTTTTTAATA
1 TTTT-ATATTTCTTAATA
14489334 TTTTATATTTCTTAATTA
1 TTTTATATTTCTTAA-TA
14489352 TTTTA
1 TTTTA
14489357 AATAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATTTCTTAATA
Found at i:14490222 original size:13 final size:13
Alignment explanation
Indices: 14490206--14490231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14490196 ATACATAACA
14490206 GGTTCACATGTAT
1 GGTTCACATGTAT
14490219 GGTTCACATGTAT
1 GGTTCACATGTAT
14490232 AGGGTTTGCA
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
GGTTCACATGTAT
Found at i:14490334 original size:15 final size:15
Alignment explanation
Indices: 14490314--14490399 Score: 63
Period size: 15 Copynumber: 5.8 Consensus size: 15
14490304 TTTTGGATTT
14490314 GGGTTCACACATATA
1 GGGTTCACACATATA
*
14490329 GGGTTCATAC--ATA
1 GGGTTCACACATATA
* *
14490342 GGGATTCATACATACA
1 GGG-TTCACACATATA
*
14490358 GGGTTCGCACATATA
1 GGGTTCACACATATA
*
14490373 GAGTTTGCACAC-T-TA
1 G-GGTT-CACACATATA
*
14490388 GGGTTCGCACAT
1 GGGTTCACACAT
14490400 CAATAGTTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
13 10 0.18
14 11 0.20
15 22 0.39
16 9 0.16
17 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (15 bp):
GGGTTCACACATATA
Found at i:14490344 original size:13 final size:14
Alignment explanation
Indices: 14490326--14490355 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14490316 GTTCACACAT
14490326 ATAGGG-TTCATAC
1 ATAGGGATTCATAC
14490339 ATAGGGATTCATAC
1 ATAGGGATTCATAC
14490353 ATA
1 ATA
14490356 CAGGGTTCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (14 bp):
ATAGGGATTCATAC
Found at i:14496140 original size:16 final size:16
Alignment explanation
Indices: 14496112--14496144 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14496102 AAGTAATTAA
14496112 AAATAGTACTATATAT
1 AAATAGTACTATATAT
14496128 AAATA-TACATATATAT
1 AAATAGTAC-TATATAT
14496144 A
1 A
14496145 TACATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (16 bp):
AAATAGTACTATATAT
Found at i:14496141 original size:130 final size:126
Alignment explanation
Indices: 14496026--14496421 Score: 422
Period size: 138 Copynumber: 3.0 Consensus size: 126
14496016 ATAATGATGG
* * * *
14496026 TAATGATAATAATACTAGCAATAATAATGAAATACAAAAAAAAAAGCAAATATAATATAATAATA
1 TAATAATAATAATAATAACAATAATAATGAAATAC-----AAAAAGCAAATATAATATAATAAAA
* *
14496091 ATGTTAAAATAAAGTAATTAAA-AATAGTACTATATATAAATATACATATATATATACATATATA
61 ATATTAAAATAAAGTAATTAAATAATAATACTATATATAAATATACATATATATATACATATATA
14496155 A
126 A
*
14496156 TAATAATAATAATAATAATAATAATAATGAAATACAAAAAGCAAATATAATATAATAAAAATATT
1 TAATAATAATAATAATAACAATAATAATGAAATACAAAAAGCAAATATAATATAATAAAAATATT
* * * *
14496221 AAAATAAAGTAATTAAATAATAATACTATGTATAAATATATATACATATATAATAAAAAATATAA
66 AAAATAAAGTAATTAAATAATAATACTATATATAAATATACAT--ATATAT-AT-ACATATAT-A
14496286 A
126 A
* * * *
14496287 TTAATATATAATAATAATAATTATTATTATTAGATTGAAATACAAAAA-CTAATATAGTATAATA
1 -TAATA-ATAATAATAATAA-CA--A-TAATA-A-TGAAATACAAAAAGCAAATATAATATAATA
* * * *
14496351 AAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATAT--ATATACATATACATA
58 AAAATATTAAAATAAAGTAATTAAATAATAATAC-TATATATAAATATACATATATATATACATA
14496414 TATAA
122 TATAA
14496419 TAA
1 TAA
14496422 AAAATGTACA
Statistics
Matches: 232, Mismatches: 19, Indels: 29
0.83 0.07 0.10
Matches are distributed among these distances:
125 45 0.19
126 22 0.09
128 6 0.03
129 2 0.01
130 37 0.16
131 5 0.02
132 7 0.03
133 19 0.08
134 4 0.02
135 5 0.02
136 1 0.00
137 6 0.03
138 47 0.20
139 26 0.11
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (126 bp):
TAATAATAATAATAATAACAATAATAATGAAATACAAAAAGCAAATATAATATAATAAAAATATT
AAAATAAAGTAATTAAATAATAATACTATATATAAATATACATATATATATACATATATAA
Found at i:14496145 original size:12 final size:12
Alignment explanation
Indices: 14496124--14496154 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14496114 ATAGTACTAT
*
14496124 ATATAAATATAC
1 ATATATATATAC
14496136 ATATATATATAC
1 ATATATATATAC
14496148 ATATATA
1 ATATATA
14496155 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATATATAC
Found at i:14496160 original size:3 final size:3
Alignment explanation
Indices: 14496152--14496183 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14496142 ATATACATAT
14496152 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14496184 GAAATACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14496447 original size:3 final size:3
Alignment explanation
Indices: 14496433--14496465 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
14496423 AAATGTACAC
14496433 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
14496466 GTGATTAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14496514 original size:155 final size:155
Alignment explanation
Indices: 14496279--14496629 Score: 561
