Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 39 of 222
Found at i:11566042 original size:6 final size:6
Alignment explanation
Indices: 11566012--11566065 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
11566002 TCTTCTCTTT
* * *
11566012 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTTGA TTTTGA TTTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA -TTTTGA TTTTGA -TTTTGA
11566062 TTTT
1 TTTT
11566066 TTTGTTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 31 0.72
7 12 0.28
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:11566048 original size:7 final size:7
Alignment explanation
Indices: 11566031--11566086 Score: 59
Period size: 6 Copynumber: 8.4 Consensus size: 7
11566021 TCATTTTGAC
11566031 TTTGA-T
1 TTTGATT
11566037 TTTGATT
1 TTTGATT
11566044 TTTGA-T
1 TTTGATT
11566050 TTTGATT
1 TTTGATT
11566057 TTTGATTTT
1 TTTGA--TT
11566066 TTTG-TT
1 TTTGATT
11566072 TTTG-TT
1 TTTGATT
11566078 TTTG-TT
1 TTTGATT
11566084 TTT
1 TTT
11566087 TTTTTAATCT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
6 28 0.61
7 12 0.26
9 6 0.13
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (7 bp):
TTTGATT
Found at i:11566049 original size:13 final size:13
Alignment explanation
Indices: 11566018--11566065 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
11566008 CTTTTTTTCA
*
11566018 TTTTCATTTTGA-
1 TTTTGATTTTGAT
*
11566030 CTTTGATTTTGAT
1 TTTTGATTTTGAT
11566043 TTTTGATTTTGAT
1 TTTTGATTTTGAT
11566056 TTTTGATTTT
1 TTTTGATTTT
11566066 TTTGTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.15, C:0.04, G:0.12, T:0.69
Consensus pattern (13 bp):
TTTTGATTTTGAT
Found at i:11566079 original size:13 final size:13
Alignment explanation
Indices: 11566031--11566091 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
11566021 TCATTTTGAC
*
11566031 TTTGATTTTGATT
1 TTTGTTTTTGATT
*
11566044 TTTGATTTTGATT
1 TTTGTTTTTGATT
11566057 TTTGATTTTTTTG-TT
1 TTTG---TTTTTGATT
11566072 TTTGTTTTTG-TT
1 TTTGTTTTTGATT
11566084 TTT-TTTTT
1 TTTGTTTTT
11566092 AATCTTAACC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
11 5 0.11
12 11 0.25
13 17 0.39
15 6 0.14
16 5 0.11
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (13 bp):
TTTGTTTTTGATT
Found at i:11571175 original size:16 final size:16
Alignment explanation
Indices: 11571154--11571187 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11571144 TGTATTATGA
*
11571154 AATAGTTTAAAAAAAT
1 AATAGTATAAAAAAAT
*
11571170 AATAGTATAATAAAAT
1 AATAGTATAAAAAAAT
11571186 AA
1 AA
11571188 CATATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AATAGTATAAAAAAAT
Found at i:11578467 original size:13 final size:13
Alignment explanation
Indices: 11578449--11578482 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11578439 AATCCAAGTC
*
11578449 AAATAAAAAATTA
1 AAATAAAAAACTA
*
11578462 AAATAAATAACTA
1 AAATAAAAAACTA
11578475 AAATAAAA
1 AAATAAAA
11578483 TAATCAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAAACTA
Found at i:11606737 original size:31 final size:28
Alignment explanation
Indices: 11606702--11606771 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
11606692 AATTTTAAAA
*
11606702 TTATACATAAACTTTAGTCTAATGTACAATT
1 TTATACATAAACTTTAAT-T--TGTACAATT
* *
11606733 TTATACATGAACTTTAATTTGTGCAATT
1 TTATACATAAACTTTAATTTGTACAATT
11606761 TTATACATAAA
1 TTATACATAAA
11606772 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.51
30 1 0.03
31 16 0.46
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (28 bp):
TTATACATAAACTTTAATTTGTACAATT
Found at i:11608109 original size:24 final size:24
Alignment explanation
Indices: 11608077--11608124 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11608067 AGAAGAAAAT
11608077 AGAAAAT-AAAGAAAAAAAATTAAA
1 AGAAAATAAAAG-AAAAAAATTAAA
*
11608101 AGAACATAAAAGAAAAAAATTAAA
1 AGAAAATAAAAGAAAAAAATTAAA
11608125 TGACTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.12
Consensus pattern (24 bp):
AGAAAATAAAAGAAAAAAATTAAA
Found at i:11609372 original size:8 final size:8
Alignment explanation
Indices: 11609361--11609385 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11609351 TGTTTTGAAA
11609361 TTTAAAAT
1 TTTAAAAT
11609369 TTTAAAAT
1 TTTAAAAT
11609377 TTTAAAAT
1 TTTAAAAT
11609385 T
1 T
11609386 AAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAAAAT
Found at i:11629974 original size:6 final size:6
Alignment explanation
Indices: 11629963--11629998 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
11629953 TACAGAGATG
11629963 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT
1 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT
11629999 AGGGTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (6 bp):
TGGGGT
Found at i:11630007 original size:18 final size:18
Alignment explanation
Indices: 11629964--11630007 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
11629954 ACAGAGATGT
*
11629964 GGGGTTGGGGTTGGGGTT
1 GGGGTTGGGGTTGGGGTA
11629982 GGGGTTGGGGTTGGGGTA
1 GGGGTTGGGGTTGGGGTA
*
11630000 GGGTTTGG
1 GGGGTTGG
11630008 TTTATGTACG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.02, C:0.00, G:0.66, T:0.32
Consensus pattern (18 bp):
GGGGTTGGGGTTGGGGTA
Found at i:11637019 original size:41 final size:41
Alignment explanation
Indices: 11636962--11637045 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
11636952 AGAAATAGAG
11636962 AAATGACATCATATTCAATCATATGTGTGGATGCCACTTGT
1 AAATGACATCATATTCAATCATATGTGTGGATGCCACTTGT
11637003 AAATGACATCATATTCAATCATATGTGTGGATGCCACTTGT
1 AAATGACATCATATTCAATCATATGTGTGGATGCCACTTGT
11637044 AA
1 AA
11637046 CACATGCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (41 bp):
AAATGACATCATATTCAATCATATGTGTGGATGCCACTTGT
Found at i:11646223 original size:3 final size:3
Alignment explanation
Indices: 11646215--11646242 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11646205 TACAGCTTTG
11646215 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
11646243 ACATTCTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:11657088 original size:10 final size:10
Alignment explanation
Indices: 11657073--11657097 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11657063 ACGAGTTGTG
11657073 ACCTTTGATT
1 ACCTTTGATT
11657083 ACCTTTGATT
1 ACCTTTGATT
11657093 ACCTT
1 ACCTT
11657098 GACCATCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (10 bp):
ACCTTTGATT
Found at i:11658311 original size:20 final size:20
Alignment explanation
Indices: 11658288--11658326 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11658278 ATGTAAAAAG
*
11658288 TTAAATTAAAAACAAAAATA
1 TTAAAATAAAAACAAAAATA
* *
11658308 TTAAAATGAAAATAAAAAT
1 TTAAAATAAAAACAAAAAT
11658327 GGCTAAACTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
TTAAAATAAAAACAAAAATA
Found at i:11660665 original size:12 final size:12
Alignment explanation
Indices: 11660648--11660678 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11660638 AAATTTAAAA
11660648 TTTTATATTAAT
1 TTTTATATTAAT
*
11660660 TTTTATTTTAAT
1 TTTTATATTAAT
11660672 TTTTATA
1 TTTTATA
11660679 AATAAATTTA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATATTAAT
Found at i:11661327 original size:19 final size:19
Alignment explanation
Indices: 11661284--11661340 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
11661274 ATTTTTTTTG
* *
11661284 AATTTTGAATTTTTCATAA
1 AATTTAGAAATTTTCATAA
**
11661303 TTTTTAGAAATTTTCATAA
1 AATTTAGAAATTTTCATAA
* *
11661322 AATTTATATATTTTC-TAA
1 AATTTAGAAATTTTCATAA
11661340 A
1 A
11661341 TTTTTATGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (19 bp):
AATTTAGAAATTTTCATAA
Found at i:11661346 original size:19 final size:20
Alignment explanation
Indices: 11661294--11661347 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
11661284 AATTTTGAAT
*
11661294 TTTTCAT-AATTTTTAGAAA
1 TTTTCATAAATTTTTATAAA
* *
11661313 TTTTCATAAA-ATTTATATA
1 TTTTCATAAATTTTTATAAA
11661332 TTTTC-TAAATTTTTAT
1 TTTTCATAAATTTTTAT
11661348 GATTTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 23 0.79
20 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTCATAAATTTTTATAAA
Found at i:11661637 original size:29 final size:30
Alignment explanation
Indices: 11661580--11661659 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
11661570 AAATCTTAAA
*
11661580 ATTATAAATCAATTTTGATTTAACGTGTAATT
1 ATTATATAT-AATTTTGATTT-ACGTGTAATT
*
11661612 -TTATATATGAATTTTGATTT-GGTGTAATT
1 ATTATATAT-AATTTTGATTTACGTGTAATT
11661641 ATATATATATAATTTTGAT
1 AT-TATATATAATTTTGAT
11661660 CGTGGTTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 8 0.19
30 10 0.23
31 25 0.58
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (30 bp):
ATTATATATAATTTTGATTTACGTGTAATT
Found at i:11661675 original size:31 final size:31
Alignment explanation
Indices: 11661613--11661676 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
11661603 CGTGTAATTT
* *
11661613 TATATATGAATTTTGATTTGGTGTAATTATA
1 TATATATGAATTTTGATGTGGTGTAAATATA
11661644 TATATAT-AATTTTGATCGTGGT-TCAAATATA
1 TATATATGAATTTTGAT-GTGGTGT-AAATATA
11661675 TA
1 TA
11661677 CATGAAACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.48
Consensus pattern (31 bp):
TATATATGAATTTTGATGTGGTGTAAATATA
Found at i:11667664 original size:26 final size:26
Alignment explanation
Indices: 11667612--11667664 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11667602 TCCCCTCAAA
* * * **
11667612 TTTTTTTACTTTCCTTCAAGATCTTT
1 TTTTTTTACTTTCCCTAAAAAAATTT
11667638 TTTTTTTACTTTCCCTAAAAAAATTT
1 TTTTTTTACTTTCCCTAAAAAAATTT
11667664 T
1 T
11667665 ACTTCCCCTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTTTTACTTTCCCTAAAAAAATTT
Found at i:11671565 original size:3 final size:3
Alignment explanation
Indices: 11671557--11671581 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11671547 TTGGGACTTG