Period size: 155 Copynumber: 2.3 Consensus size: 155
14496269 TATAATAAAA
* *
14496279 AATATA-AATTAATATATAATAATAATAATTATTA-TTATTAGATTGAAATACAAAAACTAATAT
1 AATATATAA-TAATA-ATAATAATAATAA-TAATAGTGATTAGATTGAAATACAAAAACTAATAT
* *
14496342 AGTATAATAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACAT
63 AATATAACAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACAT
*
14496407 ATACATATATAAT-AAAAAATGTACACT
128 ATACATATATAATAAAAAAATATACACT
14496434 AATATATAATAATAATAATAATAATAATAATAGTGATTAGATTGAAATACAAAAAGCTAATATAA
1 AATATATAATAATAATAATAATAATAATAATAGTGATTAGATTGAAATACAAAAA-CTAATATAA
14496499 TATAACAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACATAT
65 TATAACAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACATAT
14496564 ACATATATAATAAAAAAATATACACT
130 ACATATATAATAAAAAAATATACACT
* *
14496590 -A-CTAT-ATAATAACAATAATAATAATAATAGTGATTAGATT
1 AATATATAATAATAATAATAATAATAATAATAGTGATTAGATT
14496630 AATAATATTA
Statistics
Matches: 185, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
153 38 0.21
154 37 0.20
155 95 0.51
156 15 0.08
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (155 bp):
AATATATAATAATAATAATAATAATAATAATAGTGATTAGATTGAAATACAAAAACTAATATAAT
ATAACAAAAATACTAAAATAAAGTAATTAAAAAATAATACTTATGTATAAATATATATACATATA
CATATATAATAAAAAAATATACACT
Found at i:14497322 original size:22 final size:23
Alignment explanation
Indices: 14497287--14497329 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
14497277 ACAAATTCAA
14497287 AAATAGAAAAGAAAATAATAAAT
1 AAATAGAAAAGAAAATAATAAAT
14497310 AAATAG-AAAGAAAATAATAA
1 AAATAGAAAAGAAAATAATAA
14497330 TAATAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
AAATAGAAAAGAAAATAATAAAT
Found at i:14497966 original size:16 final size:16
Alignment explanation
Indices: 14497941--14498062 Score: 90
Period size: 16 Copynumber: 7.8 Consensus size: 16
14497931 TTGAATGTAT
*
14497941 GGGTTCACATATATAA
1 GGGTTCACATATATAG
* *
14497957 GGGTTTACATGTAT-G
1 GGGTTCACATATATAG
** *
14497972 GGGTT--TGTATATAT
1 GGGTTCACATATATAG
* *
14497986 GGGTTTACATACATAG
1 GGGTTCACATATATAG
*
14498002 GGGTTCGCATATATAG
1 GGGTTCACATATATAG
*
14498018 GGGTTCACATACAT-G
1 GGGTTCACATATATAG
* * *
14498033 GGGATTCATATACATGG
1 GGG-TTCACATATATAG
14498050 GGGTTCACATATA
1 GGGTTCACATATA
14498063 CAAATTACAT
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
13 4 0.05
14 5 0.06
15 9 0.11
16 60 0.73
17 4 0.05
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (16 bp):
GGGTTCACATATATAG
Found at i:14497967 original size:45 final size:45
Alignment explanation
Indices: 14497877--14498007 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
14497867 GGGTCTTACA
* * **
14497877 ATGGGGTTCGTATATATGGATGTTCACATATACGGGGGTTCACATGC
1 ATGGGGTTTGAATATATGG--GTTCACATATATAGGGGTTCACATGC
* * * *
14497924 ATGGGGTTTGAATGTATGGGTTCACATATATAAGGGTTTACATGT
1 ATGGGGTTTGAATATATGGGTTCACATATATAGGGGTTCACATGC
* * *
14497969 ATGGGGTTTGTATATATGGGTTTACATACATAGGGGTTC
1 ATGGGGTTTGAATATATGGGTTCACATATATAGGGGTTC
14498008 GCATATATAG
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
45 54 0.77
47 16 0.23
ACGTcount: A:0.24, C:0.10, G:0.30, T:0.36
Consensus pattern (45 bp):
ATGGGGTTTGAATATATGGGTTCACATATATAGGGGTTCACATGC
Found at i:14499700 original size:38 final size:38
Alignment explanation
Indices: 14499648--14499775 Score: 186
Period size: 38 Copynumber: 3.4 Consensus size: 38
14499638 CCTACTAAAA
* *
14499648 ACATGATAAGCATGTCTACTATTAATGATGAATTGAGT
1 ACATGTTAAACATGTCTACTATTAATGATGAATTGAGT
* *
14499686 ACATGTTTAACATGTTTACTATTAATGAT-AATTTGAGT
1 ACATGTTAAACATGTCTACTATTAATGATGAA-TTGAGT
* *
14499724 ACATGTTAAACATGTCTACTATTAATGATGATTTGAAT
1 ACATGTTAAACATGTCTACTATTAATGATGAATTGAGT
14499762 ACATGTTAAACATG
1 ACATGTTAAACATG
14499776 CCTGCTGCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.03
38 77 0.96
39 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (38 bp):
ACATGTTAAACATGTCTACTATTAATGATGAATTGAGT
Found at i:14501229 original size:28 final size:27
Alignment explanation
Indices: 14501171--14501265 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
14501161 TAAAATATAG
** * *
14501171 AAAATATAAAAGTTAGAAAATTATTAGA
1 AAAATATAAAACATAGAAAAATATT-TA
14501199 AAAATATAAAACATAGAAAAAATATTTA
1 AAAATATAAAACATAG-AAAAATATTTA
* * *
14501227 AAATTTTAAAATATAGAAAAAT-TTTAA
1 AAAATATAAAACATAGAAAAATATTT-A
14501254 AAAATTATAAAA
1 AAAA-TATAAAA
14501266 ATTAACTATC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
26 3 0.05
27 10 0.18
28 34 0.62
29 8 0.15
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (27 bp):
AAAATATAAAACATAGAAAAATATTTA
Found at i:14501269 original size:9 final size:9
Alignment explanation
Indices: 14501162--14501432 Score: 76
Period size: 9 Copynumber: 29.1 Consensus size: 9
14501152 AAATTTGTTT
14501162 AAAA-TATA
1 AAAATTATA
14501170 GAAAA-TATA
1 -AAAATTATA
* *
14501179 AAAGTTA-G
1 AAAATTATA
14501187 AAAATTATTA
1 AAAATTA-TA
*
14501197 GAAAAATATA
1 -AAAATTATA
*
14501207 AAACA-TAGA
1 AAA-ATTATA
* *
14501216 AAAAATATTT
1 AAAATTA-TA
*
14501226 AAAATT-TT
1 AAAATTATA
*
14501234 AAAATATAGA
1 AAAAT-TATA
*
14501244 AAAATTTTAA
1 AAAATTAT-A
14501254 AAAATTATA
1 AAAATTATA
14501263 AAAATTAACTA
1 AAAATT-A-TA
** *
14501274 TCAACTATA
1 AAAATTATA
*
14501283 AAAA-TACA
1 AAAATTATA
14501291 TAAAATTATTA
1 -AAAATTA-TA
14501302 AAAATCTATA
1 AAAAT-TATA
14501312 AAAA-TATA
1 AAAATTATA
14501320 AAAATTATA
1 AAAATTATA
* * *
14501329 AATATAACA
1 AAAATTATA
* *
14501338 AATATATATT
1 AAAAT-TATA
* * * *
14501348 GAATTTTTT
1 AAAATTATA
14501357 AAAATTATA
1 AAAATTATA
14501366 AAAATTATTA
1 AAAATTA-TA
*
14501376 TAAAATTTTA
1 -AAAATTATA
*
14501386 AAAA-TA-G
1 AAAATTATA
14501393 AAAATT-TA
1 AAAATTATA
14501401 AAATATATATA
1 AAA-AT-TATA
*
14501412 TAAGATATATA
1 -AAAAT-TATA
14501423 AAAATTATA
1 AAAATTATA
14501432 A
1 A
14501433 TTTAATCATT
Statistics
Matches: 195, Mismatches: 41, Indels: 52
0.68 0.14 0.18
Matches are distributed among these distances:
7 4 0.02
8 33 0.17
9 79 0.41
10 48 0.25
11 29 0.15
12 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:14501285 original size:29 final size:29
Alignment explanation
Indices: 14501253--14501326 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
14501243 AAAAATTTTA
**
14501253 AAAAATTATAAAAATTAACTATCAA-CTAT
1 AAAAA-TATAAAAATTAACTAAAAATCTAT
* *
14501282 AAAAATACATAAAATT-ATTAAAAATCTAT
1 AAAAATATA-AAAATTAACTAAAAATCTAT
14501311 AAAAATATAAAAATTA
1 AAAAATATAAAAATTA
14501327 TAAATATAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAAATATAAAAATTAACTAAAAATCTAT
Found at i:14501303 original size:19 final size:18
Alignment explanation
Indices: 14501279--14501330 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
14501269 AACTATCAAC
*
14501279 TATAAAAATAC-ATAAAAT
1 TATAAAAAT-CTATAAAAA
14501297 TATTAAAAATCTATAAAAA
1 TA-TAAAAATCTATAAAAA
14501316 TATAAAAAT-TATAAA
1 TATAAAAATCTATAAA
14501331 TATAACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 6 0.19
18 10 0.32
19 15 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAATCTATAAAAA
Found at i:14501321 original size:8 final size:8
Alignment explanation
Indices: 14501279--14501343 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
14501269 AACTATCAAC
14501279 TATAAAAA
1 TATAAAAA
*
14501287 TACATAAAAT
1 T--ATAAAAA
14501297 TATTAAAAA
1 TA-TAAAAA
14501306 TCTATAAAAA
1 --TATAAAAA
14501316 TATAAAAA
1 TATAAAAA
*
14501324 T-TATAAA
1 TATAAAAA
14501331 TATAACAAA
1 TATAA-AAA
14501340 TATA
1 TATA
14501344 TATTGAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 6 0.13
8 13 0.28
9 12 0.26
10 13 0.28
11 2 0.04
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (8 bp):
TATAAAAA
Found at i:14501345 original size:17 final size:16
Alignment explanation
Indices: 14501279--14501345 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 16
14501269 AACTATCAAC
*
14501279 TATAAAAATACATAAAA
1 TATAAAAATATAT-AAA
*
14501296 TTATTAAAAATCTATAAAAA
1 -TA-TAAAAA--TATATAAA
14501316 TATAAAAAT-TATAAA
1 TATAAAAATATATAAA
14501331 TATAACAAATATATA
1 TATAA-AAATATATA
14501346 TTGAATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
15 10 0.24
16 5 0.12
17 4 0.10
18 8 0.20
19 8 0.20
20 3 0.07
21 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (16 bp):
TATAAAAATATATAAA
Found at i:14501379 original size:20 final size:20
Alignment explanation
Indices: 14501233--14501390 Score: 71
Period size: 20 Copynumber: 7.8 Consensus size: 20
14501223 TTTAAAATTT
*
14501233 TAAAATATAGAAAAATT-TTA
1 TAAAAT-TATAAAAATTATTA
* *
14501253 AAAAATTATAAAAATTAACTA
1 TAAAATTATAAAAATT-ATTA
* * *
14501274 T-CAACTATAAAAA-TA-CA
1 TAAAATTATAAAAATTATTA
14501291 TAAAATTATTAAAAATCTA-TA
1 TAAAATTA-TAAAAAT-TATTA
14501312 -AAAA-TATAAAAATTATAAATA
1 TAAAATTATAAAAATTAT---TA
** *
14501333 TAACAAATATATATTGAATT-TTT
1 T-A-AAAT-TATA-AAAATTATTA
14501356 TAAAATTATAAAAATTATTA
1 TAAAATTATAAAAATTATTA
*
14501376 TAAAATTTTAAAAAT
1 TAAAATTATAAAAAT
14501391 AGAAAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
17 4 0.04
18 12 0.12
19 22 0.21
20 39 0.38
21 11 0.11
22 1 0.01
23 3 0.03
24 3 0.03
26 5 0.05
27 4 0.04
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (20 bp):
TAAAATTATAAAAATTATTA
Found at i:14501887 original size:30 final size:30
Alignment explanation
Indices: 14501851--14501913 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
14501841 ACTTAACAAG
*
14501851 CAAATGCCTCTATAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
*
14501881 CAAATGCCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
14501911 CAA
1 CAA