11671557 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
11671582 TAGTTGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11678905 original size:21 final size:22
Alignment explanation
Indices: 11678863--11678905 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11678853 TAAACGAAGT
* *
11678863 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
11678885 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
11678906 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:11683100 original size:312 final size:312
Alignment explanation
Indices: 11682535--11683158 Score: 1230
Period size: 312 Copynumber: 2.0 Consensus size: 312
11682525 GTCTAATAAA
11682535 TTCGTTATATTTCGAAAATCCAGTTCGTATTTTTGGAAAAACTTTAGTTTTCGTAAAACTGCGAT
1 TTCGTTATATTTCGAAAATCCAGTTCGTATTTTTGGAAAAACTTTAGTTTTCGTAAAACTGCGAT
11682600 TTTAGTCAAATGTTGTAATAAAGGTTAAAAACACCTTCGAAACCAGACATAAAATCCAACAGTCC
66 TTTAGTCAAATGTTGTAATAAAGGTTAAAAACACCTTCGAAACCAGACATAAAATCCAACAGTCC
11682665 AGAGAGTCCAAAAATTACATCACTCTCAGAGAAATACCACTTAAAATAATTAAAACCATTATTAA
131 AGAGAGTCCAAAAATTACATCACTCTCAGAGAAATACCACTTAAAATAATTAAAACCATTATTAA
11682730 ATCAGTTTACATCTCGTGATCACCATGAGACTTCATTGCACTGATCCGCCTAAGTCTGTGGATTA
196 ATCAGTTTACATCTCGTGATCACCATGAGACTTCATTGCACTGATCCGCCTAAGTCTGTGGATTA
*
11682795 CCTGAATAGAGCAGACCAACAGATGTTAGTTTTCATAAACTCAGTGTGTAAC
261 CCTAAATAGAGCAGACCAACAGATGTTAGTTTTCATAAACTCAGTGTGTAAC
11682847 TTCGTTATATTTCGAAAATCCAGTTCGTATTTTTGGAAAAACTTTAGTTTTCGTAAAACTGCGAT
1 TTCGTTATATTTCGAAAATCCAGTTCGTATTTTTGGAAAAACTTTAGTTTTCGTAAAACTGCGAT
11682912 TTTAGTCAAATGTTGTAATAAAGGTTAAAAACACCTTCGAAACCAGACATAAAATCCAACAGTCC
66 TTTAGTCAAATGTTGTAATAAAGGTTAAAAACACCTTCGAAACCAGACATAAAATCCAACAGTCC
11682977 AGAGAGTCCAAAAATTACATCACTCTCAGAGAAATACCACTTAAAATAATTAAAACCATTATTAA
131 AGAGAGTCCAAAAATTACATCACTCTCAGAGAAATACCACTTAAAATAATTAAAACCATTATTAA
*
11683042 ATCAGTTTACATCTCGTGGTCACCATGAGACTTCATTGCACTGATCCGCCTAAGTCTGTGGATTA
196 ATCAGTTTACATCTCGTGATCACCATGAGACTTCATTGCACTGATCCGCCTAAGTCTGTGGATTA
11683107 CCTAAATAGAGCAGACCAACAGATGTTAGTTTTCATAAACTCAGTGTGTAAC
261 CCTAAATAGAGCAGACCAACAGATGTTAGTTTTCATAAACTCAGTGTGTAAC
11683159 CCAACAGAAA
Statistics
Matches: 310, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
312 310 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (312 bp):
TTCGTTATATTTCGAAAATCCAGTTCGTATTTTTGGAAAAACTTTAGTTTTCGTAAAACTGCGAT
TTTAGTCAAATGTTGTAATAAAGGTTAAAAACACCTTCGAAACCAGACATAAAATCCAACAGTCC
AGAGAGTCCAAAAATTACATCACTCTCAGAGAAATACCACTTAAAATAATTAAAACCATTATTAA
ATCAGTTTACATCTCGTGATCACCATGAGACTTCATTGCACTGATCCGCCTAAGTCTGTGGATTA
CCTAAATAGAGCAGACCAACAGATGTTAGTTTTCATAAACTCAGTGTGTAAC
Found at i:11683488 original size:13 final size:14
Alignment explanation
Indices: 11683470--11683507 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
11683460 ATCCCACCCC
11683470 AAATACAGATACA-
1 AAATACAGATACAG
*
11683483 AAATACAAATACAG
1 AAATACAGATACAG
11683497 AAATAACAGAT
1 AAAT-ACAGAT
11683508 TTAACATGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.63, C:0.13, G:0.08, T:0.16
Consensus pattern (14 bp):
AAATACAGATACAG
Found at i:11684462 original size:17 final size:17
Alignment explanation
Indices: 11684440--11684472 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11684430 TTAACTTCCT
11684440 ACTAACCCACTAAATCC
1 ACTAACCCACTAAATCC
*
11684457 ACTAACCTACTAAATC
1 ACTAACCCACTAAATC
11684473 TCAACTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.21
Consensus pattern (17 bp):
ACTAACCCACTAAATCC
Found at i:11686431 original size:16 final size:17
Alignment explanation
Indices: 11686410--11686443 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
11686400 GTGAATTTCA
11686410 TCTTAGTTT-TTTTATT
1 TCTTAGTTTGTTTTATT
11686426 TCTTAGTTTGTTTTATT
1 TCTTAGTTTGTTTTATT
11686443 T
1 T
11686444 ATTTTCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.74
Consensus pattern (17 bp):
TCTTAGTTTGTTTTATT
Found at i:11688737 original size:42 final size:41
Alignment explanation
Indices: 11688667--11688791 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 41
11688657 ACTGAGATGG
*
11688667 GATTACGTGTAAGACCATGTCTGAGACATTGGCATTGATATAA
1 GATT-CGTGTAAGACCATGTCTG-GACATTGGCATCGATATAA
* *
11688710 GATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATTTGA
1 GATTCGTGTAAGACCATGTCT-GGACATTGGCATCGATATAA
11688752 GATTCGTGTAAGACCATAG-CTGG-CTATTGGCATCGATATA
1 GATTCGTGTAAGACCAT-GTCTGGAC-ATTGGCATCGATATA
11688792 TGATAGTTTG
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
40 1 0.01
41 15 0.20
42 52 0.70
43 6 0.08
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
GATTCGTGTAAGACCATGTCTGGACATTGGCATCGATATAA
Found at i:11688790 original size:83 final size:84
Alignment explanation
Indices: 11688667--11688826 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
11688657 ACTGAGATGG
* *
11688667 GATTACGTGTAAGACCATGTCTGAGACATTGGCATTGATATAAGAT-TCGTGTAAGACCATGTCT
1 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGATATAAGATAT-GTGTAAGACCATATCT
11688731 AGGACATTGGCATCGATTTGA
65 AGGACA-TGGCATCGATTTGA
* *
11688752 GATT-CGTGTAAGACCATAG-CTG-G-CTATTGGCATCGATATATGATAGTTTGTAAGACCATAT
1 GATTACGTGTAAGACCAT-GTCTGAGAC-ATTGGCATCGATATAAGATA-TGTGTAAGACCATAT
*
11688813 CTAGGATATGGCAT
63 CTAGGACATGGCAT
11688827 TTGCGAGTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
82 1 0.02
83 24 0.36
84 35 0.53
85 6 0.09
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (84 bp):
GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGATATAAGATATGTGTAAGACCATATCTA
GGACATGGCATCGATTTGA
Found at i:11688825 original size:42 final size:41
Alignment explanation
Indices: 11688674--11688826 Score: 134
Period size: 42 Copynumber: 3.7 Consensus size: 41
11688664 TGGGATTACG
* * * * *
11688674 TGTAAGACCATGTCT-GAGACATTGGCATTGATATAAGATTC
1 TGTAAGACCATATCTAG-GATATTGGCATCGATTTGAGATTC
* *
11688715 GTGTAAGACCATGTCTAGGACATTGGCATCGATTTGAGATTC
1 -TGTAAGACCATATCTAGGATATTGGCATCGATTTGAGATTC
* * *
11688757 GTGTAAGACCATAGCT-GGCTATTGGCATCGATATATGATAGTT-
1 -TGTAAGACCATATCTAGGATATTGGCATCGAT-T-TGAGA-TTC
11688800 TGTAAGACCATATCTAGGATA-TGGCAT
1 TGTAAGACCATATCTAGGATATTGGCAT
11688827 TTGCGAGTTA
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
41 14 0.15
42 71 0.74
43 9 0.09
44 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTAGGATATTGGCATCGATTTGAGATTC
Found at i:11694759 original size:42 final size:43
Alignment explanation
Indices: 11694658--11694771 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
11694648 TTATGTAGAA
* * *
11694658 AAATGCCGCTATAGAATATGACCTTGAGCGGTGCTTTTCTCAC
1 AAATGCCGCTATAGAACATGACCTTTAGCGGTGATTTTCTCAC
* * * * *
11694701 AAACGCCGTTAAAGAACATGACATTTAGCGTTGATTTTC-CAC
1 AAATGCCGCTATAGAACATGACCTTTAGCGGTGATTTTCTCAC
*
11694743 AAATGACGCTATAGAACATGACCTTTAGC
1 AAATGCCGCTATAGAACATGACCTTTAGC
11694772 AGCATGTTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
AAATGCCGCTATAGAACATGACCTTTAGCGGTGATTTTCTCAC
Found at i:11697243 original size:24 final size:24
Alignment explanation
Indices: 11697199--11697245 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11697189 AACAAAATAT
*
11697199 AAATGAAAACATAAATCAATAAAC
1 AAATGAAAACATAAATAAATAAAC
*
11697223 AAATGAAGGACATAAA-AAATAAA
1 AAATGAA-AACATAAATAAATAAA
11697246 AAAAGTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.15
Consensus pattern (24 bp):
AAATGAAAACATAAATAAATAAAC
Found at i:11697908 original size:21 final size:19
Alignment explanation
Indices: 11697871--11697945 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
11697861 AATCATATCT
11697871 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11697890 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
11697911 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11697930 TCTAAGATCGCATATC
1 TCTAAGATTGCATATC
11697946 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11699755 original size:3 final size:3
Alignment explanation
Indices: 11699737--11699796 Score: 102
Period size: 3 Copynumber: 19.7 Consensus size: 3
11699727 ATAAAGAAGC
*
11699737 AAT AAT CAT GAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11699783 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
11699797 CAACGTAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 52 0.96
4 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11700015 original size:36 final size:36
Alignment explanation
Indices: 11699975--11700046 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
11699965 TAAAATGGGT
11699975 ATATATATATAG-ATGTACATGAAT-TAAAATATATGA
1 ATATATATAT-GTATGTACATGAATGTAAAA-ATATGA
* *
11700011 ATATATATATGTTTGTACATGTATGTAAAAATATGA
1 ATATATATATGTATGTACATGAATGTAAAAATATGA
11700047 GTCAAGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 1 0.03
36 26 0.81
37 5 0.16
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (36 bp):
ATATATATATGTATGTACATGAATGTAAAAATATGA
Found at i:11702489 original size:108 final size:107
Alignment explanation
Indices: 11702302--11702835 Score: 734
Period size: 107 Copynumber: 5.0 Consensus size: 107
11702292 TGGATTGAGA
* ** * **
11702302 TTTAAGAGAATATTT-GCCTATTTGGTCAAACG-GGAAATCGAAACCCAGCACATTAGCGCACAC
1 TTTAAAAGAATATTTAG-CTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
11702365 TTCCTCGAATTTCTAAACACAAAATATTGCCTTACTTTGAAAT
65 TTTCTCGAATTTCTAAACGCAAAATATTGCCTTACTTTGAAAT
* * * *
11702408 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGAATATTTAGCTATTTGGTCAAACGA-AAAAATCGAAACCCAGCACATTAGGGCACGT
11702473 TTTCTCGAATTTCTAAACGCAAAATATTGCCTTACTTTGAAAT
65 TTTCTCGAATTTCTAAACGCAAAATATTGCCTTACTTTGAAAT
* * *
11702516 TTTAAAAGAATATTTAGCTATTTGATCAAATGAAAAAATCGAAACCCAGCACATTAGGGCACATT
1 TTTAAAAGAATATTTAGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
11702581 TTCTCGAATTT-TCAAACGCAAAATATTGCCTTACTTTGAAAT
66 TTCTCGAATTTCT-AAACGCAAAATATTGCCTTACTTTGAAAT
* * * *