14501914 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAATAAAATTAA
Found at i:14501920 original size:17 final size:17
Alignment explanation
Indices: 14501890--14501922 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14501880 ACAAATGCCT
14501890 TTAAAATAATAATAAAA
1 TTAAAATAATAATAAAA
14501907 TTAACAATAA-AATAAA
1 TTAA-AATAATAATAAA
14501923 TTTTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAATAATAATAAAA
Found at i:14502456 original size:22 final size:22
Alignment explanation
Indices: 14502431--14502497 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
14502421 ATTTTTATGA
*
14502431 TTTTTATAATATTTTTTTAAAT
1 TTTTTATAATATTTTTATAAAT
* **
14502453 TTTTTTTTCTATTTTTATAAAT
1 TTTTTATAATATTTTTATAAAT
* *
14502475 TTTTAATAAT-TTTCTAT-AAT
1 TTTTTATAATATTTTTATAAAT
14502495 TTT
1 TTT
14502498 CCATATTTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 6 0.17
21 6 0.17
22 24 0.67
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATAATATTTTTATAAAT
Found at i:14502476 original size:10 final size:9
Alignment explanation
Indices: 14502407--14502631 Score: 81
Period size: 9 Copynumber: 24.1 Consensus size: 9
14502397 GATGATTAAA
14502407 TTATAATTT
1 TTATAATTT
*
14502416 TTATGATTT
1 TTATAATTT
*
14502425 TTATGATTT
1 TTATAATTT
14502434 TTATAATATTT
1 TTAT-A-ATTT
* *
14502445 TTTTAA-AT
1 TTATAATTT
14502453 TT-T--TTT
1 TTATAATTT
*
14502459 TTCT-ATTT
1 TTATAATTT
14502467 TTATAAATTT
1 TTAT-AATTT
14502477 TTAATAATTT
1 TT-ATAATTT
14502487 TCTATAATTT
1 T-TATAATTT
*
14502497 TCCAT-ATTT
1 T-TATAATTT
*
14502506 ATAATAATTT
1 -TTATAATTT
14502516 TTAATAATTT
1 TT-ATAATTT
*
14502526 TTAAAAGTTT
1 TTATAA-TTT
*
14502536 TCTAT-GTTAT
1 T-TATAATT-T
14502546 TTATAAAATTT
1 TTAT--AATTT
**
14502557 CAATAA-TT
1 TTATAATTT
14502565 TTATAATTT
1 TTATAATTT
** *
14502574 TGCTATTTT
1 TTATAATTT
14502583 TTATAAGTTT
1 TTATAA-TTT
*
14502593 CTAT-ATTT
1 TTATAATTT
*
14502601 TTAAATATCTTT
1 TT--ATA-ATTT
14502613 TTATAATTT
1 TTATAATTT
*
14502622 TAATAATTT
1 TTATAATTT
14502631 T
1 T
14502632 AGTGTTTTTT
Statistics
Matches: 164, Mismatches: 28, Indels: 48
0.68 0.12 0.20
Matches are distributed among these distances:
6 3 0.02
7 2 0.01
8 19 0.12
9 63 0.38
10 55 0.34
11 15 0.09
12 7 0.04
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
TTATAATTT
Found at i:14502497 original size:29 final size:28
Alignment explanation
Indices: 14502457--14502530 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
14502447 TTAAATTTTT
*
14502457 TTTTCTAT--TTTTATAAATTTTTAATAA
1 TTTTCTATAATTTT-TAAATTTATAATAA
* *
14502484 TTTTCTATAATTTTCCATATTTATAATAA
1 TTTTCTATAATTTT-TAAATTTATAATAA
14502513 TTTT-TAATAATTTTTAAA
1 TTTTCT-ATAATTTTTAAA
14502531 AGTTTTCTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 8 0.21
28 3 0.08
29 27 0.71
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTTCTATAATTTTTAAATTTATAATAA
Found at i:14503153 original size:17 final size:18
Alignment explanation
Indices: 14503133--14503169 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
14503123 TTAGAAAATT
14503133 TATTTAAA-AATAAAAAA
1 TATTTAAATAATAAAAAA
*
14503150 TA-TTAAATATTAAAAAA
1 TATTTAAATAATAAAAAA
14503167 TAT
1 TAT
14503170 GAAAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATTTAAATAATAAAAAA
Found at i:14503275 original size:21 final size:22
Alignment explanation
Indices: 14503232--14503279 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
14503222 TATAAAAGTA
**
14503232 ATAAAAATATTTAAAATTTTAT
1 ATAAAAATATTTAAAATCATAT
14503254 ATAAAAATA-TTAAAATCATAT
1 ATAAAAATATTTAAAATCATAT
14503275 A-AAAA
1 ATAAAA
14503280 TCATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 11 0.46
22 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAAAATATTTAAAATCATAT
Found at i:14503279 original size:11 final size:10
Alignment explanation
Indices: 14503216--14503307 Score: 63
Period size: 9 Copynumber: 9.5 Consensus size: 10
14503206 AATAAATTAC
14503216 AAAAA-ATAT
1 AAAAATATAT
*
14503225 AAAAGTA-AT
1 AAAAATATAT
*
14503234 AAAAATATTT
1 AAAAATATAT
*
14503244 AAAATTTTATAT
1 AAAA--ATATAT
14503256 AAAAATAT-T
1 AAAAATATAT
14503265 -AAAATCATAT
1 AAAAAT-ATAT
*
14503275 AAAAAT-CAT
1 AAAAATATAT
14503284 AAAAATA-ATT
1 AAAAATATA-T
14503294 AAAAA-ATAT
1 AAAAATATAT
14503303 AAAAA
1 AAAAA
14503308 CTTGAACTGG
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
8 5 0.08
9 31 0.47
10 17 0.26
11 5 0.08
12 8 0.12
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:14503286 original size:28 final size:28
Alignment explanation
Indices: 14503254--14503307 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
14503244 AAAATTTTAT
*
14503254 ATAAAAAT-ATTAAAATCATATAAAAATC
1 ATAAAAATAATTAAAA-AATATAAAAATC
14503282 ATAAAAATAATTAAAAAATATAAAAA
1 ATAAAAATAATTAAAAAATATAAAAA
14503308 CTTGAACTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (28 bp):
ATAAAAATAATTAAAAAATATAAAAATC
Found at i:14503307 original size:19 final size:18
Alignment explanation
Indices: 14503141--14503307 Score: 88
Period size: 19 Copynumber: 8.9 Consensus size: 18
14503131 TTTATTTAAA
*
14503141 AATAAAAAATAT-TAAAT
1 AATAAAAAATATAAAAAT
* *
14503158 ATTAAAAAATATGAAAATT
1 AATAAAAAATAT-AAAAAT
* **
14503177 GATATAAACTTATAAAAAT
1 AATA-AAAAATATAAAAAT
* *
14503196 -A-AAAAATTCTAATAAAT
1 AATAAAAAATATAA-AAAT
* * *
14503213 TACAAAAAATATAAAAGT
1 AATAAAAAATATAAAAAT
* *
14503231 AATAAAAATATTTAAAATTT
1 AATAAAAA-ATATAAAA-AT
* *
14503251 TATATAAAAATATTAAAAT
1 AATA-AAAAATATAAAAAT
*
14503270 CATATAAAAATCATAAAAAT
1 AATA-AAAAAT-ATAAAAAT
14503290 AATTAAAAAATATAAAAA
1 AA-TAAAAAATATAAAAA
14503308 CTTGAACTGG
Statistics
Matches: 115, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
16 8 0.07
17 16 0.14
18 11 0.10
19 44 0.38
20 30 0.26
21 6 0.05
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (18 bp):
AATAAAAAATATAAAAAT
Found at i:14503631 original size:8 final size:8
Alignment explanation
Indices: 14503615--14503680 Score: 62
Period size: 8 Copynumber: 7.8 Consensus size: 8
14503605 TAATTTCATA
14503615 ATTTATTAT
1 ATTT-TTAT
14503624 ATTTTTAT
1 ATTTTTAT
14503632 ATTTTATAAT
1 ATTTT-T-AT
14503642 ATTTTTAT
1 ATTTTTAT
*
14503650 AATTTTA-
1 ATTTTTAT
*
14503657 ATATTTAAT
1 AT-TTTTAT
14503666 ATTTTTAT
1 ATTTTTAT
14503674 AATTTTT
1 -ATTTTT
14503681 TCAGATTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
7 1 0.02
8 26 0.54
9 14 0.29
10 7 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTAT
Found at i:14503643 original size:18 final size:18
Alignment explanation
Indices: 14503616--14503681 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
14503606 AATTTCATAA
*
14503616 TTTATTATATTTTTATAT
1 TTTATAATATTTTTATAT
*
14503634 TTTATAATATTTTTATAA
1 TTTATAATATTTTTATAT
*
14503652 TTT-TAATA-TTTAATATT
1 TTTATAATATTTTTATA-T
14503669 TTTATAAT-TTTTT
1 TTTATAATATTTTT
14503682 CAGATTCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 6 0.15
17 8 0.20
18 26 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATAATATTTTTATAT
Found at i:14503647 original size:11 final size:10
Alignment explanation
Indices: 14503633--14503718 Score: 50
Period size: 11 Copynumber: 8.0 Consensus size: 10
14503623 TATTTTTATA
14503633 TTTTATAATAT
1 TTTTATAAT-T
14503644 TTTTATAATT
1 TTTTATAATT
*
14503654 TTAATATTTAATAT
1 TT--T-TATAAT-T
14503668 TTTTATAATT
1 TTTTATAATT
*
14503678 TTTTCA-GATT
1 TTTT-ATAATT
*
14503688 CTTTATAA-T
1 TTTTATAATT
*
14503697 TTTTAAAATAT
1 TTTTATAAT-T
14503708 TTTTAATAATT
1 TTTT-ATAATT
14503719 ATTATGAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
9 8 0.14
10 15 0.26
11 21 0.36
12 6 0.10
13 5 0.09
14 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:14503663 original size:44 final size:43
Alignment explanation
Indices: 14503580--14503699 Score: 111
Period size: 45 Copynumber: 2.7 Consensus size: 43
14503570 GCAAATACAT
* * *
14503580 TTTTTTTATTTTA-AATAAGTTTTATTAA-TTTCATAATTTATTATA
1 TTTTTATATTTTATAAT-ATTTTTA-TAATTTTAATAATTTA--ATA
14503625 TTTTTATATTTTATAATATTTTTATAATTTTAAT-ATTTAATA
1 TTTTTATATTTTATAATATTTTTATAATTTTAATAATTTAATA
* * *
14503667 TTTTTATAATTTTTTCAGATTCTTTATAATTTT
1 TTTTTAT-ATTTTATAATATT-TTTATAATTTT
14503700 TAAAATATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 10 0.15
43 10 0.15
44 19 0.29
45 23 0.35
46 3 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (43 bp):
TTTTTATATTTTATAATATTTTTATAATTTTAATAATTTAATA
Found at i:14503670 original size:24 final size:26
Alignment explanation
Indices: 14503615--14503679 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 26
14503605 TAATTTCATA
* *
14503615 ATTTATTATATTTTTATATTTTATAAT
1 ATTT-TTATAATTTTATATATTATAAT
14503642 ATTTTTATAATTTTA-ATATT-TAAT
1 ATTTTTATAATTTTATATATTATAAT
14503666 ATTTTTATAATTTT
1 ATTTTTATAATTTT
14503680 TTCAGATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 18 0.50
25 4 0.11
26 10 0.28
27 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
ATTTTTATAATTTTATATATTATAAT
Found at i:14503678 original size:9 final size:9
Alignment explanation
Indices: 14503594--14503714 Score: 62
Period size: 9 Copynumber: 13.6 Consensus size: 9
14503584 TTTATTTTAA
*
14503594 ATAAGTTTT
1 ATAATTTTT
*
14503603 ATTAA-TTTC
1 A-TAATTTTT
14503612 ATAATTTATT
1 ATAATTT-TT
14503622 AT-ATTTTT
1 ATAATTTTT
14503630 AT-A-TTTT
1 ATAATTTTT
14503637 ATAATATTTTT
1 AT-A-ATTTTT
*
14503648 ATAATTTTA
1 ATAATTTTT
*
14503657 AT-A-TTTA
1 ATAATTTTT
14503664 AT-ATTTTT
1 ATAATTTTT
14503672 ATAATTTTT
1 ATAATTTTT
14503681 -TCAGATTCTTT
1 AT-A-ATT-TTT
14503692 ATAATTTTT
1 ATAATTTTT
*
14503701 AAAATATTTT
1 ATAAT-TTTT
14503711 -TAAT