11702623 TTTAAAAGAATATTTAGCTATTTAGTCAAATGAAAAAATCGAAACCTAGCACATTAGGGCACGGT
1 TTTAAAAGAATATTTAGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
* * *
11702688 TTCTCGAATTTCCAAATGCAAAATATTCCCTTACTTTGAAAT
66 TTCTCGAATTTCTAAACGCAAAATATTGCCTTACTTTGAAAT
* ** * * *
11702730 TTTAAAAGGATATTTAGCTATTTGGTTGAACAAAAAAATCGGAACCCAACACATTAGGGCACGTT
1 TTTAAAAGAATATTTAGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
* *
11702795 TTCTCGAATTTCCAAACGCAAAATATTACCTTA-TTTAGAAA
66 TTCTCGAATTTCTAAACGCAAAATATTGCCTTACTTT-GAAA
11702836 AATTTTCCTT
Statistics
Matches: 384, Mismatches: 38, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
106 31 0.08
107 259 0.67
108 94 0.24
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (107 bp):
TTTAAAAGAATATTTAGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTT
TTCTCGAATTTCTAAACGCAAAATATTGCCTTACTTTGAAAT
Found at i:11702908 original size:15 final size:15
Alignment explanation
Indices: 11702890--11702920 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11702880 AATAAATATG
11702890 ATAATATGAACAAAA
1 ATAATATGAACAAAA
*
11702905 ATAATATGAGCAAAA
1 ATAATATGAACAAAA
11702920 A
1 A
11702921 CGAATAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:11703000 original size:16 final size:17
Alignment explanation
Indices: 11702971--11703016 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
11702961 CAATAACAAG
11702971 TAAATAAAACTAAAACAT-
1 TAAA-AAAA-TAAAACATA
11702989 TAAAAAAAT-AAACATA
1 TAAAAAAATAAAACATA
*
11703005 TAAATAAATAAA
1 TAAAAAAATAAA
11703017 TAAATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 6 0.24
18 4 0.16
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAAAAATAAAACATA
Found at i:11703091 original size:26 final size:30
Alignment explanation
Indices: 11703036--11703093 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 30
11703026 GATCATCAAG
11703036 TAAAACAATAATAACAATAAAGAAACTAGA
1 TAAAACAATAATAACAATAAAGAAACTAGA
11703066 TAAAA-AAT-ATAA-AATATAA-AAA-TAGA
1 TAAAACAATAATAACAATA-AAGAAACTAGA
11703092 TA
1 TA
11703094 TGTACACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 6 0.22
27 7 0.26
28 6 0.22
29 3 0.11
30 5 0.19
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (30 bp):
TAAAACAATAATAACAATAAAGAAACTAGA
Found at i:11714957 original size:101 final size:101
Alignment explanation
Indices: 11714837--11715052 Score: 342
Period size: 101 Copynumber: 2.1 Consensus size: 101
11714827 ATAAAGTAGA
* * * **
11714837 TTATAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTT
1 TTATTAATTATATTAAATAATAATTATTAAAAATTATATTTTATAGTATTATATATTATGATTTT
* *
11714902 AGTAAATTCATATAAGAATATTTAATATTAAGAATT
66 AGTAAATTCATATAAGAATATTTAATACTAAAAATT
11714938 TTATTAATTATATTAAATAATAATTATTAAAAATTATATTTTATAGTATTATATATTATGATTTT
1 TTATTAATTATATTAAATAATAATTATTAAAAATTATATTTTATAGTATTATATATTATGATTTT
* *
11715003 AGTAATTTCATATAATAATATTTAATACTAAAAATT
66 AGTAAATTCATATAAGAATATTTAATACTAAAAATT
11715039 TTATTAAATTATAT
1 TTATT-AATTATAT
11715053 ATTTTTGTTA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 97 0.92
102 8 0.08
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (101 bp):
TTATTAATTATATTAAATAATAATTATTAAAAATTATATTTTATAGTATTATATATTATGATTTT
AGTAAATTCATATAAGAATATTTAATACTAAAAATT
Found at i:11715133 original size:17 final size:16
Alignment explanation
Indices: 11715113--11715172 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 16
11715103 GTACTATATA
*
11715113 TTATGATTTTAGTAAATT
1 TTAT-ATTTTATTAAA-T
11715131 TATATATTTTATTAAAT
1 T-TATATTTTATTAAAT
11715148 TATATATTATTATTAAA-
1 T-TATATT-TTATTAAAT
11715165 TTATATTT
1 TTATATTT
11715173 AATAATAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 1 0.03
16 6 0.15
17 10 0.26
18 19 0.49
19 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTATATTTTATTAAAT
Found at i:11715141 original size:18 final size:17
Alignment explanation
Indices: 11715118--11715170 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
11715108 ATATATTATG
*
11715118 ATTTTAGTAAATTTATAT
1 ATTTTATTAAA-TTATAT
11715136 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
11715153 ATTATTATTAAATTATAT
1 ATT-TTATTAAATTATAT
11715171 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 9 0.27
18 24 0.73
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:11715383 original size:39 final size:40
Alignment explanation
Indices: 11715329--11715438 Score: 114
Period size: 44 Copynumber: 2.6 Consensus size: 40
11715319 TTATGCCATA
* * *
11715329 CATTACACCTCTATTCCATTCAATCAAACACAAGAA-TAC
1 CATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
11715368 CATTACGCCTATATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CATTACGCC-----TCTATTCCATTCAACCAAACAAAAGAATTAC
11715413 CTATTACGCCTCTATTCCATTTCAAC
1 C-ATTACGCCTCTATTCCA-TTCAAC
11715439 GAACCAAACG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
39 8 0.14
41 8 0.14
42 6 0.10
44 24 0.41
45 4 0.07
46 8 0.14
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (40 bp):
CATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:11715408 original size:44 final size:46
Alignment explanation
Indices: 11715341--11715433 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
11715331 TTACACCTCT
* *
11715341 ATTCCATTCAATCAAACACAAGAA-TACC-ATTACGCCTATATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTATATTCC
*
11715385 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTATATTCC
11715431 ATT
1 ATT
11715434 TCAACGAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 22 0.50
45 4 0.09
46 18 0.41
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTATATTCC
Found at i:11715444 original size:46 final size:44
Alignment explanation
Indices: 11715341--11715447 Score: 126
Period size: 46 Copynumber: 2.4 Consensus size: 44
11715331 TTACACCTCT
* * *
11715341 ATTCCATTCAATCAAACACAAGAATACCATTACGCCTATATTCC
1 ATTCCATACAACCAAACAAAAGAATACCATTACGCCTATATTCC
* *
11715385 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATACAACCAAACAAAAGAA-TACC-ATTACGCCTATATTCC
*
11715431 ATTTCA-ACGAACCAAAC
1 ATTCCATAC-AACCAAAC
11715448 GTGTTGTAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 22 0.40
45 5 0.09
46 28 0.51
ACGTcount: A:0.39, C:0.30, G:0.05, T:0.26
Consensus pattern (44 bp):
ATTCCATACAACCAAACAAAAGAATACCATTACGCCTATATTCC
Found at i:11716422 original size:63 final size:63
Alignment explanation
Indices: 11716323--11716487 Score: 330
Period size: 63 Copynumber: 2.6 Consensus size: 63
11716313 TCCTACAGCT
11716323 AACAACTTCCAAAAAAGAGCTCTCAAATCATTATTATTACATTTCAATCATAATGGTTGTTCA
1 AACAACTTCCAAAAAAGAGCTCTCAAATCATTATTATTACATTTCAATCATAATGGTTGTTCA
11716386 AACAACTTCCAAAAAAGAGCTCTCAAATCATTATTATTACATTTCAATCATAATGGTTGTTCA
1 AACAACTTCCAAAAAAGAGCTCTCAAATCATTATTATTACATTTCAATCATAATGGTTGTTCA
11716449 AACAACTTCCAAAAAAGAGCTCTCAAATCATTATTATTA
1 AACAACTTCCAAAAAAGAGCTCTCAAATCATTATTATTA
11716488 TGACTAGTCT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 102 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.32
Consensus pattern (63 bp):
AACAACTTCCAAAAAAGAGCTCTCAAATCATTATTATTACATTTCAATCATAATGGTTGTTCA
Found at i:11718397 original size:60 final size:60
Alignment explanation
Indices: 11718317--11718433 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
11718307 ACAATGTTAA
* * *
11718317 TTCGGCTATAAGATGATGCGAACCTACATCGTGCAGTCTCATAGAATTATATGATGTGGG
1 TTCGCCTATAAGATGATGCGAACCTACATCATGCAGTCTCATAGAATTATACGATGTGGG
* * **
11718377 TTCGCCTATATGATGGTGCGAACCTACATCATGTGGTCTCATAGAATTATACGATGT
1 TTCGCCTATAAGATGATGCGAACCTACATCATGCAGTCTCATAGAATTATACGATGT
11718434 AAATGTAACA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (60 bp):
TTCGCCTATAAGATGATGCGAACCTACATCATGCAGTCTCATAGAATTATACGATGTGGG
Found at i:11727728 original size:109 final size:108
Alignment explanation
Indices: 11727438--11727949 Score: 787
Period size: 109 Copynumber: 4.7 Consensus size: 108
11727428 ATATTTGGCA
* * * * *
11727438 ATTTGGTTAAACGAG--AAATCAAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAAC
* * * * *
11727500 GCAAAACATTGCCTTATTTTGAAATTTTTGAAAGGCTATTTAGCT
65 GCAAAACATTGCCTTATTTT-AAAATTTTAAAAGGATATTAAGCC
11727545 ATTTGGTTGAACGAGAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
11727610 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
65 GCAAAACATTGCCTTATTTTAAAA-TTTTAAAAGGATATTAAGCC
* * *
11727655 ATTTGGTTGAACGAGAGAAATCGACACCCAGCACCTTAAGGCATGTTTTCTCGAAATTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
11727720 CAAAACATTGCCTTATTTTAAAATTTTAAAAGGATATTAAGTC
66 CAAAACATTGCCTTATTTTAAAATTTTAAAAGGATATTAAGCC
*
11727763 ATTTGGTTGAACGAGAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAACC
1 ATTTGGTTGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
*
11727828 GCAAAACATTGCCTTATTTTAAAATTTTAAAAGGATATGAAGCC
65 GCAAAACATTGCCTTATTTTAAAATTTTAAAAGGATATTAAGCC
*
11727872 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
11727937 CTAAATATTGCCT
66 CAAAACATTGCCT
11727950 CAATTAGAAA
Statistics
Matches: 375, Mismatches: 24, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
107 14 0.04
108 93 0.25
109 175 0.47
110 82 0.22
111 11 0.03
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (108 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTAAAAGGATATTAAGCC
Found at i:11728138 original size:24 final size:24
Alignment explanation
Indices: 11728106--11728176 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 24
11728096 TAAAGCATAA
11728106 AAATGAACATAAAAATAAGTACAT
1 AAATGAACATAAAAATAAGTACAT
11728130 AAATGAACATAAAATAAAAATAAGTACAT
1 AAATGAAC-----ATAAAAATAAGTACAT
11728159 AAATGAACATAAAAATAA
1 AAATGAACATAAAAATAA
11728177 AGGAAAACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
24 18 0.43
29 24 0.57
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (24 bp):
AAATGAACATAAAAATAAGTACAT
Found at i:11728141 original size:18 final size:18