1 ATAAT
14503715 AATTATTATG
Statistics
Matches: 92, Mismatches: 6, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
7 13 0.14
8 15 0.16
9 35 0.38
10 18 0.20
11 10 0.11
12 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:14503833 original size:17 final size:18
Alignment explanation
Indices: 14503811--14503848 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14503801 AATCAATACC
*
14503811 ATTAAT-GGAGGGACTTA
1 ATTAATAGGAGGAACTTA
*
14503828 ATTAATAGTAGGAACTTA
1 ATTAATAGGAGGAACTTA
14503846 ATT
1 ATT
14503849 GGATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (18 bp):
ATTAATAGGAGGAACTTA
Found at i:14506178 original size:29 final size:30
Alignment explanation
Indices: 14506128--14506189 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
14506118 ACTTATTTTA
14506128 TTGTAAATTTTATTATTATTTTAAAGGCAT
1 TTGTAAATTTTATTATTATTTTAAAGGCAT
* *
14506158 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTAAATTTTATTATTATTTTAAAGGCAT
14506187 TTG
1 TTG
14506190 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTAAATTTTATTATTATTTTAAAGGCAT
Found at i:14506213 original size:13 final size:13
Alignment explanation
Indices: 14506195--14506221 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14506185 ATTTGCTTGT
14506195 TAAGTTGCATTTA
1 TAAGTTGCATTTA
14506208 TAAGTTGCATTTA
1 TAAGTTGCATTTA
14506221 T
1 T
14506222 CTTAGTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TAAGTTGCATTTA
Found at i:14512647 original size:11 final size:11
Alignment explanation
Indices: 14512631--14512656 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14512621 TTACACTATA
14512631 AATAACAATTT
1 AATAACAATTT
14512642 AATAACAATTT
1 AATAACAATTT
14512653 AATA
1 AATA
14512657 GCTAACACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAACAATTT
Found at i:14512921 original size:2 final size:2
Alignment explanation
Indices: 14512909--14512943 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
14512899 TTTATACATA
14512909 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14512944 ACACCTAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14513279 original size:32 final size:30
Alignment explanation
Indices: 14513229--14513292 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
14513219 CTTATCAAGT
14513229 AAATACCTCTAAAATAATAATAAAAATTTAAC
1 AAATACCTCTAAAATAATAA-AAAAA-TTAAC
* * *
14513261 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAATAAAAAAATTAAC
14513291 AA
1 AA
14513293 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.24
31 4 0.14
32 18 0.62
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAAAAAAATTAAC
Found at i:14514041 original size:32 final size:32
Alignment explanation
Indices: 14514005--14514074 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
14513995 CCAATTAGAA
*
14514005 TTTCTTACTCTATTCACTATATATCTTCATCT
1 TTTCTTACTCTATTCACTATATATCTTCATAT
14514037 TTTCTTACTCTATTCACTATATATCTTCATAT
1 TTTCTTACTCTATTCACTATATATCTTCATAT
14514069 TTTCTT
1 TTTCTT
14514075 TCTCCCCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTCTTACTCTATTCACTATATATCTTCATAT
Found at i:14516025 original size:41 final size:41
Alignment explanation
Indices: 14515972--14516120 Score: 208
Period size: 41 Copynumber: 3.6 Consensus size: 41
14515962 ATAGTGATTC
*
14515972 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTCATTT
1 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTAATTT
* *
14516013 AGGCTTTATGCCTAGCAGGCTTTGTGTCAGTCTATTAATTT
1 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTAATTT
* * *
14516054 AGGTTTTGTGCCTAGCAGGCTTTGTGCCAGTGTATTAATTC
1 AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTAATTT
* * * *
14516095 AAGCTTTGTACCTAGTAGACTTTGTG
1 AGGCTTTGTGCCTAGCAGGCTTTGTG
14516121 CTGGTCTAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (41 bp):
AGGCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTATTAATTT
Found at i:14518336 original size:21 final size:21
Alignment explanation
Indices: 14518312--14518352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14518302 TTGAAACATA
14518312 TGATTT-GTATAATTTTGGTTT
1 TGATTTGGTATAA-TTTGGTTT
*
14518333 TGATTTGGTATGATTTGGTT
1 TGATTTGGTATAATTTGGTT
14518353 GATGAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (21 bp):
TGATTTGGTATAATTTGGTTT
Found at i:14519999 original size:22 final size:22
Alignment explanation
Indices: 14519974--14520015 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14519964 ATAATTGTTC
*
14519974 TTATAGAAAAATATAAAAGGTA
1 TTATACAAAAATATAAAAGGTA
14519996 TTATACAAAAATATAAAAGG
1 TTATACAAAAATATAAAAGG
14520016 ATAAACACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (22 bp):
TTATACAAAAATATAAAAGGTA
Found at i:14527234 original size:37 final size:36
Alignment explanation