Alignment explanation
Indices: 11728120--11728170 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
11728110 GAACATAAAA
11728120 ATAAGTACATAAATGAAC
1 ATAAGTACATAAATGAAC
11728138 ATAA--A-AT-AA--AA-
1 ATAAGTACATAAATGAAC
11728149 ATAAGTACATAAATGAAC
1 ATAAGTACATAAATGAAC
11728167 ATAA
1 ATAA
11728171 AAATAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
11 4 0.15
12 2 0.08
13 1 0.04
14 4 0.15
15 4 0.15
16 1 0.04
17 2 0.08
18 8 0.31
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.22
Consensus pattern (18 bp):
ATAAGTACATAAATGAAC
Found at i:11728148 original size:29 final size:30
Alignment explanation
Indices: 11728114--11728177 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 30
11728104 AAAAATGAAC
11728114 ATAAAAATAAGTACATAAATGAACAT-AAA
1 ATAAAAATAAGTACATAAATGAACATAAAA
11728143 ATAAAAATAAGTACATAAATGAACATAAAA
1 ATAAAAATAAGTACATAAATGAACATAAAA
11728173 ATAAA
1 ATAAA
11728178 GGAAAACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.20
Consensus pattern (30 bp):
ATAAAAATAAGTACATAAATGAACATAAAA
Found at i:11728582 original size:3 final size:3
Alignment explanation
Indices: 11728456--11728563 Score: 155
Period size: 3 Copynumber: 35.7 Consensus size: 3
11728446 TAATGGAAAT
* * * *
11728456 ATA ATG ATA ATA ATA TTA ATA ATA ATA ATA A-A GGATG ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA
11728502 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11728550 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
11728564 GGTAACATTA
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.01
3 94 0.98
4 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11728638 original size:19 final size:20
Alignment explanation
Indices: 11728614--11728654 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
11728604 ATAATAGAAG
11728614 ATGCTAAAAAA-GGGATTAA
1 ATGCTAAAAAAGGGGATTAA
11728633 ATGCTAAAAAAGGGGATTAA
1 ATGCTAAAAAAGGGGATTAA
11728653 AT
1 AT
11728655 CGAAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (20 bp):
ATGCTAAAAAAGGGGATTAA
Found at i:11729358 original size:7 final size:7
Alignment explanation
Indices: 11729348--11729372 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11729338 AGAAAATAAA
11729348 AAAATAT
1 AAAATAT
11729355 AAAATAT
1 AAAATAT
11729362 AAAATAT
1 AAAATAT
11729369 AAAA
1 AAAA
11729373 AACGAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:11729605 original size:20 final size:20
Alignment explanation
Indices: 11729577--11729627 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11729567 GACGGCGTAA
* *
11729577 GTGGTGGTGGTGACGTGACC
1 GTGGCGGTGGCGACGTGACC
11729597 GTGGCGGTGGCGACGTGACC
1 GTGGCGGTGGCGACGTGACC
* *
11729617 ATGGCAGTGGC
1 GTGGCGGTGGC
11729628 AGGGCTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.20, G:0.49, T:0.20
Consensus pattern (20 bp):
GTGGCGGTGGCGACGTGACC
Found at i:11730048 original size:50 final size:50
Alignment explanation
Indices: 11729970--11730549 Score: 314
Period size: 50 Copynumber: 11.7 Consensus size: 50
11729960 TGCAATATTG
** * * *
11729970 GGGAAGT--GATTCGCCGCCGTAGCTTCAATCTGTTCTGCTGCATCGCCT
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATCGTCT
* * *** *
11730018 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCA-CTGTCG
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATC-GTCT
* * * * * * * *
11730068 GGGAAGTGAGATTCACCATCGTAGCTTCAATCTGTTCCGATGCATTG-CT
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATCGTCT
* *** *
11730117 AGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCA-CTGTCG
1 -GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATC-GTCT
* * * * * * * *
11730168 GGGAAGTGAGATTAGCCATCGTAGCTTCAATCTATTCCGCTGCATCG-CT
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATCGTCT
* * * * *
11730217 AGGGAAATGAGATTTGTCGTTGTGACTTCAATCT-TT-TGAATTGCAAT-GTC-
1 -GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTG--TTGC-ATCGTCT
* * * * * *
11730267 GGGAAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCTGCTACAT-TTCCT
1 GGG-AAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATCGT-CT
* * * * *** *
11730318 GAGAAATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAAT-GTCG
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGC-ATCGTCT
* * *
11730368 GGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCTGTTGCATC-TCTT
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATCGTC-T
* * * * * *
11730418 GGGAAATAAGATTCACCATTGTGGCTTCGATC--TTCTGAATTGTAAT-GTCG
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTG--TTG-CATCGTCT
* * * *
11730468 GGGAAGTAAGATTCGCTGTTGTCGCTTCAATCTGTTAC-GCTGCATCGCCT
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTT-CTGTTGCATCGTCT
*
11730518 -GGAAGTAAGATTCACCGTTGTGGCTTCAATCT
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCT
11730550 TTTAATTTGC
Statistics
Matches: 393, Mismatches: 110, Indels: 57
0.70 0.20 0.10
Matches are distributed among these distances:
48 13 0.03
49 46 0.12
50 312 0.79
51 16 0.04
52 5 0.01
53 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTCTGTTGCATCGTCT
Found at i:11730123 original size:100 final size:99
Alignment explanation
Indices: 11729943--11730564 Score: 748
Period size: 100 Copynumber: 6.3 Consensus size: 99
11729933 TGCCATCGTA
* * * * * *
11729943 GCTTCAATCTTGTGAATTGCAATATTGGGGAAGT--GATTCGCCGCCGTAGCTTCAATCTGTTCT
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
*
11730006 GCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTG
66 GCTGCATCG-CTGGGAAATAAGATTCACCGTTGTG
* * *
11730041 GCTTCAATCTTTTAAATTGCACTGTCGGGGAAGTGAGATTCACCATCGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
* * * *
11730106 GATGCATTGCTAGGGAAGTAAGATTCGCCGTTGTG
66 GCTGCATCGCT-GGGAAATAAGATTCACCGTTGTG
* * * *
11730141 GCTTCAATCTTTTAAATTGCACTGTCGGGGAAGTGAGATTAGCCATCGTAGCTTCAATCTATTCC
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
* ***
11730206 GCTGCATCGCTAGGGAAATGAGATTTGTCGTTGTG
66 GCTGCATCGCT-GGGAAATAAGATTCACCGTTGTG
* * * *
11730241 ACTTCAATCTTTTGAATTGCAATGTCGGGAAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCT
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
* * *
11730306 GCTACATTTC-CTGAGAAATAAGATTCGCCGTTGTG
66 GCTGCA--TCGCTGGGAAATAAGATTCACCGTTGTG
* *
11730341 GCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCT
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
* * *
11730406 GTTGCATCTCTTGGGAAATAAGATTCACCATTGTG
66 GCTGCATCGC-TGGGAAATAAGATTCACCGTTGTG
* * * * * * * * *
11730441 GCTTCGATCTTCTGAATTGTAATGTCGGGGAAGTAAGATTCGCTGTTGTCGCTTCAATCTGTTAC
1 GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
*
11730506 GCTGCATCGCCT-GGAAGTAAGATTCACCGTTGTG
66 GCTGCATCG-CTGGGAAATAAGATTCACCGTTGTG
*
11730540 GCTTCAATCTTTTAATTTGCAATGT
1 GCTTCAATCTTTTAAATTGCAATGT
11730565 ATGGTTTCTT
Statistics
Matches: 455, Mismatches: 61, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
98 31 0.07
99 43 0.09
100 376 0.83
101 3 0.01
102 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (99 bp):
GCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCC
GCTGCATCGCTGGGAAATAAGATTCACCGTTGTG
Found at i:11739677 original size:40 final size:40
Alignment explanation
Indices: 11739617--11739879 Score: 445
Period size: 40 Copynumber: 6.6 Consensus size: 40
11739607 CAAGCTCAAT
* * * * *
11739617 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
11739657 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
11739697 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* * *
11739737 TGCCTTCGGGTCTTAGCCCGTACATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
11739777 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
11739817 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
11739857 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
11739880 GTATTCAAAT
Statistics
Matches: 210, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 210 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:11741454 original size:15 final size:16
Alignment explanation
Indices: 11741436--11741466 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11741426 TTTTCATTAC
11741436 CTTTCTTTT-TTTATT
1 CTTTCTTTTATTTATT
11741451 CTTTCTTTTATTTATT
1 CTTTCTTTTATTTATT
11741467 ATAACTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTCTTTTATTTATT
Found at i:11742591 original size:17 final size:17
Alignment explanation
Indices: 11742569--11742601 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11742559 TATTTAATTC
11742569 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
11742586 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
11742602 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:11742750 original size:16 final size:16
Alignment explanation
Indices: 11742731--11742783 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
11742721 TATACATATC
11742731 TATACTTATATATCTA
1 TATACTTATATATCTA
* *
11742747 TATACATT-TTTTTCTA
1 TATAC-TTATATATCTA
**
11742763 TATAGATATATATCTA
1 TATACTTATATATCTA
11742779 TATAC
1 TATAC
11742784 ATTTTTTTCT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 1 0.04
16 25 0.89
17 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (16 bp):
TATACTTATATATCTA
Found at i:11742890 original size:20 final size:19
Alignment explanation
Indices: 11742867--11742911 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11742857 AATACCTTCA
11742867 TATATATATATTATATATTT
1 TATATATA-ATTATATATTT
* *
11742887 TATATGTACTTATATATTT
1 TATATATAATTATATATTT
11742906 TCATAT
1 T-ATAT
11742912 TTTATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
TATATATAATTATATATTT
Found at i:11755091 original size:43 final size:44
Alignment explanation
Indices: 11754997--11755245 Score: 204
Period size: 43 Copynumber: 5.7 Consensus size: 44
11754987 CAGATCGTAT
* * * * *