Indices: 14527184--14527266 Score: 130
Period size: 37 Copynumber: 2.3 Consensus size: 36
14527174 TCGGTACATT
*
14527184 ATGATGTGTAAGGCTGGGTGAGTGTTTTAAACCCCA
1 ATGATGTGTAAGGCTAGGTGAGTGTTTTAAACCCCA
*
14527220 CATGATGTGTAAGGCTAGGTGGGTGTTTTAAACCCCA
1 -ATGATGTGTAAGGCTAGGTGAGTGTTTTAAACCCCA
*
14527257 ATGGTGTGTA
1 ATGATGTGTA
14527267 GGGATGGTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
36 9 0.21
37 34 0.79
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.31
Consensus pattern (36 bp):
ATGATGTGTAAGGCTAGGTGAGTGTTTTAAACCCCA
Found at i:14527383 original size:35 final size:35
Alignment explanation
Indices: 14527337--14527444 Score: 137
Period size: 35 Copynumber: 3.1 Consensus size: 35
14527327 TGTATATCTA
* *
14527337 TATCTATATCTGAGATGGGCTTAGCCCCAAATATG
1 TATCTGTATCTGAGATGGGCTTAGGCCCAAATATG
* *
14527372 TATCTGTATCTGCA-ATGGGCTTAGGCTCGAATATG
1 TATCTGTATCTG-AGATGGGCTTAGGCCCAAATATG
* * *
14527407 CATCTGTATCTGTGATGGGCTTAGGCCCAAATTTG
1 TATCTGTATCTGAGATGGGCTTAGGCCCAAATATG
14527442 TAT
1 TAT
14527445 TTGATTCATT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
35 60 0.98
36 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (35 bp):
TATCTGTATCTGAGATGGGCTTAGGCCCAAATATG
Found at i:14531268 original size:29 final size:29
Alignment explanation
Indices: 14531236--14531293 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
14531226 TGCACAAAAC
*
14531236 TTTTATAAAATTTTAAATTGA-TTCTTAAA
1 TTTTAAAAAATTTT-AATTGAGTTCTTAAA
*
14531265 TTTTAAAAAATTTTAATTGAGTTTTTAAA
1 TTTTAAAAAATTTTAATTGAGTTCTTAAA
14531294 ATATTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (29 bp):
TTTTAAAAAATTTTAATTGAGTTCTTAAA
Found at i:14532113 original size:148 final size:148
Alignment explanation
Indices: 14531822--14532119 Score: 460
Period size: 150 Copynumber: 2.0 Consensus size: 148
14531812 AATAGTATTC
* * *
14531822 ATAATAGTTTTCTTTCACTCACATTATGTTTGGAAACTATAAATTTAACTAATAATTATATTTGG
1 ATAATAGTTTTATTTCACTCACATTATATTTGGAAACTATAAATTTAACTAATAATTATATTTGA
*
14531887 TACATAATAAGATTTTTCTAAAGCTTTTATAATTATAATTTTATATTGTGTCTGTAAATCAAATT
66 TACATAATAAGATTTTTCTAAAGCTTTTATAATGATAATTTTATATTGTGTCTGTAAATCAAATT
*
14531952 GATAATCAAATTATAAATT
131 GATAATAAAATTAT-AATT
**
14531971 ATAATAGTTTTTATTTTGCTCACATTATATTTGGAAACTATAAATTTAACTAATAATTATAATTT
1 ATAATAG-TTTTATTTCACTCACATTATATTTGGAAACTATAAATTTAACTAATAATTAT-ATTT
14532036 -ATACATAA-AAGATTTTTCTAAAGC-TTTATAATGATAATTTTATATTGTGT-TCGTAAATCAA
64 GATACATAATAAGATTTTTCTAAAGCTTTTATAATGATAATTTTATATTGTGTCT-GTAAATCAA
*
14532097 TTTGATAATAAAATTATAATT
128 ATTGATAATAAAATTATAATT
14532118 AT
1 AT
14532120 TTTTTGAAAA
Statistics
Matches: 138, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
147 7 0.05
148 49 0.36
149 23 0.17
150 55 0.40
151 4 0.03
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (148 bp):
ATAATAGTTTTATTTCACTCACATTATATTTGGAAACTATAAATTTAACTAATAATTATATTTGA
TACATAATAAGATTTTTCTAAAGCTTTTATAATGATAATTTTATATTGTGTCTGTAAATCAAATT
GATAATAAAATTATAATT
Found at i:14535593 original size:21 final size:22
Alignment explanation
Indices: 14535564--14535610 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
14535554 CAGAAGGAGT
*
14535564 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14535586 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
14535607 GAGT
1 GAGT
14535611 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:14540333 original size:32 final size:32
Alignment explanation
Indices: 14540281--14540353 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
14540271 TCGTAAACTT
*
14540281 ATAAATTGATTACTTGAATTT-AGTAACTCATG
1 ATAAATTGATTAATTGAATTTGA-TAACTCATG
*
14540313 ATAAATTGATTAATAT-AATTTGATAACTCTTG
1 ATAAATTGATTAAT-TGAATTTGATAACTCATG
*
14540345 ATTAATTGA
1 ATAAATTGA
14540354 ACTTGTTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (32 bp):
ATAAATTGATTAATTGAATTTGATAACTCATG
Found at i:14543122 original size:11 final size:11
Alignment explanation
Indices: 14543082--14543128 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
14543072 CTTATAATTC
14543082 TTAATACATT-T
1 TTAATA-ATTAT
*
14543093 TAAATAATTAT
1 TTAATAATTAT
*
14543104 GT-ATAATTAT
1 TTAATAATTAT
14543114 TTAATAATTAT
1 TTAATAATTAT
14543125 TTAA
1 TTAA
14543129 GAAACAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (11 bp):
TTAATAATTAT
Found at i:14543207 original size:32 final size:32
Alignment explanation
Indices: 14543144--14543207 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
14543134 AATTCTAGAA
* ** *
14543144 TGAACCTAGACAAACATTTGTCTAAGCTCATT
1 TGAACCTAAACAAACACGTGTCCAAGCTCATT
* *
14543176 TGAACCTAAACAACCACGTGTCCAAGTTCATT
1 TGAACCTAAACAAACACGTGTCCAAGCTCATT
14543208 CTAAATATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (32 bp):
TGAACCTAAACAAACACGTGTCCAAGCTCATT