11754997 CAAGTC-TATCTCCCTG-AGATACAGAGGAGCAGATCGGAGCCA
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACA
** * * *
11755039 CAAACCTTATCTCCCTGAAGTTACAGTGGGGCAG-TTGAATATA
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACA
* * **
11755082 CAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-A
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACA
* * *
11755125 TTTCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 ---CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACA
* * * * *
11755172 GAAATCTTATCTTCCTG-AGTTTACAGCGGAGCAGATCGAAGACA
1 CAAGTCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACA
* *
11755216 CTA-TCCTATCTCCCTGAAGTTACAGTGGAG
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAG
11755246 TGGATCTTAT
Statistics
Matches: 162, Mismatches: 36, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
42 4 0.02
43 66 0.41
44 54 0.33
46 37 0.23
47 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (44 bp):
CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACA
Found at i:11755181 original size:133 final size:132
Alignment explanation
Indices: 11755003--11755246 Score: 312
Period size: 133 Copynumber: 1.8 Consensus size: 132
11754993 GTATCAAGTC
* *
11755003 TATCTCCCTGAGATACAGAGGAGCAGATCGGAGCCACAAACCTTATCTCCCTGAAG-TTACAGTG
1 TATCTCCCTGAGATACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTG-AGTTTACAGCG
* * * * * *
11755067 GGGCAG-TTGAATATACAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
65 GAGCAGATCGAAGACACAA-TCCTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAG
11755131 GTCT
129 GTCT
* * * * * *
11755135 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGTTTACAGCG
1 TATCTCCCTGA-GATACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAGTTTACAGCG
*
11755200 GAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGT
65 GAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAGT
11755247 GGATCTTATC
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
132 13 0.14
133 73 0.78
134 8 0.09
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (132 bp):
TATCTCCCTGAGATACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAGTTTACAGCGG
AGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGGT
CT
Found at i:11755418 original size:199 final size:204
Alignment explanation
Indices: 11755085--11755449 Score: 623
Period size: 199 Copynumber: 1.8 Consensus size: 204
11755075 GAATATACAA
*
11755085 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGGTCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* * *
11755150 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGTTTACAGCGGAGCAGATCGAAGAC
66 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
*
11755215 ACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
131 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
11755280 ATGCATCAG
196 ATGCATCAG
11755289 GTCTTATCT-CCTGA-GTTAC-GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT-AGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* *
11755350 ATAGTGGAGCAGATTGAAGCCAG-GATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
66 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
*
11755414 ACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGAT
131 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT
11755450 TAAAACAAAG
Statistics
Matches: 153, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
199 71 0.46
200 27 0.18
201 36 0.24
202 5 0.03
203 5 0.03
204 9 0.06
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (204 bp):
GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
ATGCATCAG
Found at i:11757043 original size:17 final size:17
Alignment explanation
Indices: 11757021--11757053 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11757011 TATTTAATTC
11757021 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
11757038 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
11757054 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:11774721 original size:44 final size:44
Alignment explanation
Indices: 11774614--11774903 Score: 193
Period size: 44 Copynumber: 6.6 Consensus size: 44
11774604 AATATTAGAG
* * * *
11774614 ATCTTATCTTCCTG-AGATTACGGTGGAGCAGATCG--TA-TCAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACACAA
* * * * * *
11774655 GTCTCATCTCCCTG-AGACTACAGAGGAGCAGATCGGAGCCACAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACACAA
* * * * *
11774699 ACCTTATCTCCCTGAAGTTACAGTGGGGCA-AGTTGAATATACAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TCGAAGACACAA
* * * * *
11774743 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACA---CAA
* * * * *
11774789 GTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
* * *
11774833 ATCTTATCTTCCTG-AGTTTACAGCGGAGCAGATCGAAGACAC-T
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACACAA
*
11774876 ATCCTATCTCCCTGAAGTTACAGTGGAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAG
11774904 TGGATCTTAT
Statistics
Matches: 191, Mismatches: 46, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
41 29 0.15
43 25 0.13
44 96 0.50
45 3 0.02
46 37 0.19
47 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
Found at i:11774825 original size:90 final size:87
Alignment explanation
Indices: 11774660--11774903 Score: 222
Period size: 90 Copynumber: 2.8 Consensus size: 87
11774650 ATCAAGTCTC
** * * * * * *
11774660 ATCTCCCTGAGACTACAGAGGAGCAGATCGGAGCCACAAACCTTATCTCCCTGAAGTTACAGTGG
1 ATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGACAC-TATCTTATCTCCCTGAAGTTACAGTGG
* * * *
11774725 GGCAAGTTGAATATACAAGTCTT
65 AGCAAGTTGAAGACACAAATCTT
* * * *
11774748 ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAGGTCTTATCTCCCTGAGGTTACAG
1 ATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGACA-CT-A--TCTTATCTCCCTGAAGTTACAG
* *
11774812 TGGAGC-AGATTGAAGCCAGAAATCTT
62 TGGAGCAAG-TTGAAGACACAAATCTT
* * * *
11774838 ATCTTCCTGAGTTTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGA
1 ATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGACACTATCTTATCTCCCTGAAGTTACAGTGGA
11774903 G
66 G
11774904 TGGATCTTAT
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
87 26 0.21
88 28 0.22
89 3 0.02
90 67 0.54
91 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (87 bp):
ATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGACACTATCTTATCTCCCTGAAGTTACAGTGGA
GCAAGTTGAAGACACAAATCTT
Found at i:11774854 original size:134 final size:133
Alignment explanation
Indices: 11774655--11774904 Score: 306
Period size: 134 Copynumber: 1.9 Consensus size: 133
11774645 ATCGTATCAA
*
11774655 GTCTCATCTCCCTGAGACTACAGAGGAGCAGATCGGAGCCACAAACCTTATCTCCCTGAAGTTAC
1 GTCTCATCTCCCTGAGACTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTAC
* * * * * * *
11774720 AGTGGGGCA-AGTTGAATATACAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT
66 AGCGGAGCAGA-TCGAAGACACAA-TCCTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAAT
11774784 TTCAG
129 TTCAG
* ** * * * * *
11774789 GTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTG-AGTTTA
1 GTCTCATCTCCCTGAGACTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAG-TTA
*
11774853 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGT
65 CAGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAGT
11774905 GGATCTTATC
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
133 28 0.29
134 68 0.70
135 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (133 bp):
GTCTCATCTCCCTGAGACTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTAC
AGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTT
CAG
Found at i:11775061 original size:205 final size:205
Alignment explanation
Indices: 11774743--11775113 Score: 634
Period size: 205 Copynumber: 1.8 Consensus size: 205
11774733 GAATATACAA
* *
11774743 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGGTCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTAAGGTT
* * *
11774808 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGTTTACAGCGGAGCAGATCGAAGAC
66 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
*
11774873 ACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
131 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
11774938 ATTGCATCAG
196 ATTGCATCAG
* *
11774948 GTCTTATCTCCTTGAGGTTACGGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTAAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTAAGGTT
* **
11775013 ATAGTGGAGCAGATTGAAGCCAGGGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
66 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
*
11775078 ACTATCCTATCTCCTTGAAGTTACAGTGGAGCGGAT
131 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT
11775114 TAAAACAAAG
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 154 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (205 bp):
GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTAAGGTT
ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGAC
ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
ATTGCATCAG
Found at i:11776781 original size:17 final size:17
Alignment explanation
Indices: 11776759--11776791 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11776749 TATTTAATTC
11776759 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
11776776 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
11776792 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:11776816 original size:26 final size:25
Alignment explanation
Indices: 11776787--11776847 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
11776777 TTTAAATCAT
*
11776787 TATATGTATAAAC-TCTTTTAGATTCC
1 TATATGTATAAACAT-TTTTAGAAT-C
* * *
11776813 TATATATATATACATTTTTATAATC
1 TATATGTATAAACATTTTTAGAATC
11776838 TATATGTATA
1 TATATGTATA
11776848 CACGCATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 10 0.34
26 18 0.62
27 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (25 bp):
TATATGTATAAACATTTTTAGAATC
Found at i:11776943 original size:16 final size:16
Alignment explanation
Indices: 11776924--11776976 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
11776914 TATACATATC
11776924 TATACTTATATATCTA
1 TATACTTATATATCTA
* *
11776940 TATACATT-TTTTTCTA
1 TATAC-TTATATATCTA
**
11776956 TATAGATATATATCTA
1 TATACTTATATATCTA
11776972 TATAC
1 TATAC
11776977 ATTTTTTTCT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 1 0.04
16 25 0.89
17 2 0.07
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (16 bp):
TATACTTATATATCTA
Found at i:11778207 original size:107 final size:109
Alignment explanation
Indices: 11777897--11778235 Score: 511
Period size: 107 Copynumber: 3.1 Consensus size: 109
11777887 GGTGTCAACA
* * * *
11777897 CAAAACATTGCCTTATTTTAAAATTTTTGAAAGGCTATTTAGCTATTTGGTTGAACGAGAAAAAA
1 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAG-AAAAA
* *
11777962 TTGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCAAACG
65 TCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
11778007 CAAAACATTGCTTTATTTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAGAAAT
1 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAT
* *
11778072 CGACACCCAGCACCTTAAGGCATGTTTTCTTGAATTTCCAAACG
66 CGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
11778116 CAAAACATTGCCTTATTTT-AAA-TTTTAAAAGGATATTAAGCCATTTGGTTGAATGAGAAAAAT
1 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAT
* **
11778179 CAACACCCAGCACCTTAGGGCACATTTTCTCGAATTTCCAAACG
66 CGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
11778223 CTAAATATTGCCT
1 CAAAACATTGCCT
11778236 CAATTAGAAA
Statistics
Matches: 209, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
107 89 0.43
108 3 0.01
109 63 0.30
110 54 0.26
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (109 bp):
CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAAT
CGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
Found at i:11778721 original size:3 final size:3
Alignment explanation
Indices: 11778707--11778783 Score: 84
Period size: 3 Copynumber: 25.7 Consensus size: 3
11778697 TAATGGAAAT
* * * * * *
11778707 ATA ATG ATA ATA ATA ATA TTA TTA ATA ATA ATA A-A GATG ATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
11778752 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11778784 GTTAACAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 1 0.02
3 65 0.98
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11779541 original size:16 final size:17
Alignment explanation
Indices: 11779516--11779551 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
11779506 ATAGAGAAAG
11779516 AAAATAAAAAAATAAAA
1 AAAATAAAAAAATAAAA
*
11779533 AAAAT-AAAATATAAAA
1 AAAATAAAAAAATAAAA
11779549 AAA
1 AAA
11779552 CGAATAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAAATAAAA
Found at i:11779781 original size:20 final size:20
Alignment explanation
Indices: 11779753--11779797 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11779743 GACGACGCAA
* * * *
11779753 GTGGTGGTGGTGACGTGATC
1 GTGGCGGTGGCGACATGACC
11779773 GTGGCGGTGGCGACATGACC
1 GTGGCGGTGGCGACATGACC
11779793 GTGGC
1 GTGGC
11779798 AATGGCAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.49, T:0.22
Consensus pattern (20 bp):
GTGGCGGTGGCGACATGACC
Found at i:11779897 original size:18 final size:17
Alignment explanation
Indices: 11779857--11779897 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
11779847 CGCACCTAGG
11779857 GTTTGTTTTTTTTTTCT
1 GTTTGTTTTTTTTTTCT
*
11779874 GATTTGTTTTTTTGTTTTT
1 G-TTTGTTTTTTT-TTTCT
11779893 GTTTG
1 GTTTG
11779898 GGCCTGGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.78
Consensus pattern (17 bp):
GTTTGTTTTTTTTTTCT
Found at i:11785995 original size:32 final size:34
Alignment explanation
Indices: 11785946--11786018 Score: 105
Period size: 32 Copynumber: 2.2 Consensus size: 34
11785936 TATAATTTAT
11785946 TATATTATTTATAAGTTTTTATAAAATTTTA-AA
1 TATATTATTTATAAGTTTTTATAAAATTTTAGAA
* *
11785979 TATATT-TTTATTAGTTTTTATAAATTTTTAGAA
1 TATATTATTTATAAGTTTTTATAAAATTTTAGAA
*
11786012 TTTATTA
1 TATATTA
11786019 GAATTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (34 bp):
TATATTATTTATAAGTTTTTATAAAATTTTAGAA
Found at i:11786016 original size:27 final size:27
Alignment explanation
Indices: 11785985--11786061 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 27
11785975 TAAATATATT
11785985 TTTATTAGTTTTTATAAATTTTTA-GA-A
1 TTTATTAGTTTTTAT--ATTTTTATGATA
11786012 TTTATTAGAATTTTTATATTTTTATGATA
1 TTTATTAG--TTTTTATATTTTTATGATA
*
11786041 TTTATTAGTTTTTATTTTTTT
1 TTTATTAGTTTTTATATTTTT
11786062 TATAATTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
27 27 0.60
28 2 0.04
29 16 0.36
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.66
Consensus pattern (27 bp):
TTTATTAGTTTTTATATTTTTATGATA
Found at i:11786043 original size:19 final size:18
Alignment explanation
Indices: 11785932--11786250 Score: 94
Period size: 19 Copynumber: 17.3 Consensus size: 18
11785922 TAAATGACTT
11785932 TTTTTATA-ATTTATTATA
1 TTTTTATATATTT-TTATA
11785950 TTATTTATA-AGTTTTTATAAAA
1 TT-TTTATATA-TTTTTAT---A
*
11785972 TTTTAAATATATTTTTATTA
1 TTTT-TATATATTTTTA-TA
* *
11785992 GTTTTTATAAATTTTTAGAA
1 -TTTTTATATATTTTTA-TA
*
11786012 TTTATTAGA-ATTTTTATA
1 TTT-TTATATATTTTTATA
*
11786030 TTTTTATGATATTTATTA-G
1 TTTTTAT-ATATTT-TTATA
*
11786049 TTTTTAT-TTTTTTTATA
1 TTTTTATATATTTTTATA
* ** *
11786066 ATTTTA-A-AAGTTTATG
1 TTTTTATATATTTTTATA
*
11786082 TTAATTT-TA-ATTTTTAAA
1 TT--TTTATATATTTTTATA
* *
11786100 TTTTTATGAT-TTATTAGAA
1 TTTTTAT-ATATTTTTA-TA
*
11786119 TTTTTATACATTTTTATAAA
1 TTTTTATATATTTTTAT--A
* * *
11786139 ATTTTAAATATTTTTATT
1 TTTTTATATATTTTTATA
11786157 TATTTTATA-ATTTTTATA
1 T-TTTTATATATTTTTATA
*
11786175 TATTTT-TAAAATTTTTATA
1 T-TTTTAT-ATATTTTTATA
** *
11786194 AGTTTATATCAATTTTAATA
1 TTTTTATAT--ATTTTTATA
* *
11786214 TTTTTA-AT-CTTTAATA
1 TTTTTATATATTTTTATA
*
11786230 -ATTTATA-ATTTTTATA
1 TTTTTATATATTTTTATA
11786246 TTTTT
1 TTTTT
11786251 TCTGATTTGT
Statistics
Matches: 224, Mismatches: 43, Indels: 69
0.67 0.13 0.21
Matches are distributed among these distances:
15 4 0.02
16 26 0.12
17 17 0.08
18 44 0.20
19 64 0.29
20 49 0.22
21 6 0.03
22 12 0.05
23 2 0.01
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTTATATATTTTTATA
Found at i:11786070 original size:9 final size:9
Alignment explanation
Indices: 11785932--11786270 Score: 157
Period size: 10 Copynumber: 36.6 Consensus size: 9
11785922 TAAATGACTT
11785932 TTTTTATAA
1 TTTTTATAA
11785941 TTTATTAT-A
1 TTT-TTATAA
11785950 TTATTTATAA
1 TT-TTTATAA
11785960 GTTTTTATAAAA
1 -TTTTTAT--AA
*
11785972 TTTTAAATATA
1 TTTT-TATA-A
*
11785983 TTTTTATTAG
1 TTTTTA-TAA
11785993 TTTTTATAAA
1 TTTTTAT-AA
*
11786003 TTTTTAGAA
1 TTTTTATAA
*
11786012 TTTATTAGAA
1 TTT-TTATAA
11786022 TTTTTAT-A
1 TTTTTATAA
*
11786030 TTTTTATGA
1 TTTTTATAA
* *
11786039 TATTTATTAG
1 TTTTTA-TAA
**
11786049 TTTTTATTT
1 TTTTTATAA
11786058 TTTTTATAA
1 TTTTTATAA
*
11786067 -TTTTAAAA
1 TTTTTATAA
11786075 GTTTATGT-TAA
1 -TTT-T-TATAA
11786086 --TTT-TAA
1 TTTTTATAA
11786092 TTTTTA-AA
1 TTTTTATAA
*
11786100 TTTTTATGA
1 TTTTTATAA
*
11786109 TTTATTAGAA
1 TTT-TTATAA
11786119 TTTTTATACA
1 TTTTTATA-A
11786129 TTTTTATAAA
1 TTTTTAT-AA
* *
11786139 ATTTTAAATA
1 TTTTTATA-A
*
11786149 TTTTTAT-T
1 TTTTTATAA
11786157 TATTTTATAA
1 T-TTTTATAA
11786167 TTTTTATATA
1 TTTTTATA-A
*
11786177 TTTTTAAAA
1 TTTTTATAA
11786186 TTTTTATAA
1 TTTTTATAA
*
11786195 GTTTATATCAA
1 -TTTTTAT-AA
*
11786206 TTTTAAT-A
1 TTTTTATAA
11786214 -TTTT-TAA
1 TTTTTATAA
*
11786221 TCTTTAATAA
1 T-TTTTATAA
11786231 --TTTATAA
1 TTTTTATAA
*
11786238 TTTTTATAT
1 TTTTTATAA
* *
11786247 TTTTTCTGA
1 TTTTTATAA
*
11786256 TTTGTATAA
1 TTTTTATAA
11786265 CTTTTT
1 -TTTTT
11786271 TTTCTTTTTT
Statistics
Matches: 251, Mismatches: 42, Indels: 73
0.69 0.11 0.20
Matches are distributed among these distances:
6 5 0.02
7 11 0.04
8 29 0.12
9 85 0.34
10 97 0.39
11 19 0.08
12 5 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11786071 original size:27 final size:27
Alignment explanation
Indices: 11785979--11786071 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
11785969 AAATTTTAAA
* *
11785979 TATATTTTTATTAGTTTTTATAAATTTT
1 TATAATTTTATTAGTTTTTAT-TATTTT
*
11786007 TAGAA-TTTATTAGAATTTTTA-TATTTT
1 TATAATTTTATTAG--TTTTTATTATTTT
* *
11786034 TATGATATTTATTAGTTTTTATTTTTTT
1 TATAAT-TTTATTAGTTTTTATTATTTT
11786062 TATAATTTTA
1 TATAATTTTA
11786072 AAAGTTTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
27 26 0.49
28 13 0.25
29 14 0.26
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (27 bp):
TATAATTTTATTAGTTTTTATTATTTT
Found at i:11786105 original size:26 final size:27
Alignment explanation
Indices: 11786067--11786135 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
11786057 TTTTTTATAA
** **
11786067 TTTTAAAAGTTTATG-TTAATTTTAAT
1 TTTTAAATTTTTATGATTAATTAGAAT
*
11786093 TTTTAAATTTTTATGATTTATTAGAAT
1 TTTTAAATTTTTATGATTAATTAGAAT
11786120 TTTTATACATTTTTAT
1 TTTTA-A-ATTTTTAT
11786136 AAAATTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 13 0.37
27 13 0.37
28 1 0.03
29 8 0.23
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (27 bp):
TTTTAAATTTTTATGATTAATTAGAAT
Found at i:11786228 original size:16 final size:15
Alignment explanation
Indices: 11786204--11786250 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
11786194 AGTTTATATC
11786204 AATTTTAATATTTTT
1 AATTTTAATATTTTT
*
11786219 AATCTTTAATAATTTAT
1 AAT-TTTAAT-ATTTTT
*
11786236 AATTTTTATATTTTT
1 AATTTTAATATTTTT
11786251 TCTGATTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 8 0.30
16 11 0.41
17 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
AATTTTAATATTTTT