Found at i:14545458 original size:23 final size:24
Alignment explanation
Indices: 14545423--14545468 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
14545413 AAGTGTTGAC
14545423 AAAAAATTAAATTAAATTAAAATTT
1 AAAAAATTAAATTAAA-TAAAATTT
14545448 AAAAAA-T-AATTAAATAAAATT
1 AAAAAATTAAATTAAATAAAATT
14545469 CTATTTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 7 0.33
24 1 0.05
25 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAAATTAAATTAAATAAAATTT
Found at i:14561475 original size:53 final size:52
Alignment explanation
Indices: 14561350--14561496 Score: 161
Period size: 53 Copynumber: 2.8 Consensus size: 52
14561340 ATTTATGTTT
* * ** *
14561350 CCGTATAAGACCATATCCGAGCTATGGCATCGGTACAATATGATTTGCGTTC
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATGATATGCGTTC
* * * * *
14561402 CCGTATAAGACTATAACTGGGCTATGGCATCGGTGTGATGTGATAATGTGATT-
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATGAT-ATGCG-TTC
* *
14561455 CTGTATAAGACCATATCTGGGATATGGCATCGGTATGATATG
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATG
14561497 TAATCCGTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 36 0.47
53 39 0.51
54 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (52 bp):
CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATGATATGCGTTC
Found at i:14562074 original size:17 final size:21
Alignment explanation
Indices: 14562032--14562074 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14562022 GATTGGAAAA
14562032 TGAAATATACTTGTTTTGGCT
1 TGAAATATACTTGTTTTGGCT
14562053 TGAAATA-A-TTG-TTTGG-T
1 TGAAATATACTTGTTTTGGCT
14562070 TGAAA
1 TGAAA
14562075 ATTTTTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 3 0.14
20 1 0.05
21 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TGAAATATACTTGTTTTGGCT
Found at i:14562076 original size:18 final size:20
Alignment explanation
Indices: 14562032--14562076 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
14562022 GATTGGAAAA
*
14562032 TGAAATATACTTGTTTTGGCT
1 TGAAA-ATAATTGTTTTGGCT
14562053 TG-AAATAATTG-TTTGG-T
1 TGAAAATAATTGTTTTGGCT
14562070 TGAAAAT
1 TGAAAAT
14562077 TTTTAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 6 0.27
20 2 0.09
21 2 0.09
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TGAAAATAATTGTTTTGGCT
Found at i:14562357 original size:20 final size:20
Alignment explanation
Indices: 14562307--14562360 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
14562297 CACGGCTGCA
* * *
14562307 CCACACGGGCATGTTCCAGG
1 CCACACGGGCGTGTCCCAAG
14562327 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
14562347 CTACACGGGCGTGT
1 CCACACGGGCGTGT
14562361 GCCCCTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.15
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:14564488 original size:30 final size:33
Alignment explanation
Indices: 14564445--14564506 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 33
14564435 GTATTAATTT
14564445 ATAATTTCATTATT-T-TTTAAGGA-GCTAAAC
1 ATAATTTCATTATTCTCTTTAAGGAGGCTAAAC
** *
14564475 ATAATTTTTTTATTCTCTTTAGGGAGGCTAAA
1 ATAATTTCATTATTCTCTTTAAGGAGGCTAAA
14564507 GTGTAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 12 0.46
31 1 0.04
32 7 0.27
33 6 0.23
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (33 bp):
ATAATTTCATTATTCTCTTTAAGGAGGCTAAAC
Found at i:14565296 original size:13 final size:13
Alignment explanation
Indices: 14565278--14565320 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
14565268 GGTTATAATT
14565278 AAATATATGAGTA
1 AAATATATGAGTA
14565291 AAATATA--AG-A
1 AAATATATGAGTA
14565301 AAATATATGAGTA
1 AAATATATGAGTA
14565314 AAATATA
1 AAATATA
14565321 AGAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.30
11 2 0.07
12 2 0.07
13 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (13 bp):
AAATATATGAGTA
Found at i:14565303 original size:10 final size:10
Alignment explanation
Indices: 14565290--14565330 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
14565280 ATATATGAGT
14565290 AAAATATAAG
1 AAAATATAAG
14565300 AAAATATATGAG
1 AAAATATA--AG
14565312 TAAAATATAAG
1 -AAAATATAAG
14565323 AAAATATA
1 AAAATATA
14565331 CTTCGTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 16 0.57
11 2 0.07
12 2 0.07
13 8 0.29
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (10 bp):
AAAATATAAG
Found at i:14565304 original size:23 final size:23
Alignment explanation
Indices: 14565278--14565330 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
14565268 GGTTATAATT
14565278 AAATATATGAGTAAAATATAAGA
1 AAATATATGAGTAAAATATAAGA
14565301 AAATATATGAGTAAAATATAAGA
1 AAATATATGAGTAAAATATAAGA
14565324 AAATATA
1 AAATATA
14565331 CTTCGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.26
Consensus pattern (23 bp):
AAATATATGAGTAAAATATAAGA
Done.