Found at i:11786661 original size:26 final size:27
Alignment explanation
Indices: 11786632--11786704 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 27
11786622 GATTTATTTG
11786632 CAAATAATTATTAATTTAAATTTAA-A
1 CAAATAATTATTAATTTAAATTTAATA
* * * *
11786658 CAAAAAATATATTTATAT-ATTTTAATA
1 CAAATAAT-TATTAATTTAAATTTAATA
*
11786685 -AAATATTTTATTAATTTAAA
1 CAAATA-ATTATTAATTTAAA
11786705 AAATTATACA
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
CAAATAATTATTAATTTAAATTTAATA
Found at i:11786692 original size:21 final size:20
Alignment explanation
Indices: 11786659--11786708 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
11786649 AAATTTAAAC
*
11786659 AAAAAATATATTTATATATTTT
1 AAAAAATAT-TTTAT-TAATTT
11786681 AATAAAATATTTTATTAATTT
1 AA-AAAATATTTTATTAATTT
11786702 AAAAAAT
1 AAAAAAT
11786709 TATACAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 7 0.27
22 7 0.27
23 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAAATATTTTATTAATTT
Found at i:11786701 original size:22 final size:21
Alignment explanation
Indices: 11786659--11786708 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
11786649 AAATTTAAAC
11786659 AAAAAATATATTTATATATTTT
1 AAAAAATATATTTATATA-TTT
11786681 AATAAAATAT-TTTAT-TAATTT
1 AA-AAAATATATTTATAT-ATTT
11786702 AAAAAAT
1 AAAAAAT
11786709 TATACAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.19
21 6 0.23
22 8 0.31
23 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAAATATATTTATATATTT
Found at i:11788817 original size:19 final size:19
Alignment explanation
Indices: 11788776--11788825 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11788766 TTGCAAAAAG
**
11788776 AAATTCAAAATGATTTTTG
1 AAATTCAAAATGATTTTAA
11788795 AAATTCAAAAT-ATTTATAA
1 AAATTCAAAATGATTT-TAA
11788814 AAATTTCAAAAT
1 AAA-TTCAAAAT
11788826 TTATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (19 bp):
AAATTCAAAATGATTTTAA
Found at i:11788860 original size:20 final size:21
Alignment explanation
Indices: 11788835--11788873 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11788825 TTTATATTTT
11788835 TAAAAA-A-ATTATAAAAAATC
1 TAAAAATATATTA-AAAAAATC
11788855 TAAAAATATATTAAAAAAA
1 TAAAAATATATTAAAAAAA
11788874 GGTTAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAAATATATTAAAAAAATC
Found at i:11791497 original size:6 final size:6
Alignment explanation
Indices: 11791486--11791511 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11791476 CCTGTGTCCG
11791486 TGCCCA TGCCCA TGCCCA TGCCCA TG
1 TGCCCA TGCCCA TGCCCA TGCCCA TG
11791512 TCTCAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.46, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCCCA
Found at i:11797740 original size:5 final size:5
Alignment explanation
Indices: 11797730--11797764 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
11797720 TTATATATTT
11797730 TTTTA TTTTA TTTTA TTTTA TTTTCA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTT
11797765 TCCTAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11809874 original size:29 final size:31
Alignment explanation
Indices: 11809811--11809875 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
11809801 ATATGTTGCT
* *
11809811 AGTCCCTATACTTTGAAAAAATTCAAGATTT
1 AGTCCCTATACTTTGAAAAAATTCAAAATTA
*
11809842 AGTCCCTATAC-TT-AAAAAGTT-AGAAATTA
1 AGTCCCTATACTTTGAAAAAATTCA-AAATTA
11809871 AGTCC
1 AGTCC
11809876 TCCAAGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 16 0.53
30 2 0.07
31 11 0.37
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (31 bp):
AGTCCCTATACTTTGAAAAAATTCAAAATTA
Found at i:11818258 original size:21 final size:21
Alignment explanation
Indices: 11818232--11818273 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11818222 ACAATCCTAT
*
11818232 TTAAGCTTTTAGACAAGTGGC
1 TTAAGCTTTGAGACAAGTGGC
11818253 TTAAGCTTTGAGACAAGTGGC
1 TTAAGCTTTGAGACAAGTGGC
11818274 CTTTGTCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (21 bp):
TTAAGCTTTGAGACAAGTGGC
Found at i:11820378 original size:87 final size:86
Alignment explanation
Indices: 11820232--11820395 Score: 238
Period size: 87 Copynumber: 1.9 Consensus size: 86
11820222 TTTAAGTTCG
* * * *
11820232 GTGAATTCATCAAGTTAGTATCAATAGGACCACCCAAACTTTGGGATATTAACTGATTAAGAGTA
1 GTGAATTCATAAAGTTAGTATCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGAGTA
*
11820297 AGAAACTTAACTTCACATGTCA
66 AG-AACTCAACTTCACATGTCA
* * * *
11820319 GTGAATTCATAAAGTTTGTCTCAATAGGATCACCCAAACTCTGGGATATGAATTCATTAAGAGTA
1 GTGAATTCATAAAGTTAGTATCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGAGTA
11820384 AGAACTCAACTT
66 AGAACTCAACTT
11820396 TATGCATGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 9 0.13
87 59 0.87
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (86 bp):
GTGAATTCATAAAGTTAGTATCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGAGTA
AGAACTCAACTTCACATGTCA
Found at i:11820416 original size:30 final size:30
Alignment explanation
Indices: 11820382--11820442 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11820372 TCATTAAGAG
11820382 TAAGAACTCAACTTTATGCATGTAAATCAT
1 TAAGAACTCAACTTTATGCATGTAAATCAT
11820412 TAAGAACTCAACTTTATGCATGTAAATCAT
1 TAAGAACTCAACTTTATGCATGTAAATCAT
11820442 T
1 T
11820443 TGCCATAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (30 bp):
TAAGAACTCAACTTTATGCATGTAAATCAT
Found at i:11821648 original size:30 final size:30
Alignment explanation
Indices: 11821612--11821672 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11821602 GCTTTGGAGC
11821612 TTGTTTGAGACAATAGAAAGATTTTTTTAG
1 TTGTTTGAGACAATAGAAAGATTTTTTTAG
11821642 TTGTTTGAGACAATAGAAAGATTTTTTTAG
1 TTGTTTGAGACAATAGAAAGATTTTTTTAG
11821672 T
1 T
11821673 CTGCAAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (30 bp):
TTGTTTGAGACAATAGAAAGATTTTTTTAG
Found at i:11827840 original size:28 final size:27
Alignment explanation
Indices: 11827797--11827852 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 27
11827787 TTCTGATCAA
11827797 ATTATATATAAA-TTTTGATTTAATAT
1 ATTATATATAAATTTTTGATTTAATAT
11827823 ATTATATGATAAAATTTTTTGATTTAATAT
1 ATTATAT-AT-AAA-TTTTTGATTTAATAT
11827853 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 7 0.27
27 2 0.08
28 3 0.12
30 14 0.54
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (27 bp):
ATTATATATAAATTTTTGATTTAATAT
Found at i:11834266 original size:14 final size:15
Alignment explanation
Indices: 11834242--11834286 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11834232 GTTTTTTTGA
11834242 ATTTTTATT-AATCTT
1 ATTTTTATTAAAT-TT
11834257 ATTTTT-TTAAATTT
1 ATTTTTATTAAATTT
*
11834271 ATTTTTATAAAATTT
1 ATTTTTATTAAATTT
11834286 A
1 A
11834287 AATTATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTTATTAAATTT
Found at i:11838929 original size:25 final size:24
Alignment explanation
Indices: 11838901--11838969 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 24
11838891 AGAATACGTG
11838901 GTTGTCGCTTACAAATTGTAATATT
1 GTTGT-GCTTACAAATTGTAATATT
* ****
11838926 GTTGT--TCATGTTTTGTAATATT
1 GTTGTGCTTACAAATTGTAATATT
11838948 GTTGTTGCTTACAAATTGTAAT
1 GTTG-TGCTTACAAATTGTAAT
11838970 GGGAGAATAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
22 16 0.52
23 1 0.03
25 14 0.45
ACGTcount: A:0.25, C:0.09, G:0.17, T:0.49
Consensus pattern (24 bp):
GTTGTGCTTACAAATTGTAATATT
Found at i:11839649 original size:21 final size:21
Alignment explanation
Indices: 11839604--11839682 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
11839594 CAGTTTGTAA
* * * *
11839604 CTGAGTGGGGGTAGCTTCCTA
1 CTGAGTTGGGGTAGCCTCTTG
11839625 CTGAGTTGGGGTA-CTCTCTTG
1 CTGAGTTGGGGTAGC-CTCTTG
* *
11839646 CTGATTTGGGGTAGCCTGTTG
1 CTGAGTTGGGGTAGCCTCTTG
*
11839667 TTGAGTTGGGGTAGCC
1 CTGAGTTGGGGTAGCC
11839683 ACTTAGTTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.38, T:0.34
Consensus pattern (21 bp):
CTGAGTTGGGGTAGCCTCTTG
Found at i:11841378 original size:15 final size:15
Alignment explanation
Indices: 11841346--11841400 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
11841336 TTATCCCATT
**
11841346 AGACACATCACTTTC
1 AGACACATCACTAAC
*
11841361 AGATACATCACTAAC
1 AGACACATCACTAAC
* *
11841376 AGACACATCATTACC
1 AGACACATCACTAAC
*
11841391 AAACACATCA
1 AGACACATCA
11841401 AAATTAGACA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.20
Consensus pattern (15 bp):
AGACACATCACTAAC
Found at i:11841992 original size:16 final size:16
Alignment explanation
Indices: 11841951--11841994 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
11841941 AAATAGAAAT
11841951 AATCCAAAATAAACCTA
1 AATCCAAAA-AAACCTA
** *
11841968 AATTGAAAAAACCCTA
1 AATCCAAAAAAACCTA
11841984 AATCCAAAAAA
1 AATCCAAAAAA
11841995 TAAAAAACTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.16
Consensus pattern (16 bp):
AATCCAAAAAAACCTA
Found at i:11842388 original size:21 final size:21
Alignment explanation
Indices: 11842362--11842402 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11842352 CAATGTGGCA
11842362 AGTTAA-TTGGCCACATCAGCT
1 AGTTAACTT-GCCACATCAGCT
11842383 AGTTAACTTGCCACATCAGC
1 AGTTAACTTGCCACATCAGC
11842403 GATCCAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
AGTTAACTTGCCACATCAGCT
Found at i:11842502 original size:30 final size:31
Alignment explanation
Indices: 11842437--11842502 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
11842427 AATGTTAATC
**
11842437 AGTGATTGTTTTGTCACTTTTTGATAGCGTT
1 AGTGATTGTTTTGTCACTTTTTGATAAAGTT
* *
11842468 AGTGATTTTTTTGTCA-TTTTT-CTAAAGTT
1 AGTGATTGTTTTGTCACTTTTTGATAAAGTT
11842497 GAGTGA
1 -AGTGA
11842503 CTGTGAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 5 0.17
30 10 0.33
31 15 0.50
ACGTcount: A:0.20, C:0.08, G:0.21, T:0.52
Consensus pattern (31 bp):
AGTGATTGTTTTGTCACTTTTTGATAAAGTT
Found at i:11843141 original size:22 final size:22
Alignment explanation
Indices: 11843113--11843161 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11843103 TGTTTTGTTG
* * *
11843113 TTTTGCTATCATTTTGTTGCTA
1 TTTTGCTATCATATTGCTACTA
*
11843135 TTTTGCTATTATATTGCTACTA
1 TTTTGCTATCATATTGCTACTA
11843157 TTTTG
1 TTTTG
11843162 TTGTTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.59
Consensus pattern (22 bp):
TTTTGCTATCATATTGCTACTA
Found at i:11846673 original size:15 final size:16
Alignment explanation
Indices: 11846653--11846689 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11846643 CGGATTCAGA
11846653 TAATTT-TAAA-ATTT
1 TAATTTATAAATATTT
11846667 CTAATTTATAAATATTT
1 -TAATTTATAAATATTT
11846684 TAATTT
1 TAATTT
11846690 CAAATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 10 0.50
17 4 0.20
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTTATAAATATTT
Found at i:11846694 original size:15 final size:16
Alignment explanation
Indices: 11846653--11846696 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
11846643 CGGATTCAGA
11846653 TAATTTTAAA-ATTTC
1 TAATTTTAAATATTTC
11846668 TAATTTATAAATATTT-
1 TAATTT-TAAATATTTC
*
11846684 TAATTTCAAATAT
1 TAATTTTAAATAT
11846697 AATAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 12 0.46
16 10 0.38
17 4 0.15
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTTTAAATATTTC
Found at i:11847245 original size:20 final size:19
Alignment explanation
Indices: 11847212--11847262 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
11847202 TATTATAATC
* *
11847212 TATAATATAATAATAGTTA
1 TATAATATATTAATACTTA
11847231 TATATATATATTAATACTTA
1 TATA-ATATATTAATACTTA
*
11847251 TAAAATATATTA
1 TATAATATATTA
11847263 TTTCATTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TATAATATATTAATACTTA
Found at i:11856292 original size:7 final size:7
Alignment explanation
Indices: 11856268--11856308 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
11856258 AAGATGTTTG
11856268 TAGTAGT
1 TAGTAGT
11856275 TAGATTAGT
1 TAG--TAGT
*
11856284 TACTAGT
1 TAGTAGT
11856291 TAGTAGT
1 TAGTAGT
11856298 TAGTAGT
1 TAGTAGT
11856305 TAGT
1 TAGT
11856309 TGAACATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 24 0.80
9 6 0.20
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.44
Consensus pattern (7 bp):
TAGTAGT
Found at i:11858939 original size:28 final size:27
Alignment explanation
Indices: 11858902--11858961 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
11858892 ATAACTTGTA
* *
11858902 ATAATTATTAATAATATTATTTAAATT
1 ATAATTATTAATAATAATATTTAAATC
* *
11858929 ATAATATATTAATATTAATATTTGAATC
1 ATAAT-TATTAATAATAATATTTAAATC
11858957 ATAAT
1 ATAAT
11858962 GAATTTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATAATTATTAATAATAATATTTAAATC
Found at i:11860854 original size:19 final size:19
Alignment explanation
Indices: 11860822--11860859 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11860812 GATTGTACTA
*
11860822 GTCAACATGCATCAGACAT
1 GTCAAAATGCATCAGACAT
*
11860841 GTCAAAATGTATCAGACAT
1 GTCAAAATGCATCAGACAT
11860860 AAGTGGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (19 bp):
GTCAAAATGCATCAGACAT
Found at i:11869471 original size:50 final size:50
Alignment explanation
Indices: 11869355--11869595 Score: 268
Period size: 50 Copynumber: 4.7 Consensus size: 50
11869345 AATAATAACA
* * ** * *
11869355 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
11869406 TGCTC-ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
11869456 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
11869506 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* * * *
11869561 ATGCCAATGTCATGTCTCAAACATGGTCTTACATG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATG
11869596 AGATCTCTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
49 1 0.01
50 94 0.57
51 32 0.19
52 1 0.01
53 4 0.02
55 2 0.01
56 31 0.19
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11899763 original size:56 final size:52
Alignment explanation
Indices: 11899675--11899915 Score: 271
Period size: 50 Copynumber: 4.7 Consensus size: 52
11899665 AAAGAGATCT
* * *
11899675 CATGTAAGACCATGTTTGAGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAGA-CATGAGAGGTCC
*
11899731 CATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAC--GAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATGAGAGGTCC
*
11899781 CATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAG--ATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATGAGAGGTCC
* * * **
11899831 CCTGTAAGACCATGTCTGGGACATGGC-ATGAGCA-C-TGACATGAGAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTG-GCACCGAGACATGAG-AGGTCC
* *
11899882 CATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA
11899916 TGTTATTATT
Statistics
Matches: 165, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
48 1 0.01
49 2 0.01
50 89 0.54
51 32 0.19
52 3 0.02
53 4 0.02
55 2 0.01
56 32 0.19
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (52 bp):
CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATGAGAGGTCC
Found at i:11904555 original size:18 final size:19
Alignment explanation
Indices: 11904508--11904555 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
11904498 AAAATAATTT
11904508 TAAAA-AATTA-AAGTTAA
1 TAAAATAATTATAAGTTAA
11904525 TAAAAT--TTAATAAGTTAA
1 TAAAATAATT-ATAAGTTAA
11904543 -AAAATAATTATAA
1 TAAAATAATTATAA
11904556 AAGAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 11 0.42
19 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAATAATTATAAGTTAA
Found at i:11912403 original size:22 final size:21
Alignment explanation
Indices: 11912378--11912422 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11912368 TTATTTTTTT
11912378 TATTCTCAAATTTCTTCT-TTAC
1 TATTCTC-AATTTCTT-TATTAC
*
11912400 TATTTTCAATTTCTTTATTAC
1 TATTCTCAATTTCTTTATTAC
11912421 TA
1 TA
11912423 AATTTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 14 0.67
22 6 0.29
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTCTCAATTTCTTTATTAC
Found at i:11919987 original size:21 final size:19
Alignment explanation
Indices: 11919954--11920006 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
11919944 CATATCTTCT
11919954 AAGATTGCATATCATATCC
1 AAGATTGCATATCATATCC
*
11919973 AAGATTGTACATATCATATCT
1 AAGATTG--CATATCATATCC
11919994 AAGATTGCATATC
1 AAGATTGCATATC
11920007 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (19 bp):
AAGATTGCATATCATATCC
Found at i:11920873 original size:88 final size:88
Alignment explanation
Indices: 11920779--11921535 Score: 878
Period size: 88 Copynumber: 8.6 Consensus size: 88
11920769 ATTTGTAATC
* * * * * * * *
11920779 TTTAACCTGCTCCACTGCCACCGAGAGAGGCCAGGCTAGTGTCTTCGATCTGTTTCAG-TGTCAG
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-GCTGTCGG
* * * *
11920843 TACAGAAAGGCAATATCTGCTATC
65 TGCAGGAAGGCAAGATCTGCTATT
* * * * * * * *
11920867 TTTAACCTGCTTCGCTGCCACCGAGGGAGGCAAGGTTAGTGTCTTCGATCTACTCCGCT-AC--T
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
** *
11920929 GCTTAGGGAA-ATAAGATTTG-TAATT
66 GC--A-GGAAGGCAAGATCTGCT-ATT
* * * ** * ** * * * *
11920954 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGAGTCTTTGATCTGCTTCGCTGTCAGT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
11921019 GCAGGAAGGCAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* * * *
11921042 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCCGC
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
11921107 GCAGGAAGGCAAGATCTACTATT
66 GCAGGAAGGCAAGATCTGCTATT
* * * *
11921130 TTTAACCTGCTCCGCTGCAACCCAGGGATGTAAGGCTGGTGTCTTCGATCTGGTTCGCTGTCGGC
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
11921195 GCAGAAAGGCAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* * *
11921218 TTTAACCTGCTCCGCTGTAACCCAGAGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
11921283 GTAGGAAGGCAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* *
11921306 TTTATCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGC
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
11921371 GCAGGAAGGTAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* *
11921394 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGAT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
11921459 GCAGGAAGGCAAGATCTGCTATC
66 GCAGGAAGGCAAGATCTGCTATT
* * * * * *
11921482 TTCAACCTACTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
11921536 CTCCGAGGAA
Statistics
Matches: 575, Mismatches: 84, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
85 2 0.00
86 1 0.00
87 59 0.10
88 509 0.89
89 1 0.00
90 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (88 bp):
TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
GCAGGAAGGCAAGATCTGCTATT
Found at i:11926958 original size:51 final size:50
Alignment explanation
Indices: 11926863--11926980 Score: 116
Period size: 51 Copynumber: 2.3 Consensus size: 50
11926853 TTATAAAACT
** *
11926863 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATA-AATA
1 TATA-ATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATATATAA-A
* * * *
11926914 TATACATATAAAATATATTCATGCATTTACAAAAAAAATG-AAATATATAAG
1 TATA-ATATAAAATACA-TAATGCATTTACAAAAAAAAGGAAAATATATAAA
11926965 TATAATATAAAA-ACAT
1 TATAATATAAAATACAT
11926981 GAAAAATATT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
48 1 0.02
49 2 0.04
50 8 0.14
51 26 0.46
52 19 0.34
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.31
Consensus pattern (50 bp):
TATAATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATATATAAA
Found at i:11927244 original size:3 final size:3
Alignment explanation
Indices: 11927236--11927275 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
11927226 ATATGTAGGT
11927236 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
11927276 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Done.